Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 18 of 313
Found at i:5999680 original size:30 final size:31
Alignment explanation
Indices: 5999646--5999716 Score: 101
Period size: 30 Copynumber: 2.4 Consensus size: 31
5999636 TTATTTCCTT
*
5999646 ATGACTTACTATGACTTACTAGGCTATA-AA
1 ATGACTTACTATGACTTACTAAGCTATAGAA
*
5999676 ATGACTTACTATGACTTAGTAAGCTATAGAA
1 ATGACTTACTATGACTTACTAAGCTATAGAA
*
5999707 A-GACTGACTA
1 ATGACTTACTA
5999717 AGCTATAAAA
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
30 34 0.92
31 3 0.08
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (31 bp):
ATGACTTACTATGACTTACTAAGCTATAGAA
Found at i:6007521 original size:31 final size:30
Alignment explanation
Indices: 6007486--6007543 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
6007476 CTAACTCAAA
6007486 CTTTGAAAAAATTACAATTTTGCCCCTAAAC
1 CTTTG-AAAAATTACAATTTTGCCCCTAAAC
* * * *
6007517 CTTTGCAGAATTACGATTTTTCCCCTA
1 CTTTGAAAAATTACAATTTTGCCCCTA
6007544 GGCTCAGAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
30 18 0.78
31 5 0.22
ACGTcount: A:0.31, C:0.24, G:0.09, T:0.36
Consensus pattern (30 bp):
CTTTGAAAAATTACAATTTTGCCCCTAAAC
Found at i:6024533 original size:9 final size:9
Alignment explanation
Indices: 6024515--6024544 Score: 51
Period size: 9 Copynumber: 3.3 Consensus size: 9
6024505 AGAAAGCGAG
6024515 AGAAGAAAA
1 AGAAGAAAA
*
6024524 AGATGAAAA
1 AGAAGAAAA
6024533 AGAAGAAAA
1 AGAAGAAAA
6024542 AGA
1 AGA
6024545 GATGGAAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.23, T:0.03
Consensus pattern (9 bp):
AGAAGAAAA
Found at i:6032121 original size:30 final size:30
Alignment explanation
Indices: 6032087--6032146 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
6032077 ATTTAATACG
6032087 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
6032117 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
6032147 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:6041495 original size:58 final size:58
Alignment explanation
Indices: 6041424--6041539 Score: 223
Period size: 58 Copynumber: 2.0 Consensus size: 58
6041414 TATATGCCTG
*
6041424 TTTTGTTCAATCCACATGAAAATAGACTCATTAAGCTTCAATTTCATAACTTGCTCAT
1 TTTTGTTCAATCCACATGAAAATAGACTCATTAAGCTTCAATTTCATAACTTACTCAT
6041482 TTTTGTTCAATCCACATGAAAATAGACTCATTAAGCTTCAATTTCATAACTTACTCAT
1 TTTTGTTCAATCCACATGAAAATAGACTCATTAAGCTTCAATTTCATAACTTACTCAT
6041540 AATTTAGTTC
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
58 57 1.00
ACGTcount: A:0.34, C:0.21, G:0.08, T:0.38
Consensus pattern (58 bp):
TTTTGTTCAATCCACATGAAAATAGACTCATTAAGCTTCAATTTCATAACTTACTCAT
Found at i:6041522 original size:31 final size:31
Alignment explanation
Indices: 6041429--6041523 Score: 92
Period size: 31 Copynumber: 3.2 Consensus size: 31
6041419 GCCTGTTTTG
6041429 TTCAATCCACATGAAAATAGACTCATTAAGC
1 TTCAATCCACATGAAAATAGACTCATTAAGC
** * * **
6041460 TTCAAT-TTCAT--AACTTG-CTCATTTTTG-
1 TTCAATCCACATGAAAATAGACTCA-TTAAGC
6041487 TTCAATCCACATGAAAATAGACTCATTAAGC
1 TTCAATCCACATGAAAATAGACTCATTAAGC
6041518 TTCAAT
1 TTCAAT
6041524 TTCATAACTT
Statistics
Matches: 46, Mismatches: 12, Indels: 12
0.66 0.17 0.17
Matches are distributed among these distances:
27 10 0.22
28 10 0.22
30 10 0.22
31 16 0.35
ACGTcount: A:0.36, C:0.21, G:0.08, T:0.35
Consensus pattern (31 bp):
TTCAATCCACATGAAAATAGACTCATTAAGC
Found at i:6042421 original size:46 final size:46
Alignment explanation
Indices: 6042275--6042421 Score: 124
Period size: 46 Copynumber: 3.2 Consensus size: 46
6042265 CCCCTAAGTG
6042275 AACTCGGACTCAACACAATGAGCTTGGGCGTTCGCATCCATAAATT
1 AACTCGGACTCAACACAATGAGCTTGGGCGTTCGCATCCATAAATT
* * ** * * * **
6042321 AACTCGGATTGAACTTAACGAG-TTCGGATGCCTAGTT-ACAT-C-T-CACG
1 AACTCGGACTCAACACAATGAGCTT-GG--G-C--GTTCGCATCCATAAATT
6042368 AACTCGGACTCAACACAATGAGCTTGGGCGTTCGCATCCATAAATT
1 AACTCGGACTCAACACAATGAGCTTGGGCGTTCGCATCCATAAATT
6042414 AACTCGGA
1 AACTCGGA
6042422 TTGAACTTAA
Statistics
Matches: 72, Mismatches: 18, Indels: 22
0.64 0.16 0.20
Matches are distributed among these distances:
42 3 0.04
43 3 0.04
44 2 0.03
45 4 0.06
46 28 0.39
47 20 0.28
48 4 0.06
49 2 0.03
50 3 0.04
51 3 0.04
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (46 bp):
AACTCGGACTCAACACAATGAGCTTGGGCGTTCGCATCCATAAATT
Found at i:6042433 original size:93 final size:93
Alignment explanation
Indices: 6042274--6042444 Score: 342
Period size: 93 Copynumber: 1.8 Consensus size: 93
6042264 GCCCCTAAGT
6042274 GAACTCGGACTCAACACAATGAGCTTGGGCGTTCGCATCCATAAATTAACTCGGATTGAACTTAA
1 GAACTCGGACTCAACACAATGAGCTTGGGCGTTCGCATCCATAAATTAACTCGGATTGAACTTAA
6042339 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
6042367 GAACTCGGACTCAACACAATGAGCTTGGGCGTTCGCATCCATAAATTAACTCGGATTGAACTTAA
1 GAACTCGGACTCAACACAATGAGCTTGGGCGTTCGCATCCATAAATTAACTCGGATTGAACTTAA
6042432 CGAGTTCGGATGC
66 CGAGTTCGGATGC
6042445 TCAACCATCC
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
93 78 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (93 bp):
GAACTCGGACTCAACACAATGAGCTTGGGCGTTCGCATCCATAAATTAACTCGGATTGAACTTAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:6042897 original size:30 final size:30
Alignment explanation
Indices: 6042863--6042922 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
6042853 ATTTAATACG
6042863 AACTTTAAAAAAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
*** *
6042893 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTAAAAAAATTACACTTTTGCCCCTA
6042923 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.33, C:0.25, G:0.05, T:0.37
Consensus pattern (30 bp):
AACTTTAAAAAAATTACACTTTTGCCCCTA
Found at i:6048313 original size:79 final size:82
Alignment explanation
Indices: 6048191--6048375 Score: 222
Period size: 79 Copynumber: 2.3 Consensus size: 82
6048181 GCTCCTCGTT
* * *
6048191 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGTACAAATGCCTTCGGGA-CTTA-ACC
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTC-GGATCTTAGACC
* * *
6048253 TGGATTTTGTAAC-TCGCA
65 -GGATATGGTAACTTAGCA
* *
6048271 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCG
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAGACCG
*
6048334 GATATGGTCACTTAGCA
66 GATATGGTAACTTAGCA
6048351 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
6048376 CATCATTCGA
Statistics
Matches: 91, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
78 3 0.03
79 52 0.57
80 36 0.40
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (82 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTAACTCGCACAAATGCCTTCGGATCTTAGACCG
GATATGGTAACTTAGCA
Found at i:6048375 original size:40 final size:40
Alignment explanation
Indices: 6048191--6048375 Score: 207
Period size: 40 Copynumber: 4.7 Consensus size: 40
6048181 GCTCCTCGTT
* * *
6048191 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* * * *
6048231 CAAATGCCTTCGGGACTTAACCTGGATTTTGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
*
6048271 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * *
6048310 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
6048351 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
6048376 CATCATTCGA
Statistics
Matches: 121, Mismatches: 18, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
38 2 0.02
39 30 0.25
40 77 0.64
41 12 0.10
ACGTcount: A:0.25, C:0.26, G:0.23, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:6051111 original size:76 final size:78
Alignment explanation
Indices: 6050972--6051128 Score: 264
Period size: 76 Copynumber: 2.0 Consensus size: 78
6050962 CCATCCCCCC
6050972 CTCCATTTGCCGTAACTAGACAAAGAAAAAAAGAAAAAAAGAAAGGGTGTTCATCCTTTAACACC
1 CTCCATTTGCCGTAACTAGACAAAG---AAAAGAAAAAAAGAAAGGGTGTTCATCCTTTAACACC
6051037 TTGGCCGAAAATTTGA
63 TTGGCCGAAAATTTGA
*
6051053 CTCCATTTTCCGTAACTAGACAAAG-AAA-AAAAAAAGAAAGGGTGTTCATCCTTTAACACCTTG
1 CTCCATTTGCCGTAACTAGACAAAGAAAAGAAAAAAAGAAAGGGTGTTCATCCTTTAACACCTTG
6051116 GCCGAAAATTTGA
66 GCCGAAAATTTGA
6051129 AGGAGGAAGG
Statistics
Matches: 75, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
76 48 0.64
77 3 0.04
81 24 0.32
ACGTcount: A:0.41, C:0.19, G:0.17, T:0.24
Consensus pattern (78 bp):
CTCCATTTGCCGTAACTAGACAAAGAAAAGAAAAAAAGAAAGGGTGTTCATCCTTTAACACCTTG
GCCGAAAATTTGA
Found at i:6053488 original size:44 final size:43
Alignment explanation
Indices: 6053432--6053547 Score: 171
Period size: 44 Copynumber: 2.6 Consensus size: 43
6053422 TCGGGCCTTT
*
6053432 GAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTTGGG-CC
1 GAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGACC
*
6053474 GAAGGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGAATTC
1 G-A-GCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGG-A-CC
6053521 GAGCCTAGCAGGCTATAATGCCGGTGA
1 GAGCCTAGCAGGCTATAATGCCGGTGA
6053548 ATGAATTCGG
Statistics
Matches: 67, Mismatches: 2, Indels: 7
0.88 0.03 0.09
Matches are distributed among these distances:
42 1 0.01
43 1 0.01
44 37 0.55
45 25 0.37
46 1 0.01
47 2 0.03
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.22
Consensus pattern (43 bp):
GAGCCTAGCAGGCTATAATGCCGGTGAGATACTATTCGGGACC
Found at i:6054106 original size:16 final size:18
Alignment explanation
Indices: 6054075--6054107 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
6054065 AACTCGTCAC
6054075 ACTATCTATCATTTTGGT
1 ACTATCTATCATTTTGGT
6054093 ACTA-CTAT-ATTTTGG
1 ACTATCTATCATTTTGG
6054108 AGCTAGTATG
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 7 0.47
17 4 0.27
18 4 0.27
ACGTcount: A:0.24, C:0.15, G:0.12, T:0.48
Consensus pattern (18 bp):
ACTATCTATCATTTTGGT
Found at i:6054868 original size:17 final size:17
Alignment explanation
Indices: 6054823--6054899 Score: 63
Period size: 17 Copynumber: 4.6 Consensus size: 17
6054813 AAGGAAAAGG
6054823 AAAGAAA-AAAGGAAGA
1 AAAGAAAGAAAGGAAGA
* *
6054839 AAATAAATG-AAGGGAGA
1 AAAGAAA-GAAAGGAAGA
6054856 AAAGAAAGAAAGGAA-A
1 AAAGAAAGAAAGGAAGA
* *
6054872 AACGAGAA-AATGGAAAGA
1 AAAGA-AAGAAAGG-AAGA
6054890 AAAGAAAGAA
1 AAAGAAAGAA
6054900 GAAAAAAGGG
Statistics
Matches: 47, Mismatches: 7, Indels: 12
0.71 0.11 0.18
Matches are distributed among these distances:
16 16 0.34
17 24 0.51
18 7 0.15
ACGTcount: A:0.69, C:0.01, G:0.26, T:0.04
Consensus pattern (17 bp):
AAAGAAAGAAAGGAAGA
Found at i:6054890 original size:25 final size:23
Alignment explanation
Indices: 6054852--6054924 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 23
6054842 TAAATGAAGG
6054852 GAGAAAA-GAAAGAAAGGAAAAA
1 GAGAAAAGGAAAGAAAGGAAAAA
*
6054874 CGAGAAAATGGAAAGAAAAGAAAGAA
1 -GAGAAAA-GGAAAGAAAGGAAA-AA
* *
6054900 GAAAAAAGGGAAAGATAGTGAAAAA
1 GAGAAAA-GGAAAGAAAG-GAAAAA
6054925 AAAGGGAAAA
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
23 7 0.17
25 28 0.68
26 6 0.15
ACGTcount: A:0.67, C:0.01, G:0.27, T:0.04
Consensus pattern (23 bp):
GAGAAAAGGAAAGAAAGGAAAAA
Found at i:6055048 original size:21 final size:21
Alignment explanation
Indices: 6055018--6055082 Score: 60
Period size: 21 Copynumber: 3.0 Consensus size: 21
6055008 ACATTTTATA
*
6055018 ATTTTAAAATTATATATTTTT
1 ATTTTTAAATTATATATTTTT
* *
6055039 ATTTTTAAATGAT-TTTTTATT
1 ATTTTTAAATTATATATTT-TT
*
6055060 ATTTTTAATATTTTAATATTTTT
1 ATTTTTAA-ATTAT-ATATTTTT
6055083 CAGTTTTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
20 4 0.12
21 21 0.62
22 3 0.09
23 2 0.06
24 4 0.12
ACGTcount: A:0.32, C:0.00, G:0.02, T:0.66
Consensus pattern (21 bp):
ATTTTTAAATTATATATTTTT
Found at i:6055115 original size:33 final size:33
Alignment explanation
Indices: 6055053--6055139 Score: 81
Period size: 33 Copynumber: 2.6 Consensus size: 33
6055043 TTAAATGATT
* *
6055053 TTTTATTATTTTTAATATTTTAATATTTTTCAG
1 TTTTATAATTTTTAAAATTTTAATATTTTTCAG
* *
6055086 TTTTATAATTTTTAACAATTCTT-AT-TTTTTAAAA
1 TTTTATAATTTTTAA-AATT-TTAATATTTTT-CAG
*
6055120 CTTTA-AATTTTTAAAATTTT
1 TTTTATAATTTTTAAAATTTT
6055140 TGAGATTTTT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
31 2 0.04
32 4 0.09
33 28 0.61
34 10 0.22
35 2 0.04
ACGTcount: A:0.32, C:0.05, G:0.01, T:0.62
Consensus pattern (33 bp):
TTTTATAATTTTTAAAATTTTAATATTTTTCAG
Found at i:6077841 original size:29 final size:28
Alignment explanation
Indices: 6077798--6077878 Score: 99
Period size: 29 Copynumber: 2.9 Consensus size: 28
6077788 CATATTTATG
* *
6077798 AATGTGACTGGGCCTAACGGGCCATATA
1 AATGTGATTGGGCCTAATGGGCCATATA
* *
6077826 AATGTGATTTGGGCCTAATGGCCCATATG
1 AATGTGA-TTGGGCCTAATGGGCCATATA
* *
6077855 AATATGATTGGGCTTAATGGGCCA
1 AATGTGATTGGGCCTAATGGGCCA
6077879 GATATAGGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
28 22 0.49
29 23 0.51
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.27
Consensus pattern (28 bp):
AATGTGATTGGGCCTAATGGGCCATATA
Found at i:6081507 original size:40 final size:39
Alignment explanation
Indices: 6081476--6081685 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
6081466 GGACTAAGAT
* *
6081476 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
6081516 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
6081556 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
6081596 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
6081636 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
6081675 CCGAAGGCATT
1 CCGAAGGCATT
6081686 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:6081639 original size:120 final size:120
Alignment explanation
Indices: 6081423--6081685 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
6081413 TTGAATGCTG
* *
6081423 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
6081487 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
6081543 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
6081606 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
6081662 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
6081686 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:6081705 original size:79 final size:80
Alignment explanation
Indices: 6081424--6081720 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
6081414 TGAATGCTGT
* ** * * * **
6081424 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
6081487 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
6081504 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
6081568 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
6081584 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
6081648 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
6081663 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
6081721 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:6089373 original size:40 final size:39
Alignment explanation
Indices: 6089342--6089551 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
6089332 GGACTAAGAT
* *
6089342 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
6089382 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
6089422 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
6089462 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
6089502 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
6089541 CCGAAGGCATT
1 CCGAAGGCATT
6089552 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:6089505 original size:120 final size:120
Alignment explanation
Indices: 6089289--6089551 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
6089279 TTGAATGCTG
* *
6089289 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
6089353 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
6089409 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
6089472 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
6089528 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
6089552 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:6089571 original size:79 final size:80
Alignment explanation
Indices: 6089290--6089586 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
6089280 TGAATGCTGT
* ** * * * **
6089290 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
6089353 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
6089370 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
6089434 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
6089450 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
6089514 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
6089529 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
6089587 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:6092690 original size:29 final size:29
Alignment explanation
Indices: 6092624--6092725 Score: 100
Period size: 29 Copynumber: 3.6 Consensus size: 29
6092614 TGAATGTGAA
* *
6092624 TGGGCCTAACGGGCTATATACAGGTGATT
1 TGGGCCTAATGGGCCATATACAGGTGATT
* *
6092653 TGGACCTAATGGGCCATTTACAGGTGATT
1 TGGGCCTAATGGGCCATATACAGGTGATT
* * **
6092682 TGGGTCTAATGAGCCATATGA-ATATGA-T
1 TGGGCCTAATGGGCCATAT-ACAGGTGATT
*
6092710 TGGGCTTAATGGGCCA
1 TGGGCCTAATGGGCCA
6092726 GATATAGATA
Statistics
Matches: 59, Mismatches: 13, Indels: 3
0.79 0.17 0.04
Matches are distributed among these distances:
28 14 0.24
29 44 0.75
30 1 0.02
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (29 bp):
TGGGCCTAATGGGCCATATACAGGTGATT
Found at i:6094448 original size:68 final size:66
Alignment explanation
Indices: 6094376--6094525 Score: 169
Period size: 67 Copynumber: 2.2 Consensus size: 66
6094366 CATCATGTGT
* * * *
6094376 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACCA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCA
6094439 TGTAG
62 TGTAG
** * *
6094444 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCA-GTGAAGGACACCATGT
6094509 AG
65 AG
6094511 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
6094526 GATAAATTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 24 0.34
65 3 0.04
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.21
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACCAGTGAAGGACACCATGTA
G
Found at i:6094481 original size:64 final size:64
Alignment explanation
Indices: 6094400--6094583 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
6094390 AGACATTATG
* * *
6094400 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
6094464 ATGTAGCTAGGTCGCATGCGTGGTTCCAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
6094529 AA
63 AA
* * * *
6094531 AT-TGGCTAAGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
6094584 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 25 0.26
66 20 0.20
67 33 0.34
ACGTcount: A:0.29, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:6099165 original size:6 final size:6
Alignment explanation
Indices: 6099156--6099234 Score: 63
Period size: 6 Copynumber: 12.8 Consensus size: 6
6099146 TATTAGAACT
* * *
6099156 AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AAAATC AGATTC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
* *
6099205 AGTATC AGGTAA-C AGAATC AAAATC AGAAT
1 AGAATC A-G-AATC AGAATC AGAATC AGAAT
6099235 GTGAAAGCAA
Statistics
Matches: 57, Mismatches: 10, Indels: 12
0.72 0.13 0.15
Matches are distributed among these distances:
5 3 0.05
6 46 0.81
7 6 0.11
8 2 0.04
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:6099212 original size:37 final size:37
Alignment explanation
Indices: 6099158--6099230 Score: 110
Period size: 37 Copynumber: 2.0 Consensus size: 37
6099148 TTAGAACTAG
* *
6099158 AATCAGAATCAGAATCAGGTGACAGAATCAGAATCAA
1 AATCAGAATCAGAATCAGGTAACAGAATCAAAATCAA
* *
6099195 AATCAGATTCAGTATCAGGTAACAGAATCAAAATCA
1 AATCAGAATCAGAATCAGGTAACAGAATCAAAATCA
6099231 GAATGTGAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.48, C:0.16, G:0.16, T:0.19
Consensus pattern (37 bp):
AATCAGAATCAGAATCAGGTAACAGAATCAAAATCAA
Found at i:6099401 original size:27 final size:26
Alignment explanation
Indices: 6099353--6099412 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
6099343 GCGAGGCTGC
*
6099353 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
6099380 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
6099406 CAGATAT
1 CAGATAT
6099413 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:6099457 original size:71 final size:67
Alignment explanation
Indices: 6099380--6099521 Score: 185
Period size: 67 Copynumber: 2.1 Consensus size: 67
6099370 TCACCAGATA
* * * *
6099380 CAGATATTGTGGCTAGGCCACCAGAACAGATATATATATGTGGTGAAGCCACCAGATTGCAGCGA
1 CAGATATTGTGACGAAGCCACCAGAACAG----ATATATGTGGCGAAGCCACCAGATTGCAGCGA
6099445 GGCTGC
62 GGCTGC
* * *
6099451 CAGATATTGTGACGAAGTCACCAGAACAGATATATGTGGCGAGGCCACCAGATTGTAGCGAGGCT
1 CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
6099516 GC
66 GC
6099518 CAGA
1 CAGA
6099522 ACGCTTCTTC
Statistics
Matches: 64, Mismatches: 7, Indels: 4
0.85 0.09 0.05
Matches are distributed among these distances:
67 39 0.61
71 25 0.39
ACGTcount: A:0.30, C:0.21, G:0.29, T:0.20
Consensus pattern (67 bp):
CAGATATTGTGACGAAGCCACCAGAACAGATATATGTGGCGAAGCCACCAGATTGCAGCGAGGCT
GC
Found at i:6099499 original size:27 final size:26
Alignment explanation
Indices: 6099451--6099502 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
6099441 GCGAGGCTGC
*
6099451 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
6099477 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
6099503 TTGTAGCGAG
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:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:6099779 original size:27 final size:27
Alignment explanation
Indices: 6099749--6099962 Score: 288
Period size: 27 Copynumber: 7.9 Consensus size: 27
6099739 GGGTAAAATG
* *
6099749 GTAATTTTACCTTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
6099776 GTAATTTTACCCTATAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
6099802 GATAATTCTACCTTACAAGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
6099830 GTAATTCTACCCTATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
6099857 GTAATTCTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
6099883 GATAATTCTACCCTACAAGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
*
6099911 GTAATTCTACCCAACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
6099938 GAAATTCTACCCTATAGGGGTATTT
1 GTAATTCTACCCTACAGGGGTATTT
6099963 TGGTAATTTT
Statistics
Matches: 166, Mismatches: 17, Indels: 8
0.87 0.09 0.04
Matches are distributed among these distances:
26 2 0.01
27 162 0.98
28 2 0.01
ACGTcount: A:0.27, C:0.19, G:0.18, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:6099970 original size:81 final size:81
Alignment explanation
Indices: 6099748--6099962 Score: 349
Period size: 81 Copynumber: 2.7 Consensus size: 81
6099738 GGGGTAAAAT
* * *
6099748 GGTAATTTTACCTTACAGGGGTATTTCAGTAATTTTACCCTATAGGGGTATTTCGATAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTCTAC
*
6099813 CTTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* * *
6099829 AGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTCTAC
6099894 CCTACAAGGGTATTTC
66 CCTACAAGGGTATTTC
* *
6099910 GGTAATTCTACCCAACAGGGGTATTTCAGAAATTCTACCCTATAGGGGTATTT
1 GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTT
6099963 TGGTAATTTT
Statistics
Matches: 122, Mismatches: 12, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 122 1.00
ACGTcount: A:0.27, C:0.19, G:0.19, T:0.36
Consensus pattern (81 bp):
GGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCCTATAGGGGTATTTCGATAATTCTAC
CCTACAAGGGTATTTC
Found at i:6099982 original size:27 final size:27
Alignment explanation
Indices: 6099952--6100034 Score: 130
Period size: 27 Copynumber: 3.1 Consensus size: 27
6099942 TTCTACCCTA
6099952 TAGGGGTATTTTGGTAATTTTATAAAC
1 TAGGGGTATTTTGGTAATTTTATAAAC
*
6099979 TAGGGGTATTTTGGTAATTTTACAAAC
1 TAGGGGTATTTTGGTAATTTTATAAAC
* **
6100006 CAGGGGTATTTTGGTAATTTGGTAAAC
1 TAGGGGTATTTTGGTAATTTTATAAAC
6100033 TA
1 TA
6100035 AAGTATTCTA
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 50 1.00
ACGTcount: A:0.29, C:0.06, G:0.24, T:0.41
Consensus pattern (27 bp):
TAGGGGTATTTTGGTAATTTTATAAAC
Found at i:6100010 original size:81 final size:81
Alignment explanation
Indices: 6099748--6100016 Score: 290
Period size: 81 Copynumber: 3.3 Consensus size: 81
6099738 GGGGTAAAAT
* ** * * *
6099748 GGTAATTTTACCTTACAGGGGTATTTCAGTAATTTTACCCTATAGGGGTATTTCGATAATTCTAC
1 GGTAATTCTACCAAACAGGGGTATTTCAGAAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
**
6099813 CTTACAAGGGTATTTC
66 CAAACAAGGGTATTTC
* ** * *
6099829 AGTAATTCTACCCTATAGGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
1 GGTAATTCTACCAAACAGGGGTATTTCAGAAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
**
6099894 CCTACAAGGGTATTTC
66 CAAACAAGGGTATTTC
* * * * *
6099910 GGTAATTCTACCCAACAGGGGTATTTCAGAAATTCTACCCTATAGGGGTATTTTGGTAATTTTA-
1 GGTAATTCTACCAAACAGGGGTATTTCAGAAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
* * *
6099974 TAAACTAGGGGTATTTT
66 CAAAC-AAGGGTATTTC
*
6099991 GGTAATTTTA-CAAACCAGGGGTATTT
1 GGTAATTCTACCAAA-CAGGGGTATTT
6100017 TGGTAATTTG
Statistics
Matches: 164, Mismatches: 22, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
80 5 0.03
81 159 0.97
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.37
Consensus pattern (81 bp):
GGTAATTCTACCAAACAGGGGTATTTCAGAAATTCTACCCTACAGGGGTATTTCGATAATTCTAC
CAAACAAGGGTATTTC
Found at i:6102926 original size:40 final size:40
Alignment explanation
Indices: 6102878--6103104 Score: 391
Period size: 40 Copynumber: 5.7 Consensus size: 40
6102868 GCAAACACAT
* * *
6102878 TTGCCTTCGGGTCTTAACCCGGACATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* *
6102918 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
6102958 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
* *
6102998 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
6103038 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
6103078 TTGCCTTCGGGTCATAGCCCGGATATA
1 TTGCCTTCGGGTCATAGCCCGGATATA
6103105 ATCCAATGCT
Statistics
Matches: 178, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 178 1.00
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
TTGCCTTCGGGTCATAGCCCGGATATATCAACTCGCATAA
Found at i:6105949 original size:23 final size:23
Alignment explanation
Indices: 6105915--6105978 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
6105905 TACCGATATA
*
6105915 TCAGCTCGTAAGATCTTACTATT
1 TCAGCTCGTAAGAGCTTACTATT
*
6105938 TCAGCTCATAAGAGCTTACTATT
1 TCAGCTCGTAAGAGCTTACTATT
*
6105961 TTAGCTCGTAAGAGCTTA
1 TCAGCTCGTAAGAGCTTA
6105979 TTGTTTTTAG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (23 bp):
TCAGCTCGTAAGAGCTTACTATT
Found at i:6106268 original size:18 final size:18
Alignment explanation
Indices: 6106245--6106337 Score: 80
Period size: 18 Copynumber: 4.9 Consensus size: 18
6106235 CTATTTAGAT
*
6106245 GAATGAGTTATTGTTATC
1 GAATGAGTTACTGTTATC
*
6106263 GAATGAATTACTGTTATAC
1 GAATGAGTTACTGTTAT-C
* *
6106282 GGATGAAG-TACTGTTTAGAC
1 GAATG-AGTTACTG-TTA-TC
*
6106302 AAATGAGTTACTGTTATC
1 GAATGAGTTACTGTTATC
*
6106320 GAATGAATTACTGATTAT
1 GAATGAGTTACTG-TTAT
6106338 ATGATTGAGA
Statistics
Matches: 59, Mismatches: 10, Indels: 11
0.74 0.12 0.14
Matches are distributed among these distances:
18 27 0.46
19 19 0.32
20 13 0.22
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (18 bp):
GAATGAGTTACTGTTATC
Found at i:6106293 original size:19 final size:19
Alignment explanation
Indices: 6106202--6106338 Score: 77
Period size: 19 Copynumber: 7.2 Consensus size: 19
6106192 GCTATGTGTA
*
6106202 ATACAAATGAA-TCACTGTT
1 ATACGAATGAAGT-ACTGTT
* * *
6106221 ATATGGATGAAGTACTATTT
1 ATACGAATGAAGTACT-GTT
* * *
6106241 AGATGAATG-AGTTATTGTT
1 ATACGAATGAAG-TACTGTT
*
6106260 AT-CGAATGAATTACTGTT
1 ATACGAATGAAGTACTGTT
*
6106278 ATACGGATGAAGTACTGTTT
1 ATACGAATGAAGTACTG-TT
* *
6106298 AGACAAATG-AGTTACTGTT
1 ATACGAATGAAG-TACTGTT
*
6106317 AT-CGAATGAATTACTGATT
1 ATACGAATGAAGTACTG-TT
6106336 ATA
1 ATA
6106339 TGATTGAGAG
Statistics
Matches: 88, Mismatches: 20, Indels: 19
0.69 0.16 0.15
Matches are distributed among these distances:
18 23 0.26
19 39 0.44
20 26 0.30
ACGTcount: A:0.36, C:0.09, G:0.19, T:0.36
Consensus pattern (19 bp):
ATACGAATGAAGTACTGTT
Found at i:6106299 original size:57 final size:57
Alignment explanation
Indices: 6106207--6106338 Score: 201
Period size: 57 Copynumber: 2.3 Consensus size: 57
6106197 GTGTAATACA
* * ** *
6106207 AATGAATCACTGTTATATGGATGAAGTACTATTTAGATGAATGAGTTATTGTTATCG
1 AATGAATTACTGTTATACGGATGAAGTACTATTTAGACAAATGAGTTACTGTTATCG
*
6106264 AATGAATTACTGTTATACGGATGAAGTACTGTTTAGACAAATGAGTTACTGTTATCG
1 AATGAATTACTGTTATACGGATGAAGTACTATTTAGACAAATGAGTTACTGTTATCG
6106321 AATGAATTACTGATTATA
1 AATGAATTACTG-TTATA
6106339 TGATTGAGAG
Statistics
Matches: 68, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
57 63 0.93
58 5 0.07
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (57 bp):
AATGAATTACTGTTATACGGATGAAGTACTATTTAGACAAATGAGTTACTGTTATCG
Found at i:6109240 original size:41 final size:39
Alignment explanation
Indices: 6109175--6109254 Score: 124
Period size: 41 Copynumber: 2.0 Consensus size: 39
6109165 AAGATGTGAA
*
6109175 GAGCGGTATCACAAGTATATGGGTCAGGTTGTAATATAG
1 GAGCGGTATCACAAGTATACGGGTCAGGTTGTAATATAG
*
6109214 NGAGCGGTATCCATAAGTATACGGGTCAGGTTGTAATATAG
1 -GAGCGGTAT-CACAAGTATACGGGTCAGGTTGTAATATAG
6109255 TTACAACAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
40 9 0.24
41 28 0.76
ACGTcount: A:0.30, C:0.11, G:0.30, T:0.28
Consensus pattern (39 bp):
GAGCGGTATCACAAGTATACGGGTCAGGTTGTAATATAG
Found at i:6120409 original size:19 final size:18
Alignment explanation
Indices: 6120376--6120418 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 18
6120366 GGGGCCCTGA
* *
6120376 GGCCCATTGGGCCAACAT
1 GGCCCATTCGGCCAAAAT
6120394 GGCCCAGTTCGGCCAAAAT
1 GGCCCA-TTCGGCCAAAAT
6120413 GGCCCA
1 GGCCCA
6120419 ATATCGTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 6 0.27
19 16 0.73
ACGTcount: A:0.23, C:0.35, G:0.28, T:0.14
Consensus pattern (18 bp):
GGCCCATTCGGCCAAAAT
Found at i:6128126 original size:34 final size:34
Alignment explanation
Indices: 6128078--6128142 Score: 85
Period size: 34 Copynumber: 1.9 Consensus size: 34
6128068 GTATCAGTTA
* * *
6128078 GGCCTTAGCCCATTACAGTAACAGTAGCAGTTTG
1 GGCCTGAGCACATTACAGTAACAATAGCAGTTTG
* *
6128112 GGCCTGAGCACATTACGGTTACAATAGCAGT
1 GGCCTGAGCACATTACAGTAACAATAGCAGT
6128143 GGGGCCTAAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
34 26 1.00
ACGTcount: A:0.28, C:0.23, G:0.25, T:0.25
Consensus pattern (34 bp):
GGCCTGAGCACATTACAGTAACAATAGCAGTTTG
Found at i:6136665 original size:10 final size:10
Alignment explanation
Indices: 6136650--6136682 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
6136640 TTAATCAAAG
*
6136650 AAAATAAAAT
1 AAAATAAGAT
6136660 AAAATAAGAT
1 AAAATAAGAT
6136670 AAAATAAGAT
1 AAAATAAGAT
6136680 AAA
1 AAA
6136683 TAATTGAATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.76, C:0.00, G:0.06, T:0.18
Consensus pattern (10 bp):
AAAATAAGAT
Found at i:6136671 original size:15 final size:14
Alignment explanation
Indices: 6136651--6136685 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
6136641 TAATCAAAGA
6136651 AAATAAAATAAAAT
1 AAATAAAATAAAAT
*
6136665 AAGATAAAATAAGAT
1 AA-ATAAAATAAAAT
6136680 AAATAA
1 AAATAA
6136686 TTGAATTTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (14 bp):
AAATAAAATAAAAT
Found at i:6147997 original size:21 final size:21
Alignment explanation
Indices: 6147967--6148012 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 21
6147957 ACCTCAAAGG
*
6147967 TGTGTTGCGACATCCCTTGGT
1 TGTGTCGCGACATCCCTTGGT
*
6147988 TGTGTCGCGATATCCCTTGGT
1 TGTGTCGCGACATCCCTTGGT
6148009 TGTG
1 TGTG
6148013 GTGCATCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.09, C:0.22, G:0.30, T:0.39
Consensus pattern (21 bp):
TGTGTCGCGACATCCCTTGGT
Found at i:6151176 original size:43 final size:43
Alignment explanation
Indices: 6151128--6151294 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 43
6151118 GTTACTGAGA
6151128 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * ** * *
6151171 TGTGATTACGTGTCATACCATGTCTGAAACTTTGGCATCGT-T
1 TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * * *
6151213 TATCGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATTG-AT
1 TGT-GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
* * * * *
6151256 ATGTGATAACATGTAAAACCATATTTGGGATA-TGGCATT
1 -TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATT
6151295 TTACGAGCTA
Statistics
Matches: 95, Mismatches: 26, Indels: 7
0.74 0.20 0.05
Matches are distributed among these distances:
42 10 0.11
43 83 0.87
44 2 0.02
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.35
Consensus pattern (43 bp):
TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGTAT
Found at i:6158595 original size:67 final size:67
Alignment explanation
Indices: 6158487--6159287 Score: 1602
Period size: 67 Copynumber: 12.0 Consensus size: 67
6158477 AAATCGAAGG
6158487 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
1 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
6158552 AC
66 AC
6158554 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
1 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
6158619 AC
66 AC
6158621 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
1 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
6158686 AC
66 AC
6158688 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
1 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
6158753 AC
66 AC
6158755 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
1 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
6158820 AC
66 AC
6158822 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
1 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
6158887 AC
66 AC
6158889 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
1 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
6158954 AC
66 AC
6158956 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
1 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
6159021 AC
66 AC
6159023 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
1 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
6159088 AC
66 AC
6159090 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
1 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
6159155 AC
66 AC
6159157 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
1 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
6159222 AC
66 AC
6159224 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATG
1 TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATG
6159288 TCTTTTAATT
Statistics
Matches: 734, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
67 734 1.00
ACGTcount: A:0.34, C:0.19, G:0.15, T:0.31
Consensus pattern (67 bp):
TTATCAAGTAGTCAATTCAGTCCCTCTATTCCGACTATGAGGTAAGTTCATATGCAAATAAATGA
AC
Found at i:6159468 original size:28 final size:28
Alignment explanation
Indices: 6159433--6159492 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
6159423 ATGTCATGAC
*
6159433 AATAGGTTATTGAGATGTGATTACATGT
1 AATAGGTTAATGAGATGTGATTACATGT
6159461 AATAGGTTAATGAGATGTGATTACATGT
1 AATAGGTTAATGAGATGTGATTACATGT
6159489 AATA
1 AATA
6159493 CCATGTCTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (28 bp):
AATAGGTTAATGAGATGTGATTACATGT
Found at i:6166583 original size:28 final size:28
Alignment explanation
Indices: 6166548--6166607 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
6166538 ATGTCATGAC
*
6166548 AATAGGTTATTGAGATGTGATTACATGT
1 AATAGGTTAATGAGATGTGATTACATGT
6166576 AATAGGTTAATGAGATGTGATTACATGT
1 AATAGGTTAATGAGATGTGATTACATGT
6166604 AATA
1 AATA
6166608 CCATGTCTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (28 bp):
AATAGGTTAATGAGATGTGATTACATGT
Found at i:6167739 original size:28 final size:28
Alignment explanation
Indices: 6167704--6167763 Score: 111
Period size: 28 Copynumber: 2.1 Consensus size: 28
6167694 ATGTCATGAC
*
6167704 AATAGGTTATTGAGATGTGATTACATGT
1 AATAGGTTAATGAGATGTGATTACATGT
6167732 AATAGGTTAATGAGATGTGATTACATGT
1 AATAGGTTAATGAGATGTGATTACATGT
6167760 AATA
1 AATA
6167764 CCATGTCTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.37, C:0.03, G:0.23, T:0.37
Consensus pattern (28 bp):
AATAGGTTAATGAGATGTGATTACATGT
Found at i:6172932 original size:6 final size:6
Alignment explanation
Indices: 6172914--6173002 Score: 60
Period size: 6 Copynumber: 14.3 Consensus size: 6
6172904 AAGAAACATT
* *
6172914 ATCAGA A-CTAGA ATCAGA ATCAGA ATCAAA ATCAG- GTGACAGA ATCAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA AT--CAGA ATCAGA
*
6172963 ATCAGA ATCA-A TATCAGGTA A-CAGA ATCAAAA ATCAGA AT
1 ATCAGA ATCAGA -ATCA-G-A ATCAGA ATC-AGA ATCAGA AT
6173003 ATGAATGCAA
Statistics
Matches: 66, Mismatches: 6, Indels: 22
0.70 0.06 0.23
Matches are distributed among these distances:
5 5 0.08
6 47 0.71
7 11 0.17
8 2 0.03
9 1 0.02
ACGTcount: A:0.51, C:0.16, G:0.16, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:6172961 original size:31 final size:31
Alignment explanation
Indices: 6172923--6173002 Score: 124
Period size: 31 Copynumber: 2.5 Consensus size: 31
6172913 TATCAGAACT
*
6172923 AGAATCAGAATCAGAATCAAAATCAGGTGAC
1 AGAATCAGAATCAGAATCAAAATCAGGTAAC
*
6172954 AGAATCAGAATCAGAATCAATATCAGGTAAC
1 AGAATCAGAATCAGAATCAAAATCAGGTAAC
*
6172985 AGAATCAAAAATCAGAAT
1 AGAATC-AGAATCAGAAT
6173003 ATGAATGCAA
Statistics
Matches: 45, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
31 35 0.78
32 10 0.22
ACGTcount: A:0.51, C:0.15, G:0.16, T:0.17
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAAAATCAGGTAAC
Found at i:6173181 original size:27 final size:26
Alignment explanation
Indices: 6173139--6173240 Score: 114
Period size: 27 Copynumber: 3.8 Consensus size: 26
6173129 GCTCAGTTAT
** *
6173139 CAGATATTGTTACAGAGTCACCAGATA
1 CAGATATTGTGGCAGAGCCACCAGA-A
*
6173166 CAAATATTGTGGCAGAGCCACCAGAA
1 CAGATATTGTGGCAGAGCCACCAGAA
*
6173192 CAGATATTTGTGGCATAGCCACCAGAAA
1 CAGATA-TTGTGGCAGAGCCACCAG-AA
* *
6173220 CAGATAATGTGGCAAAGCCAC
1 CAGATATTGTGGCAGAGCCAC
6173241 TTAACAAAAT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
26 6 0.09
27 51 0.78
28 8 0.12
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (26 bp):
CAGATATTGTGGCAGAGCCACCAGAA
Found at i:6173427 original size:22 final size:22
Alignment explanation
Indices: 6173399--6173463 Score: 69
Period size: 22 Copynumber: 3.0 Consensus size: 22
6173389 GCAAATACGT
*
6173399 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* *
6173421 TTGGCACAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
* *
6173443 TTGACACAAAGCGATAATCAG
1 TTGGCACAAAGCCATAATCAG
6173464 AAGGCTTTAA
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.20
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:6173946 original size:27 final size:27
Alignment explanation
Indices: 6173916--6174615 Score: 833
Period size: 27 Copynumber: 26.0 Consensus size: 27
6173906 AGGCATCTCG
* *
6173916 GTAATTCCACCCTACAGGGGTATTTTA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
6173943 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
6173970 GTAATTCTACCCTGCAGGGGAATTGC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
6173996 GATAATTCTACCCTACAGGGATATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
6174024 GTAATTTTACCCTACAGGGGTATTGTGA
1 GTAATTCTACCCTACAGGGGTATT-TCA
* *
6174052 -TAATTCTACCCTACAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
6174078 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
6174105 GTAATTCTACCCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
6174132 GTAATTTTACCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
6174159 GTAATTCTACCCTACAGGGGT-TTTGC-
1 GTAATTCTACCCTACAGGGGTATTT-CA
* * *
6174185 GATAATTTTACCTTACAGGGGTATTTCG
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
6174213 GTAATTCTACCCTATAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
6174240 GTAATTCTACCCTATAAGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
6174267 GTAATTCTACTCTACAGGGGTATTTCG
1 GTAATTCTACCCTACAGGGGTATTTCA
*
6174294 GTAATTCTATCCTACAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
6174321 ATAATTCTACCATATAGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
* * *
6174348 GTAATTCTACCTTGCAGGGGTAATTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
6174375 GTAATTTTACCCTACAGGGGTATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
*
6174401 GATAATTCTACCTTACAGGGGTATTTCA
1 G-TAATTCTACCCTACAGGGGTATTTCA
* *
6174429 GTAATTCTACTCTATAGGGGTATTT-A
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
6174455 GTAATTCTACCTTACTA-GGGTATTTAA
1 GTAATTCTACCCTAC-AGGGGTATTTCA
* **
6174482 GTAATTCTACCCTACAAGGGTATTTTG
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
6174509 GTAATTCTACCTTACTGGGGTATTTCA
1 GTAATTCTACCCTACAGGGGTATTTCA
*
6174536 ATAAATT-TACCCTACAGGGGTATTTCA
1 GT-AATTCTACCCTACAGGGGTATTTCA
* *
6174563 GTAATTCTACCTTACAGGGATATTTC-
1 GTAATTCTACCCTACAGGGGTATTTCA
* *
6174589 GATAATTCTACCTTATAGGGGTATTTC
1 G-TAATTCTACCCTACAGGGGTATTTC
6174616 GATAATTTTA
Statistics
Matches: 586, Mismatches: 71, Indels: 32
0.85 0.10 0.05
Matches are distributed among these distances:
26 34 0.06
27 541 0.92
28 11 0.02
ACGTcount: A:0.26, C:0.19, G:0.20, T:0.36
Consensus pattern (27 bp):
GTAATTCTACCCTACAGGGGTATTTCA
Found at i:6174637 original size:27 final size:27
Alignment explanation
Indices: 6174607--6174677 Score: 106
Period size: 27 Copynumber: 2.6 Consensus size: 27
6174597 TACCTTATAG
* *
6174607 GGGTATTTCGATAATTTTACAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
* *
6174634 GGGTATTTTGGTGATTTTATAAACCAA
1 GGGTATTTTGGTAATTTTACAAACCAA
6174661 GGGTATTTTGGTAATTT
1 GGGTATTTTGGTAATTT
6174678 GGTAAACTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTGGTAATTTTACAAACCAA
Found at i:6176415 original size:51 final size:49
Alignment explanation
Indices: 6176292--6176437 Score: 184
Period size: 51 Copynumber: 2.9 Consensus size: 49
6176282 TAGCCAAAGC
* * **
6176292 TATCTGGTACGCATAGTAGCCTGCACATAGTACTACACATACGACCAAT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
* * * *
6176341 TATCCGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCACAGT
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-C-CAAT
* *
6176392 TTTCGGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
1 TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
6176438 TCACAATAGA
Statistics
Matches: 82, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
49 38 0.46
50 2 0.02
51 42 0.51
ACGTcount: A:0.28, C:0.27, G:0.19, T:0.26
Consensus pattern (49 bp):
TATCCGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAT
Found at i:6178605 original size:15 final size:14
Alignment explanation
Indices: 6178547--6178616 Score: 63
Period size: 15 Copynumber: 4.8 Consensus size: 14
6178537 TAAAGATAAT
*
6178547 AAGAAAACCAAATA
1 AAGAAATCCAAATA
6178561 AAGAAATCCAAGATA
1 AAGAAATCCAA-ATA
6178576 GAA-AAA-CCTAGAATA
1 -AAGAAATCC-A-AATA
6178591 AAGAAATCCAGAATA
1 AAGAAATCCA-AATA
*
6178606 AAGAAACCCAA
1 AAGAAATCCAA
6178617 GATACGATAC
Statistics
Matches: 48, Mismatches: 2, Indels: 12
0.77 0.03 0.19
Matches are distributed among these distances:
14 15 0.31
15 28 0.58
16 5 0.10
ACGTcount: A:0.63, C:0.16, G:0.11, T:0.10
Consensus pattern (14 bp):
AAGAAATCCAAATA
Found at i:6181740 original size:50 final size:50
Alignment explanation
Indices: 6181608--6181740 Score: 189
Period size: 50 Copynumber: 2.7 Consensus size: 50
6181598 CTGGTACGCA
* **
6181608 TAGTAGCCTGCACATAGTACTACACATGCGACC-AATTATCCTGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCTGTACACG
* * *
6181657 TAGTAGCCTGCACTTAGTCCTACACACGTGACCTAACCA-CCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCTG-TACACG
6181707 TAGTAGCCTGCACTTAGTACTACACATGCGACCT
1 TAGTAGCCTGCACTTAGTACTACACATGCGACCT
6181741 CACAATAGAT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
49 33 0.45
50 40 0.55
ACGTcount: A:0.29, C:0.31, G:0.17, T:0.24
Consensus pattern (50 bp):
TAGTAGCCTGCACTTAGTACTACACATGCGACCTAACCATCCTGTACACG
Found at i:6192175 original size:12 final size:12
Alignment explanation
Indices: 6192158--6192186 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
6192148 TGATTGATTG
6192158 CTTAACTAATTA
1 CTTAACTAATTA
6192170 CTTAACTAATTA
1 CTTAACTAATTA
6192182 CTTAA
1 CTTAA
6192187 TCAAGTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.41, C:0.17, G:0.00, T:0.41
Consensus pattern (12 bp):
CTTAACTAATTA
Found at i:6196884 original size:45 final size:45
Alignment explanation
Indices: 6196833--6196918 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
6196823 CAAAACATGT
*
6196833 GTCACATATATCACGAACTCAGACCATAACTCAATGAGTTCGGAC
1 GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGAC
* * *
6196878 GTCACATATGTCATGAACTCAGACCACAACTTAATGAGTTC
1 GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTC
6196919 AAATTACATA
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (45 bp):
GTCACATATATCACGAACTCAGACCACAACTCAATGAGTTCGGAC
Found at i:6199523 original size:18 final size:18
Alignment explanation
Indices: 6199497--6199543 Score: 76
Period size: 18 Copynumber: 2.6 Consensus size: 18
6199487 ACCATCAGAG
*
6199497 TCACTCAGAAAATCCTGT
1 TCACTCAGAAAATCCTAT
*
6199515 TCCCTCAGAAAATCCTAT
1 TCACTCAGAAAATCCTAT
6199533 TCACTCAGAAA
1 TCACTCAGAAA
6199544 CAACCATCGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.36, C:0.30, G:0.09, T:0.26
Consensus pattern (18 bp):
TCACTCAGAAAATCCTAT
Found at i:6202721 original size:41 final size:41
Alignment explanation
Indices: 6202664--6202743 Score: 142
Period size: 41 Copynumber: 2.0 Consensus size: 41
6202654 AAAGAGACTA
* *
6202664 AACAGAAAGTGAAAGTGATTCGTGAAAGTCTGAAAGCAGTG
1 AACAGAAAGTGAAAGTGATTCATGAAAGTCTAAAAGCAGTG
6202705 AACAGAAAGTGAAAGTGATTCATGAAAGTCTAAAAGCAG
1 AACAGAAAGTGAAAGTGATTCATGAAAGTCTAAAAGCAG
6202744 CGTCAAATGG
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 37 1.00
ACGTcount: A:0.45, C:0.10, G:0.26, T:0.19
Consensus pattern (41 bp):
AACAGAAAGTGAAAGTGATTCATGAAAGTCTAAAAGCAGTG
Found at i:6204556 original size:42 final size:42
Alignment explanation
Indices: 6204468--6204608 Score: 131
Period size: 43 Copynumber: 3.3 Consensus size: 42
6204458 ACCACACCTA
* * * * * *
6204468 GGACGTTGGCATCGATTTGTGATTTACGTGTAAGACCATGTTTG
1 GGACATTGGCATCG-TATATGATTT-CATGTAAGACCCTGTCTG
6204512 GGACATTGGCATCGTATATGATTTCATGTAAGACCCTGTCTG
1 GGACATTGGCATCGTATATGATTTCATGTAAGACCCTGTCTG
* * * * *
6204554 GGATAGTGGCATCAATATTTGATTACATGTAAGACCAC-GTCTG
1 GGACATTGGCATC-GTATATGATTTCATGTAAGACC-CTGTCTG
*
6204597 GGACGTTGGCAT
1 GGACATTGGCAT
6204609 TGTACGAGCT
Statistics
Matches: 81, Mismatches: 14, Indels: 5
0.81 0.14 0.05
Matches are distributed among these distances:
42 26 0.32
43 41 0.51
44 14 0.17
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.33
Consensus pattern (42 bp):
GGACATTGGCATCGTATATGATTTCATGTAAGACCCTGTCTG
Found at i:6210529 original size:71 final size:70
Alignment explanation
Indices: 6210409--6210553 Score: 263
Period size: 71 Copynumber: 2.1 Consensus size: 70
6210399 TTACAAGGCG
6210409 AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATGTT
1 AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATGTT
6210474 CAAGCC
66 CAA-CC
*
6210480 AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCATATCATTTTATACCAAATGTT
1 AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATGTT
*
6210545 TAACC
66 CAACC
6210550 AATT
1 AATT
6210554 CACAACCAAA
Statistics
Matches: 72, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
70 6 0.08
71 66 0.92
ACGTcount: A:0.30, C:0.29, G:0.09, T:0.32
Consensus pattern (70 bp):
AATTTGCCACCCATTTTGGGTCCTCCCTACAAGCATCAAATCCACATCATTTTATACCAAATGTT
CAACC
Found at i:6211504 original size:13 final size:13
Alignment explanation
Indices: 6211482--6211514 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6211472 AAGGGTTTGT
6211482 TTAT-TAAACTAA
1 TTATCTAAACTAA
6211494 TTATCTAAACTAA
1 TTATCTAAACTAA
*
6211507 TTAACTAA
1 TTATCTAA
6211515 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:6214448 original size:6 final size:6
Alignment explanation
Indices: 6214441--6214475 Score: 61
Period size: 6 Copynumber: 5.8 Consensus size: 6
6214431 AAATGCAGAG
*
6214441 AAAAAG AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
6214476 GATAGGAGGA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.86, C:0.00, G:0.03, T:0.11
Consensus pattern (6 bp):
AAAAAT
Found at i:6219650 original size:13 final size:13
Alignment explanation
Indices: 6219628--6219660 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
6219618 AAGGGTTTGT
6219628 TTAT-TAAACTAA
1 TTATCTAAACTAA
6219640 TTATCTAAACTAA
1 TTATCTAAACTAA
*
6219653 TTAACTAA
1 TTATCTAA
6219661 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:6221247 original size:40 final size:40
Alignment explanation
Indices: 6221182--6221356 Score: 305
Period size: 40 Copynumber: 4.4 Consensus size: 40
6221172 CGGATGTAAC
*
6221182 AACCAGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
*
6221222 AACCCGCACAAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
** *
6221262 AACTGGCACGAATGCCTTTGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
6221302 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
1 AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
6221342 AACCCGCACGAATGC
1 AACCCGCACGAATGC
6221357 TATGCACATA
Statistics
Matches: 126, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
40 126 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (40 bp):
AACCCGCACGAATGCCTTCGGGACTTAACCCGGTTATAAT
Found at i:6234675 original size:40 final size:40
Alignment explanation
Indices: 6234631--6234894 Score: 388
Period size: 40 Copynumber: 6.6 Consensus size: 40
6234621 AAGTGAATAT
* * * * **
6234631 ATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAA
1 ATCCGGGTTAAG-TCCCGAAGGCATTCGTGCGAGTTGTTAA
6234671 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
6234711 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
6234751 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
6234791 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * **
6234831 ATCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAA
1 ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
* * *
6234870 AACCGGGCTATGTCCCGAAGGCATT
1 ATCCGGGTTAAGTCCCGAAGGCATT
6234895 TGAACGAGGA
Statistics
Matches: 211, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
39 35 0.17
40 176 0.83
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (40 bp):
ATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAA
Found at i:6234729 original size:80 final size:80
Alignment explanation
Indices: 6234592--6234894 Score: 389
Period size: 80 Copynumber: 3.8 Consensus size: 80
6234582 TTGAATGCTG
* * * * * * *
6234592 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTG-TTAAATCCGGGTTAAG-TCCCGAAGGCA
* * **
6234654 TTTGTGCGAGATACTAAA
63 TTCGTGCGAGTTGTTAAA
6234672 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
6234737 GTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAA
6234752 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
6234817 GTGCGAGTTGTTAAA
66 GTGCGAGTTGTTAAA
* * ** * * *
6234832 TCCGGGTTATGTCCCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATT
6234895 TGAACGAGGA
Statistics
Matches: 202, Mismatches: 18, Indels: 7
0.89 0.08 0.03
Matches are distributed among these distances:
79 34 0.17
80 160 0.79
81 8 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
GTGCGAGTTGTTAAA
Found at i:6234805 original size:120 final size:119
Alignment explanation
Indices: 6234592--6234894 Score: 396
Period size: 120 Copynumber: 2.5 Consensus size: 119
6234582 TTGAATGCTG
* * * * * *
6234592 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAG-TGAATATATCCGGATTAAGAT-CCGAAGGCCT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGC-GAGTTG-ATAAATCCGGGTTAAG-TCCCGAAGGCAT
*
6234655 TTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
63 TCGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
*
6234712 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTC
* **
6234777 GTGCGAGTTGTTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
65 GTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
* * * * *
6234832 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTT-ACTAAAACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGA-TAAATCCGGGTTAAGTCCCGAAGGCATT
6234895 TGAACGAGGA
Statistics
Matches: 162, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
119 34 0.21
120 122 0.75
121 6 0.04
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (119 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGTTGATAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
Found at i:6236877 original size:40 final size:40
Alignment explanation
Indices: 6236822--6236903 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 40
6236812 TTTATCGACC
*
6236822 GTTGGGTTTCTAGGTTCTCACGAGTAGTGGTGGAATGCAA
1 GTTGGGTTTCTAGGTTCTCACGAGAAGTGGTGGAATGCAA
*
6236862 GTTGGGTTTCTAGGTTCTCACGAGAAGTGGTGGAGTGCAA
1 GTTGGGTTTCTAGGTTCTCACGAGAAGTGGTGGAATGCAA
6236902 GT
1 GT
6236904 ATTTTGGAGG
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.20, C:0.12, G:0.37, T:0.32
Consensus pattern (40 bp):
GTTGGGTTTCTAGGTTCTCACGAGAAGTGGTGGAATGCAA
Found at i:6237725 original size:27 final size:27
Alignment explanation
Indices: 6237695--6237823 Score: 168
Period size: 27 Copynumber: 4.8 Consensus size: 27
6237685 CCCTAAATTA
* *
6237695 GGTAAAATGACCGTAATGCCCCTATAA
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
6237722 GGTAAAATGACCGTAATGCCACTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* **
6237749 GGTAATATGACCGTAATGCCTTTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * * *
6237776 GGTAAAATGATCGTAATACCCATGCAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
6237803 GGTAAAATGACCGTAATGCCC
1 GGTAAAATGACCGTAATGCCC
6237824 TATAGGATTT
Statistics
Matches: 88, Mismatches: 14, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 88 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:6238176 original size:33 final size:33
Alignment explanation
Indices: 6238134--6238204 Score: 124
Period size: 33 Copynumber: 2.2 Consensus size: 33
6238124 ATTGCATTAC
*
6238134 ACTGTACTGATACTGTATAGGGCTAAGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
*
6238167 ACTGTACTGATACTGAATAGGGCTCAGGCCCAG
1 ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
6238200 ACTGT
1 ACTGT
6238205 TACTAATCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.27, T:0.24
Consensus pattern (33 bp):
ACTGTACTGATACTGAATAGGGCTAAGGCCCAG
Found at i:6239461 original size:43 final size:42
Alignment explanation
Indices: 6239401--6239512 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 42
6239391 TACAATGCCA
6239401 ATGTCCCAGAC-GTGGTCTTACATGTAATCAAATATAGATG-CC
1 ATGTCCCAGACAG-GGTCTTACATGTAATCAAATA-AGATGTCC
* * * * * *
6239443 ATTGTCCTAGATAGGGTCTTACACGAAATCAAATACGATGTCG
1 A-TGTCCCAGACAGGGTCTTACATGTAATCAAATAAGATGTCC
*
6239486 ATGTCCCAGACATGGTCTTACATGTAA
1 ATGTCCCAGACAGGGTCTTACATGTAA
6239513 ATAATAAGTC
Statistics
Matches: 56, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
42 26 0.46
43 29 0.52
44 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.20, T:0.29
Consensus pattern (42 bp):
ATGTCCCAGACAGGGTCTTACATGTAATCAAATAAGATGTCC
Found at i:6239562 original size:86 final size:85
Alignment explanation
Indices: 6239401--6239563 Score: 206
Period size: 86 Copynumber: 1.9 Consensus size: 85
6239391 TACAATGCCA
* * *
6239401 ATGTCCCAGACGTGGTCTTACATGTAATCAAATATAGATGCCATTGTCCTAGATAGGGTCTTACA
1 ATGTCCCAGACATGGTCTTACATGTAATCAAATATAGATGCCAATGTCCCAGATAGGGTCTTACA
6239466 CGAAATCAAATACGATGTCG
66 CGAAATCAAATACGATGTCG
* * * *
6239486 ATGTCCCAGACATGGTCTTACATGTAA--ATAATAAGTCGATGCTAATGTCCCAGA-CGTGGTTT
1 ATGTCCCAGACATGGTCTTACATGTAATCA-AAT-A-TAGATGCCAATGTCCCAGATAG-GGTCT
6239548 TACACGAAATCAAATA
62 TACACGAAATCAAATA
6239564 TCGAATCCTA
Statistics
Matches: 67, Mismatches: 7, Indels: 7
0.83 0.09 0.09
Matches are distributed among these distances:
83 1 0.01
84 3 0.04
85 28 0.42
86 35 0.52
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.28
Consensus pattern (85 bp):
ATGTCCCAGACATGGTCTTACATGTAATCAAATATAGATGCCAATGTCCCAGATAGGGTCTTACA
CGAAATCAAATACGATGTCG
Found at i:6241214 original size:20 final size:20
Alignment explanation
Indices: 6241174--6241215 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
6241164 ACCAAACTTT
*
6241174 AAATTAATTGTATGTATTTG
1 AAATTAATTGTATGTAATTG
6241194 AAATTAA-TGTATGTAGATTG
1 AAATTAATTGTATGTA-ATTG
6241214 AA
1 AA
6241216 TATAAGTAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 8 0.40
20 12 0.60
ACGTcount: A:0.40, C:0.00, G:0.17, T:0.43
Consensus pattern (20 bp):
AAATTAATTGTATGTAATTG
Found at i:6241438 original size:22 final size:23
Alignment explanation
Indices: 6241376--6241456 Score: 110
Period size: 23 Copynumber: 3.6 Consensus size: 23
6241366 TAGCTCGTAT
6241376 GAGCTTACCGTTTTAGCTCTTCA
1 GAGCTTACCGTTTTAGCTCTTCA
* *
6241399 GGGCTTACCGTTTTAGCTCTACA
1 GAGCTTACCGTTTTAGCTCTTCA
* *
6241422 GAGCTTACC-ATTTAGCTCTTCG
1 GAGCTTACCGTTTTAGCTCTTCA
*
6241444 GAGCTTACTGTTT
1 GAGCTTACCGTTT
6241457 ATCAGCTTAG
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
22 18 0.37
23 31 0.63
ACGTcount: A:0.17, C:0.25, G:0.20, T:0.38
Consensus pattern (23 bp):
GAGCTTACCGTTTTAGCTCTTCA
Found at i:6244176 original size:21 final size:20
Alignment explanation
Indices: 6244146--6244190 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 20
6244136 TTGGGGTCGA
*
6244146 TGGG-CCATATGAATGTGATT
1 TGGGCCCATATGAATGAGA-T
6244166 TGGGCCCATATGAATGAGAT
1 TGGGCCCATATGAATGAGAT
6244186 TGGGC
1 TGGGC
6244191 TTAGTGGGCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.24, C:0.13, G:0.33, T:0.29
Consensus pattern (20 bp):
TGGGCCCATATGAATGAGAT
Found at i:6245287 original size:17 final size:18
Alignment explanation
Indices: 6245256--6245289 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6245246 TTTAAAGAAG
6245256 GGTTTTTAATGAAAACAA
1 GGTTTTTAATGAAAACAA
*
6245274 GGTTTTTGAT-AAAACA
1 GGTTTTTAATGAAAACA
6245290 TTTCAATGTG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.41, C:0.06, G:0.18, T:0.35
Consensus pattern (18 bp):
GGTTTTTAATGAAAACAA
Found at i:6248409 original size:16 final size:16
Alignment explanation
Indices: 6248388--6248418 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
6248378 ACAAAATCCC
6248388 GAAATGCCGAAAAGTT
1 GAAATGCCGAAAAGTT
*
6248404 GAAATGCCTAAAAGT
1 GAAATGCCGAAAAGT
6248419 CGGAAGTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.45, C:0.13, G:0.23, T:0.19
Consensus pattern (16 bp):
GAAATGCCGAAAAGTT
Found at i:6252528 original size:41 final size:43
Alignment explanation
Indices: 6252472--6252580 Score: 120
Period size: 43 Copynumber: 2.6 Consensus size: 43
6252462 GGTTATGTGT
*
6252472 AAGACCATGTCTGGGACA-TCGGCATCG-TATATGATT-CATGC
1 AAGACCCTGTCTGGGACAGT-GGCATCGATATATGATTACATGC
* * *
6252513 AAGACCCTGTCTGGGATAGTGGCATCGATATGTGATTACATGT
1 AAGACCCTGTCTGGGACAGTGGCATCGATATATGATTACATGC
6252556 AAGACCAC-GTCTGGGAC-GTTGGCAT
1 AAGACC-CTGTCTGGGACAG-TGGCAT
6252581 TGTACGATAT
Statistics
Matches: 58, Mismatches: 5, Indels: 8
0.82 0.07 0.11
Matches are distributed among these distances:
41 23 0.40
42 10 0.17
43 24 0.41
44 1 0.02
ACGTcount: A:0.26, C:0.20, G:0.28, T:0.27
Consensus pattern (43 bp):
AAGACCCTGTCTGGGACAGTGGCATCGATATATGATTACATGC
Found at i:6254127 original size:24 final size:24
Alignment explanation
Indices: 6254095--6254142 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
6254085 AAATTATGAC
6254095 CATTAGAATAGTAAAAAGAAATGT
1 CATTAGAATAGTAAAAAGAAATGT
6254119 CATTAGAATAGTAAAAAGAAATGT
1 CATTAGAATAGTAAAAAGAAATGT
6254143 TAACTTAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.04, G:0.17, T:0.25
Consensus pattern (24 bp):
CATTAGAATAGTAAAAAGAAATGT
Found at i:6260898 original size:41 final size:42
Alignment explanation
Indices: 6260845--6260953 Score: 125
Period size: 42 Copynumber: 2.6 Consensus size: 42
6260835 TAGTTATGTC
* * * *
6260845 TAAGACCATATCTGGGACA-TCGGCGTCG-TATTTGATTCGTG
1 TAAGACCATATCTGGGACAGT-GGCATCGATATGTGATACATG
*
6260886 TAAGACCCTATCTGGGACAGTGGCATCGATATGTGATACATG
1 TAAGACCATATCTGGGACAGTGGCATCGATATGTGATACATG
*
6260928 TAAGACCATGTCTGGGAC-GTTGGCAT
1 TAAGACCATATCTGGGACAG-TGGCAT
6260954 TGCACGATAT
Statistics
Matches: 58, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
41 25 0.43
42 33 0.57
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (42 bp):
TAAGACCATATCTGGGACAGTGGCATCGATATGTGATACATG
Found at i:6263438 original size:9 final size:9
Alignment explanation
Indices: 6263421--6263494 Score: 94
Period size: 9 Copynumber: 8.2 Consensus size: 9
6263411 AGTATAAAAC
*
6263421 TAACTGAAT
1 TAACCGAAT
6263430 TAACCGAAT
1 TAACCGAAT
*
6263439 TAATCGAAT
1 TAACCGAAT
*
6263448 TAACCAAAT
1 TAACCGAAT
*
6263457 TACCCGAAT
1 TAACCGAAT
*
6263466 TACCCGAAT
1 TAACCGAAT
*
6263475 TACCCGAAT
1 TAACCGAAT
6263484 TAACCGAAT
1 TAACCGAAT
6263493 TA
1 TA
6263495 TTTGTATAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 58 1.00
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (9 bp):
TAACCGAAT
Found at i:6263624 original size:28 final size:29
Alignment explanation
Indices: 6263584--6263638 Score: 85
Period size: 28 Copynumber: 1.9 Consensus size: 29
6263574 TATGATTGGG
6263584 TTGGGTACTTGGGTTA-GTATATATTAGA
1 TTGGGTACTTGGGTTATGTATATATTAGA
* *
6263612 TTGGGTATTTGGGTTATTTATATATTA
1 TTGGGTACTTGGGTTATGTATATATTA
6263639 TAATTTTATT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.62
29 9 0.38
ACGTcount: A:0.24, C:0.02, G:0.25, T:0.49
Consensus pattern (29 bp):
TTGGGTACTTGGGTTATGTATATATTAGA
Found at i:6264143 original size:27 final size:27
Alignment explanation
Indices: 6264113--6264177 Score: 103
Period size: 27 Copynumber: 2.4 Consensus size: 27
6264103 CCCCAAAATA
*
6264113 GGTAAAATGACCGTAATGCCCCTGTAG
1 GGTAAAATGACCGTAATACCCCTGTAG
* *
6264140 GGTAAAATGATCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAATACCCCTGTAG
6264167 GGTAAAATGAC
1 GGTAAAATGAC
6264178 GATTATGCCC
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.34, C:0.18, G:0.23, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATACCCCTGTAG
Found at i:6264377 original size:27 final size:27
Alignment explanation
Indices: 6264314--6264365 Score: 70
Period size: 27 Copynumber: 2.0 Consensus size: 27
6264304 TGGAGGAAGT
* * *
6264314 ACTG-TACTGGTGACTATGTCACATTC
1 ACTGATACTGGTGGCTTTGCCACATTC
6264340 ACTGATACTGGTGGCTTTGCCACATT
1 ACTGATACTGGTGGCTTTGCCACATT
6264366 TACTATTACT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.21, C:0.23, G:0.21, T:0.35
Consensus pattern (27 bp):
ACTGATACTGGTGGCTTTGCCACATTC
Found at i:6271237 original size:40 final size:40
Alignment explanation
Indices: 6270959--6271230 Score: 458
Period size: 40 Copynumber: 6.8 Consensus size: 40
6270949 NNNNNGATAA
6270959 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
6270999 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
6271039 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
6271079 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
*
6271119 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTTACTA-TAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
* * * *
6271159 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-TAA
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGT-T
*
6271199 CCGGGCTAAGTCCCGAAGGCATTTGAGCTAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGT
6271231 AGCTATATCC
Statistics
Matches: 225, Mismatches: 6, Indels: 2
0.97 0.03 0.01
Matches are distributed among these distances:
39 1 0.00
40 224 1.00
ACGTcount: A:0.21, C:0.25, G:0.29, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCTAGTGACTAGTT
Found at i:6278746 original size:40 final size:39
Alignment explanation
Indices: 6278691--6278784 Score: 136
Period size: 40 Copynumber: 2.4 Consensus size: 39
6278681 NNNNNNNNNN
*
6278691 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-G
6278731 GCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCG
1 GCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCG
* *
6278770 GTTAAATCCCGAAGG
1 GCTAAGTCCCGAAGG
6278785 TACTTGGTTT
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
39 16 0.32
40 34 0.68
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
GCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCG
Found at i:6281214 original size:27 final size:27
Alignment explanation
Indices: 6281195--6281406 Score: 282
Period size: 27 Copynumber: 7.9 Consensus size: 27
6281185 ATTACCAAAG
6281195 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
6281222 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
6281249 TACCTTCTATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
6281276 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
6281303 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * * *
6281330 TACCTTCTATTTACAAAATTACTGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
6281357 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
6281384 TACCCTCGA-TTAGCAGAATTACC
1 TACCCTCGATTTA-CAGAATTACC
6281407 AAAATAACCA
Statistics
Matches: 156, Mismatches: 28, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
26 3 0.02
27 153 0.98
ACGTcount: A:0.28, C:0.23, G:0.08, T:0.41
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:6281292 original size:81 final size:81
Alignment explanation
Indices: 6281195--6281407 Score: 392
Period size: 81 Copynumber: 2.6 Consensus size: 81
6281185 ATTACCAAAG
*
6281195 TACCCTCGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCTTCTATT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCTTCTATT
6281260 TACAAAATTACTGTTT
66 TACAAAATTACTGTTT
6281276 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCTTCTATT
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCTTCTATT
6281341 TACAAAATTACTGTTT
66 TACAAAATTACTGTTT
*
6281357 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGA-TTAGCAGAATTACCA
1 TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTA-TAGAATTACCA
6281408 AAATAACCAA
Statistics
Matches: 129, Mismatches: 2, Indels: 2
0.97 0.02 0.02
Matches are distributed among these distances:
80 3 0.02
81 126 0.98
ACGTcount: A:0.29, C:0.23, G:0.08, T:0.40
Consensus pattern (81 bp):
TACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACCATTTTACCTTCTATT
TACAAAATTACTGTTT
Found at i:6281446 original size:27 final size:27
Alignment explanation
Indices: 6281407--6281506 Score: 128
Period size: 27 Copynumber: 3.7 Consensus size: 27
6281397 CAGAATTACC
* *
6281407 AAAATAACCAAAATATCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
6281434 AAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * *
6281461 CAAATTACCAAAATGCCCCTGGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
6281488 AAAATTATCGAAATACCCC
1 AAAATTACCAAAATACCCC
6281507 CGTAGGGTAG
Statistics
Matches: 62, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 62 1.00
ACGTcount: A:0.38, C:0.23, G:0.11, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:6281520 original size:27 final size:27
Alignment explanation
Indices: 6281497--6281630 Score: 153
Period size: 27 Copynumber: 5.0 Consensus size: 27
6281487 TAAAATTATC
*
6281497 GAAATACCCCCGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
6281524 AAAATACCCTTGTAGGGTAGAAATACT
1 GAAATACCCCTGTAGGGTAGAATTACT
*
6281551 GAAATACCCCTGTAGGATAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
6281578 GATATACCCCTATAGGGTAGAATTA-T
1 GAAATACCCCTGTAGGGTAGAATTACT
* * * *
6281604 CGAGATACCCTTGTGGGGTAAAATTAC
1 -GAAATACCCCTGTAGGGTAGAATTAC
6281631 CATTTTGCCC
Statistics
Matches: 89, Mismatches: 16, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
26 1 0.01
27 88 0.99
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:6281868 original size:25 final size:25
Alignment explanation
Indices: 6281834--6281903 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
6281824 AGGAAGTGCT
*
6281834 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
6281859 AAAAGGGCTTTGCCCCATTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
*
6281884 AAAAGGGTTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
6281904 ATTAAAAGAG
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 40 1.00
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:6283068 original size:69 final size:69
Alignment explanation
Indices: 6282981--6283120 Score: 244
Period size: 69 Copynumber: 2.0 Consensus size: 69
6282971 TTATAGATTG
* *
6282981 AAGTGCTATATTAAGAAACTACTATAGATAGTAGCACTATATTGGAACTCTCTAGTTAGAGTAAA
1 AAGTGCTATATTAAGAAACTACTATAGATAGTAGCACTATACTAGAACTCTCTAGTTAGAGTAAA
6283046 CTGT
66 CTGT
* *
6283050 AAGTGCTATATTGAGAAACTACTATAGATAGTAGCGCTATACTAGAACTCTCTAGTTAGAGTAAA
1 AAGTGCTATATTAAGAAACTACTATAGATAGTAGCACTATACTAGAACTCTCTAGTTAGAGTAAA
6283115 CTGT
66 CTGT
6283119 AA
1 AA
6283121 CGCTTGAATT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
69 67 1.00
ACGTcount: A:0.38, C:0.14, G:0.18, T:0.31
Consensus pattern (69 bp):
AAGTGCTATATTAAGAAACTACTATAGATAGTAGCACTATACTAGAACTCTCTAGTTAGAGTAAA
CTGT
Found at i:6284388 original size:27 final size:27
Alignment explanation
Indices: 6284343--6284394 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
6284333 TTTAGTTTAC
* *
6284343 AAAATTACTAAAATGCCCTCAATTTGT
1 AAAATTACCAAAATACCCTCAATTTGT
* *
6284370 AAAATTACCAAAGTACCCTCGATTT
1 AAAATTACCAAAATACCCTCAATTT
6284395 ACAGAATTAC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAAATTACCAAAATACCCTCAATTTGT
Found at i:6284402 original size:27 final size:27
Alignment explanation
Indices: 6284383--6284540 Score: 221
Period size: 27 Copynumber: 5.9 Consensus size: 27
6284373 ATTACCAAAG
*
6284383 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* *
6284410 TACCCT-GATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCATTT
* * *
6284436 TATCCTCGTTTTATAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
6284463 TACCCTCGATTTACAGAATTACTATTT
1 TACCCTCGATTTACAGAATTACCATTT
6284490 TACCCTCGATTTACAGAATTACCATTT
1 TACCCTCGATTTACAGAATTACCATTT
*
6284517 TACCCTCGA-TTAGCAAAATTACCA
1 TACCCTCGATTTA-CAGAATTACCA
6284541 AAATACCCCT
Statistics
Matches: 119, Mismatches: 10, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 27 0.23
27 92 0.77
ACGTcount: A:0.29, C:0.23, G:0.09, T:0.39
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCATTT
Found at i:6284547 original size:27 final size:27
Alignment explanation
Indices: 6284517--6284629 Score: 86
Period size: 27 Copynumber: 4.2 Consensus size: 27
6284507 ATTACCATTT
*
6284517 TACCCTCGATTAGCAAAATTACCAAAA
1 TACCCTCGATTAGTAAAATTACCAAAA
* * *
6284544 TACCC-CTGGTTTGTAAAATTACTAAAA
1 TACCCTC-GATTAGTAAAATTACCAAAA
* * * * *
6284571 TACCCTTGGTTTGTAGAATTACCGAAA
1 TACCCTCGATTAGTAAAATTACCAAAA
* * *
6284598 TACCCCTAGCTT-GTAAAATTACCGAAA
1 TA-CCCTCGATTAGTAAAATTACCAAAA
6284625 TACCC
1 TACCC
6284630 CTGTAGGGTA
Statistics
Matches: 72, Mismatches: 11, Indels: 7
0.80 0.12 0.08
Matches are distributed among these distances:
26 4 0.06
27 61 0.85
28 7 0.10
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (27 bp):
TACCCTCGATTAGTAAAATTACCAAAA
Found at i:6284548 original size:54 final size:54
Alignment explanation
Indices: 6284370--6284548 Score: 200
Period size: 54 Copynumber: 3.3 Consensus size: 54
6284360 CTCAATTTGT
* * *
6284370 AAAATTACCAAAGTACCCTCGATTTACAGAATTACCGTTTTACCCT-GATTTAT
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
* *** * * *
6284423 AGAATTACCGTTTTATCCTCGTTTTATAGAATTACCATTTTACCCTCGATTTAC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
* * **
6284477 AGAATTACTATTTTACCCTCGATTTACAGAATTACCATTTTACCCTCGA-TTAGC
1 AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTA-C
*
6284531 AAAATTACCAAAATACCC
1 AAAATTACCAAATTACCC
6284549 CTGGTTTGTA
Statistics
Matches: 104, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
53 40 0.38
54 64 0.62
ACGTcount: A:0.32, C:0.23, G:0.08, T:0.36
Consensus pattern (54 bp):
AAAATTACCAAATTACCCTCGATTTACAGAATTACCATTTTACCCTCGATTTAC
Found at i:6284564 original size:54 final size:54
Alignment explanation
Indices: 6284517--6284629 Score: 136
Period size: 54 Copynumber: 2.1 Consensus size: 54
6284507 ATTACCATTT
* * *
6284517 TACCCTCGATTAGCAAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAA
1 TACCCTCGATTAGCAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAAAA
* * * * * * *
6284571 TACCCTTGGTTTGTAGAATTACCGAAATACCCCTAGCTTGTAAAATTACCGAAA
1 TACCCTCGATTAGCAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAAAA
6284625 TACCC
1 TACCC
6284630 CTGTAGGGTA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
54 49 1.00
ACGTcount: A:0.36, C:0.24, G:0.12, T:0.28
Consensus pattern (54 bp):
TACCCTCGATTAGCAAAATTACCAAAATACCCCTAGCTTGTAAAATTACCAAAA
Found at i:6284630 original size:27 final size:27
Alignment explanation
Indices: 6284531--6284632 Score: 141
Period size: 27 Copynumber: 3.8 Consensus size: 27
6284521 CTCGATTAGC
6284531 AAAATTACCAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* *
6284558 AAAATTACTAAAATACCCTTGGTTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
* * * *
6284585 AGAATTACCGAAATACCCCTAGCTTGT
1 AAAATTACCAAAATACCCCTGGTTTGT
*
6284612 AAAATTACCGAAATACCCCTG
1 AAAATTACCAAAATACCCCTG
6284633 TAGGGTAGAA
Statistics
Matches: 65, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 65 1.00
ACGTcount: A:0.37, C:0.23, G:0.12, T:0.28
Consensus pattern (27 bp):
AAAATTACCAAAATACCCCTGGTTTGT
Found at i:6284641 original size:54 final size:54
Alignment explanation
Indices: 6284533--6284713 Score: 195
Period size: 54 Copynumber: 3.4 Consensus size: 54
6284523 CGATTAGCAA
* * * ** * **
6284533 AATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCTTGGT-TTGTAG
1 AATTACCGAAATACCCCTAGCTTGTAAAATTACCGAAATACCCCT-GTAGGGTAG
6284587 AATTACCGAAATACCCCTAGCTTGTAAAATTACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTAGCTTGTAAAATTACCGAAATACCCCTGTAGGGTAG
* * * ** *
6284641 AATTACTGAATTA-CCCTTGCAGGGTAAAAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTAGC-TTGTAAAATTACCGAAATACCCCTGTAGGGTAG
*
6284695 AATTACTGAAATACCCCTA
1 AATTACCGAAATACCCCTA
6284714 TAGGGTAGAA
Statistics
Matches: 108, Mismatches: 16, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
53 8 0.07
54 96 0.89
55 4 0.04
ACGTcount: A:0.36, C:0.22, G:0.15, T:0.27
Consensus pattern (54 bp):
AATTACCGAAATACCCCTAGCTTGTAAAATTACCGAAATACCCCTGTAGGGTAG
Found at i:6284644 original size:27 final size:27
Alignment explanation
Indices: 6284583--6284755 Score: 179
Period size: 27 Copynumber: 6.4 Consensus size: 27
6284573 CCCTTGGTTT
*
6284583 GTAGAATTACCGAAATACCCC--TAGCTT
1 GTAGAATTACCGAAATACCCCTGTAG--G
*
6284610 GTAAAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
6284637 GTAGAATTACTGAATTACCCTTGCAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
6284664 GTAAAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
6284691 GTAGAATTACTGAAATACCCCTATAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* * * *
6284718 GTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
6284745 GTAAAATTACC
1 GTAGAATTACC
6284756 ATTTTGCCCC
Statistics
Matches: 119, Mismatches: 25, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
27 116 0.97
29 3 0.03
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.25
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:6284645 original size:81 final size:80
Alignment explanation
Indices: 6284531--6284726 Score: 198
Period size: 81 Copynumber: 2.4 Consensus size: 80
6284521 CTCGATTAGC
* ** * **** * *
6284531 AAAATTACCAAAATACCCCTGGT-TTGTAAAATTACTAAAATACCCTTGGTTTGTAGAATTACCG
1 AAAATTACCGAAATACCCCT-GTAGGGTAGAATTACTAAAATACCCTTGCAGGGTAAAAATACCG
*
6284595 AAATACCCCTAGCT-TGT
65 AAATACCCCT-G-TAGGT
* *
6284612 AAAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAATTACCCTTGCAGGGTAAAAATACCGA
1 AAAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCTTGCAGGGTAAAAATACCGA
6284677 AATACCCCTGTAGGGT
66 AATACCCCTGTA-GGT
* * *
6284693 AGAATTACTGAAATACCCCTATAGGGTAGAATTA
1 AAAATTACCGAAATACCCCTGTAGGGTAGAATTA
6284727 TCGAGATACC
Statistics
Matches: 96, Mismatches: 16, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
79 1 0.01
80 3 0.03
81 92 0.96
ACGTcount: A:0.37, C:0.20, G:0.16, T:0.27
Consensus pattern (80 bp):
AAAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCTTGCAGGGTAAAAATACCGA
AATACCCCTGTAGGT
Found at i:6284719 original size:54 final size:54
Alignment explanation
Indices: 6284583--6284754 Score: 202
Period size: 54 Copynumber: 3.2 Consensus size: 54
6284573 CCCTTGGTTT
* **
6284583 GTAGAATTACCGAAATACCCCTAGC-TTGTAAAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTA-CAGGGTAAAATTACCGAAATACCCCTGTAGG
* * * *
6284637 GTAGAATTACTGAATTACCCTTGCAGGGTAAAAATACCGAAATACCCCTGTAGG
1 GTAGAATTACTGAAATACCCCTACAGGGTAAAATTACCGAAATACCCCTGTAGG
* * * * * *
6284691 GTAGAATTACTGAAATACCCCTATAGGGTAGAATTATCGAGATACCCTTGTGGG
1 GTAGAATTACTGAAATACCCCTACAGGGTAAAATTACCGAAATACCCCTGTAGG
*
6284745 GTAAAATTAC
1 GTAGAATTAC
6284755 CATTTTGCCC
Statistics
Matches: 99, Mismatches: 18, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 1 0.01
54 98 0.99
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.26
Consensus pattern (54 bp):
GTAGAATTACTGAAATACCCCTACAGGGTAAAATTACCGAAATACCCCTGTAGG
Found at i:6285029 original size:24 final size:25
Alignment explanation
Indices: 6284958--6285040 Score: 123
Period size: 25 Copynumber: 3.4 Consensus size: 25
6284948 AAGAAGTGCT
* *
6284958 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
6284983 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
6285008 AAAAGGGCTTTGCCCCAG-TTATTA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
6285032 AAAGGGGCT
1 AAAAGGGCT
6285041 AGGCCTCCAG
Statistics
Matches: 54, Mismatches: 4, Indels: 1
0.92 0.07 0.02
Matches are distributed among these distances:
24 13 0.24
25 41 0.76
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:6285051 original size:50 final size:50
Alignment explanation
Indices: 6284958--6285052 Score: 122
Period size: 50 Copynumber: 1.9 Consensus size: 50
6284948 AAGAAGTGCT
**
6284958 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
**
6285008 AAAAGGGCTTTGCCCCAG-TTA-TTAAAAGGGGCTAGGCCTCCAGTT
1 AAAAGGGCTTTGCCCCAGTTTACCGAAAA-GGGCTAGGCC-CCAGTT
6285053 ATATGATAAA
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
48 4 0.10
49 11 0.28
50 24 0.62
ACGTcount: A:0.26, C:0.24, G:0.24, T:0.25
Consensus pattern (50 bp):
AAAAGGGCTTTGCCCCAGTTTACCGAAAAGGGCTAGGCCCCAGTTTATCA
Found at i:6295044 original size:14 final size:14
Alignment explanation
Indices: 6295025--6295051 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6295015 CTGAAATTTC
6295025 GAGATAGAATTTGA
1 GAGATAGAATTTGA
6295039 GAGATAGAATTTG
1 GAGATAGAATTTG
6295052 TGTCCCGAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.41, C:0.00, G:0.30, T:0.30
Consensus pattern (14 bp):
GAGATAGAATTTGA
Found at i:6296861 original size:21 final size:21
Alignment explanation
Indices: 6296837--6296878 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
6296827 AGAGAAAAAG
6296837 AAAACTAAGGTTCGACACTTT
1 AAAACTAAGGTTCGACACTTT
6296858 AAAACTAAGGTTCGACACTTT
1 AAAACTAAGGTTCGACACTTT
6296879 GATTTGGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.38, C:0.19, G:0.14, T:0.29
Consensus pattern (21 bp):
AAAACTAAGGTTCGACACTTT
Found at i:6299042 original size:20 final size:20
Alignment explanation
Indices: 6299004--6299049 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
6298994 GACCTGTACT
6299004 TGTTT-GAAAAATGTTTATG
1 TGTTTGGAAAAATGTTTATG
*
6299023 T-TTTGGAAAAATTTTGTATG
1 TGTTTGGAAAAATGTT-TATG
6299043 TGTTTGG
1 TGTTTGG
6299050 TTTAGTCCTG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 3 0.13
19 10 0.43
20 5 0.22
21 5 0.22
ACGTcount: A:0.26, C:0.00, G:0.24, T:0.50
Consensus pattern (20 bp):
TGTTTGGAAAAATGTTTATG
Found at i:6301395 original size:42 final size:43
Alignment explanation
Indices: 6301326--6301428 Score: 104
Period size: 42 Copynumber: 2.4 Consensus size: 43
6301316 GATTTATGTA
* ** * *
6301326 TAAGACCATGTCTGGGACATCGACATCG-TATATG-ATTTCGTG
1 TAAGACCCTGTCTGGGACAGAGACATCGATAT-TGAATTACCTG
* *
6301368 TAAGACCCTGTCTGGGATAGAGGCATCGATATTGAATTACCTG
1 TAAGACCCTGTCTGGGACAGAGACATCGATATTGAATTACCTG
6301411 TAAGACCAC-GTCTGGGAC
1 TAAGACC-CTGTCTGGGAC
6301429 GTCAGCATTG
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
42 25 0.50
43 24 0.48
44 1 0.02
ACGTcount: A:0.27, C:0.20, G:0.25, T:0.27
Consensus pattern (43 bp):
TAAGACCCTGTCTGGGACAGAGACATCGATATTGAATTACCTG
Found at i:6309341 original size:40 final size:40
Alignment explanation
Indices: 6309315--6310297 Score: 1295
Period size: 40 Copynumber: 24.6 Consensus size: 40
6309305 GCTACTCGCT
* ** *
6309315 CAAATGCCTTCGGGACTTAGCCC-GGATATAGTAGTTCGCA
1 CAAATGCCTTCGGGACTTAGCCCTGAAT-TAGTAACTCACA
* * *
6309355 CAAATGCCTTCGAGACTTAGCCC-GGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCTGAAT-TAGTAACTCACA
*
6309395 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCTGAATTAGTAACTCACA
*
6309435 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCTGAATTAGTAACTCACA
*
6309475 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCTGAATTAGTAACTCACA
* *
6309515 CAAATGCCTTCGGGGCTTAGCCC-GAAATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCTG-AATTAGTAACTCA-CA
*
6309555 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCTGAATTAGTAACTCACA
* *
6309595 CAAATGCCTTCGGGGCTTAGCCC-GAAATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCTG-AATTAGTAACTCA-CA
*
6309635 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCTGAATTAGTAACTCACA
* *
6309675 CAAATGCCTTCGGGGCTTAGCCC-GAAATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCTG-AATTAGTAACTCA-CA
*
6309715 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCTGAATTAGTAACTCACA
* *
6309755 CAAATGCCTTCGGGGCTTAGCCC-GAAATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCTG-AATTAGTAACTCA-CA
*
6309795 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCTGAATTAGTAACTCACA
* *
6309835 CAAATGCCTTCGGGGCTTAGCCC-GAAATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCTG-AATTAGTAACTCA-CA
*
6309875 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCTGAATTAGTAACTCACA
* *
6309915 CAAATGCCTTCGGGGCTTAGCCC-GAAATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCTG-AATTAGTAACTCA-CA
*
6309955 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCTGAATTAGTAACTCACA
* *
6309995 CAAATGCCTTCGGGGCTTAGCCC-GAAATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCTG-AATTAGTAACTCA-CA
*
6310035 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCTGAATTAGTAACTCACA
*
6310075 CAAATGCCTTCGGGGCTTAGCCC-GAAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCTG-AATTAGTAACTCACA
*
6310115 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCTGAATTAGTAACTCACA
* *
6310155 CAAATGCCTTCGGGGCTTAGCCC-GAAATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCTG-AATTAGTAACTCA-CA
*
6310195 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAGCCCTGAATTAGTAACTCACA
* *
6310235 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTCACT-AGCA
1 CAAATGCCTTCGGGACTTAGCCCTGAATTAGTAACTCA-CA
*
6310275 CAAATGCCTTCGTGACTTAGCCC
1 CAAATGCCTTCGGGACTTAGCCC
6310298 CGTTATCATC
Statistics
Matches: 843, Mismatches: 64, Indels: 72
0.86 0.07 0.07
Matches are distributed among these distances:
39 18 0.02
40 805 0.95
41 20 0.02
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCTGAATTAGTAACTCACA
Found at i:6309437 original size:80 final size:80
Alignment explanation
Indices: 6309315--6310293 Score: 1707
Period size: 80 Copynumber: 12.2 Consensus size: 80
6309305 GCTACTCGCT
* * ** * * *
6309315 CAAATGCCTTCGGGACTTAGCCC-GGATATAGTAGTTCGCACAAATGCCTTCGAGACTTAGCCCG
1 CAAATGCCTTCGGGACTTATCCCTGAAT-TAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCG
* * *
6309379 -GATATAGTAACTCGCA
65 AAAT-TAGTCACTAGCA
* * * *
6309395 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCACACAAATGCCTTCGGGACTTATCCCTG
1 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCC-G
*
6309460 -AATTAGTAACTCA-CA
65 AAATTAGTCACT-AGCA
6309475 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
1 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
6309540 AATTAGTCACTAGCA
66 AATTAGTCACTAGCA
6309555 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
1 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
6309620 AATTAGTCACTAGCA
66 AATTAGTCACTAGCA
6309635 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
1 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
6309700 AATTAGTCACTAGCA
66 AATTAGTCACTAGCA
6309715 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
1 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
6309780 AATTAGTCACTAGCA
66 AATTAGTCACTAGCA
6309795 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
1 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
6309860 AATTAGTCACTAGCA
66 AATTAGTCACTAGCA
6309875 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
1 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
6309940 AATTAGTCACTAGCA
66 AATTAGTCACTAGCA
6309955 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
1 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
6310020 AATTAGTCACTAGCA
66 AATTAGTCACTAGCA
6310035 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
1 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
*
6310100 AATTAGTAACTCA-CA
66 AATTAGTCACT-AGCA
6310115 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
1 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
6310180 AATTAGTCACTAGCA
66 AATTAGTCACTAGCA
* *
6310195 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
6310260 AATTAGTCACTAGCA
66 AATTAGTCACTAGCA
*
6310275 CAAATGCCTTCGTGACTTA
1 CAAATGCCTTCGGGACTTA
6310294 GCCCCGTTAT
Statistics
Matches: 874, Mismatches: 18, Indels: 14
0.96 0.02 0.02
Matches are distributed among these distances:
79 3 0.00
80 864 0.99
81 7 0.01
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (80 bp):
CAAATGCCTTCGGGACTTATCCCTGAATTAGTAACTCACACAAATGCCTTCGGGGCTTAGCCCGA
AATTAGTCACTAGCA
Found at i:6312769 original size:42 final size:41
Alignment explanation
Indices: 6312653--6312772 Score: 118
Period size: 43 Copynumber: 2.9 Consensus size: 41
6312643 GTCTAAGACA
* *
6312653 TCGTGTAAGACCGTGTCTGGGACACAGGCCTCGATTGAGATT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGATT-AGATT
* * *
6312695 TACGTATAAGAACATGTCTAGGACATCA-GCATCGTATCT-GATT
1 T-CGTGTAAGACCATGTCTGGGACA-CAGGCATCG-AT-TAGATT
* *
6312738 TCGTGTAAGACCCTGTCTGGGACAGAGGCATCGAT
1 TCGTGTAAGACCATGTCTGGGACACAGGCATCGAT
6312773 ATTGAATTAC
Statistics
Matches: 63, Mismatches: 10, Indels: 11
0.75 0.12 0.13
Matches are distributed among these distances:
41 3 0.05
42 26 0.41
43 29 0.46
44 4 0.06
45 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (41 bp):
TCGTGTAAGACCATGTCTGGGACACAGGCATCGATTAGATT
Found at i:6323601 original size:29 final size:29
Alignment explanation
Indices: 6323557--6323612 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
6323547 ACACTTACTG
6323557 TACTGGCAACTATGCTGCGTCATTGTTAT
1 TACTGGCAACTATGCTGCGTCATTGTTAT
* * *
6323586 TACTGGCAGCTTTGCTGCGTTATTGTT
1 TACTGGCAACTATGCTGCGTCATTGTT
6323613 GTGCTGGTTG
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.16, C:0.20, G:0.23, T:0.41
Consensus pattern (29 bp):
TACTGGCAACTATGCTGCGTCATTGTTAT
Done.