Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D01
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: 62811768
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 736185 characters in sequence are not A, C, G, or T
File 43 of 211
Found at i:11517507 original size:41 final size:41
Alignment explanation
Indices: 11517423--11517615 Score: 271
Period size: 41 Copynumber: 4.7 Consensus size: 41
11517413 CTTTCGGGGA
* * *
11517423 TTTAGCGGCATTTTTAAGG-AAAGTGCTGCTAATGCTCAGATC
1 TTTAGCGGCGTTTTT--GGAAAAGCGCCGCTAATGCTCAGATC
* *
11517465 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCCCATATC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGATC
* *
11517506 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGGTTAGATC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGATC
*
11517547 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGGTCAGATC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGATC
* *
11517588 TTTAGCGGCGTTTTTGAAAAAGTGCCGC
1 TTTAGCGGCGTTTTTGGAAAAGCGCCGC
11517616 AAAAACATTT
Statistics
Matches: 138, Mismatches: 12, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
40 2 0.01
41 122 0.88
42 14 0.10
ACGTcount: A:0.23, C:0.19, G:0.27, T:0.31
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGGAAAAGCGCCGCTAATGCTCAGATC
Found at i:11517760 original size:26 final size:26
Alignment explanation
Indices: 11517712--11517762 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
11517702 AAAATGGATA
** * *
11517712 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAAAAAAACATAGAAAT
11517738 AATTTGAAATAAAAAAACATAGAAA
1 AATTTGAAATAAAAAAACATAGAAA
11517763 ATTATTTGTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 21 1.00
ACGTcount: A:0.59, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAAAAAAACATAGAAAT
Found at i:11518049 original size:14 final size:15
Alignment explanation
Indices: 11518021--11518053 Score: 59
Period size: 14 Copynumber: 2.3 Consensus size: 15
11518011 AAGGTTTATA
11518021 GATTATGGAATTAGG
1 GATTATGGAATTAGG
11518036 GATTATGG-ATTAGG
1 GATTATGGAATTAGG
11518050 GATT
1 GATT
11518054 CTGATTTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.30, C:0.00, G:0.33, T:0.36
Consensus pattern (15 bp):
GATTATGGAATTAGG
Found at i:11518096 original size:7 final size:7
Alignment explanation
Indices: 11518086--11518110 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
11518076 AGGTTTATGA
11518086 GTTAGGG
1 GTTAGGG
11518093 GTTAGGG
1 GTTAGGG
11518100 GTTAGGG
1 GTTAGGG
11518107 GTTA
1 GTTA
11518111 AGAGTTAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.16, C:0.00, G:0.52, T:0.32
Consensus pattern (7 bp):
GTTAGGG
Found at i:11518117 original size:14 final size:14
Alignment explanation
Indices: 11518084--11518119 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
11518074 TAAGGTTTAT
*
11518084 GAGTTAGGGGTTAG
1 GAGTTAGGGGTTAA
*
11518098 GGGTTAGGGGTTAA
1 GAGTTAGGGGTTAA
11518112 GAGTTAGG
1 GAGTTAGG
11518120 AATTCAGGGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.22, C:0.00, G:0.50, T:0.28
Consensus pattern (14 bp):
GAGTTAGGGGTTAA
Found at i:11518573 original size:26 final size:26
Alignment explanation
Indices: 11518515--11518567 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
11518505 ATTATTAATT
*
11518515 TAAAATTAATATGCAATATACAATAA
1 TAAAATTAATATGCAATATACAAGAA
*
11518541 TAAAATTGATATGCAATATACAAGAA
1 TAAAATTAATATGCAATATACAAGAA
11518567 T
1 T
11518568 TTAATTTATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.55, C:0.08, G:0.08, T:0.30
Consensus pattern (26 bp):
TAAAATTAATATGCAATATACAAGAA
Found at i:11520319 original size:19 final size:19
Alignment explanation
Indices: 11520295--11520341 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
11520285 ATGGAATCTG
11520295 TTATAAATTAGAATGCCTA
1 TTATAAATTAGAATGCCTA
*
11520314 TTATAAACTAGAATGCCTA
1 TTATAAATTAGAATGCCTA
11520333 TTATAAATT
1 TTATAAATT
11520342 TTGGTTTCAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.38
Consensus pattern (19 bp):
TTATAAATTAGAATGCCTA
Found at i:11520773 original size:8 final size:8
Alignment explanation
Indices: 11520760--11520784 Score: 50
Period size: 8 Copynumber: 3.1 Consensus size: 8
11520750 TATATCCCCT
11520760 TGGTTAAA
1 TGGTTAAA
11520768 TGGTTAAA
1 TGGTTAAA
11520776 TGGTTAAA
1 TGGTTAAA
11520784 T
1 T
11520785 TTTTTTCCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 17 1.00
ACGTcount: A:0.36, C:0.00, G:0.24, T:0.40
Consensus pattern (8 bp):
TGGTTAAA
Found at i:11523775 original size:34 final size:34
Alignment explanation
Indices: 11523737--11523805 Score: 97
Period size: 34 Copynumber: 2.0 Consensus size: 34
11523727 TCTTTAGCGG
11523737 CGTTTGT-GAAAAAAGCGCCGCTAAA-GATCATGGT
1 CGTTTGTAG-AAAAAGCGCCGCTAAAGGA-CATGGT
*
11523771 CGTTTGTAGGAAAAGCGCCGCTAAAGGACATGGT
1 CGTTTGTAGAAAAAGCGCCGCTAAAGGACATGGT
11523805 C
1 C
11523806 TTTAGCGGCG
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
34 29 0.91
35 3 0.09
ACGTcount: A:0.30, C:0.19, G:0.29, T:0.22
Consensus pattern (34 bp):
CGTTTGTAGAAAAAGCGCCGCTAAAGGACATGGT
Found at i:11523832 original size:43 final size:43
Alignment explanation
Indices: 11523771--11523947 Score: 291
Period size: 43 Copynumber: 4.1 Consensus size: 43
11523761 AGATCATGGT
* *
11523771 CGTTTGTAGGAAAAGCGCCGCTAAAGGACATGGTCTTTAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGG
*
11523814 CGTTTGTGGGAAAAGCGCCGCTAAAGGCCATGGTCTTTAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGG
*
11523857 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTTGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGG
** *
11523900 CGTTTGTGATAAAAGTGCCGCTAAAGGTCATGGTCTTTAGCGG
1 CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGG
11523943 CGTTT
1 CGTTT
11523948 ATTTCTAAAA
Statistics
Matches: 126, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
43 126 1.00
ACGTcount: A:0.21, C:0.19, G:0.33, T:0.27
Consensus pattern (43 bp):
CGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTCTTTAGCGG
Found at i:11524419 original size:25 final size:26
Alignment explanation
Indices: 11524391--11524443 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 26
11524381 AAAATTAAAA
*
11524391 ATTTTAGTGTTTTTATTTCATTT-TT
1 ATTTTAGTATTTTTATTTCATTTCTT
* *
11524416 ATTTTTGTATTTTTATTTTATTTCTT
1 ATTTTAGTATTTTTATTTCATTTCTT
11524442 AT
1 AT
11524444 AATTTGGTCC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
25 20 0.83
26 4 0.17
ACGTcount: A:0.17, C:0.04, G:0.06, T:0.74
Consensus pattern (26 bp):
ATTTTAGTATTTTTATTTCATTTCTT
Found at i:11524939 original size:15 final size:15
Alignment explanation
Indices: 11524904--11524941 Score: 62
Period size: 14 Copynumber: 2.7 Consensus size: 15
11524894 AACCCTTAAT
11524904 TAAA-CCATAATCCC
1 TAAATCCATAATCCC
11524918 T-AATCCATAATCCC
1 TAAATCCATAATCCC
11524932 TAAATCCATA
1 TAAATCCATA
11524942 TATATATAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 2 0.09
14 12 0.55
15 8 0.36
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (15 bp):
TAAATCCATAATCCC
Found at i:11525254 original size:15 final size:14
Alignment explanation
Indices: 11525219--11525256 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
11525209 AACCCTTAAT
11525219 TAAAT-CATAATCC
1 TAAATCCATAATCC
*
11525232 TTAATCCATAATCCC
1 TAAATCCATAAT-CC
11525247 TAAATCCATA
1 TAAATCCATA
11525257 TATACTCCCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
13 4 0.19
14 6 0.29
15 11 0.52
ACGTcount: A:0.42, C:0.26, G:0.00, T:0.32
Consensus pattern (14 bp):
TAAATCCATAATCC
Found at i:11525585 original size:16 final size:15
Alignment explanation
Indices: 11525547--11525601 Score: 53
Period size: 16 Copynumber: 3.8 Consensus size: 15
11525537 TTTTCTGAAG
11525547 ATTTTAAAT-ATTCA
1 ATTTTAAATAATTCA
**
11525561 ATTAGAAATAAGTTCA
1 ATTTTAAATAA-TTCA
11525577 ATTTTAAATAATT-A
1 ATTTTAAATAATTCA
*
11525591 A-TATAAATAAT
1 ATTTTAAATAAT
11525602 AAACCAATTA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 9 0.26
14 9 0.26
15 3 0.09
16 13 0.38
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.42
Consensus pattern (15 bp):
ATTTTAAATAATTCA
Found at i:11525768 original size:82 final size:82
Alignment explanation
Indices: 11525628--11525985 Score: 372
Period size: 82 Copynumber: 4.4 Consensus size: 82
11525618 AATATTTTTT
* * * * *
11525628 GCGGCGCTTT-AAAAAGAACGACTCTAAAAACCC-GAGCATTAGTGGCGCTTTCTCAAAAATGCT
1 GCGGCGCTTTCACAAA-AACGCCGCT-AAAACCCAGAGCATTAGTGGCGCTTCCACAAAAATGCT
* * *
11525691 ATTAAAACCCCGACCATTA
64 GTTAAAACCCAGAGCATTA
* * *
11525710 GCGGCGCTTTTTA-GAAAACGCCGCTAAAACCTC-GAGCATTAGTGGCGCTTCTTA-AAAAATGC
1 GCGGCGC-TTTCACAAAAACGCCGCTAAAACC-CAGAGCATTAGTGGCGCTTC-CACAAAAATGC
*
11525772 TGCTAAAACCCAGAGCATTA
63 TGTTAAAACCCAGAGCATTA
* * * * *
11525792 GCAGCGCTTTAACAAAAACGCCGCTAAAACCCAGAGCATTAGCGACGCTTCCACAAAAATGCCGC
1 GCGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTAGTGGCGCTTCCACAAAAATGCTG-
**
11525857 TT-AAACCTTGAGCATTA
65 TTAAAACCCAGAGCATTA
* * *
11525874 GCGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTAGCT-GTGCTTCCACAAAAACGCCG
1 GCGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTAG-TGGCGCTTCCACAAAAATGCTG
11525938 TTAAAACCCAGAGCATTA
65 TTAAAACCCAGAGCATTA
* *
11525956 GTGGCGCTTT-ATCAAAAACACCGCTAAAAC
1 GCGGCGCTTTCA-CAAAAACGCCGCTAAAAC
11525986 TCTGATCATT
Statistics
Matches: 235, Mismatches: 30, Indels: 22
0.82 0.10 0.08
Matches are distributed among these distances:
81 15 0.06
82 213 0.91
83 6 0.03
84 1 0.00
ACGTcount: A:0.34, C:0.27, G:0.18, T:0.20
Consensus pattern (82 bp):
GCGGCGCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTAGTGGCGCTTCCACAAAAATGCTGT
TAAAACCCAGAGCATTA
Found at i:11525984 original size:41 final size:41
Alignment explanation
Indices: 11525628--11526024 Score: 326
Period size: 41 Copynumber: 9.7 Consensus size: 41
11525618 AATATTTTTT
* * *
11525628 GCGGCGCTTTA-AAAAGAACGACTCTAAAAACCC-GAGCATTA
1 GCGGCGCTTTATCAAA-AACGCCGCT-AAAACCCAGAGCATTA
* * * *** * *
11525669 GTGGCGCTTTCTCAAAAATGCTATTAAAACCCCGACCATTA
1 GCGGCGCTTTATCAAAAACGCCGCTAAAACCCAGAGCATTA
*
11525710 GCGGCGCTTT-TTAGAAAACGCCGCTAAAACCTC-GAGCATTA
1 GCGGCGCTTTATCA-AAAACGCCGCTAAAACC-CAGAGCATTA
* * * *
11525751 GTGGCGCTTCT-TAAAAAATGCTGCTAAAACCCAGAGCATTA
1 GCGGCGCTT-TATCAAAAACGCCGCTAAAACCCAGAGCATTA
* *
11525792 GCAGCGCTTTAACAAAAACGCCGCTAAAACCCAGAGCATTA
1 GCGGCGCTTTATCAAAAACGCCGCTAAAACCCAGAGCATTA
* * * * **
11525833 GCGACGCTTCCA-CAAAAATGCCGCTTAAACCTTGAGCATTA
1 GCGGCGCTT-TATCAAAAACGCCGCTAAAACCCAGAGCATTA
11525874 GCGGCGCTTTCA-CAAAAACGCCGCTAAAACCCAGAGCATTA
1 GCGGCGCTTT-ATCAAAAACGCCGCTAAAACCCAGAGCATTA
* * * *
11525915 GCTGTGCTTCCA-CAAAAACGCCGTTAAAACCCAGAGCATTA
1 GCGGCGCTT-TATCAAAAACGCCGCTAAAACCCAGAGCATTA
* * * * *
11525956 GTGGCGCTTTATCAAAAACACCGCTAAAACTCTGATCATTA
1 GCGGCGCTTTATCAAAAACGCCGCTAAAACCCAGAGCATTA
* * *
11525997 GCGACGC-TAATTCAAAAACGCCACTAAA
1 GCGGCGCTTTA-TCAAAAACGCCGCTAAA
11526025 GCCACCAAAG
Statistics
Matches: 287, Mismatches: 57, Indels: 24
0.78 0.15 0.07
Matches are distributed among these distances:
40 14 0.05
41 265 0.92
42 8 0.03
ACGTcount: A:0.35, C:0.27, G:0.18, T:0.20
Consensus pattern (41 bp):
GCGGCGCTTTATCAAAAACGCCGCTAAAACCCAGAGCATTA
Found at i:11526013 original size:123 final size:120
Alignment explanation
Indices: 11525692--11526024 Score: 364
Period size: 123 Copynumber: 2.7 Consensus size: 120
11525682 AAAAATGCTA
* * * *
11525692 TTAAAACCCCGACCATTAGCGGCGCTTT-TTAGAAAACGCCGCTAAAACCTCGAGCATTAGTGGC
1 TTAAAACCCAGAGCATTAGCGGCGCTTTATCA-AAAACGCCGCTAAAACCT-GAGCATTAGCGGC
* * * *
11525756 GCTTCTTAAAAAATGCTGCTAAAACCCAGAGCATTAGCAGCGCTTTAACAAAAACGCCG
64 GC-T-TTCAAAAACGCCGCTAAAACCCAGAGCATTAGCAGCGCTTCAACAAAAACGCCG
* * * * *
11525815 CTAAAACCCAGAGCATTAGCGACGCTTCCA-CAAAAATGCCGCTTAAACCTTGAGCATTAGCGGC
1 TTAAAACCCAGAGCATTAGCGGCGCTT-TATCAAAAACGCCGCTAAAACC-TGAGCATTAGCGGC
* * *
11525879 GCTTTCACAAAAACGCCGCTAAAACCCAGAGCATTAGCTGTGCTTCCACAAAAACGCCG
64 GCTTT--CAAAAACGCCGCTAAAACCCAGAGCATTAGCAGCGCTTCAACAAAAACGCCG
* * * *
11525938 TTAAAACCCAGAGCATTAGTGGCGCTTTATCAAAAACACCGCTAAAACTCTGATCATTAGCGACG
1 TTAAAACCCAGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAAC-CTGAGCATTAGCGGCG
*
11526003 CTAATTCAAAAACGCCACTAAA
65 CT--TTCAAAAACGCCGCTAAA
11526025 GCCACCAAAG
Statistics
Matches: 175, Mismatches: 26, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
121 2 0.01
122 2 0.01
123 166 0.95
124 3 0.02
125 2 0.01
ACGTcount: A:0.35, C:0.28, G:0.17, T:0.20
Consensus pattern (120 bp):
TTAAAACCCAGAGCATTAGCGGCGCTTTATCAAAAACGCCGCTAAAACCTGAGCATTAGCGGCGC
TTTCAAAAACGCCGCTAAAACCCAGAGCATTAGCAGCGCTTCAACAAAAACGCCG
Found at i:11529174 original size:17 final size:17
Alignment explanation
Indices: 11529149--11529182 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11529139 GGCGCAGTGC
*
11529149 TTTGCTTTAGTTTAGGT
1 TTTGCTTTAGTATAGGT
*
11529166 TTTGTTTTAGTATAGGT
1 TTTGCTTTAGTATAGGT
11529183 AATAGTTTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.15, C:0.03, G:0.24, T:0.59
Consensus pattern (17 bp):
TTTGCTTTAGTATAGGT
Found at i:11529769 original size:24 final size:24
Alignment explanation
Indices: 11529692--11529756 Score: 89
Period size: 24 Copynumber: 2.8 Consensus size: 24
11529682 GAGTTTCTTT
* *
11529692 TATTATTATTTTAAGTTTTA-TATG
1 TATTATTATTTGAA-ATTTACTATG
11529716 TATTATTATTTGAAATTTACTATG
1 TATTATTATTTGAAATTTACTATG
11529740 TATTATTATTT-AAATTT
1 TATTATTATTTGAAATTT
11529757 GACATAGTTT
Statistics
Matches: 38, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
23 10 0.26
24 28 0.74
ACGTcount: A:0.32, C:0.02, G:0.06, T:0.60
Consensus pattern (24 bp):
TATTATTATTTGAAATTTACTATG
Found at i:11540503 original size:13 final size:15
Alignment explanation
Indices: 11540468--11540504 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
11540458 TATGCTTACT
11540468 TATATATTTATATACA
1 TATAT-TTTATATACA
11540484 TATATTTTATATA-A
1 TATATTTTATATACA
11540498 TA-ATTTT
1 TATATTTT
11540505 GAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.24
14 3 0.14
15 8 0.38
16 5 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.57
Consensus pattern (15 bp):
TATATTTTATATACA
Found at i:11540976 original size:109 final size:109
Alignment explanation
Indices: 11540777--11541873 Score: 1892
Period size: 109 Copynumber: 10.1 Consensus size: 109
11540767 TACGCGTACT
* *
11540777 AATATCCTTTAAAAAATTTCAAAATAAGGCAATGTTTTGCTTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* * * *
11540842 CAAATGTGCTGGGTTTCTATATTTCTCGTTCAACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
11540886 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
11540951 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
11540995 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
11541060 CAAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* * *
11541104 AATATCCTTTTAAAAATTTCAAAATAAGGCATTGTTTTGCGTTTGGAAATTCGAGAAAATGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
11541169 CTAATGTGCTGGGTTTCAATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
11541213 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* * * *
11541278 CTAATGTGATGGGTTTCGAGTTTTCTCGTTCGACAAAATAGCCT
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
11541322 AATATCCTTTTAAAATTTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
**
11541387 CTAATGTGCTGGGTTTTAATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
11541431 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAATTTTGAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* * *
11541496 CAAATGTGCTGGGTTTCCATTTTTATCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
* *
11541540 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCATTTGGAAATTCGAGAAAATGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
11541605 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
11541649 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
*
11541714 CTAATGTGCTGGGTTTCGATTTTTCTCATTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
*
11541758 AATATCCTTTTAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
1 AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
* *
11541823 CTAATGTGCTGGGTTTTG--GTTTCTCGTTCGACCAAATAGCCA
66 CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
11541865 AATATCCTT
1 AATATCCTT
11541874 CTAAATTTTA
Statistics
Matches: 936, Mismatches: 52, Indels: 2
0.95 0.05 0.00
Matches are distributed among these distances:
107 31 0.03
109 905 0.97
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Consensus pattern (109 bp):
AATATCCTTTCAAAAATTTCAAAATAAGGCAATGTTTTGCGTTTGGAAATTCGAGAAAACGTGCC
CTAATGTGCTGGGTTTCGATTTTTCTCGTTCGACCAAATAGCCA
Found at i:11545938 original size:25 final size:24
Alignment explanation
Indices: 11545892--11545938 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
11545882 ACTAATATCA
* * *
11545892 CAAATCACAAATTATCATCAATGG
1 CAAAACACAAATAATCAACAATGG
11545916 CAAAACACAAAATAATCAACAAT
1 CAAAACAC-AAATAATCAACAAT
11545939 TACAAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 7 0.37
25 12 0.63
ACGTcount: A:0.55, C:0.21, G:0.04, T:0.19
Consensus pattern (24 bp):
CAAAACACAAATAATCAACAATGG
Found at i:11546653 original size:77 final size:76
Alignment explanation
Indices: 11546568--11547147 Score: 392
Period size: 77 Copynumber: 7.6 Consensus size: 76
11546558 AGGAATAATC
** * * *
11546568 ACTTAATACATGAAATGTTGGTGAAAACATGAAAAGATTTTTAAAAAATTAAGTAATTCGTAAAT
1 ACTTAATACATGAAATGTTACTTAAAACATGAAAAGATTTCTAAGAAATTAAGTAATTCGTAAAT
*
11546633 CATAAACGAATC
66 CATAAA-GAATT
** * * *
11546645 ACTTAATACATGAAATGTTACTTAAAATGTGAAAAAAGTTTCTAAGAAATTAAATAATTCTTAAA
1 ACTTAATACATGAAATGTTACTTAAAACATGAAAAGA-TTTCTAAGAAATTAAGTAATTCGTAAA
11546710 TCAGGT-AA-AATT
65 TCA--TAAAGAATT
* * ** * * *
11546722 ACTTAAAACAT-AAACGATTA-TGTAAAACATGAAGTGGTTTCTAAGAAATTAAGTTATTCCTAA
1 ACTTAATACATGAAATG-TTACT-TAAAACATGAAAAGATTTCTAAGAAATTAAGTAATTCGTAA
11546785 ATCATGAAAGAATT
64 ATCAT-AAAGAATT
* * ** * * *
11546799 ACTTAATCCATTAAATGTTACTTAAAACATGAAAAGGCTTCCAAGAAATTAATTAATTCATAAAA
1 ACTTAATACATGAAATGTTACTTAAAACATGAAAAGATTTCTAAGAAATTAAGTAATTCGT-AAA
* *
11546864 TTAGAAA-ATATT
65 TCATAAAGA-ATT
* * * * *
11546876 ACTTAATATATAAAATTTTACTTAAAACATGAAATGATTTTTAAGAAATTAAGTAATTCCG-AAA
1 ACTTAATACATGAAATGTTACTTAAAACATGAAAAGATTTCTAAGAAATTAAGTAATT-CGTAAA
*
11546940 TCATGGAAGAATT
65 TCAT-AAAGAATT
** * * * * * * *
11546953 ACTTAATACATGAAACATTACATGAATCATGAAATGGTGTCTAA-AGAATTAAGTAATTCATAAA
1 ACTTAATACATGAAATGTTACTTAAAACATGAAAAGATTTCTAAGA-AATTAAGTAATTCGTAAA
*
11547017 TCATGGAAGAATT
65 TCAT-AAAGAATT
* ** ** * * * *
11547030 ACTTAATATATGAAA--CAACTTGCATCATGAAATGGTTTCTAAGAAATTAAATAATTTC-TAAA
1 ACTTAATACATGAAATGTTACTTAAAACATGAAAAGATTTCTAAGAAATTAAGTAA-TTCGTAAA
*
11547092 TTACA-AAAGAA-A
65 -T-CATAAAGAATT
* * ** *
11547104 ACCTTAATACACGAAATATTACTGGAAACATGAAAGGATATTCT
1 A-CTTAATACATGAAATGTTACTTAAAACATGAAAAGAT-TTCT
11547148 TTATGCTTGT
Statistics
Matches: 401, Mismatches: 77, Indels: 49
0.76 0.15 0.09
Matches are distributed among these distances:
74 2 0.00
75 52 0.13
76 47 0.12
77 255 0.64
78 42 0.10
79 2 0.00
80 1 0.00
ACGTcount: A:0.47, C:0.10, G:0.11, T:0.32
Consensus pattern (76 bp):
ACTTAATACATGAAATGTTACTTAAAACATGAAAAGATTTCTAAGAAATTAAGTAATTCGTAAAT
CATAAAGAATT
Found at i:11546910 original size:19 final size:19
Alignment explanation
Indices: 11546868--11546910 Score: 50
Period size: 19 Copynumber: 2.3 Consensus size: 19
11546858 ATAAAATTAG
* *
11546868 AAAATATTACTTAATATAT
1 AAAATATTACTTAAAACAT
*
11546887 AAAATTTTACTTAAAACAT
1 AAAATATTACTTAAAACAT
*
11546906 GAAAT
1 AAAAT
11546911 GATTTTTAAG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.53, C:0.07, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAATATTACTTAAAACAT
Found at i:11547036 original size:154 final size:152
Alignment explanation
Indices: 11546591--11547040 Score: 464
Period size: 154 Copynumber: 2.9 Consensus size: 152
11546581 AATGTTGGTG
* * *
11546591 AAAACATGAAAAGATTTTTAAAAAATTAAGTAATT-CGTAAATCAT-AAACGAATCACTTAATAC
1 AAAACATGAAATGATTTTTAAGAAATTAAGTAATTCCG-AAATCATGAAA-GAATTACTTAATAC
* * *
11546654 ATGAAATGTTACTTAAAAT-GTGAAAAAAGTTTCTAAGAAATTAAATAATTCTTAAATCA-GGTA
64 ATGAAATGTTACTT-AAATCATG--AAAAGGTTCTAAGAAATTAAATAATTCATAAATCATGG-A
* * *
11546717 AAATTACTTAAAACATAAACGATTATGT
125 AAATTACTTAATATATAAAAGATTATGT
* * * * * *
11546745 AAAACATGAAGTGGTTTCTAAGAAATTAAGTTATTCCTAAATCATGAAAGAATTACTTAATCCAT
1 AAAACATGAAATGATTTTTAAGAAATTAAGTAATTCCGAAATCATGAAAGAATTACTTAATACAT
* * * * * *
11546810 TAAATGTTACTTAAAACATGAAAAGGCTTCCAAGAAATTAATTAATTCATAAAATTA-GAAAATA
66 GAAATGTTACTTAAATCATGAAAAGG-TTCTAAGAAATTAAATAATTCAT-AAATCATGGAAA-A
**
11546874 TTACTTAATATATAAAATTTTACT-T
128 TTACTTAATATATAAAAGATTA-TGT
*
11546899 AAAACATGAAATGATTTTTAAGAAATTAAGTAATTCCGAAATCATGGAAGAATTACTTAATACAT
1 AAAACATGAAATGATTTTTAAGAAATTAAGTAATTCCGAAATCATGAAAGAATTACTTAATACAT
** * * * *
11546964 GAAACATTACATGAATCATGAAATGGTGTCTAA-AGAATTAAGTAATTCATAAATCATGGAAGAA
66 GAAATGTTACTTAAATCATGAAAAGGT-TCTAAGA-AATTAAATAATTCATAAATCATGGAA-AA
11547028 TTACTTAATATAT
128 TTACTTAATATAT
11547041 GAAACAACTT
Statistics
Matches: 244, Mismatches: 41, Indels: 22
0.79 0.13 0.07
Matches are distributed among these distances:
152 5 0.02
153 33 0.14
154 200 0.82
155 6 0.02
ACGTcount: A:0.48, C:0.10, G:0.11, T:0.32
Consensus pattern (152 bp):
AAAACATGAAATGATTTTTAAGAAATTAAGTAATTCCGAAATCATGAAAGAATTACTTAATACAT
GAAATGTTACTTAAATCATGAAAAGGTTCTAAGAAATTAAATAATTCATAAATCATGGAAAATTA
CTTAATATATAAAAGATTATGT
Found at i:11551453 original size:24 final size:23
Alignment explanation
Indices: 11551397--11551555 Score: 127
Period size: 24 Copynumber: 7.0 Consensus size: 23
11551387 TATACATAAA
* *
11551397 AATAGTATATGATAGATCT-AAAT
1 AATAGTA-ATGATAAATTTAAAAT
*
11551420 AAT-G-ATATGATAAGTTTAAAAT
1 AATAGTA-ATGATAAATTTAAAAT
* *
11551442 TATAGTACATGATAAATTTCAAAT
1 AATAGTA-ATGATAAATTTAAAAT
*
11551466 TATCATGT-ATGATAAATTT-AAAT
1 AAT-A-GTAATGATAAATTTAAAAT
*
11551489 AATATTAATGAT-AATTTAAAAT
1 AATAGTAATGATAAATTTAAAAT
11551511 AATAGT-AT-ATTAAATATTAAAAT
1 AATAGTAATGA-TAAAT-TTAAAAT
*
11551534 AATACTAATGATAAATTTAAAA
1 AATAGTAATGATAAATTTAAAA
11551556 CAATGTTAAG
Statistics
Matches: 113, Mismatches: 11, Indels: 24
0.76 0.07 0.16
Matches are distributed among these distances:
20 1 0.01
21 19 0.17
22 25 0.22
23 28 0.25
24 36 0.32
25 2 0.02
26 2 0.02
ACGTcount: A:0.51, C:0.03, G:0.08, T:0.38
Consensus pattern (23 bp):
AATAGTAATGATAAATTTAAAAT
Found at i:11551580 original size:46 final size:44
Alignment explanation
Indices: 11551478--11551586 Score: 134
Period size: 46 Copynumber: 2.4 Consensus size: 44
11551468 TCATGTATGA
* *
11551478 TAAAT-TTAAATAATATTAATGATAATTTAAAATAATAGTATAT
1 TAAATATTAAATAATACTAATGATAATTTAAAACAATAGTATAT
11551521 TAAATATTAAAATAATACTAATGATAAATTTAAAACAAT-GT-TAAGCT
1 TAAATATT-AAATAATACTAATGAT-AATTTAAAACAATAGTAT-A--T
11551568 TAAATATTAAATAATACTA
1 TAAATATTAAATAATACTA
11551587 GATTTTAAAA
Statistics
Matches: 58, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
43 5 0.09
44 3 0.05
45 18 0.31
46 23 0.40
47 9 0.16
ACGTcount: A:0.54, C:0.04, G:0.05, T:0.38
Consensus pattern (44 bp):
TAAATATTAAATAATACTAATGATAATTTAAAACAATAGTATAT
Found at i:11558718 original size:17 final size:17
Alignment explanation
Indices: 11558681--11558718 Score: 51
Period size: 19 Copynumber: 2.2 Consensus size: 17
11558671 GTTTTACCAT
11558681 TTTTGGAGTATGACTTGG
1 TTTTGGAGTATGAC-TGG
11558699 TTTTGAGAGTATGA-TGG
1 TTTTG-GAGTATGACTGG
11558716 TTT
1 TTT
11558719 ACGGAGTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 5 0.26
19 8 0.42
ACGTcount: A:0.18, C:0.03, G:0.32, T:0.47
Consensus pattern (17 bp):
TTTTGGAGTATGACTGG
Found at i:11566095 original size:98 final size:98
Alignment explanation
Indices: 11565921--11566117 Score: 367
Period size: 98 Copynumber: 2.0 Consensus size: 98
11565911 GTACAATAAA
*
11565921 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* *
11565986 CCTTTAGAATCCCAAACTTGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
11566019 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
11566084 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
11566117 A
1 A
11566118 TTATTTTTAA
Statistics
Matches: 96, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
98 96 1.00
ACGTcount: A:0.37, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCGGAATATTTCCTTT
Found at i:11566843 original size:17 final size:17
Alignment explanation
Indices: 11566810--11566845 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11566800 AAAATATAGG
* *
11566810 AAAATATTAGTTTAAAA
1 AAAATATTAGCTGAAAA
11566827 AAAATATTAGCTGAAAA
1 AAAATATTAGCTGAAAA
11566844 AA
1 AA
11566846 TAAGTATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (17 bp):
AAAATATTAGCTGAAAA
Found at i:11572343 original size:30 final size:29
Alignment explanation
Indices: 11572307--11572374 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 29
11572297 TGAATGTAAG
*
11572307 AACTAAATTTACT-AATATAAAAAATATAAA
1 AACTAAATTTAATCAA-AT-AAAAATATAAA
* *
11572337 AACTAAAATTAATCAAATAAAAGTATAAA
1 AACTAAATTTAATCAAATAAAAATATAAA
*
11572366 AATTAAATT
1 AACTAAATT
11572375 CATAACTTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
29 17 0.53
30 13 0.41
31 2 0.06
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.29
Consensus pattern (29 bp):
AACTAAATTTAATCAAATAAAAATATAAA
Found at i:11577678 original size:146 final size:146
Alignment explanation
Indices: 11577386--11577682 Score: 524
Period size: 146 Copynumber: 2.0 Consensus size: 146
11577376 GAAAATTTCC
11577386 ACCATGTCCTATTTGTAAGAGGACAAATCATGCTAAAAAGGATTGACGATTCAAGGAAAAAGACA
1 ACCATGTCCTATTTGTAAGAGGACAAATCATGCTAAAAAGGATTGACGATTCAAGGAAAAAGACA
*
11577451 AGTCCAAATTTCAGTGTATTTTTTGCCAAAAGTCTGGACATACTAAAGATTTTTGTTGGGTCAAG
66 AGTCCAAATTTCAGTGTATTTTTTGCCAAAAGTCTGGACATACTAAAGATTTTAGTTGGGTCAAG
11577516 AAGAAGCAAGCAAAAA
131 AAGAAGCAAGCAAAAA
* *
11577532 ACCATGTCCTATTTGTAAGAGGACAAATCATGCTGAAAAGGATTGTCGATTCAAGGAAAAAGACA
1 ACCATGTCCTATTTGTAAGAGGACAAATCATGCTAAAAAGGATTGACGATTCAAGGAAAAAGACA
* *
11577597 AGTCCAAATTTTAGTGTATTTTTTTGCCAAAAGTCTGGACATACTGACA-ATTTTAGTTGGGTCA
66 AGTCCAAATTTCAGTGTA-TTTTTTGCCAAAAGTCTGGACATACT-AAAGATTTTAGTTGGGTCA
11577661 AGAAGAAGCAAGCAAAAA
129 AGAAGAAGCAAGCAAAAA
11577679 ACCA
1 ACCA
11577683 AGATCAATAG
Statistics
Matches: 144, Mismatches: 5, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
146 80 0.56
147 62 0.43
148 2 0.01
ACGTcount: A:0.39, C:0.15, G:0.20, T:0.26
Consensus pattern (146 bp):
ACCATGTCCTATTTGTAAGAGGACAAATCATGCTAAAAAGGATTGACGATTCAAGGAAAAAGACA
AGTCCAAATTTCAGTGTATTTTTTGCCAAAAGTCTGGACATACTAAAGATTTTAGTTGGGTCAAG
AAGAAGCAAGCAAAAA
Found at i:11580782 original size:36 final size:35
Alignment explanation
Indices: 11580735--11580854 Score: 136
Period size: 36 Copynumber: 3.3 Consensus size: 35
11580725 TATTCCAACT
* *
11580735 GAAACACACCAGATGATCATAAGAGCTAATCCATCC
1 GAAACACACCAGATGCTCATAAGAGCTAGTCCA-CC
*
11580771 GAAACACACCAGATGCTCATAAGAGCCAGTCCACC
1 GAAACACACCAGATGCTCATAAGAGCTAGTCCACC
*
11580806 TGATAACATACCA-ATGGCTCCA-AAGAGCTAGTCCAACC
1 -GA-AACACACCAGAT-GCT-CATAAGAGCTAGTCC-ACC
11580844 GAAACACACCA
1 GAAACACACCA
11580855 AAACATAGAG
Statistics
Matches: 73, Mismatches: 6, Indels: 10
0.82 0.07 0.11
Matches are distributed among these distances:
35 2 0.03
36 42 0.58
37 24 0.33
38 5 0.07
ACGTcount: A:0.40, C:0.31, G:0.15, T:0.14
Consensus pattern (35 bp):
GAAACACACCAGATGCTCATAAGAGCTAGTCCACC
Found at i:11583384 original size:14 final size:14
Alignment explanation
Indices: 11583365--11583393 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11583355 ATCACTAGAT
11583365 AAATCAAAATTTAA
1 AAATCAAAATTTAA
11583379 AAATCAAAATTTAA
1 AAATCAAAATTTAA
11583393 A
1 A
11583394 CTAAAGATCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (14 bp):
AAATCAAAATTTAA
Found at i:11583403 original size:19 final size:18
Alignment explanation
Indices: 11583376--11583415 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
11583366 AATCAAAATT
11583376 TAAAAATCAAAATTTAAAC
1 TAAAAATC-AAATTTAAAC
* *
11583395 TAAAGATCAATTTTAAAC
1 TAAAAATCAAATTTAAAC
11583413 TAA
1 TAA
11583416 TTACAAATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
18 12 0.63
19 7 0.37
ACGTcount: A:0.57, C:0.10, G:0.03, T:0.30
Consensus pattern (18 bp):
TAAAAATCAAATTTAAAC
Found at i:11584920 original size:21 final size:21
Alignment explanation
Indices: 11584883--11584925 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
11584873 TTTCTTTTAT
*
11584883 ATTCAACATAAATTAAACTGA
1 ATTCAAAATAAATTAAACTGA
*
11584904 ATTCAAAATTAAA-TAAATTGA
1 ATTCAAAA-TAAATTAAACTGA
11584925 A
1 A
11584926 ATAACTTTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 15 0.79
22 4 0.21
ACGTcount: A:0.56, C:0.09, G:0.05, T:0.30
Consensus pattern (21 bp):
ATTCAAAATAAATTAAACTGA
Found at i:11586866 original size:19 final size:19
Alignment explanation
Indices: 11586842--11586879 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
11586832 AAAGTTAATA
11586842 ACAAATTTGATTACGGTGG
1 ACAAATTTGATTACGGTGG
11586861 ACAAATTTGATTACGGTGG
1 ACAAATTTGATTACGGTGG
11586880 GTGACAGTGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.32, C:0.11, G:0.26, T:0.32
Consensus pattern (19 bp):
ACAAATTTGATTACGGTGG
Found at i:11590266 original size:9 final size:9
Alignment explanation
Indices: 11590249--11590285 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11590239 TGAGTTTTCG
11590249 AATTCGAAT
1 AATTCGAAT
*
11590258 AACTCGAAT
1 AATTCGAAT
11590267 AATTCGAAT
1 AATTCGAAT
11590276 AATTCGAAT
1 AATTCGAAT
11590285 A
1 A
11590286 TTAAACTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 26 1.00
ACGTcount: A:0.46, C:0.14, G:0.11, T:0.30
Consensus pattern (9 bp):
AATTCGAAT
Found at i:11591223 original size:20 final size:20
Alignment explanation
Indices: 11591198--11591237 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
11591188 AATATTTTCC
*
11591198 AGTAAATCATTTTACAGAAA
1 AGTAAAACATTTTACAGAAA
*
11591218 AGTAAAACATTTTCCAGAAA
1 AGTAAAACATTTTACAGAAA
11591238 TTATTTTACG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.50, C:0.12, G:0.10, T:0.28
Consensus pattern (20 bp):
AGTAAAACATTTTACAGAAA
Found at i:11591252 original size:34 final size:35
Alignment explanation
Indices: 11591186--11591252 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
11591176 CAAACACCAG
*
11591186 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
11591221 AAAACATTTTCCAG-AAATTATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
11591253 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 16 0.55
35 13 0.45
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:11597270 original size:9 final size:9
Alignment explanation
Indices: 11597241--11597307 Score: 80
Period size: 9 Copynumber: 7.4 Consensus size: 9
11597231 GTAGTGATTC
11597241 AATTCGGTT
1 AATTCGGTT
* **
11597250 AATTTGAAT
1 AATTCGGTT
*
11597259 AATTCAGTT
1 AATTCGGTT
11597268 AATTCGGTT
1 AATTCGGTT
11597277 AATTCGGTT
1 AATTCGGTT
*
11597286 AATTCGGGT
1 AATTCGGTT
*
11597295 AATTCGATT
1 AATTCGGTT
11597304 AATT
1 AATT
11597308 TTTAACCAAA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
9 47 1.00
ACGTcount: A:0.30, C:0.09, G:0.18, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:11599762 original size:16 final size:16
Alignment explanation
Indices: 11599741--11599772 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
11599731 TGTCACTCTT
11599741 AATAGGGCCACCAACA
1 AATAGGGCCACCAACA
11599757 AATAGGGCCACCAACA
1 AATAGGGCCACCAACA
11599773 CAATTATAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.44, C:0.31, G:0.19, T:0.06
Consensus pattern (16 bp):
AATAGGGCCACCAACA
Found at i:11603034 original size:25 final size:26
Alignment explanation
Indices: 11603006--11603061 Score: 96
Period size: 25 Copynumber: 2.2 Consensus size: 26
11602996 TTATCATCCC
*
11603006 AAAATCATGACAATTTTA-CCCTGGT
1 AAAATCATGACAATTTTACCCCGGGT
11603031 AAAATCATGACAATTTTACCCCGGGT
1 AAAATCATGACAATTTTACCCCGGGT
11603057 AAAAT
1 AAAAT
11603062 TTTGAGAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 18 0.62
26 11 0.38
ACGTcount: A:0.39, C:0.20, G:0.12, T:0.29
Consensus pattern (26 bp):
AAAATCATGACAATTTTACCCCGGGT
Found at i:11604362 original size:41 final size:41
Alignment explanation
Indices: 11604305--11604414 Score: 159
Period size: 41 Copynumber: 2.7 Consensus size: 41
11604295 TTTACTTTCA
* * *
11604305 GTATCATATCAGGCCTTGAGTCTAGTAGGCTTCGTGCTGGT
1 GTATCATATTAGGCCTTGAGCCTAGTAGGCTTCGTGCCGGT
* * *
11604346 GTATCATATTAGGCCTTGCGCCTAGCAGGTTTCGTGCCGGT
1 GTATCATATTAGGCCTTGAGCCTAGTAGGCTTCGTGCCGGT
11604387 GTATCATATTAGGCCTTGAGCCTA-TAGG
1 GTATCATATTAGGCCTTGAGCCTAGTAGG
11604415 TATATATTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 1
0.87 0.11 0.01
Matches are distributed among these distances:
40 3 0.05
41 58 0.95
ACGTcount: A:0.18, C:0.21, G:0.28, T:0.33
Consensus pattern (41 bp):
GTATCATATTAGGCCTTGAGCCTAGTAGGCTTCGTGCCGGT
Found at i:11604840 original size:75 final size:75
Alignment explanation
Indices: 11604771--11604950 Score: 229
Period size: 77 Copynumber: 2.4 Consensus size: 75
11604761 TTCTTCTGTA
*
11604771 ATTTAGAAATTATTTAATTTCTTAGAAACCATTTCATGATGCAAGT-TGTTTCATATATTAAATA
1 ATTTAG-AATTACTTAATTTCTTAGAAACCATTTCATGATGCAAGTATGTTTCATATATTAAATA
11604835 ATTCTTCCATG
65 ATTCTTCCATG
* * * * *
11604846 ATTTATGAATTACTTAA-TTCTTTAGACACCATTTCATGATTCATGTAATGTTTCATGTATTAAG
1 ATTTA-GAATTACTTAATTTC-TTAGAAACCATTTCATGATGCAAGT-ATGTTTCATATATTAAA
11604910 TAATTCTTCCATG
63 TAATTCTTCCATG
* *
11604923 ATTTTGGAATTACTTAATTTCATAGAAA
1 A-TTTAGAATTACTTAATTTCTTAGAAA
11604951 ATACAAATTA
Statistics
Matches: 90, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
74 3 0.03
75 36 0.40
76 1 0.01
77 44 0.49
78 6 0.07
ACGTcount: A:0.33, C:0.12, G:0.10, T:0.44
Consensus pattern (75 bp):
ATTTAGAATTACTTAATTTCTTAGAAACCATTTCATGATGCAAGTATGTTTCATATATTAAATAA
TTCTTCCATG
Found at i:11604925 original size:77 final size:75
Alignment explanation
Indices: 11604746--11604950 Score: 236
Period size: 75 Copynumber: 2.7 Consensus size: 75
11604736 CAGTAATATA
** ** * *
11604746 TCATGTATTAAGTTTTTCTTCTGTAATTTA-GAAATTATTTAATTTCTTAGAAACCATTTCATGA
1 TCATGTATTAAGTAATTCTTCCATGATTTATG-AATTACTTAATTTCTTAGAAACCATTTCATGA
11604810 TGCAAGTTGTT
65 TGCAAGTTGTT
* * *
11604821 TCATATATTAAATAATTCTTCCATGATTTATGAATTACTTAA-TTCTTTAGACACCATTTCATGA
1 TCATGTATTAAGTAATTCTTCCATGATTTATGAATTACTTAATTTC-TTAGAAACCATTTCATGA
* *
11604885 TTCATGTAATGTT
65 TGCAAGT--TGTT
*
11604898 TCATGTATTAAGTAATTCTTCCATGATTT-TGGAATTACTTAATTTCATAGAAA
1 TCATGTATTAAGTAATTCTTCCATGATTTAT-GAATTACTTAATTTCTTAGAAA
11604951 ATACAAATTA
Statistics
Matches: 109, Mismatches: 15, Indels: 10
0.81 0.11 0.07
Matches are distributed among these distances:
74 3 0.03
75 54 0.50
76 2 0.02
77 47 0.43
78 3 0.03
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (75 bp):
TCATGTATTAAGTAATTCTTCCATGATTTATGAATTACTTAATTTCTTAGAAACCATTTCATGAT
GCAAGTTGTT
Found at i:11605180 original size:16 final size:16
Alignment explanation
Indices: 11605159--11605191 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11605149 AATATATATA
11605159 TTAAGTTTTTTATGTT
1 TTAAGTTTTTTATGTT
11605175 TTAAGTTTTTTATGTT
1 TTAAGTTTTTTATGTT
11605191 T
1 T
11605192 AAAAAAATAT
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:0.18, C:0.00, G:0.12, T:0.70
Consensus pattern (16 bp):
TTAAGTTTTTTATGTT
Found at i:11605263 original size:31 final size:30
Alignment explanation
Indices: 11605228--11605293 Score: 107
Period size: 31 Copynumber: 2.2 Consensus size: 30
11605218 TTAAGTTTTT
*
11605228 AGTTTTAGTTTTCAATTTCATTTCCCCTGAC
1 AGTTTAAGTTTTCAATTTCATTTCCCC-GAC
11605259 AGTTTAAGTTTTCAATTTCATTTCCCCGAC
1 AGTTTAAGTTTTCAATTTCATTTCCCCGAC
11605289 A-TTTA
1 AGTTTA
11605294 CTCTTCTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 4 0.12
30 4 0.12
31 26 0.76
ACGTcount: A:0.23, C:0.21, G:0.09, T:0.47
Consensus pattern (30 bp):
AGTTTAAGTTTTCAATTTCATTTCCCCGAC
Found at i:11605359 original size:13 final size:14
Alignment explanation
Indices: 11605336--11605366 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
11605326 TATATATTTA
11605336 TTTTTATGTTTAAG
1 TTTTTATGTTTAAG
11605350 TTTTTA-GTTTAAG
1 TTTTTATGTTTAAG
11605363 TTTT
1 TTTT
11605367 CAATTTTATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 11 0.65
14 6 0.35
ACGTcount: A:0.19, C:0.00, G:0.13, T:0.68
Consensus pattern (14 bp):
TTTTTATGTTTAAG
Found at i:11605636 original size:16 final size:16
Alignment explanation
Indices: 11605615--11605653 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
11605605 ATTTTGTTAC
*
11605615 AACAATTAATATAATT
1 AACAATTAATACAATT
11605631 AACAATTAATACAATT
1 AACAATTAATACAATT
*
11605647 AATAATT
1 AACAATT
11605654 TGATAATTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.56, C:0.08, G:0.00, T:0.36
Consensus pattern (16 bp):
AACAATTAATACAATT
Found at i:11605674 original size:75 final size:74
Alignment explanation
Indices: 11605589--11605728 Score: 235
Period size: 75 Copynumber: 1.9 Consensus size: 74
11605579 AAAAATGTAA
* * *
11605589 ACTAATCAAATTTTAGATTTTGTTACAACAATTAATATAATTAACAATTAATACAATTAATAATT
1 ACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATA-AATTAATAATT
11605654 TGATAATTTT
65 TGATAATTTT
*
11605664 ACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAATTTAATAATTT
1 ACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAAATTAATAATTT
11605729 TACTAACAAT
Statistics
Matches: 61, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
74 11 0.18
75 50 0.82
ACGTcount: A:0.46, C:0.09, G:0.04, T:0.41
Consensus pattern (74 bp):
ACTAATCAAATGTTAGATTTTATTACAACAATTAATACAATTAACAATTAATAAATTAATAATTT
GATAATTTT
Found at i:11605744 original size:16 final size:16
Alignment explanation
Indices: 11605723--11605764 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
11605713 AATAATTTAA
*
11605723 TAATTTTACTAACAAT
1 TAATTTTAATAACAAT
11605739 TAATTTTAATAACAAT
1 TAATTTTAATAACAAT
*
11605755 TAGTTTTAAT
1 TAATTTTAAT
11605765 TTTATCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.43, C:0.07, G:0.02, T:0.48
Consensus pattern (16 bp):
TAATTTTAATAACAAT
Found at i:11605748 original size:22 final size:23
Alignment explanation
Indices: 11605738--11605788 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 23
11605728 TTACTAACAA
* * *
11605738 TTAATTTTA-ATAACAATTAGTT
1 TTAATTTTATAAAAAAATTAATT
*
11605760 TTAATTTTATCAAAAAATTAATT
1 TTAATTTTATAAAAAAATTAATT
11605783 TTAATT
1 TTAATT
11605789 AAAAACGGGC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
22 9 0.38
23 15 0.62
ACGTcount: A:0.43, C:0.04, G:0.02, T:0.51
Consensus pattern (23 bp):
TTAATTTTATAAAAAAATTAATT
Found at i:11605959 original size:77 final size:76
Alignment explanation
Indices: 11605866--11606211 Score: 329
Period size: 77 Copynumber: 4.5 Consensus size: 76
11605856 ACAGGTTTAA
* * * *
11605866 TATTAAGTAATACTTTCTAATTTTATGAATTACTTAATTTCTTGGAAACCTTTTCATGTTTTAAG
1 TATTAAGTAATTCTTTCTGA-TTTAAGAATTACTTAATTTCTTAGAAACCTTTTCATGTTTTAAG
*
11605931 TAACATTTAATG
65 TAACATTTCATG
* * * **
11605943 GATTAAGTAATTCTTTCATGATTTAGGAATAACTTAATTTCTTAGAAACCACTTCATGTTTTACA
1 TATTAAGTAATTCTTTC-TGATTTAAGAATTACTTAATTTCTTAGAAACCTTTTCATGTTTTA-A
*
11606008 -TAATCGTTT-ATG
64 GTAA-CATTTCATG
* * * **
11606020 TTTTAAGTAATT-TTACCTGATTTAAGAATTATTTAATTTCTTAGAAACCTTTTTCACATTTTAA
1 TATTAAGTAATTCTT-TCTGATTTAAGAATTACTTAATTTCTTAGAAACC-TTTTCATGTTTTAA
11606084 GTAACATTTCATG
64 GTAACATTTCATG
* * * * * * * * *
11606097 TATTAAGTGATTCGTTTATGATTTACGAATTGCTTAATTTTTTAAAAATCTTTTCATGTTTTCAC
1 TATTAAGTAATTC-TTTCTGATTTAAGAATTACTTAATTTCTTAGAAACCTTTTCATGTTTTAAG
*
11606162 CAACATTTCATG
65 TAACATTTCATG
* * *
11606174 TATTAAGTAATTATTCCTTGATTTAAGTAATTTCTTAA
1 TATTAAGTAATTCTTTC-TGATTTAAG-AATTACTTAA
11606212 AAAAAAATCA
Statistics
Matches: 217, Mismatches: 41, Indels: 21
0.78 0.15 0.08
Matches are distributed among these distances:
76 38 0.18
77 135 0.62
78 42 0.19
79 2 0.01
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.47
Consensus pattern (76 bp):
TATTAAGTAATTCTTTCTGATTTAAGAATTACTTAATTTCTTAGAAACCTTTTCATGTTTTAAGT
AACATTTCATG
Found at i:11606087 original size:154 final size:154
Alignment explanation
Indices: 11605887--11606211 Score: 381
Period size: 154 Copynumber: 2.1 Consensus size: 154
11605877 ACTTTCTAAT
* * **
11605887 TTTATGAATTACTTAATTTCTTGGAAACCTTTTCATGTTTTAAGTAACATTTAATGGATTAAGTA
1 TTTAAGAATTACTTAATTTCTTAGAAACCTTTTCACATTTTAAGTAACATTTAATGGATTAAGTA
* * * *
11605952 ATTC-TTTCATGATTTAGGAATAACTTAATTTCTTAGAAACCACTTCATGTTTT-ACATAATCGT
66 ATTCGTTT-ATGATTTACGAATAACTTAATTTCTTAAAAACCACTTCATGTTTTCAC-CAA-CAT
*
11606015 TT-ATGTTTTAAGTAATT-TTACC-TGA
128 TTCATGTATTAAGTAATTATT-CCTTGA
* * *
11606040 TTTAAGAATTATTTAATTTCTTAGAAACCTTTTTCACATTTTAAGTAACATTTCATGTATTAAGT
1 TTTAAGAATTACTTAATTTCTTAGAAACC-TTTTCACATTTTAAGTAACATTTAATGGATTAAGT
* ** * * **
11606105 GATTCGTTTATGATTTACGAATTGCTTAATTTTTTAAAAATCTTTTCATGTTTTCACCAACATTT
65 AATTCGTTTATGATTTACGAATAACTTAATTTCTTAAAAACCACTTCATGTTTTCACCAACATTT
11606170 CATGTATTAAGTAATTATTCCTTGA
130 CATGTATTAAGTAATTATTCCTTGA
*
11606195 TTTAAGTAATTTCTTAA
1 TTTAAG-AATTACTTAA
11606212 AAAAAAATCA
Statistics
Matches: 144, Mismatches: 21, Indels: 11
0.82 0.12 0.06
Matches are distributed among these distances:
153 30 0.21
154 90 0.62
155 16 0.11
156 8 0.06
ACGTcount: A:0.31, C:0.12, G:0.10, T:0.47
Consensus pattern (154 bp):
TTTAAGAATTACTTAATTTCTTAGAAACCTTTTCACATTTTAAGTAACATTTAATGGATTAAGTA
ATTCGTTTATGATTTACGAATAACTTAATTTCTTAAAAACCACTTCATGTTTTCACCAACATTTC
ATGTATTAAGTAATTATTCCTTGA
Found at i:11609505 original size:14 final size:14
Alignment explanation
Indices: 11609483--11609536 Score: 74
Period size: 14 Copynumber: 3.9 Consensus size: 14
11609473 TTAATTATCA
11609483 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
*
11609497 TTATGGTTTAGGGT
1 TTATAGTTTAGGGT
*
11609511 ATATAGTTTAGGGT
1 TTATAGTTTAGGGT
11609525 TTA-AGGTTTAGG
1 TTATA-GTTTAGG
11609537 AGTTACTATT
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
13 1 0.03
14 34 0.97
ACGTcount: A:0.22, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:11609522 original size:28 final size:28
Alignment explanation
Indices: 11609483--11609559 Score: 102
Period size: 28 Copynumber: 2.7 Consensus size: 28
11609473 TTAATTATCA
11609483 TTATAGTTTAGGGTTTATGGTTTAGG-G
1 TTATAGTTTAGGGTTTATGGTTTAGGAG
*
11609510 TATATAGTTTAGGGTTTAAGGTTTAGGAG
1 T-TATAGTTTAGGGTTTATGGTTTAGGAG
* *
11609539 TTACTATTTTAAGGTTTATGG
1 TTA-TAGTTTAGGGTTTATGG
11609560 ATTATGGATT
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
27 1 0.02
28 26 0.60
29 16 0.37
ACGTcount: A:0.23, C:0.01, G:0.29, T:0.47
Consensus pattern (28 bp):
TTATAGTTTAGGGTTTATGGTTTAGGAG
Found at i:11609576 original size:15 final size:14
Alignment explanation
Indices: 11609551--11609585 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
11609541 ACTATTTTAA
*
11609551 GGTTTATGGATTAT
1 GGTTTAGGGATTAT
11609565 GGATTTAGGGATTAT
1 GG-TTTAGGGATTAT
11609580 GGTTTA
1 GGTTTA
11609586 AGGGTTGGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.23, C:0.00, G:0.31, T:0.46
Consensus pattern (14 bp):
GGTTTAGGGATTAT
Found at i:11620273 original size:24 final size:24
Alignment explanation
Indices: 11620210--11620261 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11620200 TTTATAGAAG
* * *
11620210 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11620234 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11620258 ATTT
1 ATTT
11620262 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:11625676 original size:497 final size:497
Alignment explanation
Indices: 11624742--11625697 Score: 1831
Period size: 497 Copynumber: 1.9 Consensus size: 497
11624732 ATCAGGATCC
11624742 ATTTACTATATGAAAACACATTTTCAAATGTTTGGAATCATCATACTATCGCAATATAAGAATAT
1 ATTTACTATATGAAAACACATTTTCAAATGTTTGGAATCATCATACTATCGCAATATAAGAATAT
*
11624807 GGCATGTATAGCTAGACTCACACGCACTACGTTAGTCCTAGAATCGACTAAACCATAGCTCTGGT
66 GGCATGTATAGCTAGACTCACACGCACTACGCTAGTCCTAGAATCGACTAAACCATAGCTCTGGT
*
11624872 ACCAATCAAATGTAACACCCCTAGCCCGTATCCGTCGCCGGATTAGGGTCACGAGGCATTACCGA
131 ACCAATCAAATGTAACACCCCTAGCCCATATCCGTCGCCGGATTAGGGTCACGAGGCATTACCGA
11624937 CCAAAACACAACTCAGAACAATCTTTCATTTTAAATTATGCACAAATTATATTAATTCAATCACG
196 CCAAAACACAACTCAGAACAATCTTTCATTTTAAATTATGCACAAATTATATTAATTCAATCACG
*
11625002 AAAATTTTAAACTCAAATAGTAACTAGCAGTTAAATCATATAAATCACATTCGCATATATAGATT
261 AAAATTTTAAACTCAAATAGTAACTAGCAGTTAAATCATATAAATCACATTCGCACATATAGATT
*
11625067 ACTTAACCAACTAAAAACCAATCATGCTTTACTACTTTTAATACATAAGTAATTTATGCTTTAAA
326 ACTTAACCAACTAAAAACCAATCATGCTTTACTACTTTTAATACATAAGCAATTTATGCTTTAAA
11625132 ATTTAAACATATCAATATTATTTACTTAATCACCTATTCGACCCAATTAATATACATCATATCAT
391 ATTTAAACATATCAATATTATTTACTTAATCACCTATTCGACCCAATTAATATACATCATATCAT
11625197 AATATTTACTATCTACTTAATCACCTATTCGACCTAATTAAT
456 AATATTTACTATCTACTTAATCACCTATTCGACCTAATTAAT
11625239 ATTTACTATATGAAAACACATTTTCAAATGTTTGGAATCATCATACTATCGCAATATAAGAATAT
1 ATTTACTATATGAAAACACATTTTCAAATGTTTGGAATCATCATACTATCGCAATATAAGAATAT
11625304 GGCATGTATAGCTAGACTCACACGCACTACGCTAGTCCTAGAATCGACTAAACCATAGCTCTGGT
66 GGCATGTATAGCTAGACTCACACGCACTACGCTAGTCCTAGAATCGACTAAACCATAGCTCTGGT
11625369 ACCAATCAAATGTAACACCCCTAGCCCATATCCGTCGCCGGATTAGGGTCACGAGGCATTACCGA
131 ACCAATCAAATGTAACACCCCTAGCCCATATCCGTCGCCGGATTAGGGTCACGAGGCATTACCGA
*
11625434 CCAAAACACAACTCAGAACAGTCTTTCATTTTAAATTATGCACAAATTATATTAATTCAATCACG
196 CCAAAACACAACTCAGAACAATCTTTCATTTTAAATTATGCACAAATTATATTAATTCAATCACG
*
11625499 AAAATTTTAAACTCAAATAGTAACTAGCAGTTAAATCATATAAATCACATTTGCACATATAGATT
261 AAAATTTTAAACTCAAATAGTAACTAGCAGTTAAATCATATAAATCACATTCGCACATATAGATT
* * *
11625564 ACTTAACCAACTAAAAACCAGTCTTGCTTTACTACTTTTAATACATAAGCAATTTATTCTTTAAA
326 ACTTAACCAACTAAAAACCAATCATGCTTTACTACTTTTAATACATAAGCAATTTATGCTTTAAA
11625629 ATTTAAACATATCAATATTATTTACTTAATCACCTATTCGACCCAATTAATATACATCATATCAT
391 ATTTAAACATATCAATATTATTTACTTAATCACCTATTCGACCCAATTAATATACATCATATCAT
11625694 AATA
456 AATA
11625698 CATATACTAT
Statistics
Matches: 450, Mismatches: 9, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
497 450 1.00
ACGTcount: A:0.38, C:0.21, G:0.10, T:0.31
Consensus pattern (497 bp):
ATTTACTATATGAAAACACATTTTCAAATGTTTGGAATCATCATACTATCGCAATATAAGAATAT
GGCATGTATAGCTAGACTCACACGCACTACGCTAGTCCTAGAATCGACTAAACCATAGCTCTGGT
ACCAATCAAATGTAACACCCCTAGCCCATATCCGTCGCCGGATTAGGGTCACGAGGCATTACCGA
CCAAAACACAACTCAGAACAATCTTTCATTTTAAATTATGCACAAATTATATTAATTCAATCACG
AAAATTTTAAACTCAAATAGTAACTAGCAGTTAAATCATATAAATCACATTCGCACATATAGATT
ACTTAACCAACTAAAAACCAATCATGCTTTACTACTTTTAATACATAAGCAATTTATGCTTTAAA
ATTTAAACATATCAATATTATTTACTTAATCACCTATTCGACCCAATTAATATACATCATATCAT
AATATTTACTATCTACTTAATCACCTATTCGACCTAATTAAT
Found at i:11631849 original size:25 final size:24
Alignment explanation
Indices: 11631804--11631853 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 24
11631794 TTTCTAGAAG
*
11631804 ATTTAGTATTTATGAGTATAAATAT
1 ATTTAGTATTTATGAGCAT-AATAT
*
11631829 ATTTAGTATTTATTAGCATAATAT
1 ATTTAGTATTTATGAGCATAATAT
11631853 A
1 A
11631854 GTTGACTTTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.26
25 17 0.74
ACGTcount: A:0.40, C:0.02, G:0.10, T:0.48
Consensus pattern (24 bp):
ATTTAGTATTTATGAGCATAATAT
Found at i:11634869 original size:19 final size:17
Alignment explanation
Indices: 11634843--11634885 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 17
11634833 AAAATAACAT
11634843 TTTGAAATTGAATAATGA
1 TTTGAAA-TGAATAATGA
*
11634861 TTTGTAAATGAATAATGT
1 TTTG-AAATGAATAATGA
11634879 TTTGAAA
1 TTTGAAA
11634886 ACGAACGACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 3 0.13
18 17 0.74
19 3 0.13
ACGTcount: A:0.42, C:0.00, G:0.16, T:0.42
Consensus pattern (17 bp):
TTTGAAATGAATAATGA
Found at i:11636154 original size:36 final size:36
Alignment explanation
Indices: 11636088--11636159 Score: 90
Period size: 36 Copynumber: 2.0 Consensus size: 36
11636078 GCCACTCAAC
* * *
11636088 TTTAAAATTACAACAACTAACCGATCTCTTTGCTTG
1 TTTAAAATTACAACAACTAACAGATATCTTTACTTG
* * *
11636124 TTTAAAATTACGACAAGTGACAGATATCTTTACTTG
1 TTTAAAATTACAACAACTAACAGATATCTTTACTTG
11636160 ACATATCATT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 30 1.00
ACGTcount: A:0.35, C:0.18, G:0.11, T:0.36
Consensus pattern (36 bp):
TTTAAAATTACAACAACTAACAGATATCTTTACTTG
Found at i:11639954 original size:98 final size:98
Alignment explanation
Indices: 11639785--11639981 Score: 376
Period size: 98 Copynumber: 2.0 Consensus size: 98
11639775 GTACAATAAA
*
11639785 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
*
11639850 CCTTTAGAATCCCAAACTTGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
11639883 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
11639948 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
66 CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
11639981 A
1 A
11639982 TTATTTTTAA
Statistics
Matches: 97, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
98 97 1.00
ACGTcount: A:0.37, C:0.24, G:0.11, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAGAATCCCAAACTCGGAATATTTCCTTT
Found at i:11640708 original size:16 final size:16
Alignment explanation
Indices: 11640676--11640710 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
11640666 AAAATATAGG
* *
11640676 AAAATATTAGTTTAAA
1 AAAATATTAGCTGAAA
11640692 AAAATATTAGCTGAAA
1 AAAATATTAGCTGAAA
11640708 AAA
1 AAA
11640711 TAAGTATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.60, C:0.03, G:0.09, T:0.29
Consensus pattern (16 bp):
AAAATATTAGCTGAAA
Found at i:11641336 original size:19 final size:19
Alignment explanation
Indices: 11641312--11641382 Score: 79
Period size: 19 Copynumber: 3.6 Consensus size: 19
11641302 AATCATATAT
11641312 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
**
11641331 TCTAAGATTATATATATCATA
1 TCTAAGA-T-TGCATATCATA
**
11641352 TCTTGGATTGCATATCATA
1 TCTAAGATTGCATATCATA
*
11641371 TTTAAGATTGCA
1 TCTAAGATTGCA
11641383 CATCCTCAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
19 25 0.61
20 2 0.05
21 14 0.34
ACGTcount: A:0.35, C:0.13, G:0.11, T:0.41
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:11641366 original size:21 final size:21
Alignment explanation
Indices: 11641289--11641379 Score: 57
Period size: 19 Copynumber: 4.4 Consensus size: 21
11641279 AAATTAAATC
*
11641289 TCTAAGATTACA-AAATCATATA
1 TCTAAGATTACATATATC--ATA
*
11641311 TTCTAAGATTGC--ATATCATA
1 -TCTAAGATTACATATATCATA
*
11641331 TCTAAGATTATATATATCATA
1 TCTAAGATTACATATATCATA
** *
11641352 TCTTGGATTGC--ATATCATA
1 TCTAAGATTACATATATCATA
*
11641371 TTTAAGATT
1 TCTAAGATT
11641380 GCACATCCTC
Statistics
Matches: 55, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
19 23 0.42
20 3 0.05
21 15 0.27
22 4 0.07
23 10 0.18
ACGTcount: A:0.38, C:0.12, G:0.09, T:0.41
Consensus pattern (21 bp):
TCTAAGATTACATATATCATA
Found at i:11641667 original size:45 final size:45
Alignment explanation
Indices: 11641562--11641907 Score: 292
Period size: 44 Copynumber: 7.9 Consensus size: 45
11641552 TGCCATCTTC
**
11641562 AGTCTGC-CTCACTGCAACTTCA-GGAGGATAAGACTTGCTTA-TTT
1 AGTCTGCTC-CACTGCAACTTCAGGGA-GATAAGACTTGCCAATTTT
11641606 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAATTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAATTTT
* *
11641651 AGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCCAATTTC
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAATTTT
* * ** *
11641696 AGTTTGCCCCACTGCAACTTCA-GGAGGATAAGACTTGCTTA-CTT
1 AGTCTGCTCCACTGCAACTTCAGGGA-GATAAGACTTGCCAATTTT
* ***
11641740 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTAG---ATGCG
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAATTTT
* * *
11641782 A-TCTGCT-CTCTGCAACTTCAGAGAGATAAGA-TCTG--AGGTTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT-TGCCA-ATTTT
* ** * *
11641824 AATCCACTCCACTGCAACTTCAGGGAGAT-AGAACTAT--CGACTTT
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAG-ACT-TGCCAATTTT
* * * *
11641868 AATCTGCTCCATTGCTATTTCAGGGAGATAAGACTTGCCA
1 AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCA
11641908 TCTTCGATTT
Statistics
Matches: 247, Mismatches: 38, Indels: 33
0.78 0.12 0.10
Matches are distributed among these distances:
39 1 0.00
40 23 0.09
41 7 0.03
42 3 0.01
43 7 0.03
44 115 0.47
45 91 0.37
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (45 bp):
AGTCTGCTCCACTGCAACTTCAGGGAGATAAGACTTGCCAATTTT
Found at i:11641742 original size:89 final size:89
Alignment explanation
Indices: 11641552--11641774 Score: 301
Period size: 89 Copynumber: 2.5 Consensus size: 89
11641542 TAGGAATTAG
* ** *
11641552 TGCC-ATCTTCAGTCTGC-CTCACTGCAACTTCAGGAGGATAAGACTTGCTTATTTAGTCTGCTC
1 TGCCAATCTT-AGTCTGCTC-CACTGCAACTTCAGGAAGATAAGACTTGCCAATTTAGTCTGCCC
11641615 CACTGCAACTTCAGGGAGATAAGACT
64 CACTGCAACTTCAGGGAGATAAGACT
* *
11641641 TGCCAATTTTAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCCAATTTCAGTTTGCCCC
1 TGCCAATCTTAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCCAATTT-AGTCTGCCCC
11641706 ACTGCAACTTCA-GGAGGATAAGACT
65 ACTGCAACTTCAGGGA-GATAAGACT
** *
11641731 TGCTTA-CTTAGTCTGCTCCACTGCAACTTCAGGGAGATAAGACT
1 TGCCAATCTTAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACT
11641775 AGATGCGATC
Statistics
Matches: 120, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
89 82 0.68
90 38 0.32
ACGTcount: A:0.26, C:0.26, G:0.20, T:0.29
Consensus pattern (89 bp):
TGCCAATCTTAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCCAATTTAGTCTGCCCCA
CTGCAACTTCAGGGAGATAAGACT
Found at i:11641813 original size:134 final size:132
Alignment explanation
Indices: 11641559--11641812 Score: 381
Period size: 134 Copynumber: 1.9 Consensus size: 132
11641549 TAGTGCCATC
* *
11641559 TTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGCTTATTTAGTCTGCTCCACTGCAAC
1 TTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAAC
* ***
11641624 TTCAGGGAGATAAGACTTGCCAATTTTAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGC
66 TTCAGGGAGATAAGACTAG-C-ATGCGAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGC
11641689 CAAT
129 CAAT
*
11641693 TTCAGTTTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAAC
1 TTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAAC
*
11641758 TTCAGGGAGATAAGACTAG-ATGCGA-TCTGCT-CTCTGCAACTTCA-GAGAGATAAGA
66 TTCAGGGAGATAAGACTAGCATGCGAGTCTGCTCCACTGCAACTTCAGGA-AGATAAGA
11641813 TCTGAGGTTT
Statistics
Matches: 111, Mismatches: 8, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
128 2 0.02
129 20 0.18
130 6 0.05
131 3 0.03
134 80 0.72
ACGTcount: A:0.27, C:0.24, G:0.20, T:0.28
Consensus pattern (132 bp):
TTCAGTCTGCCCCACTGCAACTTCAGGAGGATAAGACTTGCTTACTTAGTCTGCTCCACTGCAAC
TTCAGGGAGATAAGACTAGCATGCGAGTCTGCTCCACTGCAACTTCAGGAAGATAAGACTTGCCA
AT
Found at i:11649032 original size:98 final size:98
Alignment explanation
Indices: 11648858--11649054 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
11648848 GTACAATAAA
*
11648858 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACGATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
* **
11648923 CCTTTAGAATCCCAAACTTGGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
11648956 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
1 ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
11649021 CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
66 CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
11649054 A
1 A
11649055 TTATTTTTAA
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.29
Consensus pattern (98 bp):
ACTTTAAAAGAACATCCACTTATCCAAGATTTAAGAAATCACACCCAATACGTTAGGGCACAATT
CCTTTAAAATCCCAAACTCAGAATATTTCCTTT
Found at i:11649780 original size:17 final size:17
Alignment explanation
Indices: 11649747--11649782 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11649737 AAAATATAGG
* *
11649747 AAAATATTAGTTTAAAA
1 AAAATATTAGCTGAAAA
11649764 AAAATATTAGCTGAAAA
1 AAAATATTAGCTGAAAA
11649781 AA
1 AA
11649783 TAAGTATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.61, C:0.03, G:0.08, T:0.28
Consensus pattern (17 bp):
AAAATATTAGCTGAAAA
Found at i:11672133 original size:41 final size:41
Alignment explanation
Indices: 11672076--11672341 Score: 430
Period size: 41 Copynumber: 6.5 Consensus size: 41
11672066 GACTTTATGT
11672076 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
11672117 CTAGCAGGCTAAGTGCCGGTGATCTGAATTAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
** * *
11672158 CTAGCAGGCT-AGTGTTGGTGATCTGAATCAGGCTATCAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
* *
11672198 CTAGCAAGCT-AGTACCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
11672238 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
11672279 CTAGCAGGCTAAGTGCCGGTGATCTGAATCA-GTCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT-TATAAAC
11672320 CTAGCAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
11672342 ATATGTTAAA
Statistics
Matches: 208, Mismatches: 15, Indels: 4
0.92 0.07 0.02
Matches are distributed among these distances:
40 70 0.34
41 138 0.66
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.25
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:11678802 original size:17 final size:17
Alignment explanation
Indices: 11678769--11678802 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
11678759 TTGTGTTTTG
*
11678769 TGCAAAAAGGACTAAAT
1 TGCAAAAAGGACAAAAT
*
11678786 TGCAAAAAGTACAAAAT
1 TGCAAAAAGGACAAAAT
11678803 GTTAGGGGAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.56, C:0.12, G:0.15, T:0.18
Consensus pattern (17 bp):
TGCAAAAAGGACAAAAT
Found at i:11680196 original size:41 final size:41
Alignment explanation
Indices: 11680088--11680272 Score: 293
Period size: 41 Copynumber: 4.5 Consensus size: 41
11680078 GACTTTATGT
* * *
11680088 CTAGCAGGCTCAGTGCCGGTGATCTGAATCAGGCTATCAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
11680129 CTAGCAAGCT-AGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
11680169 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
*
11680210 CTAGCAGGCTAAGTGCCGGTGATCTGAATCA-GTCTATAAGC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGT-TATAAAC
*
11680251 CTAGTAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
11680273 ATATGTTAAA
Statistics
Matches: 136, Mismatches: 6, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
40 39 0.29
41 97 0.71
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAAC
Found at i:11680260 original size:82 final size:81
Alignment explanation
Indices: 11680088--11680272 Score: 291
Period size: 81 Copynumber: 2.3 Consensus size: 81
11680078 GACTTTATGT
* *
11680088 CTAGCAGGCTCAGTGCCGGTGATCTGAATCAGGCTATCAACCTAGCAAGCTAGTGCCGGTGATCT
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAACCTAGCAAGCTAGTGCCGGTGATCT
11680153 GAATCAGGTTATAAAC
66 GAATCAGGTTATAAAC
* *
11680169 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAACCTAGCAGGCTAAGTGCCGGTGATC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAACCTAGCAAGCT-AGTGCCGGTGATC
*
11680234 TGAATCA-GTCTATAAGC
65 TGAATCAGGT-TATAAAC
*
11680251 CTAGTAGGCTAAGTGCCGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
11680273 ATATGTTAAA
Statistics
Matches: 96, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
81 49 0.51
82 47 0.49
ACGTcount: A:0.27, C:0.22, G:0.28, T:0.24
Consensus pattern (81 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAACCTAGCAAGCTAGTGCCGGTGATCT
GAATCAGGTTATAAAC
Found at i:11685430 original size:22 final size:22
Alignment explanation
Indices: 11685405--11685449 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
11685395 ATTATGAGTA
11685405 TTAATTCATAATATAA-TTAATT
1 TTAATT-ATAATATAATTTAATT
* *
11685427 TTAATTTTAATCTAATTTAATT
1 TTAATTATAATATAATTTAATT
11685449 T
1 T
11685450 GGGTTAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.40, C:0.04, G:0.00, T:0.56
Consensus pattern (22 bp):
TTAATTATAATATAATTTAATT
Found at i:11685994 original size:18 final size:20
Alignment explanation
Indices: 11685971--11686010 Score: 57
Period size: 18 Copynumber: 2.1 Consensus size: 20
11685961 ATTTGTGATG
*
11685971 TTAATAT-GTTTAA-TTTAA
1 TTAATATGGTCTAATTTTAA
11685989 TTAATATGGTCTAATTTTAA
1 TTAATATGGTCTAATTTTAA
11686009 TT
1 TT
11686011 CGTGTTAGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 7 0.37
19 5 0.26
20 7 0.37
ACGTcount: A:0.35, C:0.03, G:0.07, T:0.55
Consensus pattern (20 bp):
TTAATATGGTCTAATTTTAA
Found at i:11702685 original size:33 final size:33
Alignment explanation
Indices: 11702615--11702826 Score: 160
Period size: 33 Copynumber: 6.5 Consensus size: 33
11702605 ATATAAAGGG
*
11702615 GGTTGCTAAGTGCTGATTCCCC----CA-AGG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
11702642 GGTTGCTAAGTACTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* * * *
11702675 GGTTGATAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGG
1 GGTTGCTAAGTGCTGATTCC-CCG-A--AT-CAT-T---GGT
*
11702717 GGTTGCTAAGTGCTGATTCCTCG-A--A--GG-
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
11702744 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGC
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
* *
11702777 GGTTGTTAAGTCCTGATTCCCCGAATCATTGGT
1 GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
*
11702810 TGTTGCTAAGTGCTGAT
1 GGTTGCTAAGTGCTGAT
11702827 CCCACCGTAT
Statistics
Matches: 147, Mismatches: 17, Indels: 36
0.74 0.09 0.18
Matches are distributed among these distances:
27 43 0.29
28 3 0.02
30 1 0.01
31 2 0.01
32 4 0.03
33 62 0.42
34 4 0.03
35 1 0.01
37 1 0.01
38 2 0.01
39 1 0.01
41 2 0.01
42 21 0.14
ACGTcount: A:0.20, C:0.19, G:0.28, T:0.33
Consensus pattern (33 bp):
GGTTGCTAAGTGCTGATTCCCCGAATCATTGGT
Found at i:11702750 original size:27 final size:27
Alignment explanation
Indices: 11702715--11702768 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
11702705 AAATGTGAAG
*
11702715 GGGGTTGCTAAGTGCTGATTCCTCGAA
1 GGGGTTGCTAAGTGCTGATTCCCCGAA
11702742 GGGGTTGCTAAGTGCTGATTCCCCGAA
1 GGGGTTGCTAAGTGCTGATTCCCCGAA
11702769 TCATTGGCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.19, C:0.20, G:0.33, T:0.28
Consensus pattern (27 bp):
GGGGTTGCTAAGTGCTGATTCCCCGAA
Found at i:11702787 original size:102 final size:102
Alignment explanation
Indices: 11702610--11702796 Score: 320
Period size: 102 Copynumber: 1.8 Consensus size: 102
11702600 ATTGAATATA
*
11702610 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTACTGATTCCCCGAATCATTGGT
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTACTGATTCCCCGAATCATTGGC
*
11702675 GGTTGATAAGTGCTGATTCCACCGTATTTTAAATGTG
66 GGTTGATAAGTCCTGATTCCACCGTATTTTAAATGTG
* * *
11702712 AAGGGGGTTGCTAAGTGCTGATTCCTCGAAGGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGC
1 AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTACTGATTCCCCGAATCATTGGC
*
11702777 GGTTGTTAAGTCCTGATTCC
66 GGTTGATAAGTCCTGATTCC
11702797 CCGAATCATT
Statistics
Matches: 79, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
102 79 1.00
ACGTcount: A:0.21, C:0.19, G:0.29, T:0.31
Consensus pattern (102 bp):
AAGGGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTACTGATTCCCCGAATCATTGGC
GGTTGATAAGTCCTGATTCCACCGTATTTTAAATGTG
Found at i:11702807 original size:135 final size:129
Alignment explanation
Indices: 11702613--11702875 Score: 400
Period size: 135 Copynumber: 2.0 Consensus size: 129
11702603 GAATATAAAG
11702613 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGT
1 GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGT
* * *
11702678 TGATAAGTGCTGATTCCACCGTATTTTAAATGTGAAGGGGGTTGCTAAGTGCTGATTCCTCGAA
66 TGATAAGTGCTGATCCCACCGTATTTTAAATGTGAAAGGGGTTGCTAAGTGCTAATTCCTCGAA
* * *
11702742 GGGGTTGCTAAGTGCTGATTCCCCGAATCATTGGCGGTTGTTAAGTCCTGATTCCCCGAATCATT
1 GGGGTTGCTAAGTGCTGATTCCCC----CA-AGG-GGTTGCTAAGTACTGATTCCCCGAATCATT
* *
11702807 GGTTGTTGCTAAGTGCTGATCCCACCGTATTTTAAATGTGAAAGGGGTTGCTAAGTGCTAATTCC
60 GGTGGTTGATAAGTGCTGATCCCACCGTATTTTAAATGTGAAAGGGGTTGCTAAGTGCTAATTCC
11702872 TCGA
125 TCGA
11702876 TTCACTGGTG
Statistics
Matches: 120, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
129 24 0.20
133 2 0.02
134 2 0.02
135 92 0.77
ACGTcount: A:0.21, C:0.19, G:0.27, T:0.32
Consensus pattern (129 bp):
GGGGTTGCTAAGTGCTGATTCCCCCAAGGGGTTGCTAAGTACTGATTCCCCGAATCATTGGTGGT
TGATAAGTGCTGATCCCACCGTATTTTAAATGTGAAAGGGGTTGCTAAGTGCTAATTCCTCGAA
Found at i:11702901 original size:75 final size:76
Alignment explanation
Indices: 11702777--11702976 Score: 276
Period size: 76 Copynumber: 2.6 Consensus size: 76
11702767 AATCATTGGC
* * *
11702777 GGTTGTTAAGTCCTGATTCCCCGAATCATTGGTTGTTGCTAAGTGCTGATCCCACCGTA-TTTTA
1 GGTTGATAAGTCCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATTTTTA
11702841 AATGTGAAAGG
66 AATGTGAAAGG
* * * * * * * *
11702852 GGTTGCTAAGTGCTAATTCCTCGATTCACTGGTGGTTGCTAAGTTCTGATTCCACCGTATTTTTG
1 GGTTGATAAGTCCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATTTTTA
11702917 AATGTGAAAGG
66 AATGTGAAAGG
* *
11702928 GGTTGATAAGTCCTGATTCCCCAAATCACTGGTGGTTACTAAGTGCTGA
1 GGTTGATAAGTCCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGA
11702977 ATCCATCGAT
Statistics
Matches: 106, Mismatches: 18, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
75 50 0.47
76 56 0.53
ACGTcount: A:0.23, C:0.18, G:0.24, T:0.34
Consensus pattern (76 bp):
GGTTGATAAGTCCTGATTCCCCGAATCACTGGTGGTTGCTAAGTGCTGATCCCACCGTATTTTTA
AATGTGAAAGG
Found at i:11706753 original size:14 final size:14
Alignment explanation
Indices: 11706734--11706762 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
11706724 ACGTCTCTCC
11706734 ATACTTTCTCCTGG
1 ATACTTTCTCCTGG
11706748 ATACTTTCTCCTGG
1 ATACTTTCTCCTGG
11706762 A
1 A
11706763 AGTAGCAAAG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.17, C:0.28, G:0.14, T:0.41
Consensus pattern (14 bp):
ATACTTTCTCCTGG
Found at i:11711490 original size:5 final size:5
Alignment explanation
Indices: 11711480--11711511 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
11711470 TGTAACACTA
11711480 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT TT
11711512 AGTAGTGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (5 bp):
TTTCT
Found at i:11718149 original size:2 final size:2
Alignment explanation
Indices: 11718144--11718200 Score: 105
Period size: 2 Copynumber: 28.5 Consensus size: 2
11718134 GGGTCATATA
11718144 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
*
11718186 TG TG TG TA TG TG TG T
1 TG TG TG TG TG TG TG T
11718201 AAAGGATGAT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
2 53 1.00
ACGTcount: A:0.02, C:0.00, G:0.47, T:0.51
Consensus pattern (2 bp):
TG
Found at i:11731848 original size:4 final size:4
Alignment explanation
Indices: 11731839--11731863 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
11731829 GTTTGATTAT
11731839 ACTA ACTA ACTA ACTA ACTA ACTA A
1 ACTA ACTA ACTA ACTA ACTA ACTA A
11731864 AATTTGCAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACTA
Found at i:11733929 original size:73 final size:72
Alignment explanation
Indices: 11733833--11734108 Score: 277
Period size: 73 Copynumber: 3.8 Consensus size: 72
11733823 AAAAATTTGC
** * * **
11733833 TCTCACTTAATTAATAAAGCCAAATCCCTCAGGGGATGCAATCAAGTCAACAATTTGATTTCCAC
1 TCTCACTTAATTGGTAGAGCCAAATCCCTTAAAGGATGCAATCAAGTCAACAATTTGATTT-CAC
*
11733898 AGACTTGT
65 AAACTTGT
* * *
11733906 TCTCACTCAATTGGTAGAGCCAAATCTCTTAAAGGATGCAATCAAGTCAAACATTTTGATTTCAC
1 TCTCACTTAATTGGTAGAGCCAAATCCCTTAAAGGATGCAATCAAGTC-AACAATTTGATTTCAC
11733971 ATAA-TT-T
65 A-AACTTGT
* * * * * *
11733978 CTCCCACTTAATTAGTAGAGCCAAATCCCTTAAAGGATGTAATCAAATTAAACACTTTGACTTTC
1 -TCTCACTTAATTGGTAGAGCCAAATCCCTTAAAGGATGCAATC-AAGTCAACAATTTGA-TTTC
*
11734043 ACAAACTTGC
63 ACAAACTTGT
* * * * *
11734053 TCTCACTTAATCGATAGAGCTAAATCCCTTAAGGGATACAATCAAGTCAACCAATT
1 TCTCACTTAATTGGTAGAGCCAAATCCCTTAAAGGATGCAATCAAGTCAA-CAATT
11734109 CAGCCCGACA
Statistics
Matches: 165, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
72 1 0.01
73 100 0.61
74 64 0.39
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (72 bp):
TCTCACTTAATTGGTAGAGCCAAATCCCTTAAAGGATGCAATCAAGTCAACAATTTGATTTCACA
AACTTGT
Found at i:11733977 original size:147 final size:147
Alignment explanation
Indices: 11733826--11734102 Score: 351
Period size: 147 Copynumber: 1.9 Consensus size: 147
11733816 ATGTTCCAAA
* ** *
11733826 AATTTGCTCTCACTTAATTAATAAAGCCAAATCCCTCAGGGGATGCAATC-AAGTCAACAATTTG
1 AATTT-CTCCCACTTAATTAATAAAGCCAAATCCCTCAAAGGATGCAATCAAAGTAAACAATTTG
* * * * * *
11733890 A-TTTCCACAGACTTGTTCTCACTCAATTGGTAGAGCCAAATCTCTTAAAGGATGCAATCAAGTC
65 ACTTT-CACAAACTTGCTCTCACTCAATCGATAGAGCCAAATCCCTTAAAGGATACAATCAAGTC
11733954 AAACATTTTGATTTCACAT
129 AAACATTTTGATTTCACAT
* * * * * *
11733973 AATTTCTCCCACTTAATTAGTAGAGCCAAATCCCTTAAAGGATGTAATCAAATTAAACACTTTGA
1 AATTTCTCCCACTTAATTAATAAAGCCAAATCCCTCAAAGGATGCAATCAAAGTAAACAATTTGA
* * *
11734038 CTTTCACAAACTTGCTCTCACTTAATCGATAGAGCTAAATCCCTTAAGGGATACAATCAAGTCAA
66 CTTTCACAAACTTGCTCTCACTCAATCGATAGAGCCAAATCCCTTAAAGGATACAATCAAGTCAA
11734103 CCAATTCAGC
Statistics
Matches: 109, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
146 37 0.34
147 69 0.63
148 3 0.03
ACGTcount: A:0.35, C:0.22, G:0.13, T:0.30
Consensus pattern (147 bp):
AATTTCTCCCACTTAATTAATAAAGCCAAATCCCTCAAAGGATGCAATCAAAGTAAACAATTTGA
CTTTCACAAACTTGCTCTCACTCAATCGATAGAGCCAAATCCCTTAAAGGATACAATCAAGTCAA
ACATTTTGATTTCACAT
Found at i:11738918 original size:20 final size:20
Alignment explanation
Indices: 11738862--11738918 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 20
11738852 AAATTATAAA
*
11738862 AAAAATAATT-TTTAAAATT
1 AAAAATATTTATTTAAAATT
**
11738881 AAAAATATTTATAAAAAATT
1 AAAAATATTTATTTAAAATT
*
11738901 CAAAAT-TTATATTTAAAA
1 AAAAATATT-TATTTAAAA
11738919 ATTATAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
19 11 0.37
20 19 0.63
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.39
Consensus pattern (20 bp):
AAAAATATTTATTTAAAATT
Found at i:11739425 original size:24 final size:24
Alignment explanation
Indices: 11739398--11739449 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11739388 TTAGTAAGCC
*
11739398 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
11739422 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11739446 AAAT
1 AAAT
11739450 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11741393 original size:24 final size:24
Alignment explanation
Indices: 11741366--11741417 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11741356 TTAGTAAGCC
*
11741366 AAATAAACTATACTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
11741390 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
11741414 AAAT
1 AAAT
11741418 CTTTTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:11761729 original size:6 final size:6
Alignment explanation
Indices: 11761720--11761746 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
11761710 TATTTTTATT
11761720 TTTAAA TTTAAA TTTAAA TTTAAA TTT
1 TTTAAA TTTAAA TTTAAA TTTAAA TTT
11761747 TTATTTTTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (6 bp):
TTTAAA
Found at i:11761752 original size:12 final size:12
Alignment explanation
Indices: 11761701--11761752 Score: 50
Period size: 12 Copynumber: 4.2 Consensus size: 12
11761691 ATTCTAAAAA
11761701 TTAAATTTTTAT
1 TTAAATTTTTAT
**
11761713 TTTTATTTTTAAAT
1 TTAAATTTTT--AT
**
11761727 TTAAATTTAAAT
1 TTAAATTTTTAT
11761739 TTAAATTTTTAT
1 TTAAATTTTTAT
11761751 TT
1 TT
11761753 TTATTTTAAT
Statistics
Matches: 30, Mismatches: 8, Indels: 4
0.71 0.19 0.10
Matches are distributed among these distances:
12 22 0.73
14 8 0.27
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (12 bp):
TTAAATTTTTAT
Found at i:11761874 original size:12 final size:12
Alignment explanation
Indices: 11761857--11761881 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11761847 TGTGGCGTTT
11761857 AATTACCTATGG
1 AATTACCTATGG
11761869 AATTACCTATGG
1 AATTACCTATGG
11761881 A
1 A
11761882 TTGCTACCTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (12 bp):
AATTACCTATGG
Found at i:11772379 original size:13 final size:13
Alignment explanation
Indices: 11772361--11772385 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11772351 AAAACCCACA
11772361 TTTTAAATAAGAT
1 TTTTAAATAAGAT
11772374 TTTTAAATAAGA
1 TTTTAAATAAGA
11772386 CTTACTGTAA
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:0.48, C:0.00, G:0.08, T:0.44
Consensus pattern (13 bp):
TTTTAAATAAGAT
Found at i:11786829 original size:160 final size:160
Alignment explanation
Indices: 11786565--11786893 Score: 658
Period size: 160 Copynumber: 2.1 Consensus size: 160
11786555 TAAACATAAT
11786565 TATTTTTCTTCAATTTTTGATGATTTTCCAAAGTCAGAACAGGGGAACCCGAAATCATTCTGACA
1 TATTTTTCTTCAATTTTTGATGATTTTCCAAAGTCAGAACAGGGGAACCCGAAATCATTCTGACA
11786630 TTGTCTCACAAAATTTATTATATCTCATGATTTACAATTCTATTACTTACACCGTTTCTTCTATG
66 TTGTCTCACAAAATTTATTATATCTCATGATTTACAATTCTATTACTTACACCGTTTCTTCTATG
11786695 GGAAACTAGACTAAATAATATTTAATTCCA
131 GGAAACTAGACTAAATAATATTTAATTCCA
11786725 TATTTTTCTTCAATTTTTGATGATTTTCCAAAGTCAGAACAGGGGAACCCGAAATCATTCTGACA
1 TATTTTTCTTCAATTTTTGATGATTTTCCAAAGTCAGAACAGGGGAACCCGAAATCATTCTGACA
11786790 TTGTCTCACAAAATTTATTATATCTCATGATTTACAATTCTATTACTTACACCGTTTCTTCTATG
66 TTGTCTCACAAAATTTATTATATCTCATGATTTACAATTCTATTACTTACACCGTTTCTTCTATG
11786855 GGAAACTAGACTAAATAATATTTAATTCCA
131 GGAAACTAGACTAAATAATATTTAATTCCA
11786885 TATTTTTCT
1 TATTTTTCT
11786894 CATCCTCTAA
Statistics
Matches: 169, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
160 169 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.40
Consensus pattern (160 bp):
TATTTTTCTTCAATTTTTGATGATTTTCCAAAGTCAGAACAGGGGAACCCGAAATCATTCTGACA
TTGTCTCACAAAATTTATTATATCTCATGATTTACAATTCTATTACTTACACCGTTTCTTCTATG
GGAAACTAGACTAAATAATATTTAATTCCA
Found at i:11787489 original size:11 final size:13
Alignment explanation
Indices: 11787469--11787500 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
11787459 AATAAATTAA
11787469 TAAAATATCAT-T
1 TAAAATATCATAT
11787481 TAAAA-ATCATAT
1 TAAAATATCATAT
11787493 TAAAATAT
1 TAAAATAT
11787501 TAATAAACTA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
11 5 0.28
12 11 0.61
13 2 0.11
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (13 bp):
TAAAATATCATAT
Found at i:11787795 original size:29 final size:30
Alignment explanation
Indices: 11787738--11787805 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
11787728 CACCCTTAAA
** * *
11787738 ATATTTACACCTTTGGTCCTTCAACTTTTC
1 ATATTTACACCTTTAATCCCTCAAATTTTC
*
11787768 ATATTTACA-CTTTAATCCCTCAAATTTTG
1 ATATTTACACCTTTAATCCCTCAAATTTTC
11787797 AGTATTTAC
1 A-TATTTAC
11787806 TCTTGGGCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 16 0.50
30 16 0.50
ACGTcount: A:0.26, C:0.22, G:0.06, T:0.46
Consensus pattern (30 bp):
ATATTTACACCTTTAATCCCTCAAATTTTC
Found at i:11788074 original size:19 final size:21
Alignment explanation
Indices: 11788032--11788080 Score: 59
Period size: 19 Copynumber: 2.4 Consensus size: 21
11788022 ATTCGGGCTA
11788032 TTACAAAAT-GAATTAAAGTTG
1 TTAC-AAATGGAATTAAAGTTG
11788053 TTACAAATGGAA-TAAA-TTG
1 TTACAAATGGAATTAAAGTTG
*
11788072 TTAAAAATG
1 TTACAAATG
11788081 TCAATGCAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
19 11 0.42
20 8 0.31
21 7 0.27
ACGTcount: A:0.49, C:0.04, G:0.14, T:0.33
Consensus pattern (21 bp):
TTACAAATGGAATTAAAGTTG
Found at i:11793415 original size:2 final size:2
Alignment explanation
Indices: 11793408--11793437 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11793398 AAGTTACAGC
11793408 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11793438 TTAGAGATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11798277 original size:90 final size:90
Alignment explanation
Indices: 11798107--11798351 Score: 215
Period size: 90 Copynumber: 2.7 Consensus size: 90
11798097 TTAAATTTTG
* * * * * * * * * * *
11798107 GTGAATTAATCAAGTCTGTCTCACTAGGATCACCTAAAGCTTAAGATATGAA-TCCATTAAGAAC
1 GTGAATTAATCAAATCCGTCTCAATAGGACCACCCAAACCCTAGGCTATAAACT-CATTAAGAGC
* * *
11798171 ATTTAGTGGCTCATCCTATAAATTCA
65 ATCTAGTAGCTCATCCTAGAAATTCA
* * * * * *
11798197 GT-AGGTTCATCAAGTTCGTCTCAATTGGACCACCCAAACCCTGGGCTATAAACTCATTAAGAGC
1 GTGA-ATTAATCAAATCCGTCTCAATAGGACCACCCAAACCCTAGGCTATAAACTCATTAAGAGC
*
11798261 ATCTAGTAGTTCATCCTAGAAATTCA
65 ATCTAGTAGCTCATCCTAGAAATTCA
* * * * * *
11798287 GTGAATTAATCAAATCCGTCTTAGTAGTACCACCCAAACTCTAGGCTATGAACTCATTAAAAGCA
1 GTGAATTAATCAAATCCGTCTCAATAGGACCACCCAAACCCTAGGCTATAAACTCATTAAGAGCA
11798352 AGGAGATTAT
Statistics
Matches: 121, Mismatches: 31, Indels: 6
0.77 0.20 0.04
Matches are distributed among these distances:
89 1 0.01
90 118 0.98
91 2 0.02
ACGTcount: A:0.34, C:0.22, G:0.15, T:0.29
Consensus pattern (90 bp):
GTGAATTAATCAAATCCGTCTCAATAGGACCACCCAAACCCTAGGCTATAAACTCATTAAGAGCA
TCTAGTAGCTCATCCTAGAAATTCA
Found at i:11802391 original size:26 final size:26
Alignment explanation
Indices: 11802362--11802433 Score: 94
Period size: 26 Copynumber: 2.8 Consensus size: 26
11802352 AATTTTCTCG
11802362 AAATTTTACTGGAGGTAAAATCGTCA
1 AAATTTTACTGGAGGTAAAATCGTCA
*
11802388 AAATTTTACTAGG-GGTAAAATTGTCA
1 AAATTTTACT-GGAGGTAAAATCGTCA
* *
11802414 ATATTTTATTGGA-GTAAAAT
1 AAATTTTACTGGAGGTAAAAT
11802434 TGGGATGAGA
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
25 9 0.22
26 30 0.73
27 2 0.05
ACGTcount: A:0.39, C:0.07, G:0.18, T:0.36
Consensus pattern (26 bp):
AAATTTTACTGGAGGTAAAATCGTCA
Found at i:11805370 original size:14 final size:14
Alignment explanation
Indices: 11805353--11805405 Score: 52
Period size: 14 Copynumber: 3.8 Consensus size: 14
11805343 CAACGGTCAT
11805353 ACGACCATATTGCA
1 ACGACCATATTGCA
** * *
11805367 ACGATTAGATTCCA
1 ACGACCATATTGCA
*
11805381 ACGACCATATTGTA
1 ACGACCATATTGCA
*
11805395 ACGATCATATT
1 ACGACCATATT
11805406 TTTGTATTAC
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (14 bp):
ACGACCATATTGCA
Found at i:11809238 original size:19 final size:19
Alignment explanation
Indices: 11809189--11809239 Score: 50
Period size: 19 Copynumber: 2.6 Consensus size: 19
11809179 GATAATAATG
*
11809189 AAAATGTAAATAAATAAAT
1 AAAATGTAAAAAAATAAAT
* *
11809208 AAAATTTAAAAAAA-ATTAT
1 AAAATGTAAAAAAATA-AAT
11809227 AAAAATGTAAAAA
1 -AAAATGTAAAAA
11809240 GATACATATG
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
18 1 0.04
19 14 0.54
20 11 0.42
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.25
Consensus pattern (19 bp):
AAAATGTAAAAAAATAAAT
Found at i:11810364 original size:13 final size:13
Alignment explanation
Indices: 11810348--11810372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11810338 AAAATTAATA
11810348 AACCCAATTACCC
1 AACCCAATTACCC
11810361 AACCCAATTACC
1 AACCCAATTACC
11810373 ATTTACCAAC
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:0.40, C:0.44, G:0.00, T:0.16
Consensus pattern (13 bp):
AACCCAATTACCC
Found at i:11810383 original size:19 final size:19
Alignment explanation
Indices: 11810359--11810431 Score: 65
Period size: 19 Copynumber: 3.5 Consensus size: 19
11810349 ACCCAATTAC
11810359 CCAACCCAATTACCATTTA
1 CCAACCCAATTACCATTTA
** *
11810378 CCAACCCAATAAACTAAAATCTA
1 CCAACCCAAT----TACCATTTA
11810401 CCCAAACCCAATTACCATTTA
1 -CC-AACCCAATTACCATTTA
11810422 CCAACCCAAT
1 CCAACCCAAT
11810432 AAAACAAACA
Statistics
Matches: 42, Mismatches: 6, Indels: 12
0.70 0.10 0.20
Matches are distributed among these distances:
19 18 0.43
20 2 0.05
21 6 0.14
23 6 0.14
24 2 0.05
25 8 0.19
ACGTcount: A:0.42, C:0.37, G:0.00, T:0.21
Consensus pattern (19 bp):
CCAACCCAATTACCATTTA
Found at i:11810839 original size:22 final size:20
Alignment explanation
Indices: 11810804--11810847 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
11810794 TTAAAGATTG
11810804 AAACTTTTTATTTAGCTGTTC
1 AAACTTTTTATTTA-CTGTTC
*
11810825 AAACTTTTTATTTTACTTTTC
1 AAACTTTTTA-TTTACTGTTC
11810846 AA
1 AA
11810848 CTTGGACATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.27, C:0.14, G:0.05, T:0.55
Consensus pattern (20 bp):
AAACTTTTTATTTACTGTTC
Found at i:11810981 original size:8 final size:8
Alignment explanation
Indices: 11810970--11811009 Score: 71
Period size: 8 Copynumber: 4.9 Consensus size: 8
11810960 TATTTGCTGA
11810970 GGTTAATC
1 GGTTAATC
11810978 GGTTAATC
1 GGTTAATC
11810986 GGTTAAATC
1 GGTT-AATC
11810995 GGTTAATC
1 GGTTAATC
11811003 GGTTAAT
1 GGTTAAT
11811010 TTTTAACCAA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
8 23 0.74
9 8 0.26
ACGTcount: A:0.28, C:0.10, G:0.25, T:0.38
Consensus pattern (8 bp):
GGTTAATC
Found at i:11810996 original size:17 final size:17
Alignment explanation
Indices: 11810970--11811008 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
11810960 TATTTGCTGA
11810970 GGTT-AATCGGTTAATC
1 GGTTAAATCGGTTAATC
11810986 GGTTAAATCGGTTAATC
1 GGTTAAATCGGTTAATC
11811003 GGTTAA
1 GGTTAA
11811009 TTTTTAACCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 4 0.18
17 18 0.82
ACGTcount: A:0.28, C:0.10, G:0.26, T:0.36
Consensus pattern (17 bp):
GGTTAAATCGGTTAATC
Found at i:11811528 original size:22 final size:22
Alignment explanation
Indices: 11811488--11811529 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
11811478 ACGCGAAAAT
*
11811488 AAAAAAATGAAACAAAAAAAGA
1 AAAAAAATGAAAAAAAAAAAGA
11811510 AAAAAAAT-AAAAAATAAAAA
1 AAAAAAATGAAAAAA-AAAAA
11811530 TTTCACCTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.86, C:0.02, G:0.05, T:0.07
Consensus pattern (22 bp):
AAAAAAATGAAAAAAAAAAAGA
Found at i:11815164 original size:12 final size:12
Alignment explanation
Indices: 11815147--11815172 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11815137 CAAAACAGGC
11815147 TTTTAGCGGCGT
1 TTTTAGCGGCGT
11815159 TTTTAGCGGCGT
1 TTTTAGCGGCGT
11815171 TT
1 TT
11815173 GGACAAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:11815408 original size:41 final size:41
Alignment explanation
Indices: 11815349--11815592 Score: 276
Period size: 41 Copynumber: 5.8 Consensus size: 41
11815339 GAGTTTTTGG
* * * *
11815349 GGCCTTTAGCGGCATTTTTGAGGAAGCACCGTTAATGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
11815390 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTC-
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
*
11815430 GAGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGGTCT
1 G-GCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
*
11815472 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAGTGCTCT
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
** * *
11815513 GGGTTTTAGCGGCGCTTTAGCAACGTTTTTCAAGCGCCGCTAATGCTC-
1 GGCCTTTAGCGGCGTTTTTG-AA-G------AAGCGCCGCTAATGCTCT
* * *
11815561 GGGCTTTAGCGGCATTTTTGAAAAAGCGCCGC
1 GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGC
11815593 AAAAACATTT
Statistics
Matches: 176, Mismatches: 17, Indels: 21
0.82 0.08 0.10
Matches are distributed among these distances:
40 10 0.06
41 128 0.73
42 3 0.02
43 1 0.01
47 2 0.01
48 16 0.09
49 16 0.09
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.29
Consensus pattern (41 bp):
GGCCTTTAGCGGCGTTTTTGAAGAAGCGCCGCTAATGCTCT
Found at i:11816080 original size:34 final size:34
Alignment explanation
Indices: 11816007--11816077 Score: 108
Period size: 34 Copynumber: 2.1 Consensus size: 34
11815997 TTATTGTTTA
* *
11816007 AGGGTTGAGATTTAAGGTTTAGGGGCTAGGGGTT
1 AGGGTTGAGATTTAAGGTTTAAGGGCTAGGGATT
*
11816041 AGGGTTGGGATTTAAGGTTTAAGGG-TAGGGATT
1 AGGGTTGAGATTTAAGGTTTAAGGGCTAGGGATT
11816074 AGGG
1 AGGG
11816078 GTTAGAGGTT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
33 11 0.32
34 23 0.68
ACGTcount: A:0.23, C:0.01, G:0.45, T:0.31
Consensus pattern (34 bp):
AGGGTTGAGATTTAAGGTTTAAGGGCTAGGGATT
Found at i:11816211 original size:57 final size:62
Alignment explanation
Indices: 11816113--11816239 Score: 151
Period size: 60 Copynumber: 2.1 Consensus size: 62
11816103 AGAGTTATGG
11816113 ATTTAAGGTTTAAGGATTTAGGGGTCGAGTTAGGTTTTAGGG-TT-TA-AATTAGTTATTTTTTA
1 ATTTAAGGTTTAAGGA-TTAGGGGTCGAG-TAGGTTTTAGGGTTTATATAATTAG-TATTTTTTA
*
11816175 ATTTAGGGTTTAAAGGA-TAGGGGTC-AG-AGG-TTTAGGGTTTATATTAATTAGTATTTTTTA
1 ATTTAAGGTTT-AAGGATTAGGGGTCGAGTAGGTTTTAGGGTTTATA-TAATTAGTATTTTTTA
11816235 ATTTA
1 ATTTA
11816240 TATATTAAAT
Statistics
Matches: 59, Mismatches: 1, Indels: 12
0.82 0.01 0.17
Matches are distributed among these distances:
57 7 0.12
58 5 0.08
59 2 0.03
60 16 0.27
61 14 0.24
62 10 0.17
63 5 0.08
ACGTcount: A:0.28, C:0.02, G:0.25, T:0.46
Consensus pattern (62 bp):
ATTTAAGGTTTAAGGATTAGGGGTCGAGTAGGTTTTAGGGTTTATATAATTAGTATTTTTTA
Found at i:11817893 original size:11 final size:11
Alignment explanation
Indices: 11817877--11817902 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
11817867 GTTTAAGGAA
11817877 TTTTATCCTAT
1 TTTTATCCTAT
11817888 TTTTATCCTAT
1 TTTTATCCTAT
11817899 TTTT
1 TTTT
11817903 GACTGATTTT
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:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (11 bp):
TTTTATCCTAT
Found at i:11819138 original size:17 final size:17
Alignment explanation
Indices: 11819116--11819158 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
11819106 AATATATAAT
11819116 ATTATAATGCAAAATTA
1 ATTATAATGCAAAATTA
11819133 ATTATAATGCAAAATTA
1 ATTATAATGCAAAATTA
11819150 ATATATAAT
1 AT-TATAAT
11819159 ATTATAATAT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
17 19 0.76
18 6 0.24
ACGTcount: A:0.53, C:0.05, G:0.05, T:0.37
Consensus pattern (17 bp):
ATTATAATGCAAAATTA
Found at i:11821225 original size:114 final size:114
Alignment explanation
Indices: 11820893--11821478 Score: 818
Period size: 114 Copynumber: 5.2 Consensus size: 114
11820883 GACCTTCGAC
* * *
11820893 AAACGCCGCTAAAGCACACCATTAGCGGTGCATTATACAAAGCGCCGC-TAAAATCTTAACCAAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCAAA
* *
11820957 ACGCATCGTTCTAGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGCA
66 ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGAA
* * * * *
11821006 AAACGCCACTAAAGCGCACCATTAGCGGCGCATCATACAAAGTGCCGC-AAAAATCTTAATCGAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCAAA
* * * *
11821070 ACGCATCGTTTTGGGTTGAGGTATATTAGAATTAGTGGCGCTTATGGAT
66 ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGAA
* * * * * *
11821119 AAATGCCGCTAAAGCACACCATTAGCGGCGCATTAGACAGAGCGCCACAAAAAATCATAACCAAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCAAA
*
11821184 ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGTAA
66 ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGAA
* ***
11821233 AAACACCGCTAAAGTGGACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCAAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCAAA
* *
11821298 ACGCATTGTTCTGGGTTG-GTGTATTTTAGAATTAGTGGCGCTTAAGTAA
66 ACGCATCGTTCTGGGTTGAG-GTATTTTAGAATTAGTGGCGCTTAAGGAA
* * *
11821347 AAACGCCGCTAAAGCACACTATTAGCGGCGCATCATACAAAGCGCTGCAAAAAATCTTAACCGAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCAAA
* * * * *
11821412 ATGCATCGTTTTGGGTTGAGGTATATTAGAATTAGTGGCGCTTACGGAT
66 ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGAA
*
11821461 AAATGCCGCTAAAGCACA
1 AAACGCCGCTAAAGCACA
11821479 TGCGCCGCAA
Statistics
Matches: 414, Mismatches: 56, Indels: 5
0.87 0.12 0.01
Matches are distributed among these distances:
113 140 0.34
114 273 0.66
115 1 0.00
ACGTcount: A:0.33, C:0.21, G:0.22, T:0.24
Consensus pattern (114 bp):
AAACGCCGCTAAAGCACACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCAAA
ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGAA
Found at i:11821420 original size:228 final size:227
Alignment explanation
Indices: 11820893--11821741 Score: 956
Period size: 228 Copynumber: 3.8 Consensus size: 227
11820883 GACCTTCGAC
* *
11820893 AAACGCCGCTAAAGCACACCATTAGCGGTGCATTATACAAAGCGCCGC-TAAAATCTTAACCAAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAAA
* * *
11820957 ACGCATCGTTCTAGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGCAAAACGCCACTAAAGCG
66 ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGAAAAACACCACTAAAGCG
* * * *
11821022 CACCATTAGCGGCGCATCATACAAAGTGCCGCAAAAATCTTAATCGAAACGCATCGTTTTGGGTT
131 CACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAATCTTAACCAAAACGCATCGTTCTGGGTT
* *
11821087 GAGGTATATTAGAATTAGTGGCGCTTATGGAT
196 GAGGTATATTAGAATTAGTGGCGCTTAAGGAA
* * * * *
11821119 AAATGCCGCTAAAGCACACCATTAGCGGCGCATTAGACAGAGCGCCACAAAAAATCATAACCAAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAAA
* * *
11821184 ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGTAAAAACACCGCTAAAGTG
66 ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGAAAAACACCACTAAAGCG
* *
11821249 GACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAAATCTTAACCAAAACGCATTGTTCTGGGT
131 CACCATTAGCGGCGCATCATACAAAGCGCCGC-AAAAATCTTAACCAAAACGCATCGTTCTGGGT
* *
11821314 TG-GTGTATTTTAGAATTAGTGGCGCTTAAGTAA
195 TGAG-GTATATTAGAATTAGTGGCGCTTAAGGAA
* * * *
11821347 AAACGCCGCTAAAGCACACTATTAGCGGCGCATCATACAAAGCGCTGCAAAAAATCTTAACCGAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAAA
* * * * * ** *
11821412 ATGCATCGTTTTGGGTTGAGGTATATTAGAATTAGTGGCGCTTACGGATAAATGCCGCTAAA--G
66 ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGAAAAACACCACTAAAGCG
* *
11821475 CA-CA-T----GCGC--C--GC-AA--------AAAATCTTAACCAAAACGCATCGTTTTGGGTT
131 CACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAATCTTAACCAAAACGCATCGTTCTGGGTT
* * * *
11821521 GAGATATTTTAGATTTAGTGGCGCTTAAGGAT
196 GAGGTATATTAGAATTAGTGGCGCTTAAGGAA
* * * * *
11821553 AAATGCCGCTAAAGAACACAATTAGCGGCGCATTATTCAAAGCGCCGCAAAAAAACTTAACCAAA
1 AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAAA
* * *** * * * *
11821618 ACGCGTCGTTTTTTATTGAGGTATTTTAGAATTAGTGGCGC-TATA-GTAAAACGCCGCTAAAGT
66 ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTA-AGGAAAAACACCACTAAAGC
* * *
11821681 ACATCATTAGCGGCGCATTATACAAAGCGCCGCGAATAAATCTTAACCAAAACGCATCGTT
130 GCACCATTAGCGGCGCATCATACAAAGCGCCGC-AA-AAATCTTAACCAAAACGCATCGTT
11821742 TTAAACCGAA
Statistics
Matches: 526, Mismatches: 69, Indels: 54
0.81 0.11 0.08
Matches are distributed among these distances:
205 15 0.03
206 148 0.28
207 3 0.01
208 2 0.00
209 1 0.00
213 4 0.01
215 2 0.00
216 1 0.00
217 1 0.00
218 3 0.01
220 4 0.01
224 1 0.00
225 2 0.00
226 45 0.09
227 105 0.20
228 189 0.36
ACGTcount: A:0.34, C:0.21, G:0.21, T:0.24
Consensus pattern (227 bp):
AAACGCCGCTAAAGCACACCATTAGCGGCGCATTATACAAAGCGCCGCAAAAAATCTTAACCAAA
ACGCATCGTTCTGGGTTGAGGTATTTTAGAATTAGTGGCGCTTAAGGAAAAACACCACTAAAGCG
CACCATTAGCGGCGCATCATACAAAGCGCCGCAAAAATCTTAACCAAAACGCATCGTTCTGGGTT
GAGGTATATTAGAATTAGTGGCGCTTAAGGAA
Found at i:11821553 original size:92 final size:92
Alignment explanation
Indices: 11821388--11821566 Score: 295
Period size: 92 Copynumber: 1.9 Consensus size: 92
11821378 ATCATACAAA
* * * *
11821388 GCGCTGCAAAAAATCTTAACCGAAATGCATCGTTTTGGGTTGAGGTATATTAGAATTAGTGGCGC
1 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTTTGGGTTGAGATATATTAGAATTAGTGGCGC
*
11821453 TTACGGATAAATGCCGCTAAAGCACAT
66 TTAAGGATAAATGCCGCTAAAGCACAT
* *
11821480 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTTTGGGTTGAGATATTTTAGATTTAGTGGCGC
1 GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTTTGGGTTGAGATATATTAGAATTAGTGGCGC
11821545 TTAAGGATAAATGCCGCTAAAG
66 TTAAGGATAAATGCCGCTAAAG
11821567 AACACAATTA
Statistics
Matches: 80, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
92 80 1.00
ACGTcount: A:0.32, C:0.17, G:0.23, T:0.27
Consensus pattern (92 bp):
GCGCCGCAAAAAATCTTAACCAAAACGCATCGTTTTGGGTTGAGATATATTAGAATTAGTGGCGC
TTAAGGATAAATGCCGCTAAAGCACAT
Done.