Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr13
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: 91551117
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2824764 characters in sequence are not A, C, G, or T
File 258 of 276
Found at i:85503933 original size:22 final size:22
Alignment explanation
Indices: 85503900--85503947 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
85503890 TCAAAATTCT
85503900 TTTATCTATTTTA-TATTTGAAA
1 TTTATCTATTTTACTATTTG-AA
*
85503922 TTTAGTCT-TTTTACTTTTTGAA
1 TTTA-TCTATTTTACTATTTGAA
85503944 TTTA
1 TTTA
85503948 AAAATTTACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.25, C:0.06, G:0.06, T:0.62
Consensus pattern (22 bp):
TTTATCTATTTTACTATTTGAA
Found at i:85508833 original size:13 final size:13
Alignment explanation
Indices: 85508801--85508825 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
85508791 ACAGAAAGAA
85508801 AAAGAAAGAAAAC
1 AAAGAAAGAAAAC
85508814 AAAGAAAGAAAA
1 AAAGAAAGAAAA
85508826 AGGAGAAAAA
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:0.80, C:0.04, G:0.16, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAAC
Found at i:85509800 original size:37 final size:37
Alignment explanation
Indices: 85509708--85509813 Score: 115
Period size: 37 Copynumber: 2.8 Consensus size: 37
85509698 TGACTTCAAG
*
85509708 TTGATGAGACACTGGGTGTCAATCTATCACTTCGGATTTA
1 TTGATAAGACACTGGGTGTCAAT-T-T-ACTTCGGATTTA
** * *
85509748 TTCGATAAGGTACTGGGTGCCAATTTACTTCTG-TTTAA
1 TT-GATAAGACACTGGGTGTCAATTTACTTCGGATTT-A
85509786 TTGATAAGACACTGGGTGTCAATTTACT
1 TTGATAAGACACTGGGTGTCAATTTACT
85509814 ACTTCGAATT
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
37 26 0.46
38 9 0.16
39 1 0.02
40 3 0.05
41 17 0.30
ACGTcount: A:0.25, C:0.16, G:0.22, T:0.37
Consensus pattern (37 bp):
TTGATAAGACACTGGGTGTCAATTTACTTCGGATTTA
Found at i:85512523 original size:25 final size:24
Alignment explanation
Indices: 85512495--85512567 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 24
85512485 CCATTAATCA
85512495 GGAAGCCCAAGATAGCCATATATCG
1 GGAAGCCCAAGA-AGCCATATATCG
**
85512520 GGAAGTTCAAGCAAGCCATAT-T-G
1 GGAAGCCCAAG-AAGCCATATATCG
85512543 GGAAGCTCCGAAG-AGCCATATATCG
1 GGAAGC-CC-AAGAAGCCATATATCG
85512568 AGACGCTCAA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
23 14 0.36
24 3 0.08
25 21 0.54
26 1 0.03
ACGTcount: A:0.34, C:0.22, G:0.26, T:0.18
Consensus pattern (24 bp):
GGAAGCCCAAGAAGCCATATATCG
Found at i:85512841 original size:26 final size:27
Alignment explanation
Indices: 85512789--85512844 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
85512779 TTTATCCATA
85512789 CGGGGCTTAATACTTGTCAGACATTAT
1 CGGGGCTTAATACTTGTCAGACATTAT
85512816 CGGGGCTTAATACTT-TCAGACATTAT
1 CGGGGCTTAATACTTGTCAGACATTAT
85512842 CGG
1 CGG
85512845 ATGAGTGATT
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
26 14 0.48
27 15 0.52
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (27 bp):
CGGGGCTTAATACTTGTCAGACATTAT
Found at i:85513076 original size:21 final size:21
Alignment explanation
Indices: 85513052--85513093 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
85513042 TAAATTTGAC
*
85513052 TCAATTTAATACAATTCACAT
1 TCAATTCAATACAATTCACAT
* *
85513073 TCAATTCAATCCAATTTACAT
1 TCAATTCAATACAATTCACAT
85513094 CTTAGGAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.21, G:0.00, T:0.38
Consensus pattern (21 bp):
TCAATTCAATACAATTCACAT
Found at i:85517686 original size:21 final size:21
Alignment explanation
Indices: 85517618--85517687 Score: 81
Period size: 21 Copynumber: 3.3 Consensus size: 21
85517608 TCTCCATTGG
*
85517618 TTTAGACTATGACCATATATA
1 TTTATACTATGACCATATATA
*
85517639 TTTATA-TATTGACTGCA-ATATT
1 TTTATACTA-TGAC--CATATATA
85517661 TTTATACTATGACCATATATA
1 TTTATACTATGACCATATATA
85517682 TTTATA
1 TTTATA
85517688 TATATTATCT
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
20 4 0.10
21 19 0.46
22 14 0.34
23 4 0.10
ACGTcount: A:0.36, C:0.11, G:0.07, T:0.46
Consensus pattern (21 bp):
TTTATACTATGACCATATATA
Found at i:85518639 original size:18 final size:18
Alignment explanation
Indices: 85518618--85518683 Score: 123
Period size: 18 Copynumber: 3.7 Consensus size: 18
85518608 AAAATGTGAG
85518618 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTT
85518636 AAATGATGTTCACATTTT
1 AAATGATGTTCACATTTT
*
85518654 AAATGATGTTCACATTTC
1 AAATGATGTTCACATTTT
85518672 AAATGATGTTCA
1 AAATGATGTTCA
85518684 AATTGATGGA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
18 47 1.00
ACGTcount: A:0.35, C:0.12, G:0.12, T:0.41
Consensus pattern (18 bp):
AAATGATGTTCACATTTT
Found at i:85519207 original size:72 final size:72
Alignment explanation
Indices: 85519112--85519349 Score: 329
Period size: 72 Copynumber: 3.3 Consensus size: 72
85519102 AAATGCTAAA
** *
85519112 CTAGTTTTGTCAATAGTTATTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
1 CTAGTTTTACCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
85519177 GTGTAAT
66 GTGTAAT
* * * *
85519184 CTAGTTTTACCCATGGTTGTTTATGTTTGGTTTTTAGATATTGAATTTGTGTTCTACTTATTTAT
1 CTAGTTTTACCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
85519249 GTGTAAT
66 GTGTAAT
** *
85519256 CTAGTTTTATTAATAGTTGTTTATGTTTGGTATTTGGATATTG-ATTTATGTTCTACTTATTTAT
1 CTAGTTTTACCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
* *
85519320 ACT-AAAT
66 -GTGTAAT
*
85519327 -TAGTTTTATCAATAGTTGTTTAT
1 CTAGTTTTACCAATAGTTGTTTAT
85519350 ATATGATTTT
Statistics
Matches: 148, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
70 22 0.15
71 23 0.16
72 103 0.70
ACGTcount: A:0.23, C:0.06, G:0.16, T:0.55
Consensus pattern (72 bp):
CTAGTTTTACCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTAT
GTGTAAT
Found at i:85521409 original size:14 final size:13
Alignment explanation
Indices: 85521380--85521425 Score: 58
Period size: 13 Copynumber: 3.5 Consensus size: 13
85521370 CTTAAATTTC
85521380 TCAAAAGCACTTT
1 TCAAAAGCACTTT
*
85521393 TCAAAAGCATTTTT
1 TCAAAAGCA-CTTT
*
85521407 TC-ACAGCACTTT
1 TCAAAAGCACTTT
85521419 TCAAAAG
1 TCAAAAG
85521426 TATTGCCAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
12 5 0.19
13 17 0.63
14 5 0.19
ACGTcount: A:0.37, C:0.22, G:0.09, T:0.33
Consensus pattern (13 bp):
TCAAAAGCACTTT
Found at i:85525506 original size:35 final size:35
Alignment explanation
Indices: 85525460--85525531 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
85525450 AATAACATAA
85525460 CATACACTTAAAACCATATAGCGATCATAAATATT
1 CATACACTTAAAACCATATAGCGATCATAAATATT
*
85525495 CATACATTTAAAACCATATAGCGATCATAAATATT
1 CATACACTTAAAACCATATAGCGATCATAAATATT
85525530 CA
1 CA
85525532 ATCATTCATT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.29
Consensus pattern (35 bp):
CATACACTTAAAACCATATAGCGATCATAAATATT
Found at i:85525799 original size:18 final size:18
Alignment explanation
Indices: 85525748--85525800 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
85525738 AGCTTTATAT
*
85525748 CAGTCAATTATTCAATAA
1 CAGTCAATTATTCAGTAA
*
85525766 CAGTCAGTCT-TTCAGTAA
1 CAGTCAAT-TATTCAGTAA
*
85525784 CAGTCAATTATCCAGTA
1 CAGTCAATTATTCAGTA
85525801 CCTTTACTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
17 1 0.03
18 27 0.93
19 1 0.03
ACGTcount: A:0.36, C:0.21, G:0.11, T:0.32
Consensus pattern (18 bp):
CAGTCAATTATTCAGTAA
Found at i:85526025 original size:53 final size:53
Alignment explanation
Indices: 85525945--85526051 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
85525935 CACAATTCTT
*
85525945 ATCTCATTGAAGTTTCAGTGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
1 ATCTCATTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
*
85525998 ATCTCCTTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
1 ATCTCATTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
85526051 A
1 A
85526052 AATGGTATTG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.33
Consensus pattern (53 bp):
ATCTCATTGAAGTTTCAGCGGAGTAGATCGAGGCTACAAATCTCTTCTCCTTG
Found at i:85526244 original size:18 final size:18
Alignment explanation
Indices: 85526210--85526248 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
85526200 AATAGGGTTA
85526210 TCAGTTCACTTTCTTAAT
1 TCAGTTCACTTTCTTAAT
85526228 TCAGTATCACTTT-TTAAT
1 TCAGT-TCACTTTCTTAAT
85526246 TCA
1 TCA
85526249 TTTACGAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 13 0.65
19 7 0.35
ACGTcount: A:0.26, C:0.21, G:0.05, T:0.49
Consensus pattern (18 bp):
TCAGTTCACTTTCTTAAT
Found at i:85526593 original size:16 final size:16
Alignment explanation
Indices: 85526572--85526610 Score: 69
Period size: 16 Copynumber: 2.4 Consensus size: 16
85526562 CCCTTTCTTG
*
85526572 TTTCTTTTCTCCTTTC
1 TTTCTTTTCTACTTTC
85526588 TTTCTTTTCTACTTTC
1 TTTCTTTTCTACTTTC
85526604 TTTCTTT
1 TTTCTTT
85526611 CCTTCCCTTG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.03, C:0.26, G:0.00, T:0.72
Consensus pattern (16 bp):
TTTCTTTTCTACTTTC
Found at i:85526686 original size:2 final size:2
Alignment explanation
Indices: 85526681--85526705 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
85526671 TTATTTGTTC
85526681 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
85526706 CTTAAATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:85529919 original size:40 final size:40
Alignment explanation
Indices: 85529845--85529922 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 40
85529835 TGCGGTACCT
* * *
85529845 TATGGTGTGTAGGGTTGGATGGGTCGATTATATCCCCATA
1 TATGGTGTGCAGGGATGGATGAGTCGATTATATCCCCATA
* * *
85529885 TATGGTGTGCAGGGATGGGTGAGTCGGTTTTATCCCCA
1 TATGGTGTGCAGGGATGGATGAGTCGATTATATCCCCA
85529923 CATGGTGTGA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.18, C:0.14, G:0.35, T:0.33
Consensus pattern (40 bp):
TATGGTGTGCAGGGATGGATGAGTCGATTATATCCCCATA
Found at i:85533364 original size:23 final size:23
Alignment explanation
Indices: 85533337--85533386 Score: 57
Period size: 23 Copynumber: 2.2 Consensus size: 23
85533327 TCCAACCCTG
*
85533337 CAAATTTCAA-ATCACAACCAATA
1 CAAATATCAATATCA-AACCAATA
* *
85533360 CAAATATCAATATTAAACCAATC
1 CAAATATCAATATCAAACCAATA
85533383 CAAA
1 CAAA
85533387 CACATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
23 20 0.87
24 3 0.13
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.22
Consensus pattern (23 bp):
CAAATATCAATATCAAACCAATA
Found at i:85534691 original size:20 final size:18
Alignment explanation
Indices: 85534655--85534692 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
85534645 AAACCCTCAA
85534655 TTTTCCCTTTCTTCTTTC
1 TTTTCCCTTTCTTCTTTC
85534673 TTTTCTCCTTTCTTTCTTTC
1 TTTTC-CCTTTC-TTCTTTC
85534693 CTTCCCCTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 5 0.28
19 6 0.33
20 7 0.39
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (18 bp):
TTTTCCCTTTCTTCTTTC
Found at i:85536473 original size:25 final size:25
Alignment explanation
Indices: 85536440--85536507 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 25
85536430 CTCATACAAG
*
85536440 CATATTAACGGGAAGCTCTTTCGAGC
1 CATA-TAACGGGAAGCTCTTCCGAGC
* *
85536466 CATATAACGGGAAACTCTTCCGAGT
1 CATATAACGGGAAGCTCTTCCGAGC
** *
85536491 TGTATATCGGGAAGCTC
1 CATATAACGGGAAGCTC
85536508 AAGAGAGTCA
Statistics
Matches: 35, Mismatches: 7, Indels: 1
0.81 0.16 0.02
Matches are distributed among these distances:
25 31 0.89
26 4 0.11
ACGTcount: A:0.28, C:0.22, G:0.24, T:0.26
Consensus pattern (25 bp):
CATATAACGGGAAGCTCTTCCGAGC
Found at i:85536554 original size:25 final size:26
Alignment explanation
Indices: 85536494--85536565 Score: 87
Period size: 25 Copynumber: 2.8 Consensus size: 26
85536484 TCCGAGTTGT
* *
85536494 ATATCGGGAAGCTCAAGAGAGTCACTA
1 ATATCGGGAAGCTCATGAGAG-CACAA
*
85536521 AT-T-GAGAAGCTCATGAGAGC-CAA
1 ATATCGGGAAGCTCATGAGAGCACAA
85536544 ATATCGGGAAGCTCATGAGAGC
1 ATATCGGGAAGCTCATGAGAGC
85536566 TATGGTGTGT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
23 4 0.10
24 2 0.05
25 30 0.77
26 1 0.03
27 2 0.05
ACGTcount: A:0.36, C:0.18, G:0.28, T:0.18
Consensus pattern (26 bp):
ATATCGGGAAGCTCATGAGAGCACAA
Found at i:85544262 original size:30 final size:30
Alignment explanation
Indices: 85544228--85544287 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
85544218 TTCCCGAGCC
85544228 TAGGGG-AAAAATTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAA-TGTAATTATGCAAAAGTT
* *
85544258 TAGGGGCAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
85544288 CGTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.40, C:0.07, G:0.23, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:85545388 original size:383 final size:383
Alignment explanation
Indices: 85544681--85545451 Score: 1542
Period size: 383 Copynumber: 2.0 Consensus size: 383
85544671 TACAAGTGAC
85544681 ATGTCACTAGGATACTTGAGTTCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 ATGTCACTAGGATACTTGAGTTCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
85544746 CGCCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGGCGGGTTACATGGTAGCTTGGCTACA
66 CGCCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGGCGGGTTACATGGTAGCTTGGCTACA
85544811 TAAGTTTCGCAAGCTATTGAGTTTGTCTAGCTACGGGTATGGCACTTACATTCATGAAATCCGCG
131 TAAGTTTCGCAAGCTATTGAGTTTGTCTAGCTACGGGTATGGCACTTACATTCATGAAATCCGCG
85544876 TATTCGAATTATATTCCGATATGTTCAACGGGTGAATCTTAAGTGAATGAGAAGAATGCCTAAAA
196 TATTCGAATTATATTCCGATATGTTCAACGGGTGAATCTTAAGTGAATGAGAAGAATGCCTAAAA
85544941 TGAAGGTGACATATTGGTAAGAGTGGTGACTAAGAAAATTTGGCAGGTATGTGCTTAAATCCTCG
261 TGAAGGTGACATATTGGTAAGAGTGGTGACTAAGAAAATTTGGCAGGTATGTGCTTAAATCCTCG
85545006 GGTTGAGAACTTGGTATGATGAAATCGTAGAAAGATATTAAATGCAAATGAAACATGA
326 GGTTGAGAACTTGGTATGATGAAATCGTAGAAAGATATTAAATGCAAATGAAACATGA
85545064 ATGTCACTAGGATACTTGAGTTCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
1 ATGTCACTAGGATACTTGAGTTCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
85545129 CGCCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGGCGGGTTACATGGTAGCTTGGCTACA
66 CGCCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGGCGGGTTACATGGTAGCTTGGCTACA
85545194 TAAGTTTCGCAAGCTATTGAGTTTGTCTAGCTACGGGTATGGCACTTACATTCATGAAATCCGCG
131 TAAGTTTCGCAAGCTATTGAGTTTGTCTAGCTACGGGTATGGCACTTACATTCATGAAATCCGCG
85545259 TATTCGAATTATATTCCGATATGTTCAACGGGTGAATCTTAAGTGAATGAGAAGAATGCCTAAAA
196 TATTCGAATTATATTCCGATATGTTCAACGGGTGAATCTTAAGTGAATGAGAAGAATGCCTAAAA
85545324 TGAAGGTGACATATTGGTAAGAGTGGTGACTAAGAAAATTTGGCAGGTATGTGCTTAAATCCTCG
261 TGAAGGTGACATATTGGTAAGAGTGGTGACTAAGAAAATTTGGCAGGTATGTGCTTAAATCCTCG
85545389 GGTTGAGAACTTGGTATGATGAAATCGTAGAAAGATATTAAATGCAAATGAAACATGA
326 GGTTGAGAACTTGGTATGATGAAATCGTAGAAAGATATTAAATGCAAATGAAACATGA
85545447 ATGTC
1 ATGTC
85545452 TTGGTGTTGT
Statistics
Matches: 388, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
383 388 1.00
ACGTcount: A:0.29, C:0.15, G:0.26, T:0.30
Consensus pattern (383 bp):
ATGTCACTAGGATACTTGAGTTCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAA
CGCCCGAGCTCGTTGAGTTGAGTCCAAGTTCACTTATGGGCGGGTTACATGGTAGCTTGGCTACA
TAAGTTTCGCAAGCTATTGAGTTTGTCTAGCTACGGGTATGGCACTTACATTCATGAAATCCGCG
TATTCGAATTATATTCCGATATGTTCAACGGGTGAATCTTAAGTGAATGAGAAGAATGCCTAAAA
TGAAGGTGACATATTGGTAAGAGTGGTGACTAAGAAAATTTGGCAGGTATGTGCTTAAATCCTCG
GGTTGAGAACTTGGTATGATGAAATCGTAGAAAGATATTAAATGCAAATGAAACATGA
Found at i:85550288 original size:3 final size:3
Alignment explanation
Indices: 85550282--85550543 Score: 232
Period size: 3 Copynumber: 88.3 Consensus size: 3
85550272 TAAAAAAACT
* *
85550282 ATA ATA ATA ATA ATA ATA AT- ATA ATA AT- ATA ATA ATA ATA GTA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * * *
85550328 ATA GTA ATA AAA ATA ATA CTA ATA AAA ATA ATA CTA ATA GTA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * *
85550376 ATA ATA ATG ATA ATG ATA ATA ATA ATA ATA ATA ATA GTA ATA ATA ATG
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * ** *
85550424 ATA ATAA ATA TTA ACA ATA A-A A-A ATA ATA ATA ATA GGA ATA ATG
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
85550468 ATA ATAA ATA A-A ATA ATA ATA ATG ATA GTC GTA ATA ATG ATA ATA
1 ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
*
85550513 A-A TATA AGTA ATA GTA A-A ATA ATA ATA ATA A
1 ATA -ATA A-TA ATA ATA ATA ATA ATA ATA ATA A
85550544 ATAAACTAAT
Statistics
Matches: 207, Mismatches: 42, Indels: 20
0.77 0.16 0.07
Matches are distributed among these distances:
2 13 0.06
3 184 0.89
4 10 0.05
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:85550564 original size:30 final size:30
Alignment explanation
Indices: 85550265--85550564 Score: 140
Period size: 30 Copynumber: 10.2 Consensus size: 30
85550255 ATTTAAAGAG
85550265 TAATAAGTAA-AA-AAACTATAA-TAATAATAA
1 TAATAA-TAATAATAAA-TATAACTAATAAT-A
85550295 TAATAAT-ATAAT-AATATAA-TAATAATA
1 TAATAATAATAATAAATATAACTAATAATA
* * *
85550322 GTAGTAATAGTAATAAAAATAATACTAATAA-A
1 -TAATAATAATAATAAATAT-A-ACTAATAATA
*
85550354 -AATAATACTAATAGTAATAATAA-TAATAATGA
1 TAATAATAATAATA--AAT-ATAACTAATAAT-A
* *
85550386 TAATGATAATAAT-AATAATAA-TAATAGTAA
1 TAATAATAATAATAAAT-ATAACTAATAAT-A
*
85550416 TAATAATGATAATAAATATTAAC-AATAA-A
1 TAATAATAATAATAAATA-TAACTAATAATA
* * *
85550445 AAATAATAATAATAGGA-ATAA-TGATAATA
1 TAATAATAATAATA-AATATAACTAATAATA
* * *
85550474 -AATAA-AATAAT--A-ATAA-TGATAGTCG
1 TAATAATAATAATAAATATAACTAATAAT-A
* * *
85550499 TAATAATGATAATAAATATAAGTAATAGTA
1 TAATAATAATAATAAATATAACTAATAATA
* *
85550529 AAATAATAATAATAAATA-AACTAATTAATT
1 TAATAATAATAATAAATATAACTAA-TAATA
85550559 TAATAA
1 TAATAA
85550565 AATGACAAAA
Statistics
Matches: 214, Mismatches: 28, Indels: 56
0.72 0.09 0.19
Matches are distributed among these distances:
24 11 0.05
26 5 0.02
27 12 0.06
28 31 0.14
29 30 0.14
30 83 0.39
31 18 0.08
32 6 0.03
33 18 0.08
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (30 bp):
TAATAATAATAATAAATATAACTAATAATA
Found at i:85551424 original size:86 final size:86
Alignment explanation
Indices: 85551279--85551708 Score: 860
Period size: 86 Copynumber: 5.0 Consensus size: 86
85551269 TAACTTGGTT
85551279 TTTCTCCGAATCTATTTTGTAGATTTTTGTAGTTTGATATTTGAATCTCTTTTTTTTATTTAATT
1 TTTCTCCGAATCTATTTTGTAGATTTTTGTAGTTTGATATTTGAATCTCTTTTTTTTATTTAATT
85551344 TATTCGTTGAAGAAGAAGAAG
66 TATTCGTTGAAGAAGAAGAAG
85551365 TTTCTCCGAATCTATTTTGTAGATTTTTGTAGTTTGATATTTGAATCTCTTTTTTTTATTTAATT
1 TTTCTCCGAATCTATTTTGTAGATTTTTGTAGTTTGATATTTGAATCTCTTTTTTTTATTTAATT
85551430 TATTCGTTGAAGAAGAAGAAG
66 TATTCGTTGAAGAAGAAGAAG
85551451 TTTCTCCGAATCTATTTTGTAGATTTTTGTAGTTTGATATTTGAATCTCTTTTTTTTATTTAATT
1 TTTCTCCGAATCTATTTTGTAGATTTTTGTAGTTTGATATTTGAATCTCTTTTTTTTATTTAATT
85551516 TATTCGTTGAAGAAGAAGAAG
66 TATTCGTTGAAGAAGAAGAAG
85551537 TTTCTCCGAATCTATTTTGTAGATTTTTGTAGTTTGATATTTGAATCTCTTTTTTTTATTTAATT
1 TTTCTCCGAATCTATTTTGTAGATTTTTGTAGTTTGATATTTGAATCTCTTTTTTTTATTTAATT
85551602 TATTCGTTGAAGAAGAAGAAG
66 TATTCGTTGAAGAAGAAGAAG
85551623 TTTCTCCGAATCTATTTTGTAGATTTTTGTAGTTTGATATTTGAATCTCTTTTTTTTATTTAATT
1 TTTCTCCGAATCTATTTTGTAGATTTTTGTAGTTTGATATTTGAATCTCTTTTTTTTATTTAATT
85551688 TATTCGTTGAAGAAGAAGAAG
66 TATTCGTTGAAGAAGAAGAAG
85551709 ACCCATTACA
Statistics
Matches: 344, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
86 344 1.00
ACGTcount: A:0.26, C:0.08, G:0.15, T:0.51
Consensus pattern (86 bp):
TTTCTCCGAATCTATTTTGTAGATTTTTGTAGTTTGATATTTGAATCTCTTTTTTTTATTTAATT
TATTCGTTGAAGAAGAAGAAG
Found at i:85555003 original size:6 final size:6
Alignment explanation
Indices: 85554994--85555038 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
85554984 TGAAAATAGT
*
85554994 AATAAA AATAAA AAT-AA AAT-AA AATAAA TAA-AAA AATAAG AATAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA -AATAAA AATAAA AATAA
85555039 CAAGATAGGA
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
5 12 0.34
6 21 0.60
7 2 0.06
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (6 bp):
AATAAA
Found at i:85560498 original size:13 final size:13
Alignment explanation
Indices: 85560476--85560508 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
85560466 AAGGGTTTGT
85560476 TTAT-TAAACTAA
1 TTATCTAAACTAA
85560488 TTATCTAAACTAA
1 TTATCTAAACTAA
*
85560501 TTAACTAA
1 TTATCTAA
85560509 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:85562263 original size:45 final size:44
Alignment explanation
Indices: 85562210--85562954 Score: 265
Period size: 45 Copynumber: 16.6 Consensus size: 44
85562200 TTCAATCTGT
* *
85562210 TCCACTGCAACTTTAG-GAAAATAATATTCGCCATCTTCAGCCTGC
1 TCCACTGCAACTTCAGAG-AAATAAGATTCG-CATCTTCAGCCTGC
* *
85562255 TCCACTGCAACTTCAGAGAGATAAGACTT-G--TCTTCAACCTGC
1 TCCACTGCAACTTCAGAGAAATAAGA-TTCGCATCTTCAGCCTGC
* * *
85562297 TCGACTACAACTTCAGAGAAATAAGATTCGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGAGAAATAAGATTCGC-ATCTTCAGCCTGC
* *
85562342 TCCACTGCAACTTCA-AGGAGATAAGACTT---ATCTTCAACCTGC
1 TCCACTGCAACTTCAGA-GAAATAAGA-TTCGCATCTTCAGCCTGC
* * *
85562384 TCTACTGTAACTTCAAAGAAATAAGATTCGCTATCTTCAGCCTGC
1 TCCACTGCAACTTCAGAGAAATAAGATTCGC-ATCTTCAGCCTGC
* * * * * *
85562429 TCCACTGTAACTTCAGGGAGATAAGACTT--TAACTTCAACCTGC
1 TCCACTGCAACTTCAGAGAAATAAGA-TTCGCATCTTCAGCCTGC
* * * * * *
85562472 TCCACTGCAACTTCAGGGAGATAATG-TTTG--TTTTTA-TCTGC
1 TCCACTGCAACTTCAGAGAAATAA-GATTCGCATCTTCAGCCTGC
* * * * * *** *
85562513 TCTACGGCAATTTCAGAGAGATAAGA-TCTGTAATTATAGCTTCAATTTGT
1 TCCACTGCAACTTCAGAGAAATAAGATTC-G----CAT--CTTCAGCCTGC
* * ** *
85562563 TCCACTGCAACTTTAGGGAAATAAGATTTACTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGAGAAATAAGATTCGC-ATCTTCAGCCTGC
* * * * * * *
85562608 TCTACTGTAACTTCA-AGGAGATAAGATTAGTGA-CTTCAACCTAC
1 TCCACTGCAACTTCAGA-GAAATAAGATTCG-CATCTTCAGCCTGC
* * * * * * *
85562652 TCCACTGCAACTTCAGGGAGATAAGGTTTG--TTTTGA-TCTGC
1 TCCACTGCAACTTCAGAGAAATAAGATTCGCATCTTCAGCCTGC
* * * ** *
85562693 TCTACTGCAACTTCAGAGAGATAAGA-TCTGTAATTATAACTTCAATCTGT
1 TCCACTGCAACTTCAGAGAAATAAGATTC-G----CAT--CTTCAGCCTGC
* * *
85562743 TCCACTGCAACTTCAGAGAAATAAGATTTGCTATCTTTAGTCTGC
1 TCCACTGCAACTTCAGAGAAATAAGATTCGC-ATCTTCAGCCTGC
* * * ** *
85562788 TCCACTGCAACTTTAGGGAGATAAGACTT-GTGTCTTCAACCTGC
1 TCCACTGCAACTTCAGAGAAATAAGA-TTCGCATCTTCAGCCTGC
* * * ** ** *
85562832 TCTACTGCAACTTCAAAGAGATAAGATCTATTTATTCATAGCTTCAATCTGT
1 TCCACTGCAACTTCAGAGAAATAAG----A-TT-CGCAT--CTTCAGCCTGC
* * * *
85562884 TCCACTGCAACTTCAGAGAAATAAGATTTGCTATCTTTAGTCTAC
1 TCCACTGCAACTTCAGAGAAATAAGATTCGC-ATCTTCAGCCTGC
* * *
85562929 TCCACTACAACTTCAGGGAGATAAGA
1 TCCACTGCAACTTCAGAGAAATAAGA
85562955 CTTGTAACTT
Statistics
Matches: 530, Mismatches: 114, Indels: 112
0.70 0.15 0.15
Matches are distributed among these distances:
40 3 0.01
41 56 0.11
42 75 0.14
43 35 0.07
44 64 0.12
45 180 0.34
46 11 0.02
47 10 0.02
48 4 0.01
49 6 0.01
50 53 0.10
51 2 0.00
52 31 0.06
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCAGAGAAATAAGATTCGCATCTTCAGCCTGC
Found at i:85562345 original size:87 final size:88
Alignment explanation
Indices: 85562163--85562858 Score: 587
Period size: 87 Copynumber: 7.8 Consensus size: 88
85562153 GATCTACTCT
* * *
85562163 ACTGCAACTTCAGAGAGATAAGATCTGCAATTATAGCTTCAATCTGTTCCACTGCAACTTTAG-G
1 ACTGCAACTTCAGAGAGATAAGA----C--TTATA-CTTCAACCTGCTCCACTGCAACTTCAGAG
* * * *
85562227 AAAATAATATTCGCCATCTTCAGCCTGCTCC
59 -AAATAAGATTTGCTATCTTCAGTCTGCTCC
* * *
85562258 ACTGCAACTTCAGAGAGATAAGACTTGT-CTTCAACCTGCTCGACTACAACTTCAGAGAAATAAG
1 ACTGCAACTTCAGAGAGATAAGACTTATACTTCAACCTGCTCCACTGCAACTTCAGAGAAATAAG
*
85562322 ATTCGCTATCTTCAGTCTGCTCC
66 ATTTGCTATCTTCAGTCTGCTCC
* * *
85562345 ACTGCAACTTCA-AGGAGATAAGACTTAT-CTTCAACCTGCTCTACTGTAACTTCAAAGAAATAA
1 ACTGCAACTTCAGA-GAGATAAGACTTATACTTCAACCTGCTCCACTGCAACTTCAGAGAAATAA
* *
85562408 GATTCGCTATCTTCAGCCTGCTCC
65 GATTTGCTATCTTCAGTCTGCTCC
* * * *
85562432 ACTGTAACTTCAGGGAGATAAGACTT-TAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAA
1 ACTGCAACTTCAGAGAGATAAGACTTAT-ACTTCAACCTGCTCCACTGCAACTTCAGAGAAATAA
* *
85562496 TG-TTTG-T-T-TTTA-TCTGCTCT
65 -GATTTGCTATCTTCAGTCTGCTCC
* * ** * * *
85562516 ACGGCAATTTCAGAGAGATAAGATCTGTAATTATAGCTTCAATTTGTTCCACTGCAACTTTAGGG
1 ACTGCAACTTCAGAGAGATAAGA-C-----TTATA-CTTCAACCTGCTCCACTGCAACTTCAGAG
* *
85562581 AAATAAGATTTACTATCTTCAGTCTGCTCT
59 AAATAAGATTTGCTATCTTCAGTCTGCTCC
* * * *
85562611 ACTGTAACTTCA-AGGAGATAAGA-TTAGTGACTTCAACCTACTCCACTGCAACTTCAGGGAGAT
1 ACTGCAACTTCAGA-GAGATAAGACTTA-T-ACTTCAACCTGCTCCACTGCAACTTCAGAGAAAT
* * *
85562674 AAGGTTTG-T-T-TTGA-TCTGCTCT
63 AAGATTTGCTATCTTCAGTCTGCTCC
* *
85562696 ACTGCAACTTCAGAGAGATAAGATCTGTAATTATAACTTCAATCTGTTCCACTGCAACTTCAGAG
1 ACTGCAACTTCAGAGAGATAAGA-C-----TTAT-ACTTCAACCTGCTCCACTGCAACTTCAGAG
*
85562761 AAATAAGATTTGCTATCTTTAGTCTGCTCC
59 AAATAAGATTTGCTATCTTCAGTCTGCTCC
* * * * * * *
85562791 ACTGCAACTTTAGGGAGATAAGACTTGTGTCTTCAACCTGCTCTACTGCAACTTCAAAGAGATAA
1 ACTGCAACTTCAGAGAGATAAGACTTAT-ACTTCAACCTGCTCCACTGCAACTTCAGAGAAATAA
85562856 GAT
65 GAT
85562859 CTATTTATTC
Statistics
Matches: 498, Mismatches: 69, Indels: 74
0.78 0.11 0.12
Matches are distributed among these distances:
84 25 0.05
85 32 0.06
86 7 0.01
87 153 0.31
88 38 0.08
89 74 0.15
90 5 0.01
91 72 0.14
92 5 0.01
93 2 0.00
94 8 0.02
95 77 0.15
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (88 bp):
ACTGCAACTTCAGAGAGATAAGACTTATACTTCAACCTGCTCCACTGCAACTTCAGAGAAATAAG
ATTTGCTATCTTCAGTCTGCTCC
Found at i:85562666 original size:44 final size:43
Alignment explanation
Indices: 85562251--85562858 Score: 273
Period size: 45 Copynumber: 13.7 Consensus size: 43
85562241 CATCTTCAGC
*
85562251 CTGCTCCACTGCAACTTC-AGAGAGATAAGACTTGT--CTTCAAC
1 CTGCTCCACTGCAACTTCAAG-GAGATAAGA-TTGTGACTTCAAT
* * * *
85562293 CTGCTCGACTACAACTTC-AGAGAAATAAGATTCGCT-ATCTTCAGT
1 CTGCTCCACTGCAACTTCAAG-GAGATAAGATT-G-TGA-CTTCAAT
* *
85562338 CTGCTCCACTGCAACTTCAAGGAGATAAGACT-T-ATCTTCAAC
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATTGTGA-CTTCAAT
* * * * **
85562380 CTGCTCTACTGTAACTTCAAAGAAATAAGATTCGCT-ATCTTCAGC
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATT-G-TGA-CTTCAAT
* * * *
85562425 CTGCTCCACTGTAACTTCAGGGAGATAAGACTT-TAACTTCAAC
1 CTGCTCCACTGCAACTTCAAGGAGATAAGA-TTGTGACTTCAAT
* * **
85562468 CTGCTCCACTGCAACTTCAGGGAGATAATG-TT-TG-TTTTTAT
1 CTGCTCCACTGCAACTTCAAGGAGATAA-GATTGTGACTTCAAT
* * * *
85562509 CTGCTCTACGGCAATTTC-AGAGAGATAAGATCTGTAATTATAGCTTCAAT
1 CTGCTCCACTGCAACTTCAAG-GAGATAAGAT-TG----T-GA-CTTCAAT
* * * * * * *
85562559 TTGTTCCACTGCAACTTTAGGGAAATAAGATT-TACTATCTTCAGT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATTGT--GA-CTTCAAT
* * *
85562604 CTGCTCTACTGTAACTTCAAGGAGATAAGATTAGTGACTTCAAC
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATT-GTGACTTCAAT
* * * * **
85562648 CTACTCCACTGCAACTTCAGGGAGATAAGGTT-TG-TTTTGAT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGATTGTGACTTCAAT
* *
85562689 CTGCTCTACTGCAACTTC-AGAGAGATAAGATCTGTAATTATAACTTCAAT
1 CTGCTCCACTGCAACTTCAAG-GAGATAAGAT-TG------TGACTTCAAT
* * * *
85562739 CTGTTCCACTGCAACTTC-AGAGAAATAAGATT-TGCTATCTTTAGT
1 CTGCTCCACTGCAACTTCAAG-GAGATAAGATTGTG--A-CTTCAAT
* * * *
85562784 CTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTGTCTTCAAC
1 CTGCTCCACTGCAACTTCAAGGAGATAAGA-TTGTGACTTCAAT
* *
85562828 CTGCTCTACTGCAACTTCAAAGAGATAAGAT
1 CTGCTCCACTGCAACTTCAAGGAGATAAGAT
85562859 CTATTTATTC
Statistics
Matches: 432, Mismatches: 92, Indels: 83
0.71 0.15 0.14
Matches are distributed among these distances:
40 3 0.01
41 56 0.13
42 71 0.16
43 36 0.08
44 66 0.15
45 128 0.30
46 7 0.02
47 4 0.01
49 3 0.01
50 57 0.13
51 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (43 bp):
CTGCTCCACTGCAACTTCAAGGAGATAAGATTGTGACTTCAAT
Found at i:85562684 original size:180 final size:180
Alignment explanation
Indices: 85562095--85562856 Score: 899
Period size: 180 Copynumber: 4.3 Consensus size: 180
85562085 TGCTTTAGGT
* * * * *
85562095 ATAAGACTTGTCG-CTTTAATCTGCTCCACTGTAACTTTAGGGAGATAAGGTTTGTTTTGATCTA
1 ATAAGACTTGT-GACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTG
* *
85562159 CTCTACTGCAACTTCAGAGAGATAAGATCTGCAATTATAGCTTCAATCTGTTCCACTGCAACTTT
65 CTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTATAGCTTCAATCTGTTCCACTGCAACTTC
* *
85562224 AG-GAAAATAATATTCGCCATCTTCAGCCTGCTCCACTGCAACTTC-AGAGAG
130 AGAG-AAATAAGATTCGCTATCTTCAGCCTGCTCCACTGCAACTTCAAG-GAG
* * * * * * *
85562275 ATAAGACTTGT--CTTCAACCTGCTCGACTACAACTTCAGAGAAATAAGATTCGCTATCTTCAGT
1 ATAAGACTTGTGACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTG-T-T-TTGA-T
* * * * *
85562338 CTGCTCCACTGCAACTTCA-AGGAGATAAGA-C-----TTAT--CTTCAACCTGCTCTACTGTAA
62 CTGCTCTACTGCAACTTCAGA-GAGATAAGATCTGTAATTATAGCTTCAATCTGTTCCACTGCAA
* * *
85562394 CTTCAAAGAAATAAGATTCGCTATCTTCAGCCTGCTCCACTGTAACTTCAGGGAG
126 CTTCAGAGAAATAAGATTCGCTATCTTCAGCCTGCTCCACTGCAACTTCAAGGAG
* * *
85562449 ATAAGACTT-TAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAATGTTTGTTTTTATCTGC
1 ATAAGACTTGTGACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGC
* * * *
85562513 TCTACGGCAATTTCAGAGAGATAAGATCTGTAATTATAGCTTCAATTTGTTCCACTGCAACTTTA
66 TCTACTGCAACTTCAGAGAGATAAGATCTGTAATTATAGCTTCAATCTGTTCCACTGCAACTTCA
* ** * * *
85562578 GGGAAATAAGATTTACTATCTTCAGTCTGCTCTACTGTAACTTCAAGGAG
131 GAGAAATAAGATTCGCTATCTTCAGCCTGCTCCACTGCAACTTCAAGGAG
*
85562628 ATAAGA-TTAGTGACTTCAACCTACTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTG
1 ATAAGACTT-GTGACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTG
*
85562692 CTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTATAACTTCAATCTGTTCCACTGCAACTTC
65 CTCTACTGCAACTTCAGAGAGATAAGATCTGTAATTATAGCTTCAATCTGTTCCACTGCAACTTC
* * * * *
85562757 AGAGAAATAAGATTTGCTATCTTTAGTCTGCTCCACTGCAACTTTAGGGAG
130 AGAGAAATAAGATTCGCTATCTTCAGCCTGCTCCACTGCAACTTCAAGGAG
* * **
85562808 ATAAGACTTGTGTCTTCAACCTGCTCTACTGCAACTTCAAAGAGATAAG
1 ATAAGACTTGTGACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAG
85562857 ATCTATTTAT
Statistics
Matches: 493, Mismatches: 68, Indels: 42
0.82 0.11 0.07
Matches are distributed among these distances:
171 26 0.05
172 5 0.01
173 2 0.00
174 72 0.15
175 36 0.07
176 4 0.01
177 4 0.01
178 33 0.07
179 70 0.14
180 207 0.42
181 7 0.01
182 27 0.05
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (180 bp):
ATAAGACTTGTGACTTCAACCTGCTCCACTGCAACTTCAGGGAGATAAGGTTTGTTTTGATCTGC
TCTACTGCAACTTCAGAGAGATAAGATCTGTAATTATAGCTTCAATCTGTTCCACTGCAACTTCA
GAGAAATAAGATTCGCTATCTTCAGCCTGCTCCACTGCAACTTCAAGGAG
Found at i:85562900 original size:141 final size:138
Alignment explanation
Indices: 85562108--85562959 Score: 509
Period size: 136 Copynumber: 6.3 Consensus size: 138
85562098 AGACTTGTCG
* * * * * ** * *
85562108 CTTTAATCTGCTCCACTGTAACTTTAGGGAGATAAG-GTT-TGTTTTGATCTACTCTACTGCAAC
1 CTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTTCAACCTGCTCTACTGCAAC
* * * * *
85562171 TTCAGAGAGATAAGATCTGCAATTATAGCTTCAATCTGTTCCACTGCAACTTTAG-GAAAATAAT
66 TTCAAAGAGATAAGATCTGTAATTATAACTTCAATCTGTTCCACTGCAACTTCAGAG-AAATAAG
* *
85562235 ATTCGCCAT
130 ATTTGCTAT
* * * * * * *
85562244 CTTCAGCCTGCTCCACTGCAACTTCAGAGAGATAAGACTTGT-CTTCAACCTGCTCGACTACAAC
1 CTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTTCAACCTGCTCTACTGCAAC
* * * * * *
85562308 TTCAGAGAAATAAGAT-TCG---CTAT--CTTCAGTCTGCTCCACTGCAACTTCA-AGGAGATAA
66 TTCAAAGAGATAAGATCT-GTAATTATAACTTCAATCTGTTCCACTGCAACTTCAGA-GAAATAA
*
85562366 GA-CT--TAT
129 GATTTGCTAT
* ** * * * ** * * * * *
85562373 CTTCAACCTGCTCTACTGTAACTTCAAAGAAATAAGA-TTCGCTATCTTCAGCCTGCTCCACTGT
1 CTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTT-G-TGT-TTCAACCTGCTCTACTGC
** * * * *
85562437 AACTTCAGGGAGATAAGA-C-----TT-TAACTTCAACCTGCTCCACTGCAACTTCAGGGAGATA
63 AACTTCAAAGAGATAAGATCTGTAATTATAACTTCAATCTGTTCCACTGCAACTTCAGAGAAATA
85562495 ATG-TTTG-T-T
128 A-GATTTGCTAT
* * * * * * * ** * *
85562504 -TTTA-TCTGCTCTACGGCAATTTCAGAGAGATAAGATCTGTAATTATAGCTTCAATTTGTTCCA
1 CTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGA-C-----TTGT-GTTTCAACCTGCTCTA
* ** * * * * * *
85562567 CTGCAACTTTAGGGAAATAAGAT-T-T-ACTAT--CTTCAGTCTGCTCTACTGTAACTTCA-AGG
59 CTGCAACTTCAAAGAGATAAGATCTGTAATTATAACTTCAATCTGTTCCACTGCAACTTCAGA-G
* *
85562626 AGATAAGATTAG-TGA-
123 AAATAAGATTTGCT-AT
* ** * ** *
85562641 CTTCAACCTACTCCACTGCAACTTCAGGGAGATAAG-GTT-TGTTTTGATCTGCTCTACTGCAAC
1 CTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTTCAACCTGCTCTACTGCAAC
*
85562704 TTCAGAGAGATAAGATCTGTAATTATAACTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAGA
66 TTCAAAGAGATAAGATCTGTAATTATAACTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAGA
85562769 TTTGCTAT
131 TTTGCTAT
* *
85562777 CTTTAGTCTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTGTCTTCAACCTGCTCTACTGCAA
1 CTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTGT-TTCAACCTGCTCTACTGCAA
* * *
85562842 CTTCAAAGAGATAAGATCTATTTATTCATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATA
65 CTTCAAAGAGATAAGATCT-GTAATT-ATAACTTCAATCTGTTCCACTGCAACTTCAGAGAAATA
85562907 AGATTTGCTAT
128 AGATTTGCTAT
*
85562918 CTTTAGTCTACTCCACTACAACTTCAGGGAGATAAGACTTGT
1 CTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGT
85562960 AACTTCTACA
Statistics
Matches: 563, Mismatches: 105, Indels: 91
0.74 0.14 0.12
Matches are distributed among these distances:
128 3 0.01
129 61 0.11
130 65 0.12
131 5 0.01
132 63 0.11
133 5 0.01
134 33 0.06
135 35 0.06
136 99 0.18
137 36 0.06
138 8 0.01
139 59 0.10
140 4 0.01
141 87 0.15
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.32
Consensus pattern (138 bp):
CTTTAGTCTACTCCACTGCAACTTCAGGGAGATAAGACTTGTGTTTCAACCTGCTCTACTGCAAC
TTCAAAGAGATAAGATCTGTAATTATAACTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAGA
TTTGCTAT
Found at i:85562974 original size:141 final size:136
Alignment explanation
Indices: 85562648--85562997 Score: 461
Period size: 141 Copynumber: 2.5 Consensus size: 136
85562638 TGACTTCAAC
** *
85562648 CTACTCCACTGCAACTTCAGGGAGATAAGGTTTGT-TT-TGATCTGCTCTACTGCAACTTCAGAG
1 CTACTCCACTGCAACTTCAGGGAGATAAGACTTGTCTTCT-A-CTGCTCTACTGCAACTTCAAAG
85562711 AGATAAGATCTGTAATTATAACTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTTGCTA
64 AGATAAGATCTGTAATTATAACTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTTGCTA
85562776 TCTTTAGT
129 TCTTTAGT
* * *
85562784 CTGCTCCACTGCAACTTTAGGGAGATAAGACTTGTGTCTTCAACCTGCTCTACTGCAACTTCAAA
1 CTACTCCACTGCAACTTCAGGGAGATAAGAC-T-TGTCTTCTA-CTGCTCTACTGCAACTTCAAA
* * *
85562849 GAGATAAGATCTATTTATTCATAGCTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTTG
63 GAGATAAGATCT-GTAATT-ATAACTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTTG
85562914 CTATCTTTAGT
126 CTATCTTTAGT
* * * * * *
85562925 CTACTCCACTACAACTTCAGGGAGATAAGACTTGTAACTTCTACATGCTCCACTACTACTTTAAC
1 CTACTCCACTGCAACTTCAGGGAGATAAGACTTGT--CTTCTAC-TGCTCTACTGCAACTTCAAA
85562990 GAGATAAG
63 GAGATAAG
85562998 GTTTGTGATT
Statistics
Matches: 186, Mismatches: 19, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
136 27 0.15
137 1 0.01
138 3 0.02
139 38 0.20
140 6 0.03
141 111 0.60
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (136 bp):
CTACTCCACTGCAACTTCAGGGAGATAAGACTTGTCTTCTACTGCTCTACTGCAACTTCAAAGAG
ATAAGATCTGTAATTATAACTTCAATCTGTTCCACTGCAACTTCAGAGAAATAAGATTTGCTATC
TTTAGT
Found at i:85563125 original size:88 final size:88
Alignment explanation
Indices: 85563018--85563529 Score: 738
Period size: 88 Copynumber: 5.8 Consensus size: 88
85563008 TCTGGCTTTA
* * * *
85563018 AGCCGCTCCAATGCCATTTCAGAGAGAAGATATTTGTAGCCTTGATCTACTCCGCTGAAACTTTA
1 AGCCGCTCCAATGCCATTTCAGAGAGAAGAGATTTATAGCCTCGATCTACTCCGCTGAAACTTCA
*
85563083 AGGAGATACGAATTATGGCTTCG
66 AGGAGATACGAATTGTGGCTTCG
* ** * *
85563106 AGTCGCTCCAATGTTATTTCAGAGAGAAGAGATTTATAGCTTTGATCTACTCCGCTGAAACTTCA
1 AGCCGCTCCAATGCCATTTCAGAGAGAAGAGATTTATAGCCTCGATCTACTCCGCTGAAACTTCA
*
85563171 AGGAGATACAAATTGTGGCTTCG
66 AGGAGATACGAATTGTGGCTTCG
* * *
85563194 AGCCGCTCCAATGCCATTTCAGGGAAAAGAGATTTATAGCCTCGATCTACTCCGCTAAAACTTCA
1 AGCCGCTCCAATGCCATTTCAGAGAGAAGAGATTTATAGCCTCGATCTACTCCGCTGAAACTTCA
85563259 AGGAGATACGAATTGTGGCTTCG
66 AGGAGATACGAATTGTGGCTTCG
* * * * * * ** * *
85563282 AGCTGCTCCAATGCCATTTTAGGGAGAAGAGATTTATATCATCGATTTACTTAGTTGAAACTTTA
1 AGCCGCTCCAATGCCATTTCAGAGAGAAGAGATTTATAGCCTCGATCTACTCCGCTGAAACTTCA
*
85563347 AGGATATACGAATTGTGGCTTCG
66 AGGAGATACGAATTGTGGCTTCG
* *
85563370 AGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTATAGCCTCGATCTACTCCGCTAAAACTTCA
1 AGCCGCTCCAATGCCATTTCAGAGAGAAGAGATTTATAGCCTCGATCTACTCCGCTGAAACTTCA
85563435 AGGAGATACGAATTGTGGCTTCG
66 AGGAGATACGAATTGTGGCTTCG
* * *
85563458 AGCCACTCCAATACCATTTCA-AGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTC
1 AGCCGCTCCAATGCCATTTCAGA-GAGAAGAGATTTATAGCCTCGATCTACTCCGCTGAAACTTC
85563522 AAGGAGAT
65 AAGGAGAT
85563530 CAAGGAGAAG
Statistics
Matches: 377, Mismatches: 46, Indels: 2
0.89 0.11 0.00
Matches are distributed among these distances:
88 377 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.28
Consensus pattern (88 bp):
AGCCGCTCCAATGCCATTTCAGAGAGAAGAGATTTATAGCCTCGATCTACTCCGCTGAAACTTCA
AGGAGATACGAATTGTGGCTTCG
Found at i:85563479 original size:44 final size:44
Alignment explanation
Indices: 85563346--85563484 Score: 120
Period size: 44 Copynumber: 3.2 Consensus size: 44
85563336 TTGAAACTTT
* * *
85563346 AAGGATATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTC
1 AAGGAGATACGAATTGTGGCTTCGAGCCACTCCAATACCATTTC
* * * * * * ** ** *
85563390 AGGGAGA-A-GAGATTTATAGCCTCGATCTACTCCGCTAAAACTTC
1 AAGGAGATACGA-A-TTGTGGCTTCGAGCCACTCCAATACCATTTC
85563434 AAGGAGATACGAATTGTGGCTTCGAGCCACTCCAATACCATTTC
1 AAGGAGATACGAATTGTGGCTTCGAGCCACTCCAATACCATTTC
85563478 AAGGAGA
1 AAGGAGA
85563485 AGAGATTTGT
Statistics
Matches: 66, Mismatches: 25, Indels: 8
0.67 0.25 0.08
Matches are distributed among these distances:
42 2 0.03
43 2 0.03
44 58 0.88
45 2 0.03
46 2 0.03
ACGTcount: A:0.30, C:0.23, G:0.22, T:0.24
Consensus pattern (44 bp):
AAGGAGATACGAATTGTGGCTTCGAGCCACTCCAATACCATTTC
Found at i:85563556 original size:53 final size:53
Alignment explanation
Indices: 85563476--85563582 Score: 196
Period size: 53 Copynumber: 2.0 Consensus size: 53
85563466 CAATACCATT
*
85563476 TCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGA
1 TCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAAGGAGA
*
85563529 TCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAATGAGA
1 TCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAAGGAGA
85563582 T
1 T
85563583 AAGAATTGTG
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 52 1.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (53 bp):
TCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAAGGAGA
Found at i:85563646 original size:141 final size:141
Alignment explanation
Indices: 85563392--85563670 Score: 468
Period size: 141 Copynumber: 2.0 Consensus size: 141
85563382 GCCATTTCAG
* *
85563392 GGAGAAGAGATTTATAGCCTCGATCTACTCCGCTAAAACTTCAAGGAGATACGAATTGTGGCTTC
1 GGAGAAGAGATTTATAGCCTCGATCTACTCCACTAAAACTTCAAGGAGATAAGAATTGTGGCTTC
85563457 GAGCCACTCCAATACCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTC
66 GAGCCACTCCAATACCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTC
85563522 AAGGAGATCAA
131 AAGGAGATCAA
* * *
85563533 GGAGAAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAATGAGATAAGAATTGTGGCTTC
1 GGAGAAGAGATTTATAGCCTCGATCTACTCCACTAAAACTTCAAGGAGATAAGAATTGTGGCTTC
** * * *
85563598 GAGCTGCTCCAATACCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCTGCTGAAACTTT
66 GAGCCACTCCAATACCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTC
85563663 AAGGAGAT
131 AAGGAGAT
85563671 ACGAATTGTG
Statistics
Matches: 128, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
141 128 1.00
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (141 bp):
GGAGAAGAGATTTATAGCCTCGATCTACTCCACTAAAACTTCAAGGAGATAAGAATTGTGGCTTC
GAGCCACTCCAATACCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTC
AAGGAGATCAA
Found at i:85563682 original size:88 final size:88
Alignment explanation
Indices: 85563533--85564124 Score: 848
Period size: 88 Copynumber: 6.7 Consensus size: 88
85563523 AGGAGATCAA
* * *
85563533 GGAGAAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAATGAGATAAGAATTGTGGCTTC
1 GGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGATACGAATTGTGGCTTC
*
85563598 GAGCTGCTCCAATACCATTTCAG
66 GAGCTGCTCCAATGCCATTTCAG
* *
85563621 GGAGAAGAGATTTGTAGCCTCGATCTACTCTGCTGAAACTTTAAGGAGATACGAATTGTGGCTTC
1 GGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGATACGAATTGTGGCTTC
85563686 GAG-TCGCTCCAATGCCATTTCAG
66 GAGCT-GCTCCAATGCCATTTCAG
* * * * *
85563709 GGA-ACAGAGATTTATAGCTTCGATCTACTCCGCTGAAACTTCAAAGAGATATGAATTGTGACTT
1 GGAGA-AGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGATACGAATTGTGGCTT
* * *
85563773 CGAGCCGCTCCAATACCATTTTAG
65 CGAGCTGCTCCAATGCCATTTCAG
* * * * **
85563797 GGAGAAGGGATTTGTAGCATCGATCTACTCTGCTGAAATTTCAAGGAGATATAAATTGTGGCTTC
1 GGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGATACGAATTGTGGCTTC
*
85563862 GAG-TCGCTCCAATGCTATTTCAG
66 GAGCT-GCTCCAATGCCATTTCAG
* * * *
85563885 GGAAAAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAAGGAGATATGAATTCTGGCTTC
1 GGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGATACGAATTGTGGCTTC
*
85563950 GAGCCGCTCCAATGCCATTTCAG
66 GAGCTGCTCCAATGCCATTTCAG
* * * * *
85563973 GGAGAAGAGATTTATAGCCTCGATCTACTCCGCTAAAATTTTAAGAAGATACGAATTGTGGCTTC
1 GGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGATACGAATTGTGGCTTC
85564038 GAGCTGCTCCAATGCCATTTCAG
66 GAGCTGCTCCAATGCCATTTCAG
*
85564061 GGAGAAGAGATTTGTAGTCTCGATCTACTCCGCTGAAACTTCAAGGAGATACGAATTGTGGCTT
1 GGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGATACGAATTGTGGCTT
85564125 TGACCTACTC
Statistics
Matches: 444, Mismatches: 54, Indels: 12
0.87 0.11 0.02
Matches are distributed among these distances:
87 2 0.00
88 441 0.99
89 1 0.00
ACGTcount: A:0.29, C:0.20, G:0.23, T:0.28
Consensus pattern (88 bp):
GGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGATACGAATTGTGGCTTC
GAGCTGCTCCAATGCCATTTCAG
Found at i:85563706 original size:229 final size:229
Alignment explanation
Indices: 85563337--85563758 Score: 675
Period size: 229 Copynumber: 1.8 Consensus size: 229
85563327 TTTACTTAGT
* * * *
85563337 TGAAACTTTAAGGATATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGA
1 TGAAACTTCAAGGAGATAAGAATTGTGGCTTCGAGCCGCTCCAATACCATTTCAGGGAGAAGAGA
85563402 TTTATAGCCTCGATCTACTCCGCTAAAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCACTCC
66 TTTATAGCCTCGATCTACTCCGCTAAAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCACTCC
* *
85563467 AATACCATTTCAAGGAGA-AGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGATC
131 AATACCATTTCAAGGA-ACAGAGATTTATAGCCTCGATCTACTCCGCTGAAACTTCAAAGAGATC
85563531 AAGGAGAAGAGATTTGTAGCCTCGATCTACTCCAC
195 AAGGAGAAGAGATTTGTAGCCTCGATCTACTCCAC
* *
85563566 TGAAACTTCAATGAGATAAGAATTGTGGCTTCGAGCTGCTCCAATACCATTTCAGGGAGAAGAGA
1 TGAAACTTCAAGGAGATAAGAATTGTGGCTTCGAGCCGCTCCAATACCATTTCAGGGAGAAGAGA
* * * * * *
85563631 TTTGTAGCCTCGATCTACTCTGCTGAAACTTTAAGGAGATACGAATTGTGGCTTCGAGTCGCTCC
66 TTTATAGCCTCGATCTACTCCGCTAAAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCACTCC
* * *
85563696 AATGCCATTTCAGGGAACAGAGATTTATAGCTTCGATCTACTCCGCTGAAACTTCAAAGAGAT
131 AATACCATTTCAAGGAACAGAGATTTATAGCCTCGATCTACTCCGCTGAAACTTCAAAGAGAT
85563759 ATGAATTGTG
Statistics
Matches: 175, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
228 1 0.01
229 174 0.99
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.27
Consensus pattern (229 bp):
TGAAACTTCAAGGAGATAAGAATTGTGGCTTCGAGCCGCTCCAATACCATTTCAGGGAGAAGAGA
TTTATAGCCTCGATCTACTCCGCTAAAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCACTCC
AATACCATTTCAAGGAACAGAGATTTATAGCCTCGATCTACTCCGCTGAAACTTCAAAGAGATCA
AGGAGAAGAGATTTGTAGCCTCGATCTACTCCAC
Found at i:85563803 original size:317 final size:317
Alignment explanation
Indices: 85563220--85563846 Score: 988
Period size: 317 Copynumber: 2.0 Consensus size: 317
85563210 TTTCAGGGAA
* *
85563220 AAGAGATTTATAGCCTCGATCTACTCCGCTAAAACTTCAAGGAGATACGAATTGTGGCTTCGAGC
1 AAGAGATTTATAGCCTCGATCTACTCCACTAAAACTTCAAGGAGATAAGAATTGTGGCTTCGAGC
* * * * *
85563285 TGCTCCAATGCCATTTTAGGGAGAAGAGATTTATATCATCGATTTACTTAGTTGAAACTTTAAGG
66 TGCTCCAATACCATTTCAGGGAGAAGAGATTTATAGCATCGATCTACTTAGCTGAAACTTTAAGG
*
85563350 ATATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTATAGCCTCGA
131 AGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTATAGCCTCGA
* *
85563415 TCTACTCCGCTAAAACTTCAAGGAGATACGAATTGTGGCTTCGAGCCACTCCAATACCATTTCAA
196 TCTACTCCGCTAAAACTTCAAAGAGATACGAATTGTGACTTCGAGCCACTCCAATACCATTTCAA
*
85563480 GGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAACTTCAAGGAGATCAAGGAG
261 GGAGAAGAGATTTGTAGCATCGATCTACTCCGCTGAAACTTCAAGGAGATCAAGGAG
* * *
85563537 AAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAATGAGATAAGAATTGTGGCTTCGAGC
1 AAGAGATTTATAGCCTCGATCTACTCCACTAAAACTTCAAGGAGATAAGAATTGTGGCTTCGAGC
* *
85563602 TGCTCCAATACCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCT-GCTGAAACTTTAAG
66 TGCTCCAATACCATTTCAGGGAGAAGAGATTTATAGCATCGATCTACT-TAGCTGAAACTTTAAG
* *
85563666 GAGATACGAATTGTGGCTTCGAGTCGCTCCAATGCCATTTCAGGGA-ACAGAGATTTATAGCTTC
130 GAGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGA-AGAGATTTATAGCCTC
* * * *
85563730 GATCTACTCCGCTGAAACTTCAAAGAGATATGAATTGTGACTTCGAGCCGCTCCAATACCATTTT
194 GATCTACTCCGCTAAAACTTCAAAGAGATACGAATTGTGACTTCGAGCCACTCCAATACCATTTC
* * * *
85563795 AGGGAGAAGGGATTTGTAGCATCGATCTACTCTGCTGAAATTTCAAGGAGAT
259 AAGGAGAAGAGATTTGTAGCATCGATCTACTCCGCTGAAACTTCAAGGAGAT
85563847 ATAAATTGTG
Statistics
Matches: 282, Mismatches: 26, Indels: 4
0.90 0.08 0.01
Matches are distributed among these distances:
316 1 0.00
317 280 0.99
318 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (317 bp):
AAGAGATTTATAGCCTCGATCTACTCCACTAAAACTTCAAGGAGATAAGAATTGTGGCTTCGAGC
TGCTCCAATACCATTTCAGGGAGAAGAGATTTATAGCATCGATCTACTTAGCTGAAACTTTAAGG
AGATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTATAGCCTCGA
TCTACTCCGCTAAAACTTCAAAGAGATACGAATTGTGACTTCGAGCCACTCCAATACCATTTCAA
GGAGAAGAGATTTGTAGCATCGATCTACTCCGCTGAAACTTCAAGGAGATCAAGGAG
Found at i:85563895 original size:405 final size:405
Alignment explanation
Indices: 85563129--85563934 Score: 1195
Period size: 405 Copynumber: 2.0 Consensus size: 405
85563119 TTATTTCAGA
* * *
85563129 GAGAAGAGATTTATAGCTTTGATCTACTCCGCTGAAACTTCAAGGAGATACAAATTGTGGCTTCG
1 GAGAAGAGATTTATAGCCTCGATCTACTCCACTGAAACTTCAAGGAGATACAAATTGTGGCTTCG
*
85563194 AGCCGCTCCAATGCCATTTCAGGGAAAAGAGATTTATAGCCTCGATCTACTCCGCTAAAACTTCA
66 AGCCGCTCCAATACCATTTCAGGGAAAAGAGATTTATAGCCTCGATCTACTCCGCTAAAACTTCA
* *
85563259 AGGAGATACGAATTGTGGCTTCGAGCTGCTCCAATGCCATTTTAGGGAGAAGAGATTTATATCAT
131 AGGAGATACGAATTGTGGCTTCGAGCTGCTCCAATGCCATTTCAGGGAGAAGAGATTTATAGCAT
* * * * * * * *
85563324 CGATTTACTTAGTTGAAACTTTAAGGATATACGAATTGTGGCTTCGAGCCGCTCCAATGCCATTT
196 CGATCTACTCAGCTGAAACTTCAAAGAGATACGAATTGTGACTTCGAGCCGCTCCAATACCATTT
* *
85563389 CAGGGAGAAGAGATTTATAGCCTCGATCTACTCCGCTAAAACTTCAAGGAGATACGAATTGTGGC
261 CAGGGAGAAGAGATTTATAGCATCGATCTACTCCGCTAAAACTTCAAGGAGATACAAATTGTGGC
* *
85563454 TTCGAGCCACTCCAATACCATTTCAAGGAGAAGAGATTTGTAGCCTCGATCTACTCCGCTGAAAC
326 TTCGAGCCACTCCAATACCATTTCAAGGAAAAGAGATTTGTAGCCTCGATCTACTCCACTGAAAC
85563519 TTCAAGGAGATCAAG
391 TTCAAGGAGATCAAG
* *
85563534 GAGAAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAATGAGATA-AGAATTGTGGCTTC
1 GAGAAGAGATTTATAGCCTCGATCTACTCCACTGAAACTTCAAGGAGATACA-AATTGTGGCTTC
* * * * * *
85563598 GAGCTGCTCCAATACCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCTGCTGAAACTTT
65 GAGCCGCTCCAATACCATTTCAGGGAAAAGAGATTTATAGCCTCGATCTACTCCGCTAAAACTTC
85563663 AAGGAGATACGAATTGTGGCTTCGAG-TCGCTCCAATGCCATTTCAGGGA-ACAGAGATTTATAG
130 AAGGAGATACGAATTGTGGCTTCGAGCT-GCTCCAATGCCATTTCAGGGAGA-AGAGATTTATAG
* * *
85563726 CTTCGATCTACTCCGCTGAAACTTCAAAGAGATATGAATTGTGACTTCGAGCCGCTCCAATACCA
193 CATCGATCTACTCAGCTGAAACTTCAAAGAGATACGAATTGTGACTTCGAGCCGCTCCAATACCA
* * * * * * *
85563791 TTTTAGGGAGAAGGGATTTGTAGCATCGATCTACTCTGCTGAAATTTCAAGGAGATATAAATTGT
258 TTTCAGGGAGAAGAGATTTATAGCATCGATCTACTCCGCTAAAACTTCAAGGAGATACAAATTGT
* * * * *
85563856 GGCTTCGAGTCGCTCCAATGCTATTTCAGGGAAAAGAGATTTGTAGCCTCGATCTACTCCACTGA
323 GGCTTCGAGCCACTCCAATACCATTTCAAGGAAAAGAGATTTGTAGCCTCGATCTACTCCACTGA
85563921 AACTTCAAGGAGAT
388 AACTTCAAGGAGAT
85563935 ATGAATTCTG
Statistics
Matches: 357, Mismatches: 41, Indels: 6
0.88 0.10 0.01
Matches are distributed among these distances:
404 3 0.01
405 354 0.99
ACGTcount: A:0.30, C:0.21, G:0.22, T:0.28
Consensus pattern (405 bp):
GAGAAGAGATTTATAGCCTCGATCTACTCCACTGAAACTTCAAGGAGATACAAATTGTGGCTTCG
AGCCGCTCCAATACCATTTCAGGGAAAAGAGATTTATAGCCTCGATCTACTCCGCTAAAACTTCA
AGGAGATACGAATTGTGGCTTCGAGCTGCTCCAATGCCATTTCAGGGAGAAGAGATTTATAGCAT
CGATCTACTCAGCTGAAACTTCAAAGAGATACGAATTGTGACTTCGAGCCGCTCCAATACCATTT
CAGGGAGAAGAGATTTATAGCATCGATCTACTCCGCTAAAACTTCAAGGAGATACAAATTGTGGC
TTCGAGCCACTCCAATACCATTTCAAGGAAAAGAGATTTGTAGCCTCGATCTACTCCACTGAAAC
TTCAAGGAGATCAAG
Found at i:85563970 original size:493 final size:493
Alignment explanation
Indices: 85563041--85564006 Score: 1470
Period size: 493 Copynumber: 2.0 Consensus size: 493
85563031 CCATTTCAGA
* * * * *
85563041 GAGAAGATATTTGTAGCCTTGATCTACTCCGCTGAAACTTTAAGGAGATACGAATTATGGCTTCG
1 GAGAAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAAGGAGATAAGAATTATGGCTTCG
*** * *
85563106 AGTCGCTCCAATGTTATTTCAGAGAGAAGAGATTTATAGCTTTGATCTACTCCGCTGAAACTTCA
66 AGTCGCTCCAATACCATTTCAGAGAGAAGAGATTTATAGCCTCGATCTACTCCGCTGAAACTTCA
85563171 AGGAGATACAAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAAAAGAGATTTATAGCCT
131 AGGAGATACAAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAAAAGAGATTTATAGCCT
* * * *
85563236 CGATCTACTCCGCTAAAACTTCAAGGAGATACGAATTGTGGCTTCGAGCTGCTCCAATGCCATTT
196 CGATCTACTCCGCTAAAACTTCAAAGAGATACGAATTGTGACTTCGAGCCGCTCCAATACCATTT
* * * * *
85563301 TAGGGAGAAGAGATTTATATCATCGATTTACTTAGTTGAAACTTTAAGGATATACGAATTGTGGC
261 TAGGGAGAAGAGATTTATAGCATCGATCTACTTAGCTGAAACTTTAAGGAGATACAAATTGTGGC
* *
85563366 TTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTTATAGCCTCGATCTACTCCGCTAAAAC
326 TTCGAGCCGCTCCAATGCCATTTCAGGGAAAAGAGATTTATAGCCTCGATCTACTCCACTAAAAC
* *
85563431 TTCAAGGAGATACGAATTGTGGCTTCGAGCCACTCCAATACCATTTCAAGGAGAAGAGATTTGTA
391 TTCAAGGAGATACGAATTCTGGCTTCGAGCCACTCCAATACCATTTCAAGGAGAAGAGATTTATA
85563496 GCCTCGATCTACTCCGCTGAAACTTCAAGGAGATCAAG
456 GCCTCGATCTACTCCGCTGAAACTTCAAGGAGATCAAG
* *
85563534 GAGAAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAATGAGATAAGAATTGTGGCTTCG
1 GAGAAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAAGGAGATAAGAATTATGGCTTCG
* * * *
85563599 AG-CTGCTCCAATACCATTTCAGGGAGAAGAGATTTGTAGCCTCGATCTACTCTGCTGAAACTTT
66 AGTC-GCTCCAATACCATTTCAGAGAGAAGAGATTTATAGCCTCGATCTACTCCGCTGAAACTTC
* * * *
85563663 AAGGAGATACGAATTGTGGCTTCGAGTCGCTCCAATGCCATTTCAGGGAACAGAGATTTATAGCT
130 AAGGAGATACAAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAAAAGAGATTTATAGCC
* *
85563728 TCGATCTACTCCGCTGAAACTTCAAAGAGATATGAATTGTGACTTCGAGCCGCTCCAATACCATT
195 TCGATCTACTCCGCTAAAACTTCAAAGAGATACGAATTGTGACTTCGAGCCGCTCCAATACCATT
* * *
85563793 TTAGGGAGAAGGGATTTGTAGCATCGATCTACTCT-GCTGAAA-TTTCAAGGAGATATAAATTGT
260 TTAGGGAGAAGAGATTTATAGCATCGATCTACT-TAGCTGAAACTTT-AAGGAGATACAAATTGT
* * * *
85563856 GGCTTCGAGTCGCTCCAATGCTATTTCAGGGAAAAGAGATTTGTAGCCTCGATCTACTCCACTGA
323 GGCTTCGAGCCGCTCCAATGCCATTTCAGGGAAAAGAGATTTATAGCCTCGATCTACTCCACTAA
* * * *
85563921 AACTTCAAGGAGATATGAATTCTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAGAAGAGATTT
388 AACTTCAAGGAGATACGAATTCTGGCTTCGAGCCACTCCAATACCATTTCAAGGAGAAGAGATTT
85563986 ATAGCCTCGATCTACTCCGCT
453 ATAGCCTCGATCTACTCCGCT
85564007 AAAATTTTAA
Statistics
Matches: 424, Mismatches: 46, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
492 4 0.01
493 419 0.99
494 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.22, T:0.28
Consensus pattern (493 bp):
GAGAAGAGATTTGTAGCCTCGATCTACTCCACTGAAACTTCAAGGAGATAAGAATTATGGCTTCG
AGTCGCTCCAATACCATTTCAGAGAGAAGAGATTTATAGCCTCGATCTACTCCGCTGAAACTTCA
AGGAGATACAAATTGTGGCTTCGAGCCGCTCCAATGCCATTTCAGGGAAAAGAGATTTATAGCCT
CGATCTACTCCGCTAAAACTTCAAAGAGATACGAATTGTGACTTCGAGCCGCTCCAATACCATTT
TAGGGAGAAGAGATTTATAGCATCGATCTACTTAGCTGAAACTTTAAGGAGATACAAATTGTGGC
TTCGAGCCGCTCCAATGCCATTTCAGGGAAAAGAGATTTATAGCCTCGATCTACTCCACTAAAAC
TTCAAGGAGATACGAATTCTGGCTTCGAGCCACTCCAATACCATTTCAAGGAGAAGAGATTTATA
GCCTCGATCTACTCCGCTGAAACTTCAAGGAGATCAAG
Found at i:85564300 original size:44 final size:44
Alignment explanation
Indices: 85564246--85564387 Score: 133
Period size: 44 Copynumber: 3.2 Consensus size: 44
85564236 AGATAGGATG
*
85564246 ATCTGCTCCACTACTGCTTAGGGAGACAAGATTCGTTGTCTTCA
1 ATCTGCTCCACTAATGCTTAGGGAGACAAGATTCGTTGTCTTCA
* * ** * **
85564290 ATCTGTTCCACTATTATTTAGGGAGATAAGA-TCTGTAATCTTCA
1 ATCTGCTCCACTAATGCTTAGGGAGACAAGATTC-GTTGTCTTCA
** * * * *
85564334 GCCTACTCCACTAATGCTTAGGGAGACAAGATTTGATGTCTTCG
1 ATCTGCTCCACTAATGCTTAGGGAGACAAGATTCGTTGTCTTCA
*
85564378 ATCTACTCCA
1 ATCTGCTCCA
85564388 TTGCTACCTC
Statistics
Matches: 74, Mismatches: 22, Indels: 4
0.74 0.22 0.04
Matches are distributed among these distances:
43 2 0.03
44 71 0.96
45 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.18, T:0.33
Consensus pattern (44 bp):
ATCTGCTCCACTAATGCTTAGGGAGACAAGATTCGTTGTCTTCA
Found at i:85564311 original size:77 final size:77
Alignment explanation
Indices: 85564172--85564317 Score: 177
Period size: 77 Copynumber: 1.9 Consensus size: 77
85564162 GGCTTAAATT
* * * *
85564172 TGCTCCACTACTGCTTAGGGAGATAAGATCTGTAATCTTCAGCCTACTCCACTGCTGCTTAGGGA
1 TGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAACCTACTCCACTACTACTTAGGGA
85564237 GATAGGATGATC
66 GATAGGATGATC
** * ** * *
85564249 TGCTCCACTACTGCTTAGGGAGACAAGAT-TCGTTGTCTTCAATCTGTTCCACTATTATTTAGGG
1 TGCTCCACTACTGCTTAGGGAGACAAGATCT-GTAATCTTCAACCTACTCCACTACTACTTAGGG
85564313 AGATA
65 AGATA
85564318 AGATCTGTAA
Statistics
Matches: 57, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
76 1 0.02
77 56 0.98
ACGTcount: A:0.25, C:0.22, G:0.22, T:0.32
Consensus pattern (77 bp):
TGCTCCACTACTGCTTAGGGAGACAAGATCTGTAATCTTCAACCTACTCCACTACTACTTAGGGA
GATAGGATGATC
Found at i:85570289 original size:3 final size:3
Alignment explanation
Indices: 85570283--85570434 Score: 87
Period size: 3 Copynumber: 50.3 Consensus size: 3
85570273 TAAAAAAACT
* * * *
85570283 ATA ATA ATA ATA ATA ATAA ATA TTA ACA GTA A-A AAA ATA ATA ATA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
** * * * * *
85570328 ATA GGA ATA ATG ATA ATAA ATA A-A ATA ATA ATA ATG ATA GTC GTA
1 ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA ATA ATA
* * * * *
85570373 ATA ATG ATA ATAA ATG ATA GTA ATG ATA ATA A-A TATA AGTA ATA GTA
1 ATA ATA ATA AT-A ATA ATA ATA ATA ATA ATA ATA -ATA A-TA ATA ATA
85570420 A-A ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA A
85570435 ATAAACTAAT
Statistics
Matches: 111, Mismatches: 29, Indels: 18
0.70 0.18 0.11
Matches are distributed among these distances:
2 7 0.06
3 91 0.82
4 13 0.12
ACGTcount: A:0.61, C:0.01, G:0.09, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:85570387 original size:39 final size:36
Alignment explanation
Indices: 85570266--85570387 Score: 111
Period size: 39 Copynumber: 3.2 Consensus size: 36
85570256 ATTTAAAGAG
* ** *
85570266 TAATAAGTAAAAAAACT-ATAATAATAATAATAATAAA
1 TAATAAATAAAAAAA-TAATAATAATAGGAATAAT-GA
*
85570303 TATTAACAGTAAAAAAATAATAATAATAGGAATAATGA
1 TAATAA-A-TAAAAAAATAATAATAATAGGAATAATGA
* *
85570341 TAATAAATAAAATAATAATAATGATAGTCGTAATAATGA
1 TAATAAATAAAAAAATAATAATAATAG--G-AATAATGA
85570380 TAATAAAT
1 TAATAAAT
85570388 GATAGTAATG
Statistics
Matches: 71, Mismatches: 8, Indels: 10
0.80 0.09 0.11
Matches are distributed among these distances:
36 18 0.25
37 6 0.08
38 8 0.11
39 39 0.55
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.29
Consensus pattern (36 bp):
TAATAAATAAAAAAATAATAATAATAGGAATAATGA
Found at i:85570398 original size:19 final size:19
Alignment explanation
Indices: 85570335--85570415 Score: 69
Period size: 19 Copynumber: 4.2 Consensus size: 19
85570325 ATAATAGGAA
*
85570335 TAATGATAATAAATA-AAA
1 TAATGATAATAAATATAAG
* * *
85570353 TAATAATAATGATAGTCGTAA-
1 TAATGATAAT-A-AAT-ATAAG
85570374 TAATGATAATAAATGAT-AG
1 TAATGATAATAAAT-ATAAG
85570393 TAATGATAATAAATATAAG
1 TAATGATAATAAATATAAG
85570412 TAAT
1 TAAT
85570416 AGTAAAATAA
Statistics
Matches: 50, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
18 12 0.24
19 24 0.48
20 3 0.06
21 9 0.18
22 2 0.04
ACGTcount: A:0.56, C:0.01, G:0.11, T:0.32
Consensus pattern (19 bp):
TAATGATAATAAATATAAG
Found at i:85571143 original size:17 final size:17
Alignment explanation
Indices: 85571121--85571158 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
85571111 GTAAGTAGAT
*
85571121 AAAAAAAGA-AAATAAA
1 AAAAAAAGACAAAGAAA
85571137 AAAAAAAGACAAAGAAA
1 AAAAAAAGACAAAGAAA
85571154 AAAAA
1 AAAAA
85571159 TACCCTTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
16 9 0.45
17 11 0.55
ACGTcount: A:0.87, C:0.03, G:0.08, T:0.03
Consensus pattern (17 bp):
AAAAAAAGACAAAGAAA
Found at i:85574475 original size:26 final size:26
Alignment explanation
Indices: 85574446--85574501 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
85574436 TGGTACAAAT
85574446 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
85574472 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
85574498 TGAT
1 TGAT
85574502 GGGCATTTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.30, C:0.07, G:0.25, T:0.38
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:85596111 original size:9 final size:9
Alignment explanation
Indices: 85596097--85596128 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
85596087 GTACTTTGCC
85596097 TAAAAAAAA
1 TAAAAAAAA
85596106 T--AAAAAA
1 TAAAAAAAA
85596113 TAAAAAAAA
1 TAAAAAAAA
85596122 TAAAAAA
1 TAAAAAA
85596129 GGAGAGGCCG
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
7 7 0.33
9 14 0.67
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (9 bp):
TAAAAAAAA
Found at i:85596118 original size:16 final size:16
Alignment explanation
Indices: 85596097--85596128 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
85596087 GTACTTTGCC
85596097 TAAAAAAAATAAAAAA
1 TAAAAAAAATAAAAAA
85596113 TAAAAAAAATAAAAAA
1 TAAAAAAAATAAAAAA
85596129 GGAGAGGCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (16 bp):
TAAAAAAAATAAAAAA
Found at i:85599242 original size:22 final size:22
Alignment explanation
Indices: 85599217--85599260 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
85599207 TTTTAACACT
85599217 TAACTTCCTCCATAAAACATCA
1 TAACTTCCTCCATAAAACATCA
*
85599239 TAACTTTCTCCATAAAACATCA
1 TAACTTCCTCCATAAAACATCA
85599261 ATTCTACAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.41, C:0.30, G:0.00, T:0.30
Consensus pattern (22 bp):
TAACTTCCTCCATAAAACATCA
Found at i:85599602 original size:21 final size:22
Alignment explanation
Indices: 85599538--85599604 Score: 70
Period size: 21 Copynumber: 3.2 Consensus size: 22
85599528 CCTATTTTTC
*
85599538 CTTTCTTTTTCT-TTTCTTTTT
1 CTTTCTTTTTCTATTTCTGTTT
* *
85599559 ATTTCGTTTTC-ATTCTCTG-TT
1 CTTTCTTTTTCTATT-TCTGTTT
85599580 CTTTCTTTTTCTATTT-TGTTT
1 CTTTCTTTTTCTATTTCTGTTT
85599601 CTTT
1 CTTT
85599605 TATTTATTTT
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
20 2 0.05
21 29 0.78
22 6 0.16
ACGTcount: A:0.04, C:0.18, G:0.04, T:0.73
Consensus pattern (22 bp):
CTTTCTTTTTCTATTTCTGTTT
Found at i:85599626 original size:5 final size:5
Alignment explanation
Indices: 85599618--85599670 Score: 67
Period size: 5 Copynumber: 11.0 Consensus size: 5
85599608 TTATTTTAAC
*
85599618 TATTA TATTA TATTA TATTA TATTA TTATTA TA--A TAATA TATTA TA-TA
1 TATTA TATTA TATTA TATTA TATTA -TATTA TATTA TATTA TATTA TATTA
85599666 TATTA
1 TATTA
85599671 AATATCTTAT
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
3 3 0.07
4 4 0.09
5 31 0.72
6 5 0.12
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (5 bp):
TATTA
Found at i:85605660 original size:21 final size:21
Alignment explanation
Indices: 85605619--85605676 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
85605609 TTTGTTTCTT
* *
85605619 TTAT-TTATTTTAACTATTATA
1 TTATATTATTATAA-TAATATA
85605640 TTATATTATTATAATAATATA
1 TTATATTATTATAATAATATA
85605661 TTATATATATTA-AATA
1 TTATAT-TATTATAATA
85605677 TCTTATAAGT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
21 20 0.61
22 13 0.39
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (21 bp):
TTATATTATTATAATAATATA
Found at i:85606222 original size:21 final size:22
Alignment explanation
Indices: 85606183--85606223 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
85606173 AATTCCAAAA
*
85606183 AATGTGTTTGTGTATTAAATTG
1 AATGTGTTGGTGTATTAAATTG
85606205 AATGTGTTGGTG-ATTAAAT
1 AATGTGTTGGTGTATTAAAT
85606224 GAGTTAATTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 7 0.39
22 11 0.61
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.46
Consensus pattern (22 bp):
AATGTGTTGGTGTATTAAATTG
Found at i:85608596 original size:19 final size:19
Alignment explanation
Indices: 85608561--85608598 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
85608551 GTAGTAATAC
*
85608561 AATAGTAAAATGACAACAA
1 AATAGTAAAAAGACAACAA
85608580 AATAGTGAAAAAG-CAACAA
1 AATAGT-AAAAAGACAACAA
85608599 TTTTTTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.63, C:0.11, G:0.13, T:0.13
Consensus pattern (19 bp):
AATAGTAAAAAGACAACAA
Found at i:85611662 original size:22 final size:23
Alignment explanation
Indices: 85611637--85611701 Score: 96
Period size: 24 Copynumber: 2.8 Consensus size: 23
85611627 CTTAATTTGT
85611637 ACTTATCTCTTAT-TAAAAAACC
1 ACTTATCTCTTATATAAAAAACC
* *
85611659 ACTTATCTCTTATAAAAAAAAACT
1 ACTTATCTCTTAT-ATAAAAAACC
85611683 ACTTATCTCTTATATAAAA
1 ACTTATCTCTTATATAAAA
85611702 GTTTTTAAAA
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
22 13 0.34
23 5 0.13
24 20 0.53
ACGTcount: A:0.45, C:0.18, G:0.00, T:0.37
Consensus pattern (23 bp):
ACTTATCTCTTATATAAAAAACC
Found at i:85618815 original size:28 final size:27
Alignment explanation
Indices: 85618761--85618815 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
85618751 TTGGGTTAAA
* * *
85618761 ATTTTATAATATTATAATTGTAAATAT
1 ATTTTATAAAATTAAAAATGTAAATAT
*
85618788 ATTTTATAAAAATTAAAAATGTATATAT
1 ATTTTAT-AAAATTAAAAATGTAAATAT
85618816 CATATGAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
27 7 0.30
28 16 0.70
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (27 bp):
ATTTTATAAAATTAAAAATGTAAATAT
Found at i:85623002 original size:88 final size:87
Alignment explanation
Indices: 85622890--85623120 Score: 272
Period size: 88 Copynumber: 2.6 Consensus size: 87
85622880 ACGTGAGCAA
* * * * *
85622890 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCCAAACAGATT-T
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTG-AAAAAACATTAT
* **
85622953 TGGAAATACCTTGGCATGTGACC-CG
65 TGAAAATACCTCAGC--GTG-CCTCG
* *
85622978 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACATAAATTGAAAAAACATTAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAAACATT-AT
85623043 TGAAAATACCTCAGCGTGCCTCG
65 TGAAAATACCTCAGCGTGCCTCG
* **
85623066 AGGCTCAACTCACCTTTCGCAATATGAGTTGA-TTTTGACGAACAGAAATTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAA
85623121 GACCTCAACA
Statistics
Matches: 124, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
87 22 0.18
88 78 0.63
89 11 0.09
90 13 0.10
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAAACATTATT
GAAAATACCTCAGCGTGCCTCG
Found at i:85623036 original size:15 final size:15
Alignment explanation
Indices: 85623016--85623048 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
85623006 TTGATTTTTG
85623016 AAAAACATAAATTGA
1 AAAAACATAAATTGA
*
85623031 AAAAACATTAATTGA
1 AAAAACATAAATTGA
85623046 AAA
1 AAA
85623049 TACCTCAGCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.67, C:0.06, G:0.06, T:0.21
Consensus pattern (15 bp):
AAAAACATAAATTGA
Found at i:85623165 original size:74 final size:71
Alignment explanation
Indices: 85623040--85623248 Score: 247
Period size: 74 Copynumber: 2.9 Consensus size: 71
85623030 AAAAAACATT
* * ** *
85623040 AATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTTTCGCAATATGAGTTGATTTTGAC
1 AATTGAAAAGACCTCAACGTG-GACGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGAC
*
85623105 GAACAGA
65 AAACAGA
*
85623112 AATTGAAAAGACCTCAACATGTGAGACGAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTTT
1 AATTGAAAAGACCTCAAC--GTG-GACGAGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTT
85623177 GACAAACAGA
62 GACAAACAGA
** * ** *
85623187 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTT
1 AATTGAAAAGACCTCAACGTGGAC-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
85623249 TTTAAAGAGC
Statistics
Matches: 118, Mismatches: 15, Indels: 8
0.84 0.11 0.06
Matches are distributed among these distances:
72 21 0.18
73 34 0.29
74 35 0.30
75 28 0.24
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (71 bp):
AATTGAAAAGACCTCAACGTGGACGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTGACA
AACAGA
Found at i:85623241 original size:73 final size:72
Alignment explanation
Indices: 85623040--85623249 Score: 280
Period size: 73 Copynumber: 2.9 Consensus size: 72
85623030 AAAAAACATT
*
85623040 AATTGAAAATACCTCAGCGTGCCTCGAGGCTCAACTCACCTTTCGCAATATGAGTTGA-TTTTGA
1 AATTGAAAATACCTCAGCGTGCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGA
*
85623104 CGAACAGA
65 CAAACAGA
* * * *
85623112 AATTGAAAAGACCTCAACATGTGAGAC-GAGGCTCAACTCACCTCTCGCGATATGAGTTGATTTT
1 AATTGAAAATACCTCAGC--GT--GCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
85623176 TGACAAACAGA
62 TGACAAACAGA
* *
85623187 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTT
1 AATTGAAAATACCTCAGCGTG-CCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
85623250 TTAAAGAGCA
Statistics
Matches: 119, Mismatches: 12, Indels: 13
0.83 0.08 0.09
Matches are distributed among these distances:
71 1 0.01
72 17 0.14
73 38 0.32
74 33 0.28
75 28 0.24
76 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.28
Consensus pattern (72 bp):
AATTGAAAATACCTCAGCGTGCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAC
AAACAGA
Found at i:85623265 original size:75 final size:74
Alignment explanation
Indices: 85623040--85623415 Score: 291
Period size: 75 Copynumber: 4.9 Consensus size: 74
85623030 AAAAAACATT
* *
85623040 AATTGAAAATACCTCAGCGTG-CCTCGAGGCTCAACTCACCTTTCGCAATATGAGTTGA--TTTT
1 AATTGAAATTACCTCAGCGTGTCCT-GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTT
* *
85623102 GACGAACAGA
65 TACAAACAGA
** * ** *
85623112 AATTGAAAAGACCTCAACATGTGAGAC-GAGGCTCAACTCACCTCTCGCGATATGAGTTGA-TTT
1 AATTGAAATTACCTCAGC--GTG-TCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT
*
85623175 TTGACAAACAGA
63 TTTACAAACAGA
*
85623187 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTT
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
*
85623252 A-AAGAGCATA
66 ACAA-A-CAGA
* ** ** * * *
85623262 AATTGGAAAGCAGAAATCGAAAATACCTCAGTGTGCCT-TGAG-GCTCAACTCACCTCTCGCAAT
1 AATT--------GAAAT--TACCT-CAGC-GTGT-CCTGAG-GCTC-AA-CTCACCTCTCGCAAT
*
85623325 ATGAGTTGATTTTTTTTACAAACATA
50 ATGAGTTGA-TTTTTTTACAAACAGA
85623351 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
1 AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
85623416 TTGAAAAGCA
Statistics
Matches: 243, Mismatches: 32, Indels: 56
0.73 0.10 0.17
Matches are distributed among these distances:
72 17 0.07
73 36 0.15
74 48 0.20
75 59 0.24
76 6 0.02
77 6 0.02
78 2 0.01
79 2 0.01
81 5 0.02
83 5 0.02
85 2 0.01
86 2 0.01
87 6 0.02
88 5 0.02
89 31 0.13
90 9 0.04
91 2 0.01
ACGTcount: A:0.31, C:0.22, G:0.18, T:0.29
Consensus pattern (74 bp):
AATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTT
ACAAACAGA
Found at i:85623351 original size:89 final size:89
Alignment explanation
Indices: 85623183--85623593 Score: 272
Period size: 89 Copynumber: 4.8 Consensus size: 89
85623173 TTTTGACAAA
* *
85623183 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTT
1 CAGAAATCGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTT
85623248 TTTTAAAGAGCATAAATTGGAAAG
66 TTTTAAAGAGCATAAATTGGAAAG
* *
85623272 CAGAAATCGAAAATACCTCAGTGTG-CCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATT
1 CAGAAATCGAAAATACCTCAGCGTGTCC-TGAGGCTCAACTCACCTCTCACAATATGAGTTGA-T
85623336 TTTTTTACAA-A-CATAAATT-GAAA-
64 TTTTTTA-AAGAGCATAAATTGGAAAG
** ** *** * * * * * * **
85623359 -TTACCTC-AGCGTGTCCT--GAG-G--CTCA-ACTC-AC-C-TCTCGCAATATGAGTTGA-TT-
1 CAGAAATCGAAAAT-ACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAAT-A--TGAGTTG
* *
85623411 -TTTTTTTGAAA-AGCAGAAATTGAAAAG
62 ATTTTTTT-AAAGAGCATAAATTGGAAAG
* * ** *
85623438 CAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGCTGA-TT
1 CAGAAATCGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTT
* * *
85623502 TTTGAAA-AACATAAATTGAAGAAAA
66 TTTTAAAGAGCATAAATTG--GAAAG
* * * * *
85623527 CAGAAATTGAAATTACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTT
1 CAGAAATCGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTT
85623592 TT
66 TT
85623594 GAAAAATAGA
Statistics
Matches: 243, Mismatches: 51, Indels: 55
0.70 0.15 0.16
Matches are distributed among these distances:
76 10 0.04
77 14 0.06
78 5 0.02
79 4 0.02
80 11 0.05
81 4 0.02
82 3 0.01
83 2 0.01
84 2 0.01
85 5 0.02
86 12 0.05
87 15 0.06
88 13 0.05
89 128 0.53
90 13 0.05
91 2 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.29
Consensus pattern (89 bp):
CAGAAATCGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTT
TTTTAAAGAGCATAAATTGGAAAG
Found at i:85623379 original size:164 final size:164
Alignment explanation
Indices: 85623139--85623593 Score: 610
Period size: 166 Copynumber: 2.7 Consensus size: 164
85623129 CATGTGAGAC
* *
85623139 GAGGCTCAACTCACCTCTCGCGATATGAGTTGA--TTTTTGACAAACAGAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACAAACAGAAATTGAAATTACCTC
* *
85623202 AGCGTGTCCTGAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTTT-AAAGAGCATAAATT
66 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA-AGCAGAAATT
* * *
85623266 GGAAAGCAGAAATCGAAAATACCTCAGTGTGCCTT
130 GAAAAGCAGAAATCGAAAATACCTCAGCGTGCCCT
*
85623301 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACAAACATAAATTGAAATTACCTC
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACAAACAGAAATTGAAATTACCTC
85623366 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTTGAAAAGCAGAAAT
66 AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTTGAAAAGCAGAAAT
*
85623431 TGAAAAGCAGAAATTGAAAATACCTCAGCGTGCCCT
129 TGAAAAGCAGAAATCGAAAATACCTCAGCGTGCCCT
* * *
85623467 GAGGCTCAACTCACCTCTCGTAATATGAGCTGATTTTTGAAAAACATAAATTGAAGAAAACAGAA
1 GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--------T---TT--A-CAAACAGAA
* *
85623532 ATTGAAATTACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
52 ATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
85623594 GAAAAATAGA
Statistics
Matches: 259, Mismatches: 15, Indels: 22
0.88 0.05 0.07
Matches are distributed among these distances:
162 32 0.12
164 70 0.27
166 83 0.32
167 3 0.01
174 1 0.00
177 2 0.01
178 5 0.02
179 1 0.00
180 62 0.24
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (164 bp):
GAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTTACAAACAGAAATTGAAATTACCTC
AGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAAGCAGAAATTG
AAAAGCAGAAATCGAAAATACCTCAGCGTGCCCT
Found at i:85623435 original size:14 final size:14
Alignment explanation
Indices: 85623416--85623450 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
85623406 TGATTTTTTT
85623416 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
85623430 TTGAAAAGCAGAAA
1 TTGAAAAGCAGAAA
85623444 TTGAAAA
1 TTGAAAA
85623451 TACCTCAGCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.57, C:0.06, G:0.20, T:0.17
Consensus pattern (14 bp):
TTGAAAAGCAGAAA
Found at i:85623528 original size:16 final size:16
Alignment explanation
Indices: 85623507--85623537 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85623497 TGATTTTTGA
*
85623507 AAAACATAAATTGAAG
1 AAAACAGAAATTGAAG
85623523 AAAACAGAAATTGAA
1 AAAACAGAAATTGAA
85623538 ATTACCTCAG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.06, G:0.13, T:0.16
Consensus pattern (16 bp):
AAAACAGAAATTGAAG
Found at i:85623594 original size:89 final size:87
Alignment explanation
Indices: 85623344--85623606 Score: 373
Period size: 89 Copynumber: 3.0 Consensus size: 87
85623334 TTTTTTTTAC
*
85623344 AAACATAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
85623409 TTTTTTTTTGAAAAGCAGAAATTGAA
66 ----TTTTTGAAAAACAGAAATTGAA
* * * * *
85623435 AAGCAGAAATTGAAAATACCTCAGCGTGCCCTGAGGCTCAACTCACCTCTCGTAATATGAGCTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
85623500 TTTTTGAAAAACATAAATTGAAGA
66 TTTTTGAAAAACAGAAATTG-A-A
* *
85623524 AAACAGAAATTGAAATTACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
1 AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
*
85623589 TTTTTGAAAAATAGAAAT
66 TTTTTGAAAAACAGAAAT
85623607 AAAACATCAG
Statistics
Matches: 153, Mismatches: 17, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
87 18 0.12
88 1 0.01
89 75 0.49
91 59 0.39
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (87 bp):
AAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTCGCAATATGAGTTGA
TTTTTGAAAAACAGAAATTGAA
Found at i:85624440 original size:45 final size:38
Alignment explanation
Indices: 85624371--85624469 Score: 101
Period size: 45 Copynumber: 2.4 Consensus size: 38
85624361 CATTAGAATA
85624371 CCTTTTCGGGTTTTCATGCCAATCTTTTATGTTTAATCAAGACGC
1 CCTTTTCGGGTTTTCA-GCCAATCTTTT-T-TTT--T-AA-ACGC
*
85624416 CCTTTTCGGGTTTTCA-CCTTAATCTTTTTTTTTAAATGC
1 CCTTTTCGGGTTTTCAGCC--AATCTTTTTTTTTAAACGC
85624455 CCTTTTCGGGTTTTC
1 CCTTTTCGGGTTTTC
85624470 TTTTTCAAGC
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
39 18 0.35
40 2 0.04
41 1 0.02
43 5 0.10
44 1 0.02
45 24 0.47
ACGTcount: A:0.15, C:0.22, G:0.14, T:0.48
Consensus pattern (38 bp):
CCTTTTCGGGTTTTCAGCCAATCTTTTTTTTTAAACGC
Found at i:85630141 original size:34 final size:34
Alignment explanation
Indices: 85630098--85630167 Score: 122
Period size: 34 Copynumber: 2.1 Consensus size: 34
85630088 ATTCATCTTC
* *
85630098 TTTCCCTACTGTGCTCACATTTCCTTCGGTATGG
1 TTTCCCTACTGTGCTCACATTCCCTTCAGTATGG
85630132 TTTCCCTACTGTGCTCACATTCCCTTCAGTATGG
1 TTTCCCTACTGTGCTCACATTCCCTTCAGTATGG
85630166 TT
1 TT
85630168 AGGGAATGGG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.13, C:0.30, G:0.16, T:0.41
Consensus pattern (34 bp):
TTTCCCTACTGTGCTCACATTCCCTTCAGTATGG
Found at i:85631664 original size:26 final size:26
Alignment explanation
Indices: 85631635--85631716 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
85631625 TGTCCCAGAC
85631635 ATGGTCTTACATGGGATGTTCTCGTG
1 ATGGTCTTACATGGGATGTTCTCGTG
* ** * **
85631661 ATGGTGC--CCATGCCATG-TCCCAGAC
1 ATGGT-CTTACATGGGATGTTCTC-GTG
85631686 ATGGTCTTACATGGGATGTTCTCGTG
1 ATGGTCTTACATGGGATGTTCTCGTG
85631712 ATGGT
1 ATGGT
85631717 GCCCATGCCA
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 4 0.10
25 13 0.33
26 18 0.46
27 4 0.10
ACGTcount: A:0.17, C:0.21, G:0.29, T:0.33
Consensus pattern (26 bp):
ATGGTCTTACATGGGATGTTCTCGTG
Found at i:85631678 original size:25 final size:25
Alignment explanation
Indices: 85631650--85631729 Score: 65
Period size: 25 Copynumber: 3.2 Consensus size: 25
85631640 CTTACATGGG
85631650 ATGTTCTCGTGATGGTGCCCATGCC
1 ATGTTCTCGTGATGGTGCCCATGCC
* ** * **
85631675 ATG-TCCCAGACATGGT-CTTACATGGG
1 ATGTTCTC-GTGATGGTGC--CCATGCC
85631701 ATGTTCTCGTGATGGTGCCCATGCC
1 ATGTTCTCGTGATGGTGCCCATGCC
85631726 ATGT
1 ATGT
85631730 CCCAGACATG
Statistics
Matches: 38, Mismatches: 12, Indels: 10
0.63 0.20 0.17
Matches are distributed among these distances:
24 4 0.11
25 17 0.45
26 13 0.34
27 4 0.11
ACGTcount: A:0.16, C:0.25, G:0.28, T:0.31
Consensus pattern (25 bp):
ATGTTCTCGTGATGGTGCCCATGCC
Found at i:85631693 original size:51 final size:52
Alignment explanation
Indices: 85631621--85631860 Score: 310
Period size: 51 Copynumber: 4.6 Consensus size: 52
85631611 ACATGCCAAA
**
85631621 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATAGGTGCCCAT
**
85631672 GCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATAGGTGCCCAT
* *
85631723 GCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGT-CTCGGTGCCCAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATAGGTGCCCAT
* * * *
85631773 GGCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCATGATCTTAAGGATGCCAAT
1 GCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGA---T-AGG-TGCCCAT
85631829 GCCATGTCCCAGACATGGTCTTACATGGGATC
1 GCCATGTCCCAGACATGGTCTTACATGGGATC
85631861 TCTTTACCCA
Statistics
Matches: 170, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
49 1 0.01
50 50 0.29
51 81 0.48
54 1 0.01
55 2 0.01
56 34 0.20
57 1 0.01
ACGTcount: A:0.20, C:0.28, G:0.26, T:0.27
Consensus pattern (52 bp):
GCCATGTCCCAGACATGGTCTTACATGGGATCCTCTCGTGATAGGTGCCCAT
Found at i:85631740 original size:25 final size:25
Alignment explanation
Indices: 85631661--85631741 Score: 67
Period size: 25 Copynumber: 3.2 Consensus size: 25
85631651 TGTTCTCGTG
85631661 ATGGTGCCCATGCCATGTCCCAGAC
1 ATGGTGCCCATGCCATGTCCCAGAC
* ** * **
85631686 ATGGT-CTTACATGGGATGTTCTC-GTG
1 ATGGTGC--CCATGCCATG-TCCCAGAC
85631712 ATGGTGCCCATGCCATGTCCCAGAC
1 ATGGTGCCCATGCCATGTCCCAGAC
85631737 ATGGT
1 ATGGT
85631742 CTTACATGGG
Statistics
Matches: 39, Mismatches: 12, Indels: 10
0.64 0.20 0.16
Matches are distributed among these distances:
24 4 0.10
25 18 0.46
26 13 0.33
27 4 0.10
ACGTcount: A:0.19, C:0.27, G:0.27, T:0.27
Consensus pattern (25 bp):
ATGGTGCCCATGCCATGTCCCAGAC
Found at i:85631979 original size:13 final size:13
Alignment explanation
Indices: 85631958--85631989 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
85631948 GCTTGGATCA
*
85631958 TCATCAAATAAAT
1 TCATAAAATAAAT
85631971 TCATAAAATAAAT
1 TCATAAAATAAAT
85631984 TCATAA
1 TCATAA
85631990 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:85632236 original size:30 final size:30
Alignment explanation
Indices: 85632201--85632258 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
85632191 CCTCGACTCT
*
85632201 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
85632231 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
85632259 AAGGCTCGGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:85632921 original size:148 final size:148
Alignment explanation
Indices: 85632653--85632947 Score: 572
Period size: 148 Copynumber: 2.0 Consensus size: 148
85632643 TGGCTTCCCT
*
85632653 CCTTGCTGATTTCGTTCATATGAAGAAGATGATGATTTTTGCCATCTTTTTCCCTTTTAATTCAT
1 CCTTGCTGATTTCGTTCATATGAAGAAGATGATGATTTTTGCAATCTTTTTCCCTTTTAATTCAT
85632718 TTTAATTACTAGATTACCAAATTGCCCCTAACTTAAAAATTTTCTATTTCACTTATCTCATGTCC
66 TTTAATTACTAGATTACCAAATTGCCCCTAACTTAAAAATTTTCTATTTCACTTATCTCATGTCC
85632783 ATTTTTGTCTACCAAGTC
131 ATTTTTGTCTACCAAGTC
85632801 CCTTGCTGATTTCGTTCATATGAAGAAGATGATGATTTTTGCAATCTTTTTCCCTTTTAATTCAT
1 CCTTGCTGATTTCGTTCATATGAAGAAGATGATGATTTTTGCAATCTTTTTCCCTTTTAATTCAT
*
85632866 TTTAATTACTAGATTACCAAATTGCTCCTAACTTAAAAATTTTCTATTTCACTTATCTCATGTCC
66 TTTAATTACTAGATTACCAAATTGCCCCTAACTTAAAAATTTTCTATTTCACTTATCTCATGTCC
85632931 ATTTTTGTCTACCAAGT
131 ATTTTTGTCTACCAAGT
85632948 TACCAATGGT
Statistics
Matches: 145, Mismatches: 2, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
148 145 1.00
ACGTcount: A:0.26, C:0.20, G:0.09, T:0.44
Consensus pattern (148 bp):
CCTTGCTGATTTCGTTCATATGAAGAAGATGATGATTTTTGCAATCTTTTTCCCTTTTAATTCAT
TTTAATTACTAGATTACCAAATTGCCCCTAACTTAAAAATTTTCTATTTCACTTATCTCATGTCC
ATTTTTGTCTACCAAGTC
Found at i:85645199 original size:37 final size:37
Alignment explanation
Indices: 85645128--85645199 Score: 94
Period size: 37 Copynumber: 1.9 Consensus size: 37
85645118 AAAAATATAT
* *
85645128 ATATAAAATATTTACAATAATGATGTAAATAAACAAC
1 ATATAAAATATTTACAATAATCATATAAATAAACAAC
85645165 ATATAAAATATTTGA-AATAA-CATATAAATGAAACA
1 ATATAAAATATTT-ACAATAATCATATAAAT-AAACA
85645200 TTTTTTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 7 0.23
37 23 0.74
38 1 0.03
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (37 bp):
ATATAAAATATTTACAATAATCATATAAATAAACAAC
Found at i:85647852 original size:25 final size:24
Alignment explanation
Indices: 85647807--85647854 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
85647797 AAAAAAACAA
* *
85647807 AAAAGGGTTCAAATGACTAATAAT
1 AAAAGGGTTCAAATAAATAATAAT
*
85647831 AAAATGGTTCAATATAAATAATAA
1 AAAAGGGTTCAA-ATAAATAATAA
85647855 AAGATAAACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.54, C:0.06, G:0.12, T:0.27
Consensus pattern (24 bp):
AAAAGGGTTCAAATAAATAATAAT
Found at i:85648356 original size:59 final size:59
Alignment explanation
Indices: 85648264--85648382 Score: 238
Period size: 59 Copynumber: 2.0 Consensus size: 59
85648254 CCAAAACGAC
85648264 GTCGTTTTGGCCTCTGAACCTACACATTAAAACAGCGTCGTTTCATGTGTTATATAAAA
1 GTCGTTTTGGCCTCTGAACCTACACATTAAAACAGCGTCGTTTCATGTGTTATATAAAA
85648323 GTCGTTTTGGCCTCTGAACCTACACATTAAAACAGCGTCGTTTCATGTGTTATATAAAA
1 GTCGTTTTGGCCTCTGAACCTACACATTAAAACAGCGTCGTTTCATGTGTTATATAAAA
85648382 G
1 G
85648383 CAAAAATTTC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 60 1.00
ACGTcount: A:0.29, C:0.20, G:0.18, T:0.34
Consensus pattern (59 bp):
GTCGTTTTGGCCTCTGAACCTACACATTAAAACAGCGTCGTTTCATGTGTTATATAAAA
Found at i:85648771 original size:14 final size:14
Alignment explanation
Indices: 85648730--85648771 Score: 50
Period size: 14 Copynumber: 2.9 Consensus size: 14
85648720 AAATTTGTAA
85648730 AAAATGAAATAAAAT
1 AAAA-GAAATAAAAT
*
85648745 AAAA-ACAAGAAAAT
1 AAAAGA-AATAAAAT
85648759 AAAAGAAATAAAA
1 AAAAGAAATAAAA
85648772 AAAGATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 1 0.04
14 17 0.74
15 5 0.22
ACGTcount: A:0.79, C:0.02, G:0.07, T:0.12
Consensus pattern (14 bp):
AAAAGAAATAAAAT
Found at i:85650232 original size:22 final size:23
Alignment explanation
Indices: 85650189--85650232 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
85650179 TCATGGATTT
* *
85650189 TTCTGAAAATAAATTAAGTTTTC
1 TTCTGAAAATAAATAAAATTTTC
85650212 TTCT-AAAATAAATAAAATTTT
1 TTCTGAAAATAAATAAAATTTT
85650233 AAATTGACTG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.45, C:0.07, G:0.05, T:0.43
Consensus pattern (23 bp):
TTCTGAAAATAAATAAAATTTTC
Found at i:85651052 original size:17 final size:17
Alignment explanation
Indices: 85651030--85651062 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
85651020 ATATATAATA
85651030 TATAAATTAATAAAAAC
1 TATAAATTAATAAAAAC
*
85651047 TATAAATTTATAAAAA
1 TATAAATTAATAAAAA
85651063 TACATAAACA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (17 bp):
TATAAATTAATAAAAAC
Found at i:85651238 original size:24 final size:25
Alignment explanation
Indices: 85651196--85651244 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
85651186 TTTTTATTAA
*
85651196 TTTATATATCTTATGATTTTAAAAT
1 TTTATATATCTTATGATTTCAAAAT
* *
85651221 TTTATATAT-TTTTTATTTCAAAAT
1 TTTATATATCTTATGATTTCAAAAT
85651245 AATAATATAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 12 0.57
25 9 0.43
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (25 bp):
TTTATATATCTTATGATTTCAAAAT
Found at i:85651289 original size:21 final size:21
Alignment explanation
Indices: 85651253--85651302 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
85651243 ATAATAATAT
85651253 AAAAAA-ATTAACATTTTA-TA
1 AAAAAACATTAACA-TTTACTA
85651273 AAAAAACATATAA-ATTTACTA
1 AAAAAACAT-TAACATTTACTA
*
85651294 AAAATACAT
1 AAAAAACAT
85651303 CTAGAATGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
20 10 0.38
21 13 0.50
22 3 0.12
ACGTcount: A:0.62, C:0.08, G:0.00, T:0.30
Consensus pattern (21 bp):
AAAAAACATTAACATTTACTA
Found at i:85651395 original size:20 final size:20
Alignment explanation
Indices: 85651370--85651411 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
85651360 GTCCACGTTA
85651370 ATTCTTGATGAGAAGAAAAT
1 ATTCTTGATGAGAAGAAAAT
85651390 ATTCTTGATGAGAAGAAAAT
1 ATTCTTGATGAGAAGAAAAT
85651410 AT
1 AT
85651412 ATTTTTTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.45, C:0.05, G:0.19, T:0.31
Consensus pattern (20 bp):
ATTCTTGATGAGAAGAAAAT
Found at i:85651694 original size:19 final size:18
Alignment explanation
Indices: 85651672--85651717 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
85651662 AAAAATCAGG
*
85651672 AAAAATTAAAAGATATTAT
1 AAAAATTAAAAG-TATTAC
*
85651691 AAAAACTAAAAGTATTAC
1 AAAAATTAAAAGTATTAC
*
85651709 AAATATTAA
1 AAAAATTAA
85651718 TATTGCAATA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
18 12 0.52
19 11 0.48
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.28
Consensus pattern (18 bp):
AAAAATTAAAAGTATTAC
Found at i:85651706 original size:18 final size:19
Alignment explanation
Indices: 85651672--85651707 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
85651662 AAAAATCAGG
*
85651672 AAAAATTAAAAGATATTAT
1 AAAAACTAAAAGATATTAT
85651691 AAAAACTAAAAG-TATTA
1 AAAAACTAAAAGATATTA
85651708 CAAATATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.64, C:0.03, G:0.06, T:0.28
Consensus pattern (19 bp):
AAAAACTAAAAGATATTAT
Found at i:85651846 original size:19 final size:20
Alignment explanation
Indices: 85651783--85651840 Score: 75
Period size: 20 Copynumber: 2.9 Consensus size: 20
85651773 AAATTGAAAT
85651783 AAATTACAAAAAA-AT-TTATA
1 AAATTA-AAAAAACATATT-TA
*
85651803 AAATTAATAAAACATATTTA
1 AAATTAAAAAAACATATTTA
85651823 AAATTAAAAAAACATATT
1 AAATTAAAAAAACATATT
85651841 AGAATTCTTA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 5 0.15
20 27 0.79
21 2 0.06
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (20 bp):
AAATTAAAAAAACATATTTA
Found at i:85652676 original size:3 final size:3
Alignment explanation
Indices: 85652668--85652698 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
85652658 AATATGAATA
85652668 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
85652699 GTAAAAGCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:85653089 original size:3 final size:3
Alignment explanation
Indices: 85653083--85653241 Score: 115
Period size: 3 Copynumber: 52.3 Consensus size: 3
85653073 ATAATAGTGG
* * * * *
85653083 TAA TAA TAA TAA TAA TAG TTA TAA AAA TAA AAA TAA TAA CAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
* * * * *
85653131 -AA TTAG TAA TAA TAA TAG TAA TAA AAA TAA AAA TAA TAG TAA TAA
1 TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
** * * *
85653176 TAA TGG TAA CAA TAA TAAA TAG TAA TAA TAA TACA TTAA TAA TAA TGA
1 TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA TA-A -TAA TAA TAA TAA
**
85653224 T-A TGT TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA T
85653242 TAATTAATTA
Statistics
Matches: 118, Mismatches: 32, Indels: 12
0.73 0.20 0.07
Matches are distributed among these distances:
2 4 0.03
3 106 0.90
4 6 0.05
5 2 0.02
ACGTcount: A:0.61, C:0.02, G:0.06, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:85653098 original size:21 final size:21
Alignment explanation
Indices: 85653061--85653120 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
85653051 AAGTAAATAA
85653061 ATAAAAA-AGAAAATAATAGTG
1 ATAAAAATA-AAAATAATAGTG
* * * *
85653082 GTAATAATAATAATAATAGTT
1 ATAAAAATAAAAATAATAGTG
85653103 ATAAAAATAAAAATAATA
1 ATAAAAATAAAAATAATA
85653121 ACAATAATAA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
21 30 0.97
22 1 0.03
ACGTcount: A:0.65, C:0.00, G:0.08, T:0.27
Consensus pattern (21 bp):
ATAAAAATAAAAATAATAGTG
Found at i:85653115 original size:48 final size:48
Alignment explanation
Indices: 85653086--85653208 Score: 138
Period size: 48 Copynumber: 2.5 Consensus size: 48
85653076 ATAGTGGTAA
* *
85653086 TAATAATAATAATAGTTATAAAAATAAAAATAATAACAATAATAAAAT
1 TAATAATAATAATAGTAATAAAAATAAAAATAAAAACAATAATAAAAT
* * ** ***
85653134 TAGTAATAATAATAGTAATAAAAATAAAAATAATAGTAATAATAATGG
1 TAATAATAATAATAGTAATAAAAATAAAAATAAAAACAATAATAAAAT
* *
85653182 TAACAATAATAAATAGTAATAATAATA
1 TAATAATAAT-AATAGTAATAAAAATA
85653209 CATTAATAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 1
0.85 0.13 0.01
Matches are distributed among these distances:
48 49 0.77
49 15 0.23
ACGTcount: A:0.63, C:0.02, G:0.06, T:0.29
Consensus pattern (48 bp):
TAATAATAATAATAGTAATAAAAATAAAAATAAAAACAATAATAAAAT
Found at i:85653249 original size:14 final size:14
Alignment explanation
Indices: 85653198--85653245 Score: 53
Period size: 17 Copynumber: 3.3 Consensus size: 14
85653188 TAATAAATAG
85653198 TAATAATAATACAT
1 TAATAATAATACAT
*
85653212 TAATAATAATGATATGT
1 TAATAATAAT-ACA--T
85653229 TAATAATAATA-AT
1 TAATAATAATACAT
85653242 TAAT
1 TAAT
85653246 TAATTAATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 5 0.17
14 10 0.33
15 3 0.10
16 1 0.03
17 11 0.37
ACGTcount: A:0.54, C:0.02, G:0.04, T:0.40
Consensus pattern (14 bp):
TAATAATAATACAT
Found at i:85654361 original size:20 final size:19
Alignment explanation
Indices: 85654329--85654371 Score: 68
Period size: 20 Copynumber: 2.2 Consensus size: 19
85654319 TTGGCTGATT
*
85654329 GGTTTTTAGTTGGGCTTTG
1 GGTTTTTAATTGGGCTTTG
85654348 GGTTTTGTAATTGGGCTTTG
1 GGTTTT-TAATTGGGCTTTG
85654368 GGTT
1 GGTT
85654372 ATTGGTTTGG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 6 0.27
20 16 0.73
ACGTcount: A:0.07, C:0.05, G:0.37, T:0.51
Consensus pattern (19 bp):
GGTTTTTAATTGGGCTTTG
Found at i:85654381 original size:20 final size:19
Alignment explanation
Indices: 85654329--85654396 Score: 63
Period size: 20 Copynumber: 3.6 Consensus size: 19
85654319 TTGGCTGATT
85654329 GGTTTT-TAGTTGGGCTTTG
1 GGTTTTGTA-TTGGGCTTTG
85654348 GGTTTTGTAATTGGGCTTTG
1 GGTTTTGT-ATTGGGCTTTG
*
85654368 GGTTATTGGT-TT-GG-TTTT
1 GGTT-TT-GTATTGGGCTTTG
85654386 GGTTTTGTATT
1 GGTTTTGTATT
85654397 TTGGGTGTTG
Statistics
Matches: 43, Mismatches: 1, Indels: 12
0.77 0.02 0.21
Matches are distributed among these distances:
16 2 0.05
17 4 0.09
18 7 0.16
19 8 0.19
20 17 0.40
21 3 0.07
22 2 0.05
ACGTcount: A:0.07, C:0.03, G:0.34, T:0.56
Consensus pattern (19 bp):
GGTTTTGTATTGGGCTTTG
Found at i:85654886 original size:87 final size:87
Alignment explanation
Indices: 85654788--85655177 Score: 288
Period size: 87 Copynumber: 4.4 Consensus size: 87
85654778 GACTTGTAAT
* * *
85654788 TTCAACCTGCTCTACTACAACTTCAGAGAGATAAGGTTAGCTATCTTCAGTCTACCCCGTTGCAA
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGTTAGCTATCTTCAGTCTACCCCGTTGCAA
85654853 TTTTAGGGAGAAGACTTGTGGC
66 TTTTAGGGAGAAGACTTGTGGC
* * ** * * ** *
85654875 TTCAATTTGCTCCACTGCAACTTCAGGGAGATAAAATTTGCCATGGT-AGATTTGATCCGGCC-T
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGTTAGCTATCTTCAG-TCT-A-CC--CCGT
** * * * *
85654938 ACTGCAACTTCAAAGGTATAGGACTTGTCGC
61 --TGCAA-TT-TTAGGGAGAAGACTTGTGGC
* * * * * * * **
85654969 TTTAATCTGATCCACTACAATTTC-GGGGGAT-AGGATTTG-TAAT-TTCAGTCTGCTCCACTGC
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGG-TTAGCT-ATCTTCAGTCTACCCCGTTGC
* * ***
85655030 AACTTCAGGGAGATAAGACTTGTAAT
64 AATTTTAGGGAG--AAGACTTGTGGC
* * *
85655056 TTCAACCTGCTCTACTACAACTTCAGAGAGATAAGGTTAGCTATCTTCAGTCTACCCCGTTGCAA
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGTTAGCTATCTTCAGTCTACCCCGTTGCAA
85655121 TTTTAGGGAGAAGACTTGTGGC
66 TTTTAGGGAGAAGACTTGTGGC
* *
85655143 TTCAATTTGCTCCACTGCAACTTCAGGGAGATAAG
1 TTCAATCTGCTCCACTACAACTTCAGGGAGATAAG
85655178 ACTTGTAACT
Statistics
Matches: 221, Mismatches: 63, Indels: 38
0.69 0.20 0.12
Matches are distributed among these distances:
85 4 0.02
86 3 0.01
87 109 0.49
88 13 0.06
89 30 0.14
90 2 0.01
91 2 0.01
92 9 0.04
93 16 0.07
94 33 0.15
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.31
Consensus pattern (87 bp):
TTCAATCTGCTCCACTACAACTTCAGGGAGATAAGGTTAGCTATCTTCAGTCTACCCCGTTGCAA
TTTTAGGGAGAAGACTTGTGGC
Found at i:85654905 original size:131 final size:131
Alignment explanation
Indices: 85654734--85655233 Score: 485
Period size: 131 Copynumber: 3.8 Consensus size: 131
85654724 AAAGGTATAG
* * * * * *
85654734 GACTTGTCGCTTTAATCCGCTCCATTGCAACTTCAAGGAGATAGGACTTGTAATTTCAACCTGCT
1 GACTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCT
85654799 CTACTACAACTTCAGAGAGATAAGGTTAGCTATCTTCAGTCTACCCCGTTGCAATTTTAGGGAGA
66 CTACTACAACTTCAGAGAGATAAGGTTAGCTATCTTCAGTCTACCCCGTTGCAATTTTAGGGAGA
85654864 A
131 A
* * * *
85654865 GACTTGTGGCTTCAATTTGCTCCACTGCAACTTCAGGGAGATAAAATTTGCCATGGTAGATTTGA
1 GACTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGAT--AA---GAC-TTGTA-ATTTCA
* * * * ** * * * *
85654930 TCCGGC-CTACTGCAACTTCA-A-AGGTATAGGACTT-G-TCGCTTTAATCTGATCCAC--TACA
59 ACCTGCTCTACTACAACTTCAGAGAGATA-AGG--TTAGCTATCTTCAGTCT-A-CCCCGTTGCA
* *
85654988 A-TTTCGGGGGATA
119 ATTTTAGGGAGA-A
* *** *
85655001 GGATTTGTAATTTCAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGC
1 -GACTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGC
85655066 TCTACTACAACTTCAGAGAGATAAGGTTAGCTATCTTCAGTCTACCCCGTTGCAATTTTAGGGAG
65 TCTACTACAACTTCAGAGAGATAAGGTTAGCTATCTTCAGTCTACCCCGTTGCAATTTTAGGGAG
85655131 AA
130 AA
* * * *
85655133 GACTTGTGGCTTCAATTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTCAACCTACC
1 GACTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCT
* * * * **
85655198 CCACTGCAACTTCAGGGGGATAAGGTTTTCTATCTT
66 CTACTACAACTTCAGAGAGATAAGGTTAGCTATCTT
85655234 TGATCTACTC
Statistics
Matches: 289, Mismatches: 58, Indels: 44
0.74 0.15 0.11
Matches are distributed among these distances:
130 14 0.05
131 141 0.49
132 19 0.07
133 13 0.04
135 14 0.05
136 19 0.07
137 55 0.19
138 14 0.05
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (131 bp):
GACTTGTGGCTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTCAACCTGCT
CTACTACAACTTCAGAGAGATAAGGTTAGCTATCTTCAGTCTACCCCGTTGCAATTTTAGGGAGA
A
Found at i:85655054 original size:44 final size:44
Alignment explanation
Indices: 85654972--85655282 Score: 195
Period size: 44 Copynumber: 7.1 Consensus size: 44
85654962 TTGTCGCTTT
* * * * * *
85654972 AATCTGATCCACTACAATTTC-GGGGGATAGGATTTGTAATTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTC
*
85655015 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTC
* * * * *
85655059 AACCTGCTCTACTACAACTTCAGAGAGATAAG-GTTAGCT-ATCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTT-G-TAAT-TTC
* * * ** * * ***
85655104 AGTCTACCCCGTTGCAATTTTAGGGAG--AAGACTTGTGGCTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTC
* *
85655146 AATTTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTC
* * * * * * * *
85655190 AACCTACCCCACTGCAACTTCAGGGGGATAAG-GTTTTCTATCTTT
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGT-AAT-TTC
* * * * *
85655235 GATCTACTCCACTGCAACTT-AGAGAGATAAGATTTGTAACTTC
1 AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTC
85655278 AATCT
1 AATCT
85655283 ATTCCATTAC
Statistics
Matches: 199, Mismatches: 58, Indels: 22
0.71 0.21 0.08
Matches are distributed among these distances:
42 23 0.12
43 32 0.16
44 102 0.51
45 42 0.21
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (44 bp):
AATCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGTAATTTC
Found at i:85658327 original size:14 final size:14
Alignment explanation
Indices: 85658304--85658333 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
85658294 TTGAAAATAT
85658304 GTTGAATTGGATTG
1 GTTGAATTGGATTG
*
85658318 GTTGATTTGGATTG
1 GTTGAATTGGATTG
85658332 GT
1 GT
85658334 CTCGATATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.47
Consensus pattern (14 bp):
GTTGAATTGGATTG
Found at i:85669925 original size:3 final size:3
Alignment explanation
Indices: 85669917--85669941 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
85669907 ATAAAAAATT
85669917 ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA A
85669942 AGGCATTAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:85670196 original size:15 final size:16
Alignment explanation
Indices: 85670161--85670199 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
85670151 AAGGAAATAA
*
85670161 ATAAATAATAAACGAT
1 ATAAAAAATAAACGAT
*
85670177 ATAAAAAATAAATG-T
1 ATAAAAAATAAACGAT
85670192 ATAAAAAA
1 ATAAAAAA
85670200 ATTAGGTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 9 0.43
16 12 0.57
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (16 bp):
ATAAAAAATAAACGAT
Found at i:85670392 original size:3 final size:3
Alignment explanation
Indices: 85670384--85670541 Score: 131
Period size: 3 Copynumber: 51.0 Consensus size: 3
85670374 AAAAGAAAAT
* * * *
85670384 ATA ATA ATA ATA GTA ATA GTA ATA ATG ATA ATA ATA ATA ATA ATA GTA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
* *
85670432 ATA ATA ATG ATA ATA ATA ATA ATA ATAA ATA GTA ATA ATA ATA CATTA
1 ATA ATA ATA ATA ATA ATA ATA ATA AT-A ATA ATA ATA ATA ATA -A-TA
* * * * *
85670480 ATA AGA TTA ATA AT- ATG TTA ATA ATA ATA ATTA ATTA ATTA ATTA ATT
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-TA A-TA A-TA A-TA ATA
*
85670528 ATA CTA ATA A-A ATA
1 ATA ATA ATA ATA ATA
85670542 GAAAAAATAA
Statistics
Matches: 126, Mismatches: 23, Indels: 12
0.78 0.14 0.07
Matches are distributed among these distances:
2 4 0.03
3 100 0.79
4 20 0.16
5 2 0.02
ACGTcount: A:0.58, C:0.01, G:0.05, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:85670536 original size:34 final size:34
Alignment explanation
Indices: 85670418--85670541 Score: 103
Period size: 34 Copynumber: 3.6 Consensus size: 34
85670408 ATGATAATAA
* * * * *
85670418 TAATAATAATAGTAATAATAATGATAATAATAATAA
1 TAATAAT-ATACTAATAATAAT-ACATTAATAAGAT
*
85670454 TAATAA-ATAGTAATAATAATACATTAATAAGAT
1 TAATAATATACTAATAATAATACATTAATAAGAT
** *
85670487 TAATAATATGTTAATAATAATA-ATTAATTA-AT
1 TAATAATATACTAATAATAATACATTAATAAGAT
85670519 TAATTAATTATACTAATAA-AATA
1 TAA-TAA-TATACTAATAATAATA
85670542 GAAAAAATAA
Statistics
Matches: 76, Mismatches: 9, Indels: 9
0.81 0.10 0.10
Matches are distributed among these distances:
32 5 0.07
33 29 0.38
34 36 0.47
36 6 0.08
ACGTcount: A:0.57, C:0.02, G:0.04, T:0.37
Consensus pattern (34 bp):
TAATAATATACTAATAATAATACATTAATAAGAT
Found at i:85671623 original size:18 final size:20
Alignment explanation
Indices: 85671588--85671628 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
85671578 GCTAGGGTAG
*
85671588 TTTAGTTTGGCTGATT-GGTT
1 TTTAGTTGGGCT-ATTGGGTT
85671608 TTTAGTTGGGCT-TTGGGTT
1 TTTAGTTGGGCTATTGGGTT
85671627 TT
1 TT
85671629 GTAATTAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 2 0.11
19 6 0.32
20 11 0.58
ACGTcount: A:0.07, C:0.05, G:0.32, T:0.56
Consensus pattern (20 bp):
TTTAGTTGGGCTATTGGGTT
Found at i:85671659 original size:6 final size:6
Alignment explanation
Indices: 85671650--85671699 Score: 50
Period size: 6 Copynumber: 8.3 Consensus size: 6
85671640 CTGGGTCTGG
* *
85671650 TTTGGT TTTGGT TTTGTAT TTTGGT TGTTGG- TTTGGG TTT-GT TTTGGT
1 TTTGGT TTTGGT TTTG-GT TTTGGT T-TTGGT TTTGGT TTTGGT TTTGGT
85671698 TT
1 TT
85671700 ATTTTAGCCC
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
5 8 0.22
6 20 0.54
7 9 0.24
ACGTcount: A:0.02, C:0.00, G:0.32, T:0.66
Consensus pattern (6 bp):
TTTGGT
Found at i:85672153 original size:31 final size:30
Alignment explanation
Indices: 85672095--85672167 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
85672085 TTCAAGTTTT
85672095 TATGATTTTTATTTTTTTATATCAATTTTAA
1 TATG-TTTTTATTTTTTTATATCAATTTTAA
*
85672126 TACT-TTTTTATGATTTTTTATA-GAATTTTAA
1 TA-TGTTTTTAT--TTTTTTATATCAATTTTAA
85672157 TATGTTTTTAT
1 TATGTTTTTAT
85672168 AAATTTTAAA
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
30 8 0.22
31 19 0.51
32 10 0.27
ACGTcount: A:0.27, C:0.03, G:0.05, T:0.64
Consensus pattern (30 bp):
TATGTTTTTATTTTTTTATATCAATTTTAA
Found at i:85672154 original size:20 final size:19
Alignment explanation
Indices: 85672131--85672202 Score: 67
Period size: 19 Copynumber: 3.7 Consensus size: 19
85672121 TTTAATACTT
85672131 TTTTATGAT-TTTTTATAGAA
1 TTTTAT-ATGTTTTTATA-AA
85672151 TTTTAATATGTTTTTATAAA
1 TTTT-ATATGTTTTTATAAA
* * * *
85672171 TTTTAAATATGTTTATTAA
1 TTTTATATGTTTTTATAAA
85672190 TTTTATAT-TTTTT
1 TTTTATATGTTTTT
85672203 TGAGAATTTG
Statistics
Matches: 44, Mismatches: 6, Indels: 6
0.79 0.11 0.11
Matches are distributed among these distances:
18 4 0.09
19 18 0.41
20 12 0.27
21 10 0.23
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.64
Consensus pattern (19 bp):
TTTTATATGTTTTTATAAA
Found at i:85672154 original size:21 final size:20
Alignment explanation
Indices: 85672140--85672184 Score: 72
Period size: 21 Copynumber: 2.1 Consensus size: 20
85672130 TTTTTATGAT
85672140 TTTTTATAGAATTTTAATATG
1 TTTTTATA-AATTTTAATATG
85672161 TTTTTATAAATTTTAAATATG
1 TTTTTATAAATTTT-AATATG
85672182 TTT
1 TTT
85672185 ATTAATTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
20 6 0.26
21 17 0.74
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (20 bp):
TTTTTATAAATTTTAATATG
Found at i:85672191 original size:19 final size:20
Alignment explanation
Indices: 85672141--85672194 Score: 67
Period size: 21 Copynumber: 2.7 Consensus size: 20
85672131 TTTTATGATT
85672141 TTTTATAGAATTTT-AATATG
1 TTTTATA-AATTTTAAATATG
85672161 TTTTTATAAATTTTAAATATG
1 -TTTTATAAATTTTAAATATG
*
85672182 -TTTATTAATTTTA
1 TTTTATAAATTTTA
85672195 TATTTTTTTG
Statistics
Matches: 31, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
19 12 0.39
20 6 0.19
21 13 0.42
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (20 bp):
TTTTATAAATTTTAAATATG
Found at i:85672260 original size:8 final size:9
Alignment explanation
Indices: 85672222--85672263 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
85672212 GTTAGATTTA
85672222 TTATAATAT
1 TTATAATAT
*
85672231 CTATAATATT
1 TTATAATA-T
85672241 TTAATAATAT
1 TT-ATAATAT
85672251 TTATAA-AT
1 TTATAATAT
85672259 TTATA
1 TTATA
85672264 TCAATTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
8 7 0.24
9 11 0.38
10 5 0.17
11 6 0.21
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (9 bp):
TTATAATAT
Found at i:85672317 original size:17 final size:16
Alignment explanation
Indices: 85672286--85672316 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
85672276 TTTTTAAATA
85672286 TTTTTTTATAATTTTC
1 TTTTTTTATAATTTTC
*
85672302 TTTTTTTATGATTTT
1 TTTTTTTATAATTTT
85672317 TAATATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.16, C:0.03, G:0.03, T:0.77
Consensus pattern (16 bp):
TTTTTTTATAATTTTC
Found at i:85673521 original size:21 final size:20
Alignment explanation
Indices: 85673476--85673514 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
85673466 TTTATTTTCC
*
85673476 ATTTTCCTCCTTCTCCCTCT
1 ATTTTCCTCCTTCTCCATCT
85673496 ATTTTCCTCCCTTCTCCAT
1 ATTTTCCT-CCTTCTCCAT
85673515 TTCTTTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.08, C:0.44, G:0.00, T:0.49
Consensus pattern (20 bp):
ATTTTCCTCCTTCTCCATCT
Found at i:85677564 original size:16 final size:16
Alignment explanation
Indices: 85677537--85677586 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
85677527 TTTTAACTTC
85677537 AAACTC-AAATTATCA
1 AAACTCAAAATTATCA
* *
85677552 AAACTCAAAATTAAACC
1 AAACTCAAAATT-ATCA
*
85677569 AAA-TCAAAATTATTA
1 AAACTCAAAATTATCA
85677584 AAA
1 AAA
85677587 TTTTCTTTTT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
15 10 0.36
16 13 0.46
17 5 0.18
ACGTcount: A:0.60, C:0.16, G:0.00, T:0.24
Consensus pattern (16 bp):
AAACTCAAAATTATCA
Found at i:85678468 original size:26 final size:27
Alignment explanation
Indices: 85678419--85678469 Score: 77
Period size: 26 Copynumber: 1.9 Consensus size: 27
85678409 AGGGGTGGTG
* *
85678419 CCTATTTGATAAGTGGCACCAGTGACC
1 CCTATCTGATAAGGGGCACCAGTGACC
85678446 CCTATCTGAT-AGGGGCACCAGTGA
1 CCTATCTGATAAGGGGCACCAGTGA
85678470 AGCAATTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 13 0.59
27 9 0.41
ACGTcount: A:0.25, C:0.25, G:0.25, T:0.24
Consensus pattern (27 bp):
CCTATCTGATAAGGGGCACCAGTGACC
Found at i:85678744 original size:25 final size:26
Alignment explanation
Indices: 85678698--85678746 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
85678688 GTTTTTAATT
*
85678698 TATTTTAAAGTTATTTTGTTAGTTAC
1 TATTATAAAGTTATTTTGTTAGTTAC
85678724 TATTATAAA-TTA-TTTGTTTAGTT
1 TATTATAAAGTTATTTTG-TTAGTT
85678747 TAATGTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 9 0.43
26 8 0.38
ACGTcount: A:0.29, C:0.02, G:0.10, T:0.59
Consensus pattern (26 bp):
TATTATAAAGTTATTTTGTTAGTTAC
Found at i:85678749 original size:54 final size:54
Alignment explanation
Indices: 85678691--85678960 Score: 226
Period size: 54 Copynumber: 5.1 Consensus size: 54
85678681 TTACATTGTT
85678691 TTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTAG
1 TTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTAG
* * * * * * * *
85678745 TTTAATGTT-TATT---GTGA-TTTGTTAAGTTA-TGAATGT-AATTTTTTATTAATT
1 TTTAAT-TTATTTTAAAGTTATTTTGTT-AGTTACT-ATTATAAATTATTTGTTTA-G
85678796 TTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTAG
1 TTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTAG
* * * * * * * *
85678850 TTTAATGTT-TATT---GTGA-TTTGTTAAGTTA-TGAATGT-AATTTTTTATTAATT
1 TTTAAT-TTATTTTAAAGTTATTTTGTT-AGTTACT-ATTATAAATTATTTGTTTA-G
85678901 TTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTAG
1 TTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTAG
85678955 TTTAAT
1 TTTAAT
85678961 GTTTATTGTG
Statistics
Matches: 162, Mismatches: 32, Indels: 44
0.68 0.13 0.18
Matches are distributed among these distances:
50 38 0.23
51 40 0.25
54 46 0.28
55 38 0.23
ACGTcount: A:0.29, C:0.01, G:0.11, T:0.59
Consensus pattern (54 bp):
TTTAATTTATTTTAAAGTTATTTTGTTAGTTACTATTATAAATTATTTGTTTAG
Found at i:85678773 original size:51 final size:51
Alignment explanation
Indices: 85678712--85678983 Score: 193
Period size: 51 Copynumber: 5.2 Consensus size: 51
85678702 TTAAAGTTAT
85678712 TTTGTT-AGTTACTATTATAAATTATTTGTTTAGTTTAATGTTTATTGTGA
1 TTTGTTAAGTTACTATTATAAATTATTTGTTTAGTTTAATGTTTATTGTGA
*** * * ** *
85678762 TTTGTTAAGTTA-TGAATGTAATTTTTTATTAATTTTTAATTT-AT-TTTAAAGTTA
1 TTTGTTAAGTTACT--AT-T-ATAAATTATT--TGTTTAGTTTAATGTTTATTGTGA
*
85678816 TTT-TGTTAGTTACTATTATAAATTATTTGTTTAGTTTAATGTTTATTGTGA
1 TTTGT-TAAGTTACTATTATAAATTATTTGTTTAGTTTAATGTTTATTGTGA
*** * * ** *
85678867 TTTGTTAAGTTA-TGAATGTAATTTTTTATTAATTTTTAATTT-AT-TTTAAAGTTA
1 TTTGTTAAGTTACT--AT-T-ATAAATTATT--TGTTTAGTTTAATGTTTATTGTGA
*
85678921 TTT-TGTTAGTTACTATTATAAATTATTTGTTTAGTTTAATGTTTATTGTGA
1 TTTGT-TAAGTTACTATTATAAATTATTTGTTTAGTTTAATGTTTATTGTGA
85678972 TTTGTTAAGTTA
1 TTTGTTAAGTTA
85678984 TGAATGTAAT
Statistics
Matches: 163, Mismatches: 36, Indels: 45
0.67 0.15 0.18
Matches are distributed among these distances:
49 16 0.10
50 12 0.07
51 51 0.31
52 8 0.05
53 8 0.05
54 46 0.28
55 6 0.04
56 16 0.10
ACGTcount: A:0.28, C:0.01, G:0.12, T:0.59
Consensus pattern (51 bp):
TTTGTTAAGTTACTATTATAAATTATTTGTTTAGTTTAATGTTTATTGTGA
Done.