Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 112 of 173
Found at i:34704830 original size:20 final size:20
Alignment explanation
Indices: 34704789--34704831 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
34704779 TGAAATATCA
* *
34704789 ATACCTTAGGAAATATATCG
1 ATACCTTAAGAAATATACCG
34704809 ATACCTTAAGAAA-AGTACCG
1 ATACCTTAAGAAATA-TACCG
34704829 ATA
1 ATA
34704832 TTGGATCGAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 19 0.95
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (20 bp):
ATACCTTAAGAAATATACCG
Found at i:34711980 original size:23 final size:23
Alignment explanation
Indices: 34711954--34711997 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
34711944 TTTAATAATT
* *
34711954 ATTTTATGTTTATTATGTTTACA
1 ATTTGATGTTTATTATCTTTACA
*
34711977 ATTTGATTTTTATTATCTTTA
1 ATTTGATGTTTATTATCTTTA
34711998 TTTAAATGTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.25, C:0.05, G:0.07, T:0.64
Consensus pattern (23 bp):
ATTTGATGTTTATTATCTTTACA
Found at i:34713927 original size:23 final size:22
Alignment explanation
Indices: 34713900--34713957 Score: 89
Period size: 23 Copynumber: 2.5 Consensus size: 22
34713890 TCTTTCCCAC
*
34713900 CTCCTCCACCATGATCAACCTT
1 CTCCTCCACCATGACCAACCTT
34713922 GCTCCTCCACCATGACCAACCTT
1 -CTCCTCCACCATGACCAACCTT
34713945 CATCCTCCACCAT
1 C-TCCTCCACCAT
34713958 CGCACCACCG
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
22 1 0.03
23 32 0.97
ACGTcount: A:0.22, C:0.48, G:0.05, T:0.24
Consensus pattern (22 bp):
CTCCTCCACCATGACCAACCTT
Found at i:34723645 original size:25 final size:25
Alignment explanation
Indices: 34723589--34723637 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
34723579 ATAATCCATG
** *
34723589 TAAATCATGTATTTCATGTAACTTA
1 TAAATCATGTAAATCATCTAACTTA
34723614 TAAATCATGTAAATCATCTAACTT
1 TAAATCATGTAAATCATCTAACTT
34723638 TTATATCAGT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.39, C:0.14, G:0.06, T:0.41
Consensus pattern (25 bp):
TAAATCATGTAAATCATCTAACTTA
Found at i:34723708 original size:20 final size:20
Alignment explanation
Indices: 34723685--34723743 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 20
34723675 CATCAGTAAT
* *
34723685 AACAGAAATTTATCCGTATC
1 AACAGTAATTTATCCATATC
* *
34723705 AACAGTAACTTATACATATC
1 AACAGTAATTTATCCATATC
*
34723725 AACAGTAATTCATCCATAT
1 AACAGTAATTTATCCATAT
34723744 AACTACATAG
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.42, C:0.20, G:0.07, T:0.31
Consensus pattern (20 bp):
AACAGTAATTTATCCATATC
Found at i:34736592 original size:5 final size:5
Alignment explanation
Indices: 34736582--34736613 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
34736572 GATTTATATC
34736582 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
34736614 ATGCAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTTA
Found at i:34744176 original size:14 final size:14
Alignment explanation
Indices: 34744149--34744189 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
34744139 TATTTGATAA
34744149 ATTAAAAAATTAAAT
1 ATTAAAAAA-TAAAT
34744164 ATTAAAAAATAAAT
1 ATTAAAAAATAAAT
* *
34744178 ACTGAAAAATAA
1 ATTAAAAAATAA
34744190 TTGTTGTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
14 15 0.62
15 9 0.38
ACGTcount: A:0.68, C:0.02, G:0.02, T:0.27
Consensus pattern (14 bp):
ATTAAAAAATAAAT
Found at i:34750576 original size:13 final size:13
Alignment explanation
Indices: 34750553--34750591 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
34750543 CTCAAAATCA
34750553 ATTTTTT-AAAAT
1 ATTTTTTAAAAAT
34750565 ATTTTTTAAAAAT
1 ATTTTTTAAAAAT
* *
34750578 ATTTCTCAAAAAT
1 ATTTTTTAAAAAT
34750591 A
1 A
34750592 ATACTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 7 0.29
13 17 0.71
ACGTcount: A:0.46, C:0.05, G:0.00, T:0.49
Consensus pattern (13 bp):
ATTTTTTAAAAAT
Found at i:34751550 original size:72 final size:72
Alignment explanation
Indices: 34751407--34751554 Score: 174
Period size: 73 Copynumber: 2.0 Consensus size: 72
34751397 GTTTTGATGA
* * * * *
34751407 TTTGAGGAAAAGTAAATGTTTTGGGAGAAAACAAAAGGAAAAATTTTTTGGGAGTTTTGGTGAAG
1 TTTGAGGAAAAGTAAATGTCTTGGGAGAAAACAAAAGGAAAAAGTTTTGGGGAGTTTGGGGGAAG
34751472 TAAAATT
66 TAAAATT
* **
34751479 TTTGAGGGAGAAGTAAATGTCTTGGGA-AAAGTAAAAGGAAAAAAGTTTTGGGGA-TTTGGGGGG
1 TTTGA-GGAAAAGTAAATGTCTTGGGAGAAAACAAAAGG-AAAAAGTTTTGGGGAGTTT-GGGGG
*
34751542 AAGTAAATTT
63 AAGTAAAATT
34751552 TTT
1 TTT
34751555 TGGGAAGGTA
Statistics
Matches: 64, Mismatches: 9, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
72 17 0.27
73 47 0.73
ACGTcount: A:0.38, C:0.01, G:0.30, T:0.31
Consensus pattern (72 bp):
TTTGAGGAAAAGTAAATGTCTTGGGAGAAAACAAAAGGAAAAAGTTTTGGGGAGTTTGGGGGAAG
TAAAATT
Found at i:34763049 original size:43 final size:43
Alignment explanation
Indices: 34762970--34763085 Score: 119
Period size: 43 Copynumber: 2.7 Consensus size: 43
34762960 TGCCAACATC
* * * * * * *
34762970 CCAGATGTGGTCTTACATGTAATCACATATCGATGCCACTGTC
1 CCAGACGTTGTCTTACACGTAAACACATATCAATGCCAATGTA
34763013 CCAGACAG-TGTCTTACACGTAAACACA-AGTCAATGCCAATGTA
1 CCAGAC-GTTGTCTTACACGTAAACACATA-TCAATGCCAATGTA
* *
34763056 CTAGACGTTGTCTTACACGAAAACACATAT
1 CCAGACGTTGTCTTACACGTAAACACATAT
34763086 TGGAGATCTT
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
42 2 0.03
43 56 0.93
44 2 0.03
ACGTcount: A:0.33, C:0.25, G:0.16, T:0.26
Consensus pattern (43 bp):
CCAGACGTTGTCTTACACGTAAACACATATCAATGCCAATGTA
Found at i:34764755 original size:40 final size:40
Alignment explanation
Indices: 34764692--34764822 Score: 183
Period size: 40 Copynumber: 3.3 Consensus size: 40
34764682 ATCGTTAGAT
* *
34764692 CAACCG-AACACACTAGAACGAAGCTCATAAGAGCTAATC
1 CAACCGAAACACACCAGAAAGAAGCTCATAAGAGCTAATC
*
34764731 CAACCGAAACACACCAAAAAGAAGCTCATAAGAGCTAATC
1 CAACCGAAACACACCAGAAAGAAGCTCATAAGAGCTAATC
* * *
34764771 CACCCGAAACACTCCAGACAGAAGCTCATAAGAGCTAATC
1 CAACCGAAACACACCAGAAAGAAGCTCATAAGAGCTAATC
* *
34764811 TAATCGAAACAC
1 CAACCGAAACAC
34764823 GCTAGACAAA
Statistics
Matches: 81, Mismatches: 10, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
39 6 0.07
40 75 0.93
ACGTcount: A:0.45, C:0.29, G:0.14, T:0.12
Consensus pattern (40 bp):
CAACCGAAACACACCAGAAAGAAGCTCATAAGAGCTAATC
Found at i:34769673 original size:24 final size:24
Alignment explanation
Indices: 34769646--34769695 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
34769636 TTTTAATTCG
**
34769646 ATCCTTTATGTTATTTTTTATTTT
1 ATCCTTTATGTTATTTAATATTTT
34769670 ATCCTTTATGTTATTTAATATTTT
1 ATCCTTTATGTTATTTAATATTTT
34769694 AT
1 AT
34769696 GTTTAATTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.22, C:0.08, G:0.04, T:0.66
Consensus pattern (24 bp):
ATCCTTTATGTTATTTAATATTTT
Found at i:34778320 original size:94 final size:94
Alignment explanation
Indices: 34778071--34778441 Score: 395
Period size: 94 Copynumber: 4.0 Consensus size: 94
34778061 AGTGAAACCT
* * ** *
34778071 CAAATCCTATACCTCTGAAGTTGTAGTGGGTCGAATTGAAGCTAAAATAGCGAATCTTATCTGCC
1 CAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAAGCTACCATAGCGAATCTTATCTCCC
* *
34778136 TGAAGTTGCAATGGTGCAAGATGAAGCTA
66 TGAAGTTGCAGTGGAGCAAGATGAAGCTA
* * * * * *
34778165 CAAATCCTATA-CCGTGAAGTTGTAATCGGTCAGATTGAAGCAACCATAGCGACTCTTATCTCCC
1 CAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAAGCTACCATAGCGAATCTTATCTCCC
* * *
34778229 TGGAGTTGTAGTGGAGCGAGATGAAGCTA
66 TGAAGTTGCAGTGGAGCAAGATGAAGCTA
* * *
34778258 CAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTAAAGCTACCATGGTGAATCTTATCTCCC
1 CAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAAGCTACCATAGCGAATCTTATCTCCC
* *
34778323 TGAAGATGCAGTGGAGCAAGATGAAACTA
66 TGAAGTTGCAGTGGAGCAAGATGAAGCTA
* * ** * ** * * * *
34778352 CAAATCCTATATCCCTGAAATTACAGTGGAAT-GGATTGAAACTACAACAGCAAATCTTATCTCC
1 CAAATCCTATACCCCTGAAGTTGTAGTGG-GTCAAATTGAAGCTACCATAGCGAATCTTATCTCC
* * * *
34778416 TTAAAGTTGCAATAGAGCAAGATGAA
65 CTGAAGTTGCAGTGGAGCAAGATGAA
34778442 ACTATAACAC
Statistics
Matches: 226, Mismatches: 49, Indels: 4
0.81 0.18 0.01
Matches are distributed among these distances:
93 77 0.34
94 148 0.65
95 1 0.00
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.26
Consensus pattern (94 bp):
CAAATCCTATACCCCTGAAGTTGTAGTGGGTCAAATTGAAGCTACCATAGCGAATCTTATCTCCC
TGAAGTTGCAGTGGAGCAAGATGAAGCTA
Found at i:34781730 original size:41 final size:41
Alignment explanation
Indices: 34781679--34781805 Score: 155
Period size: 41 Copynumber: 3.1 Consensus size: 41
34781669 AAAAATCTTA
*
34781679 ATATGATACACTGGCATGAAGCCTGCTAGGCGTAAAGCCTG
1 ATATGATACACTGGCATAAAGCCTGCTAGGCGTAAAGCCTG
* * * * *
34781720 TTATGGTACACTGGCATTAAGCTTGCTAGGCGTAAAGACTG
1 ATATGATACACTGGCATAAAGCCTGCTAGGCGTAAAGCCTG
* * * * *
34781761 ATATAATTCACCGACATAAAGCCTGCTAGGCATAAAGCCTG
1 ATATGATACACTGGCATAAAGCCTGCTAGGCGTAAAGCCTG
34781802 ATAT
1 ATAT
34781806 AATTCACCAG
Statistics
Matches: 71, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 71 1.00
ACGTcount: A:0.31, C:0.20, G:0.23, T:0.25
Consensus pattern (41 bp):
ATATGATACACTGGCATAAAGCCTGCTAGGCGTAAAGCCTG
Found at i:34781806 original size:41 final size:41
Alignment explanation
Indices: 34781697--34781838 Score: 142
Period size: 41 Copynumber: 3.5 Consensus size: 41
34781687 CACTGGCATG
* * ** * * * *
34781697 AAGCCTGCTAGGCGTAAAGCCTGTTATGGTACACTGGCATT
1 AAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGACATA
* * *
34781738 AAGCTTGCTAGGCGTAAAGACTGATATAATTCACCGACATA
1 AAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGACATA
*
34781779 AAGCCTGCTAGGCATAAAGCCTGATATAATTCACC-AGCACA
1 AAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGA-CATA
* *
34781820 AAGCGTGATAGGCATAAAG
1 AAGCCTGCTAGGCATAAAG
34781839 TCCGATTATC
Statistics
Matches: 85, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
40 1 0.01
41 84 0.99
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.23
Consensus pattern (41 bp):
AAGCCTGCTAGGCATAAAGCCTGATATAATTCACCGACATA
Found at i:34789595 original size:41 final size:41
Alignment explanation
Indices: 34789495--34789636 Score: 151
Period size: 41 Copynumber: 3.5 Consensus size: 41
34789485 AATATGATAA
** * * * *
34789495 ACCAGCACGAAGCCTGCTAGGCATAAGGCCT-ATTATGGTAC
1 ACCAGCATAAAGCCTGCTAGGCGTAAAGCCTGA-TATAGTTC
* * * *
34789536 ATCGGCATTAAGCTTGCTAGGCGTAAAGCCTGATATAGTTC
1 ACCAGCATAAAGCCTGCTAGGCGTAAAGCCTGATATAGTTC
* *
34789577 ACCAGCATAAAGCCTGCTAGGCGTAGAGCCTGATATAATTC
1 ACCAGCATAAAGCCTGCTAGGCGTAAAGCCTGATATAGTTC
*
34789618 ACTAGCATAAAGCCTGCTA
1 ACCAGCATAAAGCCTGCTA
34789637 AGTATAAAGC
Statistics
Matches: 84, Mismatches: 16, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 83 0.99
42 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (41 bp):
ACCAGCATAAAGCCTGCTAGGCGTAAAGCCTGATATAGTTC
Found at i:34792437 original size:10 final size:10
Alignment explanation
Indices: 34792406--34792455 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
34792396 AAAATTATTA
**
34792406 TTTTAAAAAA
1 TTTTAAAATT
34792416 TTTTAAAA--
1 TTTTAAAATT
34792424 TTTTAAAATT
1 TTTTAAAATT
* *
34792434 TTTTAGATTT
1 TTTTAAAATT
34792444 TTTTAAAATT
1 TTTTAAAATT
34792454 TT
1 TT
34792456 ATATTTTTTT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
8 8 0.24
10 26 0.76
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (10 bp):
TTTTAAAATT
Found at i:34792438 original size:28 final size:28
Alignment explanation
Indices: 34792406--34792465 Score: 66
Period size: 28 Copynumber: 2.1 Consensus size: 28
34792396 AAAATTATTA
34792406 TTTTAAAAAATTTTAAAATTTTAAAATT
1 TTTTAAAAAATTTTAAAATTTTAAAATT
* *** * *
34792434 TTTTAGATTTTTTTAAAATTTTATATTT
1 TTTTAAAAAATTTTAAAATTTTAAAATT
34792462 TTTT
1 TTTT
34792466 TAAATATAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (28 bp):
TTTTAAAAAATTTTAAAATTTTAAAATT
Found at i:34792449 original size:20 final size:19
Alignment explanation
Indices: 34792424--34792469 Score: 65
Period size: 20 Copynumber: 2.4 Consensus size: 19
34792414 AATTTTAAAA
*
34792424 TTTTAAAATTTTTTAGATTT
1 TTTTAAAATTTTATA-ATTT
*
34792444 TTTTAAAATTTTATATTTT
1 TTTTAAAATTTTATAATTT
34792463 TTTTAAA
1 TTTTAAA
34792470 TATAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 10 0.42
20 14 0.58
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (19 bp):
TTTTAAAATTTTATAATTT
Found at i:34792456 original size:18 final size:18
Alignment explanation
Indices: 34792424--34792470 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
34792414 AATTTTAAAA
34792424 TTTTAAAATTTTTTAGATTT
1 TTTTAAAA--TTTTAGATTT
*
34792444 TTTTAAAATTTTATATTT
1 TTTTAAAATTTTAGATTT
*
34792462 TTTTTAAAT
1 TTTTAAAAT
34792471 ATAAATTTTG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 17 0.68
20 8 0.32
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (18 bp):
TTTTAAAATTTTAGATTT
Found at i:34792500 original size:20 final size:20
Alignment explanation
Indices: 34792475--34792528 Score: 74
Period size: 20 Copynumber: 2.7 Consensus size: 20
34792465 TTAAATATAA
34792475 ATTTTGAAATTTTTATAAA-T
1 ATTTTGAAATTTTTA-AAATT
*
34792495 ATTTTGAAATTTTGAAAATT
1 ATTTTGAAATTTTTAAAATT
*
34792515 ATTTTGTAATTTTT
1 ATTTTGAAATTTTT
34792529 GTTTCGAGAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
19 3 0.10
20 27 0.90
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.57
Consensus pattern (20 bp):
ATTTTGAAATTTTTAAAATT
Found at i:34796837 original size:123 final size:123
Alignment explanation
Indices: 34796616--34796951 Score: 323
Period size: 123 Copynumber: 2.6 Consensus size: 123
34796606 AGCTTAACTC
* * * * * * *
34796616 TATGAGGTCTTATAATGTTAGCTGGGAACATAGGTCTGCTAGCTACTTTGGATGTTGTGATCTTA
1 TATGAGATCTTATAATGTCAGCTGAGAACATAAGTCTACTAGCTACTTTGGAGGTTGCGATCTTA
** *
34796681 AGTCGGCAAACCTTCATGACATCAATTGAGAGCGTAAG-TCTGCTAGCTGTGTTGGAGA
66 AACCGGCAAACCTTCATGACATCAATTGAGAGCGTAAGTTC-GCTAGCTGTGCTGGAGA
* *
34796739 TATGAGATCTTATAATGTCAGTTGAGAACATAAGTCTACTAGCTGCTTTGGAGGTTGCGATCTTA
1 TATGAGATCTTATAATGTCAGCTGAGAACATAAGTCTACTAGCTACTTTGGAGGTTGCGATCTTA
* * * * *
34796804 AACCGGCCAACCTTTATGACATCAGTTGGGAGCGTAGGTTCGCTAGCTGTGCTGGAGCGGCGAGT
66 AACCGGCAAACCTTCATGACATCAATTGAGAGCGTAAGTTCGCTAGCTGTGCT------G-GAG-
34796869 TTAA
123 ---A
* * * * * *
34796873 CTCAGTGAGCTCTTATAATGTCAGCTGGGAACTTAGGTCTGCTAGCTACTTTGGAGGTTGCAATC
1 -T-A-TGAGATCTTATAATGTCAGCTGAGAACATAAGTCTACTAGCTACTTTGGAGGTTGCGATC
34796938 TTAAACCGGCAAAC
63 TTAAACCGGCAAAC
34796952 ATTTAGATTA
Statistics
Matches: 172, Mismatches: 26, Indels: 16
0.80 0.12 0.07
Matches are distributed among these distances:
123 98 0.57
124 2 0.01
129 1 0.01
130 3 0.02
134 1 0.01
135 1 0.01
136 1 0.01
137 65 0.38
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (123 bp):
TATGAGATCTTATAATGTCAGCTGAGAACATAAGTCTACTAGCTACTTTGGAGGTTGCGATCTTA
AACCGGCAAACCTTCATGACATCAATTGAGAGCGTAAGTTCGCTAGCTGTGCTGGAGA
Found at i:34799390 original size:20 final size:20
Alignment explanation
Indices: 34799357--34799400 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
34799347 TAAAGAAAGT
* *
34799357 AAATGCAATAGAAAGTAATA
1 AAATGCAATAGAAAATAAGA
34799377 AAATGCAA-ATGAAAATAAGA
1 AAATGCAATA-GAAAATAAGA
34799397 AAAT
1 AAAT
34799401 TTTAAAGGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.64, C:0.05, G:0.14, T:0.18
Consensus pattern (20 bp):
AAATGCAATAGAAAATAAGA
Found at i:34808375 original size:16 final size:15
Alignment explanation
Indices: 34808348--34808380 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 15
34808338 TTAAATATTT
34808348 TTATTATTCTTGTTA
1 TTATTATTCTTGTTA
34808363 TTATTATTTCTTGTTA
1 TTATTA-TTCTTGTTA
34808379 TT
1 TT
34808381 GTATTCACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.18, C:0.06, G:0.06, T:0.70
Consensus pattern (15 bp):
TTATTATTCTTGTTA
Found at i:34815185 original size:44 final size:44
Alignment explanation
Indices: 34815137--34815374 Score: 126
Period size: 44 Copynumber: 5.1 Consensus size: 44
34815127 GAGCAAGATA
34815137 AAGCTAGAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTG
1 AAGCTAGAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTG
* ** ** * * * *
34815181 AAGCTACAATAATAAATATTATCTCTTTGAAGTTTTAATGGAGTAACA-TG
1 AAGCTA-GA-AAT-CCTA-TA-C-CCCTGAAGTTGTAGTGG-GTCAGATTG
* * *
34815231 AAGCTACAAATCTTATACCTCTGAAGTTGTAGTGGGTCAGATTG
1 AAGCTAGAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTG
* * *
34815275 AAGCTACCATAGCGAAT-CT-TACCTCCCTGAAGTTGCAGTGGAGTAAGA-TG
1 AAG----C-TAG-AAATCCTATA-C-CCCTGAAGTTGTAGTGG-GTCAGATTG
* * *
34815325 AAG-TCATAAATCCTGTACCCCTGAAGTTGCAGTGGGTCAGATTG
1 AAGCT-AGAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTG
34815369 AAGCTA
1 AAGCTA
34815375 CCATAGTGAA
Statistics
Matches: 146, Mismatches: 26, Indels: 44
0.68 0.12 0.20
Matches are distributed among these distances:
43 9 0.06
44 52 0.36
45 7 0.05
46 7 0.05
47 4 0.03
48 8 0.05
49 6 0.04
50 44 0.30
51 9 0.06
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.29
Consensus pattern (44 bp):
AAGCTAGAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTG
Found at i:34815212 original size:94 final size:94
Alignment explanation
Indices: 34815048--34816542 Score: 1528
Period size: 94 Copynumber: 16.0 Consensus size: 94
34815038 CAATGAAATA
* ** * *
34815048 ACAAATCCTATACCCTTGAAGTTGCAGTATGTCGGATTGAAGCTACCATAGCAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * *
34815113 CTGAAGCTACAGTGGAGCAAGATAAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * *** * *
34815142 AGAAATCCTATACCCCTGAAGTTGTAGTGGGTCAGATTGAAGCTACAATAATAAATATTATCTCT
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* ** * * *
34815207 TTGAAGTTTTAATGGAGTAACATGAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * *
34815236 ACAAATCTTATACCTCTGAAGTTGTAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTACCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
*
34815301 CTGAAGTTGCAGTGGAGTAAGATGAAG-T
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * *
34815329 CATAAATCCTGTACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGTGAATCTTATCTC
1 -ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTC
* * * *
34815394 CCTAAATTTGTAGTGGAGCAAGATGAAGAT
65 CCTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * *
34815424 ACAAATCTTATACCCCTAAAGTTACAGTGGGTCAAATTAAAGCTACCATAGCGAATCCTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
*
34815489 CTGAAGTTGCAGTGGAGTAAGATGAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * *
34815518 ACAAATCATATACCCTTGAAGATGCAATGGGTC-G---GAA--TACCATAGCGAATC-TATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * *
34815576 CTAAAGTTGTAGTGGAGCAAGATAAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * ** * *
34815605 ACAAATCATATACCCTTGAAGTTGCAGCAGGTCAGATTGAAGCTACCA-A-CTAAATTTTATCTC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGC-GAATCTTATCTC
* * *
34815668 CTTGAAGTTGCAGTGGAGAAAGATGGAGCT
65 CCTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * *
34815698 ACAAATCTTGTACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACAATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* *
34815763 CTGAAGTTGAAGTGAAGCAAGATGAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * *
34815792 ACAAATCTTATACCTCTGAAGTTACAGTAGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * * *
34815857 CTGACGTTACAGTAGAGTAAGATGAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * *
34815886 ATAAATCCTATACCCCTGGAGTTGCAGT-GGTCGGAATGAAGCTACCATAGCAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* *
34815950 CTAAAGTTACAGTGGAGCAA-AGTGAAGCT
66 CTGAAGTTGCAGTGGAGCAAGA-TGAAGCT
* * * *
34815979 ACAAATCCTATACCCCTGAAGTTACAATGGGTCAGAATGAAGCTACCATAGCAAATCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * *
34816044 TTGAAGTTGTAGTGGAGTAAGATGAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * *** *
34816073 ACAAATCATATACCCCTGAAGTTGCAGTAGGTTTTATTGAAGCTACCATAGCGAACCTTATCTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* * ** * * * *
34816138 CTAAAATTATAGTGAAACAAAATAAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * * * *
34816167 ACAAATTCTATGCCCCTGAAGATGAAATAGGTC-GAAATGAAGCTACCATAGCAAATCTTATCTC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAG-ATTGAAGCTACCATAGCGAATCTTATCTC
* *
34816231 CTTGAAGTTGCAATGGAGCAAGATGAAGCT
65 CCTGAAGTTGCAGTGGAGCAAGATGAAGCT
** * * * * * * *
34816261 ACAAATCCTATGTCCCTGAGGATGCAGTAGG-CTAGAATAAAGTTACCATAGCGAATCTTATCTT
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTC-AGATTGAAGCTACCATAGCGAATCTTATCTC
* * *
34816325 CCTGAAGTTGTAGTGGAGCAAGATAAAGTT
65 CCTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * * * *
34816355 AGAAATCCTATACCCCTGAAGATGCAGTGTGTCATAATGAAACTACAATAGCGAATCTTATTTCC
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
* *
34816420 CTAAAGTTGCAGTGGAGCAAGACGAAGCT
66 CTGAAGTTGCAGTGGAGCAAGATGAAGCT
* * * * * * * * * *
34816449 ATAAATCCTATACCCTTGAAGTTACAGTGGGT-TGAAATGAAACTACAACAACAAATCTTATCT-
1 ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAG-ATTGAAGCTACCATAGCGAATCTTATCTC
* * * *
34816512 CTTTATGTTGCAATGGAGCAAGATGAAGCT
65 CCTGAAGTTGCAGTGGAGCAAGATGAAGCT
34816542 A
1 A
34816543 TGATACTAAA
Statistics
Matches: 1164, Mismatches: 217, Indels: 41
0.82 0.15 0.03
Matches are distributed among these distances:
87 61 0.05
88 15 0.01
90 2 0.00
91 4 0.00
92 5 0.00
93 185 0.16
94 887 0.76
95 5 0.00
ACGTcount: A:0.34, C:0.19, G:0.20, T:0.27
Consensus pattern (94 bp):
ACAAATCCTATACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACCATAGCGAATCTTATCTCC
CTGAAGTTGCAGTGGAGCAAGATGAAGCT
Found at i:34815649 original size:44 final size:44
Alignment explanation
Indices: 34815600--34816118 Score: 151
Period size: 44 Copynumber: 11.2 Consensus size: 44
34815590 GAGCAAGATA
*
34815600 AAGCTACAAATCATATACCCTTGAAGTTGCAGCAGGTCAGATTG
1 AAGCTACAAATCATATACCCTTGAAGTTGCAGTAGGTCAGATTG
* * * * **
34815644 AAGCTACCAACTAAATTTTATCTCCTTGAAGTTGCAGTGGAGAAAGA-TG
1 AAGCTA-CAAAT-CA-TATA-C-CCTTGAAGTTGCAGTAG-GTCAGATTG
* * * * *
34815693 GAGCTACAAATCTTGTACCCCTGAAGTTGCAGTGGGTCAGATTG
1 AAGCTACAAATCATATACCCTTGAAGTTGCAGTAGGTCAGATTG
* * * * *
34815737 AAGCTACAATAGCGAATCTTATCTCCCTGAAGTTGAAGTGAAG-CAAGA-TG
1 AAGCTACAA-ATC--AT-ATA-C-CCTTGAAGTTGCAGT-AGGTC-AGATTG
* *
34815787 AAGCTACAAATCTTATA-CCTCTGAAGTTACAGTAGGTCAGATTG
1 AAGCTACAAATCATATACCCT-TGAAGTTGCAGTAGGTCAGATTG
* * * * *
34815831 AAGCTACCATAGCGAATCTTAT-CTCCCTGACGTTACAGTAGAGTAAGA-TG
1 AAGCTA-C--A---AATCATATAC-CCTTGAAGTTGCAGTAG-GTCAGATTG
* * * * * *
34815881 AAGCTATAAATCCTATACCCCTGGAGTTGCAGT-GGTCGGAATG
1 AAGCTACAAATCATATACCCTTGAAGTTGCAGTAGGTCAGATTG
* * * * * * *
34815924 AAGCTACCATAGCAAATCTTAT-CTCCCTAAAGTTACAGT-GGAGCAAAGTG
1 AAG----C-TA-CAAATCATATAC-CCTTGAAGTTGCAGTAGG-TCAGATTG
* * * * * *
34815974 AAGCTACAAATCCTATACCCCTGAAGTTACAATGGGTCAGAATG
1 AAGCTACAAATCATATACCCTTGAAGTTGCAGTAGGTCAGATTG
* * * *
34816018 AAGCTACCATAGCAAATCTTAT-CTCCTTGAAGTTGTAGTGGAGTAAGA-TG
1 AAG----C-TA-CAAATCATATAC-CCTTGAAGTTGCAGTAG-GTCAGATTG
* ***
34816068 AAGCTACAAATCATATACCCCTGAAGTTGCAGTAGGTTTTATTG
1 AAGCTACAAATCATATACCCTTGAAGTTGCAGTAGGTCAGATTG
34816112 AAGCTAC
1 AAGCTAC
34816119 CATAGCGAAC
Statistics
Matches: 359, Mismatches: 67, Indels: 98
0.69 0.13 0.19
Matches are distributed among these distances:
42 4 0.01
43 20 0.06
44 132 0.37
45 17 0.05
46 8 0.02
47 8 0.02
48 11 0.03
49 50 0.14
50 93 0.26
51 16 0.04
ACGTcount: A:0.33, C:0.20, G:0.21, T:0.27
Consensus pattern (44 bp):
AAGCTACAAATCATATACCCTTGAAGTTGCAGTAGGTCAGATTG
Found at i:34821614 original size:12 final size:12
Alignment explanation
Indices: 34821597--34821624 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
34821587 TGGTATATGA
34821597 TAATCTGATTTT
1 TAATCTGATTTT
34821609 TAATCTGATTTT
1 TAATCTGATTTT
34821621 TAAT
1 TAAT
34821625 GTCTTCATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.29, C:0.07, G:0.07, T:0.57
Consensus pattern (12 bp):
TAATCTGATTTT
Found at i:34823331 original size:21 final size:21
Alignment explanation
Indices: 34823302--34823345 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
34823292 AAAATTATTT
* *
34823302 AAAAGATTTTAGATTTATTGA
1 AAAAGATTTAAAATTTATTGA
*
34823323 AAAATATTTAAAATTTATTGA
1 AAAAGATTTAAAATTTATTGA
34823344 AA
1 AA
34823346 TCAACATTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (21 bp):
AAAAGATTTAAAATTTATTGA
Found at i:34823634 original size:2 final size:2
Alignment explanation
Indices: 34823622--34823658 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
34823612 AGTAATATGC
*
34823622 AT AT AT GT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34823659 GATTTGAATT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (2 bp):
AT
Found at i:34823774 original size:31 final size:30
Alignment explanation
Indices: 34823727--34823784 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 30
34823717 TTTTTAAAAA
34823727 AATAATTATTAATAATTT-CTTATAATTCTC
1 AATAATTATTAATAATTTGC-TATAATTCTC
*
34823757 AATAATTTTTAAATAATTTGCTATAATT
1 AATAATTATT-AATAATTTGCTATAATT
34823785 TTTTTTATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
30 9 0.36
31 15 0.60
32 1 0.04
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (30 bp):
AATAATTATTAATAATTTGCTATAATTCTC
Found at i:34825693 original size:17 final size:18
Alignment explanation
Indices: 34825660--34825693 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
34825650 TATTAACACT
*
34825660 TAAAATAATATTATATAG
1 TAAAATAATAGTATATAG
34825678 TAAAATAAT-GTATATA
1 TAAAATAATAGTATATA
34825694 CAAAAAATGT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.56, C:0.00, G:0.06, T:0.38
Consensus pattern (18 bp):
TAAAATAATAGTATATAG
Found at i:34831247 original size:12 final size:12
Alignment explanation
Indices: 34831232--34831257 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
34831222 TCTTTCTTCT
34831232 TCTTCCTCTTTC
1 TCTTCCTCTTTC
34831244 TCTTCCTCTTTC
1 TCTTCCTCTTTC
34831256 TC
1 TC
34831258 CTTTTTTTCC
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:0.00, C:0.42, G:0.00, T:0.58
Consensus pattern (12 bp):
TCTTCCTCTTTC
Found at i:34831253 original size:18 final size:17
Alignment explanation
Indices: 34831224--34831277 Score: 63
Period size: 18 Copynumber: 3.1 Consensus size: 17
34831214 GGGGTTCTTC
*
34831224 TTTCTTCTTCTTCCTCT
1 TTTCTTCCTCTTCCTCT
*
34831241 TTCTCTTCCTCTTTCTCCT
1 TT-TCTTCCTCTTCCT-CT
*
34831260 TTTTTTCCTCTTCCTCT
1 TTTCTTCCTCTTCCTCT
34831277 T
1 T
34831278 CCTTAAGTGG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
17 5 0.16
18 22 0.71
19 4 0.13
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (17 bp):
TTTCTTCCTCTTCCTCT
Found at i:34832173 original size:26 final size:27
Alignment explanation
Indices: 34832100--34832206 Score: 117
Period size: 27 Copynumber: 4.0 Consensus size: 27
34832090 CGACAACAAG
* **
34832100 GAATAGCCTTTATGGTGAACTCTAAAA
1 GAATAGCCTTTGTGGCAAACTCTAAAA
* * *
34832127 GAACAGCCTTTGTGGCGAACTATAAAA
1 GAATAGCCTTTGTGGCAAACTCTAAAA
* *
34832154 GAATA-CATTTGTGGCAAACTCTGAAA
1 GAATAGCCTTTGTGGCAAACTCTAAAA
* *
34832180 GAATAGCCTTTATGGCAAATTCTAAAA
1 GAATAGCCTTTGTGGCAAACTCTAAAA
34832207 AGATCGCTTA
Statistics
Matches: 66, Mismatches: 13, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
26 22 0.33
27 44 0.67
ACGTcount: A:0.38, C:0.16, G:0.19, T:0.27
Consensus pattern (27 bp):
GAATAGCCTTTGTGGCAAACTCTAAAA
Found at i:34835224 original size:11 final size:11
Alignment explanation
Indices: 34835208--34835232 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
34835198 TTTATGTTTG
34835208 TTTAATTGAAT
1 TTTAATTGAAT
34835219 TTTAATTGAAT
1 TTTAATTGAAT
34835230 TTT
1 TTT
34835233 GATATCCAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (11 bp):
TTTAATTGAAT
Found at i:34847281 original size:21 final size:21
Alignment explanation
Indices: 34847257--34847296 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
34847247 CAAGTTTCAT
*
34847257 CATCAACATCCTCATCGCTCA
1 CATCAACATCATCATCGCTCA
**
34847278 CATCATTATCATCATCGCT
1 CATCAACATCATCATCGCT
34847297 GTTATCTCGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.28, C:0.38, G:0.05, T:0.30
Consensus pattern (21 bp):
CATCAACATCATCATCGCTCA
Found at i:34848686 original size:70 final size:71
Alignment explanation
Indices: 34848604--34848751 Score: 253
Period size: 70 Copynumber: 2.1 Consensus size: 71
34848594 AAAAATATAT
* *
34848604 ACAATATTAAAATAAAAATTTAATTACATTGCGATTAAAAAGAAATTTAAA-ACATAAATACATC
1 ACAATATAAAAATAAAAATTTAATTACATTGCGAGTAAAAAGAAATTTAAACACATAAATACATC
34848668 ACATTA
66 ACATTA
* *
34848674 ACAATATAAAAATAAAAATTTAATTACATTGCGAGTAAAAAGAAATTTAAACATATAAATGCATC
1 ACAATATAAAAATAAAAATTTAATTACATTGCGAGTAAAAAGAAATTTAAACACATAAATACATC
34848739 ACATTA
66 ACATTA
34848745 ACAATAT
1 ACAATAT
34848752 TAAATGCACT
Statistics
Matches: 73, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
70 49 0.67
71 24 0.33
ACGTcount: A:0.55, C:0.10, G:0.05, T:0.29
Consensus pattern (71 bp):
ACAATATAAAAATAAAAATTTAATTACATTGCGAGTAAAAAGAAATTTAAACACATAAATACATC
ACATTA
Found at i:34849199 original size:17 final size:18
Alignment explanation
Indices: 34849167--34849201 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
34849157 AATAAAATGC
34849167 GTATAATAAAATTAAAAT
1 GTATAATAAAATTAAAAT
*
34849185 GTATAA-AACATTAAAAT
1 GTATAATAAAATTAAAAT
34849202 AAAATTTTGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.60, C:0.03, G:0.06, T:0.31
Consensus pattern (18 bp):
GTATAATAAAATTAAAAT
Found at i:34851155 original size:23 final size:23
Alignment explanation
Indices: 34851129--34851179 Score: 93
Period size: 23 Copynumber: 2.2 Consensus size: 23
34851119 GTACTAGAAT
34851129 TTATGAGTAGATAAATTTAATTG
1 TTATGAGTAGATAAATTTAATTG
*
34851152 TTATTAGTAGATAAATTTAATTG
1 TTATGAGTAGATAAATTTAATTG
34851175 TTATG
1 TTATG
34851180 CTCTATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.37, C:0.00, G:0.16, T:0.47
Consensus pattern (23 bp):
TTATGAGTAGATAAATTTAATTG
Found at i:34852983 original size:31 final size:31
Alignment explanation
Indices: 34852948--34853017 Score: 113
Period size: 31 Copynumber: 2.3 Consensus size: 31
34852938 AGTTAGTCCT
* *
34852948 TAAACTTGACAATTGTTCCCACATTGAGGCC
1 TAAACTTGACAATTGCTCCCAAATTGAGGCC
*
34852979 TAAACTTGACAATTGCTCCCAAATTGGGGCC
1 TAAACTTGACAATTGCTCCCAAATTGAGGCC
34853010 TAAACTTG
1 TAAACTTG
34853018 GAAATATTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (31 bp):
TAAACTTGACAATTGCTCCCAAATTGAGGCC
Found at i:34864017 original size:20 final size:18
Alignment explanation
Indices: 34863970--34864018 Score: 55
Period size: 20 Copynumber: 2.7 Consensus size: 18
34863960 GCAGATAAAC
34863970 ATTAAATTAA-ATTTAAT
1 ATTAAATTAATATTTAAT
**
34863987 ATTAAGGTAATCACTTTAAT
1 ATTAAATTAAT-A-TTTAAT
34864007 ATTAAATTAATA
1 ATTAAATTAATA
34864019 AAATACTATT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
17 8 0.32
19 2 0.08
20 15 0.60
ACGTcount: A:0.49, C:0.04, G:0.04, T:0.43
Consensus pattern (18 bp):
ATTAAATTAATATTTAAT
Found at i:34865707 original size:16 final size:16
Alignment explanation
Indices: 34865686--34865719 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
34865676 CTATACATGC
* *
34865686 AAAATATAAAACACAT
1 AAAATAAAAAAAACAT
34865702 AAAATAAAAAAAACAT
1 AAAATAAAAAAAACAT
34865718 AA
1 AA
34865720 TAGTGAAATG
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:0.76, C:0.09, G:0.00, T:0.15
Consensus pattern (16 bp):
AAAATAAAAAAAACAT
Found at i:34867624 original size:3 final size:3
Alignment explanation
Indices: 34867616--34867648 Score: 57
Period size: 3 Copynumber: 11.0 Consensus size: 3
34867606 TTGAACTTCT
*
34867616 TAA TAA TAA TAA TAA TAA TAA TAT TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
34867649 ATAAGCAAGA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:34867697 original size:13 final size:13
Alignment explanation
Indices: 34867679--34867703 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34867669 TATCACTTGA
34867679 ACTTACATAGAAG
1 ACTTACATAGAAG
34867692 ACTTACATAGAA
1 ACTTACATAGAA
34867704 AAGAAGATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.12, T:0.24
Consensus pattern (13 bp):
ACTTACATAGAAG
Found at i:34868523 original size:31 final size:31
Alignment explanation
Indices: 34868485--34868585 Score: 166
Period size: 31 Copynumber: 3.3 Consensus size: 31
34868475 AGTTAGCCCT
* * *
34868485 TAAACTTGAGAATTGTTCCCACATTGAGGCC
1 TAAACTTGACAATTGCTCCCAAATTGAGGCC
*
34868516 TGAACTTGACAATTGCTCCCAAATTGAGGCC
1 TAAACTTGACAATTGCTCCCAAATTGAGGCC
34868547 TAAACTTGACAATTGCTCCCAAATTGAGGCC
1 TAAACTTGACAATTGCTCCCAAATTGAGGCC
34868578 TAAACTTG
1 TAAACTTG
34868586 GAAATATCAA
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 65 1.00
ACGTcount: A:0.31, C:0.24, G:0.18, T:0.28
Consensus pattern (31 bp):
TAAACTTGACAATTGCTCCCAAATTGAGGCC
Found at i:34868957 original size:3 final size:3
Alignment explanation
Indices: 34868949--34868975 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
34868939 TTGAACTTCT
34868949 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
34868976 GCAAGAATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:34871795 original size:12 final size:12
Alignment explanation
Indices: 34871775--34871804 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
34871765 TATGGTTAAT
*
34871775 TTCTTTAGCAGC
1 TTCTGTAGCAGC
34871787 TTCTGTAGCAGC
1 TTCTGTAGCAGC
34871799 TTCTGT
1 TTCTGT
34871805 TGTTTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.43
Consensus pattern (12 bp):
TTCTGTAGCAGC
Found at i:34872451 original size:91 final size:91
Alignment explanation
Indices: 34872319--34872526 Score: 283
Period size: 91 Copynumber: 2.3 Consensus size: 91
34872309 TTGATTTTAG
* *
34872319 TAAATTCATATAAGAACATTTTATTATTAACAATTTCATGAAATTATATATCATTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAACAATTTCATGAAATTATATATCATTATTAAATTAT
* *
34872384 ATTTAA-TATTAATTATTTTAAATTGTA
65 ATGTAATTATT-ATTATTTTAAATTATA
* * * *
34872411 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTTTATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCATTATTAAATTATA
34872476 TGTAATTATTATTATTTTAAATTATA
66 TGTAATTATTATTATTTTAAATTATA
* * * *
34872502 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
34872527 GTTATAATTA
Statistics
Matches: 103, Mismatches: 12, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
91 83 0.81
92 20 0.19
ACGTcount: A:0.45, C:0.04, G:0.03, T:0.48
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAACAATTTCATGAAATTATATATCATTATTAAATTATA
TGTAATTATTATTATTTTAAATTATA
Found at i:34872571 original size:18 final size:17
Alignment explanation
Indices: 34872556--34872587 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
34872546 TTATTAAATC
34872556 ATATATTTAA-ATTAAA
1 ATATATTTAATATTAAA
34872572 ATATATTTAATATTAA
1 ATATATTTAATATTAA
34872588 TTATTTAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATATTTAATATTAAA
Found at i:34872575 original size:16 final size:14
Alignment explanation
Indices: 34872556--34872598 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 14
34872546 TTATTAAATC
34872556 ATATATTTAAATTAAA
1 ATATATTTAAATT--A
34872572 ATATATTTAATATTA
1 ATATATTTAA-ATTA
34872587 AT-TATTTAAATT
1 ATATATTTAAATT
34872599 TTATTTTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.12
14 7 0.27
15 3 0.12
16 10 0.38
17 3 0.12
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (14 bp):
ATATATTTAAATTA
Found at i:34872681 original size:61 final size:61
Alignment explanation
Indices: 34872614--34872801 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
34872604 TTATAGTATC
34872614 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * * *
34872675 ATATATTTTAATTAT-ATTATATTTA-ATAATAATTATGTTATT-TT-A-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TAATTATTAAGAATTTTATTA-AATT
*
34872734 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
34872795 ATATATT
1 ATATATT
34872802 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 30 0.32
60 14 0.15
61 38 0.40
62 6 0.06
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:34872693 original size:18 final size:17
Alignment explanation
Indices: 34872662--34872696 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34872652 ATTATTAAGA
34872662 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
34872679 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
34872697 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:34872768 original size:120 final size:120
Alignment explanation
Indices: 34872542--34872838 Score: 490
Period size: 120 Copynumber: 2.5 Consensus size: 120
34872532 AATTATTTTA
* * *
34872542 AATTTTATTAAATCATATATTTAAATTAAAATATATTTAATATTAATTAT-TTAAATTTTATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTTTATTTT
*
34872606 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
34872661 AATTTTATTAAATTATATATTTTAATTATATTATATTTAATAATAATTATGTT-ATTTTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTT-TATTT
*
34872725 TACAGTATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
34872781 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
34872839 ATGATTAAAT
Statistics
Matches: 163, Mismatches: 11, Indels: 5
0.91 0.06 0.03
Matches are distributed among these distances:
119 49 0.30
120 110 0.67
121 2 0.01
122 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTTTATTTT
ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:34872810 original size:18 final size:17
Alignment explanation
Indices: 34872782--34872816 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34872772 ATTATTAAGA
*
34872782 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34872799 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34872817 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34872930 original size:147 final size:149
Alignment explanation
Indices: 34872770--34873044 Score: 509
Period size: 147 Copynumber: 1.9 Consensus size: 149
34872760 ATAAGAATAT
*
34872770 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
34872835 AAATATGATTAAATTATTTATTATTGAT-ATTAATAATCTTATTAAAATTTAAATAA-AATAATT
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
34872898 TACCAAAACAAATTTCTGC
131 TACCAAAACAAATTTCTGC
34872917 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
34872982 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
34873045 CAATAATCAT
Statistics
Matches: 123, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
147 91 0.74
148 27 0.22
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (149 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAAATAATCTTATTAAAATTTAAATAACAATAATT
TACCAAAACAAATTTCTGC
Found at i:34872957 original size:18 final size:17
Alignment explanation
Indices: 34872929--34872963 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34872919 ATTATTAAGA
*
34872929 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34872946 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34872964 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34873174 original size:44 final size:45
Alignment explanation
Indices: 34873125--34873219 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
34873115 TTACACCTCT
* *
34873125 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
34873169 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
34873214 ATTACA
1 ATTACA
34873220 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:34873219 original size:16 final size:16
Alignment explanation
Indices: 34873200--34873251 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
34873190 GATTTGCTAT
* *
34873200 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
34873216 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34873232 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34873248 TACA
1 TACA
34873252 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:34874139 original size:24 final size:26
Alignment explanation
Indices: 34874078--34874139 Score: 67
Period size: 27 Copynumber: 2.4 Consensus size: 26
34874068 TATCTTTACA
*
34874078 TATTTTTAATAATTTGATTATTACTT
1 TATTTTTAATAATTTAATTATTACTT
*
34874104 TAGTTTTGAATAA-TTAATTA-TA-TT
1 TA-TTTTTAATAATTTAATTATTACTT
34874128 TATTTTATAATA
1 TATTTT-TAATA
34874140 TAAAATAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
23 4 0.13
24 8 0.26
25 2 0.06
26 8 0.26
27 9 0.29
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (26 bp):
TATTTTTAATAATTTAATTATTACTT
Found at i:34875018 original size:18 final size:18
Alignment explanation
Indices: 34874997--34875036 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
34874987 GGTTTTTTAA
*
34874997 TTTTGTTAGGTTTAGGGT
1 TTTTGTTAGGGTTAGGGT
34875015 TTTTGTTAGGGTTAGGGT
1 TTTTGTTAGGGTTAGGGT
34875033 TTTT
1 TTTT
34875037 AAGGGTTTAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.10, C:0.00, G:0.33, T:0.57
Consensus pattern (18 bp):
TTTTGTTAGGGTTAGGGT
Found at i:34877169 original size:10 final size:10
Alignment explanation
Indices: 34877149--34877179 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
34877139 AAATTCGAAT
34877149 ATATATAAAAA
1 ATAT-TAAAAA
34877160 ATATTAAAAA
1 ATATTAAAAA
34877170 ATATTAAAAA
1 ATATTAAAAA
34877180 TGGATTTTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 16 0.80
11 4 0.20
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (10 bp):
ATATTAAAAA
Found at i:34881832 original size:73 final size:74
Alignment explanation
Indices: 34881708--34881858 Score: 216
Period size: 73 Copynumber: 2.1 Consensus size: 74
34881698 AAGAATGATT
* * * *
34881708 ACACACGGCCAGGATACAAGGCCGTGCCTTAGGCCATGTGAGTCCTGGAGCTTAA-TTTTTAAGA
1 ACACACGGCAAGGACACAAGGCAGTGCCTTAGGCCATGTGAGTCCTAGAGCTTAATTTTTTAAGA
34881772 TTTTGAAAG
66 TTTTGAAAG
* * *
34881781 ACACACGGCAAGGACACAAGGGAGTGTCC-TAGTCTATGTGAGTCCTAGAGCTTAATTTTTTAAG
1 ACACACGGCAAGGACACAAGGCAGTG-CCTTAGGCCATGTGAGTCCTAGAGCTTAATTTTTTAAG
34881845 ATTTTGAAAG
65 ATTTTGAAAG
34881855 ACAC
1 ACAC
34881859 GAGGGCTGGG
Statistics
Matches: 69, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
73 45 0.65
74 24 0.35
ACGTcount: A:0.30, C:0.19, G:0.25, T:0.26
Consensus pattern (74 bp):
ACACACGGCAAGGACACAAGGCAGTGCCTTAGGCCATGTGAGTCCTAGAGCTTAATTTTTTAAGA
TTTTGAAAG
Found at i:34889357 original size:12 final size:12
Alignment explanation
Indices: 34889340--34889373 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
34889330 TGGCTTACCC
34889340 ATATTAATTTTT
1 ATATTAATTTTT
*
34889352 ATATTATTTTTT
1 ATATTAATTTTT
34889364 ATA-TAATTTT
1 ATATTAATTTT
34889374 AAAAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
11 6 0.30
12 14 0.70
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:34889533 original size:30 final size:30
Alignment explanation
Indices: 34889499--34889561 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
34889489 ACTTAACAAG
*
34889499 CAAATGTCTCTAAAATAATAATAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
*
34889529 CAAATGTCTTTAAAATAATAACAAAATTAA
1 CAAATGTCTCTAAAATAATAACAAAATTAA
34889559 CAA
1 CAA
34889562 TAAAATAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (30 bp):
CAAATGTCTCTAAAATAATAACAAAATTAA
Found at i:34902977 original size:49 final size:50
Alignment explanation
Indices: 34902883--34902992 Score: 116
Period size: 49 Copynumber: 2.2 Consensus size: 50
34902873 TCAACTAGAA
* *
34902883 AATTTGATTAAAGAATTTTCTTGAAAAATTAATTTAGAAAATCT-AAGTG
1 AATTTGATTAAAGAATTTTCTTCAAAAATTAACTTAGAAAATCTAAAGTG
* * *** *
34902932 AATTTGATTAAAGAATTTTTTTTCAAAAA-TCACTTAGATTTTCTAAATTG
1 AATTTGATTAAAGAA-TTTTCTTCAAAAATTAACTTAGAAAATCTAAAGTG
*
34902982 ATTTTGATTAA
1 AATTTGATTAA
34902993 CTAAATTAAA
Statistics
Matches: 50, Mismatches: 9, Indels: 3
0.81 0.15 0.05
Matches are distributed among these distances:
49 25 0.50
50 25 0.50
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (50 bp):
AATTTGATTAAAGAATTTTCTTCAAAAATTAACTTAGAAAATCTAAAGTG
Found at i:34903030 original size:13 final size:14
Alignment explanation
Indices: 34902995--34903028 Score: 61
Period size: 13 Copynumber: 2.5 Consensus size: 14
34902985 TTGATTAACT
34902995 AAATTAAATTCATC
1 AAATTAAATTCATC
34903009 -AATTAAATTCATC
1 AAATTAAATTCATC
34903022 AAATTAA
1 AAATTAA
34903029 TTAAATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 13 0.68
14 6 0.32
ACGTcount: A:0.53, C:0.12, G:0.00, T:0.35
Consensus pattern (14 bp):
AAATTAAATTCATC
Found at i:34903459 original size:48 final size:49
Alignment explanation
Indices: 34903402--34903512 Score: 152
Period size: 48 Copynumber: 2.3 Consensus size: 49
34903392 TATTGTAATA
* ** *
34903402 AATTTAATATTAAATTTAATTTGATACTTATATTGAT-AGTATTTTGTT
1 AATTTAATATTAAATTTAATTTAATACTTATATTGATAAGTATCATATT
* * *
34903450 AATTTAATATTAAATTTAATTTAATATTTTTCTTGATAAGTATCATATT
1 AATTTAATATTAAATTTAATTTAATACTTATATTGATAAGTATCATATT
34903499 AATTTAATATTAAA
1 AATTTAATATTAAA
34903513 GTGATTCAGT
Statistics
Matches: 55, Mismatches: 7, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
48 33 0.60
49 22 0.40
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (49 bp):
AATTTAATATTAAATTTAATTTAATACTTATATTGATAAGTATCATATT
Found at i:34907306 original size:25 final size:25
Alignment explanation
Indices: 34907278--34907333 Score: 80
Period size: 25 Copynumber: 2.2 Consensus size: 25
34907268 TAGCTCATGA
34907278 GAGCATACTGA-TCTACAACTCG-AGT
1 GAGCATACTGATTC-ACAACTCGTA-T
34907303 GAGCATACTGATTCACAACTCGTAT
1 GAGCATACTGATTCACAACTCGTAT
34907328 GAGCAT
1 GAGCAT
34907334 TCATGTATAG
Statistics
Matches: 29, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
25 26 0.90
26 3 0.10
ACGTcount: A:0.32, C:0.23, G:0.20, T:0.25
Consensus pattern (25 bp):
GAGCATACTGATTCACAACTCGTAT
Found at i:34909695 original size:534 final size:534
Alignment explanation
Indices: 34908687--34909749 Score: 1702
Period size: 534 Copynumber: 2.0 Consensus size: 534
34908677 TAATAGATAG
* *
34908687 ATGTGAGTCTGTCAAATATCGATCCCACAAGCATGGTTTTCTTTTGTCTACTAATGTCGGTGATA
1 ATGTGAGTCTATCAAATATCGATCCCACAAGCATGGTTGTCTTTTGTCTACTAATGTCGGTGATA
* *
34908752 TAACTAGATAGAAATAAGATAAATTGTGAGTATAGTTGTCGAAACAATAACTTGAAAATAATAAG
66 TAACTAGATAGAAACAAGATAAATTGTGAGTATAGTTGTCGAAACAATAACTCGAAAATAATAAG
* *
34908817 ATAAAGTATGTTATGGATAAATTGGGATCCCCAACATGAATCTTCAACAGTATACTAAGTACTCA
131 ATAAAGTATGCTATGGATAAATTGGGATCCCCAACATGAATCTTCAACAATATACTAAGTACTCA
*
34908882 CAAGGTATAAAAGATAGGTGATTGTCGACGCAATAAAATTTAATGTATATCTTACCAAATGCCAC
196 CAAGGTATAAAAGATAGGTGATTGTCGAAGCAATAAAATTTAATGTATATCTTACCAAATGCCAC
* * *
34908947 TCTTTTATTTAATCTGGGACTTAACCATGCATATTAACCTTACCTTCGGATGATGGCAATATGAC
261 TCTTTTATTTAATCTGGGACTTAACCATGCACACTAACCTTACCTTCGGATGATGGAAATATGAC
* * *
34909012 ACTATTAAGAACAAGTGGACTAAATTCCTGTAGTCCTTACTTAACTTCTACCGAAATTCTTATTA
326 ACTATTAAGAACAAGTGGACTAAATTCCTGTAGTCCTTACTCAACTTCCACCGAAATGCTTATTA
* *
34909077 GATCAAACTGTCACTGCACCTTCTAGTGTTAGTGACTACAATAACACTTCCGTGTTTAGAAGATT
391 GATCAAACTGTCACTGCACCTTCCAGTGTTAGTGACTACAATAACACTTCCGTGTTTAGAACATT
* * *
34909142 CAAACCGCCAAGATTAAACAATAAAAATAAGATTTTAGAAGATAACATTTAACAGAGCATTCATT
456 CAAACCCCCAAGATTAAACAATAAAAATAAGATTTAAGAAGATAACATTTAACAAAGCATTCATT
34909207 ATACTTCCAAACAA
521 ATACTTCCAAACAA
* * * * * * * * *
34909221 ATGTGAGTCTATTAGATATCGATCCTATAGGGATGGTTGTCTTTTTTCTATTAATGTTGGTGCA-
1 ATGTGAGTCTATCAAATATCGATCCCACAAGCATGGTTGTCTTTTGTCTACTAATGTCGGTG-AT
* *
34909285 ATAACTAGATAGAAACAAGATAAATTTTGAGTATAGTTGTCGAAGA-AATAACTCGACAATAATA
65 ATAACTAGATAGAAACAAGATAAATTGTGAGTATAGTTGTCGAA-ACAATAACTCGAAAATAATA
34909349 AGATAAAGTATGCTATGGATAAATTGGGATCCCCAACATGAATCTT-AAGCAATATACTAAGTAC
129 AGATAAAGTATGCTATGGATAAATTGGGATCCCCAACATGAATCTTCAA-CAATATACTAAGTAC
* *
34909413 TCACAAGGTATAAAAGATAGGTGATTGTCGAAGTAATAAAATTTAATGTATATCTTACCAAATTC
193 TCACAAGGTATAAAAGATAGGTGATTGTCGAAGCAATAAAATTTAATGTATATCTTACCAAATGC
*
34909478 CACTCTTTTATTTAATCTGGGACTTAACCATGCACACTAACCTTACCTTTC-GATGATGGAAATG
258 CACTCTTTTATTTAATCTGGGACTTAACCATGCACACTAACCTTACC-TTCGGATGATGGAAATA
* * *
34909542 TGACACTATTAAGAAGAAGTGGACTAAATTCCTTTAGTCCTTACTCAACTTCCACTGAAATGCTT
322 TGACACTATTAAGAACAAGTGGACTAAATTCCTGTAGTCCTTACTCAACTTCCACCGAAATGCTT
* *
34909607 ATTAGCTCAAACTGTCACTGCACCTTCCAGTGTTAGTGACTGCAATAACACTTCCGTGTTTAGAA
387 ATTAGATCAAACTGTCACTGCACCTTCCAGTGTTAGTGACTACAATAACACTTCCGTGTTTAGAA
* *
34909672 CATTCGAACCCCCAAGATTAAACAATAAAAATAAGATTTAATAAGATAACATTTAACAAAGCATT
452 CATTCAAACCCCCAAGATTAAACAATAAAAATAAGATTTAAGAAGATAACATTTAACAAAGCATT
*
34909737 CATTGTACTTCCA
517 CATTATACTTCCA
34909750 TATAGTAGAA
Statistics
Matches: 485, Mismatches: 40, Indels: 8
0.91 0.08 0.02
Matches are distributed among these distances:
533 2 0.00
534 478 0.99
535 5 0.01
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (534 bp):
ATGTGAGTCTATCAAATATCGATCCCACAAGCATGGTTGTCTTTTGTCTACTAATGTCGGTGATA
TAACTAGATAGAAACAAGATAAATTGTGAGTATAGTTGTCGAAACAATAACTCGAAAATAATAAG
ATAAAGTATGCTATGGATAAATTGGGATCCCCAACATGAATCTTCAACAATATACTAAGTACTCA
CAAGGTATAAAAGATAGGTGATTGTCGAAGCAATAAAATTTAATGTATATCTTACCAAATGCCAC
TCTTTTATTTAATCTGGGACTTAACCATGCACACTAACCTTACCTTCGGATGATGGAAATATGAC
ACTATTAAGAACAAGTGGACTAAATTCCTGTAGTCCTTACTCAACTTCCACCGAAATGCTTATTA
GATCAAACTGTCACTGCACCTTCCAGTGTTAGTGACTACAATAACACTTCCGTGTTTAGAACATT
CAAACCCCCAAGATTAAACAATAAAAATAAGATTTAAGAAGATAACATTTAACAAAGCATTCATT
ATACTTCCAAACAA
Found at i:34920927 original size:13 final size:13
Alignment explanation
Indices: 34920909--34920943 Score: 70
Period size: 13 Copynumber: 2.7 Consensus size: 13
34920899 ATTTGGATTG
34920909 ATGAAATTGAAAT
1 ATGAAATTGAAAT
34920922 ATGAAATTGAAAT
1 ATGAAATTGAAAT
34920935 ATGAAATTG
1 ATGAAATTG
34920944 GGGAATTGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.51, C:0.00, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGAAATTGAAAT
Found at i:34920928 original size:7 final size:7
Alignment explanation
Indices: 34920909--34920941 Score: 52
Period size: 6 Copynumber: 5.0 Consensus size: 7
34920899 ATTTGGATTG
34920909 ATGAAAT
1 ATGAAAT
34920916 -TGAAAT
1 ATGAAAT
34920922 ATGAAAT
1 ATGAAAT
34920929 -TGAAAT
1 ATGAAAT
34920935 ATGAAAT
1 ATGAAAT
34920942 TGGGGAATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.55, C:0.00, G:0.15, T:0.30
Consensus pattern (7 bp):
ATGAAAT
Found at i:34939555 original size:43 final size:44
Alignment explanation
Indices: 34939493--34939579 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 44
34939483 TTATATGAAA
* * *
34939493 TCATATACGATGTCAATGTCGCAAACATGGTCTTACACGTAATC
1 TCATATACGATGCCAATGTCGCAAACACGGTCTTACACGAAATC
* *
34939537 TCATAT-CGATGCCAATGTCTCAGACACGGTCTTACACGAAATC
1 TCATATACGATGCCAATGTCGCAAACACGGTCTTACACGAAATC
34939580 ACACCTCGGG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
43 32 0.84
44 6 0.16
ACGTcount: A:0.31, C:0.25, G:0.16, T:0.28
Consensus pattern (44 bp):
TCATATACGATGCCAATGTCGCAAACACGGTCTTACACGAAATC
Found at i:34944787 original size:15 final size:15
Alignment explanation
Indices: 34944767--34944803 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
34944757 ACAACTTAAT
34944767 GTCTTCATTCAAACC
1 GTCTTCATTCAAACC
34944782 GTCTTCATTCAAACC
1 GTCTTCATTCAAACC
34944797 GTCTTCA
1 GTCTTCA
34944804 AATCTTTTAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.24, C:0.32, G:0.08, T:0.35
Consensus pattern (15 bp):
GTCTTCATTCAAACC
Found at i:34947166 original size:43 final size:44
Alignment explanation
Indices: 34947097--34947183 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 44
34947087 TTATACGAAA
*
34947097 TCATATATGATGCCAATGTCGCAGACATGGTCTTACACGTAATC
1 TCATATATGATGCCAATGTCGCAGACATGGTCTTACACGAAATC
*
34947141 TCATAT-TGATGCCAATTTC-CTAGACATGGTCTTACACGAAATC
1 TCATATATGATGCCAATGTCGC-AGACATGGTCTTACACGAAATC
34947184 ACACCTCGGG
Statistics
Matches: 40, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
42 1 0.03
43 33 0.82
44 6 0.15
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (44 bp):
TCATATATGATGCCAATGTCGCAGACATGGTCTTACACGAAATC
Found at i:34948577 original size:23 final size:23
Alignment explanation
Indices: 34948531--34948577 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
34948521 TAACATGTGA
* *
34948531 TAGTGTGATGAGTCCTGTTCAGT
1 TAGTGTGATGAATCCTATTCAGT
*
34948554 TAGTGTGATGAATCCTATTTAGT
1 TAGTGTGATGAATCCTATTCAGT
34948577 T
1 T
34948578 TGACTTGTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.21, C:0.11, G:0.26, T:0.43
Consensus pattern (23 bp):
TAGTGTGATGAATCCTATTCAGT
Found at i:34957854 original size:43 final size:43
Alignment explanation
Indices: 34957793--34957876 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
34957783 TCTCTTAAAG
* **
34957793 TTAACTCGATTTAAATTCAAAAAGTGTGTTGGCTTGGAGTCAT
1 TTAACTCGATTTAAATTCAAAAAGCGCATTGGCTTGGAGTCAT
* *
34957836 TTAACTTGATTTCAATTCAAAAAGCGCATTGGCTTGGAGTC
1 TTAACTCGATTTAAATTCAAAAAGCGCATTGGCTTGGAGTC
34957877 GTTTTGGGGT
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.30, C:0.14, G:0.20, T:0.36
Consensus pattern (43 bp):
TTAACTCGATTTAAATTCAAAAAGCGCATTGGCTTGGAGTCAT
Found at i:34972690 original size:41 final size:41
Alignment explanation
Indices: 34972633--34972859 Score: 391
Period size: 41 Copynumber: 5.5 Consensus size: 41
34972623 TTTAACATAT
* * *
34972633 TCACCGGCAATTAGCCTGCTAGGCTTATAGCCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
34972674 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* *
34972715 TCATCGACACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
* *
34972756 TCACTGGCGCTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
34972797 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
1 TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
34972838 TCACCGGCACTTAGCCTGCTAG
1 TCACCGGCACTTAGCCTGCTAG
34972860 ACTTAAAGTC
Statistics
Matches: 175, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
41 175 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (41 bp):
TCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGA
Found at i:34972895 original size:123 final size:123
Alignment explanation
Indices: 34972632--34972913 Score: 383
Period size: 123 Copynumber: 2.3 Consensus size: 123
34972622 ATTTAACATA
* * *
34972632 TTCACCGGCAATTAGCCTGCTAGGCTTATAGCCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
* ** **
34972697 TTTATAACCTGATTCAGATCATCGACACTTAGCCTGCTAGGTTTATAACCTGATTCAG
66 TTTATAACCTGATTCAGATCACCGACACTTAGCCTGCTAGACTTATAACCAAATTCAG
* * *
34972755 ATCACTGGCGCTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
1 TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
* *
34972820 TTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGACTTA-AAGTCCAAATT-AT
66 TTTATAACCTGATTCAGATCACCGACACTTAGCCTGCTAGACTTATAA--CCAAATTCAG
34972878 TTCACCGGC-CTTAAGCCTGCTAGGTTT-TAAACCTGA
1 TTCACCGGCACTT-AGCCTGCTAGGTTTAT-AACCTGA
34972914 ACATTTCAAT
Statistics
Matches: 140, Mismatches: 15, Indels: 8
0.86 0.09 0.05
Matches are distributed among these distances:
122 6 0.04
123 129 0.92
124 5 0.04
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (123 bp):
TTCACCGGCACTTAGCCTGCTAGGTTTATAACCTGATTCAGATCACCGGCACTTAGCCTGCTAGG
TTTATAACCTGATTCAGATCACCGACACTTAGCCTGCTAGACTTATAACCAAATTCAG
Found at i:34978584 original size:101 final size:101
Alignment explanation
Indices: 34978408--34978667 Score: 305
Period size: 101 Copynumber: 2.6 Consensus size: 101
34978398 CGTTTTCTTT
* * * * * *
34978408 ATGCCATAGTCCAACTATGGTCTTACACAT--GCATTGTCATGGCCCAGCCATGGTCTTAAATTC
1 ATGCCATAGCCCAGCTATGGTCTTACAAATAAACATTGTCATGGTCCAACCATGGTCTTAAATTC
** *
34978471 GTAGTGTCATAACCCAGTTATGGTCTTATCATCT-TA
66 AAAGTGTCATAACCCAGTTATGGTCTTATCAT-TAAA
*** * **
34978507 ATGCCATAGCCCAGCTATGGTCTTATTTATAAATATTGTCATGGTCCAACCATGGTCTTACGTTC
1 ATGCCATAGCCCAGCTATGGTCTTACAAATAAACATTGTCATGGTCCAACCATGGTCTTAAATTC
* *
34978572 AAAGTG-CTATAACCCAGTTATGTTCTTTTCATTAAA
66 AAAGTGTC-ATAACCCAGTTATGGTCTTATCATTAAA
34978608 ATGCCATAGCCCAGCTATGGTCTTACAAATAAACATT-TCCATGGTCCAACCATGGTCTTA
1 ATGCCATAGCCCAGCTATGGTCTTACAAATAAACATTGT-CATGGTCCAACCATGGTCTTA
34978668 TCCGTCAATT
Statistics
Matches: 136, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
99 25 0.18
100 3 0.02
101 108 0.79
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (101 bp):
ATGCCATAGCCCAGCTATGGTCTTACAAATAAACATTGTCATGGTCCAACCATGGTCTTAAATTC
AAAGTGTCATAACCCAGTTATGGTCTTATCATTAAA
Found at i:34981233 original size:26 final size:26
Alignment explanation
Indices: 34981197--34981249 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
34981187 CTATAAAGAG
34981197 ATAGACGGGCCTGAGAATTTAACAAA
1 ATAGACGGGCCTGAGAATTTAACAAA
34981223 ATAGACGGGCCTGAGAATTTAACAAA
1 ATAGACGGGCCTGAGAATTTAACAAA
34981249 A
1 A
34981250 GAAGTTCCTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.19
Consensus pattern (26 bp):
ATAGACGGGCCTGAGAATTTAACAAA
Found at i:34988298 original size:27 final size:27
Alignment explanation
Indices: 34988268--34988322 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
34988258 CATTTTCTAA
* *
34988268 ATGTGATAATTAATTTTTAAAAAATTT
1 ATGTGAAAATTAAATTTTAAAAAATTT
* *
34988295 ATGTTAAAATTAAATTTTAAAATATTT
1 ATGTGAAAATTAAATTTTAAAAAATTT
34988322 A
1 A
34988323 ATATTATAGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.47
Consensus pattern (27 bp):
ATGTGAAAATTAAATTTTAAAAAATTT
Found at i:34992646 original size:16 final size:16
Alignment explanation
Indices: 34992621--34992651 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
34992611 CATGAGGAAT
34992621 GTGTTAGTGATACTTA
1 GTGTTAGTGATACTTA
*
34992637 GTGTTGGTGATACTT
1 GTGTTAGTGATACTT
34992652 GAGGACACAC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.19, C:0.06, G:0.29, T:0.45
Consensus pattern (16 bp):
GTGTTAGTGATACTTA
Found at i:34993434 original size:18 final size:19
Alignment explanation
Indices: 34993411--34993451 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
34993401 ATTTTAATAT
34993411 ATTTAATTC-CCTAATTTG
1 ATTTAATTCACCTAATTTG
* *
34993429 ATTTAATTCACTTAATTTT
1 ATTTAATTCACCTAATTTG
34993448 ATTT
1 ATTT
34993452 TGCAATCTCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.29, C:0.12, G:0.02, T:0.56
Consensus pattern (19 bp):
ATTTAATTCACCTAATTTG
Found at i:34996705 original size:2 final size:2
Alignment explanation
Indices: 34996698--34996726 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
34996688 TATTTCAATT
34996698 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
34996727 TGCGCATATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:35002635 original size:29 final size:29
Alignment explanation
Indices: 35002601--35002674 Score: 77
Period size: 27 Copynumber: 2.7 Consensus size: 29
35002591 ATTAATTTTT
35002601 AAATTTTTAAAAATAA-AAAA-TAATTATAA
1 AAATTTTTAAAAATAATAAAACT-ATT-TAA
**
35002630 AAA--TTTAAAAATAATAAAACTATTTTT
1 AAATTTTTAAAAATAATAAAACTATTTAA
35002657 AAATTTTTAAAAA-AATAA
1 AAATTTTTAAAAATAATAA
35002675 TTAATTGCTA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
27 15 0.38
28 12 0.31
29 12 0.31
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (29 bp):
AAATTTTTAAAAATAATAAAACTATTTAA
Found at i:35002660 original size:27 final size:26
Alignment explanation
Indices: 35002593--35002662 Score: 70
Period size: 27 Copynumber: 2.5 Consensus size: 26
35002583 AACAATTAAT
35002593 TAATTTTTAAATTTTTAAAAATAAAAAA
1 TAATTTTTAAA--TTTAAAAATAAAAAA
**
35002621 TAATTATAAAAATTTAAAAATAATAAAA
1 TAATT-TTTAAATTTAAAAATAA-AAAA
35002649 CT-ATTTTTAAATTT
1 -TAATTTTTAAATTT
35002663 TTAAAAAAAT
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
27 18 0.51
28 12 0.34
29 5 0.14
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.43
Consensus pattern (26 bp):
TAATTTTTAAATTTAAAAATAAAAAA
Found at i:35004846 original size:15 final size:15
Alignment explanation
Indices: 35004826--35004855 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
35004816 AGTTTATATT
*
35004826 TATAAATATAATAAA
1 TATAAATAAAATAAA
35004841 TATAAATAAAATAAA
1 TATAAATAAAATAAA
35004856 AATCTATTTC
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAATAAAATAAA
Found at i:35006152 original size:101 final size:101
Alignment explanation
Indices: 35005977--35006216 Score: 390
Period size: 101 Copynumber: 2.4 Consensus size: 101
35005967 TGAATTGACG
* * * *
35005977 GATAAGACCATAATTGGGTTATGACACTATGAACGTAAGACCATGGTTGGACCATGGCAGTGTTT
1 GATAAGACCATAATTGGGTTATGGCACTATGAATGTAAGACCATAGTTGGACCATGACAGTGTTT
35006042 ATATGTAAGACCATAGCTGAGCTATGACATTCTGAT
66 ATATGTAAGACCATAGCTGAGCTATGACATTCTGAT
*
35006078 GATAAGACCATAATTGGATTATGGCACTATGAATGTAAGACCATAGTTGGACCATGACAGTGTTT
1 GATAAGACCATAATTGGGTTATGGCACTATGAATGTAAGACCATAGTTGGACCATGACAGTGTTT
* *
35006143 ATATGTAAGACCATAGCTGGGCTATGGCATTCTGAT
66 ATATGTAAGACCATAGCTGAGCTATGACATTCTGAT
* **
35006179 GATAAGACCATAACTGGGTTATGGCACTACAAATGTAA
1 GATAAGACCATAATTGGGTTATGGCACTATGAATGTAA
35006217 ATGATGAATT
Statistics
Matches: 128, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
101 128 1.00
ACGTcount: A:0.33, C:0.15, G:0.23, T:0.28
Consensus pattern (101 bp):
GATAAGACCATAATTGGGTTATGGCACTATGAATGTAAGACCATAGTTGGACCATGACAGTGTTT
ATATGTAAGACCATAGCTGAGCTATGACATTCTGAT
Found at i:35006196 original size:33 final size:32
Alignment explanation
Indices: 35006044--35006204 Score: 124
Period size: 33 Copynumber: 4.8 Consensus size: 32
35006034 CAGTGTTTAT
* *
35006044 ATGTAAGACCATAGCTGAGCTATGACATTCTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
** ** * *
35006076 ATGATAAGACCATAATTGGATTATGGCACTATG
1 ATG-TAAGACCATAGCTGGGCTATGGCATTCTG
* * * * * *
35006109 AATGTAAGACCATAGTTGGACCATGACAGTGTTTAT
1 -ATGTAAGACCATAGCTGGGCTATGGCA-T-TCT-G
35006145 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
1 ATGTAAGACCATAGCTGGGCTATGGCATTCTG
* *
35006177 ATGATAAGACCATAACTGGGTTATGGCA
1 ATG-TAAGACCATAGCTGGGCTATGGCA
35006205 CTACAAATGT
Statistics
Matches: 100, Mismatches: 23, Indels: 11
0.75 0.17 0.08
Matches are distributed among these distances:
32 6 0.06
33 65 0.65
34 4 0.04
35 25 0.25
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.29
Consensus pattern (32 bp):
ATGTAAGACCATAGCTGGGCTATGGCATTCTG
Found at i:35009935 original size:38 final size:38
Alignment explanation
Indices: 35009891--35010010 Score: 115
Period size: 38 Copynumber: 3.2 Consensus size: 38
35009881 ATGTAATTCA
35009891 TATTTATATCTTCAAATTTCATTTTAGGGCACCTTATT
1 TATTTATATCTTCAAATTTCATTTTAGGGCACCTTATT
* * * * **
35009929 TATTTATAGT-TTTACATTTTAATTATAGTTTCA--TT-TT
1 TATTTATA-TCTTCA-AATTTCATTTTAG-GGCACCTTATT
*
35009966 T-GTTATATCTTCAAATTTCATTTTAGGGCACCTTATT
1 TATTTATATCTTCAAATTTCATTTTAGGGCACCTTATT
35010003 TATTTATA
1 TATTTATA
35010011 GTTTTACATT
Statistics
Matches: 60, Mismatches: 14, Indels: 16
0.67 0.16 0.18
Matches are distributed among these distances:
34 2 0.03
35 11 0.18
36 10 0.17
37 6 0.10
38 18 0.30
39 11 0.18
40 2 0.03
ACGTcount: A:0.27, C:0.12, G:0.07, T:0.54
Consensus pattern (38 bp):
TATTTATATCTTCAAATTTCATTTTAGGGCACCTTATT
Found at i:35009980 original size:74 final size:74
Alignment explanation
Indices: 35009894--35010043 Score: 300
Period size: 74 Copynumber: 2.0 Consensus size: 74
35009884 TAATTCATAT
35009894 TTATATCTTCAAATTTCATTTTAGGGCACCTTATTTATTTATAGTTTTACATTTTAATTATAGTT
1 TTATATCTTCAAATTTCATTTTAGGGCACCTTATTTATTTATAGTTTTACATTTTAATTATAGTT
35009959 TCATTTTTG
66 TCATTTTTG
35009968 TTATATCTTCAAATTTCATTTTAGGGCACCTTATTTATTTATAGTTTTACATTTTAATTATAGTT
1 TTATATCTTCAAATTTCATTTTAGGGCACCTTATTTATTTATAGTTTTACATTTTAATTATAGTT
35010033 TCATTTTTG
66 TCATTTTTG
35010042 TT
1 TT
35010044 TTCTCTTTAA
Statistics
Matches: 76, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
74 76 1.00
ACGTcount: A:0.25, C:0.11, G:0.08, T:0.56
Consensus pattern (74 bp):
TTATATCTTCAAATTTCATTTTAGGGCACCTTATTTATTTATAGTTTTACATTTTAATTATAGTT
TCATTTTTG
Found at i:35010801 original size:18 final size:18
Alignment explanation
Indices: 35010780--35010814 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
35010770 TTTAATATGT
35010780 TTAAATTAGTTA-ATTTAA
1 TTAAATTA-TTATATTTAA
35010798 TTAAATTATTATATTTA
1 TTAAATTATTATATTTA
35010815 GATCAAGAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 3 0.19
18 13 0.81
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (18 bp):
TTAAATTATTATATTTAA
Found at i:35013517 original size:28 final size:28
Alignment explanation
Indices: 35013485--35013544 Score: 84
Period size: 28 Copynumber: 2.1 Consensus size: 28
35013475 TGGCTTTCAT
* * *
35013485 TTTTATTGGGAGTTGTTTTATGGTTATG
1 TTTTATAGAGAGTTGTTTTACGGTTATG
*
35013513 TTTTATAGAGAGTTGTTTTACGTTTATG
1 TTTTATAGAGAGTTGTTTTACGGTTATG
35013541 TTTT
1 TTTT
35013545 TTTTGGATTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.17, C:0.02, G:0.23, T:0.58
Consensus pattern (28 bp):
TTTTATAGAGAGTTGTTTTACGGTTATG
Found at i:35027562 original size:44 final size:44
Alignment explanation
Indices: 35027371--35027976 Score: 167
Period size: 44 Copynumber: 13.8 Consensus size: 44
35027361 AAGATTGTAG
** * ** *
35027371 ATCTTATCTCCCTAAGCAATAGTGGAGCAGATCAAAGACGACAA
1 ATCTTATCTTTCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * **
35027415 ATCTTATCTTTCCAAG-A-TAGTGGGAAGCAGATTTAAG-CCACAA
1 ATCTTATCTTTCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
* * ** * * * * ** * *
35027458 AGCCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAG
1 A-TCTTATCTTTCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* ** ** *
35027503 ATCTTACCTCCCTAAGCAGTAGTGGAGCAGATCAAAGACGGAAA
1 ATCTTATCTTTCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * **
35027547 ATCTTATCTTTCTAAG-A-TAGTGGGAAGTAGATTTAAAGTCACCAA
1 ATCTTATCTTTCTAAGCAGTAGT-GG-AGCAGA-TTGAAGACGGCAA
** * * * * * * ** * *
35027592 GCCTTGTCTCTCTAAGCAGCAGCGGAGTAGGTTGAAGATTGTAG
1 ATCTTATCTTTCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
** * *
35027636 ATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTTTCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * **
35027680 ATCTTATCTTTCCAAG-A-TAGTGGGAAGCAGATTTAAGCCACCAA
1 ATCTTATCTTTCTAAGCAGTAGT-GG-AGCAGATTGAAGACGGCAA
** * * * * ** * *
35027724 GCCTTATC-TCCTTGAGCAGTAGTGGAGAAGGTTGAAGATTGTAG
1 ATCTTATCTTTC-TAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
** * **
35027768 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGAAAA
1 ATCTTATCTTTCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
* * * * **
35027812 ATCTTATCTTTCCAAG-A-TAGTGGAAAGTAGATTTAAGCCACCAA
1 ATCTTATCTTTCTAAGCAGTAGTGG--AGCAGATTGAAGACGGCAA
** * ** ** * * * * * *
35027856 GCCTTGTCTCCCGGAGCAGCAGCGGAGTAGGTTGAAGATTGG-AG
1 ATCTTATCTTTCTAAGCAGTAGTGGAGCAGATTGAAGA-CGGCAA
** *
35027900 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCAA
1 ATCTTATCTTTCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
*
35027944 ATCTTATCTTTCCAAG-A-TAGTGGGAAGCAGATT
1 ATCTTATCTTTCTAAGCAGTAGT-GG-AGCAGATT
35027977 TGGGAAGCAG
Statistics
Matches: 390, Mismatches: 147, Indels: 50
0.66 0.25 0.09
Matches are distributed among these distances:
42 22 0.06
43 23 0.06
44 293 0.75
45 36 0.09
46 14 0.04
47 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.25
Consensus pattern (44 bp):
ATCTTATCTTTCTAAGCAGTAGTGGAGCAGATTGAAGACGGCAA
Found at i:35027564 original size:132 final size:132
Alignment explanation
Indices: 35027321--35027977 Score: 1064
Period size: 132 Copynumber: 5.0 Consensus size: 132
35027311 ACCGGCGAAA
*
35027321 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
35027386 GCAATAGTGGAGCAGATCAAAGAC-GACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
66 GCAGTAGTGGAGCAGATCGAAGACGGA-AAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTA
35027450 AGC
130 AGC
* * *
35027453 CACAAAGCCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAGATCTTACCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
35027518 GCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTTTCTAAGATAGTGGGAAGTAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT-A
*
35027583 AGT
130 AGC
* *
35027586 CACCAAGCCTTGTCTCTCTAAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* *
35027651 GTAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
35027716 GC
131 GC
* * * * *
35027718 CACCAAGCCTTATCTCCTTGAGCAGTAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
35027783 GCAGTAGTGGAGCAGATCGAAGACGAAAAATCTTATCTTTCCAAGATAGTGGAAAGTAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
35027848 GC
131 GC
* *
35027850 CACCAAGCCTTGTCTCCCGGAGCAGCAGCGGAGTAGGTTGAAGATTGGAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
35027915 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
66 GCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
35027978 GGGAAGCAGA
Statistics
Matches: 481, Mismatches: 42, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
132 358 0.74
133 123 0.26
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (132 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGGAAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GC
Found at i:35027794 original size:265 final size:264
Alignment explanation
Indices: 35027321--35027977 Score: 1125
Period size: 265 Copynumber: 2.5 Consensus size: 264
35027311 ACCGGCGAAA
*
35027321 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
* * *
35027386 GCAATAGTGGAGCAGATCAAAGACGACAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
* *
35027451 GCCACAAAGCCTTGTCTCCCTGAGCAGTAGCGGAGTAGGTTGAAGATTGTAGATCTTACCTCCCT
131 GCCACAAAGCCTTATCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTACCTCCCT
* * *
35027516 AAGCAGTAGTGGAGCAGATCAAAGACGGAAAATCTTATCTTTCTAAGATAGTGGGAAGTAGATTT
196 AAGCAGTAGTGGAGCAGATCAAAGACGAAAAATCTTATCTTTCCAAGATAGTGGAAAGTAGATTT
*
35027581 AAAGT
261 -AAGC
* *
35027586 CACCAAGCCTTGTCTCTCTAAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
*
35027651 GTAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
66 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
* * * *
35027716 GCCACCAAGCCTTATCTCCTTGAGCAGTAGTGGAGAAGGTTGAAGATTGTAGATCTTATCTCCCT
131 GCCACAAAGCCTTATCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTACCTCCCT
*
35027781 AAGCAGTAGTGGAGCAGATCGAAGACGAAAAATCTTATCTTTCCAAGATAGTGGAAAGTAGATTT
196 AAGCAGTAGTGGAGCAGATCAAAGACGAAAAATCTTATCTTTCCAAGATAGTGGAAAGTAGATTT
35027846 AAGC
261 AAGC
* *
35027850 CACCAAGCCTTGTCTCCCGGAGCAGCAGCGGAGTAGGTTGAAGATTGGAGATCTTATCTCCCTAA
1 CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
35027915 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
66 GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTT
35027978 GGGAAGCAGA
Statistics
Matches: 369, Mismatches: 23, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
264 126 0.34
265 243 0.66
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.25
Consensus pattern (264 bp):
CACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGTAGGTTGAAGATTGTAGATCTTATCTCCCTAA
GCAGTAGTGGAGCAGATCGAAGACGGCAAATCTTATCTTTCCAAGATAGTGGGAAGCAGATTTAA
GCCACAAAGCCTTATCTCCCTGAGCAGTAGCGGAGAAGGTTGAAGATTGTAGATCTTACCTCCCT
AAGCAGTAGTGGAGCAGATCAAAGACGAAAAATCTTATCTTTCCAAGATAGTGGAAAGTAGATTT
AAGC
Found at i:35027982 original size:13 final size:13
Alignment explanation
Indices: 35027964--35027990 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
35027954 TCCAAGATAG
35027964 TGGGAAGCAGATT
1 TGGGAAGCAGATT
35027977 TGGGAAGCAGATT
1 TGGGAAGCAGATT
35027990 T
1 T
35027991 AAGCCACCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.07, G:0.37, T:0.26
Consensus pattern (13 bp):
TGGGAAGCAGATT
Found at i:35033881 original size:23 final size:24
Alignment explanation
Indices: 35033839--35033901 Score: 67
Period size: 23 Copynumber: 2.7 Consensus size: 24
35033829 GGATGTATTC
***
35033839 TTTATAATTGTAATGTAAC-TATA
1 TTTATAATTGTAAAAAAACTTATA
35033862 TTTATAATTGTAAAAAAACTTATA
1 TTTATAATTGTAAAAAAACTTATA
*
35033886 TATATTAATTG-AAAAA
1 TTTA-TAATTGTAAAAA
35033902 TGTATTATGT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 16 0.47
24 12 0.35
25 6 0.18
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.43
Consensus pattern (24 bp):
TTTATAATTGTAAAAAAACTTATA
Found at i:35046336 original size:64 final size:64
Alignment explanation
Indices: 35046263--35046394 Score: 228
Period size: 64 Copynumber: 2.1 Consensus size: 64
35046253 TATGGGGGCG
*
35046263 AGTTATGTGGATGCTCGTAGACACGAGTTTATGAACCTTACCCAAGGGGATAGGATTGTGGTCA
1 AGTTATGTGGATGCTCGTAGACACGAGTTTATGAACCTTACCCAAGGGGATAGGATTGTGGCCA
* * *
35046327 AGTTATGTGGATGCTTGTAGACACGAGTTTATGAACCTTACTCAGGGGGATAGGATTGTGGCCA
1 AGTTATGTGGATGCTCGTAGACACGAGTTTATGAACCTTACCCAAGGGGATAGGATTGTGGCCA
35046391 AGTT
1 AGTT
35046395 TGAGACCAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
64 64 1.00
ACGTcount: A:0.26, C:0.14, G:0.30, T:0.30
Consensus pattern (64 bp):
AGTTATGTGGATGCTCGTAGACACGAGTTTATGAACCTTACCCAAGGGGATAGGATTGTGGCCA
Found at i:35051954 original size:45 final size:45
Alignment explanation
Indices: 35051890--35051980 Score: 146
Period size: 45 Copynumber: 2.0 Consensus size: 45
35051880 CAGAGGATCA
35051890 ACACAAAACAACATTCACATACCTATACGATACATTTGCATTTGG
1 ACACAAAACAACATTCACATACCTATACGATACATTTGCATTTGG
* * * *
35051935 ACACAAAACAACATTCACATGCCTATACGGTACATTTTCGTTTGG
1 ACACAAAACAACATTCACATACCTATACGATACATTTGCATTTGG
35051980 A
1 A
35051981 GACATGCCAT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.27
Consensus pattern (45 bp):
ACACAAAACAACATTCACATACCTATACGATACATTTGCATTTGG
Found at i:35061693 original size:42 final size:43
Alignment explanation
Indices: 35061636--35061728 Score: 116
Period size: 42 Copynumber: 2.2 Consensus size: 43
35061626 TATTTACGTA
* **
35061636 TAAGACCATGCCTGGGACATTGGCGTAG-TATATAATTATGTG
1 TAAGACCATGCCTGGGACAGTGGCGTAGATATATAATTACATG
* * * *
35061678 TAAGACCCTGTCTGGGACAGTGGCGTTGATATGTAATTACATG
1 TAAGACCATGCCTGGGACAGTGGCGTAGATATATAATTACATG
35061721 TAAGACCA
1 TAAGACCA
35061729 CGTTTGGGAT
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 24 0.57
43 18 0.43
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (43 bp):
TAAGACCATGCCTGGGACAGTGGCGTAGATATATAATTACATG
Found at i:35067040 original size:12 final size:12
Alignment explanation
Indices: 35067010--35067050 Score: 50
Period size: 11 Copynumber: 3.6 Consensus size: 12
35067000 AGGGAGGAAA
35067010 AAAAGA-AAAAG
1 AAAAGAGAAAAG
*
35067021 AAAA-AGAAAAT
1 AAAAGAGAAAAG
35067032 AAAAGAGAAAAG
1 AAAAGAGAAAAG
*
35067044 AAGAGAG
1 AAAAGAG
35067051 GGAGAAAGAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
10 1 0.04
11 12 0.48
12 12 0.48
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (12 bp):
AAAAGAGAAAAG
Found at i:35069624 original size:4 final size:4
Alignment explanation
Indices: 35069585--35069638 Score: 56
Period size: 4 Copynumber: 13.5 Consensus size: 4
35069575 TATTTTATTA
* * * *
35069585 TTAT TTTT TTAT GTAA TTA- TTAT TTTT TTCAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT-AT TTAT TTAT TTAT TTAT
35069633 TTAT TT
1 TTAT TT
35069639 TCCTTTTTTT
Statistics
Matches: 41, Mismatches: 7, Indels: 4
0.79 0.13 0.08
Matches are distributed among these distances:
3 3 0.07
4 35 0.85
5 3 0.07
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.74
Consensus pattern (4 bp):
TTAT
Found at i:35081992 original size:44 final size:44
Alignment explanation
Indices: 35081942--35082546 Score: 298
Period size: 44 Copynumber: 13.9 Consensus size: 44
35081932 AATCGCATCT
*
35081942 AGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* *
35081986 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAAACTGAAGATTA-C-
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAG-TAAGCA
* ** * *
35082030 AGACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTAAAGCCAA-TA
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCA
* * * * * * *
35082076 A-TCCTATCTCCTTGAAGTGGCAGTGGAGCGGATTAA--AACCTT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGC-A
* * * ** *
35082118 GGATCTTATCTCTCTGAAGTTGCAG-AGAGCAGATCCCA-T---CT
1 AG-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-CTAAGTAAGCA
* *
35082159 AGTCTTATCTCCCTGAAGTTGCAGTGGAACGGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* *
35082203 AGTCTTAT-TCTCCTGAAGTTGCAGT-GAGGCAAACTGAAG-ATTGCA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCA
** * * * *
35082248 AACCTTATCTCCCTAAAGTTGTAGTGGAGCAG-GTTA--AAGCCGA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAG-C-A
* * * * * ** *
35082291 TAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAACTTTG-G
1 -AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAGTAAGCA
* ** * * * *
35082336 A-TCTTATCTCTCTGAAGTTGCA-AAGAGCAGA-T-CG-CATCT
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
*
35082375 AGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
* *
35082419 AGTCTTATC-CTCCTGAAGTTGCAGT-GAGGCAGACTGAAG-ATGGAA
1 AGTCTTATCTC-CCTGAAGTTGCAGTGGA-GCAGACT-AAGTA-AGCA
* * *
35082464 AATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTAAAGCT-A-CA
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACT-AAG-TAAGCA
*
35082508 AGCCTTATCTCCCTGAAGTTGCAGTGGAGCAAGACTAAG
1 AGTCTTATCTCCCTGAAGTTGCAGTGGAGC-AGACTAAG
35082547 ATAGCAAATT
Statistics
Matches: 423, Mismatches: 91, Indels: 94
0.70 0.15 0.15
Matches are distributed among these distances:
39 1 0.00
40 44 0.10
41 17 0.04
42 10 0.02
43 40 0.09
44 197 0.47
45 99 0.23
46 14 0.03
48 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.27
Consensus pattern (44 bp):
AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTAAGCA
Found at i:35082227 original size:217 final size:217
Alignment explanation
Indices: 35081852--35082537 Score: 1081
Period size: 217 Copynumber: 3.2 Consensus size: 217
35081842 CGGATCGGTG
* * *
35081852 GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAATCCTTGGATCTTATCTCTCTA
1 GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
* * *
35081917 AAGTTGTAGAGAGCAAATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTAGAGCAGACTAAGTA
66 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
*
35081982 AGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATTACAGACCTTATCTCCCTGA
131 AGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATTACAAACCTTATCTCCCTGA
35082047 AGTTGCAGTGGAGCAGGTTAAA
196 AGTTGCAGTGGAGCAGGTTAAA
* *
35082069 GCCAATAATCCTATCTCCTTGAAGTGGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
1 GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
* * *
35082134 AAGTTGCAGAGAGCAGATCCCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAACGGACTAAGTA
66 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
* * *
35082199 AGCAAGTCTTATTCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATTGCAAACCTTATCTCCCTAA
131 AGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATTACAAACCTTATCTCCCTGA
*
35082264 AGTTGTAGTGGAGCAGGTTAAA
196 AGTTGCAGTGGAGCAGGTTAAA
* *
35082286 GCCGATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATT-AAACTTTGGATCTTATCTCTCTG
1 GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
* *
35082350 AAGTTGCAAAGAGCAGATCGCATCTAGTTTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
66 AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
* * *
35082415 AGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACTGAAGATGGA-AAATCTTATCTCCCTG
131 AGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGAT-TACAAACCTTATCTCCCTG
* *
35082479 AAGTTACAGTGGAGCAGATTAAA
195 AAGTTGCAGTGGAGCAGGTTAAA
* * *
35082502 G-CTACAAGCCTTATCTCCCTGAAGTTGCAGTGGAGC
1 GCCAATAATCC-TATCTCCCTGAAGTTGCAGTGGAGC
35082538 AAGACTAAGA
Statistics
Matches: 430, Mismatches: 37, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
215 6 0.01
216 185 0.43
217 239 0.56
ACGTcount: A:0.29, C:0.21, G:0.23, T:0.28
Consensus pattern (217 bp):
GCCAATAATCCTATCTCCCTGAAGTTGCAGTGGAGCGGATTAAAACCTTGGATCTTATCTCTCTG
AAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAGTA
AGCAAGTCTTATCCTCCTGAAGTTGCAGTGAGGCAAACTGAAGATTACAAACCTTATCTCCCTGA
AGTTGCAGTGGAGCAGGTTAAA
Found at i:35084014 original size:21 final size:20
Alignment explanation
Indices: 35083990--35084032 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
35083980 TCCAGTTCAA
*
35083990 TTTAGGTATTTATTATTATTT
1 TTTAGGTAATTATTATT-TTT
*
35084011 TTTATGTAATTATTATTTTT
1 TTTAGGTAATTATTATTTTT
35084031 TT
1 TT
35084033 CATTTTTTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.23, C:0.00, G:0.07, T:0.70
Consensus pattern (20 bp):
TTTAGGTAATTATTATTTTT
Found at i:35086781 original size:3 final size:3
Alignment explanation
Indices: 35086773--35086797 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
35086763 TGTTAAATAA
35086773 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
35086798 ATGGTTAAGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:35087149 original size:14 final size:14
Alignment explanation
Indices: 35087130--35087158 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
35087120 GTCTCTCCCT
35087130 AATCCATAAATAGG
1 AATCCATAAATAGG
35087144 AATCCATAAATAGG
1 AATCCATAAATAGG
35087158 A
1 A
35087159 CGATAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.21
Consensus pattern (14 bp):
AATCCATAAATAGG
Found at i:35087599 original size:20 final size:22
Alignment explanation
Indices: 35087574--35087621 Score: 73
Period size: 22 Copynumber: 2.3 Consensus size: 22
35087564 CATTACTTTA
35087574 TATATTT-TTTTT-AAAATAAT
1 TATATTTCTTTTTAAAAATAAT
*
35087594 TATATTTCTTTTTAAAAATATT
1 TATATTTCTTTTTAAAAATAAT
35087616 TATATT
1 TATATT
35087622 GACAAATACT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
20 7 0.28
21 5 0.20
22 13 0.52
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (22 bp):
TATATTTCTTTTTAAAAATAAT
Found at i:35097652 original size:120 final size:120
Alignment explanation
Indices: 35097439--35097678 Score: 471
Period size: 120 Copynumber: 2.0 Consensus size: 120
35097429 CTATACTATT
35097439 ATTGATTGAGTTTAATGGCATAGGTTAAGCAACACTATTTCCATTAAAAAATAAATTATAATCTA
1 ATTGATTGAGTTTAATGGCATAGGTTAAGCAACACTATTTCCATTAAAAAATAAATTATAATCTA
35097504 AAATTAATATACATACACTATTTATGTATTTCAATATATAAAAATTTACATGCCC
66 AAATTAATATACATACACTATTTATGTATTTCAATATATAAAAATTTACATGCCC
35097559 ATTGATTGAGTTTAATGGCATAGGTTAAGCAACACTATTTCCATTAAAAAATAAATTATAATCTA
1 ATTGATTGAGTTTAATGGCATAGGTTAAGCAACACTATTTCCATTAAAAAATAAATTATAATCTA
*
35097624 AAATTAATATGCATACACTATTTATGTATTTCAATATATAAAAATTTACATGCCC
66 AAATTAATATACATACACTATTTATGTATTTCAATATATAAAAATTTACATGCCC
35097679 TGCATTAATT
Statistics
Matches: 119, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 119 1.00
ACGTcount: A:0.42, C:0.12, G:0.09, T:0.37
Consensus pattern (120 bp):
ATTGATTGAGTTTAATGGCATAGGTTAAGCAACACTATTTCCATTAAAAAATAAATTATAATCTA
AAATTAATATACATACACTATTTATGTATTTCAATATATAAAAATTTACATGCCC
Found at i:35098948 original size:17 final size:17
Alignment explanation
Indices: 35098928--35098974 Score: 60
Period size: 17 Copynumber: 2.8 Consensus size: 17
35098918 TAAAGATAAA
35098928 TTTAAAAATAATAATAT
1 TTTAAAAATAATAATAT
* *
35098945 TTTAAAAGTAATTATAT
1 TTTAAAAATAATAATAT
*
35098962 TTTGAAAA-AATAA
1 TTTAAAAATAATAA
35098975 AGTAAGTTTT
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
16 4 0.16
17 21 0.84
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (17 bp):
TTTAAAAATAATAATAT
Found at i:35101968 original size:12 final size:12
Alignment explanation
Indices: 35101951--35101975 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
35101941 ATTTTATAAC
35101951 ATAAATATTGTT
1 ATAAATATTGTT
35101963 ATAAATATTGTT
1 ATAAATATTGTT
35101975 A
1 A
35101976 ATAGCCTTTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:35105649 original size:24 final size:24
Alignment explanation
Indices: 35105617--35105665 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
35105607 GCATATTCCA
35105617 AGAATTTGATATGCAAAGTAAAGG
1 AGAATTTGATATGCAAAGTAAAGG
35105641 AGAATTTGATATGCAAAGTAAAGG
1 AGAATTTGATATGCAAAGTAAAGG
35105665 A
1 A
35105666 TGTGAGTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.04, G:0.24, T:0.24
Consensus pattern (24 bp):
AGAATTTGATATGCAAAGTAAAGG
Found at i:35118729 original size:27 final size:27
Alignment explanation
Indices: 35118674--35118736 Score: 81
Period size: 27 Copynumber: 2.3 Consensus size: 27
35118664 AGAGGTCATT
* * *
35118674 AAATGACTGAATTACCTCCACCGTATA
1 AAATGACTGAATTACCCCCACAGGATA
* *
35118701 AAATGACTGAATTACCCCCATAGGGTA
1 AAATGACTGAATTACCCCCACAGGATA
35118728 AAATGACTG
1 AAATGACTG
35118737 TTATACCCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (27 bp):
AAATGACTGAATTACCCCCACAGGATA
Found at i:35119138 original size:28 final size:28
Alignment explanation
Indices: 35119098--35119151 Score: 99
Period size: 28 Copynumber: 1.9 Consensus size: 28
35119088 ATTGTACCGA
35119098 TACTGTATTGGGCTAAGGCCCACATTAT
1 TACTGTATTGGGCTAAGGCCCACATTAT
*
35119126 TACTGTATTGGGCTGAGGCCCACATT
1 TACTGTATTGGGCTAAGGCCCACATT
35119152 GTACTGTTAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 25 1.00
ACGTcount: A:0.22, C:0.22, G:0.24, T:0.31
Consensus pattern (28 bp):
TACTGTATTGGGCTAAGGCCCACATTAT
Found at i:35126138 original size:6 final size:6
Alignment explanation
Indices: 35126118--35126155 Score: 58
Period size: 6 Copynumber: 6.2 Consensus size: 6
35126108 AAATCATAAA
*
35126118 TTCAGT TTCATTT TTCATT TTCATT TTCATT TTCATT T
1 TTCATT TTCA-TT TTCATT TTCATT TTCATT TTCATT T
35126156 CCGTTTTGGA
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
6 25 0.83
7 5 0.17
ACGTcount: A:0.16, C:0.16, G:0.03, T:0.66
Consensus pattern (6 bp):
TTCATT
Found at i:35126162 original size:18 final size:19
Alignment explanation
Indices: 35126123--35126162 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 19
35126113 ATAAATTCAG
*
35126123 TTTCATTTTTCATTTTCAT
1 TTTCATTTTTCATTTCCAT
*
35126142 TTTCA-TTTTCATTTCCGT
1 TTTCATTTTTCATTTCCAT
35126160 TTT
1 TTT
35126163 GGAGAAAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.12, C:0.17, G:0.03, T:0.68
Consensus pattern (19 bp):
TTTCATTTTTCATTTCCAT
Found at i:35126274 original size:62 final size:62
Alignment explanation
Indices: 35126130--35126329 Score: 220
Period size: 63 Copynumber: 3.3 Consensus size: 62
35126120 CAGTTTCATT
* * *
35126130 TTTCATTT-T-CATTTTCATTTTCATTTCCGTTTTGGAGAAAACCA-AGTTCATTTCCGAATGA
1 TTTCATTTCTCCATTTTCATTTTCATTTTCATTTTGGAGAAAACCATA--TCATTTCCAAATGA
* * *
35126191 TTCCATTTCTCCATTTTCATTTTCATTTTCATTTTGGAGAAAACCATATCATTTTCAAATAA
1 TTTCATTTCTCCATTTTCATTTTCATTTTCATTTTGGAGAAAACCATATCATTTCCAAATGA
* *
35126253 TTTCATTTCTCCATTTTCA---T--TTTT-ATTTTGCAGAAAACCATAATCATTTCCAAATGT
1 TTTCATTTCTCCATTTTCATTTTCATTTTCATTTTGGAGAAAACCAT-ATCATTTCCAAATGA
*
35126310 TTCTCATTTCTACATTTTCA
1 TT-TCATTTCTCCATTTTCA
35126330 CCATTTTTAT
Statistics
Matches: 122, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
56 16 0.13
57 18 0.15
58 16 0.13
59 1 0.01
61 7 0.06
62 30 0.25
63 33 0.27
64 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.47
Consensus pattern (62 bp):
TTTCATTTCTCCATTTTCATTTTCATTTTCATTTTGGAGAAAACCATATCATTTCCAAATGA
Found at i:35126282 original size:56 final size:58
Alignment explanation
Indices: 35126208--35126329 Score: 176
Period size: 56 Copynumber: 2.1 Consensus size: 58
35126198 TCTCCATTTT
* * *
35126208 CATTTTCATTTTCATTTTGGAGAAAACCAT-ATCATTTTCAAATAATT-TCATTTCTC
1 CATTTTCATTTTCATTTTGCAGAAAACCATAATCATTTCCAAATAATTCTCATTTCTA
* **
35126264 CATTTTCATTTTTATTTTGCAGAAAACCATAATCATTTCCAAATGTTTCTCATTTCTA
1 CATTTTCATTTTCATTTTGCAGAAAACCATAATCATTTCCAAATAATTCTCATTTCTA
35126322 CATTTTCA
1 CATTTTCA
35126330 CCATTTTTAT
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
56 28 0.48
57 14 0.24
58 16 0.28
ACGTcount: A:0.30, C:0.19, G:0.05, T:0.47
Consensus pattern (58 bp):
CATTTTCATTTTCATTTTGCAGAAAACCATAATCATTTCCAAATAATTCTCATTTCTA
Done.