Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D08
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: 65987480
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 223646 characters in sequence are not A, C, G, or T
File 73 of 211
Found at i:22542755 original size:40 final size:39
Alignment explanation
Indices: 22542698--22542773 Score: 93
Period size: 40 Copynumber: 1.9 Consensus size: 39
22542688 TCGTAAAAAA
22542698 TTATAAAATATATAG-AAATATAGAAAAAAATGATAAAATT
1 TTATAAAATATATAGAAAAT-TAGAAAAAAATG-TAAAATT
* *
22542738 TTATAAAGT-TATAAGAAAATTATAAAAAAATGTAAA
1 TTATAAAATATAT-AGAAAATTAGAAAAAAATGTAAA
22542774 GAAATATAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
39 7 0.22
40 21 0.66
41 4 0.12
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.30
Consensus pattern (39 bp):
TTATAAAATATATAGAAAATTAGAAAAAAATGTAAAATT
Found at i:22542762 original size:29 final size:28
Alignment explanation
Indices: 22542664--22542764 Score: 78
Period size: 29 Copynumber: 3.5 Consensus size: 28
22542654 AAAAAATTAT
* * **
22542664 AAAAATTGTAAACTTTTATAAAAGTCGTA
1 AAAAATTATAAAATTTTATAAA-GTTATA
* * *
22542693 AAAAATTATAAAA-TATATAGAAATATAGAA
1 AAAAATTATAAAATTTTATA-AAGT-TA-TA
*
22542723 AAAAATGATAAAATTTTATAAAGTTATA
1 AAAAATTATAAAATTTTATAAAGTTATA
22542751 AGAAAATTATAAAA
1 A-AAAATTATAAAA
22542765 AAATGTAAAG
Statistics
Matches: 55, Mismatches: 12, Indels: 10
0.71 0.16 0.13
Matches are distributed among these distances:
28 8 0.15
29 26 0.47
30 16 0.29
31 5 0.09
ACGTcount: A:0.59, C:0.02, G:0.08, T:0.31
Consensus pattern (28 bp):
AAAAATTATAAAATTTTATAAAGTTATA
Found at i:22543408 original size:91 final size:90
Alignment explanation
Indices: 22543181--22543421 Score: 261
Period size: 91 Copynumber: 2.6 Consensus size: 90
22543171 ACCCACCTCT
* *
22543181 GGCCTTTTTGATGTATTTTGACAATTTAAGTACCCAATTGAGTGAAAAAAAAATAATAGCAAAGG
1 GGCCTTTTTGATGCATTTTGA-AATTTAAGTACCCAATTGAGTGCAAAAAAAATAATAG---AGG
* * *
22543246 GCTTAATTGCTTTTTATGAAAAGTTTGAA
62 GCTTAATTACTTTTTATAAAAAATTTGAA
* * * * * *
22543275 GGCATTTTTTTTTATGCATTTTGGCAATTCAAGTACCTAATTGAGTGCAAAAAAAA-AGTAG-GG
1 GGC---CTTTTTGATGCATTTT-GAAATTTAAGTACCCAATTGAGTGCAAAAAAAATAATAGAGG
*
22543338 GCTTAATTACTTTTTTTTAAAAACATTTGAA
62 GCTTAATTAC-TTTTTATAAAAA-ATTTGAA
22543369 GGCCTTTTTGATGCATTTTGAAAGTTTAAGTACCCAATTGAGTGCAAAAAAAA
1 GGCCTTTTTGATGCATTTTGAAA-TTTAAGTACCCAATTGAGTGCAAAAAAAA
22543422 GAAAGAGCAG
Statistics
Matches: 123, Mismatches: 17, Indels: 17
0.78 0.11 0.11
Matches are distributed among these distances:
90 3 0.02
91 41 0.33
92 11 0.09
93 10 0.08
94 12 0.10
96 4 0.03
97 41 0.33
98 1 0.01
ACGTcount: A:0.36, C:0.11, G:0.17, T:0.36
Consensus pattern (90 bp):
GGCCTTTTTGATGCATTTTGAAATTTAAGTACCCAATTGAGTGCAAAAAAAATAATAGAGGGCTT
AATTACTTTTTATAAAAAATTTGAA
Found at i:22544076 original size:4 final size:4
Alignment explanation
Indices: 22544067--22544148 Score: 62
Period size: 4 Copynumber: 19.2 Consensus size: 4
22544057 AAAACAAATA
*
22544067 AAAG AAAG AAAG AAAG AAAAG AAAG CCAAAG CCAAACG AAA- ACAG AAAGG
1 AAAG AAAG AAAG AAAG -AAAG AAAG --AAAG --AAA-G AAAG AAAG AAA-G
22544117 AAAG AAAG AAA- AAAG AAA- AAGAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AA-AG AAAG AAAG A
22544149 CTACCCGACC
Statistics
Matches: 67, Mismatches: 2, Indels: 18
0.77 0.02 0.21
Matches are distributed among these distances:
3 7 0.10
4 37 0.55
5 13 0.19
6 9 0.13
7 1 0.01
ACGTcount: A:0.71, C:0.07, G:0.22, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:22544948 original size:41 final size:39
Alignment explanation
Indices: 22544903--22545016 Score: 124
Period size: 37 Copynumber: 2.9 Consensus size: 39
22544893 CTTCGAGTTC
**
22544903 ATGAGACACTGGGTGTCAATTTACTACTTCGGATTAATTCG
1 ATGAGACACTGGGTGTCAA-TTA-TACTTCGGATTAAGCCG
* * *
22544944 ATGAGGCACTGGGTGCCAATT-TACTTCGG-TTTAGCCG
1 ATGAGACACTGGGTGTCAATTATACTTCGGATTAAGCCG
*
22544981 ATGAGACACTGGGTGTCAAATTATTACTTCGAATTA
1 ATGAGACACTGGGTGTC-AATTA-TACTTCGGATTA
22545017 TCTGATGAGC
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
37 20 0.33
38 12 0.20
40 9 0.15
41 19 0.32
ACGTcount: A:0.26, C:0.18, G:0.24, T:0.32
Consensus pattern (39 bp):
ATGAGACACTGGGTGTCAATTATACTTCGGATTAAGCCG
Found at i:22546937 original size:16 final size:15
Alignment explanation
Indices: 22546912--22546951 Score: 62
Period size: 16 Copynumber: 2.6 Consensus size: 15
22546902 AAAGAGAAAT
*
22546912 TTTAAAATAAATTAA
1 TTTAAAATAAATAAA
22546927 TTTAAAGATAAATAAA
1 TTTAAA-ATAAATAAA
22546943 TTTAAAATA
1 TTTAAAATA
22546952 TCATATATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
15 9 0.39
16 14 0.61
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.38
Consensus pattern (15 bp):
TTTAAAATAAATAAA
Found at i:22556100 original size:30 final size:31
Alignment explanation
Indices: 22556066--22556123 Score: 82
Period size: 31 Copynumber: 1.9 Consensus size: 31
22556056 AAATCAATAG
* *
22556066 TTTTAAAAGGTT-ATAGTCAAATTTAACTCT
1 TTTTAAAAGGTTAAAAGTAAAATTTAACTCT
*
22556096 TTTTAAAAGTTTAAAAGTAAAATTTAAC
1 TTTTAAAAGGTTAAAAGTAAAATTTAAC
22556124 GAAAAAGTGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 11 0.46
31 13 0.54
ACGTcount: A:0.43, C:0.07, G:0.09, T:0.41
Consensus pattern (31 bp):
TTTTAAAAGGTTAAAAGTAAAATTTAACTCT
Found at i:22565778 original size:41 final size:41
Alignment explanation
Indices: 22565733--22566037 Score: 400
Period size: 41 Copynumber: 7.4 Consensus size: 41
22565723 TCTCAAATCT
* * * * *
22565733 ATGAAAAGGTTGAAAATGAAGTTA-TCCAAAAAGGATAACAA
1 ATGAAAAGGTTGAAAAGGACGATATTCGAAAAA-GATATCAA
* *
22565774 ATGAAAATGTTGAAAAGGACGATATTTGAAAAAGATATCAA
1 ATGAAAAGGTTGAAAAGGACGATATTCGAAAAAGATATCAA
22565815 ATGAAAAGGTTGAAAAGGACGATATTCGAAAAAGATATCAA
1 ATGAAAAGGTTGAAAAGGACGATATTCGAAAAAGATATCAA
* * * * *
22565856 ATGAAAAGGTTGAAAAGAACGATATCCAAAAAATATATGAA
1 ATGAAAAGGTTGAAAAGGACGATATTCGAAAAAGATATCAA
22565897 ATGAAAAGGTTGAAAAGGACGATATTCGAAAAAGATATCAA
1 ATGAAAAGGTTGAAAAGGACGATATTCGAAAAAGATATCAA
* **
22565938 ATGAAAAGATTGAAAAGGACGATATTAAAAAAAAGATATCAA
1 ATGAAAAGGTTGAAAAGGACGATATT-CGAAAAAGATATCAA
* *
22565980 ATGAAAAGGTTGAAAATGACGATATTTGAAGAAA-ATATC-A
1 ATGAAAAGGTTGAAAAGGACGATATTCGAA-AAAGATATCAA
*
22566020 ATGAAAAGGTCGAAAAGG
1 ATGAAAAGGTTGAAAAGG
22566038 TTAGGAATGA
Statistics
Matches: 233, Mismatches: 28, Indels: 7
0.87 0.10 0.03
Matches are distributed among these distances:
40 17 0.07
41 170 0.73
42 46 0.20
ACGTcount: A:0.53, C:0.06, G:0.20, T:0.20
Consensus pattern (41 bp):
ATGAAAAGGTTGAAAAGGACGATATTCGAAAAAGATATCAA
Found at i:22570494 original size:34 final size:34
Alignment explanation
Indices: 22570455--22570563 Score: 98
Period size: 34 Copynumber: 3.2 Consensus size: 34
22570445 GGCTAGACTT
22570455 TTGGGTTAGGGTTAGGTGACTTGGGTCTTTTGTA
1 TTGGGTTAGGGTTAGGTGACTTGGGTCTTTTGTA
* * * * ** *
22570489 TTGGGTCAGGG-TA-G-AATTTGGCTGGTGTTAGGCTT
1 TTGGGTTAGGGTTAGGTGACTT-G--GGTCTTTTG-TA
22570524 TTGGGTTAGGGTTAGGTGACTTGGGTCTTTTGTA
1 TTGGGTTAGGGTTAGGTGACTTGGGTCTTTTGTA
22570558 TTGGGT
1 TTGGGT
22570564 CTAAAGTCTG
Statistics
Matches: 54, Mismatches: 14, Indels: 14
0.66 0.17 0.17
Matches are distributed among these distances:
31 3 0.06
32 2 0.04
33 2 0.04
34 23 0.43
35 17 0.31
36 2 0.04
37 2 0.04
38 3 0.06
ACGTcount: A:0.12, C:0.06, G:0.39, T:0.42
Consensus pattern (34 bp):
TTGGGTTAGGGTTAGGTGACTTGGGTCTTTTGTA
Found at i:22576915 original size:18 final size:18
Alignment explanation
Indices: 22576892--22576927 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
22576882 CCCCACCGCT
*
22576892 GCCATGACCCTCTCCATA
1 GCCATGACCCTCGCCATA
*
22576910 GCCATGCCCCTCGCCATA
1 GCCATGACCCTCGCCATA
22576928 ACTTTCACCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.19, C:0.47, G:0.14, T:0.19
Consensus pattern (18 bp):
GCCATGACCCTCGCCATA
Found at i:22577191 original size:22 final size:20
Alignment explanation
Indices: 22577153--22577192 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
22577143 AACCGGAACC
*
22577153 AGCCCCAGCTCCAGACCCTG
1 AGCCCCACCTCCAGACCCTG
22577173 AGCCACCACCTCCGAGACCC
1 AGCC-CCACCTCC-AGACCC
22577193 AGCCCTACAC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 7 0.41
22 6 0.35
ACGTcount: A:0.23, C:0.53, G:0.17, T:0.07
Consensus pattern (20 bp):
AGCCCCACCTCCAGACCCTG
Found at i:22580950 original size:60 final size:60
Alignment explanation
Indices: 22580853--22580978 Score: 155
Period size: 60 Copynumber: 2.1 Consensus size: 60
22580843 GCCTCGTCCT
* * * *
22580853 GACCCAGCTCGAGAGCCAGCATAGGAACCGGCAGATGAACCGGCTTCTGAACCTGCACCA
1 GACCCAGCTCGAGACCCAGCATAAGAACCGGCAGATGAACCAGCTTCAGAACCTGCACCA
* * * **
22580913 GACCCGGCTCGAGACCCAGCGTAAGAACCTG-AGGATGAACCAGCTTCAGAATTTGCACCA
1 GACCCAGCTCGAGACCCAGCATAAGAACCGGCA-GATGAACCAGCTTCAGAACCTGCACCA
22580973 GACCCA
1 GACCCA
22580979 CCAGATGAAC
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
59 1 0.02
60 54 0.98
ACGTcount: A:0.29, C:0.33, G:0.25, T:0.13
Consensus pattern (60 bp):
GACCCAGCTCGAGACCCAGCATAAGAACCGGCAGATGAACCAGCTTCAGAACCTGCACCA
Found at i:22582249 original size:29 final size:30
Alignment explanation
Indices: 22582195--22582264 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
22582185 ATCTCAAAAT
*
22582195 TATACATGAACTATGGTTTAATGTATAATTG
1 TATACATGAACTATGATTT-ATGTATAATTG
* *
22582226 TATACATGAACTTTGATTT-TGTATAATTT
1 TATACATGAACTATGATTTATGTATAATTG
*
22582255 TATGCATGAA
1 TATACATGAA
22582265 ATTTTAATTT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
29 18 0.51
31 17 0.49
ACGTcount: A:0.34, C:0.07, G:0.14, T:0.44
Consensus pattern (30 bp):
TATACATGAACTATGATTTATGTATAATTG
Found at i:22582275 original size:29 final size:29
Alignment explanation
Indices: 22582216--22582275 Score: 75
Period size: 29 Copynumber: 2.1 Consensus size: 29
22582206 TATGGTTTAA
* *
22582216 TGTATAATTGTATACATGAACTTTGATTT
1 TGTATAATTGTATACATGAAATTTGAATT
* * *
22582245 TGTATAATTTTATGCATGAAATTTTAATT
1 TGTATAATTGTATACATGAAATTTGAATT
22582274 TG
1 TG
22582276 ATCCATTTTT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.32, C:0.05, G:0.13, T:0.50
Consensus pattern (29 bp):
TGTATAATTGTATACATGAAATTTGAATT
Found at i:22582491 original size:29 final size:30
Alignment explanation
Indices: 22582416--22582504 Score: 101
Period size: 31 Copynumber: 3.0 Consensus size: 30
22582406 GATTAAATCA
* *
22582416 AAATTAAAGTTTCA-AGTATACATTTGAACC
1 AAATTAAAGTTTCATA-TATACAATTGTACC
* *
22582446 ACAATTAGAGTTTCATATGTACAATTGTACC
1 A-AATTAAAGTTTCATATATACAATTGTACC
*
22582477 AAATTAAAG-TTCATATATATAATTGTAC
1 AAATTAAAGTTTCATATATACAATTGTAC
22582505 ATTAAATAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 17 0.34
30 8 0.16
31 24 0.48
32 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.10, T:0.36
Consensus pattern (30 bp):
AAATTAAAGTTTCATATATACAATTGTACC
Found at i:22586462 original size:15 final size:16
Alignment explanation
Indices: 22586433--22586463 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22586423 CTTTAGGGGC
22586433 AAAAATGTAATTTTTA
1 AAAAATGTAATTTTTA
*
22586449 AAAAATGTGATTTTT
1 AAAAATGTAATTTTT
22586464 GGACTGGATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (16 bp):
AAAAATGTAATTTTTA
Found at i:22586797 original size:101 final size:101
Alignment explanation
Indices: 22586680--22586967 Score: 443
Period size: 101 Copynumber: 2.8 Consensus size: 101
22586670 TGAAAGTGAT
* *
22586680 GGTCACGTTTGTAGTACTATGTATAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGT
1 GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGT
*
22586745 ACTATGTGCAGGCTACTATGCGTATCAGATAGCTTC
66 ACTATGTGCAGGCTACTATGCGTACCAGATAGCTTC
*
22586781 GGTCATGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGT
1 GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGT
*
22586846 ACTATGTGCAGGCTACTATGCGTACCGGATAGCTTC
66 ACTATGTGCAGGCTACTATGCGTACCAGATAGCTTC
* * * * * *
22586882 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTAAT-GGTCACATGTGTA
1 GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTA
*
22586946 GTACTATGTGCATGCTACTATG
64 GTACTATGTGCAGGCTACTATG
22586968 TGAATCCGCA
Statistics
Matches: 172, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
101 135 0.78
102 34 0.20
103 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (101 bp):
GGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGT
ACTATGTGCAGGCTACTATGCGTACCAGATAGCTTC
Found at i:22586801 original size:51 final size:50
Alignment explanation
Indices: 22586680--22586967 Score: 267
Period size: 51 Copynumber: 5.7 Consensus size: 50
22586670 TGAAAGTGAT
* * ** * * * *
22586680 GGTCACGTTTGTAGTACTATGTATAGGCTACTACGTGTACCAGA-ATGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA-GTTC
* *
22586730 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCAGATAGCTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAG-TTC
** * * * * *
22586781 GGTCATGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-ATGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA-GTTC
* *
22586831 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAG-TTC
* * * * * *
22586882 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTAAT-
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGT--TC
*
22586933 GGTCACATGTGTAGTACTATGTGCATGCTACTATG
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATG
22586968 TGAATCCGCA
Statistics
Matches: 193, Mismatches: 38, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
50 78 0.40
51 114 0.59
52 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATAGTTC
Found at i:22586969 original size:26 final size:26
Alignment explanation
Indices: 22586889--22586969 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
22586879 TTCGATCACG
*
22586889 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
* * * *
22586915 CGTGTA-T-CGGATAGT-AATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGCATGCT-ACTA
22586940 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
22586966 TGTG
1 TGTG
22586970 AATCCGCATC
Statistics
Matches: 39, Mismatches: 9, Indels: 14
0.63 0.15 0.23
Matches are distributed among these distances:
24 1 0.03
25 16 0.41
26 21 0.54
27 1 0.03
ACGTcount: A:0.23, C:0.15, G:0.27, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCATGCTACTA
Found at i:22587051 original size:43 final size:43
Alignment explanation
Indices: 22586989--22587187 Score: 239
Period size: 43 Copynumber: 4.7 Consensus size: 43
22586979 CATTGAATAT
*
22586989 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTAACTGTG
1 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTAA-TGTG
* * * *
22587033 AAAGG-GGTTGCTATGTGCTGATTCC-CTGCATCATTGAATAT-
1 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATT-AATGTG
*
22587074 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTAACTGTG
1 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTAA-TGTG
* * *
22587118 AAAGG-GGTTGCTATGTGCTGATTCC-CCGTATCATTGAT-TT
1 AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTAATGTG
*
22587158 TAAGGTGGTTGCTAAGTGCTGATTCCACCG
1 AAAGGTGGTTGCTAAGTGCTGATTCCACCG
22587188 CATAACGGTT
Statistics
Matches: 132, Mismatches: 16, Indels: 16
0.80 0.10 0.10
Matches are distributed among these distances:
40 5 0.04
41 25 0.19
42 43 0.33
43 49 0.37
44 10 0.08
ACGTcount: A:0.22, C:0.19, G:0.26, T:0.33
Consensus pattern (43 bp):
AAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCATTAATGTG
Found at i:22587118 original size:85 final size:85
Alignment explanation
Indices: 22586973--22587187 Score: 387
Period size: 85 Copynumber: 2.5 Consensus size: 85
22586963 CTATGTGAAT
22586973 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTAACTGTGAAAGG
1 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTAACTGTGAAAGG
22587038 GGTTGCTATGTGCTGATTCC
66 GGTTGCTATGTGCTGATTCC
*
22587058 CTGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTAACTGTGAAAGG
1 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTAACTGTGAAAGG
22587123 GGTTGCTATGTGCTGATTCC
66 GGTTGCTATGTGCTGATTCC
* * *
22587143 CCGTATCATTG-ATTTTAAGGTGGTTGCTAAGTGCTGATTCCACCG
1 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCG
22587188 CATAACGGTT
Statistics
Matches: 125, Mismatches: 5, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
84 32 0.26
85 93 0.74
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.33
Consensus pattern (85 bp):
CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTAACTGTGAAAGG
GGTTGCTATGTGCTGATTCC
Found at i:22589380 original size:49 final size:47
Alignment explanation
Indices: 22589284--22589410 Score: 155
Period size: 49 Copynumber: 2.7 Consensus size: 47
22589274 ATTATGAAAT
* * *
22589284 TTCCGTGTAAGACCATATCTGGAATATGACATCATTGTGATATGTGA
1 TTCCGTGTAAGACCATAGCTGGACTATGGCATCATTGTGATATGTGA
* * *
22589331 TTCCGTGTAAGACTATAGCTGGGCTATGGCATCGGTATGTGATATGTGA
1 TTCCGTGTAAGACCATAGCTGGACTATGGCATC-AT-TGTGATATGTGA
* * *
22589380 TTACATGTAAGACCATAGTTGGACTATGGCA
1 TTCCGTGTAAGACCATAGCTGGACTATGGCA
22589411 ATGTGAAAAC
Statistics
Matches: 67, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
47 28 0.42
48 1 0.01
49 38 0.57
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (47 bp):
TTCCGTGTAAGACCATAGCTGGACTATGGCATCATTGTGATATGTGA
Found at i:22591742 original size:17 final size:16
Alignment explanation
Indices: 22591709--22591740 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
22591699 AACTTTAGGG
22591709 GCAAAAATGTAATTTT
1 GCAAAAATGTAATTTT
*
22591725 GCAAAAATGTGATTTT
1 GCAAAAATGTAATTTT
22591741 TGGACTGTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.16, T:0.38
Consensus pattern (16 bp):
GCAAAAATGTAATTTT
Found at i:22592083 original size:51 final size:50
Alignment explanation
Indices: 22591961--22592248 Score: 267
Period size: 51 Copynumber: 5.7 Consensus size: 50
22591951 TGAAAGTGAT
* * * * * * * *
22591961 GGTCACGTTTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-ATGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA-GTTC
* *
22592011 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTATCGGATAGCTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TTC
* * * * * * * *
22592062 GTTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-ATGATA
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATA-GTTC
* *
22592112 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCATACCGGATAGCTTC
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAG-TTC
* * * * *
22592163 GATCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGT--TC
*
22592214 GGTCACATGTGTAGTACTATGTGCATGCTACTATG
1 GGTCACATGTGTAGTACTATGTGCAGGCTACTATG
22592249 TGAATCCGCA
Statistics
Matches: 190, Mismatches: 41, Indels: 13
0.78 0.17 0.05
Matches are distributed among these distances:
50 77 0.41
51 112 0.59
52 1 0.01
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (50 bp):
GGTCACATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGTTC
Found at i:22592087 original size:101 final size:101
Alignment explanation
Indices: 22591963--22592248 Score: 466
Period size: 101 Copynumber: 2.8 Consensus size: 101
22591953 AAAGTGATGG
*
22591963 TCACGTTTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
* * *
22592028 TATGTGCAGGCTACTATGCGTATCGGATAGCTTCGT
66 TATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
22592064 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
22592129 TATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
66 TATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
* * * *
22592165 TCACGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATAGTGAT-GGTCACATGTGTAGT
1 TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGA-A-TGATAGGTCGCATGTGTAGT
*
22592229 ACTATGTGCATGCTACTATG
64 ACTATGTGCAGGCTACTATG
22592249 TGAATCCGCA
Statistics
Matches: 174, Mismatches: 9, Indels: 3
0.94 0.05 0.02
Matches are distributed among these distances:
101 136 0.78
102 34 0.20
103 4 0.02
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (101 bp):
TCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCAGAATGATAGGTCGCATGTGTAGTAC
TATGTGCAGGCTACTATGCATACCGGATAGCTTCGA
Found at i:22592250 original size:26 final size:26
Alignment explanation
Indices: 22592170--22592250 Score: 71
Period size: 26 Copynumber: 3.2 Consensus size: 26
22592160 TTCGATCACG
*
22592170 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
* * *
22592196 CGTGTA-T-CGGATAGTG-ATGGTCAC-A
1 TGTGTAGTAC-TAT-GTGCATGCT-ACTA
22592221 TGTGTAGTACTATGTGCATGCTACTA
1 TGTGTAGTACTATGTGCATGCTACTA
22592247 TGTG
1 TGTG
22592251 AATCCGCATC
Statistics
Matches: 41, Mismatches: 7, Indels: 14
0.66 0.11 0.23
Matches are distributed among these distances:
24 1 0.02
25 17 0.41
26 22 0.54
27 1 0.02
ACGTcount: A:0.22, C:0.15, G:0.28, T:0.35
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCATGCTACTA
Found at i:22592336 original size:43 final size:42
Alignment explanation
Indices: 22592258--22592469 Score: 227
Period size: 43 Copynumber: 5.0 Consensus size: 42
22592248 GTGAATCCGC
*
22592258 ATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 ATCATT-AATGTAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* * * *
22592301 ATCCTTAACTGTGAAAGG-GGTTGCTATGTGGTGATTCC-CCGC
1 ATCATTAA-TGT-AAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* *
22592343 ATCATTGAATATAAAGGTGGTTGTTAAGTGCTGATTCCACCGT
1 ATCATT-AATGTAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
* * *
22592386 ATCCTTGACTGTGAAAGG-GGTTGCTATGTGCTGATTCC-CCGT
1 ATCATT-AATGT-AAAGGTGGTTGCTAAGTGCTGATTCCACCGT
*
22592428 ATCATTGAT-TATAAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 ATCATTAATGTA-AAGGTGGTTGCTAAGTGCTGATTCCACCGT
22592470 GTAACGGTTA
Statistics
Matches: 140, Mismatches: 20, Indels: 19
0.78 0.11 0.11
Matches are distributed among these distances:
39 1 0.01
40 5 0.04
41 25 0.18
42 42 0.30
43 57 0.41
44 10 0.07
ACGTcount: A:0.23, C:0.18, G:0.25, T:0.33
Consensus pattern (42 bp):
ATCATTAATGTAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
Found at i:22592397 original size:85 final size:85
Alignment explanation
Indices: 22592254--22592469 Score: 380
Period size: 85 Copynumber: 2.6 Consensus size: 85
22592244 CTATGTGAAT
22592254 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTAACTGTGAAAGG
1 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTAACTGTGAAAGG
*
22592319 GGTTGCTATGTGGTGATTCC
66 GGTTGCTATGTGCTGATTCC
* *
22592339 CCGCATCATTGAATATAAAGGTGGTTGTTAAGTGCTGATTCCACCGTATCCTTGACTGTGAAAGG
1 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTAACTGTGAAAGG
22592404 GGTTGCTATGTGCTGATTCC
66 GGTTGCTATGTGCTGATTCC
* *
22592424 CCGTATCATTGATTAT-AAGGTGGTTGCTAAGTGCTGATTCCACCGT
1 CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGT
22592470 GTAACGGTTA
Statistics
Matches: 125, Mismatches: 6, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
84 29 0.23
85 96 0.77
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.33
Consensus pattern (85 bp):
CCGCATCATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCCACCGTATCCTTAACTGTGAAAGG
GGTTGCTATGTGCTGATTCC
Found at i:22594567 original size:25 final size:25
Alignment explanation
Indices: 22594519--22594568 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
22594509 GGCAAAGCAA
* *
22594519 GGATCACTAGTGGGCCTGGCGAGTT
1 GGATCACCAGTGAGCCTGGCGAGTT
* *
22594544 GGATCACCAGTGAGCTTGGTGAGTT
1 GGATCACCAGTGAGCCTGGCGAGTT
22594569 TTTATTGCTG
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.18, C:0.18, G:0.38, T:0.26
Consensus pattern (25 bp):
GGATCACCAGTGAGCCTGGCGAGTT
Found at i:22596743 original size:10 final size:10
Alignment explanation
Indices: 22596728--22596759 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
22596718 TCGGACCAGG
22596728 TATGGGGTGT
1 TATGGGGTGT
22596738 TATGGGGTGT
1 TATGGGGTGT
*
22596748 TATAGGGTGT
1 TATGGGGTGT
22596758 TA
1 TA
22596760 CACCTTGGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.16, C:0.00, G:0.44, T:0.41
Consensus pattern (10 bp):
TATGGGGTGT
Found at i:22601114 original size:15 final size:14
Alignment explanation
Indices: 22601089--22601149 Score: 63
Period size: 14 Copynumber: 4.4 Consensus size: 14
22601079 GTCATTTGTA
22601089 TTTTAATTTTAATATT
1 TTTTAA-TTTAAT-TT
22601105 TTTTAATTTAATTT
1 TTTTAATTTAATTT
* *
22601119 TTATACTTTAATTT
1 TTTTAATTTAATTT
*
22601133 TTTT--TTTATTTT
1 TTTTAATTTAATTT
22601145 TTTTA
1 TTTTA
22601150 CTTCTGGTAG
Statistics
Matches: 40, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
12 11 0.28
14 17 0.43
15 6 0.15
16 6 0.15
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTTAATTTAATTT
Found at i:22601140 original size:26 final size:28
Alignment explanation
Indices: 22601096--22601152 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 28
22601086 GTATTTTAAT
22601096 TTTAATATTTTTTAATTTAATTTTTATAC
1 TTTAATATTTTTT-ATTTAATTTTTATAC
* *
22601125 TTTAAT-TTTTTT-TTTATTTTTTTTAC
1 TTTAATATTTTTTATTTAATTTTTATAC
22601151 TT
1 TT
22601153 CTGGTAGGCT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 14 0.54
28 6 0.23
29 6 0.23
ACGTcount: A:0.23, C:0.04, G:0.00, T:0.74
Consensus pattern (28 bp):
TTTAATATTTTTTATTTAATTTTTATAC
Found at i:22605095 original size:21 final size:22
Alignment explanation
Indices: 22605066--22605109 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
22605056 AAACTTTCGT
*
22605066 ACTTTTAATTTT-ATTTTTGGG
1 ACTTATAATTTTAATTTTTGGG
22605087 ACTTATAATTTTAATTTTTGGG
1 ACTTATAATTTTAATTTTTGGG
22605109 A
1 A
22605110 TGATTTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.25, C:0.05, G:0.14, T:0.57
Consensus pattern (22 bp):
ACTTATAATTTTAATTTTTGGG
Found at i:22608503 original size:26 final size:25
Alignment explanation
Indices: 22608433--22608505 Score: 65
Period size: 26 Copynumber: 2.8 Consensus size: 25
22608423 ATAATTCTCT
* *
22608433 AAATTTTACCAAGGGTAAAATCGTTA
1 AAATTTTA-CTAGGGTAAAATCGTCA
* * * *
22608459 AAACTTTATTTGGGGTAAAATCGTCC
1 AAATTTTA-CTAGGGTAAAATCGTCA
22608485 AAATTTTACTAGGGATAAAAT
1 AAATTTTACTAGGG-TAAAAT
22608506 AGGGATGAGA
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
25 4 0.11
26 32 0.89
ACGTcount: A:0.40, C:0.11, G:0.16, T:0.33
Consensus pattern (25 bp):
AAATTTTACTAGGGTAAAATCGTCA
Found at i:22616373 original size:45 final size:46
Alignment explanation
Indices: 22616089--22616388 Score: 306
Period size: 46 Copynumber: 6.6 Consensus size: 46
22616079 TTGAAGGATA
* * * * **
22616089 CCATGGTGTCTTTCAACCATGGTCTTATTTA-TACTCGGCT-TGATG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCACT-TTCGAATATGATG
* * *
22616134 CCATAATGTCTTTCAACCATGGTCTTATTCACTTTCCG-GTATGATG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCACTTT-CGAATATGATG
* * *
22616180 CCATAGTGTTTTTCAACCATGGTCTTATTCACTTTCCAATATGATG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCACTTTCGAATATGATG
* * * *
22616226 CCATAGTGTCATTCAACCATGGTCTTATTCACTTTCTAATTTGATG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCACTTTCGAATATGATG
* * *
22616272 CCATAGTGTCTTTTAACTATGGTCTTATTCATTTTCG-ATAGGATG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCACTTTCGAATATGATG
*** *
22616317 TTGTAGTGTCTTTCAACTATGGTCTTACTCA-TTT-GAATCATGATG
1 CCATAGTGTCTTTCAACTATGGTCTTATTCACTTTCGAAT-ATGATG
* *
22616362 CCATAGCGTCTTTCAGCTATGGTCTTA
1 CCATAGTGTCTTTCAACTATGGTCTTA
22616389 CTTGTCTAAA
Statistics
Matches: 218, Mismatches: 31, Indels: 12
0.84 0.12 0.05
Matches are distributed among these distances:
43 1 0.00
44 5 0.02
45 90 0.41
46 122 0.56
ACGTcount: A:0.22, C:0.21, G:0.16, T:0.41
Consensus pattern (46 bp):
CCATAGTGTCTTTCAACTATGGTCTTATTCACTTTCGAATATGATG
Found at i:22616389 original size:45 final size:46
Alignment explanation
Indices: 22616129--22616436 Score: 281
Period size: 46 Copynumber: 6.8 Consensus size: 46
22616119 ATACTCGGCT
* * * *
22616129 TGATGCCATAATGTCTTTCAACCATGGTCTTATTCACTTTCCG-GTA
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTT-CGAATA
* * * *
22616175 TGATGCCATAGTGTTTTTCAACCATGGTCTTATTCACTTTCCAATA
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCGAATA
* * * * *
22616221 TGATGCCATAGTGTCATTCAACCATGGTCTTATTCACTTTCTAATT
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCGAATA
* * *
22616267 TGATGCCATAGTGTCTTTTAACTATGGTCTTATTCATTTTCG-ATA
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCGAATA
* ***
22616312 GGATGTTGTAGTGTCTTTCAACTATGGTCTTACTCA-TTT-GAATCA
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCGAAT-A
* * * *
22616357 TGATGCCATAGCGTCTTTCAGCTATGGTCTTACT---TGTCTAAATAA
1 TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTC-GAAT-A
* *
22616402 TGATGTCATAGCT-TCTTTCAGCTATGGTCTTACTC
1 TGATGCCATAG-TGTCTTTCAACTATGGTCTTACTC
22616437 GTCTTCATCC
Statistics
Matches: 224, Mismatches: 31, Indels: 14
0.83 0.12 0.05
Matches are distributed among these distances:
43 3 0.01
44 5 0.02
45 97 0.43
46 119 0.53
ACGTcount: A:0.22, C:0.20, G:0.16, T:0.42
Consensus pattern (46 bp):
TGATGCCATAGTGTCTTTCAACTATGGTCTTACTCACTTTCGAATA
Found at i:22616451 original size:45 final size:45
Alignment explanation
Indices: 22616324--22616451 Score: 159
Period size: 45 Copynumber: 2.8 Consensus size: 45
22616314 ATGTTGTAGT
* *
22616324 GTCTTTCAACTATGGTCTTACTCAT-TTGAATCATGATGCCATAGC
1 GTCTTTCAGCTATGGTCTTACTCGTCTT-AATCATGATGCCATAGC
* * * *
22616369 GTCTTTCAGCTATGGTCTTACTTGTCTAAATAATGATGTCATAGC
1 GTCTTTCAGCTATGGTCTTACTCGTCTTAATCATGATGCCATAGC
* * *
22616414 TTCTTTCAGCTATGGTCTTACTCGTCTTCATCCTGATG
1 GTCTTTCAGCTATGGTCTTACTCGTCTTAATCATGATG
22616452 AACCTGCTTA
Statistics
Matches: 70, Mismatches: 12, Indels: 2
0.83 0.14 0.02
Matches are distributed among these distances:
45 69 0.99
46 1 0.01
ACGTcount: A:0.21, C:0.22, G:0.16, T:0.41
Consensus pattern (45 bp):
GTCTTTCAGCTATGGTCTTACTCGTCTTAATCATGATGCCATAGC
Found at i:22621865 original size:44 final size:44
Alignment explanation
Indices: 22621816--22621899 Score: 141
Period size: 44 Copynumber: 1.9 Consensus size: 44
22621806 ATGTATATTG
*
22621816 GTAGTGAATCTGACAAATTCAAGTATATGATGATTGGTGTCTAA
1 GTAGTGAATATGACAAATTCAAGTATATGATGATTGGTGTCTAA
* *
22621860 GTAGTGAATATGATAAATTCAAGTATGTGATGATTGGTGT
1 GTAGTGAATATGACAAATTCAAGTATATGATGATTGGTGT
22621900 ATGAGTACTG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
44 37 1.00
ACGTcount: A:0.33, C:0.06, G:0.25, T:0.36
Consensus pattern (44 bp):
GTAGTGAATATGACAAATTCAAGTATATGATGATTGGTGTCTAA
Found at i:22627271 original size:18 final size:18
Alignment explanation
Indices: 22627248--22627290 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
22627238 TCTTGAACTG
22627248 ATAATGTTTACATTAGGA
1 ATAATGTTTACATTAGGA
*
22627266 ATAATGTTTCCATTAGGA
1 ATAATGTTTACATTAGGA
*
22627284 ATGATGT
1 ATAATGT
22627291 AGGGAAGTGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.35, C:0.07, G:0.19, T:0.40
Consensus pattern (18 bp):
ATAATGTTTACATTAGGA
Found at i:22628857 original size:15 final size:15
Alignment explanation
Indices: 22628827--22628865 Score: 55
Period size: 15 Copynumber: 2.7 Consensus size: 15
22628817 AAATCCTAAT
22628827 AAATACTAAT--AAA
1 AAATACTAATAGAAA
*
22628840 AAATCCTAATAGAAA
1 AAATACTAATAGAAA
22628855 AAATACTAATA
1 AAATACTAATA
22628866 TAATTAAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
13 9 0.41
15 13 0.59
ACGTcount: A:0.64, C:0.10, G:0.03, T:0.23
Consensus pattern (15 bp):
AAATACTAATAGAAA
Found at i:22638318 original size:5 final size:5
Alignment explanation
Indices: 22638302--22638348 Score: 58
Period size: 5 Copynumber: 9.0 Consensus size: 5
22638292 AAAAATAAAC
* *
22638302 ATTTT AATTTT ATTTT ATTTT ATTTT CCTTTT ATTTT ATCTT ATTTT
1 ATTTT -ATTTT ATTTT ATTTT ATTTT -ATTTT ATTTT ATTTT ATTTT
22638349 GCAAGTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
5 27 0.75
6 9 0.25
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (5 bp):
ATTTT
Found at i:22638323 original size:16 final size:15
Alignment explanation
Indices: 22638302--22638348 Score: 58
Period size: 16 Copynumber: 3.0 Consensus size: 15
22638292 AAAAATAAAC
22638302 ATTTTAATTTTATTTT
1 ATTTT-ATTTTATTTT
*
22638318 ATTTTATTTTCCTTTT
1 ATTTTATTTT-ATTTT
*
22638334 ATTTTATCTTATTTT
1 ATTTTATTTTATTTT
22638349 GCAAGTAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
15 9 0.33
16 18 0.67
ACGTcount: A:0.19, C:0.06, G:0.00, T:0.74
Consensus pattern (15 bp):
ATTTTATTTTATTTT
Found at i:22638333 original size:21 final size:21
Alignment explanation
Indices: 22638309--22638348 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22638299 AACATTTTAA
*
22638309 TTTTATTTTATTTTATTTTCC
1 TTTTATTTTATCTTATTTTCC
22638330 TTTTATTTTATCTTATTTT
1 TTTTATTTTATCTTATTTT
22638349 GCAAGTAAAA
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:0.15, C:0.07, G:0.00, T:0.78
Consensus pattern (21 bp):
TTTTATTTTATCTTATTTTCC
Found at i:22641683 original size:107 final size:107
Alignment explanation
Indices: 22641482--22641788 Score: 465
Period size: 107 Copynumber: 2.9 Consensus size: 107
22641472 TATTCAAAAC
* *
22641482 AAGGTAATATTTTGCATTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTTGATTTCTC
1 AAGGTAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
* *
22641547 GTTTGACCAAATAAGCCAAATATCC-TTTT-AACGTTTGAAAGT
66 GTTCGACCAAAT-AGCCAAATATCCTTTTTAAAC-TTTCAAAGT
* * *
22641589 AAGGTAATATTTTGCGTTTGGAAAATCAAGAGAATGTGCCCTAACGTGCTGGGTTTCGATTTCTC
1 AAGGTAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
* * *
22641654 ATACGACCAAATAGCCGAATATCCTTTTTAAACTTTCAAAGT
66 GTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTCAAAGT
* * *
22641696 AAGGCAATATTTTACGTTTGGAAAATCGAGAAAACATGCCCTAACGTGCTGGGTTTCGATTTCTC
1 AAGGTAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
22641761 GTTCGACCAAATAGCCAAATATCCTTTT
66 GTTCGACCAAATAGCCAAATATCCTTTT
22641789 AAATTTAAAT
Statistics
Matches: 179, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
106 11 0.06
107 165 0.92
108 3 0.02
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.33
Consensus pattern (107 bp):
AAGGTAATATTTTGCGTTTGGAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTC
GTTCGACCAAATAGCCAAATATCCTTTTTAAACTTTCAAAGT
Found at i:22653471 original size:40 final size:43
Alignment explanation
Indices: 22653409--22653608 Score: 209
Period size: 44 Copynumber: 4.7 Consensus size: 43
22653399 AAGATAGCAT
* * * * *
22653409 ATCTTACCTCCCTAAGTAGTAGTGGAGCAGATC-A-CATCAAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGAAACTAG
* *
22653450 -TTTTATCTCCCTAAGCAGTAGTGGAGTAGA-CGAAAGAAACTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC--AAGAAACTAG
* * * *
22653493 ATCTTATCTCCCTAAGCAGTAGTGGAGCGGATC-A-CATCCAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGAAACTAG
22653534 -TCTTATCTCCCTAAGCAGTAGTGGAGCAGA-CGAAAGAAACTAG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATC--AAGAAACTAG
22653577 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
22653609 GAAAGAAAAA
Statistics
Matches: 130, Mismatches: 17, Indels: 20
0.78 0.10 0.12
Matches are distributed among these distances:
39 2 0.02
40 55 0.42
41 4 0.03
42 3 0.02
43 8 0.06
44 57 0.44
45 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (43 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAGAAACTAG
Found at i:22653550 original size:84 final size:84
Alignment explanation
Indices: 22653409--22653608 Score: 346
Period size: 84 Copynumber: 2.4 Consensus size: 84
22653399 AAGATAGCAT
* * *
22653409 ATCTTACCTCCCTAAGTAGTAGTGGAGCAGATCACATCAAGTTTTATCTCCCTAAGCAGTAGTGG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGG
*
22653474 AGTAGACGAAAGAAACTAG
66 AGCAGACGAAAGAAACTAG
* *
22653493 ATCTTATCTCCCTAAGCAGTAGTGGAGCGGATCACATCCAGTCTTATCTCCCTAAGCAGTAGTGG
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGG
22653558 AGCAGACGAAAGAAACTAG
66 AGCAGACGAAAGAAACTAG
22653577 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
1 ATCTTATCTCCCTAAGCAGTAGTGGAGCAGAT
22653609 GAAAGAAAAA
Statistics
Matches: 109, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
84 109 1.00
ACGTcount: A:0.32, C:0.22, G:0.22, T:0.24
Consensus pattern (84 bp):
ATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCACATCAAGTCTTATCTCCCTAAGCAGTAGTGG
AGCAGACGAAAGAAACTAG
Found at i:22653633 original size:44 final size:44
Alignment explanation
Indices: 22653452--22653616 Score: 232
Period size: 44 Copynumber: 3.8 Consensus size: 44
22653442 ACATCAAGTT
*
22653452 TTATCTCCCTAAGCAGTAGTGGAGTAGACGAAAGAAACTAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACTAGATC
* * * *
22653496 TTATCTCCCTAAGCAGTAGTGGAGC-G--GATCA-CATCCAG-TC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGACGA-AAGAAACTAGATC
22653536 TTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACTAGATC
1 TTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACTAGATC
*
22653580 TTATCTCCCTAAGCAGTAGTGGAGCAGATGAAAGAAA
1 TTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAA
22653617 AACAATCCTA
Statistics
Matches: 105, Mismatches: 10, Indels: 12
0.83 0.08 0.09
Matches are distributed among these distances:
40 27 0.26
41 7 0.07
42 2 0.02
43 7 0.07
44 62 0.59
ACGTcount: A:0.34, C:0.21, G:0.23, T:0.22
Consensus pattern (44 bp):
TTATCTCCCTAAGCAGTAGTGGAGCAGACGAAAGAAACTAGATC
Found at i:22655936 original size:107 final size:107
Alignment explanation
Indices: 22655639--22655937 Score: 483
Period size: 107 Copynumber: 2.8 Consensus size: 107
22655629 AAAACAAAGT
* * *
22655639 AATATTTTGCGTTTGAAAAATCGAGAAAACGTGCCCTAACGTGCTGGGTTTCGATTTCTCGTTTG
1 AATATTTTGCGTTTGGAAAATCGAGAAAACATGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCG
* * *
22655704 ACCAAATAAACCAAATAT-CTTTTTAAAATTTGAAAGTAAGGT
66 ACCAAAT-AGCCAAATATCCTTTTTAAAATTTCAAAGTAAGGC
* *
22655746 AATATTTTGCGTTTGGAAAATCGAGAGAACATGCCCTAACGTGCTGGGTTTCGATTTCTCGTACG
1 AATATTTTGCGTTTGGAAAATCGAGAAAACATGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCG
* *
22655811 ACCAAATAGCCGAATATCCTTTTTAAACTTTCAAAGTAAGGC
66 ACCAAATAGCCAAATATCCTTTTTAAAATTTCAAAGTAAGGC
*
22655853 AATATTTTGCGTTTGGAAAATCGAGAAAACATGCTCTAACGTGCTGGGTTTCGATTTCTCGTTCG
1 AATATTTTGCGTTTGGAAAATCGAGAAAACATGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCG
22655918 ACCAAATAGCCAAATATCCT
66 ACCAAATAGCCAAATATCCT
22655938 CTTAAATCTA
Statistics
Matches: 177, Mismatches: 14, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
106 8 0.05
107 169 0.95
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (107 bp):
AATATTTTGCGTTTGGAAAATCGAGAAAACATGCCCTAACGTGCTGGGTTTCGATTTCTCGTTCG
ACCAAATAGCCAAATATCCTTTTTAAAATTTCAAAGTAAGGC
Found at i:22656401 original size:81 final size:81
Alignment explanation
Indices: 22656266--22656428 Score: 317
Period size: 81 Copynumber: 2.0 Consensus size: 81
22656256 CGACCCCGTT
22656266 TTCATCAAAAAATGGTGTCAACACCACCAACTTAAGCCATTTGCAATTCCTTTTTCAAATTCCCT
1 TTCATCAAAAAATGGTGTCAACACCACCAACTTAAGCCATTTGCAATTCCTTTTTCAAATTCCCT
22656331 TTTCATTTCCAGTAGC
66 TTTCATTTCCAGTAGC
*
22656347 TTCATCAAAAAATGGTGTCAACACCACCTACTTAAGCCATTTGCAATTCCTTTTTCAAATTCCCT
1 TTCATCAAAAAATGGTGTCAACACCACCAACTTAAGCCATTTGCAATTCCTTTTTCAAATTCCCT
22656412 TTTCATTTCCAGTAGC
66 TTTCATTTCCAGTAGC
22656428 T
1 T
22656429 AACCATCCAT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.36
Consensus pattern (81 bp):
TTCATCAAAAAATGGTGTCAACACCACCAACTTAAGCCATTTGCAATTCCTTTTTCAAATTCCCT
TTTCATTTCCAGTAGC
Found at i:22662605 original size:49 final size:49
Alignment explanation
Indices: 22662490--22662611 Score: 133
Period size: 49 Copynumber: 2.5 Consensus size: 49
22662480 ACTCGGTATA
* *
22662490 CAGATACA-ATGGACCACTAGTAGGGCATGTTTGTTGCTAACTAAAATGG
1 CAGATA-AGATGGACCACTAGTAGGGCATGCTAGTTGCTAACTAAAATGG
** *
22662539 CAGATGTGATGGACCACTAGTAGGGCATGCTAGTTGCTAAC-CAAATGG
1 CAGATAAGATGGACCACTAGTAGGGCATGCTAGTTGCTAACTAAAATGG
* *
22662587 GAGAATAAGAT-GAGCCACTAATAGG
1 CAG-ATAAGATGGA-CCACTAGTAGG
22662612 TCATTTTAAT
Statistics
Matches: 61, Mismatches: 9, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
48 10 0.16
49 51 0.84
ACGTcount: A:0.34, C:0.16, G:0.27, T:0.23
Consensus pattern (49 bp):
CAGATAAGATGGACCACTAGTAGGGCATGCTAGTTGCTAACTAAAATGG
Found at i:22663283 original size:30 final size:30
Alignment explanation
Indices: 22663249--22663342 Score: 76
Period size: 30 Copynumber: 3.2 Consensus size: 30
22663239 TGAAATAGGA
22663249 GAATTTTACTTAATTAGTAATTTTGGACAT
1 GAATTTTACTTAATTAGTAATTTTGGACAT
* *
22663279 GAA-TTT-C-GAA--AGT-ATTATT-GAAAT
1 GAATTTTACTTAATTAGTAATT-TTGGACAT
22663303 AGGAGAATTTTACTTAATTAGTAATTTTGGACAT
1 ----GAATTTTACTTAATTAGTAATTTTGGACAT
22663337 GAATTT
1 GAATTT
22663343 CGAAAGTATG
Statistics
Matches: 48, Mismatches: 4, Indels: 24
0.63 0.05 0.32
Matches are distributed among these distances:
24 7 0.15
25 5 0.10
27 2 0.04
28 4 0.08
29 6 0.12
30 10 0.21
31 2 0.04
33 5 0.10
34 7 0.15
ACGTcount: A:0.36, C:0.05, G:0.16, T:0.43
Consensus pattern (30 bp):
GAATTTTACTTAATTAGTAATTTTGGACAT
Found at i:22663298 original size:58 final size:58
Alignment explanation
Indices: 22663233--22663351 Score: 238
Period size: 58 Copynumber: 2.1 Consensus size: 58
22663223 CTTGAGTAAT
22663233 TATTATTGAAATAGGAGAATTTTACTTAATTAGTAATTTTGGACATGAATTTCGAAAG
1 TATTATTGAAATAGGAGAATTTTACTTAATTAGTAATTTTGGACATGAATTTCGAAAG
22663291 TATTATTGAAATAGGAGAATTTTACTTAATTAGTAATTTTGGACATGAATTTCGAAAG
1 TATTATTGAAATAGGAGAATTTTACTTAATTAGTAATTTTGGACATGAATTTCGAAAG
22663349 TAT
1 TAT
22663352 GTGAAATTAT
Statistics
Matches: 61, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.40
Consensus pattern (58 bp):
TATTATTGAAATAGGAGAATTTTACTTAATTAGTAATTTTGGACATGAATTTCGAAAG
Found at i:22669123 original size:17 final size:17
Alignment explanation
Indices: 22669098--22669131 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22669088 TTTAATATAC
*
22669098 AAAGATAACTGCTAACT
1 AAAGATAACAGCTAACT
*
22669115 AAAGTTAACAGCTAACT
1 AAAGATAACAGCTAACT
22669132 GCCTACCACT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.47, C:0.18, G:0.12, T:0.24
Consensus pattern (17 bp):
AAAGATAACAGCTAACT
Found at i:22670552 original size:21 final size:21
Alignment explanation
Indices: 22670527--22670567 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22670517 GTGAACTGAC
*
22670527 AACAAAACAGTGGAAAACAAT
1 AACAAAACAGTGAAAAACAAT
*
22670548 AACAAAATAGTGAAAAACAA
1 AACAAAACAGTGAAAAACAA
22670568 CATTTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.66, C:0.12, G:0.12, T:0.10
Consensus pattern (21 bp):
AACAAAACAGTGAAAAACAAT
Found at i:22670978 original size:36 final size:35
Alignment explanation
Indices: 22670937--22671019 Score: 89
Period size: 37 Copynumber: 2.3 Consensus size: 35
22670927 TTTAGATATA
*
22670937 AAATAATTAAGT-ATAAAATTAACAATTATTATAAAT
1 AAATAATTAA-TAATAAAAATAACAATT-TTATAAAT
* *
22670973 AAATAAAATAATAATAAAAATAACAATTTTATTAAT
1 AAAT-AATTAATAATAAAAATAACAATTTTATAAAT
*
22671009 ATATAA-TAATA
1 AAATAATTAATA
22671020 GAGTAATAAA
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
34 5 0.12
35 2 0.05
36 15 0.37
37 19 0.46
ACGTcount: A:0.61, C:0.02, G:0.01, T:0.35
Consensus pattern (35 bp):
AAATAATTAATAATAAAAATAACAATTTTATAAAT
Found at i:22670990 original size:37 final size:39
Alignment explanation
Indices: 22670949--22671029 Score: 105
Period size: 37 Copynumber: 2.1 Consensus size: 39
22670939 ATAATTAAGT
*
22670949 ATAAAATTAACAATTATTATAAATAAATAA-AATA-A-TA
1 ATAAAAATAACAATT-TTATAAATAAATAATAATAGAGTA
* *
22670986 ATAAAAATAACAATTTTATTAATATATAATAATAGAGTA
1 ATAAAAATAACAATTTTATAAATAAATAATAATAGAGTA
22671025 ATAAA
1 ATAAA
22671030 TAAGTTTTAA
Statistics
Matches: 38, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
36 12 0.32
37 18 0.47
38 1 0.03
39 7 0.18
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (39 bp):
ATAAAAATAACAATTTTATAAATAAATAATAATAGAGTA
Found at i:22676452 original size:18 final size:20
Alignment explanation
Indices: 22676415--22676454 Score: 57
Period size: 18 Copynumber: 2.0 Consensus size: 20
22676405 TTTAAGTAAA
22676415 AAATAATTACATACAAAATAT
1 AAATAATTACATA-AAAATAT
22676436 AAAT-ATTACAT-AAAATAT
1 AAATAATTACATAAAAATAT
22676454 A
1 A
22676455 TTATAAGAGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 8 0.42
20 7 0.37
21 4 0.21
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.30
Consensus pattern (20 bp):
AAATAATTACATAAAAATAT
Found at i:22676455 original size:20 final size:21
Alignment explanation
Indices: 22676415--22676455 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
22676405 TTTAAGTAAA
22676415 AAATAATTACATACAAAATAT
1 AAATAATTACATACAAAATAT
22676436 AAAT-ATTACATA-AAATATAT
1 AAATAATTACATACAAA-ATAT
22676456 TATAAGAGTT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 12 0.63
21 4 0.21
ACGTcount: A:0.61, C:0.07, G:0.00, T:0.32
Consensus pattern (21 bp):
AAATAATTACATACAAAATAT
Found at i:22687814 original size:43 final size:43
Alignment explanation
Indices: 22687743--22687857 Score: 133
Period size: 43 Copynumber: 2.7 Consensus size: 43
22687733 CGTTTATGTG
* * *
22687743 AAAAACGCCGCTATAGAACATGATCTTTAACGGAACTTTTCCC
1 AAAAACGCCGCTAAAGAACATGACCTTTAACGGAACTTTCCCC
* **
22687786 ATAAAA-GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCC
1 A-AAAACGCCGCTAAAGAACATGACCTTTAACGGAACTTTCCCC
* * *
22687829 AAAAACGTCGCTAAAGAATATGACTTTTA
1 AAAAACGCCGCTAAAGAACATGACCTTTA
22687858 GTGGCACTTT
Statistics
Matches: 61, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
42 4 0.07
43 53 0.87
44 4 0.07
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (43 bp):
AAAAACGCCGCTAAAGAACATGACCTTTAACGGAACTTTCCCC
Found at i:22693700 original size:24 final size:24
Alignment explanation
Indices: 22693668--22693714 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
22693658 ATAAACGAAA
22693668 GAACAAGATCATTCAGCAAAGAAT
1 GAACAAGATCATTCAGCAAAGAAT
*
22693692 GAACAAGATCATTTAGCAAAGAA
1 GAACAAGATCATTCAGCAAAGAA
22693715 CTTTTTAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (24 bp):
GAACAAGATCATTCAGCAAAGAAT
Found at i:22695937 original size:25 final size:25
Alignment explanation
Indices: 22695916--22695964 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
22695906 GAAGCAGAAG
*
22695916 AGGACTGTCGACGG-AGATGCAGCAA
1 AGGACTGCCGACGGCA-ATGCAGCAA
*
22695941 AGGGCTGCCGACGGCAATGCAGCA
1 AGGACTGCCGACGGCAATGCAGCA
22695965 GGCGTTGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 20 0.95
26 1 0.05
ACGTcount: A:0.29, C:0.24, G:0.37, T:0.10
Consensus pattern (25 bp):
AGGACTGCCGACGGCAATGCAGCAA
Found at i:22696376 original size:41 final size:42
Alignment explanation
Indices: 22696302--22696384 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 42
22696292 GTACATATTC
* * *
22696302 GCGGTGTTTGGACAAAAAAACGTCACTATTGCTT-ATCTTTTT
1 GCGGCGTTTGGACAAAAAAACGCCACTAATGCTTGA-CTTTTT
* *
22696344 GCGGCGTTTGGAC-CAAAAACGCCGCTAATGCTTGACTTTTT
1 GCGGCGTTTGGACAAAAAAACGCCACTAATGCTTGACTTTTT
22696385 TACAATTTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
41 22 0.63
42 13 0.37
ACGTcount: A:0.24, C:0.20, G:0.22, T:0.34
Consensus pattern (42 bp):
GCGGCGTTTGGACAAAAAAACGCCACTAATGCTTGACTTTTT
Found at i:22697180 original size:14 final size:14
Alignment explanation
Indices: 22697161--22697209 Score: 55
Period size: 14 Copynumber: 3.6 Consensus size: 14
22697151 TTATCAAAAT
22697161 TCCTAAACCCTAAA
1 TCCTAAACCCTAAA
*
22697175 TCCTAAACCAT-AA
1 TCCTAAACCCTAAA
* *
22697188 TCCTAATCCCCAAA
1 TCCTAAACCCTAAA
*
22697202 CCCTAAAC
1 TCCTAAAC
22697210 TCTAGAATAA
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
13 10 0.36
14 18 0.64
ACGTcount: A:0.41, C:0.39, G:0.00, T:0.20
Consensus pattern (14 bp):
TCCTAAACCCTAAA
Found at i:22698075 original size:41 final size:41
Alignment explanation
Indices: 22698030--22698107 Score: 102
Period size: 41 Copynumber: 1.9 Consensus size: 41
22698020 TTTGGACAAA
* * * *
22698030 AAATGCCGCTATTGCTTGACCTTTTGCGGCGTTTTTCTCAT
1 AAATGCCACTACTGCTTGACCTATTACGGCGTTTTTCTCAT
* *
22698071 AAATGCCACTACTGCTTTACCTATTATGGCGTTTTTC
1 AAATGCCACTACTGCTTGACCTATTACGGCGTTTTTC
22698108 CGTTAGCGCC
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
41 31 1.00
ACGTcount: A:0.18, C:0.24, G:0.17, T:0.41
Consensus pattern (41 bp):
AAATGCCACTACTGCTTGACCTATTACGGCGTTTTTCTCAT
Found at i:22698750 original size:6 final size:6
Alignment explanation
Indices: 22698739--22698778 Score: 50
Period size: 6 Copynumber: 7.2 Consensus size: 6
22698729 AAATAAAATG
*
22698739 TAATTA TAATTA TAATTA TAATTA -AATT- T-ATTA TTATTA T
1 TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA T
22698779 GGTAATCTGA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
4 3 0.10
5 5 0.16
6 23 0.74
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (6 bp):
TAATTA
Found at i:22706925 original size:90 final size:90
Alignment explanation
Indices: 22706764--22706930 Score: 237
Period size: 90 Copynumber: 1.9 Consensus size: 90
22706754 TTAAAATGTC
* * * * *
22706764 AATCCTTCCTTTGTTGTAGGCATGAGAGTTTGGATTCAATCCCAAACAACCCCATTTCCCTCCTT
1 AATCCTTCCTTTATTGTAGACATGAGAGCTTGGATTCAATACCAAACAACCCCATTCCCCTCCTT
**
22706829 TGATTATCAAAAAGAAAAAAATATT
66 CAATTATCAAAAAGAAAAAAATATT
*
22706854 AATCCTTCCTTTATTGTCGACATGAGAGCTTGGATTCAATACCAAACAACCCCATTCCCCT-CTT
1 AATCCTTCCTTTATTGTAGACATGAGAGCTTGGATTCAATACCAAACAACCCCATTCCCCTCCTT
*
22706918 CCAATTATTAAAA
66 -CAATTATCAAAA
22706931 CAAAAATGTC
Statistics
Matches: 67, Mismatches: 9, Indels: 2
0.86 0.12 0.03
Matches are distributed among these distances:
89 3 0.04
90 64 0.96
ACGTcount: A:0.32, C:0.25, G:0.11, T:0.32
Consensus pattern (90 bp):
AATCCTTCCTTTATTGTAGACATGAGAGCTTGGATTCAATACCAAACAACCCCATTCCCCTCCTT
CAATTATCAAAAAGAAAAAAATATT
Found at i:22717515 original size:30 final size:30
Alignment explanation
Indices: 22717476--22717533 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
22717466 CAAAGGCTGG
* * *
22717476 CACATGGGCATGTGTCCCACCTGTGTGGCT
1 CACACGGGCATGTGCCCCACCCGTGTGGCT
*
22717506 CACACGGGCATGTGCCCCGCCCGTGTGG
1 CACACGGGCATGTGCCCCACCCGTGTGG
22717534 AAATGCCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.34, G:0.33, T:0.21
Consensus pattern (30 bp):
CACACGGGCATGTGCCCCACCCGTGTGGCT
Found at i:22720903 original size:45 final size:45
Alignment explanation
Indices: 22720830--22720923 Score: 143
Period size: 45 Copynumber: 2.1 Consensus size: 45
22720820 AACAGATACT
* * *
22720830 CGGTGGATTCAGCACATAGCAACCACCTTATTAATCAATGATGTC
1 CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATGTC
* *
22720875 CGGTGGAATCAGCACATAACAACTACCTTACTAATCAATGATGTT
1 CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATGTC
22720920 CGGT
1 CGGT
22720924 TCACATAGTA
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 44 1.00
ACGTcount: A:0.32, C:0.23, G:0.18, T:0.27
Consensus pattern (45 bp):
CGGTGGAATCAGCACATAACAACCACCTTACTAATCAATGATGTC
Found at i:22721004 original size:12 final size:12
Alignment explanation
Indices: 22720987--22721018 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22720977 ACGTAATAGC
22720987 CTGCACATAGTA
1 CTGCACATAGTA
22720999 CTGCACATAGTA
1 CTGCACATAGTA
*
22721011 CTACACAT
1 CTGCACAT
22721019 GTGACGATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.34, C:0.28, G:0.12, T:0.25
Consensus pattern (12 bp):
CTGCACATAGTA
Found at i:22721011 original size:63 final size:63
Alignment explanation
Indices: 22720925--22721063 Score: 242
Period size: 63 Copynumber: 2.2 Consensus size: 63
22720915 ATGTTCGGTT
22720925 CACATAGTAGCCTGCACACAGTACTACACATGTGACGATTACCATCCGATACACGTAATAGCCTG
1 CACATAGTA--CTGCACACAGTACTACACATGTGACGATTACCATCCGATACACGTAATAGCCTG
* *
22720990 CACATAGTACTGCACATAGTACTACACATGTGACGATTACCATCCGATACACGTAGTAGCCTG
1 CACATAGTACTGCACACAGTACTACACATGTGACGATTACCATCCGATACACGTAATAGCCTG
22721053 CACATAGTACT
1 CACATAGTACT
22721064 ATACACGTGA
Statistics
Matches: 72, Mismatches: 2, Indels: 2
0.95 0.03 0.03
Matches are distributed among these distances:
63 63 0.88
65 9 0.12
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (63 bp):
CACATAGTACTGCACACAGTACTACACATGTGACGATTACCATCCGATACACGTAATAGCCTG
Found at i:22721164 original size:50 final size:50
Alignment explanation
Indices: 22720999--22721176 Score: 157
Period size: 51 Copynumber: 3.5 Consensus size: 50
22720989 GCACATAGTA
* *
22720999 CTGCACATAGTACTACACATGTGACGATTACCA-TCC-GATACACGTAGTAGC
1 CTGCACATAGTACTACACATGTGAC--CTAACATTCCTG-TACACGTAGTAGC
* * * * ** *
22721050 CTGCACATAGTACTATACACGTGATC-AAAACTAT-CTGGTATGCATAGTAGC
1 CTGCACATAGTACTACACATGTGACCTAACA-T-TCCT-GTACACGTAGTAGC
* * *
22721101 CTGCACATTGTACTACACATGCGACCTATCATTCCTGTACACGTAGTAGC
1 CTGCACATAGTACTACACATGTGACCTAACATTCCTGTACACGTAGTAGC
*
22721151 CTGCACATAGTACTACACACGTGACC
1 CTGCACATAGTACTACACATGTGACC
22721177 ATCACTTTCA
Statistics
Matches: 98, Mismatches: 22, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
48 2 0.02
50 36 0.37
51 57 0.58
52 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (50 bp):
CTGCACATAGTACTACACATGTGACCTAACATTCCTGTACACGTAGTAGC
Found at i:22721198 original size:101 final size:101
Alignment explanation
Indices: 22720991--22721177 Score: 238
Period size: 101 Copynumber: 1.9 Consensus size: 101
22720981 AATAGCCTGC
* *
22720991 ACATAGTA--CTGCACATAGTACTACACATGTGACGATTACCATCCGATACACGTAGTAGCCTGC
1 ACATAGTAGCCTGCACATAGTACTACACATGCGAC-ACTACCATCCGATACACGTAGTAGCCTGC
* * **
22721054 ACATAGTACTATACACGTGATCAAAACTATCTGGTAT
65 ACATAGTACTACACACGTGACCAAAACTATCACGTAT
* * *
22721091 GCATAGTAGCCTGCACATTGTACTACACATGCGAC-CTATCATTCCTG-TACACGTAGTAGCCTG
1 ACATAGTAGCCTGCACATAGTACTACACATGCGACACTACCA-TCC-GATACACGTAGTAGCCTG
22721154 CACATAGTACTACACACGTGACCA
64 CACATAGTACTACACACGTGACCA
22721178 TCACTTTCAC
Statistics
Matches: 76, Mismatches: 7, Indels: 7
0.84 0.08 0.08
Matches are distributed among these distances:
100 11 0.14
101 41 0.54
102 24 0.32
ACGTcount: A:0.32, C:0.27, G:0.17, T:0.25
Consensus pattern (101 bp):
ACATAGTAGCCTGCACATAGTACTACACATGCGACACTACCATCCGATACACGTAGTAGCCTGCA
CATAGTACTACACACGTGACCAAAACTATCACGTAT
Found at i:22736671 original size:5 final size:5
Alignment explanation
Indices: 22736661--22736686 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
22736651 CAGTAGAAAG
22736661 ATATA ATATA ATATA ATATA ATATA A
1 ATATA ATATA ATATA ATATA ATATA A
22736687 AGAAAATTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATATA
Found at i:22738761 original size:20 final size:20
Alignment explanation
Indices: 22738738--22738776 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
22738728 TTTTAATTCT
22738738 AAAA-ATTTCAAGAAAAGAAA
1 AAAATATTTCAA-AAAAGAAA
*
22738758 AAAATATTTTAAAAAAGAA
1 AAAATATTTCAAAAAAGAA
22738777 TTTTTTAGCC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.69, C:0.03, G:0.08, T:0.21
Consensus pattern (20 bp):
AAAATATTTCAAAAAAGAAA
Found at i:22742622 original size:23 final size:24
Alignment explanation
Indices: 22742572--22742622 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
22742562 ATTTATTATA
*
22742572 ATAAAAAATAACTATTCACTAAAC
1 ATAATAAATAACTATTCACTAAAC
22742596 -TAATAAATAACTA-TCAC-AAACC
1 ATAATAAATAACTATTCACTAAA-C
22742618 ATAAT
1 ATAAT
22742623 CATTCATGTA
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
21 3 0.12
22 5 0.21
23 16 0.67
ACGTcount: A:0.57, C:0.18, G:0.00, T:0.25
Consensus pattern (24 bp):
ATAATAAATAACTATTCACTAAAC
Found at i:22744243 original size:22 final size:22
Alignment explanation
Indices: 22744200--22744243 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
22744190 CTGAGCCCGG
*
22744200 GTTATTAAAATTAAAACTAATT
1 GTTATTAAAATTAAAACAAATT
* *
22744222 GTTATTAAAATTATATCAAATT
1 GTTATTAAAATTAAAACAAATT
22744244 ATATTTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.48, C:0.05, G:0.05, T:0.43
Consensus pattern (22 bp):
GTTATTAAAATTAAAACAAATT
Found at i:22744294 original size:19 final size:19
Alignment explanation
Indices: 22744272--22744322 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 19
22744262 TCAAAACATT
22744272 TTGTTAGTAAAATTATTAA
1 TTGTTAGTAAAATTATTAA
*
22744291 TTG-T--T-AATTGTATTAA
1 TTGTTAGTAAAAT-TATTAA
22744307 TTGTTAGTAAAATTAT
1 TTGTTAGTAAAATTAT
22744323 CAAATTATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 10
0.68 0.05 0.27
Matches are distributed among these distances:
15 3 0.12
16 10 0.40
17 1 0.04
18 1 0.04
19 7 0.28
20 3 0.12
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (19 bp):
TTGTTAGTAAAATTATTAA
Found at i:22744456 original size:6 final size:6
Alignment explanation
Indices: 22744445--22744481 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
22744435 TTATATCAGA
*
22744445 TAGGGT TAGGGT TAGAGT TAGGGT TAGGGT TAGGGT T
1 TAGGGT TAGGGT TAGGGT TAGGGT TAGGGT TAGGGT T
22744482 TTTGTTAGCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.19, C:0.00, G:0.46, T:0.35
Consensus pattern (6 bp):
TAGGGT
Found at i:22744575 original size:34 final size:33
Alignment explanation
Indices: 22744505--22744577 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 33
22744495 GGGTTTTGGT
* * *
22744505 GTTTTTAAGTTAAGGGTTGGGGTTATGGTTAGG
1 GTTTTTAAGTTAAGGGTTGGGGTTAGGGCTAAG
* *
22744538 GTTTTTAAGTTAATGGTTTTGGGTTAGGGCTAAG
1 GTTTTTAAGTTAA-GGGTTGGGGTTAGGGCTAAG
22744572 GTTTTT
1 GTTTTT
22744578 GTTAGGGTTT
Statistics
Matches: 34, Mismatches: 5, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
33 13 0.38
34 21 0.62
ACGTcount: A:0.18, C:0.01, G:0.34, T:0.47
Consensus pattern (33 bp):
GTTTTTAAGTTAAGGGTTGGGGTTAGGGCTAAG
Found at i:22744612 original size:15 final size:15
Alignment explanation
Indices: 22744592--22744624 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
22744582 GGGTTTTGGT
22744592 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
22744607 GTTTTTAAGTTAAGG
1 GTTTTTAAGTTAAGG
22744622 GTT
1 GTT
22744625 AGGGTTATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.48
Consensus pattern (15 bp):
GTTTTTAAGTTAAGG
Found at i:22744639 original size:27 final size:27
Alignment explanation
Indices: 22744606--22744658 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
22744596 TTAAGTTAAG
22744606 GGTTTTTAAGTTAAGGGTTAGGGTTAT
1 GGTTTTTAAGTTAAGGGTTAGGGTTAT
*
22744633 GGTTTTTATGTTAAGGGTTAGGGTTA
1 GGTTTTTAAGTTAAGGGTTAGGGTTA
22744659 GGGCTAGGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (27 bp):
GGTTTTTAAGTTAAGGGTTAGGGTTAT
Found at i:22744677 original size:95 final size:96
Alignment explanation
Indices: 22744524--22744704 Score: 301
Period size: 95 Copynumber: 1.9 Consensus size: 96
22744514 TTAAGGGTTG
* * *
22744524 GGGTTATGGTTAGGGTTTTTAAGTTAATGGTTTTGGGTTAGGGCTAAGGTTTTTGTTAGGGTTTT
1 GGGTTAGGGTTAGGGTTTTTAAGTTAATGGGTTAGGGTTAGGGCTAAGGTTTTTGTTAGGGTTTT
22744589 GGTGTTTTTAAGTTAAGGGTTTTTAAGTTAA
66 GGTGTTTTTAAGTTAAGGGTTTTTAAGTTAA
* * *
22744620 GGGTTAGGGTTATGGTTTTTATGTTAA-GGGTTAGGGTTAGGGCTAGGGTTTTTGTTAGGGTTTT
1 GGGTTAGGGTTAGGGTTTTTAAGTTAATGGGTTAGGGTTAGGGCTAAGGTTTTTGTTAGGGTTTT
22744684 GGTGTTTTTAAGTTAAGGGTT
66 GGTGTTTTTAAGTTAAGGGTT
22744705 AGGGTTAGGG
Statistics
Matches: 79, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
95 55 0.70
96 24 0.30
ACGTcount: A:0.17, C:0.01, G:0.35, T:0.47
Consensus pattern (96 bp):
GGGTTAGGGTTAGGGTTTTTAAGTTAATGGGTTAGGGTTAGGGCTAAGGTTTTTGTTAGGGTTTT
GGTGTTTTTAAGTTAAGGGTTTTTAAGTTAA
Found at i:22744699 original size:53 final size:51
Alignment explanation
Indices: 22744622--22744735 Score: 174
Period size: 53 Copynumber: 2.2 Consensus size: 51
22744612 TAAGTTAAGG
* *
22744622 GTTAGGGTTATGGTTTTTATGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTT
1 GTTAGGGTTTTGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTT
*
22744673 GTTAGGGTTTTGGTGTTTTTAAGTTAAGGGTTAGGGTTAGGGTTAGGGTTTTT
1 GTTAGGGTTTT-G-GTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTT
*
22744726 GTAAGGGTTT
1 GTTAGGGTTT
22744736 GTCAATTAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
51 10 0.18
52 1 0.02
53 46 0.81
ACGTcount: A:0.16, C:0.01, G:0.38, T:0.46
Consensus pattern (51 bp):
GTTAGGGTTTTGGTTTTTAAGTTAAGGGTTAGGGTTAGGGCTAGGGTTTTT
Found at i:22744754 original size:7 final size:7
Alignment explanation
Indices: 22744742--22744781 Score: 57
Period size: 7 Copynumber: 5.9 Consensus size: 7
22744732 GTTTGTCAAT
22744742 TAAATTA
1 TAAATTA
22744749 TAAATT-
1 TAAATTA
22744755 T-AATTA
1 TAAATTA
22744761 TAAATTA
1 TAAATTA
22744768 TAAATTTA
1 TAAA-TTA
22744776 TAAATT
1 TAAATT
22744782 TTTAATAAAT
Statistics
Matches: 30, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
5 4 0.13
6 2 0.07
7 17 0.57
8 7 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (7 bp):
TAAATTA
Found at i:22744754 original size:12 final size:12
Alignment explanation
Indices: 22744739--22744781 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
22744729 AGGGTTTGTC
22744739 AATTAAATTATA
1 AATTAAATTATA
*
22744751 AATTTAATTATA
1 AATTAAATTATA
22744763 AATTATAAATTTATA
1 AA-T-TAAA-TTATA
22744778 AATT
1 AATT
22744782 TTTAATAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
12 13 0.50
13 2 0.08
14 4 0.15
15 7 0.27
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
AATTAAATTATA
Found at i:22744992 original size:21 final size:21
Alignment explanation
Indices: 22744948--22744995 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
22744938 TTGTCTAGCT
*
22744948 TCCGGTGGGGGTTGTAGTTAC
1 TCCGGTGGGGATTGTAGTTAC
* * *
22744969 TCCGGTGGGGATTTTGGTTCC
1 TCCGGTGGGGATTGTAGTTAC
22744990 TCCGGT
1 TCCGGT
22744996 AGGGTATCTA
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:0.06, C:0.19, G:0.40, T:0.35
Consensus pattern (21 bp):
TCCGGTGGGGATTGTAGTTAC
Found at i:22747049 original size:51 final size:51
Alignment explanation
Indices: 22746968--22747067 Score: 130
Period size: 51 Copynumber: 2.0 Consensus size: 51
22746958 AAATAATTAA
*
22746968 AAATAGGGATTTAAGAGAAATTTAAGAGGAAACTGAGAGCAAATTGAGATT
1 AAATAAGGATTTAAGAGAAATTTAAGAGGAAACTGAGAGCAAATTGAGATT
* ** * *
22747019 AAATAAGGATTTGAGA-AAATTTTGGAAGGAAATTGAGAGCAATTTGAGA
1 AAATAAGGATTTAAGAGAAATTTAAG-AGGAAACTGAGAGCAAATTGAGA
22747068 GGAAATTGAG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
50 7 0.17
51 35 0.83
ACGTcount: A:0.46, C:0.03, G:0.26, T:0.25
Consensus pattern (51 bp):
AAATAAGGATTTAAGAGAAATTTAAGAGGAAACTGAGAGCAAATTGAGATT
Found at i:22747055 original size:22 final size:22
Alignment explanation
Indices: 22747029--22747089 Score: 65
Period size: 22 Copynumber: 2.8 Consensus size: 22
22747019 AAATAAGGAT
22747029 TTGAGA-AAATTTTG-GAAGGAAA
1 TTGAGAGAAA-TTTGAG-AGGAAA
*
22747051 TTGAGAGCAATTTGAGAGGAAA
1 TTGAGAGAAATTTGAGAGGAAA
22747073 TTGAGACGAAA-TTGAGA
1 TTGAGA-GAAATTTGAGA
22747090 AAATAATTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 28 0.82
23 6 0.18
ACGTcount: A:0.43, C:0.03, G:0.30, T:0.25
Consensus pattern (22 bp):
TTGAGAGAAATTTGAGAGGAAA
Found at i:22747067 original size:11 final size:11
Alignment explanation
Indices: 22747048--22747089 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
22747038 TTTTGGAAGG
22747048 AAATTGAGAGC
1 AAATTGAGAGC
* *
22747059 AATTTGAGAGG
1 AAATTGAGAGC
22747070 AAATTGAGA-C
1 AAATTGAGAGC
22747080 GAAATTGAGA
1 -AAATTGAGA
22747090 AAATAATTGA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.45, C:0.05, G:0.29, T:0.21
Consensus pattern (11 bp):
AAATTGAGAGC
Found at i:22752169 original size:17 final size:17
Alignment explanation
Indices: 22752138--22752171 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22752128 ATGATATTTG
*
22752138 AAATATTTCACATATCA
1 AAATATTTCAAATATCA
*
22752155 AAATATTTGAAATATCA
1 AAATATTTCAAATATCA
22752172 TATCCATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.50, C:0.12, G:0.03, T:0.35
Consensus pattern (17 bp):
AAATATTTCAAATATCA
Found at i:22753178 original size:24 final size:24
Alignment explanation
Indices: 22753151--22753214 Score: 92
Period size: 24 Copynumber: 2.6 Consensus size: 24
22753141 GTAATTCGTT
22753151 ATTTTTAATTTTTTGTTATTTTTA
1 ATTTTTAATTTTTTGTTATTTTTA
* *
22753175 ATTTTAAAATTTTTGTTATTTTTA
1 ATTTTTAATTTTTTGTTATTTTTA
22753199 ATTATGTTAATTTTTT
1 ATT-T-TTAATTTTTT
22753215 TGATAAATCT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
24 25 0.74
25 1 0.03
26 8 0.24
ACGTcount: A:0.25, C:0.00, G:0.05, T:0.70
Consensus pattern (24 bp):
ATTTTTAATTTTTTGTTATTTTTA
Found at i:22756169 original size:15 final size:15
Alignment explanation
Indices: 22756149--22756205 Score: 60
Period size: 15 Copynumber: 3.5 Consensus size: 15
22756139 ATTCAATATT
22756149 AATATTTTAATAATA
1 AATATTTTAATAATA
*
22756164 AATATTTATTACATTTATA
1 AATA-TT-TTA-A-TAATA
*
22756183 AATATATTAATAATA
1 AATATTTTAATAATA
22756198 AATATTTT
1 AATATTTT
22756206 GTAGTATAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 15 0.44
16 3 0.09
17 6 0.18
18 2 0.06
19 8 0.24
ACGTcount: A:0.49, C:0.02, G:0.00, T:0.49
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:22757279 original size:23 final size:23
Alignment explanation
Indices: 22757253--22757296 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
22757243 TACTTGCCAA
22757253 ATCATATTGTGTCTTACATAAAT
1 ATCATATTGTGTCTTACATAAAT
22757276 ATCATATTGTGTCTTACATAA
1 ATCATATTGTGTCTTACATAA
22757297 GGAGAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.43
Consensus pattern (23 bp):
ATCATATTGTGTCTTACATAAAT
Found at i:22763242 original size:5 final size:5
Alignment explanation
Indices: 22763227--22763260 Score: 61
Period size: 5 Copynumber: 7.0 Consensus size: 5
22763217 AGAAACAGGG
22763227 AGAAA AG-AA AGAAA AGAAA AGAAA AGAAA AGAAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA
22763261 GGGGGGTGTT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.14
5 24 0.86
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (5 bp):
AGAAA
Found at i:22765253 original size:33 final size:33
Alignment explanation
Indices: 22765212--22765281 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
22765202 ATAATAAAAT
* * *
22765212 ATATTTAAATAATTTAATATAATGGTACATAAA
1 ATATTTAAATAATTTAACACAATGATACATAAA
22765245 ATATTTAAATAATTTAACACAATGATACATAAA
1 ATATTTAAATAATTTAACACAATGATACATAAA
22765278 ATAT
1 ATAT
22765282 AAAGTAATCT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.53, C:0.06, G:0.04, T:0.37
Consensus pattern (33 bp):
ATATTTAAATAATTTAACACAATGATACATAAA
Found at i:22767062 original size:20 final size:17
Alignment explanation
Indices: 22767018--22767067 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 17
22767008 TGGTATTCTC
22767018 AGAAAATATAATTTATTT
1 AGAAAATA-AATTTATTT
22767036 AGAAAATAGAATTTATACTT
1 AGAAAATA-AATTTAT--TT
*
22767056 GGAAAATAAATT
1 AGAAAATAAATT
22767068 CTCATTATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 15 0.54
19 4 0.14
20 9 0.32
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.36
Consensus pattern (17 bp):
AGAAAATAAATTTATTT
Found at i:22767445 original size:16 final size:16
Alignment explanation
Indices: 22767424--22767457 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
22767414 TTATTTTTAA
*
22767424 CTAATTAACTAATTTT
1 CTAATTAAATAATTTT
22767440 CTAATTAAATAATTTT
1 CTAATTAAATAATTTT
22767456 CT
1 CT
22767458 CATCTCAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (16 bp):
CTAATTAAATAATTTT
Found at i:22769466 original size:25 final size:25
Alignment explanation
Indices: 22769412--22769481 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
22769402 AGACTCACCA
* * *
22769412 CAGCTCGTATGAGCTTACTGGTTTG
1 CAGCTCGTAGGAGCTTACCGATTTG
*
22769437 TAGCTCGTAGGAGCTTACCGATATT-
1 CAGCTCGTAGGAGCTTACCGAT-TTG
*
22769462 CAGCTCGGAGGAGCTTACCG
1 CAGCTCGTAGGAGCTTACCG
22769482 TTTATCGCTC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
25 36 0.95
26 2 0.05
ACGTcount: A:0.20, C:0.23, G:0.29, T:0.29
Consensus pattern (25 bp):
CAGCTCGTAGGAGCTTACCGATTTG
Found at i:22772385 original size:16 final size:17
Alignment explanation
Indices: 22772364--22772395 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
22772354 AATTAGGTTG
22772364 AGAAAATT-ATTTAATT
1 AGAAAATTAATTTAATT
22772380 AGAAAATTAATTTAAT
1 AGAAAATTAATTTAAT
22772396 AAATCATATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
AGAAAATTAATTTAATT
Found at i:22778506 original size:56 final size:56
Alignment explanation
Indices: 22778354--22778492 Score: 208
Period size: 56 Copynumber: 2.5 Consensus size: 56
22778344 ATTATGTTAA
**
22778354 GATATTATTATGATATATTATCTTTTAGCAATTTGATTCCTAATGGGAGATTATAG
1 GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGGGAGATTATAG
* * * *
22778410 GATATTATAATGGGATATTAAT-TCTTAGCAATTTGATTCCTGATGGGATATTATAG
1 GATATTATTATGGGATATT-ATCTTTTAGCAATTTGATTCCTAATGGGAGATTATAG
22778466 GATATTATTATGGGATATTATCTTTTA
1 GATATTATTATGGGATATTATCTTTTA
22778493 ATAGTTTGGT
Statistics
Matches: 73, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
55 2 0.03
56 69 0.95
57 2 0.03
ACGTcount: A:0.32, C:0.06, G:0.17, T:0.45
Consensus pattern (56 bp):
GATATTATTATGGGATATTATCTTTTAGCAATTTGATTCCTAATGGGAGATTATAG
Found at i:22781449 original size:70 final size:71
Alignment explanation
Indices: 22781316--22781449 Score: 182
Period size: 70 Copynumber: 1.9 Consensus size: 71
22781306 ATTTATTGCG
* * * *
22781316 TCGGTTTATCCGACTAGCGCTGGGCGCAATAATCTGTCGACTTGTTTGACTAGTGGTGGGCACAA
1 TCGGTTTATCCGACTAGCGCTGGGCGCAATAATCTGTCGACTCGTTTGACTAATGCTGAGCACAA
22781381 CTGTCA
66 CTGTCA
* * *
22781387 TCGG-TTATCTGACTAGTGCTGGGTGCAATATAT-TGTCGACTCGTTTGACTAATGCTGAGCACA
1 TCGGTTTATCCGACTAGCGCTGGGCGCAATA-ATCTGTCGACTCGTTTGACTAATGCTGAGCACA
22781450 CAAATGATTT
Statistics
Matches: 55, Mismatches: 7, Indels: 3
0.85 0.11 0.05
Matches are distributed among these distances:
70 49 0.89
71 6 0.11
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (71 bp):
TCGGTTTATCCGACTAGCGCTGGGCGCAATAATCTGTCGACTCGTTTGACTAATGCTGAGCACAA
CTGTCA
Found at i:22783665 original size:50 final size:50
Alignment explanation
Indices: 22783590--22783782 Score: 251
Period size: 50 Copynumber: 3.9 Consensus size: 50
22783580 CATTTGGGTA
*
22783590 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
*
22783640 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * ** * *
22783690 GAGAGGCCCCGCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * * * *
22783740 GAGAACTCCCATGTAAGACCATATATGGGATATGACATTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
22783783 GTACATGAAA
Statistics
Matches: 125, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 125 1.00
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.20
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:22784491 original size:13 final size:13
Alignment explanation
Indices: 22784475--22784527 Score: 88
Period size: 13 Copynumber: 4.1 Consensus size: 13
22784465 TTTAAACCAA
22784475 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
* *
22784488 ACTTTTCCATAGC
1 ACTTTTCAAAAGC
22784501 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
22784514 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
22784527 A
1 A
22784528 ATGAAGAACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 36 1.00
ACGTcount: A:0.36, C:0.25, G:0.08, T:0.32
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:22784741 original size:16 final size:16
Alignment explanation
Indices: 22784720--22784750 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22784710 GTTATTTAAG
22784720 CAAGTAAGTAAGTAAA
1 CAAGTAAGTAAGTAAA
*
22784736 CAAGTAAGTGAGTAA
1 CAAGTAAGTAAGTAA
22784751 GTAAAGAAGA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.52, C:0.06, G:0.23, T:0.19
Consensus pattern (16 bp):
CAAGTAAGTAAGTAAA
Found at i:22784764 original size:20 final size:20
Alignment explanation
Indices: 22784721--22784766 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
22784711 TTATTTAAGC
*
22784721 AAGTAAGTAAGTAAACAAGT
1 AAGTAAGTAAGTAAACAAGA
* *
22784741 AAGTGAGTAAGTAAAGAAGA
1 AAGTAAGTAAGTAAACAAGA
22784761 AAGTAA
1 AAGTAA
22784767 AGATCCTAGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.57, C:0.02, G:0.24, T:0.17
Consensus pattern (20 bp):
AAGTAAGTAAGTAAACAAGA
Found at i:22786223 original size:9 final size:9
Alignment explanation
Indices: 22786209--22786302 Score: 136
Period size: 9 Copynumber: 10.4 Consensus size: 9
22786199 CTTGGTTAAA
22786209 AATTAACCG
1 AATTAACCG
22786218 AATTAACCG
1 AATTAACCG
*
22786227 AATTAATCG
1 AATTAACCG
*
22786236 GATTAACCG
1 AATTAACCG
22786245 AATTAACC-
1 AATTAACCG
*
22786253 AGATTACCCG
1 A-ATTAACCG
22786263 AATTAACCG
1 AATTAACCG
*
22786272 AATTACCCG
1 AATTAACCG
22786281 AATTAACCG
1 AATTAACCG
22786290 AATTAACCG
1 AATTAACCG
22786299 AATT
1 AATT
22786303 GAATCACTAC
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
8 1 0.01
9 73 0.97
10 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.24
Consensus pattern (9 bp):
AATTAACCG
Found at i:22786362 original size:12 final size:13
Alignment explanation
Indices: 22786334--22786377 Score: 54
Period size: 14 Copynumber: 3.4 Consensus size: 13
22786324 ATTTTTAGAC
* *
22786334 TTTTAGACTTTAG
1 TTTTAGATTTTAT
22786347 TTTTAG-TTTTAT
1 TTTTAGATTTTAT
22786359 TTTTAGAATTTTAT
1 TTTTAG-ATTTTAT
22786373 TTTTA
1 TTTTA
22786378 TTTATTAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 10 0.37
13 6 0.22
14 11 0.41
ACGTcount: A:0.23, C:0.02, G:0.09, T:0.66
Consensus pattern (13 bp):
TTTTAGATTTTAT
Found at i:22789707 original size:26 final size:27
Alignment explanation
Indices: 22789675--22789740 Score: 91
Period size: 26 Copynumber: 2.5 Consensus size: 27
22789665 GGAAGCTTTG
22789675 AAGAGCCATTAATCAGGAAGCTCAC-A
1 AAGAGCCATTAATCAGGAAGCTCACGA
* *
22789701 AAGAGCCTTTAATCGGGAAGCTCACGA
1 AAGAGCCATTAATCAGGAAGCTCACGA
22789728 AA-AGCCATATAAT
1 AAGAGCCAT-TAAT
22789741 GAGACGCTCA
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
26 28 0.80
27 7 0.20
ACGTcount: A:0.41, C:0.21, G:0.20, T:0.18
Consensus pattern (27 bp):
AAGAGCCATTAATCAGGAAGCTCACGA
Found at i:22791558 original size:3 final size:3
Alignment explanation
Indices: 22791552--22791612 Score: 63
Period size: 3 Copynumber: 20.7 Consensus size: 3
22791542 TTTGATGTTG
* * * *
22791552 TTA TTA TTA TTA TTA TTA TTA TTA TTA TCA TTA ATA TT- TTC GTA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
22791600 TTA TTA TT- TTA TT
1 TTA TTA TTA TTA TT
22791613 TACTTACTTG
Statistics
Matches: 48, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
2 4 0.08
3 42 0.88
4 2 0.04
ACGTcount: A:0.30, C:0.03, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:22796467 original size:13 final size:13
Alignment explanation
Indices: 22796449--22796482 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
22796439 GGGTGTTAGA
22796449 ATATTATTAT-GAG
1 ATATTATTATAG-G
22796462 ATATTATTATAGG
1 ATATTATTATAGG
22796475 ATATTATT
1 ATATTATT
22796483 TCTTAGCAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 19 0.95
14 1 0.05
ACGTcount: A:0.38, C:0.00, G:0.12, T:0.50
Consensus pattern (13 bp):
ATATTATTATAGG
Found at i:22796545 original size:56 final size:56
Alignment explanation
Indices: 22796453--22796558 Score: 169
Period size: 56 Copynumber: 1.9 Consensus size: 56
22796443 GTTAGAATAT
*
22796453 TATTATGAGATATTATTATAGGATATTATTTCTTAGCAATTTGATTCCTAGTGAGA
1 TATTATGAGATATTATTATAGAATATTATTTCTTAGCAATTTGATTCCTAGTGAGA
* *
22796509 TATTATGTGATATTATTATATAATATTATCTT-TTAGCAATTTGATTCCTA
1 TATTATGAGATATTATTATAGAATATTAT-TTCTTAGCAATTTGATTCCTA
22796559 CTTAACTACT
Statistics
Matches: 46, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
56 44 0.96
57 2 0.04
ACGTcount: A:0.32, C:0.08, G:0.12, T:0.48
Consensus pattern (56 bp):
TATTATGAGATATTATTATAGAATATTATTTCTTAGCAATTTGATTCCTAGTGAGA
Found at i:22798137 original size:18 final size:19
Alignment explanation
Indices: 22798113--22798160 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
22798103 AATTAAACTT
**
22798113 TTTTAAAAATTAAAAATTA
1 TTTTAAAAATTAAAAAAAA
*
22798132 -TTTAAAAAATAAAAAAAA
1 TTTTAAAAATTAAAAAAAA
22798150 TTTTAAAAATT
1 TTTTAAAAATT
22798161 TTAAAAGTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
18 15 0.62
19 9 0.38
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (19 bp):
TTTTAAAAATTAAAAAAAA
Found at i:22798297 original size:21 final size:21
Alignment explanation
Indices: 22798273--22798333 Score: 61
Period size: 20 Copynumber: 2.9 Consensus size: 21
22798263 TTAATAAAAA
22798273 TTTATAATTTTTATAATTTTT
1 TTTATAATTTTTATAATTTTT
* *
22798294 TTTATAA-ATTTATGATTTTT
1 TTTATAATTTTTATAATTTTT
** *
22798314 TAAAATAATTTTTAAAATTT
1 T-TTATAATTTTTATAATTT
22798334 AAAAGGCTTA
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
20 12 0.39
21 11 0.35
22 8 0.26
ACGTcount: A:0.36, C:0.00, G:0.02, T:0.62
Consensus pattern (21 bp):
TTTATAATTTTTATAATTTTT
Found at i:22798753 original size:21 final size:21
Alignment explanation
Indices: 22798727--22798768 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
22798717 TTAACGGGAC
22798727 AGCTGATGTGACAAGTTAACT
1 AGCTGATGTGACAAGTTAACT
* *
22798748 AGCTGATGTGGCCAGTTAACT
1 AGCTGATGTGACAAGTTAACT
22798769 TGTCACGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.29, C:0.17, G:0.26, T:0.29
Consensus pattern (21 bp):
AGCTGATGTGACAAGTTAACT
Found at i:22798858 original size:3 final size:3
Alignment explanation
Indices: 22798850--22798897 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
22798840 CCCTTAACAG
22798850 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
22798898 GACTGTAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:22800820 original size:20 final size:20
Alignment explanation
Indices: 22800795--22800832 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22800785 CAACGTGGCA
22800795 AGTTAACTGGCCACATCAAC
1 AGTTAACTGGCCACATCAAC
*
22800815 AGTTAACTTGCCACATCA
1 AGTTAACTGGCCACATCA
22800833 GCGATCGTGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.13, T:0.24
Consensus pattern (20 bp):
AGTTAACTGGCCACATCAAC
Found at i:22802784 original size:20 final size:20
Alignment explanation
Indices: 22802759--22802912 Score: 82
Period size: 20 Copynumber: 7.6 Consensus size: 20
22802749 ATACCAATAA
22802759 TTCTAAAGATTTATCAAAAT
1 TTCTAAAGATTTATCAAAAT
** *
22802779 TTCTAAACCTTTA-CCAAAT
1 TTCTAAAGATTTATCAAAAT
* **
22802798 TCTCT-AAG-GTTATACACATTTT
1 T-TCTAAAGATTTAT-CA-A-AAT
* * *
22802820 TTTTAAGGATTTATCAAAACA
1 TTCTAAAGATTTATCAAAA-T
* *
22802841 TT-TAAAAATTTACCAAAAT
1 TTCTAAAGATTTATCAAAAT
*
22802860 TTCTAAAGATTTTACCAAAAT
1 TTCTAAAGA-TTTATCAAAAT
* * *
22802881 TTCTAAGGATTTAACAATAT
1 TTCTAAAGATTTATCAAAAT
*
22802901 TTCTAAACATTT
1 TTCTAAAGATTT
22802913 TCTTAATGTT
Statistics
Matches: 100, Mismatches: 24, Indels: 20
0.69 0.17 0.14
Matches are distributed among these distances:
18 3 0.03
19 10 0.10
20 52 0.52
21 25 0.25
22 6 0.06
23 4 0.04
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.40
Consensus pattern (20 bp):
TTCTAAAGATTTATCAAAAT
Found at i:22802873 original size:21 final size:21
Alignment explanation
Indices: 22802849--22802913 Score: 87
Period size: 21 Copynumber: 3.1 Consensus size: 21
22802839 CATTTAAAAA
22802849 TTTACCAAAATTTCTAAAGAT
1 TTTACCAAAATTTCTAAAGAT
*
22802870 TTTACCAAAATTTCTAAGGA-
1 TTTACCAAAATTTCTAAAGAT
* * *
22802890 TTTAACAATATTTCTAAACAT
1 TTTACCAAAATTTCTAAAGAT
22802911 TTT
1 TTT
22802914 CTTAATGTTT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
20 16 0.42
21 22 0.58
ACGTcount: A:0.40, C:0.14, G:0.05, T:0.42
Consensus pattern (21 bp):
TTTACCAAAATTTCTAAAGAT
Found at i:22806581 original size:20 final size:20
Alignment explanation
Indices: 22806558--22806621 Score: 58
Period size: 20 Copynumber: 3.2 Consensus size: 20
22806548 AGGGGCACAA
*
22806558 AAGTGCATTCAGGGGTACCG
1 AAGTGCAATCAGGGGTACCG
* * * *
22806578 AAGTACAAACATGGGCA-CG
1 AAGTGCAATCAGGGGTACCG
*
22806597 TAAGTGCAATCAGGGATACCG
1 -AAGTGCAATCAGGGGTACCG
22806618 AAGT
1 AAGT
22806622 ACAAACATGG
Statistics
Matches: 32, Mismatches: 10, Indels: 4
0.70 0.22 0.09
Matches are distributed among these distances:
19 2 0.06
20 28 0.88
21 2 0.06
ACGTcount: A:0.34, C:0.19, G:0.30, T:0.17
Consensus pattern (20 bp):
AAGTGCAATCAGGGGTACCG
Found at i:22806636 original size:40 final size:40
Alignment explanation
Indices: 22806539--22806648 Score: 157
Period size: 40 Copynumber: 2.8 Consensus size: 40
22806529 GAGTTACTGG
* * ** * *
22806539 AGTATAAACAGGGGCACAAAAGTGCATTCAGGGGTACCGA
1 AGTACAAACATGGGCACGTAAGTGCAATCAGGGATACCGA
22806579 AGTACAAACATGGGCACGTAAGTGCAATCAGGGATACCGA
1 AGTACAAACATGGGCACGTAAGTGCAATCAGGGATACCGA
*
22806619 AGTACAAACATGGGCACGTAAGTGTAATCA
1 AGTACAAACATGGGCACGTAAGTGCAATCA
22806649 TCAATAATTA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 63 1.00
ACGTcount: A:0.38, C:0.18, G:0.27, T:0.16
Consensus pattern (40 bp):
AGTACAAACATGGGCACGTAAGTGCAATCAGGGATACCGA
Done.