Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, 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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 43 of 130
Found at i:10223967 original size:8 final size:8
Alignment explanation
Indices: 10223956--10224055 Score: 53
Period size: 8 Copynumber: 11.8 Consensus size: 8
10223946 ACTATGTTAC
10223956 TATTATTA
1 TATTATTA
10223964 TATTATATTA
1 TA-T-TATTA
*
10223974 TATTATAA
1 TATTATTA
10223982 TA-TATTA
1 TATTATTA
**
10223989 TATTAGGA
1 TATTATTA
10223997 TATTATTACA
1 TATTATT--A
10224007 CTATTATTA
1 -TATTATTA
10224016 TAGTAGTATTA
1 TA-T--TATTA
*
10224027 TATTATAA
1 TATTATTA
10224035 TA-TATTA
1 TATTATTA
*
10224042 GTA-TACTA
1 -TATTATTA
10224050 TATTAT
1 TATTAT
10224056 AGTAAATTAT
Statistics
Matches: 71, Mismatches: 10, Indels: 22
0.69 0.10 0.21
Matches are distributed among these distances:
7 12 0.17
8 32 0.45
9 4 0.06
10 9 0.13
11 14 0.20
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (8 bp):
TATTATTA
Found at i:10223969 original size:5 final size:5
Alignment explanation
Indices: 10223959--10224056 Score: 72
Period size: 5 Copynumber: 18.4 Consensus size: 5
10223949 ATGTTACTAT
* * * *
10223959 TATTA TATTA TATTA TATTA TAATA TATTA TATTA GGA-TA TTATTA CACTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA -TATTA -TATTA TATTA
* *
10224010 TTATTA TAGTA GTATTA TATTA TAATA TATTA GTATACTA TATTA TA
1 -TATTA TATTA -TATTA TATTA TATTA TATTA -TAT--TA TATTA TA
10224057 GTAAATTATT
Statistics
Matches: 73, Mismatches: 13, Indels: 14
0.73 0.13 0.14
Matches are distributed among these distances:
5 55 0.75
6 13 0.18
7 3 0.04
8 2 0.03
ACGTcount: A:0.41, C:0.03, G:0.05, T:0.51
Consensus pattern (5 bp):
TATTA
Found at i:10224064 original size:23 final size:24
Alignment explanation
Indices: 10224016--10224064 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 24
10224006 ACTATTATTA
* *
10224016 TAGTAGTATTATATTATAATATAT
1 TAGTAGTACTATATTATAATAAAT
*
10224040 TAGTA-TACTATATTATAGTAAAT
1 TAGTAGTACTATATTATAATAAAT
10224063 TA
1 TA
10224065 TTAGGATATT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 17 0.77
24 5 0.23
ACGTcount: A:0.43, C:0.02, G:0.08, T:0.47
Consensus pattern (24 bp):
TAGTAGTACTATATTATAATAAAT
Found at i:10224668 original size:21 final size:21
Alignment explanation
Indices: 10224639--10224678 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
10224629 TTTGGAGGGA
* *
10224639 TCTAGAAATTTTGGGTTTTTT
1 TCTAAAAATTTTGAGTTTTTT
10224660 TCTAAAAATTTTGAGTTTT
1 TCTAAAAATTTTGAGTTTT
10224679 AGATGAATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.05, G:0.15, T:0.55
Consensus pattern (21 bp):
TCTAAAAATTTTGAGTTTTTT
Found at i:10225089 original size:19 final size:18
Alignment explanation
Indices: 10225061--10225100 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
10225051 CAAGGTTTCC
*
10225061 TTTTTCATTTTTATTTTAT
1 TTTTTCATTTTCA-TTTAT
*
10225080 TTTTTGATTTTCATTTAT
1 TTTTTCATTTTCATTTAT
10225098 TTT
1 TTT
10225101 CATATTTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 8 0.42
19 11 0.58
ACGTcount: A:0.15, C:0.05, G:0.03, T:0.78
Consensus pattern (18 bp):
TTTTTCATTTTCATTTAT
Found at i:10225126 original size:18 final size:17
Alignment explanation
Indices: 10225062--10225143 Score: 60
Period size: 18 Copynumber: 4.5 Consensus size: 17
10225052 AAGGTTTCCT
10225062 TTTTCATTTTT-ATTTTA
1 TTTT-ATTTTTAATTTTA
* *
10225079 TTTTTTGATTTTCA-TTTA
1 TTTTAT--TTTTAATTTTA
10225097 TTTTCATATTTTAAGTTTTA
1 TTTT-AT-TTTTAA-TTTTA
*
10225117 TTTTATTTTTAATTTTT
1 TTTTATTTTTAATTTTA
10225134 TTATTATTTT
1 TT-TTATTTT
10225144 ATTTTAAAGC
Statistics
Matches: 54, Mismatches: 4, Indels: 13
0.76 0.06 0.18
Matches are distributed among these distances:
16 1 0.02
17 10 0.19
18 31 0.57
19 4 0.07
20 8 0.15
ACGTcount: A:0.20, C:0.04, G:0.02, T:0.74
Consensus pattern (17 bp):
TTTTATTTTTAATTTTA
Found at i:10225157 original size:22 final size:23
Alignment explanation
Indices: 10225114--10225162 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 23
10225104 ATTTTAAGTT
***
10225114 TTATTTTATTTTTAATTTTTTTA
1 TTATTTTATTTTTAAAGCTTTTA
*
10225137 TTATTTTA-TTTTAAAGCTTTTC
1 TTATTTTATTTTTAAAGCTTTTA
10225159 TTAT
1 TTAT
10225163 CTATTTCCTT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
22 14 0.64
23 8 0.36
ACGTcount: A:0.22, C:0.04, G:0.02, T:0.71
Consensus pattern (23 bp):
TTATTTTATTTTTAAAGCTTTTA
Found at i:10225157 original size:23 final size:23
Alignment explanation
Indices: 10225114--10225157 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
10225104 ATTTTAAGTT
* **
10225114 TTATTTTATTTTTAATTTTTTTA
1 TTATTTTATTTTAAAGCTTTTTA
10225137 TTATTTTATTTTAAAGCTTTT
1 TTATTTTATTTTAAAGCTTTT
10225158 CTTATCTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.23, C:0.02, G:0.02, T:0.73
Consensus pattern (23 bp):
TTATTTTATTTTAAAGCTTTTTA
Found at i:10227264 original size:28 final size:27
Alignment explanation
Indices: 10227207--10227282 Score: 73
Period size: 28 Copynumber: 2.7 Consensus size: 27
10227197 GATTGTAGGG
* *
10227207 ATTTTTATTCATTTTAATTTCATATTTATC
1 ATTTTT-TT-ATTTT-ATTTTATATCTATC
10227237 ATTTTTTTATTTTATTTTATAGTCTATC
1 ATTTTTTTATTTTATTTTATA-TCTATC
*
10227265 -TATTGTTTATTTTATTTT
1 AT-TTTTTTATTTTATTTT
10227283 TCTTTCTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.20
28 25 0.61
29 2 0.05
30 6 0.15
ACGTcount: A:0.22, C:0.07, G:0.03, T:0.68
Consensus pattern (27 bp):
ATTTTTTTATTTTATTTTATATCTATC
Found at i:10227623 original size:16 final size:17
Alignment explanation
Indices: 10227595--10227626 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
10227585 GAATCGAGAG
10227595 GCAAAATCAAAGAAAAA
1 GCAAAATCAAAGAAAAA
10227612 GCAAAA-CAAAGAAAA
1 GCAAAATCAAAGAAAA
10227627 GAGCTTCAGT
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:0.72, C:0.12, G:0.12, T:0.03
Consensus pattern (17 bp):
GCAAAATCAAAGAAAAA
Found at i:10228061 original size:42 final size:42
Alignment explanation
Indices: 10228002--10228086 Score: 134
Period size: 42 Copynumber: 2.0 Consensus size: 42
10227992 TCTTGAATAT
*
10228002 TTAATTGGTTCATTAATTTTAATGGTGCACAGCTTGCCAAAA
1 TTAATTGGTTCATTAATTCTAATGGTGCACAGCTTGCCAAAA
* **
10228044 TTAATTGGTTCATTAATTCTAGTGGTGCAGGGCTTGCCAAAA
1 TTAATTGGTTCATTAATTCTAATGGTGCACAGCTTGCCAAAA
10228086 T
1 T
10228087 ATTGAGAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 39 1.00
ACGTcount: A:0.28, C:0.14, G:0.20, T:0.38
Consensus pattern (42 bp):
TTAATTGGTTCATTAATTCTAATGGTGCACAGCTTGCCAAAA
Found at i:10228506 original size:22 final size:22
Alignment explanation
Indices: 10228453--10228507 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 22
10228443 AAAATTTAGT
*
10228453 AAAAATATTTTTTCTTAAATAA
1 AAAAATAATTTTTCTTAAATAA
* *
10228475 AATGACTAATTTTTCTTAAATAA
1 AA-AAATAATTTTTCTTAAATAA
10228498 AAAAATAATT
1 AAAAATAATT
10228508 CTCATAAAAA
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 8 0.30
23 19 0.70
ACGTcount: A:0.51, C:0.05, G:0.02, T:0.42
Consensus pattern (22 bp):
AAAAATAATTTTTCTTAAATAA
Found at i:10231683 original size:15 final size:15
Alignment explanation
Indices: 10231663--10231693 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
10231653 GCCTTGACTT
10231663 GTGAAAGTGAATATG
1 GTGAAAGTGAATATG
10231678 GTGAAAGTGAATATG
1 GTGAAAGTGAATATG
10231693 G
1 G
10231694 ATTGGTTTGG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.35, T:0.26
Consensus pattern (15 bp):
GTGAAAGTGAATATG
Found at i:10232090 original size:37 final size:37
Alignment explanation
Indices: 10232018--10232090 Score: 101
Period size: 37 Copynumber: 2.0 Consensus size: 37
10232008 AGAAAGAAAG
* *
10232018 TTAGAGCTACAGCCTTAGAGGTAGGTGATACATATAT
1 TTAGAGCTACAGCCCTAGAGGTAGGTGAGACATATAT
* * *
10232055 TTAGAGCTAGAGCCCTAGAGGTTGGTGAGATATATA
1 TTAGAGCTACAGCCCTAGAGGTAGGTGAGACATATA
10232091 AATAAATATA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.32, C:0.12, G:0.27, T:0.29
Consensus pattern (37 bp):
TTAGAGCTACAGCCCTAGAGGTAGGTGAGACATATAT
Found at i:10233378 original size:16 final size:15
Alignment explanation
Indices: 10233357--10233404 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 15
10233347 GTTGTTTTAG
10233357 TAATTTAATATATGAT
1 TAATTTAATATAT-AT
*
10233373 TAATTTTATATTATAT
1 TAATTTAATA-TATAT
10233389 TAAAATTTAATATATA
1 T--AATTTAATATATA
10233405 ATTATAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
16 12 0.44
17 7 0.26
18 8 0.30
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (15 bp):
TAATTTAATATATAT
Found at i:10233596 original size:61 final size:61
Alignment explanation
Indices: 10233453--10233598 Score: 145
Period size: 61 Copynumber: 2.4 Consensus size: 61
10233443 TAAGAGGTAC
* * ***
10233453 TATAATAATTTTAGCTAATTATGGTAGAAGGGATTTTTTTGTAATTGTCATAAGAGAAATGT
1 TATAATAATTTTAGCTAATTATGGTAGAAGGGA-TTTTGTGTAATTATCATAAGAGAAACAA
* * * *
10233515 TATAGTAATTTTAACCAATTATGGTA-AGAGGGCA-TTTGTGTAATTATGATAAGA-AAGACAA
1 TATAATAATTTTAGCTAATTATGGTAGA-AGGG-ATTTTGTGTAATTATCATAAGAGAA-ACAA
*
10233576 TATAATAAATTTAGCTAATTATG
1 TATAATAATTTTAGCTAATTATG
10233599 ATACGAGAGA
Statistics
Matches: 68, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
60 2 0.03
61 38 0.56
62 27 0.40
63 1 0.01
ACGTcount: A:0.39, C:0.05, G:0.18, T:0.38
Consensus pattern (61 bp):
TATAATAATTTTAGCTAATTATGGTAGAAGGGATTTTGTGTAATTATCATAAGAGAAACAA
Found at i:10233616 original size:36 final size:36
Alignment explanation
Indices: 10233555--10233646 Score: 98
Period size: 36 Copynumber: 2.6 Consensus size: 36
10233545 GGCATTTGTG
10233555 TAATTATGATAAGAAAGACAATATAATAA-ATTTAGC
1 TAATTATGATAAGAAAGACAATATAATAATATTTA-C
* * * * *
10233591 TAATTATGATACGAGAGATATTATAATAATTTTTAC
1 TAATTATGATAAGAAAGACAATATAATAATATTTAC
*
10233627 CAATTATGAT-AGAAGAGACA
1 TAATTATGATAAGAA-AGACA
10233647 TTTCGAGAGA
Statistics
Matches: 45, Mismatches: 9, Indels: 4
0.78 0.16 0.07
Matches are distributed among these distances:
35 2 0.04
36 39 0.87
37 4 0.09
ACGTcount: A:0.48, C:0.07, G:0.13, T:0.33
Consensus pattern (36 bp):
TAATTATGATAAGAAAGACAATATAATAATATTTAC
Found at i:10235534 original size:2 final size:2
Alignment explanation
Indices: 10235522--10235557 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
10235512 AGTAGTCTCA
* *
10235522 AT AT AT TT AT AT AC 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
10235558 CGATTAATGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10236463 original size:25 final size:25
Alignment explanation
Indices: 10236414--10236473 Score: 61
Period size: 26 Copynumber: 2.4 Consensus size: 25
10236404 TATTTGTTAA
**
10236414 TTTAAA-ATTAATCTTTTGTATATT
1 TTTAAATATTAATCTTAAGTATATT
10236438 TTTAAATATTAAATCTTAAGTA-ATT
1 TTTAAATATT-AATCTTAAGTATATT
10236463 TGTATAAATAT
1 T-T-TAAATAT
10236474 GTTTTATGTG
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
24 6 0.20
25 7 0.23
26 10 0.33
27 7 0.23
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (25 bp):
TTTAAATATTAATCTTAAGTATATT
Found at i:10237972 original size:21 final size:21
Alignment explanation
Indices: 10237904--10237977 Score: 85
Period size: 21 Copynumber: 3.5 Consensus size: 21
10237894 TAGTATGAGT
* *
10237904 CATAGTGATGAGTCACTGTAT
1 CATAGTAATGAGTCACTGTAC
*
10237925 CATAATAATGAGTCACTGTAC
1 CATAGTAATGAGTCACTGTAC
* *
10237946 CATAGTAATGAGTTATTGTAC
1 CATAGTAATGAGTCACTGTAC
* *
10237967 CTTAGTTATGA
1 CATAGTAATGA
10237978 CTCATCGTCC
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (21 bp):
CATAGTAATGAGTCACTGTAC
Found at i:10239667 original size:18 final size:18
Alignment explanation
Indices: 10239640--10239678 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
10239630 TTGATTTTGG
*
10239640 TTAAATTAAAAATAATAA
1 TTAAAGTAAAAATAATAA
* *
10239658 TTAAAGTAAAATTAATTA
1 TTAAAGTAAAAATAATAA
10239676 TTA
1 TTA
10239679 TAATGATAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (18 bp):
TTAAAGTAAAAATAATAA
Found at i:10239735 original size:21 final size:22
Alignment explanation
Indices: 10239711--10239768 Score: 68
Period size: 21 Copynumber: 2.7 Consensus size: 22
10239701 ATAGAAAAAG
10239711 ATAATAATAAAATAAATTA-TA
1 ATAATAATAAAATAAATTATTA
*
10239732 ATAAAAATAAAAT-AATTATTA
1 ATAATAATAAAATAAATTATTA
*
10239753 A-AAGTATTAAAATAAA
1 ATAA-TAATAAAATAAA
10239769 AAATATATGT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
20 7 0.23
21 22 0.71
22 2 0.06
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (22 bp):
ATAATAATAAAATAAATTATTA
Found at i:10239840 original size:24 final size:23
Alignment explanation
Indices: 10239792--10239867 Score: 89
Period size: 24 Copynumber: 3.1 Consensus size: 23
10239782 CATATATTAA
10239792 TTATATTATATAATAATAAATTTTAT
1 TTATA-TAT-TAATAATAAA-TTTAT
*
10239818 TTATTTATTATATAATAAATTTAT
1 TTATATATTA-ATAATAAATTTAT
*
10239842 TTATATATTAATTAATAAAATTAT
1 TTATATATTAA-TAATAAATTTAT
10239866 TT
1 TT
10239868 TACATTCTTA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
23 1 0.02
24 29 0.64
25 11 0.24
26 4 0.09
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (23 bp):
TTATATATTAATAATAAATTTAT
Found at i:10248701 original size:13 final size:14
Alignment explanation
Indices: 10248670--10248701 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
10248660 AGTGACTAAT
10248670 TAAAATATTTTTAG
1 TAAAATATTTTTAG
10248684 T-AAATATTTTTA-
1 TAAAATATTTTTAG
10248696 TAAAAT
1 TAAAAT
10248702 CTAATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
12 1 0.06
13 15 0.88
14 1 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (14 bp):
TAAAATATTTTTAG
Found at i:10250014 original size:17 final size:17
Alignment explanation
Indices: 10249969--10250014 Score: 65
Period size: 17 Copynumber: 2.7 Consensus size: 17
10249959 GTATTTTAAT
10249969 ATTTTTATATAATAAAA
1 ATTTTTATATAATAAAA
* *
10249986 ATTTATGTATAATAAAA
1 ATTTTTATATAATAAAA
*
10250003 ATTTTTAAATAA
1 ATTTTTATATAA
10250015 AAGAAAAATT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
ATTTTTATATAATAAAA
Found at i:10252462 original size:22 final size:22
Alignment explanation
Indices: 10252431--10253150 Score: 117
Period size: 22 Copynumber: 33.4 Consensus size: 22
10252421 AGTAATCATC
* *
10252431 GATAATTTAATAATAAATTAGT
1 GATAATTTAATAGTAAATTAAT
* *
10252453 GATAACTTAATAGTAAATGAAT
1 GATAATTTAATAGTAAATTAAT
*
10252475 GATAATTTAGTAGTAAATT-AT
1 GATAATTTAATAGTAAATTAAT
* ** *
10252496 TATAATTTTTTAGTAAATTAGT
1 GATAATTTAATAGTAAATTAAT
* * *
10252518 AATAATATAATA--ATA-TACAT
1 GATAATTTAATAGTAAATTA-AT
* * * * *
10252538 AATAACTTAATGGTTAATAAAT
1 GATAATTTAATAGTAAATTAAT
* * * **
10252560 TATAATATAGTTA-TAAATGCAT
1 GATAATTTA-ATAGTAAATTAAT
* ** * * * *
10252582 AATAACATAGTACTAAATCAAG
1 GATAATTTAATAGTAAATTAAT
* * *
10252604 GATAATTTAACA-AAAAATAAT
1 GATAATTTAATAGTAAATTAAT
* * * * *
10252625 TATTAACTTAGTAGTTAATTATT
1 GA-TAATTTAATAGTAAATTAAT
* * * *
10252648 AATAATTTAGTAATAAATCAAT
1 GATAATTTAATAGTAAATTAAT
* *
10252670 GATAACTTAATAGTAAATTATT
1 GATAATTTAATAGTAAATTAAT
* ** *
10252692 AATAATTTAATAGTAAACCAGT
1 GATAATTTAATAGTAAATTAAT
** *
10252714 TTTAGTTTAATAGT-AATTAATT
1 GATAATTTAATAGTAAATTAA-T
*
10252736 GAT-A-GT-A-A-TAAATTACA-
1 GATAATTTAATAGTAAATTA-AT
* * * *
10252753 AATAATTTAGTGGTAAATCAAT
1 GATAATTTAATAGTAAATTAAT
* * *
10252775 AATAAATTAGTAGTAAA-TAATT
1 GATAATTTAATAGTAAATTAA-T
* * * * *
10252797 AATAA-CTAATAGTTATTTATT
1 GATAATTTAATAGTAAATTAAT
* * * *
10252818 GAAAACTTAAAAGTAAATCAAT
1 GATAATTTAATAGTAAATTAAT
* * * *
10252840 -ATAACTTAGTAATAAA-TCAT
1 GATAATTTAATAGTAAATTAAT
* * * *
10252860 CAATAATATAATAGTTAATTAGT
1 -GATAATTTAATAGTAAATTAAT
* * *
10252883 GATGACTTAATAATAAATT-AT
1 GATAATTTAATAGTAAATTAAT
*
10252904 GCATAATTTAATA-TAAATTAGT
1 G-ATAATTTAATAGTAAATTAAT
* * * * *
10252926 AATAACTTAGTAGTGAA-TCAT
1 GATAATTTAATAGTAAATTAAT
* *
10252947 AGATAATTTAGTGGTAAATTAAT
1 -GATAATTTAATAGTAAATTAAT
** *
10252970 GATAATTTTGTAATAAA-TAAT
1 GATAATTTAATAGTAAATTAAT
* * *
10252991 AAAAGATTAAATAGTAAATTAA-
1 GATA-ATTTAATAGTAAATTAAT
* **
10253013 CATAACATAATAGTAAA-T-AT
1 GATAATTTAATAGTAAATTAAT
* * * * *
10253033 GTAAAAATATAATCGTAAATCATT
1 G--ATAATTTAATAGTAAATTAAT
* * *
10253057 AATAATTTAGTACTAAATT-A-
1 GATAATTTAATAGTAAATTAAT
* * *
10253077 -ATAATTTAGTAGTAAATCACT
1 GATAATTTAATAGTAAATTAAT
* * *
10253098 GATAATATAATAATAAATTACT
1 GATAATTTAATAGTAAATTAAT
* * * * *
10253120 AATAACTTAGTTGTAAATTAGT
1 GATAATTTAATAGTAAATTAAT
10253142 GATAATTTA
1 GATAATTTA
10253151 GTCATAAATT
Statistics
Matches: 479, Mismatches: 180, Indels: 78
0.65 0.24 0.11
Matches are distributed among these distances:
17 3 0.01
18 7 0.01
19 22 0.05
20 16 0.03
21 90 0.19
22 324 0.68
23 16 0.03
24 1 0.00
ACGTcount: A:0.49, C:0.05, G:0.09, T:0.38
Consensus pattern (22 bp):
GATAATTTAATAGTAAATTAAT
Found at i:10252492 original size:44 final size:42
Alignment explanation
Indices: 10252404--10252500 Score: 115
Period size: 44 Copynumber: 2.3 Consensus size: 42
10252394 ACTTAAATGT
* *
10252404 AATTAGTATAACTTAGTAGTAATCATCGATAATTTAATAATA
1 AATTAGTATAACTTAATAGTAATAATCGATAATTTAATAATA
* *
10252446 AATTAGTGATAACTTAATAGTAAATGAAT-GATAATTTAGTAGTA
1 AATTAGT-ATAACTTAATAGT-AAT-AATCGATAATTTAATAATA
*
10252490 AATTATTATAA
1 AATTAGTATAA
10252501 TTTTTTAGTA
Statistics
Matches: 47, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
42 7 0.15
43 16 0.34
44 22 0.47
45 2 0.04
ACGTcount: A:0.46, C:0.04, G:0.11, T:0.38
Consensus pattern (42 bp):
AATTAGTATAACTTAATAGTAATAATCGATAATTTAATAATA
Found at i:10252891 original size:65 final size:66
Alignment explanation
Indices: 10252765--10252900 Score: 161
Period size: 65 Copynumber: 2.1 Consensus size: 66
10252755 TAATTTAGTG
* * * * *
10252765 GTAAATCAATAATAAATTAGTAGTAAATAATTAATAACTAATAGTTATTTATTGAAAACTTAA-A
1 GTAAATCAATAATAAATTAGTAATAAATAATCAATAAATAATAGTTAATTAGTGAAAACTTAATA
10252829 A
66 A
* * **
10252830 GTAAATCAAT-ATAACTTAGTAATAAATCATCAATAATATAATAGTTAATTAGTGATGACTTAAT
1 GTAAATCAATAATAAATTAGTAATAAATAATCAATAA-ATAATAGTTAATTAGTGAAAACTTAAT
10252894 AA
65 AA
10252896 -TAAAT
1 GTAAAT
10252901 TATGCATAAT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
64 22 0.37
65 36 0.60
66 2 0.03
ACGTcount: A:0.51, C:0.06, G:0.08, T:0.35
Consensus pattern (66 bp):
GTAAATCAATAATAAATTAGTAATAAATAATCAATAAATAATAGTTAATTAGTGAAAACTTAATA
A
Found at i:10253076 original size:19 final size:19
Alignment explanation
Indices: 10253054--10253093 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
10253044 ATCGTAAATC
10253054 ATTAATAATTTAGTACTAA
1 ATTAATAATTTAGTACTAA
*
10253073 ATTAATAATTTAGTAGTAA
1 ATTAATAATTTAGTACTAA
10253092 AT
1 AT
10253094 CACTGATAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (19 bp):
ATTAATAATTTAGTACTAA
Found at i:10253130 original size:44 final size:44
Alignment explanation
Indices: 10253075--10253161 Score: 111
Period size: 44 Copynumber: 2.0 Consensus size: 44
10253065 AGTACTAAAT
*
10253075 TAATAATTTAGTAGTAAATCACTGATAATATAATAATAAATTAC
1 TAATAACTTAGTAGTAAATCACTGATAATATAATAATAAATTAC
* * * * * *
10253119 TAATAACTTAGTTGTAAATTAGTGATAATTTAGTCATAAATTA
1 TAATAACTTAGTAGTAAATCACTGATAATATAATAATAAATTA
10253162 GTTAATCATT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 36 1.00
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (44 bp):
TAATAACTTAGTAGTAAATCACTGATAATATAATAATAAATTAC
Found at i:10253151 original size:22 final size:22
Alignment explanation
Indices: 10253058--10253161 Score: 88
Period size: 22 Copynumber: 4.9 Consensus size: 22
10253048 TAAATCATTA
*
10253058 ATAATTTAGTACTAAATTA---
1 ATAATTTAGTAATAAATTACTG
* *
10253077 ATAATTTAGTAGTAAATCACTG
1 ATAATTTAGTAATAAATTACTG
* * *
10253099 ATAATATAATAATAAATTACTA
1 ATAATTTAGTAATAAATTACTG
* ** *
10253121 ATAACTTAGTTGTAAATTAGTG
1 ATAATTTAGTAATAAATTACTG
*
10253143 ATAATTTAGTCATAAATTA
1 ATAATTTAGTAATAAATTA
10253162 GTTAATCATT
Statistics
Matches: 65, Mismatches: 17, Indels: 3
0.76 0.20 0.04
Matches are distributed among these distances:
19 17 0.26
22 48 0.74
ACGTcount: A:0.46, C:0.06, G:0.09, T:0.39
Consensus pattern (22 bp):
ATAATTTAGTAATAAATTACTG
Found at i:10253390 original size:22 final size:22
Alignment explanation
Indices: 10253273--10253394 Score: 106
Period size: 22 Copynumber: 5.6 Consensus size: 22
10253263 AATTTAATAA
*
10253273 AAATCATTCA-AACTTAAT-GAT
1 AAATCATTGATAACTTAATAG-T
* *
10253294 AAATCATTTATAACTTAATGGT
1 AAATCATTGATAACTTAATAGT
* * *
10253316 AAATCATTCATAAATTAGA-AAT
1 AAATCATTGATAACTTA-ATAGT
* *
10253338 AAATCATTGATAATTTAGTAGT
1 AAATCATTGATAACTTAATAGT
* *
10253360 AAATAATTGATAACTTAATTGT
1 AAATCATTGATAACTTAATAGT
*
10253382 TAATCATTGATAA
1 AAATCATTGATAA
10253395 TTTTTTTTAT
Statistics
Matches: 82, Mismatches: 15, Indels: 7
0.79 0.14 0.07
Matches are distributed among these distances:
21 9 0.11
22 71 0.87
23 2 0.02
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (22 bp):
AAATCATTGATAACTTAATAGT
Found at i:10255983 original size:45 final size:45
Alignment explanation
Indices: 10255919--10256006 Score: 176
Period size: 45 Copynumber: 2.0 Consensus size: 45
10255909 GTGTTGGGGA
10255919 GTTTGAAGTCAGATTTCTTATGTATCATAACATATATGAGTCACT
1 GTTTGAAGTCAGATTTCTTATGTATCATAACATATATGAGTCACT
10255964 GTTTGAAGTCAGATTTCTTATGTATCATAACATATATGAGTCA
1 GTTTGAAGTCAGATTTCTTATGTATCATAACATATATGAGTCA
10256007 TTGTAAAGGC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.32, C:0.12, G:0.16, T:0.40
Consensus pattern (45 bp):
GTTTGAAGTCAGATTTCTTATGTATCATAACATATATGAGTCACT
Found at i:10257916 original size:17 final size:17
Alignment explanation
Indices: 10257894--10257926 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
10257884 TTTATAAAAG
10257894 ATAAAAATAAAAATTAT
1 ATAAAAATAAAAATTAT
10257911 ATAAAAATAAAAATTA
1 ATAAAAATAAAAATTA
10257927 AGTTTAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (17 bp):
ATAAAAATAAAAATTAT
Found at i:10259442 original size:22 final size:22
Alignment explanation
Indices: 10259403--10259444 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
10259393 GATAACTTGA
*
10259403 TAATAAATCATGGCTAATTTAG
1 TAATAAATCATGGATAATTTAG
10259425 TAATAAATC-TGTGATAATTT
1 TAATAAATCATG-GATAATTT
10259445 TGTAGCAGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 2 0.11
22 16 0.89
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.40
Consensus pattern (22 bp):
TAATAAATCATGGATAATTTAG
Found at i:10259499 original size:22 final size:22
Alignment explanation
Indices: 10259473--10259530 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
10259463 AACTAAGTAA
10259473 TAAATCAATGATAACATAATAG
1 TAAATCAATGATAACATAATAG
*
10259495 TAAATGC-ATAATAACATAATAG
1 TAAAT-CAATGATAACATAATAG
*
10259517 TAAATCATTGATAA
1 TAAATCAATGATAA
10259531 TTTAAATGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
21 1 0.03
22 29 0.94
23 1 0.03
ACGTcount: A:0.53, C:0.09, G:0.09, T:0.29
Consensus pattern (22 bp):
TAAATCAATGATAACATAATAG
Found at i:10259587 original size:22 final size:22
Alignment explanation
Indices: 10259473--10259587 Score: 72
Period size: 22 Copynumber: 5.2 Consensus size: 22
10259463 AACTAAGTAA
* * *
10259473 TAAATCAATGATAACATAATAG
1 TAAATCATTGATAACTTAATTG
* * *
10259495 TAAATGCA-TAATAACATAATAG
1 TAAAT-CATTGATAACTTAATTG
* *
10259517 TAAATCATTGATAATTTAAATG
1 TAAATCATTGATAACTTAATTG
* * *
10259539 TAGATTATTGATAA-TTTATTAG
1 TAAATCATTGATAACTTAATT-G
* * *
10259561 CAAATCACTAATAACTTAATTG
1 TAAATCATTGATAACTTAATTG
10259583 TAAAT
1 TAAAT
10259588 AAGTTATAGT
Statistics
Matches: 72, Mismatches: 17, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
21 6 0.08
22 59 0.82
23 7 0.10
ACGTcount: A:0.48, C:0.08, G:0.09, T:0.36
Consensus pattern (22 bp):
TAAATCATTGATAACTTAATTG
Found at i:10259652 original size:22 final size:21
Alignment explanation
Indices: 10259627--10259766 Score: 102
Period size: 22 Copynumber: 6.4 Consensus size: 21
10259617 GATAACTTTG
*
10259627 TAGTAAATTATCGATAAATTAA
1 TAGTAAATTATC-ATAATTTAA
* *
10259649 TAGTAAATAAGTTATAACTTT-A
1 TAGTAAATTA-TCATAA-TTTAA
**
10259671 TAACAAATTATCAGTAATTTAA
1 TAGTAAATTATCA-TAATTTAA
* * * *
10259693 TAATAAATCATCAGCAATTTAG
1 TAGTAAATTATCA-TAATTTAA
* *
10259715 TAGTAAATAATTCATAACTTAA
1 TAGTAAATTA-TCATAATTTAA
*
10259737 TAGTAAATTATCAATAATTTAG
1 TAGTAAATTATC-ATAATTTAA
10259759 TAGTAAAT
1 TAGTAAAT
10259767 CGTTCATAAC
Statistics
Matches: 93, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
21 7 0.08
22 80 0.86
23 6 0.06
ACGTcount: A:0.48, C:0.07, G:0.08, T:0.37
Consensus pattern (21 bp):
TAGTAAATTATCATAATTTAA
Found at i:10259737 original size:44 final size:44
Alignment explanation
Indices: 10259689--10259788 Score: 137
Period size: 44 Copynumber: 2.3 Consensus size: 44
10259679 TATCAGTAAT
*
10259689 TTAATAATAAATCATCAGCAATTTAGTAGTAAATAATTCATAAC
1 TTAATAATAAATCATCAACAATTTAGTAGTAAATAATTCATAAC
* * * **
10259733 TTAATAGTAAATTATCAATAATTTAGTAGTAAATCGTTCATAAC
1 TTAATAATAAATCATCAACAATTTAGTAGTAAATAATTCATAAC
*
10259777 TTAGTAATAAAT
1 TTAATAATAAAT
10259789 AATTTATAAA
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
44 48 1.00
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.37
Consensus pattern (44 bp):
TTAATAATAAATCATCAACAATTTAGTAGTAAATAATTCATAAC
Found at i:10259775 original size:22 final size:22
Alignment explanation
Indices: 10259708--10259843 Score: 125
Period size: 22 Copynumber: 6.3 Consensus size: 22
10259698 AATCATCAGC
10259708 AATTTAGTAGTAAATAATTCAT
1 AATTTAGTAGTAAATAATTCAT
* * *
10259730 AACTTAATAGTAAATTA-TCAAT
1 AATTTAGTAGTAAATAATTC-AT
**
10259752 AATTTAGTAGTAAATCGTTCAT
1 AATTTAGTAGTAAATAATTCAT
* * *
10259774 AACTTAGTAATAAATAATTTAT
1 AATTTAGTAGTAAATAATTCAT
* * *
10259796 AAATTAGTAG-AATTAATGC-T
1 AATTTAGTAGTAAATAATTCAT
* *
10259816 AATTTAGTAGTAAATCATTGAT
1 AATTTAGTAGTAAATAATTCAT
10259838 AATTTA
1 AATTTA
10259844 ACAATATATC
Statistics
Matches: 88, Mismatches: 22, Indels: 8
0.75 0.19 0.07
Matches are distributed among these distances:
20 10 0.11
21 13 0.15
22 63 0.72
23 2 0.02
ACGTcount: A:0.45, C:0.06, G:0.10, T:0.40
Consensus pattern (22 bp):
AATTTAGTAGTAAATAATTCAT
Found at i:10259781 original size:66 final size:62
Alignment explanation
Indices: 10259618--10259833 Score: 177
Period size: 66 Copynumber: 3.3 Consensus size: 62
10259608 TTAATTATTG
* * * *
10259618 ATAACTTT-GTAGTAAATTATCGATAAATTAATAGTAAATAAGTTATAACTTTATAACAAATTAT
1 ATAA-TTTAGTAGTAAATCATC-ATAAATTAGTAGTAAATAA-TTATAACTTAAT-AGAAATTAT
10259682 C
62 C
* * * *
10259683 AGTAATTTAATAATAAATCATCAGCAATTTAGTAGTAAATAATTCATAACTTAATAGTAAATTAT
1 A-TAATTTAGTAGTAAATCATCA-TAAATTAGTAGTAAATAATT-ATAACTTAATAG-AAATTAT
10259748 C
62 C
* * * * *
10259749 AATAATTTAGTAGTAAATCGTTCATAACTTAGTAATAAATAATTTATAAATTAGTAG-AATTAAT
1 -ATAATTTAGTAGTAAATC-ATCATAAATTAGTAGTAAATAA-TTATAACTTAATAGAAATT-AT
10259813 GC
62 -C
10259815 -TAATTTAGTAGTAAATCAT
1 ATAATTTAGTAGTAAATCAT
10259834 TGATAATTTA
Statistics
Matches: 124, Mismatches: 17, Indels: 22
0.76 0.10 0.13
Matches are distributed among these distances:
63 1 0.01
64 21 0.17
65 10 0.08
66 86 0.69
67 6 0.05
ACGTcount: A:0.46, C:0.07, G:0.09, T:0.38
Consensus pattern (62 bp):
ATAATTTAGTAGTAAATCATCATAAATTAGTAGTAAATAATTATAACTTAATAGAAATTATC
Found at i:10259803 original size:44 final size:44
Alignment explanation
Indices: 10259689--10259805 Score: 126
Period size: 44 Copynumber: 2.7 Consensus size: 44
10259679 TATCAGTAAT
* ** *
10259689 TTAATAATAAATCATCAGCAATTTAGTAGTAAATAATTCATAAC
1 TTAATAATAAATAATCAATAAATTAGTAGTAAATAATTCATAAC
* * * **
10259733 TTAATAGTAAATTATCAATAATTTAGTAGTAAATCGTTCATAAC
1 TTAATAATAAATAATCAATAAATTAGTAGTAAATAATTCATAAC
* **
10259777 TTAGTAATAAATAATTTATAAATTAGTAG
1 TTAATAATAAATAATCAATAAATTAGTAG
10259806 AATTAATGCT
Statistics
Matches: 61, Mismatches: 12, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
44 61 1.00
ACGTcount: A:0.46, C:0.08, G:0.09, T:0.38
Consensus pattern (44 bp):
TTAATAATAAATAATCAATAAATTAGTAGTAAATAATTCATAAC
Found at i:10259895 original size:22 final size:22
Alignment explanation
Indices: 10259826--10259896 Score: 79
Period size: 22 Copynumber: 3.2 Consensus size: 22
10259816 AATTTAGTAG
* *
10259826 TAAATCATTGATAATTTAACAA
1 TAAATCATTGATAACTTAATAA
* * * *
10259848 TATATCATTGATAGCTTACTAG
1 TAAATCATTGATAACTTAATAA
*
10259870 TAAATCATTGATAACATAATAA
1 TAAATCATTGATAACTTAATAA
10259892 TAAAT
1 TAAAT
10259897 TAATTATCAA
Statistics
Matches: 38, Mismatches: 11, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 38 1.00
ACGTcount: A:0.46, C:0.10, G:0.07, T:0.37
Consensus pattern (22 bp):
TAAATCATTGATAACTTAATAA
Found at i:10260229 original size:26 final size:22
Alignment explanation
Indices: 10260209--10260271 Score: 101
Period size: 22 Copynumber: 2.9 Consensus size: 22
10260199 CAAAAGATTA
10260209 ATTACTAAAATTGTATCAAAAG
1 ATTACTAAAATTGTATCAAAAG
10260231 ATTACTAAAATTGTATCAAAA-
1 ATTACTAAAATTGTATCAAAAG
*
10260252 AGTTACTAAAATTTTATCAA
1 A-TTACTAAAATTGTATCAA
10260272 TGGTACCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
21 1 0.03
22 38 0.97
ACGTcount: A:0.49, C:0.10, G:0.06, T:0.35
Consensus pattern (22 bp):
ATTACTAAAATTGTATCAAAAG
Found at i:10260330 original size:21 final size:20
Alignment explanation
Indices: 10260275--10260330 Score: 51
Period size: 21 Copynumber: 2.7 Consensus size: 20
10260265 TTATCAATGG
10260275 TACCAAAATTATATCATAAGT
1 TACCAAAATTATAT-ATAAGT
* * *
10260296 TACTAAACTAATAT-TGAAGGT
1 TACCAAAATTATATAT-AA-GT
10260317 TACCAAAATTATAT
1 TACCAAAATTATAT
10260331 CGAAAATTTA
Statistics
Matches: 27, Mismatches: 6, Indels: 4
0.73 0.16 0.11
Matches are distributed among these distances:
19 1 0.04
20 2 0.07
21 24 0.89
ACGTcount: A:0.46, C:0.12, G:0.07, T:0.34
Consensus pattern (20 bp):
TACCAAAATTATATATAAGT
Found at i:10260417 original size:48 final size:44
Alignment explanation
Indices: 10260320--10260420 Score: 116
Period size: 48 Copynumber: 2.2 Consensus size: 44
10260310 TGAAGGTTAC
*
10260320 CAAAATTATATCGAAAATTTAAATTTTATTAAATATTATCAAAAT
1 CAAAATTATATCAAAAATTTAAATTTTATT-AATATTATCAAAAT
10260365 CAAAATTATAT-AAAAAGTTATCAAATTTTACTT-ATATTATACCAAAAT
1 CAAAATTATATCAAAAA-TT-T-AAATTTTA-TTAATATTAT--CAAAAT
10260413 CAAAATTA
1 CAAAATTA
10260421 AATTATTAAT
Statistics
Matches: 49, Mismatches: 1, Indels: 9
0.83 0.02 0.15
Matches are distributed among these distances:
44 4 0.08
45 13 0.27
46 8 0.16
47 8 0.16
48 16 0.33
ACGTcount: A:0.51, C:0.09, G:0.02, T:0.38
Consensus pattern (44 bp):
CAAAATTATATCAAAAATTTAAATTTTATTAATATTATCAAAAT
Found at i:10261406 original size:17 final size:17
Alignment explanation
Indices: 10261377--10261412 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 17
10261367 TGGATATATT
10261377 AAAATTAATAATTAAAA
1 AAAATTAATAATTAAAA
10261394 AAAATATAA-AATTAAAA
1 AAAAT-TAATAATTAAAA
10261411 AA
1 AA
10261413 TTTTACATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 15 0.83
18 3 0.17
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (17 bp):
AAAATTAATAATTAAAA
Found at i:10270974 original size:21 final size:21
Alignment explanation
Indices: 10270943--10270990 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
10270933 AATTGCTTGA
*
10270943 AAATGTTAAATTAAACTTG-TAG
1 AAAT-TTAAATT-AACTTGAAAG
10270965 AAATTTAAATTAACTTGAAAG
1 AAATTTAAATTAACTTGAAAG
10270986 AAATT
1 AAATT
10270991 GAATTGAATC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
20 6 0.25
21 14 0.58
22 4 0.17
ACGTcount: A:0.50, C:0.04, G:0.10, T:0.35
Consensus pattern (21 bp):
AAATTTAAATTAACTTGAAAG
Found at i:10270979 original size:20 final size:18
Alignment explanation
Indices: 10270927--10270984 Score: 64
Period size: 20 Copynumber: 3.1 Consensus size: 18
10270917 ATCAAAACAG
*
10270927 AATTTAAATT-GCTTGAA
1 AATTTAAATTAACTTGAA
10270944 AATGTTAAATTAAACTTGTAGA
1 AAT-TTAAATT-AACTTG-A-A
10270966 AATTTAAATTAACTTGAA
1 AATTTAAATTAACTTGAA
10270984 A
1 A
10270985 GAAATTGAAT
Statistics
Matches: 35, Mismatches: 1, Indels: 9
0.78 0.02 0.20
Matches are distributed among these distances:
17 3 0.09
18 9 0.26
19 1 0.03
20 10 0.29
21 8 0.23
22 4 0.11
ACGTcount: A:0.47, C:0.05, G:0.10, T:0.38
Consensus pattern (18 bp):
AATTTAAATTAACTTGAA
Found at i:10272368 original size:21 final size:20
Alignment explanation
Indices: 10272342--10272381 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
10272332 CTTCCAATAT
10272342 ATCAAGAATTATCCAAGATTG
1 ATCAAGAATT-TCCAAGATTG
*
10272363 ATCAAGAATTTTCAAGATT
1 ATCAAGAATTTCCAAGATT
10272382 CTTCAGGATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCAAGAATTTCCAAGATTG
Found at i:10274888 original size:20 final size:20
Alignment explanation
Indices: 10274860--10274899 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
10274850 TATGAAGAAT
10274860 GAAAAAGGACTAGAAGAGTG
1 GAAAAAGGACTAGAAGAGTG
* *
10274880 GAAAGAGGACTAGATGAGTG
1 GAAAAAGGACTAGAAGAGTG
10274900 CTATAATTGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.45, C:0.05, G:0.38, T:0.12
Consensus pattern (20 bp):
GAAAAAGGACTAGAAGAGTG
Found at i:10275041 original size:15 final size:15
Alignment explanation
Indices: 10275018--10275052 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
10275008 GTTGTTACCT
*
10275018 TTTATGTTCCTAGTC
1 TTTACGTTCCTAGTC
10275033 TTTACGTTCCTAGTC
1 TTTACGTTCCTAGTC
10275048 TTTAC
1 TTTAC
10275053 TTTTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.14, C:0.23, G:0.11, T:0.51
Consensus pattern (15 bp):
TTTACGTTCCTAGTC
Found at i:10281261 original size:15 final size:15
Alignment explanation
Indices: 10281220--10281261 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
10281210 TTTTGTATCT
10281220 CCTCTTCTTGAATTG
1 CCTCTTCTTGAATTG
*
10281235 CCTCATCTTGAATTG
1 CCTCTTCTTGAATTG
* *
10281250 TCTCTTCATGAA
1 CCTCTTCTTGAA
10281262 CTGCGTCTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.19, C:0.26, G:0.12, T:0.43
Consensus pattern (15 bp):
CCTCTTCTTGAATTG
Found at i:10281300 original size:28 final size:29
Alignment explanation
Indices: 10281245--10281300 Score: 69
Period size: 30 Copynumber: 1.9 Consensus size: 29
10281235 CCTCATCTTG
*
10281245 AATTGTCTCTTCATGAACTGCGTCTTTTTA
1 AATTGTCTCTTCATAAACTGCG-CTTTTTA
* *
10281275 AATTGTCTTTTCTTAAACTGC-CTTTT
1 AATTGTCTCTTCATAAACTGCGCTTTT
10281301 CGAACTCAAG
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 5 0.22
30 18 0.78
ACGTcount: A:0.20, C:0.20, G:0.11, T:0.50
Consensus pattern (29 bp):
AATTGTCTCTTCATAAACTGCGCTTTTTA
Found at i:10282319 original size:13 final size:13
Alignment explanation
Indices: 10282288--10282313 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
10282278 TAAAATGGAG
10282288 TATTCCAAGTATC
1 TATTCCAAGTATC
10282301 TATTCCAAGTATC
1 TATTCCAAGTATC
10282314 GTTTCCTCAG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (13 bp):
TATTCCAAGTATC
Found at i:10291235 original size:34 final size:34
Alignment explanation
Indices: 10291197--10291272 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 34
10291187 ATGTTATCAA
* * *
10291197 ATATGCATATCCGAAAAGCATATGGCATTACTAG
1 ATATGCATATACGAAAAGCATATGACATTACCAG
* * * *
10291231 ATATGCATATATGGAAAGCATATTATATTACCAG
1 ATATGCATATACGAAAAGCATATGACATTACCAG
10291265 ATATGCAT
1 ATATGCAT
10291273 TTATGGTAAC
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.39, C:0.14, G:0.16, T:0.30
Consensus pattern (34 bp):
ATATGCATATACGAAAAGCATATGACATTACCAG
Found at i:10295436 original size:33 final size:33
Alignment explanation
Indices: 10295372--10295457 Score: 106
Period size: 33 Copynumber: 2.7 Consensus size: 33
10295362 TAAAGATTGA
* *
10295372 TATATTTA-TT-ACTATGTACTA-ATACTGATTT
1 TATATTTAGTTAACTATGT-TTAGATACTAATTT
* *
10295403 TATATTTAGTTAATTGTGTTTAGATACTAATTT
1 TATATTTAGTTAACTATGTTTAGATACTAATTT
10295436 TATATTTAGTTAACTATGTTTA
1 TATATTTAGTTAACTATGTTTA
10295458 TATTTAGTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
31 8 0.17
32 4 0.09
33 34 0.74
ACGTcount: A:0.31, C:0.06, G:0.09, T:0.53
Consensus pattern (33 bp):
TATATTTAGTTAACTATGTTTAGATACTAATTT
Found at i:10295600 original size:17 final size:18
Alignment explanation
Indices: 10295580--10295614 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
10295570 ATATAAAGCA
10295580 TAAACA-AATATAAACTG
1 TAAACATAATATAAACTG
10295597 TAAACATTAATATAAACT
1 TAAACA-TAATATAAACT
10295615 ATTAACAATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
19 10 0.62
ACGTcount: A:0.57, C:0.11, G:0.03, T:0.29
Consensus pattern (18 bp):
TAAACATAATATAAACTG
Found at i:10298295 original size:23 final size:23
Alignment explanation
Indices: 10298269--10298318 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
10298259 TCTAGCCCAT
10298269 GAAACCAAAACTTCTCTACTATA
1 GAAACCAAAACTTCTCTACTATA
* *
10298292 GAAACTAAAACTTTTCTACTATA
1 GAAACCAAAACTTCTCTACTATA
10298315 -AAAC
1 GAAAC
10298319 ATCTGCTCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
22 4 0.16
23 21 0.84
ACGTcount: A:0.46, C:0.22, G:0.04, T:0.28
Consensus pattern (23 bp):
GAAACCAAAACTTCTCTACTATA
Found at i:10298644 original size:29 final size:28
Alignment explanation
Indices: 10298582--10298645 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 28
10298572 TTTTGAAAAT
**
10298582 AAAATTTTGAAAATACAATATAATTTTT
1 AAAATTTTGAAAATACAATATAATTTCG
**
10298610 ATAAATTTTGAAAATGTAATATAATTCTCG
1 A-AAATTTTGAAAATACAATATAATT-TCG
10298640 AAAATT
1 AAAATT
10298646 CATTTCCAAT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
28 1 0.03
29 27 0.90
30 2 0.07
ACGTcount: A:0.48, C:0.05, G:0.06, T:0.41
Consensus pattern (28 bp):
AAAATTTTGAAAATACAATATAATTTCG
Found at i:10306016 original size:174 final size:173
Alignment explanation
Indices: 10305653--10305985 Score: 490
Period size: 174 Copynumber: 1.9 Consensus size: 173
10305643 AAATATATGG
*
10305653 TCCAAAAGTATTTAATACTATAAGAAATAGTTGTAGGAAAACATGTGAATCAAGGCAATTAAATC
1 TCCAAAAGAATTTAATACTATAAGAAATAGTTGTAGGAAAACATGTGAATCAAGGCAATTAAATC
** * *
10305718 TTGTTATAGTGATTGAACCTATGTGAATTAAGATATTTGCATATTTTCCTATTTCTTTGTTTTAA
66 TTAATATAGTGATTGAACCTATGTGAATTAAGATATTTGCATATTTTCCTATCTCCTTGTTTTAA
* * *
10305783 CCTTAGATTAATGCTTCGAAATTTAGTTCATGGTAAATTTATGG
131 CCTTAGATTAATGCTTAGAAATTTAGTTCATGCTAAATTTA-GC
* * *
10305827 TCCAAAAGCATTTAATACTTTAAGAAATAGTTGTA-GAAAATCATGTGAATCTAGGCAATTAAAT
1 TCCAAAAGAATTTAATACTATAAGAAATAGTTGTAGGAAAA-CATGTGAATCAAGGCAATTAAAT
*
10305891 -TCTAATATAGTGATTGAACTTCATGTGAATTAAGATATTTGCATATTTTCCTATCTCCTTGTTT
65 CT-TAATATAGTGATTGAACCT-ATGTGAATTAAGATATTTGCATATTTTCCTATCTCCTTGTTT
* *
10305955 TAGCCTTAGATTAATGCTTATAAATTTAGTT
128 TAACCTTAGATTAATGCTTAGAAATTTAGTT
10305986 TTATCTCATA
Statistics
Matches: 145, Mismatches: 11, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
173 6 0.04
174 71 0.49
175 68 0.47
ACGTcount: A:0.35, C:0.11, G:0.14, T:0.40
Consensus pattern (173 bp):
TCCAAAAGAATTTAATACTATAAGAAATAGTTGTAGGAAAACATGTGAATCAAGGCAATTAAATC
TTAATATAGTGATTGAACCTATGTGAATTAAGATATTTGCATATTTTCCTATCTCCTTGTTTTAA
CCTTAGATTAATGCTTAGAAATTTAGTTCATGCTAAATTTAGC
Found at i:10307098 original size:24 final size:24
Alignment explanation
Indices: 10307051--10307100 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
10307041 AATAATTATA
*
10307051 ATCTCTCAATTAATGTTAATCTGC
1 ATCTCTCAATTAATGTCAATCTGC
10307075 ATCTCTCAATTAATGTCAATCTGC
1 ATCTCTCAATTAATGTCAATCTGC
10307099 AT
1 AT
10307101 TTTCACACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.30, C:0.22, G:0.08, T:0.40
Consensus pattern (24 bp):
ATCTCTCAATTAATGTCAATCTGC
Found at i:10316922 original size:25 final size:25
Alignment explanation
Indices: 10316893--10316952 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
10316883 GTTCTATTTT
*
10316893 AGGCCTTTATTGTCGAACCCTGTTC
1 AGGCCTTTATTGTCGAACCCTGTTA
* *
10316918 AGGCCTTCATTGTCGAATCCTGTTA
1 AGGCCTTTATTGTCGAACCCTGTTA
*
10316943 AGGGCTTTAT
1 AGGCCTTTAT
10316953 AGCCATTTTA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.18, C:0.23, G:0.22, T:0.37
Consensus pattern (25 bp):
AGGCCTTTATTGTCGAACCCTGTTA
Found at i:10320665 original size:22 final size:22
Alignment explanation
Indices: 10320637--10320680 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
10320627 TATATATTTA
*
10320637 TATTTGTATCTCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
10320659 TATTTGTATCCCTAGAATTAAG
1 TATTTGTATCCCTAGAATTAAG
10320681 GACAAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (22 bp):
TATTTGTATCCCTAGAATTAAG
Found at i:10329161 original size:20 final size:19
Alignment explanation
Indices: 10329105--10329163 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
10329095 TATTATTAAA
10329105 TAAAAATATAAT-A-AATT
1 TAAAAATATAATAATAATT
* *
10329122 TAAAAAATTAAAATAGTAATT
1 T-AAAAA-TATAATAATAATT
10329143 TAAAAATATAATTAATAATT
1 TAAAAATATAA-TAATAATT
10329163 T
1 T
10329164 GCCTATTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 7
0.75 0.09 0.16
Matches are distributed among these distances:
17 1 0.03
18 5 0.15
19 9 0.27
20 13 0.39
21 5 0.15
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
TAAAAATATAATAATAATT
Found at i:10343410 original size:145 final size:145
Alignment explanation
Indices: 10343215--10343502 Score: 486
Period size: 145 Copynumber: 2.0 Consensus size: 145
10343205 TAAGTACCAC
* *
10343215 ATCTCTTATAAATACCAAATGGACAGAAGTTGTGTTCTGTGTGTTCGTGAACAGAGTCTGATAGA
1 ATCTCTTATAAATACCAAATGGACAGAAGTTGTGTTCTGTGTGTTCGTGAACAGAGTCCGACAGA
10343280 AATATCAAGGTTGACGTAACTGTCATTTAATTTAGCTTTCTGTCATTGATTCTCATTTTTATCAA
66 AATATCAAGGTTGACGTAACTGTCATTTAATTTAGCTTTCTGTCATTGATTCTCATTTTTATCAA
10343345 TTGCAAGTACCTCGT
131 TTGCAAGTACCTCGT
* * * *
10343360 ATCTCTTATAAATACCAAATGGGCAGAATTTGTGTTCTTTGTGTTGGTGAACAGAGTCCGACAGA
1 ATCTCTTATAAATACCAAATGGACAGAAGTTGTGTTCTGTGTGTTCGTGAACAGAGTCCGACAGA
* * *
10343425 ATTATCAAGGTTGATGTAACTGTCATTTAATTTAGCTTTCTGTCCTTGATTCTCATTTTTATCAA
66 AATATCAAGGTTGACGTAACTGTCATTTAATTTAGCTTTCTGTCATTGATTCTCATTTTTATCAA
*
10343490 TTGCAAGTGCCTC
131 TTGCAAGTACCTC
10343503 ATATGTCCTT
Statistics
Matches: 133, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
145 133 1.00
ACGTcount: A:0.27, C:0.16, G:0.18, T:0.39
Consensus pattern (145 bp):
ATCTCTTATAAATACCAAATGGACAGAAGTTGTGTTCTGTGTGTTCGTGAACAGAGTCCGACAGA
AATATCAAGGTTGACGTAACTGTCATTTAATTTAGCTTTCTGTCATTGATTCTCATTTTTATCAA
TTGCAAGTACCTCGT
Found at i:10345729 original size:90 final size:91
Alignment explanation
Indices: 10345569--10345750 Score: 269
Period size: 90 Copynumber: 2.0 Consensus size: 91
10345559 ATGAATTTAT
*
10345569 ATAGAAATGCACTTTTGCAATTAAAAAAAAAAGGAAAAATTGACAATTCAATAAAATCGCTAGGA
1 ATAGAAATACACTTTTGCAATT--AAAAAAAAGGAAAAATTGACAATTCAATAAAATCGCTAGGA
*
10345634 AAATCTTGGTTAATTTATCAATAAGTTC
64 AAATCTTGGATAATTTATCAATAAGTTC
* * * *
10345662 ATAGAAATACACTTTTGCAATT-AAAAGAAGGGAAAATTGACAATTCAATAAAATGGCTA-GAGG
1 ATAGAAATACACTTTTGCAATTAAAAAAAAGGAAAAATTGACAATTCAATAAAATCGCTAGGA-A
10345725 AATCTTGGATAATTTATCAATAAGTT
65 AATCTTGGATAATTTATCAATAAGTT
10345751 TAAGCATGCA
Statistics
Matches: 82, Mismatches: 6, Indels: 5
0.88 0.06 0.05
Matches are distributed among these distances:
89 2 0.02
90 59 0.72
93 21 0.26
ACGTcount: A:0.46, C:0.10, G:0.15, T:0.29
Consensus pattern (91 bp):
ATAGAAATACACTTTTGCAATTAAAAAAAAGGAAAAATTGACAATTCAATAAAATCGCTAGGAAA
ATCTTGGATAATTTATCAATAAGTTC
Found at i:10347692 original size:40 final size:40
Alignment explanation
Indices: 10347637--10347716 Score: 142
Period size: 40 Copynumber: 2.0 Consensus size: 40
10347627 CATCGGACGA
*
10347637 TCAAGCAGTTCCGTCTTCACATAATCATGTAGGCCCAAGT
1 TCAAGCAGTGCCGTCTTCACATAATCATGTAGGCCCAAGT
*
10347677 TCAAGCAGTGCCGTCTTCACATAATCATGTAGGCTCAAGT
1 TCAAGCAGTGCCGTCTTCACATAATCATGTAGGCCCAAGT
10347717 CTCTTGTAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.28
Consensus pattern (40 bp):
TCAAGCAGTGCCGTCTTCACATAATCATGTAGGCCCAAGT
Found at i:10352644 original size:50 final size:50
Alignment explanation
Indices: 10352569--10352668 Score: 137
Period size: 50 Copynumber: 2.0 Consensus size: 50
10352559 CCAAAAAGTC
* * *
10352569 AAAATTATATATAATGAAAAGCTTTCGAATTGCTAATTAAGCAGTTGCAT
1 AAAATTATATATAATGAAAAGCTTTCAAATTACCAATTAAGCAGTTGCAT
* * **
10352619 AAAATTATATTTGATGGGAAGCTTTCAAATTACCAATTAAGCAGTTGCAT
1 AAAATTATATATAATGAAAAGCTTTCAAATTACCAATTAAGCAGTTGCAT
10352669 TTGATCCCTC
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.34
Consensus pattern (50 bp):
AAAATTATATATAATGAAAAGCTTTCAAATTACCAATTAAGCAGTTGCAT
Found at i:10370203 original size:2 final size:2
Alignment explanation
Indices: 10370198--10370232 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
10370188 TGTGTGTATG
10370198 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10370233 TGAGATAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:10377445 original size:41 final size:41
Alignment explanation
Indices: 10377400--10377481 Score: 137
Period size: 41 Copynumber: 2.0 Consensus size: 41
10377390 AACTTGTTTC
* *
10377400 ATACAAGAATATATATACAATGTAAGTGTATTTATTTTTAT
1 ATACAACAACATATATACAATGTAAGTGTATTTATTTTTAT
*
10377441 ATACAACAACATATATATAATGTAAGTGTATTTATTTTTAT
1 ATACAACAACATATATACAATGTAAGTGTATTTATTTTTAT
10377482 GAAAATAATA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.41, C:0.06, G:0.09, T:0.44
Consensus pattern (41 bp):
ATACAACAACATATATACAATGTAAGTGTATTTATTTTTAT
Found at i:10380892 original size:3 final size:3
Alignment explanation
Indices: 10380884--10380930 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
10380874 AAACACCCAC
10380884 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10380931 TCATTTCTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:10380965 original size:20 final size:17
Alignment explanation
Indices: 10380934--10380989 Score: 69
Period size: 18 Copynumber: 3.2 Consensus size: 17
10380924 TATTATTTCA
*
10380934 TTTCTTT-TTTTTCTTT
1 TTTCTTTCTTTTTTTTT
10380950 TTTCTTTATCTTTTTTTTAT
1 TTTC-TT-TCTTTTTTTT-T
10380970 TTTCTTTCTTTTTTTTT
1 TTTCTTTCTTTTTTTTT
10380987 TTT
1 TTT
10380990 TTGGCATTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
16 4 0.11
17 6 0.17
18 11 0.31
19 9 0.26
20 5 0.14
ACGTcount: A:0.04, C:0.11, G:0.00, T:0.86
Consensus pattern (17 bp):
TTTCTTTCTTTTTTTTT
Found at i:10380967 original size:15 final size:14
Alignment explanation
Indices: 10380938--10380991 Score: 53
Period size: 13 Copynumber: 4.1 Consensus size: 14
10380928 ATTTCATTTC
10380938 TTTT-TTTTCTTTT
1 TTTTATTTTCTTTT
* *
10380951 TTCT-TTATCTTTT
1 TTTTATTTTCTTTT
10380964 TTTTATTTTCTTTCT
1 TTTTATTTTCTTT-T
10380979 TTTT-TTTT-TTTT
1 TTTTATTTTCTTTT
10380991 T
1 T
10380992 GGCATTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
12 2 0.06
13 17 0.49
14 11 0.31
15 5 0.14
ACGTcount: A:0.04, C:0.09, G:0.00, T:0.87
Consensus pattern (14 bp):
TTTTATTTTCTTTT
Found at i:10381000 original size:36 final size:36
Alignment explanation
Indices: 10380934--10381002 Score: 88
Period size: 36 Copynumber: 1.9 Consensus size: 36
10380924 TATTATTTCA
*
10380934 TTTCTTTTTTTTCTTTTTTCTTTATCTTTTTTTTAT
1 TTTCTTTTTTTTCTTTTTTCTTTAGCTTTTTTTTAT
* *
10380970 TTTCTTTCTTTTT-TTTTTT-TTTGGCATTTTTTT
1 TTTCTTT-TTTTTCTTTTTTCTTTAGCTTTTTTTT
10381003 GCTAGCCGCT
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
35 11 0.38
36 13 0.45
37 5 0.17
ACGTcount: A:0.04, C:0.10, G:0.03, T:0.83
Consensus pattern (36 bp):
TTTCTTTTTTTTCTTTTTTCTTTAGCTTTTTTTTAT
Found at i:10381290 original size:21 final size:21
Alignment explanation
Indices: 10381266--10381305 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
10381256 CCTCAAAACC
10381266 CAAAAAAAAAAAAAAATCAAA
1 CAAAAAAAAAAAAAAATCAAA
* * *
10381287 CAAACACAAACAAAAATCA
1 CAAAAAAAAAAAAAAATCA
10381306 CAACCTCTGA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.78, C:0.17, G:0.00, T:0.05
Consensus pattern (21 bp):
CAAAAAAAAAAAAAAATCAAA
Found at i:10382817 original size:3 final size:3
Alignment explanation
Indices: 10382809--10382855 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
10382799 AATAAAATGC
10382809 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
10382856 AAGAAAAAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:10383105 original size:16 final size:17
Alignment explanation
Indices: 10383072--10383106 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10383062 ATCTTTTTAA
10383072 AAAATTTAATTAATTTT
1 AAAATTTAATTAATTTT
*
10383089 AAAATTTTATT-ATTTT
1 AAAATTTAATTAATTTT
10383105 AA
1 AA
10383107 TAGGTGACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AAAATTTAATTAATTTT
Found at i:10392405 original size:37 final size:34
Alignment explanation
Indices: 10392364--10392455 Score: 85
Period size: 37 Copynumber: 2.6 Consensus size: 34
10392354 GTAATCGGTA
* * *
10392364 AAATCTTTTAATAGTTTGGTAAGTTTTATTTTGATGT
1 AAATCTTTTAATAGTTTGGTAAGATTTA---AGATGC
*** * *
10392401 AAATCTCCCAATAATTTGATAAGATTTAAGATGC
1 AAATCTTTTAATAGTTTGGTAAGATTTAAGATGC
10392435 AAATCTTTTAATAGTTTGGTA
1 AAATCTTTTAATAGTTTGGTA
10392456 GGATAAAAAT
Statistics
Matches: 42, Mismatches: 13, Indels: 3
0.72 0.22 0.05
Matches are distributed among these distances:
34 20 0.48
37 22 0.52
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.45
Consensus pattern (34 bp):
AAATCTTTTAATAGTTTGGTAAGATTTAAGATGC
Found at i:10396576 original size:34 final size:34
Alignment explanation
Indices: 10396538--10396609 Score: 117
Period size: 34 Copynumber: 2.1 Consensus size: 34
10396528 ACGAATGTTC
* * *
10396538 ATAAGTTTTTAAAAGTTTATGAAAATGTATATCT
1 ATAAGTGTTTAAAAGCTCATGAAAATGTATATCT
10396572 ATAAGTGTTTAAAAGCTCATGAAAATGTATATCT
1 ATAAGTGTTTAAAAGCTCATGAAAATGTATATCT
10396606 ATAA
1 ATAA
10396610 AATTTAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.43, C:0.06, G:0.12, T:0.39
Consensus pattern (34 bp):
ATAAGTGTTTAAAAGCTCATGAAAATGTATATCT
Found at i:10397046 original size:132 final size:133
Alignment explanation
Indices: 10396880--10397144 Score: 415
Period size: 133 Copynumber: 2.0 Consensus size: 133
10396870 ATTTTTGGGG
* *
10396880 TTTAGGGTTTAAATTTTAGTTGTATTTAGTAAATAGGTGTGGAAAGT-AAAATTGGGATTGTAAA
1 TTTAGGATTTAAATTTTAGTTGTATTTAGTAAATAGGTGTGGAAAGTAAAAAATGGGATTGTAAA
* * * * *
10396944 TAAAAATTTCCTTGGCTTAATTGCAACTAATCTCATTATTTCAGTAATGTTATGTTTGGATAAAT
66 TAAAAATTTCCTTAGCTTAATTGCAACTAATCTCACTATTTCACTAATGCTATGTTTGGACAAAT
10397009 ATT
131 ATT
* *
10397012 TTTAGGATTTAAATTTTAGTTGTATTTAGTAAATAGGTGTGGAGAGTAAAAAATGGGGTTGTAAA
1 TTTAGGATTTAAATTTTAGTTGTATTTAGTAAATAGGTGTGGAAAGTAAAAAATGGGATTGTAAA
* * *
10397077 TAGAAATTTCCTTAGCTTAATTGTACCTAATCTCACTATTTCACTAATGCTATGTTTGGACAAAT
66 TAAAAATTTCCTTAGCTTAATTGCAACTAATCTCACTATTTCACTAATGCTATGTTTGGACAAAT
10397142 ATT
131 ATT
10397145 AATAAAGTAA
Statistics
Matches: 120, Mismatches: 12, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
132 45 0.38
133 75 0.62
ACGTcount: A:0.33, C:0.08, G:0.18, T:0.41
Consensus pattern (133 bp):
TTTAGGATTTAAATTTTAGTTGTATTTAGTAAATAGGTGTGGAAAGTAAAAAATGGGATTGTAAA
TAAAAATTTCCTTAGCTTAATTGCAACTAATCTCACTATTTCACTAATGCTATGTTTGGACAAAT
ATT
Found at i:10400594 original size:5 final size:5
Alignment explanation
Indices: 10400580--10400617 Score: 53
Period size: 5 Copynumber: 7.8 Consensus size: 5
10400570 AAAGGGTGCC
10400580 AAAA- AAAAG AAAAG AAAAAG AAAA- AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG -AAAAG AAAAG AAAAG AAAAG AAAA
10400618 AAATCAATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
4 8 0.26
5 18 0.58
6 5 0.16
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:10400603 original size:20 final size:20
Alignment explanation
Indices: 10400580--10400618 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
10400570 AAAGGGTGCC
10400580 AAAAAAAAGAAAAGAAAAAG
1 AAAAAAAAGAAAAGAAAAAG
10400600 AAAAAAAAGAAAAGAAAAA
1 AAAAAAAAGAAAAGAAAAA
10400619 AATCAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.87, C:0.00, G:0.13, T:0.00
Consensus pattern (20 bp):
AAAAAAAAGAAAAGAAAAAG
Found at i:10400606 original size:14 final size:13
Alignment explanation
Indices: 10400580--10400620 Score: 50
Period size: 14 Copynumber: 3.2 Consensus size: 13
10400570 AAAGGGTGCC
10400580 AAAAAAAAG--AA
1 AAAAAAAAGAAAA
*
10400591 AAGAAAAAGAAAA
1 AAAAAAAAGAAAA
10400604 AAAAGAAAAGAAAA
1 AAAA-AAAAGAAAA
10400618 AAA
1 AAA
10400621 TCAATAATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
11 8 0.32
13 5 0.20
14 12 0.48
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (13 bp):
AAAAAAAAGAAAA
Found at i:10400629 original size:3 final size:3
Alignment explanation
Indices: 10400623--10400648 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10400613 GAAAAAAATC
10400623 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
10400649 GTGGGTATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:10400861 original size:43 final size:42
Alignment explanation
Indices: 10400813--10400894 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
10400803 TTAAAAGGTT
*
10400813 TTTTCTAAGTAGAGACTTAACT-AATTTTAAAAATTTAAAAAGC
1 TTTTCTAAGCAG-GACTTAA-TGAATTTTAAAAATTTAAAAAGC
* * *
10400856 TTTTCTAGGCAGGACTTAATGACTTTTGAAAATTTAAAA
1 TTTTCTAAGCAGGACTTAATGAATTTTAAAAATTTAAAA
10400895 TATTCTACCC
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
41 1 0.03
42 23 0.68
43 10 0.29
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (42 bp):
TTTTCTAAGCAGGACTTAATGAATTTTAAAAATTTAAAAAGC
Found at i:10401448 original size:150 final size:150
Alignment explanation
Indices: 10401152--10401507 Score: 378
Period size: 150 Copynumber: 2.4 Consensus size: 150
10401142 TGCAGATGCT
* * * *
10401152 TAACTTTAAAAGTTTTCATCTTGAAAATGCTCCTCTAAGCAGAGGCTCAATAACTTTAAAAATCT
1 TAACTTTAAAAATTTTCATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAAATCT
* * * * * * * *
10401217 TCATCTTTGAAAAGCTTCTTTATGTAGAAGCTCAATAACTTAAAAAATTTTCATCTAGAAAATGC
66 TCATCATGGAAAAACTTCTTTAAGCAGAAGCTCAACAACTTAAAAAATATTCATCTAGAAAATAC
10401282 TCATTTAAGTAAAGGCTTAA
131 TCATTTAAGTAAAGGCTTAA
* * * *
10401302 TAACTTCAAAAATTTTCATCTTGAAAAAGCTCTTCTAAGCAAAGGCTCAACAATTTTAAAAATTT
1 TAACTTTAAAAATTTTCATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAAATCT
* *
10401367 TCATCATGGAAAAAC-TCATTTAAGCAGAAGTTTAACAACTTTAAAAAA-ATTCATCTTA-AATA
66 TCATCATGGAAAAACTTC-TTTAAGCAGAAGCTCAACAAC-TTAAAAAATATTCATC-TAGAA-A
* * *
10401429 A-ACTCCTTTGAGTAGAGGCTTAA
127 ATACTCATTTAAGTAAAGGCTTAA
* * ** * * * * *
10401452 CAATTTTAAAAATTTTCAGATTGGAAAAGCTCCTTTAAGTAGAGGCTTAACAACTT
1 TAACTTTAAAAATTTTCATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTT
10401508 GAAACAAATT
Statistics
Matches: 169, Mismatches: 33, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
149 2 0.01
150 155 0.92
151 12 0.07
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (150 bp):
TAACTTTAAAAATTTTCATCTTGAAAAAGCTCCTCTAAGCAAAGGCTCAACAACTTTAAAAATCT
TCATCATGGAAAAACTTCTTTAAGCAGAAGCTCAACAACTTAAAAAATATTCATCTAGAAAATAC
TCATTTAAGTAAAGGCTTAA
Found at i:10401493 original size:50 final size:50
Alignment explanation
Indices: 10401041--10401507 Score: 308
Period size: 50 Copynumber: 9.4 Consensus size: 50
10401031 GGGCTCTTCC
* * * * * * * *
10401041 AAGCAGAGACTCAACAATTTTAAAAA-ATTCATCTCGAAAAAAACTACTTT
1 AAGCAGAGGCTTAACAACTTTAAAAATTTTCATCTTG-GAAAAGCTCCTTT
* * * * *
10401091 AATCATA-GCTTCAACAATTTTAAAAATCTTT--TCTTTGAAAAAGCTCCTCT
1 AAGCAGAGGCTT-AACAACTTTAAAAAT-TTTCATC-TTGGAAAAGCTCCTTT
* * * *
10401141 ATGCAGATGCTT---AACTTTAAAAGTTTTCATCTT-GAAAATGCTCCTCT
1 AAGCAGAGGCTTAACAACTTTAAAAATTTTCATCTTGGAAAA-GCTCCTTT
* * * * *
10401188 AAGCAGAGGCTCAATAACTTTAAAAATCTTCATCTTTGAAAAGCTTCTTT
1 AAGCAGAGGCTTAACAACTTTAAAAATTTTCATCTTGGAAAAGCTCCTTT
* * * * * * * *
10401238 ATGTAGAAGCTCAATAACTTAAAAAATTTTCATC-TAGAAAATGCTCATTT
1 AAGCAGAGGCTTAACAACTTTAAAAATTTTCATCTTGGAAAA-GCTCCTTT
* * * * *
10401288 AAGTAAAGGCTTAATAACTTCAAAAATTTTCATCTTGAAAAAGCT-CTTCT
1 AAGCAGAGGCTTAACAACTTTAAAAATTTTCATCTTGGAAAAGCTCCTT-T
* * * * * *
10401338 AAGCAAAGGCTCAACAATTTTAAAAATTTTCATCATGGAAAAACTCATTT
1 AAGCAGAGGCTTAACAACTTTAAAAATTTTCATCTTGGAAAAGCTCCTTT
* * ** * *
10401388 AAGCAGAAGTTTAACAACTTTAAAAAAATTCATCTT-AAATAAACTCCTTT
1 AAGCAGAGGCTTAACAACTTTAAAAATTTTCATCTTGGAA-AAGCTCCTTT
* * * **
10401438 GAGTAGAGGCTTAACAATTTTAAAAATTTTCAGATTGGAAAAGCTCCTTT
1 AAGCAGAGGCTTAACAACTTTAAAAATTTTCATCTTGGAAAAGCTCCTTT
*
10401488 AAGTAGAGGCTTAACAACTT
1 AAGCAGAGGCTTAACAACTT
10401508 GAAACAAATT
Statistics
Matches: 329, Mismatches: 70, Indels: 36
0.76 0.16 0.08
Matches are distributed among these distances:
46 7 0.02
47 29 0.09
48 2 0.01
49 12 0.04
50 257 0.78
51 20 0.06
52 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.11, T:0.33
Consensus pattern (50 bp):
AAGCAGAGGCTTAACAACTTTAAAAATTTTCATCTTGGAAAAGCTCCTTT
Found at i:10401567 original size:100 final size:99
Alignment explanation
Indices: 10401259--10401549 Score: 311
Period size: 100 Copynumber: 2.9 Consensus size: 99
10401249 CAATAACTTA
* * * *
10401259 AAAAATTTTCATC-TAGAAAATGCTCATTTAAGTAAAGGCTTAATAACTTCAAAAATTTTCATCT
1 AAAAATTTTCATCATGGAAAA-GCTCATTTAAGTAGAGGCTTAACAACTTCAAAAA-ATTCATCT
* *
10401323 TGAAAAAG-CTCTTCTAAGCAAAGGCTCAACAATTTT
64 TAAAAAAGACTCTT-TAAGCAAAGGCTTAACAATTTT
* * * * *
10401359 AAAAATTTTCATCATGGAAAAACTCATTTAAGCAGAAGTTTAACAACTTTAAAAAAATTCATCTT
1 AAAAATTTTCATCATGGAAAAGCTCATTTAAGTAGAGGCTTAACAAC-TTCAAAAAATTCATCTT
* * * *
10401424 AAATAA-ACTCCTTTGAGTAGAGGCTTAACAATTTT
65 AAAAAAGACT-CTTTAAGCAAAGGCTTAACAATTTT
* * * *
10401459 AAAAATTTTCA-GATTGGAAAAGCTCCTTTAAGTAGAGGCTTAACAACTTGAAACAAATTCATCA
1 AAAAATTTTCATCA-TGGAAAAGCTCATTTAAGTAGAGGCTTAACAACTTCAAA-AAATTCATCT
*
10401523 TAAAAAAGACTCATTAAGCAAAGGCTT
64 TAAAAAAGACTCTTTAAGCAAAGGCTT
10401550 GACGACTTTT
Statistics
Matches: 156, Mismatches: 28, Indels: 14
0.79 0.14 0.07
Matches are distributed among these distances:
99 6 0.04
100 131 0.84
101 19 0.12
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (99 bp):
AAAAATTTTCATCATGGAAAAGCTCATTTAAGTAGAGGCTTAACAACTTCAAAAAATTCATCTTA
AAAAAGACTCTTTAAGCAAAGGCTTAACAATTTT
Found at i:10402346 original size:11 final size:11
Alignment explanation
Indices: 10402330--10402354 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
10402320 TTATTAACAA
10402330 TTAAATTATTT
1 TTAAATTATTT
10402341 TTAAATTATTT
1 TTAAATTATTT
10402352 TTA
1 TTA
10402355 TACATTGAAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (11 bp):
TTAAATTATTT
Found at i:10404771 original size:19 final size:18
Alignment explanation
Indices: 10404735--10404770 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
10404725 AAAAAAGAAA
*
10404735 AGAAAAAAAGTAATTTTT
1 AGAAAAAAAGAAATTTTT
10404753 AGAAAAAAAGAAATTTTT
1 AGAAAAAAAGAAATTTTT
10404771 TTAACATAAA
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:0.58, C:0.00, G:0.11, T:0.31
Consensus pattern (18 bp):
AGAAAAAAAGAAATTTTT
Found at i:10409738 original size:15 final size:15
Alignment explanation
Indices: 10409718--10409752 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
10409708 GATGGTTGTA
10409718 AAAAAAAATAAAAAC
1 AAAAAAAATAAAAAC
*
10409733 AAAAAAAATGAAAAC
1 AAAAAAAATAAAAAC
10409748 AAAAA
1 AAAAA
10409753 CAAAGAGGAG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.86, C:0.06, G:0.03, T:0.06
Consensus pattern (15 bp):
AAAAAAAATAAAAAC
Found at i:10412225 original size:18 final size:17
Alignment explanation
Indices: 10412202--10412237 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
10412192 CTTCAAAAAA
*
10412202 TTTATTTTATTTTTTTGT
1 TTTATTTT-TGTTTTTGT
10412220 TTTATTTTTGTTTTTGT
1 TTTATTTTTGTTTTTGT
10412237 T
1 T
10412238 ATTTCTTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 9 0.53
18 8 0.47
ACGTcount: A:0.08, C:0.00, G:0.08, T:0.83
Consensus pattern (17 bp):
TTTATTTTTGTTTTTGT
Found at i:10412536 original size:38 final size:38
Alignment explanation
Indices: 10412437--10412540 Score: 102
Period size: 38 Copynumber: 2.7 Consensus size: 38
10412427 AATGATCGAA
* * *
10412437 ACAACATCGTGAGTCAAGAAATAAAAAAAAAGACTAGG
1 ACAACATTGTAAGTCAAGAAATAAAGAAAAAGACTAGG
* * * * * * *
10412475 ACAACACTGCAAGTTGAA-TAATAAAGAGAATGATTAGG
1 ACAACATTGTAAG-TCAAGAAATAAAGAAAAAGACTAGG
10412513 ACAACATTGTAAGTCAAGAAATAAAGAA
1 ACAACATTGTAAGTCAAGAAATAAAGAA
10412541 TCGATCGGGA
Statistics
Matches: 49, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
37 3 0.06
38 43 0.88
39 3 0.06
ACGTcount: A:0.53, C:0.12, G:0.18, T:0.17
Consensus pattern (38 bp):
ACAACATTGTAAGTCAAGAAATAAAGAAAAAGACTAGG
Found at i:10412625 original size:49 final size:50
Alignment explanation
Indices: 10412548--10412648 Score: 186
Period size: 51 Copynumber: 2.0 Consensus size: 50
10412538 GAATCGATCG
10412548 GGATAACACTGCTAGTCGAG-AAAAAAAAAAGACCTAAACAACACAATGA
1 GGATAACACTGCTAGTCGAGAAAAAAAAAAAGACCTAAACAACACAATGA
10412597 GGATAACACTGCTAGTCGAGAAATAAAAAAAAGACCTAAACAACACAATGA
1 GGATAACACTGCTAGTCGAGAAA-AAAAAAAAGACCTAAACAACACAATGA
10412648 G
1 G
10412649 TTGAAAAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
49 20 0.40
50 2 0.04
51 28 0.56
ACGTcount: A:0.52, C:0.18, G:0.17, T:0.13
Consensus pattern (50 bp):
GGATAACACTGCTAGTCGAGAAAAAAAAAAAGACCTAAACAACACAATGA
Found at i:10412658 original size:37 final size:37
Alignment explanation
Indices: 10412617--10412720 Score: 127
Period size: 40 Copynumber: 2.7 Consensus size: 37
10412607 GCTAGTCGAG
* *
10412617 AAATAAAAAAAAGACCTAAACAACACAATGAGTTGAA
1 AAATAAAAAAAAGATCGAAACAACACAATGAGTTGAA
* *
10412654 AAATAAAAAAACCAAGATCGAAACAACACAGTGATTTGAA
1 AAAT-AAAAAA--AAGATCGAAACAACACAATGAGTTGAA
*
10412694 AAATAAAACCAAAGATCGAAACAACAC
1 AAATAAAA-AAAAGATCGAAACAACAC
10412721 CGCAAGTCGA
Statistics
Matches: 58, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
37 4 0.07
38 22 0.38
39 4 0.07
40 28 0.48
ACGTcount: A:0.61, C:0.16, G:0.11, T:0.12
Consensus pattern (37 bp):
AAATAAAAAAAAGATCGAAACAACACAATGAGTTGAA
Found at i:10412737 original size:38 final size:37
Alignment explanation
Indices: 10412655--10412738 Score: 96
Period size: 38 Copynumber: 2.2 Consensus size: 37
10412645 TGAGTTGAAA
* ** * *
10412655 AATAAAAAAACCAAGATCGAAACAACACAGTGATTTG
1 AATAATAAAACCAAGATCGAAACAACACAGCAAGTCG
* *
10412692 AAAAATAAAACCAAAGATCGAAACAACACCGCAAGTCG
1 AATAATAAAACC-AAGATCGAAACAACACAGCAAGTCG
10412730 AATAATAAA
1 AATAATAAA
10412739 CAAAACGATC
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
37 10 0.26
38 28 0.74
ACGTcount: A:0.57, C:0.18, G:0.12, T:0.13
Consensus pattern (37 bp):
AATAATAAAACCAAGATCGAAACAACACAGCAAGTCG
Found at i:10412806 original size:37 final size:37
Alignment explanation
Indices: 10412763--10412854 Score: 130
Period size: 37 Copynumber: 2.5 Consensus size: 37
10412753 TAATAACACA
* * **
10412763 AGTCGAGAAATAAGAAATTGATCGGGAGAACACTATT
1 AGTCGAGAAATAAGAAAATGATCGGGAGAACACCACG
*
10412800 AGTCGAGAAATAAGAAAATGATCGGGATAACACCACG
1 AGTCGAGAAATAAGAAAATGATCGGGAGAACACCACG
*
10412837 AGTCGAGAAATAAAAAAA
1 AGTCGAGAAATAAGAAAA
10412855 ACGATTAGAA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 49 1.00
ACGTcount: A:0.49, C:0.12, G:0.23, T:0.16
Consensus pattern (37 bp):
AGTCGAGAAATAAGAAAATGATCGGGAGAACACCACG
Found at i:10412905 original size:22 final size:22
Alignment explanation
Indices: 10412880--10412969 Score: 69
Period size: 22 Copynumber: 4.1 Consensus size: 22
10412870 TCGTAAGTCA
10412880 AAATTATGCCTAGAGGTCTTAG
1 AAATTATGCCTAGAGGTCTTAG
* * *
10412902 AAATTATG-CTCGAAGATTTTAG
1 AAATTATGCCTAG-AGGTCTTAG
* **
10412924 AGATTATGCCCGGAGGTCTTAG
1 AAATTATGCCTAGAGGTCTTAG
* *
10412946 AGATTGTGCCCTA-AGGTCTT-G
1 AAATTATG-CCTAGAGGTCTTAG
10412967 AAA
1 AAA
10412970 ATTACAAAAT
Statistics
Matches: 53, Mismatches: 12, Indels: 7
0.74 0.17 0.10
Matches are distributed among these distances:
21 6 0.11
22 43 0.81
23 4 0.08
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (22 bp):
AAATTATGCCTAGAGGTCTTAG
Found at i:10413069 original size:22 final size:22
Alignment explanation
Indices: 10413035--10413092 Score: 71
Period size: 22 Copynumber: 2.6 Consensus size: 22
10413025 AGAATGTTTT
* *
10413035 TGCCTAAAAGTCTTGGAAATTA
1 TGCCTAAAGGTCTTGAAAATTA
* *
10413057 TGCCCAAAGGTCTTGAAAATTG
1 TGCCTAAAGGTCTTGAAAATTA
*
10413079 TGCCTGAAGGTCTT
1 TGCCTAAAGGTCTT
10413093 AGAATCAACT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.29, C:0.17, G:0.22, T:0.31
Consensus pattern (22 bp):
TGCCTAAAGGTCTTGAAAATTA
Found at i:10413239 original size:37 final size:37
Alignment explanation
Indices: 10413196--10413266 Score: 106
Period size: 37 Copynumber: 1.9 Consensus size: 37
10413186 TTGCAAGTCA
* *
10413196 AAATAAGAAAACGATCGAGACAACACCGTGAGTCTAG
1 AAATAAGAAAACAATCGAAACAACACCGTGAGTCTAG
* *
10413233 AAATAAGAAAATAATCGAAACAACACCTTGAGTC
1 AAATAAGAAAACAATCGAAACAACACCGTGAGTC
10413267 AAAATTATAC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 30 1.00
ACGTcount: A:0.49, C:0.18, G:0.17, T:0.15
Consensus pattern (37 bp):
AAATAAGAAAACAATCGAAACAACACCGTGAGTCTAG
Found at i:10413307 original size:22 final size:22
Alignment explanation
Indices: 10413282--10413362 Score: 83
Period size: 22 Copynumber: 3.7 Consensus size: 22
10413272 TATACCTAGT
10413282 GGTCTTAGAAATTATGCCCGAA
1 GGTCTTAGAAATTATGCCCGAA
*
10413304 GGTCTTAGAGATTATGCCCGAA
1 GGTCTTAGAAATTATGCCCGAA
* * * *
10413326 AGTTTTA-AAGATTGTGCCTGAA
1 GGTCTTAGAA-ATTATGCCCGAA
* *
10413348 GGTTTTAAAAATTAT
1 GGTCTTAGAAATTAT
10413363 AAAATCTTTC
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
21 1 0.02
22 46 0.94
23 2 0.04
ACGTcount: A:0.32, C:0.12, G:0.22, T:0.33
Consensus pattern (22 bp):
GGTCTTAGAAATTATGCCCGAA
Found at i:10413459 original size:22 final size:22
Alignment explanation
Indices: 10413433--10413477 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
10413423 TACTCGAAGC
10413433 TCTTGAAAATTATGCCCAAAGG
1 TCTTGAAAATTATGCCCAAAGG
*
10413455 TCTTGGAAATTATGCCCAAAGG
1 TCTTGAAAATTATGCCCAAAGG
10413477 T
1 T
10413478 ATTTATAGAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.33, C:0.18, G:0.20, T:0.29
Consensus pattern (22 bp):
TCTTGAAAATTATGCCCAAAGG
Found at i:10413988 original size:26 final size:26
Alignment explanation
Indices: 10413941--10413990 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
10413931 ATGCAAAAGT
**
10413941 AAATGTCTTTCTTATGGTGCACATGC
1 AAATGTCTTTCTTATGACGCACATGC
10413967 AAATGTCTTT-TTCATGACGCACAT
1 AAATGTCTTTCTT-ATGACGCACAT
10413991 ATAAATACAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.10
26 19 0.90
ACGTcount: A:0.26, C:0.20, G:0.16, T:0.38
Consensus pattern (26 bp):
AAATGTCTTTCTTATGACGCACATGC
Found at i:10413996 original size:26 final size:26
Alignment explanation
Indices: 10413940--10413996 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
10413930 GATGCAAAAG
** *
10413940 TAAATGTCTTTCTTATGGTGCACATG
1 TAAATGTCTTTCTTATGACGCACATA
*
10413966 CAAATGTCTTT-TTCATGACGCACATA
1 TAAATGTCTTTCTT-ATGACGCACATA
10413992 TAAAT
1 TAAAT
10413997 ACAAATGCAA
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
25 2 0.08
26 23 0.92
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.39
Consensus pattern (26 bp):
TAAATGTCTTTCTTATGACGCACATA
Found at i:10414249 original size:136 final size:136
Alignment explanation
Indices: 10414005--10414279 Score: 444
Period size: 136 Copynumber: 2.0 Consensus size: 136
10413995 ATACAAATGC
* *
10414005 AAGTGATGTAAATGTGAATGTCTTTTTTTGTTATTGCAGCATACAGATCAAATGTATTTTGCAAG
1 AAGTGATGTAAATGCGAATGACTTTTTTTGTTATTGCAGCATACAGATCAAATGTATTTTGCAAG
* * * *
10414070 AGATGCGAATGTGAAGATTCTTTTTGTTTTTACAATATGCAAGTCAAATATCTTTCTGAAGATGC
66 AGATGCAAATGTGAAAATTCTTTTTGCTTTTACAACATGCAAGTCAAATATCTTTCTGAAGATGC
*
10414135 ATATGT
131 ACATGT
*
10414141 AAGTGATGTAAATGCGAA-GACTCTTTTTTGTTATTGTAGCATACAGATCAAATGTATTTTGCAA
1 AAGTGATGTAAATGCGAATGACT-TTTTTTGTTATTGCAGCATACAGATCAAATGTATTTTGCAA
* *
10414205 GAGATGCAAATGTGAAAATTCTTTTTGCTTTTGCAACATGCAAGTCAAATATCTTTCTGATGATG
65 GAGATGCAAATGTGAAAATTCTTTTTGCTTTTACAACATGCAAGTCAAATATCTTTCTGAAGATG
10414270 CACATGT
130 CACATGT
10414277 AAG
1 AAG
10414280 CAATACAAAT
Statistics
Matches: 128, Mismatches: 10, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
135 3 0.02
136 125 0.98
ACGTcount: A:0.32, C:0.12, G:0.19, T:0.38
Consensus pattern (136 bp):
AAGTGATGTAAATGCGAATGACTTTTTTTGTTATTGCAGCATACAGATCAAATGTATTTTGCAAG
AGATGCAAATGTGAAAATTCTTTTTGCTTTTACAACATGCAAGTCAAATATCTTTCTGAAGATGC
ACATGT
Found at i:10415637 original size:8 final size:8
Alignment explanation
Indices: 10415624--10415669 Score: 58
Period size: 8 Copynumber: 5.6 Consensus size: 8
10415614 GAAGAAATCA
10415624 TTTTTATT
1 TTTTTATT
*
10415632 TTTTTATC
1 TTTTTATT
10415640 TTTTTACTT
1 TTTTTA-TT
10415649 TTTTT-TT
1 TTTTTATT
10415656 GTTTTTATT
1 -TTTTTATT
10415665 TTTTT
1 TTTTT
10415670 TATGCCCCAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
7 2 0.06
8 23 0.70
9 8 0.24
ACGTcount: A:0.09, C:0.04, G:0.02, T:0.85
Consensus pattern (8 bp):
TTTTTATT
Found at i:10415670 original size:16 final size:16
Alignment explanation
Indices: 10415624--10415670 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
10415614 GAAGAAATCA
*
10415624 TTTTTATTTTTTTATC
1 TTTTTATTTTTTTTTC
*
10415640 TTTTTACTTTTTTTTTG
1 TTTTTA-TTTTTTTTTC
10415657 TTTTTATTTTTTTT
1 TTTTTATTTTTTTT
10415671 ATGCCCCATC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 14 0.50
17 14 0.50
ACGTcount: A:0.09, C:0.04, G:0.02, T:0.85
Consensus pattern (16 bp):
TTTTTATTTTTTTTTC
Found at i:10415670 original size:17 final size:16
Alignment explanation
Indices: 10415624--10415669 Score: 65
Period size: 17 Copynumber: 2.8 Consensus size: 16
10415614 GAAGAAATCA
10415624 TTTTTATTTTTTTATC
1 TTTTTATTTTTTTATC
* *
10415640 TTTTTACTTTTTTTTTG
1 TTTTTA-TTTTTTTATC
10415657 TTTTTATTTTTTT
1 TTTTTATTTTTTT
10415670 TATGCCCCAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
16 13 0.48
17 14 0.52
ACGTcount: A:0.09, C:0.04, G:0.02, T:0.85
Consensus pattern (16 bp):
TTTTTATTTTTTTATC
Found at i:10416270 original size:20 final size:21
Alignment explanation
Indices: 10416245--10416291 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
10416235 AAAAGAAAAC
*
10416245 TTTTTTTTCTTTT-TTCTTCT
1 TTTTTTTTATTTTGTTCTTCT
* *
10416265 TTTTTTTTATTTTGTTTTTGT
1 TTTTTTTTATTTTGTTCTTCT
10416286 TTTTTT
1 TTTTTT
10416292 GTTTTTTAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
20 12 0.52
21 11 0.48
ACGTcount: A:0.02, C:0.06, G:0.04, T:0.87
Consensus pattern (21 bp):
TTTTTTTTATTTTGTTCTTCT
Found at i:10416282 original size:14 final size:13
Alignment explanation
Indices: 10416245--10416298 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
10416235 AAAAGAAAAC
*
10416245 TTTTTTTTCTTTT
1 TTTTTTTTGTTTT
* *
10416258 TTCTTCTT-TTTT
1 TTTTTTTTGTTTT
*
10416270 TTTATTTTGTTTT
1 TTTTTTTTGTTTT
10416283 TGTTTTTTTGTTTT
1 T-TTTTTTTGTTTT
10416297 TT
1 TT
10416299 AATCTTGAAA
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
12 9 0.27
13 12 0.36
14 12 0.36
ACGTcount: A:0.02, C:0.06, G:0.06, T:0.87
Consensus pattern (13 bp):
TTTTTTTTGTTTT
Found at i:10420909 original size:16 final size:16
Alignment explanation
Indices: 10420881--10420919 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
10420871 TTATTAAGGG
10420881 TTTTGAGATTTTAAGA
1 TTTTGAGATTTTAAGA
*
10420897 TTTTG-GATGTTTAAGG
1 TTTTGAGAT-TTTAAGA
10420913 TTTTGAG
1 TTTTGAG
10420920 GTTTGGAATT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
15 3 0.15
16 16 0.80
17 1 0.05
ACGTcount: A:0.23, C:0.00, G:0.26, T:0.51
Consensus pattern (16 bp):
TTTTGAGATTTTAAGA
Found at i:10420989 original size:37 final size:37
Alignment explanation
Indices: 10420921--10421107 Score: 93
Period size: 37 Copynumber: 5.1 Consensus size: 37
10420911 GGTTTTGAGG
* ** *
10420921 TTTGGAATTTAGGGTTTTAGAATTTGA-TTTTAGGGTT
1 TTTGGATTTTAGGG-TTTAGGGTTTTAGTTTTAGGGTT
*
10420958 TTTGGATTTTAGGGTTTAGGGTTTTAGTTTTATGG-T
1 TTTGGATTTTAGGGTTTAGGGTTTTAGTTTTAGGGTT
** ** * * **
10420994 TCAGGATTTT-GATTTTAGGGTTTTGGGGGTTTAAAG-T
1 TTTGGATTTTAGGGTTTAGGGTTTT--AGTTTTAGGGTT
*
10421031 TTT-GATTTTAGGGTTTAAAGGG-TTTAGGGTTTTA--ATT
1 TTTGGATTTTAGGGTTT--AGGGTTTTA--GTTTTAGGGTT
* * *
10421068 TTAGGGTTTAAAGGGTTTAGGGTTTTAGTTTTAGGGTT
1 TTTGGATTT-TAGGGTTTAGGGTTTTAGTTTTAGGGTT
10421106 TT
1 TT
10421108 GAAGGTTTAA
Statistics
Matches: 112, Mismatches: 24, Indels: 27
0.69 0.15 0.17
Matches are distributed among these distances:
35 12 0.11
36 30 0.27
37 39 0.35
38 20 0.18
39 11 0.10
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.51
Consensus pattern (37 bp):
TTTGGATTTTAGGGTTTAGGGTTTTAGTTTTAGGGTT
Found at i:10420994 original size:21 final size:22
Alignment explanation
Indices: 10420928--10421016 Score: 85
Period size: 21 Copynumber: 4.1 Consensus size: 22
10420918 AGGTTTGGAA
* **
10420928 TTTAGGGTTTTAGAATTT-GAT
1 TTTAGGGTTTTAGATTTTAGGG
*
10420949 TTTAGGGTTTTTGGATTTTAGGG
1 TTTAGGG-TTTTAGATTTTAGGG
*
10420972 TTTAGGGTTTTAG-TTTTATGG
1 TTTAGGGTTTTAGATTTTAGGG
* *
10420993 TTCAGGATTTT-GATTTTAGGG
1 TTTAGGGTTTTAGATTTTAGGG
10421014 TTT
1 TTT
10421017 TGGGGGTTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 6
0.77 0.14 0.08
Matches are distributed among these distances:
20 1 0.02
21 32 0.58
22 14 0.25
23 8 0.15
ACGTcount: A:0.17, C:0.01, G:0.28, T:0.54
Consensus pattern (22 bp):
TTTAGGGTTTTAGATTTTAGGG
Found at i:10421035 original size:30 final size:30
Alignment explanation
Indices: 10421000--10421256 Score: 256
Period size: 30 Copynumber: 8.6 Consensus size: 30
10420990 TGGTTCAGGA
* * *
10421000 TTTTGATTTTAGGGTTTTGGGGGTTTAAAG
1 TTTTGATTTTAGGGTTTAGAGGGTTTAAGG
* *
10421030 TTTTGATTTTAGGGTTTAAAGGGTTTAGGG
1 TTTTGATTTTAGGGTTTAGAGGGTTTAAGG
* * *
10421060 TTTTAATTTTAGGGTTTAAAGGGTTTAGGG
1 TTTTGATTTTAGGGTTTAGAGGGTTTAAGG
* *
10421090 TTTT-AGTTTTAGGGTTTTGAAGGTTTAAGG
1 TTTTGA-TTTTAGGGTTTAGAGGGTTTAAGG
*
10421120 TTTTGATTTTA-GGTTTAGAGGGTTT-TGTG
1 TTTTGATTTTAGGGTTTAGAGGGTTTAAG-G
* * * *
10421149 CTTTG-TCTTTAAGGTTTAAAGGGTTTAAAG
1 TTTTGAT-TTTAGGGTTTAGAGGGTTTAAGG
**
10421179 TTTT-AGTTTTAGGGTTTTTAGGGTTT-AGAG
1 TTTTGA-TTTTAGGGTTTAGAGGGTTTAAG-G
* *
10421209 TTTTGATTTTAAGGTTTTGAGGGTTTAAGG
1 TTTTGATTTTAGGGTTTAGAGGGTTTAAGG
10421239 TTTTGATTTTAGGGTTTA
1 TTTTGATTTTAGGGTTTA
10421257 AAGTTTTGAG
Statistics
Matches: 190, Mismatches: 26, Indels: 22
0.80 0.11 0.09
Matches are distributed among these distances:
28 2 0.01
29 23 0.12
30 160 0.84
31 5 0.03
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.50
Consensus pattern (30 bp):
TTTTGATTTTAGGGTTTAGAGGGTTTAAGG
Found at i:10421058 original size:16 final size:16
Alignment explanation
Indices: 10421037--10421092 Score: 80
Period size: 16 Copynumber: 3.6 Consensus size: 16
10421027 AAGTTTTGAT
10421037 TTTAGGGTTTAAAGGG
1 TTTAGGGTTTAAAGGG
* *
10421053 TTTAGGGTTTTAA--T
1 TTTAGGGTTTAAAGGG
10421067 TTTAGGGTTTAAAGGG
1 TTTAGGGTTTAAAGGG
10421083 TTTAGGGTTT
1 TTTAGGGTTT
10421093 TAGTTTTAGG
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
14 12 0.35
16 22 0.65
ACGTcount: A:0.21, C:0.00, G:0.32, T:0.46
Consensus pattern (16 bp):
TTTAGGGTTTAAAGGG
Found at i:10421168 original size:119 final size:120
Alignment explanation
Indices: 10421000--10421256 Score: 340
Period size: 119 Copynumber: 2.1 Consensus size: 120
10420990 TGGTTCAGGA
* * *** * * **
10421000 TTTTGATTTTAGGGTTTTGGGGGTTTAAAGTTTTGAT-TTTAGGGTTTAAAGGGTTTAGGGTTTT
1 TTTTGATTTTAGGGTTTAGAGGGTTTTGTGCTTTG-TCTTTAAGGTTTAAAGGGTTTAAAGTTTT
* *
10421064 AATTTTAGGGTTTAAAGGGTTTAGGGTTTT-AGTTTTAGGGTTTTGAAGGTTTAAGG
65 AATTTTAGGGTTTAAAGGGTTTAGAGTTTTGA-TTTTAAGGTTTTGAAGGTTTAAGG
10421120 TTTTGATTTTA-GGTTTAGAGGGTTTTGTGCTTTGTCTTTAAGGTTTAAAGGGTTTAAAGTTTTA
1 TTTTGATTTTAGGGTTTAGAGGGTTTTGTGCTTTGTCTTTAAGGTTTAAAGGGTTTAAAGTTTTA
* ** *
10421184 GTTTTAGGGTTTTTAGGGTTTAGAGTTTTGATTTTAAGGTTTTGAGGGTTTAAGG
66 ATTTTAGGGTTTAAAGGGTTTAGAGTTTTGATTTTAAGGTTTTGAAGGTTTAAGG
10421239 TTTTGATTTTAGGGTTTA
1 TTTTGATTTTAGGGTTTA
10421257 AAGTTTTGAG
Statistics
Matches: 119, Mismatches: 15, Indels: 6
0.85 0.11 0.04
Matches are distributed among these distances:
118 1 0.01
119 100 0.84
120 18 0.15
ACGTcount: A:0.19, C:0.01, G:0.30, T:0.50
Consensus pattern (120 bp):
TTTTGATTTTAGGGTTTAGAGGGTTTTGTGCTTTGTCTTTAAGGTTTAAAGGGTTTAAAGTTTTA
ATTTTAGGGTTTAAAGGGTTTAGAGTTTTGATTTTAAGGTTTTGAAGGTTTAAGG
Found at i:10421183 original size:89 final size:89
Alignment explanation
Indices: 10421006--10421259 Score: 305
Period size: 89 Copynumber: 2.8 Consensus size: 89
10420996 AGGATTTTGA
* * * *
10421006 TTTTAGGGTTTTGGGGGTTTAAAGTTTTGATTTTAGGGTTTAAAGGGTTTAGGGTTTTAATTTTA
1 TTTTAGGGTTTTGAGGGTTTAAGGTTTTGATTTTA-GGTTTAGAGGGTTTAGGGCTTTAATTTTA
* **
10421071 GGGTTTAAAGGGTTTAGGGTTTTAG
65 AGGTTTAAAGGGTTTAAAGTTTTAG
* * * *
10421096 TTTTAGGGTTTTGAAGGTTTAAGGTTTTGATTTTAGGTTTAGAGGGTTTTGTGCTTT-GTCTTTA
1 TTTTAGGGTTTTGAGGGTTTAAGGTTTTGATTTTAGGTTTAGAGGGTTTAGGGCTTTAAT-TTTA
10421160 AGGTTTAAAGGGTTTAAAGTTTTAG
65 AGGTTTAAAGGGTTTAAAGTTTTAG
* * * * *
10421185 TTTTAGGGTTTTTAGGGTTT-AGAGTTTTGATTTTAAGGTTTTGAGGGTTTAAGGTTTTGATTTT
1 TTTTAGGGTTTTGAGGGTTTAAG-GTTTTGATTTT-AGGTTTAGAGGGTTTAGGGCTTTAATTTT
*
10421249 AGGGTTTAAAG
64 AAGGTTTAAAG
10421260 TTTTGAGATT
Statistics
Matches: 140, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
88 3 0.02
89 73 0.52
90 63 0.45
91 1 0.01
ACGTcount: A:0.20, C:0.01, G:0.30, T:0.49
Consensus pattern (89 bp):
TTTTAGGGTTTTGAGGGTTTAAGGTTTTGATTTTAGGTTTAGAGGGTTTAGGGCTTTAATTTTAA
GGTTTAAAGGGTTTAAAGTTTTAG
Found at i:10421237 original size:16 final size:16
Alignment explanation
Indices: 10421156--10421244 Score: 71
Period size: 16 Copynumber: 5.8 Consensus size: 16
10421146 GTGCTTTGTC
**
10421156 TTTAAGGTTTAAAGGG
1 TTTAAGGTTTTGAGGG
* *
10421172 TTTAAAGTTTT-A-GT
1 TTTAAGGTTTTGAGGG
* *
10421186 TTTAGGGTTTTTAGGG
1 TTTAAGGTTTTGAGGG
*
10421202 TTT-AGAGTTTTGA--T
1 TTTAAG-GTTTTGAGGG
10421216 TTTAAGGTTTTGAGGG
1 TTTAAGGTTTTGAGGG
10421232 TTTAAGGTTTTGA
1 TTTAAGGTTTTGA
10421245 TTTTAGGGTT
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
14 20 0.35
15 5 0.09
16 32 0.56
ACGTcount: A:0.22, C:0.00, G:0.28, T:0.49
Consensus pattern (16 bp):
TTTAAGGTTTTGAGGG
Found at i:10421252 original size:21 final size:22
Alignment explanation
Indices: 10421223--10421307 Score: 71
Period size: 21 Copynumber: 4.2 Consensus size: 22
10421213 GATTTTAAGG
*
10421223 TTTTGAGGGTTTAAGGTTTTGA
1 TTTTGAGGGTTTAAAGTTTTGA
10421245 TTTT-AGGGTTTAAAGTTTTGAGA
1 TTTTGAGGGTTTAAAGTTTT--GA
*
10421268 TTTTG-GGG--T----TTTGGA
1 TTTTGAGGGTTTAAAGTTTTGA
10421283 TTTT-AGGGTTTAAAGTTTTGA
1 TTTTGAGGGTTTAAAGTTTTGA
10421304 TTTT
1 TTTT
10421308 TGAAATTTAG
Statistics
Matches: 50, Mismatches: 3, Indels: 21
0.68 0.04 0.28
Matches are distributed among these distances:
15 9 0.18
17 4 0.08
21 24 0.48
22 4 0.08
23 9 0.18
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (22 bp):
TTTTGAGGGTTTAAAGTTTTGA
Done.