Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr1
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: 106989029
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 3754247 characters in sequence are not A, C, G, or T
File 269 of 322
Found at i:89188017 original size:25 final size:25
Alignment explanation
Indices: 89187957--89188040 Score: 118
Period size: 26 Copynumber: 3.4 Consensus size: 25
89187947 AGGAAGTGCA
*
89187957 AAAAGGGCTTTTGCCCCAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTATC
89187982 GAAAAGGGCTTTTGCCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTATC
*
89188008 AAAAGGGC-TTTGCCCCAG-TTATT
1 AAAAGGGCTTTTGCCCCAGTTTATC
89188031 AAAAGAGGCT
1 AAAAG-GGCT
89188041 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 2, Indels: 5
0.89 0.03 0.08
Matches are distributed among these distances:
23 9 0.17
24 13 0.24
25 8 0.15
26 24 0.44
ACGTcount: A:0.27, C:0.23, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTATC
Found at i:89188284 original size:31 final size:31
Alignment explanation
Indices: 89188249--89188311 Score: 99
Period size: 31 Copynumber: 2.0 Consensus size: 31
89188239 GTTTACAGTG
*
89188249 AAGGCTTTGGCCCAGTAATATGAAATATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
**
89188280 AAGGCTTCGGCCCAGTGTTATGAAATATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
89188311 A
1 A
89188312 TATGAAAAGT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.37, C:0.14, G:0.24, T:0.25
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTAATATGAAATATGAA
Found at i:89199858 original size:18 final size:18
Alignment explanation
Indices: 89199835--89199873 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
89199825 CATTCCGAAG
*
89199835 TATGTATATATACATATA
1 TATGTATATATACATAAA
89199853 TATGTATATATACATAAA
1 TATGTATATATACATAAA
89199871 TAT
1 TAT
89199874 ACCCATTCGT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.46, C:0.05, G:0.05, T:0.44
Consensus pattern (18 bp):
TATGTATATATACATAAA
Found at i:89200383 original size:28 final size:28
Alignment explanation
Indices: 89200318--89200468 Score: 214
Period size: 28 Copynumber: 5.4 Consensus size: 28
89200308 AAGATTGGCG
* * * *
89200318 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
*
89200347 CTAAGTGTGCGAGTTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
* *
89200375 CTAAGTGTGCGAGCTTGATTATGTAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
89200403 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
89200431 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
89200458 CTGAGTGTGCG
1 CTAAGTGTGCG
89200469 GACTTAATAT
Statistics
Matches: 113, Mismatches: 9, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
27 24 0.21
28 74 0.65
29 15 0.13
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:89203107 original size:22 final size:22
Alignment explanation
Indices: 89203082--89203125 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
89203072 AAATTAGTTC
89203082 GGCT-AAGGTATAACATTCATAT
1 GGCTAAAGGTATAAC-TTCATAT
*
89203104 GGCTAAATGTATAACTTCATAT
1 GGCTAAAGGTATAACTTCATAT
89203126 ATGCACATTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 11 0.55
23 9 0.45
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (22 bp):
GGCTAAAGGTATAACTTCATAT
Found at i:89203410 original size:40 final size:40
Alignment explanation
Indices: 89203351--89204251 Score: 1569
Period size: 40 Copynumber: 22.6 Consensus size: 40
89203341 ACCCAAGCAT
* * *
89203351 CTTCGGGATTTAG-CCGGATATA-ACAACTAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAA-TAGCACAAATGC
* * * *
89203390 CTTCGGGTCTTGGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAA-TAGCACAAATGC
89203430 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89203470 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89203510 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89203550 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89203590 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89203630 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89203670 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89203710 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89203750 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89203790 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89203830 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89203870 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89203910 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89203950 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89203990 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89204030 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
* *
89204070 CTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAA-TAGCACAAATGC
*
89204110 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGT
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
* * *
89204150 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
* * *
89204190 CTTCGGGACTTAGCCCGGATGTAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAA-TAGCACAAATGC
* *
89204230 CTTCGAGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCAGATAT
89204252 CATTCGAATA
Statistics
Matches: 833, Mismatches: 23, Indels: 11
0.96 0.03 0.01
Matches are distributed among these distances:
39 15 0.02
40 812 0.97
41 6 0.01
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
Found at i:89204535 original size:48 final size:49
Alignment explanation
Indices: 89204459--89204558 Score: 184
Period size: 48 Copynumber: 2.1 Consensus size: 49
89204449 ATTACCTCAA
89204459 TATATGTAACTCAAGTAGATTCATTATATCACCGTTTATTTGTTATGCT
1 TATATGTAACTCAAGTAGATTCATTATATCACCGTTTATTTGTTATGCT
*
89204508 TATA-GTAACTCAAGTAGATTCATTATATCACCGTTTCTTTGTTATGCT
1 TATATGTAACTCAAGTAGATTCATTATATCACCGTTTATTTGTTATGCT
89204556 TAT
1 TAT
89204559 TTGTCATGAC
Statistics
Matches: 50, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
48 46 0.92
49 4 0.08
ACGTcount: A:0.28, C:0.15, G:0.12, T:0.45
Consensus pattern (49 bp):
TATATGTAACTCAAGTAGATTCATTATATCACCGTTTATTTGTTATGCT
Found at i:89212451 original size:40 final size:40
Alignment explanation
Indices: 89212392--89213292 Score: 1587
Period size: 40 Copynumber: 22.6 Consensus size: 40
89212382 ACCCAAGCAT
* * *
89212392 CTTCGGGATTTAG-CCGGATATA-ACAACTAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAA-TAGCACAAATGC
* * * *
89212431 CTTCGGGTCTTGGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAA-TAGCACAAATGC
89212471 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89212511 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89212551 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89212591 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89212631 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89212671 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89212711 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89212751 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89212791 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89212831 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89212871 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89212911 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89212951 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89212991 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89213031 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
89213071 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
* *
89213111 CTTCGGGACTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAA-TAGCACAAATGC
89213151 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
* * *
89213191 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAAAGC
1 CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
* **
89213231 CTTCGGGACTTAGCCCGGATATAG-CAACTCCCACAAATGC
1 CTTCGGGACTTAGCCCAGATATAGTCAA-TAGCACAAATGC
*
89213271 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCAGATAT
89213293 CATTCGAATA
Statistics
Matches: 837, Mismatches: 19, Indels: 11
0.97 0.02 0.01
Matches are distributed among these distances:
39 15 0.02
40 816 0.97
41 6 0.01
ACGTcount: A:0.31, C:0.26, G:0.21, T:0.22
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCAGATATAGTCAATAGCACAAATGC
Found at i:89213572 original size:44 final size:44
Alignment explanation
Indices: 89213509--89213596 Score: 167
Period size: 44 Copynumber: 2.0 Consensus size: 44
89213499 ATATATGTAA
*
89213509 CTCAAGTAGATTCATTATATCACCGTTTCTTTGTTATGCTTATT
1 CTCAAGTAGATTCATTATATCACCGTTTATTTGTTATGCTTATT
89213553 CTCAAGTAGATTCATTATATCACCGTTTATTTGTTATGCTTATT
1 CTCAAGTAGATTCATTATATCACCGTTTATTTGTTATGCTTATT
89213597 TGTCATGACT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.24, C:0.17, G:0.11, T:0.48
Consensus pattern (44 bp):
CTCAAGTAGATTCATTATATCACCGTTTATTTGTTATGCTTATT
Found at i:89220560 original size:20 final size:20
Alignment explanation
Indices: 89220535--89220581 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
89220525 ATTCTGATAT
89220535 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
89220555 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
89220575 ACATGAT
1 ACATGAT
89220582 GTATTAATAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.36, C:0.11, G:0.19, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:89220666 original size:26 final size:25
Alignment explanation
Indices: 89220629--89220699 Score: 90
Period size: 26 Copynumber: 2.8 Consensus size: 25
89220619 AGTAAGTGCA
89220629 AAAAGGGCTTTTGCCCCAGTTTACC
1 AAAAGGGCTTTTGCCCCAGTTTACC
* * *
89220654 GGAAAGGGCTTTTACCCCAGTTTATC
1 -AAAAGGGCTTTTGCCCCAGTTTACC
*
89220680 AAAAGGGC-TTTGCCCTAGTT
1 AAAAGGGCTTTTGCCCCAGTT
89220700 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
24 10 0.26
25 7 0.18
26 22 0.56
ACGTcount: A:0.24, C:0.24, G:0.23, T:0.30
Consensus pattern (25 bp):
AAAAGGGCTTTTGCCCCAGTTTACC
Found at i:89220956 original size:31 final size:31
Alignment explanation
Indices: 89220921--89220981 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
89220911 GTTTATAGTG
89220921 AAGGCTTCGGCCCAGTAATATGAAATATGAA
1 AAGGCTTCGGCCCAGTAATATGAAATATGAA
**
89220952 AAGGCTTCGGCCCAGTGTTATGAAATATGA
1 AAGGCTTCGGCCCAGTAATATGAAATATGA
89220982 GATATGAAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.34, C:0.16, G:0.25, T:0.25
Consensus pattern (31 bp):
AAGGCTTCGGCCCAGTAATATGAAATATGAA
Found at i:89240326 original size:50 final size:49
Alignment explanation
Indices: 89240272--89240460 Score: 166
Period size: 50 Copynumber: 3.8 Consensus size: 49
89240262 AGGCGAAGCT
* * *
89240272 ATCTGATACCCATAGTAGCCTGCACTTAGTACTACACACGTGACCTCACC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CTAAAC
* * * * * * *
89240322 ATCTGATACACGTAGTAG-CTACACTTAATACTACACATGTGGTCGAAGTC
1 ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGT-GACTAA-AC
* * * *
89240372 AT-TGAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACTTAAC
1 ATCTGA-TACACATAGTAGCCTGCACTTAGTACTACACACGTGACTAAAC
* * *
89240421 AGTATGGTACACGTAGTAGCCTGCACTTAGTACTACACAC
1 A-TCTGATACACATAGTAGCCTGCACTTAGTACTACACAC
89240461 ATGTATTCAC
Statistics
Matches: 111, Mismatches: 22, Indels: 12
0.77 0.15 0.08
Matches are distributed among these distances:
49 26 0.23
50 64 0.58
51 21 0.19
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.26
Consensus pattern (49 bp):
ATCTGATACACATAGTAGCCTGCACTTAGTACTACACACGTGACTAAAC
Found at i:89252007 original size:30 final size:30
Alignment explanation
Indices: 89251966--89252026 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
89251956 GGGCGTGTGC
89251966 CACGACCGTGTGCCCCAAAATCTATATAAA
1 CACGACCGTGTGCCCCAAAATCTATATAAA
*
89251996 CACGCCCGTGTGCCCCAAAATCTATATAAA
1 CACGACCGTGTGCCCCAAAATCTATATAAA
89252026 C
1 C
89252027 CCCTCACTAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.33, G:0.13, T:0.20
Consensus pattern (30 bp):
CACGACCGTGTGCCCCAAAATCTATATAAA
Found at i:89255832 original size:31 final size:31
Alignment explanation
Indices: 89255794--89255853 Score: 120
Period size: 31 Copynumber: 1.9 Consensus size: 31
89255784 GACACAGGGA
89255794 GTAGGAAGCAAGGAATTACTCAAGGGAAGTC
1 GTAGGAAGCAAGGAATTACTCAAGGGAAGTC
89255825 GTAGGAAGCAAGGAATTACTCAAGGGAAG
1 GTAGGAAGCAAGGAATTACTCAAGGGAAG
89255854 CCGATTGGTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 29 1.00
ACGTcount: A:0.40, C:0.12, G:0.33, T:0.15
Consensus pattern (31 bp):
GTAGGAAGCAAGGAATTACTCAAGGGAAGTC
Found at i:89273018 original size:79 final size:81
Alignment explanation
Indices: 89272909--89273091 Score: 232
Period size: 79 Copynumber: 2.3 Consensus size: 81
89272899 TACTCGTTCA
* *
89272909 AATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAACCCGG
* *
89272972 ATTTAGTAAC-TCGCACC
65 ATATAGTAACTTAGCA-C
**
89272989 AATGCCTTCGGG-CTTAGCCCGGAAT-TAGTAACTCGCACAAATGCCTTCGGATCTTAGTCCGGA
1 AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
* *
89273052 TATGGTCACTTAGCAC
66 TATAGTAACTTAGCAC
*
89273068 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAGCCCGGA
89273092 CATCATTCGA
Statistics
Matches: 90, Mismatches: 9, Indels: 8
0.84 0.08 0.07
Matches are distributed among these distances:
78 3 0.03
79 59 0.66
80 28 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (81 bp):
AATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAACCCGGA
TATAGTAACTTAGCAC
Found at i:89273091 original size:40 final size:40
Alignment explanation
Indices: 89272888--89273091 Score: 238
Period size: 40 Copynumber: 5.1 Consensus size: 40
89272878 CGGAATTTAA
** *
89272888 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
* *
89272928 CCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAAC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
89272968 CCGGATTTAGTAACTCGCACCAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
*
89273007 CCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
89273047 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
89273087 CCGGA
1 CCGGA
89273092 CATCATTCGA
Statistics
Matches: 141, Mismatches: 16, Indels: 14
0.82 0.09 0.08
Matches are distributed among these distances:
38 2 0.01
39 33 0.23
40 94 0.67
41 12 0.09
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:89276648 original size:45 final size:45
Alignment explanation
Indices: 89276586--89276762 Score: 180
Period size: 45 Copynumber: 3.9 Consensus size: 45
89276576 TGGATTCTGA
* * *
89276586 TATGTGTTTCCGA-GTAAGACCACGTCTGGGACGTTGGCATCGATA
1 TATGTGTTTTC-ATGTAAGACCACGTCTGGGACATTGGCATCGATC
* ** *
89276631 TAAT-TGTTTTCTTGTAAGACCACGTCTGGGATGTTGACATCGATC
1 T-ATGTGTTTTCATGTAAGACCACGTCTGGGACATTGGCATCGATC
* *
89276676 TATGTGGTTAT-ATGTAAGACCACATCTGGGACATTGGCATCGATC
1 TATGT-GTTTTCATGTAAGACCACGTCTGGGACATTGGCATCGATC
* * * * *
89276721 TATGTGGTTACGTGTAAGACCATGTCTGGAACATTGGCATCG
1 TATGTGTTTTCATGTAAGACCACGTCTGGGACATTGGCATCG
89276763 TATTTGATTC
Statistics
Matches: 109, Mismatches: 18, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
44 4 0.04
45 99 0.91
46 6 0.06
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.32
Consensus pattern (45 bp):
TATGTGTTTTCATGTAAGACCACGTCTGGGACATTGGCATCGATC
Found at i:89276762 original size:90 final size:90
Alignment explanation
Indices: 89276599--89276762 Score: 213
Period size: 90 Copynumber: 1.8 Consensus size: 90
89276589 GTGTTTCCGA
* * * * * * **
89276599 GTAAGACCACGTCTGGGACGTTGGCATCGATATAATTGTTTTCTTGTAAGACCACGTCTGGGATG
1 GTAAGACCACATCTGGGACATTGGCATCGATATAATTGGTTACGTGTAAGACCACGTCTGGAACA
89276664 TTGACATCGATCTATGTGGTTATAT
66 TTGACATCGATCTATGTGGTTATAT
* *
89276689 GTAAGACCACATCTGGGACATTGGCATCGATCT-ATGTGGTTACGTGTAAGACCATGTCTGGAAC
1 GTAAGACCACATCTGGGACATTGGCATCGATATAAT-TGGTTACGTGTAAGACCACGTCTGGAAC
*
89276753 ATTGGCATCG
65 ATTGACATCG
89276763 TATTTGATTC
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
89 2 0.03
90 60 0.97
ACGTcount: A:0.24, C:0.18, G:0.26, T:0.31
Consensus pattern (90 bp):
GTAAGACCACATCTGGGACATTGGCATCGATATAATTGGTTACGTGTAAGACCACGTCTGGAACA
TTGACATCGATCTATGTGGTTATAT
Found at i:89284568 original size:47 final size:48
Alignment explanation
Indices: 89284495--89284807 Score: 192
Period size: 46 Copynumber: 6.7 Consensus size: 48
89284485 GGGTATAATG
* *
89284495 CTGATGCCGTGTCCCAGACATAGTCTTACACTGGCTCATC-CAT-CAAGT
1 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACATAC-AGT
* * *
89284543 -TGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCACATATCTGT
1 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATA-CAGT
* * * *
89284591 GCTAATGCCATGTCCCAGACATGGTCTTACACTGACACCTC-TATAC-GT
1 -CTGATGCCATGTCCCAGACATGGTCTTACACTGGC-TCTCACATACAGT
** * * * ** *
89284639 GCCAATGCCATGTCCCAGACATGGTCTTTCACTGACACATTTCGT--AGT
1 -CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCACATACAGT
* *
89284687 -TGATG-CATGTCCCAGACAT-GTCTTATACTGGCT-T-ACATCACGAGG
1 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACAT-AC-AGT
* * ***
89284732 CTGATG-CATGTCCCAGACAT-GTCTTACACTAGCTCTCATAATGTGGT
1 CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCA-CATACAGT
*
89284779 -TGATG-CATGTTCCAGACAT-GTCTTACACT
1 CTGATGCCATGTCCCAGACATGGTCTTACACT
89284808 ACATACAAAT
Statistics
Matches: 214, Mismatches: 34, Indels: 36
0.75 0.12 0.13
Matches are distributed among these distances:
41 2 0.01
42 1 0.00
44 10 0.05
45 16 0.07
46 64 0.30
47 38 0.18
48 42 0.20
49 5 0.02
50 33 0.15
51 3 0.01
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (48 bp):
CTGATGCCATGTCCCAGACATGGTCTTACACTGGCTCTCACATACAGT
Found at i:89284657 original size:48 final size:51
Alignment explanation
Indices: 89284545--89284676 Score: 175
Period size: 48 Copynumber: 2.7 Consensus size: 51
89284535 CATCAAGTTG
* * *
89284545 ATGCCATGTCCCAAACATGGTCTTACACT-AGC-TCTCACATATCTGTGCTA
1 ATGCCATGTCCCAGACATGGTCTTACACTGA-CACCTCACATATCTGTGCCA
*
89284595 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTC-TATA-C-GTGCCA
1 ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCACATATCTGTGCCA
*
89284643 ATGCCATGTCCCAGACATGGTCTTTCACTGACAC
1 ATGCCATGTCCCAGACATGGTCTTACACTGACAC
89284677 ATTTCGTAGT
Statistics
Matches: 75, Mismatches: 5, Indels: 6
0.87 0.06 0.07
Matches are distributed among these distances:
48 38 0.51
49 1 0.01
50 32 0.43
51 4 0.05
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (51 bp):
ATGCCATGTCCCAGACATGGTCTTACACTGACACCTCACATATCTGTGCCA
Found at i:89286427 original size:42 final size:42
Alignment explanation
Indices: 89286309--89286427 Score: 123
Period size: 43 Copynumber: 2.8 Consensus size: 42
89286299 CGTACCACTA
* * * *
89286309 CCTTATCCCAGATATGGTCTTACATGTAATCTCGTATTGATG
1 CCTTATCCCAAATATGGTCTTACAAGTAATCTCATATCGATG
* * * * *
89286351 CCAATAGCACAAATATGGTCTTATAAG-AAGTCTCATATCGATT
1 CC-TTATCCCAAATATGGTCTTACAAGTAA-TCTCATATCGATG
*
89286394 CCTTATCCCAAATATGGTCTTACACGTAATCTCA
1 CCTTATCCCAAATATGGTCTTACAAGTAATCTCA
89286428 ATAACCCTAA
Statistics
Matches: 60, Mismatches: 14, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
42 28 0.47
43 32 0.53
ACGTcount: A:0.30, C:0.23, G:0.13, T:0.34
Consensus pattern (42 bp):
CCTTATCCCAAATATGGTCTTACAAGTAATCTCATATCGATG
Found at i:89292201 original size:20 final size:20
Alignment explanation
Indices: 89292154--89292201 Score: 87
Period size: 20 Copynumber: 2.4 Consensus size: 20
89292144 TATCACACGG
*
89292154 CCAAGACATATGCTCGGGTC
1 CCAAGACCTATGCTCGGGTC
89292174 CCAAGACCTATGCTCGGGTC
1 CCAAGACCTATGCTCGGGTC
89292194 CCAAGACC
1 CCAAGACC
89292202 GTGTCCTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.25, C:0.35, G:0.23, T:0.17
Consensus pattern (20 bp):
CCAAGACCTATGCTCGGGTC
Found at i:89293651 original size:42 final size:42
Alignment explanation
Indices: 89293528--89293651 Score: 133
Period size: 42 Copynumber: 2.9 Consensus size: 42
89293518 AGTATCGTAC
* *
89293528 CAATGCCACACCCCATATATGGTCTTACATGTAATCTCGTAT
1 CAATGCCACACCCCAGATATGGTCTTACATGTAATCTCATAT
* ** * *
89293570 CAATGCCAAGAGGCCAGCTATGGTCTTACACG-AAGTCTCATAT
1 CAATGCC-ACACCCCAGATATGGTCTTACATGTAA-TCTCATAT
* * *
89293613 CGATGCCATATCCCAGATATGGTCTTACATGTAATCTCA
1 CAATGCCACACCCCAGATATGGTCTTACATGTAATCTCA
89293652 GTAACCCTAA
Statistics
Matches: 66, Mismatches: 13, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
42 33 0.50
43 33 0.50
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.28
Consensus pattern (42 bp):
CAATGCCACACCCCAGATATGGTCTTACATGTAATCTCATAT
Found at i:89296363 original size:23 final size:22
Alignment explanation
Indices: 89296311--89296363 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
89296301 TCCACGTCTT
*
89296311 TTTCTTTTGTTTCTTTTTCTAA
1 TTTCTTTTCTTTCTTTTTCTAA
89296333 -TTCATTTTCTCTTCTTTCTTC-AA
1 TTTC-TTTTCT-TTCTTT-TTCTAA
89296356 TTTCTTTT
1 TTTCTTTT
89296364 TCACTCTCAA
Statistics
Matches: 26, Mismatches: 1, Indels: 7
0.76 0.03 0.21
Matches are distributed among these distances:
21 3 0.12
22 5 0.19
23 12 0.46
24 6 0.23
ACGTcount: A:0.09, C:0.19, G:0.02, T:0.70
Consensus pattern (22 bp):
TTTCTTTTCTTTCTTTTTCTAA
Found at i:89301768 original size:322 final size:322
Alignment explanation
Indices: 89301183--89301827 Score: 1290
Period size: 322 Copynumber: 2.0 Consensus size: 322
89301173 CCGAGGAACA
89301183 AGTTCCAGAGGTCGATCAAGGAAAACGAAAGGTTTCGAAATAACCGAAACACAACACCGAAATGA
1 AGTTCCAGAGGTCGATCAAGGAAAACGAAAGGTTTCGAAATAACCGAAACACAACACCGAAATGA
89301248 ATACCAGGTAAGTTCGAATAACTTAAAGTAAACACTCAATGTGCCTAATTATTTGATTTATGAAT
66 ATACCAGGTAAGTTCGAATAACTTAAAGTAAACACTCAATGTGCCTAATTATTTGATTTATGAAT
89301313 GCATGATGATTGCATTTATTAATAACATGAAATTTTATGAAATGCATGCTTAAGTATGAATTGTG
131 GCATGATGATTGCATTTATTAATAACATGAAATTTTATGAAATGCATGCTTAAGTATGAATTGTG
89301378 ATAAATGTCTCGATTTAGGTTAAAAAGGGAATTCAATGGATAAACCATGATTTACAAGCGAATTG
196 ATAAATGTCTCGATTTAGGTTAAAAAGGGAATTCAATGGATAAACCATGATTTACAAGCGAATTG
89301443 AGATCTTGCATGTGTTGCAGAAAGGATTTAGCCCGGACGGGTAATCTGTTGATCTCATTTTT
261 AGATCTTGCATGTGTTGCAGAAAGGATTTAGCCCGGACGGGTAATCTGTTGATCTCATTTTT
89301505 AGTTCCAGAGGTCGATCAAGGAAAACGAAAGGTTTCGAAATAACCGAAACACAACACCGAAATGA
1 AGTTCCAGAGGTCGATCAAGGAAAACGAAAGGTTTCGAAATAACCGAAACACAACACCGAAATGA
89301570 ATACCAGGTAAGTTCGAATAACTTAAAGTAAACACTCAATGTGCCTAATTATTTGATTTATGAAT
66 ATACCAGGTAAGTTCGAATAACTTAAAGTAAACACTCAATGTGCCTAATTATTTGATTTATGAAT
89301635 GCATGATGATTGCATTTATTAATAACATGAAATTTTATGAAATGCATGCTTAAGTATGAATTGTG
131 GCATGATGATTGCATTTATTAATAACATGAAATTTTATGAAATGCATGCTTAAGTATGAATTGTG
89301700 ATAAATGTCTCGATTTAGGTTAAAAAGGGAATTCAATGGATAAACCATGATTTACAAGCGAATTG
196 ATAAATGTCTCGATTTAGGTTAAAAAGGGAATTCAATGGATAAACCATGATTTACAAGCGAATTG
89301765 AGATCTTGCATGTGTTGCAGAAAGGATTTAGCCCGGACGGGTAATCTGTTGATCTCATTTTT
261 AGATCTTGCATGTGTTGCAGAAAGGATTTAGCCCGGACGGGTAATCTGTTGATCTCATTTTT
89301827 A
1 A
89301828 AAAGGATCTA
Statistics
Matches: 323, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
322 323 1.00
ACGTcount: A:0.36, C:0.14, G:0.20, T:0.30
Consensus pattern (322 bp):
AGTTCCAGAGGTCGATCAAGGAAAACGAAAGGTTTCGAAATAACCGAAACACAACACCGAAATGA
ATACCAGGTAAGTTCGAATAACTTAAAGTAAACACTCAATGTGCCTAATTATTTGATTTATGAAT
GCATGATGATTGCATTTATTAATAACATGAAATTTTATGAAATGCATGCTTAAGTATGAATTGTG
ATAAATGTCTCGATTTAGGTTAAAAAGGGAATTCAATGGATAAACCATGATTTACAAGCGAATTG
AGATCTTGCATGTGTTGCAGAAAGGATTTAGCCCGGACGGGTAATCTGTTGATCTCATTTTT
Found at i:89311079 original size:16 final size:16
Alignment explanation
Indices: 89311058--89311097 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
89311048 CACTGCAAAG
*
89311058 GCTGAAAAGCCGAAAA
1 GCTGAAAAGCCAAAAA
89311074 GCTGAAAAGCCAAAAA
1 GCTGAAAAGCCAAAAA
*
89311090 ACTGAAAA
1 GCTGAAAA
89311098 ATCGGAATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.55, C:0.17, G:0.20, T:0.07
Consensus pattern (16 bp):
GCTGAAAAGCCAAAAA
Found at i:89312874 original size:20 final size:21
Alignment explanation
Indices: 89312851--89312890 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
89312841 CCCTTGAAAC
89312851 AGGGC-ACACACCCGTGTGGA
1 AGGGCAACACACCCGTGTGGA
*
89312871 AGGGCAACACGCCCGTGTGG
1 AGGGCAACACACCCGTGTGG
89312891 CCATTATGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.23, C:0.30, G:0.38, T:0.10
Consensus pattern (21 bp):
AGGGCAACACACCCGTGTGGA
Found at i:89318675 original size:55 final size:54
Alignment explanation
Indices: 89318536--89318676 Score: 140
Period size: 55 Copynumber: 2.6 Consensus size: 54
89318526 GAAGGCACAC
* ** *
89318536 GCCCGTGTTGTTTTGGCAGGTTCGCCCATGGTTGCTTGGCATGGCCATGTCATA
1 GCCCGTGTTGTTTTGGCAGGTTCGCCCACGGTTGCAAGGCACGGCCATGTCATA
* ** * * * *
89318590 CACCCGTGTTAATTTGACAGGTTCGGCCACGGTTTCAAGGCACGGGCATGTTGCAT-
1 -GCCCGTGTTGTTTTGGCAGGTTCGCCCACGGTTGCAAGGCACGGCCATG-T-CATA
*
89318646 GCCCGTGTTGTTTTGGCAGGTTCACCCACGG
1 GCCCGTGTTGTTTTGGCAGGTTCGCCCACGG
89318677 CCATGTCGCA
Statistics
Matches: 67, Mismatches: 17, Indels: 4
0.76 0.19 0.05
Matches are distributed among these distances:
55 63 0.94
56 1 0.01
57 3 0.04
ACGTcount: A:0.14, C:0.26, G:0.30, T:0.30
Consensus pattern (54 bp):
GCCCGTGTTGTTTTGGCAGGTTCGCCCACGGTTGCAAGGCACGGCCATGTCATA
Found at i:89327152 original size:47 final size:47
Alignment explanation
Indices: 89327083--89327523 Score: 621
Period size: 47 Copynumber: 9.2 Consensus size: 47
89327073 AATTCTAAAT
* *
89327083 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTCAAAGTGTATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
89327130 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
89327177 TGTGAATAGGGCCTAATGAATGGCCGATGTGATGAATGTCAAAGTGTATATA
1 TGTG-ATAAGG-CT--T-AATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
89327229 TGTGATAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
*
89327278 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
89327325 TGCGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
*
89327374 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
*
89327421 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * ** * * * * *
89327468 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
89327515 TGTGATAAG
1 TGTGATAAG
89327524 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 31, Indels: 18
0.88 0.08 0.04
Matches are distributed among these distances:
47 213 0.60
48 6 0.02
49 91 0.26
50 1 0.00
51 6 0.02
52 37 0.10
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:89327346 original size:96 final size:94
Alignment explanation
Indices: 89327083--89327523 Score: 621
Period size: 96 Copynumber: 4.6 Consensus size: 94
89327073 AATTCTAAAT
* *
89327083 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTCAAAGTGTATATATGTGATAAGGCTTAATGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
89327148 CCGATGTGATGAATGTGAAAGTGTATATA
66 CCGATGTGATGAATGTGAAAGTGTATATA
* * *
89327177 TGTGAATAGGGCCTAATGAATGGCCGATGTGATGAATGTCAAAGTGTATATATGTGATAAGGCAT
1 TGTG-ATAAGG-CT--T-AATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTT
89327242 AATGGCCGATGTGATGAATGTGAAAGTGTATATATA
61 AATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* * * *
89327278 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
89327343 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTG--TATATA
**
89327374 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
89327439 CCGATGTGATGAATGTGAAAGTGTATATA
66 CCGATGTGATGAATGTGAAAGTGTATATA
* * ** * * * * *
89327468 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGATAAG
1 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAG
89327524 TCCCGAAGGG
Statistics
Matches: 316, Mismatches: 24, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
94 55 0.17
95 5 0.02
96 163 0.52
97 1 0.00
98 1 0.00
99 76 0.24
100 5 0.02
101 10 0.03
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
CCGATGTGATGAATGTGAAAGTGTATATA
Found at i:89327438 original size:143 final size:142
Alignment explanation
Indices: 89327083--89327523 Score: 645
Period size: 143 Copynumber: 3.1 Consensus size: 142
89327073 AATTCTAAAT
* *
89327083 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTCAAAGTGTATATATGTGATAAGGCTTAATGG
1 TGTGATAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
89327148 CCGATGTGATGAATGTGAAAGTGTATATATGTGAATAGGGCCTAATGAATGGCCGATGTGATGAA
66 CCGATGTGATGAATGTGAAAGTGTATATATGTG-ATAGGGCCTAAT--A--GCCGATGTGATGAA
*
89327213 TGTCAAAGTG-TATATA
126 TGTGAAAGTGATATATA
89327229 TGTGATAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAAT
1 TGTGATAAGGCATAATGGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCTTAAT
* * *
89327294 GGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAGCCGATGTGATGAATGT
64 GGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATAGCCGATGTGATGAATGT
89327359 GAAAGTGTATATATA
129 GAAAGTG-ATATATA
* **
89327374 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
1 TGTGATAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
* * * * * *
89327439 CCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGA
66 CCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATAGCCGATGTGATGAATGTGA
89327504 AAGTGCATA-A-A
131 AAGTG-ATATATA
89327515 TGTGATAAG
1 TGTGATAAG
89327524 TCCCGAAGGG
Statistics
Matches: 272, Mismatches: 19, Indels: 13
0.89 0.06 0.04
Matches are distributed among these distances:
141 10 0.04
142 1 0.00
143 109 0.40
145 47 0.17
146 39 0.14
147 11 0.04
148 55 0.20
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (142 bp):
TGTGATAAGGCATAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCTTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCTAATAGCCGATGTGATGAATGTGA
AAGTGATATATA
Found at i:89327710 original size:37 final size:37
Alignment explanation
Indices: 89327641--89327719 Score: 113
Period size: 37 Copynumber: 2.1 Consensus size: 37
89327631 TCGAGCTCTA
* * *
89327641 AAGACCCGATGACTACGTATGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
* *
89327678 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
89327715 AAGAC
1 AAGAC
89327720 TTCGTAATAA
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTATGGAGATTATGTCCGGGT
Found at i:89329667 original size:43 final size:43
Alignment explanation
Indices: 89329619--89329806 Score: 340
Period size: 43 Copynumber: 4.4 Consensus size: 43
89329609 TGGTTTTCAA
*
89329619 CACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTGG
1 CACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTGG
*
89329662 CACTAAGTGTGCGGGCAATCAGTGTTCACGGTTGCGAGATTGG
1 CACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTGG
89329705 CACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTGG
1 CACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTGG
* *
89329748 CACTAAGTGTGCGGGCAATAAGTATTCACGGTTGTGAGATTGG
1 CACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTGG
89329791 CACTAAGTGTGCGGGC
1 CACTAAGTGTGCGGGC
89329807 TTGAAATGCA
Statistics
Matches: 140, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 140 1.00
ACGTcount: A:0.23, C:0.16, G:0.35, T:0.26
Consensus pattern (43 bp):
CACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGCGAGATTGG
Found at i:89329821 original size:29 final size:29
Alignment explanation
Indices: 89329788--89329861 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
89329778 GTTGTGAGAT
* *
89329788 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
89329817 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
89329846 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
89329862 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:89330200 original size:40 final size:39
Alignment explanation
Indices: 89330156--89330413 Score: 232
Period size: 40 Copynumber: 6.5 Consensus size: 39
89330146 CATTTGAATG
*
89330156 ATATCCGGGCTAAGTCCCGAAGGCAATT-GAGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGC-ATTCGTGCTAGTGA-T
* * * *
89330196 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATTGAT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGC-TAGTGAT
* * *
89330236 ATATCCTGGCTAAGACCCGAAGGCAATT-GTGCAAGTTGAT
1 ATATCCGGGCTAAGTCCCGAAGGC-ATTCGTGCTAG-TGAT
* * * *
89330276 ATATCCGGGCTAAGACCCGAAGGCATTGGTGCGAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGA-T
* * * *
89330316 AAATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGAG
1 ATATCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGAT
* * * * *
89330356 GTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTT
1 ATATCCGGGCTAAGTCCCGAAG-GCATTCGTGCTAGTGAT
*
89330396 ATATCCGGGCTAGGTCCC
1 ATATCCGGGCTAAGTCCC
89330414 TTAGAGCAAT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
39 10 0.05
40 153 0.84
41 20 0.11
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (39 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTAGTGAT
Found at i:89334065 original size:49 final size:47
Alignment explanation
Indices: 89333952--89334150 Score: 299
Period size: 47 Copynumber: 4.2 Consensus size: 47
89333942 AATTCTAAAT
89333952 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
89333999 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
*
89334048 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
89334095 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
89334142 TGTGATAAG
1 TGTGATAAG
89334151 TCTCGAAGGG
Statistics
Matches: 138, Mismatches: 12, Indels: 4
0.90 0.08 0.03
Matches are distributed among these distances:
47 92 0.67
49 46 0.33
ACGTcount: A:0.32, C:0.09, G:0.31, T:0.29
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:89334120 original size:96 final size:94
Alignment explanation
Indices: 89333947--89334150 Score: 309
Period size: 96 Copynumber: 2.1 Consensus size: 94
89333937 ATGTGAATTC
* *
89333947 TAAATTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
1 TAAA-TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCG
* *
89334012 AATGGCCGATGTGATGAATGTGAAAGTGTA
65 AATGGCCAATGTGATGAATGTGAAAGTGCA
* *
89334042 TATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCC
1 TA-A-ATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCC
* *
89334107 GAGTGGCCAATGTGATGGATGTGAAAGTGCA
64 GAATGGCCAATGTGATGAATGTGAAAGTGCA
89334138 TAAATGTGATAAG
1 TAAATGTGATAAG
89334151 TCTCGAAGGG
Statistics
Matches: 99, Mismatches: 8, Indels: 5
0.88 0.07 0.04
Matches are distributed among these distances:
94 10 0.10
95 3 0.03
96 85 0.86
97 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (94 bp):
TAAATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGACAAGGCCGA
ATGGCCAATGTGATGAATGTGAAAGTGCA
Found at i:89334324 original size:37 final size:37
Alignment explanation
Indices: 89334268--89334346 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
89334258 TCGAGCTCTA
* * *
89334268 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
89334305 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
89334342 AAGAC
1 AAGAC
89334347 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:89336272 original size:43 final size:43
Alignment explanation
Indices: 89336211--89336341 Score: 228
Period size: 43 Copynumber: 3.0 Consensus size: 43
89336201 TTGGTTTTCA
89336211 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
1 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
89336254 GCAATCAA-TGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
1 GCAAT-AAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
* *
89336297 GCAATAAGTATTCACGGTTGTGAGATTGGCACTAAGTGTGCGG
1 GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
89336340 GC
1 GC
89336342 TTGAAATGCA
Statistics
Matches: 84, Mismatches: 2, Indels: 4
0.93 0.02 0.04
Matches are distributed among these distances:
42 2 0.02
43 80 0.95
44 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.34, T:0.26
Consensus pattern (43 bp):
GCAATAAGTGTTCACGGTTGCGAGATTGGCACTAAGTGTGCGG
Found at i:89336356 original size:29 final size:29
Alignment explanation
Indices: 89336323--89336396 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
89336313 GTTGTGAGAT
* *
89336323 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
89336352 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
89336381 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
89336397 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:89337085 original size:40 final size:40
Alignment explanation
Indices: 89336419--89337061 Score: 887
Period size: 40 Copynumber: 15.9 Consensus size: 40
89336409 AAGCACTATG
* *
89336419 TGTGCAAATTGATATATCCGGGTTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
* *
89336459 TGTGCGAATTGATATATCCGAGTTAAGACCCGAACCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGATAAGA--C---CCGAAGGCATT
** * * * * * *
89336504 TGCAC-TAGTGACTAGT-TCCGAGCTAAGTCCTGAAGGCATT
1 TGTGCGAATTGA-TA-TATCCGGGATAAGACCCGAAGGCATT
89336544 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
* * *
89336584 TGTGTGAATTGATATATCCGGGCTAAGACCTGAAGGCATT
1 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
* *
89336624 TGCGCGAATTGATATATCCAGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
89336664 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
* *
89336704 TGTGCGAATTGATATATCCGAGTTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
* *
89336744 TGTGCGAATTGATATATTCGGGTTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
* *
89336784 TGTGCGAATTGATATATCCAGGCTAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
* *
89336824 TGTGCGAATTGATATATCCGGGCTAAGACCTGAAGGCATT
1 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
* *
89336864 TGCGCGAATTGATATATCCAGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
89336904 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
89336944 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
1 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
* *
89336984 TGTGC-AAGTTGATACATCCGGGCTAAGACCCGAAGGCATT
1 TGTGCGAA-TTGATATATCCGGGATAAGACCCGAAGGCATT
* * * * *
89337024 CGTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCA
1 TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCA
89337062 ATTGAGCTTG
Statistics
Matches: 542, Mismatches: 50, Indels: 22
0.88 0.08 0.04
Matches are distributed among these distances:
39 3 0.01
40 501 0.92
41 5 0.01
42 1 0.00
43 1 0.00
44 4 0.01
45 26 0.05
46 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.25
Consensus pattern (40 bp):
TGTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATT
Found at i:89337137 original size:120 final size:120
Alignment explanation
Indices: 89336420--89337149 Score: 573
Period size: 120 Copynumber: 6.0 Consensus size: 120
89336410 AGCACTATGT
* * * * * * * *
89336420 GTGCAAATTGATATATCCGGGTTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGAGTTAA
1 GTGCGAATTGATATACCCGGGATAAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGATAA
* ** * * *
89336485 GACCCGAACCGAAGGCATT--TGCACTAG-TGACTAGTTCC-GAGCTAAGTCCTGAAGGCATTT
66 GA--C---CCGAAGGCATTCGTGCA--AGTTGA-GACATCCGGA-CTAAGACCCGAAGGCATTC
* * * * * *
89336545 GTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGTGAATTGATATATCCGGGCTAA
1 GTGCGAATTGATATACCCGGGATAAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGATAA
* * * * * *
89336610 GACCTGAAGGCATTTGCGCGAA-TTGATATATCCAGGA-TAAGACCCGAAGGCATTT
66 GACCCGAAGGCATTCGTGC-AAGTTGAGACATCC-GGACTAAGACCCGAAGGCATTC
* * * * * *
89336665 GTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGAGTTAA
1 GTGCGAATTGATATACCCGGGATAAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGATAA
* * * * ** *
89336730 GACCCGAAGGCATTTGTGCGAA-TTGATATATTCGGGTTAAGACCCGAAGGCATTT
66 GACCCGAAGGCATTCGTGC-AAGTTGAGACATCCGGACTAAGACCCGAAGGCATTC
* * * * * * *
89336785 GTGCGAATTGATATATCCAGGCTAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGCTAA
1 GTGCGAATTGATATACCCGGGATAAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGATAA
* * * * * *
89336850 GACCTGAAGGCATTTGCGCGAA-TTGATATATCCAGGA-TAAGACCCGAAGGCATTT
66 GACCCGAAGGCATTCGTGC-AAGTTGAGACATCC-GGACTAAGACCCGAAGGCATTC
* * * *
89336905 GTGCGAATTGATATATCCGGGATAAGACCCGAAGGCATTTGTGCGAATTGATATATCCGGGATAA
1 GTGCGAATTGATATACCCGGGATAAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGATAA
* * *
89336970 GACCCGAAGGCATTTGTGCAAGTTGATACATCCGGGCTAAGACCCGAAGGCATTC
66 GACCCGAAGGCATTCGTGCAAGTTGAGACATCCGGACTAAGACCCGAAGGCATTC
* * * *** * *
89337025 GTGCGAGTTGCTATACCCGGGTTAAGACCCGAAGGCAATTGAGCTTGTGGTTATATCCGGGCTAA
1 GTGCGAATTGATATACCCGGGATAAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGATAA
* * ** **
89337090 -ATTCCGAAGAGCATTCGTGCTAG-TGAGGTATCCGGACTAAGTTCCGAAGAGCATTC
66 GA-CCCGAAG-GCATTCGTGCAAGTTGAGACATCCGGACTAAGACCCGAAG-GCATTC
89337146 GTGC
1 GTGC
89337150 TGGTGTTATA
Statistics
Matches: 537, Mismatches: 55, Indels: 30
0.86 0.09 0.05
Matches are distributed among these distances:
119 7 0.01
120 435 0.81
121 27 0.05
122 4 0.01
123 2 0.00
125 62 0.12
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.26
Consensus pattern (120 bp):
GTGCGAATTGATATACCCGGGATAAGACCCGAAGGCAATTGAGCGAATGGATATATCCGGGATAA
GACCCGAAGGCATTCGTGCAAGTTGAGACATCCGGACTAAGACCCGAAGGCATTC
Found at i:89337191 original size:40 final size:40
Alignment explanation
Indices: 89336999--89337194 Score: 157
Period size: 40 Copynumber: 4.9 Consensus size: 40
89336989 AAGTTGATAC
** *
89336999 ATCCGGGCTAAGACCCGAAG-GCATTCGTGC-GAGTTGCTAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTG-G-TGTTAT
* * ** * *
89337039 ACCCGGGTTAAGACCCGAAG-GCAATT-GAGCTTGTGGTTAT
1 ATCCGGGCTAAGTTCCGAAGAGC-ATTCGTGCTGGT-GTTAT
* * ***
89337079 ATCCGGGCTAAATTCCGAAGAGCATTCGTGCTAGTGAGGT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTAT
*
89337119 ATCCGGACTAAGTTCCGAAGAGCATTCGTGCTGGTGTTAT
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTAT
* * * *
89337159 ATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGTG
1 ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTG
89337195 ACATGTATTC
Statistics
Matches: 125, Mismatches: 26, Indels: 10
0.78 0.16 0.06
Matches are distributed among these distances:
39 1 0.01
40 113 0.90
41 11 0.09
ACGTcount: A:0.23, C:0.22, G:0.30, T:0.24
Consensus pattern (40 bp):
ATCCGGGCTAAGTTCCGAAGAGCATTCGTGCTGGTGTTAT
Found at i:89339685 original size:13 final size:13
Alignment explanation
Indices: 89339667--89339691 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
89339657 TAATGGTATA
89339667 TTGAATCCATGAC
1 TTGAATCCATGAC
89339680 TTGAATCCATGA
1 TTGAATCCATGA
89339692 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TTGAATCCATGAC
Found at i:89341289 original size:96 final size:96
Alignment explanation
Indices: 89341123--89341449 Score: 505
Period size: 96 Copynumber: 3.4 Consensus size: 96
89341113 AATTCTAAAT
* *
89341123 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
89341188 CCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * * *
89341219 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGCGATAAGGCCTAATAG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
*
89341284 TCGATGTGATGAATGTGAAAGTGTATATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * *
89341315 TGTGATAAGGCTTAATGGCCAATGTGATGAATGTGAAAGTGTATATGCGTGATAAGGCTTAATGG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
89341380 CCGATGTGATGAATGTGAAAGTG--TATATA
66 CCGATGTGATGAATGTGAAAGTGTATATATA
* * * * *
89341409 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTG
1 TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
89341450 CATAAATGTG
Statistics
Matches: 214, Mismatches: 17, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
94 41 0.19
96 173 0.81
ACGTcount: A:0.31, C:0.08, G:0.31, T:0.30
Consensus pattern (96 bp):
TGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATGG
CCGATGTGATGAATGTGAAAGTGTATATATA
Found at i:89341367 original size:143 final size:142
Alignment explanation
Indices: 89341126--89341460 Score: 483
Period size: 143 Copynumber: 2.3 Consensus size: 142
89341116 TCTAAATTGT
* *
89341126 GATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
*
89341191 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
66 ATGTGATGAATGTGAAAGTG-ATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAA
89341256 AGTGTATATGTGC
130 AGTGTATATGTGC
* *
89341269 GATAAGGCCTAATAGTCGATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCTTAATGGC
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGC
*
89341334 CAATGTGATGAATGTGAAAGTG-TATATGCGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
64 CAATGTGATGAATGTGAAAGTGATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGA
* *
89341398 AAGTGTATATATGT
129 AAGTGTATATGTGC
* * * * * * * * *
89341412 GACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAATGTGA
1 GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
89341461 CAAGTCCCGA
Statistics
Matches: 172, Mismatches: 18, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
141 9 0.05
143 118 0.69
145 45 0.26
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (142 bp):
GATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCA
ATGTGATGAATGTGAAAGTGATATATACGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAA
GTGTATATGTGC
Found at i:89341462 original size:47 final size:47
Alignment explanation
Indices: 89341123--89341460 Score: 478
Period size: 47 Copynumber: 7.1 Consensus size: 47
89341113 AATTCTAAAT
89341123 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
89341170 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* *
89341219 TGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * *
89341266 TGCGATAAGGCCTAATAGTCGATGTGATGAATGTGAAAGTGTATATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTG--TATATA
* * *
89341315 TGTGATAAGGCTTAATGGCCAATGTGATGAATGTGAAAGTGTATATG
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* *
89341362 CGTGATAAGGCTTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
* * * * * * * *
89341409 TGTGACAGGGCCGAGTGGCCAATGTGATGGATGTGAAAGTGCATAAA
1 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
89341456 TGTGA
1 TGTGA
89341461 CAAGTCCCGA
Statistics
Matches: 261, Mismatches: 26, Indels: 8
0.88 0.09 0.03
Matches are distributed among these distances:
47 174 0.67
49 87 0.33
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.30
Consensus pattern (47 bp):
TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATA
Found at i:89341657 original size:37 final size:37
Alignment explanation
Indices: 89341582--89341660 Score: 95
Period size: 37 Copynumber: 2.1 Consensus size: 37
89341572 TCGAGCTCTA
* * * ***
89341582 AAGACCCGATGACTACGTGTGGGGATTTTGTTTTGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
89341619 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
89341656 AAGAC
1 AAGAC
89341661 TTCGTAATAA
Statistics
Matches: 35, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.16, G:0.30, T:0.29
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:89344624 original size:37 final size:37
Alignment explanation
Indices: 89344574--89344646 Score: 146
Period size: 37 Copynumber: 2.0 Consensus size: 37
89344564 ATGTGATGTT
89344574 GTATCATGTGATTAATGCTTAAATTTTATTATGAATA
1 GTATCATGTGATTAATGCTTAAATTTTATTATGAATA
89344611 GTATCATGTGATTAATGCTTAAATTTTATTATGAAT
1 GTATCATGTGATTAATGCTTAAATTTTATTATGAAT
89344647 TATGCTTTGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 36 1.00
ACGTcount: A:0.34, C:0.05, G:0.14, T:0.47
Consensus pattern (37 bp):
GTATCATGTGATTAATGCTTAAATTTTATTATGAATA
Found at i:89347152 original size:40 final size:40
Alignment explanation
Indices: 89347075--89347256 Score: 253
Period size: 40 Copynumber: 4.6 Consensus size: 40
89347065 CAACCAAGTA
** * *
89347075 CCTTCGGGGTTTAG-CCGGATATAGCT-ACTCGCTCAAATG
1 CCTTCGGGACTTAGCCCGGTTATAG-TAACTCGCACAAATG
89347114 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
89347154 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
* * * *
89347194 CCTTCGGGACTTAGACCGG-AATTAGTCATTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAATG
89347234 CCTTCGGGACTTAGCCCGGTTAT
1 CCTTCGGGACTTAGCCCGGTTAT
89347257 CATCCGAATA
Statistics
Matches: 129, Mismatches: 10, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
39 14 0.11
40 114 0.88
41 1 0.01
ACGTcount: A:0.23, C:0.27, G:0.24, T:0.26
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAATG
Found at i:89354944 original size:47 final size:46
Alignment explanation
Indices: 89354871--89354994 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 46
89354861 TTATTTGTGA
* * * *
89354871 AAGCTAGCGTAAGACCATGTCTGGGACATGACATCGGTATTGAGATG-
1 AAGCTAGTGTAAGA-CATGTCTGGGACATG-CATCGGCATCGAGACGT
* *
89354918 AGTGCTAGTGTAAGACATGTCTGGGACATGCATCGGCCTCGAGACGT
1 A-AGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGT
* *
89354965 AAGCCAGTGTAAGACATGTCTTGGACATGC
1 AAGCTAGTGTAAGACATGTCTGGGACATGC
89354995 GTTGGCTACA
Statistics
Matches: 66, Mismatches: 9, Indels: 5
0.82 0.11 0.06
Matches are distributed among these distances:
46 38 0.58
47 17 0.26
48 11 0.17
ACGTcount: A:0.27, C:0.19, G:0.30, T:0.23
Consensus pattern (46 bp):
AAGCTAGTGTAAGACATGTCTGGGACATGCATCGGCATCGAGACGT
Found at i:89355040 original size:47 final size:46
Alignment explanation
Indices: 89354964--89355128 Score: 176
Period size: 47 Copynumber: 3.5 Consensus size: 46
89354954 CCTCGAGACG
* *
89354964 TAAGCCAGTGTAAGA-CATGTCTTGGACAT-GCGTTGGCTACAAGATGA
1 TAAGCCAGTGTAAGACCGTGTC-TGGACATGGCGTTGACT-CAAGAT-A
* * **
89355011 T-AGTCAGTGTAAGACCGTGTCTGAGACATGGCTTTGACTTGAGATA
1 TAAGCCAGTGTAAGACCGTGTCTG-GACATGGCGTTGACTCAAGATA
**
89355057 TAAGCCAGTGTAAGACCGTGTCTGGAACATGGC-TTCGACTTGAGATA
1 TAAGCCAGTGTAAGACCGTGTCTGG-ACATGGCGTT-GACTCAAGATA
89355104 TAAGCCAGTGTAAGACCGTGTCTGG
1 TAAGCCAGTGTAAGACCGTGTCTGG
89355129 GACACGGCAT
Statistics
Matches: 105, Mismatches: 7, Indels: 12
0.85 0.06 0.10
Matches are distributed among these distances:
46 19 0.18
47 79 0.75
48 7 0.07
ACGTcount: A:0.27, C:0.18, G:0.28, T:0.27
Consensus pattern (46 bp):
TAAGCCAGTGTAAGACCGTGTCTGGACATGGCGTTGACTCAAGATA
Found at i:89370063 original size:26 final size:27
Alignment explanation
Indices: 89370034--89370092 Score: 84
Period size: 29 Copynumber: 2.1 Consensus size: 27
89370024 TTGAGTCACT
*
89370034 AAATAT-ACCATGTTGTATGCCATAAA
1 AAATATGAACATGTTGTATGCCATAAA
89370060 AAATGTATGAACATGTTGTATGCCATAAA
1 AAA--TATGAACATGTTGTATGCCATAAA
89370089 AAAT
1 AAAT
89370093 GTATGAGTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
26 3 0.10
27 1 0.03
28 3 0.10
29 22 0.76
ACGTcount: A:0.44, C:0.12, G:0.14, T:0.31
Consensus pattern (27 bp):
AAATATGAACATGTTGTATGCCATAAA
Found at i:89370074 original size:29 final size:29
Alignment explanation
Indices: 89370042--89370098 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
89370032 CTAAATATAC
89370042 CATGTTGTATGCCATAAAAAATGTATGAA
1 CATGTTGTATGCCATAAAAAATGTATGAA
89370071 CATGTTGTATGCCATAAAAAATGTATGA
1 CATGTTGTATGCCATAAAAAATGTATGA
89370099 GTGAGTGAGC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.40, C:0.11, G:0.18, T:0.32
Consensus pattern (29 bp):
CATGTTGTATGCCATAAAAAATGTATGAA
Found at i:89376433 original size:20 final size:20
Alignment explanation
Indices: 89376404--89376448 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
89376394 AGCACATGTG
* *
89376404 TTCATAAAATTTTAGAATTT
1 TTCATAAAATTTTACAACTT
*
89376424 TTCATCAAATTTTACAACTT
1 TTCATAAAATTTTACAACTT
89376444 TTCAT
1 TTCAT
89376449 TTTAGTCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.36, C:0.13, G:0.02, T:0.49
Consensus pattern (20 bp):
TTCATAAAATTTTACAACTT
Found at i:89379349 original size:28 final size:28
Alignment explanation
Indices: 89379317--89379443 Score: 148
Period size: 28 Copynumber: 4.5 Consensus size: 28
89379307 TATAGTAAGT
89379317 CCGCACACTTAGTGTTATATAATCAAAC
1 CCGCACACTTAGTGTTATATAATCAAAC
* *
89379345 CCGCAAACTTAGTGCTTACATAATCAAAC
1 CCGCACACTTAGTG-TTATATAATCAAAC
* *
89379374 TCGCACACTTAGTGCTATATAATCAAAC
1 CCGCACACTTAGTGTTATATAATCAAAC
** ** *
89379402 TTGCACACTTAGTG-TATGCAATTTAAAC
1 CCGCACACTTAGTGTTATATAA-TCAAAC
89379430 CCGCACACTTAGTG
1 CCGCACACTTAGTG
89379444 CCAATCTCAT
Statistics
Matches: 85, Mismatches: 12, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
27 5 0.06
28 55 0.65
29 25 0.29
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.28
Consensus pattern (28 bp):
CCGCACACTTAGTGTTATATAATCAAAC
Found at i:89386701 original size:28 final size:28
Alignment explanation
Indices: 89386669--89386795 Score: 155
Period size: 29 Copynumber: 4.5 Consensus size: 28
89386659 ATAGTAAGTC
*
89386669 CGCACATTTAGTGTTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
*
89386697 CGCACACTTAGTGCTTACATAATCAAACT
1 CGCACACTTAGTG-TTATATAATCAAACT
*
89386726 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGTTATATAATCAAACT
* * ** * *
89386754 TGCACACTTAGTGCTATGCAATTTAAACC
1 CGCACACTTAGTGTTATATAA-TCAAACT
89386783 CGCACACTTAGTG
1 CGCACACTTAGTG
89386796 CCAATCTCAT
Statistics
Matches: 87, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
28 43 0.49
29 44 0.51
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (28 bp):
CGCACACTTAGTGTTATATAATCAAACT
Found at i:89386744 original size:57 final size:57
Alignment explanation
Indices: 89386668--89386796 Score: 179
Period size: 57 Copynumber: 2.3 Consensus size: 57
89386658 TATAGTAAGT
* *
89386668 CCGCACATTTAGTGTTATATAATCAAACTCGCACACTTAGTGCT-TACATAATCAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACA-AATCAAAC
* * * * *
89386725 TCGCACACTTAGTGCTATATAATCAAACTTGCACACTTAGTGCTATGCAATTTAAAC
1 CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
89386782 CCGCACACTTAGTGC
1 CCGCACACTTAGTGC
89386797 CAATCTCATG
Statistics
Matches: 63, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
57 60 0.95
58 3 0.05
ACGTcount: A:0.33, C:0.26, G:0.12, T:0.29
Consensus pattern (57 bp):
CCGCACACTTAGTGCTATATAATCAAACTCGCACACTTAGTGCTATACAAATCAAAC
Found at i:89398570 original size:28 final size:29
Alignment explanation
Indices: 89398539--89398662 Score: 146
Period size: 28 Copynumber: 4.4 Consensus size: 29
89398529 TTTGGGCTGG
*
89398539 ATGGGCCATGTGAATGAG-ATTGGGCCTA
1 ATGGGCCATATGAATGAGAATTGGGCCTA
*
89398567 ATGGGCCATATGAATGTGAATTGGGCCTA
1 ATGGGCCATATGAATGAGAATTGGGCCTA
* * **
89398596 ATGGGCCATATG-TTGTGAATTGGGCCGG
1 ATGGGCCATATGAATGAGAATTGGGCCTA
* *
89398624 ATGGGCCAGATAAATGAG-ATTGGGCCTA
1 ATGGGCCATATGAATGAGAATTGGGCCTA
*
89398652 GTGGGCCATAT
1 ATGGGCCATAT
89398663 ACATTTAGGT
Statistics
Matches: 81, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
28 56 0.69
29 25 0.31
ACGTcount: A:0.25, C:0.15, G:0.35, T:0.26
Consensus pattern (29 bp):
ATGGGCCATATGAATGAGAATTGGGCCTA
Found at i:89398600 original size:57 final size:56
Alignment explanation
Indices: 89398518--89398662 Score: 143
Period size: 57 Copynumber: 2.6 Consensus size: 56
89398508 GTGAGCATGA
* * * *
89398518 ATATAATGTGATTTGGG-CTGGATGGGCCATGTGAATGAG-ATTGGGCCTAATGGGCC
1 ATATAATGTGAATTGGGCCT-AATGGGCCATATG-ATGAGAATTGGGCCGAATGGGCC
* * *
89398574 ATATGAATGTGAATTGGGCCTAATGGGCCATATGTTGTGAATTGGGCCGGATGGGCC
1 ATAT-AATGTGAATTGGGCCTAATGGGCCATATGATGAGAATTGGGCCGAATGGGCC
* * *
89398631 AGATAA-ATGAGATTGGGCCTAGTGGGCCATAT
1 ATATAATGTGA-ATTGGGCCTAATGGGCCATAT
89398663 ACATTTAGGT
Statistics
Matches: 75, Mismatches: 10, Indels: 8
0.81 0.11 0.09
Matches are distributed among these distances:
55 3 0.04
56 29 0.39
57 41 0.55
58 2 0.03
ACGTcount: A:0.25, C:0.13, G:0.34, T:0.28
Consensus pattern (56 bp):
ATATAATGTGAATTGGGCCTAATGGGCCATATGATGAGAATTGGGCCGAATGGGCC
Found at i:89402579 original size:27 final size:27
Alignment explanation
Indices: 89402549--89402725 Score: 167
Period size: 27 Copynumber: 6.5 Consensus size: 27
89402539 AAATTGTACA
* *
89402549 GCACTAAGGGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGATTTGACTATGTG
* ** *
89402576 GCACTCAGTGTGCGAAATGAATATGAT-
1 GCACTAAGTGTGCGATTTGACTATG-TG
* * *
89402603 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGATTTGACTATGTG
* *
89402630 GCACTAAGTGTGCGAGTCTGACTATGTA
1 GCACTAAGTGTGCGA-TTTGACTATGTG
* *
89402658 GCACTAAGTGTGCGATTTGATTACGTG
1 GCACTAAGTGTGCGATTTGACTATGTG
* * * *
89402685 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGATTTGACTATGTG
*
89402712 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
89402726 GGCTCAATAT
Statistics
Matches: 123, Mismatches: 24, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
27 100 0.81
28 23 0.19
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGATTTGACTATGTG
Found at i:89402662 original size:82 final size:81
Alignment explanation
Indices: 89402549--89402704 Score: 206
Period size: 82 Copynumber: 1.9 Consensus size: 81
89402539 AAATTGTACA
* * * *
89402549 GCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGAT-GCACTAAGTG
1 GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACG-TGGCACTAAGTG
89402613 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
* ** *
89402630 GCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTGGCACTAAGTG
1 GCACTAAGGGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTG
*
89402695 TGCGAGTTGA
65 TGCGAATTGA
89402705 TTATATAGCA
Statistics
Matches: 64, Mismatches: 9, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
81 15 0.23
82 49 0.77
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.28
Consensus pattern (81 bp):
GCACTAAGGGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTGGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:89402716 original size:82 final size:81
Alignment explanation
Indices: 89402545--89402725 Score: 202
Period size: 82 Copynumber: 2.2 Consensus size: 81
89402535 GATTAAATTG
* * * * *
89402545 TACAGCACTAAGGGTGCGATTTGACTATGTTGCACTCAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
89402610 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
89402626 TGCGGCACTAAGTGTGCGAGTCTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TGGCACT
1 TACAGCACTAAGTGTGCGA-TCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
89402690 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
89402708 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
89402726 GGCTCAATAT
Statistics
Matches: 81, Mismatches: 17, Indels: 3
0.80 0.17 0.03
Matches are distributed among these distances:
81 17 0.21
82 64 0.79
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATCTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:89412249 original size:18 final size:17
Alignment explanation
Indices: 89412226--89412274 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
89412216 TAAACACCAA
*
89412226 TTATTTTTACTTTTTTAT
1 TTATTTTTACTTTATT-T
89412244 TTATTTTTACTTTATTT
1 TTATTTTTACTTTATTT
*
89412261 TTATCTTTA-TTTAT
1 TTATTTTTACTTTAT
89412275 ATGTTGAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
16 5 0.17
17 9 0.31
18 15 0.52
ACGTcount: A:0.18, C:0.06, G:0.00, T:0.76
Consensus pattern (17 bp):
TTATTTTTACTTTATTT
Found at i:89412257 original size:11 final size:11
Alignment explanation
Indices: 89412226--89412272 Score: 57
Period size: 11 Copynumber: 4.5 Consensus size: 11
89412216 TAAACACCAA
89412226 TTATTTTTAC-
1 TTATTTTTACT
89412236 -T-TTTTTA-T
1 TTATTTTTACT
89412244 TTATTTTTACT
1 TTATTTTTACT
89412255 TTATTTTTATCT
1 TTATTTTTA-CT
89412267 TTATTT
1 TTATTT
89412273 ATATGTTGAA
Statistics
Matches: 32, Mismatches: 0, Indels: 8
0.80 0.00 0.20
Matches are distributed among these distances:
8 6 0.19
9 2 0.06
10 6 0.19
11 10 0.31
12 8 0.25
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.77
Consensus pattern (11 bp):
TTATTTTTACT
Found at i:89420707 original size:27 final size:27
Alignment explanation
Indices: 89420676--89420853 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
89420666 TAAATTGTAC
89420676 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
89420703 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
89420729 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
89420757 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
89420785 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
89420812 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
89420839 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
89420854 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:89420790 original size:82 final size:81
Alignment explanation
Indices: 89420677--89420832 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
89420667 AAATTGTACA
* *
89420677 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
89420741 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
89420758 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
89420823 TGCGAGTTGA
65 TGCGAATTGA
89420833 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:89420844 original size:82 final size:81
Alignment explanation
Indices: 89420673--89420853 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
89420663 GATTAAATTG
* *
89420673 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
89420738 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
89420754 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
89420818 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
89420836 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
89420854 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:89443639 original size:19 final size:19
Alignment explanation
Indices: 89443615--89443651 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
89443605 TTTCTTTTTC
89443615 TTTCTTT-CTCTCTTCTTTA
1 TTTCTTTCCTC-CTTCTTTA
89443634 TTTCTTTCCTCCTTCTTT
1 TTTCTTTCCTCCTTCTTT
89443652 CCCTTTCTTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 14 0.82
20 3 0.18
ACGTcount: A:0.03, C:0.30, G:0.00, T:0.68
Consensus pattern (19 bp):
TTTCTTTCCTCCTTCTTTA
Found at i:89445344 original size:21 final size:21
Alignment explanation
Indices: 89445304--89445344 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
89445294 ACTATGCTCA
* * *
89445304 GAGGTTTGATAGTTTTGATGC
1 GAGGTTTGACAGTATCGATGC
89445325 GAGGTTTGACAGTATCGATG
1 GAGGTTTGACAGTATCGATG
89445345 AGACTTTGCG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.22, C:0.07, G:0.34, T:0.37
Consensus pattern (21 bp):
GAGGTTTGACAGTATCGATGC
Found at i:89445451 original size:11 final size:11
Alignment explanation
Indices: 89445435--89445478 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
89445425 TTAGTCCATC
89445435 TATTTTATTTT
1 TATTTTATTTT
89445446 TATTTTTATTTT
1 TA-TTTTATTTT
* *
89445458 CATTTTATCTT
1 TATTTTATTTT
*
89445469 TCTTTTATTT
1 TATTTTATTT
89445479 ATTTTTGAAG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 17 0.63
12 10 0.37
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (11 bp):
TATTTTATTTT
Found at i:89445457 original size:17 final size:17
Alignment explanation
Indices: 89445435--89445478 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
89445425 TTAGTCCATC
*
89445435 TATTTTATTTTTATTTT
1 TATTTTATTTTTATCTT
89445452 TATTTTCA-TTTTATCTT
1 TATTTT-ATTTTTATCTT
*
89445469 TCTTTTATTT
1 TATTTTATTT
89445479 ATTTTTGAAG
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
16 1 0.04
17 21 0.91
18 1 0.04
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (17 bp):
TATTTTATTTTTATCTT
Found at i:89445470 original size:12 final size:11
Alignment explanation
Indices: 89445436--89445478 Score: 52
Period size: 12 Copynumber: 3.8 Consensus size: 11
89445426 TAGTCCATCT
*
89445436 ATTTTATTTTT
1 ATTTTATTTTC
89445447 ATTTTTATTTTC
1 A-TTTTATTTTC
89445459 ATTTTATCTTTC
1 ATTTTAT-TTTC
89445471 -TTTTATTT
1 ATTTTATTT
89445479 ATTTTTGAAG
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 2 0.07
11 13 0.45
12 14 0.48
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.77
Consensus pattern (11 bp):
ATTTTATTTTC
Found at i:89450752 original size:50 final size:51
Alignment explanation
Indices: 89450677--89450902 Score: 234
Period size: 50 Copynumber: 4.5 Consensus size: 51
89450667 TGAGTACACG
*
89450677 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCATACT-GTTAAGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTCGTTAAGTCGCA
* * * *
89450727 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCAATGACATCGATCA--CGC-
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-C-A-GAC-TCGTTAAGTCGCA
* * * * * *
89450779 -GTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGA-TGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTCGTTAAGTCGCA
* *
89450828 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-TTGTT-GGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTCGTTAAGTCGCA
*
89450877 TGTGTAGTACTAAGTGCAAGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
89450903 TGCGTATCAG
Statistics
Matches: 147, Mismatches: 20, Indels: 19
0.79 0.11 0.10
Matches are distributed among these distances:
46 2 0.01
48 4 0.03
49 31 0.21
50 70 0.48
51 30 0.20
52 1 0.01
53 5 0.03
54 1 0.01
55 3 0.02
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.29
Consensus pattern (51 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGACTCGTTAAGTCGCA
Found at i:89450808 original size:26 final size:26
Alignment explanation
Indices: 89450778--89450859 Score: 70
Period size: 26 Copynumber: 3.2 Consensus size: 26
89450768 ATCGATCACG
89450778 CGTGTAGTACTAAGTGCAGGCTACTA
1 CGTGTAGTACTAAGTGCAGGCTACTA
89450804 CGTGTA-T-C-AGATGGTG-AGG-T-C-A
1 CGTGTAGTACTA-A--GTGCAGGCTACTA
89450826 CGTGTGTAGTACTAAGTGCAGGCTACTA
1 C--GTGTAGTACTAAGTGCAGGCTACTA
89450854 CGTGTA
1 CGTGTA
89450860 CCAGATTGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 24
0.65 0.00 0.35
Matches are distributed among these distances:
22 2 0.05
23 2 0.05
24 11 0.25
25 8 0.18
26 17 0.39
27 2 0.05
28 2 0.05
ACGTcount: A:0.24, C:0.17, G:0.30, T:0.28
Consensus pattern (26 bp):
CGTGTAGTACTAAGTGCAGGCTACTA
Found at i:89466826 original size:40 final size:41
Alignment explanation
Indices: 89466776--89466871 Score: 135
Period size: 40 Copynumber: 2.4 Consensus size: 41
89466766 TATCTTGGTA
89466776 TCGCACACTTAGTGCC-TCATATAGCCGAAGCTA-TTCCAAC
1 TCGCACACTTAGTGCCAT-ATATAGCCGAAGCTATTTCCAAC
* *
89466816 TCGCACACTTAGTGCCATTTATAGCCGAAGCTATTTCGAAC
1 TCGCACACTTAGTGCCATATATAGCCGAAGCTATTTCCAAC
*
89466857 -GGCACACTTAGTGCC
1 TCGCACACTTAGTGCC
89466872 GAACTTAGTC
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
40 44 0.86
41 7 0.14
ACGTcount: A:0.26, C:0.30, G:0.18, T:0.26
Consensus pattern (41 bp):
TCGCACACTTAGTGCCATATATAGCCGAAGCTATTTCCAAC
Found at i:89484805 original size:22 final size:23
Alignment explanation
Indices: 89484751--89484802 Score: 65
Period size: 23 Copynumber: 2.3 Consensus size: 23
89484741 TATAAAACCT
89484751 AATAAAAA-TAAG-CTTAAAGAAG
1 AATAAAAAGT-AGTCTTAAAGAAG
89484773 AATAAAAAGTAGTCTTAAA-ATAG
1 AATAAAAAGTAGTCTTAAAGA-AG
89484796 AATAAAA
1 AATAAAA
89484803 GTAAAAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 11 0.41
23 16 0.59
ACGTcount: A:0.63, C:0.04, G:0.12, T:0.21
Consensus pattern (23 bp):
AATAAAAAGTAGTCTTAAAGAAG
Found at i:89489975 original size:31 final size:31
Alignment explanation
Indices: 89489932--89490003 Score: 137
Period size: 31 Copynumber: 2.4 Consensus size: 31
89489922 TCAGTCTCGA
89489932 CATAT-ACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
89489962 CATATCACTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
89489993 CATATCACTGG
1 CATATCACTGG
89490004 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
30 5 0.12
31 36 0.88
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:89510431 original size:25 final size:25
Alignment explanation
Indices: 89510403--89510472 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
89510393 CTCTTTTAAT
*
89510403 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
89510428 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGATA
*
89510453 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
89510473 AGCACTTCCT
Statistics
Matches: 42, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 42 1.00
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGATA
Found at i:89511343 original size:27 final size:27
Alignment explanation
Indices: 89511281--89511344 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
89511271 GGGCATATTC
89511281 GTCATTTTACCATACAGGGGTATTACG
1 GTCATTTTACCATACAGGGGTATTACG
* *
89511308 GTCACTTTACCCTACAGGGGCT-TTACG
1 GTCATTTTACCATACAGGGG-TATTACG
*
89511335 GTCTTTTTAC
1 GTCATTTTAC
89511345 TTTTTAGGGG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.20, T:0.36
Consensus pattern (27 bp):
GTCATTTTACCATACAGGGGTATTACG
Found at i:89511483 original size:27 final size:27
Alignment explanation
Indices: 89511452--89511611 Score: 112
Period size: 27 Copynumber: 5.9 Consensus size: 27
89511442 CATAAAAACC
*
89511452 AGTAATTCTGTAAATCGAGGGTACTTT
1 AGTAATTCTGTAAATCGAGGGTATTTT
* *
89511479 GGTAATT-TTTACAAGTCGAGGGTATTTT
1 AGTAATTCTGTA-AA-TCGAGGGTATTTT
* **
89511507 AGTAATTTTACAAATC-AGGGGATATTTT
1 AGTAATTCTGTAAATCGA-GGG-TATTTT
* *
89511535 AGTAATT-T-TACAAACCAGGGGTATTTT
1 AGTAATTCTGTA-AATCGA-GGGTATTTT
* ****
89511562 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCGAGGGTATTTT
*
89511589 AGTAATTCTGTAAATCAAGGGTA
1 AGTAATTCTGTAAATCGAGGGTA
89511612 AAACTGTAAT
Statistics
Matches: 108, Mismatches: 16, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
26 5 0.05
27 56 0.52
28 43 0.40
29 4 0.04
ACGTcount: A:0.34, C:0.09, G:0.21, T:0.36
Consensus pattern (27 bp):
AGTAATTCTGTAAATCGAGGGTATTTT
Found at i:89511499 original size:28 final size:27
Alignment explanation
Indices: 89511466--89511584 Score: 98
Period size: 28 Copynumber: 4.3 Consensus size: 27
89511456 ATTCTGTAAA
*
89511466 TCGAGGGTACTTTGGTAATTTTTACAAG
1 TCGAGGGTACTTTAGTAA-TTTTACAAG
* *
89511494 TCGAGGGTATTTTAGTAATTTTACAAA
1 TCGAGGGTACTTTAGTAATTTTACAAG
*
89511521 TC-AGGGGATATTTTAGTAATTTTACAA-
1 TCGA-GGG-TACTTTAGTAATTTTACAAG
* * * ** *
89511548 ACCAGGGGTATTTTAGTAATTTTGTAAA
1 TCGA-GGGTACTTTAGTAATTTTACAAG
89511576 TCGAGGGTA
1 TCGAGGGTA
89511585 AAACAGTAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 9
0.82 0.08 0.09
Matches are distributed among these distances:
26 1 0.01
27 36 0.46
28 42 0.53
ACGTcount: A:0.30, C:0.08, G:0.23, T:0.39
Consensus pattern (27 bp):
TCGAGGGTACTTTAGTAATTTTACAAG
Found at i:89511612 original size:27 final size:27
Alignment explanation
Indices: 89511562--89511636 Score: 105
Period size: 27 Copynumber: 2.7 Consensus size: 27
89511552 GGGGTATTTT
* *
89511562 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
89511589 AGTAATTCTGTAAATCAAGGGTAAAAC
1 AGTAATTCTGTAAATCAAGGGTAAAAC
* *
89511616 TGTAATTCTATAAATCGAAGG
1 AGTAATTCTGTAAATC-AAGG
89511637 TACTTTGGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
27 39 0.91
28 4 0.09
ACGTcount: A:0.41, C:0.09, G:0.20, T:0.29
Consensus pattern (27 bp):
AGTAATTCTGTAAATCAAGGGTAAAAC
Found at i:89517584 original size:39 final size:39
Alignment explanation
Indices: 89517540--89517624 Score: 107
Period size: 40 Copynumber: 2.2 Consensus size: 39
89517530 CCTTCGGAGT
* *
89517540 TTAGCCGGATATAGCCACTACCTCAAATGCCTTCGGGAC
1 TTAGCCGGATATAGCAACTACCACAAATGCCTTCGGGAC
* * **
89517579 TTAGCCCGGTTATAGTAACTTGCACAAATGCCTTCGGGAC
1 TTAG-CCGGATATAGCAACTACCACAAATGCCTTCGGGAC
89517619 TTAGCC
1 TTAGCC
89517625 CGGTATAATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 6 0.15
40 33 0.85
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (39 bp):
TTAGCCGGATATAGCAACTACCACAAATGCCTTCGGGAC
Found at i:89519346 original size:25 final size:25
Alignment explanation
Indices: 89519285--89519348 Score: 83
Period size: 25 Copynumber: 2.6 Consensus size: 25
89519275 GGCTGTCACA
*
89519285 GGCAAAGCCCTTTTTGATAAACTGG
1 GGCAAAGCCCTTTTCGATAAACTGG
** *
89519310 GGCAAAAACCTTTTCGGTAAACTGG
1 GGCAAAGCCCTTTTCGATAAACTGG
*
89519335 GGCATAGCCCTTTT
1 GGCAAAGCCCTTTT
89519349 AGCACTTCCT
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
25 32 1.00
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.28
Consensus pattern (25 bp):
GGCAAAGCCCTTTTCGATAAACTGG
Found at i:89520187 original size:27 final size:27
Alignment explanation
Indices: 89520157--89520221 Score: 78
Period size: 27 Copynumber: 2.4 Consensus size: 27
89520147 GGGCATATTC
89520157 GTCATTTTACCATACAAGGG-TATTACG
1 GTCATTTTACCATACAAGGGCT-TTACG
* * *
89520184 GTCACTTTACCCTACAGGGGCTTTACG
1 GTCATTTTACCATACAAGGGCTTTACG
*
89520211 GTCTTTTTACC
1 GTCATTTTACC
89520222 TATTAGGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 31 0.97
28 1 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (27 bp):
GTCATTTTACCATACAAGGGCTTTACG
Found at i:89520305 original size:27 final size:27
Alignment explanation
Indices: 89520275--89520382 Score: 96
Period size: 27 Copynumber: 3.9 Consensus size: 27
89520265 GTAAATCTAC
89520275 AAACCAAGGGTATTTCAGTAATTTTGT
1 AAACCAAGGGTATTTCAGTAATTTTGT
*
89520302 AAACCAATGGTATTTCTA-TAATTTT-T
1 AAACCAAGGGTATTTC-AGTAATTTTGT
* *
89520328 AGAAAGTCAAGGGTATTTCTGTAATTTTGT
1 --AAA-CCAAGGGTATTTCAGTAATTTTGT
* **
89520358 AAATC-AGGGATATTTTGGTAATTTT
1 AAACCAAGGG-TATTTCAGTAATTTT
89520383 ACAAATTGAG
Statistics
Matches: 68, Mismatches: 6, Indels: 14
0.77 0.07 0.16
Matches are distributed among these distances:
26 5 0.07
27 37 0.54
28 7 0.10
29 18 0.26
30 1 0.01
ACGTcount: A:0.32, C:0.08, G:0.18, T:0.42
Consensus pattern (27 bp):
AAACCAAGGGTATTTCAGTAATTTTGT
Found at i:89520380 original size:56 final size:55
Alignment explanation
Indices: 89520272--89520441 Score: 168
Period size: 54 Copynumber: 3.1 Consensus size: 55
89520262 TTGGTAAATC
* * *
89520272 TACAAACCAAGGGTATTTCAGTAATTTTGTAAACCAATGG-TATTTCT-ATAATTTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACC-AGGGATATTT-TGGTAATTTT
* * *
89520327 TAGAAAGTCAAGGGTATTTCTGTAATTTTGTAAATCAGGGATATTTTGGTAA-TTT
1 TACAAA-TCAAGGGTATTTCAGTAATTTTGTAAACCAGGGATATTTTGGTAATTTT
** * *** *
89520382 TACAAATTGAGGGTATTTCGGTAATTTCACAAACCAGTGATATTTTGGTAA-TTT
1 TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGGGATATTTTGGTAATTTT
89520436 TACAAA
1 TACAAA
89520442 CTAGGGGTAT
Statistics
Matches: 97, Mismatches: 15, Indels: 7
0.82 0.13 0.06
Matches are distributed among these distances:
54 46 0.47
55 17 0.18
56 34 0.35
ACGTcount: A:0.34, C:0.10, G:0.17, T:0.39
Consensus pattern (55 bp):
TACAAATCAAGGGTATTTCAGTAATTTTGTAAACCAGGGATATTTTGGTAATTTT
Found at i:89520388 original size:27 final size:27
Alignment explanation
Indices: 89520348--89520461 Score: 124
Period size: 27 Copynumber: 4.2 Consensus size: 27
89520338 GGGTATTTCT
**
89520348 GTAATTTTGTAAATCAGGGATATTTTG
1 GTAATTTTACAAATCAGGGATATTTTG
* *
89520375 GTAATTTTACAAATTGAGGG-TATTTCG
1 GTAATTTTACAAA-TCAGGGATATTTTG
* * *
89520402 GTAATTTCACAAACCAGTGATATTTTG
1 GTAATTTTACAAATCAGGGATATTTTG
*
89520429 GTAATTTTACAAA-CTAGGGGTATTTTG
1 GTAATTTTACAAATC-AGGGATATTTTG
89520456 GTAATT
1 GTAATT
89520462 CTACCCTATA
Statistics
Matches: 72, Mismatches: 12, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
26 4 0.06
27 63 0.88
28 5 0.07
ACGTcount: A:0.31, C:0.08, G:0.20, T:0.41
Consensus pattern (27 bp):
GTAATTTTACAAATCAGGGATATTTTG
Found at i:89520424 original size:54 final size:53
Alignment explanation
Indices: 89520337--89520461 Score: 160
Period size: 54 Copynumber: 2.3 Consensus size: 53
89520327 TAGAAAGTCA
* *** * *
89520337 AGGGTATTTCTGTAATTTTGTAAATCAGGGATATTTTGGTAATTTTACAAATT
1 AGGGTATTTCGGTAATTTCACAAACCAGGGATATTTTGGTAATTTTACAAACT
*
89520390 GAGGGTATTTCGGTAATTTCACAAACCAGTGATATTTTGGTAATTTTACAAACT
1 -AGGGTATTTCGGTAATTTCACAAACCAGGGATATTTTGGTAATTTTACAAACT
*
89520444 AGGGGTATTTTGGTAATT
1 A-GGGTATTTCGGTAATT
89520462 CTACCCTATA
Statistics
Matches: 62, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
53 1 0.02
54 61 0.98
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.42
Consensus pattern (53 bp):
AGGGTATTTCGGTAATTTCACAAACCAGGGATATTTTGGTAATTTTACAAACT
Found at i:89520548 original size:27 final size:27
Alignment explanation
Indices: 89520493--89520584 Score: 121
Period size: 27 Copynumber: 3.4 Consensus size: 27
89520483 GTAATTTCAC
** * * *
89520493 AATCGAGAATAAAACGGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
89520520 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
**
89520547 AATTAAGGGTAAAACAGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
89520574 AATCGAGGGTA
1 AATCGAGGGTA
89520585 CTTTGGTAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.45, C:0.09, G:0.20, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:89522264 original size:19 final size:19
Alignment explanation
Indices: 89522242--89522289 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 19
89522232 ATCTGTGAGA
*
89522242 AGAAAATAAATGAAGAATT
1 AGAAAATAAATGAAAAATT
* *
89522261 AGAAAAGAAAATTAAAAATT
1 AGAAAA-TAAATGAAAAATT
89522281 A-AAAATAAA
1 AGAAAATAAA
89522290 AATAAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
18 3 0.12
19 10 0.42
20 11 0.46
ACGTcount: A:0.71, C:0.00, G:0.10, T:0.19
Consensus pattern (19 bp):
AGAAAATAAATGAAAAATT
Found at i:89522280 original size:7 final size:7
Alignment explanation
Indices: 89522268--89522299 Score: 50
Period size: 6 Copynumber: 4.9 Consensus size: 7
89522258 ATTAGAAAAG
89522268 AAAATTA
1 AAAATTA
89522275 AAAATTA
1 AAAATTA
89522282 AAAA-TA
1 AAAATTA
89522288 AAAA-TA
1 AAAATTA
89522294 AAAATT
1 AAAATT
89522300 TGAATTGCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 12 0.50
7 12 0.50
ACGTcount: A:0.75, C:0.00, G:0.00, T:0.25
Consensus pattern (7 bp):
AAAATTA
Found at i:89522290 original size:19 final size:20
Alignment explanation
Indices: 89522242--89522299 Score: 66
Period size: 19 Copynumber: 3.0 Consensus size: 20
89522232 ATCTGTGAGA
* *
89522242 AGAAAAT-AAATGAAGAATT
1 AGAAAATAAAATTAAAAATT
*
89522261 AGAAAAGAAAATTAAAAATT
1 AGAAAATAAAATTAAAAATT
*
89522281 A-AAAATAAAAATAAAAATT
1 AGAAAATAAAATTAAAAATT
89522300 TGAATTGCAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
19 22 0.67
20 11 0.33
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.21
Consensus pattern (20 bp):
AGAAAATAAAATTAAAAATT
Found at i:89524311 original size:43 final size:42
Alignment explanation
Indices: 89524264--89524358 Score: 120
Period size: 42 Copynumber: 2.2 Consensus size: 42
89524254 TCCCAGACGT
* * **
89524264 GGTCTTACATGTAATCAAATATCGATGCCACTGTCCCAGAAAG
1 GGTCTTACACGAAATCAAATAT-GATGCCACCATCCCAGAAAG
*
89524307 GGTCTTACACGAAATCAAATATGATGCCACCATCCCAG-ATG
1 GGTCTTACACGAAATCAAATATGATGCCACCATCCCAGAAAG
89524348 TGGTCTTACAC
1 -GGTCTTACAC
89524359 ATAAACCATA
Statistics
Matches: 46, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
41 2 0.04
42 24 0.52
43 20 0.43
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (42 bp):
GGTCTTACACGAAATCAAATATGATGCCACCATCCCAGAAAG
Found at i:89524353 original size:42 final size:43
Alignment explanation
Indices: 89524245--89524401 Score: 158
Period size: 43 Copynumber: 3.7 Consensus size: 43
89524235 AGCTCGTACA
* * * *
89524245 ATGCCAACGTCCCAGACGTGGTCTTACATGTAATCAAATATCG
1 ATGCCACCGTCCCAGAAGTGGTCTTACACGAAATCAAATATCG
*
89524288 ATGCCACTGTCCCAGAAAG-GGTCTTACACGAAATCAAATAT-G
1 ATGCCACCGTCCCAG-AAGTGGTCTTACACGAAATCAAATATCG
* * * * *
89524330 ATGCCACCATCCCAGATGTGGTCTTACACATAAACCATAA-GTCG
1 ATGCCACCGTCCCAGAAGTGGTCTTACAC-GAAATCA-AATATCG
* *
89524374 ATGCCAACGTCCCAGACGTGGTCTTACA
1 ATGCCACCGTCCCAGAAGTGGTCTTACA
89524402 TGATAACAAG
Statistics
Matches: 95, Mismatches: 14, Indels: 9
0.81 0.12 0.08
Matches are distributed among these distances:
41 2 0.02
42 24 0.25
43 39 0.41
44 30 0.32
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (43 bp):
ATGCCACCGTCCCAGAAGTGGTCTTACACGAAATCAAATATCG
Found at i:89528455 original size:37 final size:37
Alignment explanation
Indices: 89528414--89528484 Score: 133
Period size: 37 Copynumber: 1.9 Consensus size: 37
89528404 CTCTATATAA
*
89528414 TTTAGAGTTTACACACCCCCAAACTTAATTCATTACT
1 TTTAGAGTTTACACACCCCCAAACTTAATCCATTACT
89528451 TTTAGAGTTTACACACCCCCAAACTTAATCCATT
1 TTTAGAGTTTACACACCCCCAAACTTAATCCATT
89528485 GCTTGTCTCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 33 1.00
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (37 bp):
TTTAGAGTTTACACACCCCCAAACTTAATCCATTACT
Found at i:89532831 original size:43 final size:43
Alignment explanation
Indices: 89532784--89532888 Score: 140
Period size: 43 Copynumber: 2.4 Consensus size: 43
89532774 TAGCCCAACT
*
89532784 ATGGTCTTACTCGA-AATCAAATAACGATGCAAATGTCCCAGAC
1 ATGGTCTTACAC-ATAATCAAATAACGATGCAAATGTCCCAGAC
** * * *
89532827 ATGGTCTTACACATAATCACGTAATGATGCCAATGTCCCAGGC
1 ATGGTCTTACACATAATCAAATAACGATGCAAATGTCCCAGAC
89532870 ATGGTCTTACACATAATCA
1 ATGGTCTTACACATAATCA
89532889 CTCCTTGTTA
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
42 1 0.02
43 54 0.98
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACATAATCAAATAACGATGCAAATGTCCCAGAC
Found at i:89551466 original size:27 final size:26
Alignment explanation
Indices: 89551422--89551473 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
89551412 CTCGCTGCAA
*
89551422 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
89551449 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
89551474 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:89552385 original size:47 final size:48
Alignment explanation
Indices: 89552316--89552439 Score: 146
Period size: 47 Copynumber: 2.6 Consensus size: 48
89552306 GTATAATGTC
** * *
89552316 GATGCCATG-CCCTAGACATGGTCTTACACTGGCTCATC-CATCAA-GTT
1 GATGCCATGTCCC-AGACATGGTCTTACACTAACT-ATCAAATCAAGGCT
89552363 GATGCCATGTCCCAGACATGGTCTTACACTAACTATCGAAATCAAGGCT
1 GATGCCATGTCCCAGACATGGTCTTACACTAACTATC-AAATCAAGGCT
**
89552412 GACACCATGTCCCAGACATGGTCTTACA
1 GATGCCATGTCCCAGACATGGTCTTACA
89552440 TTAGCTCTCA
Statistics
Matches: 67, Mismatches: 6, Indels: 6
0.85 0.08 0.08
Matches are distributed among these distances:
46 3 0.04
47 28 0.42
48 8 0.12
49 28 0.42
ACGTcount: A:0.27, C:0.29, G:0.19, T:0.25
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTAACTATCAAATCAAGGCT
Found at i:89552624 original size:94 final size:92
Alignment explanation
Indices: 89552505--89552675 Score: 211
Period size: 94 Copynumber: 1.8 Consensus size: 92
89552495 ACGTCTCGTA
* * *
89552505 GCCGATGCATGTCCCAAACATGTCTTACATTGGCT-TACAT-CTCGAGGCCAATACATGTCCCAG
1 GCCGATGCATGTACCAAACATGTCTTACACTGGCTCT-CATAAT-GAGGCCAATACATGTCCCAG
89552568 ACATGTCTTACACTAGCTCTTGTCTCAAT
64 ACATGTCTTACACTAGCTCTTGTCTCAAT
** * * * *
89552597 GCCGATGCCATGTACCGGACATGGTCTTACACTGGCTCTCGTAATGTGGCCGATGCATGTCCCAG
1 GCCGATG-CATGTACCAAACAT-GTCTTACACTGGCTCTCATAATGAGGCCAATACATGTCCCAG
89552662 ACATGTCTTACACT
64 ACATGTCTTACACT
89552676 GGCACACAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 6
0.81 0.11 0.07
Matches are distributed among these distances:
92 7 0.11
93 11 0.17
94 46 0.70
95 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (92 bp):
GCCGATGCATGTACCAAACATGTCTTACACTGGCTCTCATAATGAGGCCAATACATGTCCCAGAC
ATGTCTTACACTAGCTCTTGTCTCAAT
Found at i:89552678 original size:46 final size:46
Alignment explanation
Indices: 89552505--89552678 Score: 151
Period size: 46 Copynumber: 3.7 Consensus size: 46
89552495 ACGTCTCGTA
* * * * *
89552505 GCCGATGCATGTCCCAAACATGTCTTACATTGGCT-TACAT-CTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCT-CGTAAT-GTG
* * * *
89552551 GCCAATACATGTCCCAGACATGTCTTACACTAGCTCTTGTCTCAA--T-
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCG--T-AATGTG
* *
89552597 GCCGATGCCATGTACCGGACATGGTCTTACACTGGCTCTCGTAATGTG
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGGCTCTCGTAATGTG
89552645 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTGGC
89552679 ACACAAATAA
Statistics
Matches: 101, Mismatches: 17, Indels: 20
0.73 0.12 0.14
Matches are distributed among these distances:
45 2 0.02
46 49 0.49
47 26 0.26
48 24 0.24
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGGCTCTCGTAATGTG
Found at i:89558600 original size:45 final size:44
Alignment explanation
Indices: 89558501--89558718 Score: 165
Period size: 45 Copynumber: 4.8 Consensus size: 44
89558491 AAATATTTGT
* *
89558501 GCCGATGCCATGTCCCAGACTTGGTCTTACACTGAC--ACATCTC-G
1 GCCGATG-CATGT-CCAGACAT-GTCTTACACTGGCTTACATCTCAG
89558545 TAGCCGATGCATGTCCTAGACATGTCTTACACTGGCTTACATCTCAG
1 --GCCGATGCATGTCC-AGACATGTCTTACACTGGCTTACATCTCAG
* * ** *
89558592 GCCAATGCATGTCCCAGACATGTCTTACACTAGCTCT-TGTCTCAAT
1 GCCGATGCATGT-CCAGACATGTCTTACACTGGCT-TACATCTC-AG
* ** * * **
89558638 GCCGATGCCTTGTTCCAGACATGGTCTTACACTGGCTCCCGTAATGTG
1 GCCGATG-CATG-TCCAGACAT-GTCTTACACTGGCTTACAT-CTCAG
89558686 GCCGATGCATGTCCAGACATGTCTTACACTGGC
1 GCCGATGCATGTCCAGACATGTCTTACACTGGC
89558719 ACACAAATAA
Statistics
Matches: 143, Mismatches: 17, Indels: 25
0.77 0.09 0.14
Matches are distributed among these distances:
44 14 0.10
45 57 0.40
46 33 0.23
47 15 0.10
48 23 0.16
49 1 0.01
ACGTcount: A:0.21, C:0.30, G:0.21, T:0.28
Consensus pattern (44 bp):
GCCGATGCATGTCCAGACATGTCTTACACTGGCTTACATCTCAG
Found at i:89566244 original size:43 final size:43
Alignment explanation
Indices: 89566197--89566294 Score: 133
Period size: 43 Copynumber: 2.3 Consensus size: 43
89566187 TAGCTTAGCT
*
89566197 ATGGTCTTACTCGAAATCAAATAACAATGCCAATGTCCCAAAC
1 ATGGTCTTACACGAAATCAAATAACAATGCCAATGTCCCAAAC
* * *** *
89566240 ATGGTCTTACACGTAATCACATATTGATGCCAATGTCCCAGAC
1 ATGGTCTTACACGAAATCAAATAACAATGCCAATGTCCCAAAC
89566283 ATGGTCTTACAC
1 ATGGTCTTACAC
89566295 ATAATCACAC
Statistics
Matches: 48, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 48 1.00
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.27
Consensus pattern (43 bp):
ATGGTCTTACACGAAATCAAATAACAATGCCAATGTCCCAAAC
Found at i:89568645 original size:19 final size:19
Alignment explanation
Indices: 89568601--89568647 Score: 76
Period size: 19 Copynumber: 2.5 Consensus size: 19
89568591 ATGGTATGAT
*
89568601 GGCGTTAGGAGTAAGGATA
1 GGCGTTGGGAGTAAGGATA
89568620 GGCGTTGGGAGTAAGGATA
1 GGCGTTGGGAGTAAGGATA
*
89568639 GGTGTTGGG
1 GGCGTTGGG
89568648 TTCAAGTTGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.23, C:0.04, G:0.49, T:0.23
Consensus pattern (19 bp):
GGCGTTGGGAGTAAGGATA
Found at i:89570163 original size:17 final size:17
Alignment explanation
Indices: 89570122--89570164 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
89570112 GTAGATCGGT
89570122 AAAAGCC-AAAATACCA
1 AAAAGCCTAAAATACCA
**
89570138 AAAAG-CTAAAATGTCA
1 AAAAGCCTAAAATACCA
89570154 AAAAGCCTAAA
1 AAAAGCCTAAA
89570165 GTTTGGCTAC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
15 1 0.04
16 17 0.74
17 5 0.22
ACGTcount: A:0.60, C:0.19, G:0.09, T:0.12
Consensus pattern (17 bp):
AAAAGCCTAAAATACCA
Found at i:89570419 original size:28 final size:29
Alignment explanation
Indices: 89570379--89570491 Score: 140
Period size: 29 Copynumber: 4.0 Consensus size: 29
89570369 CATGACTGTA
89570379 AATGTGATTTGGGCCTAAT-GGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
*
89570407 AATGTGATTTGGGCCTAATGGGCCATATA
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * *
89570436 AATTTGATTTGGGCTTCATGGGCCATATG
1 AATGTGATTTGGGCCTAATGGGCCATATG
* * * *
89570465 AAAGAGA-TTGGGCCTAGTGGGCTATAT
1 AATGTGATTTGGGCCTAATGGGCCATAT
89570492 ACAGGTATGT
Statistics
Matches: 72, Mismatches: 12, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
28 35 0.49
29 37 0.51
ACGTcount: A:0.26, C:0.13, G:0.29, T:0.32
Consensus pattern (29 bp):
AATGTGATTTGGGCCTAATGGGCCATATG
Found at i:89570443 original size:29 final size:29
Alignment explanation
Indices: 89570377--89570492 Score: 139
Period size: 28 Copynumber: 4.1 Consensus size: 29
89570367 AGCATGACTG
89570377 TAAATGTGATTTGGGCCTAAT-GGCCATA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
*
89570405 TGAATGTGATTTGGGCCTAATGGGCCATA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
* * *
89570434 TAAATTTGATTTGGGCTTCATGGGCCATA
1 TAAATGTGATTTGGGCCTAATGGGCCATA
* * *
89570463 TGAAA-GAGA-TTGGGCCTAGTGGGCTATA
1 T-AAATGTGATTTGGGCCTAATGGGCCATA
89570491 TA
1 TA
89570493 CAGGTATGTG
Statistics
Matches: 75, Mismatches: 11, Indels: 5
0.82 0.12 0.05
Matches are distributed among these distances:
27 1 0.01
28 36 0.48
29 35 0.47
30 3 0.04
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (29 bp):
TAAATGTGATTTGGGCCTAATGGGCCATA
Found at i:89570476 original size:57 final size:57
Alignment explanation
Indices: 89570377--89570492 Score: 153
Period size: 57 Copynumber: 2.0 Consensus size: 57
89570367 AGCATGACTG
* *
89570377 TAAATGTGATTTGGGCCTAATGGCCATATGAATGTGATTTGGGCCTAATGGGCCATA
1 TAAATGTGATTTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCATA
* * * * *
89570434 TAAATTTGATTTGGGCTTCATGGGCCATATGAAAGAGA-TTGGGCCTAGTGGGCTATA
1 TAAATGTGATTTGGGCCTAAT-GGCCATATGAAAGAGATTTGGGCCTAATGGGCCATA
89570491 TA
1 TA
89570493 CAGGTATGTG
Statistics
Matches: 51, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
57 37 0.73
58 14 0.27
ACGTcount: A:0.27, C:0.13, G:0.28, T:0.32
Consensus pattern (57 bp):
TAAATGTGATTTGGGCCTAATGGCCATATGAAAGAGATTTGGGCCTAATGGGCCATA
Found at i:89572255 original size:55 final size:57
Alignment explanation
Indices: 89572141--89572266 Score: 175
Period size: 55 Copynumber: 2.2 Consensus size: 57
89572131 CATGAGATTG
* * *
89572141 GCACTAAGTGTGCGGGTTTAAATTGCATAGCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTACATAACACTAAGTGTGCAAGTTTGATTATATA
* * *
89572198 GCACTAAGTGTGCGAGTTT-GATTATATAACACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTAAATTACATAACACTAAGTGTGCAAGTTTGATTATATA
*
89572253 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
89572267 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
55 24 0.39
56 20 0.32
57 18 0.29
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (57 bp):
GCACTAAGTGTGCGAGTTTAAATTACATAACACTAAGTGTGCAAGTTTGATTATATA
Found at i:89572257 original size:27 final size:28
Alignment explanation
Indices: 89572141--89572266 Score: 173
Period size: 28 Copynumber: 4.5 Consensus size: 28
89572131 CATGAGATTG
* * **
89572141 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
89572170 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
89572198 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
89572226 ACACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
89572253 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
89572267 GACTTAATAT
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
27 23 0.26
28 48 0.55
29 17 0.19
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.33
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:89572277 original size:27 final size:27
Alignment explanation
Indices: 89572167--89572280 Score: 129
Period size: 28 Copynumber: 4.1 Consensus size: 27
89572157 TTTAAATTGC
* *
89572167 ATAGCACTAAGTGTGCAAGTTTGATTAT
1 ATAGCACTAAGTGTGCGA-CTTGATTAT
*
89572195 ATAGCACTAAGTGTGCGAGTTTGATTAT
1 ATAGCACTAAGTGTGCGA-CTTGATTAT
* *
89572223 ATAACACTAAGTGTGCGAGTTGATTAT
1 ATAGCACTAAGTGTGCGACTTGATTAT
* *
89572250 ATAGCACTGAGTGTGCGGACTTAATATAT
1 ATAGCACTAAGTGTGC-GACTTGAT-TAT
89572279 AT
1 AT
89572281 TTTTGAATCA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
27 22 0.29
28 50 0.65
29 5 0.06
ACGTcount: A:0.32, C:0.11, G:0.23, T:0.34
Consensus pattern (27 bp):
ATAGCACTAAGTGTGCGACTTGATTAT
Found at i:89579023 original size:27 final size:28
Alignment explanation
Indices: 89578939--89579036 Score: 126
Period size: 27 Copynumber: 3.5 Consensus size: 28
89578929 CATGAGATTG
* * **
89578939 GCACTAAGTGTGCGGGTTTAAATTGCATA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
*
89578968 GCACTAAGTGTGCAAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
89578996 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
89579023 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
89579037 GACTTAATAT
Statistics
Matches: 62, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
27 24 0.39
28 21 0.34
29 17 0.27
ACGTcount: A:0.28, C:0.13, G:0.28, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:89579050 original size:29 final size:27
Alignment explanation
Indices: 89578965--89579050 Score: 91
Period size: 27 Copynumber: 3.1 Consensus size: 27
89578955 TTTAAATTGC
* * *
89578965 ATAGCACTAAGTGTGCAAGTTTGATTAT
1 ATAGCACTAAGTGTGCGA-CTTAATTAT
* *
89578993 ATAGCACTAAGTGTGCGAGTTGATTAT
1 ATAGCACTAAGTGTGCGACTTAATTAT
*
89579020 ATAGCACTGAGTGTGCGGACTTAATATAT
1 ATAGCACTAAGTGTGC-GACTTAAT-TAT
89579049 AT
1 AT
89579051 TTTTGAATCA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
27 23 0.45
28 23 0.45
29 5 0.10
ACGTcount: A:0.31, C:0.12, G:0.23, T:0.34
Consensus pattern (27 bp):
ATAGCACTAAGTGTGCGACTTAATTAT
Found at i:89591492 original size:19 final size:19
Alignment explanation
Indices: 89591468--89591506 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
89591458 ACATTACATG
* *
89591468 CACACATGATTCCACTAAT
1 CACACACGATTCCACCAAT
*
89591487 CACACACGGTTCCACCAAT
1 CACACACGATTCCACCAAT
89591506 C
1 C
89591507 CATTAATGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.33, C:0.38, G:0.08, T:0.21
Consensus pattern (19 bp):
CACACACGATTCCACCAAT
Found at i:89601367 original size:24 final size:24
Alignment explanation
Indices: 89601316--89601484 Score: 250
Period size: 24 Copynumber: 7.0 Consensus size: 24
89601306 GCTTTATCAT
*
89601316 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
89601341 ATAACTAGGGCAAAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
89601365 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
89601389 ATAACTGGGGCATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
89601413 ATAACTGGGGCATAAGCCCTTTTTA
1 ATAACTGGGGCATAAGCCC-TTTTA
*
89601438 ATAACTGGGGAATAAGCCCTTTTA
1 ATAACTGGGGCATAAGCCCTTTTA
*
89601462 ATAACTGGGGCATAAGCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTT
89601485 GCACTTCCTC
Statistics
Matches: 132, Mismatches: 10, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
24 98 0.74
25 34 0.26
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:89601453 original size:73 final size:72
Alignment explanation
Indices: 89601316--89601484 Score: 250
Period size: 73 Copynumber: 2.3 Consensus size: 72
89601306 GCTTTATCAT
* *
89601316 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTAGGGCAAAAGCCCTTTTAATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTAATAACTAGGGCAAAAGCCCTTTTAATAACTGGGGAATAA
*
89601380 GCCCTTTTG
64 GCCCTTTTA
* *
89601389 ATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTTTAATAACTGGGGAATAAG
1 ATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCAAAAGCCC-TTTTAATAACTGGGGAATAAG
89601454 CCCTTTTA
65 CCCTTTTA
*
89601462 ATAACTGGGGCATAAGCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTT
89601485 GCACTTCCTC
Statistics
Matches: 88, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
72 27 0.31
73 61 0.69
ACGTcount: A:0.29, C:0.20, G:0.21, T:0.30
Consensus pattern (72 bp):
ATAACTGGGGCATAAGCCCTTTTAATAACTAGGGCAAAAGCCCTTTTAATAACTGGGGAATAAGC
CCTTTTA
Found at i:89601563 original size:20 final size:20
Alignment explanation
Indices: 89601538--89601589 Score: 77
Period size: 20 Copynumber: 2.6 Consensus size: 20
89601528 GAATACATCG
89601538 TGTGCATATCATACATATCA
1 TGTGCATATCATACATATCA
* *
89601558 TGTGCATATCATACATGTCG
1 TGTGCATATCATACATATCA
*
89601578 TGTGCAGATCAT
1 TGTGCATATCAT
89601590 GCAGACCATG
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.29, C:0.19, G:0.17, T:0.35
Consensus pattern (20 bp):
TGTGCATATCATACATATCA
Found at i:89601665 original size:25 final size:25
Alignment explanation
Indices: 89601637--89601684 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
89601627 ATATATAAAC
* * *
89601637 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTTATTTTTA
89601662 CCTAGGGGCAAAACGGTTATTTT
1 CCTAGGGGCAAAACGGTTATTTT
89601685 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.25, C:0.12, G:0.25, T:0.38
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTTATTTTTA
Done.