Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167915.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_18, 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: 20765110
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 90000 characters in sequence are not A, C, G, or T
File 76 of 117
Found at i:15866478 original size:21 final size:21
Alignment explanation
Indices: 15866461--15866510 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
15866451 ATATTAAATT
15866461 TTAATATAATAATTTTAATATA
1 TTAA-ATAATAATTTTAATATA
* *
15866483 TTAAATTATAATTTATATTA-A
1 TTAAATAATAATTT-TAATATA
15866504 TTAAATA
1 TTAAATA
15866511 GAATTGTATA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
TTAAATAATAATTTTAATATA
Found at i:15866494 original size:15 final size:15
Alignment explanation
Indices: 15866449--15866494 Score: 67
Period size: 15 Copynumber: 3.1 Consensus size: 15
15866439 ATTATTCTTT
15866449 ATATATTAAATTTTA
1 ATATATTAAATTTTA
*
15866464 ATATAAT-AATTTTA
1 ATATATTAAATTTTA
*
15866478 ATATATTAAATTATA
1 ATATATTAAATTTTA
15866493 AT
1 AT
15866495 TTATATTAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
14 13 0.48
15 14 0.52
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
ATATATTAAATTTTA
Found at i:15866669 original size:21 final size:21
Alignment explanation
Indices: 15866643--15866707 Score: 67
Period size: 21 Copynumber: 2.9 Consensus size: 21
15866633 AAATGAGAAA
15866643 TTATATTTATTATAAATAAAT
1 TTATATTTATTATAAATAAAT
* *
15866664 TTATATTTATTAATAATTTAAT
1 TTATATTTATT-ATAAATAAAT
*
15866686 TTAATTATTAATTATATAATAA
1 TT-A-TATTTATTATA-AATAA
15866708 GTAAATTAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
21 11 0.31
22 10 0.29
23 4 0.11
24 10 0.29
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
TTATATTTATTATAAATAAAT
Found at i:15866681 original size:17 final size:18
Alignment explanation
Indices: 15866661--15866702 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
15866651 ATTATAAATA
15866661 AATTTATATTT-ATTAAT
1 AATTTATATTTAATTAAT
*
15866678 AATTTA-ATTTAATTATT
1 AATTTATATTTAATTAAT
15866695 AA-TTATAT
1 AATTTATAT
15866703 AATAAGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
16 7 0.32
17 15 0.68
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (18 bp):
AATTTATATTTAATTAAT
Found at i:15867050 original size:25 final size:24
Alignment explanation
Indices: 15867020--15867071 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
15867010 CTTAATATAT
15867020 AATATTAATGTG-TAAAAATTTATTA
1 AATATTAATG-GATAAAAATTT-TTA
* *
15867045 AATATTTATGGATAAATATTTTTA
1 AATATTAATGGATAAAAATTTTTA
15867069 AAT
1 AAT
15867072 TATTTATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 7 0.29
25 17 0.71
ACGTcount: A:0.46, C:0.00, G:0.08, T:0.46
Consensus pattern (24 bp):
AATATTAATGGATAAAAATTTTTA
Found at i:15867534 original size:17 final size:17
Alignment explanation
Indices: 15867512--15867551 Score: 62
Period size: 17 Copynumber: 2.3 Consensus size: 17
15867502 ATCAATATTG
15867512 TTTAATATTGATACTAA
1 TTTAATATTGATACTAA
*
15867529 TTTAATATTGATATTAA
1 TTTAATATTGATACTAA
15867546 TATTAA
1 T-TTAA
15867552 GCTTTTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
17 17 0.81
18 4 0.19
ACGTcount: A:0.42, C:0.03, G:0.05, T:0.50
Consensus pattern (17 bp):
TTTAATATTGATACTAA
Found at i:15867710 original size:11 final size:12
Alignment explanation
Indices: 15867685--15867742 Score: 59
Period size: 11 Copynumber: 4.9 Consensus size: 12
15867675 AAATAAATTT
15867685 TAATACTTATAAC
1 TAATA-TTATAAC
*
15867698 TAAT-TTATTAC
1 TAATATTATAAC
15867709 TAATTATTATAAC
1 TAA-TATTATAAC
*
15867722 TAAT-TTTTAA-
1 TAATATTATAAC
15867732 TAATATTATAA
1 TAATATTATAA
15867743 ATGATTATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
10 4 0.11
11 19 0.50
12 2 0.05
13 13 0.34
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (12 bp):
TAATATTATAAC
Found at i:15867712 original size:24 final size:22
Alignment explanation
Indices: 15867685--15867742 Score: 80
Period size: 24 Copynumber: 2.5 Consensus size: 22
15867675 AAATAAATTT
*
15867685 TAATACTTATAACTAATTTATTAC
1 TAATA-TTATAACTAATTT-TTAA
15867709 TAATTATTATAACTAATTTTTAA
1 TAA-TATTATAACTAATTTTTAA
15867732 TAATATTATAA
1 TAATATTATAA
15867743 ATGATTATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
22 8 0.25
23 6 0.19
24 16 0.50
25 2 0.06
ACGTcount: A:0.45, C:0.07, G:0.00, T:0.48
Consensus pattern (22 bp):
TAATATTATAACTAATTTTTAA
Found at i:15867998 original size:21 final size:22
Alignment explanation
Indices: 15867958--15867998 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
15867948 GTAATAAGTA
* *
15867958 AAAATCATTTATATTAATTATT
1 AAAATCATTAATAATAATTATT
15867980 AAAAT-ATTAATAATAATTA
1 AAAATCATTAATAATAATTA
15867999 ATACTAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (22 bp):
AAAATCATTAATAATAATTATT
Found at i:15868035 original size:24 final size:23
Alignment explanation
Indices: 15867987--15868039 Score: 72
Period size: 24 Copynumber: 2.3 Consensus size: 23
15867977 ATTAAAATAT
*
15867987 TAATAATAATTAATACTAATTTA
1 TAATATTAATTAATACTAATTTA
15868010 TAATATTAATTGAATTA-TAATTTA
1 TAATATTAATT-AA-TACTAATTTA
15868034 TAATAT
1 TAATAT
15868040 AATAATGTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 10 0.37
24 15 0.56
25 2 0.07
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TAATATTAATTAATACTAATTTA
Found at i:15868166 original size:15 final size:16
Alignment explanation
Indices: 15868139--15868206 Score: 51
Period size: 14 Copynumber: 4.6 Consensus size: 16
15868129 AATTTATTTC
15868139 AATTAGTTATTATAAT
1 AATTAGTTATTATAAT
*
15868155 AATTAG-TATTATTAT
1 AATTAGTTATTATAAT
15868170 AACTTA-TTA--ACTAAT
1 AA-TTAGTTATTA-TAAT
*
15868185 AATTA-TTAATA-AAT
1 AATTAGTTATTATAAT
15868199 AATT-GTTA
1 AATTAGTTA
15868207 ATAGATTAAA
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
14 17 0.39
15 15 0.34
16 12 0.27
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (16 bp):
AATTAGTTATTATAAT
Found at i:15868306 original size:22 final size:22
Alignment explanation
Indices: 15868277--15868329 Score: 78
Period size: 20 Copynumber: 2.6 Consensus size: 22
15868267 AAATAGCAAT
15868277 TTAAAT-TAATAACAATTATT-
1 TTAAATATAATAACAATTATTA
15868297 TTAAATAT--TAACAATTATTA
1 TTAAATATAATAACAATTATTA
15868317 TTAAATATAATAA
1 TTAAATATAATAA
15868330 TTAAATTATT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
19 11 0.38
20 14 0.48
21 1 0.03
22 3 0.10
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (22 bp):
TTAAATATAATAACAATTATTA
Found at i:15868331 original size:19 final size:19
Alignment explanation
Indices: 15868285--15868332 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 19
15868275 ATTTAAATTA
15868285 ATAACAATTATT-TTAAAT
1 ATAACAATTATTATTAAAT
15868303 ATTAACAATTATTATTAAAT
1 A-TAACAATTATTATTAAAT
*
15868323 ATAATAATTA
1 ATAACAATTA
15868333 AATTATTATA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 1 0.04
19 19 0.70
20 7 0.26
ACGTcount: A:0.52, C:0.04, G:0.00, T:0.44
Consensus pattern (19 bp):
ATAACAATTATTATTAAAT
Found at i:15868482 original size:15 final size:15
Alignment explanation
Indices: 15868462--15868527 Score: 64
Period size: 15 Copynumber: 4.3 Consensus size: 15
15868452 CTTTATTAAC
15868462 AATATATAAATAATT
1 AATATATAAATAATT
*
15868477 AATATATTAAATATTAT
1 AATATA-TAAATAAT-T
*
15868494 AATAT-TATATAATT
1 AATATATAAATAATT
*
15868508 -ATAATATAAATTATT
1 AAT-ATATAAATAATT
15868523 AATAT
1 AATAT
15868528 TATTATTAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
13 2 0.05
14 3 0.07
15 21 0.51
16 9 0.22
17 6 0.15
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
AATATATAAATAATT
Found at i:15868521 original size:12 final size:13
Alignment explanation
Indices: 15868496--15868554 Score: 58
Period size: 12 Copynumber: 5.0 Consensus size: 13
15868486 AATATTATAA
15868496 TATT-ATAT-AAT
1 TATTAATATAAAT
15868507 TA-TAATATAAAT
1 TATTAATATAAAT
*
15868519 TATTAATAT-TAT
1 TATTAATATAAAT
15868531 TATTAATAT-AAT
1 TATTAATATAAAT
*
15868543 TGTT-ATATAAAT
1 TATTAATATAAAT
15868555 AAATGACTAT
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
10 1 0.02
11 10 0.24
12 24 0.59
13 6 0.15
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (13 bp):
TATTAATATAAAT
Found at i:15868657 original size:25 final size:25
Alignment explanation
Indices: 15868629--15868683 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
15868619 ATTTGACATG
*
15868629 TATATTAT-ATTATATTTAAATATAA
1 TATATTATAATTATAATTAAA-ATAA
*
15868654 TATATTTTAATTATAATTAAAATAA
1 TATATTATAATTATAATTAAAATAA
15868679 TATAT
1 TATAT
15868684 ATTATTACTA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
25 16 0.59
26 11 0.41
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (25 bp):
TATATTATAATTATAATTAAAATAA
Found at i:15868668 original size:16 final size:15
Alignment explanation
Indices: 15868632--15868670 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
15868622 TGACATGTAT
*
15868632 ATTATATTATATTTA
1 ATTATAATATATTTA
*
15868647 AATATAATATATTTTA
1 ATTATAATATA-TTTA
15868663 ATTATAAT
1 ATTATAAT
15868671 TAAAATAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATTATAATATATTTA
Found at i:15868684 original size:27 final size:25
Alignment explanation
Indices: 15868629--15868688 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 25
15868619 ATTTGACATG
*
15868629 TATATTATATTATATTTAAATATAA
1 TATATTATATTATATTAAAATATAA
*
15868654 TATATTTTAATTATAATTAAAATA-ATA
1 TATATTAT-ATTAT-ATTAAAATATA-A
15868681 TATATTAT
1 TATATTAT
15868689 TACTATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 7 0.24
26 6 0.21
27 16 0.55
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (25 bp):
TATATTATATTATATTAAAATATAA
Found at i:15868695 original size:27 final size:28
Alignment explanation
Indices: 15868629--15868698 Score: 85
Period size: 26 Copynumber: 2.6 Consensus size: 28
15868619 ATTTGACATG
*
15868629 TATATTA-TATTATATTTAAATATAATA
1 TATATTATTATTATAATTAAATATAATA
*
15868656 TAT-TT-TAATTATAATTAAA-ATAATA
1 TATATTATTATTATAATTAAATATAATA
*
15868681 TATATTATTACTATAATT
1 TATATTATTATTATAATT
15868699 GTTTTAATTC
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
25 9 0.25
26 15 0.42
27 12 0.33
ACGTcount: A:0.47, C:0.01, G:0.00, T:0.51
Consensus pattern (28 bp):
TATATTATTATTATAATTAAATATAATA
Found at i:15868779 original size:50 final size:45
Alignment explanation
Indices: 15868663--15868779 Score: 107
Period size: 50 Copynumber: 2.5 Consensus size: 45
15868653 ATATATTTTA
* * *
15868663 ATTATAATTA-AAATAATATATATTATTACTATAATTGTTTTAAT
1 ATTATAATTACATATATTATATATTATTACTATAATTGTTTAAAT
15868707 -TCTATAA-TAC-TATATTTAATATATTAATTACTTAATTAATTAGTTTAAAT
1 AT-TATAATTACATATA-TT-ATATATT-ATTAC-T-A-TAATT-GTTTAAAT
15868757 ATTATAATTACATATATTATATA
1 ATTATAATTACATATATTATATA
15868780 ATATATAATA
Statistics
Matches: 58, Mismatches: 3, Indels: 18
0.73 0.04 0.23
Matches are distributed among these distances:
43 6 0.10
44 6 0.10
45 7 0.12
46 5 0.09
47 1 0.02
48 1 0.02
49 5 0.09
50 17 0.29
51 6 0.10
52 4 0.07
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.50
Consensus pattern (45 bp):
ATTATAATTACATATATTATATATTATTACTATAATTGTTTAAAT
Found at i:15869128 original size:12 final size:12
Alignment explanation
Indices: 15869111--15869135 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15869101 TTATTATAGC
15869111 TTATTTAAATTA
1 TTATTTAAATTA
15869123 TTATTTAAATTA
1 TTATTTAAATTA
15869135 T
1 T
15869136 ATTATAATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TTATTTAAATTA
Found at i:15870053 original size:180 final size:176
Alignment explanation
Indices: 15869653--15870249 Score: 480
Period size: 181 Copynumber: 3.3 Consensus size: 176
15869643 AAAACAAAAG
* * * * * * *
15869653 GTCATAATTATTTGAACTGGTTAGGTAAACAAAATTATTTTTTAATTCTCTTACTTATTAATTCT
1 GTCATAACTATTTGAATTGATTAGGTAAAC-AATTTATTTTTTAAATCTCTTAATTATTAATTTT
* *
15869718 T-GAAATTTAAATAAATTTA-TTTTATTTTA-TTCTAAATAAGCTAGTATGAATTGAAAATATTG
65 TAGAAA-TT-AATAAA-TTAGTTTTATTTTATTTC-AAATAAGCTTGTATGAA-AGAAAA-ATT-
* * ** * *
15869780 TTTTATGACAAAACAAAGGGTTATAATGATTTGAAATAGATAATTATTCATATA
123 ATTTATGACAAAACAAAAGGTTATAACAATTTGAAATAGACAATTACTCATATA
** * *
15869834 GTTTTAACTATTTGAACTAGA-TCGGTAAACAATTTTATTTTTTAAATCTCTTAATTATTAATTT
1 GTCATAACTATTTGAA-TTGATTAGGTAAACAA-TTTATTTTTTAAATCTCTTAATTATTAATTT
* *
15869898 TTAGAATATTATTAGATTAGTTTTATTTTATTTCAAATAAGCTTGTATGAACAGAAATAATTATT
64 TTAGAA-ATTAATAAATTAGTTTTATTTTATTTCAAATAAGCTTGTATGAA-AGAAA-AATTATT
* *
15869963 TATGACAAAACAAAAGGTTATAACAATTTGAAGTATACAA-TAGCTC-TAATA
126 TATGACAAAACAAAAGGTTATAACAATTTGAAATAGACAATTA-CTCAT-ATA
** *
15870014 GTCATAACTATTTGAATTGATTTTGTAAACAGATTTATTTTTTAAATCTCTT-ATTA--ACTTTT
1 GTCATAACTATTTGAATTGATTAGGTAAACA-ATTTATTTTTTAAATCTCTTAATTATTAATTTT
* ** * * * * *
15870076 GA-AAGATTAATAAATTAGTACTATTTTATTCCGAATAAGCTTGTATGATAAAAAACAATTGTCA
65 TAGAA-ATTAATAAATTAGTTTTATTTTATTTCAAATAAGCTTGTATGA-AAGAAA-AATTAT-T
* * * * * *
15870140 TATGACCAAACAAAAGGTAAGAACAATTTGAAATAGATAATTA-TCGAAATG
126 TATGACAAAACAAAAGGTTATAACAATTTGAAATAGACAATTACTC-ATATA
* * * * * * *
15870191 GCCATAATTATTTGAACTGAGTTA-GTAAACATATTAACTTTTTAAATCACTTACTTATT
1 GTCATAACTATTTGAATTGA-TTAGGTAAACA-ATTTATTTTTTAAATCTCTTAATTATT
15870250 TGAATTTGTT
Statistics
Matches: 337, Mismatches: 59, Indels: 41
0.77 0.14 0.09
Matches are distributed among these distances:
176 50 0.15
177 84 0.25
178 7 0.02
179 10 0.03
180 87 0.26
181 88 0.26
182 10 0.03
183 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.41
Consensus pattern (176 bp):
GTCATAACTATTTGAATTGATTAGGTAAACAATTTATTTTTTAAATCTCTTAATTATTAATTTTT
AGAAATTAATAAATTAGTTTTATTTTATTTCAAATAAGCTTGTATGAAAGAAAAATTATTTATGA
CAAAACAAAAGGTTATAACAATTTGAAATAGACAATTACTCATATA
Found at i:15870435 original size:229 final size:224
Alignment explanation
Indices: 15870022--15870478 Score: 498
Period size: 229 Copynumber: 2.0 Consensus size: 224
15870012 TAGTCATAAC
* *
15870022 TATTTGAATTGATTTTGTAAACAGATTTATTTTTTAAATCTCTTATTAACTTTTGAAAGATTAAT
1 TATTTGAATTGATTTGGTAAACAGATTTATTTTTTAAATCTCTTATTAACTTTTCAAAGATTAAT
*
15870087 AAATTAGTACTATTTTATTCCGAATAAGCTTGTATGATAAAAAACAATTGTCATATGACCAAACA
66 AAATTAGTACTAATTTATTCCGAATAAGCTTGTATGATAAAAAACAATTGTCATATGACCAAACA
* * ** ** *
15870152 AAAGGTAAGAACAATTTGAAATAGATAATTATCGAAATGGCCATAATTATTTGAACTGAGTT-AG
131 AAAGATAAGAACAATATGAAATAGATAATTATCGAAATAACCATAACCATTTGAACTGA-TTCAA
*
15870216 TAAACATATTAAC-TTTTTAAATCACTTACT
195 TAAACAAATT-ACTTTTTTAAATCACTTACT
15870246 TATTTGAATTTG-TTTGGTAAACAGATTTATTTTTTTAAATCTCTTTCATATTAA-TTTTCCAAA
1 TATTTGAA-TTGATTTGGTAAACAGATTTA-TTTTTTAAATCTC--T--TATTAACTTTT-CAAA
* * ** **
15870309 TG-TTAATAAATTAGTATTAATTTATTCTGAATAAGCTTGTATGA-ACTGAAACAATTGTTTTAT
59 -GATTAATAAATTAGTACTAATTTATTCCGAATAAGCTTGTATGATA-AAAAACAATTGTCATAT
* ** * ***
15870372 GACTAAACAAAAGATCAA-AATGATATGAAATAGATAATTATTC-TAATAATTTTAACCATTTGA
122 GACCAAACAAAAGAT-AAGAACAATATGAAATAGATAATTA-TCGAAATAACCATAACCATTTGA
* * *
15870435 ATTGATTCAATAAACAAATTTCTTTTTTAAATCTCTTACT
185 ACTGATTCAATAAACAAATTACTTTTTTAAATCACTTACT
15870475 TATT
1 TATT
15870479 AATTTTCAAA
Statistics
Matches: 193, Mismatches: 27, Indels: 21
0.80 0.11 0.09
Matches are distributed among these distances:
224 24 0.12
225 16 0.08
227 1 0.01
228 8 0.04
229 139 0.72
230 5 0.03
ACGTcount: A:0.39, C:0.10, G:0.10, T:0.41
Consensus pattern (224 bp):
TATTTGAATTGATTTGGTAAACAGATTTATTTTTTAAATCTCTTATTAACTTTTCAAAGATTAAT
AAATTAGTACTAATTTATTCCGAATAAGCTTGTATGATAAAAAACAATTGTCATATGACCAAACA
AAAGATAAGAACAATATGAAATAGATAATTATCGAAATAACCATAACCATTTGAACTGATTCAAT
AAACAAATTACTTTTTTAAATCACTTACT
Found at i:15870854 original size:181 final size:181
Alignment explanation
Indices: 15870263--15870976 Score: 625
Period size: 181 Copynumber: 3.9 Consensus size: 181
15870253 ATTTGTTTGG
* * * *
15870263 TAAACAGATTTATTTTTTTAAATCTCTTTCATATTAATTTTCCAAATGTTAATAAATTAGTATTA
1 TAAACAGATTTATCTTTTTAAATCTCTTACATATTAATTTTCAAAATATTAATAAATTAGTATTA
* * * * * *
15870328 ATTTATTCTGAATAAGCTTGTATGAACTGAAACAATTGTTTTATGACTAAACAAAAGATCAAAAT
66 TTTTATTCTAAATAAGCTTGTATGAACAGAAACAATTGTTTTATGA-TAAACAAAAGGTCATAAC
* * * * * *
15870393 GATATGAAATAGATAATTATTCTAATAATTTTAACCATTTGAATTGATTCAA
130 GATTTGAAATAGATAATTATTCAAATAGTCTTAACTATTTGAATTGGTTCAA
* * * * *
15870445 TAAACAAATTTCT-TTTTTAAATCTCTTACTTATTAATTTTCAAAATATTATTAAATTAGTAGTA
1 TAAACAGATTTATCTTTTTAAATCTCTTACATATTAATTTTCAAAATATTAATAAATTAGTATTA
* * * * * *
15870509 TTTTAATCCAAATAAGCTTGTACGAACA-AAACAATTGTTTTACGTTAAAAGAAAAGGTCATAAC
66 TTTTATTCTAAATAAGCTTGTATGAACAGAAACAATTGTTTTATGAT-AAACAAAAGGTCATAAC
*
15870573 GATTTGAAATAGATAATCATTCATAA-AGTCTTAACTATTTGAATTGGTTCAA
130 GATTTGAAATAGATAATTATTCA-AATAGTCTTAACTATTTGAATTGGTTCAA
* ** * * *** * *
15870625 CAATTAGATTTAT-TTTTTAATTTTCTTGGTTATTAAGTTTT-GAAATATTATTAAATTAGTATT
1 TAAACAGATTTATCTTTTTAAATCTCTTACATATTAA-TTTTCAAAATATTAATAAATTAGTATT
** * * * * *
15870688 ATTTTATTCTAAATAAAATAGTATGAACAGAACCAATTGTTTGATGATAGAATAAAAGGTTATAA
65 ATTTTATTCTAAATAAGCTTGTATGAACAGAAACAATTGTTTTATGATA-AACAAAAGGTCATAA
* * * ** * ***
15870753 CGATTTGAAATAAAAAATTATTGAAATAGTCAAAACTATTTGAAATGGTTTGG
129 CGATTTGAAATAGATAATTATTCAAATAGTCTTAACTATTTGAATTGGTTCAA
** * * * ** *
15870806 TAAGTAGATTT-TCTTTTTAAATCTCTTACAGATTTATTTTCTAAATATTAATAAAACAATATTA
1 TAAACAGATTTATCTTTTTAAATCTCTTACATATTAATTTTCAAAATATTAATAAATTAGTATTA
* * * * * * * ** *
15870870 TTTTATT-TCAAACAAACTTATATTAACAAAAACAATTCTTTTATGACAAAACAAAAAATAATAA
66 TTTTATTCT-AAATAAGCTTGTATGAACAGAAACAATTGTTTTATGA-TAAACAAAAGGTCATAA
* * *
15870934 TGATTTAAAATAGATAATTGTTCAAATAGT-TATAACTATTTGA
129 CGATTTGAAATAGATAATTATTCAAATAGTCT-TAACTATTTGA
15870977 CTAAACAAAA
Statistics
Matches: 425, Mismatches: 96, Indels: 23
0.78 0.18 0.04
Matches are distributed among these distances:
179 1 0.00
180 149 0.35
181 263 0.62
182 12 0.03
ACGTcount: A:0.42, C:0.09, G:0.09, T:0.40
Consensus pattern (181 bp):
TAAACAGATTTATCTTTTTAAATCTCTTACATATTAATTTTCAAAATATTAATAAATTAGTATTA
TTTTATTCTAAATAAGCTTGTATGAACAGAAACAATTGTTTTATGATAAACAAAAGGTCATAACG
ATTTGAAATAGATAATTATTCAAATAGTCTTAACTATTTGAATTGGTTCAA
Found at i:15871489 original size:23 final size:24
Alignment explanation
Indices: 15871463--15871511 Score: 66
Period size: 23 Copynumber: 2.1 Consensus size: 24
15871453 TAGCTTGTTT
*
15871463 TATAATA-TATTATTAT-ATTGATA
1 TATAATACT-TTATTATAATTAATA
15871486 TATAATACTTTATTATAATTAATA
1 TATAATACTTTATTATAATTAATA
15871510 TA
1 TA
15871512 CTTTATTAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
23 14 0.61
24 9 0.39
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (24 bp):
TATAATACTTTATTATAATTAATA
Found at i:15872041 original size:181 final size:180
Alignment explanation
Indices: 15871733--15873222 Score: 1338
Period size: 181 Copynumber: 8.3 Consensus size: 180
15871723 GTAAACAGAT
* * * *
15871733 AATCTCCTACTTATTAATTTTTGAAATATTAATAAACTAGTATTATTTTATTCT-AATTAGGCTT
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAA-TAAGCTT
* ** * **
15871797 GTATG-ATGAAAAACAATTGTTTTATGACAAAACAAAAATTCAAAATGATTTGAAATAGATAATT
65 TTATGAATG--AAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATT
* * * * *
15871861 GTTCAAATGGCCATAACTATTTGAACTGATCCGATAAAAT-GATTTATGTTTTA
128 ATTCAAATAGTCATAACTATTTGAACTG-TTCGATAAAATAGATTTATTTTTTA
** * * *
15871914 AATCTCCAACTT-TTGAATTTTTGAAATATTAATAAAGTAATATTATTTTATTTTGGATAAGCTT
1 AATCTCTTACTTATT-AATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTT
* * * *
15871978 TTATGAAATGAAACAATTGTTTTATGATAAAATAAAAGGTTATAACAATTTTAAA-ATGATAATT
65 TTATG-AATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATA-GATAATT
* * * * * *
15872042 GTTTAAATAGTCATAACTATTTAAACGTGTTTGGT-AAACAGATTTATTTTTT-
128 ATTCAAATAGTCATAACTATTTGAAC-TGTTCGATAAAATAGATTTATTTTTTA
* * * * * * ** *
15872094 AATTTCTTGCTCATTAATTTTTTG-AGTGTTAATAAAATAGTATTATTTTATTTCAAATAAGCAT
1 AATCTCTTACTTATTAA-TTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTT
* * * * * **
15872158 GTATGAACT-AAACAATTATTTTATGACTAAACAAAAGTTCAGAATGATTTGAAATAGATAATTA
65 TTATGAA-TGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTA
* * *
15872222 TT-ATAATAGTCTTAACTATTTGACCTGGTTC-A-ACAAATACATTTATTTTTTA
129 TTCA-AATAGTCATAACTATTTGAACT-GTTCGATA-AAATAGATTTATTTTTTA
* ** * * * **
15872274 AATCTCTTACTTATTAATTTTT-AGAATATTATTAGTTTAGCAATATTTTACTCCGAATAAG-TT
1 AATCTCTTACTTATTAATTTTTGA-AATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTT
* * * * *
15872337 TGTATGGATAGAAACAATTGTTTTATGACAAAAC-AAAGATCATACCAATTTGAGATAAATAATT
65 T-TATGAAT-GAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATT
* * * *
15872401 ATTCAAATAGTCATAACTATTTGAAATGGTCCGAT-AAATAGATATAGTTTTTA
128 ATTCAAATAGTCATAACTATTTGAACT-GTTCGATAAAATAGATTTATTTTTTA
** *
15872454 AA--TC-T-CTTATTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTTTGAATAA-TTTT
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTT
* * *
15872514 GTATGAATAGAAACAATTGTTTTATTACAAAAC-AAAGGATCATAACGATTTGAAATAAATAATT
66 -TATGAAT-GAAACAATTGTTTTATGACAAAACAAAAGG-TCATAACAATTTGAAATAGATAATT
* * * *
15872578 ATTTAAATAGTCATAATTATTTGAACTCACTTAG-TAAACA-A-ATTTATTTTTTA
128 ATTCAAATAGTCATAACTATTTGAACT--GTTCGATAAA-ATAGATTTATTTTTTA
* * *
15872631 AATATGTTACTTATTAATTTTTGAAATTTTAATAAATTAGTATTATTTTATTTTGAATAAG-TTT
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTT
* * * * *
15872695 TATGAATAGAAACAATTGGTTTATAACAAAACAAAAGGTCATAACGATTCGAAATAGATAATTGT
66 TATGAAT-GAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTAT
* * * * * *
15872760 TCAAATGGTCATAATTATTTTGAATGTGTTC-AAAAAATAAATTTATTTTATA
130 TCAAATAGTCATAACTA-TTTGAA-CTGTTCGATAAAATAGATTTATTTTTTA
* * * * *
15872812 TAT-TTTTACTTATTAATCTTTGGAATATTAGTAAATTTA-TATTATTTTA-TTTGAAATAAGCT
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAA-TTAGTATTATTTTATTTTG-AATAAGCT
* * *
15872874 TGTATGAACAT-AAACAATTGTTTTATGGCAAAACAAAAGCTCATAACAATTTGAAATAGATAAT
64 TTTATG-A-ATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAAT
* * * *
15872938 TGTTCAAATAGTCATAACTATTTGAACTTGTTTGGT-AAATAGATTCATTTTTTA
127 TATTCAAATAGTCATAACTATTTGAAC-TGTTCGATAAAATAGATTTATTTTTTA
* * * * * * *
15872992 AATCTCTTACTCATTAATTTTTGGAATAGTAATAAGTTAGTATTATTCTATTTTGAATAAGCCTA
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTT
* * ** *
15873057 TATGAATTGATATAATTGTTTTATGATGAAACAAAAGGTCATAACGATTTGAAATAGATAATTAT
66 TATGAA-TGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTAT
* * * * *
15873122 TTAGATAGTTATTACTATTTAAACTTGTTCGATAAACAT--ATTTATTTTTTA
130 TCAAATAGTCATAACTATTTGAAC-TGTTCGATAAA-ATAGATTTATTTTTTA
* * *
15873173 AATCTTTTACTTATTAATTGTTGAAATATTAATAAATTAATATTATTTTA
1 AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTA
15873223 AAAAATAATT
Statistics
Matches: 1068, Mismatches: 186, Indels: 110
0.78 0.14 0.08
Matches are distributed among these distances:
176 78 0.07
177 61 0.06
178 9 0.01
179 97 0.09
180 315 0.29
181 490 0.46
182 11 0.01
183 7 0.01
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.42
Consensus pattern (180 bp):
AATCTCTTACTTATTAATTTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTT
TATGAATGAAACAATTGTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATT
CAAATAGTCATAACTATTTGAACTGTTCGATAAAATAGATTTATTTTTTA
Found at i:15872930 original size:361 final size:357
Alignment explanation
Indices: 15871740--15873222 Score: 1463
Period size: 361 Copynumber: 4.1 Consensus size: 357
15871730 GATAATCTCC
* * * *
15871740 TACTTATTAATTTTTGAAATATTAATAAACTAGTATTATTTTATTCT-AATTAGGCTTGTATGAT
1 TACTTATTAA-TTTTGAAATATTAATAAATTAGTATTATTTTATT-TGAAATAAGCTTGTATGAA
* * * * * *
15871804 GAAAAACAATTGTTTTATGACAAAACAAAAATTCAAAATGATTTGAAATAGATAATTGTTCAAAT
64 CATAAACAATTGTTTTATGACAAAACAAAAGTTCATAACGATTTGAAATAGATAATTATTCAAAT
* * ** * **
15871869 GGCCATAACTATTTGAACTGATCCGATAAA-ATGATTTATGTTTTAAATCTCCAACTT-TTGAAT
129 AGTCATAACTATTTGAACT-ATTAG-TAAATA-GATTTATTTTTTAAATCTCTTACTTATT-AAT
* * *
15871932 TTTTGAAATATTAATAAAGTAATATTATTTTATTTTGGATAAGCTTTTATGAA-ATGAAACAATT
190 TTTTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAATA-GAAACAATT
* * * * * *
15871996 GTTTTATGATAAAATAAAAGGTTATAACAATTTTAAA-ATGATAATTGTTTAAATAGTCATAACT
254 GTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATA-GATAATTATTCAAATAGTCATAACT
* * *
15872060 ATTTAAACGTGTTTGGTAAACAGATTTATTTTTTAATTTCT
318 ATTTAAATGTGTTCGATAAACAGATTTATTTTTTAATTT-T
* * * * * * *
15872101 TGCTCATTAATTTTTTG-AGTGTTAATAAAATAGTATTATTTTATTTCAAATAAGCATGTATGAA
1 TACTTATTAA--TTTTGAAATATTAATAAATTAGTATTATTTTATTTGAAATAAGCTTGTATGAA
* * * *
15872165 C-TAAACAATTATTTTATGACTAAACAAAAGTTCAGAATGATTTGAAATAGATAATTATT-ATAA
64 CATAAACAATTGTTTTATGACAAAACAAAAGTTCATAACGATTTGAAATAGATAATTATTCA-AA
* * * ** *
15872228 TAGTCTTAACTATTTGACCTGGTTCAACAAATACATTTATTTTTTAAATCTCTTACTTATTAATT
128 TAGTCATAACTATTTGAACT-ATT-AGTAAATAGATTTATTTTTTAAATCTCTTACTTATTAATT
* ** * * * ** *
15872293 TTT-AGAATATTATTAGTTTAGCAATATTTTACTCCGAATAAG-TTTGTATGGATAGAAACAATT
191 TTTGA-AATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTT-TATGAATAGAAACAATT
* * * *
15872356 GTTTTATGACAAAAC-AAAGATCATACCAATTTGAGATAAATAATTATTCAAATAGTCATAACTA
254 GTTTTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATAACTA
* * * * * *
15872420 TTTGAAATG-GTCCGATAAATAGATATAGTTTTTAA-ATC
319 TTT-AAATGTGTTCGATAAACAGATTTATTTTTTAATTTT
* **
15872458 T-CTTATTAATTTTCAAAATATTAATAAATTAGTATTATTTTATTTTG-AATAATTTTGTATGAA
1 TACTTATTAATTTT-GAAATATTAATAAATTAGTATTATTTTA-TTTGAAATAAGCTTGTATGAA
* * * * * * *
15872521 TAGAAACAATTGTTTTATTACAAAACAAAGGATCATAACGATTTGAAATAAATAATTATTTAAAT
64 CATAAACAATTGTTTTATGACAAAACAAAAGTTCATAACGATTTGAAATAGATAATTATTCAAAT
* * * * *
15872586 AGTCATAATTATTTGAACTCACTTAGTAAACAAATTTATTTTTTAAATATGTTACTTATTAATTT
129 AGTCATAACTATTTGAACT-A-TTAGTAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTT
* *
15872651 TTGAAATTTTAATAAATTAGTATTATTTTATTTTGAATAAG-TTTTATGAATAGAAACAATTGGT
192 TTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAATAGAAACAATTGTT
* * * * * *
15872715 TTATAACAAAACAAAAGGTCATAACGATTCGAAATAGATAATTGTTCAAATGGTCATAATTATTT
257 TTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATAACTA-TT
* * * * * *
15872780 TGAATGTGTTCAAAAAATAAATTTATTTTATATATTTT
321 TAAATGTGTTCGATAAACAGATTTATTTTTTA-ATTTT
* *
15872818 TACTTATTAATCTTTGGAATATTAGTAAATTTA-TATTATTTTATTTGAAATAAGCTTGTATGAA
1 TACTTATTAAT-TTTGAAATATTAATAAA-TTAGTATTATTTTATTTGAAATAAGCTTGTATGAA
* * * *
15872882 CATAAACAATTGTTTTATGGCAAAACAAAAGCTCATAACAATTTGAAATAGATAATTGTTCAAAT
64 CATAAACAATTGTTTTATGACAAAACAAAAGTTCATAACGATTTGAAATAGATAATTATTCAAAT
* * * *
15872947 AGTCATAACTATTTGAACTTGTTTGGTAAATAGATTCATTTTTTAAATCTCTTACTCATTAATTT
129 AGTCATAACTATTTGAAC-T-ATTAGTAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTT
* * * * * * * * *
15873012 TTGGAATAGTAATAAGTTAGTATTATTCTATTTTGAATAAGCCTATATGAATTGATATAATTGTT
192 TTGAAATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAATAGAAACAATTGTT
** * * * * *
15873077 TTATGATGAAACAAAAGGTCATAACGATTTGAAATAGATAATTATTTAGATAGTTATTACTATTT
257 TTATGACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTT
*
15873142 AAACT-TGTTCGATAAACATATTTATTTTTTAAATCTTT
322 AAA-TGTGTTCGATAAACAGATTTATTTTTT-AAT-TTT
*
15873180 TACTTATTAATTGTTGAAATATTAATAAATTAATATTATTTTA
1 TACTTATTAATT-TTGAAATATTAATAAATTAGTATTATTTTA
15873223 AAAAATAATT
Statistics
Matches: 912, Mismatches: 176, Indels: 67
0.79 0.15 0.06
Matches are distributed among these distances:
354 4 0.00
356 72 0.08
357 184 0.20
358 26 0.03
359 68 0.07
360 168 0.18
361 269 0.29
362 121 0.13
ACGTcount: A:0.40, C:0.08, G:0.10, T:0.42
Consensus pattern (357 bp):
TACTTATTAATTTTGAAATATTAATAAATTAGTATTATTTTATTTGAAATAAGCTTGTATGAACA
TAAACAATTGTTTTATGACAAAACAAAAGTTCATAACGATTTGAAATAGATAATTATTCAAATAG
TCATAACTATTTGAACTATTAGTAAATAGATTTATTTTTTAAATCTCTTACTTATTAATTTTTGA
AATATTAATAAATTAGTATTATTTTATTTTGAATAAGCTTTTATGAATAGAAACAATTGTTTTAT
GACAAAACAAAAGGTCATAACAATTTGAAATAGATAATTATTCAAATAGTCATAACTATTTAAAT
GTGTTCGATAAACAGATTTATTTTTTAATTTT
Found at i:15873651 original size:181 final size:180
Alignment explanation
Indices: 15873326--15873972 Score: 579
Period size: 181 Copynumber: 3.6 Consensus size: 180
15873316 ACAGATTTTA
* * * * * * * * * *
15873326 AATAAGCTTGTATGAATAGAAAAAAATTATTTTATGACAATACAAAAGGTTATAGCAATTTGAAC
1 AATAAGCTTATATGAACA-AAAACAATTGTTTTATGACAAAACAAAATGTCATAACGATTTGAAA
* * * ** ** * * *
15873391 TAAATAATTGTTCAAATAGCCATAATTATTTGAACTT-GTTCGGTAAAAAGATTCATTTTTTAAA
65 TAGATAATTGATCAAATAGTCATAATTATTTGAA-TTAGTAAGCCAAACAGATACATTTTCTAAA
* **
15873455 TCTCTCATGTATTAATTTTTAGAATATTAATAAATTAGAATTATGTTATTCTG
129 TCTCTTACATATTAATTTTTAGAATATTAATAAATTAGAATTAT-TTATTCTG
* * * * *
15873508 AATAAGCTTGTATGAACAAAAATAATTGTTTTCTGAGAAAACAAAATGTCATAATGATTTGAAAT
1 AATAAGCTTATATGAACAAAAACAATTGTTTTATGACAAAACAAAATGTCATAACGATTTGAAAT
* *
15873573 AGATAATTGATCAAATAGTCATAATTGTTTGCATTAGTCAAGCCAAA-AGATACATTTTCTAAAT
66 AGATAATTGATCAAATAGTCATAATTATTTGAATTAGT-AAGCCAAACAGATACATTTTCTAAAT
* * *
15873637 C-CATTACTTATTAATTTTTAAAATATTAATAAATTAGCATTACTTTATTCTG
130 CTC-TTACATATTAATTTTTAGAATATTAATAAATTAGAATTA-TTTATTCTG
* * * * *
15873689 AATAAGATTATATAAACAGAAACAATTGTTTTATGATAAAA-TAAATGGTCATAACGATTTGAAA
1 AATAAGCTTATATGAACAAAAACAATTGTTTTATGACAAAACAAAAT-GTCATAACGATTTGAAA
* * * * ** ** * * * * ** *
15873753 TAAATATTTGGTCAAATAGTTATAGCTAACTGAATTGGTATGGCAAACATATTTATTTTTTAAAT
65 TAGATAATTGATCAAATAGTCATAATTATTTGAATTAGTAAGCCAAACAGATACATTTTCTAAAT
* **
15873818 CTCTTACATATTAATTTTT-GAAATATTAAGAAATTA-ATATTATTTTATTCCA
130 CTCTTACATATTAATTTTTAG-AATATTAATAAATTAGA-ATTA-TTTATTCTG
* * * * * *
15873870 AACAAACTTATATGAACAAAAACATTTGTTTTATGACAAAACAAAAGGTAATAACAATTTGAAAT
1 AATAAGCTTATATGAACAAAAACAATTGTTTTATGACAAAACAAAATGTCATAACGATTTGAAAT
*
15873935 AGATAATT-ATTCAAATAGTCATAATTATTTGAAATAGT
66 AGATAATTGA-TCAAATAGTCATAATTATTTGAATTAGT
15873973 TTTGTAAATA
Statistics
Matches: 372, Mismatches: 82, Indels: 23
0.78 0.17 0.05
Matches are distributed among these distances:
180 13 0.03
181 333 0.90
182 26 0.07
ACGTcount: A:0.43, C:0.09, G:0.11, T:0.38
Consensus pattern (180 bp):
AATAAGCTTATATGAACAAAAACAATTGTTTTATGACAAAACAAAATGTCATAACGATTTGAAAT
AGATAATTGATCAAATAGTCATAATTATTTGAATTAGTAAGCCAAACAGATACATTTTCTAAATC
TCTTACATATTAATTTTTAGAATATTAATAAATTAGAATTATTTATTCTG
Found at i:15873952 original size:16 final size:17
Alignment explanation
Indices: 15873931--15873963 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
15873921 TAACAATTTG
15873931 AAATAG-ATAATTATTC
1 AAATAGCATAATTATTC
15873947 AAATAGTCATAATTATT
1 AAATAG-CATAATTATT
15873964 TGAAATAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
18 9 0.60
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
AAATAGCATAATTATTC
Found at i:15873971 original size:19 final size:18
Alignment explanation
Indices: 15873926--15873972 Score: 62
Period size: 19 Copynumber: 2.7 Consensus size: 18
15873916 GGTAATAACA
15873926 ATTTGAAATAG-ATAATT
1 ATTTGAAATAGTATAATT
*
15873943 A-TTCAAATAGTCATAATT
1 ATTTGAAATAGT-ATAATT
15873961 ATTTGAAATAGT
1 ATTTGAAATAGT
15873973 TTTGTAAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
16 8 0.32
17 1 0.04
18 7 0.28
19 9 0.36
ACGTcount: A:0.45, C:0.04, G:0.11, T:0.40
Consensus pattern (18 bp):
ATTTGAAATAGTATAATT
Found at i:15874775 original size:181 final size:181
Alignment explanation
Indices: 15873988--15875242 Score: 1023
Period size: 181 Copynumber: 7.0 Consensus size: 181
15873978 AAATAGAATT
* * * * * *
15873988 ATTATGACT-TTTTGTTTTGTAATAAAACAATTGTTTCTGTTCATACAAGCTTATTAGGATTAAA
1 ATTATGA-TATTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTATTCGAAATAAA
* * * * *
15874052 ATAATATTAATTTATTAATATTT-TGACAATTAATAGGTGAAAGATTTAAAAAATAAATATGTTT
65 ATAATACTAATTTATTAATATTTCT-AAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTT
* * * * *
15874116 ACCAAACAAGTTCAAATAGTCAAGACTATTTGAATAATTATCTATTTCAAATA
129 ACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATC
* ** * * * * * * *
15874169 ATTGTGACCTTCTATTTTGTAATAAAATAATTGTTTC-AGTTAACATAAGCTTATTTGAAATAAA
1 ATTATGATATTTTGTTTTGTCATAAAATAATTGTTTCTA-TTCATACAAGCTTATTCGAAATAAA
* ** * * * * * * *
15874233 ATAGCT-CTAATTTTATTAATATACCAAAAATTAATGAGTAAGAGAATTAAAAAAATGAATCTAT
65 ATA-ATACTAA-TTTATTAATATTTCTAAAATTAATAAGTAAAAG-ATTTAAAAAATAAATTTGT
* * * * * * *
15874297 TTACCAAATAAGTTTAAATAGTTATGACTATCTAAATAATTATCTATTTCAAAAC
127 TTACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATC
* * * *
15874352 ATTATGACCA-TTTGTTTTGTCATAAAATAATTAG-TTATGTTCATACAAGCTTATTTTG-AATA
1 ATTATGA-TATTTTGTTTTGTCATAAAATAATT-GTTTCTATTCATACAAGCTTA-TTCGAAATA
* * * * *
15874414 AAATAATA-TAAATTTATTAAAACTCCAAAAATTAATATA-TAAAA-ATTTTAAAAAATAAATAT
63 AAATAATACT-AATTTATTAATATTTCTAAAATTAATA-AGTAAAAGA-TTTAAAAAATAAATTT
*** * *
15874476 GTTTTTTGAACACA-TT-TAATAGCTATGACTATTTGAACAATTATCTATTTCAAATC
125 GTTTACCGAACA-AGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATC
* * ** *
15874532 ATTATGACAATTTG--TTGTCATAAACCAATTATTTCTATTCATACAAGCTTATTCGAAATAAAA
1 ATTATGATATTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAA
* * * * *
15874595 TAATATTAATTCATTAATATTTCTAAAACTAATAAGTAAAAGATTTAAATAATAAATTTATTTAC
66 TAATACTAATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTAC
** * * *
15874660 CGAGTAAGTTCAAATAGTTATTACTATTTAAACAATTATATATTTCAAATC
131 CGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATC
* * * * * *
15874711 TTTATGATATTTTGTTTTGTCATAAAACAATTGTTTCTATTCACACAAGTTTATTTGGAATAAAA
1 ATTATGATATTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAA
* *
15874776 TAATACTAATTTATT-ATCA-TTCTAAAAATTAATAAGTTAGAGATTTAAAAAATAAATTTGTTT
66 TAATACTAATTTATTAAT-ATTTCT-AAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTT
* * * * * ** * *
15874839 ATCGAACAAGTTTAAATAGTCATGTCCATTTGAACTGTTATTTATTTTAAATC
129 ACCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATC
* * * ** *
15874892 ATTATGATATTTTGTTTTATTATAAAATAATTGTTTTTATTCATACAAAATTATTCAAAAT-AAA
1 ATTATGATATTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAA
* * * * *
15874956 TAATACCAATTTATTACTATTTCAAAAATTAATAAG-----GATTT-AAAAATAAATGTGTTTTC
66 TAATACTAATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTAC
* * * * ** *
15875015 CAAAGC-AGTCCAAATATTTAAGACTATTAAAACAATTATCTA-TTCTAAATT
131 CGAA-CAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTC-AAATC
* * * * * *
15875066 ATTCTAATATTTTGTTTAGTCAAAAAATAATTGTTTC-AGTTCATACATGCTTATTCGAAATATA
1 ATTATGATATTTTGTTTTGTCATAAAATAATTGTTTCTA-TTCATACAAGCTTATTCGAAATAAA
* * ** *
15875130 TTAATACTAATTTATTAAAATTTAGAAAATTAATAAG---AA-A-TT--AAAA-AAA-TTATTTA
65 ATAATACTAATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTA
* *
15875186 CCGAATAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATC
130 CCGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATC
15875238 ATTAT
1 ATTAT
15875243 ATTATTTGAA
Statistics
Matches: 855, Mismatches: 182, Indels: 83
0.76 0.16 0.07
Matches are distributed among these distances:
172 47 0.05
173 8 0.01
174 98 0.11
175 40 0.05
176 1 0.00
177 5 0.01
178 91 0.11
179 50 0.06
180 82 0.10
181 262 0.31
182 53 0.06
183 112 0.13
184 6 0.01
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.41
Consensus pattern (181 bp):
ATTATGATATTTTGTTTTGTCATAAAATAATTGTTTCTATTCATACAAGCTTATTCGAAATAAAA
TAATACTAATTTATTAATATTTCTAAAATTAATAAGTAAAAGATTTAAAAAATAAATTTGTTTAC
CGAACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTCAAATC
Found at i:15875363 original size:15 final size:14
Alignment explanation
Indices: 15875335--15875380 Score: 56
Period size: 14 Copynumber: 3.2 Consensus size: 14
15875325 TTATCTATAT
*
15875335 TTAATTCTTAAATA
1 TTAATTATTAAATA
*
15875349 TTAATTAATTTAATA
1 TTAATT-ATTAAATA
*
15875364 TGAATTATTAAATA
1 TTAATTATTAAATA
15875378 TTA
1 TTA
15875381 TCGTTATTGT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
14 15 0.58
15 11 0.42
ACGTcount: A:0.46, C:0.02, G:0.02, T:0.50
Consensus pattern (14 bp):
TTAATTATTAAATA
Found at i:15875649 original size:19 final size:20
Alignment explanation
Indices: 15875622--15875674 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 20
15875612 AAAAATAAAT
*
15875622 TTAATATTAAATAT-TA-TA
1 TTAAAATTAAATATATACTA
15875640 TTATAAATTAAATATATAGCTA
1 TTA-AAATTAAATATATA-CTA
15875662 TTAAAATTAAATA
1 TTAAAATTAAATA
15875675 GCTACTTCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 3 0.10
19 10 0.33
20 2 0.07
21 10 0.33
22 5 0.17
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (20 bp):
TTAAAATTAAATATATACTA
Found at i:15876035 original size:21 final size:21
Alignment explanation
Indices: 15875994--15876036 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
15875984 TACTAATTAA
* *
15875994 TAATATTATTAATTATTATAT
1 TAATATTACTAATTATAATAT
15876015 TAATATTTACTAA-TATAATAT
1 TAATA-TTACTAATTATAATAT
15876036 T
1 T
15876037 GATTAATATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 13 0.68
22 6 0.32
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TAATATTACTAATTATAATAT
Found at i:15876448 original size:12 final size:12
Alignment explanation
Indices: 15876428--15876456 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
15876418 ATAACTGTCA
15876428 TAATT-TAATAT
1 TAATTATAATAT
15876439 TAATTATAATAT
1 TAATTATAATAT
15876451 TAATTA
1 TAATTA
15876457 CAAATTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 5 0.29
12 12 0.71
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (12 bp):
TAATTATAATAT
Found at i:15876510 original size:16 final size:17
Alignment explanation
Indices: 15876489--15876520 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
15876479 ATAAATTTAA
15876489 TATATTATT-AACTATT
1 TATATTATTAAACTATT
15876505 TATATTATTAAACTAT
1 TATATTATTAAACTAT
15876521 CATAACAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.41, C:0.06, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAACTATT
Found at i:15876989 original size:19 final size:19
Alignment explanation
Indices: 15876965--15877003 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
15876955 TAATAATCAT
* *
15876965 TAATTAATAATTTTATTAA
1 TAATTAACAATATTATTAA
15876984 TAATTAACAATATTATTAA
1 TAATTAACAATATTATTAA
15877003 T
1 T
15877004 GGCTATTGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.49
Consensus pattern (19 bp):
TAATTAACAATATTATTAA
Found at i:15877530 original size:16 final size:14
Alignment explanation
Indices: 15877484--15877520 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
15877474 TTTATATTAT
*
15877484 TTATTATATTATAA
1 TTATAATATTATAA
15877498 TTATAATATTATAA
1 TTATAATATTATAA
15877512 TTATAATAT
1 TTATAATAT
15877521 ATTTGAATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TTATAATATTATAA
Found at i:15877563 original size:29 final size:27
Alignment explanation
Indices: 15877501--15877569 Score: 75
Period size: 29 Copynumber: 2.4 Consensus size: 27
15877491 ATTATAATTA
*
15877501 TAATATTATAATTATAATATATTTGAAT
1 TAATA-TATAATTATAATATAGTTGAAT
*
15877529 TAATATATAATTTAATAATATAGTTAATAT
1 TAATATATAA-TT-ATAATATAGTTGA-AT
15877559 TATATATATAA
1 TA-ATATATAA
15877570 CAATTTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
27 5 0.14
28 7 0.20
29 11 0.31
30 4 0.11
31 8 0.23
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.48
Consensus pattern (27 bp):
TAATATATAATTATAATATAGTTGAAT
Found at i:15877585 original size:52 final size:52
Alignment explanation
Indices: 15877501--15877602 Score: 120
Period size: 52 Copynumber: 2.0 Consensus size: 52
15877491 ATTATAATTA
*
15877501 TAATATTATAATTATAATATATTTGAATTAATATATAAT-TTAATAATATAGT
1 TAATATTATAATTATAACATATTTGAATTAATA-ATAATATTAATAATATAGT
* * *
15877553 TAATATTAT-ATATATAACA-ATTTTAATATAATAATTATATTAATTATATA
1 TAATATTATAAT-TATAACATATTTGAAT-TAATAATAATATTAATAATATA
15877603 ATAAATATAA
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
51 13 0.30
52 30 0.70
ACGTcount: A:0.49, C:0.01, G:0.02, T:0.48
Consensus pattern (52 bp):
TAATATTATAATTATAACATATTTGAATTAATAATAATATTAATAATATAGT
Found at i:15877951 original size:21 final size:21
Alignment explanation
Indices: 15877927--15877969 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
15877917 CATGGATCTA
15877927 TTATTAATTTAAAT-AATAAAT
1 TTATTAA-TTAAATAAATAAAT
* *
15877948 TTATTTATTAATTAAATAAAT
1 TTATTAATTAAATAAATAAAT
15877969 T
1 T
15877970 AATTTTGATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTATTAATTAAATAAATAAAT
Found at i:15878463 original size:31 final size:31
Alignment explanation
Indices: 15878396--15878495 Score: 78
Period size: 31 Copynumber: 3.0 Consensus size: 31
15878386 TAATATTATC
15878396 AAATTATAATTATTAGTATATAATTAATTGAAATTAAT
1 AAATTATAATTATTA--A-ATAA-TAATT---ATTAAT
15878434 AATATTAT-ATTATATAAAT-ATAATTATTAAT
1 AA-ATTATAATTAT-TAAATAATAATTATTAAT
* **
15878465 TAATTATAATTATTTTATAATAATTATTAAT
1 AAATTATAATTATTAAATAATAATTATTAAT
15878496 CTTTTATGAA
Statistics
Matches: 55, Mismatches: 3, Indels: 15
0.75 0.04 0.21
Matches are distributed among these distances:
30 8 0.15
31 24 0.44
34 5 0.09
35 1 0.02
36 2 0.04
37 1 0.02
38 7 0.13
39 7 0.13
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (31 bp):
AAATTATAATTATTAAATAATAATTATTAAT
Found at i:15878472 original size:17 final size:17
Alignment explanation
Indices: 15878397--15878495 Score: 59
Period size: 14 Copynumber: 5.9 Consensus size: 17
15878387 AATATTATCA
*
15878397 AATTATAATTATT-AGT
1 AATTATAATTATTAATT
15878413 -A-TATAATTAATTGAAATT
1 AATTATAATT-ATT--AATT
* *
15878431 AATAAT-ATTATATTATAT
1 AATTATAATTAT-TAAT-T
*
15878449 AAATATAATTATTAATT
1 AATTATAATTATTAATT
15878466 AATTATAATTATT--TT
1 AATTATAATTATTAATT
*
15878481 -ATAATAATTATTAAT
1 AATTATAATTATTAAT
15878496 CTTTTATGAA
Statistics
Matches: 64, Mismatches: 8, Indels: 22
0.68 0.09 0.23
Matches are distributed among these distances:
14 18 0.28
15 6 0.09
16 1 0.02
17 15 0.23
18 12 0.19
19 10 0.16
20 2 0.03
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.49
Consensus pattern (17 bp):
AATTATAATTATTAATT
Found at i:15879022 original size:43 final size:43
Alignment explanation
Indices: 15878974--15879065 Score: 107
Period size: 43 Copynumber: 2.1 Consensus size: 43
15878964 AGGAAATAGA
** *
15878974 TAATTATTTATCTATTAATATGCTA-TTTAA-ATTAAATATTATT
1 TAATTATTTAAATATT-ATAT-CTATTTTAATATTAAATATTAAT
* *
15879017 TAATTATTTAAATATTATATTTATTTTAATATTTAATATTAAT
1 TAATTATTTAAATATTATATCTATTTTAATATTAAATATTAAT
15879060 TAATTA
1 TAATTA
15879066 AATTGATTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
41 2 0.05
42 9 0.21
43 31 0.74
ACGTcount: A:0.41, C:0.02, G:0.01, T:0.55
Consensus pattern (43 bp):
TAATTATTTAAATATTATATCTATTTTAATATTAAATATTAAT
Found at i:15879042 original size:17 final size:18
Alignment explanation
Indices: 15879005--15879049 Score: 56
Period size: 17 Copynumber: 2.5 Consensus size: 18
15878995 GCTATTTAAA
15879005 TTAAATATTATTTAATTAT
1 TTAAATATTA-TTAATTAT
*
15879024 TTAAATATTA-TATTTAT
1 TTAAATATTATTAATTAT
*
15879041 TTTAATATT
1 TTAAATATT
15879050 TAATATTAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 14 0.58
19 10 0.42
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTAAATATTATTAATTAT
Found at i:15879090 original size:5 final size:4
Alignment explanation
Indices: 15879054--15879126 Score: 53
Period size: 4 Copynumber: 17.5 Consensus size: 4
15879044 AATATTTAAT
* *
15879054 ATTA ATTA ATTAA ATTG ATTA TATTA ATTA ATATA ATT- ATTA AGTA AGTTA
1 ATTA ATTA ATT-A ATTA ATTA -ATTA ATTA AT-TA ATTA ATTA ATTA A-TTA
15879105 ATATA ATATA A-TA ATT- ATTA AT
1 AT-TA AT-TA ATTA ATTA ATTA AT
15879127 AACCTTTTGT
Statistics
Matches: 57, Mismatches: 4, Indels: 16
0.74 0.05 0.21
Matches are distributed among these distances:
3 9 0.16
4 25 0.44
5 23 0.40
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (4 bp):
ATTA
Found at i:15879363 original size:22 final size:22
Alignment explanation
Indices: 15879337--15879383 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
15879327 TAATTTATTA
15879337 ATATTCTAAATT-TTAATTAAAG
1 ATATTCTAAATTATTAATT-AAG
* *
15879359 ATATTTTAATTTATTAATTAAG
1 ATATTCTAAATTATTAATTAAG
15879381 ATA
1 ATA
15879384 ATAATTAAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 16 0.73
23 6 0.27
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.49
Consensus pattern (22 bp):
ATATTCTAAATTATTAATTAAG
Found at i:15879415 original size:10 final size:10
Alignment explanation
Indices: 15879400--15879433 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
15879390 AAACTACTAT
15879400 ATAATAATTA
1 ATAATAATTA
15879410 ATAAT-ATTA
1 ATAATAATTA
*
15879419 ATAATATTTA
1 ATAATAATTA
15879429 ATAAT
1 ATAAT
15879434 TTAAGTACTA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 9 0.41
10 13 0.59
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
ATAATAATTA
Found at i:15879422 original size:19 final size:19
Alignment explanation
Indices: 15879381--15879437 Score: 64
Period size: 19 Copynumber: 3.1 Consensus size: 19
15879371 ATTAATTAAG
* *
15879381 ATAATAATTAA-ACTACTA
1 ATAATAATTAATAATATTA
15879399 TATAATAATTAATAATATTA
1 -ATAATAATTAATAATATTA
*
15879419 ATAATATTTAATAAT-TTA
1 ATAATAATTAATAATATTA
15879437 A
1 A
15879438 GTACTACTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 4 0.12
19 25 0.74
20 5 0.15
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.42
Consensus pattern (19 bp):
ATAATAATTAATAATATTA
Found at i:15879498 original size:15 final size:15
Alignment explanation
Indices: 15879461--15879492 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
15879451 AATAAATTAA
15879461 TAGAATAAATTATTT
1 TAGAATAAATTATTT
15879476 TAGAATAAATTATTT
1 TAGAATAAATTATTT
15879491 TA
1 TA
15879493 ATATAAGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (15 bp):
TAGAATAAATTATTT
Found at i:15880067 original size:19 final size:19
Alignment explanation
Indices: 15880013--15880068 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
15880003 ATTAATAGTC
*
15880013 AAATATTAAATTATTTTATTA
1 AAATATT-AATTA-TTAATTA
* *
15880034 AAA-ATAAACTATTAATTA
1 AAATATTAATTATTAATTA
15880052 AAATATTAATTATTAAT
1 AAATATTAATTATTAAT
15880069 ATTTCAAGCA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
18 9 0.31
19 15 0.52
20 2 0.07
21 3 0.10
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (19 bp):
AAATATTAATTATTAATTA
Found at i:15880441 original size:16 final size:16
Alignment explanation
Indices: 15880400--15880447 Score: 62
Period size: 16 Copynumber: 2.9 Consensus size: 16
15880390 ATTATAAAAA
15880400 TATTATAATTATTATAT
1 TATTATAA-TATTATAT
*
15880417 TATAATAATATTA-AT
1 TATTATAATATTATAT
15880432 TATTAGTAATATTATA
1 TATTA-TAATATTATA
15880448 AATATTAATA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
15 6 0.22
16 13 0.48
17 8 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TATTATAATATTATAT
Found at i:15880453 original size:18 final size:18
Alignment explanation
Indices: 15880397--15880454 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 18
15880387 AATATTATAA
15880397 AAATATTATAAT--TATT
1 AAATATTATAATAATATT
15880413 --ATATTATAATAATATT
1 AAATATTATAATAATATT
* *
15880429 AATTATTAGTAATATTA-T
1 AAATATTA-TAATAATATT
15880447 AAATATTA
1 AAATATTA
15880455 ATATAATAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 8
0.76 0.07 0.18
Matches are distributed among these distances:
14 10 0.29
16 4 0.12
18 13 0.38
19 7 0.21
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (18 bp):
AAATATTATAATAATATT
Found at i:15880570 original size:13 final size:14
Alignment explanation
Indices: 15880536--15880584 Score: 55
Period size: 16 Copynumber: 3.4 Consensus size: 14
15880526 TTATTAAACT
15880536 ATTAATAATAAATA
1 ATTAATAATAAATA
15880550 ATCATAATAATAAA-A
1 AT--TAATAATAAATA
*
15880565 ATTAATCAGTAAATA
1 ATTAAT-AATAAATA
15880580 ATTAA
1 ATTAA
15880585 ATGTTATTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
13 4 0.13
14 7 0.23
15 9 0.30
16 10 0.33
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (14 bp):
ATTAATAATAAATA
Found at i:15881349 original size:178 final size:179
Alignment explanation
Indices: 15880984--15881352 Score: 404
Period size: 178 Copynumber: 2.1 Consensus size: 179
15880974 CGATAAACAA
* *
15880984 ATTTATTTTTTAAAACTTTTGCTTATTAATTTTGAAAATATTAAGAAAGTAGTATTATTTTATTC
1 ATTTATTTTTTAAAACTTTTACTTATTAATTTTGAAAATATTAAGAAAGTAGAATTATTTTATTC
* * * * * * *
15881049 TAGATAAGCTTTTATAAATTGAAACAATTCTTTTATGTCAAAACAAAAGGTCATAATGATTTTAA
66 TAGATAAACTTGTATAAATTGAAACAA-T-ATTTATGACAAAACAAAAGGTCAGAACGATTTCAA
* * * *
15881114 ATAAATAATTATTCAAATAGTCATAACTATTTGAACTTGTTTGATAAATGG
129 ATAAATAATTATTCAAATAGTCATAACTATTTGAACTGGTTCGAGAAACGG
* ** * * *
15881165 ATTTATTTTTTCAAATCTTTTACTTATTAATTTTTCAAATATTAATAAATTTGAATTATTTTATT
1 ATTTATTTTTT-AAAACTTTTACTTATTAATTTTGAAAATATTAAGAAAGTAGAATTATTTTATT
* * *
15881230 CT-GAATAAACTTGTA-AGATATGAAATAA-ATTT-TGACTAAACAAAAGGTCAGAACGATTTCA
65 CTAG-ATAAACTTGTATAAAT-TGAAACAATATTTATGACAAAACAAAAGGTCAGAACGATTTCA
* * ** * * *
15881291 AATAGATAATTATTCTAATAGTTTTAATTATTTGAACTGGTTCGGGAAACGT
128 AATAAATAATTATTCAAATAGTCATAACTATTTGAACTGGTTCGAGAAACGG
15881343 ATTTATTTTT
1 ATTTATTTTT
15881353 AAATCTATAT
Statistics
Matches: 156, Mismatches: 29, Indels: 9
0.80 0.15 0.05
Matches are distributed among these distances:
178 75 0.48
179 3 0.02
181 15 0.10
182 63 0.40
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (179 bp):
ATTTATTTTTTAAAACTTTTACTTATTAATTTTGAAAATATTAAGAAAGTAGAATTATTTTATTC
TAGATAAACTTGTATAAATTGAAACAATATTTATGACAAAACAAAAGGTCAGAACGATTTCAAAT
AAATAATTATTCAAATAGTCATAACTATTTGAACTGGTTCGAGAAACGG
Found at i:15881442 original size:13 final size:13
Alignment explanation
Indices: 15881424--15881448 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15881414 TTATAATAAA
15881424 TTAGTTTTAAATT
1 TTAGTTTTAAATT
15881437 TTAGTTTTAAAT
1 TTAGTTTTAAAT
15881449 CTTTTATTAA
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:0.32, C:0.00, G:0.08, T:0.60
Consensus pattern (13 bp):
TTAGTTTTAAATT
Found at i:15882362 original size:21 final size:21
Alignment explanation
Indices: 15882317--15882363 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
15882307 ACAAAAGGTT
* *
15882317 TATAATTATAATTTAAAATAT
1 TATAATAATAATTTAAAATAG
* *
15882338 TATAATAATAATTTTATATAG
1 TATAATAATAATTTAAAATAG
15882359 TATAA
1 TATAA
15882364 ATTTAAATAA
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:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (21 bp):
TATAATAATAATTTAAAATAG
Found at i:15882387 original size:15 final size:15
Alignment explanation
Indices: 15882333--15882391 Score: 54
Period size: 15 Copynumber: 4.1 Consensus size: 15
15882323 TATAATTTAA
15882333 AATATTATAATAA-T
1 AATATTATAATAATT
* *
15882347 AATTTTAT-ATAGTAT
1 AATATTATAATAAT-T
15882362 AA-ATT-TAAATAATT
1 AATATTAT-AATAATT
15882376 AATATTATAATAATT
1 AATATTATAATAATT
15882391 A
1 A
15882392 TAAATTATTA
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
13 4 0.11
14 12 0.34
15 18 0.51
16 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.46
Consensus pattern (15 bp):
AATATTATAATAATT
Found at i:15882388 original size:25 final size:26
Alignment explanation
Indices: 15882360--15882417 Score: 68
Period size: 25 Copynumber: 2.3 Consensus size: 26
15882350 TTTATATAGT
*
15882360 ATAAATT-TAAATAATTAATATTATA
1 ATAAATTATAAATAATTAATAATATA
* *
15882385 AT-AATTATAAATTATTACTAATATA
1 ATAAATTATAAATAATTAATAATATA
15882410 AT-AATTAT
1 ATAAATTAT
15882418 GTTTATTAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 4 0.14
25 25 0.86
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (26 bp):
ATAAATTATAAATAATTAATAATATA
Found at i:15888512 original size:20 final size:19
Alignment explanation
Indices: 15888476--15888517 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
15888466 AATTACATAA
*
15888476 AAAATATAATTTTTTAATAT
1 AAAATATAATTTATTAAT-T
15888496 AAAAT-TAATTATATTAATT
1 AAAATATAATT-TATTAATT
15888515 AAA
1 AAA
15888518 TAGAATTATA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
AAAATATAATTTATTAATT
Found at i:15888562 original size:16 final size:16
Alignment explanation
Indices: 15888541--15888575 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
15888531 CAATAAATTA
* *
15888541 TTATATTAGTTATAAT
1 TTATATTAATAATAAT
15888557 TTATATTAATAATAAT
1 TTATATTAATAATAAT
15888573 TTA
1 TTA
15888576 AACAATAGTA
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:0.03, T:0.54
Consensus pattern (16 bp):
TTATATTAATAATAAT
Found at i:15889731 original size:182 final size:178
Alignment explanation
Indices: 15889260--15889744 Score: 476
Period size: 182 Copynumber: 2.7 Consensus size: 178
15889250 AAACTTATGT
* * * * *
15889260 GAACAAAAACATTAGTTTTATGACAAAATAAAAGGTCATAACAATTTGAAATAGATAATTGTTCA
1 GAACAAAAATATT-GTTTTATGACAAAACAAAAGGTTATATCAATTTGAAATAGATAATTATTC-
** * * * *
15889325 AATAATCATAGTTATTTGAATTGGTTAGGTAAATTGAATTATTTTTTAATTCTCTTACTTATTAA
64 AATAATCATAACTATTTGAATTGGTTATGTAAATAGATTTATTTTTTAAATCTCTTACTTATTAA
* * * *
15889390 TTTTTGAAAATTTAATTATTTTATTTTATTTTATTTTAAATAAGCTAGTAT
129 TTTTAGAAAATTTAATTA-TGTATTTTATTTTATTTCAAATAAGCTAGTAA
** *
15889441 GAATTGAAAATATTGTTTTATGACAAAACAAAAGGTTATAAT-GATTTGAAATAGATAATTATTC
1 GAA-CAAAAATATTGTTTTATGACAAAACAAAAGGTTAT-ATCAATTTGAAATAGATAATTATTC
* ** * ** * *
15889505 ATATAGTTTTAACTATTTGAACTAATTCAT-CAAATA-ATTTTATTTTTTAAATCTCTTAGTTAT
64 A-ATAATCATAACTATTTGAATTGGTT-ATGTAAATAGA-TTTATTTTTTAAATCTCTTACTTAT
* * *
15889568 TGATTTTCAGAATATTGTTAGATTA-GT-TTTTATTTTATTTCAAATAAGCTTGTAA
126 TAATTTT-AGAA-AAT-TTA-ATTATGTATTTTATTTTATTTCAAATAAGCTAGTAA
* * * * *
15889623 GAACAAAAATAATTGTTTTATGACAAAACAAAAGGTTATATCAATTTGAATTATACAACTACTCT
1 GAACAAAAAT-ATTGTTTTATGACAAAACAAAAGGTTATATCAATTTGAAATAGATAATTATTC-
* * *
15889688 AATACTCATAACTATTTGAATTGGTTTTGTAAACAGATTTATTTTTTAAATCTCTTA
64 AATAATCATAACTATTTGAATTGGTTATGTAAATAGATTTATTTTTTAAATCTCTTA
15889745 TTAATTTTTG
Statistics
Matches: 244, Mismatches: 46, Indels: 27
0.77 0.15 0.09
Matches are distributed among these distances:
180 2 0.01
181 103 0.42
182 127 0.52
183 5 0.02
184 3 0.01
185 4 0.02
ACGTcount: A:0.39, C:0.08, G:0.10, T:0.44
Consensus pattern (178 bp):
GAACAAAAATATTGTTTTATGACAAAACAAAAGGTTATATCAATTTGAAATAGATAATTATTCAA
TAATCATAACTATTTGAATTGGTTATGTAAATAGATTTATTTTTTAAATCTCTTACTTATTAATT
TTAGAAAATTTAATTATGTATTTTATTTTATTTCAAATAAGCTAGTAA
Found at i:15889849 original size:16 final size:16
Alignment explanation
Indices: 15889828--15889877 Score: 57
Period size: 19 Copynumber: 3.0 Consensus size: 16
15889818 TTACTATCTT
15889828 ATAAATATTATTAATA
1 ATAAATATTATTAATA
15889844 ATAAATTTTATTATTAATA
1 ATAAA---TATTATTAATA
*
15889863 CTAAA-ATTATTAATA
1 ATAAATATTATTAATA
15889878 TTAGTAAAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
15 10 0.33
16 5 0.17
19 15 0.50
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAAATATTATTAATA
Found at i:15889874 original size:18 final size:18
Alignment explanation
Indices: 15889833--15889889 Score: 60
Period size: 18 Copynumber: 3.1 Consensus size: 18
15889823 ATCTTATAAA
*
15889833 TATTATTAATAATAAATTT
1 TATTATTAATAATAAA-AT
*
15889852 TATTATTAATACTAAAAT
1 TATTATTAATAATAAAAT
* * *
15889870 TATTAATATTAGTAAAAT
1 TATTATTAATAATAAAAT
15889888 TA
1 TA
15889890 AATTATTATG
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
18 18 0.55
19 15 0.45
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (18 bp):
TATTATTAATAATAAAAT
Found at i:15890027 original size:27 final size:27
Alignment explanation
Indices: 15889995--15890049 Score: 85
Period size: 27 Copynumber: 2.0 Consensus size: 27
15889985 AAAATAATTA
15889995 ATTAATAACAA-AAGTATTGTTATTATT
1 ATTAATAACAATAAGTATT-TTATTATT
*
15890022 ATTAATAACAATAATTATTTTATTATT
1 ATTAATAACAATAAGTATTTTATTATT
15890049 A
1 A
15890050 AACTAATAGC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
27 20 0.77
28 6 0.23
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (27 bp):
ATTAATAACAATAAGTATTTTATTATT
Found at i:15890749 original size:23 final size:23
Alignment explanation
Indices: 15890723--15890766 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
15890713 AGATAATCTG
*
15890723 ATATAATACTTATTAA-AATTATT
1 ATATAATA-TAATTAACAATTATT
*
15890746 ATATTATATAATTAACAATTA
1 ATATAATATAATTAACAATTA
15890767 AATTATTATT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.33
23 12 0.67
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (23 bp):
ATATAATATAATTAACAATTATT
Found at i:15891031 original size:23 final size:25
Alignment explanation
Indices: 15890986--15891031 Score: 69
Period size: 23 Copynumber: 1.9 Consensus size: 25
15890976 TATTATAAGT
15890986 ATATTATGTAAATTATAATTTATAA
1 ATATTATGTAAATTATAATTTATAA
*
15891011 ATATTAT-TAGATTA-AATTTAT
1 ATATTATGTAAATTATAATTTAT
15891032 CTTACTTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 7 0.35
24 6 0.30
25 7 0.35
ACGTcount: A:0.46, C:0.00, G:0.04, T:0.50
Consensus pattern (25 bp):
ATATTATGTAAATTATAATTTATAA
Found at i:15891269 original size:20 final size:20
Alignment explanation
Indices: 15891244--15891287 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
15891234 TTTTATTTGT
*
15891244 TTATTATTTAAAAATAATAA
1 TTATTAATTAAAAATAATAA
* *
15891264 TTATTAATTAATAATACTAA
1 TTATTAATTAAAAATAATAA
15891284 TTAT
1 TTAT
15891288 GGTAGTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (20 bp):
TTATTAATTAAAAATAATAA
Found at i:15891384 original size:20 final size:19
Alignment explanation
Indices: 15891355--15891393 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
15891345 AATTAGTTTT
15891355 TAAATATTCT-TATATTTAA
1 TAAATATTCTAT-TATTTAA
15891374 TAAATTATTCTATTATTTAA
1 TAAA-TATTCTATTATTTAA
15891394 ATATATAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 4 0.22
20 13 0.72
21 1 0.06
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (19 bp):
TAAATATTCTATTATTTAA
Found at i:15892217 original size:23 final size:24
Alignment explanation
Indices: 15892180--15892226 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
15892170 AGATTAAATT
* *
15892180 ATAATAAATATATT-ATTTATTTA
1 ATAATAAATAAATTAATATATTTA
*
15892203 ATAATAAGTAAATTAATATATTTA
1 ATAATAAATAAATTAATATATTTA
15892227 TTATAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (24 bp):
ATAATAAATAAATTAATATATTTA
Found at i:15892244 original size:29 final size:28
Alignment explanation
Indices: 15892172--15892244 Score: 82
Period size: 29 Copynumber: 2.6 Consensus size: 28
15892162 ATTTTATAAG
15892172 ATTA-AATTATAATAAA-TATATTATTT
1 ATTATAATTATAATAAATTATATTATTT
*
15892198 ATT-TAATAATAAGTAAATTA-ATATATTT
1 ATTATAATTATAA-TAAATTATAT-TATTT
15892226 ATTATAATTATAATCAAAT
1 ATTATAATTATAAT-AAAT
15892245 CATAATGATC
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 11 0.28
29 12 0.31
ACGTcount: A:0.51, C:0.01, G:0.01, T:0.47
Consensus pattern (28 bp):
ATTATAATTATAATAAATTATATTATTT
Found at i:15892615 original size:178 final size:178
Alignment explanation
Indices: 15892259--15893181 Score: 713
Period size: 179 Copynumber: 5.2 Consensus size: 178
15892249 ATGATCTTTA
* *** ** * * *
15892259 TTTTGTCATACAACAATTGTTTCCTTTCATACAAGCTTATTCAGATTAAAATGATACTAATTTAA
1 TTTTGTCATAAAACAATTGTTTTAGTTCATACAAGCTTATTTGGAATAAAATAATACTAATTTAT
* * *
15892324 TAATATTTC-AAAAATTAA-TAAGAGATTTAAAAAATAAATATG-TTAGCTGAACTAGTTCAAAT
66 TAATATTTCAAAAAATTAAGCAAGAGATTTAAAAAATAAATCTGTTTA-CTGAACAAGTTCAAAT
** *
15892386 AGTTAAAACTA-TTAGAATAATTATCTATTTCAAATCATTCT-ATCCTTTT
130 AGTTATGACTATTTA-AATAATTATCTATTTCAAATCATTCTGA-CATTTT
*
15892435 TTTTAGTCATAAAACAATTATTTTAGTTCAT-CAAGCTTATTTGGAATAAAATAATACTAATTTA
1 TTTT-GTCATAAAACAATTGTTTTAGTTCATACAAGCTTATTTGGAATAAAATAATACTAATTTA
* * *
15892499 TTAACA-TTCAAAAAATTAAGCGAGAGATTTTAAAAAATAAATCTGTTTACTGAACAATTTCAAA
65 TTAATATTTCAAAAAATTAAGCAAGAGA-TTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAA
* * * * * *
15892563 TAGATATGATTATTTAAACAATTATCTATTTTAAATTATTTTGACA-TTT
129 TAGTTATGACTATTTAAATAATTATCTATTTCAAATCATTCTGACATTTT
* * * * * * *
15892612 TTTTGTCATAAAACAATTGTTTCAGTTAATAAAAACTTATTTGAAATAAAATAATTCTACTTTAT
1 TTTTGTCATAAAACAATTGTTTTAGTTCATACAAGCTTATTTGGAATAAAATAATACTAATTTAT
* * * *
15892677 TAATATTTCAAAAATTATTAAGCAAGAGATTTAAAAACTAAAGCTGTTT-TTCAA-AGCAGTT-A
66 TAATATTTCAAAAA--ATTAAGCAAGAGATTTAAAAAATAAATCTGTTTACTGAACA--AGTTCA
* * * * * * *
15892739 TAATAGTTTTGACTATTTGAATAAATAT-TAATCTCAAATCGTTATGATC-TTTG
127 -AATAGTTATGACTATTTAAATAATTATCT-ATTTCAAATCATTCTGA-CATTTT
* * * * *
15892792 TTTTGTCATAAAACAATT-TTTT-TTATCATATAAACTGATTTAG-ATAAAAATAATACTAATTT
1 TTTTGTCATAAAACAATTGTTTTAGT-TCATACAAGCTTATTTGGAAT-AAAATAATACTAATTT
* * * * * * * * * * *
15892854 AATAATATTTTGAAAATTAGTAAGTACGAGATTTAACAAATAAATGTGTTT-GTCGATC-CGTTC
64 ATTAATA-TTTCAAAA-AATTAAGCAAGAGATTTAAAAAATAAATCTGTTTACT-GAACAAGTTC
* * * ** *
15892917 AAATAGTTAAGATTA-TTAGAATAATTATCTATTTCAAATCGTTCAAACCTTTT
126 AAATAGTTATGACTATTTA-AATAATTATCTATTTCAAATCATTCTGACATTTT
** * * * * *
15892970 GTTTAATCATAAAATAATTGTTTCAGTTCATACAAGTTTATTTGAAAGAAAATAATACTAATTTA
1 -TTTTGTCATAAAACAATTGTTTTAGTTCATACAAGCTTATTTGGAATAAAATAATACTAATTTA
* * * * *
15893035 TCAACT-TTTGAAAGATTAA-TAAGCAAGATATTTGAAAAACTAAATTTGTTTA-TCGAACAAGT
65 TTAA-TATTTCAAA-A--AATTAAGCAAGAGATTT-AAAAAATAAATCTGTTTACT-GAACAAGT
* * * *
15893097 TCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTGTGA-ATTTTT
124 TCAAATAGTTATGACTATTTAAATAATTATCTATTTCAAATCATTCTGACA-TTTT
15893152 GTTTTGTCATAAAACAATTGTTTTAGTTCA
1 -TTTTGTCATAAAACAATTGTTTTAGTTCA
15893182 CAAAAGTTTA
Statistics
Matches: 586, Mismatches: 122, Indels: 72
0.75 0.16 0.09
Matches are distributed among these distances:
175 3 0.01
176 69 0.12
177 70 0.12
178 114 0.19
179 148 0.25
180 87 0.15
181 24 0.04
182 69 0.12
183 2 0.00
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.41
Consensus pattern (178 bp):
TTTTGTCATAAAACAATTGTTTTAGTTCATACAAGCTTATTTGGAATAAAATAATACTAATTTAT
TAATATTTCAAAAAATTAAGCAAGAGATTTAAAAAATAAATCTGTTTACTGAACAAGTTCAAATA
GTTATGACTATTTAAATAATTATCTATTTCAAATCATTCTGACATTTT
Found at i:15893246 original size:535 final size:529
Alignment explanation
Indices: 15892239--15893253 Score: 1231
Period size: 535 Copynumber: 1.9 Consensus size: 529
15892229 ATAATTATAA
* * *
15892239 TCAAATCATAATGATCTTTATTTTGTCATACAACAATTGTTTCCTTTCATACAAGCTTATTCAGA
1 TCAAATCATAATGATCTTTATTTTGTCATAAAACAATTGTTTCCTTTCATACAAACTGATTCAGA
* * *
15892304 TTAAAATGATACTAATTTAATAATATTTCAAAAATTAATAAGAGATTTAAAAAATAAATATGTTA
66 TAAAAATAATACTAATTTAATAATATTTCAAAAAGTAATAAGAGATTTAAAAAATAAATATGTTA
* *
15892369 GCTGAACTAGTTCAAATAGTTAAAACTATTAGAATAATTATCTATTTCAAATCATTCTATCCTTT
131 GCTGAACTAGTTCAAATAGTTAAAACTATTAGAATAATTATCTATTTCAAATCATTCAAACCTTT
* * * * *
15892434 TTTTTAGTCATAAAACAATTATTTTAGTTCATCAAGCTTATTTGGAATAAAATAATACTAATTTA
196 TGTTTAATCATAAAACAATTATTTCAGTTCATCAAGCTTATTTGAAAGAAAATAATACTAATTTA
* * * *
15892499 TTAACATTCAAAAAATTAAGCGAGAGATTTTAAAAAATAAATCTGTTTACTGAACAATTTCAAAT
261 TCAACATTCAAAAAATTAAGCAAGAGATTTGAAAAAATAAATCTGTTTACTGAACAAGTTCAAAT
* * * *
15892564 AGATATGATTATTTAAACAATTATCTATTTTAAATTATTTTGACATTTTTTTGTCATAAAACAAT
326 AGATATGACTATTTAAACAATTATCTATTTAAAATCATTGTGACATTTTTTTGTCATAAAACAAT
* *** *
15892629 TGTTTCAGTTAATAAAAACTTATTTGAAATAAAATAATTCTACTTTATTAATATTTCAAAAATTA
391 TGTTTCAGTTAACAAAAACTTATCCAAAATAAAATAATACTACTTTATTAATATTTCAAAAA-TA
*
15892694 TTAAGCAAGAGATTTAAAAACTAAAGCTGTTTTTCAAAGCAGTTATAATAGTTTTGACTATTTGA
455 TT-A--AAGAGATTTAAAAAATAAAGCTGTTTTTCAAAGCAGTTATAATAGTTTTGACTATTTGA
15892759 ATAAATATTAATC
517 ATAAATATTAATC
* * * * * *
15892772 TCAAATCGTTATGATCTTTGTTTTGTCATAAAACAATT-TTT-TTTATCATATAAACTGATTTAG
1 TCAAATCATAATGATCTTTATTTTGTCATAAAACAATTGTTTCCTT-TCATACAAACTGATTCAG
* * * *
15892835 ATAAAAATAATACTAATTTAATAATATTTTGAAAATTAGTAAGTACGAGATTTAACAAATAAATG
65 ATAAAAATAATACTAATTTAATAATA-TTTCAAAA--AGTAA-TAAGAGATTTAAAAAATAAATA
* * * * * *
15892900 TGTTTG-TCGATC-CGTTCAAATAGTTAAGATTATTAGAATAATTATCTATTTCAAATCGTTCAA
126 TGTTAGCT-GAACTAGTTCAAATAGTTAAAACTATTAGAATAATTATCTATTTCAAATCATTCAA
* * *
15892963 ACCTTTTGTTTAATCATAAAATAATTGTTTCAGTTCATACAAGTTTATTTGAAAGAAAATAATAC
190 ACCTTTTGTTTAATCATAAAACAATTATTTCAGTTCAT-CAAGCTTATTTGAAAGAAAATAATAC
* * * * *
15893028 TAATTTATCAACTTTTGAAAGATTAA-TAAGCAAGATATTTGAAAAACTAAATTTGTTTA-TCGA
254 TAATTTATCAAC-ATTCAAA-A--AATTAAGCAAGAGATTTGAAAAAATAAATCTGTTTACT-GA
* *
15893091 ACAAGTTCAAATAGTTATGACTATTTGAACAATTATCTATTTAAAATCATTGTGA-ATTTTTGTT
314 ACAAGTTCAAATAGATATGACTATTTAAACAATTATCTATTTAAAATCATTGTGACA--TTT-TT
* * ** * *
15893155 TTGTCATAAAACAATTGTTTTAGTTCACAAAAGTTTATCCAAAATCAAATAATACTACTTTTCTT
376 TTGTCATAAAACAATTGTTTCAGTTAACAAAAACTTATCCAAAATAAAATAATACTAC-TTTATT
**
15893220 AATATTT-TGAAA-ATT-AAGAGATTTAAAAAATAAA
440 AATATTTCAAAAATATTAAAGAGATTTAAAAAATAAA
15893254 TTAGTTTACT
Statistics
Matches: 405, Mismatches: 61, Indels: 30
0.82 0.12 0.06
Matches are distributed among these distances:
531 2 0.00
532 41 0.10
533 41 0.10
535 101 0.25
536 61 0.15
537 5 0.01
538 3 0.01
539 81 0.20
540 5 0.01
541 53 0.13
542 12 0.03
ACGTcount: A:0.41, C:0.10, G:0.09, T:0.40
Consensus pattern (529 bp):
TCAAATCATAATGATCTTTATTTTGTCATAAAACAATTGTTTCCTTTCATACAAACTGATTCAGA
TAAAAATAATACTAATTTAATAATATTTCAAAAAGTAATAAGAGATTTAAAAAATAAATATGTTA
GCTGAACTAGTTCAAATAGTTAAAACTATTAGAATAATTATCTATTTCAAATCATTCAAACCTTT
TGTTTAATCATAAAACAATTATTTCAGTTCATCAAGCTTATTTGAAAGAAAATAATACTAATTTA
TCAACATTCAAAAAATTAAGCAAGAGATTTGAAAAAATAAATCTGTTTACTGAACAAGTTCAAAT
AGATATGACTATTTAAACAATTATCTATTTAAAATCATTGTGACATTTTTTTGTCATAAAACAAT
TGTTTCAGTTAACAAAAACTTATCCAAAATAAAATAATACTACTTTATTAATATTTCAAAAATAT
TAAAGAGATTTAAAAAATAAAGCTGTTTTTCAAAGCAGTTATAATAGTTTTGACTATTTGAATAA
ATATTAATC
Found at i:15893542 original size:21 final size:21
Alignment explanation
Indices: 15893508--15893563 Score: 76
Period size: 21 Copynumber: 2.6 Consensus size: 21
15893498 TATTTAATTT
15893508 TATTATATATAATTCTTTAAAG
1 TATTA-ATATAATTCTTTAAAG
* *
15893530 TATTAATTTAATTCTTTAAAT
1 TATTAATATAATTCTTTAAAG
*
15893551 TATTTATATAATT
1 TATTAATATAATT
15893564 AAAATTAATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 25 0.83
22 5 0.17
ACGTcount: A:0.39, C:0.04, G:0.02, T:0.55
Consensus pattern (21 bp):
TATTAATATAATTCTTTAAAG
Found at i:15895286 original size:182 final size:179
Alignment explanation
Indices: 15894944--15895475 Score: 542
Period size: 182 Copynumber: 3.0 Consensus size: 179
15894934 TTGTTTTTTG
* * * * * * *
15894944 TCATACATGATTATTCGAAATAAAATAATAAT-AATTTATTAATCTTTC-AAAAAT--TAA-TAA
1 TCATACAAGCTTATTCAAAATAAAATAA-AATGAATCTAATAATATTCCAAAAAATAATAACTAA
* * * *
15895004 GAAATTTAAAAAATAAATTTGTTTACTAAACCAGTTCAAATAGTTATGACTATTTGAATAATTCT
65 GAGATTTAAAAAATAAATTTGTTTACTAAACCAGTTCAAATAGTTAAGACTATTTGAACAATTAT
* * *
15895069 ATACTTCAAATCATTATAACCTTTTGTTATGTCATAAAACAATTATT-TCTAT
130 ATATTTCAAATCATTATAA-TTTTTGTT-TGTCATAAAACAATT-TTCTCAAT
* * *
15895121 TCATACAAGCTTGTTCAAAATAAAA-AAAATACTAATCTAATAATATTCCAAAAATTAATAACTA
1 TCATACAAGCTTATTCAAAATAAAATAAAAT--GAATCTAATAATATTCCAAAAAATAATAACTA
* ** * *
15895185 AGGGATTTAAAAAATAAATTTGTTTACCGAACCAATTCAAATAGTTAAGACTATATGAACAATTA
64 AGAGATTTAAAAAATAAATTTGTTTACTAAACCAGTTCAAATAGTTAAGACTATTTGAACAATTA
* * * *
15895250 TCTATTTTAAATCGTTATGATATTTTGTCTTGTCATAAAACAATTTTCTCAAT
129 TATATTTCAAATCATTATAAT-TTTTGT-TTGTCATAAAACAATTTTCTCAAT
* * * * *
15895303 TCATACTAGCTTATTCAAAATAAAATAAAATGAATTTATTAATATTTCAAAAAATAATAAGTAAG
1 TCATACAAGCTTATTCAAAATAAAATAAAATGAATCTAATAATATTCCAAAAAATAATAACTAAG
* * * * * *
15895368 ATATTTAAAAAAT-AATTCTATTTACTTAACCAGTTCAAAAAATT-ATACTATTTGAACAATTAT
66 AGATTTAAAAAATAAATT-TGTTTACTAAACCAGTTCAAATAGTTAAGACTATTTGAACAATTAT
* * *
15895431 ATATTTCAAATCATTATTACTTTTTGTTTTGTTATAAAATAATTT
130 ATATTTCAAATCATTA-TAATTTTTG-TTTGTCATAAAACAATTT
15895476 ATAGCTAATA
Statistics
Matches: 291, Mismatches: 50, Indels: 25
0.80 0.14 0.07
Matches are distributed among these distances:
175 3 0.01
176 2 0.01
177 21 0.07
178 12 0.04
179 5 0.02
180 54 0.19
181 67 0.23
182 121 0.42
183 6 0.02
ACGTcount: A:0.44, C:0.11, G:0.06, T:0.39
Consensus pattern (179 bp):
TCATACAAGCTTATTCAAAATAAAATAAAATGAATCTAATAATATTCCAAAAAATAATAACTAAG
AGATTTAAAAAATAAATTTGTTTACTAAACCAGTTCAAATAGTTAAGACTATTTGAACAATTATA
TATTTCAAATCATTATAATTTTTGTTTGTCATAAAACAATTTTCTCAAT
Found at i:15895966 original size:22 final size:20
Alignment explanation
Indices: 15895938--15895987 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 20
15895928 TTTATTAATC
15895938 TATAATTA-TAATTATGATTA
1 TATAATTAGTAA-TATGATTA
*
15895958 TTTATAATTAGTAATATTATTA
1 --TATAATTAGTAATATGATTA
15895980 TATAATTA
1 TATAATTA
15895988 ATTAATGATT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
20 8 0.31
22 15 0.58
23 3 0.12
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.52
Consensus pattern (20 bp):
TATAATTAGTAATATGATTA
Found at i:15895998 original size:22 final size:21
Alignment explanation
Indices: 15895946--15895998 Score: 67
Period size: 20 Copynumber: 2.6 Consensus size: 21
15895936 TCTATAATTA
15895946 TAATT-ATGATTATTTATAAT
1 TAATTAATGATTATTTATAAT
*
15895966 T-AGTAAT-ATTATTATATAAT
1 TAATTAATGATTATT-TATAAT
15895986 TAATTAATGATTA
1 TAATTAATGATTA
15895999 ATTAACTAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
19 8 0.30
20 10 0.37
21 5 0.19
22 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (21 bp):
TAATTAATGATTATTTATAAT
Found at i:15896837 original size:22 final size:22
Alignment explanation
Indices: 15896806--15896854 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
15896796 ATATCTCAAT
* *
15896806 TATTATTAATAATTATTATATA
1 TATTACTAATAATTAATATATA
15896828 TATTACTAATAATTAATATATA
1 TATTACTAATAATTAATATATA
15896850 TATTA
1 TATTA
15896855 GTTAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
TATTACTAATAATTAATATATA
Found at i:15897124 original size:20 final size:21
Alignment explanation
Indices: 15897101--15897144 Score: 65
Period size: 20 Copynumber: 2.1 Consensus size: 21
15897091 ACTAATTTAT
15897101 TAAATTTAATTATT-AT-CAAA
1 TAAATTT-ATTATTAATGCAAA
15897121 TAAATTTATTATTAATGCAAA
1 TAAATTTATTATTAATGCAAA
15897142 TAA
1 TAA
15897145 GCTTGTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 6 0.27
20 9 0.41
21 7 0.32
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (21 bp):
TAAATTTATTATTAATGCAAA
Found at i:15897711 original size:181 final size:180
Alignment explanation
Indices: 15897138--15897775 Score: 555
Period size: 181 Copynumber: 3.6 Consensus size: 180
15897128 ATTATTAATG
* * * * ** * *
15897138 CAAATAAGCTTGTATAAATAGAAACAATTGTTTTACAATAAAACAAAATGTAAT-ATGATTTGAA
1 CAAATAAGCCTGTATGAACAGAAA-AATTTTTTTATGACAAAACAAAAAGTAATAATGATTTGAA
* * * ** * * * ***
15897202 ATAAATAATTGCTCAAATAGTCATAACTATTTGAA-CTAGTTTGATACATAGATTTATTGCCTAA
65 ATATATAATTGTTCAAATAGTCATAACTATTTGAATC-AGTTAGGCAAACAGAATTATTTTTTAA
* * *
15897266 AT--C--ACTTATTAATTTTTAAAATATTAATAGATTAGTATTACTTTATTC
129 ATCCCTTACTTATTAATTTTTGAAATATTAATAGATTAGTATTATTTTATTT
* * * *
15897314 CAAATAAACTTATATGAACA-AAAACATTTGTTGTATGACAAAACAAAAAGTAATAATGATTTGA
1 CAAATAAGCCTGTATGAACAGAAAA-ATTT-TTTTATGACAAAACAAAAAGTAATAATGATTTGA
* * * * *
15897378 AATATATAATTGTTCAAATAGT-ATAATTTTTTAAACCAGTTAGGTAAACAGAATTATTTTTTAA
64 AATATATAATTGTTCAAATAGTCATAACTATTTGAATCAGTTAGGCAAACAGAATTATTTTTTAA
** * * *
15897442 ATCTTTTACTTATTATTTTTTGAAATATTAATAAATTCA-TTTTATTTTATTT
129 ATCCCTTACTTATTAATTTTTGAAATATTAATAGATT-AGTATTATTTTATTT
** * * * *
15897494 CAAATAAG-CTAGTATGAATTGAGAAAATTCTTTTATGACAAGACAAAAAGTCATAACGATTTGA
1 CAAATAAGCCT-GTATGAACAGA-AAAATTTTTTTATGACAAAACAAAAAGTAATAATGATTTGA
* * * *
15897558 AATAGATAATTGTTCATATAGTCTTAACTATTTGAATTAGTTCA-GCAAACA-AATTTATTTTTT
64 AATATATAATTGTTCAAATAGTCATAACTATTTGAATCAGTT-AGGCAAACAGAA-TTATTTTTT
* * * * *
15897621 TAATCCCTTAGTTATTAATTTTTGGAATATTATTAGATTAGTATTGTTTTATTT
127 AAATCCCTTACTTATTAATTTTTGAAATATTAATAGATTAGTATTATTTTATTT
** * *
15897675 TGAATAAGCCTGTATGAACAGAAATAATTTTTTTATGA-AATAACAAAAGGTTATAATGATTTGA
1 CAAATAAGCCTGTATGAACAGAAA-AATTTTTTTATGACAA-AACAAAAAGTAATAATGATTTGA
** * *
15897739 CGTATAGAATTGTTCAAATAATCATAACTATTTGAAT
64 AATATATAATTGTTCAAATAGTCATAACTATTTGAAT
15897776 ATAAATAGTA
Statistics
Matches: 368, Mismatches: 75, Indels: 33
0.77 0.16 0.07
Matches are distributed among these distances:
174 1 0.00
175 6 0.02
176 66 0.18
177 30 0.08
179 1 0.00
180 107 0.29
181 151 0.41
182 6 0.02
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.40
Consensus pattern (180 bp):
CAAATAAGCCTGTATGAACAGAAAAATTTTTTTATGACAAAACAAAAAGTAATAATGATTTGAAA
TATATAATTGTTCAAATAGTCATAACTATTTGAATCAGTTAGGCAAACAGAATTATTTTTTAAAT
CCCTTACTTATTAATTTTTGAAATATTAATAGATTAGTATTATTTTATTT
Found at i:15898034 original size:23 final size:24
Alignment explanation
Indices: 15897993--15898039 Score: 62
Period size: 23 Copynumber: 2.0 Consensus size: 24
15897983 ATAAAACTAT
*
15897993 TATAAATTTTAATACAA-TTATAA
1 TATAAATTATAATACAATTTATAA
15898016 TATAAATTATAA-ACTAATTTATAA
1 TATAAATTATAATAC-AATTTATAA
15898040 ATTAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 2 0.10
23 13 0.62
24 6 0.29
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.43
Consensus pattern (24 bp):
TATAAATTATAATACAATTTATAA
Found at i:15898259 original size:30 final size:30
Alignment explanation
Indices: 15898225--15898312 Score: 80
Period size: 27 Copynumber: 3.0 Consensus size: 30
15898215 AAGTTATTAA
*
15898225 ATAATATATTAATAATTATTTACTATAATT
1 ATAATATATTAATAATTATTTATTATAATT
*
15898255 AT-A-ATGTT-ATAA-TATTCTATTATAA-T
1 ATAATATATTAATAATTATT-TATTATAATT
*
15898281 ATAAT-TAATTAATATATAATTTATTATAATT
1 ATAATAT-ATTAATA-ATTATTTATTATAATT
15898312 A
1 A
15898313 AATTCTATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 15
0.71 0.06 0.23
Matches are distributed among these distances:
26 7 0.15
27 13 0.28
28 6 0.13
29 4 0.09
30 11 0.24
31 5 0.11
ACGTcount: A:0.47, C:0.02, G:0.01, T:0.50
Consensus pattern (30 bp):
ATAATATATTAATAATTATTTATTATAATT
Found at i:15898340 original size:56 final size:56
Alignment explanation
Indices: 15898232--15898340 Score: 125
Period size: 56 Copynumber: 1.9 Consensus size: 56
15898222 TAAATAATAT
* **
15898232 ATTAATAATTATTTACTATAATTATAATGTTATAATATTCTATTATAATATAATTA
1 ATTAATAATAATTTACTATAATTATAATGTTATAATAGACTATTATAATATAATTA
* *
15898288 ATTAATATATAATTTATTATAATTA-AAT-TCTATATATAGACTA-TATATTATAA
1 ATTAATA-ATAATTTACTATAATTATAATGT-TATA-ATAGACTATTATAATATAA
15898341 AGTTATAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
55 1 0.02
56 23 0.51
57 21 0.47
ACGTcount: A:0.46, C:0.04, G:0.02, T:0.49
Consensus pattern (56 bp):
ATTAATAATAATTTACTATAATTATAATGTTATAATAGACTATTATAATATAATTA
Found at i:15898409 original size:32 final size:31
Alignment explanation
Indices: 15898343--15898429 Score: 79
Period size: 32 Copynumber: 2.7 Consensus size: 31
15898333 TATTATAAAG
* **
15898343 TTATAATTAATAAATAATAAATTAATGTATTA
1 TTATAATTAAT-AATAATAATTTAACATATTA
15898375 TTATAATTAATAATAATAATTTAAACAT-TCTA
1 TTATAATTAATAATAATAATTT-AACATAT-TA
15898407 TTATTAAATATAAT-ATAATAATT
1 TTA-T-AAT-TAATAATAATAATT
15898430 ATAAGTTAAT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
31 11 0.23
32 19 0.40
33 1 0.02
34 12 0.26
35 4 0.09
ACGTcount: A:0.52, C:0.02, G:0.01, T:0.45
Consensus pattern (31 bp):
TTATAATTAATAATAATAATTTAACATATTA
Found at i:15898450 original size:40 final size:38
Alignment explanation
Indices: 15898357--15898450 Score: 91
Period size: 40 Copynumber: 2.4 Consensus size: 38
15898347 AATTAATAAA
* *
15898357 TAATAAATTAATGTATTATTATAATTAATAATAATAATT
1 TAATAAATTAAT-TATTAATATAATTAATAATAATAAGT
* * *
15898396 TAA-ACATTCTATTATTAAATATAATATAATAATTATAAGT
1 TAATAAATT-AATTATT-AATATAAT-TAATAATAATAAGT
*
15898436 TAATATATTAATTAT
1 TAATAAATTAATTAT
15898451 ATTATTTTTA
Statistics
Matches: 44, Mismatches: 7, Indels: 7
0.76 0.12 0.12
Matches are distributed among these distances:
38 8 0.18
39 12 0.27
40 20 0.45
41 4 0.09
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (38 bp):
TAATAAATTAATTATTAATATAATTAATAATAATAAGT
Found at i:15898535 original size:25 final size:25
Alignment explanation
Indices: 15898510--15898567 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 25
15898500 TTGTTCAAAA
15898510 TAAAATA-ATATTATTATTATTTAAAT
1 TAAAATACAT-TT-TTATTATTTAAAT
* *
15898536 TAATATACATTTTTATTATTTTAAT
1 TAAAATACATTTTTATTATTTAAAT
*
15898561 TATAATA
1 TAAAATA
15898568 TTAATAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 17 0.63
26 8 0.30
27 2 0.07
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (25 bp):
TAAAATACATTTTTATTATTTAAAT
Found at i:15899203 original size:180 final size:181
Alignment explanation
Indices: 15898874--15899204 Score: 402
Period size: 180 Copynumber: 1.8 Consensus size: 181
15898864 AATTATTTAG
* * **
15898874 TCGATAAATAGATTTATTTTTTTAAATCTCTTTCTTATTAATTTTTTGAATATTAATAAATTAGT
1 TCGATAAACAAATTTATTTTTTTAAATCTCTTTCTTATTAATTTTTAAAATATTAATAAATTAGT
* ** * * *
15898939 ATTAATTTATTCTGAATAAGCTTGTATGAACTAAAACAATTGTTTTATGACTAAACAAAAGGTCA
66 ATTAATTTATTCAGAATAAGCTTGTACAAACTAAAACAATTGTTTTATGACAAAAAAAAAAGTCA
* *
15899004 AAACGATTTCAACTAGATAATTATTCAATTGTCTTAGCTATTTGAACTAAT
131 AAACGATGTCAAATAGATAATTATTCAATTGTCTTAGCTATTTGAACTAAT
* *
15899055 TCGATAAACAAATTTA-TTTTTTAAGTCTCTTAT-TTATTAATTTTTAAAATATTATTAAATTAG
1 TCGATAAACAAATTTATTTTTTTAAATCTCTT-TCTTATTAATTTTTAAAATATTAATAAATTAG
* * * *
15899118 TATTATTTTAATT-AGAATAAGTTTGTACAAAC-AAATCAAATT-TTTTGTGACAAAAGAAAAAA
65 TATTAATTT-ATTCAGAATAAGCTTGTACAAACTAAAAC-AATTGTTTTATGACAAAA-AAAAAA
* * *
15899180 GTCATAATGATGTGAAATAGATAAT
127 GTCAAAACGATGTCAAATAGATAAT
15899205 CATAAATATA
Statistics
Matches: 125, Mismatches: 21, Indels: 9
0.81 0.14 0.06
Matches are distributed among these distances:
179 15 0.12
180 92 0.74
181 18 0.14
ACGTcount: A:0.40, C:0.08, G:0.09, T:0.42
Consensus pattern (181 bp):
TCGATAAACAAATTTATTTTTTTAAATCTCTTTCTTATTAATTTTTAAAATATTAATAAATTAGT
ATTAATTTATTCAGAATAAGCTTGTACAAACTAAAACAATTGTTTTATGACAAAAAAAAAAGTCA
AAACGATGTCAAATAGATAATTATTCAATTGTCTTAGCTATTTGAACTAAT
Found at i:15899612 original size:20 final size:20
Alignment explanation
Indices: 15899553--15899612 Score: 61
Period size: 20 Copynumber: 3.0 Consensus size: 20
15899543 TCTAATAAAA
*
15899553 TAAAATTAATTA-ATTAATAA
1 TAAAATT-ATTATATTAATAT
* *
15899573 TATAATTAGTT-TATTTATAT
1 TAAAATTA-TTATATTAATAT
15899593 TAAAATTATTATATTAATAT
1 TAAAATTATTATATTAATAT
15899613 AAGCTCAATA
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.09
20 29 0.91
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (20 bp):
TAAAATTATTATATTAATAT
Found at i:15899881 original size:11 final size:11
Alignment explanation
Indices: 15899862--15899894 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
15899852 ATCATAATAA
15899862 ATTATATAATT
1 ATTATATAATT
*
15899873 ATTAAATAATT
1 ATTATATAATT
15899884 ATTATATAATT
1 ATTATATAATT
15899895 GCCATTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (11 bp):
ATTATATAATT
Found at i:15900039 original size:3 final size:3
Alignment explanation
Indices: 15900029--15900061 Score: 50
Period size: 3 Copynumber: 11.0 Consensus size: 3
15900019 TTTGGATTAC
15900029 ATT A-T ATT ATT ATT ATT AATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT -ATT ATT ATT ATT ATT
15900062 TTTAAGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
2 2 0.07
3 23 0.82
4 3 0.11
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:15900071 original size:21 final size:19
Alignment explanation
Indices: 15900024--15900257 Score: 68
Period size: 19 Copynumber: 12.6 Consensus size: 19
15900014 TATTATTTGG
15900024 ATTACATTA-TATTATTATT
1 ATTA-ATTATTATTATTATT
15900043 ATTAATTATTATTATTATT
1 ATTAATTATTATTATTATT
* * * *
15900062 TTTAA-GATTATAATAATT
1 ATTAATTATTATTATTATT
* * *
15900080 ATTAAATAATATTA-TAAT
1 ATTAATTATTATTATTATT
* *
15900098 ATTTATTA-TACT-TTA-T
1 ATTAATTATTATTATTATT
*
15900114 AATAA-TATTA--ATTAATT
1 ATTAATTATTATTATT-ATT
* *
15900131 AATTAACTTAATTAATTAATATA
1 -ATTAA-TT-ATT-ATTATTATT
* *
15900154 ATTAATTATTATTCA-GATA
1 ATTAATTATTATT-ATTATT
* *
15900173 ATTAATTA-TATGATAAATT
1 ATTAATTATTATTAT-TATT
*
15900192 A-TAATTAATATT-TTATT
1 ATTAATTATTATTATTATT
* *
15900209 AATATATTTAATATTA-TATT
1 -AT-TAATTATTATTATTATT
* *
15900229 A-TAATTATAATATATTAAT
1 ATTAATTATTAT-TATTATT
15900248 A-TAATTATTA
1 ATTAATTATTA
15900258 ATTTGAATAA
Statistics
Matches: 161, Mismatches: 30, Indels: 48
0.67 0.13 0.20
Matches are distributed among these distances:
15 4 0.02
16 7 0.04
17 17 0.11
18 43 0.27
19 56 0.35
20 19 0.12
21 5 0.03
22 6 0.04
23 2 0.01
24 2 0.01
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (19 bp):
ATTAATTATTATTATTATT
Found at i:15900093 original size:40 final size:40
Alignment explanation
Indices: 15900026--15900129 Score: 97
Period size: 40 Copynumber: 2.6 Consensus size: 40
15900016 TTATTTGGAT
* * * *
15900026 TACATTATATTATTATT-ATTAATTATTATTATTATTT-TTA
1 TACATTATAATAATATTAAATAA-TATTA-TAATATTTATTA
*
15900066 -AGATTATAATAATTATTAAATAATATTATAATATTTATTA
1 TACATTATAATAA-TATTAAATAATATTATAATATTTATTA
* *
15900106 TACTTTATAATAATATTAATTAAT
1 TACATTATAATAATATTAAATAAT
15900130 TAATTAACTT
Statistics
Matches: 52, Mismatches: 8, Indels: 8
0.76 0.12 0.12
Matches are distributed among these distances:
39 16 0.31
40 22 0.42
41 14 0.27
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (40 bp):
TACATTATAATAATATTAAATAATATTATAATATTTATTA
Found at i:15900096 original size:22 final size:22
Alignment explanation
Indices: 15900068--15900129 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
15900058 TATTTTTAAG
15900068 ATTATAATAATTATTAAATAAT
1 ATTATAATAATTATTAAATAAT
* *
15900090 ATTATAATATTTATT--ATACT
1 ATTATAATAATTATTAAATAAT
*
15900110 -TTATAATAA-TATTAATTAAT
1 ATTATAATAATTATTAAATAAT
15900130 TAATTAACTT
Statistics
Matches: 33, Mismatches: 5, Indels: 6
0.75 0.11 0.14
Matches are distributed among these distances:
18 4 0.12
19 8 0.24
20 7 0.21
22 14 0.42
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (22 bp):
ATTATAATAATTATTAAATAAT
Found at i:15900141 original size:17 final size:17
Alignment explanation
Indices: 15900120--15900276 Score: 81
Period size: 17 Copynumber: 9.6 Consensus size: 17
15900110 TTATAATAAT
15900120 ATTAATTAATTAAT-TA
1 ATTAATTAATTAATATA
15900136 ACTTAATTAATTAATATA
1 A-TTAATTAATTAATATA
15900154 ATTAATT-ATT-AT-TCA
1 ATTAATTAATTAATAT-A
*
15900169 GA-TAATTAATT-ATATG
1 -ATTAATTAATTAATATA
*
15900185 ATAAATT-A-TAAT-TA
1 ATTAATTAATTAATATA
* *
15900199 A-TATTTTATTAATATA
1 ATTAATTAATTAATATA
*
15900215 TTTAA-T-ATTATATTATA
1 ATTAATTAATTA-A-TATA
*
15900232 ATTATAATATATTAATATA
1 ATTA-ATTA-ATTAATATA
*
15900251 ATT-ATTAATTTGA-ATA
1 ATTAATTAA-TTAATATA
15900267 ATTAATTAAT
1 ATTAATTAAT
15900277 AAAAGGTTAT
Statistics
Matches: 111, Mismatches: 10, Indels: 40
0.69 0.06 0.25
Matches are distributed among these distances:
13 3 0.03
14 5 0.05
15 20 0.18
16 26 0.23
17 40 0.36
18 4 0.04
19 8 0.07
20 1 0.01
21 4 0.04
ACGTcount: A:0.47, C:0.01, G:0.02, T:0.50
Consensus pattern (17 bp):
ATTAATTAATTAATATA
Found at i:15900180 original size:4 final size:4
Alignment explanation
Indices: 15900120--15900161 Score: 66
Period size: 4 Copynumber: 10.0 Consensus size: 4
15900110 TTATAATAAT
15900120 ATTA ATTA ATTA ATTA ACTTA ATTA ATTA ATATA ATTA ATTA
1 ATTA ATTA ATTA ATTA A-TTA ATTA ATTA AT-TA ATTA ATTA
15900162 TTATTCAGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 28 0.78
5 8 0.22
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (4 bp):
ATTA
Found at i:15900211 original size:11 final size:12
Alignment explanation
Indices: 15900195--15900259 Score: 55
Period size: 12 Copynumber: 5.5 Consensus size: 12
15900185 ATAAATTATA
15900195 ATTAATAT-TTT
1 ATTAATATATTT
15900206 ATTAATATATTT
1 ATTAATATATTT
* *
15900218 AATATTATA-TT
1 ATTAATATATTT
*
15900229 A-TAATTATAATAT
1 ATTAA-TAT-ATTT
*
15900242 ATTAATATAATT
1 ATTAATATATTT
15900254 ATTAAT
1 ATTAAT
15900260 TTGAATAATT
Statistics
Matches: 43, Mismatches: 6, Indels: 9
0.74 0.10 0.16
Matches are distributed among these distances:
10 2 0.05
11 14 0.33
12 19 0.44
13 5 0.12
14 3 0.07
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
ATTAATATATTT
Found at i:15900219 original size:20 final size:19
Alignment explanation
Indices: 15900191--15900241 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
15900181 TATGATAAAT
* *
15900191 TATAATTAATATTTTATTAA
1 TATATTTAATATTATATT-A
15900211 TATATTTAATATTATATTA
1 TATATTTAATATTATATTA
15900230 TA-ATTATAATAT
1 TATATT-TAATAT
15900242 ATTAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 3 0.11
19 9 0.32
20 16 0.57
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TATATTTAATATTATATTA
Found at i:15900531 original size:24 final size:24
Alignment explanation
Indices: 15900504--15900552 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
15900494 ATGAACTAAG
15900504 ATAATTGTAATAAT-TATTA-TTATA
1 ATAATT-T-ATAATATATTATTTATA
15900528 ATAATTTATAATATATTATTTATA
1 ATAATTTATAATATATTATTTATA
15900552 A
1 A
15900553 CATGTTCAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
22 5 0.22
23 6 0.26
24 12 0.52
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (24 bp):
ATAATTTATAATATATTATTTATA
Found at i:15900635 original size:26 final size:28
Alignment explanation
Indices: 15900606--15900668 Score: 69
Period size: 27 Copynumber: 2.3 Consensus size: 28
15900596 ATTTACTATT
*
15900606 TTAATATTAAATTATAA-TA-TAATTAA
1 TTAATATTAAATAATAACTATTAATTAA
*
15900632 TTAATAATTGAATAATAAGCTATTAATTAA
1 TTAAT-ATTAAATAATAA-CTATTAATTAA
15900662 -TAATATT
1 TTAATATT
15900669 GTTTTAATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
26 5 0.16
27 10 0.32
28 3 0.10
29 6 0.19
30 7 0.23
ACGTcount: A:0.51, C:0.02, G:0.03, T:0.44
Consensus pattern (28 bp):
TTAATATTAAATAATAACTATTAATTAA
Found at i:15900782 original size:19 final size:19
Alignment explanation
Indices: 15900758--15900817 Score: 70
Period size: 19 Copynumber: 3.1 Consensus size: 19
15900748 TATTTTAATC
15900758 ATTAAAATAATAATAAATA
1 ATTAAAATAATAATAAATA
15900777 ATTAAAAT-A-AATATAATA
1 ATTAAAATAATAATA-AATA
*
15900795 ATTATAAATAACTAATATATA
1 ATTA-AAATAA-TAATAAATA
15900816 AT
1 AT
15900818 ATATTTTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
17 4 0.11
18 9 0.26
19 12 0.34
20 1 0.03
21 5 0.14
22 4 0.11
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTAAAATAATAATAAATA
Found at i:15900786 original size:9 final size:9
Alignment explanation
Indices: 15900758--15900805 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
15900748 TATTTTAATC
15900758 ATTAAAATA
1 ATTAAAATA
*
15900767 ATAATAAATA
1 ATTA-AAATA
15900777 ATTAAAATA
1 ATTAAAATA
* *
15900786 AATATAATA
1 ATTAAAATA
15900795 ATTATAAATA
1 ATTA-AAATA
15900805 A
1 A
15900806 CTAATATATA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
9 18 0.58
10 13 0.42
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (9 bp):
ATTAAAATA
Found at i:15900801 original size:28 final size:29
Alignment explanation
Indices: 15900763--15900820 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
15900753 TAATCATTAA
*
15900763 AATAATAATAAATAATTAAAATA-AATAT
1 AATAATAATAAATAACTAAAATATAATAT
* *
15900791 AATAATTATAAATAACTAATATATAATAT
1 AATAATAATAAATAACTAAAATATAATAT
15900820 A
1 A
15900821 TTTTATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
28 20 0.77
29 6 0.23
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (29 bp):
AATAATAATAAATAACTAAAATATAATAT
Found at i:15900815 original size:15 final size:14
Alignment explanation
Indices: 15900762--15900816 Score: 58
Period size: 14 Copynumber: 3.9 Consensus size: 14
15900752 TTAATCATTA
15900762 AAATAATAATAAAT
1 AAATAATAATAAAT
*
15900776 AATTAA-AATAAAT
1 AAATAATAATAAAT
*
15900789 ATAATAATTATAAAT
1 A-AATAATAATAAAT
*
15900804 AACTAATATATAA
1 AAATAATA-ATAA
15900817 TATATTTTAT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
13 8 0.24
14 14 0.42
15 11 0.33
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (14 bp):
AAATAATAATAAAT
Found at i:15900840 original size:13 final size:13
Alignment explanation
Indices: 15900812--15900853 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
15900802 ATAACTAATA
*
15900812 TATAATATATT-T
1 TATAATATATTAG
15900824 TATAAT-TATATAG
1 TATAATATAT-TAG
15900837 TATAATATATTAG
1 TATAATATATTAG
15900850 TATA
1 TATA
15900854 TATTTAAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
11 3 0.12
12 7 0.27
13 13 0.50
14 3 0.12
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (13 bp):
TATAATATATTAG
Found at i:15901111 original size:21 final size:22
Alignment explanation
Indices: 15901065--15901108 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
15901055 AGCATTATAT
15901065 TAAATTTAAATTATAATAATTAA
1 TAAATTT-AATTATAATAATTAA
15901088 TAAATTT-ATTATAATATATTA
1 TAAATTTAATTATAATA-ATTA
15901109 TAATATTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
21 9 0.45
22 4 0.20
23 7 0.35
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TAAATTTAATTATAATAATTAA
Found at i:15901441 original size:26 final size:25
Alignment explanation
Indices: 15901407--15901470 Score: 67
Period size: 26 Copynumber: 2.4 Consensus size: 25
15901397 TTTTTCAAAT
15901407 AATATATAATATATATTTATA-TATTTG
1 AATA-ATAATAT-TATTT-TACTATTTG
15901434 AATAATAACTATTATTTTACTATTTG
1 AATAATAA-TATTATTTTACTATTTG
*
15901460 ATTAATTAATA
1 AATAA-TAATA
15901471 ATTGTTGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
25 2 0.06
26 21 0.64
27 10 0.30
ACGTcount: A:0.44, C:0.03, G:0.03, T:0.50
Consensus pattern (25 bp):
AATAATAATATTATTTTACTATTTG
Found at i:15901593 original size:17 final size:17
Alignment explanation
Indices: 15901549--15901601 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
15901539 ATCATTAATT
*
15901549 TTATAATATTA-ATTAA
1 TTATAATATTATAATAA
*
15901565 TTATACAATATTATAATAC
1 TTAT--AATATTATAATAA
*
15901584 TTATAATATTATATTAA
1 TTATAATATTATAATAA
15901601 T
1 T
15901602 ATTATTAAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
16 4 0.13
17 12 0.40
18 7 0.23
19 7 0.23
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (17 bp):
TTATAATATTATAATAA
Found at i:15901948 original size:13 final size:13
Alignment explanation
Indices: 15901930--15901956 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15901920 TATATTAATA
15901930 AATTTAATATATT
1 AATTTAATATATT
15901943 AATTTAATATATT
1 AATTTAATATATT
15901956 A
1 A
15901957 TAATTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (13 bp):
AATTTAATATATT
Found at i:15901954 original size:15 final size:16
Alignment explanation
Indices: 15901920--15901973 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 16
15901910 TAATTAATTG
15901920 TATATTAA-TAAATTTAA
1 TATATTAATTAAA--TAA
*
15901937 TATATTAATTTAAT-A
1 TATATTAATTAAATAA
15901952 TAT-TATAATTAAATAA
1 TATAT-TAATTAAATAA
15901968 TATATT
1 TATATT
15901974 TTCAATTAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
14 1 0.03
15 12 0.39
16 6 0.19
17 9 0.29
18 3 0.10
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TATATTAATTAAATAA
Found at i:15902025 original size:38 final size:36
Alignment explanation
Indices: 15901977--15902071 Score: 102
Period size: 39 Copynumber: 2.5 Consensus size: 36
15901967 ATATATTTTC
*
15901977 AATTAGTTATATTATAAATAATTA-TAAAATATTATAT
1 AATTAGTTATATTATAAATAA--ACTAAAAAATTATAT
* *
15902014 ATTATATTTATATTTATAATATAAACTAAAAAATTATAT
1 AAT-TAGTTATA-TTATAA-ATAAACTAAAAAATTATAT
15902053 AATTAGTTATAATTATAAA
1 AATTAGTTAT-ATTATAAA
15902072 ATATTAATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
37 3 0.06
38 20 0.42
39 21 0.44
40 4 0.08
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (36 bp):
AATTAGTTATATTATAAATAAACTAAAAAATTATAT
Found at i:15902228 original size:21 final size:21
Alignment explanation
Indices: 15902198--15902267 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
15902188 TAAATAATTT
*
15902198 ATTATTATTTTATATTTTATA
1 ATTATAATTTTATATTTTATA
* ***
15902219 ATTATAATTTAATATAAAATA
1 ATTATAATTTTATATTTTATA
*
15902240 A-TATTAA-TTTATAATTTATA
1 ATTA-TAATTTTATATTTTATA
15902260 ATTATAAT
1 ATTATAAT
15902268 ATATTAATAA
Statistics
Matches: 36, Mismatches: 10, Indels: 6
0.69 0.19 0.12
Matches are distributed among these distances:
20 14 0.39
21 22 0.61
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTATAATTTTATATTTTATA
Found at i:15902276 original size:34 final size:33
Alignment explanation
Indices: 15902217--15902281 Score: 78
Period size: 34 Copynumber: 1.9 Consensus size: 33
15902207 TTATATTTTA
*
15902217 TAATTATAATTTAATATAAAATAATATTAATTTA
1 TAATTATAATTTAATAT-AAATAATAATAATTTA
*
15902251 TAATTTATAATTATAATAT-ATTAATAATAAT
1 TAA-TTATAATT-TAATATAAATAATAATAAT
15902282 GTGATGTTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
34 13 0.48
35 8 0.30
36 6 0.22
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (33 bp):
TAATTATAATTTAATATAAATAATAATAATTTA
Found at i:15902295 original size:44 final size:42
Alignment explanation
Indices: 15902198--15902325 Score: 108
Period size: 41 Copynumber: 3.0 Consensus size: 42
15902188 TAAATAATTT
* *
15902198 ATTATT-ATTTTATATTTTATAATTATAATTTAATATAA-AATA
1 ATTATTAATTTTATAATTTATAATTATAATAT-AT-TAATAATA
15902240 A-TATTAA-TTTATAATTTATAATTATAATATATTAATAATA
1 ATTATTAATTTTATAATTTATAATTATAATATATTAATAATA
* *
15902280 ATGTGATGTTATTTATATAATTATATAA--AT-ATAAATTAATAATA
1 AT-T-AT-TAATTT-TATAATT-TATAATTATAATATATTAATAATA
15902324 AT
1 AT
15902326 ACAATATTAT
Statistics
Matches: 73, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
39 3 0.04
40 7 0.10
41 25 0.34
42 3 0.04
43 2 0.03
44 17 0.23
45 4 0.05
46 7 0.10
47 5 0.07
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (42 bp):
ATTATTAATTTTATAATTTATAATTATAATATATTAATAATA
Found at i:15902844 original size:15 final size:15
Alignment explanation
Indices: 15902816--15902876 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
15902806 TTTATTACAT
*
15902816 TTAT-ATTAAATATA
1 TTATAATTAATTATA
15902830 TTATAATTAATTATA
1 TTATAATTAATTATA
*
15902845 ATATAATTATATT-TA
1 TTATAATTA-ATTATA
*
15902860 TTATAATGTAATAATA
1 TTATAAT-TAATTATA
15902876 T
1 T
15902877 AAATTATAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
14 4 0.10
15 27 0.69
16 8 0.21
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.51
Consensus pattern (15 bp):
TTATAATTAATTATA
Found at i:15902847 original size:20 final size:20
Alignment explanation
Indices: 15902820--15902888 Score: 65
Period size: 20 Copynumber: 3.5 Consensus size: 20
15902810 TTACATTTAT
15902820 ATTA-AATATATTATAATTA
1 ATTATAATATATTATAATTA
*
15902839 ATTATAATATAATTAT-ATTT
1 ATTATAATAT-ATTATAATTA
*
15902859 ATTATAATGTA--ATAATATAA
1 ATTATAATATATTATAAT-T-A
15902879 ATTATAATAT
1 ATTATAATAT
15902889 CAATAATTTG
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
17 2 0.05
18 2 0.05
19 6 0.15
20 26 0.63
21 5 0.12
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (20 bp):
ATTATAATATATTATAATTA
Found at i:15903188 original size:21 final size:21
Alignment explanation
Indices: 15903143--15903249 Score: 58
Period size: 21 Copynumber: 5.0 Consensus size: 21
15903133 TTAATATTTG
* * * *
15903143 AATAATTATCAAATAACTAAA
1 AATAATTATTAAATTATTAAT
15903164 AATAATTATTAAATTATTAAT
1 AATAATTATTAAATTATTAAT
** *
15903185 AATAACAATTAAGTTA-T-A-
1 AATAATTATTAAATTATTAAT
* * *
15903203 AACAATTATTACATAATTAAATT
1 AATAATTATTAAATTATT-AA-T
15903226 ATATAATTATTAATATTAGTTAAT
1 A-ATAATTATTAA-ATTA-TTAAT
15903250 CAAGTTATAT
Statistics
Matches: 62, Mismatches: 16, Indels: 13
0.68 0.18 0.14
Matches are distributed among these distances:
18 10 0.16
19 2 0.03
20 1 0.02
21 31 0.50
23 1 0.02
24 10 0.16
25 5 0.08
26 2 0.03
ACGTcount: A:0.53, C:0.05, G:0.02, T:0.40
Consensus pattern (21 bp):
AATAATTATTAAATTATTAAT
Found at i:15903437 original size:19 final size:21
Alignment explanation
Indices: 15903413--15903457 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
15903403 ATGTTATTAT
15903413 ATAATTTATT-AAT-TAATAA
1 ATAATTTATTAAATATAATAA
*
15903432 ATAATTTATTAAATATTATAA
1 ATAATTTATTAAATATAATAA
15903453 ATAAT
1 ATAAT
15903458 ATAGTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 10 0.43
20 3 0.13
21 10 0.43
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
ATAATTTATTAAATATAATAA
Found at i:15903492 original size:23 final size:24
Alignment explanation
Indices: 15903438--15903503 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
15903428 ATAAATAATT
15903438 TATTAAATATTATAAATAATATAG
1 TATTAAATATTATAAATAATATAG
* *
15903462 TAAT-AATA-TATATTATAATATA-
1 TATTAAATATTATA-AATAATATAG
* *
15903484 TATTAAATATTGTTAATAAT
1 TATTAAATATTATAAATAAT
15903504 GTGTTTACTG
Statistics
Matches: 33, Mismatches: 6, Indels: 7
0.72 0.13 0.15
Matches are distributed among these distances:
22 7 0.21
23 21 0.64
24 5 0.15
ACGTcount: A:0.52, C:0.00, G:0.03, T:0.45
Consensus pattern (24 bp):
TATTAAATATTATAAATAATATAG
Found at i:15903718 original size:21 final size:22
Alignment explanation
Indices: 15903692--15903742 Score: 63
Period size: 21 Copynumber: 2.4 Consensus size: 22
15903682 ATACTTTAAT
15903692 TATAATTAT-AGTTA-AATATAA
1 TATAATTATAAGTTATAATA-AA
*
15903713 TATAATAATAAGTTATAATAAA
1 TATAATTATAAGTTATAATAAA
15903735 T-TAATTAT
1 TATAATTAT
15903743 TTGAATAGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
21 14 0.54
22 8 0.31
23 4 0.15
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (22 bp):
TATAATTATAAGTTATAATAAA
Found at i:15903970 original size:34 final size:34
Alignment explanation
Indices: 15903929--15903994 Score: 89
Period size: 34 Copynumber: 1.9 Consensus size: 34
15903919 TTAATAATTA
* *
15903929 ATATTATATTAATAATTTAT-TAATTTATTATAAG
1 ATATTATAATAATAATATATATAATTT-TTATAAG
*
15903963 ATATTATAATAATTATATATATAATTTTTATA
1 ATATTATAATAATAATATATATAATTTTTATA
15903995 TATATTTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
34 22 0.79
35 6 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (34 bp):
ATATTATAATAATAATATATATAATTTTTATAAG
Done.