Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr6
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: 47432654
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2298022 characters in sequence are not A, C, G, or T
File 127 of 136
Found at i:43575058 original size:21 final size:22
Alignment explanation
Indices: 43575018--43575069 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
43575008 TGGCCAGTAC
*
43575018 AAATAACAA-AAATAATAGCAA
1 AAATAACAACAAATAACAGCAA
*
43575039 AAATAACAACAAA-AACAGCAG
1 AAATAACAACAAATAACAGCAA
43575060 AAA-AACAACA
1 AAATAACAACA
43575070 GCACCAAAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
20 7 0.25
21 18 0.64
22 3 0.11
ACGTcount: A:0.71, C:0.15, G:0.06, T:0.08
Consensus pattern (22 bp):
AAATAACAACAAATAACAGCAA
Found at i:43575603 original size:24 final size:24
Alignment explanation
Indices: 43575554--43575604 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
43575544 TTTTTGACCC
*
43575554 TTTAAAATTTTGACTCTAATTTTTT
1 TTTAAAATTTT-ACTCAAATTTTTT
43575579 TTTAAAATTTCT-CTCAAATTTTTT
1 TTTAAAATTT-TACTCAAATTTTTT
43575603 TT
1 TT
43575605 AACTTTATCG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
24 13 0.54
25 10 0.42
26 1 0.04
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.61
Consensus pattern (24 bp):
TTTAAAATTTTACTCAAATTTTTT
Found at i:43575730 original size:14 final size:11
Alignment explanation
Indices: 43575694--43575726 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
43575684 CTCAACACCA
43575694 AAATTGAGAGG
1 AAATTGAGAGG
43575705 AAATTGAGAGG
1 AAATTGAGAGG
43575716 AAATTTGAGAG
1 AAA-TTGAGAG
43575727 AGGATTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.67
12 7 0.33
ACGTcount: A:0.45, C:0.00, G:0.33, T:0.21
Consensus pattern (11 bp):
AAATTGAGAGG
Found at i:43587781 original size:13 final size:11
Alignment explanation
Indices: 43587767--43587810 Score: 56
Period size: 11 Copynumber: 4.2 Consensus size: 11
43587757 TAATTTTGAT
*
43587767 ATATATACTTA
1 ATATATATTTA
43587778 ATATATATTTA
1 ATATATATTTA
43587789 ATATAT-TTTA
1 ATATATATTTA
*
43587799 AT-TATTTTTA
1 ATATATATTTA
43587809 AT
1 AT
43587811 TAACTTATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
9 3 0.10
10 12 0.39
11 16 0.52
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
ATATATATTTA
Found at i:43587781 original size:64 final size:64
Alignment explanation
Indices: 43587659--43587800 Score: 146
Period size: 64 Copynumber: 2.2 Consensus size: 64
43587649 AAATTATGTA
* * * * * *
43587659 AATAACTTTTAATGATTATTATTTAAAATAAATATGATTTTTTTTCTAATTATGAATAT-TGTTT
1 AATAA-TTTTAATGACTATTATTTAAAATAAATATAATTTTATATATAATTATGAATATATATTT
* *
43587723 AATAAGTTTTAATGACTATTATTTAAGATAAATATAATTTTGATATAT-A-TACTTAATATATAT
1 AATAA-TTTTAATGACTATTATTTAAAATAAATATAATTTT-ATATATAATTA-TGAATATATAT
43587786 TT
63 TT
43587788 AATATATTTTAAT
1 AATA-ATTTTAAT
43587801 TATTTTTAAT
Statistics
Matches: 65, Mismatches: 9, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
63 2 0.03
64 44 0.68
65 18 0.28
66 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.06, T:0.51
Consensus pattern (64 bp):
AATAATTTTAATGACTATTATTTAAAATAAATATAATTTTATATATAATTATGAATATATATTT
Found at i:43589868 original size:3 final size:3
Alignment explanation
Indices: 43589862--43589890 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
43589852 CTTCTTGCCA
43589862 CCG CCG CCG CCG CCG CCG CCG CCG CCG CC
1 CCG CCG CCG CCG CCG CCG CCG CCG CCG CC
43589891 ACCACCGCCT
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:0.00, C:0.69, G:0.31, T:0.00
Consensus pattern (3 bp):
CCG
Found at i:43599080 original size:2 final size:2
Alignment explanation
Indices: 43599073--43599099 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
43599063 AAAATTATTT
43599073 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 T
43599100 TTGACATGGT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:43609496 original size:28 final size:29
Alignment explanation
Indices: 43609441--43609505 Score: 91
Period size: 28 Copynumber: 2.3 Consensus size: 29
43609431 CTATATTTAA
43609441 ATAAAATTATTAATATTATTCTCAAAAT-
1 ATAAAATTATTAATATTATTCTCAAAATC
43609469 ATAAAATTATTAATATTTATT-T-ATAAATC
1 ATAAAATTATTAATA-TTATTCTCA-AAATC
43609498 ATAAAATT
1 ATAAAATT
43609506 TCTTATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
27 1 0.03
28 20 0.59
29 13 0.38
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.45
Consensus pattern (29 bp):
ATAAAATTATTAATATTATTCTCAAAATC
Found at i:43619112 original size:23 final size:23
Alignment explanation
Indices: 43619086--43619146 Score: 113
Period size: 23 Copynumber: 2.7 Consensus size: 23
43619076 AAAAGTGCCA
43619086 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
43619109 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
43619132 CACTGATATGTAGCC
1 CACTGATATGTAGCC
43619147 CANNNNNNNN
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.21
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:43622191 original size:29 final size:28
Alignment explanation
Indices: 43622104--43622191 Score: 88
Period size: 30 Copynumber: 3.0 Consensus size: 28
43622094 AATTTTAAAA
* *
43622104 TTATATTTAAATTTTGATTTAATATATT
1 TTATATATAAATTTTGATTTAATATAAT
* *
43622132 TTTTATGCATAAATTTTGATTT-ATGTAAAT
1 TTATAT--ATAAATTTTGATTTAATAT-AAT
*
43622162 TTATATATAAAATTTTAATTTAATATAAT
1 TTATATAT-AAATTTTGATTTAATATAAT
43622191 T
1 T
43622192 CTCATAAAGT
Statistics
Matches: 48, Mismatches: 7, Indels: 9
0.75 0.11 0.14
Matches are distributed among these distances:
28 7 0.15
29 18 0.38
30 23 0.48
ACGTcount: A:0.39, C:0.01, G:0.05, T:0.56
Consensus pattern (28 bp):
TTATATATAAATTTTGATTTAATATAAT
Found at i:43622596 original size:20 final size:21
Alignment explanation
Indices: 43622573--43622616 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
43622563 TTTTTTACGA
43622573 TTTTTATAAAATTTAAT-ATT
1 TTTTTATAAAATTTAATAATT
**
43622593 TTTTTATAATTTTTAATAATT
1 TTTTTATAAAATTTAATAATT
43622614 TTT
1 TTT
43622617 ATTTTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 15 0.71
21 6 0.29
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (21 bp):
TTTTTATAAAATTTAATAATT
Found at i:43622611 original size:10 final size:10
Alignment explanation
Indices: 43622584--43622617 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
43622574 TTTTATAAAA
*
43622584 TTTAATATTT
1 TTTAATAATT
*
43622594 TTTTATAATT
1 TTTAATAATT
43622604 TTTAATAATT
1 TTTAATAATT
43622614 TTTA
1 TTTA
43622618 TTTTTATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (10 bp):
TTTAATAATT
Found at i:43627031 original size:61 final size:60
Alignment explanation
Indices: 43626947--43627101 Score: 204
Period size: 61 Copynumber: 2.6 Consensus size: 60
43626937 AAATTGACAC
* * **
43626947 TTTTTTTCTAATTTGGTATCTAAACATTTTTTT-GACCCAATTCGGTATTTGAACTTAACA
1 TTTTTTTCTAATTTGGTACCTAAAC-TTTTTTTAGACCCAATTCAGTACCTGAACTTAACA
* * *
43627007 TTTTTTTCTTTATTTGGTACCTAAACTTTTTTTAGACCCAATTTAGTACCTGAACTTGACA
1 TTTTTTTC-TAATTTGGTACCTAAACTTTTTTTAGACCCAATTCAGTACCTGAACTTAACA
* *
43627068 TTTTTTTCTAATTTGATACCTAACCTTTTTTTAG
1 TTTTTTTCTAATTTGGTACCTAAACTTTTTTTAG
43627102 GTTTAATTTT
Statistics
Matches: 83, Mismatches: 10, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
60 38 0.46
61 45 0.54
ACGTcount: A:0.25, C:0.16, G:0.09, T:0.50
Consensus pattern (60 bp):
TTTTTTTCTAATTTGGTACCTAAACTTTTTTTAGACCCAATTCAGTACCTGAACTTAACA
Found at i:43627772 original size:19 final size:18
Alignment explanation
Indices: 43627748--43627783 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
43627738 TTTTAAAAAA
43627748 TATATTGTAAAAATATTCT
1 TATATT-TAAAAATATTCT
*
43627767 TATATTTTAAAATATTC
1 TATATTTAAAAATATTC
43627784 AAAGTTTAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.42, C:0.06, G:0.03, T:0.50
Consensus pattern (18 bp):
TATATTTAAAAATATTCT
Found at i:43635979 original size:44 final size:44
Alignment explanation
Indices: 43635930--43636106 Score: 354
Period size: 44 Copynumber: 4.0 Consensus size: 44
43635920 AACACACAAG
43635930 TATGATTTATCTCGAATCTAAATAACATACATAGCAGTTAATGT
1 TATGATTTATCTCGAATCTAAATAACATACATAGCAGTTAATGT
43635974 TATGATTTATCTCGAATCTAAATAACATACATAGCAGTTAATGT
1 TATGATTTATCTCGAATCTAAATAACATACATAGCAGTTAATGT
43636018 TATGATTTATCTCGAATCTAAATAACATACATAGCAGTTAATGT
1 TATGATTTATCTCGAATCTAAATAACATACATAGCAGTTAATGT
43636062 TATGATTTATCTCGAATCTAAATAACATACATAGCAGTTAATGT
1 TATGATTTATCTCGAATCTAAATAACATACATAGCAGTTAATGT
43636106 T
1 T
43636107 TTTGTATATT
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
44 133 1.00
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (44 bp):
TATGATTTATCTCGAATCTAAATAACATACATAGCAGTTAATGT
Found at i:43642002 original size:2 final size:2
Alignment explanation
Indices: 43641995--43642022 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
43641985 GGAAGTGAGA
43641995 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
43642023 TGTTTTACTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:43651025 original size:3 final size:3
Alignment explanation
Indices: 43651017--43651046 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
43651007 CTTTGTTTTC
*
43651017 GAT GAT GAT GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
43651047 CTAGATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.37, C:0.00, G:0.33, T:0.30
Consensus pattern (3 bp):
GAT
Found at i:43653397 original size:19 final size:19
Alignment explanation
Indices: 43653373--43653436 Score: 85
Period size: 19 Copynumber: 3.4 Consensus size: 19
43653363 ATTAAAATAG
43653373 TTTAATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
* *
43653392 TTTAATGTAATAA-ACTAT
1 TTTAATTTAATAACTCTAT
* *
43653410 TCTCATTTAATAACTCTAT
1 TTTAATTTAATAACTCTAT
43653429 TTTAATTT
1 TTTAATTT
43653437 TTCAGTAAAT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
18 14 0.39
19 22 0.61
ACGTcount: A:0.36, C:0.11, G:0.02, T:0.52
Consensus pattern (19 bp):
TTTAATTTAATAACTCTAT
Found at i:43653496 original size:37 final size:37
Alignment explanation
Indices: 43653455--43653548 Score: 161
Period size: 37 Copynumber: 2.5 Consensus size: 37
43653445 ATTTTATATT
*
43653455 TTAAATGAAAATAGAGTTATGAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATGAAATGAGAATAGTTTA
*
43653492 TTAAATTAAAATAGAGTTATTAAATGAGAATAGTTTA
1 TTAAATTAAAATAGAGTTATGAAATGAGAATAGTTTA
*
43653529 TTAAATTAAAATGGAGTTAT
1 TTAAATTAAAATAGAGTTAT
43653549 CACTTAATTA
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 54 1.00
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (37 bp):
TTAAATTAAAATAGAGTTATGAAATGAGAATAGTTTA
Found at i:43653497 original size:18 final size:19
Alignment explanation
Indices: 43653455--43653548 Score: 102
Period size: 19 Copynumber: 5.1 Consensus size: 19
43653445 ATTTTATATT
43653455 TTAAATGAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* * *
43653474 TGAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
*
43653492 TTAAATTAAAATAGAGTTA
1 TTAAATGAAAATAGAGTTA
* *
43653511 TTAAATGAGAATAG-TTTA
1 TTAAATGAAAATAGAGTTA
* *
43653529 TTAAATTAAAATGGAGTTA
1 TTAAATGAAAATAGAGTTA
43653548 T
1 T
43653549 CACTTAATTA
Statistics
Matches: 59, Mismatches: 14, Indels: 4
0.77 0.18 0.05
Matches are distributed among these distances:
18 28 0.47
19 31 0.53
ACGTcount: A:0.48, C:0.00, G:0.16, T:0.36
Consensus pattern (19 bp):
TTAAATGAAAATAGAGTTA
Found at i:43656648 original size:3 final size:3
Alignment explanation
Indices: 43656640--43656678 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
43656630 TTTACCTGTG
43656640 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
43656679 AACTGAGATG
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:43667444 original size:150 final size:149
Alignment explanation
Indices: 43667204--43667504 Score: 575
Period size: 150 Copynumber: 2.0 Consensus size: 149
43667194 TAATAAAGTT
43667204 AATTTCAGTTAATTTTTACAACTATTTAAAAATGATTTAATAAATAATATAAATTTAAAAAGTAA
1 AATTTCAGTTAATTTTTACAACTATTTAAAAATGATTTAATAAATAATATAAATTTAAAAAGTAA
43667269 AAAAATACAAAATACAAAAAAAAAAAAAGTTAAAATTGAATGGGAAAATAAATCATTGAAATTTG
66 AAAAATACAAAATAC-AAAAAAAAAAAAGTTAAAATTGAATGGGAAAATAAATCATTGAAATTTG
43667334 AATAAGAAGAAAAGGTTGCC
130 AATAAGAAGAAAAGGTTGCC
43667354 AATTTCAGTTAATTTTTACAACTATTTAAAAATGATTTAATAAATAATATAAATTTAAAAAGTAA
1 AATTTCAGTTAATTTTTACAACTATTTAAAAATGATTTAATAAATAATATAAATTTAAAAAGTAA
*
43667419 AAAAATACAAAATACAAAAAAAAAAAAGTTAAAATTGAATGGTAAAATAAATCATTGAAATTTGA
66 AAAAATACAAAATACAAAAAAAAAAAAGTTAAAATTGAATGGGAAAATAAATCATTGAAATTTGA
*
43667484 ATAAGTAGAAAAGGTTGCC
131 ATAAGAAGAAAAGGTTGCC
43667503 AA
1 AA
43667505 CGATGTGGAT
Statistics
Matches: 149, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
149 69 0.46
150 80 0.54
ACGTcount: A:0.56, C:0.05, G:0.10, T:0.29
Consensus pattern (149 bp):
AATTTCAGTTAATTTTTACAACTATTTAAAAATGATTTAATAAATAATATAAATTTAAAAAGTAA
AAAAATACAAAATACAAAAAAAAAAAAGTTAAAATTGAATGGGAAAATAAATCATTGAAATTTGA
ATAAGAAGAAAAGGTTGCC
Found at i:43674492 original size:19 final size:18
Alignment explanation
Indices: 43674448--43674497 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
43674438 TTTAATTCTA
*
43674448 ATATTTTTAAAATTTTAT
1 ATATTTTAAAAATTTTAT
*
43674466 -TATATTAAAAATATTTAT
1 ATATTTTAAAAAT-TTTAT
43674484 ATATTTTAACAAAT
1 ATATTTTAA-AAAT
43674498 CTAATCAAAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 10 0.38
18 5 0.19
19 7 0.27
20 4 0.15
ACGTcount: A:0.46, C:0.02, G:0.00, T:0.52
Consensus pattern (18 bp):
ATATTTTAAAAATTTTAT
Found at i:43675988 original size:20 final size:18
Alignment explanation
Indices: 43675931--43675990 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 18
43675921 AAATGTTGTT
*
43675931 TTTAATAATTTCTTATAAA
1 TTTAATAATTTTTTAT-AA
*
43675950 TTTAATAATTTTTAAATAA
1 TTTAATAATTTTT-TATAA
43675969 TTTATATAATGTTTTTATAA
1 TTTA-ATAAT-TTTTTATAA
43675989 TT
1 TT
43675991 ATTTAAAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 18 0.51
20 13 0.37
21 4 0.11
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (18 bp):
TTTAATAATTTTTTATAA
Found at i:43681812 original size:21 final size:20
Alignment explanation
Indices: 43681788--43681827 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
43681778 TTGAACACGA
43681788 AAATACTATGAATTATTTATT
1 AAATACTATGAATT-TTTATT
* *
43681809 AAATATTATGTATTTTTAT
1 AAATACTATGAATTTTTAT
43681828 CAAAAAAAGC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.53
Consensus pattern (20 bp):
AAATACTATGAATTTTTATT
Found at i:43688252 original size:3 final size:3
Alignment explanation
Indices: 43688244--43688282 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
43688234 TTCTTATAAC
43688244 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
43688283 TTCAAATAAC
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:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:43689529 original size:6 final size:6
Alignment explanation
Indices: 43689520--43689545 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
43689510 TATTTTATTT
43689520 AATATA AATATA AATATA AATATA AA
1 AATATA AATATA AATATA AATATA AA
43689546 ATTTAAGTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (6 bp):
AATATA
Found at i:43696028 original size:17 final size:17
Alignment explanation
Indices: 43696008--43696058 Score: 52
Period size: 17 Copynumber: 3.1 Consensus size: 17
43695998 TTAAACCGAG
43696008 ATACCTATTAAAACTTA
1 ATACCTATTAAAACTTA
* *
43696025 ATA-CTCTTAAAAGCTCA
1 ATACCTATTAAAA-CTTA
*
43696042 A-ACCTATTAAAATTTA
1 ATACCTATTAAAACTTA
43696058 A
1 A
43696059 AACCCAATAA
Statistics
Matches: 27, Mismatches: 5, Indels: 5
0.73 0.14 0.14
Matches are distributed among these distances:
16 12 0.44
17 15 0.56
ACGTcount: A:0.47, C:0.18, G:0.02, T:0.33
Consensus pattern (17 bp):
ATACCTATTAAAACTTA
Found at i:43712987 original size:20 final size:21
Alignment explanation
Indices: 43712944--43712987 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
43712934 AGTTAACATA
*
43712944 AAAATATCAAATAATTAATTT
1 AAAATATCAAATAATTAATAT
* *
43712965 AAAATATTAAA-AATTTATAT
1 AAAATATCAAATAATTAATAT
43712985 AAA
1 AAA
43712988 TCGATATGCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
20 10 0.50
21 10 0.50
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (21 bp):
AAAATATCAAATAATTAATAT
Found at i:43723289 original size:21 final size:21
Alignment explanation
Indices: 43723263--43723333 Score: 106
Period size: 21 Copynumber: 3.4 Consensus size: 21
43723253 TTTTGCTCTG
*
43723263 CTCTGCTTCTCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
43723284 CTCTGCTTCCCTCGCTGCAGC
1 CTCTGCTTCCCTCGCTGCAGC
* * *
43723305 CGCTACTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCAGC
43723326 CTCTGCTT
1 CTCTGCTT
43723334 TAAGTTGTAG
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 44 1.00
ACGTcount: A:0.04, C:0.46, G:0.18, T:0.31
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCAGC
Found at i:43725602 original size:18 final size:19
Alignment explanation
Indices: 43725560--43725603 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
43725550 CAGAAAATAA
*
43725560 AGAAACATAAAAATGGTAC
1 AGAAACATAAAAATGCTAC
* *
43725579 AGAAACAT-AACATGCTAG
1 AGAAACATAAAAATGCTAC
43725597 AGAAACA
1 AGAAACA
43725604 GAAATTTCTG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
18 14 0.64
19 8 0.36
ACGTcount: A:0.57, C:0.14, G:0.16, T:0.14
Consensus pattern (19 bp):
AGAAACATAAAAATGCTAC
Found at i:43727137 original size:198 final size:198
Alignment explanation
Indices: 43726799--43727224 Score: 730
Period size: 198 Copynumber: 2.2 Consensus size: 198
43726789 TAATTAACCC
* *
43726799 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTTCCGATCAGT
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGA
* *
43726864 TAACTCAAACTCATGGCGTTTTAGAAAAAACGGCATCGTCTCCATAAAAATTAAAATATTTTTGC
66 TAACTCAAACTCATGGCGTTTTAGAAAAAACGACATCGTCTCCATAAAAATTAAAACATTTTTGC
43726929 GGCGTTTACTAAAAGCGCCACTAAAAG-TAAATAAGAAAAC-GAAGCCGTTTTCCTAAACAATTT
131 GGCGTTTACTAAAAGCGCCACT-AAAGTTAAATAAGAAAACAG-AGCCGTTTTCCTAAACAATTT
*
43726992 CTGTA
194 ATGTA
43726997 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGA
1 ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGA
*
43727062 TAACTCAAACTCATGGCGTTTTAGAGAAAACGACATCGTCTCCATAAAAATTAAAACATTTTTGC
66 TAACTCAAACTCATGGCGTTTTAGAAAAAACGACATCGTCTCCATAAAAATTAAAACATTTTTGC
43727127 GGCGTTTACTAAAAGCGCCACTAAAGTTAAATAAGAAAACAGAGCCGTTTTCCTAAACAATTTAT
131 GGCGTTTACTAAAAGCGCCACTAAAGTTAAATAAGAAAACAGAGCCGTTTTCCTAAACAATTTAT
43727192 GTA
196 GTA
* * **
43727195 AATTGCGGCGTTTATACATAAGCGCCACTA
1 ATTTGCGGCGTTTATATACCAGCGCCACTA
43727225 AATATTGGCC
Statistics
Matches: 216, Mismatches: 10, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
197 4 0.02
198 211 0.98
199 1 0.00
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (198 bp):
ATTTGCGGCGTTTATATACCAGCGCCACTAGTAATATGATCAAACGCTGTCGTTTCCCGATCAGA
TAACTCAAACTCATGGCGTTTTAGAAAAAACGACATCGTCTCCATAAAAATTAAAACATTTTTGC
GGCGTTTACTAAAAGCGCCACTAAAGTTAAATAAGAAAACAGAGCCGTTTTCCTAAACAATTTAT
GTA
Found at i:43727672 original size:46 final size:46
Alignment explanation
Indices: 43727583--43727673 Score: 119
Period size: 47 Copynumber: 2.0 Consensus size: 46
43727573 GTTAATTTCG
* **
43727583 GTAATATTTAAAAAATTAGATAAAATTATCAATCTCAGTTTTTTAA
1 GTAATATTTAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
* * *
43727629 GTAATATTTATAAAAATTAGGTAAAAATAAAAATTTTAGTTTTTT
1 GTAATATTTA-AAAAATTAGATAAAAATAAAAATCTCAGTTTTTT
43727674 TATTTCTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
46 10 0.26
47 28 0.74
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (46 bp):
GTAATATTTAAAAAATTAGATAAAAATAAAAATCTCAGTTTTTTAA
Found at i:43727684 original size:19 final size:19
Alignment explanation
Indices: 43727661--43727710 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
43727651 AAAAATAAAA
43727661 ATTTTAGTTTTTTTA-TTTC
1 ATTTTA-TTTTTTTATTTTC
*
43727680 -TTTTTTATTTTTTATTTTC
1 ATTTTAT-TTTTTTATTTTC
43727699 ATTTTATTTTTT
1 ATTTTATTTTTT
43727711 GTAATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
17 1 0.04
18 11 0.42
19 9 0.35
20 5 0.19
ACGTcount: A:0.14, C:0.04, G:0.02, T:0.80
Consensus pattern (19 bp):
ATTTTATTTTTTTATTTTC
Found at i:43728010 original size:7 final size:7
Alignment explanation
Indices: 43727998--43728059 Score: 72
Period size: 7 Copynumber: 8.9 Consensus size: 7
43727988 ATAGCCCAAT
43727998 CCCTAAC
1 CCCTAAC
43728005 CCCTAAC
1 CCCTAAC
43728012 CCCTAA-
1 CCCTAAC
43728018 CCCTAAAC
1 CCCT-AAC
*
43728026 CCTTAAC
1 CCCTAAC
* *
43728033 CCATGAC
1 CCCTAAC
*
43728040 CTCTAAC
1 CCCTAAC
43728047 CCCTAAC
1 CCCTAAC
43728054 CCCTAA
1 CCCTAA
43728060 ATCTTATTTA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
6 4 0.09
7 39 0.85
8 3 0.07
ACGTcount: A:0.31, C:0.50, G:0.02, T:0.18
Consensus pattern (7 bp):
CCCTAAC
Found at i:43728012 original size:95 final size:95
Alignment explanation
Indices: 43727844--43728028 Score: 221
Period size: 95 Copynumber: 1.9 Consensus size: 95
43727834 TATAAAGAAC
* * * * * * *
43727844 TTATTTAATATGTTAATTAAAAAGTACTAATTAATCCAAATCTTAATCCCTAACCCGACTCCAAA
1 TTATTTAATATATAAATTAAAAAGCACTAATTAATCCAAACCTTAAACCATAACCCAACTCCAAA
* *
43727909 TCCATAACCCCTAACCCCTAACCCCTAAACT
66 CCCATAACCCCTAA-CCCTAAACCCTAAACT
* * *
43727940 TTATTTAATATATAAATTAAAAA-CACTAATTAATCTAAACCTTAAACCATAGCCCAA-TCCCTA
1 TTATTTAATATATAAATTAAAAAGCACTAATTAATCCAAACCTTAAACCATAACCCAACT-CCAA
*
43728003 ACCCCTAACCCCTAACCCTAAACCCT
65 ACCCATAACCCCTAACCCTAAACCCT
43728029 TAACCCATGA
Statistics
Matches: 75, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
94 11 0.15
95 43 0.57
96 21 0.28
ACGTcount: A:0.40, C:0.30, G:0.02, T:0.28
Consensus pattern (95 bp):
TTATTTAATATATAAATTAAAAAGCACTAATTAATCCAAACCTTAAACCATAACCCAACTCCAAA
CCCATAACCCCTAACCCTAAACCCTAAACT
Found at i:43728181 original size:7 final size:7
Alignment explanation
Indices: 43728171--43728205 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
43728161 AACCCCTAAA
43728171 CTAACCC
1 CTAACCC
43728178 CTAACCC
1 CTAACCC
*
43728185 CTAACAC
1 CTAACCC
*
43728192 ATAACCC
1 CTAACCC
43728199 CTAACCC
1 CTAACCC
43728206 ATAAACCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.34, C:0.51, G:0.00, T:0.14
Consensus pattern (7 bp):
CTAACCC
Found at i:43728196 original size:14 final size:14
Alignment explanation
Indices: 43728179--43728209 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
43728169 AACTAACCCC
43728179 TAACCCCTAACACA
1 TAACCCCTAACACA
*
43728193 TAACCCCTAACCCA
1 TAACCCCTAACACA
43728207 TAA
1 TAA
43728210 ACCTTAAATC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.42, C:0.42, G:0.00, T:0.16
Consensus pattern (14 bp):
TAACCCCTAACACA
Found at i:43728198 original size:21 final size:19
Alignment explanation
Indices: 43728160--43728211 Score: 77
Period size: 21 Copynumber: 2.6 Consensus size: 19
43728150 TCTTAACATT
43728160 TAACCCCTAAACTAACCCC
1 TAACCCCTAAACTAACCCC
43728179 TAACCCCTAACACATAACCCC
1 TAACCCCTAA-AC-TAACCCC
*
43728200 TAACCCATAAAC
1 TAACCCCTAAAC
43728212 CTTAAATCAC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 10 0.33
20 4 0.13
21 16 0.53
ACGTcount: A:0.40, C:0.44, G:0.00, T:0.15
Consensus pattern (19 bp):
TAACCCCTAAACTAACCCC
Found at i:43728261 original size:14 final size:15
Alignment explanation
Indices: 43728239--43728272 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
43728229 CTTAAACCAG
*
43728239 AATCCCTAA-TCCAT
1 AATCTCTAATTCCAT
43728253 AATCTCTAATTCCAT
1 AATCTCTAATTCCAT
43728268 AATCT
1 AATCT
43728273 ATAAAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 8 0.44
15 10 0.56
ACGTcount: A:0.35, C:0.29, G:0.00, T:0.35
Consensus pattern (15 bp):
AATCTCTAATTCCAT
Found at i:43728343 original size:19 final size:20
Alignment explanation
Indices: 43728319--43728360 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
43728309 AATCCTAAAT
*
43728319 TAACCATATATA-TATACCC
1 TAACCATATATATTAAACCC
*
43728338 TAACCATATTTATTAAACCC
1 TAACCATATATATTAAACCC
43728358 TAA
1 TAA
43728361 ACTATAATGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 11 0.55
20 9 0.45
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (20 bp):
TAACCATATATATTAAACCC
Found at i:43728657 original size:114 final size:112
Alignment explanation
Indices: 43728508--43729003 Score: 480
Period size: 114 Copynumber: 4.4 Consensus size: 112
43728498 ATTTTAAATC
* *
43728508 CCTGAGTATTAGTGGCGC-TTCATAAAAACGCCACTAAATCCCCGAAAGCTAAAAAAACGGCGTC
1 CCTGAGCATTAGCGGCGCATTCATAAAAACGCCACTAAATCCCCGAAAGCT-AAAAAACGGCGTC
43728572 GTTGGGCTGAAGTATTTTTGCGGCGCATTCCAAAAAACGCCGCTAAAGA
65 GTTGGGCTGAAGTATTTTTGCGGCGC-TTCCAAAAAACGCCGCTAAAGA
* * ** *
43728621 CCTGAGCATTAGCGGCGCATACATAAAAACGCCACTAAATCCTTC-TCAGCTTAGAAAACGGCGT
1 CCTGAGCATTAGCGGCGCATTCATAAAAACGCCACTAAATCC-CCGAAAGC-TAAAAAACGGCGT
* * * * * * *
43728685 TGTTGGGCTGAAGTATTATTGTGACGCTTTCACAAAAACGCCACTAAA-T
64 CGTTGGGCTGAAGTATTTTTGCGGCGCTTCCA-AAAAACGCCGCTAAAGA
* * * * * *
43728734 CACTGAGTATTAACGGCGCTTTAATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAACGGTGT
1 C-CTGAGCATTAGCGGCGCATTCATAAAAACGCCACTAAATCCCCGAAAGCT-AAAAAACGGCGT
* *** * *
43728799 CGTTGGGTTGAAGTGCGTTTGCGGCGCTTTCCCAAAAACGCCGCTAAGGA
64 CGTTGGGCTGAAGTATTTTTGCGGCGC-TTCCAAAAAACGCCGCTAAAGA
* * * *
43728849 CCTGAGCATTAGCGGCG-ATTTCATGAAAACGCCACTAAATCCCCCGAAAGCTCAGAAACGGAGT
1 CCTGAGCATTAGCGGCGCA-TTCATAAAAACGCCACTAAAT-CCCCGAAAGCTAAAAAACGGCGT
* * ** *
43728913 CGTGGGGCTGAAGTCTTTTTGCGGCGCTTACTGAGAAACGCCGCTAAAGA
64 CGTTGGGCTGAAGTATTTTTGCGGCGCTT-CCAAAAAACGCCGCTAAAGA
* ** * * * *
43728963 -TTGATAATTGGCGGCGCTTTCATAAAATCGCAACTAAATCC
1 CCTGAGCATTAGCGGCGCATTCATAAAAACGCCACTAAATCC
43729004 TTCTCAGCTC
Statistics
Matches: 308, Mismatches: 62, Indels: 27
0.78 0.16 0.07
Matches are distributed among these distances:
112 2 0.01
113 55 0.18
114 234 0.76
115 17 0.06
ACGTcount: A:0.31, C:0.24, G:0.23, T:0.23
Consensus pattern (112 bp):
CCTGAGCATTAGCGGCGCATTCATAAAAACGCCACTAAATCCCCGAAAGCTAAAAAACGGCGTCG
TTGGGCTGAAGTATTTTTGCGGCGCTTCCAAAAAACGCCGCTAAAGA
Found at i:43728954 original size:228 final size:228
Alignment explanation
Indices: 43728502--43729003 Score: 600
Period size: 228 Copynumber: 2.2 Consensus size: 228
43728492 TAATTTATTT
* *
43728502 TAAATCCCTGAGTATTAGTGGCGC-TTCATAAAAACGCCACTAAATCCCCGAAAGCTAAAAAAAC
1 TAAATCACTGAGTATTAGCGGCGCTTTCATAAAAACGCCACTAAATCCCCGAAAGCTAAAAAAAC
**
43728566 GGCGTCGTTGGGCTGAAGTATTTTTGCGGCGCATTCCAAAAAACGCCGCTAAAGACCTGAGCATT
66 GGCGTCGTTGGGCTGAAGTACGTTTGCGGCGCATTCCAAAAAACGCCGCTAAAGACCTGAGCATT
** ** * * * *
43728631 AGCGGCGCATACATAAAAACGCCACTAAATCCTTCTCAGCTTAGAAAACGGCGTTGTTGGGCTGA
131 AGCGGCGCATACATAAAAACGCCACTAAATCCCCCAAAGCTCAGAAAACGGAGTCGTGGGGCTGA
* *
43728696 AGTATTATTGTGACGCTTTCACAAAAACGCCAC
196 AGTATTATTGCGACGCTTACACAAAAACGCCAC
* * * *
43728729 TAAATCACTGAGTATTAACGGCGCTTTAATAAAAACGCCACTAAATCCCCGAAAGCTCAGAAAAC
1 TAAATCACTGAGTATTAGCGGCGCTTTCATAAAAACGCCACTAAATCCCCGAAAGCTAAAAAAAC
* * * * * *
43728794 GGTGTCGTTGGGTTGAAGTGCGTTTGCGGCGCTTTCCCAAAAACGCCGCTAAGGACCTGAGCATT
66 GGCGTCGTTGGGCTGAAGTACGTTTGCGGCGCATTCCAAAAAACGCCGCTAAAGACCTGAGCATT
* *
43728859 AGCGGCG-ATTTCATGAAAACGCCACTAAATCCCCCGAAAGCTCAG-AAACGGAGTCGTGGGGCT
131 AGCGGCGCA-TACATAAAAACGCCACTAAATCCCCC-AAAGCTCAGAAAACGGAGTCGTGGGGCT
* * * ** * *
43728922 GAAGTCTTTTTGCGGCGCTTACTGAGAAACGCCGC
194 GAAGTATTATTGCGACGCTTACACAAAAACGCCAC
* * * * *
43728957 TAAA-GATTGA-TAATTGGCGGCGCTTTCATAAAATCGCAACTAAATCC
1 TAAATCACTGAGT-ATTAGCGGCGCTTTCATAAAAACGCCACTAAATCC
43729004 TTCTCAGCTC
Statistics
Matches: 231, Mismatches: 40, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
226 1 0.00
227 56 0.24
228 168 0.73
229 6 0.03
ACGTcount: A:0.31, C:0.24, G:0.22, T:0.23
Consensus pattern (228 bp):
TAAATCACTGAGTATTAGCGGCGCTTTCATAAAAACGCCACTAAATCCCCGAAAGCTAAAAAAAC
GGCGTCGTTGGGCTGAAGTACGTTTGCGGCGCATTCCAAAAAACGCCGCTAAAGACCTGAGCATT
AGCGGCGCATACATAAAAACGCCACTAAATCCCCCAAAGCTCAGAAAACGGAGTCGTGGGGCTGA
AGTATTATTGCGACGCTTACACAAAAACGCCAC
Found at i:43733358 original size:63 final size:64
Alignment explanation
Indices: 43733244--43733378 Score: 164
Period size: 63 Copynumber: 2.1 Consensus size: 64
43733234 TTCTAAATAT
* * * ** * *
43733244 AAAAAATTCAATAAATTTAGCCCTCAATATTTATAAAAATTATCATTTTAGTTCTAA-TTTAAA
1 AAAAAAATCAATAAATTTAGCCATCAACATTTATAAAAATTATCAACTTAGTCCTAACTATAAA
* * *
43733307 AAAAAAATCAATAAATTTAGTCATCAACATTTATAAAATTTGTCAACTTAGTCCTAACTATAAA
1 AAAAAAATCAATAAATTTAGCCATCAACATTTATAAAAATTATCAACTTAGTCCTAACTATAAA
43733371 AATAAAAA
1 AA-AAAAA
43733379 AAATTTAAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
63 48 0.80
64 7 0.12
65 5 0.08
ACGTcount: A:0.50, C:0.12, G:0.04, T:0.35
Consensus pattern (64 bp):
AAAAAAATCAATAAATTTAGCCATCAACATTTATAAAAATTATCAACTTAGTCCTAACTATAAA
Found at i:43740983 original size:3 final size:3
Alignment explanation
Indices: 43740975--43741002 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
43740965 TATACTTCAG
43740975 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT T
43741003 TTTTCATGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TCT
Found at i:43759412 original size:48 final size:47
Alignment explanation
Indices: 43759360--43759451 Score: 123
Period size: 47 Copynumber: 1.9 Consensus size: 47
43759350 AACATACCCT
*
43759360 AATCCAACCGAATATGA-AGGAAAAATCGTTAGATTTAATTAATATTCC
1 AATCCAACCGAAAATGAGA-G-AAAATCGTTAGATTTAATTAATATTCC
* * *
43759408 AATCCAACCTAAAATGAGAGAAAATGGTTGGATTTAATTAATAT
1 AATCCAACCGAAAATGAGAGAAAATCGTTAGATTTAATTAATAT
43759452 ACTAAAGCCG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
47 22 0.56
48 16 0.41
49 1 0.03
ACGTcount: A:0.45, C:0.12, G:0.14, T:0.29
Consensus pattern (47 bp):
AATCCAACCGAAAATGAGAGAAAATCGTTAGATTTAATTAATATTCC
Found at i:43763022 original size:21 final size:21
Alignment explanation
Indices: 43762996--43763036 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
43762986 TTACCGATTG
43762996 AAGAAAAAGGAAATTATAATT
1 AAGAAAAAGGAAATTATAATT
*
43763017 AAGAAAAGGGAAATTATAAT
1 AAGAAAAAGGAAATTATAAT
43763037 GTAATCTTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.00, G:0.17, T:0.22
Consensus pattern (21 bp):
AAGAAAAAGGAAATTATAATT
Found at i:43769094 original size:5 final size:5
Alignment explanation
Indices: 43769076--43769112 Score: 60
Period size: 5 Copynumber: 7.8 Consensus size: 5
43769066 AACCAAAGAT
43769076 TAAA- TAAA- TAAAC TAAAC TAAAC TAAAC TAAAC TAAA
1 TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAAC TAAA
43769113 GAACATTCAA
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
4 8 0.25
5 24 0.75
ACGTcount: A:0.65, C:0.14, G:0.00, T:0.22
Consensus pattern (5 bp):
TAAAC
Found at i:43769522 original size:13 final size:13
Alignment explanation
Indices: 43769504--43769532 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
43769494 CAAGGCAACA
43769504 ATTATATATATAT
1 ATTATATATATAT
43769517 ATTATATATATAT
1 ATTATATATATAT
43769530 ATT
1 ATT
43769533 TGGGTTATGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (13 bp):
ATTATATATATAT
Found at i:43775018 original size:21 final size:20
Alignment explanation
Indices: 43774992--43775031 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
43774982 GACCACTTCA
43774992 TAAGTGACTAAAACGATAACG
1 TAAGTGACTAAAACG-TAACG
43775013 TAAGTGACTAAAACGTAAC
1 TAAGTGACTAAAACGTAAC
43775032 ATTTCAAACA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.47, C:0.15, G:0.17, T:0.20
Consensus pattern (20 bp):
TAAGTGACTAAAACGTAACG
Found at i:43786503 original size:29 final size:29
Alignment explanation
Indices: 43786453--43786512 Score: 77
Period size: 28 Copynumber: 2.1 Consensus size: 29
43786443 TTTAAAATTT
*
43786453 AAAAACTATTAAAAATCATAAAATTTATAA
1 AAAAACTATTAAAAATCAT-AAACTTATAA
**
43786483 AAAAACTA-TAAAAATTTTAAACTTATAA
1 AAAAACTATTAAAAATCATAAACTTATAA
43786511 AA
1 AA
43786513 TTTTTATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
28 11 0.41
29 8 0.30
30 8 0.30
ACGTcount: A:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (29 bp):
AAAAACTATTAAAAATCATAAACTTATAA
Found at i:43786511 original size:17 final size:16
Alignment explanation
Indices: 43786485--43786518 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
43786475 ATTTATAAAA
43786485 AAACTATAAAAATTTT
1 AAACTATAAAAATTTT
*
43786501 AAACTTATAAAATTTTT
1 AAAC-TATAAAAATTTT
43786518 A
1 A
43786519 TTAAAAAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 4 0.25
17 12 0.75
ACGTcount: A:0.53, C:0.06, G:0.00, T:0.41
Consensus pattern (16 bp):
AAACTATAAAAATTTT
Found at i:43788224 original size:33 final size:33
Alignment explanation
Indices: 43788168--43788257 Score: 126
Period size: 33 Copynumber: 2.7 Consensus size: 33
43788158 ACATTCGTAG
* *
43788168 TGCCATAACCCAGTTATGGTCTTATCATCAGAA
1 TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
* * *
43788201 TGCCATAGCCCAACTATGATCTTATCATCATAA
1 TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
*
43788234 TGCCATAGCCTAGCTATGGTCTTA
1 TGCCATAGCCCAGCTATGGTCTTA
43788258 CATATAAACA
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 49 1.00
ACGTcount: A:0.29, C:0.26, G:0.14, T:0.31
Consensus pattern (33 bp):
TGCCATAGCCCAGCTATGGTCTTATCATCAGAA
Found at i:43797893 original size:18 final size:17
Alignment explanation
Indices: 43797840--43797882 Score: 68
Period size: 17 Copynumber: 2.5 Consensus size: 17
43797830 AGTACTTGAA
* *
43797840 TTTTCATCTTTAAAATT
1 TTTTCATCCTTCAAATT
43797857 TTTTCATCCTTCAAATT
1 TTTTCATCCTTCAAATT
43797874 TTTTCATCC
1 TTTTCATCC
43797883 ACTTTAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.23, C:0.21, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTCATCCTTCAAATT
Found at i:43799478 original size:57 final size:57
Alignment explanation
Indices: 43799365--43799479 Score: 176
Period size: 57 Copynumber: 2.0 Consensus size: 57
43799355 TATTTGTTTA
* * **
43799365 TTATTTGTGTTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAATGTTTTT
1 TTATTTGTGTTATAATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTT
* *
43799422 TTATTTGTTTTATTATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTT
1 TTATTTGTGTTATAATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTT
43799479 T
1 T
43799480 AAAATCATAT
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
57 52 1.00
ACGTcount: A:0.29, C:0.03, G:0.05, T:0.63
Consensus pattern (57 bp):
TTATTTGTGTTATAATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTT
Found at i:43799499 original size:57 final size:57
Alignment explanation
Indices: 43799374--43799502 Score: 145
Period size: 57 Copynumber: 2.3 Consensus size: 57
43799364 ATTATTTGTG
* * * ** * * **
43799374 TTATAATATTTTAAATGTTTTATAATATTTGTTTATTCAAATGTTTTTTTATTTGTT
1 TTATTATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTTTAAATCATT
43799431 TTATTATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTTTAAAATCATAT
1 TTATTATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTTT-AAATCAT-T
43799490 TTA-TA-ATTTTAAA
1 TTATTATATTTTAAA
43799503 ATACGTAAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
57 52 0.85
58 5 0.08
59 4 0.07
ACGTcount: A:0.34, C:0.04, G:0.03, T:0.59
Consensus pattern (57 bp):
TTATTATATTTTAAATATTTTATAATATTTATTTATTCAAACCTTTTTTAAATCATT
Found at i:43803240 original size:44 final size:44
Alignment explanation
Indices: 43803191--43803292 Score: 150
Period size: 44 Copynumber: 2.3 Consensus size: 44
43803181 AATGCGAGCA
* * *
43803191 AGTCTAAATGCAAGCTCGAATGGATGCAAGTCGAAGTGGCGGAC
1 AGTCTAAATGCAAGCCCGAATGGATGCAAGCCGAAGTGGCGAAC
* * *
43803235 TGTCTAAATGCAAGCCCGAGTGGATGCAAGCCGAAGTGGTGAAC
1 AGTCTAAATGCAAGCCCGAATGGATGCAAGCCGAAGTGGCGAAC
43803279 AGTCTAAATGCAAG
1 AGTCTAAATGCAAG
43803293 GTGAGTGGTG
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 51 1.00
ACGTcount: A:0.32, C:0.19, G:0.30, T:0.19
Consensus pattern (44 bp):
AGTCTAAATGCAAGCCCGAATGGATGCAAGCCGAAGTGGCGAAC
Found at i:43813632 original size:6 final size:6
Alignment explanation
Indices: 43813621--43813652 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
43813611 CAAATAGACT
43813621 TCACCA TCACCA TCACCA TCACCA TCACCA TC
1 TCACCA TCACCA TCACCA TCACCA TCACCA TC
43813653 TCCCTCAAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.31, C:0.50, G:0.00, T:0.19
Consensus pattern (6 bp):
TCACCA
Found at i:43815885 original size:2 final size:2
Alignment explanation
Indices: 43815878--43815902 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
43815868 CACTTTGGTC
43815878 CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT C
43815903 AAACACGAAC
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:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:43826520 original size:5 final size:5
Alignment explanation
Indices: 43826510--43826536 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
43826500 ATTATGGGCG
43826510 GTGGA GTGGA GTGGA GTGGA GTGGA GT
1 GTGGA GTGGA GTGGA GTGGA GTGGA GT
43826537 TAGTAAGGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.19, C:0.00, G:0.59, T:0.22
Consensus pattern (5 bp):
GTGGA
Found at i:43829723 original size:23 final size:21
Alignment explanation
Indices: 43829673--43829723 Score: 50
Period size: 23 Copynumber: 2.3 Consensus size: 21
43829663 TTTACAAAAA
43829673 ATGAATTTTTTTTTAATTTGT
1 ATGAATTTTTTTTTAATTTGT
**
43829694 AACAATTTTATCTTTTAACTTTG-
1 ATGAATTTT-T-TTTTAA-TTTGT
43829717 ATGAATT
1 ATGAATT
43829724 AATTCAATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 4
0.74 0.13 0.13
Matches are distributed among these distances:
21 7 0.30
22 1 0.04
23 11 0.48
24 4 0.17
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (21 bp):
ATGAATTTTTTTTTAATTTGT
Found at i:43840515 original size:13 final size:15
Alignment explanation
Indices: 43840487--43840515 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
43840477 AATCAGAAGT
43840487 AATATATAAATAAAA
1 AATATATAAATAAAA
43840502 AATAT-TAAATAAAA
1 AATATATAAATAAAA
43840516 TATAATGATT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AATATATAAATAAAA
Found at i:43851364 original size:78 final size:78
Alignment explanation
Indices: 43851270--43851425 Score: 312
Period size: 78 Copynumber: 2.0 Consensus size: 78
43851260 TATATATCTG
43851270 TATCCTTGTGATTTGTAAGTGATTTCATCAGTTCTTTATTTTAGTCAGTGGTGTCACCGATTAAA
1 TATCCTTGTGATTTGTAAGTGATTTCATCAGTTCTTTATTTTAGTCAGTGGTGTCACCGATTAAA
43851335 GCTCAACATTTTC
66 GCTCAACATTTTC
43851348 TATCCTTGTGATTTGTAAGTGATTTCATCAGTTCTTTATTTTAGTCAGTGGTGTCACCGATTAAA
1 TATCCTTGTGATTTGTAAGTGATTTCATCAGTTCTTTATTTTAGTCAGTGGTGTCACCGATTAAA
43851413 GCTCAACATTTTC
66 GCTCAACATTTTC
43851426 GTTGATTTTC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
78 78 1.00
ACGTcount: A:0.23, C:0.17, G:0.17, T:0.44
Consensus pattern (78 bp):
TATCCTTGTGATTTGTAAGTGATTTCATCAGTTCTTTATTTTAGTCAGTGGTGTCACCGATTAAA
GCTCAACATTTTC
Found at i:43857594 original size:13 final size:15
Alignment explanation
Indices: 43857576--43857607 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
43857566 GAGCAACTTT
43857576 AAAATTT-A-AAATA
1 AAAATTTAATAAATA
43857589 AAAATTTAATAAATA
1 AAAATTTAATAAATA
43857604 AAAA
1 AAAA
43857608 AAAGTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 7 0.41
14 1 0.06
15 9 0.53
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (15 bp):
AAAATTTAATAAATA
Found at i:43859410 original size:29 final size:31
Alignment explanation
Indices: 43859357--43859419 Score: 94
Period size: 29 Copynumber: 2.1 Consensus size: 31
43859347 GTCTACAAAC
* *
43859357 TTAGGTGACAGAATATAAGTTTAAGTACCAA
1 TTAGGTGACAAAAAATAAGTTTAAGTACCAA
43859388 TTAGGT-ACAAAAAATAA-TTTAAGTACCAA
1 TTAGGTGACAAAAAATAAGTTTAAGTACCAA
43859417 TTA
1 TTA
43859420 AATAAAGTTC
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 15 0.50
30 9 0.30
31 6 0.20
ACGTcount: A:0.46, C:0.10, G:0.14, T:0.30
Consensus pattern (31 bp):
TTAGGTGACAAAAAATAAGTTTAAGTACCAA
Found at i:43860710 original size:105 final size:105
Alignment explanation
Indices: 43860517--43860713 Score: 238
Period size: 105 Copynumber: 1.9 Consensus size: 105
43860507 AGTGTTTAAA
** * **
43860517 TGTAAGACCATAGCTGGGTTATGGCATTTTAATGAAAAGACCATAACTGGGTTATGACACATTGA
1 TGTAAGACCATAGCTGGACTATGGCATTCTAATGAAAAGACCATAACTGGGTTATGACACATACA
*
43860582 ACATAAGACCATGGTTAGACCATGGCAGAATAGATACATG
66 ACATAAGACCATGGTGAGACCATGGCAGAATAGATACATG
* ** * *
43860622 TGTAAGACCATAGCTGGACTATGGCATTCTGATGATCAGATCATAACTGGGTTATGATAC-TACA
1 TGTAAGACCATAGCTGGACTATGGCATTCTAATGAAAAGACCATAACTGGGTTATGACACATACA
*
43860686 A-ATGTAAGACCATGG-GAGGGCCATGGCA
66 ACA--TAAGACCATGGTGA-GACCATGGCA
43860714 ATGCATGTGT
Statistics
Matches: 77, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
103 1 0.01
104 4 0.05
105 72 0.94
ACGTcount: A:0.34, C:0.16, G:0.24, T:0.25
Consensus pattern (105 bp):
TGTAAGACCATAGCTGGACTATGGCATTCTAATGAAAAGACCATAACTGGGTTATGACACATACA
ACATAAGACCATGGTGAGACCATGGCAGAATAGATACATG
Found at i:43863577 original size:25 final size:23
Alignment explanation
Indices: 43863548--43863599 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
43863538 TGTTATCTTC
*
43863548 TTCTTACTATTATTTTTCCTTTTAT
1 TTCTTACTATT-TCTTTCCTTTT-T
* *
43863573 TTCTTCCTGTTTCTTTCCTTTTT
1 TTCTTACTATTTCTTTCCTTTTT
43863596 TTCT
1 TTCT
43863600 CCTTCATTCT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.21
24 10 0.42
25 9 0.38
ACGTcount: A:0.08, C:0.21, G:0.02, T:0.69
Consensus pattern (23 bp):
TTCTTACTATTTCTTTCCTTTTT
Found at i:43865339 original size:15 final size:15
Alignment explanation
Indices: 43865333--43865367 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
43865323 TATATTTTAG
43865333 TTTTATAATTTTATA
1 TTTTATAATTTTATA
*
43865348 TTTTATAATTTAAT-
1 TTTTATAATTTTATA
43865362 TTTTAT
1 TTTTAT
43865368 TTCATAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (15 bp):
TTTTATAATTTTATA
Found at i:43865428 original size:18 final size:19
Alignment explanation
Indices: 43865393--43865428 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
43865383 TGAGTTGTTT
*
43865393 TTTTATAATTTTTAAAATA
1 TTTTATAATTTATAAAATA
43865412 TTTTATAA-TTATAAAAT
1 TTTTATAATTTATAAAAT
43865429 TTTAAACATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (19 bp):
TTTTATAATTTATAAAATA
Found at i:43865821 original size:24 final size:24
Alignment explanation
Indices: 43865769--43865821 Score: 58
Period size: 24 Copynumber: 2.2 Consensus size: 24
43865759 CAACCCTGTC
43865769 TTTATAAATATAAAATATTAAAAAA
1 TTTA-AAATATAAAATATTAAAAAA
43865794 -TTAAAATTATAAAA-A-TAAAACAA
1 TTTAAAA-TATAAAATATTAAAA-AA
43865817 TTTAA
1 TTTAA
43865822 GAACCAGCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
22 5 0.20
23 6 0.24
24 14 0.56
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (24 bp):
TTTAAAATATAAAATATTAAAAAA
Found at i:43866960 original size:16 final size:16
Alignment explanation
Indices: 43866941--43866974 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
43866931 TGCTGATATC
43866941 ATTTCAGTGTATAAAA
1 ATTTCAGTGTATAAAA
43866957 ATTTCAGTGTATAAAA
1 ATTTCAGTGTATAAAA
43866973 AT
1 AT
43866975 AATTAATGAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (16 bp):
ATTTCAGTGTATAAAA
Found at i:43879390 original size:27 final size:27
Alignment explanation
Indices: 43879326--43879396 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 27
43879316 TGTCGAGGGT
*
43879326 CTGCCATAGGCTA-CACCAAAGGTCCCA
1 CTGCCACAGGC-AGCACCAAAGGTCCCA
* * * *
43879353 GTGGCAGAGGCAGCACCAAAGGTGCCA
1 CTGCCACAGGCAGCACCAAAGGTCCCA
*
43879380 CTGCCACAGGCGGCACC
1 CTGCCACAGGCAGCACC
43879397 TGTGCCATGT
Statistics
Matches: 35, Mismatches: 8, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
26 1 0.03
27 34 0.97
ACGTcount: A:0.27, C:0.35, G:0.28, T:0.10
Consensus pattern (27 bp):
CTGCCACAGGCAGCACCAAAGGTCCCA
Found at i:43879975 original size:158 final size:157
Alignment explanation
Indices: 43879588--43879947 Score: 634
Period size: 158 Copynumber: 2.3 Consensus size: 157
43879578 TTATTTTAGT
*
43879588 TAGTATGTTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATACGAATAAATGGCCAAAATAA
1 TAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATACGAATAAATGGCCAAAATAA
* *
43879653 GGGTTTTTTACTAAATTTATATAAAAAAACACACTAAATTAATACATTTCAAACTTTATGTACTA
66 GGGTTTTTTACTAAATTTATAT-AAAAAACACACTAAAATAATACATTTCAAACATTATGTACTA
*
43879718 AAATAATATAAATAATAAAATAGGAAAA
130 AAATAATATAAATAATAAAATACGAAAA
43879746 TAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATACGAATAAATGGCCAAAATAA
1 TAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATACGAATAAATGGCCAAAATAA
*
43879811 GGGTTTTTTACTAAATTTATAT-AAAAACACACTAAAATAATATATTTCAAACATTATGTACTAA
66 GGGTTTTTTACTAAATTTATATAAAAAACACACTAAAATAATACATTTCAAACATTATGTACTAA
43879875 AATAATATAAAATAATAAAATACGAAAA
131 AATAATAT-AAATAATAAAATACGAAAA
*
43879903 TAGTAT-TTTTTTGAAAGTAATAAAATCCGAAAATAAGAAAAATAC
1 TAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATAC
43879948 ATTGAAATTA
Statistics
Matches: 195, Mismatches: 6, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
156 85 0.44
157 24 0.12
158 86 0.44
ACGTcount: A:0.53, C:0.07, G:0.09, T:0.31
Consensus pattern (157 bp):
TAGTATATTTTTTGAAAGTAATAAAATTCGAAAATAAGAAAAATACGAATAAATGGCCAAAATAA
GGGTTTTTTACTAAATTTATATAAAAAACACACTAAAATAATACATTTCAAACATTATGTACTAA
AATAATATAAATAATAAAATACGAAAA
Found at i:43880211 original size:20 final size:20
Alignment explanation
Indices: 43880177--43880214 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
43880167 AGATAATCCA
**
43880177 TTATTTTTTTTAAAAATACC
1 TTATTTTTTAAAAAAATACC
43880197 TTATTTTTTAAAAAAATA
1 TTATTTTTTAAAAAAATA
43880215 TAAAAAAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (20 bp):
TTATTTTTTAAAAAAATACC
Found at i:43884470 original size:24 final size:24
Alignment explanation
Indices: 43884443--43884496 Score: 83
Period size: 24 Copynumber: 2.2 Consensus size: 24
43884433 TGTATACAGG
43884443 AAGCTCATAAGAGCC-ATAATCGGA
1 AAGCTCATAAGAGCCAATAA-CGGA
*
43884467 AAGCTCATAAGAGCCAATAACGGG
1 AAGCTCATAAGAGCCAATAACGGA
43884491 AAGCTC
1 AAGCTC
43884497 CGGATAGCCA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
24 24 0.86
25 4 0.14
ACGTcount: A:0.41, C:0.22, G:0.22, T:0.15
Consensus pattern (24 bp):
AAGCTCATAAGAGCCAATAACGGA
Found at i:43889384 original size:14 final size:13
Alignment explanation
Indices: 43889365--43889398 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
43889355 TACTAACTCT
43889365 TAATATTATTATAA
1 TAATATTATTAT-A
*
43889379 TAATATTTTTATA
1 TAATATTATTATA
43889392 TAATATT
1 TAATATT
43889399 TAAGTAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 8 0.42
14 11 0.58
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (13 bp):
TAATATTATTATA
Found at i:43898183 original size:37 final size:37
Alignment explanation
Indices: 43898142--43898215 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
43898132 TAAGAAATGG
43898142 CAAGCTTAATAGACTGTATTCAAAACCAATTAAACTC
1 CAAGCTTAATAGACTGTATTCAAAACCAATTAAACTC
* *
43898179 CAAGCTTAATAGGCTGTATTCAAAACCGATTAAACTC
1 CAAGCTTAATAGACTGTATTCAAAACCAATTAAACTC
43898216 AGTATATCGA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.41, C:0.22, G:0.11, T:0.27
Consensus pattern (37 bp):
CAAGCTTAATAGACTGTATTCAAAACCAATTAAACTC
Found at i:43901751 original size:2 final size:2
Alignment explanation
Indices: 43901744--43901878 Score: 270
Period size: 2 Copynumber: 67.5 Consensus size: 2
43901734 ATAATCTAAC
43901744 TA TA TA TA 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 TA TA TA TA
43901786 TA TA TA TA 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 TA TA TA TA
43901828 TA TA TA TA 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 TA TA TA TA
43901870 TA TA TA TA T
1 TA TA TA TA T
43901879 TCTTCCTCCA
Statistics
Matches: 133, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 133 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:43911053 original size:6 final size:6
Alignment explanation
Indices: 43911042--43911074 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
43911032 CCTCGATATA
*
43911042 AAATTT AAATTT AAATTT AAATTT AAATAT AAA
1 AAATTT AAATTT AAATTT AAATTT AAATTT AAA
43911075 AATATATAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (6 bp):
AAATTT
Found at i:43912767 original size:2 final size:2
Alignment explanation
Indices: 43912760--43912786 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
43912750 AGGAATATGG
43912760 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
43912787 AAACTCATCA
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:43920844 original size:19 final size:19
Alignment explanation
Indices: 43920820--43920858 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
43920810 TAGGACTTAG
43920820 ATATCCATACATGCATGCT
1 ATATCCATACATGCATGCT
43920839 ATATCCATACATGCATGCT
1 ATATCCATACATGCATGCT
43920858 A
1 A
43920859 CTCAGCTTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.33, C:0.26, G:0.10, T:0.31
Consensus pattern (19 bp):
ATATCCATACATGCATGCT
Found at i:43926235 original size:3 final size:3
Alignment explanation
Indices: 43926227--43926255 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
43926217 GATAAGTTTC
43926227 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
43926256 TTTTGGCATG
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:43932910 original size:31 final size:29
Alignment explanation
Indices: 43932874--43932950 Score: 91
Period size: 29 Copynumber: 2.6 Consensus size: 29
43932864 TTAACAGCTC
* *
43932874 AGTGACTAAAATGTTACACTACATTAACGTA
1 AGTGACTAAAATGTAACACTACA--AACATA
* * *
43932905 AGTGACTAAAACGTAACATTTCAAACATA
1 AGTGACTAAAATGTAACACTACAAACATA
43932934 AGTGACTAAAATGTAAC
1 AGTGACTAAAATGTAAC
43932951 CCGAGAGAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
29 21 0.52
31 19 0.47
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (29 bp):
AGTGACTAAAATGTAACACTACAAACATA
Found at i:43935025 original size:24 final size:24
Alignment explanation
Indices: 43934993--43935041 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
43934983 GTGACTGTTG
43934993 CTCAGTTTTTCAAACTTTCAAGTT
1 CTCAGTTTTTCAAACTTTCAAGTT
43935017 CTCAGTTTTTCAAACTTTCAAGTT
1 CTCAGTTTTTCAAACTTTCAAGTT
43935041 C
1 C
43935042 CAATCCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.24, C:0.22, G:0.08, T:0.45
Consensus pattern (24 bp):
CTCAGTTTTTCAAACTTTCAAGTT
Found at i:43938144 original size:15 final size:16
Alignment explanation
Indices: 43938105--43938146 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
43938095 AACGAAAGGA
*
43938105 AAAACCAAATAATAGG
1 AAAACCAAAAAATAGG
*
43938121 AAAA-TAAAAAATA-G
1 AAAACCAAAAAATAGG
43938135 AAAACCAAAAAA
1 AAAACCAAAAAA
43938147 GCAAAAGGCC
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
14 5 0.23
15 13 0.59
16 4 0.18
ACGTcount: A:0.74, C:0.10, G:0.07, T:0.10
Consensus pattern (16 bp):
AAAACCAAAAAATAGG
Found at i:43944499 original size:57 final size:57
Alignment explanation
Indices: 43944394--43944504 Score: 129
Period size: 57 Copynumber: 1.9 Consensus size: 57
43944384 TATTCTTCTC
*
43944394 ATAAAAAATATTAAAAATCGGATAAATTATAAAAAAAATATAAGAAAAA-TTATTAA
1 ATAAAAAATATTAAAAATCGGATAAATTATAAAAAAAATATAAAAAAAAGTTATTAA
* * **
43944450 ATAATAAAATATT-AAAATTGATATAAACTTATAAAAATTATA-AAAAAAAAGTTAT
1 ATAA-AAAATATTAAAAATCG-GATAAA-TTATAAAAAAAATATAAAAAAAAGTTAT
43944505 AAAAGTATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 6
0.81 0.09 0.11
Matches are distributed among these distances:
56 10 0.22
57 20 0.43
58 16 0.35
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.30
Consensus pattern (57 bp):
ATAAAAAATATTAAAAATCGGATAAATTATAAAAAAAATATAAAAAAAAGTTATTAA
Found at i:43945027 original size:17 final size:17
Alignment explanation
Indices: 43944998--43945034 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
43944988 AATTTTTGAA
43944998 TTAGTGAAATTTGTAAT
1 TTAGTGAAATTTGTAAT
* *
43945015 TTAGTGAATTTTGTGAT
1 TTAGTGAAATTTGTAAT
43945032 TTA
1 TTA
43945035 AAAAGAATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.30, C:0.00, G:0.19, T:0.51
Consensus pattern (17 bp):
TTAGTGAAATTTGTAAT
Found at i:43946311 original size:46 final size:46
Alignment explanation
Indices: 43946258--43946353 Score: 174
Period size: 46 Copynumber: 2.1 Consensus size: 46
43946248 ATCCATGGAA
*
43946258 AGTTGTGAAAAGTAGGTATGGTGTTTCAGTGAAGAAAACCATACTG
1 AGTTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTG
*
43946304 AGTTGTGAAAAGTAGGTATGGTATTTCAGTGAAGGAAACCATACTG
1 AGTTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTG
43946350 AGTT
1 AGTT
43946354 ATAGCATTGT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.34, C:0.08, G:0.28, T:0.29
Consensus pattern (46 bp):
AGTTGTGAAAAGTAGGTATGGTATTTCAGTGAAGAAAACCATACTG
Found at i:43948251 original size:9 final size:9
Alignment explanation
Indices: 43948237--43948299 Score: 67
Period size: 9 Copynumber: 6.9 Consensus size: 9
43948227 GTTTGATTAA
43948237 TTTTATAAT
1 TTTTATAAT
43948246 TTTTAT-AT
1 TTTTATAAT
43948254 TTTTATAAT
1 TTTTATAAT
*
43948263 ATTTATAAGT
1 TTTTATAA-T
43948273 TTTTAT-AT
1 TTTTATAAT
43948281 TTTTAATAAGT
1 TTTT-ATAA-T
*
43948292 TTATATAA
1 TTTTATAA
43948300 ATTTCATTGT
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
8 13 0.28
9 18 0.39
10 11 0.24
11 4 0.09
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (9 bp):
TTTTATAAT
Found at i:43948259 original size:17 final size:19
Alignment explanation
Indices: 43948237--43948299 Score: 78
Period size: 19 Copynumber: 3.4 Consensus size: 19
43948227 GTTTGATTAA
43948237 TTTTATAATTTTTAT-A-T
1 TTTTATAATTTTTATAAGT
*
43948254 TTTTATAATATTTATAAGT
1 TTTTATAATTTTTATAAGT
43948273 TTTTAT-ATTTTTAATAAGT
1 TTTTATAATTTTT-ATAAGT
*
43948292 TTATATAA
1 TTTTATAA
43948300 ATTTCATTGT
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
17 14 0.36
18 6 0.15
19 18 0.46
20 1 0.03
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (19 bp):
TTTTATAATTTTTATAAGT
Found at i:43949318 original size:15 final size:17
Alignment explanation
Indices: 43949298--43949335 Score: 53
Period size: 18 Copynumber: 2.3 Consensus size: 17
43949288 AATTATAATA
43949298 TATATT-TTAAAA-ATT
1 TATATTATTAAAACATT
43949313 TATATTATTAAAACTATT
1 TATATTATTAAAAC-ATT
43949331 TATAT
1 TATAT
43949336 GTCAGAACAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
15 6 0.30
16 6 0.30
18 8 0.40
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
TATATTATTAAAACATT
Found at i:43951768 original size:11 final size:11
Alignment explanation
Indices: 43951749--43951778 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
43951739 TTAAATATAA
*
43951749 TTATTATTCTT
1 TTATAATTCTT
43951760 TTATAATTCTT
1 TTATAATTCTT
43951771 TTATAATT
1 TTATAATT
43951779 TATAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.67
Consensus pattern (11 bp):
TTATAATTCTT
Found at i:43952569 original size:47 final size:47
Alignment explanation
Indices: 43952500--43952593 Score: 188
Period size: 47 Copynumber: 2.0 Consensus size: 47
43952490 TCTCATCATG
43952500 ATTACATTCTAAAAAGAAGGCGAGTTTTCTGTTCTTTTAATGTGTTT
1 ATTACATTCTAAAAAGAAGGCGAGTTTTCTGTTCTTTTAATGTGTTT
43952547 ATTACATTCTAAAAAGAAGGCGAGTTTTCTGTTCTTTTAATGTGTTT
1 ATTACATTCTAAAAAGAAGGCGAGTTTTCTGTTCTTTTAATGTGTTT
43952594 TCACACTTTT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 47 1.00
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.45
Consensus pattern (47 bp):
ATTACATTCTAAAAAGAAGGCGAGTTTTCTGTTCTTTTAATGTGTTT
Found at i:43952885 original size:16 final size:16
Alignment explanation
Indices: 43952864--43952896 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
43952854 ACTATGAAAG
43952864 TAAGTTAAATTCATGT
1 TAAGTTAAATTCATGT
43952880 TAAGTTAAATTCATGT
1 TAAGTTAAATTCATGT
43952896 T
1 T
43952897 TCTTTTGATA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.36, C:0.06, G:0.12, T:0.45
Consensus pattern (16 bp):
TAAGTTAAATTCATGT
Found at i:43956230 original size:14 final size:13
Alignment explanation
Indices: 43956200--43956233 Score: 52
Period size: 12 Copynumber: 2.6 Consensus size: 13
43956190 CTTAACTCTT
43956200 TTTTTAAAAATAA
1 TTTTTAAAAATAA
43956213 -TTTTAAAAATATA
1 TTTTTAAAAATA-A
43956226 TTTTTAAA
1 TTTTTAAA
43956234 TTTTTTTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 11 0.58
13 1 0.05
14 7 0.37
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (13 bp):
TTTTTAAAAATAA
Found at i:43956530 original size:23 final size:23
Alignment explanation
Indices: 43956473--43956762 Score: 385
Period size: 23 Copynumber: 12.7 Consensus size: 23
43956463 GCTGGGGATG
43956473 CCTAATTAAATTAAAAACCCTAA
1 CCTAATTAAATTAAAAACCCTAA
* *
43956496 CC--CTTAACTTAAAAACCCTAA
1 CCTAATTAAATTAAAAACCCTAA
*
43956517 CCTAATTAAATTAAAAACTCTAA
1 CCTAATTAAATTAAAAACCCTAA
43956540 CCTAATTAAATTTAAAAACCCTAA
1 CCTAATTAAA-TTAAAAACCCTAA
* * *
43956564 TCTAATTAAATTAAAAGCCCTCA
1 CCTAATTAAATTAAAAACCCTAA
43956587 CCTAATTAAATTAAAAACCCTAA
1 CCTAATTAAATTAAAAACCCTAA
* *
43956610 CC--CTTAACTTAAAAACCCTAA
1 CCTAATTAAATTAAAAACCCTAA
*
43956631 CTTAATTAAATTAAAAACCCTAA
1 CCTAATTAAATTAAAAACCCTAA
43956654 CCTAATTAAATTAAAAACCCTAA
1 CCTAATTAAATTAAAAACCCTAA
* *
43956677 CC--CTTAACTTAAAAACCCTAA
1 CCTAATTAAATTAAAAACCCTAA
43956698 CCTAATTAAATTTAAAAACCCTAA
1 CCTAATTAAA-TTAAAAACCCTAA
* *
43956722 TCTAATTAACTTAAAAACCCTAA
1 CCTAATTAAATTAAAAACCCTAA
*
43956745 CTTAAATTAAATTAAAAA
1 CCT-AATTAAATTAAAAA
43956763 TACTAACCAA
Statistics
Matches: 231, Mismatches: 27, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
21 56 0.24
23 120 0.52
24 55 0.24
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.28
Consensus pattern (23 bp):
CCTAATTAAATTAAAAACCCTAA
Found at i:43956545 original size:67 final size:68
Alignment explanation
Indices: 43956473--43956762 Score: 374
Period size: 67 Copynumber: 4.2 Consensus size: 68
43956463 GCTGGGGATG
** * *
43956473 CCTAATTAAATTAAAAACCCTAAC-CCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACTC
1 CCTAATTAAATTAAAAACCCTAACTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCC
43956537 TAA
66 TAA
* *
43956540 CCTAATTAAATTTAAAAACCCTAATCTAATTAAATTAAAAGCCCTCACCTAATTAAATTAAAAAC
1 CCTAATTAAA-TTAAAAACCCTAA-CTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAAC
43956605 CCTAA
64 CCTAA
* *
43956610 CC--CTTAACTTAAAAACCCTAACTTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACC
1 CCTAATTAAATTAAAAACCCTAAC-TAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACC
43956673 CTAA
65 CTAA
* * * *
43956677 CC--CTTAACTTAAAAACCCTAACCTAATTAAATTTAAAAACCCTAATCTAATTAACTTAAAAAC
1 CCTAATTAAATTAAAAACCCTAA-CTAATTAAA-TTAAAAACCCTAACCTAATTAAATTAAAAAC
43956740 CCTAA
64 CCTAA
*
43956745 CTTAAATTAAATTAAAAA
1 CCT-AATTAAATTAAAAA
43956763 TACTAACCAA
Statistics
Matches: 199, Mismatches: 15, Indels: 14
0.87 0.07 0.06
Matches are distributed among these distances:
66 1 0.01
67 94 0.47
68 53 0.27
69 1 0.01
70 39 0.20
71 11 0.06
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.28
Consensus pattern (68 bp):
CCTAATTAAATTAAAAACCCTAACTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCC
TAA
Found at i:43956614 original size:114 final size:111
Alignment explanation
Indices: 43956473--43956770 Score: 436
Period size: 114 Copynumber: 2.6 Consensus size: 111
43956463 GCTGGGGATG
*
43956473 CCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACTCT
1 CCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACTTAATTAAATTAAAAACTCT
* *
43956538 AACCTAATTAAATTTAAAAACCCTAATCTAATTAAATTAAAAGCCCTCA
66 AACCTAATTAAA-TTAAAAACCCTAA-C-AATTAAATTAAAAACCCTAA
*
43956587 CCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACTTAATTAAATTAAAAACCCT
1 CCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACTTAATTAAATTAAAAACTCT
** *
43956652 AACCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAA
66 AACCTAATTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAA
**
43956698 CCTAATTAAATTTAAAAACCCTAATCTAATTAACTTAAAAACCCTAACTTAAATTAAATTAAAAA
1 CCTAATTAAA-TTAAAAACCCTAA-C-CCTTAACTTAAAAACCCTAACTT-AATTAAATTAAAAA
43956763 -TACTAACC
62 CT-CTAACC
43956771 AATCATTTGG
Statistics
Matches: 169, Mismatches: 10, Indels: 9
0.90 0.05 0.05
Matches are distributed among these distances:
111 25 0.15
112 14 0.08
113 14 0.08
114 96 0.57
115 20 0.12
ACGTcount: A:0.49, C:0.23, G:0.00, T:0.28
Consensus pattern (111 bp):
CCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACTTAATTAAATTAAAAACTCT
AACCTAATTAAATTAAAAACCCTAACAATTAAATTAAAAACCCTAA
Found at i:43956955 original size:44 final size:45
Alignment explanation
Indices: 43956883--43957244 Score: 554
Period size: 44 Copynumber: 8.0 Consensus size: 45
43956873 AAAGATTTTA
43956883 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAG
*
43956928 GGTTAGGGTTTTT-AATTTAATTAGGTTAGGG-TTTTAAGTTAATTA
1 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAA--G
43956973 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAG
43957018 GGTTAGGGTTTTT-AATTTAATTAGGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAG
* * * *
43957062 GGTTAGGGTTTTT-TATTTAATTAGGTGAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAA--G
*
43957108 GATTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAG
* * *
43957153 GGTTAAGGTTTTT-AATTTAATTAGGTTAGGGTTTTTAATTTAATTA
1 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAA--G
43957199 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAG
1 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAG
43957244 G
1 G
43957245 NNNNNNNNNN
Statistics
Matches: 289, Mismatches: 18, Indels: 20
0.88 0.06 0.06
Matches are distributed among these distances:
43 11 0.04
44 118 0.41
45 51 0.18
46 42 0.15
47 67 0.23
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (45 bp):
GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAG
Found at i:43957130 original size:135 final size:135
Alignment explanation
Indices: 43956883--43957242 Score: 614
Period size: 135 Copynumber: 2.6 Consensus size: 135
43956873 AAAGATTTTA
43956883 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAA
1 GGTTAGGGTTTTT-AATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAA
*
43956948 TTAGGTTAGGG-TTTTAAGTTAATTAGGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAA
65 TTAGGTTAGGGTTTTTAAGTTAATTAGATTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAA
43957012 GTTAAG
130 GTTAAG
*
43957018 GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTTATTTAAT
1 GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAAT
* *
43957083 TAGGTGAGGGTTTTTAATTTAATTAGATTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAG
66 TAGGTTAGGGTTTTTAAGTTAATTAGATTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAG
43957148 TTAAG
131 TTAAG
* * *
43957153 GGTTAAGGTTTTTAATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAATTT
1 GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA--GGGTTAGGGTTTTT-AATTT
43957218 AATTAGGTTAGGGTTTTTAAGTTAA
63 AATTAGGTTAGGGTTTTTAAGTTAA
43957243 GGNNNNNNNN
Statistics
Matches: 211, Mismatches: 10, Indels: 5
0.93 0.04 0.02
Matches are distributed among these distances:
134 60 0.28
135 111 0.53
137 13 0.06
138 27 0.13
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.49
Consensus pattern (135 bp):
GGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAAT
TAGGTTAGGGTTTTTAAGTTAATTAGATTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAG
TTAAG
Found at i:43957142 original size:91 final size:89
Alignment explanation
Indices: 43956883--43957244 Score: 550
Period size: 91 Copynumber: 4.0 Consensus size: 89
43956873 AAAGATTTTA
*
43956883 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAA
1 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAAGGTTAGGGTTTTTAATTTAA
*
43956948 TTAGGTTAGGG-TTTTAAGTTAATTA
66 TTAGGTTAGGGTTTTTAAGTTAA--G
*
43956973 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAGGGTTAGGGTTTTTAATTTAA
1 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAAGGTTAGGGTTTTTAATTTAA
43957038 TTAGGTTAGGGTTTTTAAGTTAAG
66 TTAGGTTAGGGTTTTTAAGTTAAG
* * * *
43957062 GGTTAGGGTTTTT-TATTTAATTAGGTGAGGGTTTTTAATTTAATTAGATTAGGGTTTTTAAATT
1 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTTTT-AATT
43957126 TAATTAGGTTAGGGTTTTTAAGTTAAG
63 TAATTAGGTTAGGGTTTTTAAGTTAAG
* *
43957153 GGTTAAGGTTTTT-AATTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAATT
1 GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAA--AGGTTAGGGTTTTT-AATT
43957217 TAATTAGGTTAGGGTTTTTAAGTTAAG
63 TAATTAGGTTAGGGTTTTTAAGTTAAG
43957244 G
1 G
43957245 NNNNNNNNNN
Statistics
Matches: 258, Mismatches: 10, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
88 27 0.10
89 13 0.05
90 88 0.34
91 130 0.50
ACGTcount: A:0.27, C:0.00, G:0.25, T:0.48
Consensus pattern (89 bp):
GGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTTTAAGTTAAAGGTTAGGGTTTTTAATTTAA
TTAGGTTAGGGTTTTTAAGTTAAG
Found at i:43957392 original size:23 final size:23
Alignment explanation
Indices: 43957355--43957877 Score: 663
Period size: 23 Copynumber: 23.0 Consensus size: 23
43957345 NNNNNNNNNC
*
43957355 GGTTTTTAAATTTAATTAAGTTAG
1 GGTTTTT-AATTTAATTAGGTTAG
*
43957379 GGTTTTTAAGTTAATTAGGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
*
43957402 AGTTTTTAATTTAATTAGGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
* *
43957425 AGTTTTTAAGTTAATTAGGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
*
43957448 GGTTTTTGATTTAATTAGGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
*
43957471 GATTTTTAAATTTAATTAGGTTAG
1 GGTTTTT-AATTTAATTAGGTTAG
* * *
43957495 GGTGTTTAAGTTAA--GGGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
43957516 GGTTTTTAATTTAATTAGGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
43957539 GGTTTTTAAATTTAATTAGGTTAG
1 GGTTTTT-AATTTAATTAGGTTAG
*
43957563 GGTTTTTAAGTT-A--AGGATTAG
1 GGTTTTTAATTTAATTAGG-TTAG
*
43957584 AGTTTTTAATTTAATTAGGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
* *
43957607 GGTTTTTAAGTTAA--GGGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
* *
43957628 GGTTGTTACTTTAATTAGGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
43957651 GGTTTTTAATTTAATTAGGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
* *
43957674 AGTTTTTAAATTAATTAGGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
43957697 GGTTTTTAATTTAATTAGGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
43957720 GGTTTTTAAATTTAATTAGGTTAG
1 GGTTTTT-AATTTAATTAGGTTAG
* * *
43957744 AGTTTTTAAGTTAA--GGGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
*
43957765 GATTTTTAATTTAATTAGGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
*
43957788 AGTTTTTAATTTAATTAGGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
* * *
43957811 AGTTTTTAAATTTAATAATGTTAG
1 GGTTTTT-AATTTAATTAGGTTAG
*
43957835 GGTTTTTAAGTTAA-T-GGTTAG
1 GGTTTTTAATTTAATTAGGTTAG
*
43957856 GGTTTTTAATTTAATTAAGTTA
1 GGTTTTTAATTTAATTAGGTTA
43957878 AATTAAAAAC
Statistics
Matches: 433, Mismatches: 50, Indels: 33
0.84 0.10 0.06
Matches are distributed among these distances:
20 3 0.01
21 84 0.19
22 3 0.01
23 248 0.57
24 95 0.22
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (23 bp):
GGTTTTTAATTTAATTAGGTTAG
Found at i:43957667 original size:249 final size:248
Alignment explanation
Indices: 43957374--43957869 Score: 780
Period size: 249 Copynumber: 2.0 Consensus size: 248
43957364 ATTTAATTAA
* *
43957374 GTTAGGGTTTTTAAGTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGAGTTTTTAAGTTAA
1 GTTAGGGTTGTTAAGTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGAGTTTTTAAATTAA
* *
43957439 TTAGGTTAGGGTTTTTGATTTAATTAGGTTAGGATTTTTAAATTTAATTAGGTTAGGGTGTTTAA
66 TTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGATTTTTAAATTTAATTAGGTTAGAGTGTTTAA
* * *
43957504 GTTAAGGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAATTTAATTAGGTTAGGGTTTT
131 GTTAAGGGTTAGGATTTTTAATTTAATTAGGTTAGAGTTTTT-AATTTAATTAGGTTAGAGTTTT
* *
43957569 T-AAGTTAAGGA-TTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAAGG
195 TAAAGTTAAGAAGTTAGAGTTTTTAAGTTAA-T-GGTTAGGGTTTTTAAGTTAAGG
** *
43957623 GTTAGGGTTGTTACTTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGAGTTTTTAAATTAA
1 GTTAGGGTTGTTAAGTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGAGTTTTTAAATTAA
* *
43957688 TTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAATTTAATTAGGTTAGAGTTTTTAA
66 TTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGATTTTTAAATTTAATTAGGTTAGAGTGTTTAA
43957753 GTTAAGGGTTAGGATTTTTAATTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGAGTTTTT
131 GTTAAGGGTTAGGATTTTTAATTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGAGTTTTT
* * * *
43957818 AAATTTAATAATGTTAGGGTTTTTAAGTTAATGGTTAGGGTTTTTAATTTAA
196 AAAGTTAAGAA-GTTAGAGTTTTTAAGTTAATGGTTAGGGTTTTTAAGTTAA
43957870 TTAAGTTAAA
Statistics
Matches: 226, Mismatches: 18, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
248 22 0.10
249 187 0.83
250 1 0.00
251 16 0.07
ACGTcount: A:0.28, C:0.00, G:0.23, T:0.49
Consensus pattern (248 bp):
GTTAGGGTTGTTAAGTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGAGTTTTTAAATTAA
TTAGGTTAGGGTTTTTAATTTAATTAGGTTAGGATTTTTAAATTTAATTAGGTTAGAGTGTTTAA
GTTAAGGGTTAGGATTTTTAATTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGAGTTTTT
AAAGTTAAGAAGTTAGAGTTTTTAAGTTAATGGTTAGGGTTTTTAAGTTAAGG
Found at i:43957714 original size:272 final size:271
Alignment explanation
Indices: 43957365--43957877 Score: 782
Period size: 272 Copynumber: 1.9 Consensus size: 271
43957355 GGTTTTTAAA
*
43957365 TTTAATTAAGTTAGGGTTTTTAAGTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGAGTTT
1 TTTAATTAAGTTAGGGTTTTTAAGTTAATTAGGTTAGAGTTTTTAAATTAATTAGGTTAGAGTTT
* *
43957430 TTAAGTTAATTAGGTTAGGGTTTTT-GATTTAATTAGGTTAG-GATTTTTAAATTTAATTAGGTT
66 TTAAGTTAATTAGGTTAGGGTTTTTAAATTTAATTAGGTTAGAG-TTTTT-AAGTTAA--AGGTT
* * * * *
43957493 AGGGTGTTTAAGTTAA-GGGTTAGGGTTTTTAATTTAATTAGGTTAGGGTTTTTAAATTTAATTA
127 AGGATGTTTAAGTTAATAGGTTAGAGTTTTTAATTTAATTAGGTTAGAGTTTTTAAATTTAATAA
*
43957557 GGTTAGGGTTTTTAAGTTAA-GGATTAGAGTTTTTAATTTAATTAGGTTAGGGTTTTTAAGTTAA
192 GGTTAGGGTTTTTAAGTTAATGG-TTAGAGTTTTTAATTTAATTAAGTTAGGGTTTTTAAGTTAA
43957621 GGGTTAGGGTTGTTAC
256 GGGTTAGGGTTGTTAC
* * *
43957637 TTTAATTAGGTTAGGGTTTTTAATTTAATTAGGTTAGAGTTTTTAAATTAATTAGGTTAGGGTTT
1 TTTAATTAAGTTAGGGTTTTTAAGTTAATTAGGTTAGAGTTTTTAAATTAATTAGGTTAGAGTTT
* *
43957702 TTAATTTAATTAGGTTAGGGTTTTTAAATTTAATTAGGTTAGAGTTTTTAAGTTAAGGGTTAGGA
66 TTAAGTTAATTAGGTTAGGGTTTTTAAATTTAATTAGGTTAGAGTTTTTAAGTTAAAGGTTAGGA
* * *
43957767 TTTTTAATTTAATTAGGTTAGAGTTTTTAATTTAATTAGGTTAGAGTTTTTAAATTTAATAATGT
131 TGTTTAAGTTAA-TAGGTTAGAGTTTTTAATTTAATTAGGTTAGAGTTTTTAAATTTAATAAGGT
*
43957832 TAGGGTTTTTAAGTTAATGGTTAGGGTTTTTAATTTAATTAAGTTA
195 TAGGGTTTTTAAGTTAATGGTTAGAGTTTTTAATTTAATTAAGTTA
43957878 AATTAAAAAC
Statistics
Matches: 218, Mismatches: 18, Indels: 10
0.89 0.07 0.04
Matches are distributed among these distances:
270 17 0.08
272 178 0.82
273 22 0.10
274 1 0.00
ACGTcount: A:0.29, C:0.00, G:0.22, T:0.49
Consensus pattern (271 bp):
TTTAATTAAGTTAGGGTTTTTAAGTTAATTAGGTTAGAGTTTTTAAATTAATTAGGTTAGAGTTT
TTAAGTTAATTAGGTTAGGGTTTTTAAATTTAATTAGGTTAGAGTTTTTAAGTTAAAGGTTAGGA
TGTTTAAGTTAATAGGTTAGAGTTTTTAATTTAATTAGGTTAGAGTTTTTAAATTTAATAAGGTT
AGGGTTTTTAAGTTAATGGTTAGAGTTTTTAATTTAATTAAGTTAGGGTTTTTAAGTTAAGGGTT
AGGGTTGTTAC
Found at i:43957905 original size:23 final size:23
Alignment explanation
Indices: 43957875--43958679 Score: 741
Period size: 23 Copynumber: 35.1 Consensus size: 23
43957865 TTTAATTAAG
43957875 TTAAATTAAAAACCCTAACCTAATTAAA
1 TTAAATTAAAAACCCTAACC----T-AA
*
43957903 TTAAATTAAAAATCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
43957926 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
43957949 TTAACTTAAAAATCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
43957972 TTAAATTTAAAAACCCGAACCTAA
1 TTAAA-TTAAAAACCCTAACCTAA
* * *
43957996 TTAACTTAAAAGCCCTAACTTAA
1 TTAAATTAAAAACCCTAACCTAA
43958019 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
43958042 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
43958065 TTAAATTTTAAAACCCTAACCCTAACCTAA
1 TTAAA--TT-AAA----AACCCTAACCTAA
*
43958095 TTAAATTTAAAAATCCTAACCTAA
1 TTAAA-TTAAAAACCCTAACCTAA
43958119 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
43958142 TTAACTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
43958165 TTAAATTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
43958188 TTAACTTAAAAACCCTAACTTAA
1 TTAAATTAAAAACCCTAACCTAA
*
43958211 TTAAATTTAAAAACCGTAACCTAA
1 TTAAA-TTAAAAACCCTAACCTAA
43958235 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
******************
43958258 TTAAANNNNNNNNNNNNNNNNNN
1 TTAAATTAAAAACCCTAACCTAA
** ** *
43958281 NNAACCCT---AACCCTTAACTTAA
1 TTAA-ATTAAAAACCC-TAACCTAA
**** *
43958303 --AAA-CCCTAA-CCTAA-TTAAA
1 TTAAATTAAAAACCCTAACCT-AA
*
43958322 TT---TAAAA-ACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
* *
43958341 TTAAATTAAAAACTCTAACCCAA
1 TTAAATTAAAAACCCTAACCTAA
*
43958364 TTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
* *
43958385 TTAACTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
43958408 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
43958431 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
**
43958454 TTAAGCTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
43958477 TTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
* *
43958498 TTAACTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
43958521 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
43958544 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
** *
43958567 TTAAGCTAAAAACCCTAACCTAG
1 TTAAATTAAAAACCCTAACCTAA
*
43958590 TTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
* *
43958611 TTAACTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
43958634 TTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAA
*
43958655 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
43958678 TT
1 TT
43958680 TTACATTCAC
Statistics
Matches: 640, Mismatches: 105, Indels: 69
0.79 0.13 0.08
Matches are distributed among these distances:
18 3 0.00
19 14 0.02
20 5 0.01
21 75 0.12
22 4 0.01
23 432 0.68
24 59 0.09
25 2 0.00
26 3 0.00
28 22 0.03
29 3 0.00
30 18 0.03
ACGTcount: A:0.48, C:0.22, G:0.01, T:0.27
Consensus pattern (23 bp):
TTAAATTAAAAACCCTAACCTAA
Found at i:43957951 original size:46 final size:46
Alignment explanation
Indices: 43957875--43958679 Score: 899
Period size: 46 Copynumber: 17.0 Consensus size: 46
43957865 TTTAATTAAG
* *
43957875 TTAAATTAAAAACCCTAACCTAATTAAATTAAATTAAAAATCCTAACCTAA
1 TTAAATTAAAAACCCTAACC----T-AATTAACTTAAAAACCCTAACCTAA
*
43957926 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAATCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
* * *
43957972 TTAAATTTAAAAACCCGAACCTAATTAACTTAAAAGCCCTAACTTAA
1 TTAAA-TTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
*
43958019 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
* *
43958065 TTAAATTTTAAAACCCTAACCCTAACCTAATTAAATTTAAAAATCCTAACCTAA
1 TTAAA--TT-AAA----AACCCTAACCTAATT-AACTTAAAAACCCTAACCTAA
*
43958119 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
* *
43958165 TTAAATTAAAAACTCTAACCTAATTAACTTAAAAACCCTAACTTAA
1 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
* *
43958211 TTAAATTTAAAAACCGTAACCTAATTAAATTAAAAACCCTAACCTAA
1 TTAAA-TTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
***********
43958258 TTAAANNNNNNNNNNNNNNNNNNNNAACCCTAACCCTTAACTTAAAAACCCTAACCTAA
1 TTAAA---------TTAAAAACCCTAA-CCTAA---TTAACTTAAAAACCCTAACCTAA
* * *
43958317 TTAAATTTAAAAACCCTAACCTAATTAAATTAAAAACTCTAACCCAA
1 TTAAA-TTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
* *
43958364 TTAAATTAAAAACCCTAACC--CTTAACTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
43958408 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
** * *
43958454 TTAAGCTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC--C
1 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
* * *
43958498 TTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
* *
43958544 TTAACTTAAAAACCCTAACCTAATTAAGC-TAAAAACCCTAACCTAG
1 TTAAATTAAAAACCCTAACCTAATTAA-CTTAAAAACCCTAACCTAA
* *
43958590 TTAAATTAAAAACCCTAACC--CTTAACTTAAAAACTCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
*
43958634 TTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
43958678 TT
1 TT
43958680 TTACATTCAC
Statistics
Matches: 656, Mismatches: 70, Indels: 63
0.83 0.09 0.08
Matches are distributed among these distances:
43 1 0.00
44 145 0.22
46 275 0.42
47 125 0.19
48 2 0.00
49 3 0.00
50 5 0.01
51 25 0.04
52 2 0.00
53 15 0.02
54 24 0.04
55 2 0.00
56 5 0.01
59 27 0.04
ACGTcount: A:0.48, C:0.22, G:0.01, T:0.27
Consensus pattern (46 bp):
TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACCCTAACCTAA
Found at i:43958086 original size:30 final size:30
Alignment explanation
Indices: 43958052--43958138 Score: 116
Period size: 30 Copynumber: 3.1 Consensus size: 30
43958042 TTAAATTAAA
*
43958052 AACCCTAACCTAATTAAATTTTAAAACCCT
1 AACCCTAACCTAATTAAATTTAAAAACCCT
43958082 AACCCTAACCTAATTAAATTTAAAAA---T
1 AACCCTAACCTAATTAAATTTAAAAACCCT
43958109 ---CCTAACCTAATTAAA-TTAAAAACCCT
1 AACCCTAACCTAATTAAATTTAAAAACCCT
43958135 AACC
1 AACC
43958139 TAATTAACTT
Statistics
Matches: 50, Mismatches: 1, Indels: 13
0.78 0.02 0.20
Matches are distributed among these distances:
23 7 0.14
24 15 0.30
26 1 0.02
27 1 0.02
29 1 0.02
30 25 0.50
ACGTcount: A:0.47, C:0.25, G:0.00, T:0.28
Consensus pattern (30 bp):
AACCCTAACCTAATTAAATTTAAAAACCCT
Found at i:43958456 original size:90 final size:90
Alignment explanation
Indices: 43957875--43958674 Score: 658
Period size: 90 Copynumber: 8.5 Consensus size: 90
43957865 TTTAATTAAG
* * *
43957875 TTAAATTAAAAACCCTAACCTAATTAAATTAAATTAAAAATCCTAACCTAATTAAATTAAAAACC
1 TTAAATTAAAAACCCTAACC----T-AATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACC
* *
43957940 CTAACCTAATTAACTTAAAAATCCTAACCTAA
59 CTAACCTAATTAAATTAAAAACCCTAACCTAA
* * * ** *
43957972 TTAAATTTAAAAACCCGAACCTAATTAACTTAAAAGCCCTAACTTAATTAAATTAAAAACCCTAA
1 TTAAA-TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC--CCTTAACTTAAAAACCCTAA
43958037 CCTAATTAAATTAAAAACCCTAACCTAA
63 CCTAATTAAATTAAAAACCCTAACCTAA
* * *
43958065 TTAAATTTTAAAACCCTAACCCTAACCTAATTAAATTTAAAAATCCTAACCTAATTAAATTAAAA
1 TTAAA--TT-AAA----AACCCTAACCTAATTAAA-TTAAAAACCCTAACC--CTTAACTTAAAA
* *
43958130 ACCCTAACCTAATTAACTTAAAAACTCTAACCTAA
56 ACCCTAACCTAATTAAATTAAAAACCCTAACCTAA
* * ** * *
43958165 TTAAATTAAAAACTCTAACCTAATTAACTTAAAAACCCTAACTTAATTAAATTTAAAAACCGTAA
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC--CCTT-AACTTAAAAACCCTAA
43958230 CCTAATTAAATTAAAAACCCTAACCTAA
63 CCTAATTAAATTAAAAACCCTAACCTAA
*********** * * *
43958258 TTAAANNNNNNNNNNNNNNNNNNNNAACCCTAACCCTTAACTTAAAAACCCTAACCTAATTAAAT
1 TTAAA---------TTAAAAACCCTAA-CCTAA---TTAAATTAAAAACCCTAACC--CTT-AAC
* *
43958323 TTAAAAACCCTAACCTAATTAAATTAAAAACTCTAACCCAA
50 TTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCTAA
* * * * *
43958364 TTAAATTAAAAACCCTAACC--CTTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCTAAC
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTAAC
*
43958427 CTAATTAACTTAAAAACCCTAACCTAA
64 CTAATTAAATTAAAAACCCTAACCTAA
** *
43958454 TTAAGCTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACTCTAACCT
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCT
43958519 AATTAAATTAAAAACCCTAACCTAA
66 AATTAAATTAAAAACCCTAACCTAA
* ** * *
43958544 TTAACTTAAAAACCCTAACCTAATTAAGCTAAAAACCCTAACCTAGTTAAATTAAAAACCCTAAC
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTAAC
* * *
43958609 C--CTTAACTTAAAAACTCTAACCTAA
64 CTAATTAAATTAAAAACCCTAACCTAA
* *
43958634 TTAAATTAAAAACCCTAACC--CTTAACTTAAAAACCCTAACC
1 TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACC
43958675 TAATTTTACA
Statistics
Matches: 592, Mismatches: 77, Indels: 77
0.79 0.10 0.10
Matches are distributed among these distances:
88 18 0.03
90 180 0.30
91 24 0.04
92 52 0.09
93 129 0.22
94 4 0.01
95 3 0.01
96 2 0.00
97 10 0.02
98 16 0.03
99 16 0.03
100 62 0.10
102 2 0.00
103 5 0.01
106 69 0.12
ACGTcount: A:0.48, C:0.23, G:0.01, T:0.27
Consensus pattern (90 bp):
TTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAACCCTTAACTTAAAAACCCTAACCT
AATTAAATTAAAAACCCTAACCTAA
Found at i:43958464 original size:113 final size:115
Alignment explanation
Indices: 43957875--43958679 Score: 876
Period size: 113 Copynumber: 6.8 Consensus size: 115
43957865 TTTAATTAAG
* * *
43957875 TTAAATTAAAAACCCTAACCTAATTAAATTAAATTAAAAATCCTAACCTAATTAAATTAAAAACC
1 TTAAATTAAAAACCCTAACCCAATTAACTT--A--AAAACT-CTAACC-AATTAAATTAAAAACC
* *
43957940 CTAACCTAATTAACTTAAAAATCCTAACCTAATTAAATTTAAAAACCCGAACCTAA
60 CTAACCTAATTAACTTAAAAACCCTAACCTAATTAAATTTAAAAACCCTAACCTAA
* * ** * *
43957996 TTAACTTAAAAGCCCTAACTTAATTAAATTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAC
1 TTAAATTAAAAACCCTAACCCAATTAACTTAAAAACTCTAACC-AATTAAATTAAAAACCCTAAC
* *
43958061 CTAATTAAATTTTAAAACCCTAACCCTAACCTAATTAAATTTAAAAATCCTAACCTAA
65 CTAATT-AA-CTT-AAA----AACCCTAACCTAATTAAATTTAAAAACCCTAACCTAA
* *
43958119 TTAAATTAAAAACCCTAACCTAATTAACTTAAAAACTCTAACCTAATTAAATTAAAAACTCTAAC
1 TTAAATTAAAAACCCTAACCCAATTAACTTAAAAACTCTAACC-AATTAAATTAAAAACCCTAAC
* *
43958184 CTAATTAACTTAAAAACCCTAACTTAATTAAATTTAAAAACCGTAACCTAA
65 CTAATTAACTTAAAAACCCTAACCTAATTAAATTTAAAAACCCTAACCTAA
* ************ *
43958235 TTAAATTAAAAACCCTAACCTAATTAAANNNNNNNNNNNNNNNNNNNNAACCCTAACCCTTAACT
1 TTAAATTAAAAACCCTAACCCAATT-AA--------CTTAAAAACTCTAA-CC-AA---TTAAAT
* * *
43958300 TAAAAACCCTAACCTAATTAAATTTAAAAACCCTAACCTAATTAAA-TTAAAAACTCTAACCCAA
52 TAAAAACCCTAACCTAATT-AACTTAAAAACCCTAACCTAATTAAATTTAAAAACCCTAACCTAA
43958364 TTAAATTAAAAACCCTAACCC--TTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCTAAC
1 TTAAATTAAAAACCCTAACCCAATTAACTTAAAAACTCTAACC-AATTAAATTAAAAACCCTAAC
**
43958427 CTAATTAACTTAAAAACCCTAACCTAATT-AAGCTAAAAACCCTAACCTAA
65 CTAATTAACTTAAAAACCCTAACCTAATTAAATTTAAAAACCCTAACCTAA
43958477 TTAAATTAAAAACCCTAACCC--TTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCTAAC
1 TTAAATTAAAAACCCTAACCCAATTAACTTAAAAACTCTAACC-AATTAAATTAAAAACCCTAAC
** *
43958540 CTAATTAACTTAAAAACCCTAACCTAATT-AAGCTAAAAACCCTAACCTAG
65 CTAATTAACTTAAAAACCCTAACCTAATTAAATTTAAAAACCCTAACCTAA
43958590 TTAAATTAAAAACCCTAACCC--TTAACTTAAAAACTCTAACCTAATTAAATTAAAAACCCTAAC
1 TTAAATTAAAAACCCTAACCCAATTAACTTAAAAACTCTAACC-AATTAAATTAAAAACCCTAAC
*
43958653 C--CTTAACTTAAAAACCCTAACCTAATT
65 CTAATTAACTTAAAAACCCTAACCTAATT
43958680 TTACATTCAC
Statistics
Matches: 604, Mismatches: 58, Indels: 54
0.84 0.08 0.08
Matches are distributed among these distances:
111 25 0.04
112 2 0.00
113 213 0.35
114 24 0.04
116 93 0.15
117 13 0.02
118 4 0.01
119 4 0.01
120 3 0.00
121 29 0.05
122 2 0.00
123 99 0.16
125 2 0.00
126 7 0.01
127 2 0.00
129 58 0.10
130 24 0.04
ACGTcount: A:0.48, C:0.22, G:0.01, T:0.27
Consensus pattern (115 bp):
TTAAATTAAAAACCCTAACCCAATTAACTTAAAAACTCTAACCAATTAAATTAAAAACCCTAACC
TAATTAACTTAAAAACCCTAACCTAATTAAATTTAAAAACCCTAACCTAA
Found at i:43960732 original size:123 final size:125
Alignment explanation
Indices: 43960512--43960763 Score: 391
Period size: 123 Copynumber: 2.0 Consensus size: 125
43960502 CCCAAACATG
* *
43960512 CTACTGTAGCAAAAGCTCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
1 CTACTGTAGCAAAAACGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* *
43960577 CTAGAAGCGATTTTATACTATTTGCTCAGAAACGTCAA-AAAAATTATTTCTTCCATGAC
66 CTAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACAAAAATTATTTCTTCCAGGAC
*
43960636 CTACTGTAGCAAAAACGCGTCCACGAGGGCGCGA-TTTCACAAATTCTTCTCAAATAGCATCTTG
1 CTACTGTAGCAAAAACGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
* * * **
43960700 CTAGAAGCGGTTTTATAGTATTTGATTAGAAACGTCAACTCGAAATTATTTCTTCCAGGAC
66 CTAGAAGCGATTTTATACTATTTGATCAGAAACGTCAAC-AAAAATTATTTCTTCCAGGAC
43960761 CTA
1 CTA
43960764 AAAACCCTAA
Statistics
Matches: 116, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
123 63 0.54
124 32 0.28
125 21 0.18
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.30
Consensus pattern (125 bp):
CTACTGTAGCAAAAACGCGTCCACGAGGGCGCGATTTTCACAAATTCTTCTCAAATAGCATCCTG
CTAGAAGCGATTTTATACTATTTGATCAGAAACGTCAACAAAAATTATTTCTTCCAGGAC
Found at i:43961170 original size:22 final size:22
Alignment explanation
Indices: 43961144--43961197 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
43961134 AACAACGATA
43961144 ATGAAAAGCAATGTTAATAGTC
1 ATGAAAAGCAATGTTAATAGTC
* *
43961166 GTGAAAATCAATGTTAATAGTC
1 ATGAAAAGCAATGTTAATAGTC
43961188 ATGAAAAGCA
1 ATGAAAAGCA
43961198 TGGATACAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.46, C:0.09, G:0.19, T:0.26
Consensus pattern (22 bp):
ATGAAAAGCAATGTTAATAGTC
Found at i:43961462 original size:17 final size:17
Alignment explanation
Indices: 43961440--43961473 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
43961430 AATATTTTCA
43961440 TTTTTTCACTAAAAATG
1 TTTTTTCACTAAAAATG
43961457 TTTTTTCACTAAAAATG
1 TTTTTTCACTAAAAATG
43961474 CATTATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (17 bp):
TTTTTTCACTAAAAATG
Found at i:43963598 original size:23 final size:23
Alignment explanation
Indices: 43963563--43963607 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
43963553 TCTTATTTAA
**
43963563 TTCAAATTGATTAT-AATATTATT
1 TTCAAATAAATTATCAA-ATTATT
43963586 TTCAAATAAATTATCAAATTAT
1 TTCAAATAAATTATCAAATTAT
43963608 AAAATGACAC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.44, C:0.07, G:0.02, T:0.47
Consensus pattern (23 bp):
TTCAAATAAATTATCAAATTATT
Found at i:43968183 original size:21 final size:21
Alignment explanation
Indices: 43968142--43968184 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
43968132 AATAAAGTAG
*
43968142 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
*
43968163 ATTATATTTTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
43968184 A
1 A
43968185 AATTCATATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:43968640 original size:20 final size:20
Alignment explanation
Indices: 43968615--43968657 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
43968605 TGTTTTTCAA
43968615 TTTTCAAAAATGAGAATTTT
1 TTTTCAAAAATGAGAATTTT
43968635 TTTTCAAAAATGAGAATTTT
1 TTTTCAAAAATGAGAATTTT
43968655 TTT
1 TTT
43968658 ATTTTTAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.05, G:0.09, T:0.49
Consensus pattern (20 bp):
TTTTCAAAAATGAGAATTTT
Found at i:43995225 original size:8 final size:8
Alignment explanation
Indices: 43995214--43995248 Score: 61
Period size: 8 Copynumber: 4.2 Consensus size: 8
43995204 ATATGTATAG
43995214 GTGTATCA
1 GTGTATCA
43995222 GTGTATCA
1 GTGTATCA
43995230 GTGTATCA
1 GTGTATCA
43995238 GTGTATGCA
1 GTGTAT-CA
43995247 GT
1 GT
43995249 CCAAAAGAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 22 0.85
9 4 0.15
ACGTcount: A:0.23, C:0.11, G:0.29, T:0.37
Consensus pattern (8 bp):
GTGTATCA
Found at i:43998600 original size:34 final size:33
Alignment explanation
Indices: 43998549--43998619 Score: 115
Period size: 34 Copynumber: 2.1 Consensus size: 33
43998539 TTTTAATTTG
*
43998549 TAATAATTAAAAGTTAATTATTGATGTAACTAC
1 TAATAATTAAAAGTTAATTATAGATGTAACTAC
*
43998582 TAATAATTAAAAAGTTAATTATAGATTTAACTAC
1 TAATAATT-AAAAGTTAATTATAGATGTAACTAC
43998616 TAAT
1 TAAT
43998620 CTTATATTTT
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
33 8 0.23
34 27 0.77
ACGTcount: A:0.48, C:0.06, G:0.07, T:0.39
Consensus pattern (33 bp):
TAATAATTAAAAGTTAATTATAGATGTAACTAC
Found at i:43998944 original size:29 final size:30
Alignment explanation
Indices: 43998912--43998975 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 30
43998902 AAGTTTCACG
*
43998912 TATATAATTAT-ATCAAATTAAAATTCATA
1 TATACAATTATAATCAAATTAAAATTCATA
*
43998941 TATACAATTATACATTAAATTAAAATTCATA
1 TATACAATTATA-ATCAAATTAAAATTCATA
43998972 TATA
1 TATA
43998976 ATTTTCTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
29 10 0.32
31 21 0.68
ACGTcount: A:0.52, C:0.08, G:0.00, T:0.41
Consensus pattern (30 bp):
TATACAATTATAATCAAATTAAAATTCATA
Found at i:44000442 original size:17 final size:17
Alignment explanation
Indices: 44000404--44000443 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
44000394 ATGAAAATAT
44000404 TTTTTTATTATTTTCTA
1 TTTTTTATTATTTTCTA
*
44000421 ATTTTTATATATTTT-TA
1 TTTTTTAT-TATTTTCTA
44000438 TTTTTT
1 TTTTTT
44000444 CTAAAAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.20, C:0.03, G:0.00, T:0.78
Consensus pattern (17 bp):
TTTTTTATTATTTTCTA
Found at i:44000443 original size:18 final size:18
Alignment explanation
Indices: 44000401--44000443 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 18
44000391 TTAATGAAAA
44000401 TATTTTTTTATTATTTTC
1 TATTTTTTTATTATTTTC
*
44000419 TA-ATTTTTATATATTTT-
1 TATTTTTTTAT-TATTTTC
44000436 TATTTTTT
1 TATTTTTT
44000444 CTAAAAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 4
0.78 0.07 0.15
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (18 bp):
TATTTTTTTATTATTTTC
Done.