Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 302 of 438
Found at i:94369589 original size:5 final size:6
Alignment explanation
Indices: 94369576--94369616 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
94369566 ATAATTTAAT
*
94369576 AAATAA AAATAA AAATTTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
94369617 ACATATAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (6 bp):
AAATAA
Found at i:94369604 original size:20 final size:21
Alignment explanation
Indices: 94369562--94369611 Score: 75
Period size: 20 Copynumber: 2.4 Consensus size: 21
94369552 CATAAAAATT
94369562 ATAAATAATTTAATAAATAAAA
1 ATAAA-AATTTAATAAATAAAA
*
94369584 ATAAAAATTTAA-AACTAAAA
1 ATAAAAATTTAATAAATAAAA
94369604 ATAAAAAT
1 ATAAAAAT
94369612 AAAAAACATA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 15 0.56
21 7 0.26
22 5 0.19
ACGTcount: A:0.70, C:0.02, G:0.00, T:0.28
Consensus pattern (21 bp):
ATAAAAATTTAATAAATAAAA
Found at i:94369617 original size:20 final size:20
Alignment explanation
Indices: 94369579--94369618 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
94369569 ATTTAATAAA
**
94369579 TAAAAATAAAAATTTAAAAC
1 TAAAAATAAAAATAAAAAAC
94369599 TAAAAATAAAAATAAAAAAC
1 TAAAAATAAAAATAAAAAAC
94369619 ATATAATTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:94369650 original size:9 final size:9
Alignment explanation
Indices: 94369636--94369694 Score: 82
Period size: 9 Copynumber: 6.6 Consensus size: 9
94369626 TTTATACAAA
94369636 TAATTCGGT
1 TAATTCGGT
94369645 TAATTCGGT
1 TAATTCGGT
*
94369654 TAATTCGAT
1 TAATTCGGT
* * *
94369663 CAATTTGGG
1 TAATTCGGT
94369672 TAATTCGGT
1 TAATTCGGT
94369681 TAATTCGGT
1 TAATTCGGT
94369690 TAATT
1 TAATT
94369695 TTATACTTAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.25, C:0.10, G:0.20, T:0.44
Consensus pattern (9 bp):
TAATTCGGT
Found at i:94370252 original size:6 final size:6
Alignment explanation
Indices: 94370243--94370271 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
94370233 AAAAATCCTC
94370243 CCCCAG CCCCAG CCCCAG CCCCAG CCCCA
1 CCCCAG CCCCAG CCCCAG CCCCAG CCCCA
94370272 CCCTCATCCC
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:0.17, C:0.69, G:0.14, T:0.00
Consensus pattern (6 bp):
CCCCAG
Found at i:94370970 original size:6 final size:6
Alignment explanation
Indices: 94370961--94371007 Score: 69
Period size: 6 Copynumber: 7.8 Consensus size: 6
94370951 GGAGAGGGAC
*
94370961 GGGGGT GGGGGAC GGGGGT GGGGGT GGGGGT -GGGGT GGGGGT GGGGG
1 GGGGGT GGGGG-T GGGGGT GGGGGT GGGGGT GGGGGT GGGGGT GGGGG
94371008 AAGTGGAGAA
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
5 5 0.14
6 27 0.73
7 5 0.14
ACGTcount: A:0.02, C:0.02, G:0.83, T:0.13
Consensus pattern (6 bp):
GGGGGT
Found at i:94370974 original size:13 final size:13
Alignment explanation
Indices: 94370956--94371008 Score: 67
Period size: 13 Copynumber: 4.3 Consensus size: 13
94370946 GAGAGGGAGA
94370956 GGGACGGGGGTGG
1 GGGACGGGGGTGG
94370969 GGGACGGGGGTGG
1 GGGACGGGGGTGG
*
94370982 GGG-TGGGGGT-G
1 GGGACGGGGGTGG
*
94370993 GGG-TGGGGGTGG
1 GGGACGGGGGTGG
94371005 GGGA
1 GGGA
94371009 AGTGGAGAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
11 11 0.30
12 10 0.27
13 16 0.43
ACGTcount: A:0.06, C:0.04, G:0.79, T:0.11
Consensus pattern (13 bp):
GGGACGGGGGTGG
Found at i:94370995 original size:11 final size:11
Alignment explanation
Indices: 94370974--94371006 Score: 57
Period size: 11 Copynumber: 2.9 Consensus size: 11
94370964 GGTGGGGGAC
94370974 GGGGGTGGGGGT
1 GGGGGT-GGGGT
94370986 GGGGGTGGGGT
1 GGGGGTGGGGT
94370997 GGGGGTGGGG
1 GGGGGTGGGG
94371007 GAAGTGGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 15 0.71
12 6 0.29
ACGTcount: A:0.00, C:0.00, G:0.85, T:0.15
Consensus pattern (11 bp):
GGGGGTGGGGT
Found at i:94370997 original size:17 final size:18
Alignment explanation
Indices: 94370961--94371008 Score: 71
Period size: 17 Copynumber: 2.7 Consensus size: 18
94370951 GGAGAGGGAC
94370961 GGGGGTGGGGGACGGGGGT
1 GGGGGTGGGGGA-GGGGGT
*
94370980 GGGGGTGGGGG-TGGGGT
1 GGGGGTGGGGGAGGGGGT
94370997 GGGGGTGGGGGA
1 GGGGGTGGGGGA
94371009 AGTGGAGAAG
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 16 0.59
19 11 0.41
ACGTcount: A:0.04, C:0.02, G:0.81, T:0.12
Consensus pattern (18 bp):
GGGGGTGGGGGAGGGGGT
Found at i:94371095 original size:31 final size:30
Alignment explanation
Indices: 94371048--94371105 Score: 89
Period size: 31 Copynumber: 1.9 Consensus size: 30
94371038 AGGGTTTATT
* *
94371048 TTTTTATTTTATTTAATGTTAATATAATTA
1 TTTTTATTTAATTTAATATTAATATAATTA
94371078 TTTTTATTTAATATTAATATTAATATAA
1 TTTTTATTTAAT-TTAATATTAATATAA
94371106 AAATTAAATT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
30 11 0.44
31 14 0.56
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (30 bp):
TTTTTATTTAATTTAATATTAATATAATTA
Found at i:94376646 original size:2 final size:2
Alignment explanation
Indices: 94376639--94376671 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
94376629 ATATTTAATC
94376639 TA TA TA TA 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 TA TA TA TA T
94376672 TACTAAATCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94384673 original size:16 final size:16
Alignment explanation
Indices: 94384652--94384684 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
94384642 GAAAAGAGGC
*
94384652 CCTACCCGGAAGGGGA
1 CCTACCCAGAAGGGGA
94384668 CCTACCCAGAAGGGGA
1 CCTACCCAGAAGGGGA
94384684 C
1 C
94384685 TTGGGAGACA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.27, C:0.33, G:0.33, T:0.06
Consensus pattern (16 bp):
CCTACCCAGAAGGGGA
Found at i:94390009 original size:132 final size:131
Alignment explanation
Indices: 94389780--94390161 Score: 534
Period size: 132 Copynumber: 2.9 Consensus size: 131
94389770 ACAGATCCTG
* * * * *
94389780 TTTCCCTAAAGTTGTAGTGAAGCAAATCGAAGACGGTGAATCTTGGCTTCCTGAAGTTGCAGTGA
1 TTTCCCTGAAGTTGCAGTGAAGCAGATAGAAGACGATGAATCTTGGCTTCCT-AAGTTGCAGTGA
* *
94389845 AGCAGATTTAAGCCACCATCCTAGCTCCCTAAAGTTGTAATGGAGTAGGCTGAAATTTTAGATCT
65 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCT
*
94389910 TA
130 CA
* * * *
94389912 TTTCTCTGAAGTTGCAGTGAAGCAGATAGAAGACGACGAATCTTGGCTTTCTAAAGTTGTAGTGA
1 TTTCCCTGAAGTTGCAGTGAAGCAGATAGAAGACGATGAATCTTGGCTTCCT-AAGTTGCAGTGA
*
94389977 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGCGGAGTAGGCTGAAATTTTAGATCT
65 AGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCT
*
94390042 CG
130 CA
* * * * *
94390044 TTTCCCTGAAGTTGCAGTGGAGTAGATCA-AAGAC-AGTGAATCTAGGCTTCCTGAGATTGCAGC
1 TTTCCCTGAAGTTGCAGTGAAGCAGAT-AGAAGACGA-TGAATCTTGGCTTCCTAAG-TTGCAGT
94390107 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGA
63 GAAGCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGA
94390162 CGATTGCAGA
Statistics
Matches: 222, Mismatches: 25, Indels: 6
0.88 0.10 0.02
Matches are distributed among these distances:
131 3 0.01
132 218 0.98
133 1 0.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.27
Consensus pattern (131 bp):
TTTCCCTGAAGTTGCAGTGAAGCAGATAGAAGACGATGAATCTTGGCTTCCTAAGTTGCAGTGAA
GCAGATTTAAGCCACCAACCTAGCTCCCTAAAGTTGTAGTGGAGTAGGCTGAAATTTTAGATCTC
A
Found at i:94392044 original size:2 final size:2
Alignment explanation
Indices: 94392037--94392063 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
94392027 ATATTTAATC
94392037 TA 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 TA T
94392064 TACTAAATCC
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:94393454 original size:131 final size:130
Alignment explanation
Indices: 94393135--94393439 Score: 348
Period size: 130 Copynumber: 2.3 Consensus size: 130
94393125 GATGAGATTT
* *
94393135 GATGTTTGGCAATTCGCGGAAT-AGTGCCCTAACGTGTTGGGTTGCAATTTCGCATTTGCTCAAA
1 GATGTTTGGCAATTCGCGGAATCA-TGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTCAAA
* * * * *
94393199 CTAATCGAATATCACTTCGAAATTTCACTCATGTCTTTTAAAATCCCTAAAACAAAGGCGATATG
65 ATAATCAAATATCACTTCAAAATTTCACTCATGTCTTTAAAAATCCCTAAAACAAAGGCAATATG
94393264 C
130 C
* * * * *
94393265 GATATTTGGCAATTCGTGGAATCGTGCCCTAACGTGTTGGGTAGCAATTTCCCATTTGTTTAAAA
1 GATGTTTGGCAATTCGCGGAATCATGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTCAAAA
* * ** *
94393330 TAATCAAATATCCCTTCAAAATTTCACTCA-GATCTTCTAAAAATCCTTTAAAATGAAGGTAATA
66 TAATCAAATATCACTTCAAAATTTCACTCATG-TCTT-TAAAAATCC-CTAAAACAAAGGCAATA
94393394 CT-C
128 -TGC
* * * *
94393397 GGTGTTTGACAATTCG-GGAATCATGCCCTATCGTGCTGGGTTG
1 GATGTTTGGCAATTCGCGGAATCATGCCCTAACGTGTTGGGTTG
94393440 TGATTTCTCG
Statistics
Matches: 146, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
129 1 0.01
130 87 0.60
131 31 0.21
132 26 0.18
133 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.19, T:0.33
Consensus pattern (130 bp):
GATGTTTGGCAATTCGCGGAATCATGCCCTAACGTGTTGGGTTGCAATTTCCCATTTGTTCAAAA
TAATCAAATATCACTTCAAAATTTCACTCATGTCTTTAAAAATCCCTAAAACAAAGGCAATATGC
Found at i:94400996 original size:39 final size:38
Alignment explanation
Indices: 94400952--94401072 Score: 95
Period size: 39 Copynumber: 3.2 Consensus size: 38
94400942 AAGCTATGGC
*
94400952 AATGTGATAAAGTGTGTGATCATGGAAAAGCCATGGTAG
1 AATGTGATAAAGTGTGTGATCAT-GAAAAGCCATGGTAA
* ** * ** * *
94400991 AATGTG-TGCAAGTGTAAGACCATAGCTAAGCTAT-G-AC
1 AATGTGAT-AAAGTGTGTGATCAT-GAAAAGCCATGGTAA
*
94401028 AACGTGATAAAGTGTGTGATCATGACAAAGCCATGGTAA
1 AATGTGATAAAGTGTGTGATCATGA-AAAGCCATGGTAA
94401067 AATGTG
1 AATGTG
94401073 TGCAAGACCA
Statistics
Matches: 58, Mismatches: 19, Indels: 10
0.67 0.22 0.11
Matches are distributed among these distances:
36 1 0.02
37 23 0.40
38 4 0.07
39 30 0.52
ACGTcount: A:0.36, C:0.12, G:0.27, T:0.25
Consensus pattern (38 bp):
AATGTGATAAAGTGTGTGATCATGAAAAGCCATGGTAA
Found at i:94401035 original size:76 final size:76
Alignment explanation
Indices: 94400916--94401078 Score: 274
Period size: 76 Copynumber: 2.1 Consensus size: 76
94400906 GCAGTTATAT
* * *
94400916 ATGTGTGCAAGTGTAATACCATAGCTAAGCTATGGCAATGTGATAAAGTGTGTGATCATGGA-AA
1 ATGTGTGCAAGTGTAAGACCATAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCAT-GACAA
*
94400980 AGCCATGGTAGA
65 AGCCATGGTAAA
94400992 ATGTGTGCAAGTGTAAGACCATAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCATGACAAA
1 ATGTGTGCAAGTGTAAGACCATAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCATGACAAA
94401057 GCCATGGTAAA
66 GCCATGGTAAA
94401068 ATGTGTGCAAG
1 ATGTGTGCAAG
94401079 ACCAAAGCGA
Statistics
Matches: 82, Mismatches: 4, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
75 2 0.02
76 80 0.98
ACGTcount: A:0.35, C:0.13, G:0.27, T:0.25
Consensus pattern (76 bp):
ATGTGTGCAAGTGTAAGACCATAGCTAAGCTATGACAACGTGATAAAGTGTGTGATCATGACAAA
GCCATGGTAAA
Found at i:94401042 original size:37 final size:37
Alignment explanation
Indices: 94400924--94401042 Score: 96
Period size: 37 Copynumber: 3.2 Consensus size: 37
94400914 ATATGTGTGC
* *
94400924 AAGTGTAATACCATAGCTAAGCTATGGCAATGTGATA
1 AAGTGTAAGACCATAGCTAAGCTATGACAATGTGATA
** * * ** * * *
94400961 AAGTGTGTGATCATGGAAAAGCCATGGTAGAATGTG-TGC
1 AAGTGTAAGACCATAGCTAAGCTAT-G-ACAATGTGAT-A
*
94401000 AAGTGTAAGACCATAGCTAAGCTATGACAACGTGATA
1 AAGTGTAAGACCATAGCTAAGCTATGACAATGTGATA
94401037 AAGTGT
1 AAGTGT
94401043 GTGATCATGA
Statistics
Matches: 57, Mismatches: 21, Indels: 8
0.66 0.24 0.09
Matches are distributed among these distances:
37 29 0.51
38 4 0.07
39 24 0.42
ACGTcount: A:0.36, C:0.13, G:0.26, T:0.25
Consensus pattern (37 bp):
AAGTGTAAGACCATAGCTAAGCTATGACAATGTGATA
Found at i:94401818 original size:7 final size:7
Alignment explanation
Indices: 94401781--94401832 Score: 59
Period size: 7 Copynumber: 7.3 Consensus size: 7
94401771 ACTATTGTAA
94401781 GGTTTAT
1 GGTTTAT
* *
94401788 CGATTAT
1 GGTTTAT
*
94401795 GAGTTTAA
1 G-GTTTAT
*
94401803 GGATTAT
1 GGTTTAT
94401810 GGTTTAT
1 GGTTTAT
94401817 GGTTTAT
1 GGTTTAT
94401824 GGTTTAT
1 GGTTTAT
94401831 GG
1 GG
94401833 GTTAAAGGTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
7 31 0.86
8 5 0.14
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (7 bp):
GGTTTAT
Found at i:94401823 original size:14 final size:14
Alignment explanation
Indices: 94401781--94401832 Score: 68
Period size: 14 Copynumber: 3.6 Consensus size: 14
94401771 ACTATTGTAA
*
94401781 GGTTTATCGATTAT
1 GGTTTATGGATTAT
*
94401795 GAGTTTAAGGATTAT
1 G-GTTTATGGATTAT
*
94401810 GGTTTATGGTTTAT
1 GGTTTATGGATTAT
94401824 GGTTTATGG
1 GGTTTATGG
94401833 GTTAAAGGTT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
14 21 0.64
15 12 0.36
ACGTcount: A:0.21, C:0.02, G:0.29, T:0.48
Consensus pattern (14 bp):
GGTTTATGGATTAT
Found at i:94401921 original size:14 final size:13
Alignment explanation
Indices: 94401867--94401923 Score: 51
Period size: 14 Copynumber: 4.2 Consensus size: 13
94401857 AGGGGGTTGG
94401867 GGTTTAAGGTTTA
1 GGTTTAAGGTTTA
* *
94401880 GGGTTAAGGGTTAA
1 GGTTTAA-GGTTTA
* *
94401894 CGGTTTATGTTTTA
1 -GGTTTAAGGTTTA
94401908 TGGTTTAAGGTTTA
1 -GGTTTAAGGTTTA
94401922 GG
1 GG
94401924 GGTTAGGGAT
Statistics
Matches: 33, Mismatches: 9, Indels: 4
0.72 0.20 0.09
Matches are distributed among these distances:
13 8 0.24
14 20 0.61
15 5 0.15
ACGTcount: A:0.21, C:0.02, G:0.33, T:0.44
Consensus pattern (13 bp):
GGTTTAAGGTTTA
Found at i:94401936 original size:22 final size:21
Alignment explanation
Indices: 94401839--94401944 Score: 83
Period size: 22 Copynumber: 5.0 Consensus size: 21
94401829 ATGGGTTAAA
**
94401839 GGTTAGGGTTTAAATTTTAGGG
1 GGTTAGGGTTTAAGGTTTA-GG
*
94401861 GGTTGGGGTTTAAGGTTTA-G
1 GGTTAGGGTTTAAGGTTTAGG
*
94401881 GGTTAAGGG-TTAACGGTTTATG
1 GGTT-AGGGTTTAA-GGTTTAGG
** *
94401903 TTTTATGGTTTAAGGTTTAGG
1 GGTTAGGGTTTAAGGTTTAGG
94401924 GGTTAGGGATTT-AGAGTTTAG
1 GGTTAGGG-TTTAAG-GTTTAG
94401945 ATTAATTAGT
Statistics
Matches: 67, Mismatches: 11, Indels: 12
0.74 0.12 0.13
Matches are distributed among these distances:
20 9 0.13
21 26 0.39
22 32 0.48
ACGTcount: A:0.21, C:0.01, G:0.37, T:0.42
Consensus pattern (21 bp):
GGTTAGGGTTTAAGGTTTAGG
Found at i:94409396 original size:2 final size:2
Alignment explanation
Indices: 94409389--94409420 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
94409379 GCTCTTACAC
94409389 AT AT AT AT -T AT -T AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
94409421 GTTGAATAGA
Statistics
Matches: 28, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
1 2 0.07
2 26 0.93
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
AT
Found at i:94417141 original size:20 final size:20
Alignment explanation
Indices: 94417113--94417155 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
94417103 AATATAAAGA
* *
94417113 AAAACTTATAATTATTTTTT
1 AAAACTTATAATGAATTTTT
* *
94417133 AAAATTTATTATGAATTTTT
1 AAAACTTATAATGAATTTTT
94417153 AAA
1 AAA
94417156 TTCAGAACAG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (20 bp):
AAAACTTATAATGAATTTTT
Found at i:94417782 original size:19 final size:20
Alignment explanation
Indices: 94417758--94417795 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
94417748 GGTACCACCA
94417758 AAACAT-ATATCA-CATCTTT
1 AAACATCAT-TCATCATCTTT
94417777 AAACATCATTCATCATCTT
1 AAACATCATTCATCATCTT
94417796 ACCACCTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.39, C:0.24, G:0.00, T:0.37
Consensus pattern (20 bp):
AAACATCATTCATCATCTTT
Found at i:94425657 original size:47 final size:47
Alignment explanation
Indices: 94425543--94425712 Score: 169
Period size: 45 Copynumber: 3.7 Consensus size: 47
94425533 GCCCCTAAGT
* * * *
94425543 GAACTCGGACTCAACTCAACGAGCTCGG--G-CGTTCGCATCCATAAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCC--AAGC
94425589 GAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATCTC-A-C
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCC-A-TTCACATC-CAAGC
* *
94425636 GAACTCGGACTCAACTCAACGAGTTCGGA---CATTCGCATCCATAGT
1 GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCA-AGC
94425681 GAACTCGGACTCAACTCAACGAGTTCGGATGC
1 GAACTCGGACTCAACTCAACGAGTTCGGATGC
94425713 TCAACCATCC
Statistics
Matches: 105, Mismatches: 6, Indels: 24
0.78 0.04 0.18
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 2 0.02
45 29 0.28
46 27 0.26
47 29 0.28
48 2 0.02
49 1 0.01
50 4 0.04
51 3 0.03
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (47 bp):
GAACTCGGACTCAACTCAACGAGTTCGGATGCCATTCACATCCAAGC
Found at i:94425712 original size:92 final size:93
Alignment explanation
Indices: 94425543--94425712 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
94425533 GCCCCTAAGT
* *
94425543 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94425608 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
94425636 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-AGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94425700 CGAGTTCGGATGC
66 CGAGTTCGGATGC
94425713 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 35 0.47
93 39 0.53
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:94427452 original size:67 final size:67
Alignment explanation
Indices: 94427363--94427528 Score: 190
Period size: 67 Copynumber: 2.5 Consensus size: 67
94427353 GTGGATTCTA
* * ** *
94427363 TATGCTGTCATAGTTGGGCTATGGTCTTACACATCATACCATATGTTTAATATCCTAGCAGACTC
1 TATGTTGTCATAGTCGAACTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTC
94427428 TC
66 TC
* * * *
94427430 TATGTTGTCATAGTCGAACTATGGTCTTATACATCATACCTTATGTTTAATGGCCTAGCGGACTC
1 TATGTTGTCATAGTCGAACTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTC
94427495 TC
66 TC
* * * * *
94427497 TGTATTGCCAT-GGCCAAGCTATGGTCTTACAC
1 TATGTTGTCATAGTCGAA-CTATGGTCTTACAC
94427529 GTTATACCCT
Statistics
Matches: 83, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
66 4 0.05
67 79 0.95
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (67 bp):
TATGTTGTCATAGTCGAACTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTC
TC
Found at i:94427536 original size:67 final size:68
Alignment explanation
Indices: 94427380--94427528 Score: 194
Period size: 67 Copynumber: 2.2 Consensus size: 68
94427370 TCATAGTTGG
* * * *
94427380 GCTATGGTCTTACACATCATACCATATGTTTAATATCCTAGCAGACTCTCTATGTTGTCATAGTC
1 GCTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTCTCTATATTGCCATAGGC
*
94427445 GAA
66 CAA
* * * * *
94427448 -CTATGGTCTTATACATCATACCTTATGTTTAATGGCCTAGCGGACTCTCTGTATTGCCAT-GGC
1 GCTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTCTCTATATTGCCATAGGC
94427511 CAA
66 CAA
94427514 GCTATGGTCTTACAC
1 GCTATGGTCTTACAC
94427529 GTTATACCCT
Statistics
Matches: 69, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
66 4 0.06
67 65 0.94
ACGTcount: A:0.25, C:0.23, G:0.17, T:0.35
Consensus pattern (68 bp):
GCTATGGTCTTACACATCATACCATATGTTTAATAGCCTAGCAGACTCTCTATATTGCCATAGGC
CAA
Found at i:94432906 original size:10 final size:10
Alignment explanation
Indices: 94432885--94432917 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
94432875 GAATTGTATG
94432885 ATGAAT-GAA
1 ATGAATAGAA
94432894 ATGAATAGAA
1 ATGAATAGAA
*
94432904 ATGGATAGAA
1 ATGAATAGAA
94432914 ATGA
1 ATGA
94432918 TAAAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
9 6 0.29
10 15 0.71
ACGTcount: A:0.55, C:0.00, G:0.24, T:0.21
Consensus pattern (10 bp):
ATGAATAGAA
Found at i:94446210 original size:106 final size:105
Alignment explanation
Indices: 94446046--94446238 Score: 260
Period size: 106 Copynumber: 1.8 Consensus size: 105
94446036 GGTTAGATAA
* * * * **
94446046 ATTTTAATTAAGATAATTGGGATTTTAAATTAAATTAGGATAATTAGAGTTATAATTTATTTAAG
1 ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATAATTAGAGTTATAATTTAGATAAG
*
94446111 ATAATTAATAATTTAAATTAATATATTTGAAAATATTTTAT
66 ATAATTAAGAATTT-AATTAATATATTTGAAAATATTTTAT
* * * * *
94446152 ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATTATTAGATTTTTCATTTAGATATG
1 ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATAATTAGAGTTATAATTTAGATAAG
*
94446217 ATAATTAGGAATTTAATTAATA
66 ATAATTAAGAATTTAATTAATA
94446239 GGTTGGATAA
Statistics
Matches: 74, Mismatches: 13, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
105 8 0.11
106 66 0.89
ACGTcount: A:0.44, C:0.01, G:0.11, T:0.45
Consensus pattern (105 bp):
ATTTAAATTAAGATAATTAGGAGTTTAAATTAAACTAGGATAATTAGAGTTATAATTTAGATAAG
ATAATTAAGAATTTAATTAATATATTTGAAAATATTTTAT
Found at i:94450338 original size:314 final size:312
Alignment explanation
Indices: 94449772--94450341 Score: 668
Period size: 310 Copynumber: 1.8 Consensus size: 312
94449762 TAACATACAG
* * **
94449772 TAAATAATGAAATGTATGATTTGAAATTAATTAATAATAATAACACATTAAATATGTATTCTATT
1 TAAATAATGAAATGTATGATTTGAAATTAATTAAT-ATAATAAAACATTAAATATATATGATATT
*
94449837 AAAATAAAAAAAAAGTTAGATTAAAGTGTAAGTAAAATAAAATTTAAATGCATGAATAAATCATA
65 AAAATAAAAAAAAAG-TAGATTAAAGTGTAAGGAAAATAAAATTTAAA-GCATGAATAAATCATA
* * *
94449902 TTAAGATTAATAAATGAATACAATTATTTATCATTGGGTTGTGATCAATCTTAAGTTGGCATCAA
128 TTAAGAATAATAAATGAATACAATTATTTATCATTGGGTTGTCATCAATCTTAAGTTAGCATCAA
* * * * **
94449967 GTTAATTTGTGACACTATCTTAATCAACAACATTAGTCATACTAGAAATTTTATCACACGTGCAT
193 GTTAACTTGTGACACAATCTCAATCAACAACATTAATCATACTAGAAATCCTATCACACGTGCAT
94450032 GTGTATGAAAACTACATATTGAGGACACAAAGGGGTGTTTAAATGTGACATATAA
258 GTGTATGAAAACTACATATTGAGGACACAAAGGGGTGTTTAAATGTGACATATAA
* * *
94450087 TAAATAGTGAAATGTATGGTTTGGAATTAATTAAT-T-ATAAAACATTAAATATATATGATATTA
1 TAAATAATGAAATGTATGATTTGAAATTAATTAATATAATAAAACATTAAATATATATGATATTA
* * * * *
94450150 AAAT-GAAAAAAA-TAGATTAAATTGTGAGGAAAGTAAAATTTAAA-CATGTAAATACATCATAT
66 AAATAAAAAAAAAGTAGATTAAAGTGTAAGGAAAATAAAATTTAAAGCATG--AATAAATCATAT
* * * * * * ** **
94450212 TAAGAATACTAAATGCACTACAATTGTTTATCA-TGATGTTGTCATCAATTTTTAGTTAGTGTTG
129 TAAGAATAATAAATG-AATACAATTATTTATCATTG-GGTTGTCATCAATCTTAAGTTAGCATCA
* * *
94450276 AGTTGACTTGTGTCACCAAT-TCAATCAACAACATTAACAATAGATACTAGAAATCCTATCACAC
192 AGTTAACTTGTGACA-CAATCTCAATCAACAACATT---AAT-CATACTAGAAATCCTATCACAC
94450340 GT
252 GT
94450342 ATATGTATGT
Statistics
Matches: 211, Mismatches: 35, Indels: 19
0.80 0.13 0.07
Matches are distributed among these distances:
307 4 0.02
309 54 0.26
310 60 0.28
311 10 0.05
312 27 0.13
313 3 0.01
314 21 0.10
315 32 0.15
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.34
Consensus pattern (312 bp):
TAAATAATGAAATGTATGATTTGAAATTAATTAATATAATAAAACATTAAATATATATGATATTA
AAATAAAAAAAAAGTAGATTAAAGTGTAAGGAAAATAAAATTTAAAGCATGAATAAATCATATTA
AGAATAATAAATGAATACAATTATTTATCATTGGGTTGTCATCAATCTTAAGTTAGCATCAAGTT
AACTTGTGACACAATCTCAATCAACAACATTAATCATACTAGAAATCCTATCACACGTGCATGTG
TATGAAAACTACATATTGAGGACACAAAGGGGTGTTTAAATGTGACATATAA
Found at i:94450386 original size:314 final size:313
Alignment explanation
Indices: 94449754--94450463 Score: 688
Period size: 315 Copynumber: 2.3 Consensus size: 313
94449744 TAATTTTGTA
* * * *
94449754 TTTAAAAAT-AACATACAGTAAATAATGAAATGTATGATTTGAAATTAATTAATAATAATAACAC
1 TTTAAAAATAAACATATAATAAATAATGAAATGTATGGTTTGAAATTAATTAAT-ATAATAAAAC
* ** *
94449818 ATTAAATATGTATTCTATTAAAATAAAAAAAAAGTTAGATTAAAGTGTAAGTAAAATAAAATTTA
65 ATTAAATATATATGATATTAAAATAAAAAAAAAG-TAGATTAAAGTGTAAGGAAAATAAAATTTA
* *
94449883 AATGCATGAATAAATCATATTAAGATTAATAAATGAATACAATTATTTATCATTGGGTTGTGATC
129 AA-GCATGAATAAATCATATTAAGAATAATAAATGAATACAATTATTTATCATTGGGTTGTCATC
* * * * *
94449948 AATCTTAAGTTGGCATCAAGTTAATTTGTGACACTATCTTAATCAACAACATTAGTCATACTAGA
193 AATCTTAAGTTAGCATCAAGTTAACTTGTGACACAATCTCAATCAACAACATTAATCATACTAGA
** * * * * *
94450013 AATTTTATCACACGTGCATGTGTATGAAAACTACATATTGAGGACACAAAGGGGTG
258 AATCCTATCACACGTACATGTATATGAAAACCACAAATTGAGAACACAAAGGGGTG
** * * *
94450069 TTTAAATGT-GACATATAATAAATAGTGAAATGTATGGTTTGGAATTAATTAAT-T-ATAAAACA
1 TTTAAAAATAAACATATAATAAATAATGAAATGTATGGTTTGAAATTAATTAATATAATAAAACA
* * * *
94450131 TTAAATATATATGATATTAAAAT-GAAAAAAA-TAGATTAAATTGTGAGGAAAGTAAAATTTAAA
66 TTAAATATATATGATATTAAAATAAAAAAAAAGTAGATTAAAGTGTAAGGAAAATAAAATTTAAA
* * * * *
94450194 -CATGTAAATACATCATATTAAGAATACTAAATGCACTACAATTGTTTATCA-TGATGTTGTCAT
131 GCATG--AATAAATCATATTAAGAATAATAAATG-AATACAATTATTTATCATTG-GGTTGTCAT
* * ** ** * * *
94450257 CAATTTTTAGTTAGTGTTGAGTTGACTTGTGTCACCAAT-TCAATCAACAACATTAACAATAGAT
192 CAATCTTAAGTTAGCATCAAGTTAACTTGTGACA-CAATCTCAATCAACAACATT---AAT-CAT
* * * * * *
94450321 ACTAGAAATCCTATCACACGTATATGTATGTGGAAACCACAAATTTGA-AACATAAATGTGTG
252 ACTAGAAATCCTATCACACGTACATGTATATGAAAACCACAAA-TTGAGAACACAAAGGGGTG
* * * *
94450383 TTTAAAAATAAACATATAATAGATAATGAAACGTATGGTTTGAAACTAATTGACA-ATAATAACA
1 TTTAAAAATAAACATATAATAAATAATGAAATGTATGGTTTGAAATTAATT-A-ATATAATAAAA
*
94450447 C-TTGAAATATGTATGAT
64 CATT-AAATATATATGAT
94450464 GTTATTAATA
Statistics
Matches: 318, Mismatches: 61, Indels: 29
0.78 0.15 0.07
Matches are distributed among these distances:
307 4 0.01
309 54 0.17
310 60 0.19
311 10 0.03
312 27 0.08
313 3 0.01
314 53 0.17
315 84 0.26
316 1 0.00
317 4 0.01
318 18 0.06
ACGTcount: A:0.44, C:0.09, G:0.13, T:0.33
Consensus pattern (313 bp):
TTTAAAAATAAACATATAATAAATAATGAAATGTATGGTTTGAAATTAATTAATATAATAAAACA
TTAAATATATATGATATTAAAATAAAAAAAAAGTAGATTAAAGTGTAAGGAAAATAAAATTTAAA
GCATGAATAAATCATATTAAGAATAATAAATGAATACAATTATTTATCATTGGGTTGTCATCAAT
CTTAAGTTAGCATCAAGTTAACTTGTGACACAATCTCAATCAACAACATTAATCATACTAGAAAT
CCTATCACACGTACATGTATATGAAAACCACAAATTGAGAACACAAAGGGGTG
Found at i:94451059 original size:26 final size:26
Alignment explanation
Indices: 94451030--94451107 Score: 72
Period size: 26 Copynumber: 2.9 Consensus size: 26
94451020 ATTATTAAAA
94451030 TAAAATTAAAATATTAAATAATTTAT
1 TAAAATTAAAATATTAAATAATTTAT
94451056 TAAAATAATAAATTATATT-AATAATTTAT
1 TAAAAT--TAAA--ATATTAAATAATTTAT
*
94451085 TATATGATT-AAATA-TAAATAATT
1 TA-A-AATTAAAATATTAAATAATT
94451108 AAATATGTAT
Statistics
Matches: 44, Mismatches: 1, Indels: 14
0.75 0.02 0.24
Matches are distributed among these distances:
25 1 0.02
26 16 0.36
28 6 0.14
29 13 0.30
30 6 0.14
31 2 0.05
ACGTcount: A:0.55, C:0.00, G:0.01, T:0.44
Consensus pattern (26 bp):
TAAAATTAAAATATTAAATAATTTAT
Found at i:94451086 original size:16 final size:16
Alignment explanation
Indices: 94451040--94451089 Score: 52
Period size: 16 Copynumber: 3.2 Consensus size: 16
94451030 TAAAATTAAA
94451040 ATATTAAATAATTTATT
1 ATATT-AATAATTTATT
**
94451057 A-A--AATAATAAATT
1 ATATTAATAATTTATT
94451070 ATATTAATAATTTATT
1 ATATTAATAATTTATT
94451086 ATAT
1 ATAT
94451090 GATTAAATAT
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
13 10 0.38
14 1 0.04
16 14 0.54
17 1 0.04
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (16 bp):
ATATTAATAATTTATT
Found at i:94451206 original size:18 final size:18
Alignment explanation
Indices: 94451171--94451206 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
94451161 AAATATTTTG
* *
94451171 AAAATAAAATTTATTATA
1 AAAATAAAATTAACTATA
94451189 AAAATAAAATTAACTATA
1 AAAATAAAATTAACTATA
94451207 GATGAACTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (18 bp):
AAAATAAAATTAACTATA
Found at i:94454856 original size:42 final size:42
Alignment explanation
Indices: 94454807--94454906 Score: 146
Period size: 42 Copynumber: 2.4 Consensus size: 42
94454797 TTCGGTTTAG
* * *
94454807 CCGATGATGCACTTACTTGCTAGTATAATTGCTTCGGTATAT
1 CCGATGATGCACTTACGTGCTAGTATAATTACTTCGATATAT
** *
94454849 CTTATGATGCACTTGCGTGCTAGTATAATTACTTCGATATAT
1 CCGATGATGCACTTACGTGCTAGTATAATTACTTCGATATAT
94454891 CCGATGATGCACTTAC
1 CCGATGATGCACTTAC
94454907 ATGCCAGAAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
42 49 1.00
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (42 bp):
CCGATGATGCACTTACGTGCTAGTATAATTACTTCGATATAT
Found at i:94461730 original size:30 final size:30
Alignment explanation
Indices: 94461684--94461743 Score: 84
Period size: 30 Copynumber: 2.0 Consensus size: 30
94461674 TTCCCGAGCC
*
94461684 TAGGGGCAAAAGTGTAATTATGCAAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
* * *
94461714 TAGGGGTAAAAATGTAATTTTGCCAAAGTT
1 TAGGGGCAAAAATGTAATTATGCAAAAGTT
94461744 CGTATTAAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.38, C:0.07, G:0.25, T:0.30
Consensus pattern (30 bp):
TAGGGGCAAAAATGTAATTATGCAAAAGTT
Found at i:94497017 original size:61 final size:55
Alignment explanation
Indices: 94496914--94497030 Score: 171
Period size: 61 Copynumber: 2.0 Consensus size: 55
94496904 AAAGCACCTG
94496914 TATTAGTGCAGCCTGAACGGGTAAGGTAATTTACAGTGATGCCTCATTAAATGGT
1 TATTAGTGCAGCCTGAACGGGTAAGGTAATTTACAGTGATGCCTCATTAAATGGT
*
94496969 TATTAGTGCAGCCTGAATCGGGTAAGGATTTGTTATTTACAGTGATGCCTCATTAAATGGT
1 TATTAGTGCAGCCTGAA-CGGGTAA-G----GTAATTTACAGTGATGCCTCATTAAATGGT
94497030 T
1 T
94497031 TAGGTTGTGT
Statistics
Matches: 55, Mismatches: 1, Indels: 6
0.89 0.02 0.10
Matches are distributed among these distances:
55 17 0.31
56 7 0.13
57 1 0.02
61 30 0.55
ACGTcount: A:0.27, C:0.14, G:0.25, T:0.34
Consensus pattern (55 bp):
TATTAGTGCAGCCTGAACGGGTAAGGTAATTTACAGTGATGCCTCATTAAATGGT
Found at i:94499634 original size:46 final size:45
Alignment explanation
Indices: 94499584--94499759 Score: 185
Period size: 46 Copynumber: 3.8 Consensus size: 45
94499574 TGTTTGGGCA
*
94499584 TCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
*** * *
94499630 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
94499677 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* * * *
94499723 CCCGAGCTCGTTGAGTTAAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
94499760 GCGGGTTACG
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 66 0.61
47 32 0.30
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.28
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:94499739 original size:93 final size:93
Alignment explanation
Indices: 94499580--94499752 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
94499570 AGGATGTTTG
* *
94499580 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
*
94499645 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTAAGTCCGAGTTCGAGAGATGTAACTA
* * *
94499673 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
94499738 TTAAGTCCGAGTTCG
66 TTAAGTCCGAGTTCG
94499753 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.27
Consensus pattern (93 bp):
GGCATCCGAACTCATTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTAAGTCCGAGTTCGAGAGATGTAACTA
Found at i:94507120 original size:13 final size:11
Alignment explanation
Indices: 94507092--94507134 Score: 52
Period size: 11 Copynumber: 3.8 Consensus size: 11
94507082 AGTTAAATAT
94507092 TATTTTATTAA
1 TATTTTATTAA
94507103 TATTTTACTTAGA
1 TATTTTA-TTA-A
*
94507116 TA-TTTATTAT
1 TATTTTATTAA
94507126 TATTTTATT
1 TATTTTATT
94507135 TTGAAAATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
10 2 0.07
11 16 0.57
12 7 0.25
13 3 0.11
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.65
Consensus pattern (11 bp):
TATTTTATTAA
Found at i:94512695 original size:247 final size:247
Alignment explanation
Indices: 94512262--94513001 Score: 1209
Period size: 247 Copynumber: 3.0 Consensus size: 247
94512252 ACCAAGAACC
* * * * * *
94512262 TTCTAATAGATCAATTTTGAGTTGGAATATCTATTGAATTGTGGATTTCCTCTT-AGAATTCAAG
1 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCT-TTCAAAATTCAAG
*
94512326 A--TACCATT-AAGCACCTTAAGCTTTTGAAGAAGATAACATTAATAAAAAATCATGCAATTATC
65 ATCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATC
* *
94512388 TCTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAATTTTAGAAATAATAATTACCTTT
130 ACTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTT
94512453 GATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
195 GATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
94512506 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
1 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
*
94512571 TCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATAATGCAATTATCA
66 TCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCA
* * *
94512636 CTCAAATAATGTAAATATGCTTCTAATCATTATGAAAATAAGTTTAGAAATAATAATTACCTTTG
131 CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTG
* *
94512701 ATTCTTTCTAAATTCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
196 ATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
* * *
94512753 TTCTAATAGATCCATATTGAGTTGGAACATCCATTGATTTGTCGATTTCCTCTCAAAATTCAAGA
1 TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
* * * **
94512818 TCCACCATTAAAGCACCTTAAACTTTTGAAGAAGATGACATTAATAAAGAATCATGCAGCTATCA
66 TCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCA
*
94512883 CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAAAAATAATAATTACCTTTG
131 CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTG
* *
94512948 ATTCGTTCTTAATCCTTTCATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
196 ATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
94513000 TT
1 TT
94513002 TAGAATATTT
Statistics
Matches: 460, Mismatches: 32, Indels: 5
0.93 0.06 0.01
Matches are distributed among these distances:
243 2 0.00
244 56 0.12
246 7 0.02
247 395 0.86
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (247 bp):
TTCTAATAGATCCATTTTGAGTTGGAACATCCATTGATTTGTAGATTTCCTTTCAAAATTCAAGA
TCTACCATTAAAGCACCTTAAGCTTTTGAAGAAGATGACATTAATAAAAAATCATGCAATTATCA
CTCAAATCATGTAAATATGCTTCTAATCATCATAAAAATAAGTTTAGAAATAATAATTACCTTTG
ATTCGTTCTAAATCCTTTGATTGAAAATCTTGATTCAAGAATCTTGAGAAAT
Found at i:94514548 original size:17 final size:18
Alignment explanation
Indices: 94514518--94514551 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
94514508 GTCCATTAGG
94514518 TTAATTTAGGTTAATAAT
1 TTAATTTAGGTTAATAAT
*
94514536 TTAA-TTAGTTTAATAA
1 TTAATTTAGGTTAATAA
94514552 ATACTTTAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.41, C:0.00, G:0.09, T:0.50
Consensus pattern (18 bp):
TTAATTTAGGTTAATAAT
Found at i:94520430 original size:3 final size:3
Alignment explanation
Indices: 94520422--94520468 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
94520412 AAAATAGATA
94520422 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
94520469 GTTAAAGATA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:94524506 original size:9 final size:9
Alignment explanation
Indices: 94524483--94524525 Score: 59
Period size: 9 Copynumber: 4.8 Consensus size: 9
94524473 GTGATAGAGA
*
94524483 AATAAGAGT
1 AATAATAGT
94524492 AATAATAGT
1 AATAATAGT
**
94524501 AATAATAAA
1 AATAATAGT
94524510 AATAATAGT
1 AATAATAGT
94524519 AATAATA
1 AATAATA
94524526 AAATGATTAA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (9 bp):
AATAATAGT
Found at i:94524513 original size:18 final size:18
Alignment explanation
Indices: 94524492--94524528 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
94524482 AAATAAGAGT
94524492 AATAATAGTAATAATAAA
1 AATAATAGTAATAATAAA
94524510 AATAATAGTAATAATAAA
1 AATAATAGTAATAATAAA
94524528 A
1 A
94524529 TGATTAAAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (18 bp):
AATAATAGTAATAATAAA
Found at i:94524706 original size:17 final size:16
Alignment explanation
Indices: 94524675--94524714 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 16
94524665 AGGAAGAAAG
94524675 AAAGAAGGAAAGGAGC
1 AAAGAAGGAAAGGAGC
* *
94524691 AAAGAGGGAGAAGGAGG
1 AAAGAAGGA-AAGGAGC
94524708 AAAGAAG
1 AAAGAAG
94524715 AGGAAGGGAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
16 8 0.40
17 12 0.60
ACGTcount: A:0.55, C:0.03, G:0.42, T:0.00
Consensus pattern (16 bp):
AAAGAAGGAAAGGAGC
Found at i:94538401 original size:17 final size:17
Alignment explanation
Indices: 94538375--94538412 Score: 67
Period size: 17 Copynumber: 2.2 Consensus size: 17
94538365 TATATATTGT
*
94538375 ATATTTAACACAAATAA
1 ATATTCAACACAAATAA
94538392 ATATTCAACACAAATAA
1 ATATTCAACACAAATAA
94538409 ATAT
1 ATAT
94538413 CAAATTTTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (17 bp):
ATATTCAACACAAATAA
Found at i:94538775 original size:24 final size:24
Alignment explanation
Indices: 94538748--94538793 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
94538738 TACTCATACA
*
94538748 TTGCTTTGTTCCATCATCTCAACT
1 TTGCCTTGTTCCATCATCTCAACT
**
94538772 TTGCCTTGTTTTATCATCTCAA
1 TTGCCTTGTTCCATCATCTCAA
94538794 AATATCTCAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.17, C:0.26, G:0.09, T:0.48
Consensus pattern (24 bp):
TTGCCTTGTTCCATCATCTCAACT
Found at i:94544894 original size:84 final size:84
Alignment explanation
Indices: 94544789--94544954 Score: 296
Period size: 84 Copynumber: 2.0 Consensus size: 84
94544779 TAATTGTTAG
* *
94544789 AAGTGTGTTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTTGTTTATTCAATGAC
1 AAGTGTATTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTCGTTTATTCAATGAC
94544854 GGCCATAAGGTAATTAGAC
66 GGCCATAAGGTAATTAGAC
* *
94544873 AAGTGTATTATGAAAATGTTGATATATCAAGACTTGCTGTCCTTGATTTTCGTTTATTCAATGAC
1 AAGTGTATTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTCGTTTATTCAATGAC
94544938 GGCCATAAGGTAATTAG
66 GGCCATAAGGTAATTAG
94544955 CCCTTGTCTA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
84 78 1.00
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.37
Consensus pattern (84 bp):
AAGTGTATTACGAAAATGTTGATATATCAAGACATGCTGTCCTTGATTTTCGTTTATTCAATGAC
GGCCATAAGGTAATTAGAC
Found at i:94548661 original size:17 final size:18
Alignment explanation
Indices: 94548639--94548684 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
94548629 GGCTGTTCTA
94548639 GTGAGCTTGCA-GTCTTG
1 GTGAGCTTGCATGTCTTG
* * *
94548656 GTGAGCTCGCATTTTTTG
1 GTGAGCTTGCATGTCTTG
94548674 GTGAGCTTGCA
1 GTGAGCTTGCA
94548685 CATTGGGTGA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.13, C:0.17, G:0.33, T:0.37
Consensus pattern (18 bp):
GTGAGCTTGCATGTCTTG
Found at i:94548741 original size:44 final size:43
Alignment explanation
Indices: 94548673--94548759 Score: 102
Period size: 44 Copynumber: 2.0 Consensus size: 43
94548663 CGCATTTTTT
* *
94548673 GGTGAGCTTGCACATTGGGTGAGCTCGCAGTTCGCAGTTAGCA
1 GGTGAGCTCGCACATTGGGTGAGCTCGCAGTTCACAGTTAGCA
* * * * *
94548716 GGTGAGCTCGCATCTTTTGGTGAGCTTGTAGTTCACATTTAGCA
1 GGTGAGCTCGCA-CATTGGGTGAGCTCGCAGTTCACAGTTAGCA
94548760 TGGATGGTCA
Statistics
Matches: 36, Mismatches: 7, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
43 11 0.31
44 25 0.69
ACGTcount: A:0.18, C:0.20, G:0.31, T:0.31
Consensus pattern (43 bp):
GGTGAGCTCGCACATTGGGTGAGCTCGCAGTTCACAGTTAGCA
Found at i:94553637 original size:15 final size:15
Alignment explanation
Indices: 94553605--94553633 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
94553595 ATTTTCTGTG
94553605 TTTATTATGTGTGAA
1 TTTATTATGTGTGAA
94553620 TTTA-TATGTGTGAA
1 TTTATTATGTGTGAA
94553634 ATTTTCGTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.28, C:0.00, G:0.21, T:0.52
Consensus pattern (15 bp):
TTTATTATGTGTGAA
Found at i:94554787 original size:45 final size:45
Alignment explanation
Indices: 94554723--94554844 Score: 172
Period size: 45 Copynumber: 2.7 Consensus size: 45
94554713 TAGGATTATG
94554723 ATATGTGATTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCAAT
1 ATATGTGATTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCAAT
* * * * *
94554768 ATATGTGATTTCTTGTAAGACCACGTCTGGGTCGTTGGCGTCGAT
1 ATATGTGATTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCAAT
* * *
94554813 ATATGTGGTTACGTGTAAGACCATGTCTGGGA
1 ATATGTGATTTCGTGTAAGACCAAGTCTGGGA
94554845 TATCAACATC
Statistics
Matches: 67, Mismatches: 10, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
45 67 1.00
ACGTcount: A:0.23, C:0.16, G:0.29, T:0.33
Consensus pattern (45 bp):
ATATGTGATTTCGTGTAAGACCAAGTCTGGGACGTTGGCATCAAT
Found at i:94558155 original size:40 final size:40
Alignment explanation
Indices: 94557990--94558156 Score: 139
Period size: 40 Copynumber: 4.2 Consensus size: 40
94557980 AAATTGAATG
*
94557990 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAT--TT
1 ATATCCGGGCTAAGA-CCCGAAGGC-ATT-TG-TGCGAATGGTT
* * * * *
94558030 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTT
* * **
94558070 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTT
*
94558110 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTT
94558150 ATATCCG
1 ATATCCG
94558157 TTATATTCCG
Statistics
Matches: 99, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 88 0.89
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTT
Found at i:94564729 original size:57 final size:55
Alignment explanation
Indices: 94564620--94564729 Score: 123
Period size: 55 Copynumber: 2.0 Consensus size: 55
94564610 TAGTAGGATG
* *
94564620 AGAAAAAAAAAAAAAGTGTTCATCTTTCTCCATAGCTTGCCGAATATCCTAAGAA
1 AGAAAAAAAAAAAAAGTGTTCATCTTTCTCCATAGCTTGCCGAAAATACTAAGAA
* ** **
94564675 AGAAAAGAAAAAAATTTGTTCATCCTTTCT-CATCTTCTTGGCCGAAAATACTAAG
1 AGAAAAAAAAAAAAAGTGTTCAT-CTTTCTCCAT-AGCTT-GCCGAAAATACTAAG
94564730 GGAAAAGGGG
Statistics
Matches: 45, Mismatches: 7, Indels: 4
0.80 0.12 0.07
Matches are distributed among these distances:
55 23 0.51
56 9 0.20
57 13 0.29
ACGTcount: A:0.41, C:0.18, G:0.13, T:0.28
Consensus pattern (55 bp):
AGAAAAAAAAAAAAAGTGTTCATCTTTCTCCATAGCTTGCCGAAAATACTAAGAA
Found at i:94566083 original size:40 final size:40
Alignment explanation
Indices: 94565918--94566085 Score: 141
Period size: 40 Copynumber: 4.2 Consensus size: 40
94565908 AAATTGAATG
*
94565918 ATATCCGGGCTAA-ATCCCGAAGACAATTATGCTG-GAAT--TT
1 ATATCCGGGCTAAGA-CCCGAAGGC-ATT-TG-TGCGAATGGTT
* * * * *
94565958 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTT
* * **
94565998 ACATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGA-CATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTT
*
94566038 CTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACATGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGA-ATGGTT
94566078 ATATCCGG
1 ATATCCGG
94566086 TTATATTCCG
Statistics
Matches: 100, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
37 2 0.02
38 4 0.04
39 4 0.04
40 89 0.89
41 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAATGGTT
Found at i:94569857 original size:18 final size:18
Alignment explanation
Indices: 94569834--94569870 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
94569824 AATAAAAATC
94569834 ATAGATCAATCAGAATTT
1 ATAGATCAATCAGAATTT
94569852 ATAGATCAATCAGAATTT
1 ATAGATCAATCAGAATTT
94569870 A
1 A
94569871 CTCTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (18 bp):
ATAGATCAATCAGAATTT
Found at i:94580034 original size:30 final size:30
Alignment explanation
Indices: 94579978--94580035 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
94579968 CACGGCCAGG
* *
94579978 ACACACGAGCGTGTGCTTTACCCGTGTGTC
1 ACACACGAGCGTGTGCATCACCCGTGTGTC
* *
94580008 ACACACGAGCGTGTGGATCACTCGTGTG
1 ACACACGAGCGTGTGCATCACCCGTGTG
94580036 GAAGTGCTTA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.19, C:0.28, G:0.29, T:0.24
Consensus pattern (30 bp):
ACACACGAGCGTGTGCATCACCCGTGTGTC
Found at i:94584784 original size:46 final size:46
Alignment explanation
Indices: 94584717--94584990 Score: 395
Period size: 46 Copynumber: 6.0 Consensus size: 46
94584707 AGTGTGCTCT
*
94584717 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
94584763 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
94584809 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *
94584855 TTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * *** *
94584901 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCAGGGCAAC
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
94584947 ATGACAGAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
94584991 TCATGTCAAA
Statistics
Matches: 208, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 208 1.00
ACGTcount: A:0.40, C:0.14, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:94590124 original size:46 final size:46
Alignment explanation
Indices: 94589959--94590275 Score: 471
Period size: 45 Copynumber: 7.0 Consensus size: 46
94589949 AGTGTGCTCT
94589959 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
94590005 CTGATAT-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
94590050 CTGATAT-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
94590095 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAA-
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*** *
94590140 CTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
94590186 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
94590232 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
94590276 TCATGTCAAA
Statistics
Matches: 256, Mismatches: 12, Indels: 6
0.93 0.04 0.02
Matches are distributed among these distances:
45 133 0.52
46 123 0.48
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:94590129 original size:91 final size:92
Alignment explanation
Indices: 94589959--94590275 Score: 471
Period size: 91 Copynumber: 3.5 Consensus size: 92
94589949 AGTGTGCTCT
*
94589959 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATAT-AAATGTGTAAG
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
94590023 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
*
94590050 CTGATAT-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
94590114 ACCATGGTTGAAAGATACCATGGCAA-
66 ACCATGGTTGAAAGATACCATGGCAAC
** ** ***
94590140 CTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAATGTGATATGAAATGAACAAG
1 CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
94590205 ACCATGGTTGAAAGATACCATGGCAAC
66 ACCATGGTTGAAAGATACCATGGCAAC
* * * * *
94590232 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGAGTAAGACCATGGTTGAAAGATACCATGGCA
94590276 TCATGTCAAA
Statistics
Matches: 207, Mismatches: 15, Indels: 7
0.90 0.07 0.03
Matches are distributed among these distances:
90 52 0.25
91 120 0.58
92 35 0.17
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.22
Consensus pattern (92 bp):
CTGATATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAACCTGATATGAAATGTGTAAG
ACCATGGTTGAAAGATACCATGGCAAC
Found at i:94595781 original size:93 final size:93
Alignment explanation
Indices: 94595669--94595840 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
94595659 GCCCATAAGT
* *
94595669 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94595734 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
94595762 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94595827 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
94595841 AAATCCTAGT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:94595836 original size:46 final size:46
Alignment explanation
Indices: 94595661--94595836 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
94595651 TGTAACCCGC
* * *
94595661 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
94595707 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
94595757 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
94595800 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
94595837 TGCCAAATCC
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:94598176 original size:29 final size:29
Alignment explanation
Indices: 94598137--94598224 Score: 97
Period size: 29 Copynumber: 3.0 Consensus size: 29
94598127 CAAAGATAAC
*
94598137 AAGAAAACCGAATAAAGAAATCCAAGATA
1 AAGAAACCCGAATAAAGAAATCCAAGATA
*
94598166 GAGAAACCCGAATAAAGAAATCC-AGAATA
1 AAGAAACCCGAATAAAGAAATCCAAG-ATA
* * * *
94598195 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGA-AACCCGAATAAAGAAATCCAAGATA
94598225 CGATACTATG
Statistics
Matches: 49, Mismatches: 7, Indels: 5
0.80 0.11 0.08
Matches are distributed among these distances:
28 2 0.04
29 27 0.55
30 18 0.37
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (29 bp):
AAGAAACCCGAATAAAGAAATCCAAGATA
Found at i:94598195 original size:15 final size:15
Alignment explanation
Indices: 94598137--94598215 Score: 83
Period size: 15 Copynumber: 5.4 Consensus size: 15
94598127 CAAAGATAAC
*
94598137 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
94598151 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
94598166 GAGAAA-CCCGAATA
1 AAGAAATCCAGAATA
94598180 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
94598195 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
94598210 AAGAAA
1 AAGAAA
94598216 CCCAAGATAC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
14 19 0.36
15 34 0.64
ACGTcount: A:0.58, C:0.14, G:0.18, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:94598224 original size:15 final size:15
Alignment explanation
Indices: 94598148--94598224 Score: 77
Period size: 15 Copynumber: 5.2 Consensus size: 15
94598138 AGAAAACCGA
94598148 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* * *
94598163 ATAGAGAAACCCGA-
1 ATAAAGAAATCCAAG
94598177 ATAAAGAAATCC-AG
1 ATAAAGAAATCCAAG
* *
94598191 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
94598207 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
94598222 ATA
1 ATA
94598225 CGATACTATG
Statistics
Matches: 49, Mismatches: 10, Indels: 6
0.75 0.15 0.09
Matches are distributed among these distances:
13 1 0.02
14 10 0.20
15 37 0.76
16 1 0.02
ACGTcount: A:0.56, C:0.16, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:94601282 original size:93 final size:93
Alignment explanation
Indices: 94601170--94601341 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
94601160 GCCCATAAGT
* *
94601170 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94601235 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
94601263 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
94601328 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
94601342 AACCATCCTA
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:94601337 original size:46 final size:46
Alignment explanation
Indices: 94601162--94601337 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
94601152 TGTAACCCGC
* * *
94601162 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
94601208 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
94601258 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
94601301 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
94601338 TGCCAACCAT
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:94603506 original size:46 final size:46
Alignment explanation
Indices: 94603439--94603758 Score: 453
Period size: 46 Copynumber: 7.0 Consensus size: 46
94603429 AGTGTACTTT
94603439 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
94603485 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
94603531 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
94603577 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** *
94603623 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAT
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
94603669 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * * *
94603715 ATGACA-GAAAATGAGTAAGACCATAGTTCAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
94603759 TCATGTCAAA
Statistics
Matches: 257, Mismatches: 16, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
45 1 0.00
46 256 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:94604887 original size:17 final size:17
Alignment explanation
Indices: 94604865--94604906 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
94604855 AGAGCTCGCA
*
94604865 GGTGAGCTC-TCATGCTT
1 GGTGAGCTCGTAATG-TT
94604882 GGTGAGCTCGTAATGTT
1 GGTGAGCTCGTAATGTT
94604899 GGTGAGCT
1 GGTGAGCT
94604907 GTCCTGGTGA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 19 0.83
18 4 0.17
ACGTcount: A:0.14, C:0.17, G:0.36, T:0.33
Consensus pattern (17 bp):
GGTGAGCTCGTAATGTT
Found at i:94604960 original size:17 final size:15
Alignment explanation
Indices: 94604938--94604980 Score: 50
Period size: 17 Copynumber: 2.6 Consensus size: 15
94604928 GTAGTTTGTA
94604938 GGTGAGCTCACAGTCTT
1 GGTGAGCTCACA-T-TT
94604955 GGTGAGCTTGCACATTT
1 GGTGAGC-T-CACATTT
94604972 GGTGAGCTC
1 GGTGAGCTC
94604981 GTAGTTCGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
15 1 0.04
16 1 0.04
17 16 0.67
18 2 0.08
19 4 0.17
ACGTcount: A:0.16, C:0.21, G:0.33, T:0.30
Consensus pattern (15 bp):
GGTGAGCTCACATTT
Found at i:94605003 original size:60 final size:60
Alignment explanation
Indices: 94604911--94605058 Score: 190
Period size: 61 Copynumber: 2.5 Consensus size: 60
94604901 TGAGCTGTCC
* * * * *
94604911 TGGTGAGCTTGCAGTTCGTAGTTTGTAGGTGAGCTCACAGTC-TTGGTGAGCTTGCACATT
1 TGGTGAGCTCGCAGTTCGCAGTTAGCAAGTGAGCTCACA-TCTTTGGTGAGCTTGCACATT
* * *
94604971 TGGTGAGCTCGTAGTTCGCAGTTAGCAAGTGAGCTCGCATCTTTTGGTGAGCTTTCACATT
1 TGGTGAGCTCGCAGTTCGCAGTTAGCAAGTGAGCTCACATC-TTTGGTGAGCTTGCACATT
*
94605032 TGGTGAGCTCACAGTTCGCAGTTAGCA
1 TGGTGAGCTCGCAGTTCGCAGTTAGCA
94605059 GGGATGGTCA
Statistics
Matches: 76, Mismatches: 10, Indels: 3
0.85 0.11 0.03
Matches are distributed among these distances:
59 2 0.03
60 32 0.42
61 42 0.55
ACGTcount: A:0.18, C:0.19, G:0.30, T:0.33
Consensus pattern (60 bp):
TGGTGAGCTCGCAGTTCGCAGTTAGCAAGTGAGCTCACATCTTTGGTGAGCTTGCACATT
Found at i:94605022 original size:18 final size:17
Alignment explanation
Indices: 94604999--94605041 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
94604989 CAGTTAGCAA
*
94604999 GTGAGCTCGCATCTTTTG
1 GTGAGCTCGCA-CATTTG
**
94605017 GTGAGCTTTCACATTTG
1 GTGAGCTCGCACATTTG
94605034 GTGAGCTC
1 GTGAGCTC
94605042 ACAGTTCGCA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.14, C:0.21, G:0.28, T:0.37
Consensus pattern (17 bp):
GTGAGCTCGCACATTTG
Found at i:94605745 original size:13 final size:14
Alignment explanation
Indices: 94605728--94605761 Score: 54
Period size: 12 Copynumber: 2.6 Consensus size: 14
94605718 AGAGTTAAAA
94605728 AAAATAAAAAAATT
1 AAAATAAAAAAATT
94605742 -AAAT-AAAAAATT
1 AAAATAAAAAAATT
94605754 AAAATAAA
1 AAAATAAA
94605762 TTTTTTATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
12 8 0.44
13 8 0.44
14 2 0.11
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (14 bp):
AAAATAAAAAAATT
Found at i:94605749 original size:12 final size:13
Alignment explanation
Indices: 94605728--94605761 Score: 52
Period size: 13 Copynumber: 2.6 Consensus size: 13
94605718 AGAGTTAAAA
94605728 AAAATAAAAAAATT
1 AAAAT-AAAAAATT
94605742 -AAATAAAAAATT
1 AAAATAAAAAATT
94605754 AAAATAAA
1 AAAATAAA
94605762 TTTTTTATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
12 8 0.42
13 11 0.58
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (13 bp):
AAAATAAAAAATT
Found at i:94615687 original size:199 final size:199
Alignment explanation
Indices: 94615340--94615749 Score: 813
Period size: 199 Copynumber: 2.1 Consensus size: 199
94615330 TAGAAATTTT
94615340 TTTTAAG-GGGACCGAAATTAAATTGTAATTTTTATGATAGTAAAAATGCAATTTCACCATTTTT
1 TTTTAAGAGGGACCGAAATTAAATTGTAATTTTTATGATAGTAAAAATGCAATTTCACCATTTTT
94615404 ATAGCCTATATCATTATAAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGAAGGGCCA
66 ATAGCCTATATCATTATAAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGAAGGGCCA
94615469 AAGTGCAATTTTACCTTTACTAATTTAGAATTTTAAATATTTTAAAAGGCTTAAATGAAAAAATT
131 AAGTGCAATTTTACCTTTACTAATTTAGAATTTTAAATATTTTAAAAGGCTTAAATGAAAAAATT
94615534 TCCA
196 TCCA
94615538 TTTTAAGAGGGACCGAAATTAAATTGTAATTTTTATGATAGTAAAAATGCAATTTCACCATTTTT
1 TTTTAAGAGGGACCGAAATTAAATTGTAATTTTTATGATAGTAAAAATGCAATTTCACCATTTTT
94615603 ATAGCCTATATCATTATAAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGAAGGGCCA
66 ATAGCCTATATCATTATAAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGAAGGGCCA
94615668 AAGTGCAATTTTACCTTTACTAATTTAGAATTTTAAATATTTTAAAAGGCTTAAATGAAAAAATT
131 AAGTGCAATTTTACCTTTACTAATTTAGAATTTTAAATATTTTAAAAGGCTTAAATGAAAAAATT
94615733 TCCA
196 TCCA
94615737 TTTTAAGAGGGAC
1 TTTTAAGAGGGAC
94615750 TGAGGCCCCT
Statistics
Matches: 211, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
198 7 0.03
199 204 0.97
ACGTcount: A:0.39, C:0.10, G:0.12, T:0.39
Consensus pattern (199 bp):
TTTTAAGAGGGACCGAAATTAAATTGTAATTTTTATGATAGTAAAAATGCAATTTCACCATTTTT
ATAGCCTATATCATTATAAATTTTAAAGGATTAAATCAAATTTTTATCATTTTTAGGAAGGGCCA
AAGTGCAATTTTACCTTTACTAATTTAGAATTTTAAATATTTTAAAAGGCTTAAATGAAAAAATT
TCCA
Found at i:94619688 original size:29 final size:27
Alignment explanation
Indices: 94619629--94619782 Score: 107
Period size: 29 Copynumber: 5.5 Consensus size: 27
94619619 ATAGCCATAG
* *
94619629 AGGC-TTCCTTTACAGAGATTGCTACAG
1 AGGCTTTCCTTTA-AGAGATTGCCACAA
*
94619656 AGGCTTTCCTTTGATAGAGATTACCACAA
1 AGGCTTTCCTTT-A-AGAGATTGCCACAA
94619685 AGGCGTTTCCTTTAAGAGATTTGCCACAA
1 AGGC-TTTCCTTTAAGAGA-TTGCCACAA
* * * *
94619714 AGGCATT-CTTAAATAGAGGTTG-CACAG
1 AGGCTTTCCTT-TA-AGAGATTGCCACAA
* * *
94619741 AGGCTTACCTTTCCAGAGTTTTGCCACAA
1 AGGCTTTCCTTT-AAGAG-ATTGCCACAA
*
94619770 AGGCTGTCCTTTA
1 AGGCTTTCCTTTA
94619783 CATCTAATAA
Statistics
Matches: 99, Mismatches: 18, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
27 20 0.20
28 24 0.24
29 47 0.47
30 8 0.08
ACGTcount: A:0.27, C:0.21, G:0.21, T:0.31
Consensus pattern (27 bp):
AGGCTTTCCTTTAAGAGATTGCCACAA
Found at i:94619857 original size:22 final size:22
Alignment explanation
Indices: 94619814--94619857 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
94619804 GCTTTCCTTT
* *
94619814 ACATCTAGTATTCGACATAAAG
1 ACATCTAGTACTCGACACAAAG
94619836 ACATCTAGTACTC-ACCACAAAG
1 ACATCTAGTACTCGA-CACAAAG
94619858 GCTTTCCTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.41, C:0.25, G:0.11, T:0.23
Consensus pattern (22 bp):
ACATCTAGTACTCGACACAAAG
Found at i:94624332 original size:14 final size:15
Alignment explanation
Indices: 94624303--94624408 Score: 62
Period size: 14 Copynumber: 7.0 Consensus size: 15
94624293 ATTAGTAAAA
94624303 AAGAATATATACATAAT
1 AAGAATATAT--ATAAT
94624320 AA-AATATATATAA-
1 AAGAATATATATAAT
94624333 AAGAATATATA-AGA-
1 AAGAATATATATA-AT
* *
94624347 AA-AATAAATATTAT
1 AAGAATATATATAAT
*
94624361 AAGGAATGTTATATAAT
1 AA-GAAT-ATATATAAT
*
94624378 AAGATATAGTATGTAAT
1 AAGA-ATA-TATATAAT
*
94624395 AA-AATATAAATAAT
1 AAGAATATATATAAT
94624409 TATAGTGAAA
Statistics
Matches: 71, Mismatches: 9, Indels: 21
0.70 0.09 0.21
Matches are distributed among these distances:
13 11 0.15
14 23 0.32
15 3 0.04
16 13 0.18
17 21 0.30
ACGTcount: A:0.59, C:0.01, G:0.08, T:0.31
Consensus pattern (15 bp):
AAGAATATATATAAT
Found at i:94627509 original size:21 final size:19
Alignment explanation
Indices: 94627483--94627534 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
94627473 CATTTTTCTC
* *
94627483 TTTTTTCCTTTTCTCTCTTT
1 TTTTTTTCTTTTCTAT-TTT
*
94627503 TTTTTTTGATTTTCTATTTT
1 TTTTTTT-CTTTTCTATTTT
*
94627523 TTGTTTTCTTTT
1 TTTTTTTCTTTT
94627535 GATTTTCGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 4 0.15
20 15 0.58
21 7 0.27
ACGTcount: A:0.04, C:0.13, G:0.04, T:0.79
Consensus pattern (19 bp):
TTTTTTTCTTTTCTATTTT
Found at i:94644731 original size:15 final size:14
Alignment explanation
Indices: 94644711--94644751 Score: 52
Period size: 15 Copynumber: 3.1 Consensus size: 14
94644701 TTAACAAAAT
94644711 TAAATGAAAGAGATA
1 TAAATGAAAGAGA-A
94644726 TAAATGAAA-AGAA
1 TAAATGAAAGAGAA
94644739 T-AA-GAAAGAGAA
1 TAAATGAAAGAGAA
94644751 T
1 T
94644752 GCTCATAGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 4 0.16
12 7 0.28
13 2 0.08
14 3 0.12
15 9 0.36
ACGTcount: A:0.63, C:0.00, G:0.20, T:0.17
Consensus pattern (14 bp):
TAAATGAAAGAGAA
Found at i:94645709 original size:28 final size:27
Alignment explanation
Indices: 94645676--94645736 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 27
94645666 TTGAAGAAAG
94645676 AAAAAAAAATTATTTTAAGAAACTCAT
1 AAAAAAAAATTATTTTAAGAAACTCAT
94645703 AAGAAAAAAATTATTTTAAGAAACTCAT
1 AA-AAAAAAATTATTTTAAGAAACTCAT
94645731 AAAAAA
1 AAAAAA
94645737 TGACAAAGTA
Statistics
Matches: 33, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
27 6 0.18
28 27 0.82
ACGTcount: A:0.62, C:0.07, G:0.05, T:0.26
Consensus pattern (27 bp):
AAAAAAAAATTATTTTAAGAAACTCAT
Found at i:94649626 original size:44 final size:45
Alignment explanation
Indices: 94649538--94649639 Score: 136
Period size: 44 Copynumber: 2.3 Consensus size: 45
94649528 CAAATAATAG
* * *
94649538 CATAGTTGAAAGACACTATGGCACTATATCGGAACTGAATAAGAC
1 CATAGTTGAAAGAAACTATAGCACCATATCGGAACTGAATAAGAC
*
94649583 CATAGTTGAAAGAAACTATAG-ACCATATCGGAAAC-GAGTAAGAC
1 CATAGTTGAAAGAAACTATAGCACCATATCGG-AACTGAATAAGAC
*
94649627 CATAGCTGAAAGA
1 CATAGTTGAAAGA
94649640 CGTTATGGCA
Statistics
Matches: 51, Mismatches: 5, Indels: 3
0.86 0.08 0.05
Matches are distributed among these distances:
44 29 0.57
45 22 0.43
ACGTcount: A:0.43, C:0.17, G:0.21, T:0.20
Consensus pattern (45 bp):
CATAGTTGAAAGAAACTATAGCACCATATCGGAACTGAATAAGAC
Found at i:94649681 original size:45 final size:45
Alignment explanation
Indices: 94649615--94649741 Score: 173
Period size: 45 Copynumber: 2.8 Consensus size: 45
94649605 CCATATCGGA
* *
94649615 AACGAGTAAGACCATAGCTGAAAGACGTTATGGCATCACGATTTT
1 AACGAGTAAGACCATAGCTGAAAGAAGTTATGGCATCACGATTCT
* * *
94649660 AACGAGTAAGATCATAACTGAAAGAAGTTATGACATCACGATTCT
1 AACGAGTAAGACCATAGCTGAAAGAAGTTATGGCATCACGATTCT
* * * *
94649705 AACGAGTAAAACCATAGTTGAAAGATGCTATGGCATC
1 AACGAGTAAGACCATAGCTGAAAGAAGTTATGGCATC
94649742 CTTCAACCAT
Statistics
Matches: 70, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
45 70 1.00
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.24
Consensus pattern (45 bp):
AACGAGTAAGACCATAGCTGAAAGAAGTTATGGCATCACGATTCT
Found at i:94653593 original size:41 final size:41
Alignment explanation
Indices: 94653548--94653665 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
94653538 TGAAAGATAA
94653548 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
94653589 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94653619 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94653660 ATGTAG
1 ATGTAG
94653666 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:94653604 original size:71 final size:71
Alignment explanation
Indices: 94653516--94653679 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
94653506 GAGATGTATC
94653516 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94653581 AGGACA
66 AGGACA
94653587 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94653652 AGGACA
66 AGGACA
94653658 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
94653680 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:94659709 original size:41 final size:41
Alignment explanation
Indices: 94659664--94659781 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
94659654 TGAAAGATAA
94659664 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
94659705 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94659735 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94659776 ATGTAG
1 ATGTAG
94659782 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:94659720 original size:71 final size:71
Alignment explanation
Indices: 94659632--94659795 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
94659622 GAGATGTATC
94659632 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94659697 AGGACA
66 AGGACA
94659703 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94659768 AGGACA
66 AGGACA
94659774 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
94659796 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:94660585 original size:21 final size:22
Alignment explanation
Indices: 94660549--94660595 Score: 78
Period size: 21 Copynumber: 2.2 Consensus size: 22
94660539 TTCAGGGAAA
*
94660549 TTTTACGGATTTGAATTTCGAG
1 TTTTACGGATTTGAATTTCAAG
94660571 TTTTACGGA-TTGAATTTCAAG
1 TTTTACGGATTTGAATTTCAAG
94660592 TTTT
1 TTTT
94660596 GTAACCCGAG
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 15 0.62
22 9 0.38
ACGTcount: A:0.23, C:0.09, G:0.19, T:0.49
Consensus pattern (22 bp):
TTTTACGGATTTGAATTTCAAG
Found at i:94666825 original size:41 final size:41
Alignment explanation
Indices: 94666780--94666897 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
94666770 TGAAAGATAA
94666780 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
94666821 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94666851 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
94666892 ATGTAG
1 ATGTAG
94666898 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:94666836 original size:71 final size:71
Alignment explanation
Indices: 94666748--94666911 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
94666738 GAGATGTATC
94666748 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94666813 AGGACA
66 AGGACA
94666819 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
94666884 AGGACA
66 AGGACA
94666890 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
94666912 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:94672069 original size:46 final size:46
Alignment explanation
Indices: 94672019--94672106 Score: 149
Period size: 46 Copynumber: 1.9 Consensus size: 46
94672009 CCAGGGGTCT
*
94672019 TAACCACATGGTTTTACATACATTCTTTCAGTCATTTCATATATTG
1 TAACCACATGGTTTTACATACATTCATTCAGTCATTTCATATATTG
* *
94672065 TAACCACATGTTTTTACATTCATTCATTCAGTCATTTCATAT
1 TAACCACATGGTTTTACATACATTCATTCAGTCATTTCATAT
94672107 CTTGCCATGG
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.28, C:0.20, G:0.07, T:0.44
Consensus pattern (46 bp):
TAACCACATGGTTTTACATACATTCATTCAGTCATTTCATATATTG
Found at i:94672167 original size:54 final size:56
Alignment explanation
Indices: 94672065--94672201 Score: 172
Period size: 54 Copynumber: 2.5 Consensus size: 56
94672055 TCATATATTG
* * *
94672065 TAACCACATGTTTTTACATTCATTCATTCAGTCATTTCATATCTTGCCATGGGCCT
1 TAACCACATGGTCTTACAGTCATTCATTCAGTCATTTCATATCTTGCCATGGGCCT
* * *
94672121 TAACCACATGGTCTTAC-GTCATTCATTTAGTCGTTTC-TATCTTGCCATGGGTCT
1 TAACCACATGGTCTTACAGTCATTCATTCAGTCATTTCATATCTTGCCATGGGCCT
* *
94672175 TAACCACATGTTCTGACA-TACATTCAT
1 TAACCACATGGTCTTACAGT-CATTCAT
94672202 GTATCGTGAT
Statistics
Matches: 71, Mismatches: 8, Indels: 5
0.85 0.10 0.06
Matches are distributed among these distances:
54 32 0.45
55 24 0.34
56 15 0.21
ACGTcount: A:0.23, C:0.25, G:0.12, T:0.39
Consensus pattern (56 bp):
TAACCACATGGTCTTACAGTCATTCATTCAGTCATTTCATATCTTGCCATGGGCCT
Found at i:94673478 original size:20 final size:20
Alignment explanation
Indices: 94673453--94673490 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
94673443 TTTGAACCCT
94673453 TAGACTTCTACCAATACAGG
1 TAGACTTCTACCAATACAGG
*
94673473 TAGACTTCTACCACTACA
1 TAGACTTCTACCAATACA
94673491 TCGAGCTCCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.34, C:0.29, G:0.11, T:0.26
Consensus pattern (20 bp):
TAGACTTCTACCAATACAGG
Found at i:94674880 original size:27 final size:27
Alignment explanation
Indices: 94674847--94674899 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
94674837 ATCATGTTCA
94674847 AAGAATACAGGTAATTAGAATCCCAAT
1 AAGAATACAGGTAATTAGAATCCCAAT
94674874 AAGAATACAGGTAATTAGAATCCCAA
1 AAGAATACAGGTAATTAGAATCCCAA
94674900 GTACTCAATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.49, C:0.15, G:0.15, T:0.21
Consensus pattern (27 bp):
AAGAATACAGGTAATTAGAATCCCAAT
Found at i:94675499 original size:20 final size:21
Alignment explanation
Indices: 94675474--94675512 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
94675464 AAAAATCACT
94675474 AAAAATGAAAAC-AACAAAAC
1 AAAAATGAAAACAAACAAAAC
*
94675494 AAAAATGATAACAAACAAA
1 AAAAATGAAAACAAACAAA
94675513 TTTAAAGTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 11 0.65
21 6 0.35
ACGTcount: A:0.74, C:0.13, G:0.05, T:0.08
Consensus pattern (21 bp):
AAAAATGAAAACAAACAAAAC
Found at i:94675727 original size:104 final size:105
Alignment explanation
Indices: 94675527--94675738 Score: 381
Period size: 104 Copynumber: 2.0 Consensus size: 105
94675517 AAGTTTGTAT
*
94675527 GTTACCCCCACACTTTATTTGTCACATTGTCCCTATTGTGCACCCAACAATAAATAAGAGAAAAG
1 GTTACCCCCACACTTTATTTGTCACATTGTCCCTAATGTGCACCCAACAATAAATAAGAGAAAAG
*
94675592 ACTACTTAATTTTTCATGAAGGTGTCATGATATTAGTTTG
66 ACTACTTAATTTTTCATGAAGGTGTCATGATATTAGTTGG
*
94675632 GTTACCCCTACACTTTATTTGTCACATTGTCCCTAATGTGCACCCAA-AATAAATAAGAGAAAAG
1 GTTACCCCCACACTTTATTTGTCACATTGTCCCTAATGTGCACCCAACAATAAATAAGAGAAAAG
*
94675696 ACTACTTAATTTTTCATGAAGGTGTCGTGATATTAGTTGG
66 ACTACTTAATTTTTCATGAAGGTGTCATGATATTAGTTGG
94675736 GTT
1 GTT
94675739 GTTGTCCTTT
Statistics
Matches: 103, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
104 58 0.56
105 45 0.44
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (105 bp):
GTTACCCCCACACTTTATTTGTCACATTGTCCCTAATGTGCACCCAACAATAAATAAGAGAAAAG
ACTACTTAATTTTTCATGAAGGTGTCATGATATTAGTTGG
Found at i:94681403 original size:36 final size:36
Alignment explanation
Indices: 94681352--94681423 Score: 108
Period size: 36 Copynumber: 2.0 Consensus size: 36
94681342 CAAACATATG
* *
94681352 CATATCGTCCTTTATACAGGCCTAAGGGGCCCAAAA
1 CATATCGTCCCTTATACAGGCCTAAGAGGCCCAAAA
* *
94681388 CATATCGTCCCTTATACGGGCCTACGAGGCCCAAAA
1 CATATCGTCCCTTATACAGGCCTAAGAGGCCCAAAA
94681424 TATACATCGA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.29, C:0.31, G:0.19, T:0.21
Consensus pattern (36 bp):
CATATCGTCCCTTATACAGGCCTAAGAGGCCCAAAA
Found at i:94689870 original size:23 final size:24
Alignment explanation
Indices: 94689826--94689870 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
94689816 CCGGGCTAAA
*
94689826 CAGGAAACTCATAAGAGTTTTAAT
1 CAGGAAACTCATAAGAGCTTTAAT
*
94689850 CAGGAAGCTCAT-AGAGCTTTA
1 CAGGAAACTCATAAGAGCTTTA
94689871 CAGGTAACTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 8 0.42
24 11 0.58
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (24 bp):
CAGGAAACTCATAAGAGCTTTAAT
Found at i:94691657 original size:59 final size:60
Alignment explanation
Indices: 94691561--94691693 Score: 205
Period size: 59 Copynumber: 2.2 Consensus size: 60
94691551 GACAAGATTG
* * *
94691561 GCACTAAGTGTGCGGGTTTAAAAATTGTACAGCACTAAGTGTGCGAACTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
* * *
94691621 GCACTAAGTGTGCGAG-CTGAAAATTATATAGCACTAAGTGTGCGAGCTGAAAATATATA
1 GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
94691680 GCACTAAGTGTGCG
1 GCACTAAGTGTGCG
94691694 GATTCACTAT
Statistics
Matches: 67, Mismatches: 6, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
59 52 0.78
60 15 0.22
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.26
Consensus pattern (60 bp):
GCACTAAGTGTGCGAGTCTAAAAATTATACAGCACTAAGTGTGCGAACTGAAAATATATA
Found at i:94691706 original size:29 final size:29
Alignment explanation
Indices: 94691591--94691693 Score: 188
Period size: 29 Copynumber: 3.5 Consensus size: 29
94691581 AAAATTGTAC
*
94691591 AGCACTAAGTGTGCGAACTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
94691620 AGCACTAAGTGTGCGAGCTGAAAATTATAT
1 AGCACTAAGTGTGCGAGCTGAAAA-TATAT
94691650 AGCACTAAGTGTGCGAGCTGAAAATATAT
1 AGCACTAAGTGTGCGAGCTGAAAATATAT
94691679 AGCACTAAGTGTGCG
1 AGCACTAAGTGTGCG
94691694 GATTCACTAT
Statistics
Matches: 72, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
29 43 0.60
30 29 0.40
ACGTcount: A:0.37, C:0.15, G:0.24, T:0.24
Consensus pattern (29 bp):
AGCACTAAGTGTGCGAGCTGAAAATATAT
Found at i:94697466 original size:46 final size:46
Alignment explanation
Indices: 94697416--94697589 Score: 144
Period size: 46 Copynumber: 3.7 Consensus size: 46
94697406 ACCTCTCGCA
* * *
94697416 GCCGATGCATGTCCCAGACATGTCTTACTCTGGCTTA-T-GTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC--ACTCGTCTCAAG
* * *
94697462 GCCGATGCATGTCCTAAACATGTCTTACACTAGCACTCGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAG
*
94697508 GCCGATGCCATGTCCCAGACATTATCTTACACTAG--CTC-TCAT-AATG
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCACTCGTC-TCAA-G
** *
94697554 TTGTAGATGCATGTTCCAGACATGTCTTACACTAGC
1 --GCCGATGCATGTCCCAGACATGTCTTACACTAGC
94697590 TCACAATAAC
Statistics
Matches: 105, Mismatches: 14, Indels: 17
0.77 0.10 0.12
Matches are distributed among these distances:
44 1 0.01
45 5 0.05
46 59 0.56
47 23 0.22
48 17 0.16
ACGTcount: A:0.24, C:0.28, G:0.18, T:0.30
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCACTCGTCTCAAG
Found at i:94719845 original size:25 final size:24
Alignment explanation
Indices: 94719811--94719863 Score: 79
Period size: 25 Copynumber: 2.2 Consensus size: 24
94719801 TACAAACACA
*
94719811 GCTCTTTATGAGCATCCTGATATAG
1 GCTCTTTATGAGCATCCTGACAT-G
*
94719836 GCTCTTTATGAGCTTCCTGACATG
1 GCTCTTTATGAGCATCCTGACATG
94719860 GCTC
1 GCTC
94719864 ACTTGAACAT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
24 5 0.19
25 21 0.81
ACGTcount: A:0.19, C:0.25, G:0.21, T:0.36
Consensus pattern (24 bp):
GCTCTTTATGAGCATCCTGACATG
Found at i:94729240 original size:71 final size:71
Alignment explanation
Indices: 94729156--94729319 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
94729146 CGATTTGTCT
94729156 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
94729221 CTTTCA
66 CTTTCA
94729227 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
94729292 CTTTCA
66 CTTTCA
94729298 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
94729320 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:94729357 original size:71 final size:70
Alignment explanation
Indices: 94729156--94729353 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
94729146 CGATTTGTCT
* * * *
94729156 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
94729221 CTTTCA
65 CTTTCA
* * * *
94729227 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
94729292 CTTTCA
65 CTTTCA
* *
94729298 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
94729354 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:94736198 original size:71 final size:71
Alignment explanation
Indices: 94736114--94736277 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
94736104 CGATTTGTCT
94736114 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
94736179 CTTTCA
66 CTTTCA
94736185 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
94736250 CTTTCA
66 CTTTCA
94736256 CGTAGCTCTCTTGTCTACATGG
1 CGTAGCTCTCTTGTCTACATGG
94736278 GATACATCTC
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.19, C:0.28, G:0.18, T:0.35
Consensus pattern (71 bp):
CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
CTTTCA
Found at i:94736315 original size:71 final size:70
Alignment explanation
Indices: 94736114--94736311 Score: 258
Period size: 71 Copynumber: 2.8 Consensus size: 70
94736104 CGATTTGTCT
* * * *
94736114 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
94736179 CTTTCA
65 CTTTCA
* * * *
94736185 CGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACGCATGCGACCTAGCTACATTTAT
1 CGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACATTTAT
94736250 CTTTCA
65 CTTTCA
* *
94736256 CGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTAC
1 CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTAC
94736312 TACAGGGTGT
Statistics
Matches: 120, Mismatches: 6, Indels: 5
0.92 0.05 0.04
Matches are distributed among these distances:
68 22 0.18
69 1 0.01
70 1 0.01
71 96 0.80
ACGTcount: A:0.21, C:0.28, G:0.17, T:0.34
Consensus pattern (70 bp):
CGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACATTTATC
TTTCA
Found at i:94741998 original size:40 final size:40
Alignment explanation
Indices: 94741949--94742154 Score: 245
Period size: 40 Copynumber: 5.2 Consensus size: 40
94741939 TCTTCGGAAT
* * *
94741949 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* * ** * *
94741988 TTAACCCGGATTTGGTAACTTGCACAAATGCCTTCGGGTC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
94742028 TTAGCCCGGATATAA-CAACTCGCACGAATGCCTTCGGGTC
1 TTAGCCCGGATATAATC-ACTAGCACAAATGCCTTCGGGTC
* * *
94742068 TTAGCCCAGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
* *
94742108 TTAGCCCGGATATAATCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
94742148 TTAGCCC
1 TTAGCCC
94742155 AGGTATCATT
Statistics
Matches: 142, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
39 3 0.02
40 138 0.97
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAATCACTAGCACAAATGCCTTCGGGTC
Found at i:94752079 original size:24 final size:23
Alignment explanation
Indices: 94752018--94752095 Score: 75
Period size: 24 Copynumber: 3.2 Consensus size: 23
94752008 GACTCACCAT
* *
94752018 AGCTCGCATGAGCTTACCGATATATC
1 AGCTCGTAAGAGCTTACCG-T-T-TC
*
94752044 AGCTCGTAAGAGCTTACTGTTTTC
1 AGCTCGTAAGAGCTTACCG-TTTC
* *
94752068 AGCTTGTTAGAGCTTACCGTTTC
1 AGCTCGTAAGAGCTTACCGTTTC
94752091 AGCTC
1 AGCTC
94752096 AATAGAGCTT
Statistics
Matches: 44, Mismatches: 8, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
23 8 0.18
24 18 0.41
25 1 0.02
26 17 0.39
ACGTcount: A:0.22, C:0.24, G:0.21, T:0.33
Consensus pattern (23 bp):
AGCTCGTAAGAGCTTACCGTTTC
Found at i:94752101 original size:23 final size:24
Alignment explanation
Indices: 94752052--94752106 Score: 67
Period size: 23 Copynumber: 2.3 Consensus size: 24
94752042 TCAGCTCGTA
* ***
94752052 AGAGCTTACTGTTTTCAGCTTGTT
1 AGAGCTTACCGTTTTCAGCTCAAT
94752076 AGAGCTTACCG-TTTCAGCTCAAT
1 AGAGCTTACCGTTTTCAGCTCAAT
94752099 AGAGCTTA
1 AGAGCTTA
94752107 TTGTCTATCA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
23 17 0.63
24 10 0.37
ACGTcount: A:0.24, C:0.20, G:0.20, T:0.36
Consensus pattern (24 bp):
AGAGCTTACCGTTTTCAGCTCAAT
Found at i:94752303 original size:20 final size:20
Alignment explanation
Indices: 94752278--94752363 Score: 95
Period size: 20 Copynumber: 4.4 Consensus size: 20
94752268 AAAATCTATG
94752278 TGTTTATACGGATGAATTAC
1 TGTTTATACGGATGAATTAC
* * *
94752298 TGTTTATATGGATGAAGTAA
1 TGTTTATACGGATGAATTAC
* *
94752318 TGTTTATACAGATGAGTTAC
1 TGTTTATACGGATGAATTAC
* *
94752338 TG-TTAT-CGAATGAATTAT
1 TGTTTATACGGATGAATTAC
94752356 TGTTTATA
1 TGTTTATA
94752364 TGATTGATAG
Statistics
Matches: 52, Mismatches: 12, Indels: 4
0.76 0.18 0.06
Matches are distributed among these distances:
18 10 0.19
19 8 0.15
20 34 0.65
ACGTcount: A:0.31, C:0.06, G:0.20, T:0.43
Consensus pattern (20 bp):
TGTTTATACGGATGAATTAC
Found at i:94754304 original size:25 final size:25
Alignment explanation
Indices: 94754267--94754330 Score: 74
Period size: 25 Copynumber: 2.6 Consensus size: 25
94754257 ACAGATGTGC
* *
94754267 TAATCAGAGAGCACTAACATGCTAA
1 TAATCAAAAAGCACTAACATGCTAA
* **
94754292 TAATCAAAAAGCACTGATGTGCTAA
1 TAATCAAAAAGCACTAACATGCTAA
*
94754317 TAATCAAATAGCAC
1 TAATCAAAAAGCAC
94754331 GCTAAGGTTC
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.45, C:0.19, G:0.14, T:0.22
Consensus pattern (25 bp):
TAATCAAAAAGCACTAACATGCTAA
Found at i:94755805 original size:3 final size:3
Alignment explanation
Indices: 94755797--94755850 Score: 108
Period size: 3 Copynumber: 18.0 Consensus size: 3
94755787 TTTAATTTAT
94755797 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
94755845 ATA ATA
1 ATA ATA
94755851 TCAATGTCAT
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 51 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:94756019 original size:20 final size:18
Alignment explanation
Indices: 94755994--94756030 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 18
94755984 ATAAATTTAT
94755994 TTATTTCATAATATAATATC
1 TTATTT-ATAAT-TAATATC
94756014 TTATTTATAATTAATAT
1 TTATTTATAATTAATAT
94756031 AAATTACAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 6 0.35
19 5 0.29
20 6 0.35
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
TTATTTATAATTAATATC
Found at i:94757219 original size:42 final size:42
Alignment explanation
Indices: 94757170--94757284 Score: 140
Period size: 43 Copynumber: 2.7 Consensus size: 42
94757160 ACTGAGATTA
94757170 CATGTAAGACCATATTTGGGATATGGCATTAATACGAGACTT
1 CATGTAAGACCATATTTGGGATATGGCATTAATACGAGACTT
* * * ** *
94757212 CGTGTAAGACCATAGTTGGGCTATTGGCATCGATACGAGATTT
1 CATGTAAGACCATATTTGGGATA-TGGCATTAATACGAGACTT
* * *
94757255 CATGTAAGACCATATCTAGGATATGCCATT
1 CATGTAAGACCATATTTGGGATATGGCATT
94757285 GTTATGGTAC
Statistics
Matches: 59, Mismatches: 13, Indels: 2
0.80 0.18 0.03
Matches are distributed among these distances:
42 25 0.42
43 34 0.58
ACGTcount: A:0.30, C:0.17, G:0.23, T:0.30
Consensus pattern (42 bp):
CATGTAAGACCATATTTGGGATATGGCATTAATACGAGACTT
Found at i:94758798 original size:41 final size:41
Alignment explanation
Indices: 94758741--94758822 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
94758731 AAGGGCCAAC
94758741 ACATTTAGCTAATCAATATGACACATAATAAAAAGACTAAG
1 ACATTTAGCTAATCAATATGACACATAATAAAAAGACTAAG
94758782 ACATTTAGCTAATCAATATGACACATAATAAAAAGACTAAG
1 ACATTTAGCTAATCAATATGACACATAATAAAAAGACTAAG
94758823 TCCTTATACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.51, C:0.15, G:0.10, T:0.24
Consensus pattern (41 bp):
ACATTTAGCTAATCAATATGACACATAATAAAAAGACTAAG
Found at i:94758807 original size:22 final size:22
Alignment explanation
Indices: 94758739--94758807 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 22
94758729 ACAAGGGCCA
94758739 ACACATTTAGCTAATCAATATG
1 ACACATTTAGCTAATCAATATG
* * * *
94758761 ACACA--TA-ATAA-AAAGACTA
1 ACACATTTAGCTAATCAATA-TG
*
94758780 AGACATTTAGCTAATCAATATG
1 ACACATTTAGCTAATCAATATG
94758802 ACACAT
1 ACACAT
94758808 AATAAAAAGA
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
18 3 0.09
19 8 0.25
20 2 0.06
21 2 0.06
22 14 0.44
23 3 0.09
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (22 bp):
ACACATTTAGCTAATCAATATG
Found at i:94768325 original size:24 final size:24
Alignment explanation
Indices: 94768298--94768436 Score: 251
Period size: 24 Copynumber: 5.8 Consensus size: 24
94768288 CTTATTATGT
* **
94768298 TCGCACCCATAGTGCCATAGCGAA
1 TCGCACACATAGTGCCATAGTAAA
94768322 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
94768346 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
94768370 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
94768394 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
94768418 TCGCACACATAGTGCCATA
1 TCGCACACATAGTGCCATA
94768437 TATTTCCAGC
Statistics
Matches: 112, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 112 1.00
ACGTcount: A:0.35, C:0.27, G:0.17, T:0.20
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Done.