Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, 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: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 123 of 129
Found at i:21037147 original size:49 final size:49
Alignment explanation
Indices: 21037076--21037177 Score: 152
Period size: 49 Copynumber: 2.1 Consensus size: 49
21037066 AATTCGATTT
* * *
21037076 AATTTATTTGAATAATATATAAAATTATAAGTTTTTAAAATTTAAATTC
1 AATTTATTTGAATAATAAATAAAATTATAAATTTTTAAAATTTAAATTA
*
21037125 AATTTATTTTG-ATAATAAATAAAATTATAAATTTTTAAAATTTGAATTA
1 AATTTA-TTTGAATAATAAATAAAATTATAAATTTTTAAAATTTAAATTA
21037174 AATT
1 AATT
21037178 CTAATTAAAT
Statistics
Matches: 48, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
49 44 0.92
50 4 0.08
ACGTcount: A:0.48, C:0.01, G:0.04, T:0.47
Consensus pattern (49 bp):
AATTTATTTGAATAATAAATAAAATTATAAATTTTTAAAATTTAAATTA
Found at i:21040586 original size:14 final size:15
Alignment explanation
Indices: 21040557--21040590 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
21040547 AAAAATTACT
21040557 ATATATTTCATTAAA
1 ATATATTTCATTAAA
*
21040572 ATATATTT-TTTAAA
1 ATATATTTCATTAAA
21040586 ATATA
1 ATATA
21040591 ATAATAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATTTCATTAAA
Found at i:21046749 original size:2 final size:2
Alignment explanation
Indices: 21046742--21046808 Score: 107
Period size: 2 Copynumber: 33.5 Consensus size: 2
21046732 AGCTTTCCGT
*
21046742 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TT
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
* *
21046784 TC TC TC TT TC TC TC TT TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
21046809 TTTCCTGGAA
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.00, C:0.45, G:0.00, T:0.55
Consensus pattern (2 bp):
TC
Found at i:21054820 original size:19 final size:17
Alignment explanation
Indices: 21054776--21054821 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
21054766 TAAAAAATGG
21054776 ATATATTTTATTTTTTA
1 ATATATTTTATTTTTTA
21054793 AT-TAATTTTATGTTTTTA
1 ATAT-ATTTTAT-TTTTTA
21054811 ATATACTTTTA
1 ATATA-TTTTA
21054822 AATGTACGTG
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.04
17 9 0.36
18 9 0.36
19 6 0.24
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (17 bp):
ATATATTTTATTTTTTA
Found at i:21059314 original size:26 final size:27
Alignment explanation
Indices: 21059246--21059320 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 27
21059236 TATGTTTTAT
21059246 ATTT-AATATGATATAATTAT---TG-
1 ATTTAAATATGATATAATTATAGATGA
*
21059268 -TTTAAATATGATATAATTATATATGA
1 ATTTAAATATGATATAATTATAGATGA
* *
21059294 ATTTAAATAT-CTATATTTATAGATGA
1 ATTTAAATATGATATAATTATAGATGA
21059320 A
1 A
21059321 ATACAAGAAA
Statistics
Matches: 44, Mismatches: 3, Indels: 8
0.80 0.05 0.15
Matches are distributed among these distances:
21 3 0.07
22 16 0.36
25 2 0.05
26 14 0.32
27 9 0.20
ACGTcount: A:0.44, C:0.01, G:0.08, T:0.47
Consensus pattern (27 bp):
ATTTAAATATGATATAATTATAGATGA
Found at i:21059797 original size:17 final size:16
Alignment explanation
Indices: 21059775--21059808 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
21059765 TTTTGCAACG
21059775 TTTCTTTCTTTTTTTTT
1 TTTCTTT-TTTTTTTTT
21059792 TTTCTTTTTTTTTTTT
1 TTTCTTTTTTTTTTTT
21059808 T
1 T
21059809 GGCTTTCCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.00, C:0.09, G:0.00, T:0.91
Consensus pattern (16 bp):
TTTCTTTTTTTTTTTT
Found at i:21059801 original size:12 final size:13
Alignment explanation
Indices: 21059779--21059807 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
21059769 GCAACGTTTC
21059779 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
21059792 TTTCTTTTTTTTT
1 TTTCTTTTTTTTT
21059805 TTT
1 TTT
21059808 TGGCTTTCCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (13 bp):
TTTCTTTTTTTTT
Found at i:21059814 original size:16 final size:14
Alignment explanation
Indices: 21059779--21059808 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
21059769 GCAACGTTTC
21059779 TTTC-TTTTTTTTT
1 TTTCTTTTTTTTTT
21059792 TTTCTTTTTTTTTT
1 TTTCTTTTTTTTTT
21059806 TTT
1 TTT
21059809 GGCTTTCCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.25
14 12 0.75
ACGTcount: A:0.00, C:0.07, G:0.00, T:0.93
Consensus pattern (14 bp):
TTTCTTTTTTTTTT
Found at i:21062170 original size:18 final size:18
Alignment explanation
Indices: 21062147--21062191 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
21062137 TATTTTTTAA
21062147 ATATAAA-TATATAATTAT
1 ATATAAATTA-ATAATTAT
*
21062165 ATATAAATTAATAATTAA
1 ATATAAATTAATAATTAT
*
21062183 AAATAAATT
1 ATATAAATT
21062192 TTAATATAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 22 0.92
19 2 0.08
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
ATATAAATTAATAATTAT
Found at i:21062506 original size:26 final size:28
Alignment explanation
Indices: 21062442--21062506 Score: 64
Period size: 26 Copynumber: 2.4 Consensus size: 28
21062432 AAATTTATCG
* *
21062442 TATTTTTAATTGAATTTAAATATAAATT
1 TATTATTAATTGAAATTAAATATAAATT
* *
21062470 T-TAATAAAATT-AAATT-AATATAAATT
1 TATTAT-TAATTGAAATTAAATATAAATT
21062496 TATTATTAATT
1 TATTATTAATT
21062507 TTTTAATTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 6
0.71 0.15 0.15
Matches are distributed among these distances:
26 15 0.52
27 9 0.31
28 5 0.17
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (28 bp):
TATTATTAATTGAAATTAAATATAAATT
Found at i:21062529 original size:35 final size:34
Alignment explanation
Indices: 21062477--21062543 Score: 93
Period size: 35 Copynumber: 1.9 Consensus size: 34
21062467 ATTTTAATAA
21062477 AATTAAATTAATATAAATTT-ATTATTAATTTTTT
1 AATTAAATTAATATAAATTTAATTATT-ATTTTTT
21062511 AATTATAATT-ATAGTAAATTTAATTATTATTTT
1 AATTA-AATTAATA-TAAATTTAATTATTATTTT
21062544 AAATTTTATT
Statistics
Matches: 30, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
34 8 0.27
35 16 0.53
36 6 0.20
ACGTcount: A:0.43, C:0.00, G:0.01, T:0.55
Consensus pattern (34 bp):
AATTAAATTAATATAAATTTAATTATTATTTTTT
Found at i:21062532 original size:21 final size:19
Alignment explanation
Indices: 21062508--21062560 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 19
21062498 TTATTAATTT
21062508 TTTAATTATAATTATAGTAAA
1 TTTAATTATAATTAT--TAAA
*
21062529 TTTAATTATTATT-TTAAA
1 TTTAATTATAATTATTAAA
*
21062547 TTTTATTATAATTA
1 TTTAATTATAATTA
21062561 ATTTTATCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 15 0.54
20 1 0.04
21 12 0.43
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.57
Consensus pattern (19 bp):
TTTAATTATAATTATTAAA
Found at i:21064025 original size:27 final size:26
Alignment explanation
Indices: 21063983--21064038 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 26
21063973 AAATACGTAT
*
21063983 AAATTTTGTTTAAAAAAATAAAAAATA
1 AAATTTTATTT-AAAAAATAAAAAATA
* *
21064010 AAATTTTATTTGAAAAATAAAATATA
1 AAATTTTATTTAAAAAATAAAAAATA
21064036 AAA
1 AAA
21064039 AAAATAAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
26 16 0.62
27 10 0.38
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.34
Consensus pattern (26 bp):
AAATTTTATTTAAAAAATAAAAAATA
Found at i:21065703 original size:21 final size:20
Alignment explanation
Indices: 21065677--21065736 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 20
21065667 AAATAACGAT
21065677 GAAATAAAATTAATTATTATA
1 GAAATAAAATTAA-TATTATA
*
21065698 GAAATAAGATTGAATATTATA
1 GAAATAAAATT-AATATTATA
* *
21065719 -ATTATAAAATTAAAATTA
1 GA-AATAAAATTAATATTA
21065737 ATAATGAGAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
20 7 0.21
21 24 0.73
22 2 0.06
ACGTcount: A:0.57, C:0.00, G:0.07, T:0.37
Consensus pattern (20 bp):
GAAATAAAATTAATATTATA
Found at i:21068413 original size:16 final size:16
Alignment explanation
Indices: 21068388--21068423 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
21068378 TATATATTTT
*
21068388 ATTATTTTATATTTGA
1 ATTATATTATATTTGA
*
21068404 ATTATATTATATTTTA
1 ATTATATTATATTTGA
21068420 ATTA
1 ATTA
21068424 AAATTTTAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (16 bp):
ATTATATTATATTTGA
Found at i:21083374 original size:27 final size:27
Alignment explanation
Indices: 21083331--21083384 Score: 65
Period size: 26 Copynumber: 2.0 Consensus size: 27
21083321 AAATATAAAT
21083331 TAAAAAATATAACATA-TTAATATGTG
1 TAAAAAATATAACATATTTAATATGTG
* *
21083357 TAAAAAATTTACATATATTTTAATATGT
1 TAAAAAATATA-ACATA-TTTAATATGT
21083385 AAATTTTATG
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 10 0.43
27 4 0.17
29 9 0.39
ACGTcount: A:0.50, C:0.04, G:0.06, T:0.41
Consensus pattern (27 bp):
TAAAAAATATAACATATTTAATATGTG
Found at i:21090482 original size:25 final size:25
Alignment explanation
Indices: 21090448--21090499 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
21090438 TACTTTCAAG
*
21090448 ATTGAAAATGGAGGTGTACATGAAA
1 ATTGAAAATGGAGGTATACATGAAA
*
21090473 ATTGAAAATGGAGGTATACATGTAA
1 ATTGAAAATGGAGGTATACATGAAA
21090498 AT
1 AT
21090500 GGGTGGCAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.44, C:0.04, G:0.25, T:0.27
Consensus pattern (25 bp):
ATTGAAAATGGAGGTATACATGAAA
Found at i:21100912 original size:13 final size:13
Alignment explanation
Indices: 21100896--21100932 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
21100886 ATTTATAAAA
21100896 TTAA-AAAAATTAT
1 TTAATAAAAATT-T
21100909 TTAATAAAAA-TT
1 TTAATAAAAATTT
21100921 TTAATAAAAATT
1 TTAATAAAAATT
21100933 CAAATTGATA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 11 0.50
13 6 0.27
14 5 0.23
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (13 bp):
TTAATAAAAATTT
Found at i:21106628 original size:22 final size:22
Alignment explanation
Indices: 21106601--21106649 Score: 89
Period size: 22 Copynumber: 2.2 Consensus size: 22
21106591 GTTAAGTTTA
21106601 CATAGAAGGAAATTTACATTAC
1 CATAGAAGGAAATTTACATTAC
*
21106623 CATAGAAGGAAATTTGCATTAC
1 CATAGAAGGAAATTTACATTAC
21106645 CATAG
1 CATAG
21106650 CAACAAGCCT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.43, C:0.14, G:0.16, T:0.27
Consensus pattern (22 bp):
CATAGAAGGAAATTTACATTAC
Found at i:21108483 original size:2 final size:2
Alignment explanation
Indices: 21108476--21108503 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21108466 CAGAACACAA
21108476 AT 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
21108504 TGAAAATTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21114491 original size:13 final size:13
Alignment explanation
Indices: 21114473--21114497 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21114463 TTTGCTCTTG
21114473 CAACTTTTTTCTA
1 CAACTTTTTTCTA
21114486 CAACTTTTTTCT
1 CAACTTTTTTCT
21114498 CTTTTCTTTG
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:0.20, C:0.24, G:0.00, T:0.56
Consensus pattern (13 bp):
CAACTTTTTTCTA
Found at i:21116996 original size:15 final size:16
Alignment explanation
Indices: 21116958--21117002 Score: 51
Period size: 15 Copynumber: 2.9 Consensus size: 16
21116948 TTAATAAAAC
21116958 AAAG-AAAAGAAAAGG
1 AAAGAAAAAGAAAAGG
21116973 AAA-ATAAAAG-AAAGG
1 AAAGA-AAAAGAAAAGG
21116988 AAAGAAAAAGGAAAA
1 AAAGAAAAA-GAAAA
21117003 TAAAGGAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 8
0.76 0.00 0.24
Matches are distributed among these distances:
15 15 0.60
16 7 0.28
17 3 0.12
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (16 bp):
AAAGAAAAAGAAAAGG
Found at i:21116997 original size:26 final size:25
Alignment explanation
Indices: 21116950--21117017 Score: 91
Period size: 26 Copynumber: 2.7 Consensus size: 25
21116940 GATAGATATT
* *
21116950 AATAAAACAAAGAAAAGAAAAGGAA
1 AATAAAAGAAAGGAAAGAAAAGGAA
21116975 AATAAAAGAAAGGAAAGAAAAAGGAA
1 AATAAAAGAAAGGAAAG-AAAAGGAA
* *
21117001 AATAAAGGAAATGAAAG
1 AATAAAAGAAAGGAAAG
21117018 TTTTTTAAAG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
25 15 0.39
26 23 0.61
ACGTcount: A:0.72, C:0.01, G:0.21, T:0.06
Consensus pattern (25 bp):
AATAAAAGAAAGGAAAGAAAAGGAA
Found at i:21117173 original size:19 final size:20
Alignment explanation
Indices: 21117149--21117187 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
21117139 AAATAAATAA
21117149 TTAATTACAATATT-TTTTT
1 TTAATTACAATATTCTTTTT
*
21117168 TTAATTATAATATTCTTTTT
1 TTAATTACAATATTCTTTTT
21117188 AAAAAAGTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (20 bp):
TTAATTACAATATTCTTTTT
Found at i:21117412 original size:16 final size:17
Alignment explanation
Indices: 21117391--21117422 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
21117381 TGAAAAATCA
21117391 TAAAATATT-TATAAAT
1 TAAAATATTATATAAAT
21117407 TAAAATATTATATAAA
1 TAAAATATTATATAAA
21117423 ATCTCATAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAAATATTATATAAAT
Found at i:21118190 original size:19 final size:19
Alignment explanation
Indices: 21118166--21118204 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
21118156 AAAAAATTTC
*
21118166 TATTTTTGTTATT-TTTCTT
1 TATTTTTCTT-TTCTTTCTT
21118185 TATTTTTCTTTTCTTTCTT
1 TATTTTTCTTTTCTTTCTT
21118204 T
1 T
21118205 CCCCTTCCCG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 2 0.11
19 16 0.89
ACGTcount: A:0.08, C:0.10, G:0.03, T:0.79
Consensus pattern (19 bp):
TATTTTTCTTTTCTTTCTT
Found at i:21118898 original size:24 final size:25
Alignment explanation
Indices: 21118871--21118919 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
21118861 ATTATTAAAA
*
21118871 TTTTAAATCATATA-ATTTTTTATT
1 TTTTAAATCATATACATATTTTATT
*
21118895 TTTTATATCATATACATATTTTATT
1 TTTTAAATCATATACATATTTTATT
21118920 ATTATAATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.33, C:0.06, G:0.00, T:0.61
Consensus pattern (25 bp):
TTTTAAATCATATACATATTTTATT
Found at i:21118924 original size:24 final size:24
Alignment explanation
Indices: 21118877--21118925 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
21118867 AAAATTTTAA
* *
21118877 ATCATATAATTTTTTATTTTTTAT
1 ATCATATAATATTTTATTTATTAT
21118901 ATCATATACATATTTTA-TTATTAT
1 ATCATATA-ATATTTTATTTATTAT
21118925 A
1 A
21118926 ATATATTTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 15 0.68
25 7 0.32
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (24 bp):
ATCATATAATATTTTATTTATTAT
Found at i:21119535 original size:21 final size:20
Alignment explanation
Indices: 21119510--21119557 Score: 51
Period size: 21 Copynumber: 2.3 Consensus size: 20
21119500 TGTTTATTAA
*
21119510 ATTAAAATTTTAAATAATATT
1 ATTAAAAATTTAAAT-ATATT
* *
21119531 TTTAATAAATTTATATATATT
1 ATTAA-AAATTTAAATATATT
21119552 ATTAAA
1 ATTAAA
21119558 TCATTTTTAA
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.05
21 13 0.59
22 8 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATTAAAAATTTAAATATATT
Found at i:21120354 original size:29 final size:31
Alignment explanation
Indices: 21120315--21120379 Score: 89
Period size: 29 Copynumber: 2.2 Consensus size: 31
21120305 TATAAAATTT
* * *
21120315 TAAAATTTATGTATTAT-A-TTATTTTTATA
1 TAAAAATTATGTATTATAATTTATATTAATA
21120344 TAAAAATTATGTATTATAATTTATATTAATA
1 TAAAAATTATGTATTATAATTTATATTAATA
21120375 TAAAA
1 TAAAA
21120380 TATAAAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 16 0.52
30 1 0.03
31 14 0.45
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (31 bp):
TAAAAATTATGTATTATAATTTATATTAATA
Found at i:21120446 original size:24 final size:24
Alignment explanation
Indices: 21120386--21120468 Score: 64
Period size: 24 Copynumber: 3.5 Consensus size: 24
21120376 AAAATATAAA
*
21120386 AAATATATATTTTTATT--AAATTT
1 AAAT-TATATTATTATTAAAAATTT
* *
21120409 ATA-TATAATAATTATTAAAAATTT
1 AAATTAT-ATTATTATTAAAAATTT
* *
21120433 AAATTATATTATTATCAAATATTT
1 AAATTATATTATTATTAAAAATTT
* *
21120457 TATTTATATTAT
1 AAATTATATTAT
21120469 GTTCATATCT
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
21 3 0.06
22 7 0.15
23 2 0.04
24 32 0.68
25 3 0.06
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (24 bp):
AAATTATATTATTATTAAAAATTT
Found at i:21134300 original size:2 final size:2
Alignment explanation
Indices: 21134293--21134317 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21134283 AAAGAATCAA
21134293 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
21134318 AAGACAGGGG
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:21140207 original size:16 final size:16
Alignment explanation
Indices: 21140166--21140207 Score: 59
Period size: 16 Copynumber: 2.6 Consensus size: 16
21140156 ATTTAATAAT
21140166 TTAAAATATAATAAAA
1 TTAAAATATAATAAAA
*
21140182 -TAACACTATAATAAAA
1 TTAA-AATATAATAAAA
21140198 TTAAAATATA
1 TTAAAATATA
21140208 TATTTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
15 3 0.14
16 16 0.73
17 3 0.14
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.31
Consensus pattern (16 bp):
TTAAAATATAATAAAA
Found at i:21143214 original size:27 final size:27
Alignment explanation
Indices: 21143178--21143231 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
21143168 GCACAAAAAC
21143178 AACTTGCTTTTGTACATAGTCAATGAA
1 AACTTGCTTTTGTACATAGTCAATGAA
21143205 AACTTGCTTTTGTACATAGTCAATGAA
1 AACTTGCTTTTGTACATAGTCAATGAA
21143232 TTTTTTTTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (27 bp):
AACTTGCTTTTGTACATAGTCAATGAA
Found at i:21146688 original size:2 final size:2
Alignment explanation
Indices: 21146681--21146721 Score: 73
Period size: 2 Copynumber: 20.5 Consensus size: 2
21146671 TTGTTCAATC
*
21146681 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21146722 CACCCAATCA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.46
Consensus pattern (2 bp):
AT
Found at i:21147022 original size:19 final size:19
Alignment explanation
Indices: 21146988--21147048 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
21146978 TTATAAATGT
* * *
21146988 ATAATTATATATTAAATCA
1 ATAATTATAAAATAAATTA
21147007 ATAATTATAAAATAAATTA
1 ATAATTATAAAATAAATTA
*
21147026 TAAAATTATAAAA-AAATTA
1 -ATAATTATAAAATAAATTA
21147045 ATAA
1 ATAA
21147049 AAAATCTCGT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
18 3 0.08
19 22 0.61
20 11 0.31
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (19 bp):
ATAATTATAAAATAAATTA
Found at i:21147034 original size:20 final size:20
Alignment explanation
Indices: 21147009--21147050 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
21146999 TTAAATCAAT
21147009 AATTATAAAATAAATT-ATAA
1 AATTATAAAA-AAATTAATAA
21147029 AATTATAAAAAAATTAATAA
1 AATTATAAAAAAATTAATAA
21147049 AA
1 AA
21147051 AATCTCGTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.24
20 16 0.76
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (20 bp):
AATTATAAAAAAATTAATAA
Found at i:21157423 original size:23 final size:23
Alignment explanation
Indices: 21157367--21157425 Score: 66
Period size: 23 Copynumber: 2.6 Consensus size: 23
21157357 TATGTTAATA
21157367 TAAAAATTTTAAAAATAATTTTT
1 TAAAAATTTTAAAAATAATTTTT
* ***
21157390 TATTAAA-TTTATTTATAATTTTT
1 TA-AAAATTTTAAAAATAATTTTT
21157413 TAAAAATTTTAAA
1 TAAAAATTTTAAA
21157426 TCATATTATT
Statistics
Matches: 27, Mismatches: 7, Indels: 4
0.71 0.18 0.11
Matches are distributed among these distances:
22 3 0.11
23 21 0.78
24 3 0.11
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (23 bp):
TAAAAATTTTAAAAATAATTTTT
Found at i:21166345 original size:4 final size:4
Alignment explanation
Indices: 21166336--21166367 Score: 64
Period size: 4 Copynumber: 8.0 Consensus size: 4
21166326 GTTGAAACCA
21166336 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT
21166368 GGAGATGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 28 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
ACAT
Found at i:21178284 original size:21 final size:20
Alignment explanation
Indices: 21178245--21178284 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
21178235 TAACCGAATG
*
21178245 CAAAAATAATTTTGTTTTTA
1 CAAAAATAATTTGGTTTTTA
21178265 CAAAAATAATTTGGTATTTT
1 CAAAAATAATTTGGT-TTTT
21178285 TTAAATTTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 14 0.78
21 4 0.22
ACGTcount: A:0.40, C:0.05, G:0.07, T:0.47
Consensus pattern (20 bp):
CAAAAATAATTTGGTTTTTA
Found at i:21178588 original size:16 final size:16
Alignment explanation
Indices: 21178563--21178593 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21178553 TAAAAATCAC
*
21178563 AAAAATTTAATTTTAT
1 AAAAAATTAATTTTAT
21178579 AAAAAATTAATTTTA
1 AAAAAATTAATTTTA
21178594 ATATTAAACA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAAAATTAATTTTAT
Found at i:21187800 original size:19 final size:17
Alignment explanation
Indices: 21187762--21187832 Score: 76
Period size: 19 Copynumber: 4.1 Consensus size: 17
21187752 CGAATCAATG
*
21187762 TAATATTAAATTTAAATT
1 TAAT-TTAAATTTAATTT
21187780 TAATTTAAAATTTTAATTT
1 TAATTT-AAA-TTTAATTT
21187799 TAATTTAAATTTAATTT
1 TAATTTAAATTTAATTT
21187816 T--TTT-AATTTAAATTT
1 TAATTTAAATTT-AATTT
21187831 TA
1 TA
21187833 CTTCAAATAA
Statistics
Matches: 48, Mismatches: 1, Indels: 10
0.81 0.02 0.17
Matches are distributed among these distances:
14 5 0.10
15 9 0.19
17 11 0.23
18 10 0.21
19 13 0.27
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TAATTTAAATTTAATTT
Found at i:21187801 original size:25 final size:26
Alignment explanation
Indices: 21187770--21187830 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
21187760 TGTAATATTA
21187770 AATTTAAATTT-AATTTAA-AATTTT
1 AATTTAAATTTAAATTTAATAATTTT
* **
21187794 AATTTTAATTTAAATTTAATTTTTTT
1 AATTTAAATTTAAATTTAATAATTTT
21187820 AATTTAAATTT
1 AATTTAAATTT
21187831 TACTTCAAAT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 10 0.32
25 7 0.23
26 14 0.45
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (26 bp):
AATTTAAATTTAAATTTAATAATTTT
Found at i:21187830 original size:6 final size:6
Alignment explanation
Indices: 21187767--21187812 Score: 58
Period size: 6 Copynumber: 7.7 Consensus size: 6
21187757 CAATGTAATA
* *
21187767 TTAAAT TTAAAT TT-AAT TTAAAAT TTTAAT TTTAAT TTAAAT TTAA
1 TTAAAT TTAAAT TTAAAT TT-AAAT TTAAAT TTAAAT TTAAAT TTAA
21187813 TTTTTTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
5 5 0.14
6 26 0.72
7 5 0.14
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (6 bp):
TTAAAT
Found at i:21190604 original size:16 final size:18
Alignment explanation
Indices: 21190583--21190619 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
21190573 AATATTATTT
21190583 TTTAAATT-TT-ATATAA
1 TTTAAATTATTAATATAA
21190599 TTTAAATTATTAATATAA
1 TTTAAATTATTAATATAA
21190617 TTT
1 TTT
21190620 TTAAGAGTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 8 0.42
17 2 0.11
18 9 0.47
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
TTTAAATTATTAATATAA
Found at i:21192535 original size:2 final size:2
Alignment explanation
Indices: 21192528--21192552 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21192518 TTTCTTTCTT
21192528 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21192553 CCGAATCCAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21194236 original size:35 final size:35
Alignment explanation
Indices: 21194193--21194262 Score: 140
Period size: 35 Copynumber: 2.0 Consensus size: 35
21194183 TCACTACTAG
21194193 ACACTTCCATTAATTTTATTTTTAATGTATGCACT
1 ACACTTCCATTAATTTTATTTTTAATGTATGCACT
21194228 ACACTTCCATTAATTTTATTTTTAATGTATGCACT
1 ACACTTCCATTAATTTTATTTTTAATGTATGCACT
21194263 TTGGTCTCAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.49
Consensus pattern (35 bp):
ACACTTCCATTAATTTTATTTTTAATGTATGCACT
Found at i:21204578 original size:15 final size:14
Alignment explanation
Indices: 21204532--21204572 Score: 57
Period size: 15 Copynumber: 2.9 Consensus size: 14
21204522 ATACTTATCG
21204532 ATTT-AATATTTAA
1 ATTTAAATATTTAA
*
21204545 ATGTAAAGTATTTAA
1 ATTTAAA-TATTTAA
21204560 ATTTAAATATTTA
1 ATTTAAATATTTA
21204573 TGATTTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 3 0.12
14 8 0.33
15 13 0.54
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (14 bp):
ATTTAAATATTTAA
Found at i:21216745 original size:6 final size:6
Alignment explanation
Indices: 21216734--21216767 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
21216724 GACCAAATTA
* *
21216734 ACATAT ACATAT ACATAC ACATAC ACATAC ACAT
1 ACATAC ACATAC ACATAC ACATAC ACATAC ACAT
21216768 CCACCCTAAC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (6 bp):
ACATAC
Found at i:21220771 original size:16 final size:17
Alignment explanation
Indices: 21220744--21220776 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
21220734 AAATAAATTT
21220744 TTTTTAATAAAATTAAA
1 TTTTTAATAAAATTAAA
21220761 TTTTTAA-AAAATTAAA
1 TTTTTAATAAAATTAAA
21220777 AAATAAATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TTTTTAATAAAATTAAA
Found at i:21220981 original size:31 final size:31
Alignment explanation
Indices: 21220946--21221009 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
21220936 AAAATTTTAA
**
21220946 TTGGATCCCATAATCCTTACAATTTAAAACT
1 TTGGATCCCATAATAATTACAATTTAAAACT
* *
21220977 TTGGATCTCATAATAATTAGAATTTAAAACT
1 TTGGATCCCATAATAATTACAATTTAAAACT
21221008 TT
1 TT
21221010 TCTTTTAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.38, C:0.16, G:0.08, T:0.39
Consensus pattern (31 bp):
TTGGATCCCATAATAATTACAATTTAAAACT
Found at i:21226781 original size:10 final size:10
Alignment explanation
Indices: 21226758--21226791 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
21226748 CGTTCATAAA
21226758 TATGTTTAATT
1 TATGTTT-ATT
21226769 TATGTTTATT
1 TATGTTTATT
*
21226779 TATATTTATT
1 TATGTTTATT
21226789 TAT
1 TAT
21226792 TAAGTTTAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 15 0.68
11 7 0.32
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (10 bp):
TATGTTTATT
Found at i:21227025 original size:15 final size:15
Alignment explanation
Indices: 21227005--21227042 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
21226995 GATTCATTTA
21227005 TGTTTATTTATGATT
1 TGTTTATTTATGATT
*
21227020 TGTTTAGTTATGATT
1 TGTTTATTTATGATT
*
21227035 TATTTATT
1 TGTTTATT
21227043 GTTTATGAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.21, C:0.00, G:0.13, T:0.66
Consensus pattern (15 bp):
TGTTTATTTATGATT
Found at i:21227123 original size:23 final size:23
Alignment explanation
Indices: 21227074--21227119 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
21227064 TATATGTTCG
* * *
21227074 TAAATATATTCGTTTAATATTCA
1 TAAATAAATTCATTTAATATTAA
21227097 TAAATAAATTCATTTAA-ATTAA
1 TAAATAAATTCATTTAATATTAA
21227119 T
1 T
21227120 TAAACGAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 5 0.25
23 15 0.75
ACGTcount: A:0.46, C:0.07, G:0.02, T:0.46
Consensus pattern (23 bp):
TAAATAAATTCATTTAATATTAA
Found at i:21235847 original size:23 final size:21
Alignment explanation
Indices: 21235829--21235868 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
21235819 TGAATATGAT
21235829 ATGATTTA-AAATTTTAATATA
1 ATGATTTATAAA-TTTAATATA
*
21235850 ATTATTTATAAATTTAATA
1 ATGATTTATAAATTTAATA
21235869 AAATAAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 14 0.82
22 3 0.18
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (21 bp):
ATGATTTATAAATTTAATATA
Found at i:21242248 original size:13 final size:13
Alignment explanation
Indices: 21242230--21242268 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
21242220 TTTACTTAAA
21242230 TATATTAAAATTT
1 TATATTAAAATTT
**
21242243 TATATTAAAATAA
1 TATATTAAAATTT
*
21242256 TATATAAAAATTT
1 TATATTAAAATTT
21242269 AAAATTTAAT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
TATATTAAAATTT
Found at i:21243660 original size:24 final size:24
Alignment explanation
Indices: 21243633--21243679 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
21243623 AAAGTTTAAT
*
21243633 AAAAATT-ATATATAAATTTTATA
1 AAAAATTAATAAATAAATTTTATA
*
21243656 AAAAATTAATAAATATATTTTATA
1 AAAAATTAATAAATAAATTTTATA
21243680 TTAACATAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
23 7 0.33
24 14 0.67
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
AAAAATTAATAAATAAATTTTATA
Found at i:21244358 original size:12 final size:12
Alignment explanation
Indices: 21244341--21244411 Score: 74
Period size: 12 Copynumber: 5.7 Consensus size: 12
21244331 AAAATTATTT
21244341 TTTAATTTTATA
1 TTTAATTTTATA
*
21244353 TTTAATTATATA
1 TTTAATTTTATA
21244365 TTTAATTATATATA
1 TTTAATT-T-TATA
21244379 TTT--TTATATATA
1 TTTAATT-T-TATA
21244391 TTTAATTTTATA
1 TTTAATTTTATA
21244403 TTTATATTT
1 TTTA-ATTT
21244412 AAAATAATAT
Statistics
Matches: 52, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
12 38 0.73
13 5 0.10
14 9 0.17
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTAATTTTATA
Found at i:21244378 original size:26 final size:24
Alignment explanation
Indices: 21244333--21244406 Score: 89
Period size: 26 Copynumber: 3.0 Consensus size: 24
21244323 TATATAAAAA
*
21244333 AATTAT-TTTTTAATTTTATATTT
1 AATTATATATTTAATTTTATATTT
21244356 AATTATATATTTAATTATATATATTT
1 AATTATATATTTAATT-T-TATATTT
*
21244382 -TTATATATATTTAATTTTATATTT
1 AAT-TATATATTTAATTTTATATTT
21244406 A
1 A
21244407 TATTTAAAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
23 6 0.14
24 15 0.34
25 3 0.07
26 20 0.45
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (24 bp):
AATTATATATTTAATTTTATATTT
Found at i:21244390 original size:16 final size:15
Alignment explanation
Indices: 21244359--21244409 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
21244349 TATATTTAAT
*
21244359 TATATATTTAAT-TA
1 TATATATTTTATATA
21244373 TATATATTTTTATATA
1 TATATA-TTTTATATA
* *
21244389 TATTTAATTTTATATT
1 TATAT-ATTTTATATA
21244405 TATAT
1 TATAT
21244410 TTAAAATAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
14 6 0.20
15 5 0.17
16 18 0.60
17 1 0.03
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (15 bp):
TATATATTTTATATA
Found at i:21256669 original size:23 final size:25
Alignment explanation
Indices: 21256628--21256674 Score: 71
Period size: 23 Copynumber: 2.0 Consensus size: 25
21256618 GCATTTTTTA
*
21256628 TTATTGATTGTTGTTTATTGCTTCT
1 TTATTGATTGTTGATTATTGCTTCT
21256653 TTATT-ATTG-TGATTATTGCTTC
1 TTATTGATTGTTGATTATTGCTTC
21256675 AGGCGCAACA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 12 0.57
24 4 0.19
25 5 0.24
ACGTcount: A:0.15, C:0.09, G:0.15, T:0.62
Consensus pattern (25 bp):
TTATTGATTGTTGATTATTGCTTCT
Found at i:21264168 original size:18 final size:20
Alignment explanation
Indices: 21264119--21264168 Score: 56
Period size: 19 Copynumber: 2.8 Consensus size: 20
21264109 AATTATTATG
21264119 ATATAT-AAAT-AAAAATTT
1 ATATATAAAATAAAAAATTT
*
21264137 ATATTTAAAA-AAAAAATTT
1 ATATATAAAATAAAAAATTT
21264156 -T-TATAAAATAAAA
1 ATATATAAAATAAAA
21264169 TCGGACGAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
17 6 0.22
18 10 0.37
19 11 0.41
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
ATATATAAAATAAAAAATTT
Found at i:21280675 original size:61 final size:61
Alignment explanation
Indices: 21280603--21280720 Score: 191
Period size: 61 Copynumber: 1.9 Consensus size: 61
21280593 ATATCATATC
* * * *
21280603 TATGTGGACCCTTTCAGTCTCCTCTAGTCCACTCACAAACAAACATATACACCCATAAGAG
1 TATGTGAACCCTCTCAATCTCCTCTAGTCCACTCACAAACAAACATACACACCCATAAGAG
*
21280664 TATGTGAACCCTCTCAATCTCTTCTAGTCCACTCACAAACAAACATACACACCCATA
1 TATGTGAACCCTCTCAATCTCCTCTAGTCCACTCACAAACAAACATACACACCCATA
21280721 GGACGAAGAG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 52 1.00
ACGTcount: A:0.34, C:0.33, G:0.08, T:0.25
Consensus pattern (61 bp):
TATGTGAACCCTCTCAATCTCCTCTAGTCCACTCACAAACAAACATACACACCCATAAGAG
Found at i:21280914 original size:52 final size:52
Alignment explanation
Indices: 21280835--21280938 Score: 156
Period size: 52 Copynumber: 2.0 Consensus size: 52
21280825 ATAACCATAT
* *
21280835 AAACTTGCCCATTAAGAATCCCTTTTCTTTTAGAATTCTTCTCTTGCAAGTC
1 AAACTTACCCATTAAGAATCCCTTTTCTCTTAGAATTCTTCTCTTGCAAGTC
* *
21280887 AAACTTACCTATTAAGAAT-CCTCTTTCTCTTAGAATTCTTCTTTTGCAAGTC
1 AAACTTACCCATTAAGAATCCCT-TTTCTCTTAGAATTCTTCTCTTGCAAGTC
21280939 TTCTTGTCCA
Statistics
Matches: 47, Mismatches: 4, Indels: 2
0.89 0.08 0.04
Matches are distributed among these distances:
51 3 0.06
52 44 0.94
ACGTcount: A:0.26, C:0.24, G:0.09, T:0.41
Consensus pattern (52 bp):
AAACTTACCCATTAAGAATCCCTTTTCTCTTAGAATTCTTCTCTTGCAAGTC
Found at i:21281286 original size:25 final size:24
Alignment explanation
Indices: 21281216--21281287 Score: 65
Period size: 25 Copynumber: 3.0 Consensus size: 24
21281206 TTACTTTTTC
*
21281216 TCATGTCTCAAACCA-AGCTCTTT
1 TCATGTCTCGAACCATAGCTCTTT
* ** *
21281239 TCATTTCTCGAACTGTTAACTCTTT
1 TCATGTCTCGAAC-CATAGCTCTTT
*
21281264 TTATGTCTCGAACCATCAGCTCTT
1 TCATGTCTCGAACCAT-AGCTCTT
21281288 CCCACATCTT
Statistics
Matches: 36, Mismatches: 10, Indels: 4
0.72 0.20 0.08
Matches are distributed among these distances:
23 11 0.31
24 1 0.03
25 24 0.67
ACGTcount: A:0.22, C:0.28, G:0.10, T:0.40
Consensus pattern (24 bp):
TCATGTCTCGAACCATAGCTCTTT
Found at i:21281330 original size:25 final size:26
Alignment explanation
Indices: 21281271--21281336 Score: 73
Period size: 25 Copynumber: 2.6 Consensus size: 26
21281261 TTTTTATGTC
*
21281271 TCGAACCATCAGCTCTTCCCACATCT
1 TCGAACCTTCAGCTCTTCCCACATCT
* * * *
21281297 T-GAATCTTCAACTCTTCTCACGT-T
1 TCGAACCTTCAGCTCTTCCCACATCT
21281321 TCGAACCTTCAGCTCT
1 TCGAACCTTCAGCTCT
21281337 GATACCACTT
Statistics
Matches: 32, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
24 2 0.06
25 29 0.91
26 1 0.03
ACGTcount: A:0.21, C:0.36, G:0.09, T:0.33
Consensus pattern (26 bp):
TCGAACCTTCAGCTCTTCCCACATCT
Found at i:21282167 original size:50 final size:50
Alignment explanation
Indices: 21282076--21282219 Score: 161
Period size: 50 Copynumber: 2.8 Consensus size: 50
21282066 AAATTTATCC
*
21282076 ATTAAGAAT-CT-TTCTACTCTTAGAATTCTTCTCTTGTAAGTCAAACTTGA-CT
1 ATTAAGAATCCTCTT-T-CTCTTAGAATTC-T-TCTTGCAAGTCAAACTT-ACCT
* *
21282128 ATTAAGAAT-TTCTTTCATTTTAGAATTCTTCTTGCAAGTCAAACTTACCT
1 ATTAAGAATCCTCTTTC-TCTTAGAATTCTTCTTGCAAGTCAAACTTACCT
21282178 ATTAAGAATCCTCTTTCTCTTAGAATTCTTCATTTGCAAGTC
1 ATTAAGAATCCTCTTTCTCTTAGAATTCTTC--TTGCAAGTC
21282220 TTCTTGTCCA
Statistics
Matches: 81, Mismatches: 5, Indels: 12
0.83 0.05 0.12
Matches are distributed among these distances:
49 1 0.01
50 40 0.49
51 8 0.10
52 30 0.37
53 2 0.02
ACGTcount: A:0.28, C:0.19, G:0.09, T:0.43
Consensus pattern (50 bp):
ATTAAGAATCCTCTTTCTCTTAGAATTCTTCTTGCAAGTCAAACTTACCT
Found at i:21282262 original size:11 final size:11
Alignment explanation
Indices: 21282246--21282285 Score: 71
Period size: 11 Copynumber: 3.6 Consensus size: 11
21282236 AATATTTAAT
21282246 AAATCTCAAAC
1 AAATCTCAAAC
*
21282257 AAATCTCTAAC
1 AAATCTCAAAC
21282268 AAATCTCAAAC
1 AAATCTCAAAC
21282279 AAATCTC
1 AAATCTC
21282286 TTATGAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.50, C:0.28, G:0.00, T:0.23
Consensus pattern (11 bp):
AAATCTCAAAC
Found at i:21298513 original size:37 final size:37
Alignment explanation
Indices: 21298463--21298534 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
21298453 ATAAAGATGG
21298463 TGAGTCAGTTCTGTACATATGTCCATGGATAACAAAA
1 TGAGTCAGTTCTGTACATATGTCCATGGATAACAAAA
21298500 TGAGTCAGTTCTGTACATATGTCCATGGATAACAA
1 TGAGTCAGTTCTGTACATATGTCCATGGATAACAA
21298535 GTTATCACAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (37 bp):
TGAGTCAGTTCTGTACATATGTCCATGGATAACAAAA
Found at i:21301867 original size:69 final size:70
Alignment explanation
Indices: 21301776--21301912 Score: 222
Period size: 69 Copynumber: 2.0 Consensus size: 70
21301766 CATTTTAAAG
* ** *
21301776 TCAAGCTTTTGATATGATATTAAATTAGTCTTACC-TAGGGGACAAATTTAGTTTCCAAACATGA
1 TCAAGCTTTTGATATGATATTAAATTAGTCTTACCAAAGGGGACAAATGAAGTTTCCAAACAGGA
21301840 AGAGT
66 AGAGT
*
21301845 TCAAGCTTTTGATATGATATTAAATTAGTCTTACCAAAGGGGACAAATGAAGTTTCCGAACAGGA
1 TCAAGCTTTTGATATGATATTAAATTAGTCTTACCAAAGGGGACAAATGAAGTTTCCAAACAGGA
21301910 AGA
66 AGA
21301913 AAATAGCAAG
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
69 35 0.56
70 27 0.44
ACGTcount: A:0.36, C:0.13, G:0.19, T:0.31
Consensus pattern (70 bp):
TCAAGCTTTTGATATGATATTAAATTAGTCTTACCAAAGGGGACAAATGAAGTTTCCAAACAGGA
AGAGT
Found at i:21304359 original size:23 final size:24
Alignment explanation
Indices: 21304308--21304359 Score: 56
Period size: 23 Copynumber: 2.2 Consensus size: 24
21304298 TAAAAAATTA
* *
21304308 TAAAATATATTATTTTAATTTTGT
1 TAAAATATATTATTATAATTTTAT
21304332 T-AAATATA-T-TTATAATTTTTAT
1 TAAAATATATTATTATAA-TTTTAT
21304354 TAAAAT
1 TAAAAT
21304360 TTTAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
21 5 0.21
22 7 0.29
23 11 0.46
24 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (24 bp):
TAAAATATATTATTATAATTTTAT
Found at i:21304371 original size:18 final size:19
Alignment explanation
Indices: 21304318--21304373 Score: 62
Period size: 18 Copynumber: 2.9 Consensus size: 19
21304308 TAAAATATAT
*
21304318 TATTTT-AATTTTGTTAAA
1 TATTTTAAATTTTATTAAA
21304336 TATATTTATAATTTTTATTAAA
1 TAT-TTTA-AA-TTTTATTAAA
21304358 -ATTTTAAATTTTATTA
1 TATTTTAAATTTTATTA
21304374 TTTTAATATC
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
18 11 0.33
19 5 0.15
20 4 0.12
21 4 0.12
22 9 0.27
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.61
Consensus pattern (19 bp):
TATTTTAAATTTTATTAAA
Found at i:21304780 original size:18 final size:17
Alignment explanation
Indices: 21304750--21304793 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 17
21304740 TAAAAATTAA
* *
21304750 TATTTTTTA-AAAATTT
1 TATTTTTAATAAAATAT
21304766 TATTTATTAATAAAATAT
1 TATTT-TTAATAAAATAT
21304784 TATTTTTAAT
1 TATTTTTAAT
21304794 TCATTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 5 0.21
17 8 0.33
18 11 0.46
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (17 bp):
TATTTTTAATAAAATAT
Found at i:21305325 original size:29 final size:26
Alignment explanation
Indices: 21305293--21305358 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
21305283 AATATTAACA
21305293 AAATTTTTATTATTAAATAAATATTGATT
1 AAATTTTTATTA-TAAAT-AATATT-ATT
** *
21305322 AAATTTAAATTATAAATAATATTTTT
1 AAATTTTTATTATAAATAATATTATT
21305348 AATATTTTTAT
1 AA-ATTTTTAT
21305359 ATGTTATTAA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
26 4 0.13
27 12 0.39
28 5 0.16
29 10 0.32
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
AAATTTTTATTATAAATAATATTATT
Found at i:21305387 original size:22 final size:24
Alignment explanation
Indices: 21305362--21305420 Score: 79
Period size: 22 Copynumber: 2.5 Consensus size: 24
21305352 TTTTTATATG
21305362 TTATTAATTT-TC-ATATTAAA-TT
1 TTATTAATTTATCAAT-TTAAATTT
21305384 TTATTAATTTATCAATTTAAATTT
1 TTATTAATTTATCAATTTAAATTT
21305408 TTATTAAATTTAT
1 TTATT-AATTTAT
21305421 TTATTTATTA
Statistics
Matches: 33, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
22 10 0.30
23 7 0.21
24 9 0.27
25 7 0.21
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.59
Consensus pattern (24 bp):
TTATTAATTTATCAATTTAAATTT
Found at i:21305417 original size:17 final size:18
Alignment explanation
Indices: 21305375--21305437 Score: 53
Period size: 17 Copynumber: 3.7 Consensus size: 18
21305365 TTAATTTTCA
*
21305375 TATTAAATTT-TATTAATT
1 TATTAAATTTAAATT-ATT
*
21305393 TA-TCAATTTAAATT-TT
1 TATTAAATTTAAATTATT
*
21305409 TATTAAATTT-ATTTATT
1 TATTAAATTTAAATTATT
*
21305426 TATTATATTTAA
1 TATTAAATTTAA
21305438 TAAAAAAATT
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
16 7 0.19
17 23 0.64
18 6 0.17
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (18 bp):
TATTAAATTTAAATTATT
Found at i:21329337 original size:87 final size:87
Alignment explanation
Indices: 21329191--21329359 Score: 261
Period size: 87 Copynumber: 1.9 Consensus size: 87
21329181 ATTTCACTAA
* * * *
21329191 GTGCAAGAGAATTAGCATAGTCTACAAATAAAAACACGGCAAACTCATAAAATTCATCAAACTAG
1 GTGCAAGAGAATTAGCAAAGTATAAAAATAAAAACACGCCAAACTCATAAAATTCATCAAACTAG
21329256 TGAGACAAACAAAAAAGGGCTT
66 TGAGACAAACAAAAAAGGGCTT
21329278 GTGCAA-ACGAATTAGCAAAGTATAAAAATAAAAACA-GACCAAACTCATAAAATTCATCAAACT
1 GTGCAAGA-GAATTAGCAAAGTATAAAAATAAAAACACG-CCAAACTCATAAAATTCATCAAACT
*
21329341 GGTGAGACAAACAAAAAAG
64 AGTGAGACAAACAAAAAAG
21329360 TTCTTCCCGT
Statistics
Matches: 75, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
86 2 0.03
87 73 0.97
ACGTcount: A:0.51, C:0.17, G:0.15, T:0.17
Consensus pattern (87 bp):
GTGCAAGAGAATTAGCAAAGTATAAAAATAAAAACACGCCAAACTCATAAAATTCATCAAACTAG
TGAGACAAACAAAAAAGGGCTT
Found at i:21329936 original size:150 final size:149
Alignment explanation
Indices: 21329638--21329934 Score: 562
Period size: 150 Copynumber: 2.0 Consensus size: 149
21329628 GGCAGTAAAT
21329638 TTTATATATCTGGAATTGAATTCAAGTCCCCCAAACAAGGAAACCGATACCTTAAATTGAAACAA
1 TTTATATATCTGGAATTGAATTCAAGTCCCCCAAACAAGGAAACCGATACCTTAAATTGAAACAA
*
21329703 AAGAAAATTCAAGCCAGAAATTCAACCAGAAAAAGCTATTAAGCAAAAACCTACTACCAATCGGC
66 AAGAAAATTCAAGCCAGAAATTCAACCAGAAAAAGCTATTAAGCAAAAACCTACTACCAATCGAC
21329768 ATTAAATTAGGGGAAAAAA
131 ATTAAATTAGGGGAAAAAA
21329787 TTTATATATCTGGAATTGAATTCAAGTCTCCCCAAACAAGGAAACCGATACCTTAAATTGAAACA
1 TTTATATATCTGGAATTGAATTCAAGTC-CCCCAAACAAGGAAACCGATACCTTAAATTGAAACA
21329852 AAAGAAAATTCAAGCCAGAAATTCAACCAGAAAAAGC-ATTAAGCAAAAACCTACTACCAATCGA
65 AAAGAAAATTCAAGCCAGAAATTCAACCAGAAAAAGCTATTAAGCAAAAACCTACTACCAATCGA
21329916 CA-TAAATTAGGGGAAAAAA
130 CATTAAATTAGGGGAAAAAA
21329935 AAACCATGCA
Statistics
Matches: 146, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
148 17 0.12
149 56 0.38
150 73 0.50
ACGTcount: A:0.47, C:0.19, G:0.13, T:0.21
Consensus pattern (149 bp):
TTTATATATCTGGAATTGAATTCAAGTCCCCCAAACAAGGAAACCGATACCTTAAATTGAAACAA
AAGAAAATTCAAGCCAGAAATTCAACCAGAAAAAGCTATTAAGCAAAAACCTACTACCAATCGAC
ATTAAATTAGGGGAAAAAA
Found at i:21330800 original size:18 final size:18
Alignment explanation
Indices: 21330777--21330813 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21330767 ATAAACTGAA
* *
21330777 TTATATTTTTTTAATTTT
1 TTATATATTTTAAATTTT
21330795 TTATATATTTTAAATTTT
1 TTATATATTTTAAATTTT
21330813 T
1 T
21330814 AAAAATAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (18 bp):
TTATATATTTTAAATTTT
Found at i:21330885 original size:15 final size:13
Alignment explanation
Indices: 21330853--21330892 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
21330843 ATTTACTTAA
21330853 ATATATTAAAATT
1 ATATATTAAAATT
* *
21330866 GTATATTAAAATA
1 ATATATTAAAATT
*
21330879 ATATATAAAAATT
1 ATATATTAAAATT
21330892 A
1 A
21330893 AAAATCTATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (13 bp):
ATATATTAAAATT
Found at i:21336869 original size:6 final size:6
Alignment explanation
Indices: 21336858--21336885 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21336848 AAAAATAAAT
21336858 TATTTA TATTTA TATTTA TATTTA TATT
1 TATTTA TATTTA TATTTA TATTTA TATT
21336886 AGTAACCTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (6 bp):
TATTTA
Found at i:21337731 original size:13 final size:14
Alignment explanation
Indices: 21337709--21337737 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21337699 TCAAAAGTTA
21337709 TTATATTTTTATAT
1 TTATATTTTTATAT
21337723 TTATA-TTTTATAT
1 TTATATTTTTATAT
21337736 TT
1 TT
21337738 TTTTAATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TTATATTTTTATAT
Found at i:21337733 original size:21 final size:21
Alignment explanation
Indices: 21337709--21337749 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
21337699 TCAAAAGTTA
*
21337709 TTATATTTTTATATTTATATT
1 TTATATTTTTATAATTATATT
*
21337730 TTATATTTTTTTAATTATAT
1 TTATATTTTTATAATTATAT
21337750 ATATATATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (21 bp):
TTATATTTTTATAATTATATT
Found at i:21348069 original size:17 final size:17
Alignment explanation
Indices: 21348025--21348072 Score: 51
Period size: 19 Copynumber: 2.7 Consensus size: 17
21348015 TTTATTTAAC
**
21348025 ATAATTTTTTTTATAAA
1 ATAATTTTTTAAATAAA
*
21348042 ATATATATTTTTAAATATA
1 ATA-AT-TTTTTAAATAAA
21348061 ATAATTTTTTAA
1 ATAATTTTTTAA
21348073 TCATAATTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 10 0.38
18 4 0.15
19 12 0.46
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
ATAATTTTTTAAATAAA
Found at i:21352231 original size:69 final size:69
Alignment explanation
Indices: 21352120--21352257 Score: 258
Period size: 69 Copynumber: 2.0 Consensus size: 69
21352110 GACAACATCT
*
21352120 ACGAATGATATAGTATCCAATTTACCTCCATATATGATACGTGTTTTAGATGCAACTTCCTCTAA
1 ACGAATGATATAGTATCCAAGTTACCTCCATATATGATACGTGTTTTAGATGCAACTTCCTCTAA
21352185 AACA
66 AACA
*
21352189 ACGAATGATATAGTATCCAAGTTACCTCCATATATGATACGTGTTTTAGATGCAACTTCCTCTGA
1 ACGAATGATATAGTATCCAAGTTACCTCCATATATGATACGTGTTTTAGATGCAACTTCCTCTAA
21352254 AACA
66 AACA
21352258 TTCTTTTTAA
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.34, C:0.20, G:0.13, T:0.33
Consensus pattern (69 bp):
ACGAATGATATAGTATCCAAGTTACCTCCATATATGATACGTGTTTTAGATGCAACTTCCTCTAA
AACA
Found at i:21354949 original size:5 final size:5
Alignment explanation
Indices: 21354939--21354963 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
21354929 TCATTTGCAA
21354939 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
21354964 CTCCCATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:21371927 original size:57 final size:57
Alignment explanation
Indices: 21371866--21372155 Score: 400
Period size: 57 Copynumber: 5.2 Consensus size: 57
21371856 GCCACCAATC
* * * ** * *
21371866 CCAATATACAAACCCCCACCAGTTCCAGTATACAAAAAACCACTTCCTCCCCCGGTT
1 CCAATCTACAAACCTCCTCCAGTTCCAGTATATGAAAAACCACTTCCTCCTCCAGTT
* *
21371923 CCAATCTACAAACCTCCTCCAGTTCCAGTATATGAAAAGCCACTTCCACCTCCAGTT
1 CCAATCTACAAACCTCCTCCAGTTCCAGTATATGAAAAACCACTTCCTCCTCCAGTT
* * *
21371980 CCAATCTAC-AA--GCCTCCAG-T--A-TACA--AGAAACCACTTCCTCCTCCAGTT
1 CCAATCTACAAACCTCCTCCAGTTCCAGTATATGAAAAACCACTTCCTCCTCCAGTT
21372028 CCAATCTACAAACCTCCTCCAGTTCCAGTATATGAAAAACCACTTCCTCCTCCAGTT
1 CCAATCTACAAACCTCCTCCAGTTCCAGTATATGAAAAACCACTTCCTCCTCCAGTT
*
21372085 CCAATCTACAAGCCTCCTCCAGTTCCAGTATATGAAAAACCACTTCCTCCTCCAGTT
1 CCAATCTACAAACCTCCTCCAGTTCCAGTATATGAAAAACCACTTCCTCCTCCAGTT
21372142 CCAATCTACAAACC
1 CCAATCTACAAACC
21372156 CCCGGTATAT
Statistics
Matches: 205, Mismatches: 19, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
48 29 0.14
49 2 0.01
50 3 0.01
51 8 0.04
52 1 0.00
53 1 0.00
54 8 0.04
55 3 0.01
56 2 0.01
57 148 0.72
ACGTcount: A:0.31, C:0.38, G:0.08, T:0.23
Consensus pattern (57 bp):
CCAATCTACAAACCTCCTCCAGTTCCAGTATATGAAAAACCACTTCCTCCTCCAGTT
Found at i:21372012 original size:105 final size:105
Alignment explanation
Indices: 21371889--21372155 Score: 390
Period size: 105 Copynumber: 2.5 Consensus size: 105
21371879 CCCCACCAGT
*
21371889 TCCAGTATACAAAAAACCACTTCCTCCCCCGGTTCCAATCTACAAACCTCCTCCAGTTCCAGTAT
1 TCCAGTATACAAAAAACCACTTCCTCCCCCAGTTCCAATCTACAAACCTCCTCCAGTTCCAGTAT
*
21371954 ATGAAAAGCCACTTCCACCTCCAGTTCCAATCTACAAGCC
66 ATGAAAAACCACTTCCACCTCCAGTTCCAATCTACAAGCC
* *
21371994 TCCAGTATACAAGAAACCACTTCCTCCTCCAGTTCCAATCTACAAACCTCCTCCAGTTCCAGTAT
1 TCCAGTATACAAAAAACCACTTCCTCCCCCAGTTCCAATCTACAAACCTCCTCCAGTTCCAGTAT
*
21372059 ATGAAAAACCACTTCCTCCTCCAGTTCCAATCTACAAGCCTCC
66 ATGAAAAACCACTTCCACCTCCAGTTCCAATCTACAAG---CC
* *
21372102 TCCAGTTCCAGTATATGAAAAACCACTTCCTCCTCCAGTTCCAATCTACAAACC
1 TCCAG-T--A-TACA--AAAAACCACTTCCTCCCCCAGTTCCAATCTACAAACC
21372156 CCCGGTATAT
Statistics
Matches: 146, Mismatches: 7, Indels: 9
0.90 0.04 0.06
Matches are distributed among these distances:
105 98 0.67
108 7 0.05
109 1 0.01
111 1 0.01
112 3 0.02
114 36 0.25
ACGTcount: A:0.30, C:0.37, G:0.08, T:0.24
Consensus pattern (105 bp):
TCCAGTATACAAAAAACCACTTCCTCCCCCAGTTCCAATCTACAAACCTCCTCCAGTTCCAGTAT
ATGAAAAACCACTTCCACCTCCAGTTCCAATCTACAAGCC
Found at i:21372043 original size:24 final size:24
Alignment explanation
Indices: 21372016--21372111 Score: 84
Period size: 24 Copynumber: 3.6 Consensus size: 24
21372006 GAAACCACTT
21372016 CCTCCTCCAGTTCCAATCTACAAA
1 CCTCCTCCAGTTCCAATCTACAAA
* *
21372040 CCTCCTCCAGTTCCAGTATATGAAAAACCA
1 CCTCCTCCAGTTCCA--ATCT--ACAA--A
*
21372070 CTTCCTCCTCCAGTTCCAATCTACAAG
1 ---CCTCCTCCAGTTCCAATCTACAAA
21372097 CCTCCTCCAGTTCCA
1 CCTCCTCCAGTTCCA
21372112 GTATATGAAA
Statistics
Matches: 58, Mismatches: 5, Indels: 18
0.72 0.06 0.22
Matches are distributed among these distances:
24 30 0.52
26 3 0.05
28 3 0.05
29 3 0.05
30 1 0.02
31 3 0.05
33 15 0.26
ACGTcount: A:0.26, C:0.41, G:0.07, T:0.26
Consensus pattern (24 bp):
CCTCCTCCAGTTCCAATCTACAAA
Found at i:21372055 original size:30 final size:30
Alignment explanation
Indices: 21372021--21372113 Score: 77
Period size: 30 Copynumber: 3.2 Consensus size: 30
21372011 CACTTCCTCC
21372021 TCCAGTTCCAATCTACAAACCTCCTCCAGT
1 TCCAGTTCCAATCTACAAACCTCCTCCAGT
* * * * ***
21372051 TCCAG-T--ATAT-GAAAAACCACTTCCTCC
1 TCCAGTTCCA-ATCTACAAACCTCCTCCAGT
*
21372078 TCCAGTTCCAATCTACAAGCCTCCTCCAGT
1 TCCAGTTCCAATCTACAAACCTCCTCCAGT
21372108 TCCAGT
1 TCCAGT
21372114 ATATGAAAAA
Statistics
Matches: 43, Mismatches: 15, Indels: 10
0.63 0.22 0.15
Matches are distributed among these distances:
27 16 0.37
28 3 0.07
29 3 0.07
30 21 0.49
ACGTcount: A:0.27, C:0.38, G:0.09, T:0.27
Consensus pattern (30 bp):
TCCAGTTCCAATCTACAAACCTCCTCCAGT
Found at i:21372082 original size:33 final size:33
Alignment explanation
Indices: 21372040--21372144 Score: 120
Period size: 33 Copynumber: 3.5 Consensus size: 33
21372030 AATCTACAAA
21372040 CCTCCTCCAGTTCCAGTATATGAAAAACCACTT
1 CCTCCTCCAGTTCCAGTATATGAAAAACCACTT
* **
21372073 CCTCCTCCAGTTCCA--ATCT-----A-CA-AG
1 CCTCCTCCAGTTCCAGTATATGAAAAACCACTT
21372097 CCTCCTCCAGTTCCAGTATATGAAAAACCACTT
1 CCTCCTCCAGTTCCAGTATATGAAAAACCACTT
21372130 CCTCCTCCAGTTCCA
1 CCTCCTCCAGTTCCA
21372145 ATCTACAAAC
Statistics
Matches: 57, Mismatches: 6, Indels: 18
0.70 0.07 0.22
Matches are distributed among these distances:
24 15 0.26
25 2 0.04
26 4 0.07
31 4 0.07
32 2 0.04
33 30 0.53
ACGTcount: A:0.27, C:0.38, G:0.09, T:0.27
Consensus pattern (33 bp):
CCTCCTCCAGTTCCAGTATATGAAAAACCACTT
Found at i:21372106 original size:162 final size:162
Alignment explanation
Indices: 21371830--21372206 Score: 520
Period size: 162 Copynumber: 2.3 Consensus size: 162
21371820 CCCACTACTC
* * * * * * * * * *
21371830 CCTCCAATCTACAAGAAGCCTCTTCCGCCACCAATCCCAATATACAAACCCCCACCAGTTCCAGT
1 CCTCCAGTATACAAGAAACCACTTCCTCCTCCAGTTCCAATCTACAAACCTCCACCAGTTCCAGT
*
21371895 ATACAAAAAACCACTTCCTCCCCCGGTTCCAATCTACAAACCTCCTCCAGTTCCAGTATATGAAA
66 ATACAAAAAACCACTTCCTCCCCCAGTTCCAATCTACAAACCTCCTCCAGTTCCAGTATATGAAA
* *
21371960 AGCCACTTCCACCTCCAGTTCCAATCTACAAG
131 AACCACTTCCACCTCCAGTTCCAATCTACAAA
*
21371992 CCTCCAGTATACAAGAAACCACTTCCTCCTCCAGTTCCAATCTACAAACCTCCTCCAGTTCCAGT
1 CCTCCAGTATACAAGAAACCACTTCCTCCTCCAGTTCCAATCTACAAACCTCCACCAGTTCCAGT
** * *
21372057 ATATGAAAAACCACTTCCTCCTCCAGTTCCAATCTACAAGCCTCCTCCAGTTCCAGTATATGAAA
66 ATACAAAAAACCACTTCCTCCCCCAGTTCCAATCTACAAACCTCCTCCAGTTCCAGTATATGAAA
*
21372122 AACCACTTCCTCCTCCAGTTCCAATCTACAAA
131 AACCACTTCCACCTCCAGTTCCAATCTACAAA
* * * * ** *
21372154 CCCCCGGTATATAAGAAACCACTTCCTCCTCCGGTTCCTGTCTACAAGCCTCC
1 CCTCCAGTATACAAGAAACCACTTCCTCCTCCAGTTCCAATCTACAAACCTCC
21372207 GGTATATAAA
Statistics
Matches: 189, Mismatches: 26, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
162 189 1.00
ACGTcount: A:0.29, C:0.39, G:0.08, T:0.23
Consensus pattern (162 bp):
CCTCCAGTATACAAGAAACCACTTCCTCCTCCAGTTCCAATCTACAAACCTCCACCAGTTCCAGT
ATACAAAAAACCACTTCCTCCCCCAGTTCCAATCTACAAACCTCCTCCAGTTCCAGTATATGAAA
AACCACTTCCACCTCCAGTTCCAATCTACAAA
Found at i:21372214 original size:48 final size:47
Alignment explanation
Indices: 21372112--21372216 Score: 147
Period size: 48 Copynumber: 2.2 Consensus size: 47
21372102 TCCAGTTCCA
21372112 GTATATGAAAAACCACTTCCTCCTCCAGTTCCAATCTACAAACCCCCG
1 GTATAT-AAAAACCACTTCCTCCTCCAGTTCCAATCTACAAACCCCCG
* ** * *
21372160 GTATATAAGAAACCACTTCCTCCTCCGGTTCCTGTCTACAAGCCTCCG
1 GTATATAA-AAACCACTTCCTCCTCCAGTTCCAATCTACAAACCCCCG
21372208 GTATATAAA
1 GTATATAAA
21372217 CCCCCTCCAT
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
47 3 0.06
48 48 0.94
ACGTcount: A:0.30, C:0.33, G:0.11, T:0.26
Consensus pattern (47 bp):
GTATATAAAAACCACTTCCTCCTCCAGTTCCAATCTACAAACCCCCG
Found at i:21372237 original size:63 final size:63
Alignment explanation
Indices: 21372167--21372351 Score: 334
Period size: 63 Copynumber: 2.9 Consensus size: 63
21372157 CCGGTATATA
21372167 AGAAACCACTTCCTCCTCCGGTTCCTGTCTACAAGCCTCCGGTATATAAACCCCCTCCATACG
1 AGAAACCACTTCCTCCTCCGGTTCCTGTCTACAAGCCTCCGGTATATAAACCCCCTCCATACG
21372230 AGAAACCACTTCCTCCTCCGGTTCCTGTCTACAAGCCTCCGGTATATAAACCCCCTCCATACG
1 AGAAACCACTTCCTCCTCCGGTTCCTGTCTACAAGCCTCCGGTATATAAACCCCCTCCATACG
* * * *
21372293 AGAAACCACTTCCTCCTCCAGTTCCAGTCTACAAGCCTCCGGTCTATAAACCTCCTCCA
1 AGAAACCACTTCCTCCTCCGGTTCCTGTCTACAAGCCTCCGGTATATAAACCCCCTCCA
21372352 GTTCCGGTAT
Statistics
Matches: 118, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
63 118 1.00
ACGTcount: A:0.24, C:0.40, G:0.12, T:0.24
Consensus pattern (63 bp):
AGAAACCACTTCCTCCTCCGGTTCCTGTCTACAAGCCTCCGGTATATAAACCCCCTCCATACG
Found at i:21372379 original size:72 final size:72
Alignment explanation
Indices: 21372288--21372476 Score: 288
Period size: 72 Copynumber: 2.6 Consensus size: 72
21372278 AACCCCCTCC
* * * *
21372288 ATACGAGAAACCACTTCCTCCTCCAGTTCCAGTCTACAAGCCTCCGGTCTATAAACCTCCTCCAG
1 ATACGAGAAACCACTTCCTCCCCCAGTTCCAGTATACAAGCCTCCAGTCTATAAACCCCCTCCAG
*
21372353 TTCCGGT
66 TTCCAGT
* * *
21372360 ATACAAGAAACCACTTCCTCCCCCAGTTCCAATATACAAGCCTCCAGTCTATAAGCCCCCTCCAG
1 ATACGAGAAACCACTTCCTCCCCCAGTTCCAGTATACAAGCCTCCAGTCTATAAACCCCCTCCAG
21372425 TTCCAGT
66 TTCCAGT
* *
21372432 GTACGAGAAACCACTTCCTCCCCCAGTTCCAGTTTACAAGCCTCC
1 ATACGAGAAACCACTTCCTCCCCCAGTTCCAGTATACAAGCCTCC
21372477 TCCAATTCCA
Statistics
Matches: 105, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 105 1.00
ACGTcount: A:0.26, C:0.39, G:0.12, T:0.23
Consensus pattern (72 bp):
ATACGAGAAACCACTTCCTCCCCCAGTTCCAGTATACAAGCCTCCAGTCTATAAACCCCCTCCAG
TTCCAGT
Found at i:21372380 original size:33 final size:33
Alignment explanation
Indices: 21372343--21372471 Score: 107
Period size: 33 Copynumber: 3.7 Consensus size: 33
21372333 GGTCTATAAA
* *
21372343 CCTCCTCCAGTTCCGGTATACAAGAAACCACTT
1 CCTCCCCCAGTTCCAGTATACAAGAAACCACTT
* ***
21372376 CCTCCCCCAGTTCCAATATACAAGCCTCCAGTCTAT
1 CCTCCCCCAGTTCCAGTATACAAGAAACCA--CT-T
* *
21372412 AAGCC-CCCTCCAGTTCCAGTGTACGAGAAACCACTT
1 ---CCTCCC-CCAGTTCCAGTATACAAGAAACCACTT
*
21372448 CCTCCCCCAGTTCCAGTTTACAAG
1 CCTCCCCCAGTTCCAGTATACAAG
21372472 CCTCCTCCAA
Statistics
Matches: 74, Mismatches: 14, Indels: 16
0.71 0.13 0.15
Matches are distributed among these distances:
33 42 0.57
34 3 0.04
35 2 0.03
36 2 0.03
37 2 0.03
38 3 0.04
39 20 0.27
ACGTcount: A:0.26, C:0.39, G:0.12, T:0.23
Consensus pattern (33 bp):
CCTCCCCCAGTTCCAGTATACAAGAAACCACTT
Found at i:21374386 original size:21 final size:22
Alignment explanation
Indices: 21374345--21374398 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
21374335 GATACGAAAA
* * *
21374345 TATAAAATATATTTTTTA-TTT
1 TATAAAATTTATTTATAATTTT
21374366 TATAAAATTTATTTATAATTTT
1 TATAAAATTTATTTATAATTTT
21374388 TATTAAAATTT
1 TA-TAAAATTT
21374399 TAAATTATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 15 0.54
22 5 0.18
23 8 0.29
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TATAAAATTTATTTATAATTTT
Found at i:21374389 original size:13 final size:13
Alignment explanation
Indices: 21374352--21374446 Score: 61
Period size: 13 Copynumber: 7.2 Consensus size: 13
21374342 AAATATAAAA
*
21374352 TATATTTTTTATTT
1 TATAATTTTTA-TT
**
21374366 TATAAAATTTATT
1 TATAATTTTTATT
21374379 TATAATTTTTA-T
1 TATAATTTTTATT
* * *
21374391 TAAAATTTTAAAT
1 TATAATTTTTATT
*
21374404 TAT-ATTATT-TT
1 TATAATTTTTATT
*
21374415 TATATTTTTTATT
1 TATAATTTTTATT
21374428 TATATCATTTTTATAT
1 TATA--ATTTTTAT-T
21374444 TAT
1 TAT
21374447 TTAAAATTAA
Statistics
Matches: 61, Mismatches: 14, Indels: 10
0.72 0.16 0.12
Matches are distributed among these distances:
11 4 0.07
12 18 0.30
13 20 0.33
14 8 0.13
15 7 0.11
16 4 0.07
ACGTcount: A:0.34, C:0.01, G:0.00, T:0.65
Consensus pattern (13 bp):
TATAATTTTTATT
Found at i:21374417 original size:11 final size:11
Alignment explanation
Indices: 21374403--21374448 Score: 56
Period size: 11 Copynumber: 4.0 Consensus size: 11
21374393 AAATTTTAAA
21374403 TTATATTATTT
1 TTATATTATTT
*
21374414 TTATATTTTTTAT
1 TTATA-TTATT-T
*
21374427 TTATATCATTT
1 TTATATTATTT
21374438 TTATATTATTT
1 TTATATTATTT
21374449 AAAATTAATA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 16 0.55
12 7 0.24
13 6 0.21
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.72
Consensus pattern (11 bp):
TTATATTATTT
Found at i:21374423 original size:24 final size:24
Alignment explanation
Indices: 21374396--21374451 Score: 76
Period size: 24 Copynumber: 2.3 Consensus size: 24
21374386 TTTATTAAAA
*
21374396 TTTTAAATTATATTATTTTTATAT
1 TTTTAAATTATATCATTTTTATAT
* *
21374420 TTTTTATTTATATCATTTTTATAT
1 TTTTAAATTATATCATTTTTATAT
21374444 TATTTAAA
1 T-TTTAAA
21374452 ATTAATAAAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
24 22 0.85
25 4 0.15
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (24 bp):
TTTTAAATTATATCATTTTTATAT
Found at i:21374426 original size:15 final size:16
Alignment explanation
Indices: 21374408--21374449 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
21374398 TTAAATTATA
21374408 TTATTTTTAT-ATTTT
1 TTATTTTTATCATTTT
*
21374423 TTATTTATATCATTTT
1 TTATTTTTATCATTTT
21374439 TATATTATTTA
1 T-TATT-TTTA
21374450 AAATTAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 9 0.41
16 6 0.27
17 4 0.18
18 3 0.14
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (16 bp):
TTATTTTTATCATTTT
Found at i:21374726 original size:13 final size:13
Alignment explanation
Indices: 21374708--21374743 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
21374698 ATTGGTTCAC
21374708 ATTAAATTTAGAT
1 ATTAAATTTAGAT
* *
21374721 ATTAAATATATAT
1 ATTAAATTTAGAT
21374734 ATTAAATTTA
1 ATTAAATTTA
21374744 AATAAAAAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (13 bp):
ATTAAATTTAGAT
Found at i:21376643 original size:13 final size:14
Alignment explanation
Indices: 21376618--21376646 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21376608 AATAATTTAT
21376618 TTATTTATTTAAAA
1 TTATTTATTTAAAA
21376632 TTATTT-TTTAAAA
1 TTATTTATTTAAAA
21376645 TT
1 TT
21376647 TATATAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (14 bp):
TTATTTATTTAAAA
Found at i:21376649 original size:14 final size:15
Alignment explanation
Indices: 21376616--21376659 Score: 56
Period size: 14 Copynumber: 3.0 Consensus size: 15
21376606 AAAATAATTT
21376616 ATTTATTTATTTAAA
1 ATTTATTTATTTAAA
21376631 A-TTATTT-TTTAAA
1 ATTTATTTATTTAAA
*
21376644 ATTTATATAATTTAAA
1 ATTTAT-TTATTTAAA
21376660 TTATCAATGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
13 7 0.28
14 10 0.40
15 2 0.08
16 6 0.24
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (15 bp):
ATTTATTTATTTAAA
Found at i:21378172 original size:12 final size:11
Alignment explanation
Indices: 21378149--21378186 Score: 53
Period size: 12 Copynumber: 3.5 Consensus size: 11
21378139 ATATTATTTT
21378149 TAAAT-ATAAA
1 TAAATAATAAA
21378159 TAAATAATTAAA
1 TAAATAA-TAAA
21378171 TAAATAATAAA
1 TAAATAATAAA
21378182 -AAATA
1 TAAATA
21378187 TTATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
10 10 0.38
11 5 0.19
12 11 0.42
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (11 bp):
TAAATAATAAA
Found at i:21386084 original size:42 final size:41
Alignment explanation
Indices: 21386025--21386108 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 41
21386015 ACCAAGTAAA
* *
21386025 TCAATGTTTTATTGTTCATGTATTAATTTTTTTGTTCTTGTT
1 TCAATGTATTATTGTTCATGTATTAA-GTTTTTGTTCTTGTT
*
21386067 TCAATGTATTATTGTTCATGTTTTAAGTTTTTGTTCTTGTT
1 TCAATGTATTATTGTTCATGTATTAAGTTTTTGTTCTTGTT
21386108 T
1 T
21386109 ACTTTGGTCT
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
41 15 0.38
42 24 0.62
ACGTcount: A:0.17, C:0.07, G:0.13, T:0.63
Consensus pattern (41 bp):
TCAATGTATTATTGTTCATGTATTAAGTTTTTGTTCTTGTT
Found at i:21386088 original size:22 final size:21
Alignment explanation
Indices: 21386025--21386108 Score: 77
Period size: 22 Copynumber: 4.0 Consensus size: 21
21386015 ACCAAGTAAA
21386025 TCAATGTTTTATTGTTCATGTAT
1 TCAATG-TTTATTGTTCATGT-T
* *
21386048 T-AAT-TTTTTTGTTCTTGTT
1 TCAATGTTTATTGTTCATGTT
21386067 TCAATGTATTATTGTTCATGTT
1 TCAATGT-TTATTGTTCATGTT
* *
21386089 TTAA-GTTT-TTGTTCTTGTT
1 TCAATGTTTATTGTTCATGTT
21386108 T
1 T
21386109 ACTTTGGTCT
Statistics
Matches: 52, Mismatches: 6, Indels: 10
0.76 0.09 0.15
Matches are distributed among these distances:
19 13 0.25
20 17 0.33
21 3 0.06
22 18 0.35
23 1 0.02
ACGTcount: A:0.17, C:0.07, G:0.13, T:0.63
Consensus pattern (21 bp):
TCAATGTTTATTGTTCATGTT
Found at i:21389187 original size:26 final size:26
Alignment explanation
Indices: 21389151--21389200 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
21389141 ATAATGATTT
*
21389151 ATTTGTTTATG-TATATTTACAAATAA
1 ATTTATTTATGATATATTTA-AAATAA
*
21389177 ATTTATTTATGATTTATTTAAAAT
1 ATTTATTTATGATATATTTAAAAT
21389201 TCGTTTATTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.67
27 7 0.33
ACGTcount: A:0.38, C:0.02, G:0.06, T:0.54
Consensus pattern (26 bp):
ATTTATTTATGATATATTTAAAATAA
Found at i:21389372 original size:12 final size:12
Alignment explanation
Indices: 21389337--21389411 Score: 62
Period size: 12 Copynumber: 6.1 Consensus size: 12
21389327 TAAATTTAGT
*
21389337 TGATTATAATT-
1 TGATTATATTTA
*
21389348 TGTTTATTATTTA
1 TGATTA-TATTTA
21389361 TGATTATATTTA
1 TGATTATATTTA
*
21389373 TTTATATATATTTA
1 -TGAT-TATATTTA
*
21389387 TGAATATATTTA
1 TGATTATATTTA
* *
21389399 TAAATATATTTA
1 TGATTATATTTA
21389411 T
1 T
21389412 TTAATATTTA
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
11 5 0.09
12 30 0.57
13 10 0.19
14 8 0.15
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.59
Consensus pattern (12 bp):
TGATTATATTTA
Found at i:21389384 original size:26 final size:24
Alignment explanation
Indices: 21389355--21389434 Score: 81
Period size: 23 Copynumber: 3.3 Consensus size: 24
21389345 ATTTGTTTAT
* *
21389355 TATTTATGATTATATTTATTTATATA
1 TATTTATGAATATATTTA--TAAATA
21389381 TATTTATGAATATATTTATAAATA
1 TATTTATGAATATATTTATAAATA
** *
21389405 TATTTATTTA-ATATTTACAAATA
1 TATTTATGAATATATTTATAAATA
*
21389428 AATTTAT
1 TATTTAT
21389435 TTAATTTAAT
Statistics
Matches: 48, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
23 18 0.38
24 13 0.27
26 17 0.35
ACGTcount: A:0.41, C:0.01, G:0.03, T:0.55
Consensus pattern (24 bp):
TATTTATGAATATATTTATAAATA
Found at i:21389393 original size:10 final size:10
Alignment explanation
Indices: 21389364--21389421 Score: 53
Period size: 12 Copynumber: 5.3 Consensus size: 10
21389354 TTATTTATGA
*
21389364 TTATATTTAT
1 TTATATATAT
21389374 TTATATATAT
1 TTATATATAT
21389384 TTATGAATATAT
1 TTAT--ATATAT
21389396 TTATAAATATAT
1 TTAT--ATATAT
*
21389408 TTATTTAATAT
1 TTATAT-ATAT
21389419 TTA
1 TTA
21389422 CAAATAAATT
Statistics
Matches: 42, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
10 14 0.33
11 7 0.17
12 21 0.50
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (10 bp):
TTATATATAT
Found at i:21389449 original size:23 final size:23
Alignment explanation
Indices: 21389392--21389453 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
21389382 ATTTATGAAT
* *
21389392 ATATTTATAAATATATTTATTTA
1 ATATTAATAAATAAATTTATTTA
* *
21389415 ATATTTACAAATAAATTTATTTA
1 ATATTAATAAATAAATTTATTTA
21389438 AT-TTAATTAAATAAAT
1 ATATTAA-TAAATAAAT
21389454 AAAAATAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
22 3 0.09
23 31 0.91
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
ATATTAATAAATAAATTTATTTA
Found at i:21397976 original size:24 final size:24
Alignment explanation
Indices: 21397928--21397976 Score: 57
Period size: 24 Copynumber: 2.0 Consensus size: 24
21397918 TTTGATTTAA
*
21397928 TTTTATTGTAATTTATTGATTATT
1 TTTTATTGTAATTTATTGATCATT
21397952 TTTTATT-TAATTATAATT-ATCATT
1 TTTTATTGTAATT-T-ATTGATCATT
21397976 T
1 T
21397977 ATATTTATAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
23 5 0.23
24 14 0.64
25 3 0.14
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (24 bp):
TTTTATTGTAATTTATTGATCATT
Found at i:21398477 original size:2 final size:2
Alignment explanation
Indices: 21398470--21398503 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
21398460 TTCTTACGGC
*
21398470 TA TA TA TA CA 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
21398504 AAGCAATTCA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:21401460 original size:21 final size:21
Alignment explanation
Indices: 21401436--21401476 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
21401426 GCACTCAGCT
21401436 CAGACAGAGTATTTTTCAGTC
1 CAGACAGAGTATTTTTCAGTC
*
21401457 CAGATAGAGTATTTTTCAGT
1 CAGACAGAGTATTTTTCAGT
21401477 TCATCAATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (21 bp):
CAGACAGAGTATTTTTCAGTC
Found at i:21402212 original size:33 final size:33
Alignment explanation
Indices: 21402174--21402274 Score: 159
Period size: 33 Copynumber: 3.1 Consensus size: 33
21402164 ATTAACACTG
21402174 CCACATCCTCCTGAGGTTCCACCTCACTTGGAA
1 CCACATCCTCCTGAGGTTCCACCTCACTTGGAA
*
21402207 CCACATCCTCCTGAGGTTCAACCTCACTTGGAA
1 CCACATCCTCCTGAGGTTCCACCTCACTTGGAA
* *
21402240 TCACATCCTCCTGATG-TCCAACCTCACTTGGAA
1 CCACATCCTCCTGAGGTTCC-ACCTCACTTGGAA
21402273 CC
1 CC
21402275 CCAATAGCCT
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
32 2 0.03
33 60 0.97
ACGTcount: A:0.23, C:0.39, G:0.14, T:0.25
Consensus pattern (33 bp):
CCACATCCTCCTGAGGTTCCACCTCACTTGGAA
Found at i:21402929 original size:21 final size:20
Alignment explanation
Indices: 21402895--21402942 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 20
21402885 GATAAAAAGG
21402895 ATAA-AAACAATAAAT-ATAA
1 ATAATAAACAATAAATAAT-A
21402914 ATAATAAACAGATAAATAATA
1 ATAATAAACA-ATAAATAATA
21402935 ATAATAAA
1 ATAATAAA
21402943 AGAAAGGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 4 0.15
20 5 0.19
21 15 0.58
22 2 0.08
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.23
Consensus pattern (20 bp):
ATAATAAACAATAAATAATA
Found at i:21409646 original size:20 final size:21
Alignment explanation
Indices: 21409617--21409661 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
21409607 ATATTTAAGT
*
21409617 ATTAACTTT-AATAATATATCA
1 ATTAACTTTAAAAAATA-ATCA
21409638 ATTAA-TTTAAAAAATAATCA
1 ATTAACTTTAAAAAATAATCA
21409658 ATTA
1 ATTA
21409662 CTTAATAAGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (21 bp):
ATTAACTTTAAAAAATAATCA
Found at i:21420376 original size:28 final size:28
Alignment explanation
Indices: 21420336--21420391 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
21420326 ACTGTGAGTA
*
21420336 TTCTGGTTGAATCCTCATGAAAGGGGGT
1 TTCTGGTTGAATCATCATGAAAGGGGGT
21420364 TTCTGGTTGAATCATCATGAAAGGGGGT
1 TTCTGGTTGAATCATCATGAAAGGGGGT
21420392 CGATAAAGAG
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.23, C:0.12, G:0.32, T:0.32
Consensus pattern (28 bp):
TTCTGGTTGAATCATCATGAAAGGGGGT
Found at i:21422760 original size:16 final size:16
Alignment explanation
Indices: 21422741--21422780 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
21422731 TAACATGAAC
21422741 TTAAAATAATTTAAAT
1 TTAAAATAATTTAAAT
*
21422757 TTAAAAAAATTTAAAT
1 TTAAAATAATTTAAAT
21422773 TTAAAATA
1 TTAAAATA
21422781 GTTTGAACCT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
TTAAAATAATTTAAAT
Done.