Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
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: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 183 of 190
Found at i:31122208 original size:22 final size:21
Alignment explanation
Indices: 31122170--31122211 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
31122160 TAAACATGAG
31122170 ATAAAAATAATATTTTAAAAA
1 ATAAAAATAATATTTTAAAAA
31122191 ATAAAAA-AATATGATTTAAAA
1 ATAAAAATAATAT--TTTAAAA
31122212 TTTTTAATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 7 0.37
22 7 0.37
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (21 bp):
ATAAAAATAATATTTTAAAAA
Found at i:31124969 original size:22 final size:22
Alignment explanation
Indices: 31124933--31124976 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
31124923 GAAGTTTGAA
* *
31124933 TCCCTCTTCATATCTAAATGCC
1 TCCCTCGTCACATCTAAATGCC
31124955 TCCCTCGTCACATCTAAATGCC
1 TCCCTCGTCACATCTAAATGCC
31124977 CTATTACTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.39, G:0.07, T:0.32
Consensus pattern (22 bp):
TCCCTCGTCACATCTAAATGCC
Found at i:31131786 original size:26 final size:26
Alignment explanation
Indices: 31131757--31131812 Score: 60
Period size: 26 Copynumber: 2.2 Consensus size: 26
31131747 ATTATTTATC
31131757 AAATAAAAAATTTT-AATAAATTATTT
1 AAATAAAAAATTTTGAAT-AATTATTT
** * *
31131783 AAATTGAATATTTTGGATAATTATTT
1 AAATAAAAAATTTTGAATAATTATTT
31131809 AAAT
1 AAAT
31131813 TGAAATCAAA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
26 23 0.92
27 2 0.08
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (26 bp):
AAATAAAAAATTTTGAATAATTATTT
Found at i:31133531 original size:2 final size:2
Alignment explanation
Indices: 31133524--31133571 Score: 87
Period size: 2 Copynumber: 24.0 Consensus size: 2
31133514 CCAGTCGTAT
*
31133524 TA TA TA TA TA TA TA TA TA TA AA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31133566 TA TA TA
1 TA TA TA
31133572 GAGAGAGAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:31133576 original size:2 final size:2
Alignment explanation
Indices: 31133571--31133595 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
31133561 ATATATATAT
31133571 AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG A
31133596 TTGGGTAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:31135997 original size:17 final size:18
Alignment explanation
Indices: 31135956--31136005 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 18
31135946 AACAAATTTT
*
31135956 TATTTTTAAAAAATTAAA
1 TATTTTAAAAAAATTAAA
* *
31135974 AAATTTAAAAAAATT-AA
1 TATTTTAAAAAAATTAAA
31135991 TATTTTACAAAAAAT
1 TATTTTA-AAAAAAT
31136006 CGTACAAAAA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
17 7 0.27
18 19 0.73
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (18 bp):
TATTTTAAAAAAATTAAA
Found at i:31137309 original size:53 final size:55
Alignment explanation
Indices: 31137242--31137353 Score: 183
Period size: 53 Copynumber: 2.0 Consensus size: 55
31137232 AAAAAAAGAA
31137242 AGCAGAAATGAGAAAATGAATAAGAA-TTTA-TTATTTATGAGTAAAAGTTAAAG
1 AGCAGAAATGAGAAAATGAATAAGAATTTTATTTATTTATGAGTAAAAGTTAAAG
31137295 AGCAGAAATGAGAAAATGAATAAGAATTTTTTTATTTATTTATGAGTAAAAGTTAAAG
1 AGCAGAAATGAGAAAATGAATAAGAA---TTTTATTTATTTATGAGTAAAAGTTAAAG
31137353 A
1 A
31137354 TTTTCGTTGC
Statistics
Matches: 54, Mismatches: 0, Indels: 5
0.92 0.00 0.08
Matches are distributed among these distances:
53 26 0.48
57 4 0.07
58 24 0.44
ACGTcount: A:0.49, C:0.02, G:0.18, T:0.31
Consensus pattern (55 bp):
AGCAGAAATGAGAAAATGAATAAGAATTTTATTTATTTATGAGTAAAAGTTAAAG
Found at i:31143041 original size:2 final size:2
Alignment explanation
Indices: 31143034--31143069 Score: 65
Period size: 2 Copynumber: 18.5 Consensus size: 2
31143024 GCTTCAAGGT
31143034 TC TC TC TC TC TC TC T- TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
31143070 TGCAAGCACT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.00, C:0.47, G:0.00, T:0.53
Consensus pattern (2 bp):
TC
Found at i:31169442 original size:12 final size:12
Alignment explanation
Indices: 31169425--31169455 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
31169415 TGAACCAAAT
31169425 TATATATTTATA
1 TATATATTTATA
31169437 TATATATTTATA
1 TATATATTTATA
*
31169449 TTTATAT
1 TATATAT
31169456 AAAATAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (12 bp):
TATATATTTATA
Found at i:31171385 original size:21 final size:20
Alignment explanation
Indices: 31171362--31171400 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
31171352 ATTTATGTTT
31171362 TTTTTTTA-ATTTTTAAAATA
1 TTTTTTTATA-TTTTAAAATA
31171382 TTTTTTTATATTTTAAAAT
1 TTTTTTTATATTTTAAAAT
31171401 TATACTTTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 17 0.94
21 1 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (20 bp):
TTTTTTTATATTTTAAAATA
Found at i:31172160 original size:25 final size:25
Alignment explanation
Indices: 31172132--31172185 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
31172122 TTAATTAAAA
* *
31172132 TTAATATATTTTTATTAAAATA-TAT
1 TTAATATATATTTA-TAAAAAAGTAT
31172157 TTAATATATATTTATAAAAAAGTAT
1 TTAATATATATTTATAAAAAAGTAT
31172182 TTAA
1 TTAA
31172186 ACATATAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
TTAATATATATTTATAAAAAAGTAT
Found at i:31172191 original size:26 final size:25
Alignment explanation
Indices: 31172132--31172192 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 25
31172122 TTAATTAAAA
* * *
31172132 TTAATATATTTTTATTAAAATATAT
1 TTAACATATATTTATTAAAAAATAT
*
31172157 TTAATATATATTTA-TAAAAAAGTAT
1 TTAACATATATTTATTAAAAAA-TAT
31172182 TTAAACATATA
1 TT-AACATATA
31172193 AAATAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 18 0.58
26 7 0.23
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
TTAACATATATTTATTAAAAAATAT
Found at i:31175734 original size:10 final size:10
Alignment explanation
Indices: 31175710--31175739 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
31175700 TATTTTATCA
31175710 ATTAAAATA-
1 ATTAAAATAT
31175719 ATTAAAATAT
1 ATTAAAATAT
31175729 ATTAAAATAT
1 ATTAAAATAT
31175739 A
1 A
31175740 AAAACTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
ATTAAAATAT
Found at i:31180870 original size:20 final size:22
Alignment explanation
Indices: 31180831--31180872 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 22
31180821 TATCATTATA
31180831 TAAATAAATATAAATAAAAAAT
1 TAAATAAATATAAATAAAAAAT
*
31180853 TAAA-AAAT-TAATTAAAAAAT
1 TAAATAAATATAAATAAAAAAT
31180873 AATTTTTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 11 0.58
21 4 0.21
22 4 0.21
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (22 bp):
TAAATAAATATAAATAAAAAAT
Found at i:31189164 original size:27 final size:26
Alignment explanation
Indices: 31189121--31189195 Score: 80
Period size: 27 Copynumber: 2.8 Consensus size: 26
31189111 TTTAAATGAT
* * *
31189121 ATTAAAATATTTGATATAATATTTAA
1 ATTAAAATTTTTAATATAATATTAAA
*
31189147 GTTAAAAATTTTTAATATAATATTAAA
1 ATT-AAAATTTTTAATATAATATTAAA
*
31189174 ATTATAATTTATTAAT-TAATAT
1 ATTAAAATTT-TTAATATAATAT
31189196 AATATTTTTA
Statistics
Matches: 41, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
26 14 0.34
27 27 0.66
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (26 bp):
ATTAAAATTTTTAATATAATATTAAA
Found at i:31189293 original size:15 final size:15
Alignment explanation
Indices: 31189265--31189335 Score: 62
Period size: 15 Copynumber: 5.0 Consensus size: 15
31189255 GAATATTATA
*
31189265 ATAATTTATATATTT
1 ATAATTTAAATATTT
*
31189280 ATAATTTAAGTA-TT
1 ATAATTTAAATATTT
*
31189294 AT-ATTATAAATTTTT
1 ATAATT-TAAATATTT
*
31189309 AAAATTTAAATATTT
1 ATAATTTAAATATTT
31189324 -T-A-TTAAATATTT
1 ATAATTTAAATATTT
31189336 TATTATAATT
Statistics
Matches: 46, Mismatches: 7, Indels: 9
0.74 0.11 0.15
Matches are distributed among these distances:
12 10 0.22
13 4 0.09
14 8 0.17
15 21 0.46
16 3 0.07
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (15 bp):
ATAATTTAAATATTT
Found at i:31189315 original size:29 final size:29
Alignment explanation
Indices: 31189272--31189336 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
31189262 ATAATAATTT
* * *
31189272 ATATATTTATAATTTAAGTATTATATTATA
1 ATATTTTTAAAATTTAAATATTATATTA-A
*
31189302 A-ATTTTTAAAATTTAAATATTTTATTAA
1 ATATTTTTAAAATTTAAATATTATATTAA
31189330 ATATTTT
1 ATATTTT
31189337 ATTATAATTC
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 2 0.07
29 27 0.90
30 1 0.03
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (29 bp):
ATATTTTTAAAATTTAAATATTATATTAA
Found at i:31189331 original size:12 final size:12
Alignment explanation
Indices: 31189314--31189340 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
31189304 TTTTTAAAAT
31189314 TTAAATATTTTA
1 TTAAATATTTTA
31189326 TTAAATATTTTA
1 TTAAATATTTTA
31189338 TTA
1 TTA
31189341 TAATTCGTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
TTAAATATTTTA
Found at i:31189607 original size:17 final size:18
Alignment explanation
Indices: 31189566--31189610 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
31189556 AAATTTGATT
*
31189566 TTAATCGAA-TTAATTTAG
1 TTAATC-AATTTAATTCAG
31189584 TTAATCAATTTAATTCAG
1 TTAATCAATTTAATTCAG
31189602 TT-ATCAATT
1 TTAATCAATT
31189611 GATTATTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 9 0.36
18 16 0.64
ACGTcount: A:0.38, C:0.09, G:0.07, T:0.47
Consensus pattern (18 bp):
TTAATCAATTTAATTCAG
Found at i:31191063 original size:16 final size:15
Alignment explanation
Indices: 31191044--31191086 Score: 50
Period size: 16 Copynumber: 2.8 Consensus size: 15
31191034 AATTATTTTA
*
31191044 TATATATTTATATACT
1 TATATATTTAAATA-T
*
31191060 TATACATTTAAATAT
1 TATATATTTAAATAT
*
31191075 TTTATATTTAAA
1 TATATATTTAAA
31191087 AATAATATTT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
15 11 0.48
16 12 0.52
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (15 bp):
TATATATTTAAATAT
Found at i:31192759 original size:22 final size:24
Alignment explanation
Indices: 31192733--31192782 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
31192723 GTGGCAGTTT
*
31192733 TATTTATAA-ATGAAA-AATAAAA
1 TATTTATAAGATAAAATAATAAAA
* *
31192755 TATTTGTAAGATAAAATAATAACA
1 TATTTATAAGATAAAATAATAAAA
31192779 TATT
1 TATT
31192783 AAGTAGATAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
23 5 0.22
24 10 0.43
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.36
Consensus pattern (24 bp):
TATTTATAAGATAAAATAATAAAA
Found at i:31198824 original size:31 final size:31
Alignment explanation
Indices: 31198786--31198850 Score: 130
Period size: 31 Copynumber: 2.1 Consensus size: 31
31198776 TTTTGAGACA
31198786 ACTATAGAATACCATAATCAAGATTCAGAAC
1 ACTATAGAATACCATAATCAAGATTCAGAAC
31198817 ACTATAGAATACCATAATCAAGATTCAGAAC
1 ACTATAGAATACCATAATCAAGATTCAGAAC
31198848 ACT
1 ACT
31198851 CCTCCCGTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.48, C:0.20, G:0.09, T:0.23
Consensus pattern (31 bp):
ACTATAGAATACCATAATCAAGATTCAGAAC
Found at i:31201549 original size:11 final size:11
Alignment explanation
Indices: 31201507--31201559 Score: 52
Period size: 11 Copynumber: 4.5 Consensus size: 11
31201497 GGTCAACTTT
*
31201507 AATAATTTAAA
1 AATAATATAAA
*
31201518 ATATAATACAATA
1 A-ATAATATAA-A
31201531 ACATAATATAAA
1 A-ATAATATAAA
*
31201543 TATAATATAAA
1 AATAATATAAA
31201554 AATAAT
1 AATAAT
31201560 TTAATTTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
11 16 0.47
12 8 0.24
13 10 0.29
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAATATAAA
Found at i:31202103 original size:45 final size:44
Alignment explanation
Indices: 31202015--31202103 Score: 115
Period size: 45 Copynumber: 2.0 Consensus size: 44
31202005 AGATTTCACA
*
31202015 AGGAAACCTAACCTTCGTATCATAAAAGGAAATGAAAATATTTT
1 AGGAAACCTAACCTTCGTATCATAAAAGGAAATGAAAACATTTT
* * * * *
31202059 AGGAAACCTAAATCTTCGTATCGTTAAAGGAATTGAAAGCATTTT
1 AGGAAACCT-AACCTTCGTATCATAAAAGGAAATGAAAACATTTT
31202104 GGCTAACTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
44 9 0.24
45 29 0.76
ACGTcount: A:0.42, C:0.13, G:0.16, T:0.29
Consensus pattern (44 bp):
AGGAAACCTAACCTTCGTATCATAAAAGGAAATGAAAACATTTT
Found at i:31202307 original size:2 final size:2
Alignment explanation
Indices: 31202300--31202344 Score: 81
Period size: 2 Copynumber: 22.5 Consensus size: 2
31202290 GATATTCCCC
*
31202300 TA TA TA TA TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31202342 TA T
1 TA T
31202345 TACACTTTAA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (2 bp):
TA
Found at i:31202472 original size:14 final size:14
Alignment explanation
Indices: 31202455--31202491 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
31202445 TCATATAATT
31202455 TTTTAAAAATAAAA
1 TTTTAAAAATAAAA
*
31202469 TTTTGAAAATAAAA
1 TTTTAAAAATAAAA
31202483 TTTTAAAAA
1 TTTTAAAAA
31202492 ATTATATGAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (14 bp):
TTTTAAAAATAAAA
Found at i:31202477 original size:15 final size:15
Alignment explanation
Indices: 31202435--31202493 Score: 57
Period size: 14 Copynumber: 3.7 Consensus size: 15
31202425 AGAAACGGAT
31202435 TTTTAAAAAATCATATAA
1 TTTTAAAAAAT-A-A-AA
*
31202453 TTTTTTAAAAATAAAA
1 -TTTTAAAAAATAAAA
*
31202469 TTTT-GAAAATAAAA
1 TTTTAAAAAATAAAA
31202483 TTTTAAAAAAT
1 TTTTAAAAAAT
31202494 TATATGATTT
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
14 13 0.36
15 9 0.25
16 2 0.06
17 1 0.03
18 1 0.03
19 10 0.28
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (15 bp):
TTTTAAAAAATAAAA
Found at i:31202619 original size:34 final size:34
Alignment explanation
Indices: 31202581--31202742 Score: 148
Period size: 34 Copynumber: 4.8 Consensus size: 34
31202571 TATCATCTCC
** **
31202581 TAAAAATGAATTTTTAAAAAATTATTTAACCTTT
1 TAAAAATTTATTTTTAAAAAATTATTTAATTTTT
* ** * *
31202615 TAAAAGTTTATTTTCGAAAAATT-TTATGATATTT
1 TAAAAATTTATTTTTAAAAAATTATT-TAATTTTT
* *
31202649 TAAAATTTTATTTTTAAAAAATTATATAATTTTT
1 TAAAAATTTATTTTTAAAAAATTATTTAATTTTT
* * * * *
31202683 TAAAAATTCATTTTCAAAAAGTT-TATGATTTTT
1 TAAAAATTTATTTTTAAAAAATTATTTAATTTTT
*
31202716 CAAAAATTTATTTTTAAAAAATTATTT
1 TAAAAATTTATTTTTAAAAAATTATTT
31202743 GAAAGGAAAA
Statistics
Matches: 101, Mismatches: 24, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
33 30 0.30
34 70 0.69
35 1 0.01
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (34 bp):
TAAAAATTTATTTTTAAAAAATTATTTAATTTTT
Found at i:31202662 original size:68 final size:67
Alignment explanation
Indices: 31202590--31202742 Score: 218
Period size: 67 Copynumber: 2.3 Consensus size: 67
31202580 CTAAAAATGA
* * *
31202590 ATTTTTAAAAAATTATTTAACCTTTTAAAAGTTTATTTTCGAAAAATTTTATGATATTTT-AAAA
1 ATTTTTAAAAAATTATTTAACCTTTTAAAAATTCATTTTC-AAAAAGTTTATGAT-TTTTCAAAA
*
31202654 TTTT
64 ATTT
* **
31202658 ATTTTTAAAAAATTATATAATTTTTTAAAAATTCATTTTCAAAAAGTTTATGATTTTTCAAAAAT
1 ATTTTTAAAAAATTATTTAACCTTTTAAAAATTCATTTTCAAAAAGTTTATGATTTTTCAAAAAT
31202723 TT
66 TT
31202725 ATTTTTAAAAAATTATTT
1 ATTTTTAAAAAATTATTT
31202743 GAAAGGAAAA
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
66 4 0.05
67 37 0.49
68 35 0.46
ACGTcount: A:0.42, C:0.04, G:0.03, T:0.51
Consensus pattern (67 bp):
ATTTTTAAAAAATTATTTAACCTTTTAAAAATTCATTTTCAAAAAGTTTATGATTTTTCAAAAAT
TT
Found at i:31202755 original size:67 final size:68
Alignment explanation
Indices: 31202624--31202757 Score: 157
Period size: 67 Copynumber: 2.0 Consensus size: 68
31202614 TTAAAAGTTT
* * *****
31202624 ATTTTCGAAAAATTTTATGATATTTTAAAATTTTATTTTTAAAAAATTATATAATTTTTTAAAAA
1 ATTTTCGAAAAAGTTTATGATATTTTAAAAATTTATTTTTAAAAAATTATATAATAGGAAAAAAA
31202689 TTC
66 TTC
*
31202692 ATTTTC-AAAAAGTTTATGAT-TTTTCAAAAATTTATTTTTAAAAAATTATTTGAA-AGGAAAAA
1 ATTTTCGAAAAAGTTTATGATATTTT-AAAAATTTATTTTTAAAAAATTATAT-AATAGGAAAAA
31202754 AATT
64 AATT
31202758 AAATCATTTC
Statistics
Matches: 56, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
66 4 0.07
67 44 0.79
68 8 0.14
ACGTcount: A:0.45, C:0.03, G:0.05, T:0.47
Consensus pattern (68 bp):
ATTTTCGAAAAAGTTTATGATATTTTAAAAATTTATTTTTAAAAAATTATATAATAGGAAAAAAA
TTC
Found at i:31210135 original size:69 final size:68
Alignment explanation
Indices: 31210002--31210141 Score: 185
Period size: 69 Copynumber: 2.0 Consensus size: 68
31209992 TTATGCACCA
* * * *
31210002 TTTCAACACAAATAAACACATATCCATATATATCCATTCATTATACCTATGTGAATCCTTTCAGT
1 TTTCAACACAAACAAACACATATCCATATATATCCATTCATCATACATATGTGAATCCTCTCAGT
31210067 CTTC
66 C-TC
* *
31210071 TTTCAACATAAACAAACACATA-CTCATATATATCCATTCATCATACATATGTGGA-CTCTCTCA
1 TTTCAACACAAACAAACACATATC-CATATATATCCATTCATCATACATATGTGAATC-CTCTCA
31210134 GTCTC
64 GTCTC
31210139 TTT
1 TTT
31210142 TAGTTCACTC
Statistics
Matches: 63, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
68 7 0.11
69 56 0.89
ACGTcount: A:0.34, C:0.25, G:0.05, T:0.36
Consensus pattern (68 bp):
TTTCAACACAAACAAACACATATCCATATATATCCATTCATCATACATATGTGAATCCTCTCAGT
CTC
Found at i:31210506 original size:21 final size:22
Alignment explanation
Indices: 31210482--31210538 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
31210472 TTTTTGTTCA
*
31210482 TTAAATAATAT-T-TAATAAATT
1 TTAAATAA-ATCTCTAACAAATT
31210503 TTAAATAAATCTCTAACAAATT
1 TTAAATAAATCTCTAACAAATT
*
31210525 TCAAATAAATCTCT
1 TTAAATAAATCTCT
31210539 TATGTGATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
20 2 0.06
21 9 0.28
22 21 0.66
ACGTcount: A:0.49, C:0.11, G:0.00, T:0.40
Consensus pattern (22 bp):
TTAAATAAATCTCTAACAAATT
Found at i:31212473 original size:20 final size:20
Alignment explanation
Indices: 31212431--31212473 Score: 52
Period size: 20 Copynumber: 2.1 Consensus size: 20
31212421 GAAATTGTTA
* *
31212431 AAAATTAAATTTTGATCATT
1 AAAATTAAATTTTGATAAAT
31212451 AAAATTAAAATTTT-ATAAAT
1 AAAATT-AAATTTTGATAAAT
31212471 AAA
1 AAA
31212474 TTACAGATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 13 0.65
21 7 0.35
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (20 bp):
AAAATTAAATTTTGATAAAT
Found at i:31213025 original size:8 final size:8
Alignment explanation
Indices: 31213012--31213048 Score: 56
Period size: 8 Copynumber: 4.4 Consensus size: 8
31213002 AATTTTAATA
31213012 TATTTTAT
1 TATTTTAT
31213020 TATTTTAAT
1 TATTTT-AT
31213029 TAATTTTAT
1 T-ATTTTAT
31213038 TATTTTAT
1 TATTTTAT
31213046 TAT
1 TAT
31213049 ATATATATAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 16 0.59
9 6 0.22
10 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (8 bp):
TATTTTAT
Found at i:31213026 original size:18 final size:18
Alignment explanation
Indices: 31213003--31213050 Score: 71
Period size: 18 Copynumber: 2.7 Consensus size: 18
31212993 GAGTTATTAA
31213003 ATTTTAATATATTTTATT
1 ATTTTAATATATTTTATT
31213021 ATTTTAAT-TAATTTTATT
1 ATTTTAATAT-ATTTTATT
*
31213039 ATTTTATTATAT
1 ATTTTAATATAT
31213051 ATATATAGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
17 1 0.04
18 25 0.93
19 1 0.04
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (18 bp):
ATTTTAATATATTTTATT
Found at i:31216799 original size:24 final size:24
Alignment explanation
Indices: 31216754--31216820 Score: 71
Period size: 24 Copynumber: 2.7 Consensus size: 24
31216744 ATTTAAATAT
* * *
31216754 TAATTTTAATAAAATATATTTAATTA
1 TAATTATAAT-AAAT-TTTTTAATCA
*
31216780 TGATTATAATAAATTTTTTAATCA
1 TAATTATAATAAATTTTTTAATCA
*
31216804 TAATTATAATAACTTTT
1 TAATTATAATAAATTTT
31216821 ATTATTGATG
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
24 23 0.66
25 4 0.11
26 8 0.23
ACGTcount: A:0.45, C:0.03, G:0.01, T:0.51
Consensus pattern (24 bp):
TAATTATAATAAATTTTTTAATCA
Found at i:31217776 original size:2 final size:2
Alignment explanation
Indices: 31217769--31217803 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
31217759 CTCCCTTCCG
31217769 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
31217804 ATCAAGTGAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:31228591 original size:30 final size:30
Alignment explanation
Indices: 31228555--31228614 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
31228545 GTTCCTTTGG
*
31228555 AAGGGAAGTACAGGAAGATTCAAAAAACTA
1 AAGGGAAGTACAGGAAGATTAAAAAAACTA
31228585 AAGGGAAGTACAGGAAGATTAAAAAAACTA
1 AAGGGAAGTACAGGAAGATTAAAAAAACTA
31228615 GTAAAGTGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.23, T:0.13
Consensus pattern (30 bp):
AAGGGAAGTACAGGAAGATTAAAAAAACTA
Found at i:31231892 original size:68 final size:69
Alignment explanation
Indices: 31231808--31231945 Score: 260
Period size: 70 Copynumber: 2.0 Consensus size: 69
31231798 AGATCACACC
31231808 AGACCACCAGAGTCTC-TATATATATATATATATATCATTCTTTATCCACCCACATATCTTCCTG
1 AGACCACCAGAGTCTCATATATATATATATATATATCATTCTTTATCCACCCACATATCTTCCTG
31231872 ATGT
66 ATGT
31231876 AGACCACCAGAGTCTCTATATATATATATATATATATCATTCTTTATCCACCCACATATCTTCCT
1 AGACCACCAGAGTCTC-ATATATATATATATATATATCATTCTTTATCCACCCACATATCTTCCT
31231941 GATGT
65 GATGT
31231946 GGGATTGGGG
Statistics
Matches: 68, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
68 16 0.24
70 52 0.76
ACGTcount: A:0.31, C:0.25, G:0.07, T:0.37
Consensus pattern (69 bp):
AGACCACCAGAGTCTCATATATATATATATATATATCATTCTTTATCCACCCACATATCTTCCTG
ATGT
Found at i:31239857 original size:51 final size:51
Alignment explanation
Indices: 31239760--31239863 Score: 138
Period size: 51 Copynumber: 2.0 Consensus size: 51
31239750 TGAATAAGAA
* * * * *
31239760 GACTTGTAAAATAATAATTCTAAAAGAAAATGGATTCTTAATAGGTAAGTTT
1 GACTTGCAAAAGAAGAATTATAAAAGAAAA-GGATTCTTAATAGGTAAATTT
31239812 GACTTGCAAAAGAAGAATTATAAAAG-AAAGAGATTCTTAATAGGTAAATTT
1 GACTTGCAAAAGAAGAATTATAAAAGAAAAG-GATTCTTAATAGGTAAATTT
31239863 G
1 G
31239864 TATCCTTATA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
50 1 0.02
51 23 0.50
52 22 0.48
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.31
Consensus pattern (51 bp):
GACTTGCAAAAGAAGAATTATAAAAGAAAAGGATTCTTAATAGGTAAATTT
Found at i:31242342 original size:31 final size:31
Alignment explanation
Indices: 31242297--31242370 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
31242287 CCTTTTGACT
* * *
31242297 TAACAA-TAGTATCAGAGTTGTGGTAATCTC
1 TAACAAGTAATATCAGAGTTGTAGTAATATC
31242327 TAACAAGTAATATCAGAGTTGTAGTAATATC
1 TAACAAGTAATATCAGAGTTGTAGTAATATC
* *
31242358 CAACAAGTGATAT
1 TAACAAGTAATAT
31242371 TAAAGCATAG
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
30 6 0.16
31 32 0.84
ACGTcount: A:0.39, C:0.12, G:0.18, T:0.31
Consensus pattern (31 bp):
TAACAAGTAATATCAGAGTTGTAGTAATATC
Found at i:31261750 original size:20 final size:20
Alignment explanation
Indices: 31261725--31261766 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
31261715 CTCCAACAAG
31261725 GACATCAACATCTTCTATAA
1 GACATCAACATCTTCTATAA
31261745 GACATCAACATCTTCTATAA
1 GACATCAACATCTTCTATAA
31261765 GA
1 GA
31261767 ACTGAAGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.40, C:0.24, G:0.07, T:0.29
Consensus pattern (20 bp):
GACATCAACATCTTCTATAA
Found at i:31274011 original size:13 final size:13
Alignment explanation
Indices: 31273986--31274045 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
31273976 TTTTAATATA
31273986 TTTTTA-AATAAAT
1 TTTTTATAA-AAAT
*
31273999 TTTTTATTAAAAT
1 TTTTTATAAAAAT
* *
31274012 TTCTGATAAAAAT
1 TTTTTATAAAAAT
31274025 TTTATTATAAATAAT
1 TTT-TTATAAA-AAT
*
31274040 ATTTTA
1 TTTTTA
31274046 ATGATTTTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
13 22 0.59
14 10 0.27
15 5 0.14
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (13 bp):
TTTTTATAAAAAT
Found at i:31274147 original size:19 final size:19
Alignment explanation
Indices: 31274125--31274164 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
31274115 ATATTTTTAA
*
31274125 TAAAAAATTTCATAAATTT
1 TAAAAAATTACATAAATTT
* *
31274144 TAAAAACTTACTTAAATTT
1 TAAAAAATTACATAAATTT
31274163 TA
1 TA
31274165 TTTTTATTTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.42
Consensus pattern (19 bp):
TAAAAAATTACATAAATTT
Found at i:31274970 original size:28 final size:28
Alignment explanation
Indices: 31274901--31274973 Score: 105
Period size: 28 Copynumber: 2.6 Consensus size: 28
31274891 TTTTATATAT
*
31274901 TTTTTAAA-ATTTTATAAAATATATTAAA
1 TTTTTAAATATATTA-AAAATATATTAAA
*
31274929 -ATTTAAATATATTAAAAATATATTAAA
1 TTTTTAAATATATTAAAAATATATTAAA
31274956 TTTTTAAATATATTAAAA
1 TTTTTAAATATATTAAAA
31274974 TAATATATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
27 19 0.47
28 21 0.52
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TTTTTAAATATATTAAAAATATATTAAA
Found at i:31274974 original size:27 final size:26
Alignment explanation
Indices: 31274915--31274985 Score: 97
Period size: 27 Copynumber: 2.6 Consensus size: 26
31274905 TAAAATTTTA
31274915 TAAAATATATTAAAATTTAAATATAT
1 TAAAATATATTAAAATTTAAATATAT
*
31274941 TAAAAATATATTAAATTTTTAAATATAT
1 T-AAAATATATTAAA-ATTTAAATATAT
31274969 TAAAATAATATATAAAA
1 TAAAAT-ATAT-TAAAA
31274986 AATAAAATTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
26 1 0.03
27 18 0.46
28 16 0.41
29 4 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (26 bp):
TAAAATATATTAAAATTTAAATATAT
Found at i:31274979 original size:28 final size:27
Alignment explanation
Indices: 31274915--31274985 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 27
31274905 TAAAATTTTA
31274915 TAAAAT-ATATTAAAATTTAAATATAT
1 TAAAATAATATTAAAATTTAAATATAT
*
31274941 TAAAA-ATATATTAAATTTTTAAATATAT
1 TAAAATA-ATATTAAA-ATTTAAATATAT
31274969 TAAAATAATATATAAAA
1 TAAAATAATAT-TAAAA
31274986 AATAAAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 5 0.13
27 8 0.21
28 20 0.53
29 5 0.13
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (27 bp):
TAAAATAATATTAAAATTTAAATATAT
Found at i:31279766 original size:23 final size:25
Alignment explanation
Indices: 31279740--31279787 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
31279730 ACAAATACCT
* *
31279740 ACATTGTTTGA-A-AAAAATCAGTA
1 ACATTGTGTGAGAGAAAAATAAGTA
31279763 ACATTGTGTGAGAGAAAAATAAGTA
1 ACATTGTGTGAGAGAAAAATAAGTA
31279788 TGAATAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 10 0.48
24 1 0.05
25 10 0.48
ACGTcount: A:0.48, C:0.06, G:0.19, T:0.27
Consensus pattern (25 bp):
ACATTGTGTGAGAGAAAAATAAGTA
Found at i:31283754 original size:25 final size:24
Alignment explanation
Indices: 31283726--31283772 Score: 76
Period size: 25 Copynumber: 1.9 Consensus size: 24
31283716 AAGAGTAGCG
31283726 CCAAAAAAAAAAGAAGAAAAAAGGC
1 CCAAAAAAAAAAGAA-AAAAAAGGC
*
31283751 CCAAAAAAAAGAGAAAAAAAAG
1 CCAAAAAAAAAAGAAAAAAAAG
31283773 TTGGTAGAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
24 7 0.33
25 14 0.67
ACGTcount: A:0.74, C:0.11, G:0.15, T:0.00
Consensus pattern (24 bp):
CCAAAAAAAAAAGAAAAAAAAGGC
Found at i:31287130 original size:23 final size:25
Alignment explanation
Indices: 31287100--31287145 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
31287090 TGTTGCGCCT
*
31287100 GAAGCAATA-ATCACAA-CAATACA
1 GAAGCAATAGATAACAATCAATACA
31287123 GAAGCAATAGATAACAATCAATA
1 GAAGCAATAGATAACAATCAATA
31287146 ATCAAATGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 9 0.45
24 6 0.30
25 5 0.25
ACGTcount: A:0.57, C:0.17, G:0.11, T:0.15
Consensus pattern (25 bp):
GAAGCAATAGATAACAATCAATACA
Found at i:31295850 original size:29 final size:29
Alignment explanation
Indices: 31295808--31295869 Score: 106
Period size: 29 Copynumber: 2.1 Consensus size: 29
31295798 CTTGAGGGTT
*
31295808 ATAGACTTTTGACCCTTTGCAACAATTGG
1 ATAGACTTTTGACCCTTTGCAACAATTAG
*
31295837 ATAGACTTTTGACCTTTTGCAACAATTAG
1 ATAGACTTTTGACCCTTTGCAACAATTAG
31295866 ATAG
1 ATAG
31295870 CAAATTTCTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (29 bp):
ATAGACTTTTGACCCTTTGCAACAATTAG
Found at i:31301232 original size:45 final size:45
Alignment explanation
Indices: 31301174--31301259 Score: 154
Period size: 45 Copynumber: 1.9 Consensus size: 45
31301164 TCGATTGAAA
31301174 ATTGCAAGAGTCTACTTGACACTAAGGTCATAATAAACCAAATTG
1 ATTGCAAGAGTCTACTTGACACTAAGGTCATAATAAACCAAATTG
* *
31301219 ATTGCAAGAGTCTACTTGGCACTAAGGTCATGATAAACCAA
1 ATTGCAAGAGTCTACTTGACACTAAGGTCATAATAAACCAA
31301260 CGTTTTAACT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.38, C:0.19, G:0.17, T:0.26
Consensus pattern (45 bp):
ATTGCAAGAGTCTACTTGACACTAAGGTCATAATAAACCAAATTG
Found at i:31306017 original size:30 final size:31
Alignment explanation
Indices: 31305983--31306041 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
31305973 TTATATTAGT
31305983 TTTTCA-TTTTTTGTTAAAATTTTTTAGTGA
1 TTTTCATTTTTTTGTTAAAATTTTTTAGTGA
*
31306013 TTTTCATTTTTTTGTTAAATTTTTTTAGT
1 TTTTCATTTTTTTGTTAAAATTTTTTAGT
31306042 ACTTATTTAG
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 6 0.22
31 21 0.78
ACGTcount: A:0.20, C:0.03, G:0.08, T:0.68
Consensus pattern (31 bp):
TTTTCATTTTTTTGTTAAAATTTTTTAGTGA
Found at i:31306157 original size:14 final size:14
Alignment explanation
Indices: 31306131--31306169 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
31306121 TAATAAGATC
31306131 TATTAAATATTTTTT
1 TATTAAAT-TTTTTT
31306146 TATTAAATTTTTTT
1 TATTAAATTTTTTT
*
31306160 AATTATAATT
1 TATTA-AATT
31306170 ACAATAACTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (14 bp):
TATTAAATTTTTTT
Found at i:31306186 original size:26 final size:27
Alignment explanation
Indices: 31306152--31306212 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 27
31306142 TTTTTATTAA
* *
31306152 ATTTTTTTAATTATAATTACAATAACT
1 ATTTTTTTAATTACAAATACAATAACT
*
31306179 -TTTTTTTAATTACAAATACAATAATT
1 ATTTTTTTAATTACAAATACAATAACT
31306205 ATTTTTTT
1 ATTTTTTT
31306213 TTTTAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 23 0.77
27 7 0.23
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.56
Consensus pattern (27 bp):
ATTTTTTTAATTACAAATACAATAACT
Found at i:31307266 original size:16 final size:15
Alignment explanation
Indices: 31307233--31307280 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
31307223 ACGTCGTGAT
31307233 ATTTT-TTAAAAT-A
1 ATTTTATTAAAATAA
31307246 ATTTTAATTAAAATAA
1 ATTTT-ATTAAAATAA
*
31307262 ATTTTATTACAATTAA
1 ATTTTATTA-AAATAA
31307278 ATT
1 ATT
31307281 ATCCAAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
13 5 0.17
15 11 0.37
16 14 0.47
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (15 bp):
ATTTTATTAAAATAA
Found at i:31310189 original size:14 final size:14
Alignment explanation
Indices: 31310165--31310197 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
31310155 TATAAATATT
31310165 TTTAT-TAAAAATA
1 TTTATCTAAAAATA
31310178 TTTATCTAAAAATA
1 TTTATCTAAAAATA
*
31310192 TATATC
1 TTTATC
31310198 CAAATTTATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTATCTAAAAATA
Found at i:31315160 original size:23 final size:23
Alignment explanation
Indices: 31315108--31315160 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
31315098 ATAAAAGTTA
* *
31315108 AAATTTATTTTTTAGTTTTTTGT
1 AAATTTATTTTGTAGTATTTTGT
**
31315131 ATTTTTATTTTGTA-TATTTTGAT
1 AAATTTATTTTGTAGTATTTTG-T
31315154 AAATTTA
1 AAATTTA
31315161 AATAAATATA
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
22 6 0.26
23 17 0.74
ACGTcount: A:0.26, C:0.00, G:0.08, T:0.66
Consensus pattern (23 bp):
AAATTTATTTTGTAGTATTTTGT
Found at i:31315238 original size:22 final size:24
Alignment explanation
Indices: 31315205--31315256 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 24
31315195 ATATATTAAT
*
31315205 TTTAATTAATTTAA-AATAAT-AA
1 TTTAATTAATTTAACAAAAATCAA
31315227 TTTATATT-ATTTAACAAAAATCAA
1 TTTA-ATTAATTTAACAAAAATCAA
31315251 TTTAAT
1 TTTAAT
31315257 ATATATAAGA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
22 10 0.38
23 10 0.38
24 6 0.23
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
TTTAATTAATTTAACAAAAATCAA
Found at i:31317954 original size:72 final size:72
Alignment explanation
Indices: 31317832--31317969 Score: 181
Period size: 72 Copynumber: 1.9 Consensus size: 72
31317822 TCCAATATAC
* * * *
31317832 AAACCTCCACCAGTTCCAGTATACGAGAAACCACATCTCCCTCCGGTTCCAATCTACAAATCTCC
1 AAACCTCCACCAGTTCCAGTATACCAAAAACCACATCTCCCTCCGATTCCAATCTACAAACCTCC
31317897 TGTCTAT
66 TGTCTAT
* * *
31317904 AAACCTCCTCCCGTTCCAGTATACCAAAAACCACTTC-CTCCTCTC-ATTCCAATCTACAAACCT
1 AAACCTCCACCAGTTCCAGTATACCAAAAACCACATCTC-CCTC-CGATTCCAATCTACAAACCT
31317967 CCT
64 CCT
31317970 CCAGTTCCGG
Statistics
Matches: 57, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
71 1 0.02
72 55 0.96
73 1 0.02
ACGTcount: A:0.29, C:0.39, G:0.07, T:0.25
Consensus pattern (72 bp):
AAACCTCCACCAGTTCCAGTATACCAAAAACCACATCTCCCTCCGATTCCAATCTACAAACCTCC
TGTCTAT
Found at i:31318005 original size:33 final size:33
Alignment explanation
Indices: 31317964--31318104 Score: 114
Period size: 33 Copynumber: 4.3 Consensus size: 33
31317954 AATCTACAAA
*
31317964 CCTCCTCCAGTTCCGGTATACAAGAAACCACTT
1 CCTCCTCCAGTTCCAGTATACAAGAAACCACTT
31317997 CCTCCTCCAG-T--A--A-ACAAGAAACCACTT
1 CCTCCTCCAGTTCCAGTATACAAGAAACCACTT
** * ***
31318024 TTTCCTCCAGTTCCAGTCTACAAGCCTCCAGTCTAT
1 CCTCCTCCAGTTCCAGTATACAAGAAACCA--CT-T
*
31318060 AAACCTCCTCCAGTTCCAGCATACAAGAAACCACTT
1 ---CCTCCTCCAGTTCCAGTATACAAGAAACCACTT
31318096 CCTCCTCCA
1 CCTCCTCCA
31318105 ACATATAAGC
Statistics
Matches: 82, Mismatches: 14, Indels: 24
0.68 0.12 0.20
Matches are distributed among these distances:
27 22 0.27
28 2 0.02
30 1 0.01
32 1 0.01
33 27 0.33
35 2 0.02
36 2 0.02
37 2 0.02
39 23 0.28
ACGTcount: A:0.28, C:0.38, G:0.09, T:0.24
Consensus pattern (33 bp):
CCTCCTCCAGTTCCAGTATACAAGAAACCACTT
Found at i:31318013 original size:27 final size:27
Alignment explanation
Indices: 31317983--31318034 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
31317973 GTTCCGGTAT
31317983 ACAAGAAACCACTTCCTCCTCCAGTAA
1 ACAAGAAACCACTTCCTCCTCCAGTAA
**
31318010 ACAAGAAACCACTTTTTCCTCCAGT
1 ACAAGAAACCACTTCCTCCTCCAGT
31318035 TCCAGTCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.35, C:0.35, G:0.08, T:0.23
Consensus pattern (27 bp):
ACAAGAAACCACTTCCTCCTCCAGTAA
Found at i:31318361 original size:24 final size:24
Alignment explanation
Indices: 31318268--31318347 Score: 142
Period size: 24 Copynumber: 3.3 Consensus size: 24
31318258 TACCCTCCGT
**
31318268 CTCCTTGCGAACCATGCCCTCCGT
1 CTCCTTGCGAACCATGCCCTCCCC
31318292 CTCCTTGCGAACCATGCCCTCCCC
1 CTCCTTGCGAACCATGCCCTCCCC
31318316 CTCCTTGCGAACCATGCCCTCCCC
1 CTCCTTGCGAACCATGCCCTCCCC
31318340 CTCCTTGC
1 CTCCTTGC
31318348 AAGCCACTTC
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 54 1.00
ACGTcount: A:0.11, C:0.51, G:0.14, T:0.24
Consensus pattern (24 bp):
CTCCTTGCGAACCATGCCCTCCCC
Found at i:31318414 original size:69 final size:66
Alignment explanation
Indices: 31318327--31318478 Score: 223
Period size: 69 Copynumber: 2.3 Consensus size: 66
31318317 TCCTTGCGAA
* **
31318327 CCATGCCCTCCCCCTCCTTGCAAGCCACTTCCTCCACATCGAAGGAACATTGCTCCTTTCCCTAA
1 CCATGCCCTCCCCCTCCTTGCAAGCCACATCCTCCACATC-AA--AACATCCCTCCTTTCCCTAA
31318392 GAAG
63 GAAG
* * *
31318396 CCATGCCCTCCCCTTCCTTGCAAGCCACATCCTCCACATCCAAAGATCCCTCCTTTCCCTAAGAA
1 CCATGCCCTCCCCCTCCTTGCAAGCCACATCCTCCACATCAAAACATCCCTCCTTTCCCTAAGAA
31318461 G
66 G
31318462 CCATGCCCTCCCCCTCC
1 CCATGCCCTCCCCCTCC
31318479 ATGCCCTCCT
Statistics
Matches: 76, Mismatches: 7, Indels: 3
0.88 0.08 0.03
Matches are distributed among these distances:
66 37 0.49
68 1 0.01
69 38 0.50
ACGTcount: A:0.20, C:0.47, G:0.11, T:0.22
Consensus pattern (66 bp):
CCATGCCCTCCCCCTCCTTGCAAGCCACATCCTCCACATCAAAACATCCCTCCTTTCCCTAAGAA
G
Found at i:31318480 original size:15 final size:15
Alignment explanation
Indices: 31318462--31318493 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31318452 CCCTAAGAAG
31318462 CCATGCCCTCCCCCT
1 CCATGCCCTCCCCCT
*
31318477 CCATGCCCTCCTCCT
1 CCATGCCCTCCCCCT
31318492 CC
1 CC
31318494 TTGCAAGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.66, G:0.06, T:0.22
Consensus pattern (15 bp):
CCATGCCCTCCCCCT
Found at i:31318593 original size:15 final size:15
Alignment explanation
Indices: 31318573--31318601 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31318563 TTGCAAGCCG
31318573 TGCCCTCCCCCTCCA
1 TGCCCTCCCCCTCCA
31318588 TGCCCTCCCCCTCC
1 TGCCCTCCCCCTCC
31318602 TTGCAAGCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.69, G:0.07, T:0.21
Consensus pattern (15 bp):
TGCCCTCCCCCTCCA
Found at i:31318679 original size:110 final size:108
Alignment explanation
Indices: 31318459--31318682 Score: 385
Period size: 110 Copynumber: 2.1 Consensus size: 108
31318449 TTTCCCTAAG
*
31318459 AAGCCATGCCCTCCCCCTCCATGCCCTCCTCCTCCTTGCAAGCCACTTCCTCCACATCCAAAGAA
1 AAGCCATGCCCTCCCCCTCCATGCCCTCCCCCTCCTTGCAAGCCACTTCCTCCACATCCAAAGAA
*
31318524 CATTGCTCCTTTCCCTAAGAAGCCATGCCCTCCCCCTCCTTGC
66 CATTGCTCCTTTCCCTAAGAAGCCATGCCCTCACCCTCCTTGC
* *
31318567 AAGCCGTGCCCTCCCCCTCCATGCCCTCCCCCTCCTTGCAAGCCACTTCCTTCCACAATCGAAAG
1 AAGCCATGCCCTCCCCCTCCATGCCCTCCCCCTCCTTGCAAGCCACTTCC-TCCAC-ATCCAAAG
*
31318632 AACATTGCTCCTTTCCCTAAGAAGCCATGCCCTCACCTTCCTTGC
64 AACATTGCTCCTTTCCCTAAGAAGCCATGCCCTCACCCTCCTTGC
31318677 AAGCCA
1 AAGCCA
31318683 CATCCTCCAC
Statistics
Matches: 108, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
108 48 0.44
109 5 0.05
110 55 0.51
ACGTcount: A:0.20, C:0.46, G:0.11, T:0.23
Consensus pattern (108 bp):
AAGCCATGCCCTCCCCCTCCATGCCCTCCCCCTCCTTGCAAGCCACTTCCTCCACATCCAAAGAA
CATTGCTCCTTTCCCTAAGAAGCCATGCCCTCACCCTCCTTGC
Found at i:31318744 original size:15 final size:15
Alignment explanation
Indices: 31318724--31318753 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
31318714 TAAGAAGCCA
31318724 ATGCCCTCCCCCTCC
1 ATGCCCTCCCCCTCC
*
31318739 ATGCCCTCCTCCTCC
1 ATGCCCTCCCCCTCC
31318754 TTGCAAGCCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.07, C:0.63, G:0.07, T:0.23
Consensus pattern (15 bp):
ATGCCCTCCCCCTCC
Found at i:31318850 original size:15 final size:15
Alignment explanation
Indices: 31318830--31318858 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
31318820 TTGCAAGCCG
31318830 TGCCCTCCCCCTCCA
1 TGCCCTCCCCCTCCA
31318845 TGCCCTCCCCCTCC
1 TGCCCTCCCCCTCC
31318859 CTTGCAAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.03, C:0.69, G:0.07, T:0.21
Consensus pattern (15 bp):
TGCCCTCCCCCTCCA
Found at i:31318879 original size:106 final size:108
Alignment explanation
Indices: 31318725--31318937 Score: 335
Period size: 106 Copynumber: 2.0 Consensus size: 108
31318715 AAGAAGCCAA
* *
31318725 TGCCCTCCCCCTCCATGCCCTCCTCCTCCTTGCAAGCCACTTCCTCCACTTCCAAAGAACAGT-G
1 TGCCCTCCCCCTCCATGCCCTCCCCCTCCTTGCAAGCCACTTCCTCCACATCCAAAGAACAGTGG
31318789 CTCCTTTCCCT-A-AA-CCATGCCCTCCCCCTCCTTGCAAGCCG
66 C-CCTTTCCCTAAGAAGCCATGCCCTCCCCCTCCTTGCAAGCCG
* *
31318830 TGCCCTCCCCCTCCATGCCCTCCCCCTCCCTTGCAAGCCACTTCCTCCACATCGAAAGAACATTG
1 TGCCCTCCCCCTCCATGCCCTCCCCCT-CCTTGCAAGCCACTTCCTCCACATCCAAAGAACAGTG
*
31318895 GCCCTTTCCCTAAGAAGCCATGCCCTCCCCTTCCTTGCAAGCC
65 GCCCTTTCCCTAAGAAGCCATGCCCTCCCCCTCCTTGCAAGCC
31318938 ACATCCTCCA
Statistics
Matches: 98, Mismatches: 5, Indels: 6
0.90 0.05 0.06
Matches are distributed among these distances:
105 26 0.27
106 42 0.43
107 3 0.03
108 2 0.02
109 25 0.26
ACGTcount: A:0.17, C:0.49, G:0.11, T:0.23
Consensus pattern (108 bp):
TGCCCTCCCCCTCCATGCCCTCCCCCTCCTTGCAAGCCACTTCCTCCACATCCAAAGAACAGTGG
CCCTTTCCCTAAGAAGCCATGCCCTCCCCCTCCTTGCAAGCCG
Found at i:31318991 original size:69 final size:67
Alignment explanation
Indices: 31318842--31318988 Score: 199
Period size: 69 Copynumber: 2.2 Consensus size: 67
31318832 CCCTCCCCCT
* * *
31318842 CCATGCCCTCCCCCTCCCTTGCAAGCCACTTCCTCCACATCGAAAGAACATTGGCCCTTTCCCTA
1 CCATGCCCT-CCCCTCCCTTGCAAGCCACATCCTCCACATCCAAAGAACACT-G-CCTTTCCCTA
31318907 AGAAG
63 AGAAG
* * *
31318912 CCATGCCCTCCCCTTCCTTGCAAGCCACATCCTCCACATCCAAAGATCCCT-CCTTTCCCTAAGA
1 CCATGCCCTCCCCTCCCTTGCAAGCCACATCCTCCACATCCAAAGAACACTGCCTTTCCCTAAGA
31318976 AG
66 AG
31318978 CCATG-CCTCCC
1 CCATGCCCTCCC
31318989 TCCATGCCCT
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
65 6 0.08
66 20 0.28
69 36 0.51
70 9 0.13
ACGTcount: A:0.22, C:0.46, G:0.11, T:0.22
Consensus pattern (67 bp):
CCATGCCCTCCCCTCCCTTGCAAGCCACATCCTCCACATCCAAAGAACACTGCCTTTCCCTAAGA
AG
Found at i:31319106 original size:107 final size:108
Alignment explanation
Indices: 31318986--31319191 Score: 364
Period size: 107 Copynumber: 1.9 Consensus size: 108
31318976 AGCCATGCCT
*
31318986 CCCTCCATGCCCTCCTCCTCCTTGCAAGCCACTTCCTCCACATCC-AAGAAACATTGCTCCTTTC
1 CCCTCCATGCCCTCCTCCTCCCTGCAAGCCACTTCCTCCACATCCAAAG-AACATTGCTCCTTTC
31319050 CCTAAGAAGCGCATGCCC-CCCC-TCCTTGCAAGCCGTGCCCTCC
65 CCTAAGAAGC-CATGCCCTCCCCTTCCTTGCAAGCCGTGCCCTCC
31319093 CCCTCCATGCCCTCCTCCTCCCTGCAAGCCACTTCCTCCACATCCAAAGAACATTGCTCCTTTCC
1 CCCTCCATGCCCTCCTCCTCCCTGCAAGCCACTTCCTCCACATCCAAAGAACATTGCTCCTTTCC
31319158 CTAAGAAGCCATGCCCTCCCCTTCCTTGCAAGCC
66 CTAAGAAGCCATGCCCTCCCCTTCCTTGCAAGCC
31319192 ACATCCTCCA
Statistics
Matches: 95, Mismatches: 1, Indels: 5
0.94 0.01 0.05
Matches are distributed among these distances:
106 7 0.07
107 73 0.77
108 15 0.16
ACGTcount: A:0.18, C:0.48, G:0.11, T:0.23
Consensus pattern (108 bp):
CCCTCCATGCCCTCCTCCTCCCTGCAAGCCACTTCCTCCACATCCAAAGAACATTGCTCCTTTCC
CTAAGAAGCCATGCCCTCCCCTTCCTTGCAAGCCGTGCCCTCC
Found at i:31319232 original size:66 final size:66
Alignment explanation
Indices: 31319097--31319244 Score: 208
Period size: 69 Copynumber: 2.2 Consensus size: 66
31319087 CCCTCCCCCT
* **
31319097 CCATGCCCTCCTCCTCCCTGCAAGCCACTTCCTCCACATCCAAAGAACATTGCTCCTTTCCCTAA
1 CCATGCCCTCC-CCTCCCTGCAAGCCACATCCTCCACATCCAAAG-A-ATCCCTCCTTTCCCTAA
31319162 GAAG
63 GAAG
* *
31319166 CCATGCCCTCCCCTTCCTTGCAAGCCACATCCTCCACATCCAAAG-ATCCCTCCTTTCCCTGAGA
1 CCATGCCCTCCCC-TCCCTGCAAGCCACATCCTCCACATCCAAAGAATCCCTCCTTTCCCTAAGA
31319230 AG
65 AG
31319232 CCATGCCCTCCCC
1 CCATGCCCTCCCC
31319245 CTCCATGCCC
Statistics
Matches: 73, Mismatches: 5, Indels: 5
0.88 0.06 0.06
Matches are distributed among these distances:
66 31 0.42
68 2 0.03
69 40 0.55
ACGTcount: A:0.21, C:0.47, G:0.10, T:0.22
Consensus pattern (66 bp):
CCATGCCCTCCCCTCCCTGCAAGCCACATCCTCCACATCCAAAGAATCCCTCCTTTCCCTAAGAA
G
Found at i:31319250 original size:15 final size:15
Alignment explanation
Indices: 31319232--31319263 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31319222 CCCTGAGAAG
31319232 CCATGCCCTCCCCCT
1 CCATGCCCTCCCCCT
*
31319247 CCATGCCCTCCTCCT
1 CCATGCCCTCCCCCT
31319262 CC
1 CC
31319264 TTGCAAGCCA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.66, G:0.06, T:0.22
Consensus pattern (15 bp):
CCATGCCCTCCCCCT
Found at i:31319253 original size:150 final size:154
Alignment explanation
Indices: 31319079--31319686 Score: 618
Period size: 150 Copynumber: 3.7 Consensus size: 154
31319069 CCCTCCTTGC
* *
31319079 AAGCCGTGCCCTCCCCCTCCATGCCCTCCTCCTCCCTGCAAGCCACTTCCTCCACATCCAAAGAA
1 AAGCCATGCCCTCCCCCTCCATGCCCTCCTCCTCCTTGCAAGCCACTTCCTCCACATCCAAAGAA
31319144 CATTGCTCCTTTCCCTAAGAAGCCATGCCCTCCCCTTCCTTGCAAGCCACATCCT-C-CA-CA-T
66 CATTGCTCCTTTCCCTAAGAAGCCATGCCCTCCCCTTCCTTGCAAGCCACATCCTCCACACCACT
*
31319205 CCAAAGATCCCTCCTTTCCCTGAG
131 CCAAAGATCCCTCCTTTCCCTAAG
31319229 AAGCCATGCCCTCCCCCTCCATGCCCTCCTCCTCCTTGCAAGCCACTTCCTCCACATCCAAAGAA
1 AAGCCATGCCCTCCCCCTCCATGCCCTCCTCCTCCTTGCAAGCCACTTCCTCCACATCCAAAGAA
31319294 CATTGCTCCTTTCCCTAAGAAGCCATGCCCTCCCCTTCCTTGCAAGCCACATCCTCCACATCCTC
66 CATTGCTCCTTTCCCTAAGAAGCCATGCCCTCCCCTTCCTTGCAAGCCACATCCTCCACA----C
*
31319359 CACGTCCAAAGATTCCTCCTTTCCCTAAG
127 CAC-TCCAAAGATCCCTCCTTTCCCTAAG
* * * * *
31319388 AAGCCATGCCCTCCCCTTCCTTGCAAGCCATTGTCTCCCCTTCCTTGCGAGCCACATCCTCCACA
1 AAGCCATGCCCTCCCCCTCCATGC---CC----TC-CTCC-TCCTTGCAAGCCACTTCCTCCACA
* * * * *
31319453 TCCAAAG---ATTCCTCCTTTCCCTGAGAAGCCATGCCCTCCCCCTCCTTGCGAGCCATGCCCTT
57 TCCAAAGAACATTGCTCCTTTCCCTAAGAAGCCATGCCCTCCCCTTCCTTGCAAGCCA----CAT
* *
31319515 CCTCTCCGCCACTTCCTCCACATCCAAAGAAGATTCCTCCTTTCCCTAAG
118 -C-CT---CCA----CACCAC-TCC--A-AAGATCCCTCCTTTCCCTAAG
* *
31319565 AAGCCATGCCCTCCCCCTCCTTGCATGCCATGCCCTCCCCTCCGTGCAAGCCACTTCCTCCACAT
1 AAGCCATGCCCTCCCCCT-C---CATGCCCT--CCT--CCTCCTTGCAAGCCACTTCCTCCACAT
* * * *
31319630 CCAAAGAAGATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCGTCCTTGCGAGCCA
58 CCAAAGAACATTGCTCCTTTCCCTAAGAAGCCATGCCCTCCCCTTCCTTGCAAGCCA
31319687 TGCCTCTCCT
Statistics
Matches: 388, Mismatches: 25, Indels: 61
0.82 0.05 0.13
Matches are distributed among these distances:
150 118 0.30
151 1 0.00
152 2 0.01
157 2 0.01
159 45 0.12
162 2 0.01
165 44 0.11
166 2 0.01
167 3 0.01
168 29 0.07
169 2 0.01
170 1 0.00
171 2 0.01
174 11 0.03
175 1 0.00
176 30 0.08
177 40 0.10
178 3 0.01
179 46 0.12
181 4 0.01
ACGTcount: A:0.19, C:0.46, G:0.11, T:0.24
Consensus pattern (154 bp):
AAGCCATGCCCTCCCCCTCCATGCCCTCCTCCTCCTTGCAAGCCACTTCCTCCACATCCAAAGAA
CATTGCTCCTTTCCCTAAGAAGCCATGCCCTCCCCTTCCTTGCAAGCCACATCCTCCACACCACT
CCAAAGATCCCTCCTTTCCCTAAG
Found at i:31319399 original size:75 final size:77
Alignment explanation
Indices: 31319190--31319417 Score: 271
Period size: 75 Copynumber: 2.9 Consensus size: 77
31319180 TCCTTGCAAG
* * * * **
31319190 CCACATCCTCCACATCCAAAGATCCCTCCTTTCCCTGAGAAGCCATGCCCTCCCCCTCCATGCCC
1 CCACATCCTCCACATCCAAAGATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCTTCCTTGCAA
* * *
31319255 TCCTCCTCCTTGCAA
66 GCCACATCCTT---A
* *
31319270 GCCACTTCCTCCACATCCAAAGAACATTGCTCCTTTCCCTAAGAAGCCATGCCCTCCCCTTCCTT
1 -CCACATCCTCCACATCCAAAG---ATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCTTCCTT
31319335 GCAAGCCACATCC-T-
62 GCAAGCCACATCCTTA
*
31319349 CCACATCCTCCACGTCCAAAGATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCTTCCTTGCAA
1 CCACATCCTCCACATCCAAAGATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCTTCCTTGCAA
31319414 GCCA
66 GCCA
31319418 TTGTCTCCCC
Statistics
Matches: 130, Mismatches: 14, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
75 47 0.36
78 19 0.15
81 20 0.15
83 1 0.01
84 43 0.33
ACGTcount: A:0.21, C:0.46, G:0.10, T:0.23
Consensus pattern (77 bp):
CCACATCCTCCACATCCAAAGATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCTTCCTTGCAA
GCCACATCCTTA
Found at i:31319415 original size:24 final size:24
Alignment explanation
Indices: 31319388--31319441 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
31319378 TTTCCCTAAG
31319388 AAGCCA-TGCCCTCCCCTTCCTTGC
1 AAGCCATTG-CCTCCCCTTCCTTGC
*
31319412 AAGCCATTGTCTCCCCTTCCTTGC
1 AAGCCATTGCCTCCCCTTCCTTGC
*
31319436 GAGCCA
1 AAGCCA
31319442 CATCCTCCAC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 25 0.93
25 2 0.07
ACGTcount: A:0.15, C:0.44, G:0.15, T:0.26
Consensus pattern (24 bp):
AAGCCATTGCCTCCCCTTCCTTGC
Found at i:31319449 original size:24 final size:24
Alignment explanation
Indices: 31319388--31319449 Score: 65
Period size: 24 Copynumber: 2.6 Consensus size: 24
31319378 TTTCCCTAAG
31319388 AAGCC-ATGCCCTCCCCTTCCTTGC
1 AAGCCAATG-CCTCCCCTTCCTTGC
* *
31319412 AAGCCATTGTCTCCCCTTCCTTGC
1 AAGCCAATGCCTCCCCTTCCTTGC
*
31319436 GAGCCACAT-CCTCC
1 AAGCCA-ATGCCTCC
31319450 ACATCCAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
24 28 0.90
25 3 0.10
ACGTcount: A:0.15, C:0.47, G:0.13, T:0.26
Consensus pattern (24 bp):
AAGCCAATGCCTCCCCTTCCTTGC
Found at i:31319612 original size:23 final size:24
Alignment explanation
Indices: 31319565--31319617 Score: 81
Period size: 23 Copynumber: 2.2 Consensus size: 24
31319555 TTTCCCTAAG
*
31319565 AAGCCATGCCCTCCCCCTCCTTGC
1 AAGCCATGCCCTCCCCCTCCGTGC
*
31319589 ATGCCATGCCCT-CCCCTCCGTGC
1 AAGCCATGCCCTCCCCCTCCGTGC
31319612 AAGCCA
1 AAGCCA
31319618 CTTCCTCCAC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.15, C:0.51, G:0.15, T:0.19
Consensus pattern (24 bp):
AAGCCATGCCCTCCCCCTCCGTGC
Found at i:31319702 original size:22 final size:24
Alignment explanation
Indices: 31319657--31319708 Score: 72
Period size: 22 Copynumber: 2.2 Consensus size: 24
31319647 TTTCCCTAAG
31319657 AAGCCATGCCCTCCCCGTCCTTGC
1 AAGCCATGCCCTCCCCGTCCTTGC
* *
31319681 GAGCCATG-CCTCTCC-TCCTTGC
1 AAGCCATGCCCTCCCCGTCCTTGC
31319703 AAGCCA
1 AAGCCA
31319709 CTTCCTCCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 12 0.48
23 6 0.24
24 7 0.28
ACGTcount: A:0.15, C:0.46, G:0.17, T:0.21
Consensus pattern (24 bp):
AAGCCATGCCCTCCCCGTCCTTGC
Found at i:31319758 original size:91 final size:91
Alignment explanation
Indices: 31319367--31319762 Score: 558
Period size: 91 Copynumber: 4.4 Consensus size: 91
31319357 TCCACGTCCA
* * *
31319367 AAGATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCTTCCTTGCAAGCCATTGTCTCCCCTTCC
1 AAGATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCCTCCTTGCGAGCCA-TGCCTCCCC-TCC
* *
31319432 TTGCGAGCCACATCCTCCACATCC--A-
64 TTGCAAGCCACTTCCTCCACATCCAAAG
* *
31319457 AAGATTCCTCCTTTCCCTGAGAAGCCATGCCCTCCCCCTCCTTGCGAGCCATG---CCCTTCCTC
1 AAGATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCCTCCTTGCGAGCCATGCCTCCCCTCCT-
*
31319519 T-C-CGCCACTTCCTCCACATCCAAAG
65 TGCAAGCCACTTCCTCCACATCCAAAG
31319544 AAGATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCCTCCTTGC-ATGCCATGCCCTCCCCTCC
1 AAGATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCCTCCTTGCGA-GCCATG-CCTCCCCTCC
*
31319608 GTGCAAGCCACTTCCTCCACATCCAAAG
64 TTGCAAGCCACTTCCTCCACATCCAAAG
* *
31319636 AAGATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCGTCCTTGCGAGCCATGCCTCTCCTCCTT
1 AAGATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCCTCCTTGCGAGCCATGCCTCCCCTCCTT
31319701 GCAAGCCACTTCCTCCACATCCAAAG
66 GCAAGCCACTTCCTCCACATCCAAAG
* * *
31319727 AAGATTCCTCCTTTCCTTAGGAAGTCATGCCCTCCC
1 AAGATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCC
31319763 ATTCCTCACA
Statistics
Matches: 278, Mismatches: 16, Indels: 23
0.88 0.05 0.07
Matches are distributed among these distances:
84 17 0.06
85 5 0.02
86 6 0.02
87 50 0.18
89 2 0.01
90 49 0.18
91 76 0.27
92 72 0.26
93 1 0.00
ACGTcount: A:0.19, C:0.44, G:0.12, T:0.25
Consensus pattern (91 bp):
AAGATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCCTCCTTGCGAGCCATGCCTCCCCTCCTT
GCAAGCCACTTCCTCCACATCCAAAG
Found at i:31319827 original size:336 final size:331
Alignment explanation
Indices: 31319189--31319834 Score: 776
Period size: 336 Copynumber: 1.9 Consensus size: 331
31319179 TTCCTTGCAA
*
31319189 GCCACATCCTCCACATCCAAAGATCCCTCCTTTCCCTGAGAAGCCATGCCCTCCCCCTCCATGCC
1 GCCACATCCTCCACATCCAAAGATCCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCCTCCATGCC
* * *
31319254 CTCCTCCTCCTTGCAAGCCACTTCCTCCACATCCAAAGAACATTGCTCCTTTCCCTAAGAAGCCA
66 ATCCTCCTCCGTGCAAGCCACTTCCTCCACATCCAAAGAACATTCCTCCTTTCCCTAAGAAGCCA
* * **
31319319 TGCCCTCCCCTTCCTTGCAAGCCACATCCTCCACATCCTCCACGTCCAAAGATTCCTCCTTTCCC
131 TGCCCTCCCCGTCCTTGCAAGCCACATCCTCCACATCCTCCAAGTCC-AAGATTCCTCCCATCCC
* * * ** *
31319384 TAAGAAGCCATGCCCTCCCCTTCCTTGCAAGCCATTGTCTCCCCTTCCTTGCGAGCCACATCCTC
195 AAAGAAG-CATGCCCTCCCCTTCCTTGCAAGCCATTGCCTCCCATTCCTCACAAGCCACATCCTC
* *
31319449 CACATCCAAAGATTCCTCCTTTCCCTGAGAAGCCATGCCCTCCCCCTCCTTGCGAGCCATGCCCT
259 CACATCCAAAGATTCCTCCTTTCCCTAAGAAGCCAAGCCCTCCCCCTCCTTGCGAGCCATGCCCT
31319514 TCCTCTCC
324 TCCTCTCC
* *
31319522 GCCACTTCCTCCACATCCAAAGAAGATTCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCCTCCTT
1 GCCACATCCTCCACATCC--A-AAGATCCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCCT-C--
*
31319587 GCATGCCATGCCCTCCCCTCCGTGCAAGCCACTTCCTCCACATCCAAAGAAGATTCCTCCTTTCC
60 -CATGCCAT--CCT--CCTCCGTGCAAGCCACTTCCTCCACATCCAAAGAACATTCCTCCTTTCC
* * *
31319652 CTAAGAAGCCATGCCCTCCCCGTCCTTGCGAG-C-CATGCCTCTC-C-TCCTTGCAAG-CC-A-C
120 CTAAGAAGCCATGCCCTCCCCGTCCTTGCAAGCCACAT-CCTC-CACATCC-TCCAAGTCCAAGA
* * * *
31319710 TTCCTCCACAT-CCAAAGAAG-AT-TCCT-CCTTTCCTTAGGAAGTCA-TGCCCTCCCATTCCTC
182 TTCCTCC-CATCCCAAAGAAGCATGCCCTCCCCTTCCTT-GCAAGCCATTG-CCTCCCATTCCTC
* * *
31319770 ACAAGCCACTTCCTCCACTTCCAAAGATTCCTCCTTTCCCTAAGAAGCCAAGCCCTCCCCTTCCT
244 ACAAGCCACATCCTCCACATCCAAAGATTCCTCCTTTCCCTAAGAAGCCAAGCCCTCCCCCTCCT
31319835 AAGCTTCCTC
Statistics
Matches: 267, Mismatches: 29, Indels: 31
0.82 0.09 0.09
Matches are distributed among these distances:
333 17 0.06
335 11 0.04
336 114 0.43
337 3 0.01
339 15 0.06
340 9 0.03
342 11 0.04
343 10 0.04
344 77 0.29
ACGTcount: A:0.20, C:0.45, G:0.11, T:0.24
Consensus pattern (331 bp):
GCCACATCCTCCACATCCAAAGATCCCTCCTTTCCCTAAGAAGCCATGCCCTCCCCCTCCATGCC
ATCCTCCTCCGTGCAAGCCACTTCCTCCACATCCAAAGAACATTCCTCCTTTCCCTAAGAAGCCA
TGCCCTCCCCGTCCTTGCAAGCCACATCCTCCACATCCTCCAAGTCCAAGATTCCTCCCATCCCA
AAGAAGCATGCCCTCCCCTTCCTTGCAAGCCATTGCCTCCCATTCCTCACAAGCCACATCCTCCA
CATCCAAAGATTCCTCCTTTCCCTAAGAAGCCAAGCCCTCCCCCTCCTTGCGAGCCATGCCCTTC
CTCTCC
Found at i:31319834 original size:66 final size:68
Alignment explanation
Indices: 31319702--31319834 Score: 189
Period size: 66 Copynumber: 2.0 Consensus size: 68
31319692 CTCCTCCTTG
* * * *
31319702 CAAGCCACTTCCTCCACATCCAAAGAAGATTCCTCCTTTCCTTAGGAAGTCATGCCCTCCCATTC
1 CAAGCCACTTCCTCCACATCC-AAGAAGATTCCTCCTTTCCCTAAGAAGCCAAGCCCTCCCATTC
31319767 CTCA
65 CTCA
* *
31319771 CAAGCCACTTCCTCCACTTCC-A-AAGATTCCTCCTTTCCCTAAGAAGCCAAGCCCTCCCCTTCC
1 CAAGCCACTTCCTCCACATCCAAGAAGATTCCTCCTTTCCCTAAGAAGCCAAGCCCTCCCATTCC
31319834 T
66 T
31319835 AAGCTTCCTC
Statistics
Matches: 58, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
66 37 0.64
67 1 0.02
69 20 0.34
ACGTcount: A:0.23, C:0.42, G:0.09, T:0.26
Consensus pattern (68 bp):
CAAGCCACTTCCTCCACATCCAAGAAGATTCCTCCTTTCCCTAAGAAGCCAAGCCCTCCCATTCC
TCA
Found at i:31320952 original size:25 final size:24
Alignment explanation
Indices: 31320897--31320952 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 24
31320887 TATATTAGAA
*
31320897 TATTTAATATAATATTTTGATATT
1 TATTTAAGATAATATTTTGATATT
* *
31320921 T-TATTAAGATAATTTTCTTTATATT
1 TAT-TTAAGATAATATT-TTGATATT
31320946 TATTTAA
1 TATTTAA
31320953 ATATAAAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
23 1 0.04
24 12 0.46
25 12 0.46
26 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.04, T:0.59
Consensus pattern (24 bp):
TATTTAAGATAATATTTTGATATT
Found at i:31320994 original size:16 final size:17
Alignment explanation
Indices: 31320961--31321000 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
31320951 AAATATAAAA
31320961 AATTATAATTTCAAATAT
1 AATT-TAATTTCAAATAT
31320979 AATTTAATTT-AAATAT
1 AATTTAATTTCAAATAT
*
31320995 ATTTTA
1 AATTTA
31321001 TTATTCAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 11 0.52
17 6 0.29
18 4 0.19
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (17 bp):
AATTTAATTTCAAATAT
Found at i:31321528 original size:5 final size:5
Alignment explanation
Indices: 31321518--31321558 Score: 55
Period size: 5 Copynumber: 7.8 Consensus size: 5
31321508 ATAAGATTAT
*
31321518 AATAA AATAA AATAA AATTATA AATAA AATAA AATTA AATA
1 AATAA AATAA AATAA AA-TA-A AATAA AATAA AATAA AATA
31321559 TTATCAATTT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
5 25 0.78
6 4 0.12
7 3 0.09
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (5 bp):
AATAA
Found at i:31321537 original size:21 final size:22
Alignment explanation
Indices: 31321508--31321562 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
31321498 TATTAGATAT
*
31321508 ATAAGATTAT-AATAAAATAAA
1 ATAAAATTATAAATAAAATAAA
31321529 ATAAAATTATAAATAAAATAAA
1 ATAAAATTATAAATAAAATAAA
31321551 ATTAAATATTAT
1 A-TAAA-ATTAT
31321563 CAATTTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 9 0.30
22 12 0.40
23 4 0.13
24 5 0.17
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (22 bp):
ATAAAATTATAAATAAAATAAA
Found at i:31321544 original size:17 final size:17
Alignment explanation
Indices: 31321522--31321554 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
31321512 GATTATAATA
31321522 AAATAAAATAAAATTAT
1 AAATAAAATAAAATTAT
31321539 AAATAAAATAAAATTA
1 AAATAAAATAAAATTA
31321555 AATATTATCA
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:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
AAATAAAATAAAATTAT
Found at i:31322557 original size:15 final size:15
Alignment explanation
Indices: 31322537--31322566 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
31322527 AGGATATAAA
31322537 ATATTGATAATTTAT
1 ATATTGATAATTTAT
31322552 ATATTGATAATTTAT
1 ATATTGATAATTTAT
31322567 TTTGTAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.00, G:0.07, T:0.53
Consensus pattern (15 bp):
ATATTGATAATTTAT
Found at i:31325097 original size:82 final size:82
Alignment explanation
Indices: 31325006--31325159 Score: 263
Period size: 82 Copynumber: 1.9 Consensus size: 82
31324996 CAAGGAAAAA
* *
31325006 AAAAACACTAAAAGAGAAAGAGATGAAAAATAATCATTCTAAAATTGTATGTTTTGGGATATAAG
1 AAAAACACTAAAAGAGAAAGAGATGAAAAATAATCATTCTAAAATTGCATGTTTTGGCATATAAG
31325071 CAGATTTAAAAAAAATT
66 CAGATTTAAAAAAAATT
* **
31325088 AAAAACACTAAAAGAGAAAGAGATGAACAATAATTGTTCTAAAATTGCATGTTTTGGCATATAAG
1 AAAAACACTAAAAGAGAAAGAGATGAAAAATAATCATTCTAAAATTGCATGTTTTGGCATATAAG
31325153 CAGATTT
66 CAGATTT
31325160 TAGAATGAGT
Statistics
Matches: 67, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
82 67 1.00
ACGTcount: A:0.49, C:0.08, G:0.16, T:0.27
Consensus pattern (82 bp):
AAAAACACTAAAAGAGAAAGAGATGAAAAATAATCATTCTAAAATTGCATGTTTTGGCATATAAG
CAGATTTAAAAAAAATT
Found at i:31331377 original size:22 final size:22
Alignment explanation
Indices: 31331349--31331392 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
31331339 CTAAATCTTC
*
31331349 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
31331371 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
31331393 TAAATATAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:31331406 original size:78 final size:78
Alignment explanation
Indices: 31331323--31331478 Score: 303
Period size: 78 Copynumber: 2.0 Consensus size: 78
31331313 AACTAACTAG
*
31331323 GGGTTAAACTAGGAAACTAAATCTTCCTTAATTCTAGGGATACAAATACTTAATTCTAGAGATAC
1 GGGTTAAACTAGGAAACTAAATCTTCCTTAATTCTAAGGATACAAATACTTAATTCTAGAGATAC
31331388 AAATATAAATATA
66 AAATATAAATATA
31331401 GGGTTAAACTAGGAAACTAAATCTTCCTTAATTCTAAGGATACAAATACTTAATTCTAGAGATAC
1 GGGTTAAACTAGGAAACTAAATCTTCCTTAATTCTAAGGATACAAATACTTAATTCTAGAGATAC
31331466 AAATATAAATATA
66 AAATATAAATATA
31331479 TGGATTACAA
Statistics
Matches: 77, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
78 77 1.00
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (78 bp):
GGGTTAAACTAGGAAACTAAATCTTCCTTAATTCTAAGGATACAAATACTTAATTCTAGAGATAC
AAATATAAATATA
Found at i:31331452 original size:22 final size:22
Alignment explanation
Indices: 31331427--31331470 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
31331417 CTAAATCTTC
31331427 CTTAATTCTA-AGGATACAAATA
1 CTTAATTCTAGA-GATACAAATA
31331449 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
31331471 TAAATATATG
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 20 0.95
23 1 0.05
ACGTcount: A:0.45, C:0.14, G:0.09, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:31335170 original size:23 final size:25
Alignment explanation
Indices: 31335115--31335173 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
31335105 AAAGGGTTCG
* * *
31335115 GCAATGAAGGCCTAAACAGGATTCG
1 GCAATGAAGGCCTAAACAGAAGTCA
31335140 GCAATGAAGGCCTAAA-A-AAGTCA
1 GCAATGAAGGCCTAAACAGAAGTCA
31335163 GCAATGAAGGC
1 GCAATGAAGGC
31335174 TGAAAATTTT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
23 14 0.45
24 1 0.03
25 16 0.52
ACGTcount: A:0.41, C:0.19, G:0.27, T:0.14
Consensus pattern (25 bp):
GCAATGAAGGCCTAAACAGAAGTCA
Found at i:31335349 original size:22 final size:22
Alignment explanation
Indices: 31335321--31335364 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
31335311 CTAAATCTTC
*
31335321 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
31335343 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
31335365 TAAATATAGG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:31335378 original size:78 final size:78
Alignment explanation
Indices: 31335295--31335450 Score: 312
Period size: 78 Copynumber: 2.0 Consensus size: 78
31335285 AACTAACTAG
31335295 GGGTTAAACTAGGAAACTAAATCTTCCTTAATTCTAGGGATACAAATACTTAATTCTAGAGATAC
1 GGGTTAAACTAGGAAACTAAATCTTCCTTAATTCTAGGGATACAAATACTTAATTCTAGAGATAC
31335360 AAATATAAATATA
66 AAATATAAATATA
31335373 GGGTTAAACTAGGAAACTAAATCTTCCTTAATTCTAGGGATACAAATACTTAATTCTAGAGATAC
1 GGGTTAAACTAGGAAACTAAATCTTCCTTAATTCTAGGGATACAAATACTTAATTCTAGAGATAC
31335438 AAATATAAATATA
66 AAATATAAATATA
31335451 CAGATTACAA
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (78 bp):
GGGTTAAACTAGGAAACTAAATCTTCCTTAATTCTAGGGATACAAATACTTAATTCTAGAGATAC
AAATATAAATATA
Found at i:31335427 original size:22 final size:22
Alignment explanation
Indices: 31335399--31335442 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
31335389 CTAAATCTTC
*
31335399 CTTAATTCTAGGGATACAAATA
1 CTTAATTCTAGAGATACAAATA
31335421 CTTAATTCTAGAGATACAAATA
1 CTTAATTCTAGAGATACAAATA
31335443 TAAATATACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.43, C:0.14, G:0.11, T:0.32
Consensus pattern (22 bp):
CTTAATTCTAGAGATACAAATA
Found at i:31345495 original size:18 final size:17
Alignment explanation
Indices: 31345467--31345514 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 17
31345457 TATTTTTATT
*
31345467 AAATTAAAAATAATCAA
1 AAATAAAAAATAATCAA
*
31345484 ATAATAAAAAATAAATTAA
1 A-AATAAAAAAT-AATCAA
31345503 AAATAAAAAATA
1 AAATAAAAAATA
31345515 TGTTATATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 2 0.07
18 19 0.70
19 6 0.22
ACGTcount: A:0.75, C:0.02, G:0.00, T:0.23
Consensus pattern (17 bp):
AAATAAAAAATAATCAA
Found at i:31347239 original size:24 final size:24
Alignment explanation
Indices: 31347207--31347255 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
31347197 CTTTATGAAC
*
31347207 TACCATAAATAAGCTTAGGGTTTT
1 TACCATAAATAAGATTAGGGTTTT
31347231 TACCATAAATAAGATTAGGGTTTT
1 TACCATAAATAAGATTAGGGTTTT
31347255 T
1 T
31347256 TTCCCATCAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.10, G:0.16, T:0.39
Consensus pattern (24 bp):
TACCATAAATAAGATTAGGGTTTT
Found at i:31347850 original size:21 final size:21
Alignment explanation
Indices: 31347826--31347868 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
31347816 TAATAATGAT
31347826 TTTGAATTCTAATCTGTTTTC
1 TTTGAATTCTAATCTGTTTTC
31347847 TTTGAATTCTAATCTGTTTTC
1 TTTGAATTCTAATCTGTTTTC
31347868 T
1 T
31347869 GCAATGTTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.19, C:0.14, G:0.09, T:0.58
Consensus pattern (21 bp):
TTTGAATTCTAATCTGTTTTC
Found at i:31348340 original size:15 final size:15
Alignment explanation
Indices: 31348322--31348354 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
31348312 AAAGAAAAGA
31348322 AAAGTAAAGTAAAAT
1 AAAGTAAAGTAAAAT
31348337 AAAGTAAAGTAAAAT
1 AAAGTAAAGTAAAAT
31348352 AAA
1 AAA
31348355 ATCTCATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.18
Consensus pattern (15 bp):
AAAGTAAAGTAAAAT
Found at i:31359532 original size:197 final size:197
Alignment explanation
Indices: 31359152--31359532 Score: 505
Period size: 197 Copynumber: 1.9 Consensus size: 197
31359142 ACATTTTAGC
*
31359152 TTCATAAATTATATTTTTATAATATTTTATTTACAAGTTGAAAGTAAGGGGCATGTGTTTTCAAT
1 TTCATAAATTATATTTTTATAATATTTTATTTACAAGTTAAAAGTAAGGGGCATGTGTTTTCAAT
* *
31359217 TAATTGGCCTTTTTAATTTTCTAATGTACAAATAACTTATCAATTACGTGAGATATATATTTTAT
66 TAATTGGCCTTTTTAATGTTCTAATGTAAAAATAACTTATCAATTACGTGAGATATATATTTTAT
* ** * * ** *
31359282 AATTAAAAGTAATTAGGGTTTGAGATTTGAGACGGAGTCCTTATAACCTTAAAATTTAGTATAAT
131 AATTAAAAGTAATTAGAGACTGAGATTTGAGACGAAATAATAATAACCTTAAAATTTAGTATAAT
31359347 AA
196 AA
* * * * *
31359349 TTCATAAATTATATTTTTATAATTTTTTATTTAGAGGTTAAAAGTGATGGGCATGTGTTTTCAAT
1 TTCATAAATTATATTTTTATAATATTTTATTTACAAGTTAAAAGTAAGGGGCATGTGTTTTCAAT
** * ** *
31359414 TAATTTTCCTTTTTAATGTTCTAATTTAAAAATAA-TTAGTCAATTGGGTGAGATATATTTTTTT
66 TAATTGGCCTTTTTAATGTTCTAATGTAAAAATAACTTA-TCAATTACGTGAGATATA-TATTTT
** *
31359478 ATAATTAAAAGTTGTTAGAGACTGAGATTTGAGGCGAAATAATAATAA-CTTAAAA
129 ATAATTAAAAGTAATTAGAGACTGAGATTTGAGACGAAATAATAATAACCTTAAAA
31359533 AATAGGTATG
Statistics
Matches: 157, Mismatches: 25, Indels: 4
0.84 0.13 0.02
Matches are distributed among these distances:
196 3 0.02
197 112 0.71
198 42 0.27
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (197 bp):
TTCATAAATTATATTTTTATAATATTTTATTTACAAGTTAAAAGTAAGGGGCATGTGTTTTCAAT
TAATTGGCCTTTTTAATGTTCTAATGTAAAAATAACTTATCAATTACGTGAGATATATATTTTAT
AATTAAAAGTAATTAGAGACTGAGATTTGAGACGAAATAATAATAACCTTAAAATTTAGTATAAT
AA
Found at i:31361569 original size:3 final size:3
Alignment explanation
Indices: 31361556--31361591 Score: 54
Period size: 3 Copynumber: 11.3 Consensus size: 3
31361546 AAATGATACT
31361556 ATA ATTA ATA ATA ATA ATA ATA ATA ATA ATA TATA A
1 ATA A-TA ATA ATA ATA ATA ATA ATA ATA ATA -ATA A
31361592 AATTAATGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 25 0.81
4 6 0.19
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:31361842 original size:21 final size:20
Alignment explanation
Indices: 31361822--31361885 Score: 57
Period size: 20 Copynumber: 3.3 Consensus size: 20
31361812 AAAGATTAAT
31361822 TATTATATATTAATAAATAA
1 TATTATATATTAATAAATAA
31361842 TATT-TATAGTTTAATAAAT-A
1 TATTATATA--TTAATAAATAA
*
31361862 TA--ATA-AATAATAAATAA
1 TATTATATATTAATAAATAA
31361879 TTATTAT
1 -TATTAT
31361886 TTATATTTAT
Statistics
Matches: 36, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
16 8 0.22
17 1 0.03
18 3 0.08
19 6 0.17
20 9 0.25
21 9 0.25
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (20 bp):
TATTATATATTAATAAATAA
Found at i:31361888 original size:41 final size:38
Alignment explanation
Indices: 31361833--31361908 Score: 98
Period size: 41 Copynumber: 1.9 Consensus size: 38
31361823 ATTATATATT
31361833 AATAAATAATATTTATAGTTTAATAAATATAATAAATAATA
1 AATAAATAATATTTATA-TTTAATAAA-AT-ATAAATAATA
* * *
31361874 AATAATTATTATTTATATTTATTAAAATATAAATA
1 AATAAATAATATTTATATTTAATAAAATATAAATA
31361909 TTATTTCTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
38 7 0.22
39 2 0.06
40 8 0.25
41 15 0.47
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.43
Consensus pattern (38 bp):
AATAAATAATATTTATATTTAATAAAATATAAATAATA
Found at i:31361905 original size:27 final size:26
Alignment explanation
Indices: 31361875--31361941 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
31361865 TAAATAATAA
* **
31361875 ATAATTATTATTTATATTTATTAAAAT
1 ATAAATATTATTTATAACTATT-AAAT
*
31361902 ATAAATATTATTTCTAACTATTAAAT
1 ATAAATATTATTTATAACTATTAAAT
*
31361928 ATAAAATATGATTT
1 AT-AAATATTATTT
31361942 TAATAAAATG
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (26 bp):
ATAAATATTATTTATAACTATTAAAT
Found at i:31363025 original size:4 final size:4
Alignment explanation
Indices: 31363016--31363065 Score: 64
Period size: 4 Copynumber: 12.5 Consensus size: 4
31363006 GGATTGACAG
* * * *
31363016 ATAT ATAT ATAT ATAT ATAT ATAC ATAC ATAT ACAT ATAT ATAT TTAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
31363064 AT
1 AT
31363066 GGTTCAAACC
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (4 bp):
ATAT
Found at i:31363027 original size:6 final size:6
Alignment explanation
Indices: 31363016--31363065 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
31363006 GGATTGACAG
* * * *
31363016 ATATAT ATATAT ATATAT ATATAC ATACAT ATACAT ATATAT ATTTAT
1 ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT ATATAT
31363064 AT
1 AT
31363066 GGTTCAAACC
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 39 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (6 bp):
ATATAT
Found at i:31363031 original size:10 final size:10
Alignment explanation
Indices: 31363016--31363065 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
31363006 GGATTGACAG
31363016 ATATATATAT
1 ATATATATAT
31363026 ATATATATAT
1 ATATATATAT
* *
31363036 ATACATACAT
1 ATATATATAT
*
31363046 ATACATATAT
1 ATATATATAT
*
31363056 ATATTTATAT
1 ATATATATAT
31363066 GGTTCAAACC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 35 1.00
ACGTcount: A:0.48, C:0.06, G:0.00, T:0.46
Consensus pattern (10 bp):
ATATATATAT
Found at i:31366560 original size:13 final size:12
Alignment explanation
Indices: 31366533--31366557 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31366523 ATTTAAATTA
31366533 TAAATAATTTTT
1 TAAATAATTTTT
31366545 TAAATAATTTTT
1 TAAATAATTTTT
31366557 T
1 T
31366558 TAACATATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAAATAATTTTT
Found at i:31366616 original size:14 final size:14
Alignment explanation
Indices: 31366597--31366641 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 14
31366587 ATATCAATTT
31366597 AAATTTTTTTTAAA
1 AAATTTTTTTTAAA
*
31366611 AAA---TTTTTAAT
1 AAATTTTTTTTAAA
31366622 AAATTATTTTTTAAA
1 AAATT-TTTTTTAAA
31366637 AAATT
1 AAATT
31366642 CATAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 7
0.74 0.06 0.21
Matches are distributed among these distances:
11 10 0.40
14 3 0.12
15 12 0.48
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (14 bp):
AAATTTTTTTTAAA
Found at i:31366626 original size:25 final size:23
Alignment explanation
Indices: 31366596--31366662 Score: 82
Period size: 26 Copynumber: 2.8 Consensus size: 23
31366586 TATATCAATT
31366596 TAAATTTTTTTTAAAAAATTTTTAA
1 TAAATTTTTTTTAAAAAA--TTTAA
*
31366621 TAAATTATTTTTTAAAAAA-TTCA
1 TAAATT-TTTTTTAAAAAATTTAA
*
31366644 TAAATTTTATTTAAAAAAT
1 TAAATTTTTTTTAAAAAAT
31366663 AATTCAATTT
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 11 0.29
23 9 0.24
25 6 0.16
26 12 0.32
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.51
Consensus pattern (23 bp):
TAAATTTTTTTTAAAAAATTTAA
Found at i:31366666 original size:25 final size:24
Alignment explanation
Indices: 31366596--31366668 Score: 69
Period size: 25 Copynumber: 3.0 Consensus size: 24
31366586 TATATCAATT
** *
31366596 TAAATTTTTTTTAAAAAATTTTTAA
1 TAAA-TTTTTTTAAAAAATAATTCA
*
31366621 TAAATTATTTTT-TAAAA-AATTCA
1 TAAATT-TTTTTAAAAAATAATTCA
31366644 TAAATTTTATTTAAAAAATAATTCA
1 TAAATTTT-TTTAAAAAATAATTCA
31366669 ATTTATCAAT
Statistics
Matches: 39, Mismatches: 5, Indels: 8
0.75 0.10 0.15
Matches are distributed among these distances:
22 2 0.05
23 12 0.31
24 10 0.26
25 15 0.38
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.49
Consensus pattern (24 bp):
TAAATTTTTTTAAAAAATAATTCA
Found at i:31366677 original size:84 final size:86
Alignment explanation
Indices: 31366583--31366746 Score: 273
Period size: 85 Copynumber: 1.9 Consensus size: 86
31366573 TTTTACATTG
31366583 AATTATATCAATTTAAATTTTTT-TTAAAAAATTTTTAATAAATTATTTTTT-AAA-AAATTCAT
1 AATTATATCAATTTAAATTTTTTATT--AAAATTTTTAATAAATTATTTTTTAAAACAAATTCAT
31366645 AAATTTTATTTAAAAAATAATTC
64 AAATTTTATTTAAAAAATAATTC
*
31366668 AATT-TATCAATTTAAATTTTTTATTAAAATTTTTAATATATTATTTTTTAAAACAAATTCATAA
1 AATTATATCAATTTAAATTTTTTATTAAAATTTTTAATAAATTATTTTTTAAAACAAATTCATAA
31366732 ATTTTATTTAAAAAA
66 ATTTTATTTAAAAAA
31366747 CTTCATATAA
Statistics
Matches: 75, Mismatches: 1, Indels: 6
0.91 0.01 0.07
Matches are distributed among these distances:
83 23 0.31
84 21 0.28
85 31 0.41
ACGTcount: A:0.46, C:0.04, G:0.00, T:0.50
Consensus pattern (86 bp):
AATTATATCAATTTAAATTTTTTATTAAAATTTTTAATAAATTATTTTTTAAAACAAATTCATAA
ATTTTATTTAAAAAATAATTC
Found at i:31376938 original size:17 final size:17
Alignment explanation
Indices: 31376916--31376949 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
31376906 ATTTCCCCCC
*
31376916 AATCAAAAGATCATTTT
1 AATCAAAACATCATTTT
31376933 AATCAAAACATCATTTT
1 AATCAAAACATCATTTT
31376950 TCAAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.47, C:0.15, G:0.03, T:0.35
Consensus pattern (17 bp):
AATCAAAACATCATTTT
Found at i:31379022 original size:13 final size:14
Alignment explanation
Indices: 31378990--31379022 Score: 52
Period size: 13 Copynumber: 2.5 Consensus size: 14
31378980 TTTGATATAT
31378990 TTATTAAATAAATA
1 TTATTAAATAAATA
31379004 TT-TTAAATAAA-A
1 TTATTAAATAAATA
31379016 TTATTAA
1 TTATTAA
31379023 CAAAATTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 3 0.17
13 13 0.72
14 2 0.11
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTATTAAATAAATA
Found at i:31405058 original size:13 final size:13
Alignment explanation
Indices: 31405040--31405070 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
31405030 TGGGCTCAAA
*
31405040 TATTTTTTGTTTT
1 TATTTTTTATTTT
31405053 TATTTTTTATTTT
1 TATTTTTTATTTT
31405066 TATTT
1 TATTT
31405071 ATTAAAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.13, C:0.00, G:0.03, T:0.84
Consensus pattern (13 bp):
TATTTTTTATTTT
Found at i:31405639 original size:21 final size:21
Alignment explanation
Indices: 31405610--31405665 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
31405600 TATTAAAAAG
*
31405610 TTATAAAAATTATATCAAAT-A
1 TTATCAAAATTATATC-AATGA
31405631 TTATCAAAATTATATCAATGA
1 TTATCAAAATTATATCAATGA
* *
31405652 GTACCAAAATTATA
1 TTATCAAAATTATA
31405666 ATAATCACCA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
20 3 0.10
21 28 0.90
ACGTcount: A:0.52, C:0.09, G:0.04, T:0.36
Consensus pattern (21 bp):
TTATCAAAATTATATCAATGA
Found at i:31409573 original size:2 final size:2
Alignment explanation
Indices: 31409566--31409603 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
31409556 AATTTAAAAC
* *
31409566 AT AT AT AT AC AC AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31409604 GAATACAGAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:31411919 original size:16 final size:17
Alignment explanation
Indices: 31411875--31411916 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
31411865 ATTTTTTTTA
*
31411875 TAAAATTTAATT-TAATT
1 TAAAA-TTAATTAAAATT
*
31411892 TTAAATTAATTAAAATT
1 TAAAATTAATTAAAATT
31411909 TAAAATTA
1 TAAAATTA
31411917 TTATCGAACA
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (17 bp):
TAAAATTAATTAAAATT
Done.