Inverted Repeats Finder Program written by: Gary Benson Department of Biomathematical Sciences Mount Sinai School of Medicine Version 3.05 Sequence: chr21 Parameters: 2 3 5 80 10 40 100000 500000 -d Length: 46944323 ACGTcount: A:0.22, C:0.15, G:0.15, T:0.21, N:0.27 File 26 of 259 Found at i: 17840044 center: 35672993 interval size: 300 g: 3 Alignment explanation
Indices: 17832724--17833026,17839966--17840256 Loop: 6939 Score: 148 Left Length: 303 Right Length: 291 Average length: 297.0 3 most common centers (desc): 35672980 35672991 35672993 17832714 >> (LF) GCTGGATGCA 17840266 << (RF) CGGTCCGTGC 17832724 >> GTGACCCATGCCTGTAATTCCAGCACTTTGGGAGGCTGAGGTGGGAGGATTACTTGAGCCCTGGAGTTCAAGACC >> 17832798 17840256 << ***C*A**G*********G******T**GT******GT****T**A*T**G*AG***TCA*T*******C***** << 17840182 17832799 >> AGCTTGGGCAACATAACGAGACTGCAACTCCACTGGGAAAATAAAAATAAAAATAAAATTAG-TGGGCATGGTGG >> 17832872 17840181 << ***G**TG******---*-*--**T***G***-*GAGA*G-**C*****G***-*---**C*G****A******* << 17840119 17832873 >> CACATACCTGTAGTCCCAGCTCCTTGGGAGGCTGAGGCAGGAGAGGATCCCTTGAGCCCAGGGGTTTGAGGCCAC >> 17832947 17840118 << *****CT**T**T********T******************T***TG-*C*-****T**AC**T*CGC****AAC* << 17840046 17832948 >> AGTGAGCCTTGGTTGTGCCACAGCACTTCAGCCTGGGCAACAG-AGTGAGACCCTGTTTCAAAAAAATAGATAAA >> 17833021 17840045 << ********CTGT********AA***A*G************A*TG*****T**A****G*********T*T*T*** << 17839971 17833022 >> TAAAA >> 17833026 17839970 << G**** << 17839966 Statistics Matches: 219 (71.80%), Mismatches: 70 (22.95%), Indels: 16 (5.25%) ATpairs: 51.14%, CGpairs: 48.86%, GTpairs: 0.00% :i = 17840044 tupleindex: 3 intervalindex: 1 matches_in_interval: 107.0000 lowcenter: 35672969 highcenter: 35673017 testcenter: 35672993 im3: 27.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17840238 center: 35670181 interval size: 300 g: 3 Alignment explanation
Indices: 17829919--17830210,17839972--17840262 Loop: 9761 Score: 216 Left Length: 292 Right Length: 291 Average length: 291.5 3 most common centers (desc): 35670181 35670183 35670182 17829909 >> (LF) TTATTGGCTG 17840272 << (RF) ACATGTCGGT 17829919 >> GGCACGTTGGCTTACACCTGTACTCCCAGCATTTTGATAGCCCCAGGCAGGTGGATCGCCTGAGTTCGGGAGTTC >> 17829993 17840262 << ******C*****G**C******T********T**GTCC**C**T***A*****T***TA****TC**T******* << 17840188 17829994 >> AAGACCAGCCTGAATAACACAGTGAGACCCCATCTCTACAAAAAAATACAAAAATTAGTGGGGCATGGTGGCG-- >> 17830068 17840187 << C************GG****AC****T*************A*C***-*******-**C*GA***A********TGT << 17840115 17830067 >> TGCACCTGTAGTCCCAGCTACTCGAGAGGCTAAGGTGGGAGGATGGCTTGAGCCCAGCAGGTGGAGGCTGCAGTG >> 17830141 17840114 << **-**-*T**T***********A*C******C***GT*T**T*GA******T**AC*C***G*****A******* << 17840042 17830142 >> AGCCAAGATTGTGTCACTGCACTCTAGCCTGGGTGACAG-AGCCAGACTCTGCCTCCAAAATAAAGAAAA >> 17830210 17840041 << ****C*G******G**A****A**G********GT*A*TG**AC*T******A***T****T***T**** << 17839972 Statistics Matches: 223 (75.59%), Mismatches: 65 (22.03%), Indels: 7 (2.37%) ATpairs: 48.88%, CGpairs: 51.12%, GTpairs: 0.00% :i = 17840238 tupleindex: 3 intervalindex: 1 matches_in_interval: 115.0000 lowcenter: 35670157 highcenter: 35670205 testcenter: 35670181 im3: 39.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17844398 center: 35676752 interval size: 300 g: 3 Alignment explanation
Indices: 17832189--17832491,17844261--17844559 Loop: 11769 Score: 326 Left Length: 303 Right Length: 299 Average length: 301.0 3 most common centers (desc): 35676751 35676752 35676748 17832179 >> (LF) AAGAGGAGGT 17844569 << (RF) GGGTGGTTTC 17832189 >> ATCTTTTTTTTTTTCTTTTTAAGATGGAGTCTCTCTCTGTTGCCCAGGCTGGAGTGCAGTGGTGCGACCTCGGCT >> 17832263 17844559 << **************-*****C***G--*****ACA***T*G********T*****************A**A**** << 17844488 17832264 >> CACTGCAACCTCCACCTCCCGGGTTCAAGCCATTCTCCTGCTTCAGCCTCCTGAGCAGCTGAGACCGTAGGCATG >> 17832338 17844487 << **T****************A*****T****C**********G*********G***C*****C***ATG*T*ACGG << 17844413 17832339 >> TGCCACCACGTCCGGCTAATTTTTATATTTT-AGTAGAGATGGGGTTTCACCGTGTTAGCCAGGATGGTCTCAGA >> 17832412 17844412 << GT**********A*-*********C******A********GT**********TGT**C***A**A*******-** << 17844340 17832413 >> TCTCCTGACCTCGTGATCCGCCTGCCTTGGCCTCCCACAGTGCTGGGATTACAGGTGTGAGCCACCGCGCCCAGC >> 17832487 17844339 << T**********A***************G*********T**********G******GT*****A****A******* << 17844265 17832488 >> AAGA >> 17832491 17844264 << A*** << 17844261 Statistics Matches: 250 (82.24%), Mismatches: 48 (15.79%), Indels: 6 (1.97%) ATpairs: 46.00%, CGpairs: 54.00%, GTpairs: 0.00% :i = 17844398 tupleindex: 3 intervalindex: 1 matches_in_interval: 96.0000 lowcenter: 35676728 highcenter: 35676776 testcenter: 35676752 im3: 60.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17844442 center: 35684529 interval size: 300 g: 3 Alignment explanation
Indices: 17839971--17840262,17844269--17844555 Loop: 4006 Score: 251 Left Length: 292 Right Length: 287 Average length: 289.5 3 most common centers (desc): 35684529 35684531 35684526 17839961 >> (LF) GTTTTTTTTG 17844565 << (RF) GGTTTCTAGA 17839971 >> TTTTTTTTTTTTTTTGAGACAGAGTTTCACTGTTATTGCCCAGGCTGGAATGCAATGGCACAATGTCGGCTCACT >> 17840045 17844555 << **********************AG**CAA**---**G********T***C****C***AC*C**G*A******T* << 17844484 17840046 >> GCAACCTCCGCCTCCCAGGTTCAAGCAGTTCTTCTGCCTCAGCCTCCCAAGTAGCTGGGATTATAGTCATGTGCC >> 17840120 17844483 << *********T*****AC****T****CT****G***************C**C********G**G*---*-***** << 17844413 17840122 >> -ACCAT-ACC-CAGCCAATTTT-GTATTTCTAGTAGAGATGGGGTTTCACCATGTTGGTCAGGCTGGTCTCGAAC >> 17840191 17844412 << G****GG**CA*A**A******A******A*********GT***********GT****G*A**A*********** << 17844338 17840192 >> TCCTGACTTCAGATGATTCACCTACCTTGGCCTCCTGAATTGCTGGGATTACAGGCGTGAGCCACCGTGCC >> 17840262 17844337 << *******G*A-*-****G*C***C***G*******GT**C********G*******T*****A******** << 17844269 Statistics Matches: 233 (78.72%), Mismatches: 50 (16.89%), Indels: 13 (4.39%) ATpairs: 48.07%, CGpairs: 51.93%, GTpairs: 0.00% :i = 17844442 tupleindex: 3 intervalindex: 1 matches_in_interval: 100.0000 lowcenter: 35684505 highcenter: 35684553 testcenter: 35684529 im3: 63.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17844454 center: 35675506 interval size: 300 g: 3 Alignment explanation
Indices: 17830950--17831268,17844243--17844554 Loop: 12974 Score: 327 Left Length: 319 Right Length: 312 Average length: 315.5 3 most common centers (desc): 35675506 35675510 35675508 17830940 >> (LF) GCATTATTTA 17844564 << (RF) GTTTCTAGAA 17830950 >> TTTTTTTTCTTTTTGAGACAGTGTCTCACTCTGTCTCCTAGGCTGAAGTGCAGTGGTGTGATCTCAGCTCACTGC >> 17831024 17844554 << ********A*************G*-*CA-***T**C**G****T*C************G*****AC*****T*** << 17844482 17831025 >> AACCTCTGCCTCCCTGGTTCAAGCAATTCTCCTGCCTCAGCCTCCCAAGTAACTGGGACTACAGGCGCCCACCAC >> 17831099 17844481 << ******GT*****AC****T****C*********************C**C*C***********T*A********* << 17844407 17831100 >> CATGCCCAGCTAATTTTTTGTATTTTTAATAGAGACGCGGTTTCACCATGTTGGCCAGGCTGGTCTCAAACTCTT >> 17831174 17844406 << **G*A*A-**********-*********C*******TC**********GT******A**A*******C*****G* << 17844334 17831175 >> GACCTCAAATGATCCGCCCGTCTCAGCCTCCCAAAGTGCTGGGATTACAGGCATGAGCCACCATGCCCAACCTAA >> 17831249 17844333 << *****AC--*********A*G***C*******************G*************A***C******C*-**C << 17844262 17831250 >> AATGTATT-TTGATAAATGA >> 17831268 17844261 << *-*G*A**T**A***A**** << 17844243 Statistics Matches: 261 (81.56%), Mismatches: 50 (15.63%), Indels: 9 (2.81%) ATpairs: 50.19%, CGpairs: 49.81%, GTpairs: 0.00% :i = 17844454 tupleindex: 3 intervalindex: 1 matches_in_interval: 137.0000 lowcenter: 35675482 highcenter: 35675530 testcenter: 35675506 im3: 41.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17844496 center: 35684176 interval size: 300 g: 3 Alignment explanation
Indices: 17839620--17839827,17844355--17844554 Loop: 4527 Score: 200 Left Length: 208 Right Length: 200 Average length: 204.0 3 most common centers (desc): 35684176 35684182 35684174 17839610 >> (LF) TTGCATTTAA 17844564 << (RF) GTTTCTAGAA 17839620 >> TTTTTTAATTTTTTGAGACAGAGTCTTGCTTTGTCACCCAGGCTGGAGGGCAGTGGCACGATCTTGGCTCACTGC >> 17839694 17844554 << ******AA*************--*****A*G*T**C*******T****A*******AC*************T*** << 17844482 17839695 >> AGCCTCTACCTCCCAAGTTCAAGCGATCCTCCTGCCTCAGCCTCCTGAGTAGCTGGGATTACAGGTGCACACCAC >> 17839769 17844481 << *T****G******ACC***T*******A*****************G***C********G****T****G****** << 17844407 17839770 >> CACACCCAGCTAGGCTAACTTTTGTATTTTTGGTAAAGATGGGGTTTCACCATGTTGG >> 17839827 17844406 << ***CA*----*-*-****A************T***C***GT***********GT**** << 17844355 Statistics Matches: 168 (80.77%), Mismatches: 32 (15.38%), Indels: 8 (3.85%) ATpairs: 50.00%, CGpairs: 50.00%, GTpairs: 0.00% :i = 17844496 tupleindex: 3 intervalindex: 1 matches_in_interval: 96.0000 lowcenter: 35684152 highcenter: 35684200 testcenter: 35684176 im3: 52.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17845475 center: 35677797 interval size: 300 g: 3 Alignment explanation
Indices: 17832194--17832478,17845317--17845596 Loop: 12838 Score: 289 Left Length: 285 Right Length: 280 Average length: 282.5 3 most common centers (desc): 35677797 35677790 35677795 17832184 >> (LF) GAGGTATCTT 17845606 << (RF) AAAGAAAAGG 17832194 >> TTTTTTTTTCTTTTTAAGATGGAGTCTCTCTCTGTTGCCCAGGCTGGAGTGCAGTGGTGCGACCTCGGCTCACTG >> 17832268 17845596 << ****G**********C**C********C*C*****C*****************T*****T**A********-*-- << 17845525 17832269 >> CAACCTCCACCTCCCGGGTTCAAGCCATTCTCCTGCTTCAGCCTCCTGAGCAGCTGAGACCGTAGGCATGTGCCA >> 17832343 17845524 << *----********************T******AG**G**A******GG**A*********AAG*****G****** << 17845454 17832344 >> CCACGTCCGGCTAATTTTTATATTTT-AGTAGAGATGGGGTTTCACCGTGTTAGCCAGGATGGTCTCAGATCTCC >> 17832417 17845453 << ****TC**T**********C******A******G*T***T*******TG***C******G*******-**T**A* << 17845380 17832418 >> TGACCTC-GTG-ATCCGCCTGCCTTGGCCTCCCACAGTGCTGGGATTACAGGTGTGAGCCACC >> 17832478 17845379 << *******T*C*C****T**G********A*****T*******A*****A*********A**** << 17845317 Statistics Matches: 235 (81.60%), Mismatches: 42 (14.58%), Indels: 11 (3.82%) ATpairs: 45.53%, CGpairs: 54.47%, GTpairs: 0.00% :i = 17845475 tupleindex: 3 intervalindex: 1 matches_in_interval: 97.0000 lowcenter: 35677773 highcenter: 35677821 testcenter: 35677797 im3: 35.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17847320 center: 35692718 interval size: 300 g: 3 Alignment explanation
Indices: 17845332--17845584,17847127--17847386 Loop: 1542 Score: 237 Left Length: 253 Right Length: 260 Average length: 256.5 3 most common centers (desc): 35692718 35692711 35692717 17845322 >> (LF) CTCACACCTA 17847396 << (RF) TCATAAGAAC 17845332 >> TAATCACAGCACTTTGGGAAGCCAAGGCGGGTGGATCCCCTGAGGTCAGAAGTTCGAGACCAGCCTGGCCAACGT >> 17845406 17847386 << *****A*******G****AC***C***A*********T***********C****A******************T* << 17847312 17845407 >> GGTGAAATCCCT-TGTCTACTAAAAATACAAAAATTAGCT-GGCTGTGGTGGCACGTGCCTGAAGTCTCAGCTAC >> 17845479 17847311 << *******-*T**C*A*********G**************GT***-*******AC*T******A*T**G******* << 17847239 17845480 >> TGGGGAGGCAGAGGCGAGAGAATTGCTTGAACCCGGGA-G--GTGGA-G--G-GAGCCGAGATCTCACCATTGCA >> 17845547 17847238 << *A*******A*****T*******GT********A****T*GT*T**GA*AT*A****T*****ACAC***G**** << 17847164 17845548 >> CTCCAGCCTGGGCCACAGACACAGACTCCACCTCAAA >> 17845584 17847163 << ***A********AT*****CACA*******A****** << 17847127 Statistics Matches: 209 (79.77%), Mismatches: 42 (16.03%), Indels: 11 (4.20%) ATpairs: 44.02%, CGpairs: 55.98%, GTpairs: 0.00% :i = 17847320 tupleindex: 3 intervalindex: 1 matches_in_interval: 97.0000 lowcenter: 35692694 highcenter: 35692742 testcenter: 35692718 im3: 75.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17847869 center: 35692371 interval size: 300 g: 3 Alignment explanation
Indices: 17844263--17844556,17847813--17848106 Loop: 3256 Score: 305 Left Length: 294 Right Length: 294 Average length: 294.0 3 most common centers (desc): 35692369 35692371 35692370 17844253 >> (LF) ATAAAAGATC 17848116 << (RF) AGTCTGGTCC 17844263 >> TAGCTGGGCACGGTAGCTCATGCCTGTAGTCCCAGCACTTTGGGAGGCCGAGGCAGGCGGATCACAAGGTCAGGA >> 17844337 17848106 << ********AC****C*****GT******T********************T********T******C*****A*** << 17848032 17844338 >> GTTCGAGACCAACCAGGCCAATGTGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGC-AGACGTGGTGGT >> 17844411 17848031 << *T*A*******A**A***A**GT***********G********G*******-***--*G***G**CA*******G << 17847960 17844412 >> GGGCACTTGTAGTCCCAGCTCCTCGGGA-GGCTGAGGCAGGAGAATCGCTTTAACCCAGGAGGTGGAGGTTGCAT >> 17844485 17847959 << ******G**********T**TT**T***G***T-**T**T***A**A****C***********G*********GC << 17847886 17844486 >> TGAGCCAAGATCGCACCACTGCACTCCTGCCTGGGCGATAGAACAAGACT-G-TCTCAAAAAAAAAAAAAAAA >> 17844556 17847885 << ******C*****TAC************T*******A**G***C*C*****A*C*********C********** << 17847813 Statistics Matches: 243 (81.54%), Mismatches: 47 (15.77%), Indels: 8 (2.68%) ATpairs: 45.27%, CGpairs: 54.73%, GTpairs: 0.00% :i = 17847869 tupleindex: 3 intervalindex: 1 matches_in_interval: 299.0000 lowcenter: 35692347 highcenter: 35692395 testcenter: 35692371 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17847997 center: 35683565 interval size: 300 g: 3 Alignment explanation
Indices: 17835461--17835756,17847819--17848104 Loop: 12062 Score: 290 Left Length: 296 Right Length: 286 Average length: 291.0 3 most common centers (desc): 35683565 35683575 35683574 17835451 >> (LF) CTATGTTCCG 17848114 << (RF) TCTGGTCCAT 17835461 >> GCTGGGCGCGGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCGGGCGGATCACGAGGTCAGGAGA >> 17835535 17848104 << ******A************T***************************T****T***T************A***** << 17848030 17835536 >> TCAAGACCATCCTGGCTAACACGGCGAAACCCCGTCTCTACTAAAAATACAAAAAAAAAAATTAGCCGGACGTGG >> 17835610 17848029 << *AC******************A**A****************G*******-***--------*G****T*CA**** << 17847964 17835611 >> TGGTGGGCACCTGTAGTCCCAGCTACCCGGGA-GGCTTGAGGCAGGAGAATGGCGTGAACCTGGGAGACGGAGCT >> 17835684 17847963 << ***G*****************T***TA*T***G***TT**--**T***A**A**A******GT****C*****C* << 17847891 17835685 >> TGCAGTGAGCCAAGATCGCGCCACTACATTCCAGCCCAGGCGTCAGAGCAAGACTCTGTCTCAAAAAAAAAA >> 17835756 17847890 << ***G*******C*****TA******C**G*******AC**A*T******C*****AC**********C**** << 17847819 Statistics Matches: 241 (81.14%), Mismatches: 44 (14.81%), Indels: 12 (4.04%) ATpairs: 41.91%, CGpairs: 58.09%, GTpairs: 0.00% :i = 17847997 tupleindex: 3 intervalindex: 1 matches_in_interval: 226.0000 lowcenter: 35683541 highcenter: 35683589 testcenter: 35683565 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17853601 center: 35697935 interval size: 300 g: 3 Alignment explanation
Indices: 17844278--17844500,17853429--17853659 Loop: 8928 Score: 142 Left Length: 223 Right Length: 231 Average length: 227.0 3 most common centers (desc): 35697929 35697937 35697935 17844268 >> (LF) GGGCACGGTA 17853669 << (RF) TGTACGGACC 17844278 >> GCTCATGCCTGTAGTCCCAGCACTTTGGGAGGCCGAGGCAGGCGGA-TCACA-AGGTCAGGAGTTCGAGACCAAC >> 17844350 17853659 << *************T********************T***T*T*T***G**GAAC**GG********A*******C* << 17853585 17844352 >> -CAGGCCAATGTGGTGAAACCCTGTCTCTACTAAA-----AATACAAAAATTAGCAGAC-GTGGTGGTGGGCACT >> 17844418 17853584 << T*****-**G*GT*C**C*A***********TG*AAAAAA**T*T************CCA***T***GTA****G << 17853511 17844419 >> TGTAGTCCCAGCTC-CTCGGGAGGCTGAGGCAGGAGAATCGCTTTAACCCAGGAGGTGGAGGTTGCATTGAGCCA >> 17844492 17853510 << ******A******TT**-************AC****C**CT***C*C**A*******A**T*G*A**C******C << 17853437 17844493 >> AGATCGCA >> 17844500 17853436 << A***A*** << 17853429 Statistics Matches: 173 (74.25%), Mismatches: 48 (20.60%), Indels: 12 (5.15%) ATpairs: 45.09%, CGpairs: 54.91%, GTpairs: 0.00% :i = 17853601 tupleindex: 3 intervalindex: 1 matches_in_interval: 99.0000 lowcenter: 35697911 highcenter: 35697959 testcenter: 35697935 im3: 33.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17853959 center: 35698428 interval size: 300 g: 3 Alignment explanation
Indices: 17844299--17844556,17853867--17854132 Loop: 9310 Score: 162 Left Length: 258 Right Length: 266 Average length: 262.0 3 most common centers (desc): 35698428 35698429 35698431 17844289 >> (LF) TAGTCCCAGC 17854142 << (RF) GGTGTGGATA 17844299 >> ACTTTGGGAGGCCGAGGCAGGCGGATCACAAG-GTC-AGGAGTTCGAGACCAACCAGGCCAATGTGGTGAAACCC >> 17844371 17854132 << ************A****AC**A***CTC*AA*T*G*G*******A*******CACA**C***GT**GT*****A* << 17854058 17844372 >> TGTCTCTACTAAAAATACAAAAATTAGCAGACGTGGTGGTGGG-CA--CTTGTAGTCCCAGCTCCTCGGGAGGCT >> 17844443 17854057 << GT*C*****T********************C-***-*****TGT**AC*G*******A*****T*********** << 17853985 17844444 >> GAGGCAGGAGAATCGCTTTAACCCAGGAGGTGGAGGTTGCATTGAGCCAAGATCGCACCACTGCACTCCT-GCCT >> 17844517 17853984 << **T*AC****CG**T***T*C**AC*******T**TG****CC*****C****AGA**********C**GT**** << 17853910 17844518 >> GGGCGATAGAACAAGAC---T-GTCTCAAAAAAAAAAAAAAAA >> 17844556 17853909 << ***A**G***C*C****GGG*A*****CC************** << 17853867 Statistics Matches: 198 (73.88%), Mismatches: 58 (21.64%), Indels: 12 (4.48%) ATpairs: 47.98%, CGpairs: 52.02%, GTpairs: 0.00% :i = 17853959 tupleindex: 3 intervalindex: 1 matches_in_interval: 372.0000 lowcenter: 35698404 highcenter: 35698452 testcenter: 35698428 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17854055 center: 35699474 interval size: 300 g: 3 Alignment explanation
Indices: 17845342--17845605,17853859--17854132 Loop: 8253 Score: 186 Left Length: 264 Right Length: 274 Average length: 269.0 3 most common centers (desc): 35699474 35699467 35699464 17845332 >> (LF) TAATCACAGC 17854142 << (RF) GGTGTGGATA 17845342 >> ACTTTGGGAAGCCAAGGCGGGTGGATCCCCTGAGGTCAGAAGTTCGAGACCAGCCTGGCCAACGTGGTGAAATCC >> 17845416 17854132 << *********C**AC***A*******CTC*A****GG***C****A********AC***C****T**GT****GA* << 17854058 17845417 >> CTTGTCTACTAAAAATACAAAAATTAGCTGGCTGTGGTGGCACGTGCCTGAAGTCTCAGCTACTGGGGAGGCAGA >> 17845491 17854057 << *T*******T******************T**C*******T***T******A*************G*******A** << 17853983 17845492 >> GGCGAGAGAATTGCTTGAACCCGGGAGGTG--GA--G--GG-AGCCGAGATCTC-ACCATTGCACTCC-AGCCTG >> 17845557 17853982 << T*A*C***CG*GT***T*C**A********TT**GA*GT**C*********-**A****G*****C**G****** << 17853909 17845558 >> GGCCACAGACACAGACTCCAC--CTCAAAAAGAAAAGAAAAGGAAAAGAA >> 17845605 17853908 << **AC*****CGC****G**AACA***CC***T****T****TT****T** << 17853859 Statistics Matches: 207 (75.27%), Mismatches: 56 (20.36%), Indels: 12 (4.36%) ATpairs: 48.31%, CGpairs: 51.69%, GTpairs: 0.00% :i = 17854055 tupleindex: 3 intervalindex: 1 matches_in_interval: 105.0000 lowcenter: 35699450 highcenter: 35699498 testcenter: 35699474 im3: 60.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17856732 center: 35702117 interval size: 300 g: 3 Alignment explanation
Indices: 17845378--17845566,17856544--17856739 Loop: 10977 Score: 136 Left Length: 189 Right Length: 196 Average length: 192.5 3 most common centers (desc): 35702117 35702110 35702116 17845368 >> (LF) CCCCTGAGGT 17856749 << (RF) GTTACGTCGG 17845378 >> CAGAAGTTCGAGACCAGCCTGGCCAACGTGGTGAAATCCCTTGTCTACTAAAAATACAAAAATTAG-CTGGCTGT >> 17845451 17856739 << ***C************G***A*C****T********G***T*G*****T**********C******A*T**-*** << 17856666 17845452 >> GGTGGCACGTGCCTGAAGTCTCAGCTACTGGGGAGGCAGAGGCGAGAGAATTGCTTGAACCC-GGG---AG-G-T >> 17845520 17856665 << ******AAT******A****G***T****G**T*T**A****A*C***C**GT*********T***CCG**T*C* << 17856591 17845521 >> GG-AGGGAGCCGAGATCTCACCATTGCACTCCAGCCTGGGCCACAGA >> 17845566 17856590 << A*G**A*C***TAT**ACA*A**G*G***************T***** << 17856544 Statistics Matches: 149 (75.63%), Mismatches: 39 (19.80%), Indels: 9 (4.57%) ATpairs: 45.64%, CGpairs: 54.36%, GTpairs: 0.00% :i = 17856732 tupleindex: 3 intervalindex: 1 matches_in_interval: 96.0000 lowcenter: 35702093 highcenter: 35702141 testcenter: 35702117 im3: 45.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17857959 center: 35705954 interval size: 300 g: 3 Alignment explanation
Indices: 17847808--17848108,17857846--17858150 Loop: 9737 Score: 360 Left Length: 301 Right Length: 305 Average length: 303.0 3 most common centers (desc): 35705958 35705954 35705957 17847798 >> (LF) GAATTCTTTT 17858160 << (RF) ATAGTTATGG 17847808 >> TTTTTTTTTTTTTTTCTTTTTGAGACCAAGTCTCGCTCTGTCACCCAGGCTGGAGTGCAGTGGCATGATCTCGGC >> 17847882 17858150 << ***************A**********TC*****A*******AC*********************C*******T** << 17858076 17847883 >> TCACGGCAACCTCCGCCTCCTGGGTTCAAGCAATACTCTTGTCTT-GCCGTCCTGATTAGTTGGGACTACAGGTG >> 17847956 17858075 << ****A****C****T*****G*******G**G**A******G**GT***-***G**C*C*G************G* << 17858002 17847957 >> CCCGCCACCACACCTGGCTGATTTT----ATTTTTGGTAGAGACGGGGTTTCACCATGTTAGCCAGGATGGTCTC >> 17848027 17858001 << ********AC****G****T*****AACA******T*******************C******************* << 17857927 17848028 >> AATCTCCAGACCTCGTGATCTGCCTGCCTTGGCCTCCCAAAGTGCTGGGATTACAGGTGTGAGCCACCGCACCCA >> 17848102 17857926 << A******A************GT**GTAT*G********A******************************AC***C << 17857852 17848103 >> GCTACC >> 17848108 17857851 << **G*** << 17857846 Statistics Matches: 258 (84.31%), Mismatches: 42 (13.73%), Indels: 6 (1.96%) ATpairs: 44.96%, CGpairs: 55.04%, GTpairs: 0.00% :i = 17857959 tupleindex: 3 intervalindex: 1 matches_in_interval: 96.0000 lowcenter: 35705930 highcenter: 35705978 testcenter: 35705954 im3: 82.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17858041 center: 35705259 interval size: 300 g: 3 Alignment explanation
Indices: 17847119--17847388,17857872--17858140 Loop: 10483 Score: 276 Left Length: 270 Right Length: 269 Average length: 269.5 3 most common centers (desc): 35705259 35705258 35705260 17847109 >> (LF) TAATTTAATA 17858150 << (RF) AAAAAAAAAA 17847119 >> TTATTTTATTTGAGATGGAGTCACACTCTGTTACCCAGGCTAGAGTGCAGTGGCACAATCTCTGCTCACTACAGC >> 17847193 17858140 << **A****A*******GT*****AAC*******C********C************CAC*****T*******C**TC << 17858066 17847194 >> CTCTGCTTCCCAGGTTCAAGTGATTCTCTTGCCTCAGCCTCCCAAGTAGCTGGGATTACAGGCATGCACCACCAC >> 17847268 17858065 << ***GT*G****C******G*GG*********************C***C*******G*******CGG*C****AC* << 17857991 17847269 >> GCCTGGCTAATTTTT-GTATGTTTAGTAGAAACAGTGTTTCACCATGTTGGCCAGGCTGGTCTCAAACTCCTGAC >> 17847342 17857990 << T**G***********A****A*********C**C*C********C****T******T*******A*A******** << 17857916 17847343 >> CTCAGGTGATCCACCCACCTCGGCCACCCAGAGTGCTGAGATTACA >> 17847388 17857915 << ***-*-***********AT******A***AT*******C******* << 17857872 Statistics Matches: 219 (80.81%), Mismatches: 49 (18.08%), Indels: 3 (1.11%) ATpairs: 46.12%, CGpairs: 53.88%, GTpairs: 0.00% :i = 17858041 tupleindex: 3 intervalindex: 1 matches_in_interval: 121.0000 lowcenter: 35705235 highcenter: 35705283 testcenter: 35705259 im3: 44.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17858094 center: 35712015 interval size: 300 g: 3 Alignment explanation
Indices: 17853862--17854132,17857884--17858150 Loop: 3751 Score: 197 Left Length: 271 Right Length: 267 Average length: 269.0 3 most common centers (desc): 35712015 35712014 35712012 17853852 >> (LF) TTTTGGGTTT 17858160 << (RF) ATAGTTATGG 17853862 >> TTTTTTTTTTTTTTTTTTTCCGAGACAAGGGGTCTCGCTCTGTCACCCAGGCTGGGCGTGCAGTGGTAGAATCTC >> 17853936 17858150 << *******************AA******-*T*-***A*******AC**********T-*********GCAC***** << 17858079 17853937 >> GGCTCCCTGCAGTCTTCACCTCCCAGGCTTAAGTGAGCCTCCCACTTCAGCCTCCCGAGTAGCTGAGACTACAGG >> 17854011 17858078 << T****T*****TC**G********C**A*G*G*GG*AA***AAC*G**************C****C********* << 17858004 17854012 >> CATGTGTCACCACACCCTGCTAATTTTT-GTATTTTTTGTAGACATGGAGTTTCTGCATGTTGCCCACACTGGTC >> 17854085 17858003 << *CGGG*G***AC*****C**********A********T*****C*G**C*****TG*C****TC***CCT***** << 17857929 17854086 >> TCAAACTCCTGGGCTCAAGCTCTCCACCCACCTCAGCCTCCCAAAGT >> 17854132 17857928 << **A*A******TG***CA*T**-*-*****AT**C*******A**** << 17857884 Statistics Matches: 205 (75.37%), Mismatches: 61 (22.43%), Indels: 6 (2.21%) ATpairs: 47.80%, CGpairs: 52.20%, GTpairs: 0.00% :i = 17858094 tupleindex: 3 intervalindex: 1 matches_in_interval: 109.0000 lowcenter: 35711991 highcenter: 35712039 testcenter: 35712015 im3: 49.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17858102 center: 35714658 interval size: 300 g: 3 Alignment explanation
Indices: 17856507--17856739,17857918--17858149 Loop: 1178 Score: 190 Left Length: 233 Right Length: 232 Average length: 232.5 3 most common centers (desc): 35714658 35714657 35714656 17856497 >> (LF) GGTTGTTGGG 17858159 << (RF) TAGTTATGGA 17856507 >> TTTTTTGTTGTTTGTTTTCTGAGACAAGGTCTCGCTCTCTGTTGCCCAGGCTGGAGTGGAGTGATACAATTATGG >> 17856581 17858149 << ******A**A***A****A*******CT****A*****--******************G****CGCAC**GAGT* << 17858077 17856582 >> CCCACTGCAACCTCTGCCCCCTGGGTTCAAGTGATCCTCCCACCTCAGCTTTCCGAGTATCTGGGACTACAGGCA >> 17856656 17858076 << *A********C***GT**A**G*******G*GG**A***AAC*******G*G******CC**************C << 17858002 17856657 >> TAAGCCACCACACCTGACTAATTCTT-GTATTTTTTGTAGAGATGGGGTTTCACCATGTT-GCCAAGGGTGGTCT >> 17856729 17858001 << GGG*****AC****G*C******A**A********T*******G***********C****T****-**T****** << 17857928 17856730 >> CGAACTCCTG >> 17856739 17857927 << *A*A****** << 17857918 Statistics Matches: 181 (77.02%), Mismatches: 49 (20.85%), Indels: 5 (2.13%) ATpairs: 48.62%, CGpairs: 51.38%, GTpairs: 0.00% :i = 17858102 tupleindex: 3 intervalindex: 1 matches_in_interval: 97.0000 lowcenter: 35714634 highcenter: 35714682 testcenter: 35714658 im3: 45.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17858969 center: 35717071 interval size: 300 g: 3 Alignment explanation
Indices: 17857865--17858149,17858922--17859207 Loop: 772 Score: 308 Left Length: 285 Right Length: 286 Average length: 285.5 3 most common centers (desc): 35717071 35717070 35717072 17857855 >> (LF) GCACGGTGGC 17859217 << (RF) AGATAGAATT 17857865 >> TCACACCTGTAATCCCAGCACTTAGGGAGGCCGATATGGGTGGATCAC--GAGGTCAGGAGATAGAGACCATCCT >> 17857937 17859207 << ***********************A****T**A**CC****GT******AA***T*******A*GT****A*C*** << 17859133 17857938 >> GGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGTGCAGTGGCGGGCGCCTGTAGTC >> 17858012 17859132 << ***G**A*A**GT*******T*********************-*********GAAC*****T**A*******T** << 17859059 17858013 >> CCAGCCACTCGGGAGGCTGAGGCAAGAGAATGGCGTGAACCCGGGAGGTGGAGCTTGCAGTGAGCTGAGATCACG >> 17858087 17859058 << *****A******************C******G**A*******T*****GGT*TC***********GT****AC** << 17858984 17858088 >> CCACTGCACTCCAGCCTGGGCAACAGAGCAAGACTCTGTCTCAAAAAAAAAAAAAAAAAAAA >> 17858149 17858983 << ****T****************CG*****AC*******************C*C***A***A** << 17858922 Statistics Matches: 235 (81.88%), Mismatches: 49 (17.07%), Indels: 3 (1.05%) ATpairs: 47.23%, CGpairs: 52.77%, GTpairs: 0.00% :i = 17858969 tupleindex: 3 intervalindex: 1 matches_in_interval: 133.0000 lowcenter: 35717047 highcenter: 35717095 testcenter: 35717071 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17858994 center: 35703484 interval size: 300 g: 3 Alignment explanation
Indices: 17844285--17844556,17858926--17859202 Loop: 14369 Score: 294 Left Length: 272 Right Length: 277 Average length: 274.5 3 most common centers (desc): 35703484 35703485 35703487 17844275 >> (LF) GTAGCTCATG 17859212 << (RF) GAATTAGTGT 17844285 >> CCTGTAGTCCCAGCACTTTGGGAGGCCGAGGCAGGCGGATCACAAG-G-TCAGGAGTTCGAGACCAACCAGGCCA >> 17844357 17859202 << ******T****************T**A****AC***T******AA*T*T**********T****A*C**A***** << 17859128 17844358 >> ATGTGGTGAAACCCTGTCTCTACTAAAAATACAAAAATTAGCAGA-CGTGGTGGTGGGCACTTGTAGTCCCAGCT >> 17844431 17859127 << **T***GT******GT**************************G*CC*A******GT**AC*G****T******** << 17859053 17844432 >> CCTCGGGAGGCTGAGGCAGGAGAATCGCTTTAACCCAGGAGGTGGAGGTTGCATTGAGCCAAGATCGCACCACTG >> 17844506 17859052 << T*****************************C***********GGT*T******C***********A**C****T* << 17858978 17844507 >> CACTCCTGCCTGGGCGATAGAACAAGACT--GTCTCAAAAAAAAAAAAAAAA >> 17844556 17858977 << ******T*********GG***CAC*****GA************C*C***A** << 17858926 Statistics Matches: 227 (81.95%), Mismatches: 45 (16.25%), Indels: 5 (1.81%) ATpairs: 46.70%, CGpairs: 53.30%, GTpairs: 0.00% :i = 17858994 tupleindex: 3 intervalindex: 1 matches_in_interval: 102.0000 lowcenter: 35703460 highcenter: 35703508 testcenter: 35703484 im3: 30.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17859060 center: 35717488 interval size: 160 g: 2 Alignment explanation
Indices: 17858420--17858476,17859012--17859068 Loop: 535 Score: 57 Left Length: 57 Right Length: 57 Average length: 57.0 3 most common centers (desc): 35717488 35717487 0 17858410 >> (LF) AGTGACTCAC 17859078 << (RF) CCACCGTCCA 17858420 >> GCCTGTAATCCCAGC-ACTTTGGGAGGCGGAGATGGGAGGATCATTTGAGCCCAGGAG >> 17858476 17859068 << ***************A***G-*******A***CGT****T***CG****T******** << 17859012 Statistics Matches: 47 (81.03%), Mismatches: 9 (15.52%), Indels: 2 (3.45%) ATpairs: 38.30%, CGpairs: 61.70%, GTpairs: 0.00% :i = 17859060 tupleindex: 2 intervalindex: 2 matches_in_interval: 71.0000 lowcenter: 35717470 highcenter: 35717506 testcenter: 35717488 im3: 22.0000 frequent_center_ratio*rnkp: 21.3900 Found at i: 17859096 center: 35704530 interval size: 300 g: 3 Alignment explanation
Indices: 17845323--17845595,17858929--17859207 Loop: 13333 Score: 252 Left Length: 273 Right Length: 279 Average length: 276.0 3 most common centers (desc): 35704530 35704523 35704524 17845313 >> (LF) GCATGGTGAC 17859217 << (RF) AGATAGAATT 17845323 >> TCACACCTATAATCACAGCACTTTGGGAAGCCAAGGCGGGTGGATCCCCTGAGGTCAGAAGTTCGAGACCAGCCT >> 17845397 17859207 << ********C*****G****************AC***A***GT****T*A****T****C*****T****A***** << 17859133 17845398 >> GGCCAACGTGGTGAAATCCCTTGTCTACTAAAAATACAAAAATTAGCTGG-CTGTGGTGGCACGTGCCTGAAGTC >> 17845471 17859132 << ******AT***GT***G***T*G************************G**C**-********C*******A*T** << 17859059 17845472 >> TCAGCTACTGGGGAGGCAGAGGCGAGAGAATTGCTTGAACCCGGGAGGT----G--G-AGGGAGCCGAGATCTCA >> 17845539 17859058 << G********G*******A*****TC******G**********T*****GGTTT*AA*G**A*****T****AC*C << 17858984 17845540 >> CCATTGCACTCCAGCCTGGGCCACAGACACAGACTCCACCTCAAAAAGAAAAGAAA >> 17845595 17858983 << ***GT****************CG****CAC******ACA********-**C***** << 17858929 Statistics Matches: 223 (79.36%), Mismatches: 48 (17.08%), Indels: 10 (3.56%) ATpairs: 47.09%, CGpairs: 52.91%, GTpairs: 0.00% :i = 17859096 tupleindex: 3 intervalindex: 1 matches_in_interval: 96.0000 lowcenter: 35704506 highcenter: 35704554 testcenter: 35704530 im3: 51.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17859184 center: 35717623 interval size: 160 g: 2 Alignment explanation
Indices: 17858416--17858484,17859139--17859207 Loop: 654 Score: 93 Left Length: 69 Right Length: 69 Average length: 69.0 3 most common centers (desc): 35717623 0 0 17858406 >> (LF) GCGCAGTGAC 17859217 << (RF) AGATAGAATT 17858416 >> TCACGCCTGTAATCCCAGCACTTTGGGAGGCGGAGATGGGAGGATCATTTGAGCCCAGGAGTTCAAGAC >> 17858484 17859207 << ****T***********************T**A***C****GT*****G*****TA************** << 17859139 Statistics Matches: 60 (86.96%), Mismatches: 9 (13.04%), Indels: 0 (0.00%) ATpairs: 46.67%, CGpairs: 53.33%, GTpairs: 0.00% :i = 17859184 tupleindex: 2 intervalindex: 2 matches_in_interval: 177.0000 lowcenter: 35717605 highcenter: 35717641 testcenter: 35717623 im3: 29.0000 frequent_center_ratio*rnkp: 21.3900 Found at i: 17862364 center: 35720465 interval size: 300 g: 3 Alignment explanation
Indices: 17857841--17858151,17862314--17862622 Loop: 4162 Score: 428 Left Length: 311 Right Length: 309 Average length: 310.0 3 most common centers (desc): 35720465 35720463 35720464 17857831 >> (LF) TGGAAAAATG 17862632 << (RF) AATTCTACGT 17857841 >> GTACTGGTGGCCGGGCACGGTGGCTCACACCTGTAATCCCAGCACTTAGGGAGGCCGATATGGGTGGATCACGAG >> 17857915 17862622 << *******-*-*****AC*T****A****C******************A**********CCGT**GT********* << 17862550 17857916 >> GTCAGGAGATAGAGACCATCCTGGCTAACACGGTGAAACCCCGTCTCTACTAAAAATACAAAAAATTAGCCGGGT >> 17857990 17862549 << **********G******************************A*************A********G*******T*G << 17862475 17857991 >> GCAGTGGCGGGCGCCTGTAGTCCCAGCCACTCGGGAGGCTGAGGCAAGAGAATGGCGTGAACCCGGGAGGTGGAG >> 17858065 17862474 << *AC***TA***T***************AC*****************C****************A******G**** << 17862400 17858066 >> CTTGCAGTGAGCTGAGATCACGCCACTGCACTCCAGCCTGGGCAACAGAGCAAGACTCTGTCTCAAAAAAAAAAA >> 17858140 17862399 << ************G******G**********************AC*****G*C******G****A*********** << 17862325 17858141 >> AAAAAAAAAAG >> 17858151 17862324 << *********** << 17862314 Statistics Matches: 273 (87.78%), Mismatches: 36 (11.58%), Indels: 2 (0.64%) ATpairs: 44.32%, CGpairs: 55.68%, GTpairs: 0.00% :i = 17862364 tupleindex: 3 intervalindex: 1 matches_in_interval: 407.0000 lowcenter: 35720441 highcenter: 35720489 testcenter: 35720465 im3: 29.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17862839 center: 35721279 interval size: 300 g: 3 Alignment explanation
Indices: 17858415--17858531,17862746--17862864 Loop: 4214 Score: 90 Left Length: 117 Right Length: 119 Average length: 118.0 3 most common centers (desc): 35721279 35721277 35721281 17858405 >> (LF) GGCGCAGTGA 17862874 << (RF) CTACGACGCC 17858415 >> CTCACGCCTGTAATCCCAGCACTTTGGGAGGCGGAGATGGGAGGATCATTTGAGCCCAGGAGTTCAAGACACCAA >> 17858489 17862864 << *****T***************T**********GT**CGT********AGG*********G****AC****-*-*C << 17862792 17858490 >> CCTGAGCAAGA-TGT--CTCTAT-TAAAAAAAAAAAAAGGAAAAAG >> 17858531 17862791 << *********A*C**TTT*G****G*GAA**********TT****** << 17862746 Statistics Matches: 93 (76.86%), Mismatches: 22 (18.18%), Indels: 6 (4.96%) ATpairs: 54.84%, CGpairs: 45.16%, GTpairs: 0.00% :i = 17862839 tupleindex: 3 intervalindex: 1 matches_in_interval: 222.0000 lowcenter: 35721255 highcenter: 35721303 testcenter: 35721279 im3: 32.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17866405 center: 35719942 interval size: 300 g: 3 Alignment explanation
Indices: 17853430--17853660,17866282--17866515 Loop: 12621 Score: 160 Left Length: 231 Right Length: 234 Average length: 232.5 3 most common centers (desc): 35719942 35719945 35719946 17853420 >> (LF) CAGGCTCACT 17866525 << (RF) CACGTCACCG 17853430 >> GCAATCACGGCTCACTGAAGCTTCAACCTCCTAGGCTCAAGTCATCCTCCCACCTCAGCCTCCCAGTTAGCTGGA >> 17853504 17866515 << **C***A**********G*T*G**AC*****G***A*****GT***T*****A-************T***A*T*C << 17866442 17853505 >> ACTACAGGTGCATGCCATCAC-AC-CCTGC-TAATTTTTTTTTTAAAAA-ATGTGTAG-AGACA-GGATCTCCCT >> 17853573 17866441 << *A******--*****-*G***G**C*****G*************AAAACA**A*A***A***C*A**CCA*A*T* << 17866370 17853574 >> GC-GTTG-CCTGTGCTGGTCTCAAACTCCTGGGCTCAAG-GAGTCCTCTTTCCTTGGCCTCCCAAAGTGCTGGGA >> 17853645 17866369 << GTA****C**T*-*********C********TG******A**-***C*G*C*******C**************** << 17866297 17853646 >> TTACAGGCATGAGCC >> 17853660 17866296 << ********C****** << 17866282 Statistics Matches: 182 (75.83%), Mismatches: 43 (17.92%), Indels: 15 (6.25%) ATpairs: 47.25%, CGpairs: 52.75%, GTpairs: 0.00% :i = 17866405 tupleindex: 3 intervalindex: 1 matches_in_interval: 110.0000 lowcenter: 35719918 highcenter: 35719966 testcenter: 35719942 im3: 64.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17866531 center: 35718895 interval size: 300 g: 3 Alignment explanation
Indices: 17852330--17852597,17866292--17866565 Loop: 13694 Score: 139 Left Length: 268 Right Length: 274 Average length: 271.0 3 most common centers (desc): 35718895 35718887 35718894 17852320 >> (LF) TGTGAATATC 17866575 << (RF) GGGAAAAAAA 17852330 >> TTTTTGATTCAGGGTCTGGTTCTGTCACCTAGGCTGGAGTG--CAGTGACATGATCAAAGCTTCACTGCAGCCTC >> 17852402 17866565 << *******CT*C*T****GTGG********G***********AC*****C*CG****AGC***-*******T**** << 17866492 17852403 >> AAAATCCT-GGTCTCAAGTCATCCTCCTACCCCAGCCTCCCAAGTAGCTACGACCACAGGCACACATCACCACAC >> 17852476 17866491 << ACGG***GT***-*****GT***T***G*AA*-*********CT***A**C**AA*******AC**G******C* << 17866419 17852477 >> CCAGCTAATTTTTCGAAGTTTT-TATTATGAC-AGAG-TCTCG---C-T-ATGTTACCCAGGCTGGTCTCAAACC >> 17852543 17866418 << *ACG*********AAAAA****C****A*A*CA****T*CCC*AAA*T*G*****CC*************C***A << 17866344 17852544 >> CCTGACCTCAAGTGATCCCCCCACTGTCTTGGCCTCC-AAAGTGCTGAGATTACA >> 17852597 17866343 << ******************C**---**G******C***G*********C******* << 17866292 Statistics Matches: 203 (72.50%), Mismatches: 59 (21.07%), Indels: 18 (6.43%) ATpairs: 49.75%, CGpairs: 50.25%, GTpairs: 0.00% :i = 17866531 tupleindex: 3 intervalindex: 1 matches_in_interval: 98.0000 lowcenter: 35718871 highcenter: 35718919 testcenter: 35718895 im3: 33.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17866535 center: 35720445 interval size: 300 g: 3 Alignment explanation
Indices: 17853871--17854132,17866304--17866572 Loop: 12171 Score: 179 Left Length: 262 Right Length: 269 Average length: 265.5 3 most common centers (desc): 35720436 35720445 35720444 17853861 >> (LF) TTTTTTTTTT 17866582 << (RF) TATGACGGGG 17853871 >> TTTTTTTTTTCCGAGACAAGGGGTCTCGCTCTGTCACCCAGGCTGG-GCGTGCAGTGGTAGAATCTCGGCTCCCT >> 17853944 17866572 << **********AA*****--**T*****T*G****************T*A*********GCGC**********T** << 17866500 17853945 >> GCAGTCTTCACCTCCCAGGCTTAAGTGAGCCTCCCACTTCAGCCTCCCGAG-TAGCTGAGACTACAGGCATGTGT >> 17854018 17866499 << ***TG**GAC*********A*G***GT*A*T*****-***********-**T***A*TC**A**********GTG << 17866427 17854019 >> CACCACACCCTGC-TAATTTTT---------GTATTTTTTGTAGACATGGAGTTTCTGCATGTTGCCCACACTGG >> 17854083 17866426 << ******C**-***G********AAAAAAAAA********T*****C****C*****TA*******C***CC**** << 17866353 17854084 >> TCTCAAACTCCTGGGCTCAAGCTCTCCACCCACCTCAGCCTCCCAAAGT >> 17854132 17866352 << ****C********TG******ACT***C**AC***AC**C********* << 17866304 Statistics Matches: 207 (75.55%), Mismatches: 50 (18.25%), Indels: 17 (6.20%) ATpairs: 47.83%, CGpairs: 52.17%, GTpairs: 0.00% :i = 17866535 tupleindex: 3 intervalindex: 1 matches_in_interval: 147.0000 lowcenter: 35720421 highcenter: 35720469 testcenter: 35720445 im3: 46.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17866567 center: 35728894 interval size: 600 g: 3 Alignment explanation
Indices: 17862324--17862625,17866261--17866572 Loop: 3635 Score: 303 Left Length: 302 Right Length: 312 Average length: 307.0 3 most common centers (desc): 35728885 35728887 35728894 17862314 >> (LF) CTTTTTTTTT 17866582 << (RF) TATGACGGGG 17862324 >> TTTTTTTTTTTTAAGACGGAGTCTCGGTCTGTCACCCAGGCTGGAGTG--CAGTGGCGGGATCTCGGCTCACTGC >> 17862396 17866572 << ************C************TGG********************AC********G**************** << 17866498 17862397 >> AAGCTCCGCCTCCCAGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGC-AGCTGGGACTACAGGCTCCCATCA >> 17862470 17866497 << **G***A**************T**T**GT***GTA-**********-**TA**A*T***A*******TAC**G** << 17866425 17862471 >> CCACGCTCGGCTAAGTTTTT--------GTAATTTTAGTAGAGACAGGGTTTCACCGTGTTAGCCAGGATGGTCT >> 17862537 17866424 << ******GA*G****A*****AAAAAAAA***A************AC********A*T****C******G****** << 17866350 17862538 >> CGATCTCCTGACCTC--GTGATCTGCCTGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAACCACTGCAC >> 17862610 17866349 << ***T***********TT******G********A***C****************************C****GGT** << 17866275 17862611 >> CCGGCCCAGTACTGC >> 17862625 17866274 << *A****T*-****** << 17866261 Statistics Matches: 256 (81.27%), Mismatches: 43 (13.65%), Indels: 16 (5.08%) ATpairs: 44.92%, CGpairs: 55.08%, GTpairs: 0.00% :i = 17866567 tupleindex: 3 intervalindex: 2 matches_in_interval: 235.0000 lowcenter: 35728860 highcenter: 35728928 testcenter: 35728894 im3: 50.0000 frequent_center_ratio*rnkp: 41.4200 Found at i: 17868040 center: 35730431 interval size: 300 g: 3 Alignment explanation
Indices: 17862323--17862616,17867816--17868105 Loop: 5199 Score: 286 Left Length: 294 Right Length: 290 Average length: 292.0 3 most common centers (desc): 35730431 35730434 35730432 17862313 >> (LF) TCTTTTTTTT 17868115 << (RF) TCTAATACTT 17862323 >> TTTTTTTTTTTTTAAGACGGAGTCTCGGTCTGTCACCCAGGCTGGAGTGCAGTGGCGGGATCTCGGCTCACTGCA >> 17862397 17868105 << *******G*****A*G*-**-****-*G*****AC*****************T***TGT**************** << 17868034 17862398 >> AGCTCCGCCTCCCAGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGCAGCTGGGACTACAGGCTCCCATCACC >> 17862472 17868033 << CG**********AC******T**T******A*****************A*T******A*******TACACG**** << 17867959 17862473 >> ACGCTCGGCTAAGTTTTTGTAATTTTAGTAGAGACAGGGTTTCACCGTGTTAGCCAGGATGGTCTCGATCTCCTG >> 17862547 17867958 << **-*-*T*****-********A************AC**********TGT**C*A****G*********T**C*** << 17867887 17862548 >> ACCTC--GTGATCTGCCTGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAACCACTGCACCCGGCC >> 17862616 17867886 << C****TT******GT*A*********************T*T*********A****C****G*AC***T*** << 17867816 Statistics Matches: 238 (80.41%), Mismatches: 50 (16.89%), Indels: 8 (2.70%) ATpairs: 43.70%, CGpairs: 56.30%, GTpairs: 0.00% :i = 17868040 tupleindex: 3 intervalindex: 1 matches_in_interval: 124.0000 lowcenter: 35730407 highcenter: 35730455 testcenter: 35730431 im3: 41.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17868040 center: 35724624 interval size: 300 g: 3 Alignment explanation
Indices: 17856543--17856743,17867883--17868081 Loop: 11139 Score: 218 Left Length: 201 Right Length: 199 Average length: 200.0 3 most common centers (desc): 35724624 35724626 35724625 17856533 >> (LF) AGGTCTCGCT 17868091 << (RF) TGTCCCAGAC 17856543 >> CTCTGTTGCCCAGGCTGGAGTGGAGTGATACAATTATGGCCCACTGCAACCTCTGCCCCCTGGGTTCAAGTGATC >> 17856617 17868081 << **********************G**T*CG*****GAG***A*******C****G***A************GT**A << 17868007 17856618 >> CTCCCACCTCAGCTTTCCGAGTATCTGGGACTACAGGCATAAGCCACCACACCTGACTAATTCTTGTATTTTTTG >> 17856692 17868006 << ***AAC*******G*G*******T******A*********CA********-**T*-******A**********T* << 17867934 17856693 >> TAGAGATGGGGTTTCACCATGTTGCCAAGGGTGGTCTCGAACTCCTGGGCT >> 17856743 17867933 << *******************GT***CAG***G************C****G** << 17867883 Statistics Matches: 165 (82.09%), Mismatches: 34 (16.92%), Indels: 2 (1.00%) ATpairs: 45.45%, CGpairs: 54.55%, GTpairs: 0.00% :i = 17868040 tupleindex: 3 intervalindex: 1 matches_in_interval: 100.0000 lowcenter: 35724600 highcenter: 35724648 testcenter: 35724624 im3: 50.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17868044 center: 35727037 interval size: 300 g: 3 Alignment explanation
Indices: 17858921--17859207,17867832--17868113 Loop: 8624 Score: 329 Left Length: 287 Right Length: 282 Average length: 284.5 3 most common centers (desc): 35727037 35727039 35727034 17858911 >> (LF) TTTAAAATTT 17868123 << (RF) TGTTTAAGTC 17858921 >> ATTATTTATTTCTCTTTTTTTGAGACAGAGTCTCACTCTGGCGCCCAGGCTGGAGTGCTGTGGCGCAATCTTGGC >> 17858995 17868113 << *****CT****A*A*G*****A*--***C****C-*****AA****************T*T***T******G*** << 17868042 17858996 >> TCACTGCAACTTTGGCCTCCTGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGCAC >> 17859070 17868041 << ********C*G*GG*****************T******A*******************T***************A << 17867967 17859071 >> CTGCCACCAAGCCCGGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTTGCCATATTGGCCAGGCTAGTCTTGA >> 17859145 17867966 << C********--***T**********************************GT***G*****A******C****G** << 17867894 17859146 >> ACTCCTGATCTCAAGTGATCTGCCCACCTCAGCTTCCCAAAGTGCTGGGATTACAGGTGTGA >> 17859207 17867893 << ***C***CG***********GT*AAC****C**G***********T*T************** << 17867832 Statistics Matches: 240 (83.62%), Mismatches: 42 (14.63%), Indels: 5 (1.74%) ATpairs: 49.17%, CGpairs: 50.83%, GTpairs: 0.00% :i = 17868044 tupleindex: 3 intervalindex: 1 matches_in_interval: 147.0000 lowcenter: 35727013 highcenter: 35727061 testcenter: 35727037 im3: 70.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17868050 center: 35721981 interval size: 300 g: 3 Alignment explanation
Indices: 17853891--17854132,17867851--17868088 Loop: 13718 Score: 216 Left Length: 242 Right Length: 238 Average length: 240.0 3 most common centers (desc): 35721981 35721983 35721980 17853881 >> (LF) CCGAGACAAG 17868098 << (RF) GAAAAAATGT 17853891 >> GGGTCTCGCTCTGTCACCCAGGCTGGGCGTGCAGTGGTAGAATCTCGGCTCCCTGCAGTCTTCACCTCCCAGGCT >> 17853965 17868088 << ******-*******AC**********T-******T**G*G***********T******G**G*C*****AC**A* << 17868016 17853966 >> TAAGTGAGCCTCCCACTTCAGCCTCCCGAGTAGCTGAGACTACAGGCATGTGTCACCACACCCTGCTAATTTTTG >> 17854040 17868015 << G***GT*AA***AAC*G***************T***C**A************G******-**T-*********** << 17867943 17854041 >> TATTTTTTGTAGACATGGAGTTTCTGCATGTTGCCCACACTGGTCTCAAACTCCTGGGCTCAAGCTCTCCACCCA >> 17854115 17867942 << *******T*****C****C*****TG**GT***CA**CC********C****C****G******ACT*****AAC << 17867868 17854116 >> CCTCAGCCTCCCAAAGT >> 17854132 17867867 << ****C************ << 17867851 Statistics Matches: 190 (78.51%), Mismatches: 48 (19.83%), Indels: 4 (1.65%) ATpairs: 44.74%, CGpairs: 55.26%, GTpairs: 0.00% :i = 17868050 tupleindex: 3 intervalindex: 1 matches_in_interval: 99.0000 lowcenter: 35721957 highcenter: 35722005 testcenter: 35721981 im3: 38.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17869582 center: 35727684 interval size: 300 g: 3 Alignment explanation
Indices: 17858098--17858144,17869538--17869586 Loop: 11393 Score: 59 Left Length: 47 Right Length: 49 Average length: 48.0 3 most common centers (desc): 35727684 35727682 35727683 17858088 >> (LF) CCACTGCACT 17869596 << (RF) CTCAAGGTTT 17858098 >> CCAGCCTGGGCAACAGAGCAAGAC-TCTGTCT-CAAAAAAAAAAAAAAA >> 17858144 17869586 << ***************G********G***G***T*G*****AG******* << 17869538 Statistics Matches: 42 (85.71%), Mismatches: 5 (10.20%), Indels: 2 (4.08%) ATpairs: 59.52%, CGpairs: 40.48%, GTpairs: 0.00% :i = 17869582 tupleindex: 3 intervalindex: 1 matches_in_interval: 133.0000 lowcenter: 35727660 highcenter: 35727708 testcenter: 35727684 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17869608 center: 35737486 interval size: 300 g: 3 Alignment explanation
Indices: 17867813--17868091,17869395--17869672 Loop: 1303 Score: 210 Left Length: 279 Right Length: 278 Average length: 278.5 3 most common centers (desc): 35737486 35737487 35737485 17867803 >> (LF) GAAACGGTTA 17869682 << (RF) TAAAATGTTA 17867813 >> TGAGGCTGGGCACGGTGGCTCACACCTGTAATCTCTGCACTTTGGGAGGCCGAGGCAAGTGGATCACTTGAGGCC >> 17867887 17869672 << *****TGT****A********************G*T*C****T**-******A****C*C*A**********AA* << 17869599 17867888 >> AGCAGTTCGAGACCAGCCTGACCAATGTGGTGAAACCCCATCTCTACTAAAAAT-ACAAAAATTAGCTGGGTG-G >> 17867960 17869598 << **C*****G*T*********CC***GTGT*GT*C***A*-*******G******G*T**********GT**GTA* << 17869525 17867961 >> TGGCACATGCCTGTAATCCCAGTTACTCGGGAGGCTGAGGCAAGAGAATTGCTTGAACCCAGGAGGCGGAGGCTG >> 17868035 17869524 << ***CACG-******A*******G****A*T************C***A******-**C*TT**T**TAG******* << 17869452 17868036 >> CAGTGAGCCGAGATTGTGCCTCTGCACTCCAGCCTGGGCAACAGAGCA-GACCCTGT >> 17868091 17869451 << ********ATAT**G*GT**T*********CT*********A******T******** << 17869395 Statistics Matches: 214 (75.89%), Mismatches: 61 (21.63%), Indels: 7 (2.48%) ATpairs: 43.93%, CGpairs: 56.07%, GTpairs: 0.00% :i = 17869608 tupleindex: 3 intervalindex: 1 matches_in_interval: 101.0000 lowcenter: 35737462 highcenter: 35737510 testcenter: 35737486 im3: 54.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17869608 center: 35735939 interval size: 300 g: 3 Alignment explanation
Indices: 17866279--17866567,17869385--17869659 Loop: 2817 Score: 173 Left Length: 289 Right Length: 275 Average length: 282.0 3 most common centers (desc): 35735950 35735939 35735938 17866269 >> (LF) GGCCAGGTTG 17869669 << (RF) CCTGTCCGTA 17866279 >> GGTGGCTCACGCCTGTAATCCCAGCACTTTGGGACGCCAAGGCAGGCGGATCACTTGAGGTCAGGAGTTCGAGAC >> 17866353 17869659 << **********T*************C****T**-*C***CA******C*A**********A**********G*T** << 17869586 17866354 >> CAGCCTGGCCAACATGATGAAACCCCATCTCTACTAAAAATACAAAAAAAAAAAAAATTAGGCAGGCGTGGTGGT >> 17866428 17869585 << ********C*****G-*-*G**CT**-*****-***G-----******AG***********G*****T**AC*** << 17869520 17866429 >> GCATGCCTGTAATCCTAACTATCTGGGAGGCTGAATG-GGATGATTGCTTGAACCTGGGAGGCAGAGGTTGCAGT >> 17866502 17869519 << **--******A****G*C***GA**T********CCGT***CA******-**C*TTT*T**TAG****G****** << 17869448 17866503 >> GAGCCGAGATCGCGCCACTGCACACTCCAGCCTGGGTGACAGGGTGAGACTCCGTCTCAAAAAAA >> 17866567 17869447 << ****ATAT*****T*********A*-*C*-******GT*A**T*GT****G*A*******G**** << 17869385 Statistics Matches: 215 (74.14%), Mismatches: 59 (20.34%), Indels: 16 (5.52%) ATpairs: 46.51%, CGpairs: 53.49%, GTpairs: 0.00% :i = 17869608 tupleindex: 3 intervalindex: 1 matches_in_interval: 136.0000 lowcenter: 35735915 highcenter: 35735963 testcenter: 35735939 im3: 27.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17869722 center: 35727827 interval size: 300 g: 3 Alignment explanation
Indices: 17857874--17858145,17869682--17869956 Loop: 11536 Score: 374 Left Length: 272 Right Length: 275 Average length: 273.5 3 most common centers (desc): 35727827 35727830 0 17857864 >> (LF) CTCACACCTG 17869966 << (RF) AAAATGTTTA 17857874 >> TAATCCCAGCACTTAGGGAGGCCGATATGGGTGGATCACGAGGTCAGGAGATAGAGACCATCCTGGCTAACACGG >> 17857948 17869956 << **************A*******A**CC*************************GT***********T********* << 17869882 17857949 >> TGAAACCCCGTCTCTACTAAAAATACAAAAAA---TTAGCCGGGTGCAGTGGCGGGCGCCTGTAGTCCCAGCCAC >> 17858020 17869881 << ********A****************A******TTT*****A***GAAC**T*A**T*T**************A** << 17869807 17858021 >> TCGGGAGGCTGAGGCAAGAGAATGGCGTGAACCCGGGAGGTGGAGCTTGCAGTGAGCTGAGATCACGCCACTGCA >> 17858095 17869806 << *A*T************C********************A**G****************T******CA********* << 17869732 17858096 >> CTCCAGCCTGGGCAACAGAGCAAGACTCTGTCTCAAAAAAAAAAAAAAAA >> 17858145 17869731 << ****************C****C******G*G******************* << 17869682 Statistics Matches: 241 (87.64%), Mismatches: 31 (11.27%), Indels: 3 (1.09%) ATpairs: 46.47%, CGpairs: 53.53%, GTpairs: 0.00% :i = 17869722 tupleindex: 3 intervalindex: 1 matches_in_interval: 304.0000 lowcenter: 35727803 highcenter: 35727851 testcenter: 35727827 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17869726 center: 35736258 interval size: 300 g: 3 Alignment explanation
Indices: 17866294--17866572,17869686--17869956 Loop: 3113 Score: 245 Left Length: 279 Right Length: 271 Average length: 275.0 3 most common centers (desc): 35736252 35736256 35736257 17866284 >> (LF) CTCACGCCTG 17869966 << (RF) AAAATGTTTA 17866294 >> TAATCCCAGCACTTTGGGACGCCAAGGCAGGCGGATCACTTGAGGTCAGGAGTTCGAGACCAGCCTGGCCAACAT >> 17866368 17869956 << *******************C**AC***AC**A*******--***********T**T******A****T*A****G << 17869884 17866369 >> GATGAAACCCCATCTCTACTAAAAATACAAAAAAAAAAAAAATTAGGCAGGCGTGGTGGTGCATGCCTGTAATCC >> 17866443 17869883 << *C********AC***************A*********-----****GAC***A****T***C*GT******C*** << 17869814 17866444 >> TAACTATCTGGGAGGCTGAATG-GGATGATTGCTTGAACCTGGGAGGCAGAGGTTGCAGTGAGCCGAGATCGCGC >> 17866517 17869813 << G*C***GA**T********CCGT***CT**C**C******G***A***C***G***********T*******A** << 17869739 17866518 >> CACTGCACACTCCAGCCTGGGTGACAGGGTGAGACTCCGTCTCAAAAAAAAAAAA >> 17866572 17869738 << ********--***********GT**C*T*G*********G*************** << 17869686 Statistics Matches: 221 (78.93%), Mismatches: 49 (17.50%), Indels: 10 (3.57%) ATpairs: 48.42%, CGpairs: 51.58%, GTpairs: 0.00% :i = 17869726 tupleindex: 3 intervalindex: 1 matches_in_interval: 169.0000 lowcenter: 35736234 highcenter: 35736282 testcenter: 35736258 im3: 31.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17869734 center: 35737793 interval size: 300 g: 3 Alignment explanation
Indices: 17867841--17868105,17869685--17869956 Loop: 1579 Score: 257 Left Length: 265 Right Length: 272 Average length: 268.5 3 most common centers (desc): 35737793 35737799 35737797 17867831 >> (LF) CTCACACCTG 17869966 << (RF) AAAATGTTTA 17867841 >> TAATCTCTGCACTTTGGGAGGCCGAGGCAAGTGGATCACTTGAGGCCAGCAGTTCGAGACCAGCCTGACCAATGT >> 17867915 17869956 << *****G*T**************A****ACC*********--****A***C**T**T******A******A**GTG << 17869884 17867916 >> GGTGAAACCCCATCTCTACTAAAAATACAAAAA----TTAGCTGGG-T-GGT-G-GCACATGCCTGTAATCCCAG >> 17867982 17869883 << **********AC***************A*****TTTT*********G*A***T*A*C***--******C****** << 17869811 17867983 >> TTACTCGGGAGGCTGAGGCAAGAGAATTGCTTGAACCCAGGAGGCGGAGGCTGCAGTGAGCCGAGATTGTGCCTC >> 17868057 17869810 << G****A*T************C******C**C*******C**A*******GA**********T*****G*****T* << 17869736 17868058 >> TGCACTCCAGCCTGGGCAACAGAGC-AGACCCTG--TAAAAAAGAAAAAAA >> 17868105 17869735 << ********************C****C****A*G*GG*G*****T******* << 17869685 Statistics Matches: 223 (80.80%), Mismatches: 38 (13.77%), Indels: 15 (5.43%) ATpairs: 47.09%, CGpairs: 52.91%, GTpairs: 0.00% :i = 17869734 tupleindex: 3 intervalindex: 1 matches_in_interval: 98.0000 lowcenter: 35737769 highcenter: 35737817 testcenter: 35737793 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17870028 center: 35739664 interval size: 160 g: 2 Alignment explanation
Indices: 17869375--17869658,17870006--17870293 Loop: 347 Score: 236 Left Length: 284 Right Length: 288 Average length: 286.0 3 most common centers (desc): 35739668 35739665 35739667 17869365 >> (LF) TTTTGTTTGG 17870303 << (RF) GGAATTTTTG 17869375 >> TTTTGTTTGGTTTTGTTGAGACAGGGTCTTGCTCTATTGCCCAGGTCGGAGTGCAGTGGTGCGATTATAGCTCAC >> 17869449 17870293 << ****A***AA****A******AC*T****G*****C*GT******GA************G*A***GAGC****** << 17870219 17869450 >> TGCAGCCTCGATCTTCTTTGCTCA-GCAATACTCCTGCCTCAGCCTCTCAAGTAGCTGGGATAACAGGCGCAC-C >> 17869522 17870218 << ****T****ACG**G*GTC*A***T*AC**A****************G*************GA***TT*T*G*T* << 17870144 17869523 >> CAC-ATGCCTGGCTAATTTTTTTGATTTTTGGTAGAGAGAGGTCTTG-CTGTGTTGCCCAGGCTGGTTTGGAACT >> 17869595 17870143 << ***G*****************C*-******T*******G***CA**GT*GT*****CA****A****G*A***** << 17870070 17869596 >> CCTGAACTCAAGTGATACCCCTGCCACGGCCTCCTAA-GTCCTGGGATTACAGGTGTGAGCCAC >> 17869658 17870069 << *****G****C*****G*T**T***A********G**T**C*************G********* << 17870006 Statistics Matches: 223 (77.16%), Mismatches: 60 (20.76%), Indels: 6 (2.08%) ATpairs: 47.53%, CGpairs: 52.47%, GTpairs: 0.00% :i = 17870028 tupleindex: 2 intervalindex: 2 matches_in_interval: 182.0000 lowcenter: 35739646 highcenter: 35739682 testcenter: 35739664 im3: 27.0000 frequent_center_ratio*rnkp: 21.3900 Found at i: 17870039 center: 35739976 interval size: 40 g: 1 Alignment explanation
Indices: 17869682--17869956,17870020--17870292 Loop: 63 Score: 347 Left Length: 275 Right Length: 273 Average length: 274.0 3 most common centers (desc): 35739974 35739978 35739976 17869672 >> (LF) AATTGTAAAA 17870302 << (RF) GAATTTTTGA 17869682 >> TTTTTTTTTTTTTTTTGAGGCGGAGTCTCGCTCCGTTGCCCAGGCTGGAGTGCAGTGGCACGATCTCTGCTCACT >> 17869756 17870292 << *******************TA************A**GT*********************CA******C******* << 17870218 17869757 >> GCAAGCTCCGCCACCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCTCAAGTAGCTGGGACTACAGGTGTCCACT >> 17869831 17870217 << ****G***A***A***T******T*AC*******************G******************TTGTG****G << 17870143 17869832 >> ACCAAGCCCAGCTAATTTTTTTTTATATTTTTAGTAGAGACAGGGTTTCACCGTGTTAGTCAGGATGGTCTTGAT >> 17869906 17870142 << ****A***AC**********C*--**-****-********************T****C******A*********T << 17870072 17869907 >> CTCCTGACCTC-G-TGATCCACCCACCTCAGCCTCCCAAAGTGCTGGGATTA >> 17869956 17870071 << ***********T*C*********TC****C********************** << 17870020 Statistics Matches: 238 (85.92%), Mismatches: 33 (11.91%), Indels: 6 (2.17%) ATpairs: 47.90%, CGpairs: 52.10%, GTpairs: 0.00% :i = 17870039 tupleindex: 1 intervalindex: 2 matches_in_interval: 20.0000 lowcenter: 35739968 highcenter: 35739984 testcenter: 35739976 im3: 20.0000 frequent_center_ratio*rnkp: 7.6500 Found at i: 17870182 center: 35729218 interval size: 300 g: 3 Alignment explanation
Indices: 17858888--17859207,17870011--17870327 Loop: 10803 Score: 355 Left Length: 320 Right Length: 317 Average length: 318.5 3 most common centers (desc): 35729218 35729213 35729215 17858878 >> (LF) AAAAGAATTT 17870337 << (RF) CAACCCGTAC 17858888 >> TTTCTTTT-CCTT-TTTTAAAAAATTTTAAAATTTATTATTTATTTCTCTTTTTTTGAGACAGAGTCTCACTCTG >> 17858960 17870327 << ********A***GG****G***CGGG******TG*-**-***-***-*-***********AC*******C***** << 17870258 17858961 >> GCGCCCAGGCTGGAGTGCTGTGGCGCAATCTTGGCTCACTGCAACTTTGGCCTCCTGGGTTCAAGCGATTCTCCT >> 17859035 17870257 << A*T***************T******AC****G*************G*GA******GT********A********* << 17870183 17859036 >> GCCTCAGCCTCCCGAGTAGCTGGGATTACAGGCACCTGCCACCAAGCCCGGCTAATTTTTGTATTTTTAGTAGAG >> 17859110 17870182 << *************T***********G****TT****GT******A***A************************** << 17870108 17859111 >> ATGGGGTTTTGCCATATTGGCCAGGCTAGTCTTGAACTCCTGATCTCAAGTGATCTGCCCACCTCAGCTTCCCAA >> 17859185 17870107 << *GT******GT****C****A****A*C***************G****C******GT**TC****C**G****** << 17870033 17859186 >> AGTGCTGGGATTACAGGTGTGA >> 17859207 17870032 << *****************G**** << 17870011 Statistics Matches: 267 (82.92%), Mismatches: 48 (14.91%), Indels: 7 (2.17%) ATpairs: 52.06%, CGpairs: 47.94%, GTpairs: 0.00% :i = 17870182 tupleindex: 3 intervalindex: 1 matches_in_interval: 96.0000 lowcenter: 35729194 highcenter: 35729242 testcenter: 35729218 im3: 89.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17870194 center: 35739800 interval size: 80 g: 2 Alignment explanation
Indices: 17869603--17869686,17870115--17870197 Loop: 428 Score: 49 Left Length: 84 Right Length: 83 Average length: 83.5 3 most common centers (desc): 35739800 35739799 35739801 17869593 >> (LF) ACTCCTGAAC 17870207 << (RF) GGAGGGTCCA 17869603 >> TCAAGTGATACCCCTGCCACGGCCTCCTAAGTC-CTGGGATTACAGGTGTGAGCCACCATGCCTGTCCTCAATTG >> 17869676 17870197 << *********A*A******A*T******G****TC******G****TTGTGGGT************C*-*-****A << 17870125 17869677 >> TAAAATTTTT >> 17869686 17870124 << *ACA****** << 17870115 Statistics Matches: 62 (72.94%), Mismatches: 20 (23.53%), Indels: 3 (3.53%) ATpairs: 51.61%, CGpairs: 48.39%, GTpairs: 0.00% :i = 17870194 tupleindex: 2 intervalindex: 1 matches_in_interval: 125.0000 lowcenter: 35739788 highcenter: 35739812 testcenter: 35739800 im3: 18.0000 frequent_center_ratio*rnkp: 12.7600 Found at i: 17870195 center: 35726805 interval size: 300 g: 3 Alignment explanation
Indices: 17856510--17856739,17870066--17870293 Loop: 13326 Score: 206 Left Length: 230 Right Length: 228 Average length: 229.0 3 most common centers (desc): 35726805 35726803 0 17856500 >> (LF) TGTTGGGTTT 17870303 << (RF) GGAATTTTTG 17856510 >> TTTGTTGTTTGTTTTCTGAGACAAGGTCTCGCTCTCTGTTGCCCAGGCTGGAGTGGAGTGATACAATTATGGCCC >> 17856584 17870293 << ***A**A***A****A*****ACCT**********--**GT**************G****CGCAC**GAG***A* << 17870221 17856585 >> ACTGCAACCTCTGCCCCCTGGGTTCAAGTGATCCTCCCACCTCAGCTTTCCGAGTATCTGGGACTACAGGCATAA >> 17856659 17870220 << ***************A**GT************A****AC*******G*G**T****C***********TT**GGG << 17870146 17856660 >> GCCACCACACCTGACTAATTCTTGTATTTTTTGTAGAGATGGGGTTTCACCATGTTGCCAAGGGTGGTCTCGAAC >> 17856734 17870145 << T******AC****C******A**********T*******GT****************CAG***A******A**** << 17870071 17856735 >> TCCTG >> 17856739 17870070 << ***** << 17870066 Statistics Matches: 180 (78.26%), Mismatches: 48 (20.87%), Indels: 2 (0.87%) ATpairs: 50.56%, CGpairs: 49.44%, GTpairs: 0.00% :i = 17870195 tupleindex: 3 intervalindex: 1 matches_in_interval: 96.0000 lowcenter: 35726781 highcenter: 35726829 testcenter: 35726805 im3: 67.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17870204 center: 35732612 interval size: 300 g: 3 Alignment explanation
Indices: 17862319--17862616,17869995--17870293 Loop: 7378 Score: 424 Left Length: 298 Right Length: 299 Average length: 298.5 3 most common centers (desc): 35732612 35732613 35732611 17862309 >> (LF) TGCATCTTTT 17870303 << (RF) GGAATTTTTG 17862319 >> TTTTTTTTTTTTTTTTTAAGACGGAGTCTCGGTCTGTCACCCAGGCTGGAGTGCAGTGGCGGGATCTCGGCTCAC >> 17862393 17870293 << *****************C***A*********G*****************************A************* << 17870219 17862394 >> TGCAAGCTCCGCCTCCCAGGTTCACGCCATTCTCCTGCCTCAGCCTCCCGAGCAGCTGGGACTACAGGCTCCCAT >> 17862468 17870218 << *****G***A**************T*AC*********************T**A*************TT*T****G << 17870144 17862469 >> CACCACGCTCGGCTAAGTTTTTGTAATTTTAGTAGAGACAGGGTTTCACCGTGTTAGCCAGGATGGTCTCGATCT >> 17862543 17870143 << *****A**GA******-********A************************T****C*A****A******A**T** << 17870070 17862544 >> CCTGACCTC-G-TGATCTGCCTGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAACCACTGCACCCGGCC >> 17862616 17870069 << *********T*C*****GT**T*************************************C*******C***T*** << 17869995 Statistics Matches: 266 (88.67%), Mismatches: 31 (10.33%), Indels: 3 (1.00%) ATpairs: 44.74%, CGpairs: 55.26%, GTpairs: 0.00% :i = 17870204 tupleindex: 3 intervalindex: 1 matches_in_interval: 138.0000 lowcenter: 35732588 highcenter: 35732636 testcenter: 35732612 im3: 44.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17870294 center: 35733040 interval size: 300 g: 3 Alignment explanation
Indices: 17862745--17862795,17870245--17870295 Loop: 7449 Score: 43 Left Length: 51 Right Length: 51 Average length: 51.0 3 most common centers (desc): 35733040 35733042 35733041 17862735 >> (LF) ATAGTTCTGT 17870305 << (RF) CGGGAATTTT 17862745 >> ACTTTTTTTTTTTTTTTTTAAGAGATAGGGTTTCACTAT-TG-CTCAGGCTGG >> 17862795 17870295 << *******************--*****C*T**G**C**G*C*GT*G******** << 17870245 Statistics Matches: 42 (79.25%), Mismatches: 7 (13.21%), Indels: 4 (7.55%) ATpairs: 66.67%, CGpairs: 33.33%, GTpairs: 0.00% :i = 17870294 tupleindex: 3 intervalindex: 1 matches_in_interval: 271.0000 lowcenter: 35733016 highcenter: 35733064 testcenter: 35733040 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17871829 center: 35729960 interval size: 300 g: 3 Alignment explanation
Indices: 17858131--17858150,17871810--17871829 Loop: 13659 Score: 40 Left Length: 20 Right Length: 20 Average length: 20.0 3 most common centers (desc): 35729960 0 0 17858121 >> (LF) CTCTGTCTCA 17871839 << (RF) ACGTAGTCAA 17858131 >> AAAAAAAAAAAAAAAAAAAA >> 17858150 17871829 << ******************** << 17871810 Statistics Matches: 20 (100.00%), Mismatches: 0 (0.00%), Indels: 0 (0.00%) ATpairs: 100.00%, CGpairs: 0.00%, GTpairs: 0.00% :i = 17871829 tupleindex: 3 intervalindex: 1 matches_in_interval: 568.0000 lowcenter: 35729936 highcenter: 35729984 testcenter: 35729960 im3: 27.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17872871 center: 35731959 interval size: 300 g: 3 Alignment explanation
Indices: 17858935--17859207,17872760--17873020 Loop: 13552 Score: 246 Left Length: 273 Right Length: 261 Average length: 267.0 3 most common centers (desc): 35731959 35731952 35731967 17858925 >> (LF) TTTATTTCTC 17873030 << (RF) CTAAAGAATT 17858935 >> TTTTTTTGA-GACAGAGTCTCA--CTCTGGCGCCCAGGCTGGAGTGCTGTGGCGCAATCTTGGCTCACTGCAACT >> 17859006 17873020 << *********T****TC****AAAC*****A*T***************T*******A***T************G*G << 17872946 17859007 >> TTGGCCTCCTGGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGATTACAGGCACCTGCCACCAAG >> 17859081 17872945 << ****------**G*-*****T**G****GT***********A************GT********C********A* << 17872878 17859082 >> CCCGGCTAATTTTTGTATTTTTAGTAGAGATGGGGTTTTGCCATATTGGCCAGGCTAGTCTTGAACTCCTGATCT >> 17859156 17872877 << **************T*******A************G********C********T**C****G*********CC** << 17872803 17859157 >> CAAGTGATCTGCCCACCTCAGCTTCCCAAAGTGCTGGGATTACAGGTGTGA >> 17859207 17872802 << *---**G-*****A---*C-**G************T**********G**** << 17872760 Statistics Matches: 222 (80.43%), Mismatches: 36 (13.04%), Indels: 18 (6.52%) ATpairs: 45.05%, CGpairs: 54.95%, GTpairs: 0.00% :i = 17872871 tupleindex: 3 intervalindex: 1 matches_in_interval: 96.0000 lowcenter: 35731935 highcenter: 35731983 testcenter: 35731959 im3: 52.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17872999 center: 35742402 interval size: 300 g: 3 Alignment explanation
Indices: 17869385--17869657,17872756--17873020 Loop: 3098 Score: 174 Left Length: 273 Right Length: 265 Average length: 269.0 3 most common centers (desc): 35742406 35742402 35742408 17869375 >> (LF) TTTTGTTTGG 17873030 << (RF) CTAAAGAATT 17869385 >> TTTTGTTGA-GACAGGGTCTT--GCTCTATTGCCCAGGTCGGAGTGCAGTGGTGCGATTATAGCTCACTGCAGCC >> 17869456 17873020 << ****A****T****T******AA*****C*GT******GA************G**A**G**C**********-** << 17872947 17869457 >> TCGATCTTCTTTGCTCA-GCAATACTCCTGCCTCAGCCTCTCAAGTAGCTGGGATAACAGGCGCAC-CCAC-ATG >> 17869528 17872947 << -*--*-*CCC--*****T*****G****GT**********GAC***********G*******T*CAC****G*** << 17872878 17869529 >> CCTGGCTAATTTTTTTGATTTTTGGTAGAGAGAGGTCTT-GCTGTGTTGCCCAGGCTGGTTTGGAACTCCTGAAC >> 17869602 17872877 << **G***********T*-******A*******AC**C***A**GT*****C****T*****G*G*********CC* << 17872804 17869603 >> TCAAGTGATACCCCTGCCACGGCCTCCTAA-GTCCTGGGATTACAGGTGTGAGCCA >> 17869657 17872803 << **---**---**--****AA*******G**T**C**T**********G******** << 17872756 Statistics Matches: 213 (75.80%), Mismatches: 44 (15.66%), Indels: 24 (8.54%) ATpairs: 46.01%, CGpairs: 53.99%, GTpairs: 0.00% :i = 17872999 tupleindex: 3 intervalindex: 1 matches_in_interval: 123.0000 lowcenter: 35742378 highcenter: 35742426 testcenter: 35742402 im3: 29.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17873503 center: 35740052 interval size: 300 g: 3 Alignment explanation
Indices: 17866280--17866573,17873479--17873761 Loop: 6905 Score: 314 Left Length: 294 Right Length: 283 Average length: 288.5 3 most common centers (desc): 35740043 35740050 35740041 17866270 >> (LF) GCCAGGTTGG 17873771 << (RF) CGCCCCGCGT 17866280 >> GTGGCTCACGCCTGTAATCCCAGCACTTTGGGACGCCAAGGCAGGCGGATCACTTGAGGTCAGGAGTTCGAGACC >> 17866354 17873761 << **********************T**********C************T******--***********T******** << 17873689 17866355 >> AGCCTGGCCAACA-TGATGAAACCCCATCTCTACTAAAAATACAAAAAAAAAAAAAATTAGGCAGGCGTGGTGGT >> 17866428 17873688 << *A******A***CG**-*********C**********************--------****-*A**-***-**** << 17873626 17866429 >> G-CATGC-C-TGTAATCCTAACTATCT-GGGAGGCTGAATG-GGATGATTGCTTGAACCTGGGAGGCAGAGGTTG >> 17866498 17873625 << *C*****T*G****C***G*C***-**G**********CCGT***CT**G***************T*C******* << 17873552 17866499 >> CAGTGAGCCGAGATCGCGCCACTGCACACTCCAGCCTGGGTGACAGGGTGAGACTCCGTCTCAAAAAAAAAAAAG >> 17866573 17873551 << *********T***GA**T*********--****************************T***************** << 17873479 Statistics Matches: 252 (84.00%), Mismatches: 25 (8.33%), Indels: 23 (7.67%) ATpairs: 46.43%, CGpairs: 53.57%, GTpairs: 0.00% :i = 17873503 tupleindex: 3 intervalindex: 1 matches_in_interval: 121.0000 lowcenter: 35740028 highcenter: 35740076 testcenter: 35740052 im3: 31.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17873514 center: 35743768 interval size: 300 g: 3 Alignment explanation
Indices: 17869995--17870294,17873474--17873772 Loop: 3179 Score: 391 Left Length: 300 Right Length: 299 Average length: 299.5 3 most common centers (desc): 35743768 35743767 0 17869985 >> (LF) AATGATTTTA 17873782 << (RF) TTCACTCTGG 17869995 >> GGCTGGGCGCAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCTGGTGGATCACCTGAGGTCAGG >> 17870069 17873772 << ***C*****************************T**************T****T**GT******--********* << 17873700 17870070 >> AGTTCAAGACCAACCTGACCAACATGGTGAAACCCTGTCTCTACTAAAAATACAAAAA-TTAGCCAGGCATGGTG >> 17870143 17873699 << **T**C******A****C*A***CGA*********G**********************T*****AC**AC***** << 17873625 17870144 >> GTGGGTGTTTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCACTTGAACCTGGGAGGCAGAGGTTGCA >> 17870218 17873624 << *GTA*GTGG****************G**********************C**************T*C********* << 17873550 17870219 >> GTGAGCCGAGATCACGCCACTGCACTCCAGCCTGGGTGACAGAGCGAGACTCCATCTCAAAAAAAAAAAAAAAAA >> 17870293 17873549 << *******T***GAC*T**************************C*A*************************C**** << 17873475 17870294 >> G >> 17870294 17873474 << * << 17873474 Statistics Matches: 260 (86.38%), Mismatches: 38 (12.62%), Indels: 3 (1.00%) ATpairs: 45.00%, CGpairs: 55.00%, GTpairs: 0.00% :i = 17873514 tupleindex: 3 intervalindex: 1 matches_in_interval: 195.0000 lowcenter: 35743744 highcenter: 35743792 testcenter: 35743768 im3: 32.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17873527 center: 35746502 interval size: 160 g: 2 Alignment explanation
Indices: 17872744--17872994,17873508--17873772 Loop: 513 Score: 245 Left Length: 251 Right Length: 265 Average length: 258.0 3 most common centers (desc): 35746509 35746516 35746510 17872734 >> (LF) AAGGAAGCAG 17873782 << (RF) TTCACTCTGG 17872744 >> GGCTGGGCTCAATGGCTCACGCCTGTAATCCTAGCACTTTGGGAGGCCAAGGCAGGCAGAGC-C-----CAGGAG >> 17872812 17873772 << ***C****C**C*******************G*T**************************A*T*CTCCA****** << 17873698 17872813 >> TTCGAGACCAGTCTGGCCAACA-TGGCAAAGCCCCATCTCTACAAAAAATATAAAAA-TTAGCCGGGCATGGTGG >> 17872885 17873697 << T*********AG*****A***CG**AC***-****C*******A*******G*****T*****A***AC****** << 17873624 17872886 >> CACGTGCCTGTTGTCCCAGCTACTCAGGAGGCTGAGGTGGGAGGATTGCTTGAGCCCC--A-A-GG-G-T-GCAG >> 17872953 17873623 << **A*GT*****T*************C***********GT****T**G******T**ACCC*C*G**T*C*A**** << 17873549 17872954 >> TGAGCCATGATAGCGCCACTGCACTCCAGCCTGGGTGACAG >> 17872994 17873548 << *******T**GA**T************************** << 17873508 Statistics Matches: 215 (80.83%), Mismatches: 35 (13.16%), Indels: 16 (6.02%) ATpairs: 40.93%, CGpairs: 59.07%, GTpairs: 0.00% :i = 17873527 tupleindex: 2 intervalindex: 2 matches_in_interval: 162.0000 lowcenter: 35746484 highcenter: 35746520 testcenter: 35746502 im3: 27.0000 frequent_center_ratio*rnkp: 21.3900 Found at i: 17873530 center: 35744832 interval size: 300 g: 3 Alignment explanation
Indices: 17871299--17871352,17873480--17873533 Loop: 2127 Score: 63 Left Length: 54 Right Length: 54 Average length: 54.0 3 most common centers (desc): 35744832 0 0 17871289 >> (LF) AACGAGAGTG 17873543 << (RF) GTTCTGACGT 17871299 >> CCTCTGCACTTCAGTCTGGGCTACAGAGTGAGACCCTGTCTCAAAAAAAAAAAA >> 17871352 17873533 << **T*******G***G*****AC****C*******A*GT**************** << 17873480 Statistics Matches: 45 (83.33%), Mismatches: 9 (16.67%), Indels: 0 (0.00%) ATpairs: 53.33%, CGpairs: 46.67%, GTpairs: 0.00% :i = 17873530 tupleindex: 3 intervalindex: 1 matches_in_interval: 132.0000 lowcenter: 35744808 highcenter: 35744856 testcenter: 35744832 im3: 30.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17873575 center: 35741587 interval size: 300 g: 3 Alignment explanation
Indices: 17867816--17868104,17873480--17873772 Loop: 5375 Score: 309 Left Length: 289 Right Length: 293 Average length: 291.0 3 most common centers (desc): 35741587 35741590 35741588 17867806 >> (LF) ACGGTTATGA 17873782 << (RF) TTCACTCTGG 17867816 >> GGCTGGGCACGGTGGCTCACACCTGTAATCTCTGCACTTTGGGAGGCCGAGGCAAGTGGATCACTTGAGGCCAGC >> 17867890 17873772 << ***C****C*T*********C*********G*TT**************T*****C*GT******--****A***C << 17873700 17867891 >> AGTTCGAGACCAGCCTGACCAATGTGGTGAAACCCCATCTCTACTAAAAATACAAAAA-TTAGCTGGGTG-G-TG >> 17867962 17873699 << **T*********A****C*A**G*GA**********C*********************T***********A*C** << 17873625 17867963 >> GCACATGCCTGTAATCCCAGTTACTCGGGAGGCTGAGGCAAGAGAATTGCTTGAACCCAGGAGGCGGAGGCTGCA >> 17868037 17873624 << ***ACGT******C******G*******************C******G*********AC****T******A**** << 17873550 17868038 >> GTGAGCCGAGATTGTGCCTCTGCACTCCAGCCTGGGCAACAGAGC-AGAC-CC-TGTAAAAAAGAAAAAA >> 17868104 17873549 << *******T***G**GT**T*****************AC****C*AC****A**T*G*G*****T****** << 17873480 Statistics Matches: 242 (82.03%), Mismatches: 45 (15.25%), Indels: 8 (2.71%) ATpairs: 44.21%, CGpairs: 55.79%, GTpairs: 0.00% :i = 17873575 tupleindex: 3 intervalindex: 1 matches_in_interval: 96.0000 lowcenter: 35741563 highcenter: 35741611 testcenter: 35741587 im3: 43.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17874563 center: 35748836 interval size: 80 g: 2 Alignment explanation
Indices: 17874182--17874315,17874522--17874654 Loop: 206 Score: 92 Left Length: 134 Right Length: 133 Average length: 133.5 3 most common centers (desc): 35748836 35748837 0 17874172 >> (LF) ATTTATTTAC 17874664 << (RF) GTCGATTGAA 17874182 >> TTATATTTTTTATAGAGATGGGATCTTGCTATGTTATCTAAGCTGGTCTCAAACTCCTGGCCTC-AGGCAGTCTT >> 17874255 17874654 << **C*******TGG*****GT**A*-*G**G*****CC*G*C*********G*********C***C**TA*-***C << 17874582 17874256 >> TA-GCCTTTGCCTCCCAAAGTGCTGGGATTATAGGCATGAGCCACCATACCTGGCCCTGGA >> 17874315 17874581 << GGA****GC**************G***********AC*A*****T**GC*******-**** << 17874522 Statistics Matches: 102 (75.00%), Mismatches: 29 (21.32%), Indels: 5 (3.68%) ATpairs: 49.02%, CGpairs: 50.98%, GTpairs: 0.00% :i = 17874563 tupleindex: 2 intervalindex: 1 matches_in_interval: 55.0000 lowcenter: 35748824 highcenter: 35748848 testcenter: 35748836 im3: 28.0000 frequent_center_ratio*rnkp: 12.7600 Found at i: 17874986 center: 35749756 interval size: 80 g: 2 Alignment explanation
Indices: 17874547--17874802,17874954--17875218 Loop: 151 Score: 158 Left Length: 256 Right Length: 265 Average length: 260.5 3 most common centers (desc): 35749765 35749756 35749755 17874537 >> (LF) TTGGCTAACA 17875228 << (RF) TACCAAGTAC 17874547 >> CCTATAATCCCGGCACTTTGGGAGGCCGAGGCAGGCAGATATCTCGAGCCCAGGAGTTGGAGACCAGCCTGGCCA >> 17874621 17875218 << ***********T**A***********AT*******TC***GT**A*******T*****A*************T** << 17875144 17874622 >> ACATGGCGAAACCTG-TCTCTGGTAAAAATACAAAAG-TTAGCT-GG-GCA-TGGTG-G--C--AG-GCGCCAGA >> 17874685 17875143 << ****T*A**C****GG**G**TGT***C*-*AA****T**C**GT**A*A*G*****G*AC*GG*AT*AAT***A << 17875070 17874686 >> TACTTGGGAGGCTGAAGTAGGAGGATCACCTGAGCCTGAGGAGGTCAAGGCTGCAGTGAGTTGTGATCGCACTAC >> 17874760 17875069 << G**********T***C**C******GAC*A******GA-******AC*************GGT*****T*G*GA* << 17874996 17874761 >> TGAACTCCGGCCTGGGTGACAGAGTGAGGCCTTGTCTCAAAA >> 17874802 17874995 << **G*****T***************GT**T*AG********** << 17874954 Statistics Matches: 197 (73.78%), Mismatches: 57 (21.35%), Indels: 13 (4.87%) ATpairs: 43.15%, CGpairs: 56.85%, GTpairs: 0.00% :i = 17874986 tupleindex: 2 intervalindex: 1 matches_in_interval: 46.0000 lowcenter: 35749744 highcenter: 35749768 testcenter: 35749756 im3: 25.0000 frequent_center_ratio*rnkp: 12.7600 Found at i: 17875173 center: 35747975 interval size: 300 g: 3 Alignment explanation
Indices: 17872755--17873019,17874952--17875228 Loop: 1932 Score: 192 Left Length: 265 Right Length: 277 Average length: 271.0 3 most common centers (desc): 35747975 35747968 35747983 17872745 >> (LF) GCTGGGCTCA 17875238 << (RF) TGGATCGTTC 17872755 >> ATGGCTCACGCCTGTAATCCTAGCACTTTGGGAGGCCAAGGCAGG-----CA---GAGCCCAGGAGTTCGAGACC >> 17872821 17875228 << ****A***A****T******G***A***********A********TCCTA**GAA*******T*****A****** << 17875154 17872822 >> AGTCTGGCCAACATGGCAAAGCCCCATCTCTACAAAA-AATATAAAAATTAGCCGGGCATGGTGGCACGTGCCTG >> 17872895 17875153 << **G****T******T*AC*CT**A*G**G********C***-****C***C***T**AC*TG***AC******GT << 17875080 17872896 >> TTGTCCCAGCTACTCAGGAGGCTGAGGTGGGAGGATTGCTTGAGCCCCA-AGG--G----TGCAGTGAGCCATGA >> 17872963 17875079 << *T**AT***AG***AC*****T*************G***********ACC***AA*TCCG*************** << 17875005 17872964 >> TAGCGCCACTGCACTCCAGCCTGGGTGACAGAGCAAAAGACCTTGTCTTCAAAAAA >> 17873019 17875004 << *GT*G**A****************************--***AG*****-******* << 17874952 Statistics Matches: 215 (76.51%), Mismatches: 46 (16.37%), Indels: 20 (7.12%) ATpairs: 45.12%, CGpairs: 54.88%, GTpairs: 0.00% :i = 17875173 tupleindex: 3 intervalindex: 1 matches_in_interval: 108.0000 lowcenter: 35747951 highcenter: 35747999 testcenter: 35747975 im3: 47.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17875182 center: 35745234 interval size: 300 g: 3 Alignment explanation
Indices: 17870007--17870286,17874948--17875227 Loop: 4661 Score: 243 Left Length: 280 Right Length: 280 Average length: 280.0 3 most common centers (desc): 35745234 35745233 0 17869997 >> (LF) CTGGGCGCAG 17875237 << (RF) GGATCGTTCT 17870007 >> TGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCTGGTGGATCACCTGAGGTCAGGAGTTCAAGACCA >> 17870081 17875227 << ***A***A****T**********A***********AT****T**T*******A****GG**T*****AC****** << 17875153 17870082 >> ACCTGACCAACATGGTGAAACCCTGTCTCTACTAAA-AATACAAAAATTAGCCAGGCATGGTGGTGGGTGTTTGT >> 17870155 17875152 << C****CT******T****C***AGG**G****T***C***A-***C***C******AC*TG*****G***GGGT* << 17875079 17870156 >> AGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCACTTGAACCTGGGAGGCAGAGGTTGCAGTGAGCCGAGAT >> 17870230 17875078 << ***AT***AG**********T*****AC****C*GAC*****C**GA*****AA****G***********TA*** << 17875004 17870231 >> CACGCCACTGCACTCCAGCCTGGGTGACAGAGCGAGACTCCATCTCAAAAAAAAAA >> 17870286 17875003 << ***G**A**************************T******AC**********C*** << 17874948 Statistics Matches: 218 (77.58%), Mismatches: 61 (21.71%), Indels: 2 (0.71%) ATpairs: 46.33%, CGpairs: 53.67%, GTpairs: 0.00% :i = 17875182 tupleindex: 3 intervalindex: 1 matches_in_interval: 106.0000 lowcenter: 35745210 highcenter: 35745258 testcenter: 35745234 im3: 64.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17875190 center: 35741508 interval size: 300 g: 3 Alignment explanation
Indices: 17866281--17866570,17874948--17875227 Loop: 8377 Score: 209 Left Length: 290 Right Length: 280 Average length: 285.0 3 most common centers (desc): 35741508 35741516 35741517 17866271 >> (LF) CCAGGTTGGG 17875237 << (RF) GGATCGTTCT 17866281 >> TGGCTCACGCCTGTAATCCCAGCACTTTGGGACGCCAAGGCAGGCGGATCACTTGAGGTCAGGAGTTCGAGACCA >> 17866355 17875227 << ***A***A****T**********A********C**A********T************GG**T*****A******* << 17875153 17866356 >> GCCTGGCCAACATGATGAAACCCCATCTCTACTAAAAATACAAAAAAAAAAAAAATTAGGCAGGCGTGGTGGTGC >> 17866430 17875152 << ******T******TC***C***A*G**-*--***------*****C**AA***C***C*G****A**TG****** << 17875087 17866431 >> ATGCCTGTAATCCTA-ACTATCT-GGGAGGCTGAA-TGGGATGATTGCTTGAACCTGGGAGGCAGAGGTTGCAGT >> 17866502 17875086 << C****GT**C*--**G*C*GT**A******T***CC*****C**G*******C**GA*****AA****G****** << 17875014 17866503 >> GAGCCGAGATCGCGCCACTGCACACTCCAGCCTGGGTGACAGGGTGAGACTCCGTCTCAAAAAAAAAA >> 17866570 17875013 << *****TA****T*G**A******--*****************T*GT******A***********C*** << 17874948 Statistics Matches: 224 (76.45%), Mismatches: 53 (18.09%), Indels: 16 (5.46%) ATpairs: 46.88%, CGpairs: 53.13%, GTpairs: 0.00% :i = 17875190 tupleindex: 3 intervalindex: 1 matches_in_interval: 116.0000 lowcenter: 35741484 highcenter: 35741532 testcenter: 35741508 im3: 32.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17875795 center: 35750990 interval size: 80 g: 2 Alignment explanation
Indices: 17874948--17875255,17875735--17876046 Loop: 479 Score: 242 Left Length: 308 Right Length: 312 Average length: 310.0 3 most common centers (desc): 35750990 35750991 35750992 17874938 >> (LF) TAATACAATG 17876056 << (RF) TATATTAAAA 17874948 >> TTTCTTTTTTGAGACAGAGTCTT-GC-TCTGTCACCC-AGGCTGGAGT-GCAGAGGGGTGATCATGGCTCACTGC >> 17875018 17876046 << ***A*******************T**G*A********G**********A****A*A--**-***CT********* << 17875975 17875019 >> A-GCCTCAACCTCCA-GGGCTCAAGCAGTCCTCCCACCTCATCCTCCCAAGTGACTGTAACTATGGGCACGCACC >> 17875091 17875974 << *T*******A**A*AA*********ACT*************C*****AC***TC***CC****GT*****TAC** << 17875900 17875092 >> AGTACACCTGGCCAATCTTTAATTCTTTTGTAGGGAGGAGGTCTCA-CTATGTTGTCCA-GGCTGGTCTCAAACT >> 17875164 17875899 << *GG***A*GT**A***A***A***-******C*T**ATC*******T********C**GA*********AC**** << 17875826 17875165 >> CTTGGGCTCAAGTGATCCTCCTGCCTTAGCCTCCCAAAGAGCTGGGATTATAGGCATGAACCATCTTG-CTAGGT >> 17875238 17875825 << *G***G****************T***G************A****T*****GG**AC***C***G*C**A**-*** << 17875752 17875239 >> C--ACAAACTTGTTTTTAA >> 17875255 17875751 << *GA*****-*-******** << 17875735 Statistics Matches: 247 (77.43%), Mismatches: 54 (16.93%), Indels: 18 (5.64%) ATpairs: 49.39%, CGpairs: 50.61%, GTpairs: 0.00% :i = 17875795 tupleindex: 2 intervalindex: 1 matches_in_interval: 43.0000 lowcenter: 35750978 highcenter: 35751002 testcenter: 35750990 im3: 23.0000 frequent_center_ratio*rnkp: 12.7600 Found at i: 17875922 center: 35745731 interval size: 300 g: 3 Alignment explanation
Indices: 17869684--17869956,17875776--17876050 Loop: 5819 Score: 180 Left Length: 273 Right Length: 275 Average length: 274.0 3 most common centers (desc): 35745731 35745734 35745732 17869674 >> (LF) TTGTAAAATT 17876060 << (RF) TTTTTATATT 17869684 >> TTTTTTTTTTTTTTGAGGCGGAGTCTC-GC-TCCGTTGCCC-AGGCTGGAGT-GCAGTGGCACGATCTCTGCTCA >> 17869754 17876050 << *****************T*T******AT**G*AA**GT***G**********A******AA--*-**TCT***** << 17875979 17869755 >> CTGCAAGC-TCCGCCACCC-GGGTTCACGCCATTCTCCTGCCTCAGCCTCTCAAGTAGCTGGGACTACAGGTGTC >> 17869827 17875978 << ********G**TTA*AA*AA***G***T*AC**G****GT**********GAC******************GTGT << 17875904 17869828 >> CACTACCAAGCCCAGCTAATTTTTTTTTATATTTTTAGTAGAGACAGGGTTTCACCG-TGTTAGTCA-GGATGGT >> 17869900 17875903 << AC*G****GTA**************---**-*****-**C****A*****G***T*AT****C*G*GA**G**** << 17875834 17869901 >> CTTGATCTCCTGACCTC--GTGATCCACCCACCTCAGCCTCCCAAAGTGCTGGGATTA >> 17869956 17875833 << *****T******C****TT*******A**A**********************T***** << 17875776 Statistics Matches: 213 (75.27%), Mismatches: 52 (18.37%), Indels: 18 (6.36%) ATpairs: 47.89%, CGpairs: 52.11%, GTpairs: 0.00% :i = 17875922 tupleindex: 3 intervalindex: 1 matches_in_interval: 115.0000 lowcenter: 35745707 highcenter: 35745755 testcenter: 35745731 im3: 29.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17875934 center: 35749525 interval size: 300 g: 3 Alignment explanation
Indices: 17873480--17873761,17875762--17876048 Loop: 2000 Score: 254 Left Length: 282 Right Length: 287 Average length: 284.5 3 most common centers (desc): 35749525 35749523 35749526 17873470 >> (LF) TTCTCTTTTC 17876058 << (RF) TTTATATTAA 17873480 >> TTTTTTTTTTTTGAGATGGAGTCTCACCCT--GTCACCC-AGGCTGGAGT-GCAGTGGTGCAGTCTTGGCTCACT >> 17873550 17876048 << ****************GT******A*C***AA*******G**********A******A**---**TCT******* << 17875977 17873551 >> GCAA-CCTCCGTCTCCCAGGT-TCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGTGCATG >> 17873623 17875976 << ****C****TT***A*AA**CG*****A***G****GT***********A*******************GT**** << 17875902 17873624 >> CCACCACACCCAGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCA-CAGCGTTAGCCA-GGATGGTCTCGA >> 17873696 17875901 << ********A**************T*-*****-**C****AT****G***T*ATA***C***GA**G******A** << 17875829 17873697 >> TCTCCTGACCTC--GTGATCTGCCTGCCTTGGCCTCCCAAAGTGTTGGGATTACAGGCGTGAGCCAC >> 17873761 17875828 << T******C****TT******GA***T***GT*************G**T******G**A********* << 17875762 Statistics Matches: 232 (79.45%), Mismatches: 45 (15.41%), Indels: 15 (5.14%) ATpairs: 46.55%, CGpairs: 53.45%, GTpairs: 0.00% :i = 17875934 tupleindex: 3 intervalindex: 1 matches_in_interval: 97.0000 lowcenter: 35749501 highcenter: 35749549 testcenter: 35749525 im3: 52.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17875998 center: 35745424 interval size: 300 g: 3 Alignment explanation
Indices: 17869385--17869677,17875741--17876043 Loop: 6063 Score: 212 Left Length: 293 Right Length: 303 Average length: 298.0 3 most common centers (desc): 35745424 35745421 35745420 17869375 >> (LF) TTTTGTTTGG 17876053 << (RF) ATTAAAAAAA 17869385 >> TTTTGTTGAGACAGGGTCTT-GC-TCTATTGCCC-AGGTCGGAGT-GCAGTGGTGCGATTATAGCTCACTGCA-G >> 17869454 17876043 << ****A*********T*****T**G*A*C*GT***G***GA*****A******A**---*G*C***********T* << 17875972 17869455 >> CCTCGATCTTCTTTG-CTCA-GCAATACTCCTGCCTCAGCCTCTCAAGTAGCTGGGATAACAGGCGCA--CC-C- >> 17869525 17875971 << ****T********C*C****T*AC**G****GT**********GAC***********GA******T**AC**T*G << 17875897 17869524 >> ACATGCCTGGCTAATTTTTTTGATTTTTGGTAGAGAGAGG-TCTTG-CTGTGTTG-CCCAGGCTGGTTTGGAACT >> 17869595 17875896 << ****-**T*-**********--******A**C****A***C***GTT**T*****C***A*******G*A***** << 17875826 17869596 >> CCTGAACTCAAGTGATACCCCTGCCACGGCCTCCTAA-GTCCTGGGATTACAGGTGTGAGCCACCATGCCTG-TC >> 17869668 17875825 << ****CG**********G*A***T**A*T******G**T**C***T******G*************C**A***C** << 17875751 17869669 >> CT-CAATTGT >> 17869677 17875750 << **T***T*** << 17875741 Statistics Matches: 238 (76.77%), Mismatches: 48 (15.48%), Indels: 24 (7.74%) ATpairs: 47.90%, CGpairs: 52.10%, GTpairs: 0.00% :i = 17875998 tupleindex: 3 intervalindex: 1 matches_in_interval: 133.0000 lowcenter: 35745400 highcenter: 35745448 testcenter: 35745424 im3: 28.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17876005 center: 35738369 interval size: 300 g: 3 Alignment explanation
Indices: 17862322--17862605,17875762--17876050 Loop: 13156 Score: 208 Left Length: 284 Right Length: 289 Average length: 286.5 3 most common centers (desc): 35738369 35738367 35738371 17862312 >> (LF) ATCTTTTTTT 17876060 << (RF) TTTTTATATT 17862322 >> TTTTTTTTTTTTTTAAGACGGAGTCTCGGTCT--GTCACCC-AGGCTGGAGT-GCAGTGGCGGGATCTCGGCTCA >> 17862392 17876050 << **************C****T******AT*G**AA*******G**********A******AA*---**TCT***** << 17875979 17862393 >> CTGCAAGC-TCCGCCTCCCAGGT-TCACGCCATTCTCCTGCCTCAGCCTCCCGAGCAGCTGGGACTACAGGCTCC >> 17862465 17875978 << ********G**TTA**A*AA**CG***T*AC**G****GT***********A***A****************T*T << 17875904 17862466 >> CATCACCACGCTCGGCTAAGTTTTTGTAATTTTAGTAGAGACAGGGTTTCACCG-TGTTAGCCA-GGATGGTCTC >> 17862538 17875903 << ACG******TAG*T*****-*****-**A****A**C****A*****G***T*AT****C***GA**G******A << 17875831 17862539 >> GATCTCCTGACCTC--GTGATCTGCCTGCCTCGGCCTCCCAAAGTGCTGGGATTACAGGCGTGAACCAC >> 17862605 17875830 << **T******C****TT******GA***T****T****************T******G**A****C**** << 17875762 Statistics Matches: 224 (76.19%), Mismatches: 55 (18.71%), Indels: 15 (5.10%) ATpairs: 45.54%, CGpairs: 54.46%, GTpairs: 0.00% :i = 17876005 tupleindex: 3 intervalindex: 1 matches_in_interval: 98.0000 lowcenter: 35738345 highcenter: 35738393 testcenter: 35738369 im3: 34.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17876237 center: 35752183 interval size: 80 g: 2 Alignment explanation
Indices: 17875893--17876050,17876132--17876290 Loop: 81 Score: 100 Left Length: 158 Right Length: 159 Average length: 158.5 3 most common centers (desc): 35752183 35752184 35752182 17875883 >> (LF) AATTAGCTGG 17876300 << (RF) CGGAATCCTT 17875893 >> ATGTGGTGGCATGTGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGTG-GGAGGATCACTTGAGCCCAAGAAGAT >> 17875966 17876290 << *****-*****C*********T*******G***************TGTT****T*********T***CC**C*CG << 17876217 17875967 >> TGAGGCTTGCAGTGAGCTCTGACAA--C-ACTGCAACTCCAGCCTGGGGTGACAAAGGCTAAGACTCTGTCTCAA >> 17876038 17876216 << T****A***********GCT**AACAC*G******-************GT-**C***TC*C*T**C*G***TT** << 17876144 17876039 >> AAAAAAAAAAAA >> 17876050 17876143 << G***G****G** << 17876132 Statistics Matches: 120 (74.07%), Mismatches: 35 (21.60%), Indels: 7 (4.32%) ATpairs: 46.67%, CGpairs: 53.33%, GTpairs: 0.00% :i = 17876237 tupleindex: 2 intervalindex: 1 matches_in_interval: 40.0000 lowcenter: 35752171 highcenter: 35752195 testcenter: 35752183 im3: 20.0000 frequent_center_ratio*rnkp: 12.7600 Found at i: 17876272 center: 35752048 interval size: 80 g: 2 Alignment explanation
Indices: 17875772--17875827,17876220--17876276 Loop: 392 Score: 45 Left Length: 56 Right Length: 57 Average length: 56.5 3 most common centers (desc): 35752047 35752048 0 17875762 >> (LF) GTGGCTCACA 17876286 << (RF) CACCGTCCAC 17875772 >> CCGGTAATCTCAGC-ACTTTGGGAGGCTGAGGTA-GGAGGATCACTTGAGGCCAGGAG >> 17875827 17876276 << **A******G****G***GT**-********TG*T****T*********TG**C**** << 17876220 Statistics Matches: 45 (77.59%), Mismatches: 10 (17.24%), Indels: 3 (5.17%) ATpairs: 42.22%, CGpairs: 57.78%, GTpairs: 0.00% :i = 17876272 tupleindex: 2 intervalindex: 1 matches_in_interval: 34.0000 lowcenter: 35752036 highcenter: 35752060 testcenter: 35752048 im3: 15.0000 frequent_center_ratio*rnkp: 12.7600 Found at i: 17876418 center: 35752251 interval size: 80 g: 2 Alignment explanation
Indices: 17875760--17875897,17876355--17876491 Loop: 457 Score: 117 Left Length: 138 Right Length: 137 Average length: 137.5 3 most common centers (desc): 35752251 35752252 35752253 17875750 >> (LF) GGACCAGACA 17876501 << (RF) GTCGCCCGAC 17875760 >> CGGTGGCTCACACCGGTAATCTCAGCACTTTGGGAGGCTGAGGTAGGAGGATCACTTGAGGCCAGGAGTTCAAGA >> 17875834 17876491 << **********AC**A******GA***************GT***GC**A*G*****G**G**AA**G*****C*** << 17876417 17875835 >> CCAGCCAGGGCCAACATAGTTGAGACCCTATCTCCACAAAAAATA-AAAAATTAGCTGGATGTG >> 17875897 17876416 << ******A**-**A****C**-**T***A*C****AC*A*******G********G****C**** << 17876355 Statistics Matches: 108 (77.70%), Mismatches: 28 (20.14%), Indels: 3 (2.16%) ATpairs: 48.15%, CGpairs: 51.85%, GTpairs: 0.00% :i = 17876418 tupleindex: 2 intervalindex: 1 matches_in_interval: 63.0000 lowcenter: 35752239 highcenter: 35752263 testcenter: 35752251 im3: 13.0000 frequent_center_ratio*rnkp: 12.7600 Found at i: 17878888 center: 35752511 interval size: 300 g: 3 Alignment explanation
Indices: 17873476--17873772,17878739--17879030 Loop: 4966 Score: 345 Left Length: 297 Right Length: 292 Average length: 294.5 3 most common centers (desc): 35752511 35752504 35752506 17873466 >> (LF) TTTCTTCTCT 17879040 << (RF) ACTCAAAAAC 17873476 >> TTTCTTT-TTT-TTTTTTGAGATGGAGTCTCACCCTGTCACCCAGGCTGGAGTGCAGTGGTGCAGTCTTGGCTCA >> 17873548 17879030 << ***C***C***C**********G********A*A****------**-*****G***********T***G****** << 17878963 17873549 >> CTGCAACCTCCGTCTCCCAGGTTCAAGCGATTCTCCTGCCTCAGCCTCCCGAGTAGCTGGGACTACAGGTGCATG >> 17873623 17878962 << ************G****AC*********T********************T************A*********GG* << 17878888 17873624 >> CCACCACACCCAGCTAATTTTTTGTATTTTTAGTAGAGACGGGGTTTCACAGCGTTAGCCAGGATGGTCTCGATC >> 17873698 17878887 << ******ACA********G**********************T*********ATA***C******G*******T*T* << 17878813 17873699 >> TCCTGACCTCGTGATCTGCCTGCCTTGGCCTCCCAAAGTGTTGGGATTACAGGCGTGAGCCACTGCGCCCCGCC >> 17873772 17878812 << ****************G***GA***G**************G*****G*****T*********AGT*****C*** << 17878739 Statistics Matches: 252 (84.28%), Mismatches: 38 (12.71%), Indels: 9 (3.01%) ATpairs: 44.84%, CGpairs: 55.16%, GTpairs: 0.00% :i = 17878888 tupleindex: 3 intervalindex: 1 matches_in_interval: 102.0000 lowcenter: 35752487 highcenter: 35752535 testcenter: 35752511 im3: 93.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17878963 center: 35748717 interval size: 300 g: 3 Alignment explanation
Indices: 17869684--17869956,17878764--17879026 Loop: 8807 Score: 289 Left Length: 273 Right Length: 263 Average length: 268.0 3 most common centers (desc): 35748717 35748720 35748710 17869674 >> (LF) TTGTAAAATT 17879036 << (RF) AAAAACAAAC 17869684 >> TTTTTTTTTTTTTTGAGGCGGAGTCTCGCTCCGTTGCCCAGGCTGGAGTGCAGTGGCACGATCTCTGCTCACTGC >> 17869758 17879026 << ***C***C*********T*********A***A**-*----*--*****G*******AC*T*****C********* << 17878959 17869759 >> AAGCTCCGCCACCCGGGTTCACGCCATTCTCCTGCCTCAGCCTCTCA-AGTAGCTGGGACTACAGGTGTCCACTA >> 17869832 17878958 << **G*******A**A*******T**T*******************-**C***********A********G**C*G* << 17878885 17869833 >> CCAAGCCCAGCTAATTTTTTTTTATATTTTTAGTAGAGACAGGGTTTCACCGTGTTAGTCAGGATGGTCTTGATC >> 17869907 17878884 << ***A*A********G*****C*-**-****-*******************AT****C*G****G******GT*T* << 17878813 17869908 >> TCCTGACCTCGTGATCCACCCACCTCAGCCTCCCAAAGTGCTGGGATTA >> 17869956 17878812 << *****************C***A****C*******************G** << 17878764 Statistics Matches: 227 (82.85%), Mismatches: 35 (12.77%), Indels: 12 (4.38%) ATpairs: 46.26%, CGpairs: 53.74%, GTpairs: 0.00% :i = 17878963 tupleindex: 3 intervalindex: 1 matches_in_interval: 138.0000 lowcenter: 35748693 highcenter: 35748741 testcenter: 35748717 im3: 67.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17879035 center: 35748410 interval size: 300 g: 3 Alignment explanation
Indices: 17869365--17869670,17878738--17879035 Loop: 9067 Score: 222 Left Length: 306 Right Length: 298 Average length: 302.0 3 most common centers (desc): 35748408 35748410 35748411 17869355 >> (LF) CTGTTTTTTG 17879045 << (RF) AATAAACTCA 17869365 >> TTTTGTTTGGTTTTGTTTGGTTTTGTTGAGACAGGGTCTTGCTCTATTGCCCAGGTCGGAGTGCAGTGGTGCGAT >> 17869439 17879035 << *********-***-*****-****-*******C*T****--****G*-*A---***-****G**********T** << 17878972 17869440 >> TATAGCTCACTGCAGCCTCGATCTTCTTTGCTCA-GCAATACTCCTGCCTCAGCCTCTCA-AGTAGCTGGGATAA >> 17869512 17878971 << GAGC**********T****GCG**G**CC*A***T*****A****************-**C************A* << 17878898 17869513 >> CAGGCGCAC-CCAC-ATGCCTGGCTAATTTTTTTGATTTTTGGTAGAGAGAGGTCTTG-CTGTGTTGCCCAGGCT >> 17869584 17878897 << ****A**G*C****G***A*GT*****G*****CA******T*******G***CA**GT**T*****C******* << 17878823 17869585 >> GGTTTGGAACTCCTGAACTCAAGTGATAC-CCCTGCCACGGCCTCCTAA-GTCCTGGGATTACAGGTGTGAGCCA >> 17869657 17878822 << ***G*GT*********G***--*****G*C****-**A********G**T**C******G*****TG******** << 17878751 17869658 >> CCATGCCTGTCCT >> 17869670 17878750 << A**G***G*C*** << 17878738 Statistics Matches: 241 (77.00%), Mismatches: 50 (15.97%), Indels: 22 (7.03%) ATpairs: 47.72%, CGpairs: 52.28%, GTpairs: 0.00% :i = 17879035 tupleindex: 3 intervalindex: 1 matches_in_interval: 188.0000 lowcenter: 35748386 highcenter: 35748434 testcenter: 35748410 im3: 37.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17879744 center: 35758738 interval size: 160 g: 2 Alignment explanation
Indices: 17878741--17879049,17879690--17880004 Loop: 640 Score: 349 Left Length: 309 Right Length: 315 Average length: 312.0 3 most common centers (desc): 35758745 35758744 35758738 17878731 >> (LF) TGCCCCTAGG 17880014 << (RF) TCTTAATTTT 17878741 >> CCGGGCGTGATGGCTCACGTCTGTAGTCCCAGCACTTTGGGAGGCCGAGGAGGGCGGATCACGAGGTCAGGAGTT >> 17878815 17880004 << *******G*C*******A*G*****T********************T***G**********A***G***TT**T* << 17879930 17878816 >> TGAGACCAGCCTGGCCAACATAGTGAAACCCTGTCTCTACTAAAAATACAAAAAG-TTAGCTGGACATGGTGGCG >> 17878889 17879929 << G*****A*A************C*********G****C*****************TT********C*C*T*****T << 17879855 17878890 >> GGCACCTGTAATCCCAGCTACTCTGGAGGCTGAGGCAGGAGAATTGCTTGAACCCAGGAGGCGGAGGTTGCAGTG >> 17878964 17879854 << G**C*******************T********************G*********AC******************* << 17879780 17878965 >> AGCCGAGATTGCACCACTGCGCTCCA-C----C-ACAGAGAGAGACTCCGTCTCAAAAAACAAACAAACAAACAA >> 17879033 17879779 << *********C**C******AT*****C*CACT*C******G*******C***********-***A**A-**AA** << 17879707 17879034 >> AAACTCA-AATAACAAA >> 17879049 17879706 << *G**G**C**CG***** << 17879690 Statistics Matches: 264 (83.28%), Mismatches: 43 (13.56%), Indels: 10 (3.15%) ATpairs: 46.97%, CGpairs: 53.03%, GTpairs: 0.00% :i = 17879744 tupleindex: 2 intervalindex: 2 matches_in_interval: 121.0000 lowcenter: 35758720 highcenter: 35758756 testcenter: 35758738 im3: 23.0000 frequent_center_ratio*rnkp: 21.3900 Found at i: 17879744 center: 35750002 interval size: 300 g: 3 Alignment explanation
Indices: 17869981--17870291,17879711--17880020 Loop: 9419 Score: 356 Left Length: 311 Right Length: 310 Average length: 310.5 3 most common centers (desc): 35750001 35750003 35750002 17869971 >> (LF) TAAAGTTAAA 17880030 << (RF) AACAAGTAAA 17869981 >> AAAAAATGATTTTAGGCTGGGCGCAGTGGCTCACGCCTGTAATCCCAGCACTTTGGGAGGCCGAGGCTGGTGGAT >> 17870055 17880020 << **C***T**T**T*TT*G******C********A****************************T****C**G**** << 17879946 17870056 >> CACCTGAGGTCAGGAGTTCAAGACCAACCTGACCAACATGGTGAAACCCTGTCTCTACTAAAAATACAAAAA--T >> 17870128 17879945 << **--****G***TT**T**C****A*A****C*****************G****C*****************TT* << 17879873 17870129 >> TAGCCAGGCATGGTGGTGGGTGTTTGTAGTCCCAGCTACTTGGGAGGCTGAGGCAGGAGAATCACTTGAACCTGG >> 17870203 17879872 << ****AC***C*T****GTG*G*GG****T***********GT*********************C*********** << 17879798 17870204 >> GAGGCAGAGGTTGCAGTGAGCCGAGATCACGCCACTGCACTCCAGCCTGGGTGACAGAGCGAGACTCCATCTCAA >> 17870278 17879797 << *****C*********************CC********A********C**TG-***************CC****** << 17879724 17870279 >> AAAAAAAAAAAAA >> 17870291 17879723 << *******A**A** << 17879711 Statistics Matches: 261 (83.39%), Mismatches: 47 (15.02%), Indels: 5 (1.60%) ATpairs: 47.89%, CGpairs: 52.11%, GTpairs: 0.00% :i = 17879744 tupleindex: 3 intervalindex: 1 matches_in_interval: 128.0000 lowcenter: 35749978 highcenter: 35750026 testcenter: 35750002 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17879787 center: 35746283 interval size: 300 g: 3 Alignment explanation
Indices: 17866279--17866572,17879714--17879996 Loop: 13141 Score: 292 Left Length: 294 Right Length: 283 Average length: 288.5 3 most common centers (desc): 35746277 35746283 35746275 17866269 >> (LF) GGCCAGGTTG 17880006 << (RF) TTGGCCCGCG 17866279 >> GGTGGCTCACGCCTGTAATCCCAGCACTTTGGGACGCCAAGGCAGGCGGATCACTTGAGGTCAGGAGTTCGAGAC >> 17866353 17879996 << *********A************************C********C*********-*-***G***TT**T******* << 17879924 17866354 >> CAGCCTGGCCAACATGATGAAACCCCATCTCTACTAAAAATACAAAAAAAAAAAAAATTAGGCAGGCGTGGTGGT >> 17866428 17879923 << A*A*************C*********C***C*******************-------****GAC*****T****G << 17879856 17866429 >> GCATGCCTGTAATCCTAACTATCTG-GGAGGCTGAATG-GGATGATTGCTTGAACCTGGGAGGCAGAGGTTGCAG >> 17866501 17879855 << T*CG***********G*C***-**GT*********CCGT***CT**G*****************C********** << 17879782 17866502 >> TGAGCCGAGATCGCGCCACTGCACACTCCAGCCTGGGTGACAGGGTGAGACTCCGTCTCAAAAAAAAAAAA >> 17866572 17879781 << ***********C*********A**--******C**TG-*****T*G*******C**************A** << 17879714 Statistics Matches: 242 (81.76%), Mismatches: 39 (13.18%), Indels: 15 (5.07%) ATpairs: 47.52%, CGpairs: 52.48%, GTpairs: 0.00% :i = 17879787 tupleindex: 3 intervalindex: 1 matches_in_interval: 127.0000 lowcenter: 35746259 highcenter: 35746307 testcenter: 35746283 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17879837 center: 35755758 interval size: 300 g: 3 Alignment explanation
Indices: 17875752--17876053,17879708--17880005 Loop: 3654 Score: 202 Left Length: 302 Right Length: 298 Average length: 300.0 3 most common centers (desc): 35755758 35755757 35755760 17875742 >> (LF) CATTTGTAGG 17880015 << (RF) TTCTTAATTT 17875752 >> ACCAGACACGGTGGCTCACACCGGTAATCTCAGCACTTTGGGAGGCTGAGGTAGGAGGATCACTTGAGGCCAGGA >> 17875826 17880005 << ***C*C*C**********AC**A******G****************GT***GC**G******-*-***GA**TT* << 17879933 17875827 >> GTTCAAGACCAGCCAGGGCCAACATAGTTGAGACCCTATCTCCACAAAAAATA-AAAAA--TTAGCTGGATGTGG >> 17875898 17879932 << *T**C****A*A**A**-*******C**-**T****GC***CA**A*******G*****TT********CG**T* << 17879860 17875899 >> TGGCATGTGCCTGTAGTCCCAGCTACTCAGGAGGCTGAGGTGGGAGGATCACTTGAGCCCAAGAAGATTGAGGCT >> 17875973 17879859 << *****G*G*******T************************GT****T***C*****T**ACC**C*GC-****-* << 17879787 17875974 >> TGCAGTGAGCTCTGA---CAACACTGCAACTCCAGCCTGGGGTGACAAAGGCTAAGACTCTGTCTCAAAAAAAAA >> 17876045 17879786 << **********GCT**ACC*CG*****A*-*******C**TG*--***C**-*C*-*****C************** << 17879717 17876046 >> AAA-AATTA >> 17876053 17879716 << A**A***** << 17879708 Statistics Matches: 233 (75.40%), Mismatches: 58 (18.77%), Indels: 18 (5.83%) ATpairs: 47.64%, CGpairs: 52.36%, GTpairs: 0.00% :i = 17879837 tupleindex: 3 intervalindex: 1 matches_in_interval: 134.0000 lowcenter: 35755734 highcenter: 35755782 testcenter: 35755758 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17879844 center: 35747820 interval size: 300 g: 3 Alignment explanation
Indices: 17867820--17868106,17879713--17880002 Loop: 11606 Score: 303 Left Length: 287 Right Length: 290 Average length: 288.5 3 most common centers (desc): 35747820 35747822 35747824 17867810 >> (LF) TTATGAGGCT 17880012 << (RF) TTAATTTTGG 17867820 >> GGGCACGGTGGCTCACACCTGTAATCTCTGCACTTTGGGAGGCCGAGGCAAGTGGATCACTTGAGGCCAGCAGTT >> 17867894 17880002 << ****C**********AC*********G*T***************T****CC*G******-*-***GA**TT**T* << 17879930 17867895 >> CGAGACCAGCCTGACCAATGTGGTGAAACCCCATCTCTACTAAAAATACAAAAA--TTAGCTGGGTG--GTGGCA >> 17867965 17879929 << ******A*A****C****GT************C***C*****************TT*********G*AT****** << 17879855 17867966 >> CATGCCTGTAATCCCAGTTACTCGGGAGGCTGAGGCAAGAGAATTGCTTGAACCCAGGAGGCGGAGGCTGCAGTG >> 17868040 17879854 << *CG**************G*****T*************C******G*********AC***********A******* << 17879780 17868041 >> AGCCGAGATTGTGCCTCTGCACTCCAGCCTGGGCAACAGAGC-AGACCCTGTAAAAAAGAAAAA-AAT >> 17868106 17879779 << *********C*G***T***A********C**T-*C*******C****A*C**GAG***T*****A*** << 17879713 Statistics Matches: 240 (81.91%), Mismatches: 44 (15.02%), Indels: 9 (3.07%) ATpairs: 45.00%, CGpairs: 55.00%, GTpairs: 0.00% :i = 17879844 tupleindex: 3 intervalindex: 1 matches_in_interval: 100.0000 lowcenter: 35747796 highcenter: 35747844 testcenter: 35747820 im3: 64.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17879859 center: 35752742 interval size: 300 g: 3 Alignment explanation
Indices: 17872748--17873027,17879711--17880002 Loop: 6683 Score: 219 Left Length: 280 Right Length: 292 Average length: 286.0 3 most common centers (desc): 35752742 35752744 35752750 17872738 >> (LF) AAGCAGGGCT 17880012 << (RF) TTAATTTTGG 17872748 >> GGGCTCAATGGCTCACGCCTGTAATCCTAGCACTTTGGGAGGCCAAGGCAGGC--A----GAGCCCAGGAGTTCG >> 17872816 17880002 << ****C*CC*******A***********G*********************C***CC*AGTA****A**TT**T*** << 17879928 17872817 >> AGACCAGTCTGGCCAACATGGCAAAGCCCCATCTCTACAAAAAATATAAAAA--TTAGCCGGGCATGGTGGCACG >> 17872889 17879927 << ****A*AG*************AC**T****C***C***A*******G*****TT*****A****C*T******** << 17879853 17872890 >> TGCCTGTTGTCCCAGCTACTCAGGAGGCTGAGGTGGGAGGATTGCTTGAGCCCCA-AGG-G----T-GCAGTGAG >> 17872957 17879852 << G******TT************************GT****T**G******T**ACCC***G*CTCC*A******** << 17879778 17872958 >> CCATGATAGCGCCACTGCACTCCAGCCTGGGTGACAGAGCAAAAGACCTTGTCTTCAAAAAAATTAAGAA >> 17873027 17879777 << **CT***C*********A********C**TG-********C*--***AGC****GT*******T***A** << 17879711 Statistics Matches: 228 (77.29%), Mismatches: 49 (16.61%), Indels: 18 (6.10%) ATpairs: 44.74%, CGpairs: 55.26%, GTpairs: 0.00% :i = 17879859 tupleindex: 3 intervalindex: 1 matches_in_interval: 98.0000 lowcenter: 35752718 highcenter: 35752766 testcenter: 35752742 im3: 31.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17880612 center: 35749773 interval size: 300 g: 3 Alignment explanation
Indices: 17869140--17869224,17880549--17880641 Loop: 11324 Score: 55 Left Length: 85 Right Length: 93 Average length: 89.0 3 most common centers (desc): 35749777 35749776 35749773 17869130 >> (LF) AATAGGAAGT 17880651 << (RF) TTCTTGACTC 17869140 >> AGGGAA-ATGGAAAAAT-ATGGA-ATATA-TATATATTACATATATACACACACAT-ACATACATACATACATAC >> 17869209 17880641 << ***T**A******CC**A**TG*A*****T*********A*******A*A******A*A***A***A*****G** << 17880567 17869210 >> ATAC---ATACATACATA >> 17869224 17880566 << **AAACA***A******* << 17880549 Statistics Matches: 70 (75.27%), Mismatches: 15 (16.13%), Indels: 8 (8.60%) ATpairs: 87.14%, CGpairs: 12.86%, GTpairs: 0.00% :i = 17880612 tupleindex: 3 intervalindex: 1 matches_in_interval: 266.0000 lowcenter: 35749749 highcenter: 35749797 testcenter: 35749773 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17893586 center: 35772405 interval size: 300 g: 3 Alignment explanation
Indices: 17878751--17878990,17893412--17893656 Loop: 14421 Score: 151 Left Length: 240 Right Length: 245 Average length: 242.5 3 most common centers (desc): 35772407 35772402 35772406 17878741 >> (LF) CCGGGCGTGA 17893666 << (RF) TTAGTCGGTC 17878751 >> TGGCTCACGTCTGTAGTCCCAGCACTTTGGGAGGCCGAGGAGGGCGGATCACGAG-GTC-AGGAGTTTGAGACCA >> 17878823 17893656 << ****C**A*G*****T*A*A***********AT**A**T*A***A*****A*AA*T*G*A*********C***** << 17893582 17878824 >> GCCTGGCCAACATAGTGAAACCCTGTCTCTACTAAAAATACAAAAAGTTAGCTGGACATGGTGGCGGGCACCTGT >> 17878898 17893581 << ****GTC******C*****************T-***AC**A*A***-*******TC********ATGT*A***** << 17893509 17878899 >> AATCCCAGCTACTCTGGAGGCT-GAGGCAGGAGAATTGCT----TGAACCCAGGAGGCGGAGGTTGCAGTGAGCC >> 17878968 17893508 << *C*******GA**AC*****A*A**T*AA****C**G*T*GTGG***C*********AT***AG*********AA << 17893434 17878969 >> GAGATTGCACCACTGCGCTCCA >> 17878990 17893433 << *A*****AC*******T***** << 17893412 Statistics Matches: 182 (73.68%), Mismatches: 56 (22.67%), Indels: 9 (3.64%) ATpairs: 43.96%, CGpairs: 56.04%, GTpairs: 0.00% :i = 17893586 tupleindex: 3 intervalindex: 1 matches_in_interval: 102.0000 lowcenter: 35772381 highcenter: 35772429 testcenter: 35772405 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17895197 center: 35789037 interval size: 300 g: 3 Alignment explanation
Indices: 17893669--17893970,17895069--17895366 Loop: 1098 Score: 414 Left Length: 302 Right Length: 298 Average length: 300.0 3 most common centers (desc): 35789038 35789039 35789037 17893659 >> (LF) GGCTGATTTT 17895376 << (RF) GGCATCGTTG 17893669 >> TTTTTTTTTTTTTTTGAGACGGAGTCTCACTCTGTTGCCCAGGCTGGAGTGCAATGGGTGCAATCTCGGCCCACT >> 17893743 17895366 << ***********************************G*****************C***-***C*****T**A**** << 17895293 17893744 >> ACAATCTCCACCTCCCAGGTGTTCAAGTGATTCTCCTGCCTCAGCCTCCTAAGTAGCTGGGATTACAGGTGCCCA >> 17893818 17895292 << C***G***AC**********-*-****GT********************GC******************G**T** << 17895220 17893819 >> CCACCACGCCCAGCTAATTTTT-GTATTTTTAGTAGAGATGAGGTTTCACCATGCTGGCCAGGCTGGTCTTGAAC >> 17893892 17895219 << ******A****C**********A****************GTC************A************G**G**** << 17895145 17893893 >> TCCTGACCTCAGGTGATCCACCCGCCTCGGCCTCCCAAAGTGCTGGGTTTATAGGCGTGAGCCATCACGCCCAGC >> 17893967 17895144 << C**********--**************A*******************T***G****T*******G*C******** << 17895072 17893968 >> CCC >> 17893970 17895071 << *** << 17895069 Statistics Matches: 267 (88.12%), Mismatches: 30 (9.90%), Indels: 6 (1.98%) ATpairs: 44.94%, CGpairs: 55.06%, GTpairs: 0.00% :i = 17895197 tupleindex: 3 intervalindex: 1 matches_in_interval: 109.0000 lowcenter: 35789013 highcenter: 35789061 testcenter: 35789037 im3: 51.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17895239 center: 35788739 interval size: 300 g: 3 Alignment explanation
Indices: 17893371--17893657,17895082--17895364 Loop: 1424 Score: 225 Left Length: 287 Right Length: 283 Average length: 285.0 3 most common centers (desc): 35788739 35788734 35788737 17893361 >> (LF) TTCTGATGTA 17895374 << (RF) CATCGTTGAA 17893371 >> TTTTTATTTTTTTGAGATGG-GTTTCACTCTGTTGCCCAGGCTGGAGTGCAGTGGCACAATCACAACTCACTGCA >> 17893444 17895364 << *****A***********G**T**G*********G*********************AC*C***A**C********* << 17895290 17893445 >> GACTCTACCTCCTGGGCTCAGGTGATCGATCCTCCAACTTCAAACCTCCCAAGAGGCTGGGACTACAGGAGTGTA >> 17893519 17895289 << TG****C*****GT**A***T*GT**AG-****C*--**-**C-******C**AT*******A******G*GTG* << 17895220 17893520 >> CCACCATGCTCAGCTAATTTATA-TACATTTT-TAGAGACAGGGTTTCACCATGTTGCTGAGGCTGGTCCCAAAC >> 17893592 17895219 << *********G*C********A*AC**AA***TC************************CGG*******G*A*C*** << 17895145 17893593 >> TCCTAGGCTCAAGAGATCCACCCACTTCAGCTACCCAAAGTGCTAGAATTACAGGCATGCGCCAC >> 17893657 17895144 << C***CTG****A**--*******C*G*AC**GA***********C*C************T***** << 17895082 Statistics Matches: 223 (76.90%), Mismatches: 57 (19.66%), Indels: 10 (3.45%) ATpairs: 46.64%, CGpairs: 53.36%, GTpairs: 0.00% :i = 17895239 tupleindex: 3 intervalindex: 1 matches_in_interval: 96.0000 lowcenter: 35788715 highcenter: 35788763 testcenter: 35788739 im3: 57.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17898533 center: 35792320 interval size: 300 g: 3 Alignment explanation
Indices: 17893675--17893968,17898351--17898643 Loop: 4382 Score: 341 Left Length: 294 Right Length: 293 Average length: 293.5 3 most common centers (desc): 35792318 35792320 35792316 17893665 >> (LF) TTTTTTTTTT 17898653 << (RF) GAGAGAGGAG 17893675 >> TTTTTTTTTGAGACGGAGTCTCACTCT-GTTGCCCAGGCTGGAGTGCAATGGGTGCAATCTCGGCCCACTACAAT >> 17893748 17898643 << **********C********A*******A****************G*******-****A***A***ACA**C***G << 17898570 17893749 >> CTCCACCTCCCAGGTGTTCAAGTGATTCTCCTGCCTCAGCCTCCTAAGTAGCTGGGATTACAGGTGCCCACCACC >> 17893823 17898569 << ***AC***C**-**-******************************C*********T********G*********A << 17898497 17893824 >> ACGCCCAGCTAATTTTTGT--AT-TTT-TAGTAGAGATGAGGTTTCACCATGCTGGCCAGGCTGGTCTTGAACTC >> 17893894 17898496 << CA****C**********A*AA**T***C***********C************A*******T***G***GT***** << 17898422 17893895 >> CTGACCTCAGGTGATCCACCCGCCTCGGCCTCCCAAAGTGCTGGGTTTATAGGCGTGAGCCATCACGCCCAGCC >> 17893968 17898421 << ********-*-******C*******A************G*****T**-*G************GAC*****C*** << 17898351 Statistics Matches: 252 (84.28%), Mismatches: 36 (12.04%), Indels: 11 (3.68%) ATpairs: 44.44%, CGpairs: 55.56%, GTpairs: 0.00% :i = 17898533 tupleindex: 3 intervalindex: 1 matches_in_interval: 131.0000 lowcenter: 35792296 highcenter: 35792344 testcenter: 35792320 im3: 43.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17910564 center: 35820984 interval size: 40 g: 1 Alignment explanation
Indices: 17910223--17910466,17910522--17910760 Loop: 55 Score: 246 Left Length: 244 Right Length: 239 Average length: 241.5 3 most common centers (desc): 35820982 35820983 35820984 17910213 >> (LF) GTGGATCACC 17910770 << (RF) ACCGTCTAGT 17910223 >> TGAGGTCAGGAGTTTGAGACCAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATACAAAAA-TTAGCC >> 17910296 17910760 << ************T*G*******A***T*CA****GT********AAC*************G*******T****** << 17910686 17910297 >> AGGTGTGGTGGCATGCTCCTGTAATCCCAGCTGCTCAGGAGGCTGAGGCAGGAGAATGGCTTGAACCTGGGAGGT >> 17910371 17910685 << CA*GT******ACC**T******C********T***************************C*********G***G << 17910611 17910372 >> GGAGGTTGCAGTGAACTGAGATCATCGTGCTCTGCACTCCAGCCTGAGCAACAGAGCAAGACACTATCTAAAAAA >> 17910446 17910610 << ****G*********C*G*****AC-*TG-*T***************C*********T*****A**C***G***** << 17910538 17910447 >> GAAAAGAAGGAAAAAAAAAC >> 17910466 17910538 << -****-**--*******C** << 17910522 Statistics Matches: 199 (81.22%), Mismatches: 39 (15.92%), Indels: 7 (2.86%) ATpairs: 51.26%, CGpairs: 48.74%, GTpairs: 0.00% :i = 17910564 tupleindex: 1 intervalindex: 2 matches_in_interval: 178.0000 lowcenter: 35820976 highcenter: 35820992 testcenter: 35820984 im3: 22.0000 frequent_center_ratio*rnkp: 7.6500 Found at i: 17910571 center: 35819474 interval size: 300 g: 3 Alignment explanation
Indices: 17908721--17908947,17910527--17910754 Loop: 1579 Score: 157 Left Length: 227 Right Length: 228 Average length: 227.5 3 most common centers (desc): 35819474 35819475 35819476 17908711 >> (LF) CATTTGACTC 17910764 << (RF) TAGTACTCCA 17908721 >> CAGGAGTTCAAGACCAACCTGGCCAACATCA-TGAAACCCAATCTCTACAAAAAATACACAAA-TTAGCCAGGTG >> 17908793 17910754 << ******T**C******A***T*CA****-**C*******AAC*******A*****G***T***T******CA*GT << 17910681 17908794 >> TGGTTGCATGCAGCTGTAGTCTCAGATACTCTGAAGGCTGGGGTGAGAGGATCACCTGAGCCCAGGAAATTGAGG >> 17908868 17910680 << ****C*ACC***G********G***G*****T*C******T**GTC***T**CC*C***T**AC*G*CCGC***G << 17910606 17908869 >> CTGCAGTGAGCTATGATAACATCATGGCACTCCAGCCTGGGTGACAGAGCAAGACTCTGTCTAAAAAAAGAAAAA >> 17908943 17910605 << A**********GCT***AC**G**GA***************GT******T************G******T***** << 17910531 17908944 >> AAAA >> 17908947 17910530 << **** << 17910527 Statistics Matches: 170 (74.24%), Mismatches: 56 (24.45%), Indels: 3 (1.31%) ATpairs: 52.35%, CGpairs: 47.65%, GTpairs: 0.00% :i = 17910571 tupleindex: 3 intervalindex: 1 matches_in_interval: 225.0000 lowcenter: 35819450 highcenter: 35819498 testcenter: 35819474 im3: 28.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17910576 center: 35809176 interval size: 300 g: 3 Alignment explanation
Indices: 17898404--17898643,17910534--17910769 Loop: 11890 Score: 252 Left Length: 240 Right Length: 236 Average length: 238.0 3 most common centers (desc): 35809176 35809173 35809177 17898394 >> (LF) GGCCAAGGCG 17910779 << (RF) ACTGACAAAA 17898404 >> GGCGGATCACGAGGTCAGGAGTTTGAGAGCAGTCTGGCCAACATGGTGAAACCCCATCTCTACTACAAATATAAA >> 17898478 17910769 << ***T*****A***********T*G****G**AG**T*CA****GT********AAC*********-***-*G*G* << 17910697 17898479 >> AAAAAATTAGCCGGGCACAGTGGTGGGCGCCTGTAATTCCAGCTACTCAGGAGGCTGAGGCAGGAGAATCACTTG >> 17898553 17910696 << *****-*******A***AC*********T******C*G*******************************CC*C** << 17910623 17898554 >> AACCCGGCAGGCAGAGGTTGCAGACAGCCAAGAATGCACCATTGCGCTCCAGCCTGGGCAACAAGAGTGAAACTC >> 17898628 17910622 << ****A*******C***G******AC****C***A*******G***T*****************-***TT*C**** << 17910549 17898629 >> CGTCCCAAAAAAAAA >> 17898643 17910548 << A***A********** << 17910534 Statistics Matches: 196 (81.67%), Mismatches: 40 (16.67%), Indels: 4 (1.67%) ATpairs: 47.96%, CGpairs: 52.04%, GTpairs: 0.00% :i = 17910576 tupleindex: 3 intervalindex: 1 matches_in_interval: 140.0000 lowcenter: 35809152 highcenter: 35809200 testcenter: 35809176 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17910601 center: 35813104 interval size: 300 g: 3 Alignment explanation
Indices: 17902437--17902574,17910531--17910667 Loop: 7956 Score: 94 Left Length: 138 Right Length: 137 Average length: 137.5 3 most common centers (desc): 35813104 35813105 0 17902427 >> (LF) TGGCACATGT 17910677 << (RF) ACCACCCGTG 17902437 >> CTATAATCCTAGCTACTTTGGAGTCTGAGGCAGTAGGATTGCTTGAGCCCAGGAGTTTGAGGCTGCAGTGAGCTA >> 17902511 17910667 << **C**C***G*******GT****C*********C**T**C**C***T**AC*G**CGC***GA**********GC << 17910593 17902512 >> TGGTTATACCACTGCACTCTAGACTGGGTGACAGAGCAAAAACAATACCACAAAAAAAAAAAA >> 17902574 17910592 << T*T**CG************G**G*****GT******-***C**AG*CA*A************* << 17910531 Statistics Matches: 102 (73.91%), Mismatches: 35 (25.36%), Indels: 1 (0.72%) ATpairs: 50.98%, CGpairs: 49.02%, GTpairs: 0.00% :i = 17910601 tupleindex: 3 intervalindex: 1 matches_in_interval: 194.0000 lowcenter: 35813080 highcenter: 35813128 testcenter: 35813104 im3: 31.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17912775 center: 35821676 interval size: 300 g: 3 Alignment explanation
Indices: 17908662--17908925,17912751--17913012 Loop: 3825 Score: 208 Left Length: 264 Right Length: 262 Average length: 263.0 3 most common centers (desc): 35821675 35821676 35821673 17908652 >> (LF) GCTGGGCACT 17913022 << (RF) CGGTCCTCAC 17908662 >> GTAGCTCATGCCTGTAATCC-AGTACTTTGGGAGGTCAAGGAGAGAGGATCATTTGACTCCAGGAGTTCAAGACC >> 17908735 17913012 << **C********A********A**G******A****G*****G*C*A*******CT-*C**-*******AC***** << 17912940 17908736 >> AACCTGGCCAACATCATGAAACCCAATCTCTACAAAAAATACACAAATTAGCCAGGTGTGGT--TGCATGCAGCT >> 17908808 17912939 << *C******A*****CC********AC*****A*A*********T*********C**G*****CC*******--** << 17912867 17908809 >> GTAGTCTCAGATACTCTGAAGGCTGGGGTGAGAGGATCACCTGAGCCCAGGAAATTGAGGCTGCAGTGAGCTATG >> 17908883 17912866 << ***T**G***G****AC*C******T**GG****T**AC*A*A*T**-****CCGTT***A**********G*T* << 17912793 17908884 >> ATAACATCATGGCACTCCAGCCTGGGTGACAGAGCAAGACTC >> 17908925 17912792 << **ACAC****A***************G************A** << 17912751 Statistics Matches: 205 (76.78%), Mismatches: 54 (20.22%), Indels: 8 (3.00%) ATpairs: 49.27%, CGpairs: 50.73%, GTpairs: 0.00% :i = 17912775 tupleindex: 3 intervalindex: 1 matches_in_interval: 112.0000 lowcenter: 35821652 highcenter: 35821700 testcenter: 35821676 im3: 30.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17912805 center: 35815306 interval size: 300 g: 3 Alignment explanation
Indices: 17902273--17902550,17912756--17913024 Loop: 10205 Score: 152 Left Length: 278 Right Length: 269 Average length: 273.5 3 most common centers (desc): 35815305 35815306 35815297 17902263 >> (LF) CCCAGAACCT 17913034 << (RF) TTATGTAAGT 17902273 >> TGGCCAGGCATGGTGGCTCACGCCTGTAATCCTCACATTCTGGGAGGCAAAGG-GAGAAGATCGCGTGAGGCCAG >> 17902346 17913024 << ********TC**********A**A*********TC**G*A**A*****G****G*C*AC****T--***T*A*** << 17912952 17902347 >> GAGTTTGAAACTCA-CCTGGGTAACACAGCAAGATCCCATCTATACAAAAAAAAATTTGTTTTTAAATTAGCCTG >> 17902420 17912951 << ********C**-**C*****G*****AC*AC*T*G**AC***G*A*A*****A*GTT-------*********C* << 17912885 17902421 >> GTGTGTTGGCACATGTCTATAATCCTAGCTACTTTGGAGTCTGAGGC-AGTAGGATTGCTTGAGCCCAGGAGTTT >> 17902494 17912884 << *G***C***AC****G**C******G********C****C*******G**-**T*******A*T**-*****CGT << 17912812 17902495 >> GAGGCTGCAGTGAGCTATGGTTATACCACTGCACTCTAGACTGGGTGACAGAGCAA >> 17902550 17912811 << T***A**********G*T*T**C*CA**A*******G**G*****G********** << 17912756 Statistics Matches: 205 (72.95%), Mismatches: 61 (21.71%), Indels: 15 (5.34%) ATpairs: 48.29%, CGpairs: 51.71%, GTpairs: 0.00% :i = 17912805 tupleindex: 3 intervalindex: 1 matches_in_interval: 100.0000 lowcenter: 35815282 highcenter: 35815330 testcenter: 35815306 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17912812 center: 35825139 interval size: 80 g: 2 Alignment explanation
Indices: 17912306--17912378,17912761--17912831 Loop: 382 Score: 57 Left Length: 73 Right Length: 71 Average length: 72.0 3 most common centers (desc): 35825139 35825137 35825138 17912296 >> (LF) CTTGGGAGGG 17912841 << (RF) TCCGGTCTCT 17912306 >> ATTGCTTGAGTCCAAGGAGTTAAAGGCTGCAGTAAGCCTTGATCGCAGCACTGCACTTCAGCCTGGGCAACAG >> 17912378 17912831 << *******A*T-***-****CG*****A******C****TT***A*ACA**A******G**********C**** << 17912761 Statistics Matches: 56 (76.71%), Mismatches: 15 (20.55%), Indels: 2 (2.74%) ATpairs: 44.64%, CGpairs: 55.36%, GTpairs: 0.00% :i = 17912812 tupleindex: 2 intervalindex: 1 matches_in_interval: 32.0000 lowcenter: 35825127 highcenter: 35825151 testcenter: 35825139 im3: 27.0000 frequent_center_ratio*rnkp: 12.7600 Found at i: 17912868 center: 35823183 interval size: 300 g: 3 Alignment explanation
Indices: 17910166--17910432,17912754--17913015 Loop: 2321 Score: 300 Left Length: 267 Right Length: 262 Average length: 264.5 3 most common centers (desc): 35823183 35823181 35823186 17910156 >> (LF) TCGGCGGGTC 17913025 << (RF) TACCGGTCCT 17910166 >> GTGGTGGCTCACGCCTGTAATCCCAGAACTTTGGGAGGCTGAGGCAGGTGGATCACCTGAGGTCAGGAGTTTGAG >> 17910240 17913015 << ***********A**A********A**G******A*****GT****C*********--***T************** << 17912943 17910241 >> ACCAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATACAAAAATTAGCCAGGTGTGGTGGCATGC-T- >> 17910315 17912942 << ***********A***************AC*****A*********************C**G*******--***T*C << 17912870 17910314 >> CCTGTAATCCCAGCTGCTCAGGAGGCTGAGGCAGGAGAATGGCTTGAACCTGGGAGGTGGAGGTTGCAGTGAACT >> 17910388 17912869 << ***************T**AC************GT******A****A****T**-***GTT************C*G << 17912796 17910389 >> GAGATCATCGTGCTCTGCACTCCAGCCTGAGCAACAGAGCAAGA >> 17910432 17912795 << T****AC*-**GT*-**************C**C*********** << 17912754 Statistics Matches: 225 (83.64%), Mismatches: 35 (13.01%), Indels: 9 (3.35%) ATpairs: 47.11%, CGpairs: 52.89%, GTpairs: 0.00% :i = 17912868 tupleindex: 3 intervalindex: 1 matches_in_interval: 148.0000 lowcenter: 35823159 highcenter: 35823207 testcenter: 35823183 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17912870 center: 35811377 interval size: 300 g: 3 Alignment explanation
Indices: 17898351--17898634,17912745--17913023 Loop: 14110 Score: 286 Left Length: 284 Right Length: 279 Average length: 281.5 3 most common centers (desc): 35811373 35811377 35811378 17898341 >> (LF) AAAAGGAGGA 17913033 << (RF) TATGTAAGTA 17898351 >> GGCCGGGCGCAGTGGCTCACGCCTGTAATCC-AGCGCTTTGGGAGGCCAAGGCGGGCGGATCACGAGGTCAGGAG >> 17898424 17913023 << ****T**T*AC********A**A********A***T*****A**************A******A**T******** << 17912949 17898425 >> TTTGAGAGCAGTCTGGCCAACATGGTGAAACCCCATCTCTACTACAAATATAAAAAAAAATTAGCCGGGCACAGT >> 17898499 17912948 << *******G***G*****A***************AC*****A***-***-***G*****--**********CAC** << 17912878 17898500 >> GGTGGGCGCCTGTAATTCCAGCTACTCAGGAGGCTGAGGCAGGAGAATCACTTGAACCCGGCAGGCAGAGGTTGC >> 17898574 17912877 << ****GTA*********G*********AC************GT******AC***A****T**-*****T******* << 17912804 17898575 >> AGACAGCCAAGAATGCACCATTGCGCTCCAGCCTGGGCAACAAGAGTGAAACTCCGTCCC >> 17898634 17912803 << **AC********A**ACA******T*************C***-***GT*C*A***T**** << 17912745 Statistics Matches: 231 (81.05%), Mismatches: 47 (16.49%), Indels: 7 (2.46%) ATpairs: 44.16%, CGpairs: 55.84%, GTpairs: 0.00% :i = 17912870 tupleindex: 3 intervalindex: 1 matches_in_interval: 110.0000 lowcenter: 35811353 highcenter: 35811401 testcenter: 35811377 im3: 30.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17913012 center: 35825282 interval size: 80 g: 2 Alignment explanation
Indices: 17912270--17912304,17912978--17913012 Loop: 673 Score: 40 Left Length: 35 Right Length: 35 Average length: 35.0 3 most common centers (desc): 35825282 0 0 17912260 >> (LF) GCCAGGCACC 17913022 << (RF) CGGTCCTCAC 17912270 >> GTGGCTCACACCTGTAATCCTAGCAACTTGGGAGG >> 17912304 17913012 << ********AC*A*************GA***A**** << 17912978 Statistics Matches: 29 (82.86%), Mismatches: 6 (17.14%), Indels: 0 (0.00%) ATpairs: 48.28%, CGpairs: 51.72%, GTpairs: 0.00% :i = 17913012 tupleindex: 2 intervalindex: 1 matches_in_interval: 33.0000 lowcenter: 35825270 highcenter: 35825294 testcenter: 35825282 im3: 21.0000 frequent_center_ratio*rnkp: 12.7600 Found at i: 17913488 center: 35826450 interval size: 160 g: 2 Alignment explanation
Indices: 17912932--17913011,17913439--17913520 Loop: 427 Score: 55 Left Length: 80 Right Length: 82 Average length: 81.0 3 most common centers (desc): 35826450 35826452 0 17912922 >> (LF) CACCATGTTA 17913530 << (RF) GAGGAACTTG 17912932 >> GCCAGGCTGGTCTCAAACTCCTGACTT--CATGATCCACCCGCCTTGGCCTCACAAAGTGCTAGGATTACAAGCA >> 17913004 17913520 << ****A*AC*****AC********CA**AT************T***GTT*A*AG*******A*C********C**A << 17913446 17913005 >> TGAGCCA >> 17913011 17913445 << ****C** << 17913439 Statistics Matches: 61 (74.39%), Mismatches: 19 (23.17%), Indels: 2 (2.44%) ATpairs: 47.54%, CGpairs: 52.46%, GTpairs: 0.00% :i = 17913488 tupleindex: 2 intervalindex: 2 matches_in_interval: 76.0000 lowcenter: 35826432 highcenter: 35826468 testcenter: 35826450 im3: 24.0000 frequent_center_ratio*rnkp: 21.3900 Found at i: 17913590 center: 35826501 interval size: 160 g: 2 Alignment explanation
Indices: 17912716--17912935,17913566--17913807 Loop: 630 Score: 123 Left Length: 220 Right Length: 242 Average length: 231.0 3 most common centers (desc): 35826521 35826522 35826523 17912706 >> (LF) TAAATATATT 17913817 << (RF) TATCGGACTT 17912716 >> TCTTTTTCTTTTCTTTTTTTTTGGAGGCGGGGATGGAATCT--TGCTCTGTCGCCCAGGCTGGAGTGCAATGACA >> 17912788 17913807 << ***G*G******A**********T*TGT*T*GG*A*G-***CT***G*T*C*AC****T*******T*****C** << 17913734 17912789 >> CAATCTTGGCTCACTGCAACCTTTGCCTCCT-GGTTAAAGCAATTCTCTGGCCTCAGCCTCCCAAGTAGCTGGGA >> 17912862 17913733 << *G**************T*****G*******GT**G*G****C******GA*********G**ACA********** << 17913659 17912863 >> TTACAGGCATGCACCACCACGCCCGGCTAATTTTTGTATTTT--T-----A----G-A-----AG-AGA--CAGG >> 17912917 17913658 << *************A*****A****T*****T***********TT*AAACA*AAAA*A*AAAAA**A***CT**** << 17913584 17912918 >> GTTTCACCATGTTAGCCA >> 17912935 17913583 << ****AC************ << 17913566 Statistics Matches: 180 (74.07%), Mismatches: 39 (16.05%), Indels: 24 (9.88%) ATpairs: 51.67%, CGpairs: 48.33%, GTpairs: 0.00% :i = 17913590 tupleindex: 2 intervalindex: 2 matches_in_interval: 98.0000 lowcenter: 35826483 highcenter: 35826519 testcenter: 35826501 im3: 23.0000 frequent_center_ratio*rnkp: 21.3900 Found at i: 17917375 center: 35827587 interval size: 300 g: 3 Alignment explanation
Indices: 17910158--17910360,17917226--17917430 Loop: 6865 Score: 189 Left Length: 203 Right Length: 205 Average length: 204.0 3 most common centers (desc): 35827587 35827586 35827588 17910148 >> (LF) CAAAACAGTC 17917440 << (RF) AGTAGTGAAA 17910158 >> GGC-GGGTCGTGGTGGCTCACGCCTGTAA-TCCCAGAACTTTGGGAGGCTGAGGCAGGTGGATCACCTGAGGTCA >> 17910230 17917430 << ***A****-**T*********T*******T**A***A******T*****GT***AC*******CC*A****GG** << 17917357 17910231 >> GGAGTTTGAGACCAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAA-TACAAAAATTAGCCAGGTGTGG >> 17910304 17917356 << ******GTC**T********C************************AT*****T*************ACG*GT**T << 17917282 17910305 >> TGGCATGCTCCTGTAATCCCAGCTGCTCAGGAGGCTGAGGCAGGAGAATGGCTTGA >> 17910360 17917281 << *****GTAC*T***AC********T***************AC****C**A****** << 17917226 Statistics Matches: 163 (79.13%), Mismatches: 39 (18.93%), Indels: 4 (1.94%) ATpairs: 46.63%, CGpairs: 53.37%, GTpairs: 0.00% :i = 17917375 tupleindex: 3 intervalindex: 1 matches_in_interval: 102.0000 lowcenter: 35827563 highcenter: 35827611 testcenter: 35827587 im3: 47.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17921448 center: 35834288 interval size: 300 g: 3 Alignment explanation
Indices: 17912756--17913041,17921248--17921534 Loop: 8206 Score: 311 Left Length: 286 Right Length: 287 Average length: 286.5 3 most common centers (desc): 35834289 35834288 35834287 17912746 >> (LF) GGATGGAATC 17921544 << (RF) TCCACTTCAA 17912756 >> TTGCTCT-GTCGCCCAGGCTGGAGTGCAATGACACAATCTTGGCTCACTGCAACCTTTGCCTCCT-GGTTAAAGC >> 17912828 17921534 << *******A**A********************CACA*****G*******G*******GG*******T****G***A << 17921460 17912829 >> AATTCTCTGGCCTCAGCCTCCCAAGTAGCTGGGATTACAGGCATGCACCACCACGCCCGGCTAATTTTTGTATTT >> 17912903 17921459 << C*******A************AC*****AC***************TC**********A**********-****** << 17921386 17912904 >> TTAGAAGAGACAGGGTTTCACCATGTTAGCCAGGCTGGTCTCAAACTCCTGACTTCA--TGATCCACCCGCCTTG >> 17912976 17921385 << ****A*****AC*******AC******C*A************C******GT**G***CC*****AC********* << 17921311 17912977 >> GCCTCACAAAGTGCTAGGATTACAAGCATGAGCCACCACTCCTGGCCATGAATGTATTTCTTAAA >> 17913041 17921310 << *****G*********C********C*******T***AC*T*******-*-*G*GG*C******** << 17921248 Statistics Matches: 239 (82.41%), Mismatches: 44 (15.17%), Indels: 7 (2.41%) ATpairs: 47.70%, CGpairs: 52.30%, GTpairs: 0.00% :i = 17921448 tupleindex: 3 intervalindex: 1 matches_in_interval: 138.0000 lowcenter: 35834264 highcenter: 35834312 testcenter: 35834288 im3: 45.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17921499 center: 35832087 interval size: 300 g: 3 Alignment explanation
Indices: 17910534--17910769,17921318--17921554 Loop: 10548 Score: 218 Left Length: 236 Right Length: 237 Average length: 236.5 3 most common centers (desc): 35832087 35832089 35832088 17910524 >> (LF) CTTTTTTTTT 17921564 << (RF) AGGTCAAGAG 17910534 >> TTTTTTTTTGAGACAGAGTCTTTCTCT-GTTGCCCAGGCTGGAGTGCAGTGGTGCAATCTCGGCTCACTGCAAGC >> 17910607 17921554 << ********G***CACT***A**C****A********************T*****A*************G****G* << 17921480 17910608 >> TCCGCCTGCCAGGTTCACGCCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACAGGTGCCCACCACCATG >> 17910682 17921479 << *******G*A*******T*AC******A********************AC****A******GTACTC******G* << 17921405 17910683 >> CACGGCTAATTTTTTGTGTTTTTAGTAGAGACAAGGTTTCACTGTGTTACCTAGGATGGTCTCGATCTCCTGACC >> 17910757 17921404 << *GA**********--**T*************ACC******ACGT****CCAG***G*********T****GT*** << 17921332 17910758 >> TCA--TGATCTGCC >> 17910769 17921331 << ***CC********* << 17921318 Statistics Matches: 189 (79.08%), Mismatches: 45 (18.83%), Indels: 5 (2.09%) ATpairs: 49.21%, CGpairs: 50.79%, GTpairs: 0.00% :i = 17921499 tupleindex: 3 intervalindex: 1 matches_in_interval: 96.0000 lowcenter: 35832063 highcenter: 35832111 testcenter: 35832087 im3: 67.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17922767 center: 35831639 interval size: 300 g: 3 Alignment explanation
Indices: 17908651--17908946,17922693--17922991 Loop: 13746 Score: 212 Left Length: 296 Right Length: 299 Average length: 297.5 3 most common centers (desc): 35831639 35831641 35831642 17908641 >> (LF) AAAATTCTCA 17923001 << (RF) GACCCTGTAA 17908651 >> GGCTGGGCACTGTAGCTCATGCCTGTAATCC-AGTACTTTGGGAGGTCAAGGAGAGAGGATCATTTGACTCCAGG >> 17908724 17922991 << ***G******C**C*****G***********G*TG***********G*C*****C*G****ACGG***CCA**** << 17922917 17908725 >> AGTTCAAGACCAACCTGGCCAACATCATGAAACCCAATCTCTACAAAAAATACACAAA--TTAGCCAGGTGTGGT >> 17908797 17922916 << *****C******CA***********CC******T*G********A*********T***TT*****AC**G***** << 17922842 17908798 >> TGCATGCAGCTGTAGTCTCAGATACTCTGAAGGCTGGGGTGAGAGGATCACCTGAGCCCAGGAAATTGAGGCTGC >> 17908872 17922841 << C**C***CG*****T*AG***G*****C*C*****TT*TGTC**TT***C*A***T**AC***CCGT****A*** << 17922767 17908873 >> AGTGAGCTATGATAACATCATGGCACTCCAGCCTGGGTGACAGAGCAAGACTCTGTCTAAAAAAAGAAAAAAAA >> 17908946 17922766 << *******GCT***G**CG**GA***A**********TG********C******G****G******T*****C** << 17922693 Statistics Matches: 223 (74.58%), Mismatches: 73 (24.41%), Indels: 3 (1.00%) ATpairs: 48.88%, CGpairs: 51.12%, GTpairs: 0.00% :i = 17922767 tupleindex: 3 intervalindex: 1 matches_in_interval: 137.0000 lowcenter: 35831615 highcenter: 35831663 testcenter: 35831639 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17922773 center: 35844252 interval size: 300 g: 3 Alignment explanation
Indices: 17921247--17921563,17922689--17923010 Loop: 1125 Score: 332 Left Length: 317 Right Length: 322 Average length: 319.5 3 most common centers (desc): 35844252 35844253 35844257 17921237 >> (LF) GGGTAAGGCA 17923020 << (RF) GGACTAATGA 17921247 >> TTTTAAGAACTGG-AG-TAGGCCAGGTGCAGTGTCTCATGCCTGTAATCCCAGCACTTTGGGAGGCCAAGGCGGG >> 17921319 17923010 << **G**********C*GT*A****C**GT*C***C****G*************T**************C***T*** << 17922936 17921320 >> CAGATCACCTGAGGTTGGGAGTTCGAGACCAGCCTGACCAACATGCAGAAACCCCATCTCTACTAAAAATACAAA >> 17921394 17922935 << *C***AC********GT***************A***C********CA*****T********************** << 17922861 17921395 >> A---TTAGCCAGGCGTGGTGGCTCATGCCTGTAATCCCCACTACTCAGGAGGCTGAGGCAAGAGAATCACTTGAA >> 17921466 17922860 << *TTT*****AC***********CACG*********A**TC******C*******T**T**C**T****C****** << 17922786 17921467 >> CCTAGGAGGCGGAGGTTGCGGTGAGCCGAGATTACACCATTGCACTCCAGCCTGGGCAACAAGAGCAAAACTTCA >> 17921541 17922785 << ***C******T********T************G**C***G****A**********T*C***-****C*C***G*C << 17922712 17921542 >> CCTCGAAAAAAAAGA-GAACTGG >> 17921563 17922711 << A***T********T*T******* << 17922689 Statistics Matches: 263 (81.42%), Mismatches: 53 (16.41%), Indels: 7 (2.17%) ATpairs: 46.39%, CGpairs: 53.61%, GTpairs: 0.00% :i = 17922773 tupleindex: 3 intervalindex: 1 matches_in_interval: 100.0000 lowcenter: 35844228 highcenter: 35844276 testcenter: 35844252 im3: 45.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17922773 center: 35833147 interval size: 300 g: 3 Alignment explanation
Indices: 17910168--17910455,17922695--17922981 Loop: 12239 Score: 350 Left Length: 288 Right Length: 287 Average length: 287.5 3 most common centers (desc): 35833149 35833147 35833148 17910158 >> (LF) GGCGGGTCGT 17922991 << (RF) CCGGCCCGTG 17910168 >> GGTGGCTCACGCCTGTAATCCCAGAACTTTGGGAGGCTGAGGCAGGTGGATCACCTGAGGTCAGGAGTTTGAGAC >> 17910242 17922981 << ***********************TG************G****TC**G****AC****************G***** << 17922907 17910243 >> CAGCCTGGCCAACATGGTGAAACCCCATCTCTACTAAAAATACAAAAA--TTAGCCAGGTGTGGTGGCATGCTCC >> 17910315 17922906 << ***A*******************T************************TT*****AC**G********C***C** << 17922832 17910316 >> TGTAATCCCAGCTGCTCAGGAGGCTGAGGCAGGAGAATGGCTTGAACCTGGGAGGTGGAGGTTGCAGTGAACTGA >> 17910390 17922831 << ******A******T***C*******T**T*****T***G****************GT*************C*G** << 17922757 17910391 >> GATCATCGTGCTCTGCACTCCAGCCTGAGCAACAGAGCAAGACACTATCTAAAAAAGAAAAGAAG >> 17910455 17922756 << *****-**G-*T*****A*********CT*C*******C****A*GC***G*****T****-*** << 17922695 Statistics Matches: 246 (84.83%), Mismatches: 39 (13.45%), Indels: 5 (1.72%) ATpairs: 46.75%, CGpairs: 53.25%, GTpairs: 0.00% :i = 17922773 tupleindex: 3 intervalindex: 1 matches_in_interval: 147.0000 lowcenter: 35833123 highcenter: 35833171 testcenter: 35833147 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17922778 center: 35836485 interval size: 300 g: 3 Alignment explanation
Indices: 17913617--17913797,17922696--17922870 Loop: 8898 Score: 156 Left Length: 181 Right Length: 175 Average length: 178.0 3 most common centers (desc): 35836485 35836493 35836487 17913607 >> (LF) ATACAAAATT 17922880 << (RF) TAGAGATGAT 17913617 >> AAAATACAAAAT--TTAGCTGGGCATGGTGATGCATGCCTGTAATCCCAGCTACACAGGGGGCTGAGGCAGGAGA >> 17913689 17922870 << ***********TTT**********C*****CG*ACG*********A********A*C**T****T**T*****T* << 17922796 17913690 >> ATCGCTTGAGCCTGGGAGGCAGAGGTTTCAGTGAGCCAAGATGGTGCCATTGTACTCCAGTCTGGCAGCCTGGGC >> 17913764 17922795 << *********T*****************C*********C****GTG****G**G*A*****G****-*-*--*--- << 17922728 17913765 >> ATCAGAGCAAGGCTCTGTTTCAAAAAAAAAAAA >> 17913797 17922727 << *-******C**T***G**G************** << 17922696 Statistics Matches: 145 (79.23%), Mismatches: 28 (15.30%), Indels: 10 (5.46%) ATpairs: 49.66%, CGpairs: 50.34%, GTpairs: 0.00% :i = 17922778 tupleindex: 3 intervalindex: 1 matches_in_interval: 171.0000 lowcenter: 35836461 highcenter: 35836509 testcenter: 35836485 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17923338 center: 35846278 interval size: 80 g: 2 Alignment explanation
Indices: 17922717--17922965,17923313--17923559 Loop: 347 Score: 267 Left Length: 249 Right Length: 247 Average length: 248.0 3 most common centers (desc): 35846276 35846278 35846275 17922707 >> (LF) TGAGACGGAG 17923569 << (RF) TCAGAGAGAG 17922717 >> TCTCGCTCTGTCGTCCAGGCTGGAATGCAGTGGCGTGATCTCGGCTCACTGCAACCTCTGCCTCCCAGGTTCAAG >> 17922791 17923559 << ****A********G**********C*T******A*GG****A***********GA***G**************** << 17923485 17922792 >> CGATT-TTCCTGTCTTAGCCTCCCGAGTAGCTGGAATTACAGGCGCACGCCACCACGCCCAGCTAATTTTTTTGT >> 17922865 17923484 << ****GG****TG*-*G*******A***G******C*G*******GAC*TA*****AT**************--** << 17923413 17922866 >> ATTTTTAGTAGAGATGGTGTTTCACCATGTTGGCCAGACTGGTCTCGAACTCCTGACCTCAGGCAATCCGCCCTC >> 17922940 17923412 << ************T****C****AC*A********************T********C*A***T*AC***C****T* << 17923338 17922941 >> CTCGGCCTCCCAAAGTGTTGGGATT >> 17922965 17923337 << *****************G**A**** << 17923313 Statistics Matches: 205 (82.00%), Mismatches: 41 (16.40%), Indels: 4 (1.60%) ATpairs: 45.85%, CGpairs: 54.15%, GTpairs: 0.00% :i = 17923338 tupleindex: 2 intervalindex: 1 matches_in_interval: 29.0000 lowcenter: 35846266 highcenter: 35846290 testcenter: 35846278 im3: 18.0000 frequent_center_ratio*rnkp: 12.7600 Found at i: 17923530 center: 35834111 interval size: 300 g: 3 Alignment explanation
Indices: 17910525--17910769,17923341--17923594 Loop: 12571 Score: 223 Left Length: 245 Right Length: 254 Average length: 249.5 3 most common centers (desc): 35834111 35834112 35834119 17910515 >> (LF) TACAAAAGTC 17923604 << (RF) AAAAAATTAA 17910525 >> TTTTTTTTTTTTTTTTTTGAGACAGAGTCT-T-TCTCTGT-T--G-C-CC-AGGCTGGAGTGCAGTGGTGCAATC >> 17910591 17923594 << ************************G*****G*G*****G*G*GA*A*C**G**********T*********G*** << 17923520 17910592 >> TCGGCTCACTGCAAGCTCCGCCTGCCAGGTTCACGCCATTCTCCTGCCTCAGCCTCCTGAGTAGCTGGGACTACA >> 17910666 17923519 << *A***********GA********G*********T**C**G**A*GT*A*************G************* << 17923445 17910667 >> GGTGCCCACCACCATGCACGGCTAATTTTTTGTGTTTTTAGTAGAGACAAGGTTTCACTGTGTTACCTAGGATGG >> 17910741 17923444 << **GGAC**A******T*G*T**********-**T***********T*ACC*****AC**T****CC*G**TG*** << 17923371 17910742 >> TCTCGATCTCCTGACCTCA--TGATCTGCC >> 17910769 17923370 << ****T*T******C*A***TC*****C*** << 17923341 Statistics Matches: 202 (79.22%), Mismatches: 42 (16.47%), Indels: 11 (4.31%) ATpairs: 52.48%, CGpairs: 47.52%, GTpairs: 0.00% :i = 17923530 tupleindex: 3 intervalindex: 1 matches_in_interval: 98.0000 lowcenter: 35834087 highcenter: 35834135 testcenter: 35834111 im3: 73.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17923641 center: 35840900 interval size: 300 g: 3 Alignment explanation
Indices: 17917225--17917310,17923590--17923675 Loop: 6279 Score: 92 Left Length: 86 Right Length: 86 Average length: 86.0 3 most common centers (desc): 35840900 0 0 17917215 >> (LF) TGTCACCCAC 17923685 << (RF) TGGAGGACCT 17917225 >> CTCAAGCAATCCTCCCACCTCAGCCTCCTGAGTAGCTGGGACAACATGCATGTGCCATCATGCGCAGCTAATTTT >> 17917299 17923675 << ****C*A********C**T**********T************A***C****T*T***T***T*TAC********* << 17923601 17917300 >> TGTATTTTTTT >> 17917310 17923600 << *AT******** << 17923590 Statistics Matches: 70 (81.40%), Mismatches: 16 (18.60%), Indels: 0 (0.00%) ATpairs: 57.14%, CGpairs: 42.86%, GTpairs: 0.00% :i = 17923641 tupleindex: 3 intervalindex: 1 matches_in_interval: 158.0000 lowcenter: 35840876 highcenter: 35840924 testcenter: 35840900 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17923654 center: 35846461 interval size: 300 g: 3 Alignment explanation
Indices: 17922693--17922871,17923590--17923768 Loop: 718 Score: 99 Left Length: 179 Right Length: 179 Average length: 179.0 3 most common centers (desc): 35846461 35846460 35846462 17922683 >> (LF) AATGTCCCAG 17923778 << (RF) CCCAAAACAA 17922693 >> TTCTTTTTTTTT-TTTGAGACGGAGTCTCGCTCTGTCGTCCAGGCTGGAATGCAGTGGCGTGATCTCGGCTCACT >> 17922766 17923768 << **C****C****C********T*C*****T******AG-**********C*********TGT***T*T***T**G << 17923695 17922767 >> GCAACCTCTGCCTCCCAGGTTCAAGCGATTTTCCTGTCTT-AGCCTCCCGAGTAGCTGGAATTACAGGCGCACGC >> 17922840 17923694 << T**C****TT*****AC*TG***C*AT**GG***-*T*T*G*******AT*********C*G*******TA*AT* << 17923621 17922841 >> CACCACGCCCAGCTAATTTTTTTGTATTTTT >> 17922871 17923620 << **T**AT*TAC***********TT*A***** << 17923590 Statistics Matches: 130 (71.82%), Mismatches: 47 (25.97%), Indels: 4 (2.21%) ATpairs: 51.54%, CGpairs: 48.46%, GTpairs: 0.00% :i = 17923654 tupleindex: 3 intervalindex: 1 matches_in_interval: 151.0000 lowcenter: 35846437 highcenter: 35846485 testcenter: 35846461 im3: 34.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17923675 center: 35846598 interval size: 160 g: 2 Alignment explanation
Indices: 17922909--17922971,17923627--17923689 Loop: 655 Score: 49 Left Length: 63 Right Length: 63 Average length: 63.0 3 most common centers (desc): 35846598 35846599 0 17922899 >> (LF) CCAGACTGGT 17923699 << (RF) ATTGGTGTCG 17922909 >> CTCGAACTCCTGACCTCAGGCAATCCGCCCTCCTCGGCCTCCCAAAGT-GTTGGGATTACAGGC >> 17922971 17923689 << ***T*G******CT******A*****A**CT*T**T******A**-**T*G*****G******* << 17923627 Statistics Matches: 49 (76.56%), Mismatches: 13 (20.31%), Indels: 2 (3.13%) ATpairs: 38.78%, CGpairs: 61.22%, GTpairs: 0.00% :i = 17923675 tupleindex: 2 intervalindex: 2 matches_in_interval: 108.0000 lowcenter: 35846580 highcenter: 35846616 testcenter: 35846598 im3: 37.0000 frequent_center_ratio*rnkp: 21.3900 Found at i: 17926822 center: 35853074 interval size: 80 g: 2 Alignment explanation
Indices: 17926064--17926301,17926774--17927012 Loop: 472 Score: 136 Left Length: 238 Right Length: 239 Average length: 238.5 3 most common centers (desc): 35853076 35853072 35853074 17926054 >> (LF) CTTGAATTTG 17927022 << (RF) CACGCCACCG 17926064 >> GATCACGGCTCACTGCACCCTCTATCTCCTGGGCTCAATAGATCGTTCCACCTCAGCCTCCTGAGCAGCTGGGAC >> 17926138 17927012 << ****A*T**********TC****CG****G*G*A***ACAG**AG*G*AC****C**********A********* << 17926938 17926139 >> CACAGGTG--TGCACCACCAA-CCTGGCTAAT-TTTTAAAT-TTTTT-GTAGATACAGGATTTTATCATGTTACC >> 17926207 17926937 << A*****G*GG***-**-***GC**G*******T****AAC*T*****T*****C*AC**C***G*G*C*****C* << 17926865 17926208 >> CAGGCTAGTCTCGAACTCCAGGGCTCAAGTGATCCACCAGCTTCGGCCTGCCAAAGTGCTTGGGACCACAGGTGT >> 17926282 17926864 << ****T*C*****T*A**A*A*TG***--*******C**G**G*******G**********-**G*AA*****G** << 17926793 17926283 >> GAGCCACTGCACCCAGCCT >> 17926301 17926792 << *******GT*C***C**** << 17926774 Statistics Matches: 178 (72.95%), Mismatches: 55 (22.54%), Indels: 11 (4.51%) ATpairs: 42.13%, CGpairs: 57.87%, GTpairs: 0.00% :i = 17926822 tupleindex: 2 intervalindex: 1 matches_in_interval: 30.0000 lowcenter: 35853062 highcenter: 35853086 testcenter: 35853074 im3: 15.0000 frequent_center_ratio*rnkp: 12.7600 Found at i: 17927070 center: 35849766 interval size: 600 g: 3 Alignment explanation
Indices: 17922693--17922991,17926775--17927070 Loop: 3783 Score: 360 Left Length: 299 Right Length: 296 Average length: 297.5 3 most common centers (desc): 35849765 35849764 35849766 17922683 >> (LF) AATGTCCCAG 17927080 << (RF) GTCTCAAAAT 17922693 >> TTCTTTTTTTTTTTTGAGACGGAGTCTCGCTCTGTCGTCCAGGCTGGAATGCAGTGGCGTGATCTCGGCTCACTG >> 17922767 17927070 << **A****T*********T**T*******T********G**********C***C******--*****T******** << 17926998 17922768 >> CAACCTCTGCCTCCCAGGTTCAAGCGATTTTCCTGTCTTAGCCTCCCGAGTAGCTGGAATTACAGGCGCACGCCA >> 17922842 17926997 << ***C***********CG*****A*AG***G*****G**GC******A**********C*G*********GA***G << 17926923 17922843 >> CCACGCCCAGCTAAT-TTTTTTGTATTTTTAGTAGAGATGGTGTTTCACCATGTTGGCCAGACTGGTCTCGAACT >> 17922916 17926922 << ********C******T*************************C********C****T*****CT*******T*A** << 17926848 17922917 >> CCTGACCTCAGGCAATCCGCCCTCCTCGGCCTCCCAAAGTGTTGGGATTACAGGCGTGAGCCACCGTGCCCGGCC >> 17922991 17926847 << A********CA*-*-*******C******************G***G*******************TG******** << 17926775 Statistics Matches: 254 (84.67%), Mismatches: 41 (13.67%), Indels: 5 (1.67%) ATpairs: 44.09%, CGpairs: 55.91%, GTpairs: 0.00% :i = 17927070 tupleindex: 3 intervalindex: 2 matches_in_interval: 297.0000 lowcenter: 35849732 highcenter: 35849800 testcenter: 35849766 im3: 60.0000 frequent_center_ratio*rnkp: 41.4200 Found at i: 17931332 center: 35854903 interval size: 300 g: 3 Alignment explanation
Indices: 17923304--17923596,17931307--17931597 Loop: 7710 Score: 136 Left Length: 293 Right Length: 291 Average length: 292.0 3 most common centers (desc): 35854902 35854894 35854903 17923294 >> (LF) AGAGACAAGG 17931607 << (RF) TGTCAACGAG 17923304 >> AGGCCAATGAATCACAGCACTTT-GGGAGGCCGAGGTGGGCCGATCACTTGAAGCCAGGAGTTTGAGACCAGTCT >> 17923377 17931597 << *****AC*-****G****-***GT******T*G***GT**AT******G***C*A***T******C******G** << 17931525 17923378 >> GGCCAACATAGCAAAACCCCATTTCTACTAAAAATACAAAA-ATTAG--CTGGG-----T-A---TGG--TGATG >> 17923438 17931524 << *********C*AC******AC*G******************C*TT*TTT*TTTTTGTTT*A*CGG***GC**C** << 17931450 17923440 >> -CAGG--CCTGTAGTCCCAGCTGCTCAGGAGGCTGAAGTGGAAGGATCGCTTGAACCTGGGAGGCGGAGAGTGCA >> 17923510 17931449 << C****TC******T********T*G*C*********-*-*G*-***--*----***********A****CA**** << 17931384 17923511 >> GTGAGCCAAGATGGCACCACTGTACTCCAGCCTGGGCGACAGAGAGAGAGAGAGAGACTGTGTCTCAAAAAAAAA >> 17923585 17931383 << A******C****G*********G*************A****-*-**A****------**-*************** << 17931318 17923586 >> AAAAAAAAAAA >> 17923596 17931317 << *********** << 17931307 Statistics Matches: 229 (73.63%), Mismatches: 44 (14.15%), Indels: 38 (12.22%) ATpairs: 49.78%, CGpairs: 50.22%, GTpairs: 0.00% :i = 17931332 tupleindex: 3 intervalindex: 1 matches_in_interval: 371.0000 lowcenter: 35854879 highcenter: 35854927 testcenter: 35854903 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17931354 center: 35858381 interval size: 300 g: 3 Alignment explanation
Indices: 17926775--17927075,17931307--17931615 Loop: 4231 Score: 230 Left Length: 301 Right Length: 309 Average length: 305.0 3 most common centers (desc): 35858388 35858374 35858390 17926765 >> (LF) ACTGAAGAGA 17931625 << (RF) TCACCCCAGA 17926775 >> GGCCGGGCGTGGTGGCTCACGCCTGTAATGCCAGCACTTT-GGGAGGCCGAGGCGGGCGGATCAC--GAGGTCAG >> 17926846 17931615 << *******CTGT**A*****C*********G*****-***GT******T*G****T**AT******GA******** << 17931542 17926847 >> AAGATTGAGACCATCCTGGCTAACACGGTGAAACCCCATCTCTACTAAAAATACAAAA-AATA------------ >> 17926910 17931541 << ***A***C*****C******G****A**********AC********************C**T*TTTGTTTTTGTT << 17931467 17926910 >> -TTAGCCGGGCGTGGGGGCAGGCGCCTGTAGTCCCAGCTACTCAGGAGGCCGAGGCAGGAGAATGACATGAACGC >> 17926982 17931466 << T******A*******A******T*******T**********G*C******A************G--*-**C--*T << 17931397 17926983 >> GGGAGGCAGAGCTTGCAGTGAGCTGAGATCGC-C-ACCGCACTCCAGCCTGGGCGACAGAGTGAGACTCTGTTTC >> 17927055 17931396 << **A-**-**-*-*****A*****G********T*G**A***************A****T*********-***G** << 17931327 17927056 >> AAAAAAATAAAAAAATAAAA >> 17927075 17931326 << *******T*******T**** << 17931307 Statistics Matches: 250 (78.13%), Mismatches: 40 (12.50%), Indels: 30 (9.38%) ATpairs: 45.20%, CGpairs: 54.80%, GTpairs: 0.00% :i = 17931354 tupleindex: 3 intervalindex: 1 matches_in_interval: 221.0000 lowcenter: 35858357 highcenter: 35858405 testcenter: 35858381 im3: 30.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17931378 center: 35852870 interval size: 300 g: 3 Alignment explanation
Indices: 17921251--17921554,17931318--17931629 Loop: 9763 Score: 184 Left Length: 304 Right Length: 312 Average length: 308.0 3 most common centers (desc): 35852879 35852861 35852870 17921241 >> (LF) AAGGCATTTT 17931639 << (RF) AAGATGACAG 17921251 >> AAGAACTGGAGTA-GGCCAGGTGCAGTGTCTCATGCCTGTAATCCCAGCACTTT-GGGAGGCCAAGGCGGGCAGA >> 17921323 17931629 << *****C***C**GA****C**CT****AC****C***************-***GT******T*G****T**A*** << 17931556 17921324 >> TCACCTGAGGTTGGGAGTTCGAGACCAGCCTGACCAACATGCAGAAACCCCATCTCTACTAAAAATACAAAA--- >> 17921397 17931555 << ***********GT*T****A*C**********C********CA*******AC********************CTT << 17931481 17921397 >> ---------------TTAGCCAGGCGTGGTGGCTCATGCCTGTAATCCCCACTACTCAGGAGGCTGAGGCAAGAG >> 17921455 17931480 << TTTTTGTTTTTGTTT******A***********TCCT************TC****G*C*************C*** << 17931406 17921456 >> AATCACTTGAACCTAGGAGGCGGAGGTTGCGGTGAGCCGAGATTACACCATTGCACTCCAGCCTGGGCAACAAGA >> 17921530 17931405 << **-*-**-*------*****A*********TA***********GC*****G****************AC****-* << 17931341 17921531 >> GCAAAACTTCACCTCGAAAAAAAA >> 17921554 17931340 << *AC*C****CA*-**T******** << 17931318 Statistics Matches: 244 (75.31%), Mismatches: 48 (14.81%), Indels: 32 (9.88%) ATpairs: 44.67%, CGpairs: 55.33%, GTpairs: 0.00% :i = 17931378 tupleindex: 3 intervalindex: 1 matches_in_interval: 142.0000 lowcenter: 35852846 highcenter: 35852894 testcenter: 35852870 im3: 31.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17931432 center: 35859064 interval size: 300 g: 3 Alignment explanation
Indices: 17927623--17927759,17931308--17931441 Loop: 3548 Score: 104 Left Length: 137 Right Length: 134 Average length: 135.5 3 most common centers (desc): 35859069 35859064 35859067 17927613 >> (LF) TGGTGCACAT 17931451 << (RF) ACCGTCCTCG 17927623 >> CTGTAGTCCCAGCTACTCAGGAGGCTGAGACAGGAGAGTCACTTGAGCTGGGCGGAGGCTGCAGTGAGCTGTGAT >> 17927697 17931441 << *****T**********G*C**********C*******T-*-**C*-*T-**A-*****A****A*****G*T*** << 17931372 17927698 >> CGTGCCACTGCACTTCAGCCAGGGCAACAAAGCAAGACCC--CTCAAAAAAAATTAAAAGAAAA >> 17927759 17931371 << **GT**********G*****A***AC******AC****AACA***********TT****T**** << 17931308 Statistics Matches: 107 (76.98%), Mismatches: 25 (17.99%), Indels: 7 (5.04%) ATpairs: 45.79%, CGpairs: 54.21%, GTpairs: 0.00% :i = 17931432 tupleindex: 3 intervalindex: 1 matches_in_interval: 170.0000 lowcenter: 35859040 highcenter: 35859088 testcenter: 35859064 im3: 32.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17931482 center: 35855070 interval size: 300 g: 3 Alignment explanation
Indices: 17923568--17923770,17931309--17931506 Loop: 7538 Score: 116 Left Length: 203 Right Length: 198 Average length: 200.5 3 most common centers (desc): 35855079 35855070 35855073 17923558 >> (LF) GAGAGAGAGA 17931516 << (RF) ACCACTTTGG 17923568 >> CTGTGTCT-CAAAAAAAAAAAAA-AAAAAAATTAAAA-AA-TTAGCCATGTATGTTGGTATATGCCTGTAGTCCC >> 17923638 17931506 << ****G***T*A*****A*G****C*******GT****G**T******AC*GC**C***G*CCT*******T**** << 17931432 17923639 >> AGCTACTTAGGAGGCTGATGTCGGAGGATTACCTGAGTCCAGGAGGTTGAGGCTGTGGTTAGCTGTGATTGTGCC >> 17923713 17931431 << ******GGC*********C*GT****-*--*****-*----*-****C****A**GTA*C***G*T***G*GT** << 17931366 17923714 >> ACTGCACTCCAGCCTGGGA-ACAGAGTGAGACCCTGTCTCAAACAAAACAAAACAAAA >> 17923770 17931365 << ******************AC***T********A-*********T****T****T**** << 17931309 Statistics Matches: 154 (74.04%), Mismatches: 39 (18.75%), Indels: 15 (7.21%) ATpairs: 55.19%, CGpairs: 44.81%, GTpairs: 0.00% :i = 17931482 tupleindex: 3 intervalindex: 1 matches_in_interval: 101.0000 lowcenter: 35855046 highcenter: 35855094 testcenter: 35855070 im3: 42.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17931935 center: 35863369 interval size: 80 g: 2 Alignment explanation
Indices: 17931431--17931473,17931895--17931938 Loop: 421 Score: 46 Left Length: 43 Right Length: 44 Average length: 43.5 3 most common centers (desc): 35863369 35863368 0 17931421 >> (LF) CCCGGGTAGC 17931948 << (RF) GGGTTTCACA 17931431 >> TGGGATTACAGGCTCCTGCCACCACGCCAGGCTA-ATTTGTTTT >> 17931473 17931938 << *************C*CT*A*********A****CA*****T*** << 17931895 Statistics Matches: 36 (81.82%), Mismatches: 7 (15.91%), Indels: 1 (2.27%) ATpairs: 44.44%, CGpairs: 55.56%, GTpairs: 0.00% :i = 17931935 tupleindex: 2 intervalindex: 1 matches_in_interval: 39.0000 lowcenter: 35863357 highcenter: 35863381 testcenter: 35863369 im3: 19.0000 frequent_center_ratio*rnkp: 12.7600 Found at i: 17932000 center: 35863524 interval size: 80 g: 2 Alignment explanation
Indices: 17931311--17931595,17931926--17932217 Loop: 330 Score: 123 Left Length: 285 Right Length: 292 Average length: 288.5 3 most common centers (desc): 35863524 35863527 35863521 17931301 >> (LF) TATCGCTTTT 17932227 << (RF) AAGAAAAATC 17931311 >> TTTTTTTTTTTTTTTTGAGACAAGT-CTCACTTTGTCACCCAGGCTGGAGTGCAGTGGTGCGATCTCG----GCT >> 17931380 17932217 << **T***T***T*******T***C**A***C**G****CA*A*******************T*******GAGT*** << 17932143 17931381 >> CAATGCAACCTCCACCTCC-----CAGG---TTCTCCTGCCTCAGCCTCCCGGGTAGCTGGGATTACAGGCTCCT >> 17931447 17932142 << **G****************TCCAA**T*GTT******GT***********A*T**A****T*-**C*AG*TT*-* << 17932070 17931448 >> GCC-ACCACGCCAGGCTAATTTGTTTTTGTTTTTTTCTTTTGTATTTTTAGTAGAGACAGGGTTTCACCATGTTG >> 17931521 17932069 << T*TC*AACA****G-*TG*GGG*-----***TTT**-**C***-*************************C***** << 17932003 17931522 >> GCCAGGCTGGTCCCAAACTTCTGACCTCAGGTG--A-TCTACCTGCCTGGTCCTCCCTGAAG-GCTGGGATTACA >> 17931592 17932002 << *********A*AACC****G************TAG*T**G***GT***A*C**G***T-***A*A********** << 17931929 17931593 >> GGC >> 17931595 17931928 << *** << 17931926 Statistics Matches: 218 (71.95%), Mismatches: 56 (18.48%), Indels: 29 (9.57%) ATpairs: 47.25%, CGpairs: 52.75%, GTpairs: 0.00% :i = 17932000 tupleindex: 2 intervalindex: 1 matches_in_interval: 32.0000 lowcenter: 35863512 highcenter: 35863536 testcenter: 35863524 im3: 19.0000 frequent_center_ratio*rnkp: 12.7600 Found at i: 17932030 center: 35854900 interval size: 1200 g: 3 Alignment explanation
Indices: 17922691--17922990,17931907--17932219 Loop: 8916 Score: 259 Left Length: 300 Right Length: 313 Average length: 306.5 3 most common centers (desc): 35854900 35854897 35854909 17922681 >> (LF) TCAATGTCCC 17932229 << (RF) TAAAGAAAAA 17922691 >> AGTTCTTTTTTT-TTTTTGAGACGGAGTCTCGCTCTGTCGTCCAGGCTGGAATGCAGTGGCGTGATCTCG----G >> 17922760 17932219 << ****T***T***T*******T**T*CA***************A********C********A*T*******GAGT* << 17932145 17922761 >> CTCACTGCAACCTCTGCCTCCCAGGTTCAAGCGATTTTCCTGTCTTAGCCTCCCGAGTAGCTGGAATTACAGGCG >> 17922835 17932144 << **************GT*****-**********T***G***GTG**G*******A****A****-*C**C*AG*TT << 17932072 17922836 >> C-AC-G------CCACCACGCCCAGCTAATTTTTTTGTATTTTTAGTAGAGATGGTGTTTCACCATGTTGGCCAG >> 17922902 17932071 << *A**T*TAACAC*******T***C*A***T****C***-*************GT*C********C********** << 17931998 17922903 >> ACTGGTCTCGAACTCCTGACCTCAGG---CAATCCGCCCTCCTCGGCCTCCCAAAGTGTTGGGATTACAGGCGTG >> 17922974 17931997 << C***A*A*C*****************ATA******T***T***A****G************************G* << 17931923 17922975 >> AGCCACCGTGCCCGGC >> 17922990 17931922 << **A****TG***A*** << 17931907 Statistics Matches: 249 (78.80%), Mismatches: 48 (15.19%), Indels: 19 (6.01%) ATpairs: 45.38%, CGpairs: 54.62%, GTpairs: 0.00% :i = 17932030 tupleindex: 3 intervalindex: 3 matches_in_interval: 683.0000 lowcenter: 35854850 highcenter: 35854950 testcenter: 35854900 im3: 62.0000 frequent_center_ratio*rnkp: 61.3600 Found at i: 17932063 center: 35849338 interval size: 300 g: 3 Alignment explanation
Indices: 17917226--17917425,17931911--17932119 Loop: 14485 Score: 158 Left Length: 200 Right Length: 209 Average length: 204.5 3 most common centers (desc): 35849338 35849345 35849335 17917216 >> (LF) GTCACCCACC 17932129 << (RF) TGGAGGTCCA 17917226 >> TCAAGCAATCCTCCCACCTCAGCCTCCTGAGTAGCTG-G--GA-C-AAC-ATGCAT-GTGCCATCATGCGCAGCT >> 17917293 17932119 << *********A**********************A****T*AA*GA*C***A*GTC**A******G**GT*G*C*A* << 17932045 17917294 >> AATTTTTGTATTTTTTTATAGAGATGGGGTTTCACCATGTTGCCCAGGCTGTTCCTGAACTCCTGGGCTCAAGC- >> 17917369 17932044 << **T******C******TC******GT**********C*****C**********AAC*********TG****C*AT << 17931970 17917369 >> -CA-TCCACCCACCTTGGCCTCTCAAAGTACTGAGATTTACAGGTGTGAGCCACTACACC >> 17917425 17931969 << A**T****************G*G******CA**C****-*****G*G***A***G**C** << 17931911 Statistics Matches: 162 (77.14%), Mismatches: 37 (17.62%), Indels: 11 (5.24%) ATpairs: 47.53%, CGpairs: 52.47%, GTpairs: 0.00% :i = 17932063 tupleindex: 3 intervalindex: 1 matches_in_interval: 96.0000 lowcenter: 35849314 highcenter: 35849362 testcenter: 35849338 im3: 36.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17936583 center: 35860094 interval size: 300 g: 3 Alignment explanation
Indices: 17923404--17923558,17936536--17936688 Loop: 12977 Score: 96 Left Length: 155 Right Length: 153 Average length: 154.0 3 most common centers (desc): 35860094 35860092 0 17923394 >> (LF) CCCCATTTCT 17936698 << (RF) TTTGTTTGTT 17923404 >> ACTAAAAATACAAAAATTAGCTGGGTATGGTGATGCAGGCCTGTAGTCCCAGCTGCTCAGGAGGCTGAAGTGGAA >> 17923478 17936688 << **T**G**T*T**G*C**********C*****C****GT*T*--****A*****T**CC*********CT**T** << 17936616 17923479 >> GGATCGCTTGAACCTGGGAGGCGGAGAGTGCAGTGAGCCAAGATGGCACCACTGTACTCCAGCCTGGGCGACAGA >> 17923553 17936615 << *T***TC**T*C*******TTAA***CG*TA********GA*****AA******G*************A**AC** << 17936541 17923554 >> GAGAG >> 17923558 17936540 << *G*** << 17936536 Statistics Matches: 113 (72.90%), Mismatches: 40 (25.81%), Indels: 2 (1.29%) ATpairs: 46.90%, CGpairs: 53.10%, GTpairs: 0.00% :i = 17936583 tupleindex: 3 intervalindex: 1 matches_in_interval: 126.0000 lowcenter: 35860070 highcenter: 35860118 testcenter: 35860094 im3: 27.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17936593 center: 35860279 interval size: 300 g: 3 Alignment explanation
Indices: 17923576--17923773,17936504--17936699 Loop: 12730 Score: 113 Left Length: 198 Right Length: 196 Average length: 197.0 3 most common centers (desc): 35860279 35860278 35860277 17923566 >> (LF) GACTGTGTCT 17936709 << (RF) TTGTTTGTTT 17923576 >> CAAAAAAAAAAAAAAAAAAAATTAAAAAATTAGCCATGTATGTTGGTATATGCCTGTAGTCCCAGCTACTTAGGA >> 17923650 17936699 << ****G***G***G***G****--***G*C*****ACC**C**C****CG*GT*T*--****A********CC*** << 17936629 17923651 >> GGCTGATGTCGGAGGATTACCTGAGTCCAGGAGGTTGAGGCTGTGGTTAGCTGTGATTGTGCCACTGCACTCCAG >> 17923725 17936628 << ******CT*CTT**T**G*CA*T**G*AC***TT********T*T**C***GG****C**A************** << 17936554 17923726 >> CCTGGGA-ACAGAGTGAGACCCTGTCTCAAACAAAACAAAACAA-AACAA >> 17923773 17936553 << ******AC*AC***G***C***GT*****************T**G***** << 17936504 Statistics Matches: 145 (72.50%), Mismatches: 49 (24.50%), Indels: 6 (3.00%) ATpairs: 58.62%, CGpairs: 41.38%, GTpairs: 0.00% :i = 17936593 tupleindex: 3 intervalindex: 1 matches_in_interval: 152.0000 lowcenter: 35860255 highcenter: 35860303 testcenter: 35860279 im3: 27.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17936763 center: 35860710 interval size: 300 g: 3 Alignment explanation
Indices: 17923901--17924032,17936676--17936810 Loop: 12643 Score: 112 Left Length: 132 Right Length: 135 Average length: 133.5 3 most common centers (desc): 35860710 35860708 35860711 17923891 >> (LF) GTGGTGGATG 17936820 << (RF) CGCCGGGTGT 17923901 >> CCTGTAATACCAGCTACTTGGA--GGCTGAGGCAGGAAGATCACTTGAGCCCAGGAGTTTGAGACCAGTTTGGGC >> 17923973 17936810 << ********G****T-****A**TT***GT***AC***C***************************A**G**TA** << 17936737 17923974 >> AACATAGTGAGACCCTGGCGCTAT-AAA-CAAACAAACAAATAAGCAAATAAATAAATAAA >> 17924032 17936736 << *******C***G*TA*TA*A***GG***T************G**T****G***G***T*** << 17936676 Statistics Matches: 106 (77.94%), Mismatches: 25 (18.38%), Indels: 5 (3.68%) ATpairs: 59.43%, CGpairs: 40.57%, GTpairs: 0.00% :i = 17936763 tupleindex: 3 intervalindex: 1 matches_in_interval: 151.0000 lowcenter: 35860686 highcenter: 35860734 testcenter: 35860710 im3: 26.0000 frequent_center_ratio*rnkp: 25.9200 Found at i: 17939402 center: 35875059 interval size: 300 g: 3 Alignment explanation
Indices: 17935655--17935824,17939240--17939404 Loop: 3415 Score: 145 Left Length: 170 Right Length: 165 Average length: 167.5 3 most common centers (desc): 35875064 35875059 35875060 17935645 >> (LF) TACCAATTTT 17939414 << (RF) GTATTATAGG 17935655 >> CTGTATTAGTCTGTTCTTGCGCTGCTATAAAGAAGTACCTGAGGGTGGGTAATTTATAAAGAAAAGAGGTTTACT >> 17935729 17939404 << *********C*GT*******TT***********GT********TG**************-*******T****C-* << 17939332 17935730 >> TGGCTCACAGTTCTGCAGGCTGTCTGGGAAGCCTAGTGGCTTATGCTTCTAAGGAGGCCTCAGGAAATTTACAAT >> 17935804 17939332 << ---****AC*****T********TGT******T**G****T*G*******CC*****A****A***CG**G*AC* << 17939260 17935805 >> CATGGCAGAAGGTGAAGGGG >> 17935824 17939259 << ************GT****** << 17939240 Statistics Matches: 133 (78.24%), Mismatches: 32 (18.82%), Indels: 5 (2.94%) ATpairs: 56.39%, CGpairs: 43.61%, GTpairs: 0.00% :i = 17939402 tupleindex: 3 intervalindex: 1 matches_in_interval: 101.0000 lowcenter: 35875035 highcenter: 35875083 testcenter: 35875059 im3: 47.0000 frequent_center_ratio*rnkp: 25.9200 Done.