Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 100 of 173
Found at i:31085933 original size:83 final size:81
Alignment explanation
Indices: 31085730--31085991 Score: 228
Period size: 83 Copynumber: 3.2 Consensus size: 81
31085720 AATTTAATTT
* * * *
31085730 GTGGCGTTTTTG-GGAAAACGCCGTAAATATGTATT-ATAATTTATCAAAACGGCCTCGTTTCAC
1 GTGGCGTTTTTGCGGAAAACGCCG-CAATATGTATTAAT-GTTTTTCAAAATGGCC-CGTTTCAC
** *
31085793 TAGAGGAGTTT-AATCTGTTA
63 TTCAGGAATTTAAAT-T-TTA
* ** *
31085813 GTGGCGTTTATGCTAAAAACGCCGCAATGATGTATTAATGTTTTTCAAAATGTCACCGTTTCACT
1 GTGGCGTTTTTGCGGAAAACGCCGCAAT-ATGTATTAATGTTTTTCAAAATGGC-CCGTTTCACT
*
31085878 TCAGGACTTTAAATTTTA
64 TCAGGAATTTAAATTTTA
* * *
31085896 GTGGCGTTTTTGCGGAAAACGCCGGAACTATGGATTAAAGTTTCTT-AAAATGGCGCCGTTTCTA
1 GTGGCGTTTTTGCGGAAAACGCCGCAA-TATGTATTAATGTTT-TTCAAAATGGC-CCGTTTC-A
* * *
31085960 -TTCAGTAAGTTAATTTTTA
62 CTTCAGGAATTTAAATTTTA
31085979 GTGGCGTTTTTGC
1 GTGGCGTTTTTGC
31085992 TAAAAATGCT
Statistics
Matches: 148, Mismatches: 23, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
83 94 0.64
84 48 0.32
85 6 0.04
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (81 bp):
GTGGCGTTTTTGCGGAAAACGCCGCAATATGTATTAATGTTTTTCAAAATGGCCCGTTTCACTTC
AGGAATTTAAATTTTA
Found at i:31087295 original size:28 final size:28
Alignment explanation
Indices: 31087262--31087489 Score: 95
Period size: 34 Copynumber: 7.4 Consensus size: 28
31087252 TCAATCATAT
*
31087262 CATAACTTATAT-ATAAACTTACATAATA
1 CATAACTTACATAAT-AACTTACATAATA
31087290 CATAACTTACATAATAACTTACATAACTTA
1 CATAACTTACATAATAACTTACATAA--TA
* * *
31087320 TATAAAAACTTATAT-ATAAACTTGCATAACTTA
1 CAT---AACTTACATAAT-AACTTACATAA--TA
*
31087353 CATAA-TAACATAATAACTTACATAATA
1 CATAACTTACATAATAACTTACATAATA
* * * *
31087380 TATAGCCTACATAAATTGCATAACTCACATAATA
1 CATAACTTACAT--A----ATAACTTACATAATA
* *
31087414 CACAACTTACGTAACTTAAACAACTTACATAATA
1 CATAACTTAC---A--T-AATAACTTACATAATA
*
31087448 CATAACTTACATTAAT-ATTATACATAACTTA
1 CATAACTTACA-TAATAACT-TACATAA--TA
31087479 CATAACTTACA
1 CATAACTTACA
31087490 ACTTACATAA
Statistics
Matches: 155, Mismatches: 22, Indels: 43
0.70 0.10 0.20
Matches are distributed among these distances:
27 5 0.03
28 28 0.18
29 25 0.16
30 11 0.07
31 14 0.09
32 2 0.01
33 24 0.15
34 42 0.27
37 1 0.01
38 2 0.01
39 1 0.01
ACGTcount: A:0.48, C:0.18, G:0.02, T:0.32
Consensus pattern (28 bp):
CATAACTTACATAATAACTTACATAATA
Found at i:31087302 original size:9 final size:9
Alignment explanation
Indices: 31087277--31087503 Score: 98
Period size: 9 Copynumber: 24.7 Consensus size: 9
31087267 CTTATATATA
31087277 AACTTACAT
1 AACTTACAT
31087286 AA--TACAT
1 AACTTACAT
31087293 AACTTACATAAT
1 AACTTAC---AT
31087305 AACTTACAT
1 AACTTACAT
*
31087314 AACTTATAT
1 AACTTACAT
*
31087323 AAAAACTTATATAT
1 ---AAC-T-TACAT
*
31087337 AAACTTGCAT
1 -AACTTACAT
31087347 AACTTACAT
1 AACTTACAT
*
31087356 AA-TAACATAAT
1 AACTTAC---AT
31087367 AACTTACAT
1 AACTTACAT
*
31087376 AA--TATAT
1 AACTTACAT
* *
31087383 AGCCTACAT
1 AACTTACAT
* *
31087392 AAATTGCAT
1 AACTTACAT
*
31087401 AACTCACAT
1 AACTTACAT
*
31087410 AA--TACAC
1 AACTTACAT
*
31087417 AACTTACGT
1 AACTTACAT
* *
31087426 AACTTAAAC
1 AACTTACAT
31087435 AACTTACAT
1 AACTTACAT
31087444 AA--TACAT
1 AACTTACAT
31087451 AACTTACATT
1 AACTTACA-T
*
31087461 AATATTATACAT
1 -A-ACT-TACAT
31087473 AACTTACAT
1 AACTTACAT
31087482 AACTTAC--
1 AACTTACAT
31087489 AACTTACAT
1 AACTTACAT
31087498 AACTTA
1 AACTTA
31087504 ATACATTATA
Statistics
Matches: 165, Mismatches: 27, Indels: 52
0.68 0.11 0.21
Matches are distributed among these distances:
7 31 0.19
8 3 0.02
9 86 0.52
10 6 0.04
11 7 0.04
12 22 0.13
13 5 0.03
14 5 0.03
ACGTcount: A:0.48, C:0.19, G:0.02, T:0.32
Consensus pattern (9 bp):
AACTTACAT
Found at i:31087312 original size:21 final size:21
Alignment explanation
Indices: 31087288--31087377 Score: 80
Period size: 21 Copynumber: 4.3 Consensus size: 21
31087278 ACTTACATAA
31087288 TACATAACTTACATAATAACT
1 TACATAACTTACATAATAACT
* *
31087309 TACATAACTTATATAAAAACTT
1 TACATAACTTACATAATAAC-T
* *
31087331 ATATATAAACTTGC---ATAACT
1 -TACAT-AACTTACATAATAACT
*
31087351 TACATAA-TAACATAATAACT
1 TACATAACTTACATAATAACT
31087371 TACATAA
1 TACATAA
31087378 TATATAGCCT
Statistics
Matches: 54, Mismatches: 9, Indels: 13
0.71 0.12 0.17
Matches are distributed among these distances:
17 2 0.04
18 2 0.04
19 4 0.07
20 14 0.26
21 22 0.41
22 1 0.02
23 4 0.07
24 5 0.09
ACGTcount: A:0.50, C:0.16, G:0.01, T:0.33
Consensus pattern (21 bp):
TACATAACTTACATAATAACT
Found at i:31087360 original size:12 final size:12
Alignment explanation
Indices: 31087291--31087379 Score: 56
Period size: 12 Copynumber: 8.2 Consensus size: 12
31087281 TACATAATAC
31087291 ATAACTTACATA
1 ATAACTTACATA
31087303 ATAACTTAC---
1 ATAACTTACATA
*
31087312 ATAACTTATATA
1 ATAACTTACATA
* *
31087324 AAAACTTATAT-
1 ATAACTTACATA
*
31087335 ATAAACTTGC---
1 AT-AACTTACATA
31087345 ATAACTTACATA
1 ATAACTTACATA
31087357 AT-A---ACATA
1 ATAACTTACATA
31087365 ATAACTTACATA
1 ATAACTTACATA
31087377 ATA
1 ATA
31087380 TATAGCCTAC
Statistics
Matches: 60, Mismatches: 6, Indels: 22
0.68 0.07 0.25
Matches are distributed among these distances:
8 7 0.12
9 15 0.25
10 2 0.03
11 2 0.03
12 34 0.57
ACGTcount: A:0.51, C:0.15, G:0.01, T:0.34
Consensus pattern (12 bp):
ATAACTTACATA
Found at i:31087494 original size:16 final size:16
Alignment explanation
Indices: 31087473--31087503 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
31087463 TATTATACAT
31087473 AACTTACATAACTTAC
1 AACTTACATAACTTAC
31087489 AACTTACATAACTTA
1 AACTTACATAACTTA
31087504 ATACATTATA
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:0.45, C:0.23, G:0.00, T:0.32
Consensus pattern (16 bp):
AACTTACATAACTTAC
Found at i:31087904 original size:19 final size:18
Alignment explanation
Indices: 31087880--31087933 Score: 65
Period size: 19 Copynumber: 2.9 Consensus size: 18
31087870 TAATGTTTAC
*
31087880 TATATTATTATTTTAATAT
1 TATATTATTA-TTTAATAA
31087899 TATATTA-TATTTAATAA
1 TATATTATTATTTAATAA
*
31087916 TACTTTTATTATTTAATA
1 TA-TATTATTATTTAATA
31087934 CATTAGCAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
17 9 0.29
18 6 0.19
19 16 0.52
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TATATTATTATTTAATAA
Found at i:31089338 original size:9 final size:9
Alignment explanation
Indices: 31089324--31089348 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
31089314 TTTATTTTAA
31089324 TTTTTAATT
1 TTTTTAATT
31089333 TTTTTAATT
1 TTTTTAATT
31089342 TTTTTAA
1 TTTTTAA
31089349 AAGTTAAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (9 bp):
TTTTTAATT
Found at i:31089445 original size:43 final size:41
Alignment explanation
Indices: 31089396--31089682 Score: 286
Period size: 43 Copynumber: 6.7 Consensus size: 41
31089386 ACGGTATTTT
* * *
31089396 TAGCGGCGTTTGTAATCAAAGCGTCGCTAAAGGTCTTGAGCTA
1 TAGCGGCGTTTGTGA--AAAGCGCCGCTAAAGGTCATGAGCTA
* * * *
31089439 TAGCGGCATTTGTGGAAAAAGCGCCGCTAAAAGCCATGATCTA
1 TAGCGGCGTTTGT-G-AAAAGCGCCGCTAAAGGTCATGAGCTA
* * * *
31089482 TAGCGGCGTCTGTGGGAAAAACGCCGCTAAAAGTCTTGAGCTA
1 TAGCGGCGT-T-TGTGAAAAGCGCCGCTAAAGGTCATGAGCTA
* * * *
31089525 TAGCGACGTTTTGGGAAAAGCGTCGCTAAAGGTCATGATCTA
1 TAGCGGCG-TTTGTGAAAAGCGCCGCTAAAGGTCATGAGCTA
* *
31089567 TAGCGGCGTTTGTGAGAAAAGCACCGCTAAAGGTCCTGAGCTA
1 TAGCGGCGTTTGT--GAAAAGCGCCGCTAAAGGTCATGAGCTA
* * *
31089610 TAGCGGCGTTTGTGTAAAGGCGCCGCTAAAGGTCCTGATCTA
1 TAGCGGCGTTTGTG-AAAAGCGCCGCTAAAGGTCATGAGCTA
*
31089652 TAGCGGCGTTTGTGTAAAAGTGCCGCTAAAG
1 TAGCGGCGTTTGTG-AAAAGCGCCGCTAAAG
31089683 TTAGCGACGC
Statistics
Matches: 206, Mismatches: 30, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
41 5 0.02
42 86 0.42
43 109 0.53
44 3 0.01
45 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (41 bp):
TAGCGGCGTTTGTGAAAAGCGCCGCTAAAGGTCATGAGCTA
Found at i:31089586 original size:85 final size:85
Alignment explanation
Indices: 31089396--31089682 Score: 353
Period size: 85 Copynumber: 3.4 Consensus size: 85
31089386 ACGGTATTTT
* ** * *
31089396 TAGCGGCGTTTGTAATCAAAGCGTCGCTAAAGGTCTTGAGCTATAGCGGCATTTGTGGAAAAAGC
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTT-TGGAAAAAGC
* *
31089461 GCCGCTAAAAGCCATGATCTA
65 GCCGCTAAAGGTCATGATCTA
* * * * * *
31089482 TAGCGGCGTCTGTGGGAAAAACGCCGCTAAAAGTCTTGAGCTATAGCGACGTTTTGGGAAAAGCG
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTTTGGAAAAAGCG
*
31089547 TCGCTAAAGGTCATGATCTA
66 CCGCTAAAGGTCATGATCTA
* * * *
31089567 TAGCGGCGTTTGTGAGAAAAGCACCGCTAAAGGTCCTGAGCTATAGCGGCG-TTTGTGTAAAGGC
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTTTG-GAAAAAGC
*
31089631 GCCGCTAAAGGTCCTGATCTA
65 GCCGCTAAAGGTCATGATCTA
* *
31089652 TAGCGGCGTTTGTG-TAAAAGTGCCGCTAAAG
1 TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAG
31089683 TTAGCGACGC
Statistics
Matches: 172, Mismatches: 28, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
84 18 0.10
85 110 0.64
86 44 0.26
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (85 bp):
TAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCTTGAGCTATAGCGGCGTTTTGGAAAAAGCG
CCGCTAAAGGTCATGATCTA
Found at i:31091228 original size:23 final size:22
Alignment explanation
Indices: 31091202--31091265 Score: 76
Period size: 23 Copynumber: 2.9 Consensus size: 22
31091192 TAGAACTATC
*
31091202 ACCCTCGAAGCACAACCAAATAT
1 ACCCTC-AAACACAACCAAATAT
*
31091225 ACCCTTCAAACACTACC-AATAT
1 ACCC-TCAAACACAACCAAATAT
*
31091247 ACCCCCAAACACAACCAAA
1 ACCCTCAAACACAACCAAA
31091266 AAGTGGTGAG
Statistics
Matches: 35, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
21 10 0.29
22 11 0.31
23 12 0.34
24 2 0.06
ACGTcount: A:0.45, C:0.39, G:0.03, T:0.12
Consensus pattern (22 bp):
ACCCTCAAACACAACCAAATAT
Found at i:31091248 original size:22 final size:21
Alignment explanation
Indices: 31091212--31091264 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 21
31091202 ACCCTCGAAG
*
31091212 CACAACCAAATATACCCTTCAAA
1 CACAACC-AATATACCC-CCAAA
*
31091235 CACTACCAATATACCCCCAAA
1 CACAACCAATATACCCCCAAA
31091256 CACAACCAA
1 CACAACCAA
31091265 AAAGTGGTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
21 12 0.44
22 9 0.33
23 6 0.22
ACGTcount: A:0.47, C:0.40, G:0.00, T:0.13
Consensus pattern (21 bp):
CACAACCAATATACCCCCAAA
Found at i:31093357 original size:16 final size:16
Alignment explanation
Indices: 31093336--31093369 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
31093326 ACCGAAATAA
31093336 ATAATATATATTATAT
1 ATAATATATATTATAT
*
31093352 ATAATATATATTTTAT
1 ATAATATATATTATAT
31093368 AT
1 AT
31093370 TAGAAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (16 bp):
ATAATATATATTATAT
Found at i:31104813 original size:27 final size:26
Alignment explanation
Indices: 31104762--31104817 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 26
31104752 ATTTAAAAAT
**
31104762 AAAAATTAGATTTTCTAAATGTTATA
1 AAAAATTAGATTTTCTAAAAATTATA
31104788 AAAAATTAGAATTTT-TAAAAAATTATA
1 AAAAATTAG-ATTTTCT-AAAAATTATA
31104815 AAA
1 AAA
31104818 TTTATTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
26 10 0.38
27 16 0.62
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (26 bp):
AAAAATTAGATTTTCTAAAAATTATA
Found at i:31104817 original size:26 final size:25
Alignment explanation
Indices: 31104760--31104817 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 25
31104750 TTATTTAAAA
**
31104760 ATAAAAATTAGATTTTCTAAATGTT
1 ATAAAAATTAGATTTTCTAAAAATT
31104785 ATAAAAAATTAGAATTTT-TAAAAAATT
1 AT-AAAAATTAG-ATTTTCT-AAAAATT
31104812 ATAAAA
1 ATAAAA
31104818 TTTATTAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
25 2 0.07
26 14 0.50
27 12 0.43
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (25 bp):
ATAAAAATTAGATTTTCTAAAAATT
Found at i:31104835 original size:21 final size:19
Alignment explanation
Indices: 31104787--31104840 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 19
31104777 TAAATGTTAT
*
31104787 AAAAAAT-TAGAATTTTTA
1 AAAAAATATAAAATTTTTA
*
31104805 AAAAATTATAAAATTTATTA
1 AAAAAATATAAAATTT-TTA
31104825 AAAATAATATAAAATT
1 AAAA-AATATAAAATT
31104841 ACAAAAATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
18 6 0.20
19 7 0.23
20 7 0.23
21 10 0.33
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (19 bp):
AAAAAATATAAAATTTTTA
Found at i:31104838 original size:29 final size:29
Alignment explanation
Indices: 31104806--31104871 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
31104796 GAATTTTTAA
*
31104806 AAAATTATAAAATTTATT-AAAAATAATAT
1 AAAATTATAAAA-ATATTAAAAAATAATAT
* *
31104835 AAAATTACAAAAATATTAAAAAATTATAT
1 AAAATTATAAAAATATTAAAAAATAATAT
31104864 AAAATTAT
1 AAAATTAT
31104872 GGAAAGGAGT
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
28 4 0.12
29 28 0.88
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (29 bp):
AAAATTATAAAAATATTAAAAAATAATAT
Found at i:31104846 original size:19 final size:19
Alignment explanation
Indices: 31104824--31104860 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
31104814 AAAATTTATT
*
31104824 AAAAATAATATAAAATTAC
1 AAAAATAATAAAAAATTAC
*
31104843 AAAAATATTAAAAAATTA
1 AAAAATAATAAAAAATTA
31104861 TATAAAATTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (19 bp):
AAAAATAATAAAAAATTAC
Found at i:31104869 original size:10 final size:10
Alignment explanation
Indices: 31104806--31104871 Score: 50
Period size: 10 Copynumber: 6.8 Consensus size: 10
31104796 GAATTTTTAA
31104806 AAAATTATA-
1 AAAATTATAT
*
31104815 AAATTTAT-T
1 AAAATTATAT
*
31104824 AAAAATAATAT
1 -AAAATTATAT
*
31104835 AAAATTACA-
1 AAAATTATAT
*
31104844 AAAA-TATTAA
1 AAAATTA-TAT
31104854 AAAATTATAT
1 AAAATTATAT
31104864 AAAATTAT
1 AAAATTAT
31104872 GGAAAGGAGT
Statistics
Matches: 44, Mismatches: 7, Indels: 11
0.71 0.11 0.18
Matches are distributed among these distances:
8 2 0.05
9 12 0.27
10 27 0.61
11 3 0.07
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.35
Consensus pattern (10 bp):
AAAATTATAT
Found at i:31110960 original size:6 final size:6
Alignment explanation
Indices: 31110951--31110979 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
31110941 AAATAAAATT
31110951 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
31110980 GTCTAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:31111079 original size:9 final size:9
Alignment explanation
Indices: 31111062--31111128 Score: 107
Period size: 9 Copynumber: 7.4 Consensus size: 9
31111052 GTAGTGATTC
31111062 AATTCGGTT
1 AATTCGGTT
*
31111071 AACTCGGTT
1 AATTCGGTT
*
31111080 AATTCGGGT
1 AATTCGGTT
31111089 AATTCGGTT
1 AATTCGGTT
*
31111098 AATTCGGGT
1 AATTCGGTT
31111107 AATTCGGTT
1 AATTCGGTT
31111116 AATTCGGTT
1 AATTCGGTT
31111125 AATT
1 AATT
31111129 TTTTAACCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 52 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (9 bp):
AATTCGGTT
Found at i:31113829 original size:31 final size:31
Alignment explanation
Indices: 31113772--31113830 Score: 75
Period size: 30 Copynumber: 1.9 Consensus size: 31
31113762 TAGTCTTAAA
** *
31113772 ATATTTACACTATTGGTCCTTCAATTTTTTC
1 ATATTTACACTATTAATCCCTCAATTTTTTC
*
31113803 ATATTTACACT-TTAATCCCTCAAATTTT
1 ATATTTACACTATTAATCCCTCAATTTTT
31113831 GAGTATTTAC
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 13 0.54
31 11 0.46
ACGTcount: A:0.27, C:0.20, G:0.03, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAATCCCTCAATTTTTTC
Found at i:31113984 original size:46 final size:46
Alignment explanation
Indices: 31113931--31114023 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
31113921 GCCATAACTC
31113931 AAAATTTCTCTTTCTGTCACTTTATTTCCTTATTTTACTATCAATG
1 AAAATTTCTCTTTCTGTCACTTTATTTCCTTATTTTACTATCAATG
*
31113977 AAAATTTCTCTTTCTGTCACTTTATTTTCTTATTTTACTATCAATG
1 AAAATTTCTCTTTCTGTCACTTTATTTCCTTATTTTACTATCAATG
31114023 A
1 A
31114024 TACCTACTTT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.25, C:0.18, G:0.04, T:0.53
Consensus pattern (46 bp):
AAAATTTCTCTTTCTGTCACTTTATTTCCTTATTTTACTATCAATG
Found at i:31114066 original size:23 final size:23
Alignment explanation
Indices: 31114035--31114085 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
31114025 ACCTACTTTC
*
31114035 TTACTGTAGTAATTTTCAGGATA
1 TTACAGTAGTAATTTTCAGGATA
**
31114058 TTACAGTAGTAATTTTTGGGATA
1 TTACAGTAGTAATTTTCAGGATA
31114081 TTACA
1 TTACA
31114086 CATCTTTTGC
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCAGGATA
Found at i:31131542 original size:51 final size:51
Alignment explanation
Indices: 31131466--31131572 Score: 173
Period size: 51 Copynumber: 2.1 Consensus size: 51
31131456 ATGTCTCAGG
*
31131466 CCGTGTAACATTCGAAATGCAACCTTTAAAAAGCTATAGGGGACACACAGT
1 CCGTGTAACATTCGAAATGCAACCTTTAAAAACCTATAGGGGACACACAGT
*
31131517 CCGTGTAAC-TCTCGAAATGCAACCTTTAAAAACCTATAGGGGATACACAGT
1 CCGTGTAACAT-TCGAAATGCAACCTTTAAAAACCTATAGGGGACACACAGT
31131568 -CGTGT
1 CCGTGT
31131573 CGCGTGGTCG
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
50 6 0.11
51 47 0.89
ACGTcount: A:0.35, C:0.22, G:0.20, T:0.23
Consensus pattern (51 bp):
CCGTGTAACATTCGAAATGCAACCTTTAAAAACCTATAGGGGACACACAGT
Found at i:31134218 original size:25 final size:25
Alignment explanation
Indices: 31134190--31134251 Score: 88
Period size: 25 Copynumber: 2.4 Consensus size: 25
31134180 CTTATAACTC
**
31134190 ACCTAAATTTTTTATTTATGCTTTT
1 ACCTAAATTTCCTATTTATGCTTTT
*
31134215 ACCTGAATTTCCTATTTATGCTTTT
1 ACCTAAATTTCCTATTTATGCTTTT
31134240 ACCTAAACTTTC
1 ACCTAAA-TTTC
31134252 ATGGAACATA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 28 0.88
26 4 0.12
ACGTcount: A:0.24, C:0.19, G:0.05, T:0.52
Consensus pattern (25 bp):
ACCTAAATTTCCTATTTATGCTTTT
Found at i:31134456 original size:50 final size:50
Alignment explanation
Indices: 31134332--31134623 Score: 268
Period size: 50 Copynumber: 5.7 Consensus size: 50
31134322 GATAATTACA
* * * **
31134332 TGCCAAAGCCATGTCCCAGACATGGTCTTACATAGGATGTTACTTGTAT---
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CTT-CTCATATCGG
* * * *
31134381 TGCCAATGTCATATCCCAGATATGGTCTTACATGGGATTTCTCATATCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
* ** * *
31134431 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
** * *
31134481 TGCCAACCCCATGTCCCAGACATGGTCTTACATGTGACCTT-TCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA-CTTCTCATATCGG
* * *
31134531 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAGTCTCAATGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATA---TC---GG
* *
31134587 TGCCAATGCCATCTCCCAAACATGGTCTTACATGGGA
1 TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
31134624 TCTCTTTACC
Statistics
Matches: 200, Mismatches: 32, Indels: 15
0.81 0.13 0.06
Matches are distributed among these distances:
47 5 0.03
48 2 0.01
49 34 0.17
50 120 0.60
51 2 0.01
53 2 0.01
56 35 0.17
ACGTcount: A:0.23, C:0.29, G:0.21, T:0.28
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACTTCTCATATCGG
Found at i:31135999 original size:31 final size:33
Alignment explanation
Indices: 31135961--31136036 Score: 93
Period size: 31 Copynumber: 2.4 Consensus size: 33
31135951 GCCAATCCCT
* * *
31135961 CCAACACACCAATACTCATAAGAG-T-TACCAA
1 CCAACACACCAATACTCACAAGAGCTAAAACAA
* *
31135992 CCAACACATCAATGCTCACAAGAGCTAAAACAA
1 CCAACACACCAATACTCACAAGAGCTAAAACAA
31136025 CCAACACACCAA
1 CCAACACACCAA
31136037 ACAGAGAGTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
31 21 0.57
32 1 0.03
33 15 0.41
ACGTcount: A:0.47, C:0.34, G:0.07, T:0.12
Consensus pattern (33 bp):
CCAACACACCAATACTCACAAGAGCTAAAACAA
Found at i:31140095 original size:44 final size:42
Alignment explanation
Indices: 31139992--31140122 Score: 102
Period size: 43 Copynumber: 3.0 Consensus size: 42
31139982 AACTCGTAAA
* ** *
31139992 ATGCCTACGTCCCAAATGAGGTCTTACGTGTAATCAAATATCG
1 ATGCC-ACGTCCCAGACAAGGTCTTACATGTAATCAAATATCG
* *
31140035 ATACCACTGTCCCAGACAAGGTCTTACATGTAAATCTCAAT-TCG
1 ATGCCAC-GTCCCAGACAAGGTCTTACATGT-AATC-AAATATCG
** * * * *
31140079 ATGCCGACGTCCCAGACGTGGTGTTACACGAAATCACATATCG
1 ATGCC-ACGTCCCAGACAAGGTCTTACATGTAATCAAATATCG
31140122 A
1 A
31140123 AATCCTATGT
Statistics
Matches: 69, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
42 4 0.06
43 31 0.45
44 29 0.42
45 5 0.07
ACGTcount: A:0.31, C:0.26, G:0.18, T:0.25
Consensus pattern (42 bp):
ATGCCACGTCCCAGACAAGGTCTTACATGTAATCAAATATCG
Found at i:31141399 original size:33 final size:33
Alignment explanation
Indices: 31141338--31141400 Score: 81
Period size: 33 Copynumber: 1.9 Consensus size: 33
31141328 TACTCTAAAG
* * **
31141338 AAGATGGTTGAAGAGCATCAGGCCACTATGAGC
1 AAGATGGGTGAAGAGAAAAAGGCCACTATGAGC
*
31141371 AAGATGGGTGAAGAGAAAAAGGCTACTATG
1 AAGATGGGTGAAGAGAAAAAGGCCACTATG
31141401 GTGAGCTCGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 25 1.00
ACGTcount: A:0.38, C:0.13, G:0.32, T:0.17
Consensus pattern (33 bp):
AAGATGGGTGAAGAGAAAAAGGCCACTATGAGC
Found at i:31141856 original size:15 final size:16
Alignment explanation
Indices: 31141833--31141863 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
31141823 GTATGGAATG
*
31141833 AAAATTTTTAGTTGAA
1 AAAATTTTAAGTTGAA
31141849 AAAATTTTAAGTTGA
1 AAAATTTTAAGTTGA
31141864 TTTACTAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.13, T:0.42
Consensus pattern (16 bp):
AAAATTTTAAGTTGAA
Found at i:31142448 original size:104 final size:104
Alignment explanation
Indices: 31142263--31142453 Score: 283
Period size: 104 Copynumber: 1.8 Consensus size: 104
31142253 GCTGTTCAGG
* * **
31142263 AGTAGCGAGCTTAACTCAACTTACTCAAATAAATAAAGGTTGTGAGTATAACTCATCTAACCTTA
1 AGTAGCGAGCTTAACTCAACCTACTCAAATAAATAAAGGGTAAGAGTATAACTCATCTAACCTTA
* * *
31142328 AAACATCAGTTGAGAGCGTAGGTCCACGAACTGTTTCAA
66 AAACATCAGCTAAGAGCATAGGTCCACGAACTGTTTCAA
* * * *
31142367 AGTAGCGAGCTTCACTCAACCTACTCACATAAATGAAGGGTAAGAGTATAACTCATCTAACCTTT
1 AGTAGCGAGCTTAACTCAACCTACTCAAATAAATAAAGGGTAAGAGTATAACTCATCTAACCTTA
31142432 AAACATCAGCTAAGAGCATAGG
66 AAACATCAGCTAAGAGCATAGG
31142454 ATCGCGAGCT
Statistics
Matches: 76, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
104 76 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (104 bp):
AGTAGCGAGCTTAACTCAACCTACTCAAATAAATAAAGGGTAAGAGTATAACTCATCTAACCTTA
AAACATCAGCTAAGAGCATAGGTCCACGAACTGTTTCAA
Found at i:31144700 original size:17 final size:17
Alignment explanation
Indices: 31144678--31144720 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
31144668 AGGTCTCCGA
31144678 CGAGCTTCCAACCAAAT
1 CGAGCTTCCAACCAAAT
31144695 CGAGCTTCCAACCAAAT
1 CGAGCTTCCAACCAAAT
*
31144712 CAAGCTTCC
1 CGAGCTTCC
31144721 GATGATCTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.33, C:0.37, G:0.12, T:0.19
Consensus pattern (17 bp):
CGAGCTTCCAACCAAAT
Found at i:31149146 original size:23 final size:23
Alignment explanation
Indices: 31149102--31149146 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
31149092 AGGTATTCAA
*
31149102 ATACCATTCAAACTTGCATAAAC
1 ATACCATTCAAACATGCATAAAC
*
31149125 ATACCATTCCAACCATGC-TAAA
1 ATACCATT-CAAACATGCATAAA
31149147 TCACCTAACC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 12 0.63
24 7 0.37
ACGTcount: A:0.42, C:0.29, G:0.04, T:0.24
Consensus pattern (23 bp):
ATACCATTCAAACATGCATAAAC
Found at i:31158276 original size:251 final size:251
Alignment explanation
Indices: 31157833--31158342 Score: 966
Period size: 251 Copynumber: 2.0 Consensus size: 251
31157823 TGATGTAAGA
31157833 TAGAAAAGTGATAACTTATGTGTCTCGTTAGCTAAAGAGCATTAACGTAATTATCTGATGCACAA
1 TAGAAAAGTGATAACTTATGTGTCTCGTTAGCTAAAGAGCATTAACGTAATTATCTGATGCACAA
* * *
31157898 TTTAGAGCTAGCTATTGTAGTTTTTGCTGTAAAGATCTGGAGACACTACCTGTACAACAAAAAGT
66 TTTAGAGCTAGCTATTGTAGTTTTTGCTATAAAGATCTAGAGACACTACCTGTACAACAAAAAAT
31157963 GTCATATCTATATCGATCATAAGAGTCTCAAATAACTCCCATCTCAAAAGGAGTTGAATTTGAGA
131 GTCATATCTATATCGATCATAAGAGTCTCAAATAACTCCCATCTCAAAAGGAGTTGAATTTGAGA
31158028 CAGCATCGTTGGGTGGAGCTTCTGAAAGATTTTGATTGAATTATTGATTACCACCC
196 CAGCATCGTTGGGTGGAGCTTCTGAAAGATTTTGATTGAATTATTGATTACCACCC
31158084 TAGAAAAGTGATAACTTATGTGTCTCGTTAGCTAAAGAGCATTAACGTAATTATCTGATGCACAA
1 TAGAAAAGTGATAACTTATGTGTCTCGTTAGCTAAAGAGCATTAACGTAATTATCTGATGCACAA
*
31158149 TTTAGAGCTAGCTGTTGTAGTTTTTGCTATAAAGATCTAGAGACACTACCTGTACAACAAAAAAT
66 TTTAGAGCTAGCTATTGTAGTTTTTGCTATAAAGATCTAGAGACACTACCTGTACAACAAAAAAT
31158214 GTCATATCTATATCGATCATAAGAGTCTCAAATAACTCCCATCTCAAAAGGAGTTGAATTTGAGA
131 GTCATATCTATATCGATCATAAGAGTCTCAAATAACTCCCATCTCAAAAGGAGTTGAATTTGAGA
*
31158279 CAGCATCGTTGGGTGGAGCTTTTGAAAGATTTTGATTGAATTATTGATTACCACCC
196 CAGCATCGTTGGGTGGAGCTTCTGAAAGATTTTGATTGAATTATTGATTACCACCC
*
31158335 TAGTAAAG
1 TAGAAAAG
31158343 CTAACGTTGT
Statistics
Matches: 253, Mismatches: 6, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
251 253 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.32
Consensus pattern (251 bp):
TAGAAAAGTGATAACTTATGTGTCTCGTTAGCTAAAGAGCATTAACGTAATTATCTGATGCACAA
TTTAGAGCTAGCTATTGTAGTTTTTGCTATAAAGATCTAGAGACACTACCTGTACAACAAAAAAT
GTCATATCTATATCGATCATAAGAGTCTCAAATAACTCCCATCTCAAAAGGAGTTGAATTTGAGA
CAGCATCGTTGGGTGGAGCTTCTGAAAGATTTTGATTGAATTATTGATTACCACCC
Found at i:31165536 original size:364 final size:365
Alignment explanation
Indices: 31164852--31165557 Score: 1155
Period size: 364 Copynumber: 1.9 Consensus size: 365
31164842 TGGGAACCTC
* * *
31164852 CAGCCCAAATGACCTAATAGGATCCGGATCTTCGACCCAGCTCTGACACGGAAAAAGAATGCTCA
1 CAGCCCAAATGACCGAATAGGATCCAGATCTTCGACCCAGATCTGACACGGAAAAAGAATGCTCA
** *
31164917 CCTACAGTTATAATTCGTTGGGGACCCCGCTGGAATGCCAAATGTTCGCAAAGATAGCTCACACA
66 CCTACAGGCATAATTCGTTGGGGACCCCGCTGGAATGCCAAATGTCCGCAAAGATAGCTCACACA
* * *
31164982 GAAAGCTTGTAAGGAGAGCTCGTGTAAGCCTCATAGGAATGAGGTTCCAAGTTATGTTCGCAGAA
131 AAAAGCTTGTAAGGAAAGCTCGTGTAAGCCTCATAGGAATGAGGTTCCAAGTTATGTCCGCAGAA
*
31165047 GGGATCACGAGCACTACAAGGGATCCCCACTCGTGACTAGCAAGCATTAAGCTCGCTGGAGGAGT
196 GGGATCACGAGCACTACAAGGGATCCCCACTCGTGACTAGCAAGCATGAAGCTCGCTGGAGGAGT
** * *
31165112 CAATCCCTAGATCAGAAAGGGTCGTGTACTCCGTAGACACGCATCCAATAAGCCAAGGGATGCTT
261 CAATCCCTAGATCAGAAAGGACCGCGTACTCCGTAGACACACATCCAATAAGCCAAGGGATGCTT
31165177 AGGGAATGTCAGCACCAGGGACAAGGAATGTCAGTACCAT
326 AGGGAATGTCAGCACCAGGGACAAGGAATGTCAGTACCAT
* *
31165217 CAGCCCCAA-GACCGAATAGGATCCAGATCTTCGACCCAGATCTGACTCGGAAAAAGAATGCTCA
1 CAGCCCAAATGACCGAATAGGATCCAGATCTTCGACCCAGATCTGACACGGAAAAAGAATGCTCA
* *
31165281 CCTACAGGCA-AAGTTTGTTGGGGACCCCGCTGGAATGCCAAATGTCCGCAAAGATAGCTCGCAC
66 CCTACAGGCATAA-TTCGTTGGGGACCCCGCTGGAATGCCAAATGTCCGCAAAGATAGCTCACAC
* * *
31165345 AAAAATCTTGTAAGGAAAGCTCGTGTAAGCCTCGTAGGAATGAGGTTTCAAGTTATGTCCGCAGA
130 AAAAAGCTTGTAAGGAAAGCTCGTGTAAGCCTCATAGGAATGAGGTTCCAAGTTATGTCCGCAGA
31165410 AGGGATCACGAGCACTACAAGGGATCCCCACTCGTGACTAGCAAGCATGAAGCTCGCTGGAGGAG
195 AGGGATCACGAGCACTACAAGGGATCCCCACTCGTGACTAGCAAGCATGAAGCTCGCTGGAGGAG
* * * *
31165475 TTAATCCTTGGATCAGAAAGGACCGCGTCCTCCGTAGACACACATCCAATAAGCCAAGGGATGCT
260 TCAATCCCTAGATCAGAAAGGACCGCGTACTCCGTAGACACACATCCAATAAGCCAAGGGATGCT
*
31165540 TAGGGAATGTCAGTACCA
325 TAGGGAATGTCAGCACCA
31165558 TCAGCCCCAA
Statistics
Matches: 314, Mismatches: 26, Indels: 3
0.92 0.08 0.01
Matches are distributed among these distances:
363 2 0.01
364 304 0.97
365 8 0.03
ACGTcount: A:0.31, C:0.25, G:0.25, T:0.19
Consensus pattern (365 bp):
CAGCCCAAATGACCGAATAGGATCCAGATCTTCGACCCAGATCTGACACGGAAAAAGAATGCTCA
CCTACAGGCATAATTCGTTGGGGACCCCGCTGGAATGCCAAATGTCCGCAAAGATAGCTCACACA
AAAAGCTTGTAAGGAAAGCTCGTGTAAGCCTCATAGGAATGAGGTTCCAAGTTATGTCCGCAGAA
GGGATCACGAGCACTACAAGGGATCCCCACTCGTGACTAGCAAGCATGAAGCTCGCTGGAGGAGT
CAATCCCTAGATCAGAAAGGACCGCGTACTCCGTAGACACACATCCAATAAGCCAAGGGATGCTT
AGGGAATGTCAGCACCAGGGACAAGGAATGTCAGTACCAT
Found at i:31171487 original size:69 final size:69
Alignment explanation
Indices: 31171407--31171837 Score: 305
Period size: 69 Copynumber: 6.3 Consensus size: 69
31171397 GCAAAGTTGG
* * * * *
31171407 GACCTCCAAAACAGTTAGTGAGACCAAAGCTCCCAGCTATAAAATTAAGGTTCGCAAGCGAAGAG
1 GACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCTATAAAATCAAGGCTCGCAGGCGAAGAG
31171472 CCGT
66 CCGT
* * * *
31171476 GACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCTGTAAAATCAGGGCTCGCGGGCAAAGAG
1 GACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCTATAAAATCAAGGCTCGCAGGCGAAGAG
*
31171541 TC-T
66 CCGT
* * * * * * * *
31171544 CGACCTCCAAAATAGTTAGCAAAAACAAAGCTCCTAGCTGTAAAATCAAGGCTCACAGGTGAAGA
1 -GACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCTATAAAATCAAGGCTCGCAGGCGAAGA
* *
31171609 GCTGC
65 GCCGT
* * * * * *
31171614 AACCTCGAAAACAATTAGCGAGAGCAAAGCTCCCAGCTATAAAACCAAGGTTCGCAGGTGAA-AG
1 GACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCTATAAAATCAAGGCTCGCAGGCGAAGAG
*
31171678 TCGT
66 CCGT
* * * * * * * * ** *
31171682 GAACTCCAAAGCAATTAGC-AGGAGCAAAACTCTCAACT-TCAAAATCAGGGCTCACAAACAAAG
1 GACCTCCAAAACAGTTAGCGA-GAGCAAAGCTCCCAGCTAT-AAAATCAAGGCTCGCAGGCGAAG
* *
31171745 GGTCG-
64 AGCCGT
* * * * * * * * * * * *
31171750 CAGCTTCCAAAACAATTAGCAAGAGCAAAACTCCTAGCTGTAAAATCAAAGCTCGTAGACAAAAA
1 GA-CCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCTATAAAATCAAGGCTCGCAGGCGAAGA
31171815 GCCGT
65 GCCGT
* *
31171820 AACCTCCAAAATAGTTAG
1 GACCTCCAAAACAGTTAG
31171838 TGATGTAAAA
Statistics
Matches: 280, Mismatches: 73, Indels: 18
0.75 0.20 0.05
Matches are distributed among these distances:
67 2 0.01
68 48 0.17
69 227 0.81
70 3 0.01
ACGTcount: A:0.39, C:0.25, G:0.20, T:0.16
Consensus pattern (69 bp):
GACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCTATAAAATCAAGGCTCGCAGGCGAAGAG
CCGT
Found at i:31171657 original size:138 final size:138
Alignment explanation
Indices: 31171407--31171797 Score: 347
Period size: 138 Copynumber: 2.8 Consensus size: 138
31171397 GCAAAGTTGG
** * * * * *
31171407 GACCTCCAAAACAGTTAGTGAGACCAAAGCTCCCAGCTATAAAATTAAGGTTCGCAAGCGAAGAG
1 GACCTCCAAAACAGTTAGCAAAAACAAAGCTCCCAGCTATAAAATCAAGGCTCACAAGCGAAGAG
** * *
31171472 CCGTGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCTGTAAAATCAGGGCTCGCGGGCAA
66 CCGCAACCTCCAAAACAATTAGCGAGAGCAAAGCTCCCAGCTATAAAATCAGGGCTCGCGGGCAA
31171537 AGAGTCTC
131 AGAGTCTC
* * * * *
31171545 GACCTCCAAAATAGTTAGCAAAAACAAAGCTCCTAGCTGTAAAATCAAGGCTCACAGGTGAAGAG
1 GACCTCCAAAACAGTTAGCAAAAACAAAGCTCCCAGCTATAAAATCAAGGCTCACAAGCGAAGAG
* * * * * * **
31171610 CTGCAACCTCGAAAACAATTAGCGAGAGCAAAGCTCCCAGCTATAAAACCAAGGTTCGCAGGTGA
66 CCGCAACCTCCAAAACAATTAGCGAGAGCAAAGCTCCCAGCTATAAAATCAGGGCTCGCGGGCAA
31171675 A-AGTCGT-
131 AGAGTC-TC
* * * ** * * * * * * * *
31171682 GAACTCCAAAGCAATTAGCAGGAGCAAAACTCTCAACT-TCAAAATCAGGGCTCACAAACAAAGG
1 GACCTCCAAAACAGTTAGCAAAAACAAAGCTCCCAGCTAT-AAAATCAAGGCTCACAAGCGAAGA
* * * * * * *
31171746 GTCGCAGCTTCCAAAACAATTAGCAAGAGCAAAACTCCTAGCTGTAAAATCA
65 GCCGCAACCTCCAAAACAATTAGCGAGAGCAAAGCTCCCAGCTATAAAATCA
31171798 AAGCTCGTAG
Statistics
Matches: 200, Mismatches: 51, Indels: 5
0.78 0.20 0.02
Matches are distributed among these distances:
136 1 0.00
137 91 0.46
138 108 0.54
ACGTcount: A:0.38, C:0.25, G:0.21, T:0.16
Consensus pattern (138 bp):
GACCTCCAAAACAGTTAGCAAAAACAAAGCTCCCAGCTATAAAATCAAGGCTCACAAGCGAAGAG
CCGCAACCTCCAAAACAATTAGCGAGAGCAAAGCTCCCAGCTATAAAATCAGGGCTCGCGGGCAA
AGAGTCTC
Found at i:31171786 original size:206 final size:207
Alignment explanation
Indices: 31171408--31171803 Score: 485
Period size: 206 Copynumber: 1.9 Consensus size: 207
31171398 CAAAGTTGGG
* * **
31171408 ACCTCCAAAACAGTTAGTGAGACCAAAGCTCCCAGCTATAAAATTAAGGTTCGCAAGCGAAGAGC
1 ACCTCCAAAACAATTAGCGAGACCAAAGCTCCCAGCTATAAAACCAAGGTTCGCAAGCGAAGAGC
* * * * * ***
31171473 CGTGACCTCCAAAACAGTTAGCGAGAGCAAAGCTCCCAGCTGTAAAATCAGGGCTCGCGGGCAAA
66 CGTGAACTCCAAAACAATTAGCGAGAGCAAAACTCCCAACTGTAAAATCAGGGCTCACAAACAAA
* * * * *
31171538 GAGTCTCGACCTCCAAAATAGTTAGCAAAAACAAAGCTCCTAGCTGTAAAATCAAGGCTCACAGG
131 GAGTCGCGACCTCCAAAACAATTAGCAAAAACAAAACTCCTAGCTGTAAAATCAAAGCTCACAGG
31171603 TGAAGAGCTGCA
196 TGAAGAGCTGCA
* * * * *
31171615 ACCTCGAAAACAATTAGCGAGAGCAAAGCTCCCAGCTATAAAACCAAGGTTCGCAGGTGAA-AGT
1 ACCTCCAAAACAATTAGCGAGACCAAAGCTCCCAGCTATAAAACCAAGGTTCGCAAGCGAAGAGC
* *
31171679 CGTGAACTCCAAAGCAATTAGC-AGGAGCAAAACTCTCAACT-TCAAAATCAGGGCTCACAAACA
66 CGTGAACTCCAAAACAATTAGCGA-GAGCAAAACTCCCAACTGT-AAAATCAGGGCTCACAAACA
* * * *
31171742 AAGGGTCGC-AGCTTCCAAAACAATTAGCAAGAGCAAAACTCCTAGCTGTAAAATCAAAGCTC
129 AAGAGTCGCGA-CCTCCAAAACAATTAGCAAAAACAAAACTCCTAGCTGTAAAATCAAAGCTC
31171804 GTAGACAAAA
Statistics
Matches: 158, Mismatches: 28, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
205 3 0.02
206 102 0.65
207 53 0.34
ACGTcount: A:0.38, C:0.25, G:0.20, T:0.16
Consensus pattern (207 bp):
ACCTCCAAAACAATTAGCGAGACCAAAGCTCCCAGCTATAAAACCAAGGTTCGCAAGCGAAGAGC
CGTGAACTCCAAAACAATTAGCGAGAGCAAAACTCCCAACTGTAAAATCAGGGCTCACAAACAAA
GAGTCGCGACCTCCAAAACAATTAGCAAAAACAAAACTCCTAGCTGTAAAATCAAAGCTCACAGG
TGAAGAGCTGCA
Found at i:31171845 original size:53 final size:53
Alignment explanation
Indices: 31171788--31171893 Score: 158
Period size: 53 Copynumber: 2.0 Consensus size: 53
31171778 AACTCCTAGC
*
31171788 TGTAAAATCAAAGCTCGTAGACAAAAAGCCGTAACCTCCAAAATAGTTAGTGA
1 TGTAAAATCAAAGCTCGTAGACAAAAAGCCGCAACCTCCAAAATAGTTAGTGA
* * * * *
31171841 TGTAAAATCAAGGCTCGTAGGCAAAGAGTCGCGACCTCCAAAATAGTTAGTGA
1 TGTAAAATCAAAGCTCGTAGACAAAAAGCCGCAACCTCCAAAATAGTTAGTGA
31171894 GACCAAAGCT
Statistics
Matches: 47, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
53 47 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.21
Consensus pattern (53 bp):
TGTAAAATCAAAGCTCGTAGACAAAAAGCCGCAACCTCCAAAATAGTTAGTGA
Found at i:31171926 original size:69 final size:69
Alignment explanation
Indices: 31171842--31171977 Score: 166
Period size: 69 Copynumber: 2.0 Consensus size: 69
31171832 AGTTAGTGAT
* * * ** *
31171842 GTAAAATCAAGGCTCGTAGGCAAAGAG-TCGCGACCTCCAAAATAGTTAGTGAGACCAAAGCTCC
1 GTAAAATAAAAGCTCGCAGGCAAAGAGCT-GCGACCTCCAAAATAGTTAGCAAGACAAAAGCTCC
31171906 CAACA
65 CAACA
* ** *
31171911 GTAAAATAAAAGCTCGCAGGCGAAGAGCTGCGACCTTTAAAATAGTTAGCAAGAGAAAAGCTCCC
1 GTAAAATAAAAGCTCGCAGGCAAAGAGCTGCGACCTCCAAAATAGTTAGCAAGACAAAAGCTCCC
31171976 AA
66 AA
31171978 ATTTACAATC
Statistics
Matches: 56, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
69 55 0.98
70 1 0.02
ACGTcount: A:0.40, C:0.22, G:0.22, T:0.16
Consensus pattern (69 bp):
GTAAAATAAAAGCTCGCAGGCAAAGAGCTGCGACCTCCAAAATAGTTAGCAAGACAAAAGCTCCC
AACA
Found at i:31174682 original size:403 final size:403
Alignment explanation
Indices: 31173935--31174741 Score: 1393
Period size: 403 Copynumber: 2.0 Consensus size: 403
31173925 GACGGAACGA
*
31173935 CATCCCACAATAATAGTAGAAAAAATTCGCAGGCTCCTCCAAACACCCCATCAATATCATGCCCA
1 CATCCCACAATAATAGTAGAAAAAATTCACAGGCTCCTCCAAACACCCCATCAATATCATGCCCA
31174000 ACTGATCGAGGGAATCGTGATGCCAAGTACTCATCGTTAGTTGCCCACCAACTGATCATGCGACC
66 ACTGATCGAGGGAATCGTGATGCCAAGTACTCATCGTTAGTTGCCCACCAACTGATCATGCGACC
* *
31174065 TCTTAGTTGTCGCCAGCCCTCTAACTATTTAGGCTAAGATCCTCCAAGCAAAATCTAAAGACATT
131 TCTTAGTTGTCGCCAGCCCTCCAACCATTTAGGCTAAGATCCTCCAAGCAAAATCTAAAGACATT
*
31174130 CATCACAGTTAGAATCGTCTTCAGAGCCTTTGAAGTTACTCGATAGCCTCATCAGTGGCAAGACA
196 CATCACAATTAGAATCGTCTTCAGAGCCTTTGAAGTTACTCGATAGCCTCATCAGTGGCAAGACA
31174195 CCTCTAAAAGGCGCGCATGTCTTCACTAGGGGAGGACCACCTAGTTGGGAACCCAAAGTCTTCGC
261 CCTCTAAAAGGCGCGCATGTCTTCACTAGGGGAGGACCACCTAGTTGGGAACCCAAAGTCTTCGC
*
31174260 CAAGTATACAGCGGGTTTGGATATACGTCCCCCTTTTCAAGTGAAGATTATTGCATTAATTTTGT
326 CAAGTATACAGCGGGTTTGGATATACGTCCCCCGTTTCAAGTGAAGATTATTGCATTAATTTTGT
31174325 ATAATCGTCTGCG
391 ATAATCGTCTGCG
* **
31174338 CATCCCACAATAATAGTAGAAAAAGTTCACAGGCTCCTCCAAACACCCTGTCAATATCATGCCCA
1 CATCCCACAATAATAGTAGAAAAAATTCACAGGCTCCTCCAAACACCCCATCAATATCATGCCCA
* * * *
31174403 GCTGATCGAGGGAATCGTGATGCCAAGTACTCATCGTTAGTTGCCCACCCATTGATCGTGCGACC
66 ACTGATCGAGGGAATCGTGATGCCAAGTACTCATCGTTAGTTGCCCACCAACTGATCATGCGACC
*
31174468 TCTTAGTTGTCGCCAGCCCTCCAACCATTTAGGCTGAA-ATCCTCCAAGCAGAATCTAAAGACAT
131 TCTTAGTTGTCGCCAGCCCTCCAACCATTTAGGCT-AAGATCCTCCAAGCAAAATCTAAAGACAT
* * *
31174532 TCCTCACAATTAGAATTGTC-TCTAGAGCCTTTGAAGTTGCTCGATAGCCTCATCAGTGGCAAGA
195 TCATCACAATTAGAATCGTCTTC-AGAGCCTTTGAAGTTACTCGATAGCCTCATCAGTGGCAAGA
*
31174596 CTCCTCTAAAAGGCGCGCATGTCTTCACTAGGGGAGGACCACCTAGTTGGGAACCCAAAGTCTTC
259 CACCTCTAAAAGGCGCGCATGTCTTCACTAGGGGAGGACCACCTAGTTGGGAACCCAAAGTCTTC
* * * *
31174661 GCCAAGTATGCTGCGGGTTTGGATATACGTCCCTCGTTTCAAGTGAAGATTATTGCATTGATTTT
324 GCCAAGTATACAGCGGGTTTGGATATACGTCCCCCGTTTCAAGTGAAGATTATTGCATTAATTTT
31174726 GTATAATCGTCTGCG
389 GTATAATCGTCTGCG
31174741 C
1 C
31174742 CTTCCAACAA
Statistics
Matches: 381, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
402 2 0.01
403 377 0.99
404 2 0.01
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (403 bp):
CATCCCACAATAATAGTAGAAAAAATTCACAGGCTCCTCCAAACACCCCATCAATATCATGCCCA
ACTGATCGAGGGAATCGTGATGCCAAGTACTCATCGTTAGTTGCCCACCAACTGATCATGCGACC
TCTTAGTTGTCGCCAGCCCTCCAACCATTTAGGCTAAGATCCTCCAAGCAAAATCTAAAGACATT
CATCACAATTAGAATCGTCTTCAGAGCCTTTGAAGTTACTCGATAGCCTCATCAGTGGCAAGACA
CCTCTAAAAGGCGCGCATGTCTTCACTAGGGGAGGACCACCTAGTTGGGAACCCAAAGTCTTCGC
CAAGTATACAGCGGGTTTGGATATACGTCCCCCGTTTCAAGTGAAGATTATTGCATTAATTTTGT
ATAATCGTCTGCG
Found at i:31181578 original size:7 final size:7
Alignment explanation
Indices: 31181568--31181619 Score: 50
Period size: 7 Copynumber: 7.3 Consensus size: 7
31181558 TATGGTTTAA
31181568 GGGTTAG
1 GGGTTAG
*
31181575 GGGTTAA
1 GGGTTAG
*
31181582 GAGTTAG
1 GGGTTAG
*
31181589 GGGTTAA
1 GGGTTAG
*
31181596 GTGTTAG
1 GGGTTAG
31181603 GGGTTTAG
1 GGG-TTAG
*
31181611 GGTTTAG
1 GGGTTAG
31181618 GG
1 GG
31181620 TTTAAAGGAT
Statistics
Matches: 35, Mismatches: 9, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
7 29 0.83
8 6 0.17
ACGTcount: A:0.19, C:0.00, G:0.48, T:0.33
Consensus pattern (7 bp):
GGGTTAG
Found at i:31181587 original size:14 final size:14
Alignment explanation
Indices: 31181564--31181607 Score: 70
Period size: 14 Copynumber: 3.1 Consensus size: 14
31181554 GATTTATGGT
*
31181564 TTAAGGGTTAGGGG
1 TTAAGAGTTAGGGG
31181578 TTAAGAGTTAGGGG
1 TTAAGAGTTAGGGG
*
31181592 TTAAGTGTTAGGGG
1 TTAAGAGTTAGGGG
31181606 TT
1 TT
31181608 TAGGGTTTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 28 1.00
ACGTcount: A:0.23, C:0.00, G:0.43, T:0.34
Consensus pattern (14 bp):
TTAAGAGTTAGGGG
Found at i:31184310 original size:24 final size:25
Alignment explanation
Indices: 31184258--31184316 Score: 77
Period size: 25 Copynumber: 2.4 Consensus size: 25
31184248 TATTCTTTAG
*
31184258 ATTTTTTTAAAA-A-AAATTTTAAA
1 ATTTTTTAAAAATATAAATTTTAAA
*
31184281 ATTTTTTAAAAATATAAATTTTGAA
1 ATTTTTTAAAAATATAAATTTTAAA
31184306 ATTTTTATAAA
1 ATTTTT-TAAA
31184317 TATTTTAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
23 11 0.35
24 1 0.03
25 15 0.48
26 4 0.13
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (25 bp):
ATTTTTTAAAAATATAAATTTTAAA
Found at i:31184317 original size:24 final size:24
Alignment explanation
Indices: 31184258--31184319 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
31184248 TATTCTTTAG
* *
31184258 ATTTTTTTAAA-AAAAATTTTAAA
1 ATTTTTATAAATATAAATTTTAAA
* *
31184281 ATTTTTTAAAAATATAAATTTTGAA
1 A-TTTTTATAAATATAAATTTTAAA
31184306 ATTTTTATAAATAT
1 ATTTTTATAAATAT
31184320 TTTAAAATTA
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
23 1 0.03
24 20 0.62
25 11 0.34
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (24 bp):
ATTTTTATAAATATAAATTTTAAA
Found at i:31184788 original size:11 final size:10
Alignment explanation
Indices: 31184763--31184825 Score: 62
Period size: 9 Copynumber: 6.6 Consensus size: 10
31184753 CACATGGTAT
31184763 ATTTTTA-TA
1 ATTTTTATTA
31184772 ATTTTTATTA
1 ATTTTTATTA
31184782 CATTTTTATT-
1 -ATTTTTATTA
* *
31184792 A-TTTAATTT
1 ATTTTTATTA
31184801 ATTTTTA-TA
1 ATTTTTATTA
*
31184810 ATTTTTATTT
1 ATTTTTATTA
31184820 ATTTTT
1 ATTTTT
31184826 TAGAATCTAT
Statistics
Matches: 45, Mismatches: 4, Indels: 9
0.78 0.07 0.16
Matches are distributed among these distances:
8 6 0.13
9 17 0.38
10 13 0.29
11 9 0.20
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (10 bp):
ATTTTTATTA
Found at i:31184804 original size:18 final size:19
Alignment explanation
Indices: 31184762--31184825 Score: 76
Period size: 19 Copynumber: 3.4 Consensus size: 19
31184752 TCACATGGTA
*
31184762 TATTTTTATAATTTTTATT
1 TATTTTTATAATTTTAATT
* *
31184781 ACATTTTTATTA-TTTAATT
1 -TATTTTTATAATTTTAATT
*
31184800 TATTTTTATAATTTTTATT
1 TATTTTTATAATTTTAATT
31184819 TATTTTT
1 TATTTTT
31184826 TAGAATCTAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
18 9 0.24
19 19 0.51
20 9 0.24
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.72
Consensus pattern (19 bp):
TATTTTTATAATTTTAATT
Found at i:31184826 original size:20 final size:20
Alignment explanation
Indices: 31184764--31184845 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
31184754 ACATGGTATA
*
31184764 TTTTTATAATTTTTA-TTACA
1 TTTTTATAATTTTTATTTA-T
* *
31184784 TTTTTATTA-TTTAATTTA-
1 TTTTTATAATTTTTATTTAT
31184802 TTTTTATAATTTTTATTTAT
1 TTTTTATAATTTTTATTTAT
* *
31184822 TTTTTAGAATCTATT-TTTAT
1 TTTTTATAAT-TTTTATTTAT
31184842 TTTT
1 TTTT
31184846 ATTACATATG
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
18 8 0.15
19 12 0.23
20 29 0.56
21 3 0.06
ACGTcount: A:0.26, C:0.02, G:0.01, T:0.71
Consensus pattern (20 bp):
TTTTTATAATTTTTATTTAT
Found at i:31185718 original size:26 final size:26
Alignment explanation
Indices: 31185653--31185715 Score: 85
Period size: 26 Copynumber: 2.5 Consensus size: 26
31185643 TAGAAATGTT
*
31185653 TTTAAAATTTTTAATTTTTTATATAC
1 TTTAGAATTTTTAATTTTTTATATAC
31185679 TTTAGAATTTTTAATATTTTTA-ATA-
1 TTTAGAATTTTTAAT-TTTTTATATAC
*
31185704 TTTATAATTTTT
1 TTTAGAATTTTT
31185716 TAAAAATATA
Statistics
Matches: 34, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
25 11 0.32
26 17 0.50
27 6 0.18
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTAGAATTTTTAATTTTTTATATAC
Found at i:31185867 original size:26 final size:25
Alignment explanation
Indices: 31185838--31185891 Score: 63
Period size: 26 Copynumber: 2.1 Consensus size: 25
31185828 AGACTTTTAT
* * *
31185838 ATTAATGTGTTATTTGAATTATTCAA
1 ATTAATGAGTTATTTAAATT-TTAAA
*
31185864 ATTATTGAGTTATTTAAATTTTAAA
1 ATTAATGAGTTATTTAAATTTTAAA
31185889 ATT
1 ATT
31185892 TAACACGACT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.37, C:0.02, G:0.09, T:0.52
Consensus pattern (25 bp):
ATTAATGAGTTATTTAAATTTTAAA
Found at i:31197719 original size:31 final size:30
Alignment explanation
Indices: 31197662--31197729 Score: 91
Period size: 30 Copynumber: 2.3 Consensus size: 30
31197652 AAATAAAAGT
31197662 TATAAAAAATATTAAATTTTAATAAAAAAA
1 TATAAAAAATATTAAATTTTAATAAAAAAA
* * * * *
31197692 TATAAGAAATATTTAATTTTTATTAAAAAT
1 TATAAAAAATATTAAATTTTAATAAAAAAA
31197722 TATAAAAA
1 TATAAAAA
31197730 TTGTAAAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.38
Consensus pattern (30 bp):
TATAAAAAATATTAAATTTTAATAAAAAAA
Found at i:31198088 original size:25 final size:26
Alignment explanation
Indices: 31198041--31198108 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
31198031 GATTTTTAAA
31198041 AAAATTTACAA-AT-TTTTATATTTTT
1 AAAATTTA-AATATATTTTATATTTTT
** *
31198066 ACGATTTATATATATTTTA-ATTTTT
1 AAAATTTAAATATATTTTATATTTTT
31198091 AAAATTTAAATATATTTT
1 AAAATTTAAATATATTTT
31198109 TTTTATATTT
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
24 1 0.03
25 29 0.83
26 5 0.14
ACGTcount: A:0.40, C:0.03, G:0.01, T:0.56
Consensus pattern (26 bp):
AAAATTTAAATATATTTTATATTTTT
Found at i:31198393 original size:90 final size:91
Alignment explanation
Indices: 31198297--31198514 Score: 305
Period size: 90 Copynumber: 2.4 Consensus size: 91
31198287 TGCATTTTGG
* * *
31198297 CAATTGAGTGCAAAAAAAAAAGTAGGGGCTTAATTGCATTTTTTGAAAAAATTT-AGGGTCTTTT
1 CAATTGAGTGCAAAAAAAAAAGTAGGGGTTTAATTGCATTTTTTGAAAAAATTTGAGAGCCTTTT
* * *
31198361 TTATGTATTTTGACAGTTCAAGTACC
66 TGATGTATTTTAAAAGTTCAAGTACC
* * *
31198387 CAATTGAGTGC-AAAAAAAAAGTAGGGGTTTAATTACTTTTTTTGAAAAAGTTTGAGAGCCTTTT
1 CAATTGAGTGCAAAAAAAAAAGTAGGGGTTTAATTGCATTTTTTGAAAAAATTTGAGAGCCTTTT
*
31198451 TGATGTATTTTAAAAGTTCAAGTATC
66 TGATGTATTTTAAAAGTTCAAGTACC
* *
31198477 CAATTGAGTGCAAAAGCAAAAAGTAAGGGTTTAATTGC
1 CAATTGAGTGCAAAA-AAAAAAGTAGGGGTTTAATTGC
31198515 TTCTTCTTTT
Statistics
Matches: 112, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
89 38 0.34
90 52 0.46
91 3 0.03
92 19 0.17
ACGTcount: A:0.36, C:0.09, G:0.20, T:0.35
Consensus pattern (91 bp):
CAATTGAGTGCAAAAAAAAAAGTAGGGGTTTAATTGCATTTTTTGAAAAAATTTGAGAGCCTTTT
TGATGTATTTTAAAAGTTCAAGTACC
Found at i:31198541 original size:90 final size:87
Alignment explanation
Indices: 31198297--31198541 Score: 251
Period size: 90 Copynumber: 2.7 Consensus size: 87
31198287 TGCATTTTGG
* * * *
31198297 CAATTGAGTGCAAAAAAAAAAGTAGGGGCTTAATTGCATTTTTTGAAAAAATTT-AGGGTCTTTT
1 CAATTGAGTGC-AAAAAAAAAGTAAGGGTTTAATTAC-TTTTTT-TAAAAATTTGAGGGT-TTTT
* * *
31198361 TTATGTATTTTGACAGTTCAAGTACC
62 TGATGTATTTTAAAAGTTCAAGTACC
* **
31198387 CAATTGAGTGCAAAAAAAAAGTAGGGGTTTAATTACTTTTTTTGAAAAAGTTTGAGAGCCTTTTT
1 CAATTGAGTGCAAAAAAAAAGTAAGGGTTTAATTACTTTTTTT-AAAAA-TTTGAG-GGTTTTTT
*
31198452 GATGTATTTTAAAAGTTCAAGTATC
63 GATGTATTTTAAAAGTTCAAGTACC
* **
31198477 CAATTGAGTGCAAAAGCAAAAAGTAAGGGTTTAATTGCTTCTTCTTT-TTAATTTGAGGGTTTTT
1 CAATTGAGTGCAAAA--AAAAAGTAAGGGTTTAATTACTT-TT-TTTAAAAATTTGAGGGTTTTT
31198541 T
62 T
31198542 TAGCCTTTAA
Statistics
Matches: 132, Mismatches: 15, Indels: 16
0.81 0.09 0.10
Matches are distributed among these distances:
88 11 0.08
89 26 0.20
90 60 0.45
91 7 0.05
92 23 0.17
93 2 0.02
94 3 0.02
ACGTcount: A:0.33, C:0.09, G:0.19, T:0.38
Consensus pattern (87 bp):
CAATTGAGTGCAAAAAAAAAGTAAGGGTTTAATTACTTTTTTTAAAAATTTGAGGGTTTTTTGAT
GTATTTTAAAAGTTCAAGTACC
Found at i:31200305 original size:288 final size:288
Alignment explanation
Indices: 31199801--31200328 Score: 672
Period size: 288 Copynumber: 1.8 Consensus size: 288
31199791 ATGCCAATTG
* * * *
31199801 GATTAGTAAAATCTTAAATTTACCACTCAACTAATATTTTATTTTGAGAATATTTTATATTTTTT
1 GATTAGTAAAACCTTAAAGTTACCACTCAACTAAAACTTTATTTTGAGAATATTTTATATTTTTT
** *
31199866 TAATACGCACAATTTATTATCTTCACCAGTTGTATATCTATATACTTACTATTAATAATACCCCA
66 TAATACGCACAATTTATTATCCCCACCAGTTGTATATC---ATAC-TACTATTAATAAAACCCCA
* * * * * *
31199931 AACTGAGTTGGTGTCATGGGTTAACCAGGTACCAACTCGATTAGGAAATTATGGAAATGTCCTTC
127 AACTAAGTTGGTGTCATAGGTTAACCAGGCACCAACTAGATTAGGAAATTATGAAAATGTCATTC
* * * * * * * *
31199996 TATAATTAAAATGAGTTATATTATTTAAAGGTATTTTAGTTTTTTTTTTTTCATTTTAACAGAAA
192 CATAATAAAAATAAATTATATTATTCAAAGGCACTTTAGTCTTTTTTTTTTCATTTTAACAGAAA
31200061 CCAAATGATGAGATTTGAACCCACACTGATTT
257 CCAAATGATGAGATTTGAACCCACACTGATTT
31200093 GATTAGTAAAACCTTAAAGTTACCACTCAAGC-AAAACTTTATTTT-A-ATATATTTTATACATT
1 GATTAGTAAAACCTTAAAGTTACCACTCAA-CTAAAACTTTATTTTGAGA-ATATTTTAT--ATT
* * *
31200155 CTTTTTAATATGTACAATTTATTATCCCCACCAGTTGTATATC-TA-TACTATTAATAAAACCTC
62 -TTTTTAATACGCACAATTTATTATCCCCACCAGTTGTATATCATACTACTATTAATAAAACCCC
** *
31200218 TGACTAAGTTGGTGTCATAGGTTAACCGGGCACCAACTTAG-TTAGGAAATTATGAAAATGTCAT
126 AAACTAAGTTGGTGTCATAGGTTAACCAGGCACCAAC-TAGATTAGGAAATTATGAAAATGTCAT
*
31200282 TCCGTAATAAAAATAAATTATATTATTCAAAGGCACTTTAGTCTTTT
190 TCCATAATAAAAATAAATTATATTATTCAAAGGCACTTTAGTCTTTT
31200329 CATTTAGGAA
Statistics
Matches: 202, Mismatches: 28, Indels: 16
0.82 0.11 0.07
Matches are distributed among these distances:
288 106 0.52
289 2 0.01
290 3 0.01
291 10 0.05
292 39 0.19
293 4 0.02
294 38 0.19
ACGTcount: A:0.35, C:0.15, G:0.11, T:0.39
Consensus pattern (288 bp):
GATTAGTAAAACCTTAAAGTTACCACTCAACTAAAACTTTATTTTGAGAATATTTTATATTTTTT
TAATACGCACAATTTATTATCCCCACCAGTTGTATATCATACTACTATTAATAAAACCCCAAACT
AAGTTGGTGTCATAGGTTAACCAGGCACCAACTAGATTAGGAAATTATGAAAATGTCATTCCATA
ATAAAAATAAATTATATTATTCAAAGGCACTTTAGTCTTTTTTTTTTCATTTTAACAGAAACCAA
ATGATGAGATTTGAACCCACACTGATTT
Found at i:31200502 original size:293 final size:294
Alignment explanation
Indices: 31199635--31200724 Score: 767
Period size: 292 Copynumber: 3.7 Consensus size: 294
31199625 AACCAAGTTT
** * * * * * * * * * *
31199635 GTGTCACAGGTTAACCTTGTACCAACTCGGTTAGAAAATTACAGAAATATCCTTTCGTAATTAAA
1 GTGTCACAGGTTAACCGGGCACCAACTCAGTTAGGAAATTATATAAATGTCATTCCATAATAAAA
* * ** * * *
31199700 ATAAATCATATCATTTGAGGGCATTTTAGTCT-TTTCATTTTAACAAAAACCAAGAAAAATATGC
66 ATAAATAATATTATTCAAAGGCACTTTAGTCTATTT-ATTTTAACAAAAATCAAGAAAAATATGC
* * * *
31199764 ATATGGTAAGATTTTAGATTTGAATCC-ATGCCAATTGGATTAGTAAAATCTTAAATTTACCACT
130 ATATGGT--G-----GGAGTT-AAACCTATGCCAATTGGATTAGTAAAACCTTAAATTTACCACT
* * * * *
31199828 CAACTAATATTTTATTTTGAGA-ATATTTTAT--ATT-TTTTTAATACGCACAATTTATTAT-CT
187 CAACCAAAACTTTATTTT-A-ATATATTTTATACATTCTTTTTAATATGTACAATTTATTATAC-
* * * *
31199888 TCACCAGTTGTATATCTATA-TACTTACTATTAATAATACCCCAAACTGAGTTG
249 CCACCAGTTGTATATCTATACTA-TTA--A-TAA-AAT--CCCTAGCTAAG-TG
** * * ** * * *
31199941 GTGTCATGGGTTAACCAGGTACCAACTC-GATTAGGAAATTATGGAAATGTCCTTCTATAATTAA
1 GTGTCACAGGTTAACCGGGCACCAACTCAG-TTAGGAAATTATATAAATGTCATTCCATAATAAA
* * * * * * * ** ** * * * *
31200005 AATGAGTTATATTATTTAAAGGTATTTTAGT-T-TTTTTTTTTTC--ATTTTAA-CAGAA-A-CC
65 AATAAATAATATTATTCAAAGGCACTTTAGTCTATTTATTTTAACAAAAATCAAGAAAAATATGC
* * * * * * ** ** * * *
31200063 AAATGATGAGATTTGAACCCACACTGATTTGATTAGTAAAACCTTAAAGTTACCACTCAAGCAAA
130 ATATGGTGGGAGTTAAACCTATGCCAATTGGATTAGTAAAACCTTAAATTTACCACTCAACCAAA
*
31200128 ACTTTATTTTAATATATTTTATACATTCTTTTTAATATGTACAATTTATTATCCCCACCAGTTGT
195 ACTTTATTTTAATATATTTTATACATTCTTTTTAATATGTACAATTTATTATACCCACCAGTTGT
31200193 ATATCTATACTATTAATAAAA-CCTCT-GACTAAGTTG
260 ATATCTATACTATTAATAAAATCC-CTAG-CTAAG-TG
* * *
31200229 GTGTCATAGGTTAACCGGGCACCAACTTAGTTAGGAAATTATGA-AAATGTCATTCCGTAATAAA
1 GTGTCACAGGTTAACCGGGCACCAACTCAGTTAGGAAATTAT-ATAAATGTCATTCCATAATAAA
* **
31200293 AATAAATTATATTATTCAAAGGCACTTTAGTCT-TTTCA-TTTAGGAAAAA-CAAGAAAAATATG
65 AATAAATAATATTATTCAAAGGCACTTTAGTCTATTT-ATTTTAACAAAAATCAAGAAAAATATG
* * * *
31200355 CATGTGGTGGGAGTTAAA-CTCATGCCAATTGGATTAGAAAAACCTTAAATTTACTACTCAATCA
129 CATATGGTGGGAGTTAAACCT-ATGCCAATTGGATTAGTAAAACCTTAAATTTACCACTCAACCA
* * **
31200419 AAATTTTATTTTGAT-T-TTATTATACAATT-TTTTTAAATAT-TCACAATTTATTATATTCACC
193 AAACTTTATTTTAATATATT-TTATAC-ATTCTTTTT-AATATGT-ACAATTTATTATACCCACC
* *
31200480 AGTTGTATATTTATACTATTAATAAAATCCCTAGCTGAGTG
254 AGTTGTATATCTATACTATTAATAAAATCCCTAGCTAAGTG
* * * * * *
31200521 GTGTCACAGTTTAACTGGGTACCAACTCGGTTAGGAAATTATATAAATGTCCTTCCATAATTAAA
1 GTGTCACAGGTTAACCGGGCACCAACTCAGTTAGGAAATTATATAAATGTCATTCCATAATAAAA
* * * ***
31200586 ATAAGTAATATTATTCGATGGTGTTTTAGTCTATTTATTTTAACAAAAATCAAGAAAAATATGCA
66 ATAAATAATATTATTCAAAGGCACTTTAGTCTATTTATTTTAACAAAAATCAAGAAAAATATGCA
* * * * **
31200651 TATGGTGGTATTTAAACCTATGTCAATTGGAGTAGTAAAATATTAAATTTACCACTCAACCAAAA
131 TATGGTGGGAGTTAAACCTATGCCAATTGGATTAGTAAAACCTTAAATTTACCACTCAACCAAAA
*
31200716 CTTCATTTT
196 CTTTATTTT
31200725 TTTCATACAT
Statistics
Matches: 627, Mismatches: 126, Indels: 74
0.76 0.15 0.09
Matches are distributed among these distances:
287 2 0.00
288 86 0.14
289 8 0.01
290 5 0.01
291 23 0.04
292 148 0.24
293 130 0.21
294 121 0.19
295 5 0.01
297 1 0.00
299 6 0.01
300 1 0.00
301 3 0.00
302 3 0.00
304 5 0.01
305 5 0.01
306 75 0.12
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (294 bp):
GTGTCACAGGTTAACCGGGCACCAACTCAGTTAGGAAATTATATAAATGTCATTCCATAATAAAA
ATAAATAATATTATTCAAAGGCACTTTAGTCTATTTATTTTAACAAAAATCAAGAAAAATATGCA
TATGGTGGGAGTTAAACCTATGCCAATTGGATTAGTAAAACCTTAAATTTACCACTCAACCAAAA
CTTTATTTTAATATATTTTATACATTCTTTTTAATATGTACAATTTATTATACCCACCAGTTGTA
TATCTATACTATTAATAAAATCCCTAGCTAAGTG
Found at i:31211058 original size:61 final size:56
Alignment explanation
Indices: 31210986--31211132 Score: 136
Period size: 57 Copynumber: 2.5 Consensus size: 56
31210976 AATTGACGGT
* *
31210986 AAAAAGGATCTAGCCCGGACGGGTGATCCTATCCTGATATAG-CGTCCCGAAGAATAAGTGTG
1 AAAAAAGATCTAGCCCGGACGGGTGAT-C--T--TGATATAGCCCTCCCGAAGAA-AA-TGTG
* * * *
31211048 -AAAAAGATCTAGCTCGAACAGGTGATCTTGATATAGCCCTCCCGAAGAACATGTG
1 AAAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAAAATGTG
* *
31211103 AAAAATAGATTTAGCCCGGACGGGTAATCT
1 AAAAA-AGATCTAGCCCGGACGGGTGATCT
31211133 GAATTAGGGT
Statistics
Matches: 71, Mismatches: 11, Indels: 11
0.76 0.12 0.12
Matches are distributed among these distances:
55 4 0.06
56 13 0.18
57 30 0.42
58 1 0.01
60 1 0.01
61 22 0.31
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.22
Consensus pattern (56 bp):
AAAAAAGATCTAGCCCGGACGGGTGATCTTGATATAGCCCTCCCGAAGAAAATGTG
Found at i:31211305 original size:67 final size:67
Alignment explanation
Indices: 31211197--31211331 Score: 225
Period size: 67 Copynumber: 2.0 Consensus size: 67
31211187 GTAATTGTCG
* *
31211197 TTGCAAGGGATTTAGCCTGAACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTGCTC
1 TTGCAAGGGATTTAACCTGAACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTACTC
31211262 TC
66 TC
* * *
31211264 TTGCAGGGGATTTAACCTGGACTGGTAATCTCGCTGTAAGAAATGAGGTTCGCGGGAGTGTACTC
1 TTGCAAGGGATTTAACCTGAACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTACTC
31211329 TC
66 TC
31211331 T
1 T
31211332 AAATTGGAAA
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
67 63 1.00
ACGTcount: A:0.22, C:0.19, G:0.31, T:0.28
Consensus pattern (67 bp):
TTGCAAGGGATTTAACCTGAACTGGTAATCCCGCTGTAAGAAATGAGGTTCGCGGGAGTGTACTC
TC
Found at i:31220375 original size:47 final size:47
Alignment explanation
Indices: 31220321--31220463 Score: 151
Period size: 47 Copynumber: 3.2 Consensus size: 47
31220311 TACAAGTACA
31220321 ATATACAAGTAAATTTGCAAACATGTGTGCACATATATTTAACACGC
1 ATATACAAGTAAATTTGCAAACATGTGTGCACATATATTTAACACGC
* * * * *
31220368 ATATACAAGTAAA--T--ATACA--AGT--AAATATATAT-ACAAGTAC
1 ATATACAAGTAAATTTGCAAACATGTGTGCACATATATTTAACACG--C
31220408 AATATACAAGTAAATTTGCAAACATGTGTGCACATATATTTAACACGC
1 -ATATACAAGTAAATTTGCAAACATGTGTGCACATATATTTAACACGC
31220456 ATATACAA
1 ATATACAA
31220464 AGATACATAT
Statistics
Matches: 74, Mismatches: 10, Indels: 24
0.69 0.09 0.22
Matches are distributed among these distances:
38 4 0.05
39 8 0.11
40 1 0.01
41 15 0.20
43 5 0.07
45 5 0.07
47 23 0.31
48 1 0.01
49 8 0.11
50 4 0.05
ACGTcount: A:0.46, C:0.15, G:0.10, T:0.29
Consensus pattern (47 bp):
ATATACAAGTAAATTTGCAAACATGTGTGCACATATATTTAACACGC
Found at i:31220382 original size:88 final size:87
Alignment explanation
Indices: 31220304--31220463 Score: 311
Period size: 88 Copynumber: 1.8 Consensus size: 87
31220294 ATTTACAAAT
31220304 ATATATATACAAGTACAATATACAAGTAAATTTGCAAACATGTGTGCACATATATTTAACACGCA
1 ATATATATACAAGTACAATATACAAGTAAATTTGCAAACATGTGTGCACATATATTTAACACGCA
31220369 TATACAAGTAAATATACAAGTAA
66 TATACAAGTAAATATACAAG-AA
31220392 ATATATATACAAGTACAATATACAAGTAAATTTGCAAACATGTGTGCACATATATTTAACACGCA
1 ATATATATACAAGTACAATATACAAGTAAATTTGCAAACATGTGTGCACATATATTTAACACGCA
31220457 TATACAA
66 TATACAA
31220464 AGATACATAT
Statistics
Matches: 72, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
88 72 1.00
ACGTcount: A:0.47, C:0.14, G:0.10, T:0.29
Consensus pattern (87 bp):
ATATATATACAAGTACAATATACAAGTAAATTTGCAAACATGTGTGCACATATATTTAACACGCA
TATACAAGTAAATATACAAGAA
Found at i:31220385 original size:12 final size:13
Alignment explanation
Indices: 31220368--31220419 Score: 61
Period size: 13 Copynumber: 3.8 Consensus size: 13
31220358 TTTAACACGC
31220368 ATATACAAGTA-A
1 ATATACAAGTACA
*
31220380 ATATACAAGTAAATA
1 ATATACAAGT--ACA
31220395 TATATACAAGTACA
1 -ATATACAAGTACA
31220409 ATATACAAGTA
1 ATATACAAGTA
31220420 AATTTGCAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
12 10 0.29
13 11 0.31
14 3 0.09
15 1 0.03
16 10 0.29
ACGTcount: A:0.56, C:0.10, G:0.08, T:0.27
Consensus pattern (13 bp):
ATATACAAGTACA
Found at i:31220401 original size:16 final size:17
Alignment explanation
Indices: 31220380--31220413 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
31220370 ATACAAGTAA
31220380 ATATACAAGTA-AATAT
1 ATATACAAGTACAATAT
31220396 ATATACAAGTACAATAT
1 ATATACAAGTACAATAT
31220413 A
1 A
31220414 CAAGTAAATT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.56, C:0.09, G:0.06, T:0.29
Consensus pattern (17 bp):
ATATACAAGTACAATAT
Found at i:31220418 original size:29 final size:28
Alignment explanation
Indices: 31220368--31220422 Score: 101
Period size: 29 Copynumber: 1.9 Consensus size: 28
31220358 TTTAACACGC
31220368 ATATACAAGTAAATATACAAGTAAATAT
1 ATATACAAGTAAATATACAAGTAAATAT
31220396 ATATACAAGTACAATATACAAGTAAAT
1 ATATACAAGTA-AATATACAAGTAAAT
31220423 TTGCAAACAT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
28 11 0.42
29 15 0.58
ACGTcount: A:0.56, C:0.09, G:0.07, T:0.27
Consensus pattern (28 bp):
ATATACAAGTAAATATACAAGTAAATAT
Found at i:31222609 original size:44 final size:44
Alignment explanation
Indices: 31222481--31222981 Score: 460
Period size: 44 Copynumber: 11.3 Consensus size: 44
31222471 TAATTATATA
*
31222481 TTCGATCTACTTCACTGCCAATACAGGAAGACAAGATCTG-TTATC
1 TTCGATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTT-TC
* * * *** *
31222526 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTACTTTC
1 TTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTC
* *
31222571 TTCGATCTATTTCACGCCAATACATGAAGACAAGATCT-ATTATC
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT-TC
* * * ***
31222615 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTG-TTATC
1 TTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTT-TC
31222660 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATT-
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT-TTC
* * *
31222704 TTCGATCTACTTCACGCTAATACATGAAGACAAGCTATGCTTTC
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * *
31222748 TTTGGTCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
*** * * * *
31222792 -TCTGATCTACTTCATATCAACATATGAAGACAAGATCTACTATC
1 TTC-GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
* * * *
31222836 -TCTGATCTACTCCATGTCAATACATGAAGACAAGATTTG-TTATC
1 TTC-GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTT-TC
* * * *** *
31222880 TTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATC
1 TTCGATCTACTTC-ACGCCAATACATGAAGACAAGATCTGCTTTC
**
31222925 TTTAATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATT-
1 TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCT-TTC
31222969 TTCGATCTACTTC
1 TTCGATCTACTTC
31222982 GCCACCAGTA
Statistics
Matches: 369, Mismatches: 73, Indels: 29
0.78 0.15 0.06
Matches are distributed among these distances:
43 6 0.02
44 240 0.65
45 118 0.32
46 5 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (44 bp):
TTCGATCTACTTCACGCCAATACATGAAGACAAGATCTGCTTTC
Found at i:31222971 original size:265 final size:266
Alignment explanation
Indices: 31222486--31222981 Score: 777
Period size: 265 Copynumber: 1.9 Consensus size: 266
31222476 ATATATTCGA
* * *
31222486 TCTACTTCACTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCCACCAGTATG
1 TCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCAACAGTAT-
* * *
31222551 GGAAGACAAGATCTACTTTCTTCGATCTATTTCACGCCAATACATGAAGACAAGATCTATTATCT
65 GGAAGACAAGATCTACTATCTTCGATCTACTCCACGCCAATACATGAAGACAAGATCTATTATCT
* *
31222616 TCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGTTATCTTCGATCTACTTCACGCCAAT
130 TCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCAATCTACTTCACGCCAAT
31222681 ACATGAAGACAAGATCTGCTATTTTCGATCTACTTCACGCTAATACATGAAGACAAGCTATGCTT
195 ACATGAAGACAAGATCTGCTATTTTCGATCTACTTCACGCTAATACATGAAGACAAGCTATGCTT
31222746 TCTTTGG
260 TCTTTGG
* *
31222753 TCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATC-TCTGATCTACTTCATATCAACA-T
1 TCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTC-GATCTACTTC--ACCAACAGT
* * * *
31222815 AT-GAAGACAAGATCTACTATC-TCTGATCTACTCCATGTCAATACATGAAGACAAGATTTGTTA
63 ATGGAAGACAAGATCTACTATCTTC-GATCTACTCCACGCCAATACATGAAGACAAGATCTATTA
*
31222878 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTTAATCTACTTCACGCC
127 TCTTCGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCAATCTACTTCACGCC
31222943 AATACATGAAGACAAGATCTGCTATTTTCGATCTACTTC
192 AATACATGAAGACAAGATCTGCTATTTTCGATCTACTTC
31222982 GCCACCAGTA
Statistics
Matches: 210, Mismatches: 15, Indels: 10
0.89 0.06 0.04
Matches are distributed among these distances:
264 2 0.01
265 154 0.73
266 37 0.18
267 13 0.06
268 4 0.02
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.31
Consensus pattern (266 bp):
TCTACTTCACTGCCAATACAGGAAGACAAGATCTGCTATCTTCGATCTACTTCACCAACAGTATG
GAAGACAAGATCTACTATCTTCGATCTACTCCACGCCAATACATGAAGACAAGATCTATTATCTT
CGATCTACTTCGCCACCAGTATGGGAAGACAAGATCTGCTATCTTCAATCTACTTCACGCCAATA
CATGAAGACAAGATCTGCTATTTTCGATCTACTTCACGCTAATACATGAAGACAAGCTATGCTTT
CTTTGG
Found at i:31223008 original size:89 final size:89
Alignment explanation
Indices: 31222484--31223020 Score: 697
Period size: 89 Copynumber: 6.0 Consensus size: 89
31222474 TTATATATTC
* *
31222484 GATCTACTTCACTGCCAATACAGGAAGACAAGATCTGTTATCTTCGATCTACTTCGCCACCAGTA
1 GATCTACTTCAC-GCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAGTA
* * *
31222549 TGGGAAGACAAGATCTACTTTCTTC
65 TGGGAAGACAAGATCTGCTATCTTT
* **
31222574 GATCTATTTCACGCCAATACATGAAGACAAGATCTATTATCTTCGATCTACTTCGCCACCAGTAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAGTAT
* *
31222639 GGGAAGACAAGATCTGTTATCTTC
66 GGGAAGACAAGATCTGCTATCTTT
* * * * * *
31222663 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATTTTCGATCTACTTC-ACGCTAATAC
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAGTAT
** * * *
31222727 ATGAAGACAAGCTATGCTTTCTTT
66 GGGAAGACAAGATCTGCTATCTTT
* ** *
31222751 GGTCTACTTCACGCCAATACATGAAGACAAGATCTGCTATC-TCTGATCTACTTCATATCAACA-
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTC-GATCTACTTC--GCCACCAG
* *
31222814 TAT--GAAGACAAGATCTACTATCTCT
63 TATGGGAAGACAAGATCTGCTATCTTT
* * * * *
31222839 GATCTACTCCATGTCAATACATGAAGACAAGATTTGTTATCTTCGATCTACTTCGCCACCAGTAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAGTAT
31222904 GGGAAGACAAGATCTGCTATCTTT
66 GGGAAGACAAGATCTGCTATCTTT
* *
31222928 AATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATTTTCGATCTACTTCGCCACCAGTAT
1 GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAGTAT
31222993 GGGAAGACAAGATCTGCTATCTTT
66 GGGAAGACAAGATCTGCTATCTTT
31223017 GATC
1 GATC
31223021 GATTCCACTG
Statistics
Matches: 386, Mismatches: 53, Indels: 17
0.85 0.12 0.04
Matches are distributed among these distances:
86 4 0.01
87 5 0.01
88 133 0.34
89 229 0.59
90 13 0.03
91 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.15, T:0.30
Consensus pattern (89 bp):
GATCTACTTCACGCCAATACATGAAGACAAGATCTGCTATCTTCGATCTACTTCGCCACCAGTAT
GGGAAGACAAGATCTGCTATCTTT
Found at i:31223154 original size:44 final size:44
Alignment explanation
Indices: 31223099--31223425 Score: 143
Period size: 44 Copynumber: 7.4 Consensus size: 44
31223089 AAAATCCGCC
* *
31223099 ATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTACCTAGGGAGATAAGATCTGTA
* * * * * *
31223143 ATCTTCAATCTATTCCATTTCTGCCCAGGGAGAT-AGA-AT-TA
1 ATCTTCAATCTACTCCACTACTACCTAGGGAGATAAGATCTGTA
* * * * * **
31223184 CTGGCTTCAATGTACTCCACT-GTAACCTCAGGGAGGTAAAATCCACT-
1 AT--CTTCAATCTACTCCACTACT-ACCT-AGGGAGATAAGAT-CTGTA
** * *
31223231 ATCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTACCTAGGGAGATAAGATCTGTA
* ** * * *
31223275 ATCTTCAATCTATTCCACTGTTGCCCA-GGAGGAT-AGA-AT-TA
1 ATCTTCAATCTACTCCACTACTACCTAGGGA-GATAAGATCTGTA
* * * * ***
31223316 ATGGCTTCAATGTACTCCACT-GTAACCTCAGGGAGGTAAAATCTACC
1 AT--CTTCAATCTACTCCACTACT-ACCT-AGGGAGATAAGATCTGTA
** * * *
31223363 ATCTTTGATCTGCTCTACTACTACTTAGGGAGATAAGATCTGTA
1 ATCTTCAATCTACTCCACTACTACCTAGGGAGATAAGATCTGTA
* *
31223407 ATCTTCAATATATTCCACT
1 ATCTTCAATCTACTCCACT
31223426 GTTGCCCAGG
Statistics
Matches: 197, Mismatches: 66, Indels: 40
0.65 0.22 0.13
Matches are distributed among these distances:
41 7 0.04
42 4 0.02
43 44 0.22
44 97 0.49
45 38 0.19
46 3 0.02
47 3 0.02
48 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.17, T:0.31
Consensus pattern (44 bp):
ATCTTCAATCTACTCCACTACTACCTAGGGAGATAAGATCTGTA
Found at i:31223241 original size:132 final size:132
Alignment explanation
Indices: 31223035--31223497 Score: 716
Period size: 132 Copynumber: 3.5 Consensus size: 132
31223025 CCACTGCCGA
* * ** *
31223035 CCAGGGAGTTAGAATTACTGGCTTCAATATACTCCACTGTAATGTC-GGAGAGGTAAAATCCGCC
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGG-GAGGTAAAATCCACC
* * * * *
31223099 ATCTTCGATCTACTCCACTACTGCCTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCA-TTT
65 ATCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGT
31223163 CTGC
130 -TGC
*
31223167 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACTA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
31223232 TCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
66 TCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
31223297 GC
131 GC
* *
31223299 CCA-GGAGGATAGAATTAATGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCTACC
1 CCAGGGA-GATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACC
* *
31223363 ATCTTTGATCTGCTCTACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATATATTCCACTGT
65 ATCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGT
31223428 TGC
130 TGC
* * *
31223431 CCAGGGGGATAGAATTACTGGCTTCAATGTACTCTACTGTAACCTCAGGGAGGTAAAATCTACCA
1 CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
31223496 TC
66 TC
31223498 AACCTGCTCC
Statistics
Matches: 308, Mismatches: 19, Indels: 8
0.92 0.06 0.02
Matches are distributed among these distances:
131 3 0.01
132 299 0.97
133 6 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.30
Consensus pattern (132 bp):
CCAGGGAGATAGAATTACTGGCTTCAATGTACTCCACTGTAACCTCAGGGAGGTAAAATCCACCA
TCTTTGATCTGCTCCACTACTACTTAGGGAGATAAGATCTGTAATCTTCAATCTATTCCACTGTT
GC
Found at i:31224315 original size:13 final size:13
Alignment explanation
Indices: 31224297--31224321 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
31224287 AAATTGTCGA
31224297 GGATAACAAAGAT
1 GGATAACAAAGAT
31224310 GGATAACAAAGA
1 GGATAACAAAGA
31224322 AATTGATTTA
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:0.56, C:0.08, G:0.24, T:0.12
Consensus pattern (13 bp):
GGATAACAAAGAT
Found at i:31227611 original size:19 final size:20
Alignment explanation
Indices: 31227587--31227626 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 20
31227577 AACTGTGTTT
* *
31227587 AATGCATATG-ATGTAATGA
1 AATGCAAATGCATGAAATGA
31227606 AATGCAAATGCATGAAATGA
1 AATGCAAATGCATGAAATGA
31227626 A
1 A
31227627 TATGAAAAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 9 0.50
20 9 0.50
ACGTcount: A:0.47, C:0.07, G:0.20, T:0.25
Consensus pattern (20 bp):
AATGCAAATGCATGAAATGA
Found at i:31230545 original size:21 final size:20
Alignment explanation
Indices: 31230514--31230568 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 20
31230504 TTCTTTATTT
*
31230514 TAAATGAAAAATAAAAAAAA
1 TAAATAAAAAATAAAAAAAA
* *
31230534 TAAGATAAAAAAGAACAAAAA
1 TAA-ATAAAAAATAAAAAAAA
31230555 TAAATAAAACAATA
1 TAAATAAAA-AATA
31230569 GACACGATTC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 9 0.31
21 20 0.69
ACGTcount: A:0.76, C:0.04, G:0.05, T:0.15
Consensus pattern (20 bp):
TAAATAAAAAATAAAAAAAA
Found at i:31237542 original size:31 final size:31
Alignment explanation
Indices: 31237496--31237554 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
31237486 TTTTTTAAAA
*
31237496 ATTTTGTATGAATATTTTTGAAGTTTTGAATC
1 ATTTTGTATGAATATTTTT-AAATTTTGAATC
*
31237528 ATTTT-TATGTATATTTTTAAATTTTGA
1 ATTTTGTATGAATATTTTTAAATTTTGA
31237555 TAAAGTATAC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 8 0.32
31 12 0.48
32 5 0.20
ACGTcount: A:0.29, C:0.02, G:0.12, T:0.58
Consensus pattern (31 bp):
ATTTTGTATGAATATTTTTAAATTTTGAATC
Found at i:31237769 original size:9 final size:10
Alignment explanation
Indices: 31237757--31237781 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
31237747 ATTAAAATTC
31237757 AAAAAAATAA
1 AAAAAAATAA
31237767 AAAAAAATAA
1 AAAAAAATAA
31237777 AAAAA
1 AAAAA
31237782 TTGATTCAAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (10 bp):
AAAAAAATAA
Found at i:31238185 original size:11 final size:11
Alignment explanation
Indices: 31238169--31238195 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
31238159 GCATGAAAAC
31238169 AAAAAAAAATA
1 AAAAAAAAATA
31238180 AAAAAAAAATA
1 AAAAAAAAATA
31238191 AAAAA
1 AAAAA
31238196 TGGTGGAGGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.93, C:0.00, G:0.00, T:0.07
Consensus pattern (11 bp):
AAAAAAAAATA
Found at i:31238503 original size:3 final size:3
Alignment explanation
Indices: 31238481--31238522 Score: 61
Period size: 3 Copynumber: 14.3 Consensus size: 3
31238471 TACCATTTTT
31238481 GAA GAAA GAA -AA GAA G-A GAA GAA GAA GAA GAA GAA GAA GAA G
1 GAA G-AA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
31238523 GAGAGGGTGG
Statistics
Matches: 36, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
2 4 0.11
3 29 0.81
4 3 0.08
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (3 bp):
GAA
Found at i:31238605 original size:17 final size:19
Alignment explanation
Indices: 31238564--31238606 Score: 63
Period size: 17 Copynumber: 2.4 Consensus size: 19
31238554 AAGAAAAGAG
*
31238564 AAGGAGAATAGAGAGAGGG
1 AAGGAGAATAGAGAGAGGA
31238583 AAGGAGAA-AGAGA-AGGA
1 AAGGAGAATAGAGAGAGGA
31238600 AAGGAGA
1 AAGGAGA
31238607 GTTTGTTGTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 10 0.43
18 5 0.22
19 8 0.35
ACGTcount: A:0.53, C:0.00, G:0.44, T:0.02
Consensus pattern (19 bp):
AAGGAGAATAGAGAGAGGA
Found at i:31240593 original size:14 final size:14
Alignment explanation
Indices: 31240574--31240604 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
31240564 ACATTTTTTT
*
31240574 TTCTAATGATACTA
1 TTCTAACGATACTA
31240588 TTCTAACGATACTA
1 TTCTAACGATACTA
31240602 TTC
1 TTC
31240605 AAACATGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.32, C:0.19, G:0.06, T:0.42
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:31241505 original size:33 final size:33
Alignment explanation
Indices: 31241440--31241527 Score: 86
Period size: 33 Copynumber: 2.7 Consensus size: 33
31241430 TAGTCCAGTA
** *
31241440 CCACCGCGGTACAGCACTCCTCTAGGCCCATAT
1 CCACCGCAATACAACACTCCTCTAGGCCCATAT
* * ** * **
31241473 CCACTGCATTACTCCACTCCTCTTGGGTCATAT
1 CCACCGCAATACAACACTCCTCTAGGCCCATAT
31241506 CCACCGCAATACAACACTCCTC
1 CCACCGCAATACAACACTCCTC
31241528 CCGGCTCAAA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
33 43 1.00
ACGTcount: A:0.23, C:0.42, G:0.12, T:0.23
Consensus pattern (33 bp):
CCACCGCAATACAACACTCCTCTAGGCCCATAT
Found at i:31241961 original size:48 final size:48
Alignment explanation
Indices: 31241853--31241953 Score: 150
Period size: 48 Copynumber: 2.1 Consensus size: 48
31241843 ATTAATTGCA
* * *
31241853 AAATTACA-ACATTAAAACACTAAAACTTGGAACAAACTTTGTAATAT
1 AAATTAAATACATTAAAACACTAAAAATTGAAACAAACTTTGTAATAT
* *
31241900 AAATTAAATACATTACAACATTAAAAATTGAAACAAACTTTGTAATAT
1 AAATTAAATACATTAAAACACTAAAAATTGAAACAAACTTTGTAATAT
31241948 AAATTA
1 AAATTA
31241954 GGTACATTGG
Statistics
Matches: 48, Mismatches: 5, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
47 7 0.15
48 41 0.85
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (48 bp):
AAATTAAATACATTAAAACACTAAAAATTGAAACAAACTTTGTAATAT
Found at i:31245486 original size:33 final size:33
Alignment explanation
Indices: 31245442--31245700 Score: 190
Period size: 33 Copynumber: 7.5 Consensus size: 33
31245432 ATTGGTGGAT
31245442 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
* * *
31245475 TTAGCACTTAGCAACC-CTTTTCACATTTAAGATACGGTGGGA
1 TCAGCACTTAGCAACCAC----CA-A--TGAG-T-CGG-GGAA
* * *
31245517 TCAGCACTTAGCAACCACAAATGATTCGGGAAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
31245550 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
* * * *
31245583 TCAACACTTAGTAACCCCTTTCACATTTAAGATACGGTGGAA
1 TCAGCACTTAGCAACCAC---CA-A--TGAG-T-CGG-GGAA
*
31245625 TCAGCACTTAGCAACCACCAATGAATCGGGGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
*
31245658 TCAGCACTTAGCAACC-CC--T---TGGGGGAA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
31245685 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
31245701 CCCTTTATAT
Statistics
Matches: 184, Mismatches: 22, Indels: 46
0.73 0.09 0.18
Matches are distributed among these distances:
27 23 0.12
30 1 0.01
32 3 0.02
33 82 0.45
34 6 0.03
35 2 0.01
36 8 0.04
37 2 0.01
38 2 0.01
39 9 0.05
40 2 0.01
41 6 0.03
42 37 0.20
43 1 0.01
ACGTcount: A:0.33, C:0.26, G:0.20, T:0.21
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGAGTCGGGGAA
Found at i:31245591 original size:108 final size:108
Alignment explanation
Indices: 31245442--31245673 Score: 392
Period size: 108 Copynumber: 2.1 Consensus size: 108
31245432 ATTGGTGGAT
* * *
31245442 TCAGCACTTAGCAACCACCAATGAGTCGGGGAATTAGCACTTAGCAACCCTTTTCACATTTAAGA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGA
* *
31245507 TACGGTGGGATCAGCACTTAGCAACCACAAATGATTCGGGAAA
66 TACGGTGGAATCAGCACTTAGCAACCACAAATGAATCGGGAAA
*
31245550 TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGTAACCCCTTTCACATTTAAGA
1 TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGA
* *
31245615 TACGGTGGAATCAGCACTTAGCAACCACCAATGAATCGGGGAA
66 TACGGTGGAATCAGCACTTAGCAACCACAAATGAATCGGGAAA
31245658 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
31245674 CCTTGGGGGA
Statistics
Matches: 116, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
108 116 1.00
ACGTcount: A:0.34, C:0.26, G:0.19, T:0.21
Consensus pattern (108 bp):
TCAGCACTTAGCAACCACCAATGAGTCGGGGAATCAACACTTAGCAACCCCTTTCACATTTAAGA
TACGGTGGAATCAGCACTTAGCAACCACAAATGAATCGGGAAA
Found at i:31253192 original size:13 final size:13
Alignment explanation
Indices: 31253170--31253199 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
31253160 TTGAAAGCCT
*
31253170 AGAGAGAAGGGGG
1 AGAGAAAAGGGGG
31253183 AGAGAAAAGGGGG
1 AGAGAAAAGGGGG
31253196 AGAG
1 AGAG
31253200 TTTGATTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.43, C:0.00, G:0.57, T:0.00
Consensus pattern (13 bp):
AGAGAAAAGGGGG
Found at i:31265329 original size:108 final size:110
Alignment explanation
Indices: 31265148--31265359 Score: 304
Period size: 108 Copynumber: 1.9 Consensus size: 110
31265138 CATTTTGTAT
* *
31265148 CTTAGCAAAATTTACTATTTTGATTAATTTATTCATTTCGAGCTTTATTCTCAATAAAATTTCAT
1 CTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAATAAAATTTCAT
* *
31265213 CTTATCCATTGTGCTAATCCTTTT-AATC-TTTTTCATTCTGAAC
66 CTTATCCATTGTGATAATCCTTTTCAAGCATTTTTCATTCTGAAC
* * *
31265256 CTTAGCAAAATTTGCTATCTTGATTAATTTATTCATTTTGAGCCTTATTCTCAATTAAA-TTCTA
1 CTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAATAAAATTTC-A
* * *
31265320 TCTTGTCCATTTTGATAATCTTTTTCAAGCATTTTTCATT
65 TCTTATCCATTGTGATAATCCTTTTCAAGCATTTTTCATT
31265360 GAAATAACGA
Statistics
Matches: 91, Mismatches: 10, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
107 3 0.03
108 76 0.84
109 3 0.03
110 9 0.10
ACGTcount: A:0.27, C:0.17, G:0.07, T:0.49
Consensus pattern (110 bp):
CTTAGCAAAATTTACTATCTTGATTAATTTATTCATTTCGAGCCTTATTCTCAATAAAATTTCAT
CTTATCCATTGTGATAATCCTTTTCAAGCATTTTTCATTCTGAAC
Found at i:31265811 original size:24 final size:25
Alignment explanation
Indices: 31265776--31265827 Score: 72
Period size: 24 Copynumber: 2.1 Consensus size: 25
31265766 ATGTCCCAAA
31265776 ATTACAAGTGGACTT-AACCTTGAAG
1 ATTACAAGTGGA-TTAAACCTTGAAG
*
31265801 ATTAC-AGTGGATTAAACTTTGAAG
1 ATTACAAGTGGATTAAACCTTGAAG
31265825 ATT
1 ATT
31265828 GTAGTGGAGG
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
23 2 0.08
24 18 0.72
25 5 0.20
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (25 bp):
ATTACAAGTGGATTAAACCTTGAAG
Found at i:31266207 original size:44 final size:44
Alignment explanation
Indices: 31266150--31266838 Score: 741
Period size: 44 Copynumber: 15.7 Consensus size: 44
31266140 CCATATCAAG
* *
31266150 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG-CGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAG-A
* * * ** *****
31266194 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
31266237 TCCTATCTCCCTAAGCAGTAGTGGAGCA-AGTCGAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGA-TCGAAGATGGTAGA
* * *
31266281 TCCTATCTCCTTAAGCAGTAGTGGAGCAGGTCGAAAATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
* *
31266325 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
* *
31266369 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG-CGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAG-A
* * * ** *****
31266413 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
*
31266456 TCCTATCGCCCTAAGCAGTAGTGGAGCA-AGTCGAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGA-TCGAAGATGGTAGA
*
31266500 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
* *
31266544 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
* *
31266588 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGA-CG-ACGAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTA-G-A
* * * ** *****
31266632 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
* * *
31266675 TCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
* * *
31266719 TCCTATCTCCCTAAGCAGTAGTGGAGTAGGTCAAAGATGGTAGA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
**
31266763 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGT-GAA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAG-A
* * *
31266807 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATC
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATC
31266839 AGATGATCAG
Statistics
Matches: 544, Mismatches: 86, Indels: 30
0.82 0.13 0.05
Matches are distributed among these distances:
42 3 0.01
43 99 0.18
44 438 0.81
45 3 0.01
46 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (44 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGATGGTAGA
Found at i:31266529 original size:219 final size:219
Alignment explanation
Indices: 31266150--31266838 Score: 1202
Period size: 219 Copynumber: 3.1 Consensus size: 219
31266140 CCATATCAAG
31266150 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAG
31266215 TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGATGGTAG
66 TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGATGGTAG
*
31266280 ATCCTATCTCCTTAAGCAGTAGTGGAGCAGGTCGAAAATGGTAGATCCTATCTCCCTAAGCAGTA
131 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAAATGGTAGATCCTATCTCCCTAAGCAGTA
31266345 GTGGAGCAGGTCAAAGATGGTAGA
196 GTGGAGCAGGTCAAAGATGGTAGA
31266369 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAG
*
31266434 TGAAGCAGATTTAAGCCACCAGTCCTATCGCCCTAAGCAGTAGTGGAGCAAGTCGAAGATGGTAG
66 TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGATGGTAG
*
31266499 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTA
131 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAAATGGTAGATCCTATCTCCCTAAGCAGTA
31266564 GTGGAGCAGGTCAAAGATGGTAGA
196 GTGGAGCAGGTCAAAGATGGTAGA
* *
31266588 TCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGACGACGAATCTTATCTTCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAG
* * *
31266653 TGAAGCAGATTTAAGCCACCAGTCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGGTAG
66 TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGATGGTAG
*
31266718 ATCCTATCTCCCTAAGCAGTAGTGGAGTAGGTC-AAAGATGGTAGATCCTATCTCCCTAAGCAGT
131 ATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAA-ATGGTAGATCCTATCTCCCTAAGCAGT
* * **
31266782 AGTGGAGCAGATCGAAGACAGT-GAA
195 AGTGGAGCAGGTCAAAGATGGTAG-A
* * *
31266807 TCTTATCTTCCTAAGCAGTAGTGAAGCAGATC
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATC
31266839 AGATGATCAG
Statistics
Matches: 449, Mismatches: 19, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
218 3 0.01
219 446 0.99
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (219 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCCTAAGCAGTAG
TGAAGCAGATTTAAGCCACCAGTCCTATCTCCCTAAGCAGTAGTGGAGCAAGTCGAAGATGGTAG
ATCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAAATGGTAGATCCTATCTCCCTAAGCAGTA
GTGGAGCAGGTCAAAGATGGTAGA
Found at i:31266836 original size:175 final size:176
Alignment explanation
Indices: 31266150--31266838 Score: 797
Period size: 175 Copynumber: 3.9 Consensus size: 176
31266140 CCATATCAAG
* * * * *
31266150 TCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGG-CGAATCTTATCTTCCTAAGCAGTA
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAG-ATCCTATCTCCCTAAGCAGTA
* ** * *** *
31266214 GTGAAGCAGATTTAAGCCACCAG-TCCTATCTCCCTAAGCAGTAGTGGAGCA-AGTCGAAGA-TG
65 GTGGAGCAGATCAAAGACGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGA-TCGAAGACAG
* * *
31266276 -GTAGATCCTATC-TCCTTAAGCAGTAGTGGAGCAGGTCGAAAATGGTAGA
129 CG-A-ATCCTATCTTCC-TAAGCAGTAGTGAAGCAGATCGAAGATGGTAGA
*
31266325 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
* * * * * ** *
31266390 TGGAGCAGATCGAAGACGG-CGAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCA-C
66 TGGAGCAGATCAAAGACGGTAG-ATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGC
* * ** *
31266453 CAGTCCTATCGCCCTAAGCAGTAGTGGAGCA-AGTCGAAGATGGTAGA
130 GAATCCTATCTTCCTAAGCAGTAGTGAAGCAGA-TCGAAGATGGTAGA
31266500 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
* * *
31266565 TGGAGCAGGTCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGTAGATCGAAGAC-GAC
66 TGGAGCAGATCAAAGACGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAG-C
* ** *****
31266629 GAATCTTATCTTCCTAAGCAGTAGTGAAGCAGATTTAAGCCACCAG-
130 GAATCCTATCTTCCTAAGCAGTAGTGAAGCAGATCGAAGATGGTAGA
* *
31266675 TCTTATCTCCCTAAGCAGTAGTGGAGCAGGTTGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
1 TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
* * * *
31266740 TGGAGTAGGTCAAAGATGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGTG
66 TGGAGCAGATCAAAGACGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCG
*
31266805 AATCTTATCTTCCTAAGCAGTAGTGAAGCAGATC
131 AATCCTATCTTCCTAAGCAGTAGTGAAGCAGATC
31266839 AGATGATCAG
Statistics
Matches: 445, Mismatches: 56, Indels: 26
0.84 0.11 0.05
Matches are distributed among these distances:
174 1 0.00
175 375 0.84
176 67 0.15
177 2 0.00
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.24
Consensus pattern (176 bp):
TCCTATCTCCCTAAGCAGTAGTGGAGCAGGTCGAAGATGGTAGATCCTATCTCCCTAAGCAGTAG
TGGAGCAGATCAAAGACGGTAGATCCTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACAGCG
AATCCTATCTTCCTAAGCAGTAGTGAAGCAGATCGAAGATGGTAGA
Found at i:31267921 original size:43 final size:43
Alignment explanation
Indices: 31267820--31268042 Score: 236
Period size: 43 Copynumber: 5.2 Consensus size: 43
31267810 GTGGACAAAT
* * * *
31267820 GCCGCTATAGAACATGATCTTTAGCGGCGCTTTT-CCGAAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCACTTTTCCCTAAAAC
* * * *
31267862 GCCGTTAAAGAGCATGATCTTTAGCGGCACTTTTCCCTCAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCACTTTTCCCTAAAAC
* **
31267905 GCCGCTAAAGAACATGACCTTTAGTGGTGC--TTCCCTAAAGAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCACTTTTCCCTAAA-AC
* *
31267947 GCCGCTAAAGAACATAACCTTTAGCGGCACTTTCCCCTAAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCACTTTTCCCTAAAAC
* * * ** * *
31267990 GCCGTTAAAAAACATGACTTTTAGCAACACTTTTCCCAAAAAT
1 GCCGCTAAAGAACATGACCTTTAGCGGCACTTTTCCCTAAAAC
31268033 GCCGCTAAAG
1 GCCGCTAAAG
31268043 GTCATGAAAA
Statistics
Matches: 148, Mismatches: 29, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
41 8 0.05
42 58 0.39
43 74 0.50
44 8 0.05
ACGTcount: A:0.30, C:0.27, G:0.17, T:0.25
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCACTTTTCCCTAAAAC
Found at i:31267969 original size:85 final size:85
Alignment explanation
Indices: 31267815--31268042 Score: 242
Period size: 85 Copynumber: 2.7 Consensus size: 85
31267805 TTTATGTGGA
* * * * * * * *
31267815 CAAATGCCGCTATAGAACATGATCTTTAGCGGCGCTTTTCCGAAAACGCCGTTAAAGAGCATGAT
1 CAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCGAAAACGCCGCTAAAGAACATAAC
*
31267880 CTTTAGCGGCACTTTTCCCT
66 CTTTAGCGGCACTTTCCCCT
* * *
31267900 CAAACGCCGCTAAAGAACATGACCTTTAGTGGTGC-TTCCCTAAAGACGCCGCTAAAGAACATAA
1 CAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCGAAA-ACGCCGCTAAAGAACATAA
31267964 CCTTTAGCGGCACTTTCCCCT
65 CCTTTAGCGGCACTTTCCCCT
* * * * ** * * *
31267985 AAAACGCCGTTAAAAAACATGACTTTTAGCAACACTTTTCCCAAAAATGCCGCTAAAG
1 CAAACGCCGCTAAAGAACATGACCTTTAGCGGCGC-TTTCCCGAAAACGCCGCTAAAG
31268043 GTCATGAAAA
Statistics
Matches: 117, Mismatches: 23, Indels: 5
0.81 0.16 0.03
Matches are distributed among these distances:
84 7 0.06
85 91 0.78
86 11 0.09
87 8 0.07
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (85 bp):
CAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTCCCGAAAACGCCGCTAAAGAACATAAC
CTTTAGCGGCACTTTCCCCT
Found at i:31273666 original size:13 final size:13
Alignment explanation
Indices: 31273648--31273673 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
31273638 GTTATTATGA
31273648 TTGATTAAAAAAC
1 TTGATTAAAAAAC
31273661 TTGATTAAAAAAC
1 TTGATTAAAAAAC
31273674 AAGTATTTGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
TTGATTAAAAAAC
Found at i:31273769 original size:54 final size:54
Alignment explanation
Indices: 31273711--31274058 Score: 195
Period size: 54 Copynumber: 6.0 Consensus size: 54
31273701 ATTCAAGGAA
* * * *
31273711 TAAATTATATATTATT-ATTAAATTATATTTAATAATAATTATTTTAAATTTTAT
1 TAAATCATATATT-TTAATTAAAATATATTTAATAATAATTATTTCAAATTATAT
*
31273765 TAAATCATATATTTTAATTAAAATATATTTAATATTAATTATTTCAAATTATATTT
1 TAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATA--T
* * * * * *
31273821 TATAGTATCATATATTATGATTTTAGTAAAT-TCATATAAGAAT-ATTGATTATTAAGAATTTTA
1 TA-A--ATCATATATT-TTA-ATTA--AAATAT-ATTTAATAATAATT-A-T-TTCA-AATTATA
31273884 T
54 T
* *
31273885 TAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATCTTT
1 TAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTA--TAT
* * ** * * *
31273941 TATATATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TTAAGAATTTTAT
1 TA-A-ATCATATATT-TTAATT-A--AAA-T-ATAT-TTAATAATAATTATTTCA-AATTATAT
* *
31274004 TAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTATAT
1 TAAATCATATATTTTAATTAAAATATATTTAATAATAATTAT-TTCAAATTATAT
31274058 T
1 T
31274059 TTATAGTATC
Statistics
Matches: 226, Mismatches: 36, Indels: 64
0.69 0.11 0.20
Matches are distributed among these distances:
53 2 0.01
54 67 0.30
55 6 0.03
56 13 0.06
57 17 0.08
58 13 0.06
59 18 0.08
60 9 0.04
61 21 0.09
62 8 0.04
63 20 0.09
64 9 0.04
65 17 0.08
66 6 0.03
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.51
Consensus pattern (54 bp):
TAAATCATATATTTTAATTAAAATATATTTAATAATAATTATTTCAAATTATAT
Found at i:31273906 original size:18 final size:17
Alignment explanation
Indices: 31273878--31273912 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
31273868 ATTATTAAGA
*
31273878 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
31273895 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
31273913 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:31274008 original size:119 final size:120
Alignment explanation
Indices: 31273757--31274173 Score: 730
Period size: 120 Copynumber: 3.5 Consensus size: 120
31273747 AATTATTTTA
* *
31273757 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTT-AAATTATATTT
*
31273821 TATAGTATCATATATTATGATTTTAGTAAATTCATATAAGAATATTGATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
31273877 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATCTTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
31273942 ATA-TATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
31273996 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTATATTTT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
*
31274061 ATAGTATCATATATTATGCTTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
*
31274116 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGATTAAAT
1 AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATG-TTAAAT
31274174 ATGATTAAAT
Statistics
Matches: 285, Mismatches: 9, Indels: 5
0.95 0.03 0.02
Matches are distributed among these distances:
119 115 0.40
120 162 0.57
121 8 0.03
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.49
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTAAATTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
Found at i:31274031 original size:16 final size:16
Alignment explanation
Indices: 31274010--31274056 Score: 53
Period size: 16 Copynumber: 3.0 Consensus size: 16
31274000 TTATTAAATT
31274010 ATATATTTTAATTATA
1 ATATATTTTAATTATA
*
31274026 ATATA-TTTAATAATA
1 ATATATTTTAATTATA
*
31274041 AT-TATGTTAAATTATA
1 ATATAT-TTTAATTATA
31274057 TTTTATAGTA
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.08
15 11 0.42
16 13 0.50
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.51
Consensus pattern (16 bp):
ATATATTTTAATTATA
Found at i:31274134 original size:61 final size:61
Alignment explanation
Indices: 31273949--31274136 Score: 183
Period size: 61 Copynumber: 3.1 Consensus size: 61
31273939 TTTATATATC
*
31273949 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
* * * * * * * *
31274010 ATATATTTTAATTAT-AATATATTTA-ATAATAAT-TATG-TTAAATT-A-TATTTTA-TAGTAT
1 ATATATTATGATT-TGAGTAAATTCATATAAGAATAT-TGATT--ATTAAGAATTTTATTA-AAT
*
31274068 C
61 T
*
31274069 ATATATTATGCTTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
31274130 ATATATT
1 ATATATT
31274137 TTAATTATAA
Statistics
Matches: 95, Mismatches: 20, Indels: 24
0.68 0.14 0.17
Matches are distributed among these distances:
58 3 0.03
59 31 0.33
60 19 0.20
61 39 0.41
62 3 0.03
ACGTcount: A:0.43, C:0.02, G:0.07, T:0.48
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
Found at i:31274156 original size:15 final size:15
Alignment explanation
Indices: 31274121--31274162 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
31274111 TTAAGAATTT
*
31274121 TATTAAATTAT-ATA
1 TATTTAATTATAATA
31274135 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
31274149 TATTTAATAATAAT
1 TATTTAATTATAAT
31274163 TATGATTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:31274422 original size:16 final size:16
Alignment explanation
Indices: 31274379--31274425 Score: 67
Period size: 16 Copynumber: 2.9 Consensus size: 16
31274369 TTAATTTGCT
31274379 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
* *
31274395 ATTACGCTTCTATTCC
1 ATTACACCTCTATTCC
*
31274411 ATTATACCTCTATTC
1 ATTACACCTCTATTC
31274426 AAATACAGCG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
16 26 1.00
ACGTcount: A:0.23, C:0.32, G:0.02, T:0.43
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:31278075 original size:20 final size:21
Alignment explanation
Indices: 31278043--31278081 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 21
31278033 TGTGGAATGA
31278043 TTTTAGTTTTTAT-ATTTTAT
1 TTTTAGTTTTTATAATTTTAT
31278063 TTTTA-TTTGTTATAATTTT
1 TTTTAGTTT-TTATAATTTT
31278082 TTTAAATCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 3 0.18
20 9 0.53
21 5 0.29
ACGTcount: A:0.21, C:0.00, G:0.05, T:0.74
Consensus pattern (21 bp):
TTTTAGTTTTTATAATTTTAT
Found at i:31278643 original size:114 final size:115
Alignment explanation
Indices: 31278493--31278732 Score: 324
Period size: 114 Copynumber: 2.1 Consensus size: 115
31278483 GCTTTTTTCG
* *
31278493 GCGTTTTTCAAAAAGAACCGCTAATGCCACTAAAGCTCAACATAGAA-CACAGCGTTGTGTTTAA
1 GCGTTTTTCAAAAAGAACCGCTAATGCCACTAAAGCTCAACATAAAATCACAGCGTTGTGCTTAA
* *
31278557 T-TTTTT-TGCGGCATTTTTCAAAAAGCGTCGCTAATGCTCGATCTATAGCA
66 TCTTTTTAGGCGGCATTTTTCAAAAAGC--CGCTAATGCTCAATCTATAGCA
** * * * * *
31278607 GCGTTTTTCAAAAAGCGCTGCTAATGCTACTGAAGCTCAACATAAAATGACGGCGTTGTGCTTAA
1 GCGTTTTTCAAAAAGAACCGCTAATGCCACTAAAGCTCAACATAAAATCACAGCGTTGTGCTTAA
*
31278672 TCTTTTTACGGCGGCATTTTTCAAAAAGCCGCTAATGCTCAATCTATAGCG
66 TCTTTTTA-GGCGGCATTTTTCAAAAAGCCGCTAATGCTCAATCTATAGCA
31278723 GCGTTTTTCA
1 GCGTTTTTCA
31278733 TCCAAACGCT
Statistics
Matches: 110, Mismatches: 12, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
114 41 0.37
115 15 0.14
116 35 0.32
118 19 0.17
ACGTcount: A:0.29, C:0.21, G:0.19, T:0.31
Consensus pattern (115 bp):
GCGTTTTTCAAAAAGAACCGCTAATGCCACTAAAGCTCAACATAAAATCACAGCGTTGTGCTTAA
TCTTTTTAGGCGGCATTTTTCAAAAAGCCGCTAATGCTCAATCTATAGCA
Found at i:31283905 original size:29 final size:30
Alignment explanation
Indices: 31283855--31283927 Score: 80
Period size: 28 Copynumber: 2.5 Consensus size: 30
31283845 GACAAAATAA
* * *
31283855 AAATGAATAAAAA-CTACATGAATG-CATG
1 AAATAAATAAAAATCAAAATGAATGACATG
31283883 AAATAAATAAAAATCAAAATGAATGACCATG
1 AAATAAATAAAAATCAAAATGAATGA-CATG
*
31283914 AAA-ATATAAAAATC
1 AAATAAATAAAAATC
31283928 CAAGCTTGGA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
28 12 0.32
29 9 0.24
30 10 0.26
31 7 0.18
ACGTcount: A:0.60, C:0.10, G:0.10, T:0.21
Consensus pattern (30 bp):
AAATAAATAAAAATCAAAATGAATGACATG
Found at i:31286311 original size:14 final size:14
Alignment explanation
Indices: 31286292--31286318 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
31286282 TGCGATAAGC
31286292 CCACAAGGCTTCAT
1 CCACAAGGCTTCAT
31286306 CCACAAGGCTTCA
1 CCACAAGGCTTCA
31286319 CCCGACGACC
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:0.30, C:0.37, G:0.15, T:0.19
Consensus pattern (14 bp):
CCACAAGGCTTCAT
Found at i:31291484 original size:18 final size:18
Alignment explanation
Indices: 31291461--31291500 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
31291451 AGTCCCCAAA
* *
31291461 TTATTTTTTTATTTTTTT
1 TTATTTTTCTATCTTTTT
*
31291479 TTATTTTTCTCTCTTTTT
1 TTATTTTTCTATCTTTTT
31291497 TTAT
1 TTAT
31291501 GCTTTAGGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.10, C:0.07, G:0.00, T:0.82
Consensus pattern (18 bp):
TTATTTTTCTATCTTTTT
Found at i:31292554 original size:18 final size:18
Alignment explanation
Indices: 31292514--31292569 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
31292504 CCAAATAAGT
31292514 AAAATAA-AAT-AAAAT-
1 AAAATAATAATAAAAATA
* *
31292529 AAAGTAATAA-ACAAAGTA
1 AAAATAATAATA-AAAATA
31292547 AAAATAATAATAAAAATA
1 AAAATAATAATAAAAATA
31292565 AAAAT
1 AAAAT
31292570 TGAGTTGCCT
Statistics
Matches: 32, Mismatches: 4, Indels: 7
0.74 0.09 0.16
Matches are distributed among these distances:
15 6 0.19
16 2 0.06
17 4 0.12
18 19 0.59
19 1 0.03
ACGTcount: A:0.75, C:0.02, G:0.04, T:0.20
Consensus pattern (18 bp):
AAAATAATAATAAAAATA
Found at i:31307740 original size:43 final size:43
Alignment explanation
Indices: 31307626--31307876 Score: 233
Period size: 43 Copynumber: 5.9 Consensus size: 43
31307616 TTTTAGAAAT
* * * * *
31307626 AAACGCCGCTAAAAGTCATGAACTTTACCGGCGCTTATCCCAC
1 AAACGCCGCTATAGGTCATGAATTTTAGCGGCGCTTTTCCCAC
* * *
31307669 AAACGCCGCTAATA--TCATGACTTTTAGCGGTGCTTTTTCCAC
1 AAACGCCGCT-ATAGGTCATGAATTTTAGCGGCGCTTTTCCCAC
* *
31307711 AAATGCCGCTATAGGTCATGAATTTTAGCGGCGCTTTCCCCAC
1 AAACGCCGCTATAGGTCATGAATTTTAGCGGCGCTTTTCCCAC
* * *
31307754 AAACGCCGCTATAGGTCATCATTTTTAGCGGTGCTTTTCCCAC
1 AAACGCCGCTATAGGTCATGAATTTTAGCGGCGCTTTTCCCAC
*** * **
31307797 AAACGCCGCTATAAAACA-G-ATCTTTAGCGGTGCTTTTTCATAC
1 AAACGCCGCTATAGGTCATGAAT-TTTAGCGGCGC-TTTTCCCAC
** **
31307840 AAACGCCGCTATAGAAC-TGACCTTTAGCGGCGCTTTT
1 AAACGCCGCTATAGGTCATGAATTTTAGCGGCGCTTTT
31307877 TACACAAATG
Statistics
Matches: 173, Mismatches: 28, Indels: 15
0.80 0.13 0.07
Matches are distributed among these distances:
41 4 0.02
42 46 0.27
43 121 0.70
44 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.18, T:0.29
Consensus pattern (43 bp):
AAACGCCGCTATAGGTCATGAATTTTAGCGGCGCTTTTCCCAC
Found at i:31307792 original size:85 final size:86
Alignment explanation
Indices: 31307626--31307810 Score: 252
Period size: 85 Copynumber: 2.2 Consensus size: 86
31307616 TTTTAGAAAT
* *
31307626 AAACGCCGCTAAAAGTCATGAACTTTACCGGCGCTTATCCCACAAACGCCGCTAATATCATGACT
1 AAACGCCGCTATAAGTCATGAACTTTACCGGCGCTTATCCCACAAACGCCGCTAATATCATCACT
31307691 TTTAGCGGTGCTTTTT-CCAC
66 TTTAGCGGTGCTTTTTCCCAC
* * * *
31307711 AAATGCCGCTATAGGTCATGAATTTTAGCGGCGCTT-TCCCCACAAACGCCGCT-ATAGGTCATC
1 AAACGCCGCTATAAGTCATGAACTTTACCGGCGCTTAT-CCCACAAACGCCGCTAATA--TCATC
*
31307774 ATTTTTAGCGGTGC-TTTTCCCAC
63 ACTTTTAGCGGTGCTTTTTCCCAC
31307797 AAACGCCGCTATAA
1 AAACGCCGCTATAA
31307811 AACAGATCTT
Statistics
Matches: 87, Mismatches: 9, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
84 4 0.05
85 50 0.57
86 33 0.38
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.28
Consensus pattern (86 bp):
AAACGCCGCTATAAGTCATGAACTTTACCGGCGCTTATCCCACAAACGCCGCTAATATCATCACT
TTTAGCGGTGCTTTTTCCCAC
Found at i:31307866 original size:128 final size:128
Alignment explanation
Indices: 31307626--31307875 Score: 308
Period size: 128 Copynumber: 2.0 Consensus size: 128
31307616 TTTTAGAAAT
* * *
31307626 AAACGCCGCTAAAAGTCATGAACTTTACCGGCGCTTATCCCACAAACGCCGCTAATATCATGACT
1 AAACGCCGCTAAAAGTCATCAACTTTACCGGCGCTTATCCCACAAACGCCGCTAAAAACATGACT
* ** *
31307691 TTTAGCGGTGCTTTTTCCACAAATGCCGCTATAGGTCATGAATTTTAGCGGCGCTTTCCCCAC
66 TTTAGCGGTGCTTTTTCCACAAACGCCGCTATAGAACATGAACTTTAGCGGCGCTTTCCCCAC
* * ** * * *
31307754 AAACGCCGCTATAGGTCATCATTTTTAGCGGTGCTTTTCCCACAAACGCCGCTATAAAACA-GA-
1 AAACGCCGCTAAAAGTCATCAACTTTACCGGCGCTTATCCCACAAACGCCGCTA-AAAACATGAC
* *
31307817 TCTTTAGCGGTGCTTTTTCATACAAACGCCGCTATAGAAC-TGACCTTTAGCGGCGCTTT
65 T-TTTAGCGGTGCTTTTTC-CACAAACGCCGCTATAGAACATGAACTTTAGCGGCGCTTT
31307876 TTACACAAAT
Statistics
Matches: 103, Mismatches: 16, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
127 1 0.01
128 82 0.80
129 20 0.19
ACGTcount: A:0.26, C:0.28, G:0.18, T:0.28
Consensus pattern (128 bp):
AAACGCCGCTAAAAGTCATCAACTTTACCGGCGCTTATCCCACAAACGCCGCTAAAAACATGACT
TTTAGCGGTGCTTTTTCCACAAACGCCGCTATAGAACATGAACTTTAGCGGCGCTTTCCCCAC
Found at i:31308233 original size:43 final size:43
Alignment explanation
Indices: 31308161--31308251 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
31308151 ACATATGCAA
* * * * * *
31308161 GGTAATAAAACATACAATGCATTTTCTTAATCAAGTAAATCTT
1 GGTAATAAAAAATACAATACATGTACTTAATAAAGGAAATCTT
*
31308204 GGTAATAAAAAATATAATACATGTACTTAATAAAGGAAATCTT
1 GGTAATAAAAAATACAATACATGTACTTAATAAAGGAAATCTT
31308247 -GTAAT
1 GGTAAT
31308252 GAACTCAAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.46, C:0.10, G:0.11, T:0.33
Consensus pattern (43 bp):
GGTAATAAAAAATACAATACATGTACTTAATAAAGGAAATCTT
Found at i:31312028 original size:22 final size:23
Alignment explanation
Indices: 31311981--31312029 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
31311971 CCATTAAACT
31311981 ATAAA-CCATAAATCATAATCGC
1 ATAAACCCATAAATCATAATCGC
31312003 -TAAACCCAT-AATCCATAATC-C
1 ATAAACCCATAAAT-CATAATCGC
31312024 ATAAAC
1 ATAAAC
31312030 TTTAAGATAG
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (23 bp):
ATAAACCCATAAATCATAATCGC
Found at i:31312059 original size:7 final size:7
Alignment explanation
Indices: 31312045--31312093 Score: 62
Period size: 7 Copynumber: 7.0 Consensus size: 7
31312035 GATAGTAACT
31312045 CCTAAAC
1 CCTAAAC
*
31312052 CTTAAAC
1 CCTAAAC
31312059 CCTAAAC
1 CCTAAAC
* *
31312066 CATATAC
1 CCTAAAC
31312073 CCTAAAC
1 CCTAAAC
*
31312080 CATAAAC
1 CCTAAAC
31312087 CCTAAAC
1 CCTAAAC
31312094 TATAATGATA
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
7 34 1.00
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (7 bp):
CCTAAAC
Found at i:31312062 original size:14 final size:14
Alignment explanation
Indices: 31312045--31312098 Score: 81
Period size: 14 Copynumber: 3.9 Consensus size: 14
31312035 GATAGTAACT
*
31312045 CCTAAACCTTAAAC
1 CCTAAACCATAAAC
*
31312059 CCTAAACCATATAC
1 CCTAAACCATAAAC
31312073 CCTAAACCATAAAC
1 CCTAAACCATAAAC
*
31312087 CCTAAACTATAA
1 CCTAAACCATAA
31312099 TGATAATTAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 36 1.00
ACGTcount: A:0.46, C:0.33, G:0.00, T:0.20
Consensus pattern (14 bp):
CCTAAACCATAAAC
Found at i:31312178 original size:8 final size:7
Alignment explanation
Indices: 31312143--31312186 Score: 56
Period size: 7 Copynumber: 6.3 Consensus size: 7
31312133 ACTAGTTAAT
31312143 CTAAACC
1 CTAAACC
31312150 CTAAA--
1 CTAAACC
31312155 CTATAACC
1 CTA-AACC
31312163 CTAAACC
1 CTAAACC
31312170 CTAAAACC
1 CT-AAACC
31312178 CTAAACC
1 CTAAACC
31312185 CT
1 CT
31312187 TAACACATAA
Statistics
Matches: 33, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
5 3 0.09
6 2 0.06
7 18 0.55
8 10 0.30
ACGTcount: A:0.43, C:0.39, G:0.00, T:0.18
Consensus pattern (7 bp):
CTAAACC
Found at i:31312179 original size:15 final size:15
Alignment explanation
Indices: 31312145--31312186 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
31312135 TAGTTAATCT
31312145 AAACCCTAAA--CTA
1 AAACCCTAAACCCTA
*
31312158 TAACCCTAAACCCTA
1 AAACCCTAAACCCTA
31312173 AAACCCTAAACCCT
1 AAACCCTAAACCCT
31312187 TAACACATAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 9 0.36
15 16 0.64
ACGTcount: A:0.45, C:0.38, G:0.00, T:0.17
Consensus pattern (15 bp):
AAACCCTAAACCCTA
Found at i:31312232 original size:7 final size:7
Alignment explanation
Indices: 31312222--31312332 Score: 64
Period size: 7 Copynumber: 15.7 Consensus size: 7
31312212 CCACAGCCTT
*
31312222 TAAATCA
1 TAAACCA
31312229 TAAACCA
1 TAAACCA
31312236 TAAACCA
1 TAAACCA
31312243 TAAACCA
1 TAAACCA
**
31312250 TAGCCCA
1 TAAACCA
*
31312257 TAATCCA
1 TAAACCA
*
31312264 TAAACCT
1 TAAACCA
***
31312271 TAAAATGG
1 T-AAACCA
31312279 TAACACC-
1 TAA-ACCA
*
31312286 TAAACCT
1 TAAACCA
31312293 TAAACTC-
1 TAAAC-CA
31312300 TAAACCA
1 TAAACCA
* *
31312307 TATACCC
1 TAAACCA
31312314 TAAACCA
1 TAAACCA
* *
31312321 AAAACCC
1 TAAACCA
31312328 TAAAC
1 TAAAC
31312333 TATAGTGATA
Statistics
Matches: 80, Mismatches: 19, Indels: 10
0.73 0.17 0.09
Matches are distributed among these distances:
6 4 0.05
7 70 0.88
8 6 0.08
ACGTcount: A:0.49, C:0.29, G:0.03, T:0.20
Consensus pattern (7 bp):
TAAACCA
Found at i:31312613 original size:40 final size:40
Alignment explanation
Indices: 31312563--31312657 Score: 163
Period size: 40 Copynumber: 2.4 Consensus size: 40
31312553 TTAAATATTC
*
31312563 AATTAAAAATAAATTGAATTTTAATTAATATAAATAAATA
1 AATTAAAAATAAATTGAATTTTAACTAATATAAATAAATA
*
31312603 AATTAAAAATAAATTGAATTTTAACTAATATAAATAAATC
1 AATTAAAAATAAATTGAATTTTAACTAATATAAATAAATA
31312643 AATTAAATAATAAAT
1 AATTAAA-AATAAAT
31312658 AGACAAACAA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
40 45 0.87
41 7 0.13
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (40 bp):
AATTAAAAATAAATTGAATTTTAACTAATATAAATAAATA
Found at i:31312858 original size:40 final size:40
Alignment explanation
Indices: 31312809--31312920 Score: 136
Period size: 39 Copynumber: 2.8 Consensus size: 40
31312799 TCCTAGAAGA
* *
31312809 CGCCACTAATGCTCTATTTTTAGCAGCGTTTTTAAAAAAG
1 CGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTAAAAAAG
* *** *
31312849 CGCCGCTAATGCTCTA-TTTTAGCGGCATTTTCCTAAGAG
1 CGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTAAAAAAG
* *
31312888 CGCCGCTAATGCTCGATTTATAGCGGCGTTTTT
1 CGCCGCTAATGCTCTATTTTTAGCGGCGTTTTT
31312921 TATCCAAACG
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
39 32 0.53
40 28 0.47
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (40 bp):
CGCCGCTAATGCTCTATTTTTAGCGGCGTTTTTAAAAAAG
Found at i:31314965 original size:86 final size:86
Alignment explanation
Indices: 31314860--31315041 Score: 269
Period size: 86 Copynumber: 2.1 Consensus size: 86
31314850 TTATACAAAT
*
31314860 AAACGCCGC-AAAGACCATGTTCTTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAAACCATGTT
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAAACCATGTT
*
31314924 CTTTAGCGGCGCTT-TTCTCAC
66 CTTTAGCGGCGCTTCCT-TCAC
* * ***
31314945 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTCCCACAAACGCCGCTAAAGGTCATGTT
1 AAACGCCGCTAAAGAACATGTTCTTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAAACCATGTT
31315010 CTTTAGCGGCGCTTCCTTCAC
66 CTTTAGCGGCGCTTCCTTCAC
*
31315031 AAACGCTGCTA
1 AAACGCCGCTA
31315042 TTGTTGATGA
Statistics
Matches: 87, Mismatches: 8, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
85 9 0.10
86 77 0.89
87 1 0.01
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (86 bp):
AAACGCCGCTAAAGAACATGTTCTTTAGCGACGCTTTTCCCAAAAACGCCGCTAAAAACCATGTT
CTTTAGCGGCGCTTCCTTCAC
Found at i:31315032 original size:43 final size:42
Alignment explanation
Indices: 31314860--31315041 Score: 242
Period size: 43 Copynumber: 4.3 Consensus size: 42
31314850 TTATACAAAT
* *
31314860 AAACGCCGC-AAAGACCATGTTCTTTAGCGACGCTTTTCCCAA
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTT-CCAC
*
31314902 AAACGCCGCTAAAAACCATGTTCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTC-CAC
*
31314945 AAACGCCGCTAAAGAACATGTTCTTTAGCGGCGCTTTTCCCAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTT-CCAC
**
31314988 AAACGCCGCTAAAGGTCATGTTCTTTAGCGGCGCTTCCTT-CAC
1 AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTT--TTCCAC
*
31315031 AAACGCTGCTA
1 AAACGCCGCTA
31315042 TTGTTGATGA
Statistics
Matches: 127, Mismatches: 8, Indels: 9
0.88 0.06 0.06
Matches are distributed among these distances:
42 10 0.08
43 114 0.90
44 1 0.01
45 2 0.02
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (42 bp):
AAACGCCGCTAAAGACCATGTTCTTTAGCGGCGCTTTTCCAC
Found at i:31317610 original size:21 final size:21
Alignment explanation
Indices: 31317585--31317655 Score: 115
Period size: 21 Copynumber: 3.4 Consensus size: 21
31317575 TTCTGCTCTG
*
31317585 CTCTGCTTCCCTCGCTGCTGC
1 CTCTGCTTCCCTCGCTGCCGC
*
31317606 CTCTGCTTCCCTCGCTGCCAC
1 CTCTGCTTCCCTCGCTGCCGC
*
31317627 CTCTTCTTCCCTCGCTGCCGC
1 CTCTGCTTCCCTCGCTGCCGC
31317648 CTCTGCTT
1 CTCTGCTT
31317656 TAAGTTCTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 45 1.00
ACGTcount: A:0.01, C:0.49, G:0.15, T:0.34
Consensus pattern (21 bp):
CTCTGCTTCCCTCGCTGCCGC
Found at i:31319444 original size:25 final size:25
Alignment explanation
Indices: 31319413--31319570 Score: 130
Period size: 25 Copynumber: 6.3 Consensus size: 25
31319403 TGATATATAT
* *
31319413 TTATGTATTAGGTAAATTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
*
31319438 TTATGTATTATATAAGTTATGTAAG
1 TTATGTATTATGTAAGTTATGTAAG
* *
31319463 TTATGTATTATGTAAGCTATGTAAC
1 TTATGTATTATGTAAGTTATGTAAG
* * *
31319488 TTATTTAAGTTACGTAAGTTGTGT-A-
1 TTATGT-A-TTATGTAAGTTATGTAAG
*
31319513 TTATGTTAGTTATGT-A-CTATGTAAG
1 TTATG-TA-TTATGTAAGTTATGTAAG
*
31319538 TTATGTGTATTATGT-A-TTATGTATG
1 TTA--TGTATTATGTAAGTTATGTAAG
31319563 TTATGTAT
1 TTATGTAT
31319571 AATATTAATT
Statistics
Matches: 110, Mismatches: 16, Indels: 16
0.77 0.11 0.11
Matches are distributed among these distances:
23 9 0.08
24 2 0.02
25 80 0.73
26 5 0.05
27 14 0.13
ACGTcount: A:0.30, C:0.03, G:0.18, T:0.49
Consensus pattern (25 bp):
TTATGTATTATGTAAGTTATGTAAG
Done.