Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 79 of 147
Found at i:14562617 original size:22 final size:21
Alignment explanation
Indices: 14562592--14562632 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 21
14562582 TTTTCCTTTC
14562592 TTTAGTTATTTTCTT-TAGTTTT
1 TTTAGTT-TTTT-TTATAGTTTT
14562614 TTTAGTTTTTTTTATAGTT
1 TTTAGTTTTTTTTATAGTT
14562633 CTTATTATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 2 0.11
21 9 0.50
22 7 0.39
ACGTcount: A:0.15, C:0.02, G:0.10, T:0.73
Consensus pattern (21 bp):
TTTAGTTTTTTTTATAGTTTT
Found at i:14564774 original size:15 final size:13
Alignment explanation
Indices: 14564754--14564789 Score: 54
Period size: 13 Copynumber: 2.6 Consensus size: 13
14564744 TACATATGAA
14564754 AAAATAAATAAATAC
1 AAAATAAAT-AA-AC
14564769 AAAATAAATAAAC
1 AAAATAAATAAAC
14564782 AAAATAAA
1 AAAATAAA
14564790 AACCATTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.48
14 2 0.10
15 9 0.43
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (13 bp):
AAAATAAATAAAC
Found at i:14565440 original size:23 final size:23
Alignment explanation
Indices: 14565410--14565497 Score: 97
Period size: 23 Copynumber: 3.7 Consensus size: 23
14565400 AATATCATAA
14565410 AAAATATCATGCAAAAAAATCAT
1 AAAATATCATGCAAAAAAATCAT
** * *
14565433 AAAATATCATATAATAATATCAT
1 AAAATATCATGCAAAAAAATCAT
*
14565456 AATAAAATCATGC-AAAAAATCAT
1 AA-AATATCATGCAAAAAAATCAT
14565479 CATAAATATCATGCAAAAA
1 -A-AAATATCATGCAAAAA
14565498 TATAAAAATT
Statistics
Matches: 51, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
23 29 0.57
24 17 0.33
25 5 0.10
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (23 bp):
AAAATATCATGCAAAAAAATCAT
Found at i:14565451 original size:13 final size:12
Alignment explanation
Indices: 14565398--14565463 Score: 57
Period size: 13 Copynumber: 5.4 Consensus size: 12
14565388 CATTATAATA
*
14565398 AAAATATCATAA
1 AAAATATCATAT
14565410 AAAATATCATGCA-
1 AAAATATCAT--AT
*
14565423 AAAAAATC--AT
1 AAAATATCATAT
14565433 AAAATATCATAT
1 AAAATATCATAT
14565445 AATAATATCATAAT
1 AA-AATATCAT-AT
14565459 AAAAT
1 AAAAT
14565464 CATGCAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 13
0.75 0.03 0.22
Matches are distributed among these distances:
9 1 0.02
10 7 0.16
12 14 0.31
13 18 0.40
14 5 0.11
ACGTcount: A:0.62, C:0.09, G:0.02, T:0.27
Consensus pattern (12 bp):
AAAATATCATAT
Found at i:14565500 original size:48 final size:48
Alignment explanation
Indices: 14565340--14565500 Score: 150
Period size: 48 Copynumber: 3.3 Consensus size: 48
14565330 CAAAATAATT
* * *
14565340 TCATACAAAAATA-CTATAAAAAAACATCATAG-AAAAAAATCATTGAAACA
1 TCATACAAAAATATC-AT-AAAAAATATCAT-GCAAAAAAATCA-TAAAATA
* *
14565390 TTATAATAAAAATATCATAAAAAATATCATGCAAAAAAATCATAAAATA
1 TCAT-ACAAAAATATCATAAAAAATATCATGCAAAAAAATCATAAAATA
* * *
14565439 TCATATAATAATATCATAATAAA-ATCATGC-AAAAAATCATCATAAATA
1 TCATACAAAAATATCATAAAAAATATCATGCAAAAAAATCAT-A-AAATA
*
14565487 TCATGCAAAAATAT
1 TCATACAAAAATAT
14565501 AAAAATTGAA
Statistics
Matches: 95, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
46 10 0.11
47 8 0.08
48 33 0.35
49 9 0.09
50 24 0.25
51 10 0.11
52 1 0.01
ACGTcount: A:0.60, C:0.12, G:0.03, T:0.25
Consensus pattern (48 bp):
TCATACAAAAATATCATAAAAAATATCATGCAAAAAAATCATAAAATA
Found at i:14566748 original size:20 final size:19
Alignment explanation
Indices: 14566701--14566753 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
14566691 TTATTTATAA
*
14566701 TTAATA-AAATATTATTTT
1 TTAATATAAATATTATCTT
14566719 TTAAAATATAAGATATTATCTT
1 TT--AATATAA-ATATTATCTT
14566741 TTAATATAAATAT
1 TTAATATAAATAT
14566754 AAAATTATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
18 2 0.07
19 4 0.13
20 11 0.37
21 2 0.07
22 11 0.37
ACGTcount: A:0.47, C:0.02, G:0.02, T:0.49
Consensus pattern (19 bp):
TTAATATAAATATTATCTT
Found at i:14566752 original size:26 final size:26
Alignment explanation
Indices: 14566722--14566776 Score: 69
Period size: 26 Copynumber: 2.1 Consensus size: 26
14566712 TTATTTTTTA
*
14566722 AAATATAAGATATTATCT-TTT-AATAT
1 AAATATAA-A-ATTATATATTTAAATAT
14566748 AAATATAAAATTATATATTTAAATAT
1 AAATATAAAATTATATATTTAAATAT
14566774 AAA
1 AAA
14566777 ATTAAATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
24 6 0.23
25 4 0.15
26 16 0.62
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (26 bp):
AAATATAAAATTATATATTTAAATAT
Found at i:14568030 original size:69 final size:71
Alignment explanation
Indices: 14567916--14568051 Score: 204
Period size: 70 Copynumber: 1.9 Consensus size: 71
14567906 TCATAGTTTG
* ** *
14567916 AATAATTATATGTGAATAAAAAATATTTGTTTAAAATGGTTATATAA-CAAAAGAGTTATAACTA
1 AATAATTATATGTGAATAAAAAACATTTGTTTAAAATAATTATATAATAAAAAGAGTTATAACTA
14567980 TTAATA
66 TTAATA
* *
14567986 AATAATTATATTTGAAT-AAAAACATTTGTTTATAATAATTATATAATAAAAAGAGTTATAACTA
1 AATAATTATATGTGAATAAAAAACATTTGTTTAAAATAATTATATAATAAAAAGAGTTATAACTA
14568050 TT
66 TT
14568052 TAAACAAAAT
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
69 25 0.42
70 34 0.58
ACGTcount: A:0.50, C:0.03, G:0.08, T:0.39
Consensus pattern (71 bp):
AATAATTATATGTGAATAAAAAACATTTGTTTAAAATAATTATATAATAAAAAGAGTTATAACTA
TTAATA
Found at i:14572355 original size:17 final size:17
Alignment explanation
Indices: 14572333--14572365 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
14572323 ACTGCTTCCT
14572333 AAATCTCTTTGGTTGTG
1 AAATCTCTTTGGTTGTG
14572350 AAATCTCTTTGGTTGT
1 AAATCTCTTTGGTTGT
14572366 AAACTCTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.21, T:0.48
Consensus pattern (17 bp):
AAATCTCTTTGGTTGTG
Found at i:14583270 original size:21 final size:21
Alignment explanation
Indices: 14583186--14583263 Score: 88
Period size: 21 Copynumber: 3.7 Consensus size: 21
14583176 GATATAATTT
* *
14583186 TTAATTCTTATATCTTTAATATA
1 TTAATTCTTATA--ATTGATATA
* *
14583209 TTGATTCTTATAATTGATCTA
1 TTAATTCTTATAATTGATATA
14583230 TTAATTCTTATAATTGATATA
1 TTAATTCTTATAATTGATATA
14583251 TTAATT-TT-TAATT
1 TTAATTCTTATAATT
14583264 ATTATATCTT
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.10
20 2 0.04
21 31 0.63
23 11 0.22
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.56
Consensus pattern (21 bp):
TTAATTCTTATAATTGATATA
Found at i:14584400 original size:13 final size:13
Alignment explanation
Indices: 14584382--14584406 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14584372 ATATCTAATG
14584382 AAATTTGAAAATA
1 AAATTTGAAAATA
14584395 AAATTTGAAAAT
1 AAATTTGAAAAT
14584407 TTTTTAAAAT
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:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (13 bp):
AAATTTGAAAATA
Found at i:14584698 original size:18 final size:19
Alignment explanation
Indices: 14584677--14584712 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14584667 AATATCGAAA
14584677 ATTCAAAG-AAAAATCATC
1 ATTCAAAGCAAAAATCATC
14584695 ATTCAAAGCAAAAATCAT
1 ATTCAAAGCAAAAATCAT
14584713 AAAAAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.56, C:0.17, G:0.06, T:0.22
Consensus pattern (19 bp):
ATTCAAAGCAAAAATCATC
Found at i:14589238 original size:11 final size:11
Alignment explanation
Indices: 14589222--14589247 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14589212 ACCCAAAGAG
14589222 TTTTTTATTTC
1 TTTTTTATTTC
14589233 TTTTTTATTTC
1 TTTTTTATTTC
14589244 TTTT
1 TTTT
14589248 CATTTTTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTATTTC
Found at i:14590186 original size:21 final size:20
Alignment explanation
Indices: 14590147--14590190 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
14590137 CTCATTTAAC
14590147 TTTTTTTTTTTTTGCTTGGGT
1 TTTTTTTTTTTTTGCTT-GGT
**
14590168 TTTTTTTTTTTTTTTTTGGT
1 TTTTTTTTTTTTTGCTTGGT
14590188 TTT
1 TTT
14590191 GGCTTATTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 6 0.29
21 15 0.71
ACGTcount: A:0.00, C:0.02, G:0.14, T:0.84
Consensus pattern (20 bp):
TTTTTTTTTTTTTGCTTGGT
Found at i:14590639 original size:15 final size:15
Alignment explanation
Indices: 14590573--14590641 Score: 50
Period size: 15 Copynumber: 4.3 Consensus size: 15
14590563 ATATATAAGA
* *
14590573 AATATTTTATTAGTT
1 AATAATTTATTATTT
*
14590588 ATTAATTT-TATATTT
1 AATAATTTAT-TATTT
14590603 ATATATATATGTATTATATT
1 A-ATA-AT-T-TATTAT-TT
14590623 AATAATTTATTATTT
1 AATAATTTATTATTT
14590638 AATA
1 AATA
14590642 TATTAATTTA
Statistics
Matches: 43, Mismatches: 4, Indels: 14
0.70 0.07 0.23
Matches are distributed among these distances:
14 1 0.02
15 17 0.40
16 8 0.19
17 3 0.07
18 3 0.07
19 7 0.16
20 4 0.09
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
AATAATTTATTATTT
Found at i:14599295 original size:21 final size:20
Alignment explanation
Indices: 14599209--14599295 Score: 63
Period size: 21 Copynumber: 4.2 Consensus size: 20
14599199 TGTGAAAAAC
14599209 TTGATAACTTTTGATAA-AATT
1 TTGATAAC-TTTGA-AATAATT
* *
14599230 TTGGTAATCTTTGATATAATT
1 TTGATAA-CTTTGAAATAATT
*
14599251 TT-AGTAACTTTTAATATTAA-T
1 TTGA-TAACTTTGAA-A-TAATT
14599272 TTGATAACTTATGAAATAATT
1 TTGATAACTT-TGAAATAATT
14599293 TTG
1 TTG
14599296 TTATTATAAA
Statistics
Matches: 52, Mismatches: 6, Indels: 16
0.70 0.08 0.22
Matches are distributed among these distances:
20 9 0.17
21 35 0.67
22 8 0.15
ACGTcount: A:0.36, C:0.05, G:0.10, T:0.49
Consensus pattern (20 bp):
TTGATAACTTTGAAATAATT
Found at i:14599713 original size:22 final size:22
Alignment explanation
Indices: 14599685--14599853 Score: 117
Period size: 22 Copynumber: 7.7 Consensus size: 22
14599675 TTGATGTTAT
* *
14599685 ATTATTAGTGATTTATTATTAA
1 ATTATTAATGATTTACTATTAA
* *
14599707 ATTATTAATGATATATTATTAA
1 ATTATTAATGATTTACTATTAA
* * * *
14599729 ATTATCATTAATTTACTACTAA
1 ATTATTAATGATTTACTATTAA
* *
14599751 TTTATAAATGATTTACTATTAA
1 ATTATTAATGATTTACTATTAA
* *
14599773 AATATTAATGATTTACTACTAA
1 ATTATTAATGATTTACTATTAA
* * * *
14599795 GTTATTGATTATTTATTA-TAA
1 ATTATTAATGATTTACTATTAA
* * *
14599816 AGTTA-TAACTGGTTTACAACTAA
1 A-TTATTAA-TGATTTACTATTAA
* *
14599839 TTTATCAATGATTTA
1 ATTATTAATGATTTA
14599854 TTACAAAAAT
Statistics
Matches: 112, Mismatches: 31, Indels: 8
0.74 0.21 0.05
Matches are distributed among these distances:
21 5 0.04
22 102 0.91
23 5 0.04
ACGTcount: A:0.40, C:0.06, G:0.07, T:0.48
Consensus pattern (22 bp):
ATTATTAATGATTTACTATTAA
Found at i:14599787 original size:44 final size:44
Alignment explanation
Indices: 14599687--14599874 Score: 146
Period size: 44 Copynumber: 4.2 Consensus size: 44
14599677 GATGTTATAT
* * * * * *
14599687 TATTAGTGATTTATTATTAAATTATTAATGATATATTATTAAAT
1 TATTAATGATTTACTACTAATTTATTAATGATTTATTATTAAAA
* * * * *
14599731 TATCATTAATTTACTACTAATTTATAAATGATTTACTATTAAAA
1 TATTAATGATTTACTACTAATTTATTAATGATTTATTATTAAAA
* * * *
14599775 TATTAATGATTTACTACTAAGTTATTGATTATTTATTA-TAAAG
1 TATTAATGATTTACTACTAATTTATTAATGATTTATTATTAAAA
* * * **
14599818 T-TATAACTGGTTTACAACTAATTTATCAATGATTTATTACAAAAA
1 TAT-TAA-TGATTTACTACTAATTTATTAATGATTTATTATTAAAA
*
14599863 TTATCAATGATT
1 -TATTAATGATT
14599875 AAGTAATTTA
Statistics
Matches: 110, Mismatches: 29, Indels: 9
0.74 0.20 0.06
Matches are distributed among these distances:
42 1 0.01
43 8 0.07
44 90 0.82
45 7 0.06
46 3 0.03
47 1 0.01
ACGTcount: A:0.40, C:0.06, G:0.06, T:0.47
Consensus pattern (44 bp):
TATTAATGATTTACTACTAATTTATTAATGATTTATTATTAAAA
Found at i:14599934 original size:22 final size:22
Alignment explanation
Indices: 14599905--14599960 Score: 67
Period size: 22 Copynumber: 2.5 Consensus size: 22
14599895 TTTACCGATT
14599905 TACAACTAAGTTATTAATGATA
1 TACAACTAAGTTATTAATGATA
* * ** *
14599927 TACTACTATGTTATTTGTGATT
1 TACAACTAAGTTATTAATGATA
14599949 TACAACTAAGTT
1 TACAACTAAGTT
14599961 TAAGGATGGC
Statistics
Matches: 27, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (22 bp):
TACAACTAAGTTATTAATGATA
Found at i:14600686 original size:24 final size:22
Alignment explanation
Indices: 14600531--14600853 Score: 157
Period size: 22 Copynumber: 14.6 Consensus size: 22
14600521 AAATAATCAA
*
14600531 ACTATTATGTTATT-ATACATTT
1 ACTATTAAGTTATTCATA-ATTT
* *
14600553 ACTACTATGTTATT-ATTAATTT
1 ACTATTAAGTTATTCA-TAATTT
* *
14600575 ACTA-CATAGTT-TTCAATTATTT
1 ACTATTA-AGTTATTC-ATAATTT
*
14600597 ACTATAAAGTTA-TCATAGATTT
1 ACTATTAAGTTATTCATA-ATTT
* * *
14600619 ATTACTAAATTATAATCATTAATTT
1 ACTATTAAGTTAT--TCA-TAATTT
*
14600644 A-TATTAAATTATTCATAATTT
1 ACTATTAAGTTATTCATAATTT
* *
14600665 ATTATTAAGTTATCTCACTAATTA
1 ACTATTAAGTTAT-TCA-TAATTT
* *
14600689 ACTATTAAGTTATTGATTATTT
1 ACTATTAAGTTATTCATAATTT
*
14600711 ACTATTAAGTTA-T-ATTGATTT
1 ACTATTAAGTTATTCA-TAATTT
* *
14600732 ACTTTTAAGTT-TTCAATAATTA
1 ACTATTAAGTTATTC-ATAATTT
* * *
14600754 ACTACTAAATTATT-ATTGATTT
1 ACTATTAAGTTATTCA-TAATTT
* * *
14600776 ACTACTAAATTATTTATAATTT
1 ACTATTAAGTTATTCATAATTT
* * ** *
14600798 ACTATCAAATTA-AAATTATTT
1 ACTATTAAGTTATTCATAATTT
*
14600819 ACGATTAAGTTA-TCACTAATTT
1 ACTATTAAGTTATTCA-TAATTT
* *
14600841 ACCATTAAATTAT
1 ACTATTAAGTTAT
14600854 CATTGATTTA
Statistics
Matches: 238, Mismatches: 40, Indels: 45
0.74 0.12 0.14
Matches are distributed among these distances:
20 1 0.00
21 46 0.19
22 141 0.59
23 13 0.05
24 27 0.11
25 8 0.03
26 2 0.01
ACGTcount: A:0.38, C:0.09, G:0.04, T:0.49
Consensus pattern (22 bp):
ACTATTAAGTTATTCATAATTT
Found at i:14600695 original size:46 final size:47
Alignment explanation
Indices: 14600597--14600724 Score: 129
Period size: 46 Copynumber: 2.8 Consensus size: 47
14600587 TCAATTATTT
* * * *
14600597 ACTA-TAAAGTTA-TCATAGATTTATTACTAAATTATAATCATTAATTT
1 ACTATTAAA-TTATTCATA-ATTTATTATTAAGTTATAATCACTAATTA
*
14600644 A-TATTAAATTATTCATAATTTATTATTAAGTTAT-CTCACTAATTA
1 ACTATTAAATTATTCATAATTTATTATTAAGTTATAATCACTAATTA
* * * *
14600689 ACTATTAAGTTATTGATTATTTACTATTAAGTTATA
1 ACTATTAAATTATTCATAATTTATTATTAAGTTATA
14600725 TTGATTTACT
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
45 9 0.13
46 49 0.72
47 10 0.15
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.48
Consensus pattern (47 bp):
ACTATTAAATTATTCATAATTTATTATTAAGTTATAATCACTAATTA
Found at i:14600776 original size:65 final size:67
Alignment explanation
Indices: 14600661--14600788 Score: 165
Period size: 65 Copynumber: 1.9 Consensus size: 67
14600651 ATTATTCATA
* * * * *
14600661 ATTTATTATTAAGTTATCTCACTAATTAACTATTAAGTTATTGATTATTTACTATTAAGTTATAT
1 ATTTATTATTAAGTTATCTCAATAATTAACTACTAAATTATTGATTATTTACTACTAAATTATAT
14600726 TG
66 TG
14600728 ATTTACTT-TTAAGTT-T-TCAATAATTAACTACTAAATTATT-ATTGATTTACTACTAAATTAT
1 ATTTA-TTATTAAGTTATCTCAATAATTAACTACTAAATTATTGATT-ATTTACTACTAAATTAT
14600789 TTATAATTTA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
64 3 0.06
65 36 0.67
66 1 0.02
67 12 0.22
68 2 0.04
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (67 bp):
ATTTATTATTAAGTTATCTCAATAATTAACTACTAAATTATTGATTATTTACTACTAAATTATAT
TG
Found at i:14600800 original size:87 final size:87
Alignment explanation
Indices: 14600689--14600871 Score: 206
Period size: 87 Copynumber: 2.1 Consensus size: 87
14600679 TCACTAATTA
* * * * * * ** *
14600689 ACTATTAAGTTATTGATTATTTACTATTAAGTT-ATATTGATTTACTTTTAAGTTTTCAATAATT
1 ACTACTAAATTATTGATAATTTACTATCAAATTAAAATT-ATTTACGATTAAGTTATCAATAATT
* *
14600753 AACTACTAAATTATTATTGATTT
65 AACCACTAAATTATCATTGATTT
* * *
14600776 ACTACTAAATTATTTATAATTTACTATCAAATTAAAATTATTTACGATTAAGTTATCACTAATTT
1 ACTACTAAATTATTGATAATTTACTATCAAATTAAAATTATTTACGATTAAGTTATCAATAATTA
*
14600841 ACCATTAAATTATCATTGATTT
66 ACCACTAAATTATCATTGATTT
*
14600863 ATTACTAAA
1 ACTACTAAA
14600872 ATACCAATGA
Statistics
Matches: 79, Mismatches: 16, Indels: 2
0.81 0.16 0.02
Matches are distributed among these distances:
87 75 0.95
88 4 0.05
ACGTcount: A:0.38, C:0.09, G:0.05, T:0.48
Consensus pattern (87 bp):
ACTACTAAATTATTGATAATTTACTATCAAATTAAAATTATTTACGATTAAGTTATCAATAATTA
ACCACTAAATTATCATTGATTT
Found at i:14600894 original size:87 final size:87
Alignment explanation
Indices: 14600736--14600896 Score: 189
Period size: 87 Copynumber: 1.9 Consensus size: 87
14600726 TGATTTACTT
* * * * ***
14600736 TTAAGTTTTCAATAATTAACTACTAAATTATTATTGATTTACTACTAAATTATTTATAATTTACT
1 TTAAGTTATCAATAATTAACCACTAAATTATCATTGATTTACTACTAAAATACCAATAATTTACT
*
14600801 ATCAAATTAAAATTATTTACGA
66 ACCAAATTAAAATTATTTACGA
* * * * *
14600823 TTAAGTTATCACTAATTTACCATTAAATTATCATTGATTTATTACTAAAATACCAATGA-TTAGC
1 TTAAGTTATCAATAATTAACCACTAAATTATCATTGATTTACTACTAAAATACCAATAATTTA-C
14600887 TACCAAATTA
65 TACCAAATTA
14600897 TTACATATTT
Statistics
Matches: 60, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
86 3 0.05
87 57 0.95
ACGTcount: A:0.41, C:0.12, G:0.04, T:0.43
Consensus pattern (87 bp):
TTAAGTTATCAATAATTAACCACTAAATTATCATTGATTTACTACTAAAATACCAATAATTTACT
ACCAAATTAAAATTATTTACGA
Found at i:14601449 original size:41 final size:42
Alignment explanation
Indices: 14601354--14601463 Score: 125
Period size: 41 Copynumber: 2.6 Consensus size: 42
14601344 GTTATTAATG
* *
14601354 ATTAACTAATTTTTTTACTAAATTATCATTGATTTCGATTAAATT
1 ATTAA-TAA-TTTTCTACTAAATTATCATTGATTACGA-TAAATT
* *
14601399 ATTAGTAATTTTCTACTAAATTATCAATTTATTAC-A-AAATT
1 ATTAATAATTTTCTACTAAATTATC-ATTGATTACGATAAATT
*
14601440 ATTAATAATTTACTACTAAATTAT
1 ATTAATAATTTTCTACTAAATTAT
14601464 TAATAATTTA
Statistics
Matches: 58, Mismatches: 6, Indels: 6
0.83 0.09 0.09
Matches are distributed among these distances:
41 27 0.47
43 17 0.29
44 10 0.17
45 4 0.07
ACGTcount: A:0.40, C:0.09, G:0.03, T:0.48
Consensus pattern (42 bp):
ATTAATAATTTTCTACTAAATTATCATTGATTACGATAAATT
Found at i:14601467 original size:19 final size:19
Alignment explanation
Indices: 14601399--14601467 Score: 66
Period size: 19 Copynumber: 3.5 Consensus size: 19
14601389 CGATTAAATT
* *
14601399 ATTAGTAATTTTCTACTAA
1 ATTATTAATTTACTACTAA
* * *
14601418 ATTATCAATTTATTACAAA
1 ATTATTAATTTACTACTAA
14601437 ATTATTAATAATTTACTACTAA
1 ATTA-T--TAATTTACTACTAA
14601459 ATTATTAAT
1 ATTATTAAT
14601468 AATTTATTAT
Statistics
Matches: 39, Mismatches: 8, Indels: 6
0.74 0.15 0.11
Matches are distributed among these distances:
19 22 0.56
20 1 0.03
21 1 0.03
22 15 0.38
ACGTcount: A:0.43, C:0.09, G:0.01, T:0.46
Consensus pattern (19 bp):
ATTATTAATTTACTACTAA
Found at i:14601473 original size:22 final size:22
Alignment explanation
Indices: 14601393--14601572 Score: 97
Period size: 22 Copynumber: 8.4 Consensus size: 22
14601383 TGATTTCGAT
* *
14601393 TAAATTATTAGTAATTTTCTAC
1 TAAATTATTAATAATTTACTAC
* *
14601415 TAAATTA-T--CAATTTATTAC
1 TAAATTATTAATAATTTACTAC
*
14601434 AAAATTATTAATAATTTACTAC
1 TAAATTATTAATAATTTACTAC
* *
14601456 TAAATTATTAATAATTTATTAT
1 TAAATTATTAATAATTTACTAC
* * *
14601478 TATA-TATT-ATACATTAATTAC
1 TAAATTATTAATA-ATTTACTAC
** * * *
14601499 TATGTTATCATTGATTTACTAC
1 TAAATTATTAATAATTTACTAC
* * * *
14601521 TTAATTTTTTATTATTTACTA-
1 TAAATTATTAATAATTTACTAC
14601542 TAAAATTATT-ATCAATTTACTA-
1 T-AAATTATTAAT-AATTTACTAC
14601564 TAAAATTAT
1 T-AAATTAT
14601573 CATCGATCTA
Statistics
Matches: 121, Mismatches: 29, Indels: 16
0.73 0.17 0.10
Matches are distributed among these distances:
19 14 0.12
20 4 0.03
21 18 0.15
22 84 0.69
23 1 0.01
ACGTcount: A:0.41, C:0.08, G:0.02, T:0.50
Consensus pattern (22 bp):
TAAATTATTAATAATTTACTAC
Found at i:14601476 original size:11 final size:11
Alignment explanation
Indices: 14601424--14601476 Score: 54
Period size: 11 Copynumber: 4.8 Consensus size: 11
14601414 CTAAATTATC
14601424 AATTTATTACA-
1 AATTTATTA-AT
*
14601435 AAATTATTAAT
1 AATTTATTAAT
* *
14601446 AATTTACTACT
1 AATTTATTAAT
*
14601457 AAATTATTAAT
1 AATTTATTAAT
14601468 AATTTATTA
1 AATTTATTA
14601477 TTATATATTA
Statistics
Matches: 33, Mismatches: 8, Indels: 2
0.77 0.19 0.05
Matches are distributed among these distances:
10 1 0.03
11 32 0.97
ACGTcount: A:0.47, C:0.06, G:0.00, T:0.47
Consensus pattern (11 bp):
AATTTATTAAT
Found at i:14601584 original size:22 final size:22
Alignment explanation
Indices: 14601537--14601585 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
14601527 TTTTATTATT
* *
14601537 TACTATAAAATTATTATCAATT
1 TACTATAAAATTATCATCAATC
*
14601559 TACTATAAAATTATCATCGATC
1 TACTATAAAATTATCATCAATC
14601581 TACTA
1 TACTA
14601586 CCAAAATATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.43, C:0.14, G:0.02, T:0.41
Consensus pattern (22 bp):
TACTATAAAATTATCATCAATC
Found at i:14601620 original size:22 final size:21
Alignment explanation
Indices: 14601592--14601659 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 21
14601582 ACTACCAAAA
14601592 TATCATTGATTTTTATTAAAT
1 TATCATTGATTTTTATTAAAT
*
14601613 TATACATT-ATTTACTATTAAAT
1 TAT-CATTGATTT-TTATTAAAT
* * *
14601635 TATTATTGATTAATTATTAAGT
1 TATCATTGATT-TTTATTAAAT
14601657 TAT
1 TAT
14601660 TGATTTTTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 10 0.26
22 28 0.74
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.54
Consensus pattern (21 bp):
TATCATTGATTTTTATTAAAT
Found at i:14601690 original size:65 final size:65
Alignment explanation
Indices: 14601612--14601762 Score: 155
Period size: 65 Copynumber: 2.3 Consensus size: 65
14601602 TTTTATTAAA
* * * * *
14601612 TTATACATT-ATTTACTATTAAATTATT-ATTGATTAATTATTAAGTTATTGATTTTTTACTACT
1 TTAT-CATTAATTTACTATTAAATT-TTAATT-ATTAACTATTAAATCATTAATTATTTACTACT
*
14601675 ATG
63 AAG
* * *
14601678 TTAT-ATTGATTTACTTTTAAGTTTTCAATTATTAACTATTAAATCATTAATTATTTACTACTAA
1 TTATCATTAATTTACTATTAAATTTT-AATTATTAACTATTAAATCATTAATTATTTACTACTAA
14601742 G
65 G
*
14601743 TTATCTTTAATTTACTATTA
1 TTATCATTAATTTACTATTA
14601763 TTTTATTTAT
Statistics
Matches: 70, Mismatches: 11, Indels: 8
0.79 0.12 0.09
Matches are distributed among these distances:
64 5 0.07
65 46 0.66
66 19 0.27
ACGTcount: A:0.34, C:0.08, G:0.05, T:0.54
Consensus pattern (65 bp):
TTATCATTAATTTACTATTAAATTTTAATTATTAACTATTAAATCATTAATTATTTACTACTAAG
Found at i:14601868 original size:28 final size:29
Alignment explanation
Indices: 14601819--14601877 Score: 68
Period size: 28 Copynumber: 2.1 Consensus size: 29
14601809 ACTTTTTTAC
*
14601819 TATTAATTTATTACTAATTTAT-AATTAT
1 TATTAATTTATTACTAATTTATCAATGAT
* *
14601847 TATTGATTTATTATTCAA-TTATCAATGAT
1 TATTAATTTATTACT-AATTTATCAATGAT
14601876 TA
1 TA
14601878 ACTTCTAAGA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 17 0.65
29 9 0.35
ACGTcount: A:0.37, C:0.05, G:0.03, T:0.54
Consensus pattern (29 bp):
TATTAATTTATTACTAATTTATCAATGAT
Found at i:14602439 original size:16 final size:16
Alignment explanation
Indices: 14602426--14602469 Score: 61
Period size: 17 Copynumber: 2.6 Consensus size: 16
14602416 TTTTTATTTG
14602426 AAAAAATATTTATTAT
1 AAAAAATATTTATTAT
*
14602442 AAATAAATTTTTATTAT
1 AAA-AAATATTTATTAT
14602459 ATAAAAATATT
1 A-AAAAATATT
14602470 AAAATGCATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
16 3 0.12
17 19 0.79
18 2 0.08
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
AAAAAATATTTATTAT
Found at i:14602454 original size:17 final size:16
Alignment explanation
Indices: 14602416--14602466 Score: 59
Period size: 17 Copynumber: 3.1 Consensus size: 16
14602406 AGGTCAATTT
14602416 TTTTTATT-TGAAAAAA
1 TTTTTATTAT-AAAAAA
*
14602432 TATTTATTATAAATAAA
1 TTTTTATTATAAA-AAA
14602449 TTTTTATTATATAAAAA
1 TTTTTATTATA-AAAAA
14602466 T
1 T
14602467 ATTAAAATGC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 10 0.33
17 18 0.60
18 2 0.07
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
TTTTTATTATAAAAAA
Found at i:14611764 original size:58 final size:58
Alignment explanation
Indices: 14611653--14611764 Score: 145
Period size: 58 Copynumber: 1.9 Consensus size: 58
14611643 TAAAGATGTT
* * * * * * *
14611653 TGTTTCATCATTTCTGCCATTGCAGCTGGTATTGTTCTGCTTACATGGGAGGTTAAGA
1 TGTTTAATCATTTATGCCATTGCAGCTGGCACTGTTCTGCTCAAATGGAAGGTTAAGA
14611711 TGTTTAATCATTTATG-CACTTGCAGCTGGCACTGTTCTGCTCAAATGGAAGGTT
1 TGTTTAATCATTTATGCCA-TTGCAGCTGGCACTGTTCTGCTCAAATGGAAGGTT
14611765 TTGGCTAGAG
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
57 2 0.04
58 44 0.96
ACGTcount: A:0.21, C:0.18, G:0.23, T:0.38
Consensus pattern (58 bp):
TGTTTAATCATTTATGCCATTGCAGCTGGCACTGTTCTGCTCAAATGGAAGGTTAAGA
Found at i:14618177 original size:21 final size:21
Alignment explanation
Indices: 14618136--14618178 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
14618126 AAATTTTTAT
**
14618136 AATAAATATTAATTATGATAA
1 AATAAATATTAATTAAAATAA
14618157 AATAAATAATTAA-TAAAATAA
1 AATAAAT-ATTAATTAAAATAA
14618178 A
1 A
14618179 GCTTAAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (21 bp):
AATAAATATTAATTAAAATAA
Found at i:14619927 original size:45 final size:43
Alignment explanation
Indices: 14619799--14619915 Score: 128
Period size: 45 Copynumber: 2.7 Consensus size: 43
14619789 TATTAAGCTC
* * * *
14619799 TTCTAACCATAGGCAATGTAACTTTGAAATTTTGAAAAAACTA
1 TTCTAACCAAAGGTAATGTAACTTTTAAATTTTAAAAAAACTA
** *
14619842 TTCTAATTAAAGGTAATGTAACTTTT-AATTTTACAAAAAAAACTT
1 TTCTAACCAAAGGTAATGTAACTTTTAAATTTT---AAAAAAACTA
*
14619887 TTCTAACCAAAGGTAATGAAACTTTTAAA
1 TTCTAACCAAAGGTAATGTAACTTTTAAA
14619916 ATGTTTTAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 5
0.80 0.13 0.07
Matches are distributed among these distances:
42 6 0.10
43 21 0.35
45 31 0.52
46 2 0.03
ACGTcount: A:0.44, C:0.12, G:0.09, T:0.35
Consensus pattern (43 bp):
TTCTAACCAAAGGTAATGTAACTTTTAAATTTTAAAAAAACTA
Found at i:14620007 original size:33 final size:33
Alignment explanation
Indices: 14619958--14620055 Score: 115
Period size: 33 Copynumber: 2.9 Consensus size: 33
14619948 TAGACTAAGA
*
14619958 CAAAATCCAAAAAATGAAATGACTTGAATTGAGT
1 CAAAGTCC-AAAAATGAAATGACTTGAATTGAGT
*** * *
14619992 GGGAGTCCAAAAATGAAATGACTTGAACTAAGT
1 CAAAGTCCAAAAATGAAATGACTTGAATTGAGT
* *
14620025 CAAAGTCTAAAAATGAAATGACCTGAATTGA
1 CAAAGTCCAAAAATGAAATGACTTGAATTGA
14620056 ATCGAAGTTG
Statistics
Matches: 51, Mismatches: 13, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
33 47 0.92
34 4 0.08
ACGTcount: A:0.47, C:0.12, G:0.18, T:0.22
Consensus pattern (33 bp):
CAAAGTCCAAAAATGAAATGACTTGAATTGAGT
Found at i:14620070 original size:33 final size:32
Alignment explanation
Indices: 14619967--14620070 Score: 102
Period size: 33 Copynumber: 3.2 Consensus size: 32
14619957 ACAAAATCCA
* * * *
14619967 AAAAATGAAATGACTTGAATTGAGTGGGAGTCC
1 AAAAATGAAATGACTTGAATTGAATCGAAGT-T
* *
14620000 AAAAATGAAATGACTTGAACT-AAGTCAAAGTCT
1 AAAAATGAAATGACTTGAATTGAA-TCGAAGT-T
*
14620033 AAAAATGAAATGACCTGAATTGAATCGAAGTT
1 AAAAATGAAATGACTTGAATTGAATCGAAGTT
14620065 GAAAAA
1 -AAAAA
14620071 AGTAACGGCC
Statistics
Matches: 59, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
32 2 0.03
33 55 0.93
34 2 0.03
ACGTcount: A:0.47, C:0.10, G:0.20, T:0.23
Consensus pattern (32 bp):
AAAAATGAAATGACTTGAATTGAATCGAAGTT
Found at i:14620237 original size:44 final size:45
Alignment explanation
Indices: 14620189--14620280 Score: 132
Period size: 44 Copynumber: 2.1 Consensus size: 45
14620179 AGATCTTACT
* * *
14620189 AATCATGCCCTAAGGTCTTTAGAGTTTATGTTCAGA-GTCTTAAA
1 AATCATACCCAAAAGTCTTTAGAGTTTATGTTCAGAGGTCTTAAA
* *
14620233 AATCATACCCAAAAGTTTTTAGAGTTTATGTTCAGAGGTCTTACA
1 AATCATACCCAAAAGTCTTTAGAGTTTATGTTCAGAGGTCTTAAA
14620278 AAT
1 AAT
14620281 AAAATCTTAA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 32 0.76
45 10 0.24
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.36
Consensus pattern (45 bp):
AATCATACCCAAAAGTCTTTAGAGTTTATGTTCAGAGGTCTTAAA
Found at i:14620306 original size:44 final size:44
Alignment explanation
Indices: 14620203--14620306 Score: 120
Period size: 44 Copynumber: 2.4 Consensus size: 44
14620193 ATGCCCTAAG
* *
14620203 GTCTTTAGAGTTTATGTTCAGAGTCTTAAAAATCATACCCAAAA
1 GTCTTTAGAGTTTATGTTCAGAGTCTTAAAAATAAAACCCAAAA
* * * **
14620247 GTTTTTAGAGTTTATGTTCAGAGGTCTTACAAATAAAATCTTAAA
1 GTCTTTAGAGTTTATGTTCAGA-GTCTTAAAAATAAAACCCAAAA
*
14620292 GTCTTTA-AGATTATG
1 GTCTTTAGAGTTTATG
14620307 CCCTGAGGTA
Statistics
Matches: 50, Mismatches: 9, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
44 28 0.56
45 22 0.44
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (44 bp):
GTCTTTAGAGTTTATGTTCAGAGTCTTAAAAATAAAACCCAAAA
Found at i:14624753 original size:104 final size:104
Alignment explanation
Indices: 14624573--14624781 Score: 364
Period size: 104 Copynumber: 2.0 Consensus size: 104
14624563 ATATATTACT
* *
14624573 TTTTAAAATTTAAAAACCAAAACAATATTTATCTTAAAATTTAAAGACCGTGAAAATAATTTACT
1 TTTTAAAATTTAAAAACCAAAACAATATTTACCTTAAAATTTAAAGACCATGAAAATAATTTACT
*
14624638 GCAAAACTTTCTTATTCTTGTTATTAAGTTACTTAATGA
66 GCAAAACTTTCTTATTCTTGTTATTAAGTTACTCAATGA
*
14624677 TTTTAAAATTTAAAAACCAAAACAATATTTACCTTAAAATTTAAAGACCATGAAAGTAATTTACT
1 TTTTAAAATTTAAAAACCAAAACAATATTTACCTTAAAATTTAAAGACCATGAAAATAATTTACT
* *
14624742 GTAAGACTTTCTTATTCTTGTTATTAAGTTACTCAATGA
66 GCAAAACTTTCTTATTCTTGTTATTAAGTTACTCAATGA
14624781 T
1 T
14624782 CCATGGCAAC
Statistics
Matches: 99, Mismatches: 6, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
104 99 1.00
ACGTcount: A:0.42, C:0.12, G:0.07, T:0.39
Consensus pattern (104 bp):
TTTTAAAATTTAAAAACCAAAACAATATTTACCTTAAAATTTAAAGACCATGAAAATAATTTACT
GCAAAACTTTCTTATTCTTGTTATTAAGTTACTCAATGA
Found at i:14625291 original size:18 final size:18
Alignment explanation
Indices: 14625261--14625295 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
14625251 TTATAAAAAT
14625261 TTAAAAAATATATATAAA
1 TTAAAAAATATATATAAA
14625279 TTAATAAAA-ATATATAA
1 TTAA-AAAATATATATAA
14625296 TTCAATTTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
TTAAAAAATATATATAAA
Found at i:14628637 original size:2 final size:2
Alignment explanation
Indices: 14628630--14628659 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
14628620 AAGAGGCTAA
14628630 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14628660 ATGTTCTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:14630200 original size:46 final size:46
Alignment explanation
Indices: 14630117--14630211 Score: 136
Period size: 46 Copynumber: 2.1 Consensus size: 46
14630107 TTTTTTTCAA
**
14630117 TTTAAAGTGATTTGTTTTTGTTAATGAGTTTAAAAAATAATAATCT
1 TTTAAAGTGATTTGTTTTTGTTAATGAGCCTAAAAAATAATAATCT
* ** *
14630163 TTTAGAGTGATTTGTTTTTGTTAATGAGCCTGGAAAATGATAATCT
1 TTTAAAGTGATTTGTTTTTGTTAATGAGCCTAAAAAATAATAATCT
14630209 TTT
1 TTT
14630212 CTATTTTCTT
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.32, C:0.04, G:0.17, T:0.47
Consensus pattern (46 bp):
TTTAAAGTGATTTGTTTTTGTTAATGAGCCTAAAAAATAATAATCT
Found at i:14630227 original size:16 final size:16
Alignment explanation
Indices: 14630206--14630238 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
14630196 AAAATGATAA
14630206 TCTTTTCTA-TTTTCTT
1 TCTTTT-TATTTTTCTT
14630222 TCTTTTTATTTTTCTT
1 TCTTTTTATTTTTCTT
14630238 T
1 T
14630239 TGTACTAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 2 0.12
16 14 0.88
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (16 bp):
TCTTTTTATTTTTCTT
Found at i:14632507 original size:31 final size:31
Alignment explanation
Indices: 14632458--14632519 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
14632448 TTTAAGTAGG
14632458 TTTAGGGCCTAAAGTAAGGTTTAGGGTTTGA
1 TTTAGGGCCTAAAGTAAGGTTTAGGGTTTGA
* *
14632489 TTTAGGGTCT-AAGTTAAGGTTTGGGGTTTGA
1 TTTAGGGCCTAAAG-TAAGGTTTAGGGTTTGA
14632520 GTTTGGTTTA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 3 0.11
31 25 0.89
ACGTcount: A:0.23, C:0.05, G:0.34, T:0.39
Consensus pattern (31 bp):
TTTAGGGCCTAAAGTAAGGTTTAGGGTTTGA
Found at i:14632533 original size:18 final size:18
Alignment explanation
Indices: 14632483--14632534 Score: 50
Period size: 18 Copynumber: 2.8 Consensus size: 18
14632473 AAGGTTTAGG
* *
14632483 GTTTGATTTAGGGTCTAA
1 GTTTGGTTTAGGGTTTAA
* * *
14632501 GTTAAGGTTTGGGGTTTGA
1 GTT-TGGTTTAGGGTTTAA
14632520 GTTTGGTTTAGGGTT
1 GTTTGGTTTAGGGTT
14632535 AAAGGTTTAA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
18 13 0.50
19 13 0.50
ACGTcount: A:0.15, C:0.02, G:0.37, T:0.46
Consensus pattern (18 bp):
GTTTGGTTTAGGGTTTAA
Found at i:14632758 original size:34 final size:35
Alignment explanation
Indices: 14632716--14632782 Score: 102
Period size: 35 Copynumber: 1.9 Consensus size: 35
14632706 TTGGAAGGTG
14632716 GTTTAGGG-TTC-GTGGTTGGTTTAGGGTTTAGAAT
1 GTTTAGGGTTTCAGTGG-TGGTTTAGGGTTTAGAAT
*
14632750 GTTTAGGGTTTCATTGGTGGTTTAGGGTTTAGA
1 GTTTAGGGTTTCAGTGGTGGTTTAGGGTTTAGA
14632783 GTATGAGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
34 8 0.27
35 19 0.63
36 3 0.10
ACGTcount: A:0.15, C:0.03, G:0.37, T:0.45
Consensus pattern (35 bp):
GTTTAGGGTTTCAGTGGTGGTTTAGGGTTTAGAAT
Found at i:14633800 original size:14 final size:15
Alignment explanation
Indices: 14633767--14633805 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
14633757 TCTTTAAAAG
*
14633767 ATTTTTTTTCTTTCT
1 ATTTTTTTTCTCTCT
*
14633782 TTTTTTTTTC-CTCT
1 ATTTTTTTTCTCTCT
14633796 ATTTTTTTTC
1 ATTTTTTTTC
14633806 ACATTTCCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.05, C:0.15, G:0.00, T:0.79
Consensus pattern (15 bp):
ATTTTTTTTCTCTCT
Found at i:14648193 original size:15 final size:15
Alignment explanation
Indices: 14648175--14648208 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
14648165 AAAACATAAA
14648175 AATAAAAAA-TATTTT
1 AATAAAAAATTA-TTT
14648190 AATAAAAAATTATTT
1 AATAAAAAATTATTT
14648205 AATA
1 AATA
14648209 TGATTTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.89
16 2 0.11
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
AATAAAAAATTATTT
Found at i:14648275 original size:16 final size:19
Alignment explanation
Indices: 14648240--14648274 Score: 56
Period size: 17 Copynumber: 1.9 Consensus size: 19
14648230 TATATTAATT
14648240 TAATTATAATATTAAAAAA
1 TAATTATAATATTAAAAAA
14648259 TAATTA-AATA-TAAAAA
1 TAATTATAATATTAAAAA
14648275 TTACTCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 4 0.25
19 6 0.38
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (19 bp):
TAATTATAATATTAAAAAA
Found at i:14648414 original size:20 final size:20
Alignment explanation
Indices: 14648373--14648438 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 20
14648363 ATTTTTTTAA
* *
14648373 TTTTTAAAAGTATTT-CAGAT
1 TTTTTAAAATTTTTTACA-AT
14648393 TTTTTAAAATTTTTTACAA-
1 TTTTTAAAATTTTTTACAAT
* *
14648412 TTTTGAAGAATTTTTTAAAACT
1 TTTTTAA-AATTTTTTACAA-T
14648434 TTTTT
1 TTTTT
14648439 TATTTTATAT
Statistics
Matches: 37, Mismatches: 5, Indels: 6
0.77 0.10 0.12
Matches are distributed among these distances:
19 6 0.16
20 25 0.68
21 2 0.05
22 4 0.11
ACGTcount: A:0.33, C:0.05, G:0.06, T:0.56
Consensus pattern (20 bp):
TTTTTAAAATTTTTTACAAT
Found at i:14648415 original size:9 final size:10
Alignment explanation
Indices: 14648391--14648438 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
14648381 AGTATTTCAG
14648391 ATTTTTTAAA
1 ATTTTTTAAA
*
14648401 ATTTTTTACA
1 ATTTTTTAAA
*
14648411 A-TTTTGAAGA
1 ATTTTTTAA-A
14648421 ATTTTTTAAA
1 ATTTTTTAAA
14648431 ACTTTTTT
1 A-TTTTTT
14648439 TATTTTATAT
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
9 5 0.16
10 14 0.45
11 12 0.39
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.58
Consensus pattern (10 bp):
ATTTTTTAAA
Found at i:14649251 original size:13 final size:13
Alignment explanation
Indices: 14649233--14649257 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14649223 AAAATATGTG
14649233 GGTGCAATGCAAA
1 GGTGCAATGCAAA
14649246 GGTGCAATGCAA
1 GGTGCAATGCAA
14649258 TCCGCCAAGA
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:0.36, C:0.16, G:0.32, T:0.16
Consensus pattern (13 bp):
GGTGCAATGCAAA
Found at i:14653616 original size:11 final size:11
Alignment explanation
Indices: 14653602--14653677 Score: 64
Period size: 13 Copynumber: 6.4 Consensus size: 11
14653592 AAATAAAATA
14653602 AAAAATATCAT
1 AAAAATATCAT
14653613 AAAAA-ATCATT
1 AAAAATATCA-T
*
14653624 AAAACATCATAAT
1 AAAA-AT-ATCAT
14653637 AAAAATATCAT
1 AAAAATATCAT
14653648 AAAAAAATATCAT
1 --AAAAATATCAT
*
14653661 GGAAAAAAATCAT
1 --AAAAATATCAT
14653674 AAAA
1 AAAA
14653678 CATCATGGAA
Statistics
Matches: 54, Mismatches: 5, Indels: 12
0.76 0.07 0.17
Matches are distributed among these distances:
10 4 0.07
11 18 0.33
12 3 0.06
13 26 0.48
14 3 0.06
ACGTcount: A:0.66, C:0.09, G:0.03, T:0.22
Consensus pattern (11 bp):
AAAAATATCAT
Found at i:14653668 original size:15 final size:13
Alignment explanation
Indices: 14653601--14653677 Score: 67
Period size: 14 Copynumber: 6.2 Consensus size: 13
14653591 AAAATAAAAT
14653601 AAAAAATATCAT-
1 AAAAAATATCATA
14653613 -AAAAA-ATCAT-
1 AAAAAATATCATA
* *
14653623 -TAAAACATCATA
1 AAAAAATATCATA
14653635 ATAAAAATATCATA
1 A-AAAAATATCATA
*
14653649 AAAAAATATCATGG
1 AAAAAATATCAT-A
14653663 AAAAAA-ATCATA
1 AAAAAATATCATA
14653675 AAA
1 AAA
14653678 CATCATGGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
10 9 0.16
11 10 0.18
12 3 0.05
13 16 0.29
14 17 0.31
ACGTcount: A:0.66, C:0.09, G:0.03, T:0.22
Consensus pattern (13 bp):
AAAAAATATCATA
Found at i:14653743 original size:24 final size:24
Alignment explanation
Indices: 14653637--14653766 Score: 118
Period size: 24 Copynumber: 5.3 Consensus size: 24
14653627 ACATCATAAT
* *
14653637 AAAAATATCATAAAAAAATATCATGG
1 AAAAATATCAT-AATAAA-ATCATGC
* * *
14653663 AAAAAAATCATAA-AACATCATGG
1 AAAAATATCATAATAAAATCATGC
* *
14653686 AATAGTATCATAATAAAATCATGC
1 AAAAATATCATAATAAAATCATGC
**
14653710 AATGATATCATAATAAAATCATGC
1 AAAAATATCATAATAAAATCATGC
* * *
14653734 AAAAAAATCACAATAAATATCATTC
1 AAAAATATCATAATAAA-ATCATGC
14653759 AAAAATAT
1 AAAAATAT
14653767 AAAAATTCAA
Statistics
Matches: 87, Mismatches: 15, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
23 17 0.20
24 45 0.52
25 15 0.17
26 10 0.11
ACGTcount: A:0.58, C:0.12, G:0.06, T:0.25
Consensus pattern (24 bp):
AAAAATATCATAATAAAATCATGC
Found at i:14653766 original size:13 final size:12
Alignment explanation
Indices: 14653602--14653766 Score: 53
Period size: 13 Copynumber: 13.7 Consensus size: 12
14653592 AAATAAAATA
14653602 AAAAATATCAT-
1 AAAAATATCATC
*
14653613 AAAAA-ATCATT
1 AAAAATATCATC
*
14653624 AAAACATCATAAT-
1 AAAA-AT-ATCATC
*
14653637 AAAAATATCATAA
1 AAAAATATCAT-C
*
14653650 AAAAATATCATGG
1 AAAAATATCAT-C
*
14653663 AAAAAAATCAT-
1 AAAAATATCATC
* *
14653674 -AAAACATCATGG
1 AAAAATATCAT-C
* *
14653686 AATAGTATCAT-
1 AAAAATATCATC
14653697 AATAAA-ATCATGC
1 AA-AAATATCAT-C
**
14653710 AATGATATCAT-
1 AAAAATATCATC
14653721 AATAAA-ATCATGC
1 AA-AAATATCAT-C
*
14653734 AAAAAAATCA-C
1 AAAAATATCATC
14653745 AATAAATATCATTC
1 AA-AAATATCA-TC
14653759 AAAAATAT
1 AAAAATAT
14653767 AAAAATTCAA
Statistics
Matches: 118, Mismatches: 16, Indels: 38
0.69 0.09 0.22
Matches are distributed among these distances:
10 14 0.12
11 30 0.25
12 16 0.14
13 51 0.43
14 7 0.06
ACGTcount: A:0.59, C:0.12, G:0.05, T:0.25
Consensus pattern (12 bp):
AAAAATATCATC
Found at i:14653906 original size:25 final size:25
Alignment explanation
Indices: 14653846--14653906 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
14653836 ATAAAATAGT
* *
14653846 AAATAAATATATACCAAAATATAATA
1 AAATAAA-AAATACCAAAATATAAAA
** * *
14653872 AAATTTAAAATAGCAAAATTTAAAA
1 AAATAAAAAATACCAAAATATAAAA
14653897 AAATAAAAAA
1 AAATAAAAAA
14653907 ATAAAAAAGG
Statistics
Matches: 27, Mismatches: 8, Indels: 1
0.75 0.22 0.03
Matches are distributed among these distances:
25 22 0.81
26 5 0.19
ACGTcount: A:0.69, C:0.05, G:0.02, T:0.25
Consensus pattern (25 bp):
AAATAAAAAATACCAAAATATAAAA
Found at i:14658541 original size:5 final size:5
Alignment explanation
Indices: 14658520--14658552 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
14658510 CCAAATAATA
14658520 AAAAT GAAAAT -AAAT AAAAT AAAAT AAAAT AAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAAT AAA
14658553 GAGGTCTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:14658924 original size:37 final size:38
Alignment explanation
Indices: 14658817--14658931 Score: 103
Period size: 39 Copynumber: 3.0 Consensus size: 38
14658807 AAAAAGAAAA
**
14658817 AAAATTCAAAGATTCACATGTTG-AAA--TCAAATATATGAT
1 AAAATTCAAAGATTCACAACTTGAAAATTTCAAA-AT-T--T
* *
14658856 AAAATTCAAAGATTCATAACTTGAAAGTTTCAAAATTT
1 AAAATTCAAAGATTCACAACTTGAAAATTTCAAAATTT
* * *
14658894 AAAATTCAATGGTTCACAA-TTGAAAATTTCAAGATTT
1 AAAATTCAAAGATTCACAACTTGAAAATTTCAAAATTT
14658931 A
1 A
14658932 CAAAATATTC
Statistics
Matches: 64, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
37 17 0.27
38 17 0.27
39 20 0.31
40 3 0.05
41 2 0.03
42 5 0.08
ACGTcount: A:0.47, C:0.10, G:0.10, T:0.33
Consensus pattern (38 bp):
AAAATTCAAAGATTCACAACTTGAAAATTTCAAAATTT
Found at i:14659031 original size:18 final size:18
Alignment explanation
Indices: 14659010--14659104 Score: 86
Period size: 18 Copynumber: 5.3 Consensus size: 18
14659000 TATAGATTCA
14659010 CAAGAGTTCAAAGATTAG
1 CAAGAGTTCAAAGATTAG
** *
14659028 CAAGAAATCAAAAATT-G
1 CAAGAGTTCAAAGATTAG
14659045 CAAGAGTTCAAAGATTAG
1 CAAGAGTTCAAAGATTAG
* * * *
14659063 CAAAAATTCAATGATTTG
1 CAAGAGTTCAAAGATTAG
* *
14659081 GAA-ATGTTCAAAGATTTG
1 CAAGA-GTTCAAAGATTAG
14659099 CAAGAG
1 CAAGAG
14659105 ATAAAAAACT
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
17 15 0.25
18 44 0.73
19 1 0.02
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.24
Consensus pattern (18 bp):
CAAGAGTTCAAAGATTAG
Found at i:14659129 original size:18 final size:18
Alignment explanation
Indices: 14659108--14659164 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
14659098 GCAAGAGATA
*
14659108 AAAAACTCATAAGAATTC
1 AAAAATTCATAAGAATTC
* * *
14659126 AAAAATTCACAACAATTT
1 AAAAATTCATAAGAATTC
* *
14659144 AAAGATTTATAAGAATTC
1 AAAAATTCATAAGAATTC
14659162 AAA
1 AAA
14659165 GATTTGTAAA
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 30 1.00
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.26
Consensus pattern (18 bp):
AAAAATTCATAAGAATTC
Found at i:14659165 original size:18 final size:18
Alignment explanation
Indices: 14659116--14659188 Score: 65
Period size: 18 Copynumber: 3.9 Consensus size: 18
14659106 TAAAAAACTC
* *
14659116 ATAAGAATTCAAAAATTC
1 ATAAGAATTCAAAGATTT
* * *
14659134 ACAACAATTTAAAGATTT
1 ATAAGAATTCAAAGATTT
14659152 ATAAGAATTCAAAGATTT
1 ATAAGAATTCAAAGATTT
* *
14659170 GTAAATAATTTCAAAGATT
1 AT-AAGAA-TTCAAAGATT
14659189 CACTAATAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
18 29 0.67
19 4 0.09
20 10 0.23
ACGTcount: A:0.51, C:0.08, G:0.08, T:0.33
Consensus pattern (18 bp):
ATAAGAATTCAAAGATTT
Found at i:14659243 original size:20 final size:20
Alignment explanation
Indices: 14659220--14659327 Score: 75
Period size: 20 Copynumber: 5.5 Consensus size: 20
14659210 TTGCAATTGT
14659220 AAAGATTCACAAATAATTTC
1 AAAGATTCACAAATAATTTC
* * *
14659240 AAAG-TT-TC-ATTAATTGC
1 AAAGATTCACAAATAATTTC
*
14659257 AAAGATTCATAAATAA-TTC
1 AAAGATTCACAAATAATTTC
*
14659276 AAAGATTCACAAGTGAAATTTC
1 AAAGATTCACAAAT--AATTTC
* *
14659298 TAAGTTTCACATCAA-AA-TTC
1 AAAGATTCACA--AATAATTTC
14659318 AAAGATTCAC
1 AAAGATTCAC
14659328 GTTCAAAAAT
Statistics
Matches: 66, Mismatches: 14, Indels: 16
0.69 0.15 0.17
Matches are distributed among these distances:
17 11 0.17
18 3 0.05
19 16 0.24
20 19 0.29
21 4 0.06
22 12 0.18
24 1 0.02
ACGTcount: A:0.45, C:0.15, G:0.08, T:0.31
Consensus pattern (20 bp):
AAAGATTCACAAATAATTTC
Found at i:14659259 original size:17 final size:17
Alignment explanation
Indices: 14659233--14659284 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
14659223 GATTCACAAA
* *
14659233 TAATTTCAAAGTTTCAT
1 TAATTGCAAAGATTCAT
14659250 TAATTGCAAAGATTCAT
1 TAATTGCAAAGATTCAT
14659267 AAATAATT-CAAAGATTCA
1 ---TAATTGCAAAGATTCA
14659285 CAAGTGAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 15 0.50
19 10 0.33
20 5 0.17
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.37
Consensus pattern (17 bp):
TAATTGCAAAGATTCAT
Found at i:14659264 original size:37 final size:36
Alignment explanation
Indices: 14659214--14659284 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 36
14659204 AAAAATTTGC
* *
14659214 AATTGTAAAGATTCACAAATAATTTCAAAGTTTCATT
1 AATTGCAAAGATTCACAAATAA-TTCAAAGATTCATT
*
14659251 AATTGCAAAGATTCATAAATAATTCAAAGATTCA
1 AATTGCAAAGATTCACAAATAATTCAAAGATTCA
14659285 CAAGTGAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
36 11 0.35
37 20 0.65
ACGTcount: A:0.46, C:0.11, G:0.08, T:0.34
Consensus pattern (36 bp):
AATTGCAAAGATTCACAAATAATTCAAAGATTCATT
Found at i:14659478 original size:100 final size:99
Alignment explanation
Indices: 14659390--14659578 Score: 238
Period size: 100 Copynumber: 1.9 Consensus size: 99
14659380 ATTCAAATTT
*
14659390 TAAAAAATTCTTATTCAAAAATTTTAGAGATTCACATCTAAAACTCATACATT-ACATTGGAAAG
1 TAAAAAATTCTTATTCAAAAATTTTAGAGATTCACATCTAAAACTCATACATTCACATTGCAAAG
* * *
14659454 -TTCCACATTGAAAGATTTGCATTCAAAAGATTCACA
66 ATT-CACATTCAAAGATTTGCATTC--AACATTCAAA
** * ** *
14659490 TCCAAGATTCTTATTCAAAAATTTTAGAGATTTGCATCTAAAACTCATACATTCGCATTGCAAAG
1 TAAAAAATTCTTATTCAAAAATTTTAGAGATTCACATCTAAAACTCATACATTCACATTGCAAAG
*
14659555 ATTCACATTCAAATATTTGCATTC
66 ATTCACATTCAAAGATTTGCATTC
14659579 GAAATATTCA
Statistics
Matches: 78, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
100 48 0.62
101 28 0.36
102 2 0.03
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (99 bp):
TAAAAAATTCTTATTCAAAAATTTTAGAGATTCACATCTAAAACTCATACATTCACATTGCAAAG
ATTCACATTCAAAGATTTGCATTCAACATTCAAA
Found at i:14660856 original size:14 final size:15
Alignment explanation
Indices: 14660834--14660867 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
14660824 CATATTTCTC
14660834 TCATCTTTTTT-TTT
1 TCATCTTTTTTCTTT
*
14660848 TCATTTTTTTTCTTT
1 TCATCTTTTTTCTTT
14660863 TCATC
1 TCATC
14660868 AATCAGTGAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.09, C:0.18, G:0.00, T:0.74
Consensus pattern (15 bp):
TCATCTTTTTTCTTT
Found at i:14661157 original size:20 final size:19
Alignment explanation
Indices: 14661132--14661199 Score: 70
Period size: 20 Copynumber: 3.5 Consensus size: 19
14661122 CCTTCATAAA
*
14661132 CTTTTTTTTTCTCATTTTTT
1 CTTTTTTTTTAT-ATTTTTT
14661152 CTTTTTTCTTTATATTTTTT
1 CTTTTTT-TTTATATTTTTT
14661172 CTTTTTTTGTT-T-TTGTTTT
1 CTTTTTTT-TTATATT-TTTT
14661191 -TTTTTTTTT
1 CTTTTTTTTT
14661200 TTTTTTTTGC
Statistics
Matches: 44, Mismatches: 1, Indels: 9
0.81 0.02 0.17
Matches are distributed among these distances:
17 2 0.05
18 9 0.20
19 6 0.14
20 23 0.52
21 4 0.09
ACGTcount: A:0.04, C:0.09, G:0.03, T:0.84
Consensus pattern (19 bp):
CTTTTTTTTTATATTTTTT
Found at i:14661205 original size:20 final size:20
Alignment explanation
Indices: 14661145--14661204 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
14661135 TTTTTTTCTC
* *
14661145 ATTTTTTCTTTTTTCTTTAT
1 ATTTTTTTTTTTTTCTTTTT
*
14661165 ATTTTTTCTTTTTTTGTTTTT
1 ATTTTTT-TTTTTTTCTTTTT
*
14661186 GTTTTTTTTTTTTT-TTTTT
1 ATTTTTTTTTTTTTCTTTTT
14661205 TTTGCACTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 5 0.14
20 14 0.40
21 16 0.46
ACGTcount: A:0.05, C:0.05, G:0.03, T:0.87
Consensus pattern (20 bp):
ATTTTTTTTTTTTTCTTTTT
Found at i:14661215 original size:22 final size:24
Alignment explanation
Indices: 14661166--14661215 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 24
14661156 TTTCTTTATA
*
14661166 TTTTTTCTTTTTTTGTTTTTG--T
1 TTTTTTCTTTTTTTGTTTTTGCAC
* *
14661188 TTTTTTTTTTTTTTTTTTTTGCAC
1 TTTTTTCTTTTTTTGTTTTTGCAC
14661212 TTTT
1 TTTT
14661216 CATCAATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 19 0.83
24 4 0.17
ACGTcount: A:0.02, C:0.06, G:0.06, T:0.86
Consensus pattern (24 bp):
TTTTTTCTTTTTTTGTTTTTGCAC
Found at i:14661226 original size:1 final size:1
Alignment explanation
Indices: 14661146--14661207 Score: 61
Period size: 1 Copynumber: 62.0 Consensus size: 1
14661136 TTTTTTCTCA
* * * * * * *
14661146 TTTTTTCTTTTTTCTTTATATTTTTTCTTTTTTTGTTTTTGTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14661208 GCACTTTTCA
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.03, C:0.05, G:0.03, T:0.89
Consensus pattern (1 bp):
T
Found at i:14661605 original size:22 final size:22
Alignment explanation
Indices: 14661580--14661625 Score: 83
Period size: 22 Copynumber: 2.1 Consensus size: 22
14661570 ATCCTAACAG
14661580 ATTGAGAATCTCCAAATCATCA
1 ATTGAGAATCTCCAAATCATCA
*
14661602 ATTGAGAATCTTCAAATCATCA
1 ATTGAGAATCTCCAAATCATCA
14661624 AT
1 AT
14661626 ATCACCATGA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.41, C:0.20, G:0.09, T:0.30
Consensus pattern (22 bp):
ATTGAGAATCTCCAAATCATCA
Found at i:14663394 original size:19 final size:19
Alignment explanation
Indices: 14663364--14663415 Score: 86
Period size: 19 Copynumber: 2.7 Consensus size: 19
14663354 TTGGGTAGCG
14663364 GAGAATGTCATGAACCTAAA
1 GAGAA-GTCATGAACCTAAA
14663384 GAGAAGTCATGAACCTAAA
1 GAGAAGTCATGAACCTAAA
*
14663403 GAGAAGTCTTGAA
1 GAGAAGTCATGAA
14663416 TCTCACATCG
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
19 26 0.84
20 5 0.16
ACGTcount: A:0.44, C:0.13, G:0.23, T:0.19
Consensus pattern (19 bp):
GAGAAGTCATGAACCTAAA
Found at i:14664271 original size:13 final size:13
Alignment explanation
Indices: 14664234--14664283 Score: 64
Period size: 13 Copynumber: 3.8 Consensus size: 13
14664224 CACTCCCTAA
**
14664234 TTTAGTTTTCCTC
1 TTTAGTTTTTTTC
*
14664247 TTTAGTTATTTTC
1 TTTAGTTTTTTTC
*
14664260 TTTAGTTTTTTTT
1 TTTAGTTTTTTTC
14664273 TTTAGTTTTTT
1 TTTAGTTTTTT
14664284 ATAGTTCTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 32 1.00
ACGTcount: A:0.10, C:0.08, G:0.08, T:0.74
Consensus pattern (13 bp):
TTTAGTTTTTTTC
Found at i:14666426 original size:11 final size:13
Alignment explanation
Indices: 14666410--14666441 Score: 50
Period size: 11 Copynumber: 2.6 Consensus size: 13
14666400 ATGAAAAAAT
14666410 AAAATAAAT-A-C
1 AAAATAAATAAGC
14666421 AAAATAAATAAGC
1 AAAATAAATAAGC
14666434 AAAATAAA
1 AAAATAAA
14666442 AACCATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 9 0.47
12 1 0.05
13 9 0.47
ACGTcount: A:0.75, C:0.06, G:0.03, T:0.16
Consensus pattern (13 bp):
AAAATAAATAAGC
Found at i:14667074 original size:12 final size:12
Alignment explanation
Indices: 14667057--14667131 Score: 68
Period size: 12 Copynumber: 6.2 Consensus size: 12
14667047 ACATTATAAT
14667057 AAAAATATCATA
1 AAAAATATCATA
14667069 AAAAATATCATGTA
1 AAAAATATCA--TA
14667083 AAAAAT-TCAT-
1 AAAAATATCATA
14667093 -AAAATATCATA
1 AAAAATATCATA
*
14667104 ATAAA-ATCATGCA
1 AAAAATATCAT--A
14667117 AAAAATCATCATA
1 AAAAAT-ATCATA
14667130 AA
1 AA
14667132 TATCATGCAA
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
9 5 0.10
10 4 0.08
11 6 0.12
12 13 0.25
13 11 0.21
14 8 0.15
15 5 0.10
ACGTcount: A:0.61, C:0.11, G:0.03, T:0.25
Consensus pattern (12 bp):
AAAAATATCATA
Found at i:14667097 original size:35 final size:35
Alignment explanation
Indices: 14667058--14667147 Score: 112
Period size: 35 Copynumber: 2.5 Consensus size: 35
14667048 CATTATAATA
*
14667058 AAAATATCATAAAAAATATCATGTAAAAAATTCAT-
1 AAAATATCATAAAAAATATCATGCAAAAAA-TCATC
*
14667093 AAAATATCATAATAAA-ATCATGCAAAAAATCATC
1 AAAATATCATAAAAAATATCATGCAAAAAATCATC
*
14667127 ATAAATATCATGCAAAAATAT
1 A-AAATATCAT-AAAAAATAT
14667148 AAAAATTGAA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
33 4 0.09
34 13 0.28
35 24 0.51
36 4 0.09
37 2 0.04
ACGTcount: A:0.59, C:0.11, G:0.03, T:0.27
Consensus pattern (35 bp):
AAAATATCATAAAAAATATCATGCAAAAAATCATC
Found at i:14667109 original size:23 final size:25
Alignment explanation
Indices: 14667052--14667130 Score: 69
Period size: 25 Copynumber: 3.2 Consensus size: 25
14667042 TTGAAACATT
14667052 ATAATAAAAATATCATAAAAAATATC
1 ATAATAAAAATATCAT-AAAAATATC
*
14667078 AT-GTAAAAA-ATTCAT-AAAATATC
1 ATAATAAAAATA-TCATAAAAATATC
14667101 ATAAT-AAAATCATGCA-AAAAATCATC
1 ATAATAAAAAT-AT-CATAAAAAT-ATC
14667127 ATAA
1 ATAA
14667131 ATATCATGCA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
23 14 0.32
24 3 0.07
25 18 0.41
26 9 0.20
ACGTcount: A:0.61, C:0.10, G:0.03, T:0.27
Consensus pattern (25 bp):
ATAATAAAAATATCATAAAAATATC
Found at i:14667120 original size:24 final size:25
Alignment explanation
Indices: 14667093--14667147 Score: 87
Period size: 24 Copynumber: 2.3 Consensus size: 25
14667083 AAAAATTCAT
14667093 AAAATATCATAATAAA-ATCATGCA
1 AAAATATCATAATAAATATCATGCA
*
14667117 AAAA-ATCATCATAAATATCATGCA
1 AAAATATCATAATAAATATCATGCA
14667141 AAAATAT
1 AAAATAT
14667148 AAAAATTGAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
23 10 0.36
24 16 0.57
25 2 0.07
ACGTcount: A:0.58, C:0.13, G:0.04, T:0.25
Consensus pattern (25 bp):
AAAATATCATAATAAATATCATGCA
Found at i:14667131 original size:23 final size:24
Alignment explanation
Indices: 14667093--14667144 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
14667083 AAAAATTCAT
*
14667093 AAAATATCATAATAAA-ATCATGC
1 AAAAAATCATAATAAATATCATGC
*
14667116 AAAAAATCATCATAAATATCATGC
1 AAAAAATCATAATAAATATCATGC
14667140 AAAAA
1 AAAAA
14667145 TATAAAAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.60, C:0.13, G:0.04, T:0.23
Consensus pattern (24 bp):
AAAAAATCATAATAAATATCATGC
Found at i:14668325 original size:38 final size:38
Alignment explanation
Indices: 14668252--14668325 Score: 89
Period size: 38 Copynumber: 1.9 Consensus size: 38
14668242 TATTTTTTAA
* *
14668252 TATTTAAATGTGATTTGATTTAATATTATATAAATACG
1 TATTTAAATGTGATTTGATTTAAAATAATATAAATACG
*
14668290 TATTT-AATTTGATTTGATTTATAAAATAATA-AAATA
1 TATTTAAATGTGATTTGA-TT-TAAAATAATATAAATA
14668326 TTATTTTTTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
37 11 0.35
38 12 0.39
39 8 0.26
ACGTcount: A:0.43, C:0.01, G:0.08, T:0.47
Consensus pattern (38 bp):
TATTTAAATGTGATTTGATTTAAAATAATATAAATACG
Found at i:14669595 original size:70 final size:72
Alignment explanation
Indices: 14669479--14669615 Score: 197
Period size: 71 Copynumber: 1.9 Consensus size: 72
14669469 TCATAGTTTG
* *
14669479 AATAATTATATGTGAATAAAAAACATTTGTTTAAAATAGTTATATAA-CAAAAGAGTTACAACTA
1 AATAATTATATGTGAATAAAAAACATTTGTTTAAAATAATTATATAATAAAAAGAGTTACAACTA
14669543 TTAAATA
66 TTAAATA
* * * * *
14669550 AATAATTATATTTGAAT-AGAAATATTTGTTTATAATAATTATATAATAAAAAGAGTTATAACTA
1 AATAATTATATGTGAATAAAAAACATTTGTTTAAAATAATTATATAATAAAAAGAGTTACAACTA
14669614 TT
66 TT
14669616 TAAACAAAAT
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
70 25 0.43
71 33 0.57
ACGTcount: A:0.50, C:0.04, G:0.08, T:0.38
Consensus pattern (72 bp):
AATAATTATATGTGAATAAAAAACATTTGTTTAAAATAATTATATAATAAAAAGAGTTACAACTA
TTAAATA
Found at i:14670486 original size:1 final size:1
Alignment explanation
Indices: 14670480--14670504 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
14670470 CAAAGATTAG
14670480 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
14670505 GATAAGATTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:14673953 original size:17 final size:17
Alignment explanation
Indices: 14673931--14673963 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
14673921 ACTGCTTCCT
14673931 AAATCTCTTTGGTTGTG
1 AAATCTCTTTGGTTGTG
14673948 AAATCTCTTTGGTTGT
1 AAATCTCTTTGGTTGT
14673964 AAACTCTGAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.18, C:0.12, G:0.21, T:0.48
Consensus pattern (17 bp):
AAATCTCTTTGGTTGTG
Found at i:14681391 original size:34 final size:34
Alignment explanation
Indices: 14681353--14681423 Score: 83
Period size: 34 Copynumber: 2.1 Consensus size: 34
14681343 TTCATTTCCC
*
14681353 AAAAAAACAGTTA-TTTACCAAAAATT-AATTTAAA
1 AAAAAAACAG-AAGTTT-CCAAAAATTCAATTTAAA
* *
14681387 AAAAAAATAGAAGTTTCCAAAAATTCAATTTTAA
1 AAAAAAACAGAAGTTTCCAAAAATTCAATTTAAA
14681421 AAA
1 AAA
14681424 TTTTTTTAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
33 10 0.31
34 22 0.69
ACGTcount: A:0.59, C:0.08, G:0.04, T:0.28
Consensus pattern (34 bp):
AAAAAAACAGAAGTTTCCAAAAATTCAATTTAAA
Found at i:14684830 original size:30 final size:28
Alignment explanation
Indices: 14684796--14684862 Score: 107
Period size: 30 Copynumber: 2.3 Consensus size: 28
14684786 TAATATATTG
*
14684796 ATTCTTATAATTGATCTATTAATTCTTATA
1 ATTCTTATAATTGATATATTAATT-TT-TA
14684826 ATTCTTATAATTGATATATTAATTTTTA
1 ATTCTTATAATTGATATATTAATTTTTA
14684854 ATTCTTATA
1 ATTCTTATA
14684863 TCTTTAATCC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
28 11 0.31
29 2 0.06
30 23 0.64
ACGTcount: A:0.34, C:0.07, G:0.03, T:0.55
Consensus pattern (28 bp):
ATTCTTATAATTGATATATTAATTTTTA
Found at i:14684863 original size:21 final size:21
Alignment explanation
Indices: 14684765--14684863 Score: 57
Period size: 21 Copynumber: 4.9 Consensus size: 21
14684755 TAATTGATAA
*
14684765 AATTTTTAATTCTTATATCTTT
1 AATTTTTAATTCTTATAT-ATT
* *
14684787 AATATATTGATTCTTATA-ATT
1 AAT-TTTTAATTCTTATATATT
* *
14684808 GATCTATTAATTCTTATA-ATT
1 AAT-TTTTAATTCTTATATATT
* * *
14684829 --CTTATAA-T-TGATATATT
1 AATTTTTAATTCTTATATATT
14684846 AATTTTTAATTCTTATAT
1 AATTTTTAATTCTTATAT
14684864 CTTTAATCCC
Statistics
Matches: 58, Mismatches: 13, Indels: 13
0.69 0.15 0.15
Matches are distributed among these distances:
16 4 0.07
17 4 0.07
18 4 0.07
19 5 0.09
20 1 0.02
21 25 0.43
22 3 0.05
23 12 0.21
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (21 bp):
AATTTTTAATTCTTATATATT
Found at i:14686010 original size:14 final size:14
Alignment explanation
Indices: 14685991--14686017 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
14685981 ATATCTAATG
14685991 AAAATTTGAAAATA
1 AAAATTTGAAAATA
14686005 AAAATTTGAAAAT
1 AAAATTTGAAAAT
14686018 TTTTTAAAAT
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:0.63, C:0.00, G:0.07, T:0.30
Consensus pattern (14 bp):
AAAATTTGAAAATA
Found at i:14686311 original size:18 final size:19
Alignment explanation
Indices: 14686290--14686325 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
14686280 AATATCGAAA
14686290 ATTCAAAG-AAAAATCATC
1 ATTCAAAGCAAAAATCATC
14686308 ATTCAAAGCAAAAATCAT
1 ATTCAAAGCAAAAATCAT
14686326 AAAAAATTCA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.56, C:0.17, G:0.06, T:0.22
Consensus pattern (19 bp):
ATTCAAAGCAAAAATCATC
Found at i:14686738 original size:30 final size:30
Alignment explanation
Indices: 14686694--14686757 Score: 74
Period size: 30 Copynumber: 2.1 Consensus size: 30
14686684 CAAGTCAAAA
* *
14686694 ATTGGAGTTGAGCTGAATGAAAAGCCAAGG
1 ATTGAAGTTAAGCTGAATGAAAAGCCAAGG
* * * *
14686724 ATTGAAGTTAAGCTGACTGACAAGCGAATG
1 ATTGAAGTTAAGCTGAATGAAAAGCCAAGG
14686754 ATTG
1 ATTG
14686758 GAGCTGAGTC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.36, C:0.11, G:0.30, T:0.23
Consensus pattern (30 bp):
ATTGAAGTTAAGCTGAATGAAAAGCCAAGG
Found at i:14690894 original size:10 final size:11
Alignment explanation
Indices: 14690864--14690889 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14690854 ACCCAAAGAG
14690864 TTTTTTATTTC
1 TTTTTTATTTC
14690875 TTTTTTATTTC
1 TTTTTTATTTC
14690886 TTTT
1 TTTT
14690890 CATTTTTCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.08, C:0.08, G:0.00, T:0.85
Consensus pattern (11 bp):
TTTTTTATTTC
Found at i:14693724 original size:3 final size:3
Alignment explanation
Indices: 14693716--14693772 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
14693706 TCTCTTATCA
14693716 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
14693763 ATT ATT ATT A
1 ATT ATT ATT A
14693773 GAGAAAACAT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:14694374 original size:2 final size:2
Alignment explanation
Indices: 14694367--14694399 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
14694357 GTTCTAAGGT
14694367 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 T
14694400 GGTGTTTTCT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:14695716 original size:16 final size:16
Alignment explanation
Indices: 14695692--14695726 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
14695682 ACAATAATCA
* *
14695692 TATATATTTAAATTTT
1 TATAAATTTAAATATT
14695708 TATAAATTTAAATATT
1 TATAAATTTAAATATT
14695724 TAT
1 TAT
14695727 TTTCAATTAA
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:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (16 bp):
TATAAATTTAAATATT
Found at i:14696519 original size:20 final size:20
Alignment explanation
Indices: 14696496--14696541 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
14696486 AAAAGACGTT
14696496 GTTTTTAAGATAAAAACATA
1 GTTTTTAAGATAAAAACATA
**
14696516 GTTTTTGTGATAAAAACATA
1 GTTTTTAAGATAAAAACATA
14696536 GTTTTT
1 GTTTTT
14696542 GTTAAAACAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.04, G:0.13, T:0.43
Consensus pattern (20 bp):
GTTTTTAAGATAAAAACATA
Found at i:14696542 original size:20 final size:20
Alignment explanation
Indices: 14696504--14696543 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14696494 TTGTTTTTAA
14696504 GATAAAAACATAGTTTTTGT
1 GATAAAAACATAGTTTTTGT
14696524 GATAAAAACATAGTTTTTGT
1 GATAAAAACATAGTTTTTGT
14696544 TAAAACATGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.05, G:0.15, T:0.40
Consensus pattern (20 bp):
GATAAAAACATAGTTTTTGT
Found at i:14698770 original size:86 final size:86
Alignment explanation
Indices: 14698633--14698793 Score: 252
Period size: 86 Copynumber: 1.9 Consensus size: 86
14698623 CTTTTATTTA
* * *
14698633 TTTTTTTGTCTCAGAATTAGATCTGAAGCTGCAACAATACCATTGTGGGTCTTGCCTTTT-TAAA
1 TTTTTTTGTCTCACAATTAGATCTGAAGCTGCAACAATACCATTGTAGGTCTAG-CTTTTCTAAA
*
14698697 AGTATGGTAAATTCTTTTAACC
65 AATATGGTAAATTCTTTTAACC
* *
14698719 TTTTTTTGTCTCACAATTAGATCTGAAGCTGCAACAATACTATTGTAGGTCTAGTTTTTCTAAAA
1 TTTTTTTGTCTCACAATTAGATCTGAAGCTGCAACAATACCATTGTAGGTCTAGCTTTTCTAAAA
14698784 ATATGGTAAA
66 ATATGGTAAA
14698794 CATTAAAAGG
Statistics
Matches: 68, Mismatches: 6, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
85 4 0.06
86 64 0.94
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (86 bp):
TTTTTTTGTCTCACAATTAGATCTGAAGCTGCAACAATACCATTGTAGGTCTAGCTTTTCTAAAA
ATATGGTAAATTCTTTTAACC
Found at i:14702073 original size:11 final size:11
Alignment explanation
Indices: 14702057--14702082 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
14702047 ATAATAAATA
14702057 ATTTAGGGCAT
1 ATTTAGGGCAT
14702068 ATTTAGGGCAT
1 ATTTAGGGCAT
14702079 ATTT
1 ATTT
14702083 TTTGAATCCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.27, C:0.08, G:0.23, T:0.42
Consensus pattern (11 bp):
ATTTAGGGCAT
Found at i:14711584 original size:3 final size:3
Alignment explanation
Indices: 14711576--14711618 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
14711566 GATTGGTTTA
14711576 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14711619 TTTTCAACCT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14712897 original size:14 final size:14
Alignment explanation
Indices: 14712874--14712904 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
14712864 TTTCCTTTTT
*
14712874 AAATATATTTTATA
1 AAATACATTTTATA
14712888 AAATACATTTTATA
1 AAATACATTTTATA
14712902 AAA
1 AAA
14712905 AATATAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (14 bp):
AAATACATTTTATA
Found at i:14714053 original size:22 final size:22
Alignment explanation
Indices: 14714025--14714068 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
14714015 ATATAAAATT
14714025 TTTGTATATATATTTTTAAAAA
1 TTTGTATATATATTTTTAAAAA
*
14714047 TTTGTATATTTATTTTTAAAAA
1 TTTGTATATATATTTTTAAAAA
14714069 ATTAAAAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.05, T:0.57
Consensus pattern (22 bp):
TTTGTATATATATTTTTAAAAA
Found at i:14714079 original size:22 final size:22
Alignment explanation
Indices: 14714035--14714086 Score: 59
Period size: 22 Copynumber: 2.3 Consensus size: 22
14714025 TTTGTATATA
* ** *
14714035 TATTTTTAAAAATTTGTATATT
1 TATTTTTAAAAAATTAAAAATT
14714057 TATTTTTAAAAAATTAAAAATT
1 TATTTTTAAAAAATTAAAAATT
14714079 TATGTTTT
1 TAT-TTTT
14714087 TCATTAATGA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
22 21 0.84
23 4 0.16
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (22 bp):
TATTTTTAAAAAATTAAAAATT
Found at i:14714147 original size:24 final size:24
Alignment explanation
Indices: 14714120--14714165 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
14714110 TATTAATTGC
* *
14714120 TAATGTATAAAATTTATATATTAA
1 TAATGTATAAAATATAAATATTAA
*
14714144 TAATGTATTAAATATAAATATT
1 TAATGTATAAAATATAAATATT
14714166 TTTTAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.50, C:0.00, G:0.04, T:0.46
Consensus pattern (24 bp):
TAATGTATAAAATATAAATATTAA
Found at i:14715870 original size:41 final size:41
Alignment explanation
Indices: 14715807--14715885 Score: 124
Period size: 41 Copynumber: 1.9 Consensus size: 41
14715797 CTATTAAGTG
14715807 TAAATTTGATCGATCTAGCTTGTACCAATTTAATTCATCCT
1 TAAATTTGATCGATCTAGCTTGTACCAATTTAATTCATCCT
* *
14715848 TAAATTTGATTGATCTTA-CTTGTACCAATTTGATTCAT
1 TAAATTTGATCGATC-TAGCTTGTACCAATTTAATTCAT
14715886 ACTTGCTGAT
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 33 0.94
42 2 0.06
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.44
Consensus pattern (41 bp):
TAAATTTGATCGATCTAGCTTGTACCAATTTAATTCATCCT
Found at i:14717266 original size:14 final size:14
Alignment explanation
Indices: 14717247--14717281 Score: 70
Period size: 14 Copynumber: 2.5 Consensus size: 14
14717237 ATGAGGTGAT
14717247 GCAGAGCTTAAAAG
1 GCAGAGCTTAAAAG
14717261 GCAGAGCTTAAAAG
1 GCAGAGCTTAAAAG
14717275 GCAGAGC
1 GCAGAGC
14717282 CAATCCATAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.40, C:0.17, G:0.31, T:0.11
Consensus pattern (14 bp):
GCAGAGCTTAAAAG
Found at i:14722338 original size:6 final size:6
Alignment explanation
Indices: 14722308--14722359 Score: 52
Period size: 6 Copynumber: 8.3 Consensus size: 6
14722298 GATGCTTTTA
* *
14722308 TTATTA TTATTA TTATTAT TTATTT TTATTT TTCA-TT TTATTTT TTATTT
1 TTATTT TTATTT TTATT-T TTATTT TTATTT TT-ATTT TTA-TTT TTATTT
14722358 TT
1 TT
14722360 TCTTTGATGT
Statistics
Matches: 41, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
5 1 0.02
6 29 0.71
7 11 0.27
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (6 bp):
TTATTT
Found at i:14722372 original size:19 final size:20
Alignment explanation
Indices: 14722331--14722379 Score: 59
Period size: 19 Copynumber: 2.6 Consensus size: 20
14722321 TATTATTTAT
* *
14722331 TTTTA-TTTTTCATTTTATT
1 TTTTATTTTTTCATTTGATG
14722350 TTTTATTTTTTC-TTTGATG
1 TTTTATTTTTTCATTTGATG
14722369 TTTT-TTTTTTC
1 TTTTATTTTTTC
14722380 GATTCAACCT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 7 0.26
19 14 0.52
20 6 0.22
ACGTcount: A:0.10, C:0.06, G:0.04, T:0.80
Consensus pattern (20 bp):
TTTTATTTTTTCATTTGATG
Found at i:14722833 original size:19 final size:19
Alignment explanation
Indices: 14722811--14722853 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
14722801 TTTTTGGATT
**
14722811 TTTTTGGGTTTAAGATGAA
1 TTTTTGGGTGAAAGATGAA
*
14722830 TTTTTTGGTGAAAGATGAA
1 TTTTTGGGTGAAAGATGAA
14722849 TTTTT
1 TTTTT
14722854 CGATTGAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (19 bp):
TTTTTGGGTGAAAGATGAA
Found at i:14724245 original size:18 final size:19
Alignment explanation
Indices: 14724210--14724250 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
14724200 CAAGTTTTCT
*
14724210 TTTTTTCATTTTATTTTTA
1 TTTTTTCATTTTAGTTTTA
*
14724229 TTTTTTGATTTT-GTTTTA
1 TTTTTTCATTTTAGTTTTA
14724247 TTTT
1 TTTT
14724251 ATTTTATTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 9 0.45
19 11 0.55
ACGTcount: A:0.12, C:0.02, G:0.05, T:0.80
Consensus pattern (19 bp):
TTTTTTCATTTTAGTTTTA
Found at i:14724268 original size:28 final size:27
Alignment explanation
Indices: 14724208--14724289 Score: 78
Period size: 28 Copynumber: 2.9 Consensus size: 27
14724198 TGCAAGTTTT
* *
14724208 CTTTTTTTCATTTTATTTTTATTTTTTGA
1 CTTTTTTTTATTTTA-TTTTA-TTTTTAA
14724237 -TTTTGTTTTATTTTATTTTATTTTTAA
1 CTTTT-TTTTATTTTATTTTATTTTTAA
*
14724264 CTTTTTTTTGTTATT-TTGTTATTTTT
1 CTTTTTTTTATT-TTATT-TTATTTTT
14724290 TTTTTTAAAA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
27 14 0.30
28 23 0.50
29 9 0.20
ACGTcount: A:0.13, C:0.04, G:0.05, T:0.78
Consensus pattern (27 bp):
CTTTTTTTTATTTTATTTTATTTTTAA
Found at i:14724288 original size:20 final size:19
Alignment explanation
Indices: 14724209--14724294 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 19
14724199 GCAAGTTTTC
* *
14724209 TTTTTTTCATTTTATT-TT
1 TTTTTTTTATTTTGTTATT
*
14724227 TATTTTTTGATTTTGTT-TT
1 T-TTTTTTTATTTTGTTATT
*
14724246 ATTTTATTTTATTTT-TAACTT
1 -TTTT-TTTTATTTTGTTA-TT
14724267 TTTTTTGTTATTTTGTTATT
1 TTTTTT-TTATTTTGTTATT
14724287 TTTTTTTT
1 TTTTTTTT
14724295 TAAAAAGGGA
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
18 1 0.02
19 23 0.41
20 28 0.50
21 4 0.07
ACGTcount: A:0.13, C:0.02, G:0.05, T:0.80
Consensus pattern (19 bp):
TTTTTTTTATTTTGTTATT
Found at i:14735362 original size:63 final size:63
Alignment explanation
Indices: 14735286--14735414 Score: 170
Period size: 63 Copynumber: 2.0 Consensus size: 63
14735276 CATTTTTTAT
* * * * * **
14735286 TTTTATTCTGATCATTTATTTTCAATCTTGACTCGAT-CTCGGTCTTTTTATTTTGACTTATGG
1 TTTTATCCCGATCATTTATTTTCAACCTCGACTCGATCCT-GATCACTTTATTTTGACTTATGG
*
14735349 TTTTATCCCGATCATTTATTTTCGACCTCGACTCGATCCTGATCACTTTATTTTGACTTATGG
1 TTTTATCCCGATCATTTATTTTCAACCTCGACTCGATCCTGATCACTTTATTTTGACTTATGG
14735412 TTT
1 TTT
14735415 CATCTTGATC
Statistics
Matches: 57, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
63 55 0.96
64 2 0.04
ACGTcount: A:0.18, C:0.19, G:0.12, T:0.50
Consensus pattern (63 bp):
TTTTATCCCGATCATTTATTTTCAACCTCGACTCGATCCTGATCACTTTATTTTGACTTATGG
Found at i:14735424 original size:32 final size:32
Alignment explanation
Indices: 14735332--14735428 Score: 92
Period size: 32 Copynumber: 3.1 Consensus size: 32
14735322 TCTCGGTCTT
* *
14735332 TTTATTTTGACTTATGGTTTTATCCCGATCA-
1 TTTATTTTGACTTATGGTTTCATCCTGATCAC
* * **
14735363 TTTATTTTCGAC--CTCGACTCGATCCTGATCAC
1 TTTATTTT-GACTTATGGTTTC-ATCCTGATCAC
*
14735395 TTTATTTTGACTTATGGTTTCATCTTGATCAC
1 TTTATTTTGACTTATGGTTTCATCCTGATCAC
14735427 TT
1 TT
14735429 GATCTTGGCT
Statistics
Matches: 50, Mismatches: 11, Indels: 9
0.71 0.16 0.13
Matches are distributed among these distances:
30 3 0.06
31 20 0.40
32 23 0.46
33 4 0.08
ACGTcount: A:0.19, C:0.21, G:0.12, T:0.48
Consensus pattern (32 bp):
TTTATTTTGACTTATGGTTTCATCCTGATCAC
Found at i:14735476 original size:108 final size:107
Alignment explanation
Indices: 14735350--14735603 Score: 318
Period size: 108 Copynumber: 2.3 Consensus size: 107
14735340 GACTTATGGT
14735350 TTTATCCCGATCATTTATTTTCGACCTCGACTCGATCCT-GATCACTTTATTTTGACTTATGGTT
1 TTTATCCCGATCATTTATTTT-GACCTCGACTCGATCCTAG-TCACTTTATTTTGACTTATGGTT
14735414 TCA-TCTTGATCACTTGATCTTGGCTCAGTCCAAATCATTCGT-G
64 TCATTC-TGATCACTTGATCTTGGCTCAGTCCAAATCATTCGTGG
* ** *
14735457 TTCTATCCCGATCATTTATTTTTTACCTCGACTC-AGTCCTAGTCGTTTTATTTTGACTTGTGGT
1 TT-TATCCCGATCATTTA-TTTTGACCTCGACTCGA-TCCTAGTCACTTTATTTTGACTTATGGT
* *
14735521 TTCATTCTGCTCACTTGATCTTGGCTCAGTCCAGATCATTCGTGG
63 TTCATTCTGATCACTTGATCTTGGCTCAGTCCAAATCATTCGTGG
* * * *
14735566 TTTCGTCTCGATCATCTACTTTTGACTTCGACTCGATC
1 TTT-ATCCCGATCATTTA-TTTTGACCTCGACTCGATC
14735604 TTGGTTGCTA
Statistics
Matches: 127, Mismatches: 12, Indels: 14
0.83 0.08 0.09
Matches are distributed among these distances:
107 3 0.02
108 87 0.69
109 36 0.28
110 1 0.01
ACGTcount: A:0.17, C:0.25, G:0.15, T:0.43
Consensus pattern (107 bp):
TTTATCCCGATCATTTATTTTGACCTCGACTCGATCCTAGTCACTTTATTTTGACTTATGGTTTC
ATTCTGATCACTTGATCTTGGCTCAGTCCAAATCATTCGTGG
Found at i:14735924 original size:14 final size:14
Alignment explanation
Indices: 14735890--14735920 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
14735880 AATTAGATGC
14735890 TTTTATTATTATTA
1 TTTTATTATTATTA
14735904 TTTTATTATT-TTA
1 TTTTATTATTATTA
14735917 TTTT
1 TTTT
14735921 TATTTTTCGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.41
14 10 0.59
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (14 bp):
TTTTATTATTATTA
Found at i:14736781 original size:18 final size:18
Alignment explanation
Indices: 14736755--14736799 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 18
14736745 GATGGTAGGT
*
14736755 TTTTCTTTTTTCATTTCA
1 TTTTATTTTTTCATTTCA
* **
14736773 TTTTATTTTTTGATTTTG
1 TTTTATTTTTTCATTTCA
14736791 TTTTATTTT
1 TTTTATTTT
14736800 ATTTTATTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.11, C:0.07, G:0.04, T:0.78
Consensus pattern (18 bp):
TTTTATTTTTTCATTTCA
Found at i:14741840 original size:16 final size:17
Alignment explanation
Indices: 14741808--14741841 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14741798 AAATTAAAAT
14741808 TATTTTATAACAAATAA
1 TATTTTATAACAAATAA
*
14741825 TATTTT-TAATAAATAA
1 TATTTTATAACAAATAA
14741841 T
1 T
14741842 TAAAAATTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (17 bp):
TATTTTATAACAAATAA
Done.