Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, 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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 119 of 129
Found at i:21461177 original size:32 final size:29
Alignment explanation
Indices: 21461109--21461180 Score: 83
Period size: 32 Copynumber: 2.3 Consensus size: 29
21461099 GATTCGTACA
*
21461109 ATATAAAATATTATATTTATATTATATTTT
1 ATATAAAA-ATTATATTTATATTATATTAT
21461139 ATATAAAAATTATATATTATAATTTATATTGAT
1 ATATAAAAATTATAT-TTAT-A-TTATATT-AT
21461172 A-ATAAAAAT
1 ATATAAAAAT
21461181 AAAATATATA
Statistics
Matches: 37, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
29 7 0.19
30 12 0.32
31 1 0.03
32 15 0.41
33 2 0.05
ACGTcount: A:0.50, C:0.00, G:0.01, T:0.49
Consensus pattern (29 bp):
ATATAAAAATTATATTTATATTATATTAT
Found at i:21462052 original size:14 final size:15
Alignment explanation
Indices: 21462026--21462058 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
21462016 TATATATATA
*
21462026 AAATATGAAATAAAT
1 AAATATGAAATAAAC
21462041 AAATAT-AAATAAAC
1 AAATATGAAATAAAC
21462055 AAAT
1 AAAT
21462059 TATTAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.70, C:0.03, G:0.03, T:0.24
Consensus pattern (15 bp):
AAATATGAAATAAAC
Found at i:21462620 original size:13 final size:13
Alignment explanation
Indices: 21462598--21462638 Score: 57
Period size: 13 Copynumber: 3.2 Consensus size: 13
21462588 TTTATCAAAC
21462598 TTAA-TTTTATAT
1 TTAATTTTTATAT
*
21462610 TTAATTTTTATTT
1 TTAATTTTTATAT
*
21462623 TTAATATTTATAT
1 TTAATTTTTATAT
21462636 TTA
1 TTA
21462639 TGTAAATTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
12 4 0.16
13 21 0.84
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TTAATTTTTATAT
Found at i:21465046 original size:22 final size:22
Alignment explanation
Indices: 21465018--21465088 Score: 97
Period size: 22 Copynumber: 3.2 Consensus size: 22
21465008 GGATACCAAG
21465018 AAAATAATGCAAATTAAAAGAA
1 AAAATAATGCAAATTAAAAGAA
21465040 AAAATAATGCAAATTAAAAGAAA
1 AAAATAATGCAAATTAAAAG-AA
** * *
21465063 AAAATAATAAAAATGAAAAAAA
1 AAAATAATGCAAATTAAAAGAA
21465085 AAAA
1 AAAA
21465089 AAGTTGGTTG
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 26 0.59
23 18 0.41
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (22 bp):
AAAATAATGCAAATTAAAAGAA
Found at i:21465068 original size:23 final size:23
Alignment explanation
Indices: 21465018--21465089 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
21465008 GGATACCAAG
21465018 AAAATAATGCAAATTAAAAG-AA
1 AAAATAATGCAAATTAAAAGAAA
21465040 AAAATAATGCAAATTAAAAGAAA
1 AAAATAATGCAAATTAAAAGAAA
** * *
21465063 AAAATAATAAAAATGAAAAAAAA
1 AAAATAATGCAAATTAAAAGAAA
21465086 AAAA
1 AAAA
21465090 AGTTGGTTGA
Statistics
Matches: 45, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
22 20 0.44
23 25 0.56
ACGTcount: A:0.75, C:0.03, G:0.07, T:0.15
Consensus pattern (23 bp):
AAAATAATGCAAATTAAAAGAAA
Found at i:21465266 original size:3 final size:3
Alignment explanation
Indices: 21465258--21465291 Score: 50
Period size: 3 Copynumber: 11.3 Consensus size: 3
21465248 CTCATCACAG
* *
21465258 ATT ATT ATT ATT ATT CTT ATT ATT ATT ATG ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
21465292 AAGCTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:21467701 original size:13 final size:14
Alignment explanation
Indices: 21467665--21467701 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
21467655 TTTTTAATAA
21467665 TAATTATA-TAAAT
1 TAATTATATTAAAT
*
21467678 TAATTAAATTAAAT
1 TAATTATATTAAAT
21467692 T-ATTATATTA
1 TAATTATATTA
21467702 TTGAGCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 15 0.71
14 6 0.29
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (14 bp):
TAATTATATTAAAT
Found at i:21468136 original size:35 final size:37
Alignment explanation
Indices: 21468066--21468137 Score: 87
Period size: 36 Copynumber: 2.0 Consensus size: 37
21468056 TTTGATTTAA
*
21468066 TTTTATATTTATAATAATTGAATTTGATCTGATTATT
1 TTTTATATTTATAATAATTGAACTTGATCTGATTATT
* *
21468103 TTTTAT-TTTTTAAT-ATTCGAACTTGAT-TTATTATT
1 TTTTATATTTATAATAATT-GAACTTGATCTGATTATT
21468138 GTATAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
35 10 0.32
36 15 0.48
37 6 0.19
ACGTcount: A:0.29, C:0.04, G:0.07, T:0.60
Consensus pattern (37 bp):
TTTTATATTTATAATAATTGAACTTGATCTGATTATT
Found at i:21468211 original size:16 final size:15
Alignment explanation
Indices: 21468192--21468245 Score: 54
Period size: 16 Copynumber: 3.4 Consensus size: 15
21468182 TATTATTTTT
21468192 AATATATATAAAATTA
1 AATA-ATATAAAATTA
*
21468208 AATAAATATAAAAATA
1 AAT-AATATAAAATTA
* *
21468224 TATAACTATTAAATTA
1 AATAA-TATAAAATTA
21468240 AATAAT
1 AATAAT
21468246 TAATTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
15 3 0.10
16 27 0.87
17 1 0.03
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (15 bp):
AATAATATAAAATTA
Found at i:21474941 original size:20 final size:21
Alignment explanation
Indices: 21474903--21474943 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
21474893 TATATATTAT
* *
21474903 TTTAATATAATTTTTAATATA
1 TTTAATATAAATTTAAATATA
21474924 TTTAA-ATAAATTTAAATATA
1 TTTAATATAAATTTAAATATA
21474944 AAATAATTAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAATATAAATTTAAATATA
Found at i:21478048 original size:2 final size:2
Alignment explanation
Indices: 21478041--21478069 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
21478031 AGATGGTATG
21478041 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
21478070 AGACACTCAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:21480008 original size:2 final size:2
Alignment explanation
Indices: 21480001--21480041 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
21479991 GCGTGTCCAT
21480001 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
21480042 GACCTGTCCA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:21482943 original size:10 final size:10
Alignment explanation
Indices: 21482919--21482948 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
21482909 TATTTTATCA
21482919 ATTAAAATA-
1 ATTAAAATAT
21482928 ATTAAAATAT
1 ATTAAAATAT
21482938 ATTAAAATAT
1 ATTAAAATAT
21482948 A
1 A
21482949 AAAAATTTAA
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:21483514 original size:79 final size:81
Alignment explanation
Indices: 21483368--21483527 Score: 234
Period size: 79 Copynumber: 2.0 Consensus size: 81
21483358 GAGTAATACA
* * *
21483368 AGTTTACTCTTGCTTATCTCTATTGTTATCTTTAACTTTCTATCAAATAGTTTTATGTGCAATCT
1 AGTTTACTCTTGCCTATCTCTACTGTTATCTTTAACTTTCCATCAAATAGTTTTATGTGCAATCT
* *
21483433 TGTCTAGCAGTAACTT
66 TGTCTAACAGCAACTT
* * *
21483449 AGTTTACTTTTGCCTATCTCTGCTGTTCT-TTTAACTTTCCATCAAATAG-TTTATGTGCAATCT
1 AGTTTACTCTTGCCTATCTCTACTGTTATCTTTAACTTTCCATCAAATAGTTTTATGTGCAATCT
21483512 TGTCTAACAGCAACTT
66 TGTCTAACAGCAACTT
21483528 GGGGTGGCTA
Statistics
Matches: 71, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
79 28 0.39
80 19 0.27
81 24 0.34
ACGTcount: A:0.23, C:0.19, G:0.11, T:0.46
Consensus pattern (81 bp):
AGTTTACTCTTGCCTATCTCTACTGTTATCTTTAACTTTCCATCAAATAGTTTTATGTGCAATCT
TGTCTAACAGCAACTT
Found at i:21483954 original size:12 final size:12
Alignment explanation
Indices: 21483937--21483962 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21483927 AGTTAGAGCT
21483937 TGAATTTTAGCC
1 TGAATTTTAGCC
21483949 TGAATTTTAGCC
1 TGAATTTTAGCC
21483961 TG
1 TG
21483963 TGACATAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.23, C:0.15, G:0.19, T:0.42
Consensus pattern (12 bp):
TGAATTTTAGCC
Found at i:21489249 original size:2 final size:2
Alignment explanation
Indices: 21489244--21489268 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21489234 TGTATATGTG
21489244 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
21489269 GTATGTATGT
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:21489273 original size:4 final size:4
Alignment explanation
Indices: 21489266--21489302 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
21489256 TATATATATA
21489266 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG T
21489303 TATTCAATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.51
Consensus pattern (4 bp):
TATG
Found at i:21490140 original size:2 final size:2
Alignment explanation
Indices: 21490135--21490173 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
21490125 TGTGCATGCT
21490135 TA TA TA TA TA TA TA 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 TA TA TA TA TA TA TA T
21490174 GCGTGATTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21490449 original size:13 final size:13
Alignment explanation
Indices: 21490431--21490455 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21490421 TATGATTAAA
21490431 TAAAAATTAAAAT
1 TAAAAATTAAAAT
21490444 TAAAAATTAAAA
1 TAAAAATTAAAA
21490456 CCAATAGATT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (13 bp):
TAAAAATTAAAAT
Found at i:21496543 original size:32 final size:31
Alignment explanation
Indices: 21496487--21496548 Score: 79
Period size: 32 Copynumber: 2.0 Consensus size: 31
21496477 TGATATAATT
* *
21496487 TAAAATTATAACTAATATTATATATATTTAA
1 TAAAATTAAAAATAATATTATATATATTTAA
* *
21496518 TAAAATTAAAAATATATATTTTATATTTTTA
1 TAAAATTAAAAATA-ATATTATATATATTTA
21496549 TGTTTATATA
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
31 12 0.46
32 14 0.54
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (31 bp):
TAAAATTAAAAATAATATTATATATATTTAA
Found at i:21504892 original size:22 final size:23
Alignment explanation
Indices: 21504862--21504914 Score: 65
Period size: 24 Copynumber: 2.3 Consensus size: 23
21504852 ATATATTTTT
21504862 TAATTTTATT-AAA-TTTAAATA
1 TAATTTTATTAAAATTTTAAATA
21504883 TAATTATTATTAAAATTTTAAATTA
1 TAATT-TTATTAAAATTTTAAA-TA
*
21504908 TATTTTT
1 TAATTTT
21504915 TTATATTTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
21 5 0.19
22 5 0.19
23 3 0.11
24 8 0.30
25 6 0.22
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TAATTTTATTAAAATTTTAAATA
Found at i:21504929 original size:27 final size:29
Alignment explanation
Indices: 21504897--21504964 Score: 88
Period size: 27 Copynumber: 2.4 Consensus size: 29
21504887 TATTATTAAA
*
21504897 ATTTTAAATTATATT-TT-T-TTATATTT
1 ATTTTAAATTATATTATTATATTATATAT
*
21504923 ATATTTATATTATATTATTATATTATATAT
1 AT-TTTAAATTATATTATTATATTATATAT
21504953 ATTTTAAATTAT
1 ATTTTAAATTAT
21504965 CTTCCGACGA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
26 2 0.06
27 12 0.34
28 2 0.06
29 10 0.29
30 9 0.26
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (29 bp):
ATTTTAAATTATATTATTATATTATATAT
Found at i:21504963 original size:24 final size:25
Alignment explanation
Indices: 21504915--21504964 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 25
21504905 TTATATTTTT
* *
21504915 TTATATTTATATTTATATTATATTA
1 TTATATTTATATATATATTAAATTA
*
21504940 TTATA-TTATATATATTTTAAATTA
1 TTATATTTATATATATATTAAATTA
21504964 T
1 T
21504965 CTTCCGACGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (25 bp):
TTATATTTATATATATATTAAATTA
Found at i:21511316 original size:16 final size:16
Alignment explanation
Indices: 21511291--21511323 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
21511281 AATCAAACAA
21511291 TAAATATA-TTTAAAT
1 TAAATATATTTTAAAT
21511306 TAAATTATATTTTAAAT
1 TAAA-TATATTTTAAAT
21511323 T
1 T
21511324 CTTAATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.25
16 4 0.25
17 8 0.50
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TAAATATATTTTAAAT
Found at i:21511464 original size:16 final size:16
Alignment explanation
Indices: 21511445--21511479 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
21511435 TATATATTTT
*
21511445 TTATTTTATATTTGAA
1 TTATATTATATTTGAA
*
21511461 TTATATTATATTTTAA
1 TTATATTATATTTGAA
21511477 TTA
1 TTA
21511480 AAATTTTGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.34, C:0.00, G:0.03, T:0.63
Consensus pattern (16 bp):
TTATATTATATTTGAA
Found at i:21513539 original size:95 final size:96
Alignment explanation
Indices: 21513370--21513562 Score: 255
Period size: 95 Copynumber: 2.0 Consensus size: 96
21513360 AGTTAAACTA
* * *
21513370 GTATTGATCTAAAAGTCATTACCTTAATTCGATCATATATAACAAGCAACTTTACATACTTGAAC
1 GTATTCATCTAAAAGTCACTACCTTAATTCGATCATATATAACAAGCAACTTTACATAATTGAAC
* *
21513435 AAGTCAGAAAACAACACTCTACAGATAACAT
66 AAGTCAGAAAACAACACGCTAAAGATAACAT
* * * * *
21513466 GTATTCATCTAAAAGTCACTACTTTAATTGGGTCCTA-A-AACCAAGCAACTTTACGTAATTGAA
1 GTATTCATCTAAAAGTCACTACCTTAATTCGATCATATATAA-CAAGCAACTTTACATAATTGAA
* *
21513529 TAAGTTAGAAAACAACACGCTAAAGATAACAT
65 CAAGTCAGAAAACAACACGCTAAAGATAACAT
21513561 GT
1 GT
21513563 TAGAAGAACA
Statistics
Matches: 84, Mismatches: 12, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
94 2 0.02
95 51 0.61
96 31 0.37
ACGTcount: A:0.42, C:0.19, G:0.11, T:0.28
Consensus pattern (96 bp):
GTATTCATCTAAAAGTCACTACCTTAATTCGATCATATATAACAAGCAACTTTACATAATTGAAC
AAGTCAGAAAACAACACGCTAAAGATAACAT
Found at i:21523091 original size:18 final size:18
Alignment explanation
Indices: 21523068--21523102 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
21523058 ACTAAGATTG
21523068 CAAAAGC-AAAAGTAAAAA
1 CAAAAGCTAAAAG-AAAAA
21523086 CAAAAGCTAAAAGAAAA
1 CAAAAGCTAAAAGAAAA
21523103 GATAACTCAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 11 0.69
19 5 0.31
ACGTcount: A:0.71, C:0.11, G:0.11, T:0.06
Consensus pattern (18 bp):
CAAAAGCTAAAAGAAAAA
Found at i:21528475 original size:32 final size:32
Alignment explanation
Indices: 21528446--21528511 Score: 114
Period size: 32 Copynumber: 2.0 Consensus size: 32
21528436 TTCATAAATT
21528446 ATAAATTTAATTAGCATAATTAAAAATAAAAC
1 ATAAATTTAATTAGCATAATTAAAAATAAAAC
*
21528478 ATAAATTTAATTAGCATAATTATAAATAATAAC
1 ATAAATTTAATTAGCATAATTAAAAATAA-AAC
21528511 A
1 A
21528512 ACAAATTATA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 28 0.88
33 4 0.12
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (32 bp):
ATAAATTTAATTAGCATAATTAAAAATAAAAC
Found at i:21529642 original size:14 final size:14
Alignment explanation
Indices: 21529623--21529669 Score: 51
Period size: 14 Copynumber: 3.2 Consensus size: 14
21529613 ATCAAGTTTG
21529623 TTTTTTTTTTTTAC
1 TTTTTTTTTTTTAC
*
21529637 TTTTTTCTTTTTACCC
1 TTTTTTTTTTTTA--C
21529653 TTTTTTATTTTTT-C
1 TTTTTT-TTTTTTAC
21529667 TTT
1 TTT
21529670 AAAAAATAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 16 0.57
16 7 0.25
17 5 0.18
ACGTcount: A:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (14 bp):
TTTTTTTTTTTTAC
Found at i:21529891 original size:10 final size:10
Alignment explanation
Indices: 21529878--21529916 Score: 53
Period size: 10 Copynumber: 4.0 Consensus size: 10
21529868 TTATTTTATC
21529878 ATATTTTTAA
1 ATATTTTTAA
21529888 ATATTTTT-A
1 ATATTTTTAA
*
21529897 ATATTTTAAA
1 ATATTTTTAA
*
21529907 ATTTTTTTAA
1 ATATTTTTAA
21529917 TATAGGGCTC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 8 0.32
10 17 0.68
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (10 bp):
ATATTTTTAA
Found at i:21529902 original size:19 final size:19
Alignment explanation
Indices: 21529878--21529919 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
21529868 TTATTTTATC
*
21529878 ATATTTTTAAATATTTTTA
1 ATATTTTAAAATATTTTTA
*
21529897 ATATTTTAAAATTTTTTTA
1 ATATTTTAAAATATTTTTA
21529916 ATAT
1 ATAT
21529920 AGGGCTCATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
ATATTTTAAAATATTTTTA
Found at i:21530884 original size:6 final size:7
Alignment explanation
Indices: 21530869--21530894 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21530859 TTTATTCTAC
21530869 TTTTATT
1 TTTTATT
21530876 TTTTATT
1 TTTTATT
21530883 TTTTATT
1 TTTTATT
21530890 TTTTA
1 TTTTA
21530895 ATTAAGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (7 bp):
TTTTATT
Found at i:21531469 original size:17 final size:17
Alignment explanation
Indices: 21531429--21531477 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
21531419 TTATTATTTT
* *
21531429 AATTTTTATATTTAT-A
1 AATTATTATATTAATAA
21531445 AATATATTATATTAATAA
1 AAT-TATTATATTAATAA
21531463 AATTATTAT-TTAATA
1 AATTATTATATTAATA
21531478 TTTTAATTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 9 0.31
17 16 0.55
18 4 0.14
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AATTATTATATTAATAA
Found at i:21531477 original size:16 final size:18
Alignment explanation
Indices: 21531434--21531477 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
21531424 ATTTTAATTT
*
21531434 TTATATTTAT-AAATATA
1 TTATATTAATAAAATATA
21531451 TTATATTAATAAAAT-TA
1 TTATATTAATAAAATATA
21531468 TTAT-TTAATA
1 TTATATTAATA
21531478 TTTTAATTTA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
16 6 0.24
17 15 0.60
18 4 0.16
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTATATTAATAAAATATA
Found at i:21537151 original size:15 final size:17
Alignment explanation
Indices: 21537133--21537166 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
21537123 TTGTTAATAA
21537133 TTTTAAA-AAAT-TATT
1 TTTTAAATAAATATATT
21537148 TTTTAAATAAATATATT
1 TTTTAAATAAATATATT
21537165 TT
1 TT
21537167 GATATAATAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
16 4 0.24
17 6 0.35
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTAAATAAATATATT
Found at i:21538104 original size:5 final size:6
Alignment explanation
Indices: 21538067--21538103 Score: 51
Period size: 6 Copynumber: 6.3 Consensus size: 6
21538057 ACTCAAAACT
21538067 AAAT-A AAATAA TAAATAA AAATAA AAAT-A AAATAA AA
1 AAATAA AAATAA -AAATAA AAATAA AAATAA AAATAA AA
21538104 TTTAAAGCCT
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
5 9 0.31
6 14 0.48
7 6 0.21
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (6 bp):
AAATAA
Found at i:21542807 original size:12 final size:12
Alignment explanation
Indices: 21542790--21542814 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21542780 CAATAATATG
21542790 TAAAAATATTAT
1 TAAAAATATTAT
21542802 TAAAAATATTAT
1 TAAAAATATTAT
21542814 T
1 T
21542815 TATAATTCAA
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:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAAATATTAT
Found at i:21542960 original size:18 final size:18
Alignment explanation
Indices: 21542937--21542972 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
21542927 TACAGGCTTG
21542937 GTCACTTGATCTATATGA
1 GTCACTTGATCTATATGA
21542955 GTCACTTGATCTATATGA
1 GTCACTTGATCTATATGA
21542973 AAATGGGACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.28, C:0.17, G:0.17, T:0.39
Consensus pattern (18 bp):
GTCACTTGATCTATATGA
Found at i:21549897 original size:2 final size:2
Alignment explanation
Indices: 21549890--21549917 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
21549880 TTTAGAATCT
21549890 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
21549918 AATGTATAGT
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):
TA
Found at i:21551743 original size:2 final size:2
Alignment explanation
Indices: 21551738--21551768 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
21551728 GTGTGTGGTT
21551738 TA TA TA 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 TA TA TA T
21551769 GACCTTCTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21560687 original size:13 final size:14
Alignment explanation
Indices: 21560658--21560684 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
21560648 AAATTATTAT
21560658 TTTTTATATTTAAA
1 TTTTTATATTTAAA
21560672 TTTTTATATTTAA
1 TTTTTATATTTAA
21560685 TTTCAACTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (14 bp):
TTTTTATATTTAAA
Found at i:21560823 original size:13 final size:13
Alignment explanation
Indices: 21560803--21560838 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
21560793 TATAATTTTT
*
21560803 TATTAAATTAATA
1 TATTAAATTAAAA
*
21560816 TTTTAAATTAAAA
1 TATTAAATTAAAA
21560829 TATTAAATTA
1 TATTAAATTA
21560839 TAATTTTATT
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
TATTAAATTAAAA
Found at i:21560850 original size:42 final size:41
Alignment explanation
Indices: 21560800--21560879 Score: 110
Period size: 42 Copynumber: 1.9 Consensus size: 41
21560790 TAATATAATT
21560800 TTTTATTAA-ATTAATAT-TTTAAATTAAAATATTAAATTATAA
1 TTTTATTAATA-TAATATATTTAAA-T-AAATATTAAATTATAA
*
21560842 TTTTATTAATATAATATATTTATATAAATATTAAATTA
1 TTTTATTAATATAATATATTTAAATAAATATTAAATTA
21560880 AATAAATAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
41 13 0.37
42 16 0.46
43 6 0.17
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (41 bp):
TTTTATTAATATAATATATTTAAATAAATATTAAATTATAA
Found at i:21566795 original size:8 final size:8
Alignment explanation
Indices: 21566771--21566814 Score: 56
Period size: 8 Copynumber: 5.6 Consensus size: 8
21566761 ATTATATAAA
21566771 TAATATAT
1 TAATATAT
21566779 TAATA-AT
1 TAATATAT
21566786 TAATATAT
1 TAATATAT
*
21566794 TATTA-AT
1 TAATATAT
21566801 ATAATATAT
1 -TAATATAT
21566810 TAATA
1 TAATA
21566815 ATATATTAGA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
7 9 0.29
8 20 0.65
9 2 0.06
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (8 bp):
TAATATAT
Found at i:21566821 original size:11 final size:11
Alignment explanation
Indices: 21566763--21566822 Score: 56
Period size: 11 Copynumber: 5.6 Consensus size: 11
21566753 ATATTTTTAT
*
21566763 TATATAAATAA
1 TATATTAATAA
21566774 TATATTAATAA
1 TATATTAATAA
*
21566785 T-TAAT-AT-A
1 TATATTAATAA
21566793 T-TATTAATATAA
1 TATATT-A-ATAA
21566805 TATATTAATAA
1 TATATTAATAA
21566816 TATATTA
1 TATATTA
21566823 GATTTGATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 10
0.76 0.06 0.19
Matches are distributed among these distances:
8 5 0.12
9 2 0.05
10 3 0.07
11 24 0.59
12 3 0.07
13 4 0.10
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
TATATTAATAA
Found at i:21567083 original size:29 final size:29
Alignment explanation
Indices: 21567024--21567086 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 29
21567014 AAAATATGAA
* *
21567024 TAATATGAATATACATAAATAGACATAAT
1 TAATATGAATATACATAAATAAACACAAT
* * * *
21567053 TAATATGGATATATATGAATAAACACGAT
1 TAATATGAATATACATAAATAAACACAAT
21567082 TAATA
1 TAATA
21567087 AAAATATATA
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.52, C:0.06, G:0.10, T:0.32
Consensus pattern (29 bp):
TAATATGAATATACATAAATAAACACAAT
Found at i:21567213 original size:11 final size:11
Alignment explanation
Indices: 21567197--21567226 Score: 60
Period size: 11 Copynumber: 2.7 Consensus size: 11
21567187 AATAAAAAAT
21567197 TTTAATATTCA
1 TTTAATATTCA
21567208 TTTAATATTCA
1 TTTAATATTCA
21567219 TTTAATAT
1 TTTAATAT
21567227 ACATATTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.37, C:0.07, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTAATATTCA
Found at i:21567802 original size:23 final size:23
Alignment explanation
Indices: 21567772--21567816 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
21567762 TATCTATAAT
21567772 ATATTATTTATTAATATAATATA
1 ATATTATTTATTAATATAATATA
* *
21567795 ATATTATTTATTTATATTATAT
1 ATATTATTTATTAATATAATAT
21567817 TATAATATAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
ATATTATTTATTAATATAATATA
Found at i:21567814 original size:5 final size:5
Alignment explanation
Indices: 21567761--21567828 Score: 54
Period size: 5 Copynumber: 14.2 Consensus size: 5
21567751 TGAAATTGTC
* * * *
21567761 ATATCT ATAAT ATATT AT-TT AT-TA ATATA ATATA ATATT AT-TT AT-TT
1 ATAT-T ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT ATATT
*
21567808 ATATT ATATT ATAAT ATATT A
1 ATATT ATATT ATATT ATATT A
21567829 AAAAGAATAT
Statistics
Matches: 54, Mismatches: 6, Indels: 5
0.83 0.09 0.08
Matches are distributed among these distances:
4 15 0.28
5 36 0.67
6 3 0.06
ACGTcount: A:0.44, C:0.01, G:0.00, T:0.54
Consensus pattern (5 bp):
ATATT
Found at i:21567825 original size:15 final size:15
Alignment explanation
Indices: 21567761--21567917 Score: 54
Period size: 15 Copynumber: 9.7 Consensus size: 15
21567751 TGAAATTGTC
21567761 ATATCTATAATATATT
1 ATAT-TATAATATATT
21567777 AT-TTATTAATATAATAT
1 ATATTA-TAATAT-AT-T
*
21567794 AATATTATTTATTTATATT
1 -ATATTA--TA-ATATATT
21567813 ATATTATAATATATT
1 ATATTATAATATATT
** *
21567828 A-AAAAGAATATATT
1 ATATTATAATATATT
**
21567842 A-AGAAATAAATAATATT
1 ATA-TTAT-AAT-ATATT
* *
21567859 ATAGTAATAA-ATAAT
1 ATA-TTATAATATATT
21567874 ATATTAATAA-ATATT
1 ATATT-ATAATATATT
*
21567889 ATTTTATTAATATTATT
1 ATATTA-TAATA-TATT
21567906 ATATTATTAATA
1 ATATTA-TAATA
21567918 ACAATATAAA
Statistics
Matches: 114, Mismatches: 12, Indels: 29
0.74 0.08 0.19
Matches are distributed among these distances:
14 16 0.14
15 39 0.34
16 10 0.09
17 24 0.21
18 13 0.11
19 4 0.04
20 5 0.04
21 3 0.03
ACGTcount: A:0.50, C:0.01, G:0.02, T:0.48
Consensus pattern (15 bp):
ATATTATAATATATT
Found at i:21567870 original size:22 final size:20
Alignment explanation
Indices: 21567836--21567879 Score: 52
Period size: 22 Copynumber: 2.1 Consensus size: 20
21567826 TTAAAAAGAA
*
21567836 TATATTAAGAAATAAATAATAT
1 TATAGTAAGAAAT-AAT-ATAT
*
21567858 TATAGTAATAAATAATATAT
1 TATAGTAAGAAATAATATAT
21567878 TA
1 TA
21567880 ATAAATATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 3 0.15
22 11 0.55
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (20 bp):
TATAGTAAGAAATAATATAT
Found at i:21567898 original size:18 final size:18
Alignment explanation
Indices: 21567846--21567918 Score: 66
Period size: 18 Copynumber: 4.3 Consensus size: 18
21567836 TATATTAAGA
* *
21567846 AATAAATAATATTATAGT
1 AATAAATATTATTATATT
21567864 AATAAATA--A-TATATT
1 AATAAATATTATTATATT
*
21567879 AATAAATATTATTTTATT
1 AATAAATATTATTATATT
*
21567897 AAT-ATTATTA-TATTATT
1 AATAAATATTATTA-TATT
21567914 AATAA
1 AATAA
21567919 CAATATAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 10
0.77 0.07 0.17
Matches are distributed among these distances:
15 13 0.28
16 2 0.04
17 14 0.30
18 17 0.37
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (18 bp):
AATAAATATTATTATATT
Found at i:21567902 original size:14 final size:14
Alignment explanation
Indices: 21567870--21567911 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
21567860 TAGTAATAAA
21567870 TAATA-TATTA-AT
1 TAATATTATTATAT
* *
21567882 AAATATTATTTTAT
1 TAATATTATTATAT
21567896 TAATATTATTATAT
1 TAATATTATTATAT
21567910 TA
1 TA
21567912 TTAATAACAA
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 4 0.17
13 4 0.17
14 16 0.67
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TAATATTATTATAT
Found at i:21567907 original size:17 final size:17
Alignment explanation
Indices: 21567792--21567918 Score: 64
Period size: 18 Copynumber: 7.2 Consensus size: 17
21567782 TTAATATAAT
21567792 ATAATATTAT-TTATTTA
1 ATAATATTATATTA-TTA
*
21567809 TATTATATTATAATATATTA
1 -ATAATATTAT-AT-TATTA
* * * **
21567829 AAAAGAATATATTAAGAA
1 ATAATATTATATT-ATTA
*
21567847 ATAA-ATAATATTATAGTA
1 ATAATATTATATTAT--TA
*
21567865 ATAA-ATAATA-TATTA
1 ATAATATTATATTATTA
*
21567880 ATAAATATTATTTTATTA
1 AT-AATATTATATTATTA
*
21567898 ATATTATTATATTATTA
1 ATAATATTATATTATTA
21567915 ATAA
1 ATAA
21567919 CAATATAAAA
Statistics
Matches: 83, Mismatches: 17, Indels: 19
0.70 0.14 0.16
Matches are distributed among these distances:
15 4 0.05
16 3 0.04
17 30 0.36
18 34 0.41
19 6 0.07
20 4 0.05
21 2 0.02
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
ATAATATTATATTATTA
Found at i:21568329 original size:25 final size:25
Alignment explanation
Indices: 21568301--21568352 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
21568291 GTCATCTATT
* *
21568301 GTTGTTGTGGAGATGACATCAACAG
1 GTTGTTGCGGAAATGACATCAACAG
21568326 GTTGTTGCGGAAATGACATCAACAG
1 GTTGTTGCGGAAATGACATCAACAG
21568351 GT
1 GT
21568353 ACACTAAAAT
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:0.29, C:0.13, G:0.31, T:0.27
Consensus pattern (25 bp):
GTTGTTGCGGAAATGACATCAACAG
Found at i:21572940 original size:22 final size:22
Alignment explanation
Indices: 21572905--21572946 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
21572895 ATTATATATA
**
21572905 TATATATAGGTTTAACAATAAT
1 TATATATAAATTTAACAATAAT
*
21572927 TATATATAAATTTAATAATA
1 TATATATAAATTTAACAATA
21572947 TCAAAATGAC
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.43
Consensus pattern (22 bp):
TATATATAAATTTAACAATAAT
Found at i:21573379 original size:12 final size:12
Alignment explanation
Indices: 21573362--21573389 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
21573352 CTAGCACTAC
21573362 AAGAGGAGGAAG
1 AAGAGGAGGAAG
21573374 AAGAGGAGGAAG
1 AAGAGGAGGAAG
21573386 AAGA
1 AAGA
21573390 AGAAGATGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (12 bp):
AAGAGGAGGAAG
Found at i:21575274 original size:62 final size:64
Alignment explanation
Indices: 21575122--21575275 Score: 153
Period size: 62 Copynumber: 2.5 Consensus size: 64
21575112 GTTGATAAGA
* *
21575122 TTTTATTTTTAT-TTTTC-AAAATT-TTTATTAAAACTTCAAAACCCTTTAATGTATTGGTAAGG
1 TTTTATTTTTTTATTTTCAAAAATTATTT-TTAAAACTTCAAAACCCTTTAATGTATTGGTAAAG
* * * * * *
21575184 TATTGTTTTTTCAGTTTTCAAAAA--ATTTTT-AAA-TTACCAAACCTTTTAAT-TGTTGGTAAA
1 TTTTATTTTTTTA-TTTTCAAAAATTATTTTTAAAACTT-CAAAACCCTTTAATGTATTGGTAAA
21575244 G
64 G
21575245 TTTTATTTTTTTATTTTCAAAAATTATTTTT
1 TTTTATTTTTTTATTTTCAAAAATTATTTTT
21575276 CTTAAAATAT
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
60 10 0.14
61 21 0.28
62 29 0.39
63 2 0.03
64 8 0.11
65 4 0.05
ACGTcount: A:0.31, C:0.08, G:0.07, T:0.53
Consensus pattern (64 bp):
TTTTATTTTTTTATTTTCAAAAATTATTTTTAAAACTTCAAAACCCTTTAATGTATTGGTAAAG
Found at i:21576004 original size:14 final size:13
Alignment explanation
Indices: 21575976--21576038 Score: 54
Period size: 14 Copynumber: 4.6 Consensus size: 13
21575966 TAAAATGGAT
*
21575976 AAATCAATAACTAA
1 AAATAAATAA-TAA
21575990 AAATAAATTAATAA
1 AAATAAA-TAATAA
* *
21576004 AGATAAATAGTAA
1 AAATAAATAATAA
* *
21576017 AGATAAACAAGTAA
1 AAATAAATAA-TAA
21576031 AAATAAAT
1 AAATAAAT
21576039 GAAATAAGAG
Statistics
Matches: 40, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
13 13 0.32
14 24 0.60
15 3 0.08
ACGTcount: A:0.67, C:0.05, G:0.06, T:0.22
Consensus pattern (13 bp):
AAATAAATAATAA
Found at i:21576058 original size:15 final size:16
Alignment explanation
Indices: 21576040--21576076 Score: 67
Period size: 15 Copynumber: 2.4 Consensus size: 16
21576030 AAAATAAATG
21576040 AAATAAGAGTAAAA-A
1 AAATAAGAGTAAAAGA
21576055 AAATAAGAGTAAAAGA
1 AAATAAGAGTAAAAGA
21576071 AAATAA
1 AAATAA
21576077 AAAAGTAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.67
16 7 0.33
ACGTcount: A:0.73, C:0.00, G:0.14, T:0.14
Consensus pattern (16 bp):
AAATAAGAGTAAAAGA
Found at i:21577740 original size:86 final size:86
Alignment explanation
Indices: 21577593--21577767 Score: 269
Period size: 86 Copynumber: 2.0 Consensus size: 86
21577583 TGAAAAGAAA
* * *
21577593 TTTTAAAATTAAGTAAAATCTCTTGAAAAGTTAATGTTCTAAATTTCTTTTTAAGTTTTGGTTAT
1 TTTTAAAATAAAGCAAAATCTCTTGAAAAGTTAATGTTCTAAATTTCTTTTTAAGTATTGGTTAT
*
21577658 TACTATTAGTTTTATTATAGT
66 TACTATTAGTTTTATTATAAT
* * * *
21577679 TTTTAAAATAAAGCAAAATTTCTTGAAAATTTAATGTTTTCAATTTCTTTTTAAGTATTGGTTAT
1 TTTTAAAATAAAGCAAAATCTCTTGAAAAGTTAATGTTCTAAATTTCTTTTTAAGTATTGGTTAT
*
21577744 TGCTATTAGTTTTATTATAAT
66 TACTATTAGTTTTATTATAAT
21577765 TTT
1 TTT
21577768 AACTATACAT
Statistics
Matches: 80, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
86 80 1.00
ACGTcount: A:0.33, C:0.06, G:0.10, T:0.52
Consensus pattern (86 bp):
TTTTAAAATAAAGCAAAATCTCTTGAAAAGTTAATGTTCTAAATTTCTTTTTAAGTATTGGTTAT
TACTATTAGTTTTATTATAAT
Found at i:21584594 original size:24 final size:25
Alignment explanation
Indices: 21584567--21584617 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
21584557 ACCAACTTTC
21584567 TCTT-CTTTTTTTTTCT-CTCTATTT
1 TCTTGCTTTTTTTTTCTCCT-TATTT
21584591 TCTTGGCTTTTTTTTTCTCCTTATTT
1 TCTT-GCTTTTTTTTTCTCCTTATTT
21584617 T
1 T
21584618 TTTTAGGTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
24 4 0.17
26 18 0.75
27 2 0.08
ACGTcount: A:0.04, C:0.20, G:0.04, T:0.73
Consensus pattern (25 bp):
TCTTGCTTTTTTTTTCTCCTTATTT
Found at i:21586585 original size:18 final size:19
Alignment explanation
Indices: 21586554--21586590 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
21586544 GTCTGCTAGA
*
21586554 TTTTATTATATTTTTAATT
1 TTTTATAATATTTTTAATT
21586573 TTTTATAAT-TTTTTAATT
1 TTTTATAATATTTTTAATT
21586591 AAATTGGTCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (19 bp):
TTTTATAATATTTTTAATT
Found at i:21589220 original size:15 final size:15
Alignment explanation
Indices: 21589192--21589233 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
21589182 CTCCATAGTT
*
21589192 ACCACCGCCATAGCC
1 ACCACCACCATAGCC
21589207 ACCACCACCATAGCC
1 ACCACCACCATAGCC
* *
21589222 TCCACCATCATA
1 ACCACCACCATA
21589234 ACTGCTATTA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.31, C:0.50, G:0.07, T:0.12
Consensus pattern (15 bp):
ACCACCACCATAGCC
Found at i:21591998 original size:93 final size:89
Alignment explanation
Indices: 21591900--21592132 Score: 277
Period size: 93 Copynumber: 2.6 Consensus size: 89
21591890 CAATTTTTTC
* *
21591900 TTTTTATAATAAATAATTATTTCCTTATCCATAATTTAAATTTTGGTAATATACAACGCACAGTA
1 TTTTTATAATAAATAGTTATTT-CTTATCTATAATTTAAATTTTGGTAATATACAACGCA-A-TA
*
21591965 CTTATTTTAAAAGGTGACATGTTAATTT
63 CTTATTTTAAAAGGTCACATGTTAA-TT
* *** *
21591993 TTTTTATAATAAATAGTTATTGCTATATCTATAATTTAAATTTTGGTAATATACGGTGCAATGCT
1 TTTTTATAATAAATAGTTATTTCT-TATCTATAATTTAAATTTTGGTAATATACAACGCAATACT
*** *
21592058 TATTTTACGCGGTCACGTGTTAATT
65 TATTTTAAAAGGTCACATGTTAATT
* * *
21592083 TTTTTGTAATAAATAGTTAGTATCTTATTTATAATTTAAATTTTGGTAAT
1 TTTTTATAATAAATAGTTA-TTTCTTATCTATAATTTAAATTTTGGTAAT
21592133 GTTTTAAGCG
Statistics
Matches: 122, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
90 44 0.36
91 24 0.20
92 3 0.02
93 51 0.42
ACGTcount: A:0.33, C:0.09, G:0.11, T:0.47
Consensus pattern (89 bp):
TTTTTATAATAAATAGTTATTTCTTATCTATAATTTAAATTTTGGTAATATACAACGCAATACTT
ATTTTAAAAGGTCACATGTTAATT
Found at i:21593757 original size:11 final size:9
Alignment explanation
Indices: 21593727--21593753 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
21593717 GTTTTTTCTT
21593727 TTTTTTTAA
1 TTTTTTTAA
21593736 TTTTTTTAA
1 TTTTTTTAA
21593745 TTTTTTTAA
1 TTTTTTTAA
21593754 AATTATAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
TTTTTTTAA
Found at i:21594006 original size:29 final size:29
Alignment explanation
Indices: 21593956--21594012 Score: 80
Period size: 29 Copynumber: 2.0 Consensus size: 29
21593946 TTTCGGGTTT
*
21593956 TTTTTTTAGTTTTCTTCATTTTTTCTTTA
1 TTTTTTTAGTTTTCTACATTTTTTCTTTA
*
21593985 TTTTTTTAGTTTTAC-ACTTTTTTTCTTT
1 TTTTTTTAGTTTT-CTACATTTTTTCTTT
21594013 TAAATTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 24 0.96
30 1 0.04
ACGTcount: A:0.11, C:0.11, G:0.04, T:0.75
Consensus pattern (29 bp):
TTTTTTTAGTTTTCTACATTTTTTCTTTA
Found at i:21594117 original size:14 final size:15
Alignment explanation
Indices: 21594098--21594136 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
21594088 AATTATACCA
21594098 TTTTTTTTACCTTTT
1 TTTTTTTTACCTTTT
21594113 TTTTTTTTA-CTTTT
1 TTTTTTTTACCTTTT
21594127 TTCTTTTTTA
1 TT-TTTTTTA
21594137 AATTTGATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 7 0.30
15 16 0.70
ACGTcount: A:0.08, C:0.10, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTTTTTACCTTTT
Found at i:21594361 original size:13 final size:13
Alignment explanation
Indices: 21594345--21594375 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
21594335 TTTTTTTTCG
21594345 TTTTTTGCTTTTA
1 TTTTTTGCTTTTA
21594358 TTTTTTGCTTTTA
1 TTTTTTGCTTTTA
21594371 TTTTT
1 TTTTT
21594376 AATTATTTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.06, C:0.06, G:0.06, T:0.81
Consensus pattern (13 bp):
TTTTTTGCTTTTA
Found at i:21594578 original size:13 final size:13
Alignment explanation
Indices: 21594560--21594585 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
21594550 CTTTGTAAGT
21594560 TAAATCAATTTTA
1 TAAATCAATTTTA
21594573 TAAATCAATTTTA
1 TAAATCAATTTTA
21594586 CAAAAAAATC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
TAAATCAATTTTA
Found at i:21594965 original size:21 final size:21
Alignment explanation
Indices: 21594940--21594986 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
21594930 AAGTTACACT
* *
21594940 TATAATCAAGAATTACATTCA
1 TATAATCAACAATTACATCCA
* *
21594961 TATAATTAACTATTACATCCA
1 TATAATCAACAATTACATCCA
21594982 TATAA
1 TATAA
21594987 CTTTAAATGA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.47, C:0.15, G:0.02, T:0.36
Consensus pattern (21 bp):
TATAATCAACAATTACATCCA
Found at i:21608230 original size:16 final size:16
Alignment explanation
Indices: 21608209--21608239 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21608199 TCAAATCGCA
21608209 CTTAAAATTTTAAAAT
1 CTTAAAATTTTAAAAT
*
21608225 CTTAAATTTTTAAAA
1 CTTAAAATTTTAAAA
21608240 ATTAAACACA
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:0.48, C:0.06, G:0.00, T:0.45
Consensus pattern (16 bp):
CTTAAAATTTTAAAAT
Found at i:21610582 original size:57 final size:57
Alignment explanation
Indices: 21610494--21610604 Score: 195
Period size: 57 Copynumber: 1.9 Consensus size: 57
21610484 ATTCCAAAGC
* * *
21610494 GGGATATGACTGTTGCTGATGAAACGTAAGTGTCTACTTGTTCACTGCTATATGCTT
1 GGGATATGACTGTTGCAGATGAAACATAAGTGTCCACTTGTTCACTGCTATATGCTT
21610551 GGGATATGACTGTTGCAGATGAAACATAAGTGTCCACTTGTTCACTGCTATATG
1 GGGATATGACTGTTGCAGATGAAACATAAGTGTCCACTTGTTCACTGCTATATG
21610605 TTTTGTTATG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.25, C:0.16, G:0.24, T:0.34
Consensus pattern (57 bp):
GGGATATGACTGTTGCAGATGAAACATAAGTGTCCACTTGTTCACTGCTATATGCTT
Found at i:21617731 original size:20 final size:20
Alignment explanation
Indices: 21617708--21617759 Score: 60
Period size: 18 Copynumber: 2.9 Consensus size: 20
21617698 AAATATATTT
21617708 ATAATTAAATAAAAATAAAA
1 ATAATTAAATAAAAATAAAA
*
21617728 ATAA-TAAA-ATAAATAAAA
1 ATAATTAAATAAAAATAAAA
21617746 AT-ATT--ATAAAAATA
1 ATAATTAAATAAAAATA
21617760 TTAAAATTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
16 1 0.04
17 7 0.25
18 12 0.43
19 4 0.14
20 4 0.14
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (20 bp):
ATAATTAAATAAAAATAAAA
Found at i:21617735 original size:9 final size:9
Alignment explanation
Indices: 21617721--21617771 Score: 50
Period size: 9 Copynumber: 5.4 Consensus size: 9
21617711 ATTAAATAAA
21617721 AATAAAAAT
1 AATAAAAAT
21617730 AAT-AAAAT
1 AATAAAAAT
21617738 AAATAAAAAT
1 -AATAAAAAT
21617748 ATTATAAAAAT
1 A--ATAAAAAT
* *
21617759 ATTAAAATT
1 AATAAAAAT
21617768 AATA
1 AATA
21617772 TATATAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 8
0.76 0.07 0.17
Matches are distributed among these distances:
8 5 0.14
9 16 0.46
10 5 0.14
11 9 0.26
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (9 bp):
AATAAAAAT
Found at i:21617773 original size:20 final size:19
Alignment explanation
Indices: 21617710--21617773 Score: 57
Period size: 20 Copynumber: 3.5 Consensus size: 19
21617700 ATATATTTAT
21617710 AATTAA-ATAAAAATA-AA
1 AATTAATATAAAAATATAA
21617727 AA-TAATA-AAATAA-ATAA
1 AATTAATATAAA-AATATAA
* *
21617744 AAATATTATAAAAATATTAA
1 AATTAATATAAAAATA-TAA
21617764 AATTAATATA
1 AATTAATATA
21617774 TATAATATTT
Statistics
Matches: 37, Mismatches: 3, Indels: 11
0.73 0.06 0.22
Matches are distributed among these distances:
16 7 0.19
17 9 0.24
18 6 0.16
19 4 0.11
20 11 0.30
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (19 bp):
AATTAATATAAAAATATAA
Found at i:21619166 original size:34 final size:34
Alignment explanation
Indices: 21619128--21619210 Score: 94
Period size: 34 Copynumber: 2.4 Consensus size: 34
21619118 TTTAACTATA
* *
21619128 TCAAAAATTCATTTCCGAAAAGTATTACAATTAT
1 TCAAAAATTCATTTCCAAAAAGCATTACAATTAT
* ** *
21619162 TCAAAAATTTATTTTTAAAAAGCATTGCAATTAT
1 TCAAAAATTCATTTCCAAAAAGCATTACAATTAT
* *
21619196 TCGAAAATACATTTC
1 TCAAAAATTCATTTC
21619211 TAGAAGTAAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
34 39 1.00
ACGTcount: A:0.43, C:0.13, G:0.06, T:0.37
Consensus pattern (34 bp):
TCAAAAATTCATTTCCAAAAAGCATTACAATTAT
Found at i:21621355 original size:19 final size:20
Alignment explanation
Indices: 21621317--21621356 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
21621307 TATTAATAAA
*
21621317 TTTTATATAATAAATGAATT
1 TTTTAAATAATAAATGAATT
*
21621337 TTTTAAATATTAAAT-AATT
1 TTTTAAATAATAAATGAATT
21621356 T
1 T
21621357 AAATATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.53
Consensus pattern (20 bp):
TTTTAAATAATAAATGAATT
Found at i:21627075 original size:22 final size:19
Alignment explanation
Indices: 21627025--21627076 Score: 50
Period size: 22 Copynumber: 2.5 Consensus size: 19
21627015 TTATTGAATT
*
21627025 AATTGAATTTGAATGTTTA
1 AATTTAATTTGAATGTTTA
21627044 AATATCTAATTTGAATAGTTTA
1 AAT-T-TAATTTGAAT-GTTTA
21627066 CGAATTTAATT
1 --AATTTAATT
21627077 AAAATTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
19 3 0.11
20 1 0.04
21 9 0.33
22 10 0.37
23 1 0.04
24 3 0.11
ACGTcount: A:0.38, C:0.04, G:0.12, T:0.46
Consensus pattern (19 bp):
AATTTAATTTGAATGTTTA
Found at i:21627129 original size:25 final size:26
Alignment explanation
Indices: 21627101--21627149 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
21627091 TTATTATATT
*
21627101 ATTTAAATTATATTT-TATAAAATAA
1 ATTTAAATTATATTTAAATAAAATAA
* *
21627126 ATTTTAATTTTATTTAAATAAAAT
1 ATTTAAATTATATTTAAATAAAAT
21627150 TTTTATTATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (26 bp):
ATTTAAATTATATTTAAATAAAATAA
Found at i:21627146 original size:21 final size:19
Alignment explanation
Indices: 21627104--21627152 Score: 53
Period size: 19 Copynumber: 2.4 Consensus size: 19
21627094 TTATATTATT
*
21627104 TAAATTATATTTTATAAAA
1 TAAATTTTATTTTATAAAA
*
21627123 TAAATTTTAATTTTATTTAAA
1 TAAATTTT-ATTTTA-TAAAA
21627144 TAAAATTTT
1 T-AAATTTT
21627153 TATTATTTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 7 0.28
20 6 0.24
21 5 0.20
22 7 0.28
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAATTTTATTTTATAAAA
Found at i:21627163 original size:22 final size:22
Alignment explanation
Indices: 21627111--21627164 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
21627101 ATTTAAATTA
21627111 TATTTTATAAAATAAATTTTAAT
1 TATTTT-TAAAATAAATTTTAAT
*
21627134 T-TTATTT-AAATAAAATTTTTAT
1 TATT-TTTAAAAT-AAATTTTAAT
21627156 TATTTTTAA
1 TATTTTTAA
21627165 GTTCAAATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
21 4 0.15
22 16 0.62
23 6 0.23
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (22 bp):
TATTTTTAAAATAAATTTTAAT
Found at i:21627797 original size:5 final size:5
Alignment explanation
Indices: 21627787--21627836 Score: 50
Period size: 5 Copynumber: 10.0 Consensus size: 5
21627777 TCGTGATATC
* *
21627787 ATAAT ATAAT ATAAAA ATAAT ATGAAT A-AA- AAAAT ATAAT ATAAT ATAAT
1 ATAAT ATAAT AT-AAT ATAAT AT-AAT ATAAT ATAAT ATAAT ATAAT ATAAT
21627837 TTAAAATTTT
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
3 1 0.03
4 4 0.11
5 25 0.66
6 8 0.21
ACGTcount: A:0.66, C:0.00, G:0.02, T:0.32
Consensus pattern (5 bp):
ATAAT
Found at i:21627819 original size:17 final size:16
Alignment explanation
Indices: 21627787--21627832 Score: 56
Period size: 18 Copynumber: 2.7 Consensus size: 16
21627777 TCGTGATATC
*
21627787 ATAATATAATATAAAA
1 ATAATATAATAAAAAA
21627803 ATAATATGAATAAAAAAA
1 ATAATAT-AAT-AAAAAA
21627821 TATAATATAATA
1 -ATAATATAATA
21627833 TAATTTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
16 7 0.27
17 4 0.15
18 8 0.31
19 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (16 bp):
ATAATATAATAAAAAA
Found at i:21630604 original size:19 final size:20
Alignment explanation
Indices: 21630564--21630617 Score: 83
Period size: 19 Copynumber: 2.7 Consensus size: 20
21630554 GATATGTGAT
21630564 AAATTAAAAAAGTAAAATAAA
1 AAATTAAAAAA-TAAAATAAA
21630585 AAATTAAAAAATAAAA-AAA
1 AAATTAAAAAATAAAATAAA
*
21630604 AAATTAAAAGATAA
1 AAATTAAAAAATAA
21630618 TTCAAATTGT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 16 0.50
20 5 0.16
21 11 0.34
ACGTcount: A:0.78, C:0.00, G:0.04, T:0.19
Consensus pattern (20 bp):
AAATTAAAAAATAAAATAAA
Found at i:21631378 original size:29 final size:31
Alignment explanation
Indices: 21631336--21631397 Score: 74
Period size: 29 Copynumber: 2.1 Consensus size: 31
21631326 TTAATTTTAA
*
21631336 AATTTTAAAAATATAT-ATTATTTTA-ATAT
1 AATTTTAAAAATATATAAATATTTTATATAT
* * *
21631365 AATTTTTAATATATTTAAATATTTTATATAT
1 AATTTTAAAAATATATAAATATTTTATATAT
21631396 AA
1 AA
21631398 AACAATTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 13 0.48
30 8 0.30
31 6 0.22
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (31 bp):
AATTTTAAAAATATATAAATATTTTATATAT
Found at i:21631694 original size:7 final size:7
Alignment explanation
Indices: 21631682--21631707 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
21631672 CACCTAAAGC
21631682 TGGAAGT
1 TGGAAGT
21631689 TGGAAGT
1 TGGAAGT
21631696 TGGAAGT
1 TGGAAGT
21631703 TGGAA
1 TGGAA
21631708 TCCCAGAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.42, T:0.27
Consensus pattern (7 bp):
TGGAAGT
Found at i:21638323 original size:36 final size:32
Alignment explanation
Indices: 21638263--21638346 Score: 82
Period size: 32 Copynumber: 2.6 Consensus size: 32
21638253 ATGTTTAATT
* *
21638263 TATA-TTTA-TTTATTTTAAGTTATTATATATAA
1 TATATTTTATTTTAATTTAAGATATTA-A-ATAA
*
21638295 TATATCTTATATTTTGATTTAAGATATTAAATAA
1 TATAT-TT-TATTTTAATTTAAGATATTAAATAA
*
21638329 TTTATTTTATTTTAATTT
1 TATATTTTATTTTAATTT
21638347 TAATTTTTAA
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
32 14 0.33
33 2 0.05
34 10 0.23
35 3 0.07
36 14 0.33
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.60
Consensus pattern (32 bp):
TATATTTTATTTTAATTTAAGATATTAAATAA
Found at i:21641536 original size:28 final size:29
Alignment explanation
Indices: 21641503--21641565 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
21641493 TAATTGAGTG
21641503 AAAATAAATGAATAAAAGTT-AATTAATT
1 AAAATAAATGAATAAAAGTTCAATTAATT
* ** * *
21641531 AAAATAGATGTTTAAGAGTTCAATTATTT
1 AAAATAAATGAATAAAAGTTCAATTAATT
21641560 AAAATA
1 AAAATA
21641566 GAAAATTCAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
28 16 0.55
29 13 0.45
ACGTcount: A:0.54, C:0.02, G:0.10, T:0.35
Consensus pattern (29 bp):
AAAATAAATGAATAAAAGTTCAATTAATT
Found at i:21644865 original size:32 final size:32
Alignment explanation
Indices: 21644828--21645001 Score: 269
Period size: 32 Copynumber: 5.5 Consensus size: 32
21644818 ATTTTTTAAG
*
21644828 TTCGAGTTCGATTCGTGATCTAATTCGAGCTA
1 TTCGAGTTCGATTCGTGATCGAATTCGAGCTA
* *
21644860 TTCGAGTACGATTCGTGATCGAATCCGAGCTA
1 TTCGAGTTCGATTCGTGATCGAATTCGAGCTA
*
21644892 TTCGAGTTCGATTCGTGATCGAATCCGAGCTA
1 TTCGAGTTCGATTCGTGATCGAATTCGAGCTA
21644924 TTCGAGTTCGATTCGTGATCGAATTCGAGCTA
1 TTCGAGTTCGATTCGTGATCGAATTCGAGCTA
* *
21644956 TTCGAGCTCGATTCGTGATCGAATTTGAGCTA
1 TTCGAGTTCGATTCGTGATCGAATTCGAGCTA
* *
21644988 CTCGATTTCG-TTCG
1 TTCGAGTTCGATTCG
21645002 ATTAATATGT
Statistics
Matches: 132, Mismatches: 10, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
31 4 0.03
32 128 0.97
ACGTcount: A:0.21, C:0.21, G:0.24, T:0.34
Consensus pattern (32 bp):
TTCGAGTTCGATTCGTGATCGAATTCGAGCTA
Found at i:21649689 original size:11 final size:11
Alignment explanation
Indices: 21649673--21649714 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
21649663 AATCTCATAA
*
21649673 GAGATTTGTTT
1 GAGATTTATTT
*
21649684 GAGATTTATTA
1 GAGATTTATTT
21649695 GAGATTTATTT
1 GAGATTTATTT
*
21649706 GAAATTTAT
1 GAGATTTAT
21649715 CAGATATTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.31, C:0.00, G:0.19, T:0.50
Consensus pattern (11 bp):
GAGATTTATTT
Found at i:21649700 original size:22 final size:22
Alignment explanation
Indices: 21649672--21649714 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
21649662 AAATCTCATA
* *
21649672 AGAGATTTGTTTGAGATTTATT
1 AGAGATTTATTTGAAATTTATT
21649694 AGAGATTTATTTGAAATTTAT
1 AGAGATTTATTTGAAATTTAT
21649715 CAGATATTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.33, C:0.00, G:0.19, T:0.49
Consensus pattern (22 bp):
AGAGATTTATTTGAAATTTATT
Found at i:21649880 original size:52 final size:52
Alignment explanation
Indices: 21649753--21649895 Score: 153
Period size: 52 Copynumber: 2.8 Consensus size: 52
21649743 TGCAAGATAG
* * *
21649753 AAATTCTAAGAG-AAAGATGATTTTTAATAGGTAAGTTTGACTTACAAGAGAA
1 AAATTCTAAAAGAAAAGA-GATTCTTAATAGGTAAGTTTGACTTACAAGAAAA
* * * *
21649805 GAATTCTAAAAGAAAATAAATTCTTAATAGGTAAGTTTGACTTACATGAAAA
1 AAATTCTAAAAGAAAAGAGATTCTTAATAGGTAAGTTTGACTTACAAGAAAA
* ** * * *
21649857 AAATTTTAGGAGGAGAGAGATTCTTAATAGGCAAGTTTG
1 AAATTCTAAAAGAAAAGAGATTCTTAATAGGTAAGTTTG
21649896 TATAATTATA
Statistics
Matches: 74, Mismatches: 16, Indels: 2
0.80 0.17 0.02
Matches are distributed among these distances:
52 70 0.95
53 4 0.05
ACGTcount: A:0.43, C:0.06, G:0.20, T:0.31
Consensus pattern (52 bp):
AAATTCTAAAAGAAAAGAGATTCTTAATAGGTAAGTTTGACTTACAAGAAAA
Found at i:21650454 original size:31 final size:28
Alignment explanation
Indices: 21650380--21650460 Score: 99
Period size: 28 Copynumber: 2.8 Consensus size: 28
21650370 AGGCTTTTAG
21650380 CCCAACAAATGGTATCAGAGCTGTGATC
1 CCCAACAAATGGTATCAGAGCTGTGATC
* *
21650408 CCCAACAAATAGTATCAGAGCTGTGGTATTT
1 CCCAACAAATGGTATCAGAGCTGT-G-A-TC
* *
21650439 CCTAACAAGTGGTATCAGAGCT
1 CCCAACAAATGGTATCAGAGCT
21650461 AAAAGTTCAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
28 23 0.51
29 1 0.02
30 1 0.02
31 20 0.44
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (28 bp):
CCCAACAAATGGTATCAGAGCTGTGATC
Found at i:21650506 original size:25 final size:26
Alignment explanation
Indices: 21650464--21650534 Score: 67
Period size: 25 Copynumber: 2.8 Consensus size: 26
21650454 CAGAGCTAAA
*
21650464 AGTTCAAAACAT-AGGAAGAGTCAAAT
1 AGTTCAAGACATGA-GAAGAGTCAAAT
* * **
21650490 -GTTCGAGATATGAGAAGAG-CCGAT
1 AGTTCAAGACATGAGAAGAGTCAAAT
21650514 AGTTCAAGACATGAGAAGAGT
1 AGTTCAAGACATGAGAAGAGT
21650535 TGACAGTTCG
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
24 3 0.09
25 31 0.89
26 1 0.03
ACGTcount: A:0.42, C:0.11, G:0.27, T:0.20
Consensus pattern (26 bp):
AGTTCAAGACATGAGAAGAGTCAAAT
Found at i:21650542 original size:25 final size:25
Alignment explanation
Indices: 21650490--21650543 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
21650480 AGAGTCAAAT
* * *
21650490 GTTCGAGATATGAGAAGAGCCGATA
1 GTTCAAGACATGAGAAGAGCCGACA
**
21650515 GTTCAAGACATGAGAAGAGTTGACA
1 GTTCAAGACATGAGAAGAGCCGACA
21650540 GTTC
1 GTTC
21650544 GAAATATGTG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.35, C:0.13, G:0.30, T:0.22
Consensus pattern (25 bp):
GTTCAAGACATGAGAAGAGCCGACA
Found at i:21651091 original size:11 final size:11
Alignment explanation
Indices: 21651075--21651116 Score: 66
Period size: 11 Copynumber: 3.8 Consensus size: 11
21651065 TTACGTATTA
21651075 AGATTTGTTTG
1 AGATTTGTTTG
*
21651086 AGATTTGTTAG
1 AGATTTGTTTG
*
21651097 AGATTTATTTG
1 AGATTTGTTTG
21651108 AGATTTGTT
1 AGATTTGTT
21651117 AGATATTGCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 27 1.00
ACGTcount: A:0.24, C:0.00, G:0.24, T:0.52
Consensus pattern (11 bp):
AGATTTGTTTG
Found at i:21651107 original size:22 final size:22
Alignment explanation
Indices: 21651075--21651119 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
21651065 TTACGTATTA
*
21651075 AGATTTGTTTGAGATTTGTTAG
1 AGATTTATTTGAGATTTGTTAG
21651097 AGATTTATTTGAGATTTGTTAG
1 AGATTTATTTGAGATTTGTTAG
21651119 A
1 A
21651120 TATTGCTTGA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.27, C:0.00, G:0.24, T:0.49
Consensus pattern (22 bp):
AGATTTATTTGAGATTTGTTAG
Found at i:21651296 original size:52 final size:51
Alignment explanation
Indices: 21651152--21651296 Score: 209
Period size: 52 Copynumber: 2.8 Consensus size: 51
21651142 ATTGCAAAAT
* * *
21651152 AAGAATTCTAAAAGAAAGAAGATTCTTAATAGGTAAGTTTAACTTATAAGAG
1 AAGAATTCTAAAAGAAA-ATGATTCTTAATAGGTAAGTTTGACTTACAAGAG
21651204 AAGAATTCTAAAAGAAAATGAATTCTTAATAGGTAAGTTTGACTTACAAGAG
1 AAGAATTCTAAAAGAAAATG-ATTCTTAATAGGTAAGTTTGACTTACAAGAG
* * *
21651256 AAGAATTCTAGGAGGAAAATGATTCTTAATGGGTAAGTTTG
1 AAGAATTCTA-AAAGAAAATGATTCTTAATAGGTAAGTTTG
21651297 TACGATTATA
Statistics
Matches: 85, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
51 2 0.02
52 75 0.88
53 8 0.09
ACGTcount: A:0.44, C:0.06, G:0.20, T:0.30
Consensus pattern (51 bp):
AAGAATTCTAAAAGAAAATGATTCTTAATAGGTAAGTTTGACTTACAAGAG
Found at i:21654805 original size:6 final size:6
Alignment explanation
Indices: 21654794--21654826 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
21654784 GTTGCAGTGA
*
21654794 TCTCCC TCTCCC TCTCCC TCTCCC TCTCTC TCT
1 TCTCCC TCTCCC TCTCCC TCTCCC TCTCCC TCT
21654827 TACTTTCCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.00, C:0.61, G:0.00, T:0.39
Consensus pattern (6 bp):
TCTCCC
Found at i:21658647 original size:3 final size:3
Alignment explanation
Indices: 21658639--21658710 Score: 144
Period size: 3 Copynumber: 24.0 Consensus size: 3
21658629 TCTAAATGCA
21658639 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
21658687 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
21658711 AGACAGAGTT
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 69 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TAT
Found at i:21659947 original size:45 final size:45
Alignment explanation
Indices: 21659844--21659946 Score: 199
Period size: 44 Copynumber: 2.3 Consensus size: 45
21659834 TTGCAACCTC
21659844 TTTCAAGGTTTTTTGAGGTTTTGAGGGTTTTTTTTTATATATATA
1 TTTCAAGGTTTTTTGAGGTTTTGAGGGTTTTTTTTTATATATATA
21659889 TTTCAAGGTTTTTTGAGGTTTTGAGGG-TTTTTTTTATATATATA
1 TTTCAAGGTTTTTTGAGGTTTTGAGGGTTTTTTTTTATATATATA
21659933 TTTCAAGGTTTTTT
1 TTTCAAGGTTTTTT
21659947 TTTTTGGCAT
Statistics
Matches: 58, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
44 31 0.53
45 27 0.47
ACGTcount: A:0.19, C:0.03, G:0.19, T:0.58
Consensus pattern (45 bp):
TTTCAAGGTTTTTTGAGGTTTTGAGGGTTTTTTTTTATATATATA
Found at i:21661617 original size:16 final size:16
Alignment explanation
Indices: 21661598--21661703 Score: 67
Period size: 16 Copynumber: 6.7 Consensus size: 16
21661588 TGATTTATTT
21661598 AATAATTTAAATTTAA
1 AATAATTTAAATTTAA
* *
21661614 AATAATTCAAA-TT-C
1 AATAATTTAAATTTAA
* *
21661628 AATGATTTTAAAATATTTA
1 AAT-AATTT-AAAT-TTAA
*
21661647 AAT-A-TTAAATTTAG
1 AATAATTTAAATTTAA
* **
21661661 AATAATTCAAATACAA
1 AATAATTTAAATTTAA
* *
21661677 AATAATTTAGATTTTA
1 AATAATTTAAATTTAA
21661693 AATAATTTAAA
1 AATAATTTAAA
21661704 CCTAAATTCG
Statistics
Matches: 65, Mismatches: 18, Indels: 14
0.67 0.19 0.14
Matches are distributed among these distances:
14 8 0.12
15 10 0.15
16 42 0.65
18 2 0.03
19 3 0.05
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.41
Consensus pattern (16 bp):
AATAATTTAAATTTAA
Found at i:21661679 original size:23 final size:23
Alignment explanation
Indices: 21661606--21661679 Score: 69
Period size: 23 Copynumber: 3.2 Consensus size: 23
21661596 TTAATAATTT
*
21661606 AAATTTAAAATAATTCAAATTCA
1 AAATTTAAAATAATTCAAATACA
* * **
21661629 ATGATTTTAAAAT-ATTTAAATATT
1 A--AATTTAAAATAATTCAAATACA
*
21661653 AAATTTAGAATAATTCAAATACA
1 AAATTTAAAATAATTCAAATACA
21661676 AAAT
1 AAAT
21661680 AATTTAGATT
Statistics
Matches: 38, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
22 8 0.21
23 13 0.34
24 8 0.21
25 9 0.24
ACGTcount: A:0.54, C:0.05, G:0.03, T:0.38
Consensus pattern (23 bp):
AAATTTAAAATAATTCAAATACA
Found at i:21661929 original size:23 final size:23
Alignment explanation
Indices: 21661903--21661949 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
21661893 ACTTACTGGT
* *
21661903 TTTAAAATAATTTAAATATTAAA
1 TTTAAAATAATTGAAATATGAAA
21661926 TTTAAAATAATTGAAATATGAAA
1 TTTAAAATAATTGAAATATGAAA
21661949 T
1 T
21661950 AATTTAAACT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.40
Consensus pattern (23 bp):
TTTAAAATAATTGAAATATGAAA
Found at i:21666646 original size:21 final size:23
Alignment explanation
Indices: 21666604--21666647 Score: 56
Period size: 24 Copynumber: 2.0 Consensus size: 23
21666594 AACTTTCTTT
*
21666604 TTTTTTTATTACTTTACTTTTGTC
1 TTTTTTTATTACATTAC-TTTGTC
21666628 TTTTTTTATTA-ATTA-TTTGT
1 TTTTTTTATTACATTACTTTGT
21666648 TTATTTCTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 5 0.26
23 3 0.16
24 11 0.58
ACGTcount: A:0.16, C:0.07, G:0.05, T:0.73
Consensus pattern (23 bp):
TTTTTTTATTACATTACTTTGTC
Found at i:21667307 original size:57 final size:57
Alignment explanation
Indices: 21667183--21667571 Score: 539
Period size: 57 Copynumber: 6.7 Consensus size: 57
21667173 TCTTGTGTAG
* * *
21667183 GGAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTCAGAAATTTACTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT-TGAAATTTATTTTTAA
21667241 GGAAAATTGATACTTTCAACTTTTCC-CTAAAAATATTTTTTTGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAATATTTTTTTGAAATTTATTTTTAA
* * *
21667298 GAAAAATTGATACTTTCAACTTTT-TTCCAAAAATATTTTTTGGAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCT-CAAAAATATTTTTTTGAAATTTATTTTTAA
* *
21667355 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTTGAAACTTTGATTTTCAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAA--TATTTTTTTGAAA-TTT-ATTTTTAA
* *
21667416 GGAAAATTGATACTTTCAATTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAT-ATTTTTTTG-AAATTTATTTTTAA
* * ** *
21667475 GAAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTTGGGAAATTTATTTCTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTATTTTTAA
*
21667532 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTT
21667572 CTGATTTTTA
Statistics
Matches: 300, Mismatches: 21, Indels: 21
0.88 0.06 0.06
Matches are distributed among these distances:
57 146 0.49
58 47 0.16
59 50 0.17
60 15 0.05
61 42 0.14
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (57 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTTTGAAATTTATTTTTAA
Found at i:21667488 original size:177 final size:173
Alignment explanation
Indices: 21667183--21667571 Score: 597
Period size: 177 Copynumber: 2.2 Consensus size: 173
21667173 TCTTGTGTAG
* *
21667183 GGAAAATTGATACTTTCAACTTTTCCTTAAAAA-TATTTTTTCAGAAATTTACTTTTAAGGAAAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTCAGAAATTTACTTTTAAGGAAAA
21667247 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTTTAAGAAAAATTGATACT
66 TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTTTAAGAAAAATTGATACT
* *
21667312 TTCAACTTTTT-TCCAAAAATATTTTTTGGAAATTTATTTTTAA
131 TTCAACTTTTTCT-CAAAAATATTTTTGGGAAATTTATTTCTAA
**
21667355 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTTTGAAACTTTGA-TTTTCAAGGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTCAGAAA-TTT-ACTTTT-AAGGA
* *
21667419 AAATTGATACTTTCAA-TTTTTCCTCAAAAATCTTTTTTTTGAAAATTTATTTTTAAGAAAAATT
63 AAATTGATACTTTCAACTTTTCCCT-AAAAAT-ATTTTTTTG-AAATTTATTTTTAAGAAAAATT
21667483 GATACTTTCAACTTTTTCTCAAAAATATTTTTGGGAAATTTATTTCTAA
125 GATACTTTCAACTTTTTCTCAAAAATATTTTTGGGAAATTTATTTCTAA
* *
21667532 GGAAAATTGATACTTTCAACTTTTTCTCAAAAATATTTTT
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTT
21667572 CTGATTTTTA
Statistics
Matches: 199, Mismatches: 10, Indels: 11
0.90 0.05 0.05
Matches are distributed among these distances:
172 32 0.16
173 11 0.06
174 14 0.07
175 28 0.14
176 8 0.04
177 105 0.53
178 1 0.01
ACGTcount: A:0.35, C:0.11, G:0.07, T:0.47
Consensus pattern (173 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAATTTTTTTTTCAGAAATTTACTTTTAAGGAAAA
TTGATACTTTCAACTTTTCCCTAAAAATATTTTTTTGAAATTTATTTTTAAGAAAAATTGATACT
TTCAACTTTTTCTCAAAAATATTTTTGGGAAATTTATTTCTAA
Found at i:21667506 original size:27 final size:27
Alignment explanation
Indices: 21667476--21667565 Score: 69
Period size: 27 Copynumber: 3.2 Consensus size: 27
21667466 TATTTTTAAG
21667476 AAAAATTGATACTTTCAACTTTTTCTC
1 AAAAATTGATACTTTCAACTTTTTCTC
* * * *
21667503 AAAAA-T-AT-TTTTGGGAAATTTATTTCTA
1 AAAAATTGATACTTT---CAACTT-TTTCTC
21667531 AGGAAAATTGATACTTTCAACTTTTTCTC
1 A--AAAATTGATACTTTCAACTTTTTCTC
21667560 AAAAAT
1 AAAAAT
21667566 ATTTTTCTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 18
0.64 0.11 0.25
Matches are distributed among these distances:
24 3 0.07
25 2 0.04
26 1 0.02
27 14 0.30
28 6 0.13
29 6 0.13
30 8 0.17
31 1 0.02
32 2 0.04
33 3 0.07
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (27 bp):
AAAAATTGATACTTTCAACTTTTTCTC
Found at i:21667645 original size:11 final size:11
Alignment explanation
Indices: 21667592--21667662 Score: 51
Period size: 11 Copynumber: 6.5 Consensus size: 11
21667582 TTTAAAGAAT
21667592 ATAAAAC-AAA
1 ATAAAACAAAA
**
21667602 ATAAAA-GTAA
1 ATAAAACAAAA
21667612 ATAAAGA-AGAAA
1 ATAAA-ACA-AAA
*
21667624 AGAAAA-AAAA
1 ATAAAACAAAA
21667634 ATTAAAACAAAA
1 A-TAAAACAAAA
*
21667646 GTAAAACAAAA
1 ATAAAACAAAA
21667657 ATAAAA
1 ATAAAA
21667663 ATAAGATAAA
Statistics
Matches: 49, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
10 17 0.35
11 22 0.45
12 10 0.20
ACGTcount: A:0.77, C:0.04, G:0.07, T:0.11
Consensus pattern (11 bp):
ATAAAACAAAA
Found at i:21667672 original size:22 final size:22
Alignment explanation
Indices: 21667593--21667663 Score: 65
Period size: 22 Copynumber: 3.2 Consensus size: 22
21667583 TTAAAGAATA
**
21667593 TAAAACAAAA-TAAAAGTAAAT
1 TAAAACAAAAGTAAAAAAAAAT
* *
21667614 AAAGAAGAAAAG-AAAAAAAAAT
1 TAA-AACAAAAGTAAAAAAAAAT
21667636 TAAAACAAAAGTAAAACAAAAAT
1 TAAAACAAAAGTAAAA-AAAAAT
*
21667659 AAAAA
1 TAAAA
21667664 TAAGATAAAG
Statistics
Matches: 39, Mismatches: 7, Indels: 6
0.75 0.13 0.12
Matches are distributed among these distances:
21 9 0.23
22 20 0.51
23 10 0.26
ACGTcount: A:0.77, C:0.04, G:0.07, T:0.11
Consensus pattern (22 bp):
TAAAACAAAAGTAAAAAAAAAT
Found at i:21668322 original size:26 final size:24
Alignment explanation
Indices: 21668283--21668332 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 24
21668273 AATCTGGAAA
*
21668283 TTTCCCAGAAATTTCCAGAAAAATT
1 TTTCCCAAAAATTTCCA-AAAAATT
*
21668308 TTTCGCCAAAAATTTCTAAAAAATT
1 TTTC-CCAAAAATTTCCAAAAAATT
21668333 ATTTTCGATC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 11 0.50
26 11 0.50
ACGTcount: A:0.42, C:0.18, G:0.06, T:0.34
Consensus pattern (24 bp):
TTTCCCAAAAATTTCCAAAAAATT
Found at i:21668719 original size:30 final size:29
Alignment explanation
Indices: 21668628--21668720 Score: 77
Period size: 30 Copynumber: 3.1 Consensus size: 29
21668618 AATAAAAATC
*
21668628 AAAATAAAAAAAATA-CTAGATAATTAGAA
1 AAAATAAAAAAAATATCT-GATAATCAGAA
* *
21668657 AAGATAAATCAAAAGATAT-T-ATAGTCTA-AA
1 AAAATAAA--AAAA-ATATCTGATAATC-AGAA
21668687 AAAATAAAAAATAATATCTGATAATCAGAA
1 AAAATAAAAAA-AATATCTGATAATCAGAA
21668717 AAAA
1 AAAA
21668721 ATCAGTTAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 17
0.69 0.07 0.24
Matches are distributed among these distances:
28 7 0.14
29 10 0.20
30 24 0.48
31 5 0.10
32 4 0.08
ACGTcount: A:0.65, C:0.05, G:0.08, T:0.23
Consensus pattern (29 bp):
AAAATAAAAAAAATATCTGATAATCAGAA
Found at i:21668915 original size:16 final size:15
Alignment explanation
Indices: 21668896--21668934 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
21668886 ATACATATAT
*
21668896 TAATACATAATAATAA
1 TAATAAATAATAA-AA
21668912 TAATAAATAATAAAA
1 TAATAAATAATAAAA
21668927 TACATAAA
1 TA-ATAAA
21668935 ATACAAAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 4 0.19
16 17 0.81
ACGTcount: A:0.67, C:0.05, G:0.00, T:0.28
Consensus pattern (15 bp):
TAATAAATAATAAAA
Found at i:21668916 original size:9 final size:10
Alignment explanation
Indices: 21668881--21668939 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 10
21668871 TAAATAAATA
21668881 AATATATACAT
1 AATA-ATACAT
21668892 ATATTAATACAT
1 A-A-TAATACAT
21668904 AATAATA-AT
1 AATAATACAT
21668913 AATAAATA-AT
1 AAT-AATACAT
21668923 AA-AATACAT
1 AATAATACAT
21668932 AA-AATACA
1 AATAATACA
21668940 AAAGAAAGAG
Statistics
Matches: 44, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
8 4 0.09
9 15 0.34
10 13 0.30
11 2 0.05
12 8 0.18
13 2 0.05
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.31
Consensus pattern (10 bp):
AATAATACAT
Found at i:21669139 original size:1 final size:1
Alignment explanation
Indices: 21669128--21669191 Score: 56
Period size: 1 Copynumber: 64.0 Consensus size: 1
21669118 AACATTGTCA
* * * * * * * *
21669128 TTTTTTGTTTTTTGTTTTTTTTTTGTGTTTTTTTTTGTTTTTTTTTATGTGTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
21669192 GACCAAAGCT
Statistics
Matches: 47, Mismatches: 16, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.88
Consensus pattern (1 bp):
T
Found at i:21669150 original size:12 final size:12
Alignment explanation
Indices: 21669129--21669189 Score: 79
Period size: 12 Copynumber: 4.9 Consensus size: 12
21669119 ACATTGTCAT
21669129 TTTTTGTTTTTTG
1 TTTTT-TTTTTTG
21669142 -TTTTTTTTTTG
1 TTTTTTTTTTTG
*
21669153 TGTTTTTTTTTG
1 TTTTTTTTTTTG
21669165 TTTTTTTTTATGTG
1 TTTTTTTTT-T-TG
21669179 TTTTTTTTTTT
1 TTTTTTTTTTT
21669190 TTGACCAAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
11 7 0.16
12 23 0.53
13 2 0.05
14 11 0.26
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.87
Consensus pattern (12 bp):
TTTTTTTTTTTG
Found at i:21669169 original size:24 final size:24
Alignment explanation
Indices: 21669135--21669191 Score: 100
Period size: 23 Copynumber: 2.5 Consensus size: 24
21669125 TCATTTTTTG
21669135 TTTTTTGTTTTTTTTT-TGTGTTT
1 TTTTTTGTTTTTTTTTATGTGTTT
21669158 TTTTTTGTTTTTTTTTATGTGTTT
1 TTTTTTGTTTTTTTTTATGTGTTT
21669182 TTTTTT-TTTT
1 TTTTTTGTTTT
21669192 GACCAAAGCT
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
23 20 0.61
24 13 0.39
ACGTcount: A:0.02, C:0.00, G:0.11, T:0.88
Consensus pattern (24 bp):
TTTTTTGTTTTTTTTTATGTGTTT
Found at i:21669256 original size:41 final size:41
Alignment explanation
Indices: 21669199--21669734 Score: 783
Period size: 41 Copynumber: 13.0 Consensus size: 41
21669189 TTTGACCAAA
* *
21669199 GCTCCTCTAAATAGAGGCTCCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
*
21669240 GCTCCTCTAAACAGAGGCACCACGACTTTGGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
* * *
21669281 GCTCCTCTAAACAGAGGCACCACAACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
* *
21669322 GCTCCTCTAAACAGAGGCACCACAACTTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGAC-TTTGAAAAATAAATT
*
21669364 GCTCCTCTAAACAGAGGTACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
21669405 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAA-TAAATT
* *
21669447 GCTCCTTTAAACAGAGGCACCACGACTTTGGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTT-GAAAAATAAATT
* * *
21669489 GCTCCTCTAAACAGAGGTACCACGACTTTGGAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
* * *
21669530 ACTCCTCGAAACAGAGGCA--ACGGAACTTTGGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCAC-G-ACTTTGAAAAATAAATT
* * *
21669571 ACTCCTCTAAACAGAGGCACCACGATTTTGGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
21669612 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
*
21669653 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
*
21669694 GCTCCTCTAAACAGAGGCA--ACGAAACTTTGGAAAATAAATT
1 GCTCCTCTAAACAGAGGCACCACG--ACTTTGAAAAATAAATT
21669735 ATTCCCTGAC
Statistics
Matches: 459, Mismatches: 27, Indels: 18
0.91 0.05 0.04
Matches are distributed among these distances:
39 5 0.01
40 1 0.00
41 340 0.74
42 106 0.23
43 7 0.02
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (41 bp):
GCTCCTCTAAACAGAGGCACCACGACTTTGAAAAATAAATT
Found at i:21670739 original size:8 final size:8
Alignment explanation
Indices: 21670727--21670826 Score: 112
Period size: 8 Copynumber: 11.6 Consensus size: 8
21670717 TGAGTCCTCC
*
21670727 TTTTTCAC
1 TTTTTCAT
21670735 TTTTTC-T
1 TTTTTCAT
21670742 TTTTTCAT
1 TTTTTCAT
21670750 TTTTTCTAT
1 TTTTTC-AT
21670759 TTTTTCTATT
1 TTTTTC-A-T
21670769 TTTTTCTAT
1 TTTTTC-AT
21670778 TTTTTCAT
1 TTTTTCAT
21670786 TTTTTCAT
1 TTTTTCAT
21670794 TTTTTCCATTT
1 TTTTT-CA--T
21670805 TTTTTCATT
1 TTTTTCA-T
21670814 TTTTTCAT
1 TTTTTCAT
21670822 TTTTT
1 TTTTT
21670827 TTCAAGCATA
Statistics
Matches: 85, Mismatches: 1, Indels: 12
0.87 0.01 0.12
Matches are distributed among these distances:
7 6 0.07
8 34 0.40
9 28 0.33
10 11 0.13
11 6 0.07
ACGTcount: A:0.10, C:0.13, G:0.00, T:0.77
Consensus pattern (8 bp):
TTTTTCAT
Done.