Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 4 of 204
Found at i:1265772 original size:7 final size:7
Alignment explanation
Indices: 1265730--1265772 Score: 50
Period size: 7 Copynumber: 6.0 Consensus size: 7
1265720 ACACTCCTTT
*
1265730 AAATAAT
1 AAATAAG
1265737 AAATAAG
1 AAATAAG
1265744 AAATAAG
1 AAATAAG
* *
1265751 TAAACAAT
1 -AAATAAG
1265759 AAATAAG
1 AAATAAG
1265766 AAATAAG
1 AAATAAG
1265773 GGGTTCTCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
7 25 0.83
8 5 0.17
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.19
Consensus pattern (7 bp):
AAATAAG
Found at i:1268349 original size:25 final size:26
Alignment explanation
Indices: 1268321--1268380 Score: 65
Period size: 24 Copynumber: 2.4 Consensus size: 26
1268311 TACGTGTTTT
1268321 TTTAATAATTATATA-TTTTA-AAAAA
1 TTTAATAATTATA-ACTTTTACAAAAA
*
1268346 TTTAA-AATTTTAACTTTTACAAAAA
1 TTTAATAATTATAACTTTTACAAAAA
1268371 -TTAATTAATT
1 TTTAA-TAATT
1268381 GTTGACATGG
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
23 1 0.03
24 15 0.50
25 10 0.33
26 4 0.13
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (26 bp):
TTTAATAATTATAACTTTTACAAAAA
Found at i:1276853 original size:21 final size:21
Alignment explanation
Indices: 1276827--1276867 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
1276817 AGACGAGCAA
* *
1276827 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
1276848 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
1276868 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:1280608 original size:2 final size:2
Alignment explanation
Indices: 1280601--1280635 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
1280591 AGTCCAAGAA
* *
1280601 AT AT AT AT AT AT AT AT AT GT AT AT GT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1280636 CACTTTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.46, C:0.00, G:0.06, T:0.49
Consensus pattern (2 bp):
AT
Found at i:1284851 original size:30 final size:30
Alignment explanation
Indices: 1284815--1284875 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
1284805 ACCTAGTGAC
1284815 TTAAAT-AAAATATTTCGAATAGTTTAATGA
1 TTAAATAAAAAT-TTTCGAATAGTTTAATGA
*
1284845 TTAAATAAAAATTTTCGAATAGTTTAGTGA
1 TTAAATAAAAATTTTCGAATAGTTTAATGA
1284875 T
1 T
1284876 CATTTTGTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
30 24 0.83
31 5 0.17
ACGTcount: A:0.44, C:0.03, G:0.11, T:0.41
Consensus pattern (30 bp):
TTAAATAAAAATTTTCGAATAGTTTAATGA
Found at i:1291776 original size:14 final size:14
Alignment explanation
Indices: 1291747--1291795 Score: 55
Period size: 14 Copynumber: 3.4 Consensus size: 14
1291737 AAAAATTAAT
*
1291747 ATTTTTAATAATTTA
1 ATTTTTAAT-ACTTA
1291762 ATTTTTAATACTTA
1 ATTTTTAATACTTA
*
1291776 ATTTTTCAACACTT-
1 ATTTTT-AATACTTA
1291790 ATTTTT
1 ATTTTT
1291796 TCAACAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
14 16 0.52
15 15 0.48
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (14 bp):
ATTTTTAATACTTA
Found at i:1291796 original size:15 final size:15
Alignment explanation
Indices: 1291759--1291801 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
1291749 TTTTAATAAT
*
1291759 TTAATTTTT-AATAC
1 TTAATTTTTCAACAC
1291773 TTAATTTTTCAACAC
1 TTAATTTTTCAACAC
*
1291788 TTATTTTTTCAACA
1 TTAATTTTTCAACA
1291802 AATAACTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
14 9 0.35
15 17 0.65
ACGTcount: A:0.33, C:0.14, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAATTTTTCAACAC
Found at i:1293750 original size:31 final size:30
Alignment explanation
Indices: 1293715--1293774 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
1293705 TTATTTTGAA
*
1293715 AAATATATAAAAGCCTATAATATATATAAAC
1 AAATATATAAAAACCTATAAT-TATATAAAC
* *
1293746 AAATATATAAAAACGTATAATTTTATAAA
1 AAATATATAAAAACCTATAATTATATAAA
1293775 AGTATGTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 7 0.27
31 19 0.73
ACGTcount: A:0.58, C:0.07, G:0.03, T:0.32
Consensus pattern (30 bp):
AAATATATAAAAACCTATAATTATATAAAC
Found at i:1293820 original size:23 final size:24
Alignment explanation
Indices: 1293783--1293838 Score: 80
Period size: 23 Copynumber: 2.3 Consensus size: 24
1293773 AAAGTATGTA
1293783 TTATAAAAAATTATAGTA-TATAAAT
1 TTAT-AAAAATTATA-TATTATAAAT
1293808 TTATAAAAA-TATATATTATAAAT
1 TTATAAAAATTATATATTATAAAT
1293831 TTATAAAA
1 TTATAAAA
1293839 TGTATTATTT
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
22 2 0.07
23 19 0.63
24 5 0.17
25 4 0.13
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (24 bp):
TTATAAAAATTATATATTATAAAT
Found at i:1299516 original size:47 final size:47
Alignment explanation
Indices: 1299462--1299555 Score: 172
Period size: 47 Copynumber: 2.0 Consensus size: 47
1299452 TCATGCATGT
1299462 AAATTTTTAAAATCGGTTCAATATCT-TCATCATATTGATCTAAAAAG
1 AAATTTTTAAAATCGGTTCAATATCTCT-ATCATATTGATCTAAAAAG
1299509 AAATTTTTAAAATCGGTTCAATATCTCTATCATATTGATCTAAAAAG
1 AAATTTTTAAAATCGGTTCAATATCTCTATCATATTGATCTAAAAAG
1299556 GTGTATATAT
Statistics
Matches: 46, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
47 45 0.98
48 1 0.02
ACGTcount: A:0.40, C:0.13, G:0.09, T:0.38
Consensus pattern (47 bp):
AAATTTTTAAAATCGGTTCAATATCTCTATCATATTGATCTAAAAAG
Found at i:1300701 original size:16 final size:16
Alignment explanation
Indices: 1300680--1300710 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
1300670 AAAATCCTCA
1300680 ACTCTTTCATCGAATG
1 ACTCTTTCATCGAATG
1300696 ACTCTTTCATCGAAT
1 ACTCTTTCATCGAAT
1300711 AATATTTTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.26, C:0.26, G:0.10, T:0.39
Consensus pattern (16 bp):
ACTCTTTCATCGAATG
Found at i:1302370 original size:16 final size:17
Alignment explanation
Indices: 1302338--1302370 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
1302328 TAACCAAACA
1302338 TAAAACAAGAACACACAC
1 TAAAACAAG-ACACACAC
1302356 TAAAACAAG-CACACA
1 TAAAACAAGACACACA
1302371 AAGCAGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.61, C:0.27, G:0.06, T:0.06
Consensus pattern (17 bp):
TAAAACAAGACACACAC
Found at i:1305289 original size:9 final size:9
Alignment explanation
Indices: 1305247--1305298 Score: 59
Period size: 9 Copynumber: 5.7 Consensus size: 9
1305237 ATTTTGAAAC
1305247 GAGAGAGTT
1 GAGAGAGTT
*
1305256 GAAAGAGTT
1 GAGAGAGTT
*
1305265 GAGAGGGTTT
1 GAGAGAG-TT
*
1305275 GAGAGAGTC
1 GAGAGAGTT
1305284 GAGAGAGTT
1 GAGAGAGTT
*
1305293 AAGAGA
1 GAGAGA
1305299 TGGATGTAAA
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
9 27 0.77
10 8 0.23
ACGTcount: A:0.37, C:0.02, G:0.42, T:0.19
Consensus pattern (9 bp):
GAGAGAGTT
Found at i:1305501 original size:29 final size:28
Alignment explanation
Indices: 1305459--1305531 Score: 83
Period size: 29 Copynumber: 2.6 Consensus size: 28
1305449 GCGCTTTCCA
* *
1305459 TTTAAATCGGCCTATTTCCCTAATTAAT
1 TTTAAAACGGCCTATATCCCTAATTAAT
* *
1305487 TTTAAAACGGGCCTAAATGCCTAATTAAT
1 TTTAAAAC-GGCCTATATCCCTAATTAAT
**
1305516 TAAAAAACGGCCTATA
1 TTTAAAACGGCCTATA
1305532 GGCCTTACTT
Statistics
Matches: 37, Mismatches: 7, Indels: 2
0.80 0.15 0.04
Matches are distributed among these distances:
28 14 0.38
29 23 0.62
ACGTcount: A:0.37, C:0.19, G:0.11, T:0.33
Consensus pattern (28 bp):
TTTAAAACGGCCTATATCCCTAATTAAT
Found at i:1305996 original size:20 final size:22
Alignment explanation
Indices: 1305957--1305996 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
1305947 CAAAATTAAT
*
1305957 AAACTTTTATTATGAATTAGAC
1 AAACTTTAATTATGAATTAGAC
1305979 AAACTTTAATT-T-AATTAG
1 AAACTTTAATTATGAATTAG
1305997 TAGTATTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 6 0.35
21 1 0.06
22 10 0.59
ACGTcount: A:0.42, C:0.07, G:0.07, T:0.42
Consensus pattern (22 bp):
AAACTTTAATTATGAATTAGAC
Found at i:1314134 original size:30 final size:30
Alignment explanation
Indices: 1314061--1314134 Score: 73
Period size: 30 Copynumber: 2.5 Consensus size: 30
1314051 ATTTGTTATA
* * *
1314061 CTTAT-TATGTAAATTTTTATATATATATG
1 CTTATATATGTATATTATTAAATATATATG
*
1314090 CTTCATAT-TATATATTATTAAATATA-ATTG
1 CTT-ATATATGTATATTATTAAATATATA-TG
1314120 CTTATATATGTATAT
1 CTTATATATGTATAT
1314135 AGGTATTATG
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
29 8 0.22
30 27 0.75
31 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.05, T:0.53
Consensus pattern (30 bp):
CTTATATATGTATATTATTAAATATATATG
Found at i:1319234 original size:13 final size:12
Alignment explanation
Indices: 1319201--1319236 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
1319191 ATATATATTT
*
1319201 AAAAATTATATA
1 AAAAATAATATA
1319213 AAAAATAATATA
1 AAAAATAATATA
1319225 AAAAAGTAATAT
1 AAAAA-TAATAT
1319237 GGGCAGGTCA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (12 bp):
AAAAATAATATA
Found at i:1320997 original size:16 final size:16
Alignment explanation
Indices: 1320968--1321002 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
1320958 TAGGGGAAGA
1320968 AAAAGTTTGAGAAA-T
1 AAAAGTTTGAGAAAGT
1320983 AAAAGTTTGAGGAAAGT
1 AAAAGTTTGA-GAAAGT
1321000 AAA
1 AAA
1321003 TAGGGGAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 10 0.56
16 4 0.22
17 4 0.22
ACGTcount: A:0.54, C:0.00, G:0.23, T:0.23
Consensus pattern (16 bp):
AAAAGTTTGAGAAAGT
Found at i:1323853 original size:30 final size:31
Alignment explanation
Indices: 1323817--1323883 Score: 93
Period size: 30 Copynumber: 2.2 Consensus size: 31
1323807 AAAAACTAGG
* *
1323817 AGGACTTAATTTTTAAATTTTAT-AAA-TATA
1 AGGACTTAA-TCTCAAATTTTATCAAAGTATA
1323847 AGGACTTAATCTCAAATTTTATCAAAGTATA
1 AGGACTTAATCTCAAATTTTATCAAAGTATA
1323878 AGGACT
1 AGGACT
1323884 ATCAACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
29 11 0.33
30 12 0.36
31 10 0.30
ACGTcount: A:0.42, C:0.09, G:0.10, T:0.39
Consensus pattern (31 bp):
AGGACTTAATCTCAAATTTTATCAAAGTATA
Found at i:1324590 original size:6 final size:6
Alignment explanation
Indices: 1324568--1324601 Score: 50
Period size: 6 Copynumber: 5.3 Consensus size: 6
1324558 TTATATATTT
1324568 TTTAAA TTTTAAAA TTTAAA TTTAAA TTTAAA TT
1 TTTAAA -TTT-AAA TTTAAA TTTAAA TTTAAA TT
1324602 ATAACATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
6 17 0.65
7 6 0.23
8 3 0.12
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (6 bp):
TTTAAA
Found at i:1334947 original size:31 final size:29
Alignment explanation
Indices: 1334912--1334983 Score: 71
Period size: 28 Copynumber: 2.5 Consensus size: 29
1334902 GCATATACCT
1334912 ATATACATATATAAGCA-ATTATATAATAATA
1 ATATACATATATAAGCATA-TATAT-ATAA-A
*
1334943 ATATA-ATAT-GAAGCATATATATATAAA
1 ATATACATATATAAGCATATATATATAAA
*
1334970 ATTTACATA-ATAAG
1 ATATACATATATAAG
1334984 TATAAACAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
27 5 0.14
28 10 0.29
29 10 0.29
30 5 0.14
31 5 0.14
ACGTcount: A:0.54, C:0.06, G:0.06, T:0.35
Consensus pattern (29 bp):
ATATACATATATAAGCATATATATATAAA
Found at i:1340242 original size:51 final size:50
Alignment explanation
Indices: 1340126--1340287 Score: 236
Period size: 51 Copynumber: 3.2 Consensus size: 50
1340116 CTTACGTATG
* *
1340126 ATCACTTATCACTTCTC-CTTGATCAGATAAGTGTAGCTAAGCTACCACTT
1 ATCACTTGTCACTTGTCAC-TGATCAGATAAGTGTAGCTAAGCTACCACTT
* *
1340176 ATCACTTGCCGCTTGTCACTGATCAGATAAGTGTAGCTAATGCTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAA-GCTACCACTT
* *
1340227 ATCACTTGTCACTTGTCACTGATTAGATAAGTGTAGCTAAAACTACCACTT
1 ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCT-AAGCTACCACTT
1340278 ATCACTTGTC
1 ATCACTTGTC
1340288 CCTGATCAGA
Statistics
Matches: 101, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
50 34 0.34
51 65 0.64
52 2 0.02
ACGTcount: A:0.28, C:0.25, G:0.14, T:0.33
Consensus pattern (50 bp):
ATCACTTGTCACTTGTCACTGATCAGATAAGTGTAGCTAAGCTACCACTT
Found at i:1345559 original size:31 final size:31
Alignment explanation
Indices: 1345481--1345582 Score: 89
Period size: 31 Copynumber: 3.3 Consensus size: 31
1345471 AAAAACCATA
* * * * *
1345481 AAGTTTAGGCCTTAATGTGGGAATAATTATC
1 AAGTTCAGGCCTCAATGTGGAAACAATCATC
* * * *
1345512 AAGCTCAAGCCCCAATGTGGAAACAATCATT
1 AAGTTCAGGCCTCAATGTGGAAACAATCATC
**
1345543 AAGTTCAGGCCTCAATGT-GAGAACAATTGTC
1 AAGTTCAGGCCTCAATGTGGA-AACAATCATC
1345574 AAGTTCAGG
1 AAGTTCAGG
1345583 GATTAACTTG
Statistics
Matches: 55, Mismatches: 15, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
30 2 0.04
31 53 0.96
ACGTcount: A:0.34, C:0.18, G:0.22, T:0.26
Consensus pattern (31 bp):
AAGTTCAGGCCTCAATGTGGAAACAATCATC
Found at i:1348778 original size:29 final size:29
Alignment explanation
Indices: 1348728--1348784 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
1348718 TCCAATCCTA
*
1348728 TGTACATGCATAATTACAAAATTCATGCT
1 TGTACATGCATAATTACAAAATACATGCT
* *
1348757 TGTACATGCGTTAA-TACCAAATACATGC
1 TGTACATGC-ATAATTACAAAATACATGC
1348785 ATCTAATCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 21 0.88
30 3 0.12
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.32
Consensus pattern (29 bp):
TGTACATGCATAATTACAAAATACATGCT
Found at i:1359913 original size:25 final size:21
Alignment explanation
Indices: 1359868--1359909 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
1359858 TCTCTATAAT
1359868 CACTTCATCCTAAAAAAAGAA
1 CACTTCATCCTAAAAAAAGAA
1359889 CACTTCATCCTAAAAAAAGAA
1 CACTTCATCCTAAAAAAAGAA
1359910 AGAAATAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.05, T:0.19
Consensus pattern (21 bp):
CACTTCATCCTAAAAAAAGAA
Found at i:1361129 original size:24 final size:24
Alignment explanation
Indices: 1361096--1361175 Score: 79
Period size: 26 Copynumber: 3.2 Consensus size: 24
1361086 TAAACATTAA
* **
1361096 AAAATGTTAAAAATTACTATATAT
1 AAAATTTTAAAAATTAAAATATAT
*
1361120 AAAATTTTAATAAATAAAAAATATAT
1 AAAATTTTAA-AAAT-TAAAATATAT
*
1361146 AACATTATTAAAAATTAAAATAATAT
1 AAAATT-TTAAAAATTAAAAT-ATAT
1361172 AAAA
1 AAAA
1361176 ATATTTATAT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
24 9 0.20
25 9 0.20
26 23 0.51
27 4 0.09
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (24 bp):
AAAATTTTAAAAATTAAAATATAT
Found at i:1361143 original size:26 final size:27
Alignment explanation
Indices: 1361114--1361182 Score: 81
Period size: 27 Copynumber: 2.6 Consensus size: 27
1361104 AAAAATTACT
1361114 ATATATAAAATTTTAATAAA-TAAAA-A
1 ATATATAAAATTTTAA-AAATTAAAATA
*
1361140 ATATATAACATTATTAAAAATTAAAATA
1 ATATATAAAATT-TTAAAAATTAAAATA
1361168 ATATA-AAAATATTTA
1 ATATATAAAAT-TTTA
1361183 TATTTTTAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
26 14 0.38
27 16 0.43
28 7 0.19
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (27 bp):
ATATATAAAATTTTAAAAATTAAAATA
Found at i:1363997 original size:8 final size:8
Alignment explanation
Indices: 1363984--1364011 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
1363974 TGTTAAAAAA
1363984 ATATTATT
1 ATATTATT
1363992 ATATTATT
1 ATATTATT
1364000 ATATTATT
1 ATATTATT
1364008 ATAT
1 ATAT
1364012 GTATATAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (8 bp):
ATATTATT
Found at i:1365126 original size:25 final size:24
Alignment explanation
Indices: 1365083--1365190 Score: 123
Period size: 25 Copynumber: 4.5 Consensus size: 24
1365073 ACTTTAGCGC
1365083 GCTCTCTGATATTAGCACGTTGGT
1 GCTCTCTGATATTAGCACGTTGGT
1365107 GCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGA-TATTAGCACGTTGGT
***
1365132 GCTCTCTGATATTTAGCACGGCAGT
1 GCTCTCTGATA-TTAGCACGTTGGT
* * *
1365157 ACTCTCTG-T-TTAGCACATTTGT
1 GCTCTCTGATATTAGCACGTTGGT
1365179 GCTCTCTG-TATT
1 GCTCTCTGATATT
1365191 TGTTCCGTAT
Statistics
Matches: 72, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
22 17 0.24
23 2 0.03
24 12 0.17
25 41 0.57
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (24 bp):
GCTCTCTGATATTAGCACGTTGGT
Found at i:1365184 original size:47 final size:49
Alignment explanation
Indices: 1365083--1365191 Score: 127
Period size: 47 Copynumber: 2.3 Consensus size: 49
1365073 ACTTTAGCGC
*** * *
1365083 GCTCTCTGATA-TTAGCACGTTGGTGCTCTCTGATTATTAGCACGTTGGT
1 GCTCTCTGATATTTAGCACGGCAGTACTCTCTGA-TATTAGCACATTGGT
*
1365132 GCTCTCTGATATTTAGCACGGCAGTACTCTCTG-T-TTAGCACATTTGT
1 GCTCTCTGATATTTAGCACGGCAGTACTCTCTGATATTAGCACATTGGT
1365179 GCTCTCTG-TATTT
1 GCTCTCTGATATTT
1365192 GTTCCGTATA
Statistics
Matches: 53, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
46 5 0.09
47 19 0.36
48 1 0.02
49 11 0.21
50 17 0.32
ACGTcount: A:0.17, C:0.22, G:0.21, T:0.40
Consensus pattern (49 bp):
GCTCTCTGATATTTAGCACGGCAGTACTCTCTGATATTAGCACATTGGT
Found at i:1366024 original size:17 final size:17
Alignment explanation
Indices: 1366002--1366035 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
1365992 ATGTGGCATG
*
1366002 TACCTAGGTAATGTATA
1 TACCTAAGTAATGTATA
*
1366019 TACCTAAGTGATGTATA
1 TACCTAAGTAATGTATA
1366036 GGGATTAGTC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (17 bp):
TACCTAAGTAATGTATA
Found at i:1368460 original size:528 final size:528
Alignment explanation
Indices: 1367464--1368514 Score: 2084
Period size: 528 Copynumber: 2.0 Consensus size: 528
1367454 GCTTGAGTTT
1367464 AAGTTGTATTGTTGTTTGGGCTTTTACCCTCTCTTGTAATTCACAAAAGAAAAATGTCCTTAAAA
1 AAGTTGTATTGTTGTTTGGGCTTTTACCCTCTCTTGTAATTCACAAAAGAAAAATGTCCTTAAAA
1367529 CAAAATTTAAAAAGTAAACTACACCAACTCTCCTTAAACTCCATTTAAAATTACATTTCGGTTAT
66 CAAAATTTAAAAAGTAAACTACACCAACTCTCCTTAAACTCCATTTAAAATTACATTTCGGTTAT
1367594 TTAACTTTTAAAAGTTACATAATTGACATTAATGTTATCAAATTGTTACATTTTTGTCATTCGAC
131 TTAACTTTTAAAAGTTACATAATTGACATTAATGTTATCAAATTGTTACATTTTTGTCATTCGAC
1367659 TGTTAACTTCCATTGAGAAGTCACGTTACACCTTAACTTTCAAAAGTTACATAATTCAACTTAGT
196 TGTTAACTTCCATTGAGAAGTCACGTTACACCTTAACTTTCAAAAGTTACATAATTCAACTTAGT
1367724 ATAAAATTCACGGCATTAATGTTTCAAATTTATTGAAATAGCTAGGAGGCTTGCCGGCCAACTAA
261 ATAAAATTCACGGCATTAATGTTTCAAATTTATTGAAATAGCTAGGAGGCTTGCCGGCCAACTAA
1367789 CCCAAGTAAATTTGAGGCATGAAACCAACTTTTTCAAGTCCAATAAAGATTCTTTTAAGAAATTA
326 CCCAAGTAAATTTGAGGCATGAAACCAACTTTTTCAAGTCCAATAAAGATTCTTTTAAGAAATTA
1367854 TCGTTGTTGACGGATTTGTCGCCTATATATGACGATTATTCATAACTTAGTTTTTTAAAAACTCA
391 TCGTTGTTGACGGATTTGTCGCCTATATATGACGATTATTCATAACTTAGTTTTTTAAAAACTCA
1367919 CAAAGTTACCTACATGAAATAATTAATCTTTCAAAGAAAAAACCCAAAATCATACAAAGGAAACA
456 CAAAGTTACCTACATGAAATAATTAATCTTTCAAAGAAAAAACCCAAAATCATACAAAGGAAACA
1367984 GATTTAAA
521 GATTTAAA
*
1367992 AAGTTGTGTTGTTGTTTGGGCTTTTACCCTCTCTTGTAATTCACAAAAGAAAAATGTCCTTAAAA
1 AAGTTGTATTGTTGTTTGGGCTTTTACCCTCTCTTGTAATTCACAAAAGAAAAATGTCCTTAAAA
1368057 CAAAATTTAAAAAGTAAACTACACCAACTCTCCTTAAACTCCATTTAAAATTACATTTCGGTTAT
66 CAAAATTTAAAAAGTAAACTACACCAACTCTCCTTAAACTCCATTTAAAATTACATTTCGGTTAT
*
1368122 TTAACTTTTAAAAGTTATATAATTGACATTAATGTTATCAAATTGTTACATTTTTGTCATTCGAC
131 TTAACTTTTAAAAGTTACATAATTGACATTAATGTTATCAAATTGTTACATTTTTGTCATTCGAC
1368187 TGTTAACTTCCATTGAGAAGTCACGTTACACCTTAACTTTCAAAAGTTACATAATTCAACTTAGT
196 TGTTAACTTCCATTGAGAAGTCACGTTACACCTTAACTTTCAAAAGTTACATAATTCAACTTAGT
1368252 ATAAAATTCACGGCATTAATGTTTCAAATTTATTGAAATAGCTAGGAGGCTTGCCGGCCAACTAA
261 ATAAAATTCACGGCATTAATGTTTCAAATTTATTGAAATAGCTAGGAGGCTTGCCGGCCAACTAA
1368317 CCCAAGTAAATTTGAGGCATGAAACCAACTTTTTCAAGTCCAATAAAGATTCTTTTAAGAAATTA
326 CCCAAGTAAATTTGAGGCATGAAACCAACTTTTTCAAGTCCAATAAAGATTCTTTTAAGAAATTA
1368382 TCGTTGTTGACGGATTTGTCGCCTATATATGACGATTATTCATAACTTAGTTTTTTAAAAACTCA
391 TCGTTGTTGACGGATTTGTCGCCTATATATGACGATTATTCATAACTTAGTTTTTTAAAAACTCA
1368447 CAAAGTTACCTACATGAAATAATTAATCTTTCAAAGAAAAAACCCAAAATCATACAAAGGAAACA
456 CAAAGTTACCTACATGAAATAATTAATCTTTCAAAGAAAAAACCCAAAATCATACAAAGGAAACA
1368512 GAT
521 GAT
1368515 AAAATCCAAA
Statistics
Matches: 521, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
528 521 1.00
ACGTcount: A:0.37, C:0.17, G:0.12, T:0.34
Consensus pattern (528 bp):
AAGTTGTATTGTTGTTTGGGCTTTTACCCTCTCTTGTAATTCACAAAAGAAAAATGTCCTTAAAA
CAAAATTTAAAAAGTAAACTACACCAACTCTCCTTAAACTCCATTTAAAATTACATTTCGGTTAT
TTAACTTTTAAAAGTTACATAATTGACATTAATGTTATCAAATTGTTACATTTTTGTCATTCGAC
TGTTAACTTCCATTGAGAAGTCACGTTACACCTTAACTTTCAAAAGTTACATAATTCAACTTAGT
ATAAAATTCACGGCATTAATGTTTCAAATTTATTGAAATAGCTAGGAGGCTTGCCGGCCAACTAA
CCCAAGTAAATTTGAGGCATGAAACCAACTTTTTCAAGTCCAATAAAGATTCTTTTAAGAAATTA
TCGTTGTTGACGGATTTGTCGCCTATATATGACGATTATTCATAACTTAGTTTTTTAAAAACTCA
CAAAGTTACCTACATGAAATAATTAATCTTTCAAAGAAAAAACCCAAAATCATACAAAGGAAACA
GATTTAAA
Found at i:1368810 original size:25 final size:24
Alignment explanation
Indices: 1368782--1368851 Score: 65
Period size: 25 Copynumber: 2.9 Consensus size: 24
1368772 GTTTTTTAAT
1368782 TTTTATAATATATCATATTAAATTA
1 TTTTATAATATATCATATTAAA-TA
*
1368807 TTTT-TACATAT-TACATATTATATA
1 TTTTATA-ATATAT-CATATTAAATA
*
1368831 ATTTATAATATAT-ATAATTAA
1 TTTTATAATATATCAT-ATTAA
1368852 TAGACTTAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
23 2 0.05
24 16 0.43
25 19 0.51
ACGTcount: A:0.44, C:0.04, G:0.00, T:0.51
Consensus pattern (24 bp):
TTTTATAATATATCATATTAAATA
Found at i:1370316 original size:7 final size:7
Alignment explanation
Indices: 1370306--1370374 Score: 59
Period size: 7 Copynumber: 9.6 Consensus size: 7
1370296 AAAATATTTT
1370306 AAAAATA
1 AAAAATA
*
1370313 AAAAATT
1 AAAAATA
*
1370320 AAAATTA
1 AAAAATA
*
1370327 AAAGTATTTA
1 AAA--A-ATA
*
1370337 AAAATTA
1 AAAAATA
*
1370344 AAAATTA
1 AAAAATA
1370351 AAAAATA
1 AAAAATA
1370358 AAAAAT-
1 AAAAATA
1370364 AAAAATA
1 AAAAATA
1370371 AAAA
1 AAAA
1370375 TATATATTTA
Statistics
Matches: 54, Mismatches: 4, Indels: 8
0.82 0.06 0.12
Matches are distributed among these distances:
6 6 0.11
7 40 0.74
8 1 0.02
9 1 0.02
10 6 0.11
ACGTcount: A:0.75, C:0.00, G:0.01, T:0.23
Consensus pattern (7 bp):
AAAAATA
Found at i:1370335 original size:31 final size:30
Alignment explanation
Indices: 1370287--1370374 Score: 101
Period size: 31 Copynumber: 2.9 Consensus size: 30
1370277 CATTTTTTAA
1370287 TAAACATTAAAAATATTTTAAAAATAAAAAAT
1 TAAA-ATTAAAAATA-TTTAAAAATAAAAAAT
* *
1370319 TAAAATTAAAAGTATTTAAAAATTAAAAAT
1 TAAAATTAAAAATATTTAAAAATAAAAAAT
*
1370349 TAAAAAATAAAAA-A--TAAAAATAAAAA
1 T-AAAATTAAAAATATTTAAAAATAAAAA
1370375 TATATATTTA
Statistics
Matches: 50, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
28 11 0.22
30 17 0.34
31 18 0.36
32 4 0.08
ACGTcount: A:0.70, C:0.01, G:0.01, T:0.27
Consensus pattern (30 bp):
TAAAATTAAAAATATTTAAAAATAAAAAAT
Found at i:1370339 original size:30 final size:31
Alignment explanation
Indices: 1370287--1370353 Score: 100
Period size: 30 Copynumber: 2.2 Consensus size: 31
1370277 CATTTTTTAA
1370287 TAAACATTAAAAATATTTTAAAAATAAAAAAT
1 TAAA-ATTAAAAATATTTTAAAAATAAAAAAT
* *
1370319 TAAAATTAAAAGTA-TTTAAAAATTAAAAAT
1 TAAAATTAAAAATATTTTAAAAATAAAAAAT
1370349 TAAAA
1 TAAAA
1370354 AATAAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
30 20 0.61
31 9 0.27
32 4 0.12
ACGTcount: A:0.66, C:0.01, G:0.01, T:0.31
Consensus pattern (31 bp):
TAAAATTAAAAATATTTTAAAAATAAAAAAT
Found at i:1370699 original size:22 final size:21
Alignment explanation
Indices: 1370623--1370695 Score: 58
Period size: 22 Copynumber: 3.3 Consensus size: 21
1370613 GTCATCATCT
*
1370623 CAAAATTAAATAAAAATTATTA
1 CAAAATTAAATAAATA-TATTA
* *
1370645 -ATAAATTTAAATATATATATAA
1 CA-AAA-TTAAATAAATATATTA
* *
1370667 TAACAAATAAATAAATATATTA
1 CAA-AATTAAATAAATATATTA
1370689 CAAAATT
1 CAAAATT
1370696 TAAAAAAACT
Statistics
Matches: 39, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
21 4 0.10
22 23 0.59
23 12 0.31
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (21 bp):
CAAAATTAAATAAATATATTA
Found at i:1382896 original size:2 final size:2
Alignment explanation
Indices: 1382889--1382919 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1382879 GTCCATTGGT
1382889 TA TA TA 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 TA TA TA T
1382920 TATTTAAACT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1383212 original size:30 final size:30
Alignment explanation
Indices: 1383178--1383235 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
1383168 ACGCGTGTTA
1383178 TTATTAATTTTAAATACTATATTT-TATTAT
1 TTATTAATTTTAAATA-TATATTTATATTAT
*
1383208 TTATTATTTTTAAATATATATTTATATT
1 TTATTAATTTTAAATATATATTTATATT
1383236 TTAAATAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 7 0.27
30 19 0.73
ACGTcount: A:0.36, C:0.02, G:0.00, T:0.62
Consensus pattern (30 bp):
TTATTAATTTTAAATATATATTTATATTAT
Found at i:1383250 original size:20 final size:18
Alignment explanation
Indices: 1383211--1383246 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
1383201 TTATTATTTA
*
1383211 TTATTTTTAAATATATAT
1 TTATTTTTAAATAAATAT
1383229 TTATATTTTAAATAAATA
1 TTAT-TTTTAAATAAATA
1383247 ATTTTTATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (18 bp):
TTATTTTTAAATAAATAT
Found at i:1391363 original size:26 final size:27
Alignment explanation
Indices: 1391334--1391386 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 27
1391324 TCATTAGTTC
* *
1391334 AATTATCGGTTCAATCAATCT-ATATT
1 AATTATCAGATCAATCAATCTAATATT
*
1391360 AATTCTCAGATCAATCAATCTAATATT
1 AATTATCAGATCAATCAATCTAATATT
1391387 TCTCTCTAGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
26 18 0.78
27 5 0.22
ACGTcount: A:0.38, C:0.17, G:0.06, T:0.40
Consensus pattern (27 bp):
AATTATCAGATCAATCAATCTAATATT
Found at i:1397903 original size:24 final size:23
Alignment explanation
Indices: 1397876--1397925 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
1397866 TAATATATAT
*
1397876 AATATTATCTAAATTAATTTTTCA
1 AATATT-TCTAAATTAAATTTTCA
* *
1397900 AATATTTTTACATTAAATTTTCA
1 AATATTTCTAAATTAAATTTTCA
1397923 AAT
1 AAT
1397926 CAAATTCTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (23 bp):
AATATTTCTAAATTAAATTTTCA
Found at i:1398718 original size:20 final size:20
Alignment explanation
Indices: 1398672--1398721 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
1398662 TTACATCAGT
** *
1398672 TTTTTTTCTCTTGAATTTTA
1 TTTTTTTCAGTTGAATTTAA
* *
1398692 GTATTTTCAGTTGAATTTAA
1 TTTTTTTCAGTTGAATTTAA
1398712 TTTTTTTCAG
1 TTTTTTTCAG
1398722 GAAGAAAATG
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.20, C:0.08, G:0.10, T:0.62
Consensus pattern (20 bp):
TTTTTTTCAGTTGAATTTAA
Found at i:1401325 original size:13 final size:13
Alignment explanation
Indices: 1401307--1401333 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1401297 TCACCGCCAC
1401307 CGCTGTTTTTATA
1 CGCTGTTTTTATA
1401320 CGCTGTTTTTATA
1 CGCTGTTTTTATA
1401333 C
1 C
1401334 TAACTGCAGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.19, G:0.15, T:0.52
Consensus pattern (13 bp):
CGCTGTTTTTATA
Found at i:1405696 original size:20 final size:19
Alignment explanation
Indices: 1405651--1405692 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
1405641 TGAAAGAAAT
*
1405651 AAAA-ATTTAAAAATTATG
1 AAAATATTTAAAAAATATG
1405669 AAAATATTTAAAAAA-ATAG
1 AAAATATTTAAAAAATAT-G
1405688 AAAAT
1 AAAAT
1405693 TATTAAATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.67, C:0.00, G:0.05, T:0.29
Consensus pattern (19 bp):
AAAATATTTAAAAAATATG
Found at i:1406179 original size:19 final size:18
Alignment explanation
Indices: 1406151--1406192 Score: 57
Period size: 19 Copynumber: 2.3 Consensus size: 18
1406141 TGTTTTTGTT
* *
1406151 ATTTTAATATTTTTTGAA
1 ATTTTAATATATTTTAAA
1406169 ATTTTATATATATTTTAAA
1 ATTTTA-ATATATTTTAAA
1406188 ATTTT
1 ATTTT
1406193 GTACATCTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (18 bp):
ATTTTAATATATTTTAAA
Found at i:1407964 original size:15 final size:16
Alignment explanation
Indices: 1407936--1407966 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1407926 ACCACTTTTT
1407936 TGGCCCGAGCCCGGCC
1 TGGCCCGAGCCCGGCC
1407952 TGGCCCG-GCCCGGCC
1 TGGCCCGAGCCCGGCC
1407967 CGATATAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.03, C:0.52, G:0.39, T:0.06
Consensus pattern (16 bp):
TGGCCCGAGCCCGGCC
Found at i:1408001 original size:15 final size:17
Alignment explanation
Indices: 1407976--1408105 Score: 75
Period size: 18 Copynumber: 7.3 Consensus size: 17
1407966 CCGATATAAT
*
1407976 AAATATATTT-ATTTTA
1 AAATATTTTTAATTTTA
1407992 AAA-ATTTTTAATTTTA
1 AAATATTTTTAATTTTA
* *
1408008 AAATATTTTAAAATACTTTTT
1 AAATATTTT----TAATTTTA
***
1408029 TCTTATTTTTTAATTTTA
1 AAATA-TTTTTAATTTTA
** *
1408047 AAATAATTTAAAATTTTG
1 AAAT-ATTTTTAATTTTA
*
1408065 AAATTTTTTTAATTTTA
1 AAATATTTTTAATTTTA
*
1408082 AAATATTTTTTACTTTTTA
1 AAATA-TTTTTA-ATTTTA
1408101 AAATA
1 AAATA
1408106 AATTTTTGGT
Statistics
Matches: 84, Mismatches: 20, Indels: 17
0.69 0.17 0.14
Matches are distributed among these distances:
15 5 0.06
16 12 0.14
17 18 0.21
18 26 0.31
19 11 0.13
21 8 0.10
22 4 0.05
ACGTcount: A:0.40, C:0.02, G:0.01, T:0.57
Consensus pattern (17 bp):
AAATATTTTTAATTTTA
Found at i:1408017 original size:16 final size:16
Alignment explanation
Indices: 1407976--1408018 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
1407966 CCGATATAAT
1407976 AAATATATTT-ATTTTA
1 AAATAT-TTTAATTTTA
1407992 AAA-ATTTTTAATTTTA
1 AAATA-TTTTAATTTTA
1408008 AAATATTTTAA
1 AAATATTTTAA
1408019 AATACTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 4 0.17
16 19 0.79
17 1 0.04
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
AAATATTTTAATTTTA
Found at i:1408061 original size:18 final size:18
Alignment explanation
Indices: 1408040--1408086 Score: 51
Period size: 17 Copynumber: 2.7 Consensus size: 18
1408030 CTTATTTTTT
1408040 AATTTTAAAATAATTTAA
1 AATTTTAAAATAATTTAA
* * **
1408058 AATTTTGAAAT-TTTTTT
1 AATTTTAAAATAATTTAA
1408075 AATTTTAAAATA
1 AATTTTAAAATA
1408087 TTTTTTACTT
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
17 13 0.57
18 10 0.43
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (18 bp):
AATTTTAAAATAATTTAA
Found at i:1408092 original size:18 final size:18
Alignment explanation
Indices: 1408032--1408105 Score: 87
Period size: 18 Copynumber: 4.1 Consensus size: 18
1408022 ACTTTTTTCT
1408032 TATTTTTTAATTTTAAAA
1 TATTTTTTAATTTTAAAA
* ** *
1408050 TAATTTAAAATTTTGAAA
1 TATTTTTTAATTTTAAAA
1408068 T-TTTTTTAATTTTAAAA
1 TATTTTTTAATTTTAAAA
*
1408085 TATTTTTTACTTTTTAAAA
1 TATTTTTTA-ATTTTAAAA
1408104 TA
1 TA
1408106 AATTTTTGGT
Statistics
Matches: 45, Mismatches: 9, Indels: 3
0.79 0.16 0.05
Matches are distributed among these distances:
17 13 0.29
18 22 0.49
19 10 0.22
ACGTcount: A:0.39, C:0.01, G:0.01, T:0.58
Consensus pattern (18 bp):
TATTTTTTAATTTTAAAA
Found at i:1413960 original size:24 final size:25
Alignment explanation
Indices: 1413914--1413965 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 25
1413904 TAGAAATGAA
* *
1413914 AAATAAATTAATTTAGATAATATTT
1 AAATAAATTAATATAGATAATATAT
* *
1413939 AAATAATTTAATATA-ATTATATAT
1 AAATAAATTAATATAGATAATATAT
1413963 AAA
1 AAA
1413966 ATATACATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (25 bp):
AAATAAATTAATATAGATAATATAT
Found at i:1420895 original size:90 final size:90
Alignment explanation
Indices: 1420789--1420974 Score: 356
Period size: 90 Copynumber: 2.1 Consensus size: 90
1420779 AAATTTTAAT
1420789 AATAATACAATTAGTGCGACTTGAACCCAATTTATACTGAAGGTAATAGACATCCTGATTATTAA
1 AATAATACAATTAGTGCGACTTGAACCCAATTTATACTGAAGGTAATAGACATCCTGATTATTAA
*
1420854 ATTAATATACGAGTTTCTTAATTTA
66 ATCAATATACGAGTTTCTTAATTTA
1420879 AATAATACAATTAGTGCGACTTGAACCCAATTTATACTGAAGGTAATAGACATCCTGATTATTAA
1 AATAATACAATTAGTGCGACTTGAACCCAATTTATACTGAAGGTAATAGACATCCTGATTATTAA
1420944 ATCAATATACGAGTTTCTTAATTTA
66 ATCAATATACGAGTTTCTTAATTTA
1420969 AA-AATA
1 AATAATA
1420975 TTTTGAATTA
Statistics
Matches: 95, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
89 4 0.04
90 91 0.96
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (90 bp):
AATAATACAATTAGTGCGACTTGAACCCAATTTATACTGAAGGTAATAGACATCCTGATTATTAA
ATCAATATACGAGTTTCTTAATTTA
Found at i:1421731 original size:2 final size:2
Alignment explanation
Indices: 1421720--1421755 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
1421710 TCAACACCAA
1421720 TC TC -C TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1421756 ATTTTGTTTG
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:1427326 original size:22 final size:20
Alignment explanation
Indices: 1427300--1427347 Score: 64
Period size: 18 Copynumber: 2.4 Consensus size: 20
1427290 GTAGGGTTGC
1427300 TTTAAATTATTTGATATATTTA
1 TTTAAATTA-TT-ATATATTTA
1427322 TTTAAA--ATTATATATTTA
1 TTTAAATTATTATATATTTA
1427340 TTTAAATT
1 TTTAAATT
1427348 CAGTTTAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
18 15 0.62
19 2 0.08
20 1 0.04
22 6 0.25
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (20 bp):
TTTAAATTATTATATATTTA
Found at i:1428859 original size:2 final size:2
Alignment explanation
Indices: 1428852--1428882 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1428842 AATCAAATAA
1428852 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 A
1428883 ATGGAATTGG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1429243 original size:22 final size:21
Alignment explanation
Indices: 1429209--1429251 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
1429199 CTTGAAATTT
* *
1429209 ATAAATTTTATTTTACTTAAAA
1 ATAAAATTAATTTTAC-TAAAA
1429231 ATAAAATTAATTTTACTAAAA
1 ATAAAATTAATTTTACTAAAA
1429252 TTTGAAACCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
ATAAAATTAATTTTACTAAAA
Found at i:1437051 original size:13 final size:13
Alignment explanation
Indices: 1437033--1437059 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1437023 TGTGAGATTC
1437033 ATCTATAATTGTG
1 ATCTATAATTGTG
1437046 ATCTATAATTGTG
1 ATCTATAATTGTG
1437059 A
1 A
1437060 ACAATATGCT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.33, C:0.07, G:0.15, T:0.44
Consensus pattern (13 bp):
ATCTATAATTGTG
Found at i:1442443 original size:37 final size:37
Alignment explanation
Indices: 1442393--1442468 Score: 125
Period size: 37 Copynumber: 2.1 Consensus size: 37
1442383 ATCATTCGGT
1442393 CTTGGAATCAAATTCCAATCTAATAGGATCAATATTC
1 CTTGGAATCAAATTCCAATCTAATAGGATCAATATTC
* * *
1442430 CTTGGAATCAAATTCCAGTTTAATAGTATCAATATTC
1 CTTGGAATCAAATTCCAATCTAATAGGATCAATATTC
1442467 CT
1 CT
1442469 ACACCAAAGA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.36, C:0.18, G:0.11, T:0.36
Consensus pattern (37 bp):
CTTGGAATCAAATTCCAATCTAATAGGATCAATATTC
Found at i:1443000 original size:33 final size:33
Alignment explanation
Indices: 1442958--1443024 Score: 134
Period size: 33 Copynumber: 2.0 Consensus size: 33
1442948 TCTAAAGAAC
1442958 ATTGCCAATGGCCTATTGAATGGATTAAAAGCT
1 ATTGCCAATGGCCTATTGAATGGATTAAAAGCT
1442991 ATTGCCAATGGCCTATTGAATGGATTAAAAGCT
1 ATTGCCAATGGCCTATTGAATGGATTAAAAGCT
1443024 A
1 A
1443025 AAACACAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.34, C:0.15, G:0.21, T:0.30
Consensus pattern (33 bp):
ATTGCCAATGGCCTATTGAATGGATTAAAAGCT
Found at i:1444412 original size:12 final size:13
Alignment explanation
Indices: 1444395--1444424 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
1444385 TCGAGGAAGG
1444395 AAGGGTGATAT-T
1 AAGGGTGATATAT
1444407 AAGGGTGATATAT
1 AAGGGTGATATAT
1444420 AAGGG
1 AAGGG
1444425 GCTTCCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.65
13 6 0.35
ACGTcount: A:0.37, C:0.00, G:0.37, T:0.27
Consensus pattern (13 bp):
AAGGGTGATATAT
Found at i:1451010 original size:27 final size:27
Alignment explanation
Indices: 1450972--1451025 Score: 81
Period size: 27 Copynumber: 2.0 Consensus size: 27
1450962 TAGATTCTTC
**
1450972 CTAATATCTTCTACATGGAGTATATTG
1 CTAATATCTTCTACATAAAGTATATTG
*
1450999 CTAATATCTTCTGCATAAAGTATATTG
1 CTAATATCTTCTACATAAAGTATATTG
1451026 TTAAGGGTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.31, C:0.15, G:0.13, T:0.41
Consensus pattern (27 bp):
CTAATATCTTCTACATAAAGTATATTG
Found at i:1455931 original size:24 final size:24
Alignment explanation
Indices: 1455903--1455955 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
1455893 ATTCGTACGT
** *
1455903 TAAATAAATTATGCTAATAAATGC
1 TAAATAAATTAAACTAATAAATAC
*
1455927 TAAATATATTAAACTAATAAATAC
1 TAAATAAATTAAACTAATAAATAC
1455951 TAAAT
1 TAAAT
1455956 CTTTTAGGAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.55, C:0.08, G:0.04, T:0.34
Consensus pattern (24 bp):
TAAATAAATTAAACTAATAAATAC
Found at i:1460342 original size:27 final size:26
Alignment explanation
Indices: 1460283--1460345 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
1460273 CACGTATATG
1460283 TATAT-TAAAATATATATAAAAATTA
1 TATATATAAAATATATATAAAAATTA
* **
1460308 TAAAATATAAAATATATATAAGTATGTA
1 T-ATATATAAAATATATATAAAAAT-TA
1460336 TATATATAAA
1 TATATATAAA
1460346 TGAGGAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 3 0.10
27 24 0.77
28 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (26 bp):
TATATATAAAATATATATAAAAATTA
Found at i:1461121 original size:15 final size:15
Alignment explanation
Indices: 1461098--1461128 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1461088 TTTCTTATGT
*
1461098 AAAAGATAAAATAAA
1 AAAAAATAAAATAAA
1461113 AAAAAATAAAATAAA
1 AAAAAATAAAATAAA
1461128 A
1 A
1461129 CAAGCAAGAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.84, C:0.00, G:0.03, T:0.13
Consensus pattern (15 bp):
AAAAAATAAAATAAA
Found at i:1462259 original size:44 final size:44
Alignment explanation
Indices: 1462196--1462307 Score: 111
Period size: 44 Copynumber: 2.5 Consensus size: 44
1462186 GATCTACTCT
* * * *
1462196 ACTGTAA-CTTCAGAGAGATAAGATAATTTA-TTTTAATCCGCTCC
1 ACTGTAATC-TCAGGGAGATAAGATAA-CTAGCTTCAATCCGCTCC
* * * *
1462240 ACTGTAATCTCAGGGAGATAGGATTACTAGCTTCGATCTGCTCC
1 ACTGTAATCTCAGGGAGATAAGATAACTAGCTTCAATCCGCTCC
*
1462284 ACTGTAATCTCGGGGAGATAAGAT
1 ACTGTAATCTCAGGGAGATAAGAT
1462308 CTGAAACGAT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
43 2 0.04
44 53 0.95
45 1 0.02
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (44 bp):
ACTGTAATCTCAGGGAGATAAGATAACTAGCTTCAATCCGCTCC
Found at i:1462459 original size:85 final size:85
Alignment explanation
Indices: 1462352--1462609 Score: 430
Period size: 85 Copynumber: 3.0 Consensus size: 85
1462342 ATAAGATTTT
**
1462352 TTTAATCC-GCTCCACTGCAACCAATGAAGGCAAGACTTGTTTTCGATCTGCTTCGCTGTTAATT
1 TTTAA-CCAGCTCCACTGCAACCAATGAAGGCAAGACTTGTTTTCGATCTGCTTCGCTGTTAACG
1462416 CAGGAAGGCAAGATCTGCTTC
65 CAGGAAGGCAAGATCTGCTTC
*
1462437 TTTAACCAGCTCCACTGTAACCAATGAAGGCAA-AGCTTGTTTTCGATCTGCTTCGCTGTTAACG
1 TTTAACCAGCTCCACTGCAACCAATGAAGGCAAGA-CTTGTTTTCGATCTGCTTCGCTGTTAACG
*
1462501 CAGGAAGGCAAGATCTACTTC
65 CAGGAAGGCAAGATCTGCTTC
*
1462522 TTTAACCAGCTCCACTGCAACCAATGAAGGCAAGGCTTGTTTTCGATCTGCTTCGCTGTTAACGC
1 TTTAACCAGCTCCACTGCAACCAATGAAGGCAAGACTTGTTTTCGATCTGCTTCGCTGTTAACGC
1462587 AGGAAGGCAAGATCTGCTGTC
66 AGGAAGGCAAGATCTGCT-TC
1462608 TT
1 TT
1462610 CACTGATCTG
Statistics
Matches: 162, Mismatches: 7, Indels: 7
0.92 0.04 0.04
Matches are distributed among these distances:
84 3 0.02
85 155 0.96
86 4 0.02
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.29
Consensus pattern (85 bp):
TTTAACCAGCTCCACTGCAACCAATGAAGGCAAGACTTGTTTTCGATCTGCTTCGCTGTTAACGC
AGGAAGGCAAGATCTGCTTC
Found at i:1462597 original size:42 final size:41
Alignment explanation
Indices: 1462377--1462597 Score: 133
Period size: 42 Copynumber: 5.2 Consensus size: 41
1462367 TGCAACCAAT
* *
1462377 GAAGGCAAGACTTGTTTTCGATCTGCTTCGCTGTTAATTCAG
1 GAAGGCAAGGCTTGTTTTCGATCTGCTTCGCTGTTAA-CCAG
* ** * * * * *
1462419 GAAGGCAA-GATCTGCTTCTTTAACCAGCTCCACTG-TAACCAAT
1 GAAGGCAAGGCT-TG-TT-TTCGATCTGCTTCGCTGTTAACC-AG
*
1462462 GAAGGCAAAGCTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
1 GAAGGCAAGGCTTGTTTTCGATCTGCTTCGCTGTTAAC-CAG
* ** ** * * * * * *
1462504 GAAGGCAAGATCTACTTCTTTAACCAGCTCCACTG-CAACCAAT
1 GAAGGCAAG-GCTTGTT-TTCGATCTGCTTCGCTGTTAACC-AG
1462547 GAAGGCAAGGCTTGTTTTCGATCTGCTTCGCTGTTAACGCAG
1 GAAGGCAAGGCTTGTTTTCGATCTGCTTCGCTGTTAAC-CAG
1462589 GAAGGCAAG
1 GAAGGCAAG
1462598 ATCTGCTGTC
Statistics
Matches: 126, Mismatches: 41, Indels: 24
0.66 0.21 0.13
Matches are distributed among these distances:
41 23 0.18
42 44 0.35
43 35 0.28
44 24 0.19
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.28
Consensus pattern (41 bp):
GAAGGCAAGGCTTGTTTTCGATCTGCTTCGCTGTTAACCAG
Found at i:1463686 original size:21 final size:21
Alignment explanation
Indices: 1463660--1463706 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
1463650 GGTATAGCAG
1463660 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
1463681 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
1463702 GATCA
1 GATCA
1463707 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:1464718 original size:9 final size:9
Alignment explanation
Indices: 1464706--1464734 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
1464696 CTATTTTGAC
1464706 TTTGATTTT
1 TTTGATTTT
1464715 TTTGA-TTT
1 TTTGATTTT
1464723 TTTGATTTT
1 TTTGATTTT
1464732 TTT
1 TTT
1464735 TGAATTCATG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.10, C:0.00, G:0.10, T:0.79
Consensus pattern (9 bp):
TTTGATTTT
Found at i:1467345 original size:19 final size:20
Alignment explanation
Indices: 1467316--1467364 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
1467306 CACTTCGTGA
* *
1467316 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAAATGCATG
*
1467335 CAATGTAATGCAAATGCATG
1 AAATGTAATGCAAATGCATG
1467355 AAATG-AATGC
1 AAATGTAATGC
1467365 CTAAAGAGAC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.43, C:0.12, G:0.18, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAAATGCATG
Found at i:1469679 original size:14 final size:12
Alignment explanation
Indices: 1469667--1469712 Score: 56
Period size: 12 Copynumber: 3.6 Consensus size: 12
1469657 CACGTATATG
1469667 TATATAAAAATA
1 TATATAAAAATA
1469679 TATATAAAAATTA
1 TATATAAAAA-TA
*
1469692 TAAAATATAAAATA
1 T-ATATA-AAAATA
1469706 TATATAA
1 TATATAA
1469713 GTATGTATAT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
12 11 0.38
13 7 0.24
14 7 0.24
15 4 0.14
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (12 bp):
TATATAAAAATA
Found at i:1469726 original size:27 final size:26
Alignment explanation
Indices: 1469667--1469729 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
1469657 CACGTATATG
1469667 TATATA-AAAATATATATAAAAATTA
1 TATATATAAAATATATATAAAAATTA
* **
1469692 TAAAATATAAAATATATATAAGTATGTA
1 T-ATATATAAAATATATATAAAAAT-TA
1469720 TATATATAAA
1 TATATATAAA
1469730 TGAGGAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
25 1 0.03
26 4 0.13
27 23 0.74
28 3 0.10
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (26 bp):
TATATATAAAATATATATAAAAATTA
Found at i:1483480 original size:17 final size:17
Alignment explanation
Indices: 1483458--1483504 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
1483448 TTTAAAAATT
1483458 ATAAAAAAAAAATATTC
1 ATAAAAAAAAAATATTC
1483475 ATAAAAGAAAAAA-ATTC
1 ATAAAA-AAAAAATATTC
*
1483492 A-AAAAATAAAATA
1 ATAAAAAAAAAATA
1483505 AAAATTTCAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
15 5 0.19
16 5 0.19
17 11 0.41
18 6 0.22
ACGTcount: A:0.74, C:0.04, G:0.02, T:0.19
Consensus pattern (17 bp):
ATAAAAAAAAAATATTC
Found at i:1489786 original size:305 final size:305
Alignment explanation
Indices: 1489235--1489834 Score: 1085
Period size: 305 Copynumber: 2.0 Consensus size: 305
1489225 ACGGAGAAGA
* * *
1489235 ACATACCAAAACCAGGCCGACCGGATGGTGGCAAGTGGAGATCAAGCAAGGTAAAGGTCATGATT
1 ACATACCAAAACCAGGCCGACCAGACGGTGGCAAGTGGAGATCAAGCAAGGTAAAGGTCAGGATT
1489300 TATTTTCTAGATCTATTAGTGTACGGATGATTTTGGGTGATAAGAATTTTGATTCTGGATTAGGA
66 TATTTTCTAGATCTATTAGTGTACGGATGATTTTGGGTGATAAGAATTTTGATTCTGGATTAGGA
* * * *
1489365 GGATGGAAGAACTGTGGGGGGATATTTCTTTTGGCCTGTCGAAGCTCCGTCCAATTGTGGGGGTG
131 GGATGGAAGAACTGTGGGAGGATATTTCTTTTGGCCTATCGAAGCTCCGTCCAATTGCGGCGGTG
1489430 CCGTTGTCGGAGTTCTCCATTCTTCTTCGGCCGTTAGAGAGAACCAAAGAATGAAAGAAAATAGT
196 CCGTTGTCGGAGTTCTCCATTCTTCTTCGGCCGTTAGAGAGAACCAAAGAATGAAAGAAAATAGT
*
1489495 TTTAGACAGGAGAATCGAAAGCCAGAAGTTTATAGGAGATCAAGC
261 TTTAGACAGGAGAATCGAAAGCCAGAAGTTCATAGGAGATCAAGC
* *
1489540 ACATACCGAAACCAGGCCGACCAGACGGTGGCAAGTGGAGATCAAGCAAGGTAAAGGTCAGGGTT
1 ACATACCAAAACCAGGCCGACCAGACGGTGGCAAGTGGAGATCAAGCAAGGTAAAGGTCAGGATT
1489605 TATTTTCTAGATCTATTAGTGTACGGATGATTTTGGGTGATAA-AGATTTTGATTCTGGATTAGG
66 TATTTTCTAGATCTATTAGTGTACGGATGATTTTGGGTGATAAGA-ATTTTGATTCTGGATTAGG
*
1489669 AGGATGGAAGAACTGTGGGAGGATATTTCTTTTGGCCTATCGAAGCTCCGTCCGATTGCGGCGGT
130 AGGATGGAAGAACTGTGGGAGGATATTTCTTTTGGCCTATCGAAGCTCCGTCCAATTGCGGCGGT
1489734 GCCGTTGTCGGAGTTCTCCATTCTTCTTCGGCCGTTAGAGAGAACCAAAGAATGAAAGAAAATAG
195 GCCGTTGTCGGAGTTCTCCATTCTTCTTCGGCCGTTAGAGAGAACCAAAGAATGAAAGAAAATAG
1489799 TTTTAGACAGGAGAATCGAAAGCCAGAAGTTCATAG
260 TTTTAGACAGGAGAATCGAAAGCCAGAAGTTCATAG
1489835 AAGGGTTTCG
Statistics
Matches: 283, Mismatches: 11, Indels: 2
0.96 0.04 0.01
Matches are distributed among these distances:
304 1 0.00
305 282 1.00
ACGTcount: A:0.29, C:0.16, G:0.28, T:0.27
Consensus pattern (305 bp):
ACATACCAAAACCAGGCCGACCAGACGGTGGCAAGTGGAGATCAAGCAAGGTAAAGGTCAGGATT
TATTTTCTAGATCTATTAGTGTACGGATGATTTTGGGTGATAAGAATTTTGATTCTGGATTAGGA
GGATGGAAGAACTGTGGGAGGATATTTCTTTTGGCCTATCGAAGCTCCGTCCAATTGCGGCGGTG
CCGTTGTCGGAGTTCTCCATTCTTCTTCGGCCGTTAGAGAGAACCAAAGAATGAAAGAAAATAGT
TTTAGACAGGAGAATCGAAAGCCAGAAGTTCATAGGAGATCAAGC
Found at i:1490480 original size:15 final size:16
Alignment explanation
Indices: 1490460--1490494 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
1490450 TCCCTGTAGT
1490460 TTTAAG-TTTATTTCA
1 TTTAAGTTTTATTTCA
1490475 TTTAAGTTTTTATTTCA
1 TTTAAG-TTTTATTTCA
1490492 TTT
1 TTT
1490495 TAGGGTAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 6 0.33
17 12 0.67
ACGTcount: A:0.23, C:0.06, G:0.06, T:0.66
Consensus pattern (16 bp):
TTTAAGTTTTATTTCA
Found at i:1492959 original size:38 final size:39
Alignment explanation
Indices: 1492882--1492959 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
1492872 GCAGATGGTG
* *
1492882 ACTTCTTTGTAGGTATATATCATAGTTTCCCATAAAATT
1 ACTTCTTTGTAGGTATATATCATAGGTTCCCACAAAATT
* *
1492921 ACTTCTTTGTAGGTATATATCAT-GGTTCCCCCAGAATT
1 ACTTCTTTGTAGGTATATATCATAGGTTCCCACAAAATT
1492959 A
1 A
1492960 GATAAGTTCT
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
38 12 0.34
39 23 0.66
ACGTcount: A:0.28, C:0.18, G:0.13, T:0.41
Consensus pattern (39 bp):
ACTTCTTTGTAGGTATATATCATAGGTTCCCACAAAATT
Found at i:1501074 original size:22 final size:24
Alignment explanation
Indices: 1501042--1501093 Score: 74
Period size: 22 Copynumber: 2.3 Consensus size: 24
1501032 TTTATTATTG
*
1501042 ATTTTATAATATTTTA-AATGTAT
1 ATTTTATAATATTTTATAATATAT
1501065 ATTTTA-AATATTTTATAATATAT
1 ATTTTATAATATTTTATAATATAT
1501088 -TTTTAT
1 ATTTTAT
1501094 TCAAACGCTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 14 0.54
23 12 0.46
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (24 bp):
ATTTTATAATATTTTATAATATAT
Found at i:1501139 original size:60 final size:59
Alignment explanation
Indices: 1501073--1501210 Score: 163
Period size: 60 Copynumber: 2.3 Consensus size: 59
1501063 ATATTTTAAA
1501073 TATTTTATAATATATT-TTTATTCAAACGCTTTTT-TTTATTTTTTAAAATTATTTATTATT
1 TATTTTATAATAT-TTGTTTATTCAAACGCTTTTTATTTATTTTTT--AATTATTTATTATT
* ** *
1501133 TGTTTTATAATATTTGTTTATTCAAACTTTTTTTGAAAATTTATTTTTTAATTGTTTATTATT
1 TATTTTATAATATTTGTTTATTCAAACGCTTTTT----ATTTATTTTTTAATTATTTATTATT
1501196 TATTTTATAATATTT
1 TATTTTATAATATTT
1501211 TAAATGTTTT
Statistics
Matches: 67, Mismatches: 5, Indels: 9
0.83 0.06 0.11
Matches are distributed among these distances:
59 2 0.03
60 28 0.42
63 27 0.40
65 10 0.15
ACGTcount: A:0.29, C:0.04, G:0.04, T:0.64
Consensus pattern (59 bp):
TATTTTATAATATTTGTTTATTCAAACGCTTTTTATTTATTTTTTAATTATTTATTATT
Found at i:1501212 original size:22 final size:22
Alignment explanation
Indices: 1501171--1501235 Score: 59
Period size: 22 Copynumber: 3.1 Consensus size: 22
1501161 TTTTTTGAAA
*
1501171 ATTTATTTTTTAAT-TGTTTATT
1 ATTTATTTTATAATAT-TTTATT
1501193 ATTTATTTTATAATATTTTA--
1 ATTTATTTTATAATATTTTATT
* *
1501213 A-ATGTTTTATAATATTTT-TT
1 ATTTATTTTATAATATTTTATT
1501233 ATT
1 ATT
1501236 CAAACGATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 9
0.73 0.08 0.19
Matches are distributed among these distances:
19 15 0.43
20 2 0.06
22 17 0.49
23 1 0.03
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (22 bp):
ATTTATTTTATAATATTTTATT
Found at i:1501220 original size:9 final size:10
Alignment explanation
Indices: 1501196--1501230 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
1501186 GTTTATTATT
1501196 TATTTTATAA
1 TATTTTATAA
1501206 TATTTTA-AA
1 TATTTTATAA
*
1501215 TGTTTTATAA
1 TATTTTATAA
1501225 TATTTT
1 TATTTT
1501231 TTATTCAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (10 bp):
TATTTTATAA
Found at i:1501272 original size:21 final size:21
Alignment explanation
Indices: 1501245--1501302 Score: 64
Period size: 22 Copynumber: 2.7 Consensus size: 21
1501235 TCAAACGATT
1501245 TTAAAAAATATTATATTTAAAA
1 TTAAAAAATATTATATTT-AAA
* * *
1501267 TT-AAAAATAATAATATTTTAT
1 TTAAAAAAT-ATTATATTTAAA
1501288 TTAAAAAATATTATA
1 TTAAAAAATATTATA
1501303 AGACATTTAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
21 14 0.47
22 16 0.53
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
TTAAAAAATATTATATTTAAA
Found at i:1501359 original size:10 final size:11
Alignment explanation
Indices: 1501337--1501361 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
1501327 AATAGTAAAC
1501337 AATTTCAAAAA
1 AATTTCAAAAA
1501348 AATTTCAAAAA
1 AATTTCAAAAA
1501359 AAT
1 AAT
1501362 GTTTGAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (11 bp):
AATTTCAAAAA
Found at i:1502022 original size:31 final size:31
Alignment explanation
Indices: 1501984--1502051 Score: 84
Period size: 31 Copynumber: 2.2 Consensus size: 31
1501974 AAATTTAATA
** *
1501984 AAAAATTATTACATAATTAGAATTAAA-TTTT
1 AAAAATTAAAACATAATGA-AATTAAATTTTT
*
1502015 AAAAATTAAAAGATAATGAAATTAAATTTTT
1 AAAAATTAAAACATAATGAAATTAAATTTTT
1502046 AAAAAT
1 AAAAAT
1502052 AAATATTAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
30 7 0.22
31 25 0.78
ACGTcount: A:0.57, C:0.01, G:0.04, T:0.37
Consensus pattern (31 bp):
AAAAATTAAAACATAATGAAATTAAATTTTT
Found at i:1504280 original size:10 final size:10
Alignment explanation
Indices: 1504267--1504319 Score: 61
Period size: 10 Copynumber: 4.9 Consensus size: 10
1504257 TTTAAATGGA
1504267 AAAAAATTAT
1 AAAAAATTAT
*
1504277 AAAAAAATTAA
1 -AAAAAATTAT
1504288 AAAAAATTATTTT
1 AAAAAATTA---T
1504301 AAAAAATTAT
1 AAAAAATTAT
1504311 AAAAAATTA
1 AAAAAATTA
1504320 AAATAGGATA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
10 19 0.51
11 9 0.24
13 9 0.24
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (10 bp):
AAAAAATTAT
Found at i:1504304 original size:23 final size:21
Alignment explanation
Indices: 1504266--1504319 Score: 72
Period size: 23 Copynumber: 2.5 Consensus size: 21
1504256 TTTTAAATGG
1504266 AAAAAAATTATAAAAAAATTA
1 AAAAAAATTATAAAAAAATTA
*
1504287 AAAAAAATTATTTTAAAAAATTA
1 AAAAAAATTA--TAAAAAAATTA
*
1504310 TAAAAAATTA
1 AAAAAAATTA
1504320 AAATAGGATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 10 0.34
23 19 0.66
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAAAATTATAAAAAAATTA
Found at i:1504724 original size:17 final size:17
Alignment explanation
Indices: 1504694--1504743 Score: 50
Period size: 17 Copynumber: 2.9 Consensus size: 17
1504684 ATATTGATCC
1504694 ATTTATTT-TATTATGGT
1 ATTTATTTAT-TTATGGT
*
1504711 ATTTATTTATTTAT-TT
1 ATTTATTTATTTATGGT
1504727 ATTTTATATTATTTATG
1 A-TTTAT-TTATTTATG
1504744 AAAAAAAAAC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
16 2 0.07
17 17 0.61
18 9 0.32
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (17 bp):
ATTTATTTATTTATGGT
Found at i:1505755 original size:19 final size:18
Alignment explanation
Indices: 1505712--1505757 Score: 58
Period size: 19 Copynumber: 2.6 Consensus size: 18
1505702 AAAGAGGAAG
1505712 AGAAAA-AAAAGAAAAAA
1 AGAAAAGAAAAGAAAAAA
**
1505729 AGGGAAGAAAAGGAAAAAA
1 AGAAAAGAAAA-GAAAAAA
1505748 AGAAAAGAAA
1 AGAAAAGAAA
1505758 TACTTTTATT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
17 4 0.17
18 4 0.17
19 15 0.65
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (18 bp):
AGAAAAGAAAAGAAAAAA
Found at i:1507951 original size:28 final size:27
Alignment explanation
Indices: 1507911--1507997 Score: 88
Period size: 28 Copynumber: 3.2 Consensus size: 27
1507901 GAAATTAAAG
1507911 TATAAGGATTAAATCTCAAATTTAAGCA
1 TATAAGGATTAAAT-TCAAATTTAAGCA
* * * *
1507939 TATTAGGACTAAAATTGAAATTAAAG--
1 TATAAGGA-TTAAATTCAAATTTAAGCA
*
1507965 TATAAGAATTAAATTTCAAATTTAAGCA
1 TATAAGGATTAAA-TTCAAATTTAAGCA
1507993 TATAA
1 TATAA
1507998 AAAGGACTAA
Statistics
Matches: 46, Mismatches: 9, Indels: 8
0.73 0.14 0.13
Matches are distributed among these distances:
25 4 0.09
26 16 0.35
28 21 0.46
29 5 0.11
ACGTcount: A:0.49, C:0.07, G:0.10, T:0.33
Consensus pattern (27 bp):
TATAAGGATTAAATTCAAATTTAAGCA
Found at i:1507985 original size:26 final size:26
Alignment explanation
Indices: 1507902--1507986 Score: 89
Period size: 26 Copynumber: 3.2 Consensus size: 26
1507892 ATGATGCTAG
*
1507902 AAATTAAAGTATAAGGATTAAATCTC
1 AAATTAAAGTATAAGGATTAAATTTC
* * * * *
1507928 AAATTTAAGCATATTAGGACTAAAATTG
1 AAATTAAAG--TATAAGGATTAAATTTC
*
1507956 AAATTAAAGTATAAGAATTAAATTTC
1 AAATTAAAGTATAAGGATTAAATTTC
1507982 AAATT
1 AAATT
1507987 TAAGCATATA
Statistics
Matches: 45, Mismatches: 12, Indels: 4
0.74 0.20 0.07
Matches are distributed among these distances:
26 25 0.56
28 20 0.44
ACGTcount: A:0.51, C:0.06, G:0.11, T:0.33
Consensus pattern (26 bp):
AAATTAAAGTATAAGGATTAAATTTC
Found at i:1509119 original size:14 final size:14
Alignment explanation
Indices: 1509100--1509128 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1509090 ATAAAATACT
1509100 ATAAAATACTATAA
1 ATAAAATACTATAA
1509114 ATAAAATACTATAA
1 ATAAAATACTATAA
1509128 A
1 A
1509129 GTTTACTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (14 bp):
ATAAAATACTATAA
Found at i:1509128 original size:10 final size:10
Alignment explanation
Indices: 1509090--1509114 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
1509080 TTTAAATAAA
1509090 ATAAAATACT
1 ATAAAATACT
1509100 ATAAAATACT
1 ATAAAATACT
1509110 ATAAA
1 ATAAA
1509115 TAAAATACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (10 bp):
ATAAAATACT
Found at i:1529553 original size:24 final size:24
Alignment explanation
Indices: 1529508--1529553 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
1529498 ATATATACAT
* ** *
1529508 TTATTTTTATATTGAATTAAATAA
1 TTATTTGTATATACAATAAAATAA
1529532 TTATTTGTATATACAATAAAAT
1 TTATTTGTATATACAATAAAAT
1529554 TATGTTAATT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.43, C:0.02, G:0.04, T:0.50
Consensus pattern (24 bp):
TTATTTGTATATACAATAAAATAA
Found at i:1530230 original size:18 final size:19
Alignment explanation
Indices: 1530193--1530230 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
1530183 ATTAAGTTAA
**
1530193 TGCATAAACGACTATCATT
1 TGCATAAACGACTAAAATT
1530212 TGCATAAA-GACTAAAATT
1 TGCATAAACGACTAAAATT
1530230 T
1 T
1530231 TAAAATTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.42, C:0.16, G:0.11, T:0.32
Consensus pattern (19 bp):
TGCATAAACGACTAAAATT
Found at i:1530417 original size:31 final size:31
Alignment explanation
Indices: 1530377--1530436 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
1530367 AAAATTTCAA
* * * *
1530377 AATTTGAAAAGTACATGGACTAAAATTGACC
1 AATTCGAAAAGCACAAGGACCAAAATTGACC
1530408 AATTCGAAAAGCACAAGGACCAAAATTGA
1 AATTCGAAAAGCACAAGGACCAAAATTGA
1530437 TCATATAAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.48, C:0.15, G:0.17, T:0.20
Consensus pattern (31 bp):
AATTCGAAAAGCACAAGGACCAAAATTGACC
Found at i:1538206 original size:30 final size:30
Alignment explanation
Indices: 1538161--1538218 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
1538151 CACGAGCTAG
* *
1538161 CACATGGGCATGTGTCCAGCCCGTGTGGCT
1 CACACGGGCATGTGTCCAACCCGTGTGGCT
*
1538191 CACACGGGCGTGTGTCCAACCCGTGTGG
1 CACACGGGCATGTGTCCAACCCGTGTGG
1538219 AAATGCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.31, G:0.34, T:0.21
Consensus pattern (30 bp):
CACACGGGCATGTGTCCAACCCGTGTGGCT
Found at i:1543915 original size:17 final size:19
Alignment explanation
Indices: 1543855--1543931 Score: 82
Period size: 19 Copynumber: 3.8 Consensus size: 19
1543845 AATCTTCGAG
*
1543855 GATATATAATCTTAGATAT
1 GATATGTAATCTTAGATAT
* *
1543874 GATATGCAATCTTAAATAT
1 GATATGTAATCTTAGATAT
1543893 GATATGTAATCTTAGAAGATAT
1 GATATGTAATCTT---AGATAT
*
1543915 GATTTTGTAATCTTAGA
1 GA-TATGTAATCTTAGA
1543932 GATTTAATTT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
19 28 0.58
20 3 0.06
22 7 0.15
23 10 0.21
ACGTcount: A:0.39, C:0.06, G:0.14, T:0.40
Consensus pattern (19 bp):
GATATGTAATCTTAGATAT
Found at i:1543944 original size:21 final size:23
Alignment explanation
Indices: 1543889--1543945 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
1543879 GCAATCTTAA
*
1543889 ATATG-ATATGTAATCTTAGAAG
1 ATATGAATTTGTAATCTTAGAAG
*
1543911 ATATGATTTTGTAATCTTAG-AG
1 ATATGAATTTGTAATCTTAGAAG
*
1543933 AT-TTAATTTGTAA
1 ATATGAATTTGTAA
1543946 ATACCCTTTA
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
21 9 0.30
22 9 0.30
23 12 0.40
ACGTcount: A:0.37, C:0.04, G:0.16, T:0.44
Consensus pattern (23 bp):
ATATGAATTTGTAATCTTAGAAG
Found at i:1544367 original size:3 final size:3
Alignment explanation
Indices: 1544359--1544398 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
1544349 ATTGATTTTG
*
1544359 TTA TTA TTA TTT TTA TTA TTA -TA TTA TATA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA T
1544399 ACCTACATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
2 2 0.06
3 28 0.85
4 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:1544372 original size:15 final size:15
Alignment explanation
Indices: 1544354--1544398 Score: 56
Period size: 15 Copynumber: 3.0 Consensus size: 15
1544344 ATTTTATTGA
*
1544354 TTTTGTTATTATTAT
1 TTTTATTATTATTAT
1544369 TTTTATTATTA-TAT
1 TTTTATTATTATTAT
*
1544383 TATATATTATTATTAT
1 T-TTTATTATTATTAT
1544399 ACCTACATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
14 4 0.15
15 19 0.73
16 3 0.12
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (15 bp):
TTTTATTATTATTAT
Found at i:1544374 original size:12 final size:12
Alignment explanation
Indices: 1544345--1544396 Score: 52
Period size: 12 Copynumber: 4.1 Consensus size: 12
1544335 TTTTAGTCTA
1544345 TTTTATTGATT-T
1 TTTTATT-ATTAT
*
1544357 TGTTATTATTAT
1 TTTTATTATTAT
1544369 TTTTATTATTAT
1 TTTTATTATTAT
1544381 ATTATATATTATTAT
1 -TT-T-TATTATTAT
1544396 T
1 T
1544397 ATACCTACAT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.09
12 18 0.53
13 2 0.06
14 2 0.06
15 9 0.26
ACGTcount: A:0.27, C:0.00, G:0.04, T:0.69
Consensus pattern (12 bp):
TTTTATTATTAT
Found at i:1546441 original size:31 final size:31
Alignment explanation
Indices: 1546406--1546467 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
1546396 TCCTTTTAAG
1546406 TAGGAGCGAGAAGCTATTTCCTTCGTGAGGT
1 TAGGAGCGAGAAGCTATTTCCTTCGTGAGGT
1546437 TAGGAGCGAGAAGCTATTTCCTTCGTGAGGT
1 TAGGAGCGAGAAGCTATTTCCTTCGTGAGGT
1546468 CTTCACCTCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.23, C:0.16, G:0.32, T:0.29
Consensus pattern (31 bp):
TAGGAGCGAGAAGCTATTTCCTTCGTGAGGT
Found at i:1550722 original size:44 final size:43
Alignment explanation
Indices: 1550672--1551167 Score: 114
Period size: 44 Copynumber: 11.3 Consensus size: 43
1550662 AGACACCAGC
*
1550672 CTTGCCTCCCTAGGTTGTAGCGGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCT-GGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
* *** * * * * * * *
1550716 CTTGCCTTCCTGCACCGACAGCGAAGCA-GATCGAAGACACCAG-C
1 CTTGCCTCCCTG-GTTG-CAGCGGAGCAGGCT-AAAAATAGCAGAT
1550760 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCT-GGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
* *** * * * * ** * * *
1550804 CTTGCCTTCCTGCACCGACAACGAAGTA-GATCGAAGTCACCAG-C
1 CTTGCCTCCCTG-GTTG-CAGCGGAGCAGGCTAAAAAT-AGCAGAT
* *
1550848 CTTGCCTCCCTGGGTTGCAGTGGAGCAAGCTAAAAATAGCAGAT
1 CTTGCCTCCCT-GGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
* ** ** * * * *
1550892 CTTGCCTTCCTGCGCCGACAGCTAAGCA-GATCAAAGACA-CTAG-C
1 CTTGCCTCCCTG-GTTG-CAGCGGAGCAGGCT-AAAAATAGC-AGAT
* *
1550936 CTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAATAGTAGAT
1 CTTGCCTCCCT-GGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
* * ** * * * * * * *
1550980 CTTGCCTTCCTGCATCAACAGCGAAGCA-GATCGAAGACACCAG-C
1 CTTGCCTCCCTG-GT-TGCAGCGGAGCAGGCT-AAAAATAGCAGAT
* *
1551024 CTTGCCTCCCTGGGTTACAGCGGAGCAGGCTAAAATTAGCAGAT
1 CTTGCCTCCCT-GGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
* * *** * * * ** * * *
1551068 ATTGCCTTCCTGCACCGACAACGAAGCA-GATCGAAGTCACCAG-C
1 CTTGCCTCCCTG-GTTG-CAGCGGAGCAGGCTAAAAAT-AGCAGAT
* *
1551112 CTTGCCTCCCTGGGTTGTAGTGGAGCAGGCTAAAAATAGCAGAT
1 CTTGCCTCCCT-GGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
*
1551156 CTTGCCTTCCTG
1 CTTGCCTCCCTG
1551168 CACCGACAGC
Statistics
Matches: 297, Mismatches: 123, Indels: 65
0.61 0.25 0.13
Matches are distributed among these distances:
43 73 0.25
44 152 0.51
45 72 0.24
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (43 bp):
CTTGCCTCCCTGGTTGCAGCGGAGCAGGCTAAAAATAGCAGAT
Found at i:1551409 original size:88 final size:88
Alignment explanation
Indices: 1550643--1551376 Score: 1099
Period size: 88 Copynumber: 8.3 Consensus size: 88
1550633 CTTCTTGCGT
* * * *
1550643 CGACAGCTAAGCAGATCAAAGACACCAGCCTTGCCTCCCTAGGTTGTAGCGGAGCAGGCTAAAAA
1 CGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAA
1550708 TAGCAGATCTTGCCTTCCTGCAC
66 TAGCAGATCTTGCCTTCCTGCAC
1550731 CGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAA
1 CGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAA
1550796 TAGCAGATCTTGCCTTCCTGCAC
66 TAGCAGATCTTGCCTTCCTGCAC
* * * * *
1550819 CGACAACGAAGTAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTTGCAGTGGAGCAAGCTAAAAA
1 CGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAA
*
1550884 TAGCAGATCTTGCCTTCCTGCGC
66 TAGCAGATCTTGCCTTCCTGCAC
* * * *
1550907 CGACAGCTAAGCAGATCAAAGACACTAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGTTAAAAA
1 CGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAA
* *
1550972 TAGTAGATCTTGCCTTCCTGCAT
66 TAGCAGATCTTGCCTTCCTGCAC
* * *
1550995 CAACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTACAGCGGAGCAGGCTAAAAT
1 CGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAA
*
1551060 TAGCAGATATTGCCTTCCTGCAC
66 TAGCAGATCTTGCCTTCCTGCAC
* * * *
1551083 CGACAACGAAGCAGATCGAAGTCACCAGCCTTGCCTCCCTGGGTTGTAGTGGAGCAGGCTAAAAA
1 CGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAA
1551148 TAGCAGATCTTGCCTTCCTGCAC
66 TAGCAGATCTTGCCTTCCTGCAC
* * * * * * * *
1551171 CGACAGCGAATCAGATCGAAGATACCAGCCTTTCCTCCTTGGGTTGTAGCGGAGTAGGCTGAGAA
1 CGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAA
*
1551236 TAGAAGATCTTGCCTTCCTGCAC
66 TAGCAGATCTTGCCTTCCTGCAC
* * *
1551259 CGACAGCGAAACAGATCGAAGACACCAGCCTTGCCTCCTTGGGTTGCAGCGGAGCAGGTTAAAAA
1 CGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAA
* *
1551324 TAGCAGATCTTTCCTTCTTGCAC
66 TAGCAGATCTTGCCTTCCTGCAC
* * *
1551347 CGACAGCGAAGCAGATTGATGACCCCAGCC
1 CGACAGCGAAGCAGATCGAAGACACCAGCC
1551377 CTATCTCCCT
Statistics
Matches: 580, Mismatches: 66, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 580 1.00
ACGTcount: A:0.27, C:0.28, G:0.25, T:0.20
Consensus pattern (88 bp):
CGACAGCGAAGCAGATCGAAGACACCAGCCTTGCCTCCCTGGGTTGCAGCGGAGCAGGCTAAAAA
TAGCAGATCTTGCCTTCCTGCAC
Found at i:1551439 original size:44 final size:44
Alignment explanation
Indices: 1551376--1551730 Score: 436
Period size: 44 Copynumber: 8.2 Consensus size: 44
1551366 TGACCCCAGC
* *
1551376 CCTATCTCCCTGGTCAACAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *** * * * * *
1551420 CCTATCTGCCTAAACAACAGTGAAATATGTTAAAGACTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
*
1551464 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* *
1551508 TCTATCTCCCTGGGCAGCAGTGGAATAGGTTG-A-A----GAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * *
1551546 CCTATCTCTCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
*
1551590 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAAT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
* * * *
1551634 TCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGT-AGGT
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGA-AT
* *
1551678 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATCGTGAAC
1 CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
1551722 CCTATCTCC
1 CCTATCTCC
1551731 TTGAGCAGCA
Statistics
Matches: 265, Mismatches: 38, Indels: 16
0.83 0.12 0.05
Matches are distributed among these distances:
38 32 0.12
39 1 0.00
40 1 0.00
42 1 0.00
43 2 0.01
44 227 0.86
45 1 0.00
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (44 bp):
CCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGTGAAT
Found at i:1551608 original size:126 final size:128
Alignment explanation
Indices: 1551377--1551730 Score: 460
Period size: 126 Copynumber: 2.7 Consensus size: 128
1551367 GACCCCAGCC
* * * * * * ** *
1551377 CTATCTCCCTGGTCAACAGTGGAATAGGTTAAAGATTGTGAATCCTATCTGCCTAAACAACAGTG
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA---T-AGTCCTATCTCCCTGGACAGCAGTG
* * *
1551442 AAATATGTTAAAGACTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAA
62 GAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAA
1551507 TT
127 TT
* *
1551509 CTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGA-A-TCCTATCTCTCTGGACAGCAGTGGAAT
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATAGTCCTATCTCCCTGGACAGCAGTGGAAT
1551572 AGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATT
66 AGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATT
*
1551635 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTAGGTCCTATCTCCCTGGTCAGCAGTG
1 CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGA---TA-GTCCTATCTCCCTGGACAGCAGTG
* * *
1551700 GAATAGGTTGAAGATCGTGAACCCTATCTCC
62 GAATAGGTTAAAGATTGTGAATCCTATCTCC
1551731 TTGAGCAGCA
Statistics
Matches: 199, Mismatches: 17, Indels: 12
0.87 0.07 0.05
Matches are distributed among these distances:
126 116 0.58
127 1 0.01
130 1 0.01
132 81 0.41
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.28
Consensus pattern (128 bp):
CTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATAGTCCTATCTCCCTGGACAGCAGTGGAAT
AGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTGAGAATT
Found at i:1551658 original size:170 final size:170
Alignment explanation
Indices: 1551376--1551713 Score: 489
Period size: 170 Copynumber: 2.0 Consensus size: 170
1551366 TGACCCCAGC
* *
1551376 CCTATCTCCCTGGTCAACAGTGGAATAGGTTAAAGATTGTGAATCCTATCTGCCTAAACAACAGT
1 CCTATCTCCCTGGACAACAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAAACAACAGT
* * * *
1551441 GAAATATGTTAAAGACTGTGAATCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGATTG-AG
66 GAAATAGGTTAAAGACTGAGAATCCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTAG
*
1551505 AATTCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGAAT
131 -ATCCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGAAT
* * *** *
1551546 CCTATCTCTCTGGACAGCAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTGGTCAGCAGT
1 CCTATCTCCCTGGACAACAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAAACAACAGT
* * * *
1551611 GGAATAGGTTGAAGATTGAGAATTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTAG
66 GAAATAGGTTAAAGACTGAGAATCCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTAG
* *
1551676 GTCCTATCTCCCTGGTCAGCAGTGGAATAGGTTGAAGA
131 ATCCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGA
1551714 TCGTGAACCC
Statistics
Matches: 148, Mismatches: 19, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
170 146 0.99
171 2 0.01
ACGTcount: A:0.29, C:0.18, G:0.25, T:0.28
Consensus pattern (170 bp):
CCTATCTCCCTGGACAACAGTGGAATAGGTTAAAGATTGTGAATCCTATCTCCCTAAACAACAGT
GAAATAGGTTAAAGACTGAGAATCCTATCTCCCTGGGCAGCAGTGGAATAGATTGAAGATTGTAG
ATCCTATCTCCCTGGGCAGCAGTGGAATAGGTTGAAGAAT
Found at i:1552149 original size:44 final size:44
Alignment explanation
Indices: 1552056--1552377 Score: 123
Period size: 44 Copynumber: 7.4 Consensus size: 44
1552046 GATGACAAAT
* * *
1552056 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATC
1 TTATCTCCCTGAAGTTGCAGTGAAGGAGATTAAAACCGATAATC
* * *
1552100 CTATCTCCCTGAAGTTGCAGTGAAGCGA-ATTAAAACC-TTGGATC
1 TTATCTCCCTGAAGTTGCAGTGAAG-GAGATTAAAACCGAT-AATC
* * * ** * * *
1552144 TTATCTCTCTGAAGTTGCAG-AAAGCAGATT-GCATC--TAGTT
1 TTATCTCCCTGAAGTTGCAGTGAAGGAGATTAAAACCGATAATC
* * * * * *
1552184 TTATCTCCCTGAAGTTACAGTGGAGCAGAGTAAGTAATC-A-AGTC
1 TTATCTCCCTGAAGTTGCAGTGAAGGAGATTAA--AACCGATAATC
* * * *
1552228 TTATC-CTCCTAAAGTTGCAATG-AGGCAGACTGAAGATAGCG--AATC
1 TTATCTC-CCTGAAGTTGCAGTGAAGG-AGA-TTAA-A-ACCGATAATC
* * * *
1552273 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATC
1 TTATCTCCCTGAAGTTGCAGTGAAGGAGATTAAAACCGATAATC
* * * * * *
1552317 CTATCTCTCTGAGGTTGCAGTGGAGCG-GATTAAAATC-ACAGATC
1 TTATCTCCCTGAAGTTGCAGTGAAG-GAGATTAAAACCGATA-ATC
**
1552361 TTATCTCTTTGAAGTTG
1 TTATCTCCCTGAAGTTG
1552378 TAGTAGAGTA
Statistics
Matches: 209, Mismatches: 50, Indels: 38
0.70 0.17 0.13
Matches are distributed among these distances:
40 19 0.09
41 8 0.04
42 4 0.02
43 13 0.06
44 133 0.64
45 29 0.14
46 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGAAGGAGATTAAAACCGATAATC
Found at i:1552301 original size:45 final size:42
Alignment explanation
Indices: 1552184--1552469 Score: 147
Period size: 44 Copynumber: 6.5 Consensus size: 42
1552174 GCATCTAGTT
*
1552184 TTATCTCCCTGAAGTTACAGTGGAGCAGAGT-AAG-TAATCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAGAT-A-CAA-TC
* * *
1552228 TTATC-CTCCTAAAGTTGCAAT-GAGGCAGACTGAAGATAGCGAATC
1 TTATCTC-CCTGAAGTTGCAGTGGA-GCAGA-TCAAGATA-C-AATC
* *
1552273 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCA-ATAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAG--ATACAATC
* * * * * *
1552317 CTATCTCTCTGAGGTTGCAGTGGAGCGGATTAAAATCACAGATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGAT-ACA-ATC
** * * * * **
1552361 TTATCTCTTTGAAGTTGTAGTAGAGTAGATCACA-TTA-GGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATCA-AGATACAATC
*
1552402 TTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAAGTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGA-TCAAGATA-CAA-TC
*
1552447 TTATC-CCTCTGAAATTGCAGTGG
1 TTATCTCC-CTGAAGTTGCAGTGG
1552470 GGCATACTAA
Statistics
Matches: 185, Mismatches: 38, Indels: 37
0.71 0.15 0.14
Matches are distributed among these distances:
41 28 0.15
42 4 0.02
43 9 0.05
44 81 0.44
45 55 0.30
46 7 0.04
47 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (42 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATCAAGATACAATC
Found at i:1552305 original size:217 final size:219
Alignment explanation
Indices: 1552056--1552452 Score: 584
Period size: 217 Copynumber: 1.8 Consensus size: 219
1552046 GATGACAAAT
* *
1552056 TTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGT
*** ** *
1552121 GAAGCGAATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAG-AAAGCAGATTGCATCTA-GTT
66 GAAGCGAATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATCACAT-TAGGTC
* *
1552184 TTATCTCCCTGAAGTTACAGTGGAGCAGAGT-AAGTAATCAAGTCTTATCCTCCTAAAGTTGCAA
130 TTATCTCCCTGAAGTTACAGTGGAGCAGACTCAAGAAATCAAGTCTTATCCTCCTAAAGTTGCAA
1552248 TGAGGCAGACTGAAGATAGCGAATC
195 TGAGGCAGACTGAAGATAGCGAATC
* *
1552273 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCTCTGAGGTTGCAGT
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGT
* * * * * * *
1552338 GGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGTAGTAGAGTAGATCACATTAGGTCT
66 GAAGCGAATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATCACATTAGGTCT
*
1552403 TATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAAGTCTTATCC
131 TATCTCCCTGAAGTTACAGTGGAGCAGACTCAAGAAATCAAGTCTTATCC
1552453 CTCTGAAATT
Statistics
Matches: 157, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
217 98 0.62
218 41 0.26
219 18 0.11
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (219 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCCCTGAAGTTGCAGT
GAAGCGAATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGTAAAGCAGATCACATTAGGTCT
TATCTCCCTGAAGTTACAGTGGAGCAGACTCAAGAAATCAAGTCTTATCCTCCTAAAGTTGCAAT
GAGGCAGACTGAAGATAGCGAATC
Found at i:1552505 original size:129 final size:129
Alignment explanation
Indices: 1552271--1552515 Score: 280
Period size: 129 Copynumber: 1.9 Consensus size: 129
1552261 AGATAGCGAA
* * * **
1552271 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCTCTCTGAGGTTGCA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCAAATAATCCTATCCCTCTGAAATTGCA
* * * * * **
1552336 GTGGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGTAGTAGAGTAGATCACATTAGG
66 GTGGAGCAGACTAAAATAACAAATCCTATCTCCCTGAAGTTGTAGTAGAGTAGATCACATTAGG
* *
1552400 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAG-AAATCAAGTCTTATCCCTCTGAAATTG
1 TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCAAAT-AA-TCCTATCCCTCTGAAATTG
* * * *
1552464 CAGTGGGGCATACT-AAATAAACAAATCCTGTCTCCCT-AAGTTGTAGTGGAGT
64 CAGTGGAGCAGACTAAAAT-AACAAATCCTATCTCCCTGAAGTTGTAGTAGAGT
1552516 GGATTAGAGT
Statistics
Matches: 95, Mismatches: 18, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
128 3 0.03
129 55 0.58
130 37 0.39
ACGTcount: A:0.29, C:0.20, G:0.22, T:0.30
Consensus pattern (129 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGCAAATAATCCTATCCCTCTGAAATTGCA
GTGGAGCAGACTAAAATAACAAATCCTATCTCCCTGAAGTTGTAGTAGAGTAGATCACATTAGG
Found at i:1552514 original size:217 final size:217
Alignment explanation
Indices: 1552042--1552514 Score: 573
Period size: 217 Copynumber: 2.2 Consensus size: 217
1552032 TTCCTAACAT
* * * *
1552042 TGAAGATGACAAAT-TTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCT
1 TGAAGATAACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCT
***
1552106 CCCTGAAGTTGCAGTGAAGCGAATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAAAGCAG
66 CCCTGAAGTTGCAGTGAAGCGAATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGAAAGCAG
** * * *
1552171 ATTGCATCTAGTTTTATCTCCCTGAAGTTACAGTGGAGCAGAGTAAGTAATCAAGTCTTATCCTC
131 ATCACATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGAAATCAAGTCTTATCCTC
1552236 CTAAAGTTGCAATGAGGCAGAC
196 CTAAAGTTGCAATGAGGCAGAC
* * *
1552258 TGAAGATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCT
1 TGAAGATAACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCT
* * * * * * * * *
1552323 CTCTGAGGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGTAGTAGAGTA
66 CCCTGAAGTTGCAGTGAAGCGAATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAG-AAAGCA
*
1552388 GATCACAT-TAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAAGTCTTATC
130 GATCACATCTA-GTCTTATCTCCCTGAAGTTACAGTGGAGCAGACT-AAGAAATCAAGTCTTATC
* * *
1552452 C-CTCTGAAA-TTGCAGTGGGGCATAC
193 CTC-CT-AAAGTTGCAATGAGGCAGAC
* *
1552477 T-AA-ATAAACAAATCCTGTCTCCCT-AAGTTGTAGTGGAG
1 TGAAGAT-AACAAATCCTATCTCCCTGAAGTTGCAGTGGAG
1552515 TGGATTAGAG
Statistics
Matches: 219, Mismatches: 31, Indels: 13
0.83 0.12 0.05
Matches are distributed among these distances:
216 11 0.05
217 113 0.52
218 58 0.26
219 34 0.16
220 3 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (217 bp):
TGAAGATAACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCT
CCCTGAAGTTGCAGTGAAGCGAATTAAAACCACAGATCTTATCTCTCTGAAGTTGCAGAAAGCAG
ATCACATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGAAATCAAGTCTTATCCTC
CTAAAGTTGCAATGAGGCAGAC
Found at i:1552567 original size:217 final size:217
Alignment explanation
Indices: 1552042--1552568 Score: 530
Period size: 217 Copynumber: 2.4 Consensus size: 217
1552032 TTCCTAACAT
* * * * *
1552042 TGAAGATGACAAAT-TTATCTCCCTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCT
1 TGAAGATAACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAGAATCCTATCT
* * * * ***
1552106 CCCTGAAGTTGCAGTGAAGC-GAATTAAAACCTTGGATCTTATCTCTCTGAAGTTGCAGAAAGCA
66 CTCTGAAATTACAGTGAAGCAG-ATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAAAGCA
** * * *
1552170 GATTGCATCTAGTTTTATCTCCCTGAAGTTACAGTGGAGCAGAGTAAGTAATCAAGTCTTATCCT
130 GATCACATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGAAATCAAGTCTTATCCT
1552235 CCTAAAGTTGCAATGAGGCAGAC
195 CCTAAAGTTGCAATGAGGCAGAC
* * * *
1552258 TGAAGATAGCGAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAATAATCCTATCT
1 TGAAGATAACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAGAATCCTATCT
** * * * * * * *
1552323 CTCTGAGGTTGCAGTGGAGCGGATTAAAATCACAGATCTTATCTCTTTGAAGTTGTAGTAGAGTA
66 CTCTGAAATTACAGTGAAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAG-AAAGCA
*
1552388 GATCACAT-TAGGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTCAAGAAATCAAGTCTTATC
130 GATCACATCTA-GTCTTATCTCCCTGAAGTTACAGTGGAGCAGACT-AAGAAATCAAGTCTTATC
* * *
1552452 C-CTCTGAAA-TTGCAGTGGGGCATAC
193 CTC-CT-AAAGTTGCAATGAGGCAGAC
* * ** * ** * **
1552477 T-AA-ATAAACAAATCCTGTCTCCCT-AAGTTGTAGTGGAGTGGATTAGAGTGAAGGATTTTATC
1 TGAAGAT-AACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAGAATCCTATC
*
1552539 TCTCTGAAATTACAGTTAAGCAGATTAAAA
65 TCTCTGAAATTACAGTGAAGCAGATTAAAA
1552569 GTTACGAGTC
Statistics
Matches: 258, Mismatches: 45, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
216 11 0.04
217 151 0.59
218 59 0.23
219 34 0.13
220 3 0.01
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (217 bp):
TGAAGATAACAAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCCAAGAATCCTATCT
CTCTGAAATTACAGTGAAGCAGATTAAAATCACAGATCTTATCTCTCTGAAGTTGCAGAAAGCAG
ATCACATCTAGTCTTATCTCCCTGAAGTTACAGTGGAGCAGACTAAGAAATCAAGTCTTATCCTC
CTAAAGTTGCAATGAGGCAGAC
Found at i:1552850 original size:21 final size:21
Alignment explanation
Indices: 1552825--1552868 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
1552815 ATCTTCGAGG
1552825 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
1552846 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
1552867 AT
1 AT
1552869 GTAATCTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.14, T:0.39
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:1552874 original size:19 final size:19
Alignment explanation
Indices: 1552824--1552879 Score: 85
Period size: 21 Copynumber: 2.8 Consensus size: 19
1552814 AATCTTCGAG
1552824 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
1552843 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
*
1552864 GATATGTAATCTTAGA
1 GATATGCAATCTTAGA
1552880 AGATATGATT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
19 15 0.44
21 19 0.56
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:1552886 original size:22 final size:23
Alignment explanation
Indices: 1552837--1552902 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
1552827 ATGCAATCTT
*
1552837 AGATATGATATATGCAATCTT---
1 AGATATGAT-TATGTAATCTTAGA
1552858 AGATATGA-TATGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
*
1552880 AGATATGATTTTGTAATCTTAGA
1 AGATATGATTATGTAATCTTAGA
1552903 GATTTAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
19 10 0.26
21 8 0.21
22 8 0.21
23 13 0.33
ACGTcount: A:0.38, C:0.06, G:0.17, T:0.39
Consensus pattern (23 bp):
AGATATGATTATGTAATCTTAGA
Found at i:1552915 original size:21 final size:23
Alignment explanation
Indices: 1552858--1552916 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
1552848 ATGCAATCTT
*
1552858 AGATATG-ATATGTAATCTTAGA
1 AGATATGAATTTGTAATCTTAGA
*
1552880 AGATATGATTTTGTAATCTTAG-
1 AGATATGAATTTGTAATCTTAGA
*
1552902 AGAT-TTAATTTGTAA
1 AGATATGAATTTGTAA
1552917 ATACCCTTTA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 9 0.28
22 11 0.34
23 12 0.38
ACGTcount: A:0.37, C:0.03, G:0.17, T:0.42
Consensus pattern (23 bp):
AGATATGAATTTGTAATCTTAGA
Found at i:1553106 original size:20 final size:21
Alignment explanation
Indices: 1553081--1553120 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
1553071 GTTTTCTTTT
* *
1553081 TTTTTTCCTT-TTTTCGATTA
1 TTTTTTACTTATTTACGATTA
1553101 TTTTTTACTTATTTACGATT
1 TTTTTTACTTATTTACGATT
1553121 TTAAAAAAGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.15, C:0.12, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTTTACTTATTTACGATTA
Found at i:1553349 original size:3 final size:3
Alignment explanation
Indices: 1553341--1553374 Score: 52
Period size: 3 Copynumber: 11.3 Consensus size: 3
1553331 ATTGATTTTG
1553341 TTA TTA TTA TTA TTA TTA -TA TTA TATA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA T
1553375 ACCTACATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 24 0.83
4 3 0.10
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:1553357 original size:24 final size:23
Alignment explanation
Indices: 1553325--1553374 Score: 57
Period size: 24 Copynumber: 2.1 Consensus size: 23
1553315 GTTTTTAGTC
* *
1553325 TATTTTATTGATTTTGT-TATTAT
1 TATTTTATT-ATATTATATATTAT
1553348 TATTATTATTATATTATATATTAT
1 TATT-TTATTATATTATATATTAT
1553372 TAT
1 TAT
1553375 ACCTACATAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 9 0.39
24 14 0.61
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (23 bp):
TATTTTATTATATTATATATTAT
Done.