Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold48
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: 4619657
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 18863 characters in sequence are not A, C, G, or T
File 1 of 27
Found at i:2917 original size:1 final size:1
Alignment explanation
Indices: 2913--2952 Score: 71
Period size: 1 Copynumber: 40.0 Consensus size: 1
2903 AGACGGGCCA
*
2913 CCCCCCCCCGCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
2953 GCTTGTCGCC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.97, G:0.03, T:0.00
Consensus pattern (1 bp):
C
Found at i:7935 original size:41 final size:41
Alignment explanation
Indices: 7875--7956 Score: 121
Period size: 41 Copynumber: 2.0 Consensus size: 41
7865 ATCAATGATA
* * *
7875 TTCAAATACTATCATATGTAAAGTTACGT-TAATTGATTTCC
1 TTCAAATACCATCACATGTAAAGTTAC-TCCAATTGATTTCC
7916 TTCAAATACCATCACATGTAAAGTTACTCCAATTGATTTCC
1 TTCAAATACCATCACATGTAAAGTTACTCCAATTGATTTCC
7957 ATTGTCTTTG
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
40 1 0.03
41 36 0.97
ACGTcount: A:0.34, C:0.20, G:0.09, T:0.38
Consensus pattern (41 bp):
TTCAAATACCATCACATGTAAAGTTACTCCAATTGATTTCC
Found at i:16062 original size:24 final size:24
Alignment explanation
Indices: 16035--16080 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
16025 AATAAAAATT
16035 AGCCACCAA-TTTCGACAAACAACA
1 AGCCA-CAATTTTCGACAAACAACA
*
16059 AGCCACAATTTTTGACAAACAA
1 AGCCACAATTTTCGACAAACAA
16081 AAAGAAACCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.46, C:0.28, G:0.09, T:0.17
Consensus pattern (24 bp):
AGCCACAATTTTCGACAAACAACA
Found at i:16097 original size:27 final size:26
Alignment explanation
Indices: 16037--16133 Score: 99
Period size: 27 Copynumber: 3.7 Consensus size: 26
16027 TAAAAATTAG
* * *
16037 CCACCAATTTCGACAAACAACAAG--
1 CCACCATTTTTGACAAACAAAAAGAA
*
16061 CCACAATTTTTGACAAACAAAAAGAAA
1 CCACCATTTTTGACAAACAAAAAG-AA
* *
16088 CCACCATTTTTGACAAATACAAAGTAA
1 CCACCATTTTTGACAAACAAAAAG-AA
*
16115 CCACCATTGTTGACAAACA
1 CCACCATTTTTGACAAACA
16134 CATGGTGGCT
Statistics
Matches: 60, Mismatches: 10, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
24 20 0.33
27 40 0.67
ACGTcount: A:0.46, C:0.26, G:0.08, T:0.20
Consensus pattern (26 bp):
CCACCATTTTTGACAAACAAAAAGAA
Found at i:16152 original size:24 final size:25
Alignment explanation
Indices: 16121--16178 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
16111 GTAACCACCA
* *
16121 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGACTT
16145 TTGTTGACAAACACAAAGGGTGACTT
1 TTGTTGACAAACAC-AAGGGTGACTT
16171 TTGTTGAC
1 TTGTTGAC
16179 TAGCCACCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 14 0.47
26 16 0.53
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGACTT
Found at i:20664 original size:23 final size:25
Alignment explanation
Indices: 20630--20699 Score: 81
Period size: 24 Copynumber: 2.8 Consensus size: 25
20620 AATAAAAATT
20630 AGCCACCAA-TTTTGACAAACAACA
1 AGCCACCAATTTTTGACAAACAACA
*
20654 AGCCA-CAATTTTTGACAAACAAAA
1 AGCCACCAATTTTTGACAAACAACA
**
20678 AGAAACCACTATTTTTGACAAA
1 AGCCACCA--ATTTTTGACAAA
20700 TACAAAGTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
23 3 0.08
24 22 0.56
25 2 0.05
27 12 0.31
ACGTcount: A:0.47, C:0.23, G:0.09, T:0.21
Consensus pattern (25 bp):
AGCCACCAATTTTTGACAAACAACA
Found at i:20694 original size:27 final size:26
Alignment explanation
Indices: 20639--20728 Score: 85
Period size: 27 Copynumber: 3.5 Consensus size: 26
20629 TAGCCACCAA
*
20639 TTTTGACAAACAACAAG--CCACAAT
1 TTTTGACAAACAAAAAGAACCACAAT
*
20663 TTTTGACAAACAAAAAGAAACCACTAT
1 TTTTGACAAACAAAAAG-AACCACAAT
* * * *
20690 TTTTGACAAATACAAAGTAATCACCAT
1 TTTTGACAAACAAAAAG-AACCACAAT
*
20717 TGTTGACAAACA
1 TTTTGACAAACA
20729 CATGGTGGCT
Statistics
Matches: 54, Mismatches: 9, Indels: 3
0.82 0.14 0.05
Matches are distributed among these distances:
24 16 0.30
27 38 0.70
ACGTcount: A:0.47, C:0.20, G:0.09, T:0.24
Consensus pattern (26 bp):
TTTTGACAAACAAAAAGAACCACAAT
Found at i:20747 original size:24 final size:25
Alignment explanation
Indices: 20716--20773 Score: 82
Period size: 26 Copynumber: 2.3 Consensus size: 25
20706 GTAATCACCA
* *
20716 TTGTTGACAAACAC-ATGGTGGCTT
1 TTGTTGACAAACACAAGGGTGACTT
20740 TTGTTGACAAACACAAAGGGTGACTT
1 TTGTTGACAAACAC-AAGGGTGACTT
20766 TTGTTGAC
1 TTGTTGAC
20774 TAGCCACCCA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
24 14 0.47
26 16 0.53
ACGTcount: A:0.28, C:0.16, G:0.24, T:0.33
Consensus pattern (25 bp):
TTGTTGACAAACACAAGGGTGACTT
Found at i:21689 original size:11 final size:10
Alignment explanation
Indices: 21666--21700 Score: 54
Period size: 10 Copynumber: 3.5 Consensus size: 10
21656 ATAGATTGTT
21666 AAAA-AAAAA
1 AAAAGAAAAA
21675 AAAAGAAAGAA
1 AAAAGAAA-AA
21686 AAAAGAAAAA
1 AAAAGAAAAA
21696 AAAAG
1 AAAAG
21701 TTAAAGCAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 4 0.17
10 10 0.42
11 10 0.42
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (10 bp):
AAAAGAAAAA
Found at i:24110 original size:7 final size:8
Alignment explanation
Indices: 24094--24123 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
24084 GAGAAATCTC
24094 AAAAGAAA
1 AAAAGAAA
24102 AAAAGAAAA
1 AAAAG-AAA
24111 AAAAGAAA
1 AAAAGAAA
24119 AAAAG
1 AAAAG
24124 TTATAATGGA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (8 bp):
AAAAGAAA
Found at i:24113 original size:9 final size:9
Alignment explanation
Indices: 24094--24122 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
24084 GAGAAATCTC
24094 AAAAG-AAA
1 AAAAGAAAA
24102 AAAAGAAAA
1 AAAAGAAAA
24111 AAAAGAAAA
1 AAAAGAAAA
24120 AAA
1 AAA
24123 GTTATAATGG
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 5 0.25
9 15 0.75
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:30960 original size:19 final size:19
Alignment explanation
Indices: 30931--30981 Score: 84
Period size: 19 Copynumber: 2.7 Consensus size: 19
30921 GTAGAAATTT
*
30931 GTGGATGGCTATCCTTATG
1 GTGGGTGGCTATCCTTATG
*
30950 GTGTGTGGCTATCCTTATG
1 GTGGGTGGCTATCCTTATG
30969 GTGGGTGGCTATC
1 GTGGGTGGCTATC
30982 TCTAGTCAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 29 1.00
ACGTcount: A:0.12, C:0.16, G:0.35, T:0.37
Consensus pattern (19 bp):
GTGGGTGGCTATCCTTATG
Found at i:31063 original size:28 final size:28
Alignment explanation
Indices: 31001--31055 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
30991 CAAATGCCAC
31001 CCTTTGTATTTGTCAAATATGGTGGTTT
1 CCTTTGTATTTGTCAAATATGGTGGTTT
31029 CCTTTGTATTTGTCAAATATGGTGGTT
1 CCTTTGTATTTGTCAAATATGGTGGTT
31056 ATTTTTGTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.18, C:0.11, G:0.22, T:0.49
Consensus pattern (28 bp):
CCTTTGTATTTGTCAAATATGGTGGTTT
Found at i:31096 original size:24 final size:24
Alignment explanation
Indices: 31037--31105 Score: 75
Period size: 24 Copynumber: 2.8 Consensus size: 24
31027 TTCCTTTGTA
* * *
31037 TTTGTCAAATATGGTGGTTATTTTTG
1 TTTGTCAAAAATGGTGG--CTTGTTG
*
31063 TTTGTAAAAAATGGTGGCTTGTTG
1 TTTGTCAAAAATGGTGGCTTGTTG
*
31087 TTTGTCAAAATTGGTGGCT
1 TTTGTCAAAAATGGTGGCT
31106 AATTTTTTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
24 22 0.59
26 15 0.41
ACGTcount: A:0.22, C:0.06, G:0.26, T:0.46
Consensus pattern (24 bp):
TTTGTCAAAAATGGTGGCTTGTTG
Found at i:31207 original size:15 final size:13
Alignment explanation
Indices: 31175--31204 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
31165 TCTTGTATCC
31175 CTCTTAAGCATCT
1 CTCTTAAGCATCT
*
31188 CTCTTAAGCATCC
1 CTCTTAAGCATCT
31201 CTCT
1 CTCT
31205 CTTGTATCCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.20, C:0.37, G:0.07, T:0.37
Consensus pattern (13 bp):
CTCTTAAGCATCT
Found at i:32824 original size:30 final size:28
Alignment explanation
Indices: 32788--32857 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 28
32778 CTGGTGGTTA
32788 TAATTTTTAAATTTAAAATTAATTCTGATT
1 TAATTTTTAAATTTAAAA--AATTCTGATT
*
32818 TAATTTTT---TTTAAAAAATTTTGATT
1 TAATTTTTAAATTTAAAAAATTCTGATT
*
32843 TGATTTTTTAAATTT
1 T-AATTTTTAAATTT
32858 TAGATTTTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
25 10 0.29
26 6 0.18
27 7 0.21
29 3 0.09
30 8 0.24
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.59
Consensus pattern (28 bp):
TAATTTTTAAATTTAAAAAATTCTGATT
Found at i:37927 original size:20 final size:21
Alignment explanation
Indices: 37902--37940 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
37892 TCGATTCTGA
*
37902 TTTGATTT-TTTTTTAAAACT
1 TTTGATTTGATTTTTAAAACT
37922 TTTGATTTGATTTTTAAAA
1 TTTGATTTGATTTTTAAAA
37941 ATTGTAGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.28, C:0.03, G:0.08, T:0.62
Consensus pattern (21 bp):
TTTGATTTGATTTTTAAAACT
Found at i:41201 original size:22 final size:22
Alignment explanation
Indices: 41151--41203 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
41141 TGAACTTAAT
* * *
41151 TTAACCCAAGCATTAAACCCGA
1 TTAACCCGAGCATTAAACACAA
41173 TTAACCCGAGCATTAAACACAA
1 TTAACCCGAGCATTAAACACAA
*
41195 TTGACCCGA
1 TTAACCCGA
41204 ATCCAAAACG
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.40, C:0.30, G:0.11, T:0.19
Consensus pattern (22 bp):
TTAACCCGAGCATTAAACACAA
Found at i:46163 original size:18 final size:18
Alignment explanation
Indices: 46125--46160 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
46115 AAATTTAATT
46125 ATAAAAATATATATATTA
1 ATAAAAATATATATATTA
*
46143 ATAAAAATA-ATATTTTA
1 ATAAAAATATATATATTA
46160 A
1 A
46161 ATATTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (18 bp):
ATAAAAATATATATATTA
Found at i:46458 original size:21 final size:21
Alignment explanation
Indices: 46434--46476 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
46424 TCTCATTCCA
* *
46434 TTTATAAAATTTTTATTGTTT
1 TTTATAAAATATTCATTGTTT
46455 TTTATAAAATATTCATTGTTT
1 TTTATAAAATATTCATTGTTT
46476 T
1 T
46477 AATGATTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.05, T:0.63
Consensus pattern (21 bp):
TTTATAAAATATTCATTGTTT
Found at i:49869 original size:22 final size:22
Alignment explanation
Indices: 49835--49894 Score: 93
Period size: 22 Copynumber: 2.7 Consensus size: 22
49825 TTGGTTAGTA
*
49835 GAGCAGCTGCTGTTGGCTGCTG
1 GAGCAGCTACTGTTGGCTGCTG
**
49857 GAGTGGCTACTGTTGGCTGCTG
1 GAGCAGCTACTGTTGGCTGCTG
49879 GAGCAGCTACTGTTGG
1 GAGCAGCTACTGTTGG
49895 TTTACTTTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.12, C:0.20, G:0.40, T:0.28
Consensus pattern (22 bp):
GAGCAGCTACTGTTGGCTGCTG
Found at i:49989 original size:15 final size:16
Alignment explanation
Indices: 49955--49991 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
49945 TTTTTATTTT
*
49955 CTTGCTGATCGTATTG
1 CTTGCTGATCATATTG
49971 CTTGCTGATCATA-TG
1 CTTGCTGATCATATTG
49986 CTTGCT
1 CTTGCT
49992 CGTATTGCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 8 0.40
16 12 0.60
ACGTcount: A:0.14, C:0.22, G:0.22, T:0.43
Consensus pattern (16 bp):
CTTGCTGATCATATTG
Found at i:50526 original size:22 final size:22
Alignment explanation
Indices: 50500--50550 Score: 57
Period size: 25 Copynumber: 2.2 Consensus size: 22
50490 TTATTTCAAA
*
50500 TTTTTAATTTTAATTTTTTTTT
1 TTTTTAATTTTAATTTTTTGTT
*
50522 GTTTTTGATTTTTAAATTTTTTGTT
1 -TTTTT-AATTTT-AATTTTTTGTT
50547 TTTT
1 TTTT
50551 CATTTTATTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 5 0.21
24 9 0.38
25 10 0.42
ACGTcount: A:0.16, C:0.00, G:0.06, T:0.78
Consensus pattern (22 bp):
TTTTTAATTTTAATTTTTTGTT
Found at i:50526 original size:23 final size:22
Alignment explanation
Indices: 50500--50557 Score: 62
Period size: 22 Copynumber: 2.5 Consensus size: 22
50490 TTATTTCAAA
*
50500 TTTTTAATTTTAATTTTTTTTTGT
1 TTTTTAATTTTAA--ATTTTTTGT
* *
50524 TTTTGATTTTTAAATTTTTTGT
1 TTTTTAATTTTAAATTTTTTGT
*
50546 TTTTTCATTTTA
1 TTTTTAATTTTA
50558 TTATTATTTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
22 17 0.61
24 11 0.39
ACGTcount: A:0.17, C:0.02, G:0.05, T:0.76
Consensus pattern (22 bp):
TTTTTAATTTTAAATTTTTTGT
Found at i:51294 original size:17 final size:19
Alignment explanation
Indices: 51265--51304 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 19
51255 TCGGTTATTG
*
51265 TTTATTATTTAAACTTG-A
1 TTTATTATTTAAAATTGAA
51283 TTTATT-TTTAAAATTGAA
1 TTTATTATTTAAAATTGAA
51301 TTTA
1 TTTA
51305 AATAGCTCCA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.35, C:0.03, G:0.05, T:0.57
Consensus pattern (19 bp):
TTTATTATTTAAAATTGAA
Found at i:54428 original size:414 final size:412
Alignment explanation
Indices: 53537--54641 Score: 1276
Period size: 414 Copynumber: 2.7 Consensus size: 412
53527 TTATTTATAA
* *
53537 AAAAGAAAA-AAATATAAATAATTATATGAAATATTTTAATATTAAATTAAACTAAGTTAAAATA
1 AAAAGAAAATAAATATAATTAATTATATGAAATATTTTAATATTAAATTAATC-AAGTTAAAATA
* *
53601 ATTAAATGCGCAGCATATAATGATTTTTTACTGA-CATCTACATATGAATAATATAAGCTATCCT
65 ATTAAATGTG-A-CATATAATAATTTTTTAC-GACCATCTACATATGAATAATATAAGCTAT-CT
53665 ATATTGGATAATTAC-TTTTTA-AAATA--TTTTGGCTTTTATATATTTATTTATATAAGATTTT
126 ATATTGGATAATTACTTTTTTATAAA-AGGTTTTGGCTTTTATATATTTA-TTATATAAGATTTT
* * * * *
53726 TATATTTTTAATTATTGAAAATATTGTTGGTTACTATTTACTATTTAAACTTGATTTA-TTTTAA
189 TATATTTTTAATTATTGAAATTATTATCGGTTACTATTTACTATTTGAACTTAATTTATTTTTAA
* *
53790 AATTAAATTTAAATGGTTCCAAATTACTATTTGTAAAAGAACCATATTTATAGTAGCCTAGTAAA
254 AATTAAATTTAAATGGTTCCAAATTACCATTTGTAAAAGAACCATATTTATAATAGCCTAGTAAA
* * * **
53855 TAACTTTAATTTAATATTTTTTGTAAGATATGAAAAAATTATTATTTTATTTGTTTATATATATA
319 TAAATTTAATTTAATATTTGTTGTAAGATATGAAAAAAATAAAATTTTATTTGTTTATATATATA
53920 TATATATAAGATAAGTCAAGTAAAAATAT
384 TATATATAAGATAAGTCAAGTAAAAATAT
* * * *
53949 AAAAGGAAATAAATTTAATTAATTATATGAAATATTTTAATAATAAATTAAATTAAGTTAAAATA
1 AAAAGAAAATAAATATAATTAATTATATGAAATATTTTAATATTAAATT-AATCAAGTTAAAATA
* * * * * *
54014 ATTAAATAAATGACATATGACT-ACTTTTTACGACCATTTACATGTAAATAATATAAGCTATCTA
65 ATTAAAT--GTGACATAT-AATAATTTTTTACGACCATCTACATATGAATAATATAAGCTATCTA
* * *
54078 TATTAGATAATTACTTTTTTATAAAAGGTCTTGGCTTTTATATGTTTATTATATAAGA-TTTTAT
127 TATTGGATAATTACTTTTTTATAAAAGGTTTTGGCTTTTATATATTTATTATATAAGATTTTTAT
* *
54142 ATTTTTAATTGTTGAAATTATTATCGGTTACTATTTACTATATGAACTTAATTTATTTTTAAAAT
192 ATTTTTAATTATTGAAATTATTATCGGTTACTATTTACTATTTGAACTTAATTTATTTTTAAAAT
* * * * **
54207 TAAATTTAAATGGCTT-TAAATTACCATTTGTAGTAA-ACCCCTATTTATAATATTCTAGTAAAT
257 TAAATTTAAATGG-TTCCAAATTACCATTTGTA-AAAGAACCATATTTATAATAGCCTAGTAAAT
* *
54270 AAATTTACTTTAATA-TTGTTGTAAGATTTATGACAAGAAAAATAAAATTTTATTTGTTTA-CT-
320 AAATTTAATTTAATATTTGTTGTAAGA--TATG--AA-AAAAATAAAATTTTATTTGTTTATATA
* * *
54332 TATATATA-A-AAGGTAAGTTAATTAGAAAA-AT
380 TATATATATATAAGATAAGTCAAGTA-AAAATAT
* * * * *
54363 AAAAGAAAATAAATATATTTAATTATATAAAATATTTTAGTGTTAAATTCAATCAAGTCAAAATA
1 AAAAGAAAATAAATATAATTAATTATATGAAATATTTTAATATTAAATT-AATCAAGTTAAAATA
* * * * * *
54428 ATTAAATGTGCAATATATAATAATTTTTTATGACCGTCCATATATGAATAATATAAGTTAT-TCA
65 ATTAAATGTG--ACATATAATAATTTTTTACGACCATCTACATATGAATAATATAAGCTATCT-A
* * * * * * *
54492 CATTGGATAATTACTTTTTTTGTGAAAGGTTTTAGTTTTTATTTACTTATTATATAAGATTTTTA
127 TATTGGATAATTAC-TTTTTTATAAAAGGTTTTGGCTTTTATATATTTATTATATAAGATTTTTA
* * *
54557 TATTTTTAATTATTAAAATTATTATCGATTACT-TTTACTGTTTGAACTTAATTTATTTTTAAAA
191 TATTTTTAATTATTGAAATTATTATCGGTTACTATTTACTATTTGAACTTAATTTATTTTTAAAA
* *
54621 TTGAATTTAAATGGATCCAAA
256 TTAAATTTAAATGGTTCCAAA
54642 GTAGTTTTAT
Statistics
Matches: 586, Mismatches: 81, Indels: 49
0.82 0.11 0.07
Matches are distributed among these distances:
412 28 0.05
413 165 0.28
414 214 0.37
415 113 0.19
416 43 0.07
417 3 0.01
418 20 0.03
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (412 bp):
AAAAGAAAATAAATATAATTAATTATATGAAATATTTTAATATTAAATTAATCAAGTTAAAATAA
TTAAATGTGACATATAATAATTTTTTACGACCATCTACATATGAATAATATAAGCTATCTATATT
GGATAATTACTTTTTTATAAAAGGTTTTGGCTTTTATATATTTATTATATAAGATTTTTATATTT
TTAATTATTGAAATTATTATCGGTTACTATTTACTATTTGAACTTAATTTATTTTTAAAATTAAA
TTTAAATGGTTCCAAATTACCATTTGTAAAAGAACCATATTTATAATAGCCTAGTAAATAAATTT
AATTTAATATTTGTTGTAAGATATGAAAAAAATAAAATTTTATTTGTTTATATATATATATATAT
AAGATAAGTCAAGTAAAAATAT
Found at i:55071 original size:21 final size:21
Alignment explanation
Indices: 55049--55116 Score: 75
Period size: 21 Copynumber: 3.2 Consensus size: 21
55039 GTTTTTTATG
*
55049 ATTTTGATAATCTTTAATATG
1 ATTTTGATAATCTTTAATATA
* *
55070 ATTTTAATAA-CTTTTGATATA
1 ATTTTGATAATC-TTTAATATA
* *
55091 ACTTTGATAATTTTTAATATA
1 ATTTTGATAATCTTTAATATA
55112 ATTTT
1 ATTTT
55117 AATAGCTTTT
Statistics
Matches: 37, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
20 1 0.03
21 36 0.97
ACGTcount: A:0.35, C:0.04, G:0.06, T:0.54
Consensus pattern (21 bp):
ATTTTGATAATCTTTAATATA
Found at i:55116 original size:11 final size:11
Alignment explanation
Indices: 55055--55120 Score: 55
Period size: 11 Copynumber: 6.1 Consensus size: 11
55045 TATGATTTTG
55055 ATAATCTTTAAT
1 ATAAT-TTTAAT
*
55067 ATGATTTTAAT
1 ATAATTTTAAT
* *
55078 A-ACTTTTGAT
1 ATAATTTTAAT
* *
55088 ATAACTTTGAT
1 ATAATTTTAAT
*
55099 A-ATTTTTAAT
1 ATAATTTTAAT
55109 ATAATTTTAAT
1 ATAATTTTAAT
55120 A
1 A
55121 GCTTTTACGC
Statistics
Matches: 42, Mismatches: 10, Indels: 5
0.74 0.18 0.09
Matches are distributed among these distances:
10 14 0.33
11 24 0.57
12 4 0.10
ACGTcount: A:0.39, C:0.05, G:0.05, T:0.52
Consensus pattern (11 bp):
ATAATTTTAAT
Found at i:55126 original size:21 final size:21
Alignment explanation
Indices: 55061--55127 Score: 80
Period size: 21 Copynumber: 3.2 Consensus size: 21
55051 TTTGATAATC
*
55061 TTTAATATGATTTTAATAACT
1 TTTAATATAATTTTAATAACT
* * * *
55082 TTTGATATAACTTTGATAATT
1 TTTAATATAATTTTAATAACT
*
55103 TTTAATATAATTTTAATAGCT
1 TTTAATATAATTTTAATAACT
55124 TTTA
1 TTTA
55128 CGCAGTTTTG
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (21 bp):
TTTAATATAATTTTAATAACT
Found at i:55227 original size:21 final size:22
Alignment explanation
Indices: 55165--55241 Score: 61
Period size: 21 Copynumber: 3.5 Consensus size: 22
55155 ACTCACAATC
* *
55165 TTTGATATAATTTTTTAGCAAC-A
1 TTTGATATAA--TTATAGTAACTA
* * *
55188 TTTGATGTAATTTTCGTAA-TA
1 TTTGATATAATTATAGTAACTA
55209 TTTGATATAATTATAGTAACT-
1 TTTGATATAATTATAGTAACTA
*
55230 TTTTATATAATT
1 TTTGATATAATT
55242 TTGATAATTT
Statistics
Matches: 45, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
21 35 0.78
22 1 0.02
23 9 0.20
ACGTcount: A:0.34, C:0.05, G:0.09, T:0.52
Consensus pattern (22 bp):
TTTGATATAATTATAGTAACTA
Found at i:55253 original size:21 final size:21
Alignment explanation
Indices: 55195--55306 Score: 61
Period size: 21 Copynumber: 5.3 Consensus size: 21
55185 ACATTTGATG
* *
55195 TAATTTTCG-TAATATTTGATA
1 TAATTTT-GATAATTTTTTATA
* *
55216 TAATTAT-AGTAACTTTTTATA
1 TAATTTTGA-TAATTTTTTATA
55237 TAATTTTGATAATTTTTT-TA
1 TAATTTTGATAATTTTTTATA
* * ** **
55257 TAA-TTTAACGAAGCTTCAATA
1 TAATTTTGA-TAATTTTTTATA
55278 TAATTTTTGATAATTTTTTATA
1 TAA-TTTTGATAATTTTTTATA
*
55300 TGATTTT
1 TAATTTT
55307 ATTAACTTGT
Statistics
Matches: 65, Mismatches: 19, Indels: 14
0.66 0.19 0.14
Matches are distributed among these distances:
19 4 0.06
20 9 0.14
21 38 0.58
22 10 0.15
23 4 0.06
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.54
Consensus pattern (21 bp):
TAATTTTGATAATTTTTTATA
Found at i:55630 original size:11 final size:10
Alignment explanation
Indices: 55614--55669 Score: 53
Period size: 10 Copynumber: 5.4 Consensus size: 10
55604 TGATAGGATT
55614 TTTTAATATAA
1 TTTT-ATATAA
55625 TTTTA-ATAA
1 TTTTATATAA
*
55634 CTTTGATATAA
1 -TTTTATATAA
55645 TTTT-TATAA
1 TTTTATATAA
55654 TTTTTAATATAA
1 -TTTT-ATATAA
55666 TTTT
1 TTTT
55670 CATACCTAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 9 0.24
10 12 0.32
11 12 0.32
12 5 0.13
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.59
Consensus pattern (10 bp):
TTTTATATAA
Found at i:55644 original size:20 final size:21
Alignment explanation
Indices: 55615--55669 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 21
55605 GATAGGATTT
55615 TTTAATATAATTTTAATAA-C
1 TTTAATATAATTTTAATAATC
* * *
55635 TTTGATATAATTTTTATAATT
1 TTTAATATAATTTTAATAATC
55656 TTTAATATAATTTT
1 TTTAATATAATTTT
55670 CATACCTAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.38, C:0.02, G:0.02, T:0.58
Consensus pattern (21 bp):
TTTAATATAATTTTAATAATC
Found at i:55648 original size:33 final size:34
Alignment explanation
Indices: 55585--55654 Score: 88
Period size: 33 Copynumber: 2.1 Consensus size: 34
55575 AGTAACTTCA
* * * *
55585 AATATATTTTTATTATCTTTGATAGGATTTTT-T
1 AATATAATTTTAATAACTTTGATAGAATTTTTAT
*
55618 AATATAATTTTAATAACTTTGATATAATTTTTAT
1 AATATAATTTTAATAACTTTGATAGAATTTTTAT
55652 AAT
1 AAT
55655 TTTTAATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
33 27 0.87
34 4 0.13
ACGTcount: A:0.36, C:0.03, G:0.06, T:0.56
Consensus pattern (34 bp):
AATATAATTTTAATAACTTTGATAGAATTTTTAT
Found at i:56123 original size:21 final size:21
Alignment explanation
Indices: 56099--56198 Score: 101
Period size: 21 Copynumber: 4.7 Consensus size: 21
56089 TTTTTGTCAT
* *
56099 TTTTATATAACTTTGATAATC
1 TTTTATATAATTTTGATAACC
*
56120 TTTTATATAATTTTAATAACC
1 TTTTATATAATTTTGATAACC
* *
56141 TTTTATACAATTTTGATAAGC
1 TTTTATATAATTTTGATAACC
* * *
56162 TTTAATATTATTCTTAATAACC
1 TTTTATATAATT-TTGATAACC
* *
56184 TTTGATATGATTTTG
1 TTTTATATAATTTTG
56199 TGATCTTTTG
Statistics
Matches: 64, Mismatches: 14, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
21 47 0.73
22 17 0.27
ACGTcount: A:0.33, C:0.09, G:0.06, T:0.52
Consensus pattern (21 bp):
TTTTATATAATTTTGATAACC
Found at i:56147 original size:42 final size:43
Alignment explanation
Indices: 56099--56191 Score: 125
Period size: 42 Copynumber: 2.2 Consensus size: 43
56089 TTTTTGTCAT
* *
56099 TTTTATATAACTTTGATAATCTTTTATATAATT-TTAATAACC
1 TTTTATATAACTTTGATAAGCTTTAATATAATTCTTAATAACC
* * *
56141 TTTTATACAATTTTGATAAGCTTTAATATTATTCTTAATAACC
1 TTTTATATAACTTTGATAAGCTTTAATATAATTCTTAATAACC
*
56184 TTTGATAT
1 TTTTATAT
56192 GATTTTGTGA
Statistics
Matches: 43, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 28 0.65
43 15 0.35
ACGTcount: A:0.34, C:0.10, G:0.04, T:0.52
Consensus pattern (43 bp):
TTTTATATAACTTTGATAAGCTTTAATATAATTCTTAATAACC
Found at i:56280 original size:11 final size:11
Alignment explanation
Indices: 56264--56319 Score: 61
Period size: 11 Copynumber: 5.6 Consensus size: 11
56254 TTTGACAATA
56264 TTTAATATAAT
1 TTTAATATAAT
56275 TTTAATAT--T
1 TTTAATATAAT
56284 TTT-ATATAAT
1 TTTAATATAAT
56294 TTTAATAT--T
1 TTTAATATAAT
*
56303 TTT-GTATAAT
1 TTTAATATAAT
56313 TTTAATA
1 TTTAATA
56320 ATTTTTTAAG
Statistics
Matches: 37, Mismatches: 2, Indels: 12
0.73 0.04 0.24
Matches are distributed among these distances:
8 7 0.19
9 8 0.22
10 8 0.22
11 14 0.38
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (11 bp):
TTTAATATAAT
Found at i:56292 original size:19 final size:19
Alignment explanation
Indices: 56268--56325 Score: 98
Period size: 19 Copynumber: 3.0 Consensus size: 19
56258 ACAATATTTA
56268 ATATAATTTTAATATTTTT
1 ATATAATTTTAATATTTTT
56287 ATATAATTTTAATATTTTT
1 ATATAATTTTAATATTTTT
*
56306 GTATAATTTTAATAATTTTT
1 ATATAATTTTAAT-ATTTTT
56326 TAAGTAATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
19 31 0.84
20 6 0.16
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (19 bp):
ATATAATTTTAATATTTTT
Found at i:56326 original size:11 final size:10
Alignment explanation
Indices: 56264--56336 Score: 55
Period size: 11 Copynumber: 7.2 Consensus size: 10
56254 TTTGACAATA
*
56264 TTTAATATAAT
1 TTTAATA-ATT
56275 TTTAAT-ATT
1 TTTAATAATT
56284 TTTATATAA-T
1 TTTA-ATAATT
56294 TTTAAT-ATT
1 TTTAATAATT
*
56303 TTTGTATAA-T
1 TTT-AATAATT
56313 TTTAATAATTT
1 TTTAATAA-TT
56324 TTTAAGTAATT
1 TTTAA-TAATT
56335 TT
1 TT
56337 GATTCCTTGT
Statistics
Matches: 51, Mismatches: 3, Indels: 16
0.73 0.04 0.23
Matches are distributed among these distances:
8 1 0.02
9 16 0.31
10 13 0.25
11 18 0.35
12 3 0.06
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (10 bp):
TTTAATAATT
Found at i:56557 original size:21 final size:20
Alignment explanation
Indices: 56518--56637 Score: 96
Period size: 21 Copynumber: 5.8 Consensus size: 20
56508 TTTATATAAG
* *
56518 TTTAATAATTTTGATATGAT
1 TTTAATAACTTTAATATGAT
*
56538 TTTAATAGCATTTAATATGAT
1 TTTAATAAC-TTTAATATGAT
* **
56559 TTTGATCGCTTATAATATGAT
1 TTTAATAACTT-TAATATGAT
* *
56580 TTTATTAACTTTAATATAAT
1 TTTAATAACTTTAATATGAT
* **
56600 TTTTATAACTTTTAATAAAAT
1 TTTAATAAC-TTTAATATGAT
*
56621 TTTCATAACTTTTAATA
1 TTTAATAAC-TTTAATA
56638 CTATTTTAGT
Statistics
Matches: 83, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
20 24 0.29
21 59 0.71
ACGTcount: A:0.37, C:0.06, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTAATAACTTTAATATGAT
Found at i:56616 original size:41 final size:42
Alignment explanation
Indices: 56500--56645 Score: 127
Period size: 41 Copynumber: 3.5 Consensus size: 42
56490 ATATAATTAC
* * *
56500 AATAACATTTTATATAAGTTTAATAA-TTTTGATATGATTTT
1 AATAACATTTAATATAATTTTAATAACTTTTAATATGATTTT
* * * ** *
56541 AATAGCATTTAATATGATTTTGATCGCTTATAATATGATTTT
1 AATAACATTTAATATAATTTTAATAACTTTTAATATGATTTT
* * **
56583 ATTAAC-TTTAATATAATTTTTATAACTTTTAATAAAATTTT
1 AATAACATTTAATATAATTTTAATAACTTTTAATATGATTTT
* *
56624 CATAACTTTTAATACT-ATTTTA
1 AATAACATTTAATA-TAATTTTA
56646 GTCACTGTTG
Statistics
Matches: 81, Mismatches: 21, Indels: 5
0.76 0.20 0.05
Matches are distributed among these distances:
41 51 0.63
42 29 0.36
43 1 0.01
ACGTcount: A:0.38, C:0.06, G:0.05, T:0.51
Consensus pattern (42 bp):
AATAACATTTAATATAATTTTAATAACTTTTAATATGATTTT
Found at i:57062 original size:20 final size:20
Alignment explanation
Indices: 56970--57074 Score: 70
Period size: 20 Copynumber: 5.2 Consensus size: 20
56960 TTTAGTAGTC
* * *
56970 TTTGTACAATTATGGAAACT
1 TTTGTACAATTTTGGTAATT
* * *
56990 TTTATACAATATTGGTAATC
1 TTTGTACAATTTTGGTAATT
* * *
57010 TTAGATACAATTTTAGATAGTT
1 TTTG-TACAATTTT-GGTAATT
57032 TTGATGT--AATTTTGGTAATT
1 TT--TGTACAATTTTGGTAATT
*
57052 TTTGTACAATTTTGATAATT
1 TTTGTACAATTTTGGTAATT
57072 TTT
1 TTT
57075 AATATAATTT
Statistics
Matches: 63, Mismatches: 16, Indels: 12
0.69 0.18 0.13
Matches are distributed among these distances:
18 3 0.05
20 38 0.60
21 14 0.22
22 6 0.10
23 1 0.02
24 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.13, T:0.50
Consensus pattern (20 bp):
TTTGTACAATTTTGGTAATT
Found at i:57419 original size:20 final size:21
Alignment explanation
Indices: 57378--57431 Score: 83
Period size: 20 Copynumber: 2.6 Consensus size: 21
57368 GTCAATGCTG
*
57378 TATAATTTTGATAACTTTTAA
1 TATAATTTTGATAACATTTAA
*
57399 TGTAATTTTGATAA-ATTTAA
1 TATAATTTTGATAACATTTAA
57419 TATAATTTTGATA
1 TATAATTTTGATA
57432 TGATTATAAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
20 17 0.57
21 13 0.43
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (21 bp):
TATAATTTTGATAACATTTAA
Found at i:57488 original size:21 final size:21
Alignment explanation
Indices: 57460--57537 Score: 79
Period size: 21 Copynumber: 3.8 Consensus size: 21
57450 ATATTTTTCA
57460 ATAA-CTTTGATATAATTTTT
1 ATAACCTTTGATATAATTTTT
* *
57480 ATAACCTTT-AAATTAATTTTC
1 ATAACCTTTGATA-TAATTTTT
* **
57501 ATAACCTTTAATATTCTTTTT
1 ATAACCTTTGATATAATTTTT
*
57522 GTAACCTTTGATATAA
1 ATAACCTTTGATATAA
57538 GTTTATGGCA
Statistics
Matches: 45, Mismatches: 10, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
20 6 0.13
21 37 0.82
22 2 0.04
ACGTcount: A:0.35, C:0.12, G:0.04, T:0.50
Consensus pattern (21 bp):
ATAACCTTTGATATAATTTTT
Found at i:57949 original size:20 final size:20
Alignment explanation
Indices: 57912--57971 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
57902 AGATTTGTTG
* *
57912 TAATTTTTATACAGTTTTAA
1 TAATTTTTATATAATTTTAA
*
57932 TAATTTTTATATAATTTTGA
1 TAATTTTTATATAATTTTAA
* *
57952 TAATCTCTTATATAAATTTA
1 TAAT-TTTTATATAATTTTA
57972 GTAAGCTTTG
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
20 21 0.64
21 12 0.36
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.55
Consensus pattern (20 bp):
TAATTTTTATATAATTTTAA
Found at i:57964 original size:21 final size:20
Alignment explanation
Indices: 57937--57997 Score: 61
Period size: 21 Copynumber: 2.9 Consensus size: 20
57927 TTTAATAATT
*
57937 TTTATATAATTTTGATAATC
1 TTTATATAATTTTGATAAGC
*
57957 TCTTATATAAATTT-AGTAAGC
1 T-TTATATAATTTTGA-TAAGC
57978 TTTGATATAATTCTTGATAA
1 TTT-ATATAATT-TTGATAA
57998 CATTTAATAT
Statistics
Matches: 33, Mismatches: 3, Indels: 8
0.75 0.07 0.18
Matches are distributed among these distances:
20 4 0.12
21 23 0.70
22 5 0.15
23 1 0.03
ACGTcount: A:0.36, C:0.07, G:0.08, T:0.49
Consensus pattern (20 bp):
TTTATATAATTTTGATAAGC
Found at i:58091 original size:11 final size:11
Alignment explanation
Indices: 58077--58131 Score: 50
Period size: 11 Copynumber: 5.5 Consensus size: 11
58067 TTTAACAATA
58077 TTTGATATAAT
1 TTTGATATAAT
58088 TTTGATAT--T
1 TTTGATATAAT
58097 TTT--TATAAT
1 TTTGATATAAT
*
58106 ATT-A-ATAAT
1 TTTGATATAAT
*
58115 TTTTATATAAT
1 TTTGATATAAT
58126 TTTGAT
1 TTTGAT
58132 TCCTTTTAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
7 3 0.08
9 14 0.39
10 1 0.03
11 18 0.50
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TTTGATATAAT
Found at i:58097 original size:18 final size:18
Alignment explanation
Indices: 58074--58131 Score: 62
Period size: 18 Copynumber: 3.1 Consensus size: 18
58064 CCATTTAACA
*
58074 ATATTTGATATAATTTTG
1 ATATTTTATATAATTTTG
* * *
58092 ATATTTTTTATAATATTA
1 ATATTTTATATAATTTTG
58110 ATAATTTTTATATAATTTTG
1 AT-A-TTTTATATAATTTTG
58130 AT
1 AT
58132 TCCTTTTAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
18 16 0.52
19 1 0.03
20 14 0.45
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (18 bp):
ATATTTTATATAATTTTG
Found at i:58138 original size:20 final size:20
Alignment explanation
Indices: 58081--58227 Score: 93
Period size: 20 Copynumber: 7.3 Consensus size: 20
58071 ACAATATTTG
58081 ATATAATTTTGATA--TTTT
1 ATATAATTTTGATACCTTTT
* * * **
58099 TTATAATATTAATAATTTTT
1 ATATAATTTTGATACCTTTT
*
58119 ATATAATTTTGATTCCTTTT
1 ATATAATTTTGATACCTTTT
* ***
58139 AATATGA-TTTGATAGGGTTT
1 -ATATAATTTTGATACCTTTT
* *
58159 AGTATAATTTTAATATCCTTTA
1 A-TATAATTTTGATA-CCTTTT
* *
58181 ATGTAATTTTGATAACTTTT
1 ATATAATTTTGATACCTTTT
* *
58201 ATACAATTTTGGTAACCTTTT
1 ATATAATTTTGAT-ACCTTTT
58222 ATATAA
1 ATATAA
58228 CATTGATAAC
Statistics
Matches: 93, Mismatches: 29, Indels: 11
0.70 0.22 0.08
Matches are distributed among these distances:
18 11 0.12
19 1 0.01
20 45 0.48
21 33 0.35
22 3 0.03
ACGTcount: A:0.33, C:0.05, G:0.08, T:0.53
Consensus pattern (20 bp):
ATATAATTTTGATACCTTTT
Found at i:58237 original size:21 final size:21
Alignment explanation
Indices: 58189--58237 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
58179 TAATGTAATT
**
58189 TTGATAA-CTTTTATACAATT
1 TTGATAACCTTTTATACAACA
* *
58209 TTGGTAACCTTTTATATAACA
1 TTGATAACCTTTTATACAACA
58230 TTGATAAC
1 TTGATAAC
58238 ATATGAAGTA
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (21 bp):
TTGATAACCTTTTATACAACA
Found at i:58451 original size:21 final size:21
Alignment explanation
Indices: 58390--58458 Score: 77
Period size: 21 Copynumber: 3.3 Consensus size: 21
58380 CCTAATAATC
* *
58390 TTTAATGTAATTTTAATAA-T
1 TTTAATATAATTTTTATAACT
* *
58410 TTTGATATAATTTTTGTAACT
1 TTTAATATAATTTTTATAACT
*
58431 TTTAATATAATTTTTACAACT
1 TTTAATATAATTTTTATAACT
*
58452 TTGAATA
1 TTTAATA
58459 CTATTTTATT
Statistics
Matches: 40, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
20 15 0.38
21 25 0.62
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.54
Consensus pattern (21 bp):
TTTAATATAATTTTTATAACT
Found at i:58569 original size:21 final size:21
Alignment explanation
Indices: 58513--58557 Score: 65
Period size: 21 Copynumber: 2.1 Consensus size: 21
58503 AGTCACTACC
*
58513 TTTAATATAATCTTAG-TAATT
1 TTTAATATAA-CTTTGATAATT
58534 TTTAATATAACTTTGATAATT
1 TTTAATATAACTTTGATAATT
58555 TTT
1 TTT
58558 TATTTAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 4 0.18
21 18 0.82
ACGTcount: A:0.36, C:0.04, G:0.04, T:0.56
Consensus pattern (21 bp):
TTTAATATAACTTTGATAATT
Found at i:59275 original size:41 final size:41
Alignment explanation
Indices: 59198--59275 Score: 95
Period size: 41 Copynumber: 1.9 Consensus size: 41
59188 AATTTAGCAA
* * *
59198 TTTTATAAAATTTTGCTAACTTTCAATGTAATTTTGAAAAT
1 TTTTATAAAATTTTGCTAAATTTCAATATAAGTTTGAAAAT
* *
59239 TTTTATACAATTTTGGTAAATTGT-AATATAAGTTTGA
1 TTTTATAAAATTTTGCTAAATT-TCAATATAAGTTTGA
59276 TTTGATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
41 30 0.97
42 1 0.03
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (41 bp):
TTTTATAAAATTTTGCTAAATTTCAATATAAGTTTGAAAAT
Found at i:59325 original size:21 final size:21
Alignment explanation
Indices: 59301--59373 Score: 83
Period size: 21 Copynumber: 3.5 Consensus size: 21
59291 CTTTTGAATG
*
59301 ATTTTAATATCCTTTAATATA
1 ATTTTAATAACCTTTAATATA
* *
59322 ATTTTCATAACCTTTAATATT
1 ATTTTAATAACCTTTAATATA
* *
59343 ATTTTAGTAACCTTTGATATA
1 ATTTTAATAACCTTTAATATA
* *
59364 AGTTTGATAA
1 ATTTTAATAA
59374 AAAAATTTTC
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (21 bp):
ATTTTAATAACCTTTAATATA
Found at i:59771 original size:21 final size:21
Alignment explanation
Indices: 59747--59805 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
59737 TTTTGGATAG
* **
59747 TTTTGATGTTATTTTGGTAA-
1 TTTTGATATTATTTTAATAAC
* *
59767 TTTTTATATAATTTTAATAAC
1 TTTTGATATTATTTTAATAAC
59788 TTTTGATATTATTTTAAT
1 TTTTGATATTATTTTAAT
59806 GACCTCTTAT
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 15 0.48
21 16 0.52
ACGTcount: A:0.29, C:0.02, G:0.08, T:0.61
Consensus pattern (21 bp):
TTTTGATATTATTTTAATAAC
Found at i:59874 original size:21 final size:21
Alignment explanation
Indices: 59757--59914 Score: 94
Period size: 21 Copynumber: 7.7 Consensus size: 21
59747 TTTTGATGTT
*
59757 ATTTTGGTAA-TTTTTATATA
1 ATTTTGATAACTTTTTATATA
* * *
59777 ATTTTAATAACTTTTGATATT
1 ATTTTGATAACTTTTTATATA
* * * *
59798 ATTTTAATGACCTCTTATATA
1 ATTTTGATAACTTTTTATATA
* * * *
59819 AATTTGGTAAGTTTTGATATA
1 ATTTTGATAACTTTTTATATA
*
59840 ATTCTTGATAACTTTTTATACA
1 ATT-TTGATAACTTTTTATATA
* *
59862 ATTTTGTTAACTTCTTT-T-TT
1 ATTTTGATAACTT-TTTATATA
* *
59882 TTTTTG-TAAC--TTAATATA
1 ATTTTGATAACTTTTTATATA
59900 ATTTTGATAATCTTT
1 ATTTTGATAA-CTTT
59915 CAACAATATT
Statistics
Matches: 100, Mismatches: 29, Indels: 16
0.69 0.20 0.11
Matches are distributed among these distances:
16 2 0.02
17 1 0.01
18 6 0.06
19 7 0.07
20 14 0.14
21 49 0.49
22 21 0.21
ACGTcount: A:0.30, C:0.07, G:0.08, T:0.56
Consensus pattern (21 bp):
ATTTTGATAACTTTTTATATA
Found at i:59955 original size:19 final size:20
Alignment explanation
Indices: 59931--59977 Score: 69
Period size: 21 Copynumber: 2.4 Consensus size: 20
59921 TATTTGATAA
*
59931 AATTTT-TATTTTTTTATAT
1 AATTTTATAATTTTTTATAT
59950 AATTTTAATAATTTTTTATAT
1 AATTTT-ATAATTTTTTATAT
59971 AATTTTA
1 AATTTTA
59978 ATTCTCTTTG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 6 0.24
20 1 0.04
21 18 0.72
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
AATTTTATAATTTTTTATAT
Found at i:59964 original size:21 final size:21
Alignment explanation
Indices: 59940--59979 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
59930 AAATTTTTAT
59940 TTTTTTATATAATTTTAATAA
1 TTTTTTATATAATTTTAATAA
59961 TTTTTTATATAATTTTAAT
1 TTTTTTATATAATTTTAAT
59980 TCTCTTTGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (21 bp):
TTTTTTATATAATTTTAATAA
Found at i:59972 original size:12 final size:12
Alignment explanation
Indices: 59940--59976 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
59930 AAATTTTTAT
59940 TTTTTTATATAA
1 TTTTTTATATAA
59952 --TTTTA-ATAA
1 TTTTTTATATAA
59961 TTTTTTATATAA
1 TTTTTTATATAA
59973 TTTT
1 TTTT
59977 AATTCTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
9 4 0.18
10 5 0.23
11 5 0.23
12 8 0.36
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TTTTTTATATAA
Found at i:59991 original size:21 final size:19
Alignment explanation
Indices: 59923--59991 Score: 66
Period size: 21 Copynumber: 3.4 Consensus size: 19
59913 TTCAACAATA
* *
59923 TTTGATAAAATTTTTATTT
1 TTTGATATAATTTTAATTT
*
59942 TTTTATATAATTTTAATAATT
1 TTTGATATAATTTTAAT--TT
*
59963 TTTTATATAATTTTAATTCT
1 TTTGATATAATTTTAATT-T
59983 CTTTGATAT
1 -TTTGATAT
59992 GTTTGATAGG
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
19 15 0.36
20 1 0.02
21 26 0.62
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTGATATAATTTTAATTT
Found at i:60137 original size:11 final size:10
Alignment explanation
Indices: 60122--60201 Score: 56
Period size: 11 Copynumber: 7.7 Consensus size: 10
60112 GAAATTTTGG
60122 AAATTTTTAT
1 AAATTTTTAT
*
60132 ACAATTTTTTT
1 A-AATTTTTAT
*
60143 AAATTTTAAT
1 AAATTTTTAT
*
60153 ATAATTTTGAT
1 A-AATTTTTAT
60164 -AATTTGTTAT
1 AAATTT-TTAT
*
60174 ATAATTTTGAT
1 A-AATTTTTAT
*
60185 -AATTTTGAT
1 AAATTTTTAT
60194 ATAATTTT
1 A-AATTTT
60202 CATAGCTCTA
Statistics
Matches: 57, Mismatches: 6, Indels: 13
0.75 0.08 0.17
Matches are distributed among these distances:
9 14 0.25
10 12 0.21
11 26 0.46
12 5 0.09
ACGTcount: A:0.36, C:0.01, G:0.05, T:0.57
Consensus pattern (10 bp):
AAATTTTTAT
Found at i:60140 original size:21 final size:20
Alignment explanation
Indices: 60114--60201 Score: 81
Period size: 21 Copynumber: 4.3 Consensus size: 20
60104 TTTTTAATGA
* *
60114 AATTTTGGAAATTTTTATAC
1 AATTTTTGAAATTTTTATAT
* *
60134 AATTTTTTTAAATTTTAATAT
1 AA-TTTTTGAAATTTTTATAT
60155 AA-TTTTGATAATTTGTTATAT
1 AATTTTTGA-AATTT-TTATAT
*
60176 AA-TTTTGATAATTTTGATAT
1 AATTTTTGA-AATTTTTATAT
60196 AATTTT
1 AATTTT
60202 CATAGCTCTA
Statistics
Matches: 57, Mismatches: 7, Indels: 7
0.80 0.10 0.10
Matches are distributed among these distances:
19 5 0.09
20 14 0.25
21 38 0.67
ACGTcount: A:0.35, C:0.01, G:0.07, T:0.57
Consensus pattern (20 bp):
AATTTTTGAAATTTTTATAT
Found at i:60189 original size:41 final size:40
Alignment explanation
Indices: 60023--60242 Score: 122
Period size: 41 Copynumber: 5.4 Consensus size: 40
60013 TTTTAATAGC
* * * * * *
60023 TTTTAATGTAATTTTGATAACTTTTGTACAAGTTTGGTAAA
1 TTTTAATATAATTTTGATAATTTTTATATAATTTTGAT-AA
* * * * ** * *
60064 CTTCAATATAATATTGATAACCTTCGATGTAATTTAG-TAA
1 TTTTAATATAATTTTGATAA-TTTTTATATAATTTTGATAA
* **
60104 TTTTTAATGA-AATTTTGGA-AATTTTTATACAATTTTTTTAAA
1 -TTTTAAT-ATAATTTT-GATAATTTTTATATAATTTTGAT-AA
60146 TTTTAATATAATTTTGATAATTTGTTATATAATTTTGATAA
1 TTTTAATATAATTTTGATAATTT-TTATATAATTTTGATAA
* * ** * * *
60187 TTTTGATATAATTTTCATAGCTCTAATATGATTTTGATAA
1 TTTTAATATAATTTTGATAATTTTTATATAATTTTGATAA
*
60227 TCTCTAATATAATTTT
1 T-TTTAATATAATTTT
60243 TAATAACGTT
Statistics
Matches: 136, Mismatches: 33, Indels: 20
0.72 0.17 0.11
Matches are distributed among these distances:
40 30 0.22
41 80 0.59
42 26 0.19
ACGTcount: A:0.35, C:0.06, G:0.09, T:0.50
Consensus pattern (40 bp):
TTTTAATATAATTTTGATAATTTTTATATAATTTTGATAA
Found at i:60233 original size:21 final size:21
Alignment explanation
Indices: 60149--60268 Score: 104
Period size: 21 Copynumber: 5.8 Consensus size: 21
60139 TTTTAAATTT
* *
60149 TAATATAATTTTGATAATTTG
1 TAATATAATTTTGATAATCTC
* *
60170 TTATATAATTTTGATAAT-TT
1 TAATATAATTTTGATAATCTC
* * *
60190 TGATATAATTTTCAT-AGCTC
1 TAATATAATTTTGATAATCTC
*
60210 TAATATGATTTTGATAATCTC
1 TAATATAATTTTGATAATCTC
*
60231 TAATATAATTTTTAATAA-CGT-
1 TAATATAA-TTTTGATAATC-TC
*
60252 TAATATAATTTTTATAA
1 TAATATAATTTTGATAA
60269 CTTTTGATAA
Statistics
Matches: 82, Mismatches: 13, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
19 1 0.01
20 35 0.43
21 37 0.45
22 9 0.11
ACGTcount: A:0.38, C:0.05, G:0.07, T:0.51
Consensus pattern (21 bp):
TAATATAATTTTGATAATCTC
Found at i:60286 original size:42 final size:39
Alignment explanation
Indices: 60172--60299 Score: 105
Period size: 42 Copynumber: 3.1 Consensus size: 39
60162 ATAATTTGTT
* *
60172 ATATAATTTTGATAATTTTGAT-ATAATTTTCATAGCTCTA
1 ATATAATTTTGATAATTTTGATAAAAATTTT-ATAACT-TA
* * * * *
60212 ATATGATTTTGATAATCTCTAATATAATTTTTAATAACGTTA
1 ATATAATTTTGATAAT-TTTGATAAAAATTTT-ATAAC-TTA
*
60254 ATATAATTTTTATAACTTTTGATAAAAATTTTATAAACTTTA
1 ATATAATTTTGATAA-TTTTGATAAAAATTTTAT-AAC-TTA
60296 ATAT
1 ATAT
60300 TATCTTGTAA
Statistics
Matches: 68, Mismatches: 15, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
40 15 0.22
41 6 0.09
42 45 0.66
43 2 0.03
ACGTcount: A:0.39, C:0.06, G:0.05, T:0.49
Consensus pattern (39 bp):
ATATAATTTTGATAATTTTGATAAAAATTTTATAACTTA
Found at i:60390 original size:62 final size:61
Alignment explanation
Indices: 60288--60403 Score: 148
Period size: 62 Copynumber: 1.9 Consensus size: 61
60278 AAAATTTTAT
**
60288 AAACTTTAATATTATCTTGTAACCTTTGTATAACTTTGAT-AATCTTTTATTTAAGTTTGGC
1 AAACTTTAATACAATCTTGTAACCTTTGTATAACTTTGATAAAT-TTTTATTTAAGTTTGGC
*
60349 AAACTTTAATACAATTTTAGTAA-CTTTGATATAA-TTGTGATAAATTTTTATTTAA
1 AAACTTTAATACAATCTT-GTAACCTTTG-TATAACTT-TGATAAATTTTTATTTAA
60404 TTTTAATAAC
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
61 22 0.46
62 23 0.48
63 3 0.06
ACGTcount: A:0.34, C:0.09, G:0.09, T:0.48
Consensus pattern (61 bp):
AAACTTTAATACAATCTTGTAACCTTTGTATAACTTTGATAAATTTTTATTTAAGTTTGGC
Found at i:60737 original size:20 final size:21
Alignment explanation
Indices: 60691--60737 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
60681 GCTTACATAT
*
60691 AATTTTGGAAAGTTTTAATGT
1 AATTTTGGAAAGTTTTAATGC
60712 AATTTTGGAAA-TTATT-ATGC
1 AATTTTGGAAAGTT-TTAATGC
60732 AATTTT
1 AATTTT
60738 AATAATCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 11 0.46
21 13 0.54
ACGTcount: A:0.34, C:0.02, G:0.15, T:0.49
Consensus pattern (21 bp):
AATTTTGGAAAGTTTTAATGC
Found at i:60833 original size:43 final size:42
Alignment explanation
Indices: 60749--60835 Score: 104
Period size: 43 Copynumber: 2.0 Consensus size: 42
60739 ATAATCTTTA
* *
60749 ATATAATTTTGATAATCTTTTATATAAATTTGGTAAGTTTTG
1 ATATAATTTTGATAATCTTTGATATAAATTTGGTAACTTTTG
* * *
60791 ATATAATTCTTGATAA-CTTCTGATATGATTTTGTTAACTTTTG
1 ATATAATT-TTGATAATCTT-TGATATAAATTTGGTAACTTTTG
60834 AT
1 AT
60836 TTTTTTTTTC
Statistics
Matches: 38, Mismatches: 5, Indels: 3
0.83 0.11 0.07
Matches are distributed among these distances:
42 11 0.29
43 27 0.71
ACGTcount: A:0.31, C:0.06, G:0.11, T:0.52
Consensus pattern (42 bp):
ATATAATTTTGATAATCTTTGATATAAATTTGGTAACTTTTG
Found at i:60835 original size:21 final size:21
Alignment explanation
Indices: 60732--60835 Score: 95
Period size: 21 Copynumber: 4.9 Consensus size: 21
60722 ATTATTATGC
* *
60732 AATTTTAATAA-TCTTTAATAT
1 AATTTTGATAACT-TTTGATAT
60753 AATTTTGATAATCTTTT-ATAT
1 AATTTTGATAA-CTTTTGATAT
* * *
60774 AAATTTGGTAAGTTTTGATAT
1 AATTTTGATAACTTTTGATAT
*
60795 AATTCTTGATAACTTCTGATAT
1 AATT-TTGATAACTTTTGATAT
* *
60817 GATTTTGTTAACTTTTGAT
1 AATTTTGATAACTTTTGAT
60836 TTTTTTTTTC
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
20 4 0.06
21 43 0.63
22 20 0.29
23 1 0.01
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.52
Consensus pattern (21 bp):
AATTTTGATAACTTTTGATAT
Found at i:61201 original size:20 final size:21
Alignment explanation
Indices: 61157--61230 Score: 71
Period size: 21 Copynumber: 3.6 Consensus size: 21
61147 TTAAACAAAT
* *
61157 TGTATCGATACA-ATAGGGTAA
1 TGTATCGATACATA-AGTGAAA
61178 TGTATCGATACATAAGTG-AA
1 TGTATCGATACATAAGTGAAA
* ***
61198 TGTATTGATACATGTTTGAAA
1 TGTATCGATACATAAGTGAAA
61219 TGTATCGATACA
1 TGTATCGATACA
61231 GGACTATGTC
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 16 0.36
21 28 0.62
22 1 0.02
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.34
Consensus pattern (21 bp):
TGTATCGATACATAAGTGAAA
Found at i:61341 original size:51 final size:52
Alignment explanation
Indices: 61265--61402 Score: 208
Period size: 51 Copynumber: 2.7 Consensus size: 52
61255 TTCTGAATGA
* * *
61265 AAATGTATCGATACATTTTTTATTGTATCAATATATTTTAGG-TTTTGACTC
1 AAATGTATCGATACATTCTTCATTGTATCAATATATTTTAGGTTTTTGACCC
* *
61316 AAATGTATCAATACATTCTTCATTGTATCAATATATTTTTGGTTTTTGACCC
1 AAATGTATCGATACATTCTTCATTGTATCAATATATTTTAGGTTTTTGACCC
*
61368 AAATGTATCGATACATTCTTCA-TGTATCGATATAT
1 AAATGTATCGATACATTCTTCATTGTATCAATATAT
61403 GTAAGCAAAT
Statistics
Matches: 79, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
51 50 0.63
52 29 0.37
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.46
Consensus pattern (52 bp):
AAATGTATCGATACATTCTTCATTGTATCAATATATTTTAGGTTTTTGACCC
Found at i:64856 original size:21 final size:21
Alignment explanation
Indices: 64799--64858 Score: 54
Period size: 21 Copynumber: 2.9 Consensus size: 21
64789 TTTTTATGCA
*
64799 ATTTTAATAGTTCTTT-ATAT
1 ATTTTAATAGTCCTTTAATAT
* *
64819 ATTTT-TTATTCCTTTTAATAT
1 ATTTTAATAGTCC-TTTAATAT
64840 GATTTTAATA-TCCTTTAAT
1 -ATTTTAATAGTCCTTTAAT
64859 GTCGCTTAAG
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
19 4 0.12
20 8 0.25
21 10 0.31
22 8 0.25
23 2 0.06
ACGTcount: A:0.28, C:0.08, G:0.03, T:0.60
Consensus pattern (21 bp):
ATTTTAATAGTCCTTTAATAT
Found at i:65020 original size:21 final size:21
Alignment explanation
Indices: 64926--65069 Score: 93
Period size: 21 Copynumber: 7.0 Consensus size: 21
64916 ATACAACATT
* *
64926 GTAACTTCTAATATAATTTTA
1 GTAACTTTTGATATAATTTTA
*
64947 G-AAATTTT-ATATAATTTTA
1 GTAACTTTTGATATAATTTTA
* * *
64966 GT-ACATTTTAATAAAATATT-
1 GTAAC-TTTTGATATAATTTTA
* *
64986 GATATCATTT-ATATAATTTTA
1 G-TAACTTTTGATATAATTTTA
*
65007 GTAAGTTTTGATATAATTTTTA
1 GTAACTTTTGATATAA-TTTTA
* * *
65029 -TAACTTTTGTTATGATTTTT
1 GTAACTTTTGATATAATTTTA
*
65049 GTAAACTTTTGATAAAATTTT
1 GT-AACTTTTGATATAATTTT
65070 TGTTTTGATA
Statistics
Matches: 94, Mismatches: 19, Indels: 19
0.71 0.14 0.14
Matches are distributed among these distances:
19 13 0.14
20 27 0.29
21 33 0.35
22 21 0.22
ACGTcount: A:0.36, C:0.04, G:0.08, T:0.52
Consensus pattern (21 bp):
GTAACTTTTGATATAATTTTA
Found at i:69248 original size:20 final size:20
Alignment explanation
Indices: 69188--69242 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
69178 GTCAGGCTCA
*
69188 ATATATCGATACAATTCACC
1 ATATATCGATACAATTCATC
*
69208 ATATATCAATACAATTCATC
1 ATATATCGATACAATTCATC
*
69228 ATGTATCGATACAAT
1 ATATATCGATACAAT
69243 GAATCAATAC
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.42, C:0.20, G:0.05, T:0.33
Consensus pattern (20 bp):
ATATATCGATACAATTCATC
Found at i:69336 original size:13 final size:13
Alignment explanation
Indices: 69318--69342 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
69308 TACCAAGAAC
69318 ATGTATCGATACA
1 ATGTATCGATACA
69331 ATGTATCGATAC
1 ATGTATCGATAC
69343 TAAGTAATAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:69340 original size:32 final size:33
Alignment explanation
Indices: 69299--69363 Score: 105
Period size: 32 Copynumber: 2.0 Consensus size: 33
69289 ATAATTCAAT
69299 ATGTATCGATACCAAG-AACATGTATCGATACA
1 ATGTATCGATACCAAGTAACATGTATCGATACA
* *
69331 ATGTATCGATACTAAGTAATATGTATCGATACA
1 ATGTATCGATACCAAGTAACATGTATCGATACA
69364 TCTGGGTATG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 15 0.50
33 15 0.50
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (33 bp):
ATGTATCGATACCAAGTAACATGTATCGATACA
Found at i:69499 original size:22 final size:22
Alignment explanation
Indices: 69462--69504 Score: 68
Period size: 23 Copynumber: 1.9 Consensus size: 22
69452 ACTTTAAATT
*
69462 ATTTTTACTTGCAAAACATTTG
1 ATTTTTACTTGAAAAACATTTG
69484 ATTTATTACTTGAAAAACATT
1 ATTT-TTACTTGAAAAACATT
69505 CAAACTTATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.37, C:0.12, G:0.07, T:0.44
Consensus pattern (22 bp):
ATTTTTACTTGAAAAACATTTG
Found at i:70385 original size:13 final size:13
Alignment explanation
Indices: 70367--70391 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
70357 ATTACTCACA
70367 TGTATCGATACAT
1 TGTATCGATACAT
70380 TGTATCGATACA
1 TGTATCGATACA
70392 CTGATCTTTG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:70456 original size:52 final size:52
Alignment explanation
Indices: 70400--70524 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 52
70390 CACTGATCTT
*
70400 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACATTATAAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAA
* * *
70452 TGTATCGATACATGCAGGCAAATTTGCCGAGATGTATCGATACACTATTAAA
1 TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAA
*
70504 TGTATCGATACATGCAAGCAA
1 TGTATCGATACATGCAGGCAA
70525 CGTTTCATAT
Statistics
Matches: 68, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
52 68 1.00
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.28
Consensus pattern (52 bp):
TGTATCGATACATGCAGGCAAATTTGCCCAGATATATCGATACACTATAAAA
Found at i:77429 original size:15 final size:15
Alignment explanation
Indices: 77410--77450 Score: 66
Period size: 14 Copynumber: 2.7 Consensus size: 15
77400 TGATGAGAAA
77410 AAAAAAACAAACAAAC
1 AAAAAAACAAAC-AAC
77426 AAAAAAA-AAACAAC
1 AAAAAAACAAACAAC
77440 AAAAAAACAAA
1 AAAAAAACAAA
77451 AAAAAAGTGC
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 10 0.42
15 7 0.29
16 7 0.29
ACGTcount: A:0.85, C:0.15, G:0.00, T:0.00
Consensus pattern (15 bp):
AAAAAAACAAACAAC
Found at i:77429 original size:19 final size:17
Alignment explanation
Indices: 77407--77453 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 17
77397 AAGTGATGAG
77407 AAAAAAAAAACAAACAAA
1 AAAAAAAAAAC-AACAAA
77425 CAAAAAAAAAACAACAAA
1 -AAAAAAAAAACAACAAA
77443 AAAACAAAAAA
1 AAAA-AAAAAA
77454 AAAGTGCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
17 4 0.15
18 12 0.44
19 11 0.41
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (17 bp):
AAAAAAAAAACAACAAA
Found at i:77432 original size:22 final size:22
Alignment explanation
Indices: 77407--77456 Score: 82
Period size: 22 Copynumber: 2.3 Consensus size: 22
77397 AAGTGATGAG
*
77407 AAAAAAAAAACAAACAAACAAA
1 AAAAAAAAAACAAAAAAACAAA
*
77429 AAAAAAACAACAAAAAAACAAA
1 AAAAAAAAAACAAAAAAACAAA
77451 AAAAAA
1 AAAAAA
77457 GTGCAAAGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAACAAAAAAACAAA
Found at i:77438 original size:11 final size:11
Alignment explanation
Indices: 77407--77456 Score: 66
Period size: 11 Copynumber: 4.6 Consensus size: 11
77397 AAGTGATGAG
77407 AAAAAAAA-AA
1 AAAAAAAACAA
* *
77417 CAAACAAACAA
1 AAAAAAAACAA
77428 AAAAAAAACAA
1 AAAAAAAACAA
*
77439 CAAAAAAACAA
1 AAAAAAAACAA
77450 AAAAAAA
1 AAAAAAA
77457 GTGCAAAGGC
Statistics
Matches: 33, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
10 6 0.18
11 27 0.82
ACGTcount: A:0.88, C:0.12, G:0.00, T:0.00
Consensus pattern (11 bp):
AAAAAAAACAA
Found at i:77451 original size:8 final size:8
Alignment explanation
Indices: 77410--77454 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
77400 TGATGAGAAA
77410 AAAAAAAC
1 AAAAAAAC
*
77418 AAACAAAC
1 AAAAAAAC
77426 -AAAAAA-
1 AAAAAAAC
*
77432 AAAACAAC
1 AAAAAAAC
77440 AAAAAAAC
1 AAAAAAAC
77448 AAAAAAA
1 AAAAAAA
77455 AAGTGCAAAG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
7 10 0.32
8 21 0.68
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:78767 original size:32 final size:31
Alignment explanation
Indices: 78730--79080 Score: 303
Period size: 34 Copynumber: 10.7 Consensus size: 31
78720 CAAATACCTT
* *
78730 TTTAAAGTCCACGACTCAGTGGCATCCTTTTC
1 TTTAAAGCCCACAACTCAGTGGCA-CCTTTTC
* *
78762 TTTAAAGTCCACGACTCAGTGGCATCCTTTTC
1 TTTAAAGCCCACAACTCAGTGGCA-CCTTTTC
* * *
78794 TTTAAAGTCCACGACTCAGTGGCA--TTTTG
1 TTTAAAGCCCACAACTCAGTGGCACCTTTTC
* * * **
78823 TCTCAAAGTCCACGACTCAGTGGCATTTTTTC
1 T-TTAAAGCCCACAACTCAGTGGCACCTTTTC
* *
78855 TTCAAAGCCCACAACTCTGTGGCACCTTTTCC
1 TTTAAAGCCCACAACTCAGTGGCACCTTTT-C
*
78887 TTTAAAGCCCACAACTCCGTGGCACCTTCTTC
1 TTTAAAGCCCACAACTCAGTGGCACCTT-TTC
*
78919 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
1 -TTT-AAAGCCCACAACTCAGTGGCACCTT-TTC
78953 TTTTTAAAGCCCACAACTCCA-TGGCACCTTCTTC
1 --TTTAAAGCCCACAACT-CAGTGGCACCTT-TTC
*
78987 TTTTCAAAGCCCACAACTCCGTGGCACCTTCTTC
1 -TTT-AAAGCCCACAACTCAGTGGCACCTT-TTC
*
79021 TTTTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCC
1 -TTT-AAAGCCCACAACTCAGTGGCAC-C-TTTT--C
* * *
79058 TTTTAAGTCCACAACTCCGTGGC
1 TTTAAAGCCCACAACTCAGTGGC
79081 TTCTTTCACC
Statistics
Matches: 290, Mismatches: 14, Indels: 27
0.88 0.04 0.08
Matches are distributed among these distances:
29 5 0.02
30 22 0.08
31 24 0.08
32 89 0.31
33 10 0.03
34 108 0.37
35 26 0.09
36 5 0.02
37 1 0.00
ACGTcount: A:0.22, C:0.33, G:0.14, T:0.32
Consensus pattern (31 bp):
TTTAAAGCCCACAACTCAGTGGCACCTTTTC
Found at i:78933 original size:34 final size:34
Alignment explanation
Indices: 78855--79080 Score: 343
Period size: 34 Copynumber: 6.7 Consensus size: 34
78845 GCATTTTTTC
* *
78855 TTCAAAGCCCACAACTCTGTGGCACCTT-TTCCT
1 TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
78888 TT-AAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
78921 TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
* *
78955 TTTAAAGCCCACAACTCCATGGCACCTTCTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
78989 TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
1 TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
*
79023 TTCAAAGCCCACAACTCCGTGGCACTCTTTTTCCCTT
1 TTCAAAGCCCACAACTCCGTGGCAC-CTTCTT--CTT
*
79060 TT--AAGTCCACAACTCCGTGGC
1 TTCAAAGCCCACAACTCCGTGGC
79081 TTCTTTCACC
Statistics
Matches: 180, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
32 24 0.13
33 8 0.04
34 120 0.67
35 23 0.13
37 5 0.03
ACGTcount: A:0.21, C:0.37, G:0.12, T:0.30
Consensus pattern (34 bp):
TTCAAAGCCCACAACTCCGTGGCACCTTCTTCTT
Found at i:79165 original size:34 final size:34
Alignment explanation
Indices: 79088--79209 Score: 182
Period size: 33 Copynumber: 3.7 Consensus size: 34
79078 GGCTTCTTTC
*
79088 ACCCTT-TCTAAAGCCCACACAAGTCGATGGCAA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
79121 A-CCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
79154 ACCCTTCTCTAAAGCCCACACAAGTTGGTGGC-A
1 ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
*
79187 ACCC-CCTC-AAAGCCCACACAAGT
1 ACCCTTCTCTAAAGCCCACACAAGT
79210 TCCTGACATT
Statistics
Matches: 84, Mismatches: 3, Indels: 6
0.90 0.03 0.06
Matches are distributed among these distances:
31 15 0.18
32 7 0.08
33 33 0.39
34 29 0.35
ACGTcount: A:0.31, C:0.36, G:0.16, T:0.17
Consensus pattern (34 bp):
ACCCTTCTCTAAAGCCCACACAAGTCGGTGGCAA
Found at i:82922 original size:3 final size:3
Alignment explanation
Indices: 82914--82954 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
82904 TTTAATTAAA
82914 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
82955 TAATTAATTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
AAT
Found at i:105111 original size:4 final size:4
Alignment explanation
Indices: 105102--105127 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
105092 CGCACCATAT
105102 TTTA TTTA TTTA TTTA TTTA TTTA TT
1 TTTA TTTA TTTA TTTA TTTA TTTA TT
105128 ACTAAATTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:105698 original size:24 final size:24
Alignment explanation
Indices: 105671--105723 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
105661 ACTTTTTTAT
105671 ATTAATT-ATGTAAATATAATATAA
1 ATTAATTAAT-TAAATATAATATAA
*
105695 ATT-ATTAAATTAAATATAATATAT
1 ATTAATT-AATTAAATATAATATAA
105719 ATTAA
1 ATTAA
105724 ATATATCAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
23 3 0.12
24 19 0.76
25 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (24 bp):
ATTAATTAATTAAATATAATATAA
Found at i:105710 original size:19 final size:20
Alignment explanation
Indices: 105669--105725 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
105659 ATACTTTTTT
*
105669 ATATTAATTATGTAAA-TATA
1 ATATAAATTAT-TAAATTATA
105689 ATATAAATTATTAAATTA-A
1 ATATAAATTATTAAATTATA
105708 ATATAATATATATTAAAT
1 ATATAA-AT-TATTAAAT
105726 ATATCAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 11 0.33
20 14 0.42
21 8 0.24
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (20 bp):
ATATAAATTATTAAATTATA
Found at i:111336 original size:2 final size:2
Alignment explanation
Indices: 111331--111372 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
111321 GCGCGCGCGC
111331 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA
111373 AGTTTAAGGG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:115520 original size:2 final size:2
Alignment explanation
Indices: 115513--115540 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
115503 TTATACATAC
115513 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
115541 GCAGCTTTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:124960 original size:2 final size:2
Alignment explanation
Indices: 124953--124998 Score: 74
Period size: 2 Copynumber: 23.0 Consensus size: 2
124943 TCCTTTCACC
* *
124953 CT CT CT CT CT CT CT CT CT CT TT CT CT CT GT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
124995 CT CT
1 CT CT
124999 ATAGTTGCAC
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.00, C:0.46, G:0.02, T:0.52
Consensus pattern (2 bp):
CT
Found at i:125463 original size:2 final size:2
Alignment explanation
Indices: 125416--125443 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
125406 AAGCTTGAGA
125416 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
125444 GTAAGACTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:126127 original size:3 final size:3
Alignment explanation
Indices: 126119--126143 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
126109 GAGTTTCCAA
126119 AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG A
126144 GTAGGACCTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:127124 original size:5 final size:5
Alignment explanation
Indices: 127108--127194 Score: 76
Period size: 5 Copynumber: 18.0 Consensus size: 5
127098 TCTAATATTA
* * *
127108 AATAT AACAT AATAT AATAT AAGA- AATAT -ATATT AAATAT AACAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATA-T -AATAT AATAT AATAT
* *
127158 -TTA- AATAT AATAT AATAT AATAT AAGA- AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
127195 GAAAATTCTA
Statistics
Matches: 65, Mismatches: 10, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
4 13 0.20
5 48 0.74
6 1 0.02
7 3 0.05
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (5 bp):
AATAT
Found at i:127163 original size:18 final size:18
Alignment explanation
Indices: 127100--127175 Score: 79
Period size: 18 Copynumber: 4.3 Consensus size: 18
127090 ATGAAAATTC
127100 TAATA-TTAAATATAACA
1 TAATATTTAAATATAACA
*
127117 TAATA--T-AATATAAGA
1 TAATATTTAAATATAACA
*
127132 AATATATATTAAATATAACA
1 TA-ATAT-TTAAATATAACA
*
127152 TAATATTTAAATATAATA
1 TAATATTTAAATATAACA
127170 TAATAT
1 TAATAT
127176 AATATAAGAA
Statistics
Matches: 49, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
15 9 0.18
16 4 0.08
17 5 0.10
18 17 0.35
19 5 0.10
20 9 0.18
ACGTcount: A:0.58, C:0.03, G:0.01, T:0.38
Consensus pattern (18 bp):
TAATATTTAAATATAACA
Found at i:128089 original size:22 final size:21
Alignment explanation
Indices: 128047--128109 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
128037 ATTATTTTTG
128047 TTTAAAAATTAATTTTTAAAT
1 TTTAAAAATTAATTTTTAAAT
* *
128068 TTTAAAAGTTATTTATTTAAAT
1 TTTAAAAATTAATT-TTTAAAT
*
128090 TATTAAATA-TAA-TTTTAAAT
1 T-TTAAAAATTAATTTTTAAAT
128110 AGAAAAAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
20 7 0.20
21 13 0.37
22 10 0.29
23 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TTTAAAAATTAATTTTTAAAT
Found at i:128104 original size:23 final size:22
Alignment explanation
Indices: 128061--128104 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 22
128051 AAAATTAATT
*
128061 TTTAAATTTTAAAAGTTATTTA
1 TTTAAATTTTAAAAGTAATTTA
128083 TTTAAATTATTAAATA-TAATTT
1 TTTAAATT-TTAAA-AGTAATTT
128105 TAAATAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
22 8 0.42
23 10 0.53
24 1 0.05
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTAAATTTTAAAAGTAATTTA
Found at i:129868 original size:15 final size:15
Alignment explanation
Indices: 129850--129879 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
129840 TTTTTTATTA
129850 AATAATTTTTTTCTC
1 AATAATTTTTTTCTC
*
129865 AATATTTTTTTTCTC
1 AATAATTTTTTTCTC
129880 TCTTCTTTAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.00, T:0.63
Consensus pattern (15 bp):
AATAATTTTTTTCTC
Found at i:130612 original size:20 final size:17
Alignment explanation
Indices: 130568--130603 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 17
130558 TAGTTTATAT
130568 ATTTATATTATATTTGTAA
1 ATTT-TATTATATTT-TAA
130587 ATTTTATTATATTTTAA
1 ATTTTATTATATTTTAA
130604 TTATATTTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.18
18 10 0.59
19 4 0.24
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (17 bp):
ATTTTATTATATTTTAA
Found at i:130623 original size:27 final size:29
Alignment explanation
Indices: 130561--130628 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 29
130551 TGAATCTTAG
* *
130561 TTTATATATTTATATTATATTTGTAAATTT
1 TTTATAT-TTTATATTATATTTGAAAATAT
130591 TATTATATTTTA-ATTATATTT-AAAATAT
1 T-TTATATTTTATATTATATTTGAAAATAT
130619 TTTATATTTT
1 TTTATATTTT
130629 TATAAATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 9 0.26
28 6 0.17
29 9 0.26
30 5 0.14
31 6 0.17
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (29 bp):
TTTATATTTTATATTATATTTGAAAATAT
Found at i:130701 original size:23 final size:24
Alignment explanation
Indices: 130675--130740 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 24
130665 AATTTTAAAA
130675 ATATTTTTATATTATAT-TATATT
1 ATATTTTTATATTATATATATATT
* *
130698 ATATTTTAATTATT-TAATATATGTT
1 ATATTTTTA-TATTAT-ATATATATT
*
130723 ATATTTATATAATTATAT
1 ATATTTTTAT-ATTATAT
130741 CTAAAATTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
23 9 0.26
24 7 0.21
25 17 0.50
26 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (24 bp):
ATATTTTTATATTATATATATATT
Found at i:130918 original size:23 final size:23
Alignment explanation
Indices: 130892--130942 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
130882 ACTTATAACC
130892 ATTTTTTATAGGATAATAGGTAA
1 ATTTTTTATAGGATAATAGGTAA
* * * * *
130915 ATTTATTATTGTATCATAGGTGA
1 ATTTTTTATAGGATAATAGGTAA
130938 ATTTT
1 ATTTT
130943 AAAATTTTTA
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.02, G:0.16, T:0.49
Consensus pattern (23 bp):
ATTTTTTATAGGATAATAGGTAA
Found at i:131477 original size:15 final size:15
Alignment explanation
Indices: 131457--131487 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
131447 AGTATAACAG
131457 TAAATTTTCTTTTAA
1 TAAATTTTCTTTTAA
131472 TAAATTTTCTTTTAA
1 TAAATTTTCTTTTAA
131487 T
1 T
131488 GTCAAAGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.61
Consensus pattern (15 bp):
TAAATTTTCTTTTAA
Found at i:131752 original size:21 final size:20
Alignment explanation
Indices: 131728--131776 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
131718 GACCCTATTG
* **
131728 AATATTTATAATATATTTTAA
1 AATATTTA-AAAATATTAAAA
131749 AATATATTAAAAATATTAAAA
1 AATAT-TTAAAAATATTAAAA
131770 AATATTT
1 AATATTT
131777 TTATATTAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.08
21 19 0.79
22 3 0.12
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
AATATTTAAAAATATTAAAA
Found at i:133934 original size:11 final size:12
Alignment explanation
Indices: 133907--133933 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
133897 TTCAGAAGGG
133907 AAAAGAAAAAAA
1 AAAAGAAAAAAA
133919 AAAAGAAAAAAA
1 AAAAGAAAAAAA
133931 AAA
1 AAA
133934 GCCACCTCCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAA
Found at i:135461 original size:2 final size:2
Alignment explanation
Indices: 135454--135487 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
135444 AATGATTATG
135454 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
135488 GTGCAACTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:135922 original size:4 final size:4
Alignment explanation
Indices: 135915--135940 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
135905 ATATATATAA
135915 ATAG ATAG ATAG ATAG ATAG ATAG AT
1 ATAG ATAG ATAG ATAG ATAG ATAG AT
135941 TCTTGAGAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.23, T:0.27
Consensus pattern (4 bp):
ATAG
Found at i:138021 original size:162 final size:161
Alignment explanation
Indices: 137700--138025 Score: 634
Period size: 162 Copynumber: 2.0 Consensus size: 161
137690 CCTCATATAC
*
137700 AGACGGAGAGCTTTCATCAGAACATTCTCCGTACGTATCAATTAGAGCTGACAGAATATGAAAAC
1 AGACGGAGAGCTTTCATCAGAACATTCCCCGTACGTATCAATTAGAGCTGACAGAATATGAAAAC
137765 TCCCTGAATGCAAACTACTTTCCTAACAAAACAGTGAATTTGCCTCCCGAATAGAATATCCCGCT
66 TCCCTGAATGCAAACTACTTTCCTAACAAAACAGTGAATTTGCCTCCCGAATAGAATATCCCGCT
137830 TTCAAGTGAACAAATTCAAGAACCCCGAAAA
131 TTCAAGTGAACAAATTCAAGAACCCCGAAAA
137861 AGACGGAGAGCTTTCATCAGAACATTCCCCGTACGTATCAATTAGAGCTGACAGAATATGAAAAC
1 AGACGGAGAGCTTTCATCAGAACATTCCCCGTACGTATCAATTAGAGCTGACAGAATATGAAAAC
137926 TCCCTGAATGCAAACTTACTTTCCTAACAAAACAGTGAATTTGCCTCCCGAATAGAATATCCCGC
66 TCCCTGAATGCAAAC-TACTTTCCTAACAAAACAGTGAATTTGCCTCCCGAATAGAATATCCCGC
137991 TTTCAAGTGAACAAATTCAAGAACCCCGAAAA
130 TTTCAAGTGAACAAATTCAAGAACCCCGAAAA
138023 AGA
1 AGA
138026 ATGAAATGAA
Statistics
Matches: 163, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
161 79 0.48
162 84 0.52
ACGTcount: A:0.37, C:0.24, G:0.16, T:0.23
Consensus pattern (161 bp):
AGACGGAGAGCTTTCATCAGAACATTCCCCGTACGTATCAATTAGAGCTGACAGAATATGAAAAC
TCCCTGAATGCAAACTACTTTCCTAACAAAACAGTGAATTTGCCTCCCGAATAGAATATCCCGCT
TTCAAGTGAACAAATTCAAGAACCCCGAAAA
Found at i:143663 original size:26 final size:27
Alignment explanation
Indices: 143634--143684 Score: 79
Period size: 26 Copynumber: 1.9 Consensus size: 27
143624 GTTAAAACTT
143634 TAAAAATTA-ATTAAT-ATTTATTTAAG
1 TAAAAATTATA-TAATAATTTATTTAAG
143660 TAAAAATTATATAATAATTTATTTA
1 TAAAAATTATATAATAATTTATTTA
143685 TATATTGAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
26 13 0.57
27 10 0.43
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (27 bp):
TAAAAATTATATAATAATTTATTTAAG
Found at i:145756 original size:20 final size:20
Alignment explanation
Indices: 145731--145771 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
145721 GTTCAATTAG
145731 AATATTGTATAGTAGTAGAT
1 AATATTGTATAGTAGTAGAT
145751 AATATTGTATAGTAGTAGAT
1 AATATTGTATAGTAGTAGAT
145771 A
1 A
145772 TTATAATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.20, T:0.39
Consensus pattern (20 bp):
AATATTGTATAGTAGTAGAT
Found at i:145772 original size:17 final size:18
Alignment explanation
Indices: 145728--145773 Score: 67
Period size: 20 Copynumber: 2.5 Consensus size: 18
145718 AATGTTCAAT
145728 TAGAATATTGTATAGTAG
1 TAGAATATTGTATAGTAG
145746 TAGATAATATTGTATAGTAG
1 TAG--AATATTGTATAGTAG
145766 TAG-ATATT
1 TAGAATATT
145774 ATAATCAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
17 5 0.19
18 3 0.12
20 18 0.69
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (18 bp):
TAGAATATTGTATAGTAG
Found at i:147414 original size:20 final size:20
Alignment explanation
Indices: 147389--147429 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
147379 CTCGACTTAA
147389 TATCCCTCGCAATTGGGGAT
1 TATCCCTCGCAATTGGGGAT
147409 TATCCCTCGCAATTGGGGAT
1 TATCCCTCGCAATTGGGGAT
147429 T
1 T
147430 TCCATGTAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.32
Consensus pattern (20 bp):
TATCCCTCGCAATTGGGGAT
Found at i:150532 original size:20 final size:19
Alignment explanation
Indices: 150503--150577 Score: 87
Period size: 20 Copynumber: 3.8 Consensus size: 19
150493 AAAAAGACAT
150503 AATGTATCGATACATTGAA
1 AATGTATCGATACATTGAA
* *
150522 GAATATATCGATACATTTATA
1 -AATGTATCGATACATTGA-A
* *
150543 CATGTATCGATATATTGAAA
1 AATGTATCGATACATTG-AA
150563 AATGTATCGATACAT
1 AATGTATCGATACAT
150578 CTGGGTAAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 4
0.79 0.14 0.07
Matches are distributed among these distances:
20 43 0.96
21 2 0.04
ACGTcount: A:0.41, C:0.11, G:0.13, T:0.35
Consensus pattern (19 bp):
AATGTATCGATACATTGAA
Found at i:151221 original size:28 final size:28
Alignment explanation
Indices: 151141--152408 Score: 809
Period size: 28 Copynumber: 44.4 Consensus size: 28
151131 AAAAAAGAAT
*
151141 GGTGCCACTAACTTGTGTGGGCTTTGAAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTG-AAAG
* **
151172 AGTTGCCACCAACTCGTGTGGGCTTTGAAAG
1 -GGTGCCACTGACT--TGTGGGCTTTGAAAG
151203 GGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
151231 GATGCCACTGACATGTGGGCTTTGAAAAT
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
* * *
151260 GTTGCCACCGACTCGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
151288 GATACCACTAACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
*
151317 GGTTGCCACCGACTCGTGTGGGCTTTGAAAG
1 GG-TGCCACTGACT--TGTGGGCTTTGAAAG
*
151348 GATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
151376 GGTGCCACTGACTTGTGGGCTTTCAAAAG
1 GGTGCCACTGACTTGTGGGCTTT-GAAAG
* * *
151405 CGTTGCCACCGACTCGTGGGCTTTGAAAG
1 -GGTGCCACTGACTTGTGGGCTTTGAAAG
*
151434 GATGCCACTGACTTGTGGGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
*
151463 GGTTGCCA-TCAACTCATGTGGGCTTTGAAAAG
1 GG-TGCCACT-GACT--TGTGGGCTTTG-AAAG
*
151495 AGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
151523 GGTGCCACTAACTTGTGGGTTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
151551 GATGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
151579 TGTTGCCACTGACTCGTGGGCTTTGAAAG
1 -GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
151608 GATGCCACTAACTTGTGAGCTTTGAAAAG
1 GGTGCCACTGACTTGTGGGCTTTG-AAAG
*
151637 GGTTGCCACCGACTCGTGTGGGCTTTGAAAAG
1 GG-TGCCACTGACT--TGTGGGCTTTG-AAAG
*
151669 AGTGCCACTGACTTGTGGGCTTTGAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
151697 GGTGCCACTGATTTGTGGGCTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* *
151725 GGTGTCACTGATTTGTGGGCTTTGAAATG
1 GGTGCCACTGACTTGTGGGCTTTGAAA-G
* ** *
151754 GGTTACCACCAACTTGTGTGGGCTTTCAAATG
1 GG-TGCCACTGAC-T-TGTGGGCTTTGAAA-G
*
151786 GGTTGCCACCGACTTGTGTGGGCTTTGAAATAG
1 GG-TGCCACTGAC-T-TGTGGGCTTTG-AA-AG
* * * *
151819 GTTACCACCGACTTGTGTGGGCTTTAAAAG
1 GGTGCCACTGAC-T-TGTGGGCTTTGAAAG
* **
151849 GGTACCACTGACTTGTGGGCTTAAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * ** *
151877 GATGCCAC-GAAGTTTTGAAC-TTAAAAG
1 GGTGCCACTG-ACTTGTGGGCTTTGAAAG
* * * *
151904 GGTGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * ** * *
151932 GGTTCCACGGAGTTGTGAACTCTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
151960 GGTGCCACGGAGTTGTGGACTTT-AAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * *
151987 GGTGCCACGGAGTTGTAGAC-TTAAAAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * *
152014 GATGCCACAGAGTTGTGGAC-TTAAAAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
152041 GATGCCACGGAGTTGTGGACTTT-AAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
152068 GGTGCCACGGAGTTGTGGAC-TTAAAAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
152095 GATGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
152123 GGTGCCACGGAGTTGTGGACTTT-AAAT
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * * *
152150 GGTACCACGGAGTTATGGAC-TTAAAAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
152177 GATGCCAC-GAAGTTGTGGACTTTAAAAG
1 GGTGCCACTG-ACTTGTGGGCTTTGAAAG
* * * *
152205 GGTGCCACAGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * *
152233 GGTGCCACAGAGTTGTGGACTTT-AAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * * *
152260 GGTACCACAGAGTTGTGGAC-TTAAAAC
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
152287 GATGCCACGGAATTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * *
152315 GGTGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
152343 GATGCCACGGAGTTGTGGACTTTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
* * * * *
152371 GATGCCACAGAGTTGTGGAC-TTAAAAG
1 GGTGCCACTGACTTGTGGGCTTTGAAAG
*
152398 GATGCCACTGA
1 GGTGCCACTGA
152409 GTCGTAGACT
Statistics
Matches: 1074, Mismatches: 124, Indels: 81
0.84 0.10 0.06
Matches are distributed among these distances:
26 9 0.01
27 233 0.22
28 486 0.45
29 100 0.09
30 82 0.08
31 31 0.03
32 128 0.12
33 4 0.00
34 1 0.00
ACGTcount: A:0.25, C:0.18, G:0.31, T:0.27
Consensus pattern (28 bp):
GGTGCCACTGACTTGTGGGCTTTGAAAG
Found at i:151615 original size:174 final size:173
Alignment explanation
Indices: 151142--151884 Score: 825
Period size: 174 Copynumber: 4.2 Consensus size: 173
151132 AAAAAGAATG
* * *
151142 GTGCCACTAACTTGTGTGGGCTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTTGAAAGGGTG
1 GTGCCACTGAC-T-TGTGGGCTTTG-AAAG-GATGCCACTAACT--TGTGGGCTTTGAAAGGGTG
* * * *
151207 CCACTGACTTGTGGGCTTTGAAAGGATGCCACTGACAT-GTGGGCTTTGAAAATGTTGCCACCGA
60 CCACTGACTTGTGGGCTTTGAAAGGTTGCCACCGACATCGTGGGCTTTG-AAAGGATGCCACCGA
* * * *
151271 CTCGTGGGCTTTG-AAAGGATACCACTAACT--TGTGGGCTTTGAAAAGG
124 CTTGTGGGCTTTGAAAAGGTTACCACCAACTCGTGTGGGCTTTGAAAAGA
* *
151318 GTTGCCACCGACTCGTGTGGGCTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAGGGTGCCA
1 G-TGCCACTGACT--TGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCA
* *
151383 CTGACTTGTGGGCTTTCAAAAGCGTTGCCACCGAC-TCGTGGGCTTTGAAAGGATGCCACTGACT
63 CTGACTTGTGGGCTTT-GAAAG-GTTGCCACCGACATCGTGGGCTTTGAAAGGATGCCACCGACT
* * *
151447 TGTGGGCTTTGAAAAGGGTTGCCATCAACTCATGTGGGCTTTGAAAAGA
126 TGTGGGCTTTGAAAA-GGTTACCACCAACTCGTGTGGGCTTTGAAAAGA
* * *
151496 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTAACTTGTGGGTTTTGAAAGGATGCCACTG
1 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTG
* **
151561 ACTTGTGGGCTTTGAAAGTGTTGCCACTGAC-TCGTGGGCTTTGAAAGGATGCCACTAACTTGTG
66 ACTTGTGGGCTTTGAAAG-GTTGCCACCGACATCGTGGGCTTTGAAAGGATGCCACCGACTTGTG
* * *
151625 AGCTTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTTGAAAAGA
130 GGCTTTGAAAA-GGTTACCACCAACTCGTGTGGGCTTTGAAAAGA
* * * * *
151670 GTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTAAAAGGGTGTCACTG
1 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTG
* * * * * * *
151735 ATTTGTGGGCTTTGAAATGGGTTACCACCAACTTGTGTGGGCTTTCAAATGGGTTGCCACCGACT
66 ACTTGTGGGCTTTGAAA--GGTTGCCACCGACAT-CGTGGGCTTTGAAA--GGATGCCACCGAC-
* * *
151800 TGTGTGGGCTTTGAAATAGGTTACCACCGACTTGTGTGGGCTTT-AAAAGG
125 T-TGTGGGCTTTGAAA-AGGTTACCACCAACTCGTGTGGGCTTTGAAAAGA
* **
151850 GTACCACTGACTTGTGGGCTTAAAAAGGATGCCAC
1 GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCAC
151885 GAAGTTTTGA
Statistics
Matches: 496, Mismatches: 53, Indels: 32
0.85 0.09 0.06
Matches are distributed among these distances:
173 38 0.08
174 192 0.39
175 104 0.21
176 18 0.04
177 42 0.08
178 17 0.03
179 10 0.02
180 37 0.07
181 37 0.07
182 1 0.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (173 bp):
GTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTGAAAGGGTGCCACTG
ACTTGTGGGCTTTGAAAGGTTGCCACCGACATCGTGGGCTTTGAAAGGATGCCACCGACTTGTGG
GCTTTGAAAAGGTTACCACCAACTCGTGTGGGCTTTGAAAAGA
Found at i:151910 original size:27 final size:27
Alignment explanation
Indices: 151842--152425 Score: 700
Period size: 27 Copynumber: 21.3 Consensus size: 27
151832 TGTGTGGGCT
* * * *
151842 TTAAAAGGGTACCACTGACTTGTGGGC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
* * * *
151869 TTAAAAAGGATGCCACGAAGTTTTGAAC
1 TT-AAAAGGGTGCCACGGAGTTGTGGAC
151897 TTAAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
* *
151924 TTTAAAAGGGTTCCACGGAGTTGTGAAC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC
151952 TCTAAAAGGGTGCCACGGAGTTGTGGAC
1 T-TAAAAGGGTGCCACGGAGTTGTGGAC
* *
151980 TTTAAAGGGTGCCACGGAGTTGTAGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
* * *
152007 TTAAAACGATGCCACAGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
* *
152034 TTAAAACGATGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
*
152061 TTTAAAGGGTGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
* *
152088 TTAAAACGATGCCACGGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
152115 TTTAAAAGGGTGCCACGGAGTTGTGGAC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC
* * * *
152143 TTTAAATGGTACCACGGAGTTATGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
* * *
152170 TTAAAACGATGCCACGAAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
*
152197 TTTAAAAGGGTGCCACAGAGTTGTGGAC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC
*
152225 TTTAAAAGGGTGCCACAGAGTTGTGGAC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC
* * *
152253 TTTAAAGGGTACCACAGAGTTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
* * *
152280 TTAAAACGATGCCACGGAATTGTGGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
152307 TTTAAAAGGGTGCCACGGAGTTGTGGAC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC
*
152335 TTTAAAAGGATGCCACGGAGTTGTGGAC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC
* *
152363 TTTAAAAGGATGCCACAGAGTTGTGGAC
1 -TTAAAAGGGTGCCACGGAGTTGTGGAC
* * * *
152391 TTAAAAGGATGCCACTGAGTCGTAGAC
1 TTAAAAGGGTGCCACGGAGTTGTGGAC
152418 TTTAAAAG
1 -TTAAAAG
152426 AAAATGCCAC
Statistics
Matches: 488, Mismatches: 62, Indels: 13
0.87 0.11 0.02
Matches are distributed among these distances:
27 258 0.53
28 230 0.47
ACGTcount: A:0.29, C:0.16, G:0.30, T:0.25
Consensus pattern (27 bp):
TTAAAAGGGTGCCACGGAGTTGTGGAC
Found at i:151920 original size:149 final size:149
Alignment explanation
Indices: 151162--151884 Score: 503
Period size: 146 Copynumber: 4.9 Consensus size: 149
151152 CTTGTGTGGG
* * * * * *
151162 CTTTGAAAAGAGTTGCCACCAACTCGTGTGGGCTTT-GAAAGGG-TGCCACTGACT--TGTGGGC
1 CTTTGAAAAGGGTTACCACCAACTTGTGTGAGCTTTCAAAAGGGTTGCCACCGACTCGTGTGGGC
* * * * * * * * * **
151223 TTTGAAAGGA-TGCCACTGACATGTGGGCTTTGAAAATGTTGCCACCGACTCGTGGGCTTTGAAA
66 TTTGAAAAGAGTACCACCGACTTGTGGGCTTT-AAAAGGGTACCACTGACTTGTGGGCTTAAAAA
* * * **
151287 GGATACCACTAACTTGTGGG
130 GGATGCCACTGATTTGTGAA
* * * * * * *
151307 CTTTGAAAAGGGTTGCCACCGACTCGTGTGGGCTTT-GAAA-GGATGCCACTGACT--TGTGGGC
1 CTTTGAAAAGGGTTACCACCAACTTGTGTGAGCTTTCAAAAGGGTTGCCACCGACTCGTGTGGGC
* * * * * * * **
151368 TTTG-AAAGGGTGCCACTGACTTGTGGGCTTTCAAAAGCGTTGCCACCGACTCGTGGGCTTTGAA
66 TTTGAAAAGAGTACCACCGACTTGTGGGCTTT-AAAAG-GGTACCACTGACTTGTGGGCTTAAAA
* **
151432 AGGATGCCACTGACTTGTGGG
129 AGGATGCCACTGATTTGTGAA
* * ** * * * *
151453 CTTTGAAAAGGGTTGCCATCAACTCATGTGGGCTTTGAAAAGAG-TGCCACTGACT--TGTGGGC
1 CTTTGAAAAGGGTTACCACCAACTTGTGTGAGCTTTCAAAAGGGTTGCCACCGACTCGTGTGGGC
* * ** * * * * **
151515 TTTG-AAAGGGTGCCACTAACTTGTGGGTTTTGAAAGGATGCCACTGACTTGTGGGCTTTGAAAG
66 TTTGAAAAGAGTACCACCGACTTGTGGGCTTTAAAAGGGTACCACTGACTTGTGGGCTTAAAAAG
* * * **
151579 TGTTGCCACTGACTCGTGGG
131 -GATGCCACTGATTTGTGAA
* * * *
151599 CTTTG-AAA-GGATGCCACTAAC-T-TGTGAGCTTTGAAAAGGGTTGCCACCGACTCGTGTGGGC
1 CTTTGAAAAGGGTTACCACCAACTTGTGTGAGCTTTCAAAAGGGTTGCCACCGACTCGTGTGGGC
* * * * * *
151660 TTTGAAAAGAGTGCCACTGACTTGTGGGCTTTGAAAGGGTGCCACTGATTTGTGGGCTTTAAAAG
66 TTTGAAAAGAGTACCACCGACTTGTGGGCTTTAAAAGGGTACCACTGACTTGTGGGCTTAAAAAG
* * **
151725 GGTGTCACTGATTTGTGGG
131 GATGCCACTGATTTGTGAA
* * * *
151744 CTTTGAAATGGGTTACCACCAACTTGTGTGGGCTTTCAAATGGGTTGCCACCGACTTGTGTGGGC
1 CTTTGAAAAGGGTTACCACCAACTTGTGTGAGCTTTCAAAAGGGTTGCCACCGACTCGTGTGGGC
151809 TTTGAAATAG-GTTACCACCGACTTGTGTGGGCTTTAAAAGGGTACCACTGACTTGTGGGCTTAA
66 TTTGAAA-AGAG-TACCACCGAC-T-TGTGGGCTTTAAAAGGGTACCACTGACTTGTGGGCTTAA
151873 AAAGGATGCCAC
127 AAAGGATGCCAC
151885 GAAGTTTTGA
Statistics
Matches: 505, Mismatches: 55, Indels: 29
0.86 0.09 0.05
Matches are distributed among these distances:
142 16 0.03
143 10 0.02
144 15 0.03
145 143 0.28
146 160 0.32
147 60 0.12
148 2 0.00
149 43 0.09
150 10 0.02
151 1 0.00
152 45 0.09
ACGTcount: A:0.22, C:0.19, G:0.30, T:0.28
Consensus pattern (149 bp):
CTTTGAAAAGGGTTACCACCAACTTGTGTGAGCTTTCAAAAGGGTTGCCACCGACTCGTGTGGGC
TTTGAAAAGAGTACCACCGACTTGTGGGCTTTAAAAGGGTACCACTGACTTGTGGGCTTAAAAAG
GATGCCACTGATTTGTGAA
Done.