Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A13
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: 109233746
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2708888 characters in sequence are not A, C, G, or T
File 24 of 332
Found at i:6904995 original size:37 final size:37
Alignment explanation
Indices: 6904945--6905015 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
6904935 ACTCAATCAT
6904945 ATATTTGTGTCTAAATCAGCTAAAATCCAAAATATTA
1 ATATTTGTGTCTAAATCAGCTAAAATCCAAAATATTA
6904982 ATATTTGTGTCTAAATCAGCTAAAATCCAAAATA
1 ATATTTGTGTCTAAATCAGCTAAAATCCAAAATA
6905016 ATATTTACCA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.44, C:0.14, G:0.08, T:0.34
Consensus pattern (37 bp):
ATATTTGTGTCTAAATCAGCTAAAATCCAAAATATTA
Found at i:6906447 original size:21 final size:22
Alignment explanation
Indices: 6906427--6906472 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
6906417 CATTCTATAT
6906427 TAAA-CTTA-TTATATCAAATA
1 TAAATCTTATTTATATCAAATA
*
6906447 TAAATCTTATTTATATTAAATA
1 TAAATCTTATTTATATCAAATA
6906469 -AAAT
1 TAAAT
6906473 ACTAAATTAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 4 0.17
21 8 0.35
22 11 0.48
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (22 bp):
TAAATCTTATTTATATCAAATA
Found at i:6907628 original size:40 final size:40
Alignment explanation
Indices: 6907554--6907631 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 40
6907544 TATGAACTTT
* * *
6907554 AATTATTGATTTTTACTAATTAGCTGCATTTAAATTATTA
1 AATTATTAATTTTTACTAATTACCTGCATATAAATTATTA
6907594 AATTATTAATTTTTACTAATT-CCT-CATAAATAAATTAT
1 AATTATTAATTTTTACTAATTACCTGCAT--ATAAATTAT
6907632 CGAGTTGATA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
38 3 0.09
39 2 0.06
40 28 0.85
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (40 bp):
AATTATTAATTTTTACTAATTACCTGCATATAAATTATTA
Found at i:6908021 original size:12 final size:12
Alignment explanation
Indices: 6908004--6908038 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
6907994 TTCCATTAAA
6908004 AAAAGAAAAAAG
1 AAAAGAAAAAAG
6908016 AAAAGAAAAAA-
1 AAAAGAAAAAAG
*
6908027 AAAAGGAAAAAG
1 AAAAGAAAAAAG
6908039 GAAACTGAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
11 10 0.48
12 11 0.52
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (12 bp):
AAAAGAAAAAAG
Found at i:6911212 original size:19 final size:20
Alignment explanation
Indices: 6911190--6911234 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
6911180 GGTCTGCTGA
6911190 TTTT-AAACTTCTCTGTGAT
1 TTTTGAAACTTCTCTGTGAT
*
6911209 TTTTGGTAACTTCTCTGTGAT
1 TTTT-GAAACTTCTCTGTGAT
6911230 TTTTG
1 TTTTG
6911235 GTTTTCTCTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
21 18 0.78
ACGTcount: A:0.16, C:0.13, G:0.16, T:0.56
Consensus pattern (20 bp):
TTTTGAAACTTCTCTGTGAT
Found at i:6911221 original size:21 final size:21
Alignment explanation
Indices: 6911195--6911236 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6911185 GCTGATTTTA
6911195 AACTTCTCTGTGATTTTTGGT
1 AACTTCTCTGTGATTTTTGGT
6911216 AACTTCTCTGTGATTTTTGGT
1 AACTTCTCTGTGATTTTTGGT
6911237 TTTCTCTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.19, T:0.52
Consensus pattern (21 bp):
AACTTCTCTGTGATTTTTGGT
Found at i:6916094 original size:30 final size:32
Alignment explanation
Indices: 6916058--6916126 Score: 81
Period size: 31 Copynumber: 2.2 Consensus size: 32
6916048 GGTTTCATTT
** *
6916058 CAGTCACTCAAC-TT-TCAAAAAGTTACAAAA
1 CAGTCACTCAACATTAAAAAAAAGTGACAAAA
6916088 CAGTCAC-CAACATTAAAAAAAAGTGACAAAA
1 CAGTCACTCAACATTAAAAAAAAGTGACAAAA
*
6916119 TAGTCACT
1 CAGTCACT
6916127 GATTAACGGT
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
29 4 0.12
30 9 0.28
31 19 0.59
ACGTcount: A:0.49, C:0.22, G:0.09, T:0.20
Consensus pattern (32 bp):
CAGTCACTCAACATTAAAAAAAAGTGACAAAA
Found at i:6916682 original size:6 final size:6
Alignment explanation
Indices: 6916672--6916722 Score: 75
Period size: 6 Copynumber: 8.5 Consensus size: 6
6916662 GTCAGTTTCA
* * *
6916672 ATTTTA ATTTTG ATTTTG ATTTTG ATTTTG ATTTTT ATTTCG ATTTTG
1 ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG ATTTTG
6916720 ATT
1 ATT
6916723 ACAATTTTGA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 40 1.00
ACGTcount: A:0.20, C:0.02, G:0.12, T:0.67
Consensus pattern (6 bp):
ATTTTG
Found at i:6916771 original size:18 final size:18
Alignment explanation
Indices: 6916750--6916784 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6916740 ACTGATTCTG
6916750 ATTTAGATTTCGATTTCA
1 ATTTAGATTTCGATTTCA
* *
6916768 ATTTTGATTTTGATTTC
1 ATTTAGATTTCGATTTC
6916785 GATCTCGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.23, C:0.09, G:0.11, T:0.57
Consensus pattern (18 bp):
ATTTAGATTTCGATTTCA
Found at i:6916776 original size:30 final size:29
Alignment explanation
Indices: 6916742--6916826 Score: 82
Period size: 30 Copynumber: 2.8 Consensus size: 29
6916732 AAACACTCAC
*
6916742 TGATTCTGATTTAGATTTCGATTTCA-ATTT
1 TGATT-TGATTTAGATTTCGATTT-ATAATT
* *
6916772 TGATTTTGATTTCGATCTCGATTTATAATT
1 TGA-TTTGATTTAGATTTCGATTTATAATT
* *
6916802 AGAATTTGATTTTGATTTCGATTTA
1 TG-ATTTGATTTAGATTTCGATTTA
6916827 GGGTTACTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
29 1 0.02
30 42 0.91
31 3 0.07
ACGTcount: A:0.25, C:0.08, G:0.14, T:0.53
Consensus pattern (29 bp):
TGATTTGATTTAGATTTCGATTTATAATT
Found at i:6917038 original size:64 final size:64
Alignment explanation
Indices: 6916936--6917139 Score: 318
Period size: 64 Copynumber: 3.2 Consensus size: 64
6916926 TGCATGATGT
* * * *
6916936 TCATTGTTTGTATTTTCCATTGTACGAATGTCATTATCAAACTGATGTTTATTGTGTATATCTG
1 TCATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTG
* *
6917000 CCATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGAGTATATCTG
1 TCATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTG
* * *
6917064 TTATTGTTTGTATCTGCCACTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATATG
1 TCATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTG
*
6917128 TTATTGTTTGTA
1 TCATTGTTTGTA
6917140 CCCAAGCTCC
Statistics
Matches: 129, Mismatches: 11, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
64 129 1.00
ACGTcount: A:0.24, C:0.13, G:0.17, T:0.47
Consensus pattern (64 bp):
TCATTGTTTGTATCTGCCATTGTATGAATGCCATTATCAAACTGATGTTTATTGTGTATATCTG
Found at i:6919194 original size:40 final size:40
Alignment explanation
Indices: 6919144--6919247 Score: 172
Period size: 40 Copynumber: 2.6 Consensus size: 40
6919134 TAGTGAATGT
* *
6919144 TTTTTTAATATGCATGCACTGATTGTTGGTGTGTTGAATA
1 TTTTTTAATATGCATGCAGTGATTGTTAGTGTGTTGAATA
**
6919184 TTTTTTAATATGCATGCAGTGATTGTTAGTGTGTTGCCTA
1 TTTTTTAATATGCATGCAGTGATTGTTAGTGTGTTGAATA
6919224 TTTTTTAATATGCATGCAGTGATT
1 TTTTTTAATATGCATGCAGTGATT
6919248 TTTTTATAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 60 1.00
ACGTcount: A:0.22, C:0.09, G:0.21, T:0.48
Consensus pattern (40 bp):
TTTTTTAATATGCATGCAGTGATTGTTAGTGTGTTGAATA
Found at i:6919949 original size:21 final size:21
Alignment explanation
Indices: 6919919--6919965 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
6919909 AAGTTGGTGT
*
6919919 CCCAATTCAGCAACAGGCTAC
1 CCCAAATCAGCAACAGGCTAC
* *
6919940 CCCAAATCAGCAAGAGGGTAC
1 CCCAAATCAGCAACAGGCTAC
6919961 CCCAA
1 CCCAA
6919966 CTCAACAGGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.36, G:0.17, T:0.11
Consensus pattern (21 bp):
CCCAAATCAGCAACAGGCTAC
Found at i:6920474 original size:18 final size:18
Alignment explanation
Indices: 6920451--6920487 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
6920441 TTCTAACAAC
*
6920451 TGTGTGACTATTGAGAAA
1 TGTGTGACAATTGAGAAA
*
6920469 TGTGTGAGAATTGAGAAA
1 TGTGTGACAATTGAGAAA
6920487 T
1 T
6920488 ACATATGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.35, C:0.03, G:0.30, T:0.32
Consensus pattern (18 bp):
TGTGTGACAATTGAGAAA
Found at i:6921273 original size:3 final size:3
Alignment explanation
Indices: 6921258--6921310 Score: 63
Period size: 3 Copynumber: 18.0 Consensus size: 3
6921248 TCATTTTTCC
* * * *
6921258 TCT TCT CCT TCT TCT TCT TCT TCT TCT CCT TCT CCT CCT TCT T-T TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
6921305 TCT TCT
1 TCT TCT
6921311 ACTTTTTTTT
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
2 2 0.05
3 41 0.95
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (3 bp):
TCT
Found at i:6927274 original size:21 final size:21
Alignment explanation
Indices: 6927245--6927287 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6927235 TCAGACAAGC
* *
6927245 TGTATTCCACAACAGGTGGAG
1 TGTACTCCAAAACAGGTGGAG
6927266 TGTACTCCAAAACAGGTGGAG
1 TGTACTCCAAAACAGGTGGAG
6927287 T
1 T
6927288 TTGAGCATGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.30, C:0.19, G:0.28, T:0.23
Consensus pattern (21 bp):
TGTACTCCAAAACAGGTGGAG
Found at i:6932350 original size:25 final size:24
Alignment explanation
Indices: 6932279--6932359 Score: 67
Period size: 25 Copynumber: 3.3 Consensus size: 24
6932269 CATCATGCAC
*
6932279 TAAA-AACATTAAAATAAACATAT
1 TAAATAACATTAAAATAAATATAT
* * *
6932302 CTCAACAA-ATTAAAAAAAATTATACT
1 -TAAATAACATTAAAATAAA-TATA-T
6932328 TAAATAACATTAAAATAAATATAAT
1 TAAATAACATTAAAATAAATAT-AT
*
6932353 TTAATAA
1 TAAATAA
6932360 GAAAATGACT
Statistics
Matches: 45, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
24 13 0.29
25 20 0.44
26 12 0.27
ACGTcount: A:0.62, C:0.09, G:0.00, T:0.30
Consensus pattern (24 bp):
TAAATAACATTAAAATAAATATAT
Found at i:6933056 original size:26 final size:26
Alignment explanation
Indices: 6933027--6933082 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
6933017 TGGTACAAAT
6933027 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6933053 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
6933079 TGAT
1 TGAT
6933083 GGGCATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:6940054 original size:31 final size:32
Alignment explanation
Indices: 6939996--6940090 Score: 84
Period size: 31 Copynumber: 3.0 Consensus size: 32
6939986 TTAACTTCTT
* * * *
6939996 CAACATAAACTTAAATTAATTTGAATTCAAAA
1 CAACTTAAAGTTAAAATGATTTGAATTCAAAA
* * * *
6940028 CAATTTATATTTAAAATGATTT-AATTCTAAA
1 CAACTTAAAGTTAAAATGATTTGAATTCAAAA
* * *
6940059 TAACTTAAAGTTAAAATGATTAGAGTTCAAAA
1 CAACTTAAAGTTAAAATGATTTGAATTCAAAA
6940091 TAAATAGAAC
Statistics
Matches: 48, Mismatches: 14, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
31 25 0.52
32 23 0.48
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.36
Consensus pattern (32 bp):
CAACTTAAAGTTAAAATGATTTGAATTCAAAA
Found at i:6940633 original size:9 final size:9
Alignment explanation
Indices: 6940619--6940649 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
6940609 TTCTTATATT
6940619 TTTTTTTAC
1 TTTTTTTAC
6940628 TTTTTTTAC
1 TTTTTTTAC
6940637 -TTTTTTAC
1 TTTTTTTAC
6940645 TTTTT
1 TTTTT
6940650 GTTTCTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.38
9 13 0.62
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (9 bp):
TTTTTTTAC
Found at i:6940640 original size:7 final size:8
Alignment explanation
Indices: 6940620--6940649 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
6940610 TCTTATATTT
6940620 TTTTTTAC
1 TTTTTTAC
6940628 TTTTTTTAC
1 -TTTTTTAC
6940637 TTTTTTAC
1 TTTTTTAC
6940645 TTTTT
1 TTTTT
6940650 GTTTCTTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.80
Consensus pattern (8 bp):
TTTTTTAC
Found at i:6940642 original size:17 final size:16
Alignment explanation
Indices: 6940620--6940677 Score: 62
Period size: 17 Copynumber: 3.4 Consensus size: 16
6940610 TCTTATATTT
6940620 TTTTTTACTTTTTTTAC
1 TTTTTTACTTTTTTT-C
6940637 TTTTTTACTTTTTGTTTC
1 TTTTTTAC-TTTT-TTTC
* *
6940655 TTTCTTAGATTTTTTTC
1 TTTTTTA-CTTTTTTTC
6940672 TTTTTT
1 TTTTTT
6940678 GAGTTTTATA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
17 17 0.49
18 15 0.43
19 3 0.09
ACGTcount: A:0.09, C:0.10, G:0.03, T:0.78
Consensus pattern (16 bp):
TTTTTTACTTTTTTTC
Found at i:6940703 original size:18 final size:19
Alignment explanation
Indices: 6940682--6940728 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
6940672 TTTTTTGAGT
6940682 TTTATATTATTTTA-TTAA
1 TTTATATTATTTTATTTAA
* *
6940700 TTTATTTTA-CTTATTTAA
1 TTTATATTATTTTATTTAA
6940718 TTTATATTATT
1 TTTATATTATT
6940729 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
17 3 0.13
18 20 0.87
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTATATTATTTTATTTAA
Found at i:6940706 original size:13 final size:12
Alignment explanation
Indices: 6940683--6940735 Score: 52
Period size: 13 Copynumber: 4.0 Consensus size: 12
6940673 TTTTTGAGTT
6940683 TTATATTATTTTA
1 TTAT-TTATTTTA
6940696 TTAATTTATTTTA
1 TT-ATTTATTTTA
6940709 CTTATTTAATTTATA
1 -TTATTT-ATTT-TA
*
6940724 TTATTAATTTTA
1 TTATTTATTTTA
6940736 AAAAATTTGT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
12 2 0.06
13 18 0.51
14 13 0.37
15 2 0.06
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (12 bp):
TTATTTATTTTA
Found at i:6940800 original size:22 final size:23
Alignment explanation
Indices: 6940718--6940805 Score: 83
Period size: 23 Copynumber: 3.9 Consensus size: 23
6940708 ACTTATTTAA
* **
6940718 TTTATATTATTAATTTTAAAAAA
1 TTTATATTATTATTTTTAAAATT
* * *
6940741 TTTGTAATA-TATATTTAAAATGT
1 TTTATATTATTATTTTTAAAAT-T
*
6940764 TTTATAATATT-TTTTTAAAATT
1 TTTATATTATTATTTTTAAAATT
6940786 TTTA-ATTATTATTTTTAAAA
1 TTTATATTATTATTTTTAAAA
6940806 ATATTTTTAA
Statistics
Matches: 53, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
21 5 0.09
22 23 0.43
23 24 0.45
24 1 0.02
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTTATATTATTATTTTTAAAATT
Found at i:6940868 original size:37 final size:35
Alignment explanation
Indices: 6940827--6940897 Score: 106
Period size: 37 Copynumber: 2.0 Consensus size: 35
6940817 TTTATATATA
*
6940827 TATTTGTGAAATTAATTATTTATAAATTTTAAAAAAG
1 TATTTGTCAAATTAATT-TTTA-AAATTTTAAAAAAG
*
6940864 TATTTTTCAAATTAATTTTTAAAATTTTAAAAAA
1 TATTTGTCAAATTAATTTTTAAAATTTTAAAAAA
6940898 AATAATTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
35 13 0.41
36 4 0.12
37 15 0.47
ACGTcount: A:0.46, C:0.01, G:0.04, T:0.48
Consensus pattern (35 bp):
TATTTGTCAAATTAATTTTTAAAATTTTAAAAAAG
Found at i:6940960 original size:17 final size:17
Alignment explanation
Indices: 6940940--6940986 Score: 60
Period size: 17 Copynumber: 2.7 Consensus size: 17
6940930 TGAAGTCTAA
6940940 TTTTTTTCTTATTTTAT
1 TTTTTTTCTTATTTTAT
6940957 TTTTTTATC-TATTTTAT
1 TTTTTT-TCTTATTTTAT
*
6940974 TTATTTTTATTAT
1 TT-TTTTTCTTAT
6940987 ACATTTCAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 17 0.65
18 9 0.35
ACGTcount: A:0.17, C:0.04, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTTTTCTTATTTTAT
Found at i:6941523 original size:77 final size:76
Alignment explanation
Indices: 6941442--6941585 Score: 170
Period size: 77 Copynumber: 1.9 Consensus size: 76
6941432 TTTGTTTTTA
* *
6941442 TTTTTTAATAAT-ATAAAACATT-TAAACATTT-AAATTTTTAAATAAAATTTGTATAAAAA-AT
1 TTTTTTAAAAATAATAAAA-ATTAT-AA-ATTTCAAAATTTTAAATAAAATTT-TA-AAAAATAT
6941503 TTAAAAAATGTTAAAT
61 TTAAAAAATGTTAAAT
**
6941519 TTTTTTAAAAATAAATAAAAATTATAAATTTCAAAATTTTATGTAAAATTTTAAAAAATATTTAA
1 TTTTTTAAAAAT-AATAAAAATTATAAATTTCAAAATTTTAAATAAAATTTTAAAAAATATTTAA
6941584 AA
65 AA
6941586 TCATTTAAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 10
0.81 0.06 0.14
Matches are distributed among these distances:
76 5 0.09
77 25 0.43
78 21 0.36
79 7 0.12
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (76 bp):
TTTTTTAAAAATAATAAAAATTATAAATTTCAAAATTTTAAATAAAATTTTAAAAAATATTTAAA
AAATGTTAAAT
Found at i:6941584 original size:19 final size:19
Alignment explanation
Indices: 6941562--6941675 Score: 51
Period size: 19 Copynumber: 5.9 Consensus size: 19
6941552 AAATTTTATG
6941562 TAAAATTTTAAAAAATATT
1 TAAAATTTTAAAAAATATT
6941581 TAAAATCATTT--AAAATATT
1 TAAAAT--TTTAAAAAATATT
* *
6941600 AAAAAATATTTTAAATAAT-TT
1 --TAAA-ATTTTAAAAAATATT
**
6941621 TAAATAATTTT-AAATGT-TT
1 T-AA-AATTTTAAAAAATATT
* *
6941640 TATAATATTAAAAATATATT
1 TAAAATTTTAAAAA-ATATT
*
6941660 TAATA-TTTAAAAAATA
1 TAAAATTTTAAAAAATA
6941676 AGTGAAAATA
Statistics
Matches: 70, Mismatches: 13, Indels: 25
0.65 0.12 0.23
Matches are distributed among these distances:
17 5 0.07
18 7 0.10
19 28 0.40
20 15 0.21
21 9 0.13
22 6 0.09
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.44
Consensus pattern (19 bp):
TAAAATTTTAAAAAATATT
Found at i:6941585 original size:10 final size:10
Alignment explanation
Indices: 6941563--6941634 Score: 55
Period size: 10 Copynumber: 7.2 Consensus size: 10
6941553 AATTTTATGT
6941563 AAAAT-TTTAA
1 AAAATATTT-A
6941573 AAAATATTT-
1 AAAATATTTA
6941582 AAAATCATTT-
1 AAAAT-ATTTA
*
6941592 AAAATATTAA
1 AAAATATTTA
6941602 AAAATATTTTA
1 AAAATA-TTTA
6941613 AATAAT-TTTA
1 AA-AATATTTA
6941623 AATAAT-TTTA
1 AA-AATATTTA
6941633 AA
1 AA
6941635 TGTTTTATAA
Statistics
Matches: 55, Mismatches: 2, Indels: 10
0.82 0.03 0.15
Matches are distributed among these distances:
9 8 0.15
10 36 0.65
11 8 0.15
12 3 0.05
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.42
Consensus pattern (10 bp):
AAAATATTTA
Found at i:6941595 original size:29 final size:30
Alignment explanation
Indices: 6941562--6941634 Score: 94
Period size: 29 Copynumber: 2.4 Consensus size: 30
6941552 AAATTTTATG
*
6941562 TAAAATTTTAAAAAATATTTAAAATCA-TT
1 TAAAATTTTAAAAAATATTTAAAATAATTT
* *
6941591 TAAAATATTAAAAAATATTTTAAATAATTT
1 TAAAATTTTAAAAAATATTTAAAATAATTT
6941621 TAAATAATTTTAAA
1 T-AA-AATTTTAAA
6941635 TGTTTTATAA
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
29 24 0.65
30 3 0.08
31 2 0.05
32 8 0.22
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.42
Consensus pattern (30 bp):
TAAAATTTTAAAAAATATTTAAAATAATTT
Found at i:6941635 original size:10 final size:10
Alignment explanation
Indices: 6941603--6941635 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
6941593 AAATATTAAA
6941603 AAAT-ATTTT
1 AAATAATTTT
6941612 AAATAATTTT
1 AAATAATTTT
6941622 AAATAATTTT
1 AAATAATTTT
6941632 AAAT
1 AAAT
6941636 GTTTTATAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 4 0.17
10 19 0.83
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (10 bp):
AAATAATTTT
Found at i:6945223 original size:30 final size:30
Alignment explanation
Indices: 6945183--6945275 Score: 123
Period size: 30 Copynumber: 3.1 Consensus size: 30
6945173 GGTCAATTGG
*
6945183 ACTCGAACCACCTATATCCGGGTGATATAA
1 ACTCGAACCACCTATGTCCGGGTGATATAA
* * *
6945213 ACTTGAACCACCCATGTTCGGGTGATATAA
1 ACTCGAACCACCTATGTCCGGGTGATATAA
* * *
6945243 ACTCGAACCAACTATGTCCGGGTTATATGA
1 ACTCGAACCACCTATGTCCGGGTGATATAA
6945273 ACT
1 ACT
6945276 GCTCTGGGAC
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 53 1.00
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.26
Consensus pattern (30 bp):
ACTCGAACCACCTATGTCCGGGTGATATAA
Found at i:6946512 original size:46 final size:46
Alignment explanation
Indices: 6946462--6946607 Score: 141
Period size: 53 Copynumber: 3.0 Consensus size: 46
6946452 TGGACCATGT
6946462 CATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCTATGG
1 CATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCTATGG
* * * * *
6946508 CATCAGAGATATGTGATTATGTGCTTCCGTATAAGACCATATCTGGGATATGG
1 CATC----A-ATGTGA-TATGTG-ATCTGTGTAAGACCATAGCTGGGCTATGG
* * *
6946561 CATCAGTGTGATATGTGAT-TCGTGTAAGACCATGGTTGGGCTATGG
1 CATCAATGTGATATGTGATCT-GTGTAAGACCATAGCTGGGCTATGG
6946607 C
1 C
6946608 TACGGTGTGT
Statistics
Matches: 79, Mismatches: 13, Indels: 16
0.73 0.12 0.15
Matches are distributed among these distances:
46 26 0.33
47 6 0.08
48 5 0.06
49 1 0.01
50 1 0.01
51 6 0.08
52 6 0.08
53 28 0.35
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (46 bp):
CATCAATGTGATATGTGATCTGTGTAAGACCATAGCTGGGCTATGG
Found at i:6946616 original size:46 final size:47
Alignment explanation
Indices: 6946441--6946626 Score: 141
Period size: 46 Copynumber: 3.9 Consensus size: 47
6946431 ATTGACGGAA
* * *
6946441 AAGACCATGGTTGGACCATGTCATCA-A-TGTGATATGTGA-TCTGTGT
1 AAGACCAT-GTTGGGCTATGGCATCAGAGTGTGATATGTGATTC-GTGT
* * *
6946487 AAGACCATAGCTGGGCTATGGCATCAGAGATATGTGATTATGTGCTTCCGTAT
1 AAGACCAT-GTTGGGCTATGGCATCAGAG---TGTGA-TATGTGATT-CGTGT
* *
6946540 AAGACCATATCTGGGATATGGCATC--AGTGTGATATGTGATTCGTGT
1 AAGACCATGT-TGGGCTATGGCATCAGAGTGTGATATGTGATTCGTGT
* *
6946586 AAGACCATGGTTGGGCTATGGC-TACGGTGTGTGATATGTGA
1 AAGACCAT-GTTGGGCTATGGCAT-CAGAGTGTGATATGTGA
6946627 CTATGTACAA
Statistics
Matches: 112, Mismatches: 15, Indels: 24
0.74 0.10 0.16
Matches are distributed among these distances:
45 1 0.01
46 44 0.39
47 10 0.09
48 18 0.16
51 7 0.06
52 6 0.05
53 25 0.22
54 1 0.01
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (47 bp):
AAGACCATGTTGGGCTATGGCATCAGAGTGTGATATGTGATTCGTGT
Found at i:6950341 original size:21 final size:20
Alignment explanation
Indices: 6950300--6950342 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 20
6950290 TTAAAAAAAG
*
6950300 AATTTAAAAATAATATTTAA
1 AATTTAAAAATAATATATAA
6950320 AATTGTAAAAAT-ATATCATAA
1 AATT-TAAAAATAATAT-ATAA
6950341 AA
1 AA
6950343 CATTTTAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (20 bp):
AATTTAAAAATAATATATAA
Found at i:6950528 original size:28 final size:27
Alignment explanation
Indices: 6950468--6950530 Score: 67
Period size: 26 Copynumber: 2.3 Consensus size: 27
6950458 TTTTAAAAAA
* * *
6950468 TATTTAAAATATTATGATTTCTTATAT
1 TATTTAAAAAATTATAATTTCTTAAAT
6950495 TA-TTAAAAAATTATAATATT-TTAAAT
1 TATTTAAAAAATTATAAT-TTCTTAAAT
6950521 GTATTTAAAA
1 -TATTTAAAA
6950531 TTTGTATTTA
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
26 18 0.60
27 6 0.20
28 6 0.20
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (27 bp):
TATTTAAAAAATTATAATTTCTTAAAT
Found at i:6950538 original size:13 final size:13
Alignment explanation
Indices: 6950520--6950546 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
6950510 ATATTTTAAA
6950520 TGTATTTAAAATT
1 TGTATTTAAAATT
6950533 TGTATTTAAAATT
1 TGTATTTAAAATT
6950546 T
1 T
6950547 TAAAAAATAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.56
Consensus pattern (13 bp):
TGTATTTAAAATT
Found at i:6950750 original size:18 final size:18
Alignment explanation
Indices: 6950708--6950754 Score: 55
Period size: 16 Copynumber: 2.8 Consensus size: 18
6950698 TTATAAAGTA
*
6950708 ATATTT-AATATATATTT
1 ATATTTAAATTTATATTT
*
6950725 -T-TTAAAATTTATATTT
1 ATATTTAAATTTATATTT
6950741 ATATTTAAATTTAT
1 ATATTTAAATTTAT
6950755 TAATAGTCAC
Statistics
Matches: 24, Mismatches: 3, Indels: 5
0.75 0.09 0.16
Matches are distributed among these distances:
15 2 0.08
16 11 0.46
17 1 0.04
18 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
ATATTTAAATTTATATTT
Found at i:6951049 original size:22 final size:22
Alignment explanation
Indices: 6951020--6951069 Score: 66
Period size: 21 Copynumber: 2.3 Consensus size: 22
6951010 TAAAAAATAT
* *
6951020 TTTTAAAAATAATAATTAAA-A
1 TTTTAAAAAAAATAATAAAACA
*
6951041 TTTTAAAAAAAATTATAAAACA
1 TTTTAAAAAAAATAATAAAACA
6951063 TTTTAAA
1 TTTTAAA
6951070 TACATATTAC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
21 17 0.68
22 8 0.32
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTTAAAAAAAATAATAAAACA
Found at i:6951135 original size:36 final size:37
Alignment explanation
Indices: 6951095--6951168 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 37
6951085 TTTTAAAATT
*
6951095 AATAATAT-AAA-TTAAATAAGCAAAATAAAT-TAAGAA
1 AATAATATAAAACTTAAAAAAG-AAAA-AAATCTAAGAA
6951131 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
1 AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
6951168 A
1 A
6951169 GAGCAAAATA
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
36 12 0.35
37 14 0.41
38 8 0.24
ACGTcount: A:0.69, C:0.04, G:0.05, T:0.22
Consensus pattern (37 bp):
AATAATATAAAACTTAAAAAAGAAAAAAATCTAAGAA
Found at i:6951140 original size:18 final size:18
Alignment explanation
Indices: 6951090--6951141 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
6951080 AAATTTTTTA
*
6951090 AAATTAATAATATAAATT
1 AAATAAATAATATAAATT
** *
6951108 AAATAAGCAAAATAAATT
1 AAATAAATAATATAAATT
6951126 AAGA-AAATAATATAAA
1 AA-ATAAATAATATAAA
6951142 ACTTAAAAAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 25 0.96
19 1 0.04
ACGTcount: A:0.67, C:0.02, G:0.04, T:0.27
Consensus pattern (18 bp):
AAATAAATAATATAAATT
Found at i:6951169 original size:17 final size:17
Alignment explanation
Indices: 6951149--6951190 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
6951139 AAAACTTAAA
*
6951149 AAAGAAAAAAATCTAAG
1 AAAGAAAAAAATATAAG
**
6951166 AAAGAGCAAAATATAAG
1 AAAGAAAAAAATATAAG
6951183 AAA-AAAAA
1 AAAGAAAAA
6951191 GTAAAAAAGT
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 3 0.15
17 17 0.85
ACGTcount: A:0.74, C:0.05, G:0.12, T:0.10
Consensus pattern (17 bp):
AAAGAAAAAAATATAAG
Found at i:6951198 original size:9 final size:9
Alignment explanation
Indices: 6951184--6951233 Score: 61
Period size: 9 Copynumber: 5.8 Consensus size: 9
6951174 AAATATAAGA
6951184 AAAAAAAGT
1 AAAAAAAGT
6951193 -AAAAAAGT
1 AAAAAAAGT
6951201 -AAAAAAGT
1 AAAAAAAGT
6951209 AAAAAATA-T
1 AAAAAA-AGT
*
6951218 AAAAAAAAT
1 AAAAAAAGT
6951227 AAAAAAA
1 AAAAAAA
6951234 ATCTAAGAAC
Statistics
Matches: 38, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
8 17 0.45
9 20 0.53
10 1 0.03
ACGTcount: A:0.82, C:0.00, G:0.06, T:0.12
Consensus pattern (9 bp):
AAAAAAAGT
Found at i:6951204 original size:7 final size:8
Alignment explanation
Indices: 6951185--6951214 Score: 60
Period size: 8 Copynumber: 3.8 Consensus size: 8
6951175 AATATAAGAA
6951185 AAAAAAGT
1 AAAAAAGT
6951193 AAAAAAGT
1 AAAAAAGT
6951201 AAAAAAGT
1 AAAAAAGT
6951209 AAAAAA
1 AAAAAA
6951215 TATAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (8 bp):
AAAAAAGT
Found at i:6953978 original size:21 final size:21
Alignment explanation
Indices: 6953940--6953979 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
6953930 CCATAAACAC
* * *
6953940 AATCTAGAATCTCGAACCCAA
1 AATCTAGAAACCCAAACCCAA
6953961 AATCTAGAAACCCAAACCC
1 AATCTAGAAACCCAAACCC
6953980 TAAACTTGAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.33, G:0.07, T:0.15
Consensus pattern (21 bp):
AATCTAGAAACCCAAACCCAA
Found at i:6954038 original size:14 final size:14
Alignment explanation
Indices: 6954015--6954065 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
6954005 ATAAATATAG
* *
6954015 AATCTCAAACCCTA
1 AATCTTAAACCATA
*
6954029 AATCTTAAACCTTA
1 AATCTTAAACCATA
6954043 AATCTTAAACCATA
1 AATCTTAAACCATA
*
6954057 AACCTTAAA
1 AATCTTAAA
6954066 AACATAACCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
14 33 1.00
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.27
Consensus pattern (14 bp):
AATCTTAAACCATA
Found at i:6954042 original size:7 final size:7
Alignment explanation
Indices: 6954021--6954065 Score: 54
Period size: 7 Copynumber: 6.4 Consensus size: 7
6954011 ATAGAATCTC
*
6954021 AAACCCT
1 AAACCTT
*
6954028 AAATCTT
1 AAACCTT
6954035 AAACCTT
1 AAACCTT
*
6954042 AAATCTT
1 AAACCTT
*
6954049 AAACCAT
1 AAACCTT
6954056 AAACCTT
1 AAACCTT
6954063 AAA
1 AAA
6954066 AACATAACCC
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (7 bp):
AAACCTT
Found at i:6954204 original size:55 final size:55
Alignment explanation
Indices: 6954101--6954204 Score: 129
Period size: 55 Copynumber: 1.9 Consensus size: 55
6954091 CAACATAACA
* * *
6954101 ATAAACCATAAACTAGAACCCATAACACTAAATCCTAAATTTAGAATCTTGAACC
1 ATAAACCATAAACTAGAACCCATAACACTAAATCATAAATCTAAAATCTTGAACC
* * * *
6954156 ATAAACCCTAAACTCA-AACCCATAACTCTCAATCATAAGTCTAAAATCT
1 ATAAACCATAAACT-AGAACCCATAACACTAAATCATAAATCTAAAATCT
6954205 CAAACCCAAA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
55 40 0.98
56 1 0.02
ACGTcount: A:0.46, C:0.26, G:0.04, T:0.24
Consensus pattern (55 bp):
ATAAACCATAAACTAGAACCCATAACACTAAATCATAAATCTAAAATCTTGAACC
Found at i:6956134 original size:11 final size:10
Alignment explanation
Indices: 6956118--6956168 Score: 57
Period size: 11 Copynumber: 4.8 Consensus size: 10
6956108 TTTCCAATAC
6956118 CAAATCATAGT
1 CAAATCAT-GT
*
6956129 CAAATCATTT
1 CAAATCATGT
6956139 CAAATCACTGT
1 CAAATCA-TGT
*
6956150 CGAATCATTGT
1 CAAATCA-TGT
6956161 CAAATCAT
1 CAAATCAT
6956169 AGTTGAACAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
10 9 0.26
11 25 0.74
ACGTcount: A:0.39, C:0.22, G:0.08, T:0.31
Consensus pattern (10 bp):
CAAATCATGT
Found at i:6956144 original size:21 final size:22
Alignment explanation
Indices: 6956118--6956171 Score: 76
Period size: 21 Copynumber: 2.5 Consensus size: 22
6956108 TTTCCAATAC
6956118 CAAATCATAGTCAAATCATT-T
1 CAAATCATAGTCAAATCATTGT
*
6956139 CAAATCACT-GTCGAATCATTGT
1 CAAATCA-TAGTCAAATCATTGT
6956161 CAAATCATAGT
1 CAAATCATAGT
6956172 TGAACAAGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
21 18 0.62
22 11 0.38
ACGTcount: A:0.39, C:0.20, G:0.09, T:0.31
Consensus pattern (22 bp):
CAAATCATAGTCAAATCATTGT
Found at i:6957793 original size:28 final size:28
Alignment explanation
Indices: 6957762--6957815 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
6957752 AACTCTAAAT
*
6957762 CTAAAATATCAAACCCTAAACCTAAAAC
1 CTAAAAGATCAAACCCTAAACCTAAAAC
* * *
6957790 CTAAAAGCTTAAACCCTAAACTTAAA
1 CTAAAAGATCAAACCCTAAACCTAAA
6957816 CATATAACCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.52, C:0.26, G:0.02, T:0.20
Consensus pattern (28 bp):
CTAAAAGATCAAACCCTAAACCTAAAAC
Found at i:6957813 original size:13 final size:13
Alignment explanation
Indices: 6957772--6957816 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
6957762 CTAAAATATC
*
6957772 AAACCCTAAACCT
1 AAACCCTAAACTT
*
6957785 AAAACCTAAAAGCTT
1 AAACCCT-AAA-CTT
6957800 AAACCCTAAACTT
1 AAACCCTAAACTT
6957813 AAAC
1 AAAC
6957817 ATATAACCAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
13 13 0.48
14 6 0.22
15 8 0.30
ACGTcount: A:0.51, C:0.29, G:0.02, T:0.18
Consensus pattern (13 bp):
AAACCCTAAACTT
Found at i:6957825 original size:76 final size:76
Alignment explanation
Indices: 6957727--6957887 Score: 168
Period size: 76 Copynumber: 2.1 Consensus size: 76
6957717 AACCTTGAAT
* * * *
6957727 CCTAAACCATAAACATTAAACCATGAA-CTCTAAATCTAAAAT-ATCAAACCCTAAACCTAAA-A
1 CCTAAA-CTTAAACATTAAACCATAAACCT-TAAATCTAAAATCA-CAAACACTAAACCCAAATA
* *
6957789 CCTAAAAGCTTAAAC
63 -ATAAAAGCGTAAAC
* *
6957804 CCTAAACTTAAACA-TATAACCATAAACCTTAAATTTAGAATCACAAACACTAAACCCAAATAAT
1 CCTAAACTTAAACATTA-AACCATAAACCTTAAATCTAAAATCACAAACACTAAACCCAAATAAT
*
6957868 AAAATCGTAAAC
65 AAAAGCGTAAAC
6957880 CCTAAACT
1 CCTAAACT
6957888 AAAATGGATA
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
75 2 0.03
76 59 0.83
77 10 0.14
ACGTcount: A:0.51, C:0.25, G:0.02, T:0.22
Consensus pattern (76 bp):
CCTAAACTTAAACATTAAACCATAAACCTTAAATCTAAAATCACAAACACTAAACCCAAATAATA
AAAGCGTAAAC
Found at i:6957946 original size:7 final size:7
Alignment explanation
Indices: 6957936--6958010 Score: 57
Period size: 7 Copynumber: 10.7 Consensus size: 7
6957926 ACAATAAATA
6957936 ATAAACC
1 ATAAACC
6957943 ATAAAACC
1 AT-AAACC
*
6957951 -TCTAACAC
1 AT-AAAC-C
6957959 ATA-ACC
1 ATAAACC
*
6957965 ATCAACC
1 ATAAACC
*
6957972 CTAAACC
1 ATAAACC
6957979 -TAAACC
1 ATAAACC
**
6957985 ATAAATT
1 ATAAACC
6957992 ATAAACC
1 ATAAACC
6957999 ATAAACC
1 ATAAACC
6958006 ATAAA
1 ATAAA
6958011 TCTAAAATCA
Statistics
Matches: 53, Mismatches: 10, Indels: 10
0.73 0.14 0.14
Matches are distributed among these distances:
6 9 0.17
7 37 0.70
8 6 0.11
9 1 0.02
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (7 bp):
ATAAACC
Found at i:6958005 original size:21 final size:22
Alignment explanation
Indices: 6957973--6958028 Score: 73
Period size: 21 Copynumber: 2.7 Consensus size: 22
6957963 CCATCAACCC
6957973 TAAACC-TAAACCATAAAT-TA
1 TAAACCATAAACCATAAATCTA
6957993 TAAACCATAAACCATAAATCTA
1 TAAACCATAAACCATAAATCTA
* *
6958015 -AAATCACAAACCAT
1 TAAACCATAAACCAT
6958029 GGACCATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 6 0.19
21 24 0.75
22 2 0.06
ACGTcount: A:0.55, C:0.23, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAACCATAAACCATAAATCTA
Found at i:6958406 original size:7 final size:7
Alignment explanation
Indices: 6958396--6958449 Score: 51
Period size: 7 Copynumber: 7.9 Consensus size: 7
6958386 AACCACAAAC
6958396 CCTTAAA
1 CCTTAAA
6958403 CCTTAAA
1 CCTTAAA
*
6958410 -CTCAAA
1 CCTTAAA
6958416 TCC-TAAA
1 -CCTTAAA
6958423 CCTTAAA
1 CCTTAAA
*
6958430 TCC-CAAA
1 -CCTTAAA
6958437 CCTTAAA
1 CCTTAAA
6958444 CCTTAA
1 CCTTAA
6958450 GATTCGAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 10
0.73 0.08 0.19
Matches are distributed among these distances:
6 9 0.24
7 26 0.68
8 3 0.08
ACGTcount: A:0.43, C:0.31, G:0.00, T:0.26
Consensus pattern (7 bp):
CCTTAAA
Found at i:6958424 original size:20 final size:21
Alignment explanation
Indices: 6958391--6958449 Score: 77
Period size: 21 Copynumber: 2.8 Consensus size: 21
6958381 ACCATAACCA
*
6958391 CAAACCCTTAAACCTTAAA-CT
1 CAAA-CCTTAAACCTTAAATCC
6958412 CAAATCC-TAAACCTTAAATCC
1 CAAA-CCTTAAACCTTAAATCC
6958433 CAAACCTTAAACCTTAA
1 CAAACCTTAAACCTTAA
6958450 GATTCGAAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
20 13 0.38
21 21 0.62
ACGTcount: A:0.44, C:0.32, G:0.00, T:0.24
Consensus pattern (21 bp):
CAAACCTTAAACCTTAAATCC
Found at i:6960146 original size:24 final size:24
Alignment explanation
Indices: 6960118--6960166 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
6960108 TGAAGTTAGG
6960118 AAAAATTTTGAAATAGTGAAATGT
1 AAAAATTTTGAAATAGTGAAATGT
6960142 AAAAATTTTGAAATAGTGAAATGT
1 AAAAATTTTGAAATAGTGAAATGT
6960166 A
1 A
6960167 CTATATATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.51, C:0.00, G:0.16, T:0.33
Consensus pattern (24 bp):
AAAAATTTTGAAATAGTGAAATGT
Found at i:6962263 original size:16 final size:16
Alignment explanation
Indices: 6962195--6962263 Score: 50
Period size: 16 Copynumber: 3.9 Consensus size: 16
6962185 TTGTATGGAT
6962195 ATATGTGATTGATTGGGA
1 ATATGTGATTGATT--GA
*
6962213 ATGTGATGAAATTGATATGA
1 ATATG-TG--ATTGAT-TGA
*
6962233 ATATGTGATTAATTGA
1 ATATGTGATTGATTGA
6962249 A-ATGTGTATTGATTG
1 ATATGTG-ATTGATTG
6962264 GAAACTAGAA
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
15 5 0.12
16 11 0.26
17 5 0.12
18 4 0.10
19 4 0.10
20 6 0.14
21 6 0.14
22 1 0.02
ACGTcount: A:0.33, C:0.00, G:0.26, T:0.41
Consensus pattern (16 bp):
ATATGTGATTGATTGA
Found at i:6962471 original size:28 final size:28
Alignment explanation
Indices: 6962418--6962524 Score: 143
Period size: 28 Copynumber: 4.0 Consensus size: 28
6962408 CACTTTGTGC
6962418 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
6962447 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
6962475 GATACTGGTGTGTTTTGGAGGA-T-TA-
1 TATTCTGGTGTGTTTTGGAGGATTATAT
6962500 TA--CTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
6962525 CTGGTGTGTT
Statistics
Matches: 71, Mismatches: 5, Indels: 8
0.85 0.06 0.10
Matches are distributed among these distances:
23 18 0.25
24 1 0.01
25 3 0.04
26 2 0.03
27 1 0.01
28 28 0.39
29 18 0.25
ACGTcount: A:0.19, C:0.04, G:0.32, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:6962519 original size:51 final size:56
Alignment explanation
Indices: 6962422--6962524 Score: 153
Period size: 51 Copynumber: 1.9 Consensus size: 56
6962412 TTGTGCTATT
6962422 CTGGTGTGTTTTGGATGGATTATATTATTCTGGTGTGTTTGGGAGGATTATATGATA
1 CTGGTGTGTTTTGGATGGATTATATTA-TCTGGTGTGTTTGGGAGGATTATATGATA
*
6962479 CTGGTGTGTTTTGGA-GGA-T-TA-TA-CTGGTGTGTTTTGGAGGATTATA
1 CTGGTGTGTTTTGGATGGATTATATTATCTGGTGTGTTTGGGAGGATTATA
6962525 CTGGTGTGTT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
51 22 0.49
53 2 0.04
54 2 0.04
55 1 0.02
56 3 0.07
57 15 0.33
ACGTcount: A:0.18, C:0.04, G:0.33, T:0.45
Consensus pattern (56 bp):
CTGGTGTGTTTTGGATGGATTATATTATCTGGTGTGTTTGGGAGGATTATATGATA
Found at i:6962533 original size:25 final size:23
Alignment explanation
Indices: 6962422--6962538 Score: 126
Period size: 23 Copynumber: 4.6 Consensus size: 23
6962412 TTGTGCTATT
6962422 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-T-TA-TA
*
6962449 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---AT-T-ATA
6962479 CTGGTGTGTTTTGGAGGATTATA
1 CTGGTGTGTTTTGGAGGATTATA
6962502 CTGGTGTGTTTTGGAGGATTATA
1 CTGGTGTGTTTTGGAGGATTATA
6962525 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
6962539 TTGGACATTT
Statistics
Matches: 82, Mismatches: 2, Indels: 14
0.84 0.02 0.14
Matches are distributed among these distances:
23 40 0.49
24 1 0.01
25 2 0.02
28 18 0.22
29 14 0.17
30 5 0.06
31 2 0.02
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.45
Consensus pattern (23 bp):
CTGGTGTGTTTTGGAGGATTATA
Found at i:6962798 original size:21 final size:21
Alignment explanation
Indices: 6962750--6962801 Score: 59
Period size: 21 Copynumber: 2.5 Consensus size: 21
6962740 ATGTGTCATA
*
6962750 TTTCAGGCACCTTGTGTGTCG
1 TTTCAGGCACCTCGTGTGTCG
*** *
6962771 CAGCAGGCATCTCGTGTGTCG
1 TTTCAGGCACCTCGTGTGTCG
6962792 TTTCAGGCAC
1 TTTCAGGCAC
6962802 TTATGTGTCG
Statistics
Matches: 22, Mismatches: 9, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.13, C:0.27, G:0.29, T:0.31
Consensus pattern (21 bp):
TTTCAGGCACCTCGTGTGTCG
Found at i:6968477 original size:10 final size:10
Alignment explanation
Indices: 6968443--6968494 Score: 52
Period size: 10 Copynumber: 4.9 Consensus size: 10
6968433 TTAGAAACAC
6968443 TTTATTTTTA
1 TTTATTTTTA
*
6968453 TTAATTTATTAA
1 TTTATTT-TT-A
6968465 TTTATTTTTA
1 TTTATTTTTA
6968475 TTTTATTTTGT-
1 -TTTATTTT-TA
6968486 TTTATTTTT
1 TTTATTTTT
6968495 GTTTTTAGTT
Statistics
Matches: 36, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
9 1 0.03
10 15 0.42
11 12 0.33
12 8 0.22
ACGTcount: A:0.21, C:0.00, G:0.02, T:0.77
Consensus pattern (10 bp):
TTTATTTTTA
Found at i:6968481 original size:11 final size:11
Alignment explanation
Indices: 6968443--6968499 Score: 55
Period size: 11 Copynumber: 5.3 Consensus size: 11
6968433 TTAGAAACAC
6968443 TTTATTTTTA-
1 TTTATTTTTAT
* *
6968453 TTAATTTATTAA
1 TTTATTT-TTAT
6968465 TTTATTTTTAT
1 TTTATTTTTAT
*
6968476 TTTA-TTTTGT
1 TTTATTTTTAT
*
6968486 TTTATTTTTGT
1 TTTATTTTTAT
6968497 TTT
1 TTT
6968500 TAGTTTAGTT
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
10 15 0.38
11 19 0.47
12 6 0.15
ACGTcount: A:0.19, C:0.00, G:0.04, T:0.77
Consensus pattern (11 bp):
TTTATTTTTAT
Found at i:6971148 original size:13 final size:13
Alignment explanation
Indices: 6971130--6971155 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
6971120 CCGACAGGGA
6971130 CACGCCCGTGTGG
1 CACGCCCGTGTGG
6971143 CACGCCCGTGTGG
1 CACGCCCGTGTGG
6971156 GGTGGCTTAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.08, C:0.38, G:0.38, T:0.15
Consensus pattern (13 bp):
CACGCCCGTGTGG
Found at i:6975708 original size:23 final size:23
Alignment explanation
Indices: 6975682--6975726 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
6975672 TGGGTATGTG
*
6975682 ATGACGTTATCTT-ATAAATATGC
1 ATGAAGTTATCTTGA-AAATATGC
*
6975705 ATGAATTTATCTTGAAAATATG
1 ATGAAGTTATCTTGAAAATATG
6975727 TTGAATTGGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.38, C:0.09, G:0.13, T:0.40
Consensus pattern (23 bp):
ATGAAGTTATCTTGAAAATATGC
Found at i:6980390 original size:28 final size:28
Alignment explanation
Indices: 6980350--6980403 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
6980340 TCTATATCAG
* *
6980350 TCAATATCTTTCAATATCAATCAATTTA
1 TCAATATCGTTCAATAACAATCAATTTA
*
6980378 TCAATATCGTTCAGTAACAATCAATT
1 TCAATATCGTTCAATAACAATCAATT
6980404 ATTCTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39
Consensus pattern (28 bp):
TCAATATCGTTCAATAACAATCAATTTA
Found at i:6980587 original size:18 final size:18
Alignment explanation
Indices: 6980564--6980623 Score: 75
Period size: 18 Copynumber: 3.3 Consensus size: 18
6980554 CGGTCAGTCA
* *
6980564 TCAGTATTAATCAGTTAT
1 TCAGTAATAGTCAGTTAT
* *
6980582 TCAGTAATAGTTATTTAT
1 TCAGTAATAGTCAGTTAT
*
6980600 TCAGTAACAGTCAGTTAT
1 TCAGTAATAGTCAGTTAT
6980618 TCAGTA
1 TCAGTA
6980624 CCTTTATTTT
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.42
Consensus pattern (18 bp):
TCAGTAATAGTCAGTTAT
Found at i:6981821 original size:27 final size:27
Alignment explanation
Indices: 6981773--6981931 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
6981763 GCGAGGCTGC
* *
6981773 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
6981800 CAGATATTGTGGCAGAGCCACCAGA-A
1 CAGATATTGTGGCAGAGCCACCAGATA
6981826 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
6981853 CAGATAATTGTGGCATAGCCACCAG-GA
1 CAGAT-ATTGTGGCAGAGCCACCAGATA
6981880 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
* *
6981907 CAGATAATTGTGGCATATCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
6981932 GACGCGTCCT
Statistics
Matches: 116, Mismatches: 8, Indels: 16
0.83 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 101 0.87
28 5 0.04
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:6981932 original size:54 final size:54
Alignment explanation
Indices: 6981791--6981934 Score: 245
Period size: 54 Copynumber: 2.7 Consensus size: 54
6981781 GTGACGAAGT
* *
6981791 CACCAGATACAGAT-ATTGTGGCAGAGCCACCAGAACAGATATATGTGGCAGAGC
1 CACCAGAT-CAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
6981845 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
*
6981899 CACCAGATCAGATAATTGTGGCATATCCACCAGGAC
1 CACCAGATCAGATAATTGTGGCATAGCCACCAGGAC
6981935 GCGTCCTCTA
Statistics
Matches: 86, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
53 5 0.06
54 81 0.94
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.18
Consensus pattern (54 bp):
CACCAGATCAGATAATTGTGGCATAGCCACCAGGACAGATATATGTGGCAGAGC
Found at i:6983562 original size:26 final size:26
Alignment explanation
Indices: 6983531--6983638 Score: 189
Period size: 26 Copynumber: 4.2 Consensus size: 26
6983521 TGAAATGCCC
*
6983531 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
6983557 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
6983583 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
6983609 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
6983635 ATCA
1 ATCA
6983639 ATTTGTACCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.36, C:0.24, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:6990002 original size:28 final size:28
Alignment explanation
Indices: 6989962--6990015 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
6989952 TCTATATCAG
* *
6989962 TCAATATCTTTCAATATCAATCAATTTA
1 TCAATATCGTTCAATAACAATCAATTTA
*
6989990 TCAATATCGTTCAGTAACAATCAATT
1 TCAATATCGTTCAATAACAATCAATT
6990016 ATCCTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.39, C:0.19, G:0.04, T:0.39
Consensus pattern (28 bp):
TCAATATCGTTCAATAACAATCAATTTA
Found at i:6990217 original size:18 final size:18
Alignment explanation
Indices: 6990192--6990241 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
6990182 TCAGTATTAA
* *
6990192 TCAGTTATTTAGTAATAG
1 TCAGTTATTCAGTAACAG
*
6990210 TCATTTATTCAGTAACAG
1 TCAGTTATTCAGTAACAG
6990228 TCAGTTATTCAGTA
1 TCAGTTATTCAGTA
6990242 CCTTTATTTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.32, C:0.12, G:0.14, T:0.42
Consensus pattern (18 bp):
TCAGTTATTCAGTAACAG
Found at i:6990415 original size:48 final size:49
Alignment explanation
Indices: 6990359--6990463 Score: 124
Period size: 51 Copynumber: 2.1 Consensus size: 49
6990349 CCGTAACGGA
* *
6990359 AACAGTAACAGTAGCAGTACA-T-AGAGTACCTCATCGGAACAAATCTGG
1 AACAGTAACAGTAACA-TACAGTAAGAGTACCTCATCGGAACAAATCCGG
* * *
6990407 AACAGTAACAGTAACATTCAGGTACAGAGTACCTCTTCGGAACGAATCCGG
1 AACAGTAACAGTAACATACA-GTA-AGAGTACCTCATCGGAACAAATCCGG
6990458 AACAGT
1 AACAGT
6990464 CATAGTAGTC
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
47 3 0.06
48 15 0.31
49 1 0.02
51 29 0.60
ACGTcount: A:0.38, C:0.22, G:0.21, T:0.19
Consensus pattern (49 bp):
AACAGTAACAGTAACATACAGTAAGAGTACCTCATCGGAACAAATCCGG
Found at i:6991620 original size:15 final size:14
Alignment explanation
Indices: 6991597--6991635 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
6991587 ACACTTGTCT
6991597 TTTATTTATTATAC
1 TTTATTTATTATAC
*
6991611 TTTATATTATTATATT
1 TTTAT-TTATTATA-C
6991627 TTTATTTAT
1 TTTATTTAT
6991636 AATTATTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 5 0.23
15 12 0.55
16 5 0.23
ACGTcount: A:0.28, C:0.03, G:0.00, T:0.69
Consensus pattern (14 bp):
TTTATTTATTATAC
Found at i:6994473 original size:27 final size:28
Alignment explanation
Indices: 6994424--6994482 Score: 66
Period size: 27 Copynumber: 2.1 Consensus size: 28
6994414 TCTTTTTATT
* * *
6994424 TATTTATTTATTTTATTCTTATTTTTAG
1 TATTTATTCATTTTACTCTTATTATTAG
* *
6994452 TATTTATTCA-TTTACTGTTATTATTAT
1 TATTTATTCATTTTACTCTTATTATTAG
6994479 TATT
1 TATT
6994483 ACTATTGTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
27 17 0.65
28 9 0.35
ACGTcount: A:0.24, C:0.05, G:0.03, T:0.68
Consensus pattern (28 bp):
TATTTATTCATTTTACTCTTATTATTAG
Found at i:7007369 original size:6 final size:6
Alignment explanation
Indices: 7007360--7007408 Score: 53
Period size: 6 Copynumber: 8.0 Consensus size: 6
7007350 AGACATAGAC
* * * *
7007360 TCAGTT TCAGAT TCATAT TCAGAT ATGAAAT TCAGAT TCAGAT TCAGAT
1 TCAGAT TCAGAT TCAGAT TCAGAT -TCAGAT TCAGAT TCAGAT TCAGAT
7007409 AGTAAATATG
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
6 31 0.89
7 4 0.11
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (6 bp):
TCAGAT
Found at i:7020297 original size:6 final size:6
Alignment explanation
Indices: 7020288--7020324 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
7020278 ACATACACAG
* *
7020288 TCAGAT TCAGAT TCAAAT TCAGAT TCGGAT TCAGAT T
1 TCAGAT TCAGAT TCAGAT TCAGAT TCAGAT TCAGAT T
7020325 TAAGTCATTT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.35
Consensus pattern (6 bp):
TCAGAT
Found at i:7020912 original size:28 final size:30
Alignment explanation
Indices: 7020875--7020943 Score: 129
Period size: 30 Copynumber: 2.3 Consensus size: 30
7020865 AGCCTGTGTG
7020875 GGCCCACACACCCAACTTGGCCTAGCCTAT
1 GGCCCACACACCCAACTTGGCCTAGCCTAT
*
7020905 GGCCCACACACCCAACTTGGCCTAGCCTGT
1 GGCCCACACACCCAACTTGGCCTAGCCTAT
7020935 GGCCCACAC
1 GGCCCACAC
7020944 GACCATGCTC
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 38 1.00
ACGTcount: A:0.22, C:0.45, G:0.19, T:0.14
Consensus pattern (30 bp):
GGCCCACACACCCAACTTGGCCTAGCCTAT
Found at i:7022873 original size:13 final size:12
Alignment explanation
Indices: 7022855--7022880 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
7022845 GAAAATATTT
7022855 ATAAAAAATAGA
1 ATAAAAAATAGA
7022867 ATAAAAAATAGA
1 ATAAAAAATAGA
7022879 AT
1 AT
7022881 TTACATTGAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.73, C:0.00, G:0.08, T:0.19
Consensus pattern (12 bp):
ATAAAAAATAGA
Found at i:7024635 original size:21 final size:20
Alignment explanation
Indices: 7024611--7024696 Score: 54
Period size: 21 Copynumber: 4.4 Consensus size: 20
7024601 AGGCGTTGCT
7024611 GTTGAAGGAGGTGGTGCTGAA
1 GTTGAAGGAGGTGGTGC-GAA
* * * **
7024632 GTTGTAGGTGGAGG-G-GTT
1 GTTGAAGGAGGTGGTGCGAA
*
7024650 GTTGAAGGAGGCGGTGCGGAA
1 GTTGAAGGAGGTGGTGC-GAA
* *
7024671 GTTGTAGGTGGTGGT--GAA
1 GTTGAAGGAGGTGGTGCGAA
7024689 GTTGAAGG
1 GTTGAAGG
7024697 TGGAGGAGTG
Statistics
Matches: 48, Mismatches: 14, Indels: 9
0.68 0.20 0.13
Matches are distributed among these distances:
18 22 0.46
19 1 0.02
20 1 0.02
21 24 0.50
ACGTcount: A:0.20, C:0.03, G:0.51, T:0.26
Consensus pattern (20 bp):
GTTGAAGGAGGTGGTGCGAA
Found at i:7024693 original size:39 final size:39
Alignment explanation
Indices: 7024611--7024696 Score: 118
Period size: 39 Copynumber: 2.2 Consensus size: 39
7024601 AGGCGTTGCT
* * **
7024611 GTTGAAGGAGGTGGTGCTGAAGTTGTAGGTGGAGGGGTT
1 GTTGAAGGAGGCGGTGCGGAAGTTGTAGGTGGAGGGGAA
* *
7024650 GTTGAAGGAGGCGGTGCGGAAGTTGTAGGTGGTGGTGAA
1 GTTGAAGGAGGCGGTGCGGAAGTTGTAGGTGGAGGGGAA
7024689 GTTGAAGG
1 GTTGAAGG
7024697 TGGAGGAGTG
Statistics
Matches: 41, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.20, C:0.03, G:0.51, T:0.26
Consensus pattern (39 bp):
GTTGAAGGAGGCGGTGCGGAAGTTGTAGGTGGAGGGGAA
Found at i:7031056 original size:15 final size:15
Alignment explanation
Indices: 7031023--7031056 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
7031013 ATAGTACAAC
*
7031023 AAAAAGAAAAGAATA
1 AAAAAGAAAACAATA
7031038 AAAAAGAAAACAATGA
1 AAAAAGAAAACAAT-A
7031054 AAA
1 AAA
7031057 CATAAACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 13 0.76
16 4 0.24
ACGTcount: A:0.79, C:0.03, G:0.12, T:0.06
Consensus pattern (15 bp):
AAAAAGAAAACAATA
Found at i:7032536 original size:25 final size:27
Alignment explanation
Indices: 7032499--7032551 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
7032489 TCAAACATGC
7032499 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
7032525 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
7032551 A
1 A
7032552 AAATTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:7034077 original size:26 final size:26
Alignment explanation
Indices: 7034039--7034122 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
7034029 CATGAAATTC
* *
7034039 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCTA
7034065 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
7034091 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCTA
7034117 TTATCA
1 TTATCA
7034123 ATTTGTATCA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.36, C:0.24, G:0.06, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCTA
Found at i:7038683 original size:31 final size:29
Alignment explanation
Indices: 7038641--7038729 Score: 79
Period size: 30 Copynumber: 3.0 Consensus size: 29
7038631 ATATTAAAAT
* *
7038641 TATACATGAATTATGATTTAATATATAATTA
1 TATATATGAATTATAATTT--TATATAATTA
* * *
7038672 TATATATGAATTTTAATTTTATGTAATTT
1 TATATATGAATTATAATTTTATATAATTA
* * *
7038701 TATATATGAAATTTTAATTTGATCTAATT
1 TATATATG-AATTATAATTTTATATAATT
7038730 TTTATAAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
29 16 0.32
30 18 0.36
31 16 0.32
ACGTcount: A:0.39, C:0.02, G:0.07, T:0.52
Consensus pattern (29 bp):
TATATATGAATTATAATTTTATATAATTA
Found at i:7038713 original size:14 final size:13
Alignment explanation
Indices: 7038652--7038716 Score: 53
Period size: 14 Copynumber: 4.8 Consensus size: 13
7038642 ATACATGAAT
*
7038652 TATG-ATTTAATA
1 TATGAATTTTATA
*
7038664 TAT-AATTATATA
1 TATGAATTTTATA
*
7038676 TATGAATTTTAATTT
1 TATGAATTTT-A-TA
7038691 TATGTAATTTTATA
1 TATG-AATTTTATA
7038705 TATGAAATTTTA
1 TATG-AATTTTA
7038717 ATTTGATCTA
Statistics
Matches: 42, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
12 12 0.29
13 5 0.12
14 13 0.31
15 6 0.14
16 6 0.14
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.54
Consensus pattern (13 bp):
TATGAATTTTATA
Found at i:7038735 original size:29 final size:29
Alignment explanation
Indices: 7038666--7038735 Score: 97
Period size: 30 Copynumber: 2.4 Consensus size: 29
7038656 ATTTAATATA
* * *
7038666 TAATTATATATATGAATTTTAATTTTATG
1 TAATTTTATATATGAATTTTAATTTGATC
7038695 TAATTTTATATATGAAATTTTAATTTGATC
1 TAATTTTATATATG-AATTTTAATTTGATC
7038725 TAATTTT-TATA
1 TAATTTTATATA
7038736 AATTATTAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 17 0.46
30 20 0.54
ACGTcount: A:0.37, C:0.01, G:0.06, T:0.56
Consensus pattern (29 bp):
TAATTTTATATATGAATTTTAATTTGATC
Found at i:7038976 original size:29 final size:27
Alignment explanation
Indices: 7038910--7038976 Score: 71
Period size: 31 Copynumber: 2.3 Consensus size: 27
7038900 GAGTTTCATG
*
7038910 TGTATAATTATACCAAATTAAAATTAA
1 TGTATAATTATACCAAATCAAAATTAA
* *
7038937 TGTATACAATTATACATTAAATCAAAATTTA
1 TGTAT--AATTATAC--CAAATCAAAATTAA
7038968 TGTATAATT
1 TGTATAATT
7038977 TTAAGATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.15
29 12 0.36
31 16 0.48
ACGTcount: A:0.48, C:0.07, G:0.04, T:0.40
Consensus pattern (27 bp):
TGTATAATTATACCAAATCAAAATTAA
Found at i:7039136 original size:11 final size:11
Alignment explanation
Indices: 7039118--7039147 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
7039108 ATATTTTAGT
7039118 TTTAATTTAAA
1 TTTAATTTAAA
*
7039129 TTTCATTTAAA
1 TTTAATTTAAA
7039140 TTTAATTT
1 TTTAATTT
7039148 TTATTATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 17 1.00
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTAATTTAAA
Found at i:7041040 original size:24 final size:24
Alignment explanation
Indices: 7041004--7041051 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
7040994 AAGTTTCTTC
7041004 TCCTAGTTAAACTATG-TTATATTT
1 TCCTAGTTAAACTATGATT-TATTT
7041028 TCCTAGTCT-AACTATGATTTATTT
1 TCCTAGT-TAAACTATGATTTATTT
7041052 AGAGATGTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
24 19 0.86
25 3 0.14
ACGTcount: A:0.27, C:0.15, G:0.08, T:0.50
Consensus pattern (24 bp):
TCCTAGTTAAACTATGATTTATTT
Found at i:7045544 original size:28 final size:30
Alignment explanation
Indices: 7045469--7045544 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 30
7045459 CCAGAGATTT
*
7045469 CCACAAAGGCATCCTTTTCATAAAGTACTTA
1 CCACAAAGGCATCCTTTTCA-AAAGTACTCA
* * * *
7045500 CAACAAAGGCTTTCTTTTC-AAAGT-CTCG
1 CCACAAAGGCATCCTTTTCAAAAGTACTCA
7045528 CCACAAAGGCATCCTTT
1 CCACAAAGGCATCCTTT
7045545 AAGAGCTTCA
Statistics
Matches: 37, Mismatches: 8, Indels: 3
0.77 0.17 0.06
Matches are distributed among these distances:
28 16 0.43
29 5 0.14
31 16 0.43
ACGTcount: A:0.32, C:0.28, G:0.12, T:0.29
Consensus pattern (30 bp):
CCACAAAGGCATCCTTTTCAAAAGTACTCA
Found at i:7047741 original size:18 final size:19
Alignment explanation
Indices: 7047718--7047755 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
7047708 CCGAATGTAC
7047718 TTTTCATATACA-CATATA
1 TTTTCATATACATCATATA
*
7047736 TTTTCATTTACATCATATA
1 TTTTCATATACATCATATA
7047755 T
1 T
7047756 ATATTGCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (19 bp):
TTTTCATATACATCATATA
Found at i:7048091 original size:43 final size:42
Alignment explanation
Indices: 7047924--7048078 Score: 181
Period size: 43 Copynumber: 3.7 Consensus size: 42
7047914 ATATTGTACA
* *
7047924 ATGCCAACGTCCCAGACGTGGTCTTACATGCCATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCACATATCG
*
7047967 ATGCC-ACTGTCCCAGACAG-GGTCTTACACGAATCAAATA-CG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACACGAATCACATATCG
* * * *
7048008 ATGTCAATGTCCTAGACATGGTCTTACACGTAATCACATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACACG-AATCACATATCG
*
7048051 ATGCCAACGTCCCAGATGTGGTCTTACA
1 ATGCCAACGTCCCAGACGTGGTCTTACA
7048079 TGAGAACACA
Statistics
Matches: 93, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
41 25 0.27
42 18 0.19
43 49 0.53
44 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (42 bp):
ATGCCAACGTCCCAGACGTGGTCTTACACGAATCACATATCG
Found at i:7053292 original size:19 final size:19
Alignment explanation
Indices: 7053233--7053304 Score: 76
Period size: 19 Copynumber: 3.7 Consensus size: 19
7053223 TACATAATAA
7053233 ATAATTAATAATAAAATGAT
1 ATAA-TAATAATAAAATGAT
* *
7053253 ATAGTAA-AATAAAAATAAT
1 ATAATAATAAT-AAAATGAT
7053272 ATAATGAATAATAAAA-GAT
1 ATAAT-AATAATAAAATGAT
7053291 ATAATATATAATAA
1 ATAATA-ATAATAA
7053305 TTTTTACACA
Statistics
Matches: 44, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
18 4 0.09
19 28 0.64
20 9 0.20
21 3 0.07
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (19 bp):
ATAATAATAATAAAATGAT
Found at i:7053296 original size:27 final size:27
Alignment explanation
Indices: 7053226--7053302 Score: 72
Period size: 27 Copynumber: 2.9 Consensus size: 27
7053216 AAAATTATAC
*
7053226 ATAATAAATAAT-TAATAATAAAATGAT
1 ATAATAAA-AATATAATAATATAATGAT
* *
7053253 ATAGT-AAAATAAAAATAATATAATGA-
1 ATAATAAAAAT-ATAATAATATAATGAT
7053279 ATAATAAAAGATATAAT-ATATAAT
1 ATAATAAAA-ATATAATAATATAAT
7053303 AATTTTTACA
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
25 3 0.07
26 13 0.32
27 23 0.56
28 2 0.05
ACGTcount: A:0.64, C:0.00, G:0.05, T:0.31
Consensus pattern (27 bp):
ATAATAAAAATATAATAATATAATGAT
Found at i:7073747 original size:19 final size:20
Alignment explanation
Indices: 7073724--7073767 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
7073714 ATTTAATCTA
*
7073724 ATTTTT-ATTATTTA-TTTT
1 ATTTTTGATTATATATTTTT
*
7073742 ATTTTTGATTCTATATTTTT
1 ATTTTTGATTATATATTTTT
7073762 ATTTTT
1 ATTTTT
7073768 ATTTTAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 6 0.27
19 6 0.27
20 10 0.45
ACGTcount: A:0.20, C:0.02, G:0.02, T:0.75
Consensus pattern (20 bp):
ATTTTTGATTATATATTTTT
Found at i:7073764 original size:6 final size:6
Alignment explanation
Indices: 7073696--7073772 Score: 57
Period size: 6 Copynumber: 12.5 Consensus size: 6
7073686 ACTTGCTGTA
* * * * * *
7073696 TTTTAT TTATAT CTTTAT ATTTAA TCTAAT TTTTAT TATTTA- TTTTAT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT T-TTTAT TTTTAT
*
7073744 TTTTGAT TCTATAT TTTTAT TTTTAT TTT
1 TTTT-AT T-TTTAT TTTTAT TTTTAT TTT
7073773 AATATTTAAG
Statistics
Matches: 54, Mismatches: 13, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
5 4 0.07
6 38 0.70
7 10 0.19
8 2 0.04
ACGTcount: A:0.23, C:0.04, G:0.01, T:0.71
Consensus pattern (6 bp):
TTTTAT
Found at i:7074000 original size:20 final size:18
Alignment explanation
Indices: 7073975--7074023 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 18
7073965 AATAAAACAT
7073975 AATAAAATATTTAACATAGA
1 AATAAAATATTTAA-ATA-A
*
7073995 AATAAATATTATTTAATTAA
1 AATAAA-A-TATTTAAATAA
7074015 AATAAAATA
1 AATAAAATA
7074024 ATTTTTTTAA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.08
19 1 0.04
20 13 0.50
21 3 0.12
22 7 0.27
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.35
Consensus pattern (18 bp):
AATAAAATATTTAAATAA
Found at i:7074092 original size:43 final size:40
Alignment explanation
Indices: 7074031--7074132 Score: 134
Period size: 43 Copynumber: 2.5 Consensus size: 40
7074021 ATAATTTTTT
*
7074031 TAAAGGCCATGATTTTTAGCGGCGTTTGTGGGAAAAGCGCCGC
1 TAAAGG-CATGATCTTTAG-GGCGTTTGTGGG-AAAGCGCCGC
*
7074074 TAAAGGTCATGATCTTTAGGGCGTTTTTGGGAAAGCGCCGC
1 TAAAGG-CATGATCTTTAGGGCGTTTGTGGGAAAGCGCCGC
*
7074115 TAAAGGCATG-TTTTTAGG
1 TAAAGGCATGATCTTTAGG
7074133 AAAAGTGCCG
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
39 7 0.13
40 4 0.07
41 16 0.29
42 11 0.20
43 17 0.31
ACGTcount: A:0.24, C:0.16, G:0.31, T:0.29
Consensus pattern (40 bp):
TAAAGGCATGATCTTTAGGGCGTTTGTGGGAAAGCGCCGC
Found at i:7086334 original size:19 final size:19
Alignment explanation
Indices: 7086310--7086348 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
7086300 TATTATTAAT
*
7086310 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
7086329 ATATTTATTATTAAAATAA
1 ATATTTATAATTAAAATAA
7086348 A
1 A
7086349 AATGAAATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:7086393 original size:22 final size:22
Alignment explanation
Indices: 7086353--7086408 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
7086343 AATAAAAATG
*
7086353 AAATATTAAA-TA-ATTTATTA
1 AAATAATAAATTATATTTATTA
7086373 AAATAATAAATTATATTTATTA
1 AAATAATAAATTATATTTATTA
* * *
7086395 TATTAATAATTTAT
1 AAATAATAAATTAT
7086409 TGTATGACTA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 9 0.30
21 2 0.07
22 19 0.63
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
AAATAATAAATTATATTTATTA
Found at i:7088372 original size:11 final size:11
Alignment explanation
Indices: 7088358--7088397 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
7088348 TGTTTTCTCC
7088358 CTATTTTGCTA
1 CTATTTTGCTA
*
7088369 CTATTTTACTA
1 CTATTTTGCTA
* *
7088380 TTATGTTGCTA
1 CTATTTTGCTA
7088391 CTATTTT
1 CTATTTT
7088398 ATTGTTATTG
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.20, C:0.15, G:0.07, T:0.57
Consensus pattern (11 bp):
CTATTTTGCTA
Found at i:7088488 original size:30 final size:31
Alignment explanation
Indices: 7088435--7088498 Score: 87
Period size: 30 Copynumber: 2.1 Consensus size: 31
7088425 ACTTATTTTA
*
7088435 TTGTTAATTATTATTATTCTTTTA-AAGACAT
1 TTGTTAATTATTATTATTATTTTAGAA-ACAT
*
7088466 TTGTTAATT-TTGTTATTATTTTAGAAACAT
1 TTGTTAATTATTATTATTATTTTAGAAACAT
7088496 TTG
1 TTG
7088499 CTTATTAAGT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 19 0.63
31 11 0.37
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (31 bp):
TTGTTAATTATTATTATTATTTTAGAAACAT
Found at i:7088651 original size:12 final size:12
Alignment explanation
Indices: 7088621--7088653 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
7088611 TATATATTTT
7088621 AAAATT-ATATA
1 AAAATTAATATA
7088632 AAAA-TAATATA
1 AAAATTAATATA
7088643 AAAATTAATAT
1 AAAATTAATAT
7088654 GGGCGGGTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:7089181 original size:29 final size:30
Alignment explanation
Indices: 7089135--7089193 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
7089125 TTATGATACG
7089135 TGTACTTTCAAAAAATGTCCAATGTGGTACT
1 TGTACTTT-AAAAAATGTCCAATGTGGTACT
7089166 TGTACTTT-AAAAATGTCCAATGTGGTAC
1 TGTACTTTAAAAAATGTCCAATGTGGTAC
7089194 ATGAACTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
29 20 0.71
31 8 0.29
ACGTcount: A:0.32, C:0.15, G:0.17, T:0.36
Consensus pattern (30 bp):
TGTACTTTAAAAAATGTCCAATGTGGTACT
Found at i:7089201 original size:29 final size:29
Alignment explanation
Indices: 7089145--7089201 Score: 96
Period size: 29 Copynumber: 2.0 Consensus size: 29
7089135 TGTACTTTCA
* *
7089145 AAAAATGTCCAATGTGGTACTTGTACTTT
1 AAAAATGTCCAATGTGGTACATGAACTTT
7089174 AAAAATGTCCAATGTGGTACATGAACTT
1 AAAAATGTCCAATGTGGTACATGAACTT
7089202 CAATATGTGT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (29 bp):
AAAAATGTCCAATGTGGTACATGAACTTT
Found at i:7102497 original size:24 final size:24
Alignment explanation
Indices: 7102470--7102518 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
7102460 GTTAGTTTAT
7102470 AAATTATTATTATGAGTATAATGA
1 AAATTATTATTATGAGTATAATGA
7102494 AAATTATTATTATGAGTATAATGA
1 AAATTATTATTATGAGTATAATGA
7102518 A
1 A
7102519 TTGTCTTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.47, C:0.00, G:0.12, T:0.41
Consensus pattern (24 bp):
AAATTATTATTATGAGTATAATGA
Found at i:7104621 original size:22 final size:21
Alignment explanation
Indices: 7104574--7104627 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 21
7104564 CGGCCTCTAG
**
7104574 CACGGGCGTGTCCTAGGGTCA
1 CACGGGCGTGTCCTAGGACCA
*
7104595 CACGGGCGTGTCCCTTGGACCA
1 CACGGGCGTGT-CCTAGGACCA
*
7104617 CACGGGTGTGT
1 CACGGGCGTGT
7104628 GAGCCTTACA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.13, C:0.30, G:0.37, T:0.20
Consensus pattern (21 bp):
CACGGGCGTGTCCTAGGACCA
Found at i:7104911 original size:13 final size:13
Alignment explanation
Indices: 7104889--7104924 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
7104879 CTCAATAATT
7104889 TATA-TGTGAAAA
1 TATATTGTGAAAA
7104901 TATATTGTGAAAA
1 TATATTGTGAAAA
*
7104914 TATGTTGTGAA
1 TATATTGTGAA
7104925 TTTGTAGATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 4 0.18
13 18 0.82
ACGTcount: A:0.42, C:0.00, G:0.19, T:0.39
Consensus pattern (13 bp):
TATATTGTGAAAA
Found at i:7106640 original size:14 final size:15
Alignment explanation
Indices: 7106616--7106644 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
7106606 ATAAGAATAA
7106616 GTATATAGTAGATAT
1 GTATATAGTAGATAT
7106631 GTATAT-GTAGATAT
1 GTATATAGTAGATAT
7106645 ACATGTTTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.00, G:0.21, T:0.41
Consensus pattern (15 bp):
GTATATAGTAGATAT
Found at i:7107248 original size:23 final size:23
Alignment explanation
Indices: 7107220--7107265 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
7107210 AAAAAAAAAG
7107220 TAAATACTAAATTTACATAAGCA
1 TAAATACTAAATTTACATAAGCA
7107243 TAAATACTAAATTTACATAAGCA
1 TAAATACTAAATTTACATAAGCA
7107266 GAAGCGTCAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.13, G:0.04, T:0.30
Consensus pattern (23 bp):
TAAATACTAAATTTACATAAGCA
Found at i:7109982 original size:19 final size:19
Alignment explanation
Indices: 7109951--7110004 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 19
7109941 ATGTAGCAAA
7109951 AAATAATTA-AAAAATCAAT
1 AAAT-ATTATAAAAATCAAT
* *
7109970 AAATATTATAAAAATTATT
1 AAATATTATAAAAATCAAT
*
7109989 AAATTTTAATAAAAAT
1 AAATATT-ATAAAAAT
7110005 ATAAAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 4 0.13
19 18 0.60
20 8 0.27
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
AAATATTATAAAAATCAAT
Found at i:7110012 original size:10 final size:10
Alignment explanation
Indices: 7109999--7110038 Score: 50
Period size: 10 Copynumber: 4.2 Consensus size: 10
7109989 AAATTTTAAT
7109999 AAAAATAT-A
1 AAAAATATAA
7110008 AAAAAT-TAGA
1 AAAAATATA-A
7110018 AAAAA-ATAA
1 AAAAATATAA
7110027 AAAAATATAA
1 AAAAATATAA
7110037 AA
1 AA
7110039 TCATAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
8 1 0.04
9 12 0.44
10 14 0.52
ACGTcount: A:0.80, C:0.00, G:0.03, T:0.17
Consensus pattern (10 bp):
AAAAATATAA
Found at i:7110025 original size:26 final size:27
Alignment explanation
Indices: 7109996--7110058 Score: 74
Period size: 26 Copynumber: 2.3 Consensus size: 27
7109986 ATTAAATTTT
*
7109996 AATAAAAATATAAAAAATTAGAAAA-A
1 AATAAAAATATAAAAAATCAGAAAATA
* * *
7110022 AATAAAAAAATATAAAATCATAAAATA
1 AATAAAAATATAAAAAATCAGAAAATA
7110049 ATATAAAAAT
1 A-ATAAAAAT
7110059 GGTAAAATTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
26 21 0.70
27 2 0.07
28 7 0.23
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.22
Consensus pattern (27 bp):
AATAAAAATATAAAAAATCAGAAAATA
Found at i:7110038 original size:18 final size:18
Alignment explanation
Indices: 7109997--7110057 Score: 68
Period size: 18 Copynumber: 3.4 Consensus size: 18
7109987 TTAAATTTTA
* *
7109997 ATAAAAATATAAAAAATT
1 ATAAAAAAATAAAAAAAT
*
7110015 AGAAAAAAATAAAAAAAT
1 ATAAAAAAATAAAAAAAT
** *
7110033 ATAAAATCATAAAATAAT
1 ATAAAAAAATAAAAAAAT
7110051 ATAAAAA
1 ATAAAAA
7110058 TGGTAAAATT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.21
Consensus pattern (18 bp):
ATAAAAAAATAAAAAAAT
Found at i:7110054 original size:10 final size:9
Alignment explanation
Indices: 7109999--7110057 Score: 59
Period size: 9 Copynumber: 6.4 Consensus size: 9
7109989 AAATTTTAAT
7109999 AAAAATATA
1 AAAAATATA
7110008 AAAAAT-TA
1 AAAAATATA
*
7110016 GAAAAAAATA
1 -AAAAATATA
7110026 AAAAA-ATA
1 AAAAATATA
*
7110034 TAAAATCATA
1 AAAAAT-ATA
7110044 AAATAATATA
1 AAA-AATATA
7110054 AAAA
1 AAAA
7110058 TGGTAAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 10
0.76 0.05 0.18
Matches are distributed among these distances:
8 9 0.21
9 17 0.40
10 13 0.31
11 3 0.07
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (9 bp):
AAAAATATA
Found at i:7110064 original size:19 final size:18
Alignment explanation
Indices: 7110023--7110103 Score: 72
Period size: 19 Copynumber: 4.3 Consensus size: 18
7110013 TTAGAAAAAA
*
7110023 ATAAAAAAATATAAAATC
1 ATAAAATAATATAAAATC
*
7110041 ATAAAATAATATAAAAATG
1 ATAAAATAATAT-AAAATC
* **
7110060 GTAAAATTTTATAAAAGTC
1 ATAAAATAATATAAAA-TC
* *
7110079 ATAAAAAAATGTAAAATGC
1 ATAAAATAATATAAAAT-C
7110098 ATAAAA
1 ATAAAA
7110104 AAGGCCCTTT
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
18 16 0.33
19 33 0.67
ACGTcount: A:0.64, C:0.04, G:0.06, T:0.26
Consensus pattern (18 bp):
ATAAAATAATATAAAATC
Done.