Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D11
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: 68311261
ACGTcount: A:0.33, C:0.17, G:0.16, T:0.33
Warning! 408745 characters in sequence are not A, C, G, or T
File 42 of 226
Found at i:14264241 original size:43 final size:45
Alignment explanation
Indices: 14264188--14264274 Score: 133
Period size: 43 Copynumber: 2.0 Consensus size: 45
14264178 TTCAATGCAA
* *
14264188 ATTTCAAAGGCCTCACACCCTTTTTTTTT-TTTTCATTT-ATTTC
1 ATTTAAAAGGCCTCACACCCTTTTTTTTTCATTTCATTTCATTTC
*
14264231 ATTTAAAAGGCCTCACATCCTTTTTTTTTCATTTCATTTCATTT
1 ATTTAAAAGGCCTCACACCCTTTTTTTTTCATTTCATTTCATTT
14264275 TTATTTCATT
Statistics
Matches: 39, Mismatches: 3, Indels: 2
0.89 0.07 0.05
Matches are distributed among these distances:
43 27 0.69
44 8 0.21
45 4 0.10
ACGTcount: A:0.21, C:0.22, G:0.05, T:0.53
Consensus pattern (45 bp):
ATTTAAAAGGCCTCACACCCTTTTTTTTTCATTTCATTTCATTTC
Found at i:14264280 original size:16 final size:17
Alignment explanation
Indices: 14264255--14264286 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
14264245 ACATCCTTTT
14264255 TTTTTCATTTCATTTCA
1 TTTTTCATTTCATTTCA
14264272 TTTTT-ATTTCATTTC
1 TTTTTCATTTCATTTC
14264287 CATTACCATT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.16, C:0.16, G:0.00, T:0.69
Consensus pattern (17 bp):
TTTTTCATTTCATTTCA
Found at i:14264314 original size:12 final size:12
Alignment explanation
Indices: 14264281--14264314 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14264271 ATTTTTATTT
14264281 CATTTCCATTAC
1 CATTTCCATTAC
*
14264293 CATTACCATTAC
1 CATTTCCATTAC
*
14264305 CATTTTCATT
1 CATTTCCATT
14264315 CTAATTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.26, C:0.29, G:0.00, T:0.44
Consensus pattern (12 bp):
CATTTCCATTAC
Found at i:14264430 original size:51 final size:51
Alignment explanation
Indices: 14264319--14264470 Score: 243
Period size: 51 Copynumber: 2.9 Consensus size: 51
14264309 TTCATTCTAA
14264319 TTTA-ATTTAAATTTTCTATTTTCAATGCAAATTTATTTTTTTCTCATTTCAT
1 TTTATATTTAAATTTTCTATTTTCAATGC-AATTT-TTTTTTTCTCATTTCAT
*
14264371 TTTATATTTAAAATTTCTATTTTCAATGCAATTTTTTTTTTCTCATTTCAT
1 TTTATATTTAAATTTTCTATTTTCAATGCAATTTTTTTTTTCTCATTTCAT
* *
14264422 TTTATATTTAAATTTTCTATTTTCAATTCAATTTTTTTTCTCCTCATTT
1 TTTATATTTAAATTTTCTATTTTCAATGCAATTTTTTTT-TTCTCATTT
14264471 AAATTAAAAT
Statistics
Matches: 94, Mismatches: 4, Indels: 4
0.92 0.04 0.04
Matches are distributed among these distances:
51 54 0.57
52 17 0.18
53 23 0.24
ACGTcount: A:0.25, C:0.12, G:0.01, T:0.61
Consensus pattern (51 bp):
TTTATATTTAAATTTTCTATTTTCAATGCAATTTTTTTTTTCTCATTTCAT
Found at i:14272888 original size:30 final size:30
Alignment explanation
Indices: 14272854--14272919 Score: 107
Period size: 30 Copynumber: 2.2 Consensus size: 30
14272844 GCAATATATA
14272854 TTTTTTATTTTTTAAAATA-TTTTAAAATAC
1 TTTTTTA-TTTTTAAAATATTTTTAAAATAC
*
14272884 TTTTTTATTTTTAAAGTATTTTTAAAATAC
1 TTTTTTATTTTTAAAATATTTTTAAAATAC
14272914 TTTTTT
1 TTTTTT
14272920 TAATTTTCTA
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
29 10 0.29
30 24 0.71
ACGTcount: A:0.32, C:0.03, G:0.02, T:0.64
Consensus pattern (30 bp):
TTTTTTATTTTTAAAATATTTTTAAAATAC
Found at i:14274360 original size:40 final size:40
Alignment explanation
Indices: 14274227--14274366 Score: 176
Period size: 40 Copynumber: 3.5 Consensus size: 40
14274217 TGGCGTTTGG
*
14274227 ACAAAAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
* * *
14274267 ACACAAAACGCCGCTAAAGATCGAGCATTAGCGGCGCTAT
1 ACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
* *
14274307 -CAAGAAAGCGCCGCTAAAAAT-GAGCATTAGCGGCGTTTTT
1 ACAA-AAAACGCCGCTAAAAATCGAGCATTAGCGGCG-CTTT
* *
14274347 ACAAAAAATGCCGCAAAAAA
1 ACAAAAAACGCCGCTAAAAA
14274367 CCTAAGCCCA
Statistics
Matches: 85, Mismatches: 12, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
39 16 0.19
40 66 0.78
41 3 0.04
ACGTcount: A:0.40, C:0.24, G:0.20, T:0.16
Consensus pattern (40 bp):
ACAAAAAACGCCGCTAAAAATCGAGCATTAGCGGCGCTTT
Found at i:14274448 original size:41 final size:41
Alignment explanation
Indices: 14274391--14274586 Score: 311
Period size: 41 Copynumber: 4.8 Consensus size: 41
14274381 GAACCTTTCG
* *
14274391 GGGCTTTAGTGGCGTTTTTAAAAAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
*
14274432 GGGCTTTAGCGGCGTTTTTGAATAAGCGCCGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* *
14274473 GGGCTTTAGCGGCGTTTTTGAATAAGCGCTGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
* * *
14274514 AGGCTTTAGCGGCGTTTTTGGAAAAGCGACGCTAATGCTCA
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
*
14274555 GGGCTTTAGCGGCGTTTTTAAAAAAGCGCCGC
1 GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGC
14274587 AAAAACATTT
Statistics
Matches: 142, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
41 142 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (41 bp):
GGGCTTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA
Found at i:14274738 original size:26 final size:26
Alignment explanation
Indices: 14274686--14274735 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
14274676 AAAATGGATA
* * *
14274686 AATTTGAAATAATGACACGTAGAAAT
1 AATTTGAAATAATAAAACATAGAAAT
14274712 AATTTGAAATAA-AAAACATAGAAA
1 AATTTGAAATAATAAAACATAGAAA
14274736 ATATTTGTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.58, C:0.06, G:0.12, T:0.24
Consensus pattern (26 bp):
AATTTGAAATAATAAAACATAGAAAT
Found at i:14275250 original size:21 final size:21
Alignment explanation
Indices: 14275215--14275273 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
14275205 GATATTAAAT
*
14275215 AAGGTTTAGGGGTTAGTAGTTA
1 AAGG-TTAAGGGTTAGTAGTTA
**
14275237 AAGGTTAAGGGTTAGGGGTTA
1 AAGGTTAAGGGTTAGTAGTTA
* *
14275258 GAGGTTAAGAGTTAGT
1 AAGGTTAAGGGTTAGT
14275274 GATATAGGGT
Statistics
Matches: 31, Mismatches: 6, Indels: 1
0.82 0.16 0.03
Matches are distributed among these distances:
21 27 0.87
22 4 0.13
ACGTcount: A:0.29, C:0.00, G:0.39, T:0.32
Consensus pattern (21 bp):
AAGGTTAAGGGTTAGTAGTTA
Found at i:14275569 original size:18 final size:18
Alignment explanation
Indices: 14275546--14275625 Score: 53
Period size: 18 Copynumber: 4.4 Consensus size: 18
14275536 TAATATATTA
14275546 AAATTATGATTATAGTTT
1 AAATTATGATTATAGTTT
*
14275564 AAATTATTTAAGAGATAATAG-TT
1 AAATTA--T----GATTATAGTTT
*
14275587 CAATTAT-A-TATA-T-T
1 AAATTATGATTATAGTTT
14275601 AAATTATGATTATAGTTT
1 AAATTATGATTATAGTTT
14275619 AAATTAT
1 AAATTAT
14275626 TTAAGAGATT
Statistics
Matches: 47, Mismatches: 4, Indels: 22
0.64 0.05 0.30
Matches are distributed among these distances:
14 7 0.15
15 4 0.09
16 5 0.11
17 1 0.02
18 14 0.30
20 1 0.02
21 1 0.02
23 7 0.15
24 7 0.15
ACGTcount: A:0.44, C:0.01, G:0.09, T:0.46
Consensus pattern (18 bp):
AAATTATGATTATAGTTT
Found at i:14275580 original size:55 final size:55
Alignment explanation
Indices: 14275518--14275634 Score: 193
Period size: 55 Copynumber: 2.1 Consensus size: 55
14275508 ATAATTGCAA
*
14275518 AAGAGATAATA-TT-AATTTTAATATATTAAAATTATGATTATAGTTTAAATTATTT
1 AAGAGATAATAGTTCAATTAT-ATATATT-AAATTATGATTATAGTTTAAATTATTT
14275573 AAGAGATAATAGTTCAATTATATATATTAAATTATGATTATAGTTTAAATTATTT
1 AAGAGATAATAGTTCAATTATATATATTAAATTATGATTATAGTTTAAATTATTT
14275628 AAGAGAT
1 AAGAGAT
14275635 TAGATCGGAA
Statistics
Matches: 59, Mismatches: 1, Indels: 4
0.92 0.02 0.06
Matches are distributed among these distances:
55 45 0.76
56 9 0.15
57 5 0.08
ACGTcount: A:0.45, C:0.01, G:0.09, T:0.44
Consensus pattern (55 bp):
AAGAGATAATAGTTCAATTATATATATTAAATTATGATTATAGTTTAAATTATTT
Found at i:14280282 original size:27 final size:26
Alignment explanation
Indices: 14280252--14280309 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
14280242 AATTTTGAGG
*
14280252 TTTATAATTTATAATTTTTATTAATT
1 TTTATAATTTATAACTTTTATTAATT
** * *
14280278 ATTTATGTTTTCTCACTTTTATTAATT
1 -TTTATAATTTATAACTTTTATTAATT
14280305 TTTAT
1 TTTAT
14280310 TATTATTTAA
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
26 5 0.19
27 21 0.81
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.66
Consensus pattern (26 bp):
TTTATAATTTATAACTTTTATTAATT
Found at i:14280594 original size:43 final size:43
Alignment explanation
Indices: 14280495--14280694 Score: 231
Period size: 43 Copynumber: 4.7 Consensus size: 43
14280485 ATGATATGTT
* * * * * * *
14280495 TTTAACGGCGTTTTTGCGAGAAGCGTCGCTAAAGGT-TTGATC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* * * *
14280537 TATAGCGGCATTTGTGGGAAAAACGCCGCTAAAGATCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
14280580 TTTAGCGGCGTTTGTGGGAAAAGCGCCACTAAAGGTCATGGCC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* *
14280623 TATAGCGGCGTTTGTGAGAAAAGCGCCGCTAAAGGTCATGGTC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
* **
14280666 TTTAACGGCGTTTGTATGAAAAGCGCCGC
1 TTTAGCGGCGTTTGTGGGAAAAGCGCCGC
14280695 AAATACTTTT
Statistics
Matches: 132, Mismatches: 25, Indels: 1
0.84 0.16 0.01
Matches are distributed among these distances:
42 27 0.20
43 105 0.80
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (43 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGCCGCTAAAGGTCATGGTC
Found at i:14280885 original size:28 final size:28
Alignment explanation
Indices: 14280853--14280922 Score: 97
Period size: 28 Copynumber: 2.5 Consensus size: 28
14280843 GTTTAGGGAT
*
14280853 TTTAGGGTTTAGGGTTTTGTTAAAACAG
1 TTTAGGGTTTAGGGTTTTGTTAAAACAA
* * *
14280881 TTTAGTGTATAGGGTTTTGTTAAAATAA
1 TTTAGGGTTTAGGGTTTTGTTAAAACAA
14280909 TTTA-GGTTTAGGGT
1 TTTAGGGTTTAGGGT
14280923 GTACGGTTTA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
27 8 0.22
28 28 0.78
ACGTcount: A:0.26, C:0.01, G:0.27, T:0.46
Consensus pattern (28 bp):
TTTAGGGTTTAGGGTTTTGTTAAAACAA
Found at i:14281331 original size:126 final size:125
Alignment explanation
Indices: 14281103--14281468 Score: 527
Period size: 126 Copynumber: 2.9 Consensus size: 125
14281093 GATTTTGTTT
* *
14281103 TTTTGGGAAGACGGTTCTGAA-AAGATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCA
1 TTTTGAGAAGACGGTTCTGAACAA-ATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCA
* * * * *
14281167 AAATTACTGAAAAAAGCTCCCATGTAGAAGCTTGTTTTCTACAATAGTTCTTGAAAAAATAA
65 AAATTATTGAAAAAAGCTCCCATGTGGACGCTTTTTTTCTACAGTAGTTCTT-AAAAAATAA
14281229 TTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAA
1 TTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAA
* * *
14281294 AAATATTGAAAAAAGCTCTCATGTGGACGTTTTTTTTCTACAGTAGTTCTTAAAAAATAA
66 AATTATTGAAAAAAGCTCCCATGTGGACGCTTTTTTTCTACAGTAGTTCTTAAAAAATAA
* * * **
14281354 TTTTGAGAAAATGGTTCTGAACAAATGGTGTCAAAAATACTTCAAGCAGGATGCACTGTCAGCAA
1 TTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAA
* * * *
14281419 AATTGATGGAAAAAAACTCCCACGTGGACACTTTTTTTCTACAGTAGTTC
66 AATT-ATTGAAAAAAGCTCCCATGTGGACGCTTTTTTTCTACAGTAGTTC
14281469 CTGTTTGGCC
Statistics
Matches: 216, Mismatches: 22, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
125 72 0.33
126 142 0.66
127 2 0.01
ACGTcount: A:0.37, C:0.16, G:0.19, T:0.28
Consensus pattern (125 bp):
TTTTGAGAAGACGGTTCTGAACAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGTCAGCAA
AATTATTGAAAAAAGCTCCCATGTGGACGCTTTTTTTCTACAGTAGTTCTTAAAAAATAA
Found at i:14283409 original size:18 final size:18
Alignment explanation
Indices: 14283383--14283436 Score: 72
Period size: 18 Copynumber: 2.9 Consensus size: 18
14283373 GACTAGGCAA
* *
14283383 AGGAAACATATAGGGGTT
1 AGGATACATATAGGGGCT
*
14283401 AGGATACATATAAGGGCT
1 AGGATACATATAGGGGCT
14283419 AGGATACATATAAGGGGC
1 AGGATACATAT-AGGGGC
14283437 CCGGGGTTTA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 26 0.84
19 5 0.16
ACGTcount: A:0.39, C:0.09, G:0.31, T:0.20
Consensus pattern (18 bp):
AGGATACATATAGGGGCT
Found at i:14296583 original size:24 final size:24
Alignment explanation
Indices: 14296556--14296625 Score: 70
Period size: 24 Copynumber: 2.9 Consensus size: 24
14296546 TTATTAACAT
14296556 TGTTCGTGAACATGTTCAATTAT-A
1 TGTTCGTGAACATGTTC-ATTATAA
* * * *
14296580 TGTTCATGAACATATTCGTTTTAA
1 TGTTCGTGAACATGTTCATTATAA
*
14296604 TATTCGTGAACATGTTCGATTA
1 TGTTCGTGAACATGTTC-ATTA
14296626 AGTTAAATGA
Statistics
Matches: 35, Mismatches: 9, Indels: 3
0.74 0.19 0.06
Matches are distributed among these distances:
23 3 0.09
24 30 0.86
25 2 0.06
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.43
Consensus pattern (24 bp):
TGTTCGTGAACATGTTCATTATAA
Found at i:14297441 original size:27 final size:27
Alignment explanation
Indices: 14297410--14297461 Score: 104
Period size: 27 Copynumber: 1.9 Consensus size: 27
14297400 AAGAATAAAG
14297410 ATGATCCTTGCTTTCCATTCAAGATAC
1 ATGATCCTTGCTTTCCATTCAAGATAC
14297437 ATGATCCTTGCTTTCCATTCAAGAT
1 ATGATCCTTGCTTTCCATTCAAGAT
14297462 GCTACTATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (27 bp):
ATGATCCTTGCTTTCCATTCAAGATAC
Found at i:14298313 original size:41 final size:41
Alignment explanation
Indices: 14298296--14298449 Score: 299
Period size: 41 Copynumber: 3.8 Consensus size: 41
14298286 ACTTATAGCA
14298296 TGATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACC
1 TGATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACC
*
14298337 TGATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACC
1 TGATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACC
14298378 TGATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACC
1 TGATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACC
14298419 TGATTCAGATCACCGGCACGTAGCCTGCTAG
1 TGATTCAGATCACCGGCACGTAGCCTGCTAG
14298450 ACTTAAAGTC
Statistics
Matches: 111, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 111 1.00
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (41 bp):
TGATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACC
Found at i:14300417 original size:13 final size:13
Alignment explanation
Indices: 14300399--14300423 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14300389 CAATCAAATG
14300399 CACACAAAATAAA
1 CACACAAAATAAA
14300412 CACACAAAATAA
1 CACACAAAATAA
14300424 TATTAAAATA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.68, C:0.24, G:0.00, T:0.08
Consensus pattern (13 bp):
CACACAAAATAAA
Found at i:14311994 original size:20 final size:19
Alignment explanation
Indices: 14311968--14312016 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 19
14311958 GGTTGGATGA
14311968 TTTTTTTTCTCTTCTCTCT
1 TTTTTTTTCTCTTCTCTCT
* *
14311987 TCTTTTTTTGTTTTCTCTCT
1 T-TTTTTTTCTCTTCTCTCT
*
14312007 TTTATTTTCT
1 TTTTTTTTCT
14312017 TCTTTCGATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 8 0.32
20 17 0.68
ACGTcount: A:0.02, C:0.20, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTTTTTCTCTTCTCTCT
Found at i:14312022 original size:21 final size:20
Alignment explanation
Indices: 14311970--14312032 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 20
14311960 TTGGATGATT
14311970 TTTTTTCTCTTCTCTCTTCTT-
1 TTTTTTCT-TTCTCTCTT-TTA
14311991 TTTTTGT-TTTCTCTCTTTTA
1 TTTTT-TCTTTCTCTCTTTTA
**
14312011 TTTTCTTCTTTCGATCTTTTA
1 TTTT-TTCTTTCTCTCTTTTA
14312032 T
1 T
14312033 GATTTCTCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
19 2 0.06
20 14 0.39
21 19 0.53
22 1 0.03
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.71
Consensus pattern (20 bp):
TTTTTTCTTTCTCTCTTTTA
Found at i:14315076 original size:22 final size:21
Alignment explanation
Indices: 14315043--14315095 Score: 63
Period size: 21 Copynumber: 2.6 Consensus size: 21
14315033 TTTAGAAATT
* *
14315043 ATTTTTA-AAATTTTATGTAT
1 ATTTTTATAAAATTTATGTAC
* *
14315063 ATTTTTATAAAATTTGTGTGC
1 ATTTTTATAAAATTTATGTAC
14315084 ATTTTTATAAAA
1 ATTTTTATAAAA
14315096 AAAATTTATT
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
20 7 0.25
21 21 0.75
ACGTcount: A:0.36, C:0.02, G:0.08, T:0.55
Consensus pattern (21 bp):
ATTTTTATAAAATTTATGTAC
Found at i:14315152 original size:15 final size:16
Alignment explanation
Indices: 14315120--14315159 Score: 64
Period size: 15 Copynumber: 2.6 Consensus size: 16
14315110 AATACTTTTC
14315120 TATTTTTGAAGTTCAT
1 TATTTTTGAAGTTCAT
*
14315136 TATTTTTGAA-TTTAT
1 TATTTTTGAAGTTCAT
14315151 TATTTTTGA
1 TATTTTTGA
14315160 TTTTTTAGAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 13 0.57
16 10 0.43
ACGTcount: A:0.25, C:0.03, G:0.10, T:0.62
Consensus pattern (16 bp):
TATTTTTGAAGTTCAT
Found at i:14332215 original size:19 final size:19
Alignment explanation
Indices: 14332182--14332224 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
14332172 TTATTAACCT
*
14332182 TTAATTAAACTTAATT-AA
1 TTAATCAAACTTAATTAAA
14332200 TTAATCAAATCTTAATTAAA
1 TTAATCAAA-CTTAATTAAA
14332220 TTAAT
1 TTAAT
14332225 GTTAAGTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 8 0.36
19 7 0.32
20 7 0.32
ACGTcount: A:0.49, C:0.07, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAATCAAACTTAATTAAA
Found at i:14335095 original size:42 final size:41
Alignment explanation
Indices: 14335049--14335149 Score: 121
Period size: 42 Copynumber: 2.4 Consensus size: 41
14335039 AACTGAACGA
* *
14335049 AAACCCATAAGGGTTAATCTGAAGCTTAGAAGAGCTAAACTG
1 AAACCCATAAGGGTTAAT-TGAAGCTCAAAAGAGCTAAACTG
* * *
14335091 AAACCCATTAGGGTTAAATTGAATCTCAAAAGAGCTGAACTG
1 AAACCCATAAGGGTT-AATTGAAGCTCAAAAGAGCTAAACTG
* *
14335133 AAACCTAGAAGGGTTAA
1 AAACCCATAAGGGTTAA
14335150 ACTAAAACTC
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
41 2 0.04
42 45 0.90
43 3 0.06
ACGTcount: A:0.42, C:0.16, G:0.21, T:0.22
Consensus pattern (41 bp):
AAACCCATAAGGGTTAATTGAAGCTCAAAAGAGCTAAACTG
Found at i:14335152 original size:21 final size:21
Alignment explanation
Indices: 14335057--14335157 Score: 51
Period size: 21 Copynumber: 4.8 Consensus size: 21
14335047 GAAAACCCAT
* * *
14335057 AAGGGTTAATCTGAAGCTTAG
1 AAGGGTTAAACTGAAACCTAG
* * * *
14335078 AAGAGCTAAACTGAAACCCAT
1 AAGGGTTAAACTGAAACCTAG
* * * *
14335099 TAGGGTTAAATTG-AATCTCAA
1 AAGGGTTAAACTGAAACCT-AG
* * *
14335120 AAGAGCTGAACTGAAACCTAG
1 AAGGGTTAAACTGAAACCTAG
*
14335141 AAGGGTTAAACTAAAAC
1 AAGGGTTAAACTGAAAC
14335158 TCATATAAGT
Statistics
Matches: 53, Mismatches: 25, Indels: 4
0.65 0.30 0.05
Matches are distributed among these distances:
20 3 0.06
21 46 0.87
22 4 0.08
ACGTcount: A:0.43, C:0.15, G:0.21, T:0.22
Consensus pattern (21 bp):
AAGGGTTAAACTGAAACCTAG
Found at i:14339873 original size:50 final size:50
Alignment explanation
Indices: 14339757--14339990 Score: 218
Period size: 50 Copynumber: 4.6 Consensus size: 50
14339747 CATGCCAAAA
* ** * * * *
14339757 CCATGTCTCAGACATGGTCTTACATGGGATGTTTCTTGT-ACTGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAATG
* * ** *
14339806 CCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCAGTGCCCATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAATG
** * * * **
14339856 CCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGTCAACA
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAATG
14339906 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATAACCTCAATGATGCCAATG
1 CCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--TC-A-G-TGCCAATG
* *
14339962 CCATGTTCCAAACATGGTCTTACATGGGA
1 CCATGTCCCAGACATGGTCTTACATGGGA
14339991 TCTCATCACC
Statistics
Matches: 147, Mismatches: 31, Indels: 7
0.79 0.17 0.04
Matches are distributed among these distances:
49 31 0.21
50 81 0.55
53 2 0.01
55 1 0.01
56 32 0.22
ACGTcount: A:0.24, C:0.27, G:0.21, T:0.28
Consensus pattern (50 bp):
CCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCAGTGCCAATG
Found at i:14354384 original size:31 final size:31
Alignment explanation
Indices: 14354325--14354384 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
14354315 AAAAGATTTT
* * *
14354325 AAAATAAAACTTTTTATCTTGAATGAATTAA
1 AAAATAAAACTTCTTATCTTCAAAGAATTAA
14354356 AAAATAAAACGTTCTTAT-TTCAAAGAATT
1 AAAATAAAAC-TTCTTATCTTCAAAGAATT
14354385 TAAACATCAC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 19 0.76
32 6 0.24
ACGTcount: A:0.48, C:0.08, G:0.07, T:0.37
Consensus pattern (31 bp):
AAAATAAAACTTCTTATCTTCAAAGAATTAA
Found at i:14356071 original size:18 final size:18
Alignment explanation
Indices: 14356048--14356091 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
14356038 TTAGAGATCA
*
14356048 TTTTTATCATACA-AATAT
1 TTTTTATAATA-ATAATAT
14356066 TTTTTATAATAATTAATAT
1 TTTTTATAATAA-TAATAT
14356085 TTTTTAT
1 TTTTTAT
14356092 GTAACTGTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
17 1 0.04
18 10 0.43
19 12 0.52
ACGTcount: A:0.36, C:0.05, G:0.00, T:0.59
Consensus pattern (18 bp):
TTTTTATAATAATAATAT
Found at i:14357763 original size:7 final size:7
Alignment explanation
Indices: 14357753--14357785 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
14357743 ACTGCTATTT
14357753 CCTATCC
1 CCTATCC
14357760 CCTATCC
1 CCTATCC
14357767 CCTATCC
1 CCTATCC
14357774 CCTATCC
1 CCTATCC
14357781 CCTAT
1 CCTAT
14357786 ATTTTACAAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.15, C:0.55, G:0.00, T:0.30
Consensus pattern (7 bp):
CCTATCC
Found at i:14369195 original size:16 final size:17
Alignment explanation
Indices: 14369174--14369207 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14369164 AAAGGTCACA
14369174 AAAAAAGA-CAAATTAC
1 AAAAAAGACCAAATTAC
14369190 AAAAAAGACCAAATTAC
1 AAAAAAGACCAAATTAC
14369207 A
1 A
14369208 CAATATGTAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.68, C:0.15, G:0.06, T:0.12
Consensus pattern (17 bp):
AAAAAAGACCAAATTAC
Found at i:14372742 original size:16 final size:16
Alignment explanation
Indices: 14372721--14372788 Score: 118
Period size: 16 Copynumber: 4.2 Consensus size: 16
14372711 TTTGGTTCGC
14372721 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
14372737 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
*
14372753 TGTAATGGATTAGAGG
1 TGTATTGGATTAGAGG
*
14372769 TGTATTGGAATAGAGG
1 TGTATTGGATTAGAGG
14372785 TGTA
1 TGTA
14372789 ATAGCAAATC
Statistics
Matches: 49, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.28, C:0.00, G:0.37, T:0.35
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:14372828 original size:45 final size:41
Alignment explanation
Indices: 14372769--14372878 Score: 116
Period size: 45 Copynumber: 2.6 Consensus size: 41
14372759 GGATTAGAGG
*
14372769 TGTATTGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
14372811 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
14372854 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
14372879 TAATGGAAAA
Statistics
Matches: 56, Mismatches: 8, Indels: 7
0.79 0.11 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 22 0.39
ACGTcount: A:0.33, C:0.05, G:0.29, T:0.33
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:14373041 original size:16 final size:16
Alignment explanation
Indices: 14373004--14373045 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
14372994 TTAATCATAT
*
14373004 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
14373020 TT-AAATATATTATAA
1 TTAAAATATATTATAA
14373035 TTAAAATATAT
1 TTAAAATATAT
14373046 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:14373052 original size:14 final size:15
Alignment explanation
Indices: 14373013--14373054 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
14373003 TTTAAACATA
*
14373013 ATTATTATTAAATAT
1 ATTATAATTAAATAT
14373028 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
14373042 A-TATAATTTAATA
1 ATTATAATTAAATA
14373055 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:14373146 original size:120 final size:121
Alignment explanation
Indices: 14373002--14373270 Score: 456
Period size: 120 Copynumber: 2.2 Consensus size: 121
14372992 ATTTAATCAT
14373002 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
*
14373067 ATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTATAAAA-GATA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATG-TA
14373123 ATTT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
14373187 ATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACTATAAAATGTA
66 ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATGTA
* *
14373243 ATTTGAA-ATAATTAATATTAAATA-ATTA
1 ATTTAAACATAATTATTATTAAATATATTA
14373271 ATGTTGACAA
Statistics
Matches: 142, Mismatches: 4, Indels: 6
0.93 0.03 0.04
Matches are distributed among these distances:
119 4 0.03
120 131 0.92
121 7 0.05
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.43
Consensus pattern (121 bp):
ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATAAAATGTA
Found at i:14373163 original size:16 final size:16
Alignment explanation
Indices: 14373120--14373165 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
14373110 ACTATAAAAG
*
14373120 ATAATTTAACATA-ATT
1 ATAA-TTAAAATATATT
*
14373136 ATTATT-AAATATATT
1 ATAATTAAAATATATT
14373151 ATAATTAAAATATAT
1 ATAATTAAAATATAT
14373166 AATTTAATAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
14 4 0.16
15 10 0.40
16 11 0.44
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (16 bp):
ATAATTAAAATATATT
Found at i:14373172 original size:14 final size:15
Alignment explanation
Indices: 14373120--14373174 Score: 53
Period size: 15 Copynumber: 3.7 Consensus size: 15
14373110 ACTATAAAAG
14373120 ATAATTTAACATA-ATT
1 ATAA-TTAA-ATATATT
*
14373136 ATTATTAAATATATT
1 ATAATTAAATATATT
14373151 ATAATTAAA-ATA-T
1 ATAATTAAATATATT
*
14373164 ATAATTTAATA
1 ATAATTAAATA
14373175 AAATTCTTAA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
13 9 0.26
14 7 0.21
15 15 0.44
16 3 0.09
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (15 bp):
ATAATTAAATATATT
Found at i:14373237 original size:61 final size:61
Alignment explanation
Indices: 14373052--14373239 Score: 181
Period size: 61 Copynumber: 3.1 Consensus size: 61
14373042 ATATAATTTA
* * *
14373052 ATAAAATTCTTAATAATCAATATTCTTATATGAATTTACTCAAATCATAATATATGATACT
1 ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
** * * * * * * * *
14373113 ATAAAA--GATAAT--TTAACATAATTATTAT-TAAATATATTATAATTAAAATATATAAT-TT
1 ATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTATTAAAATCATAATATATGATACT
14373171 AATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
1 -ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
14373233 ATAAAAT
1 ATAAAAT
14373240 GTAATTTGAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
57 1 0.01
58 2 0.02
59 32 0.34
60 14 0.15
61 41 0.44
62 2 0.02
63 2 0.02
ACGTcount: A:0.49, C:0.06, G:0.03, T:0.42
Consensus pattern (61 bp):
ATAAAATTCTTAATAATTAATATTCTTATATGAATTTATTAAAATCATAATATATGATACT
Found at i:14378550 original size:11 final size:10
Alignment explanation
Indices: 14378525--14378633 Score: 61
Period size: 10 Copynumber: 11.0 Consensus size: 10
14378515 TTTCATTACG
14378525 ATAA-TTTTT
1 ATAATTTTTT
14378534 ATAATTTTTT
1 ATAATTTTTT
14378544 ATGAA--TTTT
1 AT-AATTTTTT
14378553 AT-ATTTCTTT
1 ATAATTT-TTT
*
14378563 A-CATTTTTT
1 ATAATTTTTT
14378572 ATAATTTTCTT
1 ATAATTTT-TT
* * *
14378583 ATGACTTTAT
1 ATAATTTTTT
14378593 ATATATTTTTT
1 ATA-ATTTTTT
*
14378604 CT-ATATTTTT
1 ATAAT-TTTTT
*
14378614 AT-ATATTTT
1 ATAATTTTTT
14378623 ATAGATTTTTT
1 ATA-ATTTTTT
14378634 TTTATGATTT
Statistics
Matches: 77, Mismatches: 11, Indels: 22
0.70 0.10 0.20
Matches are distributed among these distances:
7 1 0.01
9 23 0.30
10 31 0.40
11 22 0.29
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.65
Consensus pattern (10 bp):
ATAATTTTTT
Found at i:14378554 original size:19 final size:19
Alignment explanation
Indices: 14378530--14378603 Score: 62
Period size: 19 Copynumber: 3.7 Consensus size: 19
14378520 TTACGATAAT
14378530 TTTTATAATTTTTTATGAA
1 TTTTATAATTTTTTATGAA
* *
14378549 TTTTAT-ATTTCTTTA-CATT
1 TTTTATAATTT-TTTATGA-A
*
14378568 TTTTATAATTTTCTTATGAC
1 TTTTATAATTTT-TTATGAA
14378588 TTTATATATATTTTTT
1 TTT-TATA-ATTTTTT
14378604 CTATATTTTT
Statistics
Matches: 44, Mismatches: 4, Indels: 12
0.73 0.07 0.20
Matches are distributed among these distances:
18 5 0.11
19 17 0.39
20 10 0.23
21 7 0.16
22 5 0.11
ACGTcount: A:0.26, C:0.05, G:0.03, T:0.66
Consensus pattern (19 bp):
TTTTATAATTTTTTATGAA
Found at i:14378590 original size:28 final size:28
Alignment explanation
Indices: 14378537--14378591 Score: 67
Period size: 28 Copynumber: 2.0 Consensus size: 28
14378527 AATTTTTATA
**
14378537 ATTTTTTATGAATTTTATATTTCTTTAC
1 ATTTTTTATGAATTTTATATGACTTTAC
*
14378565 ATTTTTTAT-AATTTTCTTATGACTTTA
1 ATTTTTTATGAATTTT-ATATGACTTTA
14378592 TATATATTTT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
27 6 0.26
28 17 0.74
ACGTcount: A:0.25, C:0.07, G:0.04, T:0.64
Consensus pattern (28 bp):
ATTTTTTATGAATTTTATATGACTTTAC
Found at i:14378618 original size:21 final size:21
Alignment explanation
Indices: 14378528--14378622 Score: 69
Period size: 21 Copynumber: 4.7 Consensus size: 21
14378518 CATTACGATA
14378528 ATTTTTATA-A-TTTTTTATG
1 ATTTTTATATATTTTTTTATG
* * *
14378547 A-ATTT-TATATTTCTTTA-C
1 ATTTTTATATATTTTTTTATG
*
14378565 ATTTTT-TATAATTTTCTTATG
1 ATTTTTATAT-ATTTTTTTATG
*
14378586 ACTTTATATATATTTTTTCTAT-
1 A-TTTTTATATATTTTTT-TATG
14378608 ATTTTTATATATTTT
1 ATTTTTATATATTTT
14378623 ATAGATTTTT
Statistics
Matches: 58, Mismatches: 10, Indels: 14
0.71 0.12 0.17
Matches are distributed among these distances:
17 2 0.03
18 5 0.09
19 13 0.22
20 7 0.12
21 14 0.24
22 11 0.19
23 6 0.10
ACGTcount: A:0.26, C:0.05, G:0.02, T:0.66
Consensus pattern (21 bp):
ATTTTTATATATTTTTTTATG
Found at i:14378624 original size:32 final size:32
Alignment explanation
Indices: 14378588--14378648 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
14378578 TTCTTATGAC
*
14378588 TTTATATATATTTTTTCTAT-ATTTTTATATAT
1 TTTATAGAT-TTTTTTCTATGATTTTTATATAT
*
14378620 TTTATAGATTTTTTTTTATGATTTTTATA
1 TTTATAGATTTTTTTCTATGATTTTTATA
14378649 AAAATTTACA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 9 0.35
32 17 0.65
ACGTcount: A:0.26, C:0.02, G:0.03, T:0.69
Consensus pattern (32 bp):
TTTATAGATTTTTTTCTATGATTTTTATATAT
Found at i:14407289 original size:15 final size:16
Alignment explanation
Indices: 14407263--14407292 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
14407253 TACCAAATAT
14407263 GAATATAAAATTAAAC
1 GAATATAAAATTAAAC
14407279 GAATA-AAAATTAAA
1 GAATATAAAATTAAA
14407293 TCATGCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.03, G:0.07, T:0.23
Consensus pattern (16 bp):
GAATATAAAATTAAAC
Found at i:14409603 original size:16 final size:16
Alignment explanation
Indices: 14409582--14409612 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
14409572 CCTTCCAAGG
14409582 TTGTTCCTAAAAGTAT
1 TTGTTCCTAAAAGTAT
14409598 TTGTTCCTAAAAGTA
1 TTGTTCCTAAAAGTA
14409613 GTTATTCCCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.42
Consensus pattern (16 bp):
TTGTTCCTAAAAGTAT
Found at i:14409620 original size:16 final size:16
Alignment explanation
Indices: 14409585--14409620 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
14409575 TCCAAGGTTG
* *
14409585 TTCCTAAAAGTATTTG
1 TTCCTAAAAGTAGTTA
14409601 TTCCTAAAAGTAGTTA
1 TTCCTAAAAGTAGTTA
14409617 TTCC
1 TTCC
14409621 CAATGGTGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.31, C:0.17, G:0.11, T:0.42
Consensus pattern (16 bp):
TTCCTAAAAGTAGTTA
Found at i:14409916 original size:17 final size:17
Alignment explanation
Indices: 14409890--14409930 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
14409880 CCAATAGTCA
14409890 TTCCCAACAT-GATGTTG
1 TTCCCAACATAGA-GTTG
*
14409907 TTCCCGACATAGAGTTG
1 TTCCCAACATAGAGTTG
14409924 TTCCCAA
1 TTCCCAA
14409931 AATGCTCATG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 19 0.90
18 2 0.10
ACGTcount: A:0.24, C:0.27, G:0.17, T:0.32
Consensus pattern (17 bp):
TTCCCAACATAGAGTTG
Found at i:14415141 original size:15 final size:15
Alignment explanation
Indices: 14415121--14415172 Score: 52
Period size: 15 Copynumber: 3.5 Consensus size: 15
14415111 ACAGCATGAC
14415121 AACGTAAATGACTAA
1 AACGTAAATGACTAA
* *
14415136 AACGTAAAT-ATTTCA
1 AACGTAAATGA-CTAA
* *
14415151 AACATAAGTGACTAA
1 AACGTAAATGACTAA
14415166 AACGTAA
1 AACGTAA
14415173 CCTAAGGTAA
Statistics
Matches: 28, Mismatches: 7, Indels: 4
0.72 0.18 0.10
Matches are distributed among these distances:
14 1 0.04
15 26 0.93
16 1 0.04
ACGTcount: A:0.52, C:0.13, G:0.12, T:0.23
Consensus pattern (15 bp):
AACGTAAATGACTAA
Found at i:14418196 original size:19 final size:19
Alignment explanation
Indices: 14418172--14418228 Score: 66
Period size: 19 Copynumber: 3.1 Consensus size: 19
14418162 AAAATAAAAC
14418172 AATTCAAAATAATTTTTAA
1 AATTCAAAATAATTTTTAA
*
14418191 AATTCAAAAT-ATTTATAAA
1 AATTCAAAATAATTT-TTAA
*
14418210 AATTTAAAA-AA-TTTTAA
1 AATTCAAAATAATTTTTAA
14418227 AA
1 AA
14418229 AAAATTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
17 5 0.15
18 6 0.18
19 22 0.67
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
AATTCAAAATAATTTTTAA
Found at i:14418220 original size:10 final size:10
Alignment explanation
Indices: 14418196--14418238 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
14418186 TTTAAAATTC
*
14418196 AAAATATTTA
1 AAAAAATTTA
*
14418206 TAAAAATTTA
1 AAAAAATTTA
*
14418216 AAAAATTTTA
1 AAAAAATTTA
*
14418226 AAAAAAATTA
1 AAAAAATTTA
14418236 AAA
1 AAA
14418239 TAATAATTTC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 27 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (10 bp):
AAAAAATTTA
Found at i:14418225 original size:20 final size:21
Alignment explanation
Indices: 14418196--14418243 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
14418186 TTTAAAATTC
* *
14418196 AAAATATTTATAAAAATTTAA
1 AAAATATTTAAAAAAAATTAA
14418217 AAAAT-TTTAAAAAAAATTAA
1 AAAATATTTAAAAAAAATTAA
14418237 AATAATA
1 AA-AATA
14418244 ATTTCGGGGC
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
20 15 0.65
21 8 0.35
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (21 bp):
AAAATATTTAAAAAAAATTAA
Found at i:14418229 original size:19 final size:19
Alignment explanation
Indices: 14418166--14418230 Score: 62
Period size: 19 Copynumber: 3.4 Consensus size: 19
14418156 AAAAATAAAA
14418166 TAAAACAATTCAAAATAATTT
1 TAAAA-AATTCAAAA-AATTT
* *
14418187 T-TAAAATTCAAAATA-TT
1 TAAAAAATTCAAAAAATTT
*
14418204 TATAAAAATTTAAAAAATTT
1 TA-AAAAATTCAAAAAATTT
14418224 TAAAAAA
1 TAAAAAA
14418231 AATTAAAATA
Statistics
Matches: 36, Mismatches: 5, Indels: 8
0.73 0.10 0.16
Matches are distributed among these distances:
17 3 0.08
18 1 0.03
19 25 0.69
20 6 0.17
21 1 0.03
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
TAAAAAATTCAAAAAATTT
Found at i:14418238 original size:19 final size:20
Alignment explanation
Indices: 14418189--14418238 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
14418179 AATAATTTTT
* *
14418189 AAAATTCAAAATATTTATAA
1 AAAATTAAAAATATTTAAAA
*
14418209 AAATTTAAAAA-ATTTTAAAA
1 AAAATTAAAAATA-TTTAAAA
14418229 AAAATTAAAA
1 AAAATTAAAA
14418239 TAATAATTTC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
19 1 0.04
20 24 0.96
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (20 bp):
AAAATTAAAAATATTTAAAA
Found at i:14418334 original size:25 final size:25
Alignment explanation
Indices: 14418280--14418334 Score: 67
Period size: 25 Copynumber: 2.2 Consensus size: 25
14418270 TCAAGTATCT
* * *
14418280 TATTTTTTAAATATTTTTATTTGAA
1 TATTTTTTAAATATATATATTTCAA
14418305 TATTTTTTAAATATATATAGTTTCAA
1 TATTTTTTAAATATATATA-TTTCAA
14418331 -ATTT
1 TATTT
14418335 ATATGCTCTA
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
25 21 0.81
26 5 0.19
ACGTcount: A:0.35, C:0.02, G:0.04, T:0.60
Consensus pattern (25 bp):
TATTTTTTAAATATATATATTTCAA
Found at i:14429625 original size:14 final size:16
Alignment explanation
Indices: 14429601--14429632 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14429591 ATAATTTATG
14429601 TAAACTAGAAG-GCAA
1 TAAACTAGAAGTGCAA
14429616 TAAA-TAGAAGTGCAA
1 TAAACTAGAAGTGCAA
14429631 TA
1 TA
14429633 GTGAATTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 6 0.38
15 10 0.62
ACGTcount: A:0.53, C:0.09, G:0.19, T:0.19
Consensus pattern (16 bp):
TAAACTAGAAGTGCAA
Found at i:14430090 original size:18 final size:18
Alignment explanation
Indices: 14430047--14430090 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
14430037 TCCCAATCCA
* *
14430047 AACCCAAGTATCCAACCC
1 AACCCAATTACCCAACCC
14430065 AACCCAATTACCCAACCC
1 AACCCAATTACCCAACCC
14430083 AACCCAAT
1 AACCCAAT
14430091 CATAAAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.41, C:0.45, G:0.02, T:0.11
Consensus pattern (18 bp):
AACCCAATTACCCAACCC
Found at i:14430991 original size:56 final size:56
Alignment explanation
Indices: 14430894--14431134 Score: 272
Period size: 57 Copynumber: 4.3 Consensus size: 56
14430884 TTACTGTTTG
* * *
14430894 CATGCTGT-TATAAATTGAATTAAAGTTGTTGTTTGAGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCT-TAAATTGAA-TAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * *
14430951 CATACTGTCTTAAATTGAATCAAGCTACTGTTTTAGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCTTAAATTGAATAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * *
14431007 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGCATTTT
1 CATGCTGTCTTAAATTGAA-TAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * * * *
14431064 CATGTTGTCTTAAATTAAATTAAGCTGTTG-TTTAATGTTTCAAATTGAGTATTATT
1 CATGCTGTCTTAAATTGAATAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATT-TT
*
14431120 -ATGCTGTCCTAAATT
1 CATGCTGTCTTAAATT
14431135 AAATTACAGT
Statistics
Matches: 157, Mismatches: 24, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
55 33 0.21
56 59 0.38
57 64 0.41
58 1 0.01
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (56 bp):
CATGCTGTCTTAAATTGAATAAAGCTGCTGTTTTAGTGTTTCAAATTGAGCATTTT
Found at i:14431052 original size:113 final size:113
Alignment explanation
Indices: 14430894--14431140 Score: 345
Period size: 113 Copynumber: 2.2 Consensus size: 113
14430884 TTACTGTTTG
* * *
14430894 CATGCTGTTATAAATTGAATTAAAGTTGTTGTTTGAGTGTTTCAAATTGAGCATTTTCATACTGT
1 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTGAGTGTATCAAATTGAGCATTTTCATACTGT
* *
14430959 CTTAAATTGAATCAAGCTACTGTTTTAGTGTTTCAAATTGAGCATT-TT
66 CTTAAATTAAATCAAGCTACTG-TTTAATGTTTCAAATTGAGCATTATT
* **
14431007 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGCATTTTCATGTTGT
1 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTGAGTGTATCAAATTGAGCATTTTCATACTGT
* ** *
14431072 CTTAAATTAAATTAAGCTGTTGTTTAATGTTTCAAATTGAGTATTATT
66 CTTAAATTAAATCAAGCTACTGTTTAATGTTTCAAATTGAGCATTATT
* *
14431120 -ATGCTGTCCTAAATTAAATTA
1 CATGCTGTCATAAATTGAATTA
14431141 CAGTGTTGCT
Statistics
Matches: 119, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
112 40 0.34
113 79 0.66
ACGTcount: A:0.30, C:0.10, G:0.16, T:0.44
Consensus pattern (113 bp):
CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTGAGTGTATCAAATTGAGCATTTTCATACTGT
CTTAAATTAAATCAAGCTACTGTTTAATGTTTCAAATTGAGCATTATT
Found at i:14431065 original size:57 final size:57
Alignment explanation
Indices: 14430894--14431180 Score: 298
Period size: 56 Copynumber: 5.1 Consensus size: 57
14430884 TTACTGTTTG
* * *
14430894 CATGCTGTTATAAATTGAATTAAAGTTGTTGTTTGAGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * **
14430951 CATACTGTCTTAAATTGAA-TCAAGCTACTGTTTTAGTGTTTCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATTTT
* * *
14431007 CATGCTGTCATAAATTGAATTAAAGTTGGTGTTTTAGTGTATCAAATTGAGCATTTT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATTTT
* * * * *
14431064 CATGTTGTCTTAAATTAAATT-AAGCTGTTG-TTTAATGTTTCAAATTGAGTATTATT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATT-TT
* * * * * * * *
14431120 -ATGCTGTCCTAAATTAAATTACAG-TGTTGCTTCAGTGTCTCAAAGTAAGCATTATT
1 CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATT-TT
14431176 -ATGCT
1 CATGCT
14431181 ATTGAAAAAT
Statistics
Matches: 194, Mismatches: 32, Indels: 9
0.83 0.14 0.04
Matches are distributed among these distances:
55 43 0.22
56 85 0.44
57 66 0.34
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (57 bp):
CATGCTGTCATAAATTGAATTAAAGCTGTTGTTTTAGTGTTTCAAATTGAGCATTTT
Found at i:14433770 original size:25 final size:27
Alignment explanation
Indices: 14433742--14433796 Score: 64
Period size: 26 Copynumber: 2.1 Consensus size: 27
14433732 CATTTCAATT
14433742 ATGTGTTAAT-TTC-AAGACTTATGTA
1 ATGTGTTAATATTCAAAGACTTATGTA
*
14433767 A--TGTTAGTGATTCAAAGACTTATGTA
1 ATGTGTTAAT-ATTCAAAGACTTATGTA
14433793 ATGT
1 ATGT
14433797 TTCTAATTAT
Statistics
Matches: 24, Mismatches: 1, Indels: 7
0.75 0.03 0.22
Matches are distributed among these distances:
23 6 0.25
25 4 0.17
26 13 0.54
28 1 0.04
ACGTcount: A:0.33, C:0.07, G:0.18, T:0.42
Consensus pattern (27 bp):
ATGTGTTAATATTCAAAGACTTATGTA
Found at i:14433831 original size:9 final size:9
Alignment explanation
Indices: 14433817--14433883 Score: 89
Period size: 9 Copynumber: 7.4 Consensus size: 9
14433807 GTAGTGATTC
14433817 AATTCGGTT
1 AATTCGGTT
*
14433826 AATTCGATT
1 AATTCGGTT
* *
14433835 AATTAGGGT
1 AATTCGGTT
*
14433844 AATTTGGTT
1 AATTCGGTT
*
14433853 AATTCAGTT
1 AATTCGGTT
14433862 AATTCGGTT
1 AATTCGGTT
14433871 AATTCGGTT
1 AATTCGGTT
14433880 AATT
1 AATT
14433884 TTTAACCAAA
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.28, C:0.07, G:0.19, T:0.45
Consensus pattern (9 bp):
AATTCGGTT
Found at i:14436718 original size:94 final size:93
Alignment explanation
Indices: 14436556--14436824 Score: 328
Period size: 94 Copynumber: 2.9 Consensus size: 93
14436546 ACCTCAAATT
* * * * *
14436556 TTATCTTCCTAAAGTTGCAGTGGAGC-ATATGAAGCTATAAATCTTATACCCCTGAAGTTGCAGA
1 TTATCTTCCTAAAGTAGCAGTGGAGCAAGATGAAGCTACAAATCCTATA-CCCTGAAGTTGCAGT
* *
14436620 GGGTCGGATTGAATTTACCATAGAAAGTC
65 GGGTCGGATTGAAGTTACCATAGAAAGCC
14436649 TTATC-TCCTTAAAGTAGCAGTGGAGCAAGATGAAGCTACAAATCCTATATCCCTGAAGTTGCAG
1 TTATCTTCC-TAAAGTAGCAGTGGAGCAAGATGAAGCTACAAATCCTATA-CCCTGAAGTTGCAG
**
14436713 TGGGTCGGATTGAAGTTACCATAGCGAGCC
64 TGGGTCGGATTGAAGTTACCATAGAAAGCC
* * * * * *
14436743 TTATCTTCCTGAAGTTA-CAGTGGAGAAAGATAAAGTTACAAATCCAATACCCTTAAAGTTGCAG
1 TTATCTTCCTAAAG-TAGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCC-TGAAGTTGCAG
*
14436807 TGGGTCGGATTAAAGTTA
64 TGGGTCGGATTGAAGTTA
14436825 GGCATAATTT
Statistics
Matches: 154, Mismatches: 17, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
92 3 0.02
93 24 0.16
94 122 0.79
95 5 0.03
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.28
Consensus pattern (93 bp):
TTATCTTCCTAAAGTAGCAGTGGAGCAAGATGAAGCTACAAATCCTATACCCTGAAGTTGCAGTG
GGTCGGATTGAAGTTACCATAGAAAGCC
Found at i:14437235 original size:32 final size:32
Alignment explanation
Indices: 14437194--14437300 Score: 135
Period size: 32 Copynumber: 3.3 Consensus size: 32
14437184 ATATTCTTAA
14437194 AATCCCTAAAAATTTTACAAATCAAATCGTTG
1 AATCCCTAAAAATTTTACAAATCAAATCGTTG
* * * *
14437226 AATCCCTAAAACTATTAAAAATGAAATCG-TG
1 AATCCCTAAAAATTTTACAAATCAAATCGTTG
* * *
14437257 AAATCCCTAACAATTTTACGAATCAAATCATTG
1 -AATCCCTAAAAATTTTACAAATCAAATCGTTG
14437290 AATCCCTAAAA
1 AATCCCTAAAA
14437301 CTATTAAGAA
Statistics
Matches: 61, Mismatches: 12, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
31 2 0.03
32 57 0.93
33 2 0.03
ACGTcount: A:0.46, C:0.20, G:0.07, T:0.28
Consensus pattern (32 bp):
AATCCCTAAAAATTTTACAAATCAAATCGTTG
Found at i:14437272 original size:64 final size:64
Alignment explanation
Indices: 14437193--14437333 Score: 219
Period size: 64 Copynumber: 2.2 Consensus size: 64
14437183 AATATTCTTA
* * *
14437193 AAATCCCTAAAAATTTTACAAATCAAATCGTTGAATCCCTAAAACTATTAAAAATGAAATCGTG
1 AAATCCCTAAAAATTTTACAAATCAAATCATTGAATCCCTAAAACTATTAAAAATAAAATCATG
* * *
14437257 AAATCCCTAACAATTTTACGAATCAAATCATTGAATCCCTAAAACTATTAAGAATAAAATCATG
1 AAATCCCTAAAAATTTTACAAATCAAATCATTGAATCCCTAAAACTATTAAAAATAAAATCATG
*
14437321 AAATCCCTTAAAA
1 AAATCCCTAAAAA
14437334 CCAAATTGTG
Statistics
Matches: 69, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
64 69 1.00
ACGTcount: A:0.48, C:0.18, G:0.06, T:0.28
Consensus pattern (64 bp):
AAATCCCTAAAAATTTTACAAATCAAATCATTGAATCCCTAAAACTATTAAAAATAAAATCATG
Found at i:14437317 original size:32 final size:33
Alignment explanation
Indices: 14437193--14437334 Score: 134
Period size: 32 Copynumber: 4.4 Consensus size: 33
14437183 AATATTCTTA
* * *
14437193 AAATCCCTAAAAATTTTACA-AATCAAATCGTTG
1 AAATCCCTAAAACTATTA-AGAATCAAATCATTG
* * *
14437226 -AATCCCTAAAACTATTAAAAATGAAATC-GTG
1 AAATCCCTAAAACTATTAAGAATCAAATCATTG
* *
14437257 AAATCCCTAACAA-TTTTACGAATCAAATCATTG
1 AAATCCCTAA-AACTATTAAGAATCAAATCATTG
*
14437290 -AATCCCTAAAACTATTAAGAATAAAATCA-TG
1 AAATCCCTAAAACTATTAAGAATCAAATCATTG
14437321 AAATCCCTTAAAAC
1 AAATCCC-TAAAAC
14437335 CAAATTGTGA
Statistics
Matches: 90, Mismatches: 12, Indels: 14
0.78 0.10 0.12
Matches are distributed among these distances:
31 7 0.08
32 73 0.81
33 10 0.11
ACGTcount: A:0.47, C:0.19, G:0.06, T:0.27
Consensus pattern (33 bp):
AAATCCCTAAAACTATTAAGAATCAAATCATTG
Found at i:14444354 original size:18 final size:18
Alignment explanation
Indices: 14444321--14444373 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
14444311 ATTCACCTAA
*
14444321 ACCCAATCCAAACCCAAGT
1 ACCCAA-CCCAACCCAAGT
* *
14444340 ATCCAACCCAACCCAATT
1 ACCCAACCCAACCCAAGT
14444358 ACCCAACCCAACCCAA
1 ACCCAACCCAACCCAA
14444374 CCCAATCATA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
18 25 0.83
19 5 0.17
ACGTcount: A:0.42, C:0.47, G:0.02, T:0.09
Consensus pattern (18 bp):
ACCCAACCCAACCCAAGT
Found at i:14444429 original size:6 final size:6
Alignment explanation
Indices: 14444420--14444448 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
14444410 AAATAAAATT
14444420 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
1 CTAAAA CTAAAA CTAAAA CTAAAA CTAAA
14444449 GCCTAAAAGT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (6 bp):
CTAAAA
Found at i:14444562 original size:27 final size:27
Alignment explanation
Indices: 14444530--14444597 Score: 100
Period size: 27 Copynumber: 2.5 Consensus size: 27
14444520 TGTAGTGATT
14444530 TAATTCGGTTAATTCGGGTAATTCAGG
1 TAATTCGGTTAATTCGGGTAATTCAGG
* * *
14444557 TAATTCGGGTAATTCGGTTAATTCAGT
1 TAATTCGGTTAATTCGGGTAATTCAGG
*
14444584 TAATTTGGTTAATT
1 TAATTCGGTTAATT
14444598 TTTAACCAAA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (27 bp):
TAATTCGGTTAATTCGGGTAATTCAGG
Found at i:14444598 original size:9 final size:9
Alignment explanation
Indices: 14444529--14444597 Score: 86
Period size: 9 Copynumber: 7.7 Consensus size: 9
14444519 ATGTAGTGAT
14444529 TTAATTCGG
1 TTAATTCGG
14444538 TTAATTCGG
1 TTAATTCGG
*
14444547 GTAATTCAGG
1 TTAATTC-GG
14444557 -TAATTCGG
1 TTAATTCGG
*
14444565 GTAATTCGG
1 TTAATTCGG
*
14444574 TTAATTCAG
1 TTAATTCGG
*
14444583 TTAATTTGG
1 TTAATTCGG
14444592 TTAATT
1 TTAATT
14444598 TTTAACCAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 4
0.85 0.08 0.06
Matches are distributed among these distances:
8 2 0.04
9 49 0.92
10 2 0.04
ACGTcount: A:0.26, C:0.09, G:0.22, T:0.43
Consensus pattern (9 bp):
TTAATTCGG
Found at i:14444968 original size:51 final size:51
Alignment explanation
Indices: 14444892--14444998 Score: 205
Period size: 51 Copynumber: 2.1 Consensus size: 51
14444882 CTACGTGCAG
*
14444892 CAGCAACATTATCCAGTCCATCTGATGTTGCAAAATCACCAACATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAACATATTCAT
14444943 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAACATATTCAT
1 CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAACATATTCAT
14444994 CAGCA
1 CAGCA
14444999 GCAACTTCAC
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
51 55 1.00
ACGTcount: A:0.36, C:0.29, G:0.09, T:0.26
Consensus pattern (51 bp):
CAGCAACATTATCCACTCCATCTGATGTTGCAAAATCACCAACATATTCAT
Found at i:14445203 original size:33 final size:33
Alignment explanation
Indices: 14445166--14445240 Score: 98
Period size: 33 Copynumber: 2.3 Consensus size: 33
14445156 CCTTTTCCAG
* * *
14445166 ATCACCTTCACTATCAGA-TTCTACCCCTTCATC
1 ATCACCCTCACCATCA-ACTTCTACCCCTTCAGC
*
14445199 ATCACCCTCCCCATCAACTTCTACCCCTTCAGC
1 ATCACCCTCACCATCAACTTCTACCCCTTCAGC
14445232 ATCACCCTC
1 ATCACCCTC
14445241 CTTAGTAGTC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
32 1 0.03
33 36 0.97
ACGTcount: A:0.23, C:0.47, G:0.03, T:0.28
Consensus pattern (33 bp):
ATCACCCTCACCATCAACTTCTACCCCTTCAGC
Found at i:14446742 original size:44 final size:44
Alignment explanation
Indices: 14446692--14447069 Score: 166
Period size: 44 Copynumber: 8.3 Consensus size: 44
14446682 CTTATCTTAC
14446692 TGAAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCT
1 TGAAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCT
* * * *
14446736 TGAAGTTGCAGTGGATCGAA-TTGAAGA-TAC-AATTCTTATACCCC
1 TGAAGTTGCAGTGGAGC-AAGATGAA-ACTACAAATTC-TATATCCT
* * * *
14446780 TGAAGTTGCAGTGG-GTC-TGAATGAAATTACAATGGCAAATCTTATTTCCT
1 TGAAGTTGCAGTGGAG-CAAG-ATGAAACTAC-A----AATTC-TATATCCT
** * *
14446830 TGAAGTTGCAGTGGAATAAGATGAAGCTACAAATCCTATATCCT
1 TGAAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCT
* * * * *
14446874 TGAAGTTGCAGTGGATC-AGATTAAAGATAC-AATTCCTATACCCC
1 TGAAGTTGCAGTGGAGCAAGATGAAA-CTACAAATT-CTATATCCT
* *** * * *
14446918 TGAAGTTGCAATGG-GTTGGAATGAAATTAC-AATGGTGAATCCTATCTCT
1 TGAAGTTGCAGTGGAGCAAG-ATGAAACTACAAAT--T--CT-ATATC-CT
* * * *
14446967 CGAAAGTTGCAGTGGAGCAATATGAAGCTACAAATCCTATATCCT
1 TG-AAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCT
* * * * * *
14447012 TAAAGTTGCAGTGGATC-GGATTAAA-TATACAATTCCTATACCCT
1 TGAAGTTGCAGTGGAGCAAGATGAAACTACA-AATT-CTATATCCT
14447056 TGAAGTTGCAGTGG
1 TGAAGTTGCAGTGG
14447070 GTCAGAATGA
Statistics
Matches: 245, Mismatches: 60, Indels: 58
0.67 0.17 0.16
Matches are distributed among these distances:
42 3 0.01
43 22 0.09
44 138 0.56
45 13 0.05
46 5 0.02
47 2 0.01
48 3 0.01
49 3 0.01
50 51 0.21
51 5 0.02
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.29
Consensus pattern (44 bp):
TGAAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCT
Found at i:14446905 original size:94 final size:93
Alignment explanation
Indices: 14446732--14447233 Score: 216
Period size: 94 Copynumber: 5.4 Consensus size: 93
14446722 AAATTCTATA
* * * *
14446732 TCCTTGAAGTTGCAGTGGATCGAATTGAAGATACAATTCTTATACCCCTGAAGTTGCAGTGGGTC
1 TCCTTGAAGTTGCAGTGGATC-AAATGAAGATACAAATCCTATACCCCTGAAGTTGCAGTGGATC
* *
14446797 TGAATGAAATTACAATGGCAAATCTTATT
65 AGAATGAAAATACAATGGCAAATCTTATT
* * *
14446826 TCCTTGAAGTTGCAGTGGAAT-AAGATGAAGCTACAAATCCTATATCCTTGAAGTTGCAGTGGAT
1 TCCTTGAAGTTGCAGTGG-ATCAA-ATGAAGATACAAATCCTATACCCCTGAAGTTGCAGTGGAT
* * *
14446890 CAG-ATTAAAGATACAAT------TCCTATA
64 CAGAATGAAA-ATACAATGGCAAATCTTATT
* * * * ** *
14446914 CCCCTGAAGTTGCAATGGGTTGGAATGAA-ATTACAATGGTGAATCCTAT--CTCTCGAAAGTTG
1 TCCTTGAAGTTGCAGT-GGATCAAATGAAGA-TAC-A-----AATCCTATACCCCT-G-AAGTTG
* * * * *
14446976 CAGTGGAGCA-ATATG--AA-GC--T-ACAAATCCTATA
56 CAGTGGATCAGA-ATGAAAATACAATGGCAAATCTTATT
* * * * * * * *
14447008 TCCTTAAAGTTGCAGTGGATCGGATTAAATATACAATTCCTATACCCTTGAAGTTGCAGTGGGTC
1 TCCTTGAAGTTGCAGTGGATC-AAATGAAGATACAAATCCTATACCCCTGAAGTTGCAGTGGATC
* * **
14447073 AGAATGAAATTATAATGGTGAATCTTATCT
65 AGAATGAAAATACAATGGCAAATCTTAT-T
* * * * * * * *
14447103 TCC-TGAAGTTGCAGTGGAACAAGATAAAGATACAAATCCAATACCCATAAAGTTACAGTGGGTT
1 TCCTTGAAGTTGCAGTGGATCAA-ATGAAGATACAAATCCTATACCCCTGAAGTTGCAGTGGATC
* * * * *
14447167 AGATTGAAACTACCATGGCGAATCTTATC
65 AGAATGAAAATACAATGGCAAATCTTATT
* * *
14447196 TCCTT-AAGGATGCAGTGGAGCAAAATGAAGCTACAAAT
1 TCCTTGAA-GTTGCAGTGGATC-AAATGAAGATACAAAT
14447234 ATTATATCCC
Statistics
Matches: 306, Mismatches: 65, Indels: 74
0.69 0.15 0.17
Matches are distributed among these distances:
88 51 0.17
89 7 0.02
90 3 0.01
91 1 0.00
92 3 0.01
93 20 0.07
94 211 0.69
95 10 0.03
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.29
Consensus pattern (93 bp):
TCCTTGAAGTTGCAGTGGATCAAATGAAGATACAAATCCTATACCCCTGAAGTTGCAGTGGATCA
GAATGAAAATACAATGGCAAATCTTATT
Found at i:14446927 original size:138 final size:137
Alignment explanation
Indices: 14446678--14447141 Score: 657
Period size: 138 Copynumber: 3.4 Consensus size: 137
14446668 TTACTATAAC
* * * *
14446678 GAATCTTATCTTACTGAAGTTGCAGTGGAGCAAGATGAAACTACAAATTCTATATCCTTGAAGTT
1 GAATCTTATCTTCCTGAAGTTGCAGTGGAACAAGATGAAGCTACAAATCCTATATCCTTGAAGTT
* *
14446743 GCAGTGGATCGAATTGAAGATACAATTCTTATACCCCTGAAGTTGCAGTGGGTCTGAATGAAATT
66 GCAGTGGATCG-ATTAAAGATACAATTCCTATACCCCTGAAGTTGCAGTGGGTCTGAATGAAATT
*
14446808 ACAATGGC
130 ACAATGGT
* *
14446816 AAATCTTAT-TTCCTTGAAGTTGCAGTGGAATAAGATGAAGCTACAAATCCTATATCCTTGAAGT
1 GAATCTTATCTTCC-TGAAGTTGCAGTGGAACAAGATGAAGCTACAAATCCTATATCCTTGAAGT
*
14446880 TGCAGTGGATCAGATTAAAGATACAATTCCTATACCCCTGAAGTTGCAATGGGT-TGGAATGAAA
65 TGCAGTGGATC-GATTAAAGATACAATTCCTATACCCCTGAAGTTGCAGTGGGTCT-GAATGAAA
14446944 TTACAATGGT
128 TTACAATGGT
* * * *
14446954 GAATCCTATC-T-CTCGAAAGTTGCAGTGGAGCAATATGAAGCTACAAATCCTATATCCTTAAAG
1 GAATCTTATCTTCCT-G-AAGTTGCAGTGGAACAAGATGAAGCTACAAATCCTATATCCTTGAAG
* * *
14447017 TTGCAGTGGATCGGATTAAATATACAATTCCTATACCCTTGAAGTTGCAGTGGGTCAGAATGAAA
64 TTGCAGTGGATC-GATTAAAGATACAATTCCTATACCCCTGAAGTTGCAGTGGGTCTGAATGAAA
*
14447082 TTATAATGGT
128 TTACAATGGT
* *
14447092 GAATCTTATCTTCCTGAAGTTGCAGTGGAACAAGATAAAGATACAAATCC
1 GAATCTTATCTTCCTGAAGTTGCAGTGGAACAAGATGAAGCTACAAATCC
14447142 AATACCCATA
Statistics
Matches: 290, Mismatches: 27, Indels: 18
0.87 0.08 0.05
Matches are distributed among these distances:
136 1 0.00
137 6 0.02
138 278 0.96
139 3 0.01
140 2 0.01
ACGTcount: A:0.34, C:0.16, G:0.20, T:0.30
Consensus pattern (137 bp):
GAATCTTATCTTCCTGAAGTTGCAGTGGAACAAGATGAAGCTACAAATCCTATATCCTTGAAGTT
GCAGTGGATCGATTAAAGATACAATTCCTATACCCCTGAAGTTGCAGTGGGTCTGAATGAAATTA
CAATGGT
Found at i:14447275 original size:44 final size:44
Alignment explanation
Indices: 14447221--14447366 Score: 107
Period size: 44 Copynumber: 3.2 Consensus size: 44
14447211 TGGAGCAAAA
*
14447221 TGAAGCTACAAATATTATATCCCTAAAATTGCAGTAGAATGGAT
1 TGAAACTACAAATATTATATCCCTAAAATTGCAGTAGAATGGAT
* * * *** *
14447265 TGAAACTACAACAACAAATCTTATCTCCCTAAGGA-TGCAGT-GAAAAAAAA
1 TGAAACT------ACAAATATTATATCCCTAA-AATTGCAGTAG-AATGGAT
* * *
14447315 TGAAACTAAAAATATTCTATCCCTGAAATTGCAGTAGAATGGAT
1 TGAAACTACAAATATTATATCCCTAAAATTGCAGTAGAATGGAT
14447359 TGAAACTA
1 TGAAACTA
14447367 TAACAACAAA
Statistics
Matches: 74, Mismatches: 18, Indels: 20
0.66 0.16 0.18
Matches are distributed among these distances:
43 1 0.01
44 37 0.50
45 1 0.01
49 1 0.01
50 33 0.45
51 1 0.01
ACGTcount: A:0.44, C:0.16, G:0.14, T:0.26
Consensus pattern (44 bp):
TGAAACTACAAATATTATATCCCTAAAATTGCAGTAGAATGGAT
Found at i:14447304 original size:50 final size:48
Alignment explanation
Indices: 14447228--14447386 Score: 134
Period size: 50 Copynumber: 3.3 Consensus size: 48
14447218 AAATGAAGCT
* *
14447228 ACAAATATTATATCCCTAAAATTGCAGTAGAATGGATTGAAACTACAACA
1 ACAAATCTTATCTCCCT-AAATTGCAGTAGAATGGATTGAAACTA-AACA
*** *
14447278 ACAAATCTTATCTCCCTAAGGA-TGCAGT-GAAAAAAAATGAAACTAAA-A
1 ACAAATCTTATCTCCCTAA--ATTGCAGTAG-AATGGATTGAAACTAAACA
* *
14447326 A-TATTC-TA--TCCCTGAAATTGCAGTAGAATGGATTGAAACTATAACA
1 ACAAATCTTATCTCCCT-AAATTGCAGTAGAATGGATTGAAACTA-AACA
14447372 ACAAATCTTATCTCC
1 ACAAATCTTATCTCC
14447387 TTAATGTTGA
Statistics
Matches: 83, Mismatches: 14, Indels: 24
0.69 0.12 0.20
Matches are distributed among these distances:
43 1 0.01
44 22 0.27
45 5 0.06
46 4 0.05
47 6 0.07
48 4 0.05
49 5 0.06
50 35 0.42
51 1 0.01
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.26
Consensus pattern (48 bp):
ACAAATCTTATCTCCCTAAATTGCAGTAGAATGGATTGAAACTAAACA
Found at i:14447415 original size:94 final size:94
Alignment explanation
Indices: 14447187--14447390 Score: 327
Period size: 94 Copynumber: 2.2 Consensus size: 94
14447177 TACCATGGCG
* *
14447187 AATCTTATCTCCTTAAGGATGCAGTGGAGCAAAATGAAGCTACAAATATTATATCCCTAAAATTG
1 AATCTTATCTCCTTAAGGATGCAGTGGAGCAAAATGAAACTAAAAATATTATATCCCTAAAATTG
14447252 CAGTAGAATGGATTGAAACTACAACAACA
66 CAGTAGAATGGATTGAAACTACAACAACA
* * ** * *
14447281 AATCTTATCTCCCTAAGGATGCAGTGAAAAAAAATGAAACTAAAAATATTCTATCCCTGAAATTG
1 AATCTTATCTCCTTAAGGATGCAGTGGAGCAAAATGAAACTAAAAATATTATATCCCTAAAATTG
*
14447346 CAGTAGAATGGATTGAAACTATAACAACA
66 CAGTAGAATGGATTGAAACTACAACAACA
14447375 AATCTTATCTCCTTAA
1 AATCTTATCTCCTTAA
14447391 TGTTGAAATG
Statistics
Matches: 100, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
94 100 1.00
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.27
Consensus pattern (94 bp):
AATCTTATCTCCTTAAGGATGCAGTGGAGCAAAATGAAACTAAAAATATTATATCCCTAAAATTG
CAGTAGAATGGATTGAAACTACAACAACA
Found at i:14448919 original size:19 final size:19
Alignment explanation
Indices: 14448895--14448932 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
14448885 GTCCTTTGCC
* *
14448895 TATTTTTTTGTTATTTTAT
1 TATTTTATTATTATTTTAT
14448914 TATTTTATTATTATTTTAT
1 TATTTTATTATTATTTTAT
14448933 ATCCAACACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (19 bp):
TATTTTATTATTATTTTAT
Found at i:14450423 original size:30 final size:31
Alignment explanation
Indices: 14450370--14450436 Score: 75
Period size: 30 Copynumber: 2.2 Consensus size: 31
14450360 AATCTAAATT
14450370 TTAAAAAATATAAAGATTAAAATT-AACCAAA
1 TTAAAAAATATAAAGATTAAAATTGAA-CAAA
* * * *
14450401 TTAAAAAGTA-AATGATTGAAATTGAAGAAA
1 TTAAAAAATATAAAGATTAAAATTGAACAAA
14450431 TTAAAA
1 TTAAAA
14450437 TAAGATACCA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
30 20 0.65
31 11 0.35
ACGTcount: A:0.61, C:0.03, G:0.09, T:0.27
Consensus pattern (31 bp):
TTAAAAAATATAAAGATTAAAATTGAACAAA
Found at i:14452439 original size:21 final size:21
Alignment explanation
Indices: 14452415--14452456 Score: 84
Period size: 21 Copynumber: 2.0 Consensus size: 21
14452405 CTTCAATTGG
14452415 CACTCACAGCAGACTCAAAGA
1 CACTCACAGCAGACTCAAAGA
14452436 CACTCACAGCAGACTCAAAGA
1 CACTCACAGCAGACTCAAAGA
14452457 AGCTCTATTT
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:0.43, C:0.33, G:0.14, T:0.10
Consensus pattern (21 bp):
CACTCACAGCAGACTCAAAGA
Found at i:14455450 original size:379 final size:379
Alignment explanation
Indices: 14454751--14455495 Score: 1481
Period size: 379 Copynumber: 2.0 Consensus size: 379
14454741 GCATTCAATA
*
14454751 GCAATAAATTATAATGAGAACAAGAGATGAACACACAATTGCGTCTGTTGATGTGCATATGTGTG
1 GCAATAAATTATAATGAAAACAAGAGATGAACACACAATTGCGTCTGTTGATGTGCATATGTGTG
14454816 AGACAAAGAGAGAGGGAGAGGATAAATCAAACCAAATGAAAAAAAGCGAAGAAAGCACAAATTAA
66 AGACAAAGAGAGAGGGAGAGGATAAATCAAACCAAATGAAAAAAAGCGAAGAAAGCACAAATTAA
14454881 ATCAAATGAAAAGATTCAGAGATTCGTTAACCAAATGAAAAGAAGCAAAGAAAGCACAAATTAAA
131 ATCAAATGAAAAGATTCAGAGATTCGTTAACCAAATGAAAAGAAGCAAAGAAAGCACAAATTAAA
14454946 TCAACAACAAGAAGGAAAAAAAAGAGCTCACTCTTTCGGTCGTTCATTTCAAAGGAAAAAACTGT
196 TCAACAACAAGAAGGAAAAAAAAGAGCTCACTCTTTCGGTCGTTCATTTCAAAGGAAAAAACTGT
14455011 TGCATTCAACACCTGGATTGGGAAGTTTCCCATTCACTTCCCAGGATTATCTTCACTGCTTTTTC
261 TGCATTCAACACCTGGATTGGGAAGTTTCCCATTCACTTCCCAGGATTATCTTCACTGCTTTTTC
14455076 CTCAATTTTGACCCAAATTTCCCCAATCATCTTATTTCTAAGAAACTTACAAAT
326 CTCAATTTTGACCCAAATTTCCCCAATCATCTTATTTCTAAGAAACTTACAAAT
14455130 GCAATAAATTATAATGAAAACAAGAGATGAACACACAATTGCGTCTGTTGATGTGCATATGTGTG
1 GCAATAAATTATAATGAAAACAAGAGATGAACACACAATTGCGTCTGTTGATGTGCATATGTGTG
14455195 AGACAAAGAGAGAGGGAGAGGATAAATCAAACCAAATGAAAAAAAGCGAAGAAAGCACAAATTAA
66 AGACAAAGAGAGAGGGAGAGGATAAATCAAACCAAATGAAAAAAAGCGAAGAAAGCACAAATTAA
14455260 ATCAAATGAAAAGATTCAGAGATTCGTTAACCAAATGAAAAGAAGCAAAGAAAGCACAAATTAAA
131 ATCAAATGAAAAGATTCAGAGATTCGTTAACCAAATGAAAAGAAGCAAAGAAAGCACAAATTAAA
14455325 TCAACAACAAGAAGGAAAAAAAAGAGCTCACTCTTTCGGTCGTTCATTTCAAAGGAAAAAACTGT
196 TCAACAACAAGAAGGAAAAAAAAGAGCTCACTCTTTCGGTCGTTCATTTCAAAGGAAAAAACTGT
14455390 TGCATTCAACACCTGGATTGGGAAGTTTCCCATTCACTTCCCAGGATTATCTTCACTGCTTTTTC
261 TGCATTCAACACCTGGATTGGGAAGTTTCCCATTCACTTCCCAGGATTATCTTCACTGCTTTTTC
14455455 CTCAATTTTGACCCAAATTTCCCCAATCATCTTATTTCTAA
326 CTCAATTTTGACCCAAATTTCCCCAATCATCTTATTTCTAA
14455496 TCATTTTATT
Statistics
Matches: 365, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
379 365 1.00
ACGTcount: A:0.42, C:0.18, G:0.17, T:0.24
Consensus pattern (379 bp):
GCAATAAATTATAATGAAAACAAGAGATGAACACACAATTGCGTCTGTTGATGTGCATATGTGTG
AGACAAAGAGAGAGGGAGAGGATAAATCAAACCAAATGAAAAAAAGCGAAGAAAGCACAAATTAA
ATCAAATGAAAAGATTCAGAGATTCGTTAACCAAATGAAAAGAAGCAAAGAAAGCACAAATTAAA
TCAACAACAAGAAGGAAAAAAAAGAGCTCACTCTTTCGGTCGTTCATTTCAAAGGAAAAAACTGT
TGCATTCAACACCTGGATTGGGAAGTTTCCCATTCACTTCCCAGGATTATCTTCACTGCTTTTTC
CTCAATTTTGACCCAAATTTCCCCAATCATCTTATTTCTAAGAAACTTACAAAT
Found at i:14455499 original size:15 final size:15
Alignment explanation
Indices: 14455479--14455510 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
14455469 AAATTTCCCC
14455479 AATCATCTTATTTCT
1 AATCATCTTATTTCT
*
14455494 AATCATTTTATTTCT
1 AATCATCTTATTTCT
14455509 AA
1 AA
14455511 GAAACTTACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.31, C:0.16, G:0.00, T:0.53
Consensus pattern (15 bp):
AATCATCTTATTTCT
Found at i:14456222 original size:64 final size:64
Alignment explanation
Indices: 14456143--14456289 Score: 285
Period size: 64 Copynumber: 2.3 Consensus size: 64
14456133 TATAGTATTT
14456143 AAATTAGAGGATTCGAACTTAAGATTTTAAAATTCTCAAATTTCTAACCTTATTAATTCAATCA
1 AAATTAGAGGATTCGAACTTAAGATTTTAAAATTCTCAAATTTCTAACCTTATTAATTCAATCA
*
14456207 AAATTAAAGGATTCGAACTTAAGATTTTAAAATTCTCAAATTTCTAACCTTATTAATTCAATCA
1 AAATTAGAGGATTCGAACTTAAGATTTTAAAATTCTCAAATTTCTAACCTTATTAATTCAATCA
14456271 AAATTAGAGGATTCGAACT
1 AAATTAGAGGATTCGAACT
14456290 AATATAACAT
Statistics
Matches: 81, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 81 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (64 bp):
AAATTAGAGGATTCGAACTTAAGATTTTAAAATTCTCAAATTTCTAACCTTATTAATTCAATCA
Found at i:14459874 original size:21 final size:21
Alignment explanation
Indices: 14459850--14459902 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
14459840 CATTGTTTCT
*
14459850 AATCTCACCGCTACAGTACCC
1 AATCTCACCGCTACAGTAACC
*
14459871 AATCTCACCGCTACAGTAACT
1 AATCTCACCGCTACAGTAACC
14459892 AATCTCACCGC
1 AATCTCACCGC
14459903 CACCGCTGTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.40, G:0.09, T:0.21
Consensus pattern (21 bp):
AATCTCACCGCTACAGTAACC
Found at i:14461062 original size:30 final size:30
Alignment explanation
Indices: 14461018--14461080 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
14461008 ACTTAACAAG
*
14461018 CAAATGCCTCTAAAATAATAGCAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
* * *
14461048 CAAATGTCTTTAAAATAATAATAAAATTAA
1 CAAATGCCTCTAAAATAATAACAAAATTAA
14461078 CAA
1 CAA
14461081 TAAAATAAGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.27
Consensus pattern (30 bp):
CAAATGCCTCTAAAATAATAACAAAATTAA
Found at i:14461545 original size:20 final size:20
Alignment explanation
Indices: 14461520--14461571 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
14461510 ATTAATTATT
*
14461520 TATAAAATTTAATTTAAATA
1 TATAAAATATAATTTAAATA
* *
14461540 TATAAACTATATTTTAAATA
1 TATAAAATATAATTTAAATA
14461560 T-TAAAATATAAT
1 TATAAAATATAAT
14461572 CAATCAGTAT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (20 bp):
TATAAAATATAATTTAAATA
Found at i:14475238 original size:12 final size:12
Alignment explanation
Indices: 14475221--14475258 Score: 53
Period size: 11 Copynumber: 3.3 Consensus size: 12
14475211 CAGCCCGCCA
14475221 ATATTAATTTTT
1 ATATTAATTTTT
14475233 ATATT-ATTTTT
1 ATATTAATTTTT
*
14475244 ATA-TAATTTTA
1 ATATTAATTTTT
14475255 ATAT
1 ATAT
14475259 ATATAATACA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
10 1 0.04
11 17 0.74
12 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (12 bp):
ATATTAATTTTT
Found at i:14475308 original size:25 final size:22
Alignment explanation
Indices: 14475279--14475334 Score: 69
Period size: 25 Copynumber: 2.4 Consensus size: 22
14475269 TCAAAAATAC
14475279 TAAAAATATTAAAATAAATATTT
1 TAAAAATATTAAAATAAAT-TTT
14475302 TCGAAAAA-ATTTAAAATAAATTTT
1 T--AAAAATA-TTAAAATAAATTTT
14475326 TAAAAATAT
1 TAAAAATAT
14475335 ATATACTTAA
Statistics
Matches: 29, Mismatches: 0, Indels: 9
0.76 0.00 0.24
Matches are distributed among these distances:
22 6 0.21
23 2 0.07
24 5 0.17
25 16 0.55
ACGTcount: A:0.59, C:0.02, G:0.02, T:0.38
Consensus pattern (22 bp):
TAAAAATATTAAAATAAATTTT
Found at i:14476510 original size:31 final size:31
Alignment explanation
Indices: 14476456--14476536 Score: 108
Period size: 31 Copynumber: 2.6 Consensus size: 31
14476446 AGAATATAAT
* * **
14476456 TTTTGGCCCCTAAACTTGGCAACTAGGTCCA
1 TTTTGGTCCCTAAACTTGACAACTAAATCCA
* *
14476487 TTTTGGTCCTTAAAATTGACAACTAAATCCA
1 TTTTGGTCCCTAAACTTGACAACTAAATCCA
14476518 TTTTGGTCCCTAAACTTGA
1 TTTTGGTCCCTAAACTTGA
14476537 ATTCTATCAA
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 42 1.00
ACGTcount: A:0.27, C:0.23, G:0.15, T:0.35
Consensus pattern (31 bp):
TTTTGGTCCCTAAACTTGACAACTAAATCCA
Found at i:14477027 original size:30 final size:30
Alignment explanation
Indices: 14476993--14477049 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
14476983 AAATTCATGT
*
14476993 CAAAGT-AGACATAATTATCAAGTTTAATAC
1 CAAAGTCA-ACATAATTATCAAATTTAATAC
*
14477023 CAAAGTCAACTTAATTATCAAATTTAA
1 CAAAGTCAACATAATTATCAAATTTAA
14477050 AAACAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.96
31 1 0.04
ACGTcount: A:0.47, C:0.14, G:0.07, T:0.32
Consensus pattern (30 bp):
CAAAGTCAACATAATTATCAAATTTAATAC
Found at i:14478154 original size:24 final size:24
Alignment explanation
Indices: 14478091--14478154 Score: 66
Period size: 23 Copynumber: 2.8 Consensus size: 24
14478081 AGCCGATCTG
14478091 AATATATTATATTA--TA-AAAAT
1 AATATATTATATTATTTATAAAAT
* *
14478112 ATTATATTA-ATTATATATAAAAT
1 AATATATTATATTATTTATAAAAT
14478135 AAT-TATTATATGTATTTATA
1 AATATATTATAT-TATTTATA
14478155 TTTATATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
20 4 0.11
21 8 0.23
22 7 0.20
23 9 0.26
24 7 0.20
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (24 bp):
AATATATTATATTATTTATAAAAT
Found at i:14496856 original size:19 final size:19
Alignment explanation
Indices: 14496832--14496870 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
14496822 TGAAGCAAGT
14496832 TCTAGAATAACAAATCAAA
1 TCTAGAATAACAAATCAAA
14496851 TCTAGAATAACAAATCAAA
1 TCTAGAATAACAAATCAAA
14496870 T
1 T
14496871 TGACACACTC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.56, C:0.15, G:0.05, T:0.23
Consensus pattern (19 bp):
TCTAGAATAACAAATCAAA
Found at i:14497273 original size:20 final size:21
Alignment explanation
Indices: 14497250--14497290 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 21
14497240 ATATATGTAC
14497250 ATATATA-AGTTAT-AAAATAA
1 ATATATAGA-TTATGAAAATAA
14497270 ATATATAGATTATGAAAATAA
1 ATATATAGATTATGAAAATAA
14497291 TGATTACATA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.58
21 8 0.42
ACGTcount: A:0.59, C:0.00, G:0.07, T:0.34
Consensus pattern (21 bp):
ATATATAGATTATGAAAATAA
Found at i:14505242 original size:16 final size:18
Alignment explanation
Indices: 14505223--14505259 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 18
14505213 AAAAAGCAAC
*
14505223 TAAAAC-AAAATAA-AAA
1 TAAAACGAAAAAAATAAA
14505239 TAAAACGAAAAAAATAAA
1 TAAAACGAAAAAAATAAA
14505257 TAA
1 TAA
14505260 TAATAAACTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
16 6 0.33
17 6 0.33
18 6 0.33
ACGTcount: A:0.78, C:0.05, G:0.03, T:0.14
Consensus pattern (18 bp):
TAAAACGAAAAAAATAAA
Found at i:14505423 original size:22 final size:22
Alignment explanation
Indices: 14505398--14505440 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
14505388 AAAAATAGTA
*
14505398 AAATAA-AAATAAATAATATAAC
1 AAATAATAAA-AAATAAAATAAC
14505420 AAATAATAAAAAATAAAATAA
1 AAATAATAAAAAATAAAATAA
14505441 AATAAATTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 16 0.84
23 3 0.16
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (22 bp):
AAATAATAAAAAATAAAATAAC
Found at i:14505427 original size:15 final size:14
Alignment explanation
Indices: 14505388--14505446 Score: 59
Period size: 15 Copynumber: 4.2 Consensus size: 14
14505378 AAAAAAATAA
*
14505388 AAAAATAGTAAAAT
1 AAAAATAATAAAAT
*
14505402 AAAAATAAATAATAT
1 AAAAAT-AATAAAAT
14505417 AACAAATAATAAAA-
1 AA-AAATAATAAAAT
*
14505431 AATAA-AATAAAAT
1 AAAAATAATAAAAT
14505444 AAA
1 AAA
14505447 TTGGGTGGCT
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 7 0.19
13 4 0.11
14 8 0.22
15 14 0.38
16 4 0.11
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (14 bp):
AAAAATAATAAAAT
Found at i:14505435 original size:10 final size:10
Alignment explanation
Indices: 14505378--14505445 Score: 52
Period size: 10 Copynumber: 6.8 Consensus size: 10
14505368 GTATAAGAAT
14505378 AAAAA-AATAA
1 AAAAATAAT-A
*
14505388 AAAAATAGTA
1 AAAAATAATA
*
14505398 AAATAAAAATA
1 AAA-AATAATA
*
14505409 AATAAT-ATA
1 AAAAATAATA
*
14505418 ACAAATAATA
1 AAAAATAATA
14505428 AAAAATAA-A
1 AAAAATAATA
14505437 ATAAAATAA
1 A-AAAATAA
14505446 ATTGGGTGGC
Statistics
Matches: 46, Mismatches: 8, Indels: 8
0.74 0.13 0.13
Matches are distributed among these distances:
9 9 0.20
10 28 0.61
11 9 0.20
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.19
Consensus pattern (10 bp):
AAAAATAATA
Found at i:14505606 original size:61 final size:61
Alignment explanation
Indices: 14505531--14505647 Score: 180
Period size: 61 Copynumber: 1.9 Consensus size: 61
14505521 GTGTCAGGCC
* * *
14505531 ATGTGTGTTTTCCTTCGCTTCTCGCACGCCCATGTGAGATCCCACACGCCCGTGTATCTTG
1 ATGTGTGTTTTCCTTCGCTTCTCCCACACCCAAGTGAGATCCCACACGCCCGTGTATCTTG
* * *
14505592 ATGTGTGTTTTCCTTCGCTTCTCCCACACCCAAGTGGGATCCCGCATGCCCGTGTA
1 ATGTGTGTTTTCCTTCGCTTCTCCCACACCCAAGTGAGATCCCACACGCCCGTGTA
14505648 GCCAGGCCGT
Statistics
Matches: 50, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
61 50 1.00
ACGTcount: A:0.14, C:0.33, G:0.21, T:0.32
Consensus pattern (61 bp):
ATGTGTGTTTTCCTTCGCTTCTCCCACACCCAAGTGAGATCCCACACGCCCGTGTATCTTG
Found at i:14508543 original size:18 final size:18
Alignment explanation
Indices: 14508520--14508555 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
14508510 CTTCTAGTCA
14508520 TAAACTAAAAACAAAAAT
1 TAAACTAAAAACAAAAAT
14508538 TAAACTAAAAACAAAAAT
1 TAAACTAAAAACAAAAAT
14508556 AAAATGCAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.72, C:0.11, G:0.00, T:0.17
Consensus pattern (18 bp):
TAAACTAAAAACAAAAAT
Found at i:14515873 original size:49 final size:49
Alignment explanation
Indices: 14515791--14515902 Score: 129
Period size: 49 Copynumber: 2.3 Consensus size: 49
14515781 GGTTATACAA
*
14515791 TCACGGGTTTAAGTATAACTAGGGCTCCCAGTTGACGGTAGTTATGC-G
1 TCACGGGTTCAAGTATAACTAGGGCTCCCAGTTGACGGTAGTTATGCGG
* * ** *
14515839 TCCACGGGTTCAAGTATAACTTGGGC-CCTTAGTTGGTGGTGGTTATGCGG
1 T-CACGGGTTCAAGTATAACTAGGGCTCC-CAGTTGACGGTAGTTATGCGG
*
14515889 TCATGGGTTCAAGT
1 TCACGGGTTCAAGT
14515903 TTCATGCTCC
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
48 3 0.06
49 49 0.91
50 2 0.04
ACGTcount: A:0.20, C:0.18, G:0.31, T:0.31
Consensus pattern (49 bp):
TCACGGGTTCAAGTATAACTAGGGCTCCCAGTTGACGGTAGTTATGCGG
Found at i:14527933 original size:44 final size:44
Alignment explanation
Indices: 14527870--14527956 Score: 147
Period size: 44 Copynumber: 2.0 Consensus size: 44
14527860 CGCTTGGTAC
* *
14527870 GCTTCATTTTGGTCATAAAAATGGAATCATAAAGCTTATGTTTT
1 GCTTCATTTTGGTCATAAAAATGGAACCATAAAGCTTAGGTTTT
*
14527914 GCTTCATTTTGGTCATAAAATTGGAACCATAAAGCTTAGGTTT
1 GCTTCATTTTGGTCATAAAAATGGAACCATAAAGCTTAGGTTT
14527957 GGCGGTAACT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 40 1.00
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (44 bp):
GCTTCATTTTGGTCATAAAAATGGAACCATAAAGCTTAGGTTTT
Found at i:14530951 original size:2 final size:2
Alignment explanation
Indices: 14530938--14531002 Score: 112
Period size: 2 Copynumber: 32.5 Consensus size: 2
14530928 GTTGTATTTA
* *
14530938 TG TG TG TA TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TA TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG TG
14530980 TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG T
14531003 TCTCTGTGAA
Statistics
Matches: 59, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.03, C:0.00, G:0.46, T:0.51
Consensus pattern (2 bp):
TG
Found at i:14531755 original size:76 final size:76
Alignment explanation
Indices: 14531586--14531777 Score: 197
Period size: 76 Copynumber: 2.5 Consensus size: 76
14531576 GTATTATTCG
* * * * *
14531586 GAAAACCTTAGTGGCAAATTATCTAAAAGGCCTTTATGGCGTATCATTCAGAAAGCCTTAGTGGA
1 GAAACCCTT-GTGGCGAATTATCTAAAAAGCCTTTGTGGCATATCATTCAGAAAGCCTTAGTGGA
14531651 AAAGTTATCTAA
65 AAAGTTATCTAA
** * * * * *
14531663 GAAACTTTTATAGCGAATTATCTAAAAAGCTTTTGTGGCATATTATTC-GAAAAGCCTTAGTGGC
1 GAAACCCTTGTGGCGAATTATCTAAAAAGCCTTTGTGGCATATCATTCAG-AAAGCCTTAGTGGA
* **
14531727 GAAGTTATCTGG
65 AAAGTTATCTAA
* * *
14531739 GAAGCCCTTGTGGCGAATTATCTGAAATGCCTTTGTGGC
1 GAAACCCTTGTGGCGAATTATCTAAAAAGCCTTTGTGGC
14531778 TAGATCTGGG
Statistics
Matches: 91, Mismatches: 23, Indels: 3
0.78 0.20 0.03
Matches are distributed among these distances:
75 1 0.01
76 84 0.92
77 6 0.07
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.31
Consensus pattern (76 bp):
GAAACCCTTGTGGCGAATTATCTAAAAAGCCTTTGTGGCATATCATTCAGAAAGCCTTAGTGGAA
AAGTTATCTAA
Found at i:14531774 original size:25 final size:26
Alignment explanation
Indices: 14531675--14531777 Score: 90
Period size: 25 Copynumber: 4.1 Consensus size: 26
14531665 AACTTTTATA
* *
14531675 GCGAATTATCT-AAAAAGCTTTTGTG
1 GCGAATTATCTCGAAAAGCCTTTGTG
*
14531700 GC-ATATTAT-TCGAAAAGCCTTAGTG
1 GCGA-ATTATCTCGAAAAGCCTTTGTG
** *
14531725 GCGAAGTTATCT-GGGAAGCCCTTGTG
1 GCGAA-TTATCTCGAAAAGCCTTTGTG
*
14531751 GCGAATTATCT-GAAATGCCTTTGTG
1 GCGAATTATCTCGAAAAGCCTTTGTG
14531776 GC
1 GC
14531778 TAGATCTGGG
Statistics
Matches: 62, Mismatches: 11, Indels: 10
0.75 0.13 0.12
Matches are distributed among these distances:
24 2 0.03
25 39 0.63
26 20 0.32
27 1 0.02
ACGTcount: A:0.26, C:0.17, G:0.25, T:0.32
Consensus pattern (26 bp):
GCGAATTATCTCGAAAAGCCTTTGTG
Found at i:14546072 original size:29 final size:28
Alignment explanation
Indices: 14546032--14546097 Score: 73
Period size: 28 Copynumber: 2.4 Consensus size: 28
14546022 CGATTTTACG
* *
14546032 AAAAAT-GGCTCATTCCGGTAAATAATAA
1 AAAAATCGACTCATTCCGATAAAT-ATAA
* *
14546060 AAAAATCGACTCATTTCGATAAATTTAA
1 AAAAATCGACTCATTCCGATAAATATAA
14546088 AAAAA-CGACT
1 AAAAATCGACT
14546098 TTTATTGGTA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
27 5 0.15
28 14 0.42
29 14 0.42
ACGTcount: A:0.48, C:0.15, G:0.11, T:0.26
Consensus pattern (28 bp):
AAAAATCGACTCATTCCGATAAATATAA
Found at i:14548552 original size:22 final size:21
Alignment explanation
Indices: 14548524--14548704 Score: 92
Period size: 22 Copynumber: 8.2 Consensus size: 21
14548514 AGCAATTATC
14548524 TAACATTCAGACAACATTTAAT
1 TAACATT-AGACAACATTTAAT
*
14548546 TAACATTTGGACAACATTTAAT
1 TAACA-TTAGACAACATTTAAT
* *
14548568 CAACAATTAGACAACATTCAAT
1 TAAC-ATTAGACAACATTTAAT
* * * *
14548590 CAATATTTGGACAACATTCAAT
1 TAACA-TTAGACAACATTTAAT
* * * * *
14548612 CAACAATTGGATAGCATTAAAT
1 TAAC-ATTAGACAACATTTAAT
* * *
14548634 CAACATTTGGACAGCATTTAAT
1 TAACA-TTAGACAACATTTAAT
* * *
14548656 CAACAATTGGACAACATTCAAT
1 TAAC-ATTAGACAACATTTAAT
* * *
14548678 CAATATTTGGACAACATTTAAT
1 TAACA-TTAGACAACATTTAAT
*
14548700 CAACA
1 TAACA
14548705 ATTTTTACTT
Statistics
Matches: 135, Mismatches: 17, Indels: 14
0.81 0.10 0.08
Matches are distributed among these distances:
21 3 0.02
22 127 0.94
23 5 0.04
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.29
Consensus pattern (21 bp):
TAACATTAGACAACATTTAAT
Found at i:14548584 original size:44 final size:44
Alignment explanation
Indices: 14548532--14548707 Score: 253
Period size: 44 Copynumber: 4.0 Consensus size: 44
14548522 TCTAACATTC
* *
14548532 AGACAACATTTAATTAACATTTGGACAACATTTAATCAACAATT
1 AGACAACATTCAATCAACATTTGGACAACATTTAATCAACAATT
* *
14548576 AGACAACATTCAATCAATATTTGGACAACATTCAATCAACAATT
1 AGACAACATTCAATCAACATTTGGACAACATTTAATCAACAATT
* * * * *
14548620 GGATAGCATTAAATCAACATTTGGACAGCATTTAATCAACAATT
1 AGACAACATTCAATCAACATTTGGACAACATTTAATCAACAATT
* *
14548664 GGACAACATTCAATCAATATTTGGACAACATTTAATCAACAATT
1 AGACAACATTCAATCAACATTTGGACAACATTTAATCAACAATT
14548708 TTTACTTTAA
Statistics
Matches: 116, Mismatches: 16, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 116 1.00
ACGTcount: A:0.44, C:0.18, G:0.09, T:0.30
Consensus pattern (44 bp):
AGACAACATTCAATCAACATTTGGACAACATTTAATCAACAATT
Found at i:14548659 original size:88 final size:88
Alignment explanation
Indices: 14548538--14548707 Score: 295
Period size: 88 Copynumber: 1.9 Consensus size: 88
14548528 ATTCAGACAA
* *
14548538 CATTTAATTAACATTTGGACAACATTTAATCAACAATTAGACAACATTCAATCAATATTTGGACA
1 CATTAAATCAACATTTGGACAACATTTAATCAACAATTAGACAACATTCAATCAATATTTGGACA
14548603 ACATTCAATCAACAATTGGATAG
66 ACATTCAATCAACAATTGGATAG
* *
14548626 CATTAAATCAACATTTGGACAGCATTTAATCAACAATTGGACAACATTCAATCAATATTTGGACA
1 CATTAAATCAACATTTGGACAACATTTAATCAACAATTAGACAACATTCAATCAATATTTGGACA
*
14548691 ACATTTAATCAACAATT
66 ACATTCAATCAACAATT
14548708 TTTACTTTAA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
88 77 1.00
ACGTcount: A:0.43, C:0.18, G:0.09, T:0.31
Consensus pattern (88 bp):
CATTAAATCAACATTTGGACAACATTTAATCAACAATTAGACAACATTCAATCAATATTTGGACA
ACATTCAATCAACAATTGGATAG
Found at i:14553666 original size:16 final size:16
Alignment explanation
Indices: 14553645--14553677 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
14553635 AACAACAAAC
14553645 ATTCGTCATATGTAGT
1 ATTCGTCATATGTAGT
14553661 ATTCGTCATATGTAGT
1 ATTCGTCATATGTAGT
14553677 A
1 A
14553678 AAAGACAAGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.42
Consensus pattern (16 bp):
ATTCGTCATATGTAGT
Found at i:14557550 original size:213 final size:213
Alignment explanation
Indices: 14557183--14557590 Score: 789
Period size: 213 Copynumber: 1.9 Consensus size: 213
14557173 GCTTATGCTA
*
14557183 TATGTGTATTTGGCTAACATATTTGGTGTACATGCTTAGGCTTTGGCTAAGTAGTGGCTAGATTA
1 TATGTGTATTTGGCTAACATATTTGGTGTACATGCTTAGGCTTTGGCCAAGTAGTGGCTAGATTA
14557248 TGCCACGTTAAATTTATAAGTTATGCATTGAAATGGTAAGTGCCTAATTGAAAATATGCTTGTGA
66 TGCCACGTTAAATTTATAAGTTATGCATTGAAATGGTAAGTGCCTAATTGAAAATATGCTTGTGA
*
14557313 TCATGAAAAGGGTGGTAAGGTTTAAATTATGTAATCTCTAGTGAAATGGTTTATCATGCGGTTGT
131 TCATGAAAAGGGTGGTAAGGTTTAAATTATGTAATCTCTAGTAAAATGGTTTATCATGCGGTTGT
14557378 ACATATTTGGTGTATGTG
196 ACATATTTGGTGTATGTG
14557396 TATGTGTATTTGGCTAACATATTTGGTGTACATGCTTAGGCTTTGGCCAAGTAGTGGCTAGATTA
1 TATGTGTATTTGGCTAACATATTTGGTGTACATGCTTAGGCTTTGGCCAAGTAGTGGCTAGATTA
14557461 TGCCACGTTAAATTTATAAGTTATGCATTGAAATGGTAAGTGCCTAATTGAAAATATGCTTGTGA
66 TGCCACGTTAAATTTATAAGTTATGCATTGAAATGGTAAGTGCCTAATTGAAAATATGCTTGTGA
*
14557526 TCATGAAAAGGGTGGTAAGGTTTAAATTATGTAATCTCTAGTAAAATGGTTTATCATGTGGTTGT
131 TCATGAAAAGGGTGGTAAGGTTTAAATTATGTAATCTCTAGTAAAATGGTTTATCATGCGGTTGT
14557591 TCAAAAAAAG
Statistics
Matches: 192, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
213 192 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.38
Consensus pattern (213 bp):
TATGTGTATTTGGCTAACATATTTGGTGTACATGCTTAGGCTTTGGCCAAGTAGTGGCTAGATTA
TGCCACGTTAAATTTATAAGTTATGCATTGAAATGGTAAGTGCCTAATTGAAAATATGCTTGTGA
TCATGAAAAGGGTGGTAAGGTTTAAATTATGTAATCTCTAGTAAAATGGTTTATCATGCGGTTGT
ACATATTTGGTGTATGTG
Found at i:14559798 original size:52 final size:49
Alignment explanation
Indices: 14559713--14560078 Score: 431
Period size: 52 Copynumber: 7.6 Consensus size: 49
14559703 TTTGAGTACT
* **
14559713 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
14559759 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
14559811 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
14559857 TCTGATCAAGTGAC---AAAGTGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
14559903 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
14559955 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
14560007 TCTGATCAAGAGAC---AAAGTGATAAGTG-TAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
14560052 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
14560079 GCTACACTTA
Statistics
Matches: 291, Mismatches: 15, Indels: 29
0.87 0.04 0.09
Matches are distributed among these distances:
45 42 0.14
46 112 0.38
48 1 0.00
49 2 0.01
50 1 0.00
52 133 0.46
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:14559833 original size:98 final size:97
Alignment explanation
Indices: 14559713--14560078 Score: 492
Period size: 98 Copynumber: 3.7 Consensus size: 97
14559703 TTTGAGTACT
* *
14559713 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
14559778 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
14559811 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-----
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
14559871 AAAGTGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
14559903 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
14559968 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
14560007 TCTGATCAAGAGACAAAGTGATAAGTG-TAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
14560071 GATAAGTG
65 GA-AAGTG
14560079 GCTACACTTA
Statistics
Matches: 239, Mismatches: 15, Indels: 28
0.85 0.05 0.10
Matches are distributed among these distances:
92 41 0.17
95 1 0.00
96 1 0.00
97 30 0.13
98 124 0.52
101 1 0.00
104 41 0.17
ACGTcount: A:0.34, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:14560078 original size:45 final size:43
Alignment explanation
Indices: 14559975--14560187 Score: 196
Period size: 37 Copynumber: 5.3 Consensus size: 43
14559965 TGACAAGTGA
*
14559975 AAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTG-TAGCTT--GCTACACTTATCTGATCAAGAGAC
14560021 AAAGTGATAAGTGTAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGTAGC-TT-GCTACACTTATCTGATCAAGAGAC
*
14560066 AAAGTGATAA--GT-G---GCTACACTTATCTGATCAAGAAAC
1 AAAGTGATAAGTGTAGCTTGCTACACTTATCTGATCAAGAGAC
* *
14560103 AAAGTGATAA--GT-G---GCTACACTTATGTGATCAAGAAAC
1 AAAGTGATAAGTGTAGCTTGCTACACTTATCTGATCAAGAGAC
*
14560140 AAAGTGAT-AG-GT-G---GCTACACTTATCTGATC-AGGGAC
1 AAAGTGATAAGTGTAGCTTGCTACACTTATCTGATCAAGAGAC
14560176 -AAGTGATAAGTG
1 AAAGTGATAAGTG
14560188 ATCATACGTA
Statistics
Matches: 156, Mismatches: 7, Indels: 17
0.87 0.04 0.09
Matches are distributed among these distances:
35 7 0.04
36 7 0.04
37 87 0.56
42 1 0.01
43 2 0.01
45 37 0.24
46 15 0.10
ACGTcount: A:0.37, C:0.15, G:0.23, T:0.26
Consensus pattern (43 bp):
AAAGTGATAAGTGTAGCTTGCTACACTTATCTGATCAAGAGAC
Found at i:14560083 original size:37 final size:37
Alignment explanation
Indices: 14560042--14560187 Score: 233
Period size: 37 Copynumber: 4.0 Consensus size: 37
14560032 TGTAGCTTTA
*
14560042 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
14560079 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
* *
14560116 GCTACACTTATGTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
14560153 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
14560188 ATCATACGTA
Statistics
Matches: 102, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 87 0.85
ACGTcount: A:0.37, C:0.16, G:0.23, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:14561007 original size:7 final size:7
Alignment explanation
Indices: 14560995--14561026 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
14560985 TTATCTGATC
14560995 AGTGACA
1 AGTGACA
14561002 AGTGACA
1 AGTGACA
14561009 AGTGACA
1 AGTGACA
*
14561016 AGTGATA
1 AGTGACA
14561023 AGTG
1 AGTG
14561027 GTGGCTTTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.41, C:0.09, G:0.31, T:0.19
Consensus pattern (7 bp):
AGTGACA
Found at i:14561086 original size:61 final size:58
Alignment explanation
Indices: 14560955--14561106 Score: 189
Period size: 61 Copynumber: 2.6 Consensus size: 58
14560945 CTAATCAGTG
* * * *
14560955 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGTGACAAGTGACAAGTG
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTAGCTCATCACTGACAAGTGACAAGTA
* * *
14561013 ACAAGTGATAAGTGGTGGCTTTAGCTACATTTAGCTACACTTATCTGATC-AGTGACAAGTA
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTAGCT-CA-TCA-CTGA-CAAGTGACAAGTA
*
14561074 ACAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 ACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
14561107 TCTGATCGGG
Statistics
Matches: 80, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
58 33 0.41
59 1 0.01
60 2 0.03
61 43 0.54
62 1 0.01
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.30
Consensus pattern (58 bp):
ACAAGTGATAAGTGGTAGCTTTAGCTACACTTAGCTCATCACTGACAAGTGACAAGTA
Found at i:14562515 original size:3 final size:3
Alignment explanation
Indices: 14562507--14562554 Score: 60
Period size: 3 Copynumber: 16.0 Consensus size: 3
14562497 ATTCCCACTC
* * * *
14562507 ATA ATA ATA ATA ATA ATA CTA ATA ATA ATA CTA ATA CTA ATA TTA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
14562555 CTTACCTCAC
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.58, C:0.06, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:14562555 original size:18 final size:18
Alignment explanation
Indices: 14562508--14562556 Score: 80
Period size: 18 Copynumber: 2.7 Consensus size: 18
14562498 TTCCCACTCA
*
14562508 TAATAATAATAATAATAC
1 TAATAATAATACTAATAC
14562526 TAATAATAATACTAATAC
1 TAATAATAATACTAATAC
*
14562544 TAATATTAATACT
1 TAATAATAATACT
14562557 TACCTCACAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.55, C:0.08, G:0.00, T:0.37
Consensus pattern (18 bp):
TAATAATAATACTAATAC
Done.