Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007863.1 Hibiscus syriacus cultivar Beakdansim tig00110234_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1653362
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 7 of 8
Found at i:1227173 original size:20 final size:18
Alignment explanation
Indices: 1227150--1227194 Score: 72
Period size: 20 Copynumber: 2.4 Consensus size: 18
1227140 TTTTTCTCTC
1227150 TTCATTTTTTCATTTCTTTT
1 TTCATTTTTTCA-TT-TTTT
1227170 TTCATTTTTTCATTTTTT
1 TTCATTTTTTCATTTTTT
1227188 TTCATTT
1 TTCATTT
1227195 CCCCCCTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
18 11 0.44
19 2 0.08
20 12 0.48
ACGTcount: A:0.11, C:0.13, G:0.00, T:0.76
Consensus pattern (18 bp):
TTCATTTTTTCATTTTTT
Found at i:1230778 original size:14 final size:14
Alignment explanation
Indices: 1230759--1230788 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
1230749 AATGAATGTA
*
1230759 AAGAATAAAGGATG
1 AAGAATAAAGAATG
1230773 AAGAATAAAGAATG
1 AAGAATAAAGAATG
1230787 AA
1 AA
1230789 AATGTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.13
Consensus pattern (14 bp):
AAGAATAAAGAATG
Found at i:1238870 original size:20 final size:21
Alignment explanation
Indices: 1238845--1238883 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
1238835 ACTTAAATTT
1238845 AAATAAAAT-AAAATATCATA
1 AAATAAAATAAAAATATCATA
1238865 AAATAAAATAAAAATATCA
1 AAATAAAATAAAAATATCA
1238884 CCGTCAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (21 bp):
AAATAAAATAAAAATATCATA
Found at i:1239032 original size:16 final size:16
Alignment explanation
Indices: 1239007--1239037 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1238997 ATGATACTCA
*
1239007 AACAATGATCAAAATG
1 AACAAAGATCAAAATG
1239023 AACAAAGATCAAAAT
1 AACAAAGATCAAAAT
1239038 AGCCATAATC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.13, G:0.10, T:0.16
Consensus pattern (16 bp):
AACAAAGATCAAAATG
Found at i:1251736 original size:21 final size:21
Alignment explanation
Indices: 1251710--1251749 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
1251700 TTGGGAGCAT
1251710 AGGTGTATCGGGACACTCTCA
1 AGGTGTATCGGGACACTCTCA
*
1251731 AGGTGTATCGGTACACTCT
1 AGGTGTATCGGGACACTCT
1251750 GTAAAATTCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.28
Consensus pattern (21 bp):
AGGTGTATCGGGACACTCTCA
Found at i:1252271 original size:23 final size:23
Alignment explanation
Indices: 1252244--1252290 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
1252234 ATTTGAAATC
1252244 AATTTTGAAAATTACTCCCCCTT
1 AATTTTGAAAATTACTCCCCCTT
1252267 AATTTTGAAAATTACTCCCCCTT
1 AATTTTGAAAATTACTCCCCCTT
1252290 A
1 A
1252291 CTTTATTCTC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.32, C:0.26, G:0.04, T:0.38
Consensus pattern (23 bp):
AATTTTGAAAATTACTCCCCCTT
Found at i:1256991 original size:3 final size:3
Alignment explanation
Indices: 1256983--1257030 Score: 62
Period size: 3 Copynumber: 15.7 Consensus size: 3
1256973 AATTTTATTT
*
1256983 ATA ATA ATA ATA AGTA ATA ATA ATA A-A TATG ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA A-TA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA
1257029 AT
1 AT
1257031 TAAAACCCGA
Statistics
Matches: 40, Mismatches: 2, Indels: 6
0.83 0.04 0.12
Matches are distributed among these distances:
2 1 0.03
3 36 0.90
4 3 0.08
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:1257205 original size:22 final size:22
Alignment explanation
Indices: 1257175--1257218 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1257165 AAATTATGTT
*
1257175 TTTTTAAATAATAA-TTCAAAAA
1 TTTTAAAATAA-AATTTCAAAAA
1257197 TTTTAAAATAAAATTTCAAAAA
1 TTTTAAAATAAAATTTCAAAAA
1257219 ACTATAATCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.57, C:0.05, G:0.00, T:0.39
Consensus pattern (22 bp):
TTTTAAAATAAAATTTCAAAAA
Found at i:1257527 original size:2 final size:2
Alignment explanation
Indices: 1257520--1257549 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
1257510 TTAATTCAAA
1257520 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1257550 CAAACATTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:1258771 original size:5 final size:6
Alignment explanation
Indices: 1258754--1258778 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1258744 ATGTGTTGCC
1258754 ATAAAA ATAAAA ATAAAA ATAAAA A
1 ATAAAA ATAAAA ATAAAA ATAAAA A
1258779 CAGATGTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.84, C:0.00, G:0.00, T:0.16
Consensus pattern (6 bp):
ATAAAA
Found at i:1259377 original size:2 final size:2
Alignment explanation
Indices: 1259372--1259397 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
1259362 CCCCCCCCCC
1259372 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
1259398 TCAAGTTTCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:1260710 original size:17 final size:17
Alignment explanation
Indices: 1260667--1260711 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
1260657 TATATTACTC
*
1260667 TAAAAATTTTAAATTAT
1 TAAATATTTTAAATTAT
* *
1260684 TATATATTTTAAATTTT
1 TAAATATTTTAAATTAT
*
1260701 TAAATTTTTTA
1 TAAATATTTTA
1260712 TTGATAATTT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAAATATTTTAAATTAT
Found at i:1265631 original size:22 final size:21
Alignment explanation
Indices: 1265606--1265648 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1265596 TATAAAATAG
1265606 AAATAAATTTAAATAAGTTTAA
1 AAATAAATTTAAAT-AGTTTAA
* *
1265628 AAATTATTTTAAATAGTTTAA
1 AAATAAATTTAAATAGTTTAA
1265649 TATGTTTATG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 7 0.37
22 12 0.63
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (21 bp):
AAATAAATTTAAATAGTTTAA
Found at i:1265985 original size:31 final size:32
Alignment explanation
Indices: 1265898--1265985 Score: 101
Period size: 32 Copynumber: 2.8 Consensus size: 32
1265888 TTTAAAATAG
* *
1265898 TTTGATAAAATTTTAATG-ACATTTTGTAACAA
1 TTTGATAAAA-TTTAATGTTCATTTTATAACAA
* *
1265930 TTTTATAAAATTTAAT-TATTATTTTATAACAA
1 TTTGATAAAATTTAATGT-TCATTTTATAACAA
1265962 TTTGAT-AAATTTAATGTTCATTTT
1 TTTGATAAAATTTAATGTTCATTTT
1265986 GAAACTTTTG
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
31 21 0.45
32 26 0.55
ACGTcount: A:0.39, C:0.05, G:0.06, T:0.51
Consensus pattern (32 bp):
TTTGATAAAATTTAATGTTCATTTTATAACAA
Found at i:1268402 original size:13 final size:13
Alignment explanation
Indices: 1268384--1268431 Score: 69
Period size: 13 Copynumber: 3.7 Consensus size: 13
1268374 TGCATCATAA
1268384 ATTTATGACGCGC
1 ATTTATGACGCGC
* **
1268397 ATTTATGACACAT
1 ATTTATGACGCGC
1268410 ATTTATGACGCGC
1 ATTTATGACGCGC
1268423 ATTTATGAC
1 ATTTATGAC
1268432 TTTCACTGAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
13 29 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (13 bp):
ATTTATGACGCGC
Found at i:1268509 original size:85 final size:84
Alignment explanation
Indices: 1268413--1268574 Score: 216
Period size: 85 Copynumber: 1.9 Consensus size: 84
1268403 GACACATATT
* * * * * *
1268413 TATGACGCGCATTTATGACTTTCACTGAGCGTCATTGAAGCCCTCGTCATAAATTAAGATGACAC
1 TATGACACGCATGTATGACTTACACTGAGCGTCATTGAAGCACACGTCATAAA-AAAGATGACAC
*
1268478 ACATTTGTGTGTCATAAATA
65 ACATTCGTGTGTCATAAATA
* * * *
1268498 TATGACACGCATGTATGACTTACATTGCGTGTCATTGAAGCACACGTCATAAAAAAGATGATACA
1 TATGACACGCATGTATGACTTACACTGAGCGTCATTGAAGCACACGTCATAAAAAAGATGACACA
1268563 CATTCGTGTGTC
66 CATTCGTGTGTC
1268575 GTGATTGTAT
Statistics
Matches: 66, Mismatches: 11, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
84 21 0.32
85 45 0.68
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (84 bp):
TATGACACGCATGTATGACTTACACTGAGCGTCATTGAAGCACACGTCATAAAAAAGATGACACA
CATTCGTGTGTCATAAATA
Found at i:1273186 original size:19 final size:19
Alignment explanation
Indices: 1273159--1273203 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
1273149 GGGAAACAAT
* *
1273159 TGGATACCCTAGATCTCTA
1 TGGAAACCCTAGATCTCCA
1273178 TGGAAACCCTAGATCTCCA
1 TGGAAACCCTAGATCTCCA
1273197 TGGAAAC
1 TGGAAAC
1273204 AGGGAAACCA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.24
Consensus pattern (19 bp):
TGGAAACCCTAGATCTCCA
Found at i:1273414 original size:16 final size:16
Alignment explanation
Indices: 1273393--1273426 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
1273383 GGGAGGTTGC
1273393 AAAGAGAAAAAGGGAA
1 AAAGAGAAAAAGGGAA
*
1273409 AAAGAGAAAAATGGAA
1 AAAGAGAAAAAGGGAA
1273425 AA
1 AA
1273427 GCATGCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.71, C:0.00, G:0.26, T:0.03
Consensus pattern (16 bp):
AAAGAGAAAAAGGGAA
Found at i:1274222 original size:20 final size:20
Alignment explanation
Indices: 1274197--1274247 Score: 93
Period size: 20 Copynumber: 2.5 Consensus size: 20
1274187 AATAATTATA
1274197 TCTTTGTGACATGTTCTCTG
1 TCTTTGTGACATGTTCTCTG
1274217 TCTTTGTGACATGTTCTCTG
1 TCTTTGTGACATGTTCTCTG
*
1274237 TCTTTATGACA
1 TCTTTGTGACA
1274248 CTTTTATCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.14, C:0.20, G:0.18, T:0.49
Consensus pattern (20 bp):
TCTTTGTGACATGTTCTCTG
Found at i:1275196 original size:189 final size:189
Alignment explanation
Indices: 1274878--1275270 Score: 754
Period size: 189 Copynumber: 2.1 Consensus size: 189
1274868 TTATGTCCTT
1274878 AAAAAATGCATAATC--TTTTTTTTCTTAAGTTATAAAGTGATTACAAGATAGTATTTGTTCTAT
1 AAAAAATGCATAATCTTTTTTTTTTCTTAAGTTATAAAGTGATTACAAGATAGTATTTGTTCTAT
1274941 ATATATTCTCAATCATTTAACATTGAACGCTCAATCACCCTACTGTAGCCGCTGGTGTTCGAACC
66 ATATATTCTCAATCATTTAACATTGAACGCTCAATCACCCTACTGTAGCCGCTGGTGTTCGAACC
1275006 CATAACCTCTAAGAAAAACAACGATTTCTTTAATCATTGAGGTAAGTTAGTTCATGCAA
131 CATAACCTCTAAGAAAAACAACGATTTCTTTAATCATTGAGGTAAGTTAGTTCATGCAA
1275065 AAAAAATGCATAATCTTTTTTTTTTCTTAAGTTATAAAGTGATTACAAGATAGTATTTGTTCTAT
1 AAAAAATGCATAATCTTTTTTTTTTCTTAAGTTATAAAGTGATTACAAGATAGTATTTGTTCTAT
*
1275130 ATATATTCTCAATCATTTAACATTGAACGCTCAATCATCCTACTGTAGCCGCTGGTGTTCGAACC
66 ATATATTCTCAATCATTTAACATTGAACGCTCAATCACCCTACTGTAGCCGCTGGTGTTCGAACC
*
1275195 CATGACCTCTAAGAAAAACAACGATTTCTTTAATCATTGAGGTAAGTTAGTTCATGCAA
131 CATAACCTCTAAGAAAAACAACGATTTCTTTAATCATTGAGGTAAGTTAGTTCATGCAA
1275254 AAAAAATGCATAATCTT
1 AAAAAATGCATAATCTT
1275271 AATACATGTT
Statistics
Matches: 202, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
187 15 0.07
189 187 0.93
ACGTcount: A:0.35, C:0.17, G:0.13, T:0.36
Consensus pattern (189 bp):
AAAAAATGCATAATCTTTTTTTTTTCTTAAGTTATAAAGTGATTACAAGATAGTATTTGTTCTAT
ATATATTCTCAATCATTTAACATTGAACGCTCAATCACCCTACTGTAGCCGCTGGTGTTCGAACC
CATAACCTCTAAGAAAAACAACGATTTCTTTAATCATTGAGGTAAGTTAGTTCATGCAA
Found at i:1276426 original size:30 final size:30
Alignment explanation
Indices: 1276390--1276454 Score: 121
Period size: 30 Copynumber: 2.2 Consensus size: 30
1276380 AGATGGATAT
*
1276390 GATCAGGTGACGATATATTTGACTCTGGTA
1 GATCAGGTGACGATATATTTGACCCTGGTA
1276420 GATCAGGTGACGATATATTTGACCCTGGTA
1 GATCAGGTGACGATATATTTGACCCTGGTA
1276450 GATCA
1 GATCA
1276455 TGTTAGTCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.28, C:0.15, G:0.26, T:0.31
Consensus pattern (30 bp):
GATCAGGTGACGATATATTTGACCCTGGTA
Found at i:1278303 original size:20 final size:22
Alignment explanation
Indices: 1278265--1278304 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
1278255 TTATAATCCT
1278265 AAACAATATAATACAATGAACA
1 AAACAATATAATACAATGAACA
*
1278287 AAACAA-AT-ATACCATGAA
1 AAACAATATAATACAATGAA
1278305 AATATCAACC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 2 0.12
22 6 0.35
ACGTcount: A:0.62, C:0.15, G:0.05, T:0.17
Consensus pattern (22 bp):
AAACAATATAATACAATGAACA
Found at i:1279087 original size:20 final size:19
Alignment explanation
Indices: 1279058--1279105 Score: 69
Period size: 20 Copynumber: 2.5 Consensus size: 19
1279048 AAAACAACTC
*
1279058 TACTACATGCAACTATATG
1 TACTAAATGCAACTATATG
*
1279077 ATCCTAAATGCAACTATATG
1 -TACTAAATGCAACTATATG
1279097 TACTAAATG
1 TACTAAATG
1279106 TGCCTTAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (19 bp):
TACTAAATGCAACTATATG
Found at i:1281049 original size:2 final size:2
Alignment explanation
Indices: 1281042--1281074 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
1281032 AATACAATTA
1281042 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1281075 AAGGATGTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1285297 original size:2 final size:2
Alignment explanation
Indices: 1285290--1285328 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
1285280 AGTTTTATTA
1285290 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1285329 AATTTAAAAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1286326 original size:151 final size:152
Alignment explanation
Indices: 1286122--1286396 Score: 426
Period size: 151 Copynumber: 1.8 Consensus size: 152
1286112 AGCATGAATA
* *
1286122 TATAACACTGAAAAGAAAAATGACATTTTTCATTCATATATCACTGAAAAGTCATTTTGAAGTGA
1 TATAACACTGAAAAGAAAAATGACATTTTTCAGTCAGATATCACTGAAAAGTCATTTTGAAGTGA
1286187 TAAAACACTGAAAAGCCATGGTGAAATTATTATGATAGGGTCTGATCAATTAGTAAATAAGCACT
66 TAAAACACTGAAAAGCCATGGTGAAATTATTATGATAGGGTCTGATCAATTAGTAAATAAGCACT
1286252 GAAAAGTTCAGAAATTAGGTGG
131 GAAAAGTTCAGAAATTAGGTGG
* ** * * *
1286274 TATATCACTGAAAAGAAAAA-GATGTTTTTCAGTCAGATATCATTGAAAAGTCATTTTGAGGTTA
1 TATAACACTGAAAAGAAAAATGACATTTTTCAGTCAGATATCACTGAAAAGTCATTTTGAAGTGA
* * * * *
1286338 TATATCACTGAAAAGTCATGGTGAAATTATTATGATAGGGTTTGATCAATTATTAAATA
66 TAAAACACTGAAAAGCCATGGTGAAATTATTATGATAGGGTCTGATCAATTAGTAAATA
1286397 TGGTCAAAAA
Statistics
Matches: 110, Mismatches: 13, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
151 91 0.83
152 19 0.17
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (152 bp):
TATAACACTGAAAAGAAAAATGACATTTTTCAGTCAGATATCACTGAAAAGTCATTTTGAAGTGA
TAAAACACTGAAAAGCCATGGTGAAATTATTATGATAGGGTCTGATCAATTAGTAAATAAGCACT
GAAAAGTTCAGAAATTAGGTGG
Found at i:1286367 original size:29 final size:29
Alignment explanation
Indices: 1286310--1286367 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1286300 TTTCAGTCAG
* ** **
1286310 ATATCATTGAAAAGTCATTTTGAGGTTAT
1 ATATCACTGAAAAGTCATGGTGAAATTAT
1286339 ATATCACTGAAAAGTCATGGTGAAATTAT
1 ATATCACTGAAAAGTCATGGTGAAATTAT
1286368 TATGATAGGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.38, C:0.09, G:0.17, T:0.36
Consensus pattern (29 bp):
ATATCACTGAAAAGTCATGGTGAAATTAT
Found at i:1286438 original size:151 final size:152
Alignment explanation
Indices: 1286121--1286438 Score: 406
Period size: 151 Copynumber: 2.1 Consensus size: 152
1286111 AAGCATGAAT
* * * *
1286121 ATATAACACTGAAAAGAAAAATGACATTTTTCATTCATATATCACTGAAAAGTCATTTTGAAGTG
1 ATATATCACGGAAAAGAAAAATGACATTTTTCAGTCAGATATCACTGAAAAGTCATTTTGAAGTG
1286186 ATAAAACACTGAAAAGCCATGGTGAAATTATTATGATAGGGTCTGATCAATTAGTAAATAAGCAC
66 ATAAAACACTGAAAAGCCATGGTGAAATTATTATGATAGGGTCTGATCAATTAGTAAATAAGCAC
* **
1286251 TGAAAAGTTCAGAAATTAGGTG
131 TAAAAAGTTCAGAAAAGAGGTG
* * ** * * *
1286273 GTATATCACTGAAAAGAAAAA-GATGTTTTTCAGTCAGATATCATTGAAAAGTCATTTTGAGGTT
1 ATATATCACGGAAAAGAAAAATGACATTTTTCAGTCAGATATCACTGAAAAGTCATTTTGAAGTG
* * * * * * **
1286337 ATATATCACTGAAAAGTCATGGTGAAATTATTATGATAGGGTTTGATCAATTATTAAATATGGTC
66 ATAAAACACTGAAAAGCCATGGTGAAATTATTATGATAGGGTCTGATCAATTAGTAAATAAGCAC
*
1286402 -AAAAAGTTTAGAAAAGAGGTG
131 TAAAAAGTTCAGAAAAGAGGTG
1286423 ATATATCACCGGAAAA
1 ATATATCA-CGGAAAA
1286439 AAAGGAGGTT
Statistics
Matches: 142, Mismatches: 23, Indels: 3
0.85 0.14 0.02
Matches are distributed among these distances:
150 24 0.17
151 99 0.70
152 19 0.13
ACGTcount: A:0.42, C:0.10, G:0.18, T:0.31
Consensus pattern (152 bp):
ATATATCACGGAAAAGAAAAATGACATTTTTCAGTCAGATATCACTGAAAAGTCATTTTGAAGTG
ATAAAACACTGAAAAGCCATGGTGAAATTATTATGATAGGGTCTGATCAATTAGTAAATAAGCAC
TAAAAAGTTCAGAAAAGAGGTG
Found at i:1286482 original size:23 final size:22
Alignment explanation
Indices: 1286452--1286498 Score: 76
Period size: 23 Copynumber: 2.1 Consensus size: 22
1286442 GGAGGTTTTG
1286452 AATTATTATGATAGAGTCTGATT
1 AATTATTATGATAGAGTCT-ATT
*
1286475 AATTATTATGATAGGGTCTATT
1 AATTATTATGATAGAGTCTATT
1286497 AA
1 AA
1286499 GTCACTGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 5 0.22
23 18 0.78
ACGTcount: A:0.36, C:0.04, G:0.17, T:0.43
Consensus pattern (22 bp):
AATTATTATGATAGAGTCTATT
Found at i:1293416 original size:65 final size:65
Alignment explanation
Indices: 1293347--1293470 Score: 187
Period size: 65 Copynumber: 1.9 Consensus size: 65
1293337 ACACACCTAA
* *
1293347 TTTTATTG-AACATCAAATACTTTTGATGTACCGATGCACATACCATGCATCGATTCACTACAAG
1 TTTTA-TGAAACATCAAATACTTTTGATGTACCGATGCACAGACCATGCATCGATGCACTACAAG
1293411 T
65 T
* * *
1293412 TTTTATGAAACATCGAATGCTTTTGATGTACCGATGCACAGATCATGCATCGATGCACT
1 TTTTATGAAACATCAAATACTTTTGATGTACCGATGCACAGACCATGCATCGATGCACT
1293471 CCTGGCTCTT
Statistics
Matches: 53, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
64 2 0.04
65 51 0.96
ACGTcount: A:0.31, C:0.21, G:0.15, T:0.33
Consensus pattern (65 bp):
TTTTATGAAACATCAAATACTTTTGATGTACCGATGCACAGACCATGCATCGATGCACTACAAGT
Found at i:1293486 original size:65 final size:65
Alignment explanation
Indices: 1293355--1293515 Score: 182
Period size: 65 Copynumber: 2.5 Consensus size: 65
1293345 AATTTTATTG
* * * * *
1293355 AACATCAAATACTTTTGATGTACCGATGCACATACCATGCATCGATTCACTACAAGTTTTTATGA
1 AACATCGAATGCTTTTGATGTACCGATGCACAGACCATGCATCGATGCACTACAAGTCTTTATGA
* * **
1293420 AACATCGAATGCTTTTGATGTACCGATGCACAGATCATGCATCGATGCACTCCTGGCTCTTT-TG
1 AACATCGAATGCTTTTGATGTACCGATGCACAGACCATGCATCGATGCACTACAAG-TCTTTATG
1293484 A
65 A
* **
1293485 AACATTGAATGCAATT-AGTGTACCGATGCAC
1 AACATCGAATGCTTTTGA-TGTACCGATGCAC
1293516 TAGGTCTTAT
Statistics
Matches: 82, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
64 1 0.01
65 77 0.94
66 4 0.05
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.30
Consensus pattern (65 bp):
AACATCGAATGCTTTTGATGTACCGATGCACAGACCATGCATCGATGCACTACAAGTCTTTATGA
Found at i:1306100 original size:23 final size:21
Alignment explanation
Indices: 1306045--1306127 Score: 80
Period size: 23 Copynumber: 3.8 Consensus size: 21
1306035 ATGCGCGCTA
1306045 GGTATCGATACCCCCATTGAATG
1 GGTATCGATACCCCC-TTGAA-G
*
1306068 GGCA-CTGATACCCTCCTTGAACG
1 GGTATC-GATACCC-CCTTGAA-G
*
1306091 GGTATCGATACCCCCCTG-AG
1 GGTATCGATACCCCCTTGAAG
*
1306111 GGTACCGATACCCCCTT
1 GGTATCGATACCCCCTT
1306128 TGGGTTCTGG
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
20 16 0.31
21 1 0.02
22 5 0.10
23 26 0.51
24 3 0.06
ACGTcount: A:0.22, C:0.34, G:0.22, T:0.23
Consensus pattern (21 bp):
GGTATCGATACCCCCTTGAAG
Found at i:1307216 original size:15 final size:15
Alignment explanation
Indices: 1307196--1307225 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
1307186 CTAATGCATT
1307196 TGGATTAGATAATGA
1 TGGATTAGATAATGA
1307211 TGGATTAGATAATGA
1 TGGATTAGATAATGA
1307226 AAAAGAAACA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.27, T:0.33
Consensus pattern (15 bp):
TGGATTAGATAATGA
Found at i:1308351 original size:19 final size:18
Alignment explanation
Indices: 1308327--1308394 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
1308317 GGGAGTAATA
1308327 ATTTTCAAAATTAATTTTG
1 ATTTTCAAAA-TAATTTTG
1308346 ATTTTCAAAATAA-TTT-
1 ATTTTCAAAATAATTTTG
* *
1308362 -TTCT-AAGAA-AATCTTG
1 ATTTTCAA-AATAATTTTG
1308378 ATTTTCAAAATAATTTT
1 ATTTTCAAAATAATTTT
1308395 TCTAAGAAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 13
0.70 0.07 0.23
Matches are distributed among these distances:
14 4 0.10
15 7 0.18
17 8 0.21
18 10 0.26
19 10 0.26
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (18 bp):
ATTTTCAAAATAATTTTG
Found at i:1308379 original size:32 final size:32
Alignment explanation
Indices: 1308343--1308418 Score: 152
Period size: 32 Copynumber: 2.4 Consensus size: 32
1308333 AAAATTAATT
1308343 TTGATTTTCAAAATAATTTTTCTAAGAAAATC
1 TTGATTTTCAAAATAATTTTTCTAAGAAAATC
1308375 TTGATTTTCAAAATAATTTTTCTAAGAAAATC
1 TTGATTTTCAAAATAATTTTTCTAAGAAAATC
1308407 TTGATTTTCAAA
1 TTGATTTTCAAA
1308419 TTACTTAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 44 1.00
ACGTcount: A:0.39, C:0.09, G:0.07, T:0.45
Consensus pattern (32 bp):
TTGATTTTCAAAATAATTTTTCTAAGAAAATC
Found at i:1311172 original size:12 final size:13
Alignment explanation
Indices: 1311155--1311183 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1311145 CTTTACTATC
1311155 TAAATT-AAGAAT
1 TAAATTAAAGAAT
1311167 TAAATTAAAGAAT
1 TAAATTAAAGAAT
1311180 TAAA
1 TAAA
1311184 AAGATGAGAG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.38
13 10 0.62
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (13 bp):
TAAATTAAAGAAT
Found at i:1311249 original size:27 final size:25
Alignment explanation
Indices: 1311210--1311262 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 25
1311200 AAATTATAAT
*
1311210 TAAAAATTAAAAATTGTTTTCTGAAAA
1 TAAAAATTAAAAA-TATTTTCT-AAAA
1311237 TAAAAA-TAGAAAATATTTTCTAAAA
1 TAAAAATTA-AAAATATTTTCTAAAA
1311262 T
1 T
1311263 CAAACATATT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
25 5 0.21
26 9 0.38
27 10 0.42
ACGTcount: A:0.55, C:0.04, G:0.06, T:0.36
Consensus pattern (25 bp):
TAAAAATTAAAAATATTTTCTAAAA
Found at i:1311658 original size:21 final size:21
Alignment explanation
Indices: 1311620--1311659 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
1311610 ATTTAAGAAC
**
1311620 TCTAAACTCCAAGCTATAACA
1 TCTAAACTCCAAAATATAACA
*
1311641 TCTAAACTCTAAAATATAA
1 TCTAAACTCCAAAATATAA
1311660 ACCTTAAAAT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.47, C:0.23, G:0.03, T:0.28
Consensus pattern (21 bp):
TCTAAACTCCAAAATATAACA
Found at i:1317711 original size:19 final size:19
Alignment explanation
Indices: 1317687--1317733 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
1317677 AAATATCATA
1317687 AATTACAATAAAGATTTAC
1 AATTACAATAAAGATTTAC
*
1317706 AATTACAATAAAGATTTAT
1 AATTACAATAAAGATTTAC
*
1317725 AATCACAAT
1 AATTACAAT
1317734 CGTAAATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.53, C:0.11, G:0.04, T:0.32
Consensus pattern (19 bp):
AATTACAATAAAGATTTAC
Found at i:1325409 original size:136 final size:136
Alignment explanation
Indices: 1325191--1325521 Score: 414
Period size: 136 Copynumber: 2.4 Consensus size: 136
1325181 AGGTGCCGAA
* **
1325191 TTAATTATTCGATAGTCCATAATTGATTAAAATTAATTAGGATTAATGCTAGAGCCTCCATCTTA
1 TTAATTATTCGA-AGTCAATAATT-ATTAAAATTAATTAGGA-TAATATTAGAGCCTCCATCTTA
* * * *
1325256 GGCCTAATTTTATATTTAATCCTTAAATTAGGTGAACTCTTAATTTGGTCATCGCTTTTACTTGA
63 GGCCTAATTTCACATTTAATCCTTAAATTAGGAGAACTCTTAATTTGGTCATCGCTTTTACTCGA
1325321 GATTCCAA-T
128 GATT-CAACT
* *
1325330 TTAATTATTCGAA-TCGATAATATATTAAAATTAATTAGGATAATATTAAAGCCTCCATCTTAGG
1 TTAATTATTCGAAGTCAATAAT-TATTAAAATTAATTAGGATAATATTAGAGCCTCCATCTTAGG
* * * * * *
1325394 CTTAATTTCACATTTAGTCCTTAAATTAGGAGGATTCTTAATTTGGTCATCGCTTTTTCTCGAGG
65 CCTAATTTCACATTTAATCCTTAAATTAGGAGAACTCTTAATTTGGTCATCGCTTTTACTCGAGA
1325459 TTCAACT
130 TTCAACT
* * * *
1325466 TTAATTATTCGAATTGCAATAATGATTAAAATTAATTTAAGTTAATATTAGAGCCT
1 TTAATTATTCGAAGT-CAATAATTATTAAAATTAA-TTAGGATAATATTAGAGCCT
1325522 ATATTTTCAG
Statistics
Matches: 168, Mismatches: 19, Indels: 11
0.85 0.10 0.06
Matches are distributed among these distances:
135 3 0.02
136 92 0.55
137 36 0.21
138 25 0.15
139 12 0.07
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.41
Consensus pattern (136 bp):
TTAATTATTCGAAGTCAATAATTATTAAAATTAATTAGGATAATATTAGAGCCTCCATCTTAGGC
CTAATTTCACATTTAATCCTTAAATTAGGAGAACTCTTAATTTGGTCATCGCTTTTACTCGAGAT
TCAACT
Found at i:1327916 original size:2 final size:2
Alignment explanation
Indices: 1327909--1327933 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
1327899 TGAGTTATTC
1327909 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
1327934 GTATGTACGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1339239 original size:18 final size:18
Alignment explanation
Indices: 1339212--1339297 Score: 136
Period size: 18 Copynumber: 4.8 Consensus size: 18
1339202 AATGCATTTT
* *
1339212 ATGCACCGATGCACAACC
1 ATGCATCGATGCACAGCC
1339230 ATGCATCGATGCACAGCC
1 ATGCATCGATGCACAGCC
* *
1339248 ATGCATCTATGCACATCC
1 ATGCATCGATGCACAGCC
1339266 ATGCATCGATGCACAGCC
1 ATGCATCGATGCACAGCC
1339284 ATGCATCGATGCAC
1 ATGCATCGATGCAC
1339298 TGAGATTTTA
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 62 1.00
ACGTcount: A:0.29, C:0.34, G:0.19, T:0.19
Consensus pattern (18 bp):
ATGCATCGATGCACAGCC
Found at i:1347054 original size:19 final size:20
Alignment explanation
Indices: 1347032--1347070 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
1347022 TGCTTTCAGA
*
1347032 TTGTTTTGGATG-TTTGAAT
1 TTGTTTTGAATGCTTTGAAT
1347051 TTGTTTTGAATGCTTTGAAT
1 TTGTTTTGAATGCTTTGAAT
1347071 GATTGCACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.18, C:0.03, G:0.23, T:0.56
Consensus pattern (20 bp):
TTGTTTTGAATGCTTTGAAT
Found at i:1347889 original size:65 final size:64
Alignment explanation
Indices: 1347739--1347892 Score: 177
Period size: 65 Copynumber: 2.4 Consensus size: 64
1347729 CACCCATTTT
* *
1347739 GAATGCATTTTATGCACCGATGCACAACCATGCATCGATGTACTCAGGATTTTATTAAAACATC
1 GAATGCATTTTATGCACCGATGCACAACCATGCATCGATGCACTCAGGATATTATTAAAACATC
* * * * *
1347803 GAATTG-ATTTTTTGTACCGATGCACATACCATGCATCGATGCACTACATGCTATT-TTGAAACA
1 GAA-TGCATTTTATGCACCGATGCACA-ACCATGCATCGATGCACT-CAGGATATTATTAAAACA
1347866 TC
63 TC
* * *
1347868 GAATGCAATTAATGCATCGATGCAC
1 GAATGCATTTTATGCACCGATGCAC
1347893 CCTTAGTTTA
Statistics
Matches: 74, Mismatches: 12, Indels: 7
0.80 0.13 0.08
Matches are distributed among these distances:
64 23 0.31
65 45 0.61
66 6 0.08
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (64 bp):
GAATGCATTTTATGCACCGATGCACAACCATGCATCGATGCACTCAGGATATTATTAAAACATC
Found at i:1351390 original size:75 final size:74
Alignment explanation
Indices: 1351302--1351461 Score: 164
Period size: 74 Copynumber: 2.1 Consensus size: 74
1351292 TAAACTCAAG
* * *
1351302 TTTAGGATAATATTTAAACATTATAT-TTTATCTTT-TGTATTTTAGTTTAAATAGGTTTTTAGT
1 TTTAGAAT-ATATTT-AACATTATATCTTTAT-TTTAGGTATTTTAGTTGAAATAGG-TTTTAG-
*
1351365 A-TTTTAATTAAGT
61 AGTTTTAATTAAGA
*** * *
1351378 TTTAGAATATATTTTTTATTTTATCTTTGTTTTAGGTATTTTAGTTGAAATAGGTTTTAGAGTTT
1 TTTAGAATATATTTAACATTATATCTTTATTTTAGGTATTTTAGTTGAAATAGGTTTTAGAGTTT
*
1351443 TAATTAGGA
66 TAATTAAGA
1351452 TTTAGAATAT
1 TTTAGAATAT
1351462 TATATTATTA
Statistics
Matches: 71, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
73 1 0.01
74 35 0.49
75 28 0.39
76 7 0.10
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.55
Consensus pattern (74 bp):
TTTAGAATATATTTAACATTATATCTTTATTTTAGGTATTTTAGTTGAAATAGGTTTTAGAGTTT
TAATTAAGA
Found at i:1352134 original size:20 final size:19
Alignment explanation
Indices: 1352104--1352154 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
1352094 GACCTCTTTA
*
1352104 ATTTGTTTATTTAATTATT
1 ATTTTTTTATTTAATTATT
* * *
1352123 TTTTCTTTTATTGAATTCTT
1 ATTT-TTTTATTTAATTATT
1352143 ATTTTTTTATTT
1 ATTTTTTTATTT
1352155 TAAAAACAAC
Statistics
Matches: 25, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
19 10 0.40
20 15 0.60
ACGTcount: A:0.20, C:0.04, G:0.04, T:0.73
Consensus pattern (19 bp):
ATTTTTTTATTTAATTATT
Found at i:1357412 original size:11 final size:11
Alignment explanation
Indices: 1357396--1357433 Score: 53
Period size: 11 Copynumber: 3.5 Consensus size: 11
1357386 CATTTCGTTA
1357396 TATTTTGTTTT
1 TATTTTGTTTT
1357407 TATTTT-TGTTT
1 TATTTTGT-TTT
1357418 TATTTTG-TTT
1 TATTTTGTTTT
1357428 TATTTT
1 TATTTT
1357434 CAGTGAACTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
10 10 0.40
11 15 0.60
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.82
Consensus pattern (11 bp):
TATTTTGTTTT
Found at i:1357425 original size:10 final size:10
Alignment explanation
Indices: 1357396--1357433 Score: 58
Period size: 10 Copynumber: 3.6 Consensus size: 10
1357386 CATTTCGTTA
1357396 TATTTTGTTTT
1 TATTTTG-TTT
1357407 TATTTTTGTTT
1 TA-TTTTGTTT
1357418 TATTTTGTTT
1 TATTTTGTTT
1357428 TATTTT
1 TATTTT
1357434 CAGTGAACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 14 0.54
11 7 0.27
12 5 0.19
ACGTcount: A:0.11, C:0.00, G:0.08, T:0.82
Consensus pattern (10 bp):
TATTTTGTTT
Found at i:1358267 original size:10 final size:10
Alignment explanation
Indices: 1358252--1358293 Score: 57
Period size: 10 Copynumber: 4.0 Consensus size: 10
1358242 TTGTTGTTCC
1358252 AAAAAAAATA
1 AAAAAAAATA
1358262 AAAAAAAATA
1 AAAAAAAATA
*
1358272 AAAAATAAAGA
1 AAAAA-AAATA
1358283 AGAAAAAAATA
1 A-AAAAAAATA
1358294 CCCTTTGTTC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 15 0.54
11 9 0.32
12 4 0.14
ACGTcount: A:0.86, C:0.00, G:0.05, T:0.10
Consensus pattern (10 bp):
AAAAAAAATA
Found at i:1360536 original size:13 final size:13
Alignment explanation
Indices: 1360515--1360570 Score: 53
Period size: 12 Copynumber: 4.2 Consensus size: 13
1360505 TCTCAATCTC
1360515 TTTAATTTTTTTA
1 TTTAATTTTTTTA
*
1360528 TTT-ACTTTTTTA
1 TTTAATTTTTTTA
1360540 TTTAATTTTATTTTA
1 TTTAA-TTT-TTTTA
*
1360555 TTCTTA-TTTTTTA
1 TT-TAATTTTTTTA
1360568 TTT
1 TTT
1360571 TAAAAACAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 9
0.75 0.06 0.19
Matches are distributed among these distances:
12 12 0.33
13 11 0.31
14 4 0.11
15 7 0.19
16 2 0.06
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.77
Consensus pattern (13 bp):
TTTAATTTTTTTA
Found at i:1364279 original size:24 final size:24
Alignment explanation
Indices: 1364247--1364319 Score: 119
Period size: 24 Copynumber: 3.0 Consensus size: 24
1364237 AGTCTTCCTG
* *
1364247 ATGATGTATAAAACATATATGTAC
1 ATGATGTATAAAACATCTATGCAC
1364271 ATGATGTATAAAACATCTATGCAC
1 ATGATGTATAAAACATCTATGCAC
*
1364295 AAGATGTATAAAACATCTATGCAC
1 ATGATGTATAAAACATCTATGCAC
1364319 A
1 A
1364320 ATGTCATGCA
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 46 1.00
ACGTcount: A:0.45, C:0.14, G:0.12, T:0.29
Consensus pattern (24 bp):
ATGATGTATAAAACATCTATGCAC
Found at i:1364924 original size:30 final size:31
Alignment explanation
Indices: 1364855--1364922 Score: 88
Period size: 31 Copynumber: 2.3 Consensus size: 31
1364845 CAACCATTCA
*
1364855 TAACTTTTCCAAAATTATCAAATTGGTCCCC
1 TAACTTTTCAAAAATTATCAAATTGGTCCCC
1364886 TAACTTTTCAAAAATTA-CATAA-TGGT-CCC
1 TAACTTTTCAAAAATTATCA-AATTGGTCCCC
*
1364915 TAAATTTT
1 TAACTTTT
1364923 TCTAAGGCTT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 10 0.29
30 6 0.18
31 18 0.53
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (31 bp):
TAACTTTTCAAAAATTATCAAATTGGTCCCC
Found at i:1370311 original size:20 final size:21
Alignment explanation
Indices: 1370286--1370337 Score: 65
Period size: 20 Copynumber: 2.5 Consensus size: 21
1370276 TTATCTCAAG
1370286 TAAAAC-TATCATATG-ATATT
1 TAAAACATAT-ATATGTATATT
1370306 TAAAACATATATATGTATA-T
1 TAAAACATATATATGTATATT
1370326 TAAATACATATA
1 TAAA-ACATATA
1370338 CTCAAAATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
20 16 0.55
21 13 0.45
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (21 bp):
TAAAACATATATATGTATATT
Found at i:1384682 original size:10 final size:10
Alignment explanation
Indices: 1384654--1384694 Score: 52
Period size: 9 Copynumber: 4.3 Consensus size: 10
1384644 CGGCAATCAT
1384654 TTTATACATT-
1 TTTAT-CATTC
1384664 TTTAT-ATTC
1 TTTATCATTC
1384673 TTTATCATTC
1 TTTATCATTC
1384683 TTTA-CATTC
1 TTTATCATTC
1384692 TTT
1 TTT
1384695 TATTTCATTT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
8 3 0.10
9 13 0.45
10 13 0.45
ACGTcount: A:0.22, C:0.15, G:0.00, T:0.63
Consensus pattern (10 bp):
TTTATCATTC
Found at i:1384686 original size:19 final size:19
Alignment explanation
Indices: 1384654--1384717 Score: 67
Period size: 19 Copynumber: 3.3 Consensus size: 19
1384644 CGGCAATCAT
*
1384654 TTTATACATTTTTATATTC
1 TTTATACATTTTTACATTC
1384673 TTTAT-CATTCTTTACATTC
1 TTTATACATT-TTTACATTC
* *
1384692 TTTTATTTCATTTTTACATTT
1 -TTTA-TACATTTTTACATTC
1384713 TTTAT
1 TTTAT
1384718 TATTCCATTC
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
18 4 0.10
19 14 0.36
20 8 0.21
21 9 0.23
22 4 0.10
ACGTcount: A:0.22, C:0.12, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTATACATTTTTACATTC
Found at i:1386350 original size:7 final size:6
Alignment explanation
Indices: 1386340--1386429 Score: 65
Period size: 7 Copynumber: 13.7 Consensus size: 6
1386330 TAAAAATGAA
* * *
1386340 AAAAATG AAAAAT AAAAAT AAAAA- AATGAAG AAAAGAAG AAAAAAG AAAAAAG
1 AAAAA-G AAAAAG AAAAAG AAAAAG AA-AAAG -AAA-AAG -AAAAAG -AAAAAG
1386393 AAAAAGG AAAAAGG AAAAAG AAAAAG AGAAAAG AAAA
1 AAAAA-G AAAAA-G AAAAAG AAAAAG A-AAAAG AAAA
1386430 TTGAAAGGAG
Statistics
Matches: 74, Mismatches: 3, Indels: 13
0.82 0.03 0.14
Matches are distributed among these distances:
5 2 0.03
6 29 0.39
7 34 0.46
8 9 0.12
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (6 bp):
AAAAAG
Found at i:1386356 original size:22 final size:21
Alignment explanation
Indices: 1386328--1386369 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
1386318 GTAAAAAAAG
1386328 AATAAAAATGAAAAAAATGAAA
1 AATAAAAAT-AAAAAAATGAAA
1386350 AATAAAAATAAAAAAATGAA
1 AATAAAAATAAAAAAATGAA
1386370 GAAAAGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.79, C:0.00, G:0.07, T:0.14
Consensus pattern (21 bp):
AATAAAAATAAAAAAATGAAA
Found at i:1386395 original size:14 final size:14
Alignment explanation
Indices: 1386368--1386429 Score: 74
Period size: 13 Copynumber: 4.5 Consensus size: 14
1386358 TAAAAAAATG
1386368 AAGAAAAGAAGAAAA
1 AAGAAAA-AAGAAAA
1386383 AAGAAAAAAG-AAA
1 AAGAAAAAAGAAAA
* *
1386396 AAGGAAAAAGGAAA
1 AAGAAAAAAGAAAA
*
1386410 AAG-AAAAAGAGAA
1 AAGAAAAAAGAAAA
1386423 AAGAAAA
1 AAGAAAA
1386430 TTGAAAGGAG
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
13 23 0.55
14 12 0.29
15 7 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAGAAAAAAGAAAA
Found at i:1386398 original size:13 final size:13
Alignment explanation
Indices: 1386368--1386429 Score: 72
Period size: 14 Copynumber: 4.5 Consensus size: 13
1386358 TAAAAAAATG
1386368 AAGAAAAGAAGAAAA
1 AAGAAAA-AAG-AAA
1386383 AAGAAAAAAGAAA
1 AAGAAAAAAGAAA
*
1386396 AAGGAAAAAGGAAA
1 AA-GAAAAAAGAAA
1386410 AAG-AAAAAGAGAA
1 AAGAAAAAAGA-AA
1386423 AAGAAAA
1 AAGAAAA
1386430 TTGAAAGGAG
Statistics
Matches: 42, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
12 6 0.14
13 11 0.26
14 18 0.43
15 7 0.17
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (13 bp):
AAGAAAAAAGAAA
Found at i:1386404 original size:40 final size:39
Alignment explanation
Indices: 1386308--1386424 Score: 94
Period size: 40 Copynumber: 2.9 Consensus size: 39
1386298 AGAATGATAG
* * * *
1386308 AAAAGAATAAGTAAAAAAAGAATAAAAATGAAAAAAATGA
1 AAAAGAAAAAGAAAAAAAAGAAGAAAAAAGAAAAAAA-GA
* * *
1386348 AAAATAAAAATAAAAAAATGAAGAAAAGAAG-AAAAAAGAA
1 AAAAGAAAAAGAAAAAAAAGAAGAAAA-AAGAAAAAAAG-A
1386388 AAAAGAAAAAGGAAAAAGGAAA-AAGAAAAAGAGAAAA
1 AAAAGAAAAA-GAAAAA--AAAGAAGAAAAA-AGAAAA
1386425 GAAAATTGAA
Statistics
Matches: 60, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
39 1 0.02
40 37 0.62
41 8 0.13
42 9 0.15
43 5 0.08
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.07
Consensus pattern (39 bp):
AAAAGAAAAAGAAAAAAAAGAAGAAAAAAGAAAAAAAGA
Found at i:1386405 original size:20 final size:19
Alignment explanation
Indices: 1386308--1386429 Score: 77
Period size: 20 Copynumber: 6.2 Consensus size: 19
1386298 AGAATGATAG
* *
1386308 AAAAGAATAAGTAAAAA-A
1 AAAAGAAAAAGAAAAAAGA
* *
1386326 AGAATAAAAATGAAAAAAATGA
1 AAAAGAAAAA-G-AAAAAA-GA
* *
1386348 AAAATAAAAATAAAAAAATGA
1 AAAAGAAAAA-GAAAAAA-GA
* *
1386369 AGAA-AAGAAGAAAAAAGAA
1 AAAAGAAAAAGAAAAAAG-A
*
1386388 AAAAGAAAAAGGAAAAAGGA
1 AAAAGAAAAA-GAAAAAAGA
*
1386408 AAAAGAAAAAGAGAAAAGA
1 AAAAGAAAAAGAAAAAAGA
1386427 AAA
1 AAA
1386430 TTGAAAGGAG
Statistics
Matches: 83, Mismatches: 14, Indels: 13
0.75 0.13 0.12
Matches are distributed among these distances:
18 8 0.10
19 21 0.25
20 24 0.29
21 19 0.23
22 11 0.13
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.07
Consensus pattern (19 bp):
AAAAGAAAAAGAAAAAAGA
Found at i:1388770 original size:18 final size:17
Alignment explanation
Indices: 1388747--1388780 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1388737 ACTGGCCCTA
*
1388747 GCAAATTAATTTGTTTCG
1 GCAAATAAATTT-TTTCG
1388765 GCAAATAAATTTTTTC
1 GCAAATAAATTTTTTC
1388781 CTCAGTCATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.32, C:0.12, G:0.12, T:0.44
Consensus pattern (17 bp):
GCAAATAAATTTTTTCG
Found at i:1394373 original size:18 final size:18
Alignment explanation
Indices: 1394350--1394384 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1394340 CTAGGAGATT
1394350 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
1394368 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
1394385 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:1394470 original size:21 final size:22
Alignment explanation
Indices: 1394441--1394484 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
1394431 GTTGTATGAT
1394441 AGAAAATTAT-GAAGTTATATG
1 AGAAAATTATAGAAGTTATATG
* *
1394462 AGAAGATTATAGGAGTTATATG
1 AGAAAATTATAGAAGTTATATG
1394484 A
1 A
1394485 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.45, C:0.00, G:0.23, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAGAAGTTATATG
Found at i:1395211 original size:149 final size:149
Alignment explanation
Indices: 1395025--1395328 Score: 563
Period size: 149 Copynumber: 2.0 Consensus size: 149
1395015 GAGTCGAGGG
1395025 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
* *
1395090 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCCTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
1395155 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
* * *
1395174 TCTATGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
1395239 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
1395304 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
1395323 TCTACG
1 TCTACG
1395329 GGGCACTTCG
Statistics
Matches: 149, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
149 149 1.00
ACGTcount: A:0.28, C:0.17, G:0.20, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGAGACATATGTATATTCTTTGGAACATGTGTGAAGTCTAGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:1395351 original size:23 final size:23
Alignment explanation
Indices: 1395307--1395351 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
1395297 ATCATTATAT
*
1395307 GGCACTACGGTGCAATTCTACGG
1 GGCACTACGGTGCAATTATACGG
* *
1395330 GGCACTTCGGTGCATTTATACG
1 GGCACTACGGTGCAATTATACG
1395352 AGCTGTGGTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.24, G:0.29, T:0.27
Consensus pattern (23 bp):
GGCACTACGGTGCAATTATACGG
Found at i:1403384 original size:19 final size:19
Alignment explanation
Indices: 1403335--1403385 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
1403325 TAAGTCCAGT
*
1403335 GATCT-CCTCCTAGATTTA
1 GATCTACCTCCTTGATTTA
1403353 GATCTACCTCCTTGATTTA
1 GATCTACCTCCTTGATTTA
1403372 GATCTACCTCCTTG
1 GATCTACCTCCTTG
1403386 GTCTAGACTC
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 5 0.16
19 26 0.84
ACGTcount: A:0.20, C:0.29, G:0.12, T:0.39
Consensus pattern (19 bp):
GATCTACCTCCTTGATTTA
Found at i:1403392 original size:19 final size:19
Alignment explanation
Indices: 1403335--1403392 Score: 73
Period size: 19 Copynumber: 3.1 Consensus size: 19
1403325 TAAGTCCAGT
* *
1403335 GATCT-CCTCCTAGATTTA
1 GATCTACCTCCTTGATCTA
*
1403353 GATCTACCTCCTTGATTTA
1 GATCTACCTCCTTGATCTA
*
1403372 GATCTACCTCCTTGGTCTA
1 GATCTACCTCCTTGATCTA
1403391 GA
1 GA
1403393 CTCTGCCTGG
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
18 5 0.14
19 31 0.86
ACGTcount: A:0.21, C:0.28, G:0.14, T:0.38
Consensus pattern (19 bp):
GATCTACCTCCTTGATCTA
Found at i:1405058 original size:285 final size:286
Alignment explanation
Indices: 1404469--1405338 Score: 1151
Period size: 285 Copynumber: 3.0 Consensus size: 286
1404459 TCTAATACCA
* *
1404469 CTAAATGTAACACCCTAATCCAGTCTGACCCGAAGATCCATGGATTATAATGTTACACGAGACTA
1 CTAAATGTAACACCCTAATCCAGTCTGACCCGAAGATCCATGGATTACAATGTTACACGGGACTA
* * * *
1404534 GCGAAATAGTGACCCAAAAATTTATTTGAAATCTGGTTTTAAAACAATTGATAA-AATTAATCCA
66 CCGAAATAGTGACCCAAAAATTTCTTTGAAATCTGGTTGTAAAACAACTGATAATAA-TAATCCA
* * * ** ** **
1404598 TATCAGTTAAAATAAAACATGATGATAATGATAT-GGTTTAC-AACTCCCAAAATATATCCAAAA
130 TAGCAGTTAAAATAAAACATGATGATAATAATATGGGTTTACAAAATATCGGAAGCT-TCCAAAA
* *
1404661 TAATAAAAATACTGAGTACAAATCAAGTTACGATTGAATACACATAAGGGTCCATAAATAGTACA
194 TAATACAAATACTGAGTACAAATCAAGTTACGACTGAATACACATAA-GGTCCATAAATAGTACA
* * *
1404726 TGCTCTATTAGAATGACTCAAGACATACT
258 TGCCCTCTAAGAATGACTCAAGACATACT
* * * * *
1404755 CTAGATTTAACA-CCTAATCCAGTCTGACTCGAAGATCCGTGGATTACAATGTTACATGGGACTA
1 CTAAATGTAACACCCTAATCCAGTCTGACCCGAAGATCCATGGATTACAATGTTACACGGGACTA
*
1404819 CCGAAATAGTGACCCAAAAATTTCTTTAAAATCTGGTTGTAAAACAACTGATAATAATAATCCAT
66 CCGAAATAGTGACCCAAAAATTTCTTTGAAATCTGGTTGTAAAACAACTGATAATAATAATCCAT
* *
1404884 AGCAGTTAAAATAAAACATGATGATAATAATATGGGTTTACAAAATATGGGGAGCTTCCAAAATA
131 AGCAGTTAAAATAAAACATGATGATAATAATATGGGTTTACAAAATATCGGAAGCTTCCAAAATA
* * * *
1404949 ATACAAACACCGAGTACAAATCAAGTTACGACAT-AATACACATAA-GTCCATAAATAGTATATT
196 ATACAAATACTGAGTACAAATCAAGTTACGAC-TGAATACACATAAGGTCCATAAATAGTACATG
*
1405012 CCCTCCAAGAATGACTCAAGACATACT
260 CCCTCTAAGAATGACTCAAGACATACT
* * *
1405039 CTAAATGTAACACCCTAATCCAGT-TCGACCCTATGATCCATGAATTACAATGTTACACGGGACT
1 CTAAATGTAACACCCTAATCCAGTCT-GACCCGAAGATCCATGGATTACAATGTTACACGGGACT
* *
1405103 ACCGAAAAAGTGACCCAAAAATTTCTTTGAAATCTGGTTGTAAAACAACTAATAATAATAATCCA
65 ACCGAAATAGTGACCCAAAAATTTCTTTGAAATCTGGTTGTAAAACAACTGATAATAATAATCCA
* * *
1405168 TAGTAGTTAAAATAAAACATGATGATAATAATATGGGTTTACAAAATATTGGAAGCTTCGAAAAT
130 TAGCAGTTAAAATAAAACATGATGATAATAATATGGGTTTACAAAATATCGGAAGCTTCCAAAAT
*
1405233 ATATACAAAATAATTGAAATATTGAGTACAAATCAAGTTACGACTGAATACACATAAGGGTCCAT
195 A-ATAC----------AAATACTGAGTACAAATCAAGTTACGACTGAATACACATAA-GGTCCAT
*
1405298 AAATAGTACATGCCCTCTAAGAATGACTCAAGACGTACT
248 AAATAGTACATGCCCTCTAAGAATGACTCAAGACATACT
1405337 CT
1 CT
1405339 GATAGTCTCT
Statistics
Matches: 509, Mismatches: 55, Indels: 28
0.86 0.09 0.05
Matches are distributed among these distances:
284 50 0.10
285 302 0.59
286 71 0.14
287 6 0.01
295 1 0.00
296 36 0.07
298 43 0.08
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (286 bp):
CTAAATGTAACACCCTAATCCAGTCTGACCCGAAGATCCATGGATTACAATGTTACACGGGACTA
CCGAAATAGTGACCCAAAAATTTCTTTGAAATCTGGTTGTAAAACAACTGATAATAATAATCCAT
AGCAGTTAAAATAAAACATGATGATAATAATATGGGTTTACAAAATATCGGAAGCTTCCAAAATA
ATACAAATACTGAGTACAAATCAAGTTACGACTGAATACACATAAGGTCCATAAATAGTACATGC
CCTCTAAGAATGACTCAAGACATACT
Found at i:1409092 original size:18 final size:19
Alignment explanation
Indices: 1409043--1409092 Score: 50
Period size: 18 Copynumber: 2.6 Consensus size: 19
1409033 CTCATATGGG
*
1409043 GAGTATCTATACTCTACCCTT
1 GAGTATCTATA--CTACCCAT
*
1409064 G-GTATCGATACT-CCCAT
1 GAGTATCTATACTACCCAT
1409081 GAGTATCTATAC
1 GAGTATCTATAC
1409093 CAATTTTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
17 5 0.20
18 11 0.44
20 8 0.32
21 1 0.04
ACGTcount: A:0.26, C:0.26, G:0.14, T:0.34
Consensus pattern (19 bp):
GAGTATCTATACTACCCAT
Found at i:1419622 original size:26 final size:25
Alignment explanation
Indices: 1419566--1419618 Score: 65
Period size: 25 Copynumber: 2.1 Consensus size: 25
1419556 CAAAACATCC
*
1419566 AAACAACCAAATATTCAAATTTGTT
1 AAACAACCAAATATTCAAATATGTT
1419591 AAACAACCAAATCCA-TCAAA-ATGTT
1 AAACAACCAAAT--ATTCAAATATGTT
1419616 AAA
1 AAA
1419619 ACAATGCATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
25 19 0.76
26 5 0.20
27 1 0.04
ACGTcount: A:0.53, C:0.19, G:0.04, T:0.25
Consensus pattern (25 bp):
AAACAACCAAATATTCAAATATGTT
Found at i:1427171 original size:13 final size:13
Alignment explanation
Indices: 1427153--1427177 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1427143 TTTGAATTGA
1427153 TCAAACTTGTTGC
1 TCAAACTTGTTGC
1427166 TCAAACTTGTTG
1 TCAAACTTGTTG
1427178 TTTAAGGCTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (13 bp):
TCAAACTTGTTGC
Found at i:1427827 original size:18 final size:18
Alignment explanation
Indices: 1427810--1427843 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
1427800 TATTCAAATA
1427810 ATTT-AATCGAATATAAT
1 ATTTGAATCGAATATAAT
1427827 ATTTGAATCGAATATAA
1 ATTTGAATCGAATATAA
1427844 AATCTTAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.47, C:0.06, G:0.09, T:0.38
Consensus pattern (18 bp):
ATTTGAATCGAATATAAT
Found at i:1428878 original size:5 final size:5
Alignment explanation
Indices: 1428854--1428892 Score: 51
Period size: 5 Copynumber: 7.2 Consensus size: 5
1428844 GTAGGAGACT
1428854 AGTCC AGTTCC AGTTCC AGTCC AGTCCC AGTCC AGTCC A
1 AGTCC AG-TCC AG-TCC AGTCC AGT-CC AGTCC AGTCC A
1428893 TGATCCTTTC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
5 16 0.50
6 16 0.50
ACGTcount: A:0.21, C:0.38, G:0.18, T:0.23
Consensus pattern (5 bp):
AGTCC
Found at i:1428890 original size:11 final size:11
Alignment explanation
Indices: 1428857--1428891 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
1428847 GGAGACTAGT
*
1428857 CCAGTTCCAGTT
1 CCAG-TCCAGTC
1428869 CCAGTCCAGTC
1 CCAGTCCAGTC
1428880 CCAGTCCAGTC
1 CCAGTCCAGTC
1428891 C
1 C
1428892 ATGATCCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 18 0.82
12 4 0.18
ACGTcount: A:0.17, C:0.43, G:0.17, T:0.23
Consensus pattern (11 bp):
CCAGTCCAGTC
Found at i:1432469 original size:16 final size:16
Alignment explanation
Indices: 1432448--1432495 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
1432438 ATCGACAGTG
1432448 GAATCGCCAAAGATGA
1 GAATCGCCAAAGATGA
*
1432464 GAATCG--ACAG-TG-
1 GAATCGCCAAAGATGA
1432476 GAATCGCCAAAGATGA
1 GAATCGCCAAAGATGA
1432492 GAAT
1 GAAT
1432496 AGAGTTGAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 8
0.72 0.06 0.22
Matches are distributed among these distances:
12 6 0.23
13 2 0.08
14 6 0.23
15 2 0.08
16 10 0.38
ACGTcount: A:0.42, C:0.17, G:0.27, T:0.15
Consensus pattern (16 bp):
GAATCGCCAAAGATGA
Found at i:1432478 original size:28 final size:28
Alignment explanation
Indices: 1432438--1432495 Score: 116
Period size: 28 Copynumber: 2.1 Consensus size: 28
1432428 TATTTCCGGT
1432438 ATCGACAGTGGAATCGCCAAAGATGAGA
1 ATCGACAGTGGAATCGCCAAAGATGAGA
1432466 ATCGACAGTGGAATCGCCAAAGATGAGA
1 ATCGACAGTGGAATCGCCAAAGATGAGA
1432494 AT
1 AT
1432496 AGAGTTGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.40, C:0.17, G:0.28, T:0.16
Consensus pattern (28 bp):
ATCGACAGTGGAATCGCCAAAGATGAGA
Found at i:1437603 original size:25 final size:25
Alignment explanation
Indices: 1437570--1437623 Score: 99
Period size: 25 Copynumber: 2.2 Consensus size: 25
1437560 TCTTGTAAAT
*
1437570 GGGCCTGTGTGCCTTACTTTGTAAC
1 GGGCATGTGTGCCTTACTTTGTAAC
1437595 GGGCATGTGTGCCTTACTTTGTAAC
1 GGGCATGTGTGCCTTACTTTGTAAC
1437620 GGGC
1 GGGC
1437624 CTTCGTGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.13, C:0.22, G:0.31, T:0.33
Consensus pattern (25 bp):
GGGCATGTGTGCCTTACTTTGTAAC
Found at i:1439315 original size:43 final size:43
Alignment explanation
Indices: 1439254--1439339 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
1439244 ATCATATATA
*
1439254 GAAATGTTGGTTCATTCCACTATTCTTGAGAGAAGATTGAATC
1 GAAATGTTGATTCATTCCACTATTCTTGAGAGAAGATTGAATC
* * *
1439297 GAAATGTTGATTCATTCCACTGTTCTTTAGAGAATATTGAATC
1 GAAATGTTGATTCATTCCACTATTCTTGAGAGAAGATTGAATC
1439340 AAGGCAGACT
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.14, G:0.19, T:0.37
Consensus pattern (43 bp):
GAAATGTTGATTCATTCCACTATTCTTGAGAGAAGATTGAATC
Found at i:1440823 original size:6 final size:6
Alignment explanation
Indices: 1440812--1440844 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
1440802 TTCATTGTTC
1440812 TTTTAT TTTTAT TTTTAT TTTTATT TTTTAT TT
1 TTTTAT TTTTAT TTTTAT TTTTA-T TTTTAT TT
1440845 CTTCAGGCGA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 20 0.77
7 6 0.23
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:1451322 original size:14 final size:14
Alignment explanation
Indices: 1451303--1451334 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
1451293 CTTAAAAAAC
1451303 AAATTTAATTTTTA
1 AAATTTAATTTTTA
*
1451317 AAATTTGATTTTTA
1 AAATTTAATTTTTA
1451331 AAAT
1 AAAT
1451335 ATCTTGTCTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (14 bp):
AAATTTAATTTTTA
Found at i:1452445 original size:23 final size:23
Alignment explanation
Indices: 1452401--1452454 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
1452391 TGACTAAAAT
* *
1452401 AAAATAACATAAAAGCAGAATGC
1 AAAATAAAATAAAAGCAAAATGC
1452424 AAAATTAAAATAAAA-CAAAATGC
1 AAAA-TAAAATAAAAGCAAAATGC
1452447 AAATATAA
1 AAA-ATAA
1452455 CTAGAATGTA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.67, C:0.09, G:0.07, T:0.17
Consensus pattern (23 bp):
AAAATAAAATAAAAGCAAAATGC
Found at i:1453009 original size:107 final size:109
Alignment explanation
Indices: 1452791--1453045 Score: 284
Period size: 107 Copynumber: 2.3 Consensus size: 109
1452781 TCACTACATA
* * * * *
1452791 TGACCAAAATGCAAAAACACACTTAAATAAGGGGGACCAAACAACAAATATTCCAATAAACACAT
1 TGACCAACATGCAAAAATACGC-TAAATATGGGGGACCAAACAACAAATATCCCAATAAACACAT
* *
1452856 AACATACAAGAAAAAAAGGTAAATAACAATTTTAGTCCCTATAGG
65 AACATACAAGAAAAAAAGGTAAATAACAACTTTAGTCCCTACAGG
* * *
1452901 TGACCAACATGCAAAAATACGCTAAATTATGGGGGACTAAA-AACAAATATCCCAA-AAATATAT
1 TGACCAACATGCAAAAATACGCTAAA-TATGGGGGACCAAACAACAAATATCCCAATAAACACAT
* * * * *
1452964 AACATGC-ATAAAAAAGGGTAAATAACAACTTTGGT-CCTCGCAGG
65 AACATACAAGAAAAAAAGGTAAATAACAACTTTAGTCCCT-ACAGG
* * *
1453008 TGACCAACATGAAAAAATATGCTAAACTATAGGGGACC
1 TGACCAACATGCAAAAATACGCTAAA-TATGGGGGACC
1453046 TATGCATGAT
Statistics
Matches: 123, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
106 3 0.02
107 60 0.49
108 12 0.10
109 17 0.14
110 31 0.25
ACGTcount: A:0.48, C:0.18, G:0.15, T:0.19
Consensus pattern (109 bp):
TGACCAACATGCAAAAATACGCTAAATATGGGGGACCAAACAACAAATATCCCAATAAACACATA
ACATACAAGAAAAAAAGGTAAATAACAACTTTAGTCCCTACAGG
Found at i:1454020 original size:13 final size:12
Alignment explanation
Indices: 1454002--1454058 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
1453992 TAAAAATTAA
1454002 AAAATTAAACATT
1 AAAATTAAA-ATT
1454015 AAAATTTAAAATT
1 AAAA-TTAAAATT
* *
1454028 ATAATTATAATT
1 AAAATTAAAATT
* *
1454040 ATAATTATAATT
1 AAAATTAAAATT
*
1454052 ATAATTA
1 AAAATTA
1454059 GGTAATAATA
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
12 26 0.63
13 10 0.24
14 5 0.12
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (12 bp):
AAAATTAAAATT
Found at i:1454035 original size:6 final size:6
Alignment explanation
Indices: 1454024--1454058 Score: 70
Period size: 6 Copynumber: 5.8 Consensus size: 6
1454014 TAAAATTTAA
1454024 AATTAT AATTAT AATTAT AATTAT AATTAT AATTA
1 AATTAT AATTAT AATTAT AATTAT AATTAT AATTA
1454059 GGTAATAATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (6 bp):
AATTAT
Found at i:1462704 original size:24 final size:24
Alignment explanation
Indices: 1462674--1462732 Score: 102
Period size: 24 Copynumber: 2.5 Consensus size: 24
1462664 GATACTCATT
1462674 TAGTATCGATACTACTTATAACAG
1 TAGTATCGATACTACTTATAACAG
1462698 TAGTATCGATACTACTTATAACAG
1 TAGTATCGATACTACTTATAACAG
1462722 T-GATATCGATA
1 TAG-TATCGATA
1462733 TTCTTTTTAT
Statistics
Matches: 34, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 1 0.03
24 33 0.97
ACGTcount: A:0.37, C:0.15, G:0.14, T:0.34
Consensus pattern (24 bp):
TAGTATCGATACTACTTATAACAG
Found at i:1475059 original size:101 final size:101
Alignment explanation
Indices: 1474874--1475082 Score: 274
Period size: 101 Copynumber: 2.1 Consensus size: 101
1474864 TTGGTTCAAC
* *** * ** * ** *
1474874 ATATTTGGCAGCATCCTCCTCGTCAGTTTTTGTGTTGTCCTCATTAGTCCTTGTAGATTTGTCCT
1 ATATTTGGCAACATCCTCCTAACCAGTCTTTGTGTCATCCTCATTAGTCCTAGTAGAACTATCCT
* *
1474939 CATCATCCAACATTGTCGGTGGGGTTAATCCTTAAA
66 CATAATCCAACATTATCGGTGGGGTTAATCCTTAAA
*
1474975 ATATTTGGCAACATCCTCCTAACCAGTCTTTGTGTCATCCTCATTAGTGCTAGTAGAACTATCCT
1 ATATTTGGCAACATCCTCCTAACCAGTCTTTGTGTCATCCTCATTAGTCCTAGTAGAACTATCCT
* *
1475040 CATAATCCAGCATTATCGGTGGGGTTAATCCTTCAA
66 CATAATCCAACATTATCGGTGGGGTTAATCCTTAAA
1475076 ATATTTG
1 ATATTTG
1475083 AGTTGGGAAG
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
101 92 1.00
ACGTcount: A:0.22, C:0.23, G:0.17, T:0.37
Consensus pattern (101 bp):
ATATTTGGCAACATCCTCCTAACCAGTCTTTGTGTCATCCTCATTAGTCCTAGTAGAACTATCCT
CATAATCCAACATTATCGGTGGGGTTAATCCTTAAA
Found at i:1489948 original size:21 final size:21
Alignment explanation
Indices: 1489924--1489967 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1489914 CCACATCCAT
* *
1489924 TTCAGTTGTCACCGCAGCTGG
1 TTCAGATGCCACCGCAGCTGG
1489945 TTCAGATGCCACCGCAGCTGG
1 TTCAGATGCCACCGCAGCTGG
1489966 TT
1 TT
1489968 TAGAATATGT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.30, G:0.27, T:0.27
Consensus pattern (21 bp):
TTCAGATGCCACCGCAGCTGG
Found at i:1491822 original size:8 final size:8
Alignment explanation
Indices: 1491796--1491882 Score: 54
Period size: 8 Copynumber: 11.0 Consensus size: 8
1491786 TACGCCTCAT
1491796 TTTGAGAG
1 TTTGAGAG
*
1491804 TTTGTGA-
1 TTTGAGAG
1491811 -TTGAGAG
1 TTTGAGAG
1491818 TTTGAGAG
1 TTTGAGAG
* *
1491826 TTTCAAAG
1 TTTGAGAG
*
1491834 ATTGAGAG
1 TTTGAGAG
* *
1491842 TTTCAAAG
1 TTTGAGAG
* *
1491850 ATTAAGAG
1 TTTGAGAG
*
1491858 TTAGACG-G
1 TTTGA-GAG
1491866 TTTGAGAAG
1 TTTGAG-AG
1491875 TTTGAGAG
1 TTTGAGAG
1491883 ATGTAGTAGA
Statistics
Matches: 57, Mismatches: 17, Indels: 10
0.68 0.20 0.12
Matches are distributed among these distances:
6 5 0.09
7 1 0.02
8 43 0.75
9 8 0.14
ACGTcount: A:0.31, C:0.03, G:0.31, T:0.34
Consensus pattern (8 bp):
TTTGAGAG
Found at i:1491840 original size:16 final size:16
Alignment explanation
Indices: 1491819--1491859 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
1491809 GATTGAGAGT
1491819 TTGAGAGTTTCAAAGA
1 TTGAGAGTTTCAAAGA
1491835 TTGAGAGTTTCAAAGA
1 TTGAGAGTTTCAAAGA
*
1491851 TTAAGAGTT
1 TTGAGAGTT
1491860 AGACGGTTTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.05, G:0.24, T:0.34
Consensus pattern (16 bp):
TTGAGAGTTTCAAAGA
Found at i:1496378 original size:31 final size:31
Alignment explanation
Indices: 1496340--1496410 Score: 108
Period size: 31 Copynumber: 2.3 Consensus size: 31
1496330 GTTTGATTTA
* *
1496340 ACTCGAAAATTTTGAAATGGAA-TTCGTCTCG
1 ACTCGAAAAATTTGAAAT-GAAGCTCGTCTCG
1496371 ACTCGAAAAATTTGAAATGAAGCTCGTCTCG
1 ACTCGAAAAATTTGAAATGAAGCTCGTCTCG
1496402 ACTCGAAAA
1 ACTCGAAAA
1496411 CTCGCGAACT
Statistics
Matches: 37, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
30 3 0.08
31 34 0.92
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (31 bp):
ACTCGAAAAATTTGAAATGAAGCTCGTCTCG
Found at i:1500892 original size:54 final size:55
Alignment explanation
Indices: 1500812--1500917 Score: 169
Period size: 54 Copynumber: 1.9 Consensus size: 55
1500802 AATTTATCTG
* * *
1500812 AGTTGATGTGAAATGTCAATGCAAAGCAAAGGACGTAAATAGTGTAGATTCTTTC
1 AGTTGATGTGAAATATCAATGAAAAGCAAAGGACATAAATAGTGTAGATTCTTTC
*
1500867 AGTTGATGT-AAATATCAATGAAAAGCAAAGGACATCAATAGTGTAGATTCT
1 AGTTGATGTGAAATATCAATGAAAAGCAAAGGACATAAATAGTGTAGATTCT
1500918 CTGACTGTCT
Statistics
Matches: 47, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
54 38 0.81
55 9 0.19
ACGTcount: A:0.40, C:0.10, G:0.22, T:0.28
Consensus pattern (55 bp):
AGTTGATGTGAAATATCAATGAAAAGCAAAGGACATAAATAGTGTAGATTCTTTC
Found at i:1505334 original size:12 final size:12
Alignment explanation
Indices: 1505317--1505356 Score: 55
Period size: 14 Copynumber: 3.2 Consensus size: 12
1505307 TAATTTATTA
1505317 TTTTATTAAATT
1 TTTTATTAAATT
1505329 TTTTATAGTAAATT
1 TTTTAT--TAAATT
1505343 TTTTATT-AATT
1 TTTTATTAAATT
1505354 TTT
1 TTT
1505357 GCAGTTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 7 0.27
12 7 0.27
14 12 0.46
ACGTcount: A:0.30, C:0.00, G:0.03, T:0.68
Consensus pattern (12 bp):
TTTTATTAAATT
Found at i:1509778 original size:3 final size:3
Alignment explanation
Indices: 1509770--1509825 Score: 103
Period size: 3 Copynumber: 18.7 Consensus size: 3
1509760 ATAAAAATAA
1509770 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
1509818 ATC ATT AT
1 ATT ATT AT
1509826 AAATGTTGTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:1510189 original size:18 final size:19
Alignment explanation
Indices: 1510154--1510189 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
1510144 ATTTTTTAAA
1510154 ATTATTTAAAATTAAATAG
1 ATTATTTAAAATTAAATAG
1510173 ATTATTTAAAA-TAAATA
1 ATTATTTAAAATTAAATA
1510190 AATAATATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 6 0.35
19 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.42
Consensus pattern (19 bp):
ATTATTTAAAATTAAATAG
Found at i:1513491 original size:58 final size:57
Alignment explanation
Indices: 1513422--1513697 Score: 281
Period size: 58 Copynumber: 4.7 Consensus size: 57
1513412 TGGGCCTAGT
* *
1513422 GGTAAGACCTTAAGGACTAAGGGGCACTACCCTTAGGTGGCTCTTT-TTTTGTGC-TTAG
1 GGTAAGTCCTTATGGACT-AGGGGCACT-CCCTTAGGTGGCTCTTTGTTTTGTGCATT-G
* * *
1513480 GGTAAGTCCTTACGGACATGGGGGCACTCCCCTCAGGTGGCTCATTTGTTTTGTGCATTTG
1 GGTAAGTCCTTATGGAC-TAGGGGCACT-CCCTTAGGTGGCTC-TTTGTTTTGTGCA-TTG
* ** *
1513541 GGTAAGTCCTTATGGACTTGGGGCACTCCCTTCAGGTGGCTCCTTTACTTTATGCATTG
1 GGTAAGTCCTTATGGACTAGGGGCACTCCCTT-AGGTGGCT-CTTTGTTTTGTGCATTG
** *
1513600 GGTAAGTATTTATGGACCTAGGGG-ACTCCCTTAGGTAGCTTCTTTGGTTTT-TGCATTG
1 GGTAAGTCCTTATGGA-CTAGGGGCACTCCCTTAGGTGGC-TCTTT-GTTTTGTGCATTG
* *
1513658 GGTAAGTCCTTATGAACTTGGGGCACTCCCCTTAGGTGGC
1 GGTAAGTCCTTATGGACTAGGGGCACT-CCCTTAGGTGGC
1513698 CTCTACGCTT
Statistics
Matches: 184, Mismatches: 22, Indels: 23
0.80 0.10 0.10
Matches are distributed among these distances:
57 6 0.03
58 69 0.38
59 48 0.26
60 41 0.22
61 18 0.10
62 2 0.01
ACGTcount: A:0.17, C:0.21, G:0.28, T:0.34
Consensus pattern (57 bp):
GGTAAGTCCTTATGGACTAGGGGCACTCCCTTAGGTGGCTCTTTGTTTTGTGCATTG
Found at i:1513677 original size:117 final size:118
Alignment explanation
Indices: 1513442--1513697 Score: 310
Period size: 117 Copynumber: 2.2 Consensus size: 118
1513432 TAAGGACTAA
* * * *
1513442 GGGGCACTACCCTTAGGTGGCTCTTTTTTTGTGCTTAGGGTAAGTCCTTACGGACATGGGGGCAC
1 GGGGCACTACCCTTAGGTGGCTCTTTCTTTATGCTTAGGGTAAGTACTTACGGACATAGGGGCAC
* *
1513507 TCCCCTCAGGTGGCTCATTTGTTTTGTGCATTTGGGTAAGTCCTTATGGACTT
66 TCCCCTCAGGTAGCTCATTTGTTTTGTGCATTTGGGTAAGTCCTTATGAACTT
* * *
1513560 GGGGCACT-CCCTTCAGGTGGCTCCTTTACTTTATGCATT-GGGTAAGTATTTATGGACCTAGGG
1 GGGGCACTACCCTT-AGGTGGCT-CTTT-CTTTATGC-TTAGGGTAAGTACTTACGGACATAGGG
*
1513623 G-ACT-CCCTTAGGTAGCTTC-TTTGGTTTT-TGCA-TTGGGTAAGTCCTTATGAACTT
62 GCACTCCCCTCAGGTAGC-TCATTT-GTTTTGTGCATTTGGGTAAGTCCTTATGAACTT
*
1513677 GGGGCACTCCCCTTAGGTGGC
1 GGGGCACTACCCTTAGGTGGC
1513698 CTCTACGCTT
Statistics
Matches: 121, Mismatches: 10, Indels: 15
0.83 0.07 0.10
Matches are distributed among these distances:
117 41 0.34
118 38 0.31
119 14 0.12
120 26 0.21
121 2 0.02
ACGTcount: A:0.15, C:0.21, G:0.28, T:0.35
Consensus pattern (118 bp):
GGGGCACTACCCTTAGGTGGCTCTTTCTTTATGCTTAGGGTAAGTACTTACGGACATAGGGGCAC
TCCCCTCAGGTAGCTCATTTGTTTTGTGCATTTGGGTAAGTCCTTATGAACTT
Found at i:1516663 original size:21 final size:20
Alignment explanation
Indices: 1516637--1516676 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
1516627 TCATGGTCCG
1516637 AGTATCGACACTAGGATGAAC
1 AGTATCGACACT-GGATGAAC
* *
1516658 AGTATCTATACTGGATGAA
1 AGTATCGACACTGGATGAA
1516677 TTGGAGCAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.38, C:0.15, G:0.23, T:0.25
Consensus pattern (20 bp):
AGTATCGACACTGGATGAAC
Found at i:1516797 original size:20 final size:20
Alignment explanation
Indices: 1516785--1516826 Score: 75
Period size: 20 Copynumber: 2.1 Consensus size: 20
1516775 TGATATCAGA
1516785 TGCTCGGTCTTGAGAACGAC
1 TGCTCGGTCTTGAGAACGAC
*
1516805 TGCTCGGTCTTGAGACCGAC
1 TGCTCGGTCTTGAGAACGAC
1516825 TG
1 TG
1516827 GTCTACATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.17, C:0.26, G:0.31, T:0.26
Consensus pattern (20 bp):
TGCTCGGTCTTGAGAACGAC
Found at i:1522650 original size:17 final size:19
Alignment explanation
Indices: 1522630--1522665 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
1522620 AAAATATTTT
1522630 ATAAAATA-TATT-TTTAC
1 ATAAAATATTATTATTTAC
1522647 ATAAAATATTATTATTTAC
1 ATAAAATATTATTATTTAC
1522666 TCAAATCATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.47
18 4 0.24
19 5 0.29
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (19 bp):
ATAAAATATTATTATTTAC
Found at i:1532975 original size:20 final size:20
Alignment explanation
Indices: 1532938--1533124 Score: 148
Period size: 20 Copynumber: 9.1 Consensus size: 20
1532928 TAATTGAAAA
1532938 TCGCGTTGCGATTTTTCCATT
1 TCGCGTTGCGA-TTTTCCATT
1532959 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
* * *
1532979 TCGCGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCATT
*
1533001 T-GTCGTTGCGATTTTCCAAAT
1 TCG-CGTTGCGATTTTCC-ATT
* * *
1533022 T--CGTTGCGATAGTCTACAGT
1 TCGCGTTGCGAT--TTTCCATT
1533042 T-GCCGTTGCGATTTTCCATT
1 TCG-CGTTGCGATTTTCCATT
*
1533062 TCGCGTTGCGATTTTCCAGT
1 TCGCGTTGCGATTTTCCATT
* ** **
1533082 TCGCGTTGCGATAGTTGAAAA
1 TCGCGTTGCGAT-TTTCCATT
1533103 TCGCGTTGCGATTTTCCATT
1 TCGCGTTGCGATTTTCCATT
1533123 TC
1 TC
1533125 CTTGTTGAGT
Statistics
Matches: 133, Mismatches: 23, Indels: 21
0.75 0.13 0.12
Matches are distributed among these distances:
19 9 0.07
20 66 0.50
21 34 0.26
22 24 0.18
ACGTcount: A:0.15, C:0.22, G:0.22, T:0.40
Consensus pattern (20 bp):
TCGCGTTGCGATTTTCCATT
Found at i:1533010 original size:22 final size:22
Alignment explanation
Indices: 1532982--1533053 Score: 78
Period size: 22 Copynumber: 3.4 Consensus size: 22
1532972 TTCCATTTCG
1532982 CGTTGCGATAGTCTACAGTTGT
1 CGTTGCGATAGTCTACAGTTGT
* * **
1533004 CGTTGCGAT--TTTCCAAAT-T
1 CGTTGCGATAGTCTACAGTTGT
*
1533023 CGTTGCGATAGTCTACAGTTGC
1 CGTTGCGATAGTCTACAGTTGT
1533045 CGTTGCGAT
1 CGTTGCGAT
1533054 TTTCCATTTC
Statistics
Matches: 38, Mismatches: 9, Indels: 6
0.72 0.17 0.11
Matches are distributed among these distances:
19 10 0.26
20 5 0.13
21 5 0.13
22 18 0.47
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (22 bp):
CGTTGCGATAGTCTACAGTTGT
Found at i:1533075 original size:61 final size:60
Alignment explanation
Indices: 1533004--1533124 Score: 156
Period size: 61 Copynumber: 2.0 Consensus size: 60
1532994 CTACAGTTGT
* * *
1533004 CGTTGCGATTTTCCAAATT-CGTTGCGATAGTCT-ACAGTTGCCGTTGCGATTTTCCATTTCG
1 CGTTGCGATTTTCC-AATTCCGTTGCGATAGT-TGAAAATCG-CGTTGCGATTTTCCATTTCG
*
1533065 CGTTGCGATTTTCCAGTTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC
1 CGTTGCGATTTTCCAATTC-CGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTC
1533125 CTTGTTGAGT
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
60 3 0.06
61 34 0.64
62 16 0.30
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.39
Consensus pattern (60 bp):
CGTTGCGATTTTCCAATTCCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCATTTCG
Found at i:1533116 original size:41 final size:40
Alignment explanation
Indices: 1532916--1533120 Score: 164
Period size: 41 Copynumber: 5.0 Consensus size: 40
1532906 CGCGTTGCAT
* ** *
1532916 TTCGCGTTGCGATAATTGAAAATCGCGTTGCGATTTTTCCAT
1 TTCGCGTTGCGAT-TTTCCAAATCGCGTTGCGA-TTTTCCAG
** * *
1532958 TTCGCGTTGCGATTTTCCATTTCGCGTTGCGATAGTCTACAG
1 TTCGCGTTGCGATTTTCCAAATCGCGTTGCGAT--TTTCCAG
* * *
1533000 TT-GTCGTTGCGATTTTCCAAAT-TCGTTGCGATAGTCTACAG
1 TTCG-CGTTGCGATTTTCCAAATCGCGTTGCGAT--TTTCCAG
**
1533041 TT-GCCGTTGCGATTTTCCATTTCGCGTTGCGATTTTCCAG
1 TTCG-CGTTGCGATTTTCCAAATCGCGTTGCGATTTTCCAG
* **
1533081 TTCGCGTTGCGATAGTTGAAAATCGCGTTGCGATTTTCCA
1 TTCGCGTTGCGAT-TTTCCAAATCGCGTTGCGATTTTCCA
1533121 TTTCCTTGTT
Statistics
Matches: 135, Mismatches: 22, Indels: 13
0.79 0.13 0.08
Matches are distributed among these distances:
40 17 0.13
41 74 0.55
42 44 0.33
ACGTcount: A:0.17, C:0.21, G:0.23, T:0.39
Consensus pattern (40 bp):
TTCGCGTTGCGATTTTCCAAATCGCGTTGCGATTTTCCAG
Found at i:1533205 original size:6 final size:6
Alignment explanation
Indices: 1533189--1533244 Score: 105
Period size: 6 Copynumber: 9.5 Consensus size: 6
1533179 TCTCGTCTCG
1533189 GGTCG- GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1 GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT GGTCGT
1533236 GGTCGT GGT
1 GGTCGT GGT
1533245 AATACGTGTC
Statistics
Matches: 50, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.10
6 45 0.90
ACGTcount: A:0.00, C:0.16, G:0.52, T:0.32
Consensus pattern (6 bp):
GGTCGT
Found at i:1533350 original size:19 final size:19
Alignment explanation
Indices: 1533326--1533395 Score: 68
Period size: 19 Copynumber: 3.5 Consensus size: 19
1533316 TTTTTTAACT
1533326 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
* * * **
1533345 ATCGCAACAACAACTGTAGACT
1 ATCGCAAC--GAA-TTTGGAAA
1533367 ATCGCAACGAATTTGGAAA
1 ATCGCAACGAATTTGGAAA
1533386 ATCGCAACGA
1 ATCGCAACGA
1533396 CATTGTAGAC
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
19 22 0.58
20 2 0.05
21 2 0.05
22 12 0.32
ACGTcount: A:0.41, C:0.21, G:0.19, T:0.19
Consensus pattern (19 bp):
ATCGCAACGAATTTGGAAA
Found at i:1533412 original size:21 final size:20
Alignment explanation
Indices: 1533319--1533436 Score: 75
Period size: 21 Copynumber: 5.8 Consensus size: 20
1533309 ATCTTTTTTT
1533319 TTTA-ACTATCGCAACGA-A
1 TTTAGACTATCGCAACGACA
* ** *
1533337 TTTGGAAAATCGCAACAACAA
1 TTTAGACTATCGCAACGAC-A
*
1533358 CTGTAGACTATCGCAACGA-A
1 -TTTAGACTATCGCAACGACA
* **
1533378 TTTGGAAAATCGCAACGACA
1 TTTAGACTATCGCAACGACA
1533398 TTGTAGACTATCGCAACG-CGA
1 TT-TAGACTATCGCAACGAC-A
1533419 TTTTCA-ACTATCGCAACG
1 -TTT-AGACTATCGCAACG
1533437 CGAAATGGAA
Statistics
Matches: 75, Mismatches: 16, Indels: 15
0.71 0.15 0.14
Matches are distributed among these distances:
18 3 0.04
19 24 0.32
20 5 0.07
21 27 0.36
22 16 0.21
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (20 bp):
TTTAGACTATCGCAACGACA
Found at i:1533414 original size:40 final size:41
Alignment explanation
Indices: 1533323--1533415 Score: 161
Period size: 41 Copynumber: 2.3 Consensus size: 41
1533313 TTTTTTTTTA
1533323 ACTATCGCAACGAATTTGGAAAATCGCAACAACAACTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACAACAACTGTAG
* *
1533364 ACTATCGCAACGAATTTGGAAAATCGCAACGAC-ATTGTAG
1 ACTATCGCAACGAATTTGGAAAATCGCAACAACAACTGTAG
1533404 ACTATCGCAACG
1 ACTATCGCAACG
1533416 CGATTTTCAA
Statistics
Matches: 50, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
40 18 0.36
41 32 0.64
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.20
Consensus pattern (41 bp):
ACTATCGCAACGAATTTGGAAAATCGCAACAACAACTGTAG
Found at i:1534101 original size:8 final size:8
Alignment explanation
Indices: 1534083--1534115 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
1534073 ATATTTTAAA
1534083 ATTATTTTT
1 ATTA-TTTT
1534092 ATTATTTT
1 ATTATTTT
1534100 ATTATTTT
1 ATTATTTT
1534108 A-TATTTT
1 ATTATTTT
1534115 A
1 A
1534116 ATACCAAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 7 0.29
8 13 0.54
9 4 0.17
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (8 bp):
ATTATTTT
Found at i:1534219 original size:26 final size:26
Alignment explanation
Indices: 1534183--1534241 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 26
1534173 TATAATTTCA
* *
1534183 TTTTATTATATTTTAAAATTAAATAT
1 TTTTATAATATTTTAAAATTAAAGAT
* *
1534209 TTTTATAATATTTTTAAATTTAAGAT
1 TTTTATAATATTTTAAAATTAAAGAT
1534235 TTTTATA
1 TTTTATA
1534242 TTTTAATACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.02, T:0.59
Consensus pattern (26 bp):
TTTTATAATATTTTAAAATTAAAGAT
Found at i:1534389 original size:26 final size:25
Alignment explanation
Indices: 1534360--1534419 Score: 75
Period size: 25 Copynumber: 2.4 Consensus size: 25
1534350 TTTTAAAATT
*
1534360 AAATATTAACATTAAATTTAATTTTA
1 AAATATAAACATTAAA-TTAATTTTA
* * *
1534386 AAATAAAAATATTAAATTAGTTTTA
1 AAATATAAACATTAAATTAATTTTA
1534411 AAATATAAA
1 AAATATAAA
1534420 ATTTTAAATT
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 16 0.55
26 13 0.45
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (25 bp):
AAATATAAACATTAAATTAATTTTA
Found at i:1534409 original size:25 final size:26
Alignment explanation
Indices: 1534370--1534429 Score: 86
Period size: 26 Copynumber: 2.3 Consensus size: 26
1534360 AAATATTAAC
1534370 ATTAAATTTAATTTTAAAATA-AAAAT
1 ATTAAA-TTAATTTTAAAATATAAAAT
*
1534396 ATTAAATTAGTTTTAAAATATAAAAT
1 ATTAAATTAATTTTAAAATATAAAAT
*
1534422 TTTAAATT
1 ATTAAATT
1534430 TACTTTTATG
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
25 13 0.42
26 18 0.58
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (26 bp):
ATTAAATTAATTTTAAAATATAAAAT
Found at i:1534411 original size:31 final size:31
Alignment explanation
Indices: 1534343--1534411 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
1534333 GTAATTTCAT
*
1534343 TTTTATATTTTAAAATTAAATATTAACATTAA
1 TTTTA-ATTTTAAAATAAAATATTAACATTAA
* *
1534375 ATTTAATTTTAAAATAAAAATATTAA-ATTAG
1 TTTTAATTTTAAAAT-AAAATATTAACATTAA
1534406 TTTTAA
1 TTTTAA
1534412 AATATAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 19 0.59
32 13 0.41
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.48
Consensus pattern (31 bp):
TTTTAATTTTAAAATAAAATATTAACATTAA
Found at i:1534788 original size:63 final size:57
Alignment explanation
Indices: 1534710--1534859 Score: 174
Period size: 58 Copynumber: 2.5 Consensus size: 57
1534700 AGTTGGGCAG
*
1534710 TGCTCGACTCGTGCTCGTTAAAAAATTTTGTTGATCGACTCGACTCGTTGCTCGTTAAAATTT
1 TGCTCGACTCGTGCTCGTTAAAAAATTTTCTT-ATCGA-T----TCGTTGCTCGTTAAAATTT
* *
1534773 TGCTCGACTCGTGCTCATTAAGAAAATTTACTTATCGATTCGTTGCTCGTTAAAATTT
1 TGCTCGACTCGTGCTCGTTAA-AAAATTTTCTTATCGATTCGTTGCTCGTTAAAATTT
* * * *
1534831 TGCTCGATTCTTGCTTGTTAAGAAATTTT
1 TGCTCGACTCGTGCTCGTTAAAAAATTTT
1534860 TTTGCTCAAC
Statistics
Matches: 77, Mismatches: 9, Indels: 8
0.82 0.10 0.09
Matches are distributed among these distances:
57 6 0.08
58 36 0.47
62 1 0.01
63 25 0.32
64 9 0.12
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (57 bp):
TGCTCGACTCGTGCTCGTTAAAAAATTTTCTTATCGATTCGTTGCTCGTTAAAATTT
Found at i:1534877 original size:58 final size:58
Alignment explanation
Indices: 1534752--1534916 Score: 161
Period size: 58 Copynumber: 2.7 Consensus size: 58
1534742 GATCGACTCG
*
1534752 ACTCGTTGCTCGTTAAAATTTTGCTCGACTCGTGCTCATTAAGAAAATTTACTTATCG
1 ACTCGTTGCTCGTTAAAATTTTGCTCGACTCGTGCTCATTAAGAAAATTTACTTATCA
* * * ** ** *
1534810 ATTCGTTGCTCGTTAAAATTTTGCTCGATTCTTGCTTGTTAAG-AAATTTTTTTGCTCA
1 ACTCGTTGCTCGTTAAAATTTTGCTCGACTCGTGCTCATTAAGAAAATTTACTT-ATCA
* *
1534868 ACTCATTGCTCGTTAAGAAATTTTGTTGCTCGACTCATTGCTCATTAAG
1 ACTCGTTGCTCGTT-A-AAA--TT-TTGCTCGACTC-GTGCTCATTAAG
1534917 TTCGCCGAAA
Statistics
Matches: 86, Mismatches: 14, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
57 8 0.09
58 52 0.60
59 1 0.01
60 3 0.03
62 2 0.02
63 10 0.12
64 10 0.12
ACGTcount: A:0.24, C:0.19, G:0.16, T:0.42
Consensus pattern (58 bp):
ACTCGTTGCTCGTTAAAATTTTGCTCGACTCGTGCTCATTAAGAAAATTTACTTATCA
Found at i:1534883 original size:32 final size:32
Alignment explanation
Indices: 1534710--1534916 Score: 127
Period size: 32 Copynumber: 6.7 Consensus size: 32
1534700 AGTTGGGCAG
* *
1534710 TGCTCGACTC-GTGCTCGTTAAAAAATTTTGTT
1 TGCTCGACTCATTGCTCGTTAAGAAATTTT-TT
*
1534742 GATCGACTCGACTCGTTGCTCGTT-A-AAA---TTT
1 --T-G-CTCGACTCATTGCTCGTTAAGAAATTTTTT
* * **
1534773 TGCTCGACTC-GTGCTCATTAAGAAAATTTACT
1 TGCTCGACTCATTGCTCGTTAAG-AAATTTTTT
* * *
1534805 T-ATCGATTCGTTGCTCGTT-A-AAA---TTT
1 TGCTCGACTCATTGCTCGTTAAGAAATTTTTT
* *
1534831 TGCTCGATTC-TTGCTTGTTAAGAAATTTTTT
1 TGCTCGACTCATTGCTCGTTAAGAAATTTTTT
* *
1534862 TGCTCAACTCATTGCTCGTTAAGAAATTTTGT
1 TGCTCGACTCATTGCTCGTTAAGAAATTTTTT
*
1534894 TGCTCGACTCATTGCTCATTAAG
1 TGCTCGACTCATTGCTCGTTAAG
1534917 TTCGCCGAAA
Statistics
Matches: 137, Mismatches: 19, Indels: 36
0.71 0.10 0.19
Matches are distributed among these distances:
26 17 0.12
27 17 0.12
28 4 0.03
29 7 0.05
31 20 0.15
32 50 0.36
34 1 0.01
35 4 0.03
36 9 0.07
37 8 0.06
ACGTcount: A:0.23, C:0.19, G:0.17, T:0.41
Consensus pattern (32 bp):
TGCTCGACTCATTGCTCGTTAAGAAATTTTTT
Found at i:1535549 original size:5 final size:5
Alignment explanation
Indices: 1535533--1535561 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
1535523 TAATTGAATG
1535533 TTTAA TTT-A TTTAA TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
1535562 GACCAAACTG
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (5 bp):
TTTAA
Found at i:1535816 original size:4 final size:4
Alignment explanation
Indices: 1535804--1535837 Score: 50
Period size: 4 Copynumber: 8.5 Consensus size: 4
1535794 ATGTACATAC
* *
1535804 ATAT TTAT ATAT ATAT ATAT ATAT ATAT ACAT AT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT AT
1535838 TTTGAAACTA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (4 bp):
ATAT
Found at i:1535818 original size:6 final size:6
Alignment explanation
Indices: 1535804--1535837 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
1535794 ATGTACATAC
* *
1535804 ATATTT ATATAT ATATAT ATATAT ATATAC ATAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATAT
1535838 TTTGAAACTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (6 bp):
ATATAT
Found at i:1535917 original size:38 final size:36
Alignment explanation
Indices: 1535850--1536085 Score: 171
Period size: 34 Copynumber: 6.3 Consensus size: 36
1535840 TGAAACTACG
* * *
1535850 TATATAATATATAGTTTTT-AATA-GTTTTTAAAAC
1 TATATAATATATAGTTTTTAAAAACATTTTAAAAAC
1535884 TATATAATATATAGTTTTTAAAAAAAACATTTTAGAAAA-
1 TATATAATATATAGTTTTT---AAAAACATTTTA-AAAAC
* *
1535923 TATATGTAATATATAATTTTTAAAATCATTTTAAAAAC
1 TATA--TAATATATAGTTTTTAAAAACATTTTAAAAAC
* *
1535961 TTATATATATATATATAGTTTTTGAAAACATTTTTGAAAAC
1 ---TATATA-ATATATAGTTTTTAAAAACA-TTTTAAAAAC
*
1536002 -ATAT-ATATTATAG-TTTTGAAAACATTTTAAAAAC
1 TATATAATA-TATAGTTTTTAAAAACATTTTAAAAAC
* * *
1536036 ATTTATATATTATATAGTTTTT-AAAACGTTTTTGAAAAC
1 ---TATATAATATATAGTTTTTAAAAAC-ATTTTAAAAAC
1536075 TTATATAATAT
1 -TATATAATAT
1536086 TTTTGAAAAC
Statistics
Matches: 166, Mismatches: 14, Indels: 41
0.75 0.06 0.19
Matches are distributed among these distances:
34 28 0.17
35 14 0.08
36 5 0.03
37 18 0.11
38 28 0.17
39 25 0.15
40 21 0.13
41 27 0.16
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
TATATAATATATAGTTTTTAAAAACATTTTAAAAAC
Done.