Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 35 of 136
Found at i:11418120 original size:49 final size:49
Alignment explanation
Indices: 11418047--11418190 Score: 207
Period size: 49 Copynumber: 2.9 Consensus size: 49
11418037 ATGTGAACAT
* *
11418047 GTGATTATGTGATTCCGTATAAGACAATAGCTGGGCTATGGCATCGGTAA
1 GTGA-TATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* *
11418097 GTGATATGTGATTCCGTGTAAGACCATAACTGGGCTATGGCATCGGTAT
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
* * * *
11418146 GTGATTTGTGATTACGTGTAAGACCATAGTTGGACTATGGCATCG
1 GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCG
11418191 AGAAAATGAA
Statistics
Matches: 85, Mismatches: 9, Indels: 1
0.89 0.09 0.01
Matches are distributed among these distances:
49 81 0.95
50 4 0.05
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.31
Consensus pattern (49 bp):
GTGATATGTGATTCCGTGTAAGACCATAGCTGGGCTATGGCATCGGTAA
Found at i:11421129 original size:26 final size:26
Alignment explanation
Indices: 11421099--11421228 Score: 103
Period size: 26 Copynumber: 5.2 Consensus size: 26
11421089 TTAACTCTTA
*
11421099 TGAGCGTCTCGTTATATGGCTCTTCG
1 TGAGCTTCTCGTTATATGGCTCTTCG
* * **
11421125 TGAGCTTCCCGATTA-AAGGCTCTTTA
1 TGAGCTTCTCG-TTATATGGCTCTTCG
* * *
11421151 TGAGCTTCCCG--ATATGGCTC-GCT
1 TGAGCTTCTCGTTATATGGCTCTTCG
* * *
11421174 TGAACTTCTCGATATATGGCTATTCG
1 TGAGCTTCTCGTTATATGGCTCTTCG
11421200 -GAGCTTCTCGTTA-ATGGCTCTTCG
1 TGAGCTTCTCGTTATATGGCTCTTCG
11421224 -GAGCT
1 TGAGCT
11421229 ACCTGTTATT
Statistics
Matches: 82, Mismatches: 17, Indels: 12
0.74 0.15 0.11
Matches are distributed among these distances:
23 10 0.12
24 21 0.26
25 19 0.23
26 29 0.35
27 3 0.04
ACGTcount: A:0.17, C:0.24, G:0.24, T:0.35
Consensus pattern (26 bp):
TGAGCTTCTCGTTATATGGCTCTTCG
Found at i:11421206 original size:25 final size:24
Alignment explanation
Indices: 11421178--11421228 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
11421168 CTCGCTTGAA
11421178 CTTCTCGATATATGGCTATTCGGAG
1 CTTCTCGATA-ATGGCTATTCGGAG
* *
11421203 CTTCTCGTTAATGGCTCTTCGGAG
1 CTTCTCGATAATGGCTATTCGGAG
11421227 CT
1 CT
11421229 ACCTGTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
24 15 0.62
25 9 0.38
ACGTcount: A:0.16, C:0.24, G:0.24, T:0.37
Consensus pattern (24 bp):
CTTCTCGATAATGGCTATTCGGAG
Found at i:11421236 original size:24 final size:24
Alignment explanation
Indices: 11421189--11421243 Score: 67
Period size: 24 Copynumber: 2.3 Consensus size: 24
11421179 TTCTCGATAT
* *
11421189 ATGGCTATTCGGAGCTTCTCGTTA
1 ATGGCTCTTCGGAGCTCCTCGTTA
11421213 ATGGCTCTTCGGAGCTACCT-GTTA
1 ATGGCTCTTCGGAGCT-CCTCGTTA
*
11421237 TTGGCTC
1 ATGGCTC
11421244 GTATGAGCTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.15, C:0.24, G:0.25, T:0.36
Consensus pattern (24 bp):
ATGGCTCTTCGGAGCTCCTCGTTA
Found at i:11421255 original size:73 final size:76
Alignment explanation
Indices: 11421097--11421255 Score: 175
Period size: 73 Copynumber: 2.1 Consensus size: 76
11421087 CCTTAACTCT
* * * * *
11421097 TATGAGCGTCTCGTTATATGGCTCTTCGTGAGCTTCCCGATTAAAGGCTCTTTATGAGCTTCCCG
1 TATGAGCTTCTCGATATATGGCTATTCGTGAGCTTCCCGATTAAAGGCTCTTTAGGAGCTACCCG
11421162 ATATGGCTCGC
66 ATATGGCTCGC
* * * * *
11421173 T-TGAACTTCTCGATATATGGCTATTCG-GAGCTTCTCG-TTAATGGCTC-TTCGGAGCTACCTG
1 TATGAGCTTCTCGATATATGGCTATTCGTGAGCTTCCCGATTAAAGGCTCTTTAGGAGCTACCCG
*
11421234 TTATTGGCTCG-
66 ATA-TGGCTCGC
11421245 TATGAGCTTCT
1 TATGAGCTTCT
11421256 TGATTGCTTC
Statistics
Matches: 69, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
72 13 0.19
73 24 0.35
74 9 0.13
75 22 0.32
76 1 0.01
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.36
Consensus pattern (76 bp):
TATGAGCTTCTCGATATATGGCTATTCGTGAGCTTCCCGATTAAAGGCTCTTTAGGAGCTACCCG
ATATGGCTCGC
Found at i:11435568 original size:10 final size:10
Alignment explanation
Indices: 11435539--11435581 Score: 52
Period size: 10 Copynumber: 4.3 Consensus size: 10
11435529 TTTCTCCTCG
11435539 TTTC-GTTTC
1 TTTCTGTTTC
*
11435548 TATCATGTTTC
1 TTTC-TGTTTC
11435559 TTTCTGTTTC
1 TTTCTGTTTC
*
11435569 TTTTTGTTTC
1 TTTCTGTTTC
11435579 TTT
1 TTT
11435582 TATTTATTAT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
9 3 0.10
10 18 0.62
11 8 0.28
ACGTcount: A:0.05, C:0.16, G:0.09, T:0.70
Consensus pattern (10 bp):
TTTCTGTTTC
Found at i:11450632 original size:13 final size:13
Alignment explanation
Indices: 11450614--11450660 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 13
11450604 TTTTTTTTAC
11450614 TTTTGTTCTTTCT
1 TTTTGTTCTTTCT
*
11450627 TTTTGTCGTCTTTAT
1 TTTTGT--TCTTTCT
*
11450642 TTTT-TTCCTTCT
1 TTTTGTTCTTTCT
11450654 TTTTGTT
1 TTTTGTT
11450661 TGTATTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 6
0.76 0.08 0.16
Matches are distributed among these distances:
12 9 0.32
13 8 0.29
14 1 0.04
15 10 0.36
ACGTcount: A:0.02, C:0.15, G:0.09, T:0.74
Consensus pattern (13 bp):
TTTTGTTCTTTCT
Found at i:11456626 original size:14 final size:14
Alignment explanation
Indices: 11456584--11456626 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
11456574 GATTGCCAGT
* *
11456584 AAAATATTTTCCGT
1 AAAATATTTTCTGG
*
11456598 AAAATGATTTACTGG
1 AAAAT-ATTTTCTGG
11456613 AAAATATTTTCTGG
1 AAAATATTTTCTGG
11456627 TGTTTGATTG
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
14 13 0.54
15 11 0.46
ACGTcount: A:0.37, C:0.09, G:0.14, T:0.40
Consensus pattern (14 bp):
AAAATATTTTCTGG
Found at i:11467737 original size:14 final size:14
Alignment explanation
Indices: 11467726--11467752 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11467716 GTAAAATGTT
11467726 TTCTGGAAAATGAC
1 TTCTGGAAAATGAC
11467740 TTCTGGAAAATGA
1 TTCTGGAAAATGA
11467753 TTTACTTTTC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.11, G:0.22, T:0.30
Consensus pattern (14 bp):
TTCTGGAAAATGAC
Found at i:11467783 original size:34 final size:33
Alignment explanation
Indices: 11467724--11467788 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 33
11467714 CAGTAAAATG
* *
11467724 TTTTCTGGAAAATGACTTCTGGAAAATGATTTAC
1 TTTTCTGAAAAATGACTTATGGAAAAT-ATTTAC
* *
11467758 TTTTCTGAAAAATGATTTATTGAAAATATTT
1 TTTTCTGAAAAATGACTTATGGAAAATATTT
11467789 TCTGGTGTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
33 4 0.15
34 23 0.85
ACGTcount: A:0.35, C:0.08, G:0.14, T:0.43
Consensus pattern (33 bp):
TTTTCTGAAAAATGACTTATGGAAAATATTTAC
Found at i:11467975 original size:18 final size:18
Alignment explanation
Indices: 11467951--11467992 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11467941 TGATTTATTT
11467951 ATAAATAAATAAATCAAA
1 ATAAATAAATAAATCAAA
* * *
11467969 TTAAATATATCAATCAAA
1 ATAAATAAATAAATCAAA
11467987 ATAAAT
1 ATAAAT
11467993 TTAATACATA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.64, C:0.07, G:0.00, T:0.29
Consensus pattern (18 bp):
ATAAATAAATAAATCAAA
Found at i:11468025 original size:106 final size:107
Alignment explanation
Indices: 11467879--11468092 Score: 412
Period size: 106 Copynumber: 2.0 Consensus size: 107
11467869 TACATATATT
*
11467879 AATAAATTTATATACATATTAATAATTTTTTATATTTTAAATTGTTTATACATATATTGCAATGA
1 AATAAATTTATATACATATTAATAATTTTTTATATTTTAAATTGTTTAGACATATATTGCAATGA
11467944 TTTATTTATAAATAAATAAATCAAATTAAATATATCAATCAA
66 TTTATTTATAAATAAATAAATCAAATTAAATATATCAATCAA
11467986 AATAAATTTA-ATACATATTAATAATTTTTTATATTTTAAATTGTTTAGACATATATTGCAATGA
1 AATAAATTTATATACATATTAATAATTTTTTATATTTTAAATTGTTTAGACATATATTGCAATGA
11468050 TTTATTTATAAATAAATAAATCAAATTAAATATATCAATCAA
66 TTTATTTATAAATAAATAAATCAAATTAAATATATCAATCAA
11468092 A
1 A
11468093 TGGTTTAATT
Statistics
Matches: 106, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
106 96 0.91
107 10 0.09
ACGTcount: A:0.47, C:0.06, G:0.03, T:0.44
Consensus pattern (107 bp):
AATAAATTTATATACATATTAATAATTTTTTATATTTTAAATTGTTTAGACATATATTGCAATGA
TTTATTTATAAATAAATAAATCAAATTAAATATATCAATCAA
Found at i:11468081 original size:18 final size:18
Alignment explanation
Indices: 11468058--11468093 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11468048 GATTTATTTA
11468058 TAAATAAATAAATCAAAT
1 TAAATAAATAAATCAAAT
* *
11468076 TAAATATATCAATCAAAT
1 TAAATAAATAAATCAAAT
11468094 GGTTTAATTG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (18 bp):
TAAATAAATAAATCAAAT
Found at i:11471935 original size:28 final size:28
Alignment explanation
Indices: 11471903--11471962 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 28
11471893 ATTAATTAAT
**
11471903 TTATTATTATTTTTATTATTACTATTT-A
1 TTATTATTATTGATATTATTA-TATTTGA
*
11471931 TTATTGTTATTGATATTATTATATTTGA
1 TTATTATTATTGATATTATTATATTTGA
11471959 TTAT
1 TTAT
11471963 ATTTCTATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.28, C:0.02, G:0.05, T:0.65
Consensus pattern (28 bp):
TTATTATTATTGATATTATTATATTTGA
Found at i:11476476 original size:21 final size:21
Alignment explanation
Indices: 11476447--11476490 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
11476437 CCACCAAAAC
*
11476447 AGGCTTTTAGCGGCACTTTTT
1 AGGCCTTTAGCGGCACTTTTT
**
11476468 AGGCCTTTAGCGGCGTTTTTT
1 AGGCCTTTAGCGGCACTTTTT
11476489 AG
1 AG
11476491 CGCCGCAAAA
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:0.14, C:0.18, G:0.27, T:0.41
Consensus pattern (21 bp):
AGGCCTTTAGCGGCACTTTTT
Found at i:11476605 original size:43 final size:43
Alignment explanation
Indices: 11476550--11476685 Score: 122
Period size: 43 Copynumber: 3.2 Consensus size: 43
11476540 TTTGGAAAAG
* *
11476550 CGCCGCTAAAGACCATGACCTATAGCGGCGCTTCTCTAACAAA
1 CGCCACTAAAGACCATGACCTTTAGCGGCGCTTCTCTAACAAA
*
11476593 CGCCACTAAAGA-CATTGACCTTTAGCGGTGCTATC-CTAA-AAA
1 CGCCACTAAAGACCA-TGACCTTTAGCGGCGCT-TCTCTAACAAA
* * * *
11476635 CGCCGCTATA-TCTCGA-GACCTTTAGCGGCGCTTTTCCT-ACAAA
1 CGCCACTAAAGAC-C-ATGACCTTTAGCGGCGCTTCT-CTAACAAA
11476678 CGCCACTA
1 CGCCACTA
11476686 TAGCTCAAGA
Statistics
Matches: 76, Mismatches: 9, Indels: 16
0.75 0.09 0.16
Matches are distributed among these distances:
41 1 0.01
42 29 0.38
43 43 0.57
44 3 0.04
ACGTcount: A:0.28, C:0.32, G:0.18, T:0.23
Consensus pattern (43 bp):
CGCCACTAAAGACCATGACCTTTAGCGGCGCTTCTCTAACAAA
Found at i:11476655 original size:42 final size:43
Alignment explanation
Indices: 11476566--11476710 Score: 134
Period size: 43 Copynumber: 3.4 Consensus size: 43
11476556 TAAAGACCAT
* * * * *
11476566 GACCTATAGCGGCGCTTCT-CTAACAAACGCCACTAAAG-ACATT
1 GACCTTTAGCGGCGCTTATCCTAA-AAACGCCACTATAGCTCA-A
* * * *
11476609 GACCTTTAGCGGTGC-TATCCTAAAAACGCCGCTATATCTCGA
1 GACCTTTAGCGGCGCTTATCCTAAAAACGCCACTATAGCTCAA
* *
11476651 GACCTTTAGCGGCGCTTTTCCTACAAACGCCACTATAGCTCAA
1 GACCTTTAGCGGCGCTTATCCTAAAAACGCCACTATAGCTCAA
* *
11476694 GACATTTAGTGGCGCTT
1 GACCTTTAGCGGCGCTT
11476711 TTCTCAGAAA
Statistics
Matches: 82, Mismatches: 17, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
42 27 0.33
43 55 0.67
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.26
Consensus pattern (43 bp):
GACCTTTAGCGGCGCTTATCCTAAAAACGCCACTATAGCTCAA
Found at i:11476790 original size:43 final size:43
Alignment explanation
Indices: 11476729--11476846 Score: 166
Period size: 43 Copynumber: 2.7 Consensus size: 43
11476719 AACGCAAGAG
* *
11476729 CTTTAGCGGCGCTTTTTCCACAAACGTCGCTATAGCTCGATAC
1 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAACTCGATAC
*
11476772 CTTTAGCGGCTCTTTTTCCACAAACGCCGCTATAACTCGATAC
1 CTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAACTCGATAC
* * *
11476815 CTTTAGCGGTGC-TTCTCACAAAAACGCCGCTA
1 CTTTAGCGGCGCTTTTTC-CACAAACGCCGCTA
11476847 AAAATATAAC
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
42 4 0.06
43 63 0.94
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTTCCACAAACGCCGCTATAACTCGATAC
Found at i:11476797 original size:75 final size:75
Alignment explanation
Indices: 11476654--11476798 Score: 186
Period size: 75 Copynumber: 1.9 Consensus size: 75
11476644 ATCTCGAGAC
* *
11476654 CTTTAGCGGCGCTTTTCCTACAAACGCCACTATAGCTCAAGACATTTAGTGGCGCTTTTCTCAGA
1 CTTTAGCGGCGCTTTTCCTACAAACGCCACTATAGCTCAAGACATTTAGCGGCGCTTTTCTCACA
11476719 AACGCAAGAG
66 AACGCAAGAG
* * * * * *
11476729 CTTTAGCGGCGCTTTTTCC-ACAAACGTCGCTATAGCTCGATACCTTTAGCGGCTCTTTT-TCCA
1 CTTTAGCGGCGC-TTTTCCTACAAACGCCACTATAGCTCAAGACATTTAGCGGCGCTTTTCT-CA
11476792 CAAACGC
64 CAAACGC
11476799 CGCTATAACT
Statistics
Matches: 60, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
74 1 0.02
75 53 0.88
76 6 0.10
ACGTcount: A:0.23, C:0.29, G:0.19, T:0.29
Consensus pattern (75 bp):
CTTTAGCGGCGCTTTTCCTACAAACGCCACTATAGCTCAAGACATTTAGCGGCGCTTTTCTCACA
AACGCAAGAG
Found at i:11481180 original size:19 final size:19
Alignment explanation
Indices: 11481158--11481194 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
11481148 AAATTTTAGT
*
11481158 TTTTTTTATTTCATTTTTA
1 TTTTTGTATTTCATTTTTA
*
11481177 TTTTTGTATTTTATTTTT
1 TTTTTGTATTTCATTTTT
11481195 TTCTTATAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.14, C:0.03, G:0.03, T:0.81
Consensus pattern (19 bp):
TTTTTGTATTTCATTTTTA
Found at i:11481563 original size:7 final size:7
Alignment explanation
Indices: 11481553--11481590 Score: 58
Period size: 7 Copynumber: 5.4 Consensus size: 7
11481543 CTCTAACTCT
11481553 TAACCCC
1 TAACCCC
11481560 TAACCCC
1 TAACCCC
*
11481567 TAACCCT
1 TAACCCC
*
11481574 TTACCCC
1 TAACCCC
11481581 TAACCCC
1 TAACCCC
11481588 TAA
1 TAA
11481591 ATCTCAAACC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.50, G:0.00, T:0.21
Consensus pattern (7 bp):
TAACCCC
Found at i:11481569 original size:21 final size:21
Alignment explanation
Indices: 11481545--11481590 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
11481535 CCCTAAATCT
*
11481545 CTAACTCTTAACCCCTAACCC
1 CTAACCCTTAACCCCTAACCC
*
11481566 CTAACCCTTTACCCCTAACCC
1 CTAACCCTTAACCCCTAACCC
11481587 CTAA
1 CTAA
11481591 ATCTCAAACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.28, C:0.48, G:0.00, T:0.24
Consensus pattern (21 bp):
CTAACCCTTAACCCCTAACCC
Found at i:11481828 original size:25 final size:24
Alignment explanation
Indices: 11481776--11481830 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 24
11481766 ATTATATATG
* * *
11481776 AAATTATTTAATATATAAATTTAT
1 AAATTATTTAAAATATAAATTAAA
11481800 AAATATATTTAAAATATAAATTAAA
1 AAAT-TATTTAAAATATAAATTAAA
11481825 AAATTA
1 AAATTA
11481831 ATCTAAACCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
24 6 0.22
25 21 0.78
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (24 bp):
AAATTATTTAAAATATAAATTAAA
Found at i:11482158 original size:41 final size:41
Alignment explanation
Indices: 11482096--11482296 Score: 269
Period size: 41 Copynumber: 4.9 Consensus size: 41
11482086 TAAAATGTTT
* * *
11482096 TTAGTGGCGCTTTCCCAAAAACGCCGCTAAAGCCCCTAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCAAGCA
* *
11482137 TTAGCGGCGCTTTCCCAAAAACGCCGCTAGAGCCCCAAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCAAGCA
* * *
11482178 TTAGCAGCGCTTT-TCTAAAACGCCGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCAAGCA
** * * *
11482218 TTAATGGCGCTTTTTCAAAAACGCCGCTAAAGCACCGAGCA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCAAGCA
*
11482259 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGCCCCAA
1 TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCAA
11482297 ATTTGTTAGA
Statistics
Matches: 141, Mismatches: 18, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 33 0.23
41 108 0.77
ACGTcount: A:0.28, C:0.33, G:0.19, T:0.19
Consensus pattern (41 bp):
TTAGCGGCGCTTTCTCAAAAACGCCGCTAAAGCCCCAAGCA
Found at i:11482259 original size:81 final size:82
Alignment explanation
Indices: 11482102--11482294 Score: 271
Period size: 81 Copynumber: 2.4 Consensus size: 82
11482092 GTTTTTAGTG
** * * *
11482102 GCGCTTTCCCAAAAACGCCGCTAAAGCCCCTAGCATTAGCGGCGCTTTCCCAAAAACGCCGCTAG
1 GCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCATTAACGGCGCTTTCCCAAAAACGCCGCTAA
*
11482167 AGCCCCAAGCATTAGCA
66 AGCACCAAGCATTAGCA
* * **
11482184 GCGC-TTTTCTAAAACGCCGCTAAAGCCCCCAGCATTAATGGCGCTTTTTCAAAAACGCCGCTAA
1 GCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCATTAACGGCGCTTTCCCAAAAACGCCGCTAA
* *
11482248 AGCACCGAGCATTAGCG
66 AGCACCAAGCATTAGCA
11482265 GCGCTTTTTCAAAAACGCCGCTAAAGCCCC
1 GCGCTTTTTCAAAAACGCCGCTAAAGCCCC
11482295 AAATTTGTTA
Statistics
Matches: 97, Mismatches: 13, Indels: 2
0.87 0.12 0.02
Matches are distributed among these distances:
81 69 0.71
82 28 0.29
ACGTcount: A:0.28, C:0.34, G:0.19, T:0.19
Consensus pattern (82 bp):
GCGCTTTTTCAAAAACGCCGCTAAAGCCCCCAGCATTAACGGCGCTTTCCCAAAAACGCCGCTAA
AGCACCAAGCATTAGCA
Found at i:11482380 original size:28 final size:29
Alignment explanation
Indices: 11482339--11482394 Score: 87
Period size: 28 Copynumber: 2.0 Consensus size: 29
11482329 TTTTTTGCCT
11482339 TTTTTTTTCAAAAAACGCCGCTAATGCTC
1 TTTTTTTTCAAAAAACGCCGCTAATGCTC
* *
11482368 TTTTTTTT-GAAAAATGCCGCTAATGCT
1 TTTTTTTTCAAAAAACGCCGCTAATGCT
11482395 AGATCTTTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 17 0.68
29 8 0.32
ACGTcount: A:0.27, C:0.20, G:0.12, T:0.41
Consensus pattern (29 bp):
TTTTTTTTCAAAAAACGCCGCTAATGCTC
Found at i:11492185 original size:27 final size:27
Alignment explanation
Indices: 11492147--11492222 Score: 120
Period size: 27 Copynumber: 2.9 Consensus size: 27
11492137 CCTATAAGGT
11492147 AAATA-CCTCATAGGGTAAAATGACCG
1 AAATACCCTCATAGGGTAAAATGACCG
*
11492173 AAATACCCTCATAGGGTAAAATGACGG
1 AAATACCCTCATAGGGTAAAATGACCG
11492200 AAATACCC-CTATAGGGTAAAATG
1 AAATACCCTC-ATAGGGTAAAATG
11492223 GCTGTTTTAC
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
26 6 0.13
27 41 0.87
ACGTcount: A:0.42, C:0.18, G:0.20, T:0.20
Consensus pattern (27 bp):
AAATACCCTCATAGGGTAAAATGACCG
Found at i:11493627 original size:23 final size:24
Alignment explanation
Indices: 11493590--11493641 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
11493580 TTCTTTTTGT
*
11493590 TTTTCCTTCATTTTC-TTATTTCTC
1 TTTTCCTTCATTTTCATT-TTTCCC
*
11493614 TTTTCTTTC-TTTTCATTTTTCCC
1 TTTTCCTTCATTTTCATTTTTCCC
11493637 TTTTC
1 TTTTC
11493642 GTTTTCATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.06, C:0.25, G:0.00, T:0.69
Consensus pattern (24 bp):
TTTTCCTTCATTTTCATTTTTCCC
Found at i:11494170 original size:85 final size:85
Alignment explanation
Indices: 11494019--11494178 Score: 241
Period size: 85 Copynumber: 1.9 Consensus size: 85
11494009 TTTTCAAACA
*
11494019 ATATTTGCAGTTATTACCACTTGTTGTGGGTGAACAAAAAATTTGCAGATTAAACAAATAGCCAC
1 ATATTTGCAGTTACTACCACTTGTTGTGGGTGAACAAAAAATTTGCAGATTAAACAAATAGCCAC
11494084 TTGGTTCGTGGTCGAACCAT
66 TTGGTTCGTGGTCGAACCAT
* * * * * *
11494104 ATATTTGCGGTTACTACCACTTGTTGTGGGTGCATAACATATTTGCAGATTAAACAAACTA-TCA
1 ATATTTGCAGTTACTACCACTTGTTGTGGGTGAACAAAAAATTTGCAGATTAAACAAA-TAGCCA
11494168 CTTGGTTCGTG
65 CTTGGTTCGTG
11494179 AACAAACCAT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
85 65 0.97
86 2 0.03
ACGTcount: A:0.29, C:0.17, G:0.20, T:0.34
Consensus pattern (85 bp):
ATATTTGCAGTTACTACCACTTGTTGTGGGTGAACAAAAAATTTGCAGATTAAACAAATAGCCAC
TTGGTTCGTGGTCGAACCAT
Found at i:11495029 original size:3 final size:3
Alignment explanation
Indices: 11495021--11495054 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
11495011 CCATAATTCA
11495021 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
11495055 GAATATAATT
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11495467 original size:21 final size:22
Alignment explanation
Indices: 11495437--11495489 Score: 72
Period size: 23 Copynumber: 2.4 Consensus size: 22
11495427 ACGACACATT
*
11495437 AGTGCTTGAA-ACGACACACAA
1 AGTGCCTGAATACGACACACAA
*
11495458 AGTGCCTGAAATACGACACATAA
1 AGTGCCTG-AATACGACACACAA
11495481 AGTGCCTGA
1 AGTGCCTGA
11495490 TCGGCAAAGC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 7 0.25
22 3 0.11
23 18 0.64
ACGTcount: A:0.40, C:0.23, G:0.21, T:0.17
Consensus pattern (22 bp):
AGTGCCTGAATACGACACACAA
Found at i:11495983 original size:17 final size:18
Alignment explanation
Indices: 11495948--11495984 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
11495938 TTGAATTTCT
11495948 TTTCAATTTATACCCTAA
1 TTTCAATTTATACCCTAA
*
11495966 TTTCAATTTA-ATCCTAA
1 TTTCAATTTATACCCTAA
11495983 TT
1 TT
11495985 AACTCATTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 8 0.44
18 10 0.56
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.49
Consensus pattern (18 bp):
TTTCAATTTATACCCTAA
Found at i:11496366 original size:5 final size:6
Alignment explanation
Indices: 11496351--11496375 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11496341 CAAACTCTAG
11496351 TTTTTC TTTTTC TTTTTC TTTTTC T
1 TTTTTC TTTTTC TTTTTC TTTTTC T
11496376 CCTTTTCCCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTTC
Found at i:11496509 original size:19 final size:20
Alignment explanation
Indices: 11496485--11496534 Score: 77
Period size: 19 Copynumber: 2.6 Consensus size: 20
11496475 AATTAATAAG
11496485 AAATACATAT-TTTATTATT
1 AAATACATATGTTTATTATT
11496504 AAATACATATGTTTATTATT
1 AAATACATATGTTTATTATT
*
11496524 -ATTACATATGT
1 AAATACATATGT
11496535 ATTTACCAAC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 20 0.69
20 9 0.31
ACGTcount: A:0.40, C:0.06, G:0.04, T:0.50
Consensus pattern (20 bp):
AAATACATATGTTTATTATT
Found at i:11496755 original size:14 final size:17
Alignment explanation
Indices: 11496736--11496773 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 17
11496726 ATTTATTTCT
11496736 TAATATAA-T-ATTT-A
1 TAATATAATTAATTTAA
11496750 TAATATAATTAATTTAA
1 TAATATAATTAATTTAA
11496767 TAATATA
1 TAATATA
11496774 CTTTATAATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 8 0.38
15 1 0.05
16 4 0.19
17 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TAATATAATTAATTTAA
Found at i:11500916 original size:53 final size:53
Alignment explanation
Indices: 11500853--11501075 Score: 401
Period size: 53 Copynumber: 4.2 Consensus size: 53
11500843 AATTACAATG
11500853 TCCAAACTTTAGTCATTTCTTCATTGAAAATATACATTTACTAGTAATATGAC
1 TCCAAACTTTAGTCATTTCTTCATTGAAAATATACATTTACTAGTAATATGAC
**
11500906 TCCAAACTTTAGTCATTTCAACATTGAAAATATACATTTACTAGTAATATGAC
1 TCCAAACTTTAGTCATTTCTTCATTGAAAATATACATTTACTAGTAATATGAC
*
11500959 TCCAAACTTTAGTCATTTCTTCATTGATAATATACATTTACTAGTAATATGAC
1 TCCAAACTTTAGTCATTTCTTCATTGAAAATATACATTTACTAGTAATATGAC
* *
11501012 TCCAAACTTTAGTCACTTCTTCATTGAAAATATACATTTACTAGTCATATGAC
1 TCCAAACTTTAGTCATTTCTTCATTGAAAATATACATTTACTAGTAATATGAC
11501065 TCCAAACTTTA
1 TCCAAACTTTA
11501076 TTAGTGTACA
Statistics
Matches: 162, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
53 162 1.00
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (53 bp):
TCCAAACTTTAGTCATTTCTTCATTGAAAATATACATTTACTAGTAATATGAC
Found at i:11508456 original size:85 final size:85
Alignment explanation
Indices: 11508351--11508510 Score: 232
Period size: 85 Copynumber: 1.9 Consensus size: 85
11508341 TTTTCAAACA
* **
11508351 ATATTTGCAGTTATTACCACTTGTTGTGGGTGAACAACAAATTTGCAGATTAAGGAAA-TCGCCA
1 ATATTTGCACTTATTACCACTTGTTGTGGGTGAACAACAAATTTGCAGATTAAACAAACT-GCCA
11508415 CTTGGTTCGTGGTCGAACCAT
65 CTTGGTTCGTGGTCGAACCAT
* * * * *
11508436 ATATTTGCACTTATTGCCACTTGTTGTGGGTGCATAACATATTTGCAGATTAAACAAACTGTCAC
1 ATATTTGCACTTATTACCACTTGTTGTGGGTGAACAACAAATTTGCAGATTAAACAAACTGCCAC
11508501 TTGGTTCGTG
66 TTGGTTCGTG
11508511 AACAAACCAC
Statistics
Matches: 66, Mismatches: 8, Indels: 2
0.87 0.11 0.03
Matches are distributed among these distances:
85 65 0.98
86 1 0.02
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.34
Consensus pattern (85 bp):
ATATTTGCACTTATTACCACTTGTTGTGGGTGAACAACAAATTTGCAGATTAAACAAACTGCCAC
TTGGTTCGTGGTCGAACCAT
Found at i:11509777 original size:21 final size:22
Alignment explanation
Indices: 11509751--11509804 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
11509741 TACGTCATAT
*
11509751 AAGTGCCTGAAAT-GACACACG
1 AAGTGCCTGAAATAGACACACA
*
11509772 AAGTGCCTGAAATACGACACATA
1 AAGTGCCTGAAATA-GACACACA
11509795 AAGTGCCTGA
1 AAGTGCCTGA
11509805 TCGGCAAAGC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 13 0.45
23 16 0.55
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (22 bp):
AAGTGCCTGAAATAGACACACA
Found at i:11514519 original size:25 final size:25
Alignment explanation
Indices: 11514479--11514546 Score: 66
Period size: 25 Copynumber: 2.6 Consensus size: 25
11514469 AAAATTGGTA
11514479 AGACATTTTCCATTCT-TCTCTAAGT
1 AGACATTTTCCATTCTCT-TCTAAGT
** *
11514504 AGACATTTTCTGTTCTCTTCTAAGC
1 AGACATTTTCCATTCTCTTCTAAGT
11514529 AGCTGACATTTTCCATTC
1 A---GACATTTTCCATTC
11514547 CTCAAAGCTT
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
25 21 0.62
26 1 0.03
28 12 0.35
ACGTcount: A:0.22, C:0.25, G:0.10, T:0.43
Consensus pattern (25 bp):
AGACATTTTCCATTCTCTTCTAAGT
Found at i:11520386 original size:32 final size:33
Alignment explanation
Indices: 11520350--11520434 Score: 93
Period size: 32 Copynumber: 2.6 Consensus size: 33
11520340 AACTTTTCCG
* * *
11520350 GAAAATATTTT-CAGGAAATCTGCCAAACAGCA
1 GAAAATATTTTACAGCAAATCTACCAAACACCA
* *
11520382 GAAAATATTTTACA-CAGATTTACCAAACACCA
1 GAAAATATTTTACAGCAAATCTACCAAACACCA
* *
11520414 GAAAATATTTTCCAGTAAATC
1 GAAAATATTTTACAGCAAATC
11520435 ATTTTACAGA
Statistics
Matches: 42, Mismatches: 9, Indels: 3
0.78 0.17 0.06
Matches are distributed among these distances:
32 37 0.88
33 5 0.12
ACGTcount: A:0.45, C:0.19, G:0.11, T:0.26
Consensus pattern (33 bp):
GAAAATATTTTACAGCAAATCTACCAAACACCA
Found at i:11520433 original size:14 final size:15
Alignment explanation
Indices: 11520411--11520487 Score: 52
Period size: 14 Copynumber: 5.0 Consensus size: 15
11520401 TTACCAAACA
11520411 CCAGAAAAT-ATTTT
1 CCAGAAAATCATTTT
*
11520425 CCAGTAAATCATTTT
1 CCAGAAAATCATTTT
*
11520440 ACAGAAAAGTAAAACATTTT
1 CCAGAAAA-T----CATTTT
11520460 CCAG-AAATCATTTT
1 CCAGAAAATCATTTT
* *
11520474 ACGGAAAA-CATTTT
1 CCAGAAAATCATTTT
11520488 ACTGCCAAAC
Statistics
Matches: 50, Mismatches: 6, Indels: 14
0.71 0.09 0.20
Matches are distributed among these distances:
14 22 0.44
15 14 0.28
16 1 0.02
18 1 0.02
19 3 0.06
20 9 0.18
ACGTcount: A:0.43, C:0.16, G:0.09, T:0.32
Consensus pattern (15 bp):
CCAGAAAATCATTTT
Found at i:11520452 original size:20 final size:20
Alignment explanation
Indices: 11520427--11520466 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11520417 AATATTTTCC
*
11520427 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
11520447 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
11520467 TCATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:11520472 original size:34 final size:35
Alignment explanation
Indices: 11520415--11520481 Score: 109
Period size: 34 Copynumber: 1.9 Consensus size: 35
11520405 CAAACACCAG
*
11520415 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
*
11520450 AAAACATTTTCCAG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
11520482 CATTTTACTG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 17 0.57
35 13 0.43
ACGTcount: A:0.46, C:0.13, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:11520488 original size:14 final size:14
Alignment explanation
Indices: 11520450--11520489 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
11520440 ACAGAAAAGT
*
11520450 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
11520464 AAATCATTTTACGG
1 AAAACATTTTACAG
11520478 AAAACATTTTAC
1 AAAACATTTTAC
11520490 TGCCAAACAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:11523822 original size:23 final size:23
Alignment explanation
Indices: 11523779--11523827 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 23
11523769 TCTTTTTGTT
*
11523779 TTTTCTTCATTTTCTTCTTTCTC
1 TTTTCTTCATTTTCTTCTTTCCC
11523802 TTTTCTTTC-TTTTCATT-TTTCCC
1 TTTTC-TTCATTTTC-TTCTTTCCC
11523825 TTT
1 TTT
11523828 CGTTTTCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
23 18 0.78
24 5 0.22
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.71
Consensus pattern (23 bp):
TTTTCTTCATTTTCTTCTTTCCC
Found at i:11524879 original size:29 final size:29
Alignment explanation
Indices: 11524847--11524903 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
11524837 AGGGTATTGT
*
11524847 GAAGTATTTTGCTCTGAATTAGTGGCTAG
1 GAAGTATTCTGCTCTGAATTAGTGGCTAG
11524876 GAAGTATTCTGCTCTGAATTAGTGGCTA
1 GAAGTATTCTGCTCTGAATTAGTGGCTA
11524904 AGCCCCAATG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.25, C:0.12, G:0.26, T:0.37
Consensus pattern (29 bp):
GAAGTATTCTGCTCTGAATTAGTGGCTAG
Found at i:11530875 original size:70 final size:66
Alignment explanation
Indices: 11530758--11530897 Score: 158
Period size: 70 Copynumber: 2.1 Consensus size: 66
11530748 TTTTTTTTAA
* * * * *
11530758 TTTAAAAATAAAATTGATATTTTATTTGGTGGTGCCATTCTATATGGCGTC-ACCAGTGTCATGA
1 TTTAAAAATAAAACTAATATTTTATTTGGTGGAGCCATTATATATGGCG-CAACCAATGTCA-GA
11530822 TATT
64 T-TT
*
11530826 TTTAAAAATTAAAAACTAATATTTTATTTGGTGGAGCTA-TATATAATGGCGCAACCAATGTCAG
1 TTTAAAAA-T-AAAACTAATATTTTATTTGGTGGAGCCATTATAT-ATGGCGCAACCAATGTCAG
11530890 ATTT
63 ATTT
11530894 TTTA
1 TTTA
11530898 GTTTAAAAGT
Statistics
Matches: 62, Mismatches: 6, Indels: 8
0.82 0.08 0.11
Matches are distributed among these distances:
68 14 0.23
69 9 0.15
70 39 0.63
ACGTcount: A:0.34, C:0.11, G:0.16, T:0.40
Consensus pattern (66 bp):
TTTAAAAATAAAACTAATATTTTATTTGGTGGAGCCATTATATATGGCGCAACCAATGTCAGATT
T
Found at i:11538894 original size:40 final size:43
Alignment explanation
Indices: 11538850--11538952 Score: 124
Period size: 46 Copynumber: 2.4 Consensus size: 43
11538840 TCAGAACACT
11538850 GGCATTAAGCTTGCTAGACA-T-T-AA-GTCTAAATAATTCACC
1 GGCATTAAGC-TGCTAGACATTATCAATGTCTAAATAATTCACC
*
11538890 GGCATTAAGGCTGCTAGACATTAAGTCAATGTCTGAATAATTCACC
1 GGCATTAA-GCTGCTAGACATT-A-TCAATGTCTAAATAATTCACC
11538936 GGCATTAAGCCTGCTAG
1 GGCATTAAG-CTGCTAG
11538953 GTACAGAACT
Statistics
Matches: 54, Mismatches: 1, Indels: 10
0.83 0.02 0.15
Matches are distributed among these distances:
40 17 0.31
41 3 0.06
44 1 0.02
45 3 0.06
46 30 0.56
ACGTcount: A:0.32, C:0.20, G:0.19, T:0.28
Consensus pattern (43 bp):
GGCATTAAGCTGCTAGACATTATCAATGTCTAAATAATTCACC
Found at i:11541605 original size:12 final size:12
Alignment explanation
Indices: 11541590--11541616 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11541580 TTTGTATATA
11541590 TTTTAGAATTTT
1 TTTTAGAATTTT
11541602 TTTTAGAATTTT
1 TTTTAGAATTTT
11541614 TTT
1 TTT
11541617 AATTTTTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.00, G:0.07, T:0.70
Consensus pattern (12 bp):
TTTTAGAATTTT
Found at i:11541652 original size:18 final size:19
Alignment explanation
Indices: 11541631--11541668 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11541621 TTTTTAAAAA
11541631 TATAAAT-TTTGAAATTTT
1 TATAAATATTTGAAATTTT
*
11541649 TATAAATATTTTAAATTTT
1 TATAAATATTTGAAATTTT
11541668 T
1 T
11541669 TTTTGTAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TATAAATATTTGAAATTTT
Found at i:11541902 original size:5 final size:5
Alignment explanation
Indices: 11541892--11541917 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11541882 TTTAATTTTT
11541892 TCGAA TCGAA TCGAA TCGAA TCGAA T
1 TCGAA TCGAA TCGAA TCGAA TCGAA T
11541918 TGAGTTTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.19, T:0.23
Consensus pattern (5 bp):
TCGAA
Found at i:11542155 original size:19 final size:19
Alignment explanation
Indices: 11542128--11542165 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
11542118 TCCATATCAT
*
11542128 CATTAAACATGCCATTTAA
1 CATTAAACATGCCACTTAA
*
11542147 CATTCAACATGCCACTTAA
1 CATTAAACATGCCACTTAA
11542166 TCACCACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.26, G:0.05, T:0.29
Consensus pattern (19 bp):
CATTAAACATGCCACTTAA
Found at i:11550725 original size:28 final size:27
Alignment explanation
Indices: 11550666--11550719 Score: 90
Period size: 28 Copynumber: 2.0 Consensus size: 27
11550656 ACAGTTCAGT
*
11550666 TCAGTTGGGCCTTTGCCCATTACAATA
1 TCAGTTGGGCCTTAGCCCATTACAATA
11550693 TCAGTGTGGGCCTTAGCCCATTACAAT
1 TCAGT-TGGGCCTTAGCCCATTACAAT
11550720 GACAGTAATA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
27 5 0.20
28 20 0.80
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.31
Consensus pattern (27 bp):
TCAGTTGGGCCTTAGCCCATTACAATA
Found at i:11551040 original size:27 final size:27
Alignment explanation
Indices: 11550998--11551069 Score: 78
Period size: 27 Copynumber: 2.7 Consensus size: 27
11550988 ATAACATAAA
*
11550998 GCAT-ACAATCATTTTATAACAT-AGGG
1 GCATAACAGTCATTTTATAACATGA-GG
*
11551024 GCATAACAGTCATTTTACT-ACGTGAGG
1 GCATAACAGTCATTTTA-TAACATGAGG
*
11551051 GCATAAAAGTCATTTTATA
1 GCATAACAGTCATTTTATA
11551070 TTAGTTTGGG
Statistics
Matches: 39, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
26 5 0.13
27 32 0.82
28 2 0.05
ACGTcount: A:0.36, C:0.15, G:0.17, T:0.32
Consensus pattern (27 bp):
GCATAACAGTCATTTTATAACATGAGG
Found at i:11559981 original size:19 final size:20
Alignment explanation
Indices: 11559942--11559990 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
11559932 CATCAACCAT
11559942 TCATATAT-AT-ATTCAATA
1 TCATATATCATAATTCAATA
11559960 TCATATATCATAATTC-ATA
1 TCATATATCATAATTCAATA
*
11559979 TCACATATCATA
1 TCATATATCATA
11559991 TACCAATAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 8 0.29
19 16 0.57
20 4 0.14
ACGTcount: A:0.43, C:0.16, G:0.00, T:0.41
Consensus pattern (20 bp):
TCATATATCATAATTCAATA
Found at i:11563213 original size:127 final size:128
Alignment explanation
Indices: 11562987--11563241 Score: 494
Period size: 127 Copynumber: 2.0 Consensus size: 128
11562977 TCGGTTTTAC
11562987 ACATTATGTCAATTTAGTCTTGATTCTTAAATCTTCAAAATTAAAAAAAATTATTTAAAAGTTCA
1 ACATTATGTCAATTTAGTCTTGATTCTTAAATCTTCAAAATTAAAAAAAATTATTTAAAAGTTCA
*
11563052 CTTTTCGATAAATATACATACAAAATTATAAATAAATTAATACCC-TTTTTTTAATATGAAAT
66 CTTTTCGATAAATATACAAACAAAATTATAAATAAATTAATACCCTTTTTTTTAATATGAAAT
11563114 ACATTATGTCAATTTAGTCTTGATTCTTAAATCTTCAAAATTAAAAAAAATTATTTAAAAGTTCA
1 ACATTATGTCAATTTAGTCTTGATTCTTAAATCTTCAAAATTAAAAAAAATTATTTAAAAGTTCA
11563179 CTTTTCGATAAATATACAAACAAAATTATAAATAAATTAATACCCTTTTTTTTAATATGAAAT
66 CTTTTCGATAAATATACAAACAAAATTATAAATAAATTAATACCCTTTTTTTTAATATGAAAT
11563242 TTATTTATTA
Statistics
Matches: 126, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
127 109 0.87
128 17 0.13
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.40
Consensus pattern (128 bp):
ACATTATGTCAATTTAGTCTTGATTCTTAAATCTTCAAAATTAAAAAAAATTATTTAAAAGTTCA
CTTTTCGATAAATATACAAACAAAATTATAAATAAATTAATACCCTTTTTTTTAATATGAAAT
Found at i:11564468 original size:44 final size:45
Alignment explanation
Indices: 11564379--11564508 Score: 183
Period size: 45 Copynumber: 2.9 Consensus size: 45
11564369 TGTTATCATA
11564379 AACATGATTAAAACGAGTAAGACCATAGCTGAAAGACGCTATGGC
1 AACATGATTAAAACGAGTAAGACCATAGCTGAAAGACGCTATGGC
* *
11564424 AACATGATTAAAACGAGTACGACCA-AGCTGAAAGATGCTATGGC
1 AACATGATTAAAACGAGTAAGACCATAGCTGAAAGACGCTATGGC
* * * *
11564468 ATCATGA-CAAAAGTGAGTAAGACCATGGCTGAAAGACGCTA
1 AACATGATTAAAA-CGAGTAAGACCATAGCTGAAAGACGCTA
11564509 CAACATCCTT
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
43 4 0.05
44 34 0.45
45 37 0.49
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.18
Consensus pattern (45 bp):
AACATGATTAAAACGAGTAAGACCATAGCTGAAAGACGCTATGGC
Found at i:11566325 original size:15 final size:15
Alignment explanation
Indices: 11566305--11566333 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
11566295 TATAGGGTAC
11566305 AATTGTGAAAATAAT
1 AATTGTGAAAATAAT
11566320 AATTGTGAAAATAA
1 AATTGTGAAAATAA
11566334 ATATGTTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.14, T:0.31
Consensus pattern (15 bp):
AATTGTGAAAATAAT
Found at i:11568169 original size:27 final size:27
Alignment explanation
Indices: 11568130--11568181 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
11568120 CTGGATGAAC
*
11568130 ATGGGATATGATACAATTGACATGCCA
1 ATGGGATAGGATACAATTGACATGCCA
11568157 ATGGGATAGGATACAATTGACATGC
1 ATGGGATAGGATACAATTGACATGC
11568182 AAATAGCTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.37, C:0.13, G:0.25, T:0.25
Consensus pattern (27 bp):
ATGGGATAGGATACAATTGACATGCCA
Found at i:11573958 original size:29 final size:29
Alignment explanation
Indices: 11573917--11574001 Score: 107
Period size: 29 Copynumber: 2.9 Consensus size: 29
11573907 ATTGTTCTGG
*
11573917 AAAAATAATTTTGACAAGATGGGTTTTGA
1 AAAAATAATTTTGACGAGATGGGTTTTGA
* * * *
11573946 AAAAATAAATTTGACGTGATGTGTTCTGA
1 AAAAATAATTTTGACGAGATGGGTTTTGA
* *
11573975 AAAAATTATTTTGACGAGATGGATTTT
1 AAAAATAATTTTGACGAGATGGGTTTT
11574002 TTTTTTGAAA
Statistics
Matches: 45, Mismatches: 11, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
29 45 1.00
ACGTcount: A:0.39, C:0.05, G:0.20, T:0.36
Consensus pattern (29 bp):
AAAAATAATTTTGACGAGATGGGTTTTGA
Found at i:11574216 original size:20 final size:20
Alignment explanation
Indices: 11574191--11574231 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
11574181 ATGTACTGTC
11574191 AGCAAAAGTACTGAAAAATG
1 AGCAAAAGTACTGAAAAATG
11574211 AGCAAAAGTACTGAAAAATG
1 AGCAAAAGTACTGAAAAATG
11574231 A
1 A
11574232 CAGTGCATCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.56, C:0.10, G:0.20, T:0.15
Consensus pattern (20 bp):
AGCAAAAGTACTGAAAAATG
Found at i:11577546 original size:59 final size:59
Alignment explanation
Indices: 11577415--11577593 Score: 211
Period size: 59 Copynumber: 3.1 Consensus size: 59
11577405 GTCCACATCG
* * * * ***
11577415 AAAGAACTTCTAATTTATTAAATGAAACAATAT--TATTTGGTTTGTACAAAAATATTCA
1 AAAGAACTTATATTTTATTAAATGAAACAATATAAAAATAAATTT-TACAAAAATATTCA
* * *
11577473 AAAGAACTTCTATTTTATTAAATGAAATAATATAAAAATAAATTTTACAAAAATATTGA
1 AAAGAACTTATATTTTATTAAATGAAACAATATAAAAATAAATTTTACAAAAATATTCA
* *
11577532 AAAGAACTTATATTTTATTAAATGAAACAATATAAAAAT-AATTTGAACAAAATTATTCA
1 AAAGAACTTATATTTTATTAAATGAAACAATATAAAAATAAATTT-TACAAAAATATTCA
11577591 AAA
1 AAA
11577594 ATAAATCAAT
Statistics
Matches: 105, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
58 36 0.34
59 64 0.61
60 5 0.05
ACGTcount: A:0.52, C:0.07, G:0.06, T:0.35
Consensus pattern (59 bp):
AAAGAACTTATATTTTATTAAATGAAACAATATAAAAATAAATTTTACAAAAATATTCA
Found at i:11577962 original size:18 final size:18
Alignment explanation
Indices: 11577939--11577980 Score: 75
Period size: 18 Copynumber: 2.3 Consensus size: 18
11577929 GAAGTGAAAA
*
11577939 AGGATACATATAAGGGTT
1 AGGATAAATATAAGGGTT
11577957 AGGATAAATATAAGGGTT
1 AGGATAAATATAAGGGTT
11577975 AGGATA
1 AGGATA
11577981 TGCACTTGGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.43, C:0.02, G:0.29, T:0.26
Consensus pattern (18 bp):
AGGATAAATATAAGGGTT
Found at i:11580516 original size:12 final size:12
Alignment explanation
Indices: 11580485--11580510 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11580475 GATAAATTAG
11580485 TTCCTTTTAGAT
1 TTCCTTTTAGAT
11580497 TTCCTTTTAGAT
1 TTCCTTTTAGAT
11580509 TT
1 TT
11580511 TTTTTTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.15, C:0.15, G:0.08, T:0.62
Consensus pattern (12 bp):
TTCCTTTTAGAT
Found at i:11582000 original size:21 final size:22
Alignment explanation
Indices: 11581964--11582015 Score: 72
Period size: 21 Copynumber: 2.4 Consensus size: 22
11581954 ACATTATATT
11581964 ATTATATATTGCTATAAATTTA
1 ATTATATATTGCTATAAATTTA
*
11581986 ATTAT-TATTGTTATAAA-TTA
1 ATTATATATTGCTATAAATTTA
11582006 CATTATATAT
1 -ATTATATAT
11582016 AAAAATAGCA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
20 3 0.11
21 16 0.59
22 8 0.30
ACGTcount: A:0.40, C:0.04, G:0.04, T:0.52
Consensus pattern (22 bp):
ATTATATATTGCTATAAATTTA
Found at i:11584224 original size:19 final size:19
Alignment explanation
Indices: 11584202--11584239 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
11584192 AAATTCAAGT
*
11584202 AAGTATAAAAGTTATTAAA
1 AAGTATAAAAATTATTAAA
11584221 AAGTATAAAAATTATTAAA
1 AAGTATAAAAATTATTAAA
11584240 GATATTTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.08, T:0.32
Consensus pattern (19 bp):
AAGTATAAAAATTATTAAA
Found at i:11597398 original size:5 final size:5
Alignment explanation
Indices: 11597388--11597413 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11597378 AAAATAAGTG
11597388 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
11597414 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:11598134 original size:21 final size:21
Alignment explanation
Indices: 11598110--11598153 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
11598100 TTAATTACAA
*
11598110 CCAATCTTAGAAACTCAACAC
1 CCAATCTCAGAAACTCAACAC
11598131 CCAATCTCAGAAACTCAACAC
1 CCAATCTCAGAAACTCAACAC
11598152 CC
1 CC
11598154 GTCGTGTCTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.41, C:0.39, G:0.05, T:0.16
Consensus pattern (21 bp):
CCAATCTCAGAAACTCAACAC
Found at i:11602338 original size:9 final size:9
Alignment explanation
Indices: 11602253--11602337 Score: 109
Period size: 9 Copynumber: 9.4 Consensus size: 9
11602243 GTAGTGATTC
*
11602253 AATTTGGTT
1 AATTCGGTT
11602262 AATTCGGTT
1 AATTCGGTT
* *
11602271 AATTCAGAT
1 AATTCGGTT
11602280 AATTCAGG-T
1 AATTC-GGTT
11602289 AATTCGGTT
1 AATTCGGTT
*
11602298 AATTCGGGT
1 AATTCGGTT
11602307 AATTCGGTT
1 AATTCGGTT
11602316 AATTCGGTT
1 AATTCGGTT
*
11602325 AATTTGGTT
1 AATTCGGTT
11602334 AATT
1 AATT
11602338 TTTAACCAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
8 2 0.03
9 64 0.96
10 1 0.01
ACGTcount: A:0.27, C:0.08, G:0.21, T:0.44
Consensus pattern (9 bp):
AATTCGGTT
Found at i:11602517 original size:12 final size:12
Alignment explanation
Indices: 11602500--11602524 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11602490 TGTTATTTCG
11602500 GGTCGGTTAACC
1 GGTCGGTTAACC
11602512 GGTCGGTTAACC
1 GGTCGGTTAACC
11602524 G
1 G
11602525 AATGAACACC
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:0.16, C:0.24, G:0.36, T:0.24
Consensus pattern (12 bp):
GGTCGGTTAACC
Found at i:11610325 original size:17 final size:17
Alignment explanation
Indices: 11610300--11610356 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
11610290 TTTTCTAGGG
*
11610300 CTTAGTGTTTATGTTTT
1 CTTAATGTTTATGTTTT
*
11610317 CTTAATGTTTATGCTTT
1 CTTAATGTTTATGTTTT
***
11610334 -TT-CCCTTTATGTTTT
1 CTTAATGTTTATGTTTT
11610349 CTTAATGT
1 CTTAATGT
11610357 CTATTGCGAA
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
15 9 0.31
16 4 0.14
17 16 0.55
ACGTcount: A:0.14, C:0.12, G:0.12, T:0.61
Consensus pattern (17 bp):
CTTAATGTTTATGTTTT
Found at i:11618412 original size:17 final size:17
Alignment explanation
Indices: 11618392--11618428 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
11618382 AATTTTTGAA
11618392 TTAGTGAATTCTGTGAT
1 TTAGTGAATTCTGTGAT
*
11618409 TTAGTGAATTTTGTGAT
1 TTAGTGAATTCTGTGAT
11618426 TTA
1 TTA
11618429 AAAAGAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.24, C:0.03, G:0.22, T:0.51
Consensus pattern (17 bp):
TTAGTGAATTCTGTGAT
Found at i:11619629 original size:46 final size:46
Alignment explanation
Indices: 11619576--11619761 Score: 318
Period size: 46 Copynumber: 4.0 Consensus size: 46
11619566 TCATGGAAAA
* *
11619576 TTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATATTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
* *
11619622 TTGTGAAAAATAGGTATGGTGTTTCAGTGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
11619668 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
* *
11619714 TTGTGAAAAGTAGGTATGGTATTTCAATGAAGAAAACCATATTGAG
1 TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
11619760 TT
1 TT
11619762 ATAGCATTGT
Statistics
Matches: 134, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 134 1.00
ACGTcount: A:0.37, C:0.08, G:0.26, T:0.30
Consensus pattern (46 bp):
TTGTGAAAAGTAGGTATGGTGTTTCAATGAAGAAAACCATACTGAG
Found at i:11624075 original size:14 final size:12
Alignment explanation
Indices: 11624045--11624070 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11624035 TATTATTATT
11624045 TAACATTAAAAA
1 TAACATTAAAAA
11624057 TAACATTAAAAA
1 TAACATTAAAAA
11624069 TA
1 TA
11624071 TAACAAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (12 bp):
TAACATTAAAAA
Found at i:11626281 original size:58 final size:61
Alignment explanation
Indices: 11626219--11626352 Score: 168
Period size: 61 Copynumber: 2.2 Consensus size: 61
11626209 AATCACTTTA
*
11626219 ATATTAAATTAATATAATACTTA-T-CAAGATAAATATTAGATTAAATTTAACATTAA-AT
1 ATATTAAATTAATATAATACTTACTACAAGATAAATATTAAATTAAATTTAACATTAAGAT
* * * *
11626277 ATATTAAATTAATAGAATATTTATCTACAAGATAAATATTAAATTTAATTTAATATTAAGAT
1 ATATTAAATTAATATAATACTTA-CTACAAGATAAATATTAAATTAAATTTAACATTAAGAT
* *
11626339 A-ATCAATTTAATAT
1 ATATTAAATTAATAT
11626353 TAAATTAATA
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
58 21 0.33
60 1 0.02
61 39 0.61
62 3 0.05
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.41
Consensus pattern (61 bp):
ATATTAAATTAATATAATACTTACTACAAGATAAATATTAAATTAAATTTAACATTAAGAT
Found at i:11626361 original size:20 final size:19
Alignment explanation
Indices: 11626311--11626363 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 19
11626301 CTACAAGATA
11626311 AATATTAAATT--TAATTT
1 AATATTAAATTAATAATTT
11626328 AATATTAAGA-TAATCAATTT
1 AATATTAA-ATTAAT-AATTT
11626348 AATATTAAATTAATAA
1 AATATTAAATTAATAA
11626364 AATACTATCA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 9 0.29
18 1 0.03
19 4 0.13
20 17 0.55
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (19 bp):
AATATTAAATTAATAATTT
Found at i:11634935 original size:40 final size:41
Alignment explanation
Indices: 11634851--11634935 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 41
11634841 AATTATGGAA
* * * *
11634851 TACTGAATATTGTTTTTGAGTACTGAATTGAATTGTGAAGT
1 TACTGAATATTGTTTATGAGTACTGAATTGAACTCTGAAAT
* *
11634892 TACTGAATATTG-TTATGTGTACTGCATTGAACTCTGAAAT
1 TACTGAATATTGTTTATGAGTACTGAATTGAACTCTGAAAT
11634932 TACT
1 TACT
11634936 AAAGTAATGA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
40 26 0.68
41 12 0.32
ACGTcount: A:0.29, C:0.09, G:0.19, T:0.42
Consensus pattern (41 bp):
TACTGAATATTGTTTATGAGTACTGAATTGAACTCTGAAAT
Found at i:11635239 original size:6 final size:6
Alignment explanation
Indices: 11635228--11635271 Score: 52
Period size: 6 Copynumber: 7.2 Consensus size: 6
11635218 GTGTGTTGGA
* * *
11635228 TACTGT TACTGT TACTGT TATTGC TACCGT TACTGAT TACTGT T
1 TACTGT TACTGT TACTGT TACTGT TACTGT TACTG-T TACTGT T
11635272 TAGGTGCTGT
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
6 25 0.81
7 6 0.19
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.48
Consensus pattern (6 bp):
TACTGT
Found at i:11642446 original size:40 final size:40
Alignment explanation
Indices: 11642362--11642446 Score: 91
Period size: 40 Copynumber: 2.1 Consensus size: 40
11642352 AATTATGGAA
* * * * *
11642362 TACTGAATATTGTTTTTGAGTACTGAATTGAATTGTGAAGT
1 TACTGAATATTGTTTCT-AGTACCGAATTGAACTCTGAAAT
*
11642403 TACTGAATATTGTTATCT-GTACCGCATTGAACTCTGAAAT
1 TACTGAATATTGTT-TCTAGTACCGAATTGAACTCTGAAAT
11642443 TACT
1 TACT
11642447 ACAGTAATGA
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
40 21 0.57
41 14 0.38
42 2 0.05
ACGTcount: A:0.29, C:0.12, G:0.18, T:0.41
Consensus pattern (40 bp):
TACTGAATATTGTTTCTAGTACCGAATTGAACTCTGAAAT
Found at i:11642748 original size:12 final size:12
Alignment explanation
Indices: 11642731--11642774 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
11642721 GTGTGTTGAA
11642731 TACTGTTATTGT
1 TACTGTTATTGT
*
11642743 TACTGTTATTGC
1 TACTGTTATTGT
* *
11642755 TACCGTTACTGAT
1 TACTGTTATTG-T
11642768 TACTGTT
1 TACTGTT
11642775 TAGGTGTTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
12 20 0.77
13 6 0.23
ACGTcount: A:0.18, C:0.16, G:0.16, T:0.50
Consensus pattern (12 bp):
TACTGTTATTGT
Found at i:11645216 original size:10 final size:10
Alignment explanation
Indices: 11645201--11645238 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
11645191 GGACTTTCCA
11645201 TGAATGTTCT
1 TGAATGTTCT
11645211 TGAATGTTCT
1 TGAATGTTCT
*
11645221 TAAAATGTTCT
1 T-GAATGTTCT
11645232 TG-ATGTT
1 TGAATGTT
11645239 AAATGCTACA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 5 0.20
10 11 0.44
11 9 0.36
ACGTcount: A:0.24, C:0.08, G:0.18, T:0.50
Consensus pattern (10 bp):
TGAATGTTCT
Found at i:11655709 original size:63 final size:63
Alignment explanation
Indices: 11655636--11655778 Score: 173
Period size: 63 Copynumber: 2.3 Consensus size: 63
11655626 AATATCTCTC
* * * *
11655636 ACACAGCCTGGACACACGCCCGTG-TCTCTAGCCCATGTGATTCTAATTCACAAACAGTGAGTT
1 ACACGGCCTGGACACACGCCCGTGTTC-CTAGCACATGTGACTCTAATTCAAAAACAGTGAGTT
* * * * * *
11655699 ACATGGCCTGGACACATGCTCGTGTTCCTAGCACGTGTGGCTCTAATTTAAAAACAGTGAGTT
1 ACACGGCCTGGACACACGCCCGTGTTCCTAGCACATGTGACTCTAATTCAAAAACAGTGAGTT
11655762 ACACGGCC-GGACACACG
1 ACACGGCCTGGACACACG
11655779 GGCTACCACA
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
62 8 0.12
63 57 0.85
64 2 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (63 bp):
ACACGGCCTGGACACACGCCCGTGTTCCTAGCACATGTGACTCTAATTCAAAAACAGTGAGTT
Found at i:11660236 original size:16 final size:16
Alignment explanation
Indices: 11660215--11660256 Score: 75
Period size: 16 Copynumber: 2.6 Consensus size: 16
11660205 GTAAGGAGCA
11660215 TTGCAAAGTGCTCACT
1 TTGCAAAGTGCTCACT
11660231 TTGCAAAGTGCTCACT
1 TTGCAAAGTGCTCACT
*
11660247 TTGCGAAGTG
1 TTGCAAAGTG
11660257 GAAAGAGAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.24, C:0.21, G:0.24, T:0.31
Consensus pattern (16 bp):
TTGCAAAGTGCTCACT
Found at i:11661973 original size:16 final size:16
Alignment explanation
Indices: 11661948--11661979 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
11661938 GTGGTTGCTT
*
11661948 AAAGAGAGAGAGAGAG
1 AAAGAAAGAGAGAGAG
11661964 AAAGAAAGAGAGAGAG
1 AAAGAAAGAGAGAGAG
11661980 GGGTTATTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.41, T:0.00
Consensus pattern (16 bp):
AAAGAAAGAGAGAGAG
Found at i:11663600 original size:37 final size:37
Alignment explanation
Indices: 11663541--11663618 Score: 120
Period size: 37 Copynumber: 2.1 Consensus size: 37
11663531 AGTGTTAGAA
* *
11663541 TAATTTAATTTCTATAGAATTAGATTATTAATCTTGT
1 TAATTTAATTTCCATAGAATTAGATTATCAATCTTGT
* *
11663578 TAATTTAATTTCCATAGCATTAGATTATCAATGTTGT
1 TAATTTAATTTCCATAGAATTAGATTATCAATCTTGT
11663615 TAAT
1 TAAT
11663619 GATGTTATGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.35, C:0.08, G:0.09, T:0.49
Consensus pattern (37 bp):
TAATTTAATTTCCATAGAATTAGATTATCAATCTTGT
Found at i:11674259 original size:21 final size:21
Alignment explanation
Indices: 11674220--11674260 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
11674210 AACTTGGTTA
*
11674220 TATTACCAAAGACCAAGATTG
1 TATTACCAAAGAACAAGATTG
*
11674241 TATTACCAAAGAACGAGATT
1 TATTACCAAAGAACAAGATT
11674261 TTGGGAGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.15, T:0.24
Consensus pattern (21 bp):
TATTACCAAAGAACAAGATTG
Found at i:11674599 original size:62 final size:61
Alignment explanation
Indices: 11674501--11674624 Score: 187
Period size: 62 Copynumber: 2.0 Consensus size: 61
11674491 ACACTATAAA
* * *
11674501 TTCAATTTGATTTTTGTTTTGGTAAATTTATCAACTGAATTATGTTTCATTGACAATTTTAAC
1 TTCAATTTGATTTGTGTTTTGGTAAATTTATCAACTGAATTATG-TT-ATTAACAATGTTAAC
*
11674564 TTCAATTTGATTTGT-TTTTGGTAAATTTATCAACTGAGTTATGTTATTAACAATGTTAAC
1 TTCAATTTGATTTGTGTTTTGGTAAATTTATCAACTGAATTATGTTATTAACAATGTTAAC
11674624 T
1 T
11674625 CTTTTTTCTT
Statistics
Matches: 57, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
60 14 0.25
61 2 0.04
62 27 0.47
63 14 0.25
ACGTcount: A:0.29, C:0.09, G:0.12, T:0.50
Consensus pattern (61 bp):
TTCAATTTGATTTGTGTTTTGGTAAATTTATCAACTGAATTATGTTATTAACAATGTTAAC
Found at i:11675428 original size:15 final size:14
Alignment explanation
Indices: 11675399--11675431 Score: 50
Period size: 15 Copynumber: 2.4 Consensus size: 14
11675389 TTCAATAAAC
11675399 TTTT-AAAATTTGA
1 TTTTAAAAATTTGA
11675412 TTTTAAAAATATTGA
1 TTTTAAAAAT-TTGA
11675427 TTTTA
1 TTTTA
11675432 TTTTTTATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 4 0.22
14 5 0.28
15 9 0.50
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (14 bp):
TTTTAAAAATTTGA
Found at i:11675448 original size:17 final size:17
Alignment explanation
Indices: 11675426--11675465 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
11675416 AAAAATATTG
*
11675426 ATTTTATT-TTTTATACA
1 ATTTTATTATTTT-TAAA
11675443 ATTTTATTATTTTTAAA
1 ATTTTATTATTTTTAAA
11675460 ATTTTA
1 ATTTTA
11675466 AATAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTTTATTATTTTTAAA
Found at i:11676963 original size:79 final size:79
Alignment explanation
Indices: 11676858--11677011 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 79
11676848 GCGTGTTTAC
* * * *
11676858 TGCAAGTGTTGCCGCGAATATACTATCAAATTTGAATTGTTAAGTTTAAAGTCTATGTTTATTTG
1 TGCAAGTGTTGCCGCGAATATACTATCAAATTTGAATGGTTAAGTTTAAAGTCTATATTTATCTA
11676923 AATAAATTTGTGTG
66 AATAAATTTGTGTG
* * * * * *
11676937 TGCAAGTTTTGCTC-CGAGTATGCTATCATATTTGAATGGTTAATTTTAAAGTTTATATTTATCT
1 TGCAAGTGTTGC-CGCGAATATACTATCAAATTTGAATGGTTAAGTTTAAAGTCTATATTTATCT
11677001 AAATAAATTTG
65 AAATAAATTTG
11677012 CACACTTTCG
Statistics
Matches: 64, Mismatches: 10, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
79 63 0.98
80 1 0.02
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.44
Consensus pattern (79 bp):
TGCAAGTGTTGCCGCGAATATACTATCAAATTTGAATGGTTAAGTTTAAAGTCTATATTTATCTA
AATAAATTTGTGTG
Found at i:11678222 original size:13 final size:13
Alignment explanation
Indices: 11678206--11678230 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11678196 AATTGTAAAA
11678206 AAATAATTATTAT
1 AAATAATTATTAT
11678219 AAATAATTATTA
1 AAATAATTATTA
11678231 AATATTGTTT
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
AAATAATTATTAT
Found at i:11678263 original size:3 final size:3
Alignment explanation
Indices: 11678255--11678288 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
11678245 TATTTTAAAT
*
11678255 TCC TCC TCC TTC TCC TCC TCC TCC TCC TCC TCC T
1 TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC TCC T
11678289 TCTTCAATTG
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.00, C:0.62, G:0.00, T:0.38
Consensus pattern (3 bp):
TCC
Found at i:11679007 original size:17 final size:17
Alignment explanation
Indices: 11678961--11679107 Score: 110
Period size: 18 Copynumber: 8.4 Consensus size: 17
11678951 ATTTTAAAAT
*
11678961 ATTTTTAACAATATTTA
1 ATTTTTTACAATATTTA
11678978 ATAGTTATTTACAATATTTA
1 AT--TT-TTTACAATATTTA
11678998 ATTTTTTACAATATTTA
1 ATTTTTTACAATATTTA
*
11679015 ATTTTTTTACAATTTTTA
1 A-TTTTTTACAATATTTA
11679033 ATATTTTT--AATAATTTAA
1 AT-TTTTTACAAT-ATTT-A
11679051 ATGTTTTTACAAT-TCTTA
1 AT-TTTTTACAATAT-TTA
11679069 TATATTTTTA-AATA-TT-
1 -AT-TTTTTACAATATTTA
* *
11679085 -TTTTTTACTATTTTTA
1 ATTTTTTACAATATTTA
11679101 ATTTTTT
1 ATTTTTT
11679108 TTTACAAATT
Statistics
Matches: 107, Mismatches: 7, Indels: 32
0.73 0.05 0.22
Matches are distributed among these distances:
13 6 0.06
14 3 0.03
15 2 0.02
16 3 0.03
17 28 0.26
18 36 0.34
19 12 0.11
20 17 0.16
ACGTcount: A:0.33, C:0.05, G:0.01, T:0.61
Consensus pattern (17 bp):
ATTTTTTACAATATTTA
Found at i:11679010 original size:37 final size:35
Alignment explanation
Indices: 11678946--11679085 Score: 135
Period size: 37 Copynumber: 3.8 Consensus size: 35
11678936 TAATAACTTG
11678946 TTACAATTTTAAAATATTTTTAACAATATTTAATAGTTAT
1 TTACAATTTT--AATATTTTT-A-AATATTTAATAGTT-T
*
11678986 TTACAATATTTAAT-TTTTTACAATATTTAAT-TTTT
1 TTACAAT-TTTAATATTTTTA-AATATTTAATAGTTT
11679021 TTACAATTTTTAATATTTTT-AATAATTTAA-ATGTTT
1 TTACAA-TTTTAATATTTTTAAAT-ATTTAATA-GTTT
11679057 TTACAATTCTTATATATTTTTAAATATTT
1 TTACAATT-TTA-ATATTTTTAAATATTT
11679086 TTTTTACTAT
Statistics
Matches: 89, Mismatches: 2, Indels: 21
0.79 0.02 0.19
Matches are distributed among these distances:
34 3 0.03
35 21 0.24
36 20 0.22
37 24 0.27
38 8 0.09
39 3 0.03
40 7 0.08
41 3 0.03
ACGTcount: A:0.37, C:0.05, G:0.01, T:0.56
Consensus pattern (35 bp):
TTACAATTTTAATATTTTTAAATATTTAATAGTTT
Found at i:11679038 original size:20 final size:20
Alignment explanation
Indices: 11678923--11679120 Score: 81
Period size: 20 Copynumber: 10.7 Consensus size: 20
11678913 NNNNNNNATG
* **
11678923 TTTTATAATTTTATAATAACT
1 TTTTACAATTTT-TAATATTT
* *
11678944 TGTTACAA-TTTTAAAATATT
1 TTTTACAATTTTTAATAT-TT
* * *
11678964 TTTAACAATATTTAATAGTT
1 TTTTACAATTTTTAATATTT
* *
11678984 ATTTACAATATTT-A-A-TT
1 TTTTACAATTTTTAATATTT
*
11679001 TTTTACAATATTT-A-ATTT
1 TTTTACAATTTTTAATATTT
11679019 TTTTACAATTTTTAATA-TT
1 TTTTACAATTTTTAATATTT
* * *
11679038 TTTAATAA--TTTAA-ATGT
1 TTTTACAATTTTTAATATTT
* *
11679055 TTTTACAATTCTT-ATATAT
1 TTTTACAATTTTTAATATTT
11679074 TTTTA-AA----T-AT-TTT
1 TTTTACAATTTTTAATATTT
* *
11679087 TTTTACTATTTTTAATTTTT
1 TTTTACAATTTTTAATATTT
11679107 TTTTACAAATTTTT
1 TTTTAC-AATTTTT
11679121 GGTCTAGTCA
Statistics
Matches: 136, Mismatches: 24, Indels: 34
0.70 0.12 0.18
Matches are distributed among these distances:
13 7 0.05
14 4 0.03
16 1 0.01
17 28 0.21
18 19 0.14
19 26 0.19
20 33 0.24
21 18 0.13
ACGTcount: A:0.34, C:0.05, G:0.02, T:0.59
Consensus pattern (20 bp):
TTTTACAATTTTTAATATTT
Found at i:11679039 original size:8 final size:9
Alignment explanation
Indices: 11678958--11679087 Score: 63
Period size: 9 Copynumber: 14.0 Consensus size: 9
11678948 ACAATTTTAA
11678958 AATATTTTT
1 AATATTTTT
* *
11678967 AACAATATTT
1 AA-TATTTTT
11678977 AATAGTTATTT
1 AATA-TT-TTT
*
11678988 ACA-ATATTT
1 A-ATATTTTT
11678997 AAT-TTTTT
1 AATATTTTT
*
11679005 ACA-ATATTT
1 A-ATATTTTT
*
11679014 AATTTTTTT
1 AATATTTTT
11679023 ACA-ATTTTT
1 A-ATATTTTT
11679032 AATATTTTT
1 AATATTTTT
* *
11679041 AATAATTTA
1 AATATTTTT
*
11679050 AATGTTTTT
1 AATATTTTT
*
11679059 ACA-ATTCTT
1 A-ATATTTTT
11679068 ATATATTTTT
1 A-ATATTTTT
11679078 AAATATTTTT
1 -AATATTTTT
11679088 TTTACTATTT
Statistics
Matches: 89, Mismatches: 19, Indels: 25
0.67 0.14 0.19
Matches are distributed among these distances:
8 8 0.09
9 50 0.56
10 24 0.27
11 6 0.07
12 1 0.01
ACGTcount: A:0.36, C:0.05, G:0.02, T:0.58
Consensus pattern (9 bp):
AATATTTTT
Found at i:11681005 original size:51 final size:51
Alignment explanation
Indices: 11680929--11681056 Score: 202
Period size: 51 Copynumber: 2.5 Consensus size: 51
11680919 GACGACGATT
*
11680929 TATGGCATAAGACCATAGATGAAAGAAGCTACGGTAGTCTAGTATAAGGTA
1 TATGGCATAAGACCATAGATGAAAGAAGCTACGGTAGTCTAGTATAAGGCA
* * * *
11680980 TATGGCATAAAACCATAGATGAAAGAGGCTATGGTAGTCTGGTATAAGGCA
1 TATGGCATAAGACCATAGATGAAAGAAGCTACGGTAGTCTAGTATAAGGCA
*
11681031 TATGGCATAAGACCATGGATGAAAGA
1 TATGGCATAAGACCATAGATGAAAGA
11681057 TGTCATGGTA
Statistics
Matches: 70, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 70 1.00
ACGTcount: A:0.39, C:0.12, G:0.27, T:0.23
Consensus pattern (51 bp):
TATGGCATAAGACCATAGATGAAAGAAGCTACGGTAGTCTAGTATAAGGCA
Found at i:11682532 original size:27 final size:28
Alignment explanation
Indices: 11682502--11682628 Score: 127
Period size: 27 Copynumber: 4.7 Consensus size: 28
11682492 AACACGTTAG
*
11682502 GAAAGAAAAACCTTTGTGGC-AAATCAT
1 GAAAGAAAAGCCTTTGTGGCGAAATCAT
*
11682529 GAAAGAAAAGCCTTTGTGACGAAA-CAT
1 GAAAGAAAAGCCTTTGTGGCGAAATCAT
* * *
11682556 AAAAGGAAAGCCTTTGTGGCGAAAT-AC
1 GAAAGAAAAGCCTTTGTGGCGAAATCAT
* * *
11682583 GAAAGAAAAGCCTGTGTGGTG-AATTAT
1 GAAAGAAAAGCCTTTGTGGCGAAATCAT
* * *
11682610 GAAGGGATAGCCTTTGTGG
1 GAAAGAAAAGCCTTTGTGG
11682629 AGAACCTTGT
Statistics
Matches: 82, Mismatches: 15, Indels: 6
0.80 0.15 0.06
Matches are distributed among these distances:
26 3 0.04
27 76 0.93
28 3 0.04
ACGTcount: A:0.39, C:0.13, G:0.27, T:0.22
Consensus pattern (28 bp):
GAAAGAAAAGCCTTTGTGGCGAAATCAT
Found at i:11686432 original size:6 final size:6
Alignment explanation
Indices: 11686415--11686463 Score: 80
Period size: 6 Copynumber: 8.0 Consensus size: 6
11686405 GCAAACGAAT
*
11686415 CATTTC TCATTTT CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC
1 CATTTC -CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC
11686464 GAGAAACTTA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 35 0.88
7 5 0.12
ACGTcount: A:0.16, C:0.31, G:0.00, T:0.53
Consensus pattern (6 bp):
CATTTC
Found at i:11689182 original size:19 final size:17
Alignment explanation
Indices: 11689143--11689176 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11689133 AATTCTTGAG
*
11689143 AAATGATATTTTCATTA
1 AAATAATATTTTCATTA
11689160 AAATAATATTTTCATTA
1 AAATAATATTTTCATTA
11689177 TAAAATTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (17 bp):
AAATAATATTTTCATTA
Found at i:11691696 original size:45 final size:45
Alignment explanation
Indices: 11691639--11691776 Score: 222
Period size: 45 Copynumber: 3.1 Consensus size: 45
11691629 ATGTTATCAT
*
11691639 CAACATGACGAAAACGAATAAGACCATAGCTGAAAGACGTTATGG
1 CAACATGACGAAAACGAATAAGACCATAGCTGAAAGACGCTATGG
*
11691684 CAACATGACGAAAACGAATAAGACCATAGCTAAAAGACGCTATGG
1 CAACATGACGAAAACGAATAAGACCATAGCTGAAAGACGCTATGG
* * **
11691729 CAACATGACGGAAATGAATAAGACCATATTTGAAAGACGCTATGG
1 CAACATGACGAAAACGAATAAGACCATAGCTGAAAGACGCTATGG
11691774 CAA
1 CAA
11691777 TTTGTCAGAA
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 86 1.00
ACGTcount: A:0.45, C:0.18, G:0.21, T:0.16
Consensus pattern (45 bp):
CAACATGACGAAAACGAATAAGACCATAGCTGAAAGACGCTATGG
Found at i:11691796 original size:45 final size:44
Alignment explanation
Indices: 11691639--11691806 Score: 210
Period size: 45 Copynumber: 3.7 Consensus size: 44
11691629 ATGTTATCAT
*
11691639 CAACATGACGAAAACGAATAAGACCATAGCTGAAAGACGTTATGG
1 CAACATGACG-AAACGAATAAGACCATAGCTGAAAGACGCTATGG
*
11691684 CAACATGACGAAAACGAATAAGACCATAGCTAAAAGACGCTATGG
1 CAACATGACG-AAACGAATAAGACCATAGCTGAAAGACGCTATGG
* **
11691729 CAACATGACGGAAATGAATAAGACCATATTTGAAAGACGCTATGG
1 CAACATGAC-GAAACGAATAAGACCATAGCTGAAAGACGCTATGG
** * * *
11691774 CAATTTGTCAGAAACGAGTAAGACCATGGCTGA
1 CAACATGAC-GAAACGAATAAGACCATAGCTGA
11691807 TAAACAGGAT
Statistics
Matches: 107, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
45 106 0.99
46 1 0.01
ACGTcount: A:0.43, C:0.18, G:0.22, T:0.17
Consensus pattern (44 bp):
CAACATGACGAAACGAATAAGACCATAGCTGAAAGACGCTATGG
Found at i:11691939 original size:66 final size:66
Alignment explanation
Indices: 11691862--11691994 Score: 230
Period size: 66 Copynumber: 2.0 Consensus size: 66
11691852 AGGACGCTAT
* * *
11691862 GGCATCCTTTGATAGTTTTTTATCAGGTACTATGTACCGGTGAAGGAGTTCACACCGATGGCTCG
1 GGCATCCTTTGATAGTTATTTATCAGGTACTATGTACCGATGAAGGAGTTCACACCGAGGGCTCG
11691927 A
66 A
*
11691928 GGCATCCTTTGATAGTTATTTATCAGGTACTATGTACCGATGAAGGAGTTCATACCGAGGGCTCG
1 GGCATCCTTTGATAGTTATTTATCAGGTACTATGTACCGATGAAGGAGTTCACACCGAGGGCTCG
11691993 A
66 A
11691994 G
1 G
11691995 ATAGTACATG
Statistics
Matches: 63, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 63 1.00
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (66 bp):
GGCATCCTTTGATAGTTATTTATCAGGTACTATGTACCGATGAAGGAGTTCACACCGAGGGCTCG
A
Found at i:11692991 original size:14 final size:14
Alignment explanation
Indices: 11692972--11692998 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11692962 AAGTTGATTA
11692972 TGAATTGTGGTATT
1 TGAATTGTGGTATT
11692986 TGAATTGTGGTAT
1 TGAATTGTGGTAT
11692999 GTTTTGGCAC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.00, G:0.30, T:0.48
Consensus pattern (14 bp):
TGAATTGTGGTATT
Found at i:11693504 original size:13 final size:13
Alignment explanation
Indices: 11693486--11693543 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
11693476 TAATGTTTGA
11693486 ATATTTATTTATG
1 ATATTTATTTATG
**
11693499 ATATTTAAAT-TG
1 ATATTTATTTATG
*
11693511 AT-TTT-TTGTTTG
1 ATATTTATT-TATG
11693523 AATATTTATTTATG
1 -ATATTTATTTATG
11693537 ATATTTA
1 ATATTTA
11693544 AATTGATTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 10
0.70 0.10 0.20
Matches are distributed among these distances:
11 4 0.11
12 6 0.17
13 17 0.49
14 6 0.17
15 2 0.06
ACGTcount: A:0.31, C:0.00, G:0.09, T:0.60
Consensus pattern (13 bp):
ATATTTATTTATG
Found at i:11693521 original size:38 final size:38
Alignment explanation
Indices: 11693479--11693555 Score: 154
Period size: 38 Copynumber: 2.0 Consensus size: 38
11693469 CTATGAATAA
11693479 TGTTTGAATATTTATTTATGATATTTAAATTGATTTTT
1 TGTTTGAATATTTATTTATGATATTTAAATTGATTTTT
11693517 TGTTTGAATATTTATTTATGATATTTAAATTGATTTTT
1 TGTTTGAATATTTATTTATGATATTTAAATTGATTTTT
11693555 T
1 T
11693556 AACTATTTTA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.29, C:0.00, G:0.10, T:0.61
Consensus pattern (38 bp):
TGTTTGAATATTTATTTATGATATTTAAATTGATTTTT
Found at i:11698390 original size:29 final size:32
Alignment explanation
Indices: 11698334--11698392 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
11698324 AGTACAAATC
* *
11698334 TAAAATAATAATAATTACTAATTAAATTAATA
1 TAAAATAACAATAATTACAAATTAAATTAATA
11698366 TAAAATAACAATAA-TA-AAATT-AATTAA
1 TAAAATAACAATAATTACAAATTAAATTAA
11698393 CTAAAACTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 6 0.24
30 4 0.16
31 2 0.08
32 13 0.52
ACGTcount: A:0.63, C:0.03, G:0.00, T:0.34
Consensus pattern (32 bp):
TAAAATAACAATAATTACAAATTAAATTAATA
Found at i:11698460 original size:29 final size:30
Alignment explanation
Indices: 11698413--11698472 Score: 104
Period size: 29 Copynumber: 2.0 Consensus size: 30
11698403 ACCTAAGTTA
*
11698413 AGTTATCGGCTTTGCGAGCTATTCTAGCCT
1 AGTTATCGGCTTTACGAGCTATTCTAGCCT
11698443 AGTT-TCGGCTTTACGAGCTATTCTAGCCT
1 AGTTATCGGCTTTACGAGCTATTCTAGCCT
11698472 A
1 A
11698473 AATCCAGTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 25 0.86
30 4 0.14
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (30 bp):
AGTTATCGGCTTTACGAGCTATTCTAGCCT
Found at i:11716864 original size:4 final size:4
Alignment explanation
Indices: 11716839--11716880 Score: 57
Period size: 4 Copynumber: 10.0 Consensus size: 4
11716829 TTGAGTATTA
*
11716839 TTAT ATAT TTAAT TTGAT TTAT TTAT TTAT TTAT TTAT TTAT
1 TTAT TTAT TT-AT TT-AT TTAT TTAT TTAT TTAT TTAT TTAT
11716881 AAATAAATCA
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
4 26 0.76
5 8 0.24
ACGTcount: A:0.29, C:0.00, G:0.02, T:0.69
Consensus pattern (4 bp):
TTAT
Found at i:11717058 original size:19 final size:18
Alignment explanation
Indices: 11717016--11717075 Score: 63
Period size: 19 Copynumber: 3.4 Consensus size: 18
11717006 CCAAACACTA
11717016 AAAAAATAAATCATTTTC
1 AAAAAATAAATCATTTTC
*
11717034 AGAAAAGTAAATCATTTTC
1 A-AAAAATAAATCATTTTC
* *
11717053 TAAAAAT-CAT--TTTTC
1 AAAAAATAAATCATTTTC
11717068 AAAAAATA
1 AAAAAATA
11717076 TTTTACAGGA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
15 11 0.31
17 2 0.06
18 6 0.17
19 16 0.46
ACGTcount: A:0.53, C:0.10, G:0.03, T:0.33
Consensus pattern (18 bp):
AAAAAATAAATCATTTTC
Found at i:11717061 original size:14 final size:14
Alignment explanation
Indices: 11717042--11717079 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
11717032 TCAGAAAAGT
*
11717042 AAATCATTTTCTAA
1 AAATCATTTTCAAA
11717056 AAATCATTTTTCAAA
1 AAATCA-TTTTCAAA
11717071 AAAT-ATTTT
1 AAATCATTTT
11717080 ACAGGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
13 4 0.18
14 7 0.32
15 11 0.50
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (14 bp):
AAATCATTTTCAAA
Found at i:11717072 original size:15 final size:15
Alignment explanation
Indices: 11717042--11717079 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
11717032 TCAGAAAAGT
*
11717042 AAATCA-TTTTCTAA
1 AAATCATTTTTCAAA
11717056 AAATCATTTTTCAAA
1 AAATCATTTTTCAAA
11717071 AAAT-ATTTT
1 AAATCATTTT
11717080 ACAGGAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 11 0.50
15 11 0.50
ACGTcount: A:0.45, C:0.11, G:0.00, T:0.45
Consensus pattern (15 bp):
AAATCATTTTTCAAA
Found at i:11717277 original size:21 final size:21
Alignment explanation
Indices: 11717251--11717306 Score: 94
Period size: 21 Copynumber: 2.7 Consensus size: 21
11717241 AACAGCGGTG
*
11717251 GCGGTGAGATTAGTTACTGTA
1 GCGGTGAGATTAGATACTGTA
*
11717272 GCGGTGAGATTGGATACTGTA
1 GCGGTGAGATTAGATACTGTA
11717293 GCGGTGAGATTAGA
1 GCGGTGAGATTAGA
11717307 AACAATGGTG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.25, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGATACTGTA
Found at i:11720673 original size:252 final size:252
Alignment explanation
Indices: 11720228--11720986 Score: 1419
Period size: 252 Copynumber: 3.0 Consensus size: 252
11720218 ATGGTACAAA
11720228 TGACTTGTCTGAAATTATGAACTATCTACCTGGGAACAGAACTGCTACTTCTGTTCAAAGGCCAA
1 TGACTTGTCTGAAATTATGAACTATCTACCTGGGAACAGAACTGCTACTTCTGTTCAAAGGCCAA
* *
11720293 GTGCAACCACTATTTCATGAAAAAAGCATGCATCGTCCAAAAGATCTTCAAGAATTGAGGACTTG
66 GTGCAACCACTATTTCAGGAAAAAAGCATGCATCGTCCAAAAGTTCTTCAAGAATTGAGGACTTG
11720358 ATGAAAGTTATTAATAGAGAAAAGAACGATCCAACAGCAGGAGAAATGGCAGGTATTTTGCGTGA
131 ATGAAAGTTATTAATAGAGAAAAGAACGATCCAACAGCAGGAGAAATGGCAGGTATTTTGCGTGA
11720423 TAGTTTAGCATCAACTGAATCTTCGAAAGGGAACAAAATAGAGAAGGAAAAAAATAG
196 TAGTTTAGCATCAACTGAATCTTCGAAAGGGAACAAAATAGAGAAGGAAAAAAATAG
11720480 TGACTTGTCTGAAATTATGAACTATCTACCTGGGAACAGAACTGCTACTTCTGTTCAAAGGCCAA
1 TGACTTGTCTGAAATTATGAACTATCTACCTGGGAACAGAACTGCTACTTCTGTTCAAAGGCCAA
*
11720545 GTGCAACCACTATTTCAGGAAAAAAGCATGCATTGTCCAAAAGTTCTTCAAGAATTGAGGACTTG
66 GTGCAACCACTATTTCAGGAAAAAAGCATGCATCGTCCAAAAGTTCTTCAAGAATTGAGGACTTG
11720610 ATGAAAGTTATTAATAGAGAAAAGAACGATCCAACAGCAGGAGAAATGGCAGGTATTTTGCGTGA
131 ATGAAAGTTATTAATAGAGAAAAGAACGATCCAACAGCAGGAGAAATGGCAGGTATTTTGCGTGA
*
11720675 TAGTTTAGCATCAACTGAATCTTCGAAAGGGAACAAAATAGGGAAGGAAAAAAATAG
196 TAGTTTAGCATCAACTGAATCTTCGAAAGGGAACAAAATAGAGAAGGAAAAAAATAG
*
11720732 TGACTTGTCTGAAATTATGAACCATCTACCTGGGAACAGAACTGCTACTTCTGTTCAAAGGCCAA
1 TGACTTGTCTGAAATTATGAACTATCTACCTGGGAACAGAACTGCTACTTCTGTTCAAAGGCCAA
* *
11720797 GTGCAACCATTATTTCAGGAAAAAAGCATGCATCGTCCAAAAGTTTTTCAAGAATTGAGGACTTG
66 GTGCAACCACTATTTCAGGAAAAAAGCATGCATCGTCCAAAAGTTCTTCAAGAATTGAGGACTTG
*
11720862 ATGAAAGTTATTAATAGAGAAAAGAACGATCCAACAGCAGGAGAAATGGCAGGTATTTTGCATGA
131 ATGAAAGTTATTAATAGAGAAAAGAACGATCCAACAGCAGGAGAAATGGCAGGTATTTTGCGTGA
* * *
11720927 TACTTTAGCACCAACTGAATCTTTGAAAGGGAACAAAATAGAGAAGGAAAAAAATAG
196 TAGTTTAGCATCAACTGAATCTTCGAAAGGGAACAAAATAGAGAAGGAAAAAAATAG
11720984 TGA
1 TGA
11720987 TTCAATTGAA
Statistics
Matches: 494, Mismatches: 13, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
252 494 1.00
ACGTcount: A:0.39, C:0.16, G:0.21, T:0.24
Consensus pattern (252 bp):
TGACTTGTCTGAAATTATGAACTATCTACCTGGGAACAGAACTGCTACTTCTGTTCAAAGGCCAA
GTGCAACCACTATTTCAGGAAAAAAGCATGCATCGTCCAAAAGTTCTTCAAGAATTGAGGACTTG
ATGAAAGTTATTAATAGAGAAAAGAACGATCCAACAGCAGGAGAAATGGCAGGTATTTTGCGTGA
TAGTTTAGCATCAACTGAATCTTCGAAAGGGAACAAAATAGAGAAGGAAAAAAATAG
Found at i:11723819 original size:15 final size:15
Alignment explanation
Indices: 11723772--11723811 Score: 53
Period size: 16 Copynumber: 2.6 Consensus size: 15
11723762 TATAAGCAAC
11723772 AAAACATAGTAATTA
1 AAAACATAGTAATTA
* *
11723787 AAAAAATAATTAATTA
1 AAAACAT-AGTAATTA
11723803 AAAACATAG
1 AAAACATAG
11723812 CTATTAAATT
Statistics
Matches: 20, Mismatches: 4, Indels: 2
0.77 0.15 0.08
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (15 bp):
AAAACATAGTAATTA
Found at i:11724029 original size:19 final size:20
Alignment explanation
Indices: 11724005--11724042 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
11723995 TGAGCTGGTT
11724005 GGAGCTGAAA-TGAGCTAAG
1 GGAGCTGAAATTGAGCTAAG
11724024 GGAGCTGAAATTGAGCTAA
1 GGAGCTGAAATTGAGCTAA
11724043 AATCAGCTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.37, C:0.11, G:0.34, T:0.18
Consensus pattern (20 bp):
GGAGCTGAAATTGAGCTAAG
Found at i:11724210 original size:98 final size:98
Alignment explanation
Indices: 11724091--11724482 Score: 757
Period size: 98 Copynumber: 4.0 Consensus size: 98
11724081 TTAGCTCGAG
*
11724091 CTTCTCCATCATCAATGAGCAGGTCCCTTTGGGAGCTCAATGGAATCAAGAGGTGGGCTTGGTGG
1 CTTCTCCATAATCAATGAGCAGGTCCCTTTGGGAGCTCAATGGAATCAAGAGGTGGGCTTGGTGG
11724156 AGCTTGGGACGTGGTCTCGTCAATAAGTATGCT
66 AGCTTGGGACGTGGTCTCGTCAATAAGTATGCT
11724189 CTTCTCCATAATCAATGAGCAGGTCCCTTTGGGAGCTCAATGGAATCAAGAGGTGGGCTTGGTGG
1 CTTCTCCATAATCAATGAGCAGGTCCCTTTGGGAGCTCAATGGAATCAAGAGGTGGGCTTGGTGG
11724254 AGCTTGGGACGTGGTCTCGTCAATAAGTATGCT
66 AGCTTGGGACGTGGTCTCGTCAATAAGTATGCT
11724287 CTTCTCCATAATCAATGAGCAGGTCCCTTTGGGAGCTCAATGGAATCAAGAGGTGGGCTTGGTGG
1 CTTCTCCATAATCAATGAGCAGGTCCCTTTGGGAGCTCAATGGAATCAAGAGGTGGGCTTGGTGG
11724352 AGCTTGGGACGTGGTCTCGTCAATAAGTATGCT
66 AGCTTGGGACGTGGTCTCGTCAATAAGTATGCT
*
11724385 CTTCTCCATAATCAATGAGCAGGTCCCTTTGGGAGCTCAATGGAATCAAGAGGAGGGCTTGGTGG
1 CTTCTCCATAATCAATGAGCAGGTCCCTTTGGGAGCTCAATGGAATCAAGAGGTGGGCTTGGTGG
*
11724450 AGCTTGGGACGTGGTCACGTCAATAAGTATGCT
66 AGCTTGGGACGTGGTCTCGTCAATAAGTATGCT
11724483 TTTTATCTTT
Statistics
Matches: 291, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
98 291 1.00
ACGTcount: A:0.23, C:0.20, G:0.31, T:0.27
Consensus pattern (98 bp):
CTTCTCCATAATCAATGAGCAGGTCCCTTTGGGAGCTCAATGGAATCAAGAGGTGGGCTTGGTGG
AGCTTGGGACGTGGTCTCGTCAATAAGTATGCT
Found at i:11729979 original size:131 final size:130
Alignment explanation
Indices: 11729727--11730050 Score: 350
Period size: 131 Copynumber: 2.5 Consensus size: 130
11729717 CATATATCGC
* * * *
11729727 TAAAATGTGTAACGACCAAACAAGTTGTTGCTAAATGTTAAAATATTTGCAACAATCTTAAATTG
1 TAAAATGTATAACGACAAAACAAGTTGTTGTTAAATGTTAAAATATTAGCAACAATCTTAAATTG
** * * * **
11729792 TCGTTATGTAATTTAATTTTATGCTTATTCATTGCAACGACAAATCATGTTGTTGTGAATT-TGT
66 TCGTTACATAATTTAATTTTATACTTATTAATAGCAACGACAAAT-ATGTCATTGTGAATTAT-T
11729856 AA
129 AA
*
11729858 TAAAATGTATAACGACAAAACAAGTTGTTATTAAATGTTAAAATATTAGCAACAA-CTTTGAAA-
1 TAAAATGTATAACGACAAAACAAGTTGTTGTTAAATGTTAAAATATTAGCAACAATC-TT-AAAT
* * *
11729921 TGTTGTTACATAATTTAATTTTCTACTTATTAATAGCAATGACACAA-ATTGTCATTGTGAATTA
64 TGTCGTTACATAATTTAATTTTATACTTATTAATAGCAACGACA-AATA-TGTCATTGTGAATTA
11729985 TTAA
127 TTAA
* * * ** * * * *
11729989 TAAAATTTACAACGACAAAATAAGTTGTTGTTAAACCTTTAAATACTAGCAGCAACCTTAAA
1 TAAAATGTATAACGACAAAACAAGTTGTTGTTAAATGTTAAAATATTAGCAACAATCTTAAA
11730051 AAAATTGTTA
Statistics
Matches: 163, Mismatches: 24, Indels: 13
0.81 0.12 0.06
Matches are distributed among these distances:
130 5 0.03
131 151 0.93
132 7 0.04
ACGTcount: A:0.40, C:0.12, G:0.12, T:0.36
Consensus pattern (130 bp):
TAAAATGTATAACGACAAAACAAGTTGTTGTTAAATGTTAAAATATTAGCAACAATCTTAAATTG
TCGTTACATAATTTAATTTTATACTTATTAATAGCAACGACAAATATGTCATTGTGAATTATTAA
Found at i:11731553 original size:24 final size:24
Alignment explanation
Indices: 11731519--11731571 Score: 70
Period size: 24 Copynumber: 2.2 Consensus size: 24
11731509 TTTCTAGAAG
* **
11731519 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATGAACATAATAT
*
11731543 ATTTAGCATTTATTAACATAATAT
1 ATTTAGCATTTATGAACATAATAT
11731567 ATTTA
1 ATTTA
11731572 ACTTTGATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.40, C:0.04, G:0.08, T:0.49
Consensus pattern (24 bp):
ATTTAGCATTTATGAACATAATAT
Found at i:11731581 original size:24 final size:24
Alignment explanation
Indices: 11731536--11731581 Score: 67
Period size: 24 Copynumber: 1.9 Consensus size: 24
11731526 ATTTATGAGT
*
11731536 ATAATATATTTAGCATTTATTAAC
1 ATAATATATTTAACATTTATTAAC
11731560 ATAATATATTTAAC-TTTGATTA
1 ATAATATATTTAACATTT-ATTA
11731582 GAATTAGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 3 0.15
24 17 0.85
ACGTcount: A:0.41, C:0.07, G:0.04, T:0.48
Consensus pattern (24 bp):
ATAATATATTTAACATTTATTAAC
Done.