Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032249.1 Gossypioides kirkii chromosome KI_07
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: 37252039
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Warning! 2100 characters in sequence are not A, C, G, or T
File 30 of 120
Found at i:7840450 original size:20 final size:21
Alignment explanation
Indices: 7840425--7840469 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 21
7840415 TAGAATAACT
7840425 AAACCT-ATGAAAAAGGAAGA
1 AAACCTAATGAAAAAGGAAGA
*
7840445 AAACCTAAATTAAAAAGGAAGA
1 AAACCT-AATGAAAAAGGAAGA
7840467 AAA
1 AAA
7840470 TATCTAATGA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.27
22 16 0.73
ACGTcount: A:0.64, C:0.09, G:0.16, T:0.11
Consensus pattern (21 bp):
AAACCTAATGAAAAAGGAAGA
Found at i:7843427 original size:18 final size:18
Alignment explanation
Indices: 7843404--7843460 Score: 69
Period size: 18 Copynumber: 3.0 Consensus size: 18
7843394 TATAGTGTTG
*
7843404 TTTTTTGCTGTTTTGGTT
1 TTTTTTACTGTTTTGGTT
7843422 TTTTTTACTGTTTTGGTGCTT
1 TTTTTTACTGTTTT-G-G-TT
*
7843443 TTTTTTACTATTTTGGTT
1 TTTTTTACTGTTTTGGTT
7843461 GTTATTTTGG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
18 15 0.44
19 2 0.06
20 2 0.06
21 15 0.44
ACGTcount: A:0.05, C:0.07, G:0.18, T:0.70
Consensus pattern (18 bp):
TTTTTTACTGTTTTGGTT
Found at i:7843446 original size:21 final size:20
Alignment explanation
Indices: 7843398--7843459 Score: 74
Period size: 21 Copynumber: 3.1 Consensus size: 20
7843388 AAAAATTATA
*
7843398 GTGTTGTTTTTTGCTGTTTT-
1 GTGTT-TTTTTTACTGTTTTG
7843418 G-GTTTTTTTTACTGTTTTG
1 GTGTTTTTTTTACTGTTTTG
*
7843437 GTGCTTTTTTTTACTATTTTG
1 GTG-TTTTTTTTACTGTTTTG
7843458 GT
1 GT
7843460 TGTTATTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
18 13 0.35
19 4 0.11
20 2 0.05
21 18 0.49
ACGTcount: A:0.05, C:0.06, G:0.21, T:0.68
Consensus pattern (20 bp):
GTGTTTTTTTTACTGTTTTG
Found at i:7843466 original size:12 final size:12
Alignment explanation
Indices: 7843451--7843545 Score: 61
Period size: 12 Copynumber: 8.1 Consensus size: 12
7843441 TTTTTTTTAC
7843451 TATTTTGGTTGT
1 TATTTTGGTTGT
*
7843463 TATTTTGG-TGC
1 TATTTTGGTTGT
*
7843474 TATTTTTGCTT-T
1 TA-TTTTGGTTGT
* *
7843486 T-TTTTTGTTGA
1 TATTTTGGTTGT
* * *
7843497 TGTTTTTGTTGC
1 TATTTTGGTTGT
*
7843509 TATTTTTGTTGT
1 TATTTTGGTTGT
* * *
7843521 TATTTTTGCTGC
1 TATTTTGGTTGT
7843533 TATTTTGGTTGT
1 TATTTTGGTTGT
7843545 T
1 T
7843546 TGGATGTTAT
Statistics
Matches: 65, Mismatches: 14, Indels: 8
0.75 0.16 0.09
Matches are distributed among these distances:
10 6 0.09
11 5 0.08
12 53 0.82
13 1 0.02
ACGTcount: A:0.07, C:0.05, G:0.20, T:0.67
Consensus pattern (12 bp):
TATTTTGGTTGT
Found at i:7843468 original size:21 final size:21
Alignment explanation
Indices: 7843423--7843468 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7843413 GTTTTGGTTT
* *
7843423 TTTTTACTGTTTTGGTGCTTT
1 TTTTTACTATTTTGGTGCTTA
7843444 TTTTTACTATTTTGGTTG-TTA
1 TTTTTACTATTTTGG-TGCTTA
7843465 TTTT
1 TTTT
7843469 GGTGCTATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 20 0.91
22 2 0.09
ACGTcount: A:0.09, C:0.07, G:0.15, T:0.70
Consensus pattern (21 bp):
TTTTTACTATTTTGGTGCTTA
Found at i:7843480 original size:24 final size:23
Alignment explanation
Indices: 7843451--7843541 Score: 67
Period size: 23 Copynumber: 3.9 Consensus size: 23
7843441 TTTTTTTTAC
* * *
7843451 TATTTTGGTTGTTATTTTGGTGC
1 TATTTTTGTTGCTATTTTGGTGA
* * *
7843474 TATTTTTGCTT-TTTTTTTGTTGA
1 TATTTTTG-TTGCTATTTTGGTGA
* * *
7843497 TGTTTTTGTTGCTATTTTTGTTGT
1 TATTTTTGTTGCTA-TTTTGGTGA
*
7843521 TATTTTTGCTGCTATTTTGGT
1 TATTTTTGTTGCTATTTTGGT
7843542 TGTTTGGATG
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
22 2 0.04
23 30 0.56
24 22 0.41
ACGTcount: A:0.08, C:0.05, G:0.20, T:0.67
Consensus pattern (23 bp):
TATTTTTGTTGCTATTTTGGTGA
Found at i:7843492 original size:35 final size:35
Alignment explanation
Indices: 7843432--7843541 Score: 104
Period size: 35 Copynumber: 3.2 Consensus size: 35
7843422 TTTTTTACTG
** *
7843432 TTTTGGTGCT-TTTTT-TTACTATTTTGGTTGTTA
1 TTTTGGTGCTATTTTTGTTGTTATTTTTGTTGTTA
7843465 TTTTGGTGCTATTTTTGCTT-TT-TTTTTGTTGATGT-
1 TTTTGGTGCTATTTTTG-TTGTTATTTTTGTTG-T-TA
* * *
7843500 TTTTGTTGCTATTTTTGTTGTTATTTTTGCTGCTA
1 TTTTGGTGCTATTTTTGTTGTTATTTTTGTTGTTA
7843535 TTTTGGT
1 TTTTGGT
7843542 TGTTTGGATG
Statistics
Matches: 63, Mismatches: 6, Indels: 14
0.76 0.07 0.17
Matches are distributed among these distances:
33 10 0.16
34 16 0.25
35 26 0.41
36 11 0.17
ACGTcount: A:0.07, C:0.06, G:0.19, T:0.67
Consensus pattern (35 bp):
TTTTGGTGCTATTTTTGTTGTTATTTTTGTTGTTA
Found at i:7843543 original size:24 final size:24
Alignment explanation
Indices: 7843463--7843545 Score: 80
Period size: 24 Copynumber: 3.5 Consensus size: 24
7843453 TTTTGGTTGT
* *
7843463 TATTTTGG-TGCTATTTTTGCT-T
1 TATTTTGGTTGTTATTTTTGCTGC
* * * * *
7843485 TTTTTTTGTTGATGTTTTTGTTGC
1 TATTTTGGTTGTTATTTTTGCTGC
*
7843509 TATTTTTGTTGTTATTTTTGCTGC
1 TATTTTGGTTGTTATTTTTGCTGC
7843533 TATTTTGGTTGTT
1 TATTTTGGTTGTT
7843546 TGGATGTTAT
Statistics
Matches: 48, Mismatches: 11, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
22 6 0.12
23 10 0.21
24 32 0.67
ACGTcount: A:0.07, C:0.06, G:0.19, T:0.67
Consensus pattern (24 bp):
TATTTTGGTTGTTATTTTTGCTGC
Found at i:7843561 original size:58 final size:58
Alignment explanation
Indices: 7843441--7843563 Score: 135
Period size: 58 Copynumber: 2.1 Consensus size: 58
7843431 GTTTTGGTGC
* ***
7843441 TTTTTT-TTACTATTTTGGTTGTTATTTTGGTGCTATTTTTGCTTTTTTTTTGTTGAT
1 TTTTTTGTTACTATTTTGGTTGTTATTTTGCTGCTATTTTTGCTTTTTGGATGTTGAT
* * * *
7843498 GTTTTTGTTGCTATTTTTGTTGTTATTTTTGCTGCTA-TTTTGGTTGTTTGGATGTT-AT
1 TTTTTTGTTACTATTTTGGTTGTTA-TTTTGCTGCTATTTTTGCTT-TTTGGATGTTGAT
7843556 TTTTTTGT
1 TTTTTTGT
7843564 GTTTTTACTA
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
57 5 0.09
58 32 0.59
59 17 0.31
ACGTcount: A:0.08, C:0.05, G:0.19, T:0.68
Consensus pattern (58 bp):
TTTTTTGTTACTATTTTGGTTGTTATTTTGCTGCTATTTTTGCTTTTTGGATGTTGAT
Found at i:7846903 original size:16 final size:17
Alignment explanation
Indices: 7846882--7846914 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
7846872 ATTATTCGTT
7846882 TTTCAACATTAG-TGAA
1 TTTCAACATTAGATGAA
7846898 TTTCAACATTAGATGAA
1 TTTCAACATTAGATGAA
7846915 GACGAGTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (17 bp):
TTTCAACATTAGATGAA
Found at i:7855825 original size:27 final size:30
Alignment explanation
Indices: 7855795--7855852 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 30
7855785 GTCATTTGAT
*
7855795 TGTA-TTAAG-GTTCG-GTTATGTGTGACA
1 TGTACTTAAGAGTTCGAATTATGTGTGACA
* *
7855822 TGTACTTAGGAGTTTGAATTATGTGTGACA
1 TGTACTTAAGAGTTCGAATTATGTGTGACA
7855852 T
1 T
7855853 AGATAAAAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
27 4 0.16
28 4 0.16
29 4 0.16
30 13 0.52
ACGTcount: A:0.24, C:0.07, G:0.28, T:0.41
Consensus pattern (30 bp):
TGTACTTAAGAGTTCGAATTATGTGTGACA
Found at i:7860150 original size:13 final size:13
Alignment explanation
Indices: 7860132--7860165 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
7860122 CCTTTGACAA
7860132 TGCACACACATCT
1 TGCACACACATCT
7860145 TGCACACACATCT
1 TGCACACACATCT
7860158 TGCACACA
1 TGCACACA
7860166 TAGGCGCTCG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.32, C:0.38, G:0.09, T:0.21
Consensus pattern (13 bp):
TGCACACACATCT
Found at i:7866869 original size:99 final size:99
Alignment explanation
Indices: 7866758--7866937 Score: 213
Period size: 99 Copynumber: 1.8 Consensus size: 99
7866748 TAGTTAATTG
* **
7866758 TTTATTTATTTCCTTCGAAGTTCAAAGCATTTT-TTTAAATATATATTAATATATTTACTTATTA
1 TTTATTTATTTCCTTCGAAGTTCAAAGCATTTTATTT--ATAGATATTAATATATCAACTTATTA
7866822 TTTAT-TATACATTAATACATTTATTTCATTTTGCA
64 TTTATATATACATTAATACATTTATTTCATTTTGCA
* ** * * *
7866857 TTTA-TTATTTTCCTTTGATTTTCAAAGCGTTTTATTTTTAGATATTAATATATCAATTTATTAT
1 TTTATTTA-TTTCCTTCGAAGTTCAAAGCATTTTATTTATAGATATTAATATATCAACTTATTAT
* *
7866921 TTTTATATATATTAATA
65 TTATATATACATTAATA
7866938 TACTTATTCA
Statistics
Matches: 67, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
98 28 0.42
99 36 0.54
100 3 0.04
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (99 bp):
TTTATTTATTTCCTTCGAAGTTCAAAGCATTTTATTTATAGATATTAATATATCAACTTATTATT
TATATATACATTAATACATTTATTTCATTTTGCA
Found at i:7868004 original size:60 final size:59
Alignment explanation
Indices: 7867910--7868224 Score: 300
Period size: 60 Copynumber: 5.3 Consensus size: 59
7867900 GTTTTATTTA
* * * * *
7867910 AAAATTACATTTTAACCCCTAAATTTCTTTAAAATTACATTTTAACCCTTAAATTTTTCT
1 AAAATTACATTTTAACCCATAAACTT-TTCAAAATTACATTTTAACCCTTAAACTTTTCC
* * *
7867970 AAAATTACATTTTGACCCATAAACTTTTCAAAAATTACATTTTGA-CCTATAAACTTTTCA
1 AAAATTACATTTTAACCCATAAACTTTTC-AAAATTACATTTTAACCCT-TAAACTTTTCC
** * * *
7868030 AAAATTGTATTTTAACCCTTAAACTTCTT-AAAATTACATTTTAACCCTCAAACTTCTCC
1 AAAATTACATTTTAACCCATAAACTT-TTCAAAATTACATTTTAACCCTTAAACTTTTCC
* * * * * *
7868089 AAAATTACA-TTTGACCCATAAAACCTTCTCAAAATCACATTTTGACCC-TAAACTTCTCT
1 AAAATTACATTTTAACCCAT-AAA-CTTTTCAAAATTACATTTTAACCCTTAAACTTTTCC
* * *
7868148 AAAATCACATTTTAACCC-TAAACTTTCCCAAAATTACATTTTTAAACC-TAAACTTTTCC
1 AAAATTACATTTTAACCCATAAACTTT-TCAAAATTACA-TTTTAACCCTTAAACTTTTCC
* *
7868207 AAAAGTACGTTTTAACCC
1 AAAATTACATTTTAACCC
7868225 CTTATTCTCC
Statistics
Matches: 209, Mismatches: 36, Indels: 21
0.79 0.14 0.08
Matches are distributed among these distances:
57 3 0.01
58 20 0.10
59 87 0.42
60 97 0.46
61 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (59 bp):
AAAATTACATTTTAACCCATAAACTTTTCAAAATTACATTTTAACCCTTAAACTTTTCC
Found at i:7868072 original size:29 final size:29
Alignment explanation
Indices: 7867910--7868224 Score: 241
Period size: 30 Copynumber: 10.6 Consensus size: 29
7867900 GTTTTATTTA
* *
7867910 AAAATTACATTTTAACCCCTAAATTTCTTT
1 AAAATTACATTTTAACCCTTAAACTTC-TT
* *
7867940 AAAATTACATTTTAACCCTTAAATTTTTCT
1 AAAATTACATTTTAACCCTTAAACTTCT-T
* *
7867970 AAAATTACATTTTGACCCATAAACTT-TT
1 AAAATTACATTTTAACCCTTAAACTTCTT
*
7867998 CAAAAATTACATTTTGA-CCTATAAACTT-TT
1 --AAAATTACATTTTAACCCT-TAAACTTCTT
**
7868028 CAAAAATTGTATTTTAACCCTTAAACTTCTT
1 --AAAATTACATTTTAACCCTTAAACTTCTT
* *
7868059 AAAATTACATTTTAACCCTCAAACTTCTCC
1 AAAATTACATTTTAACCCTTAAACTTCT-T
* * *
7868089 AAAATTACA-TTTGACCCATAAAACCTTCTC
1 AAAATTACATTTTAACCC-TTAAA-CTTCTT
* *
7868119 AAAATCACATTTTGACCC-TAAACTTCTCT
1 AAAATTACATTTTAACCCTTAAACTTCT-T
* **
7868148 AAAATCACATTTTAACCC-TAAACTTTCCC
1 AAAATTACATTTTAACCCTTAAAC-TTCTT
*
7868177 AAAATTACATTTTTAAACC-TAAACTT-TT
1 AAAATTACA-TTTTAACCCTTAAACTTCTT
* *
7868205 CCAAAAGTACGTTTTAACCC
1 --AAAATTACATTTTAACCC
7868225 CTTATTCTCC
Statistics
Matches: 242, Mismatches: 28, Indels: 31
0.80 0.09 0.10
Matches are distributed among these distances:
28 6 0.02
29 79 0.33
30 139 0.57
31 18 0.07
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (29 bp):
AAAATTACATTTTAACCCTTAAACTTCTT
Found at i:7868123 original size:89 final size:87
Alignment explanation
Indices: 7867910--7868188 Score: 303
Period size: 89 Copynumber: 3.1 Consensus size: 87
7867900 GTTTTATTTA
* * * ** * * *
7867910 AAAATTACATTTTAACCCCTAAATTTCTTTAAAATTACATTTTAACCCTTAAATTTTTCTAAAAT
1 AAAATTACA-TTTGACCCATAAACTTCTCAAAAATCACATTTTAACCCTTAAACTTCTCTAAAAT
* *
7867975 TACATTTTGACCCATAAACTTTTCA
65 TACATTTTAACCC-TAAAC-TTTCC
* * ***
7868000 AAAATTACATTTTGACCTATAAACTTTTCAAAAATTGTATTTTAACCCTTAAACTTCT-TAAAAT
1 AAAATTACA-TTTGACCCATAAACTTCTCAAAAATCACATTTTAACCCTTAAACTTCTCTAAAAT
7868064 TACATTTTAACCCTCAAACTTCTCC
65 TACATTTTAACCCT-AAACTT-TCC
*
7868089 AAAATTACATTTGACCCATAAAACCTTCTC-AAAATCACATTTTGACCC-TAAACTTCTCTAAAA
1 AAAATTACATTTGACCCAT-AAA-CTTCTCAAAAATCACATTTTAACCCTTAAACTTCTCTAAAA
*
7868152 TCACATTTTAACCCTAAACTTTCCC
64 TTACATTTTAACCCTAAACTTT-CC
7868177 AAAATTACATTT
1 AAAATTACATTT
7868189 TTAAACCTAA
Statistics
Matches: 163, Mismatches: 20, Indels: 14
0.83 0.10 0.07
Matches are distributed among these distances:
87 1 0.01
88 41 0.25
89 69 0.42
90 52 0.32
ACGTcount: A:0.38, C:0.22, G:0.02, T:0.38
Consensus pattern (87 bp):
AAAATTACATTTGACCCATAAACTTCTCAAAAATCACATTTTAACCCTTAAACTTCTCTAAAATT
ACATTTTAACCCTAAACTTTCC
Found at i:7868220 original size:59 final size:58
Alignment explanation
Indices: 7867940--7868224 Score: 236
Period size: 59 Copynumber: 4.8 Consensus size: 58
7867930 AAATTTCTTT
* * * * * *
7867940 AAAATTACATTTTAACCCTTAAATTTTTCTAAAATTACATTTTGACCCATAAACTTTTCA
1 AAAATTACATTTTAACCC-TAAACTTTTCCAAAAGTAC-TTTTAACCCATAAACTTTCCC
* * * * **
7868000 AAAATTACATTTTGACCTATAAACTTTTCAAAAATTGTA-TTTTAACCCTTAAAC-TTCTT
1 AAAATTACATTTTAACC-CTAAACTTTTCCAAAA--GTACTTTTAACCCATAAACTTTCCC
* * * * * *
7868059 AAAATTACATTTTAACCCTCAAACTTCTCCAAAATTACATTTGACCCATAAAACCTTCTC
1 AAAATTACATTTTAACCCT-AAACTTTTCCAAAAGTACTTTTAACCCAT-AAACTTTCCC
* * * *
7868119 AAAATCACATTTTGACCCTAAACTTCTCTAAAA-TCACATTTTAACCC-TAAACTTTCCC
1 AAAATTACATTTTAACCCTAAACTTTTCCAAAAGT-AC-TTTTAACCCATAAACTTTCCC
*
7868177 AAAATTACATTTTTAAACCTAAACTTTTCCAAAAGTACGTTTTAACCC
1 AAAATTACA-TTTTAACCCTAAACTTTTCCAAAAGTAC-TTTTAACCC
7868225 CTTATTCTCC
Statistics
Matches: 182, Mismatches: 32, Indels: 23
0.77 0.14 0.10
Matches are distributed among these distances:
57 2 0.01
58 26 0.14
59 81 0.45
60 71 0.39
62 2 0.01
ACGTcount: A:0.38, C:0.23, G:0.02, T:0.37
Consensus pattern (58 bp):
AAAATTACATTTTAACCCTAAACTTTTCCAAAAGTACTTTTAACCCATAAACTTTCCC
Found at i:7869858 original size:15 final size:13
Alignment explanation
Indices: 7869840--7869913 Score: 57
Period size: 12 Copynumber: 5.8 Consensus size: 13
7869830 GACAAAAATG
7869840 AATTTTAAATTCATA
1 AATTTTAAA-TC-TA
*
7869855 AATTTCAAATCTA
1 AATTTTAAATCTA
*
7869868 AAATTTAAA-C-A
1 AATTTTAAATCTA
7869879 AA-TTTAAATCTA
1 AATTTTAAATCTA
*
7869891 AA-TTTAAATTTA
1 AATTTTAAATCTA
*
7869903 ATTTTTCAAAT
1 AATTTT-AAAT
7869914 GCTACTATAA
Statistics
Matches: 50, Mismatches: 5, Indels: 9
0.78 0.08 0.14
Matches are distributed among these distances:
10 6 0.12
11 4 0.08
12 14 0.28
13 12 0.24
14 6 0.12
15 8 0.16
ACGTcount: A:0.49, C:0.08, G:0.00, T:0.43
Consensus pattern (13 bp):
AATTTTAAATCTA
Found at i:7869875 original size:28 final size:24
Alignment explanation
Indices: 7869843--7869900 Score: 66
Period size: 22 Copynumber: 2.3 Consensus size: 24
7869833 AAAAATGAAT
7869843 TTTAAATTCATAAATTTCAAATCTAAAA
1 TTTAAATTC--AAATTT-AAATCT-AAA
7869871 TTTAAA--CAAATTTAAATCTAAA
1 TTTAAATTCAAATTTAAATCTAAA
7869893 TTTAAATT
1 TTTAAATT
7869901 TAATTTTTCA
Statistics
Matches: 28, Mismatches: 0, Indels: 8
0.78 0.00 0.22
Matches are distributed among these distances:
22 9 0.32
23 6 0.21
24 6 0.21
26 1 0.04
28 6 0.21
ACGTcount: A:0.50, C:0.09, G:0.00, T:0.41
Consensus pattern (24 bp):
TTTAAATTCAAATTTAAATCTAAA
Found at i:7869906 original size:23 final size:24
Alignment explanation
Indices: 7869854--7869898 Score: 76
Period size: 22 Copynumber: 2.0 Consensus size: 24
7869844 TTAAATTCAT
7869854 AAATTTCAAATCTAAAATTTAAAC
1 AAATTTCAAATCTAAAATTTAAAC
7869878 AAATTT-AAATCT-AAATTTAAA
1 AAATTTCAAATCTAAAATTTAAA
7869899 TTTAATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 9 0.43
23 6 0.29
24 6 0.29
ACGTcount: A:0.56, C:0.09, G:0.00, T:0.36
Consensus pattern (24 bp):
AAATTTCAAATCTAAAATTTAAAC
Found at i:7879072 original size:17 final size:18
Alignment explanation
Indices: 7879040--7879073 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7879030 GTGGAAAGCA
7879040 AAATACTAAGCTAAGTAG
1 AAATACTAAGCTAAGTAG
*
7879058 AAATTCTAA-CTAAGTA
1 AAATACTAAGCTAAGTA
7879074 CATGTCGATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.26
Consensus pattern (18 bp):
AAATACTAAGCTAAGTAG
Found at i:7882459 original size:47 final size:47
Alignment explanation
Indices: 7882405--7882499 Score: 190
Period size: 47 Copynumber: 2.0 Consensus size: 47
7882395 GTACCATCCA
7882405 TAAAAGAATGGACAAGCGGAGGTCTTCAATTGACAAATTAAAGGAAT
1 TAAAAGAATGGACAAGCGGAGGTCTTCAATTGACAAATTAAAGGAAT
7882452 TAAAAGAATGGACAAGCGGAGGTCTTCAATTGACAAATTAAAGGAAT
1 TAAAAGAATGGACAAGCGGAGGTCTTCAATTGACAAATTAAAGGAAT
7882499 T
1 T
7882500 CTTGAAAAGG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.44, C:0.11, G:0.23, T:0.22
Consensus pattern (47 bp):
TAAAAGAATGGACAAGCGGAGGTCTTCAATTGACAAATTAAAGGAAT
Found at i:7891532 original size:30 final size:30
Alignment explanation
Indices: 7891498--7891557 Score: 111
Period size: 30 Copynumber: 2.0 Consensus size: 30
7891488 AAGTGATTGG
7891498 TTAGAAGCATGTACAATAGGTTGACTGTAT
1 TTAGAAGCATGTACAATAGGTTGACTGTAT
*
7891528 TTAGAAGCATGTACAATAGGTTGATTGTAT
1 TTAGAAGCATGTACAATAGGTTGACTGTAT
7891558 CTTTTGAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.33, C:0.08, G:0.23, T:0.35
Consensus pattern (30 bp):
TTAGAAGCATGTACAATAGGTTGACTGTAT
Found at i:7895588 original size:13 final size:14
Alignment explanation
Indices: 7895571--7895610 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
7895561 AGCAAACATT
7895571 TTTTTCTTCTTTTC
1 TTTTTCTTCTTTTC
7895585 -TTTTC-TCTTTTC
1 TTTTTCTTCTTTTC
7895597 TTTTTCTTTCTTTT
1 TTTTTC-TTCTTTT
7895611 TATCATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 7 0.30
13 10 0.43
15 6 0.26
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (14 bp):
TTTTTCTTCTTTTC
Found at i:7895595 original size:12 final size:12
Alignment explanation
Indices: 7895572--7895610 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
7895562 GCAAACATTT
7895572 TTTTCTTCTTTTC
1 TTTTC-TCTTTTC
7895585 TTTTCTCTTTTC
1 TTTTCTCTTTTC
7895597 TTTT-TC-TTTC
1 TTTTCTCTTTTC
7895607 TTTT
1 TTTT
7895611 TATCATTTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 8 0.31
11 2 0.08
12 11 0.42
13 5 0.19
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (12 bp):
TTTTCTCTTTTC
Found at i:7913739 original size:22 final size:22
Alignment explanation
Indices: 7913685--7913739 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
7913675 GATACAGATG
* *
7913685 CAGAGCATTTCAAATTCAGATA
1 CAGAGCATATCAAATTCAAATA
* * *
7913707 TAGAGCTTATCAGATTCAAATA
1 CAGAGCATATCAAATTCAAATA
7913729 CAGAGCATATC
1 CAGAGCATATC
7913740 GTATACAGAT
Statistics
Matches: 26, Mismatches: 7, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
22 26 1.00
ACGTcount: A:0.40, C:0.18, G:0.15, T:0.27
Consensus pattern (22 bp):
CAGAGCATATCAAATTCAAATA
Found at i:7913754 original size:22 final size:21
Alignment explanation
Indices: 7913675--7913755 Score: 54
Period size: 22 Copynumber: 3.7 Consensus size: 21
7913665 AAATATAATA
* *
7913675 GATACAGATGCAGAGCATTTC
1 GATACAGATACAGAGCATATC
* * * *
7913696 AAATTCAGATATAGAGCTTATC
1 -GATACAGATACAGAGCATATC
* *
7913718 AGATTCAAATACAGAGCATATC
1 -GATACAGATACAGAGCATATC
*
7913740 GTATACAGATGCAGAG
1 G-ATACAGATACAGAG
7913756 TCCTACCCCT
Statistics
Matches: 45, Mismatches: 13, Indels: 2
0.75 0.22 0.03
Matches are distributed among these distances:
21 1 0.02
22 44 0.98
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.25
Consensus pattern (21 bp):
GATACAGATACAGAGCATATC
Found at i:7915064 original size:24 final size:25
Alignment explanation
Indices: 7915036--7915095 Score: 70
Period size: 24 Copynumber: 2.4 Consensus size: 25
7915026 GAAGGAAATA
7915036 AAAGAAAAAAACAGAGAAG-AAGAAG
1 AAAGAAAAAAACAG-GAAGAAAGAAG
** *
7915061 -AAGAAAACGACAGGAAGAAAGATG
1 AAAGAAAAAAACAGGAAGAAAGAAG
7915085 AAAGAAAAAAA
1 AAAGAAAAAAA
7915096 ACATAAAAAG
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
23 4 0.14
24 16 0.57
25 8 0.29
ACGTcount: A:0.70, C:0.05, G:0.23, T:0.02
Consensus pattern (25 bp):
AAAGAAAAAAACAGGAAGAAAGAAG
Found at i:7915082 original size:21 final size:22
Alignment explanation
Indices: 7915036--7915087 Score: 54
Period size: 21 Copynumber: 2.5 Consensus size: 22
7915026 GAAGGAAATA
* *
7915036 AAAGAAAAAAACAGAGAAGAAG
1 AAAGAAGAAAACAGACAAGAAG
*
7915058 -AAGAAGAAAAC-GACAGGAAG
1 AAAGAAGAAAACAGACAAGAAG
*
7915078 AAAGATGAAA
1 AAAGAAGAAA
7915088 GAAAAAAAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 7 0.28
21 18 0.72
ACGTcount: A:0.67, C:0.06, G:0.25, T:0.02
Consensus pattern (22 bp):
AAAGAAGAAAACAGACAAGAAG
Found at i:7931722 original size:15 final size:16
Alignment explanation
Indices: 7931702--7931731 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
7931692 TTGTTCTGAC
7931702 ATGTAAGG-TTGTGAA
1 ATGTAAGGCTTGTGAA
7931717 ATGTAAGGCTTGTGA
1 ATGTAAGGCTTGTGA
7931732 TTTTCATGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (16 bp):
ATGTAAGGCTTGTGAA
Found at i:7932766 original size:23 final size:25
Alignment explanation
Indices: 7932740--7932785 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
7932730 CCAATTAGGG
7932740 AATTAT-TGTTTAG-ATTTAATTCT
1 AATTATCTGTTTAGAATTTAATTCT
*
7932763 AATTATCTTTTTAGAATTTAATT
1 AATTATCTGTTTAGAATTTAATT
7932786 TGGATCCAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
23 6 0.30
24 6 0.30
25 8 0.40
ACGTcount: A:0.33, C:0.04, G:0.07, T:0.57
Consensus pattern (25 bp):
AATTATCTGTTTAGAATTTAATTCT
Found at i:7933951 original size:80 final size:80
Alignment explanation
Indices: 7933811--7933970 Score: 248
Period size: 80 Copynumber: 2.0 Consensus size: 80
7933801 ACTTGTATCC
* * * * * *
7933811 AAATCCGTCAATTCATGGCACCCAGTGCCTAGCGGATTAACCGCAATAAGTGAGAACAGCTCTAG
1 AAATCCATCAAATCATGGCACCCAATGCCTAGCGGATAAACCGCAATAAATGAGAACAGCTCTAA
7933876 TTGGATTAACCAACG
66 TTGGATTAACCAACG
**
7933891 AAATCCATCAAATCATGGCACCCAATGCCTAGCGGATAAACCGCAATAAATGAGCCCAGCTCTAA
1 AAATCCATCAAATCATGGCACCCAATGCCTAGCGGATAAACCGCAATAAATGAGAACAGCTCTAA
7933956 TTGGATTAACCAACG
66 TTGGATTAACCAACG
7933971 GTTTGCGCCT
Statistics
Matches: 72, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
80 72 1.00
ACGTcount: A:0.35, C:0.26, G:0.19, T:0.20
Consensus pattern (80 bp):
AAATCCATCAAATCATGGCACCCAATGCCTAGCGGATAAACCGCAATAAATGAGAACAGCTCTAA
TTGGATTAACCAACG
Found at i:7936376 original size:38 final size:38
Alignment explanation
Indices: 7936334--7936424 Score: 110
Period size: 38 Copynumber: 2.4 Consensus size: 38
7936324 CATCTCGTTG
* * *
7936334 AACACCGGCATGATGGCCTGCTAGACATAAAGCCCGAT
1 AACACCGGCATGAAGGCCTACTAGACATAAAGCCCAAT
* *
7936372 AACACTGGCATGAAGGCCTACTAGGCATAAAGCCCAAT
1 AACACCGGCATGAAGGCCTACTAGACATAAAGCCCAAT
* * *
7936410 TACACCAGCACGAAG
1 AACACCGGCATGAAG
7936425 CTTGCTAGGC
Statistics
Matches: 44, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 44 1.00
ACGTcount: A:0.35, C:0.29, G:0.22, T:0.14
Consensus pattern (38 bp):
AACACCGGCATGAAGGCCTACTAGACATAAAGCCCAAT
Found at i:7936448 original size:38 final size:38
Alignment explanation
Indices: 7936397--7936514 Score: 148
Period size: 38 Copynumber: 3.1 Consensus size: 38
7936387 GCCTACTAGG
*
7936397 CATAAAGCCCAATTACACCAGCACGAAGCTTGCTAGGCA
1 CATAAA-CCCAATTACATCAGCACGAAGCTTGCTAGGCA
* *
7936436 CATAAACCCAATTACATCGGCACGAAGCCTGCTAGGCA
1 CATAAACCCAATTACATCAGCACGAAGCTTGCTAGGCA
* * * * *
7936474 CAT-AGCTCGATTACATCTGCATGAAGCTTGCTAGGCA
1 CATAAACCCAATTACATCAGCACGAAGCTTGCTAGGCA
7936511 CATA
1 CATA
7936515 GCTCGATTAC
Statistics
Matches: 69, Mismatches: 9, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
37 31 0.45
38 32 0.46
39 6 0.09
ACGTcount: A:0.33, C:0.29, G:0.19, T:0.19
Consensus pattern (38 bp):
CATAAACCCAATTACATCAGCACGAAGCTTGCTAGGCA
Found at i:7936500 original size:37 final size:37
Alignment explanation
Indices: 7936387--7936595 Score: 204
Period size: 37 Copynumber: 5.6 Consensus size: 37
7936377 TGGCATGAAG
* * * * *
7936387 GCCTACTAGGCATAAAGCCCAATTACACCAGCACGAA
1 GCCTGCTAGGCACATAGCCCGATTACATCAGCACGAA
* * * *
7936424 GCTTGCTAGGCACATAAACCCAATTACATCGGCACGAA
1 GCCTGCTAGGCACAT-AGCCCGATTACATCAGCACGAA
* * *
7936462 GCCTGCTAGGCACATAGCTCGATTACATCTGCATGAA
1 GCCTGCTAGGCACATAGCCCGATTACATCAGCACGAA
* *
7936499 GCTTGCTAGGCACATAGCTCGATTACATC-GACACGAA
1 GCCTGCTAGGCACATAGCCCGATTACATCAG-CACGAA
* ** * * * *
7936536 GCCTACTAGGTGCATAGGCTGATTACACCAACACGAA
1 GCCTGCTAGGCACATAGCCCGATTACATCAGCACGAA
7936573 GCCTGCTAGGCACATAGCCCGAT
1 GCCTGCTAGGCACATAGCCCGAT
7936596 CACTTAAATG
Statistics
Matches: 140, Mismatches: 29, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
36 1 0.01
37 106 0.76
38 33 0.24
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.19
Consensus pattern (37 bp):
GCCTGCTAGGCACATAGCCCGATTACATCAGCACGAA
Found at i:7936552 original size:74 final size:74
Alignment explanation
Indices: 7936408--7936595 Score: 234
Period size: 74 Copynumber: 2.5 Consensus size: 74
7936398 ATAAAGCCCA
* * * * *
7936408 ATTACACCAGCACGAAGCTTGCTAGGCACATAAACCCAATTACATCGGCACGAAGCCTGCTAGGC
1 ATTACACCAACACGAAGCTTGCTAGGCACAT-AGCCCGATTACATCGACACGAAGCCTACTAGGC
7936473 ACATA-GCTCG
65 ACATAGGCT-G
* ** * * **
7936483 ATTACATCTGCATGAAGCTTGCTAGGCACATAGCTCGATTACATCGACACGAAGCCTACTAGGTG
1 ATTACACCAACACGAAGCTTGCTAGGCACATAGCCCGATTACATCGACACGAAGCCTACTAGGCA
7936548 CATAGGCTG
66 CATAGGCTG
*
7936557 ATTACACCAACACGAAGCCTGCTAGGCACATAGCCCGAT
1 ATTACACCAACACGAAGCTTGCTAGGCACATAGCCCGAT
7936596 CACTTAAATG
Statistics
Matches: 96, Mismatches: 16, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
74 65 0.68
75 31 0.32
ACGTcount: A:0.31, C:0.29, G:0.21, T:0.20
Consensus pattern (74 bp):
ATTACACCAACACGAAGCTTGCTAGGCACATAGCCCGATTACATCGACACGAAGCCTACTAGGCA
CATAGGCTG
Found at i:7941013 original size:17 final size:17
Alignment explanation
Indices: 7940993--7941086 Score: 95
Period size: 17 Copynumber: 5.6 Consensus size: 17
7940983 AATGGACCCA
7940993 ATTTTAAATTTTAATTT
1 ATTTTAAATTTTAATTT
7941010 A-TTT-AATTTTGAATTT
1 ATTTTAAATTTT-AATTT
* *
7941026 ACTTTAAA-TTTAAATT
1 ATTTTAAATTTTAATTT
* * *
7941042 AGTTTTGAGTTTGAATTT
1 A-TTTTAAATTTTAATTT
*
7941060 ATTTTAAATTTAAATTT
1 ATTTTAAATTTTAATTT
7941077 ATTTTAAATT
1 ATTTTAAATT
7941087 AAATTTAAAC
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
15 6 0.10
16 14 0.22
17 34 0.54
18 9 0.14
ACGTcount: A:0.35, C:0.01, G:0.05, T:0.59
Consensus pattern (17 bp):
ATTTTAAATTTTAATTT
Found at i:7941039 original size:6 final size:6
Alignment explanation
Indices: 7940995--7941102 Score: 59
Period size: 6 Copynumber: 19.0 Consensus size: 6
7940985 TGGACCCAAT
* * * *
7940995 TTTAAA TTTTAA TTT--A TTTAAT TTTGAA TTT-AC TTTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
** * * * * *
7941040 -TTAGT TTTGAG TTTGAA TTT-AT TTTAAA TTTAAA TTT-AT TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
7941085 -TTAAA TTTAAA CTTTAAA
1 TTTAAA TTTAAA -TTTAAA
7941103 ATTCCAAATA
Statistics
Matches: 78, Mismatches: 16, Indels: 15
0.72 0.15 0.14
Matches are distributed among these distances:
4 4 0.05
5 20 0.26
6 48 0.62
7 6 0.08
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:7941071 original size:11 final size:11
Alignment explanation
Indices: 7940995--7941094 Score: 53
Period size: 11 Copynumber: 9.0 Consensus size: 11
7940985 TGGACCCAAT
7940995 TTTAAATTTTAA
1 TTTAAA-TTTAA
7941007 TTT--ATTTAA
1 TTTAAATTTAA
* *
7941016 TTTTGAATTTAC
1 -TTTAAATTTAA
7941028 TTTAAATTTAA
1 TTTAAATTTAA
* ** *
7941039 ATTAGTTTTGAG
1 TTTAAATTT-AA
* *
7941051 TTTGAATTTAT
1 TTTAAATTTAA
7941062 TTTAAATTTAAA
1 TTTAAATTT-AA
*
7941074 TTT-ATTTTAA
1 TTTAAATTTAA
*
7941084 ATTAAATTTAA
1 TTTAAATTTAA
7941095 ACTTTAAAAT
Statistics
Matches: 65, Mismatches: 17, Indels: 13
0.68 0.18 0.14
Matches are distributed among these distances:
9 5 0.08
10 8 0.12
11 34 0.52
12 18 0.28
ACGTcount: A:0.37, C:0.01, G:0.05, T:0.57
Consensus pattern (11 bp):
TTTAAATTTAA
Found at i:7942867 original size:30 final size:30
Alignment explanation
Indices: 7942833--7942929 Score: 97
Period size: 30 Copynumber: 3.2 Consensus size: 30
7942823 CCCAGAAGGT
* * *
7942833 CCCTAAATTTTCTAGAAATCATATTTTGAC
1 CCCTAAATTTTCTAAAAATCACATTTTAAC
* *
7942863 CCCTAAACTCTT-TAAAAATTACATTTTAAC
1 CCCTAAA-TTTTCTAAAAATCACATTTTAAC
* * *
7942893 CCCTAAACTTTCCAAAAATTACATTTTAAC
1 CCCTAAATTTTCTAAAAATCACATTTTAAC
*
7942923 CCTTAAA
1 CCCTAAA
7942930 CTTCTCAAAA
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
29 2 0.04
30 51 0.91
31 3 0.05
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (30 bp):
CCCTAAATTTTCTAAAAATCACATTTTAAC
Found at i:7942977 original size:29 final size:29
Alignment explanation
Indices: 7942855--7943066 Score: 178
Period size: 30 Copynumber: 7.2 Consensus size: 29
7942845 TAGAAATCAT
* **
7942855 ATTTTGACCCCTAAACTCTTTAAAAATTAC
1 ATTTTTACCCCTAAACT-TCCAAAAATTAC
*
7942885 ATTTTAACCCCTAAACTTTCCAAAAATTAC
1 ATTTTTACCCCTAAAC-TTCCAAAAATTAC
* * * *
7942915 ATTTTAACCCTTAAACTTCTCAAAAAGTAT
1 ATTTTTACCCCTAAACTTC-CAAAAATTAC
* * * *
7942945 ATTTTTACCCTTGAACTTCCAAAAATCAT
1 ATTTTTACCCCTAAACTTCCAAAAATTAC
* ** * *
7942974 ATTTTCACCCCGT--ACTTCTTAAAATCAA
1 ATTTTTACCCC-TAAACTTCCAAAAATTAC
* *
7943002 AATTTTACCCCTAAATTTCCAAAAATTAC
1 ATTTTTACCCCTAAACTTCCAAAAATTAC
7943031 ATTTTTA-CCCTCAAACTTCTCAAAAATTAC
1 ATTTTTACCCCT-AAACTTC-CAAAAATTAC
7943061 ATTTTT
1 ATTTTT
7943067 GCTCACGAAT
Statistics
Matches: 151, Mismatches: 24, Indels: 14
0.80 0.13 0.07
Matches are distributed among these distances:
27 1 0.01
28 25 0.17
29 42 0.28
30 82 0.54
31 1 0.01
ACGTcount: A:0.37, C:0.24, G:0.02, T:0.37
Consensus pattern (29 bp):
ATTTTTACCCCTAAACTTCCAAAAATTAC
Found at i:7943083 original size:29 final size:29
Alignment explanation
Indices: 7942876--7943089 Score: 119
Period size: 30 Copynumber: 7.3 Consensus size: 29
7942866 TAAACTCTTT
*
7942876 AAAAATTACATTTTAACCC-CTAAACTTTCC
1 AAAAATTACATTTTTACCCAC-AAA-TTTCC
* ** *
7942906 AAAAATTACATTTTAACCCTTAAACTTCTC
1 AAAAATTACATTTTTACCCACAAATTTC-C
* * *** *
7942936 AAAAAGTATATTTTTACCCTTGAACTTCC
1 AAAAATTACATTTTTACCCACAAATTTCC
* * * ** * *
7942965 AAAAATCATATTTTCACCC-CGTACTTCT
1 AAAAATTACATTTTTACCCACAAATTTCC
* * * *
7942993 TAAAATCAAAATTTTACCC-CTAAATTTCC
1 AAAAATTACATTTTTACCCAC-AAATTTCC
* *
7943022 AAAAATTACATTTTTACCCTCAAACTTCTC
1 AAAAATTACATTTTTACCCACAAATTTC-C
* * *
7943052 AAAAATTACATTTTTGCTCACGAATTTCC
1 AAAAATTACATTTTTACCCACAAATTTCC
7943081 AAAAATTAC
1 AAAAATTAC
7943090 CGTTTGCCAC
Statistics
Matches: 149, Mismatches: 30, Indels: 11
0.78 0.16 0.06
Matches are distributed among these distances:
28 22 0.15
29 55 0.37
30 72 0.48
ACGTcount: A:0.38, C:0.24, G:0.02, T:0.36
Consensus pattern (29 bp):
AAAAATTACATTTTTACCCACAAATTTCC
Found at i:7943137 original size:116 final size:115
Alignment explanation
Indices: 7942876--7943134 Score: 270
Period size: 116 Copynumber: 2.2 Consensus size: 115
7942866 TAAACTCTTT
* *
7942876 AAAAATTACATTTTAACCCCTAAACTTTCCAAAAATTACATTTTAACCCTTAAACTTCTCAAAAA
1 AAAAATCACATTTT-ACCCCTAAA-TTTCCAAAAATTACATTTTAACCCTCAAACTTCTCAAAAA
* ** * * * *
7942941 GTATATTTTTACCCTTGAACTTCCAAAAATCATATTTTCACCCCGTACTTCT
64 GTACATTTTTACCCACGAACTTCCAAAAATCACAGTTTCACCACGTACTTCC
* * * *
7942993 TAAAATCAAAATTTTACCCCTAAATTTCCAAAAATTACATTTTTACCCTCAAACTTCTCAAAAAT
1 AAAAATC-ACATTTTACCCCTAAATTTCCAAAAATTACATTTTAACCCTCAAACTTCTCAAAAAG
* * * * * * *
7943058 TACATTTTTGCTCACGAATTTCCAAAAATTACCGTTT-GCCACG-AGTATCC
65 TACATTTTTACCCACGAACTTCCAAAAATCACAGTTTCACCACGTACT-TCC
*
7943108 AAAAATCACCATTTTACCCTTAAATTT
1 AAAAATCA-CATTTTACCCCTAAATTT
7943135 TCCTAAAGTT
Statistics
Matches: 116, Mismatches: 23, Indels: 8
0.79 0.16 0.05
Matches are distributed among these distances:
114 3 0.03
115 28 0.24
116 65 0.56
117 14 0.12
118 6 0.05
ACGTcount: A:0.37, C:0.24, G:0.03, T:0.35
Consensus pattern (115 bp):
AAAAATCACATTTTACCCCTAAATTTCCAAAAATTACATTTTAACCCTCAAACTTCTCAAAAAGT
ACATTTTTACCCACGAACTTCCAAAAATCACAGTTTCACCACGTACTTCC
Found at i:7943162 original size:28 final size:29
Alignment explanation
Indices: 7943130--7943185 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
7943120 TTTACCCTTA
* *
7943130 AATTTTCC-TAAAGTTTGGTTTTAATCCT
1 AATTTTCCATAAACTTTGATTTTAATCCT
*
7943158 AATTTTCCATAAACTTTGATTTTGATCC
1 AATTTTCCATAAACTTTGATTTTAATCC
7943186 CCAAATTCCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 8 0.33
29 16 0.67
ACGTcount: A:0.27, C:0.16, G:0.09, T:0.48
Consensus pattern (29 bp):
AATTTTCCATAAACTTTGATTTTAATCCT
Found at i:7952064 original size:29 final size:29
Alignment explanation
Indices: 7951959--7952162 Score: 130
Period size: 30 Copynumber: 6.8 Consensus size: 29
7951949 CTTGTTTTTA
* *
7951959 TCCAAAAATTTGAATTTGACCCCCGAAC-T
1 TCCAAAAATTT-ATTTTGACCCTCGAACTT
* * * *
7951988 TCCTAAAAATTCAAATTTAACCC-CTGAA-GT
1 TCC-AAAAATT-TATTTTGACCCTC-GAACTT
*
7952018 TCACAAAAATTCAGTTTTGACCCTCGAACTT
1 TC-CAAAAATTTA-TTTTGACCCTCGAACTT
* *
7952049 TGCAAAAATTTATTTTAACCCTCGAACTT
1 TCCAAAAATTTATTTTGACCCTCGAACTT
* *
7952078 TCCAAAAATTTGATTTTGACCCTCAAAAAATT
1 TCCAAAAATTT-ATTTTGACCCTC--GAACTT
* *
7952110 T-TAAAAATTACATTTTTGACCCTC-AAGCTT
1 TCCAAAAATT-TA-TTTTGACCCTCGAA-CTT
*
7952140 TCCAAAATTTTGATTTTGACCCT
1 TCCAAAAATTT-ATTTTGACCCT
7952163 TTTTCCTTAT
Statistics
Matches: 140, Mismatches: 19, Indels: 31
0.74 0.10 0.16
Matches are distributed among these distances:
29 33 0.24
30 72 0.51
31 19 0.14
32 16 0.11
ACGTcount: A:0.35, C:0.23, G:0.08, T:0.35
Consensus pattern (29 bp):
TCCAAAAATTTATTTTGACCCTCGAACTT
Found at i:7952162 original size:30 final size:30
Alignment explanation
Indices: 7952032--7952162 Score: 131
Period size: 29 Copynumber: 4.3 Consensus size: 30
7952022 AAAAATTCAG
* *
7952032 TTTTGACCCTCGAACTTTGCAAAAATTT-A
1 TTTTGACCCTCAAACTTTCCAAAAATTTGA
* *
7952061 TTTTAACCCTCGAACTTTCCAAAAATTTGA
1 TTTTGACCCTCAAACTTTCCAAAAATTTGA
* * **
7952091 TTTTGACCCTCAAAAAATTT-TAAAAATTACA
1 TTTTGACCCTC--AAACTTTCCAAAAATTTGA
* *
7952122 TTTTTGACCCTCAAGCTTTCCAAAATTTTGA
1 -TTTTGACCCTCAAACTTTCCAAAAATTTGA
7952153 TTTTGACCCT
1 TTTTGACCCT
7952163 TTTTCCTTAT
Statistics
Matches: 83, Mismatches: 14, Indels: 9
0.78 0.13 0.08
Matches are distributed among these distances:
29 26 0.31
30 26 0.31
31 15 0.18
32 16 0.19
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (30 bp):
TTTTGACCCTCAAACTTTCCAAAAATTTGA
Found at i:7954229 original size:28 final size:28
Alignment explanation
Indices: 7954198--7954257 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 28
7954188 GAAACGAGAC
*
7954198 TTTTGGA-TACCCGGGGGCAAAATGGTAA
1 TTTTGGACT-CCCGAGGGCAAAATGGTAA
*
7954226 TTTTGGACTCGCGAGGGCAAAATGGTAA
1 TTTTGGACTCCCGAGGGCAAAATGGTAA
7954254 TTTT
1 TTTT
7954258 CGGTGAAATC
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
28 28 0.97
29 1 0.03
ACGTcount: A:0.27, C:0.13, G:0.30, T:0.30
Consensus pattern (28 bp):
TTTTGGACTCCCGAGGGCAAAATGGTAA
Found at i:7954364 original size:59 final size:59
Alignment explanation
Indices: 7954244--7954552 Score: 399
Period size: 59 Copynumber: 5.3 Consensus size: 59
7954234 TCGCGAGGGC
* * * * * * *
7954244 AAAATGGTAATTTTCGGTGAAATCG-GGGTCAAAAGGGAATTTTGGAAAATTCAAGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
*
7954302 AAAATAGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
* * *
7954361 AAAATGGTAATTTTTGGTGAAATCGCGGTTAAAAATAGAATTTTGGAAAGTTCA-GGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
* ** * * *
7954419 AAAATGGTAATTTTAGGCAAAATCGATGTT-AAAATGGAATTTTAGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
* ** * *
7954477 AAAATGGTAATTTTTGGTGAAATCGGGGTTAAAAATATAATTTCGGAAAGTTTGGGGGT
1 AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
7954536 AAAATGGTAATTTTTGG
1 AAAATGGTAATTTTTGG
7954553 ACTGTCCAGG
Statistics
Matches: 218, Mismatches: 30, Indels: 5
0.86 0.12 0.02
Matches are distributed among these distances:
57 19 0.09
58 81 0.37
59 118 0.54
ACGTcount: A:0.36, C:0.04, G:0.27, T:0.33
Consensus pattern (59 bp):
AAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTAGGGGT
Found at i:7954488 original size:29 final size:29
Alignment explanation
Indices: 7954448--7954549 Score: 86
Period size: 29 Copynumber: 3.5 Consensus size: 29
7954438 AAATCGATGT
7954448 TAAAATGG-AATTTTAGAAAGTTTGGGGG
1 TAAAATGGTAATTTTAGAAAGTTTGGGGG
* * *
7954476 TAAAATGGTAATTTTTGGTGAAA--TCGGGGT
1 TAAAATGGTAA-TTTT--AGAAAGTTTGGGGG
* **
7954506 TAAAAAT-ATAATTTCGGAAAGTTTGGGGG
1 T-AAAATGGTAATTTTAGAAAGTTTGGGGG
7954535 TAAAATGGTAATTTT
1 TAAAATGGTAATTTT
7954550 TGGACTGTCC
Statistics
Matches: 56, Mismatches: 10, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
27 4 0.07
28 13 0.23
29 17 0.30
30 13 0.23
31 5 0.09
32 4 0.07
ACGTcount: A:0.35, C:0.02, G:0.27, T:0.35
Consensus pattern (29 bp):
TAAAATGGTAATTTTAGAAAGTTTGGGGG
Found at i:7956408 original size:11 final size:11
Alignment explanation
Indices: 7956394--7956446 Score: 70
Period size: 11 Copynumber: 4.7 Consensus size: 11
7956384 AAATTATTTC
*
7956394 AAATTTAAACT
1 AAATTTAAAAT
7956405 AAATTTAAAAT
1 AAATTTAAAAT
*
7956416 AAATTTAAATTT
1 AAATTTAAA-AT
*
7956428 AAATTTAAAGT
1 AAATTTAAAAT
7956439 AAATTTAA
1 AAATTTAA
7956447 TTTTAGAAAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
11 28 0.74
12 10 0.26
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.40
Consensus pattern (11 bp):
AAATTTAAAAT
Found at i:7956424 original size:6 final size:6
Alignment explanation
Indices: 7956368--7956465 Score: 64
Period size: 6 Copynumber: 17.0 Consensus size: 6
7956358 TTTTGGGCTT
* * * *
7956368 TTTAAT TTTAAT TTTAAA ATT--A TTTCAAA TTTAAA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
* * * *
7956414 -ATAAA TTTAAA TTTAAA TTTAAA -GTAAA TTTAAT TTTAGAA -ATAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTA-AA TTTAAA
7956460 TTTAAA
1 TTTAAA
7956466 AATCATTTTA
Statistics
Matches: 71, Mismatches: 13, Indels: 16
0.71 0.13 0.16
Matches are distributed among these distances:
4 3 0.04
5 14 0.20
6 49 0.69
7 5 0.07
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:7956434 original size:23 final size:23
Alignment explanation
Indices: 7956394--7956451 Score: 82
Period size: 23 Copynumber: 2.6 Consensus size: 23
7956384 AAATTATTTC
*
7956394 AAATTTAAA-CTAAATTTAAAAT
1 AAATTTAAATTTAAATTTAAAAT
*
7956416 AAATTTAAATTTAAATTTAAAGT
1 AAATTTAAATTTAAATTTAAAAT
*
7956439 AAATTTAATTTTA
1 AAATTTAAATTTA
7956452 GAAATAAATT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
22 9 0.28
23 23 0.72
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (23 bp):
AAATTTAAATTTAAATTTAAAAT
Found at i:7956463 original size:18 final size:17
Alignment explanation
Indices: 7956374--7956465 Score: 80
Period size: 17 Copynumber: 5.4 Consensus size: 17
7956364 GCTTTTTAAT
* *
7956374 TTTAATTTTAAAAT-TA
1 TTTAAATTTAAAATAAA
*
7956390 TTTCAAATTTAAACTAAA
1 TTT-AAATTTAAAATAAA
* *
7956408 TTTAAA-ATAAATTTAAA
1 TTTAAATTTAAA-ATAAA
*
7956425 TTTAAATTTAAAGTAAA
1 TTTAAATTTAAAATAAA
*
7956442 TTTAATTTTAGAAATAAA
1 TTTAAATTTA-AAATAAA
7956460 TTTAAA
1 TTTAAA
7956466 AATCATTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
16 7 0.11
17 35 0.57
18 19 0.31
ACGTcount: A:0.51, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
TTTAAATTTAAAATAAA
Found at i:7956488 original size:29 final size:28
Alignment explanation
Indices: 7956398--7956488 Score: 66
Period size: 23 Copynumber: 3.4 Consensus size: 28
7956388 TATTTCAAAT
*
7956398 TTAAACTAAATTTAAAATAAATTT-A--
1 TTAAATTAAATTTAAAATAAATTTAATC
* * *
7956423 --AATTTAAATTTAAAGTAAATTTAATT
1 TTAAATTAAATTTAAAATAAATTTAATC
* * *
7956449 TTAGAAATAAATTTAAAAATCATTTTAATC
1 TTA-AATTAAATTT-AAAATAAATTTAATC
7956479 TTAAATTAAA
1 TTAAATTAAA
7956489 ATTGACCCAA
Statistics
Matches: 49, Mismatches: 10, Indels: 10
0.71 0.14 0.14
Matches are distributed among these distances:
23 19 0.39
24 1 0.02
28 1 0.02
29 14 0.29
30 14 0.29
ACGTcount: A:0.53, C:0.03, G:0.02, T:0.42
Consensus pattern (28 bp):
TTAAATTAAATTTAAAATAAATTTAATC
Found at i:7957217 original size:76 final size:76
Alignment explanation
Indices: 7956755--7957214 Score: 796
Period size: 76 Copynumber: 6.0 Consensus size: 76
7956745 TCGAGGCTTC
* * *
7956755 ATCTTTCTCTTACTTCAATTTCAGAGAGATAAAGACTTGCTATCCAACTTTACTTCAATTTCAAG
1 ATCTTGCTCTTACTTCAATTTC--AGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAG
7956820 AGGATAGGAAATG
64 AGGATAGGAAATG
7956833 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
7956898 GATAGGAAATG
66 GATAGGAAATG
* * ** *
7956909 ATCTTGC-CATTACTTCAATTTCAGAGATAAAGATTTGATATCCAGTTTTACTTCAATTTCAAGA
1 ATCTTGCTC-TTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGA
7956973 GGATAGGAAATG
65 GGATAGGAAATG
7956985 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
7957050 GATAGGAAATG
66 GATAGGAAATG
*
7957061 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
7957126 GATAGGAAATG
66 GATAGGAAATG
*
7957137 ATGTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
1 ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
7957202 GATAGGAAATG
66 GATAGGAAATG
7957213 AT
1 AT
7957215 GTTTGATTGA
Statistics
Matches: 366, Mismatches: 14, Indels: 6
0.95 0.04 0.02
Matches are distributed among these distances:
75 1 0.00
76 343 0.94
77 1 0.00
78 21 0.06
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (76 bp):
ATCTTGCTCTTACTTCAATTTCAGAGATAAAGACTTGTTATCCAACTCTACTTCAATTTCAAGAG
GATAGGAAATG
Found at i:7969480 original size:59 final size:59
Alignment explanation
Indices: 7969371--7969683 Score: 411
Period size: 59 Copynumber: 5.4 Consensus size: 59
7969361 TGGACTAGCA
* * * * * * *
7969371 AGGGCAAAATGGTAA-TTTCGATGAAATCGAGG-TCAAAAGGGAATTTTGGAAAATTTG
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCG
* *
7969428 AGGGTAAAATAGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTTTG
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAG-TTCG
* ** *
7969488 -GGGTAAAATGATAATTTTTGGTGAAATCGAGGTCGAAAATAGAATTTTGGAAAGTTCG
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCG
* * *
7969546 -GGGTAAAATGGTAATTTTTGGTGAAATCGGGGTT-AAAATGAAATTTTAGAAAGTTCG
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCG
* * *
7969603 AGGGTAAAATGGTAATTTTTGGTGAAATCGGGGTCAAAAATGGAATTTTAGAAAGTTCG
1 AGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCG
7969662 AGGGTAAAATGGTAATTTTTGG
1 AGGGTAAAATGGTAATTTTTGG
7969684 ACAGTCCAGG
Statistics
Matches: 230, Mismatches: 21, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
57 33 0.14
58 82 0.36
59 111 0.48
60 4 0.02
ACGTcount: A:0.36, C:0.04, G:0.28, T:0.32
Consensus pattern (59 bp):
AGGGTAAAATGGTAATTTTTGGTGAAATCGAGGTTAAAAATGGAATTTTGGAAAGTTCG
Found at i:7969694 original size:29 final size:28
Alignment explanation
Indices: 7969532--7969694 Score: 82
Period size: 29 Copynumber: 5.6 Consensus size: 28
7969522 GAAAATAGAA
* *
7969532 TTTTGGAAAGTTCGGGGTAAAATGGTAAT
1 TTTTGG-AAGTCCAGGGTAAAATGGTAAT
* * *
7969561 TTTTGGTGAAAT-CGGGGTTAAAAT-GAAAT
1 TTTT-G-GAAGTCCAGGG-TAAAATGGTAAT
* * *
7969590 TTTAGAAAGTTCGAGGGTAAAATGGTAAT
1 TTTTGGAAG-TCCAGGGTAAAATGGTAAT
* *
7969619 TTTTGGTGAAAT-CGGGGTCAAAAATGG-AAT
1 TTTT-G-GAAGTCCAGGGT--AAAATGGTAAT
* * *
7969649 TTTAGAAAGTTCGAGGGTAAAATGGTAAT
1 TTTTGGAAG-TCCAGGGTAAAATGGTAAT
7969678 TTTTGGACAGTCCAGGG
1 TTTTGGA-AGTCCAGGG
7969695 ACCTATAAAA
Statistics
Matches: 99, Mismatches: 21, Indels: 28
0.67 0.14 0.19
Matches are distributed among these distances:
27 2 0.02
28 17 0.17
29 46 0.46
30 24 0.24
31 10 0.10
ACGTcount: A:0.33, C:0.06, G:0.29, T:0.32
Consensus pattern (28 bp):
TTTTGGAAGTCCAGGGTAAAATGGTAAT
Found at i:7971532 original size:11 final size:11
Alignment explanation
Indices: 7971518--7971548 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
7971508 AAATTATTTC
*
7971518 AAATTTAAACT
1 AAATTTAAAAT
7971529 AAATTTAAAAT
1 AAATTTAAAAT
7971540 AAATTTAAA
1 AAATTTAAA
7971549 TTTAAAAATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.35
Consensus pattern (11 bp):
AAATTTAAAAT
Found at i:7971548 original size:6 final size:6
Alignment explanation
Indices: 7971492--7971607 Score: 64
Period size: 6 Copynumber: 20.0 Consensus size: 6
7971482 TTTTGGGCTT
* * * *
7971492 TTTAAT TTTAAT TTTAAA ATT--A TTTCAAA TTTAAA -CTAAA TTTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT-AAA TTTAAA TTTAAA TTTAAA
* ** * * *
7971538 -ATAAA TTTAAA TTTAAA AATGAA TTTAAA TTTAAA TTTATA -GTAAA
1 TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA TTTAAA
* *
7971584 TTTAAT TTTAGAA -ATAAA TTTAAA
1 TTTAAA TTTA-AA TTTAAA TTTAAA
7971608 AATTATTTTA
Statistics
Matches: 81, Mismatches: 21, Indels: 16
0.69 0.18 0.14
Matches are distributed among these distances:
4 3 0.04
5 13 0.16
6 60 0.74
7 5 0.06
ACGTcount: A:0.50, C:0.02, G:0.03, T:0.46
Consensus pattern (6 bp):
TTTAAA
Found at i:7971584 original size:41 final size:40
Alignment explanation
Indices: 7971518--7971607 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 40
7971508 AAATTATTTC
7971518 AAATTTAAACTAAATTTAAAATAAATTTAAATTTAAAAAT
1 AAATTTAAACTAAATTTAAAATAAATTTAAATTTAAAAAT
* * * * * *
7971558 GAATTTAAATTTAAATTTATAGTAAATTTAATTTTAGAAAT
1 AAATTTAAA-CTAAATTTAAAATAAATTTAAATTTAAAAAT
7971599 AAATTTAAA
1 AAATTTAAA
7971608 AATTATTTTA
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 8 0.19
41 34 0.81
ACGTcount: A:0.54, C:0.01, G:0.03, T:0.41
Consensus pattern (40 bp):
AAATTTAAACTAAATTTAAAATAAATTTAAATTTAAAAAT
Found at i:7971619 original size:18 final size:18
Alignment explanation
Indices: 7971528--7971607 Score: 81
Period size: 18 Copynumber: 4.2 Consensus size: 18
7971518 AAATTTAAAC
7971528 TAAATTT-AAAATAAATT
1 TAAATTTAAAAATAAATT
*
7971545 TAAATTTAAAAATGAATT
1 TAAATTTAAAAATAAATT
7971563 TAAATTTAAATTTATAGTAAATT
1 TAAATTTAAA---A-A-TAAATT
* *
7971586 TAATTTTAGAAATAAATT
1 TAAATTTAAAAATAAATT
7971604 TAAA
1 TAAA
7971608 AATTATTTTA
Statistics
Matches: 52, Mismatches: 5, Indels: 11
0.76 0.07 0.16
Matches are distributed among these distances:
17 7 0.13
18 28 0.54
19 1 0.02
20 1 0.02
21 1 0.02
22 1 0.02
23 13 0.25
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.42
Consensus pattern (18 bp):
TAAATTTAAAAATAAATT
Found at i:7975846 original size:50 final size:50
Alignment explanation
Indices: 7975782--7976502 Score: 417
Period size: 50 Copynumber: 14.5 Consensus size: 50
7975772 AGGGAACATA
* *
7975782 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAATCCGGTACATTAG
1 AAGATATGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCGGTACATTAG
* * * *
7975832 AAGATGTGATGGG-AAGGATTGAGGCCGCAATGACGAATCCAGTACCA-T-G
1 AAGATATGATGGGAAAGG-TTGAGGCCGCAACGGCGAATCCGGTA-CATTAG
** * ** *
7975881 AAGATATGAAAGGAAAGGTTAAGGCCATAACGGTGAA-CTCGGTA-ACTTAG
1 AAGATATGATGGGAAAGGTTGAGGCCGCAACGGCGAATC-CGGTACA-TTAG
* ** *
7975931 AAGATATGATGGG-AAGAATTGAGGCCGCAATAGCGAATCTGGTACCA-T-G
1 AAGATATGATGGGAAAG-GTTGAGGCCGCAACGGCGAATCCGGTA-CATTAG
* * * *
7975980 AAGATATGAAGGGAAAGGTGGAGGCCGCAACAGCGAA-CTCGGTACCTTAG
1 AAGATATGATGGGAAAGGTTGAGGCCGCAACGGCGAATC-CGGTACATTAG
* ** *
7976030 AAGATGTGATGGGAAATATTGAGGCCGCAACGGCAAATCCGGTACCA-T-G
1 AAGATATGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCGGTA-CATTAG
* ** ** * * *
7976079 AGGATATGAAAGGAAAGGTTGAGGCTACAACGGTGAACCCGGTACCTTAG
1 AAGATATGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCGGTACATTAG
* * * * * *
7976129 AAGATGTGAAGGGAAAGGTTGAGGTCGCAATGGCGAA-CTTGGTACCTTAG
1 AAGATATGATGGGAAAGGTTGAGGCCGCAACGGCGAATC-CGGTACATTAG
* * * * * *
7976179 AAGATGTGATGTG-AAGGATTGAGGCGGTAACGACGAATCCGATACCA-T-G
1 AAGATATGATGGGAAAGG-TTGAGGCCGCAACGGCGAATCCGGTA-CATTAG
* * * * * *
7976228 AAGATGTGATAGG-AAGGATTAAGGCCGCAACGGTGAATTCAGTACCA-TA-
1 AAGATATGATGGGAAAGG-TTGAGGCCGCAACGGCGAATCCGGTA-CATTAG
* * * * ** * *
7976277 AAGATATGAAGGGAAAGGTGGAGGCTGTAATAGTGAA-CTCGGTACCTTAG
1 AAGATATGATGGGAAAGGTTGAGGCCGCAACGGCGAATC-CGGTACATTAG
* * * * * * *
7976327 AAGATGTGATGTG-AAGGATTAAGGCCGCAACGGTGAACCCGATACCTTAG
1 AAGATATGATGGGAAAGG-TTGAGGCCGCAACGGCGAATCCGGTACATTAG
* * **
7976377 AAGATATGATGGGAAAGATTGAGGTCGCAACGGCGAATCCAATACCA-T-G
1 AAGATATGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCGGTA-CATTAG
* * * *** * * * *
7976426 AAGATATGAAGGGTAAGGTGGAGATTGCAATGGCGAACCCGATACCTTAG
1 AAGATATGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCGGTACATTAG
7976476 AAGATATGATGGG-AAGGATTGAGGCCG
1 AAGATATGATGGGAAAGG-TTGAGGCCG
7976503 GTACCATGAA
Statistics
Matches: 509, Mismatches: 127, Indels: 70
0.72 0.18 0.10
Matches are distributed among these distances:
47 1 0.00
48 6 0.01
49 224 0.44
50 265 0.52
51 12 0.02
52 1 0.00
ACGTcount: A:0.34, C:0.15, G:0.32, T:0.19
Consensus pattern (50 bp):
AAGATATGATGGGAAAGGTTGAGGCCGCAACGGCGAATCCGGTACATTAG
Found at i:7975953 original size:99 final size:99
Alignment explanation
Indices: 7975782--7976847 Score: 497
Period size: 99 Copynumber: 10.9 Consensus size: 99
7975772 AGGGAACATA
* *
7975782 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAA-TCCGGT-ACATTAGAAGATGTGATGGG
1 AAGATATGAAAGGAAAGGTTGAGGCCACAACGGTGAACT-CGGTAAC-TTAGAAGATGTGATGGG
* *
7975845 AAGGATTGAGGCCGCAATGACGAATCCAGTACCATG
64 AAAGATTGAGGCCGCAATGACGAATCCGGTACCATG
* * *
7975881 AAGATATGAAAGGAAAGGTTAAGGCCATAACGGTGAACTCGGTAACTTAGAAGATATGATGGG-A
1 AAGATATGAAAGGAAAGGTTGAGGCCACAACGGTGAACTCGGTAACTTAGAAGATGTGATGGGAA
*
7975945 AGAATTGAGGCCGCAAT-AGCGAATCTGGTACCATG
66 AG-ATTGAGGCCGCAATGA-CGAATCCGGTACCATG
* * * * * *
7975980 AAGATATGAAGGGAAAGGTGGAGGCCGCAACAGCGAACTCGGTACCTTAGAAGATGTGATGGGAA
1 AAGATATGAAAGGAAAGGTTGAGGCCACAACGGTGAACTCGGTAACTTAGAAGATGTGATGGGAA
* * * *
7976045 ATATTGAGGCCGCAACGGCAAATCCGGTACCATG
66 AGATTGAGGCCGCAATGACGAATCCGGTACCATG
* * * * *
7976079 AGGATATGAAAGGAAAGGTTGAGGCTACAACGGTGAACCCGGTACCTTAGAAGATGTGAAGGGAA
1 AAGATATGAAAGGAAAGGTTGAGGCCACAACGGTGAACTCGGTAACTTAGAAGATGTGATGGGAA
* * * * *
7976144 AGGTTGAGGTCGCAATGGCGAA-CTTGGTACCTTAG
66 AGATTGAGGCCGCAATGACGAATC-CGGTACCAT-G
* * *** ** * * * *
7976179 AAGATGTG-ATGTG-AAGGATTGAGGCGGTAACGACGAA-TCCGATACCAT-GAAGATGTGATAG
1 AAGATATGAAAG-GAAAGG-TTGAGGCCACAACGGTGAACT-CGGTAACTTAGAAGATGTGATGG
* * * ** * * *
7976240 GAAGGATTAAGGCCGCAACGGTGAATTCAGTACCATA
63 GAAAGATTGAGGCCGCAATGACGAATCCGGTACCATG
* * *** ** * *
7976277 AAGATATGAAGGGAAAGGTGGAGGCTGTAATAGTGAACTCGGTACCTTAGAAGATGTGATGTGAA
1 AAGATATGAAAGGAAAGGTTGAGGCCACAACGGTGAACTCGGTAACTTAGAAGATGTGATGGGAA
* * * ** * * *
7976342 GGATTAAGGCCGCAACGGTGAACCCGATACCTTAG
66 AGATTGAGGCCGCAATGACGAATCCGGTACCAT-G
** * * * * ** * * * * *
7976377 AAGATATGATGGGAAAGATTGAGGTCGCAACGGCGAA-TCCAATACCAT-GAAGATATGAAGGGT
1 AAGATATGAAAGGAAAGGTTGAGGCCACAACGGTGAACT-CGGTAACTTAGAAGATGTGATGGGA
* * *** * * * *
7976440 AAGGTGGAGATTGCAATGGCGAACCCGATACCTTAG
65 AAGATTGAGGCCGCAATGACGAATCCGGTACCAT-G
* * *** ** * ** **
7976476 AAGATATG-ATGGGAAGGATTGAGGCCGGTACCATGAAGATATG-AA--GGGAA-ATGTTGA-GG
1 AAGATATGAAAGGAAAGG-TTGAGGCCACAACGGTGAA-CTCGGTAACTTAGAAGATG-TGATGG
* * * *
7976535 TTGCAACGA-TGA-ACC-C---GA--TAT-C--T--TA-G
63 --G-AAAGATTGAGGCCGCAATGACGAATCCGGTACCATG
* * ** ** * * *
7976561 AAGATGTGAAGGGAAAGGTTGAGGCTGCAACGACGAACTCGGTACCTTAAAAGATGTGATAGG-A
1 AAGATATGAAAGGAAAGGTTGAGGCCACAACGGTGAACTCGGTAACTTAGAAGATGTGATGGGAA
* * *
7976625 AGTATTGAGGCCGCAAAGGCGAATCCGATACCATG
66 AG-ATTGAGGCCGCAATGACGAATCCGGTACCATG
* ** * * *** *
7976660 AAAATATGAGGGGAAATGTGGAGGCCACAACGACAAAC-CTGGTACCTTAGAAGATGTGATGGGA
1 AAGATATGAAAGGAAAGGTTGAGGCCACAACGGTGAACTC-GGTAACTTAGAAGATGTGATGGGA
* ** * * *
7976724 AAGATTGAGGCTGCAACAACGAATCCAGTATCATA
65 AAGATTGAGGCCGCAATGACGAATCCGGTACCATG
* * * * * *
7976759 AAGATATGAAGGGAAATGTTGAGGCCACAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAA
1 AAGATATGAAAGGAAAGGTTGAGGCCACAACGGTGAACTCGGTAACTTAGAAGATGTGATGGGAA
*
7976824 AGATTGAGGCCGCAACGACGAATC
66 AGATTGAGGCCGCAATGACGAATC
7976848 TTCTACCATG
Statistics
Matches: 738, Mismatches: 179, Indels: 100
0.73 0.18 0.10
Matches are distributed among these distances:
84 4 0.01
85 24 0.03
86 11 0.01
87 7 0.01
88 5 0.01
89 1 0.00
91 2 0.00
92 1 0.00
93 2 0.00
94 2 0.00
96 1 0.00
97 5 0.01
98 46 0.06
99 552 0.75
100 74 0.10
101 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.19
Consensus pattern (99 bp):
AAGATATGAAAGGAAAGGTTGAGGCCACAACGGTGAACTCGGTAACTTAGAAGATGTGATGGGAA
AGATTGAGGCCGCAATGACGAATCCGGTACCATG
Found at i:7976045 original size:149 final size:150
Alignment explanation
Indices: 7975782--7976876 Score: 613
Period size: 149 Copynumber: 7.5 Consensus size: 150
7975772 AGGGAACATA
* * * * *
7975782 AAGATATGA-AGGGAAAGGTTGAGGCCGCAACGGTGAATCCGGTA-CATTAGAAGATGTGATGGG
1 AAGATATGATA-GGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCA-T-GAAGATATGAAGGG
* * * * **
7975845 -AAGGATTGAGGCCGCAAT-GACGAA-TCCAGTACCAT-GAAGATATGAAAGGAAAGG-TTAAGG
63 AAAGG-TGGAGGCCGCAATAG-CGAACT-CGGTACCTTAGAAGATGTGATGGGAAAGGATTAAGG
** * * *
7975905 CCATAACGGTGAACT-CGGTAACTTAG
125 CCGCAACGGTGAACTCCGATACCAT-G
* ** **
7975931 AAGATATGAT-GGGAAGAATTGAGGCCGCAATAGCGAATCTGGTACCATGAAGATATGAAGGGAA
1 AAGATATGATAGGAAAG-ATTGAGGCCGCAACGGCGAATCCAGTACCATGAAGATATGAAGGGAA
* * *
7975995 AGGTGGAGGCCGCAACAGCGAACTCGGTACCTTAGAAGATGTGATGGGAAA-TATTGAGGCCGCA
65 AGGTGGAGGCCGCAATAGCGAACTCGGTACCTTAGAAGATGTGATGGGAAAGGATTAAGGCCGCA
* * *
7976059 ACGG-CAAATCCGGTACCATG
130 ACGGTGAACTCCGATACCATG
* * * ** * * * * *
7976079 AGGATATGAAAGGAAAGGTTGAGGCTACAACGGTGAACCCGGTACCTTAGAAGATGTGAAGGGAA
1 AAGATATGATAGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCAT-GAAGATATGAAGGGAA
* * * * * * * *
7976144 AGGTTGAGGTCGCAATGGCGAACTTGGTACCTTAGAAGATGTGATGTG-AAGGATTGAGGCGGTA
65 AGGTGGAGGCCGCAATAGCGAACTCGGTACCTTAGAAGATGTGATGGGAAAGGATTAAGGCCGCA
**
7976208 ACGACGAA-TCCGATACCATG
130 ACGGTGAACTCCGATACCATG
* * * * * *
7976228 AAGATGTGATAGGAAGGATTAAGGCCGCAACGGTGAATTCAGTACCATAAAGATATGAAGGGAAA
1 AAGATATGATAGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCATGAAGATATGAAGGGAAA
* * * *
7976293 GGTGGAGGCTGTAATAGTGAACTCGGTACCTTAGAAGATGTGATGTG-AAGGATTAAGGCCGCAA
66 GGTGGAGGCCGCAATAGCGAACTCGGTACCTTAGAAGATGTGATGGGAAAGGATTAAGGCCGCAA
*
7976357 CGGTGAAC-CCGATACCTTAG
131 CGGTGAACTCCGATACCAT-G
* * * *
7976377 AAGATATGATGGGAAAGATTGAGGTCGCAACGGCGAATCCAATACCATGAAGATATGAAGGGTAA
1 AAGATATGATAGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCATGAAGATATGAAGGGAAA
*** * * * *
7976442 GGTGGAGATTGCAATGGCGAACCCGATACCTTAGAAGATATGATGGG-AAGGATT------G--A
66 GGTGGAGGCCGCAATAGCGAACTCGGTACCTTAGAAGATGTGATGGGAAAGGATTAAGGCCGCAA
*
7976498 --G-G----CCGGTACCATG
131 CGGTGAACTCCGATACCATG
** ** * * * *
7976511 AAGATATGA-AGGGAAATG-TTGAGGTTGCAACGATGAA-CCCGATATCTTAGAAGATGTGAAGG
1 AAGATATGATA-GGAAA-GATTGAGGCCGCAACGGCGAATCCAG-TACCAT-GAAGATATGAAGG
* * * * * * *
7976573 GAAAGGTTGAGGCTGCAA-CGACGAACTCGGTACCTTAAAAGATGTGATAGG-AAGTATTGAGGC
62 GAAAGGTGGAGGCCGCAATAG-CGAACTCGGTACCTTAGAAGATGTGATGGGAAAGGATTAAGGC
* *
7976636 CGCAAAGGCGAA-TCCGATACCATG
126 CGCAACGGTGAACTCCGATACCATG
* ** * * * * * * * *
7976660 AAAATATGAGGGGAAATG-TGGAGGCCACAACGAC-AAACCTGGTACCTTAGAAGATGTGATGGG
1 AAGATATGATAGGAAA-GATTGAGGCCGCAACGGCGAATCC-AGTACCAT-GAAGATATGAAGGG
* * * * * * * * * * * *
7976723 AAAGATTGAGGCTGCAACAACGAA-TCCAGTATCATA-AAGATATGAAGGGAAATG-TTGAGGCC
63 AAAGGTGGAGGCCGCAATAGCGAACT-CGGTACCTTAGAAGATGTGATGGGAAAGGATTAAGGCC
* * *
7976785 ACAACGGCGAAC-CCGATACCTTAG
127 GCAACGGTGAACTCCGATACCAT-G
* * * *** *
7976809 AAGATGTGATGGGAAAGATTGAGGCCGCAACGACGAATCTTCTACCATGGAA-ATATGGAGGGAA
1 AAGATATGATAGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCAT-GAAGATATGAAGGGAA
7976873 AGGT
65 AGGT
7976877 TAAAGTCGTA
Statistics
Matches: 746, Mismatches: 156, Indels: 89
0.75 0.16 0.09
Matches are distributed among these distances:
133 2 0.00
134 36 0.05
135 66 0.09
138 1 0.00
139 1 0.00
141 2 0.00
143 2 0.00
145 1 0.00
146 1 0.00
148 210 0.28
149 416 0.56
150 8 0.01
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.19
Consensus pattern (150 bp):
AAGATATGATAGGAAAGATTGAGGCCGCAACGGCGAATCCAGTACCATGAAGATATGAAGGGAAA
GGTGGAGGCCGCAATAGCGAACTCGGTACCTTAGAAGATGTGATGGGAAAGGATTAAGGCCGCAA
CGGTGAACTCCGATACCATG
Found at i:7976130 original size:198 final size:199
Alignment explanation
Indices: 7975782--7976847 Score: 863
Period size: 198 Copynumber: 5.4 Consensus size: 199
7975772 AGGGAACATA
* * *
7975782 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGTGAATCCGGTACATTAGAAGATGTGATGGGAA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCCGATACCTTAGAAGATGTGATGGGAA
* * * * * *
7975847 GGATTGAGGCCGCAATGACGAATCCAGTACCATGAAGATATGAAAGGAAAGGTTAAGGCCATAAC
66 AGATTGAGGCCGCAACGGCGAATCCGGTACCATGAAGATATGAAAGGAAAGGTTGAGGCCACAAC
* * * * * *
7975912 GGTGAACTCGGTAACTTAGAAGATATGATGGG-AAGAATTGAGGCCGCAATAGCGAATCTGGTAC
131 GGTGAACCCGGTACCTTAGAAGATGTGATGGGAAAG-ATTGAGGCCGCAACAGCGAACCCGGTAC
*
7975976 CAT-G
195 CTTAG
* * *
7975980 AAGATATGAAGGGAAAGGTGGAGGCCGCAACAGCGAA-CTCGGTACCTTAGAAGATGTGATGGGA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATC-CGATACCTTAGAAGATGTGATGGGA
* * * *
7976044 AATATTGAGGCCGCAACGGCAAATCCGGTACCATGAGGATATGAAAGGAAAGGTTGAGGCTACAA
65 AAGATTGAGGCCGCAACGGCGAATCCGGTACCATGAAGATATGAAAGGAAAGGTTGAGGCCACAA
* * * ** **
7976109 CGGTGAACCCGGTACCTTAGAAGATGTGAAGGGAAAGGTTGAGGTCGCAATGGCGAACTTGGTAC
130 CGGTGAACCCGGTACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAACAGCGAACCCGGTAC
7976174 CTTAG
195 CTTAG
* * * * * * * *
7976179 AAGATGTGATGTG-AAGGATTGAGGCGGTAACGACGAATCCGATACCAT-GAAGATGTGATAGGA
1 AAGATATGAAGGGAAAGG-TTGAGGCCGCAACGGCGAATCCGATACCTTAGAAGATGTGATGGGA
* * * * * * * * ***
7976242 AGGATTAAGGCCGCAACGGTGAATTCAGTACCATAAAGATATGAAGGGAAAGGTGGAGGCTGTAA
65 AAGATTGAGGCCGCAACGGCGAATCCGGTACCATGAAGATATGAAAGGAAAGGTTGAGGCCACAA
** * * * * * * *
7976307 TAGTGAACTCGGTACCTTAGAAGATGTGATGTGAAGGATTAAGGCCGCAACGGTGAACCCGATAC
130 CGGTGAACCCGGTACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAACAGCGAACCCGGTAC
7976372 CTTAG
195 CTTAG
* * * * * * * *
7976377 AAGATATGATGGGAAAGATTGAGGTCGCAACGGCGAATCCAATACCAT-GAAGATATGAAGGGTA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCCGATACCTTAGAAGATGTGATGGGAA
* * *** * * * * * *
7976441 AGGTGGAGATTGCAATGGCGAACCCGATACCTTAGAAGATATG-ATGGGAAGGATTGAGG---C-
66 AGATTGAGGCCGCAACGGCGAATCCGGTACCAT-GAAGATATGAAAGGAAAGG-TTGAGGCCACA
* * ** * *
7976501 -CGGT--A-CC---A---T-GAAGATATGAAGGGAAATG-TTGAGGTTGCAAC-GATGAACCCGA
129 ACGGTGAACCCGGTACCTTAGAAGATGTGATGGGAAA-GATTGAGGCCGCAACAG-CGAACCCGG
*
7976553 TATCTTAG
192 TACCTTAG
* * * * * *
7976561 AAGATGTGAAGGGAAAGGTTGAGGCTGCAACGACGAA-CTCGGTACCTTAAAAGATGTGATAGG-
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATC-CGATACCTTAGAAGATGTGATGGGA
* * * ** * *
7976624 AAGTATTGAGGCCGCAAAGGCGAATCCGATACCATGAAAATATGAGGGGAAATGTGGAGGCCACA
65 AAG-ATTGAGGCCGCAACGGCGAATCCGGTACCATGAAGATATGAAAGGAAAGGTTGAGGCCACA
*** * * * * *
7976689 ACGACAAACCTGGTACCTTAGAAGATGTGATGGGAAAGATTGAGGCTGCAACAACGAATCCAGTA
129 ACGGTGAACCCGGTACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAACAGCGAACCCGGTA
* *
7976754 TCATA-
194 CCTTAG
* * *
7976759 AAGATATGAAGGGAAATGTTGAGGCCACAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAA
1 AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCCGATACCTTAGAAGATGTGATGGGAA
*
7976824 AGATTGAGGCCGCAACGACGAATC
66 AGATTGAGGCCGCAACGGCGAATC
7976848 TTCTACCATG
Statistics
Matches: 682, Mismatches: 153, Indels: 66
0.76 0.17 0.07
Matches are distributed among these distances:
183 2 0.00
184 92 0.13
185 40 0.06
187 1 0.00
188 1 0.00
189 2 0.00
191 2 0.00
192 2 0.00
194 2 0.00
195 1 0.00
197 1 0.00
198 442 0.65
199 93 0.14
200 1 0.00
ACGTcount: A:0.35, C:0.15, G:0.31, T:0.19
Consensus pattern (199 bp):
AAGATATGAAGGGAAAGGTTGAGGCCGCAACGGCGAATCCGATACCTTAGAAGATGTGATGGGAA
AGATTGAGGCCGCAACGGCGAATCCGGTACCATGAAGATATGAAAGGAAAGGTTGAGGCCACAAC
GGTGAACCCGGTACCTTAGAAGATGTGATGGGAAAGATTGAGGCCGCAACAGCGAACCCGGTACC
TTAG
Found at i:7976461 original size:49 final size:49
Alignment explanation
Indices: 7976352--7976492 Score: 149
Period size: 49 Copynumber: 2.9 Consensus size: 49
7976342 GGATTAAGGC
* * * * * *
7976352 CGCAACGGTGAACCCGATACCTTAGAAGATATGATGGGAAAGATTGAGGT
1 CGCAACGGCGAACCCAATACCATAGAAGATATGATGGG-AAGGTGGAGAT
* *
7976402 CGCAACGGCGAATCCAATACCAT-GAAGATATGAAGGGTAAGGTGGAGAT
1 CGCAACGGCGAACCCAATACCATAGAAGATATGATGGG-AAGGTGGAGAT
* * * *
7976451 TGCAATGGCGAACCCGATACCTTAGAAGATATGATGGGAAGG
1 CGCAACGGCGAACCCAATACCATAGAAGATATGATGGGAAGG
7976493 ATTGAGGCCG
Statistics
Matches: 75, Mismatches: 15, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
49 43 0.57
50 32 0.43
ACGTcount: A:0.35, C:0.16, G:0.30, T:0.18
Consensus pattern (49 bp):
CGCAACGGCGAACCCAATACCATAGAAGATATGATGGGAAGGTGGAGAT
Found at i:7976540 original size:85 final size:85
Alignment explanation
Indices: 7976419--7976585 Score: 228
Period size: 85 Copynumber: 2.0 Consensus size: 85
7976409 GCGAATCCAA
* * *
7976419 TACCATGAAGATATGAAGGGTAAGGTGGAGATTGCAATGGCGAACCCGATACCTTAGAAGATATG
1 TACCATGAAGATATGAAGGGAAAGGTGGAGATTGCAACGACGAACCCGATACCTTAGAAGATATG
*
7976484 ATGGG-AAGGATTGAGGCCGG
66 AAGGGAAAGG-TTGAGGCCGG
* * * * * *
7976504 TACCATGAAGATATGAAGGGAAATGTTGAGGTTGCAACGATGAACCCGATATCTTAGAAGATGTG
1 TACCATGAAGATATGAAGGGAAAGGTGGAGATTGCAACGACGAACCCGATACCTTAGAAGATATG
7976569 AAGGGAAAGGTTGAGGC
66 AAGGGAAAGGTTGAGGC
7976586 TGCAACGACG
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
85 67 0.94
86 4 0.06
ACGTcount: A:0.34, C:0.12, G:0.33, T:0.21
Consensus pattern (85 bp):
TACCATGAAGATATGAAGGGAAAGGTGGAGATTGCAACGACGAACCCGATACCTTAGAAGATATG
AAGGGAAAGGTTGAGGCCGG
Found at i:7976590 original size:50 final size:50
Alignment explanation
Indices: 7976510--7976845 Score: 277
Period size: 50 Copynumber: 6.8 Consensus size: 50
7976500 CCGGTACCAT
* * ** * *
7976510 GAAGATATGAAGGGAAATGTTGAGGTTGCAACGATGAACCCGATATCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTTA
* * *
7976560 GAAGATGTGAAGGGAAAGGTTGAGGCTGCAACGACGAACTCGGTACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTTA
* * * * * *
7976610 AAAGATGTGATA-GG-AAGTATTGAGGCCGCAAAGGCGAATCCGATACCAT-
1 GAAGATGTGA-AGGGAAAG-GTTGAGGCCGCAACGACGAACCCGATACCTTA
* * * * * * * * *
7976659 GAAAATATGAGGGGAAATGTGGAGGCCACAACGACAAACCTGGTACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTTA
* * * * * * *
7976709 GAAGATGTGATGGGAAAGATTGAGGCTGCAACAACGAATCC-AGTATCATA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGA-TACCTTA
* * * *
7976759 -AAGATATGAAGGGAAATGTTGAGGCCACAACGGCGAACCCGATACCTTA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTTA
* *
7976808 GAAGATGTGATGGGAAAGATTGAGGCCGCAACGACGAA
1 GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAA
7976846 TCTTCTACCA
Statistics
Matches: 215, Mismatches: 63, Indels: 16
0.73 0.21 0.05
Matches are distributed among these distances:
49 69 0.32
50 145 0.67
51 1 0.00
ACGTcount: A:0.36, C:0.16, G:0.30, T:0.18
Consensus pattern (50 bp):
GAAGATGTGAAGGGAAAGGTTGAGGCCGCAACGACGAACCCGATACCTTA
Found at i:7976626 original size:135 final size:134
Alignment explanation
Indices: 7976376--7976637 Score: 310
Period size: 135 Copynumber: 1.9 Consensus size: 134
7976366 CGATACCTTA
* * * *
7976376 GAAGATATGATGGGAAAGATTGAGGTCGCAACGGCGAATCCAATACCATGAAGATATGAAGGGTA
1 GAAGATATGAAGGGAAAGATTGAGGTCGCAACGACGAACCCAATACCATGAAGATATGAAGGGAA
* * * * *
7976441 AGGTGGAGATTGCAATGGCGAACCCGATACCTTAGAAGATATGATGGGAAGGATTGAGGCCGGTA
66 AGGTGGAGACTGCAACGACGAACCCGATACCTTAAAAGATATGATAGGAAGGATTGAGGCCGGTA
7976506 CCAT
131 CCAT
* * * * * *
7976510 GAAGATATGAAGGGAAATG-TTGAGGTTGCAACGATGAACCCGATATCTTAGAAGATGTGAAGGG
1 GAAGATATGAAGGGAAA-GATTGAGGTCGCAACGACGAACCCAATACCAT-GAAGATATGAAGGG
* * * * * *
7976574 AAAGGTTGAGGCTGCAACGACGAACTCGGTACCTTAAAAGATGTGATAGGAAGTATTGAGGCCG
64 AAAGGTGGAGACTGCAACGACGAACCCGATACCTTAAAAGATATGATAGGAAGGATTGAGGCCG
7976638 CAAAGGCGAA
Statistics
Matches: 105, Mismatches: 21, Indels: 3
0.81 0.16 0.02
Matches are distributed among these distances:
134 39 0.37
135 66 0.63
ACGTcount: A:0.34, C:0.13, G:0.32, T:0.20
Consensus pattern (134 bp):
GAAGATATGAAGGGAAAGATTGAGGTCGCAACGACGAACCCAATACCATGAAGATATGAAGGGAA
AGGTGGAGACTGCAACGACGAACCCGATACCTTAAAAGATATGATAGGAAGGATTGAGGCCGGTA
CCAT
Found at i:7976708 original size:234 final size:234
Alignment explanation
Indices: 7976269--7976734 Score: 542
Period size: 234 Copynumber: 2.0 Consensus size: 234
7976259 GGTGAATTCA
* * * *
7976269 GTACCATAAAGATATGAAGGGAAAGGTGGAGGCTGTAATAGTGAACTCGGTACCTTAGAAGATGT
1 GTACCATAAAGATATGAAGGGAAAGGTGGAGGCTGCAAGAGTGAACCCGATACCTTAGAAGATGT
* * ** * *
7976334 GATGTGAAGGATTAAGGCCGCAACGGTGAACCCGATACCTTAGAAGATATGATGGGAAAGATTGA
66 GAAGGGAAGGATTAAGGCCGCAACGACGAACCCGATACCTTAAAAGATATGATAGGAAAGATTGA
* * * * *** * * *
7976399 GGTCGCAACGGCGAATCCAATACCATGAAGATATGAAGGGTAAGGTGGAGATTGCAATGGCGAAC
131 GGCCGCAAAGGCGAATCCAATACCATGAAAATATGAAGGGAAAGGTGGAGACCACAACGACAAAC
*
7976464 CCGATACCTTAGAAGATATGATGGGAAGGATTGAGGCCG
196 CCGATACCTTAGAAGATATGATGGGAAAGATTGAGGCCG
* * * * *
7976503 GTACCATGAAGATATGAAGGGAAATGTTGAGGTTGCAACGA-TGAACCCGATATCTTAGAAGATG
1 GTACCATAAAGATATGAAGGGAAAGGTGGAGGCTGCAA-GAGTGAACCCGATACCTTAGAAGATG
* * * * *
7976567 TGAAGGGAAAGG-TTGAGGCTGCAACGACGAACTCGGTACCTTAAAAGATGTGATAGG-AAGTAT
65 TGAAGGG-AAGGATTAAGGCCGCAACGACGAACCCGATACCTTAAAAGATATGATAGGAAAG-AT
* * * *
7976630 TGAGGCCGCAAAGGCGAATCCGATACCATGAAAATATGAGGGGAAATGTGGAGGCCACAACGACA
128 TGAGGCCGCAAAGGCGAATCCAATACCATGAAAATATGAAGGGAAAGGTGGAGACCACAACGACA
* * *
7976695 AACCTGGTACCTTAGAAGATGTGATGGGAAAGATTGAGGC
193 AACCCGATACCTTAGAAGATATGATGGGAAAGATTGAGGC
7976735 TGCAACAACG
Statistics
Matches: 191, Mismatches: 38, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
233 3 0.02
234 183 0.96
235 5 0.03
ACGTcount: A:0.35, C:0.14, G:0.31, T:0.20
Consensus pattern (234 bp):
GTACCATAAAGATATGAAGGGAAAGGTGGAGGCTGCAAGAGTGAACCCGATACCTTAGAAGATGT
GAAGGGAAGGATTAAGGCCGCAACGACGAACCCGATACCTTAAAAGATATGATAGGAAAGATTGA
GGCCGCAAAGGCGAATCCAATACCATGAAAATATGAAGGGAAAGGTGGAGACCACAACGACAAAC
CCGATACCTTAGAAGATATGATGGGAAAGATTGAGGCCG
Found at i:7976890 original size:99 final size:99
Alignment explanation
Indices: 7976561--7976946 Score: 287
Period size: 99 Copynumber: 3.9 Consensus size: 99
7976551 GATATCTTAG
* * * ** * * * * *
7976561 AAGATGTGAAGGGAAAGGTTGAGGCTGCAACGACGAACTCGGTACCTTAAAAGATGTGATAGG-A
1 AAGATATGAAGGGAAAGGTTAAAGCCACAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAA
* * *
7976625 AGTATTGAGGCCGCAAAGGCGAATCCGA-TACCATGA
66 AG-ATTGAGGCCGCAACGACGAAT-CTACTACCAT-A
* * ** * * * * *
7976661 AA-ATATGAGGGGAAATGTGGAGGCCACAACGACAAACCTGGTACCTTAGAAGATGTGATGGGAA
1 AAGATATGAAGGGAAAGGTTAAAGCCACAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAA
* * * * *
7976725 AGATTGAGGCTGCAACAACGAATCCAGTATCATA
66 AGATTGAGGCCGCAACGACGAATCTACTACCATA
* * *
7976759 AAGATATGAAGGGAAATGTTGAGGCCACAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAA
1 AAGATATGAAGGGAAAGGTTAAAGCCACAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAA
* *
7976824 AGATTGAGGCCGCAACGACGAATCTTCTACCATGG
66 AGATTGAGGCCGCAACGACGAATCTACTACCAT-A
* * ** * *** * **
7976859 AA-ATATGGAGGGAAAGGTTAAAGTCGTAACGGTGAACTTTATACCTTAG-AGATATGAAAGGAA
1 AAGATATGAAGGGAAAGGTTAAAGCCACAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAA
* * *
7976922 AGATTAAGGCCACAACGACAAATCT
66 AGATTGAGGCCGCAACGACGAATCT
7976947 CATACCTTGA
Statistics
Matches: 235, Mismatches: 47, Indels: 10
0.80 0.16 0.03
Matches are distributed among these distances:
98 38 0.16
99 190 0.81
100 7 0.03
ACGTcount: A:0.37, C:0.16, G:0.28, T:0.19
Consensus pattern (99 bp):
AAGATATGAAGGGAAAGGTTAAAGCCACAACGGCGAACCCGATACCTTAGAAGATGTGATGGGAA
AGATTGAGGCCGCAACGACGAATCTACTACCATA
Found at i:7977263 original size:81 final size:81
Alignment explanation
Indices: 7977176--7977593 Score: 491
Period size: 81 Copynumber: 5.2 Consensus size: 81
7977166 AACGAAGACA
* *
7977176 TCATCCAATCTCTTACCCCGATCATGGGGCAAATTGAAG-C-CATCCATTCTCTTACCCCGATCA
1 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACACATCCAATCTCTTACCCCGATCA
*
7977239 TAGGGCAGATTGAAGAC
66 TGGGGCAGATTGAAG-C
* *
7977256 ATCATCCAATCTCTT-CCCCCATCATGGGGCAGATTAAAG-C-CATCCAATCTCTTACCCCGATC
1 -TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACACATCCAATCTCTTACCCCGATC
*
7977318 ATGGGGCAGATTAAAGAC
65 ATGGGGCAGATTGAAG-C
7977336 ATCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACATCATCCAATCTCTTA-CCC--T
1 -TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA-CATCCAATCTCTTACCCCGAT
* * *
7977398 CATAGGGAAAATTGAAG-
64 CATGGGGCAGATTGAAGC
* *
7977415 TCATCCAATCTCTTACCTCGATCATGGGGCAGATTAAAGACATCATCCAATCTCTTACCCCGATC
1 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA-CATCCAATCTCTTACCCCGATC
* *
7977480 ATGGGGTAGATGGAAGC
65 ATGGGGCAGATTGAAGC
* ** * * * *
7977497 -CATCCTATCTCTTACCTTGATCATGGGGTAAATTGAAGACATCATTCAATCTCTTACCCAGATC
1 TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACA-CATCCAATCTCTTACCCCGATC
* *
7977561 ATGGGGTAGATTAAAGC
65 ATGGGGCAGATTGAAGC
7977578 -CATCCAATCT-TTACCC
1 TCATCCAATCTCTTACCC
7977594 TTAAGTCAAG
Statistics
Matches: 300, Mismatches: 29, Indels: 17
0.87 0.08 0.05
Matches are distributed among these distances:
78 55 0.18
79 3 0.01
80 79 0.26
81 145 0.48
82 1 0.00
83 3 0.01
84 14 0.05
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (81 bp):
TCATCCAATCTCTTACCCCGATCATGGGGCAGATTGAAGACACATCCAATCTCTTACCCCGATCA
TGGGGCAGATTGAAGC
Found at i:7977355 original size:42 final size:42
Alignment explanation
Indices: 7977169--7977593 Score: 512
Period size: 42 Copynumber: 10.6 Consensus size: 42
7977159 AGAGCAAAAC
*
7977169 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAAATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
* *
7977211 GAAG-C--CATCCATTCTCTTACCCCGATCATAGGGCAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
*
7977250 GAAGACATCATCCAATCTCTT-CCCCCATCATGGGGCAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
*
7977291 AAAG-C--CATCCAATCTCTTACCCCGATCATGGGGCAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
*
7977330 AAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * *
7977372 GAAGACATCATCCAATCTCTTA-CCC--TCATAGGGAAAATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
*
7977411 GAAG---TCATCCAATCTCTTACCTCGATCATGGGGCAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * *
7977450 AAAGACATCATCCAATCTCTTACCCCGATCATGGGGTAGATG
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
* ** * *
7977492 GAAG-C--CATCCTATCTCTTACCTTGATCATGGGGTAAATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
* * *
7977531 GAAGACATCATTCAATCTCTTACCCAGATCATGGGGTAGATT
1 GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
*
7977573 AAAG-C--CATCCAATCT-TTACCC
1 GAAGACATCATCCAATCTCTTACCC
7977594 TTAAGTCAAG
Statistics
Matches: 334, Mismatches: 33, Indels: 36
0.83 0.08 0.09
Matches are distributed among these distances:
36 15 0.04
37 2 0.01
38 19 0.06
39 129 0.39
40 4 0.01
41 27 0.08
42 138 0.41
ACGTcount: A:0.29, C:0.28, G:0.17, T:0.26
Consensus pattern (42 bp):
GAAGACATCATCCAATCTCTTACCCCGATCATGGGGCAGATT
Found at i:7977615 original size:42 final size:46
Alignment explanation
Indices: 7977563--7977652 Score: 134
Period size: 46 Copynumber: 2.0 Consensus size: 46
7977553 CCCAGATCAT
* *
7977563 GGGGTAGATTAAAG-C-C-ATCCAATC-TTTACCCTTAAGTCAAGA
1 GGGGCAGATTAAAGCCACAATCCAATCTTTTACCCTTAAATCAAGA
7977605 GGGGCAGATTAAAGCCACAATCCAATCTTTTACCCTTAAATCAAGA
1 GGGGCAGATTAAAGCCACAATCCAATCTTTTACCCTTAAATCAAGA
7977651 GG
1 GG
7977653 ATAGATTGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
42 13 0.31
43 1 0.02
44 1 0.02
45 8 0.19
46 19 0.45
ACGTcount: A:0.34, C:0.22, G:0.19, T:0.24
Consensus pattern (46 bp):
GGGGCAGATTAAAGCCACAATCCAATCTTTTACCCTTAAATCAAGA
Found at i:7979483 original size:60 final size:58
Alignment explanation
Indices: 7979364--7979563 Score: 188
Period size: 60 Copynumber: 3.4 Consensus size: 58
7979354 TCTGTTTTTA
* * * * *
7979364 TCCAAAAATTTGAATTTGAGCCTCGAACTTCCCAAAAATTTAGTTTTAACCCCTGAACTT
1 TCCAAAAATTTGATTTTGA-CCTCAAACTTTCCTAAAATTTA-TTTTAACCCCTAAACTT
** *
7979424 TCCAAAAATTTGATTTTGACTCTCAAACTTTCCTAAAATTTGATTTCGACCCTTAAACTT
1 TCCAAAAATTTGATTTTGAC-CTCAAACTTTCCTAAAATTT-ATTTTAACCCCTAAACTT
* ** * * *
7979484 TCTAAAAATTACATTTTGACC-CTAATCTAT-CTAAAAATTACATTTTAACCCCTAAACTT
1 TCCAAAAATTTGATTTTGACCTC-AAACTTTCCT-AAAATT-TATTTTAACCCCTAAACTT
*
7979543 TCCAAAATTTTGATTTTGACC
1 TCCAAAAATTTGATTTTGACC
7979564 CTTTTTCCTT
Statistics
Matches: 114, Mismatches: 21, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
58 3 0.03
59 45 0.39
60 65 0.57
61 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.07, T:0.38
Consensus pattern (58 bp):
TCCAAAAATTTGATTTTGACCTCAAACTTTCCTAAAATTTATTTTAACCCCTAAACTT
Found at i:7979505 original size:30 final size:30
Alignment explanation
Indices: 7979367--7979566 Score: 154
Period size: 30 Copynumber: 6.7 Consensus size: 30
7979357 GTTTTTATCC
* * ** * *
7979367 AAAAATTTGAATTTGAGCCTCGAACTTCCC
1 AAAAATTTGATTTTGACCCTTAAACTTTCT
* * * *
7979397 AAAAATTT-AGTTTTAACCCCTGAACTTTCC
1 AAAAATTTGA-TTTTGACCCTTAAACTTTCT
* *
7979427 AAAAATTTGATTTTGACTCTCAAACTTTCCT
1 AAAAATTTGATTTTGACCCTTAAACTTT-CT
*
7979458 -AAAATTTGATTTCGACCCTTAAACTTTCT
1 AAAAATTTGATTTTGACCCTTAAACTTTCT
** * *
7979487 AAAAATTACATTTTGACCC-TAATCTATCT
1 AAAAATTTGATTTTGACCCTTAAACTTTCT
** * * *
7979516 AAAAATTACATTTTAACCCCTAAACTTTCC
1 AAAAATTTGATTTTGACCCTTAAACTTTCT
*
7979546 AAAATTTTGATTTTGACCCTT
1 AAAAATTTGATTTTGACCCTT
7979567 TTTCCTTATT
Statistics
Matches: 136, Mismatches: 29, Indels: 10
0.78 0.17 0.06
Matches are distributed among these distances:
29 29 0.21
30 105 0.77
31 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.07, T:0.38
Consensus pattern (30 bp):
AAAAATTTGATTTTGACCCTTAAACTTTCT
Found at i:7983000 original size:21 final size:20
Alignment explanation
Indices: 7982961--7983000 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
7982951 TCATTTTTTA
* *
7982961 GCATTTTTTACTTAGTGATT
1 GCATTTTTAACTCAGTGATT
7982981 GCATTTTCTAACTCAGTGAT
1 GCATTTT-TAACTCAGTGAT
7983001 GCCTAGTTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.23, C:0.15, G:0.15, T:0.47
Consensus pattern (20 bp):
GCATTTTTAACTCAGTGATT
Found at i:7987155 original size:10 final size:9
Alignment explanation
Indices: 7987136--7987169 Score: 50
Period size: 9 Copynumber: 3.7 Consensus size: 9
7987126 AGCTCAATCA
7987136 TTTTTTTTC
1 TTTTTTTTC
7987145 TTTTCTTTTC
1 TTTT-TTTTC
*
7987155 TTTTTTTCC
1 TTTTTTTTC
7987164 TTTTTT
1 TTTTTT
7987170 ATATATACAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 14 0.61
10 9 0.39
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:7987930 original size:35 final size:36
Alignment explanation
Indices: 7987886--7987959 Score: 98
Period size: 36 Copynumber: 2.1 Consensus size: 36
7987876 CCTTTTAAAT
7987886 AAAGTTGGGATA-AACTCGTCTAAAACAACCT-TAA
1 AAAGTTGGGATACAACTCGTCTAAAACAACCTATAA
* * *
7987920 AAAGATTGGGATACACCTTGTCTAAAGCAACCTATAA
1 AAAG-TTGGGATACAACTCGTCTAAAACAACCTATAA
7987957 AAA
1 AAA
7987960 AAAGTTAGGC
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
34 4 0.12
35 8 0.24
36 16 0.47
37 6 0.18
ACGTcount: A:0.45, C:0.18, G:0.15, T:0.23
Consensus pattern (36 bp):
AAAGTTGGGATACAACTCGTCTAAAACAACCTATAA
Found at i:7989350 original size:36 final size:38
Alignment explanation
Indices: 7989310--7989410 Score: 134
Period size: 38 Copynumber: 2.7 Consensus size: 38
7989300 ATAAACTTTG
7989310 TCTAAAACAA-CTTT-AAAAAGGTTGAAATAGATCTTA
1 TCTAAAACAACCTTTAAAAAAGGTTGAAATAGATCTTA
** *
7989346 TCTAAAACAACCTTTAAAAAATATTGAGATAGATCTTA
1 TCTAAAACAACCTTTAAAAAAGGTTGAAATAGATCTTA
* *
7989384 TCTAAAGCAATCTTTTAAAAAAGGTTG
1 TCTAAAACAA-CCTTTAAAAAAGGTTG
7989411 TCTAAAACAA
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
36 10 0.18
37 4 0.07
38 28 0.51
39 13 0.24
ACGTcount: A:0.46, C:0.12, G:0.11, T:0.32
Consensus pattern (38 bp):
TCTAAAACAACCTTTAAAAAAGGTTGAAATAGATCTTA
Found at i:7989470 original size:65 final size:65
Alignment explanation
Indices: 7989346--7989469 Score: 173
Period size: 64 Copynumber: 1.9 Consensus size: 65
7989336 ATAGATCTTA
* * *
7989346 TCTAAAACAACCTTTAAAAAATATTGAGATAGATCTTATCTAAAGCAATCTTTTAAAAAAGGTTG
1 TCTAAAACAACCTTTAAAAAAAATTGAGATAGATCTTATCTAAAGCAACCTTTAAAAAAAGGTTG
*
7989411 TCTAAAACAA-CTTTAAAAAAAATT-AGAATATATCTTATCT-AAGACAACCTTTAAAAAAA
1 TCTAAAACAACCTTTAAAAAAAATTGAG-ATAGATCTTATCTAAAG-CAACCTTTAAAAAAA
7989470 ATTGAAATAA
Statistics
Matches: 53, Mismatches: 4, Indels: 5
0.85 0.06 0.08
Matches are distributed among these distances:
63 5 0.09
64 38 0.72
65 10 0.19
ACGTcount: A:0.49, C:0.13, G:0.07, T:0.31
Consensus pattern (65 bp):
TCTAAAACAACCTTTAAAAAAAATTGAGATAGATCTTATCTAAAGCAACCTTTAAAAAAAGGTTG
Found at i:7989472 original size:38 final size:38
Alignment explanation
Indices: 7989411--7989516 Score: 130
Period size: 38 Copynumber: 2.9 Consensus size: 38
7989401 AAAAAGGTTG
* * *
7989411 TCTAAAACAA-CTTTAAAAAAAATT-AGAATATATCTTA
1 TCTAAGACAACCTTTAAAAAAAATTGA-AATAAATATTA
7989448 TCTAAGACAACCTTTAAAAAAAATTGAAATAAATATTA
1 TCTAAGACAACCTTTAAAAAAAATTGAAATAAATATTA
* *
7989486 TTTAAGACAACC-TT-AAAAAAATTGAGATAAA
1 TCTAAGACAACCTTTAAAAAAAATTGAAATAAA
7989517 CATGTTTAAA
Statistics
Matches: 62, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
36 16 0.26
37 11 0.18
38 34 0.55
39 1 0.02
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (38 bp):
TCTAAGACAACCTTTAAAAAAAATTGAAATAAATATTA
Found at i:7989506 original size:102 final size:101
Alignment explanation
Indices: 7989307--7989506 Score: 251
Period size: 102 Copynumber: 2.0 Consensus size: 101
7989297 AGGATAAACT
** *
7989307 TTGTCTAAAACAACTTTAAAAAGGTTGAAATAGATCTTATCTAAAACAACCTTTAAAAAATATTG
1 TTGTCTAAAACAACTTTAAAAAAATTGAAATAGATCTTATCTAAAACAACCTTTAAAAAAAATTG
* * * * **
7989372 AGATAGATCTTATCTAAAGCAATCTTTTAAAAAAGG
66 AAATAAATATTATCTAAAGCAACCTTAAAAAAAAGG
* *
7989408 TTGTCTAAAACAACTTTAAAAAAAATT-AGAATATATCTTATCTAAGACAACCTTTAAAAAAAAT
1 TTGTCTAAAACAACTTT-AAAAAAATTGA-AATAGATCTTATCTAAAACAACCTTTAAAAAAAAT
*
7989472 TGAAATAAATATTAT-TTAAGACAACCTTAAAAAAA
64 TGAAATAAATATTATCTAAAG-CAACCTTAAAAAAA
7989507 TTGAGATAAA
Statistics
Matches: 84, Mismatches: 12, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
101 22 0.26
102 62 0.74
ACGTcount: A:0.49, C:0.12, G:0.08, T:0.31
Consensus pattern (101 bp):
TTGTCTAAAACAACTTTAAAAAAATTGAAATAGATCTTATCTAAAACAACCTTTAAAAAAAATTG
AAATAAATATTATCTAAAGCAACCTTAAAAAAAAGG
Found at i:7992069 original size:21 final size:22
Alignment explanation
Indices: 7992044--7992084 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
7992034 TAATATTAGT
*
7992044 TTTTTATATAAT-TTTTTTATC
1 TTTTTAGATAATATTTTTTATC
*
7992065 TTTTTAGATTATATTTTTTA
1 TTTTTAGATAATATTTTTTA
7992085 AAATTTTTAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (22 bp):
TTTTTAGATAATATTTTTTATC
Found at i:7992330 original size:14 final size:15
Alignment explanation
Indices: 7992310--7992356 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
7992300 TTTGCAAAAA
7992310 AAAATATGTTATAAC
1 AAAATATGTTATAAC
*
7992325 AAATATGATGTGTTTAAC
1 AAA-AT-ATGT-TATAAC
7992343 -AAATATGTTATAAC
1 AAAATATGTTATAAC
7992357 TTATGTTGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
14 5 0.19
15 7 0.26
16 4 0.15
17 6 0.22
18 5 0.19
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (15 bp):
AAAATATGTTATAAC
Found at i:7992506 original size:22 final size:22
Alignment explanation
Indices: 7992444--7992504 Score: 88
Period size: 21 Copynumber: 2.8 Consensus size: 22
7992434 AGGATTATGT
*
7992444 GTTATTAATTTGGGGTTTAATG
1 GTTATAAATTTGGGGTTTAATG
* *
7992466 GTTATAACTTTAGGGTTTAA-G
1 GTTATAAATTTGGGGTTTAATG
7992487 GTTATAAATTTGGGGTTT
1 GTTATAAATTTGGGGTTT
7992505 TAAATTTAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
21 17 0.50
22 17 0.50
ACGTcount: A:0.25, C:0.02, G:0.26, T:0.48
Consensus pattern (22 bp):
GTTATAAATTTGGGGTTTAATG
Found at i:7992969 original size:36 final size:35
Alignment explanation
Indices: 7992908--7993163 Score: 181
Period size: 38 Copynumber: 7.0 Consensus size: 35
7992898 TTATTGAAGA
7992908 GTTGGGATAGACTCGTCTAAGGCAACTTTAAAAAG
1 GTTGGGATAGACTCGTCTAAGGCAACTTTAAAAAG
* * *
7992943 GTTGGGATAGGCTTTGTCTAAAGCAACCTTTAAAAAAG
1 GTTGGGATAGAC-TCGTCTAAGGCAA-CTTT-AAAAAG
* * *
7992981 ATTGGGTTAGACCCGTCTAAGGCAACTTTAAAAAG
1 GTTGGGATAGACTCGTCTAAGGCAACTTTAAAAAG
* * ** *
7993016 GTTGGGATA-AATAATGTCTAAGAAAACCTTAAAAAG
1 GTTGGGATAGACT--CGTCTAAGGCAACTTTAAAAAG
** * *
7993052 GTTGGGATAGACCTTATTTGAGGCAATCTTTAACAAAG
1 GTTGGGATAGA-CTCGTCTAAGGCAA-CTTTAA-AAAG
* ** * *
7993090 ATTGGGATAGACCTTATTTGAGGCAACCTTTAAAAAAG
1 GTTGGGATAGA-CTCGTCTAAGGCAA-CTTT-AAAAAG
* ** *
7993128 GTTGGAATAGACCTTATCTAAGGCAACCTTAAAAAG
1 GTTGGGATAGA-CTCGTCTAAGGCAACTTTAAAAAG
7993164 ATTAGCATAG
Statistics
Matches: 180, Mismatches: 31, Indels: 19
0.78 0.13 0.08
Matches are distributed among these distances:
34 1 0.01
35 24 0.13
36 55 0.31
37 23 0.13
38 75 0.42
39 2 0.01
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.27
Consensus pattern (35 bp):
GTTGGGATAGACTCGTCTAAGGCAACTTTAAAAAG
Found at i:7993044 original size:73 final size:71
Alignment explanation
Indices: 7992904--7993100 Score: 200
Period size: 73 Copynumber: 2.7 Consensus size: 71
7992894 ACTTTTATTG
* ** * *
7992904 AAGAGTTGGGATAGACTCGTCTAAGGCAACTTTAAAAAGGTTGGGATAGGCTTTGTCTAAAGCAA
1 AAGA-TTGGGATAGACCCGTCTAAGGCAACTTTAAAAAGGTTGGGATAGAATATGTCTAAAGAAA
7992969 CCTTTAAAA
65 CC-TT-AAA
*
7992978 AAGATTGGGTTAGACCCGTCTAAGGCAACTTTAAAAAGGTTGGGATA-AATAATGTCT-AAGAAA
1 AAGATTGGGATAGACCCGTCTAAGGCAACTTTAAAAAGGTTGGGATAGAAT-ATGTCTAAAG-AA
7993041 ACCTTAAA
64 ACCTTAAA
* ** * * *
7993049 AAGGTTGGGATAGACCTTATTTGAGGCAATCTTTAACAAAGATTGGGATAGA
1 AAGATTGGGATAGACC-CGTCTAAGGCAA-CTTTAA-AAAGGTTGGGATAGA
7993101 CCTTATTTGA
Statistics
Matches: 104, Mismatches: 13, Indels: 11
0.81 0.10 0.09
Matches are distributed among these distances:
71 17 0.16
72 14 0.13
73 56 0.54
74 16 0.15
75 1 0.01
ACGTcount: A:0.37, C:0.12, G:0.24, T:0.27
Consensus pattern (71 bp):
AAGATTGGGATAGACCCGTCTAAGGCAACTTTAAAAAGGTTGGGATAGAATATGTCTAAAGAAAC
CTTAAA
Found at i:7993464 original size:141 final size:140
Alignment explanation
Indices: 7993159--7993587 Score: 547
Period size: 140 Copynumber: 3.1 Consensus size: 140
7993149 GGCAACCTTA
* * *
7993159 AAAAG-ATTAGCATAGTGTTGGACAAAACCAACTCTTATTTAAGTGTTGCCTTAAGCATGGATAT
1 AAAAGTATCAGCATAGTGTTGGACAAAACCAACTCTTATTTAAGTGTTGCCTTAGGCATGCATAT
* ** * ***
7993223 CCCAACCCTTATACATAGAGTTGGCCAACTCATATGTTGGCAAGTCTATCTTGACACTTAGGAAA
66 CCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAA
*
7993288 GTGTCGGCCC
131 GTGTCGCCCC
* * * * *
7993298 AAAACTGTC-GTCATAGTATTGGACAAAGCCGACTCTTATTTAAGTGTTGCCTTAGGCATGCATA
1 AAAAGTATCAG-CATAGTGTTGGACAAAACCAACTCTTATTTAAGTGTTGCCTTAGGCATGCATA
* * * *
7993362 TCCTAACCCTTATACAAATGAGTTGGCAAAAGCGTATGTCGACAAGTCTATCCCAACACTTAGGA
65 TCCCAACCCTTATACAAA-GAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGA
7993427 AAGTGTCGCCCC
129 AAGTGTCGCCCC
* * ** *
7993439 AAAAGTATCAGCATAGTGTTAGACAAAATCAACTCTTATTTAAACGTTGTCTTAGGCATGCATAT
1 AAAAGTATCAGCATAGTGTTGGACAAAACCAACTCTTATTTAAGTGTTGCCTTAGGCATGCATAT
* * **
7993504 CCCAGCCCTTATACAAAAAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAAAAAA
66 CCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAA
*
7993569 GTGTCACCCC
131 GTGTCGCCCC
*
7993579 AAAAATATC
1 AAAAGTATC
7993588 GTCTTAGGAC
Statistics
Matches: 246, Mismatches: 40, Indels: 7
0.84 0.14 0.02
Matches are distributed among these distances:
139 5 0.02
140 124 0.50
141 116 0.47
142 1 0.00
ACGTcount: A:0.33, C:0.22, G:0.18, T:0.27
Consensus pattern (140 bp):
AAAAGTATCAGCATAGTGTTGGACAAAACCAACTCTTATTTAAGTGTTGCCTTAGGCATGCATAT
CCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGGCAAGTCTATCCCAACACTTAGGAAA
GTGTCGCCCC
Found at i:8004534 original size:29 final size:31
Alignment explanation
Indices: 8004465--8004552 Score: 92
Period size: 30 Copynumber: 2.9 Consensus size: 31
8004455 TAAACATTTG
*
8004465 GGGGTAAAATAGTACTTTTTGAAAGAATCGA
1 GGGGTAAAATAGTAATTTTTGAAAGAATCGA
*** * *
8004496 GGTCAAAAATAG-AATTTTTGAAAG-TTCGT
1 GGGGTAAAATAGTAATTTTTGAAAGAATCGA
*
8004525 GGGGTAAAATAGTAATTTTGGAAA-AATC
1 GGGGTAAAATAGTAATTTTTGAAAGAATC
8004553 AAGGTCAAAA
Statistics
Matches: 44, Mismatches: 11, Indels: 5
0.73 0.18 0.08
Matches are distributed among these distances:
29 12 0.27
30 23 0.52
31 9 0.20
ACGTcount: A:0.40, C:0.06, G:0.24, T:0.31
Consensus pattern (31 bp):
GGGGTAAAATAGTAATTTTTGAAAGAATCGA
Found at i:8004562 original size:29 final size:29
Alignment explanation
Indices: 8004466--8004693 Score: 89
Period size: 29 Copynumber: 7.8 Consensus size: 29
8004456 AAACATTTGG
* *
8004466 GGGT-AAAATAGTACTTTTTGAAAGAATC-
1 GGGTCAAAATAGTAATTTTGGAAA-AATCA
* ** *
8004494 GAGGTCAAAAATAG-AATTTTTGAAAGTTCGTG
1 G-GGTC-AAAATAGTAATTTTGGAAAAATC--A
8004526 GGGT-AAAATAGTAATTTTGGAAAAATCA
1 GGGTCAAAATAGTAATTTTGGAAAAATCA
* * *** *
8004554 AGGTCAAAA-ATGGAATTTTTGGAAGTTTGA
1 GGGTCAAAATA-GTAA-TTTTGGAAAAATCA
* *
8004584 GGGT-AAAATGGTAATTCTTGGAAAAATGA
1 GGGTCAAAATAGTAATT-TTGGAAAAATCA
* * ** *
8004613 -GGTCAAAA-ATGGAATTTTAGAAAGTTCG
1 GGGTCAAAATA-GTAATTTTGGAAAAATCA
* * *
8004641 GGGATAAAAAT-GTAATTTTTGAAAAAATTA
1 GGG-TCAAAATAGTAA-TTTTGGAAAAATCA
8004671 GGGTCAAAATAG-AATTTTGGAAA
1 GGGTCAAAATAGTAATTTTGGAAA
8004694 GTTTAGGGGG
Statistics
Matches: 145, Mismatches: 36, Indels: 38
0.66 0.16 0.17
Matches are distributed among these distances:
28 25 0.17
29 57 0.39
30 52 0.36
31 10 0.07
32 1 0.01
ACGTcount: A:0.42, C:0.04, G:0.24, T:0.30
Consensus pattern (29 bp):
GGGTCAAAATAGTAATTTTGGAAAAATCA
Found at i:8004616 original size:58 final size:57
Alignment explanation
Indices: 8004437--8004708 Score: 266
Period size: 58 Copynumber: 4.6 Consensus size: 57
8004427 GGAAAGTTGG
* * * *
8004437 GGTCAAAAATGAAATTTTT-AAACATTTGGGGGTAAAATAGTACTTTTTGAAAGAATCGA
1 GGTCAAAAATGGAATTTTTGAAA-GTTT-GGGGTAAAATAGTAATTTTGGAAA-AATCGA
* *
8004496 GGTCAAAAATAGAATTTTTGAAAGTTCGTGGGGTAAAATAGTAATTTTGGAAAAATCAA
1 GGTCAAAAATGGAATTTTTGAAAGTT--TGGGGTAAAATAGTAATTTTGGAAAAATCGA
* *
8004555 GGTCAAAAATGGAATTTTTGGAAGTTTGAGGGTAAAATGGTAATTCTTGGAAAAAT-GA
1 GGTCAAAAATGGAATTTTTGAAAGTTTG-GGGTAAAATAGTAATT-TTGGAAAAATCGA
* * * *
8004613 GGTCAAAAATGGAATTTTAGAAAGTTCGGGGATAAAA-ATGTAATTTTTGAAAAAAT-TA
1 GGTCAAAAATGGAATTTTTGAAAGTTTGGGG-TAAAATA-GTAA-TTTTGGAAAAATCGA
* *
8004671 GGGTC-AAAATAGAATTTTGGAAAGTTTAGGGGGTAAAA
1 -GGTCAAAAATGGAATTTTTGAAAGTTT--GGGGTAAAA
8004709 ATGTAATATT
Statistics
Matches: 183, Mismatches: 19, Indels: 22
0.82 0.08 0.10
Matches are distributed among these distances:
57 5 0.03
58 79 0.43
59 69 0.38
60 29 0.16
61 1 0.01
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (57 bp):
GGTCAAAAATGGAATTTTTGAAAGTTTGGGGTAAAATAGTAATTTTGGAAAAATCGA
Found at i:8005951 original size:12 final size:11
Alignment explanation
Indices: 8005936--8005977 Score: 50
Period size: 12 Copynumber: 3.7 Consensus size: 11
8005926 CCGTCATTAA
8005936 TATTATTAATGT
1 TATTATTAAT-T
*
8005948 TATTAGTAATAT
1 TATTATTAAT-T
8005960 TATTATT-ATT
1 TATTATTAATT
8005970 TATTATTA
1 TATTATTA
8005978 TTACTGACAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 8 0.31
11 2 0.08
12 16 0.62
ACGTcount: A:0.36, C:0.00, G:0.05, T:0.60
Consensus pattern (11 bp):
TATTATTAATT
Found at i:8006683 original size:11 final size:12
Alignment explanation
Indices: 8006660--8006712 Score: 74
Period size: 11 Copynumber: 4.6 Consensus size: 12
8006650 CTTTTTAATT
8006660 AATTTAAATTTA
1 AATTTAAATTTA
*
8006672 AATTCAAA-TTA
1 AATTTAAATTTA
*
8006683 AATTTAAACTT-
1 AATTTAAATTTA
8006694 AATTTAAATTTA
1 AATTTAAATTTA
8006706 AATTTAA
1 AATTTAA
8006713 GAAAAGTTTA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
11 20 0.56
12 16 0.44
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (12 bp):
AATTTAAATTTA
Found at i:8006712 original size:17 final size:17
Alignment explanation
Indices: 8006658--8006712 Score: 83
Period size: 17 Copynumber: 3.2 Consensus size: 17
8006648 GACTTTTTAA
8006658 TTAATTTAAATTTAAAT
1 TTAATTTAAATTTAAAT
* * *
8006675 TCAAATTAAATTTAAAC
1 TTAATTTAAATTTAAAT
8006692 TTAATTTAAATTTAAAT
1 TTAATTTAAATTTAAAT
8006709 TTAA
1 TTAA
8006713 GAAAAGTTTA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
17 32 1.00
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (17 bp):
TTAATTTAAATTTAAAT
Found at i:8006730 original size:6 final size:6
Alignment explanation
Indices: 8006660--8006712 Score: 74
Period size: 6 Copynumber: 9.2 Consensus size: 6
8006650 CTTTTTAATT
* *
8006660 AATTTA AATTTA AATTCA AA-TTA AATTTA AACTT- AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
8006706 AATTTA A
1 AATTTA A
8006713 GAAAAGTTTA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
5 8 0.20
6 33 0.80
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (6 bp):
AATTTA
Found at i:8007487 original size:49 final size:49
Alignment explanation
Indices: 8007428--8007859 Score: 386
Period size: 49 Copynumber: 8.8 Consensus size: 49
8007418 AGGTTTATCA
* * ** * ***
8007428 TTGCGACTTAAACCTTTCCCTTTGTGCCTTCGTGGTACTGGATTTACCG
1 TTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCG
* * * *
8007477 TTGCGGCTTAAATCTTTCCCTTCATGTC-TCTGAGGTACCAGG-TTCGTCG
1 TTGCGGCTTAAATCTTTCCCTTCATGTCTTC-GTGGTA-CTGGATCCGCCG
** ** * **
8007526 TCACCACTTAAACCTTTCCCTTCATGTCTTCGTGGTACTGGATCCATCG
1 TTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCG
* * * * *
8007575 TTGCGGCTTAGATCTTTCCCTTCGTGCCTTCGTGATATTGGATCCGCCG
1 TTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCG
* * * *
8007624 TCGCGGCTTAGATATTTCCCTTCATGTCTTCGTGGTGCTGGATCCGCCG
1 TTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCG
* * *
8007673 TTGCGGCTTAGATCTTTCCCTTCATGTCTTCGTGGTACTGGATTCGCAG
1 TTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCG
* * * * * *
8007722 TTGCGGCTTAAATCTTTCCCTCCATGTCTTTGAGGTACAAGG-TTCACCG
1 TTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTAC-TGGATCCGCCG
* * * * *
8007771 TTGTGACTTAAAACTTTTCCTTTCATGTCTTCGTGGTACTAGATCCGCCG
1 TTGCGGCTTAAATC-TTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCG
* * * *
8007821 TTGCGGCTTAGATCTTTCCTTTCGTGT-TTCATGGTACTG
1 TTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTG
8007860 AGACCTGTAA
Statistics
Matches: 308, Mismatches: 68, Indels: 15
0.79 0.17 0.04
Matches are distributed among these distances:
48 15 0.05
49 251 0.81
50 42 0.14
ACGTcount: A:0.14, C:0.27, G:0.22, T:0.38
Consensus pattern (49 bp):
TTGCGGCTTAAATCTTTCCCTTCATGTCTTCGTGGTACTGGATCCGCCG
Found at i:8019066 original size:97 final size:97
Alignment explanation
Indices: 8018893--8019084 Score: 228
Period size: 97 Copynumber: 2.0 Consensus size: 97
8018883 CTTTGGAAAA
* * * * * *
8018893 GGATATTTGATTATCTCGATTTGAAGAAAATTCGCACCTAGTGAGTTAAGGCATAAATTTTCAGA
1 GGATATTCGATTATCTCGATTTGAAGAAAAATCGCACCTAGTAAGTTAAAGCACAAATTTTCAAA
*
8018958 ATCAGAGAT-AAAGAAACATTGCCTCGATTTAG
66 ATCAGAAATAAAAG-AACATTGCCTCGATTTAG
***
8018990 GGATATTCGATTAT-TCCGATTTGAAGAAAAATCGTGTCTAGTAAGTTAAAGCACAAATTTTCAA
1 GGATATTCGATTATCT-CGATTTGAAGAAAAATCGCACCTAGTAAGTTAAAGCACAAATTTTCAA
* *
8019054 AACTC-GAAATAAAAGAATATTGCCTTGATTT
65 AA-TCAGAAATAAAAGAACATTGCCTCGATTT
8019085 TAAAGTTTCC
Statistics
Matches: 80, Mismatches: 12, Indels: 6
0.82 0.12 0.06
Matches are distributed among these distances:
96 1 0.01
97 73 0.91
98 6 0.08
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.32
Consensus pattern (97 bp):
GGATATTCGATTATCTCGATTTGAAGAAAAATCGCACCTAGTAAGTTAAAGCACAAATTTTCAAA
ATCAGAAATAAAAGAACATTGCCTCGATTTAG
Found at i:8019524 original size:59 final size:56
Alignment explanation
Indices: 8019370--8019568 Score: 208
Period size: 59 Copynumber: 3.4 Consensus size: 56
8019360 TTTAGACATC
* *
8019370 TGGGGGTAAAATGGTACTTTTTGGAAGAATTGAGGTCAAAAATGAAATTTTTGAAAGTT
1 TGGGGGTAAAATGGTA-TTTTTGGAA-AATCGAGGTTAAAAATG-AATTTTTGAAAGTT
* *
8019429 CGGGGGTAAAA-AGTA-TTTTGGAAAAATCGAGGTTAAAAATAGAATTTTT-AGAAGTT
1 TGGGGGTAAAATGGTATTTTTGG-AAAATCGAGGTTAAAAAT-GAATTTTTGA-AAGTT
* * *
8019485 TGAGGGTAAAATGGTATTTTTTGGACAAATCGGGGTTAAAAATGGAATTTTGGAAAGTT
1 TGGGGGTAAAATGGTA-TTTTTGGA-AAATCGAGGTTAAAAAT-GAATTTTTGAAAGTT
8019544 TGGGGGTAAAAAT-GTAATTTTTGGA
1 TGGGGGT-AAAATGGT-ATTTTTGGA
8019569 TAGTTTAGGG
Statistics
Matches: 119, Mismatches: 11, Indels: 20
0.79 0.07 0.13
Matches are distributed among these distances:
55 1 0.01
56 41 0.34
57 6 0.05
58 4 0.03
59 60 0.50
60 7 0.06
ACGTcount: A:0.36, C:0.03, G:0.28, T:0.33
Consensus pattern (56 bp):
TGGGGGTAAAATGGTATTTTTGGAAAATCGAGGTTAAAAATGAATTTTTGAAAGTT
Found at i:8019550 original size:30 final size:30
Alignment explanation
Indices: 8019407--8019574 Score: 109
Period size: 29 Copynumber: 5.8 Consensus size: 30
8019397 AATTGAGGTC
* *
8019407 AAAAATGAAATTTTT-GAAAGTTCGGGGGT
1 AAAAATGGAATTTTTGGAAAGTTTGGGGGT
* ** * * *
8019436 AAAAA--GTA-TTTTGGAAAAATCGAGGTT
1 AAAAATGGAATTTTTGGAAAGTTTGGGGGT
* * *
8019463 AAAAATAGAATTTTTAG-AAGTTTGAGGGT
1 AAAAATGGAATTTTTGGAAAGTTTGGGGGT
* * * *
8019492 -AAAATGGTATTTTTTGGACAA-ATCGGGGTT
1 AAAAATGG-AATTTTTGGA-AAGTTTGGGGGT
8019522 AAAAATGGAA-TTTTGGAAAGTTTGGGGGT
1 AAAAATGGAATTTTTGGAAAGTTTGGGGGT
* *
8019551 AAAAATGTAATTTTTGGATAGTTT
1 AAAAATGGAATTTTTGGAAAGTTT
8019575 AGGGACCTTT
Statistics
Matches: 104, Mismatches: 25, Indels: 19
0.70 0.17 0.13
Matches are distributed among these distances:
26 4 0.04
27 16 0.15
28 8 0.08
29 44 0.42
30 23 0.22
31 9 0.09
ACGTcount: A:0.38, C:0.02, G:0.26, T:0.35
Consensus pattern (30 bp):
AAAAATGGAATTTTTGGAAAGTTTGGGGGT
Found at i:8020767 original size:3 final size:3
Alignment explanation
Indices: 8020759--8020831 Score: 56
Period size: 3 Copynumber: 24.0 Consensus size: 3
8020749 AAGATTTCCT
** * * * * *
8020759 TTA TTA TTA TTA TTA TTA TCG TCA TTA ATA TTA TTA ATG TTA TTA GTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
8020807 ATA ATA TTA TTA TTTA TTA TTA TTA
1 TTA TTA TTA TTA -TTA TTA TTA TTA
8020832 CTGACATTAA
Statistics
Matches: 56, Mismatches: 13, Indels: 2
0.79 0.18 0.03
Matches are distributed among these distances:
3 53 0.95
4 3 0.05
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.58
Consensus pattern (3 bp):
TTA
Found at i:8021523 original size:6 final size:6
Alignment explanation
Indices: 8021512--8021593 Score: 68
Period size: 6 Copynumber: 14.3 Consensus size: 6
8021502 CTTTTTAATT
* *
8021512 AATTTA AATTTA AATTCA AA-TTA AATTTA AACTT- AATTTA AATTTA
1 AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA AATTTA
* *
8021558 AACTTA AGA---A AAGTTTA AATTTA AA-CTA AATTTA AA
1 AATTTA A-ATTTA AA-TTTA AATTTA AATTTA AATTTA AA
8021594 CCCAAAATGA
Statistics
Matches: 61, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
3 1 0.02
4 2 0.03
5 12 0.20
6 42 0.69
7 4 0.07
ACGTcount: A:0.52, C:0.05, G:0.02, T:0.40
Consensus pattern (6 bp):
AATTTA
Found at i:8021537 original size:17 final size:17
Alignment explanation
Indices: 8021510--8021594 Score: 86
Period size: 17 Copynumber: 5.0 Consensus size: 17
8021500 GACTTTTTAA
*
8021510 TTAATTTAAATTTAAA-
1 TTAAATTAAATTTAAAC
8021526 TTCAAATTAAATTTAAAC
1 TT-AAATTAAATTTAAAC
*
8021544 TTAATTTAAATTTAAAC
1 TTAAATTAAATTTAAAC
*
8021561 TTAAGA--AAAGTTTAAAT
1 TTAA-ATTAAA-TTTAAAC
*
8021578 TTAAACTAAATTTAAAC
1 TTAAATTAAATTTAAAC
8021595 CCAAAATGAA
Statistics
Matches: 58, Mismatches: 5, Indels: 11
0.78 0.07 0.15
Matches are distributed among these distances:
16 6 0.10
17 47 0.81
18 5 0.09
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (17 bp):
TTAAATTAAATTTAAAC
Found at i:8021549 original size:11 final size:11
Alignment explanation
Indices: 8021510--8021558 Score: 62
Period size: 11 Copynumber: 4.4 Consensus size: 11
8021500 GACTTTTTAA
8021510 TTAATTTAAAT
1 TTAATTTAAAT
*
8021521 TTAAATTCAAAT
1 TT-AATTTAAAT
* *
8021533 TAAATTTAAAC
1 TTAATTTAAAT
8021544 TTAATTTAAAT
1 TTAATTTAAAT
8021555 TTAA
1 TTAA
8021559 ACTTAAGAAA
Statistics
Matches: 31, Mismatches: 6, Indels: 2
0.79 0.15 0.05
Matches are distributed among these distances:
11 22 0.71
12 9 0.29
ACGTcount: A:0.49, C:0.04, G:0.00, T:0.47
Consensus pattern (11 bp):
TTAATTTAAAT
Found at i:8021575 original size:34 final size:34
Alignment explanation
Indices: 8021510--8021594 Score: 95
Period size: 34 Copynumber: 2.5 Consensus size: 34
8021500 GACTTTTTAA
8021510 TTAATTTAAATTTAAA-TTCAAATTAAATTTAAAC
1 TTAATTTAAATTTAAACTTCAAA-TAAATTTAAAC
*
8021544 TTAATTTAAATTTAAACTT-AAGA-AAAGTTTAAAT
1 TTAATTTAAATTTAAACTTCAA-ATAAA-TTTAAAC
**
8021578 TTAAACTAAATTTAAAC
1 TTAATTTAAATTTAAAC
8021595 CCAAAATGAA
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
33 3 0.07
34 39 0.87
35 3 0.07
ACGTcount: A:0.51, C:0.06, G:0.02, T:0.41
Consensus pattern (34 bp):
TTAATTTAAATTTAAACTTCAAATAAATTTAAAC
Found at i:8021616 original size:51 final size:51
Alignment explanation
Indices: 8021520--8021620 Score: 121
Period size: 51 Copynumber: 2.0 Consensus size: 51
8021510 TTAATTTAAA
* ** ** *
8021520 TTTAAATTCAAATTAAATTTAAACTTAATTTAAATTTAAACTTAAGAAAAG
1 TTTAAATTCAAACTAAATTTAAACCCAAAATAAATTAAAACTTAAGAAAAG
* * *
8021571 TTTAAATTTAAACTAAATTTAAACCCAAAATGAATTAAAATTTAAGAAAA
1 TTTAAATTCAAACTAAATTTAAACCCAAAATAAATTAAAACTTAAGAAAA
8021621 AATTAAAAAT
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
51 41 1.00
ACGTcount: A:0.53, C:0.07, G:0.04, T:0.36
Consensus pattern (51 bp):
TTTAAATTCAAACTAAATTTAAACCCAAAATAAATTAAAACTTAAGAAAAG
Found at i:8022391 original size:17 final size:18
Alignment explanation
Indices: 8022357--8022392 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8022347 TGAATTTCTA
8022357 TCCAATTTATACCCTAAT
1 TCCAATTTATACCCTAAT
*
8022375 TCCAATTTA-ATCCTAAT
1 TCCAATTTATACCCTAAT
8022392 T
1 T
8022393 AACTCATTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.33, C:0.25, G:0.00, T:0.42
Consensus pattern (18 bp):
TCCAATTTATACCCTAAT
Found at i:8025834 original size:59 final size:59
Alignment explanation
Indices: 8025635--8026238 Score: 543
Period size: 60 Copynumber: 10.2 Consensus size: 59
8025625 TCGGGTATTA
* * * * *
8025635 CATGGCCAACACCAAAAAACTTTAATTTTTTACCAAATAAAAAAGGGAGTGTCGGTCATGG
1 CATGGCCAACACCAAAAAA-TTTGATTTTTTATCAGATAAAAAAGGG-GTGTCGGCCATTG
*** * * *
8025696 CATGGCCAACACCAAAAAATTTTGAATTTTTTATTTTACAAAAAGGGGGTGTCGACCATTG
1 CATGGCCAACACCAAAAAA-TTTG-ATTTTTTATCAGATAAAAAAGGGGTGTCGGCCATTG
** * * * *
8025757 CATGGCCAACATAAAAAAAATTGATTTTTTACCAGATAAAAAAGAGGGTGTCGACCATGG
1 CATGGCCAACACCAAAAAATTTGATTTTTTATCAGATAAAAAAG-GGGTGTCGGCCATTG
* * ** * *
8025817 CATGGCCAGCA-CAAAAAAATTGACTTTTTTATTTGA-CAAAAAGGGAGTGTCGGCCATGG
1 CATGGCCAACACCAAAAAATTTGA-TTTTTTATCAGATAAAAAAGGG-GTGTCGGCCATTG
* * * *
8025876 CATGACCAACACCCAAAAATTTGATTTTTTATTCAGA-CAAAAAGGGGTGTCGGCTA-TG
1 CATGGCCAACACCAAAAAATTTGATTTTTTA-TCAGATAAAAAAGGGGTGTCGGCCATTG
* * *
8025934 CAATGGCCAACATCAAAAAATTTTGAAATTTTTTATCTG--AAAAAAGAGGTGTCGGCCATTG
1 C-ATGGCCAACACCAAAAAA-TTTG--ATTTTTTATCAGATAAAAAAGGGGTGTCGGCCATTG
* * *
8025995 CATGGTCAACACCCAAAAA-TTGATTTTTTTATCAGAT-AAATAGGGGTGTCGGCCATTG
1 CATGGCCAACACCAAAAAATTTGA-TTTTTTATCAGATAAAAAAGGGGTGTCGGCCATTG
** *
8026053 CATGGCCAACACCAAAAAA-TTGAATTTTTTATTTGACAAAAAAGGGGTGTCGGCCATTG
1 CATGGCCAACACCAAAAAATTTG-ATTTTTTATCAGATAAAAAAGGGGTGTCGGCCATTG
* * * *
8026112 CATGGCTAACACCCAAAAATTTGATTTTTTTATCAGATTAAAAAGGGGTGTCGGCCA-TA
1 CATGGCCAACACCAAAAAATTTGA-TTTTTTATCAGATAAAAAAGGGGTGTCGGCCATTG
* * * *
8026171 CAATGGCTAACACC--AAAATTT--TTTTTCCTGTTAGATAAAAAAGGGGGTGTCAGCCATTG
1 C-ATGGCCAACACCAAAAAATTTGATTTTT--TATCAGATAAAAAA-GGGGTGTCGGCCATTG
8026230 CATGGCCAA
1 CATGGCCAA
8026239 AACTAATTTT
Statistics
Matches: 452, Mismatches: 68, Indels: 49
0.79 0.12 0.09
Matches are distributed among these distances:
55 5 0.01
56 1 0.00
57 21 0.05
58 82 0.18
59 127 0.28
60 136 0.30
61 55 0.12
62 25 0.06
ACGTcount: A:0.35, C:0.17, G:0.20, T:0.28
Consensus pattern (59 bp):
CATGGCCAACACCAAAAAATTTGATTTTTTATCAGATAAAAAAGGGGTGTCGGCCATTG
Found at i:8025900 original size:119 final size:119
Alignment explanation
Indices: 8025635--8026188 Score: 651
Period size: 119 Copynumber: 4.6 Consensus size: 119
8025625 TCGGGTATTA
* * * * *
8025635 CATGGCCAACACCAAAAAACTTTAATTTTTTACCAAATAAAAAAGGGAGTGTCGGTCATGGCATG
1 CATGGCCAACACCCAAAAA-TTTGATTTTTTATCAGATAAAAAAGGG-GTGTCGGCCATGGCATG
* * *
8025700 GCCAACACCAAAAAATTTTGAATTTTTTATTTTACAAAAAGGGGGTGTCGACCATTG
64 GCCAACACCAAAAAATATTGAATTTTTTATTTGACAAAAA-GGGGTGTCGGCCATTG
*** * * *
8025757 CATGGCCAACATAAAAAAAATTGATTTTTTACCAGATAAAAAAGAGGGTGTCGACCATGGCATGG
1 CATGGCCAACACCCAAAAATTTGATTTTTTATCAGATAAAAAAG-GGGTGTCGGCCATGGCATGG
* * *
8025822 CCAGCA-CAAAAAA-ATTGACTTTTTTATTTGACAAAAAGGGAGTGTCGGCCATGG
65 CCAACACCAAAAAATATTGAATTTTTTATTTGACAAAAAGGG-GTGTCGGCCATTG
* * *
8025876 CATGACCAACACCCAAAAATTTGATTTTTTATTCAGA-CAAAAAGGGGTGTCGGCTAT-GCAATG
1 CATGGCCAACACCCAAAAATTTGATTTTTTA-TCAGATAAAAAAGGGGTGTCGGCCATGGC-ATG
* * * *
8025939 GCCAACATCAAAAAATTTTGAAATTTTTTATCTGA-AAAAAGAGGTGTCGGCCATTG
64 GCCAACACCAAAAAATATTG-AATTTTTTATTTGACAAAAAGGGGTGTCGGCCATTG
* * *
8025995 CATGGTCAACACCCAAAAA-TTGATTTTTTTATCAGAT-AAATAGGGGTGTCGGCCATTGCATGG
1 CATGGCCAACACCCAAAAATTTGA-TTTTTTATCAGATAAAAAAGGGGTGTCGGCCATGGCATGG
8026058 CCAACACC-AAAAA-ATTGAATTTTTTATTTGACAAAAAAGGGGTGTCGGCCATTG
65 CCAACACCAAAAAATATTGAATTTTTTATTTGAC-AAAAAGGGGTGTCGGCCATTG
* * *
8026112 CATGGCTAACACCCAAAAATTTGATTTTTTTATCAGATTAAAAAGGGGTGTCGGCCAT-ACAATG
1 CATGGCCAACACCCAAAAATTTGA-TTTTTTATCAGATAAAAAAGGGGTGTCGGCCATGGC-ATG
*
8026176 GCTAACACCAAAA
64 GCCAACACCAAAA
8026189 TTTTTTTTCC
Statistics
Matches: 375, Mismatches: 41, Indels: 34
0.83 0.09 0.08
Matches are distributed among these distances:
115 13 0.03
116 3 0.01
117 44 0.12
118 79 0.21
119 138 0.37
120 24 0.06
121 55 0.15
122 19 0.05
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.27
Consensus pattern (119 bp):
CATGGCCAACACCCAAAAATTTGATTTTTTATCAGATAAAAAAGGGGTGTCGGCCATGGCATGGC
CAACACCAAAAAATATTGAATTTTTTATTTGACAAAAAGGGGTGTCGGCCATTG
Found at i:8026227 original size:58 final size:58
Alignment explanation
Indices: 8025633--8026227 Score: 277
Period size: 59 Copynumber: 10.0 Consensus size: 58
8025623 TGTCGGGTAT
* * * * *
8025633 TACATGGCCAACACCAAAAAACTTTAATTTTT-TACCAAATAAAAAAGGGAGTGTCGGTCA
1 TACATGGCTAACACCCAAAAA-TTT-ATTTTTCTATCAGATAAAAAAGGG-GTGTCGGCCA
* * * *** * * *
8025693 TGGCATGGCCAACACCAAAAAATTTTGAATTTTT-TATTTTACAAAAAGGGGGTGTCGACCA
1 T-ACATGGCTAACACCCAAAAA-TTT--ATTTTTCTATCAGATAAAAAAGGGGTGTCGGCCA
* * *** * * *
8025754 TTGCATGGCCAACATAAAAAAAATTGATTTTT-TACCAGATAAAAAAGAGGGTGTCGACCA
1 -TACATGGCTAACA-CCCAAAAATTTATTTTTCTATCAGATAAAAAAG-GGGTGTCGGCCA
* * * ** * ** *
8025814 TGGCATGGCCAGCACAAAAAAATTGACTTTTT-TATTTGA-CAAAAAGGGAGTGTCGGCCA
1 T-ACATGGCTAACACCCAAAAATTTA-TTTTTCTATCAGATAAAAAAGGG-GTGTCGGCCA
* * * * *
8025873 TGGCATGACCAACACCCAAAAATTTGATTTTT-TATTCAGA-CAAAAAGGGGTGTCGGCTA
1 T-ACATGGCTAACACCCAAAAATTT-ATTTTTCTA-TCAGATAAAAAAGGGGTGTCGGCCA
* * * * * *
8025932 TGCAATGGCCAACATCAAAAAATTTTGAAATTTTT-TATCTG--AAAAAAGAGGTGTCGGCCA
1 TAC-ATGGCTAACACCCAAAAA-TTT---ATTTTTCTATCAGATAAAAAAGGGGTGTCGGCCA
* * * *
8025992 TTGCATGG-TCAACACCCAAAAATTGATTTTTTTATCAGAT-AAATAGGGGTGTCGGCCA
1 -TACATGGCT-AACACCCAAAAATTTATTTTTCTATCAGATAAAAAAGGGGTGTCGGCCA
* * * * ** *
8026050 TTGCATGGCCAACACCAAAAAATTGAATTTTT-TATTTGACAAAAAAGGGGTGTCGGCCA
1 -TACATGGCTAACACCCAAAAATT-TATTTTTCTATCAGATAAAAAAGGGGTGTCGGCCA
* * *
8026109 TTGCATGGCTAACACCCAAAAATTTGATTTTTTTATCAGATTAAAAAGGGGTGTCGGCCA
1 -TACATGGCTAACACCCAAAAATTT-ATTTTTCTATCAGATAAAAAAGGGGTGTCGGCCA
* * *
8026169 TACAATGGCTAACA-CC-AAAATTT-TTTTTCCTGTTAGATAAAAAAGGGGGTGTCAGCCA
1 TAC-ATGGCTAACACCCAAAAATTTATTTTT-CTATCAGATAAAAAA-GGGGTGTCGGCCA
8026227 T
1 T
8026228 TGCATGGCCA
Statistics
Matches: 439, Mismatches: 69, Indels: 56
0.78 0.12 0.10
Matches are distributed among these distances:
56 11 0.03
57 16 0.04
58 66 0.15
59 151 0.34
60 112 0.26
61 50 0.11
62 33 0.08
ACGTcount: A:0.36, C:0.17, G:0.19, T:0.28
Consensus pattern (58 bp):
TACATGGCTAACACCCAAAAATTTATTTTTCTATCAGATAAAAAAGGGGTGTCGGCCA
Found at i:8026810 original size:10 final size:10
Alignment explanation
Indices: 8026789--8026831 Score: 65
Period size: 9 Copynumber: 4.6 Consensus size: 10
8026779 AAATTTTAAC
8026789 TTTTTTAT-A
1 TTTTTTATAA
8026798 TTTTTTATAA
1 TTTTTTATAA
8026808 -TTTTTATAA
1 TTTTTTATAA
8026817 -TTTTTATAA
1 TTTTTTATAA
8026826 TTTTTT
1 TTTTTT
8026832 TAAATATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
9 26 0.81
10 6 0.19
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (10 bp):
TTTTTTATAA
Found at i:8026811 original size:18 final size:18
Alignment explanation
Indices: 8026790--8026872 Score: 75
Period size: 18 Copynumber: 4.7 Consensus size: 18
8026780 AATTTTAACT
*
8026790 TTTTTATATTTTTTATAA
1 TTTTTATAATTTTTATAA
8026808 TTTTTATAATTTTTATAA
1 TTTTTATAATTTTTATAA
* *
8026826 TTTTTTTAA---ATATAA
1 TTTTTATAATTTTTATAA
* *
8026841 ATTTTAAAATTTTTATAAA
1 TTTTTATAATTTTTAT-AA
8026860 TATTTTA-AATTTT
1 T-TTTTATAATTTT
8026873 AAAAATTATT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
15 11 0.21
18 28 0.54
19 8 0.15
20 5 0.10
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TTTTTATAATTTTTATAA
Found at i:8026846 original size:33 final size:33
Alignment explanation
Indices: 8026803--8026869 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
8026793 TTATATTTTT
* * * *
8026803 TATAATTTTTATAATTTTTATAATTTTTTTAAA
1 TATAAATTTTAAAATTTTTATAAATATTTTAAA
8026836 TATAAATTTTAAAATTTTTATAAATATTTTAAA
1 TATAAATTTTAAAATTTTTATAAATATTTTAAA
8026869 T
1 T
8026870 TTTAAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (33 bp):
TATAAATTTTAAAATTTTTATAAATATTTTAAA
Found at i:8026896 original size:28 final size:27
Alignment explanation
Indices: 8026799--8026876 Score: 83
Period size: 24 Copynumber: 3.0 Consensus size: 27
8026789 TTTTTTATAT
* * *
8026799 TTTTTAT-AATTTTTATAATTTTTATAA
1 TTTTTATAAATATTT-TAAATTTTAAAA
*
8026826 TTTTTTTAAATA---TAAATTTTAAAA
1 TTTTTATAAATATTTTAAATTTTAAAA
8026850 TTTTTATAAATATTTTAAATTTTAAAA
1 TTTTTATAAATATTTTAAATTTTAAAA
8026877 ATTATTTTGA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
24 21 0.50
27 18 0.43
28 3 0.07
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (27 bp):
TTTTTATAAATATTTTAAATTTTAAAA
Found at i:8026905 original size:20 final size:19
Alignment explanation
Indices: 8026827--8026912 Score: 68
Period size: 20 Copynumber: 4.3 Consensus size: 19
8026817 TTTTTATAAT
*
8026827 TTTTTTAAATATAAATTTTAAA
1 TTTTTTAAA-AT--ATTTTGAA
*
8026849 ATTTTTATAAATATTTT-AA
1 TTTTTTA-AAATATTTTGAA
* *
8026868 ATTTTAAAAATTATTTTGAA
1 TTTTTTAAAA-TATTTTGAA
8026888 TTTTTTAAAAGTATTTTG-A
1 TTTTTTAAAA-TATTTTGAA
8026907 TTTTTT
1 TTTTTT
8026913 TTTAAATTTT
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
18 3 0.05
19 21 0.38
20 22 0.39
22 8 0.14
23 2 0.04
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.58
Consensus pattern (19 bp):
TTTTTTAAAATATTTTGAA
Found at i:8026914 original size:21 final size:20
Alignment explanation
Indices: 8026850--8026912 Score: 69
Period size: 19 Copynumber: 3.2 Consensus size: 20
8026840 AATTTTAAAA
*
8026850 TTTTTATAAA-TATTTT-AAA
1 TTTTTA-AAAGTATTTTGAAT
* *
8026869 TTTTAAAAATTATTTTGAAT
1 TTTTTAAAAGTATTTTGAAT
8026889 TTTTTAAAAGTATTTTG-AT
1 TTTTTAAAAGTATTTTGAAT
8026908 TTTTT
1 TTTTT
8026913 TTTAAATTTT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
18 3 0.08
19 18 0.47
20 17 0.45
ACGTcount: A:0.35, C:0.00, G:0.05, T:0.60
Consensus pattern (20 bp):
TTTTTAAAAGTATTTTGAAT
Found at i:8031067 original size:30 final size:28
Alignment explanation
Indices: 8031017--8031075 Score: 82
Period size: 30 Copynumber: 2.0 Consensus size: 28
8031007 TACAAAATTA
8031017 TTAAATTTAACAAGTAATTTATATTTAAT
1 TTAAATTTAACAAGTAATTTATA-TTAAT
* *
8031046 TTAAATTTTAATAAGTGATTTATATTAAT
1 TTAAA-TTTAACAAGTAATTTATATTAAT
8031075 T
1 T
8031076 ATATAAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
29 11 0.41
30 16 0.59
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (28 bp):
TTAAATTTAACAAGTAATTTATATTAAT
Found at i:8040121 original size:12 final size:12
Alignment explanation
Indices: 8040104--8040129 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
8040094 TAAGGTTATA
8040104 ATACTTTATATT
1 ATACTTTATATT
8040116 ATACTTTATATT
1 ATACTTTATATT
8040128 AT
1 AT
8040130 GCTATTTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.08, G:0.00, T:0.58
Consensus pattern (12 bp):
ATACTTTATATT
Found at i:8044191 original size:23 final size:23
Alignment explanation
Indices: 8044161--8044235 Score: 114
Period size: 23 Copynumber: 3.3 Consensus size: 23
8044151 TATATCTTTT
*
8044161 CTTAAATATTATTGTGATTTGTG
1 CTTAAATATTAATGTGATTTGTG
* *
8044184 CTTAAATATTAATATGATTTATG
1 CTTAAATATTAATGTGATTTGTG
*
8044207 ATTAAATATTAATGTGATTTGTG
1 CTTAAATATTAATGTGATTTGTG
8044230 CTTAAA
1 CTTAAA
8044236 AAATTAAGAT
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 45 1.00
ACGTcount: A:0.35, C:0.04, G:0.13, T:0.48
Consensus pattern (23 bp):
CTTAAATATTAATGTGATTTGTG
Found at i:8052484 original size:17 final size:17
Alignment explanation
Indices: 8052457--8052524 Score: 84
Period size: 17 Copynumber: 4.1 Consensus size: 17
8052447 ATAATTTAAT
8052457 TTTTAAA-TTAAATTTA
1 TTTTAAATTTAAATTTA
8052473 TTTTAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
** * *
8052490 CATAAAATTTAAGTTTA
1 TTTTAAATTTAAATTTA
*
8052507 TTATAAATTTAAATTTA
1 TTTTAAATTTAAATTTA
8052524 T
1 T
8052525 AAATTAAATT
Statistics
Matches: 42, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
16 7 0.17
17 35 0.83
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (17 bp):
TTTTAAATTTAAATTTA
Done.