Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D05
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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 101 of 208
Found at i:33975647 original size:22 final size:23
Alignment explanation
Indices: 33975604--33975647 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 23
33975594 GTATGTAGAC
* * *
33975604 ATAAATATATGTATACATAAATT
1 ATAAATATATATATAAAAAAATT
33975627 ATAAA-ATATATATAAAAAAAT
1 ATAAATATATATATAAAAAAAT
33975648 ATGAGTATGT
Statistics
Matches: 18, Mismatches: 3, Indels: 1
0.82 0.14 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (23 bp):
ATAAATATATATATAAAAAAATT
Found at i:33975762 original size:27 final size:26
Alignment explanation
Indices: 33975716--33975780 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 26
33975706 GTAAATGATC
33975716 ATAATAATAAATGCAATAA-TAATAGTA
1 ATAATAATAAATGC-ATAATTAAT-GTA
*
33975743 ATAATAATAATATAGC-TAATTAATTTA
1 ATAATAATAA-AT-GCATAATTAATGTA
33975770 ATAATAATAAA
1 ATAATAATAAA
33975781 ATAACGGGAC
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
26 1 0.03
27 25 0.74
28 6 0.18
29 2 0.06
ACGTcount: A:0.58, C:0.03, G:0.05, T:0.34
Consensus pattern (26 bp):
ATAATAATAAATGCATAATTAATGTA
Found at i:33977497 original size:114 final size:114
Alignment explanation
Indices: 33977161--33977746 Score: 809
Period size: 114 Copynumber: 5.1 Consensus size: 114
33977151 AAAATAAGCA
* ** *
33977161 TTAGCGGTGTTTTCCAGAAAGCGCCGC-AAAATACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
* * *
33977225 TTGGGGATTTAGCGGCGTTTTTAAGAAAGCGCTGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * * * *
33977274 TTAGCAGCGTTTTTGAGAAAGCGCCACAAAAAAACATAAGCCCAACGAAG-CGGTTTCTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
33977338 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
66 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
** * *
33977387 TTAGCAACGTTTATGAGAAGGCGCCGCAAAAAAACCTAAGCCCAACGACG-CTGTTTTCTGAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTC-GTTTTCTGAGCT
* * *
33977451 TTCGGGAATTTAGCAGCGTTTTTAAGTAAGCGCCGCTAATGTTCAGGGCT
65 TTCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * * *
33977501 TTAGCGGCATTTTTGGGAAAGCGCCGCAAAAATACCTAAGCCCAACGACGTCGTTTTTTGAGCTT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
** * *
33977566 TCGGGGATTTAGTAGCGTTTTTTAGTAAGCGCCGCTAATGCTCAGGGAT
66 TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
* * * *
33977615 TTAGTGGCGTTTTTGATAAAGCGCCGCGAAAAAAACCTAAGCCCAACGACGTCGTTCTCTTAGCT
1 TTAGCGGCGTTTTTGAGAAAGCGCCGC-AAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCT
* * * *
33977680 TTCGGGGATTTAGCGGCGTTTTTAAGAAAGTGTCGCTAATGCTCAAGGCT
65 TTCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
*
33977730 TTAGCGACGTTTTTGAG
1 TTAGCGGCGTTTTTGAG
33977747 GATGCGCCAC
Statistics
Matches: 415, Mismatches: 54, Indels: 6
0.87 0.11 0.01
Matches are distributed among these distances:
113 126 0.30
114 199 0.48
115 90 0.22
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (114 bp):
TTAGCGGCGTTTTTGAGAAAGCGCCGCAAAAAAACCTAAGCCCAACGACGTCGTTTTCTGAGCTT
TCGGGGATTTAGCGGCGTTTTTAAGTAAGCGCCGCTAATGCTCAGGGCT
Found at i:33978384 original size:7 final size:7
Alignment explanation
Indices: 33978375--33978420 Score: 56
Period size: 7 Copynumber: 6.6 Consensus size: 7
33978365 TTAATGTGAT
*
33978375 TTAAGGT
1 TTAAGGG
*
33978382 TTATGGG
1 TTAAGGG
33978389 TTAAGGG
1 TTAAGGG
33978396 TTAAGGG
1 TTAAGGG
*
33978403 TTAGGGG
1 TTAAGGG
*
33978410 TTAGGGG
1 TTAAGGG
33978417 TTAA
1 TTAA
33978421 ATGCTAAGAG
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (7 bp):
TTAAGGG
Found at i:33978401 original size:21 final size:21
Alignment explanation
Indices: 33978375--33978420 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
33978365 TTAATGTGAT
* *
33978375 TTAAGGTTTATGGGTTAAGGG
1 TTAAGGGTTAGGGGTTAAGGG
*
33978396 TTAAGGGTTAGGGGTTAGGGG
1 TTAAGGGTTAGGGGTTAAGGG
33978417 TTAA
1 TTAA
33978421 ATGCTAAGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.24, C:0.00, G:0.41, T:0.35
Consensus pattern (21 bp):
TTAAGGGTTAGGGGTTAAGGG
Found at i:33978530 original size:7 final size:7
Alignment explanation
Indices: 33978520--33978553 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
33978510 TAAATAAGGT
33978520 TTAGGGG
1 TTAGGGG
33978527 TTAGGGG
1 TTAGGGG
*
33978534 TTAAGGG
1 TTAGGGG
*
33978541 TTAAGGG
1 TTAGGGG
33978548 TTAGGG
1 TTAGGG
33978554 ATTCAGGATC
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.21, C:0.00, G:0.50, T:0.29
Consensus pattern (7 bp):
TTAGGGG
Found at i:33978538 original size:21 final size:21
Alignment explanation
Indices: 33978514--33978553 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
33978504 ATATATTAAA
* *
33978514 TAAGGTTTAGGGGTTAGGGGT
1 TAAGGGTTAAGGGTTAGGGGT
33978535 TAAGGGTTAAGGGTTAGGG
1 TAAGGGTTAAGGGTTAGGG
33978554 ATTCAGGATC
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:0.23, C:0.00, G:0.47, T:0.30
Consensus pattern (21 bp):
TAAGGGTTAAGGGTTAGGGGT
Found at i:33978543 original size:14 final size:14
Alignment explanation
Indices: 33978514--33978553 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
33978504 ATATATTAAA
*
33978514 TAAGGTTTAGGGGT
1 TAAGGGTTAGGGGT
* *
33978528 TAGGGGTTAAGGGT
1 TAAGGGTTAGGGGT
33978542 TAAGGGTTAGGG
1 TAAGGGTTAGGG
33978554 ATTCAGGATC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.23, C:0.00, G:0.47, T:0.30
Consensus pattern (14 bp):
TAAGGGTTAGGGGT
Found at i:33978679 original size:90 final size:93
Alignment explanation
Indices: 33978463--33978805 Score: 410
Period size: 90 Copynumber: 3.6 Consensus size: 93
33978453 TTTGGTGTTA
* * * *
33978463 GGTTAGAGTTTAGGGTTTAGATTAATTAGTGTATTTTAA-TTATATATTAAATAAGGTTTAGGGG
1 GGTTAGGGTTTAAGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTA----
* *
33978527 TTAGGGGTTAAGGGTTAAGGGTTAGGGATTCAGGA-TCG
62 --A-GGG-T-A-GGTTAGGGGTTAGGGATT-TGGAGTCG
*
33978565 GGTTATGGTTTAAGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTT-A-GG
1 GGTTAGGGTTTAAGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAAGGG
33978628 -A-GTTAGGGGTTAGGGATTTGGAGTCG
66 TAGGTTAGGGGTTAGGGATTTGGAGTCG
33978654 GGTTTAGGGTTTAAGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAAGG
1 GG-TTAGGGTTTAAGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAAGG
*
33978719 GTTAGGGGTTAGGGGTTAGGGATTTGGGGTCG
65 G-TA--GGTTAGGGGTTAGGGATTTGGAGTCG
* **
33978751 GGTTAGGGTTTAAGATTTAGATTAATTAGTACTTTTTAATTTATATATTAAATAA
1 GGTTAGGGTTTAAGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAA
33978806 GTTCTTTATA
Statistics
Matches: 219, Mismatches: 12, Indels: 26
0.85 0.05 0.10
Matches are distributed among these distances:
88 3 0.01
89 21 0.10
90 57 0.26
91 2 0.01
92 2 0.01
94 3 0.01
96 51 0.23
97 26 0.12
102 35 0.16
103 19 0.09
ACGTcount: A:0.29, C:0.01, G:0.27, T:0.42
Consensus pattern (93 bp):
GGTTAGGGTTTAAGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAAGGG
TAGGTTAGGGGTTAGGGATTTGGAGTCG
Found at i:33978796 original size:186 final size:188
Alignment explanation
Indices: 33978465--33978805 Score: 508
Period size: 186 Copynumber: 1.8 Consensus size: 188
33978455 TGGTGTTAGG
* * *
33978465 TTAGAGTTTAGGGTTTAGATTAATTAGTGTATTTTAATTATATATTAAATAAGGTTTAGGGGTTA
1 TTAGAGTTTAAGGTTTAGATTAATTAGTGTATTTTAATTATATATTAAATAAAGTTTAAGGGTTA
* *
33978530 GGGGTTAAGGGTTAAGGGTTAGGGATTCAGGATCGGGTTATGGTTTAAGGTTTAGATTAATTAGT
66 GGGGTTAA-GG---AGGGTTAGGGATTCAGGATCGGGTTAGGGTTTAAGATTTAGATTAATTAGT
**
33978595 GTTTTTTAATTTATATATTAAATAAAGTTTAGGAGTTAGGGGTTAGGGATTTGGAGTCGGGT
127 ACTTTTTAATTTATATATTAAATAAAGTTTAGGAGTTAGGGGTTAGGGATTTGGAGTCGGGT
* *
33978657 TTAGGGTTTAAGGTTTAGATTAATTAGTGTTTTTTAATTTATATATTAAATAAAGTTTAAGGGTT
1 TTAGAGTTTAAGGTTTAGATTAATTAGTGTATTTTAA-TTATATATTAAATAAAGTTTAAGGGTT
** *
33978722 AGGGGTT-A-G-GGGTTAGGGATTTGGGGTCGGGTTAGGGTTTAAGATTTAGATTAATTAGTACT
65 AGGGGTTAAGGAGGGTTAGGGATTCAGGATCGGGTTAGGGTTTAAGATTTAGATTAATTAGTACT
33978784 TTTTAATTTATATATTAAATAA
130 TTTTAATTTATATATTAAATAA
33978806 GTTCTTTATA
Statistics
Matches: 136, Mismatches: 12, Indels: 8
0.87 0.08 0.05
Matches are distributed among these distances:
186 68 0.50
190 1 0.01
192 35 0.26
193 32 0.24
ACGTcount: A:0.29, C:0.01, G:0.27, T:0.43
Consensus pattern (188 bp):
TTAGAGTTTAAGGTTTAGATTAATTAGTGTATTTTAATTATATATTAAATAAAGTTTAAGGGTTA
GGGGTTAAGGAGGGTTAGGGATTCAGGATCGGGTTAGGGTTTAAGATTTAGATTAATTAGTACTT
TTTAATTTATATATTAAATAAAGTTTAGGAGTTAGGGGTTAGGGATTTGGAGTCGGGT
Found at i:33978925 original size:10 final size:9
Alignment explanation
Indices: 33978902--33978941 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
33978892 ATAATAATTT
33978902 AAAATTGT-
1 AAAATTGTA
33978910 AAAATTGTAA
1 AAAATTGT-A
33978920 AAAATTGTA
1 AAAATTGTA
*
33978929 AAAATTATA
1 AAAATTGTA
33978938 AAAA
1 AAAA
33978942 ATAGAAATAA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
8 8 0.28
9 13 0.45
10 8 0.28
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.30
Consensus pattern (9 bp):
AAAATTGTA
Found at i:33978925 original size:18 final size:19
Alignment explanation
Indices: 33978902--33978943 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
33978892 ATAATAATTT
*
33978902 AAAATTGT-AAAATTGTAA
1 AAAATTGTAAAAATTATAA
33978920 AAAATTGTAAAAATTATAA
1 AAAATTGTAAAAATTATAA
33978939 AAAAT
1 AAAAT
33978944 AGAAATAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (19 bp):
AAAATTGTAAAAATTATAA
Found at i:33978942 original size:10 final size:10
Alignment explanation
Indices: 33978902--33978943 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
33978892 ATAATAATTT
33978902 AAAATTGT--
1 AAAATTGTAA
33978910 AAAATTGTAA
1 AAAATTGTAA
33978920 AAAATTGT-A
1 AAAATTGTAA
*
33978929 AAAATTATAA
1 AAAATTGTAA
33978939 AAAAT
1 AAAAT
33978944 AGAAATAAAA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
8 8 0.27
9 8 0.27
10 14 0.47
ACGTcount: A:0.62, C:0.00, G:0.07, T:0.31
Consensus pattern (10 bp):
AAAATTGTAA
Found at i:33978958 original size:16 final size:16
Alignment explanation
Indices: 33978938--33978969 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
33978928 AAAAATTATA
33978938 AAAAATAGAAATAAAAT
1 AAAAA-AGAAATAAAAT
33978955 AAAAAAGAAATAAAA
1 AAAAAAGAAATAAAA
33978970 ACACTAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.81, C:0.00, G:0.06, T:0.12
Consensus pattern (16 bp):
AAAAAAGAAATAAAAT
Found at i:33985367 original size:26 final size:26
Alignment explanation
Indices: 33985312--33985446 Score: 116
Period size: 26 Copynumber: 5.3 Consensus size: 26
33985302 TGGTACCTAT
* * ** *
33985312 TAAATAATCACCGGATCAAATCTTGC
1 TAAATAAACACCGGCTCAAGGCCTGC
* *
33985338 TAAATAAACATCGGCTCAAGGCCTGT
1 TAAATAAACACCGGCTCAAGGCCTGC
*
33985364 TAAATACACACCGGCTCAAGG-C--C
1 TAAATAAACACCGGCTCAAGGCCTGC
* *
33985387 TAAATACACACCGACTCAAGGCCTGC
1 TAAATAAACACCGGCTCAAGGCCTGC
* * *
33985413 TAAATAATCACTAGGC-CAAGGCCTAC
1 TAAATAAACAC-CGGCTCAAGGCCTGC
33985439 TAAATAAA
1 TAAATAAA
33985447 GTACATCAAA
Statistics
Matches: 88, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
23 20 0.23
24 1 0.01
25 1 0.01
26 64 0.73
27 2 0.02
ACGTcount: A:0.39, C:0.27, G:0.15, T:0.20
Consensus pattern (26 bp):
TAAATAAACACCGGCTCAAGGCCTGC
Found at i:33985394 original size:23 final size:23
Alignment explanation
Indices: 33985337--33985410 Score: 94
Period size: 23 Copynumber: 3.1 Consensus size: 23
33985327 TCAAATCTTG
* *
33985337 CTAAATAAACATCGGCTCAAGGC
1 CTAAATACACACCGGCTCAAGGC
33985360 CTGTTAAATACACACCGGCTCAAGGC
1 C---TAAATACACACCGGCTCAAGGC
*
33985386 CTAAATACACACCGACTCAAGGC
1 CTAAATACACACCGGCTCAAGGC
33985409 CT
1 CT
33985411 GCTAAATAAT
Statistics
Matches: 45, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
23 24 0.53
26 21 0.47
ACGTcount: A:0.35, C:0.31, G:0.16, T:0.18
Consensus pattern (23 bp):
CTAAATACACACCGGCTCAAGGC
Found at i:33985433 original size:49 final size:49
Alignment explanation
Indices: 33985337--33985437 Score: 125
Period size: 49 Copynumber: 2.1 Consensus size: 49
33985327 TCAAATCTTG
* * * *
33985337 CTAAATAAACATCGGCTCAAGGCCTGTTAAATACACACCGGCTCAAGGC
1 CTAAATAAACACCGACTCAAGGCCTGCTAAATACACACAGGCTCAAGGC
*
33985386 CTAAATACACACCGACTCAAGGCCTGCTAAATA-ATCACTAGGC-CAAGGC
1 CTAAATAAACACCGACTCAAGGCCTGCTAAATACA-CAC-AGGCTCAAGGC
33985435 CTA
1 CTA
33985438 CTAAATAAAG
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
48 1 0.02
49 41 0.91
50 3 0.07
ACGTcount: A:0.36, C:0.30, G:0.17, T:0.18
Consensus pattern (49 bp):
CTAAATAAACACCGACTCAAGGCCTGCTAAATACACACAGGCTCAAGGC
Found at i:33990490 original size:35 final size:35
Alignment explanation
Indices: 33990442--33990524 Score: 98
Period size: 35 Copynumber: 2.4 Consensus size: 35
33990432 TAAACATATG
*
33990442 AACAATCACATTT-GGACA-ATAATATAACATATAAA
1 AACAACCACATTTGGGACATAT-ATATAACATA-AAA
* * *
33990477 AACAACCATATTTGGGACATATTTATAACATACAA
1 AACAACCACATTTGGGACATATATATAACATAAAA
33990512 AACAACCACATTT
1 AACAACCACATTT
33990525 AATTATTCCA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
35 25 0.61
36 14 0.34
37 2 0.05
ACGTcount: A:0.49, C:0.18, G:0.06, T:0.27
Consensus pattern (35 bp):
AACAACCACATTTGGGACATATATATAACATAAAA
Found at i:33998283 original size:18 final size:19
Alignment explanation
Indices: 33998260--33998298 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
33998250 TGCTTCAAGC
*
33998260 TTTTTAA-ATTTTAATTCT
1 TTTTTAACATATTAATTCT
*
33998278 TTTTTAACATATTAGTTCT
1 TTTTTAACATATTAATTCT
33998297 TT
1 TT
33998299 GGTTAGATAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 7 0.39
19 11 0.61
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.64
Consensus pattern (19 bp):
TTTTTAACATATTAATTCT
Found at i:33998456 original size:139 final size:139
Alignment explanation
Indices: 33998234--33998603 Score: 444
Period size: 139 Copynumber: 2.7 Consensus size: 139
33998224 CACATTTATA
*
33998234 TATTTTTTATTT-ATGTTGCTTCAAGCTTTTTAAA-TTTTAATT--CTTTTTTAACATATTAGTT
1 TATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTAATTTTTTTAACATATTAGTT
* * * *
33998295 CTTTGGTTAGATAGTTAAATAGTTGCAATTACATCCTTAAGTCTCGAGTTCAATTCCTCT-CTTA
66 CTTTCGTTAGATGGTTAGATAGTTACAATTACATCCTTAAGTCTCGAGTTCAATTCCTCTAC-TA
**
33998359 CTCTTATTTG
130 CTCACATTTG
*
33998369 TA-TTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTAATGTTTTTTAACATTTTAGT
1 TATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTAAT-TTTTTTAACATATTAGT
* * * * *
33998433 TCTTTCGTTAGATGGTTAGATAGTTATAATTACATCCTTGAGTCTCGAGTTCGATTTCTTTACTA
65 TCTTTCGTTAGATGGTTAGATAGTTACAATTACATCCTTAAGTCTCGAGTTCAATTCCTCTACTA
33998498 CTCACATTTG
130 CTCACATTTG
*
33998508 TATTTTTTATTTCATGTTGCTTCAA-----TT---TTTTTAATTAATATTTTTAACATATTAGCT
1 TATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTAATTTTTTTAACATATTAG-T
* * * * *
33998565 CCTTTTGTTAGGTGGTTAGATAATTTCAATTACATCCTT
65 TCTTTCGTTAGATGGTTAGATAGTTACAATTACATCCTT
33998604 GTGTATGAGG
Statistics
Matches: 206, Mismatches: 21, Indels: 19
0.84 0.09 0.08
Matches are distributed among these distances:
131 14 0.07
132 46 0.22
134 9 0.04
135 26 0.13
136 8 0.04
139 80 0.39
140 23 0.11
ACGTcount: A:0.24, C:0.13, G:0.11, T:0.52
Consensus pattern (139 bp):
TATTTTTTATTTCATGTTGCTTCAAGCTTTTTAAATTTTTAATTAATTTTTTTAACATATTAGTT
CTTTCGTTAGATGGTTAGATAGTTACAATTACATCCTTAAGTCTCGAGTTCAATTCCTCTACTAC
TCACATTTG
Found at i:33998711 original size:12 final size:12
Alignment explanation
Indices: 33998677--33998714 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
33998667 GCTTTTTTTA
33998677 TTTTTAATTATT
1 TTTTTAATTATT
* *
33998689 TTTATGA-TATT
1 TTTTTAATTATT
33998700 TTTTTAATTATT
1 TTTTTAATTATT
33998712 TTT
1 TTT
33998715 ATTTTTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 2
0.78 0.15 0.07
Matches are distributed among these distances:
11 9 0.43
12 12 0.57
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (12 bp):
TTTTTAATTATT
Found at i:33999030 original size:140 final size:135
Alignment explanation
Indices: 33998875--33999312 Score: 448
Period size: 140 Copynumber: 3.1 Consensus size: 135
33998865 TTTAAATAGT
** *
33998875 ATGAAATAAAAAATACATTAATATGCTTATAAAAATAATAGAACCTC-AGACTCAAGGATGTAAT
1 ATGAAATAAAAAATACA--AATATGAGTATAAAAA-AATAGAA-CTCGAGACTCAAGAATGTAAT
* * * * * *
33998939 TGCAATTATCTAACCATATAATGAAAGGAACTAATATGTTAAAAATATTAATTAAAAATAAAAAC
62 TGCAACTATCTAACCATCTAA-CAAA-AAACTAATATGTTAAAAAAATTAATTAAAAATAAAAAG
33999004 CTTGAAGCAAC
125 CTTGAAGCAAC
* * * * * * * *
33999015 ATGAAATAAAAAATACAATTGTGAGTAGTAGAAGAATCGAACTCGAAACTTAAGAATGTAATTAC
1 ATGAAATAAAAAATACAAATATGAGTA-TAAAAAAATAGAACTCGAGACTCAAGAATGTAATTGC
* * * *
33999080 AACTATCTTACCATCTAACAAAAAAACTAATTTATTAAGAAACATTAATTAAAAATTTAAAAAGC
65 AACTATCTAACCATCTAAC-AAAAAACTAATATGTTAA-AAAAATTAATTAAAAA--TAAAAAGC
* *
33999145 TTTAAGTAAC
126 TTGAAGCAAC
* * *
33999155 ATGAAGTAAAAAATACAAATATGAGTA-AGAAAGAAATTGAACTCGAGACTCAAGAATGTTATTG
1 ATGAAATAAAAAATACAAATATGAGTATA-AAA-AAATAGAACTCGAGACTCAAGAATGTAATTG
* * *
33999219 CAACTATCTAACCATCTAACCAAATAACTATTATGTTAAAAAAATTAATTAAAATTTTAAAAAGC
64 CAACTATCTAACCATCTAA-CAAAAAACTAATATGTTAAAAAAATTAATTAAAA--ATAAAAAGC
*
33999284 TTGAAGGAAC
126 TTGAAGCAAC
33999294 ATGAAATAAAAAATACAAA
1 ATGAAATAAAAAATACAAA
33999313 CGTGAGTAGG
Statistics
Matches: 245, Mismatches: 42, Indels: 23
0.79 0.14 0.07
Matches are distributed among these distances:
137 15 0.06
138 62 0.25
139 54 0.22
140 113 0.46
141 1 0.00
ACGTcount: A:0.52, C:0.11, G:0.11, T:0.27
Consensus pattern (135 bp):
ATGAAATAAAAAATACAAATATGAGTATAAAAAAATAGAACTCGAGACTCAAGAATGTAATTGCA
ACTATCTAACCATCTAACAAAAAACTAATATGTTAAAAAAATTAATTAAAAATAAAAAGCTTGAA
GCAAC
Found at i:33999319 original size:139 final size:139
Alignment explanation
Indices: 33998922--33999320 Score: 466
Period size: 140 Copynumber: 2.9 Consensus size: 139
33998912 ATAGAACCTC
* * * * ** * *
33998922 AGACTCAAGGATGTAATTGCAATTATCTAACCATATAATGAAAGGAACTAATATGTTAAAAATAT
1 AGACTCAAGAATGTAATTGCAACTATCTAACCATCTAA-CAAAAAAACTATTATGTTAAAAAAAT
* * *
33998987 TAATTAAAA-ATAAAAACCTTGAAGCAACATGAAATAAAAAATACAATTGTGAGT-AGTAGAAGA
65 TAATTAAAATTTAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATGTGAGTAAGTAGAAGA
33999050 ATCGAACTCG
130 ATCGAACTCG
* * * * * *
33999060 AAACTTAAGAATGTAATTACAACTATCTTACCATCTAACAAAAAAACTAATT-TATTAAGAAACA
1 AGACTCAAGAATGTAATTGCAACTATCTAACCATCTAACAAAAAAACT-ATTATGTTAA-AAAAA
* * * *
33999124 TTAATTAAAAATTTAAAAAGCTTTAAGTAACATGAAGTAAAAAATACAAATATGAGTAAG-A-AA
64 TTAATT-AAAATTTAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATGTGAGTAAGTAGAA
*
33999187 GAAATTGAACTCG
128 G-AATCGAACTCG
* * *
33999200 AGACTCAAGAATGTTATTGCAACTATCTAACCATCTAACCAAATAACTATTATGTTAAAAAAATT
1 AGACTCAAGAATGTAATTGCAACTATCTAACCATCTAACAAAAAAACTATTATGTTAAAAAAATT
* *
33999265 AATTAAAATTTTAAAAAGCTTGAAGGAACATGAAATAAAAAATACAAACGTGAGTA
66 AATTAAAA-TTTAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATGTGAGTA
33999321 GGAGCGAAAT
Statistics
Matches: 218, Mismatches: 35, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
137 12 0.06
138 47 0.22
139 62 0.28
140 95 0.44
141 2 0.01
ACGTcount: A:0.51, C:0.11, G:0.12, T:0.27
Consensus pattern (139 bp):
AGACTCAAGAATGTAATTGCAACTATCTAACCATCTAACAAAAAAACTATTATGTTAAAAAAATT
AATTAAAATTTAAAAAGCTTGAAGCAACATGAAATAAAAAATACAAATGTGAGTAAGTAGAAGAA
TCGAACTCG
Found at i:34000641 original size:13 final size:14
Alignment explanation
Indices: 34000605--34000644 Score: 55
Period size: 13 Copynumber: 2.9 Consensus size: 14
34000595 ATATTAATAA
34000605 TATTATTTAAAATTC
1 TATTA-TTAAAATTC
*
34000620 TATTCTTAAAATT-
1 TATTATTAAAATTC
34000633 TATTATTAAAAT
1 TATTATTAAAAT
34000645 AAAATTGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 11 0.48
14 8 0.35
15 4 0.17
ACGTcount: A:0.42, C:0.05, G:0.00, T:0.53
Consensus pattern (14 bp):
TATTATTAAAATTC
Found at i:34005958 original size:7 final size:7
Alignment explanation
Indices: 34005946--34005979 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
34005936 AACTTAAACG
34005946 TCAAATA
1 TCAAATA
34005953 TCAAATA
1 TCAAATA
34005960 TCAAATA
1 TCAAATA
34005967 TCAAATA
1 TCAAATA
34005974 TCAAAT
1 TCAAAT
34005980 TGAACTCAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (7 bp):
TCAAATA
Found at i:34007833 original size:12 final size:12
Alignment explanation
Indices: 34007816--34007842 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
34007806 AGTCGTTAAT
34007816 TGTCATTAACGG
1 TGTCATTAACGG
34007828 TGTCATTAACGG
1 TGTCATTAACGG
34007840 TGT
1 TGT
34007843 AACGGTAAGC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.15, G:0.26, T:0.37
Consensus pattern (12 bp):
TGTCATTAACGG
Found at i:34010748 original size:12 final size:13
Alignment explanation
Indices: 34010726--34010750 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34010716 TTTTTTCTTT
34010726 TTCGAAAAAAAAA
1 TTCGAAAAAAAAA
34010739 TTCGAAAAAAAA
1 TTCGAAAAAAAA
34010751 GAGTCGTTTT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.08, G:0.08, T:0.16
Consensus pattern (13 bp):
TTCGAAAAAAAAA
Found at i:34013167 original size:3 final size:3
Alignment explanation
Indices: 34013159--34013199 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
34013149 TCCATCTCCA
34013159 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
34013200 TTTTTACATT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:34013623 original size:18 final size:18
Alignment explanation
Indices: 34013602--34013638 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
34013592 TGAGTTTTCG
*
34013602 AATTTGAATAACTTGAAT
1 AATTCGAATAACTTGAAT
*
34013620 AATTCGAATAATTTGAAT
1 AATTCGAATAACTTGAAT
34013638 A
1 A
34013639 TCAAACTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.05, G:0.11, T:0.38
Consensus pattern (18 bp):
AATTCGAATAACTTGAAT
Found at i:34017087 original size:110 final size:105
Alignment explanation
Indices: 34016915--34017219 Score: 393
Period size: 107 Copynumber: 2.8 Consensus size: 105
34016905 AAAAATTTTT
* * * * *
34016915 TTTTGGGTGCTGGCCTGTCAATAGA-CAGCACCACCTTTACGGAA--TTTTTTTTATATTTTGGG
1 TTTT-GGTGGTGGCCTGCCAAT-GACCAGCACCACCTTTATGTAAGTTTTTTTTTACATTTTGGG
34016977 GTGTCATTGGCCGCAACCAGTATAC-AAAAAATTTAAAAAAAAAAA
64 GTGTCATTGGCCGC-ACCAGTATACGAAAAAA-TT--AAAAAAAAA
* * *
34017022 TTTTTGGTGGTGGCCTGCCAATGGCCGGCACCACCTTTATGTAAATTTTTTTTTTACATTTTGGG
1 -TTTTGGTGGTGGCCTGCCAATGACCAGCACCACCTTTATGT-AAGTTTTTTTTTACATTTTGGG
*
34017087 GTGTCATTGGCGGGCACCAGTATACGAAAAAATTAAAAAAAAA
64 GTGTCATTGGC-CGCACCAGTATACGAAAAAATTAAAAAAAAA
*
34017130 TTTTGGTGGTGGCCTGCCAATGATCAGCACCACCTTTATGTAAGTTTTTTTTTACATTTTGGGGT
1 TTTTGGTGGTGGCCTGCCAATGACCAGCACCACCTTTATGTAAGTTTTTTTTTACATTTTGGGGT
*
34017195 GTCATTAGCCGGCACCAGTATACGA
66 GTCATTGGCC-GCACCAGTATACGA
34017220 TTTTTTTATT
Statistics
Matches: 176, Mismatches: 14, Indels: 16
0.85 0.07 0.08
Matches are distributed among these distances:
106 46 0.26
107 67 0.38
108 15 0.09
110 40 0.23
111 8 0.05
ACGTcount: A:0.27, C:0.18, G:0.21, T:0.34
Consensus pattern (105 bp):
TTTTGGTGGTGGCCTGCCAATGACCAGCACCACCTTTATGTAAGTTTTTTTTTACATTTTGGGGT
GTCATTGGCCGCACCAGTATACGAAAAAATTAAAAAAAAA
Found at i:34017362 original size:106 final size:104
Alignment explanation
Indices: 34017220--34017734 Score: 377
Period size: 106 Copynumber: 5.1 Consensus size: 104
34017210 CAGTATACGA
*****
34017220 TTTTTTT-ATTTTTTCGTATACTGGTGCCGGCCAATGACACCCAAAAATGTAAATTTTTTTTACA
1 TTTTTTTAATTTTTTCGTATACTGGTGCCGGCCAATGACACCCAAAAATGTAAAAAAAATTTACA
*
34017284 TAAAGGTGGTGTCGGCCATTGGCAGGCCACCACCAAATTT
66 TAAAGGTGGTGCCGGCCATTGGCAGGCCACCA-CAAATTT
* * ** *
34017324 CTTTTTTTAATTTTTTTGTATACTGGTGTCGGTGAATGACACCTC-AAAATGTAAAAAAAAAAAT
1 -TTTTTTTAATTTTTTCGTATACTGGTGCCGGCCAATGACACC-CAAAAATGT--AAAAAAAATT
* ** *
34017388 TACTTAAAGGTAATGCCAGCCATTGGCAGGCCACCACAAATTT
62 TACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACAAATTT
* *
34017431 TTTTTTTACATTTTTTCATATATTGGTGCCGGCCAATGACACCCCAAAATAT-TAAAAAAAATTT
1 TTTTTTTA-ATTTTTTCGTATACTGGTGCCGGCCAATGACA-CCCAAAA-ATGTAAAAAAAATTT
*
34017495 ACATAAAGGTGGTGCCGGCCATT---------TCA-AAA-TT
63 ACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACAAATTT
*****
34017526 TTTTTTT-A--------TATA--GGTGTCC-GCCAATGACACCCAAAAATGTAAATTTTTTTTTA
1 TTTTTTTAATTTTTTCGTATACTGGTG-CCGGCCAATGACACCCAAAAATGTAAA-AAAAATTTA
*
34017579 CATAAAGGTGGTGCTGGCCATTGGCAGGCCACCACCAAAATTT
64 CATAAAGGTGGTGCCGGCCATTGGCAGGCCACCA-C-AAATTT
** *
34017622 TTTTTTTGAATTTTTTTTCGTATACTGGTGCCGATCAATGACACCC-CAAATGTAAAAAAAAATC
1 TTTTTTT-AA--TTTTTTCGTATACTGGTGCCGGCCAATGACACCCAAAAATGT-AAAAAAAAT-
* * * * *
34017686 TT--GTAAAGGTGGTGTCGGCCATTGACAGACCAGCACCAAATTT
61 TTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCA-CAAATTT
34017729 TTTTTT
1 TTTTTT
34017735 CCTTGTATAC
Statistics
Matches: 321, Mismatches: 48, Indels: 80
0.71 0.11 0.18
Matches are distributed among these distances:
81 2 0.01
82 11 0.03
83 39 0.12
84 2 0.01
85 4 0.01
92 2 0.01
93 1 0.00
95 12 0.04
96 12 0.04
97 2 0.01
98 1 0.00
105 7 0.02
106 74 0.23
107 47 0.15
108 74 0.23
109 11 0.03
110 20 0.06
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.35
Consensus pattern (104 bp):
TTTTTTTAATTTTTTCGTATACTGGTGCCGGCCAATGACACCCAAAAATGTAAAAAAAATTTACA
TAAAGGTGGTGCCGGCCATTGGCAGGCCACCACAAATTT
Found at i:34017936 original size:18 final size:19
Alignment explanation
Indices: 34017913--34017951 Score: 62
Period size: 18 Copynumber: 2.1 Consensus size: 19
34017903 ATTTTAGGTT
34017913 ATTTTAGTGATTTTT-TAA
1 ATTTTAGTGATTTTTATAA
*
34017931 ATTTTAGTTATTTTTATAA
1 ATTTTAGTGATTTTTATAA
34017950 AT
1 AT
34017952 ATAAAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 14 0.74
19 5 0.26
ACGTcount: A:0.31, C:0.00, G:0.08, T:0.62
Consensus pattern (19 bp):
ATTTTAGTGATTTTTATAA
Found at i:34019446 original size:110 final size:109
Alignment explanation
Indices: 34019270--34019680 Score: 401
Period size: 110 Copynumber: 3.8 Consensus size: 109
34019260 GATATACAGA
** * * * * * *
34019270 AAAAAAAAGAAAAAAAATTTTTTTGGGTGCTGGCCTGTCAATGGCCTGCACCACCTTTACG-GAA
1 AAAAAAATTAAAAAAAATTTTTTTTGGTGATGGCCTGCCAATGGCCGGCACCACCTTTATGTAAA
* * * *
34019334 TTTTTTTTTACATTTTGGAGTGTTGTTGGGCGGCACCAGTATTC
66 TTTTTTTTTACATTTTGGGGTGTTATTGGCCGACACCAGTATTC
* *
34019378 AAAAAAATTAAAAAAAAATTTTTTTTTGGTGATGGCCTGCCAATGG-CGGCATCACTTTTATGTA
1 AAAAAAATT-AAAAAAAA-TTTTTTTTGGTGATGGCCTGCCAATGGCCGGCACCACCTTTATGTA
* * *
34019442 AATTTTCTTTTTACATTTTGGGGTGTCAATGGCCGACACCTGTATAT-
64 AATTTT-TTTTTACATTTTGGGGTGTTATTGGCCGACACCAGTAT-TC
* * * * * * *
34019489 GAAAAAATT----TAAATTTTTTTTTGTGGTGACTTGCCAATGGCCGGCACCACCTTTATGTAAT
1 AAAAAAATTAAAAAAAATTTTTTTTGGTGATGGCCTGCCAATGGCCGGCACCACCTTTATGTAAA
* *
34019550 TTTTTTTTTACATTTTGGGGTGTTATTGGCCAACACCAGTATAC
66 TTTTTTTTTACATTTTGGGGTGTTATTGGCCGACACCAGTATTC
*** * * *
34019594 AAAAAAAATTTTTAAAAATTCTTTTTGGT-AGTAGCCTGCAAATGGCCGGCACCACCTTTATGT-
1 -AAAAAAATTAAAAAAAATTTTTTTTGGTGA-TGGCCTGCCAATGGCCGGCACCACCTTTATGTA
*
34019657 AA-TTTTTTTTACATTTTAGGGTGT
64 AATTTTTTTTTACATTTTGGGGTGT
34019681 CATTTTCTGG
Statistics
Matches: 248, Mismatches: 42, Indels: 26
0.78 0.13 0.08
Matches are distributed among these distances:
105 57 0.23
106 32 0.13
108 28 0.11
109 21 0.08
110 70 0.28
111 39 0.16
112 1 0.00
ACGTcount: A:0.28, C:0.15, G:0.19, T:0.38
Consensus pattern (109 bp):
AAAAAAATTAAAAAAAATTTTTTTTGGTGATGGCCTGCCAATGGCCGGCACCACCTTTATGTAAA
TTTTTTTTTACATTTTGGGGTGTTATTGGCCGACACCAGTATTC
Found at i:34019558 original size:105 final size:107
Alignment explanation
Indices: 34019284--34019682 Score: 337
Period size: 105 Copynumber: 3.7 Consensus size: 107
34019274 AAAAGAAAAA
** * * * * * *
34019284 AAATTTTTTTGGGTGCTGGCCTGTCAATGGCCTGCACCACCTTTACGGAA-TTTTTTTTTACATT
1 AAATTTTTTTTTGTGGTGACCTGCCAATGGCCGGCACCACCTTTATGTAATTTTTTTTTTACATT
* *** * ** * **
34019348 TTGGAGTGTTGTTGGGCGGCACCAGTATTC-AAAAAAATTAAAAAA
66 TTGGGGTGTCAATGGCCAACACCAGTATACAAAAAAAATT----TT
* * * * *
34019393 AAATTTTTTTTTGGTGATGGCCTGCCAATGG-CGGCATCACTTTTATGTAAATTTTCTTTTTACA
1 AAATTTTTTTTT-GTGGTGACCTGCCAATGGCCGGCACCACCTTTATGT-AATTTTTTTTTTACA
* * **
34019457 TTTTGGGGTGTCAATGGCCGACACCTGTATA-TGAAAAAA-TTT
64 TTTTGGGGTGTCAATGGCCAACACCAGTATACAAAAAAAATTTT
*
34019499 AAATTTTTTTTTGTGGTGACTTGCCAATGGCCGGCACCACCTTTATGTAATTTTTTTTTTACATT
1 AAATTTTTTTTTGTGGTGACCTGCCAATGGCCGGCACCACCTTTATGTAATTTTTTTTTTACATT
* *
34019564 TTGGGGTGTTATTGGCCAACACCAGTATACAAAAAAAATTTTT
66 TTGGGGTGTCAATGGCCAACACCAGTATACAAAAAAAA-TTTT
** * *
34019607 AAAAATTCTTTT-TGGTAGTAGCCTGCAAATGGCCGGCACCACCTTTATGTAA--TTTTTTTTAC
1 AAATTTTTTTTTGTGGT-G-A-CCTGCCAATGGCCGGCACCACCTTTATGTAATTTTTTTTTTAC
*
34019669 ATTTTAGGGTGTCA
63 ATTTTGGGGTGTCA
34019683 TTTTCTGGCA
Statistics
Matches: 239, Mismatches: 40, Indels: 23
0.79 0.13 0.08
Matches are distributed among these distances:
105 56 0.23
106 33 0.14
107 4 0.02
108 35 0.15
109 23 0.10
110 48 0.20
111 40 0.17
ACGTcount: A:0.26, C:0.16, G:0.19, T:0.39
Consensus pattern (107 bp):
AAATTTTTTTTTGTGGTGACCTGCCAATGGCCGGCACCACCTTTATGTAATTTTTTTTTTACATT
TTGGGGTGTCAATGGCCAACACCAGTATACAAAAAAAATTTT
Found at i:34019888 original size:363 final size:349
Alignment explanation
Indices: 34019437--34020166 Score: 1020
Period size: 349 Copynumber: 2.0 Consensus size: 349
34019427 CATCACTTTT
* *
34019437 ATGTAAATTTTCTTTTTACATTTTGGGGTGTCAATGGCCGACACCTGTATATGAAAAAATTTAAA
1 ATGTAAA-TTT-TTTTTACATTTTGGGGTGTCAATGGCCGACACCTGTATACGAAAAAA-TAAAA
**** * *
34019502 TTTTTTTTTGTGGTGACTTGCCAATGGCCGGCACCACCTTTATGTAATTTTTTTTTTACATTTTG
63 AAAATTTTGGTGGTGACTTGCCAATGGCCAGCACCACCTTTATGTAA--TTTTTTTTACATTTTG
* *
34019567 GGGTGTTATTGGCCAACACCAGTATACAAAAAAAATTTT-TAAAAATTCTTTTTGGTAGTAGCCT
126 GGGTGTCATTGGCCAACACCAGTATACAAAAAAAATTTTAAAAAAATTCTTTTTGGTAGTAGCCT
* ** *
34019631 GCAAATGGCCGGCACCACCTTTATGT-AA-TTTTTTTTACATTTTAGGGTGTCATTTTCTGGCAC
191 GCAAATGGCCGACACCACCTTTATGTAAATTTTTTTTTACATTTTAGGGTGTCATTGGCCGGCAC
34019694 CAGTATACG-AAAAAAAATTACATAAAGGTGGTGCCGGCCATTGGCAGGCCACCACCAATTTTTT
256 CAGTATACGAAAAAAAAATTACATAAA-----T---GGCC---GGCA--CCACCA--AA-TTTTT
*
34019758 TTTAAAATTTTTTCGTATACTGGTGCCGGCCAATGACACCCCAAA
305 TTTAAAAATTTTTCGTATACTGGTGCCGGCCAATGACACCCCAAA
** * *
34019803 ATGTAAATTTTTTTTACATTTTTTTGGTGTCATTGGCCGGCACCTGTATACGAAAAAA-AAAAAA
1 ATGTAAATTTTTTTTACA-TTTTGGGGTGTCAATGGCCGACACCTGTATACGAAAAAATAAAAAA
34019867 AATTTTGGTGGTGACTTGCCAATGGCCAGCACCACCTTTATGTAATTTTTTTTACATTTTGGGGT
65 AATTTTGGTGGTGACTTGCCAATGGCCAGCACCACCTTTATGTAATTTTTTTTACATTTTGGGGT
* * *
34019932 GTCATTGGCCGACACCAGTATACAAAAAAAATTTTAAAAAAATTCTTTTTGGTGGTGGCCTGCAA
130 GTCATTGGCCAACACCAGTATACAAAAAAAATTTTAAAAAAATTCTTTTTGGTAGTAGCCTGCAA
*
34019997 ATGGCCGACACCACCTTTATGTAAATTTTTTTTTACATTTTGGGGTGTCATTGGCCGGCACCAGT
195 ATGGCCGACACCACCTTTATGTAAATTTTTTTTTACATTTTAGGGTGTCATTGGCCGGCACCAGT
34020062 ATACGAAAAAAAAATTACATAAATGGCCGGCACCACCAAATTTTTTTTAAAAATTTTTCGTATAC
260 ATACGAAAAAAAAATTACATAAATGGCCGGCACCACCAAATTTTTTTTAAAAATTTTTCGTATAC
34020127 TGGTGCCGGCCAATGACACCCCAAA
325 TGGTGCCGGCCAATGACACCCCAAA
34020152 ATGTAAATTTTTTTT
1 ATGTAAATTTTTTTT
34020167 TTACATAAAG
Statistics
Matches: 336, Mismatches: 23, Indels: 27
0.87 0.06 0.07
Matches are distributed among these distances:
349 64 0.19
350 2 0.01
352 6 0.02
354 4 0.01
357 4 0.01
360 1 0.00
361 53 0.16
362 47 0.14
363 46 0.14
364 48 0.14
365 54 0.16
366 7 0.02
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.36
Consensus pattern (349 bp):
ATGTAAATTTTTTTTACATTTTGGGGTGTCAATGGCCGACACCTGTATACGAAAAAATAAAAAAA
ATTTTGGTGGTGACTTGCCAATGGCCAGCACCACCTTTATGTAATTTTTTTTACATTTTGGGGTG
TCATTGGCCAACACCAGTATACAAAAAAAATTTTAAAAAAATTCTTTTTGGTAGTAGCCTGCAAA
TGGCCGACACCACCTTTATGTAAATTTTTTTTTACATTTTAGGGTGTCATTGGCCGGCACCAGTA
TACGAAAAAAAAATTACATAAATGGCCGGCACCACCAAATTTTTTTTAAAAATTTTTCGTATACT
GGTGCCGGCCAATGACACCCCAAA
Found at i:34020060 original size:111 final size:102
Alignment explanation
Indices: 34019803--34020075 Score: 352
Period size: 111 Copynumber: 2.6 Consensus size: 102
34019793 ACACCCCAAA
** * *
34019803 ATGTAAATTTTTTTTACATTTTTTTGGTGTCATTGGCCGGCACCTGTATACGAAAAAAAAAAAAA
1 ATGTAAATTTTTTTTACA-TTTTGGGGTGTCATTGGCCGGCACCAGTATACAAAAAAAAAAAAAA
* *
34019868 ATTTTGGTGGTGACTTGCCAATGGCCAGCACCACCTTT
65 ATTTTGGTGGTGACCTGCAAATGGCCAGCACCACCTTT
*
34019906 ATGT-AATTTTTTTTACATTTTGGGGTGTCATTGGCCGACACCAGTATACAAAAAAAATTTTAAA
1 ATGTAAATTTTTTTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACAAAAAAAA----AAA
*
34019970 AAAATTCTTTTTGGTGGTGGCCTGCAAATGGCC-GACACCACCTTT
62 AAAA----TTTTGGTGGTGACCTGCAAATGGCCAG-CACCACCTTT
*
34020015 ATGTAAATTTTTTTTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACGAAAAAAAAA
1 ATGTAAA-TTTTTTTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACAAAAAAAAAA
34020076 TTACATAAAT
Statistics
Matches: 149, Mismatches: 10, Indels: 18
0.84 0.06 0.10
Matches are distributed among these distances:
101 35 0.23
102 13 0.09
103 4 0.03
105 7 0.05
107 2 0.01
108 1 0.01
109 36 0.24
110 2 0.01
111 49 0.33
ACGTcount: A:0.30, C:0.16, G:0.19, T:0.35
Consensus pattern (102 bp):
ATGTAAATTTTTTTTACATTTTGGGGTGTCATTGGCCGGCACCAGTATACAAAAAAAAAAAAAAA
TTTTGGTGGTGACCTGCAAATGGCCAGCACCACCTTT
Found at i:34021372 original size:24 final size:23
Alignment explanation
Indices: 34021329--34021373 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
34021319 AAGTATATAT
*
34021329 TTTTTTAAATTTTGCGAGAAAGA
1 TTTTTTAAATTTTGCAAGAAAGA
*
34021352 TTTTTTAAATTCTTTCAAGAAA
1 TTTTTTAAATT-TTGCAAGAAA
34021374 TTTCTAATAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.36, C:0.07, G:0.11, T:0.47
Consensus pattern (23 bp):
TTTTTTAAATTTTGCAAGAAAGA
Found at i:34021561 original size:17 final size:17
Alignment explanation
Indices: 34021491--34021567 Score: 59
Period size: 18 Copynumber: 4.2 Consensus size: 17
34021481 ATATTGACAA
34021491 AATATAATTTTTATTTTAT
1 AATAT-ATTTTTATTTT-T
*
34021510 AATTTATTTTTAGATTTTT
1 AATATATTTTT--ATTTTT
*
34021529 -ATAGT-TTTTAGAATTTTT
1 AATA-TATTTT--TATTTTT
34021547 AATATATTTTTATTTTT
1 AATATATTTTTATTTTT
34021564 AATA
1 AATA
34021568 CATATGGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 16
0.70 0.06 0.24
Matches are distributed among these distances:
17 10 0.21
18 19 0.40
19 13 0.28
20 5 0.11
ACGTcount: A:0.32, C:0.00, G:0.04, T:0.64
Consensus pattern (17 bp):
AATATATTTTTATTTTT
Found at i:34022083 original size:18 final size:18
Alignment explanation
Indices: 34022060--34022094 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
34022050 AAAATTTTAA
34022060 TTAAATATTTA-TATACAT
1 TTAAAT-TTTATTATACAT
34022078 TTAAATTTTATTATACA
1 TTAAATTTTATTATACA
34022095 CACTTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (18 bp):
TTAAATTTTATTATACAT
Found at i:34023595 original size:24 final size:24
Alignment explanation
Indices: 34023568--34023616 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 24
34023558 ATAGATTTGA
34023568 TTAT-GATATTTCATATAAATTTTT
1 TTATAGATATTTCATAT-AATTTTT
*
34023592 TTATAATATATTTCATATAATTTTT
1 TTAT-AGATATTTCATATAATTTTT
34023617 AAAAAACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
24 4 0.18
25 7 0.32
26 11 0.50
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.59
Consensus pattern (24 bp):
TTATAGATATTTCATATAATTTTT
Found at i:34027012 original size:38 final size:37
Alignment explanation
Indices: 34026960--34027042 Score: 150
Period size: 38 Copynumber: 2.2 Consensus size: 37
34026950 TGATCATTTC
34026960 CAAAA-AAGAATGTCTAATTTTACGATGCAATGATGG
1 CAAAAGAAGAATGTCTAATTTTACGATGCAATGATGG
34026996 CAAAAGAAGTAATGTCTAATTTTACGATGCAATGATGG
1 CAAAAGAAG-AATGTCTAATTTTACGATGCAATGATGG
34027034 CAAAAGAAG
1 CAAAAGAAG
34027043 GTTTTTTTTT
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
36 5 0.11
37 3 0.07
38 37 0.82
ACGTcount: A:0.43, C:0.11, G:0.20, T:0.25
Consensus pattern (37 bp):
CAAAAGAAGAATGTCTAATTTTACGATGCAATGATGG
Found at i:34033584 original size:7 final size:7
Alignment explanation
Indices: 34033572--34033624 Score: 106
Period size: 7 Copynumber: 7.6 Consensus size: 7
34033562 TTATATGACA
34033572 AAGCATT
1 AAGCATT
34033579 AAGCATT
1 AAGCATT
34033586 AAGCATT
1 AAGCATT
34033593 AAGCATT
1 AAGCATT
34033600 AAGCATT
1 AAGCATT
34033607 AAGCATT
1 AAGCATT
34033614 AAGCATT
1 AAGCATT
34033621 AAGC
1 AAGC
34033625 TCGCACATGC
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 46 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.26
Consensus pattern (7 bp):
AAGCATT
Found at i:34033710 original size:22 final size:22
Alignment explanation
Indices: 34033684--34033732 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
34033674 ACAACTCTGA
*
34033684 GCTCGCATCAAATTACAACAGG
1 GCTCGCATCAAAATACAACAGG
* * *
34033706 GCTCGCATGAAAATATAATAGG
1 GCTCGCATCAAAATACAACAGG
34033728 GCTCG
1 GCTCG
34033733 TATGCACATG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (22 bp):
GCTCGCATCAAAATACAACAGG
Found at i:34043223 original size:33 final size:33
Alignment explanation
Indices: 34043182--34043298 Score: 162
Period size: 33 Copynumber: 3.5 Consensus size: 33
34043172 TGTATATATG
* *
34043182 TAAGACCATAGCTGGGATATGGCATACTGATGG
1 TAAGACCATAGCTGGGCTATGGCATACTGATGA
* * * *
34043215 TAAGACCATAGTTAGGCTATAGCATTCTGATGA
1 TAAGACCATAGCTGGGCTATGGCATACTGATGA
* *
34043248 TAAGACCATAGCTGGGCTATGTCATACTAATGA
1 TAAGACCATAGCTGGGCTATGGCATACTGATGA
34043281 TAAGACCATAGCTGGGCT
1 TAAGACCATAGCTGGGCT
34043299 GTAACACCCC
Statistics
Matches: 72, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 72 1.00
ACGTcount: A:0.32, C:0.17, G:0.25, T:0.26
Consensus pattern (33 bp):
TAAGACCATAGCTGGGCTATGGCATACTGATGA
Found at i:34044717 original size:36 final size:36
Alignment explanation
Indices: 34044670--34044840 Score: 279
Period size: 36 Copynumber: 4.8 Consensus size: 36
34044660 GCTAAGCTAC
*
34044670 CACTTATCACTTTGTCACTTGATCAGATAAGTATAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
*
34044706 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
* * *
34044742 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAG
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
*
34044778 CACTTATCACTTTTTCACTTGATCAGATAAGTATAA
1 CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
*
34044814 CACTTATCACTTTGTCTCTTGATCAGA
1 CACTTATCACTTTGTCACTTGATCAGA
34044841 AGTACTCAAA
Statistics
Matches: 123, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 123 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (36 bp):
CACTTATCACTTTGTCACTTGATCAGATAAGTATAA
Found at i:34044787 original size:72 final size:72
Alignment explanation
Indices: 34044670--34044840 Score: 324
Period size: 72 Copynumber: 2.4 Consensus size: 72
34044660 GCTAAGCTAC
*
34044670 CACTTATCACTTTGTCACTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
34044735 AGTATAA
66 AGTATAA
*
34044742 CACTTATCACTTTGTCTCTTGATCAGATAAGTGTAGCACTTATCACTTTTTCACTTGATCAGATA
1 CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
34044807 AGTATAA
66 AGTATAA
34044814 CACTTATCACTTTGTCTCTTGATCAGA
1 CACTTATCACTTTGTCTCTTGATCAGA
34044841 AGTACTCAAA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
72 97 1.00
ACGTcount: A:0.29, C:0.20, G:0.12, T:0.39
Consensus pattern (72 bp):
CACTTATCACTTTGTCTCTTGATCAGATAAGTATAGCACTTATCACTTTTTCACTTGATCAGATA
AGTATAA
Found at i:34056749 original size:17 final size:20
Alignment explanation
Indices: 34056729--34056765 Score: 53
Period size: 17 Copynumber: 2.0 Consensus size: 20
34056719 TTATAATGAT
34056729 TTTTA-ATA-TAAAA-AATA
1 TTTTATATATTAAAATAATA
34056746 TTTTATATATTAAAATAATA
1 TTTTATATATTAAAATAATA
34056766 AAAGTAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
19 5 0.29
20 4 0.24
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TTTTATATATTAAAATAATA
Found at i:34057218 original size:118 final size:118
Alignment explanation
Indices: 34057047--34057290 Score: 427
Period size: 118 Copynumber: 2.1 Consensus size: 118
34057037 CGTTAAGATA
* * *
34057047 ACTAAAATTTTTATCATTCAACTAAATTAATTCTAACTAGGCACAAACCTTATTTATTATTA-TT
1 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAACCTTATTTATTATTATTT
34057111 ATTTACCCAAAATCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
66 A-TTACCCAAAATCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
*
34057165 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAATCTTATTTATTATTATTT
1 ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAACCTTATTTATTATTATTT
34057230 ATTACCCAAAATCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
66 ATTACCCAAAATCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
*
34057283 ACGAACAT
1 ACTAACAT
34057291 ATAATTATGT
Statistics
Matches: 120, Mismatches: 5, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
118 117 0.98
119 3 0.03
ACGTcount: A:0.39, C:0.17, G:0.04, T:0.40
Consensus pattern (118 bp):
ACTAACATTTTTATCATTCAACTAAATTAATTCCAACTACGCACAAACCTTATTTATTATTATTT
ATTACCCAAAATCCTTATTTATTATTAGAAATTCTATTATATCGGTAAAAACC
Found at i:34059058 original size:305 final size:303
Alignment explanation
Indices: 34058344--34059302 Score: 1349
Period size: 304 Copynumber: 3.2 Consensus size: 303
34058334 TAATTATTTG
* *
34058344 TATTTCGGCCATTTGTTCGTATTTTTTTCTCAGATTTTATTACTTT-TA-AAAAATATATTATTT
1 TATTTCGGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTT
* *
34058407 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTGT
66 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTT
* ** *
34058472 TTTAAATAAATTAAAAAAACTCTTATTTCATCCCTTTGTTCGTATTTTTTTCCTCAGATTTTATT
131 TTTAAATAAATTAAAAAAACACTTATTTCGGCCCTTTGTTCGTA-TTTTTT-CTCGGATTTTATT
* *
34058537 ACTTTTAAAAATATACTA-TTT-T-A---TA--ATTTTATATTATTTTAGTACATTATGTTTGAA
194 ACTTTAAAAAATATACTATTTTCTAATTTTATTATTTTAAATTATTTTAGTACATTATGTTTGAA
** *
34058594 ATGTATTCATTTAGTGTGTTTTTTTATTTAAATTAAAAAAAACCCT
259 ATGTATTCATTTAGTGTG-TTTTTTAAATAAATTTAAAAAAACCCT
* * *
34058640 TATTTCGGCCCTTTGTTCGTATTTTTTT-CCGGATTTTATTACTTTTAATAAAAATATATTATTT
1 TATTTCGGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTT
* *
34058704 T-TGTATTTTATTATTTTACTTTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTT
66 TCT-AATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTG-T
* * *
34058768 TTTTTAAATAAATTAAAAAAACAATTATTTTGGCCCTTTGTTCTTATTTTTTCTCGGATTTTATT
129 TTTTTAAATAAATTAAAAAAACACTTATTTCGGCCCTTTGTTCGTATTTTTTCTCGGATTTTATT
34058833 ACTTTAAAAAATATACTATTTTCTAATTTTATTATTTTAAATTATTTTAGTACATTATGTTTGAA
194 ACTTTAAAAAATATACTATTTTCTAATTTTATTATTTTAAATTATTTTAGTACATTATGTTTGAA
* *
34058898 ATGTATTCATTTAGTGTGTCTTTTAAATAAATTTAAAGAAAATCCT
259 ATGTATTCATTTAGTGTGTTTTTTAAATAAATTTAAA-AAAACCCT
* * *
34058944 TATTTCGACAATTTGTTCGTATTTTTTCCCCAGATTTTATTACTTTCAATAAAAATATATTATTT
1 TATTTCGGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTT
*
34059009 TCTAATTTTATTATTTTACATTATTTTAGTACATTATCTTTGAAATGTATTAATTTACTGTGTTT
66 TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTT
* * *
34059074 TTTAAATAAATTTAGTAAAAAACCCTTATTTCGGCCC----TTCGTATTTTTTTTCGAATTTTAT
131 TTTAAATAAA-TTA--AAAAAACACTTATTTCGGCCCTTTGTTCGTATTTTTTCTCGGATTTTAT
* * * * *
34059135 TATTTTAAAAAAATATAATATTTTCTAATTTTATTATTTTACATTATTTTATTACATTATGTTTT
193 TACTTT-AAAAAATATACTATTTTCTAATTTTATTATTTTAAATTATTTTAGTACATTATGTTTG
*
34059200 AAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTTAAAAAAGCCCT
257 AAATGTATTCATTTAGTGTGTTTTTTAAATAAA-TTTAAAAAAACCCT
* *
34059248 TATTTCGGCCCTTTGTTCGTATTTTTTTACC-GAATTTTATTACTTTCAATAAAAA
1 TATTTCGGCCATTTGTTCGTATTTTTTTCCCAG-ATTTTATTACTTTCAATAAAAA
34059303 ATACACTAAA
Statistics
Matches: 592, Mismatches: 50, Indels: 34
0.88 0.07 0.05
Matches are distributed among these distances:
295 15 0.03
296 58 0.10
297 81 0.14
298 41 0.07
299 1 0.00
302 2 0.00
303 42 0.07
304 233 0.39
305 100 0.17
306 1 0.00
307 18 0.03
ACGTcount: A:0.30, C:0.10, G:0.08, T:0.52
Consensus pattern (303 bp):
TATTTCGGCCATTTGTTCGTATTTTTTTCCCAGATTTTATTACTTTCAATAAAAATATATTATTT
TCTAATTTTATTATTTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTT
TTTAAATAAATTAAAAAAACACTTATTTCGGCCCTTTGTTCGTATTTTTTCTCGGATTTTATTAC
TTTAAAAAATATACTATTTTCTAATTTTATTATTTTAAATTATTTTAGTACATTATGTTTGAAAT
GTATTCATTTAGTGTGTTTTTTAAATAAATTTAAAAAAACCCT
Found at i:34059204 original size:149 final size:147
Alignment explanation
Indices: 34058359--34059293 Score: 1063
Period size: 149 Copynumber: 6.2 Consensus size: 147
34058349 CGGCCATTTG
34058359 TTCGTATTTTTTTCTC-AGATTTTATTACTTTTAAAAAATATATTATTTTCTAATTTTATTATTT
1 TTCGTATTTTTTT-TCGA-ATTTTATTACTTTTAAAAAATATATTATTTTCTAATTTTATTATTT
*
34058423 TACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTGTTTTAAATAAATTAAAA
64 TACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTAAAA
* **
34058488 AAACTCTTATTTCATCCCTTT
129 AAACCCTTATTTCGGCCC--T
*
34058509 GTTCGTATTTTTTTCCTC-AGATTTTATTACTTTT--AAAA-ATA-TA----CT-ATTTTATAAT
1 -TTCGTATTTTTTT--TCGA-ATTTTATTACTTTTAAAAAATATATTATTTTCTAATTTTATTAT
* * **
34058564 TTTATATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTTATTTAAATTA
62 TTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG-TTTTTTAAATAAATT-
34058629 AAAAAAACCCTTATTTCGGCCCTTT
125 AAAAAAACCCTTATTTCGGCCC--T
* * *
34058654 GTTCGTATTTTTTTCCGGATTTTATTACTTTTAATAAAAATATATTATTTT-TGTATTTTATTAT
1 -TTCGTATTTTTTTTCGAATTTTATTACTTTT-A-AAAAATATATTATTTTCT-AATTTTATTAT
* *
34058718 TTTACTTTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTGTGTTTTTTTAAATAAATTA
62 TTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTG-TTTTTTAAATAAATTA
** *
34058783 AAAAAACAATTATTTTGGCCCTTT
126 AAAAAACCCTTATTTCGGCCC--T
* * * *
34058807 GTTCTTATTTTTTCTCGGATTTTATTAC-TTTAAAAAATATACTATTTTCTAATTTTATTATTTT
1 -TTCGTATTTTTTTTCGAATTTTATTACTTTTAAAAAATATATTATTTTCTAATTTTATTATTTT
* * *
34058871 AAATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTCTTTTAAATAAATTTAAAG
65 ACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAA-TTAAA-
* * **
34058936 AAAATCCTTATTTCGACAATTT
128 AAAACCCTTATTTCGGC--CCT
** * *
34058958 GTTCGTATTTTTTCCCCAGATTTTATTACTTTCAATAAAAATATATTATTTTCTAATTTTATTAT
1 -TTCGTATTTTTTTTCGA-ATTTTATTACTTT-TA-AAAAATATATTATTTTCTAATTTTATTAT
* *
34059023 TTTACATTATTTTAGTACATTATCTTTGAAATGTATTAATTTACTGTGTTTTTTAAATAAATTTA
62 TTTACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAA-TTA
34059088 GTAAAAAACCCTTATTTCGGCCC-
126 --AAAAAACCCTTATTTCGGCCCT
*
34059111 TTCGTATTTTTTTTCGAATTTTATTA-TTTTAAAAAAATATAATATTTTCTAATTTTATTATTTT
1 TTCGTATTTTTTTTCGAATTTTATTACTTTT-AAAAAATATATTATTTTCTAATTTTATTATTTT
* * *
34059175 ACATTATTTTATTACATTATGTTTTAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTTTAAA
65 ACATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAA--TTAAA
*
34059240 AAAGCCCTTATTTCGGCCCTTT
128 AAAACCCTTATTTCGGCCC--T
*
34059262 GTTCGTATTTTTTTACCGAATTTTATTACTTT
1 -TTCGTATTTTTTT-TCGAATTTTATTACTTT
34059294 CAATAAAAAA
Statistics
Matches: 684, Mismatches: 65, Indels: 67
0.84 0.08 0.08
Matches are distributed among these distances:
143 70 0.10
144 14 0.02
145 36 0.05
147 4 0.01
148 25 0.04
149 101 0.15
150 86 0.13
151 51 0.07
152 60 0.09
153 61 0.09
154 71 0.10
155 88 0.13
156 15 0.02
157 2 0.00
ACGTcount: A:0.30, C:0.09, G:0.08, T:0.53
Consensus pattern (147 bp):
TTCGTATTTTTTTTCGAATTTTATTACTTTTAAAAAATATATTATTTTCTAATTTTATTATTTTA
CATTATTTTAGTACATTATGTTTGAAATGTATTAATTTAGTGTGTTTTTTAAATAAATTAAAAAA
ACCCTTATTTCGGCCCT
Found at i:34061706 original size:21 final size:21
Alignment explanation
Indices: 34061663--34061706 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
34061653 CCAATTAATT
* * *
34061663 AACCTATTCAAAATATGATAA
1 AACCTACTCAAAACATGACAA
*
34061684 AACCTACTCAAAACATGCCAA
1 AACCTACTCAAAACATGACAA
34061705 AA
1 AA
34061707 TAATCATCTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.52, C:0.23, G:0.05, T:0.20
Consensus pattern (21 bp):
AACCTACTCAAAACATGACAA
Found at i:34062979 original size:17 final size:17
Alignment explanation
Indices: 34062948--34062980 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
34062938 TACCAAATCA
34062948 ATAACATTCAATCAACT
1 ATAACATTCAATCAACT
34062965 ATAA-ATTCAATTCAAC
1 ATAACATTCAA-TCAAC
34062981 CTCAAAGTAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.48, C:0.21, G:0.00, T:0.30
Consensus pattern (17 bp):
ATAACATTCAATCAACT
Found at i:34065798 original size:9 final size:9
Alignment explanation
Indices: 34065779--34065815 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
34065769 TGAGTTTTCG
*
34065779 AATTTGAAT
1 AATTCGAAT
*
34065788 AACTCGAAT
1 AATTCGAAT
34065797 AATTCGAAT
1 AATTCGAAT
34065806 AATTCGAAT
1 AATTCGAAT
34065815 A
1 A
34065816 TCAAACTATA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:34066741 original size:5 final size:5
Alignment explanation
Indices: 34066731--34066756 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
34066721 GAACAAATAT
34066731 ATTCG ATTCG ATTCG ATTCG ATTCG A
1 ATTCG ATTCG ATTCG ATTCG ATTCG A
34066757 ATTCCATCTC
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:0.23, C:0.19, G:0.19, T:0.38
Consensus pattern (5 bp):
ATTCG
Found at i:34073944 original size:23 final size:22
Alignment explanation
Indices: 34073917--34073968 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
34073907 ATATCCATCG
34073917 GTTTATTCGATCTATCTTCTATTT
1 GTTTATTCGATC-AT-TTCTATTT
* *
34073941 -TTTATTCTATCATTTTTATTT
1 GTTTATTCGATCATTTCTATTT
34073962 GTTTATT
1 GTTTATT
34073969 ATTTTGAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 7 0.28
22 8 0.32
23 10 0.40
ACGTcount: A:0.17, C:0.12, G:0.06, T:0.65
Consensus pattern (22 bp):
GTTTATTCGATCATTTCTATTT
Found at i:34076402 original size:5 final size:5
Alignment explanation
Indices: 34076392--34076416 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
34076382 TCCTATTATC
34076392 ATTTT ATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT ATTTT
34076417 CAAATTTTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
ATTTT
Found at i:34078749 original size:20 final size:20
Alignment explanation
Indices: 34078724--34078767 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
34078714 AACATTAAAT
*
34078724 TAAATTTGATATTAAGA-TAA
1 TAAATTTAATATTAA-ATTAA
34078744 TAAATTTAATATTAAATTAA
1 TAAATTTAATATTAAATTAA
34078764 TAAA
1 TAAA
34078768 ATACTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.55, C:0.00, G:0.05, T:0.41
Consensus pattern (20 bp):
TAAATTTAATATTAAATTAA
Found at i:34081147 original size:22 final size:23
Alignment explanation
Indices: 34081122--34081170 Score: 66
Period size: 22 Copynumber: 2.2 Consensus size: 23
34081112 ATCAGCTTCT
34081122 TTAATAC-ACCTATTAAGACACA
1 TTAATACGACCTATTAAGACACA
* *
34081144 TTAA-ACGACTTATTAGGACACA
1 TTAATACGACCTATTAAGACACA
34081166 TTAAT
1 TTAAT
34081171 CATACCAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.43, C:0.18, G:0.08, T:0.31
Consensus pattern (23 bp):
TTAATACGACCTATTAAGACACA
Found at i:34093354 original size:13 final size:13
Alignment explanation
Indices: 34093321--34093364 Score: 52
Period size: 13 Copynumber: 3.3 Consensus size: 13
34093311 TTTAATTGAC
*
34093321 AAATTAATGTAGTT
1 AAATTAAT-TAATT
*
34093335 AAGTTAATTAATT
1 AAATTAATTAATT
*
34093348 AAATTAATTATTT
1 AAATTAATTAATT
34093361 AAAT
1 AAAT
34093365 AAATAATATT
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
13 19 0.73
14 7 0.27
ACGTcount: A:0.48, C:0.00, G:0.07, T:0.45
Consensus pattern (13 bp):
AAATTAATTAATT
Found at i:34097887 original size:20 final size:19
Alignment explanation
Indices: 34097855--34097909 Score: 60
Period size: 20 Copynumber: 2.8 Consensus size: 19
34097845 TAGACATTGA
34097855 TAAAAAAAT-TAAA-AATCTT
1 TAAAAAAATATAAATAA--TT
34097874 TAAAAAAATATAAATTAATT
1 TAAAAAAATATAAA-TAATT
34097894 TAAAAAAAGTATAAAT
1 TAAAAAAA-TATAAAT
34097910 TTTTGGACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
19 9 0.28
20 15 0.47
21 6 0.19
22 2 0.06
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.31
Consensus pattern (19 bp):
TAAAAAAATATAAATAATT
Found at i:34101633 original size:4 final size:4
Alignment explanation
Indices: 34101617--34101685 Score: 54
Period size: 4 Copynumber: 17.8 Consensus size: 4
34101607 TCAAAATTGA
* * * **
34101617 AAAT AAGT AAAT AAAT AAAT -ATT AAAT GAAAT -ATT AAAT AAA- ATTT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT -AAAT AAAT AAAT AAAT AAAT
*
34101663 TAAT AAAT AAAT AAAT AAAT AAA
1 AAAT AAAT AAAT AAAT AAAT AAA
34101686 AACAATTAAA
Statistics
Matches: 49, Mismatches: 12, Indels: 8
0.71 0.17 0.12
Matches are distributed among these distances:
3 5 0.10
4 40 0.82
5 4 0.08
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (4 bp):
AAAT
Found at i:34101648 original size:12 final size:11
Alignment explanation
Indices: 34101628--34101683 Score: 60
Period size: 12 Copynumber: 4.9 Consensus size: 11
34101618 AATAAGTAAA
34101628 TAAATAAATAT
1 TAAATAAATAT
34101639 TAAATGAAATAT
1 TAAAT-AAATAT
34101651 TAAATAAA-ATT
1 TAAATAAATA-T
* *
34101662 TTAATAAATAAA
1 TAAATAAAT-AT
34101674 TAAATAAATA
1 TAAATAAATA
34101684 AAAACAATTA
Statistics
Matches: 38, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
10 1 0.03
11 17 0.45
12 19 0.50
13 1 0.03
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (11 bp):
TAAATAAATAT
Found at i:34106700 original size:15 final size:16
Alignment explanation
Indices: 34106666--34106705 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
34106656 TATATATTCT
34106666 TTTTATTTTAAATTAG
1 TTTTATTTTAAATTAG
*
34106682 TTTTATTTTAATTTA-
1 TTTTATTTTAAATTAG
*
34106697 TTTTCTTTT
1 TTTTATTTT
34106706 CCCAAATCCC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.36
16 14 0.64
ACGTcount: A:0.23, C:0.03, G:0.03, T:0.72
Consensus pattern (16 bp):
TTTTATTTTAAATTAG
Found at i:34107162 original size:51 final size:51
Alignment explanation
Indices: 34107102--34107203 Score: 204
Period size: 51 Copynumber: 2.0 Consensus size: 51
34107092 CTCTGAGTAA
34107102 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
1 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
34107153 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
1 GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
34107204 TTTCACTATG
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 51 1.00
ACGTcount: A:0.22, C:0.08, G:0.20, T:0.51
Consensus pattern (51 bp):
GTGTTCTTTATTAGATTCTTTCTAGAGGATTTTGATGAATGAATTGTTTCT
Found at i:34109422 original size:240 final size:240
Alignment explanation
Indices: 34108999--34109480 Score: 955
Period size: 240 Copynumber: 2.0 Consensus size: 240
34108989 ATGCATCTAT
*
34108999 AAAATAATCACATGCGTTATCAACTCACAACCTGTCATTTGTGAGATTGCTTGTTTAAATGATTA
1 AAAATAATCACATACGTTATCAACTCACAACCTGTCATTTGTGAGATTGCTTGTTTAAATGATTA
34109064 ATTTCAAATTATGTAACTAAAACAATTCAACTTGCTAATGTTGGTGAGTTTACATCCTAAGTTTT
66 ATTTCAAATTATGTAACTAAAACAATTCAACTTGCTAATGTTGGTGAGTTTACATCCTAAGTTTT
34109129 CAATGATTATTGCATGTCAATTGGGATAAAAGTTGAACATCCTGTAGCTCATGTTCACACACAAA
131 CAATGATTATTGCATGTCAATTGGGATAAAAGTTGAACATCCTGTAGCTCATGTTCACACACAAA
34109194 ATGATTTAGTTGAATTATTTATCAAATGCCTCCAACTAATAGCTA
196 ATGATTTAGTTGAATTATTTATCAAATGCCTCCAACTAATAGCTA
34109239 AAAATAATCACATACGTTATCAACTCACAACCTGTCATTTGTGAGATTGCTTGTTTAAATGATTA
1 AAAATAATCACATACGTTATCAACTCACAACCTGTCATTTGTGAGATTGCTTGTTTAAATGATTA
34109304 ATTTCAAATTATGTAACTAAAACAATTCAACTTGCTAATGTTGGTGAGTTTACATCCTAAGTTTT
66 ATTTCAAATTATGTAACTAAAACAATTCAACTTGCTAATGTTGGTGAGTTTACATCCTAAGTTTT
34109369 CAATGATTATTGCATGTCAATTGGGATAAAAGTTGAACATCCTGTAGCTCATGTTCACACACAAA
131 CAATGATTATTGCATGTCAATTGGGATAAAAGTTGAACATCCTGTAGCTCATGTTCACACACAAA
34109434 ATGATTTAGTTGAATTATTTATCAAATGCCTCCAACTAATAGCTA
196 ATGATTTAGTTGAATTATTTATCAAATGCCTCCAACTAATAGCTA
34109479 AA
1 AA
34109481 TCATTACTTA
Statistics
Matches: 241, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
240 241 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (240 bp):
AAAATAATCACATACGTTATCAACTCACAACCTGTCATTTGTGAGATTGCTTGTTTAAATGATTA
ATTTCAAATTATGTAACTAAAACAATTCAACTTGCTAATGTTGGTGAGTTTACATCCTAAGTTTT
CAATGATTATTGCATGTCAATTGGGATAAAAGTTGAACATCCTGTAGCTCATGTTCACACACAAA
ATGATTTAGTTGAATTATTTATCAAATGCCTCCAACTAATAGCTA
Found at i:34118077 original size:40 final size:40
Alignment explanation
Indices: 34118032--34118227 Score: 311
Period size: 40 Copynumber: 4.9 Consensus size: 40
34118022 GTGTTTCAGC
** * * * *
34118032 TGGATTAGCTCCGATGAGCTTCGGCCTGTTGTGTTTCGGT
1 TGGATTAGCTCTTATGAGCTTCTGTCTGGTGTGTTTCGAT
34118072 TGGATTAGCTCTTATGAGCTTCTGTCTGGTGTGTTTCGAT
1 TGGATTAGCTCTTATGAGCTTCTGTCTGGTGTGTTTCGAT
* *
34118112 TGGATTAGCTCTTATAAGCTTCTTTCTGGTGTGTTTCGAT
1 TGGATTAGCTCTTATGAGCTTCTGTCTGGTGTGTTTCGAT
34118152 TGGATTAGCTCTTATGAGCTTCTGTCTGGTGTGTTTCGAT
1 TGGATTAGCTCTTATGAGCTTCTGTCTGGTGTGTTTCGAT
*
34118192 TGGATTAGCTCTTATGAGCTTCTGTTTGGTGTGTTT
1 TGGATTAGCTCTTATGAGCTTCTGTCTGGTGTGTTT
34118228 GGTTGATCTG
Statistics
Matches: 145, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 145 1.00
ACGTcount: A:0.12, C:0.15, G:0.28, T:0.45
Consensus pattern (40 bp):
TGGATTAGCTCTTATGAGCTTCTGTCTGGTGTGTTTCGAT
Found at i:34123299 original size:19 final size:19
Alignment explanation
Indices: 34123272--34123309 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
34123262 TTACAACCAA
34123272 TTTTCATTTTATACAATTT
1 TTTTCATTTTATACAATTT
* *
34123291 TTTTTATTTTATTCAATTT
1 TTTTCATTTTATACAATTT
34123310 AGTTCTTAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.08, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTTCATTTTATACAATTT
Found at i:34126473 original size:26 final size:26
Alignment explanation
Indices: 34126402--34126558 Score: 127
Period size: 27 Copynumber: 5.9 Consensus size: 26
34126392 AGACCCTCAA
*** *
34126402 TTTGTAAAATTACCGGAATACCCCTG
1 TTTGTAAAATTACTAAAATACCCCAG
* * *
34126428 ATTTGCAAAATTATTGAAATACCCCAG
1 -TTTGTAAAATTACTAAAATACCCCAG
* *
34126455 TGTGTAAAATTACTAAAATATCCCCAA
1 TTTGTAAAATTACTAAAATA-CCCCAG
*
34126482 TTTGTAAAATTA-TCAAAACACCCCAG
1 TTTGTAAAATTACT-AAAATACCCCAG
* * * *
34126508 ACTTGTGAAATTACCAAAATACCTCTAG
1 -TTTGTAAAATTACTAAAATACC-CCAG
*
34126536 TTTGTGAAATTACTAAAATACCC
1 TTTGTAAAATTACTAAAATACCC
34126559 TTGTAGAGTA
Statistics
Matches: 105, Mismatches: 20, Indels: 11
0.77 0.15 0.08
Matches are distributed among these distances:
26 23 0.22
27 79 0.75
28 3 0.03
ACGTcount: A:0.39, C:0.20, G:0.10, T:0.30
Consensus pattern (26 bp):
TTTGTAAAATTACTAAAATACCCCAG
Found at i:34126604 original size:27 final size:27
Alignment explanation
Indices: 34126551--34126604 Score: 63
Period size: 27 Copynumber: 2.0 Consensus size: 27
34126541 GAAATTACTA
* ** *
34126551 AAATACCCTTGTAGAGTAGGATTACCG
1 AAATACCCTTATAGAGTAAAATGACCG
*
34126578 AAATACCCTTATAGGGTAAAATGACCG
1 AAATACCCTTATAGAGTAAAATGACCG
34126605 TTTTGCCCTT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.20, T:0.24
Consensus pattern (27 bp):
AAATACCCTTATAGAGTAAAATGACCG
Found at i:34127070 original size:28 final size:28
Alignment explanation
Indices: 34127018--34127081 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
34127008 TACTGCATAA
* *
34127018 TGTTTCTGTATTGGGCGAAGGCCCACCT
1 TGTTTCTGTATTGGGCGAAAGCCCACAT
* *
34127046 TGTTTCTGTATTGGGCTAAATCCCACAT
1 TGTTTCTGTATTGGGCGAAAGCCCACAT
34127074 TG-TTCTGT
1 TGTTTCTGT
34127082 TCTGTTACTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 6 0.19
28 26 0.81
ACGTcount: A:0.16, C:0.22, G:0.23, T:0.39
Consensus pattern (28 bp):
TGTTTCTGTATTGGGCGAAAGCCCACAT
Found at i:34130212 original size:55 final size:55
Alignment explanation
Indices: 34130146--34130269 Score: 203
Period size: 55 Copynumber: 2.3 Consensus size: 55
34130136 TGTCGCAGAT
**
34130146 CGTGTGCCAAACCAAGTGTGCATTTTATGTTGGGTCACACAACCATGTCCTAGGC
1 CGTGTGCCAAACCAAGTGTGCATTCGATGTTGGGTCACACAACCATGTCCTAGGC
** *
34130201 CGTGTGCCAAACCGTGTGTGCATTCGATGTTGGGTCACACAACCATGTCGTAGGC
1 CGTGTGCCAAACCAAGTGTGCATTCGATGTTGGGTCACACAACCATGTCCTAGGC
34130256 CGTGTGCCAAACCA
1 CGTGTGCCAAACCA
34130270 TGTTACATAC
Statistics
Matches: 63, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
55 63 1.00
ACGTcount: A:0.23, C:0.27, G:0.26, T:0.25
Consensus pattern (55 bp):
CGTGTGCCAAACCAAGTGTGCATTCGATGTTGGGTCACACAACCATGTCCTAGGC
Found at i:34131785 original size:16 final size:17
Alignment explanation
Indices: 34131753--34131785 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
34131743 ATCATTACAC
34131753 AAATATTTATGTAACAT
1 AAATATTTATGTAACAT
34131770 AAATATTTAT-TAACAT
1 AAATATTTATGTAACAT
34131786 TACATACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.48, C:0.06, G:0.03, T:0.42
Consensus pattern (17 bp):
AAATATTTATGTAACAT
Found at i:34133933 original size:29 final size:29
Alignment explanation
Indices: 34133878--34133933 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
34133868 TAACAAAGTA
* *
34133878 AACGTGAGTAACGTGAAGGGGATGAGGAG
1 AACGTGAGTAACGTGAAGGAGAGGAGGAG
34133907 AACGTGAGTAACGTG-AGAGAGAGGAGG
1 AACGTGAGTAACGTGAAG-GAGAGGAGG
34133934 GGGACTTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.36, C:0.07, G:0.45, T:0.12
Consensus pattern (29 bp):
AACGTGAGTAACGTGAAGGAGAGGAGGAG
Found at i:34140524 original size:26 final size:26
Alignment explanation
Indices: 34140488--34140538 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
34140478 TGGAATAAAA
34140488 AGGGGTCGCTAAGTG-TAGATTCCCCG
1 AGGGGTCGCTAAGTGCT-GATTCCCCG
*
34140514 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTCGCTAAGTGCTGATTCCCC
34140539 AAATTATTGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
26 22 0.96
27 1 0.04
ACGTcount: A:0.18, C:0.24, G:0.33, T:0.25
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCTGATTCCCCG
Found at i:34140620 original size:43 final size:42
Alignment explanation
Indices: 34140514--34140835 Score: 277
Period size: 42 Copynumber: 7.6 Consensus size: 42
34140504 AGATTCCCCG
** ** * *
34140514 AGGGGTTGCTAAGTGCTGATTCC-CCAAAT-TATTGGCTCTAG
1 AGGGGTTGCTAAGTGCTGATTCCACCGTATCT-TTGATTGTAA
34140555 AGGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGT-AA
* * *
34140599 AGGGGTTGCTATGTGCTGATTCC-CCGTAT-TATTGAATATAA
1 AGGGGTTGCTAAGTGCTGATTCCACCGTATCT-TTGATTGTAA
*
34140640 ATGTGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTGAA
1 A-GGGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGT-AA
* ** * *
34140684 AGGGGTTGCTATGTGCTGATTCC-CTATAT-TATTGAATATAA
1 AGGGGTTGCTAAGTGCTGATTCCACCGTATCT-TTGATTGTAA
* * *
34140725 AGGTGGTTTCTAAGTGTTGATTCCACTGTATCTTTGATTGTGAA
1 AGG-GGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGT-AA
* *
34140769 A-GGGTTGCTATGTGCTGATTCC-CCGTATCATTGAATT-T-A
1 AGGGGTTGCTAAGTGCTGATTCCACCGTATCTTTG-ATTGTAA
* *
34140808 AGGTAGTTGCTAAGTGCTGAATCCACCG
1 AGG-GGTTGCTAAGTGCTGATTCCACCG
34140836 AGTAACGGTT
Statistics
Matches: 230, Mismatches: 33, Indels: 35
0.77 0.11 0.12
Matches are distributed among these distances:
39 2 0.01
40 1 0.00
41 40 0.17
42 102 0.44
43 72 0.31
44 13 0.06
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (42 bp):
AGGGGTTGCTAAGTGCTGATTCCACCGTATCTTTGATTGTAA
Found at i:34140657 original size:85 final size:85
Alignment explanation
Indices: 34140514--34140835 Score: 477
Period size: 85 Copynumber: 3.8 Consensus size: 85
34140504 AGATTCCCCG
* * ** * *
34140514 AGGGGTTGCTAAGTGCTGATTCCCCAAATTATTGGCTCTAGAGGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
34140579 ACCGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
* *
34140599 AGGGGTTGCTATGTGCTGATTCCCCGTATTATTGAATATAAATGTGGTTGCTAAGTGCTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
34140664 ACCGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
* * *
34140684 AGGGGTTGCTATGTGCTGATTCCCTATATTATTGAATATAAAGGTGGTTTCTAAGTGTTGATTCC
1 AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
*
34140749 ACTGTATCTTTGATTGTGAA
66 ACCGTATCTTTGATTGTGAA
* * * * *
34140769 A-GGGTTGCTATGTGCTGATTCCCCGTATCATTGAAT-TTAAGGTAGTTGCTAAGTGCTGAATCC
1 AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
34140832 ACCG
66 ACCG
34140836 AGTAACGGTT
Statistics
Matches: 214, Mismatches: 23, Indels: 2
0.90 0.10 0.01
Matches are distributed among these distances:
83 25 0.12
84 32 0.15
85 157 0.73
ACGTcount: A:0.22, C:0.16, G:0.25, T:0.37
Consensus pattern (85 bp):
AGGGGTTGCTATGTGCTGATTCCCCATATTATTGAATATAAAGGTGGTTGCTAAGTGCTGATTCC
ACCGTATCTTTGATTGTGAA
Found at i:34151871 original size:66 final size:66
Alignment explanation
Indices: 34151763--34151894 Score: 228
Period size: 66 Copynumber: 2.0 Consensus size: 66
34151753 CCAAAGGGGA
* * *
34151763 AATTGAAGCTTAAACACTTAACTAGCAAGCTCATTCTTACACATGTTGAGCGAAAATTTTATTTA
1 AATTGAAGCTTAAACACTGAACTAGCAAGCTCATTCTAACACATGTTGAGCGAAAATATTATTTA
34151828 T
66 T
*
34151829 AATTGAAGCTTAACCACTGAACTAGCAAGCTCATTCTAACACATGTTGAGCGAAAATATTATTTA
1 AATTGAAGCTTAAACACTGAACTAGCAAGCTCATTCTAACACATGTTGAGCGAAAATATTATTTA
34151894 T
66 T
34151895 GCCAGAGGAT
Statistics
Matches: 62, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
66 62 1.00
ACGTcount: A:0.37, C:0.17, G:0.13, T:0.33
Consensus pattern (66 bp):
AATTGAAGCTTAAACACTGAACTAGCAAGCTCATTCTAACACATGTTGAGCGAAAATATTATTTA
T
Found at i:34155405 original size:28 final size:28
Alignment explanation
Indices: 34155373--34155451 Score: 140
Period size: 28 Copynumber: 2.8 Consensus size: 28
34155363 GTAATAGTAT
*
34155373 AGTGTGGGCCTTAGCCCAATATAATAAA
1 AGTGTGGGCCTTAGCCCAATACAATAAA
*
34155401 AGTGTGGGCCTTAGCCCAATACAATAAT
1 AGTGTGGGCCTTAGCCCAATACAATAAA
34155429 AGTGTGGGCCTTAGCCCAATACA
1 AGTGTGGGCCTTAGCCCAATACA
34155452 GTATCAATTT
Statistics
Matches: 49, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 49 1.00
ACGTcount: A:0.32, C:0.22, G:0.23, T:0.24
Consensus pattern (28 bp):
AGTGTGGGCCTTAGCCCAATACAATAAA
Found at i:34155609 original size:26 final size:26
Alignment explanation
Indices: 34155562--34155615 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 26
34155552 AATACACCAA
* * *
34155562 TATCGCAGCAAAGCTACTAGTAATAG
1 TATCACAGCAAAGCTACCAGTAACAG
* *
34155588 TATCACAGCGAAGCTGCCAGTAACAG
1 TATCACAGCAAAGCTACCAGTAACAG
34155614 TA
1 TA
34155616 AATGTTGCAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.37, C:0.22, G:0.20, T:0.20
Consensus pattern (26 bp):
TATCACAGCAAAGCTACCAGTAACAG
Found at i:34155837 original size:27 final size:25
Alignment explanation
Indices: 34155791--34155920 Score: 104
Period size: 27 Copynumber: 4.9 Consensus size: 25
34155781 CATTTCATCT
**
34155791 CCTA-GGGGTATAACAGTCATTTTA
1 CCTATGGGGTATTTCAGTCATTTTA
*
34155815 CTCTATGGGGATATTT-TGATCATTTTA
1 C-CTATGGGG-TATTTCAG-TCATTTTA
34155842 CCATATGGTGGTATTTCAGTCATTTTA
1 CC-TATGG-GGTATTTCAGTCATTTTA
* *
34155869 CCCTATGGGGGTAATTCAGTTATTTTA
1 -CCTAT-GGGGTATTTCAGTCATTTTA
34155896 CCCTATGGGGGTATTT-ATGTCATTT
1 -CCTAT-GGGGTATTTCA-GTCATTT
34155921 ATTAGCCTCT
Statistics
Matches: 88, Mismatches: 8, Indels: 17
0.78 0.07 0.15
Matches are distributed among these distances:
24 1 0.01
25 3 0.03
26 7 0.08
27 70 0.80
28 7 0.08
ACGTcount: A:0.22, C:0.15, G:0.21, T:0.42
Consensus pattern (25 bp):
CCTATGGGGTATTTCAGTCATTTTA
Found at i:34155894 original size:54 final size:54
Alignment explanation
Indices: 34155795--34155920 Score: 139
Period size: 54 Copynumber: 2.3 Consensus size: 54
34155785 TCATCTCCTA
** * **
34155795 GGGGTATAACAGTCATTTTACTCTATGGGGATATTTTGATCATTTTACCATATG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGATATTCAGATCATTTTACCATATG
* * * *
34155849 GTGGTATTTCAGTCATTTTACCCTATGGGGGTAATTCAG-TTATTTTACCCTATG
1 GGGGTATTTCAGTCATTTTACCCTATGGGGAT-ATTCAGATCATTTTACCATATG
34155903 GGGGTATTT-ATGTCATTT
1 GGGGTATTTCA-GTCATTT
34155921 ATTAGCCTCT
Statistics
Matches: 60, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
53 1 0.02
54 55 0.92
55 4 0.07
ACGTcount: A:0.22, C:0.13, G:0.21, T:0.43
Consensus pattern (54 bp):
GGGGTATTTCAGTCATTTTACCCTATGGGGATATTCAGATCATTTTACCATATG
Found at i:34165240 original size:14 final size:14
Alignment explanation
Indices: 34165221--34165264 Score: 58
Period size: 14 Copynumber: 3.3 Consensus size: 14
34165211 TAATTTTTAT
34165221 ATTATATAATATAA
1 ATTATATAATATAA
34165235 ATTATATAATAT--
1 ATTATATAATATAA
34165247 ATTATATAA-ATAGA
1 ATTATATAATATA-A
34165261 ATTA
1 ATTA
34165265 GTATTGAAAC
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 2 0.07
12 9 0.33
14 16 0.59
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (14 bp):
ATTATATAATATAA
Found at i:34165247 original size:21 final size:21
Alignment explanation
Indices: 34165218--34165257 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
34165208 ATTTAATTTT
*
34165218 TATATTATATAATATAAATTA
1 TATAATATATAATATAAATTA
*
34165239 TATAATATATTATATAAAT
1 TATAATATATAATATAAAT
34165258 AGAATTAGTA
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:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (21 bp):
TATAATATATAATATAAATTA
Found at i:34165250 original size:12 final size:12
Alignment explanation
Indices: 34165218--34165255 Score: 58
Period size: 12 Copynumber: 3.0 Consensus size: 12
34165208 ATTTAATTTT
34165218 TATATTATATAA
1 TATATTATATAA
34165230 TATAAATTATATAA
1 TAT--ATTATATAA
34165244 TATATTATATAA
1 TATATTATATAA
34165256 ATAGAATTAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
12 12 0.50
14 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (12 bp):
TATATTATATAA
Found at i:34166959 original size:10 final size:11
Alignment explanation
Indices: 34166934--34166959 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
34166924 TGTATGTTTC
34166934 TTTTTTAAATA
1 TTTTTTAAATA
34166945 TTTTTTAAATA
1 TTTTTTAAATA
34166956 TTTT
1 TTTT
34166960 ATTATATTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTTTAAATA
Found at i:34173792 original size:39 final size:41
Alignment explanation
Indices: 34173697--34173880 Score: 208
Period size: 40 Copynumber: 4.6 Consensus size: 41
34173687 TTGAATGATG
*
34173697 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
34173736 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
34173776 TCCGGGCTAAG-CCCGAAGGCATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* *
34173815 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
34173855 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34173881 AACGAGGAGC
Statistics
Matches: 126, Mismatches: 9, Indels: 19
0.82 0.06 0.12
Matches are distributed among these distances:
39 54 0.43
40 61 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:34173832 original size:79 final size:81
Alignment explanation
Indices: 34173697--34173880 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 81
34173687 TTGAATGATG
34173697 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
34173760 TGTGCGAGA-TACTA-A
66 TGTGCGA-ATTACTATA
* * **
34173775 TTCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAA-ATCCGGGTTAAG-TCCCGAAGGC
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGAC-AATATCCGGACTAAGAT-CCGAAGGC
34173836 ATTTGTGCGAATTACTATA
63 ATTTGTGCGAATTACTATA
* *
34173855 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34173881 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 6, Indels: 13
0.83 0.05 0.12
Matches are distributed among these distances:
78 11 0.12
79 58 0.63
80 23 0.25
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCTAAGTGACAATATCCGGACTAAGATCCGAAGGCATT
TGTGCGAATTACTATA
Found at i:34173902 original size:79 final size:79
Alignment explanation
Indices: 34173749--34173913 Score: 194
Period size: 79 Copynumber: 2.1 Consensus size: 79
34173739 GGACTAAGAT
* ** *
34173749 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
*
34173814 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
*
34173828 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
34173890 CTATATCC-GGTTAAATT
62 CTAAATCCGGGTTAAATC
34173907 CCGAAGG
1 CCGAAGG
34173914 TACGTGATTT
Statistics
Matches: 74, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.62
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCCGGGTTAAATC
Found at i:34181828 original size:39 final size:41
Alignment explanation
Indices: 34181733--34181916 Score: 190
Period size: 40 Copynumber: 4.6 Consensus size: 41
34181723 TTGAATGATG
*
34181733 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTAAGTGAC-AATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGT-ACTAATA
*
34181772 TCCGGACTAAGAT-CCGAAGGCATTTGTGCG-AGATACTAAT-
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAAG-TACTAATA
*
34181812 TCCGGGCTAAG-CCCGAAGGTATTTGTGCG-AGTTACTAA-A
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAG-TACTAATA
* * *
34181851 TCTGGGTTAAGTCCCGAAGGCATTTGTGCGAATTACT-ATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
* *
34181891 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
34181917 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 13, Indels: 19
0.79 0.08 0.12
Matches are distributed among these distances:
39 52 0.43
40 59 0.48
41 11 0.09
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (41 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAAGTACTAATA
Found at i:34181938 original size:79 final size:79
Alignment explanation
Indices: 34181785--34181949 Score: 176
Period size: 79 Copynumber: 2.1 Consensus size: 79
34181775 GGACTAAGAT
* * ** *
34181785 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGTATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
* *
34181850 ATCTGGGTTAAGTC
66 ATCTCGGTTAAATC
*
34181864 CCGAAGGCATTTGTGCGA-ATTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAG
1 CCGAAGGCATTTGTGCGAGA-TACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTGA-
* *
34181926 CTATATC-CGGTTAAATT
62 CTAAATCTCGGTTAAATC
34181943 CCGAAGG
1 CCGAAGG
34181950 TACGTGATTT
Statistics
Matches: 72, Mismatches: 10, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
78 3 0.04
79 46 0.64
80 23 0.32
ACGTcount: A:0.27, C:0.20, G:0.27, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTGACTAA
ATCTCGGTTAAATC
Found at i:34192263 original size:23 final size:22
Alignment explanation
Indices: 34192233--34192275 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
34192223 CTTAGTTAAC
34192233 ATTTATGT-TACTATTAATGTAAA
1 ATTTATGTATA-TATT-ATGTAAA
34192256 ATTTATGTATATATTATGTA
1 ATTTATGTATATATTATGTA
34192276 TTTTGAGCCA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATGTATATATTATGTAAA
Found at i:34208813 original size:31 final size:30
Alignment explanation
Indices: 34208778--34208872 Score: 91
Period size: 26 Copynumber: 3.4 Consensus size: 30
34208768 AATATAAGTA
34208778 ATGTAAATATAATTAAAATATATAATTTAGT
1 ATGTAAATATAATTAAAATATATAA-TTAGT
* *
34208809 ATGTAAA-AT-CTTAAAATATAT-A-TAAT
1 ATGTAAATATAATTAAAATATATAATTAGT
34208835 ATGTAAATA-AATT-AAAT-TA-AATATAGT
1 ATGTAAATATAATTAAAATATATAAT-TAGT
34208862 AT-TAAATATAA
1 ATGTAAATATAA
34208873 ATATTAAAAA
Statistics
Matches: 54, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
25 3 0.06
26 20 0.37
27 10 0.19
28 1 0.02
29 11 0.20
30 2 0.04
31 7 0.13
ACGTcount: A:0.55, C:0.01, G:0.05, T:0.39
Consensus pattern (30 bp):
ATGTAAATATAATTAAAATATATAATTAGT
Found at i:34208902 original size:24 final size:24
Alignment explanation
Indices: 34208840--34208894 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
34208830 ATAATATGTA
*
34208840 AATAAAT-T-AAATTAAATATAGT
1 AATAAATATAAAATTAAAAATAGT
*
34208862 ATTAAATATAAATATTAAAAATA-T
1 AATAAATATAAA-ATTAAAAATAGT
34208886 AATAAATAT
1 AATAAATAT
34208895 TGAAATTATA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
22 6 0.22
23 1 0.04
24 11 0.41
25 9 0.33
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (24 bp):
AATAAATATAAAATTAAAAATAGT
Found at i:34209055 original size:66 final size:63
Alignment explanation
Indices: 34208985--34209118 Score: 175
Period size: 66 Copynumber: 2.1 Consensus size: 63
34208975 TTTGTTGAGA
*
34208985 ATTCATTATATAATGAATTTA-TAAACATTCAATCAA-TA-ACTAACCCAAAATTGATAATTCAT
1 ATTCATTATATAATGAA-TTACAAAACATTCAATCAATTAGA-T-A---AAAATTGATAATTCAT
34209047 TGAC
60 TGAC
*
34209051 ATTCATTATATAATGAATTACAAAACATTCAATCAATTAGATAAAATTTGATAATTCATTGAC
1 ATTCATTATATAATGAATTACAAAACATTCAATCAATTAGATAAAAATTGATAATTCATTGAC
34209114 ATTCA
1 ATTCA
34209119 ATCAATAATC
Statistics
Matches: 63, Mismatches: 2, Indels: 9
0.85 0.03 0.12
Matches are distributed among these distances:
63 24 0.38
65 3 0.05
66 32 0.51
67 3 0.05
68 1 0.02
ACGTcount: A:0.46, C:0.13, G:0.05, T:0.36
Consensus pattern (63 bp):
ATTCATTATATAATGAATTACAAAACATTCAATCAATTAGATAAAAATTGATAATTCATTGAC
Found at i:34211475 original size:25 final size:25
Alignment explanation
Indices: 34211447--34211509 Score: 83
Period size: 25 Copynumber: 2.5 Consensus size: 25
34211437 ACCTCAAAAA
*
34211447 CCAAACCCAAACCC-AACCCACAACC
1 CCAAACCCAAACCCTAAACC-CAACC
34211472 CCAAACCCAAACCCTAAACCCAACC
1 CCAAACCCAAACCCTAAACCCAACC
*
34211497 CAAAACTCCAAAC
1 CCAAAC-CCAAAC
34211510 AATAAAAGTC
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 24 0.71
26 10 0.29
ACGTcount: A:0.46, C:0.51, G:0.00, T:0.03
Consensus pattern (25 bp):
CCAAACCCAAACCCTAAACCCAACC
Found at i:34211490 original size:7 final size:6
Alignment explanation
Indices: 34211447--34211500 Score: 67
Period size: 6 Copynumber: 8.8 Consensus size: 6
34211437 ACCTCAAAAA
34211447 CCAAAC CCAAAC CC-AAC CCACAACC CCAAAC CCAAAC CCTAAAC CC-AAC
1 CCAAAC CCAAAC CCAAAC CCA-AA-C CCAAAC CCAAAC CC-AAAC CCAAAC
34211496 CCAAA
1 CCAAA
34211501 ACTCCAAACA
Statistics
Matches: 43, Mismatches: 0, Indels: 10
0.81 0.00 0.19
Matches are distributed among these distances:
5 10 0.23
6 19 0.44
7 10 0.23
8 4 0.09
ACGTcount: A:0.46, C:0.52, G:0.00, T:0.02
Consensus pattern (6 bp):
CCAAAC
Found at i:34211493 original size:19 final size:18
Alignment explanation
Indices: 34211447--34211500 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 18
34211437 ACCTCAAAAA
34211447 CCAAACCCAAACCC-AAC
1 CCAAACCCAAACCCAAAC
34211464 CCACAACCCCAAACCCAAAC
1 CCA-AA-CCCAAACCCAAAC
34211484 CCTAAACCC-AACCCAAA
1 CC-AAACCCAAACCCAAA
34211501 ACTCCAAACA
Statistics
Matches: 33, Mismatches: 0, Indels: 7
0.82 0.00 0.17
Matches are distributed among these distances:
17 3 0.09
18 10 0.30
19 12 0.36
20 7 0.21
21 1 0.03
ACGTcount: A:0.46, C:0.52, G:0.00, T:0.02
Consensus pattern (18 bp):
CCAAACCCAAACCCAAAC
Found at i:34212937 original size:110 final size:110
Alignment explanation
Indices: 34212803--34213049 Score: 270
Period size: 110 Copynumber: 2.2 Consensus size: 110
34212793 CTAATTATAG
* * *
34212803 TATACATCAAGACAAAATGGTGCGTTTGATTAAGATATCTTGCGGCGTTTAACGTCT-GCGCCGC
1 TATACATCAAGACAAAATGCTGCGTTTGATTAACATATCTTGCGGCGCTT--CG-CTAGCGCCGC
* *
34212867 T-ATACTATACATTAGCGGCATTTCTTTATAAGCGCCA-TAATTG-CAA
63 TAATACTATACATTACCGGCATTTCTTCATAAGCGCCACTAA-TGCCAA
* * * *
34212913 TATACATCAAGACTAAACT-CTGCGTTTGGTTAACATCTTTTGCGGCGCTTCGCTAAGCGCCGCT
1 TATACATCAAGAC-AAAATGCTGCGTTTGATTAACATATCTTGCGGCGCTTCGCT-AGCGCCGCT
* * * *
34212977 AATACTGTACATTACCGGCGTTTGTTCATAAGTGCCACTAATGCCAA
64 AATACTATACATTACCGGCATTTCTTCATAAGCGCCACTAATGCCAA
*
34213024 TATACATCAAGACCAGAATGCTGCGT
1 TATACATCAAGA-CAAAATGCTGCGT
34213050 GTTGGTCTTG
Statistics
Matches: 114, Mismatches: 15, Indels: 14
0.80 0.10 0.10
Matches are distributed among these distances:
107 2 0.02
108 2 0.02
109 8 0.07
110 70 0.61
111 25 0.22
112 7 0.06
ACGTcount: A:0.28, C:0.23, G:0.19, T:0.30
Consensus pattern (110 bp):
TATACATCAAGACAAAATGCTGCGTTTGATTAACATATCTTGCGGCGCTTCGCTAGCGCCGCTAA
TACTATACATTACCGGCATTTCTTCATAAGCGCCACTAATGCCAA
Found at i:34226910 original size:23 final size:23
Alignment explanation
Indices: 34226884--34226932 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
34226874 TGAAAAGTTA
* *
34226884 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAAAGACTTGAAGAT
34226907 GAAGAGTGAAAAGACTTGAAGAT
1 GAAGAGTGAAAAGACTTGAAGAT
34226930 GAA
1 GAA
34226933 AAGTTACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.47, C:0.04, G:0.31, T:0.18
Consensus pattern (23 bp):
GAAGAGTGAAAAGACTTGAAGAT
Found at i:34231412 original size:23 final size:23
Alignment explanation
Indices: 34231386--34231434 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
34231376 TGAAAAGTTA
*
34231386 GAAGAGTGAAGAGACTTGAATAT
1 GAAGAGTGAAGAGACTTGAAGAT
34231409 GAAGAGTGAAGAGACTTGAAGAT
1 GAAGAGTGAAGAGACTTGAAGAT
34231432 GAA
1 GAA
34231435 AAGTTACACA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.45, C:0.04, G:0.33, T:0.18
Consensus pattern (23 bp):
GAAGAGTGAAGAGACTTGAAGAT
Found at i:34232267 original size:23 final size:22
Alignment explanation
Indices: 34232237--34232279 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 22
34232227 CTTAGTTAAC
34232237 ATTTATGT-TACTATTAATGTAAA
1 ATTTATGTATA-TATT-ATGTAAA
34232260 ATTTATGTATATATTATGTA
1 ATTTATGTATATATTATGTA
34232280 TTTTGAGCCG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
22 5 0.26
23 12 0.63
24 2 0.11
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTTATGTATATATTATGTAAA
Found at i:34232749 original size:36 final size:36
Alignment explanation
Indices: 34232697--34232765 Score: 106
Period size: 36 Copynumber: 1.9 Consensus size: 36
34232687 TAAATTAGAT
34232697 TAAATTATTTTATTTTTATTTTAAA-ACAAATAACAG
1 TAAATTATTTTATTTTTATTTTAAAGA-AAATAACAG
34232733 TAAATT-TTTTATTTTTTATTTTAAAGAAAATAA
1 TAAATTATTTTA-TTTTTATTTTAAAGAAAATAA
34232766 GATTTCTTTT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
35 5 0.16
36 25 0.81
37 1 0.03
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (36 bp):
TAAATTATTTTATTTTTATTTTAAAGAAAATAACAG
Found at i:34239865 original size:16 final size:16
Alignment explanation
Indices: 34239844--34239876 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
34239834 CTATACCTAC
34239844 ATTTACTCATGAATGA
1 ATTTACTCATGAATGA
34239860 ATTTACTCATGAATGA
1 ATTTACTCATGAATGA
34239876 A
1 A
34239877 ATGAATATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.39, C:0.12, G:0.12, T:0.36
Consensus pattern (16 bp):
ATTTACTCATGAATGA
Found at i:34243999 original size:18 final size:19
Alignment explanation
Indices: 34243976--34244011 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
34243966 TCGAAACCGG
34243976 TCGG-TTAACCAAATTTTT
1 TCGGTTTAACCAAATTTTT
*
34243994 TCGGTTTAACTAAATTTT
1 TCGGTTTAACCAAATTTT
34244012 GCAAGGTAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.28, C:0.14, G:0.11, T:0.47
Consensus pattern (19 bp):
TCGGTTTAACCAAATTTTT
Found at i:34244865 original size:29 final size:29
Alignment explanation
Indices: 34244823--34244889 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
34244813 CTTCAAGCAA
* * *
34244823 TAGGTAAAAGAGTATCTGCAGACTGCATT
1 TAGGTAAAAGAGTATCTACAAACTCCATT
*
34244852 TAGGAAAAAGAGTATCTACAAACTCCATT
1 TAGGTAAAAGAGTATCTACAAACTCCATT
34244881 TAGGTAAAA
1 TAGGTAAAA
34244890 CACTCGACTA
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
29 33 1.00
ACGTcount: A:0.42, C:0.13, G:0.19, T:0.25
Consensus pattern (29 bp):
TAGGTAAAAGAGTATCTACAAACTCCATT
Found at i:34245303 original size:9 final size:9
Alignment explanation
Indices: 34245286--34245366 Score: 83
Period size: 9 Copynumber: 9.0 Consensus size: 9
34245276 CACCCCACCC
*
34245286 ATCGATTAA
1 ATCGGTTAA
34245295 ATCGGTTAA
1 ATCGGTTAA
*
34245304 GTCGGTTAA
1 ATCGGTTAA
* *
34245313 TTTGGTTAA
1 ATCGGTTAA
*
34245322 ATTGGTTAA
1 ATCGGTTAA
*
34245331 ATTGAG-TAA
1 ATCG-GTTAA
34245340 ATCGGTTAA
1 ATCGGTTAA
*
34245349 ATAGGTTAA
1 ATCGGTTAA
34245358 ATCGGTTAA
1 ATCGGTTAA
34245367 TTTTTAACCA
Statistics
Matches: 62, Mismatches: 8, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
8 1 0.02
9 60 0.97
10 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (9 bp):
ATCGGTTAA
Found at i:34245319 original size:18 final size:18
Alignment explanation
Indices: 34245286--34245366 Score: 92
Period size: 18 Copynumber: 4.5 Consensus size: 18
34245276 CACCCCACCC
* *
34245286 ATCGATTAAATCGGTTAA
1 ATCGGTTAAATTGGTTAA
* *
34245304 GTCGGTTAATTTGGTTAA
1 ATCGGTTAAATTGGTTAA
*
34245322 ATTGGTTAAATTGAG-TAA
1 ATCGGTTAAATTG-GTTAA
*
34245340 ATCGGTTAAATAGGTTAA
1 ATCGGTTAAATTGGTTAA
34245358 ATCGGTTAA
1 ATCGGTTAA
34245367 TTTTTAACCA
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
17 1 0.02
18 50 0.96
19 1 0.02
ACGTcount: A:0.35, C:0.06, G:0.22, T:0.37
Consensus pattern (18 bp):
ATCGGTTAAATTGGTTAA
Found at i:34246916 original size:27 final size:27
Alignment explanation
Indices: 34246877--34247243 Score: 353
Period size: 27 Copynumber: 13.6 Consensus size: 27
34246867 TTGGGCCAGG
*
34246877 AAATTACCGAAATACCCTCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * ** *
34246904 AAATTACCAAAATACCCTTAAAGAGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * *
34246931 AAATTATCAAAATACCCCCGAAGGGTT
1 AAATTATCGAAATACCCTCGAAGGGTA
* * *
34246958 AAATTATCAAAATACCCTCAAAAGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* *
34246985 AAATTATTGAAATA-CCTTGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * * * *
34247011 AAATTACCAAAATGCCCCCCAAAGGGTA
1 AAATTATCGAAAT-ACCCTCGAAGGGTA
* *
34247039 AAATTATCGAAATACCTTTGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
** *
34247066 AAATTA-CTGAAATACTTTCGAAAGGTA
1 AAATTATC-GAAATACCCTCGAAGGGTA
*
34247093 AAAATATCGAAATACCCTCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * *
34247120 AAATTATTGAAATACCCTCGAGGGGAA
1 AAATTATCGAAATACCCTCGAAGGGTA
*
34247147 AAATTATCGATATACCCTCGAAGGGTA
1 AAATTATCGAAATACCCTCGAAGGGTA
* * *
34247174 AAACTATCGAAATACCCTCTAAGGGTG
1 AAATTATCGAAATACCCTCGAAGGGTA
* **
34247201 AAATTA-CTAAAATACCCTAAAAGGGTA
1 AAATTATC-GAAATACCCTCGAAGGGTA
* *
34247228 AAATGACCGAAATACC
1 AAATTATCGAAATACC
34247244 GCTATAGGGT
Statistics
Matches: 275, Mismatches: 59, Indels: 12
0.79 0.17 0.03
Matches are distributed among these distances:
26 21 0.08
27 232 0.84
28 22 0.08
ACGTcount: A:0.44, C:0.18, G:0.16, T:0.23
Consensus pattern (27 bp):
AAATTATCGAAATACCCTCGAAGGGTA
Found at i:34247502 original size:26 final size:26
Alignment explanation
Indices: 34247473--34247537 Score: 78
Period size: 26 Copynumber: 2.5 Consensus size: 26
34247463 CTAGAAGTTA
34247473 TGCTGTGATATTGTTACTGACAGCTC
1 TGCTGTGATATTGTTACTGACAGCTC
* * *
34247499 TGCTGT-ATTATTATTACTGGCAGCTT
1 TGCTGTGA-TATTGTTACTGACAGCTC
*
34247525 TGCTGCGATATTG
1 TGCTGTGATATTG
34247538 GTGTGTTGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
25 1 0.03
26 30 0.94
27 1 0.03
ACGTcount: A:0.18, C:0.17, G:0.23, T:0.42
Consensus pattern (26 bp):
TGCTGTGATATTGTTACTGACAGCTC
Found at i:34247704 original size:30 final size:29
Alignment explanation
Indices: 34247651--34247736 Score: 111
Period size: 30 Copynumber: 2.9 Consensus size: 29
34247641 GATTACTATT
34247651 TTGGGCTAAGGCCCACA-CTGTTACTGAA
1 TTGGGCTAAGGCCCACACCTGTTACTGAA
*
34247679 TTGGGCTAAGGCCCACACTCTGTTACTGTA
1 TTGGGCTAAGGCCCACAC-CTGTTACTGAA
* * *
34247709 TTGGGCTATGACCCACACACTGCTACTG
1 TTGGGCTAAGGCCCACAC-CTGTTACTG
34247737 TATAAGGCTC
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
28 17 0.33
30 34 0.67
ACGTcount: A:0.22, C:0.28, G:0.23, T:0.27
Consensus pattern (29 bp):
TTGGGCTAAGGCCCACACCTGTTACTGAA
Found at i:34254332 original size:27 final size:27
Alignment explanation
Indices: 34254302--34254656 Score: 340
Period size: 27 Copynumber: 12.9 Consensus size: 27
34254292 CGAATACTCC
* *
34254302 AAGGGTAAAATTATCGAAGTACCTTCG
1 AAGGGTAAAATTATCGAAATACCCTCG
*
34254329 AAGGGTAAAATTATCGAAATACCCTCA
1 AAGGGTAAAATTATCGAAATACCCTCG
* * *
34254356 AAGGATAAAATTATTGAAATACCCTAG
1 AAGGGTAAAATTATCGAAATACCCTCG
* *
34254383 AAGGGTAAAATTATCGATATACTCTCG
1 AAGGGTAAAATTATCGAAATACCCTCG
* * *
34254410 AAGGGTAAAATTATCGATATATCCTCA
1 AAGGGTAAAATTATCGAAATACCCTCG
* * * *
34254437 AAGGATAAAATGACCAAAATACCCTCG
1 AAGGGTAAAATTATCGAAATACCCTCG
* *
34254464 AAGGGTAAAATAATCGAAATACCC-CT
1 AAGGGTAAAATTATCGAAATACCCTCG
* **
34254490 ATAGGGTAAAATGATTAAAATACCCTCG
1 A-AGGGTAAAATTATCGAAATACCCTCG
* *
34254518 AAGGGTAAAATAATTGAAATACCCTCGAAGGG
1 AAGGGTAAAATTATCGAAATACCCTC-----G
* *
34254550 TAAGGGTAAAATTATCGATATACCCTTG
1 -AAGGGTAAAATTATCGAAATACCCTCG
*
34254578 AAGGGTAAAATTA-CAGAAATACCC-CTA
1 AAGGGTAAAATTATC-GAAATACCCTC-G
*
34254605 AAGGGTAAAATTAAT-AAAATACCCTCG
1 AAGGGTAAAATT-ATCGAAATACCCTCG
* *
34254632 AAGGGTAAAATGATCGAAACACCCT
1 AAGGGTAAAATTATCGAAATACCCT
34254657 TATAAGGTAA
Statistics
Matches: 269, Mismatches: 45, Indels: 28
0.79 0.13 0.08
Matches are distributed among these distances:
26 5 0.02
27 236 0.88
28 5 0.02
32 1 0.00
33 22 0.08
ACGTcount: A:0.43, C:0.16, G:0.17, T:0.23
Consensus pattern (27 bp):
AAGGGTAAAATTATCGAAATACCCTCG
Found at i:34254560 original size:33 final size:33
Alignment explanation
Indices: 34254518--34254585 Score: 100
Period size: 33 Copynumber: 2.1 Consensus size: 33
34254508 AATACCCTCG
*
34254518 AAGGGTAAAATAATTGAAATACCCTCGAAGGGT
1 AAGGGTAAAATAATCGAAATACCCTCGAAGGGT
* * *
34254551 AAGGGTAAAATTATCGATATACCCTTGAAGGGT
1 AAGGGTAAAATAATCGAAATACCCTCGAAGGGT
34254584 AA
1 AA
34254586 AATTACAGAA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
33 31 1.00
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.24
Consensus pattern (33 bp):
AAGGGTAAAATAATCGAAATACCCTCGAAGGGT
Found at i:34254666 original size:141 final size:141
Alignment explanation
Indices: 34254410--34254669 Score: 323
Period size: 141 Copynumber: 1.8 Consensus size: 141
34254400 TATACTCTCG
* *
34254410 AAGGGTAAAATTATCGATATATCCTCAAAGGATAAAATGACCAAAATACCCTCGAAGGGTAAAAT
1 AAGGGTAAAATTATCGATATACCCTCAAAGGATAAAATGACCAAAATACCCTCAAAGGGTAAAAT
* * * * *
34254475 AATCGAAATACCCCTATAGGGTAAAATGATTAAAATACCCTCGAAGGGTAAAATAATTGAAATAC
66 AATCAAAATACCCCGATAGGGTAAAATGATCAAAACACCCTCGAAAGGTAAAATAATTGAAATAC
34254540 CCTCGAAGGGT
131 CCTCGAAGGGT
** * *
34254551 AAGGGTAAAATTATCGATATACCCTTGAAGGGTAAAATTA-CAGAAATACCC-CTAAAGGGTAAA
1 AAGGGTAAAATTATCGATATACCCTCAAAGGATAAAATGACCA-AAATACCCTC-AAAGGGTAAA
* *
34254614 ATTAAT-AAAATACCCTCGA-AGGGTAAAATGATCGAAACACCCT-TATAAGGTAAAAT
64 A-TAATCAAAATACCC-CGATAGGGTAAAATGATCAAAACACCCTCGA-AAGGTAAAAT
34254670 GACTGTTATG
Statistics
Matches: 101, Mismatches: 13, Indels: 10
0.81 0.10 0.08
Matches are distributed among these distances:
140 4 0.04
141 91 0.90
142 6 0.06
ACGTcount: A:0.45, C:0.16, G:0.17, T:0.22
Consensus pattern (141 bp):
AAGGGTAAAATTATCGATATACCCTCAAAGGATAAAATGACCAAAATACCCTCAAAGGGTAAAAT
AATCAAAATACCCCGATAGGGTAAAATGATCAAAACACCCTCGAAAGGTAAAATAATTGAAATAC
CCTCGAAGGGT
Found at i:34254774 original size:31 final size:31
Alignment explanation
Indices: 34254739--34254799 Score: 113
Period size: 31 Copynumber: 2.0 Consensus size: 31
34254729 GTTACCGAAT
34254739 ATGACATACTGCATGGGGTTAGGATTCTGAC
1 ATGACATACTGCATGGGGTTAGGATTCTGAC
*
34254770 ATGACGTACTGCATGGGGTTAGGATTCTGA
1 ATGACATACTGCATGGGGTTAGGATTCTGA
34254800 TATGGGGAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.25, C:0.15, G:0.31, T:0.30
Consensus pattern (31 bp):
ATGACATACTGCATGGGGTTAGGATTCTGAC
Found at i:34254867 original size:26 final size:25
Alignment explanation
Indices: 34254838--34254944 Score: 83
Period size: 26 Copynumber: 4.1 Consensus size: 25
34254828 TATGCCACAT
*
34254838 ATACTAATACTGGC-GTCTATGCTGCG
1 ATACT-ATACTGGCAG-CTATACTGCG
*
34254864 ATACTGATACTGGCAGCTATACTGTG
1 ATACT-ATACTGGCAGCTATACTGCG
* *
34254890 ATACTATCACTGGCAACTCTACTGC-
1 ATACTAT-ACTGGCAGCTATACTGCG
* * *
34254915 ATTATTATTACTGGCAGCTTTGCTGCG
1 A-TACTA-TACTGGCAGCTATACTGCG
34254942 ATA
1 ATA
34254945 TTGATGTGTT
Statistics
Matches: 66, Mismatches: 10, Indels: 10
0.77 0.12 0.12
Matches are distributed among these distances:
25 3 0.05
26 60 0.91
27 3 0.05
ACGTcount: A:0.25, C:0.22, G:0.20, T:0.33
Consensus pattern (25 bp):
ATACTATACTGGCAGCTATACTGCG
Found at i:34255118 original size:30 final size:30
Alignment explanation
Indices: 34255054--34255121 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
34255044 TTGTATTGAT
* ** *
34255054 TACTGAATTGGGCTAAGGCCCACACTTTGT
1 TACTGTATTGGGCTAAGGCCCACACACTGC
*
34255084 TACTGTATTGGGCTATGGCCCACACACTGC
1 TACTGTATTGGGCTAAGGCCCACACACTGC
34255114 TACTGTAT
1 TACTGTAT
34255122 AAGGCTCAAG
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.31
Consensus pattern (30 bp):
TACTGTATTGGGCTAAGGCCCACACACTGC
Found at i:34272170 original size:183 final size:183
Alignment explanation
Indices: 34271856--34272234 Score: 677
Period size: 183 Copynumber: 2.1 Consensus size: 183
34271846 CTAAATTGTA
* *
34271856 AAAAGTGAAAAAGTTGAGTTCTACATGTTAGAAGTGTCCAATCGTTATGAAATTTTAAATTGGAT
1 AAAAGGGAAAAAGTTGAGTTCTACATGTTAGAAGTGTCCAATCGTTATGAAATTTTAAATTGGAG
* *
34271921 GTCTTTATATGGTAATTATACCATTGGTTAAGTTATGGACAAAAATGGATATGAGATAAGTGAAA
66 GTCTTTATATGGTAATTAGACCATTGGTTAAGTTATGGACAAAAATGGACATGAGATAAGTGAAA
*
34271986 TAGGAAATTTTTAAGTTAGGGGCATTTTGGTAATTCGGTAATTAAAATGAATT
131 TAGGAAATTTTTAAGTTAGGGGCATTTTGGTAATTCGATAATTAAAATGAATT
*
34272039 AAAAGGGAAAAAGTTGAGTTCTACATGTTAGAAGTGTCCAATCGTTATGAAATTTTACATTGGAG
1 AAAAGGGAAAAAGTTGAGTTCTACATGTTAGAAGTGTCCAATCGTTATGAAATTTTAAATTGGAG
* *
34272104 GTCTTTATATGGTAATTAGACCATTGGTTAAGTTATGGACAAAAGTGGGCATGAGATAAGTGAAA
66 GTCTTTATATGGTAATTAGACCATTGGTTAAGTTATGGACAAAAATGGACATGAGATAAGTGAAA
*
34272169 TAGGAAATTTTTAATTTAGGGGCATTTTGGTAATTCGATAATTAAAATGAATT
131 TAGGAAATTTTTAAGTTAGGGGCATTTTGGTAATTCGATAATTAAAATGAATT
34272222 AAAAGGGAAAAAG
1 AAAAGGGAAAAAG
34272235 ATGGCAAATT
Statistics
Matches: 187, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
183 187 1.00
ACGTcount: A:0.38, C:0.06, G:0.22, T:0.34
Consensus pattern (183 bp):
AAAAGGGAAAAAGTTGAGTTCTACATGTTAGAAGTGTCCAATCGTTATGAAATTTTAAATTGGAG
GTCTTTATATGGTAATTAGACCATTGGTTAAGTTATGGACAAAAATGGACATGAGATAAGTGAAA
TAGGAAATTTTTAAGTTAGGGGCATTTTGGTAATTCGATAATTAAAATGAATT
Found at i:34273175 original size:50 final size:49
Alignment explanation
Indices: 34273121--34273314 Score: 192
Period size: 50 Copynumber: 3.9 Consensus size: 49
34273111 CATTAAGATT
* *
34273121 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CGAC
* * * *
34273171 ATGAGAGGTCCCCTGTAAGACCATGTTTGGGACATGGCATGGGCACTGAT
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAC-GAC
** * * * * *
34273221 ATGAGAACTCCCATGTAAGACCATATCTGAGATATGACATTGGTA-GTAC
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACG-AC
* * ** *
34273270 AAGAAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
34273315 TGTTATTATC
Statistics
Matches: 116, Mismatches: 26, Indels: 5
0.79 0.18 0.03
Matches are distributed among these distances:
48 1 0.01
49 37 0.32
50 78 0.67
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.23
Consensus pattern (49 bp):
ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACGAC
Found at i:34275712 original size:25 final size:29
Alignment explanation
Indices: 34275656--34275718 Score: 98
Period size: 29 Copynumber: 2.3 Consensus size: 29
34275646 TGACATTCAC
34275656 TCTCTCAAATATTTCACATACAAAAAACA
1 TCTCTCAAATATTTCACATACAAAAAACA
34275685 TCTCTCAAATATTTCA-A-A-AAAAAA-A
1 TCTCTCAAATATTTCACATACAAAAAACA
34275710 TCTCTCAAA
1 TCTCTCAAA
34275719 AAAAATGTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
25 10 0.29
26 6 0.18
27 1 0.03
28 1 0.03
29 16 0.47
ACGTcount: A:0.49, C:0.22, G:0.00, T:0.29
Consensus pattern (29 bp):
TCTCTCAAATATTTCACATACAAAAAACA
Found at i:34287144 original size:67 final size:71
Alignment explanation
Indices: 34287071--34287211 Score: 191
Period size: 74 Copynumber: 2.0 Consensus size: 71
34287061 CTAACCTAAA
34287071 ACCTCACATACAC-AAGCA-T-A-AAATAAATTTACTTGACAATTTTTAACAATTCAAAAAGTTA
1 ACCTCACATACACTAAGCACTAACAAATAAATTTACTTGACAATTTTTAACAATTCAAAAAGTTA
34287132 AAATTT
66 AAATTT
* * * *
34287138 ACCTCACATACACTTAATCACTAAACCAAATCAATTTACTTGATAATTTTTAACAATTCAAAAGG
1 ACCTCACATACAC-TAAGCACT-AA-CAAATAAATTTACTTGACAATTTTTAACAATTCAAAAAG
34287203 TTAAAATTT
63 TTAAAATTT
34287212 TAGGGCGTTA
Statistics
Matches: 63, Mismatches: 4, Indels: 7
0.85 0.05 0.09
Matches are distributed among these distances:
67 13 0.21
69 4 0.06
70 1 0.02
72 1 0.02
74 44 0.70
ACGTcount: A:0.45, C:0.18, G:0.04, T:0.33
Consensus pattern (71 bp):
ACCTCACATACACTAAGCACTAACAAATAAATTTACTTGACAATTTTTAACAATTCAAAAAGTTA
AAATTT
Done.