Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 44 of 186
Found at i:13104616 original size:20 final size:20
Alignment explanation
Indices: 13104591--13104628 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13104581 ACAAAAGATT
*
13104591 ATAATAGTTTGTATAATTAG
1 ATAATACTTTGTATAATTAG
*
13104611 ATAATACTTTGTGTAATT
1 ATAATACTTTGTATAATT
13104629 TATTTTGTTC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.37, C:0.03, G:0.13, T:0.47
Consensus pattern (20 bp):
ATAATACTTTGTATAATTAG
Found at i:13105422 original size:21 final size:22
Alignment explanation
Indices: 13105396--13105443 Score: 71
Period size: 21 Copynumber: 2.2 Consensus size: 22
13105386 AGTACTTATA
13105396 TTTTTATTGTTTTCTTACT-TT
1 TTTTTATTGTTTTCTTACTATT
* *
13105417 TTTTTATTGTTTTGTTGCTATT
1 TTTTTATTGTTTTCTTACTATT
13105439 TTTTT
1 TTTTT
13105444 GTTATTTTTC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
21 17 0.71
22 7 0.29
ACGTcount: A:0.08, C:0.06, G:0.08, T:0.77
Consensus pattern (22 bp):
TTTTTATTGTTTTCTTACTATT
Found at i:13116416 original size:98 final size:98
Alignment explanation
Indices: 13116297--13116559 Score: 403
Period size: 92 Copynumber: 2.7 Consensus size: 98
13116287 TTTGAGTACT
* ** *
13116297 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAGTG
* *
13116362 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTGATAGCTTCAGCTACACTTA
13116395 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC-----
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAGTG
*
13116455 -AAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 AAAAGTGATAAGTGATAGCTTCAGCTACACTTA
13116487 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAGAGT
1 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACA-AGT
*
13116552 GATAAGTG
65 GAAAAGTG
13116560 GCTACACTTA
Statistics
Matches: 150, Mismatches: 8, Indels: 13
0.88 0.05 0.08
Matches are distributed among these distances:
92 89 0.59
98 56 0.37
99 5 0.03
ACGTcount: A:0.36, C:0.15, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAGTG
AAAAGTGATAAGTGATAGCTTCAGCTACACTTA
Found at i:13116440 original size:46 final size:46
Alignment explanation
Indices: 13116363--13116559 Score: 358
Period size: 46 Copynumber: 4.3 Consensus size: 46
13116353 TGACAAGTGA
** *
13116363 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
13116409 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
13116455 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
13116501 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
*
13116547 AGAGTGATAAGTG
1 AAAGTGATAAGTG
13116560 GCTACACTTA
Statistics
Matches: 147, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
46 147 1.00
ACGTcount: A:0.37, C:0.14, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
Found at i:13116566 original size:37 final size:36
Alignment explanation
Indices: 13116523--13116631 Score: 166
Period size: 37 Copynumber: 3.0 Consensus size: 36
13116513 GATAGCTTTA
13116523 GCTACACTTATCTGATCAAGAGACAGAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACA-AGTGATAAGTG
* *
13116560 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAGAC-AAGTGATAAGTG
*
13116597 GCTACACTTATCTGATC-AGGGACAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAGTGATAAGTG
13116632 ATCATACGTA
Statistics
Matches: 66, Mismatches: 5, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
35 11 0.17
36 4 0.06
37 50 0.76
38 1 0.02
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGAGACAAGTGATAAGTG
Found at i:13119720 original size:43 final size:42
Alignment explanation
Indices: 13119653--13119737 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 42
13119643 ATGTTAGTGT
13119653 TTACAATGTAGGGAAAAGGATTAAGGGTTATTAGTACTTTGA
1 TTACAATGTAGGGAAAAGGATTAAGGGTTATTAGTACTTTGA
* *
13119695 NTTACAATGTAGGGAAATGGGTTAAGGGTTATTAGTACTTTGA
1 -TTACAATGTAGGGAAAAGGATTAAGGGTTATTAGTACTTTGA
13119738 AATTATTGCC
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.33, C:0.05, G:0.27, T:0.34
Consensus pattern (42 bp):
TTACAATGTAGGGAAAAGGATTAAGGGTTATTAGTACTTTGA
Found at i:13134861 original size:27 final size:27
Alignment explanation
Indices: 13134830--13134884 Score: 92
Period size: 27 Copynumber: 2.0 Consensus size: 27
13134820 ATATATGTGT
13134830 TAGTTTAGTTATGCATGTGCATCGGGA
1 TAGTTTAGTTATGCATGTGCATCGGGA
* *
13134857 TAGTTTATTTGTGCATGTGCATCGGGA
1 TAGTTTAGTTATGCATGTGCATCGGGA
13134884 T
1 T
13134885 GAGCTTGGTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.20, C:0.11, G:0.29, T:0.40
Consensus pattern (27 bp):
TAGTTTAGTTATGCATGTGCATCGGGA
Found at i:13135150 original size:24 final size:24
Alignment explanation
Indices: 13135100--13135152 Score: 61
Period size: 24 Copynumber: 2.2 Consensus size: 24
13135090 CTGTGTCTGT
* * *
13135100 ATTTGTATCTGAATCTGAATACGC
1 ATTTGTATCTGAATATGAAAACAC
* *
13135124 ATTTGTATCTGATTATGAAAATAC
1 ATTTGTATCTGAATATGAAAACAC
13135148 ATTTG
1 ATTTG
13135153 AATTTGTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.42
Consensus pattern (24 bp):
ATTTGTATCTGAATATGAAAACAC
Found at i:13135164 original size:24 final size:24
Alignment explanation
Indices: 13135123--13135193 Score: 81
Period size: 24 Copynumber: 3.0 Consensus size: 24
13135113 TCTGAATACG
*
13135123 CATTTGTATCTG-ATTATGAAAATA
1 CATTTGAATCTGTA-TATGAAAATA
* *
13135147 CATTTGAATTTGTATATGAGAATA
1 CATTTGAATCTGTATATGAAAATA
**
13135171 TGTTTGAATCTGTATATGAAAAT
1 CATTTGAATCTGTATATGAAAAT
13135194 GTATATGTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
24 38 0.97
25 1 0.03
ACGTcount: A:0.37, C:0.06, G:0.15, T:0.42
Consensus pattern (24 bp):
CATTTGAATCTGTATATGAAAATA
Found at i:13136372 original size:35 final size:35
Alignment explanation
Indices: 13136321--13136390 Score: 131
Period size: 35 Copynumber: 2.0 Consensus size: 35
13136311 TAATAAAAAT
*
13136321 ACAATCCAAATTATAACTAACTACTTCCCCACTAA
1 ACAATCCAAATCATAACTAACTACTTCCCCACTAA
13136356 ACAATCCAAATCATAACTAACTACTTCCCCACTAA
1 ACAATCCAAATCATAACTAACTACTTCCCCACTAA
13136391 TCTAACACTC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.43, C:0.33, G:0.00, T:0.24
Consensus pattern (35 bp):
ACAATCCAAATCATAACTAACTACTTCCCCACTAA
Found at i:13146808 original size:20 final size:20
Alignment explanation
Indices: 13146779--13146847 Score: 111
Period size: 20 Copynumber: 3.5 Consensus size: 20
13146769 CTGTATTTAG
*
13146779 GAAAAATTTTGAAATTTCAT
1 GAAAAATTTTGAAATTTCAC
*
13146799 GAAAAGTTTTGAAATTTCAC
1 GAAAAATTTTGAAATTTCAC
13146819 GAAAAATTTTGAAATTTCAC
1 GAAAAATTTTGAAATTTCAC
*
13146839 AAAAAATTT
1 GAAAAATTT
13146848 CCTGAACTTC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 45 1.00
ACGTcount: A:0.46, C:0.07, G:0.10, T:0.36
Consensus pattern (20 bp):
GAAAAATTTTGAAATTTCAC
Found at i:13146951 original size:19 final size:20
Alignment explanation
Indices: 13146921--13146959 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
13146911 AAAGGGACAT
13146921 TATGATTAAATTATGATGTG
1 TATGATTAAATTATGATGTG
*
13146941 TATGA-TAAATTATTATGTG
1 TATGATTAAATTATGATGTG
13146960 ATTGTTCATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.72
20 5 0.28
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (20 bp):
TATGATTAAATTATGATGTG
Found at i:13151320 original size:45 final size:43
Alignment explanation
Indices: 13151187--13151320 Score: 114
Period size: 45 Copynumber: 3.1 Consensus size: 43
13151177 ATGCTATCTC
* * **
13151187 ATATCGATGCCACTGTCCCAGAAAG-GGTCTTACACGAATTAA-
1 ATATTGATGCCAATGTCCCAG-AAGTGGTCTTACACGAAACAAT
* * *
13151229 ATA-TGATGCCGATGTCCCA-AATATGGTCTTACACGTAACCATAT
1 ATATTGATGCCAATGTCCCAGAA-GTGGTCTTACACG-AAACA-AT
*
13151273 ATATTGATGCCAATGTCCCAGACGTGGTCTTACACGAGAACACAT
1 ATATTGATGCCAATGTCCCAGAAGTGGTCTTACACGA-AACA-AT
13151318 ATA
1 ATA
13151321 GGAAATCCTA
Statistics
Matches: 73, Mismatches: 11, Indels: 13
0.75 0.11 0.13
Matches are distributed among these distances:
39 2 0.03
41 24 0.33
42 6 0.08
43 1 0.01
44 4 0.05
45 35 0.48
46 1 0.01
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (43 bp):
ATATTGATGCCAATGTCCCAGAAGTGGTCTTACACGAAACAAT
Found at i:13152258 original size:21 final size:22
Alignment explanation
Indices: 13152234--13152274 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13152224 ATAAATTTAC
* *
13152234 ATATATAACCTTTAT-TAATTA
1 ATATAAAACCATTATATAATTA
13152255 ATATAAAACCATTATATAAT
1 ATATAAAACCATTATATAAT
13152275 AAGGTCATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.49, C:0.10, G:0.00, T:0.41
Consensus pattern (22 bp):
ATATAAAACCATTATATAATTA
Found at i:13154383 original size:5 final size:5
Alignment explanation
Indices: 13154373--13154423 Score: 50
Period size: 5 Copynumber: 9.6 Consensus size: 5
13154363 AGCCACCCCC
*
13154373 TTTTA TTTTA -TTTA TTTATTA TTTTA CTAATTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA -TT-TTA TTTTA -T-TTTA TTTTA TTTTA TTTTA
13154421 TTT
1 TTT
13154424 ATTATTCTTA
Statistics
Matches: 39, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
4 4 0.10
5 24 0.62
6 5 0.13
7 6 0.15
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:13154419 original size:22 final size:23
Alignment explanation
Indices: 13154391--13154434 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 23
13154381 TATTTATTTA
13154391 TTATTTTACTAATTATT-TTATT
1 TTATTTTACTAATTATTCTTATT
* *
13154413 TTATTTTATTTATTATTCTTAT
1 TTATTTTACTAATTATTCTTAT
13154435 ACTTAGATTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.25, C:0.05, G:0.00, T:0.70
Consensus pattern (23 bp):
TTATTTTACTAATTATTCTTATT
Found at i:13154428 original size:12 final size:12
Alignment explanation
Indices: 13154383--13154434 Score: 63
Period size: 12 Copynumber: 4.4 Consensus size: 12
13154373 TTTTATTTTA
13154383 TTTATTTATTAT
1 TTTATTTATTAT
* *
13154395 TTTACTAATTAT
1 TTTATTTATTAT
13154407 TTTA-TT-TTAT
1 TTTATTTATTAT
13154417 TTTATTTATTAT
1 TTTATTTATTAT
13154429 TCTTAT
1 T-TTAT
13154435 ACTTAGATTT
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
10 8 0.24
11 3 0.09
12 19 0.56
13 4 0.12
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTATTTATTAT
Found at i:13154453 original size:37 final size:38
Alignment explanation
Indices: 13154374--13154457 Score: 100
Period size: 37 Copynumber: 2.2 Consensus size: 38
13154364 GCCACCCCCT
* * *
13154374 TTTATTTTATTTATTTATTATTTTACTAATTATTTTAT
1 TTTATTTTATTTATTTATTATTATACTAATGATTTTAA
* *
13154412 TTTATTTTATTTA-TTATTCTTATACTTA-GATTTTAAA
1 TTTATTTTATTTATTTATTATTATACTAATGATTTT-AA
13154449 TTTATTTTA
1 TTTATTTTA
13154458 ACTTTATGCT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
36 5 0.12
37 22 0.55
38 13 0.32
ACGTcount: A:0.27, C:0.04, G:0.01, T:0.68
Consensus pattern (38 bp):
TTTATTTTATTTATTTATTATTATACTAATGATTTTAA
Found at i:13155867 original size:21 final size:21
Alignment explanation
Indices: 13155841--13155888 Score: 69
Period size: 21 Copynumber: 2.3 Consensus size: 21
13155831 ATGTAATTAC
*
13155841 TTATTATATAAGTATTTTATA
1 TTATTATATAAGTATATTATA
* *
13155862 TTATTATATTATTATATTATA
1 TTATTATATAAGTATATTATA
13155883 TTATTA
1 TTATTA
13155889 AAATTTAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTATTATATAAGTATATTATA
Found at i:13155873 original size:13 final size:13
Alignment explanation
Indices: 13155863--13155888 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
13155853 TATTTTATAT
13155863 TATTATATTATTA
1 TATTATATTATTA
13155876 TATTATATTATTA
1 TATTATATTATTA
13155889 AAATTTAAAG
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:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTATATTATTA
Found at i:13155888 original size:8 final size:8
Alignment explanation
Indices: 13155853--13155881 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
13155843 ATTATATAAG
13155853 TATT-TTA
1 TATTATTA
13155860 TATTATTA
1 TATTATTA
13155868 TATTATTA
1 TATTATTA
13155876 TATTAT
1 TATTAT
13155882 ATTATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 4 0.19
8 17 0.81
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (8 bp):
TATTATTA
Found at i:13155975 original size:5 final size:5
Alignment explanation
Indices: 13155965--13156023 Score: 88
Period size: 5 Copynumber: 12.4 Consensus size: 5
13155955 ACAGGGAAGG
13155965 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAG-A AAG-A AAG-A
1 AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA AAGAA
*
13156012 AAGAA ATGAA AA
1 AAGAA AAGAA AA
13156024 TTAGGGTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 2
0.93 0.04 0.04
Matches are distributed among these distances:
4 12 0.24
5 39 0.76
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (5 bp):
AAGAA
Found at i:13159723 original size:39 final size:39
Alignment explanation
Indices: 13159669--13159748 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
13159659 TAATGGAGAA
*
13159669 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
13159708 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
13159747 TT
1 TT
13159749 GTAACACCCC
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.17, C:0.21, G:0.30, T:0.31
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:13163423 original size:40 final size:39
Alignment explanation
Indices: 13163366--13163548 Score: 183
Period size: 40 Copynumber: 4.6 Consensus size: 39
13163356 CCAGCATGAT
* *
13163366 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCAC-AA
* * *
13163406 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCATGAA
1 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCA-CAA
* * *
13163446 TGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCATCAA
1 TGCTCTTCGGGACTTAGCCCGGATATA-TCACTAGCA-CAA
* *
13163487 TGC-CTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAA
1 TGCTCTTCGGGA-CTTAGCCCGGATAT-ATCAC-TAGCACAA
*
13163527 AGC-CTTCGGGACTTAGCCCGGA
1 TGCTCTTCGGGACTTAGCCCGGA
13163549 CATCATTCGA
Statistics
Matches: 119, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
39 3 0.03
40 96 0.81
41 20 0.17
ACGTcount: A:0.24, C:0.26, G:0.23, T:0.27
Consensus pattern (39 bp):
TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACAA
Found at i:13163452 original size:80 final size:80
Alignment explanation
Indices: 13163353--13163510 Score: 203
Period size: 80 Copynumber: 2.0 Consensus size: 80
13163343 CGAATACACG
* * *
13163353 TCACCAGCATGATTGCTCTTCGGGATTTAGCACGGATATA-TCACTAGCA-CGAATGCTCTTCGG
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATAGTAACTAGCATC-AATGC-CTTCGG
13163416 AACTTAGCCCGGATACA
64 AACTTAGCCCGGATACA
* * * * *
13163433 TCACTAGCATGAATGCTCTTCGGGACTTAGCCCGGATTTAGTAACTCGCATCAATGCCTTCGGAT
1 TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATAGTAACTAGCATCAATGCCTTCGGAA
*
13163498 CTTAGTCCGGATA
66 CTTAGCCCGGATA
13163511 TGGTCACTTA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
80 54 0.81
81 12 0.18
82 1 0.01
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.28
Consensus pattern (80 bp):
TCACCAGCATGAATGCTCTTCGGGACTTAGCACGGATATAGTAACTAGCATCAATGCCTTCGGAA
CTTAGCCCGGATACA
Found at i:13163895 original size:29 final size:29
Alignment explanation
Indices: 13163856--13163934 Score: 106
Period size: 29 Copynumber: 2.7 Consensus size: 29
13163846 CTTAATAATC
*
13163856 AACCACGCACACTTAGTGCCATGTACTTT-A
1 AACC-CGCACACTTAGTGCCATGCA-TTTCA
*
13163886 AACTCGCACACTTAGTGCCATGCATTTCA
1 AACCCGCACACTTAGTGCCATGCATTTCA
*
13163915 AGCCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
13163935 ATCTCACAAC
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
28 3 0.07
29 38 0.86
30 3 0.07
ACGTcount: A:0.28, C:0.33, G:0.15, T:0.24
Consensus pattern (29 bp):
AACCCGCACACTTAGTGCCATGCATTTCA
Found at i:13163977 original size:43 final size:43
Alignment explanation
Indices: 13163916--13164018 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
13163906 TGCATTTCAA
13163916 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
13163959 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
1 GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
13164002 GCCCGCACACTTAGTGC
1 GCCCGCACACTTAGTGC
13164019 TGAAAACCAA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.26, C:0.36, G:0.16, T:0.22
Consensus pattern (43 bp):
GCCCGCACACTTAGTGCCAATCTCACAACCGTGAACACTTATT
Found at i:13165922 original size:37 final size:37
Alignment explanation
Indices: 13165872--13165950 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
13165862 TTATTACGAA
* *
13165872 GTCTTACCCGGACATAA-TCTCCACACGAAGTTATCGG
1 GTCTTACCCGGACAAAATTC-CCACACGAAGTCATCGG
*
13165909 GTCTTACCCGGACAAAATTCCCACACGTAGTCATCGG
1 GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
13165946 GTCTT
1 GTCTT
13165951 TAGAGCTCGG
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.25, C:0.30, G:0.19, T:0.25
Consensus pattern (37 bp):
GTCTTACCCGGACAAAATTCCCACACGAAGTCATCGG
Found at i:13166174 original size:47 final size:47
Alignment explanation
Indices: 13166123--13166495 Score: 638
Period size: 47 Copynumber: 7.9 Consensus size: 47
13166113 GGCCCCGTCG
*
13166123 CATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
*
13166170 CATATATTCACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
1 CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
*
13166217 CATATATACATTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
1 CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
* *
13166264 TACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
1 CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
*
13166311 CATATATACATTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
1 CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
* *
13166358 TACATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
1 CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
*
13166405 CATATATACATTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
1 CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
* * *
13166452 TACATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTA
1 CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTA
13166496 CTATCATTTC
Statistics
Matches: 306, Mismatches: 20, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
47 306 1.00
ACGTcount: A:0.29, C:0.27, G:0.09, T:0.35
Consensus pattern (47 bp):
CATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCA
Found at i:13168718 original size:39 final size:39
Alignment explanation
Indices: 13168664--13168768 Score: 158
Period size: 39 Copynumber: 2.7 Consensus size: 39
13168654 GGGTGTCACA
13168664 GGTGTTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCT
1 GGTGTTATATCCGGGCTAAAGTCCCGAAGGC-TTCGTGCT
* *
13168703 GGTGTTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCT
1 GGTGTTATATCCGGGCTAAAGTCCCGAAGGCTTCGTGCT
*
13168742 GGTATTATATCCGGGCTTAAAGTCCCG
1 GGTGTTATATCCGGGC-TAAAGTCCCG
13168769 CATGCTTTGT
Statistics
Matches: 61, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
39 39 0.64
40 22 0.36
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.30
Consensus pattern (39 bp):
GGTGTTATATCCGGGCTAAAGTCCCGAAGGCTTCGTGCT
Found at i:13168763 original size:40 final size:39
Alignment explanation
Indices: 13168668--13168784 Score: 164
Period size: 40 Copynumber: 3.0 Consensus size: 39
13168658 GTCACAGGTG
* * *
13168668 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAAGTCCCGCAGGC-TTTGTGCTGGTA
13168707 TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTA
1 TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTA
* *
13168746 TTATATCCGGGCTTAAAGTCCCGCATGCTTTGTGGTGGT
1 TTATATCCGGGC-TAAAGTCCCGCAGGCTTTGTGCTGGT
13168785 GATTGGATTT
Statistics
Matches: 71, Mismatches: 5, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
39 35 0.49
40 36 0.51
ACGTcount: A:0.17, C:0.22, G:0.29, T:0.32
Consensus pattern (39 bp):
TTATATCCGGGCTAAAGTCCCGCAGGCTTTGTGCTGGTA
Found at i:13173490 original size:8 final size:8
Alignment explanation
Indices: 13173472--13173500 Score: 51
Period size: 8 Copynumber: 3.8 Consensus size: 8
13173462 TATAAGTAAG
13173472 TATTA-TA
1 TATTATTA
13173479 TATTATTA
1 TATTATTA
13173487 TATTATTA
1 TATTATTA
13173495 TATTAT
1 TATTAT
13173501 ATTAGTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
7 5 0.24
8 16 0.76
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (8 bp):
TATTATTA
Found at i:13173500 original size:13 final size:15
Alignment explanation
Indices: 13173472--13173504 Score: 52
Period size: 13 Copynumber: 2.3 Consensus size: 15
13173462 TATAAGTAAG
13173472 TATTATATATTATTA
1 TATTATATATTATTA
13173487 TATTAT-TA-TATTA
1 TATTATATATTATTA
13173500 TATTA
1 TATTA
13173505 GTGAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 10 0.56
14 2 0.11
15 6 0.33
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (15 bp):
TATTATATATTATTA
Found at i:13182856 original size:11 final size:11
Alignment explanation
Indices: 13182840--13182868 Score: 58
Period size: 11 Copynumber: 2.6 Consensus size: 11
13182830 ATAAATGTAT
13182840 TTTTTTTTCAC
1 TTTTTTTTCAC
13182851 TTTTTTTTCAC
1 TTTTTTTTCAC
13182862 TTTTTTT
1 TTTTTTT
13182869 AGAGCAATGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.07, C:0.14, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTTTTTCAC
Found at i:13185162 original size:35 final size:35
Alignment explanation
Indices: 13185104--13185291 Score: 340
Period size: 35 Copynumber: 5.3 Consensus size: 35
13185094 AATCATATCT
13185104 TCTAAGATTGTATATCATATCTAAGATTGCAATCATA
1 TCTAAGATTG--TATCATATCTAAGATTGCAATCATA
13185141 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
13185176 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
13185211 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
1 TCTAAGATTGTATCATATCTAAGATTGCAATCATA
*
13185246 TCTAAGATTGTATCATATCTAAGATTGCATATCACA
1 TCTAAGATTGTATCATATCTAAGATTGCA-ATCATA
13185282 TCTAAGATTG
1 TCTAAGATTG
13185292 CATATCATTG
Statistics
Matches: 149, Mismatches: 1, Indels: 3
0.97 0.01 0.02
Matches are distributed among these distances:
35 124 0.83
36 15 0.10
37 10 0.07
ACGTcount: A:0.37, C:0.14, G:0.12, T:0.37
Consensus pattern (35 bp):
TCTAAGATTGTATCATATCTAAGATTGCAATCATA
Found at i:13185307 original size:17 final size:18
Alignment explanation
Indices: 13185104--13185296 Score: 122
Period size: 17 Copynumber: 10.8 Consensus size: 18
13185094 AATCATATCT
* *
13185104 TCTAAGATTGTATATCATA
1 TCTAAGATTGCATAT-ACA
*
13185123 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
13185141 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
*
13185158 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
13185176 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
*
13185193 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
13185211 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
*
13185228 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATAT-ACA
*
13185246 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATAT-ACA
13185263 TCTAAGATTGCATATCACA
1 TCTAAGATTGCATAT-ACA
13185282 TCTAAGATTGCATAT
1 TCTAAGATTGCATAT
13185297 CATTGAAGAT
Statistics
Matches: 160, Mismatches: 2, Indels: 24
0.86 0.01 0.13
Matches are distributed among these distances:
17 64 0.40
18 64 0.40
19 32 0.20
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (18 bp):
TCTAAGATTGCATATACA
Found at i:13186614 original size:27 final size:26
Alignment explanation
Indices: 13186566--13186643 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
13186556 GCGAGGTTGC
* *
13186566 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
13186592 ACAGATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
*
13186619 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
13186644 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 5 0.11
27 40 0.87
28 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:13188261 original size:26 final size:26
Alignment explanation
Indices: 13188231--13189066 Score: 1654
Period size: 26 Copynumber: 32.2 Consensus size: 26
13188221 TGAAATGCCC
*
13188231 ATCATGGAACATTCACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188257 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188283 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188309 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188335 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188361 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188387 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188413 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188439 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188465 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188491 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188517 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188543 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188569 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188595 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188621 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188647 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188673 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188699 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188725 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188751 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188777 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188803 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188829 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188855 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188881 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188907 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188933 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188959 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13188985 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13189011 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13189037 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13189063 ATCA
1 ATCA
13189067 ATTTTTATCA
Statistics
Matches: 808, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 808 1.00
ACGTcount: A:0.35, C:0.27, G:0.08, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13193918 original size:27 final size:26
Alignment explanation
Indices: 13193870--13193947 Score: 95
Period size: 27 Copynumber: 2.9 Consensus size: 26
13193860 GCGAGGTTGC
* *
13193870 CAGATATTGTGAC-GAAGTCACCAGAT
1 CAGATATTGTGGCAG-AGCCACCAGAT
13193896 ACAGATATTGTGGCAGAGCCACCAGAT
1 -CAGATATTGTGGCAGAGCCACCAGAT
*
13193923 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
13193948 GACGCTTCCT
Statistics
Matches: 46, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
26 5 0.11
27 40 0.87
28 1 0.02
ACGTcount: A:0.33, C:0.22, G:0.24, T:0.21
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAT
Found at i:13194592 original size:31 final size:31
Alignment explanation
Indices: 13194554--13194618 Score: 103
Period size: 31 Copynumber: 2.1 Consensus size: 31
13194544 CAGATCAGAG
*
13194554 TAAGCTTATAAGAAATCAATAAGCAGCACAT
1 TAAGCTTATAAGAAATCAATAAGCAACACAT
* *
13194585 TAAGCTTATAAGAAATTAATAAGCAACTCAT
1 TAAGCTTATAAGAAATCAATAAGCAACACAT
13194616 TAA
1 TAA
13194619 CAAATTTTTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.49, C:0.14, G:0.11, T:0.26
Consensus pattern (31 bp):
TAAGCTTATAAGAAATCAATAAGCAACACAT
Found at i:13195615 original size:26 final size:26
Alignment explanation
Indices: 13195585--13195666 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
13195575 TGAAATGCCC
*
13195585 ATCATGGAACATTCACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13195611 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
13195637 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
13195663 ATCA
1 ATCA
13195667 ATTTTTATCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:13196218 original size:13 final size:13
Alignment explanation
Indices: 13196200--13196286 Score: 63
Period size: 13 Copynumber: 6.7 Consensus size: 13
13196190 TAAGTTGAAG
13196200 AAAATAAAATAAA
1 AAAATAAAATAAA
*
13196213 AAAATAAAATAACT
1 AAAATAAAATAA-A
* *
13196227 AAAACAAAATTAA
1 AAAATAAAATAAA
** *
13196240 AAAGGAAGATAAA
1 AAAATAAAATAAA
*
13196253 AAGAA-AAAAGAAA
1 AA-AATAAAATAAA
13196266 AATAA-AAAAT-AA
1 AA-AATAAAATAAA
13196278 AAAATAAAA
1 AAAATAAAA
13196287 AAATAGTAAT
Statistics
Matches: 58, Mismatches: 13, Indels: 7
0.74 0.17 0.09
Matches are distributed among these distances:
11 2 0.03
12 8 0.14
13 37 0.64
14 11 0.19
ACGTcount: A:0.79, C:0.02, G:0.06, T:0.13
Consensus pattern (13 bp):
AAAATAAAATAAA
Found at i:13196254 original size:19 final size:19
Alignment explanation
Indices: 13196232--13196280 Score: 55
Period size: 19 Copynumber: 2.6 Consensus size: 19
13196222 TAACTAAAAC
* * *
13196232 AAAATTAAAAAGGAAGATA
1 AAAAATAAAAAGAAAAATA
13196251 AAAAGA-AAAAAGAAAAATA
1 AAAA-ATAAAAAGAAAAATA
13196270 AAAAATAAAAA
1 AAAAATAAAAA
13196281 ATAAAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
18 1 0.04
19 24 0.96
ACGTcount: A:0.80, C:0.00, G:0.10, T:0.10
Consensus pattern (19 bp):
AAAAATAAAAAGAAAAATA
Found at i:13196403 original size:10 final size:9
Alignment explanation
Indices: 13196384--13196430 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
13196374 TAGAAATAGC
*
13196384 AAAATTAAA
1 AAAAATAAA
13196393 AAAAATAAA
1 AAAAATAAA
13196402 AAAAATAAA
1 AAAAATAAA
* *
13196411 ATATATAAA
1 AAAAATAAA
*
13196420 AAAATTAAA
1 AAAAATAAA
13196429 AA
1 AA
13196431 TATAAGTATA
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 32 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (9 bp):
AAAAATAAA
Found at i:13196405 original size:18 final size:18
Alignment explanation
Indices: 13196384--13196430 Score: 67
Period size: 18 Copynumber: 2.6 Consensus size: 18
13196374 TAGAAATAGC
13196384 AAAATTAAAAAAAATAAA
1 AAAATTAAAAAAAATAAA
* * *
13196402 AAAAATAAAATATATAAA
1 AAAATTAAAAAAAATAAA
13196420 AAAATTAAAAA
1 AAAATTAAAAA
13196431 TATAAGTATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (18 bp):
AAAATTAAAAAAAATAAA
Found at i:13196411 original size:17 final size:17
Alignment explanation
Indices: 13196391--13196435 Score: 63
Period size: 18 Copynumber: 2.6 Consensus size: 17
13196381 AGCAAAATTA
*
13196391 AAAAAAATAAAAAAAAT
1 AAAAATATAAAAAAAAT
*
13196408 AAAATATATAAAAAAATT
1 AAAA-ATATAAAAAAAAT
13196426 AAAAATATAA
1 AAAAATATAA
13196436 GTATAAGAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 10 0.40
18 15 0.60
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAAATATAAAAAAAAT
Found at i:13196429 original size:26 final size:24
Alignment explanation
Indices: 13196384--13196435 Score: 68
Period size: 26 Copynumber: 2.1 Consensus size: 24
13196374 TAGAAATAGC
13196384 AAAATTAAAAAAAATAAAAAAAAT
1 AAAATTAAAAAAAATAAAAAAAAT
* *
13196408 AAAATATATAAAAAAATTAAAAATAT
1 AAAAT-TA-AAAAAAATAAAAAAAAT
13196434 AA
1 AA
13196436 GTATAAGAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 5 0.21
25 2 0.08
26 17 0.71
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (24 bp):
AAAATTAAAAAAAATAAAAAAAAT
Found at i:13196813 original size:30 final size:30
Alignment explanation
Indices: 13196777--13196834 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
13196767 CATGTGAGAT
*
13196777 TCCACACACCCGTGTGGT-CAGGCCGTGTGC
1 TCCACACACCCATGT-GTCCAGGCCGTGTGC
*
13196807 TCCACACACTCATGTGTCCAGGCCGTGT
1 TCCACACACCCATGTGTCCAGGCCGTGT
13196835 AGGAAAAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 2 0.08
30 23 0.92
ACGTcount: A:0.16, C:0.36, G:0.26, T:0.22
Consensus pattern (30 bp):
TCCACACACCCATGTGTCCAGGCCGTGTGC
Found at i:13200865 original size:30 final size:30
Alignment explanation
Indices: 13200831--13200888 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
13200821 CACGGACTGG
*
13200831 CACATGGGCATGTGGCCAACCCGTGTGGCT
1 CACATGGGCATGTGGCCAACCCGCGTGGCT
* *
13200861 CACATGGGCGTGTGGCCAGCCCGCGTGG
1 CACATGGGCATGTGGCCAACCCGCGTGG
13200889 AAATGCCCAG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.14, C:0.31, G:0.38, T:0.17
Consensus pattern (30 bp):
CACATGGGCATGTGGCCAACCCGCGTGGCT
Found at i:13202557 original size:16 final size:16
Alignment explanation
Indices: 13202527--13202556 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
13202517 TTTTGTTACA
13202527 AAGAGAGGAAGAAAAG
1 AAGAGAGGAAGAAAAG
13202543 AAGAGA-GAAGAAAA
1 AAGAGAGGAAGAAAA
13202557 ACAATTTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 8 0.57
16 6 0.43
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (16 bp):
AAGAGAGGAAGAAAAG
Found at i:13207357 original size:25 final size:27
Alignment explanation
Indices: 13207320--13207372 Score: 74
Period size: 26 Copynumber: 2.0 Consensus size: 27
13207310 TCAAACATGC
13207320 ATTTAGGTCAATTTAAC-CCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
* *
13207346 ATTTCGGT-AATTTATCTCCTAGGGGT
1 ATTTAGGTCAATTTAACTCCTAGGGGT
13207372 A
1 A
13207373 AAACTGTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.25, C:0.15, G:0.23, T:0.38
Consensus pattern (27 bp):
ATTTAGGTCAATTTAACTCCTAGGGGT
Found at i:13222818 original size:21 final size:21
Alignment explanation
Indices: 13222793--13222843 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
13222783 TTAAAGATCC
* **
13222793 CACACGGGCGTGTGTTTTGGA
1 CACACGGGCGTGTCTGGTGGA
**
13222814 CACACGACCGTGTCTGGTGGA
1 CACACGGGCGTGTCTGGTGGA
13222835 CACACGGGC
1 CACACGGGC
13222844 TTATGAGATC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.18, C:0.27, G:0.35, T:0.20
Consensus pattern (21 bp):
CACACGGGCGTGTCTGGTGGA
Found at i:13244114 original size:21 final size:21
Alignment explanation
Indices: 13244088--13244309 Score: 114
Period size: 21 Copynumber: 10.6 Consensus size: 21
13244078 GTGTTTTACT
* *
13244088 TTCTGTTTAGCTCTTTCAAGC
1 TTCTGTTCAGCTCTTTCGAGC
* * *
13244109 TTCTGTTTAGCTCATAT-GAGT
1 TTCTGTTCAGCTC-TTTCGAGC
13244130 TTCTGTTCAGCT-TTTACGAGC
1 TTCTGTTCAGCTCTTT-CGAGC
** *
13244151 TTCTGTTCAGCTCTTAGGAGT
1 TTCTGTTCAGCTCTTTCGAGC
*
13244172 TTCTGTTCAGCTCTTACGAGC
1 TTCTGTTCAGCTCTTTCGAGC
* * * *
13244193 TTCTATTCAACT-TTTATGAGT
1 TTCTGTTCAGCTCTTT-CGAGC
* *
13244214 TTCCGTTTAGCTCTTAT-GAGC
1 TTCTGTTCAGCTCTT-TCGAGC
* * ** * *
13244235 TTCTATTCAACTCTTAAGGGT
1 TTCTGTTCAGCTCTTTCGAGC
*
13244256 TTCTGTTTAGCTCTTAT-GAGC
1 TTCTGTTCAGCTCTT-TCGAGC
* * * *
13244277 TTCTGTTTAACTCTCAT-AAGC
1 TTCTGTTCAGCTCT-TTCGAGC
13244298 TTCTGTTCAGCT
1 TTCTGTTCAGCT
13244310 TTCAGGCTTC
Statistics
Matches: 152, Mismatches: 39, Indels: 20
0.72 0.18 0.09
Matches are distributed among these distances:
19 2 0.01
20 2 0.01
21 141 0.93
22 6 0.04
23 1 0.01
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (21 bp):
TTCTGTTCAGCTCTTTCGAGC
Found at i:13244152 original size:42 final size:42
Alignment explanation
Indices: 13244087--13244309 Score: 239
Period size: 42 Copynumber: 5.3 Consensus size: 42
13244077 TGTGTTTTAC
* * * * * *
13244087 TTTCTGTTTAGCTCTTTCAAGCTTCTGTTTAGCTCATATGAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAG
* * *
13244129 TTTCTGTTCAGCTTTTACGAGCTTCTGTTCAGCTCTTAGGAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAG
* *
13244171 TTTCTGTTCAGCTCTTACGAGCTTCTATTCAACTTTTATGAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAG
* * * * * *
13244213 TTTCCGTTTAGCTCTTATGAGCTTCTATTCAACTCTTAAGGG
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAG
* * * * *
13244255 TTTCTGTTTAGCTCTTATGAGCTTCTGTTTAACTCTCATAAG
1 TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAG
*
13244297 CTTCTGTTCAGCT
1 TTTCTGTTCAGCT
13244310 TTCAGGCTTC
Statistics
Matches: 154, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 154 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (42 bp):
TTTCTGTTCAGCTCTTACGAGCTTCTGTTCAACTCTTATGAG
Found at i:13244275 original size:63 final size:63
Alignment explanation
Indices: 13244088--13244306 Score: 215
Period size: 63 Copynumber: 3.5 Consensus size: 63
13244078 GTGTTTTACT
* * * * * *
13244088 TTCTGTTTAGCTCTT-TCAAGCTTCTGTTTAGCTCATATGAGTTTCTGTTCAGCTTTTACGAGC
1 TTCTGTTTAGCTCTTAT-GAGCTTCTGTTCAACTCTTAAGAGTTTCTGTTCAGCTTTTATGAGC
* * * * * * * * *
13244151 TTCTGTTCAGCTCTTAGGAGTTTCTGTTCAGCTCTTACGAGCTTCTATTCAACTTTTATGAGT
1 TTCTGTTTAGCTCTTATGAGCTTCTGTTCAACTCTTAAGAGTTTCTGTTCAGCTTTTATGAGC
* * * * *
13244214 TTCCGTTTAGCTCTTATGAGCTTCTATTCAACTCTTAAGGGTTTCTGTTTAGCTCTTATGAGC
1 TTCTGTTTAGCTCTTATGAGCTTCTGTTCAACTCTTAAGAGTTTCTGTTCAGCTTTTATGAGC
* * *
13244277 TTCTGTTTAACTCTCATAAGCTTCTGTTCA
1 TTCTGTTTAGCTCTTATGAGCTTCTGTTCA
13244307 GCTTTCAGGC
Statistics
Matches: 124, Mismatches: 31, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
63 124 1.00
ACGTcount: A:0.17, C:0.21, G:0.16, T:0.45
Consensus pattern (63 bp):
TTCTGTTTAGCTCTTATGAGCTTCTGTTCAACTCTTAAGAGTTTCTGTTCAGCTTTTATGAGC
Found at i:13248692 original size:131 final size:131
Alignment explanation
Indices: 13248452--13248736 Score: 347
Period size: 131 Copynumber: 2.2 Consensus size: 131
13248442 TTCACAACTA
* * * *
13248452 TTAAAAATCCCTTAAACGAAGGTGATGTGTGATACTTGGCAATGCGTGGAATCGTGCCCTAACGT
1 TTAAAAATCCCTTAAACGAAGGAGATGTGCGATACTTGGAAATGCGCGGAATCGTGCCCTAACGT
* ** * * * * * * * *
13248517 GTTGGGTTGCAATTTTTCGTTTGCTCAAAGTAATCGAACGTCCCTTTAGATTTTCACCCATGTCT
66 GCTGGGTTGCAATTCCTCGTCTGCTCAAAGTAATCAAACATCCCTTCAAAATTTCACCCATATCC
13248582 T
131 T
* * *
13248583 TTAAAGATCCCTTAAACGAAGGAGATGTGCGATATTTGGAAATTCGCGGAATCGTGCCCTAACGT
1 TTAAAAATCCCTTAAACGAAGGAGATGTGCGATACTTGGAAATGCGCGGAATCGTGCCCTAACGT
* * *
13248648 GCTGGGTTGCAATTCCTCGTCTGCTTGAAA-TAATCAAATATCCCTTCAAAATTTCACTCATATC
66 GCTGGGTTGCAATTCCTCGTCTGC-TCAAAGTAATCAAACATCCCTTCAAAATTTCACCCATATC
13248712 CT
130 CT
*
13248714 TTAAAAATCCTTTAAAACGAAGG
1 TTAAAAATCCCTT-AAACGAAGG
13248737 CAATGCTCAG
Statistics
Matches: 129, Mismatches: 23, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
131 116 0.90
132 13 0.10
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.32
Consensus pattern (131 bp):
TTAAAAATCCCTTAAACGAAGGAGATGTGCGATACTTGGAAATGCGCGGAATCGTGCCCTAACGT
GCTGGGTTGCAATTCCTCGTCTGCTCAAAGTAATCAAACATCCCTTCAAAATTTCACCCATATCC
T
Found at i:13248753 original size:131 final size:131
Alignment explanation
Indices: 13248452--13248787 Score: 335
Period size: 131 Copynumber: 2.6 Consensus size: 131
13248442 TTCACAACTA
* * * *
13248452 TTAAAAATCCCTTAAACGAAGGTGATGTGTGATACTTGG-CAATGCGTGGAATCGTGCCCTAACG
1 TTAAAAATCCCTTAAACGAAGGAGATGTGCGATAGTTGGACAATTCG-GGAATCGTGCCCTAACG
* ** * * * * * * *
13248516 TGTTGGGTTGCAATTTTTCGTTTGCTCAAAGTAATCGAACGTCCCTTTAGATTTTCACCCATGTC
65 TGATGGGTTGCAATTCCTCGTCTGCTCAAAGTAATCAAACATCCCTTCAAAATTTCACCCATATC
*
13248581 TT
130 CT
* *
13248583 TTAAAGATCCCTTAAACGAAGGAGATGTGCGATATTTGGA-AATTCGCGGAATCGTGCCCTAACG
1 TTAAAAATCCCTTAAACGAAGGAGATGTGCGATAGTTGGACAATTCG-GGAATCGTGCCCTAACG
* * * *
13248647 TGCTGGGTTGCAATTCCTCGTCTGCTTGAAA-TAATCAAATATCCCTTCAAAATTTCACTCATAT
65 TGATGGGTTGCAATTCCTCGTCTGC-TCAAAGTAATCAAACATCCCTTCAAAATTTCACCCATAT
13248711 CCT
129 CCT
* * *
13248714 TTAAAAATCCTTTAAAACGAAGGCA-ATGCT-C-AGT-GTTGGACAATTCGGGAAGCATGCCCTA
1 TTAAAAATCCCTT-AAACGAAGG-AGATG-TGCGA-TAGTTGGACAATTCGGGAATCGTGCCCTA
*
13248775 TCGTGATGGGTTG
62 ACGTGATGGGTTG
13248788 TGATTTCTCG
Statistics
Matches: 171, Mismatches: 27, Indels: 14
0.81 0.13 0.07
Matches are distributed among these distances:
131 145 0.85
132 24 0.14
133 2 0.01
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.31
Consensus pattern (131 bp):
TTAAAAATCCCTTAAACGAAGGAGATGTGCGATAGTTGGACAATTCGGGAATCGTGCCCTAACGT
GATGGGTTGCAATTCCTCGTCTGCTCAAAGTAATCAAACATCCCTTCAAAATTTCACCCATATCC
T
Found at i:13248834 original size:131 final size:131
Alignment explanation
Indices: 13248698--13248968 Score: 320
Period size: 131 Copynumber: 2.1 Consensus size: 131
13248688 TCCCTTCAAA
13248698 ATTTCACTCATATCCT-TTAAAAATCCTTT-AAAACGAAGGCAATGCTC-AGTGTT-GGACAATT
1 ATTTCACTCATAT-CTATTAAAAA-CCTTTCAAAACGAAGGCAATGCTCGA-TGTTCGG-CAATT
* * * *
13248759 CGGGAAGCATGCCCTATCGTGATGGGTTGTG-ATTTCTCGA-TTGTTCAAAACAATCGAAGATTC
62 CGAGAAGCATGCCCTATCATGATGGGTTGCGCATTT-TC-ATTTGTTCAAAACAATCGAAGATCC
13248822 CTTTAGG
125 CTTTAGG
* * * *
13248829 TTTTCACTCATGTCTATTAAAAACCTTTCAAAACGAAGGCAATGTTCGATGTTCGGCAATTTGAG
1 ATTTCACTCATATCTATTAAAAACCTTTCAAAACGAAGGCAATGCTCGATGTTCGGCAATTCGAG
* * * * * *
13248894 AATCGTGCCCTATCATGCTGGGTTGCGCATTTTCATTTGTTCGAGACAATCGAAGATCCCTTTGG
66 AAGCATGCCCTATCATGATGGGTTGCGCATTTTCATTTGTTCAAAACAATCGAAGATCCCTTTAG
13248959 G
131 G
13248960 ATTTCACTC
1 ATTTCACTC
13248969 GTATTTTCTA
Statistics
Matches: 119, Mismatches: 15, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
130 8 0.07
131 104 0.87
132 7 0.06
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.33
Consensus pattern (131 bp):
ATTTCACTCATATCTATTAAAAACCTTTCAAAACGAAGGCAATGCTCGATGTTCGGCAATTCGAG
AAGCATGCCCTATCATGATGGGTTGCGCATTTTCATTTGTTCAAAACAATCGAAGATCCCTTTAG
G
Found at i:13250950 original size:62 final size:62
Alignment explanation
Indices: 13250882--13251009 Score: 150
Period size: 62 Copynumber: 2.1 Consensus size: 62
13250872 CGGGCAACAA
* * *
13250882 ACACGGGCATGGGTCAAGG-CTGTATAACTCACTATTTGTGGTATAAGACCACACGGCCAAGG
1 ACACGGGCATGGGTCAAGGTC-GTATAACTCACTATTTATGGCATAAGACCACACGACCAAGG
* * ** * * *
13250944 ACACGGGCGTGTGTGTAGGTCGTGTAACTTACTGTTTATGGCATAAGACCACACGACCAAGG
1 ACACGGGCATGGGTCAAGGTCGTATAACTCACTATTTATGGCATAAGACCACACGACCAAGG
13251006 ACAC
1 ACAC
13251010 AAGTGTGTGT
Statistics
Matches: 55, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
62 54 0.98
63 1 0.02
ACGTcount: A:0.28, C:0.23, G:0.27, T:0.22
Consensus pattern (62 bp):
ACACGGGCATGGGTCAAGGTCGTATAACTCACTATTTATGGCATAAGACCACACGACCAAGG
Found at i:13251018 original size:62 final size:62
Alignment explanation
Indices: 13250906--13251064 Score: 203
Period size: 62 Copynumber: 2.6 Consensus size: 62
13250896 CAAGGCTGTA
* * ** * * *
13250906 TAACTCACTATTTGTGGTATAAGACCACACGGCCAAGGACACGGGCGTGTGTGTAGGTCGTG
1 TAACTCACTGTTTGTGGTATAAGACCACACGACCAAGGACACAAGCGTGTGTCTAGGCCATG
* * * *
13250968 TAACTTACTGTTTATGGCATAAGACCACACGACCAAGGACACAAGTGTGTGTCTAGGCCATG
1 TAACTCACTGTTTGTGGTATAAGACCACACGACCAAGGACACAAGCGTGTGTCTAGGCCATG
13251030 TAACTCACTGTTTGTGGTATAA-AGCCACACGACCA
1 TAACTCACTGTTTGTGGTATAAGA-CCACACGACCA
13251065 GAGACATGGG
Statistics
Matches: 82, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
61 1 0.01
62 81 0.99
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (62 bp):
TAACTCACTGTTTGTGGTATAAGACCACACGACCAAGGACACAAGCGTGTGTCTAGGCCATG
Found at i:13259294 original size:18 final size:18
Alignment explanation
Indices: 13259271--13259316 Score: 83
Period size: 18 Copynumber: 2.6 Consensus size: 18
13259261 CTTTATTCTT
13259271 ACAGCAGATTATTGAAGC
1 ACAGCAGATTATTGAAGC
13259289 ACAGCAGATTATTGAAGC
1 ACAGCAGATTATTGAAGC
*
13259307 ACAGAAGATT
1 ACAGCAGATT
13259317 GATAATGAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.41, C:0.15, G:0.22, T:0.22
Consensus pattern (18 bp):
ACAGCAGATTATTGAAGC
Found at i:13264947 original size:22 final size:22
Alignment explanation
Indices: 13264922--13264965 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
13264912 ACCTGAGAGC
* *
13264922 AATGTTATCTCGCTTGAGTTTA
1 AATGTTAGCTCGCCTGAGTTTA
13264944 AATGTTAGCTCGCCTGAGTTTA
1 AATGTTAGCTCGCCTGAGTTTA
13264966 GTTGAAGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.23, C:0.16, G:0.20, T:0.41
Consensus pattern (22 bp):
AATGTTAGCTCGCCTGAGTTTA
Found at i:13266858 original size:12 final size:12
Alignment explanation
Indices: 13266843--13266880 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
13266833 TTTTTTTAAG
13266843 TTTGGTTTTTTT
1 TTTGGTTTTTTT
*
13266855 TTTGGTTTTTCT
1 TTTGGTTTTTTT
*
13266867 TTT-ATTTTTTT
1 TTTGGTTTTTTT
13266878 TTT
1 TTT
13266881 CTTTTTACGA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
11 9 0.39
12 14 0.61
ACGTcount: A:0.03, C:0.03, G:0.11, T:0.84
Consensus pattern (12 bp):
TTTGGTTTTTTT
Found at i:13267639 original size:62 final size:62
Alignment explanation
Indices: 13267522--13267649 Score: 157
Period size: 62 Copynumber: 2.1 Consensus size: 62
13267512 GACACGGGCA
* * * *
13267522 TGTGTCTGGGTCGTGTAACTCACTGTTTATGGTATAAGACCACATGGCCAAGGACACAGGTG
1 TGTGTCTGGGCCGTGTAACTCACTATTTATAGTATAAGACCACACGGCCAAGGACACAGGTG
* * * * * **
13267584 TGTGTTTGGGCCGTGTAACTCACTATTTGTAGTGTAAGACCACACGGTCAGGGACATGGGTG
1 TGTGTCTGGGCCGTGTAACTCACTATTTATAGTATAAGACCACACGGCCAAGGACACAGGTG
13267646 TGTG
1 TGTG
13267650 CCCAAGCCGT
Statistics
Matches: 55, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.22, C:0.18, G:0.31, T:0.29
Consensus pattern (62 bp):
TGTGTCTGGGCCGTGTAACTCACTATTTATAGTATAAGACCACACGGCCAAGGACACAGGTG
Found at i:13269444 original size:26 final size:26
Alignment explanation
Indices: 13269408--13269466 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
13269398 GTTTATAATT
13269408 GATGCACTCTCTGTGTATGAGTCCTA
1 GATGCACTCTCTGTGTATGAGTCCTA
13269434 GATGCACTCTCTGTGTATGAGTCCTA
1 GATGCACTCTCTGTGTATGAGTCCTA
*
13269460 TATGCAC
1 GATGCAC
13269467 AATCAATATA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.20, C:0.24, G:0.22, T:0.34
Consensus pattern (26 bp):
GATGCACTCTCTGTGTATGAGTCCTA
Found at i:13273190 original size:40 final size:40
Alignment explanation
Indices: 13273145--13273323 Score: 234
Period size: 40 Copynumber: 4.5 Consensus size: 40
13273135 ATCGATTATT
* * * * *
13273145 TATGGCACTTAATGTGTGATACGACATAGCTTTAGTTATA
1 TATGGCACTTAGTGTGCGATTCGACATAGCTTTGGCTATA
*
13273185 TATGGCACTTAGTGTGCAATTCGACATAGCTTTGGCTATA
1 TATGGCACTTAGTGTGCGATTCGACATAGCTTTGGCTATA
*
13273225 TATGGCACTTAGTGTGCGATTCAACATAG-TTTCGGCTATA
1 TATGGCACTTAGTGTGCGATTCGACATAGCTTT-GGCTATA
* * * *
13273265 TATGGCACTTAGTGTGTGATTTGAGATAGCTTTGGCTATG
1 TATGGCACTTAGTGTGCGATTCGACATAGCTTTGGCTATA
*
13273305 TGTGGCACTTAGTGTGCGA
1 TATGGCACTTAGTGTGCGA
13273324 GATATCGAGT
Statistics
Matches: 122, Mismatches: 15, Indels: 4
0.87 0.11 0.03
Matches are distributed among these distances:
39 3 0.02
40 116 0.95
41 3 0.02
ACGTcount: A:0.24, C:0.15, G:0.25, T:0.36
Consensus pattern (40 bp):
TATGGCACTTAGTGTGCGATTCGACATAGCTTTGGCTATA
Found at i:13273335 original size:28 final size:28
Alignment explanation
Indices: 13273304--13273377 Score: 112
Period size: 28 Copynumber: 2.6 Consensus size: 28
13273294 CTTTGGCTAT
*
13273304 GTGTGGCACTTAGTGTGCGAGATATCGA
1 GTGTGGCACTTAGTGTGCGAGATATCAA
* *
13273332 GTGTGGCACTTAGTATGTGAGATATCAA
1 GTGTGGCACTTAGTGTGCGAGATATCAA
*
13273360 GTATGGCACTTAGTGTGC
1 GTGTGGCACTTAGTGTGC
13273378 AAGGCATTGA
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.23, C:0.14, G:0.32, T:0.31
Consensus pattern (28 bp):
GTGTGGCACTTAGTGTGCGAGATATCAA
Found at i:13274035 original size:9 final size:9
Alignment explanation
Indices: 13274021--13274047 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
13274011 GAATTGAGTA
13274021 TTGAAATGG
1 TTGAAATGG
13274030 TTGAAATGG
1 TTGAAATGG
13274039 TTGAAATGG
1 TTGAAATGG
13274048 ATATAGTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (9 bp):
TTGAAATGG
Found at i:13285737 original size:86 final size:86
Alignment explanation
Indices: 13285590--13285751 Score: 206
Period size: 86 Copynumber: 1.9 Consensus size: 86
13285580 TCCAGTAGTA
* *
13285590 TTTCATGTATTAAGTATTCTTTTGTAGTTTAGAAATTATTTAATTTCTTAAGAAACCATTTCATG
1 TTTCATGTATTAAGTATTCTTATGTAGTTTAGAAATTACTTAATTTCTTAAGAAACCATTTCATG
13285655 ATGCAAGTAATGTTTCATATG
66 ATGCAAGTAATGTTTCATATG
* * *
13285676 TTTCATGTATTAAGTAATTCTTCCATG-A-TTTATG-AATTACTTAA-TTCTTTAGACACGATTT
1 TTTCATGTATTAAGT-ATTCTT--ATGTAGTTTA-GAAATTACTTAATTTCTTAAGAAACCATTT
*
13285737 CATGATTCAAGTAAT
62 CATGATGCAAGTAAT
13285752 ATTTAATGTA
Statistics
Matches: 66, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
86 43 0.65
87 19 0.29
88 2 0.03
89 2 0.03
ACGTcount: A:0.31, C:0.11, G:0.12, T:0.46
Consensus pattern (86 bp):
TTTCATGTATTAAGTATTCTTATGTAGTTTAGAAATTACTTAATTTCTTAAGAAACCATTTCATG
ATGCAAGTAATGTTTCATATG
Found at i:13285815 original size:77 final size:77
Alignment explanation
Indices: 13285680--13285828 Score: 187
Period size: 77 Copynumber: 1.9 Consensus size: 77
13285670 CATATGTTTC
* * * * **
13285680 ATGTATTAAGTAATTCTTCCATGATTTATGAATTACTTAATTCTTTAGACACGATTTCATG-ATT
1 ATGTATTAAGTAATTATCCCATGATTTAGGAATTACTTAATTCTATAGACAAAATTTCATGTATT
13285744 CAAGTAATATTTA
66 -AAGTAATATTTA
*
13285757 ATGTATTAAGTAATTATCCCATGATTTCGGAATTACTTAATT-TCATAGA-AAAATTTTCATGTA
1 ATGTATTAAGTAATTATCCCATGATTTAGGAATTACTTAATTCT-ATAGACAAAA-TTTCATGTA
13285820 TTAAGTAAT
64 TTAAGTAAT
13285829 TTTTCCATGA
Statistics
Matches: 62, Mismatches: 7, Indels: 6
0.83 0.09 0.08
Matches are distributed among these distances:
76 3 0.05
77 56 0.90
78 3 0.05
ACGTcount: A:0.36, C:0.11, G:0.11, T:0.43
Consensus pattern (77 bp):
ATGTATTAAGTAATTATCCCATGATTTAGGAATTACTTAATTCTATAGACAAAATTTCATGTATT
AAGTAATATTTA
Found at i:13286013 original size:77 final size:77
Alignment explanation
Indices: 13285869--13286219 Score: 297
Period size: 77 Copynumber: 4.5 Consensus size: 77
13285859 TTTAAAAACC
* * ** * *
13285869 AACAGTTTATATATTAAGTAACACTTTC-TAATTTTATGAATTACTTAATTTCTTGGAAACCTTT
1 AACATTTTATGTATTAAGTAATTCTTTCATAA-TTTAAGAATTACTTAATTTCTTAGAAACCTTT
13285933 TCATGTTTTAAGT
65 TCATGTTTTAAGT
* * *
13285946 AACATTTTGTGTATTAAGTAATTCTTTCATAATTTAAGAATAACTTAATTTCTTAGAAA-CTACT
1 AACATTTTATGTATTAAGTAATTCTTTCATAATTTAAGAATTACTTAATTTCTTAGAAACCT-TT
*
13286010 TCATGTTTTACGT
65 TCATGTTTTAAGT
* * * * * *
13286023 AATATTCGTTTATGTTTTAAGTAATT-TTACATGATTTAAGAATTATTTAATTTCTTAGAAACTT
1 AACA-T--TTTATGTATTAAGTAATTCTTTCATAATTTAAGAATTACTTAATTTCTTAGAAACCT
*
13286087 TTTTATG--TT-AG-
63 TTTCATGTTTTAAGT
* * * * * *
13286098 AAAATTTTCATGTATTAAGTGATTCGTTT-ATAATTTACGAATTACTTAACTTT-TAAAAAAATC
1 AACATTTT-ATGTATTAAGTAATTC-TTTCATAATTTAAGAATTACTTAA-TTTCT-TAGAAACC
*
13286161 TTTTCATGTTTTAAGC
62 TTTTCATGTTTTAAGT
* * * *
13286177 AACATTTCATGTATTAAGTAATTATTCCTTAATTTAAGTAATT
1 AACATTTTATGTATTAAGTAATTCTTTCATAATTTAAG-AATT
13286220 TTTAGAAACA
Statistics
Matches: 217, Mismatches: 40, Indels: 32
0.75 0.14 0.11
Matches are distributed among these distances:
72 3 0.01
73 13 0.06
74 19 0.09
75 19 0.09
76 3 0.01
77 69 0.32
78 28 0.13
79 46 0.21
80 17 0.08
ACGTcount: A:0.34, C:0.10, G:0.09, T:0.47
Consensus pattern (77 bp):
AACATTTTATGTATTAAGTAATTCTTTCATAATTTAAGAATTACTTAATTTCTTAGAAACCTTTT
CATGTTTTAAGT
Found at i:13286331 original size:23 final size:22
Alignment explanation
Indices: 13286266--13286336 Score: 60
Period size: 23 Copynumber: 3.3 Consensus size: 22
13286256 TATTCACTAA
*
13286266 TTACTTAATTTTTTTTAAAC-T
1 TTACTTAATTATTTTTAAACAT
**
13286287 TTA-TT--TTATATTTTAAGTAT
1 TTACTTAATTAT-TTTTAAACAT
13286307 TTACTTAATTATTTTTAAACAAT
1 TTACTTAATTATTTTTAAAC-AT
13286330 TTCACTT
1 TT-ACTT
13286337 GAAACCAAGA
Statistics
Matches: 38, Mismatches: 5, Indels: 11
0.70 0.09 0.20
Matches are distributed among these distances:
18 3 0.08
19 6 0.16
20 6 0.16
21 5 0.13
22 6 0.16
23 8 0.21
24 4 0.11
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.59
Consensus pattern (22 bp):
TTACTTAATTATTTTTAAACAT
Found at i:13288428 original size:23 final size:24
Alignment explanation
Indices: 13288395--13288440 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
13288385 CATATACTCA
* *
13288395 TAATATGATATAT-TTTTTTATTT
1 TAATATAATATATATTTTGTATTT
13288418 TAATATAATATATATTTTGTATT
1 TAATATAATATATATTTTGTATT
13288441 ATTATTAATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 12 0.60
24 8 0.40
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (24 bp):
TAATATAATATATATTTTGTATTT
Found at i:13288442 original size:27 final size:25
Alignment explanation
Indices: 13288402--13288453 Score: 70
Period size: 25 Copynumber: 2.0 Consensus size: 25
13288392 TCATAATATG
13288402 ATATATTTTTTTATT-TTAATATAAT
1 ATATATTTTTTTATTATTAAT-TAAT
13288427 ATATATTTTGTATTATTATTAATTAAT
1 ATATATTTT-T-TTATTATTAATTAAT
13288454 TTAAATCCGT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
25 9 0.38
26 1 0.04
27 9 0.38
28 5 0.21
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.62
Consensus pattern (25 bp):
ATATATTTTTTTATTATTAATTAAT
Found at i:13290712 original size:28 final size:28
Alignment explanation
Indices: 13290677--13290735 Score: 118
Period size: 28 Copynumber: 2.1 Consensus size: 28
13290667 TTAAATAGTT
13290677 AAAATATATGTATTTCACATTGTAGTGA
1 AAAATATATGTATTTCACATTGTAGTGA
13290705 AAAATATATGTATTTCACATTGTAGTGA
1 AAAATATATGTATTTCACATTGTAGTGA
13290733 AAA
1 AAA
13290736 GATTGTGAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.42, C:0.07, G:0.14, T:0.37
Consensus pattern (28 bp):
AAAATATATGTATTTCACATTGTAGTGA
Found at i:13290749 original size:27 final size:28
Alignment explanation
Indices: 13290677--13290752 Score: 84
Period size: 28 Copynumber: 2.8 Consensus size: 28
13290667 TTAAATAGTT
**
13290677 AAAATATATGTATTTCACATTGTAGTGA
1 AAAATATATGTAAATCACATTGTAGTGA
**
13290705 AAAATATATGTATTTCACATTGTAGTG-
1 AAAATATATGTAAATCACATTGTAGTGA
*
13290732 AAAAGAT-TGTGAAATCACATT
1 AAAATATATGT-AAATCACATT
13290753 CCAAATTGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 3 0.07
27 14 0.32
28 27 0.61
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.37
Consensus pattern (28 bp):
AAAATATATGTAAATCACATTGTAGTGA
Found at i:13291497 original size:34 final size:34
Alignment explanation
Indices: 13291433--13291496 Score: 87
Period size: 32 Copynumber: 1.9 Consensus size: 34
13291423 CCTAATTTTG
* *
13291433 TAAAAATTCTTAAAATATTGTAAAATTTTTTAAT
1 TAAAAATTCATAAAATATTATAAAATTTTTTAAT
13291467 TAAAAATT-ATAAAA-ATTATAAAATTATTTT
1 TAAAAATTCATAAAATATTATAAAATT-TTTT
13291497 TTGGCATTAT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 10 0.37
33 9 0.33
34 8 0.30
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (34 bp):
TAAAAATTCATAAAATATTATAAAATTTTTTAAT
Found at i:13292570 original size:24 final size:22
Alignment explanation
Indices: 13292543--13292595 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 22
13292533 GCATTATAAA
13292543 TTTTACAATTTTTAATTAATAATTT
1 TTTTACAA-TTTT-ATT-ATAATTT
*
13292568 TTTTAC-ATTTTATTTTAA-TT
1 TTTTACAATTTTATTATAATTT
13292588 TTTTACAA
1 TTTTACAA
13292596 ATTTCGGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
20 8 0.31
21 4 0.15
22 3 0.12
23 4 0.15
24 1 0.04
25 6 0.23
ACGTcount: A:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (22 bp):
TTTTACAATTTTATTATAATTT
Found at i:13295614 original size:17 final size:17
Alignment explanation
Indices: 13295592--13295647 Score: 69
Period size: 16 Copynumber: 3.2 Consensus size: 17
13295582 ATCTTTATTG
13295592 AATCCCTAAAATTTTCA
1 AATCCCTAAAATTTTCA
* *
13295609 AATCCCT-AAATCTTGA
1 AATCCCTAAAATTTTCA
13295625 AATCCCTAAAACTTTTACA
1 AATCCCTAAAA-TTTT-CA
13295644 AATC
1 AATC
13295648 AAATCATTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
16 14 0.44
17 10 0.31
18 3 0.09
19 5 0.16
ACGTcount: A:0.41, C:0.25, G:0.02, T:0.32
Consensus pattern (17 bp):
AATCCCTAAAATTTTCA
Found at i:13295658 original size:33 final size:34
Alignment explanation
Indices: 13295588--13295673 Score: 101
Period size: 32 Copynumber: 2.6 Consensus size: 34
13295578 CAAAATCTTT
13295588 ATTGAATCCCTAAAA-TTTT-CAAATCCCTAAATC
1 ATTGAATCCCTAAAACTTTTACAAAT-CCTAAATC
13295621 -TTGAAATCCCTAAAACTTTTACAAAT-C-AAATC
1 ATTG-AATCCCTAAAACTTTTACAAATCCTAAATC
* *
13295653 ATTGAATCCTTAGAACTTTTA
1 ATTGAATCCCTAAAACTTTTA
13295674 GGAACGAAAA
Statistics
Matches: 47, Mismatches: 2, Indels: 9
0.81 0.03 0.16
Matches are distributed among these distances:
32 23 0.49
33 15 0.32
34 4 0.09
35 5 0.11
ACGTcount: A:0.40, C:0.21, G:0.05, T:0.35
Consensus pattern (34 bp):
ATTGAATCCCTAAAACTTTTACAAATCCTAAATC
Found at i:13297041 original size:32 final size:32
Alignment explanation
Indices: 13296999--13297078 Score: 153
Period size: 32 Copynumber: 2.5 Consensus size: 32
13296989 TATGCTTGTA
13296999 TGGCC-TGCCCGTGTGGCCCACACGGCTAGCT
1 TGGCCTTGCCCGTGTGGCCCACACGGCTAGCT
13297030 TGGCCTTGCCCGTGTGGCCCACACGGCTAGCT
1 TGGCCTTGCCCGTGTGGCCCACACGGCTAGCT
13297062 TGGCCTTGCCCGTGTGG
1 TGGCCTTGCCCGTGTGG
13297079 ATCACATGGC
Statistics
Matches: 48, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
31 5 0.10
32 43 0.90
ACGTcount: A:0.07, C:0.36, G:0.34, T:0.23
Consensus pattern (32 bp):
TGGCCTTGCCCGTGTGGCCCACACGGCTAGCT
Found at i:13302079 original size:17 final size:17
Alignment explanation
Indices: 13302059--13302097 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
13302049 TTTTTCTAAG
*
13302059 TTTTTTTTTGGTTTTTC
1 TTTTTTTTTCGTTTTTC
* *
13302076 TTTTCTTTTCTTTTTTC
1 TTTTTTTTTCGTTTTTC
13302093 TTTTT
1 TTTTT
13302098 ACGATATTTG
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.85
Consensus pattern (17 bp):
TTTTTTTTTCGTTTTTC
Found at i:13302827 original size:62 final size:62
Alignment explanation
Indices: 13302690--13302836 Score: 195
Period size: 62 Copynumber: 2.4 Consensus size: 62
13302680 CAGGGTTCTG
* * *
13302690 ACGGGCAACGGACACGGGCATGTGTCTGGGTCGTGTAACTCACTGTTTATGGTATAAGACCAC
1 ACGGCCAA-GGACACGGGCGTGTGTCTGGGCCGTGTAACTCACTGTTTATGGTATAAGACCAC
* * * *
13302753 ATGGCCAAGGACACGGGTGTGTGTTTGGGCCGTGTAACTCACTGTTTGTGGTATAAGACCAC
1 ACGGCCAAGGACACGGGCGTGTGTCTGGGCCGTGTAACTCACTGTTTATGGTATAAGACCAC
* * *
13302815 ACGGTCAGGGACATGGGCGTGT
1 ACGGCCAAGGACACGGGCGTGT
13302837 ACCCAGGCCG
Statistics
Matches: 72, Mismatches: 12, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
62 66 0.92
63 6 0.08
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.24
Consensus pattern (62 bp):
ACGGCCAAGGACACGGGCGTGTGTCTGGGCCGTGTAACTCACTGTTTATGGTATAAGACCAC
Found at i:13308378 original size:40 final size:40
Alignment explanation
Indices: 13308318--13308413 Score: 138
Period size: 40 Copynumber: 2.4 Consensus size: 40
13308308 TTATTTGTGG
* *
13308318 CACTTAGTGTGTGATACGACATAACTTTAGCTATATATTA
1 CACTTAGTGTGTGATTCGACATAACTTTAGCTATATATGA
* * * *
13308358 CACTTAGTGTGCGATTCGACATAGCTTTGGCTATATATGG
1 CACTTAGTGTGTGATTCGACATAACTTTAGCTATATATGA
13308398 CACTTAGTGTGTGATT
1 CACTTAGTGTGTGATT
13308414 TTTGCTTTAG
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.26, C:0.16, G:0.21, T:0.38
Consensus pattern (40 bp):
CACTTAGTGTGTGATTCGACATAACTTTAGCTATATATGA
Found at i:13312780 original size:28 final size:28
Alignment explanation
Indices: 13312737--13312797 Score: 106
Period size: 28 Copynumber: 2.2 Consensus size: 28
13312727 GGCGATCTTT
*
13312737 GACTTCTCCACTAGAATAGAAAACTCAC
1 GACTTCTCCACCAGAATAGAAAACTCAC
13312765 GACTTCTCCACCAGAATAGAAAACTCAC
1 GACTTCTCCACCAGAATAGAAAACTCAC
13312793 -ACTTC
1 GACTTC
13312798 CTCTACGGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
27 5 0.16
28 27 0.84
ACGTcount: A:0.38, C:0.31, G:0.10, T:0.21
Consensus pattern (28 bp):
GACTTCTCCACCAGAATAGAAAACTCAC
Found at i:13314540 original size:35 final size:35
Alignment explanation
Indices: 13314471--13314548 Score: 93
Period size: 35 Copynumber: 2.2 Consensus size: 35
13314461 CAGAATTAGG
*
13314471 CAAATACAAACTCGGGCTTAAGCCCATTACAGATA
1 CAAATACAAACTCGGGCCTAAGCCCATTACAGATA
* * * * **
13314506 TAAATGCAAAGTCGGGCCTAAGCCTATTTTAGATA
1 CAAATACAAACTCGGGCCTAAGCCCATTACAGATA
13314541 CAAATACA
1 CAAATACA
13314549 GATATGCAGA
Statistics
Matches: 34, Mismatches: 9, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.40, C:0.22, G:0.15, T:0.23
Consensus pattern (35 bp):
CAAATACAAACTCGGGCCTAAGCCCATTACAGATA
Found at i:13316924 original size:50 final size:51
Alignment explanation
Indices: 13316850--13316954 Score: 176
Period size: 50 Copynumber: 2.1 Consensus size: 51
13316840 GTGAAGTTGC
* *
13316850 TGCTGATGAATATGGTGGTTATTTTTCAACATCAGATGGA-TGGATAATGT
1 TGCTGATGAATATGGTGGTGATTTTGCAACATCAGATGGATTGGATAATGT
*
13316900 TGCTGATGAATATGGTGGTGATTTTGCAATATCAGATGGATTGGATAATGT
1 TGCTGATGAATATGGTGGTGATTTTGCAACATCAGATGGATTGGATAATGT
13316951 TGCT
1 TGCT
13316955 ACTGCACGTA
Statistics
Matches: 51, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
50 37 0.73
51 14 0.27
ACGTcount: A:0.27, C:0.08, G:0.28, T:0.38
Consensus pattern (51 bp):
TGCTGATGAATATGGTGGTGATTTTGCAACATCAGATGGATTGGATAATGT
Found at i:13322391 original size:17 final size:16
Alignment explanation
Indices: 13322369--13322429 Score: 59
Period size: 17 Copynumber: 3.6 Consensus size: 16
13322359 GAGGTTATGG
13322369 ATTTGGGGAATTTCACA
1 ATTTGGGGAATTTCA-A
* *
13322386 ATTTGGGGATTTTAAA
1 ATTTGGGGAATTTCAA
*
13322402 AGTTGGGAAGAAGTTTCAA
1 ATTTGGG--GAA-TTTCAA
13322421 ATTTGGGGA
1 ATTTGGGGA
13322430 TTTAGGAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
16 7 0.20
17 15 0.43
18 2 0.06
19 11 0.31
ACGTcount: A:0.31, C:0.05, G:0.30, T:0.34
Consensus pattern (16 bp):
ATTTGGGGAATTTCAA
Found at i:13332471 original size:15 final size:15
Alignment explanation
Indices: 13332451--13332481 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
13332441 TACTCTCTCA
13332451 ACACTAATAACGTCT
1 ACACTAATAACGTCT
13332466 ACACTAATAACGTCT
1 ACACTAATAACGTCT
13332481 A
1 A
13332482 ACCCTAGGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.42, C:0.26, G:0.06, T:0.26
Consensus pattern (15 bp):
ACACTAATAACGTCT
Found at i:13337697 original size:183 final size:183
Alignment explanation
Indices: 13337382--13337747 Score: 597
Period size: 183 Copynumber: 2.0 Consensus size: 183
13337372 TCTTTTGGTT
* * *
13337382 TCTTTCAGATACCCTACAAAAATACACCTTTTAGATTTAGGTTCAAGCTTAGAAGACGTCTGACG
1 TCTTTCAGATACCCCACAAAAATACACCTTTCAGATTTAGGTTCAAGCTTAGAAGACGTATGACG
* * * **
13337447 TTTAACATAAGCTTCGGAACCCCAAGTTTTCATAAAAGACATACTGGGATGTTTCCCAGTCCACA
66 TTTAACAGAAGCTTCGCAACCCCAAATTTTCATAAAAGACATACTGGGACATTTCCCAGTCCACA
* *
13337512 TCTCATATGGCGTCTTTTGAACCGATTTAGATGGAACACGATTTAGTGTGAAA
131 TCTCAGATGGCGTCTTTTGAACCGATTTAGATGGAACACAATTTAGTGTGAAA
* * * * *
13337565 TCTTTCGGATACCCCACAAAGATACACCTTTCAGATTTGGGTTCAAGCTTAGTAGACGTATGATG
1 TCTTTCAGATACCCCACAAAAATACACCTTTCAGATTTAGGTTCAAGCTTAGAAGACGTATGACG
13337630 TTTAACAGAAGCTTCGCAACCCCAAATTTTCATAAAAGACATACTGGGACATTTCCCAGTCCACA
66 TTTAACAGAAGCTTCGCAACCCCAAATTTTCATAAAAGACATACTGGGACATTTCCCAGTCCACA
13337695 TCTCAGATGGCGTCTTTTGAACCGATTTAGATGGAACACAATTTAGTGTGAAA
131 TCTCAGATGGCGTCTTTTGAACCGATTTAGATGGAACACAATTTAGTGTGAAA
13337748 GCAGCTGTTT
Statistics
Matches: 168, Mismatches: 15, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
183 168 1.00
ACGTcount: A:0.31, C:0.21, G:0.18, T:0.30
Consensus pattern (183 bp):
TCTTTCAGATACCCCACAAAAATACACCTTTCAGATTTAGGTTCAAGCTTAGAAGACGTATGACG
TTTAACAGAAGCTTCGCAACCCCAAATTTTCATAAAAGACATACTGGGACATTTCCCAGTCCACA
TCTCAGATGGCGTCTTTTGAACCGATTTAGATGGAACACAATTTAGTGTGAAA
Found at i:13339702 original size:83 final size:83
Alignment explanation
Indices: 13339562--13339729 Score: 327
Period size: 83 Copynumber: 2.0 Consensus size: 83
13339552 ACCAGTCAAG
*
13339562 AAAGTTTAAACCATTCAATTTGTCCTTCTCAAGGATTGATCACAATGAGAGTTTATCAGTCTTTG
1 AAAGTTTAAACCATTCAATTTGTCCTTCTCAAGGATTGATCACAATGAGAGTGTATCAGTCTTTG
13339627 CAGCAATAATATATCTAC
66 CAGCAATAATATATCTAC
13339645 AAAGTTTAAACCATTCAATTTGTCCTTCTCAAGGATTGATCACAATGAGAGTGTATCAGTCTTTG
1 AAAGTTTAAACCATTCAATTTGTCCTTCTCAAGGATTGATCACAATGAGAGTGTATCAGTCTTTG
13339710 CAGCAATAATATATCTAC
66 CAGCAATAATATATCTAC
13339728 AA
1 AA
13339730 CAATAAAATA
Statistics
Matches: 84, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
83 84 1.00
ACGTcount: A:0.35, C:0.18, G:0.14, T:0.34
Consensus pattern (83 bp):
AAAGTTTAAACCATTCAATTTGTCCTTCTCAAGGATTGATCACAATGAGAGTGTATCAGTCTTTG
CAGCAATAATATATCTAC
Found at i:13340006 original size:28 final size:28
Alignment explanation
Indices: 13339972--13340028 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
13339962 TAATTACATC
13339972 ATATGTAACTCCTACAATTTGGTGAACA
1 ATATGTAACTCCTACAATTTGGTGAACA
13340000 ATATGTAACTCCTACAATTTGGTGAACA
1 ATATGTAACTCCTACAATTTGGTGAACA
13340028 A
1 A
13340029 CTCTTCTTCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.32
Consensus pattern (28 bp):
ATATGTAACTCCTACAATTTGGTGAACA
Found at i:13345801 original size:49 final size:50
Alignment explanation
Indices: 13345619--13345852 Score: 303
Period size: 49 Copynumber: 4.7 Consensus size: 50
13345609 TATATGTAGC
* * * *
13345619 TAGGTCGCATGTGTAGTATTAAGTGCAGGCTACTATGCGTACC-CACTAACT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGA-TAA-T
* * ** * * * *
13345670 TCGATTACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATAGT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAAT
* *
13345720 TAGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAAT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAAT
13345770 T-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAAT
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAAT
13345819 T-GGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
13345853 TGCATACTAG
Statistics
Matches: 163, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
49 80 0.49
50 46 0.28
51 36 0.22
52 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.29
Consensus pattern (50 bp):
TAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAAT
Found at i:13353664 original size:43 final size:44
Alignment explanation
Indices: 13353617--13353707 Score: 109
Period size: 42 Copynumber: 2.1 Consensus size: 44
13353607 TCTTACATGT
* *
13353617 AATCAACTAT-TGATGCCACTGT-CCTAGATAGGGTCTTACACA-A
1 AATCAA-TATATGATGCCAATGTACC-AGACAGGGTCTTACACATA
*
13353660 AATC-ATATATGATGCCAATGTACCAGACATGGTCTTACACATA
1 AATCAATATATGATGCCAATGTACCAGACAGGGTCTTACACATA
13353703 AATCA
1 AATCA
13353708 CAAATCAATG
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
41 3 0.07
42 27 0.66
43 11 0.27
ACGTcount: A:0.36, C:0.22, G:0.14, T:0.27
Consensus pattern (44 bp):
AATCAATATATGATGCCAATGTACCAGACAGGGTCTTACACATA
Found at i:13357352 original size:20 final size:20
Alignment explanation
Indices: 13357327--13357367 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
13357317 ACTAAAATGT
13357327 AAAGTTGTGAAATTTGATGA
1 AAAGTTGTGAAATTTGATGA
* * *
13357347 AAAGTTTTGAATTTTTATGA
1 AAAGTTGTGAAATTTGATGA
13357367 A
1 A
13357368 TACATGTGCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (20 bp):
AAAGTTGTGAAATTTGATGA
Found at i:13362423 original size:18 final size:19
Alignment explanation
Indices: 13362400--13362439 Score: 55
Period size: 21 Copynumber: 2.1 Consensus size: 19
13362390 GTATGGGTAC
13362400 TGTTCAG-CCACAGAGAGG
1 TGTTCAGACCACAGAGAGG
13362418 TGTTCAGCAACCACAGAGAGG
1 TGTTCAG--ACCACAGAGAGG
13362439 T
1 T
13362440 CGTGGTCAGG
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 7 0.37
21 12 0.63
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.17
Consensus pattern (19 bp):
TGTTCAGACCACAGAGAGG
Found at i:13363188 original size:14 final size:15
Alignment explanation
Indices: 13363164--13363193 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
13363154 AAATATTAAA
13363164 ACATGAATTAAGAAC
1 ACATGAATTAAGAAC
13363179 ACAT-AATTAAGAAC
1 ACATGAATTAAGAAC
13363193 A
1 A
13363194 AGTCAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.57, C:0.13, G:0.10, T:0.20
Consensus pattern (15 bp):
ACATGAATTAAGAAC
Found at i:13365675 original size:21 final size:22
Alignment explanation
Indices: 13365634--13365677 Score: 56
Period size: 21 Copynumber: 2.0 Consensus size: 22
13365624 CTTAAAGAAT
13365634 ATAAATAAAGATAAAAGTAAAA
1 ATAAATAAAGATAAAAGTAAAA
*
13365656 ATAAA-AATGATAATAA-TAAAA
1 ATAAATAAAGATAA-AAGTAAAA
13365677 A
1 A
13365678 ATTCTTAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (22 bp):
ATAAATAAAGATAAAAGTAAAA
Found at i:13376246 original size:81 final size:81
Alignment explanation
Indices: 13376111--13376272 Score: 306
Period size: 81 Copynumber: 2.0 Consensus size: 81
13376101 CAAAACTCCT
13376111 GAAGGGGAAATTGAGGAGGGATCTTCAGTCTTGATGATGAATCCGGCTTCTGAGACGGATCAATC
1 GAAGGGGAAATTGAGGAGGGATCTTCAGTCTTGATGATGAATCCGGCTTCTGAGACGGATCAATC
*
13376176 GGCTTTCTTGGAGTAA
66 GGCTTTCTTGAAGTAA
*
13376192 GAAGGGGAAATTGAGGAGGGATCTTCAGTCTTGATGATGAATCCGGCTTCTGAGATGGATCAATC
1 GAAGGGGAAATTGAGGAGGGATCTTCAGTCTTGATGATGAATCCGGCTTCTGAGACGGATCAATC
13376257 GGCTTTCTTGAAGTAA
66 GGCTTTCTTGAAGTAA
13376273 TTCCTTACCC
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
81 79 1.00
ACGTcount: A:0.27, C:0.14, G:0.31, T:0.28
Consensus pattern (81 bp):
GAAGGGGAAATTGAGGAGGGATCTTCAGTCTTGATGATGAATCCGGCTTCTGAGACGGATCAATC
GGCTTTCTTGAAGTAA
Found at i:13380034 original size:40 final size:40
Alignment explanation
Indices: 13379979--13380225 Score: 253
Period size: 40 Copynumber: 6.2 Consensus size: 40
13379969 CGGATGATAA
* *
13379979 CCGGGCTAAGTCCCG-AGAGCATTTGAGCTAGTGGCTAAT-T
1 CCGGGCTAAGTCCCGAAG-GCATTTGTGCGAGT-GCTAATAT
* *
13380019 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
*
13380059 CCGGGCTAAGTCCCGAAGGCGTTTGTGCGA--GCTATTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTA--ATAT
*
13380099 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT--TATTAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
* * *
13380137 ACCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT-ATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TGCTAATAT
* *
13380178 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCT-ATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-GCTAATAT
13380218 CC-GGCTAA
1 CCGGGCTAA
13380226 ACTCCGAAGG
Statistics
Matches: 178, Mismatches: 16, Indels: 27
0.81 0.07 0.12
Matches are distributed among these distances:
37 2 0.01
38 3 0.02
39 39 0.22
40 128 0.72
41 5 0.03
42 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTGCTAATAT
Found at i:13380191 original size:119 final size:120
Alignment explanation
Indices: 13379979--13380202 Score: 326
Period size: 119 Copynumber: 1.9 Consensus size: 120
13379969 CGGATGATAA
* * *
13379979 CCGGGCTAAGTCCCGAGAGCATTTGAGCTAGTGGCTAATTCCGGGCTAAGTCCCGAAGGCATTCG
1 CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCG
* * *
13380044 TGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTGTGCGAGCTATTATAT
66 TGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAT
* * * *
13380099 CCGGGCTAAGTCCCGA-AGGCATTTGTGCGAGT-TATTATACCGGGCTAAGTCCCGAAGGCATTT
1 CCGGGCTAAGTCCCGAGA-GCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTC
*
13380162 GTGCAAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
65 GTGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
13380203 AGCTAGTGGC
Statistics
Matches: 92, Mismatches: 11, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
119 64 0.70
120 28 0.30
ACGTcount: A:0.23, C:0.24, G:0.29, T:0.25
Consensus pattern (120 bp):
CCGGGCTAAGTCCCGAGAGCATTTGAGCGAGTGGATAATACCGGGCTAAGTCCCGAAGGCATTCG
TGCAAGCTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGCTATTATAT
Found at i:13380235 original size:79 final size:79
Alignment explanation
Indices: 13380019--13380225 Score: 283
Period size: 79 Copynumber: 2.6 Consensus size: 79
13380009 GTGGCTAATT
* *
13380019 CCGGGCTAAGTCCCGAAGGCATTCGTGCGAGCTACTATATCCGGGCTAAGTCCCGAAGGCGTTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
* * *
13380084 TGCGAGCTATTATAT
65 TGCAAGCTACTATAA
*
13380099 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTATA-CCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGGGCTAAGTCCCGAAGGCATTTG
*
13380163 TGCAAGTTACTATAA
65 TGCAAGCTACTATAA
* * *
13380178 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGTGGCTATATCC-GGCTAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATATCCGGGCTAA
13380226 ACTCCGAAGG
Statistics
Matches: 113, Mismatches: 12, Indels: 5
0.87 0.09 0.04
Matches are distributed among these distances:
78 1 0.01
79 74 0.65
80 38 0.34
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (79 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGGGCTAAGTCCCGAAGGCATTTGT
GCAAGCTACTATAA
Found at i:13387680 original size:40 final size:40
Alignment explanation
Indices: 13387625--13387769 Score: 238
Period size: 40 Copynumber: 3.6 Consensus size: 40
13387615 NNNNNNNNNN
13387625 AAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCT
13387665 AAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCT
* *
13387705 AAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-CCGGGCT
1 AAGTCCCGAAGGCATTTGTGCGAGTTACT-AAATCCGGGCT
* *
13387745 ATGTCCCGAAGGCATTTGAGCGAGT
1 AAGTCCCGAAGGCATTTGTGCGAGT
13387770 AGCTATATCC
Statistics
Matches: 99, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
40 97 0.98
41 2 0.02
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.24
Consensus pattern (40 bp):
AAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCCGGGCT
Found at i:13396269 original size:66 final size:66
Alignment explanation
Indices: 13396188--13396319 Score: 264
Period size: 66 Copynumber: 2.0 Consensus size: 66
13396178 ATCTATTTTC
13396188 ATAGGAAAGTAACGAAACGATCATATGAACAGTATATTATGAGATATTTAAGTTTTCGTGAGACA
1 ATAGGAAAGTAACGAAACGATCATATGAACAGTATATTATGAGATATTTAAGTTTTCGTGAGACA
13396253 G
66 G
13396254 ATAGGAAAGTAACGAAACGATCATATGAACAGTATATTATGAGATATTTAAGTTTTCGTGAGACA
1 ATAGGAAAGTAACGAAACGATCATATGAACAGTATATTATGAGATATTTAAGTTTTCGTGAGACA
13396319 G
66 G
13396320 GGCCAGAACA
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
66 66 1.00
ACGTcount: A:0.41, C:0.09, G:0.21, T:0.29
Consensus pattern (66 bp):
ATAGGAAAGTAACGAAACGATCATATGAACAGTATATTATGAGATATTTAAGTTTTCGTGAGACA
G
Found at i:13405266 original size:27 final size:27
Alignment explanation
Indices: 13405226--13405546 Score: 376
Period size: 27 Copynumber: 11.9 Consensus size: 27
13405216 AAGAAGCGTC
*
13405226 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
13405253 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
13405279 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
13405307 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
13405333 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
13405361 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
13405387 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
13405415 CTGGTGGCTCTGCCAC-ATATATCTG-T
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
13405441 CCTGGTGGCTATGCCACAATTATCTGAT
1 -CTGGTGGCTCTGCCACAATTATCTGAT
* *
13405469 CTGGTGGCCCTGCCAC-ATATATCTGTT
1 CTGGTGGCTCTGCCACAAT-TATCTGAT
*
13405496 CTGGTGCCTCTGCCACAA-TATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
* * *
13405523 CTGGTGACTTTGTCACAA-TATCTG
1 CTGGTGGCTCTGCCACAATTATCTG
13405547 GCAGCCTCGC
Statistics
Matches: 258, Mismatches: 17, Indels: 38
0.82 0.05 0.12
Matches are distributed among these distances:
26 20 0.08
27 225 0.87
28 13 0.05
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:13405305 original size:54 final size:54
Alignment explanation
Indices: 13405223--13405546 Score: 562
Period size: 54 Copynumber: 6.0 Consensus size: 54
13405213 TGGAAGAAGC
13405223 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13405277 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13405331 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13405385 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
13405439 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCCCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * * * * *
13405493 GTTCTGGTGCCTCTGCCACAA-TATCTGTATCTGGTGACTTTGTCACA-ATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTGGCTCTGCCACATATATCT
13405546 G
1 G
13405547 GCAGCCTCGC
Statistics
Matches: 261, Mismatches: 8, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
53 13 0.05
54 248 0.95
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.34
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:13412382 original size:54 final size:54
Alignment explanation
Indices: 13412300--13413199 Score: 1748
Period size: 54 Copynumber: 16.7 Consensus size: 54
13412290 TGGAAGAAGC
13412300 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13412354 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13412408 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13412462 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13412516 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13412570 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13412624 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13412678 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13412732 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13412786 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13412840 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13412894 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13412948 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13413002 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
13413056 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
*
13413110 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCCCTGCCACATATATCT
1 GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
* * *
13413164 GTTCTGGTGCCTCTGCCACAA-TATCTGTATCTGGTG
1 GTCCTGGTGGCTATGCCACAATTATCTG-ATCTGGTG
13413200 ACTTCGTCAC
Statistics
Matches: 841, Mismatches: 4, Indels: 2
0.99 0.00 0.00
Matches are distributed among these distances:
53 6 0.01
54 835 0.99
ACGTcount: A:0.18, C:0.26, G:0.22, T:0.33
Consensus pattern (54 bp):
GTCCTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCACATATATCT
Found at i:13413210 original size:27 final size:26
Alignment explanation
Indices: 13412303--13413217 Score: 781
Period size: 27 Copynumber: 33.9 Consensus size: 26
13412293 AAGAAGCGTC
* * *
13412303 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
* *
13412330 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGCCTCTGCCACA-ATATCTGTT
* * *
13412357 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
* *
13412384 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGCCTCTGCCACA-ATATCTGTT
* * *
13412411 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
* *
13412438 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGCCTCTGCCACA-ATATCTGTT
* * *
13412465 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
* *
13412492 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGCCTCTGCCACA-ATATCTGTT
* * *
13412519 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
* *
13412546 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGCCTCTGCCACA-ATATCTGTT
* * *
13412573 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
* *
13412600 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGCCTCTGCCACA-ATATCTGTT
* * *
13412627 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
* *
13412654 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGCCTCTGCCACA-ATATCTGTT
* * *
13412681 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
* *
13412708 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGCCTCTGCCACA-ATATCTGTT
* * *
13412735 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
* *
13412762 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGCCTCTGCCACA-ATATCTGTT
* * *
13412789 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
* *
13412816 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGCCTCTGCCACA-ATATCTGTT
* * *
13412843 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
* *
13412870 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGCCTCTGCCACA-ATATCTGTT
* * *
13412897 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
* *
13412924 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGCCTCTGCCACA-ATATCTGTT
* * *
13412951 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
* *
13412978 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGCCTCTGCCACA-ATATCTGTT
* * *
13413005 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
* *
13413032 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGCCTCTGCCACA-ATATCTGTT
* * *
13413059 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
* *
13413086 CTGGTGGCTCTGCCACATATATCTGTC
1 CTGGTGCCTCTGCCACA-ATATCTGTT
* * *
13413113 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGCCTCTGCCACAA-TATCTGTT
13413140 CTGGTGGCC-CTGCCACATATATCTGTT
1 CTGGT-GCCTCTGCCACA-ATATCTGTT
13413167 CTGGTGCCTCTGCCACAATATCTGTAT
1 CTGGTGCCTCTGCCACAATATCTGT-T
* *
13413194 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGCCTCT-GCCACAATATCTG
13413218 GTAGCCTCGC
Statistics
Matches: 758, Mismatches: 95, Indels: 70
0.82 0.10 0.08
Matches are distributed among these distances:
26 27 0.04
27 713 0.94
28 18 0.02
ACGTcount: A:0.19, C:0.26, G:0.22, T:0.33
Consensus pattern (26 bp):
CTGGTGCCTCTGCCACAATATCTGTT
Found at i:13421353 original size:39 final size:39
Alignment explanation
Indices: 13421310--13421462 Score: 220
Period size: 39 Copynumber: 3.9 Consensus size: 39
13421300 CCGGACATCT
* * *
13421310 TTCCAGCACGTAGCCTGCGGACCTTAAGTTCGGTTATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
** *
13421349 TTCCAGCACATAGATTGCGGACCTTAAGTCCAGATATAA
1 TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
13421388 TTCCAGCACATAGCCTGCGGA-CTCTAAGTCCGGATATAA
1 TTCCAGCACATAGCCTGCGGACCT-TAAGTCCGGATATAA
13421427 TTCCAGCACATAGCCTGCGGA-CTCTAAGTCCGGATA
1 TTCCAGCACATAGCCTGCGGACCT-TAAGTCCGGATA
13421463 AACATCACTG
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
38 2 0.02
39 102 0.98
ACGTcount: A:0.27, C:0.27, G:0.21, T:0.25
Consensus pattern (39 bp):
TTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATATAA
Found at i:13429595 original size:32 final size:32
Alignment explanation
Indices: 13429559--13429623 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
13429549 TGTATGCATT
13429559 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
13429591 TTAGCATTTTAATAGTTAATGGATGATGGGCA
1 TTAGCATTTTAATAGTTAATGGATGATGGGCA
13429623 T
1 T
13429624 GGTAAGCATT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.31, C:0.06, G:0.25, T:0.38
Consensus pattern (32 bp):
TTAGCATTTTAATAGTTAATGGATGATGGGCA
Found at i:13431134 original size:26 final size:26
Alignment explanation
Indices: 13431105--13431157 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
13431095 TTTACAGTTT
13431105 TACCCCTAGGAGATAAATT-ACCAAAA
1 TACCCCTAGG-GATAAATTGACCAAAA
* *
13431131 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCAAAA
13431157 T
1 T
13431158 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCAAAA
Found at i:13432534 original size:39 final size:39
Alignment explanation
Indices: 13432440--13432613 Score: 205
Period size: 39 Copynumber: 4.5 Consensus size: 39
13432430 ACCTGAAACC
* * *
13432440 AATTACCAGCACA-AG-CTGCGGGA-CTTTAGCCCGGACAT
1 AATT-CCAGCACATAGCCTGC-GGACCTTAAGTCCGGATAT
* ** **
13432478 ATTTCCAGCACGCAGCCTGTAGACCTTAAGTCC-GATTAT
1 AATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGA-TAT
13432517 AATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATAT
13432556 AATTCCAGCACATAGCCTGCGGA-CTCTAAGTCCGGATAT
1 AATTCCAGCACATAGCCTGCGGACCT-TAAGTCCGGATAT
13432595 AATTCCAGCACATAGCCTG
1 AATTCCAGCACATAGCCTG
13432614 ATACTTATTC
Statistics
Matches: 118, Mismatches: 12, Indels: 11
0.84 0.09 0.08
Matches are distributed among these distances:
37 7 0.06
38 11 0.09
39 98 0.83
40 2 0.02
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.23
Consensus pattern (39 bp):
AATTCCAGCACATAGCCTGCGGACCTTAAGTCCGGATAT
Found at i:13436759 original size:13 final size:13
Alignment explanation
Indices: 13436741--13436765 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13436731 AAGTAATCAC
13436741 ACACGGGCGTGTT
1 ACACGGGCGTGTT
13436754 ACACGGGCGTGT
1 ACACGGGCGTGT
13436766 CCCTGCCGAG
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACACGGGCGTGTT
Found at i:13462211 original size:11 final size:11
Alignment explanation
Indices: 13462180--13462213 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
13462170 CACAAATCAA
* *
13462180 CATATATTTCT
1 CATACATTTTT
13462191 CATACATTTTT
1 CATACATTTTT
13462202 CATACATTTTT
1 CATACATTTTT
13462213 C
1 C
13462214 CATTTCAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.26, C:0.21, G:0.00, T:0.53
Consensus pattern (11 bp):
CATACATTTTT
Found at i:13468325 original size:93 final size:93
Alignment explanation
Indices: 13468217--13468388 Score: 308
Period size: 93 Copynumber: 1.8 Consensus size: 93
13468207 CGCCCATAAG
* *
13468217 CGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
13468282 ATGAGTTCGGATGCCTAGTTACATCTCA
66 ACGAGTTCGGATGCCTAGTTACATCTCA
*
13468310 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
13468375 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
13468389 TCAACCATCC
Statistics
Matches: 75, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 75 1.00
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.22
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:13468385 original size:46 final size:46
Alignment explanation
Indices: 13468210--13468385 Score: 207
Period size: 46 Copynumber: 3.8 Consensus size: 46
13468200 TGTAACCCGC
* * *
13468210 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
* * *
13468256 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
13468306 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
13468349 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
13468386 TGCTCAACCA
Statistics
Matches: 109, Mismatches: 12, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 62 0.57
47 28 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:13475444 original size:46 final size:46
Alignment explanation
Indices: 13475343--13475430 Score: 122
Period size: 46 Copynumber: 1.9 Consensus size: 46
13475333 TGTAACCCGC
* * * *
13475343 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
* *
13475389 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTC
13475431 AACCATCCTA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
46 37 1.00
ACGTcount: A:0.27, C:0.31, G:0.23, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGACGCTCCCAT
Found at i:13488551 original size:47 final size:47
Alignment explanation
Indices: 13488498--13488589 Score: 139
Period size: 47 Copynumber: 2.0 Consensus size: 47
13488488 TGTACTCCTC
* *
13488498 ATTCCTGTTATTAATCTTATCAAAATAAGGTTTTAAACAGGTGTTGT
1 ATTCCTGCTATTAATCTCATCAAAATAAGGTTTTAAACAGGTGTTGT
* * *
13488545 ATTCCTGCTATTATTCTCATCAAAATAAGGTTTTAGACGGGTGTT
1 ATTCCTGCTATTAATCTCATCAAAATAAGGTTTTAAACAGGTGTT
13488590 TTTTACCTTA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.41
Consensus pattern (47 bp):
ATTCCTGCTATTAATCTCATCAAAATAAGGTTTTAAACAGGTGTTGT
Found at i:13495233 original size:14 final size:15
Alignment explanation
Indices: 13495216--13495244 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13495206 AAACGTGACT
13495216 GCAAAAT-AAATTAA
1 GCAAAATAAAATTAA
13495230 GCAAAATAAAATTAA
1 GCAAAATAAAATTAA
13495245 TTGGTAAATA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.66, C:0.07, G:0.07, T:0.21
Consensus pattern (15 bp):
GCAAAATAAAATTAA
Found at i:13496087 original size:19 final size:19
Alignment explanation
Indices: 13496065--13496117 Score: 74
Period size: 18 Copynumber: 2.9 Consensus size: 19
13496055 AATCAAAATT
13496065 TAAAAATCAAATTTTAAAC
1 TAAAAATCAAATTTTAAAC
*
13496084 TAAAGATC-AATTTTAAAC
1 TAAAAATCAAATTTTAAAC
*
13496102 TAAATA-CAAATTTTAA
1 TAAAAATCAAATTTTAA
13496118 CAATATCAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
17 1 0.03
18 23 0.74
19 7 0.23
ACGTcount: A:0.55, C:0.09, G:0.02, T:0.34
Consensus pattern (19 bp):
TAAAAATCAAATTTTAAAC
Done.