Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12
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: 24583705
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.31
Warning! 1509421 characters in sequence are not A, C, G, or T
File 38 of 75
Found at i:11980878 original size:25 final size:25
Alignment explanation
Indices: 11980802--11980919 Score: 80
Period size: 25 Copynumber: 4.7 Consensus size: 25
11980792 TCTTACATAA
* *
11980802 AACTTATATAATACATAACTTACAT
1 AACTTACATAATACATAACCTACAT
* * *
11980827 AA--TACA-ACACTTACACAACTTAAAT
1 AACTTACATA-A--TACATAACCTACAT
* *
11980852 AACTTGCATAATACATAGCCTACAT
1 AACTTACATAATACATAACCTACAT
* * *
11980877 AACTTATATAGTACATAACTTACAT
1 AACTTACATAATACATAACCTACAT
* *
11980902 AACGTACTTAATACATAA
1 AACTTACATAATACATAA
11980920 ATATATATCA
Statistics
Matches: 70, Mismatches: 17, Indels: 12
0.71 0.17 0.12
Matches are distributed among these distances:
22 1 0.01
23 4 0.06
25 60 0.86
27 4 0.06
28 1 0.01
ACGTcount: A:0.47, C:0.19, G:0.03, T:0.31
Consensus pattern (25 bp):
AACTTACATAATACATAACCTACAT
Found at i:11986528 original size:66 final size:66
Alignment explanation
Indices: 11986395--11986529 Score: 189
Period size: 66 Copynumber: 2.0 Consensus size: 66
11986385 GACCACAGTT
* * * * * *
11986395 GAGGTTCAAAGGAAATTTGAAGAACTCCAGCTGCAACTTAAAGCAGAGGCGGTAGCGAGGGAAGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAAAGGCGGCAGCGAGAGAAGC
11986460 A
66 A
* * *
11986461 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAAATGCGGCATCGAGAGATGC
1 GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAAAGGCGGCAGCGAGAGAAGC
11986526 A
66 A
11986527 GAG
1 GAG
11986530 CAGAGCAGAA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
66 60 1.00
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.16
Consensus pattern (66 bp):
GAGGTTCAAAAGAAATATGAAGAACTCCAGCTACAACTTAAAGCAAAGGCGGCAGCGAGAGAAGC
A
Found at i:11986824 original size:44 final size:42
Alignment explanation
Indices: 11986758--11986877 Score: 159
Period size: 43 Copynumber: 2.8 Consensus size: 42
11986748 TGGAAAATTG
*
11986758 CCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGAAAAAAACC
1 CCGCTAAAGAACATGA-CTTTAGCGGCGTTTGT-GAAAAAAACC
* * * *
11986802 CCGCTAAAGAACATTACTTTTAGCGGCGTTTGTGAATAAAGCG
1 CCGCTAAAGAACATGAC-TTTAGCGGCGTTTGTGAAAAAAACC
11986845 CCGCTAAAGAACATGAGCTTTAGCGGCGTTTGT
1 CCGCTAAAGAACATGA-CTTTAGCGGCGTTTGT
11986878 TGGTAGGCGC
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
43 38 0.56
44 30 0.44
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (42 bp):
CCGCTAAAGAACATGACTTTAGCGGCGTTTGTGAAAAAAACC
Found at i:11986867 original size:43 final size:43
Alignment explanation
Indices: 11986757--11987085 Score: 240
Period size: 42 Copynumber: 7.7 Consensus size: 43
11986747 ATGGAAAATT
* * * *
11986757 GCCGCTAAAGAGCATGACCTTTAGCGGCGTTTGTGGAAAAAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGT-GTATAAAGC
* * * *
11986801 CCCGCTAAAGAACATTACTTTTAGCGGCGTTTGTGAATAAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGTATAAAGC
* * *
11986844 GCCGCTAAAGAACATGAGCTTTAGCGGCGTTTGT-TGGT-AGGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGT-ATAAAGC
* ** ** *
11986886 GCCGCTATAGGTCATGTTCTTTAGCGGCGTTTTTTGTA-AAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCG-TTTGTGTATAAAGC
* * * * ** *
11986929 GCTGCTAAAGAACATTACCTTTAGTGGCGTTTCTG-AGGAAGA
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGTATAAAGC
* * * * *
11986971 GCCGCTGAATAACATGACCTTTAGCGGCGTTT-TTTTTGAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGTATAAAGC
* * * * * *
11987013 GTCGCTAAAGAACATCATCTTTAGCGGTGTTT-T-TTTTAAGC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGTATAAAGC
** *
11987054 GCTACTAAAGAACATGACCTTTAGCTGCGTTT
1 GCCGCTAAAGAACATGACCTTTAGCGGCGTTT
11987086 ATTTCTGTAA
Statistics
Matches: 224, Mismatches: 55, Indels: 15
0.76 0.19 0.05
Matches are distributed among these distances:
41 34 0.15
42 93 0.42
43 66 0.29
44 31 0.14
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGTTTGTGTATAAAGC
Found at i:11986975 original size:85 final size:84
Alignment explanation
Indices: 11986760--11987044 Score: 204
Period size: 85 Copynumber: 3.3 Consensus size: 84
11986750 GAAAATTGCC
* * * * * * * *
11986760 GCTAAAGAGCATGACCTTTAGCGGCGTTTG-TGGAAAAAAACCCCGCTAAAGAACATTACTTTTA
1 GCTAAAGAACATCACCTTTAGCGGCGTTTGCTGG--GAAGA-GCCGCT-AATAACATGACCTTTA
* * *
11986824 GCGGCG-TTTGTGAATAAAGCGCC
62 GCGGCGTTTTTTGTA-AAAGCGCT
* * * * * * * **
11986847 GCTAAAGAACATGAGCTTTAGCGGCGTTTGTTGGTAGGCGCCGCT-ATAGGTCATGTTCTTTAGC
1 GCTAAAGAACATCACCTTTAGCGGCGTTTGCTGGGAAGAGCCGCTAATA--ACATGACCTTTAGC
11986911 GGCGTTTTTTGTAAAAGCGCT
64 GGCGTTTTTTGTAAAAGCGCT
* *
11986932 GCTAAAGAACATTACCTTTAGTGGCGTTT-CTGAGGAAGAGCCGCTGAATAACATGACCTTTAGC
1 GCTAAAGAACATCACCTTTAGCGGCGTTTGCTG-GGAAGAGCCGCT-AATAACATGACCTTTAGC
**
11986996 GGCGTTTTTT-TTGAAGCG-T
64 GGCGTTTTTTGTAAAAGCGCT
* *
11987015 CGCTAAAGAACATCATCTTTAGCGGTGTTT
1 -GCTAAAGAACATCACCTTTAGCGGCGTTT
11987045 TTTTTAAGCG
Statistics
Matches: 158, Mismatches: 32, Indels: 19
0.76 0.15 0.09
Matches are distributed among these distances:
83 3 0.02
84 33 0.21
85 81 0.51
86 7 0.04
87 31 0.20
88 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.30
Consensus pattern (84 bp):
GCTAAAGAACATCACCTTTAGCGGCGTTTGCTGGGAAGAGCCGCTAATAACATGACCTTTAGCGG
CGTTTTTTGTAAAAGCGCT
Found at i:11987002 original size:127 final size:126
Alignment explanation
Indices: 11986804--11987085 Score: 309
Period size: 127 Copynumber: 2.2 Consensus size: 126
11986794 AAAAAACCCC
* * * * * *
11986804 GCTAAAGAACATTACTTTTAGCGGCGTTTGTGAATAAAGCGCCGCTAAAGAACATGAGCTTTAGC
1 GCTAAAGAACATTACCTTTAGTGGCGTTTCTGAAGAAAGAGCCGCTAAAGAACATGACCTTTAGC
* * ** **
11986869 GGCGTTTGTTGGT-AGGCGCCGCTATAGGTCATGTTCTTTAGCGGCGTTTTTTGTAAAAGCGCT
66 GGCGTTT-TTGGTGAAGCGCCGCTAAAGAACATCATCTTTAGCGGCGTTTTTT-T-AAAGCGCT
* * *
11986932 GCTAAAGAACATTACCTTTAGTGGCGTTTCTG-AGGAAGAGCCGCTGAATAACATGACCTTTAGC
1 GCTAAAGAACATTACCTTTAGTGGCGTTTCTGAAGAAAGAGCCGCTAAAGAACATGACCTTTAGC
** * * *
11986996 GGCGTTTTTTTTGAAGCGTCGCTAAAGAACATCATCTTTAGCGGTGTTTTTTTTAAGCGCT
66 GGCGTTTTTGGTGAAGCGCCGCTAAAGAACATCATCTTTAGCGGCGTTTTTTTAAAGCGCT
* *
11987057 ACTAAAGAACATGACCTTTAGCT-GCGTTT
1 GCTAAAGAACATTACCTTTAG-TGGCGTTT
11987086 ATTTCTGTAA
Statistics
Matches: 130, Mismatches: 22, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
125 32 0.25
126 5 0.04
127 64 0.49
128 29 0.22
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.32
Consensus pattern (126 bp):
GCTAAAGAACATTACCTTTAGTGGCGTTTCTGAAGAAAGAGCCGCTAAAGAACATGACCTTTAGC
GGCGTTTTTGGTGAAGCGCCGCTAAAGAACATCATCTTTAGCGGCGTTTTTTTAAAGCGCT
Found at i:11989448 original size:10 final size:10
Alignment explanation
Indices: 11989433--11989462 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
11989423 AATATCAATC
11989433 AATTTACCTT
1 AATTTACCTT
*
11989443 AATTTACCTC
1 AATTTACCTT
11989453 AATTTACCTT
1 AATTTACCTT
11989463 TTCTTCTCCC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.30, C:0.23, G:0.00, T:0.47
Consensus pattern (10 bp):
AATTTACCTT
Found at i:11990880 original size:20 final size:19
Alignment explanation
Indices: 11990857--11990895 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
11990847 TTTTTTTATG
*
11990857 AGTATCGACATTTTTATAAA
1 AGTATCAACATTTTT-TAAA
*
11990877 AGTATCAATATTTTTTAAA
1 AGTATCAACATTTTTTAAA
11990896 TGGTATCGAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 4 0.24
20 13 0.76
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.44
Consensus pattern (19 bp):
AGTATCAACATTTTTTAAA
Found at i:11997759 original size:9 final size:9
Alignment explanation
Indices: 11997747--11997785 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
11997737 CTTCAATTAC
11997747 ATAAATTGA
1 ATAAATTGA
*
11997756 AT-AATTGC
1 ATAAATTGA
11997764 ATAAATTGA
1 ATAAATTGA
*
11997773 ATAAATTTA
1 ATAAATTGA
11997782 ATAA
1 ATAA
11997786 TTGCTAGTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
8 7 0.27
9 19 0.73
ACGTcount: A:0.54, C:0.03, G:0.08, T:0.36
Consensus pattern (9 bp):
ATAAATTGA
Found at i:11997766 original size:17 final size:17
Alignment explanation
Indices: 11997741--11997776 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
11997731 AACCAACTTC
11997741 AATTACATAAATTGAAT
1 AATTACATAAATTGAAT
*
11997758 AATTGCATAAATTGAAT
1 AATTACATAAATTGAAT
11997775 AA
1 AA
11997777 ATTTAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.53, C:0.06, G:0.08, T:0.33
Consensus pattern (17 bp):
AATTACATAAATTGAAT
Found at i:12003479 original size:46 final size:46
Alignment explanation
Indices: 12003380--12003540 Score: 189
Period size: 46 Copynumber: 3.5 Consensus size: 46
12003370 GAGGGTGTCG
* * * *
12003380 TAGTGTCTTTTAACCATGGTCTTCTTTATTCT-CGACTTGATGCCA
1 TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
* * *
12003425 TAGTGTCTTTCAACCATGGTCTTATTCATTTTCCGTCATGTTGCCA
1 TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
* * *
12003471 TAGTGTCTTTCAACTATGGTCTTATTTATTCTCCGTCTTGTTTCCG
1 TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
** * *
12003517 TAACGTCTTTCAGCTATGGTCTTA
1 TAGTGTCTTTCAACCATGGTCTTA
12003541 ATCGATAGAA
Statistics
Matches: 99, Mismatches: 16, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
45 28 0.28
46 71 0.72
ACGTcount: A:0.17, C:0.22, G:0.16, T:0.45
Consensus pattern (46 bp):
TAGTGTCTTTCAACCATGGTCTTATTTATTCTCCGTCTTGTTGCCA
Found at i:12003579 original size:45 final size:45
Alignment explanation
Indices: 12003517--12003677 Score: 232
Period size: 45 Copynumber: 3.6 Consensus size: 45
12003507 CTTGTTTCCG
* *
12003517 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCA
1 TAACGTCTTTCAGCTATGGTCTTACTTGATAGAATCATGATGCCA
* ** **
12003562 TAACGCCTTTCCTCTATGGTCTTACTTGATAGAATTTTGATGCCA
1 TAACGTCTTTCAGCTATGGTCTTACTTGATAGAATCATGATGCCA
* *
12003607 TAACATCTTTCAGCTATGGTCTTACTTGATAGAATCGTGATGCCA
1 TAACGTCTTTCAGCTATGGTCTTACTTGATAGAATCATGATGCCA
*
12003652 TAACGTCTTTTAGCTATGGTCTTACT
1 TAACGTCTTTCAGCTATGGTCTTACT
12003678 CGTTTCTAGT
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 101 1.00
ACGTcount: A:0.25, C:0.20, G:0.17, T:0.38
Consensus pattern (45 bp):
TAACGTCTTTCAGCTATGGTCTTACTTGATAGAATCATGATGCCA
Found at i:12003696 original size:90 final size:90
Alignment explanation
Indices: 12003517--12003716 Score: 229
Period size: 90 Copynumber: 2.2 Consensus size: 90
12003507 CTTGTTTCCG
**
12003517 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCCTCTATGGT
1 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCAGCTATGGT
* * * *
12003582 CTTACTTGATAGAATTTTGATGCCA
66 CTTACTCGATACAAGTATGATGCCA
* * * * * *
12003607 TAACATCTTTCAGCTATGGTCTTACTTGATAGAATCGTGATGCCATAACGTCTTTTAGCTATGGT
1 TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCAGCTATGGT
* * * *
12003672 CTTACTCGTTTCTAGTATGGTGCCA
66 CTTACTCGATACAAGTATGATGCCA
** *
12003697 TAGTGTCTTTCAACTATGGT
1 TAACGTCTTTCAGCTATGGT
12003717 ATTATCTATT
Statistics
Matches: 90, Mismatches: 20, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
90 90 1.00
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (90 bp):
TAACGTCTTTCAGCTATGGTCTTAATCGATAGAATCATGATGCCATAACGCCTTTCAGCTATGGT
CTTACTCGATACAAGTATGATGCCA
Found at i:12009948 original size:22 final size:21
Alignment explanation
Indices: 12009920--12009961 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
12009910 CTTGGGATAT
12009920 CTTTAGGGGTATGTCGTGACAA
1 CTTTA-GGGTATGTCGTGACAA
* *
12009942 CTTTAGGTTATTTCGTGACA
1 CTTTAGGGTATGTCGTGACA
12009962 TCGAAGGCAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 13 0.72
22 5 0.28
ACGTcount: A:0.21, C:0.14, G:0.26, T:0.38
Consensus pattern (21 bp):
CTTTAGGGTATGTCGTGACAA
Found at i:12010297 original size:25 final size:25
Alignment explanation
Indices: 12010269--12010432 Score: 88
Period size: 25 Copynumber: 6.6 Consensus size: 25
12010259 AATGTTAGGG
* *
12010269 ACAAAGGCTTTCCATATAATATGTC
1 ACAAAGGCTTTCCACATAATATGCC
*
12010294 ACAAAGGCTTTTCACA-AGAT-TAGCC
1 ACAAAGGCTTTCCACATA-ATAT-GCC
* *
12010319 ACAAAGGCTTTCCAGATAATACGCC
1 ACAAAGGCTTTCCACATAATATGCC
* * *
12010344 ACAAATGTTTTTCACA-AGATCA-GCC
1 ACAAAGGCTTTCCACATA-AT-ATGCC
* * * **
12010369 ACAAACGCTTTTCAAATAATACACC
1 ACAAAGGCTTTCCACATAATATGCC
* * *
12010394 ATAAAGGCTTTTCA-A-AATATTAGTC
1 ACAAAGGCTTTCCACATAATA-T-GCC
12010419 ACAAAGGCTTTCCA
1 ACAAAGGCTTTCCA
12010433 AGTAAACTAT
Statistics
Matches: 108, Mismatches: 21, Indels: 20
0.72 0.14 0.13
Matches are distributed among these distances:
23 4 0.04
24 5 0.05
25 96 0.89
26 3 0.03
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.27
Consensus pattern (25 bp):
ACAAAGGCTTTCCACATAATATGCC
Found at i:12010301 original size:50 final size:50
Alignment explanation
Indices: 12010218--12010433 Score: 245
Period size: 50 Copynumber: 4.3 Consensus size: 50
12010208 CAAATCATGG
* * *
12010218 CACAAAGGCTTTACAAATAATACACCACCAAGGCTTTTCACAATG-TTAGG
1 CACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCACAA-GATTAGC
* * ***
12010268 GACAAAGGCTTTCCATATAATATGTCACAAAGGCTTTTCACAAGATTAGC
1 CACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCACAAGATTAGC
* * * * *
12010318 CACAAAGGCTTTCCAGATAATACGCCACAAATGTTTTTCACAAGATCAGC
1 CACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCACAAGATTAGC
* * * * * *
12010368 CACAAACGCTTTTCAAATAATACACCATAAAGGCTTTTCAAAATATTAGT
1 CACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCACAAGATTAGC
12010418 CACAAAGGCTTTCCAA
1 CACAAAGGCTTTCCAA
12010434 GTAAACTATC
Statistics
Matches: 137, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
49 1 0.01
50 136 0.99
ACGTcount: A:0.38, C:0.23, G:0.13, T:0.26
Consensus pattern (50 bp):
CACAAAGGCTTTCCAAATAATACACCACAAAGGCTTTTCACAAGATTAGC
Found at i:12027924 original size:12 final size:12
Alignment explanation
Indices: 12027904--12027939 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
12027894 TTTATGTGTG
*
12027904 TTTATTTTTTAT
1 TTTAGTTTTTAT
*
12027916 TTTTGTTTTTAT
1 TTTAGTTTTTAT
12027928 TTTAGTTTTTAT
1 TTTAGTTTTTAT
12027940 GCATTTTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.06, T:0.81
Consensus pattern (12 bp):
TTTAGTTTTTAT
Found at i:12032118 original size:16 final size:16
Alignment explanation
Indices: 12032097--12032128 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12032087 AAGGCGCCTC
12032097 CACAATATCGTTTCAA
1 CACAATATCGTTTCAA
*
12032113 CACAATATTGTTTCAA
1 CACAATATCGTTTCAA
12032129 TCTTTGTCCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.38, C:0.22, G:0.06, T:0.34
Consensus pattern (16 bp):
CACAATATCGTTTCAA
Found at i:12035152 original size:25 final size:27
Alignment explanation
Indices: 12035106--12035155 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
12035096 AAATCAAATC
* *
12035106 AAATCAAATAAAATATATAAATTTAGA
1 AAATCAAATAAAATAGAAAAATTTAGA
12035133 AAAT-AAA-AAAATAGAAAAATTTA
1 AAATCAAATAAAATAGAAAAATTTA
12035156 AATCAAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 14 0.67
26 3 0.14
27 4 0.19
ACGTcount: A:0.68, C:0.02, G:0.04, T:0.26
Consensus pattern (27 bp):
AAATCAAATAAAATAGAAAAATTTAGA
Found at i:12041259 original size:24 final size:23
Alignment explanation
Indices: 12041212--12041260 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
12041202 GAAACATCCT
*
12041212 AAGCAAGAGGAAGAAGAGAGTGA
1 AAGCAAGAGGAAGAAGAGAATGA
* *
12041235 AAGCAAAGAGGAAGGAGATAATGA
1 AAGC-AAGAGGAAGAAGAGAATGA
12041259 AA
1 AA
12041261 TGGATTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
23 4 0.18
24 18 0.82
ACGTcount: A:0.55, C:0.04, G:0.35, T:0.06
Consensus pattern (23 bp):
AAGCAAGAGGAAGAAGAGAATGA
Found at i:12047616 original size:59 final size:59
Alignment explanation
Indices: 12047524--12047644 Score: 233
Period size: 59 Copynumber: 2.1 Consensus size: 59
12047514 AAACCACTAC
*
12047524 CTCATTTATTTCCTAAAAATGCATAGATAATTTAAAAAATTAAGGCATGGTCACTCTCT
1 CTCATTTATTTCCTAAAAATGCATAGATAATTTAAAAAATTAAGGCATGATCACTCTCT
12047583 CTCATTTATTTCCTAAAAATGCATAGATAATTTAAAAAATTAAGGCATGATCACTCTCT
1 CTCATTTATTTCCTAAAAATGCATAGATAATTTAAAAAATTAAGGCATGATCACTCTCT
12047642 CTC
1 CTC
12047645 GATTCACAAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 61 1.00
ACGTcount: A:0.37, C:0.18, G:0.09, T:0.36
Consensus pattern (59 bp):
CTCATTTATTTCCTAAAAATGCATAGATAATTTAAAAAATTAAGGCATGATCACTCTCT
Found at i:12055870 original size:50 final size:50
Alignment explanation
Indices: 12055804--12055993 Score: 254
Period size: 50 Copynumber: 3.8 Consensus size: 50
12055794 TCTTGTACTA
* * * ** *
12055804 CCAATGCCATATCCCAGATATGGTCTTACATGAGAGTTCTCATATAGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
* ** *
12055854 CCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
* * *
12055904 CCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGGTT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
*
12055954 CCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
12055994 TTACCCAAAT
Statistics
Matches: 122, Mismatches: 18, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 122 1.00
ACGTcount: A:0.22, C:0.29, G:0.22, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTG
Found at i:12064744 original size:25 final size:25
Alignment explanation
Indices: 12064716--12064798 Score: 121
Period size: 25 Copynumber: 3.3 Consensus size: 25
12064706 GCTGTAAACA
* * *
12064716 GTAAGCTCATACAAGTTGAATATTG
1 GTAAGCTCATGCGAGTTGAATATCG
*
12064741 GTAAGCTCATGCGAGCTGAATATCG
1 GTAAGCTCATGCGAGTTGAATATCG
*
12064766 GTAAGCTCATGCGATTTGAATATCG
1 GTAAGCTCATGCGAGTTGAATATCG
12064791 GTAAGCTC
1 GTAAGCTC
12064799 TCTCGATCTA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 52 1.00
ACGTcount: A:0.30, C:0.17, G:0.24, T:0.29
Consensus pattern (25 bp):
GTAAGCTCATGCGAGTTGAATATCG
Found at i:12067495 original size:56 final size:56
Alignment explanation
Indices: 12067434--12067546 Score: 199
Period size: 56 Copynumber: 2.0 Consensus size: 56
12067424 AATTGTACTT
12067434 AAATTATTAACATATGGAATTTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
1 AAATTATTAACATATGGAATTTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
** *
12067490 AAATTATTAACATATTTAATTTTAATTAATTTTATAATAAATTTTCATAAATTTTG
1 AAATTATTAACATATGGAATTTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
12067546 A
1 A
12067547 TTTATTTTCG
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
56 54 1.00
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.49
Consensus pattern (56 bp):
AAATTATTAACATATGGAATTTTAATTAATTTTATAAGAAATTTTCATAAATTTTG
Found at i:12068016 original size:43 final size:43
Alignment explanation
Indices: 12067879--12068216 Score: 455
Period size: 43 Copynumber: 7.9 Consensus size: 43
12067869 TTTTAGAAAT
* * *
12067879 AAACGCTGCTATAGATCATGACTTTTAGCGGCGCTTTTT-CAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAC
**
12067921 AAACGCCGCTATAGATCAGGACCTTTAGCGGC-AATTTTACAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAC
12067963 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAC
12068006 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAC
* * * ** *
12068049 AAACGCCGCTATAGATCAGGACCTTTACCTGCACTTTTCCCGC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAC
* ** *
12068092 AAACGCTGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCGC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAC
* ** *
12068135 AAACGCCGCTATAGATCAGGACCTTTAGTGGCGCTTTTCCCGC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAC
* * * *
12068178 AAACGCCGCTGTAGATCATGACTTTTAGCAGCGCTTTTT
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTT
12068217 TAATAAATAC
Statistics
Matches: 269, Mismatches: 25, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
41 4 0.01
42 64 0.24
43 201 0.75
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.27
Consensus pattern (43 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACAC
Found at i:12068230 original size:86 final size:87
Alignment explanation
Indices: 12067879--12068257 Score: 448
Period size: 86 Copynumber: 4.4 Consensus size: 87
12067869 TTTTAGAAAT
* * * *
12067879 AAACGCTGCTATAGATCATGACTTTTAGCGGCGCTTTT-TCACAAACGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
**
12067943 CTTTAGC-G-GCAATTTTACAC
66 CTTTAGCGGCGCTTTTTTACAC
**
12067963 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACACAAACGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
12068028 CTTTAGCGGCGC-TTTTTACAC
66 CTTTAGCGGCGCTTTTTTACAC
* * * * *
12068049 AAACGCCGCTATAGATCAGGACCTTTACCTGCACTTTTCCCGCAAACGCTGCTATAGATCAGGAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
** *
12068114 CTTTAGCGGCGC-TTTTCCCGC
66 CTTTAGCGGCGCTTTTTTACAC
* * * *
12068135 AAACGCCGCTATAGATCAGGACCTTTAGTGGCGCTTTTCCCGCAAACGCCGCTGTAGATCATGAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
* * *
12068200 TTTTAGCAGCGCTTTTTTA-AT
66 CTTTAGCGGCGCTTTTTTACAC
** * * * *
12068221 AAATACCGCTAAAGAACACGA-CTTTAGCGGCGTTTTT
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTT
12068258 TCAAAAAATG
Statistics
Matches: 256, Mismatches: 35, Indels: 7
0.86 0.12 0.02
Matches are distributed among these distances:
84 35 0.14
85 46 0.18
86 169 0.66
87 6 0.02
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (87 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCACAAACGCCGCTATAGATCAGGAC
CTTTAGCGGCGCTTTTTTACAC
Found at i:12068259 original size:129 final size:127
Alignment explanation
Indices: 12067879--12068257 Score: 431
Period size: 129 Copynumber: 3.0 Consensus size: 127
12067869 TTTTAGAAAT
* * * *
12067879 AAACGCTGCTATAGATCATGACTTTTAGCGGCGCTTTTTCACAAACGCCGCTATAGATCAGGACC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTACACAAACGCCGCTATAGATCAGGACC
**
12067944 TTTAGCG-GCAATTTTACACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTT-ACAC
66 TTTAGCGCGCTTTTTTA-ACAAACGCCGCTATAGATCAGGACCTTTAGCGGCG-TTTTTCACAC
12068006 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTTACACAAACGCCGCTATAGATCAGGAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGC-TTTTACACAAACGCCGCTATAGATCAGGAC
* * **** * * * *
12068071 CTTTACCTGCACTTTTCCCGCAAACGCTGCTATAGATCAGGACCTTTAGCGGCGCTTTTCCCGC
65 CTTTAGC-GCGCTTTTTTAACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGTTTTTCACAC
* * * * *
12068135 AAACGCCGCTATAGATCAGGACCTTTAGTGGCGCTTTTCCCGCAAACGCCGCTGTAGATCATGAC
1 AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTT-ACACAAACGCCGCTATAGATCAGGAC
* * ** * * *
12068200 TTTTAGCAGCGCTTTTTTAATAAATACCGCTAAAGAACACGA-CTTTAGCGGCGTTTTT
65 CTTTAGC-GCGCTTTTTTAACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGTTTTT
12068258 TCAAAAAATG
Statistics
Matches: 210, Mismatches: 37, Indels: 9
0.82 0.14 0.04
Matches are distributed among these distances:
127 31 0.15
128 58 0.28
129 118 0.56
130 3 0.01
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (127 bp):
AAACGCCGCTATAGATCAGGACCTTTAGCGGCGCTTTTACACAAACGCCGCTATAGATCAGGACC
TTTAGCGCGCTTTTTTAACAAACGCCGCTATAGATCAGGACCTTTAGCGGCGTTTTTCACAC
Found at i:12068702 original size:16 final size:16
Alignment explanation
Indices: 12068652--12068714 Score: 69
Period size: 16 Copynumber: 4.1 Consensus size: 16
12068642 AATATATATT
12068652 ATGTAAGTTGTGTATA
1 ATGTAAGTTGTGTATA
* ***
12068668 ATATAA-TCAAGT-T-
1 ATGTAAGTTGTGTATA
12068681 ATGTAAGTTGTGTATA
1 ATGTAAGTTGTGTATA
12068697 ATGTAAGTTGTGTATA
1 ATGTAAGTTGTGTATA
12068713 AT
1 AT
12068715 ATTAATTAAG
Statistics
Matches: 36, Mismatches: 8, Indels: 6
0.72 0.16 0.12
Matches are distributed among these distances:
13 5 0.14
14 4 0.11
15 4 0.11
16 23 0.64
ACGTcount: A:0.35, C:0.02, G:0.21, T:0.43
Consensus pattern (16 bp):
ATGTAAGTTGTGTATA
Found at i:12068856 original size:15 final size:16
Alignment explanation
Indices: 12068825--12068861 Score: 58
Period size: 15 Copynumber: 2.3 Consensus size: 16
12068815 TTTACATTTA
12068825 CCCAAATACAACCCTAG
1 CCCAAATAC-ACCCTAG
12068842 CCCAAATAC-CCCTAG
1 CCCAAATACACCCTAG
12068857 CCCAA
1 CCCAA
12068862 GACCACAAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
15 11 0.55
17 9 0.45
ACGTcount: A:0.38, C:0.46, G:0.05, T:0.11
Consensus pattern (16 bp):
CCCAAATACACCCTAG
Found at i:12069191 original size:21 final size:21
Alignment explanation
Indices: 12069167--12069207 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
12069157 TTATAGTTTG
12069167 TTTTCT-TGGTTTTTTTCTTTT
1 TTTTCTCT-GTTTTTTTCTTTT
12069188 TTTTCTCTGTTTTTTTCTTT
1 TTTTCTCTGTTTTTTTCTTT
12069208 CTATTTTTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 18 0.95
22 1 0.05
ACGTcount: A:0.00, C:0.12, G:0.07, T:0.80
Consensus pattern (21 bp):
TTTTCTCTGTTTTTTTCTTTT
Found at i:12069823 original size:15 final size:15
Alignment explanation
Indices: 12069800--12069834 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
12069790 GTTATCATCG
*
12069800 TTATCATTAGTATTA
1 TTATTATTAGTATTA
12069815 TTATTATTAGTATTA
1 TTATTATTAGTATTA
12069830 TTATT
1 TTATT
12069835 TATATTAGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.31, C:0.03, G:0.06, T:0.60
Consensus pattern (15 bp):
TTATTATTAGTATTA
Found at i:12069853 original size:18 final size:18
Alignment explanation
Indices: 12069800--12069855 Score: 66
Period size: 18 Copynumber: 3.2 Consensus size: 18
12069790 GTTATCATCG
12069800 TTATCATTAGTATTATTA-
1 TTAT-ATTAGTATTATTAT
12069818 -T-TATTAGTATTATTAT
1 TTATATTAGTATTATTAT
12069834 TTATATTAGT-TTATATAT
1 TTATATTAGTATTAT-TAT
12069852 TTAT
1 TTAT
12069856 TTACATATTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
15 13 0.38
16 1 0.03
17 6 0.18
18 14 0.41
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (18 bp):
TTATATTAGTATTATTAT
Found at i:12071316 original size:9 final size:9
Alignment explanation
Indices: 12071298--12071354 Score: 73
Period size: 9 Copynumber: 6.6 Consensus size: 9
12071288 ATTGTGTATA
12071298 ATGTAAGTT
1 ATGTAAGTT
*
12071307 ATGAAAGTT
1 ATGTAAGTT
12071316 ATGT-A-TT
1 ATGTAAGTT
12071323 ATGTAAGTT
1 ATGTAAGTT
*
12071332 ATTTAAGTT
1 ATGTAAGTT
12071341 ATGTAAGTT
1 ATGTAAGTT
*
12071350 GTGTA
1 ATGTA
12071355 TTAAAAAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
7 6 0.15
8 2 0.05
9 33 0.80
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (9 bp):
ATGTAAGTT
Found at i:12071326 original size:25 final size:25
Alignment explanation
Indices: 12071292--12071345 Score: 81
Period size: 25 Copynumber: 2.2 Consensus size: 25
12071282 TTCGACATTG
12071292 TGTATAATGTAAGTTATGAAAGTTA
1 TGTATAATGTAAGTTATGAAAGTTA
* **
12071317 TGTATTATGTAAGTTATTTAAGTTA
1 TGTATAATGTAAGTTATGAAAGTTA
12071342 TGTA
1 TGTA
12071346 AGTTGTGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.35, C:0.00, G:0.19, T:0.46
Consensus pattern (25 bp):
TGTATAATGTAAGTTATGAAAGTTA
Found at i:12071439 original size:14 final size:14
Alignment explanation
Indices: 12071416--12071450 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
12071406 CCCTAAATCT
*
12071416 CTAACTCTTAACCC
1 CTAACCCTTAACCC
*
12071430 CTAACCCTTAACTC
1 CTAACCCTTAACCC
12071444 CTAACCC
1 CTAACCC
12071451 CTAAACCTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.29, C:0.46, G:0.00, T:0.26
Consensus pattern (14 bp):
CTAACCCTTAACCC
Found at i:12071441 original size:21 final size:21
Alignment explanation
Indices: 12071406--12071478 Score: 83
Period size: 21 Copynumber: 3.4 Consensus size: 21
12071396 ACCCTTGAAA
* *
12071406 CCCTAAATCTCTAACTCTTAAC
1 CCCTAAACCT-TAACTCCTAAC
*
12071428 CCCTAACCCTTAACTCCTAAC
1 CCCTAAACCTTAACTCCTAAC
* *
12071449 CCCTAAACCTTAAATCCCAAC
1 CCCTAAACCTTAACTCCTAAC
*
12071470 CCTTAAACC
1 CCCTAAACC
12071479 ATAATCCCTA
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
21 36 0.82
22 8 0.18
ACGTcount: A:0.33, C:0.42, G:0.00, T:0.25
Consensus pattern (21 bp):
CCCTAAACCTTAACTCCTAAC
Found at i:12071488 original size:35 final size:33
Alignment explanation
Indices: 12071374--12071490 Score: 112
Period size: 35 Copynumber: 3.4 Consensus size: 33
12071364 ACTAATTAAT
*
12071374 CTAAACCCTAAACCTTAACCCAACCCTTGAAACC
1 CTAATCCCTAAACCTTAACCCAACCCTT-AAACC
*
12071408 CTAAATCTCT-AACTCTTAACCCCTAACCCTT-AACTC
1 CT-AATCCCTAAAC-CTTAA-CCC-AACCCTTAAAC-C
*
12071444 CTAACCCCTAAACCTTAAATCCCAACCCTTAAACC
1 CTAATCCCTAAACCTT-AA-CCCAACCCTTAAACC
*
12071479 ATAATCCCTAAA
1 CTAATCCCTAAA
12071491 TCCATATATA
Statistics
Matches: 68, Mismatches: 7, Indels: 15
0.76 0.08 0.17
Matches are distributed among these distances:
34 5 0.07
35 39 0.57
36 17 0.25
37 7 0.10
ACGTcount: A:0.37, C:0.39, G:0.01, T:0.23
Consensus pattern (33 bp):
CTAATCCCTAAACCTTAACCCAACCCTTAAACC
Found at i:12071679 original size:24 final size:24
Alignment explanation
Indices: 12071652--12071707 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
12071642 TATATGAAAT
12071652 TATTTAATATATAAATTAAAAACA
1 TATTTAATATATAAATTAAAAACA
*
12071676 TATTTGAA-ATATAAATTAAAAATA
1 TATTT-AATATATAAATTAAAAACA
*
12071700 TAATTAAT
1 TATTTAAT
12071708 CTAAATCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
23 2 0.07
24 24 0.86
25 2 0.07
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (24 bp):
TATTTAATATATAAATTAAAAACA
Found at i:12071803 original size:21 final size:20
Alignment explanation
Indices: 12071745--12071831 Score: 59
Period size: 22 Copynumber: 4.1 Consensus size: 20
12071735 TGAATCCTTA
*
12071745 AACCCTAAACCCTTAA-CTCTT
1 AACCCTAAA-CCTTAATC-CCT
*
12071766 AGCCCTTAAACCCTTAATCCCT
1 AACCC-TAAA-CCTTAATCCCT
* *
12071788 AACCACTAAACCTTAAATCTCA
1 AACC-CTAAACCTT-AATCCCT
* *
12071810 AACCTTAAACCATAATCCCT
1 AACCCTAAACCTTAATCCCT
12071830 AA
1 AA
12071832 TCCATAATCC
Statistics
Matches: 53, Mismatches: 9, Indels: 9
0.75 0.13 0.13
Matches are distributed among these distances:
20 7 0.13
21 15 0.28
22 29 0.55
23 2 0.04
ACGTcount: A:0.38, C:0.36, G:0.01, T:0.25
Consensus pattern (20 bp):
AACCCTAAACCTTAATCCCT
Found at i:12071836 original size:14 final size:14
Alignment explanation
Indices: 12071819--12071845 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
12071809 AAACCTTAAA
12071819 CCATAATCCCTAAT
1 CCATAATCCCTAAT
12071833 CCATAATCCCTAA
1 CCATAATCCCTAA
12071846 ACCTTAAAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.37, G:0.00, T:0.26
Consensus pattern (14 bp):
CCATAATCCCTAAT
Found at i:12072082 original size:23 final size:25
Alignment explanation
Indices: 12072056--12072110 Score: 60
Period size: 24 Copynumber: 2.2 Consensus size: 25
12072046 TAAATAATAG
* *
12072056 TATTTTAATTTTTTC-ATGTGTT-T
1 TATTTTAATTATTTCTACGTGTTAT
*
12072079 TATTTCAAATTATTTCTACGTGTTAT
1 TATTT-TAATTATTTCTACGTGTTAT
12072105 TATTTT
1 TATTTT
12072111 TTCTGAAGAT
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
23 5 0.20
24 8 0.32
25 6 0.24
26 6 0.24
ACGTcount: A:0.22, C:0.07, G:0.07, T:0.64
Consensus pattern (25 bp):
TATTTTAATTATTTCTACGTGTTAT
Found at i:12072264 original size:41 final size:41
Alignment explanation
Indices: 12072216--12072451 Score: 285
Period size: 41 Copynumber: 5.8 Consensus size: 41
12072206 TGAAAAAGCA
*
12072216 CCGCTAAAGCCCCCAGCATTAGCGGCACTTTTCCAGAAACG
1 CCGCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAGAAACG
* * *
12072257 CCTCTAAAGCCTCAAGCATTAGCGGCGCTTTTCCAGAAACG
1 CCGCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAGAAACG
* * * *
12072298 CCGCTAAAGCCTCAAGCATTAGCGGCACTTTTCTAGAAACG
1 CCGCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAGAAACG
* *
12072339 CCGCTAAAGCCCCC-GCATTAGCGGCGCTTTTTCAAAAACG
1 CCGCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAGAAACG
* * * ** *
12072379 CCACGAAATCCCCCAGCATTAGCGGCGCTTTTTAAAAAACG
1 CCGCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAGAAACG
* * **
12072420 CAGCTAAATCCCTGAGCATTAGCGGCGCTTTT
1 CCGCTAAAGCCCCCAGCATTAGCGGCGCTTTT
12072452 TTGAAAACAC
Statistics
Matches: 172, Mismatches: 22, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
40 33 0.19
41 139 0.81
ACGTcount: A:0.27, C:0.32, G:0.19, T:0.21
Consensus pattern (41 bp):
CCGCTAAAGCCCCCAGCATTAGCGGCGCTTTTCCAGAAACG
Found at i:12072419 original size:122 final size:123
Alignment explanation
Indices: 12072209--12072468 Score: 319
Period size: 122 Copynumber: 2.1 Consensus size: 123
12072199 ACGCTTTTGA
* * * *
12072209 AAAAGCACCGCTAAAGCCCCCAGCATTAGCGGCACTTTTCCAGAAACGCCTCTAAAGCCTCAAGC
1 AAAA-CACCGCTAAAGCCCCCAGCATTAGCGGCACTTTTCCAAAAACGCCACGAAAGCCCCAAGC
* * *
12072274 ATTAGCGGCGCTTTTCCAGAAACGCCGCTAAAG-CCTCAAGCATTAGCGGCACTTTTCTAG
65 ATTAGCGGCGCTTTTCAAAAAACGCAGCTAAAGCCCT-AAGCATTAGCGGCACTTTT-TAG
* * * * *
12072334 -AAACGCCGCTAAAGCCCCC-GCATTAGCGGCGCTTTTTCAAAAACGCCACGAAATCCCCCAGCA
1 AAAACACCGCTAAAGCCCCCAGCATTAGCGGCACTTTTCCAAAAACGCCACGAAAGCCCCAAGCA
* * * * *
12072397 TTAGCGGCGCTTTTTAAAAAACGCAGCTAAATCCCTGAGCATTAGCGGCGCTTTTTTG
66 TTAGCGGCGCTTTTCAAAAAACGCAGCTAAAGCCCTAAGCATTAGCGGCACTTTTTAG
12072455 AAAACACCGCTAAA
1 AAAACACCGCTAAA
12072469 ACCCTGAAAG
Statistics
Matches: 115, Mismatches: 18, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
121 2 0.02
122 92 0.80
123 18 0.16
124 3 0.03
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (123 bp):
AAAACACCGCTAAAGCCCCCAGCATTAGCGGCACTTTTCCAAAAACGCCACGAAAGCCCCAAGCA
TTAGCGGCGCTTTTCAAAAAACGCAGCTAAAGCCCTAAGCATTAGCGGCACTTTTTAG
Found at i:12072452 original size:41 final size:41
Alignment explanation
Indices: 12072193--12072473 Score: 248
Period size: 41 Copynumber: 6.9 Consensus size: 41
12072183 TAAATTTTTT
* * * * *
12072193 TTAGCGACGC-TTTTGAAAAAGCACCGCTAAAGCCCCCAGCA
1 TTAGCGGCGCTTTTTCAAAAA-CGCCGCTAAATCCCTCAGCA
* * * * *
12072234 TTAGCGGCACTTTTCCAGAAACGCCTCTAAA-GCCTCAAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTC-AGCA
* * *
12072275 TTAGCGGCGCTTTTCCAGAAACGCCGCTAAA-GCCTCAAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTC-AGCA
* * * *
12072316 TTAGCGGCAC-TTTTCTAGAAACGCCGCTAAAGCCC-CCGCA
1 TTAGCGGCGCTTTTTC-AAAAACGCCGCTAAATCCCTCAGCA
* * *
12072356 TTAGCGGCGCTTTTTCAAAAACGCCACGAAATCCCCCAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTCAGCA
* * *
12072397 TTAGCGGCGCTTTTTAAAAAACGCAGCTAAATCCCTGAGCA
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTCAGCA
** * *
12072438 TTAGCGGCGCTTTTTTGAAAACACCGCTAAAACCCT
1 TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCT
12072474 GAAAGGTAAG
Statistics
Matches: 202, Mismatches: 32, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
40 34 0.17
41 159 0.79
42 9 0.04
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (41 bp):
TTAGCGGCGCTTTTTCAAAAACGCCGCTAAATCCCTCAGCA
Found at i:12077432 original size:53 final size:55
Alignment explanation
Indices: 12077173--12077543 Score: 247
Period size: 53 Copynumber: 6.6 Consensus size: 55
12077163 AAAAAAAAAG
* * * *
12077173 AAAAAAAATTTGTTTGGGTGCTAGCCTGTCAATGGCCAGCACCACCTTTACGAGAA
1 AAAAAAAAATT-TTCGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGAA
* * * *
12077229 AAAAAACAAATTTTTCGGGTGCTGGCCTGTTAATGGCCGGCACCA-ATATACGAAAA
1 AAAAAA-AAA-TTTTCGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGAA
*** * * * * *
12077285 AATTAAAAAATATTTTTTTTGTGGTGGTCTGTCAATGGCCGACAACACCTTTACG-G-G
1 AA--AAAAAA-A-TTTTCGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGAA
** * * *
12077342 AAAAAAAAA-TTTCGGGTATTGGCCTGTCAACGACCGGCACCACCTTTACG-GGA
1 AAAAAAAAATTTTCGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGAA
* * * *
12077395 AAAAAAAAA-TTTCGGGTGCTGGCCTGTTAATGGCCGGCACCA-GTATACGAAAAAAA
1 AAAAAAAAATTTTCGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACG---AGAA
** * * *
12077451 TTGAAAAACAAAATTTTTTTTTTGGTGTTGGCCTGTTAATGGCCGGCACCACCTTTACG-GGA
1 ---AAAAA-AAAA----TTTTCGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGAA
12077513 AAAAAAAAA-TTTCGGGTGCTGGCCTGTCAAT
1 AAAAAAAAATTTTCGGGTGCTGGCCTGTCAAT
12077544 TATGTGTCTC
Statistics
Matches: 243, Mismatches: 51, Indels: 45
0.72 0.15 0.13
Matches are distributed among these distances:
52 37 0.15
53 55 0.23
54 1 0.00
55 6 0.02
56 17 0.07
57 34 0.14
58 38 0.16
59 15 0.06
60 4 0.02
62 1 0.00
65 30 0.12
66 5 0.02
ACGTcount: A:0.32, C:0.19, G:0.22, T:0.27
Consensus pattern (55 bp):
AAAAAAAAATTTTCGGGTGCTGGCCTGTCAATGGCCGGCACCACCTTTACGAGAA
Found at i:12077656 original size:53 final size:53
Alignment explanation
Indices: 12077599--12077703 Score: 174
Period size: 53 Copynumber: 2.0 Consensus size: 53
12077589 GAGCATTGGC
* *
12077599 AGGCCAGCACCCGAAAAAAAAATTTTCCCGTAAAGGTGGTGCTGGCCATTGAT
1 AGGCCAACACCCGAAAAAAAAATTTTCCCGTAAAGGTGGTGCCGGCCATTGAT
* *
12077652 AGGCCAACACCCGAAAAAAAAATTTTCCCTTAAAGGTGGTGCCGGCTATTGA
1 AGGCCAACACCCGAAAAAAAAATTTTCCCGTAAAGGTGGTGCCGGCCATTGA
12077704 CAGTCCACCA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.33, C:0.23, G:0.23, T:0.21
Consensus pattern (53 bp):
AGGCCAACACCCGAAAAAAAAATTTTCCCGTAAAGGTGGTGCCGGCCATTGAT
Found at i:12077722 original size:53 final size:53
Alignment explanation
Indices: 12077584--12078056 Score: 170
Period size: 53 Copynumber: 8.7 Consensus size: 53
12077574 TTCGTATACT
* * **
12077584 GTGCCGAG-CATTGGCAGGCCAGCACCCGAAAAAAAAATTTTCCCGTAAAGGTG
1 GTGCCG-GCCATTGACAGGCCAACACCAAAAAAAAAAATTTTCCCGTAAAGGTG
* * ** *
12077637 GTGCTGGCCATTGATAGGCCAACACCCGAAAAAAAAATTTTCCCTTAAAGGTG
1 GTGCCGGCCATTGACAGGCCAACACCAAAAAAAAAAATTTTCCCGTAAAGGTG
* * * ** *** * *
12077690 GTGCCGGCTATTGACAGTCCACCACCAAAAAAATTTTTTTTTTAATTTTTTTGTATA-CTG
1 GTGCCGGCCATTGACAGGCCAACACCAAAAAAA--------AAAATTTTCCCGTAAAGGTG
* * * * **
12077750 GTGCTGGCCATTGACACGTCAGCACCTGAAAAAAAAA-TTTCCCGTAAAGGTG
1 GTGCCGGCCATTGACAGGCCAACACCAAAAAAAAAAATTTTCCCGTAAAGGTG
* * ***** ** * *
12077802 GTGCCGGCCATTGACAAGCCATCACCAAGCAAATTTTTTTTTTATTTTTTCGTATA-CTG
1 GTGCCGGCCATTGACAGGCCAACACCAA--AAA-----AAAAAATTTTCCCGTAAAGGTG
* * * *
12077861 GTGCCGGCTATTGATAGGCCAACACCCAAAAAAAATAA-TTTCTCGTAAAGGTG
1 GTGCCGGCCATTGACAGGCCAACA-CCAAAAAAAAAAATTTTCCCGTAAAGGTG
* * * * * * ** * *
12077914 GTGCCGGTCATTGATAGGTCACCACCAAAAAAATTTTTTAATTTTTTTCGTATA-CTG
1 GTGCCGGCCATTGACAGGCCAACACCAAAAAAA-----AAAATTTTCCCGTAAAGGTG
* * ** *
12077971 GTGACGGCCATTGACAGGCCAGCACC-CGAAAAAAAA-TTTCTCGTAAAGGTG
1 GTGCCGGCCATTGACAGGCCAACACCAAAAAAAAAAATTTTCCCGTAAAGGTG
* **
12078022 GTGACGGCCATTGACAGGCCAGTACCAAAAAAAAA
1 GTGCCGGCCATTGACAGGCCAACACCAAAAAAAAA
12078057 TTTTTTTTGG
Statistics
Matches: 306, Mismatches: 86, Indels: 57
0.68 0.19 0.13
Matches are distributed among these distances:
50 9 0.03
51 36 0.12
52 51 0.17
53 96 0.31
54 3 0.01
56 4 0.01
57 24 0.08
58 12 0.04
59 23 0.08
60 39 0.13
61 9 0.03
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.27
Consensus pattern (53 bp):
GTGCCGGCCATTGACAGGCCAACACCAAAAAAAAAAATTTTCCCGTAAAGGTG
Found at i:12077828 original size:112 final size:112
Alignment explanation
Indices: 12077635--12078064 Score: 507
Period size: 112 Copynumber: 3.9 Consensus size: 112
12077625 CCCGTAAAGG
* * *
12077635 TGGTGCTGGCCATTGATAGGCCAACACCCGAAAAAAAAATTTTCCCTTAAAGGTGGTGCCGGCTA
1 TGGTGCTGGCCATTGACAGGCCAACACCCGAAAAAAAAA-TTTCCCGTAAAGGTGGTGCCGGCCA
12077700 TTGAC-AGTCCACCACCAAAAAAATTTTTTTTTTAATTTTTTTGTATAC
65 TTGACAAG-CCACCACCAAAAAAATTTTTTTTTTAATTTTTTTGTATAC
* * * *
12077748 TGGTGCTGGCCATTGACACGTCAGCACCTGAAAAAAAAATTTCCCGTAAAGGTGGTGCCGGCCAT
1 TGGTGCTGGCCATTGACAGGCCAACACCCGAAAAAAAAATTTCCCGTAAAGGTGGTGCCGGCCAT
* ** *
12077813 TGACAAGCCATCACCAAGCAAATTTTTTTTTT-ATTTTTTCGTATAC
66 TGACAAGCCACCACCAAAAAAATTTTTTTTTTAATTTTTTTGTATAC
* * * * * *
12077859 TGGTGCCGGCTATTGATAGGCCAACACCCAAAAAAAATAATTTCTCGTAAAGGTGGTGCCGGTCA
1 TGGTGCTGGCCATTGACAGGCCAACACCCGAAAAAAA-AATTTCCCGTAAAGGTGGTGCCGGCCA
* * *
12077924 TTGATAGGTCACCACCAAAAAAA----TTTTTTAATTTTTTTCGTATAC
65 TTGACAAGCCACCACCAAAAAAATTTTTTTTTTAATTTTTTT-GTATAC
* * *
12077969 TGGTGAC-GGCCATTGACAGGCCAGCACCCG-AAAAAAAATTTCTCGTAAAGGTGGTGACGGCCA
1 TGGTG-CTGGCCATTGACAGGCCAACACCCGAAAAAAAAATTTCCCGTAAAGGTGGTGCCGGCCA
* ** **
12078032 TTGACAGGCCAGTACCAAAAAAAAATTTTTTTT
65 TTGACAAGCCACCACCAAAAAAATTTTTTTTTT
12078065 GGGTTTTCTG
Statistics
Matches: 270, Mismatches: 38, Indels: 19
0.83 0.12 0.06
Matches are distributed among these distances:
108 50 0.19
109 13 0.05
110 30 0.11
111 43 0.16
112 98 0.36
113 36 0.13
ACGTcount: A:0.31, C:0.21, G:0.19, T:0.30
Consensus pattern (112 bp):
TGGTGCTGGCCATTGACAGGCCAACACCCGAAAAAAAAATTTCCCGTAAAGGTGGTGCCGGCCAT
TGACAAGCCACCACCAAAAAAATTTTTTTTTTAATTTTTTTGTATAC
Found at i:12077895 original size:224 final size:220
Alignment explanation
Indices: 12077635--12078042 Score: 592
Period size: 224 Copynumber: 1.8 Consensus size: 220
12077625 CCCGTAAAGG
* * *
12077635 TGGTGCTGGCCATTGATAGGCCAACACCCGAAAAAAAA-ATTTTCCCTTAAAGGTGGTGCCGG-C
1 TGGTGCCGGCCATTGATAGGCCAACACCC-AAAAAAAATAATTTCCCGTAAAGGTGGTGCCGGTC
12077698 TATTGACA-GTCCACCACCAAAAAAATTTTTTTTTTAATTTTTTT-GTATACTGGTG-CTGGCCA
65 -ATTGACAGGT-CACCACCAAAAAAA----TTTTTTAATTTTTTTCGTATACTGGTGAC-GGCCA
* * *
12077760 TTGACACGTCAGCACCTGAAAAAAAAATTTCCCGTAAAGGTGGTGCCGGCCATTGACAAGCCATC
123 TTGACACGCCAGCACCCG-AAAAAAAATTTCCCGTAAAGGTGGTGACGGCCATTGACAAGCCATC
12077825 ACCAAGCAAATTTTTTTTTTATTTTTTCGTATAC
187 ACCAAGCAAATTTTTTTTTTATTTTTTCGTATAC
* *
12077859 TGGTGCCGGCTATTGATAGGCCAACACCCAAAAAAAATAATTTCTCGTAAAGGTGGTGCCGGTCA
1 TGGTGCCGGCCATTGATAGGCCAACACCCAAAAAAAATAATTTCCCGTAAAGGTGGTGCCGGTCA
* *
12077924 TTGATAGGTCACCACCAAAAAAATTTTTTAATTTTTTTCGTATACTGGTGACGGCCATTGACAGG
66 TTGACAGGTCACCACCAAAAAAATTTTTTAATTTTTTTCGTATACTGGTGACGGCCATTGACACG
* *
12077989 CCAGCACCCGAAAAAAAATTTCTCGTAAAGGTGGTGACGGCCATTGACAGGCCA
131 CCAGCACCCGAAAAAAAATTTCCCGTAAAGGTGGTGACGGCCATTGACAAGCCA
12078043 GTACCAAAAA
Statistics
Matches: 167, Mismatches: 12, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
220 56 0.34
221 31 0.19
222 1 0.01
223 8 0.05
224 68 0.41
225 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (220 bp):
TGGTGCCGGCCATTGATAGGCCAACACCCAAAAAAAATAATTTCCCGTAAAGGTGGTGCCGGTCA
TTGACAGGTCACCACCAAAAAAATTTTTTAATTTTTTTCGTATACTGGTGACGGCCATTGACACG
CCAGCACCCGAAAAAAAATTTCCCGTAAAGGTGGTGACGGCCATTGACAAGCCATCACCAAGCAA
ATTTTTTTTTTATTTTTTCGTATAC
Found at i:12080137 original size:15 final size:15
Alignment explanation
Indices: 12080114--12080143 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12080104 AAATGGCCAC
*
12080114 TCGAGCGTATTTGAT
1 TCGAACGTATTTGAT
12080129 TCGAACGTATTTGAT
1 TCGAACGTATTTGAT
12080144 AACCATTTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.23, C:0.13, G:0.23, T:0.40
Consensus pattern (15 bp):
TCGAACGTATTTGAT
Found at i:12083645 original size:77 final size:77
Alignment explanation
Indices: 12083508--12083653 Score: 220
Period size: 77 Copynumber: 1.9 Consensus size: 77
12083498 TAATAGTACG
* * * * *
12083508 CAGCAAAGCTGACGTATATTCAGTACAATGCATTGCGATAAACCATTGTATAGATATGTTGTAGT
1 CAGCAAAGCTGACGTAGATACAGTACAATGCATTGCGATAAACCACTGTACAGATATGTTGAAGT
12083573 TAAAGATAAACA
66 TAAAGATAAACA
* * *
12083585 CAGCAAAGCTGACGTAGATACAGTACAGTGCATTGCGGTAAACCACTGTACAGATTTGTTGAAGT
1 CAGCAAAGCTGACGTAGATACAGTACAATGCATTGCGATAAACCACTGTACAGATATGTTGAAGT
12083650 TAAA
66 TAAA
12083654 TTGCCAGATC
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
77 61 1.00
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.27
Consensus pattern (77 bp):
CAGCAAAGCTGACGTAGATACAGTACAATGCATTGCGATAAACCACTGTACAGATATGTTGAAGT
TAAAGATAAACA
Found at i:12085108 original size:12 final size:11
Alignment explanation
Indices: 12085091--12085134 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
12085081 TTTTTTCCAT
12085091 AATAAAAAAATA
1 AATAAAAAAA-A
12085103 AATAAAATAAAA
1 AATAAAA-AAAA
*
12085115 AATAAGAAAACA
1 AATAA-AAAAAA
12085127 AATAAAAA
1 AATAAAAA
12085135 TAACATCTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
11 3 0.10
12 21 0.72
13 5 0.17
ACGTcount: A:0.82, C:0.02, G:0.02, T:0.14
Consensus pattern (11 bp):
AATAAAAAAAA
Found at i:12099131 original size:23 final size:23
Alignment explanation
Indices: 12099084--12099134 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
12099074 ACCTACTTTC
* * * *
12099084 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGAGATA
12099107 TTACAGTAGTAATTTTCGAGATA
1 TTACAGTAGTAATTTTCGAGATA
12099130 TTACA
1 TTACA
12099135 ATGAGATACA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.29, C:0.08, G:0.20, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGAGATA
Found at i:12100050 original size:11 final size:11
Alignment explanation
Indices: 12099977--12100052 Score: 54
Period size: 11 Copynumber: 6.8 Consensus size: 11
12099967 ATTCTAAAAA
*
12099977 TAATATTATTT
1 TAATATTAATT
12099988 TAATAGTTTAATAT
1 TAATA--TTAAT-T
12100002 TAA-ATTAAATT
1 TAATATT-AATT
12100013 TAATACTT-ATCT
1 TAATA-TTAAT-T
12100025 TAATATT-ATT
1 TAATATTAATT
12100035 T--TATTAATT
1 TAATATTAATT
12100044 TAATATTAA
1 TAATATTAA
12100053 AGTGATTATC
Statistics
Matches: 54, Mismatches: 1, Indels: 20
0.72 0.01 0.27
Matches are distributed among these distances:
8 4 0.07
9 4 0.07
10 2 0.04
11 23 0.43
12 10 0.19
13 7 0.13
14 4 0.07
ACGTcount: A:0.42, C:0.03, G:0.01, T:0.54
Consensus pattern (11 bp):
TAATATTAATT
Found at i:12100066 original size:20 final size:20
Alignment explanation
Indices: 12100043--12100080 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
12100033 TTTTATTAAT
12100043 TTAATATTAAAGTGATTATC
1 TTAATATTAAAGTGATTATC
12100063 TTAATATTAAAGTGATTA
1 TTAATATTAAAGTGATTA
12100081 AGTTTAATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
TTAATATTAAAGTGATTATC
Found at i:12101077 original size:16 final size:16
Alignment explanation
Indices: 12101056--12101087 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
12101046 ATTACCTAGC
12101056 ATAGCTTGAACAGGTA
1 ATAGCTTGAACAGGTA
12101072 ATAGCTTGAACAGGTA
1 ATAGCTTGAACAGGTA
12101088 TCTCAATCAA
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:0.38, C:0.12, G:0.25, T:0.25
Consensus pattern (16 bp):
ATAGCTTGAACAGGTA
Found at i:12101870 original size:17 final size:17
Alignment explanation
Indices: 12101848--12101886 Score: 60
Period size: 17 Copynumber: 2.3 Consensus size: 17
12101838 TCAGGAAAAT
*
12101848 TTTCCTTTCCCTTTCCC
1 TTTCCTTTCCCCTTCCC
12101865 TTTCCTTTCCCCTTCCC
1 TTTCCTTTCCCCTTCCC
*
12101882 CTTCC
1 TTTCC
12101887 CCTATCCTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (17 bp):
TTTCCTTTCCCCTTCCC
Found at i:12101888 original size:12 final size:12
Alignment explanation
Indices: 12101851--12101889 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12101841 GGAAAATTTT
*
12101851 CCTTTCCCTTTC
1 CCTTTCCCTTCC
*
12101863 CCTTTCCTTTCC
1 CCTTTCCCTTCC
*
12101875 CCTTCCCCTTCC
1 CCTTTCCCTTCC
12101887 CCT
1 CCT
12101890 ATCCTTGACA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.00, C:0.56, G:0.00, T:0.44
Consensus pattern (12 bp):
CCTTTCCCTTCC
Found at i:12104782 original size:18 final size:19
Alignment explanation
Indices: 12104759--12104794 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
12104749 TCGAAACCGG
12104759 TCGG-TTAACCAAATTTTT
1 TCGGTTTAACCAAATTTTT
*
12104777 TCGGTTTAACCGAATTTT
1 TCGGTTTAACCAAATTTT
12104795 GCAGGGTAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 4 0.25
19 12 0.75
ACGTcount: A:0.25, C:0.17, G:0.14, T:0.44
Consensus pattern (19 bp):
TCGGTTTAACCAAATTTTT
Found at i:12106024 original size:27 final size:27
Alignment explanation
Indices: 12105986--12106037 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
12105976 AACTATGTCG
12105986 TTGTATACTATTGTCTTAATTTTTTCC
1 TTGTATACTATTGTCTTAATTTTTTCC
12106013 TTGTATACTATTGTCTTAATTTTTT
1 TTGTATACTATTGTCTTAATTTTTT
12106038 TCTTTCATGT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.19, C:0.12, G:0.08, T:0.62
Consensus pattern (27 bp):
TTGTATACTATTGTCTTAATTTTTTCC
Found at i:12136732 original size:26 final size:28
Alignment explanation
Indices: 12136678--12136738 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
12136668 TATTATCAAG
* *
12136678 AATTTTATGAAATTATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
12136706 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
12136732 AATTATA
1 AATTATA
12136739 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:12137499 original size:16 final size:16
Alignment explanation
Indices: 12137488--12137518 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12137478 ATTCCATTAT
12137488 ACCTCTAATCCAATAA
1 ACCTCTAATCCAATAA
12137504 ACCTCTAATCCAATA
1 ACCTCTAATCCAATA
12137519 CAACAAACTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.42, C:0.32, G:0.00, T:0.26
Consensus pattern (16 bp):
ACCTCTAATCCAATAA
Found at i:12140478 original size:11 final size:11
Alignment explanation
Indices: 12140459--12140535 Score: 65
Period size: 10 Copynumber: 7.2 Consensus size: 11
12140449 ATGGATGCTT
12140459 AATAATTTTTA
1 AATAATTTTTA
*
12140470 AAT-ATTTTTT
1 AATAATTTTTA
*
12140480 AATAAATTTTA
1 AATAATTTTTA
12140491 AA-AATTTTTAA
1 AATAATTTTT-A
12140502 AATAAATTGTTTA
1 AAT-AATT-TTTA
*
12140515 CA-AATTTTT-
1 AATAATTTTTA
12140524 -ATAATTTTTA
1 AATAATTTTTA
12140534 AA
1 AA
12140536 AGTTTTTTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
8 1 0.02
9 7 0.13
10 18 0.34
11 18 0.34
13 6 0.11
14 3 0.06
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (11 bp):
AATAATTTTTA
Found at i:12140481 original size:21 final size:20
Alignment explanation
Indices: 12140457--12140543 Score: 79
Period size: 22 Copynumber: 4.1 Consensus size: 20
12140447 AAATGGATGC
12140457 TTAATAATTTTTAAATATTTT
1 TTAATAATTTTTAAA-ATTTT
*
12140478 TTAATAAATTTTAAAAATTTT
1 TTAAT-AATTTTTAAAATTTT
*
12140499 TAAAATAAATTGTTTACAAA-TTT
1 T-TAAT-AATT-TTTA-AAATTTT
12140522 TT-ATAATTTTTAAAAGTTTT
1 TTAATAATTTTTAAAA-TTTT
12140542 TT
1 TT
12140544 TTATTACATT
Statistics
Matches: 56, Mismatches: 4, Indels: 13
0.77 0.05 0.18
Matches are distributed among these distances:
18 3 0.05
19 4 0.07
20 9 0.16
21 13 0.23
22 17 0.30
23 7 0.12
24 3 0.05
ACGTcount: A:0.41, C:0.01, G:0.02, T:0.55
Consensus pattern (20 bp):
TTAATAATTTTTAAAATTTT
Found at i:12140503 original size:10 final size:10
Alignment explanation
Indices: 12140457--12140542 Score: 59
Period size: 10 Copynumber: 8.2 Consensus size: 10
12140447 AAATGGATGC
*
12140457 TTAATAATTT
1 TTAAAAATTT
*
12140467 TTAAATATTTT
1 TTAAA-AATTT
12140478 TTAATAAA-TT
1 TTAA-AAATTT
12140488 TTAAAAATTT
1 TTAAAAATTT
12140498 TTAAAATAAATTGT
1 TT--AA-AAATT-T
*
12140512 TTACAAATTT
1 TTAAAAATTT
*
12140522 TT-ATAATTT
1 TTAAAAATTT
*
12140531 TTAAAAGTTT
1 TTAAAAATTT
12140541 TT
1 TT
12140543 TTTATTACAT
Statistics
Matches: 60, Mismatches: 8, Indels: 16
0.71 0.10 0.19
Matches are distributed among these distances:
9 10 0.17
10 24 0.40
11 14 0.23
12 4 0.07
13 5 0.08
14 3 0.05
ACGTcount: A:0.42, C:0.01, G:0.02, T:0.55
Consensus pattern (10 bp):
TTAAAAATTT
Found at i:12140519 original size:24 final size:22
Alignment explanation
Indices: 12140459--12140524 Score: 71
Period size: 21 Copynumber: 3.0 Consensus size: 22
12140449 ATGGATGCTT
* * *
12140459 AATAATTTTTAAATATTTTT-T
1 AATAAATTTTAAAAATTTTTAA
12140480 AATAAATTTTAAAAATTTTTAA
1 AATAAATTTTAAAAATTTTTAA
*
12140502 AATAAATTGTTTACAAATTTTTA
1 AATAAA-T-TTTAAAAATTTTTA
12140525 TAATTTTTAA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
21 18 0.47
22 6 0.16
23 1 0.03
24 13 0.34
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.52
Consensus pattern (22 bp):
AATAAATTTTAAAAATTTTTAA
Found at i:12148254 original size:22 final size:24
Alignment explanation
Indices: 12148214--12148268 Score: 69
Period size: 22 Copynumber: 2.3 Consensus size: 24
12148204 ATGAATGCAT
12148214 GAAAAACACATGTAAAAATGAAAA
1 GAAAAACACATGTAAAAATGAAAA
**
12148238 -AAAAACAC-TGTGCAAATGAAAA
1 GAAAAACACATGTAAAAATGAAAA
12148260 GTAAAAACA
1 G-AAAAACA
12148269 AAAGCTTGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 12 0.44
23 8 0.30
24 7 0.26
ACGTcount: A:0.64, C:0.11, G:0.13, T:0.13
Consensus pattern (24 bp):
GAAAAACACATGTAAAAATGAAAA
Found at i:12148376 original size:3 final size:3
Alignment explanation
Indices: 12148368--12148401 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
12148358 TATTGGCACC
12148368 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
12148402 TTGATTTCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:12153466 original size:16 final size:16
Alignment explanation
Indices: 12153445--12153476 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
12153435 GTTTTGTTGC
*
12153445 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
12153461 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
12153477 CTTTTAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:12173296 original size:11 final size:11
Alignment explanation
Indices: 12173280--12173318 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
12173270 GTAGGAAACT
12173280 TTTTTTTGCGG
1 TTTTTTTGCGG
12173291 TTTTTTTGCGG
1 TTTTTTTGCGG
*
12173302 TTTTTTTTGCAG
1 -TTTTTTTGCGG
12173314 TTTTT
1 TTTTT
12173319 GCTTTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 16 0.62
12 10 0.38
ACGTcount: A:0.03, C:0.08, G:0.21, T:0.69
Consensus pattern (11 bp):
TTTTTTTGCGG
Found at i:12173296 original size:12 final size:12
Alignment explanation
Indices: 12173279--12173318 Score: 64
Period size: 12 Copynumber: 3.4 Consensus size: 12
12173269 GGTAGGAAAC
12173279 TTTTTTTTGCGG
1 TTTTTTTTGCGG
12173291 -TTTTTTTGCGG
1 TTTTTTTTGCGG
*
12173302 TTTTTTTTGCAG
1 TTTTTTTTGCGG
12173314 TTTTT
1 TTTTT
12173319 GCTTTTTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 11 0.42
12 15 0.58
ACGTcount: A:0.03, C:0.07, G:0.20, T:0.70
Consensus pattern (12 bp):
TTTTTTTTGCGG
Found at i:12173680 original size:18 final size:18
Alignment explanation
Indices: 12173657--12173691 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
12173647 GTATTGGTTT
12173657 TGGTGTTGGTTTTGATTC
1 TGGTGTTGGTTTTGATTC
12173675 TGGTGTTGGTTTTGATT
1 TGGTGTTGGTTTTGATT
12173692 GCTAATATCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.06, C:0.03, G:0.34, T:0.57
Consensus pattern (18 bp):
TGGTGTTGGTTTTGATTC
Found at i:12179715 original size:76 final size:76
Alignment explanation
Indices: 12179635--12179839 Score: 215
Period size: 76 Copynumber: 2.7 Consensus size: 76
12179625 TTGCTTCTCA
* * **
12179635 TTTTTTGGTAAATTGTAAATAAATATATATTATTGA-A-AAGGCATATGATAGAATACAATACAA
1 TTTTTTCGTAAATTGTAAATAAATATATATTATTGATATAA--AATACAATAGAATACAATACAA
12179698 ACAATTTTTGATT
64 ACAATTTTTGATT
* * * * *
12179711 TTTTTTCTTAGATTGTAAATAAGTGTATATTATTGATATAAAATACAATAGAGTACAATACAAAC
1 TTTTTTCGTAAATTGTAAATAAATATATATTATTGATATAAAATACAATAGAATACAATACAAAC
12179776 AATTTTT--TT
66 AATTTTTGATT
* *
12179785 TAATTTCTTCTGTAGATTGTAAAT-AA-GTATATTATTGATATAAAATACAATAGAA
1 T--TTT-TTC-GTAAATTGTAAATAAATATATATTATTGATATAAAATACAATAGAA
12179840 AAACTTTTTT
Statistics
Matches: 111, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
74 3 0.03
76 89 0.80
77 5 0.05
78 14 0.13
ACGTcount: A:0.42, C:0.06, G:0.11, T:0.41
Consensus pattern (76 bp):
TTTTTTCGTAAATTGTAAATAAATATATATTATTGATATAAAATACAATAGAATACAATACAAAC
AATTTTTGATT
Found at i:12187206 original size:50 final size:50
Alignment explanation
Indices: 12187082--12187323 Score: 202
Period size: 50 Copynumber: 4.7 Consensus size: 50
12187072 GATAATAACA
* ** * **
12187082 TGCCAAAT-CCATGTCCCAGACATGGTCTTACATGAGATTTTTC-T-TGCAC
1 TGCC-AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAT-CGG
* * * * **
12187131 TACCAATGCCATATCCCAAATATGGTCTTACATGGGAGTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* ** * *
12187181 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTATCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
* *
12187231 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAATCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC---GG
* *
12187287 TGCCAATGCCATGTTCCAAACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
12187324 TCTCATCACC
Statistics
Matches: 154, Mismatches: 30, Indels: 11
0.79 0.15 0.06
Matches are distributed among these distances:
48 3 0.02
49 32 0.21
50 81 0.53
51 1 0.01
53 2 0.01
56 35 0.23
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCGG
Found at i:12217010 original size:17 final size:18
Alignment explanation
Indices: 12216977--12217010 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12216967 TAACATATAA
12216977 GACATAATTATAATGCAT
1 GACATAATTATAATGCAT
12216995 GACATAATTA-AATGCA
1 GACATAATTATAATGCA
12217011 AATTGAAGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.29
Consensus pattern (18 bp):
GACATAATTATAATGCAT
Found at i:12221513 original size:10 final size:9
Alignment explanation
Indices: 12221490--12221540 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 9
12221480 CGTAAAGGAG
12221490 AAAAGAAAA
1 AAAAGAAAA
12221499 AAAAGAAAA
1 AAAAGAAAA
12221508 ACAAAGAAAA
1 A-AAAGAAAA
12221518 ATGAGAAGCAAAA
1 A--A-AAG-AAAA
12221531 AAAA-AAAA
1 AAAAGAAAA
12221539 AA
1 AA
12221541 CCCAAGTGAA
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
8 6 0.16
9 10 0.27
10 11 0.30
11 2 0.05
12 3 0.08
13 5 0.14
ACGTcount: A:0.82, C:0.04, G:0.12, T:0.02
Consensus pattern (9 bp):
AAAAGAAAA
Found at i:12224597 original size:24 final size:24
Alignment explanation
Indices: 12224569--12224632 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 24
12224559 TTTCTACAAG
* *
12224569 ATTTAATATTGATTAGTATAATAT
1 ATTTAACATTGATTAGCATAATAT
*
12224593 ATTTAACATTTATTAGCATAATAT
1 ATTTAACATTGATTAGCATAATAT
* *
12224617 ATTTGACATTAATTAG
1 ATTTAACATTGATTAG
12224633 AATTAGGTTT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 35 1.00
ACGTcount: A:0.41, C:0.05, G:0.08, T:0.47
Consensus pattern (24 bp):
ATTTAACATTGATTAGCATAATAT
Found at i:12226576 original size:3 final size:3
Alignment explanation
Indices: 12226568--12226632 Score: 130
Period size: 3 Copynumber: 21.7 Consensus size: 3
12226558 NNNNNNNNNN
12226568 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
12226616 TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TA
12226633 GTCAAGTGAT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:12229374 original size:9 final size:9
Alignment explanation
Indices: 12229360--12229390 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
12229350 GTTAAACGAA
12229360 TCGAGTTAT
1 TCGAGTTAT
*
12229369 TCGAGTTAA
1 TCGAGTTAT
12229378 TCGAGTTAT
1 TCGAGTTAT
12229387 TCGA
1 TCGA
12229391 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:12229461 original size:9 final size:9
Alignment explanation
Indices: 12229444--12229480 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
12229434 TGAGTTGTCG
12229444 AATTCGAAT
1 AATTCGAAT
*
12229453 AACTCGAAT
1 AATTCGAAT
12229462 AATTCGAAT
1 AATTCGAAT
12229471 AATTCGAAT
1 AATTCGAAT
12229480 A
1 A
12229481 TCAAACTATA
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:12234851 original size:19 final size:18
Alignment explanation
Indices: 12234827--12234888 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
12234817 ACATAATTAT
*
12234827 ATAATTTATAATTTTAAAA
1 ATAA-TTATAATTATAAAA
*
12234846 ATAATTATTATTATAAAAA
1 ATAATTATAATTAT-AAAA
* *
12234865 ATTATTAGT-ATGATAAAA
1 ATAATTA-TAATTATAAAA
12234883 ATAATT
1 ATAATT
12234889 TTTAGTCAAG
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
18 17 0.47
19 18 0.50
20 1 0.03
ACGTcount: A:0.53, C:0.00, G:0.03, T:0.44
Consensus pattern (18 bp):
ATAATTATAATTATAAAA
Found at i:12237540 original size:25 final size:25
Alignment explanation
Indices: 12237512--12237591 Score: 81
Period size: 25 Copynumber: 3.2 Consensus size: 25
12237502 ATTACAACGA
* *
12237512 CTTTCTAGATGATTCGCTACAAAAG
1 CTTTCTAGATGATTCGCCATAAAAG
* * * * *
12237537 CTTTCCAAATGATACACCATAAAGG
1 CTTTCTAGATGATTCGCCATAAAAG
12237562 CTTTCTAGA-GAATTCGCCATAAAAG
1 CTTTCTAGATG-ATTCGCCATAAAAG
12237587 CTTTC
1 CTTTC
12237592 CAGAGAATTT
Statistics
Matches: 42, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
24 1 0.02
25 41 0.98
ACGTcount: A:0.34, C:0.23, G:0.14, T:0.30
Consensus pattern (25 bp):
CTTTCTAGATGATTCGCCATAAAAG
Found at i:12237616 original size:25 final size:25
Alignment explanation
Indices: 12237557--12237626 Score: 86
Period size: 25 Copynumber: 2.8 Consensus size: 25
12237547 GATACACCAT
*
12237557 AAAGGCTTTCTAGAGAATTCGCCAT
1 AAAGGCTTTCTAGAGAATTCGCCAC
* * *
12237582 AAAAGCTTTCCAGAGAATTTGCCAC
1 AAAGGCTTTCTAGAGAATTCGCCAC
* *
12237607 AAAGGTTTTCTAAAGAATTC
1 AAAGGCTTTCTAGAGAATTC
12237627 TCGAGTTTAC
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
25 36 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAGGCTTTCTAGAGAATTCGCCAC
Found at i:12238631 original size:22 final size:21
Alignment explanation
Indices: 12238601--12238641 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
12238591 CCCCAAACAC
*
12238601 AAATACAGAATACATATGCAA
1 AAATACAGAATACACATGCAA
12238622 AAATAACAGAATACACATGC
1 AAAT-ACAGAATACACATGC
12238642 TTAACATGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 4 0.22
22 14 0.78
ACGTcount: A:0.56, C:0.17, G:0.10, T:0.17
Consensus pattern (21 bp):
AAATACAGAATACACATGCAA
Found at i:12243520 original size:131 final size:131
Alignment explanation
Indices: 12243283--12243539 Score: 372
Period size: 131 Copynumber: 2.0 Consensus size: 131
12243273 TGAAACATCG
* * *
12243283 AAAATAAAGAACATACTCATGATCACATCAGGGGCATCTCTTTCCTCTCAACGTCGAGCAGCATA
1 AAAATAAAGAACATACCCATGATCACATCAGGGGCATCTCTGTCCTCTCAACGTCAAGCAGCATA
* *
12243348 AACCAGTGCAAGCTACCTCGCCTCAGTTTGATTAGTACCTCTGCCCAGTACTCTCTGTCATCGGT
66 AACCAGTGCAAGCTACCTCGCCTCAGTCTAATTAGTACCTCTGCCCAGTACTCTCTGTCATCGGT
12243413 A
131 A
* * * *
12243414 AAAATAAAGAACGTACCCGTGATCACATCAGGGGCATCTCTGTCCTCTCGACGTCAAGCAGTATA
1 AAAATAAAGAACATACCCATGATCACATCAGGGGCATCTCTGTCCTCTCAACGTCAAGCAGCATA
* * * **
12243479 AACCAGTGCAGGCTACCTCGCCTTAGTCTAATTAGCT-CCTCTGCCCGGTGTTCTCTGTCAT
66 AACCAGTGCAAGCTACCTCGCCTCAGTCTAATTAG-TACCTCTGCCCAGTACTCTCTGTCAT
12243540 TAACCCATAC
Statistics
Matches: 111, Mismatches: 14, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
131 110 0.99
132 1 0.01
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (131 bp):
AAAATAAAGAACATACCCATGATCACATCAGGGGCATCTCTGTCCTCTCAACGTCAAGCAGCATA
AACCAGTGCAAGCTACCTCGCCTCAGTCTAATTAGTACCTCTGCCCAGTACTCTCTGTCATCGGT
A
Found at i:12244816 original size:25 final size:25
Alignment explanation
Indices: 12244770--12244820 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 25
12244760 TTAGTCTCTA
12244770 ACTAACTCAGTATAGTTTCAGAAAGT
1 ACTAACTCAGTATA-TTTCAGAAAGT
12244796 ACTAACTACAGTAT-TTTCAGAAAGT
1 ACTAACT-CAGTATATTTCAGAAAGT
12244821 TCTATCTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
25 11 0.46
26 7 0.29
27 6 0.25
ACGTcount: A:0.39, C:0.16, G:0.14, T:0.31
Consensus pattern (25 bp):
ACTAACTCAGTATATTTCAGAAAGT
Found at i:12246190 original size:67 final size:67
Alignment explanation
Indices: 12246082--12246212 Score: 228
Period size: 67 Copynumber: 2.0 Consensus size: 67
12246072 TTTTCAATTC
*
12246082 AGAGAGCACACTTCCGCGAACCTCATTTCTTACAGCGGGATTACCAATCCAGGCTAAATCCCCTA
1 AGAGAGCACACTTCCGCGAACCTCATTTCTTACAGCAGGATTACCAATCCAGGCTAAATCCCCTA
12246147 CA
66 CA
*
12246149 AGAGAGCACAC-TCTCGCGAACCTCATTTCTTACAGCAGGATTACCAGTCCAGGCTAAATCCCCT
1 AGAGAGCACACTTC-CGCGAACCTCATTTCTTACAGCAGGATTACCAATCCAGGCTAAATCCCCT
12246213 GTAATATAAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
66 2 0.03
67 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (67 bp):
AGAGAGCACACTTCCGCGAACCTCATTTCTTACAGCAGGATTACCAATCCAGGCTAAATCCCCTA
CA
Found at i:12246432 original size:57 final size:60
Alignment explanation
Indices: 12246355--12246484 Score: 149
Period size: 57 Copynumber: 2.2 Consensus size: 60
12246345 TCTGGACTAA
* * * *
12246355 ATCCATTTTCCACATATTCTTTGAGAGAGCTATATC-A-A-GATCACCCGTCCAGGCTAG
1 ATCCTTTTTACACATATTCTTCGAGAGAGATATATCGATAGGATCACCCGTCCAGGCTAG
* * * *
12246412 ATCTTTTTTACACATATTCTTCGGGAGGGATATATCAGGATAGGATCACCCGTCCGGGCTAG
1 ATCCTTTTTACACATATTCTTCGAGAGAGATATATC--GATAGGATCACCCGTCCAGGCTAG
12246474 ATCCTTTTTAC
1 ATCCTTTTTAC
12246485 TGTCAATTCC
Statistics
Matches: 59, Mismatches: 9, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
57 29 0.49
60 1 0.02
61 1 0.02
62 28 0.47
ACGTcount: A:0.25, C:0.24, G:0.18, T:0.32
Consensus pattern (60 bp):
ATCCTTTTTACACATATTCTTCGAGAGAGATATATCGATAGGATCACCCGTCCAGGCTAG
Found at i:12249444 original size:13 final size:13
Alignment explanation
Indices: 12249426--12249450 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12249416 AGCCTAGCCT
12249426 GTGTGGCATGTCC
1 GTGTGGCATGTCC
12249439 GTGTGGCATGTC
1 GTGTGGCATGTC
12249451 AATGTGGGTC
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:0.08, C:0.20, G:0.40, T:0.32
Consensus pattern (13 bp):
GTGTGGCATGTCC
Found at i:12259337 original size:14 final size:14
Alignment explanation
Indices: 12259318--12259351 Score: 68
Period size: 14 Copynumber: 2.4 Consensus size: 14
12259308 GCTTGTAGGA
12259318 AACTTTGACTATCG
1 AACTTTGACTATCG
12259332 AACTTTGACTATCG
1 AACTTTGACTATCG
12259346 AACTTT
1 AACTTT
12259352 TTGTTACAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.12, T:0.38
Consensus pattern (14 bp):
AACTTTGACTATCG
Found at i:12263314 original size:8 final size:7
Alignment explanation
Indices: 12263288--12263313 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
12263278 GGGTAATGCC
12263288 TTTTTCT
1 TTTTTCT
12263295 TTTTTCT
1 TTTTTCT
12263302 TTTTTCT
1 TTTTTCT
12263309 TTTTT
1 TTTTT
12263314 TACTTTATAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTCT
Found at i:12263584 original size:58 final size:58
Alignment explanation
Indices: 12263515--12263805 Score: 582
Period size: 58 Copynumber: 5.0 Consensus size: 58
12263505 AATGAACAAA
12263515 TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
1 TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
12263573 TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
1 TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
12263631 TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
1 TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
12263689 TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
1 TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
12263747 TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
1 TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
12263805 T
1 T
12263806 GGTGAATGAC
Statistics
Matches: 233, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 233 1.00
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (58 bp):
TTATTTCCTATATGTTTAAAAAGCTTACATTTTAGTCCCTGCACGTTAATTTTGTTGT
Found at i:12269552 original size:27 final size:24
Alignment explanation
Indices: 12269496--12269544 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 24
12269486 CAAAGGGAAA
*
12269496 AAAAGAAAGAAAAAATATTGCAGT
1 AAAAGAAAGAAAAAAAATTGCAGT
12269520 AAAAGAAAGGAAAAAAAATT-CAGT
1 AAAAGAAA-GAAAAAAAATTGCAGT
12269544 A
1 A
12269545 GCCAAAGAGG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 13 0.57
25 10 0.43
ACGTcount: A:0.65, C:0.04, G:0.16, T:0.14
Consensus pattern (24 bp):
AAAAGAAAGAAAAAAAATTGCAGT
Found at i:12272268 original size:100 final size:100
Alignment explanation
Indices: 12272081--12272452 Score: 462
Period size: 100 Copynumber: 3.7 Consensus size: 100
12272071 AGAATTTAAG
* * * * * * * *
12272081 ATCTTATCTCCTTGGCGATGCAGTGGAGCAGATTAAAGCCACGACGGCGTATCTTGCTTCCCCGA
1 ATCTTACCTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
* * * *
12272146 CATTGCAGTTAAAAAGACTAAAGCCACAGCGGCGA
66 CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * * *
12272181 GTGTTACTTCCCTGGCGATGCAGTCGAATAGATTAAAGCCACAACGGTGAATCTTG-CTCCCCTG
1 ATCTTACCTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTG
**
12272245 ACATTGCGGTTAAAAAGATTAAAGCTACAATAGCGA
65 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
** * *
12272281 ATCTTACCTCCAAGGAGGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
1 ATCTTACCTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
12272346 CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
66 CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
* * * *
12272381 ATCCTACCT-CCTAGGCGGTGCAGTGGAACAGATTAAAGCCA-TACAGTGAATCTTGCCTCCCTG
1 ATCTTACCTCCCT-GGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTG
12272444 ACATTGCGG
65 ACATTGCGG
12272453 CTACAACAGG
Statistics
Matches: 233, Mismatches: 36, Indels: 7
0.84 0.13 0.03
Matches are distributed among these distances:
99 31 0.13
100 200 0.86
101 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.23, T:0.23
Consensus pattern (100 bp):
ATCTTACCTCCCTGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
CATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
Found at i:12272383 original size:50 final size:50
Alignment explanation
Indices: 12272110--12272450 Score: 215
Period size: 50 Copynumber: 6.8 Consensus size: 50
12272100 GCAGTGGAGC
* * * * *
12272110 AGATTAAAGCCACGACGGCGTATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGCAGTTAAAA
* * * * * * * * ** *
12272160 AGACTAAAGCCACAGCGGCGAGTGTTACTTCCCTGGCGA-TGCAGTCGAAT
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGAC-ATTGCAGTTAAAA
* * *
12272210 AGATTAAAGCCACAACGGTGAATCTTG-CTCCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGCCT-CCCTGACATTGCAGTTAAAA
* * * ** ** ** *
12272260 AGATTAAAGCTACAATAGCGAATCTTACCTCCAAGGA-GGTGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCC-CTGACATTGCAGTTAAAA
* * *
12272310 AGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGCAGTTAAAA
* * * * * ** ** *
12272360 AGATTAAAGCTACAGCAGCGAATCCTACCT-CCTAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCT-GACATTGCAGTTAAAA
* *
12272410 AGATTAAAGCCA-TACAGTGAATCTTGCCTCCCTGACATTGC
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGC
12272451 GGCTACAACA
Statistics
Matches: 211, Mismatches: 72, Indels: 17
0.70 0.24 0.06
Matches are distributed among these distances:
49 24 0.11
50 182 0.86
51 5 0.02
ACGTcount: A:0.31, C:0.25, G:0.22, T:0.22
Consensus pattern (50 bp):
AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGCAGTTAAAA
Found at i:12276954 original size:3 final size:3
Alignment explanation
Indices: 12276946--12276994 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
12276936 TATTCAGTAA
* *
12276946 TAT TAT TAT TAAT CTAT TAG TAT TAT TAA T-T TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12276992 TAT
1 TAT
12276995 CACCGTTGTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 1 0.03
3 33 0.85
4 4 0.10
5 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:12276971 original size:17 final size:17
Alignment explanation
Indices: 12276949--12276990 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
12276939 TCAGTAATAT
12276949 TATTATTAATCTATTAG
1 TATTATTAATCTATTAG
* *
12276966 TATTATTAATTTATTAT
1 TATTATTAATCTATTAG
12276983 TATTATTA
1 TATTATTA
12276991 TTATCACCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTATTAATCTATTAG
Found at i:12277034 original size:12 final size:12
Alignment explanation
Indices: 12277003--12277040 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
12276993 ATCACCGTTG
12277003 TTACTATTGATA
1 TTACTATTGATA
*
12277015 TTATTATTGATA
1 TTACTATTGATA
*
12277027 TTGCTATT-ATA
1 TTACTATTGATA
12277038 TTA
1 TTA
12277041 GTTTGTATAT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.55
Consensus pattern (12 bp):
TTACTATTGATA
Found at i:12277050 original size:23 final size:24
Alignment explanation
Indices: 12277006--12277051 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 24
12276996 ACCGTTGTTA
*
12277006 CTATTGATATTATTATTGATATTG
1 CTATTGATATTAGTATTGATATTG
12277030 CTATT-ATATTAGT-TTGTATATT
1 CTATTGATATTAGTATTG-ATATT
12277052 TAATTGCCAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 3 0.15
23 12 0.60
24 5 0.25
ACGTcount: A:0.28, C:0.04, G:0.11, T:0.57
Consensus pattern (24 bp):
CTATTGATATTAGTATTGATATTG
Found at i:12281694 original size:18 final size:17
Alignment explanation
Indices: 12281667--12281700 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
12281657 AAAAGAAGAA
12281667 AAAGAAAAATCAAAATC
1 AAAGAAAAATCAAAATC
*
12281684 AAAGTAAAAATGAAAAT
1 AAAG-AAAAATCAAAAT
12281701 GAAAAAAGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.15
Consensus pattern (17 bp):
AAAGAAAAATCAAAATC
Found at i:12281717 original size:18 final size:17
Alignment explanation
Indices: 12281696--12281732 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
12281686 AGTAAAAATG
*
12281696 AAAATGAAAAAAGAGAAA
1 AAAAAGAAAAAAG-GAAA
12281714 AAAAAGAAAAAAGGAAA
1 AAAAAGAAAAAAGGAAA
12281731 AA
1 AA
12281733 GAAATGGAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.81, C:0.00, G:0.16, T:0.03
Consensus pattern (17 bp):
AAAAAGAAAAAAGGAAA
Found at i:12283577 original size:44 final size:43
Alignment explanation
Indices: 12283045--12283593 Score: 257
Period size: 44 Copynumber: 12.6 Consensus size: 43
12283035 GCCAGAAATA
* * ** *
12283045 TTATCTCCCTGAGATTACAGCGGAGTAGATTGAAGCT-AGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG-GATC
* **
12283089 CTATCTCCCTGAGATTACAGTGGAGTGGATTAAAATAAAGGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAGGATC
* * * * * *
12283133 TTATCTCTCTGA-AGTTACAGTAGAGTAGA-TCACATCAGG-TC
1 TTATCTCCCTGAGA-TTACAGTGGAGCAGATTAAAATAAGGATC
* ** ** *
12283174 TTGTCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCA-GATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TAAGGATC
**** **
12283220 TTATCTCCCTGAGATTACAACAAAGCAGATTGAAGCT--GGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAGG--ATC
* *
12283264 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAGGATC
** ** *
12283308 -T-TCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCA-GATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGA-TTAA-AA--TAAGGATC
* ** ***
12283352 TTATCTCCCTGAGATTACAGCGGAGCAGATTGAAGCTATTTATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAGGATC
* * *
12283396 CTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAGGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAGGATC
** * * *
12283440 -T-TCTCCCTGAGATTACAGTGGAATAGACTGGAGAATTTTA-GATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGA-T-TA-AA-ATAAGGATC
* * * * ** *
12283484 TTATCTCCCTAAGACTACAGCGGATCAGATTGAAGCT-AGTAATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATT-AAAATAAG-GATC
* *
12283528 CTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGATC
1 TTATCTCCCTGAGATTACAGTGGAGCAGATTAAAAT-AAGGATC
12283572 TTATCT--CTGAGATTACAGTGGA
1 TTATCTCCCTGAGATTACAGTGGA
12283594 ATAGACCGAA
Statistics
Matches: 378, Mismatches: 90, Indels: 76
0.69 0.17 0.14
Matches are distributed among these distances:
41 25 0.07
42 67 0.18
43 26 0.07
44 168 0.44
45 13 0.03
46 79 0.21
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.29
Consensus pattern (43 bp):
TTATCTCCCTGAGATTACAGTGGAGCAGATTAAAATAAGGATC
Found at i:12283646 original size:132 final size:132
Alignment explanation
Indices: 12283177--12283626 Score: 765
Period size: 132 Copynumber: 3.4 Consensus size: 132
12283167 TCAGGTCTTG
* *
12283177 TCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAACA
1 TCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCG
* *
12283242 AAGCAGATTGAAGCTGGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
66 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
12283307 CT
131 CT
12283309 TCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCG
1 TCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCG
* * *
12283374 GAGCAGATTGAAGCTATTTATCCTATCTCCCTGAGATTATAGTGGAGCGGATTAAAATAAAGGAT
66 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
12283439 CT
131 CT
* * * * *
12283441 TCTCCCTGAGATTACAGTGGAATAGACTGGAGAATTTTAGATCTTATCTCCCTAAGACTACAGCG
1 TCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCG
*
12283506 GATCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
66 GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
12283571 CT
131 CT
* *
12283573 TATCTCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTG
1 TCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTG
12283627 GCGATGCAGT
Statistics
Matches: 296, Mismatches: 22, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
132 296 1.00
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (132 bp):
TCTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTACAGCG
GAGCAGATTGAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAATAAAGGAT
CT
Found at i:12283794 original size:100 final size:100
Alignment explanation
Indices: 12283613--12283983 Score: 449
Period size: 100 Copynumber: 3.7 Consensus size: 100
12283603 AGAATTTCAG
* * ** * * * *
12283613 ATCTTATCTCCCTGGCGATGCAGTGGAGTAGATTAAAGCCACGACGG-CATATCTTGCTTCCCCG
1 ATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGA-ATCTTGCCTCCCTG
* * *
12283677 ACATTGCAGTTAAAAAGACTAAAGCCACAGCGGCGA
65 ACATTGCGGTTAAAAAGATTAAAGCCACAGCAGCGA
* * * * * *
12283713 GTGTTACTTCCCTGGCGATGCAGTCGAATAGATTAAAGCCACAACGGTGAATCTTG-CTCCCCTG
1 ATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCT-CCCTG
*
12283777 ACATTGCGGTTAAAAAGATTAAAGCTACAGCAGCGA
65 ACATTGCGGTTAAAAAGATTAAAGCCACAGCAGCGA
* * * * *
12283813 ATCTTACCTCCAACGTGGTGCAGTGGAACACATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
1 ATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
** *
12283878 CATTGCGGTTAAAAAGATTAAAGTGATAGCAGCGA
66 CATTGCGGTTAAAAAGATTAAAGCCACAGCAGCGA
* * *
12283913 ATCTGACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCATAACGGTGAATCTTGCCTCCCTGA
1 ATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
12283978 CATTGC
66 CATTGC
12283984 AGCTACAGCA
Statistics
Matches: 234, Mismatches: 34, Indels: 6
0.85 0.12 0.02
Matches are distributed among these distances:
99 1 0.00
100 230 0.98
101 3 0.01
ACGTcount: A:0.29, C:0.25, G:0.23, T:0.23
Consensus pattern (100 bp):
ATCTTACCTCCCAGGCGATGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCCTCCCTGA
CATTGCGGTTAAAAAGATTAAAGCCACAGCAGCGA
Found at i:12283915 original size:50 final size:50
Alignment explanation
Indices: 12283642--12283985 Score: 189
Period size: 50 Copynumber: 6.9 Consensus size: 50
12283632 GCAGTGGAGT
* * * * *
12283642 AGATTAAAGCCACGACGGC-ATATCTTGCTTCCCCGACATTGCAGTTAAAA
1 AGATTAAAGCCACAACAGCGA-ATCTTGCCTCCCTGACATTGCAGTGAAAA
* * * * * * * * *
12283692 AGACTAAAGCCACAGCGGCGAGTGTTACTTCCCTGGCGA-TGCAGTCG-AAT
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGAC-ATTGCAGT-GAAAA
* * * *
12283742 AGATTAAAGCCACAACGGTGAATCTTG-CTCCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGCCT-CCCTGACATTGCAGTGAAAA
* * * * * * *
12283792 AGATTAAAGCTACAGCAGCGAATCTTACCT-CC-AACGTGGTGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACAT--TGCAGTGAAAA
* * * * *
12283842 ACATTAAAGCCACAACGGTGAATCTTGCCTCCCTGACATTGCGGTTAAAA
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGCAGTGAAAA
** * * * * ** * *
12283892 AGATTAAAGTGATAGCAGCGAATC-TGACCTCCCAGGCGGTGCAGTGGAAC
1 AGATTAAAGCCACAACAGCGAATCTTG-CCTCCCTGACATTGCAGTGAAAA
* * *
12283942 AGATTAAAGCCATAACGGTGAATCTTGCCTCCCTGACATTGCAG
1 AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGCAG
12283986 CTACAGCAGC
Statistics
Matches: 213, Mismatches: 68, Indels: 26
0.69 0.22 0.08
Matches are distributed among these distances:
48 3 0.01
49 6 0.03
50 193 0.91
51 8 0.04
52 3 0.01
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.22
Consensus pattern (50 bp):
AGATTAAAGCCACAACAGCGAATCTTGCCTCCCTGACATTGCAGTGAAAA
Found at i:12284049 original size:86 final size:85
Alignment explanation
Indices: 12283905--12284071 Score: 255
Period size: 86 Copynumber: 2.0 Consensus size: 85
12283895 TTAAAGTGAT
* * *
12283905 AGCAGCGAATCTGACCTCCCAGGCGGTGCAGTGGAACAGATTAAAGCCATAACGGTGAATCTTGC
1 AGCAGCAAATCTGACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
*
12283970 CTCCCTGACATTGCAGCTAC
66 CTCCCCGACATTGCAGCTAC
*
12283990 AGCAGCAAATCTTACACTCCCAGGCAGTGCAGT-GAAGCAGATTAAAGCCACAACGGTGAATCTT
1 AGCAGCAAATCTGAC-CTCCCAGGCAGTGCAGTGGAA-CAGATTAAAGCCACAACGGTGAATCTT
*
12284054 GCTTCCCCGACATTGCAG
64 GCCTCCCCGACATTGCAG
12284072 TTAAAAAGAT
Statistics
Matches: 74, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
85 16 0.22
86 58 0.78
ACGTcount: A:0.29, C:0.28, G:0.23, T:0.20
Consensus pattern (85 bp):
AGCAGCAAATCTGACCTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGTGAATCTTGC
CTCCCCGACATTGCAGCTAC
Found at i:12285487 original size:3 final size:3
Alignment explanation
Indices: 12285481--12285529 Score: 55
Period size: 3 Copynumber: 16.0 Consensus size: 3
12285471 TATTCAGTAA
* *
12285481 TAT TAT TAT TAAT CTAT TAG TAT TAT TAA T-T TAT TAT TAT TAT TAT
1 TAT TAT TAT T-AT -TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
12285527 TAT
1 TAT
12285530 CACCGTTTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 1 0.03
3 33 0.85
4 4 0.10
5 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (3 bp):
TAT
Found at i:12285506 original size:17 final size:17
Alignment explanation
Indices: 12285484--12285525 Score: 66
Period size: 17 Copynumber: 2.5 Consensus size: 17
12285474 TCAGTAATAT
12285484 TATTATTAATCTATTAG
1 TATTATTAATCTATTAG
* *
12285501 TATTATTAATTTATTAT
1 TATTATTAATCTATTAG
12285518 TATTATTA
1 TATTATTA
12285526 TTATCACCGT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (17 bp):
TATTATTAATCTATTAG
Found at i:12287809 original size:53 final size:53
Alignment explanation
Indices: 12287734--12287841 Score: 155
Period size: 53 Copynumber: 2.0 Consensus size: 53
12287724 GGAAACACAT
* * *
12287734 ATCACACCGATGCCATATCCTAGATATGGTCTTATACGAAATTCACAT-ATCAC
1 ATCACACCGATACCATAACCTAGATATGGTCTTATACGAAA-GCACATAATCAC
* *
12287787 ATCACACCGATACCATAACCTAGCTATGGTTTTATACGAAAGCACATAATCAC
1 ATCACACCGATACCATAACCTAGATATGGTCTTATACGAAAGCACATAATCAC
12287840 AT
1 AT
12287842 TTTCACATGT
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
52 5 0.10
53 44 0.90
ACGTcount: A:0.36, C:0.26, G:0.11, T:0.27
Consensus pattern (53 bp):
ATCACACCGATACCATAACCTAGATATGGTCTTATACGAAAGCACATAATCAC
Found at i:12288156 original size:21 final size:22
Alignment explanation
Indices: 12288116--12288156 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
12288106 TTTGAAATAA
* *
12288116 AACATTATATCATTTCTAATTC
1 AACATTATATCAATTATAATTC
12288138 AACATT-TATCAATTATAAT
1 AACATTATATCAATTATAAT
12288157 CGGGTATATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.41, C:0.15, G:0.00, T:0.44
Consensus pattern (22 bp):
AACATTATATCAATTATAATTC
Found at i:12293060 original size:79 final size:78
Alignment explanation
Indices: 12292911--12293074 Score: 213
Period size: 79 Copynumber: 2.1 Consensus size: 78
12292901 TGTAATTGTA
** * * * *
12292911 TTCTGTTTGTAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTTTATTCCTGCTGTTCAACG
1 TTCTGTTTCCAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTCTATTCCTCCTATTCAAAG
*
12292976 TAATTTTTTCAAT
66 TAATTTATTCAAT
* *
12292989 TCTCTGTTTCCAAACAGAAATCAATTGAACAATTCTGTTTTAGGATTCTATTCCTCCTATTCAAT
1 T-TCTGTTTCCAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTCTATTCCTCCTATTCAA-
*
12293054 AG-AATTTATTCGAT
64 AGTAATTTATTCAAT
12293068 TTCTGTT
1 TTCTGTT
12293075 GTTAATAGTA
Statistics
Matches: 74, Mismatches: 10, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
78 7 0.09
79 66 0.89
80 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.11, T:0.43
Consensus pattern (78 bp):
TTCTGTTTCCAAACAGAAATCAATTAAACAATTCTGTTTCAGGATTCTATTCCTCCTATTCAAAG
TAATTTATTCAAT
Found at i:12304988 original size:26 final size:26
Alignment explanation
Indices: 12304959--12305013 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
12304949 ATTGGATTTT
12304959 AATAGTTTCTAGACAATTTCTTCTCC
1 AATAGTTTCTAGACAATTTCTTCTCC
12304985 AATAGTTTCTAGACAATTTCTTCTCC
1 AATAGTTTCTAGACAATTTCTTCTCC
12305011 AAT
1 AAT
12305014 TTTCTATCCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (26 bp):
AATAGTTTCTAGACAATTTCTTCTCC
Found at i:12305939 original size:42 final size:41
Alignment explanation
Indices: 12305892--12305990 Score: 119
Period size: 42 Copynumber: 2.3 Consensus size: 41
12305882 CATTCTGTTT
*
12305892 AGCTCTCATGAGCTTATGTTTAA-CTTATATGAGTTTCCGTTC
1 AGCTCT-ATGAGCTTATGTTTAACCTT-TATGAGTTTCCGTTA
* * *
12305934 AGCTCTATTGAGCTTCTGTTTAACCTTTATGGGTTTCTGTTA
1 AGCTCTA-TGAGCTTATGTTTAACCTTTATGAGTTTCCGTTA
12305976 AGCTCTTATGAGCTT
1 AGCTC-TATGAGCTT
12305991 TCGTTCAGCT
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
41 1 0.02
42 44 0.88
43 5 0.10
ACGTcount: A:0.19, C:0.18, G:0.18, T:0.44
Consensus pattern (41 bp):
AGCTCTATGAGCTTATGTTTAACCTTTATGAGTTTCCGTTA
Found at i:12305996 original size:63 final size:64
Alignment explanation
Indices: 12305919--12306053 Score: 186
Period size: 63 Copynumber: 2.1 Consensus size: 64
12305909 GTTTAACTTA
* * * *
12305919 TATGAG-TTTCCGTTCAGCTC-TATTGAGCTTCTGTTTAACCTTTATGGGTTTCTGTTAAGCTCT
1 TATGAGCTTTCCGTTCAGCTCTTA-CGAGCTTCCGTTCAACCTTTATGGGTTTCTATTAAGCTCT
*
12305982 TATGAGCTTT-CGTTCAGCTCTTACGAGCTTCCGTTCAACCTTTATGGGTTTCTATTTAGCTCT
1 TATGAGCTTTCCGTTCAGCTCTTACGAGCTTCCGTTCAACCTTTATGGGTTTCTATTAAGCTCT
*
12306045 CATGAGCTT
1 TATGAGCTT
12306054 CTGTTTAGCC
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
63 59 0.92
64 5 0.08
ACGTcount: A:0.16, C:0.21, G:0.19, T:0.44
Consensus pattern (64 bp):
TATGAGCTTTCCGTTCAGCTCTTACGAGCTTCCGTTCAACCTTTATGGGTTTCTATTAAGCTCT
Found at i:12306060 original size:21 final size:21
Alignment explanation
Indices: 12305884--12306062 Score: 107
Period size: 21 Copynumber: 8.5 Consensus size: 21
12305874 CGTGTTTACA
*
12305884 TTCTGTTTAGCTCTCATGAGC
1 TTCTGTTTAGCTCTTATGAGC
* * *
12305905 TTATGTTTAACT-TATATGAGT
1 TTCTGTTTAGCTCT-TATGAGC
* *
12305926 TTCCGTTCAGCTC-TATTGAGC
1 TTCTGTTTAGCTCTTA-TGAGC
* * *
12305947 TTCTGTTTAAC-CTTTATGGGT
1 TTCTGTTTAGCTC-TTATGAGC
*
12305968 TTCTGTTAAGCTCTTATGAGC
1 TTCTGTTTAGCTCTTATGAGC
* *
12305989 TT-TCGTTCAGCTCTTACGAGC
1 TTCT-GTTTAGCTCTTATGAGC
* * * * *
12306010 TTCCGTTCAAC-CTTTATGGGT
1 TTCTGTTTAGCTC-TTATGAGC
* *
12306031 TTCTATTTAGCTCTCATGAGC
1 TTCTGTTTAGCTCTTATGAGC
12306052 TTCTGTTTAGC
1 TTCTGTTTAGC
12306063 CTTCGGGCTT
Statistics
Matches: 115, Mismatches: 33, Indels: 20
0.68 0.20 0.12
Matches are distributed among these distances:
20 6 0.05
21 105 0.91
22 4 0.03
ACGTcount: A:0.17, C:0.21, G:0.18, T:0.45
Consensus pattern (21 bp):
TTCTGTTTAGCTCTTATGAGC
Found at i:12306876 original size:42 final size:42
Alignment explanation
Indices: 12306814--12306906 Score: 141
Period size: 42 Copynumber: 2.2 Consensus size: 42
12306804 GTGTGTCTTA
* **
12306814 GCCGTGTGAGACACAAGACCTAGCACATGGGCTTGTGGTTTG
1 GCCGTGTGTGACACAAGACCTAGCACATGGGAGTGTGGTTTG
* *
12306856 GCCGTGTGTGACACACGACCTAGCACATGGGAGTGTGTTTTG
1 GCCGTGTGTGACACAAGACCTAGCACATGGGAGTGTGGTTTG
12306898 GCCGTGTGT
1 GCCGTGTGT
12306907 CCTCTACATC
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 46 1.00
ACGTcount: A:0.18, C:0.22, G:0.34, T:0.26
Consensus pattern (42 bp):
GCCGTGTGTGACACAAGACCTAGCACATGGGAGTGTGGTTTG
Found at i:12314874 original size:13 final size:13
Alignment explanation
Indices: 12314856--12314885 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
12314846 AGTTTAGTGG
12314856 TACAAATTATAAT
1 TACAAATTATAAT
12314869 TACAAATTATAAT
1 TACAAATTATAAT
12314882 TACA
1 TACA
12314886 TATTTTTTGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.53, C:0.10, G:0.00, T:0.37
Consensus pattern (13 bp):
TACAAATTATAAT
Found at i:12320441 original size:24 final size:24
Alignment explanation
Indices: 12320391--12320442 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
12320381 AATCAAAGTC
* **
12320391 AAATATATTATGCTAATAAATGTT
1 AAATATATTATACTAATAAATACT
*
12320415 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
12320439 AAAT
1 AAAT
12320443 CTTCTAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.50, C:0.08, G:0.04, T:0.38
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:12324033 original size:50 final size:50
Alignment explanation
Indices: 12323914--12324085 Score: 148
Period size: 50 Copynumber: 3.5 Consensus size: 50
12323904 TGCCAAAGAT
* ** * * * * * *
12323914 ATGTCCCAGACATAGTCTTACATGGGATGTTTCCTGT-ACTGCCAATGTC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCC
* ** * * *
12323963 ATATCCCAGACATGGTCTTACATGGGAGTTCTCATATCAGTGCCCATGCT
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCC
* * ** * *
12324013 ATGTCCCATACAAGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGCC
1 ATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCC
12324063 ATGTCCCAGACATGGTCTTACAT
1 ATGTCCCAGACATGGTCTTACAT
12324086 TTTACCTCTC
Statistics
Matches: 95, Mismatches: 27, Indels: 1
0.77 0.22 0.01
Matches are distributed among these distances:
49 30 0.32
50 65 0.68
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (50 bp):
ATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAACGCC
Found at i:12331868 original size:30 final size:30
Alignment explanation
Indices: 12331826--12331884 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
12331816 ATAATTAATA
*
12331826 TATTATGAAAATT-TTGAAAATTTATAAAAC
1 TATTATGAAAATTATAGAAAA-TTATAAAAC
12331856 TATTATTG-AAATTATAGAAAATTATAAAA
1 TATTA-TGAAAATTATAGAAAATTATAAAA
12331885 AAATAGAAAT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
30 18 0.69
31 8 0.31
ACGTcount: A:0.53, C:0.02, G:0.07, T:0.39
Consensus pattern (30 bp):
TATTATGAAAATTATAGAAAATTATAAAAC
Done.