Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168048.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_3, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 33276047
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 139000 characters in sequence are not A, C, G, or T
File 185 of 190
Found at i:31732760 original size:24 final size:24
Alignment explanation
Indices: 31732733--31732779 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
31732723 AATATATTAA
31732733 TAGATAACACAAAAAAATA-ATAAT
1 TAGATAA-ACAAAAAAATAGATAAT
*
31732757 TAGATAAATAAAAAAATAGATAA
1 TAGATAAACAAAAAAATAGATAA
31732780 ATAAAAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 10 0.48
24 11 0.52
ACGTcount: A:0.68, C:0.04, G:0.06, T:0.21
Consensus pattern (24 bp):
TAGATAAACAAAAAAATAGATAAT
Found at i:31732762 original size:40 final size:40
Alignment explanation
Indices: 31732712--31732830 Score: 116
Period size: 40 Copynumber: 3.0 Consensus size: 40
31732702 ATTAATCAAA
*
31732712 ATAAAAAGATAAATATATTAATAGATAACACAAAAAAATA-
1 ATAAATAGATAAATATATTAATAGATAA-ACAAAAAAATAG
* * ** * *
31732752 ATAATTAGATAAATAAAAAAATAGATAAATAAAAAAGTAG
1 ATAAATAGATAAATATATTAATAGATAAACAAAAAAATAG
* * *
31732792 ATAAATA-ATAAAAATATTAATAGAAAAAAAATAAAAATA
1 ATAAATAGATAAATATATTAATAGATAAACAA-AAAAATA
31732831 AAAAAAAATA
Statistics
Matches: 62, Mismatches: 15, Indels: 4
0.77 0.19 0.05
Matches are distributed among these distances:
39 27 0.44
40 35 0.56
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.23
Consensus pattern (40 bp):
ATAAATAGATAAATATATTAATAGATAAACAAAAAAATAG
Found at i:31732769 original size:20 final size:17
Alignment explanation
Indices: 31732757--31732867 Score: 83
Period size: 16 Copynumber: 6.8 Consensus size: 17
31732747 AAATAATAAT
31732757 TAGATAAAT-AAAAAAA
1 TAGATAAATAAAAAAAA
*
31732773 TAGATAAAT-AAAAAAG
1 TAGATAAATAAAAAAAA
*
31732789 TAGATAAATAATAAAAA
1 TAGATAAATAAAAAAAA
* *
31732806 TA-TTAATAGAAAAAAAA
1 TAGATAA-ATAAAAAAAA
31732823 TA-A-AAATAAAAAAAAA
1 TAGATAAAT-AAAAAAAA
* **
31732839 TATATTAAATAATGAAAA
1 TAGA-TAAATAAAAAAAA
31732857 TA-A-AAATAAAA
1 TAGATAAATAAAA
31732868 GCCCATTCGA
Statistics
Matches: 77, Mismatches: 12, Indels: 13
0.75 0.12 0.13
Matches are distributed among these distances:
15 7 0.09
16 39 0.51
17 19 0.25
18 8 0.10
19 4 0.05
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (17 bp):
TAGATAAATAAAAAAAA
Found at i:31732778 original size:16 final size:16
Alignment explanation
Indices: 31732757--31732836 Score: 85
Period size: 16 Copynumber: 5.0 Consensus size: 16
31732747 AAATAATAAT
31732757 TAGATAAATAAAAAAA
1 TAGATAAATAAAAAAA
*
31732773 TAGATAAATAAAAAAG
1 TAGATAAATAAAAAAA
31732789 TAGATAAATAATAAAAA
1 TAGATAAATAA-AAAAA
* *
31732806 TA-TTAATAGAAAAAAAA
1 TAGATAA-A-TAAAAAAA
31732823 TA-A-AAATAAAAAAA
1 TAGATAAATAAAAAAA
31732837 AATATATTAA
Statistics
Matches: 55, Mismatches: 6, Indels: 8
0.80 0.09 0.12
Matches are distributed among these distances:
14 7 0.13
15 1 0.02
16 31 0.56
17 14 0.25
18 2 0.04
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (16 bp):
TAGATAAATAAAAAAA
Found at i:31732867 original size:5 final size:6
Alignment explanation
Indices: 31732792--31732867 Score: 55
Period size: 6 Copynumber: 12.0 Consensus size: 6
31732782 AAAAAAGTAG
** * *
31732792 ATAAATA ATAAAA ATATTA ATAGAA A-AAAA ATAAAA ATAAAA AAAAATA
1 ATAAA-A ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAAA ATAAA-A
*
31732841 TATTAAATA ATGAAA ATAAAA ATAAAA
1 -A-TAAA-A ATAAAA ATAAAA ATAAAA
31732868 GCCCATTCGA
Statistics
Matches: 56, Mismatches: 9, Indels: 9
0.76 0.12 0.12
Matches are distributed among these distances:
5 4 0.07
6 36 0.64
7 9 0.16
8 2 0.04
9 5 0.09
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (6 bp):
ATAAAA
Found at i:31733081 original size:17 final size:16
Alignment explanation
Indices: 31733059--31733108 Score: 73
Period size: 17 Copynumber: 2.9 Consensus size: 16
31733049 AACTTGACAC
31733059 TTTTTTTTTTGTTTTTG
1 TTTTTTTTTT-TTTTTG
31733076 TTTTTTTTTTTGTTTTG
1 TTTTTTTTTTT-TTTTG
31733093 TTTGTTTTTTTTTTTT
1 TTT-TTTTTTTTTTTT
31733109 TTTGCTTGGT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.03
17 22 0.71
18 8 0.26
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (16 bp):
TTTTTTTTTTTTTTTG
Found at i:31733082 original size:18 final size:18
Alignment explanation
Indices: 31733059--31733109 Score: 79
Period size: 18 Copynumber: 2.9 Consensus size: 18
31733049 AACTTGACAC
31733059 TTTTTTTTTTGTTTTTGT
1 TTTTTTTTTTGTTTTTGT
31733077 TTTTTTTTTTG-TTTTGT
1 TTTTTTTTTTGTTTTTGT
31733094 TTGTTTTTTTT-TTTTT
1 TT-TTTTTTTTGTTTTT
31733110 TTGCTTGGTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.26
18 23 0.74
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (18 bp):
TTTTTTTTTTGTTTTTGT
Found at i:31733096 original size:27 final size:26
Alignment explanation
Indices: 31733061--31733111 Score: 84
Period size: 27 Copynumber: 1.9 Consensus size: 26
31733051 CTTGACACTT
*
31733061 TTTTTTTTGTTTTTGTTTTTTTTTTTG
1 TTTTGTTTGTTTTT-TTTTTTTTTTTG
31733088 TTTTGTTTGTTTTTTTTTTTTTTT
1 TTTTGTTTGTTTTTTTTTTTTTTT
31733112 GCTTGGTTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
26 10 0.43
27 13 0.57
ACGTcount: A:0.00, C:0.00, G:0.10, T:0.90
Consensus pattern (26 bp):
TTTTGTTTGTTTTTTTTTTTTTTTTG
Found at i:31733128 original size:1 final size:1
Alignment explanation
Indices: 31733059--31733111 Score: 61
Period size: 1 Copynumber: 53.0 Consensus size: 1
31733049 AACTTGACAC
* * * * *
31733059 TTTTTTTTTTGTTTTTGTTTTTTTTTTTGTTTTGTTTGTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
31733112 GCTTGGTTAA
Statistics
Matches: 42, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 42 1.00
ACGTcount: A:0.00, C:0.00, G:0.09, T:0.91
Consensus pattern (1 bp):
T
Found at i:31733198 original size:43 final size:42
Alignment explanation
Indices: 31733137--31733439 Score: 142
Period size: 42 Copynumber: 7.2 Consensus size: 42
31733127 TTCGATCAAA
* *
31733137 GCTCCTCTAAGCAGAGGCTCAACGAC-TTTGAGAAACATAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTTGA-AAA-ATAAATG
31733180 GCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAATG
* * * *
31733222 GCT-TTCCTAATCAGAGGCT---TAACTTTT-AGAAAGTAAATT
1 GCTCCT-CTAATCAGAGGCTCAACAACTTTTGA-AAAATAAATG
* * * * * *
31733261 GCTCCTCTAAAT-AGAGGCACCATAAC-TTTGAACAGTAAATT
1 GCTCCTCT-AATCAGAGGCTCAACAACTTTTGAAAAATAAATG
* * * * * * *
31733302 GTTCCTCTCCTAAAT-AGAGGCACCACAAC-TTTGGACAGTAAATT
1 GCT-C-CT-CT-AATCAGAGGCTCAACAACTTTTGAAAAATAAATG
* * * * ** *
31733346 GCTCCTCTAAAT-AGAGACACTACGACTTTAAAAAAATAAATT
1 GCTCCTCT-AATCAGAGGCTCAACAACTTTTGAAAAATAAATG
* * ** * * *
31733388 GCTCCTCTAAACAGAGGCACCTCAACTTTTGGAAAGTAAATT
1 GCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAATG
31733430 GCTCCTCTAA
1 GCTCCTCTAA
31733440 ATAGAAGCAC
Statistics
Matches: 216, Mismatches: 30, Indels: 29
0.79 0.11 0.11
Matches are distributed among these distances:
38 1 0.00
39 26 0.12
40 4 0.02
41 34 0.16
42 81 0.38
43 30 0.14
44 40 0.19
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (42 bp):
GCTCCTCTAATCAGAGGCTCAACAACTTTTGAAAAATAAATG
Found at i:31733232 original size:42 final size:43
Alignment explanation
Indices: 31733137--31733240 Score: 142
Period size: 43 Copynumber: 2.4 Consensus size: 43
31733127 TTCGATCAAA
* *
31733137 GCTCCTCTAAGCAGAGGCTCAACGACTTTGAGAAACATAAATG
1 GCTCCTCTAATCAGAGGCTCAACAACTTTGAGAAACATAAATG
31733180 GCTCCTCTAATCAGAGGCTCAACAACTTTTGA-AAA-ATAAATG
1 GCTCCTCTAATCAGAGGCTCAACAAC-TTTGAGAAACATAAATG
*
31733222 GCT-TTCCTAATCAGAGGCT
1 GCTCCT-CTAATCAGAGGCT
31733241 TAACTTTTAG
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
41 1 0.02
42 23 0.41
43 27 0.48
44 5 0.09
ACGTcount: A:0.34, C:0.23, G:0.18, T:0.25
Consensus pattern (43 bp):
GCTCCTCTAATCAGAGGCTCAACAACTTTGAGAAACATAAATG
Found at i:31733457 original size:84 final size:85
Alignment explanation
Indices: 31733242--31733475 Score: 278
Period size: 84 Copynumber: 2.8 Consensus size: 85
31733232 TCAGAGGCTT
* * * * * *
31733242 AACTTTTAGAAAGTAAATTGCTCCTCTAAATAGAGGCACCATAACTTTGAACAGTAAATTGTTCC
1 AACTTTTGGAAAGTAAATTGCTCCTCTAAATAGAAGCACCATGACTTTGAAAAATAAATTGCT-C
*
31733307 TCTCCTAAATAGAGGCACCAC
65 TCTCCTAAACAGAGGCACCAC
* * * *
31733328 AAC-TTTGGACAGTAAATTGCTCCTCTAAATAG-AGACACTACGACTTTAAAAAAATAAATTGCT
1 AACTTTTGGAAAGTAAATTGCTCCTCTAAATAGAAG-CACCATGACTTT-GAAAAATAAATTGCT
*
31733391 C-CT-CTAAACAGAGGCACCTC
64 CTCTCCTAAACAGAGGCACCAC
* *
31733411 AACTTTTGGAAAGTAAATTGCTCCTCTAAATAGAAGCACCGTGACTTTGGAAAAATAAATGGCTC
1 AACTTTTGGAAAGTAAATTGCTCCTCTAAATAGAAGCACCATGACTTT-GAAAAATAAATTGCTC
31733476 ATTGACAATC
Statistics
Matches: 125, Mismatches: 19, Indels: 10
0.81 0.12 0.06
Matches are distributed among these distances:
83 18 0.14
84 54 0.43
85 39 0.31
86 14 0.11
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (85 bp):
AACTTTTGGAAAGTAAATTGCTCCTCTAAATAGAAGCACCATGACTTTGAAAAATAAATTGCTCT
CTCCTAAACAGAGGCACCAC
Found at i:31733458 original size:42 final size:41
Alignment explanation
Indices: 31733241--31733463 Score: 225
Period size: 42 Copynumber: 5.3 Consensus size: 41
31733231 ATCAGAGGCT
*
31733241 TAACTTTTAGAAAGTAAATTGCTCCTCTAAATAGAGGCACCA
1 TAAC-TTTGGAAAGTAAATTGCTCCTCTAAATAGAGGCACCA
*
31733283 TAACTTT-GAACAGTAAATTGTTCCTCTCCTAAATAGAGGCACCA
1 TAACTTTGGAA-AGTAAATTGCT-C-CT-CTAAATAGAGGCACCA
* * * *
31733327 CAACTTTGGACAGTAAATTGCTCCTCTAAATAGAGACACTA
1 TAACTTTGGAAAGTAAATTGCTCCTCTAAATAGAGGCACCA
** ** * *
31733368 CGACTTTAAAAAAATAAATTGCTCCTCTAAACAGAGGCACC-
1 TAACTTT-GGAAAGTAAATTGCTCCTCTAAATAGAGGCACCA
* *
31733409 TCAACTTTTGGAAAGTAAATTGCTCCTCTAAATAGAAGCACCG
1 T-AAC-TTTGGAAAGTAAATTGCTCCTCTAAATAGAGGCACCA
*
31733452 TGACTTTGGAAA
1 TAACTTTGGAAA
31733464 AATAAATGGC
Statistics
Matches: 150, Mismatches: 22, Indels: 19
0.79 0.12 0.10
Matches are distributed among these distances:
40 3 0.02
41 41 0.27
42 65 0.43
43 7 0.05
44 32 0.21
45 2 0.01
ACGTcount: A:0.37, C:0.21, G:0.15, T:0.27
Consensus pattern (41 bp):
TAACTTTGGAAAGTAAATTGCTCCTCTAAATAGAGGCACCA
Found at i:31735378 original size:21 final size:19
Alignment explanation
Indices: 31735354--31735396 Score: 68
Period size: 21 Copynumber: 2.2 Consensus size: 19
31735344 CATTTTTTCA
31735354 TTTTTTCTTTTTTCATCATCT
1 TTTTTTCTTTTTTC-TCAT-T
31735375 TTTTTTCTTTTTTCTCATT
1 TTTTTTCTTTTTTCTCATT
31735394 TTT
1 TTT
31735397 CACCCATTGT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 4 0.18
20 4 0.18
21 14 0.64
ACGTcount: A:0.07, C:0.16, G:0.00, T:0.77
Consensus pattern (19 bp):
TTTTTTCTTTTTTCTCATT
Found at i:31738883 original size:153 final size:153
Alignment explanation
Indices: 31738605--31738914 Score: 620
Period size: 153 Copynumber: 2.0 Consensus size: 153
31738595 CTGCGGAGGC
31738605 ATTAAACCTTACGAAAGCAATAAGTACTTTACTCTCTCCTAGAGTGACGAAGCTCGGGTATAGAG
1 ATTAAACCTTACGAAAGCAATAAGTACTTTACTCTCTCCTAGAGTGACGAAGCTCGGGTATAGAG
31738670 CTCATATTATGCATATGCATATGAATGACATAATTAATAAAGTAAATAAAATGAATGAATAAAAA
66 CTCATATTATGCATATGCATATGAATGACATAATTAATAAAGTAAATAAAATGAATGAATAAAAA
31738735 ATCTATACAAAAGGTTCCATTTT
131 ATCTATACAAAAGGTTCCATTTT
31738758 ATTAAACCTTACGAAAGCAATAAGTACTTTACTCTCTCCTAGAGTGACGAAGCTCGGGTATAGAG
1 ATTAAACCTTACGAAAGCAATAAGTACTTTACTCTCTCCTAGAGTGACGAAGCTCGGGTATAGAG
31738823 CTCATATTATGCATATGCATATGAATGACATAATTAATAAAGTAAATAAAATGAATGAATAAAAA
66 CTCATATTATGCATATGCATATGAATGACATAATTAATAAAGTAAATAAAATGAATGAATAAAAA
31738888 ATCTATACAAAAGGTTCCATTTT
131 ATCTATACAAAAGGTTCCATTTT
31738911 ATTA
1 ATTA
31738915 GGCTTTTGGA
Statistics
Matches: 157, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
153 157 1.00
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (153 bp):
ATTAAACCTTACGAAAGCAATAAGTACTTTACTCTCTCCTAGAGTGACGAAGCTCGGGTATAGAG
CTCATATTATGCATATGCATATGAATGACATAATTAATAAAGTAAATAAAATGAATGAATAAAAA
ATCTATACAAAAGGTTCCATTTT
Found at i:31739626 original size:58 final size:57
Alignment explanation
Indices: 31739443--31739656 Score: 254
Period size: 58 Copynumber: 3.7 Consensus size: 57
31739433 TTTTGTGCAG
* * * * *
31739443 GAAAAATTCATACTTTCAACTTTTTC-TCAAAATA--TTTTAAAAATTTTAATTTCGA
1 GAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTGAAAA-TTTATTTTCAA
* * *
31739498 GAAAAATTGATACTTTCAACTTTTCCTTAAAAAAAACCTTTTTTGAAAATTTATTTTTAA
1 GAAAAATTGATACTTTCAACTTTTTCTT-AAAAATA--TTTTTTGAAAATTTATTTTCAA
* *
31739558 GGAAAATTGATACTTTCAACTTTTTCTTGAAAATATTTTTTGAAAAGTTTATTTTCAA
1 GAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTGAAAA-TTTATTTTCAA
**
31739616 GAAAAATTGATACTTTCAACTTTTTCCCAAAAATATTTTTT
1 GAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTT
31739657 TGGATTTTAT
Statistics
Matches: 135, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
55 24 0.18
56 1 0.01
57 16 0.12
58 47 0.35
59 5 0.04
60 34 0.25
61 8 0.06
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (57 bp):
GAAAAATTGATACTTTCAACTTTTTCTTAAAAATATTTTTTGAAAATTTATTTTCAA
Found at i:31739681 original size:5 final size:5
Alignment explanation
Indices: 31739673--31739761 Score: 67
Period size: 5 Copynumber: 16.8 Consensus size: 5
31739663 TTATTTAAAG
*
31739673 AAAAT AAAAT --AAT AAAAT AAAAA AAAAGT GAAAAT AAAAAT AAAGA-
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT -AAAAT AAA-AT
*
31739719 AAAGT AAAAT AAAAAT AAAAAT AAAAT AAAGAT AAAAAT AAAA
1 AAAAT AAAAT -AAAAT -AAAAT AAAAT AAA-AT -AAAAT AAAA
31739762 GAATATTAAA
Statistics
Matches: 70, Mismatches: 5, Indels: 18
0.75 0.05 0.19
Matches are distributed among these distances:
3 3 0.04
5 38 0.54
6 22 0.31
7 7 0.10
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:31739698 original size:17 final size:16
Alignment explanation
Indices: 31739673--31739761 Score: 70
Period size: 17 Copynumber: 4.9 Consensus size: 16
31739663 TTATTTAAAG
31739673 AAAATAAAATAATAAAAT
1 AAAA-AAAA-AATAAAAT
*
31739691 AAAAAAAAAGTGAAAAT
1 AAAAAAAAAAT-AAAAT
31739708 AAAAATAAAGAAAAGTAAAAT
1 --AAA-AAA-AAAA-TAAAAT
31739729 AAAAATAAAAATAAAAT
1 AAAAA-AAAAATAAAAT
*
31739746 AAAGATAAAAATAAAA
1 AAA-AAAAAAATAAAA
31739762 GAATATTAAA
Statistics
Matches: 60, Mismatches: 3, Indels: 17
0.75 0.04 0.21
Matches are distributed among these distances:
16 2 0.03
17 28 0.47
18 11 0.18
19 7 0.12
20 3 0.05
21 8 0.13
22 1 0.02
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.16
Consensus pattern (16 bp):
AAAAAAAAAATAAAAT
Found at i:31739712 original size:6 final size:6
Alignment explanation
Indices: 31739673--31739761 Score: 76
Period size: 6 Copynumber: 14.5 Consensus size: 6
31739663 TTATTTAAAG
* * *
31739673 AAAAT- AAAATAA TAAAATA AAAA-A AAAGTG AAAATA AAAATA AAGAAAA
1 AAAATA AAAAT-A -AAAATA AAAATA AAAATA AAAATA AAAATA AA-AATA
*
31739722 GTAAAATA AAAATA AAAAT- AAAATA AAGATA AAAATA AAA
1 --AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAA
31739762 GAATATTAAA
Statistics
Matches: 68, Mismatches: 8, Indels: 15
0.75 0.09 0.16
Matches are distributed among these distances:
5 14 0.21
6 40 0.59
7 4 0.06
8 8 0.12
9 2 0.03
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.16
Consensus pattern (6 bp):
AAAATA
Found at i:31739712 original size:23 final size:22
Alignment explanation
Indices: 31739673--31739761 Score: 103
Period size: 23 Copynumber: 4.0 Consensus size: 22
31739663 TTATTTAAAG
31739673 AAAA-TAAAATAATAAAATAAAAA
1 AAAAGTAAAAT-A-AAAATAAAAA
*
31739696 AAAAGTGAAAATAAAAAT-AAAG
1 AAAAGT-AAAATAAAAATAAAAA
31739718 AAAAGTAAAATAAAAATAAAAA
1 AAAAGTAAAATAAAAATAAAAA
31739740 TAAAA-TAAAGATAAAAATAAAA
1 -AAAAGTAAA-ATAAAAATAAAA
31739762 GAATATTAAA
Statistics
Matches: 59, Mismatches: 2, Indels: 10
0.83 0.03 0.14
Matches are distributed among these distances:
21 11 0.19
22 16 0.27
23 25 0.42
24 2 0.03
25 5 0.08
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.16
Consensus pattern (22 bp):
AAAAGTAAAATAAAAATAAAAA
Found at i:31753402 original size:2 final size:2
Alignment explanation
Indices: 31753395--31753420 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
31753385 TTTGCTAATG
31753395 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
31753421 TTAAACCTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31756927 original size:16 final size:16
Alignment explanation
Indices: 31756906--31756938 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
31756896 ATATTCTTTG
31756906 ATTAAAAT-AATATAAA
1 ATTAAAATGAAT-TAAA
31756922 ATTAAAATGAATTAAA
1 ATTAAAATGAATTAAA
31756938 A
1 A
31756939 AATTTTGTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.81
17 3 0.19
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
ATTAAAATGAATTAAA
Found at i:31757484 original size:29 final size:29
Alignment explanation
Indices: 31757449--31757508 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
31757439 TTCAACTTAC
*
31757449 AGGCAATTAAGTAAAGAATTAAAACTTTA
1 AGGCAATAAAGTAAAGAATTAAAACTTTA
31757478 AGGCAATAAAGTAAAGAATTAAAACTTTA
1 AGGCAATAAAGTAAAGAATTAAAACTTTA
31757507 AG
1 AG
31757509 TGCAGCAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.53, C:0.07, G:0.15, T:0.25
Consensus pattern (29 bp):
AGGCAATAAAGTAAAGAATTAAAACTTTA
Found at i:31765580 original size:17 final size:18
Alignment explanation
Indices: 31765558--31765600 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
31765548 ATATTCTTTT
31765558 ATTAAAAT-AA-TATAAAA
1 ATTAAAATGAATTA-AAAA
31765575 ATTAAAATGAATTAAAAA
1 ATTAAAATGAATTAAAAA
31765593 ATTAAAAT
1 ATTAAAAT
31765601 TAAACTATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 8 0.33
18 14 0.58
19 2 0.08
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.30
Consensus pattern (18 bp):
ATTAAAATGAATTAAAAA
Found at i:31767320 original size:18 final size:19
Alignment explanation
Indices: 31767299--31767336 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
31767289 ATTTGGTTTA
*
31767299 TTAATTTG-ATTTATAATT
1 TTAATTTGTATTAATAATT
31767317 TTAATTTGTATTAATAATT
1 TTAATTTGTATTAATAATT
31767336 T
1 T
31767337 CATAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 8 0.44
19 10 0.56
ACGTcount: A:0.34, C:0.00, G:0.05, T:0.61
Consensus pattern (19 bp):
TTAATTTGTATTAATAATT
Found at i:31775002 original size:23 final size:23
Alignment explanation
Indices: 31774963--31775007 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
31774953 TCGAATCAAT
*
31774963 AAAATTTTATTCAAA-TTAAATA
1 AAAATTTAATTCAAATTTAAATA
31774985 AAAATTTAACTTCAAATTTAAAT
1 AAAATTTAA-TTCAAATTTAAAT
31775008 TAAATTAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 8 0.40
23 6 0.30
24 6 0.30
ACGTcount: A:0.53, C:0.07, G:0.00, T:0.40
Consensus pattern (23 bp):
AAAATTTAATTCAAATTTAAATA
Found at i:31776651 original size:17 final size:17
Alignment explanation
Indices: 31776623--31776662 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
31776613 ATTATATTTC
31776623 AATTAAAATTTAAATTA
1 AATTAAAATTTAAATTA
* *
31776640 ATTTAAATTTTAAATTA
1 AATTAAAATTTAAATTA
31776657 AATTAA
1 AATTAA
31776663 TTAAAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTAAAATTTAAATTA
Found at i:31776704 original size:14 final size:14
Alignment explanation
Indices: 31776663--31776704 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 14
31776653 ATTAAATTAA
31776663 TTAAAAATT-ATTT
1 TTAAAAATTAATTT
*
31776676 TTAAAAAATTTATTT
1 TT-AAAAATTAATTT
*
31776691 TTAATAATTAATTT
1 TTAAAAATTAATTT
31776705 AAATTAATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 2 0.08
14 17 0.68
15 6 0.24
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAAAAATTAATTT
Found at i:31776705 original size:18 final size:15
Alignment explanation
Indices: 31776665--31776694 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
31776655 TAAATTAATT
31776665 AAAAA-TTATTTTTA
1 AAAAATTTATTTTTA
31776679 AAAAATTTATTTTTA
1 AAAAATTTATTTTTA
31776694 A
1 A
31776695 TAATTAATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
AAAAATTTATTTTTA
Found at i:31783816 original size:2 final size:2
Alignment explanation
Indices: 31783811--31783837 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
31783801 CACGTGTGTG
31783811 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
31783838 GGAAATTTCT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:31801001 original size:60 final size:60
Alignment explanation
Indices: 31800928--31801048 Score: 206
Period size: 60 Copynumber: 2.0 Consensus size: 60
31800918 TCCAACAGCC
31800928 GAACCTGAATGGTTATGGTTGCATGACTCCTGTTGTTGTTGCTAAGTCTGGTCGTTTTCT
1 GAACCTGAATGGTTATGGTTGCATGACTCCTGTTGTTGTTGCTAAGTCTGGTCGTTTTCT
* * * *
31800988 GAACCTGATTGGTTATGGTTGCATGGCTTCTGTTGTTGTTGCTGAGTCTGGTCGTTTTCT
1 GAACCTGAATGGTTATGGTTGCATGACTCCTGTTGTTGTTGCTAAGTCTGGTCGTTTTCT
31801048 G
1 G
31801049 GGTGGGTCTC
Statistics
Matches: 57, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
60 57 1.00
ACGTcount: A:0.12, C:0.16, G:0.29, T:0.43
Consensus pattern (60 bp):
GAACCTGAATGGTTATGGTTGCATGACTCCTGTTGTTGTTGCTAAGTCTGGTCGTTTTCT
Found at i:31804610 original size:18 final size:18
Alignment explanation
Indices: 31804578--31804613 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
31804568 ATTCGTTTAT
*
31804578 TTTTTATTTCGTTTTTTG
1 TTTTTATTTCATTTTTTG
*
31804596 TTTTTATTTTATTTTTTG
1 TTTTTATTTCATTTTTTG
31804614 AAAATTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.08, C:0.03, G:0.08, T:0.81
Consensus pattern (18 bp):
TTTTTATTTCATTTTTTG
Found at i:31804833 original size:16 final size:16
Alignment explanation
Indices: 31804812--31804880 Score: 59
Period size: 15 Copynumber: 4.1 Consensus size: 16
31804802 ATGATGTTAC
31804812 AAATAATATATTAATA
1 AAATAATATATTAATA
*
31804828 AAATAATATTTTTATTATA
1 AAATAATA-TATTA--ATA
* *
31804847 TAAGTATTATATTAAT-
1 -AAATAATATATTAATA
*
31804863 AAATAATATGTTAATA
1 AAATAATATATTAATA
31804879 AA
1 AA
31804881 TAAAAAATAT
Statistics
Matches: 41, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
15 12 0.29
16 10 0.24
17 6 0.15
19 7 0.17
20 6 0.15
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (16 bp):
AAATAATATATTAATA
Found at i:31804918 original size:21 final size:19
Alignment explanation
Indices: 31804832--31805309 Score: 109
Period size: 19 Copynumber: 26.0 Consensus size: 19
31804822 TTAATAAAAT
31804832 AATATT-TTTATT-ATATA
1 AATATTATTTATTAATATA
*
31804849 AGTATTA--TATT-A-ATA
1 AATATTATTTATTAATATA
* *
31804864 AATAATATGTTAATAA-ATA
1 AATATTAT-TTATTAATATA
* * *
31804883 AAAAATATTAAATTAATAATA
1 AATATTATT-TATTAAT-ATA
31804904 CAATATTATTTATTAATAT-
1 -AATATTATTTATTAATATA
*
31804923 AATTTTATTTATTAATATAA
1 AATATTATTTATTAATAT-A
*
31804943 AGATATTATATATT-A-AT-
1 A-ATATTATTTATTAATATA
*
31804960 AATA-TA-TTATT-A-CTA
1 AATATTATTTATTAATATA
* *
31804975 AATAATATCTATTAATATA
1 AATATTATTTATTAATATA
* *
31804994 TTATATTATTTACTAATATA
1 -AATATTATTTATTAATATA
31805014 ATATATTATTTA-TAATAT-
1 A-ATATTATTTATTAATATA
* * *
31805032 -TTATTA-ATA-TAATATC
1 AATATTATTTATTAATATA
* *
31805048 AATA-TA-ATATTTAT-TA
1 AATATTATTTATTAATATA
31805064 AACTATTATTTATGTTAATATA
1 AA-TATTATTTA--TTAATATA
* * *
31805086 ATGTATTA-TTAATAATTTATT
1 A-ATATTATTTATTAA--TATA
*
31805107 AATA-TA-TTAGTAATAT-
1 AATATTATTTATTAATATA
*
31805123 AATATTTATTATATT-AT-TT
1 AATA-TTATT-TATTAATATA
* * * * *
31805142 ATTATTAATATAATATTATT
1 AATATT-ATTTATTAATATA
* *
31805162 TATAATATTTATTAATAT-
1 AATATTATTTATTAATATA
*
31805180 AATATT-TATATTAATATCA
1 AATATTATTTATTAATAT-A
* *
31805199 TATATTA-TTAATAATATA
1 AATATTATTTATTAATATA
*
31805217 TTAATA-TA-TTATTAATGT-
1 --AATATTATTTATTAATATA
*
31805235 ATTATT-TATTATATAATATA
1 AATATTAT-TTAT-TAATATA
*
31805255 TTATATTATTTATTAATA-A
1 -AATATTATTTATTAATATA
*
31805274 TATATTA--TATTAATA-A
1 AATATTATTTATTAATATA
**
31805290 GTTATTATATTATTAATATA
1 AATATTAT-TTATTAATATA
31805310 TTATTTTAAT
Statistics
Matches: 346, Mismatches: 60, Indels: 107
0.67 0.12 0.21
Matches are distributed among these distances:
14 6 0.02
15 22 0.06
16 44 0.13
17 31 0.09
18 48 0.14
19 93 0.27
20 48 0.14
21 38 0.11
22 16 0.05
ACGTcount: A:0.46, C:0.01, G:0.02, T:0.51
Consensus pattern (19 bp):
AATATTATTTATTAATATA
Found at i:31805002 original size:33 final size:33
Alignment explanation
Indices: 31804953--31805062 Score: 103
Period size: 29 Copynumber: 3.5 Consensus size: 33
31804943 AGATATTATA
31804953 TATTAATAATATATTA-TTACTAA-ATAATATC
1 TATTAATAATATATTATTTACTAATATAATATC
31804984 TATTAATATATTATATTATTTACTAATATAATA--
1 TATTAATA-A-TATATTATTTACTAATATAATATC
* * *
31805017 TATT-AT-TTATAATATTTATTAATATAATATC
1 TATTAATAATATATTATTTACTAATATAATATC
*
31805048 -AAT-ATAATAT-TTATT
1 TATTAATAATATATTATT
31805063 AAACTATTAT
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
29 20 0.30
30 8 0.12
31 11 0.17
32 3 0.05
33 11 0.17
34 7 0.11
35 6 0.09
ACGTcount: A:0.45, C:0.04, G:0.00, T:0.51
Consensus pattern (33 bp):
TATTAATAATATATTATTTACTAATATAATATC
Found at i:31805052 original size:70 final size:69
Alignment explanation
Indices: 31804914--31805350 Score: 291
Period size: 70 Copynumber: 6.2 Consensus size: 69
31804904 CAATATTATT
* * * * *
31804914 TATTAATATA-ATTTTATTTATTAATATAAAGATATTATATATTAATAATATATTATTACTAA-A
1 TATTAATATATATATTATTTATTAATAT-AATATATTATTTA-TAAT-ATTTATTAATA-TAATA
*
31804977 TAATAT-C
62 TAATATAA
*
31804984 TATTAATATATTATATTATTTACTAATATAATATATTATTTATAATATTTATTAATATAATATCA
1 TATTAATATA-TATATTATTTATTAATATAATATATTATTTATAATATTTATTAATATAATAT-A
31805049 ATATAA
64 ATATAA
* * * * *
31805055 TATTTAT-TAAACTATTATTTATGTTAATATAATGTATTATTAAT-A-ATTTATTAATATATTAG
1 TATTAATATATA-TATTATTTA--TTAATATAATATATTATTTATAATATTTATTAATATAATA-
31805117 TAATATAA
62 TAATATAA
*
31805125 TATT--TAT-TATATTATTTATTATTA-ATATAATATTATTTATAATATTTATTAATATAATAT-
1 TATTAATATATATATTATTTATTAATATA-AT-ATATTATTTATAATATTTATTAATATAATATA
31805185 -T-T-A
64 ATATAA
* * * *
31805188 TATTAATATCATATATTATTAATAATATATTAATATATTATTAATGTATTATTTATT-ATATAAT
1 TATTAATAT-ATATATTATTTATTA-ATA-TAATATATTATT--TATAATATTTATTAATATAAT
*
31805252 ATATTATATTATT
61 ATA--ATA-TA-A
* * * *
31805265 TATTAATA-ATATATTATATTAATAAGT-TATTATATTATTAAT-ATATTATTTTAATAATATAT
1 TATTAATATATATATTAT-TTATTAA-TATAATATATTATTTATAATATT-TATTAAT-ATA-AT
*
31805327 ATAATATAT
61 ATAATATAA
*
31805336 TAATAATATA-ATATT
1 TATTAATATATATATT
31805351 CATAAATAAT
Statistics
Matches: 296, Mismatches: 33, Indels: 75
0.73 0.08 0.19
Matches are distributed among these distances:
63 5 0.02
64 2 0.01
65 11 0.04
66 9 0.03
67 23 0.08
68 30 0.10
69 24 0.08
70 68 0.23
71 36 0.12
72 40 0.14
73 6 0.02
74 14 0.05
75 16 0.05
76 4 0.01
77 8 0.03
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (69 bp):
TATTAATATATATATTATTTATTAATATAATATATTATTTATAATATTTATTAATATAATATAAT
ATAA
Found at i:31805108 original size:27 final size:27
Alignment explanation
Indices: 31805024--31805386 Score: 151
Period size: 27 Copynumber: 13.3 Consensus size: 27
31805014 ATATATTATT
* *
31805024 TATAATAT-TTATTAAT-ATAATATCAA
1 TATAATATATTATTAATAAT-TTATTAA
31805050 TATAATAT-TTATTAAACTATTATTTATGTTAA
1 TATAATATATTATT-AA-TA--ATTTA--TTAA
*
31805082 TATAATGTATTATTAATAATTTATTAA
1 TATAATATATTATTAATAATTTATTAA
* *
31805109 TATATTAGTAATA-TAAT-ATTTATT-A
1 TATAATA-TATTATTAATAATTTATTAA
* *
31805134 TATTATTTATTATTAATATAATATTATT--
1 TATAATATATTATT-A-ATAAT-TTATTAA
*
31805162 TATAATATTTATTAATATAATATTTATATTAA
1 TATAATA--TATT-AT-TAATAATT-TATTAA
* *
31805194 TATCATATATTATTAATAATATATTAA
1 TATAATATATTATTAATAATTTATTAA
*
31805221 TAT-AT-TATTAATGT-ATTATTTATT-A
1 TATAATATATT-AT-TAATAATTTATTAA
*
31805246 TATAATATATTA-T-ATTATTTATT-A
1 TATAATATATTATTAATAATTTATTAA
*
31805270 -ATAATATATTATATTAATAAGTTATTATA
1 TATAATATA-T-TATTAATAATTTATTA-A
*
31805299 TTATTAATATATTATTTTAATAATATATATAA
1 -TA-TAATATATTA--TTAATAATTTAT-TAA
* * *
31805331 TATATTA-ATAATATAAT-ATTCA-TAA
1 TATAATATATTAT-TAATAATTTATTAA
*
31805356 -ATAATATATTA--AACTAATATATTAA
1 TATAATATATTATTAA-TAATTTATTAA
31805381 TA-AATA
1 TATAATA
31805387 AAAATATTAT
Statistics
Matches: 264, Mismatches: 30, Indels: 87
0.69 0.08 0.23
Matches are distributed among these distances:
22 2 0.01
23 9 0.03
24 25 0.09
25 29 0.11
26 38 0.14
27 43 0.16
28 22 0.08
29 17 0.06
30 24 0.09
31 11 0.04
32 37 0.14
33 7 0.03
ACGTcount: A:0.46, C:0.01, G:0.01, T:0.51
Consensus pattern (27 bp):
TATAATATATTATTAATAATTTATTAA
Found at i:31805161 original size:55 final size:55
Alignment explanation
Indices: 31804910--31805366 Score: 291
Period size: 55 Copynumber: 8.4 Consensus size: 55
31804900 AATACAATAT
* * * *
31804910 TATTTATTAATATAATTTTATTTATTAATATAA-AGATATT-ATATATTAATAATATAT
1 TATTTATT-ATATAA-TATA-TTATTAATATAATA-TTATTAATATATTATTAATATAA
* * * * *
31804967 TA-TTACTAAATAATAT-CTATT-A-AT-ATATTA-TATTAT-TTACTAATATAA
1 TATTTATTATATAATATATTATTAATATAATATTATTAATATATTATTAATATAA
* *
31805015 TATATTATT-TATAATAT-TTATTAATATAATATCAATATAATAT-TTATTAA-ACTAT
1 TAT-TTATTATATAATATATTATTAATATAATAT-TAT-TAATATATTATTAATA-TAA
* *
31805070 TATTTATGTTAATATAATGTATTATT-A-ATAAT-TTATTAATATATTAGTAATATAA
1 TATTTA--TT-ATATAATATATTATTAATATAATATTATTAATATATTATTAATATAA
* * *
31805125 TATTTATTATATTATTTATTATTAATATAATATTATTTATAATATTTATTAATATAA
1 TATTTATTATATAATATATTATTAATATAATATTATTAAT-ATA-TTATTAATATAA
* * *
31805182 TATTTA-TAT-TAATATCATATATTATTAATAATA-TATTAATATATTATTAATGTAT
1 TATTTATTATATAATAT-AT-TATTAAT-ATAATATTATTAATATATTATTAATATAA
* * * *
31805237 TATTTATTATATAATATATTA-TATTAT-TTATTAATAATATATTATATTAATA-AGT
1 TATTTATTATATAATATATTATTAATATAATATTATTAATATA-T-TATTAATATA-A
* *
31805292 TATTATATTAT-TAATATATTATT-TTAATAATA-TATATAATATATTAATAATATAA
1 TATT-TATTATATAATATATTATTAAT-ATAATATTAT-TAATATATTATTAATATAA
* *
31805347 TATTCA-TAAATAATATATTA
1 TATTTATTATATAATATATTA
31805367 AACTAATATA
Statistics
Matches: 323, Mismatches: 38, Indels: 81
0.73 0.09 0.18
Matches are distributed among these distances:
48 13 0.04
49 17 0.05
50 8 0.02
51 3 0.01
52 23 0.07
53 17 0.05
54 34 0.11
55 101 0.31
56 37 0.11
57 51 0.16
58 14 0.04
59 5 0.02
ACGTcount: A:0.45, C:0.02, G:0.01, T:0.52
Consensus pattern (55 bp):
TATTTATTATATAATATATTATTAATATAATATTATTAATATATTATTAATATAA
Found at i:31805194 original size:112 final size:109
Alignment explanation
Indices: 31804987--31805366 Score: 402
Period size: 112 Copynumber: 3.4 Consensus size: 109
31804977 TAATATCTAT
* *
31804987 TAATATATT-ATATTATTTACTAATATAATATATTATT-TATAATAT-TTATTAATATAATATCA
1 TAATATATTAATA-TA-TTAATAATATAATAT-TTATTATATAATATATTATTAATATAATATTA
* *
31805049 ATATAATATTTATTAA-ACTATTATTTATGTTAATATAATGTATTATTAA
63 TTATAATATTTATTAATA-TATTATTTATATTAATAT-AT-TATTATTAA
* * * *
31805098 TAATTTATTAATATATTAGTAATATAATATTTATTATATTATTTATTATTAATATAATATTATTT
1 TAATATATTAATATATTAATAATATAATATTTATTATATAATATATTATTAATATAATATTA-TT
*
31805163 ATAATATTTATTAATATAATATTTATATTAATATCATATATTATTAA
65 ATAATATTTATTAATATATTATTTATATTAATAT-AT-TATTATTAA
* * * * * *
31805210 TAATATATTAATATATTATTAATGTATTATTTATTATATAATATATTA-TATTAT-TTATTAATA
1 TAATATATTAATATATTAATAATATAATATTTATTATATAATATATTATTAATATAATATTATTA
31805273 -ATATATTATATTAATA-AGTTATTATATTATTAATATATTATT-TTAA
66 TA-ATATT-TATTAATATA-TTATT-TA-TATTAATATATTATTATTAA
* *
31805319 TAATATATATAATATATTAATAATATAATATTCA-TAAATAATATATTA
1 TAATATAT-TAATATATTAATAATATAATATTTATTATATAATATATTA
31805367 AACTAATATA
Statistics
Matches: 233, Mismatches: 25, Indels: 24
0.83 0.09 0.09
Matches are distributed among these distances:
108 1 0.00
109 38 0.16
110 62 0.27
111 35 0.15
112 96 0.41
113 1 0.00
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (109 bp):
TAATATATTAATATATTAATAATATAATATTTATTATATAATATATTATTAATATAATATTATTA
TAATATTTATTAATATATTATTTATATTAATATATTATTATTAA
Found at i:31805341 original size:11 final size:11
Alignment explanation
Indices: 31805083--31805404 Score: 108
Period size: 11 Copynumber: 29.4 Consensus size: 11
31805073 TTATGTTAAT
*
31805083 ATAATGTATTA
1 ATAATATATTA
*
31805094 TTAATA-ATTTA
1 ATAATATA-TTA
*
31805105 TTAATATATTA
1 ATAATATATTA
* *
31805116 GTAATATAATA
1 ATAATATATTA
* *
31805127 TTTATTATATTA
1 -ATAATATATTA
* *
31805139 TTTAT-TATTAA
1 ATAATATATT-A
*
31805150 TATAATATTATTT
1 -ATAATA-TATTA
31805163 ATAATAT-TTA
1 ATAATATATTA
* *
31805173 TTAATATAAT-
1 ATAATATATTA
*
31805183 AT-TTATATTA
1 ATAATATATTA
31805193 ATATCATATATTA
1 ATA--ATATATTA
*
31805206 TTAATA-ATATA
1 ATAATATAT-TA
*
31805217 TTAATATATTA
1 ATAATATATTA
* *
31805228 TTAATGTATT-
1 ATAATATATTA
31805238 AT--T-TATTA
1 ATAATATATTA
31805246 TATAATATATTA
1 -ATAATATATTA
* *
31805258 TATTATTTATTA
1 -ATAATATATTA
31805270 ATAATATATTA
1 ATAATATATTA
31805281 TATTAATA-AGTT-
1 -A-TAATATA-TTA
*
31805293 ATTATATTATTA
1 ATAATA-TATTA
*
31805305 ATATATTATTTTA
1 ATA-A-TATATTA
31805318 ATAATATA-T-
1 ATAATATATTA
31805327 ATAATATATTA
1 ATAATATATTA
31805338 AT-A-ATA-TA
1 ATAATATATTA
*
31805346 AT-AT-TCATAA
1 ATAATAT-ATTA
31805356 ATAATATATTAA
1 ATAATATATT-A
31805368 ACTAATATATTA
1 A-TAATATATTA
**
31805380 ATAA-ATAAAA
1 ATAATATATTA
*
31805390 ATATTATATTA
1 ATAATATATTA
31805401 ATAA
1 ATAA
31805405 ATAATATATT
Statistics
Matches: 236, Mismatches: 38, Indels: 74
0.68 0.11 0.21
Matches are distributed among these distances:
7 4 0.02
8 7 0.03
9 19 0.08
10 36 0.15
11 85 0.36
12 46 0.19
13 33 0.14
14 6 0.03
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (11 bp):
ATAATATATTA
Found at i:31805355 original size:14 final size:13
Alignment explanation
Indices: 31805332--31805411 Score: 55
Period size: 13 Copynumber: 6.3 Consensus size: 13
31805322 TATATATAAT
31805332 ATATTAATAATATA
1 ATATTAATAA-ATA
*
31805346 ATATTCATAAATA
1 ATATTAATAAATA
*
31805359 ATA-TATTAAACTAA
1 ATATTAATAAA-T-A
31805373 TATATTAATAAATA
1 -ATATTAATAAATA
*
31805387 A-A--AAT--ATT
1 ATATTAATAAATA
31805395 ATATTAATAAATA
1 ATATTAATAAATA
31805408 ATAT
1 ATAT
31805412 ATTAGTAAAC
Statistics
Matches: 51, Mismatches: 6, Indels: 19
0.67 0.08 0.25
Matches are distributed among these distances:
8 3 0.06
9 1 0.02
10 3 0.06
11 3 0.06
12 6 0.12
13 14 0.27
14 11 0.22
15 4 0.08
16 6 0.12
ACGTcount: A:0.57, C:0.03, G:0.00, T:0.40
Consensus pattern (13 bp):
ATATTAATAAATA
Found at i:31805358 original size:18 final size:16
Alignment explanation
Indices: 31805320--31805413 Score: 63
Period size: 16 Copynumber: 5.9 Consensus size: 16
31805310 TTATTTTAAT
*
31805320 AATATATATAATATATT
1 AATA-ATATAATATATA
31805337 AATAATATAATATTCATA
1 AATAATATAATA-T-ATA
31805355 AATAATAT-AT-TA-A
1 AATAATATAATATATA
* *
31805368 ACTAATATATTA-ATA
1 AATAATATAATATATA
* * *
31805383 AATAAAAATATTATATT
1 AAT-AATATAATATATA
31805400 AATAA-ATAATATAT
1 AATAATATAATATAT
31805414 TAGTAAACAT
Statistics
Matches: 63, Mismatches: 7, Indels: 16
0.73 0.08 0.19
Matches are distributed among these distances:
13 8 0.13
14 3 0.05
15 12 0.19
16 18 0.29
17 12 0.19
18 10 0.16
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
AATAATATAATATATA
Found at i:31805399 original size:49 final size:51
Alignment explanation
Indices: 31805319--31805415 Score: 144
Period size: 49 Copynumber: 1.9 Consensus size: 51
31805309 ATTATTTTAA
* * *
31805319 TAATATATATAATATATTAATAATATAATATTCATAAATAATATATTAAAC
1 TAATATATATAATATAATAAAAATATAATATTAATAAATAATATATTAAAC
*
31805370 TAATATAT-TAATA-AATAAAAATATTATATTAATAAATAATATATTA
1 TAATATATATAATATAATAAAAATATAATATTAATAAATAATATATTA
31805416 GTAAACATTA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
49 29 0.69
50 5 0.12
51 8 0.19
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.41
Consensus pattern (51 bp):
TAATATATATAATATAATAAAAATATAATATTAATAAATAATATATTAAAC
Found at i:31805569 original size:15 final size:15
Alignment explanation
Indices: 31805529--31805583 Score: 51
Period size: 15 Copynumber: 3.6 Consensus size: 15
31805519 AATTTAATAA
*
31805529 ATAAAAAAT-AAAAC
1 ATAAAATATAAAAAC
*
31805543 A-AAAATTTTAAAAAC
1 ATAAAA-TATAAAAAC
31805558 ATAAAATATAAAACAC
1 ATAAAATATAAAA-AC
31805574 ATAATAATAT
1 ATAA-AATAT
31805584 CAAATATCAA
Statistics
Matches: 33, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
13 4 0.12
14 2 0.06
15 12 0.36
16 10 0.30
17 5 0.15
ACGTcount: A:0.69, C:0.07, G:0.00, T:0.24
Consensus pattern (15 bp):
ATAAAATATAAAAAC
Found at i:31806163 original size:18 final size:19
Alignment explanation
Indices: 31806142--31806178 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
31806132 TTAAATCGTA
*
31806142 TTATTTTTTATTT-TATTT
1 TTATATTTTATTTATATTT
31806160 TTATATTTTATTTATATTT
1 TTATATTTTATTTATATTT
31806179 ATTCATATCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (19 bp):
TTATATTTTATTTATATTT
Found at i:31806166 original size:13 final size:12
Alignment explanation
Indices: 31806142--31806172 Score: 53
Period size: 13 Copynumber: 2.5 Consensus size: 12
31806132 TTAAATCGTA
31806142 TTATTTTTTATT
1 TTATTTTTTATT
31806154 TTATTTTTATATT
1 TTATTTTT-TATT
31806167 TTATTT
1 TTATTT
31806173 ATATTTATTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
12 8 0.44
13 10 0.56
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (12 bp):
TTATTTTTTATT
Found at i:31806192 original size:11 final size:11
Alignment explanation
Indices: 31806178--31806206 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
31806168 TATTTATATT
31806178 TATTCATATCA
1 TATTCATATCA
31806189 TATTCATATCA
1 TATTCATATCA
31806200 TA-TCATA
1 TATTCATA
31806207 ATATTATATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.28
11 13 0.72
ACGTcount: A:0.38, C:0.17, G:0.00, T:0.45
Consensus pattern (11 bp):
TATTCATATCA
Found at i:31813226 original size:21 final size:21
Alignment explanation
Indices: 31813200--31813241 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
31813190 GCGTCCGAAC
*
31813200 GTAAAAGCTTATCTAAAATTT
1 GTAAAAGCTTATATAAAATTT
31813221 GTAAAAGCTTATATAAAATTT
1 GTAAAAGCTTATATAAAATTT
31813242 TGAAATGTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.45, C:0.07, G:0.10, T:0.38
Consensus pattern (21 bp):
GTAAAAGCTTATATAAAATTT
Found at i:31813439 original size:32 final size:32
Alignment explanation
Indices: 31813399--31813459 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
31813389 ACAAAATTTA
** *
31813399 TTTGTTTATTTTTTATAATA-GATAAAATCGG
1 TTTGTTTATTACTTATAATATAATAAAATCGG
31813430 TTTGCTTTATTACTTATAATATAATAAAAT
1 TTTG-TTTATTACTTATAATATAATAAAAT
31813460 ATATATTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 4 0.16
32 14 0.56
33 7 0.28
ACGTcount: A:0.36, C:0.05, G:0.08, T:0.51
Consensus pattern (32 bp):
TTTGTTTATTACTTATAATATAATAAAATCGG
Found at i:31814067 original size:14 final size:15
Alignment explanation
Indices: 31814037--31814071 Score: 63
Period size: 14 Copynumber: 2.4 Consensus size: 15
31814027 TGTACAAAAA
31814037 AATTTAATTTGAATT
1 AATTTAATTTGAATT
31814052 AATTTAATTT-AATT
1 AATTTAATTTGAATT
31814066 AATTTA
1 AATTTA
31814072 TATAATCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (15 bp):
AATTTAATTTGAATT
Found at i:31814391 original size:21 final size:22
Alignment explanation
Indices: 31814340--31814397 Score: 64
Period size: 21 Copynumber: 2.6 Consensus size: 22
31814330 TTATTTTTTA
* *
31814340 AAAAATTATTCTTATAAATTATT
1 AAAAATTAATATTA-AAATTATT
**
31814363 AATGATTAA-ATTAAAATTATT
1 AAAAATTAATATTAAAATTATT
31814384 AAAAATTAATATTA
1 AAAAATTAATATTA
31814398 TAAAATTTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
21 15 0.54
22 7 0.25
23 6 0.21
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.43
Consensus pattern (22 bp):
AAAAATTAATATTAAAATTATT
Found at i:31814407 original size:15 final size:16
Alignment explanation
Indices: 31814370--31814408 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
31814360 ATTAATGATT
31814370 AAATTAAAATTATTAA
1 AAATTAAAATTATTAA
*
31814386 AAATTAATATTA-TAA
1 AAATTAAAATTATTAA
*
31814401 AATTTAAA
1 AAATTAAA
31814409 TTCCTTTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
15 9 0.45
16 11 0.55
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
AAATTAAAATTATTAA
Found at i:31814981 original size:21 final size:20
Alignment explanation
Indices: 31814911--31814971 Score: 78
Period size: 20 Copynumber: 3.3 Consensus size: 20
31814901 CTTATCTTAT
31814911 AATTTTTAATTTA-TTTT--
1 AATTTTTAATTTATTTTTAA
*
31814928 AATTTATAA-TT-TTTTTAA
1 AATTTTTAATTTATTTTTAA
31814946 AATTTTTAATTTATTTTTAA
1 AATTTTTAATTTATTTTTAA
31814966 AATTTT
1 AATTTT
31814972 ATATCTTATT
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
16 6 0.16
17 8 0.22
18 8 0.22
19 2 0.05
20 13 0.35
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
AATTTTTAATTTATTTTTAA
Found at i:31816780 original size:92 final size:90
Alignment explanation
Indices: 31816643--31816827 Score: 212
Period size: 92 Copynumber: 2.0 Consensus size: 90
31816633 ATGATTTGTG
* *
31816643 TTTTTATATTATTAAAATATTAAAATTTATATATTTTATATAAAAATCATACATTAAAATTCATA
1 TTTTTATATTATTAAAATATTAAAATTTATATATTTTATACAAAAATCACACATTAAAATTCATA
*
31816708 TCGACATAAAAATATAAAATATATAT
66 TCAACATAAAAATATAAAATATAT-T
* * * * *
31816734 TTTTTA-ATTTTTAAAATATATATATAGTTT-TATATTTTATACAAAAATCACATATTATAATTT
1 TTTTTATATTATTAAAATAT-TA-A-AATTTATATATTTTATACAAAAATCACACATTAAAATTC
* * * *
31816797 ATGTTAATATGAAAATATAAAATATATT
63 ATATCAACATAAAAATATAAAATATATT
31816825 TTT
1 TTT
31816828 AAAATTTTGT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
90 12 0.15
91 12 0.15
92 51 0.65
93 4 0.05
ACGTcount: A:0.47, C:0.04, G:0.02, T:0.46
Consensus pattern (90 bp):
TTTTTATATTATTAAAATATTAAAATTTATATATTTTATACAAAAATCACACATTAAAATTCATA
TCAACATAAAAATATAAAATATATT
Found at i:31817846 original size:23 final size:23
Alignment explanation
Indices: 31817816--31817859 Score: 79
Period size: 23 Copynumber: 1.9 Consensus size: 23
31817806 TAATGATTAG
31817816 TTTATTGTTCATGAATATATTTA
1 TTTATTGTTCATGAATATATTTA
*
31817839 TTTATTGTTTATGAATATATT
1 TTTATTGTTCATGAATATATT
31817860 AATATATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.02, G:0.09, T:0.59
Consensus pattern (23 bp):
TTTATTGTTCATGAATATATTTA
Found at i:31820369 original size:13 final size:13
Alignment explanation
Indices: 31820340--31820378 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
31820330 AATCTATTTA
31820340 AATATATTAAAAT
1 AATATATTAAAAT
31820353 --TATATTAAAAT
1 AATATATTAAAAT
*
31820364 AATATATAAAAAT
1 AATATATTAAAAT
31820377 AA
1 AA
31820379 AAATAAATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
11 11 0.48
13 12 0.52
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AATATATTAAAAT
Found at i:31820385 original size:24 final size:24
Alignment explanation
Indices: 31820340--31820385 Score: 56
Period size: 24 Copynumber: 1.9 Consensus size: 24
31820330 AATCTATTTA
* * * *
31820340 AATATATTAAAATTATATTAAAAT
1 AATATATAAAAATAAAAATAAAAT
31820364 AATATATAAAAATAAAAATAAA
1 AATATATAAAAATAAAAATAAA
31820386 TTTAAAAAAC
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 18 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (24 bp):
AATATATAAAAATAAAAATAAAAT
Found at i:31821672 original size:18 final size:20
Alignment explanation
Indices: 31821649--31821685 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
31821639 ATAGGATTGA
31821649 ATTTATAAT-T-AAATAATT
1 ATTTATAATATAAAATAATT
31821667 ATTTATAATATAAAATAAT
1 ATTTATAATATAAAATAAT
31821686 AATAATAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
ATTTATAATATAAAATAATT
Found at i:31824644 original size:2 final size:2
Alignment explanation
Indices: 31824637--31824670 Score: 59
Period size: 2 Copynumber: 17.0 Consensus size: 2
31824627 GACATCTTAC
*
31824637 AT AT AT AT AT AT AT AT AC AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31824671 TTACATACAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:31825768 original size:4 final size:4
Alignment explanation
Indices: 31825759--31825795 Score: 74
Period size: 4 Copynumber: 9.2 Consensus size: 4
31825749 GCGTGTAGAC
31825759 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
31825796 TTCTGTTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 33 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:31832633 original size:1 final size:1
Alignment explanation
Indices: 31832627--31832651 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
31832617 GCAAAGTTGG
31832627 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
31832652 GATTTGGTGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:31833087 original size:10 final size:11
Alignment explanation
Indices: 31833065--31833102 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
31833055 TAATATAATT
*
31833065 TAAAATTTTAA
1 TAAAAATTTAA
31833076 TAAAAA-TTAA
1 TAAAAATTTAA
31833086 TAATAAATTTAA
1 TAA-AAATTTAA
31833098 TAAAA
1 TAAAA
31833103 TATAAAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
10 7 0.29
11 10 0.42
12 7 0.29
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (11 bp):
TAAAAATTTAA
Found at i:31833093 original size:23 final size:24
Alignment explanation
Indices: 31833067--31833120 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
31833057 ATATAATTTA
* *
31833067 AAATTTTAATAAAA-ATTAATAAT
1 AAATTTTAATAAAATATAAAAAAT
31833090 AAA-TTTAATAAAATATAAAAAAT
1 AAATTTTAATAAAATATAAAAAAT
*
31833113 ATATTTTA
1 AAATTTTA
31833121 TATATTTAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
22 10 0.38
23 12 0.46
24 4 0.15
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (24 bp):
AAATTTTAATAAAATATAAAAAAT
Found at i:31833146 original size:37 final size:40
Alignment explanation
Indices: 31833089--31833163 Score: 97
Period size: 37 Copynumber: 1.9 Consensus size: 40
31833079 AAATTAATAA
31833089 TAAATTTAATAAAATATAAAA-A-AT-ATATTTTATATATT
1 TAAATTTAATAAAATATAAAATACATAAT-TTTTATATATT
31833127 TAAA-TTAATACAAAT-TAAAATACATAATTTTTATATA
1 TAAATTTAATA-AAATATAAAATACATAATTTTTATATA
31833164 AATTATTAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
37 11 0.33
38 9 0.27
39 11 0.33
40 2 0.06
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.43
Consensus pattern (40 bp):
TAAATTTAATAAAATATAAAATACATAATTTTTATATATT
Found at i:31834775 original size:2 final size:2
Alignment explanation
Indices: 31834770--31834803 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
31834760 CGTGTGTATG
31834770 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31834804 TCTTTAGGCG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31837069 original size:64 final size:65
Alignment explanation
Indices: 31836967--31837090 Score: 241
Period size: 64 Copynumber: 1.9 Consensus size: 65
31836957 TAGTTTGATA
31836967 CTATATCTTTTGTTATTTTTTCCTTTGTTTTCTACTGTCATTAATGATTTATATTTTAGGATATT
1 CTATATCTTTTGTTATTTTTTCCTTTGTTTTCTACTGTCATTAATGATTTATATTTTAGGATATT
31837032 CTATATCTTTTGTT-TTTTTTCCTTTGTTTTCTACTGTCATTAATGATTTATATTTTAGG
1 CTATATCTTTTGTTATTTTTTCCTTTGTTTTCTACTGTCATTAATGATTTATATTTTAGG
31837091 TAGCTTTTCT
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
64 45 0.76
65 14 0.24
ACGTcount: A:0.19, C:0.11, G:0.10, T:0.60
Consensus pattern (65 bp):
CTATATCTTTTGTTATTTTTTCCTTTGTTTTCTACTGTCATTAATGATTTATATTTTAGGATATT
Found at i:31846343 original size:41 final size:41
Alignment explanation
Indices: 31846272--31846357 Score: 100
Period size: 41 Copynumber: 2.1 Consensus size: 41
31846262 TTAACTTACT
*
31846272 TATTACATAGGAATGACATGTAAGAGTTGACCCAAACCAAC
1 TATTACATAGGAATGACATGTAAGAATTGACCCAAACCAAC
* ** * * * *
31846313 TATTACATATGAATGTGATGTAATAATTGACTCTAACCAAT
1 TATTACATAGGAATGACATGTAAGAATTGACCCAAACCAAC
31846354 TATT
1 TATT
31846358 TGATATTTTA
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.40, C:0.15, G:0.14, T:0.31
Consensus pattern (41 bp):
TATTACATAGGAATGACATGTAAGAATTGACCCAAACCAAC
Found at i:31846877 original size:12 final size:12
Alignment explanation
Indices: 31846862--31846886 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31846852 AAATTTAATG
31846862 TAAAAATATTAT
1 TAAAAATATTAT
31846874 TAAAAATATTAT
1 TAAAAATATTAT
31846886 T
1 T
31846887 TATAATTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (12 bp):
TAAAAATATTAT
Found at i:31851528 original size:16 final size:14
Alignment explanation
Indices: 31851498--31851532 Score: 52
Period size: 16 Copynumber: 2.4 Consensus size: 14
31851488 GGGTTGGAAT
31851498 TATTAAATTTTAAA
1 TATTAAATTTTAAA
31851512 TATTAAATCTGTTAAA
1 TATTAAAT-T-TTAAA
31851528 TATTA
1 TATTA
31851533 TCTATTAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 1 0.05
16 10 0.53
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.49
Consensus pattern (14 bp):
TATTAAATTTTAAA
Found at i:31855808 original size:2 final size:2
Alignment explanation
Indices: 31855801--31855842 Score: 84
Period size: 2 Copynumber: 21.0 Consensus size: 2
31855791 AGGTAGGTTT
31855801 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31855843 AATTGTTTCA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 40 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:31860424 original size:23 final size:23
Alignment explanation
Indices: 31860398--31860445 Score: 78
Period size: 23 Copynumber: 2.1 Consensus size: 23
31860388 TGTGGACTTG
*
31860398 ATCAATGTTTATAATAAAACATT
1 ATCAATGTTTAAAATAAAACATT
*
31860421 ATCAATGTTTAAAATGAAACATT
1 ATCAATGTTTAAAATAAAACATT
31860444 AT
1 AT
31860446 ACTGAGTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.08, G:0.06, T:0.38
Consensus pattern (23 bp):
ATCAATGTTTAAAATAAAACATT
Found at i:31872485 original size:27 final size:27
Alignment explanation
Indices: 31872455--31872539 Score: 73
Period size: 33 Copynumber: 2.9 Consensus size: 27
31872445 AAGCGCCAGC
31872455 AGAGCCAAAGAAAGAAGAATCAAAAGA
1 AGAGCCAAAGAAAGAAGAATCAAAAGA
* *
31872482 AGAGCCAGAAGCAAGGAATGAAGAAGTC-AAGGT
1 AGAGCCA-AAG--A--AA-GAAGAA-TCAAAAGA
*
31872515 AGAGCCAAAGAAAGAAGAACCAAAA
1 AGAGCCAAAGAAAGAAGAATCAAAA
31872540 ACTGAGGCAC
Statistics
Matches: 46, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
26 1 0.02
27 15 0.33
28 5 0.11
30 2 0.04
32 5 0.11
33 16 0.35
34 2 0.04
ACGTcount: A:0.56, C:0.13, G:0.26, T:0.05
Consensus pattern (27 bp):
AGAGCCAAAGAAAGAAGAATCAAAAGA
Found at i:31885222 original size:42 final size:42
Alignment explanation
Indices: 31885170--31885252 Score: 112
Period size: 42 Copynumber: 2.0 Consensus size: 42
31885160 TTTTGAGTTC
* * * *
31885170 TGTTATTCTTCATAGTTAGCCATTTTGTGGTTTAGGGTTTTT
1 TGTTATTCTTCAAAGTTAGCCATATTCTGGTTTAGGATTTTT
* *
31885212 TGTTGTTCTTCAAAGTTAGGCATATTCTGGTTTAGGATTTT
1 TGTTATTCTTCAAAGTTAGCCATATTCTGGTTTAGGATTTT
31885253 CTATAATTCT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 35 1.00
ACGTcount: A:0.17, C:0.10, G:0.22, T:0.52
Consensus pattern (42 bp):
TGTTATTCTTCAAAGTTAGCCATATTCTGGTTTAGGATTTTT
Found at i:31885263 original size:42 final size:42
Alignment explanation
Indices: 31885174--31885265 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 42
31885164 GAGTTCTGTT
* * * * * * *
31885174 ATTCTTCATAGTTAGCCATTTTGTGGTTTAGGGTTTTTTGTT
1 ATTCTTCAAAGTTAGCCATATTCTGGTTTAGGATTTTCTATA
* *
31885216 GTTCTTCAAAGTTAGGCATATTCTGGTTTAGGATTTTCTATA
1 ATTCTTCAAAGTTAGCCATATTCTGGTTTAGGATTTTCTATA
31885258 ATTCTTCA
1 ATTCTTCA
31885266 TTCTTAGACA
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.20, C:0.12, G:0.18, T:0.50
Consensus pattern (42 bp):
ATTCTTCAAAGTTAGCCATATTCTGGTTTAGGATTTTCTATA
Found at i:31885337 original size:42 final size:42
Alignment explanation
Indices: 31885291--31885606 Score: 166
Period size: 42 Copynumber: 7.1 Consensus size: 42
31885281 TGATTTATAA
* *
31885291 TTTTCTGTTGTTGTTCTTAATTACTCAAATTTATAGTTAAGG
1 TTTTCTATTATTGTTCTTAATTACTCAAATTTATAGTTAAGG
* * *
31885333 TTTTCTATTATTATTCTTAATTGCTCAAATTTATATTTAAGG
1 TTTTCTATTATTGTTCTTAATTACTCAAATTTATAGTTAAGG
* * * * * *
31885375 TTTTTTACTGTTATTCTTAATTGCTCGAGTTACTTGAATTTATAGTTAGGG
1 TTTTCTATTATTGTTCTTAATTACTC-----A----AATTTATAGTTAAGG
* * *
31885426 TTTTCTACTATTGTTCTTAATTACTTAAATTTATATTTAAGG
1 TTTTCTATTATTGTTCTTAATTACTCAAATTTATAGTTAAGG
* * * * * *
31885468 TTTTTTGTTTTTGTTCTTAGTTGCTCGAATTGCTCAAATTTATAGTTATGA
1 TTTTCTATTATTGTTC-----T--T--AATTACTCAAATTTATAGTTAAGG
* * * * *
31885519 TTTTCTACTATTGTTCCTAATTGCTCAAAATTATAGTT-AGTA
1 TTTTCTATTATTGTTCTTAATTACTCAAATTTATAGTTAAG-G
** ** * * *
31885561 TTTTCTGCTATTACTCTTAATTGCTCAAAGTTATAGTTAGGG
1 TTTTCTATTATTGTTCTTAATTACTCAAATTTATAGTTAAGG
31885603 TTTT
1 TTTT
31885607 TTGCTGTTTA
Statistics
Matches: 214, Mismatches: 40, Indels: 40
0.73 0.14 0.14
Matches are distributed among these distances:
41 1 0.00
42 142 0.66
43 1 0.00
44 1 0.00
46 1 0.00
47 2 0.01
49 1 0.00
51 65 0.30
ACGTcount: A:0.24, C:0.11, G:0.13, T:0.52
Consensus pattern (42 bp):
TTTTCTATTATTGTTCTTAATTACTCAAATTTATAGTTAAGG
Found at i:31885579 original size:93 final size:93
Alignment explanation
Indices: 31885309--31885586 Score: 335
Period size: 93 Copynumber: 3.0 Consensus size: 93
31885299 TGTTGTTCTT
* *
31885309 AATTACTCAAATTTATAGTTAAGGTTTTCTATTATTATTCTTAATTGCTCAAATTTATATTTAAG
1 AATTACTCAAATTTATAGTTAAGGTTTTCTACTATTGTTCTTAATTGCTCAAATTTATATTTAAG
* *
31885374 GTTTTTTACTGTTATTCTTAATTGCTCG
66 GTTTTTTGCTATTATTCTTAATTGCTCG
* ** * * *
31885402 AGTTACTTGAATTTATAGTTAGGGTTTTCTACTATTGTTCTTAATTACTTAAATTTATATTTAAG
1 AATTACTCAAATTTATAGTTAAGGTTTTCTACTATTGTTCTTAATTGCTCAAATTTATATTTAAG
* * * *
31885467 GTTTTTTGTTTTTGTTCTTAGTTGCTCG
66 GTTTTTTGCTATTATTCTTAATTGCTCG
* * * * * *
31885495 AATTGCTCAAATTTATAGTTATGATTTTCTACTATTGTTCCTAATTGCTCAAAATTATAGTT-A-
1 AATTACTCAAATTTATAGTTAAGGTTTTCTACTATTGTTCTTAATTGCTCAAATTTATATTTAAG
*
31885558 GTATTTTCTGCTATTACTCTTAATTGCTC
66 GT-TTTT-TGCTATTATTCTTAATTGCTC
31885587 AAAGTTATAG
Statistics
Matches: 154, Mismatches: 29, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
91 2 0.01
92 5 0.03
93 147 0.95
ACGTcount: A:0.26, C:0.12, G:0.12, T:0.51
Consensus pattern (93 bp):
AATTACTCAAATTTATAGTTAAGGTTTTCTACTATTGTTCTTAATTGCTCAAATTTATATTTAAG
GTTTTTTGCTATTATTCTTAATTGCTCG
Found at i:31898485 original size:21 final size:20
Alignment explanation
Indices: 31898441--31898478 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
31898431 TTGGTGACAT
31898441 TCAA-ATTTTATTAATTAAC
1 TCAATATTTTATTAATTAAC
31898460 TCAATATTTTGATT-ATTAA
1 TCAATATTTT-ATTAATTAA
31898479 GTGCAATTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 4 0.24
20 10 0.59
21 3 0.18
ACGTcount: A:0.39, C:0.08, G:0.03, T:0.50
Consensus pattern (20 bp):
TCAATATTTTATTAATTAAC
Found at i:31912710 original size:3 final size:3
Alignment explanation
Indices: 31912667--31912692 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
31912657 AGATTTAAAT
31912667 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
31912693 TTCTTAATTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:31912840 original size:21 final size:22
Alignment explanation
Indices: 31912823--31912863 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
31912813 AACTCAATAA
31912823 TAAT-CTAAACAAATTCAAAAT
1 TAATCCTAAACAAATTCAAAAT
* *
31912844 TTATCCTAATCAAATTCAAA
1 TAATCCTAAACAAATTCAAA
31912864 TCATTTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 3 0.18
22 14 0.82
ACGTcount: A:0.51, C:0.17, G:0.00, T:0.32
Consensus pattern (22 bp):
TAATCCTAAACAAATTCAAAAT
Found at i:31913669 original size:2 final size:2
Alignment explanation
Indices: 31913664--31913695 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
31913654 AAAAAACCCA
31913664 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
31913696 TAATCGTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:31920798 original size:17 final size:19
Alignment explanation
Indices: 31920778--31920812 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
31920768 TAATTAAAAT
31920778 AATA-AAAAAT-ATATTAA
1 AATACAAAAATAATATTAA
31920795 AATACAAAAATAATATTA
1 AATACAAAAATAATATTA
31920813 GCTCGCACAC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 6 0.38
19 6 0.38
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (19 bp):
AATACAAAAATAATATTAA
Found at i:31920804 original size:20 final size:21
Alignment explanation
Indices: 31920770--31920810 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
31920760 TAATTTCATA
31920770 ATTAAAATAATAAAA-AATAT
1 ATTAAAATAATAAAATAATAT
31920790 ATTAAAATACA-AAAATAATAT
1 ATTAAAATA-ATAAAATAATAT
31920811 TAGCTCGCAC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 13 0.68
21 6 0.32
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (21 bp):
ATTAAAATAATAAAATAATAT
Found at i:31921166 original size:145 final size:145
Alignment explanation
Indices: 31920781--31921216 Score: 671
Period size: 144 Copynumber: 3.0 Consensus size: 145
31920771 TTAAAATAAT
*
31920781 AAAAAATATATTAAAATACAAAAATAATATTAGCTCGCACACTATTCAAGTTGAGCATTAAAATG
1 AAAAAATATATTAAAATACAAAAATAATATTAGCTCGCACACTATTCAAGTTGGGCATTAAAATG
*
31920846 CTCAAATTTACCTTGTTTTCGAACTCGAACTTAACTCAACAATAATTGAAATAAATTCAAATTTT
66 CTCAAATTTACCTTGTTTTCGAACTCGAACTTAACTCAACAATAATAGAAATAAATTCAAATTTT
*
31920911 ATCCAAATTAACTTC
131 ATCTAAATTAACTTC
* * * ** *
31920926 -AAAAATATATTAAAATAAAAAAATAATATTAGCTTGCACACTGTTCAAGTCAGGTATTAAAATG
1 AAAAAATATATTAAAATACAAAAATAATATTAGCTCGCACACTATTCAAGTTGGGCATTAAAATG
*
31920990 CTCAAATTTACCTTGTTTTCAAACTCGAACTTAACTCAACAATAATAGAAATAAATTCAAATTTT
66 CTCAAATTTACCTTGTTTTCGAACTCGAACTTAACTCAACAATAATAGAAATAAATTCAAATTTT
31921055 ATCTAAATTAACTTC
131 ATCTAAATTAACTTC
* * * *
31921070 AAAAAATATATTAAAATACAAAAATAATATTAACTCACGCACTATTTAAGTTGGGCATTAAAATG
1 AAAAAATATATTAAAATACAAAAATAATATTAGCTCGCACACTATTCAAGTTGGGCATTAAAATG
* ** *
31921135 TTCAAATTTACCTTGTTTTCGAACTTAAACTTAACTCAACAATAATA-AAAAAAATTCAAATTTT
66 CTCAAATTTACCTTGTTTTCGAACTCGAACTTAACTCAACAATAATAGAAATAAATTCAAATTTT
*
31921199 AT-TCGAATTAACTTC
131 ATCT-AAATTAACTTC
31921214 AAA
1 AAA
31921217 GAACTTATAA
Statistics
Matches: 263, Mismatches: 26, Indels: 5
0.89 0.09 0.02
Matches are distributed among these distances:
143 1 0.00
144 165 0.63
145 97 0.37
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (145 bp):
AAAAAATATATTAAAATACAAAAATAATATTAGCTCGCACACTATTCAAGTTGGGCATTAAAATG
CTCAAATTTACCTTGTTTTCGAACTCGAACTTAACTCAACAATAATAGAAATAAATTCAAATTTT
ATCTAAATTAACTTC
Found at i:31923335 original size:375 final size:375
Alignment explanation
Indices: 31922640--31923381 Score: 1126
Period size: 375 Copynumber: 2.0 Consensus size: 375
31922630 ATCTCTTAGG
* * * **
31922640 TTAAGTGCATAACTAACTTGAAGGTCGTCGAGGTGTTAATTATTCCGGATGATCCAAGATTAGTG
1 TTAAATGCATAACTAACTTGAAAGTCGTCAAGGTGTTAATTATTCAAGATGATCCAAGATTAGTG
* * *
31922705 TTGGAGTTCTTCTAGTTAACATGGGACTTATGTTTTATTTCAACAATTTGGATTCGAGTCTCTTT
66 TTGGAGTTCTTCTAGTTAACATAGGACTTATGTTTTATTTCAACAATTTGGATTCAAGTCTCTCT
* * * * ** *
31922770 TTTGAACTCTAACGATGAATCGAGCATCTGATCTTTCTTAAAAAGTTATTTAGTCTGGTCGATTT
131 TTTGAACTCTAACAATGAACCAAACATCCCATCTTTCATAAAAAGTTATTTAGTCTGGTCGATTT
* * * * **
31922835 AACTTGGGGTTCATTCGCTTTGGCCGGTCTAATTATATTAAATGAGGAAAAAAATAGTTTGAGCA
196 AACCTAGGGTTCATTCACTTTGACCGGTCTAACGATATTAAATGAGGAAAAAAATAGTTTGAGCA
31922900 AGAAAATTTAAAAAGAAAAGATAAAAAAATGTCTTTCCATCTTCACATTGACACATGGTATAGTT
261 AGAAAATTTAAAAAGAAAAGATAAAAAAATGTCTTTCCATCTTCACATTGACACATGGTATAGTT
*
31922965 TATACCGTCCATTTGATCT-AAGGTGCGATTATATAAAAGGCTATTGAAGA
326 TATACCGTCCATCTGATCTGAA-GTGCGATTATATAAAAGGCTATTGAAGA
**
31923015 TTAAATGCATAACTAACTTGAAAGTCGTCAAGGTGTTAATTATTCAAGATGATCTGAGATTAGTG
1 TTAAATGCATAACTAACTTGAAAGTCGTCAAGGTGTTAATTATTCAAGATGATCCAAGATTAGTG
* * *
31923080 TTGGAGTTCTTCTAGTTAACATAGGACTTGTGTTTTATTTTAGCAATTTGGATTCAAGTCTCTCT
66 TTGGAGTTCTTCTAGTTAACATAGGACTTATGTTTTATTTCAACAATTTGGATTCAAGTCTCTCT
* **
31923145 TTTGAACTCTGACAATGAACCAAACATCCCATCTTTCATGGAAAGTTATTTAGTCTGGTCGATTT
131 TTTGAACTCTAACAATGAACCAAACATCCCATCTTTCATAAAAAGTTATTTAGTCTGGTCGATTT
* * * *
31923210 GACCTAGGGTTCATTCACTTTGATCGGTCTAACGGTATTAAATGAGGAAAAAAGTAGTTTGAGCA
196 AACCTAGGGTTCATTCACTTTGACCGGTCTAACGATATTAAATGAGGAAAAAAATAGTTTGAGCA
**
31923275 AGAAAATTTAAAAAGAAAAGATAAAAAAATGTCTTTCCATCTTCAGTTTGACACATGGTATAGTT
261 AGAAAATTTAAAAAGAAAAGATAAAAAAATGTCTTTCCATCTTCACATTGACACATGGTATAGTT
* *
31923340 TATACCGTTCATCTGATCTGAAGTGTGATTATATAAAAGGCT
326 TATACCGTCCATCTGATCTGAAGTGCGATTATATAAAAGGCT
31923382 GTTGGGGCTT
Statistics
Matches: 328, Mismatches: 38, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
375 326 0.99
376 2 0.01
ACGTcount: A:0.32, C:0.14, G:0.19, T:0.35
Consensus pattern (375 bp):
TTAAATGCATAACTAACTTGAAAGTCGTCAAGGTGTTAATTATTCAAGATGATCCAAGATTAGTG
TTGGAGTTCTTCTAGTTAACATAGGACTTATGTTTTATTTCAACAATTTGGATTCAAGTCTCTCT
TTTGAACTCTAACAATGAACCAAACATCCCATCTTTCATAAAAAGTTATTTAGTCTGGTCGATTT
AACCTAGGGTTCATTCACTTTGACCGGTCTAACGATATTAAATGAGGAAAAAAATAGTTTGAGCA
AGAAAATTTAAAAAGAAAAGATAAAAAAATGTCTTTCCATCTTCACATTGACACATGGTATAGTT
TATACCGTCCATCTGATCTGAAGTGCGATTATATAAAAGGCTATTGAAGA
Found at i:31933277 original size:42 final size:42
Alignment explanation
Indices: 31933228--31933487 Score: 292
Period size: 42 Copynumber: 6.2 Consensus size: 42
31933218 TTTGATTTAT
*
31933228 GGTTTTCTATTATTGCTCTTAATTGCTCAAATTTATAGTTAA
1 GGTTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTTAA
* * * * * * *
31933270 GGCTTTCTGTTGTTGTTTTTAAATGCTCAAATTTCTATTTAA
1 GGTTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTTAA
* *
31933312 GGTTTTTTGTTATTGTTCTTAATTGCTCAAATTTATAG-TAA
1 GGTTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTTAA
* * * * *
31933353 GGGTTTTATGTTGTTATTCTTAATTGCTCAAATTTATAGTGAA
1 -GGTTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTTAA
* *
31933396 GGTTTTCTACTATTGTTCTTAATTGCTTCAAA-TTATAGTTAG
1 GGTTTTCTATTATTGTTCTTAATTGC-TCAAATTTATAGTTAA
** * *
31933438 GGTTTTCTGCTATTGTTCTTAATTG-TCAAATTTATAATTAG
1 GGTTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTTAA
31933479 GGTTTTCTA
1 GGTTTTCTA
31933488 CTGTTTAGGC
Statistics
Matches: 185, Mismatches: 29, Indels: 9
0.83 0.13 0.04
Matches are distributed among these distances:
40 5 0.03
41 20 0.11
42 153 0.83
43 7 0.04
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.51
Consensus pattern (42 bp):
GGTTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTTAA
Found at i:31933332 original size:84 final size:84
Alignment explanation
Indices: 31933222--31933487 Score: 331
Period size: 84 Copynumber: 3.2 Consensus size: 84
31933212 GCATATTTTG
* * *
31933222 ATTTATGGTTTTCTATTATTGCTCTTAATTGCTCAAATTTATAGTTAAGGCTTTCTGTTGTTGTT
1 ATTTAAGGTTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTTAAGGTTTTCTGTTGTTGTT
* * *
31933287 TTTAAATGCTCAAATTTCT
66 CTTAATTGCTCAAATTTAT
* * * *
31933306 ATTTAAGGTTTTTTGTTATTGTTCTTAATTGCTCAAATTTATAG-TAAGGGTTTTATGTTGTTAT
1 ATTTAAGGTTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTTAA-GGTTTTCTGTTGTTGT
31933370 TCTTAATTGCTCAAATTTAT
65 TCTTAATTGCTCAAATTTAT
* * * * * *
31933390 AGTGAAGGTTTTCTACTATTGTTCTTAATTGCTTCAAA-TTATAGTTAGGGTTTTCTGCTATTGT
1 ATTTAAGGTTTTCTATTATTGTTCTTAATTGC-TCAAATTTATAGTTAAGGTTTTCTGTTGTTGT
31933454 TCTTAATTG-TCAAATTTAT
65 TCTTAATTGCTCAAATTTAT
* *
31933473 AATTAGGGTTTTCTA
1 ATTTAAGGTTTTCTA
31933488 CTGTTTAGGC
Statistics
Matches: 156, Mismatches: 23, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
83 25 0.16
84 124 0.79
85 7 0.04
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.52
Consensus pattern (84 bp):
ATTTAAGGTTTTCTATTATTGTTCTTAATTGCTCAAATTTATAGTTAAGGTTTTCTGTTGTTGTT
CTTAATTGCTCAAATTTAT
Found at i:31933374 original size:126 final size:125
Alignment explanation
Indices: 31933244--31933484 Score: 331
Period size: 126 Copynumber: 1.9 Consensus size: 125
31933234 CTATTATTGC
* ** * * * *
31933244 TCTTAATTGCTCAAATTTATAGTTAAGGCTTTCTGTTGTTGTTTTTAAATGC-TCAAATTTCTAT
1 TCTTAATTGCTCAAATTTATAGTGAAGGCTTTCTACTATTGTTCTTAAATGCTTCAAA-TTATAG
* * *
31933308 TTAAGGTTTTTTGTTATTGTTCTTAATTGCTCAAATTTATAGTAAGGGTTTTATGTTGTTAT
65 TTAAGGTTTTCTGCTATTGTTCTTAATTG-TCAAATTTATAATAAGGGTTTTATGTTGTTAT
* *
31933370 TCTTAATTGCTCAAATTTATAGTGAAGGTTTTCTACTATTGTTCTTAATTGCTTCAAATTATAGT
1 TCTTAATTGCTCAAATTTATAGTGAAGGCTTTCTACTATTGTTCTTAAATGCTTCAAATTATAGT
* *
31933435 TAGGGTTTTCTGCTATTGTTCTTAATTGTCAAATTTATAATTAGGGTTTT
66 TAAGGTTTTCTGCTATTGTTCTTAATTGTCAAATTTATAATAAGGGTTTT
31933485 CTACTGTTTA
Statistics
Matches: 100, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
125 20 0.20
126 75 0.75
127 5 0.05
ACGTcount: A:0.24, C:0.10, G:0.15, T:0.51
Consensus pattern (125 bp):
TCTTAATTGCTCAAATTTATAGTGAAGGCTTTCTACTATTGTTCTTAAATGCTTCAAATTATAGT
TAAGGTTTTCTGCTATTGTTCTTAATTGTCAAATTTATAATAAGGGTTTTATGTTGTTAT
Found at i:31934202 original size:18 final size:18
Alignment explanation
Indices: 31934179--31934234 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
31934169 AAACCCTTGG
31934179 TTATAACAAAGTAAAAGC
1 TTATAACAAAGTAAAAGC
**
31934197 TTATAAC---G-AAAATT
1 TTATAACAAAGTAAAAGC
*
31934211 TTAAAACAAAGTAAAAGC
1 TTATAACAAAGTAAAAGC
31934229 TTATAA
1 TTATAA
31934235 TAGAAATTAA
Statistics
Matches: 28, Mismatches: 6, Indels: 8
0.67 0.14 0.19
Matches are distributed among these distances:
14 10 0.36
15 1 0.04
17 1 0.04
18 16 0.57
ACGTcount: A:0.55, C:0.09, G:0.09, T:0.27
Consensus pattern (18 bp):
TTATAACAAAGTAAAAGC
Found at i:31938666 original size:12 final size:12
Alignment explanation
Indices: 31938649--31938673 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31938639 ATTTATGTAA
31938649 GGTGAATAATAT
1 GGTGAATAATAT
31938661 GGTGAATAATAT
1 GGTGAATAATAT
31938673 G
1 G
31938674 TATGCATATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.00, G:0.28, T:0.32
Consensus pattern (12 bp):
GGTGAATAATAT
Found at i:31938958 original size:42 final size:42
Alignment explanation
Indices: 31938865--31938958 Score: 107
Period size: 42 Copynumber: 2.2 Consensus size: 42
31938855 CTGTTGTTGC
*
31938865 TTTTATTGTTTTTCTTAACTGATCAAAATTATAATTAGGGTT
1 TTTTATTGTTGTTCTTAACTGATCAAAATTATAATTAGGGTT
* * * * * * * *
31938907 TTCTGTTGTTGTTCTTAATTGCTCTAATTTGTAGTTAGGGTT
1 TTTTATTGTTGTTCTTAACTGATCAAAATTATAATTAGGGTT
31938949 TTTTATTGTT
1 TTTTATTGTT
31938959 CAGGGATATT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.20, C:0.07, G:0.16, T:0.56
Consensus pattern (42 bp):
TTTTATTGTTGTTCTTAACTGATCAAAATTATAATTAGGGTT
Found at i:31939700 original size:32 final size:32
Alignment explanation
Indices: 31939653--31939725 Score: 101
Period size: 32 Copynumber: 2.3 Consensus size: 32
31939643 AGACCTTTGG
31939653 TTATAACAAAATAAAAGCTTATAACAAAAATT
1 TTATAACAAAATAAAAGCTTATAACAAAAATT
* * *
31939685 TTATAATAAAGTAAAAGCTTATAACAGAAATT
1 TTATAACAAAATAAAAGCTTATAACAAAAATT
**
31939717 AAATAACAA
1 TTATAACAA
31939726 TGTAAGAGAC
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.59, C:0.08, G:0.05, T:0.27
Consensus pattern (32 bp):
TTATAACAAAATAAAAGCTTATAACAAAAATT
Found at i:31943633 original size:18 final size:19
Alignment explanation
Indices: 31943612--31943649 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
31943602 TTTTAATTAA
31943612 AAAATA-AAAATATA-TATT
1 AAAATACAAAA-ATACTATT
31943630 AAAATACAAAAATACTATT
1 AAAATACAAAAATACTATT
31943649 A
1 A
31943650 TGCTTTCAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.66, C:0.05, G:0.00, T:0.29
Consensus pattern (19 bp):
AAAATACAAAAATACTATT
Found at i:31954525 original size:22 final size:22
Alignment explanation
Indices: 31954479--31954518 Score: 57
Period size: 20 Copynumber: 1.9 Consensus size: 22
31954469 AATTTAAATT
*
31954479 TTTAATAAAAATTTTAAATAAA
1 TTTAATAAAAATTTAAAATAAA
31954501 TTTAAT-AAAA-TTAAAATA
1 TTTAATAAAAATTTAAAATA
31954519 TATATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 7 0.41
21 4 0.24
22 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TTTAATAAAAATTTAAAATAAA
Found at i:31956119 original size:7 final size:7
Alignment explanation
Indices: 31956107--31956154 Score: 52
Period size: 7 Copynumber: 7.6 Consensus size: 7
31956097 CAGATTCGAA
31956107 TTAAATT
1 TTAAATT
*
31956114 TTAAATC
1 TTAAATT
31956121 TTAAATT
1 TTAAATT
31956128 TTAAA--
1 TTAAATT
31956133 TTAAA-T
1 TTAAATT
31956139 TT-AATT
1 TTAAATT
31956145 TT-AATT
1 TTAAATT
31956151 TTAA
1 TTAA
31956155 TATTATATCA
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
5 7 0.19
6 11 0.31
7 18 0.50
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (7 bp):
TTAAATT
Found at i:31956138 original size:12 final size:12
Alignment explanation
Indices: 31956105--31956159 Score: 58
Period size: 12 Copynumber: 4.4 Consensus size: 12
31956095 ATCAGATTCG
31956105 AATTAAATTTTA
1 AATTAAATTTTA
31956117 AATCTTAAATTTTA
1 AA--TTAAATTTTA
31956131 AATTAAA-TTTA
1 AATTAAATTTTA
* *
31956142 ATTTTAATTTTA
1 AATTAAATTTTA
31956154 ATATTA
1 A-ATTA
31956160 TATCAATTTA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
11 9 0.26
12 12 0.34
13 2 0.06
14 12 0.34
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (12 bp):
AATTAAATTTTA
Found at i:31956167 original size:23 final size:23
Alignment explanation
Indices: 31956121--31956174 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
31956111 ATTTTAAATC
*
31956121 TTAAATTTTAAATTAAATTTAAT
1 TTAAATTTTAAATTAAATTCAAT
* *
31956144 TTTAATTTTAATATTATA-TCAAT
1 TTAAATTTTAA-ATTAAATTCAAT
31956167 TTAAATTT
1 TTAAATTT
31956175 AATCAACTAC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (23 bp):
TTAAATTTTAAATTAAATTCAAT
Found at i:31956173 original size:6 final size:6
Alignment explanation
Indices: 31956107--31956176 Score: 52
Period size: 6 Copynumber: 10.7 Consensus size: 6
31956097 CAGATTCGAA
* *
31956107 TTAAATT TTAAAT CTTAAATT TTAAA- TTAAAT TTAATT TTAATT TTAATAT
1 TTAAA-T TTAAAT -TTAAA-T TTAAAT TTAAAT TTAAAT TTAAAT TTAA-AT
31956158 TATATCAAT TTAAAT TTAA
1 T-TA--AAT TTAAAT TTAA
31956177 TCAACTACGT
Statistics
Matches: 54, Mismatches: 2, Indels: 15
0.76 0.03 0.21
Matches are distributed among these distances:
5 5 0.09
6 23 0.43
7 17 0.31
8 5 0.09
9 3 0.06
10 1 0.02
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (6 bp):
TTAAAT
Found at i:31959125 original size:21 final size:21
Alignment explanation
Indices: 31959101--31959143 Score: 54
Period size: 21 Copynumber: 2.0 Consensus size: 21
31959091 AGCATCTCAC
31959101 TTGG-TTTCTTCTATTT-ATTTA
1 TTGGCTTT-TTCT-TTTAATTTA
31959122 TTGGCTTTTTCTTTTAATTTA
1 TTGGCTTTTTCTTTTAATTTA
31959143 T
1 T
31959144 CTAAAAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 3 0.15
21 14 0.70
22 3 0.15
ACGTcount: A:0.14, C:0.09, G:0.09, T:0.67
Consensus pattern (21 bp):
TTGGCTTTTTCTTTTAATTTA
Found at i:31965520 original size:15 final size:15
Alignment explanation
Indices: 31965500--31965531 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
31965490 CATTCTGACT
31965500 AAGTTAAAGGACACA
1 AAGTTAAAGGACACA
31965515 AAGTTAAAGGACACA
1 AAGTTAAAGGACACA
31965530 AA
1 AA
31965532 TTCAAGTGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.56, C:0.12, G:0.19, T:0.12
Consensus pattern (15 bp):
AAGTTAAAGGACACA
Found at i:31967508 original size:19 final size:20
Alignment explanation
Indices: 31967471--31967514 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 20
31967461 ATTGAATAAA
31967471 TTATATAATTTTATTAATTT
1 TTATATAATTTTATTAATTT
31967491 TTATAT-ATTTT-TTAAATTT
1 TTATATAATTTTATT-AATTT
31967510 TTATA
1 TTATA
31967515 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 2 0.09
19 15 0.65
20 6 0.26
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (20 bp):
TTATATAATTTTATTAATTT
Found at i:31967518 original size:11 final size:10
Alignment explanation
Indices: 31967479--31967516 Score: 51
Period size: 10 Copynumber: 3.9 Consensus size: 10
31967469 AATTATATAA
*
31967479 TTTTATTAAT
1 TTTTATAAAT
*
31967489 TTTTATATAT
1 TTTTATAAAT
31967499 TTTT-TAAAT
1 TTTTATAAAT
31967508 TTTTATAAA
1 TTTTATAAA
31967517 ATAAAAATAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
9 8 0.33
10 16 0.67
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (10 bp):
TTTTATAAAT
Found at i:31980702 original size:17 final size:17
Alignment explanation
Indices: 31980680--31980712 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
31980670 AACCAAAGAC
31980680 TATCATATATATATTTA
1 TATCATATATATATTTA
*
31980697 TATCATATATTTATTT
1 TATCATATATATATTT
31980713 TTATTGAAGG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.36, C:0.06, G:0.00, T:0.58
Consensus pattern (17 bp):
TATCATATATATATTTA
Found at i:31981536 original size:15 final size:15
Alignment explanation
Indices: 31981518--31981550 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
31981508 AAAAATAATT
31981518 AAATTAATACATTAA
1 AAATTAATACATTAA
31981533 AAATTAATACATTAA
1 AAATTAATACATTAA
31981548 AAA
1 AAA
31981551 GATCTTGTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATTAATACATTAA
Found at i:31981748 original size:12 final size:12
Alignment explanation
Indices: 31981731--31981768 Score: 51
Period size: 12 Copynumber: 3.1 Consensus size: 12
31981721 GATTAGAATT
31981731 TTTTATTAAAAA
1 TTTTATTAAAAA
31981743 TTTTATTAAATAA
1 TTTTATTAAA-AA
31981756 TTTT-TTCAAAAA
1 TTTTATT-AAAAA
31981768 T
1 T
31981769 CTTAGGAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (12 bp):
TTTTATTAAAAA
Found at i:31998053 original size:20 final size:20
Alignment explanation
Indices: 31998025--31998062 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
31998015 ACTTTTTGAT
* *
31998025 CATTTACTGAAGAGAAAAGG
1 CATTGACTGAAGACAAAAGG
31998045 CATTGACTGAAGACAAAA
1 CATTGACTGAAGACAAAA
31998063 CAAACTATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.13, G:0.21, T:0.18
Consensus pattern (20 bp):
CATTGACTGAAGACAAAAGG
Found at i:32004079 original size:32 final size:30
Alignment explanation
Indices: 32004011--32004102 Score: 91
Period size: 30 Copynumber: 3.0 Consensus size: 30
32004001 AAAATTTTGA
*
32004011 AAATATA-ATAATTTAAAATACATTAAATAT
1 AAATATATATAATTTAAAATA-ATTAAAAAT
*
32004041 AAATATAATATAATTTAAAAT-TTTAAAAAT
1 AAATAT-ATATAATTTAAAATAATTAAAAAT
* *
32004071 AATTATATATAAATTTAATAA-AATAAAAAAT
1 AAATATATAT-AATTTAA-AATAATTAAAAAT
32004102 A
1 A
32004103 TATTTTATAT
Statistics
Matches: 52, Mismatches: 5, Indels: 9
0.79 0.08 0.14
Matches are distributed among these distances:
29 4 0.08
30 25 0.48
31 11 0.21
32 12 0.23
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.37
Consensus pattern (30 bp):
AAATATATATAATTTAAAATAATTAAAAAT
Found at i:32004101 original size:40 final size:41
Alignment explanation
Indices: 32004025--32004101 Score: 102
Period size: 40 Copynumber: 1.9 Consensus size: 41
32004015 ATAATAATTT
* **
32004025 AAAATACATTAAATATAAATATAATATAATTTAAAATTTTA
1 AAAATACATTAAATATAAATATAATAAAATAAAAAATTTTA
* *
32004066 AAAATA-ATTATATATAAATTTAATAAAATAAAAAAT
1 AAAATACATTAAATATAAATATAATAAAATAAAAAAT
32004102 ATATTTTATA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
40 25 0.81
41 6 0.19
ACGTcount: A:0.62, C:0.01, G:0.00, T:0.36
Consensus pattern (41 bp):
AAAATACATTAAATATAAATATAATAAAATAAAAAATTTTA
Found at i:32004174 original size:32 final size:31
Alignment explanation
Indices: 32004111--32004180 Score: 86
Period size: 31 Copynumber: 2.2 Consensus size: 31
32004101 TATATTTTAT
** * *
32004111 ATTTTTATATTGATATAAATTAAAATATATA
1 ATTTTTATATAAAAATAAAATAAAATATATA
32004142 ATTTTTATATAAAAATAAAATATAAATATATA
1 ATTTTTATATAAAAATAAAATA-AAATATATA
*
32004174 AATTTTA
1 ATTTTTA
32004181 ATATTTTACT
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
31 18 0.55
32 15 0.45
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.46
Consensus pattern (31 bp):
ATTTTTATATAAAAATAAAATAAAATATATA
Found at i:32012124 original size:149 final size:149
Alignment explanation
Indices: 32011851--32012145 Score: 538
Period size: 149 Copynumber: 2.0 Consensus size: 149
32011841 AACATCAGCT
*
32011851 TCTGATGAAAAATGGAGGGTCGATGTTTCTTTCTTAAATAAAGGCAAGGATGCTAAGGTGCTCAA
1 TCTGATGAAAAATGGAGGGTCGATGTTTCTTTCTTAAACAAAGGCAAGGATGCTAAGGTGCTCAA
* *
32011916 GGTAGAGCTTCTTGAGGCCATTGCACCACTTGAACGAGGAGCTGATGTCAACCCTGAGGACCAGC
66 GGAAGAGCTTCTTGAGGCCATTGCACCACTTGAACGAGGAGCTGATGTCAACCCCGAGGACCAGC
*
32011981 AGAGGGTTGAGGAAGTGGG
131 AGAGGGTTGAGCAAGTGGG
32012000 TCTGATGAAAAATGGAGGGTCGATGTTTCTTTCTTAAACAAAGGCAAGGATGCTAAGGTGCTCAA
1 TCTGATGAAAAATGGAGGGTCGATGTTTCTTTCTTAAACAAAGGCAAGGATGCTAAGGTGCTCAA
32012065 GGAAGAGCTTCTTGAGGCCATTGCACCACTTGAACGAGGAGCTGATG-CAACCCCCGAGGACCAG
66 GGAAGAGCTTCTTGAGGCCATTGCACCACTTGAACGAGGAGCTGATGTCAA-CCCCGAGGACCAG
32012129 CAGAGGGTTGAGCAAGT
130 CAGAGGGTTGAGCAAGT
32012146 TGGTTTTTCC
Statistics
Matches: 141, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
148 3 0.02
149 138 0.98
ACGTcount: A:0.29, C:0.18, G:0.31, T:0.22
Consensus pattern (149 bp):
TCTGATGAAAAATGGAGGGTCGATGTTTCTTTCTTAAACAAAGGCAAGGATGCTAAGGTGCTCAA
GGAAGAGCTTCTTGAGGCCATTGCACCACTTGAACGAGGAGCTGATGTCAACCCCGAGGACCAGC
AGAGGGTTGAGCAAGTGGG
Found at i:32015244 original size:17 final size:17
Alignment explanation
Indices: 32015222--32015256 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
32015212 TTAATTTAAT
*
32015222 ATAATAATATTTTAAAA
1 ATAATAATAGTTTAAAA
*
32015239 ATAATAATCGTTTAAAA
1 ATAATAATAGTTTAAAA
32015256 A
1 A
32015257 AACAAAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.37
Consensus pattern (17 bp):
ATAATAATAGTTTAAAA
Found at i:32015368 original size:7 final size:7
Alignment explanation
Indices: 32015356--32015389 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
32015346 GTTAGTAATT
32015356 GGAAGTG
1 GGAAGTG
32015363 GGAAGTG
1 GGAAGTG
32015370 GGAAGTG
1 GGAAGTG
32015377 GGAAGTG
1 GGAAGTG
32015384 GGAAGT
1 GGAAGT
32015390 CAAACTAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.29, C:0.00, G:0.56, T:0.15
Consensus pattern (7 bp):
GGAAGTG
Found at i:32018353 original size:16 final size:15
Alignment explanation
Indices: 32018332--32018363 Score: 55
Period size: 16 Copynumber: 2.1 Consensus size: 15
32018322 AAACATAGAT
32018332 TCACAAAATTTAATGA
1 TCACAAAATTT-ATGA
32018348 TCACAAAATTTATGA
1 TCACAAAATTTATGA
32018363 T
1 T
32018364 TTCACTTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.47, C:0.12, G:0.06, T:0.34
Consensus pattern (15 bp):
TCACAAAATTTATGA
Found at i:32020871 original size:14 final size:14
Alignment explanation
Indices: 32020852--32020890 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
32020842 ATTGTTTCGG
32020852 GAAAAATGATTTTT
1 GAAAAATGATTTTT
*
32020866 GAAAAATAATTTTT
1 GAAAAATGATTTTT
*
32020880 -AAAAAAGATTT
1 GAAAAATGATTT
32020891 ATGTTTTTTT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
13 9 0.41
14 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.38
Consensus pattern (14 bp):
GAAAAATGATTTTT
Found at i:32021050 original size:26 final size:25
Alignment explanation
Indices: 32021000--32021061 Score: 90
Period size: 26 Copynumber: 2.4 Consensus size: 25
32020990 TATTAATATA
32021000 ATTATTAAAATATTAAAAATTATTT
1 ATTATTAAAATATTAAAAATTATTT
*
32021025 ATTATTAAAGTATATT-GAAATTATTT
1 ATTATTAAA--ATATTAAAAATTATTT
32021051 ATTATTAAAAT
1 ATTATTAAAAT
32021062 TTTTAATATT
Statistics
Matches: 34, Mismatches: 1, Indels: 5
0.85 0.03 0.12
Matches are distributed among these distances:
24 2 0.06
25 9 0.26
26 18 0.53
27 5 0.15
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (25 bp):
ATTATTAAAATATTAAAAATTATTT
Found at i:32021077 original size:16 final size:16
Alignment explanation
Indices: 32021036--32021075 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
32021026 TTATTAAAGT
*
32021036 ATATTGAAATTATTTA
1 ATATTAAAATTATTTA
*
32021052 TTATTAAAATT-TTTA
1 ATATTAAAATTATTTA
32021067 ATATTAAAA
1 ATATTAAAA
32021076 ATAAATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
15 12 0.57
16 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (16 bp):
ATATTAAAATTATTTA
Found at i:32021120 original size:14 final size:13
Alignment explanation
Indices: 32021086--32021126 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
32021076 ATAAATATAT
* *
32021086 TTTAATAGTAAAA
1 TTTAATATTAATA
32021099 TTTAATATTAATA
1 TTTAATATTAATA
32021112 TTATAATATTAATA
1 TT-TAATATTAATA
32021126 T
1 T
32021127 AAAAATACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (13 bp):
TTTAATATTAATA
Found at i:32021133 original size:14 final size:14
Alignment explanation
Indices: 32021102--32021145 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
32021092 AGTAAAATTT
* *
32021102 AATATTAATATTAT
1 AATATTAATATAAA
32021116 AATATTAATATAAA
1 AATATTAATATAAA
*
32021130 AATACTTAAAATAAA
1 AATA-TTAATATAAA
32021145 A
1 A
32021146 CTGTTTATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 16 0.62
15 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATTAATATAAA
Found at i:32021180 original size:10 final size:10
Alignment explanation
Indices: 32021165--32021235 Score: 56
Period size: 10 Copynumber: 6.7 Consensus size: 10
32021155 ATTTTTATAT
32021165 TATTATAATA
1 TATTATAATA
32021175 TATTATAATA
1 TATTATAATA
32021185 TTATTAATTAATA
1 -TATT-A-TAATA
* *
32021198 TAATATTGAT-
1 TATTA-TAATA
32021208 TATTAATAATA
1 TATT-ATAATA
32021219 T-TTAGTAATA
1 TATTA-TAATA
32021229 TATTATA
1 TATTATA
32021236 TTAATAGTAT
Statistics
Matches: 50, Mismatches: 4, Indels: 14
0.74 0.06 0.21
Matches are distributed among these distances:
9 1 0.02
10 26 0.52
11 14 0.28
12 4 0.08
13 5 0.10
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (10 bp):
TATTATAATA
Found at i:32021186 original size:18 final size:19
Alignment explanation
Indices: 32021159--32021235 Score: 67
Period size: 18 Copynumber: 4.3 Consensus size: 19
32021149 TTTATTATTT
*
32021159 TTATATTATTA-TAATATA
1 TTATAATATTAGTAATATA
*
32021177 TTATAATATTATTAAT-TA
1 TTATAATATTAGTAATATA
*
32021195 ATATAATATT-G--AT-TA
1 TTATAATATTAGTAATATA
32021210 TTAATAATATTTAGTAATATA
1 TT-ATAATA-TTAGTAATATA
32021231 TTATA
1 TTATA
32021236 TTAATAGTAT
Statistics
Matches: 48, Mismatches: 4, Indels: 12
0.75 0.06 0.19
Matches are distributed among these distances:
15 5 0.10
16 6 0.12
17 2 0.04
18 22 0.46
19 4 0.08
20 5 0.10
21 4 0.08
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (19 bp):
TTATAATATTAGTAATATA
Found at i:32021228 original size:44 final size:43
Alignment explanation
Indices: 32021162--32021260 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 43
32021152 ATTATTTTTA
32021162 TATTATT-ATAATATATTATAATATTATTA-ATTAATA-TAATAT
1 TATTATTAATAATATATTATAATA-TATTATATTAATAGT-ATAT
32021204 TGATTATTAATAATAT-TTAGTAATATATTATATTAATAGTATAT
1 T-ATTATTAATAATATATTA-TAATATATTATATTAATAGTATAT
32021248 TATTTATTAATAA
1 TA-TTATTAATAA
32021261 ATAAAATTAT
Statistics
Matches: 51, Mismatches: 0, Indels: 10
0.84 0.00 0.16
Matches are distributed among these distances:
42 1 0.02
43 15 0.29
44 34 0.67
45 1 0.02
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (43 bp):
TATTATTAATAATATATTATAATATATTATATTAATAGTATAT
Done.