Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr13
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: 55873576
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1239791 characters in sequence are not A, C, G, or T
File 1 of 182
Found at i:2730 original size:69 final size:69
Alignment explanation
Indices: 2619--2756 Score: 267
Period size: 69 Copynumber: 2.0 Consensus size: 69
2609 GTTAATTGAG
*
2619 GAATCCATGTCCTTCCTTAATTAGAGAGGCTTGTAGTATTCTAACTCTTTGCTTTTCTTTGGATG
1 GAATCCATGTCCTTCCTTAATTAGAGAGGCTTGTAGTATTCTAACTCTTTGCTTTTCTGTGGATG
2684 ACAT
66 ACAT
2688 GAATCCATGTCCTTCCTTAATTAGAGAGGCTTGTAGTATTCTAACTCTTTGCTTTTCTGTGGATG
1 GAATCCATGTCCTTCCTTAATTAGAGAGGCTTGTAGTATTCTAACTCTTTGCTTTTCTGTGGATG
2753 ACAT
66 ACAT
2757 AATGTCTCTG
Statistics
Matches: 68, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (69 bp):
GAATCCATGTCCTTCCTTAATTAGAGAGGCTTGTAGTATTCTAACTCTTTGCTTTTCTGTGGATG
ACAT
Found at i:7972 original size:13 final size:13
Alignment explanation
Indices: 7954--7979 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
7944 TCATATTGAT
7954 GTTACTAACAAAA
1 GTTACTAACAAAA
7967 GTTACTAACAAAA
1 GTTACTAACAAAA
7980 ATCCAATAGA
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:0.54, C:0.15, G:0.08, T:0.23
Consensus pattern (13 bp):
GTTACTAACAAAA
Found at i:12833 original size:5 final size:5
Alignment explanation
Indices: 12823--12855 Score: 66
Period size: 5 Copynumber: 6.6 Consensus size: 5
12813 TTATTTTCAA
12823 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAA
12856 GATGAGTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 28 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:13651 original size:35 final size:35
Alignment explanation
Indices: 13605--13747 Score: 286
Period size: 35 Copynumber: 4.1 Consensus size: 35
13595 TGTACACACA
13605 TTTGGACTTAGTACCCATACTTTACCCAGTGGTTC
1 TTTGGACTTAGTACCCATACTTTACCCAGTGGTTC
13640 TTTGGACTTAGTACCCATACTTTACCCAGTGGTTC
1 TTTGGACTTAGTACCCATACTTTACCCAGTGGTTC
13675 TTTGGACTTAGTACCCATACTTTACCCAGTGGTTC
1 TTTGGACTTAGTACCCATACTTTACCCAGTGGTTC
13710 TTTGGACTTAGTACCCATACTTTACCCAGTGGTTC
1 TTTGGACTTAGTACCCATACTTTACCCAGTGGTTC
13745 TTT
1 TTT
13748 AGTGGTCATT
Statistics
Matches: 108, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 108 1.00
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (35 bp):
TTTGGACTTAGTACCCATACTTTACCCAGTGGTTC
Found at i:18303 original size:38 final size:38
Alignment explanation
Indices: 18255--18332 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
18245 TTAAATTAGT
18255 AAATAGGTAAATAATGATAAAATTAATCAAATTAAACA
1 AAATAGGTAAATAATGATAAAATTAATCAAATTAAACA
*
18293 AAATAGGTAAATAATGATAAATTTAATCAAATTAAACA
1 AAATAGGTAAATAATGATAAAATTAATCAAATTAAACA
18331 AA
1 AA
18333 GCCATCACCT
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.60, C:0.05, G:0.08, T:0.27
Consensus pattern (38 bp):
AAATAGGTAAATAATGATAAAATTAATCAAATTAAACA
Found at i:22433 original size:3 final size:3
Alignment explanation
Indices: 22427--22561 Score: 270
Period size: 3 Copynumber: 45.0 Consensus size: 3
22417 CGACGACGAC
22427 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
22475 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
22523 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA
22562 TTTACATTTA
Statistics
Matches: 132, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 132 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:22611 original size:28 final size:28
Alignment explanation
Indices: 22559--22612 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
22549 AGAAGAAGAA
*
22559 GAATTTACATTTATATTTTGAATTTTTT
1 GAATTTACATTTATATTTTAAATTTTTT
*
22587 GAATTTATATTTAT-TTTTAAGATTTT
1 GAATTTACATTTATATTTTAA-ATTTT
22613 AAAAATAGAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 5 0.22
28 18 0.78
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (28 bp):
GAATTTACATTTATATTTTAAATTTTTT
Found at i:23023 original size:23 final size:24
Alignment explanation
Indices: 22993--23060 Score: 77
Period size: 23 Copynumber: 2.9 Consensus size: 24
22983 CTTGATTGTT
* *
22993 AGAATATGTCACACAGGCTTT-CC
1 AGAATATGCCACAAAGGCTTTACC
* *
23016 AGAATATGCCACATAGACTTTACC
1 AGAATATGCCACAAAGGCTTTACC
*
23040 -GAATACGCCACAAAGGCTTTA
1 AGAATATGCCACAAAGGCTTTA
23061 TAGGACATTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
23 36 0.95
24 2 0.05
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.24
Consensus pattern (24 bp):
AGAATATGCCACAAAGGCTTTACC
Found at i:26921 original size:54 final size:54
Alignment explanation
Indices: 26863--26982 Score: 161
Period size: 54 Copynumber: 2.2 Consensus size: 54
26853 GTCCTCACTT
***
26863 GTGTAACTCACTGAGTTGGGTCACACGACCGTGTCGCAGGCCATGTGAC-AGACC
1 GTGTAACTCACTGAGTTGCAACACACGACCGTGTCGCAGGCCATGTG-CTAGACC
** * *
26917 GTGTAACTCTTTGAGTTGCAACACACGACCGTGTCGCAGGCCGTGTGCTAGGCC
1 GTGTAACTCACTGAGTTGCAACACACGACCGTGTCGCAGGCCATGTGCTAGACC
26971 GTGTAACTCACT
1 GTGTAACTCACT
26983 AACTTAAAAC
Statistics
Matches: 56, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.02
54 55 0.98
ACGTcount: A:0.21, C:0.28, G:0.28, T:0.23
Consensus pattern (54 bp):
GTGTAACTCACTGAGTTGCAACACACGACCGTGTCGCAGGCCATGTGCTAGACC
Found at i:26994 original size:54 final size:54
Alignment explanation
Indices: 26884--26994 Score: 134
Period size: 54 Copynumber: 2.1 Consensus size: 54
26874 TGAGTTGGGT
** * * **
26884 CACACGACCGTGTCGCAGGCCATGTGACAGACCGTGTAACTCTTTGAGTTGCAA
1 CACACGACCGTGTCGCAGGCCATGTGACAGACCGTGTAACTCACTAACTTAAAA
* *
26938 CACACGACCGTGTCGCAGGCCGTGTG-CTAGGCCGTGTAACTCACTAACTTAAAA
1 CACACGACCGTGTCGCAGGCCATGTGAC-AGACCGTGTAACTCACTAACTTAAAA
26992 CAC
1 CAC
26995 TAGGAATTCA
Statistics
Matches: 48, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.02
54 47 0.98
ACGTcount: A:0.25, C:0.30, G:0.24, T:0.21
Consensus pattern (54 bp):
CACACGACCGTGTCGCAGGCCATGTGACAGACCGTGTAACTCACTAACTTAAAA
Found at i:37257 original size:22 final size:22
Alignment explanation
Indices: 37229--37271 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
37219 CTTATATATA
*
37229 GATATTGTAGACCTTTTGTTTG
1 GATATTGTAGAACTTTTGTTTG
*
37251 GATATTGTTGAACTTTTGTTT
1 GATATTGTAGAACTTTTGTTT
37272 AAAAGCTTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.07, G:0.21, T:0.53
Consensus pattern (22 bp):
GATATTGTAGAACTTTTGTTTG
Found at i:57609 original size:14 final size:15
Alignment explanation
Indices: 57584--57619 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
57574 CTATCTATTT
57584 AATATT-TTAAAA-C
1 AATATTCTTAAAAGC
57597 AATATTCTTAAAAGC
1 AATATTCTTAAAAGC
57612 AAT-TTCTT
1 AATATTCTT
57620 TAAGAGGTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 6 0.29
14 11 0.52
15 4 0.19
ACGTcount: A:0.44, C:0.11, G:0.03, T:0.42
Consensus pattern (15 bp):
AATATTCTTAAAAGC
Found at i:57802 original size:15 final size:15
Alignment explanation
Indices: 57761--57813 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
57751 CCAAATTTTC
*
57761 TTTTAATTTTTTAAT
1 TTTTATTTTTTTAAT
* *
57776 TATTT-TTCTTTTAGT
1 T-TTTATTTTTTTAAT
*
57791 TTTTATTTTTTTATT
1 TTTTATTTTTTTAAT
57806 TTTTATTT
1 TTTTATTT
57814 AATTTTAAAG
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
14 3 0.10
15 25 0.81
16 3 0.10
ACGTcount: A:0.17, C:0.02, G:0.02, T:0.79
Consensus pattern (15 bp):
TTTTATTTTTTTAAT
Found at i:58626 original size:56 final size:56
Alignment explanation
Indices: 58540--58651 Score: 215
Period size: 56 Copynumber: 2.0 Consensus size: 56
58530 TCATTTGGAC
58540 AATATATGTTTTTTTTTTTTTTTTTTTGCGGTGATTTCCCGAGGTAGTATGAGGAA
1 AATATATGTTTTTTTTTTTTTTTTTTTGCGGTGATTTCCCGAGGTAGTATGAGGAA
*
58596 AATATATTTTTTTTTTTTTTTTTTTTTGCGGTGATTTCCCGAGGTAGTATGAGGAA
1 AATATATGTTTTTTTTTTTTTTTTTTTGCGGTGATTTCCCGAGGTAGTATGAGGAA
58652 GAAGGAAGAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 55 1.00
ACGTcount: A:0.20, C:0.07, G:0.21, T:0.53
Consensus pattern (56 bp):
AATATATGTTTTTTTTTTTTTTTTTTTGCGGTGATTTCCCGAGGTAGTATGAGGAA
Found at i:70159 original size:37 final size:35
Alignment explanation
Indices: 70102--70173 Score: 92
Period size: 37 Copynumber: 2.0 Consensus size: 35
70092 TCTCTATAAT
*
70102 ATTAAATTAATAAAATACTATTAAGATAAGTATTAA
1 ATTAAATTAATAAAATACTATTAAAATAA-TATTAA
*
70138 ATTAAATTTAATATTAA-ACTATTAAAATAATATTAA
1 ATTAAA-TTAATA-AAATACTATTAAAATAATATTAA
70174 TTTTAGAATA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 12 0.38
37 18 0.56
38 2 0.06
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (35 bp):
ATTAAATTAATAAAATACTATTAAAATAATATTAA
Found at i:74708 original size:24 final size:24
Alignment explanation
Indices: 74675--74739 Score: 85
Period size: 24 Copynumber: 2.7 Consensus size: 24
74665 CGCATATATA
* * *
74675 GACTCTCATGTAATAACAACAGGT
1 GACTCACATGGAATAACAACAAGT
*
74699 GACTCACATGGCATAACAACAAGT
1 GACTCACATGGAATAACAACAAGT
*
74723 GACTCACATGGTATAAC
1 GACTCACATGGAATAAC
74740 CTAGGGTTCG
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 36 1.00
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.22
Consensus pattern (24 bp):
GACTCACATGGAATAACAACAAGT
Found at i:74917 original size:53 final size:52
Alignment explanation
Indices: 74860--74960 Score: 141
Period size: 53 Copynumber: 1.9 Consensus size: 52
74850 GCACACATGT
*
74860 TCACACACAT-GCTCACACACGGGCTCGCACCTATAGAGGGTTCGCACATAGGC
1 TCACACAC-TGGCTCACACACGGACTCGCACCTATAG-GGGTTCGCACATAGGC
* * *
74913 TCACACACTGGCTCGCACACGGACTTGCACCTATAGGGGTTTGCACAT
1 TCACACACTGGCTCACACACGGACTCGCACCTATAGGGGTTCGCACAT
74961 GCTAGTTCTC
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
52 12 0.28
53 31 0.72
ACGTcount: A:0.25, C:0.33, G:0.23, T:0.20
Consensus pattern (52 bp):
TCACACACTGGCTCACACACGGACTCGCACCTATAGGGGTTCGCACATAGGC
Found at i:75299 original size:55 final size:55
Alignment explanation
Indices: 75234--75343 Score: 193
Period size: 55 Copynumber: 2.0 Consensus size: 55
75224 ATAAAACTTT
* *
75234 CTTTCCCTAATTGAAATAGGTTTTAAAGATTCATAGGGAATTAGGATTATTTTAA
1 CTTTCCCTAATTGAAATAGGTTTTAAAAATTCATAGAGAATTAGGATTATTTTAA
*
75289 CTTTCCCTAATTGAAATAGGTTTTAAAAATTCATAGAGAATTAGGGTTATTTTAA
1 CTTTCCCTAATTGAAATAGGTTTTAAAAATTCATAGAGAATTAGGATTATTTTAA
75344 ATCAATGACT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
55 52 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.40
Consensus pattern (55 bp):
CTTTCCCTAATTGAAATAGGTTTTAAAAATTCATAGAGAATTAGGATTATTTTAA
Found at i:77876 original size:30 final size:29
Alignment explanation
Indices: 77819--77877 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 29
77809 CTGATGACTT
* *
77819 AAATAAAATTTTTTTAATAGTTCATGATC
1 AAATAAAATTTTTTGAATAGTTAATGATC
77848 AAATGAAAA-TTTTTGAATAGTTTAATGATC
1 AAAT-AAAATTTTTTGAATAG-TTAATGATC
77878 TTTTTATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 14 0.54
30 12 0.46
ACGTcount: A:0.42, C:0.05, G:0.10, T:0.42
Consensus pattern (29 bp):
AAATAAAATTTTTTGAATAGTTAATGATC
Found at i:106204 original size:25 final size:26
Alignment explanation
Indices: 106170--106233 Score: 112
Period size: 25 Copynumber: 2.5 Consensus size: 26
106160 CATATTAAAT
106170 ATATATATTTAATTAAAAAT-AAAAA
1 ATATATATTTAATTAAAAATAAAAAA
*
106195 ATATATATTTGATTAAAAATAAAAAA
1 ATATATATTTAATTAAAAATAAAAAA
106221 ATATATATTTAAT
1 ATATATATTTAAT
106234 ATATAATTCG
Statistics
Matches: 36, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
25 19 0.53
26 17 0.47
ACGTcount: A:0.59, C:0.00, G:0.02, T:0.39
Consensus pattern (26 bp):
ATATATATTTAATTAAAAATAAAAAA
Found at i:110319 original size:96 final size:96
Alignment explanation
Indices: 110155--110475 Score: 642
Period size: 96 Copynumber: 3.3 Consensus size: 96
110145 GAACCAAAAT
110155 CCCAGAACTCATTTGAAAGCTCCAGCAAGAGTTTAACCCTTACCACCTTGAATCAAACAAAAAAA
1 CCCAGAACTCATTTGAAAGCTCCAGCAAGAGTTTAACCCTTACCACCTTGAATCAAACAAAAAAA
110220 ACCAGAGAAGTAATTTTCAGCAAGAGTTTAA
66 ACCAGAGAAGTAATTTTCAGCAAGAGTTTAA
110251 CCCAGAACTCATTTGAAAGCTCCAGCAAGAGTTTAACCCTTACCACCTTGAATCAAACAAAAAAA
1 CCCAGAACTCATTTGAAAGCTCCAGCAAGAGTTTAACCCTTACCACCTTGAATCAAACAAAAAAA
110316 ACCAGAGAAGTAATTTTCAGCAAGAGTTTAA
66 ACCAGAGAAGTAATTTTCAGCAAGAGTTTAA
110347 CCCAGAACTCATTTGAAAGCTCCAGCAAGAGTTTAACCCTTACCACCTTGAATCAAACAAAAAAA
1 CCCAGAACTCATTTGAAAGCTCCAGCAAGAGTTTAACCCTTACCACCTTGAATCAAACAAAAAAA
110412 ACCAGAGAAGTAATTTTCAGCAAGAGTTTAA
66 ACCAGAGAAGTAATTTTCAGCAAGAGTTTAA
110443 CCCAGAACTCATTTGAAAGCTCCAGCAAGAGTT
1 CCCAGAACTCATTTGAAAGCTCCAGCAAGAGTT
110476 AACAGTAAAA
Statistics
Matches: 225, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 225 1.00
ACGTcount: A:0.41, C:0.23, G:0.14, T:0.22
Consensus pattern (96 bp):
CCCAGAACTCATTTGAAAGCTCCAGCAAGAGTTTAACCCTTACCACCTTGAATCAAACAAAAAAA
ACCAGAGAAGTAATTTTCAGCAAGAGTTTAA
Found at i:112400 original size:15 final size:15
Alignment explanation
Indices: 112380--112409 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
112370 TAATCAAACC
112380 CTCAAGAATGTCTAA
1 CTCAAGAATGTCTAA
112395 CTCAAGAATGTCTAA
1 CTCAAGAATGTCTAA
112410 GGGTACCTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.20, G:0.13, T:0.27
Consensus pattern (15 bp):
CTCAAGAATGTCTAA
Found at i:115643 original size:46 final size:45
Alignment explanation
Indices: 115576--115707 Score: 147
Period size: 36 Copynumber: 3.1 Consensus size: 45
115566 TTTGAGTACT
* *
115576 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGC-TTAGCTACACTTA
115622 TCTGATCAAGTGAAAAAGTGATAA---GT-GC-TA--T--ACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
* * *
115658 TTTGATCAAGTGACAAAGTGATAAGTGGCAGCTTAGCTACACTTA
1 TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
115703 TCTGA
1 TCTGA
115708 CCAGGGACAA
Statistics
Matches: 71, Mismatches: 6, Indels: 19
0.74 0.06 0.20
Matches are distributed among these distances:
36 27 0.38
38 1 0.01
39 1 0.01
40 4 0.06
41 2 0.03
42 2 0.03
43 3 0.04
45 9 0.13
46 22 0.31
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (45 bp):
TCTGATCAAGTGAAAAAGTGATAAGTGGTAGCTTAGCTACACTTA
Found at i:117999 original size:21 final size:21
Alignment explanation
Indices: 117954--118000 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
117944 AAATAATAAA
*
117954 ATAG-ATTATATAGTATTTTT
1 ATAGTATTATATAGTATATTT
*
117974 ATAGTATTATATATTATGATTT
1 ATAGTATTATATAGTAT-ATTT
117996 -TAGTA
1 ATAGTA
118001 AATTTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 4 0.17
21 16 0.70
22 3 0.13
ACGTcount: A:0.36, C:0.00, G:0.11, T:0.53
Consensus pattern (21 bp):
ATAGTATTATATAGTATATTT
Found at i:118048 original size:35 final size:35
Alignment explanation
Indices: 117979--118050 Score: 101
Period size: 35 Copynumber: 2.1 Consensus size: 35
117969 TTTTTATAGT
117979 ATTATATATTATGATTTTAGTAAATTTATATAATA
1 ATTATATATTATGATTTTAGTAAATTTATATAATA
* * *
118014 ATTATATA-TATTATTTTATTAAATTATATTTAATA
1 ATTATATATTATGATTTTAGTAAATT-TATATAATA
118049 AT
1 AT
118051 AATTATGTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
34 15 0.45
35 18 0.55
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.54
Consensus pattern (35 bp):
ATTATATATTATGATTTTAGTAAATTTATATAATA
Found at i:120341 original size:164 final size:164
Alignment explanation
Indices: 120121--120612 Score: 635
Period size: 164 Copynumber: 3.0 Consensus size: 164
120111 CTCACGAAGG
* * * * * * *
120121 GCCATATAACGGGACGCTTATAAAAGTTGCGGTGTGTCCACAACACATGTAGGATCACAACCGAT
1 GCCATATAACGAGATGCTCATAAGAGCTACGGTGTGTCCACAACACATGCAGGATCACAACCGAT
* * ** ** *
120186 CGGGATGCTGCAAAGAGAAATTAACGGTAAGCTCGCAAGAATTATATAACGAGAAGCTTGAGTGG
66 CGGGATGCTCCGAAGAGCTATTAACGGTAAGCTCGCAAGAACCATATAACGAGAAGCTTGAGAGG
*
120251 GCCAAATATCGGGATGCTCATTAGAGATAATAAC
131 GCCAAATATCGGGATGCTCATGAGAGATAATAAC
* *
120285 GCCATATAACGAGATGCTCATAAGAGCTACGATGTGTCTACAACACATGCAGGATCACAACCGAT
1 GCCATATAACGAGATGCTCATAAGAGCTACGGTGTGTCCACAACACATGCAGGATCACAACCGAT
** * *
120350 CGGGATGCTTTGAAGAGCTATTAACGGTAAGCTCGCAAGAACCATATAACGGGAAG-TTCGAGAA
66 CGGGATGCTCCGAAGAGCTATTAACGGTAAGCTCGCAAGAACCATATAACGAGAAGCTT-GAGAG
*
120414 GGCCAAATATCGGGATGCTCATGAGAGATAATAAA
130 GGCCAAATATCGGGATGCTCATGAGAGATAATAAC
** ** * * *
120449 TTCATATAATAAGATGCTCATAAGAGCTATGGTGTGTCCACAACACATGCAGAATCACAACCAAT
1 GCCATATAACGAGATGCTCATAAGAGCTACGGTGTGTCCACAACACATGCAGGATCACAACCGAT
* * * * * *
120514 CAGGATGCTCCGAAGAGCTATTAATGGTAAGCTTGCAATAACCATATAATGAGAAGCTCGAGAGG
66 CGGGATGCTCCGAAGAGCTATTAACGGTAAGCTCGCAAGAACCATATAACGAGAAGCTTGAGAGG
**
120579 GCCAAATATCGATATGCTCATGAGAGATAATAAC
131 GCCAAATATCGGGATGCTCATGAGAGATAATAAC
120613 AGGATGCTCT
Statistics
Matches: 283, Mismatches: 43, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
163 2 0.01
164 280 0.99
165 1 0.00
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (164 bp):
GCCATATAACGAGATGCTCATAAGAGCTACGGTGTGTCCACAACACATGCAGGATCACAACCGAT
CGGGATGCTCCGAAGAGCTATTAACGGTAAGCTCGCAAGAACCATATAACGAGAAGCTTGAGAGG
GCCAAATATCGGGATGCTCATGAGAGATAATAAC
Found at i:124765 original size:49 final size:50
Alignment explanation
Indices: 124701--124916 Score: 159
Period size: 50 Copynumber: 4.3 Consensus size: 50
124691 CAAAGCTATG
* * * *
124701 TCCCAAACATAGTCTTACATGAGATGTT-TCTTGTA-CTGCCAATGCCATA
1 TCCCAGACATGGTCTTACATGAGA-GTTCTCATATAGCTGCCAATGCCATA
* * * * * *
124750 TCCCAGATATGGTCTTATATGGGAGTTCTCATATAGGTGCCCATGCCATG
1 TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTGCCAATGCCATA
* * ** * * * * * *
124800 TCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGGTGCTAACGCCATG
1 TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTGCCAATGCCATA
* ** * * *
124850 TCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG-TGCCAACGCCATG
1 TCCCAGACATGGTCTTACATGAGAGTTCTCATAT-AGCTGCCAATGCCATA
124900 TCCCAGACATGGTCTTA
1 TCCCAGACATGGTCTTA
124917 TATGGGACCT
Statistics
Matches: 141, Mismatches: 23, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
48 3 0.02
49 24 0.17
50 113 0.80
51 1 0.01
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TCCCAGACATGGTCTTACATGAGAGTTCTCATATAGCTGCCAATGCCATA
Found at i:124804 original size:50 final size:51
Alignment explanation
Indices: 124737--124979 Score: 285
Period size: 50 Copynumber: 4.7 Consensus size: 51
124727 TTTCTTGTAC
* * **
124737 TGCCAATGCCATATCCCAGATATGGTCTTATATGGGAGTTCTCATAT-AGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATATCAGG
* * * *
124787 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTC-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATATCAGG
* * * *
124837 TGCTAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCA-G
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATATCAGG
* *
124887 TGCCAACGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCAT-A--TC-A-GG
*
124943 TGCCAATGCCATGTCCCAGATATGGTCTTATATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGA
124980 TCTCATCCTC
Statistics
Matches: 167, Mismatches: 18, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
50 129 0.77
53 2 0.01
54 1 0.01
56 35 0.21
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (51 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTATATGGGACCTCTCATATCAGG
Found at i:130663 original size:21 final size:21
Alignment explanation
Indices: 130637--130717 Score: 126
Period size: 21 Copynumber: 3.9 Consensus size: 21
130627 ACATGCCAAT
*
130637 AGAAGCTCATAAGAGCTGAAC
1 AGAAGCTCAAAAGAGCTGAAC
*
130658 AGAAGCTCAAAAGAGCTGAAT
1 AGAAGCTCAAAAGAGCTGAAC
**
130679 AGAAGCTCGTAAGAGCTGAAC
1 AGAAGCTCAAAAGAGCTGAAC
130700 AGAAGCTCAAAAGAGCTG
1 AGAAGCTCAAAAGAGCTG
130718 GTCCACCCGA
Statistics
Matches: 53, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 53 1.00
ACGTcount: A:0.43, C:0.17, G:0.26, T:0.14
Consensus pattern (21 bp):
AGAAGCTCAAAAGAGCTGAAC
Found at i:130682 original size:42 final size:42
Alignment explanation
Indices: 130634--130717 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
130624 CGAACATGCC
130634 AATAGAAGCTCATAAGAGCTGAACAGAAGCTCAAAAGAGCTG
1 AATAGAAGCTCATAAGAGCTGAACAGAAGCTCAAAAGAGCTG
*
130676 AATAGAAGCTCGTAAGAGCTGAACAGAAGCTCAAAAGAGCTG
1 AATAGAAGCTCATAAGAGCTGAACAGAAGCTCAAAAGAGCTG
130718 GTCCACCCGA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.44, C:0.17, G:0.25, T:0.14
Consensus pattern (42 bp):
AATAGAAGCTCATAAGAGCTGAACAGAAGCTCAAAAGAGCTG
Found at i:136819 original size:12 final size:12
Alignment explanation
Indices: 136802--136826 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
136792 AACAATAAAT
136802 TCCATCTCAAGA
1 TCCATCTCAAGA
136814 TCCATCTCAAGA
1 TCCATCTCAAGA
136826 T
1 T
136827 ACCAAACACA
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:0.32, C:0.32, G:0.08, T:0.28
Consensus pattern (12 bp):
TCCATCTCAAGA
Found at i:137491 original size:44 final size:44
Alignment explanation
Indices: 137376--137493 Score: 116
Period size: 44 Copynumber: 2.7 Consensus size: 44
137366 ATTTTAACCC
* * ** * *
137376 ACTCCACTGTAACTTCAGGGAGATAGGAT-AGTGTCTTCGATCT
1 ACTCCACTGTAACTTCAGGGGGATAAGATCTCTGGCTTCAATCT
* *
137419 GCTCCGCTGTAA-TCTC-GGGGAGATAAGATCTCTGGCTTCAATCT
1 ACTCCACTGTAACT-TCAGGGG-GATAAGATCTCTGGCTTCAATCT
*
137463 ACTCCACTGTAACTTCAGGGGGACAAGATCT
1 ACTCCACTGTAACTTCAGGGGGATAAGATCT
137494 GTAATTTCCA
Statistics
Matches: 59, Mismatches: 11, Indels: 9
0.75 0.14 0.11
Matches are distributed among these distances:
42 4 0.07
43 19 0.32
44 31 0.53
45 5 0.08
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.28
Consensus pattern (44 bp):
ACTCCACTGTAACTTCAGGGGGATAAGATCTCTGGCTTCAATCT
Found at i:137733 original size:86 final size:88
Alignment explanation
Indices: 137631--138146 Score: 548
Period size: 88 Copynumber: 5.9 Consensus size: 88
137621 TGTAACCTTT
* * ** * * ** *
137631 AACCAGCTCCAATGCAACCGATGGAGGCAAGGCTTTGT-T-TTTGATCTGCTTTGCTGTTAATGC
1 AACCAGCTCCACTACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGACCTGCTTCACTGTCAATGC
*
137694 AGGAAGGCAAGATCTGCT-TCTTT
65 AGGAAGGCAAGATCTGCTGTCTTC
* * * ** * * * * * *
137717 AACTAGCTCCACTGCAATCGATGGATGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTATTAATGT
1 AACCAGCTCCACTACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGACCTGCTTCACTGTCAATGC
* * *
137780 GGGAAGGTAAGATCTGCT-TCTTT
65 AGGAAGGCAAGATCTGCTGTCTTC
* *
137803 AACCAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTTAATGCA
1 AACCAGCTCCACTACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCA
* **
137868 AGAAGGCAAGATCTTTTGTCTTC
66 GGAAGGCAAGATCTGCTGTCTTC
* * *
137891 AACCAGCTCTA-TCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGC
1 AACCAGCTCCACT-ACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGC
*
137955 AGAAAGGCAAGATCT-CTTGTCTTC
65 AGGAAGGCAAGATCTGC-TGTCTTC
* * *
137979 AACCAGCTCTA-TCAGAACCAAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGC
1 AACCAGCTCCACT-ACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGC
**
138043 AGGAAGGCAAGATCTTTTGTCTTC
65 AGGAAGGCAAGATCTGCTGTCTTC
* *
138067 AACCAGCTCTA-TCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTATCAATGC
1 AACCAGCTCCACT-ACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGC
138131 AGGAAGGCAAGATCTG
65 AGGAAGGCAAGATCTG
138147 TAACTTCATT
Statistics
Matches: 380, Mismatches: 44, Indels: 10
0.88 0.10 0.02
Matches are distributed among these distances:
85 5 0.01
86 103 0.27
87 34 0.09
88 238 0.63
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.28
Consensus pattern (88 bp):
AACCAGCTCCACTACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCA
GGAAGGCAAGATCTGCTGTCTTC
Found at i:137925 original size:88 final size:88
Alignment explanation
Indices: 137798--138145 Score: 556
Period size: 88 Copynumber: 4.0 Consensus size: 88
137788 AAGATCTGCT
* * * *
137798 TCTTTAACCAGCTCCA-CTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTT
1 TCTTCAACCAGCTCTATC-ACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTC
137862 AATGCAAGAAGGCAAGATCTTTTG
65 AATGCAAGAAGGCAAGATCTTTTG
* *
137886 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCA
1 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCA
*
137951 ATGC-AGAAAGGCAAGATCTCTTG
66 ATGCAAG-AAGGCAAGATCTTTTG
* *
137974 TCTTCAACCAGCTCTATCAGAACCAAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCA
1 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCA
*
138039 ATGCAGGAAGGCAAGATCTTTTG
66 ATGCAAGAAGGCAAGATCTTTTG
*
138062 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTATCA
1 TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCA
*
138127 ATGCAGGAAGGCAAGATCT
66 ATGCAAGAAGGCAAGATCT
138146 GTAACTTCAT
Statistics
Matches: 241, Mismatches: 16, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
87 2 0.01
88 237 0.98
89 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.21, T:0.27
Consensus pattern (88 bp):
TCTTCAACCAGCTCTATCACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCA
ATGCAAGAAGGCAAGATCTTTTG
Found at i:138015 original size:176 final size:175
Alignment explanation
Indices: 137743--138146 Score: 609
Period size: 176 Copynumber: 2.3 Consensus size: 175
137733 ATCGATGGAT
* ** * *
137743 GCAAGGCTTTGT-T-TTCGATCTGCTTCGCTATTAATGTGGGAAGGTAAGATCTGCTTCTTTAAC
1 GCAAGG-TTTGTGTCTTCGATCTGCTTCGCTATCAATGCAGGAAGGCAAGATCTGCTTCTTCAAC
* * *
137806 CAGCTCCACTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTTAATGCAAGA
65 CAGCTCCACTACAACCAAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAAGA
137871 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAG
130 AGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAG
* *
137917 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCT-CTTGTCTTCAA
1 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTATCAATGCAGGAAGGCAAGATCTGC-T-TCTTCAA
* * *
137981 CCAGCTCTA-TCAGAACCAAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAG
64 CCAGCTCCACT-ACAACCAAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAA
138045 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAG
128 GAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAG
* *
138093 GCAAGGTTTGTGTCTTCGACCTGCTTCACTATCAATGCAGGAAGGCAAGATCTG
1 GCAAGGTTTGTGTCTTCGATCTGCTTCGCTATCAATGCAGGAAGGCAAGATCTG
138147 TAACTTCATT
Statistics
Matches: 207, Mismatches: 17, Indels: 9
0.89 0.07 0.04
Matches are distributed among these distances:
173 5 0.02
174 8 0.04
175 35 0.17
176 159 0.77
ACGTcount: A:0.26, C:0.24, G:0.22, T:0.28
Consensus pattern (175 bp):
GCAAGGTTTGTGTCTTCGATCTGCTTCGCTATCAATGCAGGAAGGCAAGATCTGCTTCTTCAACC
AGCTCCACTACAACCAAAAGAGGCAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAAGAA
GGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAG
Found at i:139415 original size:15 final size:14
Alignment explanation
Indices: 139388--139437 Score: 50
Period size: 15 Copynumber: 3.5 Consensus size: 14
139378 TTAGCCTCTC
139388 CATTTTTACTTTTT
1 CATTTTTACTTTTT
*
139402 CATTTTTCATTTTTT
1 CATTTTT-ACTTTTT
139417 CATCTTCTT-CTTTTT
1 CAT-TT-TTACTTTTT
139432 C-TTTTT
1 CATTTTT
139438 TTTTTTGAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
12 2 0.06
13 2 0.06
14 8 0.26
15 15 0.48
16 2 0.06
17 2 0.06
ACGTcount: A:0.10, C:0.18, G:0.00, T:0.72
Consensus pattern (14 bp):
CATTTTTACTTTTT
Found at i:140321 original size:7 final size:8
Alignment explanation
Indices: 140296--140325 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
140286 CTATTTTGAC
140296 TTTGATTTT
1 TTTGA-TTT
140305 TTTGATTT
1 TTTGATTT
140313 TTTGATTT
1 TTTGATTT
140321 TTTGA
1 TTTGA
140326 ATTCATGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 16 0.76
9 5 0.24
ACGTcount: A:0.13, C:0.00, G:0.13, T:0.73
Consensus pattern (8 bp):
TTTGATTT
Found at i:143712 original size:103 final size:103
Alignment explanation
Indices: 143533--143737 Score: 401
Period size: 103 Copynumber: 2.0 Consensus size: 103
143523 GGCTCTACCT
*
143533 AGGTTAAGTTCCTAAGTCTACTATATGAGGGTTGGTTTTAAAGTAAGGGTACCCGAACCAGCAGA
1 AGGTTAAGTTCCTAAGTCTACTATATGAGGGTTGGTTCTAAAGTAAGGGTACCCGAACCAGCAGA
143598 TTCCTCGATCCTCACCCATTATAGGCTCATACGGACTA
66 TTCCTCGATCCTCACCCATTATAGGCTCATACGGACTA
143636 AGGTTAAGTTCCTAAGTCTACTATATGAGGGTTGGTTCTAAAGTAAGGGTACCCGAACCAGCAGA
1 AGGTTAAGTTCCTAAGTCTACTATATGAGGGTTGGTTCTAAAGTAAGGGTACCCGAACCAGCAGA
143701 TTCCTCGATCCTCACCCATTATAGGCTCATACGGACT
66 TTCCTCGATCCTCACCCATTATAGGCTCATACGGACT
143738 GAGTTCAGTT
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
103 101 1.00
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (103 bp):
AGGTTAAGTTCCTAAGTCTACTATATGAGGGTTGGTTCTAAAGTAAGGGTACCCGAACCAGCAGA
TTCCTCGATCCTCACCCATTATAGGCTCATACGGACTA
Found at i:144965 original size:4 final size:5
Alignment explanation
Indices: 144938--144966 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
144928 GTGAAACAAT
144938 ATAAA ATAAA ATAAA ATAAA AT-AA ATAAA
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA
144967 GCACTTATGT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
4 4 0.17
5 19 0.83
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
ATAAA
Found at i:145407 original size:26 final size:25
Alignment explanation
Indices: 145378--145442 Score: 64
Period size: 26 Copynumber: 2.6 Consensus size: 25
145368 AAAAATAAGT
145378 GTATATGTATATATATAGTACAAAAA
1 GTATATGTATATATATA-TACAAAAA
*
145404 GTATGCATGTA-A-ATATATAGAAAAA
1 GTAT--ATGTATATATATATACAAAAA
*
145429 -TATATTTATATATA
1 GTATATGTATATATA
145443 AAAGAAATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
22 4 0.12
23 1 0.03
24 6 0.18
25 7 0.21
26 9 0.27
27 1 0.03
28 5 0.15
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (25 bp):
GTATATGTATATATATATACAAAAA
Found at i:146596 original size:133 final size:133
Alignment explanation
Indices: 146423--146921 Score: 881
Period size: 133 Copynumber: 3.8 Consensus size: 133
146413 TTAGAGAGGT
* * ** * *
146423 AAGATCTGAAATCTTCAACCTATTCCATTGTTAACCAGGGAGATAGAATTATCGGCTTCAATGTA
1 AAGATCTGAAATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTA
146488 CTCCACTGTAGTCACAAGGAGGTAAAATTTGCCATTACTTGATCTACTTCACTACTGTTTAGGAA
66 CTCCACTGTAGTCACAAGGAGGTAAAATTTGCCATTACTTGATCTACTTCACTACTGTTTAGGAA
146553 GGC
131 GGC
*
146556 AAGATCTGAAATCTTTAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTA
1 AAGATCTGAAATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTA
*
146621 CTCCACTGTAGTCACAAGGGGGTAAAATTTGCCATTACTTGATCTACTTCACTACTGTTTAGGAA
66 CTCCACTGTAGTCACAAGGAGGTAAAATTTGCCATTACTTGATCTACTTCACTACTGTTTAGGAA
146686 GGC
131 GGC
146689 AAGATCTGAAATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTA
1 AAGATCTGAAATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTA
*
146754 CTCCACTGTAGTCACAAGGAGGTAGAATTTGCCATTACTTGATCTACTTCACTACTGTTTAGGAA
66 CTCCACTGTAGTCACAAGGAGGTAAAATTTGCCATTACTTGATCTACTTCACTACTGTTTAGGAA
146819 GGC
131 GGC
*
146822 AAGATCTGAAATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGTCTTCAATGTA
1 AAGATCTGAAATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTA
* * *
146887 CTCCACTGTAGTCACAGGGAGGTAGAATCTGCCAT
66 CTCCACTGTAGTCACAAGGAGGTAAAATTTGCCAT
146922 CTATGATCTT
Statistics
Matches: 352, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
133 352 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (133 bp):
AAGATCTGAAATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGACTTCAATGTA
CTCCACTGTAGTCACAAGGAGGTAAAATTTGCCATTACTTGATCTACTTCACTACTGTTTAGGAA
GGC
Found at i:146881 original size:43 final size:42
Alignment explanation
Indices: 146833--147073 Score: 135
Period size: 43 Copynumber: 5.2 Consensus size: 42
146823 AGATCTGAAA
146833 TCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCG
1 TCTTCAATCTATTCCACTGCCAAC-AGGGAGATAGAATTATCG
* * * *
146876 TCTTCAATGTACTCCACTG-TAGTCACAGGGAGGTAGAATCTGCCATCTATG
1 TCTTCAATCTATTCCACTGCCA---ACAGGGAGATAGAAT-T---ATC---G
146927 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCG
1 -TCTTCAATCTATTCCACTGCCAA-CAGGGAGATAGAATTATCG
* * * * * * *
146971 GCTTCAATGTACTCTACTG-TAGTCACAGGGAGGTAAAATCTGCCATCTATG
1 TCTTCAATCTATTCCACTGCCA---ACAGGGAGATAGAAT-T---ATC---G
147022 ATCTTCAATCTATTCCACTGCCAATCAGGGAGATAGAATTATCG
1 -TCTTCAATCTATTCCACTGCCAA-CAGGGAGATAGAATTATCG
*
147066 GCTTCAAT
1 TCTTCAAT
147074 TTGCTCCGCT
Statistics
Matches: 149, Mismatches: 23, Indels: 52
0.67 0.10 0.23
Matches are distributed among these distances:
42 2 0.01
43 39 0.26
44 26 0.17
45 5 0.03
47 6 0.04
48 6 0.04
50 4 0.03
51 27 0.18
52 32 0.21
53 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.18, T:0.29
Consensus pattern (42 bp):
TCTTCAATCTATTCCACTGCCAACAGGGAGATAGAATTATCG
Found at i:146995 original size:95 final size:95
Alignment explanation
Indices: 146832--147097 Score: 442
Period size: 95 Copynumber: 2.8 Consensus size: 95
146822 AAGATCTGAA
* *
146832 ATCTTCAATCTATTCCACTGCCAACTAGGGAGATAGAATTATCGTCTTCAATGTACTCCACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
*
146897 GTCACAGGGAGGTAGAATCTGCCATCTATG
66 GTCACAGGGAGGTAAAATCTGCCATCTATG
*
146927 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCTACTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
146992 GTCACAGGGAGGTAAAATCTGCCATCTATG
66 GTCACAGGGAGGTAAAATCTGCCATCTATG
* * * *
147022 ATCTTCAATCTATTCCACTGCCAATCAGGGAGATAGAATTATCGGCTTCAATTTGCTCCGCTGTA
1 ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
* *
147087 ATCTCAGGGAG
66 GTCACAGGGAG
147098 ATAAGATTTC
Statistics
Matches: 160, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
95 160 1.00
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.29
Consensus pattern (95 bp):
ATCTTCAATCTATTCCACTGCCAACCAGGGAGATAGAATTATCGGCTTCAATGTACTCCACTGTA
GTCACAGGGAGGTAAAATCTGCCATCTATG
Found at i:147663 original size:88 final size:88
Alignment explanation
Indices: 147330--148150 Score: 1045
Period size: 88 Copynumber: 9.4 Consensus size: 88
147320 CTTTGTTTTT
* * ** * * * * *
147330 GATCTGCTTTGCTGTTAATGCAGGAAGGCAAGATCTGCT-TCTTTAACTAGCTCCA-CTGCAATC
1 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATC-ACAACC
** **
147393 GATGGATACAAGGCTTTGT-T-TTC
65 GAAAGAGGCAAGG-TTTGTGTCTTC
* * * * ** * * * *
147416 GATCTGCTTCACTGTTAATGTAAGAAGGCAAGATCTGCT-TCTTTAACCCGCTCCA-CTACAATC
1 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATC-ACAACC
** *
147479 GATGGATGCAAGGCTTTGT-T-TTC
65 GAAAGAGGCAAGG-TTTGTGTCTTC
* * * ** * **
147502 GATCTGCTTCGCTGTTAATGTAAGAAGGCAAGATCTGCT-TCTTTAACCAGCTC-CGCTACAACC
1 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATC-ACAACC
*
147565 GAGAGAGGCAAGGTTTGTGTCTTC
65 GAAAGAGGCAAGGTTTGTGTCTTC
* *
147589 GACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
1 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
*
147654 AAAGAGGCAAGGTTTGTGTCTTT
66 AAAGAGGCAAGGTTTGTGTCTTC
* * *
147677 GATCTGCTTCGCTGTCAATGCAGAAAAGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCA
1 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
147742 AAAGAGGCAAGGTTTGTGTCTTC
66 AAAGAGGCAAGGTTTGTGTCTTC
* *
147765 GACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
1 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
147830 AAAGAGGCAAGGTTTGTGTCTTC
66 AAAGAGGCAAGGTTTGTGTCTTC
* *
147853 GATCTGCTTCGCTGTCAATGCAGAAAGGCAAGATCTTTTGTCTTCAACCAGCTCCATCACAACCG
1 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
147918 AAAGAGGCAAGG-TT-TGTCTTC
66 AAAGAGGCAAGGTTTGTGTCTTC
* *
147939 GACCTGCTTCGCTGTCAATGCGGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
1 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
* *
148004 AAAGAGGCAAGGTCTGTGTCTTT
66 AAAGAGGCAAGGTTTGTGTCTTC
* * *
148027 GACCTGCTTCGCTGTCAATGCGGGAAGGCAAGATCTTTTATCTTCAACCAGCTCTATCACAACCG
1 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
148092 AAAGAGGCAAGGTTTGTGTCTTC
66 AAAGAGGCAAGGTTTGTGTCTTC
148115 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
1 GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCT
148151 GTAACTTCAT
Statistics
Matches: 675, Mismatches: 53, Indels: 12
0.91 0.07 0.02
Matches are distributed among these distances:
85 5 0.01
86 227 0.34
87 38 0.06
88 404 0.60
89 1 0.00
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.29
Consensus pattern (88 bp):
GATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCG
AAAGAGGCAAGGTTTGTGTCTTC
Found at i:147967 original size:350 final size:349
Alignment explanation
Indices: 147401--148151 Score: 1104
Period size: 350 Copynumber: 2.2 Consensus size: 349
147391 TCGATGGATA
* * * *
147401 CAAGGCTTTGT-T-TTCGATCTGCTTCACTGTTAATGTAAGAAGGCAAGATCTGCTTCTTTAACC
1 CAAGG-TTTGTGTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTTCTTCAACC
* * ** * * *
147464 CGCTCCACTACAATCGATGGATGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTTAATGTAAGAAG
65 AGCTCCACTACAACCGAAAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAAGAAG
* *
147529 GCAAGATCTGCTTCTTTAACCAGCTCCGCTACAACCGAGAGAGGCAAGGTTTGTGTCTTCGACCT
130 GCAAGATCTGCTTCTTCAACCAGCTCCGCTACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCT
147594 GCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGA
195 GCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGA
* * *
147659 GGCAAGGTTTGTGTCTTTGATCTGCTTCGCTGTCAATGCAGAAAAGCAAGATCTTTTGTCTTCAA
260 GGCAAGGTCTGTGTCTTTGACCTGCTTCGCTGTCAATGCAGAAAAGCAAGATCTTTTATCTTCAA
147724 CCAGCTCTATCACAACCAAAAGAGG
325 CCAGCTCTATCACAACCAAAAGAGG
* **
147749 CAAGGTTTGTGTCTTCGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACC
1 CAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCT-TCTTCAACC
*
147814 AGCTCTA-TCACAACCGAAAGAGGCAAGG-TTTGTGTCTTCGATCTGCTTCGCTGTCAATGC-AG
65 AGCTCCACT-ACAACCGAAAGAGGCAAGGCTTTGT-T-TTCGATCTGCTTCGCTGTCAATGCAAG
** *
147876 AAAGGCAAGATCTTTTGTCTTCAACCAGCTCC-ATCACAACCGAAAGAGGCAAGG-TT-TGTCTT
127 -AAGGCAAGATCTGCT-TCTTCAACCAGCTCCGCT-ACAACCGAAAGAGGCAAGGTTTGTGTCTT
* *
147938 CGACCTGCTTCGCTGTCAATGCGGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACC
189 CGACCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACC
* * *
148003 GAAAGAGGCAAGGTCTGTGTCTTTGACCTGCTTCGCTGTCAATGCGGGAAGGCAAGATCTTTTAT
254 GAAAGAGGCAAGGTCTGTGTCTTTGACCTGCTTCGCTGTCAATGCAGAAAAGCAAGATCTTTTAT
*
148068 CTTCAACCAGCTCTATCACAACCGAAAGAGG
319 CTTCAACCAGCTCTATCACAACCAAAAGAGG
*
148099 CAAGGTTTGTGTCTTCGATCTGCTTCGCTGTCAATGCAGGAAGGCAAGATCTG
1 CAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTG
148152 TAACTTCATT
Statistics
Matches: 362, Mismatches: 32, Indels: 16
0.88 0.08 0.04
Matches are distributed among these distances:
347 5 0.01
348 6 0.02
349 42 0.12
350 239 0.66
351 38 0.10
352 32 0.09
ACGTcount: A:0.25, C:0.24, G:0.22, T:0.28
Consensus pattern (349 bp):
CAAGGTTTGTGTCTTCGATCTGCTTCACTGTCAATGCAGGAAGGCAAGATCTGCTTCTTCAACCA
GCTCCACTACAACCGAAAGAGGCAAGGCTTTGTTTTCGATCTGCTTCGCTGTCAATGCAAGAAGG
CAAGATCTGCTTCTTCAACCAGCTCCGCTACAACCGAAAGAGGCAAGGTTTGTGTCTTCGACCTG
CTTCACTGTCAATGCAGGAAGGCAAGATCTTTTGTCTTCAACCAGCTCTATCACAACCGAAAGAG
GCAAGGTCTGTGTCTTTGACCTGCTTCGCTGTCAATGCAGAAAAGCAAGATCTTTTATCTTCAAC
CAGCTCTATCACAACCAAAAGAGG
Found at i:149238 original size:21 final size:21
Alignment explanation
Indices: 149212--149258 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
149202 GGTATAGCAG
149212 GATCACCACATGCCCCAATCT
1 GATCACCACATGCCCCAATCT
** *
149233 GATCACTTCATGCCCCATTCT
1 GATCACCACATGCCCCAATCT
149254 GATCA
1 GATCA
149259 ATATTTGAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.26, C:0.38, G:0.11, T:0.26
Consensus pattern (21 bp):
GATCACCACATGCCCCAATCT
Found at i:152416 original size:19 final size:20
Alignment explanation
Indices: 152387--152435 Score: 57
Period size: 19 Copynumber: 2.5 Consensus size: 20
152377 CACTTCGTGA
* *
152387 AAATCTAATGCATATG-ATG
1 AAATGTAATGCAGATGCATG
*
152406 CAATGTAATGCAGATGCATG
1 AAATGTAATGCAGATGCATG
152426 AAATG-AATGC
1 AAATGTAATGC
152436 CTTAAAGGGA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 18 0.72
20 7 0.28
ACGTcount: A:0.41, C:0.12, G:0.20, T:0.27
Consensus pattern (20 bp):
AAATGTAATGCAGATGCATG
Found at i:155578 original size:21 final size:21
Alignment explanation
Indices: 155552--155591 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
155542 ATTGCAACGA
155552 TGTCGTAACATAAGGGTTCTG
1 TGTCGTAACATAAGGGTTCTG
*
155573 TGTCGTGACATAAGGGTTC
1 TGTCGTAACATAAGGGTTC
155592 AATGTCGCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.30, T:0.33
Consensus pattern (21 bp):
TGTCGTAACATAAGGGTTCTG
Found at i:155597 original size:21 final size:21
Alignment explanation
Indices: 155551--155598 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
155541 AATTGCAACG
*
155551 ATGTCGTAACATAAGGGTTCT
1 ATGTCGTAACATAAGGGTTCA
* *
155572 GTGTCGTGACATAAGGGTTCA
1 ATGTCGTAACATAAGGGTTCA
155593 ATGTCG
1 ATGTCG
155599 CGAGACACTC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.25, C:0.15, G:0.29, T:0.31
Consensus pattern (21 bp):
ATGTCGTAACATAAGGGTTCA
Found at i:162529 original size:16 final size:16
Alignment explanation
Indices: 162505--162541 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
162495 GGATAACTAA
*
162505 CCAAGTTTAGAACCCG
1 CCAAATTTAGAACCCG
*
162521 CCAAATTTAGAACCCT
1 CCAAATTTAGAACCCG
162537 CCAAA
1 CCAAA
162542 ATTGGGTGTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.38, C:0.32, G:0.11, T:0.19
Consensus pattern (16 bp):
CCAAATTTAGAACCCG
Found at i:162754 original size:41 final size:41
Alignment explanation
Indices: 162697--162780 Score: 141
Period size: 41 Copynumber: 2.0 Consensus size: 41
162687 ACCATAAAAT
* *
162697 TTCTGAACGTTACACTTACCTTCTTATGACAGATGTCAACC
1 TTCTGAACGTTACACTTACCTCCTTATGACAGATGCCAACC
*
162738 TTCTGAACGTTACACTTTCCTCCTTATGACAGATGCCAACC
1 TTCTGAACGTTACACTTACCTCCTTATGACAGATGCCAACC
162779 TT
1 TT
162781 ACTTTGGAGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.25, C:0.29, G:0.12, T:0.35
Consensus pattern (41 bp):
TTCTGAACGTTACACTTACCTCCTTATGACAGATGCCAACC
Found at i:169487 original size:21 final size:21
Alignment explanation
Indices: 169461--169500 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
169451 ATCATGACAA
169461 TTTCTTTTTCTTTTCTTTTCT
1 TTTCTTTTTCTTTTCTTTTCT
* *
169482 TTTCTTTTTTTTTTTTTTT
1 TTTCTTTTTCTTTTCTTTT
169501 AGGGGGGAAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (21 bp):
TTTCTTTTTCTTTTCTTTTCT
Found at i:169500 original size:5 final size:5
Alignment explanation
Indices: 169461--169497 Score: 51
Period size: 5 Copynumber: 7.6 Consensus size: 5
169451 ATCATGACAA
169461 TTTCTT TTTCT TTTCT TTTCT TTTCT TTT-T TTT-T TTT
1 TTTC-T TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TTT
169498 TTTAGGGGGG
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
4 8 0.26
5 19 0.61
6 4 0.13
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (5 bp):
TTTCT
Found at i:173720 original size:67 final size:67
Alignment explanation
Indices: 173585--173720 Score: 152
Period size: 67 Copynumber: 2.0 Consensus size: 67
173575 TTTGGGGGGG
* * * * *
173585 GGGGGGGCCAGCAAAGGCCCCCTACCTGCGGCCCTCTAGCACCACCCTGACCCTGACACTCGAGC
1 GGGGGGGCCAGCAAAGG-CCCCTACCTGCAGCCCTCTAGCACCACCCTGACACTAACAATC-ACC
173650 AATA
64 AATA
*
173654 NGGGGGGG-CAGCAAAGG-CCCTACCTGCAGCCCTCTAGCACCGCCCTGACACTCAAGCAAT-AC
1 -GGGGGGGCCAGCAAAGGCCCCTACCTGCAGCCCTCTAGCACCACCCTGACACT-AA-CAATCAC
173716 CAATA
63 CAATA
173721 AGCACATCTA
Statistics
Matches: 58, Mismatches: 6, Indels: 7
0.82 0.08 0.10
Matches are distributed among these distances:
67 38 0.66
68 1 0.02
69 12 0.21
70 7 0.12
ACGTcount: A:0.24, C:0.38, G:0.25, T:0.12
Consensus pattern (67 bp):
GGGGGGGCCAGCAAAGGCCCCTACCTGCAGCCCTCTAGCACCACCCTGACACTAACAATCACCAA
TA
Found at i:174274 original size:17 final size:17
Alignment explanation
Indices: 174252--174285 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
174242 GACTTATTTG
174252 AACCATGAAGCCAAGTT
1 AACCATGAAGCCAAGTT
174269 AACCATGAAGCCAAGTT
1 AACCATGAAGCCAAGTT
174286 CAGGTACCAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.24, G:0.18, T:0.18
Consensus pattern (17 bp):
AACCATGAAGCCAAGTT
Found at i:178877 original size:49 final size:49
Alignment explanation
Indices: 178813--178907 Score: 172
Period size: 49 Copynumber: 1.9 Consensus size: 49
178803 TCAAAATATC
178813 TAGCAAGTCCTCACAAAATTCAAGTGTAGGGAATGTCTAGCAATATAAA
1 TAGCAAGTCCTCACAAAATTCAAGTGTAGGGAATGTCTAGCAATATAAA
* *
178862 TAGCAAGTCCTCACAAAATTCATGTTTAGGGAATGTCTAGCAATAT
1 TAGCAAGTCCTCACAAAATTCAAGTGTAGGGAATGTCTAGCAATAT
178908 GTATCAACAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.38, C:0.17, G:0.18, T:0.27
Consensus pattern (49 bp):
TAGCAAGTCCTCACAAAATTCAAGTGTAGGGAATGTCTAGCAATATAAA
Found at i:179068 original size:20 final size:20
Alignment explanation
Indices: 179043--179082 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
179033 TTGAGTCACA
179043 TTTATATACAGTGCAAACAG
1 TTTATATACAGTGCAAACAG
179063 TTTATATACAGTGCAAACAG
1 TTTATATACAGTGCAAACAG
179083 ATAATTGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.30
Consensus pattern (20 bp):
TTTATATACAGTGCAAACAG
Found at i:182759 original size:24 final size:24
Alignment explanation
Indices: 182732--182779 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
182722 TCTTTTTTCA
182732 GTTCACTCTGGTTTTAGACTAGGG
1 GTTCACTCTGGTTTTAGACTAGGG
* * *
182756 GTTCGCTCTTGTTTTAGAGTAGGG
1 GTTCACTCTGGTTTTAGACTAGGG
182780 TTAAGTTTGG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.15, C:0.15, G:0.31, T:0.40
Consensus pattern (24 bp):
GTTCACTCTGGTTTTAGACTAGGG
Found at i:187960 original size:27 final size:27
Alignment explanation
Indices: 187929--187980 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
187919 GTACGATGGG
187929 TGTTAAATGTATATGAATTGACTAAAA
1 TGTTAAATGTATATGAATTGACTAAAA
187956 TGTTAAATGTATATGAATTGACTAA
1 TGTTAAATGTATATGAATTGACTAA
187981 GTAATCAATG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.42, C:0.04, G:0.15, T:0.38
Consensus pattern (27 bp):
TGTTAAATGTATATGAATTGACTAAAA
Found at i:189479 original size:16 final size:16
Alignment explanation
Indices: 189458--189513 Score: 85
Period size: 16 Copynumber: 3.5 Consensus size: 16
189448 CGTTTGGTTC
189458 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
**
189474 GCTGTAATTAAATAGA
1 GCTGTAATGGAATAGA
189490 GCTGTAATGGAATAGA
1 GCTGTAATGGAATAGA
*
189506 ACTGTAAT
1 GCTGTAAT
189514 AGTAATTCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.39, C:0.07, G:0.25, T:0.29
Consensus pattern (16 bp):
GCTGTAATGGAATAGA
Found at i:189546 original size:45 final size:44
Alignment explanation
Indices: 189495--189586 Score: 132
Period size: 45 Copynumber: 2.1 Consensus size: 44
189485 ATAGAGCTGT
*
189495 AATGGAATAGAACTGTAATAGTAATTCA-ATTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGT-ATTCATA-TGTTTGATTGAATGG
* *
189540 AATGGAATAGAATTGTAATAGTATTCTTATGTTTGATTGAATGG
1 AATGGAATAGAACTGTAATAGTATTCATATGTTTGATTGAATGG
189584 AAT
1 AAT
189587 TATGTTGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
44 21 0.49
45 22 0.51
ACGTcount: A:0.36, C:0.03, G:0.23, T:0.38
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTCATATGTTTGATTGAATGG
Found at i:189712 original size:14 final size:15
Alignment explanation
Indices: 189695--189723 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
189685 AATAAGATTA
189695 TTAAT-ATAAATAAT
1 TTAATAATAAATAAT
189709 TTAATAATAAATAAT
1 TTAATAATAAATAAT
189724 AAATAATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAATAATAAATAAT
Found at i:189810 original size:55 final size:58
Alignment explanation
Indices: 189678--189812 Score: 145
Period size: 55 Copynumber: 2.3 Consensus size: 58
189668 TATTGTTATT
*
189678 AAATTTTAATA-AGATTATTAATATAAATAATTTAATAATAAATAATAAATAATTTAACC
1 AAATTTTAATATA-ATTATTAATAT-AATAATTTAATAATAAATAATAAATAATTTAACA
* * * * *
189737 ATATTTTAACATTTATTATTAA-AT-ATAATTTAAT-A-AAATAATATATAATTTAATA
1 AAATTTTAATA-TAATTATTAATATAATAATTTAATAATAAATAATAAATAATTTAACA
189792 AAATTCTTAATATAATTATTA
1 AAATT-TTAATATAATTATTA
189813 TTTTATGAAT
Statistics
Matches: 64, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
55 29 0.45
56 6 0.09
57 10 0.16
59 11 0.17
60 8 0.12
ACGTcount: A:0.53, C:0.03, G:0.01, T:0.44
Consensus pattern (58 bp):
AAATTTTAATATAATTATTAATATAATAATTTAATAATAAATAATAAATAATTTAACA
Found at i:189843 original size:36 final size:36
Alignment explanation
Indices: 189801--189922 Score: 106
Period size: 36 Copynumber: 3.2 Consensus size: 36
189791 AAAATTCTTA
189801 ATATAATTATTATTTTATGAATTAAAAAATCATAAT
1 ATATAATTATTATTTTATGAATTAAAAAATCATAAT
* * *
189837 ATATAATACTATAAAAATAATATAT-AATTTAATAAAATTC-TTA-
1 ATATAAT--TAT-----TATTTTATGAA-TTAA-AAAA-TCATAAT
189880 ATATAATTATTATTTTATGAATTAAAAAATCATAAT
1 ATATAATTATTATTTTATGAATTAAAAAATCATAAT
189916 ATATAAT
1 ATATAAT
189923 ACTATAAAAA
Statistics
Matches: 67, Mismatches: 6, Indels: 26
0.68 0.06 0.26
Matches are distributed among these distances:
34 2 0.03
35 6 0.09
36 24 0.36
37 2 0.03
38 3 0.04
41 3 0.04
42 2 0.03
43 17 0.25
44 6 0.09
45 2 0.03
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (36 bp):
ATATAATTATTATTTTATGAATTAAAAAATCATAAT
Found at i:189855 original size:79 final size:79
Alignment explanation
Indices: 189771--189961 Score: 364
Period size: 79 Copynumber: 2.4 Consensus size: 79
189761 ATAATTTAAT
189771 AAAATAATATATAATTTAATAAAATTCTTAATATAATTATTATTTTATGAATTAAAAAATCATAA
1 AAAATAATATATAATTTAATAAAATTCTTAATATAATTATTATTTTATGAATTAAAAAATCATAA
189836 TATATAATACTATA
66 TATATAATACTATA
189850 AAAATAATATATAATTTAATAAAATTCTTAATATAATTATTATTTTATGAATTAAAAAATCATAA
1 AAAATAATATATAATTTAATAAAATTCTTAATATAATTATTATTTTATGAATTAAAAAATCATAA
189915 TATATAATACTATA
66 TATATAATACTATA
189929 AAAATAATATATAATTTAATAAAAAATTCTTAA
1 AAAATAATATATAATTTAAT--AAAATTCTTAA
189962 AAATATGTTT
Statistics
Matches: 110, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
79 99 0.90
81 11 0.10
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (79 bp):
AAAATAATATATAATTTAATAAAATTCTTAATATAATTATTATTTTATGAATTAAAAAATCATAA
TATATAATACTATA
Found at i:189954 original size:23 final size:22
Alignment explanation
Indices: 189902--189954 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 22
189892 TTTTATGAAT
*
189902 TAAAAAATCATAATATATAATAC
1 TAAAAAA-CATAATATATAATAA
*
189925 TATAAAA-ATAATATATAATTTAA
1 TAAAAAACATAATATATAA--TAA
189948 TAAAAAA
1 TAAAAAA
189955 TTCTTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
21 11 0.44
23 14 0.56
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (22 bp):
TAAAAAACATAATATATAATAA
Found at i:195242 original size:46 final size:45
Alignment explanation
Indices: 195134--195449 Score: 321
Period size: 46 Copynumber: 7.6 Consensus size: 45
195124 TACGTATGAT
195134 CACTTATCAC-TTGTC-CTTGATCAGATAAGTGTAGCTAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
195177 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTGAGGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
195223 CACTTATCACTTTGCCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
195269 CACTTATCACTTTGTCACTTGATCAGATAA--GTA--TA----A-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
195305 CACTTATCACTTTATCACTTGATCAGATAA--GTA--TA----A-
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
*
195341 CACTTATCACTTTTTCACTTGATCAGATAA--GTA--TA-G----
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
* *
195377 CACTTATCACTTTTTCACTTGATCAGATAAGTGTAGCTAAAGCTAC
1 CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCT-AGGCTAC
* *
195423 CACTTATCACTTTATCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
195450 AGTACTCAAA
Statistics
Matches: 249, Mismatches: 10, Indels: 25
0.88 0.04 0.09
Matches are distributed among these distances:
36 99 0.40
37 1 0.00
38 3 0.01
40 1 0.00
41 2 0.01
42 2 0.01
43 10 0.04
44 7 0.03
45 21 0.08
46 103 0.41
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (45 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTGTAGCTAGGCTAC
Found at i:195309 original size:36 final size:36
Alignment explanation
Indices: 195269--195408 Score: 253
Period size: 36 Copynumber: 3.9 Consensus size: 36
195259 CTAAAGCTAC
*
195269 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
*
195305 CACTTATCACTTTATCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
*
195341 CACTTATCACTTTTTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
195377 CACTTATCACTTTTTCACTTGATCAGATAAGT
1 CACTTATCACTTTTTCACTTGATCAGATAAGT
195409 GTAGCTAAAG
Statistics
Matches: 101, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 101 1.00
ACGTcount: A:0.32, C:0.20, G:0.10, T:0.38
Consensus pattern (36 bp):
CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
Found at i:198484 original size:42 final size:42
Alignment explanation
Indices: 198380--198488 Score: 134
Period size: 42 Copynumber: 2.6 Consensus size: 42
198370 CGTACAATGC
*
198380 CAACGTCCCTGACGTGGTCTTACATGTAATCACATATCGATG
1 CAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATG
* *
198422 CCACTGTCCCAGATAG-GGTCTTACATGTAA-CACA-AGTCGATG
1 CAAC-GTCCCAGA-CGTGGTCTTACATGTAATCACATA-TCGATG
198464 TCAACGTCCCAGACGTGGTCTTACA
1 -CAACGTCCCAGACGTGGTCTTACA
198489 CGATAACATA
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
41 2 0.04
42 30 0.53
43 24 0.42
44 1 0.02
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.26
Consensus pattern (42 bp):
CAACGTCCCAGACGTGGTCTTACATGTAATCACATATCGATG
Found at i:207278 original size:19 final size:18
Alignment explanation
Indices: 207254--207365 Score: 62
Period size: 20 Copynumber: 5.8 Consensus size: 18
207244 AATATAAAAA
207254 ATAAAAATTTATAAAATTT
1 ATAAAAA-TTATAAAATTT
*
207273 ATAAAAATTATTAAATTTT
1 ATAAAAATTA-TAAAATTT
* * **
207292 ATTGAAAATTAGAATTTTTTT
1 A-TAAAAATTATAA--AATTT
* **
207313 ATAAAAAATAGTAAAAAAAT
1 ATAAAAATTA-T-AAAATTT
* *
207333 AAAAAAATTGTAAAATTT
1 ATAAAAATTATAAAATTT
*
207351 ATAAAAATCATAAAA
1 ATAAAAATTATAAAA
207366 AACTATAAAA
Statistics
Matches: 68, Mismatches: 19, Indels: 13
0.68 0.19 0.13
Matches are distributed among these distances:
18 20 0.29
19 18 0.26
20 23 0.34
21 5 0.07
22 2 0.03
ACGTcount: A:0.59, C:0.01, G:0.04, T:0.37
Consensus pattern (18 bp):
ATAAAAATTATAAAATTT
Found at i:207614 original size:21 final size:21
Alignment explanation
Indices: 207559--207622 Score: 55
Period size: 21 Copynumber: 3.1 Consensus size: 21
207549 GATACGATAA
*
207559 TTTTTATAATTTT-TCTTACAA
1 TTTTTATAATTTTCT-TTACAC
* *
207580 ATTTTGT-A-TTTCTTTACAC
1 TTTTTATAATTTTCTTTACAC
207599 TTTTTATAATTTTC-TTACAAC
1 TTTTTATAATTTTCTTTAC-AC
207620 TTT
1 TTT
207623 ATAAAATTGT
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
19 13 0.38
20 7 0.21
21 14 0.41
ACGTcount: A:0.25, C:0.12, G:0.02, T:0.61
Consensus pattern (21 bp):
TTTTTATAATTTTCTTTACAC
Found at i:207630 original size:21 final size:21
Alignment explanation
Indices: 207588--207630 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
207578 AAATTTTGTA
* *
207588 TTTCTTTACACTTTTTATAAT
1 TTTCTTTACACTTTATAAAAT
207609 TTTC-TTACAACTTTATAAAAT
1 TTTCTTTAC-ACTTTATAAAAT
207630 T
1 T
207631 GTATAATTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 4 0.21
21 15 0.79
ACGTcount: A:0.30, C:0.14, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTCTTTACACTTTATAAAAT
Found at i:207651 original size:10 final size:9
Alignment explanation
Indices: 207638--207696 Score: 52
Period size: 10 Copynumber: 6.4 Consensus size: 9
207628 ATTGTATAAT
207638 TATTTTTCTA
1 TATTTTT-TA
207648 TA-TTTTTA
1 TATTTTTTA
207656 TA-TTTTTA
1 TATTTTTTA
207664 TAATTTTTTA
1 T-ATTTTTTA
*
207674 TGATTTTTAA
1 T-ATTTTTTA
207684 TAATTTTTT-
1 T-ATTTTTTA
207693 TATT
1 TATT
207697 AAAATTTAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 6
0.81 0.08 0.11
Matches are distributed among these distances:
8 14 0.33
9 6 0.14
10 23 0.53
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (9 bp):
TATTTTTTA
Found at i:207656 original size:16 final size:17
Alignment explanation
Indices: 207638--207696 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 17
207628 ATTGTATAAT
*
207638 TATTTTTCTATATTTTTA
1 TATTTTTATA-ATTTTTA
207656 TATTTTTATAATTTTTTA
1 TATTTTTATAA-TTTTTA
*
207674 TGATTTTTAATAATTTTTT
1 T-ATTTTT-ATAATTTTTA
207693 TATT
1 TATT
207697 AAAATTTAAT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
17 1 0.03
18 19 0.53
19 12 0.33
20 4 0.11
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.71
Consensus pattern (17 bp):
TATTTTTATAATTTTTA
Found at i:207657 original size:8 final size:8
Alignment explanation
Indices: 207637--207696 Score: 50
Period size: 8 Copynumber: 6.9 Consensus size: 8
207627 AATTGTATAA
207637 TTAT-TTT
1 TTATATTT
207644 TCTATATTT
1 T-TATATTT
207653 TTATATTT
1 TTATATTT
207661 TTATAATTTT
1 TTAT-A-TTT
207671 TTATGATTT
1 TTAT-ATTT
207680 TTAATAATTT
1 TT-AT-ATTT
*
207690 TTTTATT
1 TTATATT
207697 AAAATTTAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
7 1 0.02
8 17 0.38
9 11 0.24
10 16 0.36
ACGTcount: A:0.25, C:0.02, G:0.02, T:0.72
Consensus pattern (8 bp):
TTATATTT
Found at i:207686 original size:20 final size:18
Alignment explanation
Indices: 207650--207696 Score: 69
Period size: 18 Copynumber: 2.6 Consensus size: 18
207640 TTTTTCTATA
207650 TTTTTATATTTTTATAAT
1 TTTTTATATTTTTATAAT
207668 TTTTTATGATTTTTAATAAT
1 TTTTTAT-ATTTTT-ATAAT
207688 TTTTT-TATT
1 TTTTTATATT
207697 AAAATTTAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
18 10 0.37
19 7 0.26
20 10 0.37
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (18 bp):
TTTTTATATTTTTATAAT
Found at i:212394 original size:18 final size:18
Alignment explanation
Indices: 212371--212406 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
212361 AGACTTCCAC
212371 GCTTCGGTTGACAGTCTT
1 GCTTCGGTTGACAGTCTT
*
212389 GCTTCGGTTGATAGTCTT
1 GCTTCGGTTGACAGTCTT
212407 CTTGAAGTAC
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:0.11, C:0.19, G:0.28, T:0.42
Consensus pattern (18 bp):
GCTTCGGTTGACAGTCTT
Found at i:212730 original size:41 final size:41
Alignment explanation
Indices: 212673--212753 Score: 153
Period size: 41 Copynumber: 2.0 Consensus size: 41
212663 TGGTTTGCTG
*
212673 CCCATCAAACCAACTTCCGACAGTAGATCAAGAACATATTA
1 CCCATCAAACCAACTTCCGACAGTAGATCAAAAACATATTA
212714 CCCATCAAACCAACTTCCGACAGTAGATCAAAAACATATT
1 CCCATCAAACCAACTTCCGACAGTAGATCAAAAACATATT
212754 TCCTTTGGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.42, C:0.30, G:0.09, T:0.20
Consensus pattern (41 bp):
CCCATCAAACCAACTTCCGACAGTAGATCAAAAACATATTA
Found at i:226067 original size:13 final size:13
Alignment explanation
Indices: 226049--226078 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
226039 CAATCAGCTA
226049 AATTCAGAAAAAC
1 AATTCAGAAAAAC
226062 AATTCAGAAAAAC
1 AATTCAGAAAAAC
226075 AATT
1 AATT
226079 ACATGACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.60, C:0.13, G:0.07, T:0.20
Consensus pattern (13 bp):
AATTCAGAAAAAC
Found at i:230061 original size:20 final size:20
Alignment explanation
Indices: 229949--230065 Score: 85
Period size: 20 Copynumber: 5.9 Consensus size: 20
229939 GATGTGTAAT
* *
229949 AGAGGCACCAAAGTGTAGAC
1 AGAGGCACCAAAGTGCAAAC
* * *
229969 AGGGGCA-AAAATGTGCAATC
1 AGAGGCACCAAA-GTGCAAAC
** *
229989 A-AGGCACCGTAGAGCAAAC
1 AGAGGCACCAAAGTGCAAAC
* * *
230008 AGAGACACCAAAGTGTATAC
1 AGAGGCACCAAAGTGCAAAC
***
230028 AGAGGCATTGAAGTGCAAAC
1 AGAGGCACCAAAGTGCAAAC
230048 AGAGGCACCAAAGTGCAA
1 AGAGGCACCAAAGTGCAA
230066 TCTCATACAA
Statistics
Matches: 68, Mismatches: 26, Indels: 6
0.68 0.26 0.06
Matches are distributed among these distances:
19 14 0.21
20 54 0.79
ACGTcount: A:0.42, C:0.20, G:0.27, T:0.11
Consensus pattern (20 bp):
AGAGGCACCAAAGTGCAAAC
Found at i:232909 original size:21 final size:21
Alignment explanation
Indices: 232875--232914 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
232865 GGACTAAATC
* *
232875 GAAAACATTTGAAACATTGAG
1 GAAAACATTAGAAAAATTGAG
*
232896 GAAAACGTTAGAAAAATTG
1 GAAAACATTAGAAAAATTG
232915 GGTTGCAGGG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.50, C:0.07, G:0.20, T:0.23
Consensus pattern (21 bp):
GAAAACATTAGAAAAATTGAG
Found at i:255595 original size:30 final size:30
Alignment explanation
Indices: 255542--255632 Score: 112
Period size: 30 Copynumber: 3.0 Consensus size: 30
255532 GGACGAGGAA
* *
255542 CTTGATATAAAT-TTCAACTTGTGTGAGCATC
1 CTTGATAT-AATGTT-AGCTTGTGTGAGCAAC
255573 CTTGATATAATGTTAGCTTGTGTGAGCAAC
1 CTTGATATAATGTTAGCTTGTGTGAGCAAC
* * *
255603 CCTAATATAATGTTAGCTTATGTGAGCAAC
1 CTTGATATAATGTTAGCTTGTGTGAGCAAC
255633 TTAATCACCT
Statistics
Matches: 54, Mismatches: 5, Indels: 3
0.87 0.08 0.05
Matches are distributed among these distances:
30 44 0.81
31 10 0.19
ACGTcount: A:0.30, C:0.15, G:0.19, T:0.36
Consensus pattern (30 bp):
CTTGATATAATGTTAGCTTGTGTGAGCAAC
Found at i:257552 original size:294 final size:294
Alignment explanation
Indices: 257023--257610 Score: 1176
Period size: 294 Copynumber: 2.0 Consensus size: 294
257013 ATTCAGGAGA
257023 GTTATCAATGGCTATTTGAACTGATATATTATGATTGAGATTGAATATTAACATAGAGACTAAAT
1 GTTATCAATGGCTATTTGAACTGATATATTATGATTGAGATTGAATATTAACATAGAGACTAAAT
257088 TGAATGAAATGAAAAATAGTATGATTAAATTTGTATGTGTTATTTTGTAACAACCCATTGTTCAG
66 TGAATGAAATGAAAAATAGTATGATTAAATTTGTATGTGTTATTTTGTAACAACCCATTGTTCAG
257153 TGGTGTTAGAAATAGTGGTTTTGGGACCATAATTCCGATGTGTGAGCCTTTAAATATTATTTATT
131 TGGTGTTAGAAATAGTGGTTTTGGGACCATAATTCCGATGTGTGAGCCTTTAAATATTATTTATT
257218 TAATGTTTATGAGTATTCATTAGAGTCATATTAAAATTTGGTTAAGAAATTTCAACGTTTAGATA
196 TAATGTTTATGAGTATTCATTAGAGTCATATTAAAATTTGGTTAAGAAATTTCAACGTTTAGATA
257283 TTTAATTAGTTAAAAAGGACTAAATCGTAACAAC
261 TTTAATTAGTTAAAAAGGACTAAATCGTAACAAC
257317 GTTATCAATGGCTATTTGAACTGATATATTATGATTGAGATTGAATATTAACATAGAGACTAAAT
1 GTTATCAATGGCTATTTGAACTGATATATTATGATTGAGATTGAATATTAACATAGAGACTAAAT
257382 TGAATGAAATGAAAAATAGTATGATTAAATTTGTATGTGTTATTTTGTAACAACCCATTGTTCAG
66 TGAATGAAATGAAAAATAGTATGATTAAATTTGTATGTGTTATTTTGTAACAACCCATTGTTCAG
257447 TGGTGTTAGAAATAGTGGTTTTGGGACCATAATTCCGATGTGTGAGCCTTTAAATATTATTTATT
131 TGGTGTTAGAAATAGTGGTTTTGGGACCATAATTCCGATGTGTGAGCCTTTAAATATTATTTATT
257512 TAATGTTTATGAGTATTCATTAGAGTCATATTAAAATTTGGTTAAGAAATTTCAACGTTTAGATA
196 TAATGTTTATGAGTATTCATTAGAGTCATATTAAAATTTGGTTAAGAAATTTCAACGTTTAGATA
257577 TTTAATTAGTTAAAAAGGACTAAATCGTAACAAC
261 TTTAATTAGTTAAAAAGGACTAAATCGTAACAAC
257611 TATAAAAAGA
Statistics
Matches: 294, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
294 294 1.00
ACGTcount: A:0.36, C:0.08, G:0.17, T:0.38
Consensus pattern (294 bp):
GTTATCAATGGCTATTTGAACTGATATATTATGATTGAGATTGAATATTAACATAGAGACTAAAT
TGAATGAAATGAAAAATAGTATGATTAAATTTGTATGTGTTATTTTGTAACAACCCATTGTTCAG
TGGTGTTAGAAATAGTGGTTTTGGGACCATAATTCCGATGTGTGAGCCTTTAAATATTATTTATT
TAATGTTTATGAGTATTCATTAGAGTCATATTAAAATTTGGTTAAGAAATTTCAACGTTTAGATA
TTTAATTAGTTAAAAAGGACTAAATCGTAACAAC
Found at i:268834 original size:40 final size:40
Alignment explanation
Indices: 268790--268928 Score: 242
Period size: 40 Copynumber: 3.5 Consensus size: 40
268780 TATTGATGAT
268790 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
268830 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
* *
268870 TGCACATACGTGCCCCTGTTTGTACTTCGATATTCCCTGAA
1 TGCACATACGTGCCCCTGTTTGTACTTCGGTA-CCCCTGAA
*
268911 TGCACTTACGTGCCCCTG
1 TGCACATACGTGCCCCTG
268929 ATTATGCTCT
Statistics
Matches: 95, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
40 71 0.75
41 24 0.25
ACGTcount: A:0.17, C:0.32, G:0.19, T:0.31
Consensus pattern (40 bp):
TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAA
Found at i:268929 original size:20 final size:20
Alignment explanation
Indices: 268790--268929 Score: 79
Period size: 20 Copynumber: 7.0 Consensus size: 20
268780 TATTGATGAT
* **
268790 TGCACATACGTGCCCCTGTT
1 TGCACTTACGTGCCCCTGAA
* *
268810 TGTACTT-CGGTACCCCTGAA
1 TGCACTTAC-GTGCCCCTGAA
* **
268830 TGCACATACGTGCCCCTGTT
1 TGCACTTACGTGCCCCTGAA
* *
268850 TGTACTT-CGGTACCCCTGAA
1 TGCACTTAC-GTGCCCCTGAA
* **
268870 TGCACATACGTGCCCCTGTT
1 TGCACTTACGTGCCCCTGAA
* **
268890 TGTACTT-CGATATTCCCTGAA
1 TGCACTTACG-T-GCCCCTGAA
268911 TGCACTTACGTGCCCCTGA
1 TGCACTTACGTGCCCCTGA
268930 TTATGCTCTG
Statistics
Matches: 84, Mismatches: 29, Indels: 14
0.66 0.23 0.11
Matches are distributed among these distances:
19 4 0.05
20 64 0.76
21 14 0.17
22 2 0.02
ACGTcount: A:0.18, C:0.32, G:0.19, T:0.31
Consensus pattern (20 bp):
TGCACTTACGTGCCCCTGAA
Found at i:268948 original size:81 final size:80
Alignment explanation
Indices: 268790--268951 Score: 236
Period size: 81 Copynumber: 2.0 Consensus size: 80
268780 TATTGATGAT
* * *
268790 TGCACATACGTGCCCCTGTTTGTACTTCGGTACCCCTGAATGCACATACGTGCCCCTGTTTGTAC
1 TGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGAATGCACATACGTGCCCCTGATTATAC
*
268855 TTCGGTACCCCTGAA
66 TTCGGTAACCCTGAA
* * *
268870 TGCACATACGTGCCCCTGTTTGTACTTCGATATTCCCTGAATGCACTTACGTGCCCCTGATTATG
1 TGCACATACGTGCCCCTGTTTGTACTTCGATA-CCCCTGAATGCACATACGTGCCCCTGATTATA
268935 C-TCTGGTAACCCTGAA
65 CTTC-GGTAACCCTGAA
268951 T
1 T
268952 CAAATAGTAT
Statistics
Matches: 73, Mismatches: 7, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
80 33 0.45
81 40 0.55
ACGTcount: A:0.19, C:0.31, G:0.19, T:0.31
Consensus pattern (80 bp):
TGCACATACGTGCCCCTGTTTGTACTTCGATACCCCTGAATGCACATACGTGCCCCTGATTATAC
TTCGGTAACCCTGAA
Found at i:270087 original size:12 final size:12
Alignment explanation
Indices: 270070--270097 Score: 56
Period size: 12 Copynumber: 2.3 Consensus size: 12
270060 CACTTCTGAA
270070 CCACTGCCCAAG
1 CCACTGCCCAAG
270082 CCACTGCCCAAG
1 CCACTGCCCAAG
270094 CCAC
1 CCAC
270098 CGTCAACCAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 16 1.00
ACGTcount: A:0.25, C:0.54, G:0.14, T:0.07
Consensus pattern (12 bp):
CCACTGCCCAAG
Found at i:271443 original size:14 final size:14
Alignment explanation
Indices: 271424--271462 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 14
271414 TTAGGAAATT
271424 AAATCAATTTTTAA
1 AAATCAATTTTTAA
* *
271438 AAATCAATATTTGA
1 AAATCAATTTTTAA
*
271452 AAATCAGTTTT
1 AAATCAATTTT
271463 AAATACCTTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (14 bp):
AAATCAATTTTTAA
Found at i:272654 original size:29 final size:29
Alignment explanation
Indices: 272612--272671 Score: 93
Period size: 29 Copynumber: 2.1 Consensus size: 29
272602 TGAAAGTACG
*
272612 TATGTGGATATGTTATTCATGACATGTGA
1 TATGTGGATATGTTAGTCATGACATGTGA
* *
272641 TATGTGGGTATGTTAGTCATGCCATGTGA
1 TATGTGGATATGTTAGTCATGACATGTGA
272670 TA
1 TA
272672 GTGTTTATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.25, C:0.08, G:0.27, T:0.40
Consensus pattern (29 bp):
TATGTGGATATGTTAGTCATGACATGTGA
Found at i:277880 original size:112 final size:113
Alignment explanation
Indices: 277741--277967 Score: 404
Period size: 114 Copynumber: 2.0 Consensus size: 113
277731 AAATTAGTCT
*
277741 AAGTATGACCAAAAAAGT-AAAAGAAAAAAAATCAGATACGGAGATGAGAAAAACGTAGAGTTTA
1 AAGTATGACCAAAAAAGTAAAAAAAAAAAAAATCAGATACGGAGATGAGAAAAACGTAGAGTTTA
277805 AGTTCCCTATGTGGATTAAGGAAAAAACAGAAGGAAAGGAAAAAAGAA
66 AGTTCCCTATGTGGATTAAGGAAAAAACAGAAGGAAAGGAAAAAAGAA
277853 AAGTATGACC-AAAAAGTAAAAAAAAAAAAAAAATCAGATACGGAGATGAGAAAAACGTAGAGTT
1 AAGTATGACCAAAAAAGT--AAAAAAAAAAAAAATCAGATACGGAGATGAGAAAAACGTAGAGTT
*
277917 TAAGTTCCCTATGTGGATTAAGGAAAAAACAGAAGGAAAGGAACAAAGAA
64 TAAGTTCCCTATGTGGATTAAGGAAAAAACAGAAGGAAAGGAAAAAAGAA
277967 A
1 A
277968 TTTACTAATA
Statistics
Matches: 110, Mismatches: 2, Indels: 4
0.95 0.02 0.03
Matches are distributed among these distances:
111 7 0.06
112 10 0.09
114 93 0.85
ACGTcount: A:0.55, C:0.08, G:0.22, T:0.15
Consensus pattern (113 bp):
AAGTATGACCAAAAAAGTAAAAAAAAAAAAAATCAGATACGGAGATGAGAAAAACGTAGAGTTTA
AGTTCCCTATGTGGATTAAGGAAAAAACAGAAGGAAAGGAAAAAAGAA
Found at i:280303 original size:3 final size:3
Alignment explanation
Indices: 280295--280360 Score: 132
Period size: 3 Copynumber: 22.0 Consensus size: 3
280285 CTCCATTAGT
280295 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
280343 TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC
280361 GTCATTACAT
Statistics
Matches: 63, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 63 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:290580 original size:40 final size:40
Alignment explanation
Indices: 290549--290838 Score: 422
Period size: 40 Copynumber: 7.3 Consensus size: 40
290539 GGACTAAGAT
* * * *
290549 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGTTATTAAA-TCCGGGTTAAGTC
* * * *
290589 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
290629 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
290669 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
290709 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* *
290749 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
* * * * *
290789 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
290828 CCGAAGGCATT
1 CCGAAGGCATT
290839 TGAACGAGGA
Statistics
Matches: 235, Mismatches: 14, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
39 34 0.14
40 198 0.84
41 3 0.01
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
Found at i:290633 original size:80 final size:80
Alignment explanation
Indices: 290496--290838 Score: 424
Period size: 80 Copynumber: 4.3 Consensus size: 80
290486 TTGAATGCTG
* * * * * * **
290496 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
* * *
290559 TTGTGCGAGATA-CAAA
64 TCGTGCGAGTTATTAAA
* * * * *
290575 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATT
1 -TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT
290640 CGTGCGAGTTATTAAA
65 CGTGCGAGTTATTAAA
290656 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
290721 GTGCGAGTTATTAAA
66 GTGCGAGTTATTAAA
* *
290736 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATT-
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
290800 GTGTGAGTTACTAAA
66 GTGCGAGTTATTAAA
* * *
290815 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
290839 TGAACGAGGA
Statistics
Matches: 236, Mismatches: 24, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
79 35 0.15
80 191 0.81
81 10 0.04
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTATTAAA
Found at i:290712 original size:120 final size:118
Alignment explanation
Indices: 290496--290840 Score: 424
Period size: 120 Copynumber: 2.9 Consensus size: 118
290486 TTGAATGCTG
* * * * * * **
290496 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCA-
* * * *
290559 TTGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
63 TTGTGCGAGTTATAAA-TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
290616 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATT-
* * *
290681 GTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
65 GTGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
* *
290736 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTG
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
* * * *
290801 TGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
66 TGCGAGTTA-TAAATCCGGGTTAAGTCCCGAAGGCATTTG
290841 AACGAGGAGC
Statistics
Matches: 198, Mismatches: 23, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
119 38 0.19
120 151 0.76
121 9 0.05
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (118 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCCCGAAGGCATTG
TGCGAGTTATAAATCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGATACTAAA
Found at i:300107 original size:39 final size:39
Alignment explanation
Indices: 299943--300125 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
299933 TTGAATGCTG
* * * * * * *
299943 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
299983 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
300023 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
300063 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
300102 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
300126 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:300145 original size:79 final size:80
Alignment explanation
Indices: 299979--300160 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
299969 GCTAAGTGAA
* * * *
299979 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
300043 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
300059 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
300123 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
300138 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
300161 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:301924 original size:85 final size:84
Alignment explanation
Indices: 301818--301972 Score: 247
Period size: 85 Copynumber: 1.8 Consensus size: 84
301808 CATTGAATAA
* * *
301818 AAAGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGAATTTAAAGGTGGTTGCTAAGTGCTGATT
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGAATTT-AAGGTGGTTGCTAAGTGCTGAAT
301883 CCACCGTATCTTTGGCTGTG
65 CCACCGTATCTTTGGCTGTG
* * *
301903 AAAGGGGTTGCTATGTGCTGATTCCCCGTATCGCTGAATTTAAGGTGGTTGCTAAGTGCTGAATC
1 AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGAATTTAAGGTGGTTGCTAAGTGCTGAATC
301968 CACCG
66 CACCG
301973 AGTAACGGAT
Statistics
Matches: 64, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
84 28 0.44
85 36 0.56
ACGTcount: A:0.22, C:0.18, G:0.28, T:0.32
Consensus pattern (84 bp):
AAAGGGGTTGCTAAGTGCTGATTCCCCGAATCACTGAATTTAAGGTGGTTGCTAAGTGCTGAATC
CACCGTATCTTTGGCTGTG
Found at i:301926 original size:43 final size:42
Alignment explanation
Indices: 301809--301964 Score: 158
Period size: 42 Copynumber: 3.7 Consensus size: 42
301799 ACCGAAAAAC
** *
301809 ATTGAATAAAAAGGGGTTGCTAAGTGCTGATTCCCCGAAT-T
1 ATTGAATTGAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCT
*
301850 ATTGAATTTAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCT
1 ATTGAATTGAAAGG-GGTTGCTAAGTGCTGATTCC-CCGTATCT
** *
301894 -TTGGCTGTGAAAGGGGTTGCTATGTGCTGATTCCCCGTATC-
1 ATTGAAT-TGAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCT
** *
301935 GCTGAATT-TAAGGTGGTTGCTAAGTGCTGA
1 ATTGAATTGAAAGG-GGTTGCTAAGTGCTGA
301965 ATCCACCGAG
Statistics
Matches: 97, Mismatches: 12, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
40 4 0.04
41 28 0.29
42 30 0.31
43 28 0.29
44 7 0.07
ACGTcount: A:0.24, C:0.15, G:0.28, T:0.33
Consensus pattern (42 bp):
ATTGAATTGAAAGGGGTTGCTAAGTGCTGATTCCCCGTATCT
Found at i:304769 original size:103 final size:104
Alignment explanation
Indices: 304652--304861 Score: 309
Period size: 103 Copynumber: 2.0 Consensus size: 104
304642 GCCAAAATAA
* ** *
304652 TATCGATTTTCAATTGAGTATTGATAC-TTTTTGGTAAAATATCAATACCATCAACTAATTATTG
1 TATCAATTTTCAATTGAGTATCAATACATTTTT-GTAAAATATCAATACCATCAACTAATTATCG
*
304716 ATACCA-TTGTTTTACAAAGAAAACA-AAGTTGAATTTTTG
65 ATACCATTTGTTTTACAAAGAAAACATAA-TTGAATTTTGG
*
304755 TATCAATTTTCAATTGAGTATCAATACATTTTTGTAAAATATCGATACCATCAACTAATTATCGA
1 TATCAATTTTCAATTGAGTATCAATACATTTTTGTAAAATATCAATACCATCAACTAATTATCGA
* *
304820 TACCATTTTTTTTACAAAGAAAATATAATTGAATTTTGG
66 TACCATTTGTTTTACAAAGAAAACATAATTGAATTTTGG
304859 TAT
1 TAT
304862 TGATTTTTCT
Statistics
Matches: 96, Mismatches: 8, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
103 59 0.61
104 35 0.36
105 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.10, T:0.40
Consensus pattern (104 bp):
TATCAATTTTCAATTGAGTATCAATACATTTTTGTAAAATATCAATACCATCAACTAATTATCGA
TACCATTTGTTTTACAAAGAAAACATAATTGAATTTTGG
Found at i:305252 original size:18 final size:19
Alignment explanation
Indices: 305229--305266 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
305219 TGGTTTTCTC
*
305229 AAAATGGAAATG-GAAATG
1 AAAATGAAAATGAGAAATG
305247 AAAATGAAAATGAGAAATG
1 AAAATGAAAATGAGAAATG
305266 A
1 A
305267 TTCATTTACA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 11 0.61
19 7 0.39
ACGTcount: A:0.61, C:0.00, G:0.24, T:0.16
Consensus pattern (19 bp):
AAAATGAAAATGAGAAATG
Found at i:323958 original size:30 final size:29
Alignment explanation
Indices: 323922--324084 Score: 134
Period size: 30 Copynumber: 5.4 Consensus size: 29
323912 AGCTATCGAT
* *
323922 TATGAAAAGGGATGGTGACGACCATGGAAC
1 TATGAAAAGGGATGATGACGACCAT-CAAC
* ** * *
323952 TATGAAAAGGGATGGCT-TTGGCTATCAATC
1 TATGAAAAGGGAT-GATGACGACCATCAA-C
* *
323982 TATGAAAAGGGATGACT-TC-AGCTATCAATC
1 TATGAAAAGGGATGA-TGACGA-CCATCAA-C
324012 TATGAAAAGGGATGATGACGACCATCGAAC
1 TATGAAAAGGGATGATGACGACCATC-AAC
* *
324042 TATGAAAAGGGATGATGACGACAATCAAAT
1 TATGAAAAGGGATGATGACGACCATC-AAC
324072 TATGAAAAGGGAT
1 TATGAAAAGGGAT
324085 AGCTTCAGTT
Statistics
Matches: 112, Mismatches: 14, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
29 4 0.04
30 103 0.92
31 5 0.04
ACGTcount: A:0.39, C:0.13, G:0.26, T:0.22
Consensus pattern (29 bp):
TATGAAAAGGGATGATGACGACCATCAAC
Found at i:324069 original size:90 final size:90
Alignment explanation
Indices: 323894--324113 Score: 252
Period size: 90 Copynumber: 2.5 Consensus size: 90
323884 TTATCGATGA
* * * * * *
323894 ATGAAAACGAATAGCTTTAGCTATCGAT-TATGAAAAGGGATGGTGACGACCATGGAACTATGAA
1 ATGAAAAGGGATAGCTTCAGCTATCAATCTATGAAAAGGGATGATGACGACCATCGAACTATGAA
* ** * *
323958 AAGGGATGGCTTTGGCTATC-AATCT
66 AAGGGATGGATACGACAATCAAAT-T
323983 ATGAAAAGGGAT-GACTTCAGCTATCAATCTATGAAAAGGGATGATGACGACCATCGAACTATGA
1 ATGAAAAGGGATAG-CTTCAGCTATCAATCTATGAAAAGGGATGATGACGACCATCGAACTATGA
324047 AAAGGGAT-GATGACGACAATCAAATT
65 AAAGGGATGGAT-ACGACAATCAAATT
* *
324073 ATGAAAAGGGATAGCTTCAGTTGTCGAA-CTATGAAAAGGGA
1 ATGAAAAGGGATAGCTTCAGCTATC-AATCTATGAAAAGGGA
324114 AAACTTCGGT
Statistics
Matches: 112, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
88 1 0.01
89 24 0.21
90 81 0.72
91 6 0.05
ACGTcount: A:0.38, C:0.13, G:0.25, T:0.23
Consensus pattern (90 bp):
ATGAAAAGGGATAGCTTCAGCTATCAATCTATGAAAAGGGATGATGACGACCATCGAACTATGAA
AAGGGATGGATACGACAATCAAATT
Found at i:327136 original size:37 final size:37
Alignment explanation
Indices: 327086--327164 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
327076 TTATTACGAA
* * *
327086 GTCTTACCCGGACATAATCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
*
327123 GTCTTACCCGGACAAAATCCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
327160 GTCTT
1 GTCTT
327165 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.25, C:0.32, G:0.19, T:0.24
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATCCCCACACGAAGTCATCGG
Found at i:327370 original size:47 final size:47
Alignment explanation
Indices: 327283--327849 Score: 947
Period size: 47 Copynumber: 12.1 Consensus size: 47
327273 CCTTTCGGGA
* * * * * * * * *
327283 CTTATCACATTTATGCACTTCCACATCCATTACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
327330 CTTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
327377 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
327424 CTTATCACACACATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
327471 C-TATCACACATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
327517 CCTATCACACATATACACTTTCACATTCATCACGTCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
327564 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
327611 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
327658 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
327705 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
327752 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
327799 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
327846 CTTA
1 CTTA
327850 CTATCATTTC
Statistics
Matches: 497, Mismatches: 22, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
46 44 0.09
47 453 0.91
ACGTcount: A:0.29, C:0.31, G:0.09, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:335454 original size:29 final size:30
Alignment explanation
Indices: 335389--335578 Score: 129
Period size: 30 Copynumber: 6.4 Consensus size: 30
335379 TCATTGACGA
* *
335389 ATGAAAAGGAATAGCTTCGGCTATCGAA-T
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
* * *
335418 ACGGAAAGGGATAGCTTTAGCTATC-AATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
* * * * *
335447 ATGAAAAGGGAT-GGTGACGGCCATCGAACT
1 ATGAAAAGGGATAGCT-TCAGCTATCGAATT
* * * * *
335477 ATGAAAAGGGAT-GGTGACAACCATCGAACT
1 ATGAAAAGGGATAGCT-TCAGCTATCGAATT
* **
335507 ATGAAAAGGGATGGCTTTGGCTATC-AATCT
1 ATGAAAAGGGATAGCTTCAGCTATCGAAT-T
* *
335537 ATGAAAAGGGATAGCTTCGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCAGCTATCGAATT
*
335567 ATAAAAAGGGAT
1 ATGAAAAGGGAT
335579 GGTGACAACC
Statistics
Matches: 130, Mismatches: 25, Indels: 11
0.78 0.15 0.07
Matches are distributed among these distances:
28 4 0.03
29 38 0.29
30 83 0.64
31 5 0.04
ACGTcount: A:0.37, C:0.14, G:0.26, T:0.23
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCAGCTATCGAATT
Found at i:335482 original size:30 final size:30
Alignment explanation
Indices: 335446--335638 Score: 158
Period size: 30 Copynumber: 6.4 Consensus size: 30
335436 AGCTATCAAT
*
335446 TATGAAAAGGGATGGTGACGGCCATCGAAC
1 TATGAAAAGGGATGGTGACGACCATCGAAC
*
335476 TATGAAAAGGGATGGTGACAACCATCGAAC
1 TATGAAAAGGGATGGTGACGACCATCGAAC
** * *
335506 TATGAAAAGGGATGGCT-TTGGCTATC-AATC
1 TATGAAAAGGGATGG-TGACGACCATCGAA-C
* * * * * *
335536 TATGAAAAGGGATAGCT-TCGGCTATCAAAT
1 TATGAAAAGGGAT-GGTGACGACCATCGAAC
* *
335566 TATAAAAAGGGATGGTGACAACCATCGAAC
1 TATGAAAAGGGATGGTGACGACCATCGAAC
* * * * *
335596 TATGAAAAAGGATGGTAATGACCATCAAAT
1 TATGAAAAGGGATGGTGACGACCATCGAAC
*
335626 TATAAAAAGGGAT
1 TATGAAAAGGGAT
335639 AGCTTTGGCA
Statistics
Matches: 131, Mismatches: 27, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
29 4 0.03
30 123 0.94
31 4 0.03
ACGTcount: A:0.39, C:0.13, G:0.25, T:0.22
Consensus pattern (30 bp):
TATGAAAAGGGATGGTGACGACCATCGAAC
Found at i:335513 original size:60 final size:59
Alignment explanation
Indices: 335443--335638 Score: 189
Period size: 60 Copynumber: 3.3 Consensus size: 59
335433 TTTAGCTATC
* * *
335443 AATTATGAAAAGGGATGGTGACGGCCATCGAACTATGAAAAGGGATGGTGACAACCATCG
1 AATTATAAAAAGGGATGGTGACGGCCATCGAACTATGAAAAGGGATGGT-ACGACCATCA
* * ** * * * * *
335503 AACTATGAAAAGGGATGGCT-TTGGCTATC-AATCTATGAAAAGGGATAGCTTCGGCTATCA
1 AATTATAAAAAGGGATGG-TGACGGCCATCGAA-CTATGAAAAGGGAT-GGTACGACCATCA
** * *
335563 AATTATAAAAAGGGATGGTGACAACCATCGAACTATGAAAAAGGATGGTAATGACCATCA
1 AATTATAAAAAGGGATGGTGACGGCCATCGAACTATGAAAAGGGATGGT-ACGACCATCA
335623 AATTATAAAAAGGGAT
1 AATTATAAAAAGGGAT
335639 AGCTTTGGCA
Statistics
Matches: 107, Mismatches: 23, Indels: 12
0.75 0.16 0.08
Matches are distributed among these distances:
59 5 0.05
60 97 0.91
61 5 0.05
ACGTcount: A:0.40, C:0.13, G:0.25, T:0.22
Consensus pattern (59 bp):
AATTATAAAAAGGGATGGTGACGGCCATCGAACTATGAAAAGGGATGGTACGACCATCA
Found at i:335578 original size:90 final size:89
Alignment explanation
Indices: 335422--335610 Score: 272
Period size: 90 Copynumber: 2.1 Consensus size: 89
335412 TCGAATACGG
* * * *
335422 AAAGGGATAGCTTTAGCTATCAATTATGAAAAGGGATGGTGACGGCCATCGAACTATGAAAAGGG
1 AAAGGGATGGCTTTAGCTATCAATTATGAAAAGGGATGCTGACGGCCATCAAACTATAAAAAGGG
335487 ATGGTGACAACCATCGAACTATGA
66 ATGGTGACAACCATCGAACTATGA
* * * *
335511 AAAGGGATGGCTTTGGCTATCAATCTATGAAAAGGGATAGCT-TCGGCTATCAAATTATAAAAAG
1 AAAGGGATGGCTTTAGCTATCAAT-TATGAAAAGGGAT-GCTGACGGCCATCAAACTATAAAAAG
335575 GGATGGTGACAACCATCGAACTATGA
64 GGATGGTGACAACCATCGAACTATGA
*
335601 AAAAGGATGG
1 AAAGGGATGG
335611 TAATGACCAT
Statistics
Matches: 89, Mismatches: 9, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
89 22 0.25
90 65 0.73
91 2 0.02
ACGTcount: A:0.38, C:0.14, G:0.26, T:0.22
Consensus pattern (89 bp):
AAAGGGATGGCTTTAGCTATCAATTATGAAAAGGGATGCTGACGGCCATCAAACTATAAAAAGGG
ATGGTGACAACCATCGAACTATGA
Found at i:335623 original size:90 final size:89
Alignment explanation
Indices: 335440--335668 Score: 266
Period size: 90 Copynumber: 2.6 Consensus size: 89
335430 AGCTTTAGCT
* * * *
335440 ATCAATTATGAAAAGGGAT-GGTGACGGCCATCGAACTATGAAAAGGGATGGTGACAACCATCGA
1 ATCAATTATGAAAAGGGATAGCT-TCGGCCATCAAACTATAAAAAGGGATGGTGACAACCATCGA
* * * *
335504 ACTATGAAAAGGGATGGCTTTGGCT
65 ACTATGAAAAAGGATGGCTATGACC
* *
335529 ATCAATCTATGAAAAGGGATAGCTTCGGCTATCAAATTATAAAAAGGGATGGTGACAACCATCGA
1 ATCAAT-TATGAAAAGGGATAGCTTCGGCCATCAAACTATAAAAAGGGATGGTGACAACCATCGA
335594 ACTATGAAAAAGGATGG-TAATGACC
65 ACTATGAAAAAGGATGGCT-ATGACC
* * * *
335619 ATCAAATTATAAAAAGGGATAGCTTTGG-CAGTCAAACTGTGAAAAGGGAT
1 ATC-AATTATGAAAAGGGATAGCTTCGGCCA-TCAAACTATAAAAAGGGAT
335669 AACTTCAATT
Statistics
Matches: 119, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
89 8 0.07
90 106 0.89
91 5 0.04
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (89 bp):
ATCAATTATGAAAAGGGATAGCTTCGGCCATCAAACTATAAAAAGGGATGGTGACAACCATCGAA
CTATGAAAAAGGATGGCTATGACC
Found at i:337650 original size:27 final size:27
Alignment explanation
Indices: 337612--337667 Score: 112
Period size: 27 Copynumber: 2.1 Consensus size: 27
337602 TTTCTTTAGT
337612 GACTGATTCGGGTCGACGTTAGCTATG
1 GACTGATTCGGGTCGACGTTAGCTATG
337639 GACTGATTCGGGTCGACGTTAGCTATG
1 GACTGATTCGGGTCGACGTTAGCTATG
337666 GA
1 GA
337668 TTAAAATAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.20, C:0.18, G:0.34, T:0.29
Consensus pattern (27 bp):
GACTGATTCGGGTCGACGTTAGCTATG
Found at i:347980 original size:27 final size:27
Alignment explanation
Indices: 347938--347989 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
347928 AGTATGATCC
347938 TAGTCTCAATGATAATCCAAATGGTCT
1 TAGTCTCAATGATAATCCAAATGGTCT
* *
347965 TAGTCTTAATGTTAATCCAAATGGT
1 TAGTCTCAATGATAATCCAAATGGT
347990 TAAGATTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.33, C:0.15, G:0.15, T:0.37
Consensus pattern (27 bp):
TAGTCTCAATGATAATCCAAATGGTCT
Found at i:358654 original size:19 final size:19
Alignment explanation
Indices: 358630--358678 Score: 98
Period size: 19 Copynumber: 2.6 Consensus size: 19
358620 AGTCGTGTGG
358630 CCAGGCTATGTGACAAAGC
1 CCAGGCTATGTGACAAAGC
358649 CCAGGCTATGTGACAAAGC
1 CCAGGCTATGTGACAAAGC
358668 CCAGGCTATGT
1 CCAGGCTATGT
358679 AACATTCCAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.29, C:0.27, G:0.27, T:0.18
Consensus pattern (19 bp):
CCAGGCTATGTGACAAAGC
Found at i:359519 original size:38 final size:38
Alignment explanation
Indices: 359477--359570 Score: 154
Period size: 38 Copynumber: 2.5 Consensus size: 38
359467 AACATTTATT
*
359477 ACACCGGCA-TCAAGCCTGCTAGGCATTAAGCCTAAATA
1 ACACCGGCACT-AAGCCTGCTAGGCATTAAGCATAAATA
*
359515 ACACCGGCACTAAGCCTGCTAGGCATTAAGCATGAATA
1 ACACCGGCACTAAGCCTGCTAGGCATTAAGCATAAATA
359553 ACACCGGCACTAAGCCTG
1 ACACCGGCACTAAGCCTG
359571 AATAACACCG
Statistics
Matches: 53, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
38 52 0.98
39 1 0.02
ACGTcount: A:0.33, C:0.30, G:0.20, T:0.17
Consensus pattern (38 bp):
ACACCGGCACTAAGCCTGCTAGGCATTAAGCATAAATA
Found at i:359528 original size:22 final size:22
Alignment explanation
Indices: 359498--359580 Score: 79
Period size: 22 Copynumber: 4.0 Consensus size: 22
359488 AAGCCTGCTA
* *
359498 GGCATTAAGCCTAAATAACACC
1 GGCACTAAGCCTGAATAACACC
*
359520 GGCACTAAGCCTG-CT---A--
1 GGCACTAAGCCTGAATAACACC
* *
359536 GGCATTAAGCATGAATAACACC
1 GGCACTAAGCCTGAATAACACC
359558 GGCACTAAGCCTGAATAACACC
1 GGCACTAAGCCTGAATAACACC
359580 G
1 G
359581 CATTTGACTA
Statistics
Matches: 47, Mismatches: 8, Indels: 12
0.70 0.12 0.18
Matches are distributed among these distances:
16 11 0.23
17 1 0.02
18 1 0.02
20 1 0.02
21 1 0.02
22 32 0.68
ACGTcount: A:0.36, C:0.28, G:0.19, T:0.17
Consensus pattern (22 bp):
GGCACTAAGCCTGAATAACACC
Found at i:364046 original size:382 final size:379
Alignment explanation
Indices: 363339--364103 Score: 1028
Period size: 382 Copynumber: 2.0 Consensus size: 379
363329 CTGGAGCTCC
* * * * *
363339 CCAAGAAGATATACTTGGTCGAATGAAACCTCTATCTAGTAATTCTTGCAATTGTGCTTTAAGTT
1 CCAAGAAGATATACTCGGTCAAAAGAAACCTCTATCTAGTAATTCTTGCAACTGTGCGTTAAGTT
* ** * * *
363404 CTTTTAACTCAGTTGGTGCCCTTTTATACAGCAGAATCGATATCGATGTCTCGGTTATTAAATCA
66 CTTTTAACTAAGTCAGTGCCATTCTATACAGCAGAATCGATATAGATGTCTCGGTTATTAAATCA
* ** *
363469 ATAGAAAATTCAACTTTTTGCTCTGCCGATAATCTAGATAGCTCTTCAAGAAATACGTATAAGAA
131 ATAGAAAATTCAAATTCCTGCTCTGCCGACAATCTAGATAGCTCTTCAAGAAATACGTATAAGAA
* * * *
363534 TTCACTTACTGTTGGTAAGTGATCCACCTTCTTCTCTGGCACTCTGGAGTCTAGAATGTAAGCTA
196 TTCACATACTGTTGGTAAGTGATCCACCTTCTTCGCTGGCACTCTGGAGTCCAAAATGTAAGCTA
* *
363599 AAAATGCATCACAACCTCTTCATACTAGTTTTTGCGCTTTTATTACCAAGATGAAACTCGAAATA
261 AAAATGCATCACAACCTCTTCATACTAGTTTCTGCGCTTTTATTACCAAGATAAAACTCGAAATA
* ** * *
363664 CTATCGGTTTTATCAAATCTAAAAGAAACTATCCTACCATCGAGACATCTTAAA
326 CCATAAGTTCTATCAAATCTAAAAGAAACTATCCTACCATCGAGACATCTCAAA
363718 CCAAGAAGATATACTCGGTCAAAAGAAACCTCTATCTAGTAATTCTTGCAACTGTGCGTTAAGTT
1 CCAAGAAGATATACTCGGTCAAAAGAAACCTCTATCTAGTAATTCTTGCAACTGTGCGTTAAGTT
* * *
363783 CTTTTAACTAAGTCAGTGCCATTCTATA-TGACAGAATCGATATAGGTGTAGTTCTGGTTATTAA
66 CTTTTAACTAAGTCAGTGCCATTCTATACAG-CAGAATCGATATAGATGT--CTC-GGTTATTAA
* * * * * * * * *
363847 ATCAATAGCAAATTCAAATTCCTGCTTTGGCGGCAATCTCGATAGCTCTTCAGGAAATATGTTTG
127 ATCAATAGAAAATTCAAATTCCTGCTCTGCCGACAATCTAGATAGCTCTTCAAGAAATACGTATA
** * *
363912 AGAATTCACATACTGTTGGTACTTGGTCCACCTTCTTCGCTGGCACTTTGGAGTCCAAAATGTAA
192 AGAATTCACATACTGTTGGTAAGTGATCCACCTTCTTCGCTGGCACTCTGGAGTCCAAAATGTAA
* * ** * * *
363977 GCTAAAAATGCATCACAACCTTTTCGTACTAGTTTCTGCGCTTTTATTGTCGAGTTAAAACTTGA
257 GCTAAAAATGCATCACAACCTCTTCATACTAGTTTCTGCGCTTTTATTACCAAGATAAAACTCGA
* *
364042 AATACCATAAGTTCTATCAAATCTAAAAGAAATTATCCTACCATCGGGACATCTCAAA
322 AATACCATAAGTTCTATCAAATCTAAAAGAAACTATCCTACCATCGAGACATCTCAAA
364100 CCAA
1 CCAA
364104 CTCTTTTTCA
Statistics
Matches: 331, Mismatches: 51, Indels: 5
0.86 0.13 0.01
Matches are distributed among these distances:
378 1 0.00
379 99 0.30
381 2 0.01
382 229 0.69
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.33
Consensus pattern (379 bp):
CCAAGAAGATATACTCGGTCAAAAGAAACCTCTATCTAGTAATTCTTGCAACTGTGCGTTAAGTT
CTTTTAACTAAGTCAGTGCCATTCTATACAGCAGAATCGATATAGATGTCTCGGTTATTAAATCA
ATAGAAAATTCAAATTCCTGCTCTGCCGACAATCTAGATAGCTCTTCAAGAAATACGTATAAGAA
TTCACATACTGTTGGTAAGTGATCCACCTTCTTCGCTGGCACTCTGGAGTCCAAAATGTAAGCTA
AAAATGCATCACAACCTCTTCATACTAGTTTCTGCGCTTTTATTACCAAGATAAAACTCGAAATA
CCATAAGTTCTATCAAATCTAAAAGAAACTATCCTACCATCGAGACATCTCAAA
Found at i:371687 original size:15 final size:15
Alignment explanation
Indices: 371667--371696 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
371657 GTTAACAAGA
371667 AAGAGGAGTTTAGAC
1 AAGAGGAGTTTAGAC
371682 AAGAGGAGTTTAGAC
1 AAGAGGAGTTTAGAC
371697 TCCGTGAACC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.33, T:0.20
Consensus pattern (15 bp):
AAGAGGAGTTTAGAC
Found at i:372947 original size:10 final size:10
Alignment explanation
Indices: 372934--372994 Score: 63
Period size: 10 Copynumber: 6.0 Consensus size: 10
372924 TTTAATGTTA
372934 TTTATTTATT
1 TTTATTTATT
372944 TTTATTT-TT
1 TTTATTTATT
*
372953 TCTTACTTATT
1 T-TTATTTATT
*
372964 TTTATGACTATT
1 TTTAT--TTATT
372976 TTTA-TTATT
1 TTTATTTATT
372985 TTTATTTATT
1 TTTATTTATT
372995 CTCTTTAGTG
Statistics
Matches: 42, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
9 11 0.26
10 20 0.48
11 3 0.07
12 8 0.19
ACGTcount: A:0.20, C:0.05, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTATTTATT
Found at i:377707 original size:47 final size:47
Alignment explanation
Indices: 377648--378257 Score: 1067
Period size: 47 Copynumber: 12.9 Consensus size: 47
377638 TAGTATGGCG
* *
377648 TAATGACCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
377695 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
377742 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
377789 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
377836 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
377883 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
377930 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
377977 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
378024 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
* *
378071 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
*
378118 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTG--TGTATATGTGATAAGGCC
* * *
378167 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
* * * * * * *
378214 GAGTGGCCAACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAG
378258 TCCCGAAGGG
Statistics
Matches: 546, Mismatches: 15, Indels: 4
0.97 0.03 0.01
Matches are distributed among these distances:
47 500 0.92
49 46 0.08
ACGTcount: A:0.31, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTGTATATGTGATAAGGCC
Found at i:378434 original size:37 final size:37
Alignment explanation
Indices: 378376--378454 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
378366 CCGAGCTCTA
* * *
378376 AAGACCCGATGACTACATGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
* *
378413 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
378450 AAGAC
1 AAGAC
378455 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACATGTGGAGATTATGTCCGGGT
Found at i:387980 original size:33 final size:33
Alignment explanation
Indices: 387938--388004 Score: 125
Period size: 33 Copynumber: 2.0 Consensus size: 33
387928 GGAAAGAAAG
387938 GAAGGGGAAAAGCTTGAGAAAATCGGCTATGGT
1 GAAGGGGAAAAGCTTGAGAAAATCGGCTATGGT
*
387971 GAAGGGGAAAGGCTTGAGAAAATCGGCTATGGT
1 GAAGGGGAAAAGCTTGAGAAAATCGGCTATGGT
388004 G
1 G
388005 GTTTGCTAGA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.34, C:0.09, G:0.39, T:0.18
Consensus pattern (33 bp):
GAAGGGGAAAAGCTTGAGAAAATCGGCTATGGT
Done.