Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr10
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: 95480121
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.31
Warning! 2980117 characters in sequence are not A, C, G, or T
File 167 of 284
Found at i:56137758 original size:44 final size:45
Alignment explanation
Indices: 56137709--56137803 Score: 129
Period size: 45 Copynumber: 2.1 Consensus size: 45
56137699 TTACACCTCT
* * *
56137709 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
** *
56137753 ATTACATTCAACCAAACAGTTGATTTGCTATTACACATCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
56137798 ATTACA
1 ATTACA
56137804 CCTCTAATCC
Statistics
Matches: 44, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
44 18 0.41
45 26 0.59
ACGTcount: A:0.34, C:0.26, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACATCTATTCC
Found at i:56137803 original size:16 final size:16
Alignment explanation
Indices: 56137784--56137835 Score: 77
Period size: 16 Copynumber: 3.2 Consensus size: 16
56137774 GATTTGCTAT
* * *
56137784 TACACATCTATTCCAT
1 TACACCTCTAATCCAA
56137800 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56137816 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
56137832 TACA
1 TACA
56137836 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.37, C:0.35, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:56143377 original size:41 final size:42
Alignment explanation
Indices: 56143234--56143400 Score: 185
Period size: 42 Copynumber: 4.0 Consensus size: 42
56143224 GATCACAAAT
* * * ** **
56143234 ATCGATGCCGATAGCCCAGCTATGGTCTTACACGATGTCTCGT
1 ATCGATGCC-ATATCCCAGATATGGTCTTATACGAAATCTCAA
* * *
56143277 ATCGATGCCATGTCCCAGACATGGTCTTACACGAAATCTCAA
1 ATCGATGCCATATCCCAGATATGGTCTTATACGAAATCTCAA
* *
56143319 ATCGATGCCATATCCCAGATATGATCTCATACGAAATC-CATA
1 ATCGATGCCATATCCCAGATATGGTCTTATACGAAATCTCA-A
*
56143361 AT-GATGCCATATCCCAGATATGGTCTTATACGTAATCTCA
1 ATCGATGCCATATCCCAGATATGGTCTTATACGAAATCTCA
56143401 TTAACCCTAA
Statistics
Matches: 106, Mismatches: 16, Indels: 5
0.83 0.13 0.04
Matches are distributed among these distances:
41 34 0.32
42 63 0.59
43 9 0.08
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.28
Consensus pattern (42 bp):
ATCGATGCCATATCCCAGATATGGTCTTATACGAAATCTCAA
Found at i:56145190 original size:50 final size:50
Alignment explanation
Indices: 56145098--56145195 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 50
56145088 AGCTCTGAAT
* * * * *
56145098 CAATATGCTCTTATGAGCTGTAAACAATAAGCTCCTCCGAGCT-AAATAA
1 CAATAAGCTCTTATGAACTGAAAACAATAAGCTCATACGAGCTGAAATAA
* *
56145147 CAATAAGCTCTTCTGAACTGAATAACAATAAGCTCATATGAGCTGAAAT
1 CAATAAGCTCTTATGAACTGAA-AACAATAAGCTCATACGAGCTGAAAT
56145196 CTATAACCCT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
49 18 0.45
50 18 0.45
51 4 0.10
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (50 bp):
CAATAAGCTCTTATGAACTGAAAACAATAAGCTCATACGAGCTGAAATAA
Found at i:56145192 original size:25 final size:25
Alignment explanation
Indices: 56145079--56145193 Score: 101
Period size: 25 Copynumber: 4.6 Consensus size: 25
56145069 GTACATGCAT
*
56145079 GCTCATATGAGCTCTGAAT--CAATAT
1 GCTCATATGAG--CTGAATAACAATAA
* *
56145104 GCTCTTATGAGCTGTA-AACAATAA
1 GCTCATATGAGCTGAATAACAATAA
* ** *
56145128 GCTCCTCCGAGCTAAATAACAATAA
1 GCTCATATGAGCTGAATAACAATAA
* * *
56145153 GCTCTTCTGAACTGAATAACAATAA
1 GCTCATATGAGCTGAATAACAATAA
56145178 GCTCATATGAGCTGAA
1 GCTCATATGAGCTGAA
56145194 ATCTATAACC
Statistics
Matches: 72, Mismatches: 15, Indels: 6
0.77 0.16 0.06
Matches are distributed among these distances:
23 4 0.06
24 16 0.22
25 52 0.72
ACGTcount: A:0.37, C:0.21, G:0.16, T:0.27
Consensus pattern (25 bp):
GCTCATATGAGCTGAATAACAATAA
Found at i:56147166 original size:75 final size:75
Alignment explanation
Indices: 56147033--56147176 Score: 261
Period size: 75 Copynumber: 1.9 Consensus size: 75
56147023 TCCTATATCC
56147033 CTAAACCGTGTAACTCTCTGTTTTGCAATGCATAAACAAATTGATGTCACACGACCAAGTCACAC
1 CTAAACCGTGTAACTCTCTGTTTTGCAATGCATAAACAAATTGATGTCACACGACCAAGTCACAC
56147098 GCCCATGTCG
66 GCCCATGTCG
* * *
56147108 CTAACCCGTGTAACTCTCTGTTTTGCAATGCATGAACAAATTGATGTCACACGGCCAAGTCACAC
1 CTAAACCGTGTAACTCTCTGTTTTGCAATGCATAAACAAATTGATGTCACACGACCAAGTCACAC
56147173 GCCC
66 GCCC
56147177 GTGTGCCAGG
Statistics
Matches: 66, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
75 66 1.00
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (75 bp):
CTAAACCGTGTAACTCTCTGTTTTGCAATGCATAAACAAATTGATGTCACACGACCAAGTCACAC
GCCCATGTCG
Found at i:56153467 original size:72 final size:71
Alignment explanation
Indices: 56153350--56153492 Score: 250
Period size: 72 Copynumber: 2.0 Consensus size: 71
56153340 TCGGAAAGCG
*
56153350 GTTTCGGGACCGCTAAATTGAGTAACCAAATTATTTGAACATGATATTTATTGTCTAAAATAAAT
1 GTTTCGGGACCGCTAAACTGAGTAACCAAATTATTTGAACATGATATTTATTGTCT-AAATAAAT
56153415 GTGTGAA
65 GTGTGAA
* *
56153422 GTTTCGGGACCGCTAAACTGAGTCACCAAATTATTTGAATATGATATTTATTGTCTAAATAAATG
1 GTTTCGGGACCGCTAAACTGAGTAACCAAATTATTTGAACATGATATTTATTGTCTAAATAAATG
56153487 TGTGAA
66 TGTGAA
56153493 AATTTTAAGC
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
71 15 0.22
72 53 0.78
ACGTcount: A:0.35, C:0.12, G:0.18, T:0.35
Consensus pattern (71 bp):
GTTTCGGGACCGCTAAACTGAGTAACCAAATTATTTGAACATGATATTTATTGTCTAAATAAATG
TGTGAA
Found at i:56158399 original size:47 final size:47
Alignment explanation
Indices: 56158346--56158756 Score: 750
Period size: 47 Copynumber: 8.7 Consensus size: 47
56158336 TTAGGATTCT
56158346 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
56158393 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
56158440 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
56158487 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
56158534 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
56158581 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
56158628 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * * * *
56158675 ATGTGATGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCA
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
* * *
56158722 ACGTGATGGATGTGAAAGTGTATAAATGTGATAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAG
56158757 TCCCGAAGGG
Statistics
Matches: 354, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 354 1.00
ACGTcount: A:0.32, C:0.08, G:0.30, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:56158931 original size:37 final size:37
Alignment explanation
Indices: 56158875--56158953 Score: 122
Period size: 37 Copynumber: 2.1 Consensus size: 37
56158865 CCGAGCTCTA
* * *
56158875 AAGACCCGATGACTACGTGTGGGGATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
*
56158912 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
56158949 AAGAC
1 AAGAC
56158954 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.24, C:0.19, G:0.32, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:56161937 original size:40 final size:38
Alignment explanation
Indices: 56161787--56161952 Score: 152
Period size: 38 Copynumber: 4.3 Consensus size: 38
56161777 ATTTGATGTG
* ** * *
56161787 TATCCGGGCTTAAAGACCCGCAGGCTTTATGCTAGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
* *
56161827 TATCCGGGTTAAATCTCGCAGGCTTCGTGTTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * *
56161865 TATCCGGGTTAAATCCCGCAGGCCTAGAGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
* * * *
56161903 TATCTGAGTTTAAAGTCCCGTAGGCTTCGTGCTGGTGTTA
1 TATCCG-GGTTAAA-TCCCGCAGGCTTCGTGCTGGTATTA
* *
56161943 TGTTCGGGTT
1 TATCCGGGTT
56161953 TTATACCTCG
Statistics
Matches: 101, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
38 56 0.55
39 14 0.14
40 31 0.31
ACGTcount: A:0.20, C:0.20, G:0.27, T:0.33
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
Found at i:56162986 original size:81 final size:81
Alignment explanation
Indices: 56162898--56163094 Score: 358
Period size: 81 Copynumber: 2.4 Consensus size: 81
56162888 AACCATCTGA
*
56162898 TACACGTAGTAGCCTGCACTTAGTACTACACACGTAATCGAAGTTATCGGGTACGGACTACACAT
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTAATCGAAGTTATCGGGTACGCACTACACAT
* *
56162963 GCGACCAATAATTCGG
66 GCGACCAATAATCCAG
*
56162979 TACACGTAGTAGCCTACACTTAGTACTACACACGTAATCGAAGTTATCGGGTACGCACTACACAT
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGTAATCGAAGTTATCGGGTACGCACTACACAT
56163044 GCGACCAATAATCCAG
66 GCGACCAATAATCCAG
56163060 TACACGTAGTAGCCTGCACTTAGTACTACACACGT
1 TACACGTAGTAGCCTGCACTTAGTACTACACACGT
56163095 GACCTCACAA
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
81 111 1.00
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (81 bp):
TACACGTAGTAGCCTGCACTTAGTACTACACACGTAATCGAAGTTATCGGGTACGCACTACACAT
GCGACCAATAATCCAG
Found at i:56169544 original size:27 final size:27
Alignment explanation
Indices: 56169480--56169532 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
56169470 GATCCCAGTT
* *
56169480 TGTAAATTCACCGAAATACCCTTGTAG
1 TGTAAAATGACCGAAATACCCTTGTAG
56169507 TGTAAAATGACCGTAAA-ACCCTTGTA
1 TGTAAAATGACCG-AAATACCCTTGTA
56169533 TGGTAGAATG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 20 0.87
28 3 0.13
ACGTcount: A:0.36, C:0.21, G:0.15, T:0.28
Consensus pattern (27 bp):
TGTAAAATGACCGAAATACCCTTGTAG
Found at i:56169973 original size:27 final size:28
Alignment explanation
Indices: 56169940--56169999 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 28
56169930 GCATCTGATA
* **
56169940 CTGATTCTG-TATTGGGCTTTGGCCCAC
1 CTGATTCTGTTATTAGGCTAAGGCCCAC
56169967 CTGATTCTGTTATTAGGCTAAGGCCCAC
1 CTGATTCTGTTATTAGGCTAAGGCCCAC
56169995 CTGAT
1 CTGAT
56170000 GCTGCTTCTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 9 0.31
28 20 0.69
ACGTcount: A:0.17, C:0.25, G:0.23, T:0.35
Consensus pattern (28 bp):
CTGATTCTGTTATTAGGCTAAGGCCCAC
Found at i:56174260 original size:62 final size:62
Alignment explanation
Indices: 56174163--56174286 Score: 248
Period size: 62 Copynumber: 2.0 Consensus size: 62
56174153 TTTAAGTTTC
56174163 GATGAAGAATGTGTTGAGGAAAGAAATTGATCTTGCTAAAAATATAAATTCTAAATGCTCAT
1 GATGAAGAATGTGTTGAGGAAAGAAATTGATCTTGCTAAAAATATAAATTCTAAATGCTCAT
56174225 GATGAAGAATGTGTTGAGGAAAGAAATTGATCTTGCTAAAAATATAAATTCTAAATGCTCAT
1 GATGAAGAATGTGTTGAGGAAAGAAATTGATCTTGCTAAAAATATAAATTCTAAATGCTCAT
56174287 ATATGTAATA
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 62 1.00
ACGTcount: A:0.42, C:0.08, G:0.19, T:0.31
Consensus pattern (62 bp):
GATGAAGAATGTGTTGAGGAAAGAAATTGATCTTGCTAAAAATATAAATTCTAAATGCTCAT
Found at i:56175315 original size:27 final size:27
Alignment explanation
Indices: 56175284--56175461 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56175274 TAAATTGTAC
56175284 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56175311 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56175337 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56175365 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56175393 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56175420 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56175447 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56175462 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56175398 original size:82 final size:81
Alignment explanation
Indices: 56175285--56175440 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56175275 AAATTGTACA
* *
56175285 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56175349 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56175366 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56175431 TGCGAGTTGA
65 TGCGAATTGA
56175441 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56175452 original size:82 final size:81
Alignment explanation
Indices: 56175281--56175461 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
56175271 GATTAAATTG
* *
56175281 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56175346 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56175362 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56175426 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56175444 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56175462 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56176594 original size:46 final size:46
Alignment explanation
Indices: 56176527--56176620 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
56176517 GTAATGGGCA
*
56176527 AAGGTCAGTGTAGTCGACCCCTTCAACATGGGAGACTTTGACTAAT
1 AAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTTTGACTAAT
* *
56176573 AAGGTCAGTGTAGTCGACCCCTGCAATATGGGAGATTTTGACTAAT
1 AAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTTTGACTAAT
56176619 AA
1 AA
56176621 ACTGTACTAA
Statistics
Matches: 45, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (46 bp):
AAGGTCAGTGTAGTCGACCCCTGCAACATGGGAGACTTTGACTAAT
Found at i:56179654 original size:57 final size:57
Alignment explanation
Indices: 56179566--56179677 Score: 179
Period size: 57 Copynumber: 2.0 Consensus size: 57
56179556 AAATGTTACC
* *
56179566 GAAGTCCGGAGCTTTCTAGGGCTTGCCGGTTATTACCGATGATTTGTCAAAGGTTCT
1 GAAGTCCGGAGCTTTCTAGGGCTCGCCGGTTATTACCGACGATTTGTCAAAGGTTCT
* * *
56179623 GAAGTTCGGAGCTTTTTGGGGCTCGCCGGTTATTACCGACGATTTGTCAAAGGTT
1 GAAGTCCGGAGCTTTCTAGGGCTCGCCGGTTATTACCGACGATTTGTCAAAGGTT
56179678 TCTCGATGAT
Statistics
Matches: 50, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
57 50 1.00
ACGTcount: A:0.19, C:0.19, G:0.29, T:0.33
Consensus pattern (57 bp):
GAAGTCCGGAGCTTTCTAGGGCTCGCCGGTTATTACCGACGATTTGTCAAAGGTTCT
Found at i:56180315 original size:50 final size:50
Alignment explanation
Indices: 56180240--56180339 Score: 182
Period size: 50 Copynumber: 2.0 Consensus size: 50
56180230 TAGTAGCTGA
*
56180240 ATTAAAAGCCAAACCATTATTGACTCATCAAATTCGTGAAGCTCAGAAAG
1 ATTAAAAGCCAAACCATTATTGACTCACCAAATTCGTGAAGCTCAGAAAG
*
56180290 ATTAAAAGCTAAACCATTATTGACTCACCAAATTCGTGAAGCTCAGAAAG
1 ATTAAAAGCCAAACCATTATTGACTCACCAAATTCGTGAAGCTCAGAAAG
56180340 TCGATGATGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 48 1.00
ACGTcount: A:0.42, C:0.20, G:0.14, T:0.24
Consensus pattern (50 bp):
ATTAAAAGCCAAACCATTATTGACTCACCAAATTCGTGAAGCTCAGAAAG
Found at i:56182737 original size:21 final size:22
Alignment explanation
Indices: 56182711--56182751 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
56182701 ACCTAGTTTC
*
56182711 TTTCTTTAGATT-TAGTTTTGT
1 TTTCTTAAGATTCTAGTTTTGT
*
56182732 TTTCTTAAGGTTCTAGTTTT
1 TTTCTTAAGATTCTAGTTTT
56182752 TAGTTTATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 10 0.59
22 7 0.41
ACGTcount: A:0.15, C:0.07, G:0.15, T:0.63
Consensus pattern (22 bp):
TTTCTTAAGATTCTAGTTTTGT
Found at i:56186721 original size:21 final size:21
Alignment explanation
Indices: 56186686--56186812 Score: 168
Period size: 21 Copynumber: 6.0 Consensus size: 21
56186676 CTCGCGTGGA
56186686 TCAGCTCTTTCGAGCTTCTGT
1 TCAGCTCTTTCGAGCTTCTGT
* *
56186707 TTAGCTCCTTT-GAGCTTCTAT
1 TCAGCT-CTTTCGAGCTTCTGT
* * *
56186728 TTAGCTCTTACGAGCTTCTAT
1 TCAGCTCTTTCGAGCTTCTGT
56186749 TCAGCT-TTTACGAGCTTCTGT
1 TCAGCTCTTT-CGAGCTTCTGT
*
56186770 TCAGCTCTTACGAGCTTCTGT
1 TCAGCTCTTTCGAGCTTCTGT
56186791 TCAGCTCTTTCGAGCTTCTGT
1 TCAGCTCTTTCGAGCTTCTGT
56186812 T
1 T
56186813 GCCATGTTCA
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
20 5 0.05
21 83 0.88
22 6 0.06
ACGTcount: A:0.13, C:0.26, G:0.17, T:0.43
Consensus pattern (21 bp):
TCAGCTCTTTCGAGCTTCTGT
Found at i:56187651 original size:28 final size:28
Alignment explanation
Indices: 56187611--56187707 Score: 124
Period size: 28 Copynumber: 3.5 Consensus size: 28
56187601 ACGGCTTGAG
*
56187611 ACACGAGTGTGTGTTTCAGCCGTGTATA
1 ACACGAGCGTGTGTTTCAGCCGTGTATA
*
56187639 ACAC-AGGCGTGTGTTTCAGCCGTGTATT
1 ACACGA-GCGTGTGTTTCAGCCGTGTATA
* **
56187667 ACACGAGCGTGTGCTTCAGTTGTGTATA
1 ACACGAGCGTGTGTTTCAGCCGTGTATA
*
56187695 ACACGAGCATGTG
1 ACACGAGCGTGTG
56187708 AGGCTATTTT
Statistics
Matches: 60, Mismatches: 7, Indels: 4
0.85 0.10 0.06
Matches are distributed among these distances:
27 1 0.02
28 58 0.97
29 1 0.02
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.30
Consensus pattern (28 bp):
ACACGAGCGTGTGTTTCAGCCGTGTATA
Found at i:56191329 original size:31 final size:31
Alignment explanation
Indices: 56191291--56191362 Score: 144
Period size: 31 Copynumber: 2.3 Consensus size: 31
56191281 GGGTCGGGAT
56191291 ACGGGCGTGTGTGACCACACGGCCTGATCAC
1 ACGGGCGTGTGTGACCACACGGCCTGATCAC
56191322 ACGGGCGTGTGTGACCACACGGCCTGATCAC
1 ACGGGCGTGTGTGACCACACGGCCTGATCAC
56191353 ACGGGCGTGT
1 ACGGGCGTGT
56191363 CCCATATCCA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.18, C:0.31, G:0.35, T:0.17
Consensus pattern (31 bp):
ACGGGCGTGTGTGACCACACGGCCTGATCAC
Found at i:56191342 original size:18 final size:18
Alignment explanation
Indices: 56191291--56191343 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
56191281 GGGTCGGGAT
56191291 ACGGGCGTGTGTGACCAC
1 ACGGGCGTGTGTGACCAC
* *
56191309 AC-GGC----CTGATCAC
1 ACGGGCGTGTGTGACCAC
56191322 ACGGGCGTGTGTGACCAC
1 ACGGGCGTGTGTGACCAC
56191340 ACGG
1 ACGG
56191344 CCTGATCACA
Statistics
Matches: 26, Mismatches: 4, Indels: 10
0.65 0.10 0.25
Matches are distributed among these distances:
13 8 0.31
14 3 0.12
17 3 0.12
18 12 0.46
ACGTcount: A:0.19, C:0.30, G:0.36, T:0.15
Consensus pattern (18 bp):
ACGGGCGTGTGTGACCAC
Found at i:56193518 original size:47 final size:47
Alignment explanation
Indices: 56193456--56193871 Score: 580
Period size: 47 Copynumber: 8.6 Consensus size: 47
56193446 CCCTTCGGGA
* * * * * *
56193456 CTTATCACATTTATACACTTTCACATCCATCAAATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56193503 CCTGTCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56193550 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
56193597 CTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
*
56193648 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56193695 CTTATCACATATATATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56193744 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* * *
56193791 CTTATCACATATATATATACACTTTCACATTTATCACATTGGCCATTCGGC
1 CTTATCAC----ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
56193842 CTTATCACATATATACACTTTCACATTCAT
1 CTTATCACATATATACACTTTCACATTCAT
56193872 TCAAATATAC
Statistics
Matches: 331, Mismatches: 28, Indels: 20
0.87 0.07 0.05
Matches are distributed among these distances:
47 199 0.60
49 43 0.13
51 89 0.27
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:56193653 original size:98 final size:96
Alignment explanation
Indices: 56193456--56193871 Score: 656
Period size: 98 Copynumber: 4.3 Consensus size: 96
56193446 CCCTTCGGGA
* * * * * * * *
56193456 CTTATCACATTTATACACTTTCACATCCATCAAATTGGCCACTCGGCCCTGTCAC--ATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
* * *
56193519 ACTTTCACATTCATCACATCGGCTATTAGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
56193550 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAT
56193615 ACACTTTCACATTCATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATTGGCCATTCGGC
*
56193648 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
*
56193713 ACTTTCACATCCATCACATTGGCCATTCGGC
66 ACTTTCACATTCATCACATTGGCCATTCGGC
56193744 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAT
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC--ATATATAT
*
56193809 ACACTTTCACATTTATCACATTGGCCATTCGGC
64 ACACTTTCACATTCATCACATTGGCCATTCGGC
56193842 CTTATCACATATATACACTTTCACATTCAT
1 CTTATCACATATATACACTTTCACATTCAT
56193872 TCAAATATAC
Statistics
Matches: 300, Mismatches: 16, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
94 47 0.16
96 94 0.31
98 159 0.53
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (96 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
ACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:56193783 original size:194 final size:192
Alignment explanation
Indices: 56193456--56193877 Score: 684
Period size: 194 Copynumber: 2.2 Consensus size: 192
56193446 CCCTTCGGGA
* * * *
56193456 CTTATCACATT-TATACACTTTCACATCCATCAAATTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCAC-TTATATACACTTTCACATTCATCAAATCGGCCACTAGGCCCTATCACATATATACA
* *
56193520 CTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
65 CTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACAT
56193585 CGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
130 CGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
56193648 CTTATCACTTATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACTTATATACACTTTCACATTCATCAAATCGGCCACTAGGCCCTATCAC--ATATATAC
* *
56193713 ACTTTCACATCCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACA
*
56193778 TCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTTATCACATTGGCCATTCGGC
129 TCGGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
56193842 CTTATCACATATATACACTTTCACATTCATTCAAAT
1 CTTATCACTTATATACACTTTCACATTCA-TCAAAT
56193878 ATACTTCACA
Statistics
Matches: 212, Mismatches: 14, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
191 2 0.01
192 45 0.21
194 160 0.75
195 5 0.02
ACGTcount: A:0.29, C:0.29, G:0.08, T:0.34
Consensus pattern (192 bp):
CTTATCACTTATATACACTTTCACATTCATCAAATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATCCATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGCCTTATCACATATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:56194237 original size:32 final size:32
Alignment explanation
Indices: 56194196--56194259 Score: 119
Period size: 32 Copynumber: 2.0 Consensus size: 32
56194186 TTCCTGAATA
*
56194196 TAGACTCGTATATCTTTCATCCATAAAATTTC
1 TAGACTCGTATATCTTCCATCCATAAAATTTC
56194228 TAGACTCGTATATCTTCCATCCATAAAATTTC
1 TAGACTCGTATATCTTCCATCCATAAAATTTC
56194260 CAGAATTTTA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.23, G:0.06, T:0.39
Consensus pattern (32 bp):
TAGACTCGTATATCTTCCATCCATAAAATTTC
Found at i:56197282 original size:25 final size:25
Alignment explanation
Indices: 56197245--56197296 Score: 70
Period size: 25 Copynumber: 2.1 Consensus size: 25
56197235 AAGGAATTCG
56197245 CACACACACAGTGC-CTCTAATCATT
1 CACACACACAGTGCTCT-TAATCATT
* *
56197270 CACACACATAGTGCTCTTATTCATT
1 CACACACACAGTGCTCTTAATCATT
56197295 CA
1 CA
56197297 TTAATACACA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 22 0.92
26 2 0.08
ACGTcount: A:0.31, C:0.33, G:0.08, T:0.29
Consensus pattern (25 bp):
CACACACACAGTGCTCTTAATCATT
Found at i:56197504 original size:40 final size:40
Alignment explanation
Indices: 56197478--56198023 Score: 921
Period size: 40 Copynumber: 13.7 Consensus size: 40
56197468 TGATTACTCT
* * * *
56197478 TCGGGACCTAGCCCGGATATAACACCAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* ** * *
56197518 TTGGGGTTTAGCACGGATATATCACTAGCACGAATGCTCT
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* * *
56197558 TCGGAACTTAACCCGGATACATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
56197598 TCGGGACTTAGCCCAGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
56197638 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
56197678 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
56197718 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
56197758 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
56197798 TCGGGACTTAGCCCAGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
56197838 TCAGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
* *
56197878 TTGGGACTTAGCCCAGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
56197918 TCGGGACTTAGCCCGGACATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
56197958 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
1 TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
*
56197998 TCGGGACTTAGCCCGGATATAACACT
1 TCGGGACTTAGCCCGGATATATCACT
56198024 CTCAATTCTC
Statistics
Matches: 475, Mismatches: 31, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 475 1.00
ACGTcount: A:0.26, C:0.29, G:0.22, T:0.23
Consensus pattern (40 bp):
TCGGGACTTAGCCCGGATATATCACTAGCACGAATGCTCC
Found at i:56198211 original size:38 final size:38
Alignment explanation
Indices: 56198169--56198246 Score: 147
Period size: 38 Copynumber: 2.1 Consensus size: 38
56198159 GTCATAACAC
*
56198169 TCTTTTAAAATTGCATCACTTATACCCTTATAATTCAA
1 TCTTTCAAAATTGCATCACTTATACCCTTATAATTCAA
56198207 TCTTTCAAAATTGCATCACTTATACCCTTATAATTCAA
1 TCTTTCAAAATTGCATCACTTATACCCTTATAATTCAA
56198245 TC
1 TC
56198247 CAAATCGAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
38 39 1.00
ACGTcount: A:0.33, C:0.23, G:0.03, T:0.41
Consensus pattern (38 bp):
TCTTTCAAAATTGCATCACTTATACCCTTATAATTCAA
Found at i:56199551 original size:47 final size:47
Alignment explanation
Indices: 56199489--56199616 Score: 184
Period size: 47 Copynumber: 2.7 Consensus size: 47
56199479 CTTCGGCACT
* * * * *
56199489 TATCACATTTCTACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
* * *
56199536 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
56199583 TATCACATATATACACTTTCACATCCATCACATC
1 TATCACATATATACACTTTCACATCCATCACATC
56199617 NNNNNNNNNN
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.28, C:0.34, G:0.07, T:0.31
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCC
Found at i:56201405 original size:85 final size:85
Alignment explanation
Indices: 56201276--56201539 Score: 519
Period size: 85 Copynumber: 3.1 Consensus size: 85
56201266 TATTTTATTG
*
56201276 CCCATGCCCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
56201341 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
56201361 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
56201426 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
56201446 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
1 CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
56201511 TAGCCATAACATCTTGTCCA
66 TAGCCATAACATCTTGTCCA
56201531 CCCATGCTC
1 CCCATGCTC
56201540 ATGGCCGGCC
Statistics
Matches: 178, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
85 178 1.00
ACGTcount: A:0.27, C:0.27, G:0.08, T:0.38
Consensus pattern (85 bp):
CCCATGCTCTTTATTTTATTAATCCTTACATAATGCACTACCCCAACATGTTTATGACATGTTTT
TAGCCATAACATCTTGTCCA
Found at i:56203981 original size:27 final size:26
Alignment explanation
Indices: 56203936--56204053 Score: 101
Period size: 27 Copynumber: 4.4 Consensus size: 26
56203926 GGGCATAATC
* * *
56203936 GTCATATTACCATATAGGGGTATTACA
1 GTCATTTTACC-TACAGGGGTATTACG
* * *
56203963 GTCATTTTGCTCTACAGGGATATTTCG
1 GTCATTTTAC-CTACAGGGGTATTACG
* * * *
56203990 GTAATTTTACACTTCAAGGGTATTTCG
1 GTCATTTTAC-CTACAGGGGTATTACG
*
56204017 GTCATTTTACCTTACAGGGGCATTACG
1 GTCATTTTACC-TACAGGGGTATTACG
56204044 GTCATTTTAC
1 GTCATTTTAC
56204054 AAACCAGAGG
Statistics
Matches: 72, Mismatches: 17, Indels: 4
0.77 0.18 0.04
Matches are distributed among these distances:
26 1 0.01
27 70 0.97
28 1 0.01
ACGTcount: A:0.25, C:0.18, G:0.19, T:0.38
Consensus pattern (26 bp):
GTCATTTTACCTACAGGGGTATTACG
Found at i:56204111 original size:27 final size:27
Alignment explanation
Indices: 56203978--56204122 Score: 123
Period size: 27 Copynumber: 5.3 Consensus size: 27
56203968 TTTGCTCTAC
**
56203978 AGGGATATTTCGGTAATTTTACACTTCA
1 AGGG-TATTTCGGTAATTTTACAAATCA
* **
56204006 AGGGTATTTCGGTCATTTTAC-CTTACA
1 AGGGTATTTCGGTAATTTTACAAAT-CA
* * * * *
56204033 GGGGCATTACGGTCATTTTACAAA-CC
1 AGGGTATTTCGGTAATTTTACAAATCA
*
56204059 AGAGGTATTTTGGTAATTTTACAAATCA
1 AG-GGTATTTCGGTAATTTTACAAATCA
* *
56204087 AGGGTATTTTGGTAATTTTACAAATCG
1 AGGGTATTTCGGTAATTTTACAAATCA
*
56204114 GGGGTATTT
1 AGGGTATTT
56204123 ATGACCCATC
Statistics
Matches: 98, Mismatches: 15, Indels: 9
0.80 0.12 0.07
Matches are distributed among these distances:
26 5 0.05
27 86 0.88
28 7 0.07
ACGTcount: A:0.28, C:0.13, G:0.21, T:0.38
Consensus pattern (27 bp):
AGGGTATTTCGGTAATTTTACAAATCA
Found at i:56206036 original size:40 final size:40
Alignment explanation
Indices: 56205992--56206259 Score: 421
Period size: 40 Copynumber: 6.7 Consensus size: 40
56205982 GCAAACACAT
* * *
56205992 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
56206032 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
56206072 TTGCCTTCGGGTCTTAGCCCGGATATATCAACGT-GCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAAC-TCGCATAA
* * *
56206112 TTGCCTTCGGGTCATAGCCCGGACATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* * *
56206152 TTGCCTTCGGGTCATAGCCCGGACATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
56206192 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCGTAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
56206232 TTGCCTTCGGGTCTTAGCCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
56206260 TCCAATGCTC
Statistics
Matches: 219, Mismatches: 7, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
39 1 0.00
40 217 0.99
41 1 0.00
ACGTcount: A:0.22, C:0.27, G:0.22, T:0.29
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:56224004 original size:22 final size:22
Alignment explanation
Indices: 56223979--56224028 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
56223969 ACGGCTCAAC
*
56223979 GCCATAGACAGGACAACACATA
1 GCCATACACAGGACAACACATA
***
56224001 GCCATACACAGGATGGCACATA
1 GCCATACACAGGACAACACATA
56224023 GCCATA
1 GCCATA
56224029 AACATCGTAG
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.40, C:0.28, G:0.20, T:0.12
Consensus pattern (22 bp):
GCCATACACAGGACAACACATA
Found at i:56224269 original size:22 final size:22
Alignment explanation
Indices: 56224235--56224299 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
56224225 GCAAATACGT
*
56224235 TTGGCACACAGCCATAATCAGG
1 TTGGCACAAAGCCATAATCAGG
* * *
56224257 TTGGCATAGAGCCAT-ATGTAGG
1 TTGGCACAAAGCCATAAT-CAGG
56224279 TTGGCACAAAGCCATAATCAG
1 TTGGCACAAAGCCATAATCAG
56224300 AATAATTGGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 2 0.06
22 31 0.89
23 2 0.06
ACGTcount: A:0.32, C:0.22, G:0.25, T:0.22
Consensus pattern (22 bp):
TTGGCACAAAGCCATAATCAGG
Found at i:56224769 original size:27 final size:27
Alignment explanation
Indices: 56224739--56225060 Score: 225
Period size: 27 Copynumber: 11.7 Consensus size: 27
56224729 TTGGTAAATC
*
56224739 TACAAACCAAGGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * *
56224766 TACAAACCAATGGTATTTCTGTAATTTT
1 TACAAATCAAGGGTATTTCGGTAA-TTT
*
56224794 TA-AAATTCAAGGGTATTTCTGTAATTT
1 TACAAA-TCAAGGGTATTTCGGTAATTT
* * *
56224821 TATAAATTAAGGGTATTTCTGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* *
56224848 TCCAAATCAATGGTATTTCGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * *
56224875 TCCAAATCAGGGGTATTTCAGTAA-TT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * * * *
56224901 TACAAGTTATGGGTATTTTGATAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * *
56224928 TACAGGTCGAGAATCAGGGGTATTTTGATAATTT
1 T--A---C-A-AATCAAGGGTATTTCGGTAATTT
* * *
56224962 TACAAACCAGGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * * *
56224989 TACAAACCAGGGGTATTTTGATAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
* * ** *
56225016 TGCTAATTGAGGGTATTTTGGTAATTT
1 TACAAATCAAGGGTATTTCGGTAATTT
** *
56225043 TGTAAACCAAGGGTATTT
1 TACAAATCAAGGGTATTT
56225061 TAATAATTCT
Statistics
Matches: 246, Mismatches: 38, Indels: 22
0.80 0.12 0.07
Matches are distributed among these distances:
26 19 0.08
27 176 0.72
28 25 0.10
29 2 0.01
32 2 0.01
33 1 0.00
34 21 0.09
ACGTcount: A:0.31, C:0.10, G:0.19, T:0.40
Consensus pattern (27 bp):
TACAAATCAAGGGTATTTCGGTAATTT
Found at i:56224889 original size:54 final size:54
Alignment explanation
Indices: 56224739--56225043 Score: 249
Period size: 54 Copynumber: 5.5 Consensus size: 54
56224729 TTGGTAAATC
* * **
56224739 TACAAACCAAGGGTATTTCGGTAATTTTACAAACCAATGGTATTTCTGTAATTTT
1 TACAAATCAAGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCTGTAA-TTT
* * * *
56224794 TA-AAATTCAAGGGTATTTCTGTAATTTTATAAATTAAGGGTATTTCTGTAATTT
1 TACAAA-TCAAGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCTGTAATTT
* * * *
56224848 TCCAAATCAATGGTATTTCGGTAATTTTCCAAATCAGGGGTATTTCAGTAA-TT
1 TACAAATCAAGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCTGTAATTT
* * * * *
56224901 TACAAGTTATGGGTATTTTGATAATTTTACAGGTCGAGAATCAGGGGTATTT-TGATAATTT
1 TACAAATCAAGGGTATTTCGGTAATTTT--A---C-A-AATCAGGGGTATTTCTG-TAATTT
* * * *
56224962 TACAAACCAGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTT-TGATAATTT
1 TACAAATCAAGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCTG-TAATTT
* * ** *
56225016 TGCTAATTGAGGGTATTTTGGTAATTTT
1 TACAAATCAAGGGTATTTCGGTAATTTT
56225044 GTAAACCAAG
Statistics
Matches: 204, Mismatches: 35, Indels: 23
0.78 0.13 0.09
Matches are distributed among these distances:
53 23 0.11
54 89 0.44
55 45 0.22
56 1 0.00
58 1 0.00
59 3 0.01
60 17 0.08
61 25 0.12
ACGTcount: A:0.30, C:0.10, G:0.19, T:0.41
Consensus pattern (54 bp):
TACAAATCAAGGGTATTTCGGTAATTTTACAAATCAGGGGTATTTCTGTAATTT
Found at i:56225050 original size:54 final size:54
Alignment explanation
Indices: 56224942--56225094 Score: 166
Period size: 54 Copynumber: 2.8 Consensus size: 54
56224932 GGTCGAGAAT
56224942 CAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAAC
1 CAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAAC
* * ** **
56224996 CAGGGGTATTTTGATAATTTTGCTAA-TTGAGGGTATTTTGGTAATTTTGTAAAC
1 CAGGGGTATTTTGATAATTTTACAAACCAG-GGGTATTTTGGTAATTTTACAAAC
* * * ** *
56225050 CAAGGGTATTTTAATAATTCTACCCTA-CAGGGGTATTTTAGTAAT
1 CAGGGGTATTTTGATAATTTTA-CAAACCAGGGGTATTTTGGTAAT
56225095 ACTAGCCTAC
Statistics
Matches: 82, Mismatches: 15, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
53 1 0.01
54 78 0.95
55 3 0.04
ACGTcount: A:0.29, C:0.10, G:0.21, T:0.40
Consensus pattern (54 bp):
CAGGGGTATTTTGATAATTTTACAAACCAGGGGTATTTTGGTAATTTTACAAAC
Found at i:56225083 original size:27 final size:27
Alignment explanation
Indices: 56225053--56225104 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
56225043 TGTAAACCAA
*
56225053 GGGTATTTTAATAATTCTACCCTACAG
1 GGGTATTTTAATAATACTACCCTACAG
* *
56225080 GGGTATTTTAGTAATACTAGCCTAC
1 GGGTATTTTAATAATACTACCCTAC
56225105 GGGTATGAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (27 bp):
GGGTATTTTAATAATACTACCCTACAG
Found at i:56237682 original size:28 final size:29
Alignment explanation
Indices: 56237660--56237753 Score: 129
Period size: 29 Copynumber: 3.3 Consensus size: 29
56237650 TCCCATTCAT
56237660 ATTCATATGGCCCATTAGGCCCAAATCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
*
56237689 CTGT-ATATGGCCCATTAGGCCCAAATCAC
1 AT-TCATATGGCCCATTAGGCCCAAATCAC
* * *
56237718 ATTTATATGGCCCGTTAGGCCC-AGTCAC
1 ATTCATATGGCCCATTAGGCCCAAATCAC
56237746 ATTCATAT
1 ATTCATAT
56237754 TCACGCTTAC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
28 13 0.22
29 44 0.76
30 1 0.02
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.28
Consensus pattern (29 bp):
ATTCATATGGCCCATTAGGCCCAAATCAC
Found at i:56237740 original size:58 final size:57
Alignment explanation
Indices: 56237630--56237740 Score: 150
Period size: 58 Copynumber: 1.9 Consensus size: 57
56237620 AAATTCACAT
* * * *
56237630 ACCTGTATCTGGCCCATTAATCCCATTCATATTCATATGGCCCATTAGGCCCAAATC
1 ACCTGTATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
* * *
56237687 ACCTGTATATGGCCCATTAGGCCCAAATCACATTTATATGGCCCGTTAGGCCCA
1 ACCTGTATATGGCCCATTAAGCCC-AATCACATTCATATGGCCCATTAGGCCCA
56237741 GTCACATTCA
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
57 21 0.46
58 25 0.54
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.28
Consensus pattern (57 bp):
ACCTGTATATGGCCCATTAAGCCCAATCACATTCATATGGCCCATTAGGCCCAAATC
Found at i:56240010 original size:27 final size:27
Alignment explanation
Indices: 56239899--56240156 Score: 260
Period size: 27 Copynumber: 9.6 Consensus size: 27
56239889 TTAGTTTACC
* *
56239899 AAATTACTGAAATA-CCTCCAGTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
56239925 AAATTAC-CAAAGTACTCC-CGGTTTATA
1 AAATTACTGAAA-TAC-CCTCGATTTGTA
* * *
56239952 AAATTACCGAAATACCGTC-AATTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
56239978 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
56240005 AAATTA-TCGAAATACCCTC-AGTTTGCA
1 AAATTACT-GAAATACCCTCGA-TTTGTA
56240032 AAATTACTGAAATACCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* *
56240059 AAATTATTGAAATACCCTCGACTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
* * *
56240086 AAATTAC-CAAAGTACCCCCGATTTATA
1 AAATTACTGAAA-TACCCTCGATTTGTA
** *
56240113 AAATTACCCAAATATCCTCGATTTGTA
1 AAATTACTGAAATACCCTCGATTTGTA
*
56240140 AAATTACTAAAATACCC
1 AAATTACTGAAATACCC
56240157 CTGTAGGGTA
Statistics
Matches: 192, Mismatches: 28, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
25 3 0.02
26 36 0.19
27 142 0.74
28 11 0.06
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (27 bp):
AAATTACTGAAATACCCTCGATTTGTA
Found at i:56240085 original size:81 final size:80
Alignment explanation
Indices: 56239899--56240156 Score: 324
Period size: 81 Copynumber: 3.2 Consensus size: 80
56239889 TTAGTTTACC
* * *
56239899 AAATTACTGAAATA-CCTCCAGTTGTAAAATTACCAAAGTACTCCCGGTTTATAAAATTACCGAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTAC-CCCAGTTTATAAAATTACCGAA
* *
56239963 ATACCGTC-AATTGTA
65 ATACCCTCGATTTGTA
* * ** *
56239978 AAATTACTGAAATACCCTCGATTTGTAAAATTATCGAAA-TACCCTCAGTTTGCAAAATTACTGA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTA-CCAAAGTACCC-CAGTTTATAAAATTACCGA
56240042 AATACCCTCGATTTGTA
64 AATACCCTCGATTTGTA
* * *
56240059 AAATTATTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCCGATTTATAAAATTACCCAA
1 AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCAG-TTTATAAAATTACCGAA
*
56240124 ATATCCTCGATTTGTA
65 ATACCCTCGATTTGTA
*
56240140 AAATTACTAAAATACCC
1 AAATTACTGAAATACCC
56240157 CTGTAGGGTA
Statistics
Matches: 153, Mismatches: 20, Indels: 10
0.84 0.11 0.05
Matches are distributed among these distances:
79 16 0.10
80 48 0.31
81 89 0.58
ACGTcount: A:0.39, C:0.21, G:0.10, T:0.30
Consensus pattern (80 bp):
AAATTACTGAAATACCCTCGACTTGTAAAATTACCAAAGTACCCCAGTTTATAAAATTACCGAAA
TACCCTCGATTTGTA
Found at i:56240171 original size:27 final size:27
Alignment explanation
Indices: 56240141--56240360 Score: 266
Period size: 27 Copynumber: 8.2 Consensus size: 27
56240131 CGATTTGTAA
*
56240141 AATTACTAAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
56240168 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
*
56240195 AATTACTGAAATACCCCTGTAGGTTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
56240222 AATTAC-GAAATACCCCTATATGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
*
56240248 AATTA-TCGGAATACCCCTGTAGGGTAG
1 AATTACT-GAAATACCCCTGTAGGGTAG
*
56240275 AATTACCGAAATACCCCTGTAGGGTAG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * *
56240302 AATTACTAAAATACCCCTGTAGGATGG
1 AATTACTGAAATACCCCTGTAGGGTAG
* * * * *
56240329 AATTACCGAGATA-CCTTGTGGGGTAA
1 AATTACTGAAATACCCCTGTAGGGTAG
56240355 AATTAC
1 AATTAC
56240361 CATTTTCCCC
Statistics
Matches: 164, Mismatches: 26, Indels: 7
0.83 0.13 0.04
Matches are distributed among these distances:
26 35 0.21
27 129 0.79
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (27 bp):
AATTACTGAAATACCCCTGTAGGGTAG
Found at i:56240172 original size:54 final size:54
Alignment explanation
Indices: 56240137--56240360 Score: 301
Period size: 54 Copynumber: 4.2 Consensus size: 54
56240127 TCCTCGATTT
56240137 GTAAAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
1 GTAAAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
* * * * *
56240191 GTAGAATTACTGAAATACCCCTGTAGGTTAGAATTA-CGAAATACCCCTATATG
1 GTAAAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
**
56240244 GTAAAATTA-TCGGAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
1 GTAAAATTACT-AAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
* * * * * *
56240298 GTAGAATTACTAAAATACCCCTGTAGGATGGAATTACCGAGATA-CCTTGTGGG
1 GTAAAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
56240351 GTAAAATTAC
1 GTAAAATTAC
56240361 CATTTTCCCC
Statistics
Matches: 148, Mismatches: 19, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
52 1 0.01
53 62 0.42
54 84 0.57
55 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (54 bp):
GTAAAATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
Found at i:56240264 original size:80 final size:81
Alignment explanation
Indices: 56240141--56240361 Score: 284
Period size: 80 Copynumber: 2.8 Consensus size: 81
56240131 CGATTTGTAA
* * *
56240141 AATTACTAAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAA
1 AATTACTAAAATACCCCTATAGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAA
*
56240206 TACCCCTGTAGGTTAG
66 TACCCCTGTAGGGTAG
* * * *
56240222 AATTAC-GAAATACCCCTATATGGTAAAATTATCGGAATACCCCTGTAGGGTAGAATTACCGAAA
1 AATTACTAAAATACCCCTATAGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAA
56240286 TACCCCTGTAGGGTAG
66 TACCCCTGTAGGGTAG
* * ** * * * *
56240302 AATTACTAAAATACCCCTGTAGGATGGAATTACCGAGATA-CCTTGTGGGGTAAAATTACC
1 AATTACTAAAATACCCCTATAGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACC
56240362 ATTTTCCCCT
Statistics
Matches: 119, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
80 89 0.75
81 30 0.25
ACGTcount: A:0.35, C:0.19, G:0.20, T:0.26
Consensus pattern (81 bp):
AATTACTAAAATACCCCTATAGGGTAAAATTACCGAAATACCCCTGTAGGGTAGAATTACCGAAA
TACCCCTGTAGGGTAG
Found at i:56240274 original size:107 final size:108
Alignment explanation
Indices: 56240150--56240343 Score: 345
Period size: 107 Copynumber: 1.8 Consensus size: 108
56240140 AAATTACTAA
*
56240150 AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTGAAATACCCCTGT
1 AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGT
*
56240215 AGGTTAGAATTA-CGAAATACCCCTATATGGTAAAATTATCGG
66 AGGATAGAATTACCGAAATACCCCTATATGGTAAAATTATCGG
56240257 AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGT
1 AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGT
* *
56240322 AGGATGGAATTACCGAGATACC
66 AGGATAGAATTACCGAAATACC
56240344 TTGTGGGGTA
Statistics
Matches: 82, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
107 74 0.90
108 8 0.10
ACGTcount: A:0.35, C:0.21, G:0.20, T:0.25
Consensus pattern (108 bp):
AATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTACTAAAATACCCCTGT
AGGATAGAATTACCGAAATACCCCTATATGGTAAAATTATCGG
Found at i:56240819 original size:31 final size:31
Alignment explanation
Indices: 56240768--56240866 Score: 144
Period size: 31 Copynumber: 3.2 Consensus size: 31
56240758 TTGCATTCAC
*
56240768 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
56240800 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
56240831 ATTCTGATTCTGATTCTGTCACCTAATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
56240862 ATTCT
1 ATTCT
56240867 AGTTCTGATA
Statistics
Matches: 62, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
31 55 0.89
32 7 0.11
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.49
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:56240866 original size:6 final size:6
Alignment explanation
Indices: 56240791--56240848 Score: 64
Period size: 6 Copynumber: 9.5 Consensus size: 6
56240781 ATTCTGTTAC
* * *
56240791 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
56240840 CTGATT CTG
1 CTGATT CTG
56240849 TCACCTAATT
Statistics
Matches: 44, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
5 2 0.05
6 38 0.86
7 3 0.07
8 1 0.02
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (6 bp):
CTGATT
Found at i:56247168 original size:40 final size:40
Alignment explanation
Indices: 56247120--56247365 Score: 379
Period size: 40 Copynumber: 6.2 Consensus size: 40
56247110 GGACTAAGAT
56247120 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* *
56247160 CCGAAGGCATTTGTGCTAGTTACTATATCTGGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
56247200 CCGAAGGCATTTGTGCTAGTGACTATATCCGAGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
*
56247240 CCGAAGGCATTTGTGCTAGTGACTATATCCAGGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
56247280 CCGAAGGCATCTGTGCTAGTTACTATATCCGAGCTAAGTC
1 CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
* * *
56247320 CCGAAGGCATTTGTGCGAGTTG-CTATAT-CTGGCTAAATC
1 CCGAAGGCATTTGTGCTAG-TGACTATATCCGGGCTAAGTC
56247359 CCGAAGG
1 CCGAAGG
56247366 TACTTGGGTT
Statistics
Matches: 188, Mismatches: 17, Indels: 3
0.90 0.08 0.01
Matches are distributed among these distances:
39 15 0.08
40 172 0.91
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (40 bp):
CCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTC
Found at i:56263992 original size:42 final size:40
Alignment explanation
Indices: 56263946--56264096 Score: 137
Period size: 42 Copynumber: 3.7 Consensus size: 40
56263936 AATCATACTA
56263946 ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATTG
1 ATGCCATATCCCAGATATGGTCTTACATA--ATCTCATATTG
* * **
56263988 ATGCCA-AGCCCA-ACTATGGTCTTACATTATTCTCATACCG
1 ATGCCATATCCCAGA-TATGGTCTTACA-TAATCTCATATTG
* * *
56264028 ATGCCATGTCCCAGACATGGTCTTACACAAAATCTCAT-TATG
1 ATGCCATATCCCAGATATGGTCTT--ACATAATCTCATAT-TG
* *
56264070 ATGCCATATCTCGGATATGGTCTTACA
1 ATGCCATATCCCAGATATGGTCTTACA
56264097 CGTAAACTCA
Statistics
Matches: 87, Mismatches: 15, Indels: 16
0.74 0.13 0.14
Matches are distributed among these distances:
40 18 0.21
41 29 0.33
42 37 0.43
43 3 0.03
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.31
Consensus pattern (40 bp):
ATGCCATATCCCAGATATGGTCTTACATAATCTCATATTG
Found at i:56264048 original size:41 final size:41
Alignment explanation
Indices: 56263946--56264054 Score: 116
Period size: 41 Copynumber: 2.7 Consensus size: 41
56263936 AATCATACTA
* * **
56263946 ATGCCATATCCCAGATATGGTCTTACATAGGATCTCATATTG
1 ATGCCATGTCCCAGACATGGTCTTACATA-GATCTCATACCG
* *
56263988 ATGCCAAG-CCCA-ACTATGGTCTTACATTA-TTCTCATACCG
1 ATGCCATGTCCCAGAC-ATGGTCTTACA-TAGATCTCATACCG
56264028 ATGCCATGTCCCAGACATGGTCTTACA
1 ATGCCATGTCCCAGACATGGTCTTACA
56264055 CAAAATCTCA
Statistics
Matches: 56, Mismatches: 7, Indels: 9
0.78 0.10 0.12
Matches are distributed among these distances:
40 16 0.29
41 30 0.54
42 10 0.18
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.30
Consensus pattern (41 bp):
ATGCCATGTCCCAGACATGGTCTTACATAGATCTCATACCG
Found at i:56269793 original size:12 final size:12
Alignment explanation
Indices: 56269775--56269869 Score: 78
Period size: 12 Copynumber: 8.2 Consensus size: 12
56269765 AAGTAAGTGA
56269775 AAAAAAACTTTCG
1 AAAAAAA-TTTCG
* *
56269788 AAAAAAAGTTCA
1 AAAAAAATTTCG
56269800 AAAAAAAGTTT-G
1 AAAAAAA-TTTCG
*
56269812 AAAAAAAGTTC-
1 AAAAAAATTTCG
56269823 -AAAAAATTT-G
1 AAAAAAATTTCG
*
56269833 AAAAAAAATTCG
1 AAAAAAATTTCG
56269845 -AAAAAA-TTCAG
1 AAAAAAATTTC-G
56269856 AAAAAAATTT-G
1 AAAAAAATTTCG
56269867 AAA
1 AAA
56269870 CTAGAACATT
Statistics
Matches: 67, Mismatches: 7, Indels: 18
0.73 0.08 0.20
Matches are distributed among these distances:
10 11 0.16
11 21 0.31
12 24 0.36
13 11 0.16
ACGTcount: A:0.63, C:0.06, G:0.09, T:0.21
Consensus pattern (12 bp):
AAAAAAATTTCG
Found at i:56269802 original size:11 final size:11
Alignment explanation
Indices: 56269788--56269861 Score: 62
Period size: 11 Copynumber: 6.6 Consensus size: 11
56269778 AAAACTTTCG
56269788 AAAAAAAGTTC
1 AAAAAAAGTTC
*
56269799 AAAAAAAAGTTTG
1 -AAAAAAAG-TTC
56269812 AAAAAAAGTTC
1 AAAAAAAGTTC
* *
56269823 -AAAAAATTTG
1 AAAAAAAGTTC
*
56269833 AAAAAAAATTC
1 AAAAAAAGTTC
*
56269844 GAAAAAA-TTC
1 AAAAAAAGTTC
56269854 AGAAAAAA
1 A-AAAAAA
56269862 ATTTGAAACT
Statistics
Matches: 51, Mismatches: 8, Indels: 7
0.77 0.12 0.11
Matches are distributed among these distances:
10 11 0.22
11 22 0.43
12 16 0.31
13 2 0.04
ACGTcount: A:0.66, C:0.05, G:0.09, T:0.19
Consensus pattern (11 bp):
AAAAAAAGTTC
Found at i:56269802 original size:24 final size:22
Alignment explanation
Indices: 56269775--56269862 Score: 97
Period size: 21 Copynumber: 3.8 Consensus size: 22
56269765 AAGTAAGTGA
56269775 AAAAAAACTTTCGAAAAAAAGTTC
1 AAAAAAA-TTT-GAAAAAAAGTTC
56269799 AAAAAAAAGTTTGAAAAAAAGTTC
1 -AAAAAAA-TTTGAAAAAAAGTTC
*
56269823 -AAAAAATTTGAAAAAAAATTC
1 AAAAAAATTTGAAAAAAAGTTC
* *
56269844 GAAAAAATTCAGAAAAAAA
1 AAAAAAATT-TGAAAAAAA
56269863 TTTGAAACTA
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
21 14 0.24
22 14 0.24
23 8 0.14
24 12 0.21
25 10 0.17
ACGTcount: A:0.65, C:0.07, G:0.09, T:0.19
Consensus pattern (22 bp):
AAAAAAATTTGAAAAAAAGTTC
Found at i:56269863 original size:22 final size:21
Alignment explanation
Indices: 56269787--56269869 Score: 69
Period size: 22 Copynumber: 3.7 Consensus size: 21
56269777 AAAAACTTTC
* *
56269787 GAAAAAAAGTTCAAAAAAAAGTTT
1 GAAAAAAA-TTC-GAAAAAA-TTA
*
56269811 GAAAAAAAGTTC-AAAAAATTT
1 GAAAAAAA-TTCGAAAAAATTA
56269832 GAAAAAAAATTCGAAAAAATTCA
1 G-AAAAAAATTCGAAAAAATT-A
*
56269855 GAAAAAAATTTGAAA
1 GAAAAAAATTCGAAA
56269870 CTAGAACATT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
21 7 0.13
22 34 0.63
23 1 0.02
24 12 0.22
ACGTcount: A:0.64, C:0.05, G:0.11, T:0.20
Consensus pattern (21 bp):
GAAAAAAATTCGAAAAAATTA
Found at i:56270436 original size:21 final size:21
Alignment explanation
Indices: 56270410--56270451 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
56270400 AGAGCAATGT
56270410 GAAAGACCTCCTAAAGTAGTC
1 GAAAGACCTCCTAAAGTAGTC
*
56270431 GAAAGACCTCCTGAAGTAGTC
1 GAAAGACCTCCTAAAGTAGTC
56270452 CAACTTGGAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.24, G:0.21, T:0.19
Consensus pattern (21 bp):
GAAAGACCTCCTAAAGTAGTC
Found at i:56277667 original size:116 final size:116
Alignment explanation
Indices: 56277468--56277697 Score: 397
Period size: 116 Copynumber: 2.0 Consensus size: 116
56277458 GGGAAGTACC
*
56277468 AATATGTACAACAATTTGAAGAAAATGTACTAGTGAAACAGCATGAAAAGAGATATTTCTGAATT
1 AATATGTACAACAATTTGAAGAAAATGTACTAGTGAAACAGCATGAAAAGAGATATTTCTAAATT
* *
56277533 TGTATTGAAATGCCTGGTATGTCAGCAAATTAAAGCTGAACATCAAGTAAT
66 TGTATCGAAATGCATGGTATGTCAGCAAATTAAAGCTGAACATCAAGTAAT
* * *
56277584 AATATGTACAACGATTTGAAGAAAATGTACTAGTGGAACGGCATGAAAAGAGATATTTCTAAATT
1 AATATGTACAACAATTTGAAGAAAATGTACTAGTGAAACAGCATGAAAAGAGATATTTCTAAATT
*
56277649 TGTATCGAAATGTATGGTATGTCAGCAAATTAAAGCTGAACATCAAGTA
66 TGTATCGAAATGCATGGTATGTCAGCAAATTAAAGCTGAACATCAAGTA
56277698 CCTTCAGGTT
Statistics
Matches: 107, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
116 107 1.00
ACGTcount: A:0.42, C:0.11, G:0.19, T:0.28
Consensus pattern (116 bp):
AATATGTACAACAATTTGAAGAAAATGTACTAGTGAAACAGCATGAAAAGAGATATTTCTAAATT
TGTATCGAAATGCATGGTATGTCAGCAAATTAAAGCTGAACATCAAGTAAT
Found at i:56280736 original size:28 final size:28
Alignment explanation
Indices: 56280705--56280767 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
56280695 TCGATATTTT
56280705 GCACACTAAGTGACATTCTCAATATCTC
1 GCACACTAAGTGACATTCTCAATATCTC
* *
56280733 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTGACATTCTCAATATCTC
*
56280761 GTACACT
1 GCACACT
56280768 GAGTACCATA
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.29, G:0.11, T:0.30
Consensus pattern (28 bp):
GCACACTAAGTGACATTCTCAATATCTC
Found at i:56280776 original size:28 final size:28
Alignment explanation
Indices: 56280705--56280776 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
56280695 TCGATATTTT
56280705 GCACACTAAGTGA-CATTCTCAATATCTC
1 GCACACTAAGT-ACCATTCTCAATATCTC
* *
56280733 GCACACTAAGTGCCATTCTCAATATTTC
1 GCACACTAAGTACCATTCTCAATATCTC
* *
56280761 GTACACTGAGTACCAT
1 GCACACTAAGTACCAT
56280777 ATTTGATTGC
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
28 38 1.00
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (28 bp):
GCACACTAAGTACCATTCTCAATATCTC
Found at i:56281226 original size:62 final size:62
Alignment explanation
Indices: 56281129--56281251 Score: 237
Period size: 62 Copynumber: 2.0 Consensus size: 62
56281119 TGAGCTCAAA
56281129 ACATGCAAATTAACCATTTTTAACCATAATTAAGCTTAGCCAAAAGTTCATGGTATCAAAAT
1 ACATGCAAATTAACCATTTTTAACCATAATTAAGCTTAGCCAAAAGTTCATGGTATCAAAAT
*
56281191 ACATGCAAATTAACCATTTTTAACCATAATTAAGCTTAGCCAAATGTTCATGGTATCAAAA
1 ACATGCAAATTAACCATTTTTAACCATAATTAAGCTTAGCCAAAAGTTCATGGTATCAAAA
56281252 CAGTCCATAA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
62 60 1.00
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (62 bp):
ACATGCAAATTAACCATTTTTAACCATAATTAAGCTTAGCCAAAAGTTCATGGTATCAAAAT
Found at i:56283189 original size:54 final size:54
Alignment explanation
Indices: 56283125--56283229 Score: 201
Period size: 54 Copynumber: 1.9 Consensus size: 54
56283115 CAAGGTCTCA
56283125 TAGTCTTAGACTTTTATCAAATCACCGGCATTTAGCCTGCTAGGTTTTAAATCT
1 TAGTCTTAGACTTTTATCAAATCACCGGCATTTAGCCTGCTAGGTTTTAAATCT
*
56283179 TAGTCTTAGACTTTTATCAAATCACCGGCATTTATCCTGCTAGGTTTTAAA
1 TAGTCTTAGACTTTTATCAAATCACCGGCATTTAGCCTGCTAGGTTTTAAA
56283230 CCCGATAATA
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 50 1.00
ACGTcount: A:0.27, C:0.20, G:0.14, T:0.39
Consensus pattern (54 bp):
TAGTCTTAGACTTTTATCAAATCACCGGCATTTAGCCTGCTAGGTTTTAAATCT
Found at i:56284598 original size:28 final size:28
Alignment explanation
Indices: 56284566--56284635 Score: 86
Period size: 28 Copynumber: 2.5 Consensus size: 28
56284556 TATGGTACTC
*
56284566 AGTGTATGAAATATTGAGAATGACACTT
1 AGTGTACGAAATATTGAGAATGACACTT
* * *
56284594 AGTGTGCGAGATATTGAGAATGACATTT
1 AGTGTACGAAATATTGAGAATGACACTT
* *
56284622 AGTGTGCAAAATAT
1 AGTGTACGAAATAT
56284636 CGAATGATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 36 1.00
ACGTcount: A:0.37, C:0.07, G:0.24, T:0.31
Consensus pattern (28 bp):
AGTGTACGAAATATTGAGAATGACACTT
Found at i:56287140 original size:24 final size:24
Alignment explanation
Indices: 56287089--56287146 Score: 73
Period size: 24 Copynumber: 2.4 Consensus size: 24
56287079 AAAATCCAAT
* * *
56287089 GCACTATGTGTGCGGTTTACTATG
1 GCACTATGTGTGCGGTGTAATATA
56287113 GCACTATGTGTGCGAGTGTAAT-TA
1 GCACTATGTGTGCG-GTGTAATATA
56287137 GCACTATGTG
1 GCACTATGTG
56287147 CGCAAATACG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
24 25 0.83
25 5 0.17
ACGTcount: A:0.21, C:0.16, G:0.29, T:0.34
Consensus pattern (24 bp):
GCACTATGTGTGCGGTGTAATATA
Found at i:56288432 original size:46 final size:45
Alignment explanation
Indices: 56288382--56288554 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 45
56288372 TGGTTGAGCA
56288382 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* * *
56288428 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAA-T--G
* **
56288473 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGACA
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAATG
* *
56288521 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
56288555 GGGGCGGGTT
Statistics
Matches: 107, Mismatches: 11, Indels: 18
0.79 0.08 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 61 0.57
47 29 0.27
48 2 0.02
50 4 0.04
51 1 0.01
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAATG
Found at i:56288538 original size:93 final size:93
Alignment explanation
Indices: 56288379--56288549 Score: 288
Period size: 93 Copynumber: 1.8 Consensus size: 93
56288369 GGATGGTTGA
***
56288379 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
56288444 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * *
56288472 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGGACACCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
56288537 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
56288550 ACTTAGGGGC
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACACCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:56299621 original size:22 final size:23
Alignment explanation
Indices: 56299572--56299625 Score: 74
Period size: 23 Copynumber: 2.4 Consensus size: 23
56299562 GCTGATGAAT
*
56299572 AGTAAGCTCTATTAAGCTGAAAC
1 AGTAAGCTCTATCAAGCTGAAAC
* *
56299595 GGTAAGCTCTATCGAGCT-AAAC
1 AGTAAGCTCTATCAAGCTGAAAC
56299617 AGTAAGCTC
1 AGTAAGCTC
56299626 ATAAGAGTTG
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 12 0.44
23 15 0.56
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (23 bp):
AGTAAGCTCTATCAAGCTGAAAC
Found at i:56299680 original size:24 final size:26
Alignment explanation
Indices: 56299653--56299708 Score: 71
Period size: 26 Copynumber: 2.2 Consensus size: 26
56299643 AAACTCCAAT
56299653 GAGCTGAAA-A-CAGTAAGATCATAC
1 GAGCTGAAATATCAGTAAGATCATAC
* *
56299677 GAGCTAAAATATCAGTAAGCTCATAC
1 GAGCTGAAATATCAGTAAGATCATAC
*
56299703 TAGCTG
1 GAGCTG
56299709 TGGTGAGTCC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 8 0.31
25 1 0.04
26 17 0.65
ACGTcount: A:0.41, C:0.18, G:0.20, T:0.21
Consensus pattern (26 bp):
GAGCTGAAATATCAGTAAGATCATAC
Found at i:56300961 original size:6 final size:6
Alignment explanation
Indices: 56300931--56300996 Score: 64
Period size: 6 Copynumber: 10.8 Consensus size: 6
56300921 AAGAAACATT
* * *
56300931 ATCAGA A-CTAGA ATCAAA ATGAGA ATCAGA ATCAGA ATCATGTG A-CAGA
1 ATCAGA ATC-AGA ATCAGA ATCAGA ATCAGA ATCAGA ATCA-G-A ATCAGA
56300980 ATCAGA ATCAGA ATCAG
1 ATCAGA ATCAGA ATCAG
56300997 TATTAGGTAA
Statistics
Matches: 49, Mismatches: 6, Indels: 10
0.75 0.09 0.15
Matches are distributed among these distances:
5 2 0.04
6 42 0.86
7 4 0.08
8 1 0.02
ACGTcount: A:0.48, C:0.15, G:0.18, T:0.18
Consensus pattern (6 bp):
ATCAGA
Found at i:56300989 original size:31 final size:31
Alignment explanation
Indices: 56300952--56301020 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
56300942 AATCAAAATG
* *
56300952 AGAATCAGAATCAGAATCATGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
* *
56300983 AGAATCAGAATCAGTATTAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTAACAGAATC
*
56301014 AAAATCA
1 AGAATCA
56301021 AAGTGTGAAT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.48, C:0.14, G:0.17, T:0.20
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTAACAGAATC
Found at i:56301561 original size:27 final size:27
Alignment explanation
Indices: 56301531--56302099 Score: 656
Period size: 27 Copynumber: 21.1 Consensus size: 27
56301521 CACCCTAAGA
* *
56301531 GTAAAATGGTAATTTTATAAATCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
** * * *
56301558 GTAAAACGGTAATTCTATAAATTGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
56301585 GTAAAATAGTAATTTT-TAAATCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
* *
56301611 GTAAAACAGTAATTTTTTAAATCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
* *
56301638 GTAAAATAGTAATTCTGTCAATCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
* *
56301665 GTAAAATAATAATTTTGTAAATTGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
* *
56301692 GTAAAATGGTAATTCTGTAAATCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
** *
56301719 GTAAAACGGTAATTTTTTAAATCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
* *
56301746 GTAAAACAGTAATTTTGTAAATCAAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
* * *
56301773 GTAAAATAGTAATTCTATCAATCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
* * *
56301800 GTAAAATGGTAATTCTGTCAATCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
** * * *
56301827 GTAAAACGGTAATTCTATCAATCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
* *
56301854 GTAAAATAGTAATTTAGTAAATTGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
* * *
56301881 GTAAAATGGTAATTCTGTAAATCGAAG
1 GTAAAATAGTAATTTTGTAAATCGAGG
* * *
56301908 GTAAAACAGTAATTCTGTAAATCAAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
**
56301935 GTAAAACGGTAATTTTGTAAATCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
**
56301962 GTAAAACGGTAATTTTGTAAATCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
* *
56301989 GTAAAACAGTAATTCTT-TAAATTGAGG
1 GTAAAATAGTAATT-TTGTAAATCGAGG
* * *
56302016 GTAAAATAATAATTTTATAATTCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
*
56302043 GTAAAACAGTAATTTTGTAAATCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
* *
56302070 GTAAAATAATAATTTTGTAATTCGAGG
1 GTAAAATAGTAATTTTGTAAATCGAGG
56302097 GTA
1 GTA
56302100 CTTTGATAAT
Statistics
Matches: 472, Mismatches: 67, Indels: 6
0.87 0.12 0.01
Matches are distributed among these distances:
26 26 0.06
27 444 0.94
28 2 0.00
ACGTcount: A:0.40, C:0.07, G:0.21, T:0.31
Consensus pattern (27 bp):
GTAAAATAGTAATTTTGTAAATCGAGG
Found at i:56302108 original size:27 final size:25
Alignment explanation
Indices: 56302078--56302193 Score: 79
Period size: 27 Copynumber: 4.3 Consensus size: 25
56302068 GGGTAAAATA
*
56302078 ATAATTTTGTAATTCGAGGGTACTTTG
1 ATAATTTTGCAA-TCGAGGGTA-TTTG
* *
56302105 ATAATTTTACAAGTCGAGGGTATTTT
1 ATAATTTTGCAA-TCGAGGGTATTTG
*
56302131 AGTAATTTTGCAAACTGAGGGTATTTTG
1 A-TAATTTTGCAATC-GAGGGTA-TTTG
* * * *
56302159 GTAATTTTACAAATCAAGGATATTTGG
1 ATAATTTTGC-AATCGAGGGTATTT-G
*
56302186 GTAATTTT
1 ATAATTTT
56302194 ATAAACCGGG
Statistics
Matches: 72, Mismatches: 12, Indels: 10
0.77 0.13 0.11
Matches are distributed among these distances:
26 8 0.11
27 58 0.81
28 6 0.08
ACGTcount: A:0.30, C:0.07, G:0.21, T:0.42
Consensus pattern (25 bp):
ATAATTTTGCAATCGAGGGTATTTG
Found at i:56302164 original size:54 final size:54
Alignment explanation
Indices: 56302092--56302245 Score: 175
Period size: 54 Copynumber: 2.9 Consensus size: 54
56302082 TTTTGTAATT
* * * *
56302092 CGAGGGTACTTTGATAATTTTACAAGTCGAGGGTATTTTAGTAATTTTGCAAAC
1 CGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
* * * * ** *
56302146 TGAGGGTATTTTGGTAATTTTACAAATCAAGGATATTTGGGTAATTTTATAAAC
1 CGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
* * *
56302200 CGGGGGTACTTTGGTAATTTTACAACT-GGGGGTATTTCAGTAATTT
1 CGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTT
56302246 GGTAAACTAA
Statistics
Matches: 81, Mismatches: 19, Indels: 1
0.80 0.19 0.01
Matches are distributed among these distances:
53 14 0.17
54 67 0.83
ACGTcount: A:0.29, C:0.09, G:0.23, T:0.39
Consensus pattern (54 bp):
CGAGGGTACTTTGGTAATTTTACAAATCGAGGGTATTTCAGTAATTTTACAAAC
Found at i:56302194 original size:27 final size:27
Alignment explanation
Indices: 56302091--56302224 Score: 144
Period size: 27 Copynumber: 5.0 Consensus size: 27
56302081 ATTTTGTAAT
* * *
56302091 TCGAGGGTACTTTGATAATTTTACAAG
1 TCGAGGGTATTTTGGTAATTTTACAAA
* *
56302118 TCGAGGGTATTTTAGTAATTTTGCAAA
1 TCGAGGGTATTTTGGTAATTTTACAAA
56302145 -CTGAGGGTATTTTGGTAATTTTACAAA
1 TC-GAGGGTATTTTGGTAATTTTACAAA
* * * *
56302172 TCAAGGATATTTGGGTAATTTTATAAA
1 TCGAGGGTATTTTGGTAATTTTACAAA
* * *
56302199 CCGGGGGTACTTTGGTAATTTTACAA
1 TCGAGGGTATTTTGGTAATTTTACAA
56302225 CTGGGGGTAT
Statistics
Matches: 87, Mismatches: 18, Indels: 4
0.80 0.17 0.04
Matches are distributed among these distances:
26 1 0.01
27 85 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.09, G:0.22, T:0.39
Consensus pattern (27 bp):
TCGAGGGTATTTTGGTAATTTTACAAA
Found at i:56302242 original size:26 final size:26
Alignment explanation
Indices: 56302093--56302245 Score: 126
Period size: 27 Copynumber: 5.7 Consensus size: 26
56302083 TTTGTAATTC
* * *
56302093 GAGGGTACTTTGATAATTTTACAAGT
1 GAGGGTATTTTGGTAATTTTACAACT
* *
56302119 CGAGGGTATTTTAGTAATTTTGCAAACT
1 -GAGGGTATTTTGGTAATTTTAC-AACT
*
56302147 GAGGGTATTTTGGTAATTTTACAAAT
1 GAGGGTATTTTGGTAATTTTACAACT
* * * * *
56302173 CAAGGATATTTGGGTAATTTTATAAACC
1 -GAGGGTATTTTGGTAATTTTA-CAACT
* *
56302201 GGGGGTACTTTGGTAATTTTACAACT
1 GAGGGTATTTTGGTAATTTTACAACT
* **
56302227 GGGGGTATTTCAGTAATTT
1 GAGGGTATTTTGGTAATTT
56302246 GGTAAACTAA
Statistics
Matches: 99, Mismatches: 24, Indels: 7
0.76 0.18 0.05
Matches are distributed among these distances:
26 22 0.22
27 72 0.73
28 5 0.05
ACGTcount: A:0.29, C:0.08, G:0.24, T:0.39
Consensus pattern (26 bp):
GAGGGTATTTTGGTAATTTTACAACT
Found at i:56302325 original size:27 final size:27
Alignment explanation
Indices: 56302287--56302346 Score: 93
Period size: 27 Copynumber: 2.2 Consensus size: 27
56302277 AATACGAATG
* *
56302287 GGCCTAAAGCCCTTCTCGGCCCAAATA
1 GGCCCAAAGCCCTCCTCGGCCCAAATA
*
56302314 GGCCCAAAGCCCTCCTCGGCCCAAATG
1 GGCCCAAAGCCCTCCTCGGCCCAAATA
56302341 GGCCCA
1 GGCCCA
56302347 CACACTCGTG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.23, C:0.42, G:0.22, T:0.13
Consensus pattern (27 bp):
GGCCCAAAGCCCTCCTCGGCCCAAATA
Found at i:56306330 original size:27 final size:27
Alignment explanation
Indices: 56306300--56306351 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
56306290 TATACTCGTA
*
56306300 GATGTGCTTTGGCGAACTAATTTTGCT
1 GATGTGCTTTGGCGAACTAACTTTGCT
* *
56306327 GATGTGTTTTGGTGAACTAACTTTG
1 GATGTGCTTTGGCGAACTAACTTTG
56306352 TAACACCCCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.19, C:0.12, G:0.27, T:0.42
Consensus pattern (27 bp):
GATGTGCTTTGGCGAACTAACTTTGCT
Found at i:56309421 original size:17 final size:17
Alignment explanation
Indices: 56309399--56309431 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
56309389 TCCTAACTCC
56309399 CTATGAAGCAGGGAACA
1 CTATGAAGCAGGGAACA
56309416 CTATGAAGCAGGGAAC
1 CTATGAAGCAGGGAAC
56309432 TGTTGTGAAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.39, C:0.18, G:0.30, T:0.12
Consensus pattern (17 bp):
CTATGAAGCAGGGAACA
Found at i:56316974 original size:29 final size:29
Alignment explanation
Indices: 56316939--56317012 Score: 105
Period size: 29 Copynumber: 2.6 Consensus size: 29
56316929 GTTGTGAGAT
* *
56316939 TGGCACTAAGTGTGCGGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGAG-TTGAAAGTACA
*
56316968 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
56316997 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
56317013 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 3, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.12
29 36 0.88
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:56334987 original size:34 final size:34
Alignment explanation
Indices: 56334941--56335012 Score: 135
Period size: 34 Copynumber: 2.1 Consensus size: 34
56334931 TTAAATTTAA
56334941 CTTAATTAAAAAATAGCAAAATTTTAAATTTCTC
1 CTTAATTAAAAAATAGCAAAATTTTAAATTTCTC
*
56334975 CTTAATTGAAAAATAGCAAAATTTTAAATTTCTC
1 CTTAATTAAAAAATAGCAAAATTTTAAATTTCTC
56335009 CTTA
1 CTTA
56335013 CCATTGTCGC
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.39
Consensus pattern (34 bp):
CTTAATTAAAAAATAGCAAAATTTTAAATTTCTC
Found at i:56335190 original size:27 final size:27
Alignment explanation
Indices: 56335160--56335214 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
56335150 AATTTCGAAC
* *
56335160 AAAACTTAAAAGAGTTGAGAGAATTGA
1 AAAAATTAAAAGAATTGAGAGAATTGA
* *
56335187 AAAAATTAGAAGAATTGAGAGAGTTGA
1 AAAAATTAAAAGAATTGAGAGAATTGA
56335214 A
1 A
56335215 TTTGAGTGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.53, C:0.02, G:0.24, T:0.22
Consensus pattern (27 bp):
AAAAATTAAAAGAATTGAGAGAATTGA
Found at i:56341796 original size:199 final size:199
Alignment explanation
Indices: 56341456--56341853 Score: 724
Period size: 199 Copynumber: 2.0 Consensus size: 199
56341446 AAAAAGGGGA
*
56341456 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAGGAAAGTGGTTATGAATCTGAACT
1 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
56341521 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTATCCTTTGTACCTAGAAAAGCCTTAATA
66 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTATCCTTTGTACCTAGAAAAGCCTTAATA
* * * *
56341586 TGGAATTGTAAGATAATGTGTTAGTGAACATAATCTCTTTTAGTATGCCCTTTTCAAGTTTTTTC
131 TGGAATTGTAAGATAATGTGTCAGTGAACATAATCCCTTTGAGTATGCCCTTTTAAAGTTTTTTC
56341651 TTGT
196 TTGT
56341655 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
1 GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
* *
56341720 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTGTCCTTTGTCCCTAGAAAAGCCTTAATA
66 TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTATCCTTTGTACCTAGAAAAGCCTTAATA
*
56341785 TGGAATTGTAAGATAATGTGTCGGTGAACATAATCCCTTTGAGTATGCCCTTTTAAAGTTTTTTC
131 TGGAATTGTAAGATAATGTGTCAGTGAACATAATCCCTTTGAGTATGCCCTTTTAAAGTTTTTTC
56341850 TTGT
196 TTGT
56341854 TGATAATTAG
Statistics
Matches: 191, Mismatches: 8, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
199 191 1.00
ACGTcount: A:0.30, C:0.16, G:0.15, T:0.39
Consensus pattern (199 bp):
GGATTAAAAATTTGTCAATCTAATGCTTAAGCTACAAAGTAAGAAAGTGGTTATGAATCTGAACT
TTTTGATTAACAAATTTTCCATCCTCACTCTTTTCCTATCCTTTGTACCTAGAAAAGCCTTAATA
TGGAATTGTAAGATAATGTGTCAGTGAACATAATCCCTTTGAGTATGCCCTTTTAAAGTTTTTTC
TTGT
Found at i:56343623 original size:18 final size:17
Alignment explanation
Indices: 56343589--56343622 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
56343579 TCATATTCAC
56343589 TTTTTAACATTTATATA
1 TTTTTAACATTTATATA
*
56343606 TTTTTAAC-TTTGTATA
1 TTTTTAACATTTATATA
56343622 T
1 T
56343623 AAAAAATTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 8 0.50
17 8 0.50
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (17 bp):
TTTTTAACATTTATATA
Found at i:56343804 original size:22 final size:22
Alignment explanation
Indices: 56343778--56343835 Score: 73
Period size: 22 Copynumber: 2.6 Consensus size: 22
56343768 CGTACACCAT
* *
56343778 AAAAGTTATATATATATAT-TTA
1 AAAAGTAATATA-ATATATCTAA
*
56343800 AAAAGTAATATAATTTATCTAA
1 AAAAGTAATATAATATATCTAA
56343822 AAAAGTAATATAAT
1 AAAAGTAATATAAT
56343836 TGGCAAAAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
21 5 0.16
22 27 0.84
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (22 bp):
AAAAGTAATATAATATATCTAA
Found at i:56352763 original size:46 final size:46
Alignment explanation
Indices: 56352674--56352763 Score: 103
Period size: 46 Copynumber: 2.0 Consensus size: 46
56352664 GCCCTTGCTT
*
56352674 TTATTAAAATTTATAAAAAAATTATAAAAAATTAAAAGCAATAATA
1 TTATTAAAATTTATAAAAAAATTATAAAAAATTAAAAGAAATAATA
* ** *
56352720 TTATTAAATTTTAATATTAAAA-TATTAAAAATTAGAAA-AAATAA
1 TTATTAAAATTT-ATAAAAAAATTATAAAAAATTA-AAAGAAATAA
56352764 AAATCGTAAA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
46 27 0.73
47 10 0.27
ACGTcount: A:0.61, C:0.01, G:0.02, T:0.36
Consensus pattern (46 bp):
TTATTAAAATTTATAAAAAAATTATAAAAAATTAAAAGAAATAATA
Found at i:56352789 original size:17 final size:16
Alignment explanation
Indices: 56352745--56352791 Score: 60
Period size: 16 Copynumber: 2.9 Consensus size: 16
56352735 ATTAAAATAT
56352745 TAAAAATTAG-AAAAAA
1 TAAAAATT-GTAAAAAA
*
56352761 TAAAAATCGTAAAAAA
1 TAAAAATTGTAAAAAA
56352777 TAAAAAATTGTAAAA
1 T-AAAAATTGTAAAA
56352792 CTTTATAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
15 1 0.04
16 14 0.52
17 12 0.44
ACGTcount: A:0.70, C:0.02, G:0.06, T:0.21
Consensus pattern (16 bp):
TAAAAATTGTAAAAAA
Found at i:56353076 original size:28 final size:29
Alignment explanation
Indices: 56353045--56353111 Score: 66
Period size: 27 Copynumber: 2.3 Consensus size: 29
56353035 CTATTGGTCA
**
56353045 TTAATTTTTTTATGATTTTTA-TAAAATT
1 TTAATTTTTTTACAATTTTTATTAAAATT
**
56353073 TTAA-AATTTTACAATTTTTATTAAAATT
1 TTAATTTTTTTACAATTTTTATTAAAATT
56353101 TAATAATTTTT
1 T--TAATTTTT
56353112 AAAATTTAAT
Statistics
Matches: 29, Mismatches: 6, Indels: 5
0.73 0.15 0.12
Matches are distributed among these distances:
27 12 0.41
28 12 0.41
30 3 0.10
31 2 0.07
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (29 bp):
TTAATTTTTTTACAATTTTTATTAAAATT
Found at i:56353098 original size:20 final size:20
Alignment explanation
Indices: 56353073--56353112 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
56353063 TTATAAAATT
*
56353073 TTAAAATTTTACAATTTTTA
1 TTAAAATTTAACAATTTTTA
*
56353093 TTAAAATTTAATAATTTTTA
1 TTAAAATTTAACAATTTTTA
56353113 AAATTTAATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.00, T:0.55
Consensus pattern (20 bp):
TTAAAATTTAACAATTTTTA
Found at i:56353115 original size:17 final size:17
Alignment explanation
Indices: 56353093--56353125 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
56353083 ACAATTTTTA
56353093 TTAAAATTTAATAATTT
1 TTAAAATTTAATAATTT
56353110 TTAAAATTTAATAATT
1 TTAAAATTTAATAATT
56353126 ATTATTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (17 bp):
TTAAAATTTAATAATTT
Found at i:56360940 original size:14 final size:14
Alignment explanation
Indices: 56360921--56360960 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
56360911 AATGTATTCA
56360921 ATCAAACATAGCAT
1 ATCAAACATAGCAT
56360935 ATCAAACATAGCAT
1 ATCAAACATAGCAT
*
56360949 ATAAAACATAGC
1 ATCAAACATAGC
56360961 TTTGGAAAAC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.53, C:0.20, G:0.07, T:0.20
Consensus pattern (14 bp):
ATCAAACATAGCAT
Found at i:56363526 original size:47 final size:47
Alignment explanation
Indices: 56363467--56363587 Score: 224
Period size: 47 Copynumber: 2.6 Consensus size: 47
56363457 GCATTGGCAC
56363467 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
56363514 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
* *
56363561 TAAGATAAGGATATCATGTAAGACCAT
1 TAAGACAAGGATACCATGTAAGACCAT
56363588 TCCAAGGCAT
Statistics
Matches: 72, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
47 72 1.00
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGG
Found at i:56363531 original size:95 final size:92
Alignment explanation
Indices: 56363333--56363587 Score: 228
Period size: 95 Copynumber: 2.7 Consensus size: 92
56363323 ATTGACGGTT
** * * *
56363333 AAGGATACCATGTAAGACCATGTCAAGACATGGCATTGGTAAGGCAAGGATCCCGTGTAAGACCA
1 AAGGATACCATGTAAGACCACATCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAGACCA
* *
56363398 TGTCAAGACATGGCATCGGCATTGATT
66 TGTCAAGACATGGCATCGGCATAGATC
**
56363425 AAGGACT-CCATGTAAGACCACATCAAGATGTGGCATTGGCACTAAGACAAGGATACCATGTAAG
1 AAGGA-TACCATGTAAGACCACATCAAGACATGGCATTGG---TAAGACAAGGATACCATGTAAG
*** * *
56363489 ACCATGTTTGGAACATGGCATTTGGTA-AGA-C
62 ACCATGTCAAG-ACATGGCA-TCGGCATAGATC
** *** * *
56363520 AAGGATACCATGTAAGACCATGTTTGGAACATGGCATTTGGTAAGATAAGGATATCATGTAAGAC
1 AAGGATACCATGTAAGACCACATCAAG-ACATGGCA-TTGGTAAGACAAGGATACCATGTAAGAC
56363585 CAT
64 CAT
56363588 TCCAAGGCAT
Statistics
Matches: 131, Mismatches: 23, Indels: 16
0.77 0.14 0.09
Matches are distributed among these distances:
92 33 0.25
93 1 0.01
94 26 0.20
95 47 0.36
96 16 0.12
97 8 0.06
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.23
Consensus pattern (92 bp):
AAGGATACCATGTAAGACCACATCAAGACATGGCATTGGTAAGACAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATCGGCATAGATC
Found at i:56363625 original size:54 final size:55
Alignment explanation
Indices: 56363561--56363670 Score: 152
Period size: 54 Copynumber: 2.0 Consensus size: 55
56363551 TGGCATTTGG
* *
56363561 TAAGATAAGGATATCATGTAAGACCAT-TCCAAGGCATGACATTGATAAGTT-CTA
1 TAAGATAAGGAAATCATGTAAGACCATGT-CAAGACATGACATTGATAAGTTACTA
* * *
56363615 TAAGGTAAGGAAATCATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTA
1 TAAGATAAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATAAGTTACTA
56363670 T
1 T
56363671 GTAAGACAAT
Statistics
Matches: 49, Mismatches: 5, Indels: 3
0.86 0.09 0.05
Matches are distributed among these distances:
54 44 0.90
55 5 0.10
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (55 bp):
TAAGATAAGGAAATCATGTAAGACCATGTCAAGACATGACATTGATAAGTTACTA
Found at i:56363692 original size:39 final size:39
Alignment explanation
Indices: 56363630--56363704 Score: 105
Period size: 39 Copynumber: 1.9 Consensus size: 39
56363620 TAAGGAAATC
* **
56363630 ATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACT
1 ATGTAAGACAATCCCAAGACATGGCATTGATGAGTTACT
* *
56363669 ATGTAAGACAATCCCAAGGCATGGCATTGTTGAGTT
1 ATGTAAGACAATCCCAAGACATGGCATTGATGAGTT
56363705 CATAAGGCAA
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
39 31 1.00
ACGTcount: A:0.32, C:0.16, G:0.24, T:0.28
Consensus pattern (39 bp):
ATGTAAGACAATCCCAAGACATGGCATTGATGAGTTACT
Found at i:56367722 original size:40 final size:40
Alignment explanation
Indices: 56367667--56367884 Score: 334
Period size: 40 Copynumber: 5.5 Consensus size: 40
56367657 CGGATGATAA
* *
56367667 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-T
56367707 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
56367747 CCGGGCTAAGTTCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
56367787 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* *
56367827 CCGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
*
56367867 CC-GGCTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
56367885 TACTTGGTTG
Statistics
Matches: 167, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 17 0.10
40 149 0.89
41 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:56371549 original size:36 final size:36
Alignment explanation
Indices: 56371506--56371578 Score: 128
Period size: 36 Copynumber: 2.0 Consensus size: 36
56371496 TCTGGGCCAA
*
56371506 GCCGTGTGATCCACAAAGCTAAGGCCAATTTGGGTC
1 GCCGTGTGAGCCACAAAGCTAAGGCCAATTTGGGTC
*
56371542 GCCGTGTGAGCCACAAAGCTAAGTCCAATTTGGGTC
1 GCCGTGTGAGCCACAAAGCTAAGGCCAATTTGGGTC
56371578 G
1 G
56371579 GGTAGGCCAC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.25, C:0.25, G:0.29, T:0.22
Consensus pattern (36 bp):
GCCGTGTGAGCCACAAAGCTAAGGCCAATTTGGGTC
Found at i:56371838 original size:48 final size:48
Alignment explanation
Indices: 56371786--56371882 Score: 185
Period size: 48 Copynumber: 2.0 Consensus size: 48
56371776 ACACCGGAGT
*
56371786 CGAACACGAGGTGTTAACAGACTTTAAACCCCTTATAAAAATATTTCC
1 CGAACACGAGGGGTTAACAGACTTTAAACCCCTTATAAAAATATTTCC
56371834 CGAACACGAGGGGTTAACAGACTTTAAACCCCTTATAAAAATATTTCC
1 CGAACACGAGGGGTTAACAGACTTTAAACCCCTTATAAAAATATTTCC
56371882 C
1 C
56371883 AGACACTGCC
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 48 1.00
ACGTcount: A:0.37, C:0.24, G:0.13, T:0.26
Consensus pattern (48 bp):
CGAACACGAGGGGTTAACAGACTTTAAACCCCTTATAAAAATATTTCC
Found at i:56373400 original size:28 final size:28
Alignment explanation
Indices: 56373337--56373490 Score: 256
Period size: 28 Copynumber: 5.5 Consensus size: 28
56373327 ATATTAAGTC
*
56373337 CGCACACTCAGTGCTATATAATC-AACT
1 CGCACACTTAGTGCTATATAATCAAACT
56373364 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
56373392 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
56373420 CGCACACTTAGTGCTATATAATCAAACT
1 CGCACACTTAGTGCTATATAATCAAACT
* * *
56373448 CGCACACTTAGTGCTATACAATTTAAACC
1 CGCACACTTAGTGCTATATAA-TCAAACT
56373477 CGCACACTTAGTGC
1 CGCACACTTAGTGC
56373491 CAATCTCATG
Statistics
Matches: 121, Mismatches: 4, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
27 22 0.18
28 80 0.66
29 19 0.16
ACGTcount: A:0.34, C:0.27, G:0.12, T:0.27
Consensus pattern (28 bp):
CGCACACTTAGTGCTATATAATCAAACT
Found at i:56381019 original size:40 final size:40
Alignment explanation
Indices: 56380975--56381194 Score: 220
Period size: 40 Copynumber: 5.5 Consensus size: 40
56380965 CTCGTTCAAT
*
56380975 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
* *
56381015 TGCCTTCGGGACTTAACTCGGATT-TAGTAACTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGG-TTATAGTAACTCGCACAAA
* *
56381055 TGCCTTCGGG-CTTAGCCCGG-AATTAGTATCTCGCACAAA
1 TGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTCGCACAAA
* *
56381094 TGCCTTC-GGATCTTAGTCCGGATT-TAGTATCTCGCACAAA
1 TGCCTTCGGGA-CTTAGCCCGG-TTATAGTAACTCGCACAAA
* * * * *
56381134 TGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCACAAA
1 TGCCTTCGGGA-CTTAGCCCGGTTATAGTAAC-TCGCACAAA
*
56381175 -GCCTTCAGGACTTAGCCCGG
1 TGCCTTCGGGACTTAGCCCGG
56381195 ACATCGTTCA
Statistics
Matches: 155, Mismatches: 15, Indels: 20
0.82 0.08 0.11
Matches are distributed among these distances:
38 2 0.01
39 31 0.20
40 109 0.70
41 13 0.08
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
TGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCACAAA
Found at i:56381071 original size:79 final size:78
Alignment explanation
Indices: 56380975--56381188 Score: 236
Period size: 79 Copynumber: 2.7 Consensus size: 78
56380965 CTCGTTCAAT
*
56380975 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACT-CGGATT
1 TGCCTTCGGG-CTTAGCCCGG-TATAGTAACTCGCACAAATGCCTTC-GGACTTAACTCCGGATT
56381039 TAGTAACTCGCACAAA
63 TAGTAACTCGCACAAA
* * *
56381055 TGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTT-AGTCCGGATTT
1 TGCCTTCGGGCTTAGCCCGGTA-TAGTAACTCGCACAAATGCCTTCGGA-CTTAACTCCGGATTT
*
56381119 AGTATCTCGCACAAA
64 AGTAACTCGCACAAA
* * * * *
56381134 TGCCTTCGGATCTTAGTCCGGATATGGTCACTTAGCACAAA-GCCTTCAGGACTTA
1 TGCCTTCGG-GCTTAGCCCGG-TATAGTAAC-TCGCACAAATGCCTTC-GGACTTA
56381189 GCCCGGACAT
Statistics
Matches: 114, Mismatches: 12, Indels: 15
0.81 0.09 0.11
Matches are distributed among these distances:
78 6 0.05
79 64 0.56
80 32 0.28
81 12 0.11
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (78 bp):
TGCCTTCGGGCTTAGCCCGGTATAGTAACTCGCACAAATGCCTTCGGACTTAACTCCGGATTTAG
TAACTCGCACAAA
Found at i:56388283 original size:23 final size:22
Alignment explanation
Indices: 56388247--56388294 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
56388237 GATATGTATT
* *
56388247 AAAAATATAAAATAAATATATA
1 AAAAATACAAAATAAATAAATA
*
56388269 AAAAATACAATAATACATAAATA
1 AAAAATACAA-AATAAATAAATA
56388292 AAA
1 AAA
56388295 TTCCAAAAAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.73, C:0.04, G:0.00, T:0.23
Consensus pattern (22 bp):
AAAAATACAAAATAAATAAATA
Found at i:56388572 original size:17 final size:18
Alignment explanation
Indices: 56388552--56388585 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
56388542 ACTAAAGGGA
56388552 TAAT-ATATAAATAAAAC
1 TAATCATATAAATAAAAC
*
56388569 TAATCATTTAAATAAAA
1 TAATCATATAAATAAAA
56388586 TTACGGGCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 4 0.27
18 11 0.73
ACGTcount: A:0.62, C:0.06, G:0.00, T:0.32
Consensus pattern (18 bp):
TAATCATATAAATAAAAC
Found at i:56391295 original size:93 final size:93
Alignment explanation
Indices: 56391132--56391303 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
56391122 ACCCATAAGT
* * * *
56391132 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATGAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
* *
56391197 TGAGTTTGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
* *
56391225 GAACTCGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAAATCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
56391290 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
56391304 CAAATATCCC
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.28, C:0.27, G:0.22, T:0.23
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAAATCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:56391299 original size:46 final size:46
Alignment explanation
Indices: 56391124--56391299 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
56391114 TGTAACCCAC
* * * *
56391124 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
* * * * *
56391170 CCATGAGTGAACTCGGACTCAACTCAATGAGTTTGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-ATTTGCAT
* *
56391220 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
*
56391263 CCATAAGTGAAATCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
56391300 TGCCCAAATA
Statistics
Matches: 105, Mismatches: 18, Indels: 14
0.77 0.13 0.10
Matches are distributed among these distances:
43 6 0.06
44 2 0.02
45 2 0.02
46 60 0.57
47 27 0.26
48 2 0.02
49 2 0.02
50 4 0.04
ACGTcount: A:0.29, C:0.27, G:0.22, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTTGCAT
Found at i:56393430 original size:12 final size:12
Alignment explanation
Indices: 56393411--56393442 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
56393401 AATACGTGGG
56393411 CGTGTGACTGGC
1 CGTGTGACTGGC
*
56393423 CTTGTGACTGGC
1 CGTGTGACTGGC
56393435 CGTGTGAC
1 CGTGTGAC
56393443 CCAAGTTAGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.09, C:0.25, G:0.38, T:0.28
Consensus pattern (12 bp):
CGTGTGACTGGC
Found at i:56396081 original size:43 final size:43
Alignment explanation
Indices: 56396016--56396178 Score: 154
Period size: 43 Copynumber: 3.8 Consensus size: 43
56396006 AGCTCGTACA
* * * *
56396016 ATGCC-ATATCCTAGATATGGTCTTACATGTTATCTCATATCG
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCTCATATCG
* * * *
56396058 ATGCCACTGTCCTAGACAGGGTCTTACACGAAATC-GATTAGT-G
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCTCA-TA-TCG
* * *
56396101 ATGCCAATGTCCTAGGCATGGTCTTACACATAATCTCA-ATACA
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATCTCATAT-CG
* *
56396144 ATGCCAATGTCCCAGACATGGTCTTACATGTAATC
1 ATGCCAATGTCCTAGACATGGTCTTACACGTAATC
56396179 ACATCTTGAT
Statistics
Matches: 96, Mismatches: 19, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.01
42 7 0.07
43 86 0.90
44 2 0.02
ACGTcount: A:0.29, C:0.24, G:0.17, T:0.30
Consensus pattern (43 bp):
ATGCCAATGTCCTAGACATGGTCTTACACGTAATCTCATATCG
Found at i:56399605 original size:47 final size:44
Alignment explanation
Indices: 56399536--56399707 Score: 177
Period size: 46 Copynumber: 3.7 Consensus size: 44
56399526 GGGCTATTGT
*
56399536 GAGCTAGTGTAAGACATGTCTGGGACATGCATCAGCCACATTGTGA-
1 GAGCTAGTGTAAGACATGTCTGGGACATGCATC-G--ACATTGAGAC
*
56399582 GAGCCAGTGTAAGATCATGTCTGGGACATGGCATCGACATTGAGAC
1 GAGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGACATTGAGAC
* * * *
56399628 GAGTGCTAGTGTAAGACATGTCTGGGACATACATCGGCCTCGAGAC
1 GA--GCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAC
*
56399674 ATAAG-TCAGTGTAAGACATGTCTGGGACATGCAT
1 --GAGCT-AGTGTAAGACATGTCTGGGACATGCAT
56399708 AGACTACGAG
Statistics
Matches: 109, Mismatches: 9, Indels: 16
0.81 0.07 0.12
Matches are distributed among these distances:
45 9 0.08
46 54 0.50
47 29 0.27
48 17 0.16
ACGTcount: A:0.28, C:0.19, G:0.29, T:0.23
Consensus pattern (44 bp):
GAGCTAGTGTAAGACATGTCTGGGACATGCATCGACATTGAGAC
Found at i:56399685 original size:46 final size:46
Alignment explanation
Indices: 56399541--56399749 Score: 157
Period size: 46 Copynumber: 4.5 Consensus size: 46
56399531 ATTGTGAGCT
* * * *
56399541 AGTGTAAGACATGTCTGGGACATG-CATCAGCCACATTGTGA-GAG-CC
1 AGTGTAAGACATGTCTGGGACATGACATC-G--ACATCGAGACAAGTGC
* * *
56399587 AGTGTAAGATCATGTCTGGGACATGGCATCGACATTGAGACGAGTGC
1 AGTGTAAGA-CATGTCTGGGACATGACATCGACATCGAGACAAGTGC
* *
56399634 TAGTGTAAGACATGTCTGGGACAT-ACATCGGCCTCGAGACATAAGT-C
1 -AGTGTAAGACATGTCTGGGACATGACATCGACATCGAGAC--AAGTGC
* *
56399681 AGTGTAAGACATGTCTGGGACATG-CATAGAC-TACGAG--ATGTGTC
1 AGTGTAAGACATGTCTGGGACATGACATCGACAT-CGAGACAAGTG-C
*
56399725 AGTGTAAGACCATGTTTGGGACATG
1 AGTGTAAGA-CATGTCTGGGACATG
56399750 GAATCGATAC
Statistics
Matches: 140, Mismatches: 11, Indels: 25
0.80 0.06 0.14
Matches are distributed among these distances:
42 3 0.02
44 10 0.07
45 23 0.16
46 56 0.40
47 32 0.23
48 16 0.11
ACGTcount: A:0.29, C:0.18, G:0.29, T:0.24
Consensus pattern (46 bp):
AGTGTAAGACATGTCTGGGACATGACATCGACATCGAGACAAGTGC
Found at i:56402543 original size:23 final size:23
Alignment explanation
Indices: 56402513--56402667 Score: 113
Period size: 23 Copynumber: 6.8 Consensus size: 23
56402503 GCTTATCGAC
56402513 TCAGCTCATAAGAGCTTACTGTT
1 TCAGCTCATAAGAGCTTACTGTT
* * *
56402536 TCAACTCAT-TGAAGCTTACCGATT
1 TCAGCTCATAAG-AGCTTACTG-TT
* *
56402560 T-AGCTCACAAGATCTTACTGTT
1 TCAGCTCATAAGAGCTTACTGTT
** *
56402582 TCAGCTCATTGGAGCTTACTGAT
1 TCAGCTCATAAGAGCTTACTGTT
* *
56402605 TCAACTCGAT-AGAGCTTACT-AT
1 TCAGCTC-ATAAGAGCTTACTGTT
* * *
56402627 TCAGCTTA-ATAGAGTTTACCGTT
1 TCAGCTCATA-AGAGCTTACTGTT
*
56402650 TCAGCTCATTAGAGCTTA
1 TCAGCTCATAAGAGCTTA
56402668 TTGTCCATCA
Statistics
Matches: 100, Mismatches: 23, Indels: 18
0.71 0.16 0.13
Matches are distributed among these distances:
21 1 0.01
22 19 0.19
23 74 0.74
24 6 0.06
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (23 bp):
TCAGCTCATAAGAGCTTACTGTT
Found at i:56402577 original size:46 final size:46
Alignment explanation
Indices: 56402501--56402624 Score: 142
Period size: 46 Copynumber: 2.7 Consensus size: 46
56402491 CAGCTCGTAT
* * *
56402501 AAGCTTATCGACTCAGCTCATAAGAGCTTACTGTTTCAACTCATTG
1 AAGCTTACCGATTCAGCTCACAAGAGCTTACTGTTTCAACTCATTG
* * *
56402547 AAGCTTACCGATTTAGCTCACAAGATCTTACTGTTTCAGCTCATTG
1 AAGCTTACCGATTCAGCTCACAAGAGCTTACTGTTTCAACTCATTG
* * * *
56402593 GAGCTTACTGATTCAACTCGA-TAGAGCTTACT
1 AAGCTTACCGATTCAGCTC-ACAAGAGCTTACT
56402625 ATTCAGCTTA
Statistics
Matches: 65, Mismatches: 12, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
46 64 0.98
47 1 0.02
ACGTcount: A:0.27, C:0.23, G:0.16, T:0.33
Consensus pattern (46 bp):
AAGCTTACCGATTCAGCTCACAAGAGCTTACTGTTTCAACTCATTG
Found at i:56402608 original size:69 final size:68
Alignment explanation
Indices: 56402513--56402667 Score: 181
Period size: 68 Copynumber: 2.3 Consensus size: 68
56402503 GCTTATCGAC
* * * *
56402513 TCAGCTCATAAGAGCTTACTGTTTCAACTC-ATTGAAGCTTACCGATTTAGCTCACA-AGA-TCT
1 TCAGCTCATTAGAGCTTACTGATTCAACTCGATAG-AGCTTA-CGATTCAGCTCA-ATAGAGT-T
*
56402575 TACTGTT
62 TACCGTT
* * *
56402582 TCAGCTCATTGGAGCTTACTGATTCAACTCGATAGAGCTTACTATTCAGCTTAATAGAGTTTACC
1 TCAGCTCATTAGAGCTTACTGATTCAACTCGATAGAGCTTACGATTCAGCTCAATAGAGTTTACC
56402647 GTT
66 GTT
56402650 TCAGCTCATTAGAGCTTA
1 TCAGCTCATTAGAGCTTA
56402668 TTGTCCATCA
Statistics
Matches: 74, Mismatches: 9, Indels: 7
0.82 0.10 0.08
Matches are distributed among these distances:
67 1 0.01
68 36 0.49
69 34 0.46
70 3 0.04
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.35
Consensus pattern (68 bp):
TCAGCTCATTAGAGCTTACTGATTCAACTCGATAGAGCTTACGATTCAGCTCAATAGAGTTTACC
GTT
Found at i:56407049 original size:42 final size:42
Alignment explanation
Indices: 56407003--56407096 Score: 100
Period size: 43 Copynumber: 2.2 Consensus size: 42
56406993 CGGGACATCA
* * * * **
56407003 GCATCGTATTTGATTTCGTGTCAGACCTTGTCTGGGACAG-TG
1 GCATCGTATTCGATTACATGTAAGACCACGTCTGGGAC-GTTG
56407045 GCATCGATATTCGATTACATGTAAGACCACGTCTGGGACGTTG
1 GCATCG-TATTCGATTACATGTAAGACCACGTCTGGGACGTTG
*
56407088 GCATAGTAT
1 GCATCGTAT
56407097 GAGCGTTTTG
Statistics
Matches: 43, Mismatches: 7, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
42 10 0.23
43 33 0.77
ACGTcount: A:0.22, C:0.19, G:0.27, T:0.32
Consensus pattern (42 bp):
GCATCGTATTCGATTACATGTAAGACCACGTCTGGGACGTTG
Found at i:56408549 original size:31 final size:31
Alignment explanation
Indices: 56408514--56408619 Score: 185
Period size: 31 Copynumber: 3.4 Consensus size: 31
56408504 ATATACTGGT
56408514 CCGAAGCCTTTACATTATTCATATCATTGGG
1 CCGAAGCCTTTACATTATTCATATCATTGGG
* *
56408545 CCGAAGCCTTTTCATTATTCATATCACTGGG
1 CCGAAGCCTTTACATTATTCATATCATTGGG
*
56408576 CCGAAGCCTTTTCATTATTCATATCATTGGG
1 CCGAAGCCTTTACATTATTCATATCATTGGG
56408607 CCGAAGCCTTTAC
1 CCGAAGCCTTTAC
56408620 TACAACAATA
Statistics
Matches: 71, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
31 71 1.00
ACGTcount: A:0.24, C:0.25, G:0.16, T:0.35
Consensus pattern (31 bp):
CCGAAGCCTTTACATTATTCATATCATTGGG
Found at i:56408853 original size:25 final size:23
Alignment explanation
Indices: 56408825--56408906 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 23
56408815 AGTGGCCTAG
56408825 CCTTTTTTAATAACTGGGGCAAAGC
1 CCTTTTTT-A-AACTGGGGCAAAGC
*
56408850 CCTTTTTGGTAAACTAGGGCAAAAGC
1 CCTTTTT--TAAACTGGGGC-AAAGC
*
56408876 CCTTTTCGGTAAACTGGGGCAAAGC
1 CCTTTT--TTAAACTGGGGCAAAGC
56408901 CCTTTT
1 CCTTTT
56408907 GCACTTCCTC
Statistics
Matches: 49, Mismatches: 3, Indels: 10
0.79 0.05 0.16
Matches are distributed among these distances:
25 26 0.53
26 22 0.45
27 1 0.02
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.30
Consensus pattern (23 bp):
CCTTTTTTAAACTGGGGCAAAGC
Found at i:56408874 original size:26 final size:25
Alignment explanation
Indices: 56408836--56408906 Score: 115
Period size: 26 Copynumber: 2.8 Consensus size: 25
56408826 CTTTTTTAAT
*
56408836 AACTGGGGCAAAGCCCTTTTTGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
56408861 AACTAGGGCAAAAGCCCTTTTCGGTA
1 AACTGGGGC-AAAGCCCTTTTCGGTA
56408887 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
56408907 GCACTTCCTC
Statistics
Matches: 42, Mismatches: 3, Indels: 2
0.89 0.06 0.04
Matches are distributed among these distances:
25 19 0.45
26 23 0.55
ACGTcount: A:0.27, C:0.23, G:0.25, T:0.25
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:56411180 original size:3 final size:3
Alignment explanation
Indices: 56411172--56411196 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
56411162 ATTTAATTAC
56411172 TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA T
56411197 TTCATAAACA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Done.