Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D03
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: 53248092
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1300000 characters in sequence are not A, C, G, or T
File 121 of 175
Found at i:37941194 original size:88 final size:88
Alignment explanation
Indices: 37941098--37941934 Score: 943
Period size: 88 Copynumber: 9.6 Consensus size: 88
37941088 GGACTTGTAA
* * * * * * *
37941098 TCTTCGATCTGCTTCACTGTTGATGCAGGAAGGCAAGATCTACTATCTTCAACTTGCTACACTGT
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
* *
37941163 GACCGAGGGAGGCAAGGCTCGTG
66 AACCGAGGGAGGCAAGGCTGGTG
* * * **
37941186 TCTTCGATCTGCTTCGCTGTC-AGTGTAGGAAGGCAAGATCTGCTATTTTTAACCTTCTCTGCTG
1 TCTTCGATCTGCTTCGCTGTCGA-TGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTG
37941250 CAACAC-AGGGAGGCAAGGCTGGTG
65 CAAC-CGAGGGAGGCAAGGCTGGTG
* * * * *
37941274 TCTTCGATCTGCTTCGCTGTCGGTGCATGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
* * *
37941339 AACCTAGGGAGACAAGGTTGGTG
66 AACCGAGGGAGGCAAGGCTGGTG
* * * * *
37941362 TCTTTGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
*
37941427 AACCCAGGGAGGCAAGGCTGGTG
66 AACCGAGGGAGGCAAGGCTGGTG
* * * * * *
37941450 TCTTCGATTTGCTTCGCTGTCGGTGCAGGAA-GCAAGATGTGCTATTTTTAACCTGCTCCGCTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
* **
37941514 AACCCAATGAGGCAAGGCTGGTG
66 AACCGAGGGAGGCAAGGCTGGTG
* * * *
37941537 TCTTCGATCTACTTCGCTGTCTATGCAGGAAGGCAATATCTGCTATCTTTAACCTGCTCCACTGT
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
* * * **
37941602 AACCTATGGAGGTAAGATTAGG-G
66 AACCGAGGGAGGCAAGGCT-GGTG
* * * *
37941625 TCTTCGATCTGCTTCGCTGTCTATGTAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCGCTGC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
* *
37941690 AACCGATGGAGGCAAGGCT-TTG
66 AACCGAGGGAGGCAAGGCTGGTG
* * * * *
37941712 TTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTACTATCTTTAACTTGCTCCACTAC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
* * *
37941777 AACTGATGGAGGCAAGGCT-TTG
66 AACCGAGGGAGGCAAGGCTGGTG
* * * * * * * *
37941799 TTTTTGATCTGCTTCGCTGTCAATACAAGAAGGCAAGATCTGTTATCTTTAACCCGCTCTACTGC
1 TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
* *
37941864 AACCGATGGAGGCAAGGCT-TTG
66 AACCGAGGGAGGCAAGGCTGGTG
*
37941886 -CTTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTT
1 TC-TTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTT
37941935 CACTGATCTG
Statistics
Matches: 652, Mismatches: 89, Indels: 17
0.86 0.12 0.02
Matches are distributed among these distances:
87 278 0.43
88 371 0.57
89 3 0.00
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.30
Consensus pattern (88 bp):
TCTTCGATCTGCTTCGCTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
AACCGAGGGAGGCAAGGCTGGTG
Found at i:37941442 original size:44 final size:44
Alignment explanation
Indices: 37941304--37941442 Score: 118
Period size: 44 Copynumber: 3.2 Consensus size: 44
37941294 CGGTGCATGA
*
37941304 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCTAGGG
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGG
* * * * * * * * * **** *
37941348 AGACAAGGT-TGGTGTCTTTGATCTGCTTCGCTGTCGGTACAGGA
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCT-ACAACCCAGGG
*
37941392 AGGCAAGATCTGCTATTTTTAACCTGCTCCACTACAACCCAGGG
1 AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGG
37941436 AGGCAAG
1 AGGCAAG
37941443 GCTGGTGTCT
Statistics
Matches: 63, Mismatches: 30, Indels: 4
0.65 0.31 0.04
Matches are distributed among these distances:
43 17 0.27
44 30 0.48
45 16 0.25
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.27
Consensus pattern (44 bp):
AGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCCAGGG
Found at i:37941571 original size:263 final size:263
Alignment explanation
Indices: 37941098--37941934 Score: 1013
Period size: 263 Copynumber: 3.2 Consensus size: 263
37941088 GGACTTGTAA
* * * * * *
37941098 TCTTCGATCTGCTTCACTGTTGATGCAGGAAGGCAAGATCTACTATCTTCAACTTGCTACACTGT
1 TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
* *
37941163 GACCGAGGGAGGCAAGGCTCGTGTCTTCGATCTGCTTCGCTGTCAGTGTAGGAAGGCAAGATCTG
66 AACCGAGGGAGGCAAGGCT-GTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTG
* * * * **
37941228 CTATTTTTAACCTTCTCTGCTGCAACACAGGGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
130 CTATTTTTAACCTGCTCCGCTACAACCCAATGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
** * * * * * *
37941293 TCGGTGCATGAAGGCAAGATCTGCTATTTTTAACCTGCTCCGCTACAACCTAGGGAGACAAGGTT
195 TCAATGCAAGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCTATGGAGGCAAGGTT
37941358 GGTG
260 GGTG
* * * * * *
37941362 TCTTTGATCTGCTTCGCTGTCGGTACAGGAAGGCAAGATCTGCTATTTTTAACCTGCTCCACTAC
1 TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
* * * *
37941427 AACCCAGGGAGGCAAGGCTGGTGTCTTCGATTTGCTTCGCTGTCGGTGCAGGAA-GCAAGATGTG
66 AACCGAGGGAGGCAAGGCT-GTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTG
*
37941491 CTATTTTTAACCTGCTCCGCTACAACCCAATGAGGCAAGGCTGGTGTCTTCGATCTACTTCGCTG
130 CTATTTTTAACCTGCTCCGCTACAACCCAATGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
* * * * * *
37941556 TCTATGCAGGAAGGCAATATCTGCTATCTTTAACCTGCTCCACTGTAACCTATGGAGGTAAGATT
195 TCAATGCAAGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCTATGGAGGCAAGGTT
37941621 AGG-G
260 -GGTG
* * * * *
37941625 TCTTCGATCTGCTTCGCTGTCTATGTAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCGCTGC
1 TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
* * * * *
37941690 AACCGATGGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTAC
66 AACCGAGGGAGGCAAGGCTGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGC
* * * ** * * *
37941755 TATCTTTAACTTGCTCCACTACAA-CTGATGGAGGCAAGGCT-TTGTTTTTGATCTGCTTCGCTG
131 TATTTTTAACCTGCTCCGCTACAACCCAAT-GAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTG
* * * * *
37941818 TCAATACAAGAAGGCAAGATCTGTTATCTTTAACCCGCTCTACTGCAACCGATGGAGGCAAGGCT
195 TCAATGCAAGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCTATGGAGGCAAGG-T
37941883 T--TG
259 TGGTG
37941886 -CTTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTT
1 TC-TTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTT
37941935 CACTGATCTG
Statistics
Matches: 488, Mismatches: 79, Indels: 15
0.84 0.14 0.03
Matches are distributed among these distances:
260 1 0.00
261 45 0.09
262 102 0.21
263 237 0.49
264 103 0.21
ACGTcount: A:0.22, C:0.24, G:0.25, T:0.30
Consensus pattern (263 bp):
TCTTCGATCTGCTTCACTGTCGATGCAGGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGC
AACCGAGGGAGGCAAGGCTGTGTCTTCGATCTGCTTCGCTGTCAGTGCAGGAAGGCAAGATCTGC
TATTTTTAACCTGCTCCGCTACAACCCAATGAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGT
CAATGCAAGAAGGCAAGATCTGCTATCTTTAACCTGCTCCACTGCAACCTATGGAGGCAAGGTTG
GTG
Found at i:37943126 original size:6 final size:6
Alignment explanation
Indices: 37943117--37943152 Score: 54
Period size: 6 Copynumber: 5.7 Consensus size: 6
37943107 CATTTTTACT
37943117 TTTTCA TTTTCA TTTTTCA TTTTCA TTTTTCA TTTT
1 TTTTCA TTTTCA -TTTTCA TTTTCA -TTTTCA TTTT
37943153 TCACCTTTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
6 16 0.57
7 12 0.43
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.72
Consensus pattern (6 bp):
TTTTCA
Found at i:37943126 original size:7 final size:7
Alignment explanation
Indices: 37943107--37943155 Score: 68
Period size: 7 Copynumber: 7.3 Consensus size: 7
37943097 TTAGCCTCTC
37943107 CATTTTT
1 CATTTTT
37943114 -ACTTTTT
1 CA-TTTTT
37943121 CA-TTTT
1 CATTTTT
37943127 CATTTTT
1 CATTTTT
37943134 CA-TTTT
1 CATTTTT
37943140 CATTTTT
1 CATTTTT
37943147 CATTTTT
1 CATTTTT
37943154 CA
1 CA
37943156 CCTTTTTTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 8
0.83 0.00 0.17
Matches are distributed among these distances:
6 13 0.34
7 24 0.63
8 1 0.03
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (7 bp):
CATTTTT
Found at i:37943132 original size:13 final size:13
Alignment explanation
Indices: 37943116--37943152 Score: 74
Period size: 13 Copynumber: 2.8 Consensus size: 13
37943106 CCATTTTTAC
37943116 TTTTTCATTTTCA
1 TTTTTCATTTTCA
37943129 TTTTTCATTTTCA
1 TTTTTCATTTTCA
37943142 TTTTTCATTTT
1 TTTTTCATTTT
37943153 TCACCTTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.14, C:0.14, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTTTCATTTTCA
Found at i:37943154 original size:20 final size:19
Alignment explanation
Indices: 37943107--37943155 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
37943097 TTAGCCTCTC
*
37943107 CATTTTTACTTTTTCATTTT
1 CATTTTT-CATTTTCATTTT
37943127 CATTTTTCATTTTCATTTTT
1 CATTTTTCATTTTCA-TTTT
37943147 CATTTTTCA
1 CATTTTTCA
37943156 CCTTTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 7 0.26
20 20 0.74
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.67
Consensus pattern (19 bp):
CATTTTTCATTTTCATTTT
Found at i:37944009 original size:14 final size:14
Alignment explanation
Indices: 37943990--37944034 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
37943980 TCTCCTTTTC
37943990 TTTTTCTTTTCTTT
1 TTTTTCTTTTCTTT
* *
37944004 TTTTTCTTCTCTCT
1 TTTTTCTTTTCTTT
37944018 TTTTTCATTTTCATTT
1 TTTTTC-TTTTC-TTT
37944034 T
1 T
37944035 GACATTGATT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
14 18 0.72
15 4 0.16
16 3 0.12
ACGTcount: A:0.04, C:0.18, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTCTTTTCTTT
Found at i:37949601 original size:64 final size:64
Alignment explanation
Indices: 37949497--37949624 Score: 247
Period size: 64 Copynumber: 2.0 Consensus size: 64
37949487 AATTGAAGTC
37949497 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGCGCAAGCATCACAATCCATCACAAAACGA
1 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGCGCAAGCATCACAATCCATCACAAAACGA
*
37949561 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGTGCAAGCATCACAATCCATCACAAAACGA
1 TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGCGCAAGCATCACAATCCATCACAAAACGA
37949625 CAGCGTTCAA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 63 1.00
ACGTcount: A:0.41, C:0.23, G:0.16, T:0.21
Consensus pattern (64 bp):
TATTTCAAAACTGAGGGGTTAATCCAGCAATTAAGCGCAAGCATCACAATCCATCACAAAACGA
Found at i:37951105 original size:13 final size:13
Alignment explanation
Indices: 37951089--37951113 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
37951079 CATTAACGAA
37951089 AATAAATAACATT
1 AATAAATAACATT
37951102 AATAAATAACAT
1 AATAAATAACAT
37951114 GCATCCTAAG
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:0.64, C:0.08, G:0.00, T:0.28
Consensus pattern (13 bp):
AATAAATAACATT
Found at i:37952223 original size:30 final size:29
Alignment explanation
Indices: 37952189--37952263 Score: 91
Period size: 28 Copynumber: 2.6 Consensus size: 29
37952179 TGGGAAAAAG
37952189 GTGGCAGAACTGTAAAAATTTGGAAAA-CTA
1 GTGGCAGAACTGTAAAAATTT-GAAAAGC-A
* *
37952219 GTGGCAAAATTGT-AAAATTTGAAAAGCA
1 GTGGCAGAACTGTAAAAATTTGAAAAGCA
*
37952247 GTGGCAGGACTGTAAAA
1 GTGGCAGAACTGTAAAA
37952264 TTATTAAAAC
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
28 16 0.42
29 11 0.29
30 11 0.29
ACGTcount: A:0.43, C:0.09, G:0.25, T:0.23
Consensus pattern (29 bp):
GTGGCAGAACTGTAAAAATTTGAAAAGCA
Found at i:37952251 original size:28 final size:27
Alignment explanation
Indices: 37952153--37952278 Score: 101
Period size: 29 Copynumber: 4.4 Consensus size: 27
37952143 AAAATCTAGA
* * *
37952153 AAAATCAGTGGCAAAACTATAAAATATGGG
1 AAAA-CAGTGGCAGAACTGTAAAAT-T-TG
37952183 AAAA-AGGTGGCAGAACTGTAAAAATTTGG
1 AAAACA-GTGGCAGAACTGT-AAAATTT-G
* *
37952212 AAAACTAGTGGCAAAATTGTAAAATTTG
1 AAAAC-AGTGGCAGAACTGTAAAATTTG
* *
37952240 AAAAGCAGTGGCAGGACTGTAAAATTATT
1 AAAA-CAGTGGCAGAACTGTAAAATT-TG
37952269 AAAACAGTGG
1 AAAACAGTGG
37952279 TGCATTGTCA
Statistics
Matches: 80, Mismatches: 9, Indels: 16
0.76 0.09 0.15
Matches are distributed among these distances:
28 29 0.36
29 30 0.38
30 20 0.25
31 1 0.01
ACGTcount: A:0.46, C:0.09, G:0.23, T:0.22
Consensus pattern (27 bp):
AAAACAGTGGCAGAACTGTAAAATTTG
Found at i:37952652 original size:5 final size:5
Alignment explanation
Indices: 37952644--37952670 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
37952634 AAAGATAAGA
37952644 TTATT TTATT TTATT TTATT TTATT TT
1 TTATT TTATT TTATT TTATT TTATT TT
37952671 GGGATATTAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTATT
Found at i:37959728 original size:23 final size:23
Alignment explanation
Indices: 37959701--37959799 Score: 110
Period size: 23 Copynumber: 4.3 Consensus size: 23
37959691 ATAAGTGCCA
37959701 CACTGATATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCAAAGCTAC
*
37959724 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCAAAGCTAC
* * **
37959747 CATTG-TAATGTAGTCGTAGCTAC
1 CACTGAT-ATGTAGCCAAAGCTAC
* * *
37959770 CACTAAAATGTAGCCAAAGTTAC
1 CACTGATATGTAGCCAAAGCTAC
37959793 CACTGAT
1 CACTGAT
37959800 CAATAACACT
Statistics
Matches: 61, Mismatches: 13, Indels: 4
0.78 0.17 0.05
Matches are distributed among these distances:
22 1 0.02
23 60 0.98
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCAAAGCTAC
Found at i:37964432 original size:25 final size:25
Alignment explanation
Indices: 37964404--37964469 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
37964394 TATCTTTGAC
* *
37964404 AGTATATCCTAAAACTGCTATAGGT
1 AGTATATACTAAAACTACTATAGGT
* *
37964429 AGTATATACTAAGACTACTATAGAT
1 AGTATATACTAAAACTACTATAGGT
37964454 AG-ACTATACTGAAAAC
1 AGTA-TATACT-AAAAC
37964470 ACTTAAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
24 1 0.03
25 29 0.85
26 4 0.12
ACGTcount: A:0.42, C:0.15, G:0.14, T:0.29
Consensus pattern (25 bp):
AGTATATACTAAAACTACTATAGGT
Found at i:37970863 original size:14 final size:15
Alignment explanation
Indices: 37970829--37970857 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
37970819 AAATAACACA
37970829 ATCATTCATCATAAT
1 ATCATTCATCATAAT
37970844 ATCATTCA-CATAAT
1 ATCATTCATCATAAT
37970858 CACATTGTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 6 0.43
15 8 0.57
ACGTcount: A:0.41, C:0.21, G:0.00, T:0.38
Consensus pattern (15 bp):
ATCATTCATCATAAT
Found at i:37974859 original size:12 final size:12
Alignment explanation
Indices: 37974842--37974879 Score: 67
Period size: 12 Copynumber: 3.2 Consensus size: 12
37974832 GCAGTTACAT
37974842 GGCCTAGCACAC
1 GGCCTAGCACAC
37974854 GGCCTAGCACAC
1 GGCCTAGCACAC
*
37974866 GGCCTGGCACAC
1 GGCCTAGCACAC
37974878 GG
1 GG
37974880 GCATGTGGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.21, C:0.39, G:0.32, T:0.08
Consensus pattern (12 bp):
GGCCTAGCACAC
Found at i:37978449 original size:25 final size:24
Alignment explanation
Indices: 37978390--37978525 Score: 123
Period size: 24 Copynumber: 5.6 Consensus size: 24
37978380 ATTCATGTAT
* *
37978390 GCTCATACGAGCTGTAAA-CAGTAA
1 GCTCATACGAGCTG-AAATCGGGAA
* * *
37978414 GCTCTTCCGAGCTGAATAACGGGAA
1 GCTCATACGAGCTGAA-ATCGGGAA
* * *
37978439 GCTCATGCGAGCTAAATATTGGGAA
1 GCTCATACGAGCTGAA-ATCGGGAA
*
37978464 GCTCATAAGAGCTGAAATCGGGAA
1 GCTCATACGAGCTGAAATCGGGAA
* *
37978488 GCTCATGA-GACCTGAAATCAGGAA
1 GCTCAT-ACGAGCTGAAATCGGGAA
37978512 GCTCATACGAGCTG
1 GCTCATACGAGCTG
37978526 TGGTGTGTCC
Statistics
Matches: 92, Mismatches: 16, Indels: 8
0.79 0.14 0.07
Matches are distributed among these distances:
23 3 0.03
24 51 0.55
25 38 0.41
ACGTcount: A:0.33, C:0.21, G:0.26, T:0.20
Consensus pattern (24 bp):
GCTCATACGAGCTGAAATCGGGAA
Found at i:37978524 original size:48 final size:50
Alignment explanation
Indices: 37978412--37978525 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 50
37978402 TGTAAACAGT
* * * * **
37978412 AAGCTCTTCCGAGCTGAATAACGGGAAGCTCATGCGAGCTAAATATTGGG
1 AAGCTCATACGAGCTGAATAACGGGAAGCTCATGAGACCTAAATATCAGG
* * *
37978462 AAGCTCATAAGAGCTGAA-ATCGGGAAGCTCATGAGACCTGAA-ATCAGG
1 AAGCTCATACGAGCTGAATAACGGGAAGCTCATGAGACCTAAATATCAGG
37978510 AAGCTCATACGAGCTG
1 AAGCTCATACGAGCTG
37978526 TGGTGTGTCC
Statistics
Matches: 54, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
48 19 0.35
49 20 0.37
50 15 0.28
ACGTcount: A:0.33, C:0.20, G:0.27, T:0.19
Consensus pattern (50 bp):
AAGCTCATACGAGCTGAATAACGGGAAGCTCATGAGACCTAAATATCAGG
Found at i:37983262 original size:25 final size:25
Alignment explanation
Indices: 37983218--37983281 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
37983208 ATAAATTAAA
*
37983218 AAATATATAAATATT-TATAAATATC
1 AAATATA-AAATATTGAATAAATATC
* *
37983243 AAATA-AATAATATTGAATAAATTTT
1 AAATATAA-AATATTGAATAAATATC
37983268 AAATATAAAATATT
1 AAATATAAAATATT
37983282 CATCAATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
23 1 0.03
24 7 0.21
25 23 0.70
26 2 0.06
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (25 bp):
AAATATAAAATATTGAATAAATATC
Found at i:37983816 original size:23 final size:23
Alignment explanation
Indices: 37983790--37983833 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
37983780 AATTTTACAC
*
37983790 AAAATGAAAAACGACAAAGTATA
1 AAAATGAAAAACAACAAAGTATA
37983813 AAAATGAAAAACAACAAAGTA
1 AAAATGAAAAACAACAAAGTA
37983834 AATGATGGCA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.68, C:0.09, G:0.11, T:0.11
Consensus pattern (23 bp):
AAAATGAAAAACAACAAAGTATA
Found at i:37987826 original size:26 final size:26
Alignment explanation
Indices: 37987791--37987860 Score: 77
Period size: 26 Copynumber: 2.7 Consensus size: 26
37987781 TATTGTTATT
* * *
37987791 GGCAGCTTTGCTGCGATACTGTTACT
1 GGCAGCTTTGCTGCGATACTATAACG
* * * *
37987817 GGTAGTTTTGTTACGATACTATAACG
1 GGCAGCTTTGCTGCGATACTATAACG
37987843 GGCAGCTTTGCTGCGATA
1 GGCAGCTTTGCTGCGATA
37987861 TTGGTGTGTT
Statistics
Matches: 33, Mismatches: 11, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.34
Consensus pattern (26 bp):
GGCAGCTTTGCTGCGATACTATAACG
Found at i:37995401 original size:26 final size:26
Alignment explanation
Indices: 37995346--37995446 Score: 116
Period size: 26 Copynumber: 3.9 Consensus size: 26
37995336 TGGAGGAAGT
* *
37995346 ATACTGTTACTGGCAG-TTTACTGCG
1 ATACTATTACTGGCAGCTTTGCTGCG
*
37995371 ATACTGA-TATTGGCAGCTTTGCTGCG
1 ATACT-ATTACTGGCAGCTTTGCTGCG
* *
37995397 ATACTATTACTAGCAGCTTTGCTGTG
1 ATACTATTACTGGCAGCTTTGCTGCG
**
37995423 ATACTATTAAGGGCAGCTTTGCTG
1 ATACTATTACTGGCAGCTTTGCTG
37995447 TGACATTGCT
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
25 14 0.22
26 50 0.78
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.36
Consensus pattern (26 bp):
ATACTATTACTGGCAGCTTTGCTGCG
Found at i:38018559 original size:123 final size:124
Alignment explanation
Indices: 38018340--38018629 Score: 512
Period size: 123 Copynumber: 2.3 Consensus size: 124
38018330 TTATTTCGAG
*
38018340 TTGACGTTTCTG-GTCAAATAATATAAAATCGCGCCCTCGAGGATGCTAATTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAATATAAAATCGCGCCCTCGTGGATGCTAATTGAGAAGAAATTGT
38018404 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAA-TTTTT
65 GAAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
* *
38018463 TTGACGTTTCTGAGCAAATACTATAAAATCGTGCCCTCGTGGATGCTAATTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCGCCCTCGTGGATGCTAATTGAGAAGAAATTGTG
38018528 AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
66 AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
* *
38018587 TTGATGTTTCTGAGCAAATAGTATAAAATCGCGCCCTCGTGGA
1 TTGACGTTTCTGAGCAAATAATATAAAATCGCGCCCTCGTGGA
38018630 CGCGATTTTG
Statistics
Matches: 159, Mismatches: 6, Indels: 3
0.95 0.04 0.02
Matches are distributed among these distances:
123 113 0.71
124 46 0.29
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAATATAAAATCGCGCCCTCGTGGATGCTAATTGAGAAGAAATTGTG
AAATCGTGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGTAAGAAATAATTTTTT
Found at i:38020918 original size:23 final size:23
Alignment explanation
Indices: 38020888--38021055 Score: 194
Period size: 23 Copynumber: 6.9 Consensus size: 23
38020878 TAAATTTATC
38020888 AAATAAATTAGGTTAGGGTTTTT
1 AAATAAATTAGGTTAGGGTTTTT
*
38020911 AAATAAATTAGGTTATGG-TTTT
1 AAATAAATTAGGTTAGGGTTTTT
38020933 AAATAAATTAGGTTAGGGTTTTT
1 AAATAAATTAGGTTAGGGTTTTT
38020956 AAATAAATTAGGTTAGGGTTTTT
1 AAATAAATTAGGTTAGGGTTTTT
*
38020979 AATTAAATTAGGGTAGGGTTAGGGTTTTT
1 AAATAAA-T----TA-GGTTAGGGTTTTT
*
38021008 AATTAAATTAGGTTAGGGTTAGGGTTTT
1 AAATAAATTAGGTTAGGG-T----TTTT
*
38021036 AAATAAATTAGGTTAAGGTT
1 AAATAAATTAGGTTAGGGTT
38021056 AGGGTTTTTA
Statistics
Matches: 128, Mismatches: 5, Indels: 24
0.82 0.03 0.15
Matches are distributed among these distances:
22 21 0.16
23 59 0.46
24 4 0.03
27 1 0.01
28 23 0.18
29 20 0.16
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (23 bp):
AAATAAATTAGGTTAGGGTTTTT
Found at i:38020940 original size:45 final size:46
Alignment explanation
Indices: 38020888--38021055 Score: 194
Period size: 45 Copynumber: 3.4 Consensus size: 46
38020878 TAAATTTATC
*
38020888 AAATAAATTAGGTTAGGGTTTTTAAATAAATTAGGTTATGG-TTTT
1 AAATAAATTAGGTTAGGGTTTTTAAATAAATTAGGTTAGGGTTTTT
38020933 AAATAAATTAGGTTAGGGTTTTTAAATAAATTAGGTTAGGGTTTTT
1 AAATAAATTAGGTTAGGGTTTTTAAATAAATTAGGTTAGGGTTTTT
* *
38020979 AATTAAATTAGGGTAGGGTTAGGGTTTTTAATTAAATTAGGTTAGGGTTAGGGTTTT
1 AAATAAA-T----TA-GGTTAGGGTTTTTAAATAAATTAGGTTAGGG-T----TTTT
*
38021036 AAATAAATTAGGTTAAGGTT
1 AAATAAATTAGGTTAGGGTT
38021056 AGGGTTTTTA
Statistics
Matches: 106, Mismatches: 5, Indels: 18
0.82 0.04 0.14
Matches are distributed among these distances:
45 40 0.38
46 10 0.09
47 1 0.01
51 11 0.10
52 32 0.30
53 1 0.01
56 1 0.01
57 10 0.09
ACGTcount: A:0.34, C:0.00, G:0.24, T:0.42
Consensus pattern (46 bp):
AAATAAATTAGGTTAGGGTTTTTAAATAAATTAGGTTAGGGTTTTT
Found at i:38020999 original size:29 final size:29
Alignment explanation
Indices: 38020965--38021518 Score: 861
Period size: 29 Copynumber: 19.3 Consensus size: 29
38020955 TAAATAAATT
*
38020965 AGGTTAGGGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
38020994 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
* *
38021023 GGGTTAGGG-TTTTAAATAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
38021051 AGGTTAGGGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
* *
38021080 GGGTTAAGG-TTTTAATT-AATTAGGTT-
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
38021106 ATGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
* *
38021135 GGGTTAGGGTTTTTAAATAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
38021164 AGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
* * *
38021193 GGGTTAGGGTTTTTAAATAAATTAGGATA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
38021222 AGGTTAGGGTTTTTAATTAAATTAGGGTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
38021251 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
38021280 AGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
* * *
38021309 GGGTTAGGGTTTTTAAATAAATTAGGATA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
38021338 AGGTTAGGG-TTTTAATTAAATTAGGGTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
38021366 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
38021395 AGGTTAGGGTTTTTAATT-AATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
38021423 AGGTTAGGG-TTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
38021451 GGGTTAGGGTTTTTAATTAAATTAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
*
38021480 AGGTTAGGGTTTTTAATTAAATCAGGTTA
1 AGGTTAGGGTTTTTAATTAAATTAGGTTA
38021509 AGGTTAGGGT
1 AGGTTAGGGT
38021519 ATGAAATAAA
Statistics
Matches: 480, Mismatches: 38, Indels: 14
0.90 0.07 0.03
Matches are distributed among these distances:
26 6 0.01
27 24 0.05
28 105 0.22
29 345 0.72
ACGTcount: A:0.30, C:0.00, G:0.27, T:0.43
Consensus pattern (29 bp):
AGGTTAGGGTTTTTAATTAAATTAGGTTA
Found at i:38021082 original size:23 final size:24
Alignment explanation
Indices: 38020891--38021501 Score: 279
Period size: 29 Copynumber: 22.2 Consensus size: 24
38020881 ATTTATCAAA
*
38020891 TAAATTA-GGTTAGGGTTTTTAAA
1 TAAATTAGGGTTAGGGTTTTTAAT
* *
38020914 TAAATTA-GGTTATGG-TTTTAAA
1 TAAATTAGGGTTAGGGTTTTTAAT
*
38020936 TAAATTA-GGTTAGGGTTTTTAAA
1 TAAATTAGGGTTAGGGTTTTTAAT
38020959 TAAATTA-GGTTAGGGTTTTTAAT
1 TAAATTAGGGTTAGGGTTTTTAAT
38020982 TAAATTAGGGTAGGGTTAGGGTTTTTAAT
1 TAAA-T----TAGGGTTAGGGTTTTTAAT
*
38021011 TAAATTA-GGTTAGGGTTAGGGTTTTAAA
1 TAAATTAGGGTTAGGG-T----TTTTAAT
38021039 TAAATTAGGTTAAGGTTAGGGTTTTTAAT
1 TAAATTA-G----GGTTAGGGTTTTTAAT
38021068 TAAATTAGGG-TAGGGTTAAGGTTTTAAT
1 TAAATTAGGGTTAGGG-T----TTTTAAT
38021096 T-AATTAGGTTATGTTAGGGTTTTTAAT
1 TAAATTAGG----GTTAGGGTTTTTAAT
*
38021123 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
1 T-AA--A--TTAGGGTTAGGGTTTTTAAT
38021152 TAAATTAGGTTAAGGTTAGGGTTTTTAAT
1 TAAATTA-G----GGTTAGGGTTTTTAAT
*
38021181 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
1 T-AA--A--TTAGGGTTAGGGTTTTTAAT
38021210 TAAATTAGGATAAGGTTAGGGTTTTTAAT
1 TAAATTA-G----GGTTAGGGTTTTTAAT
38021239 TAAATTAGGGTAGGGTTAGGGTTTTTAAT
1 TAAA-T----TAGGGTTAGGGTTTTTAAT
38021268 TAAATTAGGTTAAGGTTAGGGTTTTTAAT
1 TAAATTA-G----GGTTAGGGTTTTTAAT
*
38021297 TAAATTAGGTTAGGGTTAGGGTTTTTAAA
1 T-AA--A--TTAGGGTTAGGGTTTTTAAT
38021326 TAAATTAGGATAAGGTTAGGG-TTTTAAT
1 TAAATTA-G----GGTTAGGGTTTTTAAT
38021354 TAAATTAGGGTAGGGTTAGGGTTTTTAAT
1 TAAA-T----TAGGGTTAGGGTTTTTAAT
38021383 TAAATTAGGTTAAGGTTAGGGTTTTTAAT
1 TAAATTA-G----GGTTAGGGTTTTTAAT
*
38021412 TAATTAGGTTAAGGTTAGGG-TTTTAAT
1 TAA--A--TTAGGGTTAGGGTTTTTAAT
38021439 TAAATTAGGTTAGGGTTAGGGTTTTTAAT
1 T-AA--A--TTAGGGTTAGGGTTTTTAAT
38021468 TAAATTAGGTTAAGGTTAGGGTTTTTAAT
1 TAAATTA-G----GGTTAGGGTTTTTAAT
38021497 TAAAT
1 TAAAT
38021502 CAGGTTAAGG
Statistics
Matches: 484, Mismatches: 13, Indels: 176
0.72 0.02 0.26
Matches are distributed among these distances:
22 21 0.04
23 60 0.12
24 23 0.05
25 6 0.01
26 4 0.01
27 23 0.05
28 79 0.16
29 221 0.46
30 5 0.01
31 4 0.01
32 8 0.02
33 14 0.03
34 16 0.03
ACGTcount: A:0.31, C:0.00, G:0.26, T:0.43
Consensus pattern (24 bp):
TAAATTAGGGTTAGGGTTTTTAAT
Found at i:38021552 original size:26 final size:25
Alignment explanation
Indices: 38021522--38021579 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
38021512 TTAGGGTATG
38021522 AAATAAA-TTACGATTTTTATTACATC
1 AAATAAACTT-CGA-TTTTATTACATC
* *
38021548 AAATAGAACTTCTATTTTATTATATC
1 AAATA-AACTTCGATTTTATTACATC
38021574 AAATAA
1 AAATAA
38021580 TATCAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 1 0.04
26 21 0.75
27 4 0.14
28 2 0.07
ACGTcount: A:0.45, C:0.10, G:0.03, T:0.41
Consensus pattern (25 bp):
AAATAAACTTCGATTTTATTACATC
Found at i:38023868 original size:10 final size:10
Alignment explanation
Indices: 38023849--38023914 Score: 60
Period size: 10 Copynumber: 6.5 Consensus size: 10
38023839 GCCATTGATG
*
38023849 AAAATATAAA
1 AAAATTTAAA
38023859 AAAATTTAAA
1 AAAATTTAAA
* *
38023869 ATTATTTTAAA
1 A-AAATTTAAA
*
38023880 AAAATATAAA
1 AAAATTTAAA
*
38023890 AAAATTTGAA
1 AAAATTTAAA
**
38023900 ATTATTTAAA
1 AAAATTTAAA
38023910 AAAAT
1 AAAAT
38023915 GAAATTGAGG
Statistics
Matches: 42, Mismatches: 13, Indels: 2
0.74 0.23 0.04
Matches are distributed among these distances:
10 34 0.81
11 8 0.19
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (10 bp):
AAAATTTAAA
Found at i:38023884 original size:31 final size:30
Alignment explanation
Indices: 38023849--38023914 Score: 114
Period size: 31 Copynumber: 2.2 Consensus size: 30
38023839 GCCATTGATG
38023849 AAAATATAAAAAAATTTAAAATTATTTTAAA
1 AAAATATAAAAAAATTTAAAATTA-TTTAAA
*
38023880 AAAATATAAAAAAATTTGAAATTATTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTAAA
38023910 AAAAT
1 AAAAT
38023915 GAAATTGAGG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 11 0.32
31 23 0.68
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTAAA
Found at i:38023896 original size:21 final size:21
Alignment explanation
Indices: 38023855--38023896 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
38023845 GATGAAAATA
* **
38023855 TAAAAAAATTTAAAATTATTT
1 TAAAAAAATATAAAAAAATTT
38023876 TAAAAAAATATAAAAAAATTT
1 TAAAAAAATATAAAAAAATTT
38023897 GAAATTATTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (21 bp):
TAAAAAAATATAAAAAAATTT
Found at i:38023973 original size:22 final size:21
Alignment explanation
Indices: 38023948--38023998 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 21
38023938 TAATATGGAT
*
38023948 TTGAGAGATTTTTGGAATGAAA
1 TTGAGAGA-TTTTGGAAGGAAA
38023970 TTGAGAGGATTTTGGAAGGAAA
1 TTGAGA-GATTTTGGAAGGAAA
38023992 TTGAGAG
1 TTGAGAG
38023999 TTTAAGAGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
21 1 0.04
22 24 0.89
23 2 0.07
ACGTcount: A:0.35, C:0.00, G:0.33, T:0.31
Consensus pattern (21 bp):
TTGAGAGATTTTGGAAGGAAA
Found at i:38024024 original size:52 final size:52
Alignment explanation
Indices: 38023951--38024049 Score: 162
Period size: 52 Copynumber: 1.9 Consensus size: 52
38023941 TATGGATTTG
* * *
38023951 AGAGATTTTTGGAATGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
1 AGAGAATTTTAGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
*
38024003 AGAGAATTTTAGAAGGAAATTGAGAGGATTTTGGAAGGAATTTGAGA
1 AGAGAATTTTAGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGA
38024050 TAGGATTTGT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
52 43 1.00
ACGTcount: A:0.38, C:0.00, G:0.31, T:0.30
Consensus pattern (52 bp):
AGAGAATTTTAGAAGGAAATTGAGAGGATTTTGGAAGGAAATTGAGAGTTTA
Found at i:38024033 original size:22 final size:22
Alignment explanation
Indices: 38024003--38024049 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
38023993 TGAGAGTTTA
38024003 AGAGAATTTTAGAAGGAAATTG
1 AGAGAATTTTAGAAGGAAATTG
* * *
38024025 AGAGGATTTTGGAAGGAATTTG
1 AGAGAATTTTAGAAGGAAATTG
38024047 AGA
1 AGA
38024050 TAGGATTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.32, T:0.28
Consensus pattern (22 bp):
AGAGAATTTTAGAAGGAAATTG
Found at i:38029722 original size:14 final size:14
Alignment explanation
Indices: 38029703--38029731 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38029693 GCACAATATC
38029703 TAGTGACACTATTA
1 TAGTGACACTATTA
38029717 TAGTGACACTATTA
1 TAGTGACACTATTA
38029731 T
1 T
38029732 GGCTATGTGT
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:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (14 bp):
TAGTGACACTATTA
Found at i:38032567 original size:22 final size:21
Alignment explanation
Indices: 38032542--38032585 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
38032532 TTGTTAATAA
* *
38032542 TTAAGTGACATAACTTTTGAAT
1 TTAAGAGAAATAACTTTT-AAT
38032564 TTAAGAGAAATAACTTTTAAT
1 TTAAGAGAAATAACTTTTAAT
38032585 T
1 T
38032586 ATTTATAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 4 0.20
22 16 0.80
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (21 bp):
TTAAGAGAAATAACTTTTAAT
Found at i:38033504 original size:35 final size:35
Alignment explanation
Indices: 38033435--38033504 Score: 81
Period size: 35 Copynumber: 2.0 Consensus size: 35
38033425 TAATGCAATA
* * *
38033435 AAAATAATAAATTTTAATTAATATGTTATTTTAAT
1 AAAATAATAAATTTTAATTAATAAGATATATTAAT
38033470 AAAATATATAAATTTT-ATGTAA-AAGATATATTAAT
1 AAAATA-ATAAATTTTAAT-TAATAAGATATATTAAT
38033505 TATATTTTAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
35 18 0.60
36 12 0.40
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (35 bp):
AAAATAATAAATTTTAATTAATAAGATATATTAAT
Found at i:38033551 original size:20 final size:20
Alignment explanation
Indices: 38033502--38033552 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
38033492 AAGATATATT
* *
38033502 AATTATATTTTATTAAATGA
1 AATTAAATTTTAATAAATGA
* *
38033522 AAATAAATTTTAATACATGA
1 AATTAAATTTTAATAAATGA
*
38033542 AATTAGATTTT
1 AATTAAATTTT
38033553 TAAATTTTAT
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.06, T:0.45
Consensus pattern (20 bp):
AATTAAATTTTAATAAATGA
Found at i:38034562 original size:41 final size:41
Alignment explanation
Indices: 38034512--38034748 Score: 361
Period size: 41 Copynumber: 5.8 Consensus size: 41
38034502 AACCTTTTGG
* * *
38034512 GGCTTTTAGCGGCGTTTTTGAAAAAGCACCACTAATACTCA
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* *
38034553 GAGC-TTTAGCGGCATTTTTGAGAAAGCGCCGCTAATGCTCA
1 G-GCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
*
38034594 GGCTTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* *
38034635 GGCTTTTAGCGGTGTTTTTGAGAAAGCGCCGCTAATGCTCA
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
38034676 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCGA
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC-A
*
38034718 GGC-TTTAGTGGCGTTTTTGAAAAAGCGCCGC
1 GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGC
38034749 AAAAACATTT
Statistics
Matches: 183, Mismatches: 10, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
40 2 0.01
41 175 0.96
42 6 0.03
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.29
Consensus pattern (41 bp):
GGCTTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
Found at i:38035302 original size:14 final size:14
Alignment explanation
Indices: 38035283--38035328 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
38035273 TAAATAAGAT
*
38035283 TTAGGGGTTAGTAG
1 TTAGGGGTTAGGAG
*
38035297 TTAGGGGTTTGGAG
1 TTAGGGGTTAGGAG
*
38035311 TTAGAGGGTTAGGGG
1 TTAG-GGGTTAGGAG
38035326 TTA
1 TTA
38035329 AGAGTTAGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
14 16 0.59
15 11 0.41
ACGTcount: A:0.20, C:0.00, G:0.46, T:0.35
Consensus pattern (14 bp):
TTAGGGGTTAGGAG
Found at i:38035967 original size:27 final size:27
Alignment explanation
Indices: 38035935--38035991 Score: 114
Period size: 27 Copynumber: 2.1 Consensus size: 27
38035925 TTACATGTTG
38035935 AAATTAATTAAGGGAATGTAAACAAGA
1 AAATTAATTAAGGGAATGTAAACAAGA
38035962 AAATTAATTAAGGGAATGTAAACAAGA
1 AAATTAATTAAGGGAATGTAAACAAGA
38035989 AAA
1 AAA
38035992 AAGAATGCTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.58, C:0.04, G:0.18, T:0.21
Consensus pattern (27 bp):
AAATTAATTAAGGGAATGTAAACAAGA
Found at i:38039799 original size:43 final size:43
Alignment explanation
Indices: 38039751--38039944 Score: 221
Period size: 43 Copynumber: 4.5 Consensus size: 43
38039741 AGATTATGTT
*
38039751 TTTAGCGGCGTTTTTGGAAAAAGCACCGCTAAAGGTCGTGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCACCGCTAAAGGTCGTGGTC
* * * * *
38039794 TTTAGCGGTGTTTGTGGGAAAAGCGCCGTTAAAGGTTGTGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCACCGCTAAAGGTCGTGGTC
* ** *
38039837 TTTAGCGGCGTTTGTGTAAAAAGCGTCGCTAAATGTCGTGGTC
1 TTTAGCGGCGTTTGTGGAAAAAGCACCGCTAAAGGTCGTGGTC
** * *
38039880 TTTAGCGGTATTTGT-GAAAAAGCATCGCTAAAGATCGTTGGT-
1 TTTAGCGGCGTTTGTGGAAAAAGCACCGCTAAAGGTCG-TGGTC
* *
38039922 TTTAGCGGTGATTGTGGAAAAAG
1 TTTAGCGGCGTTTGTGGAAAAAG
38039945 TGTCGTTAAA
Statistics
Matches: 128, Mismatches: 21, Indels: 4
0.84 0.14 0.03
Matches are distributed among these distances:
42 31 0.24
43 97 0.76
ACGTcount: A:0.24, C:0.13, G:0.31, T:0.31
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGAAAAAGCACCGCTAAAGGTCGTGGTC
Found at i:38039965 original size:85 final size:86
Alignment explanation
Indices: 38039751--38039966 Score: 240
Period size: 86 Copynumber: 2.5 Consensus size: 86
38039741 AGATTATGTT
* * ** * *
38039751 TTTAGCGGCGTTTTTGGAAAAAGCACCGCTAAAGGTCGTGGTCTTTAGCGGTGTTTGTGGGAAAA
1 TTTAGCGGCGATTGTGGAAAAAGCGTCGCTAAAGGTCGTGGTCTTTAGCGGTATTTGTGGAAAAA
* * * *
38039816 GCGCCGTTAAAGGTTGTGGTC
66 GCACCGCTAAAGATCGTGGTC
* * *
38039837 TTTAGCGGCGTTTGTGTAAAAAGCGTCGCTAAATGTCGTGGTCTTTAGCGGTATTTGT-GAAAAA
1 TTTAGCGGCGATTGTGGAAAAAGCGTCGCTAAAGGTCGTGGTCTTTAGCGGTATTTGTGGAAAAA
*
38039901 GCATCGCTAAAGATCGTTGGT-
66 GCACCGCTAAAGATCG-TGGTC
* * *
38039922 TTTAGCGGTGATTGTGGAAAAAGTGTCGTTAAAGGTCAG-GGTCTT
1 TTTAGCGGCGATTGTGGAAAAAGCGTCGCTAAAGGTC-GTGGTCTT
38039967 CAGTGGCGCT
Statistics
Matches: 110, Mismatches: 18, Indels: 5
0.83 0.14 0.04
Matches are distributed among these distances:
85 53 0.48
86 57 0.52
ACGTcount: A:0.23, C:0.13, G:0.31, T:0.32
Consensus pattern (86 bp):
TTTAGCGGCGATTGTGGAAAAAGCGTCGCTAAAGGTCGTGGTCTTTAGCGGTATTTGTGGAAAAA
GCACCGCTAAAGATCGTGGTC
Found at i:38040825 original size:20 final size:20
Alignment explanation
Indices: 38040774--38040825 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 20
38040764 AAATCATTGC
38040774 AATATATGTAAAAATAATTT
1 AATATATGTAAAAATAATTT
* *
38040794 AA-A-ATATAAAAAT-TTATT
1 AATATATGTAAAAATAAT-TT
38040812 AATATATGTAAAAA
1 AATATATGTAAAAA
38040826 AAACTTTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 1 0.04
18 13 0.50
19 2 0.08
20 10 0.38
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.37
Consensus pattern (20 bp):
AATATATGTAAAAATAATTT
Found at i:38048390 original size:16 final size:15
Alignment explanation
Indices: 38048363--38048396 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
38048353 ATAACTAGTA
*
38048363 TATAATTATATTTAT
1 TATAATTATATTAAT
38048378 TATAATATATATTAAT
1 TATAAT-TATATTAAT
38048394 TAT
1 TAT
38048397 TATCAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
TATAATTATATTAAT
Found at i:38049976 original size:3 final size:3
Alignment explanation
Indices: 38049968--38049994 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
38049958 TGAGGATCCT
38049968 GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA
38049995 CATCCCATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:38061819 original size:51 final size:51
Alignment explanation
Indices: 38061742--38062004 Score: 354
Period size: 51 Copynumber: 5.2 Consensus size: 51
38061732 CTGATCAGTA
* *
38061742 ACAAGTGATAAGT-AGTAGCTTCAGCTACACTTATCTGATCAATGACAAATG
1 ACAAGTGATAAGTGA-TAGCTTCAGCTACACTTATCTGATCAGTGACAAGTG
* * *
38061793 GCAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATTAGTGGCAAGTG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTG
* *
38061844 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTG
*
38061895 ACAAGTGATAAGTTG-TAGCTTTAGCTACAAC-TATCTGATCAGTGACAAGTG
1 ACAAGTGATAAG-TGATAGCTTCAGCTAC-ACTTATCTGATCAGTGACAAGTG
* * * *
38061946 GCAAGTGATAAGTGGTAGCTT-AGCTACAATTATCTGATCAGGGACAAGTG
1 ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTG
*
38061996 ATAAGTGAT
1 ACAAGTGAT
38062005 CATACGTAAG
Statistics
Matches: 192, Mismatches: 15, Indels: 11
0.88 0.07 0.05
Matches are distributed among these distances:
49 1 0.01
50 34 0.18
51 152 0.79
52 5 0.03
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.29
Consensus pattern (51 bp):
ACAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAGTGACAAGTG
Found at i:38077601 original size:17 final size:16
Alignment explanation
Indices: 38077579--38077612 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
38077569 GGGGATGGCG
38077579 TTTGTTTGATGTTTATT
1 TTTGTTTGATG-TTATT
*
38077596 TTTGTTTGTTGTTATT
1 TTTGTTTGATGTTATT
38077612 T
1 T
38077613 CATAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.09, C:0.00, G:0.18, T:0.74
Consensus pattern (16 bp):
TTTGTTTGATGTTATT
Found at i:38085379 original size:46 final size:46
Alignment explanation
Indices: 38085313--38085749 Score: 702
Period size: 46 Copynumber: 9.6 Consensus size: 46
38085303 TTTGAGTACT
38085313 TCTGATC-AGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
*
38085358 TCTGATCAAGTGACAATGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* *
38085404 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCATTAGCTACAGTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
*
38085450 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* * *
38085496 TCTGATAAAATGACAAAGTGATAAGTGTTAGCTCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* *
38085542 TCTGATCAAGTGACAAATTGATAAGTGTTAGCATTAGCTA-ACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* *
38085587 TCTAATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* *
38085633 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* *
38085679 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
*
38085725 TCTGATC-AGGGAC-AAGTGATAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTG
38085750 ATCATACGTA
Statistics
Matches: 368, Mismatches: 22, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
44 12 0.03
45 53 0.14
46 303 0.82
ACGTcount: A:0.34, C:0.15, G:0.20, T:0.31
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
Found at i:38085719 original size:229 final size:229
Alignment explanation
Indices: 38085313--38085730 Score: 723
Period size: 229 Copynumber: 1.8 Consensus size: 229
38085303 TTTGAGTACT
* * *
38085313 TCTGATCAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAGTGACAATGTG
1 TCTGATCAGTGACAAAGTGATAAGTGTTAGCATTAGCTACACTTATCTAATCAAGTGACAAAGTG
* *
38085378 ATAAGTGTTAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCATTAGCT
66 ATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCT
* *
38085443 ACAGTTATCTGATCAAGTGACAAAGTGATAAGTGTTAGCTCTAGCTACACTTATCTGATAAAATG
131 ACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGATAAAATG
38085508 ACAAAGTGATAAGTGTTAGCTCTAGCTACACTTA
196 ACAAAGTGATAAGTGTTAGCTCTAGCTACACTTA
*
38085542 TCTGATCAAGTGACAAATTGATAAGTGTTAGCATTAGCTA-ACTTATCTAATCAAGTGACAAAGT
1 TCTGATC-AGTGACAAAGTGATAAGTGTTAGCATTAGCTACACTTATCTAATCAAGTGACAAAGT
*
38085606 GATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGC
65 GATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGC
38085671 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGC-CTTAGCTACACTTATCTGAT
130 TACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTC-TAGCTACACTTATCTGAT
38085731 CAGGGACAAG
Statistics
Matches: 178, Mismatches: 9, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
228 1 0.01
229 147 0.83
230 30 0.17
ACGTcount: A:0.33, C:0.16, G:0.20, T:0.31
Consensus pattern (229 bp):
TCTGATCAGTGACAAAGTGATAAGTGTTAGCATTAGCTACACTTATCTAATCAAGTGACAAAGTG
ATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCATTAGCT
ACACTTATCTGATCAAGTGACAAAGTGATAAGTGGTAGCTCTAGCTACACTTATCTGATAAAATG
ACAAAGTGATAAGTGTTAGCTCTAGCTACACTTA
Found at i:38087086 original size:47 final size:48
Alignment explanation
Indices: 38087010--38087199 Score: 213
Period size: 49 Copynumber: 3.9 Consensus size: 48
38087000 CATGTGAAAA
** * *
38087010 TATGATTATGTGATCTCCGTGTAAGACCATATCTGGGATATGGCATCA-T
1 TATGA-TATGTGAT-TCTATGTAAGACCATAGCTGGGCTATGGCATCAGT
*
38087059 TATGATATGTGATTCTATGTAAAACCATAGCTGGGCTATGGCATCAGT
1 TATGATATGTGATTCTATGTAAGACCATAGCTGGGCTATGGCATCAGT
* * *
38087107 AAGTGATATGTGATTCTGTATAAGACCATAGCTGGGCTATGGCATCAGT
1 TA-TGATATGTGATTCTATGTAAGACCATAGCTGGGCTATGGCATCAGT
* * * *
38087156 ATGTGATATGTGATTAC-ATGTAAGATCATAGTTGGACTATGGCA
1 -TATGATATGTGATT-CTATGTAAGACCATAGCTGGGCTATGGCA
38087200 ATGTGAAAAC
Statistics
Matches: 121, Mismatches: 16, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
47 28 0.23
48 10 0.08
49 82 0.68
50 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (48 bp):
TATGATATGTGATTCTATGTAAGACCATAGCTGGGCTATGGCATCAGT
Found at i:38087142 original size:96 final size:99
Alignment explanation
Indices: 38087016--38087199 Score: 250
Period size: 98 Copynumber: 1.9 Consensus size: 99
38087006 AAAATATGAT
* *
38087016 TATGTGATCTCCGTGTAAGACCATATCTGGGATATGGCATCA-T-TATGATATGTGATT-CTATG
1 TATGTGATCTCCGTATAAGACCATAGCTGGGATATGGCATCAGTATATGATATGTGATTAC-ATG
*
38087078 TAAAACCATAGCTGGGCTATGGCATCAGTAAGTGA
65 TAAAACCATAGCTGGACTATGGCATCAGTAAGTGA
* * *
38087113 TATGTGAT-TCTGTATAAGACCATAGCTGGGCTATGGCATCAGTATGTGATATGTGATTACATGT
1 TATGTGATCTCCGTATAAGACCATAGCTGGGATATGGCATCAGTATATGATATGTGATTACATGT
* * *
38087177 AAGATCATAGTTGGACTATGGCA
66 AAAACCATAGCTGGACTATGGCA
38087200 ATGTGAAAAC
Statistics
Matches: 75, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
96 29 0.39
97 9 0.12
98 36 0.48
99 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.33
Consensus pattern (99 bp):
TATGTGATCTCCGTATAAGACCATAGCTGGGATATGGCATCAGTATATGATATGTGATTACATGT
AAAACCATAGCTGGACTATGGCATCAGTAAGTGA
Found at i:38091112 original size:46 final size:46
Alignment explanation
Indices: 38091046--38091556 Score: 835
Period size: 46 Copynumber: 11.1 Consensus size: 46
38091036 TTTGAGTAGT
38091046 TCTGATC-AGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
*
38091091 TCTGATCAAGTGACAATGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
*
38091137 TCTGATCAAGTGACAATGTGATAAGTGTTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
*
38091183 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* *
38091229 TCTGATCATGTGACAAAGTGATAAGTGTTAGCATTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* *
38091275 TCTTATCAAGTGACAAAGTGATAAGTGTTAGCTCTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* *
38091321 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTCTAGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* * *
38091367 TCTGATCAGGTGACAAAGTGATAAGTGTTAGCGTTAGCTGCACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* *
38091413 TCTAATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* *
38091459 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCCTTAGCTACACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
* * * *
38091505 TCTGATCAAGTGACAAAGTGATAACTGGTAGCCTTAGCTATACTTA
1 TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
38091551 TCTGAT
1 TCTGAT
38091557 TAGGAACAAG
Statistics
Matches: 440, Mismatches: 25, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
45 7 0.02
46 433 0.98
ACGTcount: A:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (46 bp):
TCTGATCAAGTGACAAAGTGATAAGTGTTAGCTTTAGCTACACTTA
Found at i:38111116 original size:26 final size:24
Alignment explanation
Indices: 38111078--38111126 Score: 62
Period size: 26 Copynumber: 2.0 Consensus size: 24
38111068 ACTAAATAAA
*
38111078 TTAATAATAAAATAATAAAATATTAT
1 TTAAAAATAAAAT--TAAAATATTAT
*
38111104 TTAAAAATCAAATTAAAATATTA
1 TTAAAAATAAAATTAAAATATTA
38111127 ATAAACTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
26 11 0.52
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.37
Consensus pattern (24 bp):
TTAAAAATAAAATTAAAATATTAT
Found at i:38122194 original size:17 final size:17
Alignment explanation
Indices: 38122160--38122229 Score: 51
Period size: 16 Copynumber: 4.2 Consensus size: 17
38122150 TTTAGGGGAA
*
38122160 AAATAAAAAGTTT-TGGG
1 AAAT-AAAAGTTTGAGGG
38122177 AAATAAAAGTTTGAGGG
1 AAATAAAAGTTTGAGGG
38122194 AAAATAAATAG---GAGGG
1 -AAATAAA-AGTTTGAGGG
*
38122210 -AATAAAATTTTGGAGGG
1 AAATAAAAGTTT-GAGGG
38122227 AAA
1 AAA
38122230 ATATTAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 15
0.72 0.03 0.25
Matches are distributed among these distances:
13 1 0.02
14 6 0.14
16 13 0.30
17 12 0.28
18 9 0.21
19 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (17 bp):
AAATAAAAGTTTGAGGG
Found at i:38123905 original size:29 final size:29
Alignment explanation
Indices: 38123871--38123926 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
38123861 TTTGATTATT
* * *
38123871 TTTAATAGTATAGGGGTTAAATTGATCCA
1 TTTAATAGTAAAGAGATTAAATTGATCCA
38123900 TTTAATAGTAAAGAGATTAAATTGATC
1 TTTAATAGTAAAGAGATTAAATTGATC
38123927 ATGTCCCAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (29 bp):
TTTAATAGTAAAGAGATTAAATTGATCCA
Found at i:38124898 original size:14 final size:14
Alignment explanation
Indices: 38124881--38124909 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
38124871 AAAATACCAA
38124881 AATTTAAATAAATT
1 AATTTAAATAAATT
38124895 AATTTAAATAAATT
1 AATTTAAATAAATT
38124909 A
1 A
38124910 TGACATTAAT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
AATTTAAATAAATT
Found at i:38126101 original size:20 final size:21
Alignment explanation
Indices: 38126064--38126109 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
38126054 AAGGAGAACA
*
38126064 AAATTGAATTGAAAAAGAAAC
1 AAATTAAATTGAAAAAGAAAC
38126085 AAATTAAATTG-AAAAGAAAC
1 AAATTAAATTGAAAAAGAAAC
38126105 AAATT
1 AAATT
38126110 GCACAAGCAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 14 0.58
21 10 0.42
ACGTcount: A:0.63, C:0.04, G:0.11, T:0.22
Consensus pattern (21 bp):
AAATTAAATTGAAAAAGAAAC
Found at i:38129659 original size:35 final size:35
Alignment explanation
Indices: 38129620--38129692 Score: 130
Period size: 35 Copynumber: 2.1 Consensus size: 35
38129610 CAAAATTACT
38129620 TACCTTTTTCTTTTACGTTGTC-ATCCATTTTCTTC
1 TACCTTTTTCTTTTACGTTG-CAATCCATTTTCTTC
38129655 TACCTTTTTCTTTTACGTTGCAATCCATTTTCTTC
1 TACCTTTTTCTTTTACGTTGCAATCCATTTTCTTC
38129690 TAC
1 TAC
38129693 TCTTACTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
34 1 0.03
35 36 0.97
ACGTcount: A:0.14, C:0.26, G:0.05, T:0.55
Consensus pattern (35 bp):
TACCTTTTTCTTTTACGTTGCAATCCATTTTCTTC
Found at i:38133357 original size:29 final size:27
Alignment explanation
Indices: 38133325--38133401 Score: 68
Period size: 29 Copynumber: 2.7 Consensus size: 27
38133315 GCTCAAGTAC
38133325 ATTTTCTTTTGTTTGCATGTTT-GTTTCTT
1 ATTTTCTTTTGTTT--ATGTTTGGTTT-TT
* *
38133354 ATTTTCAGTTTGGTTTATTTTTGGTTTTT
1 ATTTTC--TTTTGTTTATGTTTGGTTTTT
*
38133383 ATTTTCTTTTGCTTA-GTTT
1 ATTTTCTTTTGTTTATGTTT
38133402 ACTTAAGGAC
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
26 3 0.08
27 7 0.17
29 19 0.47
30 4 0.10
31 7 0.17
ACGTcount: A:0.09, C:0.08, G:0.14, T:0.69
Consensus pattern (27 bp):
ATTTTCTTTTGTTTATGTTTGGTTTTT
Found at i:38141943 original size:17 final size:17
Alignment explanation
Indices: 38141921--38141959 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
38141911 AGTGAAGATG
38141921 TTAAAATTGGGTCTTCC
1 TTAAAATTGGGTCTTCC
38141938 TTAAAATTGGGTCTTCC
1 TTAAAATTGGGTCTTCC
38141955 TTAAA
1 TTAAA
38141960 GGAAGGTCGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (17 bp):
TTAAAATTGGGTCTTCC
Found at i:38142738 original size:22 final size:23
Alignment explanation
Indices: 38142691--38142745 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
38142681 GGCAAGCTGA
**
38142691 CAATAATGTGCAGATAGTGCTAC
1 CAATAATGTGCAGATAGAACTAC
*
38142714 CAATAATGTGCATATA-AACTAC
1 CAATAATGTGCAGATAGAACTAC
38142736 CAATAATGTG
1 CAATAATGTG
38142746 GTCAAGCCAC
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 14 0.48
23 15 0.52
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.27
Consensus pattern (23 bp):
CAATAATGTGCAGATAGAACTAC
Found at i:38143115 original size:42 final size:42
Alignment explanation
Indices: 38143024--38143108 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
38143014 TAAACAGTAG
*
38143024 CAATCCATAACATGCTTCTATACAAGCAATTACATGTTAAACA
1 CAAT-CATAACATGCTTCTATACAAGCAATTACATGTCAAACA
*
38143067 CAATCATAACATGCTTCTATACAAGCAATTACATGTCGAACA
1 CAATCATAACATGCTTCTATACAAGCAATTACATGTCAAACA
38143109 TGATCATTCA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 36 0.90
43 4 0.10
ACGTcount: A:0.41, C:0.24, G:0.08, T:0.27
Consensus pattern (42 bp):
CAATCATAACATGCTTCTATACAAGCAATTACATGTCAAACA
Found at i:38172855 original size:22 final size:24
Alignment explanation
Indices: 38172803--38172856 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
38172793 ATTCAAAAAC
38172803 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTATTGTTATT-AATATGCT
*
38172828 TGAAATTATTG-TATT-ATAT-CTT
1 TTAAATTATTGTTATTAATATGC-T
38172850 TTAAATT
1 TTAAATT
38172857 GAATTCATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 11 0.42
24 4 0.15
25 10 0.38
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATGCT
Found at i:38185256 original size:22 final size:22
Alignment explanation
Indices: 38185231--38185282 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
38185221 ATCTTTAAAA
*
38185231 TAATTAAAATT-TATAAAATAAT
1 TAATAAAAATTCTA-AAAATAAT
38185253 TAATAAAAATTCTAAAAAT-AT
1 TAATAAAAATTCTAAAAATAAT
38185274 T-ATAAAAAT
1 TAATAAAAAT
38185283 ATACAAATTA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 8 0.29
21 3 0.11
22 15 0.54
23 2 0.07
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.37
Consensus pattern (22 bp):
TAATAAAAATTCTAAAAATAAT
Found at i:38185268 original size:21 final size:20
Alignment explanation
Indices: 38185235--38185332 Score: 55
Period size: 21 Copynumber: 4.9 Consensus size: 20
38185225 TTAAAATAAT
*
38185235 TAAAATTTAT-AAAATAATTAA
1 TAAAAATTATAAAAAT-ATT-A
*
38185256 TAAAAATTCTAAAAATATTA
1 TAAAAATTATAAAAATATTA
*
38185276 TAAAAA-TAT-ACAA-ATTA
1 TAAAAATTATAAAAATATTA
*
38185293 TAAACAATT-TCCAAAATAATTA
1 TAAA-AATTAT-AAAAAT-ATTA
*
38185315 -AAAAATAATTAAAAATAT
1 TAAAAATTA-TAAAAATAT
38185333 AAAAATATTA
Statistics
Matches: 61, Mismatches: 7, Indels: 19
0.70 0.08 0.22
Matches are distributed among these distances:
17 8 0.13
18 6 0.10
19 3 0.05
20 15 0.25
21 19 0.31
22 10 0.16
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (20 bp):
TAAAAATTATAAAAATATTA
Found at i:38185329 original size:12 final size:11
Alignment explanation
Indices: 38185305--38185334 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
38185295 AACAATTTCC
38185305 AAAATAATTAA
1 AAAATAATTAA
38185316 AAAATAATTAA
1 AAAATAATTAA
38185327 AAATATAA
1 AAA-ATAA
38185335 AAATATTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (11 bp):
AAAATAATTAA
Found at i:38188152 original size:3 final size:3
Alignment explanation
Indices: 38188144--38188187 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
38188134 TTGAGGTCTG
38188144 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
38188188 TGTTTTAAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:38188925 original size:44 final size:44
Alignment explanation
Indices: 38188875--38188960 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
38188865 TAATGCAATA
*
38188875 TTTGGTAGTACAAAATTAATTGAAACCTCTAAAAGAGCTAATTG
1 TTTGGTAGTACAAAATTAATTGAAACCTCCAAAAGAGCTAATTG
* *
38188919 TTTGGTAGTACAAAATTAGTTGAAAGCTCCAAAAGAGCTAAT
1 TTTGGTAGTACAAAATTAATTGAAACCTCCAAAAGAGCTAAT
38188961 ATAGCAATAT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (44 bp):
TTTGGTAGTACAAAATTAATTGAAACCTCCAAAAGAGCTAATTG
Found at i:38189550 original size:51 final size:51
Alignment explanation
Indices: 38189494--38189600 Score: 205
Period size: 51 Copynumber: 2.1 Consensus size: 51
38189484 TAGCAACACT
38189494 ATGAAAACAGTTTTAAGATATATTATGAATTAATATCATGTTTGGTCATGG
1 ATGAAAACAGTTTTAAGATATATTATGAATTAATATCATGTTTGGTCATGG
38189545 ATGAAAACAGTTTTAAGATATATTATGAATTAATATCATGTTTGGTCATGG
1 ATGAAAACAGTTTTAAGATATATTATGAATTAATATCATGTTTGGTCATGG
*
38189596 TTGAA
1 ATGAA
38189601 TTAAACAATG
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.37, C:0.06, G:0.18, T:0.39
Consensus pattern (51 bp):
ATGAAAACAGTTTTAAGATATATTATGAATTAATATCATGTTTGGTCATGG
Found at i:38190097 original size:18 final size:19
Alignment explanation
Indices: 38190061--38190098 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
38190051 AATAATTTTC
* *
38190061 AAAAATTCAAAATATTTAT
1 AAAAATTCAAAAAAATTAT
38190080 AAAAATT-AAAAAAATTAT
1 AAAAATTCAAAAAAATTAT
38190098 A
1 A
38190099 TTTTTAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.59
19 7 0.41
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.32
Consensus pattern (19 bp):
AAAAATTCAAAAAAATTAT
Found at i:38190106 original size:24 final size:22
Alignment explanation
Indices: 38190049--38190133 Score: 61
Period size: 23 Copynumber: 3.9 Consensus size: 22
38190039 AAATAATTTG
*
38190049 AAAATA-ATTTTCAAAAATT--
1 AAAATATATTTTTAAAAATTAA
* *
38190068 CAAA-ATATTTATAAAAATTAAA
1 AAAATATATTTTTAAAAATT-AA
* *
38190090 AAAATTATATTTTTAAAAAATAT
1 AAAA-TATATTTTTAAAAATTAA
*
38190113 ATAATATATTTTTTAAAAATT
1 AAAATATA-TTTTTAAAAATT
38190134 CTAAAGAATA
Statistics
Matches: 50, Mismatches: 9, Indels: 10
0.72 0.13 0.14
Matches are distributed among these distances:
18 1 0.02
19 14 0.28
22 7 0.14
23 15 0.30
24 13 0.26
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (22 bp):
AAAATATATTTTTAAAAATTAA
Found at i:38196434 original size:26 final size:25
Alignment explanation
Indices: 38196401--38196459 Score: 64
Period size: 26 Copynumber: 2.3 Consensus size: 25
38196391 ATTTTTCTCA
* * *
38196401 AAATTTTACCAAGGGCAAAATCGTC
1 AAATTTTACAAAGGACAAAATCATC
*
38196426 AAATGTTTACAAAGGATAAAATCATC
1 AAAT-TTTACAAAGGACAAAATCATC
38196452 AAAATTTT
1 -AAATTTT
38196460 GTTGAGGGTA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
25 4 0.14
26 20 0.71
27 4 0.14
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.29
Consensus pattern (25 bp):
AAATTTTACAAAGGACAAAATCATC
Found at i:38203446 original size:9 final size:8
Alignment explanation
Indices: 38203432--38203480 Score: 55
Period size: 8 Copynumber: 6.0 Consensus size: 8
38203422 TTAGAGTTCT
38203432 TTTATTTC
1 TTTATTTC
38203440 TTCTATTTC
1 TT-TATTTC
38203449 TTTATTTC
1 TTTATTTC
*
38203457 TTTGTTCTC
1 TTTATT-TC
*
38203466 TTTA-TTA
1 TTTATTTC
38203473 TTTATTTC
1 TTTATTTC
38203481 ATAACATAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
7 5 0.15
8 16 0.47
9 13 0.38
ACGTcount: A:0.12, C:0.14, G:0.02, T:0.71
Consensus pattern (8 bp):
TTTATTTC
Found at i:38203454 original size:17 final size:17
Alignment explanation
Indices: 38203428--38203471 Score: 56
Period size: 17 Copynumber: 2.6 Consensus size: 17
38203418 AAAGTTAGAG
38203428 TTCT-TTTATTTCTTCTA
1 TTCTCTTTATTTCTT-TA
*
38203445 TT-TCTTTATTTCTTTG
1 TTCTCTTTATTTCTTTA
38203461 TTCTCTTTATT
1 TTCTCTTTATT
38203472 ATTTATTTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
16 4 0.17
17 20 0.83
ACGTcount: A:0.09, C:0.16, G:0.02, T:0.73
Consensus pattern (17 bp):
TTCTCTTTATTTCTTTA
Found at i:38203570 original size:20 final size:20
Alignment explanation
Indices: 38203545--38203582 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
38203535 CATAAAATTT
38203545 ATTTTAATAATTTTTTAACA
1 ATTTTAATAATTTTTTAACA
* *
38203565 ATTTTATTTATTTTTTAA
1 ATTTTAATAATTTTTTAA
38203583 GATTTTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTAATAATTTTTTAACA
Found at i:38204686 original size:14 final size:14
Alignment explanation
Indices: 38204669--38204718 Score: 52
Period size: 14 Copynumber: 3.7 Consensus size: 14
38204659 TGAAATTTGG
38204669 TATTCACATTATAA
1 TATTCACATTATAA
38204683 TATTCACATTGAT--
1 TATTCACATT-ATAA
**
38204696 T-TAGACATTATAA
1 TATTCACATTATAA
38204709 TATTCACATT
1 TATTCACATT
38204719 GATTTAGACA
Statistics
Matches: 28, Mismatches: 4, Indels: 8
0.70 0.10 0.20
Matches are distributed among these distances:
11 2 0.07
12 6 0.21
13 2 0.07
14 16 0.57
15 2 0.07
ACGTcount: A:0.38, C:0.14, G:0.04, T:0.44
Consensus pattern (14 bp):
TATTCACATTATAA
Found at i:38204703 original size:26 final size:26
Alignment explanation
Indices: 38204674--38204730 Score: 114
Period size: 26 Copynumber: 2.2 Consensus size: 26
38204664 TTTGGTATTC
38204674 ACATTATAATATTCACATTGATTTAG
1 ACATTATAATATTCACATTGATTTAG
38204700 ACATTATAATATTCACATTGATTTAG
1 ACATTATAATATTCACATTGATTTAG
38204726 ACATT
1 ACATT
38204731 TCCAGTAGTC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 31 1.00
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (26 bp):
ACATTATAATATTCACATTGATTTAG
Found at i:38223924 original size:19 final size:17
Alignment explanation
Indices: 38223902--38223936 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
38223892 ATTGTTTGGA
38223902 TATTGTATAATTGTTGCTT
1 TATTGT-TAATT-TTGCTT
38223921 TATTGTTAATTTTGCT
1 TATTGTTAATTTTGCT
38223937 ACTATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.20, C:0.06, G:0.14, T:0.60
Consensus pattern (17 bp):
TATTGTTAATTTTGCTT
Found at i:38223942 original size:18 final size:19
Alignment explanation
Indices: 38223902--38223942 Score: 50
Period size: 18 Copynumber: 2.2 Consensus size: 19
38223892 ATTGTTTGGA
*
38223902 TATTGTATAATTGTTGCTT
1 TATTGTATAATTGTTGCTC
38223921 TATTGT-TAATT-TTGCTAC
1 TATTGTATAATTGTTGCT-C
38223939 TATT
1 TATT
38223943 TAAAAAGTAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 5 0.25
18 9 0.45
19 6 0.30
ACGTcount: A:0.22, C:0.07, G:0.12, T:0.59
Consensus pattern (19 bp):
TATTGTATAATTGTTGCTC
Found at i:38232100 original size:24 final size:24
Alignment explanation
Indices: 38232073--38232124 Score: 95
Period size: 24 Copynumber: 2.2 Consensus size: 24
38232063 TGAGGAGGAG
38232073 GATACATGAGAGGTGGAGATGGGT
1 GATACATGAGAGGTGGAGATGGGT
*
38232097 GATACATGAGAGGTGGAGGTGGGT
1 GATACATGAGAGGTGGAGATGGGT
38232121 GATA
1 GATA
38232125 AATTGGTGGT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.29, C:0.04, G:0.46, T:0.21
Consensus pattern (24 bp):
GATACATGAGAGGTGGAGATGGGT
Found at i:38237812 original size:45 final size:44
Alignment explanation
Indices: 38237763--38237997 Score: 289
Period size: 45 Copynumber: 5.4 Consensus size: 44
38237753 TGTTCCACAA
* *
38237763 CAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTG
1 CAACTTCAGGGAGATAAGACTTGC-ATCTTCAGTCTGCTCCACTG
* * *
38237808 CAACTTCAGGAAGATAAGACTT-CA-CTTCAATCCGCTCCACTG
1 CAACTTCAGGGAGATAAGACTTGCATCTTCAGTCTGCTCCACTG
* * *
38237850 CAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCGCTG
1 CAACTTCAGGGAGATAAGACTTG-CATCTTCAGTCTGCTCCACTG
* * *
38237895 CAACTTCAGGGGGATAAGACTTGCTTTCTTCAGTCTTCTCCACTG
1 CAACTTCAGGGAGATAAGACTTGC-ATCTTCAGTCTGCTCCACTG
* *
38237940 CAACTTCAGGGAGATAAGACTT-CA-CTTCAATCCGCTCCACTG
1 CAACTTCAGGGAGATAAGACTTGCATCTTCAGTCTGCTCCACTG
*
38237982 CAACTTCAAGGAGATA
1 CAACTTCAGGGAGATA
38237998 TGATTATTGA
Statistics
Matches: 163, Mismatches: 23, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
42 66 0.40
43 1 0.01
44 5 0.03
45 91 0.56
ACGTcount: A:0.27, C:0.28, G:0.18, T:0.27
Consensus pattern (44 bp):
CAACTTCAGGGAGATAAGACTTGCATCTTCAGTCTGCTCCACTG
Found at i:38237860 original size:87 final size:86
Alignment explanation
Indices: 38237749--38238056 Score: 316
Period size: 87 Copynumber: 3.5 Consensus size: 86
38237739 TTATAGCTTT
* ** * *
38237749 AATCTGTTCCACAACAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTT
38237814 CAGGAAGATAAGACTTCACTTC
66 CAGG-AGATAAGACTTCACTTC
* * *
38237836 AATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCGCTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTT
* *
38237901 CAGGGGGATAAGACTTGCTTTCTTC
66 CA-GGAGATAAGACTT-C--ACTTC
* * * * *
38237926 AGTCTTCTCCACTGCAACTTCAGGGAGATAAGACTT--CA-CTTCAATCCGCTCCACTGCAACTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTT
* * * *
38237988 CAAGGAGATATGATTATTGACTTT
66 C-AGGAGATAAGA--CTTCACTTC
* * * *
38238012 AATTTGCTCCACTGCAAGTTTAGGGAGATAAGATTCGCCATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTC
38238057 TTCAATCCAT
Statistics
Matches: 180, Mismatches: 31, Indels: 18
0.79 0.14 0.08
Matches are distributed among these distances:
86 32 0.18
87 98 0.54
88 8 0.04
89 6 0.03
90 36 0.20
ACGTcount: A:0.27, C:0.26, G:0.18, T:0.29
Consensus pattern (86 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCTCCACTGCAACTT
CAGGAGATAAGACTTCACTTC
Found at i:38237919 original size:132 final size:132
Alignment explanation
Indices: 38237763--38238002 Score: 408
Period size: 132 Copynumber: 1.8 Consensus size: 132
38237753 TGTTCCACAA
*
38237763 CAACTTCAGGGAAATAAGATTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGAC
1 CAACTTCAGGGAAATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGAC
*
38237828 TTCACTTCAATCCGCTCCACTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCCCCGC
66 TTCACTTCAATCCGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCCCGC
38237893 TG
131 TG
** * * *
38237895 CAACTTCAGGGGGATAAGACTTGCTTTCTTCAGTCTTCTCCACTGCAACTTCAGGGAGATAAGAC
1 CAACTTCAGGGAAATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGAC
*
38237960 TTCACTTCAATCCGCTCCACTGCAACTTCAAGGAGATATGATT
66 TTCACTTCAATCCGCTCCACTGCAACTTCAAGGAGATAAGATT
38238003 ATTGACTTTA
Statistics
Matches: 100, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 100 1.00
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (132 bp):
CAACTTCAGGGAAATAAGACTTGCTATCTTCAGTCTGCTCCACTGCAACTTCAGGAAGATAAGAC
TTCACTTCAATCCGCTCCACTGCAACTTCAAGGAGATAAGATTTGCCATCTTCAGTCTGCCCCGC
TG
Found at i:38239264 original size:9 final size:9
Alignment explanation
Indices: 38239252--38239276 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
38239242 TCTTTTCTTT
38239252 TTTTTTTGA
1 TTTTTTTGA
38239261 TTTTTTTGA
1 TTTTTTTGA
38239270 TTTTTTT
1 TTTTTTT
38239277 CTCAAGGCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.84
Consensus pattern (9 bp):
TTTTTTTGA
Found at i:38242593 original size:19 final size:20
Alignment explanation
Indices: 38242569--38242613 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
38242559 TGTGAAAATC
*
38242569 TAATGCATATG-ATGCAATG
1 TAATGCAGATGCATGCAATG
*
38242588 TAATGCAGATGCATGGAATG
1 TAATGCAGATGCATGCAATG
38242608 -AATGCA
1 TAATGCA
38242614 AAAATAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 16 0.70
20 7 0.30
ACGTcount: A:0.38, C:0.11, G:0.24, T:0.27
Consensus pattern (20 bp):
TAATGCAGATGCATGCAATG
Found at i:38244267 original size:11 final size:11
Alignment explanation
Indices: 38244237--38244282 Score: 58
Period size: 11 Copynumber: 4.2 Consensus size: 11
38244227 CTTAATTATT
38244237 CTCTCAATTTC
1 CTCTCAATTTC
38244248 CTC-CTAATTTC
1 CTCTC-AATTTC
*
38244259 CTCTCAATTTG
1 CTCTCAATTTC
*
38244270 TTCTCAATTTC
1 CTCTCAATTTC
38244281 CT
1 CT
38244283 TCCAAATTTC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
10 1 0.03
11 27 0.93
12 1 0.03
ACGTcount: A:0.17, C:0.33, G:0.02, T:0.48
Consensus pattern (11 bp):
CTCTCAATTTC
Found at i:38244319 original size:51 final size:50
Alignment explanation
Indices: 38244260--38244358 Score: 146
Period size: 50 Copynumber: 2.0 Consensus size: 50
38244250 CCTAATTTCC
*
38244260 TCTCAATTTGTTCTCAATTTC-CTTCCAAATTTCTCTCAAATCCATATTTAA
1 TCTCAATTTGCTCTCAATTTCTC-T-CAAATTTCTCTCAAATCCATATTTAA
* *
38244311 TCTCAATTTGCTCTCAATTTCTCTCAAATTTCTCTTAAATCCCTATTT
1 TCTCAATTTGCTCTCAATTTCTCTCAAATTTCTCTCAAATCCATATTT
38244359 TTAATTATTT
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
50 22 0.50
51 21 0.48
52 1 0.02
ACGTcount: A:0.25, C:0.26, G:0.02, T:0.46
Consensus pattern (50 bp):
TCTCAATTTGCTCTCAATTTCTCTCAAATTTCTCTCAAATCCATATTTAA
Found at i:38244340 original size:11 final size:10
Alignment explanation
Indices: 38244235--38244345 Score: 54
Period size: 11 Copynumber: 10.6 Consensus size: 10
38244225 TTCTTAATTA
38244235 TTCTCTCAAT
1 TTCTCTCAAT
38244245 TTC-CTCCTAAT
1 TTCTCT-C-AAT
38244256 TTCCTCTCAAT
1 TT-CTCTCAAT
*
38244267 TTGTTCTCAAT
1 TT-CTCTCAAT
38244278 TTC-CTTCCAAAT
1 TTCTC-T-C-AAT
38244290 TTCTCTCAA-
1 TTCTCTCAAT
*
38244299 --ATC-CATAT
1 TTCTCTCA-AT
*
38244307 TTAATCTCAAT
1 TT-CTCTCAAT
38244318 TTGCTCTCAAT
1 TT-CTCTCAAT
38244329 TTCTCTCAAAT
1 TTCTCTC-AAT
38244340 TTCTCT
1 TTCTCT
38244346 TAAATCCCTA
Statistics
Matches: 80, Mismatches: 6, Indels: 29
0.70 0.05 0.25
Matches are distributed among these distances:
6 2 0.03
7 3 0.04
9 3 0.04
10 12 0.15
11 46 0.57
12 11 0.14
13 3 0.04
ACGTcount: A:0.23, C:0.29, G:0.02, T:0.47
Consensus pattern (10 bp):
TTCTCTCAAT
Found at i:38248423 original size:66 final size:66
Alignment explanation
Indices: 38248317--38248442 Score: 243
Period size: 66 Copynumber: 1.9 Consensus size: 66
38248307 GTTTATATTA
*
38248317 CAGGGGATTTAGCTTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCTATCTT
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCTATCTT
38248382 G
66 G
38248383 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCT
1 CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCT
38248443 CTCTGAAATG
Statistics
Matches: 59, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
66 59 1.00
ACGTcount: A:0.18, C:0.17, G:0.37, T:0.27
Consensus pattern (66 bp):
CAGGGGATTTAGCCTGGACTGGTAATCCCGCTGTAAGGATGAGGTTCGCGGGAGTGTGCTATCTT
G
Found at i:38251754 original size:23 final size:22
Alignment explanation
Indices: 38251711--38251768 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
38251701 AAAGGGTATC
* *
38251711 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
38251732 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
38251755 TGCATATCATATCT
1 TACAAATCATATCT
38251769 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:38254510 original size:17 final size:18
Alignment explanation
Indices: 38254478--38254511 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
38254468 TATTTAAGCT
38254478 ATTGATTATATTATTTAG
1 ATTGATTATATTATTTAG
*
38254496 ATTGA-TATTTTATTTA
1 ATTGATTATATTATTTA
38254512 TTATTGATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.32, C:0.00, G:0.09, T:0.59
Consensus pattern (18 bp):
ATTGATTATATTATTTAG
Found at i:38254517 original size:18 final size:17
Alignment explanation
Indices: 38254477--38254519 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
38254467 CTATTTAAGC
38254477 TATTGATTATATTATTTA
1 TATTGA-TATATTATTTA
* *
38254495 GATTGATATTTTATTTA
1 TATTGATATATTATTTA
38254512 TTATTGAT
1 -TATTGAT
38254520 TTAGGTTAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
17 10 0.48
18 11 0.52
ACGTcount: A:0.30, C:0.00, G:0.09, T:0.60
Consensus pattern (17 bp):
TATTGATATATTATTTA
Found at i:38261671 original size:12 final size:13
Alignment explanation
Indices: 38261654--38261682 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
38261644 CTCATACATG
38261654 AATAAATAAA-GC
1 AATAAATAAATGC
38261666 AATAAATAAATGC
1 AATAAATAAATGC
38261679 AATA
1 AATA
38261683 GTTATAGCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 10 0.62
13 6 0.38
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (13 bp):
AATAAATAAATGC
Found at i:38268215 original size:16 final size:17
Alignment explanation
Indices: 38268194--38268227 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
38268184 CCATTTACTT
38268194 TCCCC-TAAAATTTTAC
1 TCCCCTTAAAATTTTAC
*
38268210 TCCCCTTAAACTTTTAC
1 TCCCCTTAAAATTTTAC
38268227 T
1 T
38268228 TCTCACCCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.26, C:0.32, G:0.00, T:0.41
Consensus pattern (17 bp):
TCCCCTTAAAATTTTAC
Found at i:38272185 original size:41 final size:41
Alignment explanation
Indices: 38272140--38272267 Score: 152
Period size: 41 Copynumber: 3.1 Consensus size: 41
38272130 CTAAACGTCG
*
38272140 CTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGTGCCA
1 CTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGCGCCA
* * ** * *
38272181 CTAATTCTCTGT-TCTTTAGCAGCGTTTTTGTC-GAAGCGCCG
1 CTAATGCTC-GTATCATTAGTGGCGTTTTTATCTG-AGCGCCA
*
38272222 CTAATGCTCGTATCATTAGTGGCATTTTTATCTGAGCGCCA
1 CTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGCGCCA
38272263 CTAAT
1 CTAAT
38272268 TCTCTGTTCT
Statistics
Matches: 69, Mismatches: 14, Indels: 8
0.76 0.15 0.09
Matches are distributed among these distances:
40 3 0.04
41 63 0.91
42 3 0.04
ACGTcount: A:0.20, C:0.22, G:0.20, T:0.38
Consensus pattern (41 bp):
CTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGCGCCA
Found at i:38272250 original size:82 final size:82
Alignment explanation
Indices: 38272112--38272307 Score: 313
Period size: 82 Copynumber: 2.4 Consensus size: 82
38272102 TTTTTTAAAC
* * * *
38272112 CTTTAGCGGCGTTTTTGTCTAAACGTCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGT
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCATTTTTATCTGAGC
38272177 GCCACTAATTCTCTGTT
66 GCCACTAATTCTCTGTT
* *
38272194 CTTTAGCAGCGTTTTTGTCGAAGCGCCGCTAATGCTCGTATCATTAGTGGCATTTTTATCTGAGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCATTTTTATCTGAGC
38272259 GCCACTAATTCTCTGTT
66 GCCACTAATTCTCTGTT
*
38272276 CTTTAGCGGCATTTTT-TGCTAAGCGCCGCTAA
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAA
38272308 AGTTCGTGTT
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
81 1 0.01
82 103 0.99
ACGTcount: A:0.18, C:0.22, G:0.21, T:0.39
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCATTTTTATCTGAGC
GCCACTAATTCTCTGTT
Found at i:38272287 original size:41 final size:41
Alignment explanation
Indices: 38272155--38272291 Score: 152
Period size: 41 Copynumber: 3.3 Consensus size: 41
38272145 GCTCGTATCA
* * *
38272155 TTAGTGGCGTTTTTATCTGAGTGCCACTAATTCTCTGTTCT
1 TTAGCGGCATTTTTATCTGAGCGCCACTAATTCTCTGTTCT
* * * * * *
38272196 TTAGCAGCGTTTTTGTC-GAAGCGCCGCTAATGCTC-GTATCA
1 TTAGCGGCATTTTTATCTG-AGCGCCACTAATTCTCTGT-TCT
*
38272237 TTAGTGGCATTTTTATCTGAGCGCCACTAATTCTCTGTTCT
1 TTAGCGGCATTTTTATCTGAGCGCCACTAATTCTCTGTTCT
38272278 TTAGCGGCATTTTT
1 TTAGCGGCATTTTT
38272292 TGCTAAGCGC
Statistics
Matches: 77, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
40 3 0.04
41 71 0.92
42 3 0.04
ACGTcount: A:0.17, C:0.21, G:0.20, T:0.42
Consensus pattern (41 bp):
TTAGCGGCATTTTTATCTGAGCGCCACTAATTCTCTGTTCT
Found at i:38272301 original size:41 final size:41
Alignment explanation
Indices: 38272177--38272307 Score: 133
Period size: 41 Copynumber: 3.2 Consensus size: 41
38272167 TTATCTGAGT
* * *
38272177 GCCACTAATTCTCTGTTCTTTAGCAGC-GTTTTTGTCGAAGC
1 GCCACTAATTCTCTGTTCTTTAGCGGCATTTTTTG-CTAAGC
* * * * *
38272218 GCCGCTAATGCTC-GTATCATTAGTGGCATTTTTAT-CTGAGC
1 GCCACTAATTCTCTGT-TCTTTAGCGGCATTTTT-TGCTAAGC
38272259 GCCACTAATTCTCTGTTCTTTAGCGGCATTTTTTGCTAAGC
1 GCCACTAATTCTCTGTTCTTTAGCGGCATTTTTTGCTAAGC
*
38272300 GCCGCTAA
1 GCCACTAA
38272308 AGTTCGTGTT
Statistics
Matches: 71, Mismatches: 14, Indels: 10
0.75 0.15 0.11
Matches are distributed among these distances:
40 3 0.04
41 61 0.86
42 6 0.08
43 1 0.01
ACGTcount: A:0.18, C:0.24, G:0.20, T:0.37
Consensus pattern (41 bp):
GCCACTAATTCTCTGTTCTTTAGCGGCATTTTTTGCTAAGC
Found at i:38273456 original size:10 final size:10
Alignment explanation
Indices: 38273441--38273479 Score: 51
Period size: 10 Copynumber: 3.7 Consensus size: 10
38273431 TATTTTTACT
38273441 TATATATGGA
1 TATATATGGA
*
38273451 TATATATGAATA
1 TATATATG--GA
38273463 TATATATGGA
1 TATATATGGA
38273473 TATATAT
1 TATATAT
38273480 AGTTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
10 16 0.64
12 9 0.36
ACGTcount: A:0.44, C:0.00, G:0.13, T:0.44
Consensus pattern (10 bp):
TATATATGGA
Found at i:38273456 original size:12 final size:12
Alignment explanation
Indices: 38273441--38273480 Score: 57
Period size: 12 Copynumber: 3.5 Consensus size: 12
38273431 TATTTTTACT
38273441 TATATATGG--A
1 TATATATGGATA
*
38273451 TATATATGAATA
1 TATATATGGATA
38273463 TATATATGGATA
1 TATATATGGATA
38273475 TATATA
1 TATATA
38273481 GTTATTAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
10 8 0.31
12 18 0.69
ACGTcount: A:0.45, C:0.00, G:0.12, T:0.42
Consensus pattern (12 bp):
TATATATGGATA
Found at i:38273586 original size:27 final size:27
Alignment explanation
Indices: 38273545--38273596 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
38273535 AATAAACAAA
* *
38273545 TAAATAAGTTAGTAATTATTTATTTGT
1 TAAATAAATTAGTAATTAATTATTTGT
*
38273572 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATTAGTAATTAATTATTT
38273597 AAAAGTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (27 bp):
TAAATAAATTAGTAATTAATTATTTGT
Found at i:38276168 original size:29 final size:29
Alignment explanation
Indices: 38276126--38276196 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
38276116 TACTTCAAAT
*
38276126 TAATGAATAGTTATCGATCTTAACTTACA
1 TAATGAATAATTATCGATCTTAACTTACA
*
38276155 TAATGACTAATTATCGATCTTAACTTACA
1 TAATGAATAATTATCGATCTTAACTTACA
38276184 TAATGAATAATTA
1 TAATGAATAATTA
38276197 AAATTATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (29 bp):
TAATGAATAATTATCGATCTTAACTTACA
Found at i:38276461 original size:9 final size:9
Alignment explanation
Indices: 38276443--38277159 Score: 83
Period size: 9 Copynumber: 83.1 Consensus size: 9
38276433 CTTATATTTA
*
38276443 AACTTTCAT
1 AACTTACAT
38276452 AACTTACAT
1 AACTTACAT
*
38276461 AA-TAACAT
1 AACTTACAT
38276469 ATGGACTTACAT
1 A---ACTTACAT
*
38276481 TA--TACAT
1 AACTTACAT
* * *
38276488 AGCATACGT
1 AACTTACAT
38276497 AACTTACAT
1 AACTTACAT
*
38276506 AA--TACAA
1 AACTTACAT
38276513 AACTTACAT
1 AACTTACAT
*
38276522 AACTTAAAT
1 AACTTACAT
* *
38276531 ATCTTACAC
1 AACTTACAT
*
38276540 AACTTACAC
1 AACTTACAT
*
38276549 AACTTAAAT
1 AACTTACAT
* *
38276558 AATTTAAAT
1 AACTTACAT
38276567 AACTTACAT
1 AACTTACAT
38276576 AA--TACAT
1 AACTTACAT
*
38276583 AATATGATACAT
1 AA-CT--TACAT
*
38276595 AAATTACATT
1 AACTTACA-T
*
38276605 AATATGATACAT
1 AA-CT--TACAT
*
38276617 AAATTACAT
1 AACTTACAT
38276626 AACTTA-ATT
1 AACTTACA-T
38276635 AA-TTA-AT
1 AACTTACAT
38276642 -A--TACAT
1 AACTTACAT
*
38276648 AAGTTACAT
1 AACTTACAT
**
38276657 AACTTAGTT
1 AACTTACAT
38276666 AA-TTA-AT
1 AACTTACAT
38276673 -A--TACAT
1 AACTTACAT
*
38276679 AAGTTACAT
1 AACTTACAT
38276688 AACTTA-ATT
1 AACTTACA-T
38276697 AA-TTA-AT
1 AACTTACAT
38276704 -A--TACAT
1 AACTTACAT
*
38276710 AAGTTACATT
1 AACTTACA-T
38276720 AA-TTA-ATT
1 AACTTACA-T
38276728 AA-TATACAT
1 AACT-TACAT
*
38276737 AAATTACATT
1 AACTTACA-T
*
38276747 AATATGATACAT
1 AA-CT--TACAT
*
38276759 AAATTACAT
1 AACTTACAT
38276768 AACTTA-ATT
1 AACTTACA-T
38276777 AA-TTA-AT
1 AACTTACAT
38276784 -A--TACAT
1 AACTTACAT
*
38276790 AAGTTACAT
1 AACTTACAT
38276799 AACTTACATT
1 AACTTACA-T
*
38276809 AATATGATACAT
1 AA-CT--TACAT
* *
38276821 AAATTACAAA
1 AACTTAC-AT
* *
38276831 AAATTGC--
1 AACTTACAT
38276838 AA-TTA-AT
1 AACTTACAT
*
38276845 -ATTATACATAT
1 AACT-TAC--AT
38276856 AACTTAC--
1 AACTTACAT
38276863 AACTTACAT
1 AACTTACAT
38276872 AACTTAC--
1 AACTTACAT
*
38276879 AACTTAAAT
1 AACTTACAT
38276888 AACTTACAT
1 AACTTACAT
38276897 AACTTACATT
1 AACTTACA-T
***
38276907 TTTTTA-AT
1 AACTTACAT
*
38276915 TA-TT-CAT
1 AACTTACAT
*
38276922 AAATTACAT
1 AACTTACAT
38276931 AACTTA-AT
1 AACTTACAT
* *
38276939 TAGTTA-AT
1 AACTTACAT
38276947 -A--TACAT
1 AACTTACAT
*
38276953 AAATTACAT
1 AACTTACAT
38276962 AACTTA-ATT
1 AACTTACA-T
38276971 AA-TTAC-T
1 AACTTACAT
*
38276978 CAGTATTATACAT
1 -A--ACT-TACAT
*
38276991 AAATTACAT
1 AACTTACAT
**
38277000 AACTTAGTT
1 AACTTACAT
38277009 AA-TTA-AT
1 AACTTACAT
**
38277016 -GTTATACAT
1 AACT-TACAT
38277025 AACTTAC--
1 AACTTACAT
38277032 AACTTACAT
1 AACTTACAT
38277041 AACTTAC--
1 AACTTACAT
38277048 AACTTACAT
1 AACTTACAT
38277057 AACTTACAAT
1 AACTTAC-AT
***
38277067 TTTTTA-AT
1 AACTTACAT
* *
38277075 TA-TT-CGT
1 AACTTACAT
*
38277082 AAATTACAT
1 AACTTACAT
*
38277091 AACTTACTT
1 AACTTACAT
* *
38277100 AATTTTCAT
1 AACTTACAT
*
38277109 AA--TAAAT
1 AACTTACAT
38277116 AACTTAC--
1 AACTTACAT
38277123 AACTTACAT
1 AACTTACAT
* *
38277132 AACTTATAC
1 AACTTACAT
* *
38277141 GACATACAT
1 AACTTACAT
38277150 AACTTACAT
1 AACTTACAT
38277159 A
1 A
38277160 GCATAATTTG
Statistics
Matches: 538, Mismatches: 77, Indels: 186
0.67 0.10 0.23
Matches are distributed among these distances:
5 10 0.02
6 17 0.03
7 82 0.15
8 59 0.11
9 276 0.51
10 34 0.06
11 20 0.04
12 27 0.05
13 13 0.02
ACGTcount: A:0.46, C:0.14, G:0.03, T:0.37
Consensus pattern (9 bp):
AACTTACAT
Found at i:38276646 original size:31 final size:31
Alignment explanation
Indices: 38276590--38277015 Score: 329
Period size: 31 Copynumber: 13.7 Consensus size: 31
38276580 CATAATATGA
*
38276590 TACATAAATTACATTAA-T-ATGATACATAAAT
1 TACATAACTTA-ATTAATTAAT-ATACATAAAT
*
38276621 TACATAACTTAATTAATTAATATACATAAGT
1 TACATAACTTAATTAATTAATATACATAAAT
* *
38276652 TACATAACTTAGTTAATTAATATACATAAGT
1 TACATAACTTAATTAATTAATATACATAAAT
*
38276683 TACATAACTTAATTAATTAATATACATAAGT
1 TACATAACTTAATTAATTAATATACATAAAT
38276714 TAC---A-TTAATTAATTAATATACATAAAT
1 TACATAACTTAATTAATTAATATACATAAAT
*
38276741 TAC---A-TTAA-T-A-T--GATACATAAAT
1 TACATAACTTAATTAATTAATATACATAAAT
*
38276763 TACATAACTTAATTAATTAATATACATAAGT
1 TACATAACTTAATTAATTAATATACATAAAT
38276794 TACATAACTTACATTAA-T-ATGATACATAAAT
1 TACATAACTTA-ATTAATTAAT-ATACATAAAT
* * *
38276825 TACAAAAAATTGCAATTAA-TATTATACATATAACT
1 TAC-ATAACTT--AATTAATTAATATACATA-AA-T
* *
38276860 TAC--AACTTACA-TAACTTACA-ACTTAAATAACT
1 TACATAACTTA-ATTAA-TTA-ATA--TACATAAAT
** *
38276892 TACATAACTTACATTTTTTTAATTATTCATAAAT
1 TACATAACTTA-A-TTAATTAA-TATACATAAAT
*
38276926 TACATAACTTAATTAGTTAATATACATAAAT
1 TACATAACTTAATTAATTAATATACATAAAT
38276957 TACATAACTTAATTAATTACTCAGTATTATACATAAAT
1 TACATAACTTAATTAA-T--T-A--A-TATACATAAAT
*
38276995 TACATAACTTAGTTAATTAAT
1 TACATAACTTAATTAATTAAT
38277016 GTTATACATA
Statistics
Matches: 331, Mismatches: 26, Indels: 76
0.76 0.06 0.18
Matches are distributed among these distances:
22 13 0.04
24 1 0.00
25 2 0.01
26 5 0.02
27 31 0.09
28 2 0.01
29 1 0.00
30 11 0.03
31 143 0.43
32 31 0.09
33 15 0.05
34 37 0.11
35 9 0.03
36 2 0.01
37 2 0.01
38 26 0.08
ACGTcount: A:0.47, C:0.11, G:0.03, T:0.38
Consensus pattern (31 bp):
TACATAACTTAATTAATTAATATACATAAAT
Found at i:38276647 original size:142 final size:140
Alignment explanation
Indices: 38276501--38276807 Score: 392
Period size: 142 Copynumber: 2.2 Consensus size: 140
38276491 ATACGTAACT
*
38276501 TACATAA-TACAAAACTTACATAACTTAAATATCTTACACAACTTACACAACTTAAATAATT-TA
1 TACATAAGTACATAACTTACATAA-TT-AATA---TACACAACTTACACAACTTAAATAATTATA
38276564 -A-ATAACTTACA-TAA-TACATAATATGATACATAAATTACATTAATATGATACATAAATTACA
61 TACATAACTTACATTAATTA-ATAA-AT-ATACATAAATTACATTAATATGATACATAAATTACA
38276625 TAACTTAATTAATTAATA
123 TAACTTAATTAATTAATA
** * * * *
38276643 TACATAAGTTACATAACTTAGTTAATTAATATACATAAGTTACATAACTTAATTAATTAATATAC
1 TACATAAG-TACATAACTTACATAATTAATATACACAACTTACACAACTTAAATAATT-ATATAC
* *
38276708 ATAAGTTACATTAATTAATTAATATACATAAATTACATTAATATGATACATAAATTACATAACTT
64 ATAACTTACATTAATTAATAAATATACATAAATTACATTAATATGATACATAAATTACATAACTT
38276773 AATTAATTAATA
129 AATTAATTAATA
38276785 TACATAAGTTACATAACTTACAT
1 TACATAAG-TACATAACTTACAT
38276808 TAATATGATA
Statistics
Matches: 146, Mismatches: 11, Indels: 16
0.84 0.06 0.09
Matches are distributed among these distances:
139 23 0.16
141 2 0.01
142 87 0.60
143 13 0.09
144 19 0.13
145 2 0.01
ACGTcount: A:0.49, C:0.12, G:0.03, T:0.36
Consensus pattern (140 bp):
TACATAAGTACATAACTTACATAATTAATATACACAACTTACACAACTTAAATAATTATATACAT
AACTTACATTAATTAATAAATATACATAAATTACATTAATATGATACATAAATTACATAACTTAA
TTAATTAATA
Found at i:38276756 original size:22 final size:22
Alignment explanation
Indices: 38276731--38276828 Score: 91
Period size: 22 Copynumber: 4.6 Consensus size: 22
38276721 ATTAATTAAT
38276731 ATACATAAATTACATTAATATG
1 ATACATAAATTACATTAATATG
*
38276753 ATACATAAATTACA-TAA-CT-
1 ATACATAAATTACATTAATATG
* *
38276772 -TA-ATTAATTA-ATATACATAAG
1 ATACATAAATTACAT-TA-ATATG
* *
38276793 TTACATAACTTACATTAATATG
1 ATACATAAATTACATTAATATG
38276815 ATACATAAATTACA
1 ATACATAAATTACA
38276829 AAAAATTGCA
Statistics
Matches: 59, Mismatches: 9, Indels: 16
0.70 0.11 0.19
Matches are distributed among these distances:
16 1 0.02
17 7 0.12
18 4 0.07
19 1 0.02
20 1 0.02
21 3 0.05
22 32 0.54
23 8 0.14
24 2 0.03
ACGTcount: A:0.50, C:0.11, G:0.03, T:0.36
Consensus pattern (22 bp):
ATACATAAATTACATTAATATG
Found at i:38276766 original size:111 final size:111
Alignment explanation
Indices: 38276565--38276828 Score: 337
Period size: 111 Copynumber: 2.4 Consensus size: 111
38276555 AATAATTTAA
* *
38276565 ATAACTTACATAA--TACA-TAATATGATACATAAATTACATTAATATGA-TACATAAATTACAT
1 ATAAGTTACATAACTTACATTAATATGATACATAAATTACATTAAT-TAATTA-AT--A-TACAT
* * *
38276626 AACTTAATTAATTAATATACATAAGTTACATAACTTAGTTAATTAATATAC
61 AAATTAATTAATTAATATACATAAATTACATAACTTAATTAATTAATATAC
*
38276677 ATAAGTTACATAACTTA-ATTAATTAAT-ATACATAAGTTACATTAATTAATTAATATACATAAA
1 ATAAGTTACATAACTTACATTAA-T-ATGATACATAAATTACATTAATTAATTAATATACATAAA
38276740 TTACATTAA-T-ATGATACATAAATTACATAACTTAATTAATTAATATAC
64 TTA-ATTAATTAAT-ATACATAAATTACATAACTTAATTAATTAATATAC
38276788 ATAAGTTACATAACTTACATTAATATGATACATAAATTACA
1 ATAAGTTACATAACTTACATTAATATGATACATAAATTACA
38276829 AAAAATTGCA
Statistics
Matches: 135, Mismatches: 7, Indels: 21
0.83 0.04 0.13
Matches are distributed among these distances:
110 4 0.03
111 75 0.56
112 23 0.17
113 1 0.01
114 9 0.07
115 21 0.16
116 2 0.01
ACGTcount: A:0.49, C:0.10, G:0.03, T:0.37
Consensus pattern (111 bp):
ATAAGTTACATAACTTACATTAATATGATACATAAATTACATTAATTAATTAATATACATAAATT
AATTAATTAATATACATAAATTACATAACTTAATTAATTAATATAC
Found at i:38276875 original size:16 final size:16
Alignment explanation
Indices: 38276854--38276905 Score: 77
Period size: 16 Copynumber: 3.1 Consensus size: 16
38276844 TATTATACAT
38276854 ATAACTTACAACTTAC
1 ATAACTTACAACTTAC
*
38276870 ATAACTTACAACTTAA
1 ATAACTTACAACTTAC
38276886 ATAACTTACATAACTTAC
1 ATAACTTAC--AACTTAC
38276904 AT
1 AT
38276906 TTTTTTAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
16 24 0.75
18 8 0.25
ACGTcount: A:0.46, C:0.21, G:0.00, T:0.33
Consensus pattern (16 bp):
ATAACTTACAACTTAC
Found at i:38276932 original size:163 final size:165
Alignment explanation
Indices: 38276756--38277064 Score: 441
Period size: 163 Copynumber: 1.9 Consensus size: 165
38276746 TAATATGATA
*
38276756 CATAAATTACATAACTTAATTAATTAATATACATAAGTTACATAACTTACATTAA-TA-T-G-AT
1 CATAAATTACATAACTTAATTAATTAATATACATAAATTACATAACTTA-ATTAATTACTAGTAT
38276817 ACATAAATTACAAAAAATT-G-CAATTAATATTATACATATAACTTACAACTTACATAACTTACA
65 ACATAAATTAC-AAAAATTAGTCAATTAATATTATAC--ATAACTTACAACTTACATAACTTACA
38276880 ACTTAAATAACTTACATAACTTACATTTTTTTAATTATT
127 ACTTAAATAACTTACATAACTTACATTTTTTTAATTATT
*
38276919 CATAAATTACATAACTTAATTAGTTAATATACATAAATTACATAACTTAATTAATTACTCAGTAT
1 CATAAATTACATAACTTAATTAATTAATATACATAAATTACATAACTTAATTAATTACT-AG---
* * * *
38276984 TATACATAAATTACATAACTTAGTTAATTAATGTTATACATAACTTACAACTTACATAACTTACA
62 TATACATAAATTACAAAAATTAGTCAATTAATATTATACATAACTTACAACTTACATAACTTACA
*
38277049 ACTTACATAACTTACA
127 ACTTAAATAACTTACA
38277065 ATTTTTTAAT
Statistics
Matches: 129, Mismatches: 7, Indels: 14
0.86 0.05 0.09
Matches are distributed among these distances:
162 5 0.04
163 49 0.38
164 1 0.01
166 1 0.01
169 46 0.36
170 14 0.11
171 13 0.10
ACGTcount: A:0.46, C:0.14, G:0.02, T:0.38
Consensus pattern (165 bp):
CATAAATTACATAACTTAATTAATTAATATACATAAATTACATAACTTAATTAATTACTAGTATA
CATAAATTACAAAAATTAGTCAATTAATATTATACATAACTTACAACTTACATAACTTACAACTT
AAATAACTTACATAACTTACATTTTTTTAATTATT
Found at i:38277041 original size:16 final size:16
Alignment explanation
Indices: 38277020--38277065 Score: 92
Period size: 16 Copynumber: 2.9 Consensus size: 16
38277010 ATTAATGTTA
38277020 TACATAACTTACAACT
1 TACATAACTTACAACT
38277036 TACATAACTTACAACT
1 TACATAACTTACAACT
38277052 TACATAACTTACAA
1 TACATAACTTACAA
38277066 TTTTTTAATT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 30 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (16 bp):
TACATAACTTACAACT
Found at i:38277092 original size:91 final size:93
Alignment explanation
Indices: 38276990--38277226 Score: 247
Period size: 91 Copynumber: 2.6 Consensus size: 93
38276980 GTATTATACA
* * * * *
38276990 TAAATTACATAACTTAGTTAATTAAT-GTTATACATAACTTACAACTTACATAAC-T-TACAACT
1 TAAATTACATAACTTACTTAATT-ATCATAATAAATAACTTACAACTTACATAACTTATACAACA
38277052 TACATAACTTACAATTTTTTAATTATTCG
65 TACATAACTTACAATTTTTTAATTATTCG
* *
38277081 TAAATTACATAACTTACTTAATTTTCATAATAAATAACTTACAACTTACATAACTTATACGACAT
1 TAAATTACATAACTTACTTAATTATCATAATAAATAACTTACAACTTACATAACTTATACAACAT
**** *
38277146 ACATAACTTAC-ATAGCATAATT-TGAC-
66 ACATAACTTACAATTTTTTAATTAT-TCG
* * * **
38277172 T-AA-TACACAACTTACATAATTTTCATAATAAATAACTTACAAAATACATAACTTA
1 TAAATTACATAACTTACTTAATTATCATAATAAATAACTTACAACTTACATAACTTA
38277227 CGTAGCTTAG
Statistics
Matches: 126, Mismatches: 16, Indels: 10
0.83 0.11 0.07
Matches are distributed among these distances:
89 48 0.38
90 3 0.02
91 49 0.39
92 9 0.07
93 17 0.13
ACGTcount: A:0.44, C:0.16, G:0.03, T:0.37
Consensus pattern (93 bp):
TAAATTACATAACTTACTTAATTATCATAATAAATAACTTACAACTTACATAACTTATACAACAT
ACATAACTTACAATTTTTTAATTATTCG
Found at i:38282734 original size:66 final size:66
Alignment explanation
Indices: 38282627--38282753 Score: 184
Period size: 66 Copynumber: 1.9 Consensus size: 66
38282617 AGCAAATTAC
* * *
38282627 ACAACTTAAAGCGGAGGCAACATCGAGAGAAGCTGATGTTCAAAG-AAGATATGAAGAACTCTAG
1 ACAACTTAAAGCGGAGGCAACAGCGAGAGAAGCTAAGGTTCAAAGAAAG-TATGAAGAACTCTAG
38282691 CT
65 CT
* * *
38282693 ACAACTTAAAGCGGATGCAGCAGCGAGAGAAGCTAAGGTTCAACGAAAGTATGAAGAACTC
1 ACAACTTAAAGCGGAGGCAACAGCGAGAGAAGCTAAGGTTCAAAGAAAGTATGAAGAACTC
38282754 CAGCAGCAGC
Statistics
Matches: 54, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 51 0.94
67 3 0.06
ACGTcount: A:0.41, C:0.17, G:0.25, T:0.17
Consensus pattern (66 bp):
ACAACTTAAAGCGGAGGCAACAGCGAGAGAAGCTAAGGTTCAAAGAAAGTATGAAGAACTCTAGC
T
Found at i:38282853 original size:20 final size:18
Alignment explanation
Indices: 38282798--38282863 Score: 51
Period size: 19 Copynumber: 3.4 Consensus size: 18
38282788 AGCGAGCGGC
*
38282798 AGCGAAGAAGTACAGGCTA
1 AGCGAGGAAGTA-AGGCTA
* * *
38282817 CGCGAGGAAGCAGGGCTAA
1 AGCGAGGAAGTAAGGCT-A
*
38282836 AGCGAGGGAAGTAAGGCTGC
1 AGCGA-GGAAGTAAGGCT-A
38282856 AGCGAGGA
1 AGCGAGGA
38282864 GAGAGCAGCG
Statistics
Matches: 36, Mismatches: 9, Indels: 4
0.73 0.18 0.08
Matches are distributed among these distances:
18 4 0.11
19 17 0.47
20 15 0.42
ACGTcount: A:0.35, C:0.17, G:0.41, T:0.08
Consensus pattern (18 bp):
AGCGAGGAAGTAAGGCTA
Found at i:38293336 original size:41 final size:41
Alignment explanation
Indices: 38293272--38293464 Score: 196
Period size: 41 Copynumber: 4.7 Consensus size: 41
38293262 TTTTAAACCT
* *
38293272 TTAGCGGCGTTTTTGTATAAGCGCCGCTAATGCTCGTATCA
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGTATCA
* * * * *
38293313 TTAGTGGCGTTTTTATCTGAGCGCCACTAATTCTC-TATTCT
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGTA-TCA
* *
38293354 TTAGCGGCGTTTTTGTCTAAGCGCCGGTAATGCTCGTATCA
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGTATCA
* * * * *
38293395 TTAGTGGCGTTTTTAT-TGAGCGCCACTAATTCTCTGT-TCT
1 TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTC-GTATCA
*
38293435 TTAGCGGCATTTTT-TGCTAAGCGCCGCTAA
1 TTAGCGGCGTTTTTAT-CTAAGCGCCGCTAA
38293465 AGTTCGTGTT
Statistics
Matches: 122, Mismatches: 25, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.01
40 30 0.25
41 89 0.73
42 2 0.02
ACGTcount: A:0.18, C:0.22, G:0.22, T:0.38
Consensus pattern (41 bp):
TTAGCGGCGTTTTTATCTAAGCGCCGCTAATGCTCGTATCA
Found at i:38293459 original size:81 final size:82
Alignment explanation
Indices: 38293270--38293464 Score: 331
Period size: 82 Copynumber: 2.4 Consensus size: 82
38293260 TTTTTTAAAC
*
38293270 CTTTAGCGGCGTTTTTGTATAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
38293335 GCCACTAATTCTCTATT
66 GCCACTAATTCTCTATT
*
38293352 CTTTAGCGGCGTTTTTGTCTAAGCGCCGGTAATGCTCGTATCATTAGTGGCGTTTTTAT-TGAGC
1 CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
*
38293416 GCCACTAATTCTCTGTT
66 GCCACTAATTCTCTATT
*
38293433 CTTTAGCGGCATTTTT-TGCTAAGCGCCGCTAA
1 CTTTAGCGGCGTTTTTGT-CTAAGCGCCGCTAA
38293465 AGTTCGTGTT
Statistics
Matches: 107, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
80 1 0.01
81 49 0.46
82 57 0.53
ACGTcount: A:0.17, C:0.22, G:0.22, T:0.38
Consensus pattern (82 bp):
CTTTAGCGGCGTTTTTGTCTAAGCGCCGCTAATGCTCGTATCATTAGTGGCGTTTTTATCTGAGC
GCCACTAATTCTCTATT
Found at i:38294671 original size:8 final size:10
Alignment explanation
Indices: 38294649--38294685 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
38294639 TATTTTTACT
38294649 TATATATGGA
1 TATATATGGA
*
38294659 TATATATGAA
1 TATATATGGA
38294669 TATATATGGA
1 TATATATGGA
38294679 TATATAT
1 TATATAT
38294686 AGTTATTAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.43, C:0.00, G:0.14, T:0.43
Consensus pattern (10 bp):
TATATATGGA
Found at i:38294792 original size:27 final size:27
Alignment explanation
Indices: 38294751--38294802 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
38294741 AATAAACAAA
* *
38294751 TAAATAAGTTAGTAATTATTTATTTGT
1 TAAATAAATTAGTAATTAATTATTTGT
*
38294778 TAAATAAATTGGTAATTAATTATTT
1 TAAATAAATTAGTAATTAATTATTT
38294803 AAAAGTAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.10, T:0.50
Consensus pattern (27 bp):
TAAATAAATTAGTAATTAATTATTTGT
Found at i:38297353 original size:29 final size:29
Alignment explanation
Indices: 38297311--38297381 Score: 124
Period size: 29 Copynumber: 2.4 Consensus size: 29
38297301 TACTTCAAAT
*
38297311 TAATGAATAGTTATCGATCTTAACTTACA
1 TAATGAATAATTATCGATCTTAACTTACA
*
38297340 TAATGACTAATTATCGATCTTAACTTACA
1 TAATGAATAATTATCGATCTTAACTTACA
38297369 TAATGAATAATTA
1 TAATGAATAATTA
38297382 AAATTATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.41, C:0.13, G:0.08, T:0.38
Consensus pattern (29 bp):
TAATGAATAATTATCGATCTTAACTTACA
Done.