Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D02
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: 67659327
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 461372 characters in sequence are not A, C, G, or T
File 150 of 216
Found at i:47340435 original size:4 final size:4
Alignment explanation
Indices: 47340426--47340459 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
47340416 AAGTTTTATT
47340426 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
47340460 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:47340467 original size:22 final size:22
Alignment explanation
Indices: 47340409--47340468 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
47340399 AAGTGGCCCA
*
47340409 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
47340433 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
47340454 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
47340469 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:47346907 original size:4 final size:4
Alignment explanation
Indices: 47346898--47346931 Score: 50
Period size: 4 Copynumber: 8.0 Consensus size: 4
47346888 AAGTTTTATT
47346898 TTTA TTTA TTTA TTTA TTTA TTTTA TTTA GTTTA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TTTA -TTTA
47346932 AATTTTTATA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 20 0.71
5 8 0.29
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:47346939 original size:22 final size:22
Alignment explanation
Indices: 47346881--47346940 Score: 61
Period size: 22 Copynumber: 2.7 Consensus size: 22
47346871 AAGTGGCCCA
*
47346881 AGTTGTAAAGTTTTATTTTTATTT
1 AGTT-TAAATTTTTA-TTTTATTT
*
47346905 A-TTT-ATTTATTTATTTTATTT
1 AGTTTAAATT-TTTATTTTATTT
47346926 AGTTTAAATTTTTAT
1 AGTTTAAATTTTTAT
47346941 ATTCAGTCCA
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
21 11 0.37
22 13 0.43
23 5 0.17
24 1 0.03
ACGTcount: A:0.27, C:0.00, G:0.07, T:0.67
Consensus pattern (22 bp):
AGTTTAAATTTTTATTTTATTT
Found at i:47350586 original size:11 final size:11
Alignment explanation
Indices: 47350570--47350595 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
47350560 ACAGAGAGAT
47350570 GAAAGAATTAA
1 GAAAGAATTAA
47350581 GAAAGAATTAA
1 GAAAGAATTAA
47350592 GAAA
1 GAAA
47350596 CAAGAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.65, C:0.00, G:0.19, T:0.15
Consensus pattern (11 bp):
GAAAGAATTAA
Found at i:47352002 original size:25 final size:25
Alignment explanation
Indices: 47351974--47352117 Score: 146
Period size: 25 Copynumber: 5.8 Consensus size: 25
47351964 CAGATACTCC
47351974 ATAGCTCGTAAGAGCATACCGATTT
1 ATAGCTCGTAAGAGCATACCGATTT
* * *
47351999 ATAGTTTGTAAGAGCATACCAATTT
1 ATAGCTCGTAAGAGCATACCGATTT
* * *
47352024 ATAACTCTTAAAAGCATACCGATTT
1 ATAGCTCGTAAGAGCATACCGATTT
** *
47352049 ATAGCTCGTAAGAGCATATTGATCT
1 ATAGCTCGTAAGAGCATACCGATTT
* * *
47352074 ATAGCTC-AAATGAGCATGCCGATTC
1 ATAGCTCGTAA-GAGCATACCGATTT
* *
47352099 ATAGCTCATATGAGCATAC
1 ATAGCTCGTAAGAGCATAC
47352118 ACGTACATGA
Statistics
Matches: 93, Mismatches: 24, Indels: 4
0.77 0.20 0.03
Matches are distributed among these distances:
24 2 0.02
25 90 0.97
26 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.30
Consensus pattern (25 bp):
ATAGCTCGTAAGAGCATACCGATTT
Found at i:47352690 original size:129 final size:129
Alignment explanation
Indices: 47352458--47352719 Score: 404
Period size: 129 Copynumber: 2.0 Consensus size: 129
47352448 TTATACTTAC
47352458 CTATTACTTGATTAAATGGTAAGTTAAATTCTAAGTTATACGAACTTACTAAGCTTAAATGCTTC
1 CTATTACTTGATTAAATGGTAAGTTAAATTCTAAGTTATACGAACTTACTAAGCTTAAATGCTTC
** * * *
47352523 TTCTGTGTTATTTCTGTGTTTTATAGTGAACCAAAAGCTTG-TCTGGGTTGGAAGCTTGTCGGAG
66 TTCCATGTTATTTCTGTGTTTTATAGTGAACCAAAAGCTCGTTC-AGGTTAGAAGCTTGTCGGAG
47352587 CTATTACTTGATTAAATGGTAAGTTAAATTCTAAGTTATACGAACTTACTAAGCTTAAATGCTTA
1 CTATTACTTGATTAAATGGTAAGTTAAATTCTAAGTTATACGAACTTACTAAGCTTAAATGCTT-
* * *
47352652 C-TCCATGTTATTT-TCGTGTTTTATAGTGAATCAGAAGCTCGTTCAGGTTAGAAGCTTTTCGGA
65 CTTCCATGTTATTTCT-GTGTTTTATAGTGAACCAAAAGCTCGTTCAGGTTAGAAGCTTGTCGGA
47352715 G
129 G
47352716 CTAT
1 CTAT
47352720 ATCACTCTAT
Statistics
Matches: 122, Mismatches: 8, Indels: 6
0.90 0.06 0.04
Matches are distributed among these distances:
128 1 0.01
129 118 0.97
130 3 0.02
ACGTcount: A:0.28, C:0.14, G:0.19, T:0.39
Consensus pattern (129 bp):
CTATTACTTGATTAAATGGTAAGTTAAATTCTAAGTTATACGAACTTACTAAGCTTAAATGCTTC
TTCCATGTTATTTCTGTGTTTTATAGTGAACCAAAAGCTCGTTCAGGTTAGAAGCTTGTCGGAG
Found at i:47368868 original size:20 final size:20
Alignment explanation
Indices: 47368845--47368989 Score: 82
Period size: 20 Copynumber: 7.2 Consensus size: 20
47368835 GGAGTACAAA
*
47368845 CAGGGGCATGAGAGTGCAAT
1 CAGGGGCACGAGAGTGCAAT
** * *
47368865 CAGGGATACCGA-AGTACGGA-
1 CAGGGGCA-CGAGAGTGC-AAT
**
47368885 CAGGGGCACGAGAGTGTGAT
1 CAGGGGCACGAGAGTGCAAT
* * *
47368905 CAGGGGTACCGA-AGTACAAA
1 CAGGGGCA-CGAGAGTGCAAT
47368925 CAGGGGCACGAGAGTGCAAT
1 CAGGGGCACGAGAGTGCAAT
* * * *
47368945 CAGGGGTACCAAAGTACAAAT
1 CAGGGGCACGAGAGTGC-AAT
**
47368966 -AGGGGCATAAGAGTGCAAT
1 CAGGGGCACGAGAGTGCAAT
47368985 CAGGG
1 CAGGG
47368990 TACAAAAGTA
Statistics
Matches: 91, Mismatches: 26, Indels: 16
0.68 0.20 0.12
Matches are distributed among these distances:
19 11 0.12
20 71 0.78
21 9 0.10
ACGTcount: A:0.34, C:0.17, G:0.37, T:0.12
Consensus pattern (20 bp):
CAGGGGCACGAGAGTGCAAT
Found at i:47368892 original size:40 final size:40
Alignment explanation
Indices: 47368837--47369065 Score: 273
Period size: 40 Copynumber: 5.8 Consensus size: 40
47368827 GGTTTACTGG
* *
47368837 AGTACAAACAGGGGCATGAGAGTGCAATCAGGGATACCGA
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
** **
47368877 AGTACGGACAGGGGCACGAGAGTGTGATCAGGGGTACCGA
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
*
47368917 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCAA
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
* ** **
47368957 AGTACAAATAGGGGCATAAGAGTGCAATCA-GGGTACAAA
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
* * ** *
47368996 AGTACAAATATGGGCACGTCAGTGCAAGCAGGGGTACCGA
1 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
*
47369036 AGTACAAACAGGGGCATGTA-AGTGCAATCA
1 AGTACAAACAGGGGCACG-AGAGTGCAATCA
47369066 TTCAATAATT
Statistics
Matches: 159, Mismatches: 28, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
39 32 0.20
40 127 0.80
ACGTcount: A:0.36, C:0.17, G:0.33, T:0.14
Consensus pattern (40 bp):
AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCGA
Found at i:47369029 original size:79 final size:80
Alignment explanation
Indices: 47368837--47369065 Score: 264
Period size: 79 Copynumber: 2.9 Consensus size: 80
47368827 GGTTTACTGG
* * * ** ** *
47368837 AGTACAAACAGGGGCATGAGAGTGCAATCAGGGATACCGAAGTACGGACAGGGGCACGAGAGTGT
1 AGTACAAACAGGGGCACGACAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCATAAGAGTGC
* **
47368902 GATCAGGGGTACCGA
66 AATCAGGGGTACAAA
* * *
47368917 AGTACAAACAGGGGCACGAGAGTGCAATCAGGGGTACCAAAGTACAAATAGGGGCATAAGAGTGC
1 AGTACAAACAGGGGCACGACAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCATAAGAGTGC
47368982 AATCA-GGGTACAAA
66 AATCAGGGGTACAAA
* * * * *
47368996 AGTACAAATATGGGCACGTCAGTGCAAGCAGGGGTACCGAAGTACAAACAGGGGCATGTA-AGTG
1 AGTACAAACAGGGGCACGACAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCAT-AAGAGTG
47369060 CAATCA
65 CAATCA
47369066 TTCAATAATT
Statistics
Matches: 128, Mismatches: 20, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
79 67 0.52
80 61 0.48
ACGTcount: A:0.36, C:0.17, G:0.33, T:0.14
Consensus pattern (80 bp):
AGTACAAACAGGGGCACGACAGTGCAATCAGGGGTACCGAAGTACAAACAGGGGCATAAGAGTGC
AATCAGGGGTACAAA
Found at i:47369049 original size:20 final size:20
Alignment explanation
Indices: 47368905--47369049 Score: 75
Period size: 20 Copynumber: 7.3 Consensus size: 20
47368895 AGAGTGTGAT
47368905 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * *
47368925 CAGGGGCA-CGAGAGTGCAAT
1 CAGGGGTACCGA-AGTACAAA
*
47368945 CAGGGGTACCAAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * *
47368965 TAGGGGCATA-AG-AGTGCAAT
1 CAGGGG--TACCGAAGTACAAA
**
47368985 CA-GGGTACAAAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
* * * * * *
47369004 TATGGGCA-CGTCAGTGCAAG
1 CAGGGGTACCG-AAGTACAAA
47369024 CAGGGGTACCGAAGTACAAA
1 CAGGGGTACCGAAGTACAAA
47369044 CAGGGG
1 CAGGGG
47369050 CATGTAAGTG
Statistics
Matches: 87, Mismatches: 29, Indels: 18
0.65 0.22 0.13
Matches are distributed among these distances:
17 2 0.02
18 1 0.01
19 13 0.15
20 65 0.75
21 4 0.05
22 2 0.02
ACGTcount: A:0.37, C:0.18, G:0.32, T:0.12
Consensus pattern (20 bp):
CAGGGGTACCGAAGTACAAA
Found at i:47374718 original size:40 final size:40
Alignment explanation
Indices: 47374663--47374801 Score: 134
Period size: 40 Copynumber: 3.5 Consensus size: 40
47374653 AGATGAAGAA
47374663 GTGCCCCTGTTTGTACTTCAATACCCCTGAATGCACATCT
1 GTGCCCCTGTTTGTACTTCAATACCCCTGAATGCACATCT
* * * *
47374703 GTGCCGCTGTTTGTACTTCAGTACCCTTGAATGCACATTT
1 GTGCCCCTGTTTGTACTTCAATACCCCTGAATGCACATCT
* * * * * * ** *
47374743 ATGTCCCTATTTGCACTACAGTGTCCCTGAATGCACATTT
1 GTGCCCCTGTTTGTACTTCAATACCCCTGAATGCACATCT
* * *
47374783 GTTCCCCTGATTGCACTTC
1 GTGCCCCTGTTTGTACTTC
47374802 GGTCCCCCTA
Statistics
Matches: 80, Mismatches: 19, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
40 80 1.00
ACGTcount: A:0.19, C:0.29, G:0.17, T:0.35
Consensus pattern (40 bp):
GTGCCCCTGTTTGTACTTCAATACCCCTGAATGCACATCT
Found at i:47374809 original size:20 final size:20
Alignment explanation
Indices: 47374786--47374870 Score: 73
Period size: 20 Copynumber: 4.2 Consensus size: 20
47374776 CACATTTGTT
*
47374786 CCCCTGATTGCACTTCGGTC
1 CCCCTGATTGCACTTCGGTG
* * *
47374806 CCCCTAATTGCACTTTGGTA
1 CCCCTGATTGCACTTCGGTG
* **
47374826 CCCTTGATCACACATTC-GTG
1 CCCCTGATTGCAC-TTCGGTG
* *
47374846 CTCCTGATTGCACTTTGGTG
1 CCCCTGATTGCACTTCGGTG
47374866 CCCCT
1 CCCCT
47374871 ATTATGCATC
Statistics
Matches: 48, Mismatches: 15, Indels: 4
0.72 0.22 0.06
Matches are distributed among these distances:
19 2 0.04
20 44 0.92
21 2 0.04
ACGTcount: A:0.14, C:0.35, G:0.18, T:0.33
Consensus pattern (20 bp):
CCCCTGATTGCACTTCGGTG
Found at i:47384765 original size:21 final size:23
Alignment explanation
Indices: 47384721--47384767 Score: 62
Period size: 24 Copynumber: 2.1 Consensus size: 23
47384711 AAAAGTTTAA
47384721 TCATCCTCCTCATCATCCATCTCT
1 TCATCCTCCTCATCATCCA-CTCT
*
47384745 TCATCCTCGTCATCA-CC-CTCT
1 TCATCCTCCTCATCATCCACTCT
47384766 TC
1 TC
47384768 TTCTCCTTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 6 0.27
23 2 0.09
24 14 0.64
ACGTcount: A:0.15, C:0.47, G:0.02, T:0.36
Consensus pattern (23 bp):
TCATCCTCCTCATCATCCACTCT
Found at i:47393557 original size:25 final size:25
Alignment explanation
Indices: 47393505--47393578 Score: 80
Period size: 25 Copynumber: 3.0 Consensus size: 25
47393495 GTCATTAGGG
* ** *
47393505 TTACCGAT-TTCAACTTTTATGAGA
1 TTACCGATATTCAGCTCGTATGAGC
47393529 TTACCGATACTT-AGCTCGTATGAGC
1 TTACCGATA-TTCAGCTCGTATGAGC
*
47393554 TTACCGTTATTCAGCTCGTATGAGC
1 TTACCGATATTCAGCTCGTATGAGC
47393579 ATACATGTAC
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
24 10 0.24
25 30 0.71
26 2 0.05
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (25 bp):
TTACCGATATTCAGCTCGTATGAGC
Found at i:47395552 original size:80 final size:80
Alignment explanation
Indices: 47395439--47395618 Score: 210
Period size: 80 Copynumber: 2.3 Consensus size: 80
47395429 CTCATTCAAT
* * *
47395439 GCCTTC-GGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
47395501 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
47395517 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
47395581 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
47395598 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
47395619 CAGCATTCAA
Statistics
Matches: 88, Mismatches: 7, Indels: 11
0.83 0.07 0.10
Matches are distributed among these distances:
79 13 0.15
80 64 0.73
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:47395578 original size:40 final size:40
Alignment explanation
Indices: 47395436--47395618 Score: 187
Period size: 40 Copynumber: 4.6 Consensus size: 40
47395426 TAACTCATTC
* *
47395436 AATGCCTTC-GGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
47395475 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
47395515 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
47395555 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
47395596 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
47395619 CAGCATTCAA
Statistics
Matches: 121, Mismatches: 16, Indels: 12
0.81 0.11 0.08
Matches are distributed among these distances:
39 17 0.14
40 93 0.77
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:47399531 original size:80 final size:80
Alignment explanation
Indices: 47399420--47399600 Score: 219
Period size: 80 Copynumber: 2.3 Consensus size: 80
47399410 CTCATTCAAT
* * *
47399420 GCCTTCGGGACTTAACCCGGATTTTAAAACTCGCACGAATGCCTTCGGGA-CTTAACCCGGA-AT
1 GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTC-GGATCTTAACCCGGATA-
*
47399483 TAGT-A-TCTCGCACAAA
64 TAGTCACT-TAGCACAAA
**
47399499 GGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACAAATACCTTCGGATCTTAGTCCGGATA
1 -GCCTTCGGGACTTAACCCGGATATTAA-AACTCGCACAAATACCTTCGGATCTTAACCCGGATA
47399563 TAGTCACTTAGCACAAA
64 TAGTCACTTAGCACAAA
*
47399580 GCCTTCGGGACTTAGCCCGGA
1 GCCTTCGGGACTTAACCCGGA
47399601 CAGCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
79 7 0.08
80 71 0.80
81 10 0.11
82 1 0.01
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.24
Consensus pattern (80 bp):
GCCTTCGGGACTTAACCCGGATATTAAAACTCGCACAAATACCTTCGGATCTTAACCCGGATATA
GTCACTTAGCACAAA
Found at i:47399560 original size:40 final size:40
Alignment explanation
Indices: 47399417--47399600 Score: 196
Period size: 40 Copynumber: 4.6 Consensus size: 40
47399407 TAACTCATTC
* *
47399417 AATGCCTTCGGGACTTAACCCGGATTTTAA-AACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGA-ATTAATAACTCGCACA
* *
47399457 AATGCCTTCGGGACTTAACCCGGAATTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
*
47399497 AAGGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
1 AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
* ** * * *
47399537 AATACCTTC-GGATCTTAGTCCGG-ATATAGTCACTTAGCACA
1 AATGCCTTCGGGA-CTTAACCCGGAAT-TAATAAC-TCGCACA
*
47399578 AA-GCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
47399601 CAGCATTCAA
Statistics
Matches: 122, Mismatches: 16, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
39 8 0.07
40 103 0.84
41 11 0.09
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGAATTAATAACTCGCACA
Found at i:47400629 original size:14 final size:14
Alignment explanation
Indices: 47400610--47400636 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
47400600 AGGATGAGCA
47400610 TTTTTTTTTCTTTG
1 TTTTTTTTTCTTTG
47400624 TTTTTTTTTCTTT
1 TTTTTTTTTCTTT
47400637 CTAGTTTCGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.07, G:0.04, T:0.89
Consensus pattern (14 bp):
TTTTTTTTTCTTTG
Found at i:47403721 original size:49 final size:47
Alignment explanation
Indices: 47403619--47403948 Score: 290
Period size: 49 Copynumber: 6.8 Consensus size: 47
47403609 AAAAAAAAAC
* * **
47403619 AAAAAAAAATTTAGGTGCTGCCCTGTCAATGGCCGGCATGAGAATACG
1 AAAAAAAAATTTGGGTGTTG-CCTGTCAATGGCCGGCACCAGAATACG
* *
47403667 AAAAAAAAAATTTGGGGTGTTGCCTTGTCAATGGCTGGCACCAGTATACG
1 -AAAAAAAAATTT-GGGTGTTGCC-TGTCAATGGCCGGCACCAGAATACG
* * * *
47403717 AAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCACCAGTAC-
1 AAAAAAAAATTTGGGTG-TTGCCTGTCAATGGCCGGCACCA-GAATACG
* * *
47403765 -AAAAAAATTTTGGGTACTGGCCTGTCAATGGCCGGCACCAGCAATACG
1 AAAAAAAAATTTGGGT-GTTGCCTGTCAATGGCCGGCACCAG-AATACG
* * *
47403813 AAAAAAAAAATTTGTGTGCTGGCTTGTCAATGGCCGGCACCA-ACAGTACG
1 -AAAAAAAAATTTGGGTG-TTGCCTGTCAATGGCCGGCACCAGA-A-TACG
** * *
47403863 AAAAAAATTTTTGGGTGCTAGCCTGTCAATGGCCGGCACCAGTATACG
1 AAAAAAAAATTTGGGTG-TTGCCTGTCAATGGCCGGCACCAGAATACG
* * *
47403911 AAAAAAAATTTTAGGTGCTAGCCT-TCTAATGGCCGGCA
1 AAAAAAAAATTTGGGTG-TTGCCTGTC-AATGGCCGGCA
47403949 TCAAACTTTA
Statistics
Matches: 238, Mismatches: 29, Indels: 29
0.80 0.10 0.10
Matches are distributed among these distances:
47 42 0.18
48 59 0.25
49 71 0.30
50 66 0.28
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (47 bp):
AAAAAAAAATTTGGGTGTTGCCTGTCAATGGCCGGCACCAGAATACG
Found at i:47403929 original size:97 final size:96
Alignment explanation
Indices: 47403619--47403948 Score: 393
Period size: 97 Copynumber: 3.4 Consensus size: 96
47403609 AAAAAAAAAC
* ** *
47403619 AAAAAAAAATTTAGGTGCTGCCCTGTCAATGGCCGGCATGAGA-A-TACGAAAAAAAAAATTTGG
1 AAAAAAAAATTTAGGTGCTGGCCTGTCAATGGCCGGCACCA-ACAGTACG---AAAAAAATTTTG
* *
47403682 GGTG-TTGCCTTGTCAATGGCTGGCACCAGTATACG
62 GGTGCTAGCC-TGTCAATGGCCGGCACCAGTATACG
* * * *
47403717 AAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCACCAGTAC-AAAAAAATTTTGGGTA
1 AAAAAAAAATTTAGGTGCTGGCCTGTCAATGGCCGGCACCAACAGTACGAAAAAAATTTTGGGTG
* *
47403781 CTGGCCTGTCAATGGCCGGCACCAGCAATACG
66 CTAGCCTGTCAATGGCCGGCACCAG-TATACG
*
47403813 AAAAAAAAAATTT-GTGTGCTGGCTTGTCAATGGCCGGCACCAACAGTACGAAAAAAATTTTTGG
1 -AAAAAAAAATTTAG-GTGCTGGCCTGTCAATGGCCGGCACCAACAGTACGAAAAAAA-TTTTGG
47403877 GTGCTAGCCTGTCAATGGCCGGCACCAGTATACG
63 GTGCTAGCCTGTCAATGGCCGGCACCAGTATACG
* *
47403911 AAAAAAAATTTTAGGTGCTAGCCT-TCTAATGGCCGGCA
1 AAAAAAAAATTTAGGTGCTGGCCTGTC-AATGGCCGGCA
47403949 TCAAACTTTA
Statistics
Matches: 202, Mismatches: 20, Indels: 21
0.83 0.08 0.09
Matches are distributed among these distances:
95 32 0.16
96 12 0.06
97 73 0.36
98 50 0.25
99 35 0.17
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (96 bp):
AAAAAAAAATTTAGGTGCTGGCCTGTCAATGGCCGGCACCAACAGTACGAAAAAAATTTTGGGTG
CTAGCCTGTCAATGGCCGGCACCAGTATACG
Found at i:47403930 original size:48 final size:48
Alignment explanation
Indices: 47403619--47403948 Score: 346
Period size: 50 Copynumber: 6.8 Consensus size: 48
47403609 AAAAAAAAAC
* * * **
47403619 AAAAAAAAATTTAGGTGCTGCCCTGTCAATGGCCGGCATGAGAATACG
1 AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGAATACG
* * * *
47403667 AAAAAAAAAATTTGGGGTG-TTGCCTTGTCAATGGCTGGCACCAGTATACG
1 --AAAAAAAATTTTGGGTGCTGGCC-TGTCAATGGCCGGCACCAGAATACG
* * * *
47403717 AAAAAAAAATTTGGGTGCTGGCCTATCAATGGCCGGCACCACCAGTAC-
1 AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCA-GAATACG
*
47403765 -AAAAAAATTTTGGGTACTGGCCTGTCAATGGCCGGCACCAGCAATACG
1 AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAG-AATACG
* * *
47403813 AAAAAAAAAATTTGTGTGCTGGCTTGTCAATGGCCGGCACCA-ACAGTACG
1 -AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGA-A-TACG
* * *
47403863 AAAAAAATTTTTGGGTGCTAGCCTGTCAATGGCCGGCACCAGTATACG
1 AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGAATACG
* *
47403911 AAAAAAAATTTTAGGTGCTAGCCT-TCTAATGGCCGGCA
1 AAAAAAAATTTTGGGTGCTGGCCTGTC-AATGGCCGGCA
47403949 TCAAACTTTA
Statistics
Matches: 235, Mismatches: 34, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
47 43 0.18
48 69 0.29
49 48 0.20
50 75 0.32
ACGTcount: A:0.33, C:0.20, G:0.24, T:0.23
Consensus pattern (48 bp):
AAAAAAAATTTTGGGTGCTGGCCTGTCAATGGCCGGCACCAGAATACG
Found at i:47407731 original size:5 final size:5
Alignment explanation
Indices: 47407723--47407793 Score: 52
Period size: 5 Copynumber: 13.2 Consensus size: 5
47407713 TTTTTTCAGG
* * *
47407723 TCATT TCATT TTATTT TTATT TCATT TCATT CTAATT TCATT TCCATT
1 TCATT TCATT TCA-TT TCATT TCATT TCATT -TCATT TCATT T-CATT
* *
47407771 ACCATT TCCCTT TCATT TCATT T
1 -TCATT T-CATT TCATT TCATT T
47407794 AAAATATATT
Statistics
Matches: 53, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
5 32 0.60
6 21 0.40
ACGTcount: A:0.20, C:0.21, G:0.00, T:0.59
Consensus pattern (5 bp):
TCATT
Found at i:47407739 original size:21 final size:21
Alignment explanation
Indices: 47407710--47407762 Score: 52
Period size: 21 Copynumber: 2.5 Consensus size: 21
47407700 TTTCAACCCT
*
47407710 TTTTTTTTTCAGGTCATTTCA
1 TTTTATTTTCAGGTCATTTCA
* **
47407731 TTTTATTTTTATTTCATTTCA
1 TTTTATTTTCAGGTCATTTCA
* *
47407752 TTCTAATTTCA
1 TTTTATTTTCA
47407763 TTTCCATTAC
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.19, C:0.13, G:0.04, T:0.64
Consensus pattern (21 bp):
TTTTATTTTCAGGTCATTTCA
Found at i:47407744 original size:16 final size:16
Alignment explanation
Indices: 47407725--47407766 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
47407715 TTTTCAGGTC
* * *
47407725 ATTTCATTTTATTTTT
1 ATTTCATTTCATTCTA
47407741 ATTTCATTTCATTCTA
1 ATTTCATTTCATTCTA
47407757 ATTTCATTTC
1 ATTTCATTTC
47407767 CATTACCATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.21, C:0.14, G:0.00, T:0.64
Consensus pattern (16 bp):
ATTTCATTTCATTCTA
Found at i:47407765 original size:21 final size:21
Alignment explanation
Indices: 47407723--47407766 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
47407713 TTTTTTCAGG
* * *
47407723 TCATTTCATTTTATTTTTATT
1 TCATTTCATTCTAATTTCATT
47407744 TCATTTCATTCTAATTTCATT
1 TCATTTCATTCTAATTTCATT
47407765 TC
1 TC
47407767 CATTACCATT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.20, C:0.16, G:0.00, T:0.64
Consensus pattern (21 bp):
TCATTTCATTCTAATTTCATT
Found at i:47407824 original size:21 final size:21
Alignment explanation
Indices: 47407800--47407864 Score: 64
Period size: 21 Copynumber: 3.1 Consensus size: 21
47407790 ATTTAAAATA
47407800 TATTTTTTTTCAATTTCAATT
1 TATTTTTTTTCAATTTCAATT
*
47407821 TATTTTTTCTCAA-TTC-ATT
1 TATTTTTTTTCAATTTCAATT
*
47407840 TATATTATGTTTT-AATTTAAATT
1 TAT-TT-T-TTTTCAATTTCAATT
47407863 TA
1 TA
47407865 ACTTTTTCTG
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
19 6 0.17
20 5 0.14
21 15 0.42
22 5 0.14
23 5 0.14
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.63
Consensus pattern (21 bp):
TATTTTTTTTCAATTTCAATT
Found at i:47407845 original size:42 final size:43
Alignment explanation
Indices: 47407798--47407891 Score: 111
Period size: 42 Copynumber: 2.2 Consensus size: 43
47407788 TCATTTAAAA
* *
47407798 TATATTTTTTTTCAATTTCAATTT-ATTTTTTCT-CAATTCATT
1 TATATTTTTTTT-AATTTAAATTTAACTTTTTCTGCAATTCATT
* *
47407840 TATATTATGTTTTAATTTAAATTTAACTTTTTCTGCATTTCATT
1 TATATT-TTTTTTAATTTAAATTTAACTTTTTCTGCAATTCATT
*
47407884 TAAATTTT
1 TATATTTT
47407892 CTATTTTCAA
Statistics
Matches: 43, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
42 16 0.37
43 14 0.33
44 13 0.30
ACGTcount: A:0.27, C:0.10, G:0.02, T:0.62
Consensus pattern (43 bp):
TATATTTTTTTTAATTTAAATTTAACTTTTTCTGCAATTCATT
Found at i:47417836 original size:12 final size:12
Alignment explanation
Indices: 47417819--47417843 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47417809 TTCATAGCTC
47417819 AAGTTTCAAATT
1 AAGTTTCAAATT
47417831 AAGTTTCAAATT
1 AAGTTTCAAATT
47417843 A
1 A
47417844 TCTACATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (12 bp):
AAGTTTCAAATT
Found at i:47417882 original size:18 final size:18
Alignment explanation
Indices: 47417859--47417893 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47417849 ATATATGATC
47417859 GTATGAAT-TGTGATGTAA
1 GTATGAATATGT-ATGTAA
47417877 GTATGAATATGTATGTA
1 GTATGAATATGTATGTA
47417894 TTGACCCTGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 13 0.81
19 3 0.19
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (18 bp):
GTATGAATATGTATGTAA
Found at i:47421307 original size:18 final size:18
Alignment explanation
Indices: 47421284--47421319 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
47421274 CTATTGTGAA
47421284 AGATTATGCAAATTGGAC
1 AGATTATGCAAATTGGAC
47421302 AGATTATGCAAATTGGAC
1 AGATTATGCAAATTGGAC
47421320 TTACGAGCCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.11, G:0.22, T:0.28
Consensus pattern (18 bp):
AGATTATGCAAATTGGAC
Found at i:47422183 original size:243 final size:243
Alignment explanation
Indices: 47421752--47422239 Score: 940
Period size: 243 Copynumber: 2.0 Consensus size: 243
47421742 AATTATCCTT
*
47421752 TGAATTCAAAGTATATATGAGTATTTATATGGATTTCATAACTGGTTTGATATGCACTTAGGTAT
1 TGAATTCAAAGTATATATGAGTATATATATGGATTTCATAACTGGTTTGATATGCACTTAGGTAT
47421817 TTAAGTATAATTGGCATGGCAAATTGAATATACATGCTTAAAATTGAGGTGATTATGCTTGATGG
66 TTAAGTATAATTGGCATGGCAAATTGAATATACATGCTTAAAATTGAGGTGATTATGCTTGATGG
47421882 TAGAATTAAATGTGTTGTGGCCTTAGTTGATAAAGTGAATAGATTGTTGTTGTGTCATGAATGAT
131 TAGAATTAAATGTGTTGTGGCCTTAGTTGATAAAGTGAATAGATTGTTGTTGTGTCATGAATGAT
*
47421947 AGATTAAACATTGGACTAGGGTTGAATGAAGGATTTGAGTGATTTTAC
196 AGATTAAACATTGGACTAGGGTTGAATGAAGGATTTGAGTGATTGTAC
*
47421995 TGAATTCAAAGTATATATGAGTATATATATGGATTTCATAATTGGTTTGATATGCACTTAGGTAT
1 TGAATTCAAAGTATATATGAGTATATATATGGATTTCATAACTGGTTTGATATGCACTTAGGTAT
47422060 TTAAGTATAATTGGCATGGCAAATTGAATATACATGCTTAAAATTGAGGTGATTATGCTTGATGG
66 TTAAGTATAATTGGCATGGCAAATTGAATATACATGCTTAAAATTGAGGTGATTATGCTTGATGG
*
47422125 TAGAATTAAATGTGTTGTGGCCTTAGTTGATAAAGTGAATAGATTGTTGTTTTGTCATGAATGAT
131 TAGAATTAAATGTGTTGTGGCCTTAGTTGATAAAGTGAATAGATTGTTGTTGTGTCATGAATGAT
47422190 AGATTAAACATTGGACTAGGGTTGAATGAAGGATTTGAGTGATTGTAC
196 AGATTAAACATTGGACTAGGGTTGAATGAAGGATTTGAGTGATTGTAC
47422238 TG
1 TG
47422240 TTGTTATATG
Statistics
Matches: 241, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
243 241 1.00
ACGTcount: A:0.32, C:0.06, G:0.24, T:0.38
Consensus pattern (243 bp):
TGAATTCAAAGTATATATGAGTATATATATGGATTTCATAACTGGTTTGATATGCACTTAGGTAT
TTAAGTATAATTGGCATGGCAAATTGAATATACATGCTTAAAATTGAGGTGATTATGCTTGATGG
TAGAATTAAATGTGTTGTGGCCTTAGTTGATAAAGTGAATAGATTGTTGTTGTGTCATGAATGAT
AGATTAAACATTGGACTAGGGTTGAATGAAGGATTTGAGTGATTGTAC
Found at i:47424388 original size:4 final size:4
Alignment explanation
Indices: 47424379--47424430 Score: 54
Period size: 4 Copynumber: 12.8 Consensus size: 4
47424369 TGCAATTTGG
*
47424379 TTTA TTTA TTT- TTATT TTTA TTTA TTTA TCTTA TATTA TTTA -TTA TTTA
1 TTTA TTTA TTTA TT-TA TTTA TTTA TTTA T-TTA T-TTA TTTA TTTA TTTA
47424428 TTT
1 TTT
47424431 TTTGTGACTT
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
3 5 0.12
4 27 0.64
5 10 0.24
ACGTcount: A:0.23, C:0.02, G:0.00, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:47424392 original size:10 final size:10
Alignment explanation
Indices: 47424379--47424432 Score: 58
Period size: 10 Copynumber: 5.3 Consensus size: 10
47424369 TGCAATTTGG
47424379 TTTATTTATT
1 TTTATTTATT
47424389 TTTATTT-TT
1 TTTATTTATT
47424398 ATTTATTTA-T
1 -TTTATTTATT
*
47424408 CTTATATTATT
1 TTTAT-TTATT
47424419 TATTATTTATT
1 T-TTATTTATT
47424430 TTT
1 TTT
47424433 TGTGACTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
9 6 0.16
10 20 0.54
11 7 0.19
12 4 0.11
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (10 bp):
TTTATTTATT
Found at i:47424424 original size:7 final size:7
Alignment explanation
Indices: 47424380--47424429 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
47424370 GCAATTTGGT
47424380 TTATTTA
1 TTATTTA
47424387 TT-TTTA
1 TTATTTA
47424393 TT-TTTA
1 TTATTTA
47424399 TTTATTTA
1 -TTATTTA
*
47424407 TCT-TATA
1 T-TATTTA
47424414 TTATTTA
1 TTATTTA
47424421 TTATTTA
1 TTATTTA
47424428 TT
1 TT
47424430 TTTTGTGACT
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
6 11 0.30
7 21 0.57
8 5 0.14
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.74
Consensus pattern (7 bp):
TTATTTA
Found at i:47433138 original size:14 final size:15
Alignment explanation
Indices: 47433119--47433148 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47433109 TAAATTGAAA
47433119 TTTTA-TTTTTATTT
1 TTTTATTTTTTATTT
47433133 TTTTATTTTTTATTT
1 TTTTATTTTTTATTT
47433148 T
1 T
47433149 CAATCCTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 5 0.33
15 10 0.67
ACGTcount: A:0.13, C:0.00, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTATTTTTTATTT
Found at i:47436594 original size:153 final size:154
Alignment explanation
Indices: 47436316--47436627 Score: 477
Period size: 153 Copynumber: 2.0 Consensus size: 154
47436306 GGTTATATGC
* * *
47436316 ACAATAAAATATTGTATAGTTAGCTTCAAGGCCTATTTTGATTTTTCCATATATTGTTGGCTAAT
1 ACAATAAAATATTGTATAGTCAGCTTCAAGGCCTATTTAGATTTTTCCATATATTGTAGGCTAAT
* * *
47436381 AAAGCTAAGTATCAGATAAAGTTCCATTTAGGGGGAATTAACAGATTGCAATTAGAACCAATA-T
66 AAAGCCAAGTATCAGATAAAGTTCCATTTAAGGGGAATAAACAGATTGCAATTAGAACCAATACT
* *
47436445 CTATGTCTATCAAAAATTTGCAAA
131 CTATGTCCATCAAAAAATTGCAAA
*
47436469 ACAATAAAATATTGTATTGTCAGCTTCAAGGCCTATTTAGATTTTTCCATATATTGTAGGCTAAT
1 ACAATAAAATATTGTATAGTCAGCTTCAAGGCCTATTTAGATTTTTCCATATATTGTAGGCTAAT
*
47436534 AAAGCCAAGTATCGGATCAAA-TTCCA-TTAAGGGGAATAAAACAGATTGCAATTAGAACCAATA
66 AAAGCCAAGTATCAGAT-AAAGTTCCATTTAAGGGGAAT-AAACAGATTGCAATTAGAACCAATA
*
47436597 TCTCTATGTCCATCAAAAAATTGCAAT
129 -CTCTATGTCCATCAAAAAATTGCAAA
47436624 ACAA
1 ACAA
47436628 CTTGTATAAT
Statistics
Matches: 144, Mismatches: 11, Indels: 6
0.89 0.07 0.04
Matches are distributed among these distances:
152 10 0.07
153 105 0.73
154 3 0.02
155 26 0.18
ACGTcount: A:0.38, C:0.15, G:0.14, T:0.32
Consensus pattern (154 bp):
ACAATAAAATATTGTATAGTCAGCTTCAAGGCCTATTTAGATTTTTCCATATATTGTAGGCTAAT
AAAGCCAAGTATCAGATAAAGTTCCATTTAAGGGGAATAAACAGATTGCAATTAGAACCAATACT
CTATGTCCATCAAAAAATTGCAAA
Found at i:47439353 original size:17 final size:17
Alignment explanation
Indices: 47439331--47439365 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
47439321 ATCTACAAAT
47439331 CAAATCTTCTAAGATTA
1 CAAATCTTCTAAGATTA
*
47439348 CAAATCTTCTTAGATTA
1 CAAATCTTCTAAGATTA
47439365 C
1 C
47439366 TTCTCATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (17 bp):
CAAATCTTCTAAGATTA
Found at i:47442681 original size:26 final size:26
Alignment explanation
Indices: 47442651--47442732 Score: 84
Period size: 26 Copynumber: 3.2 Consensus size: 26
47442641 GATAGCTCGC
47442651 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
*
47442677 ATGTGTA-T-CGGATAGTG-ATGG-TCAC-
1 ATGTGTAGTAC-TAT-GTGCA-GGCT-ACT
47442702 ATGTGTAGTACTATGTGCAGGCTACT
1 ATGTGTAGTACTATGTGCAGGCTACT
47442728 ATGTG
1 ATGTG
47442733 AACCGGTATC
Statistics
Matches: 45, Mismatches: 2, Indels: 18
0.69 0.03 0.28
Matches are distributed among these distances:
24 1 0.02
25 19 0.42
26 24 0.53
27 1 0.02
ACGTcount: A:0.23, C:0.13, G:0.29, T:0.34
Consensus pattern (26 bp):
ATGTGTAGTACTATGTGCAGGCTACT
Found at i:47442722 original size:51 final size:50
Alignment explanation
Indices: 47442588--47442732 Score: 202
Period size: 50 Copynumber: 2.9 Consensus size: 50
47442578 GTGAAAGTGA
* * *
47442588 AAGTGATGGTCACGTGTGTAATATTATGTGCAGGCTACTATGTGTACCAG
1 AAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAG
* * * *
47442638 AA-TGATAGCTCGCATGTGTAGTACTATGTGCAGGCTACTATGTGTATCGG
1 AAGTGAT-GGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAG
47442688 ATAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
1 A-AGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
47442733 AACCGGTATC
Statistics
Matches: 83, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
49 4 0.05
50 39 0.47
51 36 0.43
52 4 0.05
ACGTcount: A:0.25, C:0.14, G:0.28, T:0.32
Consensus pattern (50 bp):
AAGTGATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCAG
Found at i:47442977 original size:16 final size:16
Alignment explanation
Indices: 47442956--47442987 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47442946 TGATTGAAAG
*
47442956 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
47442972 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
47442988 GCAACAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:47445768 original size:47 final size:48
Alignment explanation
Indices: 47445697--47445789 Score: 125
Period size: 47 Copynumber: 2.0 Consensus size: 48
47445687 CATGGAAACA
* * *
47445697 TGTGATATGTGATTTCCGTATAAGACCATATCTGGGATATGGCATCGG
1 TGTGATATGTGATTACCGTATAAGACCATAGCTAGGATATGGCATCGG
* * *
47445745 TGTGATATGTGA-TACTGTGTAAGACCATAGCTAGGCTATGGCATC
1 TGTGATATGTGATTACCGTATAAGACCATAGCTAGGATATGGCATC
47445790 AATATGTAAA
Statistics
Matches: 39, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
47 27 0.69
48 12 0.31
ACGTcount: A:0.26, C:0.15, G:0.27, T:0.32
Consensus pattern (48 bp):
TGTGATATGTGATTACCGTATAAGACCATAGCTAGGATATGGCATCGG
Found at i:47449011 original size:16 final size:16
Alignment explanation
Indices: 47448990--47449021 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
47448980 TGATTGAAAG
*
47448990 TGAAAAAGTGAAATTA
1 TGAAAAAGTAAAATTA
47449006 TGAAAAAGTAAAATTA
1 TGAAAAAGTAAAATTA
47449022 GCAGCAAAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.16, T:0.25
Consensus pattern (16 bp):
TGAAAAAGTAAAATTA
Found at i:47459869 original size:25 final size:25
Alignment explanation
Indices: 47459762--47459871 Score: 71
Period size: 25 Copynumber: 4.2 Consensus size: 25
47459752 TGTTTTGCTA
* * *
47459762 TGTTCTGTTCTGTTCTA-TTCAGTAT
1 TGTTCTGCTCTGTTCTATTTTACT-T
* * *
47459787 TGTTCTGCACTGTTCCATTTT-GTT
1 TGTTCTGCTCTGTTCTATTTTACTT
* * *
47459811 CTATTCTGCTCTGTTCTGTTTGAATTACGT
1 -TGTTCTGCTCTGTTCT-ATT---TTACTT
47459841 TGTTCTGCTCTGTTCTATTTTACTT
1 TGTTCTGCTCTGTTCTATTTTACTT
47459866 TGTTCT
1 TGTTCT
47459872 ATTGTACTAC
Statistics
Matches: 65, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
24 1 0.02
25 40 0.62
26 4 0.06
28 2 0.03
29 17 0.26
30 1 0.02
ACGTcount: A:0.10, C:0.19, G:0.15, T:0.55
Consensus pattern (25 bp):
TGTTCTGCTCTGTTCTATTTTACTT
Found at i:47468175 original size:17 final size:17
Alignment explanation
Indices: 47468123--47468176 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
47468113 GTGATTGGAC
47468123 ATCCTTTTATCCTTAAT
1 ATCCTTTTATCCTTAAT
* *
47468140 AT-CTTTTCAT-GTATTAT
1 ATCCTTTT-ATCCT-TAAT
47468157 ATCCTTTTATCCTTAAT
1 ATCCTTTTATCCTTAAT
47468174 ATC
1 ATC
47468177 TAGATTGGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 8
0.71 0.10 0.20
Matches are distributed among these distances:
16 6 0.21
17 17 0.59
18 6 0.21
ACGTcount: A:0.24, C:0.20, G:0.02, T:0.54
Consensus pattern (17 bp):
ATCCTTTTATCCTTAAT
Found at i:47468576 original size:11 final size:11
Alignment explanation
Indices: 47468528--47468580 Score: 52
Period size: 11 Copynumber: 4.8 Consensus size: 11
47468518 ATACATATTT
47468528 ACCACCATACC
1 ACCACCATACC
* *
47468539 ACCACTATAAC
1 ACCACCATACC
* * *
47468550 ACTAGCACACC
1 ACCACCATACC
*
47468561 ACCACCATAGC
1 ACCACCATACC
47468572 ACCACCATA
1 ACCACCATA
47468581 TCACTGCCCT
Statistics
Matches: 31, Mismatches: 11, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.40, C:0.45, G:0.04, T:0.11
Consensus pattern (11 bp):
ACCACCATACC
Found at i:47470716 original size:42 final size:42
Alignment explanation
Indices: 47470669--47470767 Score: 112
Period size: 42 Copynumber: 2.4 Consensus size: 42
47470659 GAAGTGAGAG
* *
47470669 CACACGGCCGTGTCATAGA-CTGTATAACTCACTTACTTGGCT
1 CACACGGCCGTGTCATA-ACCCGTATAACTCACTGACTTGGCT
* * *
47470711 CACACGGCTGTGTGC-TAACCCGTGTAACTCTCTGACTTGGCT
1 CACACGGCCGTGT-CATAACCCGTATAACTCACTGACTTGGCT
*
47470753 CACACAGCCGTGTCA
1 CACACGGCCGTGTCA
47470768 CAGGCTGTGT
Statistics
Matches: 47, Mismatches: 7, Indels: 6
0.78 0.12 0.10
Matches are distributed among these distances:
41 2 0.04
42 44 0.94
43 1 0.02
ACGTcount: A:0.21, C:0.31, G:0.21, T:0.26
Consensus pattern (42 bp):
CACACGGCCGTGTCATAACCCGTATAACTCACTGACTTGGCT
Found at i:47470811 original size:54 final size:54
Alignment explanation
Indices: 47470710--47470832 Score: 140
Period size: 54 Copynumber: 2.3 Consensus size: 54
47470700 CTTACTTGGC
* ** *
47470710 TCACACGGCTGTGTGCTAACCCGTGTAACTCTCTGACTTGGCTCACACAGCCGTG
1 TCACA-GGCTGTGTGCTAACCCGTGTAACTCACTGACTAAGCACACACAGCCGTG
* * *
47470765 TCACAGGCTGTGTGCTATCCCGTGTAACTCACTGACATAAG-ACACACGGTCGTG
1 TCACAGGCTGTGTGCTAACCCGTGTAACTCACTGAC-TAAGCACACACAGCCGTG
* *
47470819 TCTCAGACTGTGTG
1 TCACAGGCTGTGTG
47470833 AAACCTGCAT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
54 51 0.88
55 7 0.12
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (54 bp):
TCACAGGCTGTGTGCTAACCCGTGTAACTCACTGACTAAGCACACACAGCCGTG
Found at i:47471295 original size:12 final size:12
Alignment explanation
Indices: 47471278--47471302 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47471268 TAAAAATAGC
47471278 TTAGGAAAAAGT
1 TTAGGAAAAAGT
47471290 TTAGGAAAAAGT
1 TTAGGAAAAAGT
47471302 T
1 T
47471303 ATAAAAATTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.48, C:0.00, G:0.24, T:0.28
Consensus pattern (12 bp):
TTAGGAAAAAGT
Found at i:47474935 original size:20 final size:19
Alignment explanation
Indices: 47474912--47474987 Score: 62
Period size: 20 Copynumber: 3.8 Consensus size: 19
47474902 GAACACGAGT
47474912 GTGCAATCACGGGCACCAGA
1 GTGCAATCA-GGGCACCAGA
* * * *
47474932 GTGCAGTCAGGGGAACAAA
1 GTGCAATCAGGGCACCAGA
*
47474951 TGTGCTATCAGAGGCACCAGA
1 -GTGCAATCAG-GGCACCAGA
*
47474972 GTGCATTCAGGAGCAC
1 GTGCAATCAGG-GCAC
47474988 GGATGTACAA
Statistics
Matches: 42, Mismatches: 11, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
19 8 0.19
20 28 0.67
21 6 0.14
ACGTcount: A:0.30, C:0.24, G:0.32, T:0.14
Consensus pattern (19 bp):
GTGCAATCAGGGCACCAGA
Found at i:47474942 original size:40 final size:40
Alignment explanation
Indices: 47474898--47474993 Score: 99
Period size: 40 Copynumber: 2.4 Consensus size: 40
47474888 CAAAGCTCAA
*
47474898 TCAGGAACACGAGTGTGCAATCACG-GGCACCAGAGTGCAG
1 TCAGGAACACGAATGTGCAATCA-GAGGCACCAGAGTGCAG
* *
47474938 TCAGGGGAACA--AATGTGCTATCAGAGGCACCAGAGTGCAT
1 TCA--GGAACACGAATGTGCAATCAGAGGCACCAGAGTGCAG
* *
47474978 TCAGGAGCACGGATGT
1 TCAGGAACACGAATGT
47474994 ACAAATAGGG
Statistics
Matches: 46, Mismatches: 5, Indels: 10
0.75 0.08 0.16
Matches are distributed among these distances:
38 5 0.11
39 1 0.02
40 34 0.74
42 6 0.13
ACGTcount: A:0.30, C:0.22, G:0.32, T:0.16
Consensus pattern (40 bp):
TCAGGAACACGAATGTGCAATCAGAGGCACCAGAGTGCAG
Found at i:47475055 original size:40 final size:40
Alignment explanation
Indices: 47474995--47475136 Score: 185
Period size: 40 Copynumber: 3.5 Consensus size: 40
47474985 CACGGATGTA
* *
47474995 CAAATAGGGACACTGAAGTGTTCATAGGGGCACAGTTGTG
1 CAAACAGGGACACCGAAGTGTTCATAGGGGCACAGTTGTG
* *
47475035 CAATCAGGGACACCGAAGTGTTCATAAGGGCACAGTTGTG
1 CAAACAGGGACACCGAAGTGTTCATAGGGGCACAGTTGTG
* * * *
47475075 CAAACAGGGACATCGAATTGTTTACAGGGGCACAGTTGTG
1 CAAACAGGGACACCGAAGTGTTCATAGGGGCACAGTTGTG
* * *
47475115 AAAACAGGGACATCAAAGTGTT
1 CAAACAGGGACACCGAAGTGTT
47475137 TTCAGGGGCA
Statistics
Matches: 89, Mismatches: 13, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 89 1.00
ACGTcount: A:0.32, C:0.17, G:0.30, T:0.21
Consensus pattern (40 bp):
CAAACAGGGACACCGAAGTGTTCATAGGGGCACAGTTGTG
Found at i:47476641 original size:42 final size:41
Alignment explanation
Indices: 47476567--47476648 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 41
47476557 TATAAAAAAA
47476567 CTCACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGG
1 CTCACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGG
* *
47476608 CTCATAAAAGCTCATGCTCTTAAAGGAGCACACAGAGTGAG
1 CTCACAAAAGCCCATGCTC-TAAAGGAGCACACAGAGTGAG
47476649 ACTTATCACA
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 17 0.45
42 21 0.55
ACGTcount: A:0.37, C:0.24, G:0.23, T:0.16
Consensus pattern (41 bp):
CTCACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGG
Found at i:47476645 original size:95 final size:95
Alignment explanation
Indices: 47476461--47476839 Score: 474
Period size: 95 Copynumber: 4.0 Consensus size: 95
47476451 TAGTTTGAGA
** * * * * *
47476461 TATCACAAATCTCACAAAAG-CTATGCTCTCAAGGAGCACACAGAGTGATATGCTTACAAAAGCT
1 TATCACAAAAATCACAAAAGCCCATGCTCTTAAGGAGCACACACAGTG--AGGCTCACAAAAGCT
* * ** *
47476525 CATGCTCTCAAAGGAGAACGTAGAGTGGGACT
64 CATGCTCTGAAAGGAGCACACAGAGTGAGACT
* * * *
47476557 TAT-AAAAAAACTCACAAAAGCCCATGCTCTAAAGGAGCACACAGAGTGAGGCTCATAAAAGCTC
1 TATCACAAAAA-TCACAAAAGCCCATGCTCTTAAGGAGCACACACAGTGAGGCTCACAAAAGCTC
*
47476621 ATGCTCTTAAAGGAGCACACAGAGTGAGACT
65 ATGCTCTGAAAGGAGCACACAGAGTGAGACT
* ** **
47476652 TATCACAAAAATCACAAAAGCCCATGCCCTTAAGGAGCACGTACAGTGAGGCTCACAATTGCTCA
1 TATCACAAAAATCACAAAAGCCCATGCTCTTAAGGAGCACACACAGTGAGGCTCACAAAAGCTCA
47476717 TGCTCTGAAAGGAGCACACAGAGTGAGACT
66 TGCTCTGAAAGGAGCACACAGAGTGAGACT
** **
47476747 TATCACAAAAATCACAAAAGCCCATGCTCTTAAGGAGCACGTACAGTGAGGCTCACAATTGCTCA
1 TATCACAAAAATCACAAAAGCCCATGCTCTTAAGGAGCACACACAGTGAGGCTCACAAAAGCTCA
*
47476812 TGCTCTGAAAGGAGCCCACAGAGTGAGA
66 TGCTCTGAAAGGAGCACACAGAGTGAGA
47476840 ATTAAGATTG
Statistics
Matches: 255, Mismatches: 25, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
95 212 0.83
96 18 0.07
97 25 0.10
ACGTcount: A:0.37, C:0.23, G:0.21, T:0.18
Consensus pattern (95 bp):
TATCACAAAAATCACAAAAGCCCATGCTCTTAAGGAGCACACACAGTGAGGCTCACAAAAGCTCA
TGCTCTGAAAGGAGCACACAGAGTGAGACT
Found at i:47476742 original size:42 final size:42
Alignment explanation
Indices: 47476696--47476838 Score: 99
Period size: 42 Copynumber: 3.1 Consensus size: 42
47476686 GAGCACGTAC
47476696 AGTGAGGCTCACAATTGCTCATGCTCTGAAAGGAGCACACAG
1 AGTGAGGCTCACAATTGCTCATGCTCTGAAAGGAGCACACAG
* * * * ** *
47476738 AGTGAGACTTATCACAAAAATCACAAAAGCCCATGCTCT-TAAGGAGCACGTAC
1 AGTGAGGC---TCAC---AAT------TGCTCATGCTCTGAAAGGAGCACACAG
*
47476791 AGTGAGGCTCACAATTGCTCATGCTCTGAAAGGAGCCCACAG
1 AGTGAGGCTCACAATTGCTCATGCTCTGAAAGGAGCACACAG
47476833 AGTGAG
1 AGTGAG
47476839 AATTAAGATT
Statistics
Matches: 73, Mismatches: 15, Indels: 26
0.64 0.13 0.23
Matches are distributed among these distances:
41 10 0.14
42 22 0.30
45 4 0.05
47 3 0.04
48 3 0.04
50 4 0.05
53 17 0.23
54 10 0.14
ACGTcount: A:0.34, C:0.24, G:0.24, T:0.19
Consensus pattern (42 bp):
AGTGAGGCTCACAATTGCTCATGCTCTGAAAGGAGCACACAG
Found at i:47477698 original size:26 final size:26
Alignment explanation
Indices: 47477669--47477731 Score: 65
Period size: 27 Copynumber: 2.4 Consensus size: 26
47477659 CACAACTTAC
* *
47477669 CTGGCGAACCT-TCTTTGCCACATAGA
1 CTGGCGAACCTAGCTTT-CCAAATAGA
*
47477695 CTGGTGAACCTGAGCTTTCCAAATAGA
1 CTGGCGAACCT-AGCTTTCCAAATAGA
*
47477722 ATGGCGAACC
1 CTGGCGAACC
47477732 CCCAGCTTGC
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 10 0.33
27 16 0.53
28 4 0.13
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (26 bp):
CTGGCGAACCTAGCTTTCCAAATAGA
Found at i:47477815 original size:52 final size:53
Alignment explanation
Indices: 47477727--47477839 Score: 174
Period size: 52 Copynumber: 2.2 Consensus size: 53
47477717 ATAGAATGGC
* * * *
47477727 GAACCCCCAGCTTGCCAGACATATTAGCGAAGCTGCCTCACAGTGAAACTTGT
1 GAACCCCCAACTTGCCAGACACATTAGCAAAGCTGCCTCACAGTGAAACTGGT
*
47477780 GAACCCCTAACTTGCCA-ACACATTAGCAAAGCTGCCTCACAGTGAAACTGGT
1 GAACCCCCAACTTGCCAGACACATTAGCAAAGCTGCCTCACAGTGAAACTGGT
47477832 GAACCCCC
1 GAACCCCC
47477840 TTACCACTTT
Statistics
Matches: 54, Mismatches: 6, Indels: 1
0.89 0.10 0.02
Matches are distributed among these distances:
52 39 0.72
53 15 0.28
ACGTcount: A:0.30, C:0.33, G:0.19, T:0.19
Consensus pattern (53 bp):
GAACCCCCAACTTGCCAGACACATTAGCAAAGCTGCCTCACAGTGAAACTGGT
Found at i:47477968 original size:27 final size:27
Alignment explanation
Indices: 47477900--47477969 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
47477890 CTTCTTTCGC
*
47477900 GAACACCCAACTAGCCTAAATCTTGGT
1 GAACACCCAACTCGCCTAAATCTTGGT
*
47477927 GAACACCCAACTCGCCTGAATCTTGGT
1 GAACACCCAACTCGCCTAAATCTTGGT
* *
47477954 GAACCCCCAATTCGCC
1 GAACACCCAACTCGCC
47477970 CCAACTTTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.29, C:0.36, G:0.16, T:0.20
Consensus pattern (27 bp):
GAACACCCAACTCGCCTAAATCTTGGT
Found at i:47482516 original size:29 final size:29
Alignment explanation
Indices: 47482483--47482538 Score: 112
Period size: 29 Copynumber: 1.9 Consensus size: 29
47482473 GTCACCTCAC
47482483 TTGCTATGACAACATTGGTCTCACTTGAT
1 TTGCTATGACAACATTGGTCTCACTTGAT
47482512 TTGCTATGACAACATTGGTCTCACTTG
1 TTGCTATGACAACATTGGTCTCACTTG
47482539 CAATTGTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (29 bp):
TTGCTATGACAACATTGGTCTCACTTGAT
Found at i:47492164 original size:20 final size:20
Alignment explanation
Indices: 47492139--47492182 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
47492129 AGATGAAGCT
47492139 CACTAATATTAAAACTATTA
1 CACTAATATTAAAACTATTA
* *
47492159 CACTAATATTGAAACTATTG
1 CACTAATATTAAAACTATTA
47492179 CACT
1 CACT
47492183 CTTGTTCAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.43, C:0.18, G:0.05, T:0.34
Consensus pattern (20 bp):
CACTAATATTAAAACTATTA
Found at i:47500802 original size:13 final size:13
Alignment explanation
Indices: 47500784--47500809 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
47500774 CACTAGAAAG
47500784 AACATAGGTTTTC
1 AACATAGGTTTTC
47500797 AACATAGGTTTTC
1 AACATAGGTTTTC
47500810 CTCCTTACTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
AACATAGGTTTTC
Found at i:47501426 original size:19 final size:21
Alignment explanation
Indices: 47501388--47501427 Score: 57
Period size: 19 Copynumber: 2.0 Consensus size: 21
47501378 TCTTGGTTAA
*
47501388 ATTTTATTTTTTTCAATCTTG
1 ATTTTATTTGTTTCAATCTTG
47501409 ATTTTA-TTGTTT-AATCTTG
1 ATTTTATTTGTTTCAATCTTG
47501428 GGGTTTGAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 5 0.28
21 6 0.33
ACGTcount: A:0.20, C:0.07, G:0.07, T:0.65
Consensus pattern (21 bp):
ATTTTATTTGTTTCAATCTTG
Found at i:47523707 original size:25 final size:22
Alignment explanation
Indices: 47523673--47523728 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 22
47523663 TGATTAGGTG
*
47523673 GTTGTATGGTTGTTATATGGTTGTT
1 GTTGTATGG-TG--ATATGGTAGTT
*
47523698 GTTGTGTGGTGATATGGTAGTT
1 GTTGTATGGTGATATGGTAGTT
*
47523720 GTTGGATGG
1 GTTGTATGG
47523729 CTTTTCAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
22 17 0.63
24 2 0.07
25 8 0.30
ACGTcount: A:0.12, C:0.00, G:0.39, T:0.48
Consensus pattern (22 bp):
GTTGTATGGTGATATGGTAGTT
Found at i:47524877 original size:21 final size:20
Alignment explanation
Indices: 47524853--47524901 Score: 53
Period size: 21 Copynumber: 2.4 Consensus size: 20
47524843 TTTATTTCTA
* *
47524853 TTAATTTAGCCATTTTTTATT
1 TTAATTTA-ACATTTTTTAAT
*
47524874 TTAATATTAATATTTTTTAAT
1 TTAAT-TTAACATTTTTTAAT
47524895 TTAATTT
1 TTAATTT
47524902 TTAAATTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 2 0.08
21 19 0.79
22 3 0.12
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (20 bp):
TTAATTTAACATTTTTTAAT
Found at i:47524904 original size:12 final size:14
Alignment explanation
Indices: 47524885--47524917 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
47524875 TAATATTAAT
*
47524885 ATTTTTTAATT-TA
1 ATTTTTAAATTCTA
47524898 ATTTTTAAATTCTA
1 ATTTTTAAATTCTA
47524912 ATTTTT
1 ATTTTT
47524918 CTTTTGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 10 0.56
14 8 0.44
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (14 bp):
ATTTTTAAATTCTA
Found at i:47527766 original size:40 final size:40
Alignment explanation
Indices: 47527730--47527812 Score: 132
Period size: 40 Copynumber: 2.1 Consensus size: 40
47527720 GACATGGCCA
47527730 TGTGACACACA-CGCCTAGACACAAGGGCATGTCATGGAT
1 TGTGACACACATCGCCTAGACACAAGGGCATGTCATGGAT
** *
47527769 TGTGGTACACATGGCCTAGACACAAGGGCATGTCATGGAT
1 TGTGACACACATCGCCTAGACACAAGGGCATGTCATGGAT
47527809 TGTG
1 TGTG
47527813 TGAATACTAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 9 0.22
40 31 0.77
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (40 bp):
TGTGACACACATCGCCTAGACACAAGGGCATGTCATGGAT
Found at i:47528195 original size:16 final size:15
Alignment explanation
Indices: 47528174--47528203 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
47528164 ACTATCTTTA
47528174 TTTTTATTGTTATTTG
1 TTTTTATT-TTATTTG
47528190 TTTTTATTTTATTT
1 TTTTTATTTTATTT
47528204 TTCAGATTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 6 0.43
16 8 0.57
ACGTcount: A:0.13, C:0.00, G:0.07, T:0.80
Consensus pattern (15 bp):
TTTTTATTTTATTTG
Found at i:47545782 original size:49 final size:47
Alignment explanation
Indices: 47545561--47546115 Score: 858
Period size: 47 Copynumber: 11.6 Consensus size: 47
47545551 CCCTTCGGGA
* * * * * *
47545561 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47545608 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47545655 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47545702 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47545749 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47545798 CTTATCACATATATACACTTTCACATTCATCATATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47545845 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47545892 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47545941 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
47545990 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
47546039 CTTATCACATATATACACTTTCACATTCATCATATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
47546086 CTTATCACATATATACACTTTCACATTCAT
1 CTTATCACATATATACACTTTCACATTCAT
47546116 TCAAATATAC
Statistics
Matches: 479, Mismatches: 25, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
47 292 0.61
49 187 0.39
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:47545817 original size:143 final size:141
Alignment explanation
Indices: 47545561--47546115 Score: 858
Period size: 143 Copynumber: 3.9 Consensus size: 141
47545551 CCCTTCGGGA
* * * * * * * *
47545561 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
47545626 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
47545691 GGCCATTAGGC
131 GGCCATTAGGC
*
47545702 CTTATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* * *
47545767 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCATA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
47545832 TCGGCTATTAGGC
129 TCGGCCATTAGGC
47545845 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAC
* *
47545910 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATATACACTTTCACATTCATCA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCA
* *
47545975 CATTGGCCATTCGGC
127 CATCGGCCATTAGGC
* *
47545990 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATAC
*
47546055 ACTTTCACATTCATCATATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCAT
47546116 TCAAATATAC
Statistics
Matches: 385, Mismatches: 23, Indels: 10
0.92 0.06 0.02
Matches are distributed among these distances:
141 46 0.12
143 207 0.54
145 87 0.23
147 45 0.12
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:47550814 original size:6 final size:6
Alignment explanation
Indices: 47550803--47550828 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
47550793 TGTGATAGGT
47550803 GGAAAG GGAAAG GGAAAG GGAAAG GG
1 GGAAAG GGAAAG GGAAAG GGAAAG GG
47550829 CCTTGGAAGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.46, C:0.00, G:0.54, T:0.00
Consensus pattern (6 bp):
GGAAAG
Found at i:47551052 original size:23 final size:23
Alignment explanation
Indices: 47551022--47551073 Score: 77
Period size: 23 Copynumber: 2.3 Consensus size: 23
47551012 TAGATTTTTC
*
47551022 CTAAATATTATCACTAAAGAATT
1 CTAAATATTATCACAAAAGAATT
*
47551045 CTAAATATTATCACAAAATAATT
1 CTAAATATTATCACAAAAGAATT
*
47551068 CAAAAT
1 CTAAAT
47551074 TTAAAAATCA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.52, C:0.13, G:0.02, T:0.33
Consensus pattern (23 bp):
CTAAATATTATCACAAAAGAATT
Found at i:47556884 original size:43 final size:43
Alignment explanation
Indices: 47556775--47557015 Score: 154
Period size: 43 Copynumber: 5.6 Consensus size: 43
47556765 CTTTAACGGT
* * * * **
47556775 GCTTTTCCCATAAACGCCGGCTATATACCATGACCTTTAGCGGC
1 GCTTTTCCCACAAACG-CAGCTAAAAACCATGACCTTTAGCAAC
47556819 GCTTTTCCCACAAACGCAGCTAAAAACCATGACCTTTAGCAAC
1 GCTTTTCCCACAAACGCAGCTAAAAACCATGACCTTTAGCAAC
* * * * * **
47556862 GCATTTT-CCATAAATGCTGCTAAAGATCATGACCTTTAGCGGC
1 GC-TTTTCCCACAAACGCAGCTAAAAACCATGACCTTTAGCAAC
* * * * **
47556905 GCTTTTCCCTCAAACGCCGCTAAAGAGCA-GTACCTTTAGCGGC
1 GCTTTTCCCACAAACGCAGCTAAAAACCATG-ACCTTTAGCAAC
* * * **
47556948 GCTTCTACCACAAACGCCA-CTATAAAA--ATGACTTTTAGTGAC
1 GCTTTTCCCACAAACG-CAGCTA-AAAACCATGACCTTTAGCAAC
*
47556990 GCTTTT-TCACAAACGTC-GCTAAAAAC
1 GCTTTTCCCACAAACG-CAGCTAAAAAC
47557016 ATAACTTTTA
Statistics
Matches: 160, Mismatches: 29, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
40 4 0.03
41 12 0.08
42 20 0.12
43 101 0.63
44 23 0.14
ACGTcount: A:0.29, C:0.29, G:0.16, T:0.26
Consensus pattern (43 bp):
GCTTTTCCCACAAACGCAGCTAAAAACCATGACCTTTAGCAAC
Found at i:47559931 original size:21 final size:21
Alignment explanation
Indices: 47559905--47559948 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
47559895 TCTTGGATGT
47559905 GGGAAA-TTAGGGAATTTAGGG
1 GGGAAAGTT-GGGAATTTAGGG
* *
47559926 GGGAAAGTTGGGGATTTCGGG
1 GGGAAAGTTGGGAATTTAGGG
47559947 GG
1 GG
47559949 AGGGGGGGAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 18 0.90
22 2 0.10
ACGTcount: A:0.25, C:0.02, G:0.50, T:0.23
Consensus pattern (21 bp):
GGGAAAGTTGGGAATTTAGGG
Found at i:47561489 original size:14 final size:14
Alignment explanation
Indices: 47561468--47561502 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
47561458 AACCATAAAT
*
47561468 CCCTAACTCTTAAC
1 CCCTAACTCCTAAC
*
47561482 CTCTAACTCCTAAC
1 CCCTAACTCCTAAC
47561496 CCCTAAC
1 CCCTAAC
47561503 CCATAAACCT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.29, C:0.46, G:0.00, T:0.26
Consensus pattern (14 bp):
CCCTAACTCCTAAC
Found at i:47561558 original size:14 final size:15
Alignment explanation
Indices: 47561535--47561567 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
47561525 CTTAAATCAG
47561535 AATCCCTAA-TCCAT
1 AATCCCTAATTCCAT
*
47561549 AATCCTTAATTCCAT
1 AATCCCTAATTCCAT
47561564 AATC
1 AATC
47561568 TATAAACCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.36, C:0.30, G:0.00, T:0.33
Consensus pattern (15 bp):
AATCCCTAATTCCAT
Found at i:47561633 original size:22 final size:22
Alignment explanation
Indices: 47561608--47561686 Score: 61
Period size: 22 Copynumber: 3.3 Consensus size: 22
47561598 GACCCTAAAT
47561608 CCTAAACTAACCATATATATAC
1 CCTAAACTAACCATATATATAC
* * *
47561630 CCTAAACCATA-TATATTAAACCCTAAAC
1 CCTAAACTA-ACCATA-TATA---T-A-C
47561658 CCTAAACTAACCATATATATAC
1 CCTAAACTAACCATATATATAC
47561680 CCTAAAC
1 CCTAAAC
47561687 CATATATATT
Statistics
Matches: 43, Mismatches: 6, Indels: 16
0.66 0.09 0.25
Matches are distributed among these distances:
22 19 0.44
23 5 0.12
24 1 0.02
26 1 0.02
27 5 0.12
28 12 0.28
ACGTcount: A:0.46, C:0.29, G:0.00, T:0.25
Consensus pattern (22 bp):
CCTAAACTAACCATATATATAC
Found at i:47561672 original size:50 final size:50
Alignment explanation
Indices: 47561599--47561707 Score: 209
Period size: 50 Copynumber: 2.2 Consensus size: 50
47561589 TCTCAAACCG
*
47561599 ACCCTAAATCCTAAACTAACCATATATATACCCTAAACCATATATATTAA
1 ACCCTAAACCCTAAACTAACCATATATATACCCTAAACCATATATATTAA
47561649 ACCCTAAACCCTAAACTAACCATATATATACCCTAAACCATATATATTAA
1 ACCCTAAACCCTAAACTAACCATATATATACCCTAAACCATATATATTAA
47561699 ACCCTAAAC
1 ACCCTAAAC
47561708 TATAATGATA
Statistics
Matches: 58, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 58 1.00
ACGTcount: A:0.46, C:0.28, G:0.00, T:0.26
Consensus pattern (50 bp):
ACCCTAAACCCTAAACTAACCATATATATACCCTAAACCATATATATTAA
Found at i:47561707 original size:21 final size:18
Alignment explanation
Indices: 47561616--47561695 Score: 75
Period size: 18 Copynumber: 4.7 Consensus size: 18
47561606 ATCCTAAACT
47561616 AACCATATATATACCCTA
1 AACCATATATATACCCTA
47561634 AACCATATATATTAAACCCTA
1 AACCATATATA-T--ACCCTA
*
47561655 AACC--CTA-A-A--CT-
1 AACCATATATATACCCTA
47561666 AACCATATATATACCCTA
1 AACCATATATATACCCTA
47561684 AACCATATATAT
1 AACCATATATAT
47561696 TAAACCCTAA
Statistics
Matches: 50, Mismatches: 2, Indels: 20
0.69 0.03 0.28
Matches are distributed among these distances:
11 4 0.08
12 2 0.04
13 2 0.04
14 2 0.04
15 1 0.02
17 2 0.04
18 24 0.48
19 3 0.06
21 10 0.20
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.28
Consensus pattern (18 bp):
AACCATATATATACCCTA
Found at i:47563222 original size:23 final size:23
Alignment explanation
Indices: 47563194--47563239 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
47563184 CTAGTGGTAA
*
47563194 CATGTGACAATCTCTCAGTATGT
1 CATGTGACAACCTCTCAGTATGT
47563217 CATGTGACAACCTCTCAGTATGT
1 CATGTGACAACCTCTCAGTATGT
47563240 TACGTGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (23 bp):
CATGTGACAACCTCTCAGTATGT
Found at i:47563246 original size:23 final size:23
Alignment explanation
Indices: 47563197--47563246 Score: 73
Period size: 23 Copynumber: 2.2 Consensus size: 23
47563187 GTGGTAACAT
* *
47563197 GTGACAATCTCTCAGTATGTCAT
1 GTGACAACCTCTCAGTATGTCAC
*
47563220 GTGACAACCTCTCAGTATGTTAC
1 GTGACAACCTCTCAGTATGTCAC
47563243 GTGA
1 GTGA
47563247 AAAATATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (23 bp):
GTGACAACCTCTCAGTATGTCAC
Found at i:47572898 original size:56 final size:56
Alignment explanation
Indices: 47572831--47572944 Score: 228
Period size: 56 Copynumber: 2.0 Consensus size: 56
47572821 CATGTAATGT
47572831 TCCCCGAAAACTATAATTTTCAATGTCCTTCCAATGTCACCATCGACTAGCAAGCA
1 TCCCCGAAAACTATAATTTTCAATGTCCTTCCAATGTCACCATCGACTAGCAAGCA
47572887 TCCCCGAAAACTATAATTTTCAATGTCCTTCCAATGTCACCATCGACTAGCAAGCA
1 TCCCCGAAAACTATAATTTTCAATGTCCTTCCAATGTCACCATCGACTAGCAAGCA
47572943 TC
1 TC
47572945 GAAGCACTCA
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
56 58 1.00
ACGTcount: A:0.32, C:0.31, G:0.11, T:0.27
Consensus pattern (56 bp):
TCCCCGAAAACTATAATTTTCAATGTCCTTCCAATGTCACCATCGACTAGCAAGCA
Found at i:47574352 original size:52 final size:53
Alignment explanation
Indices: 47574291--47574404 Score: 167
Period size: 53 Copynumber: 2.2 Consensus size: 53
47574281 AAAATAACGG
* *
47574291 TCATTTTTAATAT-TCTAACTTTTATAATAATACAATTAATCACATTAACTTT
1 TCATTTTTAATATCTCTAACTTTTATAATAACACAATTAATCACATCAACTTT
* * *
47574343 TCATTTTTAATATCTTTAACTTTTATAATAACACAATTGATCACATCAAGTTT
1 TCATTTTTAATATCTCTAACTTTTATAATAACACAATTAATCACATCAACTTT
47574396 TCATATTTT
1 TCAT-TTTT
47574405 TTCATTATTT
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
52 13 0.24
53 38 0.69
54 4 0.07
ACGTcount: A:0.36, C:0.14, G:0.02, T:0.48
Consensus pattern (53 bp):
TCATTTTTAATATCTCTAACTTTTATAATAACACAATTAATCACATCAACTTT
Found at i:47574735 original size:17 final size:18
Alignment explanation
Indices: 47574715--47574755 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
47574705 TATATACACT
47574715 TATATATTT-ATATAT-AA
1 TATATATTTCATAT-TCAA
47574732 TATAT-TTTCATATTCAA
1 TATATATTTCATATTCAA
47574749 TATATAT
1 TATATAT
47574756 AATATTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
16 4 0.19
17 16 0.76
18 1 0.05
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (18 bp):
TATATATTTCATATTCAA
Found at i:47579335 original size:75 final size:75
Alignment explanation
Indices: 47579168--47579679 Score: 382
Period size: 76 Copynumber: 6.9 Consensus size: 75
47579158 TCCCTGGATT
* * * * * * * **
47579168 GCGACCCTCTATCTTT-TAACAACTCGTTGATCTATGTTCACAGTTGATTTTTTTTTATGGTTTG
1 GCGACCCTCGAT-TTTCTAATAGCTCGCTGACCTACGTTCACAGCTGA--TTTTTTTATGGTCCG
*
47579232 TTGATTTAAGATC
63 CTGATTTAAGATC
* * * * *
47579245 GTGACCCTC-AGTTTTCTAACAGCTCGCTAACTTACGTTCACAGCTGATTTTTTTACGGTCCGCT
1 GCGACCCTCGA-TTTTCTAATAGCTCGCTGACCTACGTTCACAGCTGATTTTTTTATGGTCCGCT
*
47579309 GATTTATGATC
65 GATTTAAGATC
* * ** *
47579320 GCGACCCTCGATTTTCTAGTAGCTTGCTGA-C--C--T---A-C-GATTTTTTTATGGTATGCTT
1 GCGACCCTCGATTTTCTAATAGCTCGCTGACCTACGTTCACAGCTGATTTTTTTATGGTCCGCTG
*
47579375 ATTTAAGATT
66 ATTTAAGATC
* * * * * * ** * * *
47579385 GTGACCCTCGGTTTTCTAAAAACTTGTTGACCTACGTTCACAATTGATTTTTTTACGGTTCGTTG
1 GCGACCCTCGATTTTCTAATAGCTCGCTGACCTACGTTCACAGCTGATTTTTTTATGGTCCGCTG
47579450 ATTTAAGATC
66 ATTTAAGATC
* * * * * * * *
47579460 GCGATCCTTGGTTTTCTAATAGCTTGCTGACCTATGTTCACAGTTGTTATTTTTTATGGTCCACT
1 GCGACCCTCGATTTTCTAATAGCTCGCTGACCTACGTTCACAGCTGAT-TTTTTTATGGTCCGCT
*
47579525 GATTTAATATC
65 GATTTAAGATC
* * * * * *
47579536 ACGACCCTCGGTTTTCTAATAACTCGTTGACCTACGTTCACAGTTGATATTTTTTATAGTCCGCT
1 GCGACCCTCGATTTTCTAATAGCTCGCTGACCTACGTTCACAGCTGAT-TTTTTTATGGTCCGCT
*
47579601 GAATTAAGATC
65 GATTTAAGATC
* * * * * *
47579612 GCGACCCTCAATTTTCTAATAGCTCGTTAACCTACGTTCACAACTGTTTTTTCTTATGGTTCGCT
1 GCGACCCTCGATTTTCTAATAGCTCGCTGACCTACGTTCACAGCTGATTTTT-TTATGGTCCGCT
47579677 GAT
65 GAT
47579680 CTACAAACGA
Statistics
Matches: 345, Mismatches: 75, Indels: 31
0.76 0.17 0.07
Matches are distributed among these distances:
65 48 0.14
66 2 0.01
67 1 0.00
68 1 0.00
70 2 0.01
72 1 0.00
73 1 0.00
75 113 0.33
76 143 0.41
77 33 0.10
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.41
Consensus pattern (75 bp):
GCGACCCTCGATTTTCTAATAGCTCGCTGACCTACGTTCACAGCTGATTTTTTTATGGTCCGCTG
ATTTAAGATC
Found at i:47579394 original size:65 final size:65
Alignment explanation
Indices: 47579290--47579420 Score: 154
Period size: 65 Copynumber: 2.0 Consensus size: 65
47579280 GTTCACAGCT
* * ** *
47579290 GATTTTTTTACGGTCCGCTGATTTATGATCGCGACCCTCGATTTTCTAGTAGCTTGCTGACCTAC
1 GATTTTTTTACGGTACGCTGATTTAAGATCGCGACCCTCGATTTTCTAAAAACTTGCTGACCTAC
* * * * * * *
47579355 GATTTTTTTATGGTATGCTTATTTAAGATTGTGACCCTCGGTTTTCTAAAAACTTGTTGACCTAC
1 GATTTTTTTACGGTACGCTGATTTAAGATCGCGACCCTCGATTTTCTAAAAACTTGCTGACCTAC
47579420 G
1 G
47579421 TTCACAATTG
Statistics
Matches: 54, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
65 54 1.00
ACGTcount: A:0.20, C:0.20, G:0.19, T:0.41
Consensus pattern (65 bp):
GATTTTTTTACGGTACGCTGATTTAAGATCGCGACCCTCGATTTTCTAAAAACTTGCTGACCTAC
Found at i:47579475 original size:140 final size:140
Alignment explanation
Indices: 47579217--47579635 Score: 390
Period size: 140 Copynumber: 2.9 Consensus size: 140
47579207 ACAGTTGATT
* * * *
47579217 TTTTTTTATGGTTTGTTGATTTAAGATCGTGACCCTCAGTTTTCTAACAGCTCGCTAACTTACGT
1 TTTTTTTATGGTATGTTGATTTAAGATCGTGACCCTCAGTTTTCTAAAAACTCGCTAACCTACGT
* * *
47579282 TCACAGCTGATTTTTTTACGGTCCGCTGATTTATGATCGCGACCCTCGATTTTCTAGTAGCTTGC
66 TCACAACTGATTTTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAATAGCTTGC
47579347 TGACCTACGA
131 TGACCTACGA
* * * * *
47579357 TTTTTTTATGGTATGCTT-ATTTAAGATTGTGACCCTCGGTTTTCTAAAAACTTGTTGACCTACG
1 TTTTTTTATGGTATG-TTGATTTAAGATCGTGACCCTCAGTTTTCTAAAAACTCGCTAACCTACG
* * * * * *
47579421 TTCACAATTGATTTTTTTACGGTTCGTTGATTTAAGATCGCGATCCTTGGTTTTCTAATAGCTTG
65 TTCACAACTGATTTTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAATAGCTTG
*
47579486 CTGACCTATGTTCACAGTTGT
130 CTGACC-----T-AC----GA
**** * ** * * * *
47579507 TATTTTTTATGGTCCACTGATTTAATATCACGACCCTCGGTTTTCTAATAACTCGTTGACCTACG
1 T-TTTTTTATGGTATGTTGATTTAAGATCGTGACCCTCAGTTTTCTAAAAACTCGCTAACCTACG
** ** * *
47579572 TTCACAGTTGATATTTTTTATAGTCCGCTGAATTAAGATCGCGACCCTCAATTTTCTAATAGCT
65 TTCACAACTGAT-TTTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAATAGCT
47579636 CGTTAACCTA
Statistics
Matches: 226, Mismatches: 39, Indels: 16
0.80 0.14 0.06
Matches are distributed among these distances:
140 114 0.50
141 2 0.01
145 1 0.00
146 2 0.01
150 3 0.01
151 62 0.27
152 42 0.19
ACGTcount: A:0.21, C:0.20, G:0.17, T:0.42
Consensus pattern (140 bp):
TTTTTTTATGGTATGTTGATTTAAGATCGTGACCCTCAGTTTTCTAAAAACTCGCTAACCTACGT
TCACAACTGATTTTTTTACGGTCCGCTGATTTAAGATCGCGACCCTCGATTTTCTAATAGCTTGC
TGACCTACGA
Found at i:47581578 original size:12 final size:12
Alignment explanation
Indices: 47581561--47581585 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
47581551 ATTTTATAAC
47581561 ATAAATATTGTT
1 ATAAATATTGTT
47581573 ATAAATATTGTT
1 ATAAATATTGTT
47581585 A
1 A
47581586 ATAGCCTTTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (12 bp):
ATAAATATTGTT
Found at i:47581762 original size:39 final size:36
Alignment explanation
Indices: 47581719--47581799 Score: 90
Period size: 39 Copynumber: 2.2 Consensus size: 36
47581709 TATGGTCTGT
47581719 TGATTTAAGATCACGACCCTCGATTTTCTAACAGCTCGC
1 TGATTTAAGATCACGACCCTCG-TTTT-TAA-AGCTCGC
* * **
47581758 TGATTCATGATCACGACTGTCGTTTTTAAAGCTCGC
1 TGATTTAAGATCACGACCCTCGTTTTTAAAGCTCGC
*
47581794 TAATTT
1 TGATTT
47581800 CTTCAACAAG
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
36 11 0.31
37 3 0.08
38 4 0.11
39 18 0.50
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (36 bp):
TGATTTAAGATCACGACCCTCGTTTTTAAAGCTCGC
Found at i:47583398 original size:138 final size:136
Alignment explanation
Indices: 47583247--47583513 Score: 390
Period size: 138 Copynumber: 1.9 Consensus size: 136
47583237 TTGGACATAT
*
47583247 ATATATATTATTAGATACTCAAACTATTTTTAATGATTATTCAAATCCAATAATTAAAATTAAGA
1 ATATATATTATTAGATACTCAAACTATTTTTAATGATTATTCAAATCCAATAATTAAAATTAAAA
* *
47583312 TCTGAATATAACTTTTTGAAGTCAAGATTCGTCATCAGATATTTATTTTATATGAATATTTTAAT
66 TCTGAATATAAC-TTTTGAAGTCAAGATTCGTCAT-AGATATTTATTTTACATGAATAGTTTAAT
47583377 TCGAACAC
129 TCGAACAC
* * *
47583385 ATATATATTATTAGATATTTAAACTATTTTTAATGATTATTTAAATCCAATAATTAAAATTAAAA
1 ATATATATTATTAGATACTCAAACTATTTTTAATGATTATTCAAATCCAATAATTAAAATTAAAA
* * * ** * * *
47583450 TTTGAGTATAGCTTTTGAAGTCTTGATTGGTTATAGATATTTATTTTACATGAGTAGTTTAATT
66 TCTGAATATAACTTTTGAAGTCAAGATTCGTCATAGATATTTATTTTACATGAATAGTTTAATT
47583514 TGAATTAATA
Statistics
Matches: 115, Mismatches: 14, Indels: 2
0.88 0.11 0.02
Matches are distributed among these distances:
136 27 0.23
137 18 0.16
138 70 0.61
ACGTcount: A:0.39, C:0.08, G:0.09, T:0.44
Consensus pattern (136 bp):
ATATATATTATTAGATACTCAAACTATTTTTAATGATTATTCAAATCCAATAATTAAAATTAAAA
TCTGAATATAACTTTTGAAGTCAAGATTCGTCATAGATATTTATTTTACATGAATAGTTTAATTC
GAACAC
Found at i:47588184 original size:22 final size:22
Alignment explanation
Indices: 47588159--47588201 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
47588149 ACTTTAGGAA
*
47588159 TTACATATGCTGTAATTAGAAG
1 TTACATATGATGTAATTAGAAG
47588181 TTACATATGATGTAATTAGAA
1 TTACATATGATGTAATTAGAA
47588202 AGTGTTGCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.40, C:0.07, G:0.16, T:0.37
Consensus pattern (22 bp):
TTACATATGATGTAATTAGAAG
Found at i:47599917 original size:34 final size:34
Alignment explanation
Indices: 47599879--47599950 Score: 144
Period size: 34 Copynumber: 2.1 Consensus size: 34
47599869 AGCAAGCCTA
47599879 TTTATACAAGAGTAATTGAACCCTAATAAAACTC
1 TTTATACAAGAGTAATTGAACCCTAATAAAACTC
47599913 TTTATACAAGAGTAATTGAACCCTAATAAAACTC
1 TTTATACAAGAGTAATTGAACCCTAATAAAACTC
47599947 TTTA
1 TTTA
47599951 AAATTATCTA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 38 1.00
ACGTcount: A:0.43, C:0.17, G:0.08, T:0.32
Consensus pattern (34 bp):
TTTATACAAGAGTAATTGAACCCTAATAAAACTC
Found at i:47605609 original size:30 final size:30
Alignment explanation
Indices: 47605569--47605817 Score: 152
Period size: 30 Copynumber: 8.4 Consensus size: 30
47605559 TGGTTGACCC
* * * *
47605569 ATCCTTTTTCATAATTTGATAACCAAAGTT
1 ATCCCTTTTCATAATTTGATAGCCGAAGCT
* * *
47605599 ATCCCTTTTCATAGTTCGATAGTCGAAGCT
1 ATCCCTTTTCATAATTTGATAGCCGAAGCT
*
47605629 ATCCCTTTTCATAATTTGATAGCTGAAGCT
1 ATCCCTTTTCATAATTTGATAGCCGAAGCT
* * *
47605659 ATCCCTTTTCAT-ATATCGATAGCTGAAGCC
1 ATCCCTTTTCATAAT-TTGATAGCCGAAGCT
* * * * *** *
47605689 ATCCTTTTTCATAGTTCGATGGTCTTCA-CC
1 ATCCCTTTTCATAATTTGATAG-CCGAAGCT
** * *
47605719 ATCCCTTTTCATTGTTT-ATGGTC-ATCA-CT
1 ATCCCTTTTCATAATTTGATAGCCGA--AGCT
* *
47605748 ATCCCTTTTCATAA-TCGATAGTCGAAGCT
1 ATCCCTTTTCATAATTTGATAGCCGAAGCT
* * *
47605777 ATCCTTTTTCGT-ATTTGATAGCCGAAGCC
1 ATCCCTTTTCATAATTTGATAGCCGAAGCT
*
47605806 ATCCTTTTTCAT
1 ATCCCTTTTCAT
47605818 TTGTCGATGA
Statistics
Matches: 175, Mismatches: 35, Indels: 19
0.76 0.15 0.08
Matches are distributed among these distances:
28 3 0.02
29 60 0.34
30 108 0.62
31 4 0.02
ACGTcount: A:0.24, C:0.23, G:0.12, T:0.41
Consensus pattern (30 bp):
ATCCCTTTTCATAATTTGATAGCCGAAGCT
Found at i:47605641 original size:60 final size:60
Alignment explanation
Indices: 47605567--47605701 Score: 184
Period size: 60 Copynumber: 2.2 Consensus size: 60
47605557 AATGGTTGAC
*
47605567 CCATCCTTTTTCATAATTTGATAACCAAAGTTATCCCTTTTCATAGT-TCGATAG-TCGAAG
1 CCATCCTTTTTCATAATTTGATAACCAAAGCTATCCCTTTTCATA-TATCGATAGCT-GAAG
* * * **
47605627 CTATCCCTTTTCATAATTTGATAGCTGAAGCTATCCCTTTTCATATATCGATAGCTGAAG
1 CCATCCTTTTTCATAATTTGATAACCAAAGCTATCCCTTTTCATATATCGATAGCTGAAG
47605687 CCATCCTTTTTCATA
1 CCATCCTTTTTCATA
47605702 GTTCGATGGT
Statistics
Matches: 65, Mismatches: 8, Indels: 4
0.84 0.10 0.05
Matches are distributed among these distances:
59 1 0.02
60 63 0.97
61 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.11, T:0.39
Consensus pattern (60 bp):
CCATCCTTTTTCATAATTTGATAACCAAAGCTATCCCTTTTCATATATCGATAGCTGAAG
Found at i:47605751 original size:29 final size:30
Alignment explanation
Indices: 47605687--47605760 Score: 96
Period size: 29 Copynumber: 2.5 Consensus size: 30
47605677 ATAGCTGAAG
* *
47605687 CCATCCTTTTTCATAGTTCGATGGTCTTCA
1 CCATCCCTTTTCATAGTTCGATGGTCATCA
* *
47605717 CCATCCCTTTTCATTGTT-TATGGTCATCA
1 CCATCCCTTTTCATAGTTCGATGGTCATCA
*
47605746 CTATCCCTTTTCATA
1 CCATCCCTTTTCATA
47605761 ATCGATAGTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 22 0.58
30 16 0.42
ACGTcount: A:0.18, C:0.28, G:0.09, T:0.45
Consensus pattern (30 bp):
CCATCCCTTTTCATAGTTCGATGGTCATCA
Found at i:47606631 original size:16 final size:15
Alignment explanation
Indices: 47606605--47606634 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
47606595 TATCCTATTT
47606605 TAATTACTTAATTAC
1 TAATTACTTAATTAC
47606620 TAATTCACTTAATTA
1 TAATT-ACTTAATTA
47606635 ACCTTGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.40, C:0.13, G:0.00, T:0.47
Consensus pattern (15 bp):
TAATTACTTAATTAC
Found at i:47606977 original size:20 final size:20
Alignment explanation
Indices: 47606952--47606990 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
47606942 TTTCACTGAA
47606952 AACGGGCTGTTACACTAGGT
1 AACGGGCTGTTACACTAGGT
47606972 AACGGGCTGTTACACTAGG
1 AACGGGCTGTTACACTAGG
47606991 CCAGATAAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (20 bp):
AACGGGCTGTTACACTAGGT
Found at i:47618246 original size:40 final size:40
Alignment explanation
Indices: 47618202--47618319 Score: 139
Period size: 40 Copynumber: 3.0 Consensus size: 40
47618192 AAGTATTGAA
*
47618202 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTACCCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAACCC
* *
47618242 TGAATGCACATACGTGCCCTTGTTTGTA-TTTCAGTAACCC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTT-GGTAACCC
* * * * * *
47618282 TGAATGAACTTATGTGCCCCTATTTATACTCTGGTAAC
1 TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAAC
47618320 TCTAAATCAT
Statistics
Matches: 65, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
39 3 0.05
40 60 0.92
41 2 0.03
ACGTcount: A:0.22, C:0.25, G:0.18, T:0.35
Consensus pattern (40 bp):
TGAATGCACATACGTGCCCCTGTTTGTACTTTGGTAACCC
Found at i:47630404 original size:18 final size:18
Alignment explanation
Indices: 47630381--47630420 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
47630371 GGAGGAGAAT
47630381 AAGATGATGAGGATGAGA
1 AAGATGATGAGGATGAGA
* *
47630399 AAGATGATGATGATGAGG
1 AAGATGATGAGGATGAGA
47630417 AAGA
1 AAGA
47630421 CATGGAGAGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.45, C:0.00, G:0.38, T:0.17
Consensus pattern (18 bp):
AAGATGATGAGGATGAGA
Found at i:47635758 original size:21 final size:21
Alignment explanation
Indices: 47635732--47635795 Score: 94
Period size: 23 Copynumber: 3.0 Consensus size: 21
47635722 ACTTAAATCC
*
47635732 TTTCTCTCAAATTCTCTCATA
1 TTTCTCTCAAATTCTCTCACA
47635753 TTTCTCTCCAATATTCTCTCACA
1 TTTCTCT-CAA-ATTCTCTCACA
47635776 TTTCTCTCAAATTC-CTCACA
1 TTTCTCTCAAATTCTCTCACA
47635796 AATTCCTCTT
Statistics
Matches: 40, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
20 6 0.15
21 11 0.28
22 6 0.15
23 17 0.43
ACGTcount: A:0.23, C:0.33, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTCTCTCAAATTCTCTCACA
Found at i:47638130 original size:17 final size:17
Alignment explanation
Indices: 47638110--47638147 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
47638100 AAATATAAAT
47638110 TATTTTAAATAATTCAA
1 TATTTTAAATAATTCAA
* *
47638127 TATTTTAAATATTTCTA
1 TATTTTAAATAATTCAA
47638144 TATT
1 TATT
47638148 ATTTCATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.39, C:0.05, G:0.00, T:0.55
Consensus pattern (17 bp):
TATTTTAAATAATTCAA
Found at i:47638263 original size:55 final size:55
Alignment explanation
Indices: 47638081--47638263 Score: 135
Period size: 55 Copynumber: 3.2 Consensus size: 55
47638071 AATAAAAATT
**
47638081 TACTTT-TATATTTTTAATAAAATATAAATTATTTTAAATAATTCAATATTTTAAA
1 TACTTTATATATTTTTAATAAAATA-AAATTATTTTAAATAAGGCAATATTTTAAA
* * * * *
47638136 TATTTCTATATTATTTCATTTAATAAAATAAAACGTTGTTTTGAATCAAGG--A-ATTGTAATT
1 TACTT-TATA-TA-TT--TTTAATAAAATAAAA--TTATTTTAAAT-AAGGCAATATTTTAA-A
* * *
47638197 TACTTTA-ATATTTTTAATAAAATAGAAATTCTTTTAAATAAGGCAATATTTTGAG
1 TACTTTATATATTTTTAATAAAATA-AAATTATTTTAAATAAGGCAATATTTTAAA
47638252 TA-TTTATATATT
1 TACTTTATATATT
47638264 ATTTCATTTC
Statistics
Matches: 100, Mismatches: 13, Indels: 30
0.70 0.09 0.21
Matches are distributed among these distances:
53 4 0.04
54 13 0.13
55 24 0.24
56 9 0.09
57 4 0.04
58 4 0.04
59 3 0.03
60 11 0.11
61 17 0.17
62 9 0.09
63 2 0.02
ACGTcount: A:0.41, C:0.05, G:0.06, T:0.48
Consensus pattern (55 bp):
TACTTTATATATTTTTAATAAAATAAAATTATTTTAAATAAGGCAATATTTTAAA
Found at i:47641508 original size:126 final size:125
Alignment explanation
Indices: 47641283--47641575 Score: 444
Period size: 126 Copynumber: 2.3 Consensus size: 125
47641273 GGCCAAATAG
*
47641283 GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTCTTTCAGTACTTTTGCTGACAAAGCAAC
1 GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAAAGCAAC
* ** *
47641348 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAAGGTCTTCTTGAAATTATTTTTTCAA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATATTTTC-A
** * *
47641409 GAACTACTGTAGCAAAAGAGCGTCCACAAGGGAGCTTTTTTCAGTACTTTTGCTGACAATGCATC
1 GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAAAGCAAC
*
47641474 CTGCTTAAAGCGTTTTTGCCACTATTTGCTCAGAAACGTCTTCTCAAAATTATATTTTCA
66 CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATATTTTCA
* *
47641534 GTAACTACTGTAG-AAAGAAAGCATCCACGTGGGAGCTTTTTT
1 G-AACTACTGTAGCAAA-AGAGCGTCCACGTGGGAGCTTTTTT
47641576 AAATAAACAA
Statistics
Matches: 151, Mismatches: 14, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
125 5 0.03
126 146 0.97
ACGTcount: A:0.28, C:0.20, G:0.19, T:0.33
Consensus pattern (125 bp):
GAACTACTGTAGCAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGTACTTTTGCTGACAAAGCAAC
CTGCTTAAAGCGTTTTTGACACTATTTGCTCAGAAACGTCTTCTCAAAATTATATTTTCA
Found at i:47641746 original size:96 final size:96
Alignment explanation
Indices: 47641608--47641911 Score: 398
Period size: 96 Copynumber: 3.2 Consensus size: 96
47641598 AATAACCCTA
* *
47641608 AACCCCAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTAAACCCTAAACCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAAT
*
47641673 TTTTTTAAAATATATAATTAATTTACTCAAGT
66 TTTTTAAAAAT-TATAATTAATTTACTCAAGT
*
47641705 AACCCTAAACCCTAATTTATTTGA-TTTTTCCTTAAAAACCCTTAACACTAAACCCTAATCTAAT
1 AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAAT
**
47641769 TTTAAAAAAATTATAATTAATTTACTCAAGT
66 TTTTTAAAAATTATAATTAATTTACTCAAGT
* * * * *
47641800 AACCCTAAACCCTAATTTAATTAATTTTTTCCTTAAAAACCATAAGCAC-AGAACCCTAATCTAA
1 AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTAAACACTA-AACCCTAATCTAA
* * * * **
47641864 -TTTTGAAAATTTTATAATTAATTTAATTAAAA
65 TTTTTTAAAA-ATTATAATTAATTTACTCAAGT
*
47641896 AACCCTAAGCCCTAAT
1 AACCCTAAACCCTAAT
47641912 CCCTTATTTA
Statistics
Matches: 185, Mismatches: 19, Indels: 7
0.88 0.09 0.03
Matches are distributed among these distances:
95 50 0.27
96 112 0.61
97 23 0.12
ACGTcount: A:0.41, C:0.20, G:0.03, T:0.36
Consensus pattern (96 bp):
AACCCTAAACCCTAATTTATTTGAGTTTTTCCTTAAAAACCCTAAACACTAAACCCTAATCTAAT
TTTTTAAAAATTATAATTAATTTACTCAAGT
Found at i:47641967 original size:21 final size:20
Alignment explanation
Indices: 47641938--47642007 Score: 77
Period size: 21 Copynumber: 3.4 Consensus size: 20
47641928 TTTTCTTTAA
*
47641938 AACCATAAACCCAAAAACTCT
1 AACCCTAAACCCAAAAAC-CT
* *
47641959 AACCCTAAACCCAAAACCCAA
1 AACCCTAAACCCAAAAACC-T
* *
47641980 AACCCAAAACCCAAAATCCT
1 AACCCTAAACCCAAAAACCT
47642000 AACCCTAA
1 AACCCTAA
47642008 CGCAGAGACA
Statistics
Matches: 41, Mismatches: 7, Indels: 3
0.80 0.14 0.06
Matches are distributed among these distances:
20 8 0.20
21 33 0.80
ACGTcount: A:0.51, C:0.39, G:0.00, T:0.10
Consensus pattern (20 bp):
AACCCTAAACCCAAAAACCT
Found at i:47641975 original size:7 final size:7
Alignment explanation
Indices: 47641959--47641995 Score: 65
Period size: 7 Copynumber: 5.3 Consensus size: 7
47641949 CAAAAACTCT
*
47641959 AACCCTA
1 AACCCAA
47641966 AACCCAA
1 AACCCAA
47641973 AACCCAA
1 AACCCAA
47641980 AACCCAA
1 AACCCAA
47641987 AACCCAA
1 AACCCAA
47641994 AA
1 AA
47641996 TCCTAACCCT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.57, C:0.41, G:0.00, T:0.03
Consensus pattern (7 bp):
AACCCAA
Found at i:47659260 original size:39 final size:40
Alignment explanation
Indices: 47659143--47659329 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
47659133 GCTACTCGTT
*
47659143 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
* *
47659183 CAATTGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* *
47659223 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * * * *
47659262 CAAATGCTCTTC-GGATCTTAGTTCCGGATATGGTCACTTAGCA
1 CAAATGC-CTTCGGGA-CTTAG-CCCGGATTTAGTAAC-TCGCA
47659305 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
47659330 CATCATTCAA
Statistics
Matches: 125, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 31 0.25
40 56 0.45
41 16 0.13
42 14 0.11
43 8 0.06
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:47666439 original size:40 final size:40
Alignment explanation
Indices: 47666402--47666585 Score: 162
Period size: 40 Copynumber: 4.6 Consensus size: 40
47666392 GCTACTCGTT
* *
47666402 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGTA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
47666442 CAATTGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCA
* * * *
47666482 CAATTGCCTTCAGG-CTTAGCCCGG-AATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCA
* * ** * * *
47666521 CAAATGCCTTC-AGATCTTAGTCCGAATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCA
47666562 CAAA-GCCTTCGGGACTTAGCCCGG
1 CAAATGCCTTCGGGACTTAGCCCGG
47666586 ACATCATTCA
Statistics
Matches: 116, Mismatches: 20, Indels: 16
0.76 0.13 0.11
Matches are distributed among these distances:
38 1 0.01
39 30 0.26
40 72 0.62
41 13 0.11
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:47666519 original size:39 final size:40
Alignment explanation
Indices: 47666430--47666533 Score: 147
Period size: 39 Copynumber: 2.6 Consensus size: 40
47666420 AGCCCGGTTA
* * *
47666430 TAGTAACTCGTACAATTGCCTTCGGGACTTAACCCGGATT
1 TAGTAACTCGCACAATTGCCTTCAGGACTTAACCCGGAAT
*
47666470 TAGTAACTCGCACAATTGCCTTCAGG-CTTAGCCCGGAAT
1 TAGTAACTCGCACAATTGCCTTCAGGACTTAACCCGGAAT
* *
47666509 TAGTATCTCGCACAAATGCCTTCAG
1 TAGTAACTCGCACAATTGCCTTCAG
47666534 ATCTTAGTCC
Statistics
Matches: 58, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
39 34 0.59
40 24 0.41
ACGTcount: A:0.26, C:0.27, G:0.19, T:0.28
Consensus pattern (40 bp):
TAGTAACTCGCACAATTGCCTTCAGGACTTAACCCGGAAT
Found at i:47668520 original size:20 final size:20
Alignment explanation
Indices: 47668495--47668537 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
47668485 TTTTGGTAGC
47668495 TTGGTTCGGCTAAGCATAAA
1 TTGGTTCGGCTAAGCATAAA
47668515 TTGGTTCGGCTAAGCATAAA
1 TTGGTTCGGCTAAGCATAAA
47668535 TTG
1 TTG
47668538 TTGGTAGCTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.28, C:0.14, G:0.26, T:0.33
Consensus pattern (20 bp):
TTGGTTCGGCTAAGCATAAA
Found at i:47672952 original size:50 final size:50
Alignment explanation
Indices: 47672786--47673073 Score: 289
Period size: 50 Copynumber: 5.7 Consensus size: 50
47672776 ATGTCAAAGG
* ** * * *
47672786 CATGTCCCAGACATGGTCTTACATGGGA--TGTT-TCATGCACTACGAAAGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTTATC-T-CGGTGCCAATGC
* * ** * * *
47672835 CATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCC-ATGT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAATGC
** *
47672884 CATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTCGGTGCCAACGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAATGC
* *
47672934 CATGTCCCAGACATGGTCTTACATGGGACATCTTGTCTCGGTGCCAATGC
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAATGC
47672984 CATGTCCCAGACATGGTCTTAGC-TGGGACCTCTCATGATCTCAAGGATGCCAATGC
1 CATGTCCCAGACATGGTCTTA-CATGGGACCTCT--T-ATCTC--GG-TGCCAATGC
*
47673040 CATGTCCCAGACATGGTCTTACATGGGATCTCTT
1 CATGTCCCAGACATGGTCTTACATGGGACCTCTT
47673074 TACCCAAATG
Statistics
Matches: 198, Mismatches: 29, Indels: 19
0.80 0.12 0.08
Matches are distributed among these distances:
49 65 0.33
50 80 0.40
51 4 0.02
52 2 0.01
53 4 0.02
54 1 0.01
55 3 0.02
56 39 0.20
ACGTcount: A:0.22, C:0.27, G:0.23, T:0.28
Consensus pattern (50 bp):
CATGTCCCAGACATGGTCTTACATGGGACCTCTTATCTCGGTGCCAATGC
Found at i:47672956 original size:99 final size:104
Alignment explanation
Indices: 47672833--47673067 Score: 311
Period size: 99 Copynumber: 2.3 Consensus size: 104
47672823 CACTACGAAA
* * ** *
47672833 GCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATCGGTGCC-ATGTCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACATGGGACATCTCATATCGGTGCCAATGCCATGTCCCAGACA
47672897 TGGTCTTA-CGGGGGACCTCT-T-ATCTC-GG-TGCCAAC
66 TGGTCTTAGC-GGGGACCTCTATGATCTCAGGATGCCAAC
** *
47672932 GCCATGTCCCAGACATGGTCTTACATGGGACATCTTGTCTCGGTGCCAATGCCATGTCCCAGACA
1 GCCATGTCCCAGACATGGTCTTACATGGGACATCTCATATCGGTGCCAATGCCATGTCCCAGACA
* *
47672997 TGGTCTTAGCTGGGACCTCTCATGATCTCAAGGATGCCAAT
66 TGGTCTTAGCGGGGACCTCT-ATGATCTC-AGGATGCCAAC
47673038 GCCATGTCCCAGACATGGTCTTACATGGGA
1 GCCATGTCCCAGACATGGTCTTACATGGGA
47673068 TCTCTTTACC
Statistics
Matches: 118, Mismatches: 10, Indels: 9
0.86 0.07 0.07
Matches are distributed among these distances:
99 40 0.34
100 33 0.28
101 1 0.01
102 1 0.01
103 5 0.04
105 2 0.02
106 36 0.31
ACGTcount: A:0.21, C:0.28, G:0.24, T:0.27
Consensus pattern (104 bp):
GCCATGTCCCAGACATGGTCTTACATGGGACATCTCATATCGGTGCCAATGCCATGTCCCAGACA
TGGTCTTAGCGGGGACCTCTATGATCTCAGGATGCCAAC
Found at i:47681885 original size:8 final size:8
Alignment explanation
Indices: 47681874--47681907 Score: 54
Period size: 8 Copynumber: 4.5 Consensus size: 8
47681864 CTTTAATTGG
47681874 CTAATTAC
1 CTAATTAC
47681882 CTAATTAC
1 CTAATTAC
47681890 CTAATTAC
1 CTAATTAC
47681898 C--ATTAC
1 CTAATTAC
47681904 CTAA
1 CTAA
47681908 CTTTAAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
6 6 0.25
8 18 0.75
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.35
Consensus pattern (8 bp):
CTAATTAC
Found at i:47681893 original size:16 final size:14
Alignment explanation
Indices: 47681874--47681907 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 14
47681864 CTTTAATTGG
47681874 CTAATTACCTAATTAC
1 CTAATTACC--ATTAC
47681890 CTAATTACCATTAC
1 CTAATTACCATTAC
47681904 CTAA
1 CTAA
47681908 CTTTAAAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 9 0.50
16 9 0.50
ACGTcount: A:0.38, C:0.26, G:0.00, T:0.35
Consensus pattern (14 bp):
CTAATTACCATTAC
Found at i:47687844 original size:8 final size:8
Alignment explanation
Indices: 47687831--47687878 Score: 73
Period size: 8 Copynumber: 6.2 Consensus size: 8
47687821 CCCCGATTGC
47687831 ATGTTTGT
1 ATGTTTGT
47687839 ATGTTTGT
1 ATGTTTGT
47687847 ATGTTTGT
1 ATGTTTGT
*
47687855 ATGGTT-T
1 ATGTTTGT
47687862 -TGTTTGT
1 ATGTTTGT
47687869 ATGTTTGT
1 ATGTTTGT
47687877 AT
1 AT
47687879 TGCTCATTAC
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
6 4 0.11
7 2 0.06
8 30 0.83
ACGTcount: A:0.12, C:0.00, G:0.25, T:0.62
Consensus pattern (8 bp):
ATGTTTGT
Found at i:47690051 original size:91 final size:91
Alignment explanation
Indices: 47689923--47690129 Score: 279
Period size: 91 Copynumber: 2.3 Consensus size: 91
47689913 TTGATTTTAG
* * * * *
47689923 TAAATTCATATAAGAACATTTTTTATTAAGAAATTTATGAAATTATATATCATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTGTCAAGAAATTTATGAAATCATATATCATTATTAAATTATA
* * * *
47689988 TTTAACATTATTTATTTTAAATTGTA
66 TGTAACAATAATTATTTTAAATTATA
* * *
47690014 TAAATTCATATAAGAAAATTTATTGTCAATAATTTTATGAAATCATATATTATTATTAAATTATA
1 TAAATTCATATAAGAAAATTTATTGTCAAGAAATTTATGAAATCATATATCATTATTAAATTATA
*
47690079 TGTAATAATAATTATTTTAAATTATA
66 TGTAACAATAATTATTTTAAATTATA
* *
47690105 CAAATTCATATAAGATAATTTATTG
1 TAAATTCATATAAGAAAATTTATTG
47690130 GTTATAATTA
Statistics
Matches: 101, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
91 101 1.00
ACGTcount: A:0.44, C:0.04, G:0.05, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTGTCAAGAAATTTATGAAATCATATATCATTATTAAATTATA
TGTAACAATAATTATTTTAAATTATA
Found at i:47690102 original size:26 final size:28
Alignment explanation
Indices: 47690044--47690104 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
47690034 TATTGTCAAT
* *
47690044 AATTTTATGAAATCATATATTATTATTA
1 AATTATATGAAATAATATATTATTATTA
*
47690072 AATTATATGTAATAATA-ATTATT-TTA
1 AATTATATGAAATAATATATTATTATTA
47690098 AATTATA
1 AATTATA
47690105 CAAATTCATA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 10 0.33
27 6 0.20
28 14 0.47
ACGTcount: A:0.46, C:0.02, G:0.03, T:0.49
Consensus pattern (28 bp):
AATTATATGAAATAATATATTATTATTA
Found at i:47690221 original size:59 final size:58
Alignment explanation
Indices: 47690156--47690464 Score: 172
Period size: 59 Copynumber: 5.2 Consensus size: 58
47690146 ATTTTATTAA
*
47690156 ATCATATATTTTAAATAAAATATATTTAATATTAATTATTTCAAATTATATTTTATAGT
1 ATCATATATTTTAAGTAAAATATATTTAATATTAATTATTT-AAATTATATTTTATAGT
* * ** *
47690215 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTA-TT-AA-GA-ATTTTAT-GA
1 ATC--ATA-TAT--TTTAAGTAAAAT-ATAT-TTAATATTAATTATTTAAATTATATTTTATAG-
*
47690275 A
58 T
* * * *
47690276 ATTATATATTTTAATTATAATATATTTAATAATT-ATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAAGTAAAATATATTTAAT-ATTAATTAT-TTAAATTATATTTTATAGT
* * * *
47690335 ATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTA-TT-AA-GA-ATTTTATTA-
1 ATC--ATA-TAT--TTTAAGTAAAAT-ATAT-TTAATATTAATTATTTAAATTATATTTTA-TAG
*
47690395 A
58 T
* * * * *
47690396 ATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGT
1 ATCATATATTTTAAGTAAAATATATTTAATATTAATTAT-TTAAATTATATTTTATAGT
47690455 ATCATATATT
1 ATCATATATT
47690465 ATGATTTGAG
Statistics
Matches: 183, Mismatches: 37, Indels: 60
0.65 0.13 0.21
Matches are distributed among these distances:
54 18 0.10
55 11 0.06
56 20 0.11
57 2 0.01
58 10 0.05
59 33 0.18
60 2 0.01
61 23 0.13
62 10 0.05
63 3 0.02
64 19 0.10
65 13 0.07
66 19 0.10
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.50
Consensus pattern (58 bp):
ATCATATATTTTAAGTAAAATATATTTAATATTAATTATTTAAATTATATTTTATAGT
Found at i:47690269 original size:120 final size:120
Alignment explanation
Indices: 47690145--47690557 Score: 704
Period size: 120 Copynumber: 3.4 Consensus size: 120
47690135 AATTATTTTA
* * * *
47690145 AATTTTATTAAATCATATATTTTAAATAAAATATATTTAATATTAATTAT-TTCAAATTATATTT
1 AATTTTATTAAATTATATATTTTAAATATAATATATTTAATAATAATTATGTT-AATTTATATTT
47690209 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
* * *
47690265 AATTTTATGAAATTATATATTTTAATTATAATATATTTAATAATTATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAAATATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
47690330 ATAGTATCATATATTATGATTTGAGTAAATTCATATAATAATATTAATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
*
47690385 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAAATATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
47690450 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAG
66 ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
47690505 AATTTTATTAAATTATATA-TTTAAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAAA-TATAATATATTTAATAATAATTATGTT
47690558 TAAATATGAT
Statistics
Matches: 278, Mismatches: 13, Indels: 4
0.94 0.04 0.01
Matches are distributed among these distances:
119 5 0.02
120 271 0.97
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAAATATAATATATTTAATAATAATTATGTTAATTTATATTTT
ATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
Found at i:47690425 original size:15 final size:15
Alignment explanation
Indices: 47690390--47690441 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
47690380 TTAAGAATTT
*
47690390 TATTAAATTAT-ATA
1 TATTTAATTATAATA
47690404 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
47690418 TATTTAATAATAAT-
1 TATTTAATTATAATA
47690432 TATGTTAATT
1 TAT-TTAATT
47690442 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Done.