Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 35726063
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1821929 characters in sequence are not A, C, G, or T
File 46 of 109
Found at i:15100466 original size:43 final size:43
Alignment explanation
Indices: 15100417--15101020 Score: 691
Period size: 43 Copynumber: 14.0 Consensus size: 43
15100407 TAAAAACCCT
*
15100417 AACCCT-AACCCTTAAC-TTAAAACCTCTATCCCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTTAAAACC-CTA-ACCCTTAACCTAAA
*
15100460 AACCCT-AACCATTAACTTTAAAACCCTAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTTAAAACCCT-AACCCTTAACCTAAA
*
15100503 AACCCT-AACCCTTAACTTTAAAACCTTAACCCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTTAAAACCCTAA-CCCTTAACCTAAA
* *
15100546 AA-CCTTAATCCTTAACTTTAAAACCCTAAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTTAAAACCCT-AACCCTTAACCTAAA
* * * * * * **
15100589 GACCCTAAACTCTTAAATTAAAAACACTAACTCTTAAATTAAA
1 AACCCTAAACCCTTAACTTTAAAACCCTAACCCTTAACCTAAA
* * * *
15100632 AACCCTAAACCCTTAAATTAAAAACTCTAACCCTTAACCTGAA
1 AACCCTAAACCCTTAACTTTAAAACCCTAACCCTTAACCTAAA
* *
15100675 AACCCT-AACCCTTAACTTTAAAACCCTAAACTCTTAACTTAAA
1 AACCCTAAACCCTTAACTTTAAAACCCT-AACCCTTAACCTAAA
* * **
15100718 AACCCTAAACCATTAACTTAAAAACCCTAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTTAAAACCCTAACCCTTAACCTAAA
*** *
15100761 AACCCTAAACCCTTAACCAAAAAAACCCTAACCATTAACCTAAA
1 AACCCTAAACCCTTAA-CTTTAAAACCCTAACCCTTAACCTAAA
*
15100805 AACCCTAAA-CCTTAACTTTAAAACCCTAGACCCTTAACTTAAA
1 AACCCTAAACCCTTAACTTTAAAACCCTA-ACCCTTAACCTAAA
* * **
15100848 AACCCTAAACCCTTAACTTAAAAACTCTAACCCTTAAATTAAA
1 AACCCTAAACCCTTAACTTTAAAACCCTAACCCTTAACCTAAA
* * *
15100891 AACTCTAAACCCTTAACATAAAAACCCTAACCCTTAACCTAAA
1 AACCCTAAACCCTTAACTTTAAAACCCTAACCCTTAACCTAAA
* * * *
15100934 AACCCTAAACCCTTAACTTTAAAACCCTAGATCTTTAACTTTAA
1 AACCCTAAACCCTTAACTTTAAAACCCTA-ACCCTTAACCTAAA
* * * *
15100978 AACCCTAAATCCTTAACTTAAAAACCCTAACCGTTAACTTAAA
1 AACCCTAAACCCTTAACTTTAAAACCCTAACCCTTAACCTAAA
15101021 TATAATTTGA
Statistics
Matches: 485, Mismatches: 64, Indels: 24
0.85 0.11 0.04
Matches are distributed among these distances:
42 33 0.07
43 318 0.66
44 134 0.28
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.25
Consensus pattern (43 bp):
AACCCTAAACCCTTAACTTTAAAACCCTAACCCTTAACCTAAA
Found at i:15100540 original size:65 final size:64
Alignment explanation
Indices: 15100417--15101020 Score: 699
Period size: 65 Copynumber: 9.3 Consensus size: 64
15100407 TAAAAACCCT
** * * *
15100417 AACCCTAACCCTTAACTT-AAAACCTCTATCCCCTTAACCTAAAAACCCTAACCATTAACTTTAA
1 AACCCTAACCCTTAACTTAAAAACC-CTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * * *
15100481 AACCCTAAACCCTTAACCTAAAAACCCT-AACCCTTAACTTTAAAACCTTAACCCCTTAACCTAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAA-CCCTTAACTTAA
15100545 A
64 A
* * * * * * *
15100546 AACCTTAATCCTTAACTTTAAAACCCTAAACCCTTAACCTAAAGACCCTAAACTCTTAAATTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * * * * * *
15100611 AACACTAACTCTTAAATTAAAAACCCTAAACCCTTAAATTAAAAACTCTAACCCTTAACCTGAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * *
15100675 AACCCTAACCCTTAACTTTAAAACCCTAAACTCTTAACTTAAAAACCCTAAACCATTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* ** * *
15100740 AACCCTAACCCTTAAATTAAAAACCCTAAACCCTTAACCAAAAAAACCCTAACCATTAACCTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAA-CTTAAAAACCCTAACCCTTAACTTAAA
* * *
15100805 AACCCTAAACCTTAACTTTAAAACCCTAGACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAAA
* * * * *
15100870 AACTCTAACCCTTAAATTAAAAACTCTAAACCCTTAACATAAAAACCCTAACCCTTAACCTAAA
1 AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
* * * * * *
15100934 AACCCTAAACCCTTAACTTTAAAACCCTAGATCTTTAACTTTAAAACCCTAAATCCTTAACTTAA
1 AACCCT-AACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCT-AACCCTTAACTTAA
15100999 A
64 A
*
15101000 AACCCTAACCGTTAACTTAAA
1 AACCCTAACCCTTAACTTAAA
15101021 TATAATTTGA
Statistics
Matches: 451, Mismatches: 79, Indels: 19
0.82 0.14 0.03
Matches are distributed among these distances:
64 124 0.27
65 290 0.64
66 37 0.08
ACGTcount: A:0.44, C:0.30, G:0.01, T:0.25
Consensus pattern (64 bp):
AACCCTAACCCTTAACTTAAAAACCCTAAACCCTTAACTTAAAAACCCTAACCCTTAACTTAAA
Found at i:15104379 original size:126 final size:126
Alignment explanation
Indices: 15104117--15104683 Score: 723
Period size: 126 Copynumber: 4.5 Consensus size: 126
15104107 CCAAACATGT
* *
15104117 TACTGTAGCAAAAGCGCGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * * * * *
15104182 AGAAGCG-ATTTTATACTATTTGCTCAGAATCGTCAAGTCAAAATTATTTTTCCTGGACCA
66 TGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACCA
* * *
15104242 -ACTATAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATACTGC
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAA-AGCATCCTGC
* * *
15104305 TTGGAGCGTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGA-CA
65 TTGAAGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACCA
* * *
15104367 TACTGTAGCAAAAGCGCGTCCACGCGGGCGCGACTTCACAAATTCTTCTTATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * * *
15104432 TGAAGCGTTTTTTAAACTATTTGCTCAAAAATGTCAACTTAGAATTATTTCTTCCAGGACCA
66 TGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTT-TTCCAGGACCA
* * * *
15104494 -ACTGTAGTAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCACAAAGTATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * **
15104558 TGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAAGTCGAACCTATTTTTCCAGGACC-
66 TGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACCA
* * * * * * * * *
15104618 TACTATAGCAAAAGCGCGTACACGTGGGCGCAACTTCAAAAATCCTTCTGATAAATCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
15104683 T
66 T
15104684 TGATTTTATC
Statistics
Matches: 381, Mismatches: 53, Indels: 16
0.85 0.12 0.04
Matches are distributed among these distances:
123 2 0.01
124 61 0.16
125 100 0.26
126 214 0.56
127 4 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (126 bp):
TACTGTAGCAAAAGCGCGTCCACGAGGGCGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
TGAAGCGTTTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTCCAGGACCA
Found at i:15104629 original size:251 final size:250
Alignment explanation
Indices: 15104117--15104683 Score: 780
Period size: 251 Copynumber: 2.3 Consensus size: 250
15104107 CCAAACATGT
* *
15104117 TACTGTAGCAAAAGCGCGTCCACGTGGGTGCGATTTCACAAATTCTTCTCATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * * * *
15104182 AGAAGCGATTTTATACTATTTGCTCAGAATCGTCAAGTCAAAATTATTTTTCCTGGACCAACTAT
66 TGAAGCGATTTTAAACTATTTGCTCAAAATCGTCAACTCAAAATTATTTTTCCAGGACCAACTAT
*
15104247 AGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATACTGCTTGGAGC
131 AGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATACTGCTTGAAGC
* * *
15104312 GTTGTTTTATACTATTTGCTCAGAAACGTCAACTCAAAATTATTTTTTCAGGACA
196 GTTGTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAACTATTTTTCCAGGACA
* *
15104367 TACTGTAGCAAAAGCGCGTCCACGCGGGCGCGACTTCACAAATTCTTCTTATAAAGCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
* * *
15104432 TGAAGCGTTTTTTAAACTATTTGCTCAAAAAT-GTCAACTTAGAATTATTTCTTCCAGGACCAAC
66 TGAAGCG-ATTTTAAACTATTTGCTC-AAAATCGTCAACTCAAAATTATTT-TTCCAGGACCAAC
* * ** * *
15104496 TGTAGTAAAAGCGTGTCCACGAGGGCGCGATTTCACAAATTCTTCTCACAA-AGTATCCTGCTTG
128 TATAGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCA-AATAGCATACTGCTTG
* * * *
15104560 AAGCGTT-TTTTAAACTATTTGCTCAGAAACGTCAAGTCGAACCTATTTTTCCAGGACC
192 AAGCGTTGTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAACTATTTTTCCAGGACA
* * * * * * *
15104618 TACTATAGCAAAAGCGCGTACACGTGGGCGCAACTTCAAAAATCCTTCTGATAAATCATCCTGCT
1 TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
15104683 T
66 T
15104684 TGATTTTATC
Statistics
Matches: 279, Mismatches: 34, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
250 67 0.24
251 133 0.48
252 77 0.28
253 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (250 bp):
TACTGTAGCAAAAGCGCGTCCACGTGGGCGCGACTTCACAAATTCTTCTCATAAAGCATCCTGCT
TGAAGCGATTTTAAACTATTTGCTCAAAATCGTCAACTCAAAATTATTTTTCCAGGACCAACTAT
AGCAAAAGCACGTCCACGAGGGCGCGATTTCACAAATTCTTCTCAAATAGCATACTGCTTGAAGC
GTTGTTTTAAACTATTTGCTCAGAAACGTCAACTCAAAACTATTTTTCCAGGACA
Found at i:15114427 original size:88 final size:89
Alignment explanation
Indices: 15114312--15114514 Score: 320
Period size: 88 Copynumber: 2.3 Consensus size: 89
15114302 CGACCTCCAG
* * * *
15114312 CCTCTCCCTCCCTCCCGAAATCACCGAAATCGACCTCCCAACATCAACAGAAGTTGTTTCTACAA
1 CCTCTCCCTCCTTCCCGAAATCGCCGAAATCGACCTCCCAACATCAACAGAAGCTATTTCTACAA
*
15114377 AATCACCTCCACCCTCT-CTTCTC
66 AATCACCTCCACCCTCTCCCTCTC
*
15114400 CCTCTCCCTCCTTCCCGAAATCGCCGAAATCGACCTCCCAACATCAACAGAAGCTATTTCTGCAA
1 CCTCTCCCTCCTTCCCGAAATCGCCGAAATCGACCTCCCAACATCAACAGAAGCTATTTCTACAA
*
15114465 AATTACCTCCACCCTCTCCCTCTC
66 AATCACCTCCACCCTCTCCCTCTC
15114489 CCTCTCCCT-CTCTCCCGAAATCGCCG
1 CCTCTCCCTCCT-TCCCGAAATCGCCG
15114515 CTCCCGTTTC
Statistics
Matches: 106, Mismatches: 7, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
88 78 0.74
89 28 0.26
ACGTcount: A:0.24, C:0.45, G:0.08, T:0.24
Consensus pattern (89 bp):
CCTCTCCCTCCTTCCCGAAATCGCCGAAATCGACCTCCCAACATCAACAGAAGCTATTTCTACAA
AATCACCTCCACCCTCTCCCTCTC
Found at i:15114487 original size:6 final size:6
Alignment explanation
Indices: 15114476--15114500 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
15114466 ATTACCTCCA
15114476 CCCTCT CCCTCT CCCTCT CCCTCT C
1 CCCTCT CCCTCT CCCTCT CCCTCT C
15114501 TCCCGAAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.68, G:0.00, T:0.32
Consensus pattern (6 bp):
CCCTCT
Found at i:15115668 original size:25 final size:25
Alignment explanation
Indices: 15115621--15115669 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
15115611 TTGCAGTGGC
* *
15115621 TGATTTTTCTTTTGTTAGCTCTGAT
1 TGATTTCTCTTTTGTCAGCTCTGAT
15115646 TGATTTCTCTTTTG-CAGCGTCTGA
1 TGATTTCTCTTTTGTCAGC-TCTGA
15115670 CAATGCCTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 3 0.14
25 18 0.86
ACGTcount: A:0.12, C:0.16, G:0.18, T:0.53
Consensus pattern (25 bp):
TGATTTCTCTTTTGTCAGCTCTGAT
Found at i:15120028 original size:92 final size:91
Alignment explanation
Indices: 15119871--15120079 Score: 278
Period size: 92 Copynumber: 2.3 Consensus size: 91
15119861 TTGATTTTAG
* * *
15119871 TAAATTCATATAAGAACATTTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTAT
* *
15119936 ATTTAAT-ATTAATTATTTTAAATTGTA
65 ATGTAATAATT-ATTATTTTAAATTATA
*
15119963 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
15120027 TATGTAATAATTATTATTTTAAATTATA
64 TATGTAATAATTATTATTTTAAATTATA
* * * *
15120055 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
15120080 GTTATAATTA
Statistics
Matches: 104, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
90 1 0.01
91 29 0.28
92 71 0.68
93 3 0.03
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATTATTATTTTAAATTATA
Found at i:15120042 original size:24 final size:25
Alignment explanation
Indices: 15120007--15120054 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 25
15119997 TTATGAAATT
15120007 TAATATTAATTA-TTAAATTATATG
1 TAATATTAATTATTTAAATTATATG
15120031 TAATAATT-ATTATTTTAAATTATA
1 TAAT-ATTAATTA-TTTAAATTATA
15120055 CAAATTCATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
24 8 0.38
25 3 0.14
26 10 0.48
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TAATATTAATTATTTAAATTATATG
Found at i:15120250 original size:16 final size:16
Alignment explanation
Indices: 15120229--15120270 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15120219 TTATTAAATT
*
15120229 ATATATTTTAATTATA
1 ATATATTTTAATAATA
15120245 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
15120260 AT-TATGTTTAA
1 ATATAT-TTTAA
15120271 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:15120255 original size:15 final size:15
Alignment explanation
Indices: 15120220--15120261 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15120210 TTAAGAATTT
*
15120220 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15120234 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15120248 TATTTAATAATAAT
1 TATTTAATTATAAT
15120262 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15124221 original size:21 final size:21
Alignment explanation
Indices: 15124195--15124236 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
15124185 GCAATTTTGT
15124195 AATTAAATG-GAAATTAAAACA
1 AATT-AATGTGAAATTAAAACA
15124216 AATTAATGTGAAATTAAAACA
1 AATTAATGTGAAATTAAAACA
15124237 TTTCAATTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.60, C:0.05, G:0.10, T:0.26
Consensus pattern (21 bp):
AATTAATGTGAAATTAAAACA
Found at i:15126763 original size:18 final size:19
Alignment explanation
Indices: 15126728--15126763 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
15126718 ATTCTGGCCC
15126728 TATCTCACTAAAATTAAAA
1 TATCTCACTAAAATTAAAA
*
15126747 TATCTCA-TAATATTAAA
1 TATCTCACTAAAATTAAA
15126764 CTCTTTTGCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 9 0.56
19 7 0.44
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (19 bp):
TATCTCACTAAAATTAAAA
Found at i:15127117 original size:41 final size:44
Alignment explanation
Indices: 15127068--15127189 Score: 121
Period size: 43 Copynumber: 2.9 Consensus size: 44
15127058 AACCGTTACT
* **
15127068 CGGTGGAATCAGCACTTAGCAACCAAC-TT-A-TATTTAGTGATA
1 CGGTGGAATCAGCACTTAGCAACCAACTTTCACAATCAAG-GATA
* * *
15127110 CGG-GGAATTAGCACATAGCAACC-CCTTTCACAATCAAGGATA
1 CGGTGGAATCAGCACTTAGCAACCAACTTTCACAATCAAGGATA
* *
15127152 CGGTGGAATCAGCACTTAGCAACCACCTTT-AGAATCAA
1 CGGTGGAATCAGCACTTAGCAACCAACTTTCACAATCAA
15127190 TAATTCCAGG
Statistics
Matches: 66, Mismatches: 9, Indels: 9
0.79 0.11 0.11
Matches are distributed among these distances:
40 1 0.02
41 20 0.30
42 11 0.17
43 29 0.44
44 5 0.08
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.23
Consensus pattern (44 bp):
CGGTGGAATCAGCACTTAGCAACCAACTTTCACAATCAAGGATA
Found at i:15129566 original size:30 final size:32
Alignment explanation
Indices: 15129488--15129571 Score: 109
Period size: 32 Copynumber: 2.7 Consensus size: 32
15129478 GTATTTGTTT
* *
15129488 TATATATTGCCGAATTGATTTATATGTAGATA
1 TATATATTGCCGAATTGATTTGTATATAGATA
* *
15129520 TGTACATTGCCGAATTGATTTGTATAT-G-TA
1 TATATATTGCCGAATTGATTTGTATATAGATA
*
15129550 TATATATTGTCGAATTGATTTG
1 TATATATTGCCGAATTGATTTG
15129572 AGATACTGTA
Statistics
Matches: 45, Mismatches: 7, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
30 21 0.47
31 1 0.02
32 23 0.51
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.45
Consensus pattern (32 bp):
TATATATTGCCGAATTGATTTGTATATAGATA
Found at i:15129634 original size:48 final size:48
Alignment explanation
Indices: 15129559--15129660 Score: 179
Period size: 48 Copynumber: 2.1 Consensus size: 48
15129549 ATATATATTG
15129559 TCGA-ATTGATTTGAGATACTGTATAAGACCATATCTGGGATATGGCA
1 TCGATATTGATTTGAGATACTGTATAAGACCATATCTGGGATATGGCA
**
15129606 TCGATATTGATTTGAGATTTTGTATAAGACCATATCTGGGATATGGCA
1 TCGATATTGATTTGAGATACTGTATAAGACCATATCTGGGATATGGCA
15129654 TCGATAT
1 TCGATAT
15129661 GAGACTTCGT
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
47 4 0.08
48 48 0.92
ACGTcount: A:0.30, C:0.12, G:0.23, T:0.35
Consensus pattern (48 bp):
TCGATATTGATTTGAGATACTGTATAAGACCATATCTGGGATATGGCA
Found at i:15129677 original size:42 final size:42
Alignment explanation
Indices: 15129582--15129740 Score: 147
Period size: 48 Copynumber: 3.6 Consensus size: 42
15129572 AGATACTGTA
* *
15129582 TAAGACCATATCTGGGATATGGCATCGATATTGATTTGAGATTTTGTA
1 TAAGACCATATCTGGGATATGGCATCG--A-T-A--TGAGATTTCGTG
*
15129630 TAAGACCATATCTGGGATATGGCATCGATATGAGACTTCGTG
1 TAAGACCATATCTGGGATATGGCATCGATATGAGATTTCGTG
* * * **
15129672 TAAGACCATAGCTGGGCTATTTGCATCGATATGAGATTTCCACG
1 TAAGACCATATCTGGGATA-TGGCATCGATATGAGATTT-CGTG
* * *
15129716 TAAGACAATGTCTGGGACATGGCAT
1 TAAGACCATATCTGGGATATGGCAT
15129741 TTGTACGATA
Statistics
Matches: 94, Mismatches: 15, Indels: 9
0.80 0.13 0.08
Matches are distributed among these distances:
42 26 0.28
43 22 0.23
44 17 0.18
45 1 0.01
46 1 0.01
48 27 0.29
ACGTcount: A:0.29, C:0.16, G:0.25, T:0.31
Consensus pattern (42 bp):
TAAGACCATATCTGGGATATGGCATCGATATGAGATTTCGTG
Found at i:15133624 original size:43 final size:43
Alignment explanation
Indices: 15133570--15133864 Score: 414
Period size: 43 Copynumber: 6.9 Consensus size: 43
15133560 GTTTTTAGAA
** *
15133570 ACAAACGCCGCTAAAGATAATGACCTTTAGCGGCGCTTCTCTC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC
*
15133613 ACAAATGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC
* * *
15133656 ACAAACACCGCTAAAGACCATGATCTTTAGAGGCGCTTTTCTC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC
* *
15133699 ACAAACGCCGCTAAAGACCATGATCTTTAGCAGCGCTTTT-TCC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCT-C
* *
15133742 ACAAACGCCGCTAAAGACCACGACCTTTAGCGGCGCTTTTCCC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC
* * *
15133785 ACAAACGCCGCTAAAGACCACGACCTTTAGCGGTGC-TTTCCC
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC
* * *
15133827 ACAAACGCCGCTAAAGATCAAGACCTTTAGCGGTGCTT
1 ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTT
15133865 CTCGCAAAAA
Statistics
Matches: 231, Mismatches: 18, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
42 41 0.18
43 190 0.82
ACGTcount: A:0.28, C:0.31, G:0.18, T:0.23
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTCTC
Found at i:15135098 original size:5 final size:5
Alignment explanation
Indices: 15135088--15135114 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
15135078 CTTTCTTGCC
15135088 AATAA AATAA AATAA AATAA AATAA AA
1 AATAA AATAA AATAA AATAA AATAA AA
15135115 AACAAGAATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AATAA
Found at i:15135681 original size:14 final size:14
Alignment explanation
Indices: 15135662--15135688 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15135652 ATCAAGAAAA
15135662 AAATTATGTATAAT
1 AAATTATGTATAAT
15135676 AAATTATGTATAA
1 AAATTATGTATAA
15135689 GACTTACATA
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:0.52, C:0.00, G:0.07, T:0.41
Consensus pattern (14 bp):
AAATTATGTATAAT
Found at i:15138288 original size:33 final size:33
Alignment explanation
Indices: 15138243--15138314 Score: 99
Period size: 33 Copynumber: 2.2 Consensus size: 33
15138233 AATCTAAATT
* * ** *
15138243 CTAAACCTTAACCCGACCTTGAATCCCTAATCC
1 CTAAACCCTAACCCAACCCAGAATCCCTAACCC
15138276 CTAAACCCTAACCCAACCCAGAATCCCTAACCC
1 CTAAACCCTAACCCAACCCAGAATCCCTAACCC
15138309 CTAAAC
1 CTAAAC
15138315 ATTATTTAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 34 1.00
ACGTcount: A:0.35, C:0.43, G:0.04, T:0.18
Consensus pattern (33 bp):
CTAAACCCTAACCCAACCCAGAATCCCTAACCC
Found at i:15138990 original size:41 final size:41
Alignment explanation
Indices: 15138916--15139165 Score: 319
Period size: 41 Copynumber: 6.1 Consensus size: 41
15138906 GGCGTTTTTG
* * * *
15138916 AAAG-GCCGGAGCATTAGCGGCACTTTTTAAAAAACGTCGCT
1 AAAGAGCC-GAGCATTAGCGGCGCTTCTTCAAAAACGCCGCT
* *
15138957 AAAGATCCGAGCATTAGCGGCGCTTCTTCAAAAATGCCGCT
1 AAAGAGCCGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCT
* * *
15138998 AAAG-GCCAGAGCATTAGTGGCGCTTATTTAAAAACGCCGCT
1 AAAGAGCC-GAGCATTAGCGGCGCTTCTTCAAAAACGCCGCT
* *
15139039 AAAGATCCGAGCATTAGCGGCGCTTCTTAAAAAACGCCGCT
1 AAAGAGCCGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCT
15139080 AAAG-GCCAGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCT
1 AAAGAGCC-GAGCATTAGCGGCGCTTCTTCAAAAACGCCGCT
* *
15139121 AAAGA-CTAGAGCATTAGCGGTGCTTCTTCAAAAACGCCGCT
1 AAAGAGC-CGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCT
15139162 AAAG
1 AAAG
15139166 GCCCCAAAAA
Statistics
Matches: 184, Mismatches: 19, Indels: 12
0.86 0.09 0.06
Matches are distributed among these distances:
40 4 0.02
41 176 0.96
42 4 0.02
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.20
Consensus pattern (41 bp):
AAAGAGCCGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCT
Found at i:15139052 original size:123 final size:123
Alignment explanation
Indices: 15138924--15139165 Score: 369
Period size: 123 Copynumber: 2.0 Consensus size: 123
15138914 TGAAAGGCCG
* * *
15138924 GAGCATTAGCGGCACTTTTTAAAAAACGTCGCTAAAGATCC-GAGCATTAGCGGCGCTTCTTCAA
1 GAGCATTAGCGGCACTTCTTAAAAAACGCCGCTAAAG-GCCAGAGCATTAGCGGCGCTTCTTCAA
* * * *
15138988 AAATGCCGCTAAAGGCCAGAGCATTAGTGGCGCTTATTTAAAAACGCCGCTAAAGATCC
65 AAACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGATCC
*
15139047 GAGCATTAGCGGCGCTTCTTAAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCTTCAAA
1 GAGCATTAGCGGCACTTCTTAAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCTTCAAA
* * *
15139112 AACGCCGCTAAAGACTAGAGCATTAGCGGTGCTTCTTCAAAAACGCCGCTAAAG
66 AACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAG
15139166 GCCCCAAAAA
Statistics
Matches: 107, Mismatches: 11, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
122 2 0.02
123 105 0.98
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.21
Consensus pattern (123 bp):
GAGCATTAGCGGCACTTCTTAAAAAACGCCGCTAAAGGCCAGAGCATTAGCGGCGCTTCTTCAAA
AACGCCGCTAAAGACCAGAGCATTAGCGGCGCTTATTCAAAAACGCCGCTAAAGATCC
Found at i:15139053 original size:82 final size:81
Alignment explanation
Indices: 15138916--15139168 Score: 382
Period size: 82 Copynumber: 3.1 Consensus size: 81
15138906 GGCGTTTTTG
* * *
15138916 AAAGGCCGGAGCATTAGCGGCACTTTTTAAAAAACGTCGCTAAAGATCCGAGCATTAGCGGCGCT
1 AAAGGCCAGAGCATTAGCGGCGCTTTTT-AAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCT
*
15138981 TCTTCAAAAATGCCGCT
65 TCTTCAAAAACGCCGCT
*
15138998 AAAGGCCAGAGCATTAGTGGCGCTTATTTAAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCT
1 AAAGGCCAGAGCATTAGCGGCGCTT-TTTAAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCT
*
15139063 TCTTAAAAAACGCCGCT
65 TCTTCAAAAACGCCGCT
* * *
15139080 AAAGGCCAGAGCATTAGCGGCGCTTCTTCAAAAACGCCGCTAAAGA-CTAGAGCATTAGCGGTGC
1 AAAGGCCAGAGCATTAGCGGCGCTT-TTTAAAAACGCCGCTAAAGATC-CGAGCATTAGCGGCGC
15139144 TTCTTCAAAAACGCCGCT
64 TTCTTCAAAAACGCCGCT
15139162 AAAGGCC
1 AAAGGCC
15139169 CCAAAAACTT
Statistics
Matches: 157, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
81 1 0.01
82 153 0.97
83 3 0.02
ACGTcount: A:0.31, C:0.25, G:0.23, T:0.20
Consensus pattern (81 bp):
AAAGGCCAGAGCATTAGCGGCGCTTTTTAAAAACGCCGCTAAAGATCCGAGCATTAGCGGCGCTT
CTTCAAAAACGCCGCT
Found at i:15139254 original size:39 final size:40
Alignment explanation
Indices: 15139205--15139338 Score: 150
Period size: 40 Copynumber: 3.4 Consensus size: 40
15139195 GGGCTTAGGC
15139205 TTTTT-GCGGCGCTTTTCAGAAAA-CGCCGCTAATGCT-TA
1 TTTTTAGCGGCG-TTTTCAGAAAAGCGCCGCTAATGCTCTA
15139243 TTTTTAGCGGCGTTTTC-GAAAAAGCGCCGCTAATGCTCTA
1 TTTTTAGCGGCGTTTTCAG-AAAAGCGCCGCTAATGCTCTA
** * * * * *
15139283 CCTTTAGCGACGTTTTTATAAAAGCGCCGCTCATGCTCAA
1 TTTTTAGCGGCGTTTTCAGAAAAGCGCCGCTAATGCTCTA
*
15139323 TTTTTAGTGGCGTTTT
1 TTTTTAGCGGCGTTTT
15139339 TTGTTCAAAC
Statistics
Matches: 80, Mismatches: 11, Indels: 8
0.81 0.11 0.08
Matches are distributed among these distances:
37 1 0.01
38 14 0.17
39 19 0.24
40 46 0.57
ACGTcount: A:0.21, C:0.22, G:0.21, T:0.36
Consensus pattern (40 bp):
TTTTTAGCGGCGTTTTCAGAAAAGCGCCGCTAATGCTCTA
Found at i:15141677 original size:36 final size:37
Alignment explanation
Indices: 15141631--15141720 Score: 103
Period size: 37 Copynumber: 2.4 Consensus size: 37
15141621 GTCTCCAATT
* *
15141631 TCACATTTCAATTCAAATTCACTTTTTCACTTTCAA-
1 TCACAATTCAATTCAAATTCACTTTTCCACTTTCAAG
* *
15141667 TCACAATTCAATTTAAAATTCACTTTTCCATTTTCAAG
1 TCACAATTCAA-TTCAAATTCACTTTTCCACTTTCAAG
*
15141705 TCA-ATATTCATTTCAA
1 TCACA-ATTCAATTCAA
15141721 TTCCACAAAT
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
36 10 0.22
37 27 0.60
38 8 0.18
ACGTcount: A:0.33, C:0.22, G:0.01, T:0.43
Consensus pattern (37 bp):
TCACAATTCAATTCAAATTCACTTTTCCACTTTCAAG
Found at i:15142483 original size:11 final size:11
Alignment explanation
Indices: 15142467--15142492 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
15142457 TCTTTCTTTC
15142467 TTTCTCCCCTG
1 TTTCTCCCCTG
15142478 TTTCTCCCCTG
1 TTTCTCCCCTG
15142489 TTTC
1 TTTC
15142493 GTCTCTTTCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.00, C:0.42, G:0.08, T:0.50
Consensus pattern (11 bp):
TTTCTCCCCTG
Found at i:15142518 original size:11 final size:11
Alignment explanation
Indices: 15142496--15142545 Score: 59
Period size: 10 Copynumber: 4.5 Consensus size: 11
15142486 CTGTTTCGTC
15142496 TCTTTCTCTGTT
1 TCTTT-TCTGTT
15142508 TCTTTTCTG-T
1 TCTTTTCTGTT
*
15142518 TCTTCTTTTGTT
1 TCTT-TTCTGTT
15142530 TCTTTT-TGTT
1 TCTTTTCTGTT
15142540 TCTTTT
1 TCTTTT
15142546 ATTTTACTTT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
10 15 0.43
11 10 0.29
12 10 0.29
ACGTcount: A:0.00, C:0.18, G:0.08, T:0.74
Consensus pattern (11 bp):
TCTTTTCTGTT
Found at i:15142521 original size:22 final size:23
Alignment explanation
Indices: 15142496--15142544 Score: 59
Period size: 22 Copynumber: 2.2 Consensus size: 23
15142486 CTGTTTCGTC
15142496 TCTTTC-TCTGTTTCTTTTCTG-T
1 TCTTTCTTCTGTTTCTTTT-TGTT
*
15142518 TC-TTCTTTTGTTTCTTTTTGTT
1 TCTTTCTTCTGTTTCTTTTTGTT
15142540 TCTTT
1 TCTTT
15142545 TATTTTACTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
21 5 0.22
22 16 0.70
23 2 0.09
ACGTcount: A:0.00, C:0.18, G:0.08, T:0.73
Consensus pattern (23 bp):
TCTTTCTTCTGTTTCTTTTTGTT
Found at i:15151961 original size:34 final size:34
Alignment explanation
Indices: 15151923--15151997 Score: 125
Period size: 34 Copynumber: 2.2 Consensus size: 34
15151913 TTTAAGGAGG
*
15151923 TTGTTAGCTTGTTAGTAGGAGTAAGAAGTT-AAGT
1 TTGTTAGCTTGTTAGTACGAGTAAGAAGTTGAA-T
15151957 TTGTTAGCTTGTTAGTACGAGTAAGAAGTTGAAT
1 TTGTTAGCTTGTTAGTACGAGTAAGAAGTTGAAT
15151991 TTGTTAG
1 TTGTTAG
15151998 AGTTTGTTAG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
34 37 0.95
35 2 0.05
ACGTcount: A:0.28, C:0.04, G:0.28, T:0.40
Consensus pattern (34 bp):
TTGTTAGCTTGTTAGTACGAGTAAGAAGTTGAAT
Found at i:15155912 original size:34 final size:34
Alignment explanation
Indices: 15155863--15155928 Score: 98
Period size: 34 Copynumber: 1.9 Consensus size: 34
15155853 TCTAGAGAGA
*
15155863 TTGTTAGCTTATTAGTA-AGAGTAGGAAGCTAAGT
1 TTGTTAACTTATTAGTACA-AGTAGGAAGCTAAGT
*
15155897 TTGTTAACTTGTTAGTACAAGTAGGAAGCTAA
1 TTGTTAACTTATTAGTACAAGTAGGAAGCTAA
15155929 ATTTATTAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
34 28 0.97
35 1 0.03
ACGTcount: A:0.33, C:0.08, G:0.24, T:0.35
Consensus pattern (34 bp):
TTGTTAACTTATTAGTACAAGTAGGAAGCTAAGT
Found at i:15157851 original size:44 final size:45
Alignment explanation
Indices: 15157728--15157880 Score: 175
Period size: 45 Copynumber: 3.4 Consensus size: 45
15157718 TGTCATAGCA
* * * * * *
15157728 TCTTTCAGCCATGGTCTTATTTATTTCTGACAT-GATGCCATAGTG
1 TCTTTCAACTATGGTCTTATTCATCTATGATATAG-TGCCATAGTG
* * *
15157773 TCTTTCAACTATGGACTTATTCATTTTTGATATAGTGCCATAGTG
1 TCTTTCAACTATGGTCTTATTCATCTATGATATAGTGCCATAGTG
* *
15157818 TCTTTCAACTA-GGTCTTATTCATCTATGGTATAGTGTCATAGTG
1 TCTTTCAACTATGGTCTTATTCATCTATGATATAGTGCCATAGTG
*
15157862 TCTTTCAATTATGGTCTTA
1 TCTTTCAACTATGGTCTTA
15157881 CACGTTTGAA
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
44 38 0.40
45 55 0.59
46 1 0.01
ACGTcount: A:0.22, C:0.17, G:0.16, T:0.44
Consensus pattern (45 bp):
TCTTTCAACTATGGTCTTATTCATCTATGATATAGTGCCATAGTG
Found at i:15158001 original size:5 final size:5
Alignment explanation
Indices: 15157991--15158016 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
15157981 ACCAAAACAG
15157991 AATTT AATTT AATTT AATTT AATTT A
1 AATTT AATTT AATTT AATTT AATTT A
15158017 CGAACTTACC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
AATTT
Found at i:15159474 original size:9 final size:9
Alignment explanation
Indices: 15159460--15159496 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
15159450 TATAGTTTAA
15159460 TATTCGAAT
1 TATTCGAAT
15159469 TATTCGAAT
1 TATTCGAAT
* *
15159478 TATTTGAGT
1 TATTCGAAT
15159487 TATTCGAAT
1 TATTCGAAT
15159496 T
1 T
15159497 CGAAAACTCA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.30, C:0.08, G:0.14, T:0.49
Consensus pattern (9 bp):
TATTCGAAT
Found at i:15159567 original size:9 final size:9
Alignment explanation
Indices: 15159550--15159580 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
15159540 TCGAGTTGAT
15159550 TCGAATAAC
1 TCGAATAAC
*
15159559 TCGATTAAC
1 TCGAATAAC
15159568 TCGAATAAC
1 TCGAATAAC
15159577 TCGA
1 TCGA
15159581 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:15160482 original size:16 final size:16
Alignment explanation
Indices: 15160461--15160494 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
15160451 AGGAGACTAC
15160461 AATGCACCTACCCAAG
1 AATGCACCTACCCAAG
*
15160477 AATGCACTTACCCAAG
1 AATGCACCTACCCAAG
15160493 AA
1 AA
15160495 ATATCCTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.41, C:0.32, G:0.12, T:0.15
Consensus pattern (16 bp):
AATGCACCTACCCAAG
Found at i:15160887 original size:16 final size:17
Alignment explanation
Indices: 15160866--15160898 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15160856 ACCAAGTTAA
*
15160866 AATTCA-TTTTTAAAAT
1 AATTCACTTTATAAAAT
15160882 AATTCACTTTATAAAAT
1 AATTCACTTTATAAAAT
15160899 TTCCCTTAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.45, C:0.09, G:0.00, T:0.45
Consensus pattern (17 bp):
AATTCACTTTATAAAAT
Found at i:15169897 original size:13 final size:13
Alignment explanation
Indices: 15169879--15169905 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15169869 AAAGAGATTT
15169879 GTTTTCTAGTGAA
1 GTTTTCTAGTGAA
15169892 GTTTTCTAGTGAA
1 GTTTTCTAGTGAA
15169905 G
1 G
15169906 AATTGAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.07, G:0.26, T:0.44
Consensus pattern (13 bp):
GTTTTCTAGTGAA
Found at i:15171905 original size:18 final size:18
Alignment explanation
Indices: 15171869--15171906 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
15171859 GCAAATTTTC
*
15171869 TTTCATTCTTTACGTTTT
1 TTTCATTCTTTACGATTT
15171887 TTTCATTCTTT-CAGATTT
1 TTTCATTCTTTAC-GATTT
15171905 TT
1 TT
15171907 CTACCAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 1 0.06
18 17 0.94
ACGTcount: A:0.13, C:0.16, G:0.05, T:0.66
Consensus pattern (18 bp):
TTTCATTCTTTACGATTT
Found at i:15172858 original size:6 final size:7
Alignment explanation
Indices: 15172835--15172869 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
15172825 AGAAGTGATG
15172835 TGAAAAA
1 TGAAAAA
15172842 TGAAAAGA
1 TGAAAA-A
15172850 TG-AAAA
1 TGAAAAA
15172856 TGAAAAA
1 TGAAAAA
15172863 TGAAAAA
1 TGAAAAA
15172870 ATAAAAACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 3 0.12
7 20 0.77
8 3 0.12
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
TGAAAAA
Found at i:15172876 original size:21 final size:21
Alignment explanation
Indices: 15172835--15172876 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
15172825 AGAAGTGATG
* *
15172835 TGAAAAATGAAAAGATGAAAA
1 TGAAAAATGAAAAAATAAAAA
15172856 TGAAAAATGAAAAAATAAAAA
1 TGAAAAATGAAAAAATAAAAA
15172877 CGGAGAGGCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (21 bp):
TGAAAAATGAAAAAATAAAAA
Found at i:15174380 original size:50 final size:50
Alignment explanation
Indices: 15174126--15174395 Score: 211
Period size: 50 Copynumber: 5.4 Consensus size: 50
15174116 TCCTTCGCAG
* *
15174126 TGCAGTGGAACAGATTGAAGCTACGATGGTGGATCTGGTTTCCCTGATAT
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
* ** * * * *** * *
15174176 TGCAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACTT-CCTTAGTAG
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-TAT
*
15174226 TGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
* * ** * * * * *** * * * *
15174276 TGTAATTAAAAAGATTGAAGCCACAACGGCAGATCTTACTT-CTTTAGCAG
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGA-TAT
* *
15174326 TGCAGTGGAATAGATTGAAGCTACGACGACGGATCTGGTTTCCCTGATAT
1 TGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
* *
15174376 TGCAGTTGAACAAATTGAAG
1 TGCAGTGGAACAGATTGAAG
15174396 ATTACAGATC
Statistics
Matches: 156, Mismatches: 60, Indels: 8
0.70 0.27 0.04
Matches are distributed among these distances:
49 7 0.04
50 142 0.91
51 7 0.04
ACGTcount: A:0.30, C:0.18, G:0.25, T:0.27
Consensus pattern (50 bp):
TGCAGTGGAACAGATTGAAGCTACGACGGCGGATCTGGTTTCCCTGATAT
Found at i:15174395 original size:100 final size:100
Alignment explanation
Indices: 15174106--15174379 Score: 458
Period size: 100 Copynumber: 2.7 Consensus size: 100
15174096 GTGAAACCAT
* * * **
15174106 AGATTTTACTTCCTTCGCAGTGCAGTGGAACAGATTGAAGCTACGATGGTGGATCTGGTTTCCCT
1 AGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCT
15174171 GATATTGCAATTAAAAAGATTGAAGCCACAACGGC
66 GATATTGCAATTAAAAAGATTGAAGCCACAACGGC
* *
15174206 GGATCTTACTTCCTTAGTAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCT
1 AGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCT
*
15174271 GATATTGTAATTAAAAAGATTGAAGCCACAACGGC
66 GATATTGCAATTAAAAAGATTGAAGCCACAACGGC
* *
15174306 AGATCTTACTTCTTTAGCAGTGCAGTGGAATAGATTGAAGCTACGACGACGGATCTGGTTTCCCT
1 AGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCT
15174371 GATATTGCA
66 GATATTGCA
15174380 GTTGAACAAA
Statistics
Matches: 161, Mismatches: 13, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 161 1.00
ACGTcount: A:0.28, C:0.19, G:0.24, T:0.28
Consensus pattern (100 bp):
AGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGACGGATCTGGTTTCCCT
GATATTGCAATTAAAAAGATTGAAGCCACAACGGC
Found at i:15174448 original size:44 final size:44
Alignment explanation
Indices: 15174400--15174987 Score: 142
Period size: 44 Copynumber: 13.4 Consensus size: 44
15174390 TTGAAGATTA
* *
15174400 CAGATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGG
1 CAGATCTTATCTCCCTAAGCAGCAGTGGAGTAGATCAAAGATGG
* * * ** * ** *
15174444 CAGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAA-A--C
1 CAGATCTTATCTCCCT-AAGCAGCAGTGGAGTAGATCAAAGATGG
* ** * * * **
15174486 CAGTAACTCTATCTCCCTGGGCAGCAGTAGAATAGATTAAAGATAA
1 CAG-ATCT-TATCTCCCTAAGCAGCAGTGGAGTAGATCAAAGATGG
*
15174532 CAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGG
1 CAGATCTTATCTCCCTAAGCAGCAGTGGAGTAGATCAAAGATGG
* * * ** * ** *
15174576 CAGATTTTACCTCCCTGAGGTTGCAGTGGAGTATATTGAA-A--C
1 CAGATCTTATCTCCCT-AAGCAGCAGTGGAGTAGATCAAAGATGG
* ** * ** ** * **
15174618 CAGTAACTCTATCTCCCTGGGCAGTAGTGGAAAAGATTGAGGATTA
1 CAG-ATCT-TATCTCCCTAAGCAGCAGTGGAGTAGATCAAAGATGG
* * *
15174664 CAGATCTTATCTCCCTAAGCAGTAGAGGAGCAGATCAAAGATGG
1 CAGATCTTATCTCCCTAAGCAGCAGTGGAGTAGATCAAAGATGG
** * * * * * ** ****
15174708 TGGATTTTACCTCCCTGAGGTTA-CAGTGGAGTACATTGAAGCCAA
1 CAGATCTTATCTCCCT-AAG-CAGCAGTGGAGTAGATCAAAGATGG
* * ** * * **
15174753 TA-AT-TCTATATCCCTGGGCAGCAGTGGAATAGATTAAAGATAA
1 CAGATCT-TATCTCCCTAAGCAGCAGTGGAGTAGATCAAAGATGG
* * *
15174796 CAGATCTTATCTCCCTAAGCAGTAGAGGAGCAGATCAAAGATGG
1 CAGATCTTATCTCCCTAAGCAGCAGTGGAGTAGATCAAAGATGG
** * * * * * ** * *
15174840 TGGATTTTACCTCCCTGAGGTTA-CAGTGGA--ATA-CATTGAAGC
1 CAGATCTTATCTCCCT-AAG-CAGCAGTGGAGTAGATCAAAGATGG
** * ** * **
15174882 CA-ATAACTCTATCTCCCTGGGCAGCAGTGGAATAGATTGAGGATTA
1 CAGAT--CT-TATCTCCCTAAGCAGCAGTGGAGTAGATCAAAGATGG
* *
15174928 CAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGG
1 CAGATCTTATCTCCCTAAGCAGCAGTGGAGTAGATCAAAGATGG
* *
15174972 CAGATTTTACCTCCCT
1 CAGATCTTATCTCCCT
15174988 GAGGTTGCAA
Statistics
Matches: 376, Mismatches: 140, Indels: 56
0.66 0.24 0.10
Matches are distributed among these distances:
41 2 0.01
42 13 0.03
43 68 0.18
44 214 0.57
45 65 0.17
46 12 0.03
47 2 0.01
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (44 bp):
CAGATCTTATCTCCCTAAGCAGCAGTGGAGTAGATCAAAGATGG
Found at i:15175064 original size:132 final size:132
Alignment explanation
Indices: 15174389--15175067 Score: 1000
Period size: 132 Copynumber: 5.1 Consensus size: 132
15174379 AGTTGAACAA
* * *
15174389 ATTGAAGATTACAGATCTTGTCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGCAGATTTTAC
1 ATTGAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
* *
15174454 CTCCCTGAGGTTGCAGTGGAGTATATTGAAACCAGTAACTCTATCTCCCTGGGCAGCAGTAGAAT
66 CTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTGGGCAGCAGTGGAAT
15174519 AG
131 AG
* *
15174521 ATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGTAGATCAAAGATGGCAGATTTTAC
1 ATTGAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
* * *
15174586 CTCCCTGAGGTTGCAGTGGAGTATATTGAAACCAGTAACTCTATCTCCCTGGGCAGTAGTGGAAA
66 CTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTGGGCAGCAGTGGAAT
15174651 AG
131 AG
* * * **
15174653 ATTGAGGATTACAGATCTTATCTCCCTAAGCAGTAGAGGAGCAGATCAAAGATGGTGGATTTTAC
1 ATTGAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
* * * * *
15174718 CTCCCTGAGGTTACAGTGGAGTACATTGAAGCCAATAATTCTATATCCCTGGGCAGCAGTGGAAT
66 CTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTGGGCAGCAGTGGAAT
15174783 AG
131 AG
* * **
15174785 ATTAAAGATAACAGATCTTATCTCCCTAAGCAGTAGAGGAGCAGATCAAAGATGGTGGATTTTAC
1 ATTGAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
* * * *
15174850 CTCCCTGAGGTTACAGTGGAATACATTGAAGCCAATAACTCTATCTCCCTGGGCAGCAGTGGAAT
66 CTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTGGGCAGCAGTGGAAT
15174915 AG
131 AG
* *
15174917 ATTGAGGATTACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
1 ATTGAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
* * * * * *
15174982 CTCCCTGAGGTTGCAATGGAGTATATTGAAGCCAGTAATTCTATTTCCCCGGTCGGCAGTGGAAT
66 CTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTGGGCAGCAGTGGAAT
*
15175047 CG
131 AG
*
15175049 ATCGAAGA-AAGCAGATCTT
1 ATTGAAGATAA-CAGATCTT
15175068 GTCTTCATGT
Statistics
Matches: 499, Mismatches: 47, Indels: 2
0.91 0.09 0.00
Matches are distributed among these distances:
131 1 0.00
132 498 1.00
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.27
Consensus pattern (132 bp):
ATTGAAGATAACAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCAAAGATGGCAGATTTTAC
CTCCCTGAGGTTGCAGTGGAGTATATTGAAGCCAGTAACTCTATCTCCCTGGGCAGCAGTGGAAT
AG
Found at i:15175766 original size:23 final size:24
Alignment explanation
Indices: 15175720--15175771 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
15175710 TGTAGCAAAC
** *
15175720 TCACGCCGCAGTAGCTCCCACACG
1 TCACGCCGCAACAGCCCCCACACG
*
15175744 -CACGCCGCAACAGCCCCCGCACG
1 TCACGCCGCAACAGCCCCCACACG
15175767 TCACG
1 TCACG
15175772 TCCGTCGCCT
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
23 19 0.83
24 4 0.17
ACGTcount: A:0.21, C:0.50, G:0.21, T:0.08
Consensus pattern (24 bp):
TCACGCCGCAACAGCCCCCACACG
Found at i:15176553 original size:18 final size:18
Alignment explanation
Indices: 15176513--15176547 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15176503 CATTAGTCCT
**
15176513 TTATTATTATTATTGTTG
1 TTATTATTATTATCATTG
15176531 TTATTATTATTATCATT
1 TTATTATTATTATCATT
15176548 TATATTTTTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.26, C:0.03, G:0.06, T:0.66
Consensus pattern (18 bp):
TTATTATTATTATCATTG
Found at i:15177988 original size:13 final size:13
Alignment explanation
Indices: 15177970--15177994 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15177960 TTAAAATTTT
15177970 TTCAAGTTAAAAA
1 TTCAAGTTAAAAA
15177983 TTCAAGTTAAAA
1 TTCAAGTTAAAA
15177995 TGTATTTTTA
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:0.52, C:0.08, G:0.08, T:0.32
Consensus pattern (13 bp):
TTCAAGTTAAAAA
Found at i:15182750 original size:10 final size:10
Alignment explanation
Indices: 15182737--15182763 Score: 54
Period size: 10 Copynumber: 2.7 Consensus size: 10
15182727 AATTATTTAG
15182737 AAATAAAGTA
1 AAATAAAGTA
15182747 AAATAAAGTA
1 AAATAAAGTA
15182757 AAATAAA
1 AAATAAA
15182764 AGATTATGGA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 17 1.00
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (10 bp):
AAATAAAGTA
Found at i:15183092 original size:22 final size:22
Alignment explanation
Indices: 15183064--15183153 Score: 135
Period size: 22 Copynumber: 4.1 Consensus size: 22
15183054 CTCTCTGATA
15183064 TTTAGCACATCAGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
15183086 TTTAGCACATCAGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
* * *
15183108 TTTAGCACATCTGTACTCTCCG
1 TTTAGCACATCAGTGCTCTCTG
* *
15183130 TATAGCACTTCAGTGCTCTCTG
1 TTTAGCACATCAGTGCTCTCTG
15183152 TT
1 TT
15183154 CATTAGTGCA
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 59 1.00
ACGTcount: A:0.18, C:0.28, G:0.17, T:0.38
Consensus pattern (22 bp):
TTTAGCACATCAGTGCTCTCTG
Found at i:15184115 original size:14 final size:14
Alignment explanation
Indices: 15184092--15184122 Score: 53
Period size: 14 Copynumber: 2.2 Consensus size: 14
15184082 TGTCGCGTTC
*
15184092 TTAGTTAATTTAGA
1 TTAGTAAATTTAGA
15184106 TTAGTAAATTTAGA
1 TTAGTAAATTTAGA
15184120 TTA
1 TTA
15184123 AAACAATCAT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.39, C:0.00, G:0.13, T:0.48
Consensus pattern (14 bp):
TTAGTAAATTTAGA
Found at i:15189043 original size:20 final size:20
Alignment explanation
Indices: 15189018--15189062 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
15189008 TCGTTGAATA
*
15189018 TTATCAAGGAAACACAAATT
1 TTATCAAGGAAACACAAACT
* *
15189038 TTATCAATGAAATACAAACT
1 TTATCAAGGAAACACAAACT
15189058 TTATC
1 TTATC
15189063 TAAATAATTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.47, C:0.16, G:0.07, T:0.31
Consensus pattern (20 bp):
TTATCAAGGAAACACAAACT
Found at i:15206773 original size:41 final size:41
Alignment explanation
Indices: 15206713--15206888 Score: 228
Period size: 41 Copynumber: 4.3 Consensus size: 41
15206703 AATTTAACAT
** *
15206713 ATTCAGATCACCGGTACTTAGCCTGCTAAG-TTAATAACCTG
1 ATTCAGATCACCGACACTTAGCCTGCTAGGCTT-ATAACCTG
* * * * *
15206754 ATTCATATCATCGGCACTTAGCCTACTAGGCTTATAGCCTG
1 ATTCAGATCACCGACACTTAGCCTGCTAGGCTTATAACCTG
* *
15206795 ATTCAGATCACCGACACTTAGCCTTCTAGGCTTATAGCCTG
1 ATTCAGATCACCGACACTTAGCCTGCTAGGCTTATAACCTG
*
15206836 ATTCAGATCACCGACACTTAGCCTGCTAGGTTTATAACCTG
1 ATTCAGATCACCGACACTTAGCCTGCTAGGCTTATAACCTG
*
15206877 ATTCAAATCACC
1 ATTCAGATCACC
15206889 AATTTCAAAC
Statistics
Matches: 120, Mismatches: 14, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
41 118 0.98
42 2 0.02
ACGTcount: A:0.27, C:0.27, G:0.16, T:0.30
Consensus pattern (41 bp):
ATTCAGATCACCGACACTTAGCCTGCTAGGCTTATAACCTG
Found at i:15207283 original size:19 final size:17
Alignment explanation
Indices: 15207242--15207284 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
15207232 ATTTAAATAT
15207242 ATATATATATATTATAC
1 ATATATATATATTATAC
* *
15207259 ACATATATATATTCGTAC
1 ATATATATATATT-ATAC
15207277 AT-TATATA
1 ATATATATA
15207285 AACACAACCA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 18 0.82
18 4 0.18
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (17 bp):
ATATATATATATTATAC
Found at i:15208585 original size:16 final size:15
Alignment explanation
Indices: 15208558--15208587 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
15208548 GATTTGAAAA
15208558 TTTTAAAAATATATT
1 TTTTAAAAATATATT
15208573 TTTTAATAAATATAT
1 TTTTAA-AAATATAT
15208588 GTTTGTAGGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
TTTTAAAAATATATT
Found at i:15208880 original size:14 final size:13
Alignment explanation
Indices: 15208857--15208887 Score: 53
Period size: 14 Copynumber: 2.3 Consensus size: 13
15208847 GCAGGCCTAG
15208857 AAAAAAGAAAAGA
1 AAAAAAGAAAAGA
15208870 AAAATAAGAAAAGA
1 AAAA-AAGAAAAGA
15208884 AAAA
1 AAAA
15208888 GGGAAGAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.24
14 13 0.76
ACGTcount: A:0.84, C:0.00, G:0.13, T:0.03
Consensus pattern (13 bp):
AAAAAAGAAAAGA
Found at i:15211903 original size:38 final size:38
Alignment explanation
Indices: 15211671--15211896 Score: 362
Period size: 38 Copynumber: 5.9 Consensus size: 38
15211661 TTACTGGTTG
*
15211671 CATGCTTACTGTTACTGTTGAACTGAATACATGTTAAA
1 CATGCCTACTGTTACTGTTGAACTGAATACATGTTAAA
15211709 CATGCCTACTGTTACTGTTGAACTGAATACATGTTAAA
1 CATGCCTACTGTTACTGTTGAACTGAATACATGTTAAA
15211747 CATGCCTACTGTTACTGTTGAACTGAATACATGTTAAA
1 CATGCCTACTGTTACTGTTGAACTGAATACATGTTAAA
15211785 CATGCCTACTGTTACTGTTGAACTGAATACATGTTAAA
1 CATGCCTACTGTTACTGTTGAACTGAATACATGTTAAA
* * *
15211823 CATGCCTACTGTTGCTGTTGAATTGAATACATGTTAAG
1 CATGCCTACTGTTACTGTTGAACTGAATACATGTTAAA
* ** * **
15211861 CATGTCTACTACTAGTGTTGAACCAAATACATGTTA
1 CATGCCTACTGTTACTGTTGAACTGAATACATGTTA
15211897 GGCATGTTCA
Statistics
Matches: 176, Mismatches: 12, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 176 1.00
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.35
Consensus pattern (38 bp):
CATGCCTACTGTTACTGTTGAACTGAATACATGTTAAA
Found at i:15212138 original size:91 final size:91
Alignment explanation
Indices: 15211993--15212205 Score: 295
Period size: 91 Copynumber: 2.3 Consensus size: 91
15211983 AATTTAATAG
*
15211993 CCTGCAAATACTGGTGATTTATCCACAAACTTACTAGAAGCTTTTATCTACAAACACGTTGTGCA
1 CCTGCAAATACTGGTGGTTTATCCACAAACTTACTAGAAGCTTTTATCTACAAACACGTTGTGCA
* *
15212058 TTTACAACCTAGTGGCAGCT-TATTAA
66 TTCACAACCTACTGGCAG-TGTATTAA
* * * * * *
15212084 CCTGCAAACACTGGTGGTTCATCCACAAACTTACTGGCAA-CTTTTATTTGCAAACATGTTGTGC
1 CCTGCAAATACTGGTGGTTTATCCACAAACTTACTAG-AAGCTTTTATCTACAAACACGTTGTGC
15212148 ATTCACAACCTACTGGCAGTGTATTAA
65 ATTCACAACCTACTGGCAGTGTATTAA
* *
15212175 CCTGCAAATACTTGTGGTTTATCCATAAACT
1 CCTGCAAATACTGGTGGTTTATCCACAAACT
15212206 GGAGTGTTCG
Statistics
Matches: 107, Mismatches: 13, Indels: 4
0.86 0.10 0.03
Matches are distributed among these distances:
90 1 0.01
91 104 0.97
92 2 0.02
ACGTcount: A:0.30, C:0.23, G:0.15, T:0.32
Consensus pattern (91 bp):
CCTGCAAATACTGGTGGTTTATCCACAAACTTACTAGAAGCTTTTATCTACAAACACGTTGTGCA
TTCACAACCTACTGGCAGTGTATTAA
Found at i:15213718 original size:7 final size:7
Alignment explanation
Indices: 15213706--15213817 Score: 80
Period size: 7 Copynumber: 15.7 Consensus size: 7
15213696 ACTAATTAAT
15213706 CTAAACC
1 CTAAACC
15213713 CTAAACC
1 CTAAACC
*
15213720 CTTAACC
1 CTAAACC
*
15213727 CTAACCC
1 CTAAACC
15213734 CTAAACC
1 CTAAACC
*
15213741 CTAAATC
1 CTAAACC
* *
15213748 ATAAAAC
1 CTAAACC
*
15213755 ATAAACC
1 CTAAACC
* *
15213762 ATTAACC
1 CTAAACC
15213769 CATAAACC
1 C-TAAACC
*
15213777 ATAAACC
1 CTAAACC
* *
15213784 ATAATCC
1 CTAAACC
15213791 CTAAACC
1 CTAAACC
*
15213798 CATAATCC
1 C-TAAACC
*
15213806 ATAAACC
1 CTAAACC
*
15213813 TTAAA
1 CTAAA
15213818 ATAGTAACTC
Statistics
Matches: 84, Mismatches: 19, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
7 74 0.88
8 10 0.12
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:15213796 original size:36 final size:36
Alignment explanation
Indices: 15213723--15213817 Score: 95
Period size: 36 Copynumber: 2.7 Consensus size: 36
15213713 CTAAACCCTT
* * *
15213723 AACCC-TAACCCCTAAACCCTAAATCATAAAACATA
1 AACCCATAACCCATAAACCATAAACCATAAAACATA
** *
15213758 AA-CCATTAACCCATAAACCATAAACCATAATCCCTA
1 AACCCA-TAACCCATAAACCATAAACCATAAAACATA
* *
15213794 AACCCATAATCCATAAACCTTAAA
1 AACCCATAACCCATAAACCATAAA
15213818 ATAGTAACTC
Statistics
Matches: 49, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
34 2 0.04
35 2 0.04
36 42 0.86
37 3 0.06
ACGTcount: A:0.48, C:0.33, G:0.00, T:0.19
Consensus pattern (36 bp):
AACCCATAACCCATAAACCATAAACCATAAAACATA
Found at i:15213800 original size:22 final size:21
Alignment explanation
Indices: 15213707--15213809 Score: 75
Period size: 22 Copynumber: 4.8 Consensus size: 21
15213697 CTAATTAATC
* *
15213707 TAAACCCTAAACCCTTAACCC-
1 TAAACCATAAA-CCATAACCCA
* * * **
15213728 TAACCCCTAAACCCTAAATCA
1 TAAACCATAAACCATAACCCA
*
15213749 TAAAACATAAACCATTAACCCA
1 TAAACCATAAACCA-TAACCCA
15213771 TAAACCATAAACCATAATCCC-
1 TAAACCATAAACCATAA-CCCA
*
15213792 TAAACCCATAATCCATAA
1 TAAA-CCATAAACCATAA
15213810 ACCTTAAAAT
Statistics
Matches: 66, Mismatches: 12, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
20 6 0.09
21 27 0.41
22 33 0.50
ACGTcount: A:0.47, C:0.34, G:0.00, T:0.19
Consensus pattern (21 bp):
TAAACCATAAACCATAACCCA
Found at i:15213811 original size:29 final size:28
Alignment explanation
Indices: 15213706--15213817 Score: 107
Period size: 29 Copynumber: 3.9 Consensus size: 28
15213696 ACTAATTAAT
* * * *
15213706 CTAAACCCTAAACCCTTAACCCTAACCC
1 CTAAACCCTAAACCATAAACCATAAACC
* *
15213734 CTAAACCCTAAATCATAAAACATAAACC
1 CTAAACCCTAAACCATAAACCATAAACC
* * *
15213762 ATTAACCCATAAACCATAAACCATAATCC
1 CTAAACCC-TAAACCATAAACCATAAACC
* *
15213791 CTAAACCCATAATCCATAAACCTTAAA
1 CTAAACCC-TAAACCATAAACCATAAA
15213818 ATAGTAACTC
Statistics
Matches: 67, Mismatches: 16, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
28 28 0.42
29 39 0.58
ACGTcount: A:0.46, C:0.34, G:0.00, T:0.20
Consensus pattern (28 bp):
CTAAACCCTAAACCATAAACCATAAACC
Found at i:15213817 original size:22 final size:22
Alignment explanation
Indices: 15213775--15213872 Score: 60
Period size: 22 Copynumber: 4.5 Consensus size: 22
15213765 AACCCATAAA
* *
15213775 CCATAAACCATAATCCCTAAAC
1 CCATAATCCATAAACCCTAAAC
*
15213797 CCATAATCCATAAACCTTAAA-
1 CCATAATCCATAAACCCTAAAC
** **
15213818 ATAGTAACTCC-TAAACTTTAAAC
1 CCA-TAA-TCCATAAACCCTAAAC
* *
15213841 CC-TAAACCATATACCCT-AAC
1 CCATAATCCATAAACCCTAAAC
*
15213861 CTATAATCCATA
1 CCATAATCCATA
15213873 GCTAATGCTC
Statistics
Matches: 57, Mismatches: 14, Indels: 11
0.70 0.17 0.13
Matches are distributed among these distances:
20 6 0.11
21 17 0.30
22 31 0.54
23 3 0.05
ACGTcount: A:0.44, C:0.31, G:0.01, T:0.24
Consensus pattern (22 bp):
CCATAATCCATAAACCCTAAAC
Found at i:15214033 original size:40 final size:40
Alignment explanation
Indices: 15213971--15214082 Score: 127
Period size: 40 Copynumber: 2.8 Consensus size: 40
15213961 TTTTTACGGC
*
15213971 ATTTTTCAAAAAGCGCCGCTAATGCTCGATCTATAGCGGA
1 ATTTTTCAAAAAGCACCGCTAATGCTCGATCTATAGCGGA
* * * * *
15214011 ATTTTTCAAGAAGCATCTCTAATGCTCGATCTATAGAGGC
1 ATTTTTCAAAAAGCACCGCTAATGCTCGATCTATAGCGGA
* * *
15214051 GTTTGTT-AGAAAGCGCCGCTAATGCTCGATCT
1 ATTT-TTCAAAAAGCACCGCTAATGCTCGATCT
15214083 TTAACGGCTT
Statistics
Matches: 59, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
40 57 0.97
41 2 0.03
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (40 bp):
ATTTTTCAAAAAGCACCGCTAATGCTCGATCTATAGCGGA
Found at i:15217723 original size:42 final size:42
Alignment explanation
Indices: 15217676--15217796 Score: 170
Period size: 42 Copynumber: 2.9 Consensus size: 42
15217666 TTTCAAAAGC
* * * *
15217676 CATATAAGTGCTAAACAGAAACCCATAAGGGTTGAACGGAAG
1 CATATAAGAGCTGAACGGAAACCCATAAGGGTTAAACGGAAG
*
15217718 CATATAAGAGCTGAACGGAAACCCATAAGGGTTAAACTGAAG
1 CATATAAGAGCTGAACGGAAACCCATAAGGGTTAAACGGAAG
* * *
15217760 CTTAAAAGAGCTGAACGGAAACCCATTAGGGTTAAAC
1 CATATAAGAGCTGAACGGAAACCCATAAGGGTTAAAC
15217797 AGAAACTCAT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
42 71 1.00
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.17
Consensus pattern (42 bp):
CATATAAGAGCTGAACGGAAACCCATAAGGGTTAAACGGAAG
Found at i:15217724 original size:21 final size:21
Alignment explanation
Indices: 15217708--15217779 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 21
15217698 CCATAAGGGT
15217708 TGAACGGAAGCATATAAGAGC
1 TGAACGGAAGCATATAAGAGC
* ** * *
15217729 TGAACGGAAACCCATAAGGGT
1 TGAACGGAAGCATATAAGAGC
* * * *
15217750 TAAACTGAAGCTTAAAAGAGC
1 TGAACGGAAGCATATAAGAGC
15217771 TGAACGGAA
1 TGAACGGAA
15217780 ACCCATTAGG
Statistics
Matches: 36, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
21 36 1.00
ACGTcount: A:0.43, C:0.15, G:0.26, T:0.15
Consensus pattern (21 bp):
TGAACGGAAGCATATAAGAGC
Found at i:15220668 original size:22 final size:22
Alignment explanation
Indices: 15220622--15220683 Score: 72
Period size: 22 Copynumber: 2.8 Consensus size: 22
15220612 TTAATCAATT
*
15220622 TAAAACC-ATAAACCCTAATCCC
1 TAAAACCTA-AAACCCTAATCAC
* *
15220644 TAAAACTTAAAACCCTAATTAC
1 TAAAACCTAAAACCCTAATCAC
*
15220666 TAAACCCTAAAACCCTAA
1 TAAAACCTAAAACCCTAA
15220684 ATTTGATAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
22 33 0.97
23 1 0.03
ACGTcount: A:0.48, C:0.31, G:0.00, T:0.21
Consensus pattern (22 bp):
TAAAACCTAAAACCCTAATCAC
Found at i:15225059 original size:19 final size:21
Alignment explanation
Indices: 15225029--15225082 Score: 78
Period size: 20 Copynumber: 2.7 Consensus size: 21
15225019 TTTAAAAATA
15225029 TAAAATACTTTTTTT-ATTTT-
1 TAAAATA-TTTTTTTAATTTTC
15225049 TAAAATATTTTTTTAATTTTC
1 TAAAATATTTTTTTAATTTTC
15225070 TAAAA-ATTTTTTT
1 TAAAATATTTTTTT
15225083 GTGTTTATTT
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
19 7 0.22
20 20 0.62
21 5 0.16
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (21 bp):
TAAAATATTTTTTTAATTTTC
Found at i:15226962 original size:18 final size:19
Alignment explanation
Indices: 15226928--15226964 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
15226918 ATTTAATTTA
15226928 TTAAATCTAACATTACATT
1 TTAAATCTAACATTACATT
*
15226947 TTAAAT-TAAGATTACATT
1 TTAAATCTAACATTACATT
15226965 GTTCAGATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.43, C:0.11, G:0.03, T:0.43
Consensus pattern (19 bp):
TTAAATCTAACATTACATT
Found at i:15237602 original size:16 final size:16
Alignment explanation
Indices: 15237581--15237612 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
15237571 CCTTTTATGA
15237581 TGAAATGCCATGTAGT
1 TGAAATGCCATGTAGT
*
15237597 TGAAATGTCATGTAGT
1 TGAAATGCCATGTAGT
15237613 CAAAGTAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.25, T:0.34
Consensus pattern (16 bp):
TGAAATGCCATGTAGT
Found at i:15238745 original size:70 final size:71
Alignment explanation
Indices: 15238636--15238772 Score: 206
Period size: 70 Copynumber: 1.9 Consensus size: 71
15238626 GGGTTTAGAG
*
15238636 AAGGAGTCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAACTTG
1 AAGGAGTCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAACGTG
15238701 AGAAAA
66 AGAAAA
* * * *
15238707 AAGGA-TCATGCCCAGTATGTTAGGACACGAT-TTCTTCTTAATTCCCGGGGTCGTTTAAAACGT
1 AAGGAGTCATGCCCAGTAAGTTAGGACACGATCTT-TTCTTAATTCCCGAGATCATTTAAAACGT
15238770 GAG
65 GAG
15238773 TTTGAAAAGA
Statistics
Matches: 60, Mismatches: 5, Indels: 3
0.88 0.07 0.04
Matches are distributed among these distances:
69 2 0.03
70 53 0.88
71 5 0.08
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (71 bp):
AAGGAGTCATGCCCAGTAAGTTAGGACACGATCTTTTCTTAATTCCCGAGATCATTTAAAACGTG
AGAAAA
Found at i:15239300 original size:22 final size:22
Alignment explanation
Indices: 15239274--15239328 Score: 83
Period size: 22 Copynumber: 2.5 Consensus size: 22
15239264 GGTGCATATG
* *
15239274 TATATGTTTAAGTTATAAAATA
1 TATATATTAAAGTTATAAAATA
15239296 TATATATTAAAGTTATAAAATA
1 TATATATTAAAGTTATAAAATA
*
15239318 TATATAATAAA
1 TATATATTAAA
15239329 ACATAGAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (22 bp):
TATATATTAAAGTTATAAAATA
Found at i:15239595 original size:5 final size:5
Alignment explanation
Indices: 15239587--15239620 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
15239577 CAGCTAAATT
15239587 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
15239621 TAGGCCAAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:15242241 original size:2 final size:2
Alignment explanation
Indices: 15242234--15242272 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
15242224 CTTCCCTCCA
*
15242234 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC AC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
15242273 TTTACTGAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.03, C:0.49, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:15242598 original size:7 final size:7
Alignment explanation
Indices: 15242583--15242612 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
15242573 AAAAAACTTT
15242583 TAATCTC
1 TAATCTC
*
15242590 TATTCTC
1 TAATCTC
15242597 TAATCTC
1 TAATCTC
15242604 TAATCTC
1 TAATCTC
15242611 TA
1 TA
15242613 GTGGAAAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (7 bp):
TAATCTC
Found at i:15247093 original size:12 final size:12
Alignment explanation
Indices: 15247076--15247101 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15247066 TAAAACAGGC
15247076 TTTTAGCGGCGT
1 TTTTAGCGGCGT
15247088 TTTTAGCGGCGT
1 TTTTAGCGGCGT
15247100 TT
1 TT
15247102 GAATTAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:15247215 original size:39 final size:39
Alignment explanation
Indices: 15247107--15247242 Score: 123
Period size: 40 Copynumber: 3.4 Consensus size: 39
15247097 CGTTTGAATT
* * * *
15247107 AAAAACGCCACTAAAAATCAAGCATTAGCAGCGCTTTTAC
1 AAAAACGCCGCAAAAAAT-AAGCATTAGCGGCGATTTTAC
* * * *
15247147 AAAAACGCCGCTAAAGATTGAGCATTAGCGGCGAATTTT-G
1 AAAAACGCCGC-AAAAAATAAGCATTAGCGGCG-ATTTTAC
* *
15247187 GAAAACGCCGCAAAAAATAAGCATTAGCGGCG-TTTTCC
1 AAAAACGCCGCAAAAAATAAGCATTAGCGGCGATTTTAC
*
15247225 AAAAAGCACCGCAAAAAA
1 AAAAA-CGCCGCAAAAAA
15247243 CTTAAGCCCA
Statistics
Matches: 77, Mismatches: 15, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
37 4 0.05
38 4 0.05
39 29 0.38
40 32 0.42
41 8 0.10
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (39 bp):
AAAAACGCCGCAAAAAATAAGCATTAGCGGCGATTTTAC
Found at i:15247339 original size:41 final size:40
Alignment explanation
Indices: 15247282--15247558 Score: 360
Period size: 41 Copynumber: 6.8 Consensus size: 40
15247272 TTTAGGGGCA
*
15247282 TTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTCTGACC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTG-CC
* *
15247323 TTTAGCTGCGTTTTTGAAAAAGCGCCACTAATGCTCGTGCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC-TGCC
* *
15247364 TTTAGCGGCATTTTTGAAAAAGTGCCGCTAATGCTCCTGCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCT-CTGCC
* * *
15247405 TTTAACGGCGTTTTTAAAAAAGTGCCGCTAATGCTCTGACC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTG-CC
* *
15247446 TTTAGCGGCGTTTTTGATAAAGCGCCGCTGATGCTCGTGCC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTC-TGCC
* *
15247487 TTTAGCGGCGTTTCTGAAAAAAGCGCCACTAATG--CTGACC
1 TTTAGCGGCGTTTTTG-AAAAAGCGCCGCTAATGCTCTG-CC
*
15247527 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAAT
15247559 AATAAAATCT
Statistics
Matches: 208, Mismatches: 22, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
39 17 0.08
40 20 0.10
41 152 0.73
42 19 0.09
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (40 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCTGCC
Found at i:15247506 original size:123 final size:122
Alignment explanation
Indices: 15247282--15247558 Score: 405
Period size: 123 Copynumber: 2.3 Consensus size: 122
15247272 TTTAGGGGCA
* *
15247282 TTTAGCGGCGTTTTTGAAAAAGTGCCGCTAATGCTCTGACCTTTAGCTGCGTTTTTGAAAAAGCG
1 TTTAGCGGCGTTTTTAAAAAAGTGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTTGAAAAAGCG
* * *
15247347 CCACTAATGCTCGTGCCTTTAGCGGCATTTTTG-AAAAAGTGCCGCTAATGCTCCTG-CC
66 CCACTAATGCTCGTGCCTTTAGCGGCATTTCTGAAAAAAGCGCCACTAATG---CTGACC
* *
15247405 TTTAACGGCGTTTTTAAAAAAGTGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTTGATAAAGCG
1 TTTAGCGGCGTTTTTAAAAAAGTGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTTGAAAAAGCG
* * *
15247470 CCGCTGATGCTCGTGCCTTTAGCGGCGTTTCTGAAAAAAGCGCCACTAATGCTGACC
66 CCACTAATGCTCGTGCCTTTAGCGGCATTTCTGAAAAAAGCGCCACTAATGCTGACC
* *
15247527 TTTAGCGGCGTTTTTTAAAAAGCGCCGCTAAT
1 TTTAGCGGCGTTTTTAAAAAAGTGCCGCTAAT
15247559 AATAAAATCT
Statistics
Matches: 139, Mismatches: 13, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
121 3 0.02
122 31 0.22
123 90 0.65
124 15 0.11
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (122 bp):
TTTAGCGGCGTTTTTAAAAAAGTGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTTGAAAAAGCG
CCACTAATGCTCGTGCCTTTAGCGGCATTTCTGAAAAAAGCGCCACTAATGCTGACC
Found at i:15249923 original size:2 final size:2
Alignment explanation
Indices: 15249916--15249940 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15249906 TTTACTAACC
15249916 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
15249941 GATCTCAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:15253558 original size:43 final size:42
Alignment explanation
Indices: 15253485--15253711 Score: 253
Period size: 42 Copynumber: 5.4 Consensus size: 42
15253475 AAGTTATGCT
* * * *
15253485 TTTAGCGGCGTTTCTGTGAGAAGTGCCGCTAAAGGT-TTGATC
1 TTTAGCGGCGTTTGTG-GAAAAGCGCCGCTAAAGGTCTTGGTC
* * *
15253527 TATAGCGGCGTTTTTGACGAAAAGTGCCGCTAAAGGT-TATGGTC
1 TTTAGCGGCGTTTGTG--GAAAAGCGCCGCTAAAGGTCT-TGGTC
* * *
15253571 TTTAGCGACGTTTGTGGAAAAGCGTCGTTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGGTC
*
15253613 TTTAGCGGCGTTTGTAGG-AAAGCGCCGTTAAAGGTCTTGGTC
1 TTTAGCGGCGTTTGT-GGAAAAGCGCCGCTAAAGGTCTTGGTC
* * * *
15253655 TTTAGCGGCGTTTGTGGAAAAACGCAGCTAAATGTCTTGTTC
1 TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGGTC
15253697 TTTAGCGGCGTTTGT
1 TTTAGCGGCGTTTGT
15253712 TTCTAAAAAC
Statistics
Matches: 162, Mismatches: 18, Indels: 10
0.85 0.09 0.05
Matches are distributed among these distances:
41 2 0.01
42 121 0.75
43 22 0.14
44 17 0.10
ACGTcount: A:0.21, C:0.16, G:0.30, T:0.33
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGGAAAAGCGCCGCTAAAGGTCTTGGTC
Found at i:15253725 original size:128 final size:127
Alignment explanation
Indices: 15253485--15253731 Score: 268
Period size: 128 Copynumber: 1.9 Consensus size: 127
15253475 AAGTTATGCT
* *
15253485 TTTAGCGGCGTTTCTGTGAGAAGTGCCGCTAAAGGTTTGATCTATAGCGGCGTTTTTGACGAAAA
1 TTTAGCGGCGTTTCTGTGAGAAGCGCCGCTAAAGGTTTGATCTATAGCGGCGTTTGTGA-GAAAA
** * * * *
15253550 GTGCCGCTAAAGGTTATGGTCTTTAGCGACGTTTGTGGAAAAGCGTCGTTAAAGGTCTTGGTC
65 ACGCAGCTAAAGGTTATGGTCTTTAGCGACGTTTGTCGAAAAACGTCGCTAAAGGTCTTGGTC
* * * *
15253613 TTTAGCGGCGTTTGTAG-GA-AAGCGCCGTTAAAGGTCTTGGTCTTTAGCGGCGTTTGTG-GAAA
1 TTTAGCGGCGTTTCT-GTGAGAAGCGCCGCTAAAGGT-TTGATCTATAGCGGCGTTTGTGAGAAA
* * * *
15253675 AACGCAGCTAAATGTCT-TGTTCTTTAGCGGCGTTTGTTTCTAAAAACGTCGCTAAAG
64 AACGCAGCTAAAGGT-TATGGTCTTTAGCGACGTTTG--TCGAAAAACGTCGCTAAAG
15253732 TTAGCGACGC
Statistics
Matches: 98, Mismatches: 16, Indels: 10
0.79 0.13 0.08
Matches are distributed among these distances:
126 32 0.33
127 15 0.15
128 50 0.51
129 1 0.01
ACGTcount: A:0.22, C:0.16, G:0.29, T:0.32
Consensus pattern (127 bp):
TTTAGCGGCGTTTCTGTGAGAAGCGCCGCTAAAGGTTTGATCTATAGCGGCGTTTGTGAGAAAAA
CGCAGCTAAAGGTTATGGTCTTTAGCGACGTTTGTCGAAAAACGTCGCTAAAGGTCTTGGTC
Found at i:15253839 original size:22 final size:22
Alignment explanation
Indices: 15253803--15253845 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15253793 TAGCGGCGCT
* * *
15253803 AAAAAGTGCCGCTAAAGGCCTA
1 AAAAAGCGCCACTAAAAGCCTA
15253825 AAAAAGCGCCACTAAAAGCCT
1 AAAAAGCGCCACTAAAAGCCT
15253846 GTTTTGGTGT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.44, C:0.26, G:0.19, T:0.12
Consensus pattern (22 bp):
AAAAAGCGCCACTAAAAGCCTA
Found at i:15255637 original size:41 final size:41
Alignment explanation
Indices: 15255574--15255951 Score: 392
Period size: 41 Copynumber: 9.2 Consensus size: 41
15255564 CTTTCGTGGA
* * * * *
15255574 TTTAGCGACGTTTTTAATAAAGCGCCGCTAATGTTCAGGGC
1 TTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCTCAGGGT
* * *
15255615 TTTAGTGGCGTTTTTGAGAAAGCGCCGTTAATGCTCAGGGT
1 TTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCTCAGGGT
* *
15255656 TTTAGCGACGTTTTTTAGAAAGCGCCGCTAATGCTC-GGGG
1 TTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCTCAGGGT
* * * *
15255696 TTTAGCGGCATTTTTTA-AGAAGAGTCGCTAAAGCT-ATGGGT
1 TTTAGCGGCGTTTTTTAGA-AAGCGCCGCTAATGCTCA-GGGT
* *
15255737 TTTAGCGGCGTTTTTGT-GAAAGCGTCGCTAATGCTCGGGGT
1 TTTAGCGGCGTTTTT-TAGAAAGCGCCGCTAATGCTCAGGGT
* *
15255778 TTTAGCGGCATTTTTTA-AATAGCGCCGCTAATGCTCTGGGT
1 TTTAGCGGCGTTTTTTAGAA-AGCGCCGCTAATGCTCAGGGT
* * * *
15255819 TTTAGCGGTGTTTTCTAAAAAGCGCTGCTAATGCTCTA-GGT
1 TTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCTC-AGGGT
* * *
15255860 TTTAGCGGCGTTTTCTA-AGAATCGCCGCTAATGCTCTGGGT
1 TTTAGCGGCGTTTTTTAGA-AAGCGCCGCTAATGCTCAGGGT
* * * *
15255901 TTTAGCGGCGTTTTCTAAAAAGCACCGCTAATGCTCTGGGT
1 TTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCTCAGGGT
15255942 TTTAGCGGCG
1 TTTAGCGGCG
15255952 CTAATGCTCG
Statistics
Matches: 288, Mismatches: 36, Indels: 26
0.82 0.10 0.07
Matches are distributed among these distances:
39 1 0.00
40 35 0.12
41 247 0.86
42 5 0.02
ACGTcount: A:0.20, C:0.18, G:0.28, T:0.34
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTTAGAAAGCGCCGCTAATGCTCAGGGT
Found at i:15255958 original size:24 final size:24
Alignment explanation
Indices: 15255926--15255975 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
15255916 TAAAAAGCAC
*
15255926 CGCTAATGCTCTG-GGTTTTAGCGG
1 CGCTAATGCTC-GAGATTTTAGCGG
15255950 CGCTAATGCTCGAGATTTTAGCGG
1 CGCTAATGCTCGAGATTTTAGCGG
15255974 CG
1 CG
15255976 TTTTTTAAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 1 0.04
24 23 0.96
ACGTcount: A:0.16, C:0.22, G:0.32, T:0.30
Consensus pattern (24 bp):
CGCTAATGCTCGAGATTTTAGCGG
Found at i:15255994 original size:65 final size:65
Alignment explanation
Indices: 15255885--15256013 Score: 197
Period size: 65 Copynumber: 2.0 Consensus size: 65
15255875 TAAGAATCGC
* *
15255885 CGCTAATGCTCTGGGTTTTAGCGGCGTTTTCTAAAAAGCACCGCTAATGCTCTGGGTTTTAGCGG
1 CGCTAATGCTCTGGATTTTAGCGGCGTTTTCTAAAAAGCACCGCTAATGCTCGGGGTTTTAGCGG
* * *
15255950 CGCTAATGCTC-GAGATTTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCGGGGTTTTAGCG
1 CGCTAATGCTCTG-GATTTTAGCGGCGTTTTCTAAAAAGCACCGCTAATGCTCGGGGTTTTAGCG
15256014 TCGTTTTTGT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 1 0.02
65 57 0.98
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.32
Consensus pattern (65 bp):
CGCTAATGCTCTGGATTTTAGCGGCGTTTTCTAAAAAGCACCGCTAATGCTCGGGGTTTTAGCGG
Found at i:15256094 original size:16 final size:15
Alignment explanation
Indices: 15256061--15256115 Score: 53
Period size: 16 Copynumber: 3.8 Consensus size: 15
15256051 TAATTGGTTT
*
15256061 ATTATTT-ATATT-A
1 ATTATTTAAAATTGA
15256074 ATTATTTAAAATTGA
1 ATTATTTAAAATTGA
**
15256089 ACTTATTTCTAATTGA
1 A-TTATTTAAAATTGA
15256105 A-TATTTAAAAT
1 ATTATTTAAAAT
15256116 CTTCAAAAGA
Statistics
Matches: 34, Mismatches: 5, Indels: 5
0.77 0.11 0.11
Matches are distributed among these distances:
13 7 0.21
14 12 0.35
15 2 0.06
16 13 0.38
ACGTcount: A:0.42, C:0.04, G:0.04, T:0.51
Consensus pattern (15 bp):
ATTATTTAAAATTGA
Found at i:15256530 original size:7 final size:7
Alignment explanation
Indices: 15256519--15256576 Score: 53
Period size: 7 Copynumber: 8.1 Consensus size: 7
15256509 TAAGGTTTAA
15256519 GGGTTAG
1 GGGTTAG
*
15256526 TGGTTAG
1 GGGTTAG
*
15256533 TGGTTAG
1 GGGTTAG
15256540 GGGTTAG
1 GGGTTAG
*
15256547 GGGTTAA
1 GGGTTAG
*
15256554 GAGTTAG
1 GGGTTAG
* *
15256561 GGATTTAA
1 GG-GTTAG
15256569 GGGTTAG
1 GGGTTAG
15256576 G
1 G
15256577 ACTTAAGGAT
Statistics
Matches: 40, Mismatches: 10, Indels: 2
0.77 0.19 0.04
Matches are distributed among these distances:
7 35 0.88
8 5 0.12
ACGTcount: A:0.21, C:0.00, G:0.47, T:0.33
Consensus pattern (7 bp):
GGGTTAG
Found at i:15256574 original size:15 final size:14
Alignment explanation
Indices: 15256508--15256576 Score: 59
Period size: 14 Copynumber: 4.9 Consensus size: 14
15256498 AGGTTGGGAT
* *
15256508 TTAAGGTTTAAGGG
1 TTAAGGGTTAGGGG
*
15256522 TT-AGTGGTTAGTGG
1 TTAAG-GGTTAGGGG
*
15256536 TTAGGGGTTAGGGG
1 TTAAGGGTTAGGGG
* *
15256550 TTAAGAGTTAGGGAT
1 TTAAGGGTTAGGG-G
15256565 TTAAGGGTTAGG
1 TTAAGGGTTAGG
15256577 ACTTAAGGAT
Statistics
Matches: 43, Mismatches: 9, Indels: 5
0.75 0.16 0.09
Matches are distributed among these distances:
13 2 0.05
14 29 0.67
15 12 0.28
ACGTcount: A:0.23, C:0.00, G:0.42, T:0.35
Consensus pattern (14 bp):
TTAAGGGTTAGGGG
Found at i:15256586 original size:22 final size:22
Alignment explanation
Indices: 15256547--15256594 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
15256537 TAGGGGTTAG
* * *
15256547 GGGTTAAGAGTTAGGGATTTAA
1 GGGTTAAGACTTAAGGATTCAA
*
15256569 GGGTTAGGACTTAAGGATTCAA
1 GGGTTAAGACTTAAGGATTCAA
15256591 GGGT
1 GGGT
15256595 CGAGTTAGGG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.29, C:0.04, G:0.38, T:0.29
Consensus pattern (22 bp):
GGGTTAAGACTTAAGGATTCAA
Found at i:15256921 original size:19 final size:18
Alignment explanation
Indices: 15256892--15256945 Score: 54
Period size: 19 Copynumber: 2.8 Consensus size: 18
15256882 GGATCAAATT
*
15256892 ATAAGAAATAAAATTAAA
1 ATAAAAAATAAAATTAAA
* *
15256910 ATACAAAAATAAAAATGAA
1 ATA-AAAAATAAAATTAAA
15256929 ATAAAAACACTAAAATT
1 ATAAAAA-A-TAAAATT
15256946 TTTAATTTTA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 7 0.24
19 16 0.55
20 6 0.21
ACGTcount: A:0.70, C:0.06, G:0.04, T:0.20
Consensus pattern (18 bp):
ATAAAAAATAAAATTAAA
Found at i:15257003 original size:47 final size:48
Alignment explanation
Indices: 15256930--15257028 Score: 164
Period size: 47 Copynumber: 2.1 Consensus size: 48
15256920 AAAAATGAAA
* * *
15256930 TAAAAACACTAAAATTTTTAATTTTATCTAATTTTTATATATATTACT
1 TAAAAACACTAAAATTTATAAATTTATCTAATTTTTATAAATATTACT
15256978 TAAAAA-ACTAAAATTTATAAATTTATCTAATTTTTATAAATATTACT
1 TAAAAACACTAAAATTTATAAATTTATCTAATTTTTATAAATATTACT
15257025 TAAA
1 TAAA
15257029 CAAAACTATG
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
47 42 0.88
48 6 0.12
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.46
Consensus pattern (48 bp):
TAAAAACACTAAAATTTATAAATTTATCTAATTTTTATAAATATTACT
Found at i:15262250 original size:42 final size:43
Alignment explanation
Indices: 15262160--15262268 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 43
15262150 CGCTTTTATC
*
15262160 AAAAGCGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTATT
1 AAAAGCGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAGT
* *
15262203 TAAAGCGCTGCTAAAGATCATGTT-TTTAGCGGCGTTTGTGGT
1 AAAAGCGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAGT
*
15262245 AAAAGCGCCGCTAAAGATCATGTT
1 AAAAGCGCTGCTAAAGATCATGTT
15262269 GAGTAAGGCG
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
42 38 0.62
43 23 0.38
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
AAAAGCGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAGT
Found at i:15262478 original size:22 final size:22
Alignment explanation
Indices: 15262445--15262486 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
15262435 TAGCGGCGCT
*
15262445 AAAAAGCGCGCTAAAGGCCTAA
1 AAAAAGCGCGCTAAAAGCCTAA
15262467 AAAAAG-GCCGCTAAAAGCCT
1 AAAAAGCG-CGCTAAAAGCCT
15262487 GTTTTGTTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 1 0.06
22 17 0.94
ACGTcount: A:0.45, C:0.24, G:0.21, T:0.10
Consensus pattern (22 bp):
AAAAAGCGCGCTAAAAGCCTAA
Found at i:15272582 original size:42 final size:43
Alignment explanation
Indices: 15272492--15272600 Score: 175
Period size: 42 Copynumber: 2.6 Consensus size: 43
15272482 CGCTTTTATC
*
15272492 AAAAGCGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTATT
1 AAAAGCGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAGT
* *
15272535 TAAAGCGCTGCTAAAGATCATGTT-TTTAGCGGCGTTTGTGGT
1 AAAAGCGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAGT
*
15272577 AAAAGCGCCGCTAAAGATCATGTT
1 AAAAGCGCTGCTAAAGATCATGTT
15272601 GAGTAAGGCG
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
42 38 0.62
43 23 0.38
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.32
Consensus pattern (43 bp):
AAAAGCGCTGCTAAAGATCATGTTCTTTAGCGGCGTTTGTAGT
Found at i:15273803 original size:85 final size:86
Alignment explanation
Indices: 15273700--15273871 Score: 337
Period size: 85 Copynumber: 2.0 Consensus size: 86
15273690 GCATTATAGA
15273700 TTACCAAATTAATTGATTTCACATTAATATAATATAATATTAATTAATATTACTTTTATTATTAT
1 TTACCAAATTAATTGATTTCACATTAATATAATATAATATTAATTAATATTACTTTTATTATTAT
15273765 CACATAATAA-ACTAATAAAC
66 CACATAATAATACTAATAAAC
15273785 TTACCAAATTAATTGATTTCACATTAATATAATATAATATTAATTAATATTACTTTTATTATTAT
1 TTACCAAATTAATTGATTTCACATTAATATAATATAATATTAATTAATATTACTTTTATTATTAT
15273850 CACATAATAATACTAATAAAC
66 CACATAATAATACTAATAAAC
15273871 T
1 T
15273872 GTTATTCTAA
Statistics
Matches: 86, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
85 75 0.87
86 11 0.13
ACGTcount: A:0.45, C:0.10, G:0.01, T:0.43
Consensus pattern (86 bp):
TTACCAAATTAATTGATTTCACATTAATATAATATAATATTAATTAATATTACTTTTATTATTAT
CACATAATAATACTAATAAAC
Found at i:15274339 original size:37 final size:39
Alignment explanation
Indices: 15274286--15274360 Score: 100
Period size: 37 Copynumber: 2.0 Consensus size: 39
15274276 AAAAAATAAT
* *
15274286 TATAAAAAATTGTTTTTAAAAATTAAAATTC-ATTAAAA
1 TATAAAAAATTATTTTTAAAAATTAAAAATCAATTAAAA
**
15274324 TATAAAAAA-TATTTTTAAATTTTAAAAATCAATTAAA
1 TATAAAAAATTATTTTTAAAAATTAAAAATCAATTAAA
15274361 TGTTAACGTG
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
37 17 0.53
38 15 0.47
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.40
Consensus pattern (39 bp):
TATAAAAAATTATTTTTAAAAATTAAAAATCAATTAAAA
Found at i:15275648 original size:63 final size:63
Alignment explanation
Indices: 15275545--15275671 Score: 245
Period size: 63 Copynumber: 2.0 Consensus size: 63
15275535 GTGGGGTGTG
15275545 AAGTCAACTAGTTAAAACAGTAAAGCAACTATTGAAACAGAAGGGCCAGTGTTGATTTTAACT
1 AAGTCAACTAGTTAAAACAGTAAAGCAACTATTGAAACAGAAGGGCCAGTGTTGATTTTAACT
*
15275608 AAGTCAACTAGTTAAAACAGTAAAGCAACTATTGACACAGAAGGGCCAGTGTTGATTTTAACT
1 AAGTCAACTAGTTAAAACAGTAAAGCAACTATTGAAACAGAAGGGCCAGTGTTGATTTTAACT
15275671 A
1 A
15275672 TCTATTTCTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
63 63 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (63 bp):
AAGTCAACTAGTTAAAACAGTAAAGCAACTATTGAAACAGAAGGGCCAGTGTTGATTTTAACT
Found at i:15279590 original size:60 final size:60
Alignment explanation
Indices: 15279495--15279665 Score: 245
Period size: 60 Copynumber: 2.9 Consensus size: 60
15279485 AAGAATGAAG
* * * *
15279495 TACTAGCAGCTTGTCTGCAATT-CTGATGGCTTGTTCACATTACTGGTAGCTAGTCCACAT
1 TACTAGCAGTTTATATGC-ATTACTGGTGGCTTGTTCACATTACTGGTAGCTAGTCCACAT
*
15279555 TACTAGCAGTTTATTTGCATTACTGGTGGCTTGTTCACATTACTGGTAGCTAGTCCACAT
1 TACTAGCAGTTTATATGCATTACTGGTGGCTTGTTCACATTACTGGTAGCTAGTCCACAT
* * * *
15279615 TACTAGCAGTTTATATGCATTACTGGTAGCTTGTCCACAATACTGGCAGCT
1 TACTAGCAGTTTATATGCATTACTGGTGGCTTGTTCACATTACTGGTAGCT
15279666 TGTTTGCAAT
Statistics
Matches: 101, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
59 3 0.03
60 98 0.97
ACGTcount: A:0.23, C:0.22, G:0.20, T:0.36
Consensus pattern (60 bp):
TACTAGCAGTTTATATGCATTACTGGTGGCTTGTTCACATTACTGGTAGCTAGTCCACAT
Found at i:15279660 original size:20 final size:20
Alignment explanation
Indices: 15279523--15279668 Score: 103
Period size: 20 Copynumber: 7.3 Consensus size: 20
15279513 AATTCTGATG
*
15279523 GCTTGTTCACATTACTGGTA
1 GCTTGTCCACATTACTGGTA
* * *
15279543 GCTAGTCCACATTACTAGCA
1 GCTTGTCCACATTACTGGTA
* * *** *
15279563 GTTTATTTGCATTACTGGTG
1 GCTTGTCCACATTACTGGTA
*
15279583 GCTTGTTCACATTACTGGTA
1 GCTTGTCCACATTACTGGTA
* * *
15279603 GCTAGTCCACATTACTAGCA
1 GCTTGTCCACATTACTGGTA
* * ***
15279623 GTTTATATGCATTACTGGTA
1 GCTTGTCCACATTACTGGTA
* *
15279643 GCTTGTCCACAATACTGGCA
1 GCTTGTCCACATTACTGGTA
15279663 GCTTGT
1 GCTTGT
15279669 TTGCAATTTT
Statistics
Matches: 89, Mismatches: 37, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
20 89 1.00
ACGTcount: A:0.23, C:0.21, G:0.20, T:0.36
Consensus pattern (20 bp):
GCTTGTCCACATTACTGGTA
Found at i:15283391 original size:18 final size:19
Alignment explanation
Indices: 15283351--15283392 Score: 52
Period size: 17 Copynumber: 2.3 Consensus size: 19
15283341 TTTTGTTGAC
15283351 ATAAAACTACTAAATAACT
1 ATAAAACTACTAAATAACT
* *
15283370 -TAAAA-TACTTAATAATT
1 ATAAAACTACTAAATAACT
15283387 ATAAAA
1 ATAAAA
15283393 AATTGAAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
17 10 0.50
18 10 0.50
ACGTcount: A:0.60, C:0.10, G:0.00, T:0.31
Consensus pattern (19 bp):
ATAAAACTACTAAATAACT
Found at i:15284499 original size:47 final size:47
Alignment explanation
Indices: 15284319--15284499 Score: 195
Period size: 47 Copynumber: 3.9 Consensus size: 47
15284309 GCAGATAAAA
** * * *
15284319 GCTG-CTAAAATATGTTGTGGATATAA-CATTAGTCGAGCAAGTGACT
1 GCTGACTAAAATACATTGTGGATA-AACCACTGGTCGAGCAGGTGACT
* * *
15284365 GCTGACTAAAATACATTATGGATAAACCACTGGTCGAGCAGATAACT
1 GCTGACTAAAATACATTGTGGATAAACCACTGGTCGAGCAGGTGACT
* * * * **
15284412 GTTAACTAAGATACATTGTGGATAAACTACTGGTTAAGCAGGTGACT
1 GCTGACTAAAATACATTGTGGATAAACCACTGGTCGAGCAGGTGACT
* *
15284459 GCCGCCTAAAATACATTGTGGATAAACCACTGGTCGAGCAG
1 GCTGACTAAAATACATTGTGGATAAACCACTGGTCGAGCAG
15284500 ATACTCTGCC
Statistics
Matches: 108, Mismatches: 25, Indels: 3
0.79 0.18 0.02
Matches are distributed among these distances:
46 6 0.06
47 102 0.94
ACGTcount: A:0.34, C:0.17, G:0.23, T:0.26
Consensus pattern (47 bp):
GCTGACTAAAATACATTGTGGATAAACCACTGGTCGAGCAGGTGACT
Found at i:15286619 original size:29 final size:29
Alignment explanation
Indices: 15286564--15286620 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 29
15286554 ACACGGGCTG
* **
15286564 GCACATGGGCATGTGGCCAGCTTGTGTGC
1 GCACACGGGCATGTGGCCAGCCCGTGTGC
* *
15286593 GCACACGGGCGTGTGGCCGGCCCGTGTG
1 GCACACGGGCATGTGGCCAGCCCGTGTG
15286621 GAAATGCCCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.11, C:0.28, G:0.42, T:0.19
Consensus pattern (29 bp):
GCACACGGGCATGTGGCCAGCCCGTGTGC
Found at i:15287383 original size:45 final size:46
Alignment explanation
Indices: 15287333--15287424 Score: 168
Period size: 45 Copynumber: 2.0 Consensus size: 46
15287323 TAAAATGAGC
15287333 TTCTTCTCAAAATATGAATTTAACTGTTCAAACTC-TCATAAAACT
1 TTCTTCTCAAAATATGAATTTAACTGTTCAAACTCATCATAAAACT
15287378 TTCTTCTCAAAATATGAATTTAACTGTTCAAACTCAATCATAAAACT
1 TTCTTCTCAAAATATGAATTTAACTGTTCAAACTC-ATCATAAAACT
15287425 AAAATAATAA
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 35 0.78
47 10 0.22
ACGTcount: A:0.39, C:0.20, G:0.04, T:0.37
Consensus pattern (46 bp):
TTCTTCTCAAAATATGAATTTAACTGTTCAAACTCATCATAAAACT
Found at i:15288432 original size:24 final size:23
Alignment explanation
Indices: 15288400--15288446 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
15288390 ACCATAAAAT
* *
15288400 ATAATTTTAAAAATAATAATTAAA
1 ATAAGTTTAAAAA-AATAAATAAA
*
15288424 ATAAGTTTAAGAAAATAAATAAA
1 ATAAGTTTAAAAAAATAAATAAA
15288447 TAAATAAAGC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
23 9 0.45
24 11 0.55
ACGTcount: A:0.64, C:0.00, G:0.04, T:0.32
Consensus pattern (23 bp):
ATAAGTTTAAAAAAATAAATAAA
Found at i:15288585 original size:17 final size:18
Alignment explanation
Indices: 15288553--15288586 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
15288543 ATAGTAAAAA
15288553 AGAAATAATAAAAATAAT
1 AGAAATAATAAAAATAAT
*
15288571 AGAAA-AATTAAAATAA
1 AGAAATAATAAAAATAA
15288587 ATTTAAAATC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.21
Consensus pattern (18 bp):
AGAAATAATAAAAATAAT
Found at i:15288641 original size:22 final size:22
Alignment explanation
Indices: 15288607--15288674 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
15288597 TAAGTATTAG
*
15288607 AATAATAAATAAAAAAT-TAGGAA
1 AATAA-AAATAAAAAATATA-AAA
*
15288630 AATAAAAATAAATAATATAAAA
1 AATAAAAATAAAAAATATAAAA
* *
15288652 AATAATAATAAAATAAAATAAAA
1 AATAAAAATAAAA-AATATAAAA
15288675 GGGGTAGCTT
Statistics
Matches: 38, Mismatches: 5, Indels: 4
0.81 0.11 0.09
Matches are distributed among these distances:
22 23 0.61
23 15 0.39
ACGTcount: A:0.75, C:0.00, G:0.03, T:0.22
Consensus pattern (22 bp):
AATAAAAATAAAAAATATAAAA
Found at i:15288649 original size:15 final size:15
Alignment explanation
Indices: 15288607--15288672 Score: 55
Period size: 15 Copynumber: 4.3 Consensus size: 15
15288597 TAAGTATTAG
15288607 AATAATAA-ATAAAA
1 AATAATAATATAAAA
** *
15288621 AATTAGGAAAAT-AAA
1 AA-TAATAATATAAAA
15288636 AATAAATAATATAAAA
1 AAT-AATAATATAAAA
*
15288652 AATAATAATAAAATAA
1 AATAATAATATAA-AA
15288668 AATAA
1 AATAA
15288673 AAGGGGTAGC
Statistics
Matches: 41, Mismatches: 6, Indels: 8
0.75 0.11 0.15
Matches are distributed among these distances:
14 3 0.07
15 23 0.56
16 15 0.37
ACGTcount: A:0.74, C:0.00, G:0.03, T:0.23
Consensus pattern (15 bp):
AATAATAATATAAAA
Found at i:15288652 original size:16 final size:16
Alignment explanation
Indices: 15288633--15288673 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
15288623 TTAGGAAAAT
*
15288633 AAAAATAAATAATATA
1 AAAAATAAATAATAAA
15288649 AAAAAT-AATAATAAA
1 AAAAATAAATAATAAA
15288664 ATAAAATAAA
1 A-AAAATAAA
15288674 AGGGGTAGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 9 0.41
16 11 0.50
17 2 0.09
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (16 bp):
AAAAATAAATAATAAA
Found at i:15292027 original size:27 final size:27
Alignment explanation
Indices: 15291969--15292029 Score: 104
Period size: 27 Copynumber: 2.3 Consensus size: 27
15291959 AACTAGGTCG
*
15291969 AATTCAAATAAATCTCAAACACATATA
1 AATTTAAATAAATCTCAAACACATATA
15291996 AATTTAAATAAATCTCAAACACATATA
1 AATTTAAATAAATCTCAAACACATATA
*
15292023 CATTTAA
1 AATTTAA
15292030 CTGTCTCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 32 1.00
ACGTcount: A:0.54, C:0.16, G:0.00, T:0.30
Consensus pattern (27 bp):
AATTTAAATAAATCTCAAACACATATA
Found at i:15292281 original size:41 final size:42
Alignment explanation
Indices: 15292217--15292295 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
15292207 ATGTTAATGC
* * *
15292217 ATATCGATGCCACTGTCCTAGACAGGGTTTTATACGAATCAT
1 ATATCGATGCCAATGTCCTAGACAGGGTCTTACACGAATCAT
*
15292259 ATAT-GATGCCAATGT-CTCAGACATGGTCTTACACGAA
1 ATATCGATGCCAATGTCCT-AGACAGGGTCTTACACGAA
15292296 ATCACACCTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 2 0.06
41 26 0.81
42 4 0.12
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (42 bp):
ATATCGATGCCAATGTCCTAGACAGGGTCTTACACGAATCAT
Found at i:15294215 original size:3 final size:3
Alignment explanation
Indices: 15294207--15294246 Score: 55
Period size: 3 Copynumber: 13.7 Consensus size: 3
15294197 AATTAGAATG
* *
15294207 AAT AAT AAT AAT AAT AAT AAT AAT AAT -GT AAT AAA AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
15294247 AAAATGGCTA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
2 1 0.03
3 31 0.97
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:15296887 original size:21 final size:21
Alignment explanation
Indices: 15296861--15296951 Score: 92
Period size: 21 Copynumber: 4.3 Consensus size: 21
15296851 CAGATACTCC
**
15296861 AACAGAAGCTCAAAAGAGCCG
1 AACAGAAGCTCAAAAGAGCTA
* * * *
15296882 AACAGAAACTCATAAGAGTTG
1 AACAGAAGCTCAAAAGAGCTA
**
15296903 AACAGAAGCTCGTAAGAGCTA
1 AACAGAAGCTCAAAAGAGCTA
* *
15296924 AACTGAAGCTCGAAAGAGCTA
1 AACAGAAGCTCAAAAGAGCTA
15296945 AACAGAA
1 AACAGAA
15296952 AGTAAAACAC
Statistics
Matches: 59, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 59 1.00
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (21 bp):
AACAGAAGCTCAAAAGAGCTA
Found at i:15298530 original size:31 final size:32
Alignment explanation
Indices: 15298473--15298532 Score: 79
Period size: 31 Copynumber: 1.9 Consensus size: 32
15298463 TAGCTTGGTA
*
15298473 ACTTAAATAAAAAACTATTGAGTAGTTCAGTG
1 ACTTAAATAAAAAACTATTGAATAGTTCAGTG
*
15298505 ACTTAAAT-GAAAACT-TTCGAATAGTTCA
1 ACTTAAATAAAAAACTATT-GAATAGTTCA
15298533 ATGTCCATGT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
30 2 0.08
31 15 0.60
32 8 0.32
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (32 bp):
ACTTAAATAAAAAACTATTGAATAGTTCAGTG
Found at i:15308136 original size:21 final size:21
Alignment explanation
Indices: 15308111--15308167 Score: 96
Period size: 21 Copynumber: 2.7 Consensus size: 21
15308101 ATTTTCTAGG
*
15308111 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATAAT
15308132 ATATGCAATCTTAGATATAAT
1 ATATGCAATCTTAGATATAAT
*
15308153 ATATACAATCTTAGA
1 ATATGCAATCTTAGA
15308168 AGATATGATT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 34 1.00
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (21 bp):
ATATGCAATCTTAGATATAAT
Found at i:15319077 original size:15 final size:15
Alignment explanation
Indices: 15319057--15319090 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
15319047 ATTATTTATG
15319057 TCATTGATATATTTA
1 TCATTGATATATTTA
* *
15319072 TCATTGTTGTATTTA
1 TCATTGATATATTTA
15319087 TCAT
1 TCAT
15319091 CATAACATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.56
Consensus pattern (15 bp):
TCATTGATATATTTA
Found at i:15319501 original size:98 final size:98
Alignment explanation
Indices: 15319368--15319564 Score: 358
Period size: 98 Copynumber: 2.0 Consensus size: 98
15319358 TTAAAAATCA
* *
15319368 TAAAGGAAATATTCCGAGTTTGGGATTTTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
15319433 TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
*
15319466 TAAAGGAAATATTCCGAGTTTGAGATTCTAGAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
1 TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
*
15319531 TTAAATCTTGGATAAGTGGATGTTCTTTTAAAG
66 TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
15319564 T
1 T
15319565 TTTATTGTAT
Statistics
Matches: 95, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
98 95 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.37
Consensus pattern (98 bp):
TAAAGGAAATATTCCGAGTTTGAGATTCTAAAGGAATTGTGCCCTAACGTATTGGGTGTGATTTC
TTAAATCTTGGACAAGTGGATGTTCTTTTAAAG
Found at i:15322951 original size:10 final size:10
Alignment explanation
Indices: 15322936--15322960 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
15322926 TTTATAATAA
15322936 ATTTTGATTT
1 ATTTTGATTT
15322946 ATTTTGATTT
1 ATTTTGATTT
15322956 ATTTT
1 ATTTT
15322961 CGATAAATTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.20, C:0.00, G:0.08, T:0.72
Consensus pattern (10 bp):
ATTTTGATTT
Found at i:15323126 original size:21 final size:22
Alignment explanation
Indices: 15323081--15323132 Score: 61
Period size: 21 Copynumber: 2.4 Consensus size: 22
15323071 GGTCCAATTT
* *
15323081 ATTAATATTAATTTATAATATA
1 ATTAATTTTAATTTATAATACA
* *
15323103 ATTGATTTTAA-TTATAATCCA
1 ATTAATTTTAATTTATAATACA
15323124 ATTAATTTT
1 ATTAATTTT
15323133 GGGTTAAATA
Statistics
Matches: 25, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
21 16 0.64
22 9 0.36
ACGTcount: A:0.42, C:0.04, G:0.02, T:0.52
Consensus pattern (22 bp):
ATTAATTTTAATTTATAATACA
Found at i:15328000 original size:2 final size:2
Alignment explanation
Indices: 15327993--15328019 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
15327983 AATCTAAATA
15327993 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
15328020 AAAGAGAGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Done.