Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032248.1 Gossypioides kirkii chromosome KI_06
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: 60359545
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 900 characters in sequence are not A, C, G, or T
File 62 of 193
Found at i:19587626 original size:14 final size:13
Alignment explanation
Indices: 19587567--19587627 Score: 63
Period size: 11 Copynumber: 4.5 Consensus size: 13
19587557 ATAATTTTAT
19587567 ATTTTAAAAAATA
1 ATTTTAAAAAATA
19587580 ATTTT--AAAATA
1 ATTTTAAAAAATA
*
19587591 ATTTTAATAAATTTA
1 ATTTTAA-AAA-ATA
19587606 TATTTTAAAAAGATA
1 -ATTTTAAAAA-ATA
19587621 ATTTTAA
1 ATTTTAA
19587628 TAATTTTAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
11 11 0.28
13 5 0.12
14 10 0.25
15 7 0.17
16 7 0.17
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.46
Consensus pattern (13 bp):
ATTTTAAAAAATA
Found at i:19592734 original size:22 final size:22
Alignment explanation
Indices: 19592704--19592747 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
19592694 AAATAAGTAT
*
19592704 AAATAGGTTTGATTAAGG-TTAA
1 AAATAGG-TTAATTAAGGCTTAA
*
19592726 AAATGGGTTAATTAAGGCTTAA
1 AAATAGGTTAATTAAGGCTTAA
19592748 TGATGAAAGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 9 0.47
22 10 0.53
ACGTcount: A:0.41, C:0.02, G:0.23, T:0.34
Consensus pattern (22 bp):
AAATAGGTTAATTAAGGCTTAA
Found at i:19599474 original size:18 final size:18
Alignment explanation
Indices: 19599453--19599507 Score: 92
Period size: 18 Copynumber: 3.1 Consensus size: 18
19599443 ATGTTCCTCT
*
19599453 TCCTTTTAGGGTTCTGAG
1 TCCTTTTAGGGTTCTAAG
19599471 TCCTTTTAGGGTTCTAAG
1 TCCTTTTAGGGTTCTAAG
*
19599489 TCCTTTTAAGGTTCTAAG
1 TCCTTTTAGGGTTCTAAG
19599507 T
1 T
19599508 GTCTTTAGCT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.16, C:0.16, G:0.22, T:0.45
Consensus pattern (18 bp):
TCCTTTTAGGGTTCTAAG
Found at i:19610052 original size:17 final size:17
Alignment explanation
Indices: 19610005--19610052 Score: 51
Period size: 19 Copynumber: 2.7 Consensus size: 17
19609995 GTAGTTGGCA
*
19610005 TGCATTTTTATTATCAT
1 TGCATTTTTTTTATCAT
*
19610022 TGCATTTTTATTTTTTCAT
1 TGCA-TTTT-TTTTATCAT
*
19610041 TGTATTTTTTTT
1 TGCATTTTTTTT
19610053 GTTAATTTAG
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 8 0.31
18 8 0.31
19 10 0.38
ACGTcount: A:0.17, C:0.08, G:0.06, T:0.69
Consensus pattern (17 bp):
TGCATTTTTTTTATCAT
Found at i:19610673 original size:13 final size:14
Alignment explanation
Indices: 19610654--19610687 Score: 54
Period size: 12 Copynumber: 2.6 Consensus size: 14
19610644 GAGAAAATGA
19610654 AAGAAAAAGAAAAG
1 AAGAAAAAGAAAAG
19610668 -AG-AAAAGAAAAG
1 AAGAAAAAGAAAAG
19610680 AAGAAAAA
1 AAGAAAAA
19610688 AATGTTTGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
12 10 0.56
13 4 0.22
14 4 0.22
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (14 bp):
AAGAAAAAGAAAAG
Found at i:19610679 original size:23 final size:24
Alignment explanation
Indices: 19610631--19610691 Score: 74
Period size: 23 Copynumber: 2.5 Consensus size: 24
19610621 TCAATCACTT
19610631 GAAAAAGGAAAATGAGAAAATGAAA
1 GAAAAA-GAAAATGAGAAAATGAAA
19610656 GAAAAAGAAAA-GAGAAAA-GAAAA
1 GAAAAAGAAAATGAGAAAATG-AAA
19610679 GAAGAAA-AAAATG
1 GAA-AAAGAAAATG
19610692 TTTGTTATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
22 1 0.03
23 17 0.52
24 9 0.27
25 6 0.18
ACGTcount: A:0.72, C:0.00, G:0.23, T:0.05
Consensus pattern (24 bp):
GAAAAAGAAAATGAGAAAATGAAA
Found at i:19619322 original size:14 final size:15
Alignment explanation
Indices: 19619298--19619330 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
19619288 TTTATATGAA
*
19619298 AATTTTGAATTGGTG
1 AATTTTGAATTAGTG
19619313 AATTTT-AATTAGTG
1 AATTTTGAATTAGTG
19619327 AATT
1 AATT
19619331 AGAAGTTAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.18, T:0.48
Consensus pattern (15 bp):
AATTTTGAATTAGTG
Found at i:19626636 original size:24 final size:26
Alignment explanation
Indices: 19626600--19626647 Score: 66
Period size: 24 Copynumber: 1.9 Consensus size: 26
19626590 GAAGAAATGT
19626600 AAATGTGATATATGA-A-ATTATGAG
1 AAATGTGATATATGAGAGATTATGAG
19626624 AAATGATGA-ATATGAGAGATTATG
1 AAATG-TGATATATGAGAGATTATG
19626648 CCCATGTAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 11 0.52
25 4 0.19
26 6 0.29
ACGTcount: A:0.46, C:0.00, G:0.23, T:0.31
Consensus pattern (26 bp):
AAATGTGATATATGAGAGATTATGAG
Found at i:19626739 original size:22 final size:22
Alignment explanation
Indices: 19626714--19626788 Score: 71
Period size: 22 Copynumber: 3.3 Consensus size: 22
19626704 TAGCGCGCTC
19626714 TCTGTTCAGCACTGTGTGTGCT
1 TCTGTTCAGCACTGTGTGTGCT
* *
19626736 TCTGTTCAGCATTGTGTTTGCCT
1 TCTGTTCAGCACTGTGTGTG-CT
* *
19626759 ACTGTTTCCCAGCACT-TATGTGCT
1 TCTG-TT--CAGCACTGTGTGTGCT
19626783 TCTGTT
1 TCTGTT
19626789 TCCCCAGCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 7
0.75 0.12 0.12
Matches are distributed among these distances:
22 18 0.43
23 7 0.17
24 7 0.17
25 4 0.10
26 6 0.14
ACGTcount: A:0.11, C:0.24, G:0.21, T:0.44
Consensus pattern (22 bp):
TCTGTTCAGCACTGTGTGTGCT
Found at i:19626813 original size:25 final size:24
Alignment explanation
Indices: 19626760--19626813 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 24
19626750 TGTTTGCCTA
**
19626760 CTGTTTCCCAGCACTTATGTGCTT
1 CTGTTTCCCAGCACTTATGCACTT
19626784 CTGTTTCCCCAGCACTTATGCACTT
1 CTGTTT-CCCAGCACTTATGCACTT
*
19626809 TTGTT
1 CTGTT
19626814 AAGTACTTCG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 6 0.23
25 20 0.77
ACGTcount: A:0.13, C:0.30, G:0.15, T:0.43
Consensus pattern (24 bp):
CTGTTTCCCAGCACTTATGCACTT
Found at i:19638158 original size:60 final size:59
Alignment explanation
Indices: 19638032--19638185 Score: 163
Period size: 59 Copynumber: 2.6 Consensus size: 59
19638022 ATTTGAACAT
** * * *
19638032 ATATTTTTT-TTAATTTGACATCTAAACTTTTTTTTACCTAATTTAGTATATGAACTTA
1 ATATTTTTTCTTAATTTGGTACCTAAACTTTTTTTGACCTAATTTAGTATATAAACTTA
*
19638090 ATGA-TTTTTCTTAATTTGGTACCTAAACTTTTTTTGGACCTAATTT-G-ATACCTAAACTTG
1 AT-ATTTTTTCTTAATTTGGTACCTAAACTTTTTTT-GACCTAATTTAGTATA--TAAACTTA
* *
19638150 ATATTTTTTCCCTAATTTGGTACCTAAGCTTTTTTT
1 ATATTTTTT-CTTAATTTGGTACCTAAACTTTTTTT
19638186 TAGATTCATT
Statistics
Matches: 81, Mismatches: 8, Indels: 11
0.81 0.08 0.11
Matches are distributed among these distances:
58 10 0.12
59 25 0.31
60 22 0.27
61 24 0.30
ACGTcount: A:0.27, C:0.14, G:0.08, T:0.51
Consensus pattern (59 bp):
ATATTTTTTCTTAATTTGGTACCTAAACTTTTTTTGACCTAATTTAGTATATAAACTTA
Found at i:19638174 original size:32 final size:29
Alignment explanation
Indices: 19638101--19638185 Score: 98
Period size: 32 Copynumber: 2.8 Consensus size: 29
19638091 TGATTTTTCT
19638101 TAATTTGGTACCTAAACTTTTTTTGGACC
1 TAATTTGGTACCTAAACTTTTTTTGGACC
* ***
19638130 TAATTTGATACCTAAACTTGATATTTTTTCCC
1 TAATTTGGTACCTAAACTT--T-TTTTGGACC
*
19638162 TAATTTGGTACCTAAGCTTTTTTT
1 TAATTTGGTACCTAAACTTTTTTT
19638186 TAGATTCATT
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 22 0.47
30 1 0.02
31 1 0.02
32 23 0.49
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.48
Consensus pattern (29 bp):
TAATTTGGTACCTAAACTTTTTTTGGACC
Found at i:19640655 original size:18 final size:20
Alignment explanation
Indices: 19640623--19640660 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
19640613 AACACCATTC
19640623 CAAAGAACAAAACAA-AAAA
1 CAAAGAACAAAACAACAAAA
*
19640642 CAAA-AACAATACAACAAAA
1 CAAAGAACAAAACAACAAAA
19640661 GTCAAATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.76, C:0.18, G:0.03, T:0.03
Consensus pattern (20 bp):
CAAAGAACAAAACAACAAAA
Found at i:19644517 original size:6 final size:6
Alignment explanation
Indices: 19644500--19644533 Score: 50
Period size: 6 Copynumber: 5.5 Consensus size: 6
19644490 GAGATCTTTG
*
19644500 TTTCTCT TTTCTT TTTCTT TTTCTT TTCCTT TTT
1 TTTCT-T TTTCTT TTTCTT TTTCTT TTTCTT TTT
19644534 GGGTTTGTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
6 20 0.80
7 5 0.20
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (6 bp):
TTTCTT
Found at i:19645130 original size:22 final size:24
Alignment explanation
Indices: 19645089--19645138 Score: 70
Period size: 21 Copynumber: 2.2 Consensus size: 24
19645079 GTGATTTGTA
19645089 TTAAGAAATGAGAAAGTTTATATTT
1 TTAAGAAATGAGAAAGTTTAT-TTT
19645114 TTAA-AAAT-AGAAA-TTTATTTT
1 TTAAGAAATGAGAAAGTTTATTTT
19645135 TTAA
1 TTAA
19645139 TTATTTTAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
21 7 0.28
22 5 0.20
23 5 0.20
24 4 0.16
25 4 0.16
ACGTcount: A:0.46, C:0.00, G:0.10, T:0.44
Consensus pattern (24 bp):
TTAAGAAATGAGAAAGTTTATTTT
Found at i:19645147 original size:135 final size:135
Alignment explanation
Indices: 19644898--19645286 Score: 338
Period size: 148 Copynumber: 2.8 Consensus size: 135
19644888 AAGTTTTGGT
* *
19644898 TTTTTTTAAATAATTATAAATAAAAGCTTTGATTTTTAAGTAAAATAGTAATTTTTTTAAAATAG
1 TTTTTTTAAATAATTATAAATAAAAGATTTGATTTTTAAGTAAAATAGTAATTTTTTAAAAATAG
19644963 AAAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTTAGAAAATTTAAATTTTTAAACAAAAT
66 AAAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTTAGAAAATTTAAATTTTTAAACAAAAT
19645028 ATTGA
131 ATTGA
* * * *
19645033 TTTTTTTAACTATTTATAAATAAAA-ATTTAGATTTTTAAG-AAAGTAGTGATTTGTATTAAGAA
1 TTTTTTTAAATAATTATAAATAAAAGATTT-GATTTTTAAGTAAAATAGTAATTT-T-TTAA-AA
* * * *
19645096 AT-GAGAAAGTTTATATTTTTAAAAATAGAAATTTATTTTTTAATTATTTTAAAGAAAAAGTTTA
62 ATAGAAAAAGTTTAGATTTTTAAAAATA-AAA---A-TCTGT--TT-TTTT--AG-AAAA-TTTA
* * *
19645160 AATTTTTAAATAAATTTTTGA
115 AATTTTTAAACAAAATATTGA
* * * ** * * *
19645181 TTTTTTCAACTATTTCGAAATAAAA-TTTTGGATTTTTAAGTAAAGTAGTGATTTTCATTAAAAA
1 TTTTTTTAAATAATTATAAATAAAAGATTT-GATTTTTAAGTAAAATAGTAATTTT--TTAAAAA
* * *
19645245 -AGAAAGAAAGTTTATATTTGTAAAAATAAAAATCAGTTTTTT
63 TAG-AA-AAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTT
19645287 AGTTATTTTA
Statistics
Matches: 210, Mismatches: 23, Indels: 35
0.78 0.09 0.13
Matches are distributed among these distances:
134 14 0.07
135 34 0.16
136 26 0.12
137 7 0.03
140 1 0.00
141 3 0.01
142 3 0.01
143 4 0.02
144 4 0.02
145 2 0.01
146 3 0.01
147 4 0.02
148 62 0.30
149 22 0.10
150 21 0.10
ACGTcount: A:0.44, C:0.02, G:0.09, T:0.45
Consensus pattern (135 bp):
TTTTTTTAAATAATTATAAATAAAAGATTTGATTTTTAAGTAAAATAGTAATTTTTTAAAAATAG
AAAAAGTTTAGATTTTTAAAAATAAAAATCTGTTTTTTTAGAAAATTTAAATTTTTAAACAAAAT
ATTGA
Found at i:19645375 original size:149 final size:147
Alignment explanation
Indices: 19645004--19645527 Score: 692
Period size: 149 Copynumber: 3.6 Consensus size: 147
19644994 GTTTTTTTAG
* * **
19645004 AAAATTTAAATTTTTAAACAAAATATTGATTTTTTTAACTATTTATAAATAAAAATTTAGATTTT
1 AAAATTTAAATTTTTAAATAAAATTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTTT
* * *
19645069 TAAG-AAAGTAGTGATTTGT-ATTAAGAAATG-AGAAAGTTTATATTTTTAAAAATAGAAATTTA
66 TAAGTAAAGTAGTGATTT-TCATTAA-AAAAGAAGAAAGTTTATA-TTTTAAAAATA-AAAATCA
*
19645131 TTTTTTAATTATTTTAAAGAA
127 TTTTTTAGTTATTTTAAAGAA
* * * * *
19645152 AAAGTTTAAATTTTTAAATAAATTTTTGATTTTTTCAACTATTTCGAAATAAAATTTTGGATTTT
1 AAAATTTAAATTTTTAAATAAAATTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTTT
19645217 TAAGTAAAGTAGTGATTTTCATTAAAAAAGAAAGAAAGTTTATATTTGTAAAAATAAAAATCAGT
66 TAAGTAAAGTAGTGATTTTCATTAAAAAAG-AAGAAAGTTTATATTT-TAAAAATAAAAATCA-T
*
19645282 TTTTTAGTTATTTTAATGAA
128 TTTTTAGTTATTTTAAAGAA
*
19645302 AAAATTTAAATTTTTAAATAAAATTTT-ATTTTTTTAACTATTTCGAAATAAAAGTTTAGATTTT
1 AAAATTTAAATTTTTAAATAAAATTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTTT
**
19645366 TAAGTAAAGTAGTGATTTTCATT-AAAAA-AA-TTAG---AT-TTTTAAAAAATAAAAATCTATT
66 TAAGTAAAGTAGTGATTTTCATTAAAAAAGAAGAAAGTTTATATTTT-AAAAATAAAAATC-ATT
*
19645424 TTTTAGTGATTTTAAAGAA
129 TTTTAGTTATTTTAAAGAA
* *
19645443 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTAACTATTTCGAAATAAAAATTTTGATTT
1 AAAA-TTTAAATTTTTAAATAAAATTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTT
*
19645508 TGAAGTAAAGTAGTGATTTT
65 TTAAGTAAAGTAGTGATTTT
19645528 GTTAATCAAA
Statistics
Matches: 339, Mismatches: 27, Indels: 25
0.87 0.07 0.06
Matches are distributed among these distances:
140 1 0.00
141 39 0.12
142 25 0.07
143 53 0.16
145 2 0.01
146 2 0.01
148 70 0.21
149 83 0.24
150 64 0.19
ACGTcount: A:0.43, C:0.02, G:0.10, T:0.45
Consensus pattern (147 bp):
AAAATTTAAATTTTTAAATAAAATTTTGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTTT
TAAGTAAAGTAGTGATTTTCATTAAAAAAGAAGAAAGTTTATATTTTAAAAATAAAAATCATTTT
TTAGTTATTTTAAAGAA
Found at i:19658601 original size:22 final size:22
Alignment explanation
Indices: 19658575--19658616 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
19658565 TGTTTAAATC
19658575 AAGAA-AAAAATACAAAAAAAAG
1 AAGAAGAAAAA-ACAAAAAAAAG
*
19658597 AAGAAGAAAAAAGAAAAAAA
1 AAGAAGAAAAAACAAAAAAA
19658617 TAAAAAAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.83, C:0.02, G:0.12, T:0.02
Consensus pattern (22 bp):
AAGAAGAAAAAACAAAAAAAAG
Found at i:19658867 original size:8 final size:8
Alignment explanation
Indices: 19658854--19658900 Score: 53
Period size: 8 Copynumber: 5.8 Consensus size: 8
19658844 TGTTTAAATC
19658854 AAGAAAAA
1 AAGAAAAA
19658862 AAG-AAAA
1 AAGAAAAA
19658869 AAGAAGAAA
1 AAGAA-AAA
19658878 AA-AAGAAA
1 AAGAA-AAA
19658886 AAGAAAAA
1 AAGAAAAA
19658894 ATAGAAA
1 A-AGAAA
19658901 GAGAAAGCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
7 7 0.20
8 16 0.46
9 12 0.34
ACGTcount: A:0.83, C:0.00, G:0.15, T:0.02
Consensus pattern (8 bp):
AAGAAAAA
Found at i:19658891 original size:14 final size:14
Alignment explanation
Indices: 19658854--19658920 Score: 57
Period size: 14 Copynumber: 4.9 Consensus size: 14
19658844 TGTTTAAATC
*
19658854 AAGAAAAA-AAGAA
1 AAGAAAAAGAAAAA
*
19658867 AA-AAGAAGAAAAA
1 AAGAAAAAGAAAAA
19658880 AAGAAAAAGAAAAA
1 AAGAAAAAGAAAAA
* **
19658894 ATAGAAAGAGAAAGC
1 A-AGAAAAAGAAAAA
*
19658909 AAGAGAAAGAAA
1 AAGAAAAAGAAA
19658921 CTATATTGAA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
12 4 0.09
13 8 0.19
14 20 0.47
15 11 0.26
ACGTcount: A:0.78, C:0.01, G:0.19, T:0.01
Consensus pattern (14 bp):
AAGAAAAAGAAAAA
Found at i:19658893 original size:15 final size:15
Alignment explanation
Indices: 19658857--19658906 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
19658847 TTAAATCAAG
19658857 AAAAAAAGAAAAAAGAA
1 AAAAAAAG-AAAAAG-A
19658874 GAAAAAAAGAAAAAGA
1 -AAAAAAAGAAAAAGA
* *
19658890 AAAAATAGAAAGAGA
1 AAAAAAAGAAAAAGA
19658905 AA
1 AA
19658907 GCAAGAGAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
15 15 0.50
16 1 0.03
17 6 0.20
18 8 0.27
ACGTcount: A:0.82, C:0.00, G:0.16, T:0.02
Consensus pattern (15 bp):
AAAAAAAGAAAAAGA
Found at i:19659363 original size:42 final size:42
Alignment explanation
Indices: 19659302--19659885 Score: 792
Period size: 42 Copynumber: 13.9 Consensus size: 42
19659292 AAGGAAAGCA
* **
19659302 TTCATTGCATTTAGGGGCCCAGGTGTGGAGGTTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
** * *
19659344 TTCATTGCATTTAGAGGCCCACATATGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * *
19659386 TTTATTGCATTTTGAGGCCCACGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * * *
19659428 TTCATTACATTTAAAGGCCCAAGTGTGGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * *
19659470 TTCATTGCATTTAGAGGCCTAAGTCTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* *
19659512 TTCATTGCATTTAGAGGCCCAGGTGTAGAGGTCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
*
19659554 TTCACTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * *
19659596 TTCATTGCATTTAGAGGCTCAGTTATGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* **
19659638 TTCATTACATTTAGAGGCTGAGGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* *
19659680 TTCATTGCATTTAGCGGCCCAAGTGTGGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * * *
19659722 TTCATTGCATTTAGAGGCCTAGGTGTGGTGACCCATTGACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* *
19659764 TTCATTGCATTTAGAGGCCCAGGAGTAGAGGCCCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* *
19659806 TTCATTGCATTTAAAGG-CCAGGTGTGGAGGCTCATTTACTT
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
* * * * *
19659847 TTCATTACATTTAGAGGCCTAGGCGTAGAGGTCCATTTA
1 TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTA
19659886 TTTATTTTTC
Statistics
Matches: 476, Mismatches: 65, Indels: 2
0.88 0.12 0.00
Matches are distributed among these distances:
41 36 0.08
42 440 0.92
ACGTcount: A:0.21, C:0.20, G:0.24, T:0.35
Consensus pattern (42 bp):
TTCATTGCATTTAGAGGCCCAGGTGTGGAGGCCCATTTACTT
Found at i:19660320 original size:3 final size:3
Alignment explanation
Indices: 19660312--19660359 Score: 87
Period size: 3 Copynumber: 16.0 Consensus size: 3
19660302 AAAGGCCCAA
*
19660312 ATT ATT ATT ATC ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
19660360 TAGGGTTTCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:19661299 original size:149 final size:147
Alignment explanation
Indices: 19660885--19661412 Score: 669
Period size: 149 Copynumber: 3.6 Consensus size: 147
19660875 GTTTTTTTAG
* * * *
19660885 AAAAGTTTAAAATTTT-AACAAAGTTTTGATTTTTTTGACTATTTCGAAATAAAAATTTAGATGT
1 AAAAGTTTAAATTTTTAAATAAAGTTTAGATTTTTTTAACTATTTCGAAATAAAAATTTAGAT-T
* * *
19660949 TTAAG-AAAGTAGTGACTTTCATT-AAAAAAGAGAAAGTTTATATTTTTAAAAATAAAAATCTAT
65 TTAAGTAAAGTAGTGATTTTCATTAAAAAAAAAGAAAGTTTATATTTTTAAAAATAAAAATCTGT
19661012 TTTTTAGTTA-TTT-AAA
130 TTTTTAGTTATTTTAAAA
* * *
19661028 AAAAGTTTAAA-TTTTAAATAAAGTTTTGA-TTTTTTAATTATTTCGAAATAAATATTT-GATTT
1 AAAAGTTTAAATTTTTAAATAAAGTTTAGATTTTTTTAACTATTTCGAAATAAAAATTTAGA---
* * *
19661090 TTTTATGTAAAGTAGTGATTTTTATTAAAAAAGAAAGAAAGTTTATATTTTTAAAGATAAAAA-C
63 TTTTAAGTAAAGTAGTGATTTTCATTAAAAAA-AAAGAAAGTTTATATTTTTAAAAATAAAAATC
19661154 TTGTTTTTTAGTTATTTTAAAGA
127 -TGTTTTTTAGTTATTTTAAA-A
* *
19661177 AAAAGTTTAAATTTTTAAATAAAGTTTAAATTTTTTTAATTATTTCGAAATAAAAATTTAGATTT
1 AAAAGTTTAAATTTTTAAATAAAGTTTAGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTT
* * **
19661242 TCAAGTAAAGTACTTATTTTCATTAAAAAAAAAGAAAGTTTAGGTTTTTAAAAATAAAAATCTGT
66 T-AAGTAAAGTAGTGATTTTCATTAAAAAAAAAGAAAGTTTATATTTTTAAAAATAAAAATCTGT
*
19661307 TTTTTAGTGATTTTAAAAA
130 TTTTTAGTTATTTT-AAAA
* * *
19661326 AAAAGTTTAAATTTTTAAATAAAGTTTTGATTTTTTTTTAACTATTTCGAAATAAAAGTTTTGAT
1 AAAAGTTTAAATTTTTAAATAAAGTTTAGA--TTTTTTTAACTATTTCGAAATAAAAATTTAGAT
*
19661391 TTTGAAGTAAAGTAGCGATTTT
64 TTT-AAGTAAAGTAGTGATTTT
19661413 GTTTTAATCA
Statistics
Matches: 336, Mismatches: 30, Indels: 30
0.85 0.08 0.08
Matches are distributed among these distances:
141 2 0.01
142 29 0.09
143 28 0.08
144 17 0.05
145 6 0.02
146 40 0.12
147 3 0.01
148 2 0.01
149 88 0.26
150 44 0.13
151 75 0.22
152 2 0.01
ACGTcount: A:0.42, C:0.03, G:0.10, T:0.45
Consensus pattern (147 bp):
AAAAGTTTAAATTTTTAAATAAAGTTTAGATTTTTTTAACTATTTCGAAATAAAAATTTAGATTT
TAAGTAAAGTAGTGATTTTCATTAAAAAAAAAGAAAGTTTATATTTTTAAAAATAAAAATCTGTT
TTTTAGTTATTTTAAAA
Found at i:19661361 original size:51 final size:51
Alignment explanation
Indices: 19661011--19661362 Score: 136
Period size: 51 Copynumber: 7.1 Consensus size: 51
19661001 TAAAAATCTA
19661011 TTTTTTAGTTA-TTT--AAAAAAAGTTTAAA-TTTTAAATAAAGTTTTGA-
1 TTTTTTAGTTATTTTAAAAAAAAAGTTTAAATTTTTAAATAAAGTTTTGAT
* * * * ** ** **
19661057 TTTTTTAATTATTTCGAAATAAATA-TTTGATTTTTTTATGTAAAGTAGTGA-
1 TTTTTTAGTTATTT-TAAAAAAAAAGTTT-AAATTTTTAAATAAAGTTTTGAT
** * ***
19661108 -TTTTTA-TTA--AAAAAGAAAGAAAGTTTATATTTTTAAAGATAAAAACTTG--
1 TTTTTTAGTTATTTTAAA-AAA-AAAGTTTAAATTTTT-AA-ATAAAGTTTTGAT
* **
19661157 TTTTTTAGTTATTTTAAAGAAAAAGTTTAAATTTTTAAATAAAGTTTAAAT
1 TTTTTTAGTTATTTTAAAAAAAAAGTTTAAATTTTTAAATAAAGTTTTGAT
* * * * * * *
19661208 TTTTTTAATTATTTCGAAATAAAAA-TTTAGATTTTCAAGTAAAGTACTT-A-
1 TTTTTTAGTTATTT-TAAAAAAAAAGTTTAAATTTTTAAATAAAGT-TTTGAT
* ** ** ** *
19661258 -TTTTCA-TTA--AAAAAAAAGAAAGTTTAGGTTTTTAAAAATAAAAATCTG--
1 TTTTTTAGTTATTTTAAAAAA-AAAGTTTAAATTTTT--AAATAAAGTTTTGAT
*
19661306 TTTTTTAGTGATTTTAAAAAAAAAGTTTAAATTTTTAAATAAAGTTTTGAT
1 TTTTTTAGTTATTTTAAAAAAAAAGTTTAAATTTTTAAATAAAGTTTTGAT
19661357 TTTTTT
1 TTTTTT
19661363 TTAACTATTT
Statistics
Matches: 218, Mismatches: 58, Indels: 55
0.66 0.18 0.17
Matches are distributed among these distances:
45 5 0.02
46 16 0.07
47 13 0.06
48 13 0.06
49 42 0.19
50 28 0.13
51 81 0.37
52 17 0.08
53 3 0.01
ACGTcount: A:0.42, C:0.02, G:0.09, T:0.47
Consensus pattern (51 bp):
TTTTTTAGTTATTTTAAAAAAAAAGTTTAAATTTTTAAATAAAGTTTTGAT
Found at i:19662863 original size:238 final size:238
Alignment explanation
Indices: 19662444--19662920 Score: 755
Period size: 238 Copynumber: 2.0 Consensus size: 238
19662434 CAAATCATAA
* *
19662444 TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAGTATTTCTCTTACTTCATTAGTAACTT
1 TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
*
19662509 CTAGGTTTTTTTTTTAGATTCTAAAATAGAATTAATTTTAAGAATTGAAGGTATTTTACTAGAAT
66 CTA-GTTTTTTTTTTAGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGAAT
* *
19662574 TATTTAAGTATATTTTAGGATTCTCGTTAGAAGTAAAAATCTCTAATTTAAGTTTTAAATTAGAT
130 TATTTAAGTATACTTTAGGATTCTCATTAGAAGTAAAAATCTCTAATTTAAGTTTTAAATTAGAT
*
19662639 AAGTTTGGTGAATACGTCTTAGTCAAATTACAAGTAAATCGGAG
195 AAGTTTGGTGAACACGTCTTAGTCAAATTACAAGTAAATCGGAG
19662683 TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAA-TT
1 TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
* *
19662747 -T-TTTATATTTTTTTAGGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTAGTAGA
66 CTAGTT-T-TTTTTTTA-GATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGA
* * * *
19662810 ATTATTTAGGTATCCTTTAGGGTTCTTATTACG-AGTAAAAATCTCTAATTTAAGTTTTAAATTA
128 ATTATTTAAGTATACTTTAGGATTCTCATTA-GAAGTAAAAATCTCTAATTTAAGTTTTAAATTA
* *
19662874 GATAAGTTTGGTGAACACGTCTTAGTCAAGTTACAAGTAAATTGGAG
192 GATAAGTTTGGTGAACACGTCTTAGTCAAATTACAAGTAAATCGGAG
19662921 GTATTTTTTA
Statistics
Matches: 220, Mismatches: 14, Indels: 9
0.91 0.06 0.04
Matches are distributed among these distances:
235 2 0.01
236 1 0.00
237 9 0.04
238 147 0.67
239 61 0.28
ACGTcount: A:0.36, C:0.07, G:0.15, T:0.42
Consensus pattern (238 bp):
TAATGATAAAAGATCGAATAAGTTGTAGATGAATTTTAATATTTCTCTTAATTCATTAGTAACTT
CTAGTTTTTTTTTTAGATTCTAAAATAGAATTAATTTTAAGAATTGAAAGTATTTTACTAGAATT
ATTTAAGTATACTTTAGGATTCTCATTAGAAGTAAAAATCTCTAATTTAAGTTTTAAATTAGATA
AGTTTGGTGAACACGTCTTAGTCAAATTACAAGTAAATCGGAG
Found at i:19665413 original size:23 final size:23
Alignment explanation
Indices: 19665372--19665420 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
19665362 CCTTTGTGAC
* *
19665372 ATTCTGTTTTGCCTTTGTGGCGT
1 ATTCTGTTTGGCCTATGTGGCGT
* *
19665395 ATTCTGTTTGGTCTATGTGGTGT
1 ATTCTGTTTGGCCTATGTGGCGT
19665418 ATT
1 ATT
19665421 TTGTAAATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.08, C:0.12, G:0.27, T:0.53
Consensus pattern (23 bp):
ATTCTGTTTGGCCTATGTGGCGT
Found at i:19666019 original size:20 final size:21
Alignment explanation
Indices: 19665989--19666039 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
19665979 ATTGGTATGG
* *
19665989 TTTATATTAAGTTTAAATA-GA
1 TTTA-ATTAAGATTAAAAATGA
19666010 TTTAATTAAGATTAAAAATGA
1 TTTAATTAAGATTAAAAATGA
19666031 -TTAATTAAG
1 TTTAATTAAG
19666040 GCTTAATGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
20 21 0.78
21 6 0.22
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (21 bp):
TTTAATTAAGATTAAAAATGA
Found at i:19684574 original size:36 final size:36
Alignment explanation
Indices: 19684527--19684624 Score: 178
Period size: 36 Copynumber: 2.7 Consensus size: 36
19684517 GATAACAGGG
19684527 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATC
1 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATC
* *
19684563 ATGACCTTTGGGTTAACAGGGAGTGAAATGAGCATC
1 ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATC
19684599 ATGACCTTTGGGTCAACAGGGAGTAA
1 ATGACCTTTGGGTCAACAGGGAGTAA
19684625 GCATAGATAT
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 58 1.00
ACGTcount: A:0.32, C:0.15, G:0.30, T:0.23
Consensus pattern (36 bp):
ATGACCTTTGGGTCAACAGGGAGTAAAATGAGCATC
Found at i:19689542 original size:36 final size:36
Alignment explanation
Indices: 19689491--19689585 Score: 154
Period size: 36 Copynumber: 2.6 Consensus size: 36
19689481 AACAGGGATA
19689491 ACCTTTGGGTCAACAGGGAGTAAAATGAGCATCATG
1 ACCTTTGGGTCAACAGGGAGTAAAATGAGCATCATG
* *
19689527 ACCTTTGGGTTAACAGGGAGTGAAATGAGCATCATG
1 ACCTTTGGGTCAACAGGGAGTAAAATGAGCATCATG
* *
19689563 ACCTTTGGGTCAGCAGCGAGTAA
1 ACCTTTGGGTCAACAGGGAGTAA
19689586 GCATGGATAT
Statistics
Matches: 53, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.31, C:0.17, G:0.29, T:0.23
Consensus pattern (36 bp):
ACCTTTGGGTCAACAGGGAGTAAAATGAGCATCATG
Found at i:19690257 original size:21 final size:21
Alignment explanation
Indices: 19690219--19690268 Score: 55
Period size: 21 Copynumber: 2.4 Consensus size: 21
19690209 TTTTGGTACT
* * *
19690219 AGTAGAAGCATGATTTGTTTC
1 AGTAGAAGCATCACTTGTATC
*
19690240 AGTAGAAGCTTCACTTGTATC
1 AGTAGAAGCATCACTTGTATC
*
19690261 GGTAGAAG
1 AGTAGAAG
19690269 TCTGAACTGT
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.12, G:0.26, T:0.32
Consensus pattern (21 bp):
AGTAGAAGCATCACTTGTATC
Found at i:19703290 original size:18 final size:18
Alignment explanation
Indices: 19703267--19703308 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
19703257 CAAGTTTTGT
*
19703267 TTATATTAAAAAATAATA
1 TTATATTAAAAAATAACA
*
19703285 TTATATT-TAAAATAACA
1 TTATATTAAAAAATAACA
19703302 TT-TATTA
1 TTATATTA
19703309 TTTTACATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
16 4 0.19
17 10 0.48
18 7 0.33
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (18 bp):
TTATATTAAAAAATAACA
Found at i:19704110 original size:18 final size:18
Alignment explanation
Indices: 19704087--19704122 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
19704077 TATAATACTT
*
19704087 TATATTATGTTATTTTAA
1 TATATTATGTAATTTTAA
19704105 TATATTATGTAATTTTAA
1 TATATTATGTAATTTTAA
19704123 ATACATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.06, T:0.58
Consensus pattern (18 bp):
TATATTATGTAATTTTAA
Found at i:19725379 original size:38 final size:38
Alignment explanation
Indices: 19725312--19725385 Score: 94
Period size: 38 Copynumber: 1.9 Consensus size: 38
19725302 GAGTCTATTC
* ***
19725312 AGAATTGTACCCAAAATTATCATTGCATGACAATGTCT
1 AGAATTGCACCCAAAATTATCACCACATGACAATGTCT
* *
19725350 AGAATTGCACCCAAAATTGTCACCACATGACGATGT
1 AGAATTGCACCCAAAATTATCACCACATGACAATGT
19725386 GCATCAATGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
38 30 1.00
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (38 bp):
AGAATTGCACCCAAAATTATCACCACATGACAATGTCT
Found at i:19728874 original size:38 final size:37
Alignment explanation
Indices: 19728807--19728921 Score: 133
Period size: 38 Copynumber: 3.1 Consensus size: 37
19728797 GTCTATTCAG
* * * *
19728807 AATTGCACTCAGAAA-TGTCACTTCCTGACGATGTTCA
1 AATTGCAC-CAAAAATTGTCACTGCATGACGATGTCCA
*
19728844 AAGTTGTACCAAAAATTGTCACTGCATGACGATGTCCA
1 AA-TTGCACCAAAAATTGTCACTGCATGACGATGTCCA
* *
19728882 GAATTGCACCCAAAATTGTCACTGCATGACGATGTGCA
1 -AATTGCACCAAAAATTGTCACTGCATGACGATGTCCA
19728920 AA
1 AA
19728922 AATGTCGCTG
Statistics
Matches: 67, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
37 9 0.13
38 56 0.84
39 2 0.03
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (37 bp):
AATTGCACCAAAAATTGTCACTGCATGACGATGTCCA
Found at i:19729114 original size:13 final size:13
Alignment explanation
Indices: 19729096--19729120 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19729086 GCTATCTAGT
19729096 CTGGTATAACCAA
1 CTGGTATAACCAA
19729109 CTGGTATAACCA
1 CTGGTATAACCA
19729121 TAGATAGCTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (13 bp):
CTGGTATAACCAA
Found at i:19731141 original size:13 final size:13
Alignment explanation
Indices: 19731123--19731150 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
19731113 AGGCCAAAAA
19731123 AGGCCTAAAGATT
1 AGGCCTAAAGATT
19731136 AGGCCTAAAGATT
1 AGGCCTAAAGATT
19731149 AG
1 AG
19731151 CTAACATACT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.21
Consensus pattern (13 bp):
AGGCCTAAAGATT
Found at i:19732069 original size:13 final size:14
Alignment explanation
Indices: 19732051--19732080 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
19732041 TTTTACTTTA
19732051 TTTTATTTTTAT-C
1 TTTTATTTTTATGC
19732064 TTTTATTTTTATGC
1 TTTTATTTTTATGC
19732078 TTT
1 TTT
19732081 CAAAACATTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.13, C:0.07, G:0.03, T:0.77
Consensus pattern (14 bp):
TTTTATTTTTATGC
Found at i:19734971 original size:40 final size:38
Alignment explanation
Indices: 19734887--19734973 Score: 102
Period size: 40 Copynumber: 2.2 Consensus size: 38
19734877 AAGTGCTCTG
* * *
19734887 TTTGCACATTTGTGCCCATGCACACTTCGGTGTCTCTG
1 TTTGCACATTTGTGCCCATGCACACTTCAGTGTCCCTA
* * *
19734925 TTTGCACATTTGTGCCCCTGTATACATTTCAGTGTCCCTA
1 TTTGCACATTTGTGCCCATG--CACACTTCAGTGTCCCTA
19734965 TTTGCACAT
1 TTTGCACAT
19734974 CTCTGCTCCT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
38 19 0.46
40 22 0.54
ACGTcount: A:0.16, C:0.28, G:0.17, T:0.39
Consensus pattern (38 bp):
TTTGCACATTTGTGCCCATGCACACTTCAGTGTCCCTA
Found at i:19739517 original size:17 final size:17
Alignment explanation
Indices: 19739482--19739542 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
19739472 CATTGATTTA
*
19739482 CAATGACAAATGGAAATG
1 CAATGAC-AATGAAAATG
* *
19739500 CAATGACAATGCATATG
1 CAATGACAATGAAAATG
* *
19739517 CAGTGACAATTAAAATG
1 CAATGACAATGAAAATG
19739534 CAATGACAA
1 CAATGACAA
19739543 AGGAAATGTA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
17 29 0.81
18 7 0.19
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.20
Consensus pattern (17 bp):
CAATGACAATGAAAATG
Found at i:19739533 original size:34 final size:34
Alignment explanation
Indices: 19739495--19739564 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 34
19739485 TGACAAATGG
* *
19739495 AAATGCAATGACAATGCATATGCAGTGACAATTA
1 AAATGCAATGACAAAGCAAATGCAGTGACAATTA
* *
19739529 AAATGCAATGACAAAGGAAATGTAGTGACAATTA
1 AAATGCAATGACAAAGCAAATGCAGTGACAATTA
19739563 AA
1 AA
19739565 TTACAACTAC
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.49, C:0.11, G:0.19, T:0.21
Consensus pattern (34 bp):
AAATGCAATGACAAAGCAAATGCAGTGACAATTA
Found at i:19739549 original size:17 final size:17
Alignment explanation
Indices: 19739482--19739550 Score: 66
Period size: 17 Copynumber: 4.0 Consensus size: 17
19739472 CATTGATTTA
19739482 CAATGACAAATGGAAATG
1 CAATGACAAA-GGAAATG
* * *
19739500 CAATGACAATGCATATG
1 CAATGACAAAGGAAATG
* ***
19739517 CAGTGACAATTAAAATG
1 CAATGACAAAGGAAATG
19739534 CAATGACAAAGGAAATG
1 CAATGACAAAGGAAATG
19739551 TAGTGACAAT
Statistics
Matches: 40, Mismatches: 11, Indels: 1
0.77 0.21 0.02
Matches are distributed among these distances:
17 31 0.77
18 9 0.22
ACGTcount: A:0.48, C:0.13, G:0.20, T:0.19
Consensus pattern (17 bp):
CAATGACAAAGGAAATG
Found at i:19753277 original size:11 final size:12
Alignment explanation
Indices: 19753251--19753279 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
19753241 TGATTAAATT
19753251 TTATATGTTAAA
1 TTATATGTTAAA
19753263 TTATATGTT-AA
1 TTATATGTTAAA
19753274 TTATAT
1 TTATAT
19753280 TATAATAAAG
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 8 0.47
12 9 0.53
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (12 bp):
TTATATGTTAAA
Found at i:19757511 original size:6 final size:6
Alignment explanation
Indices: 19757500--19757534 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
19757490 ACAAAGATTT
*
19757500 GGAGAG GGAGAG GGAGAG GGAGAG GAAGAG GGAGA
1 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGA
19757535 AGAAACTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
GGAGAG
Found at i:19758309 original size:6 final size:6
Alignment explanation
Indices: 19758298--19758332 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
19758288 ACAAAGATTT
*
19758298 GGAGAG GGAGAG GGAGAG GGAGAG GAAGAG GGAGA
1 GGAGAG GGAGAG GGAGAG GGAGAG GGAGAG GGAGA
19758333 AGAAACTAGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.37, C:0.00, G:0.63, T:0.00
Consensus pattern (6 bp):
GGAGAG
Found at i:19758758 original size:797 final size:797
Alignment explanation
Indices: 19757147--19759521 Score: 4417
Period size: 797 Copynumber: 3.0 Consensus size: 797
19757137 AAAACCATTT
19757147 GAGATCCATTAAAATTTGGAAAATTACCTTTAAAATCATTAAAATTCCCCTAATTTCCCTATCTT
1 GAGATCCATTAAAATTTGGAAAATTACCTTTAAAATCATTAAAATTCCCCTAATTTCCCTATCTT
19757212 AAAATTCGTGTTTTAAATTGGCTCAATTAATCAAGAAATTGAAGGAAAGAGTGAACTCACGCAAG
66 AAAATTCGTGTTTTAAATTGGCTCAATTAATCAAGAAATTGAAGGAAAGAGTGAACTCACGCAAG
*
19757277 CTAGAAGTGAAAATCAGTAATGACACTTTCTTAGCAATGTTTGGATTGATCTTGGTTGCTCAGAA
131 CTAGAAGTGAAAATCAGTAATGACACTTTCTTAGCAATGTTTGGATTGATCTTGGATGCTCAGAA
19757342 TTTCAGATTTGAAGTTGATTTTATTGGGGTTAAATTGCAGCAAGGTAGGGGATGAGATGGTGATG
196 TTTCAGATTTGAAGTTGATTTTATTGGGGTTAAATTGCAGCAAGGTAGGGGATGAGATGGTGATG
*
19757407 AATCTTGGTAGGAAAAGAAAGGAAAAAC------AAAGAGGAAGAGGAGTGCGACGGCAACAATA
261 AATCTTGGTAGGAAAAGAAAGGAAAAACAAAGAGAAAGAGGAAGAGGAGTGCGACGGCAACAATG
19757466 GGGAAGAATGAGAAAAGAAAAAAAACAAAGATTTGGAGAGGGAGAGGGAGAGGGAGAGGAAGAGG
326 GGGAAGAATGAGAAAAGAAAAAAAACAAAGATTTGGAGAGGGAGAGGGAGAGGGAGAGGAAGAGG
19757531 GAGAAGAAACTAGGAACGACACAAGGGGAAGAAATTAATGATTTAGGGCTGATTATTTTTCTTAA
391 GAGAAGAAACTAGGAACGACACAAGGGGAAGAAATTAATGATTTAGGGCTGATTATTTTTCTTAA
19757596 AAATTATATTTATAGTTAGGTTAAAAAAACTTGAAAAATCAACCTTAATTAAAAATAAGAGATTT
456 AAATTATATTTATAGTTAGGTTAAAAAAACTTGAAAAA-CAACCTTAATTAAAAATAAGAGATTT
* *
19757661 TGCTAAAATTCTTCTATTCTATAAAACATGAGACTTGAACTTAAGGCCTCATTTACTATCATGCC
520 TGCTAAAATTCTTCTATTCTGTAAAACATGAGACTTGAACTTAAGACCTCATTTACTATCATGCC
*
19757726 TTATCATTAATCAATTAACCGTTGAATCATCATCATATTTTTGATACAATCCTACATTTCTATTG
585 TTATCATTAATCAATTAACCGTTGAACCATCATCATATTTTTGATACAATCCTACATTTCTATTG
* *
19757791 GGCTAAATTTTAGGATGTTATAGCTCTACCCCTTAAGAAATTTTGTCCTCAAAATTACCTTATTC
650 GGCTAAATTTCAGGATGTTATAGTTCTACCCCTTAAGAAATTTTGTCCTCAAAATTACCTTATTC
19757856 GAAAAGATGAGGATACCACATAGCCTCTTCGATTCCATGTTTTATCCATAACACTTTAAATAACA
715 GAAAAGATGAGGATACCACATAGCCTCTTCGATTCCATGTTTTATCCATAACACTTTAAATAACA
19757921 AAATTTGTTTCCATCTTA
780 AAATTTGTTTCCATCTTA
19757939 GAGATCCATTAAAATTTGGAAAATTACCTTTAAAATCATTAAAATTCCCCTAATTTCCCTATCTT
1 GAGATCCATTAAAATTTGGAAAATTACCTTTAAAATCATTAAAATTCCCCTAATTTCCCTATCTT
19758004 AAAATTCGTGTTTTAAATTGGCTCAATTAATCAAGAAATTGAAGGAAAGAGTGAACTCACGCAAG
66 AAAATTCGTGTTTTAAATTGGCTCAATTAATCAAGAAATTGAAGGAAAGAGTGAACTCACGCAAG
19758069 CTAGAAGTGAAAATCAGTAATGACACTTTCTTAGCAATGTTTGGATTGATCTTGGATGCTCAGAA
131 CTAGAAGTGAAAATCAGTAATGACACTTTCTTAGCAATGTTTGGATTGATCTTGGATGCTCAGAA
19758134 TTTCAGATTTGAAGTTGATTTTATTGGGGTTAAATTGCAGCAAGGTAGGGGATGAGATGGTGATG
196 TTTCAGATTTGAAGTTGATTTTATTGGGGTTAAATTGCAGCAAGGTAGGGGATGAGATGGTGATG
19758199 AATCTTGGTAGGAAAAGAAAGGAAAAACAAAGAGAAAGAGGAAGAGGAGTGCGACGGCAACAATG
261 AATCTTGGTAGGAAAAGAAAGGAAAAACAAAGAGAAAGAGGAAGAGGAGTGCGACGGCAACAATG
19758264 GGGAAGAATGAGAAAAGAAAAAAAACAAAGATTTGGAGAGGGAGAGGGAGAGGGAGAGGAAGAGG
326 GGGAAGAATGAGAAAAGAAAAAAAACAAAGATTTGGAGAGGGAGAGGGAGAGGGAGAGGAAGAGG
19758329 GAGAAGAAACTAGGAACGACACAAGGGGAAGAAATTAATGATTTAGGGCTGATTATTTTTCTTAA
391 GAGAAGAAACTAGGAACGACACAAGGGGAAGAAATTAATGATTTAGGGCTGATTATTTTTCTTAA
*
19758394 TAATTATATTTATAGTTAGGTTAAAAAAACTTGAAAAACAACCTTAATTAAAAATAAGAGATTTT
456 AAATTATATTTATAGTTAGGTTAAAAAAACTTGAAAAACAACCTTAATTAAAAATAAGAGATTTT
* *
19758459 GCTAAAATTCTTCTATTCTGTAAAACATGAAACTTGAACTTAAGATCTCATTTACTATCATGCCT
521 GCTAAAATTCTTCTATTCTGTAAAACATGAGACTTGAACTTAAGACCTCATTTACTATCATGCCT
19758524 TATCATTAATCAATTAACCGTTGAACCATCATCATATTTTTGATACAATCCTACATTTCTATTGG
586 TATCATTAATCAATTAACCGTTGAACCATCATCATATTTTTGATACAATCCTACATTTCTATTGG
* *
19758589 GCTAAATTTCAGGATGTTATAGTTCTACCCCTTAAGAAATTTTGTCCTCAAAATTACTTTATTCA
651 GCTAAATTTCAGGATGTTATAGTTCTACCCCTTAAGAAATTTTGTCCTCAAAATTACCTTATTCG
19758654 AAAAGATGAGGATACCACATAGCCTCTTCGATTCCATGTTTTATCCATAACACTTTAAATAACAA
716 AAAAGATGAGGATACCACATAGCCTCTTCGATTCCATGTTTTATCCATAACACTTTAAATAACAA
19758719 AATTTGTTTCCATCTTA
781 AATTTGTTTCCATCTTA
19758736 GAGATCCATTAAAATTTGGAAAATTACCTTTAAAATCATTAAAATTCCCCTAATTTCCCTATCTT
1 GAGATCCATTAAAATTTGGAAAATTACCTTTAAAATCATTAAAATTCCCCTAATTTCCCTATCTT
19758801 AAAATTCGTGTTTTAAATTGGCTCAATTAATCAAGAAATTGAAGGAAAGAGTGAACTCACGCAAG
66 AAAATTCGTGTTTTAAATTGGCTCAATTAATCAAGAAATTGAAGGAAAGAGTGAACTCACGCAAG
* *
19758866 CTAGAAGTGAAAATCAATAATGACACTTTCTTAGCAATGTTTGGATTGATCTTGGATGCTAAGAA
131 CTAGAAGTGAAAATCAGTAATGACACTTTCTTAGCAATGTTTGGATTGATCTTGGATGCTCAGAA
19758931 TTTCAGATTTGAAGTTGATTTTATTGGGGTTAAATTGCAGCAAGGTAGGGGATGAGATGGTGATG
196 TTTCAGATTTGAAGTTGATTTTATTGGGGTTAAATTGCAGCAAGGTAGGGGATGAGATGGTGATG
19758996 AATCTTGGTAGGAAAAGAAAGGAAAAACAAAGAGAAAGAGGAAGAGGAGTGCGACGGCAACAATG
261 AATCTTGGTAGGAAAAGAAAGGAAAAACAAAGAGAAAGAGGAAGAGGAGTGCGACGGCAACAATG
* *
19759061 GGGAAGAAGGAGAAAAGAAAAAAAATAAAGATTT------GGAGA-GG-GA--GAG-GG-AGAGG
326 GGGAAGAATGAGAAAAGAAAAAAAACAAAGATTTGGAGAGGGAGAGGGAGAGGGAGAGGAAGAGG
*
19759114 GAGAAGAAACTAGGAATGACACAAGGGGAAGAAATTAATGATTTAGGGCTGATTATTTTTCTTAA
391 GAGAAGAAACTAGGAACGACACAAGGGGAAGAAATTAATGATTTAGGGCTGATTATTTTTCTTAA
*
19759179 AAATTATATTTATAGTTAGGTTAAAAAAACTTGAAAAACAACCTTAATTAAATATAAGAGATTTT
456 AAATTATATTTATAGTTAGGTTAAAAAAACTTGAAAAACAACCTTAATTAAAAATAAGAGATTTT
19759244 GCTAAAATTCTTCTATTCTGTAAAACATGAGACTTGAACTTAAGACCTCATTTACTATCATGCCT
521 GCTAAAATTCTTCTATTCTGTAAAACATGAGACTTGAACTTAAGACCTCATTTACTATCATGCCT
* *
19759309 TATCATTAATCAATTAACCGTTGAACAATCATCATATTTTCGATACAATCCTACATTTCTATTGG
586 TATCATTAATCAATTAACCGTTGAACCATCATCATATTTTTGATACAATCCTACATTTCTATTGG
19759374 GCTAAATTTCAGGATGTTATAGTTCTACCCCTTAAGAAATTTTGTCCTCAAAATTACCTTATTCG
651 GCTAAATTTCAGGATGTTATAGTTCTACCCCTTAAGAAATTTTGTCCTCAAAATTACCTTATTCG
**
19759439 AAAAGATGAGGATACCACGCAGCCTCTTCGATTCCATGTTTTATCCATAACACTTTAAATAACAA
716 AAAAGATGAGGATACCACATAGCCTCTTCGATTCCATGTTTTATCCATAACACTTTAAATAACAA
19759504 AATTTGTTTCCATCTTA
781 AATTTGTTTCCATCTTA
19759521 G
1 G
19759522 CACTTTGATT
Statistics
Matches: 1550, Mismatches: 27, Indels: 19
0.97 0.02 0.01
Matches are distributed among these distances:
785 402 0.26
786 2 0.00
787 3 0.00
789 2 0.00
790 2 0.00
791 5 0.00
792 287 0.19
797 650 0.42
798 197 0.13
ACGTcount: A:0.38, C:0.13, G:0.19, T:0.30
Consensus pattern (797 bp):
GAGATCCATTAAAATTTGGAAAATTACCTTTAAAATCATTAAAATTCCCCTAATTTCCCTATCTT
AAAATTCGTGTTTTAAATTGGCTCAATTAATCAAGAAATTGAAGGAAAGAGTGAACTCACGCAAG
CTAGAAGTGAAAATCAGTAATGACACTTTCTTAGCAATGTTTGGATTGATCTTGGATGCTCAGAA
TTTCAGATTTGAAGTTGATTTTATTGGGGTTAAATTGCAGCAAGGTAGGGGATGAGATGGTGATG
AATCTTGGTAGGAAAAGAAAGGAAAAACAAAGAGAAAGAGGAAGAGGAGTGCGACGGCAACAATG
GGGAAGAATGAGAAAAGAAAAAAAACAAAGATTTGGAGAGGGAGAGGGAGAGGGAGAGGAAGAGG
GAGAAGAAACTAGGAACGACACAAGGGGAAGAAATTAATGATTTAGGGCTGATTATTTTTCTTAA
AAATTATATTTATAGTTAGGTTAAAAAAACTTGAAAAACAACCTTAATTAAAAATAAGAGATTTT
GCTAAAATTCTTCTATTCTGTAAAACATGAGACTTGAACTTAAGACCTCATTTACTATCATGCCT
TATCATTAATCAATTAACCGTTGAACCATCATCATATTTTTGATACAATCCTACATTTCTATTGG
GCTAAATTTCAGGATGTTATAGTTCTACCCCTTAAGAAATTTTGTCCTCAAAATTACCTTATTCG
AAAAGATGAGGATACCACATAGCCTCTTCGATTCCATGTTTTATCCATAACACTTTAAATAACAA
AATTTGTTTCCATCTTA
Found at i:19765809 original size:6 final size:6
Alignment explanation
Indices: 19765798--19765833 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
19765788 AATAAAGATT
19765798 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA
1 GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA GGGAGA
19765834 CTAGGGACGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.67, T:0.00
Consensus pattern (6 bp):
GGGAGA
Found at i:19766563 original size:90 final size:89
Alignment explanation
Indices: 19766452--19766650 Score: 247
Period size: 90 Copynumber: 2.2 Consensus size: 89
19766442 TTAAATTTAC
* * * **
19766452 AGATACAATAAAACACAAACATTCTAGAAAATTAATACACGAAAATATAAAATTCGA-ACACCAA
1 AGATACAAAAAAATACGAACATTCTAGAAAATTAATACACGAAAATATAAAATTCGACA-AAAAA
* *
19766516 ATAATATGGGCTAAATTTGATCTAT
65 ATAATATGGACTAAAATTGATCTAT
* * * *
19766541 AGATACAAAAACAATACGAACATTTTAGAAACTTGATATACGAAAATATAAAATTCGACAAAAAA
1 AGATACAAAAA-AATACGAACATTCTAGAAAATTAATACACGAAAATATAAAATTCGACAAAAAA
*
19766606 ATAATATGGACTAAAATTGATTTAT
65 ATAATATGGACTAAAATTGATCTAT
*
19766631 AGATACAAAAGTAATACGAA
1 AGATACAAAA-AAATACGAA
19766651 AATTTTGAAT
Statistics
Matches: 94, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
89 10 0.11
90 83 0.88
91 1 0.01
ACGTcount: A:0.53, C:0.12, G:0.10, T:0.25
Consensus pattern (89 bp):
AGATACAAAAAAATACGAACATTCTAGAAAATTAATACACGAAAATATAAAATTCGACAAAAAAA
TAATATGGACTAAAATTGATCTAT
Found at i:19768352 original size:127 final size:127
Alignment explanation
Indices: 19768164--19768414 Score: 457
Period size: 127 Copynumber: 2.0 Consensus size: 127
19768154 CCATTTGCCT
*
19768164 AATGATTGGTGTCAGACATAAAAATTTGTGTTTTTTGGTATTGGCCATGCAATGGCCGACACCTA
1 AATGATTGGTGTCAGACACAAAAATTTGTGTTTTTTGGTATTGGCCATGCAATGGCCGACACCTA
*
19768229 TGTATTTTTTTAATACGGTATTTTATTGATATACGAAAATACGAGAATTTGAAAAAAAATAG
66 TGTATTTTTTTAATACGGTATTTTATTAATATACGAAAATACGAGAATTTGAAAAAAAATAG
* * *
19768291 AATGATTGGTGTCAGACACAAAAATTTGTGTTTTTTGGTGTTGGTCATGCAATGGTCGACACCTA
1 AATGATTGGTGTCAGACACAAAAATTTGTGTTTTTTGGTATTGGCCATGCAATGGCCGACACCTA
19768356 TGTATTTTTTTAATACGGTATTTTATTAATATACGAAAATACGAGAATTTGAAAAAAAA
66 TGTATTTTTTTAATACGGTATTTTATTAATATACGAAAATACGAGAATTTGAAAAAAAA
19768415 AATAGGTGTT
Statistics
Matches: 119, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
127 119 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.37
Consensus pattern (127 bp):
AATGATTGGTGTCAGACACAAAAATTTGTGTTTTTTGGTATTGGCCATGCAATGGCCGACACCTA
TGTATTTTTTTAATACGGTATTTTATTAATATACGAAAATACGAGAATTTGAAAAAAAATAG
Found at i:19768512 original size:60 final size:60
Alignment explanation
Indices: 19768448--19768561 Score: 183
Period size: 60 Copynumber: 1.9 Consensus size: 60
19768438 GTGATACCCC
* * *
19768448 CTTTTAATCTGATAAAAAAATCAAATTTTTGGGTGTTGGTCATGTAATTGCCGACACCTT
1 CTTTTAATCTGATAAAAAAATCAAATTTTTGGGTATTGGTCATGCAATGGCCGACACCTT
* *
19768508 CTTTTAATCTGATAAAAAAATCAAATTTTTTGTTATTGGTCATGCAATGGCCGA
1 CTTTTAATCTGATAAAAAAATCAAATTTTTGGGTATTGGTCATGCAATGGCCGA
19768562 TACCATTTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
60 49 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.39
Consensus pattern (60 bp):
CTTTTAATCTGATAAAAAAATCAAATTTTTGGGTATTGGTCATGCAATGGCCGACACCTT
Found at i:19768781 original size:59 final size:60
Alignment explanation
Indices: 19768680--19768895 Score: 267
Period size: 59 Copynumber: 3.6 Consensus size: 60
19768670 CCTTTTTTTA
* *
19768680 GATAAAAAAATTTCAAATTTTTTTTGTGTTGGCCAGGAAATGGCCGACACCCACTATTTATCT
1 GATAAAAAAA-TTCAAA-TTTTTTTGTGTTGGCCATGCAATGGCCGACACCC-CTATTTATCT
* * * *
19768743 GATAAAAAAA-TC-AATTTTTTTGTGTTGGCCATGCAATGGTCGACACCCCTTTTTGTCA
1 GATAAAAAAATTCAAATTTTTTTGTGTTGGCCATGCAATGGCCGACACCCCTATTTATCT
* * *
19768801 GATAAAAAAATTTCAAATTTTTTTGGTGTTGGTCATGCAATGGCCGACACTCCTATTTATTT
1 GATAAAAAAA-TTCAAATTTTTTT-GTGTTGGCCATGCAATGGCCGACACCCCTATTTATCT
* *
19768863 GATAAAAAAA-TCAAATTTTTTAGTGTTGACCAT
1 GATAAAAAAATTCAAATTTTTTTGTGTTGGCCAT
19768896 TTAATGACTG
Statistics
Matches: 133, Mismatches: 16, Indels: 12
0.83 0.10 0.07
Matches are distributed among these distances:
58 17 0.13
59 40 0.30
60 15 0.11
61 11 0.08
62 40 0.30
63 10 0.08
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (60 bp):
GATAAAAAAATTCAAATTTTTTTGTGTTGGCCATGCAATGGCCGACACCCCTATTTATCT
Found at i:19768872 original size:121 final size:121
Alignment explanation
Indices: 19768669--19768895 Score: 350
Period size: 121 Copynumber: 1.9 Consensus size: 121
19768659 GTTGGTCATT
* *
19768669 CCCTTTTTTTAGATAAAAAAATTTCAAATTTTTTTTGTGTTGGCCAGGAAATGGCCGACACCCAC
1 CCCTTTTTTCAGATAAAAAAATTTCAAATTTTTTTGGTGTTGGCCAGGAAATGGCCGACACCCAC
* *
19768734 TATTTATCTGATAAAAAAATC-AATTTTTTTGTGTTGGCCATGCAATGGTCGACAC
66 TATTTATCTGATAAAAAAATCAAATTTTTTAGTGTTGACCATGCAATGGTCGACAC
* * * *
19768789 CCCTTTTTGTCAGATAAAAAAATTTCAAATTTTTTTGGTGTTGGTCATGCAATGGCCGACACTC-
1 CCCTTTTT-TCAGATAAAAAAATTTCAAATTTTTTTGGTGTTGGCCAGGAAATGGCCGACACCCA
*
19768853 CTATTTATTTGATAAAAAAATCAAATTTTTTAGTGTTGACCAT
65 CTATTTATCTGATAAAAAAATCAAATTTTTTAGTGTTGACCAT
19768896 TTAATGACTG
Statistics
Matches: 96, Mismatches: 9, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
120 29 0.30
121 67 0.70
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.38
Consensus pattern (121 bp):
CCCTTTTTTCAGATAAAAAAATTTCAAATTTTTTTGGTGTTGGCCAGGAAATGGCCGACACCCAC
TATTTATCTGATAAAAAAATCAAATTTTTTAGTGTTGACCATGCAATGGTCGACAC
Found at i:19772161 original size:28 final size:28
Alignment explanation
Indices: 19772105--19772162 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 28
19772095 TAATGAATAA
* *
19772105 ATTCAATCTTTCAATCCTTCTTTTCTTG
1 ATTCAATCTTTCAATCCTTCGTTTATTG
*
19772133 ATTCAATCTTTCATATGCTT-GTTTATTG
1 ATTCAATCTTTCA-ATCCTTCGTTTATTG
19772161 AT
1 AT
19772163 AAATTTTTCC
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
28 21 0.81
29 5 0.19
ACGTcount: A:0.21, C:0.19, G:0.07, T:0.53
Consensus pattern (28 bp):
ATTCAATCTTTCAATCCTTCGTTTATTG
Found at i:19773001 original size:31 final size:31
Alignment explanation
Indices: 19772963--19773024 Score: 124
Period size: 31 Copynumber: 2.0 Consensus size: 31
19772953 ATTTAAGATT
19772963 ATATTATTATTTATCAAATGATTTAATTATA
1 ATATTATTATTTATCAAATGATTTAATTATA
19772994 ATATTATTATTTATCAAATGATTTAATTATA
1 ATATTATTATTTATCAAATGATTTAATTATA
19773025 CTCAGTATTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (31 bp):
ATATTATTATTTATCAAATGATTTAATTATA
Found at i:19774814 original size:24 final size:23
Alignment explanation
Indices: 19774760--19774804 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
19774750 TTAAAAGACC
*
19774760 CTAAAAAAATTAACTTTTAAAGA
1 CTAAAAAAATCAACTTTTAAAGA
*
19774783 CAAAAAAAATCAACTTTTAAAG
1 CTAAAAAAATCAACTTTTAAAG
19774805 GGTTAAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.58, C:0.11, G:0.04, T:0.27
Consensus pattern (23 bp):
CTAAAAAAATCAACTTTTAAAGA
Found at i:19776363 original size:13 final size:13
Alignment explanation
Indices: 19776326--19776365 Score: 62
Period size: 13 Copynumber: 3.1 Consensus size: 13
19776316 ATTAAACCAA
*
19776326 ACTTTTCAAAAAT
1 ACTTTTCAAAAGT
*
19776339 ACTTCTCAAAAGT
1 ACTTTTCAAAAGT
19776352 ACTTTTCAAAAGT
1 ACTTTTCAAAAGT
19776365 A
1 A
19776366 ATACTAAACT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 24 1.00
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.35
Consensus pattern (13 bp):
ACTTTTCAAAAGT
Found at i:19776554 original size:26 final size:26
Alignment explanation
Indices: 19776518--19776568 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
19776508 TGAAATTTTT
*
19776518 TAATTTTTATTCTAGTCACTCACGTA
1 TAATTTCTATTCTAGTCACTCACGTA
*
19776544 TAATTTCTATTTTAGTCACTCACGT
1 TAATTTCTATTCTAGTCACTCACGT
19776569 TTTAGATCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.47
Consensus pattern (26 bp):
TAATTTCTATTCTAGTCACTCACGTA
Found at i:19777507 original size:13 final size:13
Alignment explanation
Indices: 19777473--19777512 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
19777463 TATAATTAGG
*
19777473 TTAATTTAATTAG
1 TTAATTTAATTAA
* *
19777486 TTTAGTTAATTAA
1 TTAATTTAATTAA
19777499 TTAATTTAATTAA
1 TTAATTTAATTAA
19777512 T
1 T
19777513 AGAATAAATA
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (13 bp):
TTAATTTAATTAA
Found at i:19777511 original size:9 final size:9
Alignment explanation
Indices: 19777473--19777512 Score: 55
Period size: 9 Copynumber: 4.6 Consensus size: 9
19777463 TATAATTAGG
19777473 TTAATTTAA
1 TTAATTTAA
* *
19777482 TTAGTTTAG
1 TTAATTTAA
19777491 TTAA-TTAA
1 TTAATTTAA
19777499 TTAATTTAA
1 TTAATTTAA
19777508 TTAAT
1 TTAAT
19777513 AGAATAAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.55
Consensus pattern (9 bp):
TTAATTTAA
Found at i:19783366 original size:15 final size:15
Alignment explanation
Indices: 19783346--19783374 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19783336 ATGTTCAATG
19783346 ACAACCCAACAATTT
1 ACAACCCAACAATTT
19783361 ACAACCCAACAATT
1 ACAACCCAACAATT
19783375 ATAAGTAAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.34, G:0.00, T:0.17
Consensus pattern (15 bp):
ACAACCCAACAATTT
Found at i:19790688 original size:2 final size:2
Alignment explanation
Indices: 19790681--19790707 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19790671 GCTTGTCTCA
19790681 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
19790708 GGTTAGTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19797703 original size:21 final size:21
Alignment explanation
Indices: 19797662--19797733 Score: 65
Period size: 21 Copynumber: 3.4 Consensus size: 21
19797652 AGAGTTTTTA
* *
19797662 GTATCGTTAGAGGTAA-AACTT
1 GTATCGGTAGAGG-AATCACTT
19797683 GTATCGGTAGAGGAATCACTT
1 GTATCGGTAGAGGAATCACTT
* ****
19797704 GTTTCGGTAGAACTGTCACTT
1 GTATCGGTAGAGGAATCACTT
19797725 GTATCGGTA
1 GTATCGGTA
19797734 CAAATTTGCA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
20 2 0.05
21 40 0.95
ACGTcount: A:0.26, C:0.14, G:0.26, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAGGAATCACTT
Found at i:19808122 original size:20 final size:20
Alignment explanation
Indices: 19808097--19808149 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
19808087 GGTTTTAGTA
19808097 GTTGTTATATATTCAGATAT
1 GTTGTTATATATTCAGATAT
*
19808117 GTTGTTATATATTTAGATAT
1 GTTGTTATATATTCAGATAT
*
19808137 GTTATTATATATT
1 GTTGTTATATATT
19808150 ATAGGTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.30, C:0.02, G:0.13, T:0.55
Consensus pattern (20 bp):
GTTGTTATATATTCAGATAT
Found at i:19808321 original size:27 final size:27
Alignment explanation
Indices: 19808276--19808352 Score: 75
Period size: 27 Copynumber: 2.8 Consensus size: 27
19808266 TCATTTAATA
* *
19808276 AAAAATGATAAAA-AATAAAAATCAAT
1 AAAAATTATAAAATATTAAAAATCAAT
* ** *
19808302 AAAAGTTATAAAATATTAAATTTTAAT
1 AAAAATTATAAAATATTAAAAATCAAT
19808329 AAAAATTAGTAAATATATTAAAAA
1 AAAAATTA-TAAA-ATATTAAAAA
19808353 AGTAAAAAAT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
26 11 0.28
27 16 0.41
28 4 0.10
29 8 0.21
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (27 bp):
AAAAATTATAAAATATTAAAAATCAAT
Found at i:19809673 original size:23 final size:23
Alignment explanation
Indices: 19809647--19809699 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
19809637 CCGATTCATA
* *
19809647 TTTTTCTATTGCTTTTGGATTGC
1 TTTTTCTATTGATTTTGGATAGC
*
19809670 TTTTTCTATTTATTTTGGATAGC
1 TTTTTCTATTGATTTTGGATAGC
19809693 TTTTTCT
1 TTTTTCT
19809700 TTTTTTATTG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.11, C:0.11, G:0.13, T:0.64
Consensus pattern (23 bp):
TTTTTCTATTGATTTTGGATAGC
Found at i:19810180 original size:87 final size:87
Alignment explanation
Indices: 19810042--19810306 Score: 313
Period size: 87 Copynumber: 3.0 Consensus size: 87
19810032 TAATGGTCAA
* * * * *
19810042 AGGGTCTTTTTGATGCATTTGACAGTTCAAGTACCCAATTGAGTGCAAAAAAAAATCAGGGGCTT
1 AGGGTTTTTTTGATACTTTTGACAGTTCAAGTACCAAATTGAGTGCAAAAAAAAAGCAGGGGCTT
* *
19810107 AATTGTTTTTTTTTAAA-GTTTG
66 AATTG-CTTTTTTGAAAGGTTTG
*
19810129 AGGGTTTTTTTGATACTTTTTGACTGTTCAAGTACCAAATTGAGTG--AAAAAAAAGCAGGGGCT
1 AGGGTTTTTTTGATAC-TTTTGACAGTTCAAGTACCAAATTGAGTGCAAAAAAAAAGCAGGGGCT
19810192 TAATTGCTTTTTTGAAATGGTTTG
65 TAATTGCTTTTTTGAAA-GGTTTG
* * * * *
19810216 AGGGTATTTTTT-ATTCATTTTGAAAGTTTAAGTACCTAATTGAGTGCAAAAAAAAAGCAGGGAC
1 AGGGT-TTTTTTGATAC-TTTTGACAGTTCAAGTACCAAATTGAGTGCAAAAAAAAAGCAGGGGC
* *
19810280 TTAATTACTTTTTTGAAAAAGTTTG
64 TTAATTGCTTTTTTG-AAAGGTTTG
19810305 AG
1 AG
19810307 AGCTTTTACA
Statistics
Matches: 154, Mismatches: 17, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
85 9 0.06
86 22 0.14
87 52 0.34
88 32 0.21
89 36 0.23
90 3 0.02
ACGTcount: A:0.32, C:0.09, G:0.21, T:0.38
Consensus pattern (87 bp):
AGGGTTTTTTTGATACTTTTGACAGTTCAAGTACCAAATTGAGTGCAAAAAAAAAGCAGGGGCTT
AATTGCTTTTTTGAAAGGTTTG
Found at i:19817989 original size:43 final size:43
Alignment explanation
Indices: 19817909--19818066 Score: 183
Period size: 43 Copynumber: 3.7 Consensus size: 43
19817899 TTAATGACAT
*
19817909 TGAGAGGAACACTGTTTCCTACATATTGAATGTATGTGACCAAA
1 TGAGAGGAACACTGTTTCCTA-ATATTGAATGTATGTGACCGAA
* * * *
19817953 TGAGAGGAACATTGTTTTCTAATATTGAATGTATGTGATCGAT
1 TGAGAGGAACACTGTTTCCTAATATTGAATGTATGTGACCGAA
** * * * *
19817996 TTTGTGGAACATTCTTTCCTAATATTGAAAGTATGTGACCGAA
1 TGAGAGGAACACTGTTTCCTAATATTGAATGTATGTGACCGAA
*
19818039 TGA-ATGGAACACTGTTTCCTCATATTGA
1 TGAGA-GGAACACTGTTTCCTAATATTGA
19818067 TAGTACGTGA
Statistics
Matches: 94, Mismatches: 19, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
43 75 0.80
44 19 0.20
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.35
Consensus pattern (43 bp):
TGAGAGGAACACTGTTTCCTAATATTGAATGTATGTGACCGAA
Found at i:19818077 original size:86 final size:87
Alignment explanation
Indices: 19817914--19818082 Score: 218
Period size: 86 Copynumber: 2.0 Consensus size: 87
19817904 GACATTGAGA
* * * *
19817914 GGAACACTGTTTCCTACATATTGAATGTATGTGACCAAATGAGAGGAACATTGTTTTCTAATATT
1 GGAACACTCTTTCCTACATATTGAAAGTATGTGACCAAATGAGAGGAACACTGTTTCCTAATATT
*
19817979 GAATGTATGTGATCGATTTTGT
66 GAATGTACGTGATCGATTTTGT
* * *
19818001 GGAACATTCTTTCCTA-ATATTGAAAGTATGTGACCGAATGA-ATGGAACACTGTTTCCTCATAT
1 GGAACACTCTTTCCTACATATTGAAAGTATGTGACCAAATGAGA-GGAACACTGTTTCCTAATAT
*
19818064 TG-ATAGTACGTGATTGATT
65 TGAAT-GTACGTGATCGATT
19818083 GAGAGCATGA
Statistics
Matches: 71, Mismatches: 9, Indels: 5
0.84 0.11 0.06
Matches are distributed among these distances:
85 3 0.04
86 54 0.76
87 14 0.20
ACGTcount: A:0.30, C:0.13, G:0.20, T:0.37
Consensus pattern (87 bp):
GGAACACTCTTTCCTACATATTGAAAGTATGTGACCAAATGAGAGGAACACTGTTTCCTAATATT
GAATGTACGTGATCGATTTTGT
Found at i:19818300 original size:28 final size:28
Alignment explanation
Indices: 19818257--19818315 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
19818247 TACCGAGGGG
* *
19818257 ATTGGTGATCTTTATCGT-ATTATTTGTT
1 ATTGGCGATCTCTATC-TCATTATTTGTT
*
19818285 ATTGGCGATCTCTATCTCATTATTTTTT
1 ATTGGCGATCTCTATCTCATTATTTGTT
19818313 ATT
1 ATT
19818316 TGGCAGATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 1 0.04
28 26 0.96
ACGTcount: A:0.19, C:0.12, G:0.14, T:0.56
Consensus pattern (28 bp):
ATTGGCGATCTCTATCTCATTATTTGTT
Found at i:19822502 original size:18 final size:18
Alignment explanation
Indices: 19822481--19822529 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
19822471 TCTTTTTCAG
19822481 GATCTTCTTCTTCCTCAA
1 GATCTTCTTCTTCCTCAA
* * * * *
19822499 GATCCTCTTCCTCTTTAG
1 GATCTTCTTCTTCCTCAA
19822517 GATCTTCTTCTTC
1 GATCTTCTTCTTC
19822530 AGGATCTTAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.12, C:0.33, G:0.08, T:0.47
Consensus pattern (18 bp):
GATCTTCTTCTTCCTCAA
Found at i:19822522 original size:15 final size:15
Alignment explanation
Indices: 19822504--19822537 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
19822494 CTCAAGATCC
*
19822504 TCTTCCTCTTTAGGA
1 TCTTCCTCTTCAGGA
*
19822519 TCTTCTTCTTCAGGA
1 TCTTCCTCTTCAGGA
19822534 TCTT
1 TCTT
19822538 AATCTTCTTC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.12, C:0.26, G:0.12, T:0.50
Consensus pattern (15 bp):
TCTTCCTCTTCAGGA
Found at i:19832847 original size:39 final size:39
Alignment explanation
Indices: 19832795--19832896 Score: 132
Period size: 39 Copynumber: 2.6 Consensus size: 39
19832785 GACAGATCAA
* *
19832795 AAACACAATTTTGTAACCAAATACAAAAATTCCTATTAG
1 AAACCCAAATTTGTAACCAAATACAAAAATTCCTATTAG
* * **
19832834 ATACCCAAATTTGTAACAAAATAGTAAAATTCCTATTAG
1 AAACCCAAATTTGTAACCAAATACAAAAATTCCTATTAG
* *
19832873 AAACCCAATTTTGTAACCTAATAC
1 AAACCCAAATTTGTAACCAAATAC
19832897 TTTGTAAAAA
Statistics
Matches: 52, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.29
Consensus pattern (39 bp):
AAACCCAAATTTGTAACCAAATACAAAAATTCCTATTAG
Found at i:19833730 original size:844 final size:845
Alignment explanation
Indices: 19832151--19833860 Score: 2772
Period size: 844 Copynumber: 2.0 Consensus size: 845
19832141 ACTTAGAACA
* * * *
19832151 GAAAT-AAAATAAAAAAGAAATGAAATCAACCAAAACCTAAATTACAATAAAACTAAATACTAAG
1 GAAATAAAAATTATAAAGAAATAAAATCAACCAAAACCTAAATTACAATAAAACTAAATACCAAG
* *
19832215 CAGAAGATGTTGTCTAAACTTAAGCGCCAAAGGGCCCTATTTATATAGCCTTTGGACGATCGTTT
66 CAGAAGATGTTGTCTAAACCTAAGCACCAAAGGGCCCTATTTATATAGCCTTTGGACGATCGTTT
*
19832280 TCCTTAACCCTAGGTCAGCTTTTGTTCTTTGTGTTTAAGTGGCATTGTAAAGATCGAAATACCCT
131 TCCTTAACCCTAGATCAGCTTTTGTTCTTTGTGTTTAAGTGGCATTGTAAAGATCGAAATACCCT
* * * **
19832345 TCCCTCGGTGTTAATTCCGCATTCAGGAGGCGATGTCGCGTTACGCAGGAGCTGTGTCGCGACAG
196 TCACTCGGTGTTAATTCCGCATTCAAGAGGCGATGTCGCGATAAACAGGAGCTGTGTCGCGACAG
*
19832410 AGAAGACAATTCCACTCCTTGGTAGATTTCCTAAGCATTGTCACAAACACGCTGTGCCTGTGTCG
261 AGAAGACAATTCCACTCCTTGGTAGATTTCCCAAGCATTGTCACAAACACGCTGTGCCTGTGTCG
* * *
19832475 TGACATAGAAGACAATTTTTGTGTTCTTCAGGTCTGATTCTTGTGAAGTGACACAGATCTTCATG
326 TAACATAGAAGACAATTTCTGTGTTCTTCAGGTCTGATTCTTGTGAAGTGACACAGATCTTCAAG
* *
19832540 TCTTGACATAGTGATCAACTTCATATTTGTTCGTCTTCTTAAGGTCTCCTTCACACTCAAAAAGT
391 TCGTGACATAGTGATCAACTTCATATTTGTTCGTCTTCTTAAGGTCTCCTACACACTCAAAAAGT
*
19832605 TCGTTGGCTAACCTTTAGGCCTCACTCGGCCCTAAAGACAATAAAAAGCACATTTTTACACTTTT
456 TCGTTGGCTAACCTTTAGGCCTCACTCGGCCCTAAAGACAATAAAAAGCACATTTATACACTTTT
* *
19832670 TACACATTTTATTCAATAACTAAGAACTAAAATAAATCTAAAAAATCTTAAAGAAAATGCTTAAT
521 TACACATTTTATTCAATAACTAAAAACTAAAATAAATATAAAAAATCTTAAAGAAAATGCTTAAT
19832735 TTCAAGCTCCTAAAGTAGAAAAAGTAGTTCAATCTGCTAGATCAAAATATGACAGATCAAAAACA
586 TTCAAGCTCCTAAAGTAGAAAAAGTAGTTCAATCTGCTAGATCAAAATATGACAGATCAAAAACA
* *
19832800 CAATTTTGTAACCAAATACAAAAATTCCTATTAGATACCCAAATTTGTAACAAAATAGTAAAATT
651 CAATTTTGTAACCAAATACAAAAATTCCTATTAGAAACCCAAATTTGTAACAAAATACTAAAATT
* *
19832865 CCTATTAGAAACCCAATTTTGTAACCTAATACTTTGTAAAAAAATTT-AAAAATGTTAATTAAAA
716 CCTATTAGAAACCCAATTTTGTAACCCAATACTTGGTAAAAAAATTTAAAAAATGTTAATTAAAA
* * *
19832929 ACTATAATGCCAAAAAAAATAATTTTATAA-TTTTATGATTTTTTATTTTTATATAAATAGATTT
781 ACTATAATGCC-AAAAAAATAATTTTAGAATTTTTATGATTTTTTATTTTTAAACAAATAGATTT
19832993 T
845 T
19832994 GAAATAAAAAATTATAAAGAAATAAAATCAACCAAAACCTAAATTACAATAAAACTAAATACCAA
1 GAAAT-AAAAATTATAAAGAAATAAAATCAACCAAAACCTAAATTACAATAAAACTAAATACCAA
*
19833059 GCAGAAGATGTTGTCTAAACCTAAGTACCAAAGGGCCCTATTTATA-A-CCTTTGGACGATCGTT
65 GCAGAAGATGTTGTCTAAACCTAAGCACCAAAGGGCCCTATTTATATAGCCTTTGGACGATCGTT
*
19833122 TTCCTTAACCCTAGATCAGCTTTTGTT-TTTCGTGTTTAAGTGGCATTGTAAAGATCGAAATGCC
130 TTCCTTAACCCTAGATCAGCTTTTGTTCTTT-GTGTTTAAGTGGCATTGTAAAGATCGAAATACC
* * * * *
19833186 CTTCACTCGGTGTTAATTCCGCATTTAAGAGGTGATGTTGTGATAAACAGGAGCTGTGTCGGGAC
194 CTTCACTCGGTGTTAATTCCGCATTCAAGAGGCGATGTCGCGATAAACAGGAGCTGTGTCGCGAC
* * * *
19833251 AGAGAAGACAGTTCCACTCCTTGGTAGATTTCCCAAGCGTTGTCGC-AACACGTTGTGCCTGTGT
259 AGAGAAGACAATTCCACTCCTTGGTAGATTTCCCAAGCATTGTCACAAACACGCTGTGCCTGTGT
* * * **
19833315 CGTAACATAGAAGATAGTTTCTGTGTTCTTCAGGTCTGGTT-TCTGTGTTGTGACACAGATCAAT
324 CGTAACATAGAAGACAATTTCTGTGTTCTTCAGGTCTGATTCT-TGTGAAGTGACACAGATC--T
19833379 TCAAGTCGTGACATAGTGATCAACTTCATATTTGTTCGTCTTCTTAAGGTCTCCTACACACTCAA
386 TCAAGTCGTGACATAGTGATCAACTTCATATTTGTTCGTCTTCTTAAGGTCTCCTACACACTCAA
* * * * *
19833444 AAAGTTTGTTGGCTAACCTTTAGGCCTCAGTCTGCCTTAAAGACAATAAAAAGTACATTTATACA
451 AAAGTTCGTTGGCTAACCTTTAGGCCTCACTCGGCCCTAAAGACAATAAAAAGCACATTTATACA
*
19833509 CTTTTTACACATTTTATTCAATAACTAAAAACTAAAATAAATATAAAAAATCTTAAGGAAAATGC
516 CTTTTTACACATTTTATTCAATAACTAAAAACTAAAATAAATATAAAAAATCTTAAAGAAAATGC
* * * *
19833574 TTAATTTCACGCTCCTAAAGT-GCAAAAAGTAGTTCAATTTGCTAGATCGAAATATGGCAGATCA
581 TTAATTTCAAGCTCCTAAAGTAG-AAAAAGTAGTTCAATCTGCTAGATCAAAATATGACAGATCA
*
19833638 GAAACACAATTTTGTAACCAAATACAAAAATTCCTATTAGAAACCCAAATTTGTAACAAAATACT
645 AAAACACAATTTTGTAACCAAATACAAAAATTCCTATTAGAAACCCAAATTTGTAACAAAATACT
* * *
19833703 AAAATTCCTATTGGAAACCCTATTTTGTAACCCAATACTTGGTACAAAAATTTAAAAAATGTTAA
710 AAAATTCCTATTAGAAACCCAATTTTGTAACCCAATACTTGGTAAAAAAATTTAAAAAATGTTAA
19833768 TTAAAAACTATAATGCCAAAAAAATAATTTTAGAATTTTTATGATTTTTTATTTTTAAACAAATA
775 TTAAAAACTATAATGCCAAAAAAATAATTTTAGAATTTTTATGATTTTTTATTTTTAAACAAATA
19833833 GATTTT
840 GATTTT
19833839 GAAATAAAAATTATAAAGAAAT
1 GAAATAAAAATTATAAAGAAAT
19833861 CACAAAAATT
Statistics
Matches: 800, Mismatches: 58, Indels: 17
0.91 0.07 0.02
Matches are distributed among these distances:
841 1 0.00
842 72 0.09
843 177 0.22
844 387 0.48
845 163 0.20
ACGTcount: A:0.37, C:0.17, G:0.14, T:0.32
Consensus pattern (845 bp):
GAAATAAAAATTATAAAGAAATAAAATCAACCAAAACCTAAATTACAATAAAACTAAATACCAAG
CAGAAGATGTTGTCTAAACCTAAGCACCAAAGGGCCCTATTTATATAGCCTTTGGACGATCGTTT
TCCTTAACCCTAGATCAGCTTTTGTTCTTTGTGTTTAAGTGGCATTGTAAAGATCGAAATACCCT
TCACTCGGTGTTAATTCCGCATTCAAGAGGCGATGTCGCGATAAACAGGAGCTGTGTCGCGACAG
AGAAGACAATTCCACTCCTTGGTAGATTTCCCAAGCATTGTCACAAACACGCTGTGCCTGTGTCG
TAACATAGAAGACAATTTCTGTGTTCTTCAGGTCTGATTCTTGTGAAGTGACACAGATCTTCAAG
TCGTGACATAGTGATCAACTTCATATTTGTTCGTCTTCTTAAGGTCTCCTACACACTCAAAAAGT
TCGTTGGCTAACCTTTAGGCCTCACTCGGCCCTAAAGACAATAAAAAGCACATTTATACACTTTT
TACACATTTTATTCAATAACTAAAAACTAAAATAAATATAAAAAATCTTAAAGAAAATGCTTAAT
TTCAAGCTCCTAAAGTAGAAAAAGTAGTTCAATCTGCTAGATCAAAATATGACAGATCAAAAACA
CAATTTTGTAACCAAATACAAAAATTCCTATTAGAAACCCAAATTTGTAACAAAATACTAAAATT
CCTATTAGAAACCCAATTTTGTAACCCAATACTTGGTAAAAAAATTTAAAAAATGTTAATTAAAA
ACTATAATGCCAAAAAAATAATTTTAGAATTTTTATGATTTTTTATTTTTAAACAAATAGATTTT
Found at i:19833741 original size:39 final size:39
Alignment explanation
Indices: 19833637--19833741 Score: 147
Period size: 39 Copynumber: 2.7 Consensus size: 39
19833627 ATGGCAGATC
* *
19833637 AGAAACACAATTTTGTAACCAAATACAAAAATTCCTATT
1 AGAAACCCAATTTTGTAACCAAATACTAAAATTCCTATT
* *
19833676 AGAAACCCAAATTTGTAACAAAATACTAAAATTCCTATT
1 AGAAACCCAATTTTGTAACCAAATACTAAAATTCCTATT
* * *
19833715 GGAAACCCTATTTTGTAACCCAATACT
1 AGAAACCCAATTTTGTAACCAAATACT
19833742 TGGTACAAAA
Statistics
Matches: 57, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 57 1.00
ACGTcount: A:0.45, C:0.20, G:0.07, T:0.29
Consensus pattern (39 bp):
AGAAACCCAATTTTGTAACCAAATACTAAAATTCCTATT
Found at i:19835205 original size:22 final size:22
Alignment explanation
Indices: 19835175--19835218 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
19835165 AGGAAATTAT
*
19835175 CAATTAATTGATAAATT-AAATA
1 CAATGAATTGA-AAATTGAAATA
19835197 CAATGAATTGAAAATTGAAATA
1 CAATGAATTGAAAATTGAAATA
19835219 ATTAAGGAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.55, C:0.05, G:0.09, T:0.32
Consensus pattern (22 bp):
CAATGAATTGAAAATTGAAATA
Found at i:19840260 original size:28 final size:28
Alignment explanation
Indices: 19840213--19840276 Score: 112
Period size: 27 Copynumber: 2.3 Consensus size: 28
19840203 AAATTATTTT
19840213 AAAATTATTAAAATTATTTTTTAAAATA
1 AAAATTATTAAAATTATTTTTTAAAATA
*
19840241 AAAATTATT-ATATTATTTTTTAAAATA
1 AAAATTATTAAAATTATTTTTTAAAATA
19840268 AAAATTATT
1 AAAATTATT
19840277 TTGTCTTTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
27 26 0.74
28 9 0.26
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (28 bp):
AAAATTATTAAAATTATTTTTTAAAATA
Found at i:19844061 original size:14 final size:14
Alignment explanation
Indices: 19844039--19844072 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
19844029 TTTTAAATGC
*
19844039 ATTTTGAATGATTG
1 ATTTGGAATGATTG
*
19844053 ATTTGGAATGGTTG
1 ATTTGGAATGATTG
19844067 ATTTGG
1 ATTTGG
19844073 TACAAATGCT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.29, T:0.47
Consensus pattern (14 bp):
ATTTGGAATGATTG
Found at i:19860045 original size:27 final size:27
Alignment explanation
Indices: 19859990--19860045 Score: 67
Period size: 27 Copynumber: 2.1 Consensus size: 27
19859980 TATTTAGATG
* * *
19859990 AAATTGTTATACGAAATGTTTTTATGA
1 AAATTGATATACGAAATGTTTATACGA
* *
19860017 AAATTGATATATGAAGTGTTTATACGA
1 AAATTGATATACGAAATGTTTATACGA
19860044 AA
1 AA
19860046 TATTTATAGG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.41, C:0.04, G:0.16, T:0.39
Consensus pattern (27 bp):
AAATTGATATACGAAATGTTTATACGA
Found at i:19860051 original size:13 final size:13
Alignment explanation
Indices: 19859975--19860053 Score: 54
Period size: 13 Copynumber: 6.0 Consensus size: 13
19859965 ACAGTACATG
*
19859975 TGAAATATTTAGA
1 TGAAATATTTATA
19859988 TGAAAT-TGTTATA
1 TGAAATAT-TTATA
* * *
19860001 CGAAATGTTTTTA
1 TGAAATATTTATA
19860014 TGAAA-ATTGATATA
1 TGAAATATT--TATA
* *
19860028 TGAAGTGTTTATA
1 TGAAATATTTATA
*
19860041 CGAAATATTTATA
1 TGAAATATTTATA
19860054 GGAATATAGA
Statistics
Matches: 50, Mismatches: 11, Indels: 10
0.70 0.15 0.14
Matches are distributed among these distances:
12 3 0.06
13 37 0.74
14 8 0.16
15 2 0.04
ACGTcount: A:0.41, C:0.03, G:0.15, T:0.42
Consensus pattern (13 bp):
TGAAATATTTATA
Found at i:19860066 original size:40 final size:40
Alignment explanation
Indices: 19859996--19860071 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
19859986 GATGAAATTG
* * * *
19859996 TTATACGAAATGTTTTTATGAAAATTGATATATGAAGTGT
1 TTATACGAAATATTTATAGGAAAATAGATATATGAAGTGT
* *
19860036 TTATACGAAATATTTATAGGAATATAGATATGTGAA
1 TTATACGAAATATTTATAGGAAAATAGATATATGAA
19860072 AAAGGGACAT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.41, C:0.03, G:0.17, T:0.39
Consensus pattern (40 bp):
TTATACGAAATATTTATAGGAAAATAGATATATGAAGTGT
Found at i:19863212 original size:21 final size:21
Alignment explanation
Indices: 19863181--19863249 Score: 57
Period size: 21 Copynumber: 3.3 Consensus size: 21
19863171 GGACAAGCCA
*
19863181 CCACTTATTGTAGATAAACTG
1 CCACATATTGTAGATAAACTG
* * * **
19863202 CCACATGTTGTGGATATACCA
1 CCACATATTGTAGATAAACTG
* * *
19863223 CCAAAAATTGCAGATAAACTG
1 CCACATATTGTAGATAAACTG
19863244 CCACAT
1 CCACAT
19863250 CTTCCACATT
Statistics
Matches: 32, Mismatches: 16, Indels: 0
0.67 0.33 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.36, C:0.23, G:0.14, T:0.26
Consensus pattern (21 bp):
CCACATATTGTAGATAAACTG
Found at i:19866135 original size:88 final size:88
Alignment explanation
Indices: 19866026--19866206 Score: 281
Period size: 88 Copynumber: 2.1 Consensus size: 88
19866016 TAACTCCTTG
* *
19866026 TAATTTGGGTGTGTCAGTCTTCATTATTTTGAAACCATTGTCGATTCTTGATTTATTGAAGGTTC
1 TAATTTGGGTGTGTCAGTCTTCATTATTTTGAAACCATTGTCGATTCTTAATTCATTGAAGGTTC
*
19866091 AACTACTATTTCGCATTTTCAAT
66 AACTACTATTTCACATTTTCAAT
* * *
19866114 TAATTTGGGTGTGTTAGTCTTCATTATTTTGAAACCATTTTCGATTCTTAATTCATTGGAGGTTC
1 TAATTTGGGTGTGTCAGTCTTCATTATTTTGAAACCATTGTCGATTCTTAATTCATTGAAGGTTC
* *
19866179 AACTGCTCTTTCACATTTTCAAT
66 AACTACTATTTCACATTTTCAAT
*
19866202 CAATT
1 TAATT
19866207 CGAGATTTGG
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
88 84 1.00
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.46
Consensus pattern (88 bp):
TAATTTGGGTGTGTCAGTCTTCATTATTTTGAAACCATTGTCGATTCTTAATTCATTGAAGGTTC
AACTACTATTTCACATTTTCAAT
Found at i:19867377 original size:38 final size:37
Alignment explanation
Indices: 19867290--19867382 Score: 114
Period size: 37 Copynumber: 2.5 Consensus size: 37
19867280 TCCACTAACG
* * ***
19867290 TGGTGTGTAGGGTGGACTGGCCTTTTATAGCCCAGTA
1 TGGTATGTAGGGTGGACGGGCCTACCATAGCCCAGTA
* *
19867327 TGGTATGCAGGGTGGACGGGCCTACCATAGCCCAATTA
1 TGGTATGTAGGGTGGACGGGCCTACCATAGCCC-AGTA
19867365 TGGTATGTAGGGTGGACG
1 TGGTATGTAGGGTGGACG
19867383 AAGTACTATT
Statistics
Matches: 47, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
37 27 0.57
38 20 0.43
ACGTcount: A:0.19, C:0.17, G:0.37, T:0.27
Consensus pattern (37 bp):
TGGTATGTAGGGTGGACGGGCCTACCATAGCCCAGTA
Found at i:19869070 original size:53 final size:53
Alignment explanation
Indices: 19868993--19869103 Score: 136
Period size: 53 Copynumber: 2.1 Consensus size: 53
19868983 CTTTTGACTT
* * *
19868993 TTCTACCCTCAATTTTGCTGACATTTTTGTTTTT-TTTCATC-CCTTCTTCCTTC
1 TTCTTCCCCCAATTTTGCTAACA-TTTTGTTTTTCTTTCATCTCCTTCTT-CTTC
* * *
19869046 TTCTTCCCCCAATTTTTCTAACATTTTGTTTTTCTTTCTTCTTCTTCTTCTTC
1 TTCTTCCCCCAATTTTGCTAACATTTTGTTTTTCTTTCATCTCCTTCTTCTTC
19869099 TTCTT
1 TTCTT
19869104 TCCTCAACCC
Statistics
Matches: 50, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
52 10 0.20
53 34 0.68
54 6 0.12
ACGTcount: A:0.10, C:0.28, G:0.04, T:0.59
Consensus pattern (53 bp):
TTCTTCCCCCAATTTTGCTAACATTTTGTTTTTCTTTCATCTCCTTCTTCTTC
Found at i:19869943 original size:7 final size:7
Alignment explanation
Indices: 19869923--19869960 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
19869913 TAGAAAAATT
19869923 GAAGGAA
1 GAAGGAA
19869930 GAA-GAA
1 GAAGGAA
19869936 GAAGGAA
1 GAAGGAA
*
19869943 GAAGAAA
1 GAAGGAA
19869950 GAAGGGAA
1 GAA-GGAA
19869958 GAA
1 GAA
19869961 AAAAACAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
6 6 0.22
7 15 0.56
8 6 0.22
ACGTcount: A:0.61, C:0.00, G:0.39, T:0.00
Consensus pattern (7 bp):
GAAGGAA
Found at i:19885444 original size:21 final size:20
Alignment explanation
Indices: 19885392--19885444 Score: 52
Period size: 22 Copynumber: 2.5 Consensus size: 20
19885382 GAATAAGTAG
* *
19885392 GTACCATTGTCAACGCACTT
1 GTACTATTGTCAACGCAATT
*
19885412 GGACTTTATTGTCAACGCAATCT
1 GTAC--TATTGTCAACGCAAT-T
19885435 GTACTATTGT
1 GTACTATTGT
19885445 ACTACCACTG
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
20 3 0.12
21 6 0.23
22 13 0.50
23 4 0.15
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.36
Consensus pattern (20 bp):
GTACTATTGTCAACGCAATT
Found at i:19893862 original size:21 final size:21
Alignment explanation
Indices: 19893838--19893890 Score: 63
Period size: 21 Copynumber: 2.5 Consensus size: 21
19893828 AGAACTAGAG
* *
19893838 GAGAAGAAGGAAAATGAGGAA
1 GAGAAGAAGGAAAAAGAAGAA
*
19893859 GAGAAGAAAGAAAAAGAAGAA
1 GAGAAGAAGGAAAAAGAAGAA
19893880 GAAGAA-AAGGA
1 G-AGAAGAAGGA
19893891 TGAAGAGAAC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 23 0.85
22 4 0.15
ACGTcount: A:0.64, C:0.00, G:0.34, T:0.02
Consensus pattern (21 bp):
GAGAAGAAGGAAAAAGAAGAA
Found at i:19893863 original size:18 final size:20
Alignment explanation
Indices: 19893820--19893870 Score: 54
Period size: 18 Copynumber: 2.6 Consensus size: 20
19893810 AAACACAGCT
19893820 GAGAAGGAAGAACTAGAGGA
1 GAGAAGGAAGAACTAGAGGA
19893840 GAAGAAGGAA-AA-T-GAGGAA
1 G-AGAAGGAAGAACTAGAGG-A
*
19893859 GAGAAGAAAGAA
1 GAGAAGGAAGAA
19893871 AAAGAAGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 7
0.77 0.03 0.20
Matches are distributed among these distances:
18 11 0.41
19 5 0.19
20 3 0.11
21 8 0.30
ACGTcount: A:0.57, C:0.02, G:0.37, T:0.04
Consensus pattern (20 bp):
GAGAAGGAAGAACTAGAGGA
Found at i:19900651 original size:20 final size:20
Alignment explanation
Indices: 19900626--19900687 Score: 70
Period size: 20 Copynumber: 3.1 Consensus size: 20
19900616 TTAATAACAT
19900626 TGTATGCACTTCAATGCCCC
1 TGTATGCACTTCAATGCCCC
* **
19900646 TGTATGCACTTCGATAACCC
1 TGTATGCACTTCAATGCCCC
* * *
19900666 TGTATGCAATACCATGCCCC
1 TGTATGCACTTCAATGCCCC
19900686 TG
1 TG
19900688 CATGTGCTTC
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.23, C:0.32, G:0.16, T:0.29
Consensus pattern (20 bp):
TGTATGCACTTCAATGCCCC
Found at i:19909182 original size:18 final size:19
Alignment explanation
Indices: 19909161--19909214 Score: 67
Period size: 18 Copynumber: 2.9 Consensus size: 19
19909151 ATCTTCCTTC
*
19909161 TCTTCATTCTTCTCCTC-T
1 TCTTCCTTCTTCTCCTCAT
*
19909179 TCTTCCTTCTTTTCCTCAT
1 TCTTCCTTCTTCTCCTCAT
*
19909198 T-TTCCTTTTTCTCCTCA
1 TCTTCCTTCTTCTCCTCA
19909215 AGTTTCGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
18 29 0.94
19 2 0.06
ACGTcount: A:0.06, C:0.37, G:0.00, T:0.57
Consensus pattern (19 bp):
TCTTCCTTCTTCTCCTCAT
Found at i:19911421 original size:16 final size:17
Alignment explanation
Indices: 19911400--19911445 Score: 58
Period size: 16 Copynumber: 2.7 Consensus size: 17
19911390 TTATAAAAAA
19911400 TTTCTTTCTTTTTCT-T
1 TTTCTTTCTTTTTCTAT
*
19911416 TTTCTTCCTTTTTCTCAT
1 TTTCTTTCTTTTTCT-AT
*
19911434 TTTGTTTCTTTT
1 TTTCTTTCTTTT
19911446 CAAGTGACTG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
16 14 0.56
18 11 0.44
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (17 bp):
TTTCTTTCTTTTTCTAT
Found at i:19914385 original size:20 final size:21
Alignment explanation
Indices: 19914360--19914398 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
19914350 GCAAGGAATT
19914360 TGAAAC-AACAAAAGTAAAAG
1 TGAAACAAACAAAAGTAAAAG
*
19914380 TGAAACAAATAAAAGTAAA
1 TGAAACAAACAAAAGTAAA
19914399 TAAAAAAATG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.67, C:0.08, G:0.13, T:0.13
Consensus pattern (21 bp):
TGAAACAAACAAAAGTAAAAG
Found at i:19920378 original size:13 final size:14
Alignment explanation
Indices: 19920360--19920389 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
19920350 GTCAATGCAA
19920360 TCAGA-GTTAAATG
1 TCAGAGGTTAAATG
19920373 TCAGAGGTTAAATG
1 TCAGAGGTTAAATG
19920387 TCA
1 TCA
19920390 ATGTACTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.37, C:0.10, G:0.23, T:0.30
Consensus pattern (14 bp):
TCAGAGGTTAAATG
Found at i:19965735 original size:21 final size:21
Alignment explanation
Indices: 19965692--19965745 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
19965682 GGAGTTTTTA
*
19965692 GTATCGGTAGAAGCATGATTT
1 GTATCGGTAGAAGCATGACTT
*
19965713 GTATCGGTAGAAGTTAT-ACTT
1 GTATCGGTAGAAG-CATGACTT
*
19965734 GTATCGATAGAA
1 GTATCGGTAGAA
19965746 CTAGCATAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
21 27 0.93
22 2 0.07
ACGTcount: A:0.31, C:0.09, G:0.26, T:0.33
Consensus pattern (21 bp):
GTATCGGTAGAAGCATGACTT
Found at i:19975141 original size:22 final size:24
Alignment explanation
Indices: 19975113--19975156 Score: 65
Period size: 22 Copynumber: 1.9 Consensus size: 24
19975103 AATTTTGTTA
19975113 ATTTTAACTTA-TAT-TCAAAAAC
1 ATTTTAACTTATTATATCAAAAAC
*
19975135 ATTTTAATTTATTATATCAAAA
1 ATTTTAACTTATTATATCAAAA
19975157 TATTTTATCA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 10 0.53
23 3 0.16
24 6 0.32
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (24 bp):
ATTTTAACTTATTATATCAAAAAC
Found at i:19976927 original size:20 final size:20
Alignment explanation
Indices: 19976902--19976998 Score: 131
Period size: 20 Copynumber: 4.8 Consensus size: 20
19976892 TAATAACATC
*
19976902 GTATGCACTTCGATGCCCTT
1 GTATGCACTTCGGTGCCCTT
**
19976922 GTATGCACTTCAATGCCCTT
1 GTATGCACTTCGGTGCCCTT
* *
19976942 ATATGCACTACGGTGCCCTT
1 GTATGCACTTCGGTGCCCTT
* *
19976962 GTATGCACTACGGTGCCCCT
1 GTATGCACTTCGGTGCCCTT
19976982 GTATGCACTTCGGTGCC
1 GTATGCACTTCGGTGCC
19976999 TCTATTACAT
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 69 1.00
ACGTcount: A:0.16, C:0.31, G:0.22, T:0.31
Consensus pattern (20 bp):
GTATGCACTTCGGTGCCCTT
Found at i:19977153 original size:2 final size:2
Alignment explanation
Indices: 19977146--19977175 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
19977136 GTTATATGTC
*
19977146 TA TA TA TA TA TA TA TA TA TA TG TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19977176 CACTATGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:19989460 original size:16 final size:15
Alignment explanation
Indices: 19989430--19989466 Score: 56
Period size: 16 Copynumber: 2.4 Consensus size: 15
19989420 TTGTATATTT
*
19989430 TATACATTTTTTATA
1 TATACATTTTATATA
19989445 TATACTATTTTATATA
1 TATAC-ATTTTATATA
19989461 TATACA
1 TATACA
19989467 ATCTTATGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 6 0.30
16 14 0.70
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (15 bp):
TATACATTTTATATA
Found at i:19991724 original size:21 final size:21
Alignment explanation
Indices: 19991694--19991747 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
19991684 TCCCCTACAC
19991694 TTCTACCGATACTCTGAAGGG
1 TTCTACCGATACTCTGAAGGG
*
19991715 TTCTATCGATACTCTGAAGGG
1 TTCTACCGATACTCTGAAGGG
19991736 TTCTACCGATAC
1 TTCTACCGATAC
19991748 CAAATGAAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 31 1.00
ACGTcount: A:0.24, C:0.24, G:0.20, T:0.31
Consensus pattern (21 bp):
TTCTACCGATACTCTGAAGGG
Found at i:19993712 original size:49 final size:48
Alignment explanation
Indices: 19993618--19993720 Score: 118
Period size: 49 Copynumber: 2.1 Consensus size: 48
19993608 TTTCCTAGGG
* * *
19993618 TTTTGGGACAATGATGATCAACACCAACTTTATTAGATATTTTTTTTT
1 TTTTGGGACAATGATGATCAACACCAACTTAATCAGATATATTTTTTT
* * * *
19993666 TGTTTGGGACACTGATGATCGACATCAA-TATAATCAGATGTATTTTTTT
1 T-TTTGGGACAATGATGATCAACACCAACT-TAATCAGATATATTTTTTT
19993715 TTTTGG
1 TTTTGG
19993721 TTTTGGGAAA
Statistics
Matches: 46, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
48 7 0.15
49 39 0.85
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.45
Consensus pattern (48 bp):
TTTTGGGACAATGATGATCAACACCAACTTAATCAGATATATTTTTTT
Found at i:19994921 original size:19 final size:18
Alignment explanation
Indices: 19994897--19994940 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
19994887 CTAAATTAAA
*
19994897 TGAATTTTGAAAAACCACC
1 TGAATTTT-AAAAACAACC
19994916 TGAA-TTTAAAAACAACC
1 TGAATTTTAAAAACAACC
*
19994933 TCAATTTT
1 TGAATTTT
19994941 CCTCTTAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
17 12 0.55
18 6 0.27
19 4 0.18
ACGTcount: A:0.43, C:0.18, G:0.07, T:0.32
Consensus pattern (18 bp):
TGAATTTTAAAAACAACC
Found at i:19995439 original size:15 final size:15
Alignment explanation
Indices: 19995419--19995463 Score: 54
Period size: 15 Copynumber: 3.0 Consensus size: 15
19995409 AATGATATTC
*
19995419 ATATTAAATATTTTT
1 ATATTAATTATTTTT
*
19995434 ATATTATTTATTTTT
1 ATATTAATTATTTTT
* *
19995449 AAAATAATTATTTTT
1 ATATTAATTATTTTT
19995464 TAATTGAAAA
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 25 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
ATATTAATTATTTTT
Found at i:20001353 original size:18 final size:18
Alignment explanation
Indices: 20001330--20001381 Score: 86
Period size: 18 Copynumber: 2.9 Consensus size: 18
20001320 AAAATGTAGG
*
20001330 AAATGATGTTAACATTTT
1 AAATGATGTTAACATTTC
*
20001348 AAATGATGTTAACACTTC
1 AAATGATGTTAACATTTC
20001366 AAATGATGTTAACATT
1 AAATGATGTTAACATT
20001382 GATGGAAACG
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 31 1.00
ACGTcount: A:0.40, C:0.10, G:0.12, T:0.38
Consensus pattern (18 bp):
AAATGATGTTAACATTTC
Found at i:20002014 original size:72 final size:71
Alignment explanation
Indices: 20001807--20002203 Score: 587
Period size: 72 Copynumber: 5.5 Consensus size: 71
20001797 AATGTTAAAC
* *
20001807 TAGTTTTATCAATAGTTGTTTATGTTTGATTTTGGATATTGAATTTATGTTCTACTTATTTATGT
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGATATTGAATTTATGTTCTACTTATTTATGT
20001872 GTAATT
66 GTAATT
* * * *
20001878 TAGTTTTATCAATAGTTGTTTATATTTGGTTCTTGAAATTGAATTTATATTCTACTTATTTATGT
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGATATTGAATTTATGTTCTACTTATTTATGT
* *
20001943 GCAATC
66 GTAATT
* *
20001949 TAATTTTATCAATAGTTATTTATGTTTGGTTTTTAGATATTGAATTTATGTTCTACTTATTTATG
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTTTT-GATATTGAATTTATGTTCTACTTATTTATG
20002014 TGTAATT
65 TGTAATT
* *
20002021 TAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGAATATTGAATTTATATTCTACTTATTTATG
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTG-ATATTGAATTTATGTTCTACTTATTTATG
* *
20002086 TGCAATC
65 TGTAATT
* *
20002093 TAATTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTACTTATG
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTTTT-GATATTGAATTTATGTTCTACTTATTTATG
*
20002158 TGTATTT
65 TGTAATT
* * *
20002165 TAGTTTTATCAATAGTTGTTTATATTTGATTTTGGATAT
1 TAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGATAT
20002204 AAAATTTGTT
Statistics
Matches: 290, Mismatches: 33, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
71 99 0.34
72 190 0.66
73 1 0.00
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.55
Consensus pattern (71 bp):
TAGTTTTATCAATAGTTGTTTATGTTTGGTTTTTGATATTGAATTTATGTTCTACTTATTTATGT
GTAATT
Found at i:20002133 original size:144 final size:143
Alignment explanation
Indices: 20001810--20002192 Score: 696
Period size: 144 Copynumber: 2.7 Consensus size: 143
20001800 GTTAAACTAG
*
20001810 TTTTATCAATAGTTGTTTATGTTT-GATTTTGGATATTGAATTTATGTTCTACTTATTTATGTGT
1 TTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTATGTGT
20001874 AATTTAGTTTTATCAATAGTTGTTTATATTTGGTTCTTGAAATTGAATTTATATTCTACTTATTT
66 AATTTAGTTTTATCAATAGTTGTTTATATTTGGTTCTTGAAATTGAATTTATATTCTACTTATTT
20001939 ATGTGCAATCTAA
131 ATGTGCAATCTAA
* *
20001952 TTTTATCAATAGTTATTTATGTTTGGTTTTTAGATATTGAATTTATGTTCTACTTATTTATGTGT
1 TTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTATGTGT
*
20002017 AATTTAGTTTTATCAATAGTTGTTTATGTTTGGTTCTTGAATATTGAATTTATATTCTACTTATT
66 AATTTAGTTTTATCAATAGTTGTTTATATTTGGTTCTTGAA-ATTGAATTTATATTCTACTTATT
20002082 TATGTGCAATCTAA
130 TATGTGCAATCTAA
*
20002096 TTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTACTTATGTGT
1 TTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTATGTGT
*
20002161 ATTTTAGTTTTATCAATAGTTGTTTATATTTG
66 AATTTAGTTTTATCAATAGTTGTTTATATTTG
20002193 ATTTTGGATA
Statistics
Matches: 230, Mismatches: 9, Indels: 2
0.95 0.04 0.01
Matches are distributed among these distances:
142 23 0.10
143 78 0.34
144 129 0.56
ACGTcount: A:0.25, C:0.06, G:0.14, T:0.55
Consensus pattern (143 bp):
TTTTATCAATAGTTGTTTATGTTTGGTTTTTGGATATTGAATTTATGTTCTACTTATTTATGTGT
AATTTAGTTTTATCAATAGTTGTTTATATTTGGTTCTTGAAATTGAATTTATATTCTACTTATTT
ATGTGCAATCTAA
Found at i:20003958 original size:20 final size:21
Alignment explanation
Indices: 20003917--20003959 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
20003907 TATTTAAATA
*
20003917 TAAATATTTTATAATTATATT
1 TAAATATTTTAAAATTATATT
20003938 TAAATA-TTTAAAA-TATAATT
1 TAAATATTTTAAAATTAT-ATT
20003958 TA
1 TA
20003960 TATAATCTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
19 3 0.15
20 11 0.55
21 6 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TAAATATTTTAAAATTATATT
Found at i:20004267 original size:12 final size:13
Alignment explanation
Indices: 20004242--20004267 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
20004232 CTTCTACACC
20004242 ATACTTTTTAAAA
1 ATACTTTTTAAAA
20004255 ATACTTTTTAAAA
1 ATACTTTTTAAAA
20004268 GTGATACTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (13 bp):
ATACTTTTTAAAA
Found at i:20010517 original size:15 final size:15
Alignment explanation
Indices: 20010469--20010605 Score: 57
Period size: 15 Copynumber: 9.1 Consensus size: 15
20010459 ACAAACTCAT
* *
20010469 GAAGTAGCTCCTCAG
1 GAAGTAGCTCATCAA
* * * *
20010484 GAGGTATCCCATCAT
1 GAAGTAGCTCATCAA
20010499 GAAGTAGCTCATCAA
1 GAAGTAGCTCATCAA
* * *
20010514 GAAG-ATTCCCATCAC
1 GAAGTA-GCTCATCAA
* * *
20010529 GATGTTGCTCATCGA
1 GAAGTAGCTCATCAA
*
20010544 GAAGTATC-CGATCAA
1 GAAGTAGCTC-ATCAA
20010559 GAAGTAGCT-AGTCAA
1 GAAGTAGCTCA-TCAA
* * *
20010574 GAAATAGCCCATCAG
1 GAAGTAGCTCATCAA
*
20010589 GAAGAAGCCTC-TCAA
1 GAAGTAG-CTCATCAA
20010604 GA
1 GA
20010606 GGTACCTTCT
Statistics
Matches: 85, Mismatches: 30, Indels: 14
0.66 0.23 0.11
Matches are distributed among these distances:
14 3 0.04
15 79 0.93
16 3 0.04
ACGTcount: A:0.34, C:0.23, G:0.22, T:0.20
Consensus pattern (15 bp):
GAAGTAGCTCATCAA
Found at i:20010524 original size:30 final size:30
Alignment explanation
Indices: 20010465--20010605 Score: 117
Period size: 30 Copynumber: 4.7 Consensus size: 30
20010455 AGGAACAAAC
* * *
20010465 TCATGAAGTAGCTCCTCAGGAGGTATCCCA
1 TCATGAAGTAGCTCATCAAGAAGTATCCCA
20010495 TCATGAAGTAGCTCATCAAGAAG-ATTCCCA
1 TCATGAAGTAGCTCATCAAGAAGTA-TCCCA
* * * * *
20010525 TCACGATGTTGCTCATCGAGAAGTATCCGA
1 TCATGAAGTAGCTCATCAAGAAGTATCCCA
* * *
20010555 TCAAGAAGTAGCT-AGTCAAGAAATAGCCCA
1 TCATGAAGTAGCTCA-TCAAGAAGTATCCCA
* *
20010585 TCAGGAAGAAGCCTC-TCAAGA
1 TCATGAAGTAG-CTCATCAAGA
20010606 GGTACCTTCT
Statistics
Matches: 89, Mismatches: 17, Indels: 10
0.77 0.15 0.09
Matches are distributed among these distances:
29 2 0.02
30 84 0.94
31 3 0.03
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (30 bp):
TCATGAAGTAGCTCATCAAGAAGTATCCCA
Found at i:20011816 original size:20 final size:21
Alignment explanation
Indices: 20011772--20011817 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
20011762 TATTGGTTAC
20011772 ATTTTA-ATATTTAAAATATA
1 ATTTTATATATTTAAAATATA
*
20011792 A-TTTATATATTTAAATTA-A
1 ATTTTATATATTTAAAATATA
20011811 ATTTTAT
1 ATTTTAT
20011818 TAAAAATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
19 6 0.26
20 17 0.74
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (21 bp):
ATTTTATATATTTAAAATATA
Found at i:20016301 original size:216 final size:217
Alignment explanation
Indices: 20015924--20017255 Score: 1438
Period size: 216 Copynumber: 6.2 Consensus size: 217
20015914 TTGACATTTA
***
20015924 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTAA
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCG
* *
20015989 AACTTATCAAACTTTTACGAGTTCTTTTATAACTT-TGCTTCCATAAAGTATTCAAG-TCGAT-T
66 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCTGCTTCCTTAAAGTATTCAAGAT-GATCT
* * * * *
20016051 CATTCCTTCGGGCAATTTTCCGAACATTCCATGCTCGGGAAATTGCATCATTTGGTCTAAATATT
130 -ATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGT
* * *
20016116 TTGTCATTATGTAAAAAACG-TTTA
194 TTGTCATTTTGTAAACAA-GTTTTG
* * * * * * *
20016140 GTTTTTGAATTAAAAACTTAGTTACGTGATAATTATTTCTATCTTTGTTCTTGTA-GTAACTTCC
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACG-AACTTCC
* * *
20016204 AAACTTGTCAAACTTTTACAAGTTCTTTTATAACTTCTG-TT-GTATAAAGTATTCAAGATGATC
65 GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCTGCTTCCT-TAAAGTATTCAAGATGATC
* * * * * * *
20016267 TATTCCATCAAGCAATATTCTGAACATTCCATGCTCGAGAAATCGTACCATTTGGTCAAAACAGT
129 TATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGT
*
20016332 TTGTCAATTTGTAAACAAGTTTTG
194 TTGTCATTTTGTAAACAAGTTTTG
* * * *
20016356 GTCTTTGAATTAAAATCTTATTAACGTGAGAATTGTTTCTCTCTTGGTTCATGGATGAACTAT-C
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACT-TCC
* * *
20016420 GAACTTGTCAAACTTTTACGAGTTCCTTTATAGCTT-TGGTTCCTTAATGTATTCACGTATTCAC
65 GAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCTGCTTCCTT-A---A---A-GTATTCA-
* * * * * *
20016484 A-ATGATCCATCCCTTCGTGCAATTTTCGGAAC--T--ATGCTCAAGAAATCGCATCATTTTGTC
121 AGATGATCTATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTC
20016544 TAAATAGTTTGTCATTTTGTAAACAAGTTTTG
186 TAAATAGTTTGTCATTTTGTAAACAAGTTTTG
* * * * *
20016576 GCCTTTGAATTAAAAACTTATTTCCGTGAAAATTGTCTCTCTCTTGGTTCGTGGACGAACTTCCG
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCG
* * * * *
20016641 CACTTGTCAAAATTTTACGAGTTCTTTTATAACTTC-GCTTCCTTAAACTATTCAAGACGATCCA
66 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCTGCTTCCTTAAAGTATTCAAGATGATCTA
** * * *
20016705 TTTTTTCGAGAAAATTTT-TCGAACATTTCATGCTCG-GAAGATCGCATCATTTAGTCTAAATAG
131 TTCCTTCGAG-CAATTTTCT-GAACATTCCATGCTCGAGAA-ATCGCATCATTTGGTCTAAATAG
**
20016768 TTTGTCATTTTGTAAACAAGTCATG
193 TTTGTCATTTTGTAAACAAGTTTTG
* * * *
20016793 GTCTTTAAATTAAAAAGTTATTTACGTGAGAATTGTTTCTCTCGTGGTT-TTTGACGAACTTCCG
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCG
* * ** * *
20016857 AACTTGTCAAAGTTTTACAAGTTCTTTTATAACTTC-AATTCCTTAAAGTATTCAAGA-CAGTCA
66 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCTGCTTCCTTAAAGTATTCAAGATGA-TCT
* * *
20016920 ATTCCTTCGAGCAATTTTCTGAACAATCCAAGCTCGAGAAATCGCGTCATTTGGTCTAAATAGTT
130 ATTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTT
*
20016985 TGTCATTTTAT-AACAAAGTTTTG
195 TGTCATTTTGTAAAC-AAGTTTTG
* * * * * * *
20017008 GTCTTTTAA-TAAAAACTTATTTACATAAGAATTATTTTTCTCTTGGTTCTTGGACTAACGTCCG
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCG
* * * *
20017072 CACTTGTTAAACTTTTACGAGTTCATTTATAACTTC-G-TTCCTTAAAGTATTCAAGACT-ATTT
66 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCTGCTTCCTTAAAGTATTCAAGA-TGATCT
* * * *
20017134 ATTCCTTCGAGCAATTTT-TCGAACATTCCATGCTCGAAAAATCGCATCATTTGATTTAAACAGT
130 ATTCCTTCGAGCAATTTTCT-GAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGT
* * *
20017198 TTGTCAATTTGTAAAGAAGTTTTA
194 TTGTCATTTTGTAAACAAGTTTTG
*
20017222 GACTTTGAATTAAAAACTTATTTACGTGAGAATT
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATT
20017256 TGGTAAGGTA
Statistics
Matches: 933, Mismatches: 144, Indels: 79
0.81 0.12 0.07
Matches are distributed among these distances:
211 1 0.00
212 19 0.02
213 12 0.01
214 135 0.14
215 140 0.15
216 343 0.37
217 101 0.11
219 2 0.00
220 146 0.16
222 1 0.00
223 1 0.00
224 31 0.03
225 1 0.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (217 bp):
GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCG
AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCTGCTTCCTTAAAGTATTCAAGATGATCTA
TTCCTTCGAGCAATTTTCTGAACATTCCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTT
GTCATTTTGTAAACAAGTTTTG
Found at i:20016910 original size:436 final size:427
Alignment explanation
Indices: 20015924--20017255 Score: 1520
Period size: 436 Copynumber: 3.1 Consensus size: 427
20015914 TTGACATTTA
**
20015924 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTTAA
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAAC-TTCG
* * * *
20015989 AACTTATCAAACTTTTACGAGTTCTTTTATAACTTTGCTTCCATAAAGTATTCAAGT-C-GATTC
65 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGATTCCTTAAAGTATTCAA-TACAGATCC
* * * *
20016052 ATTCCTTCGGGCAATTTTCCGAACATTCCATGCTCGGGAAATTGCATCATTTGGTCTAAATATTT
129 ATTCCTTCGAGCAATTTTCCGAACA-T-CATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTT
* * * * * * *
20016117 TGTCATTATGTAAAAAACG-TTTAGTTTTTGAATTAAAAACTTAGTTACGTGATAATTATTTCTA
192 TGTCATTTTGTAAACAA-GTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAAAATTATTTCTC
* * ** *
20016181 TCTTTGTTCTTGTA-GTAACTTCCAAACTTGTCAAACTTTTACAAGTTCTTTTATAACTTCTGTT
256 TCTTGGTTCTTGGACG-AACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAACTTC-GTT
* * * * *
20016245 -GTATAAAGTATTCAAGATGATCTATTCCATCAAGCAA-TATTCTGAACATTCCATGCTCGAGAA
319 CCT-TAAAGTATTCAAGACGATCTATTCCTTCGAGCAATTTTTC-GAACATTCCATGCTCG-GAA
* * *
20016308 ATCGTACCATTTGGTCAAAACAGTTTGTCAATTTGTAAACAAGTTTTG
381 ATCGCATCATTT-GTCTAAACAGTTTGTCAATTTGTAAACAAGTTTTG
* * * *
20016356 GTCTTTGAATTAAAATCTTATTAACGTGAGAATTGTTTCTCTCTTGGTTCATGGATGAACTATCG
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACT-TCG
* * * *
20016421 AACTTGTCAAACTTTTACGAGTTCCTTTATAGCTTTGGTTCCTTAATGTATTCACGTATTCACAA
65 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGATTCCTTAAAGTATTCA---A-T-AC-A
* * * * *
20016486 TGATCCATCCCTTCGTGCAATTTTCGGAAC-T-ATGCTCAAGAAATCGCATCATTTTGTCTAAAT
124 -GATCCATTCCTTCGAGCAATTTTCCGAACATCATGCTCGAGAAATCGCATCATTTGGTCTAAAT
* * * *
20016549 AGTTTGTCATTTTGTAAACAAGTTTTGGCCTTTGAATTAAAAACTTATTTCCGTGAAAATTGTCT
188 AGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAAAATTATTT
* *
20016614 CTCTCTTGGTTCGTGGACGAACTTCCGCACTTGTCAAAATTTTACGAGTTCTTTTATAACTTCGC
253 CTCTCTTGGTTCTTGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCG-
* * ** * *
20016679 TTCCTTAAACTATTCAAGACGATCCATTTTTTCGAGAAAATTTTTCGAACATTTCATGCTCGGAA
317 TTCCTTAAAGTATTCAAGACGATCTATTCCTTCGAG-CAATTTTTCGAACATTCCATGCTCGGAA
* * **
20016744 GATCGCATCATTTAGTCTAAATAGTTTGTCATTTTGTAAACAAGTCATG
381 -ATCGCATCATTT-GTCTAAACAGTTTGTCAATTTGTAAACAAGTTTTG
* * * *
20016793 GTCTTTAAATTAAAAAGTTATTTACGTGAGAATTGTTTCTCTCGTGGTT-TTTGACGAACTTCCG
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTT-CG
* * ** * *
20016857 AACTTGTCAAAGTTTTACAAGTTCTTTTATAACTTCAATTCCTTAAAGTATTCAAGACAG-TCAA
65 AACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGATTCCTTAAAGTATTCAATACAGATCCA
* * *
20016921 TTCCTTCGAGCAATTTTCTGAACAATCCAAGCTCGAGAAATCGCGTCATTTGGTCTAAATAGTTT
130 TTCCTTCGAGCAATTTTCCGAAC-AT-CATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTT
* * * *
20016986 GTCATTTTAT-AACAAAGTTTTGGTCTTTTAA-TAAAAACTTATTTACAT-AAGAATTATTTTTC
193 GTCATTTTGTAAAC-AAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAA-AATTATTTCTC
* * * *
20017048 TCTTGGTTCTTGGACTAACGTCCGCACTTGTTAAACTTTTACGAGTTCATTTATAACTTCGTTCC
256 TCTTGGTTCTTGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGTTCC
* * *
20017113 TTAAAGTATTCAAGACTATTTATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGAAAAATCG
321 TTAAAGTATTCAAGACGATCTATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCG-GAAATCG
* * *
20017178 CATCATTTGATTTAAACAGTTTGTCAATTTGTAAAGAAGTTTTA
385 CATCATTTG-TCTAAACAGTTTGTCAATTTGTAAACAAGTTTTG
*
20017222 GACTTTGAATTAAAAACTTATTTACGTGAGAATT
1 GTCTTTGAATTAAAAACTTATTTACGTGAGAATT
20017256 TGGTAAGGTA
Statistics
Matches: 758, Mismatches: 117, Indels: 53
0.82 0.13 0.06
Matches are distributed among these distances:
428 24 0.03
429 94 0.12
430 36 0.05
431 84 0.11
432 162 0.21
433 1 0.00
435 5 0.01
436 218 0.29
437 104 0.14
438 5 0.01
440 25 0.03
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (427 bp):
GTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCGA
ACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGATTCCTTAAAGTATTCAATACAGATCCAT
TCCTTCGAGCAATTTTCCGAACATCATGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTTGTC
ATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAAAATTATTTCTCTCTTG
GTTCTTGGACGAACTTCCGCACTTGTCAAACTTTTACGAGTTCTTTTATAACTTCGTTCCTTAAA
GTATTCAAGACGATCTATTCCTTCGAGCAATTTTTCGAACATTCCATGCTCGGAAATCGCATCAT
TTGTCTAAACAGTTTGTCAATTTGTAAACAAGTTTTG
Found at i:20017809 original size:21 final size:20
Alignment explanation
Indices: 20017791--20017855 Score: 69
Period size: 21 Copynumber: 3.2 Consensus size: 20
20017781 TGATAATAAG
*
20017791 AGAAAATGAGTGAAAAATAAA
1 AGAAAATGAGAGAAAAA-AAA
**
20017812 AGAATTTGAGAGAAGAAAAAA
1 AGAAAATGAGAGAA-AAAAAA
*
20017833 AG-AAATGAGAGAAAAAAAG
1 AGAAAATGAGAGAAAAAAAA
20017852 AGAA
1 AGAA
20017856 GAGTTGTTGA
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
19 7 0.19
20 10 0.28
21 16 0.44
22 3 0.08
ACGTcount: A:0.66, C:0.00, G:0.23, T:0.11
Consensus pattern (20 bp):
AGAAAATGAGAGAAAAAAAA
Found at i:20017858 original size:15 final size:16
Alignment explanation
Indices: 20017820--20017858 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 16
20017810 AAAGAATTTG
20017820 AGAGAAGAAAAAAAGAA
1 AGAG-AGAAAAAAAGAA
20017837 ATGAGAGAAAAAAAGAGA
1 A-GAGAGAAAAAAAGA-A
20017855 AGAG
1 AGAG
20017859 TTGTTGATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
17 15 0.75
18 5 0.25
ACGTcount: A:0.69, C:0.00, G:0.28, T:0.03
Consensus pattern (16 bp):
AGAGAGAAAAAAAGAA
Found at i:20017902 original size:79 final size:81
Alignment explanation
Indices: 20017762--20017909 Score: 201
Period size: 79 Copynumber: 1.9 Consensus size: 81
20017752 GGAAGCAAAA
* *
20017762 AGAAAAGAAAGACAAGAGTTGATAATAAGAGAAAATGAGTGAAAAATAAAAGAATTTGAGA-GAA
1 AGAAAAGAAAGACAAGAGTTGATAATAAGAGAAAATGAGAGAAAAATAAAAGAATTGGAGAGGAA
20017826 GAAAAAAAGAAATGAG
66 GAAAAAAAGAAATGAG
* * * * * * *
20017842 AGAAAA-AAAGAGAAGAGTTGTTGATAAGAGAAAATGAGAGAAAATTCAACGAGTTGGAGAGGAA
1 AGAAAAGAAAGACAAGAGTTGATAATAAGAGAAAATGAGAGAAAAATAAAAGAATTGGAGAGGAA
20017906 GAAA
66 GAAA
20017910 CAAGAATTGT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
79 45 0.78
80 13 0.22
ACGTcount: A:0.57, C:0.02, G:0.26, T:0.14
Consensus pattern (81 bp):
AGAAAAGAAAGACAAGAGTTGATAATAAGAGAAAATGAGAGAAAAATAAAAGAATTGGAGAGGAA
GAAAAAAAGAAATGAG
Found at i:20017996 original size:15 final size:14
Alignment explanation
Indices: 20017977--20018026 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
20017967 GTGAGGAAAA
20017977 AGAAAGTGAGAGTG
1 AGAAAGTGAGAGTG
*
20017991 ATGAAAGTGTGAGTG
1 A-GAAAGTGAGAGTG
* *
20018006 AAGAGATTGAGAGTG
1 -AGAAAGTGAGAGTG
20018021 AGAAAG
1 AGAAAG
20018027 AACTCGAAAT
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
14 5 0.18
15 22 0.79
16 1 0.04
ACGTcount: A:0.42, C:0.00, G:0.40, T:0.18
Consensus pattern (14 bp):
AGAAAGTGAGAGTG
Found at i:20022424 original size:216 final size:215
Alignment explanation
Indices: 20022015--20026714 Score: 5447
Period size: 216 Copynumber: 21.9 Consensus size: 215
20022005 AGCTCGCATC
* * * * *
20022015 AAGTATTCAAGAAGATCCATTCCTACGAGCAATTTTTTGAACATTACATGATTGGGAAATCGCAT
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* *
20022080 CATTTGGTCTAAATAGTTTGTCATTTTCTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTA
66 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * *
20022145 CGTGAGAATT-TTCTCTCTCTTGGTTCATGGACGAACTTTCGAACTTGTCAAAATTTAACGAGTT
131 CGTGAGAATTGTT-TCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTT
*
20022209 CTTTTATAACTTCGCTTCCTAA
195 CTTTTATAACTTCG-TTCCTTA
* * ** * * *
20022231 AAGCATTCAAGATGATCCATTCCTTTAAGAAATTTTTTGAACATTCCATGCTCAGGAAATCACAT
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* *
20022296 CATTTGGTCTAAATAGTTTGTCATTTCGTAAACAAGTTTTGGTCTTTGAATTAAAAACTAATTTA
66 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA
** * * *
20022361 CGTGAGAATTGTTTCTCTCTTTATTCTTGGATGAACTTCCAAACTTATCAAACTTTTACGAGTTA
131 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTC
* *
20022426 TTTTTTAACTTCGGCTCCTTA
196 TTTTATAACTTC-GTTCCTTA
* ** * *
20022447 AAGTATTCAAGAAGATCCATTCCTTCGAGCAATTTTTCAAACATTCCATGCTCGAGAAATCACAT
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* *
20022512 CATTTGGTCTAAAT-GATTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTGATTT
66 CATTTGGTCTAAATAG-TTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTT
* * *
20022576 AAGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCAGAACTTTTCAAACTTTTACGAGTT
130 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTT
20022641 CTTTTATAACTTCGCTTCCTTA
195 CTTTTATAACTTCG-TTCCTTA
* *
20022663 AAGTATTCAAGACGAT-CATTCCTTCGAGCAA-TTTTTGAACATTCCATGCTTGGGAAATCGTAT
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* * * * *
20022726 CATTTGGTCTAAATAGTTTGTCATTATGTAAAAAACTTTTAGTCTTTGAATTAAAAACTTAGTTA
66 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA
* *
20022791 CGTGAGAATTGTTTCTATCTTGGTTCTTGGA-GTAACTTCCAAACTTGTCAAACTTTTACGAGTT
131 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGATG-AACTTCCGAACTTGTCAAACTTTTACGAGTT
*
20022855 -TTTTATAACTTCTGTT-GTATA
195 CTTTTATAACTTC-GTTCCT-TA
* * * * *** * * *
20022876 AAGTATTAAAGAGGATCTATTCCATT-GAGCAACTTTCCAAACATTCCATGCTAGAGAAATCGTA
1 AAGTATTCAAGACGATCCATTCC-TTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCA
* * * * * * * * * * *
20022940 CCATTTGGTCGAAACAATTTGTTAATTTGTAAACAGGTTTTGGTCTTTTAATTAAAATCTTACTA
65 TCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTT
* * ** * *
20023005 ACGTGAGAATTGTTT-TCTCTTGGTTCATAGATGAACTTTTGAACTCGTCAAACTTTTGCGAGTT
130 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTT
* *
20023069 CTTTTATAACTTTGGATCCTTA
195 CTTTTATAAC-TTCGTTCCTTA
* * * * * * * *
20023091 ACGTATTCAACATGATCAATTCCTTCGTGCAATTTTCT-AA-A--CCATGCTCGAGAAATCGCAG
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* * * * *
20023152 CCTCTGGTCTAAATATTTTGTCATTTTGTAAACAAGTTTTGGGCTTTGAATTAAAACCTTATTGT
66 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATT-T
* * **
20023217 -CGTGAGAATTGTTTCTCTCTTGGTTCATGGACGAACTTCC-ATACTTGTCAAACACTTACGAGT
130 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGA-ACTTGTCAAACTTTTACGAGT
*
20023280 TCTTTTATAACTTCTCTTCCTTA
194 TCTTTTATAACTTC-GTTCCTTA
* * * * * * *
20023303 AAGTTTTCAAGATGCTCCATTCTTTCAAGCAATTTTTCGAACATTCCATGCTCGAGAAATCGCAT
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* * * *
20023368 CAATTT-TTCTGAATAGTTTCTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTT
66 C-ATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTT
* * *
20023432 ACATGAGAATTGTTTCTCTATTGGTTCTTGGATGAAATT-CGAACTTGTCAAACTTTTACGAGTT
130 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTT
* *
20023496 CTTTTATAACTTATGTTGCTTA
195 CTTTTATAACTT-CGTTCCTTA
* * * * ** * * *
20023518 AAGTATTCAAGATGATCTATTCCATCGAGTAA-TTTCCGAATATTCCATTCTCGGGAAATCACAT
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* * * * * * * *
20023582 CATTTGGTCTAAACAGTTTTTCAATTTGTAAACAAGTTATGGTATTTAAATTAAAATCTTATTAA
66 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * *
20023647 CCTGAG-ATTGTTTCTCTATTGGTTCATGGATGAACTTTCGAACTTGCCAAACTTTTACGAGTTC
131 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTC
* *
20023711 TTTTATAGCCTTTTGGTTCCTTA
196 TTTTATA-AC--TTCGTTCCTTA
* * * * * *
20023734 ACGTATTCAAGTCGATCCACTCCTTCAAGC-ATTTTTCTGAA-ATTTCATGCTCGGGAAATCACA
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTT-TGAACATTCCATGCTCGGGAAATCGCA
* *
20023797 TCATTTGATCTAAATAG-TTGTCATTTTGTAAACAAGTTTTGGTCTTTTAATTAAAAACTTATTT
65 TCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTT
* * * * **
20023861 CCGTGAGAATTGTTTCTCTCTTGGTTCTTGGACGAACTTCCGCACTTTTCAAACTTGCACGAGTT
130 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTT
* *
20023926 CTTATATAACTTTGGTTCCTTA
195 CTTTTATAAC-TTCGTTCCTTA
* *
20023948 AAGTATTCAAGACGATCAATTCCTTTCGAGCAATTTTTTGAACATTCCATGCTCAGGAAATCGCA
1 AAGTATTCAAGACGATCCATTCC-TTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCA
* * * * * *
20024013 TCATTTAGCCTAAATAGTTTATCATTTTGTAAAAAAGTTTTAGTCTTTGAACTAAAAACTTATTT
65 TCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTT
* * * * * *
20024078 ACGTGTGAACTATTTCTCTCTTGGTTCTTGGACGAACTTCTGAACTCGTCAAACTTTTACGAGTT
130 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTT
20024143 CTTTTATAACTTCGGTTCCTTA
195 CTTTTATAACTTC-GTTCCTTA
* * * * *
20024165 AAGTATTCAAGACGATCTATTCCTTTGAGCAATTTTCTGAACATTCCAAGCTCGAGAAATCGCAT
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* * * * * *
20024230 CATTTAGTTTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCATTAAACTAAAAACTTTTTTT
66 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAAC-TTATTT
* * * * * *
20024295 ACGTGAGAATTGTTTCTCTCTTTGTTCTTGGACGAACTTTCGAACTTTTCAAACTATTACAAGTT
130 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTT
*
20024360 ACTTTT-TAACTTCAGATCCTTA
195 -CTTTTATAACTTC-GTTCCTTA
* * * * * * *
20024382 AACTTTTCAAGAAGATCCATTCCTACAAGCAATTTTTTGAACATTACATGCTCGGGAAATCACAT
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* *
20024447 CATTTGGTCTAAATAGTTTGTCATTTTGTAAATAAGTTTTAGTCTTTGAATTAAAAACTTATTTA
66 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * * *
20024512 CTTGAAAATTGTTTTTCTCTTGGTTCTTGGATGAAATT-CAAACTTGTCAAAATTTTACGAGTTC
131 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTC
*
20024576 TTTTATAACTTCTGTTGCTTA
196 TTTTATAACTTC-GTTCCTTA
* ** * *
20024597 AATTATTCAAGACGATATATTCCATCAAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* * * * *
20024662 CATTTGGTCTAAACATTTTGTCAATTTGTAAACAAGTTTTGGTCTTTGAATTAAAATCTTATTAA
66 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * ** **
20024727 CCTGAGAATTGTTTATCTCTTGGTTCATGGACGAACTTCCGAACTCATCAAACTTTTACGTCTTC
131 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTC
*
20024792 TTTTATAACTCCAGTTCCTTA
196 TTTTATAACTTC-GTTCCTTA
* * * *
20024813 AAGTATTCAAGACGATCCATTCCTCCGAGCAAGTTTTCGAACATTCCATGCTTGGGAAATCGCAT
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* * *
20024878 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACTAGTTTTGGTCTTTAAATTTAAAAC----TTA
66 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * *
20024939 CTTGAGAATTGCTTCTCTCTTTGTTCTTGGATGAACTTCCAAACTTGTGAAACTTTTACGAGTTC
131 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTC
*
20025004 TTTTATAACTTCGGATCCTTA
196 TTTTATAACTTC-GTTCCTTA
** * * * *
20025025 AAGTATTCAAGAAAATCCATTCCTTCGAGAAATTTTCCT-AACATTCCATGCACGAGAAATCGCA
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTT-TTGAACATTCCATGCTCGGGAAATCGCA
* * * *
20025089 TCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGCTTTAGACTTTGAATTAAGAACTTATTT
65 TCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTT
* * *
20025154 ACGTGAGAATTGTTTCTCTCTTGATTCATGGACGAACTTCC-ATACTTGTCAAACTTTTACGAGT
130 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGA-ACTTGTCAAACTTTTACGAGT
* *
20025218 TAC-TTT-TAACTTCACTTCTTTA
194 T-CTTTTATAACTTC-GTTCCTTA
* * * * *
20025240 AAGCATTCAAGACGATCCATTCCTTCGAGCAATTTTCTGAACATTCCAAGCTAGGGAAATCGTAT
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* * *
20025305 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAATTTTGGACTATGAATTAAAAACTTATTTA
66 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * * * * *
20025370 TGTGAGAATTGTTTCTTTATTTGTTCTTGGATGAACTTTCAAACTTGTCAGACTTTTACGAGTTA
131 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTC
*
20025435 TTTTTTAACTTCGGTTCCTTA
196 TTTTATAACTTC-GTTCCTTA
* * * * * *
20025456 AAGTATTCAAAAAGATCCACTCCTTTGAGTAATTTTCTT-AACATTCCATGCTAGGGAAATCGCA
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTT-TTGAACATTCCATGCTCGGGAAATCGCA
* * * *
20025520 TCATTTGGTCTAAATAATTTGTAATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAATTTATTT
65 TCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTT
* **
20025585 ACGTGAGAATTATTTCTCTCTTGGTTCTTGGGCGAACTTCCGAACTTGTCAAACTTTTACGAGTT
130 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTT
20025650 CTTTTATAACTTCGCTTCCTTA
195 CTTTTATAACTTCG-TTCCTTA
* * * *
20025672 AAGTATTCAAGACGATCCATTCCTTCGAGTAATTTTTCGAACATTCCATGCTCGAGAAATCACAT
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* * * * *
20025737 CATTTGGTCTAAATAGTTTGTCATTATGTAAAAAACTTTTAGTCTTTGAATTAAAAACTTAGTTA
66 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * *
20025802 CGTGAGAATTGTTTTTATCTTGGTTCTTGGATTAACTTTCAAACTTGTCAAACTTTTACGAGTTC
131 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTC
* *
20025867 TTTTATAACTTCTGTTGCATA
196 TTTTATAACTTC-GTTCCTTA
* * * * * * * * *
20025888 AAGTATACAAGACGATCTATTCCATCGAGCAACTTTTCGAGCATTCCATGCTTGAGAAATCGTAT
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* * * * *
20025953 CATTTGGTCGAAACAGTTTGTCAATTTGTAAACAAGTTTTGGTCTTTGAATTAAAATCTTATTAA
66 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA
* * ** ** * *
20026018 AGTGAGAATTGTTTCTCTCTTGTTTCACGGATGAACTTTTGAACTTGTCAAAATTTTACGTGTTC
131 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTC
*
20026083 TTTTATAACTTTGGTT-CTTA
196 TTTTATAAC-TTCGTTCCTTA
* * **
20026103 ACA-TATTCAAGACGATCCATTTCTTCGTGCAATTTTCAG-A-A--CCATGCTCGGGAAATCGCA
1 A-AGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCA
* * * * *
20026163 TCCTTTGGTCTAAATAGTTTGTCATTTTGTAAACATGTTTTGGCCTTTGAATAAAAAATTTATTT
65 TCATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTT
* * * * * * * *
20026228 CCATAAGAATTGTTTCTTTCTTGGTTCGTGAATGAACTTCCGCACTTGTCAAACTCTTACGAGTT
130 ACGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTT
20026293 CTTTTATAACTTCGTTCCTTA
195 CTTTTATAACTTCGTTCCTTA
* * *
20026314 AAGTATTCAAGACGATCCATTCTTTCGAGCAATTTTTCGATCATTCCATGCTCGGGAAATCGCAT
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* * *
20026379 CATTTAGTC----TAGTTTGTCATTTTGTAAACAAGTCTTGGTCTTTGAATTAGAAACTTATTTA
66 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA
* * * * *
20026440 CTTGAGAATTGTGTCTCTCTTGGTTCTTTGACGAACTTCCGAACTTGTCAAACATTTTACAAGTT
131 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAAC-TTTTACGAGTT
**
20026505 CTTTTATAACTTCAAATCCTTA
195 CTTTTATAACTTC-GTTCCTTA
* * * * * * *
20026527 AAGT-TTTAAGGCGATCCATTCCTTCGAGCAATTTTCTGAACATTCCAAGCTTGAGAAATTGCAT
1 AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
* * * * *
20026591 CATTTGGTCTAAATAGTTCGTCATTTTTTAAAAAAGTTTTGGTCTTTTAAATAAAAACTTATTTA
66 CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA
* ** * * * *
20026656 CATGAGAATTGTTTAGCTCTTGGTTCTTGGACGAACTTTCGCACTTGTTAAACTTTTAC
131 CGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTAC
20026715 AAGAATATTG
Statistics
Matches: 3797, Mismatches: 613, Indels: 149
0.83 0.13 0.03
Matches are distributed among these distances:
210 6 0.00
211 341 0.09
212 342 0.09
213 79 0.02
214 348 0.09
215 703 0.19
216 1644 0.43
217 329 0.09
218 5 0.00
ACGTcount: A:0.29, C:0.17, G:0.14, T:0.40
Consensus pattern (215 bp):
AAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCATGCTCGGGAAATCGCAT
CATTTGGTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTA
CGTGAGAATTGTTTCTCTCTTGGTTCTTGGATGAACTTCCGAACTTGTCAAACTTTTACGAGTTC
TTTTATAACTTCGTTCCTTA
Found at i:20029136 original size:631 final size:633
Alignment explanation
Indices: 20027870--20030018 Score: 2610
Period size: 641 Copynumber: 3.4 Consensus size: 633
20027860 TTCTAACTCA
* * * * *
20027870 TCAAACTTTTATGAGTTCTTTGATAAC--TTTGGTTCCTTAACGTATTCAATACGATCCATTCCT
1 TCAAACTTTTACGAGTTCTTTTATAACTTTTTGGTTCCTTAACATATTCAAGAAGATCCATTCCT
* * * * * *
20027933 TTGTGTAATTTTCTGAACCATGCTCGGGAAATCGCATCCTTTGGTCTAAATAGTTTTTCATTTTG
66 TCGTGCAATTTTCCGAACCATGCACGGAAAATCGCATCCTTTGGTCTAAATAGTTTGTCATTTTG
* * *
20027998 TAAACAAGTTTT-GTCTTTGAATTCAAACCTTATTTCTGTGAGAATTATATCTCTCTTGGTTCAT
131 TAAACAAGTTTTGGTCTTTGAATTCAAACCTTATTTCCGTGAGAATTGTTTCTCTCTTGGTTCAT
*
20028062 GGACGAACTTTCGCATTTGTCAAACTTTAACGAGTTCTTTTATAACTTCTCTTCCTTAAAGTTTT
196 GGACGAACTTTCGCACTTGTCAAACTTT-ACGAGTTCTTTTATAACTTCTCTTCCTTAAAGTTTT
*
20028127 CAAGACGATCCATTCTTTCGAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGG
260 CAAGACGATCCATTCTTTCGAGCAAATTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGG
*
20028192 TCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTATTTGAATTAAAAACTTATTTACGTGAG-
325 TCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACGTGAGA
* * * * *
20028256 A--G--T-TGT-TTATTCTTGGACGAAATTTGAACTAGTCAAACTTTTATGAGTTCTTTTATAAC
390 ATTGTTTCTCTCTTGTTCTTGGACGAAATTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAAC
*** * * * *
20028315 TTCTGTTGGTTAAAGCATTCAATACGATATATTCCATCGAGCAA-TTTCTGAACATTTCATGCTC
455 TTCTGTTTCCTAAAGTATTCAAGACGATCTATTCCATCGAGCAATTTTCTGAACATTCCATGCTC
* * * *
20028379 GGGAAATTGCATCT-TTTGGTCTAAACATTTTGTCAATTTGTAAACAAGTTTTGGTCTTTGAACT
520 GGGAAATCGCAT-TATTTGGTCTAAACAGTTTGTCAATTTGTAAACAAGTTTTGGTCTTTAAATT
* * *
20028443 AAATTCTTATTAACCTGAGAATTG-TT-TCTTGGTTCATGGATGAACTTTCAAACTTC
584 AAAATCTTATTAACATGAGAATTGTTTCTCTTGGTTCATGGATG--------AACTTG
* * *
20028499 TCAAACTTTTACGAGTTCTTATATAGCTTTTTGGTCCCTTAACATATTCAAGAAGATCCATTCCT
1 TCAAACTTTTACGAGTTCTTTTATAACTTTTTGGTTCCTTAACATATTCAAGAAGATCCATTCCT
*
20028564 TCGTGCAATTTTCCGAA-CATGCACGGGAAATCGCATCCTTCT-GTCTAAATAGTTTGTCATTTT
66 TCGTGCAATTTTCCGAACCATGCACGGAAAATCGCATCCTT-TGGTCTAAATAGTTTGTCATTTT
* * *
20028627 GTAAACAAGTTTTAGCCTTTGAATTCAAACCTTATTTCCGTGAGAATTGTTTCTCTCTTGGTTCG
130 GTAAACAAGTTTTGGTCTTTGAATTCAAACCTTATTTCCGTGAGAATTGTTTCTCTCTTGGTTCA
*
20028692 TGGACGAACTTTCGCACTTGTCAAACATTTATGAGTTCTTTTATAACTTCTCTTCCTTAAAGTTT
195 TGGACGAACTTTCGCACTTGTCAAAC-TTTACGAGTTCTTTTATAACTTCTCTTCCTTAAAGTTT
** *
20028757 TCAAGACGATCCATTCTTTCGAGCAAATTTTCGAACATTCCATGCTCGGGAAATCATAT-TTTTG
259 TCAAGACGATCCATTCTTTCGAGCAAATTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTG
20028821 GTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACGTGAG
324 GTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACGTGAG
* * *
20028886 AATTGTTTCTCTCTTGGTTCTTGGACGAAATCCAAACTTGTGAAACTTTTACGAG-T-TTTTATA
389 AATTGTTTCTCTCTT-GTTCTTGGACGAAATTCGAACTTGTCAAACTTTTACGAGTTCTTTTATA
*
20028949 ACTTCTGTTTCCTAGAGTATTCAAGACGATCTATTCCATCGAGCAATTTTCTGAACATTCCATGC
453 ACTTCTGTTTCCTAAAGTATTCAAGACGATCTATTCCATCGAGCAATTTTCTGAACATTCCATGC
** *
20029014 TCGGGAAATCAAATTATTTGGTCTAAACAGTTTGTCAATTTGTAAACAAGTTTTGGTATTTAAAT
518 TCGGGAAATCGCATTATTTGGTCTAAACAGTTTGTCAATTTGTAAACAAGTTTTGGTCTTTAAAT
*
20029079 TAAAATCTTATTAACTTGAGAATTGCTTCTCTCTTGGTTCATGGATGACTTTCAAACTTG
583 TAAAATCTTATTAACATGAGAATTG-TT-TCTCTTGGTTCATGGATG-------AACTTG
* *
20029139 TCAAACTTTTACGAGTTCTTTTATAGCTTTTTGGTTCCTTAACGTATTCAAGAAGATCCATTCCT
1 TCAAACTTTTACGAGTTCTTTTATAACTTTTTGGTTCCTTAACATATTCAAGAAGATCCATTCCT
* ** *
20029204 TCGTGCAATTTTTCGAACCATAAACGGAAAATCGCATCCTTCT-GTCTAAATAGTTTTTCATTTT
66 TCGTGCAATTTTCCGAACCATGCACGGAAAATCGCATCCTT-TGGTCTAAATAGTTTGTCATTTT
* * * *
20029268 GTAAACAAGTTTTGGTCTTTGAATTTAAACCTTATTTCCGTGAGAAATGTTTCTCTCATGGTTCG
130 GTAAACAAGTTTTGGTCTTTGAATTCAAACCTTATTTCCGTGAGAATTGTTTCTCTCTTGGTTCA
* * *
20029333 TGGACGAACTTCCACACTTGTCAAACCTTTACGAGTTTTTTTATAACTTCTCTTCCTTAAAGTTT
195 TGGACGAACTTTCGCACTTGTCAAA-CTTTACGAGTTCTTTTATAACTTCTCTTCCTTAAAGTTT
* * * * *
20029398 TCAAGATGATCCATTCTTTCGAGTAAATTTTCGAATATTCCATGCGCAGGAAATCGCATCATTTG
259 TCAAGACGATCCATTCTTTCGAGCAAATTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTG
* * *
20029463 GTCTAAATAGTTTGTTATTTTGTAAACAAGTTTTAGTCTCTGAATTAATAACTTATTTACGTGAG
324 GTCTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACGTGAG
* * *
20029528 AATTATTTCTCTCTTAGTTCTTGGATGAAATTCGAACTTGTCAAACTTTTACAAGTTCTTTTATA
389 AATTGTTTCTCTCTT-GTTCTTGGACGAAATTCGAACTTGTCAAACTTTTACGAGTTCTTTTATA
* * * * *
20029593 ACTTCAG-TTCCTTAAAGTATTCAAGACGATCCATTCCTTCGAGCAATTTTTTGAACATTCCAAG
453 ACTTCTGTTTCC-TAAAGTATTCAAGACGATCTATTCCATCGAGCAATTTTCTGAACATTCCATG
* * * * * *
20029657 CTCGAGAAATCGCATCATTTGGTCTAAATAGTTCT-TCATTTTGT-AACAAACTTTTGGTCTTTT
517 CTCGGGAAATCGCATTATTTGGTCTAAACAGTT-TGTCAATTTGTAAAC-AAGTTTTGGTCTTTA
* ** * * *
20029720 CATTAAAAAGTTATTTACATGACAATTGTTTATCTCTTGGTTC-TAGGACGAACTTTCGCATTTG
580 AATTAAAATCTTATTAACATGAGAATTG-TT-TCTCTTGGTTCAT-GGATGAA------C--TTG
* * * * * *
20029784 TCAAACTTTTACGAGTGCTTTTATAAC-TTTT-CTTCCTTAA-AGTTTTCAAGACGGTCCATTCT
1 TCAAACTTTTACGAGTTCTTTTATAACTTTTTGGTTCCTTAACA-TATTCAAGAAGATCCATTCC
* * * * * *
20029846 TTCGAGCAATTTTTCGAACATTCCATGCTCGGAAAATCACATCATTTGGTCTAAACAGTTTGTCA
65 TTCGTGCAATTTTCCG-A-A--CCATGCACGGAAAATCGCATCCTTTGGTCTAAATAGTTTGTCA
* * * * * ** * *
20029911 ATTTGTAAAAAAGTTTTGGTAC-TTAAATTAAAATCTTATTAACTTGAGAATTGTTCCTCTCTTG
126 TTTTGTAAACAAGTTTTGGT-CTTTGAATTCAAACCTTATTTCCGTGAGAATTGTTTCTCTCTTG
*
20029975 GTTCATGGATGAACTTTCG-ACCTTGTCAAACTTTTACGAGTTCT
190 GTTCATGGACGAACTTTCGCA-CTTGTCAAAC-TTTACGAGTTCT
20030019 CCATCTTTCT
Statistics
Matches: 1333, Mismatches: 142, Indels: 72
0.86 0.09 0.05
Matches are distributed among these distances:
629 23 0.02
630 123 0.09
631 209 0.16
632 3 0.00
633 1 0.00
635 1 0.00
636 49 0.04
637 101 0.08
638 32 0.02
639 1 0.00
640 91 0.07
641 229 0.17
642 115 0.09
643 49 0.04
644 152 0.11
645 30 0.02
646 3 0.00
647 120 0.09
648 1 0.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.41
Consensus pattern (633 bp):
TCAAACTTTTACGAGTTCTTTTATAACTTTTTGGTTCCTTAACATATTCAAGAAGATCCATTCCT
TCGTGCAATTTTCCGAACCATGCACGGAAAATCGCATCCTTTGGTCTAAATAGTTTGTCATTTTG
TAAACAAGTTTTGGTCTTTGAATTCAAACCTTATTTCCGTGAGAATTGTTTCTCTCTTGGTTCAT
GGACGAACTTTCGCACTTGTCAAACTTTACGAGTTCTTTTATAACTTCTCTTCCTTAAAGTTTTC
AAGACGATCCATTCTTTCGAGCAAATTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGT
CTAAATAGTTTGTCATTTTGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACGTGAGAA
TTGTTTCTCTCTTGTTCTTGGACGAAATTCGAACTTGTCAAACTTTTACGAGTTCTTTTATAACT
TCTGTTTCCTAAAGTATTCAAGACGATCTATTCCATCGAGCAATTTTCTGAACATTCCATGCTCG
GGAAATCGCATTATTTGGTCTAAACAGTTTGTCAATTTGTAAACAAGTTTTGGTCTTTAAATTAA
AATCTTATTAACATGAGAATTGTTTCTCTTGGTTCATGGATGAACTTG
Found at i:20029487 original size:216 final size:216
Alignment explanation
Indices: 20027870--20030018 Score: 2267
Period size: 216 Copynumber: 10.1 Consensus size: 216
20027860 TTCTAACTCA
* * * * *
20027870 TCAAACTTTTATGAGTTCTTTGATAACTT-TGGTTCCTTAACGTATTCAATACGATCCATTCCTT
1 TCAAACTTTTACGAGTTCTTTTATAACTTCT-CTTCCTTAAAGTATTCAAGACGATCCATTCCTT
* * * * *
20027934 TGTG-TAATTTTCTG-A-A--CCATGCTCGGGAAATCGCATCCTTTGGTCTAAATAGTTTTTCAT
65 CGAGCAAATTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCAT
* * * *
20027994 TTTGTAAACAAGTTTT-GTCTTTGAATTCAAACCTTATTT-CTGTGAGAATTATATCTCTCTTGG
129 TTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTAC-GTGAGAATTGTTTCTCTCTTGG
* *
20028057 TTCATGGACGAACTTTCGCATTTG
193 TTCATGGACGAACTTTCACACTTG
* * *
20028081 TCAAACTTTAACGAGTTCTTTTATAACTTCTCTTCCTTAAAGTTTTCAAGACGATCCATTCTTTC
1 TCAAACTTTTACGAGTTCTTTTATAACTTCTCTTCCTTAAAGTATTCAAGACGATCCATTCCTTC
*
20028146 GAGCAATTTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTT
66 GAGCAAATTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTT
* * * *
20028211 TGTAAACAAGTTTTAGTATTTGAATTAAAAACTTATTTACGTGAGAGTTGTTTAT-TC-----T-
131 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * *
20028269 -TGGACGAAATTTGA-ACTAG
196 ATGGACGAACTTTCACACTTG
* * ** * * ** *
20028288 TCAAACTTTTATGAGTTCTTTTATAACTTCTGTTGGTTAAAGCATTCAATACGATATATTCCATC
1 TCAAACTTTTACGAGTTCTTTTATAACTTCTCTTCCTTAAAGTATTCAAGACGATCCATTCCTTC
* * * * * *
20028353 GAGC-AA-TTTCTGAACATTTCATGCTCGGGAAATTGCATCTTTTGGTCTAAACATTTTGTCAAT
66 GAGCAAATTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATT
* ** * *
20028416 TTGTAAACAAGTTTTGGTCTTTGAACTAAATTCTTATTAACCTGAGAATTG--T-T-TCTTGGTT
130 TTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTT
* * *
20028477 CATGGATGAACTTTCAAACTTC
195 CATGGACGAACTTTCACACTTG
* * * *
20028499 TCAAACTTTTACGAGTTCTTATATAGCTT-TTTGGTCCCTTAACA-TATTCAAGAAGATCCATTC
1 TCAAACTTTTACGAGTTCTTTTATAACTTCTCT--T-CCTTAA-AGTATTCAAGACGATCCATTC
* * *
20028562 CTTCGTGC-AATTTTCCG-A-A---CATGCACGGGAAATCGCATCCTTCT-GTCTAAATAGTTTG
62 CTTCGAGCAAATTTT-CGAACATTCCATGCTCGGGAAATCGCATCATT-TGGTCTAAATAGTTTG
* * * * *
20028620 TCATTTTGTAAACAAGTTTTAGCCTTTGAATTCAAACCTTATTTCCGTGAGAATTGTTTCTCTCT
125 TCATTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCT
* *
20028685 TGGTTCGTGGACGAACTTTCGCACTTG
190 TGGTTCATGGACGAACTTTCACACTTG
* * * *
20028712 TCAAACATTTATGAGTTCTTTTATAACTTCTCTTCCTTAAAGTTTTCAAGACGATCCATTCTTTC
1 TCAAACTTTTACGAGTTCTTTTATAACTTCTCTTCCTTAAAGTATTCAAGACGATCCATTCCTTC
** *
20028777 GAGCAAATTTTCGAACATTCCATGCTCGGGAAATCATAT-TTTTGGTCTAAATAGTTTGTCATTT
66 GAGCAAATTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTT
*
20028841 TGTAAACAAGTTTTAGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
131 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * * *
20028906 TTGGACGAA-ATCCAAACTTG
196 ATGGACGAACTTTCACACTTG
* * * * *
20028926 TGAAACTTTTACGAG-T-TTTTATAACTTCTGTTTCC-TAGAGTATTCAAGACGATCTATTCCAT
1 TCAAACTTTTACGAGTTCTTTTATAACTTCT-CTTCCTTAAAGTATTCAAGACGATCCATTCCTT
** * * *
20028988 CGAGC-AATTTTCTGAACATTCCATGCTCGGGAAATCAAATTATTTGGTCTAAACAGTTTGTCAA
65 CGAGCAAATTTTC-GAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCAT
* * * * * *
20029052 TTTGTAAACAAGTTTTGGTATTTAAATTAAAATCTTATTAACTTGAGAATTGCTTCTCTCTTGGT
129 TTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGT
* *
20029117 TCATGGATG-ACTTTCAAACTTG
194 TCATGGACGAACTTTCACACTTG
* * * * *
20029139 TCAAACTTTTACGAGTTCTTTTATAGCTTTTTGGTTCCTTAACGTATTCAAGAAGATCCATTCCT
1 TCAAACTTTTACGAGTTCTTTTATAAC-TTCT-CTTCCTTAAAGTATTCAAGACGATCCATTCCT
* * *** * * *
20029204 TCGTGCAATTTTTCG-A-A--CCATAAACGGAAAATCGCATCCTTCT-GTCTAAATAGTTTTTCA
64 TCGAGCAAATTTTCGAACATTCCATGCTCGGGAAATCGCATCATT-TGGTCTAAATAGTTTGTCA
* * * * *
20029264 TTTTGTAAACAAGTTTTGGTCTTTGAATTTAAACCTTATTTCCGTGAGAAATGTTTCTCTCATGG
128 TTTTGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGG
* *
20029329 TTCGTGGACGAACTTCCACACTTG
193 TTCATGGACGAACTTTCACACTTG
* * * * *
20029353 TCAAACCTTTACGAGTTTTTTTATAACTTCTCTTCCTTAAAGTTTTCAAGATGATCCATTCTTTC
1 TCAAACTTTTACGAGTTCTTTTATAACTTCTCTTCCTTAAAGTATTCAAGACGATCCATTCCTTC
* * * * *
20029418 GAGTAAATTTTCGAATATTCCATGCGCAGGAAATCGCATCATTTGGTCTAAATAGTTTGTTATTT
66 GAGCAAATTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTT
* * * * *
20029483 TGTAAACAAGTTTTAGTCTCTGAATTAATAACTTATTTACGTGAGAATTATTTCTCTCTTAGTTC
131 TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
* * *
20029548 TTGGATGAA-ATTCGA-ACTTG
196 ATGGACGAACTTTC-ACACTTG
* **
20029568 TCAAACTTTTACAAGTTCTTTTATAACTTCAGTTCCTTAAAGTATTCAAGACGATCCATTCCTTC
1 TCAAACTTTTACGAGTTCTTTTATAACTTCTCTTCCTTAAAGTATTCAAGACGATCCATTCCTTC
* * * *
20029633 GAGCAATTTTTTGAACATTCCAAGCTCGAGAAATCGCATCATTTGGTCTAAATAGTTCT-TCATT
66 GAGCAAATTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTT-TGTCATT
* ** * * * *
20029697 TTGT-AACAAACTTTTGGTCTTTTCATTAAAAAGTTATTTACATGACAATTGTTTATCTCTTGGT
130 TTGTAAAC-AAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGT
* *
20029761 TC-TAGGACGAACTTTCGCATTTG
194 TCAT-GGACGAACTTTCACACTTG
* * * * *
20029784 TCAAACTTTTACGAGTGCTTTTATAACTTTTCTTCCTTAAAGTTTTCAAGACGGTCCATTCTTTC
1 TCAAACTTTTACGAGTTCTTTTATAACTTCTCTTCCTTAAAGTATTCAAGACGATCCATTCCTTC
* * * * *
20029849 GAGCAATTTTTCGAACATTCCATGCTCGGAAAATCACATCATTTGGTCTAAACAGTTTGTCAATT
66 GAGCAAATTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTT
* * * * * *
20029914 TGTAAAAAAGTTTTGGTAC-TTAAATTAAAATCTTATTAACTTGAGAATTGTTCCTCTCTTGGTT
131 TGTAAACAAGTTTTGGT-CTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTT
*
20029978 CATGGATGAACTTTCGAC-CTTG
195 CATGGACGAACTTTC-ACACTTG
20030000 TCAAACTTTTACGAGTTCT
1 TCAAACTTTTACGAGTTCT
20030019 CCATCTTTCT
Statistics
Matches: 1604, Mismatches: 270, Indels: 123
0.80 0.14 0.06
Matches are distributed among these distances:
203 3 0.00
204 1 0.00
205 4 0.00
206 90 0.06
207 60 0.04
208 12 0.01
209 78 0.05
210 16 0.01
211 125 0.08
212 125 0.08
213 289 0.18
214 69 0.04
215 336 0.21
216 357 0.22
217 33 0.02
218 6 0.00
ACGTcount: A:0.27, C:0.18, G:0.15, T:0.41
Consensus pattern (216 bp):
TCAAACTTTTACGAGTTCTTTTATAACTTCTCTTCCTTAAAGTATTCAAGACGATCCATTCCTTC
GAGCAAATTTTCGAACATTCCATGCTCGGGAAATCGCATCATTTGGTCTAAATAGTTTGTCATTT
TGTAAACAAGTTTTGGTCTTTGAATTAAAAACTTATTTACGTGAGAATTGTTTCTCTCTTGGTTC
ATGGACGAACTTTCACACTTG
Found at i:20032564 original size:15 final size:15
Alignment explanation
Indices: 20032546--20032607 Score: 63
Period size: 15 Copynumber: 4.1 Consensus size: 15
20032536 AATCTGTTAT
20032546 TTTTCATTTCATTTC
1 TTTTCATTTCATTTC
* *
20032561 TTTT-TTATTCTTTTC
1 TTTTCAT-TTCATTTC
20032576 TTTTCATTTCATTTC
1 TTTTCATTTCATTTC
* * *
20032591 TTCTCTTTTCTTTTC
1 TTTTCATTTCATTTC
20032606 TT
1 TT
20032608 CTCTTCCAAA
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
14 1 0.03
15 36 0.95
16 1 0.03
ACGTcount: A:0.08, C:0.19, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTCATTTCATTTC
Done.