Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 338 of 343
Found at i:108206947 original size:172 final size:172
Alignment explanation
Indices: 108206661--108207004 Score: 661
Period size: 172 Copynumber: 2.0 Consensus size: 172
108206651 TAGGGTTACT
108206661 AGAAGAAGATATCCCTAAAATAATCAGAGTTGAACTAGGAAAAGATAGTAGAACTTAACTAAGAG
1 AGAAGAAGATATCCCTAAAATAATCAGAGTTGAACTAGGAAAAGATAGTAGAACTTAACTAAGAG
*
108206726 AAGAAACTTGATTTAAATTGAATACACGCCGTCACATCGTGACAAGACATATCGTCTCATCGGGA
66 AAGAAACTTGATTTAAATTGAATACACGCCGCCACATCGTGACAAGACATATCGTCTCATCGGGA
108206791 CGTCGTCTGTCACGTCGTCGTGCTCCTCCCCGTCCTGACGTC
131 CGTCGTCTGTCACGTCGTCGTGCTCCTCCCCGTCCTGACGTC
108206833 AGAAGAAGATATCCCTAAAATAATCAGAGTTGAACTAGGAAAAGATAGTAGAACTTAACTAAGAG
1 AGAAGAAGATATCCCTAAAATAATCAGAGTTGAACTAGGAAAAGATAGTAGAACTTAACTAAGAG
108206898 AAGAAACTTGATTTAAATTGAATACACGCCGCCACATCGTGACAAGACATATCGTCTCATCGGGA
66 AAGAAACTTGATTTAAATTGAATACACGCCGCCACATCGTGACAAGACATATCGTCTCATCGGGA
* *
108206963 CGTCGTCTGTCGCGTCGTCGTGCTCCTCCCCGTCGTGACGTC
131 CGTCGTCTGTCACGTCGTCGTGCTCCTCCCCGTCCTGACGTC
108207005 CATTCTATTT
Statistics
Matches: 169, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
172 169 1.00
ACGTcount: A:0.33, C:0.23, G:0.21, T:0.24
Consensus pattern (172 bp):
AGAAGAAGATATCCCTAAAATAATCAGAGTTGAACTAGGAAAAGATAGTAGAACTTAACTAAGAG
AAGAAACTTGATTTAAATTGAATACACGCCGCCACATCGTGACAAGACATATCGTCTCATCGGGA
CGTCGTCTGTCACGTCGTCGTGCTCCTCCCCGTCCTGACGTC
Found at i:108207963 original size:26 final size:26
Alignment explanation
Indices: 108207908--108207956 Score: 64
Period size: 26 Copynumber: 1.9 Consensus size: 26
108207898 AACTTGATAC
* * *
108207908 TTTTTTCTTAATTTGGTACATTGACA
1 TTTTTTCTTAAGTTGGCACATTAACA
108207934 TTTTTTCTTAAGTTGGCAC-TTAA
1 TTTTTTCTTAAGTTGGCACATTAA
108207957 TCTTTTTGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 3 0.15
26 17 0.85
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.53
Consensus pattern (26 bp):
TTTTTTCTTAAGTTGGCACATTAACA
Found at i:108210485 original size:31 final size:31
Alignment explanation
Indices: 108210415--108210485 Score: 76
Period size: 31 Copynumber: 2.3 Consensus size: 31
108210405 TAATTTAGTG
* *
108210415 CAATTATACACATGAAACTTGAATTGTGATT
1 CAATTGTATACATGAAACTTGAATTGTGATT
108210446 C-ATATGTATACATGAAACCTTG-ATAT-TGATT
1 CAAT-TGTATACATGAAA-CTTGAAT-TGTGATT
108210477 CAATTGTAT
1 CAATTGTAT
108210486 TCATTTAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 8
0.77 0.05 0.18
Matches are distributed among these distances:
30 2 0.06
31 25 0.74
32 7 0.21
ACGTcount: A:0.37, C:0.13, G:0.13, T:0.38
Consensus pattern (31 bp):
CAATTGTATACATGAAACTTGAATTGTGATT
Found at i:108213490 original size:13 final size:14
Alignment explanation
Indices: 108213459--108213490 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
108213449 AAAAATGGAC
108213459 TATTTAGAAAACTT
1 TATTTAGAAAACTT
108213473 TATTTAGAAAAC-T
1 TATTTAGAAAACTT
108213486 TATTT
1 TATTT
108213491 GAATTATTCC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 6 0.33
14 12 0.67
ACGTcount: A:0.41, C:0.06, G:0.06, T:0.47
Consensus pattern (14 bp):
TATTTAGAAAACTT
Found at i:108218241 original size:16 final size:17
Alignment explanation
Indices: 108218222--108218261 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
108218212 GGATAAAAGA
108218222 ATATGTAAAT-AAAATT
1 ATATGTAAATAAAAATT
*
108218238 ATATG-AATTAAAAATT
1 ATATGTAAATAAAAATT
108218254 ATAT-TAAA
1 ATATGTAAA
108218262 AAATAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
15 3 0.15
16 17 0.85
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.38
Consensus pattern (17 bp):
ATATGTAAATAAAAATT
Found at i:108220121 original size:139 final size:139
Alignment explanation
Indices: 108219842--108220126 Score: 324
Period size: 139 Copynumber: 2.1 Consensus size: 139
108219832 TAGATGGGCT
* * * * *
108219842 CGTTTTTTCTCAACCTTAACCCTTAAAACAAAAATCTCTAAAAACATTTTTTTCGTCTAGGAGAA
1 CGTTTTTTCTCAACCCTAAACCTTAAAACAAAAATCCCTAAAAACATTTTTTTCATCAAGGAGAA
** * * * * * *
108219907 AGAAAAGAAAAGAAAGCGCGTCTAGCTGAGCATGCTTTCTTGCCAACTAAGAGGAAAGTACGGTC
66 AGAAAAGAAAAGAAAGAACGTCTAACTGAGCATGCTTTCTTGCAAACTAAAAAGAAAATACGCTC
* **
108219972 AGTTGGATA
131 AGCTAAATA
* *
108219981 CGTTTTTTCTTAACCCTAAACCTTAAAACAAAAATCCCTAAAAACTTTTTTTTCATCAAGGAGAA
1 CGTTTTTTCTCAACCCTAAACCTTAAAACAAAAATCCCTAAAAACATTTTTTTCATCAAGGAGAA
* * **
108220046 AG-AAAGAAAAAGAAAGAATGT-TCAACT-AGGCATGCTTTCTTGCAAATTAAAAAGAAAATGTG
66 AGAAAAG-AAAAGAAAGAACGTCT-AACTGA-GCATGCTTTCTTGCAAACTAAAAAGAAAATACG
108220108 CTCAGCTAAATA
128 CTCAGCTAAATA
108220120 CGTTTTT
1 CGTTTTT
108220127 CACATGTTGA
Statistics
Matches: 121, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
138 6 0.05
139 115 0.95
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.29
Consensus pattern (139 bp):
CGTTTTTTCTCAACCCTAAACCTTAAAACAAAAATCCCTAAAAACATTTTTTTCATCAAGGAGAA
AGAAAAGAAAAGAAAGAACGTCTAACTGAGCATGCTTTCTTGCAAACTAAAAAGAAAATACGCTC
AGCTAAATA
Found at i:108220882 original size:23 final size:23
Alignment explanation
Indices: 108220856--108220901 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
108220846 TTCTTTTAAT
108220856 TTTATATT-ATTTTG-AAATAAATA
1 TTTAT-TTAATTTTGTAAA-AAATA
108220879 TTTATTTAATTTTGTAAAAAATA
1 TTTATTTAATTTTGTAAAAAATA
108220902 ATATAATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
22 2 0.10
23 16 0.76
24 3 0.14
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.52
Consensus pattern (23 bp):
TTTATTTAATTTTGTAAAAAATA
Found at i:108227956 original size:13 final size:13
Alignment explanation
Indices: 108227935--108227964 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
108227925 TAATTATTAT
*
108227935 AAATGTGTTTTAA
1 AAATATGTTTTAA
108227948 AAATATGTTTTAA
1 AAATATGTTTTAA
108227961 AAAT
1 AAAT
108227965 TATTTCTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.10, T:0.43
Consensus pattern (13 bp):
AAATATGTTTTAA
Found at i:108231659 original size:30 final size:30
Alignment explanation
Indices: 108231618--108231681 Score: 85
Period size: 30 Copynumber: 2.1 Consensus size: 30
108231608 ATTTCCGAGC
108231618 TTGGGGACAAAAGTGTAATTATGC-AAAAGT
1 TTGGGGACAAAAGTGTAATT-TGCAAAAAGT
* * *
108231648 TTGGGGGCAAAATTGTAATTTTCAAAAAGT
1 TTGGGGACAAAAGTGTAATTTGCAAAAAGT
108231678 TTGG
1 TTGG
108231682 TGGTGGATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
29 2 0.07
30 28 0.93
ACGTcount: A:0.36, C:0.06, G:0.27, T:0.31
Consensus pattern (30 bp):
TTGGGGACAAAAGTGTAATTTGCAAAAAGT
Found at i:108232138 original size:78 final size:77
Alignment explanation
Indices: 108232006--108232189 Score: 332
Period size: 78 Copynumber: 2.4 Consensus size: 77
108231996 TGTTGTATAT
* *
108232006 AAAGGGGTTGCTGTGTGCTGATTCTCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATC
1 AAAGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATC
108232071 TTTGAAATGTAA
66 TTTGAAATGTAA
108232083 AAAGGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATAT
1 AAA-GGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATAT
*
108232148 CTTTGAAATGTGA
65 CTTTGAAATGTAA
108232161 AAAGGGGTTGCTATGTGCTGATTCCCCGA
1 AAAGGGGTTGCTATGTGCTGATTCCCCGA
108232190 GGGGTTGCTA
Statistics
Matches: 103, Mismatches: 3, Indels: 2
0.95 0.03 0.02
Matches are distributed among these distances:
77 29 0.28
78 74 0.72
ACGTcount: A:0.21, C:0.18, G:0.28, T:0.33
Consensus pattern (77 bp):
AAAGGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATC
TTTGAAATGTAA
Found at i:108232199 original size:26 final size:26
Alignment explanation
Indices: 108232163--108232214 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
108232153 AAATGTGAAA
*
108232163 AGGGGTTGCTATGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
108232189 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCG
108232215 GTTCATTGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
AGGGGTTGCTAAGTGCTGATTCCCCG
Found at i:108232210 original size:103 final size:103
Alignment explanation
Indices: 108232087--108232350 Score: 449
Period size: 103 Copynumber: 2.6 Consensus size: 103
108232077 ATGTAAAAAG
* *
108232087 GGGGTTGCTATGTGCTGATTCCCCGATTCATTGGTGGTGCTATGTGCGTGATCCACCATATCTTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
108232152 GAAATGTGAAAAGGGGTTGCTATGTGCTGATTCCCCGA
66 GAAATGTGAAAAGGGGTTGCTATGTGCTGATTCCCCGA
*
108232190 GGGGTTGCTAAGTGCTGATTCCCCGGTTCATTGGTGGTGCTAAGTGCGAT-ATCCACCATATCTT
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCG-TGATCCACCATATCTT
*
108232254 TGAAATGTGAAAGGGGGTTGCTATGTGCTGATTCCCCGA
65 TGAAATGTGAAAAGGGGTTGCTATGTGCTGATTCCCCGA
** *
108232293 GGGGTTGCTAAGTGCTGATTCCCCGATTCAGCGGTGGTGCTAAGTGCGAGATCCACCA
1 GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCA
108232351 ATAACGGTTA
Statistics
Matches: 151, Mismatches: 8, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
103 150 0.99
104 1 0.01
ACGTcount: A:0.19, C:0.20, G:0.30, T:0.30
Consensus pattern (103 bp):
GGGGTTGCTAAGTGCTGATTCCCCGATTCATTGGTGGTGCTAAGTGCGTGATCCACCATATCTTT
GAAATGTGAAAAGGGGTTGCTATGTGCTGATTCCCCGA
Found at i:108232302 original size:26 final size:26
Alignment explanation
Indices: 108232267--108232318 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
108232257 AATGTGAAAG
*
108232267 GGGGTTGCTATGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
108232293 GGGGTTGCTAAGTGCTGATTCCCCGA
1 GGGGTTGCTAAGTGCTGATTCCCCGA
108232319 TTCAGCGGTG
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.13, C:0.23, G:0.35, T:0.29
Consensus pattern (26 bp):
GGGGTTGCTAAGTGCTGATTCCCCGA
Found at i:108241837 original size:105 final size:105
Alignment explanation
Indices: 108241570--108241840 Score: 338
Period size: 107 Copynumber: 2.5 Consensus size: 105
108241560 AATGTAAAAG
* *
108241570 GGGGTTGCT-ATTGCCTGATT-CCCCGATTCAGGTTGTGTGCTATGTGCGCTGATCCACCATATC
1 GGGGTTGCTAATTG-CTGATTCCCCCGATTCAGG-TG-GTGCTAAGTGCG-AGATCCACCATATC
108241633 TTTGAAATGGGTGAAAAGGGGTTGCTAGTGCTGATTCCACCCGA
62 TTTGAAATGGGTGAAAAGGGGTTGCTAGTGCTGATTCCACCCGA
* ** *
108241677 GGGGTTGCTAAGTGCTGATTCCCGAGGTTCATTGGTGGTGCTAAAGTGCGA-ATCCACCATATCT
1 GGGGTTGCTAATTGCTGATTCCCCCGATTCA--GGTGGTGCT-AAGTGCGAGATCCACCATATCT
* *
108241741 TTGAAAT-GTTGAAAGGGGGTTGCTATGTGCTGATTCC-CCCGA
63 TTGAAATGGGTGAAAAGGGGTTGCTA-GTGCTGATTCCACCCGA
108241783 GGGG-TGCTAATTGCTGATTCCCCCGATTCGAGCGTGGTGCTAAGTGCGAGATCCACCA
1 GGGGTTGCTAATTGCTGATTCCCCCGATTC-AG-GTGGTGCTAAGTGCGAGATCCACCA
108241841 ATAACGGGTT
Statistics
Matches: 143, Mismatches: 12, Indels: 20
0.82 0.07 0.11
Matches are distributed among these distances:
104 9 0.06
105 37 0.26
106 26 0.18
107 46 0.32
108 15 0.10
109 8 0.06
110 2 0.01
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (105 bp):
GGGGTTGCTAATTGCTGATTCCCCCGATTCAGGTGGTGCTAAGTGCGAGATCCACCATATCTTTG
AAATGGGTGAAAAGGGGTTGCTAGTGCTGATTCCACCCGA
Found at i:108249188 original size:74 final size:75
Alignment explanation
Indices: 108249052--108249223 Score: 303
Period size: 74 Copynumber: 2.3 Consensus size: 75
108249042 TGTATATAAA
* *
108249052 GGGTTGCTGTGTGCTGATTCCCCGATTCATGGTGGTGCTATGTGCGTGATCCACCATATCTTTGA
1 GGGTTGCTATGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGA
108249117 AATGTGAAAG
66 AATGTGAAAG
108249127 GGGTTGCTATGTGCTGATTCCCCG-TTCATTGGTGGTGCTAAGTGCGT-ATCCACCATATCTTTG
1 GGGTTGCTATGTGCTGATTCCCCGATTCA-TGGTGGTGCTAAGTGCGTGATCCACCATATCTTTG
108249190 AAATGTGAAAG
65 AAATGTGAAAG
108249201 GGGTTGCTATGTGCTGATTCCCC
1 GGGTTGCTATGTGCTGATTCCCC
108249224 CGAGGGGTTG
Statistics
Matches: 94, Mismatches: 2, Indels: 3
0.95 0.02 0.03
Matches are distributed among these distances:
74 54 0.57
75 40 0.43
ACGTcount: A:0.18, C:0.20, G:0.28, T:0.34
Consensus pattern (75 bp):
GGGTTGCTATGTGCTGATTCCCCGATTCATGGTGGTGCTAAGTGCGTGATCCACCATATCTTTGA
AATGTGAAAG
Found at i:108249318 original size:97 final size:99
Alignment explanation
Indices: 108249125--108249380 Score: 394
Period size: 97 Copynumber: 2.6 Consensus size: 99
108249115 GAAATGTGAA
* *
108249125 AGGGGTTGCTATGTGCTGATTCCCCGTTCATTGGTGGTGCTAAGTGCG-TATCCACCATATCTTT
1 AGGGGTTGCTAAGTGCTGATT-CCCGGT-ATTGGTGGTGCTAAGTGCGATATCCACCATATCTTT
108249189 GAAATGTGAAAGGGGTTGCTATGTGCTGATTCCCCCG
64 GAAA-GTGAAAGGGGTTGCTATGTGCTGATTCCCCCG
108249226 AGGGGTTGCTAAGTGCTGATT-CCGGTATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGA
1 AGGGGTTGCTAAGTGCTGATTCCCGGTATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGA
108249290 AA-TGAAAGGGGTTGCTATGTGCTGATTCCCCCG
66 AAGTGAAAGGGGTTGCTATGTGCTGATTCCCCCG
* *
108249323 AGGGGTTGCTAAGTGCTGATTCCCCG-ATTCAGGGTGGTGCTAAGTGCGAGATCCACCA
1 AGGGGTTGCTAAGTGCTGATTCCCGGTATT---GGTGGTGCTAAGTGCGATATCCACCA
108249381 ATAACGGTTA
Statistics
Matches: 146, Mismatches: 4, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
97 55 0.38
98 22 0.15
99 24 0.16
100 25 0.17
101 20 0.14
ACGTcount: A:0.20, C:0.20, G:0.30, T:0.30
Consensus pattern (99 bp):
AGGGGTTGCTAAGTGCTGATTCCCGGTATTGGTGGTGCTAAGTGCGATATCCACCATATCTTTGA
AAGTGAAAGGGGTTGCTATGTGCTGATTCCCCCG
Found at i:108249338 original size:27 final size:27
Alignment explanation
Indices: 108249296--108249347 Score: 95
Period size: 27 Copynumber: 1.9 Consensus size: 27
108249286 TTGAAATGAA
*
108249296 AGGGGTTGCTATGTGCTGATTCCCCCG
1 AGGGGTTGCTAAGTGCTGATTCCCCCG
108249323 AGGGGTTGCTAAGTGCTGATTCCCC
1 AGGGGTTGCTAAGTGCTGATTCCCC
108249348 GATTCAGGGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.13, C:0.25, G:0.33, T:0.29
Consensus pattern (27 bp):
AGGGGTTGCTAAGTGCTGATTCCCCCG
Found at i:108253791 original size:126 final size:126
Alignment explanation
Indices: 108253566--108253811 Score: 375
Period size: 126 Copynumber: 2.0 Consensus size: 126
108253556 ATTTCACTAT
* * * *
108253566 TGTAGAAAAAGAGCGTCCACGTGGGAGCTTTTTTCAGAAATTTTACTGGCATTGCATCATGCTTG
1 TGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGAAATTTTACTGACAGTGCATCATGCTTG
* * *
108253631 AAGCGTTTTTGACACTATTTGTTCAAAAACGTCTTCTGAAAACTATTTTTTCAGGAATTAC
66 AAGCGTTTTTGACACTATCTGTTCAAAAACGTCTTCTAAAAACTATTTTTGCAGGAATTAC
* ** *
108253692 TGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGTAATTTTGTTGACAGTGCATTATGCTTG
1 TGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGAAATTTTACTGACAGTGCATCATGCTTG
* *
108253757 AAGCGTTTTTGACACTATCTGTTCAGAAACGTCTTCTAAAAATTATTTTTGCAGG
66 AAGCGTTTTTGACACTATCTGTTCAAAAACGTCTTCTAAAAACTATTTTTGCAGG
108253812 GTAAAAATAG
Statistics
Matches: 107, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
126 107 1.00
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (126 bp):
TGTAGAAAAAGAGCATCCACGTGAGAGCTTTTTTCAGAAATTTTACTGACAGTGCATCATGCTTG
AAGCGTTTTTGACACTATCTGTTCAAAAACGTCTTCTAAAAACTATTTTTGCAGGAATTAC
Found at i:108253933 original size:27 final size:30
Alignment explanation
Indices: 108253866--108253934 Score: 83
Period size: 31 Copynumber: 2.4 Consensus size: 30
108253856 ACTAAAATCT
*
108253866 TAAACCCTAAATTATTTTAACAACCTAAACCC
1 TAAATCCTAAATTATTTTAACAA-C-AAACCC
108253898 TAAAT-CTAAATTATTTTAAC-A-AAACCC
1 TAAATCCTAAATTATTTTAACAACAAACCC
108253925 T-AATCCTAAA
1 TAAATCCTAAA
108253935 AACCCTAAAA
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
26 3 0.09
27 12 0.34
30 1 0.03
31 15 0.43
32 4 0.11
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.30
Consensus pattern (30 bp):
TAAATCCTAAATTATTTTAACAACAAACCC
Found at i:108257691 original size:16 final size:16
Alignment explanation
Indices: 108257670--108257710 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
108257660 GTTTAAAATA
*
108257670 AGATCTTATTATAATG
1 AGATCTTATTACAATG
108257686 AGATCTTATTACAATG
1 AGATCTTATTACAATG
108257702 AGATCTTAT
1 AGATCTTAT
108257711 GAGATCCTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (16 bp):
AGATCTTATTACAATG
Found at i:108261010 original size:49 final size:50
Alignment explanation
Indices: 108260931--108261031 Score: 143
Period size: 49 Copynumber: 2.0 Consensus size: 50
108260921 GTCAATTTTC
*
108260931 TTTAAAAAATAATCATTTTAGTGTTGAAAACCAACTGAATTGATTAAAAA
1 TTTAAAAAATAATCATTTTAGTATTGAAAACCAACTGAATTGATTAAAAA
* * *
108260981 TTTAAAAATTAATC-TTTTAAGTATT-AAAACCGATTGAATTGATTAAAAA
1 TTTAAAAAATAATCATTTT-AGTATTGAAAACCAACTGAATTGATTAAAAA
108261030 TT
1 TT
108261032 AAACTCAAAA
Statistics
Matches: 46, Mismatches: 4, Indels: 3
0.87 0.08 0.06
Matches are distributed among these distances:
49 28 0.61
50 18 0.39
ACGTcount: A:0.47, C:0.07, G:0.09, T:0.38
Consensus pattern (50 bp):
TTTAAAAAATAATCATTTTAGTATTGAAAACCAACTGAATTGATTAAAAA
Found at i:108262558 original size:16 final size:16
Alignment explanation
Indices: 108262539--108262574 Score: 56
Period size: 16 Copynumber: 2.2 Consensus size: 16
108262529 CCTTTCCCCC
108262539 CTCTCCTTTT-TCCCTT
1 CTCT-CTTTTCTCCCTT
108262555 CTCTCTTTTCTCCCTT
1 CTCTCTTTTCTCCCTT
108262571 CTCT
1 CTCT
108262575 TTCTTTTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 5 0.26
16 14 0.74
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (16 bp):
CTCTCTTTTCTCCCTT
Found at i:108263120 original size:17 final size:17
Alignment explanation
Indices: 108263098--108263131 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
108263088 TATCCACTTT
108263098 TTATATTATTATTATTA
1 TTATATTATTATTATTA
*
108263115 TTATATTATTTTTATTA
1 TTATATTATTATTATTA
108263132 CTATGGTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (17 bp):
TTATATTATTATTATTA
Found at i:108263130 original size:14 final size:15
Alignment explanation
Indices: 108263095--108263131 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
108263085 TTTTATCCAC
108263095 TTTTTA-TATTATTA
1 TTTTTATTATTATTA
*
108263109 TTATTATTA-TATTA
1 TTTTTATTATTATTA
108263123 TTTTTATTA
1 TTTTTATTA
108263132 CTATGGTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
14 18 0.90
15 2 0.10
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TTTTTATTATTATTA
Found at i:108263536 original size:21 final size:21
Alignment explanation
Indices: 108263510--108263549 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
108263500 ATACATGTTT
*
108263510 CTAATATTA-TGTTGTATATTC
1 CTAATACTATTGTT-TATATTC
108263531 CTAATACTATTGTTTATAT
1 CTAATACTATTGTTTATAT
108263550 ATCTATATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 13 0.76
22 4 0.24
ACGTcount: A:0.30, C:0.10, G:0.07, T:0.53
Consensus pattern (21 bp):
CTAATACTATTGTTTATATTC
Found at i:108267851 original size:58 final size:59
Alignment explanation
Indices: 108267739--108267855 Score: 182
Period size: 59 Copynumber: 2.0 Consensus size: 59
108267729 TACACATAGT
*
108267739 AAAATCTCGAACTTTGTCTACCTTTCTACTGCCAAAGCCTATTAACATCACTACCTATA
1 AAAATCTCGAACTTGGTCTACCTTTCTACTGCCAAAGCCTATTAACATCACTACCTATA
* * * *
108267798 AAAATCTTGAACTTGGTCTGCCTTTCTAGTGCCAAAGCCT-TTAACATTACTACCTATA
1 AAAATCTCGAACTTGGTCTACCTTTCTACTGCCAAAGCCTATTAACATCACTACCTATA
108267856 CTTTTTTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
58 17 0.32
59 36 0.68
ACGTcount: A:0.31, C:0.26, G:0.09, T:0.33
Consensus pattern (59 bp):
AAAATCTCGAACTTGGTCTACCTTTCTACTGCCAAAGCCTATTAACATCACTACCTATA
Found at i:108271917 original size:64 final size:62
Alignment explanation
Indices: 108271745--108271917 Score: 251
Period size: 64 Copynumber: 2.8 Consensus size: 62
108271735 ATAAGAAAAT
* * *
108271745 GAATGGCAAGGTAGACATACAAGTTCAAAAACAAAATTGCAAC-AAA-ACTGGACATAATAAA
1 GAATGGCAGGGTAAACATAC-AGTTCAAAAACAAAATTGCAACAAAATACTAGACATAATAAA
* *
108271806 GAATGGCAGGGTAAACATACAGTTCAAAAACAAAATTGCAACAAAAATACTTAGAGATAATAGA
1 GAATGGCAGGGTAAACATACAGTTCAAAAACAAAATTGCAAC-AAAATAC-TAGACATAATAAA
108271870 GAATGGCAGGGTAAACATACAGTTCAAAAAACAAAATTGCAACAAAAT
1 GAATGGCAGGGTAAACATACAGTTC-AAAAACAAAATTGCAACAAAAT
108271918 TAAGACTACT
Statistics
Matches: 102, Mismatches: 5, Indels: 7
0.89 0.04 0.06
Matches are distributed among these distances:
60 22 0.22
61 18 0.18
62 3 0.03
63 2 0.02
64 40 0.39
65 17 0.17
ACGTcount: A:0.52, C:0.14, G:0.17, T:0.17
Consensus pattern (62 bp):
GAATGGCAGGGTAAACATACAGTTCAAAAACAAAATTGCAACAAAATACTAGACATAATAAA
Found at i:108277047 original size:21 final size:21
Alignment explanation
Indices: 108277005--108277054 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
108276995 CTAAATAAAT
* *
108277005 AATTTAAAAAGCCTGAACTAA
1 AATTTAAAAAACATGAACTAA
108277026 AATTTAAAATAACATGAA-TAA
1 AATTTAAAA-AACATGAACTAA
108277047 AATATTAA
1 AAT-TTAA
108277055 CCTAAATCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
21 15 0.60
22 10 0.40
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.28
Consensus pattern (21 bp):
AATTTAAAAAACATGAACTAA
Found at i:108283483 original size:9 final size:9
Alignment explanation
Indices: 108283471--108283556 Score: 93
Period size: 9 Copynumber: 9.6 Consensus size: 9
108283461 ATAAGTAAAA
108283471 AATTAACCG
1 AATTAACCG
*
108283480 AATTAATCG
1 AATTAACCG
108283489 AATTAACCG
1 AATTAACCG
*
108283498 AATTACCCG
1 AATTAACCG
* *
108283507 AATTACCCA
1 AATTAACCG
*
108283516 AATT-ACTCA
1 AATTAAC-CG
108283525 AATTAACCG
1 AATTAACCG
*
108283534 AATTAATCG
1 AATTAACCG
*
108283543 AATTAACGG
1 AATTAACCG
108283552 AATTA
1 AATTA
108283557 TTTGTATAAA
Statistics
Matches: 66, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
8 1 0.02
9 63 0.95
10 2 0.03
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (9 bp):
AATTAACCG
Found at i:108283494 original size:18 final size:18
Alignment explanation
Indices: 108283471--108283556 Score: 109
Period size: 18 Copynumber: 4.8 Consensus size: 18
108283461 ATAAGTAAAA
108283471 AATTAACCGAATTAATCG
1 AATTAACCGAATTAATCG
**
108283489 AATTAACCGAATTACCCG
1 AATTAACCGAATTAATCG
* * * *
108283507 AATTACCCAAATTACTCA
1 AATTAACCGAATTAATCG
108283525 AATTAACCGAATTAATCG
1 AATTAACCGAATTAATCG
*
108283543 AATTAACGGAATTA
1 AATTAACCGAATTA
108283557 TTTGTATAAA
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 57 1.00
ACGTcount: A:0.44, C:0.20, G:0.09, T:0.27
Consensus pattern (18 bp):
AATTAACCGAATTAATCG
Found at i:108283591 original size:5 final size:6
Alignment explanation
Indices: 108283576--108283616 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
108283566 AATTATATGT
*
108283576 TTTTTA TTTTTA TTTTTA GTTTTAGA TTTTTA TTTTTA TTT
1 TTTTTA TTTTTA TTTTTA -TTTT-TA TTTTTA TTTTTA TTT
108283617 ATTAAATTAT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 22 0.71
7 8 0.26
8 1 0.03
ACGTcount: A:0.17, C:0.00, G:0.05, T:0.78
Consensus pattern (6 bp):
TTTTTA
Found at i:108288550 original size:3 final size:3
Alignment explanation
Indices: 108288542--108288584 Score: 86
Period size: 3 Copynumber: 14.3 Consensus size: 3
108288532 CCAAAAATTG
108288542 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
108288585 AGGAAATCGT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:108289148 original size:18 final size:19
Alignment explanation
Indices: 108289110--108289151 Score: 59
Period size: 20 Copynumber: 2.2 Consensus size: 19
108289100 AGGATTTTTT
*
108289110 GAGAGGGAAAATGAAAGAAA
1 GAGAGGGAAAA-GAAAAAAA
108289130 GAGAGGGAAAA-AAAAAAA
1 GAGAGGGAAAAGAAAAAAA
108289148 GAGA
1 GAGA
108289152 AACAGCTGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 10 0.48
20 11 0.52
ACGTcount: A:0.64, C:0.00, G:0.33, T:0.02
Consensus pattern (19 bp):
GAGAGGGAAAAGAAAAAAA
Found at i:108289595 original size:18 final size:18
Alignment explanation
Indices: 108289560--108289594 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
108289550 TGTAACTTTT
108289560 TAAAGTAAAATCTAAAAA
1 TAAAGTAAAATCTAAAAA
108289578 TAAAGTAAAAT-TAAAAA
1 TAAAGTAAAATCTAAAAA
108289595 AAAAAGAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.23
Consensus pattern (18 bp):
TAAAGTAAAATCTAAAAA
Found at i:108289600 original size:18 final size:18
Alignment explanation
Indices: 108289561--108289598 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
108289551 GTAACTTTTT
*
108289561 AAAGTAAAATCTAAAAAT
1 AAAGTAAAATCTAAAAAA
108289579 AAAGTAAAAT-TAAAAAA
1 AAAGTAAAATCTAAAAAA
108289596 AAA
1 AAA
108289599 AGAAAAAAGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 9 0.47
18 10 0.53
ACGTcount: A:0.74, C:0.03, G:0.05, T:0.18
Consensus pattern (18 bp):
AAAGTAAAATCTAAAAAA
Found at i:108290360 original size:11 final size:11
Alignment explanation
Indices: 108290344--108290381 Score: 58
Period size: 11 Copynumber: 3.3 Consensus size: 11
108290334 ATATGTATTT
108290344 TTTATTTAATA
1 TTTATTTAATA
108290355 TTTATTTAATA
1 TTTATTTAATA
108290366 TTATTATTTAATA
1 -T-TTATTTAATA
108290379 TTT
1 TTT
108290382 GTACATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 13 0.52
12 2 0.08
13 10 0.40
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (11 bp):
TTTATTTAATA
Found at i:108290374 original size:13 final size:12
Alignment explanation
Indices: 108290343--108290381 Score: 62
Period size: 13 Copynumber: 3.2 Consensus size: 12
108290333 TATATGTATT
108290343 TTTTATTTAATA
1 TTTTATTTAATA
108290355 -TTTATTTAATA
1 TTTTATTTAATA
108290366 TTATTATTTAATA
1 TT-TTATTTAATA
108290379 TTT
1 TTT
108290382 GTACATATTT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.44
12 2 0.08
13 12 0.48
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (12 bp):
TTTTATTTAATA
Found at i:108295584 original size:50 final size:50
Alignment explanation
Indices: 108295509--108295685 Score: 275
Period size: 50 Copynumber: 3.5 Consensus size: 50
108295499 CCATTGCAAC
108295509 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
* *
108295559 AAGTGATAAGTAATAGCTTCGGCTACACTTATCTGATCAAGGACAAGTGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
*
108295609 AAGTGATAAGTGATAACTTCGGCTACACTTATCTGATCAATGG-CAAATGA
1 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAA-GGACAAATGA
* * *
108295659 CAAGTGAAAAGTGGTAGCTTCAGCTAC
1 -AAGTGATAAGTGATAGCTTCGGCTAC
108295686 CTGATCAGTG
Statistics
Matches: 116, Mismatches: 9, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
50 92 0.79
51 24 0.21
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.26
Consensus pattern (50 bp):
AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
Found at i:108295809 original size:31 final size:31
Alignment explanation
Indices: 108295661--108295801 Score: 228
Period size: 31 Copynumber: 4.5 Consensus size: 31
108295651 GCAAATGACA
* *
108295661 AGTGAAAAGTGGTAGCTTCAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
108295692 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
108295723 AGTGAAAGGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
* *
108295754 AGTGAAAAGTGGTAGCACCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
*
108295785 AGTGAATAGTGGTAGCT
1 AGTGAAAAGTGGTAGCT
108295802 TTGGCTACAA
Statistics
Matches: 102, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 102 1.00
ACGTcount: A:0.27, C:0.20, G:0.29, T:0.24
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
Found at i:108295951 original size:47 final size:47
Alignment explanation
Indices: 108295835--108295967 Score: 194
Period size: 47 Copynumber: 2.8 Consensus size: 47
108295825 AGTGATTTCC
*
108295835 GTATAAGATCATATCTGGGATATGGCATCGGTGTGATATATGCCACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCCACT
* *
108295882 GTATAAGACCATATATGGGATATGGCATCGGTGTGATATATGCTACT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCCACT
** * * *
108295929 GTATAAGACCATATCTAAGATATGACATCAGTGAGATAT
1 GTATAAGACCATATCTGGGATATGGCATCGGTGTGATAT
108295968 GTGATTCGTG
Statistics
Matches: 77, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 77 1.00
ACGTcount: A:0.32, C:0.14, G:0.23, T:0.31
Consensus pattern (47 bp):
GTATAAGACCATATCTGGGATATGGCATCGGTGTGATATATGCCACT
Found at i:108296020 original size:48 final size:49
Alignment explanation
Indices: 108295963--108296068 Score: 169
Period size: 49 Copynumber: 2.2 Consensus size: 49
108295953 ACATCAGTGA
*
108295963 GATATGTGATT-CGTGTAAGACCATAGCTGGGCTATCGCATCGATATGT
1 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATCGCATCGATATAT
* *
108296011 GATATGTGATTACGTGTAAGACCATAGTTGGGCTATGGCATCGATATAT
1 GATATGTGATTACGTGTAAGACCATAGCTGGGCTATCGCATCGATATAT
108296060 GAATATGTG
1 G-ATATGTG
108296069 TGAGACCATA
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
48 11 0.21
49 35 0.66
50 7 0.13
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.32
Consensus pattern (49 bp):
GATATGTGATTACGTGTAAGACCATAGCTGGGCTATCGCATCGATATAT
Found at i:108296075 original size:42 final size:43
Alignment explanation
Indices: 108295975--108296138 Score: 154
Period size: 42 Copynumber: 3.7 Consensus size: 43
108295965 TATGTGATTC
* * *
108295975 GTGTAAGACCATAGCTGGGCTATCGCATCGATATGTGATATG-TGATT
1 GTGTAAGACCATAGTTGGGCTATGGCATCG--AT-T-ATATGAAGA-T
*
108296022 ACGTGTAAGACCATAGTTGGGCTATGGCATCGA-TATATGAATAT
1 --GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
* * *
108296066 GTGTGAGACCATAGTTGGGTTATGGCATC-ATTATGTGAAGAT
1 GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
* **
108296108 GTGTAAGATCATAGTTGAACTATGGCATCGA
1 GTGTAAGACCATAGTTGGGCTATGGCATCGA
108296139 GAAAACGAAG
Statistics
Matches: 99, Mismatches: 13, Indels: 12
0.80 0.10 0.10
Matches are distributed among these distances:
41 1 0.01
42 60 0.61
43 1 0.01
44 6 0.06
45 2 0.02
47 1 0.01
49 28 0.28
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATAGTTGGGCTATGGCATCGATTATATGAAGAT
Found at i:108298183 original size:95 final size:99
Alignment explanation
Indices: 108298010--108298205 Score: 319
Period size: 95 Copynumber: 2.0 Consensus size: 99
108298000 TCTCATTTTC
*
108298010 TCCTTTCTTTCTTTTTCTTTTTCTTTCTTTTTAATTTGCTTGGCTTTGTCTTTCTTTTTCTTTTA
1 TCCTTTCTTTCTTTTTCTTTTTCTTTCTTCTTAATTTGCTTGGCTTTGTCTTTCTTTTTCTTTTA
*
108298075 CTTAATCGA-T-TTATTATTATATAATATATATT
66 CCTAATCGATTATTATTATTATATAATATATATT
108298107 TCCTTTCTTTCTTTTTCTTTTTC-TT-TTCTTAATTTGCTTGGCTTTGTCTTTCTTTTTCTTTTA
1 TCCTTTCTTTCTTTTTCTTTTTCTTTCTTCTTAATTTGCTTGGCTTTGTCTTTCTTTTTCTTTTA
* *
108298170 CCTAATTGGTTTATTATTATTATATAATATATATT
66 CCTAA-TCGATTATTATTATTATATAATATATATT
108298205 T
1 T
108298206 TCTTAATACT
Statistics
Matches: 92, Mismatches: 4, Indels: 5
0.91 0.04 0.05
Matches are distributed among these distances:
95 41 0.45
96 4 0.04
97 24 0.26
98 23 0.25
ACGTcount: A:0.15, C:0.14, G:0.06, T:0.65
Consensus pattern (99 bp):
TCCTTTCTTTCTTTTTCTTTTTCTTTCTTCTTAATTTGCTTGGCTTTGTCTTTCTTTTTCTTTTA
CCTAATCGATTATTATTATTATATAATATATATT
Found at i:108298228 original size:95 final size:94
Alignment explanation
Indices: 108298040--108298228 Score: 211
Period size: 95 Copynumber: 2.0 Consensus size: 94
108298030 TTCTTTCTTT
*
108298040 TTAATTTGCTTGGCTTTGTCTTTCTTTTTCTTTTACTTAATCGATTTATTATTATATAATATATA
1 TTAATTTGCTTGGCTTTGTCTTTCTTTTTCTTTTACCTAATCGATTTATTATTATATAATATATA
* ** * **** **
108298105 TTTCCTTTCTTTCTTTTTCTTTTTCTTTTC
66 TAT-CTTTCTTAATCTTAAGATAACTTTTC
* *
108298135 TTAATTTGCTTGGCTTTGTCTTTCTTTTTCTTTTACCTAATTGGTTTATTATTAT-TATATAATA
1 TTAATTTGCTTGGCTTTGTCTTTCTTTTTCTTTTACCTAATCGATTTATTATTATATA-AT-ATA
108298199 TATAT-TTTCTTAATACTTAAGATAACTTTT
64 TATATCTTTCTTAAT-CTTAAGATAACTTTT
108298229 TTTATTTTTG
Statistics
Matches: 78, Mismatches: 13, Indels: 6
0.80 0.13 0.06
Matches are distributed among these distances:
94 9 0.12
95 62 0.79
96 7 0.09
ACGTcount: A:0.20, C:0.13, G:0.06, T:0.61
Consensus pattern (94 bp):
TTAATTTGCTTGGCTTTGTCTTTCTTTTTCTTTTACCTAATCGATTTATTATTATATAATATATA
TATCTTTCTTAATCTTAAGATAACTTTTC
Found at i:108298377 original size:38 final size:38
Alignment explanation
Indices: 108298335--108298407 Score: 128
Period size: 38 Copynumber: 1.9 Consensus size: 38
108298325 TACTAAGGAA
*
108298335 GCAAAGGTATAATTCTTTCTTTAGTCCCTTCAATTATT
1 GCAAAGGTATAATTCCTTCTTTAGTCCCTTCAATTATT
*
108298373 GCAAAGGTATAATTCCTTCTTTAGTCCCTTTAATT
1 GCAAAGGTATAATTCCTTCTTTAGTCCCTTCAATT
108298408 TTTCTTTAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.11, T:0.44
Consensus pattern (38 bp):
GCAAAGGTATAATTCCTTCTTTAGTCCCTTCAATTATT
Found at i:108303179 original size:30 final size:30
Alignment explanation
Indices: 108303145--108303205 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
108303135 ATTTGTGTCA
108303145 GTTTGATTCGTTTGGTGAATTGGTTTCCAT
1 GTTTGATTCGTTTGGTGAATTGGTTTCCAT
*
108303175 GTTTGATTCGTTTGTTGAATTGGTTTCCAT
1 GTTTGATTCGTTTGGTGAATTGGTTTCCAT
108303205 G
1 G
108303206 CTATTCTGTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.13, C:0.10, G:0.26, T:0.51
Consensus pattern (30 bp):
GTTTGATTCGTTTGGTGAATTGGTTTCCAT
Found at i:108307506 original size:12 final size:11
Alignment explanation
Indices: 108307482--108307511 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
108307472 CATTTTGTTC
108307482 TTTAGTTTCTTT
1 TTTA-TTTCTTT
108307494 TTTATTTCTTT
1 TTTATTTCTTT
108307505 TTTATTT
1 TTTATTT
108307512 TTGTTTACAA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.10, C:0.07, G:0.03, T:0.80
Consensus pattern (11 bp):
TTTATTTCTTT
Found at i:108314640 original size:21 final size:21
Alignment explanation
Indices: 108314614--108314654 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
108314604 AGACGAGCAA
* *
108314614 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
108314635 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
108314655 TTGAGCAGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:108323336 original size:130 final size:132
Alignment explanation
Indices: 108323110--108323477 Score: 354
Period size: 132 Copynumber: 2.8 Consensus size: 132
108323100 AATTTTGAAG
* * * * *
108323110 GGATATTTGATTATTTTAAAC-AATCGGGAAATTGCTACCCAACACGTTAGGGCACGA-TCTCGC
1 GGATATTCGATTATTTTGAACAAAT-GCGAAATTGCAACCCAACACGTTAGGGCACAATTC-CGC
* * * * *
108323173 GAATTGCCAAATATCACATATCGCGTTCGTTTT-AGAGATTTT-AAAAGACACGAGCAAAATTTT
64 GAATTGCCAAATATCAAATATCGCGTTCATTTTAAGAGATTTTAAAAAAACACGAACAAAATTTC
108323236 AAAA
129 AAAA
*
108323240 TGATATTCGATTATTTTGAACAAATGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGA
1 GGATATTCGATTATTTTGAACAAATGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGA
* * * * * * ** * *
108323305 ATTGCCAAACATCAAATCTCATC-TTCATTTTAAGGGATTTTAAAAAAATATGAATGAAGTTTCG
66 ATTGCCAAATATCAAATATC-GCGTTCATTTTAAGAGATTTTAAAAAAACACGAACAAAATTTCA
*
108323369 AAG
130 AAA
* * * **
108323372 GGAAATTCGATTATTTTGAGCAAATACGAAATCCCAACCCAACACGTTAGGGCA-AGATTCCGCG
1 GGATATTCGATTATTTTGAACAAATGCGAAATTGCAACCCAACACGTTAGGGCACA-ATTCCGCG
* * * * *
108323436 AATCGCCGAATATCAAATTTCGCCTCCATTTTGAAGA-ATTTT
65 AATTGCCAAATATCAAATATCGCGTTCATTTT-AAGAGATTTT
108323478 TGGATGAATA
Statistics
Matches: 195, Mismatches: 35, Indels: 14
0.80 0.14 0.06
Matches are distributed among these distances:
130 76 0.39
131 16 0.08
132 100 0.51
133 3 0.02
ACGTcount: A:0.35, C:0.19, G:0.17, T:0.29
Consensus pattern (132 bp):
GGATATTCGATTATTTTGAACAAATGCGAAATTGCAACCCAACACGTTAGGGCACAATTCCGCGA
ATTGCCAAATATCAAATATCGCGTTCATTTTAAGAGATTTTAAAAAAACACGAACAAAATTTCAA
AA
Found at i:108328781 original size:15 final size:16
Alignment explanation
Indices: 108328753--108328789 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
108328743 TAAAATTTAG
108328753 ATTAATTTTATTTAAA
1 ATTAATTTTATTTAAA
108328769 ATTAATTTT-TTTAAA
1 ATTAATTTTATTTAAA
*
108328784 AATAAT
1 ATTAAT
108328790 GTATTAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 11 0.55
16 9 0.45
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
ATTAATTTTATTTAAA
Found at i:108330853 original size:7 final size:7
Alignment explanation
Indices: 108330838--108330964 Score: 74
Period size: 7 Copynumber: 17.7 Consensus size: 7
108330828 CTATATATAA
108330838 GGTTTAT
1 GGTTTAT
*
108330845 GGATTAT
1 GGTTTAT
*
108330852 GGGTTTAA
1 -GGTTTAT
*
108330860 GGATTAT
1 GGTTTAT
108330867 GGGTTTAT
1 -GGTTTAT
108330875 GGTTTAT
1 GGTTTAT
*
108330882 GGTTTAA
1 GGTTTAT
* *
108330889 GGGTTAG
1 GGTTTAT
*
108330896 GGTTTAA
1 GGTTTAT
*
108330903 GGTTTAA
1 GGTTTAT
* *
108330910 GGGTTAA
1 GGTTTAT
* *
108330917 GGGTTAG
1 GGTTTAT
*
108330924 GGATTTAG
1 GG-TTTAT
*
108330932 GGTTTAG
1 GGTTTAT
108330939 GGTTTAT
1 GGTTTAT
**
108330946 ATTTTAT
1 GGTTTAT
*
108330953 GGTTTAA
1 GGTTTAT
108330960 GGTTT
1 GGTTT
108330965 TGGGGATGGC
Statistics
Matches: 97, Mismatches: 20, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
7 80 0.82
8 17 0.18
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (7 bp):
GGTTTAT
Found at i:108330858 original size:15 final size:15
Alignment explanation
Indices: 108330838--108330944 Score: 89
Period size: 15 Copynumber: 7.4 Consensus size: 15
108330828 CTATATATAA
*
108330838 GGTTTATGGATTATG
1 GGTTTAAGGATTATG
108330853 GGTTTAAGGATTATG
1 GGTTTAAGGATTATG
* *
108330868 GGTTTATGGTTTAT-
1 GGTTTAAGGATTATG
*
108330882 GGTTTAAGGGTTA-G
1 GGTTTAAGGATTATG
* *
108330896 GGTTTAAGGTTTAAG
1 GGTTTAAGGATTATG
*
108330911 GG-TTAAGGGTTA-G
1 GGTTTAAGGATTATG
* *
108330924 GGATTTAGGGTTTA-G
1 GG-TTTAAGGATTATG
108330939 GGTTTA
1 GGTTTA
108330945 TATTTTATGG
Statistics
Matches: 79, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
13 3 0.04
14 36 0.46
15 40 0.51
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.42
Consensus pattern (15 bp):
GGTTTAAGGATTATG
Found at i:108330866 original size:22 final size:22
Alignment explanation
Indices: 108330835--108330908 Score: 80
Period size: 22 Copynumber: 3.4 Consensus size: 22
108330825 CCGCTATATA
108330835 TAAGGTTTATGGATTATGGGTT
1 TAAGGTTTATGGATTATGGGTT
* *
108330857 TAAGGATTATGGGTTTAT-GGTT
1 TAAGGTTTAT-GGATTATGGGTT
* * *
108330879 TATGGTTTAAGGGTTA-GGGTT
1 TAAGGTTTATGGATTATGGGTT
108330900 TAAGGTTTA
1 TAAGGTTTA
108330909 AGGGTTAAGG
Statistics
Matches: 43, Mismatches: 7, Indels: 5
0.78 0.13 0.09
Matches are distributed among these distances:
21 17 0.40
22 20 0.47
23 6 0.14
ACGTcount: A:0.23, C:0.00, G:0.32, T:0.45
Consensus pattern (22 bp):
TAAGGTTTATGGATTATGGGTT
Found at i:108330887 original size:14 final size:14
Alignment explanation
Indices: 108330838--108330964 Score: 94
Period size: 14 Copynumber: 8.9 Consensus size: 14
108330828 CTATATATAA
* *
108330838 GGTTTATGGATTAT
1 GGTTTAAGGTTTAT
*
108330852 GGGTTTAAGGATTAT
1 -GGTTTAAGGTTTAT
*
108330867 GGGTTTATGGTTTAT
1 -GGTTTAAGGTTTAT
* *
108330882 GGTTTAAGGGTTAG
1 GGTTTAAGGTTTAT
*
108330896 GGTTTAAGGTTTAA
1 GGTTTAAGGTTTAT
* * *
108330910 GGGTTAAGGGTTAG
1 GGTTTAAGGTTTAT
* *
108330924 GGATTTAGGGTTTAG
1 GG-TTTAAGGTTTAT
*
108330939 GGTTTATA-TTTTAT
1 GGTTTA-AGGTTTAT
108330953 GGTTTAAGGTTT
1 GGTTTAAGGTTT
108330965 TGGGGATGGC
Statistics
Matches: 91, Mismatches: 18, Indels: 7
0.78 0.16 0.06
Matches are distributed among these distances:
13 1 0.01
14 53 0.58
15 37 0.41
ACGTcount: A:0.21, C:0.00, G:0.34, T:0.45
Consensus pattern (14 bp):
GGTTTAAGGTTTAT
Found at i:108331678 original size:7 final size:7
Alignment explanation
Indices: 108331605--108331712 Score: 53
Period size: 7 Copynumber: 15.4 Consensus size: 7
108331595 CAAACCCTTA
*
108331605 AAACTCT
1 AAACCCT
*
108331612 AAACGCT
1 AAACCCT
108331619 AAACCAC-
1 AAACC-CT
*
108331626 AACCCCT
1 AAACCCT
108331633 AAACTCC-
1 AAAC-CCT
*
108331640 AAACCTT
1 AAACCCT
**
108331647 AATTCCT
1 AAACCCT
*
108331654 -AACACT
1 AAACCCT
108331660 -AACCCAT
1 AAACCC-T
108331667 AAACCCT
1 AAACCCT
108331674 AAACCCT
1 AAACCCT
*
108331681 AAACCTT
1 AAACCCT
*
108331688 AAACTCTT
1 AAAC-CCT
*
108331696 AAACCAT
1 AAACCCT
*
108331703 AAACCTT
1 AAACCCT
108331710 AAA
1 AAA
108331713 ATCTAAAAAA
Statistics
Matches: 79, Mismatches: 15, Indels: 14
0.73 0.14 0.13
Matches are distributed among these distances:
6 9 0.11
7 55 0.70
8 15 0.19
ACGTcount: A:0.44, C:0.34, G:0.01, T:0.20
Consensus pattern (7 bp):
AAACCCT
Found at i:108331690 original size:21 final size:21
Alignment explanation
Indices: 108331600--108331712 Score: 77
Period size: 21 Copynumber: 5.3 Consensus size: 21
108331590 TATCACAAAC
* *
108331600 CCTTAAAACTCTAAACGCTAAA
1 CCTT-AAACCCTAAACCCTAAA
** *
108331622 CCACAACCCCTAAACTCC-AAA
1 CCTTAAACCCTAAAC-CCTAAA
** * *
108331643 CCTTAATTCCT-AACACTAAC
1 CCTTAAACCCTAAACCCTAAA
*
108331663 CCATAAACCCTAAACCCTAAA
1 CCTTAAACCCTAAACCCTAAA
* *
108331684 CCTTAAACTCTTAAACCATAAA
1 CCTTAAAC-CCTAAACCCTAAA
108331706 CCTTAAA
1 CCTTAAA
108331713 ATCTAAAAAA
Statistics
Matches: 68, Mismatches: 19, Indels: 8
0.72 0.20 0.08
Matches are distributed among these distances:
19 1 0.01
20 13 0.19
21 33 0.49
22 21 0.31
ACGTcount: A:0.43, C:0.35, G:0.01, T:0.21
Consensus pattern (21 bp):
CCTTAAACCCTAAACCCTAAA
Found at i:108332191 original size:115 final size:115
Alignment explanation
Indices: 108331978--108332229 Score: 355
Period size: 115 Copynumber: 2.2 Consensus size: 115
108331968 AATTAGTGGC
* * *
108331978 GTTTTTACTAAAACGCCGCAAAAGGATATCCTTTAGTGGCATTTTCTCATAAAACGCCGCAAAAA
1 GTTTTTACTAAAACGCCACAAAAAGATATCCTTTAGTGGCATTTTATCATAAAACGCCGCAAAAA
*
108332043 TGTTTTAAGACTGTGCAAAACGCTGCTGCTTTTATTGGCTTTTTAATGGT
66 TGTTTTAAGACTATGCAAAACGCTGCTGCTTTTATTGGCTTTTTAATGGT
**
108332093 GTTTTTACTAAAATTCCACAAAAAGATATCCTTTAGTGGCATTTTATCATAAAACGCCGCAAAAA
1 GTTTTTACTAAAACGCCACAAAAAGATATCCTTTAGTGGCATTTTATCATAAAACGCCGCAAAAA
* * * * *
108332158 TGTTTTAAGACTATGCAAAACGCT-ATCGTTTTTATCT-ACTTTTTAGTGGC
66 TGTTTTAAGACTATGCAAAACGCTGCT-GCTTTTAT-TGGCTTTTTAATGGT
**
108332208 AATTTTACTAAAACGCCACAAA
1 GTTTTTACTAAAACGCCACAAA
108332230 TATCGATTAT
Statistics
Matches: 120, Mismatches: 15, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
114 1 0.01
115 118 0.98
116 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.15, T:0.35
Consensus pattern (115 bp):
GTTTTTACTAAAACGCCACAAAAAGATATCCTTTAGTGGCATTTTATCATAAAACGCCGCAAAAA
TGTTTTAAGACTATGCAAAACGCTGCTGCTTTTATTGGCTTTTTAATGGT
Found at i:108332435 original size:62 final size:61
Alignment explanation
Indices: 108332346--108332488 Score: 173
Period size: 62 Copynumber: 2.3 Consensus size: 61
108332336 TAGCCCCGAA
* * * * *
108332346 TTTC-CCTAGTTTTCCCTCAAATTAGATTACTCTAATTTCATTCCCCCAATTTCTCAGTTTCT
1 TTTCTCCTA-TTTTCCC-CAAATCAGATTACCCCAATTTCATTCCCCCAATTTCCCAATTTCT
* *
108332408 TTTCT-CTCATTTTCTCCCAAATCAGATTACCCCGATTTCATTCCCCCAGTTTCCCAATTTCT
1 TTTCTCCT-ATTTTC-CCCAAATCAGATTACCCCAATTTCATTCCCCCAATTTCCCAATTTCT
108332470 TTTCTCCTATTTTCCCCAA
1 TTTCTCCTATTTTCCCCAA
108332489 CGGCGTCTTC
Statistics
Matches: 70, Mismatches: 7, Indels: 9
0.81 0.08 0.10
Matches are distributed among these distances:
61 5 0.07
62 60 0.86
63 5 0.07
ACGTcount: A:0.20, C:0.33, G:0.04, T:0.43
Consensus pattern (61 bp):
TTTCTCCTATTTTCCCCAAATCAGATTACCCCAATTTCATTCCCCCAATTTCCCAATTTCT
Found at i:108333589 original size:43 final size:43
Alignment explanation
Indices: 108333542--108333659 Score: 174
Period size: 38 Copynumber: 2.9 Consensus size: 43
108333532 TTTAACAGAT
108333542 CATTAATGGATCATGTTTTTAACTTATTTAATTCTTGAAAATA
1 CATTAATGGATCATGTTTTTAACTTATTTAATTCTTGAAAATA
** *
108333585 CATTAATGGATCA--TTAAT-A-TTGTTT-ATTCTTGAAAATA
1 CATTAATGGATCATGTTTTTAACTTATTTAATTCTTGAAAATA
108333623 CATTAATGGATCATGTTTTTAACTTATTTAATTCTTG
1 CATTAATGGATCATGTTTTTAACTTATTTAATTCTTG
108333660 TTTATCCTTA
Statistics
Matches: 64, Mismatches: 6, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
38 26 0.41
39 5 0.08
40 4 0.06
41 4 0.06
42 5 0.08
43 20 0.31
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.47
Consensus pattern (43 bp):
CATTAATGGATCATGTTTTTAACTTATTTAATTCTTGAAAATA
Found at i:108338627 original size:26 final size:26
Alignment explanation
Indices: 108338591--108338645 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
108338581 CATACTAAGG
*
108338591 AAGATTTTCTTGGCCTGATTTTCTTT
1 AAGATTTTCTTGGCCTAATTTTCTTT
108338617 AAGATTTTCTTGGCCTAATTTTCTTT
1 AAGATTTTCTTGGCCTAATTTTCTTT
108338643 AAG
1 AAG
108338646 CCAAAGAGTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.20, C:0.15, G:0.15, T:0.51
Consensus pattern (26 bp):
AAGATTTTCTTGGCCTAATTTTCTTT
Found at i:108342095 original size:12 final size:12
Alignment explanation
Indices: 108342080--108342117 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
108342070 TATACTATTC
108342080 TTAATATTAATA
1 TTAATATTAATA
108342092 TTAATATTAATA
1 TTAATATTAATA
*
108342104 ATAATATT-ATA
1 TTAATATTAATA
108342115 TTA
1 TTA
108342118 TTATATTTAC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
11 5 0.21
12 19 0.79
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (12 bp):
TTAATATTAATA
Found at i:108342330 original size:3 final size:3
Alignment explanation
Indices: 108342309--108342349 Score: 55
Period size: 3 Copynumber: 13.3 Consensus size: 3
108342299 ATACTTTTAC
* *
108342309 TAT TAT TGT TAT TAG TAT TAT TAT TATT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T
108342350 TGTTTGTACA
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
3 30 0.91
4 3 0.09
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:108346799 original size:27 final size:26
Alignment explanation
Indices: 108346741--108346811 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
108346731 TTCCTGTCTT
* *
108346741 ATTTTTTATTTTTAATATTAATATAATT
1 ATTTTTTA--TTTAATATTAATAAAATA
108346769 A-TTTTTATTTAATATTAACATAAAATA
1 ATTTTTTATTTAATATT-A-ATAAAATA
108346796 ATTTTTTATTT-ATATT
1 ATTTTTTATTTAATATT
108346812 TTCACGGGTG
Statistics
Matches: 38, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
25 9 0.24
26 1 0.03
27 18 0.47
28 10 0.26
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (26 bp):
ATTTTTTATTTAATATTAATAAAATA
Found at i:108350020 original size:20 final size:21
Alignment explanation
Indices: 108349971--108350020 Score: 52
Period size: 20 Copynumber: 2.5 Consensus size: 21
108349961 AATATATAAA
*
108349971 ATATAATAT-TAAAAGCATAT
1 ATATAATATATAAAAGAATAT
*
108349991 ATA-ACGTATAT-AAAGAATAT
1 ATATA-ATATATAAAAGAATAT
108350011 ATATAATATA
1 ATATAATATA
108350021 ATACATAAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
19 1 0.04
20 21 0.88
21 2 0.08
ACGTcount: A:0.56, C:0.04, G:0.06, T:0.34
Consensus pattern (21 bp):
ATATAATATATAAAAGAATAT
Found at i:108357939 original size:14 final size:14
Alignment explanation
Indices: 108357920--108357946 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
108357910 ATAAAACAAT
108357920 GAAAATATTTTACG
1 GAAAATATTTTACG
108357934 GAAAATATTTTAC
1 GAAAATATTTTAC
108357947 ATACAAACAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.37
Consensus pattern (14 bp):
GAAAATATTTTACG
Found at i:108367575 original size:18 final size:18
Alignment explanation
Indices: 108367548--108367622 Score: 96
Period size: 18 Copynumber: 4.2 Consensus size: 18
108367538 CCCAACTACT
*
108367548 GTATACGTGAACAGTACC
1 GTATACGTGAATAGTACC
*
108367566 GTATATGTGAATAGTACC
1 GTATACGTGAATAGTACC
* * * *
108367584 GTATATGTAAATAGTGCT
1 GTATACGTGAATAGTACC
108367602 GTATACGTGAATAGTACC
1 GTATACGTGAATAGTACC
108367620 GTA
1 GTA
108367623 AACGGTCGTA
Statistics
Matches: 48, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 48 1.00
ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31
Consensus pattern (18 bp):
GTATACGTGAATAGTACC
Found at i:108373564 original size:21 final size:21
Alignment explanation
Indices: 108373532--108373572 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
108373522 AGGCTCGAGG
108373532 GGCCTGTTTTAGGCC-ATACAA
1 GGCCTGTTTTA-GCCTATACAA
108373553 GGCCT-TTCTTAGCCTATACA
1 GGCCTGTT-TTAGCCTATACA
108373573 CCAAATGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGCCTGTTTTAGCCTATACAA
Found at i:108381103 original size:189 final size:189
Alignment explanation
Indices: 108380783--108381301 Score: 840
Period size: 189 Copynumber: 2.7 Consensus size: 189
108380773 GCGGTTGCCC
* * *
108380783 AATTGAAGAAGTGTCGTTGCCTTTCGACCCCCTATGTAATCTTCAGCACTTAAAAATGAGTGGCT
1 AATTGAAGAAGTGTCGTTGCCTTTCGACTCTCTATGTAATCTTCAGCACTTAAATATGAGTGGCT
108380848 CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
66 CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
* *
108380913 ATGGTCAAATTTCCAGAAATCCCAGGAAGCTTAATAAAATTAAACTTATCTGGCACTCA
131 ATGGTCGAATTTCCAGAAATCCCAGAAAGCTTAATAAAATTAAACTTATCTGGCACTCA
* * * **
108380972 AATTGAAAAAGTATCGTTGCCTTTCGAATCTCTATGTAATCTTCAGCTTTTAAATATGAGTGGCT
1 AATTGAAGAAGTGTCGTTGCCTTTCGACTCTCTATGTAATCTTCAGCACTTAAATATGAGTGGCT
*
108381037 CAGCAGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
66 CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
* **
108381102 ATGGTCGAATTTCCAGAAATCCCAGAAAGTTTAATGGAATTAAACTTATCTGGCACTCA
131 ATGGTCGAATTTCCAGAAATCCCAGAAAGCTTAATAAAATTAAACTTATCTGGCACTCA
*
108381161 AATTGAAGAAGTGTCGTTGCCTTTTGACTCTCTATGTAATCTTCAGCACTTAAATATGAGTGGCT
1 AATTGAAGAAGTGTCGTTGCCTTTCGACTCTCTATGTAATCTTCAGCACTTAAATATGAGTGGCT
* * * * * *
108381226 CAGTGGTCAAAAATGTATCGATCAAGTTGGAATCTCTTCATTATCTGGATCTTAGTGGTTGCCCA
66 CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
*
108381291 AAGGTCGAATT
131 ATGGTCGAATT
108381302 ACTCTCAGAG
Statistics
Matches: 302, Mismatches: 28, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
189 302 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.31
Consensus pattern (189 bp):
AATTGAAGAAGTGTCGTTGCCTTTCGACTCTCTATGTAATCTTCAGCACTTAAATATGAGTGGCT
CAGCGGTCAAAAATGTATCGATCAAGTTGGAATCCCTTCGTAAACTGAATCTTAGTGGTTGCCCA
ATGGTCGAATTTCCAGAAATCCCAGAAAGCTTAATAAAATTAAACTTATCTGGCACTCA
Found at i:108382298 original size:20 final size:21
Alignment explanation
Indices: 108382265--108382303 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
108382255 TATTATCAGA
* *
108382265 CATTTTTCCGTATTTTCATTT
1 CATTTTTCCATATTGTCATTT
108382286 CATTTTT-CATATTGTCAT
1 CATTTTTCCATATTGTCAT
108382304 ACTTTTGTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 9 0.56
21 7 0.44
ACGTcount: A:0.18, C:0.18, G:0.05, T:0.59
Consensus pattern (21 bp):
CATTTTTCCATATTGTCATTT
Found at i:108385528 original size:33 final size:33
Alignment explanation
Indices: 108385486--108385555 Score: 95
Period size: 33 Copynumber: 2.1 Consensus size: 33
108385476 TACAACACCA
* *
108385486 TCCCTATCAGCTTCCACTCTTTCAATATCACTC
1 TCCCAATCAGCTTCCACTCTTTCAACATCACTC
* * *
108385519 TCCCAATCAGTTTCTACTCTTTCAGCATCACTC
1 TCCCAATCAGCTTCCACTCTTTCAACATCACTC
108385552 TCCC
1 TCCC
108385556 CAGTAGTCAA
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
33 32 1.00
ACGTcount: A:0.20, C:0.40, G:0.04, T:0.36
Consensus pattern (33 bp):
TCCCAATCAGCTTCCACTCTTTCAACATCACTC
Found at i:108388659 original size:27 final size:26
Alignment explanation
Indices: 108388599--108388660 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
108388589 ATTTTATTTT
108388599 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
108388625 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
108388653 ATTTTATT
1 ATTTTATT
108388661 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:108397816 original size:3 final size:3
Alignment explanation
Indices: 108397808--108397878 Score: 108
Period size: 3 Copynumber: 23.7 Consensus size: 3
108397798 CGTTTACCCT
*
108397808 GAA GAA GAA GAA GAA GAT GAA GAA GAA GAA GAA GAA GAA GATA -AA
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GA-A GAA
*
108397853 GAA GAA GAA GAT GAA GAA GAA GAA GA
1 GAA GAA GAA GAA GAA GAA GAA GAA GA
108397879 TTATGAAGTA
Statistics
Matches: 62, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
2 1 0.02
3 60 0.97
4 1 0.02
ACGTcount: A:0.63, C:0.00, G:0.32, T:0.04
Consensus pattern (3 bp):
GAA
Found at i:108397830 original size:18 final size:18
Alignment explanation
Indices: 108397807--108397893 Score: 111
Period size: 18 Copynumber: 4.7 Consensus size: 18
108397797 ACGTTTACCC
108397807 TGAAGAAGAAGAAGAAGA
1 TGAAGAAGAAGAAGAAGA
108397825 TGAAGAAGAAGAAGAAGA
1 TGAAGAAGAAGAAGAAGA
*
108397843 AGAAGATAAAGAAGAAGAAGA
1 TGAAG---AAGAAGAAGAAGA
**
108397864 TGAAGAAGAAGAAGATTA
1 TGAAGAAGAAGAAGAAGA
*
108397882 TGAAGTAGAAGA
1 TGAAGAAGAAGA
108397894 CGATTTCAAG
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
18 44 0.72
21 17 0.28
ACGTcount: A:0.60, C:0.00, G:0.31, T:0.09
Consensus pattern (18 bp):
TGAAGAAGAAGAAGAAGA
Found at i:108397831 original size:15 final size:15
Alignment explanation
Indices: 108397808--108397893 Score: 109
Period size: 15 Copynumber: 5.7 Consensus size: 15
108397798 CGTTTACCCT
*
108397808 GAAGAAGAAGAAGAA
1 GAAGAAGAAGATGAA
* *
108397823 GATGAAGAAGAAGAA
1 GAAGAAGAAGATGAA
*
108397838 GAAGAAGAAGATAAA
1 GAAGAAGAAGATGAA
108397853 GAAGAAGAAGATGAA
1 GAAGAAGAAGATGAA
* *
108397868 GAAGAAGAAGATTAT
1 GAAGAAGAAGATGAA
*
108397883 GAAGTAGAAGA
1 GAAGAAGAAGA
108397894 CGATTTCAAG
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 63 1.00
ACGTcount: A:0.60, C:0.00, G:0.31, T:0.08
Consensus pattern (15 bp):
GAAGAAGAAGATGAA
Found at i:108397979 original size:9 final size:9
Alignment explanation
Indices: 108397965--108398000 Score: 63
Period size: 9 Copynumber: 4.0 Consensus size: 9
108397955 GCAGAGAGTT
108397965 ATACAGATG
1 ATACAGATG
108397974 ATACAGATG
1 ATACAGATG
*
108397983 CTACAGATG
1 ATACAGATG
108397992 ATACAGATG
1 ATACAGATG
108398001 CTACTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (9 bp):
ATACAGATG
Found at i:108397987 original size:18 final size:18
Alignment explanation
Indices: 108397966--108398004 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
108397956 CAGAGAGTTA
108397966 TACAGATGATACAGATGC
1 TACAGATGATACAGATGC
108397984 TACAGATGATACAGATGC
1 TACAGATGATACAGATGC
108398002 TAC
1 TAC
108398005 TGAAAAGAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.38, C:0.18, G:0.21, T:0.23
Consensus pattern (18 bp):
TACAGATGATACAGATGC
Found at i:108402396 original size:28 final size:28
Alignment explanation
Indices: 108402356--108402412 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
108402346 TCCTTGCAGT
108402356 AGATTTTGAATATATCTATTGGATAAGA
1 AGATTTTGAATATATCTATTGGATAAGA
* *
108402384 AGATTTTGGATATATCTCTTGGATAAGA
1 AGATTTTGAATATATCTATTGGATAAGA
108402412 A
1 A
108402413 TGATAATATG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.39
Consensus pattern (28 bp):
AGATTTTGAATATATCTATTGGATAAGA
Found at i:108403212 original size:20 final size:20
Alignment explanation
Indices: 108403187--108403236 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
108403177 TGGCTTAAAA
108403187 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
108403207 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
108403224 GTGGTAGTGGATT
1 TTGGTAGTGGATT
108403237 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:108407840 original size:20 final size:20
Alignment explanation
Indices: 108407815--108407864 Score: 70
Period size: 17 Copynumber: 2.6 Consensus size: 20
108407805 TGGCTTAAAA
108407815 TTGGTAGTGGATTGTTGTTG
1 TTGGTAGTGGATTGTTGTTG
108407835 TTGGTAGTGG---GTTGTTG
1 TTGGTAGTGGATTGTTGTTG
*
108407852 GTGGTAGTGGATT
1 TTGGTAGTGGATT
108407865 AGTGGATGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 16 0.62
20 10 0.38
ACGTcount: A:0.10, C:0.00, G:0.44, T:0.46
Consensus pattern (20 bp):
TTGGTAGTGGATTGTTGTTG
Found at i:108411489 original size:11 final size:11
Alignment explanation
Indices: 108411473--108411504 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
108411463 GTACTGCCCA
108411473 AAGTAAGTAGT
1 AAGTAAGTAGT
108411484 AAGTAAGTAGT
1 AAGTAAGTAGT
108411495 AAGTAAGTAG
1 AAGTAAGTAG
108411505 ACAATGCTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.47, C:0.00, G:0.28, T:0.25
Consensus pattern (11 bp):
AAGTAAGTAGT
Found at i:108418440 original size:16 final size:17
Alignment explanation
Indices: 108418413--108418447 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
108418403 TGACTGAAAA
*
108418413 TTAATATTTTTAATGAT
1 TTAATATTTTTAATCAT
108418430 TTAAT-TTTTTAATCAT
1 TTAATATTTTTAATCAT
108418446 TT
1 TT
108418448 TTGATAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (17 bp):
TTAATATTTTTAATCAT
Found at i:108425237 original size:29 final size:29
Alignment explanation
Indices: 108425195--108425254 Score: 111
Period size: 29 Copynumber: 2.1 Consensus size: 29
108425185 GATTTTAGGT
*
108425195 TCATTTAATGATTTTTAGCATCCTCGCCG
1 TCATTTAAAGATTTTTAGCATCCTCGCCG
108425224 TCATTTAAAGATTTTTAGCATCCTCGCCG
1 TCATTTAAAGATTTTTAGCATCCTCGCCG
108425253 TC
1 TC
108425255 TTTTCCCCAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.22, C:0.25, G:0.13, T:0.40
Consensus pattern (29 bp):
TCATTTAAAGATTTTTAGCATCCTCGCCG
Found at i:108430359 original size:18 final size:18
Alignment explanation
Indices: 108430336--108430372 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
108430326 GTTTTTGAGA
108430336 AGGTATGTGAGTCAACCT
1 AGGTATGTGAGTCAACCT
108430354 AGGTATGTGAGTCAACCT
1 AGGTATGTGAGTCAACCT
108430372 A
1 A
108430373 TAGGAGCCTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (18 bp):
AGGTATGTGAGTCAACCT
Found at i:108440481 original size:22 final size:22
Alignment explanation
Indices: 108440454--108440500 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
108440444 CGAAATCAAA
*
108440454 TAAATTTGAAAT-AATTCAAATT
1 TAAA-TTGAAATCAATTCAAAAT
*
108440476 TAAATTGGAATCAATTCAAAAT
1 TAAATTGAAATCAATTCAAAAT
108440498 TAA
1 TAA
108440501 TCTTATTCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.36
Consensus pattern (22 bp):
TAAATTGAAATCAATTCAAAAT
Found at i:108443107 original size:21 final size:21
Alignment explanation
Indices: 108443081--108443120 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
108443071 ATCATTTACG
108443081 GATTTCATTTGAACCGAAACA
1 GATTTCATTTGAACCGAAACA
108443102 GATTTCATTTGAACCGAAA
1 GATTTCATTTGAACCGAAA
108443121 TGAAAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.17, G:0.15, T:0.30
Consensus pattern (21 bp):
GATTTCATTTGAACCGAAACA
Found at i:108443818 original size:22 final size:22
Alignment explanation
Indices: 108443793--108443835 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
108443783 TATCCAAACA
*
108443793 ATAACAGTAAAATAATAACAAT
1 ATAACAATAAAATAATAACAAT
* *
108443815 ATAATAATAAAATAGTAACAA
1 ATAACAATAAAATAATAACAA
108443836 AACAACAACA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.65, C:0.07, G:0.05, T:0.23
Consensus pattern (22 bp):
ATAACAATAAAATAATAACAAT
Found at i:108445340 original size:40 final size:40
Alignment explanation
Indices: 108445296--108445373 Score: 111
Period size: 40 Copynumber: 1.9 Consensus size: 40
108445286 GCAGATACGG
* * * *
108445296 CTTGCGACCTCGTCCCTACGAGGTTTACTCGAGCTCTCTT
1 CTTGCGACCTCATCCCTACGAAGCTTACGCGAGCTCTCTT
*
108445336 CTTGCGACCTCATTCCTACGAAGCTTACGCGAGCTCTC
1 CTTGCGACCTCATCCCTACGAAGCTTACGCGAGCTCTC
108445374 CTTATGGTTT
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.15, C:0.36, G:0.19, T:0.29
Consensus pattern (40 bp):
CTTGCGACCTCATCCCTACGAAGCTTACGCGAGCTCTCTT
Found at i:108448420 original size:138 final size:135
Alignment explanation
Indices: 108448176--108448592 Score: 467
Period size: 138 Copynumber: 3.0 Consensus size: 135
108448166 AACCTTGGTC
* * * * *
108448176 TTACAGTTGGGAGCTTTGCTCTTACTAACTATGTTTG-AGGCCGTGGCTCTTCACTTGTGAACAT
1 TTACAGCTGGGAGCTTTGCTC-TACTAACTATG-TTGAAGGTCGTGACTCTTCAC-TATGAACCT
* * * * * * * *
108448240 TAATTTTACAACTGGGAACTTTGATCTTGCTATCTGTATTGGACGTCGCGACTCTTCACCTACAA
63 TAATTTTACAACTGGGAACTTT-ATCTCGCTAACTGTGTTGGAGGTCACGGCTCTTCGCCTGCAA
108448305 ACCTTAATT
127 ACCTTAATT
** * *
108448314 TTACAGCTGGGAGCTTTGCTCTAGCTAACTATGTTGAAGGTCACGACTTTTCACATACGAACCTT
1 TTACAGCTGGGAGCTTTGCTCTA-CTAACTATGTTGAAGGTCGTGACTCTTCAC-TATGAACCTT
* * * *
108448379 AATTTTACAATTGGGAGCTTTACTCTCGCTAACTATGTTGGAGGTCACGGCTCTTCGCTTGCAAA
64 AATTTTACAACTGGGAACTTTA-TCTCGCTAACTGTGTTGGAGGTCACGGCTCTTCGCCTGCAAA
108448444 CCTTAATT
128 CCTTAATT
* * *
108448452 TTACAACTGGGAGCTTTGCTCTCACTAACTATGTTGAAGGTCGTAACTCCTCATCTATGAACCTT
1 TTACAGCTGGGAGCTTTGCTCT-ACTAACTATGTTGAAGGTCGTGACTCTTCA-CTATGAACCTT
* * * * **
108448517 AATTTTACAACTGGGACCTTTGTTCTCACTAATTGTGTTGGAGGTCACGGCTCTTCGCCTGTGAA
64 AATTTTACAACTGGGAACTTT-ATCTCGCTAACTGTGTTGGAGGTCACGGCTCTTCGCCTGCAAA
108448582 CCTTAATT
128 CCTTAATT
108448590 TTA
1 TTA
108448593 TAGACGATAA
Statistics
Matches: 235, Mismatches: 38, Indels: 12
0.82 0.13 0.04
Matches are distributed among these distances:
137 6 0.03
138 227 0.97
139 2 0.01
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (135 bp):
TTACAGCTGGGAGCTTTGCTCTACTAACTATGTTGAAGGTCGTGACTCTTCACTATGAACCTTAA
TTTTACAACTGGGAACTTTATCTCGCTAACTGTGTTGGAGGTCACGGCTCTTCGCCTGCAAACCT
TAATT
Found at i:108448519 original size:207 final size:207
Alignment explanation
Indices: 108448176--108448592 Score: 467
Period size: 207 Copynumber: 2.0 Consensus size: 207
108448166 AACCTTGGTC
* * * * ** **
108448176 TTACAGTTGGGAGCTTTGCTCTTACTAACTATGTTTGAGGCCGTGGCTCTTCACTTGTGAACATT
1 TTACAATTGGGAGCTTTACTCTCACTAACTATGTTGGAGGCCACGGCTCTTCACTTGCAAACATT
** * * * * *
108448241 AATTTTACAACTGGGAACTTTGATCTTGCTATCTGTATTGGACGTCGCGACTCTTCACCTACAAA
66 AATTTTACAACTGGGAACTTTGATCTCACTAACTATATTGAACGTCGCAACTCCTCACCTACAAA
* * *
108448306 CCTTAATTTTACAGCTGGGAGCTTTGCTCT-AGCTAACTATGTTGAAGGTCACGACTTTTCACAT
131 CCTTAATTTTACAACTGGGACCTTTGCTCTCA-CTAACTATGTTGAAGGTCACGACTCTTCACAT
108448370 ACGAACCTTAATT
195 ACGAACCTTAATT
* * * *
108448383 TTACAATTGGGAGCTTTACTCTCGCTAACTATGTTGGAGGTCACGGCTCTTCGCTTGCAAACCTT
1 TTACAATTGGGAGCTTTACTCTCACTAACTATGTTGGAGGCCACGGCTCTTCACTTGCAAACATT
* * * * * * **
108448448 AATTTTACAACTGGGAGCTTTGCTCTCACTAACTATGTTGAAGGTCGTAACTCCTCATCTATGAA
66 AATTTTACAACTGGGAACTTTGATCTCACTAACTATATTGAACGTCGCAACTCCTCACCTACAAA
* * * * * * * *
108448513 CCTTAATTTTACAACTGGGACCTTTGTTCTCACTAATTGTGTTGGAGGTCACGGCTCTTCGCCTG
131 CCTTAATTTTACAACTGGGACCTTTGCTCTCACTAACTATGTTGAAGGTCACGACTCTTCACATA
*
108448578 TGAACCTTAATT
196 CGAACCTTAATT
108448590 TTA
1 TTA
108448593 TAGACGATAA
Statistics
Matches: 170, Mismatches: 39, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
207 169 0.99
208 1 0.01
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (207 bp):
TTACAATTGGGAGCTTTACTCTCACTAACTATGTTGGAGGCCACGGCTCTTCACTTGCAAACATT
AATTTTACAACTGGGAACTTTGATCTCACTAACTATATTGAACGTCGCAACTCCTCACCTACAAA
CCTTAATTTTACAACTGGGACCTTTGCTCTCACTAACTATGTTGAAGGTCACGACTCTTCACATA
CGAACCTTAATT
Found at i:108448582 original size:69 final size:69
Alignment explanation
Indices: 108448183--108448592 Score: 381
Period size: 69 Copynumber: 5.9 Consensus size: 69
108448173 GTCTTACAGT
* * * ** * * ** *
108448183 TGGGAGCTTTGCTCTTACTAACTATGTTTGAGGCCGTGGCTCTTCACTTGTGAACATTAATTTTA
1 TGGGAGCTTTGCTCTCACTAACTATGTTGGAGGTCACGACTCTTCACCTACGAACCTTAATTTTA
108448248 CAAC
66 CAAC
* * ** * * * * * *
108448252 TGGGAACTTTGATCTTGCTATCTGTATTGGACGTCGCGACTCTTCACCTACAAACCTTAATTTTA
1 TGGGAGCTTTGCTCTCACTAACTATGTTGGAGGTCACGACTCTTCACCTACGAACCTTAATTTTA
*
108448317 CAGC
66 CAAC
* * *
108448321 TGGGAGCTTTGCTCT-AGCTAACTATGTTGAAGGTCACGACTTTTCACATACGAACCTTAATTTT
1 TGGGAGCTTTGCTCTCA-CTAACTATGTTGGAGGTCACGACTCTTCACCTACGAACCTTAATTTT
*
108448385 ACAAT
65 ACAAC
* * * * * * *
108448390 TGGGAGCTTTACTCTCGCTAACTATGTTGGAGGTCACGGCTCTTCGCTTGCAAACCTTAATTTTA
1 TGGGAGCTTTGCTCTCACTAACTATGTTGGAGGTCACGACTCTTCACCTACGAACCTTAATTTTA
108448455 CAAC
66 CAAC
* *** * * *
108448459 TGGGAGCTTTGCTCTCACTAACTATGTTGAAGGTCGTAACTCCTCATCTATGAACCTTAATTTTA
1 TGGGAGCTTTGCTCTCACTAACTATGTTGGAGGTCACGACTCTTCACCTACGAACCTTAATTTTA
108448524 CAAC
66 CAAC
* * * * * * **
108448528 TGGGACCTTTGTTCTCACTAATTGTGTTGGAGGTCACGGCTCTTCGCCTGTGAACCTTAATTTTA
1 TGGGAGCTTTGCTCTCACTAACTATGTTGGAGGTCACGACTCTTCACCTACGAACCTTAATTTTA
108448593 TAGACGATAA
Statistics
Matches: 271, Mismatches: 68, Indels: 4
0.79 0.20 0.01
Matches are distributed among these distances:
69 271 1.00
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (69 bp):
TGGGAGCTTTGCTCTCACTAACTATGTTGGAGGTCACGACTCTTCACCTACGAACCTTAATTTTA
CAAC
Found at i:108456268 original size:21 final size:21
Alignment explanation
Indices: 108456243--108456307 Score: 82
Period size: 21 Copynumber: 3.2 Consensus size: 21
108456233 TAGCCTTTGG
108456243 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
* * *
108456264 GCTTCAG-TTAGC-CTT-CGA
1 GCTTCCGTTTAGCACTTATGT
108456282 GCTTCCGTTTAGCACTTATGT
1 GCTTCCGTTTAGCACTTATGT
108456303 GCTTC
1 GCTTC
108456308 AGCTAGACTT
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 8 0.23
21 12 0.34
ACGTcount: A:0.14, C:0.26, G:0.20, T:0.40
Consensus pattern (21 bp):
GCTTCCGTTTAGCACTTATGT
Found at i:108456271 original size:39 final size:39
Alignment explanation
Indices: 108456225--108456319 Score: 154
Period size: 39 Copynumber: 2.4 Consensus size: 39
108456215 GCTCTGATGA
* *
108456225 GCTTCAGTTAGCCTTTGGGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTATGT
108456264 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTATGT
1 GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTATGT
* *
108456303 GCTTCAGCTAGACTTCG
1 GCTTCAGTTAGCCTTCG
108456320 GGTTTCAGAT
Statistics
Matches: 52, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 52 1.00
ACGTcount: A:0.15, C:0.25, G:0.22, T:0.38
Consensus pattern (39 bp):
GCTTCAGTTAGCCTTCGAGCTTCCGTTTAGCACTTATGT
Found at i:108459935 original size:15 final size:15
Alignment explanation
Indices: 108459915--108459947 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
108459905 CTACTAATAA
108459915 TTCTTGTCA-TTCTTC
1 TTCTTGT-ATTTCTTC
108459930 TTCTTGTATTTCTTC
1 TTCTTGTATTTCTTC
108459945 TTC
1 TTC
108459948 AGAAGTACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 1 0.06
15 16 0.94
ACGTcount: A:0.06, C:0.24, G:0.06, T:0.64
Consensus pattern (15 bp):
TTCTTGTATTTCTTC
Found at i:108460241 original size:3 final size:3
Alignment explanation
Indices: 108460233--108460276 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
108460223 ATCACATGTT
108460233 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
108460277 TGGATGTAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:108464615 original size:3 final size:3
Alignment explanation
Indices: 108464607--108464638 Score: 64
Period size: 3 Copynumber: 10.7 Consensus size: 3
108464597 ATCACATGTT
108464607 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
108464639 TGGATGTAAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:108464758 original size:73 final size:73
Alignment explanation
Indices: 108464639--108464824 Score: 363
Period size: 73 Copynumber: 2.5 Consensus size: 73
108464629 TATTATTATT
*
108464639 TGGATGTAATGATGTAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
108464704 ATTTTAAG
66 ATTTTAAG
108464712 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
108464777 ATTTTAAG
66 ATTTTAAG
108464785 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
1 TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTT
108464825 GTCAAGTTGT
Statistics
Matches: 112, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
73 112 1.00
ACGTcount: A:0.28, C:0.06, G:0.25, T:0.41
Consensus pattern (73 bp):
TGGATGTAATGATGAAACTTAGTTGTATTCCAACTAAGTTTGTTAGTGGTAGTAGGTGGTGATTT
ATTTTAAG
Found at i:108468005 original size:13 final size:13
Alignment explanation
Indices: 108467987--108468013 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
108467977 AAACTTCTTG
108467987 TAATAAAAAAGTA
1 TAATAAAAAAGTA
108468000 TAATAAAAAAGTA
1 TAATAAAAAAGTA
108468013 T
1 T
108468014 GGTCAATTAG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.67, C:0.00, G:0.07, T:0.26
Consensus pattern (13 bp):
TAATAAAAAAGTA
Found at i:108470370 original size:16 final size:17
Alignment explanation
Indices: 108470343--108470377 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
108470333 TGACTGAAAA
*
108470343 TTAATATTTTTAATGAT
1 TTAATATTTTTAATCAT
108470360 TTAAT-TTTTTAATCAT
1 TTAATATTTTTAATCAT
108470376 TT
1 TT
108470378 TTGATAATTC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.63
Consensus pattern (17 bp):
TTAATATTTTTAATCAT
Found at i:108470684 original size:16 final size:16
Alignment explanation
Indices: 108470663--108470695 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
108470653 GAGGAACATG
108470663 TAAGCTTTTAATTTTT
1 TAAGCTTTTAATTTTT
108470679 TAAGCTTTTAATTTTT
1 TAAGCTTTTAATTTTT
108470695 T
1 T
108470696 CTACTGAAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.24, C:0.06, G:0.06, T:0.64
Consensus pattern (16 bp):
TAAGCTTTTAATTTTT
Found at i:108478415 original size:23 final size:23
Alignment explanation
Indices: 108478384--108478432 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
108478374 ACCATCAAAC
*
108478384 ACTGAAGGTGGAGGTGGAGTGAA
1 ACTGAAGGTGGAGGTAGAGTGAA
*
108478407 ACTGGAGGTGGAGGTAGAGTGAA
1 ACTGAAGGTGGAGGTAGAGTGAA
108478430 ACT
1 ACT
108478433 CATCCTGCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.31, C:0.06, G:0.45, T:0.18
Consensus pattern (23 bp):
ACTGAAGGTGGAGGTAGAGTGAA
Found at i:108479852 original size:28 final size:26
Alignment explanation
Indices: 108479796--108479864 Score: 77
Period size: 28 Copynumber: 2.6 Consensus size: 26
108479786 GAGGGGTTAT
* *
108479796 TTTTTATTTTAATATTAATATAATTAA
1 TTTTTA-TTTAATATTAATAAAATAAA
108479823 TTTTTATTTAATATTAACATAAAATAAA
1 TTTTTATTTAATATT-A-ATAAAATAAA
*
108479851 TTTTTAATT-ATATT
1 TTTTTATTTAATATT
108479865 TTAACGGGTG
Statistics
Matches: 37, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
26 9 0.24
27 12 0.32
28 16 0.43
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (26 bp):
TTTTTATTTAATATTAATAAAATAAA
Found at i:108480738 original size:51 final size:51
Alignment explanation
Indices: 108480662--108480818 Score: 280
Period size: 51 Copynumber: 3.1 Consensus size: 51
108480652 CCATGGTGCA
*
108480662 TCTCTTTTGCCTCAATC-GCACAATCCATACTCTTTGACTTCTTCTTCTTCT
1 TCTCTTTTGCCTCAATCAG-ACAATCCATACTCTTTGGCTTCTTCTTCTTCT
108480713 TCTCTTTTGCCTCAATCAGACAATCCATACTCTTTGGCTTCTTCTTCTTCT
1 TCTCTTTTGCCTCAATCAGACAATCCATACTCTTTGGCTTCTTCTTCTTCT
*
108480764 TCTCTTTTGCCTCAATCAGACAATCCATACTCTTTGGTTTCTTCTTCTTCT
1 TCTCTTTTGCCTCAATCAGACAATCCATACTCTTTGGCTTCTTCTTCTTCT
108480815 TCTC
1 TCTC
108480819 GTCAAATGAA
Statistics
Matches: 103, Mismatches: 2, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
51 102 0.99
52 1 0.01
ACGTcount: A:0.15, C:0.32, G:0.07, T:0.46
Consensus pattern (51 bp):
TCTCTTTTGCCTCAATCAGACAATCCATACTCTTTGGCTTCTTCTTCTTCT
Found at i:108482474 original size:30 final size:30
Alignment explanation
Indices: 108482428--108482516 Score: 121
Period size: 27 Copynumber: 3.0 Consensus size: 30
108482418 TTTTATTATG
*
108482428 CCAATATATCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
108482459 CCAATATTTGATACCCATATCTTTGAC-TT
1 CCAATATTTGATACCCATATCTTTGACTTT
* *
108482488 --ATTATTTGATACCCATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
108482516 C
1 C
108482517 TATAAATATG
Statistics
Matches: 53, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
27 23 0.43
28 2 0.04
29 2 0.04
30 19 0.36
31 7 0.13
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:108484707 original size:72 final size:74
Alignment explanation
Indices: 108484588--108484768 Score: 224
Period size: 72 Copynumber: 2.5 Consensus size: 74
108484578 TCCCAGAAAT
* * *
108484588 TCTACGAAGACCCGAAAAACCTAAAGAGCCTGAAAAGCGCCAGCCATGTTCCTCGAT-ATACTAT
1 TCTACCAAGACCCGAAAAACCTAAAGAGCCTGAAAAGCCCCAGCCATGTTCATCG-TCATACTAT
*
108484652 TT-CTC-CCC
65 TTCCCCACCC
* ** *
108484660 TCTACCGAGACCCGAAAAACCTAAAGAGCCTGAAAAGCCCCTTCCATGTTCATCGTCATCCTATT
1 TCTACCAAGACCCGAAAAACCTAAAGAGCCTGAAAAGCCCCAGCCATGTTCATCGTCATACTATT
108484725 TCCCCCACCC
66 T-CCCCACCC
* * *
108484735 TTTACCAAGACCCAAAAAACCTAAAGCGCCTGAA
1 TCTACCAAGACCCGAAAAACCTAAAGAGCCTGAA
108484769 GCGAAAAAAG
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
71 1 0.01
72 57 0.61
74 2 0.02
75 33 0.35
ACGTcount: A:0.33, C:0.34, G:0.13, T:0.20
Consensus pattern (74 bp):
TCTACCAAGACCCGAAAAACCTAAAGAGCCTGAAAAGCCCCAGCCATGTTCATCGTCATACTATT
TCCCCACCC
Found at i:108484780 original size:18 final size:18
Alignment explanation
Indices: 108484757--108484795 Score: 69
Period size: 18 Copynumber: 2.2 Consensus size: 18
108484747 CAAAAAACCT
108484757 AAAGCGCCTGAAGCGAAA
1 AAAGCGCCTGAAGCGAAA
*
108484775 AAAGCGCCTGAAGTGAAA
1 AAAGCGCCTGAAGCGAAA
108484793 AAA
1 AAA
108484796 AAAAAGCTCC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.49, C:0.18, G:0.26, T:0.08
Consensus pattern (18 bp):
AAAGCGCCTGAAGCGAAA
Found at i:108484913 original size:16 final size:16
Alignment explanation
Indices: 108484892--108484960 Score: 120
Period size: 16 Copynumber: 4.2 Consensus size: 16
108484882 TTTGGTTCGT
*
108484892 TGTATTGGATTAGAAG
1 TGTATTGGATTAGAGG
108484908 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
108484924 TGTATTGGGATTAGAGG
1 TGTATT-GGATTAGAGG
108484941 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
108484957 TGTA
1 TGTA
108484961 ATAGCTAATC
Statistics
Matches: 51, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
16 35 0.69
17 16 0.31
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:108484938 original size:33 final size:32
Alignment explanation
Indices: 108484892--108484960 Score: 120
Period size: 33 Copynumber: 2.1 Consensus size: 32
108484882 TTTGGTTCGT
108484892 TGTATTGGATTAGAAGTGTATTGGATTAGAGG
1 TGTATTGGATTAGAAGTGTATTGGATTAGAGG
*
108484924 TGTATTGGGATTAGAGGTGTATTGGATTAGAGG
1 TGTATT-GGATTAGAAGTGTATTGGATTAGAGG
108484957 TGTA
1 TGTA
108484961 ATAGCTAATC
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
32 6 0.17
33 29 0.83
ACGTcount: A:0.26, C:0.00, G:0.36, T:0.38
Consensus pattern (32 bp):
TGTATTGGATTAGAAGTGTATTGGATTAGAGG
Found at i:108485025 original size:44 final size:45
Alignment explanation
Indices: 108484941--108485031 Score: 121
Period size: 45 Copynumber: 2.0 Consensus size: 45
108484931 GGATTAGAGG
* * *
108484941 TGTATTGGATTAGAGGTGTAATAGCTAATCCACTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
***
108484986 TGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGTTGAA
1 TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
108485030 TG
1 TG
108485032 GAATAGAGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
44 19 0.47
45 21 0.52
ACGTcount: A:0.27, C:0.07, G:0.29, T:0.37
Consensus pattern (45 bp):
TGTAATGGAATAGAGGCGTAATAGCTAATCCACTGTTTGGTTGAA
Found at i:108485213 original size:16 final size:16
Alignment explanation
Indices: 108485176--108485230 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 16
108485166 TTAATCATAT
*
108485176 TTAAACATA-ATTATAA
1 TTAAA-ATATATTTTAA
108485192 TT-AAATATATTTTAA
1 TTAAAATATATTTTAA
108485207 TTAAAATATATAATTTAA
1 TTAAAATATAT--TTTAA
108485225 -TAAAAT
1 TTAAAAT
108485231 TCTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
14 3 0.09
15 10 0.29
16 10 0.29
17 6 0.18
18 5 0.15
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.44
Consensus pattern (16 bp):
TTAAAATATATTTTAA
Found at i:108485223 original size:18 final size:18
Alignment explanation
Indices: 108485182--108485230 Score: 61
Period size: 16 Copynumber: 2.9 Consensus size: 18
108485172 ATATTTAAAC
108485182 ATAATTATAATT-AAATAT
1 ATAATT-TAATTAAAATAT
108485200 AT--TTTAATTAAAATAT
1 ATAATTTAATTAAAATAT
108485216 ATAATTTAA-TAAAAT
1 ATAATTTAATTAAAAT
108485231 TCTTATAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 7
0.80 0.00 0.20
Matches are distributed among these distances:
15 5 0.18
16 10 0.36
17 6 0.21
18 7 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (18 bp):
ATAATTTAATTAAAATAT
Found at i:108485373 original size:18 final size:17
Alignment explanation
Indices: 108485352--108485386 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
108485342 TTATTACTAA
*
108485352 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
108485370 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
108485387 TTTTATAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:108485374 original size:156 final size:156
Alignment explanation
Indices: 108485090--108485410 Score: 588
Period size: 156 Copynumber: 2.1 Consensus size: 156
108485080 CCCTTAGGAT
*
108485090 AAAATTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTATTATCAA
1 AAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAA
*
108485155 TAATAAATATTTTAATCATATTTAAACATAATTATAATTAAATATATTTTAATTAAAATATATAA
66 TAATAAATATTTTAATCATATTTAAACATAATTATAACTAAATATATTTTAATTAAAATATATAA
108485220 TTTAATAAAATTCTTATAATTAGCAG
131 TTTAATAAAATTCTTATAATTAGCAG
*
108485246 AAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAG
1 AAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAA
*
108485311 TAATAAATATTTTAATCATATTTAAACATAATTATTACTAAATATATTTTAATTAAAATATATAA
66 TAATAAATATTTTAATCATATTTAAACATAATTATAACTAAATATATTTTAATTAAAATATATAA
*
108485376 TTTAATAAAATTTTTATAATTAGCAG
131 TTTAATAAAATTCTTATAATTAGCAG
*
108485402 AAATTTGTT
1 AAAATTGTT
108485411 GTTGTTATTT
Statistics
Matches: 159, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
156 159 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (156 bp):
AAAATTGTTTTGGTAAATGATTATTGTTAATGTTATTTAAATTTTAATAAGATTATTATTATCAA
TAATAAATATTTTAATCATATTTAAACATAATTATAACTAAATATATTTTAATTAAAATATATAA
TTTAATAAAATTCTTATAATTAGCAG
Found at i:108485418 original size:137 final size:138
Alignment explanation
Indices: 108485276--108485534 Score: 412
Period size: 137 Copynumber: 1.9 Consensus size: 138
108485266 TTATTGTTAA
* * *
108485276 TGTTATTTAAATTTTAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATA
1 TGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATA
* * *
108485341 ATTATTACTAAATATATTTTAATTAAAATATATAATTTAATAAAATT-TTTATAATTAGCAGAAA
66 ATTATTACTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAA
108485405 TTTGTTGT
131 TTTGTTGT
108485413 TGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATA
1 TGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATA
* ****
108485478 ATTATTATTAAATACATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT
66 ATTATTACTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATT
108485535 CATATTCTTA
Statistics
Matches: 110, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
137 102 0.93
138 8 0.07
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (138 bp):
TGTTATTTAAATTTTAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATA
ATTATTACTAAATACATTATAATTAAAATATATAATTTAATAAAATTCTTAATAATTAGCAGAAA
TTTGTTGT
Found at i:108485568 original size:137 final size:136
Alignment explanation
Indices: 108485290--108485568 Score: 321
Period size: 137 Copynumber: 2.0 Consensus size: 136
108485280 ATTTAAATTT
* * *
108485290 TAATAAGATTATTATTATCAGTAATAAATATTTTAATCATATTTAAACATAATTATTACTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTACTAAATA
* * * * * *
108485355 TATTTTAATTAAAATATATAATTTAATAAAATTTTTATAATTAGCAGAAATTTGTTGTTGTTATT
66 CATTATAATTAAAATATATAATTTAATAAAATTTTAATAATTA-CAGAAATTTATTGATGTTACT
* **
108485420 TAAATTT
130 CAAATCA
*
108485427 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATA
1 TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTACTAAATA
**** * *
108485492 CATTATAATTTTGGTATATAATTTAATAAAATTCTTAATAATT-CA-TATTCTTATATGAAT-TT
66 CATTATAATTAAAATATATAATTTAATAAAATT-TTAATAATTACAGAAAT-TTAT-TG-ATGTT
108485554 ACTCAAATCA
127 ACTCAAATCA
108485564 TAATA
1 TAATA
108485569 TATGATAAAT
Statistics
Matches: 119, Mismatches: 19, Indels: 8
0.82 0.13 0.05
Matches are distributed among these distances:
135 2 0.02
136 5 0.04
137 103 0.87
138 9 0.08
ACGTcount: A:0.45, C:0.05, G:0.04, T:0.46
Consensus pattern (136 bp):
TAATAAGATTATTAATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTACTAAATA
CATTATAATTAAAATATATAATTTAATAAAATTTTAATAATTACAGAAATTTATTGATGTTACTC
AAATCA
Found at i:108488180 original size:21 final size:21
Alignment explanation
Indices: 108488137--108488192 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
108488127 AAGCAGATGG
*
108488137 AGCCACTGCAAATAAATTATAT
1 AGCCACTGCAAA-CAATTATAT
*
108488159 AGCCACTGCAAACAATTGTAT
1 AGCCACTGCAAACAATTATAT
108488180 AGCCACTGCAAAC
1 AGCCACTGCAAAC
108488193 GGGGGAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.21
Consensus pattern (21 bp):
AGCCACTGCAAACAATTATAT
Found at i:108489305 original size:33 final size:33
Alignment explanation
Indices: 108489263--108489396 Score: 163
Period size: 33 Copynumber: 4.2 Consensus size: 33
108489253 AAAAATGGCA
*
108489263 AGAGGAACAAAACATGGTACAGAAACAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
**
108489296 AGAGAAACAAAA-A----ACCA-CTACAGAAAAT
1 AGAGAAACAAAACATGGTA-CAGAAACAGAAAAT
* *
108489324 AGAGGAACAAAACATGGTACAGAAACAAAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
*
108489357 AGAGAAACAAAACATGGTACAGAAATAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
108489390 AGAGAAA
1 AGAGAAA
108489397 AATAAAGTAG
Statistics
Matches: 84, Mismatches: 10, Indels: 14
0.78 0.09 0.13
Matches are distributed among these distances:
28 21 0.25
29 3 0.04
32 3 0.04
33 57 0.68
ACGTcount: A:0.61, C:0.12, G:0.18, T:0.09
Consensus pattern (33 bp):
AGAGAAACAAAACATGGTACAGAAACAGAAAAT
Found at i:108489309 original size:15 final size:15
Alignment explanation
Indices: 108489283--108489368 Score: 50
Period size: 15 Copynumber: 5.7 Consensus size: 15
108489273 AACATGGTAC
*
108489283 AGAAACAGAAAATAG
1 AGAAACAAAAAATAG
**
108489298 AGAAACAAAAAA-CC
1 AGAAACAAAAAATAG
** *
108489312 A-CTACAGAAAATAG
1 AGAAACAAAAAATAG
* * *
108489326 AGGAACAAAACATGG
1 AGAAACAAAAAATAG
108489341 TACAGAAACAAAAAATAG
1 -A--GAAACAAAAAATAG
108489359 AGAAACAAAA
1 AGAAACAAAA
108489369 CATGGTACAG
Statistics
Matches: 50, Mismatches: 16, Indels: 10
0.66 0.21 0.13
Matches are distributed among these distances:
13 7 0.14
14 2 0.04
15 28 0.56
16 1 0.02
17 1 0.02
18 11 0.22
ACGTcount: A:0.65, C:0.13, G:0.15, T:0.07
Consensus pattern (15 bp):
AGAAACAAAAAATAG
Found at i:108489352 original size:18 final size:18
Alignment explanation
Indices: 108489329--108489381 Score: 67
Period size: 18 Copynumber: 3.1 Consensus size: 18
108489319 AAAATAGAGG
108489329 AACAAAACATGGTACAGA
1 AACAAAACATGGTACAGA
* *
108489347 AACAAAA-A--ATAGAGA
1 AACAAAACATGGTACAGA
108489362 AACAAAACATGGTACAGA
1 AACAAAACATGGTACAGA
108489380 AA
1 AA
108489382 TAGAAAATAG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
15 12 0.43
16 1 0.04
17 1 0.04
18 14 0.50
ACGTcount: A:0.62, C:0.13, G:0.15, T:0.09
Consensus pattern (18 bp):
AACAAAACATGGTACAGA
Found at i:108490934 original size:2 final size:2
Alignment explanation
Indices: 108490927--108490951 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
108490917 ATTCCCTATT
108490927 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
108490952 GTTAATTTGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:108498514 original size:46 final size:46
Alignment explanation
Indices: 108498454--108498681 Score: 339
Period size: 46 Copynumber: 5.0 Consensus size: 46
108498444 TTTGACATGA
* * * * ** * * *
108498454 TGCCATAGTGTCTTTCAACTATGGTCTTACTCATTTTTTGTCATGT
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
* *
108498500 TGCCATGGTATCTTTCAACCATGGTTTTACACATTTCATATTAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
108498546 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
108498592 TGCCATGATATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
*
108498638 TGCCATGGTATCTTTCAAACATGGTCTTACACATTTCATATCAG
1 TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAG
108498682 AGAGCACACT
Statistics
Matches: 166, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 166 1.00
ACGTcount: A:0.24, C:0.23, G:0.14, T:0.39
Consensus pattern (46 bp):
TGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCAGGC
Done.