Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A09
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: 81831061
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 3560000 characters in sequence are not A, C, G, or T
File 251 of 259
Found at i:78725898 original size:17 final size:17
Alignment explanation
Indices: 78725878--78725910 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
78725868 TAATATATTC
78725878 ACATATTTAGTAAATAT
1 ACATATTTAGTAAATAT
78725895 ACATATTTAGTAAATA
1 ACATATTTAGTAAATA
78725911 AATATACTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
ACATATTTAGTAAATAT
Found at i:78729232 original size:51 final size:51
Alignment explanation
Indices: 78729172--78729274 Score: 197
Period size: 51 Copynumber: 2.0 Consensus size: 51
78729162 ACCAAAAAGG
*
78729172 TTCAATTGCTTAAACATGCTATTTATCCAAATAAATGTGAATTAATTATTT
1 TTCAATTGCTTAAACATGCTATTTATCCAAATAAATGTGAACTAATTATTT
78729223 TTCAATTGCTTAAACATGCTATTTATCCAAATAAATGTGAACTAATTATTT
1 TTCAATTGCTTAAACATGCTATTTATCCAAATAAATGTGAACTAATTATTT
78729274 T
1 T
78729275 GTCACCACAA
Statistics
Matches: 51, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.43
Consensus pattern (51 bp):
TTCAATTGCTTAAACATGCTATTTATCCAAATAAATGTGAACTAATTATTT
Found at i:78732388 original size:22 final size:23
Alignment explanation
Indices: 78732357--78732402 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
78732347 TAATAATTTT
*
78732357 AATGAATTTTA-ACTTTTTTAAA
1 AATGAATTTTATAATTTTTTAAA
*
78732379 AATGATTTTTATAATTTTTTAAA
1 AATGAATTTTATAATTTTTTAAA
78732402 A
1 A
78732403 TTTAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 10 0.48
23 11 0.52
ACGTcount: A:0.41, C:0.02, G:0.04, T:0.52
Consensus pattern (23 bp):
AATGAATTTTATAATTTTTTAAA
Found at i:78734343 original size:21 final size:21
Alignment explanation
Indices: 78734318--78734361 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
78734308 TTAAGAATTT
* *
78734318 TTGTTACTATATTTAATCTTA
1 TTGTTACAATAATTAATCTTA
*
78734339 TTGTTACAATAATTAATTTTA
1 TTGTTACAATAATTAATCTTA
78734360 TT
1 TT
78734362 TTATGTAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.07, G:0.05, T:0.57
Consensus pattern (21 bp):
TTGTTACAATAATTAATCTTA
Found at i:78740953 original size:29 final size:30
Alignment explanation
Indices: 78740911--78740969 Score: 102
Period size: 29 Copynumber: 2.0 Consensus size: 30
78740901 AACAAGACAT
*
78740911 ATTGGTTAAGTTCAAAG-ACCCTAATCCAG
1 ATTGGTTAAGTTCAAAGAACCCAAATCCAG
78740940 ATTGGTTAAGTTCAAAGAACCCAAATCCAG
1 ATTGGTTAAGTTCAAAGAACCCAAATCCAG
78740970 TCCCTGCCAC
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 17 0.61
30 11 0.39
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (30 bp):
ATTGGTTAAGTTCAAAGAACCCAAATCCAG
Found at i:78742831 original size:35 final size:35
Alignment explanation
Indices: 78742792--78742863 Score: 117
Period size: 35 Copynumber: 2.1 Consensus size: 35
78742782 CATCTCCGGA
*
78742792 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
* *
78742827 GCTTGGCAAATATGGAAGGGGATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
78742862 GC
1 GC
78742864 GATCCTAGAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.36, C:0.12, G:0.25, T:0.26
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:78748009 original size:35 final size:35
Alignment explanation
Indices: 78747970--78748041 Score: 99
Period size: 35 Copynumber: 2.1 Consensus size: 35
78747960 CATCTCCGGA
*
78747970 GCTTGGCAAATATGGAAAGTAATCTTCAAAGATAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
* * * *
78748005 GCTTGGCTAATATGGAAGGGGATCTTCAAAGGTAT
1 GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
78748040 GC
1 GC
78748042 GATCCTAGAC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.33, C:0.12, G:0.26, T:0.28
Consensus pattern (35 bp):
GCTTGGCAAATATGGAAAGGAATCTTCAAAGATAT
Found at i:78750782 original size:10 final size:10
Alignment explanation
Indices: 78750767--78750791 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
78750757 AAGCAAGGAA
78750767 AGAAAGTAAC
1 AGAAAGTAAC
78750777 AGAAAGTAAC
1 AGAAAGTAAC
78750787 AGAAA
1 AGAAA
78750792 AATAACTACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.64, C:0.08, G:0.20, T:0.08
Consensus pattern (10 bp):
AGAAAGTAAC
Found at i:78754614 original size:16 final size:17
Alignment explanation
Indices: 78754587--78754619 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
78754577 AGAAATGCGG
*
78754587 AAAACATCTCCCTGAGA
1 AAAACATCTCCCGGAGA
78754604 AAAACAT-TCCCGGAGA
1 AAAACATCTCCCGGAGA
78754620 TCGCGCCAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.42, C:0.27, G:0.15, T:0.15
Consensus pattern (17 bp):
AAAACATCTCCCGGAGA
Found at i:78757090 original size:33 final size:33
Alignment explanation
Indices: 78757050--78757119 Score: 140
Period size: 33 Copynumber: 2.1 Consensus size: 33
78757040 TTTTTATCAC
78757050 TTAAAATTTTGTTTCTCAATTTAGTTAATTTAA
1 TTAAAATTTTGTTTCTCAATTTAGTTAATTTAA
78757083 TTAAAATTTTGTTTCTCAATTTAGTTAATTTAA
1 TTAAAATTTTGTTTCTCAATTTAGTTAATTTAA
78757116 TTAA
1 TTAA
78757120 GATAATTATT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 37 1.00
ACGTcount: A:0.34, C:0.06, G:0.06, T:0.54
Consensus pattern (33 bp):
TTAAAATTTTGTTTCTCAATTTAGTTAATTTAA
Found at i:78760781 original size:27 final size:26
Alignment explanation
Indices: 78760726--78760783 Score: 89
Period size: 26 Copynumber: 2.2 Consensus size: 26
78760716 AACTTAACAC
*
78760726 TTTTTTCCTAATTTGGTACCTAAGCT
1 TTTTTTCCTAATTTGATACCTAAGCT
**
78760752 TTTTTTCCTAATTTGATATTTAAGCT
1 TTTTTTCCTAATTTGATACCTAAGCT
78760778 TTTTTT
1 TTTTTT
78760784 TATTCAATTT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.19, C:0.14, G:0.09, T:0.59
Consensus pattern (26 bp):
TTTTTTCCTAATTTGATACCTAAGCT
Found at i:78763337 original size:19 final size:19
Alignment explanation
Indices: 78763313--78763350 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
78763303 TAAGGTTGGA
*
78763313 GGAATTATGAATATTTATT
1 GGAATTATGAATAATTATT
*
78763332 GGAATTATGGATAATTATT
1 GGAATTATGAATAATTATT
78763351 TCTGTTAACA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.00, G:0.18, T:0.45
Consensus pattern (19 bp):
GGAATTATGAATAATTATT
Found at i:78773418 original size:21 final size:20
Alignment explanation
Indices: 78773362--78773418 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 20
78773352 AAACAGGAAG
78773362 CTTTTTCATTCTTTTTCTTCC
1 CTTTTTC-TTCTTTTTCTTCC
*
78773383 CTTTTCTTTTCTTTTTCTTTTCC
1 CTTTT-TCTTCTTTTTC--TTCC
78773406 CTTTTTCTT-TTTT
1 CTTTTTCTTCTTTT
78773419 CTCTAAAATG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
21 18 0.58
22 4 0.13
23 9 0.29
ACGTcount: A:0.02, C:0.25, G:0.00, T:0.74
Consensus pattern (20 bp):
CTTTTTCTTCTTTTTCTTCC
Found at i:78773687 original size:17 final size:18
Alignment explanation
Indices: 78773621--78773700 Score: 60
Period size: 18 Copynumber: 4.6 Consensus size: 18
78773611 TGTACTATTT
*
78773621 ATTTTTAAAT-TTGTATGA
1 ATTTTTAAATATTTTAT-A
*
78773639 CTTTTTAAATTATTTTA-A
1 ATTTTTAAA-TATTTTATA
* * *
78773657 A-CTCTAATTATTTTA-A
1 ATTTTTAAATATTTTATA
*
78773673 GTTTTTAAATATTTTATA
1 ATTTTTAAATATTTTATA
78773691 ATTTTTAAAT
1 ATTTTTAAAT
78773701 TATTAGTTAC
Statistics
Matches: 47, Mismatches: 11, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
16 8 0.17
17 15 0.32
18 19 0.40
19 1 0.02
20 4 0.09
ACGTcount: A:0.35, C:0.04, G:0.04, T:0.57
Consensus pattern (18 bp):
ATTTTTAAATATTTTATA
Found at i:78773697 original size:18 final size:17
Alignment explanation
Indices: 78773640--78773700 Score: 61
Period size: 17 Copynumber: 3.5 Consensus size: 17
78773630 TTTGTATGAC
78773640 TTTTTAAATTATTTTAAA
1 TTTTTAAA-TATTTTAAA
* * * *
78773658 -CTCTAATTATTTTAAG
1 TTTTTAAATATTTTAAA
78773674 TTTTTAAATATTTTATAA
1 TTTTTAAATATTTTA-AA
78773692 TTTTTAAAT
1 TTTTTAAAT
78773701 TATTAGTTAC
Statistics
Matches: 33, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
16 8 0.24
17 15 0.45
18 10 0.30
ACGTcount: A:0.36, C:0.03, G:0.02, T:0.59
Consensus pattern (17 bp):
TTTTTAAATATTTTAAA
Found at i:78776626 original size:14 final size:16
Alignment explanation
Indices: 78776596--78776633 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
78776586 TGAACAGGTT
78776596 TATTAT-TTTTTTAAA
1 TATTATATTTTTTAAA
78776611 TATT-TATTTTTT-AA
1 TATTATATTTTTTAAA
78776625 TATTATATT
1 TATTATATT
78776634 GTACCTTTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
14 7 0.33
15 14 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTATATTTTTTAAA
Found at i:78777310 original size:21 final size:21
Alignment explanation
Indices: 78777252--78777312 Score: 65
Period size: 20 Copynumber: 2.9 Consensus size: 21
78777242 CCATGTCTAC
78777252 TCCTTCC-TTTCTACTCTCGCTT
1 TCCTTCCATTTCT-CTCTC-CTT
*
78777274 TCCTTCCTTTTC-CTCTCCTT
1 TCCTTCCATTTCTCTCTCCTT
78777294 T-CTCTCCATTTCTCTCTCC
1 TCCT-TCCATTTCTCTCTCC
78777313 CAACAACCAC
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
19 2 0.06
20 11 0.31
21 11 0.31
22 7 0.20
23 4 0.11
ACGTcount: A:0.03, C:0.44, G:0.02, T:0.51
Consensus pattern (21 bp):
TCCTTCCATTTCTCTCTCCTT
Found at i:78783238 original size:12 final size:12
Alignment explanation
Indices: 78783217--78783260 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
78783207 CAATGAGCTC
78783217 GACGACGACGAT
1 GACGACGACGAT
* *
78783229 GACGAAGACGAA
1 GACGACGACGAT
*
78783241 GACGACGACGGT
1 GACGACGACGAT
*
78783253 GACAACGA
1 GACGACGA
78783261 TGACGTCGCC
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
12 26 1.00
ACGTcount: A:0.39, C:0.23, G:0.34, T:0.05
Consensus pattern (12 bp):
GACGACGACGAT
Found at i:78794373 original size:19 final size:19
Alignment explanation
Indices: 78794349--78794389 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
78794339 ATTTTATTAC
78794349 AAATTAGGCGGAAGTGTAT
1 AAATTAGGCGGAAGTGTAT
*
78794368 AAATTAGGCTGAAGTGTAT
1 AAATTAGGCGGAAGTGTAT
78794387 AAA
1 AAA
78794390 AAGCTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.41, C:0.05, G:0.27, T:0.27
Consensus pattern (19 bp):
AAATTAGGCGGAAGTGTAT
Found at i:78794703 original size:26 final size:26
Alignment explanation
Indices: 78794654--78794705 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
78794644 TTGTACATTT
*
78794654 AAAATTTAGTCCTATTTTTATTTTAA
1 AAAATTTAGTCCAATTTTTATTTTAA
*
78794680 AAAATTTAGTTCAATTATTT-TTTTAA
1 AAAATTTAGTCCAATT-TTTATTTTAA
78794706 TTTTAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 20 0.87
27 3 0.13
ACGTcount: A:0.37, C:0.06, G:0.04, T:0.54
Consensus pattern (26 bp):
AAAATTTAGTCCAATTTTTATTTTAA
Found at i:78794703 original size:31 final size:32
Alignment explanation
Indices: 78794668--78794727 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
78794658 TTTAGTCCTA
*
78794668 TTTTT-ATTTTAAAAAATTTA-GTTCAATTATT
1 TTTTTAATTTT-AAAAATTTATGTCCAATTATT
78794699 TTTTTAATTTTAAAAATTTATGTCCAATT
1 TTTTTAATTTTAAAAATTTATGTCCAATT
78794728 TCTAATAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
31 14 0.54
32 12 0.46
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (32 bp):
TTTTTAATTTTAAAAATTTATGTCCAATTATT
Found at i:78800656 original size:22 final size:23
Alignment explanation
Indices: 78800596--78800672 Score: 68
Period size: 23 Copynumber: 3.3 Consensus size: 23
78800586 AGATTTTAGT
* *
78800596 TATACATAAAAATTGATAATAAA
1 TATACATAAATATTAATAATAAA
**
78800619 T-TACATTGCATATTAATAATAAA
1 TATACA-TAAATATTAATAATAAA
*
78800642 TATACAT-AATATTAATATTAATAA
1 TATACATAAATATTAATAAT-A-AA
78800666 TATACAT
1 TATACAT
78800673 TGATAATAAA
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
22 14 0.32
23 17 0.39
24 13 0.30
ACGTcount: A:0.53, C:0.06, G:0.03, T:0.38
Consensus pattern (23 bp):
TATACATAAATATTAATAATAAA
Found at i:78800726 original size:16 final size:15
Alignment explanation
Indices: 78800707--78800740 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
78800697 ATAAAAATAA
78800707 TATAATATGAATATAT
1 TATAATATGAATAT-T
*
78800723 TATAATATTAATATT
1 TATAATATGAATATT
78800738 TAT
1 TAT
78800741 TTTTTATTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 4 0.24
16 13 0.76
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (15 bp):
TATAATATGAATATT
Found at i:78802387 original size:24 final size:24
Alignment explanation
Indices: 78802360--78802408 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 24
78802350 AATTTTTATC
*
78802360 AAATACAAATATCAAATTAAAAAA
1 AAATACAAATACCAAATTAAAAAA
* *
78802384 AAATACATATACCACATTAAAAAA
1 AAATACAAATACCAAATTAAAAAA
78802408 A
1 A
78802409 TAATGTCAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.67, C:0.12, G:0.00, T:0.20
Consensus pattern (24 bp):
AAATACAAATACCAAATTAAAAAA
Found at i:78807941 original size:31 final size:31
Alignment explanation
Indices: 78807903--78807964 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
78807893 ATAAGGAAAA
78807903 AAAAATCAATCTTTCTGAAAAAATTACGATT
1 AAAAATCAATCTTTCTGAAAAAATTACGATT
*
78807934 AAAAATCAATCTTTCTGAAATAATTACGATT
1 AAAAATCAATCTTTCTGAAAAAATTACGATT
78807965 CTAATTCTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (31 bp):
AAAAATCAATCTTTCTGAAAAAATTACGATT
Found at i:78811892 original size:53 final size:53
Alignment explanation
Indices: 78811834--78811943 Score: 211
Period size: 53 Copynumber: 2.1 Consensus size: 53
78811824 AACATTATAA
78811834 AATAAAAATTTCGACCTCCAATAGATTTCTTTCTAACTCACTATCTTTTTAAT
1 AATAAAAATTTCGACCTCCAATAGATTTCTTTCTAACTCACTATCTTTTTAAT
*
78811887 AATAAAAATTTCGACCTCCAGTAGATTTCTTTCTAACTCACTATCTTTTTAAT
1 AATAAAAATTTCGACCTCCAATAGATTTCTTTCTAACTCACTATCTTTTTAAT
78811940 AATA
1 AATA
78811944 TGATGAATAA
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 56 1.00
ACGTcount: A:0.35, C:0.20, G:0.05, T:0.41
Consensus pattern (53 bp):
AATAAAAATTTCGACCTCCAATAGATTTCTTTCTAACTCACTATCTTTTTAAT
Found at i:78817671 original size:19 final size:19
Alignment explanation
Indices: 78817649--78817689 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 19
78817639 TTAATTCAAA
* *
78817649 TATATATTATTTAATGAAT
1 TATATATAAATTAATGAAT
*
78817668 TATATATAAATTAATTAAT
1 TATATATAAATTAATGAAT
78817687 TAT
1 TAT
78817690 TTAATTCAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (19 bp):
TATATATAAATTAATGAAT
Found at i:78819628 original size:30 final size:31
Alignment explanation
Indices: 78819592--78819653 Score: 83
Period size: 33 Copynumber: 2.0 Consensus size: 31
78819582 ATTTTTTTTA
78819592 GGTTTTATA-T-ATTATAATGATTATTATAAT
1 GGTTTTATATTAATTATAATGATTATT-TAAT
*
78819622 GGTTTTATATTAAATTATTATGATTATTTAAT
1 GGTTTTATATT-AATTATAATGATTATTTAAT
78819654 TGATAATATA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
30 9 0.32
31 1 0.04
32 4 0.14
33 14 0.50
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (31 bp):
GGTTTTATATTAATTATAATGATTATTTAAT
Found at i:78820006 original size:14 final size:14
Alignment explanation
Indices: 78819981--78820014 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
78819971 AAAGAATTAA
78819981 AGAAACAAAGAAAC
1 AGAAACAAAGAAAC
78819995 A-AAACAAAAGAAAC
1 AGAAAC-AAAGAAAC
78820009 AGAAAC
1 AGAAAC
78820015 GAAGCAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 4 0.22
14 10 0.56
15 4 0.22
ACGTcount: A:0.74, C:0.15, G:0.12, T:0.00
Consensus pattern (14 bp):
AGAAACAAAGAAAC
Found at i:78823700 original size:29 final size:29
Alignment explanation
Indices: 78823628--78823700 Score: 73
Period size: 28 Copynumber: 2.6 Consensus size: 29
78823618 TTAAAAACTC
**
78823628 ATAAAA-A-ATATAAAAATTTATATATTA
1 ATAAAACATATATAAAAATTTATATAAAA
*
78823655 ATAAAACATAT-TTAAAATTT-TATAAAA
1 ATAAAACATATATAAAAATTTATATAAAA
*
78823682 ATTTAAACATATATAAAAA
1 A-TAAAACATATATAAAAA
78823701 AATGAAAAAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
27 12 0.32
28 18 0.49
29 7 0.19
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.36
Consensus pattern (29 bp):
ATAAAACATATATAAAAATTTATATAAAA
Found at i:78824372 original size:17 final size:19
Alignment explanation
Indices: 78824352--78824389 Score: 53
Period size: 17 Copynumber: 2.1 Consensus size: 19
78824342 TATAAGTTTA
78824352 TATAATATT-AT-TTTTTT
1 TATAATATTAATATTTTTT
*
78824369 TATAATTTTAATATTTTTT
1 TATAATATTAATATTTTTT
78824388 TA
1 TA
78824390 AAAAATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 8 0.44
18 2 0.11
19 8 0.44
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (19 bp):
TATAATATTAATATTTTTT
Found at i:78824385 original size:19 final size:17
Alignment explanation
Indices: 78824325--78824389 Score: 58
Period size: 19 Copynumber: 3.6 Consensus size: 17
78824315 AGCTTTTATA
78824325 ATTTTTTTTATAAGTTTT
1 ATTTTTTTTATAA-TTTT
** * *
78824343 ATAAGTTTATATAATATT
1 AT-TTTTTTTATAATTTT
78824361 ATTTTTTTTATAATTTT
1 ATTTTTTTTATAATTTT
78824378 AATATTTTTTTA
1 -AT-TTTTTTTA
78824390 AAAAATATAA
Statistics
Matches: 36, Mismatches: 8, Indels: 5
0.73 0.16 0.10
Matches are distributed among these distances:
17 11 0.31
18 9 0.25
19 16 0.44
ACGTcount: A:0.31, C:0.00, G:0.03, T:0.66
Consensus pattern (17 bp):
ATTTTTTTTATAATTTT
Found at i:78826978 original size:18 final size:18
Alignment explanation
Indices: 78826946--78826995 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
78826936 AATAATTATA
*
78826946 AAAAAAATATTTAAAAGAT
1 AAAAAAATA-ATAAAAGAT
*
78826965 AAAAAAATAAT-AAATAT
1 AAAAAAATAATAAAAGAT
78826982 AAATAAAATAATAA
1 AAA-AAAATAATAA
78826996 GAGAAACATT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 8 0.30
18 9 0.33
19 10 0.37
ACGTcount: A:0.74, C:0.00, G:0.02, T:0.24
Consensus pattern (18 bp):
AAAAAAATAATAAAAGAT
Found at i:78828560 original size:6 final size:6
Alignment explanation
Indices: 78828549--78828575 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
78828539 AAGTGAAAAG
78828549 AAATAA AAATAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAATAA AAATAA AAA
78828576 ATGCGTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAATAA
Found at i:78830696 original size:21 final size:21
Alignment explanation
Indices: 78830667--78830706 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
78830657 AAAAAAAAAT
*
78830667 AAAACACTATAAATATATTGA
1 AAAAAACTATAAATATATTGA
78830688 AAAAAACTATAAATATATT
1 AAAAAACTATAAATATATT
78830707 AATTTATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.60, C:0.07, G:0.03, T:0.30
Consensus pattern (21 bp):
AAAAAACTATAAATATATTGA
Found at i:78831307 original size:20 final size:20
Alignment explanation
Indices: 78831251--78831314 Score: 60
Period size: 20 Copynumber: 3.2 Consensus size: 20
78831241 ATATATATAT
*
78831251 TTTTTGATACTTCCTT-AAG-
1 TTTTTGATA-TTCCTTCATGA
* *
78831270 TTTTATGGTATTCTTTCATGA
1 TTTT-TGATATTCCTTCATGA
*
78831291 TTTTTGATATTCCTTCATTA
1 TTTTTGATATTCCTTCATGA
78831311 TTTT
1 TTTT
78831315 CTATACATCG
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 9 0.25
20 23 0.64
21 4 0.11
ACGTcount: A:0.19, C:0.12, G:0.09, T:0.59
Consensus pattern (20 bp):
TTTTTGATATTCCTTCATGA
Found at i:78831364 original size:20 final size:21
Alignment explanation
Indices: 78831341--78831387 Score: 55
Period size: 20 Copynumber: 2.3 Consensus size: 21
78831331 CGATACTTTC
78831341 TCATAATTT-TTGCTAC-TTCA
1 TCATAATTTGTTGCTACATT-A
*
78831361 TCAT-ATTTGTTGGTACATTA
1 TCATAATTTGTTGCTACATTA
78831381 TCATAAT
1 TCATAAT
78831388 ACCCAGTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
19 4 0.17
20 15 0.65
21 4 0.17
ACGTcount: A:0.28, C:0.15, G:0.09, T:0.49
Consensus pattern (21 bp):
TCATAATTTGTTGCTACATTA
Found at i:78831461 original size:20 final size:21
Alignment explanation
Indices: 78831423--78831461 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
78831413 ATATAATTTC
*
78831423 AAAAAAAATGCTTTGTAAAGT
1 AAAAAAAATGATTTGTAAAGT
*
78831444 AAAAAAAAT-ATTTTTAAA
1 AAAAAAAATGATTTGTAAA
78831462 CATTAAGTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 7 0.44
21 9 0.56
ACGTcount: A:0.59, C:0.03, G:0.08, T:0.31
Consensus pattern (21 bp):
AAAAAAAATGATTTGTAAAGT
Found at i:78831913 original size:20 final size:20
Alignment explanation
Indices: 78831865--78831913 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
78831855 TTATTTCCTT
**
78831865 AAAATATTTAGTATTTCTTCA
1 AAAAT-TTTAGTATACCTTCA
* *
78831886 TAATTTTTAGTATACCTTCA
1 AAAATTTTAGTATACCTTCA
78831906 AAAATTTT
1 AAAATTTT
78831914 TTATGGTTTC
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
20 19 0.86
21 3 0.14
ACGTcount: A:0.37, C:0.10, G:0.04, T:0.49
Consensus pattern (20 bp):
AAAATTTTAGTATACCTTCA
Found at i:78832347 original size:20 final size:20
Alignment explanation
Indices: 78832300--78832351 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 20
78832290 ACTATAAATA
78832300 ACAAACAAAATTTATTAGTAT
1 ACAAA-AAAATTTATTAGTAT
* *
78832321 GCAAAAAATATTTATT-TTAT
1 ACAAAAAA-ATTTATTAGTAT
78832341 ACAAAAAAATT
1 ACAAAAAAATT
78832352 AATATTCAAG
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
19 3 0.11
20 13 0.48
21 11 0.41
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.35
Consensus pattern (20 bp):
ACAAAAAAATTTATTAGTAT
Found at i:78841351 original size:23 final size:22
Alignment explanation
Indices: 78841315--78841367 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
78841305 ACATGTAGTG
*
78841315 AAAAA-AAT-TAAATTATAATAT
1 AAAAATAATATAATTTA-AATAT
78841336 AAAACATAATATAATTTAAATAT
1 AAAA-ATAATATAATTTAAATAT
*
78841359 ATAAATAAT
1 AAAAATAAT
78841368 TGATATGTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 4 0.15
22 6 0.22
23 11 0.41
24 6 0.22
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (22 bp):
AAAAATAATATAATTTAAATAT
Found at i:78845248 original size:13 final size:13
Alignment explanation
Indices: 78845232--78845256 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78845222 AAACTTAATT
78845232 ATAATTATAGTTA
1 ATAATTATAGTTA
78845245 ATAATTATAGTT
1 ATAATTATAGTT
78845257 TTACCAATTA
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:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
ATAATTATAGTTA
Found at i:78845982 original size:117 final size:117
Alignment explanation
Indices: 78845770--78846715 Score: 1305
Period size: 117 Copynumber: 8.1 Consensus size: 117
78845760 CACTAATGAC
* * ** *
78845770 ATCGATATCTTCATTACTTTCAAAGAGTTCAAA-TTCTAGGATTCTACCTACAGGTGTGCCTATT
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTC-AAGATTCTACCTACAGGTGTGCCTATT
* * *
78845834 CCTCCGTCAGGACCTAGTAGAAGCACATCAGATCCACCTCCTCCATCGTCAAT
65 CCTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * * *
78845887 ATTGACATCTTCATCACTTTTGAAAAGTTCAAATTTCAAGATTCTACCTATAGGTGTTCCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* * * *
78845952 CTCCGTCGGGACCTAGTGGAAGTACATCAGATCCGCCACCTCCATCGTCAAT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * *
78846004 ATCGAAATTTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCATATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* * ** * *
78846069 CTCCGTCAGGACCTAATGAAAGTACATCAGATCTGCCACCTCCATCGTCAAT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * * *
78846121 AACGACATCTTCATCACTTGTGAAGAGTTTAAATTTCAAGATTCTACCTACAGGTGTGGCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* * *
78846186 CTCTGTC-GAGACCTAGTGGAAGTACATCAGATCCGCCACCTCCACCGTCAAT
66 CTCCGTCAG-GACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * * *
78846238 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTTAGGATTATACCTACAAGTGTGCCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* *
78846303 CTCCGTCGGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAGT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
*
78846355 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAGGATTCTACCTACAGGTGTGCCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* * * *
78846420 CTCCGCCGGGACCTAGTGGAAGTACATTAGATCCACCTCCTCCACCGTCAGT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* *
78846472 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTTAGGATTCTACCTACAGGTGTGCCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
*
78846537 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTTAAT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* * *
78846589 ATTG--A----CATCACTTTTAAAGAGTTCAAATTTCAAGATTCTACCTACTGGTGTGCCTATTC
1 ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
* * * ** *
78846648 CTCCGTCAAGACCTAGTGAAAGTACATCATATCCACCTCCTCCATTGTTAAT
66 CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
* *
78846700 ATCAACATCTTTATCA
1 ATCGACATCTTCATCA
78846716 ATTTCAAAAA
Statistics
Matches: 747, Mismatches: 73, Indels: 18
0.89 0.09 0.02
Matches are distributed among these distances:
111 99 0.13
113 1 0.00
115 1 0.00
116 1 0.00
117 641 0.86
118 4 0.01
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.31
Consensus pattern (117 bp):
ATCGACATCTTCATCACTTTTGAAGAGTTCAAATTTCAAGATTCTACCTACAGGTGTGCCTATTC
CTCCGTCAGGACCTAGTGGAAGTACATCAGATCCACCTCCTCCACCGTCAAT
Found at i:78856595 original size:18 final size:18
Alignment explanation
Indices: 78856572--78856635 Score: 83
Period size: 18 Copynumber: 3.4 Consensus size: 18
78856562 GTAAATATTT
78856572 AATTTTTAAAAATTTAAA
1 AATTTTTAAAAATTTAAA
*
78856590 AATTTTTAAAAAATTAAA
1 AATTTTTAAAAATTTAAA
*
78856608 AATTATTTAAAAAGTATAAA
1 AATT-TTTAAAAA-TTTAAA
78856628 AATATTTT
1 AAT-TTTT
78856636 TAAATTAATT
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
18 21 0.52
19 8 0.20
20 10 0.25
21 1 0.03
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.42
Consensus pattern (18 bp):
AATTTTTAAAAATTTAAA
Found at i:78857221 original size:24 final size:25
Alignment explanation
Indices: 78857165--78857221 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
78857155 TGTTTTCCTT
* **
78857165 TTAATTTAATAATCCTATTTTTATA
1 TTAATTTAATAATCCTAGTTGAATA
78857190 TTAATTTAATAATCCT-GTTGAATA
1 TTAATTTAATAATCCTAGTTGAATA
*
78857214 TTACTTTA
1 TTAATTTA
78857222 TAAGCAATAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
24 12 0.43
25 16 0.57
ACGTcount: A:0.35, C:0.09, G:0.04, T:0.53
Consensus pattern (25 bp):
TTAATTTAATAATCCTAGTTGAATA
Found at i:78857408 original size:12 final size:13
Alignment explanation
Indices: 78857391--78857438 Score: 55
Period size: 12 Copynumber: 3.8 Consensus size: 13
78857381 ACAATGAGAC
78857391 AATATAATATTA-
1 AATATAATATTAT
78857403 AATATAATA-TAT
1 AATATAATATTAT
* *
78857415 GATATAATATTTT
1 AATATAATATTAT
*
78857428 AATATTATATT
1 AATATAATATT
78857439 TTATAATTTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
11 2 0.07
12 17 0.57
13 11 0.37
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (13 bp):
AATATAATATTAT
Found at i:78858675 original size:31 final size:31
Alignment explanation
Indices: 78858627--78858685 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
78858617 AATAGTACAC
* **
78858627 GAGGAAAATATCCAGTTTTTGTGTAAAAGAA
1 GAGGAAAATATCAAGTTTGGGTGTAAAAGAA
78858658 GAGG-AAATATCTAAGTTTGGGTGTAAAA
1 GAGGAAAATATC-AAGTTTGGGTGTAAAA
78858686 ATGGAAGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 7 0.29
31 17 0.71
ACGTcount: A:0.41, C:0.05, G:0.25, T:0.29
Consensus pattern (31 bp):
GAGGAAAATATCAAGTTTGGGTGTAAAAGAA
Found at i:78861026 original size:33 final size:33
Alignment explanation
Indices: 78860989--78861054 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
78860979 TAAATTTTTA
78860989 CCAAAATCATGTGTCAAT-ACATGGAAATAATTT
1 CCAAAATCATGTGTCAATGACATGGAAA-AATTT
*
78861022 CCAAAATTATGTGTCAATGACATGGAAAAATTT
1 CCAAAATCATGTGTCAATGACATGGAAAAATTT
78861055 GCACAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 22 0.71
34 9 0.29
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (33 bp):
CCAAAATCATGTGTCAATGACATGGAAAAATTT
Found at i:78861936 original size:18 final size:16
Alignment explanation
Indices: 78861911--78861963 Score: 56
Period size: 17 Copynumber: 3.2 Consensus size: 16
78861901 AATTGCATAT
78861911 TTTTTTATAATATTTAC
1 TTTTTTATAATATTT-C
*
78861928 TTTTATTATCAT-TATTC
1 TTTT-TTATAATAT-TTC
78861945 TTTTTTATAATATTT-
1 TTTTTTATAATATTTC
78861960 TTTT
1 TTTT
78861964 AATTCATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
15 4 0.13
16 8 0.26
17 11 0.35
18 8 0.26
ACGTcount: A:0.25, C:0.06, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTTTTATAATATTTC
Found at i:78861963 original size:15 final size:15
Alignment explanation
Indices: 78861910--78861963 Score: 54
Period size: 15 Copynumber: 3.3 Consensus size: 15
78861900 AAATTGCATA
78861910 TTTTTTTATAATATT
1 TTTTTTTATAATATT
*
78861925 TACTTTTATTATCATTATT
1 T--TTTT-TTAT-AATATT
*
78861944 CTTTTTTATAATATT
1 TTTTTTTATAATATT
78861959 TTTTT
1 TTTTT
78861964 AATTCATAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 8
0.72 0.09 0.19
Matches are distributed among these distances:
15 10 0.32
16 4 0.13
17 8 0.26
18 4 0.13
19 5 0.16
ACGTcount: A:0.24, C:0.06, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTTTATAATATT
Found at i:78870411 original size:17 final size:19
Alignment explanation
Indices: 78870377--78870414 Score: 62
Period size: 17 Copynumber: 2.1 Consensus size: 19
78870367 AAACCTTGAA
78870377 TTTTCTCTTTTCTTCTTTC
1 TTTTCTCTTTTCTTCTTTC
78870396 TTTTCTC-TTT-TTCTTTC
1 TTTTCTCTTTTCTTCTTTC
78870413 TT
1 TT
78870415 CCTTCCCCTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.47
18 3 0.16
19 7 0.37
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (19 bp):
TTTTCTCTTTTCTTCTTTC
Found at i:78883924 original size:31 final size:32
Alignment explanation
Indices: 78883863--78883937 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 32
78883853 AACAAATTAA
*
78883863 ATAAAAAATTACTAAAATTATGTATTAATAAT
1 ATAAAAAATTATTAAAATTATGTATTAATAAT
* *
78883895 ATAAAAATTTATTAAAA-TAT-TTTTAAATAAT
1 ATAAAAAATTATTAAAATTATGTATT-AATAAT
* *
78883926 TTAAAAAGTTAT
1 ATAAAAAATTAT
78883938 GAATGAAATG
Statistics
Matches: 37, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
30 3 0.08
31 19 0.51
32 15 0.41
ACGTcount: A:0.55, C:0.01, G:0.03, T:0.41
Consensus pattern (32 bp):
ATAAAAAATTATTAAAATTATGTATTAATAAT
Found at i:78889714 original size:21 final size:21
Alignment explanation
Indices: 78889690--78889729 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
78889680 TTGTAATAAT
78889690 TAAATTTAATTTTGACTTCTC
1 TAAATTTAATTTTGACTTCTC
**
78889711 TAAATTTTTTTTTGACTTC
1 TAAATTTAATTTTGACTTC
78889730 GCATGTAAGT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.12, G:0.05, T:0.57
Consensus pattern (21 bp):
TAAATTTAATTTTGACTTCTC
Found at i:78891302 original size:18 final size:17
Alignment explanation
Indices: 78891268--78891300 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
78891258 ATTTATGTAT
78891268 TTTTTTAAAAATATTTA
1 TTTTTTAAAAATATTTA
78891285 TTTTTTAAAAATATTT
1 TTTTTTAAAAATATTT
78891301 TACTATAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (17 bp):
TTTTTTAAAAATATTTA
Found at i:78896300 original size:21 final size:21
Alignment explanation
Indices: 78896276--78896315 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
78896266 ATCTTTTCTA
78896276 AAGTTAAAA-GTCAAAACTATT
1 AAGTTAAAAGGT-AAAACTATT
78896297 AAGTTAAAAGGTAAAACTA
1 AAGTTAAAAGGTAAAACTA
78896316 CGTTGTTTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 16 0.89
22 2 0.11
ACGTcount: A:0.55, C:0.07, G:0.12, T:0.25
Consensus pattern (21 bp):
AAGTTAAAAGGTAAAACTATT
Found at i:78896345 original size:24 final size:23
Alignment explanation
Indices: 78896318--78896365 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 23
78896308 TAAAACTACG
78896318 TTGTTTTGATAAAGTTTACTTAAT
1 TTGTTTTGATAAAGTTTAC-TAAT
78896342 TTGTTTTGATAAAGTTTACTAAT
1 TTGTTTTGATAAAGTTTACTAAT
78896365 T
1 T
78896366 AAGTTAAAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 5 0.21
24 19 0.79
ACGTcount: A:0.29, C:0.04, G:0.12, T:0.54
Consensus pattern (23 bp):
TTGTTTTGATAAAGTTTACTAAT
Found at i:78899930 original size:47 final size:47
Alignment explanation
Indices: 78899823--78900013 Score: 186
Period size: 47 Copynumber: 3.9 Consensus size: 47
78899813 AATGTGATTT
* * * *
78899823 CCGTATAAGACCATAGCTGGGCTATGGCTTCGGACAAATGTGATATGTGCTT
1 CCGTATAAGACCATATCTGGGATATGGCATCGG-----TGTGATATGTGCTA
*
78899875 CCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTA
1 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
* * * *
78899922 CTGTATAAGACCATATTTGGGATATGGCATCAGTGTGATATGTGAT-
1 CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
* ** * *
78899968 CCGTGTAAGACCATGGCTGGGTTATGGCCTCGGTATGTGATATGTG
1 CCGTATAAGACCATATCTGGGATATGGCATCGG--TGTGATATGTG
78900014 ACTATGTGCA
Statistics
Matches: 119, Mismatches: 18, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
46 25 0.21
47 54 0.45
48 11 0.09
52 29 0.24
ACGTcount: A:0.24, C:0.17, G:0.29, T:0.30
Consensus pattern (47 bp):
CCGTATAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTA
Found at i:78900046 original size:95 final size:93
Alignment explanation
Indices: 78899861--78900031 Score: 211
Period size: 93 Copynumber: 1.8 Consensus size: 93
78899851 TTCGGACAAA
* *
78899861 TGTGATATGTGCTTCCGTATAAGACCATATCCGGGATATGGCATCGGTGTGATATGTGCTACTGT
1 TGTGATATGTGCATCCGTATAAGACCATAGCCGGGATATGGCATCGGTGTGATATGTGCTACTGT
*
78899926 ATAAGACCATATTTGGGATATGGCATCAG
66 ACAAGACCATATTT-GGATATGGCATCAG
* * * * *
78899955 TGTGATATGTG-ATCCGTGTAAGACCATGGCTGGGTTATGGCCTCGGTATGTGATATGTGACTA-
1 TGTGATATGTGCATCCGTATAAGACCATAGCCGGGATATGGCATCGG--TGTGATATGTG-CTAC
*
78900018 TGTGCAAGACCATA
63 TGTACAAGACCATA
78900032 GTTTTACTAT
Statistics
Matches: 65, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
93 28 0.43
94 11 0.17
95 23 0.35
96 3 0.05
ACGTcount: A:0.25, C:0.16, G:0.28, T:0.32
Consensus pattern (93 bp):
TGTGATATGTGCATCCGTATAAGACCATAGCCGGGATATGGCATCGGTGTGATATGTGCTACTGT
ACAAGACCATATTTGGATATGGCATCAG
Found at i:78902625 original size:19 final size:18
Alignment explanation
Indices: 78902601--78902640 Score: 55
Period size: 19 Copynumber: 2.2 Consensus size: 18
78902591 TGGTTCAGGT
78902601 TTTCAA-TCTCATATCTCAA
1 TTTCAATTCTCA-AT-TCAA
78902620 TTTCAATTCTCAATTCAA
1 TTTCAATTCTCAATTCAA
78902638 TTT
1 TTT
78902641 TTCATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
18 7 0.35
19 8 0.40
20 5 0.25
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (18 bp):
TTTCAATTCTCAATTCAA
Found at i:78903638 original size:13 final size:13
Alignment explanation
Indices: 78903620--78903651 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
78903610 TTTCATTTCA
78903620 TTTATTTCTTTAT
1 TTTATTTCTTTAT
78903633 TTTATTTCTTTAT
1 TTTATTTCTTTAT
78903646 TTTATT
1 TTTATT
78903652 ATTAAACTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (13 bp):
TTTATTTCTTTAT
Found at i:78903802 original size:15 final size:16
Alignment explanation
Indices: 78903773--78903811 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
78903763 TAAAATAATA
78903773 TTAA-TATAATATATT
1 TTAATTATAATATATT
78903788 TTAATTATAAT-TATT
1 TTAATTATAATATATT
*
78903803 TTACTTATA
1 TTAATTATA
78903812 TAATAAGTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 16 0.73
16 6 0.27
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATTATAATATATT
Found at i:78903815 original size:17 final size:17
Alignment explanation
Indices: 78903776--78903816 Score: 50
Period size: 15 Copynumber: 2.5 Consensus size: 17
78903766 AATAATATTA
78903776 ATATAATATATTTTAAT
1 ATATAATATATTTTAAT
*
78903793 -TATAAT-TATTTTACTT
1 ATATAATATATTTTA-AT
78903809 ATATAATA
1 ATATAATA
78903817 AGTAAATACA
Statistics
Matches: 20, Mismatches: 1, Indels: 5
0.77 0.04 0.19
Matches are distributed among these distances:
15 7 0.35
16 7 0.35
17 6 0.30
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (17 bp):
ATATAATATATTTTAAT
Found at i:78909201 original size:20 final size:19
Alignment explanation
Indices: 78909172--78909220 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 19
78909162 AATAAATATT
78909172 TTTAAAATATA-ATAATAAA
1 TTTAAAATATATATAA-AAA
78909191 TTTAAAGATATATATAAAAA
1 TTTAAA-ATATATATAAAAA
78909211 TTTAAAATAT
1 TTTAAAATAT
78909221 TGTTGACGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
19 10 0.36
20 14 0.50
21 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (19 bp):
TTTAAAATATATATAAAAA
Found at i:78912612 original size:32 final size:33
Alignment explanation
Indices: 78912576--78912637 Score: 108
Period size: 32 Copynumber: 1.9 Consensus size: 33
78912566 AAAATTATCT
78912576 TAAATATAATAAATATTTT-TTATATTAAAAAA
1 TAAATATAATAAATATTTTATTATATTAAAAAA
*
78912608 TAAATATAATAAATATTTTATTGTATTAAA
1 TAAATATAATAAATATTTTATTATATTAAA
78912638 TATAATTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
32 19 0.68
33 9 0.32
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (33 bp):
TAAATATAATAAATATTTTATTATATTAAAAAA
Found at i:78913843 original size:24 final size:24
Alignment explanation
Indices: 78913816--78913867 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
78913806 TTAGTAAGTC
*
78913816 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
78913840 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
78913864 AAAT
1 AAAT
78913868 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:78915812 original size:24 final size:24
Alignment explanation
Indices: 78915785--78915836 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
78915775 TTAGTAAGTC
*
78915785 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
78915809 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
78915833 AAAT
1 AAAT
78915837 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:78918492 original size:57 final size:57
Alignment explanation
Indices: 78918423--78918544 Score: 228
Period size: 57 Copynumber: 2.2 Consensus size: 57
78918413 TTTATATTTG
*
78918423 TAAAAAGA-ATGAATTTGTTTTAATAATTCTGTAATTGAGTTAACATCGAATCTACT
1 TAAAAAAATATGAATTTGTTTTAATAATTCTGTAATTGAGTTAACATCGAATCTACT
78918479 TAAAAAAATATGAATTTGTTTTAATAATTCTGTAATTGAGTTAACATCGAATCTACT
1 TAAAAAAATATGAATTTGTTTTAATAATTCTGTAATTGAGTTAACATCGAATCTACT
78918536 TAAAAAAAT
1 TAAAAAAAT
78918545 GTATTAAACA
Statistics
Matches: 64, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
56 7 0.11
57 57 0.89
ACGTcount: A:0.43, C:0.08, G:0.11, T:0.39
Consensus pattern (57 bp):
TAAAAAAATATGAATTTGTTTTAATAATTCTGTAATTGAGTTAACATCGAATCTACT
Found at i:78919438 original size:20 final size:20
Alignment explanation
Indices: 78919415--78919467 Score: 54
Period size: 20 Copynumber: 2.6 Consensus size: 20
78919405 AAAAATCAGA
78919415 AAAATTATAAAAAAAATATT
1 AAAATTATAAAAAAAATATT
* **
78919435 AAAATTGAT-ACAAATTTATT
1 AAAATT-ATAAAAAAAATATT
*
78919455 AAGATTATAAAAA
1 AAAATTATAAAAA
78919468 CTTATAAATA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.62, C:0.02, G:0.04, T:0.32
Consensus pattern (20 bp):
AAAATTATAAAAAAAATATT
Found at i:78919520 original size:67 final size:65
Alignment explanation
Indices: 78919422--78919600 Score: 170
Period size: 67 Copynumber: 2.7 Consensus size: 65
78919412 AGAAAAATTA
* *
78919422 TAAAAAAAATATTAAAATTGATACAAA-TTTATTAAGATTATAAAAACTTA-T-AAATATTATAG
1 TAAAAAAAATATT-AAATT-ATAAAAATTTTATTAA-ATTATAAAAACTTATTAAAATATT-TAA
78919484 AATG
62 AATG
* *
78919488 TAAAAAAAATCTATTAAATTATAAAAATTTTATGAAATTA-ATAAACCTTATTTAAAATATTTAA
1 TAAAAAAAA--TATTAAATTATAAAAATTTTATTAAATTATA-AAAACTTA-TTAAAATATTTAA
*
78919552 AATT
62 AATG
* *
78919556 TAAAAAACATATTATAATT-TGAAAAATTTTAATAAATTATAAAAA
1 TAAAAAAAATATTA-AATTAT-AAAAATTTTATTAAATTATAAAAA
78919601 ATTAAAACTT
Statistics
Matches: 94, Mismatches: 9, Indels: 19
0.77 0.07 0.16
Matches are distributed among these distances:
65 1 0.01
66 32 0.34
67 35 0.37
68 19 0.20
69 7 0.07
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (65 bp):
TAAAAAAAATATTAAATTATAAAAATTTTATTAAATTATAAAAACTTATTAAAATATTTAAAATG
Found at i:78920035 original size:17 final size:17
Alignment explanation
Indices: 78920013--78920053 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
78920003 CAATTTTTTT
**
78920013 TTTATATTTTTTATTTA
1 TTTATATTTTTTATAAA
*
78920030 TTTATAATTTTTATAAA
1 TTTATATTTTTTATAAA
78920047 TTTATAT
1 TTTATAT
78920054 AATTAAATTT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATATTTTTTATAAA
Found at i:78920045 original size:9 final size:9
Alignment explanation
Indices: 78920011--78920264 Score: 75
Period size: 10 Copynumber: 27.8 Consensus size: 9
78920001 TTCAATTTTT
78920011 TTTTTAT-A
1 TTTTTATAA
*
78920019 TTTTT-TAT
1 TTTTTATAA
78920027 TTATTTATAA
1 TT-TTTATAA
78920037 TTTTTATAAA
1 TTTTTAT-AA
*
78920047 TTTATATAA
1 TTTTTATAA
** *
78920056 -TTAAAT-T
1 TTTTTATAA
78920063 TTTTTATAA
1 TTTTTATAA
* *
78920072 -ATTTATGA
1 TTTTTATAA
* *
78920080 TTTCATAGAA
1 TTT-TTATAA
*
78920090 TTTTAATACA
1 TTTTTATA-A
78920100 TTTTTATAAA
1 TTTTTAT-AA
* *
78920110 ATTTTAAACA
1 TTTTTATA-A
78920120 TGTTTTACTAA
1 T-TTTTA-TAA
*
78920131 -TTTTACAAA
1 TTTTTA-TAA
78920140 TTTTTTATAA
1 -TTTTTATAA
* *
78920150 TCTGTTA-GA
1 T-TTTTATAA
78920159 TTTTTAT-A
1 TTTTTATAA
78920167 TTTTTATAA
1 TTTTTATAA
78920176 TATTTATATAA
1 T-TTT-TATAA
78920187 TATTTTATAA
1 T-TTTTATAA
78920197 CTTTTT-TAA
1 -TTTTTATAA
*
78920206 GTTTATATAA
1 -TTTTTATAA
*
78920216 ATTTT-T-A
1 TTTTTATAA
78920223 TTTTT-TAA
1 TTTTTATAA
*
78920231 TATTTAATAA
1 T-TTTTATAA
* *
78920241 -ATTTCTAA
1 TTTTTATAA
*
78920249 TTTTTTTAA
1 TTTTTATAA
78920258 TTTTTAT
1 TTTTTAT
78920265 GAGAAAAAAA
Statistics
Matches: 181, Mismatches: 39, Indels: 51
0.67 0.14 0.19
Matches are distributed among these distances:
7 7 0.04
8 42 0.23
9 52 0.29
10 56 0.31
11 23 0.13
12 1 0.01
ACGTcount: A:0.35, C:0.03, G:0.02, T:0.60
Consensus pattern (9 bp):
TTTTTATAA
Found at i:78920132 original size:20 final size:20
Alignment explanation
Indices: 78920088--78920135 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 20
78920078 GATTTCATAG
78920088 AATTTTAATACATTTTTATAA
1 AATTTTAATACATTTTTAT-A
78920109 AATTTTAA-ACATGTTTTACT-
1 AATTTTAATACAT-TTTTA-TA
78920129 AATTTTA
1 AATTTTA
78920136 CAAATTTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
20 11 0.44
21 13 0.52
22 1 0.04
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.52
Consensus pattern (20 bp):
AATTTTAATACATTTTTATA
Found at i:78920180 original size:11 final size:11
Alignment explanation
Indices: 78920164--78920196 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
78920154 TTAGATTTTT
78920164 ATATTTTTATA
1 ATATTTTTATA
*
78920175 ATATTTATATA
1 ATATTTTTATA
78920186 ATA-TTTTATA
1 ATATTTTTATA
78920196 A
1 A
78920197 CTTTTTTAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
10 7 0.35
11 13 0.65
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
ATATTTTTATA
Found at i:78920180 original size:19 final size:19
Alignment explanation
Indices: 78920158--78920229 Score: 62
Period size: 19 Copynumber: 3.8 Consensus size: 19
78920148 AATCTGTTAG
78920158 ATTTTTATATTTTTATAAT
1 ATTTTTATATTTTTATAAT
*
78920177 ATTTATATAATATTTTATAACT
1 ATTTTTAT-AT-TTTTATAA-T
*
78920199 -TTTTTA-AGTTTATATAA-
1 ATTTTTATA-TTTTTATAAT
78920216 ATTTTTAT-TTTTTA
1 ATTTTTATATTTTTA
78920230 ATATTTAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
17 5 0.12
18 6 0.14
19 15 0.35
20 3 0.07
21 13 0.30
22 1 0.02
ACGTcount: A:0.33, C:0.01, G:0.01, T:0.64
Consensus pattern (19 bp):
ATTTTTATATTTTTATAAT
Found at i:78920192 original size:29 final size:27
Alignment explanation
Indices: 78920160--78920264 Score: 110
Period size: 25 Copynumber: 3.8 Consensus size: 27
78920150 TCTGTTAGAT
78920160 TTTTATATTTTTATAATATTTATATAATA
1 TTTTATATTTTT-TAATATTTATATAA-A
*
78920189 TTTTATAACTTTTTTAA-GTTTATATAAA
1 TTTTAT-A-TTTTTTAATATTTATATAAA
78920217 TTTT-TATTTTTTAATATTTA-ATAAA
1 TTTTATATTTTTTAATATTTATATAAA
*
78920242 TTTCTA-ATTTTTTTAATTTTTAT
1 TTT-TATA-TTTTTTAATATTTAT
78920265 GAGAAAAAAA
Statistics
Matches: 66, Mismatches: 3, Indels: 15
0.79 0.04 0.18
Matches are distributed among these distances:
25 16 0.24
26 7 0.11
27 14 0.21
28 5 0.08
29 15 0.23
30 4 0.06
31 5 0.08
ACGTcount: A:0.33, C:0.02, G:0.01, T:0.64
Consensus pattern (27 bp):
TTTTATATTTTTTAATATTTATATAAA
Found at i:78920423 original size:42 final size:42
Alignment explanation
Indices: 78920361--78920445 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
78920351 AATGACAAAG
*
78920361 AATGTTAATAGAGAAGCTTAGATGATTATTTTAACTAACAAC
1 AATGTTAATAGAGAAACTTAGATGATTATTTTAACTAACAAC
78920403 AATGTTAATAGAGAAACTTAGATGATTATTTTAACTAACAAC
1 AATGTTAATAGAGAAACTTAGATGATTATTTTAACTAACAAC
78920445 A
1 A
78920446 TGAACTTAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.45, C:0.09, G:0.13, T:0.33
Consensus pattern (42 bp):
AATGTTAATAGAGAAACTTAGATGATTATTTTAACTAACAAC
Found at i:78926584 original size:18 final size:16
Alignment explanation
Indices: 78926546--78926587 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
78926536 TTGATCTTAC
78926546 ATATATAATAAAATTA
1 ATATATAATAAAATTA
*
78926562 A-ATATAATAATATTA
1 ATATATAATAAAATTA
78926577 TATTATATAAT
1 -A-TATATAAT
78926588 TGTTTAAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 13 0.59
16 2 0.09
18 7 0.32
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (16 bp):
ATATATAATAAAATTA
Found at i:78928212 original size:23 final size:23
Alignment explanation
Indices: 78928186--78928229 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
78928176 AAATATGAAA
*
78928186 TTTTAAAAAATAAAAAA-ATTTC
1 TTTTTAAAAATAAAAAATATTTC
*
78928208 TTTTTCAAAATAAAAAATATTT
1 TTTTTAAAAATAAAAAATATTT
78928230 TTTCTTTGGA
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:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (23 bp):
TTTTTAAAAATAAAAAATATTTC
Found at i:78928224 original size:21 final size:21
Alignment explanation
Indices: 78928192--78928233 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
78928182 GAAATTTTAA
*
78928192 AAAATAAAAAAATTTCTTTTTC
1 AAAATAAAAAAATAT-TTTTTC
78928214 AAAAT-AAAAAATATTTTTTC
1 AAAATAAAAAAATATTTTTTC
78928234 TTTGGATGAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 6 0.32
21 8 0.42
22 5 0.26
ACGTcount: A:0.52, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
AAAATAAAAAAATATTTTTTC
Found at i:78928620 original size:22 final size:21
Alignment explanation
Indices: 78928590--78928648 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
78928580 TGTATGAATT
* *
78928590 TTTTAATTTTATTTTTGATTAA
1 TTTTGATTTTATTTTT-ATAAA
78928612 TTTTGATTTTAATTTTTATAAA
1 TTTTGATTTT-ATTTTTATAAA
*
78928634 TTTTGA-ATTATTTTT
1 TTTTGATTTTATTTTT
78928649 TGATGTGTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
20 6 0.18
21 2 0.06
22 19 0.58
23 6 0.18
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (21 bp):
TTTTGATTTTATTTTTATAAA
Found at i:78930259 original size:2 final size:2
Alignment explanation
Indices: 78930252--78930278 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
78930242 ATACATATGC
78930252 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
78930279 AAAGTTGGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:78932356 original size:3 final size:3
Alignment explanation
Indices: 78932348--78932381 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
78932338 GCCTTTCTTG
78932348 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA A
78932382 AAATGATTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:78942179 original size:8 final size:8
Alignment explanation
Indices: 78942166--78942196 Score: 62
Period size: 8 Copynumber: 3.9 Consensus size: 8
78942156 AAAGTGTTGC
78942166 TTTGGTTT
1 TTTGGTTT
78942174 TTTGGTTT
1 TTTGGTTT
78942182 TTTGGTTT
1 TTTGGTTT
78942190 TTTGGTT
1 TTTGGTT
78942197 CCCCTCTTAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.26, T:0.74
Consensus pattern (8 bp):
TTTGGTTT
Found at i:78945087 original size:28 final size:28
Alignment explanation
Indices: 78945047--78945106 Score: 102
Period size: 28 Copynumber: 2.1 Consensus size: 28
78945037 AAAAATCTCA
* *
78945047 TATTGGTCTTATACTAAGAGTTAAATTG
1 TATTAGTCTTATACTAAAAGTTAAATTG
78945075 TATTAGTCTTATACTAAAAGTTAAATTG
1 TATTAGTCTTATACTAAAAGTTAAATTG
78945103 TATT
1 TATT
78945107 TTGCCCTCTC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 30 1.00
ACGTcount: A:0.35, C:0.07, G:0.13, T:0.45
Consensus pattern (28 bp):
TATTAGTCTTATACTAAAAGTTAAATTG
Found at i:78946389 original size:9 final size:9
Alignment explanation
Indices: 78946377--78946401 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
78946367 TAATAATTTA
78946377 ATTTTTATT
1 ATTTTTATT
78946386 ATTTTTATT
1 ATTTTTATT
78946395 ATTTTTA
1 ATTTTTA
78946402 ATGAGATCAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
ATTTTTATT
Found at i:78947224 original size:26 final size:26
Alignment explanation
Indices: 78947195--78947245 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
78947185 TTTAAAAAAT
78947195 TTATTTGTTAAAATA-AGTTTTTTTAA
1 TTATTTGTTAAAATATA-TTTTTTTAA
* *
78947221 TTATTTTTTAGAATATATTTTTTTA
1 TTATTTGTTAAAATATATTTTTTTA
78947246 TTTACAGGTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 21 0.95
27 1 0.05
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (26 bp):
TTATTTGTTAAAATATATTTTTTTAA
Found at i:78950807 original size:13 final size:13
Alignment explanation
Indices: 78950789--78950813 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
78950779 TAATATATTT
78950789 ATTAATTAAAAAC
1 ATTAATTAAAAAC
78950802 ATTAATTAAAAA
1 ATTAATTAAAAA
78950814 TTAAAACAAC
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:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (13 bp):
ATTAATTAAAAAC
Found at i:78952259 original size:13 final size:14
Alignment explanation
Indices: 78952243--78952271 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
78952233 CAATCTCATA
78952243 TCTCAATT-TCAAT
1 TCTCAATTCTCAAT
78952256 TCTCAATTCTCAAT
1 TCTCAATTCTCAAT
78952270 TC
1 TC
78952272 AATTTCTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 8 0.53
14 7 0.47
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (14 bp):
TCTCAATTCTCAAT
Found at i:78952266 original size:20 final size:21
Alignment explanation
Indices: 78952230--78952280 Score: 65
Period size: 20 Copynumber: 2.6 Consensus size: 21
78952220 TGGTTCATGT
78952230 TTTCAA-TCTC-ATATCTCAA
1 TTTCAATTCTCAATATCTCAA
78952249 TTTCAATTCTCAAT-TCTCAA
1 TTTCAATTCTCAATATCTCAA
78952269 -TTCAATTTCTCA
1 TTTCAA-TTCTCA
78952281 TTTCATTCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.38
20 16 0.55
21 2 0.07
ACGTcount: A:0.29, C:0.25, G:0.00, T:0.45
Consensus pattern (21 bp):
TTTCAATTCTCAATATCTCAA
Found at i:78952284 original size:7 final size:7
Alignment explanation
Indices: 78952243--78952271 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
78952233 CAATCTCATA
78952243 TCTCAAT
1 TCTCAAT
78952250 T-TCAAT
1 TCTCAAT
78952256 TCTCAAT
1 TCTCAAT
78952263 TCTCAAT
1 TCTCAAT
78952270 TC
1 TC
78952272 AATTTCTCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
6 6 0.29
7 15 0.71
ACGTcount: A:0.28, C:0.28, G:0.00, T:0.45
Consensus pattern (7 bp):
TCTCAAT
Found at i:78952400 original size:23 final size:23
Alignment explanation
Indices: 78952370--78952418 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
78952360 TCTGATAGAT
78952370 ACCAGAATATCCAACCCAAACAC
1 ACCAGAATATCCAACCCAAACAC
78952393 ACCAGAATATCCAACCCAAACAC
1 ACCAGAATATCCAACCCAAACAC
78952416 ACC
1 ACC
78952419 CGGAATATTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.47, C:0.41, G:0.04, T:0.08
Consensus pattern (23 bp):
ACCAGAATATCCAACCCAAACAC
Found at i:78953581 original size:26 final size:26
Alignment explanation
Indices: 78953547--78953598 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
78953537 CTTCCCCTGC
78953547 TTTTCGTTTGCCTAT-TCTGTTTCTTT
1 TTTTCGTTT-CCTATCTCTGTTTCTTT
* * *
78953573 TTTTTGTTTCCTTTCTCTTTTTCTTT
1 TTTTCGTTTCCTATCTCTGTTTCTTT
78953599 ATTTATTTAC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.02, C:0.19, G:0.08, T:0.71
Consensus pattern (26 bp):
TTTTCGTTTCCTATCTCTGTTTCTTT
Found at i:78954718 original size:14 final size:14
Alignment explanation
Indices: 78954701--78954728 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
78954691 AAGGTAACGT
78954701 AACATACCTAACAA
1 AACATACCTAACAA
78954715 AACATACCTAACAA
1 AACATACCTAACAA
78954729 TGTGCTAAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.29, G:0.00, T:0.14
Consensus pattern (14 bp):
AACATACCTAACAA
Found at i:78960383 original size:30 final size:27
Alignment explanation
Indices: 78960329--78960383 Score: 74
Period size: 30 Copynumber: 1.9 Consensus size: 27
78960319 TAATTAAAAA
*
78960329 AATTAAAGTTGGTGTAAAGTTTAATAG
1 AATTAAAGTTGGTGTAAAATTTAATAG
78960356 AATTCAAAGTTTGGTGATAAAATTTAAT
1 AATT-AAAG-TTGGTG-TAAAATTTAAT
78960384 TACATAAGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
27 4 0.17
28 4 0.17
29 6 0.25
30 10 0.42
ACGTcount: A:0.42, C:0.02, G:0.18, T:0.38
Consensus pattern (27 bp):
AATTAAAGTTGGTGTAAAATTTAATAG
Found at i:78966917 original size:16 final size:17
Alignment explanation
Indices: 78966896--78966929 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
78966886 ATTAAAAGTA
78966896 AAGGAAAGATT-TTTAC
1 AAGGAAAGATTGTTTAC
*
78966912 AAGGAAAGGTTGTTTAC
1 AAGGAAAGATTGTTTAC
78966929 A
1 A
78966930 GAGAGGATAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.41, C:0.06, G:0.24, T:0.29
Consensus pattern (17 bp):
AAGGAAAGATTGTTTAC
Found at i:78968439 original size:25 final size:25
Alignment explanation
Indices: 78968386--78968443 Score: 66
Period size: 25 Copynumber: 2.3 Consensus size: 25
78968376 TGAAGCTTTT
* *
78968386 TTTTATTAGAAAAACAGGTAATTTT
1 TTTTATTAGAAAAACAGGTAAATTA
78968411 TTTTATTAGATCAAAA-A-GTAAATTA
1 TTTTATTAGA--AAAACAGGTAAATTA
78968436 TTTTATTA
1 TTTTATTA
78968444 TTATTATTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 24 0.83
26 1 0.03
27 4 0.14
ACGTcount: A:0.41, C:0.03, G:0.09, T:0.47
Consensus pattern (25 bp):
TTTTATTAGAAAAACAGGTAAATTA
Found at i:78975135 original size:16 final size:16
Alignment explanation
Indices: 78975111--78975170 Score: 57
Period size: 16 Copynumber: 3.6 Consensus size: 16
78975101 GTAATATTAT
78975111 TTAAAATAATGACTAA
1 TTAAAATAATGACTAA
* * * *
78975127 TTAACATAATTAAATTAT
1 TTAAAATAA-T-GACTAA
78975145 TTAAAATAATGACTAA
1 TTAAAATAATGACTAA
*
78975161 TTAATATAAT
1 TTAAAATAAT
78975171 TAACTCTAAT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
16 20 0.61
17 2 0.06
18 11 0.33
ACGTcount: A:0.53, C:0.05, G:0.03, T:0.38
Consensus pattern (16 bp):
TTAAAATAATGACTAA
Found at i:78975145 original size:34 final size:34
Alignment explanation
Indices: 78975106--78975173 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
78975096 GCAAAGTAAT
78975106 ATTATTTAAAATAATGACTAATTAACATAATTAA
1 ATTATTTAAAATAATGACTAATTAACATAATTAA
*
78975140 ATTATTTAAAATAATGACTAATTAATATAATTAA
1 ATTATTTAAAATAATGACTAATTAACATAATTAA
78975174 CTCTAATATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (34 bp):
ATTATTTAAAATAATGACTAATTAACATAATTAA
Found at i:78975423 original size:17 final size:18
Alignment explanation
Indices: 78975401--78975434 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
78975391 ATAATTGTAA
78975401 TTTAAAT-TCTAATTATT
1 TTTAAATATCTAATTATT
*
78975418 TTTAAATATTTAATTAT
1 TTTAAATATCTAATTAT
78975435 CATAGGTTCT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTAAATATCTAATTATT
Found at i:78977919 original size:20 final size:21
Alignment explanation
Indices: 78977885--78977925 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 21
78977875 TTTTGAAATT
78977885 TAGTCTTTATAATTTTGTTTC
1 TAGTCTTTATAATTTTGTTTC
*
78977906 TAGTCTTT-TAATTTTTTTTC
1 TAGTCTTTATAATTTTGTTTC
78977926 AAATTTTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.17, C:0.10, G:0.07, T:0.66
Consensus pattern (21 bp):
TAGTCTTTATAATTTTGTTTC
Found at i:78986644 original size:23 final size:23
Alignment explanation
Indices: 78986587--78986645 Score: 70
Period size: 23 Copynumber: 2.7 Consensus size: 23
78986577 ATTTTTAAAA
78986587 ATTTAAAATATAT-TTTTATCAT
1 ATTTAAAATATATATTTTATCAT
**
78986609 ATATTAATCTATA-ATTTTATCAT
1 AT-TTAAAATATATATTTTATCAT
78986632 -TTTAAAATATATAT
1 ATTTAAAATATATAT
78986646 ATATGTTTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 6
0.75 0.10 0.15
Matches are distributed among these distances:
21 8 0.27
22 5 0.17
23 17 0.57
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (23 bp):
ATTTAAAATATATATTTTATCAT
Found at i:78991075 original size:81 final size:81
Alignment explanation
Indices: 78990934--78991090 Score: 199
Period size: 81 Copynumber: 1.9 Consensus size: 81
78990924 TCTGAGAACC
* * * * * *
78990934 CTCATATGGATACTACTCCTCCTCTTGATAACCCCCATGACATGGGTAGTTCACACATAGATATT
1 CTCATATGGATACTACCCCTCATCTTGAAAACCCCAATGACATGGGCAGTCCACACATAGATATT
78990999 CAACAAGATCTCAACT
66 CAACAAGATCTCAACT
* * * *
78991015 CTCATATGGATACTCCCCCTCATAC-TGAAAACCCTAATGATATGGGCAGTCCACATATAGATAT
1 CTCATATGGATACTACCCCTCAT-CTTGAAAACCCCAATGACATGGGCAGTCCACACATAGATAT
*
78991079 TCATCAAGATCT
65 TCAACAAGATCT
78991091 GTTTCCAGAG
Statistics
Matches: 64, Mismatches: 11, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
81 63 0.98
82 1 0.02
ACGTcount: A:0.32, C:0.27, G:0.13, T:0.28
Consensus pattern (81 bp):
CTCATATGGATACTACCCCTCATCTTGAAAACCCCAATGACATGGGCAGTCCACACATAGATATT
CAACAAGATCTCAACT
Found at i:79000872 original size:24 final size:23
Alignment explanation
Indices: 79000842--79000890 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
79000832 AGCTATATTT
* *
79000842 AACTTTTTTATCAGTTTTTCTCTA
1 AACTTTTATATCAATTTTT-TCTA
79000866 AACTTTTATATCAATTTTTTCTA
1 AACTTTTATATCAATTTTTTCTA
79000889 AA
1 AA
79000891 TTTGTTAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 6 0.26
24 17 0.74
ACGTcount: A:0.29, C:0.14, G:0.02, T:0.55
Consensus pattern (23 bp):
AACTTTTATATCAATTTTTTCTA
Found at i:79000904 original size:23 final size:23
Alignment explanation
Indices: 79000842--79000909 Score: 57
Period size: 24 Copynumber: 2.9 Consensus size: 23
79000832 AGCTATATTT
** *
79000842 AACTTTTTTATCAGTTTTTCTCTA
1 AACTTTTAAATCAATTTTT-TCTA
*
79000866 AACTTTTATATCAATTTTTTCTA
1 AACTTTTAAATCAATTTTTTCTA
*
79000889 AATTTGTTAAAT-AATTATTTT
1 AACTT-TTAAATCAATT-TTTT
79000910 TTTACCCATA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.32
24 26 0.68
ACGTcount: A:0.29, C:0.10, G:0.03, T:0.57
Consensus pattern (23 bp):
AACTTTTAAATCAATTTTTTCTA
Found at i:79002230 original size:13 final size:13
Alignment explanation
Indices: 79002203--79002245 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
79002193 ATTTTGATTA
79002203 TATTAAAATTCTTT
1 TATT-AAATTCTTT
* *
79002217 TCTTAAATTTTTT
1 TATTAAATTCTTT
*
79002230 TATTAAATTCTCT
1 TATTAAATTCTTT
79002243 TAT
1 TAT
79002246 CTTTAAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
13 21 0.88
14 3 0.12
ACGTcount: A:0.30, C:0.09, G:0.00, T:0.60
Consensus pattern (13 bp):
TATTAAATTCTTT
Found at i:79002343 original size:21 final size:22
Alignment explanation
Indices: 79002318--79002367 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
79002308 TTCAAATACC
79002318 AAATTTTAATTATTT-ATATA-A
1 AAATTTTAA-TATTTCATATATA
*
79002339 TAATTTT-ATATTTCATATATA
1 AAATTTTAATATTTCATATATA
79002360 AAATTTTA
1 AAATTTTA
79002368 TAAATAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
19 5 0.21
20 6 0.25
21 13 0.54
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
AAATTTTAATATTTCATATATA
Found at i:79002377 original size:21 final size:22
Alignment explanation
Indices: 79002332--79002379 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
79002322 TTTAATTATT
** *
79002332 TATATAATAATTTTATATTTCA
1 TATATAATAATTTTATAAATAA
79002354 TATATAA-AATTTTATAAATAA
1 TATATAATAATTTTATAAATAA
79002375 TATAT
1 TATAT
79002380 TTATATAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 16 0.70
22 7 0.30
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
TATATAATAATTTTATAAATAA
Found at i:79002844 original size:31 final size:29
Alignment explanation
Indices: 79002787--79002851 Score: 69
Period size: 31 Copynumber: 2.2 Consensus size: 29
79002777 CTTTAATTAC
*
79002787 ATAAAATTTAAATTAAATCATTTAATAAATT
1 ATAAAATTTAAATTAAATCATGTAAT--ATT
* *
79002818 ATAAAA-TTATATATAACTCATGTAATATT
1 ATAAAATTTAAAT-TAAATCATGTAATATT
79002847 ATAAA
1 ATAAA
79002852 CTGGTAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
29 8 0.27
30 5 0.17
31 17 0.57
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.40
Consensus pattern (29 bp):
ATAAAATTTAAATTAAATCATGTAATATT
Found at i:79003606 original size:16 final size:16
Alignment explanation
Indices: 79003585--79003623 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
79003575 AATTTTTTGG
79003585 ATCATTTTAAGTTTTA
1 ATCATTTTAAGTTTTA
** *
79003601 ATCATTTTGGGTTTTG
1 ATCATTTTAAGTTTTA
79003617 ATCATTT
1 ATCATTT
79003624 AGGTTGTTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.23, C:0.08, G:0.13, T:0.56
Consensus pattern (16 bp):
ATCATTTTAAGTTTTA
Found at i:79005639 original size:40 final size:35
Alignment explanation
Indices: 79005554--79005722 Score: 171
Period size: 35 Copynumber: 4.7 Consensus size: 35
79005544 TTTCCTCATT
** *
79005554 GAAATACCATACCTACATTTTTCAACTCGGTATGG
1 GAAATACCATACCTACATTTCACAACTCAGTATGG
* **
79005589 GAAATGCCATACCTACATTTCTTAACTCAGTATGG
1 GAAATACCATACCTACATTTCACAACTCAGTATGG
*
79005624 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-G
1 ----GA-AATACCATACCTACATTTCACAACTCAGTATGG
*
79005663 GATAATACCATACCTACATTTCACAACTCAATAT-G
1 GA-AATACCATACCTACATTTCACAACTCAGTATGG
* *
79005698 GATGATACTATACCTACATTTCACA
1 GA-AATACCATACCTACATTTCACA
79005723 CTTTGCCATG
Statistics
Matches: 117, Mismatches: 12, Indels: 10
0.84 0.09 0.07
Matches are distributed among these distances:
35 87 0.74
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.31
Consensus pattern (35 bp):
GAAATACCATACCTACATTTCACAACTCAGTATGG
Found at i:79005639 original size:75 final size:74
Alignment explanation
Indices: 79005552--79005722 Score: 208
Period size: 75 Copynumber: 2.4 Consensus size: 74
79005542 GTTTTCCTCA
** * * **
79005552 TTGAAATACCATACCTACATTTTTCAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAACT
1 TTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAACT
*
79005616 CAGTATGGAT
65 CAATATGGAT
*
79005626 TTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAACT
1 TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
79005691 CAATATGGA-
65 CAATATGGAT
*
79005700 -TG--ATACTATACCTACATTTCACA
1 TTGAAATACCATACCTACATTTCACA
79005723 CTTTGCCATG
Statistics
Matches: 86, Mismatches: 9, Indels: 8
0.83 0.09 0.08
Matches are distributed among these distances:
70 20 0.23
73 2 0.02
74 7 0.08
75 57 0.66
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (74 bp):
TTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACTC
AATATGGAT
Found at i:79007127 original size:17 final size:18
Alignment explanation
Indices: 79007086--79007137 Score: 79
Period size: 17 Copynumber: 2.9 Consensus size: 18
79007076 ATTTCTAATC
*
79007086 ACTTATTTTACCATAAGCT
1 ACTTATTTTACCAT-AGCA
79007105 ACTTATTTTACCAT-GCA
1 ACTTATTTTACCATAGCA
79007122 ACTTATTTTACCATAG
1 ACTTATTTTACCATAG
79007138 TTCATAAATT
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
17 16 0.52
18 1 0.03
19 14 0.45
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (18 bp):
ACTTATTTTACCATAGCA
Found at i:79009898 original size:16 final size:16
Alignment explanation
Indices: 79009868--79009897 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
79009858 TTAATTATGA
79009868 AAAAAAAAATGAAAAC
1 AAAAAAAAATGAAAAC
79009884 AAAAAAAAA-GAAAA
1 AAAAAAAAATGAAAA
79009898 AGAAAGAAGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.87, C:0.03, G:0.07, T:0.03
Consensus pattern (16 bp):
AAAAAAAAATGAAAAC
Found at i:79010316 original size:28 final size:28
Alignment explanation
Indices: 79010285--79010338 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
79010275 TTTTTATATG
*
79010285 ATTTTTCTATTTATTGTTAC-ATTATTTT
1 ATTTTTATATTTATT-TTACAATTATTTT
*
79010313 ATTTTTATTTTTATTTTACAATTATT
1 ATTTTTATATTTATTTTACAATTATT
79010339 GCTAATTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 4 0.17
28 19 0.83
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.69
Consensus pattern (28 bp):
ATTTTTATATTTATTTTACAATTATTTT
Found at i:79010351 original size:28 final size:27
Alignment explanation
Indices: 79010285--79010351 Score: 64
Period size: 28 Copynumber: 2.3 Consensus size: 27
79010275 TTTTTATATG
*
79010285 ATTTTTCTATTTATTGTTACATTATTTTA
1 ATTTTT-T-TTTATTGTTACATTATTCTA
*
79010314 TTTTTATTTTTATT-TTACAATTATTGCTA
1 ATTTT-TTTTTATTGTTAC-ATTATT-CTA
79010343 ATTTTTTTT
1 ATTTTTTTT
79010352 AAAAAGATCA
Statistics
Matches: 32, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
27 4 0.12
28 16 0.50
29 11 0.34
30 1 0.03
ACGTcount: A:0.22, C:0.06, G:0.03, T:0.69
Consensus pattern (27 bp):
ATTTTTTTTTATTGTTACATTATTCTA
Found at i:79011568 original size:20 final size:20
Alignment explanation
Indices: 79011539--79011578 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
79011529 AATCAACATT
* *
79011539 AAATAGAAGAAGTAAACTTC
1 AAATAAAAGAAATAAACTTC
79011559 AAATAAAAGAAATAAACTTC
1 AAATAAAAGAAATAAACTTC
79011579 TATACTAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.20
Consensus pattern (20 bp):
AAATAAAAGAAATAAACTTC
Found at i:79011605 original size:26 final size:23
Alignment explanation
Indices: 79011570--79011621 Score: 61
Period size: 24 Copynumber: 2.1 Consensus size: 23
79011560 AATAAAAGAA
79011570 ATAAACTTC-TATACTAATGCCACTT
1 ATAAACTTCTTAT-CT--TGCCACTT
79011595 ATAAATCTTCTTATCTTGCCACTT
1 ATAAA-CTTCTTATCTTGCCACTT
79011619 ATA
1 ATA
79011622 TTTTATTTTC
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
24 11 0.44
25 5 0.20
26 6 0.24
27 3 0.12
ACGTcount: A:0.33, C:0.23, G:0.04, T:0.40
Consensus pattern (23 bp):
ATAAACTTCTTATCTTGCCACTT
Found at i:79012845 original size:55 final size:55
Alignment explanation
Indices: 79012747--79012855 Score: 141
Period size: 55 Copynumber: 2.0 Consensus size: 55
79012737 TTATAGATTT
* *
79012747 GAATAGGGTTTCAATGAATCCTAATTCATAAGCGCTTTGGAGTCTAAGTCTAATC
1 GAATAGGGTTTCAATGAATCCTAATTCACAAGCGCTTTAGAGTCTAAGTCTAATC
* **
79012802 GAATTGGGTTTCAATGAATCCTAATTCAACAAG-G-TATTAGAGTCTGGGTCTAAT
1 GAATAGGGTTTCAATGAATCCTAATTC-ACAAGCGCT-TTAGAGTCTAAGTCTAAT
79012856 TACTCTCCTC
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
54 1 0.02
55 42 0.89
56 4 0.09
ACGTcount: A:0.31, C:0.15, G:0.21, T:0.33
Consensus pattern (55 bp):
GAATAGGGTTTCAATGAATCCTAATTCACAAGCGCTTTAGAGTCTAAGTCTAATC
Found at i:79016200 original size:19 final size:19
Alignment explanation
Indices: 79016165--79016202 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
79016155 AGCTATCAAG
**
79016165 ATTATATTATATTGCATTA
1 ATTATATTATAAAGCATTA
79016184 ATTATATTATAAAGCATTA
1 ATTATATTATAAAGCATTA
79016203 TATGGTATTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (19 bp):
ATTATATTATAAAGCATTA
Found at i:79022839 original size:3 final size:3
Alignment explanation
Indices: 79022833--79022859 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
79022823 ATGGGAGTTC
79022833 AAG AAG AAG AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG
79022860 CCTTCATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AAG
Done.