Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr2
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: 50190067
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Warning! 915496 characters in sequence are not A, C, G, or T
File 46 of 161
Found at i:13912517 original size:20 final size:20
Alignment explanation
Indices: 13912492--13912542 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
13912482 ACTTCAGCTG
13912492 AAGGAGAAGAAAGAAAAGGA
1 AAGGAGAAGAAAGAAAAGGA
13912512 AAGGAGAAGAAAGAAAAGGA
1 AAGGAGAAGAAAGAAAAGGA
13912532 AAGGAGAAGAA
1 AAGGAGAAGAA
13912543 GGAGGAAGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (20 bp):
AAGGAGAAGAAAGAAAAGGA
Found at i:13912523 original size:10 final size:10
Alignment explanation
Indices: 13912492--13912551 Score: 54
Period size: 10 Copynumber: 6.0 Consensus size: 10
13912482 ACTTCAGCTG
13912492 AAGGAGAAGA
1 AAGGAGAAGA
*
13912502 AA-GAAAAGGA
1 AAGGAGAA-GA
13912512 AAGGAGAAGA
1 AAGGAGAAGA
*
13912522 AA-GAAAAGGA
1 AAGGAGAA-GA
13912532 AAGGAGAAG-
1 AAGGAGAAGA
13912541 AAGGAGGAAGA
1 AAGGA-GAAGA
13912552 GGAGGAGGAG
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
9 13 0.32
10 19 0.47
11 8 0.20
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
AAGGAGAAGA
Found at i:13912652 original size:33 final size:34
Alignment explanation
Indices: 13912590--13912653 Score: 85
Period size: 33 Copynumber: 1.9 Consensus size: 34
13912580 CCGAAAAAAG
* *
13912590 AAAAGAAAAAGAGAGAAAGAGAATAGAGAAAGGA
1 AAAAGAAAAAGAGAGAAAAAAAATAGAGAAAGGA
* *
13912624 AAAAGAAAGAGA-AGAAAAAAAATTGAGAAA
1 AAAAGAAAAAGAGAGAAAAAAAATAGAGAAA
13912654 ATAAGGTATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
33 15 0.58
34 11 0.42
ACGTcount: A:0.70, C:0.00, G:0.25, T:0.05
Consensus pattern (34 bp):
AAAAGAAAAAGAGAGAAAAAAAATAGAGAAAGGA
Found at i:13912946 original size:76 final size:76
Alignment explanation
Indices: 13912866--13913007 Score: 214
Period size: 76 Copynumber: 1.9 Consensus size: 76
13912856 AAACTAGTAT
13912866 TATTATGGTTAGTTATTAGGATTAGTAAAAACCCTAATTATTATT-TTAGTTAGTATGATTGTTA
1 TATTATGGTTAGTTATTAGGATTAGT-AAAACCCTAATTATTATTGTTAGTTAGTATGATTGTTA
13912930 GTTTTTACACTA
65 GTTTTTACACTA
* *** * *
13912942 TATTATTGTTAGTTATTATTTTTAGTAAAACCCTAATTATTATTGTTAGTTAGTATTATTTTTAG
1 TATTATGGTTAGTTATTAGGATTAGTAAAACCCTAATTATTATTGTTAGTTAGTATGATTGTTAG
13913007 T
66 T
13913008 AAACTGTTAT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 18 0.31
76 41 0.69
ACGTcount: A:0.30, C:0.06, G:0.13, T:0.51
Consensus pattern (76 bp):
TATTATGGTTAGTTATTAGGATTAGTAAAACCCTAATTATTATTGTTAGTTAGTATGATTGTTAG
TTTTTACACTA
Found at i:13918989 original size:158 final size:158
Alignment explanation
Indices: 13918701--13919557 Score: 1325
Period size: 158 Copynumber: 5.4 Consensus size: 158
13918691 AATTTCAATA
* * *
13918701 TATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTC
1 TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTT
* * *
13918766 ATAATATTTTAGCACATAACGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGTA
66 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGTA
* *
13918831 AAAAACCATTATTTTGGCCCTTTGTTCG
131 AAAAACCCTTATTTTGGCCATTTGTTCG
*
13918859 TATTTTCCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTAGTTTT-GTATTTTATTATTT
1 TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTA-TTTTCGTATTTTATTATTT
*
13918923 TATATTATTTTAGTACATAATGTTTGAAATATATTAATTTAGTGTGTTTTTTATATAAATTTAGT
65 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGT
*
13918988 AAAAAACCATTATTTTGGCTC-TTTGTTC-
130 AAAAAACCCTTATTTTGGC-CATTTGTTCG
* * *
13919016 -A-TTTTCTTATTTTCTGATTTTATTACTTT-TAAAAA-ATACTATTTTTGTATTTTATTATTTT
1 TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTT
13919077 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGT
66 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTG-TTTTTTATATAAATTTAGT
13919142 AAAAAAAACCCTTATTTTGGCCATTTGTTCG
130 --AAAAAACCCTTATTTTGGCCATTTGTTCG
*
13919173 TATTTTTCTTATTTTTGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTT
1 TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTT
13919238 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGTA
66 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGTA
**
13919303 AAACCCCCTTATTTTGGCCATTTGTTCG
131 AAAAACCCTTATTTTGGCCATTTGTTCG
** * *
13919331 TATTTTTCTTATTTTTAGATTTTATTACTTTTAAAAAATATATTATTTTCGTATTTTATTATTTT
1 TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTT
13919396 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGT
66 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTG-TTTTTTATATAAATTTAGT
*
13919461 AAAAAAACCCTTATTTTGGCCATTTATTCG
130 -AAAAAACCCTTATTTTGGCCATTTGTTCG
* ** *
13919491 TATTTTTCTTTTTTTTTTCCGGATTTTATTACTTTCAGTAAATATACTATTTTCGT-TTTTTTTA
1 TATTTTTC---TTATTTT-CGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTA
13919555 TTT
62 TTT
13919558 CTTTTTGTAT
Statistics
Matches: 648, Mismatches: 33, Indels: 31
0.91 0.05 0.04
Matches are distributed among these distances:
152 4 0.01
153 65 0.10
154 24 0.04
155 27 0.04
156 26 0.04
158 277 0.43
159 50 0.08
160 58 0.09
161 70 0.11
163 16 0.02
164 31 0.05
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.54
Consensus pattern (158 bp):
TATTTTTCTTATTTTCGGATTTTATTACTTTCAAAAAATATACTATTTTCGTATTTTATTATTTT
ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTATATAAATTTAGTA
AAAAACCCTTATTTTGGCCATTTGTTCG
Found at i:13919200 original size:314 final size:317
Alignment explanation
Indices: 13918702--13919557 Score: 1374
Period size: 314 Copynumber: 2.7 Consensus size: 317
13918692 ATTTCAATAT
* * *
13918702 ATTTTTCTTATTTTCAGATTTTATTACTTTCAAAAAATATATTATTTTCGTATTTTATTATTTCA
1 ATTTTTCTTATTTTCTGATTTTATTACTTTTAAAAAATATATTATTTTCGTATTTTATTATTTTA
* * *
13918767 TAATATTTTAGCACATAACGTTTGAAATGTATTAATTTAGTGTG-TTTTTTATATAAATTTAGT-
66 TATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGTA
* * * *
13918830 AAAAAACCATTATTTTGGCCCTTTGTTCGTATTTTCCTTATTTTCGGATTTTATTACTTTCAAAA
131 AAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTTGGATTTTATTACTTTCAAAA
13918895 AATATACTAGTTTT-GTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATATATTA
196 AATATACTA-TTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATATATTA
13918959 ATTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCATTATTTTGGCTC-TTTGTTC-
260 ATTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCATTATTTTGGC-CATTTGTTCG
13919016 A-TTTTCTTATTTTCTGATTTTATTACTTTTAAAAAATACTA-T-TTTT-GTATTTTATTATTTT
1 ATTTTTCTTATTTTCTGATTTTATTACTTTTAAAAAATA-TATTATTTTCGTATTTTATTATTTT
13919077 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGT
65 ATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGT
13919142 AAAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTTGGATTTTATTACTTTCAA
130 -AAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTTGGATTTTATTACTTTCAA
*
13919207 AAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATGTATT
194 AAAATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATATATT
** *
13919272 AATTTAGTGTGTTTTTTATATAAATTTAGTAAAACCCCCTTATTTTGGCCATTTGTTCG
259 AATTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCATTATTTTGGCCATTTGTTCG
13919331 TATTTTTCTTATTTT-TAGATTTTATTACTTTTAAAAAATATATTATTTTCGTATTTTATTATTT
1 -ATTTTTCTTATTTTCT-GATTTTATTACTTTTAAAAAATATATTATTTTCGTATTTTATTATTT
13919395 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAG
64 TATATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAG
* *
13919460 TAAAAAAACCCTTATTTTGGCCATTTATTCGTATTTTTCTTTTTTTTTTCCGGATTTTATTACTT
129 TAAAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTC--TTATTTTT--GGATTTTATTACTT
** *
13919525 TCAGTAAATATACTATTTTCGT-TTTTTTTATTT
190 TCAAAAAATATACTATTTTCGTATTTTATTATTT
13919558 CTTTTTGTAT
Statistics
Matches: 506, Mismatches: 19, Indels: 27
0.92 0.03 0.05
Matches are distributed among these distances:
311 56 0.11
312 23 0.05
313 41 0.08
314 174 0.34
316 4 0.01
317 36 0.07
318 41 0.08
319 80 0.16
320 7 0.01
321 10 0.02
322 34 0.07
ACGTcount: A:0.29, C:0.08, G:0.09, T:0.54
Consensus pattern (317 bp):
ATTTTTCTTATTTTCTGATTTTATTACTTTTAAAAAATATATTATTTTCGTATTTTATTATTTTA
TATTATTTTAGTACATAATGTTTGAAATGTATTAATTTAGTGTGTTTTTTTATATAAATTTAGTA
AAAAAACCCTTATTTTGGCCATTTGTTCGTATTTTTCTTATTTTTGGATTTTATTACTTTCAAAA
AATATACTATTTTCGTATTTTATTATTTTATATTATTTTAGTACATAATGTTTGAAATATATTAA
TTTAGTGTGTTTTTTATATAAATTTAGTAAAAAACCATTATTTTGGCCATTTGTTCG
Found at i:13919788 original size:20 final size:19
Alignment explanation
Indices: 13919754--13919792 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
13919744 TTTTTTACGC
*
13919754 AAATAATACAAAAAAATTA
1 AAATAATAAAAAAAAATTA
13919773 AAATAATATAAAAAAAATTA
1 AAATAATA-AAAAAAAATTA
13919793 CCTTTCCTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (19 bp):
AAATAATAAAAAAAAATTA
Found at i:13919841 original size:3 final size:3
Alignment explanation
Indices: 13919833--13919923 Score: 121
Period size: 3 Copynumber: 30.0 Consensus size: 3
13919823 CTTCCCTCCC
* * *
13919833 TCT TCT TCT TCT CCT TC- TCT TTT TCT TTT TCCT TCT TCT TCCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT T-CT TCT TCT T-CT TCT
*
13919879 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT CCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
13919924 CCTTTCCTTT
Statistics
Matches: 77, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
2 2 0.03
3 70 0.91
4 5 0.06
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (3 bp):
TCT
Found at i:13924857 original size:19 final size:19
Alignment explanation
Indices: 13924835--13924894 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
13924825 ATTTATTTAT
*
13924835 AAATAAATCATTTTCCAGA
1 AAATAATTCATTTTCCAGA
* *
13924854 AAAT-ATTAGATATTCCAGA
1 AAATAATT-CATTTTCCAGA
*
13924873 AAAGTAATTCATTTTCTAGA
1 AAA-TAATTCATTTTCCAGA
13924893 AA
1 AA
13924895 TCAATTCCGA
Statistics
Matches: 32, Mismatches: 6, Indels: 5
0.74 0.14 0.12
Matches are distributed among these distances:
18 2 0.06
19 16 0.50
20 11 0.34
21 3 0.09
ACGTcount: A:0.47, C:0.12, G:0.08, T:0.33
Consensus pattern (19 bp):
AAATAATTCATTTTCCAGA
Found at i:13947197 original size:30 final size:29
Alignment explanation
Indices: 13947163--13947224 Score: 72
Period size: 29 Copynumber: 2.1 Consensus size: 29
13947153 TAAAAGCTGT
13947163 TTTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTTCAAAATTTACCGAAATGGGCC-A
* ** *
13947193 -TTTTTTGATTATTTACCGGAATGGGCCA
1 TTTTTTTCAAAATTTACCGAAATGGGCCA
13947221 TTTT
1 TTTT
13947225 CTGCGAAATC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
28 1 0.04
29 26 0.96
ACGTcount: A:0.24, C:0.15, G:0.18, T:0.44
Consensus pattern (29 bp):
TTTTTTTCAAAATTTACCGAAATGGGCCA
Found at i:13948506 original size:25 final size:25
Alignment explanation
Indices: 13948472--13948541 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
13948462 CACACCACAA
*
13948472 CTCTCTTGAGCTTCCCGATACTTGG
1 CTCTCATGAGCTTCCCGATACTTGG
* * *
13948497 CTCTCATGAGCTTCTCGATATTTGT
1 CTCTCATGAGCTTCCCGATACTTGG
* *
13948522 CTCGCAAGAGCTTCCCGATA
1 CTCTCATGAGCTTCCCGATA
13948542 TACAGCTAGT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 38 1.00
ACGTcount: A:0.17, C:0.30, G:0.19, T:0.34
Consensus pattern (25 bp):
CTCTCATGAGCTTCCCGATACTTGG
Found at i:13948629 original size:75 final size:75
Alignment explanation
Indices: 13948490--13948631 Score: 169
Period size: 75 Copynumber: 1.9 Consensus size: 75
13948480 AGCTTCCCGA
* * * * * *
13948490 TACTTGGCTCTCATGAGCTTCTCGATATTTGTCTCGCAAGAGCTTCCCGATATACAGCTAGTATG
1 TACTTAGCTCACATGAGCTTCCCGATATATGGCTCGCAAGAGCTTCCCGATATACAGATAGTATG
13948555 AGTTCCCCTT
66 AGTTCCCCTT
* * * * *
13948565 TACTTAGCTCACATGAGCTTCCCGTTATATGGCTCGGAGGAGCTTCCCGGT-TACATGATTGTAT
1 TACTTAGCTCACATGAGCTTCCCGATATATGGCTCGCAAGAGCTTCCCGATATACA-GATAGTAT
13948629 GAG
65 GAG
13948632 CAGCATGTAC
Statistics
Matches: 55, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
74 4 0.07
75 51 0.93
ACGTcount: A:0.20, C:0.25, G:0.22, T:0.33
Consensus pattern (75 bp):
TACTTAGCTCACATGAGCTTCCCGATATATGGCTCGCAAGAGCTTCCCGATATACAGATAGTATG
AGTTCCCCTT
Found at i:13952691 original size:27 final size:30
Alignment explanation
Indices: 13952659--13952743 Score: 106
Period size: 27 Copynumber: 2.9 Consensus size: 30
13952649 ACACGTGACT
13952659 TGGTTGCTAAGTGCTGATTCCT-CCGA-GG
1 TGGTTGCTAAGTGCTGATTCCTACCGATGG
*
13952687 -GGTTGCTAAGTGCTGATTCCCCTACCTATTGG
1 TGGTTGCTAAGTGCTGATT--CCTACCGA-TGG
13952719 TGGTTGCTAAGTGCTGATTCC-ACCG
1 TGGTTGCTAAGTGCTGATTCCTACCG
13952744 TATTTTAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 10
0.80 0.03 0.16
Matches are distributed among these distances:
27 18 0.37
29 3 0.06
30 6 0.12
31 2 0.04
32 2 0.04
33 18 0.37
ACGTcount: A:0.15, C:0.24, G:0.28, T:0.33
Consensus pattern (30 bp):
TGGTTGCTAAGTGCTGATTCCTACCGATGG
Found at i:13952865 original size:103 final size:103
Alignment explanation
Indices: 13952660--13952947 Score: 427
Period size: 103 Copynumber: 2.8 Consensus size: 103
13952650 CACGTGACTT
* * * *
13952660 GGTTGCTAAGTGCTGATTCCTCCGAGGGGTTGCTAAGTGCTGATTCCCCTACCTATTGGTGGTTG
1 GGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACCCATTGGTGGTTG
* * *
13952725 CTAAGTGCTGATTCCACCGTATTTTAAATGTGAAAGGG
66 CTAAGTGCTGATTCCACCGCATCTGAAATGTGAAAGGG
13952763 GGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACCCATTTGGTGGTT
1 GGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACCCA-TTGGTGGTT
*
13952828 GCTAAGTGCTGATTCCATCGCATCTGAAATGTG-AAGGG
65 GCTAAGTGCTGATTCCACCGCATCTGAAATGTGAAAGGG
** **
13952866 GGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGG-TG
1 GGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACCCATTGGTGGTTG
* *
13952930 CTAAGTGCGGAATCCACC
66 CTAAGTGCTGATTCCACC
13952948 AACAACGGTT
Statistics
Matches: 169, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
101 17 0.10
102 7 0.04
103 107 0.63
104 38 0.22
ACGTcount: A:0.18, C:0.22, G:0.29, T:0.31
Consensus pattern (103 bp):
GGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTGCTGATTCCCCGACCCATTGGTGGTTG
CTAAGTGCTGATTCCACCGCATCTGAAATGTGAAAGGG
Found at i:13958623 original size:25 final size:25
Alignment explanation
Indices: 13958588--13958658 Score: 97
Period size: 25 Copynumber: 2.8 Consensus size: 25
13958578 ACACACCACA
*
13958588 ACTCTCTTGAGCTTCCCGATACTTG
1 ACTCTCATGAGCTTCCCGATACTTG
*
13958613 ACTCTCATGAGCTTCCCGATATTTG
1 ACTCTCATGAGCTTCCCGATACTTG
* * *
13958638 TCTCGCAAGAGCTTCCCGATA
1 ACTCTCATGAGCTTCCCGATA
13958659 TACAGCTAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.20, C:0.31, G:0.17, T:0.32
Consensus pattern (25 bp):
ACTCTCATGAGCTTCCCGATACTTG
Found at i:13968705 original size:17 final size:18
Alignment explanation
Indices: 13968665--13968705 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
13968655 TTTCTGCTTC
13968665 TTCTTCTCATACGTTTCTT
1 TTCTTCTCA-ACGTTTCTT
13968684 TTCTTCTC-ACGTTTCTT
1 TTCTTCTCAACGTTTCTT
13968701 TTCTT
1 TTCTT
13968706 TTCTCTATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 14 0.64
19 8 0.36
ACGTcount: A:0.07, C:0.27, G:0.05, T:0.61
Consensus pattern (18 bp):
TTCTTCTCAACGTTTCTT
Found at i:13969671 original size:21 final size:21
Alignment explanation
Indices: 13969647--13969687 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
13969637 TGTTTTGGTT
13969647 TCTGTATTAAGTTGATGTTTG
1 TCTGTATTAAGTTGATGTTTG
13969668 TCTGTATTAAGTTGATGTTT
1 TCTGTATTAAGTTGATGTTT
13969688 TCTATTTATG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.22, T:0.54
Consensus pattern (21 bp):
TCTGTATTAAGTTGATGTTTG
Found at i:13970835 original size:16 final size:16
Alignment explanation
Indices: 13970814--13970847 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
13970804 TAAATTATAT
13970814 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
13970830 TTTTTTATTTTTAATA
1 TTTTTTATTTTTAATA
13970846 TT
1 TT
13970848 CCAATTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (16 bp):
TTTTTTATTTTTAATA
Found at i:13975303 original size:49 final size:50
Alignment explanation
Indices: 13975210--13975314 Score: 158
Period size: 49 Copynumber: 2.1 Consensus size: 50
13975200 TCATGTGTTA
* ** * *
13975210 TAATTTTATAAAGTGTTGAGTTTTTTGATTCATGTTATTGAACTTAATTT
1 TAATTTTATAAAGTGTTCAGCATTTTGATTCATGATATTAAACTTAATTT
13975260 TAATTTTATAAAGTGTTCA-CATTTTGATTCATGATATTAAACTTAATTT
1 TAATTTTATAAAGTGTTCAGCATTTTGATTCATGATATTAAACTTAATTT
13975309 TAATTT
1 TAATTT
13975315 GTTTTTTTTC
Statistics
Matches: 50, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
49 32 0.64
50 18 0.36
ACGTcount: A:0.31, C:0.06, G:0.10, T:0.52
Consensus pattern (50 bp):
TAATTTTATAAAGTGTTCAGCATTTTGATTCATGATATTAAACTTAATTT
Found at i:13976584 original size:19 final size:18
Alignment explanation
Indices: 13976556--13976625 Score: 63
Period size: 19 Copynumber: 3.8 Consensus size: 18
13976546 GTTAATATAT
13976556 GAATATTAAATTATTGTA
1 GAATATTAAATTATTGTA
*
13976574 GAATAATTAAATTACTGCT-
1 GAAT-ATTAAATTATTG-TA
***
13976593 -AATATTTTTTTATTGTA
1 GAATATTAAATTATTGTA
13976610 GAATAATTAAATTATT
1 GAAT-ATTAAATTATT
13976626 TGTTTCACTA
Statistics
Matches: 39, Mismatches: 8, Indels: 9
0.70 0.14 0.16
Matches are distributed among these distances:
16 1 0.03
17 8 0.21
18 10 0.26
19 19 0.49
20 1 0.03
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (18 bp):
GAATATTAAATTATTGTA
Found at i:13976729 original size:21 final size:21
Alignment explanation
Indices: 13976688--13976730 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
13976678 AATAAAGTAG
*
13976688 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
13976709 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
13976730 A
1 A
13976731 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:13976792 original size:17 final size:17
Alignment explanation
Indices: 13976759--13976794 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
13976749 TATATTAAGA
13976759 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
13976776 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
13976793 AT
1 AT
13976795 AATAATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:13976983 original size:59 final size:59
Alignment explanation
Indices: 13976920--13977103 Score: 185
Period size: 59 Copynumber: 3.1 Consensus size: 59
13976910 AATAATTAAT
*
13976920 TATTTTAAATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAA
1 TATTTTAAATTATATTTTATAGTATTATATATTATGATTTAAGTAAATTCATATAAGAA
* * * * * * * * *
13976979 TA-TTTAATATTAAGAATTTTATTA-AATTATATATTTTTATTAAATTATATTTA-ATAATAA
1 TATTTTAA-ATT-A-TATTTTA-TAGTATTATATATTATGATTTAAGTAAATTCATATAAGAA
* * *
13977039 TTATTTTAAATTATTTTTTATAGTATTATATATTATGATTTCAGTAAATTCATAGAAGAA
1 -TATTTTAAATTATATTTTATAGTATTATATATTATGATTTAAGTAAATTCATATAAGAA
13977099 TATTT
1 TATTT
13977104 AATATTAAGA
Statistics
Matches: 95, Mismatches: 22, Indels: 16
0.71 0.17 0.12
Matches are distributed among these distances:
58 7 0.07
59 36 0.38
60 13 0.14
61 32 0.34
62 7 0.07
ACGTcount: A:0.41, C:0.02, G:0.05, T:0.52
Consensus pattern (59 bp):
TATTTTAAATTATATTTTATAGTATTATATATTATGATTTAAGTAAATTCATATAAGAA
Found at i:13977128 original size:61 final size:61
Alignment explanation
Indices: 13976943--13977130 Score: 197
Period size: 61 Copynumber: 3.1 Consensus size: 61
13976933 ATTTTATAGT
* *
13976943 ATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAA
1 ATTATATATTATGATTTAAGTAAATTCATATAAGAATATTTAATATTAAGATTTTTATTAA
* * * * * * * * *
13977004 ATTATATATTTTTATTAAATTATATTTA-ATAATAATTATTTTAA-ATT-A-TTTTTTA-TAGT
1 ATTATATATTATGATTTAAGTAAATTCATATAAGAA-TA-TTTAATATTAAGATTTTTATTA-A
* *
13977063 ATTATATATTATGATTTCAGTAAATTCATAGAAGAATATTTAATATTAAGATTTTTATTAA
1 ATTATATATTATGATTTAAGTAAATTCATATAAGAATATTTAATATTAAGATTTTTATTAA
13977124 ATTATAT
1 ATTATAT
13977131 TTAATAATAA
Statistics
Matches: 97, Mismatches: 22, Indels: 16
0.72 0.16 0.12
Matches are distributed among these distances:
58 7 0.07
59 31 0.32
60 13 0.13
61 39 0.40
62 7 0.07
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (61 bp):
ATTATATATTATGATTTAAGTAAATTCATATAAGAATATTTAATATTAAGATTTTTATTAA
Found at i:13977130 original size:59 final size:59
Alignment explanation
Indices: 13976947--13977131 Score: 184
Period size: 56 Copynumber: 3.1 Consensus size: 59
13976937 TATAGTATTA
*
13976947 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAAT
1 TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGATTTTTATTAAAT
* * * * *
13977006 TATA-TAT--TTTTATTAAATT-ATATTTAATAATAATT-ATTTTAA-ATTATTTTTTATAGTAT
1 TATATTATGATTTTAGTAAATTCATA--TAAGAATATTTAATATTAAGATT-TTTATTA-A--A-
13977065 T
59 T
* *
13977066 ATATATTATGATTTCAGTAAATTCATAGAAGAATATTTAATATTAAGATTTTTATTAAAT
1 -TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGATTTTTATTAAAT
13977126 TATATT
1 TATATT
13977132 TAATAATAAT
Statistics
Matches: 99, Mismatches: 13, Indels: 28
0.71 0.09 0.20
Matches are distributed among these distances:
55 5 0.05
56 23 0.23
57 10 0.10
58 3 0.03
59 11 0.11
60 2 0.02
61 5 0.05
62 3 0.03
63 9 0.09
64 22 0.22
65 6 0.06
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (59 bp):
TATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAGATTTTTATTAAAT
Found at i:13977393 original size:16 final size:16
Alignment explanation
Indices: 13977374--13977419 Score: 74
Period size: 16 Copynumber: 2.9 Consensus size: 16
13977364 ATTACGCCTA
13977374 TATTCCATTACAGCTC
1 TATTCCATTACAGCTC
* *
13977390 TATTCCATTACACCTG
1 TATTCCATTACAGCTC
13977406 TATTCCATTACAGC
1 TATTCCATTACAGC
13977420 GAACTAAACG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 27 1.00
ACGTcount: A:0.26, C:0.30, G:0.07, T:0.37
Consensus pattern (16 bp):
TATTCCATTACAGCTC
Found at i:13978950 original size:21 final size:20
Alignment explanation
Indices: 13978900--13978955 Score: 53
Period size: 19 Copynumber: 2.7 Consensus size: 20
13978890 ATTAAATGGA
13978900 AATTGCAAATGATATGATTTG
1 AATTG-AAATGATATGATTTG
*
13978921 AATT-AAATGA-ATTATTGTG
1 AATTGAAATGATATGATT-TG
13978940 ATATTGAAATGTATAT
1 A-ATTGAAATG-ATAT
13978956 TGGATTGAGA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
18 5 0.17
19 9 0.31
20 3 0.10
21 9 0.31
22 1 0.03
23 2 0.07
ACGTcount: A:0.41, C:0.02, G:0.16, T:0.41
Consensus pattern (20 bp):
AATTGAAATGATATGATTTG
Found at i:13981090 original size:20 final size:20
Alignment explanation
Indices: 13981062--13981101 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
13981052 CTCTAATTAG
*
13981062 AATCTCTAAAAATCAACTAT
1 AATCCCTAAAAATCAACTAT
* *
13981082 AATCCCTAAAGATTAACTAT
1 AATCCCTAAAAATCAACTAT
13981102 TCAATGTTGT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.47, C:0.20, G:0.03, T:0.30
Consensus pattern (20 bp):
AATCCCTAAAAATCAACTAT
Found at i:13986436 original size:19 final size:19
Alignment explanation
Indices: 13986412--13986465 Score: 108
Period size: 19 Copynumber: 2.8 Consensus size: 19
13986402 ACATGGGCAT
13986412 GTGTCCAGCCCGTGTGAGC
1 GTGTCCAGCCCGTGTGAGC
13986431 GTGTCCAGCCCGTGTGAGC
1 GTGTCCAGCCCGTGTGAGC
13986450 GTGTCCAGCCCGTGTG
1 GTGTCCAGCCCGTGTG
13986466 GATCCTGAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.09, C:0.31, G:0.37, T:0.22
Consensus pattern (19 bp):
GTGTCCAGCCCGTGTGAGC
Found at i:13988428 original size:26 final size:25
Alignment explanation
Indices: 13988390--13988439 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
13988380 AATATTTAAA
*
13988390 AAGAGATATAGATATATATACATAAT
1 AAGAGATAAAGATATATATA-ATAAT
* *
13988416 AAGATATAAAGATATTTATAATAA
1 AAGAGATAAAGATATATATAATAA
13988440 GGTATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (25 bp):
AAGAGATAAAGATATATATAATAAT
Found at i:13988452 original size:22 final size:22
Alignment explanation
Indices: 13988401--13988457 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
13988391 AGAGATATAG
*
13988401 ATATATATACATAATAAGATAT
1 ATATATATATATAATAAGATAT
* * * *
13988423 AAAGATATTTATAATAAGGTAT
1 ATATATATATATAATAAGATAT
13988445 ATATATATATATA
1 ATATATATATATA
13988458 TATATGAAAA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (22 bp):
ATATATATATATAATAAGATAT
Found at i:13989592 original size:13 final size:13
Alignment explanation
Indices: 13989574--13989611 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
13989564 ACACTCAAAT
13989574 TTCTCAAAAGCAC
1 TTCTCAAAAGCAC
*
13989587 TTCTCAAAAGTAC
1 TTCTCAAAAGCAC
*
13989600 TTCGCAAAAGCA
1 TTCTCAAAAGCA
13989612 ATAAAGAACT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.39, C:0.26, G:0.11, T:0.24
Consensus pattern (13 bp):
TTCTCAAAAGCAC
Found at i:13991214 original size:26 final size:25
Alignment explanation
Indices: 13991176--13991225 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
13991166 AATATTTAAA
*
13991176 AAGAGATATAGATATATATACATAAT
1 AAGAGATAAAGATATATATA-ATAAT
* *
13991202 AAGATATAAAGATATTTATAATAA
1 AAGAGATAAAGATATATATAATAA
13991226 GGTATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (25 bp):
AAGAGATAAAGATATATATAATAAT
Found at i:13991247 original size:26 final size:23
Alignment explanation
Indices: 13991179--13991242 Score: 69
Period size: 22 Copynumber: 2.8 Consensus size: 23
13991169 ATTTAAAAAG
*
13991179 AGATATAGATATATATACATAATA
1 AGATATA-ATATATATATATAATA
* *
13991203 AGATATAA-AGATATTTATAATA
1 AGATATAATATATATATATAATA
*
13991225 AGGTAT-ATATATATATAT
1 AGATATAATATATATATAT
13991243 GTATATGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
21 1 0.03
22 24 0.73
23 1 0.03
24 7 0.21
ACGTcount: A:0.52, C:0.02, G:0.09, T:0.38
Consensus pattern (23 bp):
AGATATAATATATATATATAATA
Found at i:13991956 original size:14 final size:14
Alignment explanation
Indices: 13991939--13991966 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
13991929 CTATTTTTAG
13991939 CCTTTCTGAACTCC
1 CCTTTCTGAACTCC
13991953 CCTTTCTGAACTCC
1 CCTTTCTGAACTCC
13991967 AGCCCTGGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.14, C:0.43, G:0.07, T:0.36
Consensus pattern (14 bp):
CCTTTCTGAACTCC
Found at i:13992150 original size:20 final size:21
Alignment explanation
Indices: 13992125--13992163 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
13992115 CAAAAGGAAG
*
13992125 AAAAAAAT-GAAGGGAAAAAT
1 AAAAAAATAAAAGGGAAAAAT
13992145 AAAAAAATAAAAGGGAAAA
1 AAAAAAATAAAAGGGAAAA
13992164 TAGAGTTCAT
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:0.74, C:0.00, G:0.18, T:0.08
Consensus pattern (21 bp):
AAAAAAATAAAAGGGAAAAAT
Found at i:13993084 original size:88 final size:88
Alignment explanation
Indices: 13992947--13993143 Score: 331
Period size: 88 Copynumber: 2.2 Consensus size: 88
13992937 CTTTGACCTA
* *
13992947 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCATTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTGTATTGGGAAGA
13993012 TAAGATTCACCATCTTCGATCTG
66 TAAGATTCACCATCTTCGATCTG
* * *
13993035 CTCCACTACTGCTTAAGGTGATAGGGCTAATGGCTTACATATGCTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTGTATTGGGAAGA
*
13993100 TAAGATTCCCCATCTTCGATCTG
66 TAAGATTCACCATCTTCGATCTG
*
13993123 CTCCAATACTGCTTAGGGTGA
1 CTCCACTACTGCTTAGGGTGA
13993144 CAGAATCTGT
Statistics
Matches: 101, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
88 101 1.00
ACGTcount: A:0.24, C:0.23, G:0.21, T:0.32
Consensus pattern (88 bp):
CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATATGCTTCTCCACTGTATTGGGAAGA
TAAGATTCACCATCTTCGATCTG
Found at i:13993175 original size:132 final size:132
Alignment explanation
Indices: 13993035--13994775 Score: 3077
Period size: 132 Copynumber: 13.2 Consensus size: 132
13993025 CTTCGATCTG
* * * *
13993035 CTCCACTACTGCTTAAGGTGATAGGGCTAATGGCTTACATATGCTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* * *
13993100 TAAGATTCCCCATCTTCGATCTGCTCCAATACTGCTTAGGGTGACAGAATCTGTAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
13993165 TA
131 TA
13993167 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
13993232 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
13993297 TA
131 TA
*
13993299 CTCCACTACTGCTTAGGGTGATTGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* * *
13993364 TAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGTGACAAAATCTGCAATCTTCGACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
13993429 TA
131 TA
* *
13993431 CTCCACTATTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTAGTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
*
13993496 TATGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
13993561 TA
131 TA
13993563 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
13993628 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
13993693 TA
131 TA
13993695 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
13993760 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
13993825 TA
131 TA
* *
13993827 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCAACTGTGTTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* *
13993892 TAAGATTCACCAACTTCTATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
13993957 TA
131 TA
13993959 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* * * *
13994024 TAAGATTTACCATCTTCGATCTGCTCCACTACTGCATAGGGTGATAGAATATGCAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
13994089 TA
131 TA
*
13994091 ATCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* * *
13994156 TAAGATTCACCATTTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCAATCTTCGACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
13994221 TA
131 TA
13994223 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* * *
13994288 TAAGATTCACCATTTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCAATCTTCGACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
13994353 TA
131 TA
13994355 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* * *
13994420 TAAGATTCACCATTTTCGATCTGCTCCACTACCGCTTAGGGTGACAGAATCTGCAATCTTCGACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
13994485 TA
131 TA
* * * * *
13994487 CTCTACTACTACTTAGGGTGATAGGACTAATGTCTTAAATCTGCTTGTCCACTATATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* * * * *
13994552 TAAGATTCACCATTTTTGATCTGCTCTACTACTACTTAGGGTGACAGAATATGCAATCTTCAACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
13994617 TA
131 TA
13994619 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
1 CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
* *
13994684 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTAACAGAATCTGCAATCTTCGACC
66 TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
13994749 TA
131 TA
*
13994751 CTCCACTACTGTTTAGGGTGATAGG
1 CTCCACTACTGCTTAGGGTGATAGG
13994776 TTTGTGTCTT
Statistics
Matches: 1543, Mismatches: 66, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
132 1543 1.00
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (132 bp):
CTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGA
TAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCAATCTTCAACC
TA
Found at i:13993253 original size:220 final size:220
Alignment explanation
Indices: 13992871--13993275 Score: 704
Period size: 220 Copynumber: 1.8 Consensus size: 220
13992861 TCCTACTATC
* * *
13992871 TTGGGAAGATAAGATTCACCGTCTTTGATCTGCTCCACTACTGCTTAGGGATACAGAATCTACAA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCAATACTGCTTAGGGATACAGAATCTACAA
** *
13992936 TCTTTGACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCATTG
66 TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
13993001 TATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAAGGTGATAGGGCTAAT
131 TATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAAGGTGATAGGGCTAAT
13993066 GGCTTACATATGCTTCTCCACTGTA
196 GGCTTACATATGCTTCTCCACTGTA
* **
13993091 TTGGGAAGATAAGATTCCCCATCTTCGATCTGCTCCAATACTGCTTAGGG-TGACAGAATCTGTA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCAATACTGCTTAGGGAT-ACAGAATCTACA
13993155 ATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
65 ATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
*
13993220 GTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGTGA
130 GTATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAAGGTGA
13993276 CAGAATCTGC
Statistics
Matches: 174, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
219 1 0.01
220 173 0.99
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (220 bp):
TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCAATACTGCTTAGGGATACAGAATCTACAA
TCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTG
TATTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAAGGTGATAGGGCTAAT
GGCTTACATATGCTTCTCCACTGTA
Found at i:13994233 original size:44 final size:44
Alignment explanation
Indices: 13993111--13994507 Score: 306
Period size: 44 Copynumber: 31.8 Consensus size: 44
13993101 AAGATTCCCC
* * *
13993111 ATCTTCGATCTGCTCCAATACTGCTTAGGGTGACAGAATCTGTA
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
* * * * * *
13993155 ATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGA-CT--A
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
** * * * * * * * * * *
13993196 ATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTC-ACC
1 AT--CTTCGATCTGCTCCACTACTGCATAGGG-TGA-CAGAATCTGCA
*
13993243 ATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
* * * * ** *
13993287 ATCTTCAACCTACTCCACTACTGCTTAGGGTGATTGGA-CT--A
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
** * * * * * * * * * *
13993328 ATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTC-ACC
1 AT--CTTCGATCTGCTCCACTACTGCATAGGG-TGA-CAGAATCTGCA
* * *
13993375 ATCTTTGATCTGCTCCACTACTGCTTAGGGTGACAAAATCTGCA
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
* * * * * *
13993419 ATCTTCGACCTACTCCACTATTGCTTAGGGTGATAGGA-CT--A
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
** * * * * *
13993460 ATGGCTTAAATCTGCTTCTCCACTG--TAGTGG-GA-AGATATGATTCA
1 AT--CTTCGATCTGCTCCACTACTGCATAG-GGTGACAGA-AT-CTGCA
*
13993505 CCATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
1 --ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
* * * * * *
13993551 ATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGA-CT--A
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
** * * * * * * * * * *
13993592 ATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTC-ACC
1 AT--CTTCGATCTGCTCCACTACTGCATAGGG-TGA-CAGAATCTGCA
*
13993639 ATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
* * * * * *
13993683 ATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGA-CT--A
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
** * * * * * * * * * *
13993724 ATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTC-ACC
1 AT--CTTCGATCTGCTCCACTACTGCATAGGG-TGA-CAGAATCTGCA
*
13993771 ATCTTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
* * * * * *
13993815 ATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGA-CT--A
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
** * * * ** * * * * **
13993856 ATGGCTTAAATCTGCTTCTCAACTGTGTTGGGAAGATAAGATTCACCA
1 AT--CTTCGATCTGCTCCACTACTGCATAGGG-TGA-CAGAATCTGCA
* *
13993904 A-CTTCTATCTGCTCCACTACTGCTTAGGGTGACAGAATCTGCA
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
* * * * * *
13993947 ATCTTCAACCTACTCCACTACTGCTTAGGGTGATAGGA-CT--A
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
** * * * * * * * * * *
13993988 ATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATA-AGATTTACC
1 AT--CTTCGATCTGCTCCACTACTGCATAGGG-TGACAGA-ATCTGCA
* *
13994035 ATCTTCGATCTGCTCCACTACTGCATAGGGTGATAGAATATGCA
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
* * ** * * *
13994079 ATCTTCAACCTAATCCACTACTGCTTAGGGTGATAGGA-CT--A
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
** * * * * * * * * * *
13994120 ATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTC-ACC
1 AT--CTTCGATCTGCTCCACTACTGCATAGGG-TGA-CAGAATCTGCA
*
13994167 ATTTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
* * * * *
13994211 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGA-CT--A
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
** * * * * * * * * * *
13994252 ATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTC-ACC
1 AT--CTTCGATCTGCTCCACTACTGCATAGGG-TGA-CAGAATCTGCA
*
13994299 ATTTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
* * * * *
13994343 ATCTTCGACCTACTCCACTACTGCTTAGGGTGATAGGA-CT--A
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
** * * * * * * * * * *
13994384 ATGGCTTAAATCTGCTTCTCCACTGTATTGGGAAGATAAGATTC-ACC
1 AT--CTTCGATCTGCTCCACTACTGCATAGGG-TGA-CAGAATCTGCA
* * *
13994431 ATTTTCGATCTGCTCCACTACCGCTTAGGGTGACAGAATCTGCA
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
* * * * *
13994475 ATCTTCGACCTACTCTACTACTACTTAGGGTGA
1 ATCTTCGATCTGCTCCACTACTGCATAGGGTGA
13994508 TAGGACTAAT
Statistics
Matches: 939, Mismatches: 328, Indels: 172
0.65 0.23 0.12
Matches are distributed among these distances:
40 2 0.00
41 36 0.04
42 2 0.00
43 243 0.26
44 400 0.43
45 213 0.23
46 13 0.01
47 25 0.03
48 5 0.01
ACGTcount: A:0.26, C:0.24, G:0.19, T:0.31
Consensus pattern (44 bp):
ATCTTCGATCTGCTCCACTACTGCATAGGGTGACAGAATCTGCA
Found at i:13996215 original size:14 final size:15
Alignment explanation
Indices: 13996191--13996224 Score: 61
Period size: 14 Copynumber: 2.3 Consensus size: 15
13996181 AGCCTCTCTA
13996191 TTTTTATTTTTCATT
1 TTTTTATTTTTCATT
13996206 TTTTTA-TTTTCATT
1 TTTTTATTTTTCATT
13996220 TTTTT
1 TTTTT
13996225 GATCCAAAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 13 0.68
15 6 0.32
ACGTcount: A:0.12, C:0.06, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTATTTTTCATT
Found at i:13997045 original size:17 final size:18
Alignment explanation
Indices: 13997014--13997047 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
13997004 ACCTCTCCTT
13997014 TTTCTTTTCTTTTTCTCC
1 TTTCTTTTCTTTTTCTCC
13997032 TTTCTTTT-TTTTTCTC
1 TTTCTTTTCTTTTTCTC
13997048 TTATTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (18 bp):
TTTCTTTTCTTTTTCTCC
Found at i:14002239 original size:26 final size:25
Alignment explanation
Indices: 14002201--14002250 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
14002191 AATATTTAAA
*
14002201 AAGAGATATAGATATATATACATAAT
1 AAGAGATAAAGATATATATA-ATAAT
* *
14002227 AAGATATAAAGATATTTATAATAA
1 AAGAGATAAAGATATATATAATAA
14002251 GGTATATATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 4 0.19
26 17 0.81
ACGTcount: A:0.56, C:0.02, G:0.10, T:0.32
Consensus pattern (25 bp):
AAGAGATAAAGATATATATAATAAT
Found at i:14002263 original size:22 final size:22
Alignment explanation
Indices: 14002212--14002268 Score: 69
Period size: 22 Copynumber: 2.6 Consensus size: 22
14002202 AGAGATATAG
*
14002212 ATATATATACATAATAAGATAT
1 ATATATATATATAATAAGATAT
* * * *
14002234 AAAGATATTTATAATAAGGTAT
1 ATATATATATATAATAAGATAT
14002256 ATATATATATATA
1 ATATATATATATA
14002269 TATATATGTA
Statistics
Matches: 27, Mismatches: 8, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (22 bp):
ATATATATATATAATAAGATAT
Found at i:14006933 original size:41 final size:41
Alignment explanation
Indices: 14006865--14006963 Score: 101
Period size: 41 Copynumber: 2.4 Consensus size: 41
14006855 ACATCGACAT
* * *
14006865 AAAGCCTTCTAGTCACAAAGCTAGATATGATACACCAACAC
1 AAAGCCTGCTAGGCACAAAGCTAGATATAATACACCAACAC
* * * ** *
14006906 GAAGCCTGCTAGGCATAAAGCCT-GATATAATTCACCGGCAT
1 AAAGCCTGCTAGGCACAAAG-CTAGATATAATACACCAACAC
14006947 AAAGCCTGCTAGGCACA
1 AAAGCCTGCTAGGCACA
14006964 GAGCCCGAAT
Statistics
Matches: 46, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
41 44 0.96
42 2 0.04
ACGTcount: A:0.36, C:0.26, G:0.18, T:0.19
Consensus pattern (41 bp):
AAAGCCTGCTAGGCACAAAGCTAGATATAATACACCAACAC
Found at i:14009074 original size:30 final size:31
Alignment explanation
Indices: 14009035--14009094 Score: 95
Period size: 30 Copynumber: 2.0 Consensus size: 31
14009025 GGAGGTGGGA
*
14009035 TGGGAAGGGAATAAAAGTTTTGGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTGGGGGAAAAG
*
14009066 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTGGGGGAAAA
14009095 TAAAAGGTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.38, C:0.00, G:0.42, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTGGGGGAAAAG
Found at i:14009318 original size:9 final size:9
Alignment explanation
Indices: 14009304--14009340 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
14009294 TGTAGTTTGA
14009304 TATTCGAAT
1 TATTCGAAT
14009313 TATTCGAAT
1 TATTCGAAT
*
14009322 TATTCGAGT
1 TATTCGAAT
14009331 TATTCGAAT
1 TATTCGAAT
14009340 T
1 T
14009341 CGAAAACTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.30, C:0.11, G:0.14, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:14013508 original size:50 final size:49
Alignment explanation
Indices: 14013384--14013524 Score: 174
Period size: 50 Copynumber: 2.8 Consensus size: 49
14013374 ATACTCGATT
** *
14013384 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGAAGCTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGA-CCTA-TTATCCGGTA
* * * *
14013435 CGCATAGTAGCCTGCACACAGTACTACACATGCGACCTATTATTCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCTATTA-TCCGGTA
* *
14013485 CACGTAGTAGCCTGAACATAGTACTACACACGTGACCTAT
1 CACATAGTAGCCTGCACATAGTACTACACACGTGACCTAT
14013525 CAACTTCACT
Statistics
Matches: 76, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
49 2 0.03
50 43 0.57
51 31 0.41
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.23
Consensus pattern (49 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGACCTATTATCCGGTA
Found at i:14017466 original size:24 final size:25
Alignment explanation
Indices: 14017425--14017576 Score: 113
Period size: 25 Copynumber: 6.2 Consensus size: 25
14017415 ATGCTTGTTC
* *
14017425 GAGCACATATA-CGGGAAGCTCATAA
1 GAGC-CATATATCGAGAAGCTCATGA
*
14017450 GAGCCATA-ATCGAGAAGCTCATGT
1 GAGCCATATATCGAGAAGCTCATGA
* *
14017474 GAG-CAAATATCGAAAAGCTC-TGGA
1 GAGCCATATATCGAGAAGCTCAT-GA
14017498 GAGCCAT-TAATCTG-GAAGCTCATGCA
1 GAGCCATAT-ATC-GAGAAGCTCATG-A
* **
14017524 -AGCCATATATCGAAAAGCTCCGGA
1 GAGCCATATATCGAGAAGCTCATGA
*
14017548 GAGCCATATATCGAGACA-CTCATAA
1 GAGCCATATATCGAGA-AGCTCATGA
14017573 GAGC
1 GAGC
14017577 TGCGGTGTGT
Statistics
Matches: 100, Mismatches: 15, Indels: 24
0.72 0.11 0.17
Matches are distributed among these distances:
23 5 0.05
24 36 0.36
25 54 0.54
26 5 0.05
ACGTcount: A:0.37, C:0.22, G:0.23, T:0.18
Consensus pattern (25 bp):
GAGCCATATATCGAGAAGCTCATGA
Found at i:14017516 original size:49 final size:50
Alignment explanation
Indices: 14017449--14017563 Score: 148
Period size: 50 Copynumber: 2.3 Consensus size: 50
14017439 GAAGCTCATA
** *
14017449 AGAGCCA-TAATCGAGAAGCTCATGTGAG-CAAATATCGAAAAGCTCTGG
1 AGAGCCATTAATCGAGAAGCTCATGCAAGCCAAATATCGAAAAGCTCCGG
*
14017497 AGAGCCATTAATCTG-GAAGCTCATGCAAGCCATATATCGAAAAGCTCCGG
1 AGAGCCATTAATC-GAGAAGCTCATGCAAGCCAAATATCGAAAAGCTCCGG
14017547 AGAGCCA-TATATCGAGA
1 AGAGCCATTA-ATCGAGA
14017564 CACTCATAAG
Statistics
Matches: 58, Mismatches: 4, Indels: 8
0.83 0.06 0.11
Matches are distributed among these distances:
48 7 0.12
49 20 0.34
50 31 0.53
ACGTcount: A:0.37, C:0.21, G:0.23, T:0.19
Consensus pattern (50 bp):
AGAGCCATTAATCGAGAAGCTCATGCAAGCCAAATATCGAAAAGCTCCGG
Found at i:14028463 original size:21 final size:18
Alignment explanation
Indices: 14028425--14028462 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
14028415 CTTTGTAAAC
14028425 TCAGCATCATCCAGTTCT
1 TCAGCATCATCCAGTTCT
14028443 TCAGCATCATCCAGTTCT
1 TCAGCATCATCCAGTTCT
14028461 TC
1 TC
14028463 TAAATGCTGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.34, G:0.11, T:0.34
Consensus pattern (18 bp):
TCAGCATCATCCAGTTCT
Found at i:14032793 original size:3 final size:3
Alignment explanation
Indices: 14032785--14032835 Score: 102
Period size: 3 Copynumber: 17.0 Consensus size: 3
14032775 GTACCGGTAG
14032785 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14032833 ATT
1 ATT
14032836 TATGAAAACA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 48 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:14035921 original size:29 final size:28
Alignment explanation
Indices: 14035846--14035923 Score: 79
Period size: 29 Copynumber: 2.7 Consensus size: 28
14035836 TTTTTTAAAT
* *
14035846 AATTA-TAAAAATAAAGAAAATAATTTAA
1 AATTATTAAAAAT-AATAAAAGAATTTAA
*
14035874 AATTTATAAAAGAAT-ATAAAAGAATTTAA
1 AA-TTATTAAA-AATAATAAAAGAATTTAA
14035903 AATTATTAAAAACTAATAAAA
1 AATTATTAAAAA-TAATAAAA
14035924 TTTAGTTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
27 2 0.05
28 10 0.24
29 23 0.56
30 3 0.07
31 3 0.07
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.29
Consensus pattern (28 bp):
AATTATTAAAAATAATAAAAGAATTTAA
Found at i:14036878 original size:12 final size:12
Alignment explanation
Indices: 14036847--14036872 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
14036837 ATAAAAATAT
14036847 TAATTATAGAAA
1 TAATTATAGAAA
14036859 TAATTATAGAAA
1 TAATTATAGAAA
14036871 TA
1 TA
14036873 TATATAACTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (12 bp):
TAATTATAGAAA
Found at i:14042432 original size:25 final size:25
Alignment explanation
Indices: 14042361--14042473 Score: 113
Period size: 25 Copynumber: 4.5 Consensus size: 25
14042351 GACACACCAC
* * *
14042361 AGCTTGTATGAGCTTTCC-AATTTAT
1 AGCTCGTATGAGC-TTCCTGATTCAT
* * *
14042386 AGCTCGTATGAGCTTCCCGATTTAC
1 AGCTCGTATGAGCTTCCTGATTCAT
14042411 AGCTCGTATGAGCTTCCTGATTCAT
1 AGCTCGTATGAGCTTCCTGATTCAT
* * *
14042436 AACTCGTGA-GAGCATACTGATTCAT
1 AGCTCGT-ATGAGCTTCCTGATTCAT
14042461 AGCTCGTATGAGC
1 AGCTCGTATGAGC
14042474 ATACATGAAT
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
24 5 0.07
25 69 0.92
26 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (25 bp):
AGCTCGTATGAGCTTCCTGATTCAT
Found at i:14043930 original size:52 final size:52
Alignment explanation
Indices: 14043838--14043940 Score: 116
Period size: 52 Copynumber: 2.0 Consensus size: 52
14043828 TAAACTCTGA
* * * * * * *
14043838 TAATGCTTTGTAACCCTGTTCTGGCGATGAATATGGGTTAGGGGTGTTACAG
1 TAATACTTCGTAACCCTGTTCTGGCGACGAAGACGAGTTAGAGGTGTTACAG
* * *
14043890 TAATACTTCGTAACCCTGTTCTGGTGACGGAGACGAGTTAGAGTTGTTACA
1 TAATACTTCGTAACCCTGTTCTGGCGACGAAGACGAGTTAGAGGTGTTACA
14043941 CTCTCCATTT
Statistics
Matches: 41, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
52 41 1.00
ACGTcount: A:0.23, C:0.16, G:0.28, T:0.33
Consensus pattern (52 bp):
TAATACTTCGTAACCCTGTTCTGGCGACGAAGACGAGTTAGAGGTGTTACAG
Found at i:14050489 original size:29 final size:29
Alignment explanation
Indices: 14050443--14050513 Score: 92
Period size: 29 Copynumber: 2.4 Consensus size: 29
14050433 AGACATTGAG
*
14050443 TTATATGT-AGGCCCTAGTGGC-GAAATCAA
1 TTATATGTGA-GCCATAGTGGCAG-AATCAA
*
14050472 TTATATGTGAGCCATAGTGGCAGAATCTA
1 TTATATGTGAGCCATAGTGGCAGAATCAA
14050501 TTATATGTGAGCC
1 TTATATGTGAGCC
14050514 TTTGTGGTTG
Statistics
Matches: 38, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
29 36 0.95
30 2 0.05
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.31
Consensus pattern (29 bp):
TTATATGTGAGCCATAGTGGCAGAATCAA
Found at i:14050526 original size:29 final size:29
Alignment explanation
Indices: 14050466--14050554 Score: 79
Period size: 29 Copynumber: 3.0 Consensus size: 29
14050456 CTAGTGGCGA
* * **
14050466 AATCAATTATATGTGAGCCATAGTGGCAG
1 AATCTATTATATGTGAGCCATTGTGGTTG
*
14050495 AATCTATTATATGTGAGCCTTTGTGGTTG
1 AATCTATTATATGTGAGCCATTGTGGTTG
* * * *
14050524 AATATGTTATATGCGGAAGCCCTTGTGGTTG
1 AATCTATTATATG-TG-AGCCATTGTGGTTG
14050555 TTTTGTTATG
Statistics
Matches: 49, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
29 35 0.71
30 1 0.02
31 13 0.27
ACGTcount: A:0.26, C:0.12, G:0.26, T:0.36
Consensus pattern (29 bp):
AATCTATTATATGTGAGCCATTGTGGTTG
Found at i:14052157 original size:33 final size:33
Alignment explanation
Indices: 14052092--14052165 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
14052082 GCTCACCTCA
* *
14052092 TGTTTACTCTCCCGACGAACTTACTCTGTTCTG
1 TGTTTACTCTCCCAACGAACTTACTCTATTCTG
* *
14052125 TGTTTACTGTCCCAACGGAC-TATCTCTATTCTG
1 TGTTTACTCTCCCAACGAACTTA-CTCTATTCTG
14052158 TGTTTACT
1 TGTTTACT
14052166 TTCTCAGCAG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
32 2 0.06
33 34 0.94
ACGTcount: A:0.16, C:0.27, G:0.15, T:0.42
Consensus pattern (33 bp):
TGTTTACTCTCCCAACGAACTTACTCTATTCTG
Found at i:14052179 original size:33 final size:33
Alignment explanation
Indices: 14052115--14052180 Score: 87
Period size: 33 Copynumber: 2.0 Consensus size: 33
14052105 GACGAACTTA
* *
14052115 CTCTGTTCTGTGTTTACTGTCCCAACGGACTAT
1 CTCTATTCTGTGTTTACTGTCCCAACAGACTAT
* * *
14052148 CTCTATTCTGTGTTTACTTTCTCAGCAGACTAT
1 CTCTATTCTGTGTTTACTGTCCCAACAGACTAT
14052181 ATCTGCGAAT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.17, C:0.26, G:0.15, T:0.42
Consensus pattern (33 bp):
CTCTATTCTGTGTTTACTGTCCCAACAGACTAT
Found at i:14064116 original size:23 final size:22
Alignment explanation
Indices: 14064081--14064126 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 22
14064071 TTTGATAATA
*
14064081 TGTTTTGATATAACAAATTAAAG
1 TGTTTTGAAATAA-AAATTAAAG
* *
14064104 TGTTTTTAAATAAAAGTTAAAG
1 TGTTTTGAAATAAAAATTAAAG
14064126 T
1 T
14064127 TAAAAACAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 9 0.45
23 11 0.55
ACGTcount: A:0.43, C:0.02, G:0.13, T:0.41
Consensus pattern (22 bp):
TGTTTTGAAATAAAAATTAAAG
Found at i:14066649 original size:42 final size:43
Alignment explanation
Indices: 14066507--14066705 Score: 178
Period size: 43 Copynumber: 4.7 Consensus size: 43
14066497 ATCCGTTACT
* *
14066507 CGGTGGATTCAGCACTTTAGCAACCACC-AT-AAATTCAGTGATA
1 CGGTGGAATCAGCAC-TTAGCAACC-CCTTTCAAATTCAGTGATA
* * * * *
14066550 C-GAGGAATCAGCACATAGCAACCCCTTTCACAATTAAG-AATT
1 CGGTGGAATCAGCACTTAGCAACCCCTTTCA-AATTCAGTGATA
* *
14066592 CGGTGGAATCAGCACTTAGCAACCACCTTT-ATATTTAGTGATA
1 CGGTGGAATCAGCACTTAGCAACC-CCTTTCAAATTCAGTGATA
**
14066635 CGG-GGAATCAGCACTTAGCAACCCCTTTCATAA-TCAAAGATA
1 CGGTGGAATCAGCACTTAGCAACCCCTTTCA-AATTCAGTGATA
* * *
14066677 AGGTGGGATCAGCACTTAGCAACCTCTTT
1 CGGTGGAATCAGCACTTAGCAACCCCTTT
14066706 TTATTCAATA
Statistics
Matches: 127, Mismatches: 20, Indels: 18
0.77 0.12 0.11
Matches are distributed among these distances:
40 2 0.02
41 14 0.11
42 49 0.39
43 57 0.45
44 5 0.04
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.25
Consensus pattern (43 bp):
CGGTGGAATCAGCACTTAGCAACCCCTTTCAAATTCAGTGATA
Found at i:14066654 original size:85 final size:84
Alignment explanation
Indices: 14066506--14066700 Score: 257
Period size: 85 Copynumber: 2.3 Consensus size: 84
14066496 TATCCGTTAC
*
14066506 TCGGTGGATTCAGCACTTTAGCAACCACCATAAATTCAGTGATACGAGGAATCAGCACATAGCAA
1 TCGGTGGAATCAGCAC-TTAGCAACCACCATAAATTCAGTGATACGAGGAATCAGCACATAGCAA
*
14066571 CCCCTTTCACAAT-TAAGAAT
65 CCCCTTTCACAATCAAAG-AT
* * * * *
14066591 TCGGTGGAATCAGCACTTAGCAACCACCTTTATATTTAGTGATACGGGGAATCAGCACTTAGCAA
1 TCGGTGGAATCAGCACTTAGCAACCACC-ATAAATTCAGTGATACGAGGAATCAGCACATAGCAA
*
14066656 CCCCTTTCATAATCAAAGAT
65 CCCCTTTCACAATCAAAGAT
** *
14066676 AAGGTGGGATCAGCACTTAGCAACC
1 TCGGTGGAATCAGCACTTAGCAACC
14066701 TCTTTTTATT
Statistics
Matches: 97, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
84 12 0.12
85 82 0.85
86 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.18, T:0.24
Consensus pattern (84 bp):
TCGGTGGAATCAGCACTTAGCAACCACCATAAATTCAGTGATACGAGGAATCAGCACATAGCAAC
CCCTTTCACAATCAAAGAT
Found at i:14071313 original size:15 final size:16
Alignment explanation
Indices: 14071281--14071314 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14071271 ATTTCATCTC
14071281 ATTTGCATTTAGGTTA
1 ATTTGCATTTAGGTTA
*
14071297 ATTTTCATTTA-GTTA
1 ATTTGCATTTAGGTTA
14071312 ATT
1 ATT
14071315 AATTTAATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.26, C:0.06, G:0.12, T:0.56
Consensus pattern (16 bp):
ATTTGCATTTAGGTTA
Found at i:14075703 original size:24 final size:24
Alignment explanation
Indices: 14075676--14075760 Score: 90
Period size: 24 Copynumber: 3.6 Consensus size: 24
14075666 AACAACAATT
14075676 AGGATAAAGTTTTCATATAACATA
1 AGGATAAAGTTTTCATATAACATA
*
14075700 AGGATAAAGTTTTC-TCTAA-ATA
1 AGGATAAAGTTTTCATATAACATA
14075722 A--ATAATTTA-TATTTCATATAACATA
1 AGGATAA---AGT-TTTCATATAACATA
14075747 AGGATAAAGTTTTC
1 AGGATAAAGTTTTC
14075761 CCTTGCCACA
Statistics
Matches: 50, Mismatches: 2, Indels: 18
0.71 0.03 0.26
Matches are distributed among these distances:
20 4 0.08
22 5 0.10
23 9 0.18
24 23 0.46
25 5 0.10
27 4 0.08
ACGTcount: A:0.44, C:0.08, G:0.11, T:0.38
Consensus pattern (24 bp):
AGGATAAAGTTTTCATATAACATA
Found at i:14082960 original size:48 final size:49
Alignment explanation
Indices: 14082861--14082981 Score: 154
Period size: 48 Copynumber: 2.5 Consensus size: 49
14082851 ACTTAATCAC
* * * * *
14082861 TTTAATACTAGATTAATATAATATTTATCAAGATAAATATTAGATTAAA
1 TTTAATATTAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAA
* *
14082910 TTTAATATTAAATTAATAAAATA-CTATTAAGATAAATATTAAATTTAA
1 TTTAATATTAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAA
*
14082958 TTTAATATTAAATCTATTAAAATA
1 TTTAATATTAAAT-TAATAAAATA
14082982 ACATTATTTT
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
48 34 0.54
49 29 0.46
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (49 bp):
TTTAATATTAAATTAATAAAATATCTATCAAGATAAATATTAAATTAAA
Found at i:14083272 original size:20 final size:20
Alignment explanation
Indices: 14083247--14083289 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
14083237 TTCGACTAGT
* *
14083247 TTTTGGGGTCTTGATCTCAA
1 TTTTGGGCTCTTGAGCTCAA
*
14083267 TTTTGGGCTCTTGGGCTCAA
1 TTTTGGGCTCTTGAGCTCAA
14083287 TTT
1 TTT
14083290 ACAATTTTAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.12, C:0.16, G:0.26, T:0.47
Consensus pattern (20 bp):
TTTTGGGCTCTTGAGCTCAA
Found at i:14087054 original size:16 final size:16
Alignment explanation
Indices: 14087033--14087066 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14087023 TAATTCGTGA
*
14087033 TTTATTATCTTTTATT
1 TTTATTATCTATTATT
*
14087049 TTTATTGTCTATTATT
1 TTTATTATCTATTATT
14087065 TT
1 TT
14087067 AATTTATTTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.18, C:0.06, G:0.03, T:0.74
Consensus pattern (16 bp):
TTTATTATCTATTATT
Found at i:14087419 original size:41 final size:42
Alignment explanation
Indices: 14087374--14087461 Score: 103
Period size: 42 Copynumber: 2.1 Consensus size: 42
14087364 ACATAAATAA
14087374 AATTTCTAAAA-G-TTTTTATGA-ACTTTTTTTGAAATTTAT-TG
1 AATTT-TAAAATGTTTTTTAT-ATACTTTTTTTG-AATTTATATG
* *
14087415 AATTTTAAAATGTTTTTTATATATTTTTTTTGAATTTTTATG
1 AATTTTAAAATGTTTTTTATATACTTTTTTTGAATTTATATG
14087457 AATTT
1 AATTT
14087462 AACGTGAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 7
0.82 0.04 0.14
Matches are distributed among these distances:
40 5 0.12
41 13 0.32
42 23 0.56
ACGTcount: A:0.31, C:0.02, G:0.08, T:0.59
Consensus pattern (42 bp):
AATTTTAAAATGTTTTTTATATACTTTTTTTGAATTTATATG
Found at i:14094728 original size:14 final size:14
Alignment explanation
Indices: 14094709--14094735 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14094699 ATAACACCCC
14094709 TAACCCGTATTCGG
1 TAACCCGTATTCGG
14094723 TAACCCGTATTCG
1 TAACCCGTATTCG
14094736 ATGACGAAAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.30, G:0.19, T:0.30
Consensus pattern (14 bp):
TAACCCGTATTCGG
Found at i:14095927 original size:44 final size:44
Alignment explanation
Indices: 14095873--14096023 Score: 194
Period size: 44 Copynumber: 3.3 Consensus size: 44
14095863 TCACATTTAT
* *
14095873 CACTTGTCACTTGTCCCTGATCAAATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTAC
*
14095917 CACTTATCACTTGTTACTTGTCACTGATCAGATAAGTGTAACTAAAGCTAC
1 CACTTATCACTTG-T-C----C-CTGATCAGATAAGTGTAGCTAAAGCTAC
* *
14095968 CACTTATCACTTGTCACTGATCAGATAAGCGTAGCTAAAGCTAC
1 CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTAC
14096012 CACTTATCACTT
1 CACTTATCACTT
14096024 TTCACTGGTT
Statistics
Matches: 94, Mismatches: 6, Indels: 14
0.82 0.05 0.12
Matches are distributed among these distances:
44 50 0.53
45 1 0.01
46 1 0.01
49 1 0.01
50 2 0.02
51 39 0.41
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (44 bp):
CACTTATCACTTGTCCCTGATCAGATAAGTGTAGCTAAAGCTAC
Found at i:14095929 original size:51 final size:50
Alignment explanation
Indices: 14095869--14096029 Score: 217
Period size: 51 Copynumber: 3.3 Consensus size: 50
14095859 CGGATCACAT
*
14095869 TTATCACTTGTCACTTGTCCCTGATCAAATAAGTGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGT-CCTGATCAGATAAGTGTAGCTAAAGCTACCAC
* *
14095920 TTATCACTTGTTACTTGTCACTGATCAGATAAGTGTAACTAAAGCTACCAC
1 TTATCACTTGTCACTTGTC-CTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
14095971 TTATCACTTGTCA------CTGATCAGATAAGCGTAGCTAAAGCTACCAC
1 TTATCACTTGTCACTTGTCCTGATCAGATAAGTGTAGCTAAAGCTACCAC
*
14096015 TTATCACTTTTCACT
1 TTATCACTTGTCACT
14096030 GGTTAGAAGT
Statistics
Matches: 100, Mismatches: 7, Indels: 11
0.85 0.06 0.09
Matches are distributed among these distances:
44 41 0.41
50 1 0.01
51 58 0.58
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.33
Consensus pattern (50 bp):
TTATCACTTGTCACTTGTCCTGATCAGATAAGTGTAGCTAAAGCTACCAC
Found at i:14104203 original size:4 final size:4
Alignment explanation
Indices: 14104191--14104224 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
14104181 AATAAATATG
14104191 TTAA TTTAA TTAA TTAA TTAA TTAA TATAA TTAA
1 TTAA -TTAA TTAA TTAA TTAA TTAA T-TAA TTAA
14104225 AAATAATTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
TTAA
Found at i:14104213 original size:17 final size:17
Alignment explanation
Indices: 14104191--14104224 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
14104181 AATAAATATG
14104191 TTAATTTAAT-TAATTAA
1 TTAA-TTAATATAATTAA
14104208 TTAATTAATATAATTAA
1 TTAATTAATATAATTAA
14104225 AAATAATTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TTAATTAATATAATTAA
Found at i:14107805 original size:14 final size:13
Alignment explanation
Indices: 14107767--14107832 Score: 60
Period size: 14 Copynumber: 4.8 Consensus size: 13
14107757 AATTAAATTC
*
14107767 TTAAAAAATATAT
1 TTAAAAAAAATAT
* *
14107780 TTTAAAATAATAT
1 TTAAAAAAAATAT
*
14107793 TTAAATAAAAATAA
1 TTAAA-AAAAATAT
14107807 TTAAAAATAAATAT
1 TTAAAAA-AAATAT
*
14107821 TAAAATAAAAAT
1 TTAAA-AAAAAT
14107833 CATCCTAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 5
0.76 0.15 0.09
Matches are distributed among these distances:
13 16 0.38
14 24 0.57
15 2 0.05
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (13 bp):
TTAAAAAAAATAT
Found at i:14113506 original size:96 final size:96
Alignment explanation
Indices: 14113319--14113590 Score: 302
Period size: 96 Copynumber: 2.9 Consensus size: 96
14113309 GTTTGTCAAT
* * * * ** *
14113319 TAAATTAATTATAAATTTTT-CAAAATTAGATTA-GGTTTCGTGTTTATTGTTTTTTAAGAAAAA
1 TAAATTAATTATAAATTTTTAAAAAAATAGATTAGGGTTTAGAG-TTAAGGGTTTTTAAGAAAAA
* * *
14113382 A--AATTAAATTAGGGTTTAAGGTTACTTGAG
65 ATCAAATAAATTAGGGTTCAAGGTTACTTGAA
* ** *
14113412 TAATTTAATTA-ATTTTTTTAAAAAAAATAGATTAGGGTTTAGAGTTAAGGGTTTTTATGAAAAA
1 TAAATTAATTATAAATTTTT-AAAAAAATAGATTAGGGTTTAGAGTTAAGGGTTTTTAAGAAAAA
*
14113476 ATCAAATAAATTAGGGTTCAGGGTTACTTGAA
65 ATCAAATAAATTAGGGTTCAAGGTTACTTGAA
* * * *
14113508 TAAATTAATTATAAATTTTTAAAAAATTAGATTATGGTTTAGTGTTTAGGGTTTTTAAGTAAAAA
1 TAAATTAATTATAAATTTTTAAAAAAATAGATTAGGGTTTAGAGTTAAGGGTTTTTAAG-AAAAA
*
14113573 CTCAAATAAATTAGGGTT
65 ATCAAATAAATTAGGGTT
14113591 TGTGGTTGAG
Statistics
Matches: 148, Mismatches: 24, Indels: 10
0.81 0.13 0.05
Matches are distributed among these distances:
92 6 0.04
93 10 0.07
94 28 0.19
95 7 0.05
96 69 0.47
97 28 0.19
ACGTcount: A:0.40, C:0.03, G:0.16, T:0.42
Consensus pattern (96 bp):
TAAATTAATTATAAATTTTTAAAAAAATAGATTAGGGTTTAGAGTTAAGGGTTTTTAAGAAAAAA
TCAAATAAATTAGGGTTCAAGGTTACTTGAA
Found at i:14114012 original size:125 final size:125
Alignment explanation
Indices: 14113630--14114040 Score: 635
Period size: 126 Copynumber: 3.3 Consensus size: 125
14113620 TTGTTAATTT
* *
14113630 AAAGAAGTTCTCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAAATAATTTTGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTG-AAAAATAATTTTGAGTAGAC
14113695 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTG
65 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTG
* * * * *
14113756 AAAGAAGCTCCCACGTGGACGCGCTTTCGTTACTGTAGCTCCTAAAAAAATAATTTCGAGTAGAC
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCT-GAAAAATAATTTTGAGTAGAC
* *
14113821 GTTTTTGAGCAAATAGTGTCAAAAACGCTTTAAGCAAGATGCTTTGTCAGCAATAGTACTG
65 GTTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTG
*
14113882 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCATGAAAAATAATTTTGAGTAGACG
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAATAATTTTGAGTAGACG
* * * * *
14113947 TTTCTGAGCAAATAGTGTTAAAAAAGCTTTAAGCAGGATGTTTTGTCAGTAGA-AGTATTG
66 TTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCA-ATAGTACTG
* *
14114007 AAAGAAGCTCCCACGTGGATGCGTTTTTGCTACA
1 AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACA
14114041 ATAGTGCATG
Statistics
Matches: 259, Mismatches: 24, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
125 103 0.40
126 156 0.60
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (125 bp):
AAAGAAGCTCCCACGTGGACGCGCTTTTGCTACAGTAGCTCCTGAAAAATAATTTTGAGTAGACG
TTTCTGAGCAAATAGTGTCAAAAACGCTTTAAGCAGGATGCTTTGTCAGCAATAGTACTG
Found at i:14115599 original size:18 final size:18
Alignment explanation
Indices: 14115573--14115616 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
14115563 GACTAGAAAA
* * *
14115573 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
14115591 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
*
14115609 ATGATACA
1 AGGATACA
14115617 CACCTGGCAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.45, C:0.09, G:0.25, T:0.20
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:14115700 original size:30 final size:30
Alignment explanation
Indices: 14115666--14115739 Score: 76
Period size: 30 Copynumber: 2.5 Consensus size: 30
14115656 TCGGTTGAAC
* * * *
14115666 TGCTGGGTCGGGTGACTGTGTCGGTGTTGT
1 TGCTGGGTCGGGTGACTGTATAGGTGCTGA
* * *
14115696 TGCTGGGCCTGGTGATTGTATAGGTGCTGA
1 TGCTGGGTCGGGTGACTGTATAGGTGCTGA
*
14115726 TGATGGGTCGGGTG
1 TGCTGGGTCGGGTG
14115740 GGCCACGTTG
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
30 34 1.00
ACGTcount: A:0.08, C:0.12, G:0.46, T:0.34
Consensus pattern (30 bp):
TGCTGGGTCGGGTGACTGTATAGGTGCTGA
Found at i:14116261 original size:7 final size:7
Alignment explanation
Indices: 14116249--14116280 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
14116239 TATTAGTTAT
14116249 ATACATA
1 ATACATA
14116256 ATACATA
1 ATACATA
*
14116263 ATACACA
1 ATACATA
14116270 ATACATA
1 ATACATA
14116277 ATAC
1 ATAC
14116281 TAAATACTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.56, C:0.19, G:0.00, T:0.25
Consensus pattern (7 bp):
ATACATA
Found at i:14116286 original size:7 final size:7
Alignment explanation
Indices: 14116276--14116301 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
14116266 CACAATACAT
14116276 AATACTA
1 AATACTA
14116283 AATACTA
1 AATACTA
14116290 AATACTA
1 AATACTA
14116297 AATAC
1 AATAC
14116302 CAATCGACTT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.58, C:0.15, G:0.00, T:0.27
Consensus pattern (7 bp):
AATACTA
Found at i:14116286 original size:14 final size:14
Alignment explanation
Indices: 14116255--14116301 Score: 62
Period size: 14 Copynumber: 3.4 Consensus size: 14
14116245 TTATATACAT
14116255 AATACATAATAC-A
1 AATACATAATACTA
14116268 CAATACATAATACTA
1 -AATACATAATACTA
14116283 AATAC-TAAATACTA
1 AATACAT-AATACTA
14116297 AATAC
1 AATAC
14116302 CAATCGACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
13 1 0.03
14 29 0.94
15 1 0.03
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.26
Consensus pattern (14 bp):
AATACATAATACTA
Found at i:14117489 original size:11 final size:11
Alignment explanation
Indices: 14117475--14117542 Score: 68
Period size: 11 Copynumber: 6.2 Consensus size: 11
14117465 TTTTTTAAAT
14117475 AGGAATTTGAG
1 AGGAATTTGAG
*
14117486 AGGAACTTGAG
1 AGGAATTTGAG
* *
14117497 AGGAAATTGGG
1 AGGAATTTGAG
14117508 AGGAATTTGAG
1 AGGAATTTGAG
14117519 A-GAATATT-AG
1 AGGAAT-TTGAG
*
14117529 AGAGAAATTGAG
1 AG-GAATTTGAG
14117541 AG
1 AG
14117543 AAATGATTTA
Statistics
Matches: 47, Mismatches: 6, Indels: 7
0.78 0.10 0.12
Matches are distributed among these distances:
10 7 0.15
11 33 0.70
12 7 0.15
ACGTcount: A:0.41, C:0.01, G:0.35, T:0.22
Consensus pattern (11 bp):
AGGAATTTGAG
Found at i:14117536 original size:33 final size:33
Alignment explanation
Indices: 14117475--14117538 Score: 87
Period size: 33 Copynumber: 1.9 Consensus size: 33
14117465 TTTTTTAAAT
*
14117475 AGGAATTTGAGAGGAACTTGAGAGGAAATTGGG
1 AGGAATTTGAGAGGAAATTGAGAGGAAATTGGG
14117508 AGGAATTTGAGA-GAATATT-AGAGAGAAATTG
1 AGGAATTTGAGAGGAA-ATTGAGAG-GAAATTG
14117539 AGAGAAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 7 0.25
33 21 0.75
ACGTcount: A:0.41, C:0.02, G:0.34, T:0.23
Consensus pattern (33 bp):
AGGAATTTGAGAGGAAATTGAGAGGAAATTGGG
Found at i:14122630 original size:3 final size:3
Alignment explanation
Indices: 14122622--14122673 Score: 56
Period size: 3 Copynumber: 17.7 Consensus size: 3
14122612 CCTCCTTCCC
*
14122622 CTT CTT CTT TTT CTT CTT CTT CTT CTT CTT C-T CTT -TT CCTT -TT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT -CTT CTT
14122665 CTTT CTT CT
1 C-TT CTT CT
14122674 CTTTCGTGCA
Statistics
Matches: 42, Mismatches: 2, Indels: 10
0.78 0.04 0.19
Matches are distributed among these distances:
2 6 0.14
3 31 0.74
4 5 0.12
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
CTT
Found at i:14123993 original size:132 final size:132
Alignment explanation
Indices: 14123753--14124021 Score: 520
Period size: 132 Copynumber: 2.0 Consensus size: 132
14123743 AAAATGAAAA
14123753 CAAATATGGGCTCACTGGTTATCTAGTATTTAACTAATACTAAGCGGTTTCACGTGGTCAGATCG
1 CAAATATGGGCTCACTGGTTATCTAGTATTTAACTAATACTAAGCGGTTTCACGTGGTCAGATCG
*
14123818 TAATACAGAAAGACAACTTGTATTAGTAGATGAACCTACACATATCATTAGTCTAATTGGAAATA
66 TAATACAGAAAGACAACTTGTATTAGTAGATGAACCTAAACATATCATTAGTCTAATTGGAAATA
14123883 AG
131 AG
14123885 CAAATATGGGCTCACTGGTTATCTAGTATTTAACTAATACTAAGCGGTTTCACGTGGTCAGATCG
1 CAAATATGGGCTCACTGGTTATCTAGTATTTAACTAATACTAAGCGGTTTCACGTGGTCAGATCG
*
14123950 TAATACAGAAAGACAACTTGTATTAGTAGATGAACCTAAACATATCATTAGTCTAATTGGAAATG
66 TAATACAGAAAGACAACTTGTATTAGTAGATGAACCTAAACATATCATTAGTCTAATTGGAAATA
14124015 AG
131 AG
14124017 CAAAT
1 CAAAT
14124022 CAATTGAAAG
Statistics
Matches: 135, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
132 135 1.00
ACGTcount: A:0.36, C:0.16, G:0.18, T:0.30
Consensus pattern (132 bp):
CAAATATGGGCTCACTGGTTATCTAGTATTTAACTAATACTAAGCGGTTTCACGTGGTCAGATCG
TAATACAGAAAGACAACTTGTATTAGTAGATGAACCTAAACATATCATTAGTCTAATTGGAAATA
AG
Found at i:14125611 original size:13 final size:14
Alignment explanation
Indices: 14125582--14125611 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14125572 TCTTGTTAGA
14125582 TTTAGTCTTTATTC
1 TTTAGTCTTTATTC
14125596 TTTAGTCTTT-TTC
1 TTTAGTCTTTATTC
14125609 TTT
1 TTT
14125612 TCTTAGGTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.38
14 10 0.62
ACGTcount: A:0.10, C:0.13, G:0.07, T:0.70
Consensus pattern (14 bp):
TTTAGTCTTTATTC
Found at i:14129150 original size:22 final size:22
Alignment explanation
Indices: 14129119--14129162 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14129109 TGCACTATGC
*
14129119 CAATAGAATTGATTGGTTGTGT
1 CAATAGAATTGAATGGTTGTGT
* *
14129141 CAATATAATTGAATGTTTGTGT
1 CAATAGAATTGAATGGTTGTGT
14129163 TAAAAGTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.30, C:0.05, G:0.23, T:0.43
Consensus pattern (22 bp):
CAATAGAATTGAATGGTTGTGT
Found at i:14133155 original size:792 final size:793
Alignment explanation
Indices: 14131627--14133219 Score: 2927
Period size: 792 Copynumber: 2.0 Consensus size: 793
14131617 AGTGATCAAA
*
14131627 GAGTTGTTACATGGCTGTTATGTGAGCATTGTGGTCGTCGTCATCATGGTGAGTGTTGGAGGATG
1 GAGTTGTTACATGGCTGTTATGTGAGCATTGTGGTCGTCATCATCATGGTGAGTGTTGGAGGATG
* * * *
14131692 AGTGGCATTTATCTTCTTTACGGATCGATGAAGCATCGTGTTAGTTATTGTCCGAGGAGAGCAGT
66 AGTGGCACTTATCTTCTTTACGGATCGATGAAGCATCATGTTAGTAATTGTCCGAGAAGAGCAGT
*
14131757 TGTGGTTCGGCTTGATGGACCAACCTATTGCTATTGTTGTTGCTGCTGCATCTGTTTCGGCTCGA
131 TGTGGTTCGGCTTGATGGACCAACCTATTGCTATTGTTGTTGCTGCTGCACCTGTTTCGGCTCGA
* *
14131822 GGGAGGGGCCTTGACAGATGTGGTGGTGGTAGAGATGTTGGTTAGCGTAAAACTGCTCAGGGTGG
196 GGGAGGGGCCTTGACAGA--TGGTGGTGGTAGAGATGTTGGTTAGCGTAAAACTGCTCACGATGG
* *
14131887 TAATGGAGGTCCAGCCAGAGTTTACACAGTTAGAGAGCCTTAGATAAGAGAGGCCACGGATGTCA
259 TAATGAAGGTCCAGCCAGAGTTTACACAGTTAGAGAGCCTTAGACAAGAGAGGCCACGGATGTCA
14131952 TCGCGGGTACTTTCATGCTACAATCTTTTCCTCTTTTAGCTTTAGTTGATTCGGGTGCTATGGGA
324 TCGCGGGTACTTTCATGCTACAATCTTTTCCTCTTTTAGCTTTAGTTGATTCGGGTGCTATGGGA
14132017 TCGTTTATTCTGAGTGATGTAGTTAGAAAGTTAAGGATTCCTGTAGAGACATCTAGGTTAGGTGT
389 TCGTTTATTCTGAGTGATGTAGTTAGAAAGTTAAGGATTCCTGTAGAGACATCTAGGTTAGGTGT
14132082 TATGATTAAGAGCCCTCTAGGTGATAGTGTAGTGGTGGATTGGGTTTACCGTCGTTGTTCTCTAA
454 TATGATTAAGAGCCCTCTAGGTGATAGTGTAGTGGTGGATTGGGTTTACCGTCGTTGTTCTCTAA
* *
14132147 TGGTTTAGGGACAAGTGTTTCCTATAGATCTTTTAGAATTACCATTTTAAGGGTTTTATGTTATC
519 TGGTTTAGGGACAAGTGTTTCCTATAGATCTTTTAGAATTACCATTCTAAGGGTTCTATGTTATC
* * *
14132212 CTTAGGATGGATTGGTTGACCGAGCATTGAGCGAAGGTTTATTGTGAGGCAATTATGGTGATTTT
584 CTCAGGATGGATTGGTTGACCGAGCATCGAGCGAAGGTTGATTGTGAGGCAATTATGGTGATTTT
*
14132277 GTGTTGCGTGGATGGTTTCGAAGTTGTTGTTATTGGAGAGAAGTTGGAGTTGCTTTCTAATGTGA
649 GTGTTGCGCGGATGGTTTCGAAGTTGTTGTTATTGGAGAGAAGTTGGAGTTGCTTTCTAATGTGA
*
14132342 TTTCTTCACTTAGAGCTGAGAAGTTGGTCTAGAAAGGTTACGAAGCTTATCTAGCCTATGTATTG
714 TTTCTTCACTTAGAGCTGAGAAGTTGGTCTAGAAAGGTTACGAAGCTTATCTAGCCTATGTACTG
14132407 AATGTCGATAGTAAG
779 AATGTCGATAGTAAG
14132422 GAGTTGTTACATGGCTGTTATGTGAGCATTGTGGTCGTCATCATCATGGTGAGTGTTGGAGGATG
1 GAGTTGTTACATGGCTGTTATGTGAGCATTGTGGTCGTCATCATCATGGTGAGTGTTGGAGGATG
14132487 AGTGGCACTTATCTTCTTTACGGATCGATGAAGCATCATGTTAGTAATTGTCCGAGAAGAGCAGT
66 AGTGGCACTTATCTTCTTTACGGATCGATGAAGCATCATGTTAGTAATTGTCCGAGAAGAGCAGT
*
14132552 TGTGGTTCGGCTTGATGGACCAACCTATTGCTATTGTTGTTGCTGCTGCACCTGTTTCGGCTTGA
131 TGTGGTTCGGCTTGATGGACCAACCTATTGCTATTGTTGTTGCTGCTGCACCTGTTTCGGCTCGA
*
14132617 GGGAGGGGCCTTGACAGA-GGTGGTGGTAGAGATGTTGGTTAGCGTAAAATTGCTCACGATGGTA
196 GGGAGGGGCCTTGACAGATGGTGGTGGTAGAGATGTTGGTTAGCGTAAAACTGCTCACGATGGTA
*
14132681 ATGAAGGTCCAGCCAGAGTTTACACAGTTAGAGAGCCTTAGACAAGAGAGGCTACGGATGTCATC
261 ATGAAGGTCCAGCCAGAGTTTACACAGTTAGAGAGCCTTAGACAAGAGAGGCCACGGATGTCATC
14132746 GCGGGTACTTTCATGCTACAATCTTTTCCTCTTTTAGCTTTAGTTGATTCGGGTGCTATGGGATC
326 GCGGGTACTTTCATGCTACAATCTTTTCCTCTTTTAGCTTTAGTTGATTCGGGTGCTATGGGATC
14132811 GTTTATTCTGAGTGATGTAGTTAGAAAGTTAAGGATTCCTGTAGAGACATCTAGGTTAGGTGTTA
391 GTTTATTCTGAGTGATGTAGTTAGAAAGTTAAGGATTCCTGTAGAGACATCTAGGTTAGGTGTTA
*
14132876 TGATTAAGATCCCTCTAGGTGATAGTGTAGTGGTGGATTGGGTTTACCGTCGTTGTTCTCTAATG
456 TGATTAAGAGCCCTCTAGGTGATAGTGTAGTGGTGGATTGGGTTTACCGTCGTTGTTCTCTAATG
*
14132941 GTTTAGGGACAAGTGTTTCCTATAGATCTTTTAGAATTACCGTTCTAAGGGTTCTATGTTATCCT
521 GTTTAGGGACAAGTGTTTCCTATAGATCTTTTAGAATTACCATTCTAAGGGTTCTATGTTATCCT
*
14133006 CAGGATGGATTGGTTGACCGAGCATCGAGCGAAGGTTGATTGTGAGGTAATTATGGTGATTTTGT
586 CAGGATGGATTGGTTGACCGAGCATCGAGCGAAGGTTGATTGTGAGGCAATTATGGTGATTTTGT
*
14133071 GTTGCGCGGATGGTTTCGAAGTTGTTGTTGTTGGAGAGAAGTTGGAGTTGCTTTCTAATGTGATT
651 GTTGCGCGGATGGTTTCGAAGTTGTTGTTATTGGAGAGAAGTTGGAGTTGCTTTCTAATGTGATT
* *
14133136 TCTTCGCTTAGAGCTGAGAAGTTGGTCTGGAAAGGTTACGAAGCTTATCTAGCCTATGTACTGAA
716 TCTTCACTTAGAGCTGAGAAGTTGGTCTAGAAAGGTTACGAAGCTTATCTAGCCTATGTACTGAA
14133201 TGTCGATAGTAAG
781 TGTCGATAGTAAG
14133214 GAGTTG
1 GAGTTG
14133220 AGGTTGGATA
Statistics
Matches: 772, Mismatches: 26, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
792 566 0.73
795 206 0.27
ACGTcount: A:0.22, C:0.14, G:0.30, T:0.35
Consensus pattern (793 bp):
GAGTTGTTACATGGCTGTTATGTGAGCATTGTGGTCGTCATCATCATGGTGAGTGTTGGAGGATG
AGTGGCACTTATCTTCTTTACGGATCGATGAAGCATCATGTTAGTAATTGTCCGAGAAGAGCAGT
TGTGGTTCGGCTTGATGGACCAACCTATTGCTATTGTTGTTGCTGCTGCACCTGTTTCGGCTCGA
GGGAGGGGCCTTGACAGATGGTGGTGGTAGAGATGTTGGTTAGCGTAAAACTGCTCACGATGGTA
ATGAAGGTCCAGCCAGAGTTTACACAGTTAGAGAGCCTTAGACAAGAGAGGCCACGGATGTCATC
GCGGGTACTTTCATGCTACAATCTTTTCCTCTTTTAGCTTTAGTTGATTCGGGTGCTATGGGATC
GTTTATTCTGAGTGATGTAGTTAGAAAGTTAAGGATTCCTGTAGAGACATCTAGGTTAGGTGTTA
TGATTAAGAGCCCTCTAGGTGATAGTGTAGTGGTGGATTGGGTTTACCGTCGTTGTTCTCTAATG
GTTTAGGGACAAGTGTTTCCTATAGATCTTTTAGAATTACCATTCTAAGGGTTCTATGTTATCCT
CAGGATGGATTGGTTGACCGAGCATCGAGCGAAGGTTGATTGTGAGGCAATTATGGTGATTTTGT
GTTGCGCGGATGGTTTCGAAGTTGTTGTTATTGGAGAGAAGTTGGAGTTGCTTTCTAATGTGATT
TCTTCACTTAGAGCTGAGAAGTTGGTCTAGAAAGGTTACGAAGCTTATCTAGCCTATGTACTGAA
TGTCGATAGTAAG
Found at i:14135389 original size:2 final size:2
Alignment explanation
Indices: 14135382--14135423 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
14135372 AAATTGAGAG
14135382 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14135424 TTTTGCTTGT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:14143125 original size:74 final size:75
Alignment explanation
Indices: 14142945--14143154 Score: 323
Period size: 74 Copynumber: 2.8 Consensus size: 75
14142935 AACCGTTATC
* * * *
14142945 GGTGGATTCAGCACTTAGCAACCAACAGTGATTCGGGGAATCAACACTTAGCAACCACTTTCACA
1 GGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACC-CCTTCACA
14143010 TTAAAAGATAT
65 TTAAAAGATAT
* *
14143021 GGTGGAATCAGCACCTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTCACAT
1 GGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTCACAT
*
14143086 TTAAA-ATAT
66 TAAAAGATAT
* *
14143095 GGTGGGATCAGCACTTAGCAACCACCAATGAATCGGGGAATCAACACTTAGCAACCCCTT
1 GGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTT
14143155 GGGGGAATCA
Statistics
Matches: 123, Mismatches: 11, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
74 60 0.49
75 12 0.10
76 51 0.41
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (75 bp):
GGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAACACTTAGCAACCCCTTCACAT
TAAAAGATAT
Found at i:14143148 original size:33 final size:33
Alignment explanation
Indices: 14143101--14143381 Score: 116
Period size: 27 Copynumber: 8.5 Consensus size: 33
14143091 ATATGGTGGG
14143101 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
* *
14143134 ATCAACACTTAGCAACC-CC--T---TGGGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
*
14143161 ATCAGCACTTAGCAACCCCCTTTATATTCAAGATAT-GGTGGA
1 ATCAGCACTTAGCAACCACC---A-A-T---GA-ATCGG-GGA
* *
14143203 ATCAGCACTTAGCAACCACCAATGAGTCGAGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
* * *
14143236 ACCAACACTTAGCAACC-CC--T---TGGGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
*
14143263 ATCAGCACTTAGCAACCCCCTTTATATTCAAGATAT-GGTGGA
1 ATCAGCACTTAGCAACCACC---A-A-T---GA-ATCGG-GGA
* *
14143305 ATCAGCACTTAGCAACCACCAATGAGTCGAGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
* * *
14143338 ACCAACACTTAGCAACC-CC--T---TGGGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCGGGGA
14143365 ATCAGCACTTAGCAACC
1 ATCAGCACTTAGCAACC
14143382 CCCTTTATAT
Statistics
Matches: 193, Mismatches: 21, Indels: 74
0.67 0.07 0.26
Matches are distributed among these distances:
27 62 0.32
28 4 0.02
30 3 0.02
32 6 0.03
33 54 0.28
34 6 0.03
35 2 0.01
37 2 0.01
38 2 0.01
39 2 0.01
41 4 0.02
42 46 0.24
ACGTcount: A:0.33, C:0.28, G:0.20, T:0.20
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCACCAATGAATCGGGGA
Found at i:14143211 original size:102 final size:102
Alignment explanation
Indices: 14143055--14143395 Score: 603
Period size: 102 Copynumber: 3.4 Consensus size: 102
14143045 CCAATGATTC
* * * * *
14143055 GGGGAATCAGCACTTAGCAA-CCCCTTCACATTTAAAATATGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAAGATATGGTGGAATCAGCACTTAGCAACCA
* * *
14143119 CCAATGAATCGGGGAATCAACACTTAGCAACCCCTTG
66 CCAATGAGTCGAGGAACCAACACTTAGCAACCCCTTG
14143156 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAAGATATGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAAGATATGGTGGAATCAGCACTTAGCAACCA
14143221 CCAATGAGTCGAGGAACCAACACTTAGCAACCCCTTG
66 CCAATGAGTCGAGGAACCAACACTTAGCAACCCCTTG
14143258 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAAGATATGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAAGATATGGTGGAATCAGCACTTAGCAACCA
14143323 CCAATGAGTCGAGGAACCAACACTTAGCAACCCCTTG
66 CCAATGAGTCGAGGAACCAACACTTAGCAACCCCTTG
14143360 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAA
1 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAA
14143396 TGTACTCCGG
Statistics
Matches: 231, Mismatches: 8, Indels: 1
0.96 0.03 0.00
Matches are distributed among these distances:
101 20 0.09
102 211 0.91
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAAGATATGGTGGAATCAGCACTTAGCAACCA
CCAATGAGTCGAGGAACCAACACTTAGCAACCCCTTG
Found at i:14150803 original size:102 final size:102
Alignment explanation
Indices: 14150629--14151073 Score: 674
Period size: 102 Copynumber: 4.4 Consensus size: 102
14150619 CCAGTGATTC
* * *
14150629 GGGGAATCACCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAA-ATACGGTGGAATCAGCACTTAGCAACC
* * * *
14150694 ACCAATGATTCGGGGAATGAGCACTTAGCAACCCCTTG
65 ACCAATGAGTCAGGGAATTAACACTTAGCAACCCCTTG
* * *
14150732 TGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGGATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAATACGGTGGAATCAGCACTTAGCAACCA
* * * *
14150797 CCAATGAATCAGGGAATCAGCACTTAGCAACCCCTTA
66 CCAATGAGTCAGGGAATTAACACTTAGCAACCCCTTG
* * * *
14150834 GGGGAATCAACACTTAGCAACCCCCTTTATATTCAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAATACGGTGGAATCAGCACTTAGCAACCA
14150899 CCAATGAGTCAGGGAATTAACACTTAGCAACCCCTTG
66 CCAATGAGTCAGGGAATTAACACTTAGCAACCCCTTG
* * *
14150936 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAAGATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAATACGGTGGAATCAGCACTTAGCAACCA
14151001 CCAATGAGTCAGGGAATTAACACTTAGCAACCCCTTG
66 CCAATGAGTCAGGGAATTAACACTTAGCAACCCCTTG
* *
14151038 GGGGAATCAGCACTTAGCAACCCCCTTTATATTCAA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAA
14151074 TGTACTCAGG
Statistics
Matches: 320, Mismatches: 22, Indels: 1
0.93 0.06 0.00
Matches are distributed among these distances:
102 287 0.90
103 33 0.10
ACGTcount: A:0.32, C:0.27, G:0.19, T:0.22
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTCAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGAGTCAGGGAATTAACACTTAGCAACCCCTTG
Found at i:14150821 original size:33 final size:33
Alignment explanation
Indices: 14150779--14151032 Score: 111
Period size: 33 Copynumber: 7.5 Consensus size: 33
14150769 ATACGGTGGG
14150779 ATCAGCACTTAGCAACCACCAATGAATCAGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCAGGGA
14150812 ATCAGCACTTAGCAACC-CC--T---T-AGGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCA-GGGA
* * * *
14150839 ATCAACACTTAGCAACCCCCTTTATATTCAAGATACGGTGGA
1 ATCAGCACTTAGCAACCACC---A-A-T-GA-AT-CAG-GGA
*
14150881 ATCAGCACTTAGCAACCACCAATGAGTCAGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCAGGGA
* * **
14150914 ATTAACACTTAGCAACC-CC--T---TGGGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCAGGGA
* * *
14150941 ATCAGCACTTAGCAACCCCCTTTATATTCAAGATACGGTGGA
1 ATCAGCACTTAGCAACCACC---A-A-T-GA-AT-CAG-GGA
*
14150983 ATCAGCACTTAGCAACCACCAATGAGTCAGGGA
1 ATCAGCACTTAGCAACCACCAATGAATCAGGGA
* *
14151016 ATTAACACTTAGCAACC
1 ATCAGCACTTAGCAACC
14151033 CCTTGGGGGA
Statistics
Matches: 169, Mismatches: 20, Indels: 64
0.67 0.08 0.25
Matches are distributed among these distances:
26 1 0.01
27 41 0.24
28 4 0.02
30 2 0.01
32 4 0.02
33 53 0.31
34 4 0.02
35 4 0.02
36 2 0.01
37 2 0.01
38 2 0.01
39 2 0.01
40 2 0.01
41 3 0.02
42 43 0.25
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (33 bp):
ATCAGCACTTAGCAACCACCAATGAATCAGGGA
Found at i:14150949 original size:27 final size:30
Alignment explanation
Indices: 14150878--14150959 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 30
14150868 AAGATACGGT
14150878 GGAATCAGCACTTAGCAACCACCAATGAGTCAG
1 GGAATCAGCACTTAGCAACC-CCAATGAG--AG
* * *
14150911 GGAATTAACACTTAGCAACCCC-TTG-G-G
1 GGAATCAGCACTTAGCAACCCCAATGAGAG
14150938 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
14150960 CTTTATATTC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 21 0.48
30 1 0.02
31 2 0.05
32 2 0.05
33 18 0.41
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (30 bp):
GGAATCAGCACTTAGCAACCCCAATGAGAG
Found at i:14151051 original size:27 final size:30
Alignment explanation
Indices: 14150980--14151061 Score: 89
Period size: 27 Copynumber: 2.7 Consensus size: 30
14150970 AAGATACGGT
14150980 GGAATCAGCACTTAGCAACCACCAATGAGTCAG
1 GGAATCAGCACTTAGCAACC-CCAATGAG--AG
* * *
14151013 GGAATTAACACTTAGCAACCCC-TTG-G-G
1 GGAATCAGCACTTAGCAACCCCAATGAGAG
14151040 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
14151062 CTTTATATTC
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
27 21 0.48
30 1 0.02
31 2 0.05
32 2 0.05
33 18 0.41
ACGTcount: A:0.33, C:0.29, G:0.21, T:0.17
Consensus pattern (30 bp):
GGAATCAGCACTTAGCAACCCCAATGAGAG
Found at i:14151175 original size:58 final size:58
Alignment explanation
Indices: 14151085--14151199 Score: 212
Period size: 58 Copynumber: 2.0 Consensus size: 58
14151075 GTACTCAGGC
*
14151085 TTATTCCGAGTGTTCAACCGGAACCCATATTTTGAACATTTTACCACCTTTCCCAACG
1 TTATTCCGAGTGTTCAACCGGAACCCATATTTTCAACATTTTACCACCTTTCCCAACG
*
14151143 TTATTCCGAGTGTTCAACCGGAACCCATATTTTCAACATTTTACCACCTTTTCCAAC
1 TTATTCCGAGTGTTCAACCGGAACCCATATTTTCAACATTTTACCACCTTTCCCAAC
14151200 ATAACCACAT
Statistics
Matches: 55, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
58 55 1.00
ACGTcount: A:0.26, C:0.30, G:0.10, T:0.34
Consensus pattern (58 bp):
TTATTCCGAGTGTTCAACCGGAACCCATATTTTCAACATTTTACCACCTTTCCCAACG
Found at i:14162412 original size:88 final size:88
Alignment explanation
Indices: 14162259--14162519 Score: 378
Period size: 88 Copynumber: 3.0 Consensus size: 88
14162249 AGAACAAACC
14162259 GGTGGAAGACTATAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGTAAATCCTA
1 GGTGGAAGACTATAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGTAAATCCTA
14162324 GCTCCCTGACTAGCAGTGGAATA
66 GCTCCCTGACTAGCAGTGGAATA
* * * * ** * *
14162347 GGTGGAAGACTATAAGTCCTAGTTCCCTGAACAACAGTGGAATAGGCGGAAGATTATAAAACCTA
1 GGTGGAAGACTATAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGTAAATCCTA
* *
14162412 GCTCCTTGACCAGCAGTGGAATA
66 GCTCCCTGACTAGCAGTGGAATA
* * * * *
14162435 GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGTAGTGGAGTAGGTAGAAGATTGTAAGTCCTA
1 GGTGGAAGACTATAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGTAAATCCTA
*
14162500 GCTCCCTGAGTAGCAGTGGA
66 GCTCCCTGACTAGCAGTGGA
14162520 GCAGGTTGAA
Statistics
Matches: 147, Mismatches: 26, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
88 147 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (88 bp):
GGTGGAAGACTATAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGTAAATCCTA
GCTCCCTGACTAGCAGTGGAATA
Found at i:14162519 original size:132 final size:132
Alignment explanation
Indices: 14162262--14162508 Score: 395
Period size: 132 Copynumber: 1.9 Consensus size: 132
14162252 ACAAACCGGT
*
14162262 GGAAGACTATAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGTAAATCCTAGCT
1 GGAAGACTATAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGTAAATCCTAGCT
* * *
14162327 CCCTGACTAGCAGTGGAATAGGTGGAAGACTATAAGTCCTAGTTCCCTGAACAACAGTGGAATAG
66 CCCTGACCAGCAGTGGAATAGGTAGAAGACTATAAGTCCTAGCTCCCTGAACAACAGTGGAATAG
14162392 GC
131 GC
* * *
14162394 GGAAGATTATAAAACCTAGCTCCTTGACCAGCAGTGGAATAGGTGGAAGATTGTAAATCCTAGCT
1 GGAAGACTATAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGTAAATCCTAGCT
* * * *
14162459 CCCTGACCAGTAGTGGAGTAGGTAGAAGATTGTAAGTCCTAGCTCCCTGA
66 CCCTGACCAGCAGTGGAATAGGTAGAAGACTATAAGTCCTAGCTCCCTGA
14162509 GTAGCAGTGG
Statistics
Matches: 104, Mismatches: 11, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 104 1.00
ACGTcount: A:0.32, C:0.20, G:0.26, T:0.23
Consensus pattern (132 bp):
GGAAGACTATAAAACCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGTAAATCCTAGCT
CCCTGACCAGCAGTGGAATAGGTAGAAGACTATAAGTCCTAGCTCCCTGAACAACAGTGGAATAG
GC
Found at i:14162520 original size:44 final size:44
Alignment explanation
Indices: 14162259--14162519 Score: 342
Period size: 44 Copynumber: 5.9 Consensus size: 44
14162249 AGAACAAACC
* *
14162259 GGTGGAAGACTATAAATCCTAGCTCCCTGACCAGCAGTGGAATA
1 GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGTGGAATA
* *
14162303 GGTAGAAGATTGTAAATCCTAGCTCCCTGACTAGCAGTGGAATA
1 GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGTGGAATA
* * * * * *
14162347 GGTGGAAGACTATAAGTCCTAGTTCCCTGAACAACAGTGGAATA
1 GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGTGGAATA
* * * *
14162391 GGCGGAAGATTATAAAACCTAGCTCCTTGACCAGCAGTGGAATA
1 GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGTGGAATA
* *
14162435 GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGTAGTGGAGTA
1 GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGTGGAATA
* * **
14162479 GGTAGAAGATTGTAAGTCCTAGCTCCCTGAGTAGCAGTGGA
1 GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGTGGA
14162520 GCAGGTTGAA
Statistics
Matches: 186, Mismatches: 31, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 186 1.00
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.23
Consensus pattern (44 bp):
GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGTGGAATA
Found at i:14162562 original size:132 final size:132
Alignment explanation
Indices: 14162276--14162563 Score: 351
Period size: 132 Copynumber: 2.2 Consensus size: 132
14162266 GACTATAAAT
* *
14162276 CCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGTAAATCCTAGCTCCCTGACTAGCAGT
1 CCTAGCTCCCTAACCAGCAGTGGAATAGGTAGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGT
* * * * *
14162341 GGAATAGGTGGAAGACTATAAGTCCTAGTTCCCTGAACAACAGTGGAATAGGCGGAAGATTATAA
66 GGAATAGGTAGAAGACTATAAGTCCTAGCTCCCTGAACAACAGTGGAACAGGCGGAAAATTACAA
14162406 AA
131 AA
* * * *
14162408 CCTAGCTCCTTGACCAGCAGTGGAATAGGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGTAGT
1 CCTAGCTCCCTAACCAGCAGTGGAATAGGTAGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGT
* * * ** * * **
14162473 GGAGTAGGTAGAAGATTGTAAGTCCTAGCTCCCTGAGTAGCAGTGGAGCAGGTTGAAAATTACAA
66 GGAATAGGTAGAAGACTATAAGTCCTAGCTCCCTGAACAACAGTGGAACAGGCGGAAAATTACAA
*
14162538 AT
131 AA
* * * *
14162540 CTTATCTCCCTAAGCAGTAGTGGA
1 CCTAGCTCCCTAACCAGCAGTGGA
14162564 GCAGATCGAA
Statistics
Matches: 131, Mismatches: 25, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
132 131 1.00
ACGTcount: A:0.31, C:0.20, G:0.26, T:0.24
Consensus pattern (132 bp):
CCTAGCTCCCTAACCAGCAGTGGAATAGGTAGAAGATTGTAAATCCTAGCTCCCTGACCAGCAGT
GGAATAGGTAGAAGACTATAAGTCCTAGCTCCCTGAACAACAGTGGAACAGGCGGAAAATTACAA
AA
Found at i:14162564 original size:88 final size:87
Alignment explanation
Indices: 14162259--14162563 Score: 324
Period size: 88 Copynumber: 3.5 Consensus size: 87
14162249 AGAACAAACC
* * * *
14162259 GGTGGAAGACTATAAATCCTAGCTCCCTGACCAGCAGTGGAATAGGTAGAAGATTGTAAATCCTA
1 GGTGGAAGATTATAAATCCTATCTCCCT-AACAGTAGTGGAATAGGTAGAAGATTGTAAATCCTA
14162324 GCTCCCTGACTAGCAGTGGAATA
65 GCTCCCTGACTAGCAGTGGAATA
* * ** ** * *
14162347 GGTGGAAGACTATAAGTCCTAGT-TCCCTGAACAACAGTGGAATAGGCGGAAGATTATAAAACCT
1 GGTGGAAGATTATAAATCCTA-TCTCCCT-AACAGTAGTGGAATAGGTAGAAGATTGTAAATCCT
* *
14162411 AGCTCCTTGACCAGCAGTGGAATA
64 AGCTCCCTGACTAGCAGTGGAATA
* * * * *
14162435 GGTGGAAGATTGTAAATCCTAGCTCCCTGACCAGTAGTGGAGTAGGTAGAAGATTGTAAGTCCTA
1 GGTGGAAGATTATAAATCCTATCTCCCT-AACAGTAGTGGAATAGGTAGAAGATTGTAAATCCTA
* **
14162500 GCTCCCTGAGTAGCAGTGGAGCA
65 GCTCCCTGACTAGCAGTGGAATA
* * * *
14162523 GGTTGAAAATTACAAATCTTATCTCCCTAAGCAGTAGTGGA
1 GGTGGAAGATTATAAATCCTATCTCCCTAA-CAGTAGTGGA
14162564 GCAGATCGAA
Statistics
Matches: 179, Mismatches: 35, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
87 1 0.01
88 178 0.99
ACGTcount: A:0.31, C:0.19, G:0.26, T:0.24
Consensus pattern (87 bp):
GGTGGAAGATTATAAATCCTATCTCCCTAACAGTAGTGGAATAGGTAGAAGATTGTAAATCCTAG
CTCCCTGACTAGCAGTGGAATA
Found at i:14164064 original size:18 final size:18
Alignment explanation
Indices: 14164043--14164082 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
14164033 TTGGCCCTCA
* *
14164043 GTTTTTTTTTTTATTTTT
1 GTTTTTTCTTTTAATTTT
14164061 GTTTTTTCTTTTAATTTT
1 GTTTTTTCTTTTAATTTT
14164079 GTTT
1 GTTT
14164083 CAAATTCAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.07, C:0.03, G:0.07, T:0.82
Consensus pattern (18 bp):
GTTTTTTCTTTTAATTTT
Found at i:14175596 original size:41 final size:41
Alignment explanation
Indices: 14175542--14175780 Score: 266
Period size: 41 Copynumber: 5.8 Consensus size: 41
14175532 AAGTTACCAG
* * *
14175542 AGTATAAATAGGGGCATATATGTGCTATTCAGGGGTATCGA
1 AGTACAAATAGGGGCACATATGTGCAATTCAGGGGTATCGA
* * * * * *
14175583 AGTACAAACAGGGGGACTTATGTGCAATTCAGAGCTATCAA
1 AGTACAAATAGGGGCACATATGTGCAATTCAGGGGTATCGA
* ** *
14175624 AGTACAAACAGGGGCACGCATATG-G-AATTCAGCAGTACCGA
1 AGTACAAATAGGGGCA--CATATGTGCAATTCAGGGGTATCGA
* *
14175665 AGTACAAATAGGGGCATATATGTGCAATTCAAGGGTATCGA
1 AGTACAAATAGGGGCACATATGTGCAATTCAGGGGTATCGA
* * * * *
14175706 AGTACGAATAGGGACACATATGTGCAATGCAAGGGTACCGA
1 AGTACAAATAGGGGCACATATGTGCAATTCAGGGGTATCGA
14175747 AGTACAAATAGGGGCACATATGTGCAATTCAGGG
1 AGTACAAATAGGGGCACATATGTGCAATTCAGGG
14175781 TATAATTAAT
Statistics
Matches: 163, Mismatches: 31, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
39 5 0.03
40 1 0.01
41 151 0.93
42 1 0.01
43 5 0.03
ACGTcount: A:0.36, C:0.15, G:0.28, T:0.21
Consensus pattern (41 bp):
AGTACAAATAGGGGCACATATGTGCAATTCAGGGGTATCGA
Found at i:14175776 original size:123 final size:122
Alignment explanation
Indices: 14175542--14175778 Score: 307
Period size: 123 Copynumber: 1.9 Consensus size: 122
14175532 AAGTTACCAG
* * * ** *
14175542 AGTATAAATAGGGGCATATATGTGCTATTCAGGGGTATCGAAGTACAAACAGGGGGACTTATGTG
1 AGTACAAATAGGGGCATATATGTGCAATTCAAGGGTATCGAAGTACAAACAGGGACACATATGTG
* *
14175607 CAATTCAGAGCTATCAAAGTACAAACAGGGGCACGCATATGGAATTCAGCAGTACCGA
66 CAATGCAGAGCTACCAAAGTACAAACAGGGGCAC-CATATGGAATTCAGCAGTACCGA
* *
14175665 AGTACAAATAGGGGCATATATGTGCAATTCAAGGGTATCGAAGTACGAATAGGGACACATATGTG
1 AGTACAAATAGGGGCATATATGTGCAATTCAAGGGTATCGAAGTACAAACAGGGACACATATGTG
* * *
14175730 CAATGCA-AGGGTACCGAAGTACAAATAGGGGCA-CATATGTGCAATTCAG
66 CAATGCAGA-GCTACCAAAGTACAAACAGGGGCACCATATG-G-AATTCAG
14175779 GGTATAATTA
Statistics
Matches: 98, Mismatches: 13, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
121 6 0.06
122 2 0.02
123 90 0.92
ACGTcount: A:0.36, C:0.16, G:0.27, T:0.22
Consensus pattern (122 bp):
AGTACAAATAGGGGCATATATGTGCAATTCAAGGGTATCGAAGTACAAACAGGGACACATATGTG
CAATGCAGAGCTACCAAAGTACAAACAGGGGCACCATATGGAATTCAGCAGTACCGA
Found at i:14179860 original size:50 final size:50
Alignment explanation
Indices: 14179751--14179998 Score: 271
Period size: 50 Copynumber: 4.8 Consensus size: 50
14179741 ATTTGGGTAA
* * * * *
14179751 AGAGATCCCATATAAGACCATGTATGGGACATGGCATCGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
14179807 AGAGGTCCCATGTAAGACCATGTCTGGGACATAGCATTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
14179857 AGAGGTTCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
14179907 AGAGGTCCCCCGTAAGACCATGTTTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
14179957 AGAACTCCCATGTAAGACCATATCTAGGATATGGCATTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
14179999 GTACAGAAAA
Statistics
Matches: 165, Mismatches: 27, Indels: 6
0.83 0.14 0.03
Matches are distributed among these distances:
50 125 0.76
53 3 0.02
56 37 0.22
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:14180264 original size:12 final size:12
Alignment explanation
Indices: 14180247--14180285 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
14180237 ATGAGTTATT
14180247 TAAGTAAGCAAG
1 TAAGTAAGCAAG
*
14180259 TAAGTAAACAAG
1 TAAGTAAGCAAG
* *
14180271 TAAGTGAGTAAG
1 TAAGTAAGCAAG
14180283 TAA
1 TAA
14180286 AGAAGCGAGT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.51, C:0.05, G:0.23, T:0.21
Consensus pattern (12 bp):
TAAGTAAGCAAG
Found at i:14184670 original size:29 final size:29
Alignment explanation
Indices: 14184638--14184703 Score: 96
Period size: 29 Copynumber: 2.3 Consensus size: 29
14184628 AGTGAAAATA
* * *
14184638 TAGAATAGTAAAGCACCGAAGTGTGTATT
1 TAGAACAGGAAAGCACCGAAGTGCGTATT
*
14184667 TAGAACAGGATAGCACCGAAGTGCGTATT
1 TAGAACAGGAAAGCACCGAAGTGCGTATT
14184696 TAGAACAG
1 TAGAACAG
14184704 AGAGCACGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.23
Consensus pattern (29 bp):
TAGAACAGGAAAGCACCGAAGTGCGTATT
Found at i:14188030 original size:45 final size:45
Alignment explanation
Indices: 14187928--14188083 Score: 161
Period size: 45 Copynumber: 3.5 Consensus size: 45
14187918 ACCAGAAACG
* * * * * *
14187928 AGTAAGACAAGAGATGAAGGACGTTATGGCATCATGATTCTATCT
1 AGTAAGACCATAGTTGAAAGACGTTATGGCATCATGATTCAATCA
* *
14187973 AGGAAGACCATAGGTGAAAGACGTTATGGCATCATGATTCAATCA
1 AGTAAGACCATAGTTGAAAGACGTTATGGCATCATGATTCAATCA
* ** * * * *
14188018 AGTAAGAGCATAGTTGAAAGACACTATTGTATCATGAATCAAACGA
1 AGTAAGACCATAGTTGAAAGACGTTATGGCATCATGATTCAATC-A
14188064 A-TAAGACCATAGTTGAAAGA
1 AGTAAGACCATAGTTGAAAGA
14188084 AACAATGACA
Statistics
Matches: 93, Mismatches: 17, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
45 91 0.98
46 2 0.02
ACGTcount: A:0.40, C:0.13, G:0.22, T:0.24
Consensus pattern (45 bp):
AGTAAGACCATAGTTGAAAGACGTTATGGCATCATGATTCAATCA
Found at i:14188397 original size:41 final size:40
Alignment explanation
Indices: 14188306--14188407 Score: 114
Period size: 41 Copynumber: 2.5 Consensus size: 40
14188296 TGATGTTGTG
* * * **
14188306 GTGTATTATATCAGGCTTTATGCCTAGCAAGCTTCGTGTT
1 GTGTATTATATCAGGCTTTGTCCCTAGCAAGCTTCATGCA
*
14188346 GTTGTATTATATCAGGCTTTGTCCCTAGCAGGCTTCATGCCA
1 G-TGTATTATATCAGGCTTTGTCCCTAGCAAGCTTCATG-CA
* *
14188388 GTGTGTTATATTAGGCTTTG
1 GTGTATTATATCAGGCTTTG
14188408 AGCTTAGTAG
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
40 1 0.02
41 50 0.96
42 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.24, T:0.40
Consensus pattern (40 bp):
GTGTATTATATCAGGCTTTGTCCCTAGCAAGCTTCATGCA
Found at i:14197668 original size:45 final size:45
Alignment explanation
Indices: 14197563--14197678 Score: 106
Period size: 45 Copynumber: 2.6 Consensus size: 45
14197553 AAATTATTAG
* * * * *
14197563 GACCATAGCTAAAAGACTCTATGACACTATACCAGAAATAAATAA
1 GACCATAGCTAAAAGACACTATGGCACCATACCAAAAACAAATAA
* * * * * * *
14197608 GAACAAAGTTGAAAGACACTATGGCACCATAGCAAAAACGAGTAA
1 GACCATAGCTAAAAGACACTATGGCACCATACCAAAAACAAATAA
**
14197653 GACCATAGCTAAAAGACGTTATGGCA
1 GACCATAGCTAAAAGACACTATGGCA
14197679 TCACGATTCT
Statistics
Matches: 53, Mismatches: 18, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
45 53 1.00
ACGTcount: A:0.47, C:0.19, G:0.17, T:0.17
Consensus pattern (45 bp):
GACCATAGCTAAAAGACACTATGGCACCATACCAAAAACAAATAA
Found at i:14197701 original size:45 final size:45
Alignment explanation
Indices: 14197649--14197773 Score: 153
Period size: 46 Copynumber: 2.8 Consensus size: 45
14197639 GCAAAAACGA
*
14197649 GTAAGACCATAGCTAAAAGACGTTATGGCATCACGATTCTATC-T
1 GTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCGT
* * * * *
14197693 AGTCAGACCATAGGTGAAAGCCATATATGGCATCATGATTCTATCGT
1 -GTAAGACCATAGCTGAAAGACGT-TATGGCATCACGATTCTATCGT
* *
14197740 GTAAGTCCATAGCTGAAAGACGCTATGGCATCAC
1 GTAAGACCATAGCTGAAAGACGTTATGGCATCAC
14197774 AAATCAAATG
Statistics
Matches: 65, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
45 28 0.43
46 36 0.55
47 1 0.02
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (45 bp):
GTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTCTATCGT
Found at i:14198085 original size:41 final size:41
Alignment explanation
Indices: 14198025--14198164 Score: 167
Period size: 41 Copynumber: 3.4 Consensus size: 41
14198015 CGTGATGTTA
* * *
14198025 TGGTGTATTATATCGGGCTTTATGCCTAGCAAGCTTCGCGC
1 TGGTGTATTATATCAGGCTTTATGCCTAGCAGGCTTCGTGC
*
14198066 TGGTGTATTATATCAGGCTTTATGCCTAGCAGGCTTTGTG-
1 TGGTGTATTATATCAGGCTTTATGCCTAGCAGGCTTCGTGC
* * * *
14198106 TCGGTGTGTTATATTAGGCTTTGA-GCTTAGCAGGCTTCGTAC
1 T-GGTGTATTATATCAGGCTTT-ATGCCTAGCAGGCTTCGTGC
*
14198148 TGGTGTATTGTATCAGG
1 TGGTGTATTATATCAGG
14198165 TAAGTTGTAC
Statistics
Matches: 84, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
40 1 0.01
41 81 0.96
42 2 0.02
ACGTcount: A:0.17, C:0.16, G:0.29, T:0.38
Consensus pattern (41 bp):
TGGTGTATTATATCAGGCTTTATGCCTAGCAGGCTTCGTGC
Found at i:14198555 original size:22 final size:22
Alignment explanation
Indices: 14198530--14198571 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
14198520 GAAATGTTGA
14198530 TATGTTTTATGCCATGTCTTAG
1 TATGTTTTATGCCATGTCTTAG
14198552 TATGTTTTATGCCATGTCTT
1 TATGTTTTATGCCATGTCTT
14198572 GGTTGATGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.17, C:0.14, G:0.17, T:0.52
Consensus pattern (22 bp):
TATGTTTTATGCCATGTCTTAG
Found at i:14202954 original size:7 final size:7
Alignment explanation
Indices: 14202944--14202968 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14202934 ATACATACAT
14202944 AATACTA
1 AATACTA
14202951 AATACTA
1 AATACTA
14202958 AATACTA
1 AATACTA
14202965 AATA
1 AATA
14202969 TCAATCAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:14204209 original size:22 final size:22
Alignment explanation
Indices: 14204184--14204257 Score: 98
Period size: 22 Copynumber: 3.4 Consensus size: 22
14204174 AAATATAGAT
14204184 TTGAGAGAATTTTAGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
*
14204206 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTAGAAGGAAA
*
14204228 TTGAGAGGAA-TTGAG-AGGAAA
1 TTGAGA-GAATTTTAGAAGGAAA
14204249 TATGAGAGA
1 T-TGAGAGA
14204258 GGATTTGTTT
Statistics
Matches: 47, Mismatches: 3, Indels: 5
0.85 0.05 0.09
Matches are distributed among these distances:
21 9 0.19
22 35 0.74
23 3 0.06
ACGTcount: A:0.43, C:0.00, G:0.32, T:0.24
Consensus pattern (22 bp):
TTGAGAGAATTTTAGAAGGAAA
Found at i:14204212 original size:51 final size:51
Alignment explanation
Indices: 14204097--14204212 Score: 205
Period size: 51 Copynumber: 2.3 Consensus size: 51
14204087 TATTTTAAAA
* * *
14204097 AAGGAAATTGAGAAGAAATTGAAATTAAATATGGATTTGAGAGAATTTTTG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTAG
14204148 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTAG
1 AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTAG
14204199 AAGGAAATTGAGAG
1 AAGGAAATTGAGAG
14204213 AATTTTGGAA
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (51 bp):
AAGGAAATTGAGAGGAAATTGAAATTAAATATAGATTTGAGAGAATTTTAG
Found at i:14204256 original size:12 final size:11
Alignment explanation
Indices: 14204200--14204256 Score: 57
Period size: 10 Copynumber: 5.2 Consensus size: 11
14204190 GAATTTTAGA
14204200 AGGAAATTGAG
1 AGGAAATTGAG
*
14204211 A-GAATTTTG-G
1 AGGAA-ATTGAG
14204221 AAGGAAATTGAG
1 -AGGAAATTGAG
14204233 AGG-AATTGAG
1 AGGAAATTGAG
14204243 AGGAAATATGAG
1 AGGAAAT-TGAG
14204255 AG
1 AG
14204257 AGGATTTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 14 0.37
11 14 0.37
12 10 0.26
ACGTcount: A:0.44, C:0.00, G:0.35, T:0.21
Consensus pattern (11 bp):
AGGAAATTGAG
Found at i:14205577 original size:5 final size:5
Alignment explanation
Indices: 14205567--14205604 Score: 76
Period size: 5 Copynumber: 7.6 Consensus size: 5
14205557 AAAACATATA
14205567 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTA
1 TTATT TTATT TTATT TTATT TTATT TTATT TTATT TTA
14205605 GTTATAATAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 33 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTATT
Done.