Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167838.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_11, whole genome shotgun sequence
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: 23775123
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 69000 characters in sequence are not A, C, G, or T
File 57 of 129
Found at i:11133058 original size:7 final size:7
Alignment explanation
Indices: 11133017--11133074 Score: 54
Period size: 6 Copynumber: 8.7 Consensus size: 7
11133007 AGAATTATTA
11133017 AATAA-T
1 AATAATT
11133023 AATAA-T
1 AATAATT
11133029 AA-AATT
1 AATAATT
11133035 AA-AAGTT
1 AATAA-TT
*
11133042 ACTAAATT
1 AAT-AATT
11133050 AATAATT
1 AATAATT
11133057 AATAATT
1 AATAATT
11133064 AATAA-T
1 AATAATT
11133070 AATAA
1 AATAA
11133075 AAAAGAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
5 2 0.04
6 19 0.41
7 19 0.41
8 4 0.09
9 2 0.04
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.34
Consensus pattern (7 bp):
AATAATT
Found at i:11133257 original size:16 final size:14
Alignment explanation
Indices: 11133223--11133261 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
11133213 CCAAAATCAC
11133223 AACCCTAAAATTAA
1 AACCCTAAAATTAA
*
11133237 AACCCTAAAGACTTGA
1 AACCCTAAA-A-TTAA
11133253 AACCCTAAA
1 AACCCTAAA
11133262 CTTCTAAACC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 1 0.05
16 12 0.55
ACGTcount: A:0.51, C:0.26, G:0.05, T:0.18
Consensus pattern (14 bp):
AACCCTAAAATTAA
Found at i:11133295 original size:32 final size:31
Alignment explanation
Indices: 11133236--11133295 Score: 77
Period size: 32 Copynumber: 1.9 Consensus size: 31
11133226 CCTAAAATTA
*
11133236 AAACCCTAAAGACTTGAAACCCTAAACTTCT
1 AAACCCTAAAGACTTGAAACCCAAAACTTCT
*
11133267 AAACCCTTAAA-ACTTTGAAATCCAAAACT
1 AAACCC-TAAAGAC-TTGAAACCCAAAACT
11133296 CTGAAAACTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
31 8 0.32
32 17 0.68
ACGTcount: A:0.45, C:0.27, G:0.05, T:0.23
Consensus pattern (31 bp):
AAACCCTAAAGACTTGAAACCCAAAACTTCT
Found at i:11133388 original size:15 final size:15
Alignment explanation
Indices: 11133370--11133423 Score: 63
Period size: 15 Copynumber: 3.6 Consensus size: 15
11133360 TTGAAATCTT
**
11133370 AAACCCTAAATTTCA
1 AAACCCTAAACATCA
*
11133385 AAACCCTAAACATCT
1 AAACCCTAAACATCA
* *
11133400 AAACCCTAGACCTCA
1 AAACCCTAAACATCA
11133415 AAACCCTAA
1 AAACCCTAA
11133424 CCTTAAAACC
Statistics
Matches: 32, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.46, C:0.33, G:0.02, T:0.19
Consensus pattern (15 bp):
AAACCCTAAACATCA
Found at i:11133431 original size:14 final size:15
Alignment explanation
Indices: 11133400--11133462 Score: 65
Period size: 16 Copynumber: 4.1 Consensus size: 15
11133390 CTAAACATCT
*
11133400 AAACCCTAGACCTCA
1 AAACCCTAGACCTAA
*
11133415 AAACCCTA-ACCTTA
1 AAACCCTAGACCTAA
*
11133429 AAACCATAGACCCTAA
1 AAACCCTAGA-CCTAA
*
11133445 AAACCCTAAAACCTAA
1 AAACCCT-AGACCTAA
11133461 AA
1 AA
11133463 CCTTAAAATC
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
14 12 0.30
15 9 0.22
16 17 0.43
17 2 0.05
ACGTcount: A:0.49, C:0.33, G:0.03, T:0.14
Consensus pattern (15 bp):
AAACCCTAGACCTAA
Found at i:11133459 original size:16 final size:15
Alignment explanation
Indices: 11133370--11133462 Score: 62
Period size: 15 Copynumber: 6.1 Consensus size: 15
11133360 TTGAAATCTT
** *
11133370 AAACCCTAAATTTCA
1 AAACCCTAAACCTAA
* **
11133385 AAACCCTAAACATCT
1 AAACCCTAAACCTAA
* *
11133400 AAACCCTAGACCTCA
1 AAACCCTAAACCTAA
*
11133415 AAACCCT-AACCTTA
1 AAACCCTAAACCTAA
* *
11133429 AAACCATAGACCCTAA
1 AAACCCTA-AACCTAA
11133445 AAACCCTAAAACCTAA
1 AAACCCT-AAACCTAA
11133461 AA
1 AA
11133463 CCTTAAAATC
Statistics
Matches: 62, Mismatches: 13, Indels: 5
0.77 0.16 0.06
Matches are distributed among these distances:
14 11 0.18
15 31 0.50
16 19 0.31
17 1 0.02
ACGTcount: A:0.48, C:0.32, G:0.02, T:0.17
Consensus pattern (15 bp):
AAACCCTAAACCTAA
Found at i:11133588 original size:16 final size:16
Alignment explanation
Indices: 11133549--11133580 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
11133539 AAAAACCTAC
11133549 ACCTT-AAACCTCAAA
1 ACCTTAAAACCTCAAA
11133564 ACCTTAAAACCTCAAA
1 ACCTTAAAACCTCAAA
11133580 A
1 A
11133581 TCCTAAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 5 0.31
16 11 0.69
ACGTcount: A:0.50, C:0.31, G:0.00, T:0.19
Consensus pattern (16 bp):
ACCTTAAAACCTCAAA
Found at i:11141823 original size:18 final size:17
Alignment explanation
Indices: 11141800--11141843 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
11141790 GAGAGAGTTT
*
11141800 TTTTTTTTTGTTTTTTAG
1 TTTTTTTATG-TTTTTAG
11141818 TTTTTTTATGTTTTTAG
1 TTTTTTTATGTTTTTAG
*
11141835 TTTTCTTAT
1 TTTTTTTAT
11141844 ATTGTTTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 15 0.62
18 9 0.38
ACGTcount: A:0.09, C:0.02, G:0.09, T:0.80
Consensus pattern (17 bp):
TTTTTTTATGTTTTTAG
Found at i:11141984 original size:22 final size:22
Alignment explanation
Indices: 11141959--11142032 Score: 69
Period size: 22 Copynumber: 3.3 Consensus size: 22
11141949 TAAAAGCTCC
*
11141959 TTTAAACAAAGACTCAACAACT
1 TTTAAACAAAGACTCAAAAACT
* *
11141981 TTTAAA-AACAAACTTAAAAACT
1 TTTAAACAA-AGACTCAAAAACT
* *
11142003 CCTTTTAACAAAGACTCAATAACT
1 --TTTAAACAAAGACTCAAAAACT
11142027 TTTAAA
1 TTTAAA
11142033 AATAAATTTG
Statistics
Matches: 40, Mismatches: 8, Indels: 8
0.71 0.14 0.14
Matches are distributed among these distances:
21 2 0.05
22 21 0.52
24 15 0.38
25 2 0.05
ACGTcount: A:0.50, C:0.19, G:0.03, T:0.28
Consensus pattern (22 bp):
TTTAAACAAAGACTCAAAAACT
Found at i:11141991 original size:24 final size:24
Alignment explanation
Indices: 11141962--11142034 Score: 64
Period size: 24 Copynumber: 3.1 Consensus size: 24
11141952 AAGCTCCTTT
*
11141962 AAACAAAGACTCAACAACTTTTAA
1 AAACAAAGACTCAAAAACTTTTAA
*
11141986 AAAC-AA-ACTTAAAAACTCCTTT--
1 AAACAAAGACTCAAAAACT--TTTAA
* *
11142008 TAACAAAGACTCAATAACTTTTAA
1 AAACAAAGACTCAAAAACTTTTAA
11142032 AAA
1 AAA
11142035 TAAATTTGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 12
0.67 0.11 0.22
Matches are distributed among these distances:
22 15 0.41
23 4 0.11
24 18 0.49
ACGTcount: A:0.53, C:0.19, G:0.03, T:0.25
Consensus pattern (24 bp):
AAACAAAGACTCAAAAACTTTTAA
Found at i:11142059 original size:46 final size:46
Alignment explanation
Indices: 11141893--11142084 Score: 197
Period size: 46 Copynumber: 4.2 Consensus size: 46
11141883 TGACCATTTG
* ** * * ** *
11141893 AAAACAAATTTAAAAATTCTTTTAAATAAAGAAACAACAACTTTTG
1 AAAATAAATTTAAAAGCTCCTTTAAACAAAGACTCAACAACTTTTA
11141939 AAAATAAATTTAAAAGCTCCTTTAAACAAAGACTCAACAACTTTTA
1 AAAATAAATTTAAAAGCTCCTTTAAACAAAGACTCAACAACTTTTA
* * * * *
11141985 AAAACAAACTTAAAAACTCCTTTTAACAAAGACTCAATAACTTTTA
1 AAAATAAATTTAAAAGCTCCTTTAAACAAAGACTCAACAACTTTTA
* ** * * *
11142031 AAAATAAATTTGAAAGCTTATTTCAACAAAGGCTCGACAA-TTTTGA
1 AAAATAAATTTAAAAGCTCCTTTAAACAAAGACTCAACAACTTTT-A
11142077 AAAATAAA
1 AAAATAAA
11142085 ATAGGAGATC
Statistics
Matches: 122, Mismatches: 23, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
45 4 0.03
46 118 0.97
ACGTcount: A:0.51, C:0.15, G:0.06, T:0.29
Consensus pattern (46 bp):
AAAATAAATTTAAAAGCTCCTTTAAACAAAGACTCAACAACTTTTA
Found at i:11142059 original size:92 final size:92
Alignment explanation
Indices: 11141889--11142080 Score: 228
Period size: 92 Copynumber: 2.1 Consensus size: 92
11141879 GATTTGACCA
* * * *
11141889 TTTG-AAAACAAATTTAAAAATTCTTTTAAATAAAGAAACAACAACTTTTGAAAATAAATTTAAA
1 TTTGAAAAACAAACTTAAAAATCCTTTTAAACAAAGAAACAACAACTTTTAAAAATAAATTTAAA
*
11141953 AGCTCCTTTAAACAAAGACTCAACAACT
66 AGCTCATTTAAACAAAGACTCAACAA-T
** * *
11141981 TTT-AAAAACAAACTTAAAAACTCCTTTT-AACAAAGACTCAATAACTTTTAAAAATAAATTTGA
1 TTTGAAAAACAAACTTAAAAA-TCCTTTTAAACAAAGAAACAACAACTTTTAAAAATAAATTTAA
* * * *
11142044 AAGCTTATTTCAACAAAGGCTCGACAAT
65 AAGCTCATTTAAACAAAGACTCAACAAT
11142072 TTTGAAAAA
1 TTTGAAAAA
11142081 TAAAATAGGA
Statistics
Matches: 84, Mismatches: 13, Indels: 6
0.82 0.13 0.06
Matches are distributed among these distances:
91 4 0.05
92 74 0.88
93 6 0.07
ACGTcount: A:0.49, C:0.15, G:0.06, T:0.30
Consensus pattern (92 bp):
TTTGAAAAACAAACTTAAAAATCCTTTTAAACAAAGAAACAACAACTTTTAAAAATAAATTTAAA
AGCTCATTTAAACAAAGACTCAACAAT
Found at i:11142412 original size:44 final size:45
Alignment explanation
Indices: 11142316--11142505 Score: 137
Period size: 48 Copynumber: 4.3 Consensus size: 45
11142306 TAGAGGCTCG
* * * *
11142316 ACAACTTTAAAAATTTT-AAAAAGCTCATCGAAACAGAGG-TTTA
1 ACAACTTTAAAAATTTTGAGAAAGCTCCTCTAAACAAAGGCTTTA
* * * *
11142359 ACAAATTTAAAAATTTTGAGAAAGCTCGTCTTAACAAAGGCTTTG
1 ACAACTTTAAAAATTTTGAGAAAGCTCCTCTAAACAAAGGCTTTA
** * *
11142404 A-AACTTT-AAAATTTTG-G-AAGCTCCTCTAAACAGTGAC-TTG
1 ACAACTTTAAAAATTTTGAGAAAGCTCCTCTAAACAAAGGCTTTA
* * *
11142444 ATAACTTTAAAAATCTCATCTTGA-AAAGCTCCTTTAAACAAAGGTTTTA
1 ACAACTTTAAAAA--T--T-TTGAGAAAGCTCCTCTAAACAAAGGCTTTA
11142493 A-AACTTTAAAAAT
1 ACAACTTTAAAAAT
11142506 CTCATCCTAA
Statistics
Matches: 116, Mismatches: 19, Indels: 21
0.74 0.12 0.13
Matches are distributed among these distances:
40 4 0.03
41 21 0.18
42 5 0.04
43 25 0.22
44 23 0.20
45 4 0.03
46 2 0.02
47 3 0.03
48 26 0.22
49 3 0.03
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.32
Consensus pattern (45 bp):
ACAACTTTAAAAATTTTGAGAAAGCTCCTCTAAACAAAGGCTTTA
Found at i:11142498 original size:48 final size:48
Alignment explanation
Indices: 11142446--11142555 Score: 166
Period size: 48 Copynumber: 2.3 Consensus size: 48
11142436 GTGACTTGAT
* * * * *
11142446 AACTTTAAAAATCTCATCTTGAAAAGCTCCTTTAAACAAAGGTTTTAA
1 AACTTTAAAAATCTCATCCTAAAAAACCCCTTTAAACAAAGGCTTTAA
*
11142494 AACTTTAAAAATCTCATCCTAAAAAACCCCTTTAAATAAAGGCTTTAA
1 AACTTTAAAAATCTCATCCTAAAAAACCCCTTTAAACAAAGGCTTTAA
11142542 AACTTTAAAAATCT
1 AACTTTAAAAATCT
11142556 TATTTATGAC
Statistics
Matches: 56, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
48 56 1.00
ACGTcount: A:0.45, C:0.18, G:0.05, T:0.32
Consensus pattern (48 bp):
AACTTTAAAAATCTCATCCTAAAAAACCCCTTTAAACAAAGGCTTTAA
Found at i:11143741 original size:9 final size:9
Alignment explanation
Indices: 11143727--11143755 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
11143717 TTTCTTTCAC
11143727 CTTTTTTTT
1 CTTTTTTTT
11143736 C-TTTTTTT
1 CTTTTTTTT
11143744 CTTTTTTTT
1 CTTTTTTTT
11143753 CTT
1 CTT
11143756 CAAGCATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
8 8 0.42
9 11 0.58
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (9 bp):
CTTTTTTTT
Found at i:11160699 original size:5 final size:5
Alignment explanation
Indices: 11160691--11160715 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
11160681 CAGTAAATAA
11160691 TATTT TATTT TATTT TATTT TATTT
1 TATTT TATTT TATTT TATTT TATTT
11160716 AAAATTTAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TATTT
Found at i:11161570 original size:36 final size:36
Alignment explanation
Indices: 11161529--11161601 Score: 119
Period size: 36 Copynumber: 2.0 Consensus size: 36
11161519 ATATTCAGTT
*
11161529 TTTATTCATTTATATTTATTTATTAAAATTAACAAA
1 TTTATTCATTTATATTCATTTATTAAAATTAACAAA
**
11161565 TTTATTCATTTATATTCATTTATTAAGCTTAACAAA
1 TTTATTCATTTATATTCATTTATTAAAATTAACAAA
11161601 T
1 T
11161602 GATTTTGAAT
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.38, C:0.08, G:0.01, T:0.52
Consensus pattern (36 bp):
TTTATTCATTTATATTCATTTATTAAAATTAACAAA
Found at i:11161848 original size:25 final size:25
Alignment explanation
Indices: 11161819--11161882 Score: 69
Period size: 25 Copynumber: 2.5 Consensus size: 25
11161809 TTTTAAGGTA
11161819 TATTTATATTCATTTAGGGTT-T-ATT
1 TATTTATATTCATTT--GGTTGTGATT
* *
11161844 TATTTAAATTTATTTGGTTGTGATT
1 TATTTATATTCATTTGGTTGTGATT
11161869 TATTTATTATTCAT
1 TATTTA-TATTCAT
11161883 AAATATGTTC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
23 4 0.12
24 1 0.03
25 22 0.69
26 5 0.16
ACGTcount: A:0.25, C:0.03, G:0.11, T:0.61
Consensus pattern (25 bp):
TATTTATATTCATTTGGTTGTGATT
Found at i:11168412 original size:2 final size:2
Alignment explanation
Indices: 11168407--11168436 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11168397 TGACTGTTTC
*
11168407 AT AT AT AT AT GT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11168437 TCTTTTTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11168943 original size:2 final size:2
Alignment explanation
Indices: 11168936--11168961 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11168926 TTTCCTTTAA
11168936 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11168962 CTACTCGAGC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11170349 original size:24 final size:24
Alignment explanation
Indices: 11170300--11170350 Score: 66
Period size: 25 Copynumber: 2.1 Consensus size: 24
11170290 CTTTAGTTAG
** *
11170300 AATTAATTAATAAGTGTAATTAAA
1 AATTAATTAATAAAAGAAATTAAA
11170324 AATTAATTAATTAAAAGAAATTAAA
1 AATTAATTAA-TAAAAGAAATTAAA
11170349 AA
1 AA
11170351 AAAAAGAGAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
24 10 0.43
25 13 0.57
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (24 bp):
AATTAATTAATAAAAGAAATTAAA
Found at i:11172251 original size:11 final size:10
Alignment explanation
Indices: 11172198--11172254 Score: 51
Period size: 11 Copynumber: 5.3 Consensus size: 10
11172188 TATTTAAAAG
*
11172198 AAAAGTTTAA
1 AAAATTTTAA
*
11172208 AAAAATTTAA
1 AAAATTTTAA
11172218 TAAAATTTTAA
1 -AAAATTTTAA
*
11172229 AAATTTTCTTAA
1 AAA-ATT-TTAA
11172241 AAAAGTTTTAA
1 AAAA-TTTTAA
11172252 AAA
1 AAA
11172255 TATAAACCTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 12 0.31
11 18 0.46
12 9 0.23
ACGTcount: A:0.58, C:0.02, G:0.04, T:0.37
Consensus pattern (10 bp):
AAAATTTTAA
Found at i:11172279 original size:8 final size:9
Alignment explanation
Indices: 11172208--11172369 Score: 56
Period size: 9 Copynumber: 16.6 Consensus size: 9
11172198 AAAAGTTTAA
*
11172208 AAAAATTTA
1 AAAAATTTT
11172217 ATAAAATTTT
1 A-AAAATTTT
11172227 AAAAATTTTCTT
1 AAAAA--TT-TT
11172239 AAAAAAGTTTT
1 -AAAAA-TTTT
*
11172250 AAAAA-TAT
1 AAAAATTTT
**
11172258 AAACCTTTT
1 AAAAATTTT
11172267 AAAAATTTT
1 AAAAATTTT
** *
11172276 AAAAAAATC
1 AAAAATTTT
*
11172285 AAAAATATT
1 AAAAATTTT
11172294 AAAAAGTTTT
1 AAAAA-TTTT
* *
11172304 AACAAAAATTC
1 -A-AAAATTTT
*
11172315 AAAATTCCCTTT
1 AAAAAT---TTT
*
11172327 CAAAATTTTT
1 -AAAAATTTT
11172337 AAAAATTCTT
1 AAAAATT-TT
*
11172347 AAAATTTTT
1 AAAAATTTT
* *
11172356 AAAACTTAT
1 AAAAATTTT
11172365 AAAAA
1 AAAAA
11172370 AAACAAAATA
Statistics
Matches: 115, Mismatches: 24, Indels: 28
0.69 0.14 0.17
Matches are distributed among these distances:
8 5 0.04
9 54 0.47
10 28 0.24
11 7 0.06
12 10 0.09
13 11 0.10
ACGTcount: A:0.54, C:0.07, G:0.01, T:0.37
Consensus pattern (9 bp):
AAAAATTTT
Found at i:11172298 original size:28 final size:27
Alignment explanation
Indices: 11172237--11172318 Score: 76
Period size: 28 Copynumber: 2.9 Consensus size: 27
11172227 AAAAATTTTC
* **
11172237 TTAAAAAAGTTTTAAAAATAT-AAACCT
1 TTAAAAAA-TTTTAAAAAAATCAAAAAT
*
11172264 TTTAAAAATTTTAAAAAAATCAAAAAT
1 TTAAAAAATTTTAAAAAAATCAAAAAT
*
11172291 ATTAAAAAGTTTTAACAAAAATTCAAAA
1 -TTAAAAAATTTTAA-AAAAA-TCAAAA
11172319 TTCCCTTTCA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
26 11 0.24
27 11 0.24
28 12 0.27
29 5 0.11
30 6 0.13
ACGTcount: A:0.60, C:0.06, G:0.02, T:0.32
Consensus pattern (27 bp):
TTAAAAAATTTTAAAAAAATCAAAAAT
Found at i:11172343 original size:10 final size:10
Alignment explanation
Indices: 11172328--11172476 Score: 56
Period size: 10 Copynumber: 14.6 Consensus size: 10
11172318 ATTCCCTTTC
11172328 AAAATTTTTA
1 AAAATTTTTA
*
11172338 AAAATTCTT-
1 AAAATTTTTA
11172347 AAAATTTTT-
1 AAAATTTTTA
* *
11172356 AAAACTTATA
1 AAAATTTTTA
****
11172366 AAAA-AAACA
1 AAAATTTTTA
* *
11172375 AAATAATTCTA
1 AAA-ATTTTTA
*
11172386 AAATTTTTTTA
1 AAAATT-TTTA
* *
11172397 AAAATTCTGA
1 AAAATTTTTA
*
11172407 AAAAATTTTA
1 AAAATTTTTA
*
11172417 AAAATATTTCTC
1 AAAAT-TTT-TA
11172429 AAAA-TTTT-
1 AAAATTTTTA
*
11172437 AAAATTTATAAA
1 AAAATTT-T-TA
11172449 AAAATTAATTTA
1 AAAATT--TTTA
11172461 AAAATTTTTA
1 AAAATTTTTA
11172471 AAAATT
1 AAAATT
11172477 AAGAAATTTT
Statistics
Matches: 103, Mismatches: 24, Indels: 24
0.68 0.16 0.16
Matches are distributed among these distances:
8 4 0.04
9 23 0.22
10 41 0.40
11 15 0.15
12 18 0.17
13 1 0.01
14 1 0.01
ACGTcount: A:0.54, C:0.05, G:0.01, T:0.40
Consensus pattern (10 bp):
AAAATTTTTA
Found at i:11172369 original size:19 final size:19
Alignment explanation
Indices: 11172328--11172369 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
11172318 ATTCCCTTTC
* *
11172328 AAAATTTTTAAAAATTCTT
1 AAAATTTTTAAAAATTATA
*
11172347 AAAATTTTTAAAACTTATA
1 AAAATTTTTAAAAATTATA
11172366 AAAA
1 AAAA
11172370 AAACAAAATA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (19 bp):
AAAATTTTTAAAAATTATA
Found at i:11172525 original size:9 final size:9
Alignment explanation
Indices: 11172498--11172552 Score: 65
Period size: 10 Copynumber: 5.8 Consensus size: 9
11172488 TTAATATGCA
11172498 AAAAATTCT
1 AAAAATTCT
11172507 AAACAATTCT
1 AAA-AATTCT
11172517 AAAAATTCT
1 AAAAATTCT
*
11172526 AAAAAATTTT
1 -AAAAATTCT
*
11172536 GAAAAATTAT
1 -AAAAATTCT
11172546 AAAAATT
1 AAAAATT
11172553 TTTTAAAAGT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
9 16 0.39
10 25 0.61
ACGTcount: A:0.58, C:0.07, G:0.02, T:0.33
Consensus pattern (9 bp):
AAAAATTCT
Found at i:11172553 original size:19 final size:18
Alignment explanation
Indices: 11172498--11172554 Score: 69
Period size: 19 Copynumber: 3.0 Consensus size: 18
11172488 TTAATATGCA
*
11172498 AAAAATTCTAAACAATTCT
1 AAAAATTCTAAA-AATTTT
11172517 AAAAATTCTAAAAAATTTT
1 AAAAATTCT-AAAAATTTT
*
11172536 GAAAAATTATAAAAATTTT
1 -AAAAATTCTAAAAATTTT
11172555 TTAAAAGTAA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
19 23 0.68
20 11 0.32
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.35
Consensus pattern (18 bp):
AAAAATTCTAAAAATTTT
Found at i:11172555 original size:20 final size:20
Alignment explanation
Indices: 11172498--11172560 Score: 65
Period size: 20 Copynumber: 3.2 Consensus size: 20
11172488 TTAATATGCA
* * *
11172498 AAAAATTCTAAACAATTCT-
1 AAAAATTATAAAAAATTTTG
*
11172517 AAAAATTCTAAAAAATTTTG
1 AAAAATTATAAAAAATTTTG
* *
11172537 AAAAATTATAAAAATTTTTT
1 AAAAATTATAAAAAATTTTG
11172557 AAAA
1 AAAA
11172561 GTAAAATTTA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
19 17 0.45
20 21 0.55
ACGTcount: A:0.57, C:0.06, G:0.02, T:0.35
Consensus pattern (20 bp):
AAAAATTATAAAAAATTTTG
Found at i:11172656 original size:22 final size:22
Alignment explanation
Indices: 11172630--11172673 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
11172620 TAATTTGAAA
* *
11172630 TTTTTTGAAAATTACAAAATTC
1 TTTTTTGAAAATAAAAAAATTC
*
11172652 TTTTTTTAAAATAAAAAAATTC
1 TTTTTTGAAAATAAAAAAATTC
11172674 AAAAAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.07, G:0.02, T:0.45
Consensus pattern (22 bp):
TTTTTTGAAAATAAAAAAATTC
Found at i:11172696 original size:16 final size:17
Alignment explanation
Indices: 11172677--11172712 Score: 65
Period size: 16 Copynumber: 2.2 Consensus size: 17
11172667 AAAATTCAAA
11172677 AAAAATTAAAATTT-TT
1 AAAAATTAAAATTTCTT
11172693 AAAAATTAAAATTTCTT
1 AAAAATTAAAATTTCTT
11172710 AAA
1 AAA
11172713 GTTTAAAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
16 14 0.74
17 5 0.26
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.39
Consensus pattern (17 bp):
AAAAATTAAAATTTCTT
Found at i:11172735 original size:17 final size:17
Alignment explanation
Indices: 11172715--11172747 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
11172705 TTCTTAAAGT
11172715 TTAAAAAAATAAAAAAC
1 TTAAAAAAATAAAAAAC
*
11172732 TTAAAAAATTAAAAAA
1 TTAAAAAAATAAAAAA
11172748 TACAAAAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (17 bp):
TTAAAAAAATAAAAAAC
Found at i:11172736 original size:9 final size:8
Alignment explanation
Indices: 11172715--11172748 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
11172705 TTCTTAAAGT
11172715 TTAAAAAA
1 TTAAAAAA
*
11172723 ATAAAAAA
1 TTAAAAAA
11172731 CTTAAAAAA
1 -TTAAAAAA
11172740 TTAAAAAA
1 TTAAAAAA
11172748 T
1 T
11172749 ACAAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 16 0.70
9 7 0.30
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (8 bp):
TTAAAAAA
Found at i:11172805 original size:28 final size:28
Alignment explanation
Indices: 11172752--11172805 Score: 67
Period size: 27 Copynumber: 2.0 Consensus size: 28
11172742 AAAAAATACA
*
11172752 AAAAAATCTAAAACTTTTAAAATTTTTC
1 AAAAAATCTAAAACTTTCAAAATTTTTC
*
11172780 AAAAAAT-TAAATAGTTTC-AAATTTTT
1 AAAAAATCTAAA-ACTTTCAAAATTTTT
11172806 GAAGCATTCT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (28 bp):
AAAAAATCTAAAACTTTCAAAATTTTTC
Found at i:11173744 original size:18 final size:18
Alignment explanation
Indices: 11173721--11173759 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
11173711 GATCAGTGAG
*
11173721 ATTGGAAAGGGCGTTTTA
1 ATTGGAAAGGGCATTTTA
11173739 ATTGGAAAGGGCATTTTA
1 ATTGGAAAGGGCATTTTA
11173757 ATT
1 ATT
11173760 ACTCATCCAT
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:0.31, C:0.05, G:0.28, T:0.36
Consensus pattern (18 bp):
ATTGGAAAGGGCATTTTA
Found at i:11173917 original size:19 final size:20
Alignment explanation
Indices: 11173883--11173924 Score: 59
Period size: 19 Copynumber: 2.1 Consensus size: 20
11173873 GAAGTATACC
11173883 ATTTATAATTATTATAATATA
1 ATTTATAA-TATTATAATATA
*
11173904 ATTTATAA-ATTATAATTTA
1 ATTTATAATATTATAATATA
11173923 AT
1 AT
11173925 ATTTTATAAG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 12 0.60
21 8 0.40
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
ATTTATAATATTATAATATA
Found at i:11176909 original size:12 final size:12
Alignment explanation
Indices: 11176894--11176918 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11176884 TGTCCAAGAA
11176894 AAAATGAGAGAG
1 AAAATGAGAGAG
11176906 AAAATGAGAGAG
1 AAAATGAGAGAG
11176918 A
1 A
11176919 GTAATTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.32, T:0.08
Consensus pattern (12 bp):
AAAATGAGAGAG
Found at i:11178036 original size:2 final size:2
Alignment explanation
Indices: 11178029--11178058 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11178019 CAACTACTTT
11178029 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11178059 CAATGAAGAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:11179739 original size:14 final size:15
Alignment explanation
Indices: 11179715--11179744 Score: 53
Period size: 14 Copynumber: 2.1 Consensus size: 15
11179705 TGATTTATGA
11179715 ATTTATTTTAAAAAT
1 ATTTATTTTAAAAAT
11179730 ATTT-TTTTAAAAAT
1 ATTTATTTTAAAAAT
11179744 A
1 A
11179745 AAATAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 11 0.73
15 4 0.27
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTATTTTAAAAAT
Found at i:11179751 original size:11 final size:11
Alignment explanation
Indices: 11179737--11179769 Score: 50
Period size: 11 Copynumber: 3.0 Consensus size: 11
11179727 AATATTTTTT
11179737 TAAAAATAAAA
1 TAAAAATAAAA
11179748 T-AAAATAAAAA
1 TAAAAAT-AAAA
11179759 TAAAAATAAAA
1 TAAAAATAAAA
11179770 ATTTATAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
10 5 0.25
11 10 0.50
12 5 0.25
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (11 bp):
TAAAAATAAAA
Found at i:11179758 original size:6 final size:6
Alignment explanation
Indices: 11179737--11179771 Score: 56
Period size: 6 Copynumber: 6.2 Consensus size: 6
11179727 AATATTTTTT
11179737 TAAAAA T-AAAA T-AAAA TAAAAA TAAAAA TAAAAA T
1 TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA TAAAAA T
11179772 TTATAAAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.36
6 18 0.64
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (6 bp):
TAAAAA
Found at i:11179854 original size:5 final size:5
Alignment explanation
Indices: 11179844--11179915 Score: 51
Period size: 5 Copynumber: 14.0 Consensus size: 5
11179834 ATCAACAATT
*
11179844 TAAAA TAAAA TAAAA -AAGAA TAATAA GTAAAA TAAAA -AAATC TAAAA
1 TAAAA TAAAA TAAAA TAA-AA TAA-AA -TAAAA TAAAA TAAA-A TAAAA
* *
11179891 TAAAAA TAAAA AAAAA CAAAA -AAAA
1 T-AAAA TAAAA TAAAA TAAAA TAAAA
11179916 AACCCTGCGA
Statistics
Matches: 56, Mismatches: 5, Indels: 13
0.76 0.07 0.18
Matches are distributed among these distances:
4 9 0.16
5 30 0.54
6 14 0.25
7 3 0.05
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (5 bp):
TAAAA
Found at i:11179902 original size:22 final size:19
Alignment explanation
Indices: 11179844--11179905 Score: 70
Period size: 21 Copynumber: 3.0 Consensus size: 19
11179834 ATCAACAATT
11179844 TAAAATAAAATAAAAAAGAA
1 TAAAATAAAATAAAAAA-AA
*
11179864 TAATAAGTAAAATAAAAAAATC
1 TAA-AA-TAAAATAAAAAAA-A
11179886 TAAAATAAAAATAAAAAAAA
1 TAAAAT-AAAATAAAAAAAA
11179906 ACAAAAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
20 4 0.11
21 17 0.47
22 15 0.42
ACGTcount: A:0.77, C:0.02, G:0.03, T:0.18
Consensus pattern (19 bp):
TAAAATAAAATAAAAAAAA
Found at i:11179905 original size:10 final size:10
Alignment explanation
Indices: 11179844--11179916 Score: 65
Period size: 10 Copynumber: 7.0 Consensus size: 10
11179834 ATCAACAATT
*
11179844 TAAAATAAAA
1 TAAAAAAAAA
*
11179854 TAAAAAAGAA
1 TAAAAAAAAA
*
11179864 TAATAAGTAAAA
1 TAA-AA-AAAAA
**
11179876 TAAAAAAATC
1 TAAAAAAAAA
11179886 TAAAATAAAAA
1 TAAAA-AAAAA
11179897 TAAAAAAAAA
1 TAAAAAAAAA
*
11179907 CAAAAAAAAA
1 TAAAAAAAAA
11179917 ACCCTGCGAT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
10 32 0.64
11 12 0.24
12 6 0.12
ACGTcount: A:0.79, C:0.03, G:0.03, T:0.15
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:11179912 original size:22 final size:21
Alignment explanation
Indices: 11179845--11179917 Score: 67
Period size: 22 Copynumber: 3.4 Consensus size: 21
11179835 TCAACAATTT
* *
11179845 AAAATAAAATAAAAAAGAATA
1 AAAATAAAATAAAAAAAAACA
* * *
11179866 ATAAGTAAAAT-AAAAAAATCT
1 A-AAATAAAATAAAAAAAAACA
11179887 AAAATAAAAATAAAAAAAAACA
1 AAAAT-AAAATAAAAAAAAACA
*
11179909 AAAAAAAAA
1 AAAATAAAA
11179918 CCCTGCGATC
Statistics
Matches: 40, Mismatches: 9, Indels: 6
0.73 0.16 0.11
Matches are distributed among these distances:
20 3 0.08
21 17 0.43
22 20 0.50
ACGTcount: A:0.81, C:0.03, G:0.03, T:0.14
Consensus pattern (21 bp):
AAAATAAAATAAAAAAAAACA
Found at i:11181009 original size:7 final size:6
Alignment explanation
Indices: 11180938--11181047 Score: 65
Period size: 6 Copynumber: 19.2 Consensus size: 6
11180928 CTTTTAAACC
* * *
11180938 AAAATT AAAAATT -AAATT AAAA-T AAAA-- AAAA-T AAAATC ATAGTT
1 AAAATT -AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
* * * *
11180982 AAAATCC AAAATT AAAATT AAAATT TAAA-T -CAATT AAAATT -AACTT
1 AAAAT-T AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT AAAATT
*
11181028 CAACATT AAAATT AAAATT A
1 -AAAATT AAAATT AAAATT A
11181048 TGGGCTTTTA
Statistics
Matches: 80, Mismatches: 15, Indels: 17
0.71 0.13 0.15
Matches are distributed among these distances:
4 6 0.08
5 20 0.25
6 40 0.50
7 14 0.17
ACGTcount: A:0.63, C:0.06, G:0.01, T:0.30
Consensus pattern (6 bp):
AAAATT
Found at i:11186032 original size:90 final size:91
Alignment explanation
Indices: 11185865--11186047 Score: 296
Period size: 90 Copynumber: 2.0 Consensus size: 91
11185855 GTGATTTGTG
* * * * *
11185865 TATTTATGTCATACAAAATATTAAAATTTGTATATTCATGCCATATTTTATATGAAAATTACGTG
1 TATTCATGCCATACAAAATATTAAAATTTATATATTCATGCAATATTTTATATGAAAATTACATG
11185930 TAACAATTCGTTTAG-CACGAAAACA
66 TAACAATTCGTTTAGACACGAAAACA
* *
11185955 TATTCATGCCATATAAAATATTAAAATTTATATATTCATGTAATATTTTATATGAAAATTACATG
1 TATTCATGCCATACAAAATATTAAAATTTATATATTCATGCAATATTTTATATGAAAATTACATG
11186020 TAACAATTCGTTTAGACACGAAAACA
66 TAACAATTCGTTTAGACACGAAAACA
11186046 TA
1 TA
11186048 AAATATATTT
Statistics
Matches: 85, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
90 73 0.86
91 12 0.14
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (91 bp):
TATTCATGCCATACAAAATATTAAAATTTATATATTCATGCAATATTTTATATGAAAATTACATG
TAACAATTCGTTTAGACACGAAAACA
Found at i:11191485 original size:26 final size:25
Alignment explanation
Indices: 11191450--11191540 Score: 71
Period size: 26 Copynumber: 3.6 Consensus size: 25
11191440 AAATGACATA
*
11191450 AAAAATTCATGCAAAAACATT-ATGC
1 AAAAATTCATACAAAAA-ATTCATGC
* *
11191475 CAAAATATCATACACAAAATTCATGC
1 AAAAAT-TCATACAAAAAATTCATGC
* *
11191501 AAAAATGTCAT--AATAAATATAATGC
1 AAAAAT-TCATACAAAAAAT-TCATGC
*
11191526 AAAAATTCATTCAAA
1 AAAAATTCATACAAA
11191541 GTTTTTTTCA
Statistics
Matches: 52, Mismatches: 9, Indels: 9
0.74 0.13 0.13
Matches are distributed among these distances:
24 9 0.17
25 19 0.37
26 24 0.46
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.25
Consensus pattern (25 bp):
AAAAATTCATACAAAAAATTCATGC
Found at i:11191511 original size:13 final size:12
Alignment explanation
Indices: 11191450--11191540 Score: 62
Period size: 13 Copynumber: 7.2 Consensus size: 12
11191440 AAATGACATA
11191450 AAAAATTCATGC
1 AAAAATTCATGC
11191462 AAAAACATT-ATGC
1 -AAAA-ATTCATGC
* *
11191475 CAAAATATCATAC
1 AAAAAT-TCATGC
11191488 ACAAAATTCATGC
1 A-AAAATTCATGC
11191501 AAAAATGTCAT--
1 AAAAAT-TCATGC
*
11191512 AATAAATATAATGC
1 AA-AAAT-TCATGC
*
11191526 AAAAATTCATTC
1 AAAAATTCATGC
11191538 AAA
1 AAA
11191541 GTTTTTTTCA
Statistics
Matches: 62, Mismatches: 8, Indels: 17
0.71 0.09 0.20
Matches are distributed among these distances:
11 4 0.06
12 23 0.37
13 25 0.40
14 10 0.16
ACGTcount: A:0.54, C:0.15, G:0.05, T:0.25
Consensus pattern (12 bp):
AAAAATTCATGC
Found at i:11191625 original size:18 final size:18
Alignment explanation
Indices: 11191604--11191638 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
11191594 AATAAATGTA
11191604 TATAATAAAAT-TACAAAG
1 TATAA-AAAATATACAAAG
11191622 TATAAAAAATATACAAA
1 TATAAAAAATATACAAA
11191639 AAATAACTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.66, C:0.06, G:0.03, T:0.26
Consensus pattern (18 bp):
TATAAAAAATATACAAAG
Found at i:11194654 original size:7 final size:7
Alignment explanation
Indices: 11194639--11194669 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
11194629 AATAAAAATA
11194639 AAAAG-T
1 AAAAGTT
11194645 AAAAGTT
1 AAAAGTT
11194652 AAAAGTT
1 AAAAGTT
11194659 AAAAGTT
1 AAAAGTT
11194666 AAAA
1 AAAA
11194670 CAAAATAATA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.21
7 19 0.79
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.23
Consensus pattern (7 bp):
AAAAGTT
Found at i:11195088 original size:48 final size:48
Alignment explanation
Indices: 11194949--11195067 Score: 168
Period size: 48 Copynumber: 2.5 Consensus size: 48
11194939 ATTATCTACG
* * *
11194949 AAAATCGAAAAGCTCCTCCTCAATAGAGTATTTGAAACTTAAAAATTC
1 AAAATCGAAAAGCTCTTCCTCAATAGAGGATTTGAAACTTAAAAATTT
* * *
11194997 AAAATTGGAAAGCT-TGTTCTCAATAGAGGATTTGAAACTTAAAAATTT
1 AAAATCGAAAAGCTCT-TCCTCAATAGAGGATTTGAAACTTAAAAATTT
11195045 AAAATCGAAAAGCTCTTCCTCAA
1 AAAATCGAAAAGCTCTTCCTCAA
11195068 CTGAGGCTTT
Statistics
Matches: 60, Mismatches: 9, Indels: 4
0.82 0.12 0.05
Matches are distributed among these distances:
48 59 0.98
49 1 0.02
ACGTcount: A:0.43, C:0.16, G:0.13, T:0.29
Consensus pattern (48 bp):
AAAATCGAAAAGCTCTTCCTCAATAGAGGATTTGAAACTTAAAAATTT
Found at i:11202643 original size:131 final size:131
Alignment explanation
Indices: 11202407--11202643 Score: 273
Period size: 131 Copynumber: 1.8 Consensus size: 131
11202397 TAGTAGCATT
* *
11202407 ACCAATCATTCCCTTATGATAGAAAGCCTTAAAAGTATTGACAAATAAAACTATGATTTCTTTTT
1 ACCAATCATTCCCTCATAATAGAAAGCCTTAAAAGTATTGACAAATAAAACTATGATTTCTTTTT
* * * * * *
11202472 CAATGAGTGGCGATTGAACTTGGGTAGCTACATTCTTCCATTTCAAGGTATATTATTTAAAGCTT
66 CAATAAGTGGAGATTGAACTTAGGCAGCTACATCCCTCCATTTCAAGGTATATTATTTAAAGCTT
11202537 A
131 A
* * * * *
11202538 ACCAATCATTCTCTCATAATAGAGAA-CCTTAAGAA-TATTGACAAATAAGATTGTGGTTTCTTT
1 ACCAATCATTCCCTCATAATAGA-AAGCCTTAA-AAGTATTGACAAATAAAACTATGATTTCTTT
* * * *
11202601 TTTAGTAAGTGGTAG-TTGAACTTATGCAGCTATATCCCTCCAT
64 TTCAATAAGTGG-AGATTGAACTTAGGCAGCTACATCCCTCCAT
11202644 CTTTTGGCAT
Statistics
Matches: 86, Mismatches: 17, Indels: 6
0.79 0.16 0.06
Matches are distributed among these distances:
131 81 0.94
132 5 0.06
ACGTcount: A:0.33, C:0.16, G:0.15, T:0.36
Consensus pattern (131 bp):
ACCAATCATTCCCTCATAATAGAAAGCCTTAAAAGTATTGACAAATAAAACTATGATTTCTTTTT
CAATAAGTGGAGATTGAACTTAGGCAGCTACATCCCTCCATTTCAAGGTATATTATTTAAAGCTT
A
Found at i:11212033 original size:3 final size:3
Alignment explanation
Indices: 11212019--11212053 Score: 61
Period size: 3 Copynumber: 11.7 Consensus size: 3
11212009 CTTGAGATTT
*
11212019 TTA TTT TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
11212054 CTTTGAAGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (3 bp):
TTA
Found at i:11216161 original size:22 final size:24
Alignment explanation
Indices: 11216115--11216171 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 24
11216105 TTTATTTACA
11216115 AAAAAT-TTCATAAAAAATACTAT
1 AAAAATATTCATAAAAAATACTAT
11216138 AAAAATATT-ATAGAAAAAT-C-AT
1 AAAAATATTCATA-AAAAATACTAT
*
11216160 AAATATA-TCATA
1 AAAAATATTCATA
11216172 CAATAATATC
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
21 1 0.03
22 11 0.37
23 10 0.33
24 8 0.27
ACGTcount: A:0.61, C:0.07, G:0.02, T:0.30
Consensus pattern (24 bp):
AAAAATATTCATAAAAAATACTAT
Found at i:11216431 original size:17 final size:17
Alignment explanation
Indices: 11216398--11216454 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 17
11216388 AAAGTTATAC
*
11216398 AAAAAAC-AACTAAAAG
1 AAAAAACAAAATAAAAG
*
11216414 AAAAAACAAAATAGAAG
1 AAAAAACAAAATAAAAG
*
11216431 ATAAAAATAAAAATAAAAG
1 A-AAAAA-CAAAATAAAAG
11216450 AAAAA
1 AAAAA
11216455 CCTGCGGTCA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
16 7 0.21
17 8 0.24
18 9 0.26
19 10 0.29
ACGTcount: A:0.79, C:0.05, G:0.07, T:0.09
Consensus pattern (17 bp):
AAAAAACAAAATAAAAG
Found at i:11220343 original size:17 final size:17
Alignment explanation
Indices: 11220323--11220378 Score: 60
Period size: 17 Copynumber: 3.3 Consensus size: 17
11220313 TTATTTTCTA
*
11220323 AAAATGTTAATTTAATT
1 AAAATATTAATTTAATT
* *
11220340 AAAATATAAATATAATAT
1 AAAATATTAATTTAAT-T
*
11220358 AAATTATTAATTT-ATT
1 AAAATATTAATTTAATT
11220374 AAAAT
1 AAAAT
11220379 TAAATAACTT
Statistics
Matches: 31, Mismatches: 7, Indels: 3
0.76 0.17 0.07
Matches are distributed among these distances:
16 5 0.16
17 15 0.48
18 11 0.35
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (17 bp):
AAAATATTAATTTAATT
Found at i:11228051 original size:5 final size:5
Alignment explanation
Indices: 11228041--11228066 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
11228031 CCCTAGCCAA
11228041 AAAAT AAAAT AAAAT AAAAT AAAAT A
1 AAAAT AAAAT AAAAT AAAAT AAAAT A
11228067 TAGCATATTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:11228350 original size:27 final size:28
Alignment explanation
Indices: 11228307--11228367 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
11228297 TATCACTTTA
*
11228307 ATTAAAAAATTTATAATTTAAATATTAT
1 ATTAAAAAATTTATAATTCAAATATTAT
*
11228335 ATTAAAAAATTT-TAATTCAAGTATTAT
1 ATTAAAAAATTTATAATTCAAATATTAT
*
11228362 AATAAA
1 ATTAAA
11228368 TATTTTATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 18 0.60
28 12 0.40
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (28 bp):
ATTAAAAAATTTATAATTCAAATATTAT
Found at i:11229068 original size:20 final size:22
Alignment explanation
Indices: 11229043--11229087 Score: 58
Period size: 23 Copynumber: 2.1 Consensus size: 22
11229033 ACAACTAAAC
*
11229043 TATTCT-T-TTTTTTTTTTCTT
1 TATTCTCTATTTTTATTTTCTT
11229063 TATTCTCTAGTTTTTATTTTCTT
1 TATTCTCTA-TTTTTATTTTCTT
11229086 TA
1 TA
11229088 AAAAAGGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 6 0.29
21 1 0.05
23 14 0.67
ACGTcount: A:0.11, C:0.11, G:0.02, T:0.76
Consensus pattern (22 bp):
TATTCTCTATTTTTATTTTCTT
Found at i:11231834 original size:32 final size:32
Alignment explanation
Indices: 11231798--11231861 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
11231788 AATGCCTTAA
*
11231798 TTATTGGTATAATGATTAAGTTAAGAAATTTT
1 TTATTGGTATAATAATTAAGTTAAGAAATTTT
11231830 TTATTGGTATAATAATTAAGTTAAGAAATTTT
1 TTATTGGTATAATAATTAAGTTAAGAAATTTT
11231862 GGGAGGAATA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.39, C:0.00, G:0.14, T:0.47
Consensus pattern (32 bp):
TTATTGGTATAATAATTAAGTTAAGAAATTTT
Found at i:11243002 original size:130 final size:127
Alignment explanation
Indices: 11242792--11243224 Score: 431
Period size: 130 Copynumber: 3.3 Consensus size: 127
11242782 GTTCTTTTTA
* * * * **
11242792 AATATTTTATACAATGACAAAAATAGTTGTTACGAAAACTTTTATCATATATGTAATGATAAAAA
1 AATATTTTATACAACGACAAAAA-AATTATTACAAAAACTTTTATCATATATGTAACAATAAAAA
* * *
11242857 CTTATTGTGAAAATTTGTTTTATTTGTAACGATTTTTGAATGTTG-CTATTTAATTTATTTTTGT
65 CTTATTATGAAAATTTGTTTTATTTGTAACAATTTTTCAATGTTGTC-A-TTAATTTATTTTTGT
* * * * *
11242921 AATATTTTAT-GAACGACAAAAAAATTGTTACAAAAATTTTTATCATATTTGTAACAACAACAAA
1 AATATTTTATACAACGACAAAAAAATTATTACAAAAACTTTTATCATATATGT---AACAATAAA
* * * * *
11242985 AAGTTATTATGAAAATTTGTTTTATTTGTAACAATTTTTCAAAGTTATTGATTAAGTTATTTTT-
63 AACTTATTATGAAAATTTGTTTTATTTGTAACAATTTTTCAATGTT-GTCATTAATTTATTTTTG
11243049 T
127 T
* *** **
11243050 AATATTTTATACAATGACAAAATTGTTATTATGAAAACTTTTATCATATATGTAACAATAAAAAC
1 AATATTTTATACAACGACAAAAAAATTATTACAAAAACTTTTATCATATATGTAACAATAAAAAC
* * ** * *
11243115 TTATTATTGCAAAAACTTGTTTCATTTACAACAAATTTTCAATGTCGTCACTTAATTTATTTTTG
66 TTATTA-TG--AAAATTTGTTTTATTTGTAACAATTTTTCAATGTTGTCA-TTAATTTATTTTTG
11243180 T
127 T
* * * *
11243181 AATGTTTTATACAACAATAAAAAAATTATTACAAAAATTTTTAT
1 AATATTTTATACAACGACAAAAAAATTATTACAAAAACTTTTAT
11243225 TATTGTGAAT
Statistics
Matches: 244, Mismatches: 49, Indels: 20
0.78 0.16 0.06
Matches are distributed among these distances:
127 42 0.17
128 12 0.05
129 23 0.09
130 131 0.54
131 36 0.15
ACGTcount: A:0.40, C:0.08, G:0.08, T:0.44
Consensus pattern (127 bp):
AATATTTTATACAACGACAAAAAAATTATTACAAAAACTTTTATCATATATGTAACAATAAAAAC
TTATTATGAAAATTTGTTTTATTTGTAACAATTTTTCAATGTTGTCATTAATTTATTTTTGT
Found at i:11243668 original size:2 final size:2
Alignment explanation
Indices: 11243663--11243706 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
11243653 TTTGCAGCCT
* *
11243663 TA TA TA TA CA TA CA TA T- TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
11243704 TA T
1 TA T
11243707 TTCTTTCTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.48, C:0.05, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11244340 original size:2 final size:2
Alignment explanation
Indices: 11244335--11244366 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11244325 TATAAGTTTA
11244335 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11244367 TGAGTTTAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11246306 original size:2 final size:2
Alignment explanation
Indices: 11246299--11246330 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
11246289 AAAATTTGTA
11246299 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11246331 GAAGGACGTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11249514 original size:69 final size:69
Alignment explanation
Indices: 11249439--11249572 Score: 250
Period size: 69 Copynumber: 1.9 Consensus size: 69
11249429 CGTCTTTTGA
*
11249439 ATTTTTTGGAGATTGGTGATACATTTAAACATAATGGTGTTATTGAGGATGCCAAAGCTTAGATT
1 ATTTTTTGGAGATTGGTGATACATTTAAACATAATGGTGTTACTGAGGATGCCAAAGCTTAGATT
11249504 TTAG
66 TTAG
*
11249508 ATTTTTTTGAGATTGGTGATACATTTAAACATAATGGTGTTACTGAGGATGCCAAAGCTTAGATT
1 ATTTTTTGGAGATTGGTGATACATTTAAACATAATGGTGTTACTGAGGATGCCAAAGCTTAGATT
11249573 ATTTCCATTT
Statistics
Matches: 63, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
69 63 1.00
ACGTcount: A:0.31, C:0.08, G:0.22, T:0.39
Consensus pattern (69 bp):
ATTTTTTGGAGATTGGTGATACATTTAAACATAATGGTGTTACTGAGGATGCCAAAGCTTAGATT
TTAG
Found at i:11255094 original size:17 final size:17
Alignment explanation
Indices: 11255072--11255105 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11255062 CACCACAACC
*
11255072 TTTTTTTGTTTTT-TGT
1 TTTTTTTTTTTTTATGT
11255088 TTTTTTTTTTTTTATGT
1 TTTTTTTTTTTTTATGT
11255105 T
1 T
11255106 ATTACTATCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.03, C:0.00, G:0.09, T:0.88
Consensus pattern (17 bp):
TTTTTTTTTTTTTATGT
Found at i:11255250 original size:27 final size:24
Alignment explanation
Indices: 11255215--11255269 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
11255205 TTAAAAATTT
11255215 TAAATAAA-TTTATTAATTTAATATAA
1 TAAATAAATTTTA-TAA-TT-ATATAA
11255241 TAAATAAAATTTTATAATTATATAA
1 TAAAT-AAATTTTATAATTATATAA
11255266 TAAA
1 TAAA
11255270 CTAATTGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 10 0.37
26 7 0.26
27 6 0.22
28 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TAAATAAATTTTATAATTATATAA
Found at i:11257669 original size:20 final size:20
Alignment explanation
Indices: 11257623--11257670 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
11257613 ATAAAAATTA
*
11257623 TAAAATATATATTTATTTTTG
1 TAAAAT-TATATATATTTTTG
*
11257644 TTAAATTATATATATTTTAT-
1 TAAAATTATATATATTTT-TG
11257664 TAAAATT
1 TAAAATT
11257671 TTAATTTTTA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
20 17 0.74
21 6 0.26
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (20 bp):
TAAAATTATATATATTTTTG
Found at i:11261831 original size:14 final size:13
Alignment explanation
Indices: 11261795--11261837 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 13
11261785 TTTTTCAAAA
11261795 TTTTTTTTTGCTTT
1 TTTTTTTTTG-TTT
11261809 CTTTTTTTTTGTTT
1 -TTTTTTTTTGTTT
*
11261823 TTTTGTTTTTATTT
1 TTTT-TTTTTGTTT
11261837 T
1 T
11261838 AGATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 4 0.15
14 12 0.46
15 10 0.38
ACGTcount: A:0.02, C:0.05, G:0.07, T:0.86
Consensus pattern (13 bp):
TTTTTTTTTGTTT
Found at i:11261845 original size:31 final size:32
Alignment explanation
Indices: 11261810--11261869 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 32
11261800 TTTTGCTTTC
* *
11261810 TTTTTTTTT-GTTTTTTTGTTTTTATTTTAGA
1 TTTTTTTTTGGATTTTTGGTTTTTATTTTAGA
*
11261841 TTTTTTTTTGGATTTTTGGTTTTTTTTTT
1 TTTTTTTTTGGATTTTTGGTTTTTATTTT
11261870 TTGGAAAACT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
31 9 0.36
32 16 0.64
ACGTcount: A:0.07, C:0.00, G:0.12, T:0.82
Consensus pattern (32 bp):
TTTTTTTTTGGATTTTTGGTTTTTATTTTAGA
Found at i:11262055 original size:92 final size:93
Alignment explanation
Indices: 11261939--11262194 Score: 338
Period size: 92 Copynumber: 2.7 Consensus size: 93
11261929 ATAATTTTTT
* * * *
11261939 AAAATAAATTTAAAAACTCATTTAAGCAAAGGCTCGATAACTTTTAAAAATAAATTTAAAAGCTT
1 AAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCCACAACTTTTAAAAATAAATTTAAAAGCTC
*
11262004 TTTTAAG-AAAAGGCTCCATAAC-TTCCA
66 CTTTAAGCAAAA-GCTCCATAACTTTCCA
* * * * *
11262031 AAAATGATTTTAAAAACTCTTTTAAACAAAGACTCCACAACTTCTAAAAATAAATTTAAAAGCTC
1 AAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCCACAACTTTTAAAAATAAATTTAAAAGCTC
*
11262096 CTTTAAGCAAAAGCTCCATAACTTTTTCA
66 CTTTAAGCAAAAGCTCCATAAC-TTTCCA
* *
11262125 AAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCCACAATTTTTTGAAAATAAATTTGAAAA-C
1 AAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCCACAA-CTTTTAAAAATAAATTT-AAAAGC
11262189 TCCTTT
64 TCCTTT
11262195 TAAAAGAAAG
Statistics
Matches: 141, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
92 72 0.51
93 4 0.03
94 40 0.28
95 21 0.15
96 4 0.03
ACGTcount: A:0.45, C:0.16, G:0.07, T:0.32
Consensus pattern (93 bp):
AAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCCACAACTTTTAAAAATAAATTTAAAAGCTC
CTTTAAGCAAAAGCTCCATAACTTTCCA
Found at i:11262188 original size:47 final size:46
Alignment explanation
Indices: 11261929--11262197 Score: 304
Period size: 46 Copynumber: 5.8 Consensus size: 46
11261919 TAAAAACTCG
* * * *
11261929 ATAATTTTTTAAAATAAATTTAAAAACTCATTTAAGCAAAGGCTCG
1 ATAACTTTTAAAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCC
* * *
11261975 ATAACTTTTAAAAATAAATTTAAAAGCTTTTTTAAGAAAAGGCTCC
1 ATAACTTTTAAAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCC
** * * * *
11262021 ATAACTTCCAAAAATGATTTTAAAAACTCTTTTAAACAAAGACTCC
1 ATAACTTTTAAAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCC
* * * * *
11262067 ACAACTTCTAAAAATAAATTTAAAAGCTCCTTTAAGCAAAAGCTCC
1 ATAACTTTTAAAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCC
11262113 ATAACTTTTTCAAAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCC
1 ATAAC-TTTT-AAAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCC
* * * *
11262161 ACAATTTTTTGAAAATAAATTTGAAAACTCCTTTTAA
1 ATAA-CTTTTAAAAATAAATTTAAAAACT-CTTTTAA
11262198 AAGAAAGTTT
Statistics
Matches: 185, Mismatches: 34, Indels: 6
0.82 0.15 0.03
Matches are distributed among these distances:
46 117 0.63
47 20 0.11
48 48 0.26
ACGTcount: A:0.45, C:0.15, G:0.07, T:0.33
Consensus pattern (46 bp):
ATAACTTTTAAAAATAAATTTAAAAACTCTTTTAAGCAAAGGCTCC
Found at i:11262774 original size:124 final size:123
Alignment explanation
Indices: 11262306--11262850 Score: 546
Period size: 125 Copynumber: 4.4 Consensus size: 123
11262296 TTTTAACATT
* * * *
11262306 TATGAATGCTACTTTAGATAGAGGATCCACAAGTTT-AAATTTAAAATATTTTGCCTGAAAGACT
1 TATGAATG-TTCTTTAGATAGAGGCT-CACAACTTTAAAATTTAAAATATTATGCCTGAAAGACT
** * * *
11262370 TATGAATTTTTTTTCA-AAGTACTTAAAGATTATG-CCTAAAGG-TATTACAGATCTCGACACC
64 TATGAA-TTTTGCTCAGAAG-ACTTAAAGATTATGTCC-GAAGGTTA-TACAAATCTCAACACC
* *
11262431 TATGAATGTTCCTATAGATAGAGGCTTCACAACTTTAAAATTTAAAATATTATGCCTAAAAGACT
1 TATGAATGTT-CTTTAGATAGAGGC-TCACAACTTTAAAATTTAAAATATTATGCCTGAAAGACT
* * * * * * * *
11262496 TACT-AATTTTGCTCGGAGGACTTAGAGATTATGCCCGTAGGTTTTACAAATCTCGATACC
64 TA-TGAATTTTGCTCAGAAGACTTAAAGATTATGTCCGAAGGTTATACAAATCTCAACACC
* * * * * * *
11262556 TATGAATGCTTCTCTAGATAAAGGGTCAAAAACTTCAAAGTTTAAAATATTATGCCTGAAGGACT
1 TATGAATG-TTCTTTAGATAGAGGCTC-ACAACTTTAAAATTTAAAATATTATGCCTGAAAGACT
* * * * *
11262621 TATAAATTTTG-TCCGAAAGACTTAGAGATTATGTTCGAAGGTTATACAAATCTCAACACG
64 TATGAATTTTGCTCAG-AAGACTTAAAGATTATGTCCGAAGGTTATACAAATCTCAACACC
* *
11262681 TATGAATGTTCTTCTAGATAGAGACTCACAACTTTAAAATTTAAAATATTTTGCCTGAAAGACTT
1 TATGAATGTTCTT-TAGATAGAGGCTCACAACTTTAAAATTTAAAATATTATGCCTGAAAGACTT
* * *
11262746 ATGAATTTTGCTCAGATGACTTAAAGATTATGTTCGAAGATCT-TACAAATCTCAACACC
65 ATGAATTTTGCTCAGAAGACTTAAAGATTATGTCCGAAGGT-TATACAAATCTCAACACC
* ** *
11262805 TATAAATACTCATTTAGATAGAGGCTCACAACTTTAAAATTGAAAA
1 TATGAATGTTC-TTTAGATAGAGGCTCACAACTTTAAAATTTAAAA
11262851 GTTTTGACAT
Statistics
Matches: 352, Mismatches: 53, Indels: 31
0.81 0.12 0.07
Matches are distributed among these distances:
124 129 0.37
125 184 0.52
126 38 0.11
127 1 0.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (123 bp):
TATGAATGTTCTTTAGATAGAGGCTCACAACTTTAAAATTTAAAATATTATGCCTGAAAGACTTA
TGAATTTTGCTCAGAAGACTTAAAGATTATGTCCGAAGGTTATACAAATCTCAACACC
Found at i:11262794 original size:249 final size:251
Alignment explanation
Indices: 11262345--11262807 Score: 614
Period size: 249 Copynumber: 1.9 Consensus size: 251
11262335 CAAGTTTAAA
* * * *
11262345 TTTAAAATATTTTGCCTGAAAGACTTATGAATTTTTTTTCAAAGTACTTAAAGATTATGCCTAAA
1 TTTAAAATATTATGCCTGAAAGACTTATGAAATTTTGTCCAAAGTACTTAAAGATTATGCCTAAA
* * *
11262410 GGTATTACAGATCTCGACACCTATGAATGTTCCTATAGATAGAGGCTTCACAACTTTAAAATTTA
66 GGTATTACAAATCTCAACACCTATGAATGTTCCTATAGATAGAGACTTCACAACTTTAAAATTTA
* * * * *
11262475 AAATATTATGCCTAAAAGACTTACTAATTTTGCTCGGAGGACTTAGAGATTATGCCCGTAGGTTT
131 AAATATTATGCCTAAAAGACTTACTAATTTTGCTCAGAGGACTTAAAGATTATGCCCGAAGATCT
* *
11262540 TACAAATCTCGATACCTATGAATGCTTCTCTAGATAAAGGGTCAAAAACTTCAAAG
196 TACAAATCTCAACACCTATGAATGCTTCTCTAGATAAAGGGTCAAAAACTTCAAAG
* * * *
11262596 TTTAAAATATTATGCCTGAAGGACTTAT-AAATTTTGTCCGAAAG-ACTTAGAGATTATG-TTCG
1 TTTAAAATATTATGCCTGAAAGACTTATGAAATTTTGTCC-AAAGTACTTAAAGATTATGCCT-A
* * *
11262658 AAGGT-TATACAAATCTCAACACGTATGAATGTTCTTCTAGATAGAGAC-TCACAACTTTAAAAT
64 AAGGTAT-TACAAATCTCAACACCTATGAATGTTCCTATAGATAGAGACTTCACAACTTTAAAAT
* * * **
11262721 TTAAAATATTTTGCCTGAAAGACTTA-TGAATTTTGCTCAGATGACTTAAAGATTATGTTCGAAG
128 TTAAAATATTATGCCTAAAAGACTTACT-AATTTTGCTCAGAGGACTTAAAGATTATGCCCGAAG
11262785 ATCTTACAAATCTCAACACCTAT
192 ATCTTACAAATCTCAACACCTAT
11262808 AAATACTCAT
Statistics
Matches: 182, Mismatches: 26, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
248 1 0.01
249 90 0.49
250 61 0.34
251 30 0.16
ACGTcount: A:0.36, C:0.16, G:0.15, T:0.34
Consensus pattern (251 bp):
TTTAAAATATTATGCCTGAAAGACTTATGAAATTTTGTCCAAAGTACTTAAAGATTATGCCTAAA
GGTATTACAAATCTCAACACCTATGAATGTTCCTATAGATAGAGACTTCACAACTTTAAAATTTA
AAATATTATGCCTAAAAGACTTACTAATTTTGCTCAGAGGACTTAAAGATTATGCCCGAAGATCT
TACAAATCTCAACACCTATGAATGCTTCTCTAGATAAAGGGTCAAAAACTTCAAAG
Found at i:11263239 original size:33 final size:33
Alignment explanation
Indices: 11263177--11263308 Score: 106
Period size: 33 Copynumber: 4.0 Consensus size: 33
11263167 ATTAATCTGA
* * * * *
11263177 GCTTAAATCTCCTTTAGGTGCTAACTAAACTAG
1 GCTTAAATCTCATTCAAGTGCCAGCTAAACTAG
* * *
11263210 GTTTAAATCTCATTCAAGTGCCAGTTAAACTAA
1 GCTTAAATCTCATTCAAGTGCCAGCTAAACTAG
* ** * *
11263243 GCTTAAATCTCAATCTGGGTGCTAGCTAAACTGG
1 GCTTAAATCTCATTC-AAGTGCCAGCTAAACTAG
* *
11263277 GCTTAAATCTCATT-TA-TGCCAGCTAATCTAG
1 GCTTAAATCTCATTCAAGTGCCAGCTAAACTAG
11263308 G
1 G
11263309 TTTAGGTGCT
Statistics
Matches: 76, Mismatches: 22, Indels: 4
0.75 0.22 0.04
Matches are distributed among these distances:
31 13 0.17
33 38 0.50
34 25 0.33
ACGTcount: A:0.30, C:0.20, G:0.17, T:0.33
Consensus pattern (33 bp):
GCTTAAATCTCATTCAAGTGCCAGCTAAACTAG
Found at i:11263281 original size:34 final size:33
Alignment explanation
Indices: 11263177--11263288 Score: 107
Period size: 33 Copynumber: 3.4 Consensus size: 33
11263167 ATTAATCTGA
** * *
11263177 GCTTAAATCTCCTTTAGGTGCTAACTAAACTAG
1 GCTTAAATCTCAATCAGGTGCTAGCTAAACTAG
* * * * * *
11263210 GTTTAAATCTCATTCAAGTGCCAGTTAAACTAA
1 GCTTAAATCTCAATCAGGTGCTAGCTAAACTAG
* *
11263243 GCTTAAATCTCAATCTGGGTGCTAGCTAAACTGG
1 GCTTAAATCTCAATC-AGGTGCTAGCTAAACTAG
11263277 GCTTAAATCTCA
1 GCTTAAATCTCA
11263289 TTTATGCCAG
Statistics
Matches: 62, Mismatches: 16, Indels: 1
0.78 0.20 0.01
Matches are distributed among these distances:
33 38 0.61
34 24 0.39
ACGTcount: A:0.31, C:0.21, G:0.16, T:0.32
Consensus pattern (33 bp):
GCTTAAATCTCAATCAGGTGCTAGCTAAACTAG
Found at i:11263357 original size:23 final size:23
Alignment explanation
Indices: 11263314--11263357 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
11263304 CTAGGTTTAG
* *
11263314 GTGCTAGCCAATTTGGGCTTAAA
1 GTGCTAGCCAATATGGACTTAAA
*
11263337 GTGCTAGCTAATATGGACTTA
1 GTGCTAGCCAATATGGACTTA
11263358 GCACCAATTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.32
Consensus pattern (23 bp):
GTGCTAGCCAATATGGACTTAAA
Found at i:11263414 original size:32 final size:32
Alignment explanation
Indices: 11263368--11263460 Score: 100
Period size: 32 Copynumber: 2.9 Consensus size: 32
11263358 GCACCAATTA
*
11263368 ATCTAGGTGCTAGCTAAACTAGGTTTAATATG
1 ATCTAGGTGCTAGCTAAACTAGGCTTAATATG
* * * *
11263400 ATCTGGGTGCTAGCTAAATTAGGCTTAATCTA
1 ATCTAGGTGCTAGCTAAACTAGGCTTAATATG
*
11263432 AACTAGGTG-TCAGCTAAACT-GAGCTTAAT
1 ATCTAGGTGCT-AGCTAAACTAG-GCTTAAT
11263461 CTAAAATGCG
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
31 2 0.04
32 49 0.96
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.32
Consensus pattern (32 bp):
ATCTAGGTGCTAGCTAAACTAGGCTTAATATG
Found at i:11264262 original size:6 final size:5
Alignment explanation
Indices: 11264213--11264262 Score: 50
Period size: 5 Copynumber: 9.8 Consensus size: 5
11264203 AAATAGGTTA
*
11264213 AAAAT AAAAT AAAAT AAAAT CAAAAT CAAAAT -ATA- AAAAT AAAAT GAAAA
1 AAAAT AAAAT AAAAT AAAAT -AAAAT -AAAAT AAAAT AAAAT AAAAT -AAAA
11264263 AAAGAAAACC
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
4 4 0.10
5 20 0.51
6 15 0.38
ACGTcount: A:0.76, C:0.04, G:0.02, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:11264641 original size:21 final size:21
Alignment explanation
Indices: 11264615--11264662 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
11264605 AAAGTTCTTC
* *
11264615 AAAAAACCCAAAAAAATTTGG
1 AAAAAACCCAAAAAAATCTAG
**
11264636 AAAAAATTCAAAAAAATCTAG
1 AAAAAACCCAAAAAAATCTAG
11264657 AAAAAA
1 AAAAAA
11264663 AGGGAATAAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.69, C:0.10, G:0.06, T:0.15
Consensus pattern (21 bp):
AAAAAACCCAAAAAAATCTAG
Found at i:11264673 original size:3 final size:3
Alignment explanation
Indices: 11264667--11264788 Score: 118
Period size: 3 Copynumber: 40.7 Consensus size: 3
11264657 AAAAAAAGGG
* * *
11264667 AAT AAT AAC ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
* * * * * * * * * * *
11264715 AAC AAC AAC AAC AAC AAC AAC AAC AAT AAC AAC AAC AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11264763 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
11264789 AAAAACAAGT
Statistics
Matches: 111, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 111 1.00
ACGTcount: A:0.66, C:0.11, G:0.00, T:0.23
Consensus pattern (3 bp):
AAT
Found at i:11264875 original size:26 final size:26
Alignment explanation
Indices: 11264821--11264889 Score: 84
Period size: 26 Copynumber: 2.7 Consensus size: 26
11264811 CTTGGATACA
*
11264821 AATGGACCTAATTGGGCCCGAACATC
1 AATGGACCTAATTGGGCCCGAACACC
* * *
11264847 AATGGGCCTAATTGGGCCTGTACACC
1 AATGGACCTAATTGGGCCCGAACACC
* *
11264873 AATGAACCTAATCGGGC
1 AATGGACCTAATTGGGC
11264890 TTAAATAGGC
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 36 1.00
ACGTcount: A:0.29, C:0.26, G:0.25, T:0.20
Consensus pattern (26 bp):
AATGGACCTAATTGGGCCCGAACACC
Found at i:11265283 original size:89 final size:88
Alignment explanation
Indices: 11265187--11265465 Score: 281
Period size: 89 Copynumber: 3.1 Consensus size: 88
11265177 GTTGAGGTCG
* * **
11265187 AAAATAAATGATCGAGACAAAACTATGAATCATATGATTGAAACAAAACCACAAGTCAAAATAAA
1 AAAATAAATGATCGAGACGAAACCATGAATCATATGA-TGAAATGAAACCACAAGTCAAAATAAA
* * *
11265252 GCGACCATGATCAAGTCGATGTCA
65 GTGACCAAGACCAAGTCGATGTCA
* * * * ** *
11265276 AAAATAAATGATCGTGATGAAACCACGAATCATATGACCGGGATGAAACCATAAGTCAAAATAAA
1 AAAATAAATGATCGAGACGAAACCATGAATCATATGA-TGAAATGAAACCACAAGTCAAAATAAA
** *
11265341 GTGATTAAGACCGAGTCGATGTCA
65 GTGACCAAGACCAAGTCGATGTCA
* * * *
11265365 AAAATAAATGAT-TAGAACGAAACCATAAATCATATGATCATAATGAAATCACAAGTCAAAATAA
1 AAAATAAATGATCGAG-ACGAAACCATGAATCATATGATGA-AATGAAACCACAAGTCAAAATAA
** * *
11265429 AGTGACCAAGACTGAGTCAAGGTCA
64 AGTGACCAAGACCAAGTCGATGTCA
*
11265454 AAAGTAAATGAT
1 AAAATAAATGAT
11265466 TAGGACGAAA
Statistics
Matches: 153, Mismatches: 35, Indels: 4
0.80 0.18 0.02
Matches are distributed among these distances:
88 1 0.01
89 152 0.99
ACGTcount: A:0.48, C:0.15, G:0.16, T:0.20
Consensus pattern (88 bp):
AAAATAAATGATCGAGACGAAACCATGAATCATATGATGAAATGAAACCACAAGTCAAAATAAAG
TGACCAAGACCAAGTCGATGTCA
Found at i:11265583 original size:102 final size:102
Alignment explanation
Indices: 11265407--11265590 Score: 278
Period size: 102 Copynumber: 1.8 Consensus size: 102
11265397 TATGATCATA
* * * * *
11265407 ATGAAATCACAAGTCAAAATAAAGTGACCAAGACTGAGTCAAGGTCAAAAGTAAATGATTAGGAC
1 ATGAAATCACAAGTCAAAATAAAGTGACCAAGACCGAGTCAAGATAAAAAATAAATGATCAGGAC
11265472 GAAAGCACAAATCATAAGCTAAGATCAAGTAATTGGG
66 GAAAGCACAAATCATAAGCTAAGATCAAGTAATTGGG
* * *
11265509 ATGAAATCACAAGTCAAAATAAAGTGACCAAGACCGAGTCGAGATAAAAAATAATTGATCGGGAC
1 ATGAAATCACAAGTCAAAATAAAGTGACCAAGACCGAGTCAAGATAAAAAATAAATGATCAGGAC
* *
11265574 GGAAGCACAAATTATAA
66 GAAAGCACAAATCATAA
11265591 AAAATGATCT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
102 72 1.00
ACGTcount: A:0.48, C:0.14, G:0.20, T:0.18
Consensus pattern (102 bp):
ATGAAATCACAAGTCAAAATAAAGTGACCAAGACCGAGTCAAGATAAAAAATAAATGATCAGGAC
GAAAGCACAAATCATAAGCTAAGATCAAGTAATTGGG
Found at i:11265723 original size:119 final size:119
Alignment explanation
Indices: 11265492--11265739 Score: 298
Period size: 119 Copynumber: 2.1 Consensus size: 119
11265482 ATCATAAGCT
* * * *
11265492 AAGATCAAGTAATTGGGATGAAATCACAAGTCAAAATAAAGTGACCAAGACCGAGTCGAGATAAA
1 AAGATCAAGTAATCGAGATGAAACCACAAGTCAAAATAAAGTGACCAAGACCGACTCGAGATAAA
* * ** * *
11265557 AAATAATTGATCGGGACGGAAGCACAAATTATAAAAAATGATCTGGACTGACCC
66 AAATAAATGATCGGGACGGAACCACAAACCATAAAAAATAATCTGGACTAACCC
** * * * *
11265611 AAGATCAAGTAATCGAGATGAAACCATGAGTCAAAATAAAGTGACCAAGACTGACTTGAGGTTAA
1 AAGATCAAGTAATCGAGATGAAACCACAAGTCAAAATAAAGTGACCAAGACCGACTCGAGATAAA
* * * * * *
11265676 AAATAAATGATCGGGATGGAACCACGAACCATTAGAAATAATTTGGACTAAGCC
66 AAATAAATGATCGGGACGGAACCACAAACCATAAAAAATAATCTGGACTAACCC
11265730 AAGATCAAGT
1 AAGATCAAGT
11265740 GAGTGGATAA
Statistics
Matches: 107, Mismatches: 22, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
119 107 1.00
ACGTcount: A:0.45, C:0.15, G:0.21, T:0.19
Consensus pattern (119 bp):
AAGATCAAGTAATCGAGATGAAACCACAAGTCAAAATAAAGTGACCAAGACCGACTCGAGATAAA
AAATAAATGATCGGGACGGAACCACAAACCATAAAAAATAATCTGGACTAACCC
Found at i:11274306 original size:29 final size:30
Alignment explanation
Indices: 11274264--11274321 Score: 91
Period size: 29 Copynumber: 2.0 Consensus size: 30
11274254 AATTAATATA
11274264 TTTATACTACAATTAATTATATAAAATAAT
1 TTTATACTACAATTAATTATATAAAATAAT
* *
11274294 TTTATA-TATAATTAATTATATATAATAA
1 TTTATACTACAATTAATTATATAAAATAA
11274322 ATAGTTACAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
29 20 0.77
30 6 0.23
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (30 bp):
TTTATACTACAATTAATTATATAAAATAAT
Found at i:11274314 original size:14 final size:14
Alignment explanation
Indices: 11274274--11274319 Score: 58
Period size: 14 Copynumber: 3.2 Consensus size: 14
11274264 TTTATACTAC
11274274 AATTAATTATATA-
1 AATTAATTATATAT
*
11274287 AAATAATTTTATATAT
1 AATTAA--TTATATAT
11274303 AATTAATTATATAT
1 AATTAATTATATAT
11274317 AAT
1 AAT
11274320 AAATAGTTAC
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
13 5 0.18
14 11 0.39
15 7 0.25
16 5 0.18
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTAATTATATAT
Found at i:11281458 original size:69 final size:69
Alignment explanation
Indices: 11281382--11281515 Score: 241
Period size: 69 Copynumber: 1.9 Consensus size: 69
11281372 CATCTTTTGA
*
11281382 ATTTTTTGGAGATTGGTGATACATTTAAACATAATGGTGTTATTAAGGATGACAAAGCTTAGATT
1 ATTTTTTGGAGATTGGTGATACATTTAAACATAATGGTGTTACTAAGGATGACAAAGCTTAGATT
11281447 TTAG
66 TTAG
* *
11281451 ATTTTTTGGAGATTGGTGATACATTTAAACATAATGGTGTTACTGAGGATGCCAAAGCTTAGATT
1 ATTTTTTGGAGATTGGTGATACATTTAAACATAATGGTGTTACTAAGGATGACAAAGCTTAGATT
11281516 ATTTCCATTT
Statistics
Matches: 62, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
69 62 1.00
ACGTcount: A:0.32, C:0.07, G:0.22, T:0.38
Consensus pattern (69 bp):
ATTTTTTGGAGATTGGTGATACATTTAAACATAATGGTGTTACTAAGGATGACAAAGCTTAGATT
TTAG
Found at i:11283860 original size:16 final size:16
Alignment explanation
Indices: 11283839--11283871 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
11283829 GCACATGTTT
11283839 ATTTTTGAAGTCAATC
1 ATTTTTGAAGTCAATC
11283855 ATTTTTGAAGTCAATC
1 ATTTTTGAAGTCAATC
11283871 A
1 A
11283872 CTGTCAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (16 bp):
ATTTTTGAAGTCAATC
Found at i:11288031 original size:27 final size:24
Alignment explanation
Indices: 11287996--11288050 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 24
11287986 TTAAAAATTT
11287996 TAAATAAA-TTTATTAATTTAATATAA
1 TAAATAAATTTTA-TAA-TT-ATATAA
11288022 TAAATAAAATTTTATAATTATATAA
1 TAAAT-AAATTTTATAATTATATAA
11288047 TAAA
1 TAAA
11288051 CTAATTGATA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
25 10 0.37
26 7 0.26
27 6 0.22
28 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (24 bp):
TAAATAAATTTTATAATTATATAA
Found at i:11289953 original size:11 final size:11
Alignment explanation
Indices: 11289934--11289977 Score: 56
Period size: 11 Copynumber: 4.1 Consensus size: 11
11289924 AATTATAATT
11289934 TAAAA-TTATA
1 TAAAATTTATA
11289944 TAAAATTTATA
1 TAAAATTTATA
11289955 -AAATATTTATA
1 TAAA-ATTTATA
*
11289966 CAAAATTTATA
1 TAAAATTTATA
11289977 T
1 T
11289978 TTATAAGTGA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
10 8 0.27
11 19 0.63
12 3 0.10
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (11 bp):
TAAAATTTATA
Found at i:11290033 original size:22 final size:23
Alignment explanation
Indices: 11290008--11290052 Score: 65
Period size: 22 Copynumber: 2.0 Consensus size: 23
11289998 TATGATTTTT
* *
11290008 TATTATAATTAAATAA-TTATAA
1 TATTATAATAAAAAAACTTATAA
11290030 TATTATAATAAAAAAACTTATAA
1 TATTATAATAAAAAAACTTATAA
11290053 GTGATATAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (23 bp):
TATTATAATAAAAAAACTTATAA
Found at i:11290439 original size:25 final size:25
Alignment explanation
Indices: 11290391--11290439 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
11290381 CAATGTTTAA
* *
11290391 TATGACATTTTCTTCTACTTAATTT
1 TATGACATTTTCGTCTACTAAATTT
11290416 TATGACATTTTCGTC-ACATAAATT
1 TATGACATTTTCGTCTAC-TAAATT
11290440 AATTATTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 2 0.10
25 19 0.90
ACGTcount: A:0.29, C:0.16, G:0.06, T:0.49
Consensus pattern (25 bp):
TATGACATTTTCGTCTACTAAATTT
Found at i:11291659 original size:20 final size:20
Alignment explanation
Indices: 11291626--11291673 Score: 62
Period size: 19 Copynumber: 2.4 Consensus size: 20
11291616 AATATAAAAA
* *
11291626 TTATAAAATATATATTTATTT
1 TTATTAAATATATATATA-TT
11291647 TTATTAAAT-TATATATATT
1 TTATTAAATATATATATATT
11291666 TTATTAAA
1 TTATTAAA
11291674 ATTTTAATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 10 0.40
20 7 0.28
21 8 0.32
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TTATTAAATATATATATATT
Found at i:11291675 original size:20 final size:21
Alignment explanation
Indices: 11291629--11291687 Score: 65
Period size: 20 Copynumber: 3.0 Consensus size: 21
11291619 ATAAAAATTA
*
11291629 TAAAATATATATTTATTTTTAT
1 TAAAAT-TATATATATTTTTAT
11291651 T-AAATTATATATA-TTTTAT
1 TAAAATTATATATATTTTTAT
11291670 TAAAATT-T-TA-ATTTTTAT
1 TAAAATTATATATATTTTTAT
11291688 ATTATTTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
17 1 0.03
18 8 0.24
19 8 0.24
20 12 0.35
21 4 0.12
22 1 0.03
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (21 bp):
TAAAATTATATATATTTTTAT
Found at i:11293574 original size:7 final size:7
Alignment explanation
Indices: 11293562--11293590 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
11293552 CTTGTGAAAA
11293562 TTTATAT
1 TTTATAT
11293569 TTTATAT
1 TTTATAT
11293576 TTTATAT
1 TTTATAT
11293583 TTTA-AT
1 TTTATAT
11293589 TT
1 TT
11293591 AATTTAACTT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 4 0.18
7 18 0.82
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTTATAT
Found at i:11295811 original size:9 final size:9
Alignment explanation
Indices: 11295796--11295836 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
11295786 GGTTTTTCAA
11295796 ATTTTTTTT
1 ATTTTTTTT
11295805 -TTCTTTTTT
1 ATT-TTTTTT
11295814 -TTTGTTTTT
1 ATTT-TTTTT
11295823 ATTTTTTTT
1 ATTTTTTTT
11295832 ATTTT
1 ATTTT
11295837 AGATTTTTTT
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
8 3 0.10
9 23 0.79
10 3 0.10
ACGTcount: A:0.07, C:0.02, G:0.02, T:0.88
Consensus pattern (9 bp):
ATTTTTTTT
Found at i:11295821 original size:16 final size:15
Alignment explanation
Indices: 11295797--11295872 Score: 62
Period size: 16 Copynumber: 4.7 Consensus size: 15
11295787 GTTTTTCAAA
*
11295797 TTTTTTTTTTCTTTT
1 TTTTTTTTTTATTTT
11295812 TTTTTGTTTTTATTTT
1 TTTTT-TTTTTATTTT
**
11295828 TTTTATTTTAGATTTT
1 TTTT-TTTTTTATTTT
*
11295844 TTTTTGGATTTTTGGTTTT
1 TTTTT---TTTTT-ATTTT
11295863 TTTTTTTTTT
1 TTTTTTTTTT
11295873 TGGAAAACTC
Statistics
Matches: 49, Mismatches: 6, Indels: 11
0.74 0.09 0.17
Matches are distributed among these distances:
15 6 0.12
16 30 0.61
17 1 0.02
18 3 0.06
19 9 0.18
ACGTcount: A:0.07, C:0.01, G:0.08, T:0.84
Consensus pattern (15 bp):
TTTTTTTTTTATTTT
Found at i:11295856 original size:34 final size:33
Alignment explanation
Indices: 11295808--11295871 Score: 85
Period size: 35 Copynumber: 1.9 Consensus size: 33
11295798 TTTTTTTTTC
11295808 TTTTTTTTTGTTTTT-ATTTTTTTTATTTTAGA
1 TTTTTTTTTGTTTTTGATTTTTTTTATTTTAGA
* *
11295840 TTTTTTTTTGGATTTTTGGTTTTTTTTTTTTT
1 TTTTTTTTT-G-TTTTTGATTTTTTTTATTTT
11295872 TTGGAAAACT
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
32 9 0.33
33 1 0.04
34 5 0.19
35 12 0.44
ACGTcount: A:0.08, C:0.00, G:0.09, T:0.83
Consensus pattern (33 bp):
TTTTTTTTTGTTTTTGATTTTTTTTATTTTAGA
Found at i:11295937 original size:30 final size:30
Alignment explanation
Indices: 11295900--11295959 Score: 84
Period size: 31 Copynumber: 2.0 Consensus size: 30
11295890 TAAAGGCTTA
* *
11295900 ATAAATTTTGGAAATAAATTTTAAAAACTCG
1 ATAATTTTTGAAAATAAA-TTTAAAAACTCG
*
11295931 ATAATTTTTTAAAATAAATTTAAAAACTC
1 ATAATTTTTGAAAATAAATTTAAAAACTC
11295960 TTTTAAGCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 11 0.42
31 15 0.58
ACGTcount: A:0.50, C:0.07, G:0.05, T:0.38
Consensus pattern (30 bp):
ATAATTTTTGAAAATAAATTTAAAAACTCG
Found at i:11295991 original size:46 final size:46
Alignment explanation
Indices: 11295922--11296199 Score: 265
Period size: 46 Copynumber: 6.0 Consensus size: 46
11295912 AATAAATTTT
* * * *
11295922 AAAAACTCGATAATTTTTTAAAATAAATTTAAAAACTCTTTTAAGC
1 AAAAGCTCCATAACTTTTAAAAATAAATTTAAAAACTCTTTTAAGC
* * *
11295968 AAAAGCTCGATAACTTTTAAAAATAAATTTAAAAGCTTTTTTAAG-
1 AAAAGCTCCATAACTTTTAAAAATAAATTTAAAAACTCTTTTAAGC
** * * *
11296013 AAAAGGCTCCATAACTTCCAAAAATGAATTTAAAAA-TGCCTTTAAAC
1 AAAA-GCTCCATAACTTTTAAAAATAAATTTAAAAACT-CTTTTAAGC
* * * * *
11296060 GAAAA-CCCCACAAATTTTAAAAATAAATTTAAAAGCTCATTTAAGC
1 -AAAAGCTCCATAACTTTTAAAAATAAATTTAAAAACTCTTTTAAGC
*
11296106 AAAAGCTCCATAACTTTTTCAAAATAAATTTAAAAACTCTTTTAAGC
1 AAAAGCTCCATAAC-TTTTAAAAATAAATTTAAAAACTCTTTTAAGC
* * * * *
11296153 AAAGGCTCTACAATTGTTTTGAAAATAAATTTAAAAACTCCTTTTAA
1 AAAAGCTCCATAA--CTTTTAAAAATAAATTTAAAAACT-CTTTTAA
11296200 AAAAAAGGCT
Statistics
Matches: 189, Mismatches: 33, Indels: 17
0.79 0.14 0.07
Matches are distributed among these distances:
45 9 0.05
46 107 0.57
47 40 0.21
48 26 0.14
49 7 0.04
ACGTcount: A:0.46, C:0.14, G:0.07, T:0.32
Consensus pattern (46 bp):
AAAAGCTCCATAACTTTTAAAAATAAATTTAAAAACTCTTTTAAGC
Found at i:11296594 original size:125 final size:124
Alignment explanation
Indices: 11296309--11296854 Score: 575
Period size: 125 Copynumber: 4.4 Consensus size: 124
11296299 TCTTAATATT
* * * * *
11296309 TATGAATGCTACTTTAGATAGAGGATCCACAAGTTTAAAATTTAAAATATTTTGCCTGAAAGACT
1 TATGAATGCTTCTCTAGATAGAGGCT-CACAACTTTAAAATTTAAAATATTATGCCTGAAAGACT
* * * *
11296374 TATGAATTTTTTTTC-AAAGTACTTAAATATTATGC-CTAAAGGTCTTACAAATCTCGACACC
65 TATGAA-TTTTGTTCGAAAG-ACTTAAAGATTATGCTC-GAAGGTCTTACAAATCTCAACACC
* *
11296435 TATGAATG-TTCCTATAGATAGAGGCTTCACAACTTTAAAATTTAAAATATTATGCCTAAAAGAC
1 TATGAATGCTT-CTCTAGATAGAGGC-TCACAACTTTAAAATTTAAAATATTATGCCTGAAAGAC
* * * * * *
11296499 TTACT-AATTTTGCTCGGAAGACTTAGAGATTATGCTCGTAGGTCTTACAAATCTCGATACC
64 TTA-TGAATTTTGTTCGAAAGACTTAAAGATTATGCTCGAAGGTCTTACAAATCTCAACACC
* * * * *
11296560 TATGAATGCTTCTCTAGATAAAGGTTCAAAAACTTTAAAGTTTAAAATATTATGCCTGAAGGACT
1 TATGAATGCTTCTCTAGATAGAGGCTC-ACAACTTTAAAATTTAAAATATTATGCCTGAAAGACT
* * * * * *
11296625 TATGAATTTTGTTCGAAAGACTTAGAGATTTTGTTCGAAGGTTTTATAAATCTCAACACG
65 TATGAATTTTGTTCGAAAGACTTAAAGATTATGCTCGAAGGTCTTACAAATCTCAACACC
* * * * *
11296685 TATGAAT-ATTCTTCTAGATAGAGACTCACGACTTTAAAATTTAAAATATTTTGTCTGAAAGACT
1 TATGAATGCTTC-TCTAGATAGAGGCTCACAACTTTAAAATTTAAAATATTATGCCTGAAAGACT
* * * * *
11296749 TATGAATTTTGTTC-AGATGATTTAAAGATTATGTTCGAAGATCTTACAAATCTTAACACC
65 TATGAATTTTGTTCGA-AAGACTTAAAGATTATGCTCGAAGGTCTTACAAATCTCAACACC
* * *
11296809 TATAAATGC-TCATTTAGATAGAGGCTCACAACTTTAAAATTGAAAA
1 TATGAATGCTTC-TCTAGATAGAGGCTCACAACTTTAAAATTTAAAA
11296855 GTTTCGACAT
Statistics
Matches: 352, Mismatches: 57, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
123 1 0.00
124 124 0.35
125 160 0.45
126 65 0.18
127 2 0.01
ACGTcount: A:0.36, C:0.14, G:0.14, T:0.35
Consensus pattern (124 bp):
TATGAATGCTTCTCTAGATAGAGGCTCACAACTTTAAAATTTAAAATATTATGCCTGAAAGACTT
ATGAATTTTGTTCGAAAGACTTAAAGATTATGCTCGAAGGTCTTACAAATCTCAACACC
Found at i:11296655 original size:22 final size:22
Alignment explanation
Indices: 11296621--11296663 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
11296611 ATGCCTGAAG
11296621 GACTTATGAATTTTGTTCGAAA
1 GACTTATGAATTTTGTTCGAAA
11296643 GACTTA-GAGATTTTGTTCGAA
1 GACTTATGA-ATTTTGTTCGAA
11296664 GGTTTTATAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 2 0.10
22 18 0.90
ACGTcount: A:0.30, C:0.09, G:0.21, T:0.40
Consensus pattern (22 bp):
GACTTATGAATTTTGTTCGAAA
Found at i:11297072 original size:50 final size:50
Alignment explanation
Indices: 11296993--11297087 Score: 136
Period size: 50 Copynumber: 1.9 Consensus size: 50
11296983 AATCTTATCC
*
11296993 TTGAAAAGCTCATCCTAAACAGAGACTTTGAAACTTTAAACATCTCGTCT
1 TTGAAAAGCTCATCCTAAACAAAGACTTTGAAACTTTAAACATCTCGTCT
* * * * *
11297043 TTGAAAAGCTCCTCTTAAATAAAGGCTTTGAAACTTTAAATATCT
1 TTGAAAAGCTCATCCTAAACAAAGACTTTGAAACTTTAAACATCT
11297088 TGAAATATGA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 39 1.00
ACGTcount: A:0.37, C:0.19, G:0.12, T:0.33
Consensus pattern (50 bp):
TTGAAAAGCTCATCCTAAACAAAGACTTTGAAACTTTAAACATCTCGTCT
Found at i:11297221 original size:33 final size:33
Alignment explanation
Indices: 11297182--11297296 Score: 149
Period size: 33 Copynumber: 3.5 Consensus size: 33
11297172 ATTAATCTGA
* *
11297182 GCTTAAATCTCCTTTAGGTGCTAACTAAACTAG
1 GCTTAAATCTCATTTAGGTGCTAGCTAAACTAG
* * * *
11297215 GTTTAAATCTCATTCAAGTGCCAGCTAAACTAG
1 GCTTAAATCTCATTTAGGTGCTAGCTAAACTAG
* *
11297248 GCTTAAATCTCAATCTAGGTGCTAGCTAAACTGG
1 GCTTAAATCTC-ATTTAGGTGCTAGCTAAACTAG
11297282 GCTTAAATCTCATTT
1 GCTTAAATCTCATTT
11297297 GTGCCAGTTA
Statistics
Matches: 68, Mismatches: 13, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
33 40 0.59
34 28 0.41
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (33 bp):
GCTTAAATCTCATTTAGGTGCTAGCTAAACTAG
Found at i:11297361 original size:23 final size:23
Alignment explanation
Indices: 11297317--11297362 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11297307 ATCTAGGTTT
*
11297317 AAGTGCTAGCCAATTTGAGCTTA
1 AAGTGCTAGCCAATATGAGCTTA
* *
11297340 AAGTGCTAGCTAATATGGGCTTA
1 AAGTGCTAGCCAATATGAGCTTA
11297363 GCACCAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.30, C:0.15, G:0.24, T:0.30
Consensus pattern (23 bp):
AAGTGCTAGCCAATATGAGCTTA
Found at i:11297433 original size:32 final size:32
Alignment explanation
Indices: 11297373--11297465 Score: 93
Period size: 32 Copynumber: 2.9 Consensus size: 32
11297363 GCACCAATTA
*
11297373 ATCTAGGTGCTAGCTAAACTTGGTTTAATATG
1 ATCTAGGTGCTAGCTAAACTTGGCTTAATATG
* * *
11297405 ATCTGGGTGCTAGCTAAA-TTAGGCTTAATCTA
1 ATCTAGGTGCTAGCTAAACTT-GGCTTAATATG
*
11297437 AACTAGGTG-TCAGCTAAAC-TGAGCTTAAT
1 ATCTAGGTGCT-AGCTAAACTTG-GCTTAAT
11297466 CTAAAATGCG
Statistics
Matches: 51, Mismatches: 6, Indels: 8
0.78 0.09 0.12
Matches are distributed among these distances:
31 4 0.08
32 47 0.92
ACGTcount: A:0.30, C:0.15, G:0.22, T:0.33
Consensus pattern (32 bp):
ATCTAGGTGCTAGCTAAACTTGGCTTAATATG
Found at i:11298269 original size:19 final size:20
Alignment explanation
Indices: 11298228--11298270 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 20
11298218 AAAATAAAAT
* *
11298228 AAAATCAAAATCAAAATATA
1 AAAATCAAAATCAAAAAAGA
*
11298248 AAAAT-AAAATGAAAAAAGA
1 AAAATCAAAATCAAAAAAGA
11298267 AAAA
1 AAAA
11298271 CCTATGATCG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 15 0.75
20 5 0.25
ACGTcount: A:0.77, C:0.05, G:0.05, T:0.14
Consensus pattern (20 bp):
AAAATCAAAATCAAAAAAGA
Found at i:11298671 original size:3 final size:3
Alignment explanation
Indices: 11298665--11298776 Score: 199
Period size: 3 Copynumber: 37.7 Consensus size: 3
11298655 AAAAAAAGGG
* *
11298665 AAT AAT AAC ATT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11298713 AAT AAT AAT AAT -AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11298760 AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AA
11298777 ACAAGCTATC
Statistics
Matches: 104, Mismatches: 4, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
2 2 0.02
3 102 0.98
ACGTcount: A:0.66, C:0.01, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:11299468 original size:88 final size:89
Alignment explanation
Indices: 11299199--11299471 Score: 284
Period size: 89 Copynumber: 3.1 Consensus size: 89
11299189 CAAAACTATG
* * * * *
11299199 AATCATATGATTGGAAC-AAGACCACAAGTCAAAATAGAGCGACCATGA-TCGAGTCGATGTCAA
1 AATCATATGACTAGAACGAA-ACCACAAGTCAAAATAAAGTGACCAAGACT-GAGTCGATGTCAA
*
11299262 AAATAAATGATTGTGATGAAACCACA
64 AAATAAATGATTGGGATGAAACCACA
* * * * **
11299288 AATCATATGACTGGGACGAAACCACAAGTCAAAATAAAATGACTAAGACCAAGTCGATGTCAAAA
1 AATCATATGACTAGAACGAAACCACAAGTCAAAATAAAGTGACCAAGACTGAGTCGATGTCAAAA
* * *
11299353 ATAAATGATTAGAATGAAACCATA
66 ATAAATGATTGGGATGAAACCACA
* * * *
11299377 AATCATAT-A-TCAGAATGAAATCACAAGTCAAAATAAAGTGACCAAGACTGAGTCAAGGTCAAA
1 AATCATATGACT-AGAACGAAACCACAAGTCAAAATAAAGTGACCAAGACTGAGTCGATGTCAAA
* * * *
11299440 AGTAAATGATTGGGACGGAAGCACA
65 AATAAATGATTGGGATGAAACCACA
11299465 AATCATA
1 AATCATA
11299472 AGAAATGATC
Statistics
Matches: 151, Mismatches: 30, Indels: 7
0.80 0.16 0.04
Matches are distributed among these distances:
87 1 0.01
88 68 0.45
89 80 0.53
90 2 0.01
ACGTcount: A:0.47, C:0.16, G:0.18, T:0.19
Consensus pattern (89 bp):
AATCATATGACTAGAACGAAACCACAAGTCAAAATAAAGTGACCAAGACTGAGTCGATGTCAAAA
ATAAATGATTGGGATGAAACCACA
Found at i:11299526 original size:119 final size:119
Alignment explanation
Indices: 11299385--11299740 Score: 408
Period size: 119 Copynumber: 3.0 Consensus size: 119
11299375 TAAATCATAT
* * *
11299385 ATCAGAATGAAATCACAAGTCAAAATAAAGTGACCAAGACTGAGTCAAGGTCAAAAGTAAATGAT
1 ATCAGAATGAAATCACAAGTCAAAATAAAGTGACCAAGACTGAGTCGAGGTAAAAAATAAATGAT
* * *
11299450 TGGGACGGAAGCACAAATCATAAGAAATGATCTGGACTAAGCTAAAATCAAGTA
66 CGGGACGGAAGCACAAATCATAAGAAATGATCTGGACTAACCCAAAATCAAGTA
** * * *
11299504 ATTGGGATGAAATCACAAGTCAAAATAAAGTGACCAAGACCGAGTCGAGGTAAAAAATAATTGAT
1 ATCAGAATGAAATCACAAGTCAAAATAAAGTGACCAAGACTGAGTCGAGGTAAAAAATAAATGAT
* * * * * *
11299569 CGGGACGGAAGCATAAATTATAAAAAATGATTTGGACTGACCCAAGATCAAGTA
66 CGGGACGGAAGCACAAATCATAAGAAATGATCTGGACTAACCCAAAATCAAGTA
* ** * *
11299623 ATCAGAATGAAACCATGAGTCAAAATAAAATGACCAA-AATCGAGTCGAGGTAAAAAATAAATGA
1 ATCAGAATGAAATCACAAGTCAAAATAAAGTGACCAAGACT-GAGTCGAGGTAAAAAATAAATGA
* * * * * * * * * *
11299687 TCGGGATGAAACCACGAACCATAAGAAATAATTTAGACTAAACCAAGATCAAGT
65 TCGGGACGGAAGCACAAATCATAAGAAATGATCTGGACTAACCCAAAATCAAGT
11299741 GAGTGGATAA
Statistics
Matches: 197, Mismatches: 39, Indels: 2
0.83 0.16 0.01
Matches are distributed among these distances:
118 1 0.01
119 196 0.99
ACGTcount: A:0.47, C:0.14, G:0.20, T:0.19
Consensus pattern (119 bp):
ATCAGAATGAAATCACAAGTCAAAATAAAGTGACCAAGACTGAGTCGAGGTAAAAAATAAATGAT
CGGGACGGAAGCACAAATCATAAGAAATGATCTGGACTAACCCAAAATCAAGTA
Found at i:11300323 original size:41 final size:42
Alignment explanation
Indices: 11300249--11300461 Score: 188
Period size: 41 Copynumber: 5.1 Consensus size: 42
11300239 AACCAATGCC
11300249 TTTACTTTGTTGTGAATCCAAAGCCTTTC-AACTGTGAATCA
1 TTTACTTTGTTGTGAATCCAAAGCCTTTCAAACTGTGAATCA
* * *
11300290 TTTATTTTGTTGTGAATCCAGAG-CTTTCAAACTGTGAATCG
1 TTTACTTTGTTGTGAATCCAAAGCCTTTCAAACTGTGAATCA
* * *
11300331 TTTACTCTGTTGTGAATCCAAAGCCTTT-AAACTATAAATCGA
1 TTTACTTTGTTGTGAATCCAAAGCCTTTCAAACTGTGAATC-A
*** * * **
11300373 -TTACTTAACTATAAATTTAAAGTCC--TCAAAACTGTGAATCA
1 TTTACTTTGTTGTGAATCCAAAG-CCTTTC-AAACTGTGAATCA
* * * *
11300414 TTTACTATGTTGTGAATCCAAAG-TTTTCAAAGCTATAAATCA
1 TTTACTTTGTTGTGAATCCAAAGCCTTTCAAA-CTGTGAATCA
11300456 TTTACT
1 TTTACT
11300462 CTACTATAAA
Statistics
Matches: 132, Mismatches: 30, Indels: 19
0.73 0.17 0.10
Matches are distributed among these distances:
40 6 0.05
41 80 0.61
42 46 0.35
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.38
Consensus pattern (42 bp):
TTTACTTTGTTGTGAATCCAAAGCCTTTCAAACTGTGAATCA
Found at i:11300428 original size:83 final size:84
Alignment explanation
Indices: 11300318--11300472 Score: 228
Period size: 83 Copynumber: 1.9 Consensus size: 84
11300308 CAGAGCTTTC
* *
11300318 AAACTGTGAATCGTTTACTCTGTTGTGAATCCAAAGCCTTT-AAA-CTATAAATCGA-TTACT-T
1 AAACTGTGAATCATTTACTATGTTGTGAATCCAAAG-CTTTCAAAGCTATAAATC-ATTTACTCT
11300379 AACTATAAATTTAAAGTCCTCA
64 -ACTATAAATTTAAAGTCCTCA
*
11300401 AAACTGTGAATCATTTACTATGTTGTGAATCCAAAGTTTTCAAAGCTATAAATCATTTACTCTAC
1 AAACTGTGAATCATTTACTATGTTGTGAATCCAAAGCTTTCAAAGCTATAAATCATTTACTCTAC
11300466 TATAAAT
66 TATAAAT
11300473 CCTGAGTTCT
Statistics
Matches: 65, Mismatches: 3, Indels: 7
0.87 0.04 0.09
Matches are distributed among these distances:
82 3 0.05
83 38 0.58
84 23 0.35
85 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.10, T:0.36
Consensus pattern (84 bp):
AAACTGTGAATCATTTACTATGTTGTGAATCCAAAGCTTTCAAAGCTATAAATCATTTACTCTAC
TATAAATTTAAAGTCCTCA
Found at i:11300495 original size:84 final size:82
Alignment explanation
Indices: 11300315--11300501 Score: 220
Period size: 84 Copynumber: 2.2 Consensus size: 82
11300305 ATCCAGAGCT
* *
11300315 TTCAAACTGTGAATCGTTTACTCTGTTGTGAATCCAAAGCCTTTAAACTATAAATCGATTACTTA
1 TTCAAACTGTGAATCATTTACTATGTTGTGAATCCAAAGCCTTTAAACTATAAATCGATTACTTA
*
11300380 ACTATAAATTTAAAGTC
66 ACTATAAATCTAAAGTC
* *
11300397 CTCAAAACTGTGAATCATTTACTATGTTGTGAATCCAAAG-TTTTCAAAGCTATAAATC-ATTTA
1 TTC-AAACTGTGAATCATTTACTATGTTGTGAATCCAAAGCCTTT-AAA-CTATAAATCGA-TTA
*
11300460 CTCT-ACTATAAATCCT-GAGTTC
62 CT-TAACTATAAAT-CTAAAG-TC
*
11300482 TTCAAACTATGAATCATTTA
1 TTCAAACTGTGAATCATTTA
11300502 GTTTGGTATG
Statistics
Matches: 90, Mismatches: 8, Indels: 12
0.82 0.07 0.11
Matches are distributed among these distances:
82 5 0.06
83 38 0.42
84 41 0.46
85 6 0.07
ACGTcount: A:0.35, C:0.18, G:0.10, T:0.37
Consensus pattern (82 bp):
TTCAAACTGTGAATCATTTACTATGTTGTGAATCCAAAGCCTTTAAACTATAAATCGATTACTTA
ACTATAAATCTAAAGTC
Found at i:11300522 original size:42 final size:42
Alignment explanation
Indices: 11300401--11300562 Score: 111
Period size: 42 Copynumber: 3.9 Consensus size: 42
11300391 AAAGTCCTCA
* * * * *
11300401 AAACTGTGAATCATTTACTATGTTGTGAATCCAAAGTT-TTC
1 AAACTATGAATCATTTACTATGCTATGAATCTAGAGTTCTTC
* * * *
11300442 AAAGCTATAAATCATTTACTCTACTATAAATCCT-GAGTTCTTC
1 AAA-CTATGAATCATTTACTATGCTATGAAT-CTAGAGTTCTTC
* * *
11300485 AAACTATGAATCATTTAGTTTGGTATGAATCTAGAGTTC-TC
1 AAACTATGAATCATTTACTATGCTATGAATCTAGAGTTCTTC
* *
11300526 TAAACTAT-AATTCGTTTGTCTAT--TATGAATCTAGAGT
1 -AAACTATGAA-TCATTT-ACTATGCTATGAATCTAGAGT
11300563 CTTTCGATTT
Statistics
Matches: 95, Mismatches: 19, Indels: 14
0.74 0.15 0.11
Matches are distributed among these distances:
41 23 0.24
42 63 0.66
43 9 0.09
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.40
Consensus pattern (42 bp):
AAACTATGAATCATTTACTATGCTATGAATCTAGAGTTCTTC
Found at i:11300777 original size:47 final size:45
Alignment explanation
Indices: 11300635--11300798 Score: 130
Period size: 47 Copynumber: 3.5 Consensus size: 45
11300625 AAAAGAAACT
* **
11300635 TTTTTAAAGTTGTTGAGCCTTTGTGCAGAAGCTTTTCTAGTTTTAGA
1 TTTTTAAAGTTGTCGAGCCTTTGACCA-AAGCTTTTCTAG-TTTAGA
* * * * * * **
11300682 TTTTCAAAATTGTCAAGCCTTTATACCAAAACTTTTACAAAATTAGA
1 TTTTTAAAGTTGTCGAGCCTTT-GACCAAAGCTTTT-CTAGTTTAGA
*
11300729 TTTTTGAAGTTGTCGAGCCTTTGCACCAAAGCTTTTCTAGTTTAAGA
1 TTTTTAAAGTTGTCGAGCCTTTG-ACCAAAGCTTTTCTAGTTT-AGA
* * *
11300776 TTTTTTAAAATTATTGAGCCTTT
1 -TTTTTAAAGTTGTCGAGCCTTT
11300799 ACTTAAAAGA
Statistics
Matches: 88, Mismatches: 24, Indels: 9
0.73 0.20 0.07
Matches are distributed among these distances:
46 4 0.05
47 62 0.70
48 22 0.25
ACGTcount: A:0.28, C:0.14, G:0.15, T:0.43
Consensus pattern (45 bp):
TTTTTAAAGTTGTCGAGCCTTTGACCAAAGCTTTTCTAGTTTAGA
Found at i:11300899 original size:46 final size:46
Alignment explanation
Indices: 11300831--11301007 Score: 205
Period size: 46 Copynumber: 3.8 Consensus size: 46
11300821 GAGTTTTTTT
* * *
11300831 AAAGTTGTTGAGCCTTTACTTAAAGGAGCTTTTACATTTATTATCA
1 AAAGTTATTGAGCTTTTGCTTAAAGGAGCTTTTACATTTATTATCA
* *
11300877 AAAGTTGTTGAGCTTTTGCTTAAAGGAACTTTTACATTTATTATCA
1 AAAGTTATTGAGCTTTTGCTTAAAGGAGCTTTTACATTTATTATCA
** * * *
11300923 AAAGTTACCGA-ATCTTTGCTTAAAAGAGCTTTTACATTTATTTTCA
1 AAAGTTATTGAGCT-TTTGCTTAAAGGAGCTTTTACATTTATTATCA
* * *
11300969 AAAGTCATTGATGC-TTTGTTTAAATGAGCTTTTACATTT
1 AAAGTTATTGA-GCTTTTGCTTAAAGGAGCTTTTACATTT
11301008 TGTTTTTTCA
Statistics
Matches: 112, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
45 1 0.01
46 111 0.99
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.43
Consensus pattern (46 bp):
AAAGTTATTGAGCTTTTGCTTAAAGGAGCTTTTACATTTATTATCA
Found at i:11308969 original size:160 final size:156
Alignment explanation
Indices: 11308707--11309182 Score: 448
Period size: 177 Copynumber: 2.9 Consensus size: 156
11308697 TGCAAGACTG
*
11308707 GCCAAGGCGTACTTTTGGTATCC-TCTTTTTGTACTGTGGAAAC---CAAAAG-AAGGGGAATTA
1 GCCAAGGCGTACTTTTGGTATCCTTCTTTTTGTACTGTGGAAACAAAGAAAAGAAAGGGGAATTA
* * **
11308767 GGTATATTAGAGGAAGCTTACAATGGCCTAAAAATGAGAGGAGCTTACATTGCTCCATTATGTCT
66 GGTATATTAGAGG-AGCTTATAATGGCCGAAAAAAAAGAGGAGCTTACATTGCTCCATTATGTCT
*
11308832 CCTTACTCTGTCATATGTGCAGGACCA
130 CCTTAATCTGTCATATGTGCAGGACCA
* *
11308859 GCCAAGGGGTACTTTTGGTAGCCTTCTTTTTGTACTGTGGAAATCAAAAGAAGAAGAAAGGGGAA
1 GCCAAGGCGTACTTTTGGTATCCTTCTTTTTGTACTGTGGAAA-C-AAAGAA-AAGAAAGGGGAA
*
11308924 TTAGGCATATTAGAGGAGCTTATAATGGCCGAAACAAAAAGAGGAGCTTACATTGCTCCATTATG
63 TTAGGTATATTAGAGGAGCTTATAATGGCCGAAA-AAAAAGAGGAGCTTACATTGCTCCATTATG
*
11308989 TCTTTTAACTCTATCATATCTGTATGAACCAAATATGTGCAGTACCA
127 TC---T--C-CT-T-A-ATCTG--T----C--ATATGTGCAGGACCA
** * * * * *
11309036 GCTGAGGTGTACTGTTGGTATCCTTCCTTTTGTATTGTGGAAACCAAAGGAAAAAGAAAGGGGGA
1 GCCAAGGCGTACTTTTGGTATCCTTCTTTTTGTACTGTGGAAA-CAAA-G-AAAAGAAAGGGGAA
* * * *
11309101 TTAGGTACATTAAAGGAGCTTATAATGG--GCAAAAAAAGAGGA-ATGTACATTG-TCCATTATG
63 TTAGGTATATTAGAGGAGCTTATAATGGCCGAAAAAAAAGAGGAGCT-TACATTGCTCCATTATG
* *
11309162 TCTCGTTAGTCTGTCATATGT
127 TCTCCTTAATCTGTCATATGT
11309183 TTATGAACCA
Statistics
Matches: 269, Mismatches: 26, Indels: 54
0.77 0.07 0.15
Matches are distributed among these distances:
152 21 0.08
153 19 0.07
154 1 0.00
156 6 0.02
158 3 0.01
159 19 0.07
160 53 0.20
162 1 0.00
163 1 0.00
164 4 0.01
165 2 0.01
166 3 0.01
167 2 0.01
168 2 0.01
169 4 0.01
170 1 0.00
171 1 0.00
173 12 0.04
174 17 0.06
175 4 0.01
176 3 0.01
177 88 0.33
178 2 0.01
ACGTcount: A:0.31, C:0.16, G:0.24, T:0.30
Consensus pattern (156 bp):
GCCAAGGCGTACTTTTGGTATCCTTCTTTTTGTACTGTGGAAACAAAGAAAAGAAAGGGGAATTA
GGTATATTAGAGGAGCTTATAATGGCCGAAAAAAAAGAGGAGCTTACATTGCTCCATTATGTCTC
CTTAATCTGTCATATGTGCAGGACCA
Found at i:11309563 original size:15 final size:15
Alignment explanation
Indices: 11309540--11309591 Score: 59
Period size: 15 Copynumber: 3.3 Consensus size: 15
11309530 TAGGCCTCAT
11309540 AATAACATACATAAA
1 AATAACATACATAAA
* *
11309555 AATAGCATACATAATTT
1 AATAACATACATAA--A
*
11309572 AATAACATATATAAA
1 AATAACATACATAAA
11309587 AATAA
1 AATAA
11309592 AACAGGATTC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 18 0.60
17 12 0.40
ACGTcount: A:0.62, C:0.10, G:0.02, T:0.27
Consensus pattern (15 bp):
AATAACATACATAAA
Done.