Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 32 of 297
Found at i:11010251 original size:75 final size:75
Alignment explanation
Indices: 11010019--11010230 Score: 271
Period size: 75 Copynumber: 2.8 Consensus size: 75
11010009 ACAACTATCG
* * * *
11010019 GTTAATCCGACTAACATTGGGTGGAAATATTGTTGGTTTATCCAACTAGAGCTAGGCTCACAATT
1 GTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACAATT
**
11010084 ATTATTTTCA
66 ATTATCATCA
* * * * * *
11010094 ATTAATCCGAGTAGCACTGGGTTCATATATTATTGGTTTATCCAACTAGAGTTGGGCTCACAATT
1 GTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACAATT
11010159 ATTATCATCA
66 ATTATCATCA
* * * * *
11010169 GTTAATCCGACTAGCACTGGGTGCAAAAATTGTAGGATTATCTAACTAGAGCTGGGTTCACA
1 GTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACA
11010231 TTCGTTACCG
Statistics
Matches: 114, Mismatches: 23, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
75 114 1.00
ACGTcount: A:0.30, C:0.17, G:0.20, T:0.33
Consensus pattern (75 bp):
GTTAATCCGACTAGCACTGGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTGGGCTCACAATT
ATTATCATCA
Found at i:11015400 original size:15 final size:15
Alignment explanation
Indices: 11015382--11015438 Score: 53
Period size: 15 Copynumber: 3.8 Consensus size: 15
11015372 AAAATAAAGA
11015382 AATCCAAGATAGAGG
1 AATCCAAGATAGAGG
* *
11015397 AATCCTAGATA-AAG
1 AATCCAAGATAGAGG
* * *
11015411 ATATCCAAGGTACAGA
1 A-ATCCAAGATAGAGG
11015427 AATCCAAGATAG
1 AATCCAAGATAG
11015439 CATATCATAA
Statistics
Matches: 32, Mismatches: 8, Indels: 4
0.73 0.18 0.09
Matches are distributed among these distances:
14 3 0.09
15 27 0.84
16 2 0.06
ACGTcount: A:0.47, C:0.16, G:0.19, T:0.18
Consensus pattern (15 bp):
AATCCAAGATAGAGG
Found at i:11015410 original size:30 final size:30
Alignment explanation
Indices: 11015355--11015437 Score: 85
Period size: 30 Copynumber: 2.7 Consensus size: 30
11015345 TTACGAGATG
* *
11015355 AAGATAACAAGAAAACCAAAATAAAGAAATCC
1 AAGAT-AC-AGAAATCCAAGATAAAGAAATCC
* * * *
11015387 AAGATAGAGGAATCCTAGATAAAGATATCC
1 AAGATACAGAAATCCAAGATAAAGAAATCC
*
11015417 AAGGTACAGAAATCCAAGATA
1 AAGATACAGAAATCCAAGATA
11015438 GCATATCATA
Statistics
Matches: 41, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
30 35 0.85
31 1 0.02
32 5 0.12
ACGTcount: A:0.55, C:0.14, G:0.16, T:0.14
Consensus pattern (30 bp):
AAGATACAGAAATCCAAGATAAAGAAATCC
Found at i:11020444 original size:16 final size:16
Alignment explanation
Indices: 11020425--11020462 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
11020415 AAGAAAAAAG
11020425 TTAAA-AAAAATTATTT
1 TTAAATAAAAATT-TTT
*
11020441 TTAAATAAATATTTTT
1 TTAAATAAAAATTTTT
11020457 TTAAAT
1 TTAAAT
11020463 TAGTTTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 14 0.70
17 6 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (16 bp):
TTAAATAAAAATTTTT
Found at i:11020756 original size:16 final size:15
Alignment explanation
Indices: 11020735--11020786 Score: 52
Period size: 16 Copynumber: 3.4 Consensus size: 15
11020725 ATAATCTATA
*
11020735 AAAATTAGATCAAATC
1 AAAATTATAT-AAATC
* *
11020751 AAAATTTTATATAT-
1 AAAATTATATAAATC
11020765 AAAATTATATAAAATC
1 AAAATTATAT-AAATC
11020781 AAAATT
1 AAAATT
11020787 TACAAATACA
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 9 0.31
15 6 0.21
16 14 0.48
ACGTcount: A:0.58, C:0.06, G:0.02, T:0.35
Consensus pattern (15 bp):
AAAATTATATAAATC
Found at i:11020771 original size:30 final size:29
Alignment explanation
Indices: 11020731--11020787 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 29
11020721 ATTAATAATC
*
11020731 TATAAAAATTAGATCAAATCAAAATTTTA
1 TATAAAAATTAGATAAAATCAAAATTTTA
*
11020760 TATATAAAATTATATAAAATCAAAATTT
1 TATA-AAAATTAGATAAAATCAAAATTT
11020788 ACAAATACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
29 4 0.16
30 21 0.84
ACGTcount: A:0.56, C:0.05, G:0.02, T:0.37
Consensus pattern (29 bp):
TATAAAAATTAGATAAAATCAAAATTTTA
Found at i:11028407 original size:40 final size:40
Alignment explanation
Indices: 11028352--11028438 Score: 165
Period size: 40 Copynumber: 2.2 Consensus size: 40
11028342 ATTTGAATAC
11028352 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
*
11028392 ATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGATAT
1 ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
11028432 ATCCGGG
1 ATCCGGG
11028439 TCTTAGTGCG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 46 1.00
ACGTcount: A:0.25, C:0.21, G:0.30, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTTGATAT
Found at i:11028476 original size:26 final size:26
Alignment explanation
Indices: 11028425--11028476 Score: 61
Period size: 26 Copynumber: 2.0 Consensus size: 26
11028415 TTTGTGCGAG
* **
11028425 TTGATATATCCGGGTCTTAGTGCGAA
1 TTGATATATCCGGGTCTAAGCCCGAA
11028451 TTGATATATCCGGG-CTAAGACCCGAA
1 TTGATATATCCGGGTCTAAG-CCCGAA
11028477 GGCATTTGTG
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
25 4 0.18
26 18 0.82
ACGTcount: A:0.27, C:0.19, G:0.25, T:0.29
Consensus pattern (26 bp):
TTGATATATCCGGGTCTAAGCCCGAA
Found at i:11028499 original size:40 final size:40
Alignment explanation
Indices: 11028444--11028760 Score: 492
Period size: 40 Copynumber: 7.9 Consensus size: 40
11028434 CCGGGTCTTA
11028444 GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTT
1 GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTT
*
11028484 GTGCGAATTGATATATCCGGGCTAAGACCCAAAGGCATTT
1 GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTT
* *
11028524 GTGCGAACTGATATATCCGGGATAAGACCCGAAGGCATTT
1 GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTT
* *
11028564 GTGCGGATTGATATATCCGGGATAAGACCCGAAGGCATTT
1 GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTT
* * *
11028604 GTGCGAACTGATATATCCGGGCTAAGACCCGACGGCGTTT
1 GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTT
*
11028644 GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCAATT
1 GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTT
*
11028684 GTGC-AAGTTGATATATCCGGGCTAAGACCCGAAGGCATTC
1 GTGCGAA-TTGATATATCCGGGCTAAGACCCGAAGGCATTT
* * * *
11028724 GTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCA
11028761 ATTGAGCTTG
Statistics
Matches: 254, Mismatches: 21, Indels: 4
0.91 0.08 0.01
Matches are distributed among these distances:
39 2 0.01
40 251 0.99
41 1 0.00
ACGTcount: A:0.27, C:0.21, G:0.28, T:0.23
Consensus pattern (40 bp):
GTGCGAATTGATATATCCGGGCTAAGACCCGAAGGCATTT
Found at i:11031084 original size:29 final size:29
Alignment explanation
Indices: 11031045--11031112 Score: 100
Period size: 29 Copynumber: 2.3 Consensus size: 29
11031035 CCTTGGGAAG
* *
11031045 GGTGGTTCAACATTATCTTACACGCAGAA
1 GGTGATTCAACATTACCTTACACGCAGAA
*
11031074 GGTGATTCAACCTTACCTTACACGCAGAA
1 GGTGATTCAACATTACCTTACACGCAGAA
*
11031103 GGTGAATCAA
1 GGTGATTCAA
11031113 GTAGCTAATT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.32, C:0.22, G:0.21, T:0.25
Consensus pattern (29 bp):
GGTGATTCAACATTACCTTACACGCAGAA
Found at i:11033002 original size:46 final size:46
Alignment explanation
Indices: 11032935--11033027 Score: 159
Period size: 46 Copynumber: 2.0 Consensus size: 46
11032925 ATGACTTCGG
11032935 CATGCGCTGAAGATGTATAATCCTCAGGTGATCTTCTTTATAGAGA
1 CATGCGCTGAAGATGTATAATCCTCAGGTGATCTTCTTTATAGAGA
** *
11032981 CATGCGCTGAAGATGTATAATCCTTGGGTGGTCTTCTTTATAGAGA
1 CATGCGCTGAAGATGTATAATCCTCAGGTGATCTTCTTTATAGAGA
11033027 C
1 C
11033028 TAAGTTATGC
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.26, C:0.17, G:0.24, T:0.33
Consensus pattern (46 bp):
CATGCGCTGAAGATGTATAATCCTCAGGTGATCTTCTTTATAGAGA
Found at i:11034777 original size:30 final size:30
Alignment explanation
Indices: 11034741--11034803 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
11034731 TCGTATTCTG
11034741 TTATAGTCAATAAAAATACTAAAAGGGCTT
1 TTATAGTCAATAAAAATACTAAAAGGGCTT
11034771 TTATAGTCAATAAAAATACTAAAAGGGCTT
1 TTATAGTCAATAAAAATACTAAAAGGGCTT
11034801 TTA
1 TTA
11034804 GGCCATCTCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.46, C:0.10, G:0.13, T:0.32
Consensus pattern (30 bp):
TTATAGTCAATAAAAATACTAAAAGGGCTT
Found at i:11035273 original size:12 final size:12
Alignment explanation
Indices: 11035256--11035281 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
11035246 AAAATAGGGC
11035256 TTTAGCGGCGTT
1 TTTAGCGGCGTT
11035268 TTTAGCGGCGTT
1 TTTAGCGGCGTT
11035280 TT
1 TT
11035282 AACCAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:11035382 original size:40 final size:41
Alignment explanation
Indices: 11035336--11035513 Score: 252
Period size: 41 Copynumber: 4.4 Consensus size: 41
11035326 CGTTTTAGTA
** * * *
11035336 AAAAACGCCGC-AAAAAATAGAGCATTAGCGGTGCTTCTAG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* *
11035376 CAAAACGTCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
*
11035417 AAAAATGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
*
11035458 AAAAACGCCGCT-AAAACCAGAGCATTAGCGGCTCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
*
11035498 AAAAACGCCACTAAAA
1 AAAAACGCCGCTAAAA
11035514 GTCATATAAC
Statistics
Matches: 123, Mismatches: 13, Indels: 3
0.88 0.09 0.02
Matches are distributed among these distances:
40 47 0.38
41 76 0.62
ACGTcount: A:0.37, C:0.23, G:0.22, T:0.18
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
Found at i:11035685 original size:7 final size:7
Alignment explanation
Indices: 11035670--11035721 Score: 50
Period size: 7 Copynumber: 7.4 Consensus size: 7
11035660 TTAATTATCA
*
11035670 TTATAGT
1 TTATGGT
11035677 TTATGGT
1 TTATGGT
11035684 TTATGGT
1 TTATGGT
* *
11035691 TTAAGAT
1 TTATGGT
*
11035698 ATATGGT
1 TTATGGT
*
11035705 TTAGGGT
1 TTATGGT
*
11035712 TTAAGGT
1 TTATGGT
11035719 TTA
1 TTA
11035722 GGAGTTAACT
Statistics
Matches: 36, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
7 36 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (7 bp):
TTATGGT
Found at i:11035788 original size:7 final size:7
Alignment explanation
Indices: 11035759--11035864 Score: 81
Period size: 7 Copynumber: 15.1 Consensus size: 7
11035749 GATGAATTAT
11035759 GGGTTTA
1 GGGTTTA
*
11035766 GGGATTA
1 GGGTTTA
* *
11035773 TGATTTA
1 GGGTTTA
11035780 GGGTTTA
1 GGGTTTA
*
11035787 GGGGTTA
1 GGGTTTA
11035794 GGG-TT-
1 GGGTTTA
11035799 GGAGTTTA
1 GG-GTTTA
* *
11035807 AGGTGTAA
1 GGGT-TTA
*
11035815 GGGTTTG
1 GGGTTTA
*
11035822 GGGTTAA
1 GGGTTTA
11035829 GGGTTTA
1 GGGTTTA
*
11035836 GAGTTTA
1 GGGTTTA
*
11035843 GTGTTTA
1 GGGTTTA
11035850 GGGTTTA
1 GGGTTTA
*
11035857 AGGTTTA
1 GGGTTTA
11035864 G
1 G
11035865 TGGCGTTTTT
Statistics
Matches: 75, Mismatches: 20, Indels: 8
0.73 0.19 0.08
Matches are distributed among these distances:
5 2 0.03
6 3 0.04
7 64 0.85
8 6 0.08
ACGTcount: A:0.20, C:0.00, G:0.41, T:0.40
Consensus pattern (7 bp):
GGGTTTA
Found at i:11036160 original size:14 final size:14
Alignment explanation
Indices: 11036137--11036181 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
11036127 TTAATTATCA
11036137 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
11036151 TTAT-GATTTAGGGT
1 TTATAG-TTTAGGGT
*
11036165 ATATAGTTTAGGGT
1 TTATAGTTTAGGGT
11036179 TTA
1 TTA
11036182 AGGTGTAGGA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 25 0.93
15 1 0.04
ACGTcount: A:0.24, C:0.00, G:0.27, T:0.49
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:11036597 original size:57 final size:57
Alignment explanation
Indices: 11036528--11036641 Score: 219
Period size: 57 Copynumber: 2.0 Consensus size: 57
11036518 GATTATAGTT
*
11036528 TAAATTATTAAAATTATAAACTTTATATATATATATATTAAAAGGTTTAGGATTTAA
1 TAAATTAATAAAATTATAAACTTTATATATATATATATTAAAAGGTTTAGGATTTAA
11036585 TAAATTAATAAAATTATAAACTTTATATATATATATATTAAAAGGTTTAGGATTTAA
1 TAAATTAATAAAATTATAAACTTTATATATATATATATTAAAAGGTTTAGGATTTAA
11036642 GCTGGTTTAC
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
57 56 1.00
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.43
Consensus pattern (57 bp):
TAAATTAATAAAATTATAAACTTTATATATATATATATTAAAAGGTTTAGGATTTAA
Found at i:11047901 original size:28 final size:28
Alignment explanation
Indices: 11047835--11047987 Score: 231
Period size: 28 Copynumber: 5.5 Consensus size: 28
11047825 ATATTAAGTC
* *
11047835 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTACATAATCAAACT
*
11047862 CGCACACCTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
11047890 CGCACACTTAGTGCTACA-AAGTCAAACT
1 CGCACACTTAGTGCTACATAA-TCAAACT
11047918 CGCACACTTAGTGCTACATAATCAAACT
1 CGCACACTTAGTGCTACATAATCAAACT
* *
11047946 CGCACACTTAGTGCTACATAGTC-AATT
1 CGCACACTTAGTGCTACATAATCAAACT
11047973 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
11047988 GCACAATTTA
Statistics
Matches: 117, Mismatches: 6, Indels: 6
0.91 0.05 0.05
Matches are distributed among these distances:
27 40 0.34
28 75 0.64
29 2 0.02
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (28 bp):
CGCACACTTAGTGCTACATAATCAAACT
Found at i:11047939 original size:83 final size:83
Alignment explanation
Indices: 11047835--11047987 Score: 245
Period size: 83 Copynumber: 1.8 Consensus size: 83
11047825 ATATTAAGTC
*
11047835 CGCACACTCAGTGCTATATAATC-AACTCGCACACCTAGTGCTACATAATCAAACTCGCACACTT
1 CGCACACTCAGTGCTACATAATCAAACTCGCACACCTAGTGCTACATAATC-AACTCGCACACTT
11047899 AGTGCTACAAAGTCAAACT
65 AGTGCTACAAAGTCAAACT
* * * *
11047918 CGCACACTTAGTGCTACATAATCAAACTCGCACACTTAGTGCTACATAGTCAATTCGCACACTTA
1 CGCACACTCAGTGCTACATAATCAAACTCGCACACCTAGTGCTACATAATCAACTCGCACACTTA
11047983 GTGCT
66 GTGCT
11047988 GCACAATTTA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
83 39 0.61
84 25 0.39
ACGTcount: A:0.33, C:0.29, G:0.13, T:0.25
Consensus pattern (83 bp):
CGCACACTCAGTGCTACATAATCAAACTCGCACACCTAGTGCTACATAATCAACTCGCACACTTA
GTGCTACAAAGTCAAACT
Found at i:11048006 original size:56 final size:55
Alignment explanation
Indices: 11047834--11048012 Score: 232
Period size: 56 Copynumber: 3.2 Consensus size: 55
11047824 CATATTAAGT
* * * *
11047834 CCGCACACTCAGTGCTATATAATCAACTCGCACACCTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAAC
* *
11047889 TCGCACACTTAGTGCTACAAAGTCAAACTCGCACACTTAGTGCTACATAATCAAAC
1 CCGCACACTTAGTGCTACATAGTC-AACTCGCACACTTAGTGCTACATAATCAAAC
* * * * *
11047945 TCGCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCTGCACAATTTAAAC
1 CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAA-TCAAAC
*
11048001 CCGCACTCTTAG
1 CCGCACACTTAG
11048013 CGCCAATCTC
Statistics
Matches: 109, Mismatches: 13, Indels: 3
0.87 0.10 0.02
Matches are distributed among these distances:
55 41 0.38
56 68 0.62
ACGTcount: A:0.32, C:0.30, G:0.13, T:0.25
Consensus pattern (55 bp):
CCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAAC
Found at i:11054359 original size:9 final size:9
Alignment explanation
Indices: 11054342--11054463 Score: 109
Period size: 9 Copynumber: 12.9 Consensus size: 9
11054332 CATTACTTCA
*
11054342 ATAAATTAC
1 ATAACTTAC
11054351 ATAACTTAC
1 ATAACTTAC
* *
11054360 ATAACTCAT
1 ATAACTTAC
11054369 ATAACTTAC
1 ATAACTTAC
* *
11054378 GTAATTTAC
1 ATAACTTAC
11054387 ATAACAACTTAC
1 AT---AACTTAC
*
11054399 ATAATTTAC
1 ATAACTTAC
11054408 ATAACTTAC
1 ATAACTTAC
*
11054417 ATAATTTAC
1 ATAACTTAC
*
11054426 ATAACTCAC
1 ATAACTTAC
*
11054435 ATAACGTAC
1 ATAACTTAC
11054444 ATAACAACTTAC
1 AT---AACTTAC
11054456 ATAACTTA
1 ATAACTTA
11054464 ACTAATACAT
Statistics
Matches: 90, Mismatches: 17, Indels: 12
0.76 0.14 0.10
Matches are distributed among these distances:
9 74 0.82
12 16 0.18
ACGTcount: A:0.46, C:0.20, G:0.02, T:0.33
Consensus pattern (9 bp):
ATAACTTAC
Found at i:11054400 original size:39 final size:39
Alignment explanation
Indices: 11054353--11054430 Score: 120
Period size: 39 Copynumber: 2.0 Consensus size: 39
11054343 TAAATTACAT
* *
11054353 AACTTACATAACTCATATAACTTACGTAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
* *
11054392 AACTTACATAATTTACATAACTTACATAATTTACATAAC
1 AACTTACATAACTCACATAACTTACATAATTTACATAAC
11054431 TCACATAACG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 35 1.00
ACGTcount: A:0.45, C:0.19, G:0.01, T:0.35
Consensus pattern (39 bp):
AACTTACATAACTCACATAACTTACATAATTTACATAAC
Found at i:11054445 original size:57 final size:57
Alignment explanation
Indices: 11054342--11054459 Score: 164
Period size: 57 Copynumber: 2.1 Consensus size: 57
11054332 CATTACTTCA
* * * **
11054342 ATAAATTACATAACTTACATAACTCATATAACTTACGTAATTTACATAACAACTTAC
1 ATAAATTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTAC
* * *
11054399 ATAATTTACATAACTTACATAATTTACATAACTCACATAACGTACATAACAACTTAC
1 ATAAATTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTAC
11054456 ATAA
1 ATAA
11054460 CTTAACTAAT
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
57 53 1.00
ACGTcount: A:0.47, C:0.19, G:0.02, T:0.32
Consensus pattern (57 bp):
ATAAATTACATAACTTACATAACTCACATAACTCACATAACGTACATAACAACTTAC
Found at i:11059759 original size:40 final size:40
Alignment explanation
Indices: 11059682--11059848 Score: 207
Period size: 40 Copynumber: 4.2 Consensus size: 40
11059672 AAATCACGTA
* * **
11059682 CCTTCGGAATTTAA-CCGGATATAGCT-ACTCGTTCAAATG
1 CCTTCGGAACTTAACCCGGATTTAG-TAACTCGCACAAATG
* * *
11059721 CCTTCGGAACATAGCCCGG-TTATATTAACTCGCACAAATG
1 CCTTCGGAACTTAACCCGGATT-TAGTAACTCGCACAAATG
11059761 CCTTCAGG-ACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTC-GGAACTTAACCCGGATTTAGTAACTCGCACAAATG
*
11059801 CCTTCGGGACTTAACCCGGATTTAGTAACTCGCACAAATG
1 CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
11059841 CCTTCGGA
1 CCTTCGGA
11059849 TCTTGGTCCG
Statistics
Matches: 111, Mismatches: 11, Indels: 11
0.83 0.08 0.08
Matches are distributed among these distances:
39 15 0.14
40 92 0.83
41 4 0.04
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (40 bp):
CCTTCGGAACTTAACCCGGATTTAGTAACTCGCACAAATG
Found at i:11059900 original size:40 final size:40
Alignment explanation
Indices: 11059715--11059900 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
11059705 GCTACTCGTT
* * * *
11059715 CAAATGCCTTCGGAACATAGCCCGG-TTATATTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
*
11059755 CAAATGCCTTCAGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
11059795 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*** * * * *
11059835 CAAATGCCTTC-GGATCTTGGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
11059876 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
11059901 CATCATTCAA
Statistics
Matches: 127, Mismatches: 15, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
39 3 0.02
40 111 0.87
41 13 0.10
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:11063803 original size:43 final size:43
Alignment explanation
Indices: 11063749--11063992 Score: 389
Period size: 43 Copynumber: 5.7 Consensus size: 43
11063739 TAAAAAAAAG
* *
11063749 CGCCGCTAAAAGCCTTAACCTTTAGCGGCGTTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* * **
11063792 CGCCGCTAAAAGCCTTGACCTTTAGCGACGCTTTTACCATGAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* *
11063835 CGCCGCTAAAAACCTTGACCTTTAGCGGCACTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
11063878 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
* *
11063921 CGTCGCTAAAAGCCTTGACCTTTAGCGACGCTTTTCCCACAAA
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
*
11063964 CGCCGCTAAATGCCTTGACCTTTAGCGGC
1 CGCCGCTAAAAGCCTTGACCTTTAGCGGC
11063993 ATTTTTTCCC
Statistics
Matches: 182, Mismatches: 19, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 182 1.00
ACGTcount: A:0.25, C:0.33, G:0.18, T:0.25
Consensus pattern (43 bp):
CGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAA
Found at i:11071851 original size:28 final size:28
Alignment explanation
Indices: 11071819--11071875 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
11071809 AATAAAAATG
11071819 ATAAGTAACCCAATACAAAGCACGGGCA
1 ATAAGTAACCCAATACAAAGCACGGGCA
*
11071847 ATAAGTAACCCGATACAAAGCACGGGCA
1 ATAAGTAACCCAATACAAAGCACGGGCA
11071875 A
1 A
11071876 GCCATACTCG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.46, C:0.25, G:0.19, T:0.11
Consensus pattern (28 bp):
ATAAGTAACCCAATACAAAGCACGGGCA
Found at i:11080069 original size:40 final size:40
Alignment explanation
Indices: 11080025--11080287 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
11080015 GCTCCTCGTT
* *
11080025 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
11080065 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
11080105 CAAATGCCTTCGGG-CTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
11080144 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
11080184 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
11080223 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
11080264 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11080288 CAGCATTCAA
Statistics
Matches: 204, Mismatches: 12, Indels: 15
0.88 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 88 0.43
40 105 0.51
41 9 0.04
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:11080136 original size:79 final size:79
Alignment explanation
Indices: 11080025--11080287 Score: 349
Period size: 79 Copynumber: 3.3 Consensus size: 79
11080015 GCTCCTCGTT
*
11080025 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
1 CAAATGCCTTCGGG-CTTAGCCCGGATT-TAGTAATTCGCACAAATGCCTTCGGGACTTAACCCG
11080089 GATTTAGTAACTCGCA
64 GATTTAGTAACTCGCA
* *
11080105 CAAATGCCTTCGGGCTTAACCCGGATTTAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGA
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGA
11080170 TTTAGTAACTCGCA
66 TTTAGTAACTCGCA
* **
11080184 CAAATGCCTTCGGGCTTAGCCCGGAATTAGT-ATCTCGCACAAATGCCTTC-GGATCTTAGTCCG
1 CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACCCG
* *
11080247 GATATT-GTCACTTAGCA
64 GAT-TTAGTAAC-TCGCA
11080264 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGG-CTTAGCCCGGA
11080288 CAGCATTCAA
Statistics
Matches: 167, Mismatches: 10, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
78 13 0.08
79 131 0.78
80 23 0.14
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.25
Consensus pattern (79 bp):
CAAATGCCTTCGGGCTTAGCCCGGATTTAGTAATTCGCACAAATGCCTTCGGGACTTAACCCGGA
TTTAGTAACTCGCA
Found at i:11088267 original size:40 final size:40
Alignment explanation
Indices: 11088223--11088486 Score: 360
Period size: 40 Copynumber: 6.7 Consensus size: 40
11088213 GCTCCTCGTT
* *
11088223 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
11088263 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
11088303 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
11088343 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
11088383 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
11088422 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
11088463 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
11088487 CATCATTCAA
Statistics
Matches: 206, Mismatches: 12, Indels: 13
0.89 0.05 0.06
Matches are distributed among these distances:
38 2 0.01
39 49 0.24
40 146 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:11103575 original size:4 final size:4
Alignment explanation
Indices: 11103566--11103620 Score: 110
Period size: 4 Copynumber: 13.8 Consensus size: 4
11103556 AATAATAATA
11103566 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC
11103614 ATAC ATA
1 ATAC ATA
11103621 TATATTAGTA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 51 1.00
ACGTcount: A:0.51, C:0.24, G:0.00, T:0.25
Consensus pattern (4 bp):
ATAC
Found at i:11115016 original size:31 final size:31
Alignment explanation
Indices: 11114978--11115048 Score: 106
Period size: 31 Copynumber: 2.3 Consensus size: 31
11114968 GTGTCCAGAG
*
11114978 CCACACGGGAGTGTAAGGCCACACGGCCTAC
1 CCACACGGGAGTGTAAGACCACACGGCCTAC
* *
11115009 CCACACGGGCGTGTGAGACCACACGGCCTAC
1 CCACACGGGAGTGTAAGACCACACGGCCTAC
*
11115040 CCAAACGGG
1 CCACACGGG
11115049 CATGTGACTC
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 36 1.00
ACGTcount: A:0.25, C:0.37, G:0.30, T:0.08
Consensus pattern (31 bp):
CCACACGGGAGTGTAAGACCACACGGCCTAC
Found at i:11121489 original size:43 final size:43
Alignment explanation
Indices: 11121413--11121538 Score: 107
Period size: 41 Copynumber: 3.0 Consensus size: 43
11121403 CTCGTACAAC
* * * ***
11121413 GCCAACGTCCCAGACGTGGTCTTGCATGTAATCAAATATCGAT
1 GCCAACTTCCCAGATGTGGTCTTACACAAAATCAAATATCGAT
* * *
11121456 GCC-ACTGTCCCAGATAG-GGTCTTATACGAAATC-AA-ATCAAT
1 GCCAACT-TCCCAGAT-GTGGTCTTACACAAAATCAAATATCGAT
* *
11121497 GCCAACTTCCCAGATGTGGTCTTACACAAAATTACATATCGA
1 GCCAACTTCCCAGATGTGGTCTTACACAAAATCAAATATCGA
11121539 AATCCTATGT
Statistics
Matches: 65, Mismatches: 12, Indels: 12
0.73 0.13 0.13
Matches are distributed among these distances:
40 1 0.02
41 29 0.45
42 8 0.12
43 26 0.40
44 1 0.02
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.25
Consensus pattern (43 bp):
GCCAACTTCCCAGATGTGGTCTTACACAAAATCAAATATCGAT
Found at i:11123163 original size:26 final size:25
Alignment explanation
Indices: 11123101--11123157 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 25
11123091 GTTGAGTAGC
11123101 TTGAGAGTGAGCAATTATGCGATATGAGA
1 TTGAG-GT-AGCAATTAT--GATATGAGA
11123130 TTGAGGTAGCAATTATGATAATGAGA
1 TTGAGGTAGCAATTATGAT-ATGAGA
11123156 TT
1 TT
11123158 ATGGTAAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 3 0.11
26 8 0.30
27 9 0.33
28 2 0.07
29 5 0.19
ACGTcount: A:0.35, C:0.05, G:0.28, T:0.32
Consensus pattern (25 bp):
TTGAGGTAGCAATTATGATATGAGA
Found at i:11133358 original size:27 final size:27
Alignment explanation
Indices: 11133328--11133448 Score: 152
Period size: 27 Copynumber: 4.5 Consensus size: 27
11133318 CTTCGTAGTG
11133328 AACTCTGAAAGGATAGCCTTTGTGGCA
1 AACTCTGAAAGGATAGCCTTTGTGGCA
* * *
11133355 AACTCTGAAATGATAGCCTCTGTGGCG
1 AACTCTGAAAGGATAGCCTTTGTGGCA
* * * * *
11133382 AACTCTAAAAGAATAACCCTTGTGGAA
1 AACTCTGAAAGGATAGCCTTTGTGGCA
*
11133409 AACTCTGAAAGAATAGCCTTTGTGGCA
1 AACTCTGAAAGGATAGCCTTTGTGGCA
*
11133436 AACTTTGAAAGGA
1 AACTCTGAAAGGA
11133449 ATCTCTTTGT
Statistics
Matches: 77, Mismatches: 17, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
27 77 1.00
ACGTcount: A:0.35, C:0.18, G:0.22, T:0.25
Consensus pattern (27 bp):
AACTCTGAAAGGATAGCCTTTGTGGCA
Found at i:11133459 original size:54 final size:53
Alignment explanation
Indices: 11133328--11133495 Score: 146
Period size: 54 Copynumber: 3.1 Consensus size: 53
11133318 CTTCGTAGTG
* * *
11133328 AACTCTGAAAGGATAGCCTTTGTGGCAAACTCTGAAATGATAGCCTCTGTGGCG
1 AACTCTGAAAGGA-ATCCTTTGTGGAAAACTCTGAAATGATAGCCTCTGTGGCA
* * *
11133382 AACTCT-AAAAGAATAACCCTTGTGGAAAACTCTGAAA-GAATAGCCTTTGTGGCA
1 AACTCTGAAAGGAAT--CCTTTGTGGAAAACTCTGAAATG-ATAGCCTCTGTGGCA
* ** *
11133436 AACTTTGAAAGGAATCTCTTTGTGGTGAACTC-GAAATGCATCGCCT-TAGTGGCA
1 AACTCTGAAAGGAATC-CTTTGTGGAAAACTCTGAAATG-ATAGCCTCT-GTGGCA
*
11133490 TACTCT
1 AACTCT
11133496 ATTTGATTTC
Statistics
Matches: 92, Mismatches: 15, Indels: 14
0.76 0.12 0.12
Matches are distributed among these distances:
52 1 0.01
53 12 0.13
54 72 0.78
55 7 0.08
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (53 bp):
AACTCTGAAAGGAATCCTTTGTGGAAAACTCTGAAATGATAGCCTCTGTGGCA
Found at i:11148708 original size:43 final size:42
Alignment explanation
Indices: 11148633--11148731 Score: 126
Period size: 43 Copynumber: 2.3 Consensus size: 42
11148623 GTGTTACATT
* *** *
11148633 TGGGACATTGGCATCATATTTGATTTTGTGTAAGACCTTGTC
1 TGGGACAGTGGCATCATATTTGATTACATGTAAGACCATGTC
*
11148675 TGGGATAGTGGCATCGATATTTGATTACATGTAAGACCATGTC
1 TGGGACAGTGGCATC-ATATTTGATTACATGTAAGACCATGTC
*
11148718 TGGGACATTGGCAT
1 TGGGACAGTGGCAT
11148732 TGTACGAGCT
Statistics
Matches: 48, Mismatches: 8, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 13 0.27
43 35 0.73
ACGTcount: A:0.24, C:0.14, G:0.26, T:0.35
Consensus pattern (42 bp):
TGGGACAGTGGCATCATATTTGATTACATGTAAGACCATGTC
Found at i:11153603 original size:13 final size:13
Alignment explanation
Indices: 11153587--11153611 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
11153577 AAATGATTTC
11153587 TTGAAAATTTTGT
1 TTGAAAATTTTGT
11153600 TTGAAAATTTTG
1 TTGAAAATTTTG
11153612 ATGTTTGGGC
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:0.32, C:0.00, G:0.16, T:0.52
Consensus pattern (13 bp):
TTGAAAATTTTGT
Found at i:11159928 original size:43 final size:43
Alignment explanation
Indices: 11159807--11159963 Score: 210
Period size: 43 Copynumber: 3.7 Consensus size: 43
11159797 TGTGTTCTCG
* * *
11159807 TGTAAGACCACATCTGGGACATTGGCATTGACT-TATGATTTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGA-TATTTGATTT-CA
11159851 TGTAAGACCACGTCTGGGACATTGGCATCG-TATTTGATTTCA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTTCA
* * * *
11159893 TGTAAGACCATGTCTGGGACAGTGGCACCGATATTTGATTACA
1 TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTTCA
*
11159936 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACATTGGCAT
11159964 TGTACGAGCT
Statistics
Matches: 100, Mismatches: 11, Indels: 5
0.86 0.09 0.04
Matches are distributed among these distances:
42 30 0.30
43 42 0.42
44 28 0.28
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACATTGGCATCGATATTTGATTTCA
Found at i:11161698 original size:40 final size:40
Alignment explanation
Indices: 11161513--11161738 Score: 292
Period size: 41 Copynumber: 5.6 Consensus size: 40
11161503 TGGATGATAA
* * * **
11161513 CCGGGCTAAGTCCCGAAGGAATTT-TGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTATTACAT
11161554 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA-T
*
11161595 CCGGGCTAAGTCCTGAAGGCATTTGTGCGAGTTATTACATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACA-T
* * *
11161636 CCGGGCTAAGTCCCTAAAGCATTTGTACGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
* * *
11161676 CCGGGCTAAGTCCCGAAGGCATTTGTGTGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
*
11161716 CCGGGCTATGTCCCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATT
11161739 GNNNNNNNNN
Statistics
Matches: 166, Mismatches: 17, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
40 63 0.38
41 99 0.60
42 4 0.02
ACGTcount: A:0.23, C:0.22, G:0.27, T:0.29
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
Found at i:11165464 original size:14 final size:14
Alignment explanation
Indices: 11165445--11165474 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
11165435 ATAAAAATTT
11165445 AATATTATACTTAA
1 AATATTATACTTAA
*
11165459 AATATTTTACTTAA
1 AATATTATACTTAA
11165473 AA
1 AA
11165475 ATCTTACACC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (14 bp):
AATATTATACTTAA
Found at i:11172683 original size:31 final size:31
Alignment explanation
Indices: 11172648--11172722 Score: 114
Period size: 31 Copynumber: 2.4 Consensus size: 31
11172638 GTTTCCGGTA
* *
11172648 CTACCACCTTTCACTGATCAGGTAGCCGGAG
1 CTACCACTTTTCACTGATCAGGTAGCCGAAG
* *
11172679 CTACCACTTTTCACTGATTAGGTAGCTGAAG
1 CTACCACTTTTCACTGATCAGGTAGCCGAAG
11172710 CTACCACTTTTCA
1 CTACCACTTTTCA
11172723 ATTTTAATTA
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (31 bp):
CTACCACTTTTCACTGATCAGGTAGCCGAAG
Found at i:11174886 original size:2 final size:2
Alignment explanation
Indices: 11174879--11174907 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
11174869 GACTAACATA
11174879 GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
1 GT GT GT GT GT GT GT GT GT GT GT GT GT GT G
11174908 AGTCTAGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.00, G:0.52, T:0.48
Consensus pattern (2 bp):
GT
Found at i:11177432 original size:24 final size:24
Alignment explanation
Indices: 11177359--11177437 Score: 104
Period size: 24 Copynumber: 3.3 Consensus size: 24
11177349 GCCTAGATAG
* *
11177359 ATTTAATGAGTTGCTGGTTGACGG
1 ATTTAATGAGCTGCTGGTTGACGA
*
11177383 ATTTAATGAGCTGCTAGTTGACGA
1 ATTTAATGAGCTGCTGGTTGACGA
* * *
11177407 ATTTAATGAGCTACTGGTGGATGA
1 ATTTAATGAGCTGCTGGTTGACGA
11177431 ATTTAAT
1 ATTTAAT
11177438 ATGTCCTAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.28, C:0.09, G:0.27, T:0.37
Consensus pattern (24 bp):
ATTTAATGAGCTGCTGGTTGACGA
Found at i:11188041 original size:44 final size:44
Alignment explanation
Indices: 11187974--11188064 Score: 164
Period size: 44 Copynumber: 2.1 Consensus size: 44
11187964 CTGTATAAAG
* *
11187974 CTCTATAAGGTCGTAAATTTCGAACACCATTGTACTGGAGTGAA
1 CTCTATAAGGTCGTAAATGTCGAACACCATTGTACTAGAGTGAA
11188018 CTCTATAAGGTCGTAAATGTCGAACACCATTGTACTAGAGTGAA
1 CTCTATAAGGTCGTAAATGTCGAACACCATTGTACTAGAGTGAA
11188062 CTC
1 CTC
11188065 AGTGAAAATA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 45 1.00
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCTATAAGGTCGTAAATGTCGAACACCATTGTACTAGAGTGAA
Found at i:11192471 original size:21 final size:22
Alignment explanation
Indices: 11192442--11192488 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 22
11192432 CAGATAGATT
11192442 ACCAGCCCA-ATCCAACCAACAC
1 ACCAGCCCATA-CCAACCAACAC
*
11192464 ACCA-CCCATACCAACCAGCAC
1 ACCAGCCCATACCAACCAACAC
11192485 ACCA
1 ACCA
11192489 TGTGGGGATC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 18 0.78
22 5 0.22
ACGTcount: A:0.40, C:0.51, G:0.04, T:0.04
Consensus pattern (22 bp):
ACCAGCCCATACCAACCAACAC
Found at i:11192854 original size:22 final size:22
Alignment explanation
Indices: 11192826--11192873 Score: 62
Period size: 22 Copynumber: 2.2 Consensus size: 22
11192816 GCAAATACGT
11192826 TTGGCACACAACCATAAT-TAGG
1 TTGGCACACAACCAT-ATGTAGG
* *
11192848 TTGGCACAGATCCATATGTAGG
1 TTGGCACACAACCATATGTAGG
11192870 TTGG
1 TTGG
11192874 TGCAAAGCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
21 2 0.09
22 21 0.91
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (22 bp):
TTGGCACACAACCATATGTAGG
Found at i:11193087 original size:41 final size:41
Alignment explanation
Indices: 11193030--11193151 Score: 174
Period size: 41 Copynumber: 3.0 Consensus size: 41
11193020 AAAAGCCACT
*
11193030 GATGGATCCACGGTCATCAAGCAACCATGCGATCCTTAATC
1 GATGGATCCACGGTCATCAAGCAACCATGCGATCCTCAATC
* *
11193071 GATGGATCCACAGTCATCAAGCAACCATGTGATCCTCAATC
1 GATGGATCCACGGTCATCAAGCAACCATGCGATCCTCAATC
** *
11193112 -AGTGGATCCACGGTTGTCAAGTAACCATGCGATCCTCAAT
1 GA-TGGATCCACGGTCATCAAGCAACCATGCGATCCTCAAT
11193152 TTCTTCCTGC
Statistics
Matches: 72, Mismatches: 8, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
40 1 0.01
41 71 0.99
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.23
Consensus pattern (41 bp):
GATGGATCCACGGTCATCAAGCAACCATGCGATCCTCAATC
Found at i:11193793 original size:24 final size:24
Alignment explanation
Indices: 11193760--11193813 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
11193750 AAGGCTATCA
11193760 GGAGAAGATTTAGGAGCTGATAAG
1 GGAGAAGATTTAGGAGCTGATAAG
* *
11193784 GGAGAGGATTTAGGAGCTGATTAG
1 GGAGAAGATTTAGGAGCTGATAAG
11193808 GGAGAA
1 GGAGAA
11193814 AGGTGTTGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.35, C:0.04, G:0.41, T:0.20
Consensus pattern (24 bp):
GGAGAAGATTTAGGAGCTGATAAG
Found at i:11194823 original size:16 final size:15
Alignment explanation
Indices: 11194797--11194826 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
11194787 ACTAGATCGG
11194797 CAAAAGCCGAAAAGC
1 CAAAAGCCGAAAAGC
11194812 CAAAATGCCGAAAAG
1 CAAAA-GCCGAAAAG
11194827 TCGGTATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.53, C:0.23, G:0.20, T:0.03
Consensus pattern (15 bp):
CAAAAGCCGAAAAGC
Found at i:11195944 original size:27 final size:27
Alignment explanation
Indices: 11195924--11196230 Score: 266
Period size: 27 Copynumber: 11.4 Consensus size: 27
11195914 CAAACTAAGA
* * *
11195924 GTATTTCAGTAATTTTGCAAACCAATG
1 GTATTTTAGTAATTTTGCAAATCAAGG
11195951 GTATTTTTA-TAATTTTTG-AAAGTCAAGG
1 GTA-TTTTAGTAA-TTTTGCAAA-TCAAGG
* *
11195979 GTATTTCT-GTAATTTTGTAAATCAGGG
1 GTATTT-TAGTAATTTTGCAAATCAAGG
*
11196006 GTATTTCTA-TAATTTTCCAAATCAAGG
1 GTATTT-TAGTAATTTTGCAAATCAAGG
** *
11196033 GTATTTCGGTAATTTTCCAAATCAAGG
1 GTATTTTAGTAATTTTGCAAATCAAGG
* * *
11196060 GTATTTTGGTAATTTTACAAATCGAGG
1 GTATTTTAGTAATTTTGCAAATCAAGG
* * *
11196087 GTATTTTGGTAATTTTACAAA-CTAGGG
1 GTATTTTAGTAATTTTGCAAATC-AAGG
* **
11196114 GTATTTTAGTAATTTTGCTAATTGAGG
1 GTATTTTAGTAATTTTGCAAATCAAGG
* * * * *
11196141 GTATTTTGGTAATATTGTAAACCAAAG
1 GTATTTTAGTAATTTTGCAAATCAAGG
**
11196168 GTA-TTTAGTAATTTTTTAAATCAAGG
1 GTATTTTAGTAATTTTGCAAATCAAGG
* * *
11196194 GTATTTTAGTAATTTTGTAAACCAATG
1 GTATTTTAGTAATTTTGCAAATCAAGG
11196221 GTATTTTAGT
1 GTATTTTAGT
11196231 GATTCTACCC
Statistics
Matches: 233, Mismatches: 36, Indels: 22
0.80 0.12 0.08
Matches are distributed among these distances:
26 22 0.09
27 188 0.81
28 23 0.10
ACGTcount: A:0.31, C:0.08, G:0.18, T:0.43
Consensus pattern (27 bp):
GTATTTTAGTAATTTTGCAAATCAAGG
Found at i:11196280 original size:27 final size:27
Alignment explanation
Indices: 11196220--11196298 Score: 86
Period size: 27 Copynumber: 2.9 Consensus size: 27
11196210 GTAAACCAAT
* *
11196220 GGTATTTTAGTGATTCTACCCTACAAG
1 GGTATTTCAGTAATTCTACCCTACAAG
* * * *
11196247 GGCATTTCAGTAATTCTACGCTATAGG
1 GGTATTTCAGTAATTCTACCCTACAAG
* *
11196274 GGTATTTCAGTAATACTAGCCTACA
1 GGTATTTCAGTAATTCTACCCTACA
11196299 GATATGAGAT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.28, C:0.19, G:0.19, T:0.34
Consensus pattern (27 bp):
GGTATTTCAGTAATTCTACCCTACAAG
Found at i:11199424 original size:42 final size:42
Alignment explanation
Indices: 11199318--11199434 Score: 128
Period size: 43 Copynumber: 2.8 Consensus size: 42
11199308 CATAAGCTCG
* * **
11199318 TACAATGCCAACGTCCCAGAC-GTGATCTTACATGTAATCAAA
1 TACAATGCCAATGTCCCAGACAG-GGTCTTACATAAAATCAAA
* * * *
11199360 TATCGATGCCACTGCCCCAGACAGGGTCTTACATAAAATCATA
1 TA-CAATGCCAATGTCCCAGACAGGGTCTTACATAAAATCAAA
*
11199403 TACAATGCCAATGTCCCAGACATGGTCTTACA
1 TACAATGCCAATGTCCCAGACAGGGTCTTACA
11199435 CGATAACACA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
42 28 0.46
43 32 0.52
44 1 0.02
ACGTcount: A:0.33, C:0.27, G:0.15, T:0.24
Consensus pattern (42 bp):
TACAATGCCAATGTCCCAGACAGGGTCTTACATAAAATCAAA
Found at i:11203042 original size:13 final size:13
Alignment explanation
Indices: 11203024--11203049 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11203014 CGTTGTCTTA
11203024 GATATGGATGAGG
1 GATATGGATGAGG
11203037 GATATGGATGAGG
1 GATATGGATGAGG
11203050 ATAACAAGGT
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:0.31, C:0.00, G:0.46, T:0.23
Consensus pattern (13 bp):
GATATGGATGAGG
Found at i:11212313 original size:7 final size:7
Alignment explanation
Indices: 11212301--11212332 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
11212291 GAAATTAGTA
11212301 AATGTTT
1 AATGTTT
11212308 AATGTTT
1 AATGTTT
11212315 AATGTTT
1 AATGTTT
*
11212322 AATGTTC
1 AATGTTT
11212329 AATG
1 AATG
11212333 AATTACTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.31, C:0.03, G:0.16, T:0.50
Consensus pattern (7 bp):
AATGTTT
Found at i:11218150 original size:49 final size:49
Alignment explanation
Indices: 11218049--11218323 Score: 384
Period size: 47 Copynumber: 5.7 Consensus size: 49
11218039 TAGTATGGCG
11218049 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
11218096 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
11218145 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* *
11218194 TAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGACAGGGCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
* * * * * * *
11218241 GACTGGCCAACGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAGTCCC
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAG-GCC
* * *
11218289 GAA-GGGCAATGTGATGAATGTGAAAGTGTATATAT
1 TAATGGCCGATGTGATGAATGTGAAAGTGTATATAT
11218324 NNNNNNNNNN
Statistics
Matches: 206, Mismatches: 15, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
47 102 0.50
48 6 0.03
49 98 0.48
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (49 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCC
Found at i:11218227 original size:96 final size:95
Alignment explanation
Indices: 11218049--11218323 Score: 378
Period size: 96 Copynumber: 2.9 Consensus size: 95
11218039 TAGTATGGCG
11218049 TAATGGCCGATGTGATGAATGTGAAAGTG-TATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 TAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
11218113 AATGTGAAAGTGTATATATATGTGATAAGGCC
66 AATGTGAAAGTG--TATATATGTGACAAGGCC
11218145 TAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCGATGTGAT
1 TAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAGGCCTAATGGCCGATGTGAT
*
11218210 GAATGTGAAAGTGTATATATGTGACAGGGCC
65 GAATGTGAAAGTGTATATATGTGACAAGGCC
* * * * * * * * *
11218241 GACTGGCCAACGTGATGGATGTGAAAGTGCATA-A-ATGTGATAAGTCCCGAA-GGGCAATGTGA
1 TAATGGCCGATGTGATGAATGTGAAAGTG-ATATATATGTGATAAG-GCCTAATGGCCGATGTGA
11218303 TGAATGTGAAAGTGTATATAT
64 TGAATGTGAAAGTGTATATAT
11218324 NNNNNNNNNN
Statistics
Matches: 164, Mismatches: 12, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
94 40 0.24
95 5 0.03
96 72 0.44
98 47 0.29
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.28
Consensus pattern (95 bp):
TAATGGCCGATGTGATGAATGTGAAAGTGATATATATGTGATAAGGCCTAATGGCCGATGTGATG
AATGTGAAAGTGTATATATGTGACAAGGCC
Found at i:11224656 original size:27 final size:27
Alignment explanation
Indices: 11224626--11224702 Score: 93
Period size: 27 Copynumber: 2.9 Consensus size: 27
11224616 AAGGAAATCA
*
11224626 TTGTGGCAATCTATGAAATGGAAGCAT
1 TTGTGGCAATCTATGAAATGGAAGCAC
* * *
11224653 TTGTGACAATCTATTAAATGGAAGCCC
1 TTGTGGCAATCTATGAAATGGAAGCAC
*
11224680 TTGTGGCGATCTATGGAAA-GGAA
1 TTGTGGCAATCTAT-GAAATGGAA
11224703 CGCTTGCATG
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
27 39 0.93
28 3 0.07
ACGTcount: A:0.32, C:0.13, G:0.26, T:0.29
Consensus pattern (27 bp):
TTGTGGCAATCTATGAAATGGAAGCAC
Found at i:11224884 original size:27 final size:26
Alignment explanation
Indices: 11224811--11224890 Score: 88
Period size: 26 Copynumber: 3.0 Consensus size: 26
11224801 AAACCCTGAC
* *
11224811 GAATGATTTGTATGGCTAACTTTGAA
1 GAATGATATGTATGGCTAGCTTTGAA
* * * *
11224837 GAATGGTAAGTATGACAAGCTTTGAA
1 GAATGATATGTATGGCTAGCTTTGAA
*
11224863 GAAATGATATGTGTGGCTAGCTTTGAA
1 G-AATGATATGTATGGCTAGCTTTGAA
11224890 G
1 G
11224891 GACTGGTAGG
Statistics
Matches: 42, Mismatches: 11, Indels: 1
0.78 0.20 0.02
Matches are distributed among these distances:
26 21 0.50
27 21 0.50
ACGTcount: A:0.33, C:0.07, G:0.28, T:0.33
Consensus pattern (26 bp):
GAATGATATGTATGGCTAGCTTTGAA
Found at i:11224906 original size:27 final size:27
Alignment explanation
Indices: 11224820--11224921 Score: 89
Period size: 27 Copynumber: 3.8 Consensus size: 27
11224810 CGAATGATTT
*
11224820 GTATGGCTAACTTTGAA-GAATGGTAA
1 GTATGGCTAGCTTTGAAGGAATGGTAA
* * * * *
11224846 GTATGACAAGCTTTGAAGAAATGATAT
1 GTATGGCTAGCTTTGAAGGAATGGTAA
* * *
11224873 GTGTGGCTAGCTTTGAAGGACTGGTAG
1 GTATGGCTAGCTTTGAAGGAATGGTAA
* * *
11224900 GTATGGCGAACTCTGAAGGAAT
1 GTATGGCTAGCTTTGAAGGAAT
11224922 AATACATATG
Statistics
Matches: 57, Mismatches: 18, Indels: 1
0.75 0.24 0.01
Matches are distributed among these distances:
26 14 0.25
27 43 0.75
ACGTcount: A:0.31, C:0.10, G:0.30, T:0.28
Consensus pattern (27 bp):
GTATGGCTAGCTTTGAAGGAATGGTAA
Found at i:11232821 original size:17 final size:19
Alignment explanation
Indices: 11232794--11232830 Score: 60
Period size: 17 Copynumber: 2.1 Consensus size: 19
11232784 ATTAAGGCCT
11232794 ATGTGGGCCCACAT-GCCC
1 ATGTGGGCCCACATAGCCC
11232812 ATGT-GGCCCACATAGCCC
1 ATGTGGGCCCACATAGCCC
11232830 A
1 A
11232831 AAAATGGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 9 0.50
18 9 0.50
ACGTcount: A:0.22, C:0.38, G:0.24, T:0.16
Consensus pattern (19 bp):
ATGTGGGCCCACATAGCCC
Found at i:11236279 original size:30 final size:30
Alignment explanation
Indices: 11236242--11236307 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
11236232 GAATCGGAAG
*
11236242 CTTTGGCACTAACTGTGCAATTTAAATTAA
1 CTTTGGCACTAACTGTGCAATTTAAACTAA
* * *
11236272 TTTTGGCACTAAGTGTGCGATTTAAACTAA
1 CTTTGGCACTAACTGTGCAATTTAAACTAA
11236302 CTTTGG
1 CTTTGG
11236308 GTACTTGAGG
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.29, C:0.15, G:0.18, T:0.38
Consensus pattern (30 bp):
CTTTGGCACTAACTGTGCAATTTAAACTAA
Found at i:11246462 original size:16 final size:17
Alignment explanation
Indices: 11246438--11246481 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
11246428 TTTACCCGTG
*
11246438 TGGGCCCCACATAC-CA
1 TGGGGCCCACATACTCA
*
11246454 TGGGGCCCACATGCTCA
1 TGGGGCCCACATACTCA
11246471 TGGGGCCCACA
1 TGGGGCCCACA
11246482 CGGCCGAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
16 12 0.48
17 13 0.52
ACGTcount: A:0.20, C:0.39, G:0.27, T:0.14
Consensus pattern (17 bp):
TGGGGCCCACATACTCA
Found at i:11253027 original size:13 final size:13
Alignment explanation
Indices: 11253009--11253034 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11252999 AAATGTTTGG
11253009 ACCAAACTTCAAT
1 ACCAAACTTCAAT
11253022 ACCAAACTTCAAT
1 ACCAAACTTCAAT
11253035 TCACCTATAT
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:0.46, C:0.31, G:0.00, T:0.23
Consensus pattern (13 bp):
ACCAAACTTCAAT
Found at i:11260756 original size:28 final size:28
Alignment explanation
Indices: 11260716--11260771 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
11260706 ACCCAAAACA
11260716 TATCTTCCATTTATCAACAACTAACTTC
1 TATCTTCCATTTATCAACAACTAACTTC
*
11260744 TATCTTCCATTTATCAACAACTGACTTC
1 TATCTTCCATTTATCAACAACTAACTTC
11260772 ACAAAACTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.30, C:0.29, G:0.02, T:0.39
Consensus pattern (28 bp):
TATCTTCCATTTATCAACAACTAACTTC
Found at i:11260976 original size:7 final size:7
Alignment explanation
Indices: 11260941--11260975 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
11260931 CCTAGGTAAG
11260941 CTTTTCT
1 CTTTTCT
11260948 CTTTTCT
1 CTTTTCT
11260955 CTTTTCT
1 CTTTTCT
11260962 CTTTTCT
1 CTTTTCT
*
11260969 TTTTTCT
1 CTTTTCT
11260976 TGTGATTTTC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (7 bp):
CTTTTCT
Found at i:11264521 original size:20 final size:19
Alignment explanation
Indices: 11264485--11264535 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
11264475 AGGGGCTATT
*
11264485 TTGTAAA-GTTGTAAAATAA
1 TTGTAAATG-TGTGAAATAA
11264504 GTTGTAAATGTGTGAAATAA
1 -TTGTAAATGTGTGAAATAA
11264524 TTG-AAAT-TGTGA
1 TTGTAAATGTGTGA
11264536 GCTGCTATAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 5 0.17
18 4 0.14
19 3 0.10
20 16 0.55
21 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.22, T:0.37
Consensus pattern (19 bp):
TTGTAAATGTGTGAAATAA
Found at i:11265286 original size:46 final size:47
Alignment explanation
Indices: 11265168--11265533 Score: 179
Period size: 49 Copynumber: 7.7 Consensus size: 47
11265158 TGATATGTGT
*
11265168 GCTAGTGTAAGACATGTCTGGGACAT-GCATCGGCCATATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCATATGATGAGA
* * *
11265214 GCCAGTGTAAGACCATGTCTAGGACATGGCATTGG-CAT-TGAGATGAGA
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGCCATAT--GATGAGA
* * *
11265262 GCTAGTGT-GGACATGTCTGGGACAT-GCATCGGCC-TCGA-GATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCAT--ATGAT-GA-GA
* * * * * * * *
11265309 GCTATTGTAGGACCTGTCTGGGGCATGGCCTCAG-C-T-TGATGTGT
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCATATGATGAGA
* * * *
11265353 G-TCAGTGTAAGACCTATCTAGGACATGGCATCGACACCGATA-GATGAGA
1 GCT-AGTGTAAGACATGTCTGGGACATGGCATCG--GCC-ATATGATGAGA
* * *
11265402 GCTAGTGTAAGACCTGTCTAGGACATGGCATCGGCCTCGATAT-ATGAAA
1 GCTAGTGTAAGACATGTCTGGGACATGGCATCGG-C-C-ATATGATGAGA
* * * * * * *
11265451 G-TCAGTGTAAGACCTATTTGGGACATGGCAT-TGAC-TTTGATGTGCTA
1 GCT-AGTGTAAGACATGTCTGGGACATGGCATCGGCCATATGATGAG--A
* *
11265498 GCCAGTGTAAAACCATGTCTGGGACATGGCATCGGC
1 GCTAGTGTAAGA-CATGTCTGGGACATGGCATCGGC
11265534 ATCTTACCCT
Statistics
Matches: 242, Mismatches: 47, Indels: 59
0.70 0.14 0.17
Matches are distributed among these distances:
43 1 0.00
44 26 0.11
45 13 0.05
46 31 0.13
47 37 0.15
48 55 0.23
49 78 0.32
50 1 0.00
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.25
Consensus pattern (47 bp):
GCTAGTGTAAGACATGTCTGGGACATGGCATCGGCCATATGATGAGA
Found at i:11265475 original size:98 final size:97
Alignment explanation
Indices: 11265353--11265533 Score: 238
Period size: 98 Copynumber: 1.9 Consensus size: 97
11265343 CTTGATGTGT
* *
11265353 GTCAGTGTAAGACCTATCTAGGACATGGCATCGACACCGATAGATGAGAGCTAGTGTAAGACC-T
1 GTCAGTGTAAGACCTATCTAGGACATGGCATCGACACCGAT-G-TGAGAGCCAGTGTAAAACCAT
11265417 GTCTAGGACATGGCATCGGCCTCGATATATGAAA
64 GTCTAGGACATGGCATCGGCCTCGATATATGAAA
* * * *** **
11265451 GTCAGTGTAAGACCTATTTGGGACATGGCATTGACTTTGATGTGCTAGCCAGTGTAAAACCATGT
1 GTCAGTGTAAGACCTATCTAGGACATGGCATCGACACCGATGTGAGAGCCAGTGTAAAACCATGT
*
11265516 CTGGGACATGGCATCGGC
66 CTAGGACATGGCATCGGC
11265534 ATCTTACCCT
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
96 15 0.21
97 21 0.30
98 35 0.49
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.25
Consensus pattern (97 bp):
GTCAGTGTAAGACCTATCTAGGACATGGCATCGACACCGATGTGAGAGCCAGTGTAAAACCATGT
CTAGGACATGGCATCGGCCTCGATATATGAAA
Found at i:11265478 original size:142 final size:139
Alignment explanation
Indices: 11265216--11265531 Score: 334
Period size: 142 Copynumber: 2.2 Consensus size: 139
11265206 TTATGAGAGC
* * * ** * *
11265216 CAGTGTAAGACCATGTCTAGGACATGGCATTGGCATTGAGATGAGAGCTAGTGTGGACATGTCTG
1 CAGTGTAAGACCATATCTAGGACATGGCATCGACACCGAGATGAGAGCTAGTGTAGACATGTCTA
* * * *
11265281 GGACATGCATCGGCCTCGAGATATACAAGCTATTGTAGGACCTGTCTGGGGCATGGCCTCAGCTT
66 GGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTATCTGGGACATGGCCTCAGCTT
11265346 GATGTGTGT
131 GATGTGTGT
*
11265355 CAGTGTAAGACC-TATCTAGGACATGGCATCGACACCGATAGATGAGAGCTAGTGTAAGACCTGT
1 CAGTGTAAGACCATATCTAGGACATGGCATCGACACCG--AGATGAGAGCTAGTGT-AGACATGT
* * *
11265419 CTAGGACATGGCATCGGCCTCGATATATGA-AAG-TCAGTGTAAGACCTATTTGGGACATGGCAT
63 CTAGGACAT-GCATCGGCCTCGAGATAT-ACAAGCT-AGTGTAAGACCTATCTGGGACATGGCCT
* *
11265482 -TGACTTTGATGTGCTAGC
125 CAG-C-TTGATGTG-T-GT
* * *
11265500 CAGTGTAAAACCATGTCTGGGACATGGCATCG
1 CAGTGTAAGACCATATCTAGGACATGGCATCG
11265532 GCATCTTACC
Statistics
Matches: 146, Mismatches: 20, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
138 20 0.14
139 12 0.08
140 16 0.11
141 16 0.11
142 43 0.29
143 9 0.06
144 1 0.01
145 12 0.08
146 17 0.12
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (139 bp):
CAGTGTAAGACCATATCTAGGACATGGCATCGACACCGAGATGAGAGCTAGTGTAGACATGTCTA
GGACATGCATCGGCCTCGAGATATACAAGCTAGTGTAAGACCTATCTGGGACATGGCCTCAGCTT
GATGTGTGT
Found at i:11268560 original size:13 final size:13
Alignment explanation
Indices: 11268544--11268632 Score: 74
Period size: 13 Copynumber: 6.7 Consensus size: 13
11268534 AAATGAATAA
11268544 ATGAAATGGTTAT
1 ATGAAATGGTTAT
11268557 ATG-AATCGGTTAT
1 ATGAAAT-GGTTAT
* *
11268570 ATAGAAATAGATAT
1 AT-GAAATGGTTAT
*
11268584 ATGAAATAGTTAT
1 ATGAAATGGTTAT
*
11268597 ATG-AATCGATTAT
1 ATGAAAT-GGTTAT
* *
11268610 ATGGAAATAGATAT
1 AT-GAAATGGTTAT
11268624 ATGAAATGG
1 ATGAAATGG
11268633 AACATTAGAT
Statistics
Matches: 61, Mismatches: 9, Indels: 12
0.74 0.11 0.15
Matches are distributed among these distances:
12 6 0.10
13 36 0.59
14 13 0.21
15 6 0.10
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.34
Consensus pattern (13 bp):
ATGAAATGGTTAT
Found at i:11268588 original size:40 final size:40
Alignment explanation
Indices: 11268544--11268632 Score: 151
Period size: 40 Copynumber: 2.2 Consensus size: 40
11268534 AAATGAATAA
*
11268544 ATGAAATGGTTATATGAATCGGTTATATAGAAATAGATAT
1 ATGAAATGGTTATATGAATCGATTATATAGAAATAGATAT
* *
11268584 ATGAAATAGTTATATGAATCGATTATATGGAAATAGATAT
1 ATGAAATGGTTATATGAATCGATTATATAGAAATAGATAT
11268624 ATGAAATGG
1 ATGAAATGG
11268633 AACATTAGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
40 45 1.00
ACGTcount: A:0.44, C:0.02, G:0.20, T:0.34
Consensus pattern (40 bp):
ATGAAATGGTTATATGAATCGATTATATAGAAATAGATAT
Found at i:11268595 original size:27 final size:28
Alignment explanation
Indices: 11268565--11268630 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 28
11268555 ATATGAATCG
11268565 GTTATATAGAAATAGA-TATAT-GAAATA
1 GTTATAT-GAAATAGATTATATGGAAATA
*
11268592 GTTATATG-AATCGATTATATGGAAATA
1 GTTATATGAAATAGATTATATGGAAATA
*
11268619 GATATATGAAAT
1 GTTATATGAAAT
11268631 GGAACATTAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
25 5 0.15
26 6 0.18
27 20 0.59
28 3 0.09
ACGTcount: A:0.47, C:0.02, G:0.17, T:0.35
Consensus pattern (28 bp):
GTTATATGAAATAGATTATATGGAAATA
Found at i:11271363 original size:16 final size:17
Alignment explanation
Indices: 11271328--11271363 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
11271318 ATAAATGGGT
*
11271328 AAAATGATAATTATTGG
1 AAAAAGATAATTATTGG
11271345 AAAAAGATAATTA-TGG
1 AAAAAGATAATTATTGG
11271361 AAA
1 AAA
11271364 GTAATGATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 6 0.33
17 12 0.67
ACGTcount: A:0.56, C:0.00, G:0.17, T:0.28
Consensus pattern (17 bp):
AAAAAGATAATTATTGG
Found at i:11272022 original size:17 final size:18
Alignment explanation
Indices: 11271991--11272035 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
11271981 ATTATGTAGC
11271991 TAATTGTTAAAATGA-ATA
1 TAATT-TTAAAATGATATA
* *
11272009 TAATTTTAATATGATATT
1 TAATTTTAAAATGATATA
11272027 TAATTTTAA
1 TAATTTTAA
11272036 GTTCATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 8 0.33
18 16 0.67
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (18 bp):
TAATTTTAAAATGATATA
Found at i:11273516 original size:30 final size:30
Alignment explanation
Indices: 11273482--11273564 Score: 87
Period size: 30 Copynumber: 2.8 Consensus size: 30
11273472 TAAACTAAAA
11273482 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
1 TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
* * * * * *
11273512 TGAGCTGAGGC-TAAACTCCTAAGCTGAAGT
1 TGAGCT-AAGCTTTAGCTCGTGAGCTAAAGT
*
11273542 TGAGCTAAGGTTTAGCTCGTGAG
1 TGAGCTAAGCTTTAGCTCGTGAG
11273565 TTGAAAGTGA
Statistics
Matches: 39, Mismatches: 12, Indels: 4
0.71 0.22 0.07
Matches are distributed among these distances:
29 2 0.05
30 34 0.87
31 3 0.08
ACGTcount: A:0.27, C:0.17, G:0.29, T:0.28
Consensus pattern (30 bp):
TGAGCTAAGCTTTAGCTCGTGAGCTAAAGT
Found at i:11274515 original size:49 final size:49
Alignment explanation
Indices: 11274455--11274551 Score: 135
Period size: 49 Copynumber: 2.0 Consensus size: 49
11274445 TAGAATACCG
* * *
11274455 AGCATGGCATATTATGCGATGCAACA--TAATAATTAGATCAAATACAGAT
1 AGCATGACATATCATGCGATGCAACACTTAAT-A-TAGAACAAATACAGAT
11274504 AGCATGACATATCATGCGATGCAACACTTAATATAGAACAAATACAGA
1 AGCATGACATATCATGCGATGCAACACTTAATATAGAACAAATACAGA
11274552 CCCTAACCCC
Statistics
Matches: 43, Mismatches: 3, Indels: 4
0.86 0.06 0.08
Matches are distributed among these distances:
49 38 0.88
50 1 0.02
51 4 0.09
ACGTcount: A:0.44, C:0.16, G:0.15, T:0.24
Consensus pattern (49 bp):
AGCATGACATATCATGCGATGCAACACTTAATATAGAACAAATACAGAT
Found at i:11276464 original size:110 final size:110
Alignment explanation
Indices: 11276306--11276528 Score: 410
Period size: 110 Copynumber: 2.0 Consensus size: 110
11276296 ATGCGTACTT
*
11276306 GTTGATAAAGTGTGTAAGAGATGCCCTCTAATAATCCGAGAATCCTGTTTTCCGGCCGATTTGAT
1 GTTGATAAAGTGTGTAAGAGATGCCCTCTAATAATCCGAGAATCCTGTTTTCCGGCCAATTTGAT
* *
11276371 GCTTTTTCCGTTTGACGAATTTGATGTTATTCTTGGTTTGGATTG
66 GCTTTTGCCGTTCGACGAATTTGATGTTATTCTTGGTTTGGATTG
11276416 GTTGATAAAGTGTGTAAGAGATGCCCTCTAATAATCCGAGAATCCTGTTTTCCGGCCAATTTGAT
1 GTTGATAAAGTGTGTAAGAGATGCCCTCTAATAATCCGAGAATCCTGTTTTCCGGCCAATTTGAT
*
11276481 GCTTTTGCCGTTCGACGAGTTTGATGTTATTCTTGGTTTGGATTG
66 GCTTTTGCCGTTCGACGAATTTGATGTTATTCTTGGTTTGGATTG
11276526 GTT
1 GTT
11276529 AACCGCGCAT
Statistics
Matches: 109, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.21, C:0.16, G:0.24, T:0.39
Consensus pattern (110 bp):
GTTGATAAAGTGTGTAAGAGATGCCCTCTAATAATCCGAGAATCCTGTTTTCCGGCCAATTTGAT
GCTTTTGCCGTTCGACGAATTTGATGTTATTCTTGGTTTGGATTG
Found at i:11280952 original size:24 final size:25
Alignment explanation
Indices: 11280925--11280972 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
11280915 AGGGAAAGAT
11280925 CAATGCAAGGCCATCACT-TTAGAG
1 CAATGCAAGGCCATCACTCTTAGAG
* *
11280949 CAATGCAATGCTATCACTCTTAGA
1 CAATGCAAGGCCATCACTCTTAGA
11280973 AGCGAAACTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
CAATGCAAGGCCATCACTCTTAGAG
Found at i:11285005 original size:46 final size:46
Alignment explanation
Indices: 11284952--11285088 Score: 186
Period size: 46 Copynumber: 3.0 Consensus size: 46
11284942 TATATATACA
* * * *
11284952 CATCTCATACATATCTCACATTAGCCATTTGGCTTTACCACATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
11284998 CATCTCATACACGTTTCGCATTAGCCATTCGGCTTTACCTCATATC
1 CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
* *
11285044 TATCTCATACACATTTCGCATTAGCCATTC-GTTCTTACCACATAT
1 CATCTCATACACATTTCGCATTAGCCATTCGGCT-TTACCACATAT
11285089 ATACATGTTC
Statistics
Matches: 80, Mismatches: 10, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
45 2 0.03
46 78 0.98
ACGTcount: A:0.26, C:0.31, G:0.08, T:0.36
Consensus pattern (46 bp):
CATCTCATACACATTTCGCATTAGCCATTCGGCTTTACCACATATC
Found at i:11285135 original size:47 final size:47
Alignment explanation
Indices: 11285092--11286055 Score: 1748
Period size: 47 Copynumber: 20.4 Consensus size: 47
11285082 CACATATATA
* * * *
11285092 CATGTTCACATTCATCACATTGGCTATTCGGCCTTATCTCATATATG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
*
11285139 CATGTTCACATTCATCACATTGGCTATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285186 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285233 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285280 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285327 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285374 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285421 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285468 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285515 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285562 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285609 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285656 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285703 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285750 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285797 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285844 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
11285891 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
* **
11285938 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCATGCATATATATA
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCA--C--ACATACG
* * * * **
11285989 CAGGTTCACATTCATCACATTTGCCATTCGGCCTTATCTCATATATA
1 CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
**
11286036 CACATTCACATTCATCACAT
1 CATGTTCACATTCATCACAT
11286056 AAAATCCTAA
Statistics
Matches: 901, Mismatches: 12, Indels: 8
0.98 0.01 0.01
Matches are distributed among these distances:
47 859 0.95
49 2 0.00
51 40 0.04
ACGTcount: A:0.26, C:0.31, G:0.12, T:0.31
Consensus pattern (47 bp):
CATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACACATACG
Found at i:11300623 original size:68 final size:68
Alignment explanation
Indices: 11300545--11300678 Score: 250
Period size: 68 Copynumber: 2.0 Consensus size: 68
11300535 TTGTGACAGC
11300545 CCTAAAGTGACCCTAGTCGAAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAAATTATTTGAA
1 CCTAAAGTGACCCTAGTCGAAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAAATTATTTGAA
11300610 TTT
66 TTT
* *
11300613 CCTAAAGTGACCCTAGTCGGAAAGCGGTTTCGGGACCGCTAAATCGAGTCACCAAATTATTTGAA
1 CCTAAAGTGACCCTAGTCGAAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAAATTATTTGAA
11300678 T
66 T
11300679 AAGATAATTA
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
68 64 1.00
ACGTcount: A:0.31, C:0.23, G:0.22, T:0.25
Consensus pattern (68 bp):
CCTAAAGTGACCCTAGTCGAAAAGCGGTTTCGGGACCGCTAAACCGAGTCACCAAATTATTTGAA
TTT
Found at i:11300854 original size:50 final size:50
Alignment explanation
Indices: 11300779--11300878 Score: 191
Period size: 50 Copynumber: 2.0 Consensus size: 50
11300769 CCTTATGTGT
11300779 GACACTTGTGAAAGGTGATAGGTTAATCTATAAGGATCTATTAGTGCATG
1 GACACTTGTGAAAGGTGATAGGTTAATCTATAAGGATCTATTAGTGCATG
*
11300829 GACACTTGTGAAATGTGATAGGTTAATCTATAAGGATCTATTAGTGCATG
1 GACACTTGTGAAAGGTGATAGGTTAATCTATAAGGATCTATTAGTGCATG
11300879 TAATTAAAAA
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.32, C:0.10, G:0.25, T:0.33
Consensus pattern (50 bp):
GACACTTGTGAAAGGTGATAGGTTAATCTATAAGGATCTATTAGTGCATG
Found at i:11301534 original size:197 final size:197
Alignment explanation
Indices: 11301189--11301581 Score: 741
Period size: 197 Copynumber: 2.0 Consensus size: 197
11301179 TATGTTTGAC
11301189 GTTGTTCCATGAGATTCATGCATGTTTTTAGTTGTTAGCTTGAGTTTTACCTAGCCCATGGTTTA
1 GTTGTTCCATGAGATTCATGCATGTTTTTAGTTGTTAGCTTGAGTTTTACCTAGCCCATGGTTTA
*
11301254 AATCTTTGCTATGTGATGGAGATGATATTCGGCCATGGGTGTTGTCTTCTTGGTTGGTGTTTGAT
66 AATCTTTGCTATGTGATGAAGATGATATTCGGCCATGGGTGTTGTCTTCTTGGTTGGTGTTTGAT
* *
11301319 GTTGTGGTGATGAGGCATGAAGATGAGTTAAGTTTCGGCTAAGGTGGATTTGTGTTGATGTCATT
131 GTTGTGGTAATAAGGCATGAAGATGAGTTAAGTTTCGGCTAAGGTGGATTTGTGTTGATGTCATT
11301384 TT
196 TT
* *
11301386 GTTGTTCTATGAGATTCCTGCATGTTTTTAGTTGTTAGCTTGAGTTTTACCTAGCCCATGGTTTA
1 GTTGTTCCATGAGATTCATGCATGTTTTTAGTTGTTAGCTTGAGTTTTACCTAGCCCATGGTTTA
11301451 AATCTTTGCTATGTGATGAAGATGATATTCGGCCATGGGTGTTGTCTTCTTGGTTGGTGTTTGAT
66 AATCTTTGCTATGTGATGAAGATGATATTCGGCCATGGGTGTTGTCTTCTTGGTTGGTGTTTGAT
11301516 GTTGTGGTAATAAGGCATGAAGATGAGTTAAGTTTCGGCTAAGGTGGATTTGTGTTGATGTCATT
131 GTTGTGGTAATAAGGCATGAAGATGAGTTAAGTTTCGGCTAAGGTGGATTTGTGTTGATGTCATT
11301581 T
196 T
11301582 GCATGCTAAA
Statistics
Matches: 191, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
197 191 1.00
ACGTcount: A:0.19, C:0.11, G:0.28, T:0.42
Consensus pattern (197 bp):
GTTGTTCCATGAGATTCATGCATGTTTTTAGTTGTTAGCTTGAGTTTTACCTAGCCCATGGTTTA
AATCTTTGCTATGTGATGAAGATGATATTCGGCCATGGGTGTTGTCTTCTTGGTTGGTGTTTGAT
GTTGTGGTAATAAGGCATGAAGATGAGTTAAGTTTCGGCTAAGGTGGATTTGTGTTGATGTCATT
TT
Found at i:11302670 original size:40 final size:40
Alignment explanation
Indices: 11302562--11302789 Score: 343
Period size: 40 Copynumber: 5.7 Consensus size: 40
11302552 TATTCGGATG
* * ** *
11302562 ATAACCGGGCAAAGTCCCGAAGTCATTTGTGATAGTGACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
11302602 A-ATTCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATA-ACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
11302641 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
11302681 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
11302721 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
11302761 AGAACCGGGCTAAGTCCCGAAGGCATTTG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTG
11302790 AGCAAGTAGC
Statistics
Matches: 173, Mismatches: 12, Indels: 6
0.91 0.06 0.03
Matches are distributed among these distances:
39 34 0.20
40 139 0.80
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:11302778 original size:120 final size:119
Alignment explanation
Indices: 11302562--11302822 Score: 357
Period size: 120 Copynumber: 2.2 Consensus size: 119
11302552 TATTCGGATG
* * * * *
11302562 ATAACCGGGCAAAGTCCCGAAGTCATTTGTGATAGTGACTAATTCCGGGCTAAGCCCGAAGGCAT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTGACTAATACCGGGCTAAGCCCGAAGGCAC
* * *
11302627 TTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTA-CT
66 TTGTGCGAGTTACTAGAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAG-TAGCT
* *
11302681 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTAAGTCCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTGACTAAT-ACCGGGCTAAG-CCCGAAGGC
11302745 ACTTGTGCGAGTTACTAGAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCT
64 ACTTGTGCGAGTTACTAGAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCT
* * *
11302801 ATATCC-GGCTAAATTCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGG
11302823 TACTTGGTTT
Statistics
Matches: 126, Mismatches: 13, Indels: 6
0.87 0.09 0.04
Matches are distributed among these distances:
118 2 0.02
119 61 0.48
120 63 0.50
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (119 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGAGAGTGACTAATACCGGGCTAAGCCCGAAGGCAC
TTGTGCGAGTTACTAGAACCGGGCTAAGTCCCGAAGGCATTTGAGCAAGTAGCT
Found at i:11302803 original size:80 final size:79
Alignment explanation
Indices: 11302562--11302828 Score: 335
Period size: 80 Copynumber: 3.4 Consensus size: 79
11302552 TATTCGGATG
* * * * *
11302562 ATAACCGGGCAAAGTCCCGAAGTCATTTGTG-ATAGTGACTAATTCCGGGCTAAG-CCCGAAGGC
1 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCA-AGTTACTAA-ACCGGGCTAAGTCCCGAAGGC
11302625 ATTTGTGCGAGTTACT
64 ATTTGTGCGAGTTACT
* *
11302641 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCAAGTTACTA-AACCGGGCTAAGTCCCGAAGGCA
11302706 TTTGTGCGAGTTACT
65 TTTGTGCGAGTTACT
*
11302721 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCGAGTTACTAGAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCAAGTTACTA-AACCGGGCTAAGTCCCGAAGGCA
* *
11302786 TTTGAGCAAG-TAGCT
65 TTTGTGCGAGTTA-CT
* * * *
11302801 ATATCC-GGCTAAATTCCGAAGGTACTTG
1 ATAACCGGGCTAAGTCCCGAAGGCACTTG
11302829 GTTTGGGAAT
Statistics
Matches: 169, Mismatches: 15, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
79 66 0.39
80 103 0.61
ACGTcount: A:0.27, C:0.22, G:0.27, T:0.24
Consensus pattern (79 bp):
ATAACCGGGCTAAGTCCCGAAGGCACTTGTGCAAGTTACTAAACCGGGCTAAGTCCCGAAGGCAT
TTGTGCGAGTTACT
Found at i:11322068 original size:66 final size:69
Alignment explanation
Indices: 11321938--11322068 Score: 153
Period size: 66 Copynumber: 1.9 Consensus size: 69
11321928 GGGATGTATC
* * * *
11321938 CCATGTAGACAAGAGAGCTACGGGAGAGGATAAATGTAGTTAGGTCGCATGTGTGATTCCAAGTG
1 CCATGTAGACAAGAGAGCTAC--G-GAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTG
11322003 AAAGACA
63 AAAGACA
*
11322010 CCATGTAGACAAGAGAGCTAC-GA-GATAAAT-T-GACTAGGTCACATGGGTGATACTAAGTG
1 CCATGTAGACAAGAGAGCTACGGAGGATAAATGTAG-CTAGGTCACATGGGTGATACCAAGTG
11322069 TTCACCATGT
Statistics
Matches: 53, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
65 1 0.02
66 22 0.42
67 7 0.13
68 2 0.04
72 21 0.40
ACGTcount: A:0.35, C:0.15, G:0.29, T:0.21
Consensus pattern (69 bp):
CCATGTAGACAAGAGAGCTACGGAGGATAAATGTAGCTAGGTCACATGGGTGATACCAAGTGAAA
GACA
Found at i:11324342 original size:16 final size:17
Alignment explanation
Indices: 11324311--11324344 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11324301 CAATTCAGCC
*
11324311 CAAAATTCATACTTTTG
1 CAAAATTCACACTTTTG
11324328 CAAAATT-ACACTTTTG
1 CAAAATTCACACTTTTG
11324344 C
1 C
11324345 CCTTATTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.35, C:0.21, G:0.06, T:0.38
Consensus pattern (17 bp):
CAAAATTCACACTTTTG
Found at i:11329844 original size:20 final size:20
Alignment explanation
Indices: 11329819--11329864 Score: 83
Period size: 20 Copynumber: 2.3 Consensus size: 20
11329809 TATTACCTAG
11329819 GAAGAGAGGGAGAGATGGAA
1 GAAGAGAGGGAGAGATGGAA
11329839 GAAGAGAGGGAGAGATGGAA
1 GAAGAGAGGGAGAGATGGAA
*
11329859 GCAGAG
1 GAAGAG
11329865 TTGATCTCGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.43, C:0.02, G:0.50, T:0.04
Consensus pattern (20 bp):
GAAGAGAGGGAGAGATGGAA
Found at i:11340195 original size:20 final size:20
Alignment explanation
Indices: 11340170--11340214 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
11340160 AGGGACTAAA
* *
11340170 ATGAAAAGTTGTAAAATTTG
1 ATGAAAAATTCTAAAATTTG
*
11340190 ATGAAAAATTCTAAAATTTT
1 ATGAAAAATTCTAAAATTTG
11340210 ATGAA
1 ATGAA
11340215 TATATGTGTT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.49, C:0.02, G:0.13, T:0.36
Consensus pattern (20 bp):
ATGAAAAATTCTAAAATTTG
Found at i:11340891 original size:57 final size:58
Alignment explanation
Indices: 11340756--11340911 Score: 153
Period size: 57 Copynumber: 2.7 Consensus size: 58
11340746 CATTGACCTT
* * *
11340756 GTTATAGAAAGGATTTAGCCCGGA-TGGGTAATCCTGATATAATACCTCTCGAGCATAT
1 GTTATATAAAGGATTTAGCCTGGACT-GGTAATCCTGATATAATACCTCTCGAGCATAC
* *
11340814 GTTATGGT-TAGGATTTAGCCTGGACTGGTAATCCT-A-ATCAAGCT-CCTCT-GAGCATAC
1 GTTAT-ATAAAGGATTTAGCCTGGACTGGTAATCCTGATAT-AA--TACCTCTCGAGCATAC
* * *
11340871 GTTATATAAAGGATTTAGCCTGGACTAGTAGTCCTGTTATA
1 GTTATATAAAGGATTTAGCCTGGACTGGTAATCCTGATATA
11340912 CGGTATGTGG
Statistics
Matches: 80, Mismatches: 10, Indels: 16
0.75 0.09 0.15
Matches are distributed among these distances:
56 3 0.04
57 39 0.49
58 34 0.43
59 4 0.05
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.32
Consensus pattern (58 bp):
GTTATATAAAGGATTTAGCCTGGACTGGTAATCCTGATATAATACCTCTCGAGCATAC
Found at i:11351652 original size:40 final size:40
Alignment explanation
Indices: 11351569--11351871 Score: 396
Period size: 40 Copynumber: 7.6 Consensus size: 40
11351559 TTGAATGCTG
* * * * * *
11351569 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAA
* * * * *
11351609 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTATTAAA
11351649 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
11351689 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
11351729 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
*
11351769 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
11351809 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
* * *
11351848 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
11351872 TGAACGAGGA
Statistics
Matches: 241, Mismatches: 19, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
39 35 0.15
40 198 0.82
41 8 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (40 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
Found at i:11358694 original size:43 final size:42
Alignment explanation
Indices: 11358645--11358770 Score: 119
Period size: 43 Copynumber: 2.9 Consensus size: 42
11358635 TATCACCTAT
* * *
11358645 CAATGCCACTGTCCTAGACAGGGTCTTACACGAAATCA-TATAA
1 CAATGCCAATGTCC-AGACACGGTCTTACACGAAATCACAAT-A
* * * * *
11358688 CGATGCCAATGCCCCAGGCATGGTCTTACACGTAATCACAATA
1 CAATGCCAATG-TCCAGACACGGTCTTACACGAAATCACAATA
* *
11358731 CAATGCCAATGTCACAGACACGGTCTTACATGTAATCACA
1 CAATGCCAATGTC-CAGACACGGTCTTACACGAAATCACA
11358771 TCTCGGTAAT
Statistics
Matches: 68, Mismatches: 12, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
42 1 0.01
43 63 0.93
44 4 0.06
ACGTcount: A:0.33, C:0.28, G:0.17, T:0.22
Consensus pattern (42 bp):
CAATGCCAATGTCCAGACACGGTCTTACACGAAATCACAATA
Found at i:11366451 original size:43 final size:43
Alignment explanation
Indices: 11366342--11366506 Score: 122
Period size: 43 Copynumber: 3.9 Consensus size: 43
11366332 AGCTCGTACA
* * * * *
11366342 ATGCC-ATATCCCAGATATGGTCTTACATGTTAA-CACCAT-CG
1 ATGCCAATGTCCCAGACATGGTCTTACACG-AAATCACAATACG
* * * *
11366383 ATGCCATTGTCCTAGACAGGGTCTTACACGAAATCA-TATAACG
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAAT-ACG
* * * * * *
11366426 ATGCCAATGTCCCAGGCATGATCTTATATGTAATCACAATACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAATACG
* * *
11366469 ATGCCAATGTCACAGACATGGTCTTACATGTAATCACA
1 ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACA
11366507 TCTTGTTAAT
Statistics
Matches: 97, Mismatches: 22, Indels: 8
0.76 0.17 0.06
Matches are distributed among these distances:
41 9 0.09
42 20 0.21
43 66 0.68
44 2 0.02
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.27
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTACACGAAATCACAATACG
Found at i:11368391 original size:18 final size:19
Alignment explanation
Indices: 11368350--11368391 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
11368340 ACTCATAATG
*
11368350 CTTTTCTATTGATTTTGTA
1 CTTTTCTATTGATTTTGCA
11368369 CTTTTCTACTTG-TTTT-CA
1 CTTTTCTA-TTGATTTTGCA
11368387 CTTTT
1 CTTTT
11368392 TCTGAATTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
18 6 0.29
19 12 0.57
20 3 0.14
ACGTcount: A:0.12, C:0.17, G:0.07, T:0.64
Consensus pattern (19 bp):
CTTTTCTATTGATTTTGCA
Found at i:11371557 original size:47 final size:45
Alignment explanation
Indices: 11371394--11371753 Score: 194
Period size: 47 Copynumber: 7.7 Consensus size: 45
11371384 TGATTTGTGC
* * * **
11371394 GCCAGTGTAAGACATGTCTGGGACATGCTTC-GTCCACATTATGGGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAG-CCAGA-GATGACA
* *
11371440 GCCAGTGTAAGACATTGTCTGGGACATGGCATTGGCATCCAGACGA-G--G
1 GCCAGTGTAAGACA-TGTCTGGGACAT-GCA-T--CAGCCAGA-GATGACA
* * * *
11371488 GCTAGTGTAAGACATGTTTGGGACATGCATCAGCCATACTATGACA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAGA-GATGACA
* * **
11371534 GCCAGTGTAAGACCATCTCTGGGACATGGCATCGGCACAGAGATGAGT
1 GCCAGTGTAAGA-CATGTCTGGGACAT-GCATCAGC-CAGAGATGACA
* * * * *
11371582 GCCAATGTAAGACATGTCTGGGACATGCATCAGCCTCGACACAGATA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGCC-AGAGA-TGACA
* * * * * * *
11371629 GCCAGTGTAAGACGTGTCTGGGACACGCATCGGCTAAAAGTTG--T
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC-CAGAGATGACA
* * * * *
11371673 GCTAGTGTAAGACATGTCTGGGACATGCATCATCACGCGTATATGAGA
1 GCCAGTGTAAGACATGTCTGGGACATGCATCAGC-C-AG-AGATGACA
11371721 GCCAGTGTAAGACCATGTC-GGAGACATGGCATC
1 GCCAGTGTAAGA-CATGTCTGG-GACAT-GCATC
11371754 GGCAATATAA
Statistics
Matches: 240, Mismatches: 52, Indels: 40
0.72 0.16 0.12
Matches are distributed among these distances:
43 8 0.03
44 30 0.12
45 2 0.01
46 42 0.17
47 81 0.34
48 50 0.21
49 15 0.06
50 6 0.03
51 6 0.03
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (45 bp):
GCCAGTGTAAGACATGTCTGGGACATGCATCAGCCAGAGATGACA
Found at i:11371558 original size:94 final size:92
Alignment explanation
Indices: 11371397--11371757 Score: 344
Period size: 94 Copynumber: 3.9 Consensus size: 92
11371387 TTTGTGCGCC
* * * *
11371397 AGTGTAAGACATGTCTGGGACATGCTTC-GTCCACATTATGGGAGCCAGTGTAAGACATTGTCTG
1 AGTGTAAGACATGTCTGGGACATGCATCAG-CCATACTATGAGAGCCAGTGTAAGACA-TGTCTG
* * *
11371461 GGACATGGCATTGGCATCCAGACGAGGGCT
64 GGACATGGCATCGGCAT-CAGAAGAGTGCT
* * *
11371491 AGTGTAAGACATGTTTGGGACATGCATCAGCCATACTATGACAGCCAGTGTAAGACCATCTCTGG
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGA-CATGTCTGG
*
11371556 GACATGGCATCGGCA-CAGAGATGAGTGCC
65 GACATGGCATCGGCATCAGA-A-GAGTGCT
* * * *
11371585 AATGTAAGACATGTCTGGGACATGCATCAGCC-TCGAC-ACAGATAGCCAGTGTAAGACGTGTCT
1 AGTGTAAGACATGTCTGGGACATGCATCAGCCAT--ACTA-TGAGAGCCAGTGTAAGACATGTCT
* * *
11371648 GGGACA-CGCATCGGC-T-AAAAGTTGTGCT
63 GGGACATGGCATCGGCATCAGAAG-AGTGCT
* *
11371676 AGTGTAAGACATGTCTGGGACATGCATCATCACGCGTA-TATGAGAGCCAGTGTAAGACCATGTC
1 AGTGTAAGACATGTCTGGGACATGCATCA--GC-CATACTATGAGAGCCAGTGTAAGA-CATGTC
11371740 -GGAGACATGGCATCGGCA
62 TGG-GACATGGCATCGGCA
11371758 ATATAACCCA
Statistics
Matches: 222, Mismatches: 27, Indels: 35
0.78 0.10 0.12
Matches are distributed among these distances:
90 1 0.00
91 33 0.15
92 23 0.10
93 21 0.09
94 123 0.55
95 21 0.09
ACGTcount: A:0.28, C:0.21, G:0.29, T:0.22
Consensus pattern (92 bp):
AGTGTAAGACATGTCTGGGACATGCATCAGCCATACTATGAGAGCCAGTGTAAGACATGTCTGGG
ACATGGCATCGGCATCAGAAGAGTGCT
Found at i:11374126 original size:68 final size:68
Alignment explanation
Indices: 11374054--11374237 Score: 223
Period size: 68 Copynumber: 2.7 Consensus size: 68
11374044 CATCATGTGT
* * *
11374054 ACAAGAAG-GCTAC-AAGATACTATATAGTAGCTTGGTCACATGTGTGATACGGGATGTATCCCA
1 ACAAGAAGAGCTACGAAGAGA-TAAAT-GTAGCTAGGTCACATGTGTGATACGGGATGTATCCCA
11374117 TGTAG
64 TGTAG
* *
11374122 ACAAG-AGAGCTACGTGAGAGATAAATGTAGCTAGGTCACATGTGTGATGCGGGATGTATCCCAT
1 ACAAGAAGAGCTACG-AAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCAT
11374186 GTAG
65 GTAG
* * * *
11374190 ACAAG-AGAGCTATGTGAGAGATAAATGTAGCTAGGTCGCATGAGTGAT
1 ACAAGAAGAGCTACG-AAGAGATAAATGTAGCTAGGTCACATGTGTGAT
11374238 TCCAAGTGAA
Statistics
Matches: 105, Mismatches: 8, Indels: 6
0.88 0.07 0.05
Matches are distributed among these distances:
67 2 0.02
68 95 0.90
69 4 0.04
70 4 0.04
ACGTcount: A:0.33, C:0.14, G:0.29, T:0.24
Consensus pattern (68 bp):
ACAAGAAGAGCTACGAAGAGATAAATGTAGCTAGGTCACATGTGTGATACGGGATGTATCCCATG
TAG
Found at i:11377917 original size:38 final size:38
Alignment explanation
Indices: 11377874--11378082 Score: 148
Period size: 38 Copynumber: 5.0 Consensus size: 38
11377864 TTTCAAATTA
*
11377874 ACATGTATAACCGTGGCATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
* **
11377912 ACATGTTTAACCACGGTATATCCACTTAGCACCACGTTGAT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACG-T--T
* *
11377953 GAATCAATATATGTAACCGTGGCATATCCACTTAGCACCACGTT
1 --A-C-ATGTA--TAACCGTGGTATATCCACTTAGCACCACGTT
* * * *
11377997 ACATGTATCAATATGTGTAATCTTGGTATACCCACTTAGCACCATGTT
1 ACATG------TA----TAACCGTGGTATATCCACTTAGCACCACGTT
*
11378045 ACACGTATAACCGTGGTATATCCACTTAGCACCACGTT
1 ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
11378083 TTTCCATTTC
Statistics
Matches: 134, Mismatches: 20, Indels: 34
0.71 0.11 0.18
Matches are distributed among these distances:
38 59 0.44
39 1 0.01
40 2 0.01
41 2 0.01
42 3 0.02
43 1 0.01
44 2 0.01
45 3 0.02
46 3 0.02
47 26 0.19
48 32 0.24
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (38 bp):
ACATGTATAACCGTGGTATATCCACTTAGCACCACGTT
Found at i:11378032 original size:48 final size:48
Alignment explanation
Indices: 11377926--11378052 Score: 166
Period size: 48 Copynumber: 2.7 Consensus size: 48
11377916 GTTTAACCAC
* *
11377926 GGTATATCCACTTAGCACCACGTT-GATGAATCAATATATGTAACCGT
1 GGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACCGT
* * * *
11377973 GGCATATCCACTTAGCACCACGTTACATGTATCAATATGTGTAATCTT
1 GGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACCGT
* * *
11378021 GGTATACCCACTTAGCACCATGTTACACGTAT
1 GGTATATCCACTTAGCACCACGTTACATGTAT
11378053 AACCGTGGTA
Statistics
Matches: 69, Mismatches: 10, Indels: 1
0.86 0.12 0.01
Matches are distributed among these distances:
47 23 0.33
48 46 0.67
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.31
Consensus pattern (48 bp):
GGTATATCCACTTAGCACCACGTTACATGTATCAATATATGTAACCGT
Found at i:11382805 original size:35 final size:35
Alignment explanation
Indices: 11382757--11382827 Score: 115
Period size: 35 Copynumber: 2.0 Consensus size: 35
11382747 CACGAGTCTG
11382757 TAGGGAAAAAAAGGGGTATTGTTTACTCAAACGAA
1 TAGGGAAAAAAAGGGGTATTGTTTACTCAAACGAA
* * *
11382792 TAGGGAAATAAAGGGGTGTTGTTTAGTCAAACGAA
1 TAGGGAAAAAAAGGGGTATTGTTTACTCAAACGAA
11382827 T
1 T
11382828 GTTTTAGTGA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 33 1.00
ACGTcount: A:0.39, C:0.07, G:0.28, T:0.25
Consensus pattern (35 bp):
TAGGGAAAAAAAGGGGTATTGTTTACTCAAACGAA
Found at i:11387580 original size:22 final size:22
Alignment explanation
Indices: 11387555--11387597 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
11387545 GGCCTTTAGT
11387555 CGTCCTGCCTACGGCGTTGAGC
1 CGTCCTGCCTACGGCGTTGAGC
* * *
11387577 CGTCCTGTCTATGGTGTTGAG
1 CGTCCTGCCTACGGCGTTGAG
11387598 TCGTTCTATT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.09, C:0.28, G:0.33, T:0.30
Consensus pattern (22 bp):
CGTCCTGCCTACGGCGTTGAGC
Found at i:11391214 original size:27 final size:27
Alignment explanation
Indices: 11391167--11391218 Score: 79
Period size: 27 Copynumber: 1.9 Consensus size: 27
11391157 CATCTGATAT
*
11391167 TGATTCTGTAATAGGTTTAGGCCCAGC
1 TGATTCTGTAATAGGTCTAGGCCCAGC
11391194 TGATTCTGTTAAT-GGTCTAGGCCCA
1 TGATTCTG-TAATAGGTCTAGGCCCA
11391219 ACTGTTACTG
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
27 19 0.83
28 4 0.17
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (27 bp):
TGATTCTGTAATAGGTCTAGGCCCAGC
Found at i:11392219 original size:12 final size:13
Alignment explanation
Indices: 11392202--11392239 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
11392192 ATCCTGGAAT
11392202 ATTAAG-ACAAGA
1 ATTAAGAACAAGA
*
11392214 ATTAAGAACACATA
1 ATTAAGAACA-AGA
11392228 ATTAAGAACAAG
1 ATTAAGAACAAG
11392240 CCAAATATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 6 0.27
13 4 0.18
14 12 0.55
ACGTcount: A:0.58, C:0.11, G:0.13, T:0.18
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:11394222 original size:40 final size:39
Alignment explanation
Indices: 11394186--11394361 Score: 183
Period size: 40 Copynumber: 4.4 Consensus size: 39
11394176 ATATCCGGAC
* *
11394186 TAAGATCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGT
1 TAAG-TCCGAAGGCATTCGTGCGAGATACTAAATCCGGGT
* *
11394226 TAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGT
1 TAAGT-CCGAAGGCATTCGTGCGAGATACTAAATCCGGGT
* **
11394266 TAAGTCTCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGT
1 TAAGTC-CGAAGGCATTCGTGCGAGATACTAAATCCGGGT
* * * * *
11394306 TATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGC
1 TAAGT-CCGAAGGCATTCGTGCGAGATACTAAATCCGGGT
*
11394345 TATGTCCCGAAGGCATT
1 TAAGT-CCGAAGGCATT
11394362 TGAACGAGGA
Statistics
Matches: 122, Mismatches: 11, Indels: 7
0.87 0.08 0.05
Matches are distributed among these distances:
39 36 0.30
40 85 0.70
41 1 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (39 bp):
TAAGTCCGAAGGCATTCGTGCGAGATACTAAATCCGGGT
Found at i:11394277 original size:80 final size:78
Alignment explanation
Indices: 11394139--11394363 Score: 243
Period size: 80 Copynumber: 2.8 Consensus size: 78
11394129 TTGAATGCTG
* * * * * * *
11394139 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCCTTT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTAATAAATCCGGGCTAAG-TCCGAAGGCATTT
11394204 GTGCGAGATACTAAA
64 GTGCGAGATACTAAA
* * *
11394219 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCTCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTAATAAATCCGGGCTAAGTC-CGAAGGCATTT
* **
11394284 GTGCGAGTTGTTAAA
64 GTGCGAGATACTAAA
* * * * *
11394299 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGT-CCGAAGGCATTTG
11394364 AACGAGGAGC
Statistics
Matches: 122, Mismatches: 20, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
79 35 0.29
80 83 0.68
81 4 0.03
ACGTcount: A:0.24, C:0.20, G:0.28, T:0.27
Consensus pattern (78 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTAATAAATCCGGGCTAAGTCCGAAGGCATTTGT
GCGAGATACTAAA
Found at i:11394382 original size:79 final size:80
Alignment explanation
Indices: 11394214--11394396 Score: 217
Period size: 79 Copynumber: 2.3 Consensus size: 80
11394204 GTGCGAGATA
* * * *
11394214 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTCTCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
** **
11394279 CATTCGTGCGAGTTG
66 CATTCGAACGAGGAG
* * * *
11394294 TTAAATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
*
11394358 CATTTGAACGAGGAG
66 CATTCGAACGAGGAG
* *
11394373 CTATATCC-GGTTAAATCCCGAAGG
1 CTAAATCCGGGTTAAGTCCCGAAGG
11394397 TACGTGATTT
Statistics
Matches: 86, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
78 14 0.16
79 45 0.52
80 27 0.31
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.26
Consensus pattern (80 bp):
CTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTACTAAAACCGGGCTAAGTCCCGAAGG
CATTCGAACGAGGAG
Found at i:11399859 original size:55 final size:55
Alignment explanation
Indices: 11399764--11399881 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 55
11399754 TAGGCCCACA
* ** * *
11399764 CCCGTGTTAATTTAACAGGTTCGACCACGAGTACTTGGCACGGTCATGTCGTACG
1 CCCGTGTTAATTTAACAGGTTAGACCACGAGTACCAGGCACGGGCATGTCGCACG
* * * *
11399819 CCCGTGTTAATTTGACAGGTTAGACCACGATTTCCAGGCACGGGCGTGTCGCACG
1 CCCGTGTTAATTTAACAGGTTAGACCACGAGTACCAGGCACGGGCATGTCGCACG
*
11399874 CTCGTGTT
1 CCCGTGTT
11399882 GTTTTGGCAG
Statistics
Matches: 53, Mismatches: 10, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
55 53 1.00
ACGTcount: A:0.19, C:0.26, G:0.27, T:0.27
Consensus pattern (55 bp):
CCCGTGTTAATTTAACAGGTTAGACCACGAGTACCAGGCACGGGCATGTCGCACG
Found at i:11401734 original size:13 final size:13
Alignment explanation
Indices: 11401716--11401743 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
11401706 GCTCGGTAGG
11401716 GACACGCCCGTGT
1 GACACGCCCGTGT
11401729 GACACGCCCGTGT
1 GACACGCCCGTGT
11401742 GA
1 GA
11401744 GTTGTGCTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.18, C:0.36, G:0.32, T:0.14
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:11410558 original size:46 final size:45
Alignment explanation
Indices: 11410386--11410555 Score: 173
Period size: 46 Copynumber: 3.7 Consensus size: 45
11410376 TGTAACCCGC
* * *
11410386 CCATAAGTGAACACAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGAC-TTCGCAT
** *
11410432 CCATAAGTGAACTCGGACTCAACTCAGTGAGCTCGGA-TGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACTTCGC-A--T
* *** *
11410478 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACTTTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGAC-TTCGCAT
11410525 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
11410556 TTCAGATGCT
Statistics
Matches: 99, Mismatches: 18, Indels: 14
0.76 0.14 0.11
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 60 0.61
47 31 0.31
49 3 0.03
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACTTCGCAT
Found at i:11412988 original size:15 final size:16
Alignment explanation
Indices: 11412962--11413022 Score: 83
Period size: 15 Copynumber: 4.0 Consensus size: 16
11412952 CAAGGAAACC
11412962 GAATAAAGAAATCCAA
1 GAATAAAGAAATCCAA
*
11412978 G-ATAGAGAAATCC-A
1 GAATAAAGAAATCCAA
11412992 GAATAAAGAAATCC-A
1 GAATAAAGAAATCCAA
*
11413007 GAATAAAGAAACCCAA
1 GAATAAAGAAATCCAA
11413023 TATACGATAC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
14 2 0.05
15 36 0.90
16 2 0.05
ACGTcount: A:0.59, C:0.15, G:0.15, T:0.11
Consensus pattern (16 bp):
GAATAAAGAAATCCAA
Found at i:11416029 original size:46 final size:45
Alignment explanation
Indices: 11415962--11416131 Score: 162
Period size: 46 Copynumber: 3.7 Consensus size: 45
11415952 TGTAACCCGC
* *
11415962 CCATAAATGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
* * * *
11416008 CCATAAGTGAACTCGGACTCAACTCAATGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGG--GCTTCGCAT
* *** * * * *
11416054 ACATCTCTCGAACTCGGACTCAACTCAACAAGTTCAGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGGC-TTCGCAT
11416101 CCATAAGTGAACTCGGACTCAACTCAACGAG
1 CCATAAGTGAACTCGGACTCAACTCAACGAG
11416132 TTCTGATGCT
Statistics
Matches: 96, Mismatches: 23, Indels: 10
0.74 0.18 0.08
Matches are distributed among these distances:
45 1 0.01
46 62 0.65
47 31 0.32
48 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCTTCGCAT
Found at i:11416140 original size:93 final size:93
Alignment explanation
Indices: 11415970--11416140 Score: 261
Period size: 93 Copynumber: 1.8 Consensus size: 93
11415960 GCCCATAAAT
* * * *
11415970 GAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
*
11416035 TGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
11416063 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCAGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
* *
11416128 CGAGTTCTGATGC
66 CGAGCTCGGATGC
11416141 TCAACCATCC
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 69 1.00
ACGTcount: A:0.29, C:0.29, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCAGACTCAACTCAACAAGCTCAGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:11416156 original size:46 final size:45
Alignment explanation
Indices: 11416063--11416148 Score: 111
Period size: 46 Copynumber: 1.9 Consensus size: 45
11416053 TACATCTCTC
* *
11416063 GAACTCGGACTCAACTCAACAAGTTCAGACATTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACAAGTTCAGA-ATGCGCAACCATAAGT
* * *
11416109 GAACTCGGACTCAACTCAACGAGTTCTG-ATGCTCAACCAT
1 GAACTCGGACTCAACTCAACAAGTTCAGAATGCGCAACCAT
11416149 CCTAGTGACA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
44 9 0.26
46 26 0.74
ACGTcount: A:0.33, C:0.29, G:0.16, T:0.22
Consensus pattern (45 bp):
GAACTCGGACTCAACTCAACAAGTTCAGAATGCGCAACCATAAGT
Found at i:11428264 original size:43 final size:42
Alignment explanation
Indices: 11428168--11428310 Score: 125
Period size: 44 Copynumber: 3.4 Consensus size: 42
11428158 CAACTGCATT
* * * **
11428168 TGGCACTAAGTGTGCGATTCAAAATAGCTTCGACT-A-T-AAA
1 TGGCACTAAGTGTGCG-TACAAGATAGCTTCGATTAATTGTGA
* *
11428208 TAGCACTAAGTGTGCG-A-AATGGTATAGCTTCGATTAATTTTGA
1 TGGCACTAAGTGTGCGTACAA--G-ATAGCTTCGATTAATTGTGA
*
11428251 TGGCACTATGTGTGCAGTACCAAGATAGCTTCGATTAATTGTGA
1 TGGCACTAAGTGTGC-GTA-CAAGATAGCTTCGATTAATTGTGA
11428295 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
11428311 GAATCGTTCT
Statistics
Matches: 83, Mismatches: 10, Indels: 17
0.75 0.09 0.15
Matches are distributed among these distances:
37 2 0.02
40 26 0.31
41 1 0.01
42 1 0.01
43 15 0.18
44 34 0.41
45 2 0.02
47 2 0.02
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.31
Consensus pattern (42 bp):
TGGCACTAAGTGTGCGTACAAGATAGCTTCGATTAATTGTGA
Found at i:11428324 original size:44 final size:44
Alignment explanation
Indices: 11428210--11428327 Score: 130
Period size: 44 Copynumber: 2.7 Consensus size: 44
11428200 ACTATAAATA
* * *
11428210 GCACTAAGTGTGCGAAAT-GGTATAGCTTCGATTAATTTTGATG
1 GCACTAAGTGTGCGGAATCGATATAGCTTCGATTAATTGTGATG
* * * * * *
11428253 GCACTATGTGTGCAGTACCAAGATAGCTTCGATTAATTGTGATG
1 GCACTAAGTGTGCGGAATCGATATAGCTTCGATTAATTGTGATG
* *
11428297 GCACTAAGTGTGCGGAATCGTTCTAGCTTCG
1 GCACTAAGTGTGCGGAATCGATATAGCTTCG
11428328 GCTAAACCTT
Statistics
Matches: 57, Mismatches: 17, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
43 13 0.23
44 44 0.77
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.32
Consensus pattern (44 bp):
GCACTAAGTGTGCGGAATCGATATAGCTTCGATTAATTGTGATG
Found at i:11431539 original size:30 final size:30
Alignment explanation
Indices: 11431505--11431565 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
11431495 TCCTTAACTC
11431505 AAACTTTGGAAAAATTACAATTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
* * * * *
11431535 AAACTTTTGCATATTTACAGTTTTTCCCCT
1 AAACTTTGGAAAAATTACAATTTTTCCCCT
11431565 A
1 A
11431566 GGCTCGATAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.21, G:0.07, T:0.41
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTTCCCCT
Found at i:11434666 original size:32 final size:32
Alignment explanation
Indices: 11434625--11434685 Score: 122
Period size: 32 Copynumber: 1.9 Consensus size: 32
11434615 TCGATGTTGC
11434625 AGGTGAATTAAATGAACTAGTATTTCCTTTGT
1 AGGTGAATTAAATGAACTAGTATTTCCTTTGT
11434657 AGGTGAATTAAATGAACTAGTATTTCCTT
1 AGGTGAATTAAATGAACTAGTATTTCCTT
11434686 CCCAACGGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (32 bp):
AGGTGAATTAAATGAACTAGTATTTCCTTTGT
Done.