Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 42 of 211
Found at i:12372053 original size:21 final size:20
Alignment explanation
Indices: 12372026--12372084 Score: 82
Period size: 21 Copynumber: 2.8 Consensus size: 20
12372016 AATTTGAAAA
*
12372026 GAAAAAATTTGAAAAACAATTT
1 GAAAAAAATTGAAAAA-AA-TT
12372048 GAAAAAAATTGAAAAAAATT
1 GAAAAAAATTGAAAAAAATT
12372068 GCAAAAAAATTGAAAAA
1 G-AAAAAAATTGAAAAA
12372085 TAGAAAAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
20 3 0.09
21 17 0.49
22 15 0.43
ACGTcount: A:0.66, C:0.03, G:0.10, T:0.20
Consensus pattern (20 bp):
GAAAAAAATTGAAAAAAATT
Found at i:12372055 original size:15 final size:14
Alignment explanation
Indices: 12372010--12372055 Score: 60
Period size: 15 Copynumber: 3.4 Consensus size: 14
12372000 AATTTTTTTG
12372010 AAAAAAAATTTGAA
1 AAAAAAAATTTGAA
12372024 AAGAAAAAATTTG--
1 AA-AAAAAATTTGAA
*
12372037 AAAAACAATTTGAA
1 AAAAAAAATTTGAA
12372051 AAAAA
1 AAAAA
12372056 TTGAAAAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 9 0.32
13 2 0.07
14 7 0.25
15 10 0.36
ACGTcount: A:0.70, C:0.02, G:0.09, T:0.20
Consensus pattern (14 bp):
AAAAAAAATTTGAA
Found at i:12372094 original size:10 final size:10
Alignment explanation
Indices: 12372026--12372084 Score: 82
Period size: 10 Copynumber: 5.6 Consensus size: 10
12372016 AATTTGAAAA
*
12372026 GAAAAAATTT
1 GAAAAAAATT
12372036 GAAAAACAATTT
1 GAAAAA-AA-TT
12372048 GAAAAAAATT
1 GAAAAAAATT
12372058 GAAAAAAATT
1 GAAAAAAATT
12372068 GCAAAAAAATT
1 G-AAAAAAATT
12372079 GAAAAA
1 GAAAAA
12372085 TAGAAAAAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
10 24 0.53
11 13 0.29
12 8 0.18
ACGTcount: A:0.66, C:0.03, G:0.10, T:0.20
Consensus pattern (10 bp):
GAAAAAAATT
Found at i:12372601 original size:6 final size:6
Alignment explanation
Indices: 12372562--12372590 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
12372552 TCTATTTTTT
12372562 TTATTC TTATTC TTATTC TTATTC TTATT
1 TTATTC TTATTC TTATTC TTATTC TTATT
12372591 TTTTTCTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (6 bp):
TTATTC
Found at i:12372604 original size:18 final size:18
Alignment explanation
Indices: 12372556--12372604 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
12372546 TTGTCTTCTA
12372556 TTTTT-TTTATTCTTATT
1 TTTTTCTTTATTCTTATT
*
12372573 CTTATTC-TTATTCTTATT
1 -TTTTTCTTTATTCTTATT
*
12372591 TTTTTCTTTTTTCT
1 TTTTTCTTTATTCT
12372605 CCTTCTTTAC
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 5 0.19
18 21 0.81
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTCTTTATTCTTATT
Found at i:12377554 original size:13 final size:13
Alignment explanation
Indices: 12377536--12377560 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12377526 GTCGTGTTCT
12377536 TTAGTTAATTTAA
1 TTAGTTAATTTAA
12377549 TTAGTTAATTTA
1 TTAGTTAATTTA
12377561 GTTTTTAATT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (13 bp):
TTAGTTAATTTAA
Found at i:12378540 original size:3 final size:3
Alignment explanation
Indices: 12378532--12378565 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
12378522 AAAATCAGCA
12378532 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC A
1 ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC ACC A
12378566 TCATTTGGAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.35, C:0.65, G:0.00, T:0.00
Consensus pattern (3 bp):
ACC
Found at i:12378832 original size:96 final size:95
Alignment explanation
Indices: 12378660--12378844 Score: 230
Period size: 96 Copynumber: 1.9 Consensus size: 95
12378650 AAAAGGAAGC
* * ** * * *
12378660 ACCCGAAGAAGAAGAGCTTGAAAAGGTGATAGAAAGCTATCAACTTAAACAAAAGTGACCATCGT
1 ACCCAAAGAAGAAGACCTTGAAAACATAACAGAAAGCTATAAACTTAAACAAAAGTGACCATCGT
*
12378725 TATCACTGAAACCCGAAAATGAGATCGGTAA
66 TATCACTGAAACCC-AAAAGGAGATCGGTAA
* *
12378756 ACCCAAAGAAGAAGACCTTGAAAACATAACAGAAAGGTATAAACTTAAACGAAAGTGACCATCGT
1 ACCCAAAGAAGAAGACCTTGAAAACATAACAGAAAGCTATAAACTTAAACAAAAGTGACCATCGT
*
12378821 CT-TTA-TCGAAACCCAAAAGGAGAT
66 -TATCACT-GAAACCCAAAAGGAGAT
12378845 TAGTAAATTC
Statistics
Matches: 76, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
95 10 0.13
96 65 0.86
97 1 0.01
ACGTcount: A:0.45, C:0.18, G:0.19, T:0.17
Consensus pattern (95 bp):
ACCCAAAGAAGAAGACCTTGAAAACATAACAGAAAGCTATAAACTTAAACAAAAGTGACCATCGT
TATCACTGAAACCCAAAAGGAGATCGGTAA
Found at i:12379275 original size:16 final size:18
Alignment explanation
Indices: 12379249--12379283 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
12379239 CACGTGAAAT
12379249 TAAACATTTT-ATTAAGA
1 TAAACATTTTAATTAAGA
12379266 TAAA-ATTTTAATTAAGA
1 TAAACATTTTAATTAAGA
12379283 T
1 T
12379284 TTTTGTATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.49, C:0.03, G:0.06, T:0.43
Consensus pattern (18 bp):
TAAACATTTTAATTAAGA
Found at i:12379609 original size:30 final size:30
Alignment explanation
Indices: 12379574--12379641 Score: 84
Period size: 30 Copynumber: 2.3 Consensus size: 30
12379564 CCTAGCTGGT
* * *
12379574 CGCGCTTTCTGGAAATCTCATCTAGCAGGA
1 CGCGCTTTCTAGAAAGCTCATCCAGCAGGA
* *
12379604 TGCGCTTTCTAGAAAGCTTATCCAGCAGGA
1 CGCGCTTTCTAGAAAGCTCATCCAGCAGGA
12379634 CGCG-TTTC
1 CGCGCTTTC
12379642 CTTCAACGGT
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
29 4 0.12
30 28 0.88
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (30 bp):
CGCGCTTTCTAGAAAGCTCATCCAGCAGGA
Found at i:12379788 original size:9 final size:9
Alignment explanation
Indices: 12379774--12379817 Score: 52
Period size: 9 Copynumber: 4.8 Consensus size: 9
12379764 TTCACATCCT
12379774 TCTCTCAAC
1 TCTCTCAAC
12379783 TCTCTCAAAC
1 TCTCTC-AAC
* * *
12379793 CCTCTTAAG
1 TCTCTCAAC
12379802 TCTCTCAAC
1 TCTCTCAAC
12379811 TCTCTCA
1 TCTCTCA
12379818 TTTTAAATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
9 21 0.75
10 7 0.25
ACGTcount: A:0.23, C:0.41, G:0.02, T:0.34
Consensus pattern (9 bp):
TCTCTCAAC
Found at i:12383059 original size:17 final size:17
Alignment explanation
Indices: 12383037--12383071 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
12383027 TTAATTGATA
12383037 AAGTTCCCAAGTACGCT
1 AAGTTCCCAAGTACGCT
12383054 AAGTTCCCAAGTACGCT
1 AAGTTCCCAAGTACGCT
12383071 A
1 A
12383072 TGTTTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.31, C:0.29, G:0.17, T:0.23
Consensus pattern (17 bp):
AAGTTCCCAAGTACGCT
Found at i:12391542 original size:25 final size:24
Alignment explanation
Indices: 12391496--12391558 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
12391486 TATGAGCTGT
* * *
12391496 TAACGGTAAGCTTCTTCGAGCTGAA
1 TAACAGTAAGC-TCTTCAAGCTAAA
*
12391521 TAATAGTAAGCTCTTCCAAGCTAAA
1 TAACAGTAAGCTCTT-CAAGCTAAA
*
12391546 TAACAATAAGCTC
1 TAACAGTAAGCTC
12391559 ACACGAGTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
24 4 0.13
25 27 0.87
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.27
Consensus pattern (24 bp):
TAACAGTAAGCTCTTCAAGCTAAA
Found at i:12396462 original size:20 final size:21
Alignment explanation
Indices: 12396439--12396479 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
12396429 AACCCTAACC
*
12396439 CTAACAAAAT-AAAAACCCTA
1 CTAAAAAAATAAAAAACCCTA
12396459 CTAAAAAAATAAAAAACCCTA
1 CTAAAAAAATAAAAAACCCTA
12396480 ACCCTGGAGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.47
21 10 0.53
ACGTcount: A:0.63, C:0.22, G:0.00, T:0.15
Consensus pattern (21 bp):
CTAAAAAAATAAAAAACCCTA
Found at i:12398243 original size:6 final size:6
Alignment explanation
Indices: 12398221--12398256 Score: 54
Period size: 6 Copynumber: 6.0 Consensus size: 6
12398211 ACATACATAT
* *
12398221 ATATAG ATACAG ATATAG GTATAG ATATAG ATATAG
1 ATATAG ATATAG ATATAG ATATAG ATATAG ATATAG
12398257 GCATTTTATG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.47, C:0.03, G:0.19, T:0.31
Consensus pattern (6 bp):
ATATAG
Found at i:12398243 original size:18 final size:18
Alignment explanation
Indices: 12398222--12398257 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
12398212 CATACATATA
12398222 TATAGATACAGATATAGG
1 TATAGATACAGATATAGG
*
12398240 TATAGATATAGATATAGG
1 TATAGATACAGATATAGG
12398258 CATTTTATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.31
Consensus pattern (18 bp):
TATAGATACAGATATAGG
Found at i:12407700 original size:33 final size:34
Alignment explanation
Indices: 12407601--12407701 Score: 105
Period size: 36 Copynumber: 2.9 Consensus size: 34
12407591 CATATAAAAA
*
12407601 TAAACACTGCCATGGTCCAACCATGGTCTTATGTC
1 TAAACATTGCCATGGTCCAACCATGGTCTTATG-C
* * * * *
12407636 TGAAAAATTGCCATAGCCCAGCTATGGTCTTATG-
1 T-AAACATTGCCATGGTCCAACCATGGTCTTATGC
* *
12407670 TAAACATTGCCATGGTCCAACCGTGATCTTAT
1 TAAACATTGCCATGGTCCAACCATGGTCTTAT
12407702 ACATTTTTAT
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
33 24 0.46
34 1 0.02
35 1 0.02
36 26 0.50
ACGTcount: A:0.28, C:0.25, G:0.18, T:0.30
Consensus pattern (34 bp):
TAAACATTGCCATGGTCCAACCATGGTCTTATGC
Found at i:12407832 original size:20 final size:19
Alignment explanation
Indices: 12407786--12407832 Score: 51
Period size: 20 Copynumber: 2.3 Consensus size: 19
12407776 TTCACATATA
12407786 TACACAAATAGATAATAATT
1 TACA-AAATAGATAATAATT
12407806 TATCAAAATAG-TAATTAATT
1 TA-CAAAATAGATAA-TAATT
12407826 GTACAAA
1 -TACAAA
12407833 CCAAGTTACG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
19 3 0.12
20 17 0.71
21 4 0.17
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.32
Consensus pattern (19 bp):
TACAAAATAGATAATAATT
Found at i:12409426 original size:50 final size:50
Alignment explanation
Indices: 12409357--12409451 Score: 147
Period size: 50 Copynumber: 1.9 Consensus size: 50
12409347 AATAAAAAAA
* *
12409357 ATACAAGTATAATTTATTGATAAAAGAATCAA-TGTTAGCATGAAAATTAT
1 ATACAAATATAATTCATTGATAAAAGAAT-AAGTGTTAGCATGAAAATTAT
*
12409407 ATACAAATATAATTCATTGATAAAAGAATAAGTGTTAGTATGAAA
1 ATACAAATATAATTCATTGATAAAAGAATAAGTGTTAGCATGAAA
12409452 TAAACATGTG
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 2 0.05
50 39 0.95
ACGTcount: A:0.49, C:0.05, G:0.13, T:0.33
Consensus pattern (50 bp):
ATACAAATATAATTCATTGATAAAAGAATAAGTGTTAGCATGAAAATTAT
Found at i:12412443 original size:40 final size:40
Alignment explanation
Indices: 12412351--12412551 Score: 235
Period size: 40 Copynumber: 5.0 Consensus size: 40
12412341 CAAATACATT
* * * *
12412351 CTTTTCATTTGTTATCCTTTATGGATAACATCTTTTTTCAAT
1 CTTTTCATTTGATATCCTTTTTGGAT-ACATC-CTTTTCAAC
*
12412393 CTTTTAATTTGATATCCTTTTTGGATACATCCTTTTCAAC
1 CTTTTCATTTGATATCCTTTTTGGATACATCCTTTTCAAC
12412433 CTTTTCATTTGATATCCTTTTCT-GATACATCCTTTTCAAC
1 CTTTTCATTTGATATCCTTTT-TGGATACATCCTTTTCAAC
* * * *
12412473 CTTTTCGTTTGATATTCTTTTCGAATACATCCTTTTCAAC
1 CTTTTCATTTGATATCCTTTTTGGATACATCCTTTTCAAC
* * * *
12412513 C-TTTAAGTTTAATATCCTTTTCGAATACATCCTTTTCAA
1 CTTTTCA-TTTGATATCCTTTTTGGATACATCCTTTTCAA
12412552 GTATATTACT
Statistics
Matches: 142, Mismatches: 14, Indels: 8
0.87 0.09 0.05
Matches are distributed among these distances:
39 3 0.02
40 110 0.77
41 6 0.04
42 23 0.16
ACGTcount: A:0.22, C:0.21, G:0.06, T:0.50
Consensus pattern (40 bp):
CTTTTCATTTGATATCCTTTTTGGATACATCCTTTTCAAC
Found at i:12415768 original size:18 final size:18
Alignment explanation
Indices: 12415733--12415775 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
12415723 CAAGGTCACG
**
12415733 ATCAATAGTGTCACTATC
1 ATCAATAGCATCACTATC
*
12415751 ATCAATAGCATCATTATC
1 ATCAATAGCATCACTATC
*
12415769 ATTAATA
1 ATCAATA
12415776 TTGATATCAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.35
Consensus pattern (18 bp):
ATCAATAGCATCACTATC
Found at i:12419810 original size:15 final size:15
Alignment explanation
Indices: 12419787--12419823 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
12419777 TTTATAATGC
*
12419787 TATTGTTGTTATTAT
1 TATTATTGTTATTAT
12419802 TATTATTGTTATTAT
1 TATTATTGTTATTAT
*
12419817 TACTATT
1 TATTATT
12419824 ATTAATATAG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.24, C:0.03, G:0.08, T:0.65
Consensus pattern (15 bp):
TATTATTGTTATTAT
Found at i:12419889 original size:15 final size:15
Alignment explanation
Indices: 12419862--12419895 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
12419852 TTTATATCTA
12419862 TTTACTTACTTTTAT
1 TTTACTTACTTTTAT
12419877 TTTACATTA-TTTTAT
1 TTTAC-TTACTTTTAT
12419892 TTTA
1 TTTA
12419896 TTATGTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 15 0.83
16 3 0.17
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (15 bp):
TTTACTTACTTTTAT
Found at i:12420716 original size:31 final size:32
Alignment explanation
Indices: 12420657--12420721 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
12420647 GGCAAATTAC
12420657 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
12420689 AAGAGTAATTGAATCCTAAT-AAAACTCTTTA
1 AAGAGTAATTGAATCCTAATAAAAACTCTTTA
12420720 AA
1 AA
12420722 ATTATCTAAG
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
31 13 0.39
32 20 0.61
ACGTcount: A:0.48, C:0.12, G:0.09, T:0.31
Consensus pattern (32 bp):
AAGAGTAATTGAATCCTAATAAAAACTCTTTA
Found at i:12443617 original size:102 final size:103
Alignment explanation
Indices: 12443283--12443638 Score: 606
Period size: 103 Copynumber: 3.5 Consensus size: 103
12443273 ATTGCATATA
12443283 AAGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
12443348 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
*
12443386 AAGGGGTTGCTGTGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
1 AAGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
12443451 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
66 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
* * * * *
12443489 GAGGGGTTGCTAAGTGCTGATTCCCCTATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGCATC
1 AAGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
* *
12443554 TGAAATGTG-AGGGGGGTTGCTAAGTGCTGATTCCCCC
66 TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
* * *
12443591 AAGGGGTTGCTGTGTGCTGATTCCCCTATTCATTAGTGGTTGCTAAGT
1 AAGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGT
12443639 ACAGAATCTA
Statistics
Matches: 240, Mismatches: 13, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
102 71 0.30
103 169 0.70
ACGTcount: A:0.18, C:0.20, G:0.29, T:0.33
Consensus pattern (103 bp):
AAGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTTGCTAAGTGCTGATTCCACCGTATT
TTAAATGTGAAAGGGGGTTGCTAAGTGCTGATTCCCCC
Found at i:12453656 original size:37 final size:37
Alignment explanation
Indices: 12453606--12453684 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
12453596 TTATTACGAA
* * *
12453606 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTAATCGG
*
12453643 GTCTTACCCGGACAAAATCCCCACACGTAGTAATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTAATCGG
12453680 GTCTT
1 GTCTT
12453685 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTAATCGG
Found at i:12453881 original size:47 final size:47
Alignment explanation
Indices: 12453803--12454216 Score: 659
Period size: 47 Copynumber: 8.7 Consensus size: 47
12453793 CCCTTCGGGA
* * * * * *
12453803 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
12453850 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12453897 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12453944 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12453991 CTTATCACATATATTACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATA-TACACTTTCACATTCATCACATCGGCCATTAGGC
12454039 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12454086 CTTATCACATATATACACTTTCACATTCATCACATCGTCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12454133 CTTACCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
12454182 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
12454217 AGAATCCTAA
Statistics
Matches: 344, Mismatches: 19, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
46 1 0.00
47 252 0.73
48 47 0.14
49 44 0.13
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:12454058 original size:142 final size:142
Alignment explanation
Indices: 12453803--12454216 Score: 670
Period size: 142 Copynumber: 2.9 Consensus size: 142
12453793 CCCTTCGGGA
* * * * * * * *
12453803 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATA-TACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATTACA
12453867 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
12453932 CGGCCATTAGGC
131 CGGCCATTAGGC
*
12453944 CTTATCATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATTACA
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATTACA
12454009 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
66 CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
12454074 CGGCCATTAGGC
131 CGGCCATTAGGC
* *
12454086 CTTATCACATATATACACTTTCACATTCATCACATCGTCCATTAGGCCTTACCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATAT-TAC
* * *
12454151 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCAC
65 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCAC
12454215 AT
129 AT
12454217 AGAATCCTAA
Statistics
Matches: 255, Mismatches: 15, Indels: 4
0.93 0.05 0.01
Matches are distributed among these distances:
141 51 0.20
142 140 0.55
143 64 0.25
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (142 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATTACA
CTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
CGGCCATTAGGC
Found at i:12457818 original size:40 final size:40
Alignment explanation
Indices: 12457788--12458137 Score: 522
Period size: 40 Copynumber: 8.8 Consensus size: 40
12457778 AGCATGATTA
* * * *
12457788 CTCTTCGGGACCTAGCCCGGATATAACACCAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* * * *
12457828 CTCTTCGAGG-TTTAGCACGGATATATTACTAGCACGAATG
1 CTCTTCG-GGACTTAGCCCGGATACATCACTAGCACGAATG
*
12457868 CTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
12457908 CTCTTTGAGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
*
12457948 CTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
12457988 CTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAATA
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
12458028 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
12458068 CTCTTCGAGACTTAGCCCTGATACATCACTAGCACGAATG
1 CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
* *
12458108 CTCCTCGGGACTTAGCCCGGATATATCACT
1 CTCTTCGGGACTTAGCCCGGATACATCACT
12458138 CTCAATTCTC
Statistics
Matches: 284, Mismatches: 24, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
39 1 0.00
40 281 0.99
41 2 0.01
ACGTcount: A:0.27, C:0.29, G:0.20, T:0.24
Consensus pattern (40 bp):
CTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATG
Found at i:12459351 original size:37 final size:37
Alignment explanation
Indices: 12459301--12459379 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
12459291 TTATTACGAA
* * *
12459301 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
12459338 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
12459375 GTCTT
1 GTCTT
12459380 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:12459576 original size:47 final size:47
Alignment explanation
Indices: 12459498--12459908 Score: 666
Period size: 47 Copynumber: 8.7 Consensus size: 47
12459488 CCCTTCGGGA
* * * * * *
12459498 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
12459545 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12459592 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12459639 CTTAT--CATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12459684 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12459731 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
12459778 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
12459825 CTTACCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
12459874 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATTCATCACAT
12459909 AGAATCCTAA
Statistics
Matches: 344, Mismatches: 15, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
45 45 0.13
46 1 0.00
47 253 0.74
49 45 0.13
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:12459759 original size:139 final size:140
Alignment explanation
Indices: 12459498--12459908 Score: 655
Period size: 139 Copynumber: 2.9 Consensus size: 140
12459488 CCCTTCGGGA
* * * * * * * *
12459498 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTAT-ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
12459563 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
65 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
12459628 GGCCATTAGGC
130 GGCCATTAGGC
12459639 CTTAT-CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
1 CTTATACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
12459703 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
66 TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
12459768 GCCATTAGGC
131 GCCATTAGGC
*
12459778 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTACCACATATATATAC
1 CTTAT-ACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* * *
12459843 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCATATATGCA-TGTTCACATCCATCAC
63 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT-TTCACATTCATCAC
12459907 AT
127 AT
12459909 AGAATCCTAA
Statistics
Matches: 253, Mismatches: 12, Indels: 8
0.93 0.04 0.03
Matches are distributed among these distances:
139 131 0.52
141 52 0.21
142 1 0.00
143 69 0.27
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (140 bp):
CTTATACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACT
TTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCG
GCCATTAGGC
Found at i:12459812 original size:186 final size:188
Alignment explanation
Indices: 12459498--12459908 Score: 675
Period size: 186 Copynumber: 2.2 Consensus size: 188
12459488 CCCTTCGGGA
* * * * *
12459498 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
12459563 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
*
12459628 GGCCATTAGGCCTTA-TC-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTACACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
12459684 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
12459749 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
12459814 GGCCATTAGGCCTTACCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
131 GGCCATTAGGCCTTA-CACA-ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
12459874 CTTATCTCATATATGCA-TGTTCACATCCATCACAT
1 CTTATCACATATATACACT-TTCACATCCATCACAT
12459909 AGAATCCTAA
Statistics
Matches: 208, Mismatches: 12, Indels: 6
0.92 0.05 0.03
Matches are distributed among these distances:
186 137 0.66
188 1 0.00
189 1 0.00
190 69 0.33
ACGTcount: A:0.29, C:0.30, G:0.09, T:0.32
Consensus pattern (188 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTACACAATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:12465695 original size:17 final size:18
Alignment explanation
Indices: 12465665--12465703 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
12465655 TTGTTTGGTG
12465665 TATTACATAAAATT-AAA
1 TATTACATAAAATTAAAA
* *
12465682 TATTATATATAATTAAAA
1 TATTACATAAAATTAAAA
12465700 TATT
1 TATT
12465704 TAGTAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 12 0.63
18 7 0.37
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (18 bp):
TATTACATAAAATTAAAA
Found at i:12466272 original size:17 final size:17
Alignment explanation
Indices: 12466250--12466284 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
12466240 TACTTTAAAT
* *
12466250 TCTTTTTATTAATTTAA
1 TCTTTTAATTAATATAA
12466267 TCTTTTAATTAATATAA
1 TCTTTTAATTAATATAA
12466284 T
1 T
12466285 TATTCAAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (17 bp):
TCTTTTAATTAATATAA
Found at i:12477117 original size:110 final size:110
Alignment explanation
Indices: 12476853--12477379 Score: 803
Period size: 110 Copynumber: 4.8 Consensus size: 110
12476843 TTTCTAATTG
* * * *
12476853 AGGCAATATTTAGCGTTTGGAAATTTGAGAAAACATGCCCTAAGGTGTTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
12476918 CGTTCAACCAAATAGCTAAATATCCTTTT-AAAAATTTTAAAATA
66 CGTTCAACCAAATAGCTAAATATCCTTTTCAAAAATTTTAAAATA
12476962 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* *
12477027 CGTTCAACCAAATGGCTTAATATCCTTTTCAAAAATTTTAAAATA
66 CGTTCAACCAAATAGCTAAATATCCTTTTCAAAAATTTTAAAATA
* *
12477072 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGTCCTAAGGTGCTGGATGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* * *
12477137 CGTTCAACCAAATGGCTTAATATTCTTTTCAAAAATTTTAAAATA
66 CGTTCAACCAAATAGCTAAATATCCTTTTCAAAAATTTTAAAATA
* * * *
12477182 AGGCAATGTTTTACTTTTGGAAATTCGAGAAAATATGCCCTAACGTGCTGGGTGTCGATTTTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
*
12477247 CGTTCAACCAAATAGCTAAATATCC-TTTCAAAAAATTTCAAAATA
66 CGTTCAACCAAATAGCTAAATATCCTTTTC-AAAAATTTTAAAATA
* * * *
12477292 AGGCAATGTTTTGTGTTTGGAAATTCGAG-GAACGTGCCCTAAGGTGCTGGGTTTCGA--TTTCT
1 AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
* * *
12477354 CGTTTAACCAAATTGCCAAATATCCT
66 CGTTCAACCAAATAGCTAAATATCCT
12477380 ATTGAATTTT
Statistics
Matches: 385, Mismatches: 30, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
107 27 0.07
109 115 0.30
110 243 0.63
ACGTcount: A:0.31, C:0.16, G:0.19, T:0.35
Consensus pattern (110 bp):
AGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACATGCCCTAAGGTGCTGGGTGTCGATTTTTCT
CGTTCAACCAAATAGCTAAATATCCTTTTCAAAAATTTTAAAATA
Found at i:12483887 original size:2 final size:2
Alignment explanation
Indices: 12483880--12483912 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
12483870 CCTTTCCTTC
12483880 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
12483913 AAATGGCAGC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:12490626 original size:57 final size:57
Alignment explanation
Indices: 12490538--12490653 Score: 232
Period size: 57 Copynumber: 2.0 Consensus size: 57
12490528 TCATGCTCAC
12490538 TTCTACAAAATTTACCTAAGCTAGATTTCAATACGAAAGGTTATCCTTGTTATGTTT
1 TTCTACAAAATTTACCTAAGCTAGATTTCAATACGAAAGGTTATCCTTGTTATGTTT
12490595 TTCTACAAAATTTACCTAAGCTAGATTTCAATACGAAAGGTTATCCTTGTTATGTTT
1 TTCTACAAAATTTACCTAAGCTAGATTTCAATACGAAAGGTTATCCTTGTTATGTTT
12490652 TT
1 TT
12490654 TGTGTGGGTG
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.31, C:0.16, G:0.12, T:0.41
Consensus pattern (57 bp):
TTCTACAAAATTTACCTAAGCTAGATTTCAATACGAAAGGTTATCCTTGTTATGTTT
Found at i:12499059 original size:21 final size:21
Alignment explanation
Indices: 12499035--12499074 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
12499025 CCCTTATTCA
12499035 AAAAATTTTATATGTTATCTC
1 AAAAATTTTATATGTTATCTC
*
12499056 AAAACTTTTATATGTTATC
1 AAAAATTTTATATGTTATC
12499075 GATTCAGTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.38, C:0.10, G:0.05, T:0.47
Consensus pattern (21 bp):
AAAAATTTTATATGTTATCTC
Found at i:12500453 original size:19 final size:20
Alignment explanation
Indices: 12500431--12500468 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
12500421 ATATAAATAG
12500431 ATAAATAAAATAT-AATAAC
1 ATAAATAAAATATCAATAAC
* *
12500450 ATAATTACAATATCAATAA
1 ATAAATAAAATATCAATAA
12500469 GGCTAGTGGT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
ATAAATAAAATATCAATAAC
Found at i:12503222 original size:26 final size:26
Alignment explanation
Indices: 12503179--12503260 Score: 83
Period size: 26 Copynumber: 3.1 Consensus size: 26
12503169 GTACTAAAGT
* *
12503179 TTATTTATTTTCTTACTTTGGTCTTAA
1 TTATTT-TTTTATCACTTTGGTCTTAA
* *
12503206 TTATTTTTTTGTCACTTTGGTTTTAA
1 TTATTTTTTTATCACTTTGGTCTTAA
* * *
12503232 TTATTGTTTTATCATTTTAGTTCTTAA
1 TTATTTTTTTATCACTTT-GGTCTTAA
12503259 TT
1 TT
12503261 TTCTAAATTT
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
26 32 0.70
27 14 0.30
ACGTcount: A:0.18, C:0.09, G:0.09, T:0.65
Consensus pattern (26 bp):
TTATTTTTTTATCACTTTGGTCTTAA
Found at i:12509714 original size:19 final size:19
Alignment explanation
Indices: 12509690--12509733 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
12509680 ATGATTTAAT
12509690 TGATATGTGATACATGGTA
1 TGATATGTGATACATGGTA
*
12509709 TGATATGTGATACCTGGTA
1 TGATATGTGATACATGGTA
12509728 TGATAT
1 TGATAT
12509734 TTAGTTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.39
Consensus pattern (19 bp):
TGATATGTGATACATGGTA
Found at i:12522781 original size:50 final size:50
Alignment explanation
Indices: 12522668--12522894 Score: 222
Period size: 50 Copynumber: 4.4 Consensus size: 50
12522658 ATTTGGGCAA
* * * * *
12522668 AGAGATCCAATGTAAGACCATGTCTGGGACATTGCATTGGCATTCTTGAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA--C-CGAGA-C--G
12522724 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
* * ** *
12522774 AGAGGTCCTATGTAAGACCATGTCTGGTACATGATGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
** * * * *
12522824 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGC-ATGGACACTGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGG-CACCGAGACG
**
12522874 AGAACTCCCATGTAAGACCAT
1 AGAGGTCCCATGTAAGACCAT
12522895 ATCTAGGTTA
Statistics
Matches: 147, Mismatches: 23, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
49 3 0.02
50 100 0.68
52 1 0.01
53 4 0.03
54 1 0.01
56 38 0.26
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.23
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGACG
Found at i:12532946 original size:40 final size:40
Alignment explanation
Indices: 12532884--12532970 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 40
12532874 AATTATGGAA
* * * * *
12532884 TACTAAATATTATTTTGAGTACTGAATTGAATTGTGAAGT
1 TACTGAATATTATTATGAGTACTGAATTAAACTGTGAAAT
* * *
12532924 TACTGAATATTGTTATGTGTACTGCATTAAACTGTGAAAT
1 TACTGAATATTATTATGAGTACTGAATTAAACTGTGAAAT
12532964 TACTGAA
1 TACTGAA
12532971 GTAATGAATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 39 1.00
ACGTcount: A:0.34, C:0.08, G:0.17, T:0.40
Consensus pattern (40 bp):
TACTGAATATTATTATGAGTACTGAATTAAACTGTGAAAT
Found at i:12533224 original size:45 final size:45
Alignment explanation
Indices: 12533161--12533633 Score: 425
Period size: 45 Copynumber: 10.7 Consensus size: 45
12533151 CAGGCACTTA
* * * * *
12533161 TGTGCCGACTACTGTTACTGTTACTATTACCGATTCGACACTTTA
1 TGTGTCGAATACTGTTACTGTTACTGTTACAGATTCGACACTTTG
* * * * *
12533206 TGTGTTGAATACTATTACTGTTACTGTTACTGATTCGGCACTTTA
1 TGTGTCGAATACTGTTACTGTTACTGTTACAGATTCGACACTTTG
* *
12533251 AGTGTCGAATACTGTTACTGTTACTGTTACTGATTC-AGCACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACAGATTCGA-CACTTTG
* * * *
12533296 TGTGTTGAATACTGTTACTGTTACTATTACCGATTCGGCACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACAGATTCGACACTTTG
* *
12533341 TGTGTCAAATACTGTAACTGTTACTGTTACAGATTCGACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACAGATTCGACACTTTG
* *
12533386 TGTGTTG-A-A----TACTG--A----TACAGATTCGGCACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACAGATTCGACACTTTG
*
12533419 TGTGTCGAATACTGTTACTGTTACTGTTACTGTTACCGATTCGACACTTTT
1 TGTGTCGAATACTGTTACTGTTACTGTTAC----A--GATTCGACACTTTG
* * * * * *
12533470 TGTGTCAAATATTGTTACCGTTACTATTACCGATTTGACACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACAGATTCGACACTTTG
* * * *
12533515 TGTGTCAAATACTGTTACCGTTACTGTTACAAATTCGGCACTTTG
1 TGTGTCGAATACTGTTACTGTTACTGTTACAGATTCGACACTTTG
* * * * *
12533560 TGTGTCTAATATTGTTACTG-TACTGTTATAGATTCAACACTTTA
1 TGTGTCGAATACTGTTACTGTTACTGTTACAGATTCGACACTTTG
* * * *
12533604 TGTGTTGAATAATGTTACTATCACTGTTAC
1 TGTGTCGAATACTGTTACTGTTACTGTTAC
12533634 TGCTACCGTT
Statistics
Matches: 350, Mismatches: 57, Indels: 42
0.78 0.13 0.09
Matches are distributed among these distances:
33 23 0.07
34 1 0.00
35 1 0.00
37 1 0.00
39 9 0.03
41 1 0.00
43 1 0.00
44 36 0.10
45 238 0.68
49 1 0.00
51 38 0.11
ACGTcount: A:0.23, C:0.18, G:0.18, T:0.41
Consensus pattern (45 bp):
TGTGTCGAATACTGTTACTGTTACTGTTACAGATTCGACACTTTG
Found at i:12533399 original size:33 final size:33
Alignment explanation
Indices: 12533362--12533436 Score: 123
Period size: 33 Copynumber: 2.3 Consensus size: 33
12533352 CTGTAACTGT
*
12533362 TACTGTTACAGATTCGACACTTTGTGTGTTGAA
1 TACTGTTACAGATTCGACACTTTGTGTGTCGAA
* *
12533395 TACTGATACAGATTCGGCACTTTGTGTGTCGAA
1 TACTGTTACAGATTCGACACTTTGTGTGTCGAA
12533428 TACTGTTAC
1 TACTGTTAC
12533437 TGTTACTGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 38 1.00
ACGTcount: A:0.24, C:0.17, G:0.21, T:0.37
Consensus pattern (33 bp):
TACTGTTACAGATTCGACACTTTGTGTGTCGAA
Found at i:12533439 original size:6 final size:6
Alignment explanation
Indices: 12533428--12533454 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
12533418 GTGTGTCGAA
12533428 TACTGT TACTGT TACTGT TACTGT TAC
1 TACTGT TACTGT TACTGT TACTGT TAC
12533455 CGATTCGACA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.19, C:0.19, G:0.15, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:12536387 original size:35 final size:36
Alignment explanation
Indices: 12536312--12536393 Score: 105
Period size: 35 Copynumber: 2.3 Consensus size: 36
12536302 TACTATCTGT
* *
12536312 TTTGGTGTGTTTCGATTGGACTAACTCTTATAAGCA
1 TTTGGTGTGTTTCGAATGGACTAACTCTTACAAGCA
** *
12536348 -TTGGTGTGTTTCGAATGGACTGGCTC-TACGAGCA
1 TTTGGTGTGTTTCGAATGGACTAACTCTTACAAGCA
12536382 TTTGGTGTGTTT
1 TTTGGTGTGTTT
12536394 GGGTGGTTTG
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
34 6 0.15
35 34 0.85
ACGTcount: A:0.17, C:0.13, G:0.28, T:0.41
Consensus pattern (36 bp):
TTTGGTGTGTTTCGAATGGACTAACTCTTACAAGCA
Found at i:12542893 original size:42 final size:42
Alignment explanation
Indices: 12542830--12542923 Score: 111
Period size: 42 Copynumber: 2.3 Consensus size: 42
12542820 TTACACGGTT
* * * *
12542830 TGAG-CACACGGGGGTGTGGGGTAACTAAACGGCCATGTCCC
1 TGAGCCACACGAGCGTGTGGGGTAACCAAACGGCCATGCCCC
* *
12542871 T-ATGCCACACGAGCGTGTGGGGTAGCCACACGGCCATGCCCC
1 TGA-GCCACACGAGCGTGTGGGGTAACCAAACGGCCATGCCCC
12542913 TGAGCCACACG
1 TGAGCCACACG
12542924 GTCTAGGACC
Statistics
Matches: 44, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
40 1 0.02
41 2 0.05
42 40 0.91
43 1 0.02
ACGTcount: A:0.21, C:0.31, G:0.33, T:0.15
Consensus pattern (42 bp):
TGAGCCACACGAGCGTGTGGGGTAACCAAACGGCCATGCCCC
Found at i:12547310 original size:30 final size:30
Alignment explanation
Indices: 12547276--12547343 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 30
12547266 AACCAAAAAA
12547276 GGCCGTTTTTTTTCAA-AATTTACCGAAATG
1 GGCCGTTTTTTTT-AATAATTTACCGAAATG
* * *
12547306 GGCCG-GTTTTTTAATTATTTACCGGAATG
1 GGCCGTTTTTTTTAATAATTTACCGAAATG
*
12547335 GGCCATTTT
1 GGCCGTTTT
12547344 ACGCGAAATC
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
28 2 0.06
29 22 0.71
30 7 0.23
ACGTcount: A:0.22, C:0.16, G:0.21, T:0.41
Consensus pattern (30 bp):
GGCCGTTTTTTTTAATAATTTACCGAAATG
Found at i:12547315 original size:29 final size:29
Alignment explanation
Indices: 12547283--12547338 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
12547273 AAAGGCCGTT
12547283 TTTTTTCAA-AATTTACCGAAATGGGCCGG
1 TTTTTT-AATAATTTACCGAAATGGGCCGG
* *
12547312 TTTTTTAATTATTTACCGGAATGGGCC
1 TTTTTTAATAATTTACCGAAATGGGCC
12547339 ATTTTACGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.25, C:0.16, G:0.20, T:0.39
Consensus pattern (29 bp):
TTTTTTAATAATTTACCGAAATGGGCCGG
Found at i:12548258 original size:12 final size:12
Alignment explanation
Indices: 12548241--12548265 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
12548231 GGTGTTCATT
12548241 CGGTTAACCGAC
1 CGGTTAACCGAC
12548253 CGGTTAACCGAC
1 CGGTTAACCGAC
12548265 C
1 C
12548266 CGAAATTACT
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:12548439 original size:9 final size:9
Alignment explanation
Indices: 12548425--12548501 Score: 93
Period size: 9 Copynumber: 8.4 Consensus size: 9
12548415 TTTGGTTAAA
12548425 AATTACCCG
1 AATTACCCG
12548434 AATTACCCG
1 AATTACCCG
12548443 AATTACCCG
1 AATTACCCG
* *
12548452 AATTAACCA
1 AATTACCCG
*
12548461 AATTAACCG
1 AATTACCCG
12548470 AATTA-CCG
1 AATTACCCG
*
12548478 AAAAATACCCG
1 --AATTACCCG
12548489 AATTACCCG
1 AATTACCCG
12548498 AATT
1 AATT
12548502 TTTTTTATTT
Statistics
Matches: 60, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
8 3 0.05
9 50 0.83
10 4 0.07
11 3 0.05
ACGTcount: A:0.42, C:0.27, G:0.09, T:0.22
Consensus pattern (9 bp):
AATTACCCG
Found at i:12548464 original size:27 final size:27
Alignment explanation
Indices: 12548435--12548501 Score: 55
Period size: 28 Copynumber: 2.4 Consensus size: 27
12548425 AATTACCCGA
* * *
12548435 ATTACCCGAATTACCCGAATTAACCAA
1 ATTACCCGAATTAACCAAATTAACCGA
* * *
12548462 ATTAACCGAATT-ACCGAAAAATACCCGA
1 ATTACCCGAATTAACC--AAATTAACCGA
12548490 ATTACCCGAATT
1 ATTACCCGAATT
12548502 TTTTTTATTT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
26 2 0.06
27 11 0.35
28 18 0.58
ACGTcount: A:0.42, C:0.27, G:0.09, T:0.22
Consensus pattern (27 bp):
ATTACCCGAATTAACCAAATTAACCGA
Found at i:12548528 original size:6 final size:7
Alignment explanation
Indices: 12548502--12548527 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12548492 TACCCGAATT
12548502 TTTTTTA
1 TTTTTTA
12548509 TTTTTTA
1 TTTTTTA
12548516 TTTTTTA
1 TTTTTTA
12548523 TTTTT
1 TTTTT
12548528 AAAATTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTA
Found at i:12549918 original size:6 final size:6
Alignment explanation
Indices: 12549907--12549932 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
12549897 TTTTTAGCTA
12549907 ATAATT ATAATT ATAATT ATAATT AT
1 ATAATT ATAATT ATAATT ATAATT AT
12549933 TTTTAAATGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (6 bp):
ATAATT
Found at i:12579473 original size:15 final size:16
Alignment explanation
Indices: 12579438--12579475 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
12579428 TAATTTTTAT
*
12579438 ATTGAATTTTGAATTG
1 ATTGAATTTTGAATTA
12579454 A-TGAATTTT-AATTA
1 ATTGAATTTTGAATTA
12579468 ATTGAATT
1 ATTGAATT
12579476 AGTGGTTAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
14 5 0.25
15 14 0.70
16 1 0.05
ACGTcount: A:0.37, C:0.00, G:0.13, T:0.50
Consensus pattern (16 bp):
ATTGAATTTTGAATTA
Found at i:12580580 original size:54 final size:54
Alignment explanation
Indices: 12580517--12580632 Score: 232
Period size: 54 Copynumber: 2.1 Consensus size: 54
12580507 TAAAAATTCC
12580517 TTAAAAGACTCAGTTGTATAAAATGATTTAATATTTGCTGTTGGAATTAGTTAA
1 TTAAAAGACTCAGTTGTATAAAATGATTTAATATTTGCTGTTGGAATTAGTTAA
12580571 TTAAAAGACTCAGTTGTATAAAATGATTTAATATTTGCTGTTGGAATTAGTTAA
1 TTAAAAGACTCAGTTGTATAAAATGATTTAATATTTGCTGTTGGAATTAGTTAA
12580625 TTAAAAGA
1 TTAAAAGA
12580633 AATTATTATT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 62 1.00
ACGTcount: A:0.39, C:0.05, G:0.16, T:0.40
Consensus pattern (54 bp):
TTAAAAGACTCAGTTGTATAAAATGATTTAATATTTGCTGTTGGAATTAGTTAA
Found at i:12583259 original size:45 final size:45
Alignment explanation
Indices: 12583152--12583339 Score: 213
Period size: 45 Copynumber: 4.2 Consensus size: 45
12583142 ACACTTCGAA
* * *
12583152 ATAAT-AATAGATACACGGTGG-ATCAGCACATAGC-ACCACCCTT
1 ATAATCAAT-GATACCCGGTGGAATCAGCACACAGCAACCACCTTT
* * * * * * *
12583195 ATAGTCAATGATACTCGGTGGAATCAACACATAACAATCACCTTC
1 ATAATCAATGATACCCGGTGGAATCAGCACACAGCAACCACCTTT
* *
12583240 ATAATCAAT-AGTACCCGGTGTAATCAGCACACATCAACCACCTTT
1 ATAATCAATGA-TACCCGGTGGAATCAGCACACAGCAACCACCTTT
*
12583285 ATAATTAATGATACCCGGTGGAATCAGCACACAGCAACCACCTTT
1 ATAATCAATGATACCCGGTGGAATCAGCACACAGCAACCACCTTT
12583330 ATAATCAATG
1 ATAATCAATG
12583340 GTACTTGGTA
Statistics
Matches: 121, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
43 15 0.12
44 15 0.12
45 90 0.74
46 1 0.01
ACGTcount: A:0.37, C:0.26, G:0.14, T:0.23
Consensus pattern (45 bp):
ATAATCAATGATACCCGGTGGAATCAGCACACAGCAACCACCTTT
Found at i:12585978 original size:3 final size:3
Alignment explanation
Indices: 12585970--12586007 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
12585960 CTTAAGGAGA
12585970 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AA
12586008 CCTCTTTCAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:12590430 original size:30 final size:30
Alignment explanation
Indices: 12590359--12590422 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
12590349 GGGTAACCTC
* * *
12590359 GATATAATGTCAGCTTGTGTGAGCAATCTT
1 GATAAAATGTCAGCTTGTGTGAGCAACCAT
*
12590389 GTTAAAATGTCAGCTTGTGTGAGCAACCAT
1 GATAAAATGTCAGCTTGTGTGAGCAACCAT
12590419 GATA
1 GATA
12590423 CATTGTCAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (30 bp):
GATAAAATGTCAGCTTGTGTGAGCAACCAT
Found at i:12593200 original size:21 final size:21
Alignment explanation
Indices: 12593174--12593238 Score: 80
Period size: 20 Copynumber: 3.2 Consensus size: 21
12593164 AATAATTTAA
* *
12593174 AAAATTATCTAAGAATTTACC
1 AAAATTATATAAGAAGTTACC
12593195 AAAATT-TATAAGAAGTTACC
1 AAAATTATATAAGAAGTTACC
* *
12593215 AAAA-TATTTAAGGAGTTACC
1 AAAATTATATAAGAAGTTACC
12593235 AAAA
1 AAAA
12593239 CTTCTAACCT
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
19 1 0.03
20 32 0.82
21 6 0.15
ACGTcount: A:0.51, C:0.11, G:0.09, T:0.29
Consensus pattern (21 bp):
AAAATTATATAAGAAGTTACC
Found at i:12593294 original size:41 final size:40
Alignment explanation
Indices: 12593247--12593341 Score: 154
Period size: 41 Copynumber: 2.4 Consensus size: 40
12593237 AACTTCTAAC
*
12593247 CTTTTACCGAAATTCCTTAAAAGTTAATAAAATTTTGTAAG
1 CTTTTACCAAAATTCCTTAAAAGTTAATAAAA-TTTGTAAG
* *
12593288 CTTTTACCAAAATTTCTTAAAATTTAATAAAATTTGTAAG
1 CTTTTACCAAAATTCCTTAAAAGTTAATAAAATTTGTAAG
12593328 CTTTTACCAAAATT
1 CTTTTACCAAAATT
12593342 ATATTTTTTA
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
40 22 0.43
41 29 0.57
ACGTcount: A:0.40, C:0.13, G:0.06, T:0.41
Consensus pattern (40 bp):
CTTTTACCAAAATTCCTTAAAAGTTAATAAAATTTGTAAG
Found at i:12593319 original size:20 final size:20
Alignment explanation
Indices: 12593256--12593322 Score: 55
Period size: 20 Copynumber: 3.3 Consensus size: 20
12593246 CCTTTTACCG
* *
12593256 AAATTCCTTAAAAGTTAATA
1 AAATTTCTTAAAATTTAATA
** **
12593276 AAATTT-TGTAAGCTTTTACCA
1 AAATTTCT-TAA-AATTTAATA
12593297 AAATTTCTTAAAATTTAATA
1 AAATTTCTTAAAATTTAATA
12593317 AAATTT
1 AAATTT
12593323 GTAAGCTTTT
Statistics
Matches: 34, Mismatches: 10, Indels: 6
0.68 0.20 0.12
Matches are distributed among these distances:
19 1 0.03
20 19 0.56
21 13 0.38
22 1 0.03
ACGTcount: A:0.45, C:0.09, G:0.04, T:0.42
Consensus pattern (20 bp):
AAATTTCTTAAAATTTAATA
Found at i:12593339 original size:20 final size:20
Alignment explanation
Indices: 12593275--12593341 Score: 64
Period size: 20 Copynumber: 3.3 Consensus size: 20
12593265 AAAAGTTAAT
12593275 AAAATTTTGTAAGCTTTTACC
1 AAAA-TTTGTAAGCTTTTACC
* ** **
12593296 AAAATTTCTTAA-AATTTAAT
1 AAAATTT-GTAAGCTTTTACC
12593316 AAAATTTGTAAGCTTTTACC
1 AAAATTTGTAAGCTTTTACC
12593336 AAAATT
1 AAAATT
12593342 ATATTTTTTA
Statistics
Matches: 34, Mismatches: 10, Indels: 5
0.69 0.20 0.10
Matches are distributed among these distances:
19 3 0.09
20 24 0.71
21 7 0.21
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (20 bp):
AAAATTTGTAAGCTTTTACC
Found at i:12593430 original size:40 final size:39
Alignment explanation
Indices: 12593346--12593446 Score: 100
Period size: 40 Copynumber: 2.5 Consensus size: 39
12593336 AAAATTATAT
* * *
12593346 TTTTTAATGATTTACCCAAAAT-TCTAACTATTTACCAATA
1 TTTTTAA-GATTTA-CCAATATATCTAACGATTTACAAATA
12593386 TTTTTGAA-ACTTTACCAATATATCTAACGATTTATCAAAT-
1 TTTTT-AAGA-TTTACCAATATATCTAACGATTTA-CAAATA
12593426 TTTTTAAGGATTTACCAATAT
1 TTTTTAA-GATTTACCAATAT
12593447 TTTTGAGACT
Statistics
Matches: 52, Mismatches: 3, Indels: 12
0.78 0.04 0.18
Matches are distributed among these distances:
39 9 0.17
40 36 0.69
41 7 0.13
ACGTcount: A:0.37, C:0.15, G:0.05, T:0.44
Consensus pattern (39 bp):
TTTTTAAGATTTACCAATATATCTAACGATTTACAAATA
Found at i:12593439 original size:60 final size:60
Alignment explanation
Indices: 12593375--12593502 Score: 168
Period size: 60 Copynumber: 2.1 Consensus size: 60
12593365 AATTCTAACT
* *
12593375 ATTTACCAATATTTTTGAAACTTTACCAA-TATATCTAACGATTTATCAAATTTTTTAAGG
1 ATTTACCAATATTTTTGAAACTTTACCAATTA-ATCTAACCACTTATCAAATTTTTTAAGG
* * * ** *
12593435 ATTTACCAATATTTTTGAGACTTTACTAATTAATCTAACCACTTGTTGAATTTTTTAGGG
1 ATTTACCAATATTTTTGAAACTTTACCAATTAATCTAACCACTTATCAAATTTTTTAAGG
12593495 ATTTACCA
1 ATTTACCA
12593503 TGATATCTAA
Statistics
Matches: 59, Mismatches: 8, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
60 57 0.97
61 2 0.03
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.44
Consensus pattern (60 bp):
ATTTACCAATATTTTTGAAACTTTACCAATTAATCTAACCACTTATCAAATTTTTTAAGG
Found at i:12593449 original size:20 final size:19
Alignment explanation
Indices: 12593375--12593460 Score: 68
Period size: 20 Copynumber: 4.3 Consensus size: 19
12593365 AATTCTAACT
12593375 ATTTACCAATATTTTTGAA-
1 ATTTACCAATATTTTT-AAG
* *
12593394 ACTTTACCAATATATCTAACG
1 A-TTTACCAATATTTTTAA-G
*
12593415 ATTTATCAA-ATTTTTTAAGG
1 ATTTACCAATA-TTTTTAA-G
*
12593435 ATTTACCAATATTTTTGAG
1 ATTTACCAATATTTTTAAG
12593454 ACTTTAC
1 A-TTTAC
12593461 TAATTAATCT
Statistics
Matches: 53, Mismatches: 8, Indels: 11
0.74 0.11 0.15
Matches are distributed among these distances:
19 6 0.11
20 45 0.85
21 2 0.04
ACGTcount: A:0.35, C:0.14, G:0.07, T:0.44
Consensus pattern (19 bp):
ATTTACCAATATTTTTAAG
Found at i:12593620 original size:20 final size:20
Alignment explanation
Indices: 12593595--12593641 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
12593585 AAAATATTTG
*
12593595 AGGATTTATCAATATTTCTA
1 AGGATTTATCAAAATTTCTA
* *
12593615 ATGATTGATCAAAATTTCTA
1 AGGATTTATCAAAATTTCTA
12593635 AGGATTT
1 AGGATTT
12593642 CATTTGTATC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.09, G:0.13, T:0.43
Consensus pattern (20 bp):
AGGATTTATCAAAATTTCTA
Found at i:12593741 original size:20 final size:20
Alignment explanation
Indices: 12593678--12593832 Score: 78
Period size: 20 Copynumber: 7.8 Consensus size: 20
12593668 CATCTAAGCC
* * *
12593678 TTTACCAAAATTTTTGAGAC
1 TTTACCAAAATTTCTAAGAA
* *
12593698 TTTACCAACATTTCTAACAA
1 TTTACCAAAATTTCTAAGAA
**
12593718 TTTACCAAAATTTCTAAGGT
1 TTTACCAAAATTTCTAAGAA
** * *
12593738 TTTAGTAAAATATC-AGAGGA
1 TTTACCAAAATTTCTA-AGAA
* * * * **
12593758 TTTACTAATATTCCCAAGCC
1 TTTACCAAAATTTCTAAGAA
* * *
12593778 CTTATCAAAATTTCTAAGAC
1 TTTACCAAAATTTCTAAGAA
* * *
12593798 TTTACCAATATATCTAACAA
1 TTTACCAAAATTTCTAAGAA
*
12593818 TTTACCAATATTTCT
1 TTTACCAAAATTTCT
12593833 GACACTTTAA
Statistics
Matches: 100, Mismatches: 33, Indels: 4
0.73 0.24 0.03
Matches are distributed among these distances:
19 1 0.01
20 98 0.98
21 1 0.01
ACGTcount: A:0.37, C:0.19, G:0.06, T:0.37
Consensus pattern (20 bp):
TTTACCAAAATTTCTAAGAA
Found at i:12593841 original size:20 final size:20
Alignment explanation
Indices: 12593790--12593841 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
12593780 TATCAAAATT
*
12593790 TCTAAGACTTTACCAATATA
1 TCTAACACTTTACCAATATA
* *
12593810 TCTAACAATTTACCAATATT
1 TCTAACACTTTACCAATATA
*
12593830 TCTGACACTTTA
1 TCTAACACTTTA
12593842 AGCGTCCCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.37, C:0.21, G:0.04, T:0.38
Consensus pattern (20 bp):
TCTAACACTTTACCAATATA
Found at i:12593916 original size:20 final size:19
Alignment explanation
Indices: 12593873--12594020 Score: 100
Period size: 20 Copynumber: 7.4 Consensus size: 19
12593863 CATCTAAGCC
* * *
12593873 TTTACCAATATTTTTGAGA
1 TTTACCAATATATCTAAGA
*
12593892 CTTTAACAATATATCTAATGA
1 -TTTACCAATATATCTAA-GA
* *
12593913 TTTACCAATATTTTTAAGCA
1 TTTACCAATATATCTAAG-A
* *
12593933 TTTATCAAAATATCTAACGA
1 TTTACCAATATATCTAA-GA
* *
12593953 TTTACCAAAATCTCTAAGAA
1 TTTACCAATATATCTAAG-A
*
12593973 TTTATC-ATAATATCTAAGGA
1 TTTACCAAT-ATATCTAA-GA
* *
12593993 TTTACCAATATTTCTAAGCG
1 TTTACCAATATATCTAAG-A
12594013 TTTACCAA
1 TTTACCAA
12594021 AATTTCTTAA
Statistics
Matches: 101, Mismatches: 19, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
19 4 0.04
20 91 0.90
21 6 0.06
ACGTcount: A:0.39, C:0.16, G:0.07, T:0.39
Consensus pattern (19 bp):
TTTACCAATATATCTAAGA
Found at i:12593919 original size:40 final size:40
Alignment explanation
Indices: 12593873--12594010 Score: 154
Period size: 40 Copynumber: 3.5 Consensus size: 40
12593863 CATCTAAGCC
* * *
12593873 TTTACCAATATTTTTGAGACTTTAACAATATATCTAATGA
1 TTTACCAATATTTTTAAGACTTTATCAATATATCTAACGA
*
12593913 TTTACCAATATTTTTAAG-CATTTATCAAAATATCTAACGA
1 TTTACCAATATTTTTAAGAC-TTTATCAATATATCTAACGA
* * * * *
12593953 TTTACCAAAATCTCTAAGAATTTATC-ATAATATCTAAGGA
1 TTTACCAATATTTTTAAGACTTTATCAAT-ATATCTAACGA
*
12593993 TTTACCAATATTTCTAAG
1 TTTACCAATATTTTTAAG
12594011 CGTTTACCAA
Statistics
Matches: 83, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
39 2 0.02
40 81 0.98
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.40
Consensus pattern (40 bp):
TTTACCAATATTTTTAAGACTTTATCAATATATCTAACGA
Found at i:12594000 original size:195 final size:195
Alignment explanation
Indices: 12593668--12594027 Score: 442
Period size: 195 Copynumber: 1.8 Consensus size: 195
12593658 TCGATTGACA
* *
12593668 CATCTAAGCCTTTACCAAAATTTTTGAGACTTTACCAACATTTCTAACAATTTACCAAAATTTCT
1 CATCTAAGCCTTTACCAAAATTTTTGAGACTTTAACAACATATCTAACAATTTACCAAAATTTCT
** * * * ** *
12593733 AAGGTTTTAGTAAAATATCAGAGGATTTACTAATATTCCCAAGCCCTTATCAAAATTTCTAAGAC
66 AAGCATTTAGTAAAATATCAGACGATTTACCAAAATTCCCAAGAACTTATCAAAATATCTAAGAC
*
12593798 TTTACCAATATATCTAA-CAATTTACCAATATTTCTGACACTTTAAGCGTCCCATACTCATCAAC
131 TTTACCAATATATCTAAGC-ATTTACCAAAATTTCTGACACTTTAAGCGTCCCATACTCATCAAC
12593862 G
195 G
* * ** * *
12593863 CATCTAAGCCTTTACCAATATTTTTGAGACTTTAACAATATATCTAATGATTTACCAATATTTTT
1 CATCTAAGCCTTTACCAAAATTTTTGAGACTTTAACAACATATCTAACAATTTACCAAAATTTCT
* * *
12593928 AAGCATTTA-TCAAAATATCTA-ACGATTTACCAAAA-TCTCTAAGAATTTATCATAATATCTAA
66 AAGCATTTAGT-AAAATATC-AGACGATTTACCAAAATTC-CCAAGAACTTATCAAAATATCTAA
* *
12593990 GGA-TTTACCAATATTTCTAAGCGTTTACCAAAATTTCT
128 -GACTTTACCAATATATCTAAGCATTTACCAAAATTTCT
12594028 TAAAAAGTAA
Statistics
Matches: 138, Mismatches: 22, Indels: 10
0.81 0.13 0.06
Matches are distributed among these distances:
194 3 0.02
195 131 0.95
196 4 0.03
ACGTcount: A:0.37, C:0.20, G:0.07, T:0.36
Consensus pattern (195 bp):
CATCTAAGCCTTTACCAAAATTTTTGAGACTTTAACAACATATCTAACAATTTACCAAAATTTCT
AAGCATTTAGTAAAATATCAGACGATTTACCAAAATTCCCAAGAACTTATCAAAATATCTAAGAC
TTTACCAATATATCTAAGCATTTACCAAAATTTCTGACACTTTAAGCGTCCCATACTCATCAACG
Found at i:12594118 original size:20 final size:21
Alignment explanation
Indices: 12594089--12594130 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
12594079 TATTTATAAC
*
12594089 AATTTGTC-AAATTATTAAAG
1 AATTTATCAAAATTATTAAAG
*
12594109 AATTTATCAAAATTTTTAAAG
1 AATTTATCAAAATTATTAAAG
12594130 A
1 A
12594131 TTTGCCAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.48, C:0.05, G:0.07, T:0.40
Consensus pattern (21 bp):
AATTTATCAAAATTATTAAAG
Found at i:12594139 original size:20 final size:21
Alignment explanation
Indices: 12594097--12594141 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
12594087 ACAATTTGTC
*
12594097 AAATTATTAAAGAATTTATCA
1 AAATTATTAAAGAATTTACCA
* *
12594118 AAATTTTTAAAG-ATTTGCCA
1 AAATTATTAAAGAATTTACCA
12594138 AAAT
1 AAAT
12594142 ATTTGAGGAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 10 0.48
21 11 0.52
ACGTcount: A:0.49, C:0.07, G:0.07, T:0.38
Consensus pattern (21 bp):
AAATTATTAAAGAATTTACCA
Found at i:12594333 original size:20 final size:20
Alignment explanation
Indices: 12594310--12594368 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
12594300 AATCTTTCTC
*
12594310 CAAAATTTCTAAGGATTTAT
1 CAAAATTTCTAAGGATTTAA
* *
12594330 CAAAATGTCTAAGTA-TTAA
1 CAAAATTTCTAAGGATTTAA
*
12594349 CTAATATTTCTAAGGATTTA
1 C-AAAATTTCTAAGGATTTA
12594369 CCTAAATATC
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.13
20 24 0.77
21 3 0.10
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.39
Consensus pattern (20 bp):
CAAAATTTCTAAGGATTTAA
Found at i:12596864 original size:116 final size:115
Alignment explanation
Indices: 12596712--12596930 Score: 303
Period size: 116 Copynumber: 1.9 Consensus size: 115
12596702 GGAGAAGGTT
* * * * *
12596712 GTCTCATCTGATATTATGTGATTTTGGGATTAAGTCTAAATGGTTCTGTATTCATTGCTTATTAA
1 GTCTCATCTAATATTATGTAATTTTAGGATCAAGTCTAAATGATTCTGTATTCATTGCTTATTAA
* * * *
12596777 TAGATGACGGGTAGACTTATATATCTTCAGAACTGGAATGGGATGGAGGAC
66 TAAATAACGAGAAGACTTATATATCTTCAGAA-TGGAATGGGATGGAGGAC
* * *
12596828 GTCTCATCTAATATTATGTAATTTTAGGATCGAGTCTAACTGATTCTGTATTCATTGCTTATTAT
1 GTCTCATCTAATATTATGTAATTTTAGGATCAAGTCTAAATGATTCTGTATTCATTGCTTATTAA
* *
12596893 TAAATAACGAGAAGATTTGTATATCTTCAGAATGGAAT
66 TAAATAACGAGAAGACTTATATATCTTCAGAATGGAAT
12596931 TTATTCTGTC
Statistics
Matches: 89, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
115 6 0.07
116 83 0.93
ACGTcount: A:0.30, C:0.11, G:0.20, T:0.39
Consensus pattern (115 bp):
GTCTCATCTAATATTATGTAATTTTAGGATCAAGTCTAAATGATTCTGTATTCATTGCTTATTAA
TAAATAACGAGAAGACTTATATATCTTCAGAATGGAATGGGATGGAGGAC
Found at i:12602237 original size:34 final size:31
Alignment explanation
Indices: 12602208--12602288 Score: 108
Period size: 34 Copynumber: 2.5 Consensus size: 31
12602198 GTTTAGAGTT
*
12602208 TTTTAAAAAATTAATTAAATTAGGTTTTAGGGG
1 TTTTAAAAAATTAATTAAATTAGGGTTTA--GG
*
12602241 TTTTAAATAAATAAATTAAATTAGGGTTTAGG
1 TTTTAAA-AAATTAATTAAATTAGGGTTTAGG
*
12602273 TTTTAAAAAAATAATT
1 TTTTAAAAAATTAATT
12602289 TTGTGTTTAG
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 7 0.16
32 9 0.21
33 7 0.16
34 20 0.47
ACGTcount: A:0.44, C:0.00, G:0.14, T:0.42
Consensus pattern (31 bp):
TTTTAAAAAATTAATTAAATTAGGGTTTAGG
Found at i:12602712 original size:125 final size:124
Alignment explanation
Indices: 12602369--12602765 Score: 539
Period size: 126 Copynumber: 3.2 Consensus size: 124
12602359 AAGGATTTTT
*
12602369 TTTTTCTACAGTAGTT-TTAGAAAAATTAATTTTGAGAAGACGGTTCT-AAAAAGATAATGTCAA
1 TTTTTCTACAGTAGTTCTT-GAAAAA-TAATTTTGAGAAGACGGTTCTGAAAAA-ATAGTGTCAA
* * * * * *
12602432 AAATGATTCAAGCAGGATGCACTATCAGCAAAATTACTGAAAAATGCTCCAACGTGGACGCTC
63 AAACGCTTCAAG-AAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
* *
12602495 TTTTTCTACAGTAGTTCTTGAAAAAATAATTTTTAGAAGACGGTTCTGAAAAAATAGTGCCAAAA
1 TTTTTCTACAGTAGTTCTTG-AAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAA
* *
12602560 ACACTTCAAGCAGAATGCACTGTCAGCAAAATTACT-ATAAAAAGCTCCCACGTGGACGCTC
65 ACGCTTCAAGAAG-ATGCACTGTCAGCAAAATTACTGA-AAAAAGCTCCCACGTGGACGCTC
* * * * *
12602621 TTTTTCTACAGTAGTTCCTGGAAAATAAATTTGAGAAGATGGTTCTGAAAAAATAGTGTAAAAAA
1 TTTTTCTACAGTAGTTCTTGAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
* *
12602686 CGCTTCAAGTAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGATGTTC
66 CGCTTCAAG-AAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
12602746 TTTTTCTACAGTAGTTCTTG
1 TTTTTCTACAGTAGTTCTTG
12602766 CTTGGCCTTA
Statistics
Matches: 241, Mismatches: 23, Indels: 15
0.86 0.08 0.05
Matches are distributed among these distances:
125 111 0.46
126 118 0.49
127 12 0.05
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.29
Consensus pattern (124 bp):
TTTTTCTACAGTAGTTCTTGAAAAATAATTTTGAGAAGACGGTTCTGAAAAAATAGTGTCAAAAA
CGCTTCAAGAAGATGCACTGTCAGCAAAATTACTGAAAAAAGCTCCCACGTGGACGCTC
Found at i:12606115 original size:18 final size:18
Alignment explanation
Indices: 12606092--12606129 Score: 67
Period size: 18 Copynumber: 2.1 Consensus size: 18
12606082 GGAAAAGAAA
*
12606092 ACATATAAGGGTTAGGAT
1 ACATATAAGGGATAGGAT
12606110 ACATATAAGGGATAGGAT
1 ACATATAAGGGATAGGAT
12606128 AC
1 AC
12606130 GCACTGACAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.42, C:0.08, G:0.26, T:0.24
Consensus pattern (18 bp):
ACATATAAGGGATAGGAT
Found at i:12607746 original size:21 final size:21
Alignment explanation
Indices: 12607699--12607765 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
12607689 GTTTACTTTT
* * *
12607699 CGTTTAGCTCTTATGAGCTTC
1 CGTTTAACTCATATGAGTTTC
**
12607720 TATTTAACTCATATGAGTTTC
1 CGTTTAACTCATATGAGTTTC
* *
12607741 CGTTTAAC-CCTAATGGGTTTC
1 CGTTTAACTCAT-ATGAGTTTC
12607762 CGTT
1 CGTT
12607766 CAGCACTATT
Statistics
Matches: 36, Mismatches: 9, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
20 2 0.06
21 34 0.94
ACGTcount: A:0.19, C:0.21, G:0.16, T:0.43
Consensus pattern (21 bp):
CGTTTAACTCATATGAGTTTC
Found at i:12607801 original size:42 final size:42
Alignment explanation
Indices: 12607731--12607843 Score: 131
Period size: 42 Copynumber: 2.7 Consensus size: 42
12607721 ATTTAACTCA
* * *
12607731 TATGAGTTTCCGTTTAACCCTAATGGGTTTCCGTTCAGC-AC
1 TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTAC
* * *
12607772 TATTGAGCTTCTGTTTAATCCTTATGGGTTTTCGTTCAGCTCC
1 TA-TGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTAC
*
12607815 TATGAGCTT-TCGTTCAACCCTTATGGGTT
1 TATGAGCTTCT-GTTTAACCCTTATGGGTT
12607844 CTGTTTAGCA
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 3 0.05
42 55 0.90
43 3 0.05
ACGTcount: A:0.17, C:0.22, G:0.19, T:0.42
Consensus pattern (42 bp):
TATGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTCAGCTAC
Found at i:12607818 original size:21 final size:21
Alignment explanation
Indices: 12607791--12607843 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
12607781 TCTGTTTAAT
*
12607791 CCTTATGGGTTTTCGTTCAGC
1 CCTTATGGGTTTTCGTTCAAC
* *
12607812 TCC-TATGAGCTTTCGTTCAAC
1 -CCTTATGGGTTTTCGTTCAAC
12607833 CCTTATGGGTT
1 CCTTATGGGTT
12607844 CTGTTTAGCA
Statistics
Matches: 25, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
20 2 0.08
21 21 0.84
22 2 0.08
ACGTcount: A:0.13, C:0.25, G:0.21, T:0.42
Consensus pattern (21 bp):
CCTTATGGGTTTTCGTTCAAC
Found at i:12611865 original size:33 final size:33
Alignment explanation
Indices: 12611828--12611922 Score: 110
Period size: 33 Copynumber: 3.0 Consensus size: 33
12611818 AGATTAATTT
* *
12611828 ATATTTGATATATCATTATATTAAATTATTTAA
1 ATATTTCATTTATCATTATATTAAATTATTTAA
**
12611861 ATATTTCATTTATCATTATATTGGATTA-TT-A
1 ATATTTCATTTATCATTATATTAAATTATTTAA
*
12611892 ATA---CATTTATCATTATGTTAAATTATTTAA
1 ATATTTCATTTATCATTATATTAAATTATTTAA
12611922 A
1 A
12611923 CCTTATGTAC
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
28 19 0.36
29 2 0.04
30 2 0.04
31 4 0.08
32 2 0.04
33 24 0.45
ACGTcount: A:0.39, C:0.05, G:0.04, T:0.52
Consensus pattern (33 bp):
ATATTTCATTTATCATTATATTAAATTATTTAA
Found at i:12612838 original size:124 final size:124
Alignment explanation
Indices: 12612618--12612967 Score: 621
Period size: 124 Copynumber: 2.8 Consensus size: 124
12612608 TTATTTCGAG
*
12612618 TTGACGTTTCTG-GTCAAATAGTATAAAATCGCTTCTACCAGGATGCTATTTGAGAAGAAATTGT
1 TTGACGTTTCTGAG-CAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGT
* *
12612682 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTATGATATAATTTTTT
65 GAAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
* *
12612742 TTGACGTTTCTGAGCAAATAGTATAAAATTGCCTCTACCAAGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
12612807 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
* *
12612866 TTGACATTTCTAAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
1 TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
12612931 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
66 AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAG
12612968 TAAGTTTGGG
Statistics
Matches: 216, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
124 215 1.00
125 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (124 bp):
TTGACGTTTCTGAGCAAATAGTATAAAATCGCCTCTACCAGGATGCTATTTGAGAAGAAATTGTG
AAATCGCGCCCTCGTGGACGCGATTTTGCTACAGTAGGTCATGTAAGAAATAATTTTTT
Found at i:12615473 original size:19 final size:19
Alignment explanation
Indices: 12615437--12615489 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
12615427 TGCCTCTTTT
12615437 TGCATT-CATTTCATTCATCA
1 TGCATTACATTTCA-TCAT-A
12615457 -GCATTACATTTCATCATA
1 TGCATTACATTTCATCATA
*
12615475 TGCATTAAATTTCAT
1 TGCATTACATTTCAT
12615490 AAAAATACCC
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 1 0.03
19 22 0.73
20 7 0.23
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (19 bp):
TGCATTACATTTCATCATA
Found at i:12618655 original size:27 final size:27
Alignment explanation
Indices: 12618620--12618680 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
12618610 AGCTTTGCTT
*
12618620 GGAAAAGGACTCGAAAAATACCTTCAA
1 GGAAGAGGACTCGAAAAATACCTTCAA
12618647 GGAAGAGGACTCGAAAAATACCTTCAA
1 GGAAGAGGACTCGAAAAATACCTTCAA
12618674 GGAAGAG
1 GGAAGAG
12618681 TTAAGACACT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.46, C:0.16, G:0.25, T:0.13
Consensus pattern (27 bp):
GGAAGAGGACTCGAAAAATACCTTCAA
Found at i:12623344 original size:44 final size:44
Alignment explanation
Indices: 12623286--12623711 Score: 383
Period size: 44 Copynumber: 9.6 Consensus size: 44
12623276 TAAAGCGAAC
* * * *
12623286 CTTATCTCCTTGAAGTTGCAGTGGAACATATTAAAGCTGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
* *
12623330 CTTATCTCCCTGAAGTTGCAGTGGAGCATATTAAAGCTGCAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
* * * *
12623374 CTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
* * *
12623418 CTTATCTCCCTGAAGTTGCAGTTGAGCAGATTAAA---ACGAAC
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
* ** ** **
12623459 CTTATCTCCCTGAAGTTGTAGTGGAATAGATTGTAGCTATGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
* * * * *
12623503 CTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGATAACGAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCT-ACAAAT
*
12623548 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTGCAAGTTACAAAT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAA---GC----TACAAAT
** * * * * *
12623599 CTTATCTCCCAAAAGTTGCAGTGGAACAAATTGAAGCTATAAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
* * * *
12623643 CTTATTTTCCTGAAGTTGCAGTGGAGTAGATTGAAA-CTACAATT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGCTACAAAT
* * *
12623687 CCTATATCCCTGAAGTTGCAATGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
12623712 TTAGAATAAG
Statistics
Matches: 315, Mismatches: 55, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
41 33 0.10
44 204 0.65
45 40 0.13
48 3 0.01
51 34 0.11
52 1 0.00
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGCTACAAAT
Found at i:12623519 original size:129 final size:132
Alignment explanation
Indices: 12623286--12623711 Score: 376
Period size: 129 Copynumber: 3.2 Consensus size: 132
12623276 TAAAGCGAAC
* * * * *
12623286 CTTATCTCCTTGAAGTTGCAGTGGAACATATTAAAGCTGCAAATCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTG-AAACCTTATCTCCCTGAAGTTGCAG
* * * * *
12623351 TGGAGCATATTAAAGCTGCAAATCTTATCTCCCTAAAGTTGCAGTGGAGCAAATTGAAG-TTACA
65 TGGAACAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAAATTGAAGATAACA
12623415 AAT
130 AAT
* *
12623418 CTTATCTCCCTGAAGTTGCAGTTGAGCAGATTAAAAC-G-AACCTTATCTCCCTGAAGTTGTAGT
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTGAAACCTTATCTCCCTGAAGTTGCAGT
* ** ** * * * *
12623481 GGAATAGATTGTAGCTATGAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGATAACGA
66 GGAACAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAAATTGAAGATAACAA
12623546 AT
131 AT
* * **
12623548 CTTATCTCTCTGAAGTTGCAGTGGAGCAGATTAAAGCTGCAAGTTACAAATCTTATCTCCCAAAA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTG-AA---AC----CTTATCTCCCTGAA
* * * * * * * * * *
12623613 GTTGCAGTGGAACAAATTGAAGCTATAAGTCTTATTTTCCTGAAGTTGCAGTGGAGTAGATTGAA
58 GTTGCAGTGGAACAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAAATTGAA
*
12623678 -ACT-ACAATT
123 GA-TAACAAAT
* * *
12623687 CCTATATCCCTGAAGTTGCAATGGA
1 CTTATCTCCCTGAAGTTGCAGTGGA
12623712 TTAGAATAAG
Statistics
Matches: 239, Mismatches: 43, Indels: 17
0.80 0.14 0.06
Matches are distributed among these distances:
129 69 0.29
130 40 0.17
131 2 0.01
132 32 0.13
133 1 0.00
136 2 0.01
139 26 0.11
140 67 0.28
ACGTcount: A:0.31, C:0.18, G:0.20, T:0.31
Consensus pattern (132 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAACTGAAACCTTATCTCCCTGAAGTTGCAGT
GGAACAGATTAAAGCTACAAATCTTATCTCCCTAAAGTTACAGTGGAGCAAATTGAAGATAACAA
AT
Found at i:12623563 original size:45 final size:45
Alignment explanation
Indices: 12623452--12623579 Score: 168
Period size: 45 Copynumber: 2.9 Consensus size: 45
12623442 AGCAGATTAA
* * * ** * *
12623452 AACGAACCTTATCTCCCTGAAGTTGTAGTGGAATAGATTGTAGCT
1 AACGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGAT
* *
12623497 -ATGAATCTTATCTCTCTGAAGTTACAGTGGAGCAGATTGAAGAT
1 AACGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGAT
12623541 AACGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT
1 AACGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATT
12623580 AAAGCTGCAA
Statistics
Matches: 71, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
44 35 0.49
45 36 0.51
ACGTcount: A:0.30, C:0.16, G:0.23, T:0.31
Consensus pattern (45 bp):
AACGAATCTTATCTCTCTGAAGTTGCAGTGGAGCAGATTGAAGAT
Found at i:12625194 original size:22 final size:21
Alignment explanation
Indices: 12625146--12625194 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 21
12625136 TAGTGCGTTA
**
12625146 TATTTCAATCATTTATTTATT
1 TATTTCAATCATTTATGAATT
*
12625167 TAATTTCAATCTTTTATGAACTT
1 T-ATTTCAATCATTTATGAA-TT
12625190 TATTT
1 TATTT
12625195 ATTTTTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.04
22 19 0.83
23 3 0.13
ACGTcount: A:0.29, C:0.10, G:0.02, T:0.59
Consensus pattern (21 bp):
TATTTCAATCATTTATGAATT
Found at i:12627184 original size:21 final size:21
Alignment explanation
Indices: 12627142--12627185 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
12627132 GTAAAAAAAA
* *
12627142 TTACAATTTTTTTTATAATTT
1 TTACAATTTTTGTTACAATTT
*
12627163 TTACAATTTTTGTTACATTTT
1 TTACAATTTTTGTTACAATTT
12627184 TT
1 TT
12627186 TGTAATAATA
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:0.25, C:0.07, G:0.02, T:0.66
Consensus pattern (21 bp):
TTACAATTTTTGTTACAATTT
Found at i:12627283 original size:19 final size:21
Alignment explanation
Indices: 12627256--12627302 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
12627246 ATTTTACTTT
12627256 TATA-ATTTTT-TATA-ATT-
1 TATATATTTTTCTATAGATTA
*
12627273 TATATATTTTTCTCTAGATTA
1 TATATATTTTTCTATAGATTA
12627294 TATATATTT
1 TATATATTT
12627303 AAATTTTTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 4 0.16
18 6 0.24
19 3 0.12
20 3 0.12
21 9 0.36
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.62
Consensus pattern (21 bp):
TATATATTTTTCTATAGATTA
Found at i:12627319 original size:8 final size:8
Alignment explanation
Indices: 12627294--12627336 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
12627284 CTCTAGATTA
12627294 TATATATT
1 TATATATT
* *
12627302 TAAATTTT
1 TATATATT
12627310 TATATATT
1 TATATATT
12627318 TAT-T-TT
1 TATATATT
12627324 TATATATT
1 TATATATT
12627332 TATAT
1 TATAT
12627337 TATACATTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
6 5 0.17
7 2 0.07
8 22 0.76
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (8 bp):
TATATATT
Found at i:12627337 original size:16 final size:16
Alignment explanation
Indices: 12627294--12627337 Score: 65
Period size: 14 Copynumber: 2.9 Consensus size: 16
12627284 CTCTAGATTA
*
12627294 TATATATTTAAATTTT
1 TATATATTTATATTTT
12627310 TATATA-TT-TATTTT
1 TATATATTTATATTTT
12627324 TATATATTTATATT
1 TATATATTTATATT
12627338 ATACATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
14 11 0.44
15 4 0.16
16 10 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TATATATTTATATTTT
Found at i:12629370 original size:9 final size:9
Alignment explanation
Indices: 12629356--12629383 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
12629346 TATAGTTTAA
12629356 TATTCGAAT
1 TATTCGAAT
12629365 TATTCGAAT
1 TATTCGAAT
12629374 TATTCGAAT
1 TATTCGAAT
12629383 T
1 T
12629384 CGAAAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:12630634 original size:24 final size:24
Alignment explanation
Indices: 12630607--12630654 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
12630597 TGATTTTTTT
* *
12630607 TGAA-AATTTAGAAATATATATTAA
1 TGAATAATTTA-AAAAATAGATTAA
12630631 TGAATAATTTAAAAAATAGATTAA
1 TGAATAATTTAAAAAATAGATTAA
12630655 AATTAAACAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 15 0.71
25 6 0.29
ACGTcount: A:0.56, C:0.00, G:0.08, T:0.35
Consensus pattern (24 bp):
TGAATAATTTAAAAAATAGATTAA
Found at i:12651026 original size:21 final size:23
Alignment explanation
Indices: 12650980--12651029 Score: 68
Period size: 21 Copynumber: 2.3 Consensus size: 23
12650970 GCTTATTGCC
* *
12650980 ATTTAAAGCCTTATACTACTATT
1 ATTTAAAGCATTATACTACTAAT
12651003 ATTTAAAGCATTA-A-TACTAAT
1 ATTTAAAGCATTATACTACTAAT
12651024 ATTTAA
1 ATTTAA
12651030 TTATTTCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 12 0.48
22 1 0.04
23 12 0.48
ACGTcount: A:0.42, C:0.12, G:0.04, T:0.42
Consensus pattern (23 bp):
ATTTAAAGCATTATACTACTAAT
Found at i:12651026 original size:24 final size:23
Alignment explanation
Indices: 12650980--12651026 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
12650970 GCTTATTGCC
* *
12650980 ATTTAAAGCCTTATACTACTATT
1 ATTTAAAGCATTATACTAATATT
12651003 ATTTAAAGCATTAATACTAATATT
1 ATTTAAAGCATT-ATACTAATATT
12651027 TAATTATTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.40, C:0.13, G:0.04, T:0.43
Consensus pattern (23 bp):
ATTTAAAGCATTATACTAATATT
Found at i:12656985 original size:19 final size:18
Alignment explanation
Indices: 12656963--12656999 Score: 56
Period size: 19 Copynumber: 2.0 Consensus size: 18
12656953 TTAATAAAAG
*
12656963 ACTATTAAGATAAGTATTA
1 ACTATTAAAATAA-TATTA
12656982 ACTATTAAAATAATATTA
1 ACTATTAAAATAATATTA
12657000 TTTTCTAGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 5 0.29
19 12 0.71
ACGTcount: A:0.51, C:0.05, G:0.05, T:0.38
Consensus pattern (18 bp):
ACTATTAAAATAATATTA
Found at i:12659163 original size:6 final size:6
Alignment explanation
Indices: 12659152--12659186 Score: 52
Period size: 6 Copynumber: 5.5 Consensus size: 6
12659142 GGTTTTCTCC
12659152 AAAATG AAAATG AAAATG AAAATGG AGAAATG AAA
1 AAAATG AAAATG AAAATG AAAAT-G A-AAATG AAA
12659187 TCATTCGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 19 0.70
7 4 0.15
8 4 0.15
ACGTcount: A:0.66, C:0.00, G:0.20, T:0.14
Consensus pattern (6 bp):
AAAATG
Found at i:12662651 original size:25 final size:25
Alignment explanation
Indices: 12662585--12662678 Score: 93
Period size: 25 Copynumber: 3.8 Consensus size: 25
12662575 TCATGTACAT
*
12662585 GTATGCTCAT-ACGAACTGT-GAATCA
1 GTATGCTC-TCACGAGCTGTAG-ATCA
* * *
12662610 GTATGCTCACTCAAGCTGTAGATCA
1 GTATGCTCTCACGAGCTGTAGATCA
* * *
12662635 GTATGCTCTCACGAGCTATAAATCG
1 GTATGCTCTCACGAGCTGTAGATCA
12662660 GTATGCTCTCACGAGCTGT
1 GTATGCTCTCACGAGCTGT
12662679 GGAGTATCCA
Statistics
Matches: 56, Mismatches: 11, Indels: 4
0.79 0.15 0.06
Matches are distributed among these distances:
25 55 0.98
26 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (25 bp):
GTATGCTCTCACGAGCTGTAGATCA
Found at i:12669781 original size:25 final size:25
Alignment explanation
Indices: 12669753--12669844 Score: 78
Period size: 25 Copynumber: 3.7 Consensus size: 25
12669743 TTGTGAATCG
* *
12669753 GTATGCTCACTCGAGCTGTAGAA-TA
1 GTATGCTCACACGAGCTATA-AATTA
* *
12669778 GTATACTCTCACGAGCTATAAATTA
1 GTATGCTCACACGAGCTATAAATTA
* * **
12669803 GTATGTTCTCACGAGCTATAAATCG
1 GTATGCTCACACGAGCTATAAATTA
* *
12669828 GTATGCTCTCATGAGCT
1 GTATGCTCACACGAGCT
12669845 GTGGAGTATC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
24 2 0.04
25 54 0.96
ACGTcount: A:0.28, C:0.21, G:0.20, T:0.32
Consensus pattern (25 bp):
GTATGCTCACACGAGCTATAAATTA
Found at i:12671241 original size:24 final size:24
Alignment explanation
Indices: 12671195--12671241 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
12671185 AAATATATAT
* *
12671195 TATATATAATAAGACCTATGCATC
1 TATATACAATAAGACCTACGCATC
12671219 TATATACAATAAGATCC-ACGCAT
1 TATATACAATAAGA-CCTACGCAT
12671242 ATAATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 18 0.90
25 2 0.10
ACGTcount: A:0.43, C:0.19, G:0.09, T:0.30
Consensus pattern (24 bp):
TATATACAATAAGACCTACGCATC
Found at i:12676119 original size:13 final size:13
Alignment explanation
Indices: 12676103--12676132 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
12676093 TTACACATTT
*
12676103 CCATTTCAAGTAA
1 CCATTTCAAATAA
12676116 CCATTTCAAATAA
1 CCATTTCAAATAA
12676129 CCAT
1 CCAT
12676133 ATCATATACC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.40, C:0.27, G:0.03, T:0.30
Consensus pattern (13 bp):
CCATTTCAAATAA
Found at i:12681168 original size:18 final size:18
Alignment explanation
Indices: 12681139--12681182 Score: 63
Period size: 18 Copynumber: 2.5 Consensus size: 18
12681129 AACAAAGCCA
12681139 TGTTAT-TTTGTGTACTG
1 TGTTATATTTGTGTACTG
* *
12681156 TGTTATATTTGTGTATTT
1 TGTTATATTTGTGTACTG
12681174 TGTTATATT
1 TGTTATATT
12681183 GTGAACCATG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 6 0.25
18 18 0.75
ACGTcount: A:0.16, C:0.02, G:0.18, T:0.64
Consensus pattern (18 bp):
TGTTATATTTGTGTACTG
Found at i:12684115 original size:18 final size:18
Alignment explanation
Indices: 12684062--12684115 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
12684052 AAAATAAAAA
*
12684062 AATATTTTGAAATTGAAT
1 AATATTTTGAAAATGAAT
* *
12684080 AACGA-TTTGTAAATGAAT
1 AA-TATTTTGAAAATGAAT
*
12684098 AATATTTTGAAAACGAAT
1 AATATTTTGAAAATGAAT
12684116 GACACGATTT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
17 1 0.04
18 26 0.93
19 1 0.04
ACGTcount: A:0.46, C:0.04, G:0.13, T:0.37
Consensus pattern (18 bp):
AATATTTTGAAAATGAAT
Found at i:12684436 original size:17 final size:17
Alignment explanation
Indices: 12684416--12684514 Score: 119
Period size: 17 Copynumber: 5.9 Consensus size: 17
12684406 CGGTGTGGTA
* *
12684416 TGAACGAATTGTTATAC
1 TGAATGAATTGTTATAT
*
12684433 TGAATGAACTGTTATAT
1 TGAATGAATTGTTATAT
* *
12684450 TGAATGAATTATAATAT
1 TGAATGAATTGTTATAT
*
12684467 TTAATGAATTGTTATAT
1 TGAATGAATTGTTATAT
* *
12684484 TGTATGAACTGTTATAT
1 TGAATGAATTGTTATAT
12684501 TGAATGAA-TGTTAT
1 TGAATGAATTGTTAT
12684515 TATGCATGAA
Statistics
Matches: 69, Mismatches: 13, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
16 6 0.09
17 63 0.91
ACGTcount: A:0.36, C:0.04, G:0.16, T:0.43
Consensus pattern (17 bp):
TGAATGAATTGTTATAT
Found at i:12684531 original size:17 final size:18
Alignment explanation
Indices: 12684433--12684532 Score: 97
Period size: 17 Copynumber: 5.9 Consensus size: 18
12684423 ATTGTTATAC
12684433 TGAATGAACTGTTA-TAT
1 TGAATGAACTGTTATTAT
*
12684450 TGAATGAA-T-TATAATAT
1 TGAATGAACTGT-TATTAT
* *
12684467 TTAATGAATTGTTA-TAT
1 TGAATGAACTGTTATTAT
*
12684484 TGTATGAACTGTTA-TAT
1 TGAATGAACTGTTATTAT
12684501 TGAATGAA-TGTTATTA-
1 TGAATGAACTGTTATTAT
*
12684517 TGCATGAACTGTTATT
1 TGAATGAACTGTTATT
12684533 TCATATGAAC
Statistics
Matches: 71, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
15 1 0.01
16 15 0.21
17 51 0.72
18 3 0.04
19 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.16, T:0.45
Consensus pattern (18 bp):
TGAATGAACTGTTATTAT
Found at i:12684540 original size:17 final size:16
Alignment explanation
Indices: 12684464--12684561 Score: 69
Period size: 17 Copynumber: 5.9 Consensus size: 16
12684454 TGAATTATAA
*
12684464 TATTTA-ATGAATTGT
1 TATTTATATGAACTGT
*
12684479 TATATTGTATGAACTGT
1 TAT-TTATATGAACTGT
12684496 TATATTGA-ATGAA-TGT
1 TAT-TT-ATATGAACTGT
12684512 TA-TTATGCATGAACTGT
1 TATTTAT--ATGAACTGT
*
12684529 TATTTCATATGAACTAT
1 TATTT-ATATGAACTGT
*
12684546 TATTTTATGTGAACTG
1 TA-TTTATATGAACTG
12684562 CCTGTTCTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 18
0.74 0.07 0.20
Matches are distributed among these distances:
13 1 0.01
14 2 0.03
15 3 0.04
16 12 0.18
17 42 0.63
18 5 0.07
19 2 0.03
ACGTcount: A:0.32, C:0.06, G:0.15, T:0.47
Consensus pattern (16 bp):
TATTTATATGAACTGT
Found at i:12684541 original size:33 final size:34
Alignment explanation
Indices: 12684425--12684541 Score: 105
Period size: 34 Copynumber: 3.5 Consensus size: 34
12684415 ATGAACGAAT
* * * * *
12684425 TGTTATACTGAATGAACTGTTATATTGAATGAAT
1 TGTTATATTCAATGAATTGTTATATTGCATGAAC
* * * *
12684459 TATAATATTTAATGAATTGTTATATTGTATGAAC
1 TGTTATATTCAATGAATTGTTATATTGCATGAAC
*
12684493 TGTTATATTGAATGAA-TGTTAT-TATGCATGAAC
1 TGTTATATTCAATGAATTGTTATAT-TGCATGAAC
12684526 TGTTAT-TTCATATGAA
1 TGTTATATTCA-ATGAA
12684542 CTATTATTTT
Statistics
Matches: 69, Mismatches: 12, Indels: 5
0.80 0.14 0.06
Matches are distributed among these distances:
32 4 0.06
33 25 0.36
34 40 0.58
ACGTcount: A:0.35, C:0.05, G:0.15, T:0.44
Consensus pattern (34 bp):
TGTTATATTCAATGAATTGTTATATTGCATGAAC
Found at i:12698857 original size:21 final size:22
Alignment explanation
Indices: 12698833--12698888 Score: 89
Period size: 21 Copynumber: 2.6 Consensus size: 22
12698823 TACTATTGTT
12698833 TCTAATCTCACCGCTACAGT-A
1 TCTAATCTCACCGCTACAGTAA
*
12698854 TCTAATCTTACCGCTACAGTAA
1 TCTAATCTCACCGCTACAGTAA
12698876 T-TAATCTCACCGC
1 TCTAATCTCACCGC
12698889 CACCGCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.29, C:0.32, G:0.09, T:0.30
Consensus pattern (22 bp):
TCTAATCTCACCGCTACAGTAA
Found at i:12699366 original size:26 final size:27
Alignment explanation
Indices: 12699331--12699381 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
12699321 TTCTAATTTT
*
12699331 TTTTGTAA-TTTGTCTCGGTTTAATTC
1 TTTTCTAATTTTGTCTCGGTTTAATTC
* *
12699357 TTTTCTAATTTTTTCTTGGTTTAAT
1 TTTTCTAATTTTGTCTCGGTTTAAT
12699382 AGAAGTATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 7 0.33
27 14 0.67
ACGTcount: A:0.16, C:0.10, G:0.12, T:0.63
Consensus pattern (27 bp):
TTTTCTAATTTTGTCTCGGTTTAATTC
Found at i:12705372 original size:51 final size:51
Alignment explanation
Indices: 12705302--12705488 Score: 159
Period size: 51 Copynumber: 3.7 Consensus size: 51
12705292 TCAGCTCACA
* * *
12705302 TAGTAGCCTACACACAGTACTACACATGTGACAATTATCATACGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACAATTATCATACGATACACG
* * * ** *
12705353 TAGTAGTCTGCACATAGTACTACACACGTGATCGAA--A-CTATCCGGTATGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-C-AATTATC-ATACGATACACG
* * * * * *
12705404 TAGTAGTCTGCACATAGTACTACACATGCGAC--CTATCATTCTAGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACAATTATCATACGA-TACACG
*
12705454 TAATAGCCTGCACATAGTACTACACACGTGACAAT
1 TAGTAGCCTGCACATAGTACTACACACGTGACAAT
12705489 CATTTTCACT
Statistics
Matches: 105, Mismatches: 22, Indels: 17
0.73 0.15 0.12
Matches are distributed among these distances:
49 4 0.04
50 34 0.32
51 64 0.61
52 1 0.01
53 2 0.02
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACAATTATCATACGATACACG
Found at i:12705476 original size:101 final size:101
Alignment explanation
Indices: 12705300--12705484 Score: 264
Period size: 101 Copynumber: 1.8 Consensus size: 101
12705290 GTTCAGCTCA
* * * *
12705300 CATAGTAGCCTACACACAGTACTACACATGTGACAATTATCATACGATACACGTAGTAGTCTGCA
1 CATAGTAGCCTACACACAGTACTACACATGCGAC-ACTATCATACGATACACGTAATAGCCTGCA
12705365 CATAGTACTACACACGTGATCGAAACTATCCGGTATG
65 CATAGTACTACACACGTGATCGAAACTATCCGGTATG
* * * * *
12705402 CATAGTAGTCTGCACATAGTACTACACATGCGAC-CTATCATTCTAGTACACGTAATAGCCTGCA
1 CATAGTAGCCTACACACAGTACTACACATGCGACACTATCATACGA-TACACGTAATAGCCTGCA
12705466 CATAGTACTACACACGTGA
65 CATAGTACTACACACGTGA
12705485 CAATCATTTT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
100 8 0.11
101 35 0.48
102 30 0.41
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (101 bp):
CATAGTAGCCTACACACAGTACTACACATGCGACACTATCATACGATACACGTAATAGCCTGCAC
ATAGTACTACACACGTGATCGAAACTATCCGGTATG
Found at i:12712374 original size:127 final size:126
Alignment explanation
Indices: 12712089--12712653 Score: 811
Period size: 127 Copynumber: 4.5 Consensus size: 126
12712079 GATAAAATCA
* * * * * * *
12712089 AAGCAGGATGCT-TTATCAGAAGGATTTCTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAA
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
* * *
12712153 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAAAACGCTTC
65 TAGGTCCTGGAAAAATAATTTCGAGTTAACGTTTCTGAGCAAATAGTTTAAAAAAACGATTC
* *
12712214 AAGTAGGATGCT-TTATGAGAAGAATTTGTGAAATTGCGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCTATT-TGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
*
12712278 TAGGTCCTGGAAGAAATAATTTTGAGTTAACGTTTCTGAGCAAATAGTTTAAAAAAACGATTC
65 TAGGTCCTGGAA-AAATAATTTCGAGTTAACGTTTCTGAGCAAATAGTTTAAAAAAACGATTC
*
12712341 AAGCAGGATGCTATTTGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * *
12712406 AGGTCCTGGAAGAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTTTTAAAAAAC-ACTTC
66 AGGTCCTGGAA-AAATAATTTCGAGTTAACGTTTCTGAGCAAATAGTTTAAAAAAACGA-TTC
* * *
12712468 AAG-GGGATGCTATTTTAGAAGAATTTGTGAAATCGCTCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
* * *
12712532 AGGTCCTGGAAAAAAAATTTCGAGTTAACGTTTCTGAGCAAATAG--TATAAAAACGCTTC
66 AGGTCCTGGAAAAATAATTTCGAGTTAACGTTTCTGAGCAAATAGTTTAAAAAAACGATTC
* *
12712591 TAGCAAGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
1 AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACA
12712654 ATAGTTTGGG
Statistics
Matches: 399, Mismatches: 35, Indels: 13
0.89 0.08 0.03
Matches are distributed among these distances:
123 12 0.03
124 55 0.14
125 98 0.25
126 103 0.26
127 129 0.32
128 2 0.01
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.29
Consensus pattern (126 bp):
AAGCAGGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
AGGTCCTGGAAAAATAATTTCGAGTTAACGTTTCTGAGCAAATAGTTTAAAAAAACGATTC
Found at i:12712511 original size:253 final size:249
Alignment explanation
Indices: 12712089--12712657 Score: 865
Period size: 253 Copynumber: 2.3 Consensus size: 249
12712079 GATAAAATCA
* * * * * *
12712089 AAGCAGGATGCT-TTATCAGAAGGATTTCTGAAGTCGCGCCCACGTGTACGCGCTTTTGCTACAA
1 AAGCAGGATGCTATT-TGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAA
* *
12712153 TAGGTCCTGGAAAAATAATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCAAGT
65 TAGGTCCTGGAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACACTTCAAGT
*
12712218 AGGATGCTTTATGAGAAGAATTTGTGAAATTGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGT
130 AGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGT
* *
12712283 CCTGGAAGAAATAATTTTGAGTTAACGTTTCTGAGCAAATAGTTTAAAAAAACGATTC
195 CCTGGAA-AAAAAATTTCGAGTTAACGTTTCTGAGCAAATAG--TAAAAAAACGATTC
*
12712341 AAGCAGGATGCTATTTGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTATTTGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAAT
*
12712406 AGGTCCTGGAAGAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTTTTAAAAAACACTTCAAG
66 AGGTCCTGGAA-AAATAATTTCGAGTTGACATTTCTGAGCAAATAG-TATAAAAAACACTTCAAG
* * *
12712471 -GGGATGCTATT-TTAGAAGAATTTGTGAAATCGCTCCCTCGTGGACGCGCTTTTGCTACAGTAG
129 TAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAG
* *
12712534 GTCCTGGAAAAAAAATTTCGAGTTAACGTTTCTGAGCAAATAGTATAAAAACGCTTC
193 GTCCTGGAAAAAAAATTTCGAGTTAACGTTTCTGAGCAAATAGTAAAAAAACGATTC
* * *
12712591 TAGCAAGATGCTATTTGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAAT
1 AAGCAGGATGCTATTTGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAAT
12712656 AG
66 AG
12712658 TTTGGGCTGA
Statistics
Matches: 291, Mismatches: 22, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
250 75 0.26
252 98 0.34
253 100 0.34
254 18 0.06
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (249 bp):
AAGCAGGATGCTATTTGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAAT
AGGTCCTGGAAAAATAATTTCGAGTTGACATTTCTGAGCAAATAGTATAAAAAACACTTCAAGTA
GGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGTAGGTC
CTGGAAAAAAAATTTCGAGTTAACGTTTCTGAGCAAATAGTAAAAAAACGATTC
Found at i:12715974 original size:65 final size:65
Alignment explanation
Indices: 12715828--12716540 Score: 913
Period size: 65 Copynumber: 11.0 Consensus size: 65
12715818 TCAAATTATA
* *
12715828 TTTAAGTTAAGGGTTAAGGTTTTAAAGTTAAGGG-TTAAGGTTTTTAAGTTAAGGG-TTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
12715891 TTTAAGTTAAGGGTTTAAGGTTTTTAGGTTAAGGGTTTATGGTTTTAAAGTTAAGGGTTTAGGGT
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTAGGGT
12715956 T
65 T
* *
12715957 TTTAAGTTAAGGGTTAAGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTATGG-T
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTAGGGTT
* * *
12716021 TTAAAGTTAATGGTTAGGGTTTTTAAGTTAAGGGTTT-AGGATTTTTATGTTAAGGGTTTAGGGT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGG-TTTTTAAGTTAAGGGTTTAGGGT
12716085 T
65 T
* * *
12716086 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAGGTTAAGGGTTTATGATT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * *
12716151 TTAAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGATTTTTAGGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * * * * *
12716216 TTAAAGTTAATGGTTAGGGTTTTTAAGTTAAGAGTTTAGGGTTTTTAGGTTAAAGGTTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTAGGGTT
* * * * * *
12716281 TTAAAGTCAAGGGTTAGGGTTTTTAAGTTAATGGTTTAGGGTTTTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTAGGGTT
* * ** *
12716346 TTTAAGTTAAGAGTTTAGGGTTTTAAAGTTAAATG-TTAAGGTTTTTAAGTTAAGGG-CTAGGGT
1 TTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTAGGGT
12716409 T
65 T
* * * * *
12716410 TTTAAGTTAAGAGTTTAGGGTTTTAAAGTTAA-TGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGT
1 TTTAAGTTAAG-GGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTAGGGT
12716474 T
65 T
* * *
12716475 TTTAAGTTAAGGGTTTAAGGTTTTTAATTTAAGGG-TT-AGAGTTTTTAAGTTAAGGGTTTTGGG
1 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAAG-GTTTTTAAGTTAAGGGTTTAGGG
12716538 TT
64 TT
12716540 T
1 T
12716541 GTCAATTAAA
Statistics
Matches: 584, Mismatches: 54, Indels: 22
0.88 0.08 0.03
Matches are distributed among these distances:
63 18 0.03
64 134 0.23
65 388 0.66
66 44 0.08
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (65 bp):
TTTAAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTTAAGTTAAGGGTTTAGGGTT
Found at i:12716533 original size:43 final size:43
Alignment explanation
Indices: 12715828--12716540 Score: 848
Period size: 43 Copynumber: 16.5 Consensus size: 43
12715818 TCAAATTATA
* * *
12715828 TTTAAGTTAAGGG-TTAAGGTTTTAAAGTTAAGGGTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
*
12715870 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* * *
12715913 TTTAGGTTAAGGGTTTATGGTTTTAAAGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* *
12715957 TTTAAGTTAAGGG-TTAAGGTTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* * *
12716000 TTTAAGTTAAGGGTTTATGG-TTTAAAGTTAATGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* *
12716042 TTTAAGTTAAGGGTTTAGGATTTTTATGTTAAGGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
*
12716086 TTTAAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* * * *
12716129 TTTAGGTTAAGGGTTTATGATTTTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * * *
12716172 TTTAAGTTAAGGGTTTAAGATTTTTAGGTTAAAGGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTT-AAGGGTTAGGGTT
* * *
12716216 TTAAAGTTAATGG-TTAGGGTTTTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG-GGTTAGGGTT
* * * * *
12716259 TTTAGGTTAAAGGTTTATGGTTTTAAAGTCAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* * *
12716302 TTTAAGTTAATGGTTTAGGGTTTTTAGGTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* * ** *
12716346 TTTAAGTTAAGAGTTTAGGGTTTTAAAGTTAAATGTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
* *
12716389 TTTAAGTTAAGGG-CTAGGGTTTTTAAGTTAAGAGTTTAGGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAG-GGTTAGGGTT
* * *
12716432 TTAAAGTTAA-TGTTTAGGGTTTTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGG-TTAGGGTT
* * *
12716475 TTTAAGTTAAGGGTTTAAGGTTTTTAATTTAAGGGTTAGAGTT
1 TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
*
12716518 TTTAAGTTAAGGGTTTTGGGTTT
1 TTTAAGTTAAGGGTTTAGGGTTT
12716541 GTCAATTAAA
Statistics
Matches: 579, Mismatches: 78, Indels: 27
0.85 0.11 0.04
Matches are distributed among these distances:
42 78 0.13
43 322 0.56
44 179 0.31
ACGTcount: A:0.26, C:0.00, G:0.29, T:0.45
Consensus pattern (43 bp):
TTTAAGTTAAGGGTTTAGGGTTTTTAAGTTAAGGGTTAGGGTT
Done.