Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold285
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: 926752
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.34
File 2 of 6
Found at i:100387 original size:3 final size:3
Alignment explanation
Indices: 100379--100407 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
100369 AAGATTACTT
100379 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
100408 GAGTGACTAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:102180 original size:19 final size:18
Alignment explanation
Indices: 102155--102201 Score: 69
Period size: 19 Copynumber: 2.6 Consensus size: 18
102145 TTATTAATCA
102155 TATAAATATAATAAAATT
1 TATAAATATAATAAAATT
*
102173 TAATAAATATATTAAAATT
1 T-ATAAATATAATAAAATT
102192 T-TAAATATAA
1 TATAAATATAA
102202 ATACGATCTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 8 0.31
18 1 0.04
19 17 0.65
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (18 bp):
TATAAATATAATAAAATT
Found at i:102406 original size:2 final size:2
Alignment explanation
Indices: 102399--102430 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
102389 GAAGATCAAG
*
102399 AT AT AT AT AT AT AT AT AT AT AT TT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
102431 GCATGAACTG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:106048 original size:2 final size:2
Alignment explanation
Indices: 106041--106065 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
106031 CAAGCAATGT
106041 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
106066 AATCAGTGCA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:106103 original size:2 final size:2
Alignment explanation
Indices: 106096--106129 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
106086 ACCGACCATG
106096 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
106130 AAAGAAGGTT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:107544 original size:6 final size:6
Alignment explanation
Indices: 107525--107590 Score: 66
Period size: 6 Copynumber: 11.0 Consensus size: 6
107515 ATTTATATTT
* *
107525 AATATA TATTTA AATATA AATATA AATATA AATATA ATATATTA AATATA
1 AATATA AATATA AATATA AATATA AATATA AATATA A-ATA-TA AATATA
107575 TAA-A-A AAT-TA AATATA
1 -AATATA AATATA AATATA
107591 TTTATATTAA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
4 2 0.04
5 5 0.10
6 32 0.64
7 8 0.16
8 3 0.06
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (6 bp):
AATATA
Found at i:107577 original size:16 final size:16
Alignment explanation
Indices: 107528--107604 Score: 70
Period size: 16 Copynumber: 4.8 Consensus size: 16
107518 TATATTTAAT
107528 ATATATTTAAATATA-A
1 ATATA-TTAAATATATA
*
107544 ATATAAATATAA-ATATA
1 ATAT-ATTA-AATATATA
107561 ATATATTAAATATATA
1 ATATATTAAATATATA
* *
107577 AAAAATTAAATATAT-
1 ATATATTAAATATATA
*
107592 TTATATTAAATAT
1 ATATATTAAATAT
107605 GCTTTGAATT
Statistics
Matches: 50, Mismatches: 7, Indels: 9
0.76 0.11 0.14
Matches are distributed among these distances:
15 12 0.24
16 30 0.60
17 8 0.16
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (16 bp):
ATATATTAAATATATA
Found at i:108221 original size:37 final size:36
Alignment explanation
Indices: 108167--108240 Score: 96
Period size: 37 Copynumber: 2.0 Consensus size: 36
108157 AAAATTTTAA
108167 ATTAAAAAAATAATATTTTGA-AATTATTATAATTTT
1 ATTAAAAAAATAATATTTT-ATAATTATTATAATTTT
* * *
108203 ATTAATAAAAATATTATTTTATTATTATTTTAATTTT
1 ATTAA-AAAAATAATATTTTATAATTATTATAATTTT
108240 A
1 A
108241 AATTAACGTA
Statistics
Matches: 33, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
36 6 0.18
37 27 0.82
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (36 bp):
ATTAAAAAAATAATATTTTATAATTATTATAATTTT
Found at i:108548 original size:18 final size:17
Alignment explanation
Indices: 108504--108659 Score: 70
Period size: 19 Copynumber: 8.8 Consensus size: 17
108494 AATTAATTTT
* *
108504 ATTATAAAATTTAA-AA
1 ATTATATAATATAATAA
*
108520 ATT-TATAATA-ATTAA
1 ATTATATAATATAATAA
108535 ATTAT-TAAATATAATATA
1 ATTATAT-AATATAATA-A
108553 ATTATATAATATAAATAA
1 ATTATATAATAT-AATAA
* * *
108571 AATATATAAAATTAAAAA
1 ATTATATAATA-TAATAA
* * *
108589 CATAATA-AAAATAAAAA
1 -ATTATATAATATAATAA
108606 TATTATATAAATATAATAAA
1 -ATTATAT-AATATAAT-AA
* *
108626 ACTATATAAATATATTAAA
1 ATTATAT-AATATAAT-AA
*
108645 ATTTATAAAATATAA
1 A-TTATATAATATAA
108660 ATCATTATCA
Statistics
Matches: 109, Mismatches: 18, Indels: 23
0.73 0.12 0.15
Matches are distributed among these distances:
14 1 0.01
15 11 0.10
16 8 0.07
17 14 0.13
18 29 0.27
19 40 0.37
20 6 0.06
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (17 bp):
ATTATATAATATAATAA
Found at i:108627 original size:38 final size:36
Alignment explanation
Indices: 108535--108659 Score: 100
Period size: 38 Copynumber: 3.4 Consensus size: 36
108525 TAATAATTAA
* * *
108535 ATTATTAAATATAATATAATTATATAATATAAATAAAAT
1 ATTATAAAATATAATA-AA--ACATAATAAAAATAAAAT
108574 A-TATAAAAT-T-A-AAAACATAATAAAAATAAAAAT
1 ATTATAAAATATAATAAAACATAATAAAAAT-AAAAT
108607 ATTATATAAATATAATAAAAC-TATATAAATATATTAAAAT
1 ATTATA-AAATATAATAAAACATA-ATAAA-A-A-TAAAAT
108647 -TTATAAAATATAA
1 ATTATAAAATATAA
108660 ATCATTATCA
Statistics
Matches: 73, Mismatches: 3, Indels: 21
0.75 0.03 0.22
Matches are distributed among these distances:
32 11 0.15
33 6 0.08
34 6 0.08
35 5 0.07
36 2 0.03
37 4 0.05
38 25 0.34
39 7 0.10
40 6 0.08
41 1 0.01
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (36 bp):
ATTATAAAATATAATAAAACATAATAAAAATAAAAT
Found at i:108646 original size:10 final size:9
Alignment explanation
Indices: 108541--108658 Score: 84
Period size: 9 Copynumber: 12.8 Consensus size: 9
108531 TTAAATTATT
108541 AAATATAATA
1 AAATAT-ATA
*
108551 TAATTATATA
1 -AAATATATA
* *
108561 ATATAAATA
1 AAATATATA
108570 AAATATATA
1 AAATATATA
108579 AAAT-TA-A
1 AAATATATA
*
108586 AAACATAATA
1 AAATAT-ATA
108596 AAA-ATA-A
1 AAATATATA
108603 AAATATTATA
1 AAATA-TATA
108613 TAAATATAATA
1 -AAATAT-ATA
108624 AAACTATAT-
1 AAA-TATATA
108633 AAATATATTA
1 AAATATA-TA
*
108643 AAATTTATA
1 AAATATATA
108652 AAATATA
1 AAATATA
108659 AATCATTATC
Statistics
Matches: 87, Mismatches: 9, Indels: 24
0.73 0.08 0.20
Matches are distributed among these distances:
7 8 0.09
8 9 0.10
9 34 0.39
10 20 0.23
11 16 0.18
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (9 bp):
AAATATATA
Found at i:108657 original size:19 final size:20
Alignment explanation
Indices: 108527--108659 Score: 87
Period size: 19 Copynumber: 7.2 Consensus size: 20
108517 AAAATTTATA
*
108527 ATAATTAAA-TTAT-TAAAT
1 ATAATAAAATTTATATAAAT
*
108545 ATAATATAA-TTATAT-AAT
1 ATAATAAAATTTATATAAAT
*
108563 ATAAATAAAATATATA-AAAT
1 AT-AATAAAATTTATATAAAT
*
108583 -TAA-AAACA--TA-ATAAAA
1 ATAATAAA-ATTTATATAAAT
108599 AT-A-AAAATATTATATAAAT
1 ATAATAAAAT-TTATATAAAT
*
108618 ATAATAAAA-CTATATAAAT
1 ATAATAAAATTTATATAAAT
*
108637 ATATTAAAATTTATA-AAAT
1 ATAATAAAATTTATATAAAT
108656 ATAA
1 ATAA
108660 ATCATTATCA
Statistics
Matches: 91, Mismatches: 10, Indels: 27
0.71 0.08 0.21
Matches are distributed among these distances:
15 2 0.02
16 9 0.10
17 4 0.04
18 21 0.23
19 39 0.43
20 12 0.13
21 4 0.04
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (20 bp):
ATAATAAAATTTATATAAAT
Found at i:108695 original size:17 final size:17
Alignment explanation
Indices: 108630--108699 Score: 54
Period size: 17 Copynumber: 4.1 Consensus size: 17
108620 AATAAAACTA
**
108630 TATAAATATATTAAAATT
1 TATAAATATA-TAATTTT
**
108648 TATAAA-ATATAAATCAT
1 TATAAATATAT-AATTTT
* *
108665 TAT-CATATAAAATTTT
1 TATAAATATATAATTTT
108681 TATAAATATATAATTTT
1 TATAAATATATAATTTT
108698 TA
1 TA
108700 AATATATTTT
Statistics
Matches: 40, Mismatches: 9, Indels: 7
0.71 0.16 0.12
Matches are distributed among these distances:
16 9 0.22
17 25 0.62
18 6 0.15
ACGTcount: A:0.51, C:0.03, G:0.00, T:0.46
Consensus pattern (17 bp):
TATAAATATATAATTTT
Found at i:116255 original size:2 final size:2
Alignment explanation
Indices: 116248--116294 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
116238 ATGAGTTTAA
*
116248 AT AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
116290 AT AT A
1 AT AT A
116295 GATACATACA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:117588 original size:14 final size:14
Alignment explanation
Indices: 117569--117598 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
117559 GAGGGGAAGG
117569 AAGAAAAGAAAGAA
1 AAGAAAAGAAAGAA
117583 AAGAAAAGAAAGAA
1 AAGAAAAGAAAGAA
117597 AA
1 AA
117599 CTTTAATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
AAGAAAAGAAAGAA
Found at i:117822 original size:21 final size:21
Alignment explanation
Indices: 117796--117838 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
117786 ATTTTGTTTA
117796 AAAAATCATAA-TTAAATTTTT
1 AAAAATCA-AATTTAAATTTTT
*
117817 AAAAATGAAATTTAAATTTTT
1 AAAAATCAAATTTAAATTTTT
117838 A
1 A
117839 TATTTTGGAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 2 0.10
21 18 0.90
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.42
Consensus pattern (21 bp):
AAAAATCAAATTTAAATTTTT
Found at i:118417 original size:28 final size:27
Alignment explanation
Indices: 118377--118430 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
118367 GAACTAACGA
**
118377 AAATAATCATTATTATTTATTTTATTTT
1 AAATAATCATTA-TAAATATTTTATTTT
*
118405 AAATTATCATTATAAATATTTTATTT
1 AAATAATCATTATAAATATTTTATTT
118431 ATTAATAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (27 bp):
AAATAATCATTATAAATATTTTATTTT
Found at i:118538 original size:13 final size:13
Alignment explanation
Indices: 118504--118538 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
118494 AACCATTGAA
118504 ATAATATTATATT
1 ATAATATTATATT
*
118517 ATTATATTATATT
1 ATAATATTATATT
*
118530 ATAAGATTA
1 ATAATATTA
118539 AGATTAAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (13 bp):
ATAATATTATATT
Found at i:118781 original size:29 final size:29
Alignment explanation
Indices: 118722--118781 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
118712 AGATTTTTCA
* *
118722 TTATAAAATAGATTATTTAATTATTATTT
1 TTATAAAATACATTATTTAATTAATATTT
118751 TTATAAAATATCA-TATATTAATTAATATTT
1 TTATAAAATA-CATTAT-TTAATTAATATTT
118781 T
1 T
118782 GTTAATCATT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
29 13 0.48
30 14 0.52
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (29 bp):
TTATAAAATACATTATTTAATTAATATTT
Found at i:119888 original size:2 final size:2
Alignment explanation
Indices: 119881--119926 Score: 65
Period size: 2 Copynumber: 23.0 Consensus size: 2
119871 CCAACGTGGA
* * *
119881 AT AT AT AT AT AT AT AT AT AT AT GT GT GT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
119923 AT AT
1 AT AT
119927 TAAAAATTAC
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.43, C:0.00, G:0.07, T:0.50
Consensus pattern (2 bp):
AT
Found at i:123688 original size:16 final size:16
Alignment explanation
Indices: 123664--123694 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
123654 AATGATTATA
*
123664 AAATTTAAAAAATAAT
1 AAATATAAAAAATAAT
123680 AAATATAAAAAATAA
1 AAATATAAAAAATAA
123695 ATACAAATAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (16 bp):
AAATATAAAAAATAAT
Found at i:124569 original size:2 final size:2
Alignment explanation
Indices: 124564--124601 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
124554 ACATTCATAC
*
124564 AT AT AT AT TT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
124602 GCATGTATGT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:126408 original size:15 final size:15
Alignment explanation
Indices: 126384--126423 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
126374 ATATAAAATA
*
126384 TATAATTTATTAATT
1 TATAAATTATTAATT
126399 TATAAATTA-TAATT
1 TATAAATTATTAATT
126413 T-TAAATT-TTAA
1 TATAAATTATTAA
126424 ATCAAATTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 9 0.39
14 6 0.26
15 8 0.35
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
TATAAATTATTAATT
Found at i:126409 original size:22 final size:22
Alignment explanation
Indices: 126356--126438 Score: 70
Period size: 22 Copynumber: 3.9 Consensus size: 22
126346 TACTTAATAA
*
126356 TATAAATTAAATTTAATT-ATA
1 TATAAATTAAATTTAATTAATT
126377 TA-AAATATATAATTT-ATTAATT
1 TATAAAT-TA-AATTTAATTAATT
*
126399 TATAAATTATAATTT--TAAATT
1 TATAAATTA-AATTTAATTAATT
*
126420 T-TAAATCAAATTTAATTAA
1 TATAAATTAAATTTAATTAA
126439 AACTTAAAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
19 5 0.10
20 10 0.19
21 16 0.31
22 17 0.33
23 4 0.08
ACGTcount: A:0.51, C:0.01, G:0.00, T:0.48
Consensus pattern (22 bp):
TATAAATTAAATTTAATTAATT
Found at i:126923 original size:3 final size:3
Alignment explanation
Indices: 126915--126953 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
126905 TATAAATCCT
126915 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
126954 AGTTGCGTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:132633 original size:3 final size:3
Alignment explanation
Indices: 132625--132655 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
132615 GAAGTACCAA
132625 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG A
132656 TCTGCAGTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:133400 original size:22 final size:22
Alignment explanation
Indices: 133378--133424 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 22
133368 AATTTTTAAA
*
133378 TAAATATATACTTAAAATAAAAT
1 TAAATATATA-ATAAAATAAAAT
*
133401 TAATTATATAATAAAATAATAAT
1 TAAATATATAATAAAATAA-AAT
133424 T
1 T
133425 TTTTAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
22 8 0.38
23 13 0.62
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
TAAATATATAATAAAATAAAAT
Found at i:133625 original size:26 final size:28
Alignment explanation
Indices: 133586--133640 Score: 87
Period size: 26 Copynumber: 2.0 Consensus size: 28
133576 ATTAATATTT
*
133586 TAAAATATATTTTTTAATTAAAATTAAA
1 TAAAATATATTTTTTAATTAAAAATAAA
133614 TAAAA-ATA-TTTTTAATTAAAAATAAA
1 TAAAATATATTTTTTAATTAAAAATAAA
133640 T
1 T
133641 TTAACTTGAA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
26 18 0.69
27 3 0.12
28 5 0.19
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (28 bp):
TAAAATATATTTTTTAATTAAAAATAAA
Found at i:138966 original size:42 final size:42
Alignment explanation
Indices: 138920--139003 Score: 132
Period size: 42 Copynumber: 2.0 Consensus size: 42
138910 TCAGAAAGGA
*
138920 AAAGAAAAACCTTCAATTCTAAGATAATCCAAAGCAATCGGG
1 AAAGAAAAACCTTCAATTCAAAGATAATCCAAAGCAATCGGG
* * *
138962 AAAGAAAACCCTTCAGTTCAAAGCTAATCCAAAGCAATCGGG
1 AAAGAAAAACCTTCAATTCAAAGATAATCCAAAGCAATCGGG
139004 CCTTGCGAAC
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.45, C:0.21, G:0.15, T:0.18
Consensus pattern (42 bp):
AAAGAAAAACCTTCAATTCAAAGATAATCCAAAGCAATCGGG
Found at i:142130 original size:17 final size:18
Alignment explanation
Indices: 142110--142154 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
142100 ATTAAAATTA
142110 TATATTTA-ATAAATTTT
1 TATATTTATATAAATTTT
* *
142127 TATATTTATATTATTTTT
1 TATATTTATATAAATTTT
142145 TATA-TTATAT
1 TATATTTATAT
142155 TTTAATTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 14 0.56
18 11 0.44
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TATATTTATATAAATTTT
Found at i:142148 original size:12 final size:12
Alignment explanation
Indices: 142131--142173 Score: 61
Period size: 12 Copynumber: 3.6 Consensus size: 12
142121 AATTTTTATA
142131 TTTATATTATTT
1 TTTATATTATTT
*
142143 TTTATATTATAT
1 TTTATATTATTT
142155 TTTA-ATTATTTT
1 TTTATATTA-TTT
142167 TTTATAT
1 TTTATAT
142174 AATATAATCG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
11 4 0.15
12 21 0.78
13 2 0.07
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (12 bp):
TTTATATTATTT
Found at i:142167 original size:24 final size:24
Alignment explanation
Indices: 142126--142178 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
142116 TAATAAATTT
142126 TTATA-TTTATATTATTTTTTATA
1 TTATATTTTATATTATTTTTTATA
142149 TTATATTTTA-ATTATTTTTTTATA
1 TTATATTTTATATTA-TTTTTTATA
*
142173 TAATAT
1 TTATAT
142179 AATCGTATAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 9 0.33
24 18 0.67
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (24 bp):
TTATATTTTATATTATTTTTTATA
Found at i:142489 original size:16 final size:17
Alignment explanation
Indices: 142470--142504 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
142460 TTTGATTTAA
142470 TTATAT-TTAAATTTTT
1 TTATATATTAAATTTTT
*
142486 TTATATATTTAATTTTT
1 TTATATATTAAATTTTT
142503 TT
1 TT
142505 TAAAAAAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (17 bp):
TTATATATTAAATTTTT
Found at i:142501 original size:17 final size:18
Alignment explanation
Indices: 142471--142506 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
142461 TTGATTTAAT
142471 TATATTTAAATTTTTTTA
1 TATATTTAAATTTTTTTA
*
142489 TATATTTAATTTTTTTTA
1 TATATTTAAATTTTTTTA
142507 AAAAAATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (18 bp):
TATATTTAAATTTTTTTA
Found at i:142630 original size:2 final size:2
Alignment explanation
Indices: 142623--142653 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
142613 GGCACCAGCA
142623 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
142654 CACACACATA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:143503 original size:2 final size:2
Alignment explanation
Indices: 143496--143550 Score: 101
Period size: 2 Copynumber: 27.5 Consensus size: 2
143486 CCATCAGGAA
143496 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
*
143538 AG AG AG AA AG AG A
1 AG AG AG AG AG AG A
143551 AGTTAGCCTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 51 1.00
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (2 bp):
AG
Found at i:149820 original size:19 final size:19
Alignment explanation
Indices: 149783--149822 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
149773 TTATAATTTA
*
149783 AATTAATTTGTGAAAATAT
1 AATTAATTTATGAAAATAT
149802 AATTAATTTAT-AAATATAT
1 AATTAATTTATGAAA-ATAT
149821 AA
1 AA
149823 AATATTTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 3 0.16
19 16 0.84
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (19 bp):
AATTAATTTATGAAAATAT
Found at i:149861 original size:15 final size:15
Alignment explanation
Indices: 149816--149861 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
149806 AATTTATAAA
149816 TATATAAAA-TATTTT
1 TATA-AAAATTATTTT
**
149831 T-TAAAAATTAAATT
1 TATAAAAATTATTTT
149845 TATAAAAATTATTTT
1 TATAAAAATTATTTT
149860 TA
1 TA
149862 ATTAATTCTG
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 4 0.16
14 7 0.28
15 14 0.56
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TATAAAAATTATTTT
Found at i:150148 original size:24 final size:24
Alignment explanation
Indices: 150107--150153 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
150097 AAATTTTTTT
*
150107 ATAAAAATTAATAATTT-ATTAAA
1 ATAAAAAATAATAATTTAATTAAA
*
150130 ATAAAAAATATATATTTTAATTAA
1 ATAAAAAATA-ATAATTTAATTAA
150154 TTTAAATTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 9 0.45
24 6 0.30
25 5 0.25
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (24 bp):
ATAAAAAATAATAATTTAATTAAA
Found at i:151129 original size:25 final size:26
Alignment explanation
Indices: 151101--151154 Score: 62
Period size: 24 Copynumber: 2.2 Consensus size: 26
151091 GTTTAATTTC
*
151101 ATTAAAATTTT-TGT-TAAATAAAAAT
1 ATTAAAATTTTAT-TATAAATAAAAAA
151126 ATT--AATTTTATTATAAATAAAAAA
1 ATTAAAATTTTATTATAAATAAAAAA
151150 ATTAA
1 ATTAA
151155 TTATATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
23 7 0.29
24 14 0.58
25 3 0.12
ACGTcount: A:0.56, C:0.00, G:0.02, T:0.43
Consensus pattern (26 bp):
ATTAAAATTTTATTATAAATAAAAAA
Found at i:151164 original size:27 final size:24
Alignment explanation
Indices: 151115--151163 Score: 80
Period size: 24 Copynumber: 2.0 Consensus size: 24
151105 AAATTTTTGT
*
151115 TAAATAAAAATATTAATTTTATTA
1 TAAATAAAAAAATTAATTTTATTA
*
151139 TAAATAAAAAAATTAATTATATTA
1 TAAATAAAAAAATTAATTTTATTA
151163 T
1 T
151164 TTTTTAAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (24 bp):
TAAATAAAAAAATTAATTTTATTA
Found at i:152167 original size:12 final size:12
Alignment explanation
Indices: 152129--152169 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
152119 ATAAATAATC
152129 AAAATTATATTT
1 AAAATTATATTT
* *
152141 ATAAATAATAATT
1 A-AAATTATATTT
152154 AAAATTATATTT
1 AAAATTATATTT
152166 AAAA
1 AAAA
152170 AATTAACTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (12 bp):
AAAATTATATTT
Found at i:152560 original size:32 final size:34
Alignment explanation
Indices: 152524--152589 Score: 91
Period size: 34 Copynumber: 2.0 Consensus size: 34
152514 CACATTTTAT
152524 TTCTACTCTCTGAC-GT-TATATTTGATAGAAAA
1 TTCTACTCTCTGACAGTATATATTTGATAGAAAA
* * *
152556 TTCTATTCTCTTACATTATATATTTGATAGAAAA
1 TTCTACTCTCTGACAGTATATATTTGATAGAAAA
152590 GAACAAAAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
32 12 0.41
33 1 0.03
34 16 0.55
ACGTcount: A:0.33, C:0.14, G:0.09, T:0.44
Consensus pattern (34 bp):
TTCTACTCTCTGACAGTATATATTTGATAGAAAA
Found at i:152918 original size:16 final size:16
Alignment explanation
Indices: 152899--152951 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
152889 TTTAAACGTA
152899 ATATTATTTTATATTT
1 ATATTATTTTATATTT
152915 ATATTTTATTTTAATTATTT
1 ATA--TTATTTT-A-TATTT
152935 -T-TTATTTTATATTT
1 ATATTATTTTATATTT
152949 ATA
1 ATA
152952 AAATTATATT
Statistics
Matches: 31, Mismatches: 0, Indels: 12
0.72 0.00 0.28
Matches are distributed among these distances:
14 5 0.16
15 2 0.06
16 10 0.32
18 7 0.23
19 2 0.06
20 5 0.16
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
ATATTATTTTATATTT
Found at i:152922 original size:7 final size:7
Alignment explanation
Indices: 152903--152948 Score: 51
Period size: 7 Copynumber: 6.7 Consensus size: 7
152893 AACGTAATAT
152903 TATTTTA
1 TATTTTA
152910 TA-TTTA
1 TATTTTA
152916 TATTTTA
1 TATTTTA
*
152923 T-TTTAA
1 TATTTTA
*
152929 TTATTTTT
1 -TATTTTA
152937 TATTTTA
1 TATTTTA
152944 TATTT
1 TATTT
152949 ATAAAATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
6 10 0.31
7 19 0.59
8 3 0.09
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (7 bp):
TATTTTA
Found at i:152923 original size:34 final size:34
Alignment explanation
Indices: 152881--152951 Score: 90
Period size: 34 Copynumber: 2.1 Consensus size: 34
152871 TTATATACGA
152881 ATATTTTATTTAAACGTA-ATATTATTTTATATTT
1 ATATTTTATTTAAA-GTATATATTATTTTATATTT
* * * *
152915 ATATTTTATTTTAATTATTTTTTATTTTATATTT
1 ATATTTTATTTAAAGTATATATTATTTTATATTT
152949 ATA
1 ATA
152952 AAATTATATT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 2 0.06
34 30 0.94
ACGTcount: A:0.32, C:0.01, G:0.01, T:0.65
Consensus pattern (34 bp):
ATATTTTATTTAAAGTATATATTATTTTATATTT
Found at i:152924 original size:21 final size:21
Alignment explanation
Indices: 152900--152962 Score: 51
Period size: 21 Copynumber: 3.0 Consensus size: 21
152890 TTAAACGTAA
152900 TATTATTTTATATTTATATTT
1 TATTATTTTATATTTATATTT
*
152921 TATT-TTAATTAT-TTTTTATTT
1 TATTATT--TTATATTTATATTT
* *
152942 TA-TATTTATAAAATTATATTT
1 TATTATTT-TATATTTATATTT
152963 AATATTATCA
Statistics
Matches: 33, Mismatches: 4, Indels: 10
0.70 0.09 0.21
Matches are distributed among these distances:
19 1 0.03
20 5 0.15
21 23 0.70
22 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TATTATTTTATATTTATATTT
Found at i:153350 original size:15 final size:15
Alignment explanation
Indices: 153330--153381 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
153320 TATTTTTTAT
153330 ATATTAAATTTAATA
1 ATATTAAATTTAATA
* *
153345 ATATTAAAATAAATA
1 ATATTAAATTTAATA
*
153360 ATATTTTTAATTTAATA
1 ATA--TTAAATTTAATA
153377 ATATT
1 ATATT
153382 TAAAATAAAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 18 0.60
17 12 0.40
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATATTAAATTTAATA
Found at i:153383 original size:15 final size:15
Alignment explanation
Indices: 153315--153384 Score: 58
Period size: 15 Copynumber: 4.8 Consensus size: 15
153305 AAATAATAAA
153315 AATAATATTT--TTT
1 AATAATATTTAATTT
*
153328 -AT-ATATTAAATTT
1 AATAATATTTAATTT
* * *
153341 AATAATATTAAAATA
1 AATAATATTTAATTT
153356 AATAATATTTTTAATTT
1 AATAATA--TTTAATTT
153373 AATAATATTTAA
1 AATAATATTTAA
153385 AATAAATTAT
Statistics
Matches: 45, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
11 5 0.11
12 2 0.04
13 3 0.07
14 2 0.04
15 21 0.47
17 12 0.27
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AATAATATTTAATTT
Found at i:153489 original size:21 final size:21
Alignment explanation
Indices: 153440--153489 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
153430 TTTTTTCATC
153440 TAAATTTTTTTAAAAATAACTT
1 TAAA-TTTTTTAAAAATAACTT
**
153462 TTTATTTTTTAAAAATAA-TT
1 TAAATTTTTTAAAAATAACTT
153482 ATAAATTT
1 -TAAATTT
153490 AATTTTTTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 2 0.09
21 19 0.83
22 2 0.09
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (21 bp):
TAAATTTTTTAAAAATAACTT
Found at i:155477 original size:6 final size:6
Alignment explanation
Indices: 155462--155506 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
155452 TATTTTCCTG
* * *
155462 TATTTA TATTTG TATTTA TATTTA TATTATA TAGTTA TATATA TA
1 TATTTA TATTTA TATTTA TATTTA TATT-TA TATTTA TATTTA TA
155507 AGGATAAACT
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
6 28 0.85
7 5 0.15
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (6 bp):
TATTTA
Found at i:155606 original size:19 final size:19
Alignment explanation
Indices: 155564--155600 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
155554 AATTTATTAT
*
155564 ATTAATTATTTTATATTTA
1 ATTAATAATTTTATATTTA
*
155583 ATTAATAATTTTTTATTT
1 ATTAATAATTTTATATTT
155601 TGTTAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
ATTAATAATTTTATATTTA
Found at i:159163 original size:16 final size:17
Alignment explanation
Indices: 159132--159165 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
159122 AATTTTTAAG
159132 TTTTTTTATGATTATTT
1 TTTTTTTATGATTATTT
*
159149 TTTTTTTTTGA-TATTT
1 TTTTTTTATGATTATTT
159165 T
1 T
159166 ACTTTTTCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.00, G:0.06, T:0.79
Consensus pattern (17 bp):
TTTTTTTATGATTATTT
Found at i:163137 original size:24 final size:24
Alignment explanation
Indices: 163110--163157 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
163100 CGATTTCATC
163110 AATTTTCAATAAT-TATAAAAATAT
1 AATTTTCAA-AATATATAAAAATAT
**
163134 AATTTTTTAAATATATAAAAATAT
1 AATTTTCAAAATATATAAAAATAT
163158 TTAAAAATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 3 0.14
24 18 0.86
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (24 bp):
AATTTTCAAAATATATAAAAATAT
Found at i:163157 original size:10 final size:10
Alignment explanation
Indices: 163142--163172 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
163132 ATAATTTTTT
*
163142 AAATATATAA
1 AAATATTTAA
163152 AAATATTTAA
1 AAATATTTAA
163162 AAATATTTAA
1 AAATATTTAA
163172 A
1 A
163173 TACATCTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (10 bp):
AAATATTTAA
Found at i:170031 original size:5 final size:5
Alignment explanation
Indices: 170021--170073 Score: 56
Period size: 5 Copynumber: 10.4 Consensus size: 5
170011 AGATGAAAAA
*
170021 AATAT AATAT AAAATAT AATAT AATAT AA-AA AATAT AAATAT AATAT
1 AATAT AATAT --AATAT AATAT AATAT AATAT AATAT -AATAT AATAT
170068 AA-AT AA
1 AATAT AA
170074 AATATTTTAA
Statistics
Matches: 42, Mismatches: 2, Indels: 9
0.79 0.04 0.17
Matches are distributed among these distances:
4 7 0.17
5 25 0.60
6 5 0.12
7 5 0.12
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (5 bp):
AATAT
Found at i:170078 original size:31 final size:31
Alignment explanation
Indices: 170017--170078 Score: 90
Period size: 31 Copynumber: 2.0 Consensus size: 31
170007 TAATAGATGA
*
170017 AAAAAATATAATATAAAATATAATATAATAT
1 AAAAAATATAATATAAAATATAATAAAATAT
*
170048 AAAAAATATAA-ATATAATATAAATAAAATAT
1 AAAAAATATAATATAAAATAT-AATAAAATAT
170079 TTTAAAATTC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
30 8 0.29
31 20 0.71
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (31 bp):
AAAAAATATAATATAAAATATAATAAAATAT
Found at i:170084 original size:25 final size:25
Alignment explanation
Indices: 170026--170075 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
170016 AAAAAAATAT
170026 AATATAAAATATAATATAATATAAAA
1 AATAT-AAATATAATATAATATAAAA
170052 AATATAAATATAATATAA-ATAAAA
1 AATATAAATATAATATAATATAAAA
170076 TATTTTAAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
24 6 0.25
25 13 0.54
26 5 0.21
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (25 bp):
AATATAAATATAATATAATATAAAA
Found at i:170935 original size:9 final size:9
Alignment explanation
Indices: 170921--170951 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
170911 TTCTTTTTAA
170921 AAGTACTAG
1 AAGTACTAG
*
170930 AAGTACTAA
1 AAGTACTAG
170939 AAGTACTAG
1 AAGTACTAG
170948 AAGT
1 AAGT
170952 TTTGATCTTT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.48, C:0.10, G:0.19, T:0.23
Consensus pattern (9 bp):
AAGTACTAG
Found at i:171451 original size:21 final size:21
Alignment explanation
Indices: 171427--171466 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
171417 TTTTAAAGAT
*
171427 ATTTATTATTAACAAATATTA
1 ATTTATTAATAACAAATATTA
171448 ATTTATTAATAACAAATAT
1 ATTTATTAATAACAAATAT
171467 GTCATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.50, C:0.05, G:0.00, T:0.45
Consensus pattern (21 bp):
ATTTATTAATAACAAATATTA
Found at i:174920 original size:42 final size:42
Alignment explanation
Indices: 174844--174934 Score: 110
Period size: 42 Copynumber: 2.2 Consensus size: 42
174834 TCAAAATTGG
* * *
174844 ACAGTTGAGTAATGAGAACAGACGCTTAACAGAGGAAACTGA
1 ACAGTTGAGTAATGAGAACAGACACCTAAAAGAGGAAACTGA
* * * * *
174886 ACGGTTGAGTATTGAGAACGGATACCTAAAAGAGGTAACTGA
1 ACAGTTGAGTAATGAGAACAGACACCTAAAAGAGGAAACTGA
174928 ACAGTTG
1 ACAGTTG
174935 TATCTCGAGA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.40, C:0.13, G:0.27, T:0.20
Consensus pattern (42 bp):
ACAGTTGAGTAATGAGAACAGACACCTAAAAGAGGAAACTGA
Found at i:175160 original size:31 final size:31
Alignment explanation
Indices: 175122--175189 Score: 129
Period size: 31 Copynumber: 2.2 Consensus size: 31
175112 ATTTGGAGTA
175122 AATTTTCTTATTCGATTTCTTAACTAAGCTG
1 AATTTTCTTATTCGATTTCTTAACTAAGCTG
175153 AATTTTCTTATTCGATTTCTTAACTAAGCTG
1 AATTTTCTTATTCGATTTCTTAACTAAGCTG
175184 -ATTTTC
1 AATTTTC
175190 CTGTTATGTA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 6 0.16
31 31 0.84
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.50
Consensus pattern (31 bp):
AATTTTCTTATTCGATTTCTTAACTAAGCTG
Found at i:177533 original size:16 final size:16
Alignment explanation
Indices: 177512--177550 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
177502 TAATTAAATC
*
177512 AAATTTGAAATAATAT
1 AAATTTAAAATAATAT
* *
177528 AAATTTAAAATGATTT
1 AAATTTAAAATAATAT
177544 AAATTTA
1 AAATTTA
177551 CTTGAAACCT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.54, C:0.00, G:0.05, T:0.41
Consensus pattern (16 bp):
AAATTTAAAATAATAT
Found at i:179059 original size:32 final size:31
Alignment explanation
Indices: 179018--179108 Score: 76
Period size: 32 Copynumber: 2.8 Consensus size: 31
179008 ATTATACCTT
* *
179018 ATATTTTTAAAAATATAAAAA-AATTTATAAAA
1 ATATATTTAAAAAT-TAAAAATAAATTAT-AAA
**
179050 ATATATTTAATTATTAAAAATTAAATTATAAA
1 ATATATTTAAAAATTAAAAA-TAAATTATAAA
* *
179082 ATATATTAAAAAAATTATAATATAAAT
1 ATATATT-TAAAAATTA-AAAATAAAT
179109 GAACCTAAAT
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
31 6 0.13
32 21 0.45
33 17 0.36
34 3 0.06
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (31 bp):
ATATATTTAAAAATTAAAAATAAATTATAAA
Found at i:179165 original size:22 final size:21
Alignment explanation
Indices: 179114--179180 Score: 57
Period size: 22 Copynumber: 3.2 Consensus size: 21
179104 TAAATGAACC
*
179114 TAAATAAAATTAT-ATT-ATT
1 TAAATAAAAATATAATTAATT
* *
179133 TATATATAAATATAATTAAATT
1 TAAATAAAAATATAATT-AATT
* *
179155 TAAATAAAAATTTACTTATATT
1 TAAATAAAAATATAATTA-ATT
179177 TAAA
1 TAAA
179181 ATTAAAAAAA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
19 10 0.27
20 3 0.08
21 1 0.03
22 23 0.62
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (21 bp):
TAAATAAAAATATAATTAATT
Found at i:180130 original size:36 final size:36
Alignment explanation
Indices: 180080--180260 Score: 296
Period size: 36 Copynumber: 5.1 Consensus size: 36
180070 ATGATCATGA
*
180080 CCAAGTGAATCAAGTAGAAACATCAGAAGCTTCATT
1 CCAAGTGAATCAAGTAGAAACATCTGAAGCTTCATT
* *
180116 CCCAGTGAATCAAGTAGAAACATCTGAAGCCTCATT
1 CCAAGTGAATCAAGTAGAAACATCTGAAGCTTCATT
180152 CCAAGTGAATCAAGTAGAAACATCTGAAGCTTCATT
1 CCAAGTGAATCAAGTAGAAACATCTGAAGCTTCATT
180188 CCAAGTGAATCAAGTAGAAACATCTGAAGCTTCATT
1 CCAAGTGAATCAAGTAGAAACATCTGAAGCTTCATT
**
180224 ---TTTGAATCAAGTAGAAACATCTGAAGCTTCATT
1 CCAAGTGAATCAAGTAGAAACATCTGAAGCTTCATT
180257 CCAA
1 CCAA
180261 ACCAAATCGG
Statistics
Matches: 134, Mismatches: 8, Indels: 6
0.91 0.05 0.04
Matches are distributed among these distances:
33 31 0.23
36 103 0.77
ACGTcount: A:0.39, C:0.20, G:0.16, T:0.25
Consensus pattern (36 bp):
CCAAGTGAATCAAGTAGAAACATCTGAAGCTTCATT
Found at i:184489 original size:21 final size:22
Alignment explanation
Indices: 184464--184512 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
184454 ATTTAAAAAT
184464 ATTAAAATATATAT-TTTTA-A
1 ATTAAAATATATATATTTTATA
* *
184484 CATTAATATTTATATATTTTATA
1 -ATTAAAATATATATATTTTATA
184507 ATTAAA
1 ATTAAA
184513 TTTAAATAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
21 12 0.52
22 10 0.43
23 1 0.04
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTAAAATATATATATTTTATA
Found at i:189030 original size:48 final size:48
Alignment explanation
Indices: 188978--189173 Score: 311
Period size: 48 Copynumber: 4.1 Consensus size: 48
188968 CAGCTTGGTA
* **
188978 AGGAGTACTTCCATAGTTAGGGCCATTTTGGAAGTTCTGTGCATTTCC
1 AGGAGTGCTTCCATAGCCAGGGCCATTTTGGAAGTTCTGTGCATTTCC
* *
189026 AGGAGTGTTTCCGTAGCCAGGGCCATTTTGGAAGTTCTGTGCATTTCC
1 AGGAGTGCTTCCATAGCCAGGGCCATTTTGGAAGTTCTGTGCATTTCC
* * *
189074 AGGAGTGTTTCCATGGCTAGGGCCATTTTGGAAGTTCTGTGCATTTCC
1 AGGAGTGCTTCCATAGCCAGGGCCATTTTGGAAGTTCTGTGCATTTCC
*
189122 AGGAGTGCTTCCATAGCCAGGGCCATTTTGGAAGTTCTGCGCATTTCC
1 AGGAGTGCTTCCATAGCCAGGGCCATTTTGGAAGTTCTGTGCATTTCC
189170 AGGA
1 AGGA
189174 ATGTTACCTG
Statistics
Matches: 136, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
48 136 1.00
ACGTcount: A:0.19, C:0.20, G:0.28, T:0.33
Consensus pattern (48 bp):
AGGAGTGCTTCCATAGCCAGGGCCATTTTGGAAGTTCTGTGCATTTCC
Found at i:189228 original size:24 final size:24
Alignment explanation
Indices: 189210--189328 Score: 132
Period size: 24 Copynumber: 4.8 Consensus size: 24
189200 TGGCACACTC
189210 CCCATGTTGTTGGGGGGCATCCCT
1 CCCATGTTGTTGGGGGGCATCCCT
* *
189234 CCCATGTTGTTCGGTGGCA-CCCT
1 CCCATGTTGTTGGGGGGCATCCCT
* *
189257 ACCCATGTAGTTGGGTGGCGGCATCCTT
1 -CCCATGTTGTT-GG-GG-GGCATCCCT
**
189285 CCCATGTTGTTGGATGGCATCCCT
1 CCCATGTTGTTGGGGGGCATCCCT
*
189309 CCCATGTTGTTGGGAGGCAT
1 CCCATGTTGTTGGGGGGCAT
189329 TCCAGCTGTA
Statistics
Matches: 78, Mismatches: 12, Indels: 10
0.78 0.12 0.10
Matches are distributed among these distances:
23 4 0.05
24 53 0.68
25 1 0.01
26 3 0.04
27 14 0.18
28 3 0.04
ACGTcount: A:0.12, C:0.28, G:0.30, T:0.30
Consensus pattern (24 bp):
CCCATGTTGTTGGGGGGCATCCCT
Found at i:189279 original size:27 final size:27
Alignment explanation
Indices: 189249--189302 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
189239 GTTGTTCGGT
*
189249 GGCACCCTACCCATGTAGTTGGGTGGC
1 GGCACCCTACCCATGTAGTTGGATGGC
* * *
189276 GGCATCCTTCCCATGTTGTTGGATGGC
1 GGCACCCTACCCATGTAGTTGGATGGC
189303 ATCCCTCCCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.13, C:0.28, G:0.31, T:0.28
Consensus pattern (27 bp):
GGCACCCTACCCATGTAGTTGGATGGC
Found at i:189303 original size:51 final size:47
Alignment explanation
Indices: 189196--189322 Score: 157
Period size: 51 Copynumber: 2.6 Consensus size: 47
189186 CACCCTTGAT
*
189196 TTGGTGGCACACTCCCCATGTTGTT-GGGGGGCATCCCTCCCATGTTG
1 TTGGTGGCACCCT-CCCATGTTGTTGGGGGGGCATCCCTCCCATGTTG
* *
189243 TTCGGTGGCACCCTACCCATGTAGTTGGGTGGCGGCATCCTTCCCATGTTG
1 TT-GGTGGCACCCT-CCCATGTTGTTGGG-GG-GGCATCCCTCCCATGTTG
189294 TTGGATGGCATCCCTCCCATGTTGTTGGG
1 TTGG-TGGCA-CCCTCCCATGTTGTTGGG
189323 AGGCATTCCA
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
47 2 0.03
48 20 0.29
49 2 0.03
50 4 0.06
51 37 0.54
52 4 0.06
ACGTcount: A:0.11, C:0.28, G:0.30, T:0.31
Consensus pattern (47 bp):
TTGGTGGCACCCTCCCATGTTGTTGGGGGGGCATCCCTCCCATGTTG
Found at i:189319 original size:27 final size:26
Alignment explanation
Indices: 189196--189320 Score: 95
Period size: 24 Copynumber: 5.0 Consensus size: 26
189186 CACCCTTGAT
*
189196 TTGGTGGCA-CACTCCCCATGTTGTTG
1 TTGGTGGCATCCCT-CCCATGTTGTTG
*
189222 --GGGGGCATCCCTCCCATGTTG-T-
1 TTGGTGGCATCCCTCCCATGTTGTTG
* *
189244 TCGGTGGCA-CCCTACCCATGTAGTTGG
1 TTGGTGGCATCCCT-CCCATGTTGTT-G
* * *
189271 GTGGCGGCATCCTTCCCATGTTGTTG
1 TTGGTGGCATCCCTCCCATGTTGTTG
*
189297 --GATGGCATCCCTCCCATGTTGTTG
1 TTGGTGGCATCCCTCCCATGTTGTTG
189321 GGAGGCATTC
Statistics
Matches: 79, Mismatches: 12, Indels: 18
0.72 0.11 0.17
Matches are distributed among these distances:
23 5 0.06
24 50 0.63
25 4 0.05
26 1 0.01
27 16 0.20
28 3 0.04
ACGTcount: A:0.11, C:0.29, G:0.29, T:0.31
Consensus pattern (26 bp):
TTGGTGGCATCCCTCCCATGTTGTTG
Found at i:191891 original size:23 final size:24
Alignment explanation
Indices: 191866--191910 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 24
191856 TTATTGAATT
*
191866 TTTTATTT-AAAAATG-TGAAATG
1 TTTTATTTGAAAAAGGTTGAAATG
191888 TTTTATTTGAAAAAGGTTGAAAT
1 TTTTATTTGAAAAAGGTTGAAAT
191911 AAAAATTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 6 0.30
24 6 0.30
ACGTcount: A:0.40, C:0.00, G:0.16, T:0.44
Consensus pattern (24 bp):
TTTTATTTGAAAAAGGTTGAAATG
Found at i:193200 original size:10 final size:10
Alignment explanation
Indices: 193175--193208 Score: 50
Period size: 11 Copynumber: 3.2 Consensus size: 10
193165 AAAAATTATT
193175 TTTAATAAATA
1 TTTAATAAA-A
193186 TTTAATAAAA
1 TTTAATAAAA
193196 TTTAAATAAAA
1 TTT-AATAAAA
193207 TT
1 TT
193209 ATTTTATTAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 4 0.18
11 18 0.82
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (10 bp):
TTTAATAAAA
Found at i:202423 original size:27 final size:25
Alignment explanation
Indices: 202352--202424 Score: 60
Period size: 27 Copynumber: 2.8 Consensus size: 25
202342 GTCTTCGCGG
* *
202352 TTTATTATTTAAAATAGTATTAAAAT
1 TTTATTATTTAAATTA-AATTAAAAT
*
202378 TTTATT-TTT-AATCAAAAATTAAAAATT
1 TTTATTATTTAAAT--TAAATT-AAAA-T
202405 TTTATTATTTAAATTAAATT
1 TTTATTATTTAAATTAAATT
202425 TTTTAAATTA
Statistics
Matches: 37, Mismatches: 4, Indels: 11
0.71 0.08 0.21
Matches are distributed among these distances:
24 2 0.05
25 6 0.16
26 11 0.30
27 12 0.32
28 3 0.08
29 3 0.08
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (25 bp):
TTTATTATTTAAATTAAATTAAAAT
Found at i:205747 original size:19 final size:19
Alignment explanation
Indices: 205719--205769 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 19
205709 TTTTACAATT
*
205719 TAAATTATT-TTGATAAAAA
1 TAAATAATTATTGA-AAAAA
*
205738 TAAATAATTTATTGAAAATA
1 TAAATAA-TTATTGAAAAAA
205758 TAAATAATTATT
1 TAAATAATTATT
205770 TTTATTAATT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 11 0.39
20 13 0.46
21 4 0.14
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (19 bp):
TAAATAATTATTGAAAAAA
Found at i:206440 original size:14 final size:15
Alignment explanation
Indices: 206407--206441 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
206397 AACAAAAAAC
206407 AAAAATTAATTTTTA
1 AAAAATTAATTTTTA
*
206422 TAAAATTAA-TTTTA
1 AAAAATTAATTTTTA
206436 AAAAAT
1 AAAAAT
206442 ATTTTGTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
AAAAATTAATTTTTA
Found at i:206929 original size:18 final size:20
Alignment explanation
Indices: 206901--206941 Score: 68
Period size: 18 Copynumber: 2.1 Consensus size: 20
206891 TTTAAATAAA
206901 AAAATATATTATTTTA-ATT
1 AAAATATATTATTTTATATT
206920 AAAA-ATATTATTTTATATT
1 AAAATATATTATTTTATATT
206939 AAA
1 AAA
206942 TCAATTTAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (20 bp):
AAAATATATTATTTTATATT
Found at i:206935 original size:23 final size:22
Alignment explanation
Indices: 206891--206942 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
206881 TATAATTAAA
206891 TTTAAATAAAAAAATATATTAT
1 TTTAAATAAAAAAATATATTAT
* * *
206913 TTTAATTAAAAATATTATTTTAT
1 TTTAAATAAAAA-AATATATTAT
*
206936 ATTAAAT
1 TTTAAAT
206943 CAATTTAAAT
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
22 11 0.46
23 13 0.54
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAAATAAAAAAATATATTAT
Found at i:207988 original size:23 final size:22
Alignment explanation
Indices: 207957--208005 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
207947 GAACCTTTTT
*
207957 TTATCAAAAAATATTAAATAATA
1 TTATAAAAAAATATTAAAT-ATA
* *
207980 TTATAAAAAATTATTTAATATA
1 TTATAAAAAAATATTAAATATA
208002 TTAT
1 TTAT
208006 TAGTAAATTT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 7 0.30
23 16 0.70
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (22 bp):
TTATAAAAAAATATTAAATATA
Found at i:208791 original size:17 final size:18
Alignment explanation
Indices: 208749--208792 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
208739 CAAATATTTT
208749 ATCAATA-AAATAATTAC
1 ATCAATATAAATAATTAC
208766 A-CTAA-ATAAATAATT-C
1 ATC-AATATAAATAATTAC
208782 ATCAATATAAA
1 ATCAATATAAA
208793 ATTTTTTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 8
0.74 0.00 0.26
Matches are distributed among these distances:
16 6 0.26
17 17 0.74
ACGTcount: A:0.59, C:0.11, G:0.00, T:0.30
Consensus pattern (18 bp):
ATCAATATAAATAATTAC
Found at i:209217 original size:17 final size:18
Alignment explanation
Indices: 209185--209221 Score: 58
Period size: 19 Copynumber: 2.1 Consensus size: 18
209175 AAAAAATTAT
209185 TAATTATTTTAAATTTTTA
1 TAATTATTTT-AATTTTTA
209204 TAATTATTTT-ATTTTTA
1 TAATTATTTTAATTTTTA
209221 T
1 T
209222 TAAGGGGTTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 8 0.44
19 10 0.56
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
TAATTATTTTAATTTTTA
Found at i:210839 original size:14 final size:15
Alignment explanation
Indices: 210803--210845 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
210793 AATTCTTCTA
210803 ATCAATTTTTTTAAAT
1 ATCAATTTTTTT-AAT
*
210819 ATTAATTTTTTTAAT
1 ATCAATTTTTTTAAT
*
210834 -TCAATTTCTTTA
1 ATCAATTTTTTTA
210846 CGGATTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
14 10 0.42
15 3 0.12
16 11 0.46
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (15 bp):
ATCAATTTTTTTAAT
Found at i:213069 original size:29 final size:29
Alignment explanation
Indices: 212934--213078 Score: 93
Period size: 29 Copynumber: 5.0 Consensus size: 29
212924 TTTTGGGATT
* *
212934 AAAGTATAATTTCAATAAGTTAAAGGGTC
1 AAAGTATAATTTCAAAAAGTTTAAGGGTC
* * * *
212963 AAAGTATAGTTTCATAAAGTTTAAAGATC
1 AAAGTATAATTTCAAAAAGTTTAAGGGTC
**
212992 AAAGTGA-AATTTTGAAAAG--TAA-GGTC
1 AAAGT-ATAATTTCAAAAAGTTTAAGGGTC
* *
213018 AAAATGTAATTTTGAAACAAAAAGTTTAAGGGTC
1 AAAGTATAA-TTT----CAAAAAGTTTAAGGGTC
* *
213052 AAAGTTTAATTTCAAAAAATTT-AGGGT
1 AAAGTATAATTTCAAAAAGTTTAAGGGT
213079 TTTAGTAGTA
Statistics
Matches: 88, Mismatches: 18, Indels: 21
0.69 0.14 0.17
Matches are distributed among these distances:
26 9 0.10
27 6 0.07
28 5 0.06
29 45 0.51
30 1 0.01
31 5 0.06
33 6 0.07
34 11 0.12
ACGTcount: A:0.46, C:0.06, G:0.17, T:0.32
Consensus pattern (29 bp):
AAAGTATAATTTCAAAAAGTTTAAGGGTC
Found at i:214366 original size:25 final size:27
Alignment explanation
Indices: 214313--214371 Score: 86
Period size: 27 Copynumber: 2.3 Consensus size: 27
214303 TTAAATAAGT
* *
214313 AATTATTTTTTAATAAATTTAATTTAA
1 AATTATTTTTTAATAAAATTAATTAAA
214340 AATTATTTTTTAA-AAAATTAA-TAAA
1 AATTATTTTTTAATAAAATTAATTAAA
214365 AATTATT
1 AATTATT
214372 AAAAAAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
25 10 0.33
26 7 0.23
27 13 0.43
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (27 bp):
AATTATTTTTTAATAAAATTAATTAAA
Found at i:217306 original size:15 final size:14
Alignment explanation
Indices: 217274--217311 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
217264 ATAATAAAAA
217274 AATATTTT-AATTT
1 AATATTTTAAATTT
*
217287 TATATTATTAAATTT
1 AATATT-TTAAATTT
217302 AATATTTTAA
1 AATATTTTAA
217312 TTCATGTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
13 5 0.24
14 6 0.29
15 10 0.48
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
AATATTTTAAATTT
Found at i:218076 original size:97 final size:95
Alignment explanation
Indices: 217907--218097 Score: 267
Period size: 97 Copynumber: 2.0 Consensus size: 95
217897 AAATATTTTT
* * *
217907 TCATAGTTGTTATCACATCATCATCAAAATTGTATATGATAGATATAACATATATCATCCAATCA
1 TCATAGTTGTTATCACATCATCACCAAAATTATATATGATACATATAACATATATCATCCAATCA
217972 TCACCATCAATAAATATAATATATACAAGA
66 TCACCATCAATAAATATAATATATACAAGA
* * *
218002 TCATAGTTGTTATCTCATATTATCACCAAAATTATATATGATACATATAATATATATCATCTC-A
1 TCATAGTTGTTA--TCACATCATCACCAAAATTATATATGATACATATAACATATATCATC-CAA
* * *
218066 TCATCCCCATCAATGAATATTATATATACAAG
63 TCATCACCATCAATAAATATAATATATACAAG
218098 GTGAAAAAAT
Statistics
Matches: 84, Mismatches: 9, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
95 12 0.14
97 71 0.85
98 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.06, T:0.35
Consensus pattern (95 bp):
TCATAGTTGTTATCACATCATCACCAAAATTATATATGATACATATAACATATATCATCCAATCA
TCACCATCAATAAATATAATATATACAAGA
Found at i:218734 original size:19 final size:21
Alignment explanation
Indices: 218710--218752 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
218700 TTACTTAAAA
*
218710 AATTTATC-ATAA-ATAATTT
1 AATTTATCAATAATAAAATTT
218729 AATTTATCAATAATAAAATTT
1 AATTTATCAATAATAAAATTT
218750 AAT
1 AAT
218753 AATATAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 4 0.19
21 9 0.43
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (21 bp):
AATTTATCAATAATAAAATTT
Found at i:218762 original size:29 final size:29
Alignment explanation
Indices: 218721--218784 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 29
218711 ATTTATCATA
* *
218721 AATAATTTAATTTATCAATAATAAAATTT
1 AATAATATAATTTATCAAGAATAAAATTT
* *
218750 AATAATATAATTTATTAAGATTAAAATTT
1 AATAATATAATTTATCAAGAATAAAATTT
*
218779 TATAAT
1 AATAAT
218785 TTACAATTTT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (29 bp):
AATAATATAATTTATCAAGAATAAAATTT
Found at i:219401 original size:16 final size:16
Alignment explanation
Indices: 219346--219399 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
219336 ATAATGTGGT
219346 TATTAAATA-AAT-AA
1 TATTAAATATAATAAA
*
219360 T-TTTAATATTAAATAAA
1 TATTAAATA-T-AATAAA
219377 TATTAAATATAATAAA
1 TATTAAATATAATAAA
219393 TACTTAA
1 TA-TTAA
219400 TAAAAATATA
Statistics
Matches: 32, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
13 6 0.19
14 1 0.03
16 11 0.34
17 8 0.25
18 6 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (16 bp):
TATTAAATATAATAAA
Found at i:222709 original size:22 final size:22
Alignment explanation
Indices: 222665--222709 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
222655 TAAAAAATAA
* *
222665 ATTTATTTTATTAATTATTTTT
1 ATTTATTTTAGTAATTATATTT
222687 ATTTATTTTAAGTAA-TATATTT
1 ATTTATTTT-AGTAATTATATTT
222709 A
1 A
222710 GATTGATTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
ATTTATTTTAGTAATTATATTT
Found at i:222824 original size:21 final size:20
Alignment explanation
Indices: 222798--222848 Score: 57
Period size: 21 Copynumber: 2.5 Consensus size: 20
222788 TAATAATTTT
* *
222798 AATTTAAAATTATTTTTAAAA
1 AATTTAAAA-AATTATTAAAA
222819 AATTTATAAAAATTATTAAAA
1 AATTTA-AAAAATTATTAAAA
*
222840 AAATTAAAA
1 AATTTAAAA
222849 CCTTACACGG
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
20 3 0.12
21 20 0.77
22 3 0.12
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AATTTAAAAAATTATTAAAA
Found at i:226439 original size:2 final size:2
Alignment explanation
Indices: 226434--226475 Score: 50
Period size: 2 Copynumber: 21.5 Consensus size: 2
226424 GAAATGTGTG
* * *
226434 TA TA TA TG TA TA TA TA TA -A TA TT TA TA TA TA TA CA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
226475 T
1 T
226476 TTTTACATTT
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:229560 original size:15 final size:16
Alignment explanation
Indices: 229531--229560 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
229521 ATCATCTTAG
229531 TTTATAAATTAATTTT
1 TTTATAAATTAATTTT
229547 TTTATAAA-TAATTT
1 TTTATAAATTAATTT
229561 AAAGTAAATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (16 bp):
TTTATAAATTAATTTT
Found at i:230113 original size:6 final size:6
Alignment explanation
Indices: 230096--230130 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
230086 AATATCAGGC
* *
230096 TATATT TTTATT TATATT TATAAT TATATT TATAT
1 TATATT TATATT TATATT TATATT TATATT TATAT
230131 ATTAAAATAG
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (6 bp):
TATATT
Found at i:230113 original size:12 final size:12
Alignment explanation
Indices: 230096--230134 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
230086 AATATCAGGC
* *
230096 TATATTTTTATT
1 TATATTTATAAT
230108 TATATTTATAAT
1 TATATTTATAAT
230120 TATATTTATATAT
1 TATATTTATA-AT
230133 TA
1 TA
230135 AAATAGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 20 0.83
13 4 0.17
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TATATTTATAAT
Found at i:230254 original size:22 final size:23
Alignment explanation
Indices: 230211--230252 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
230201 TAAATATTAA
230211 TTTTTAATATTATATTATTATAG
1 TTTTTAATATTATATTATTATAG
230234 TTTTTAA-ATTAT-TT-TTATA
1 TTTTTAATATTATATTATTATA
230253 TAATATTCAG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 5 0.26
21 2 0.11
22 5 0.26
23 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (23 bp):
TTTTTAATATTATATTATTATAG
Found at i:239612 original size:17 final size:15
Alignment explanation
Indices: 239560--239612 Score: 52
Period size: 17 Copynumber: 3.3 Consensus size: 15
239550 TAAAATTTAA
*
239560 AATTTATTAAATATC
1 AATTAATTAAATATC
*
239575 AATTAATTATATAAATC
1 AATTAATTA-A-ATATC
239592 AATTGAATTAAATATC
1 AATT-AATTAAATATC
239608 GAATT
1 -AATT
239613 CTTTTTTAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 8 0.26
16 5 0.16
17 13 0.42
18 5 0.16
ACGTcount: A:0.49, C:0.06, G:0.04, T:0.42
Consensus pattern (15 bp):
AATTAATTAAATATC
Found at i:246652 original size:18 final size:17
Alignment explanation
Indices: 246612--246655 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
246602 ATAAATATAT
*
246612 TATATATAAATTAGTTA
1 TATATTTAAATTAGTTA
*
246629 -ATATTTAATATTATTTA
1 TATATTTAA-ATTAGTTA
246646 TATATTTAAA
1 TATATTTAAA
246656 AATATAAAGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 7 0.30
17 8 0.35
18 8 0.35
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (17 bp):
TATATTTAAATTAGTTA
Found at i:246738 original size:29 final size:27
Alignment explanation
Indices: 246698--246762 Score: 64
Period size: 29 Copynumber: 2.4 Consensus size: 27
246688 AATATTTTAA
*
246698 TTATAATATTAAATAAACATTTAATAAAT
1 TTATAATATTAAA-AAACAATT-ATAAAT
*
246727 TTATAA-ATTTAAAAAATAATTATAAAT
1 TTATAATA-TTAAAAAACAATTATAAAT
246754 TT-T-ATATTA
1 TTATAATATTA
246763 TATATATTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
25 4 0.12
26 2 0.06
27 8 0.25
28 7 0.22
29 11 0.34
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.45
Consensus pattern (27 bp):
TTATAATATTAAAAAACAATTATAAAT
Found at i:251720 original size:2 final size:2
Alignment explanation
Indices: 251715--251741 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
251705 GAACTAGAGC
251715 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
251742 ATTGGACATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:254572 original size:27 final size:27
Alignment explanation
Indices: 254533--254588 Score: 103
Period size: 27 Copynumber: 2.1 Consensus size: 27
254523 AAAATCTTAA
254533 TTCTCTAAAGTACTGAAGCTAAAAAGC
1 TTCTCTAAAGTACTGAAGCTAAAAAGC
*
254560 TTCTCTAAGGTACTGAAGCTAAAAAGC
1 TTCTCTAAAGTACTGAAGCTAAAAAGC
254587 TT
1 TT
254589 ACAAAGCTAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.38, C:0.18, G:0.16, T:0.29
Consensus pattern (27 bp):
TTCTCTAAAGTACTGAAGCTAAAAAGC
Found at i:255587 original size:18 final size:17
Alignment explanation
Indices: 255566--255599 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
255556 CACAAAACTT
255566 TTTATATTAAAATAAATA
1 TTTATATTAAAA-AAATA
255584 TTTATATTAAAAAAAT
1 TTTATATTAAAAAAAT
255600 TAAAAAAGTA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TTTATATTAAAAAAATA
Found at i:255851 original size:14 final size:14
Alignment explanation
Indices: 255842--255884 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 14
255832 AAAAATCAAT
255842 AAATAAAAATATAA
1 AAATAAAAATATAA
*
255856 AAATAAAAAAATAA
1 AAATAAAAATATAA
255870 AAATATATAAATATA
1 AAATA-A-AAATATA
255885 TTTTTAAAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 18 0.72
15 1 0.04
16 6 0.24
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATAAAAATATAA
Found at i:255857 original size:22 final size:22
Alignment explanation
Indices: 255832--255882 Score: 75
Period size: 22 Copynumber: 2.3 Consensus size: 22
255822 TATACTTTAA
* *
255832 AAAAATCAATAAATAAAAATAT
1 AAAAATAAAAAAATAAAAATAT
255854 AAAAATAAAAAAATAAAAATAT
1 AAAAATAAAAAAATAAAAATAT
*
255876 ATAAATA
1 AAAAATA
255883 TATTTTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.76, C:0.02, G:0.00, T:0.22
Consensus pattern (22 bp):
AAAAATAAAAAAATAAAAATAT
Found at i:255885 original size:8 final size:8
Alignment explanation
Indices: 255844--255884 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
255834 AAATCAATAA
255844 ATAAAAAT
1 ATAAAAAT
255852 ATAAAAAT
1 ATAAAAAT
255860 A-AAAAA-
1 ATAAAAAT
255866 ATAAAAAT
1 ATAAAAAT
*
255874 ATATAAAT
1 ATAAAAAT
255882 ATA
1 ATA
255885 TTTTTAAAAC
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
6 1 0.03
7 10 0.33
8 19 0.63
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (8 bp):
ATAAAAAT
Found at i:256852 original size:34 final size:35
Alignment explanation
Indices: 256828--256903 Score: 89
Period size: 35 Copynumber: 2.2 Consensus size: 35
256818 ATGAAGATAT
* *
256828 GGTTTGATGATTTTTGAAAAGATAAGTGCATCATA
1 GGTTTCATGATTTTTGAAAAGATAAGTGCAACATA
* * * *
256863 GTTTTCATGGTTTTTGAAAAGATAAGTACATCATA
1 GGTTTCATGATTTTTGAAAAGATAAGTGCAACATA
*
256898 GTTTTC
1 GGTTTC
256904 TATTGTGAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.32, C:0.08, G:0.20, T:0.41
Consensus pattern (35 bp):
GGTTTCATGATTTTTGAAAAGATAAGTGCAACATA
Found at i:260873 original size:14 final size:15
Alignment explanation
Indices: 260848--260876 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
260838 ACTATTTTTC
260848 ATATTGATTTATGAT
1 ATATTGATTTATGAT
260863 ATATT-ATTTATGAT
1 ATATTGATTTATGAT
260877 TAAATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (15 bp):
ATATTGATTTATGAT
Found at i:263561 original size:19 final size:20
Alignment explanation
Indices: 263525--263576 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 20
263515 TGGTTGAATA
*
263525 TAAATATATAATTTAATATTT
1 TAAATATATAA-TAAATATTT
263546 TAAATATATAA-AAATA-TT
1 TAAATATATAATAAATATTT
263564 TAACATAT-TAATA
1 TAA-ATATATAATA
263577 TTAAATATAT
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
18 8 0.29
19 9 0.32
21 11 0.39
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TAAATATATAATAAATATTT
Found at i:263574 original size:26 final size:26
Alignment explanation
Indices: 263521--263591 Score: 76
Period size: 26 Copynumber: 2.7 Consensus size: 26
263511 TATATGGTTG
* *
263521 AATA-TAAATATATAATTTAATATTTT
1 AATATTAAATATAT-ATTTAACATATT
263547 AAATATATAAA-A-ATATTTAACATATT
1 -AATAT-TAAATATATATTTAACATATT
263573 AATATTAAATATATATTTA
1 AATATTAAATATATATTTA
263592 TAATTAATAC
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
24 4 0.11
25 6 0.16
26 17 0.45
27 6 0.16
28 1 0.03
29 4 0.11
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (26 bp):
AATATTAAATATATATTTAACATATT
Found at i:264924 original size:22 final size:20
Alignment explanation
Indices: 264874--264927 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 20
264864 TATATTAATT
264874 AATTTACATATTTATTTTTAA
1 AATTTA-ATATTTATTTTTAA
**
264895 AAAATAATATTTAATATTTTAA
1 AATTTAATATTT-AT-TTTTAA
264917 AATTTAATATT
1 AATTTAATATT
264928 AATTAATTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
20 6 0.22
21 6 0.22
22 15 0.56
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (20 bp):
AATTTAATATTTATTTTTAA
Found at i:264937 original size:22 final size:21
Alignment explanation
Indices: 264874--264937 Score: 51
Period size: 22 Copynumber: 3.0 Consensus size: 21
264864 TATATTAATT
*
264874 AATTTACATATTTATT-TTTAA
1 AATTTA-ATATTAATTATTTAA
**
264895 AAAATAATATTTAA-TATTTTAA
1 AATTTAATA-TTAATTA-TTTAA
264917 AATTTAATATTAATTAATTTA
1 AATTTAATATTAATT-ATTTA
264938 TGTATCTCTA
Statistics
Matches: 33, Mismatches: 5, Indels: 9
0.70 0.11 0.19
Matches are distributed among these distances:
20 4 0.12
21 11 0.33
22 17 0.52
23 1 0.03
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (21 bp):
AATTTAATATTAATTATTTAA
Found at i:265304 original size:2 final size:2
Alignment explanation
Indices: 265297--265323 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
265287 ATTCACATAC
265297 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
265324 CATACATACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:265409 original size:2 final size:2
Alignment explanation
Indices: 265402--265442 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
265392 TCTCATTAGA
265402 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
265443 GAGAGAGAGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:266783 original size:1 final size:1
Alignment explanation
Indices: 266777--266804 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
266767 AATTTTAGTG
266777 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTT
266805 CAGGTTGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:268009 original size:22 final size:22
Alignment explanation
Indices: 267981--268027 Score: 69
Period size: 22 Copynumber: 2.1 Consensus size: 22
267971 GATGTGAAGA
*
267981 TTAATGCAC-CTTGCTTACTTCT
1 TTAATGCACAC-TGCCTACTTCT
268003 TTAATGCACACTGCCTACTTCT
1 TTAATGCACACTGCCTACTTCT
268025 TTA
1 TTA
268028 GTAGGCTTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 22 0.96
23 1 0.04
ACGTcount: A:0.21, C:0.28, G:0.09, T:0.43
Consensus pattern (22 bp):
TTAATGCACACTGCCTACTTCT
Found at i:268300 original size:198 final size:198
Alignment explanation
Indices: 267962--268336 Score: 565
Period size: 198 Copynumber: 1.9 Consensus size: 198
267952 GATCTTCCCT
* * *
267962 TTCTCATTCGATGTGAAGATTAATGCACCTTGCTTACTTCTTTAATGCACACTGCCTACTTCTTT
1 TTCTCATCCGATGTGAAGATTAATGCACCTTACTTACTTATTTAATGCACACTGCCTACTTCTTT
* *
268027 AGTAGGCTTGGAGTGACATTTCCCCAACCCAATCTCGTGACACCCCCATCACAGGCTTCTCTACA
66 AGTAGGCTTAGAGTGACATTTCCCCAACCCAATCTCGTGACACCCCCATCACAGGCTTCTCCACA
* * *
268092 ATTTTTGCCTACCTAATGTATAGCCTTAGTCTGGGAAATTGTTGCTTCCTTTTATGCTTAAGTCA
131 ATTTTTGCCTACCTAATGCACAGCCTTAGTCTGGGAAATTGCTGCTTCCTTTTATGCTTAAGTCA
268157 TCC
196 TCC
* * ** *
268160 TTCTCATCCGATGTGAAGATTAATGTACCTTACTTACTTATTTAGTGTGCCCTGCCTACTTCTTT
1 TTCTCATCCGATGTGAAGATTAATGCACCTTACTTACTTATTTAATGCACACTGCCTACTTCTTT
* *
268225 AGTAGGCTTAGAGTGACATCTTCCCCAACCCAATCTTGT-A-ATGCCCCATCACAGGCTTCTCCA
66 AGTAGGCTTAGAGTGACAT-TTCCCCAACCCAATCTCGTGACA-CCCCCATCACAGGCTTCTCCA
* *
268288 CAATTTTTGCCTACCTAATGCGCAGCCTTAGTCTTGGAAATTGCTGCTT
129 CAATTTTTGCCTACCTAATGCACAGCCTTAGTCTGGGAAATTGCTGCTT
268337 TTGTATATGC
Statistics
Matches: 158, Mismatches: 17, Indels: 4
0.88 0.09 0.02
Matches are distributed among these distances:
197 1 0.01
198 139 0.88
199 18 0.11
ACGTcount: A:0.22, C:0.27, G:0.15, T:0.35
Consensus pattern (198 bp):
TTCTCATCCGATGTGAAGATTAATGCACCTTACTTACTTATTTAATGCACACTGCCTACTTCTTT
AGTAGGCTTAGAGTGACATTTCCCCAACCCAATCTCGTGACACCCCCATCACAGGCTTCTCCACA
ATTTTTGCCTACCTAATGCACAGCCTTAGTCTGGGAAATTGCTGCTTCCTTTTATGCTTAAGTCA
TCC
Found at i:269416 original size:35 final size:35
Alignment explanation
Indices: 269377--269446 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
269367 ATATGGTTTG
*
269377 ATGATTTTTGAAAAGATAAGGACATTATAATTTTC
1 ATGATTTTTGAAAAGATAAGGACATCATAATTTTC
* *
269412 ATGATTTTTGAAAAGATAAGTACATCATAGTTTTC
1 ATGATTTTTGAAAAGATAAGGACATCATAATTTTC
269447 TATCATGAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.39, C:0.07, G:0.14, T:0.40
Consensus pattern (35 bp):
ATGATTTTTGAAAAGATAAGGACATCATAATTTTC
Found at i:272740 original size:6 final size:6
Alignment explanation
Indices: 272719--272752 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
272709 GATTAATTAG
*
272719 TATTTA TTATTTA TATTAA TATTTA TATTTA TAT
1 TATTTA -TATTTA TATTTA TATTTA TATTTA TAT
272753 GTTAAATATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 19 0.76
7 6 0.24
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
TATTTA
Found at i:272741 original size:19 final size:18
Alignment explanation
Indices: 272714--272752 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 18
272704 TTAAAGATTA
*
272714 ATTAGTATTTATTATTTAT
1 ATTAATATTTA-TATTTAT
272733 ATTAATATTTATATTTAT
1 ATTAATATTTATATTTAT
272751 AT
1 AT
272753 GTTAAATATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 9 0.47
19 10 0.53
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.62
Consensus pattern (18 bp):
ATTAATATTTATATTTAT
Done.