Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D07
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: 56457815
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1765025 characters in sequence are not A, C, G, or T
File 166 of 189
Found at i:49638004 original size:21 final size:21
Alignment explanation
Indices: 49637978--49638031 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
49637968 TGATAGTCGA
49637978 GTCGCAACACAAGCTT-TCGTG
1 GTCGCAACACAAGCTTCT-GTG
* *
49637999 GTCGCAAAATAAGCTTCTGTG
1 GTCGCAACACAAGCTTCTGTG
49638020 GTCGCAACACAA
1 GTCGCAACACAA
49638032 CCAAGCCAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.30, C:0.26, G:0.22, T:0.22
Consensus pattern (21 bp):
GTCGCAACACAAGCTTCTGTG
Found at i:49640914 original size:53 final size:51
Alignment explanation
Indices: 49640857--49640973 Score: 134
Period size: 47 Copynumber: 2.3 Consensus size: 51
49640847 ATAGCAAGGG
* *
49640857 TATGGCATCAGTGTGATGTGATTATGAGCTTCCATATAAGACCATATCTGGGA
1 TATGGCATCA-TGTGATGT-AATATGAGCTACCATATAAGACCATATCTGGGA
* * *
49640910 TATGGCATC--G-G-TGTAATATGTGCTACTATGTAAGACCATATCTGGGA
1 TATGGCATCATGTGATGTAATATGAGCTACCATATAAGACCATATCTGGGA
49640957 TATGGCATCAATGTGAT
1 TATGGCATC-ATGTGAT
49640974 ATGTGATCCG
Statistics
Matches: 54, Mismatches: 5, Indels: 11
0.77 0.07 0.16
Matches are distributed among these distances:
47 37 0.69
48 3 0.06
49 1 0.02
50 2 0.04
51 1 0.02
52 1 0.02
53 9 0.17
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (51 bp):
TATGGCATCATGTGATGTAATATGAGCTACCATATAAGACCATATCTGGGA
Found at i:49647759 original size:17 final size:17
Alignment explanation
Indices: 49647737--49647785 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 17
49647727 ATGAATGTTA
49647737 TAAAATTTTGATTATTG
1 TAAAATTTTGATTATTG
** * *
49647754 TAAAATAATGCTTA-AG
1 TAAAATTTTGATTATTG
49647770 TAAAATTTTGATTATT
1 TAAAATTTTGATTATT
49647786 ATAATGCTTA
Statistics
Matches: 23, Mismatches: 8, Indels: 2
0.70 0.24 0.06
Matches are distributed among these distances:
16 12 0.52
17 11 0.48
ACGTcount: A:0.41, C:0.02, G:0.10, T:0.47
Consensus pattern (17 bp):
TAAAATTTTGATTATTG
Found at i:49647973 original size:53 final size:53
Alignment explanation
Indices: 49647893--49648000 Score: 148
Period size: 53 Copynumber: 2.0 Consensus size: 53
49647883 CCATGACAAC
* * *
49647893 ATGTGTTATGTAATTTTCGTATAAGACCATAGCTGGGCTAT-GACATCGGTGTG
1 ATGTGTTATGTAATTTCCGTATAAGACCATAACTGGGATATAG-CATCGGTGTG
*
49647946 ATGTGATTATG-AGTTTCCGTATAAGACCATAACTGGGATATAGCATCGGTGTG
1 ATGTG-TTATGTAATTTCCGTATAAGACCATAACTGGGATATAGCATCGGTGTG
49647999 AT
1 AT
49648001 ATGTGCTACT
Statistics
Matches: 49, Mismatches: 4, Indels: 4
0.86 0.07 0.07
Matches are distributed among these distances:
53 43 0.88
54 6 0.12
ACGTcount: A:0.27, C:0.13, G:0.26, T:0.34
Consensus pattern (53 bp):
ATGTGTTATGTAATTTCCGTATAAGACCATAACTGGGATATAGCATCGGTGTG
Found at i:49648057 original size:46 final size:47
Alignment explanation
Indices: 49647967--49648098 Score: 203
Period size: 46 Copynumber: 2.8 Consensus size: 47
49647957 AGTTTCCGTA
* *
49647967 TAAGACCATAACTGGGATATAGCATCGGTGTGATATGTGCTACTATG
1 TAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACTATG
*
49648014 TAAGACCATATCTGGGATATGGC-TTGGTGTGATATGTGCTACTATG
1 TAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACTATG
* * *
49648060 TAAGACCATATCTAGGATATGACATCAGTGTGATATGTG
1 TAAGACCATATCTGGGATATGGCATCGGTGTGATATGTG
49648099 ATATGTATAA
Statistics
Matches: 77, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
46 43 0.56
47 34 0.44
ACGTcount: A:0.29, C:0.14, G:0.26, T:0.32
Consensus pattern (47 bp):
TAAGACCATATCTGGGATATGGCATCGGTGTGATATGTGCTACTATG
Found at i:49648110 original size:46 final size:47
Alignment explanation
Indices: 49647965--49648114 Score: 189
Period size: 46 Copynumber: 3.2 Consensus size: 47
49647955 TGAGTTTCCG
*
49647965 TATAAGACCATAACTGGGATAT-AGCATCGGTGTGATATGTGCTACTA
1 TATAAGACCATATCTGGGATATGA-CATCGGTGTGATATGTGCTACTA
* * *
49648012 TGTAAGACCATATCTGGGATATGGC-TTGGTGTGATATGTGCTACTA
1 TATAAGACCATATCTGGGATATGACATCGGTGTGATATGTGCTACTA
* * * * *
49648058 TGTAAGACCATATCTAGGATATGACATCAGTGTGATATGTGATA-TG
1 TATAAGACCATATCTGGGATATGACATCGGTGTGATATGTGCTACTA
49648104 TATAAGACCAT
1 TATAAGACCAT
49648115 GGTTAGGCTA
Statistics
Matches: 90, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
46 54 0.60
47 36 0.40
ACGTcount: A:0.31, C:0.13, G:0.24, T:0.32
Consensus pattern (47 bp):
TATAAGACCATATCTGGGATATGACATCGGTGTGATATGTGCTACTA
Found at i:49648136 original size:93 final size:94
Alignment explanation
Indices: 49647967--49648146 Score: 215
Period size: 93 Copynumber: 1.9 Consensus size: 94
49647957 AGTTTCCGTA
* * * * *
49647967 TAAGACCATAACTGGGATATAGCATCGGTGTGATATGTGCTACTATGTAAGACCATATCTGGGAT
1 TAAGACCATAACTAGGATATAGCATCAGTGTGATATGTGATACTATATAAGACCATATCTAGGAT
49648032 ATGGCTTGGTGT-GATATGTGCTACTATG
66 ATGGCTTGGTGTCGATATGTGCTACTATG
* * *
49648060 TAAGACCATATCTAGGATAT-GACATCAGTGTGATATGTGATA-TGTATAAGACCATGGT-TAGG
1 TAAGACCATAACTAGGATATAG-CATCAGTGTGATATGTGATACTATATAAGACCAT-ATCTAGG
*
49648122 CTATGGCTTCGGTGTGCGATATGTG
64 ATATGGCTT-GGTGT-CGATATGTG
49648147 ACAATGTGCA
Statistics
Matches: 73, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
92 23 0.32
93 42 0.58
95 8 0.11
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.32
Consensus pattern (94 bp):
TAAGACCATAACTAGGATATAGCATCAGTGTGATATGTGATACTATATAAGACCATATCTAGGAT
ATGGCTTGGTGTCGATATGTGCTACTATG
Found at i:49648137 original size:46 final size:47
Alignment explanation
Indices: 49647967--49648147 Score: 188
Period size: 46 Copynumber: 3.9 Consensus size: 47
49647957 AGTTTCCGTA
* * * * *
49647967 TAAGACCATAACTGGGATATAGCATCGGTGTGATATGTGCTACTATG
1 TAAGACCATATCTAGGATATGGCTTCGGTGTGATATGTGATACTATG
* *
49648014 TAAGACCATATCTGGGATATGGCTT-GGTGTGATATGTGCTACTATG
1 TAAGACCATATCTAGGATATGGCTTCGGTGTGATATGTGATACTATG
* * * * *
49648060 TAAGACCATATCTAGGATATGACATCAGTGTGATATGTGATA-TGTA
1 TAAGACCATATCTAGGATATGGCTTCGGTGTGATATGTGATACTATG
* *
49648106 TAAGACCATGGT-TAGGCTATGGCTTCGGTGTGCGATATGTGA
1 TAAGACCAT-ATCTAGGATATGGCTTCGGTGT--GATATGTGA
49648148 CAATGTGCAA
Statistics
Matches: 115, Mismatches: 15, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
46 69 0.60
47 37 0.32
48 9 0.08
ACGTcount: A:0.28, C:0.13, G:0.27, T:0.32
Consensus pattern (47 bp):
TAAGACCATATCTAGGATATGGCTTCGGTGTGATATGTGATACTATG
Found at i:49667142 original size:22 final size:22
Alignment explanation
Indices: 49667117--49667159 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
49667107 TAAATATGTT
49667117 AAAATCATTACTTAAAAATAAAA
1 AAAAT-ATTACTTAAAAATAAAA
**
49667140 AAAATATTTTTTAAAAATAA
1 AAAATATTACTTAAAAATAA
49667160 TACAATTGTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.63, C:0.05, G:0.00, T:0.33
Consensus pattern (22 bp):
AAAATATTACTTAAAAATAAAA
Found at i:49669110 original size:40 final size:41
Alignment explanation
Indices: 49669044--49669169 Score: 182
Period size: 41 Copynumber: 3.1 Consensus size: 41
49669034 GCATTTATGA
* * *
49669044 AAAAACACCGCTATTGCCATACCTTTTGTGGCGTTTATGGG
1 AAAAACGCCGCTATTGCCTTACCTTTTGCGGCGTTTATGGG
*
49669085 AAAAACGCCGCTATTGCCTTACTTTTTGCGGCGTTTATGGG
1 AAAAACGCCGCTATTGCCTTACCTTTTGCGGCGTTTATGGG
* * *
49669126 -AAAACGCCGCTATTGCCTAACCTTTTGCAGCGTTTATAGG
1 AAAAACGCCGCTATTGCCTTACCTTTTGCGGCGTTTATGGG
49669166 AAAA
1 AAAA
49669170 CATCACTACA
Statistics
Matches: 76, Mismatches: 8, Indels: 2
0.88 0.09 0.02
Matches are distributed among these distances:
40 36 0.47
41 40 0.53
ACGTcount: A:0.25, C:0.22, G:0.21, T:0.31
Consensus pattern (41 bp):
AAAAACGCCGCTATTGCCTTACCTTTTGCGGCGTTTATGGG
Found at i:49669170 original size:40 final size:40
Alignment explanation
Indices: 49669045--49669170 Score: 173
Period size: 40 Copynumber: 3.1 Consensus size: 40
49669035 CATTTATGAA
* *
49669045 AAAACACCGCTATTGCC-ATACCTTTTGTGGCGTTTATGGG
1 AAAACGCCGCTATTGCCTA-ACCTTTTGCGGCGTTTATGGG
* *
49669085 AAAAACGCCGCTATTGCCTTACTTTTTGCGGCGTTTATGGG
1 -AAAACGCCGCTATTGCCTAACCTTTTGCGGCGTTTATGGG
* *
49669126 AAAACGCCGCTATTGCCTAACCTTTTGCAGCGTTTATAGG
1 AAAACGCCGCTATTGCCTAACCTTTTGCGGCGTTTATGGG
49669166 AAAAC
1 AAAAC
49669171 ATCACTACAC
Statistics
Matches: 76, Mismatches: 8, Indels: 3
0.87 0.09 0.03
Matches are distributed among these distances:
40 41 0.54
41 35 0.46
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (40 bp):
AAAACGCCGCTATTGCCTAACCTTTTGCGGCGTTTATGGG
Found at i:49669268 original size:40 final size:39
Alignment explanation
Indices: 49669224--49669361 Score: 131
Period size: 40 Copynumber: 3.5 Consensus size: 39
49669214 TGGCGTTTGA
49669224 ATAAAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTAT
1 ATAAAAAACGCCGCTAAAAATCAATCATTAGCGGCGCT-T
* *
49669264 ATAAAAAACGCCGCTAAAGATCGAGT-ATTAGCGGCGCTT
1 ATAAAAAACGCCGCTAAAAATC-AATCATTAGCGGCGCTT
* * * * *
49669303 TTCTAAAAACGCCACTAAAAAT-GAGCATTAGCGGCG-TT
1 AT-AAAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTT
*
49669341 TTACAAAAAGCGCCGC-AAAAA
1 ATA-AAAAA-CGCCGCTAAAAA
49669362 CCTAAACCTA
Statistics
Matches: 82, Mismatches: 11, Indels: 12
0.78 0.10 0.11
Matches are distributed among these distances:
38 14 0.17
39 17 0.21
40 49 0.60
41 2 0.02
ACGTcount: A:0.41, C:0.22, G:0.18, T:0.20
Consensus pattern (39 bp):
ATAAAAAACGCCGCTAAAAATCAATCATTAGCGGCGCTT
Found at i:49669458 original size:41 final size:41
Alignment explanation
Indices: 49669401--49669677 Score: 387
Period size: 41 Copynumber: 6.8 Consensus size: 41
49669391 TTTTTAGGGA
*
49669401 TTTAGCAGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
49669442 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
* * *
49669483 TTTAGCGGCGTTTTTGATGAAGCGCCGCTAATGTTCTAGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
* * *
49669524 TTTAGCGGCGTTTTTGATGAAGCGCCACTAAAT-CTCTAGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCT-AATGCTCTAGTC
* * * *
49669565 TTTAGCGGCGTTTTTGATGAAGCGCCACTAAAT-CTCTGGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCT-AATGCTCTAGTC
* *
49669606 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAAAGCTCTGGTC
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
* *
49669647 TTTAGGGGCGTTTTTTAATAAGCGCCGCTAA
1 TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAA
49669678 AAGCATTTTA
Statistics
Matches: 221, Mismatches: 13, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
40 2 0.01
41 216 0.98
42 3 0.01
ACGTcount: A:0.20, C:0.21, G:0.25, T:0.34
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTTAAGAAGCGCCGCTAATGCTCTAGTC
Found at i:49670269 original size:15 final size:15
Alignment explanation
Indices: 49670249--49670280 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
49670239 TATTTTAAGG
49670249 TTTAGGGAGTATGGA
1 TTTAGGGAGTATGGA
*
49670264 TTTAGGGATTATGGA
1 TTTAGGGAGTATGGA
49670279 TT
1 TT
49670281 AGCGATTATG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.25, C:0.00, G:0.34, T:0.41
Consensus pattern (15 bp):
TTTAGGGAGTATGGA
Found at i:49670287 original size:14 final size:15
Alignment explanation
Indices: 49670258--49670295 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
49670248 GTTTAGGGAG
*
49670258 TATGGATTTAGGGAT
1 TATGGATTTAGCGAT
49670273 TATGGA-TTAGCGAT
1 TATGGATTTAGCGAT
49670287 TATGG-TTTA
1 TATGGATTTA
49670296 ATGGTTGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.26, C:0.03, G:0.29, T:0.42
Consensus pattern (15 bp):
TATGGATTTAGCGAT
Found at i:49670966 original size:15 final size:15
Alignment explanation
Indices: 49670935--49670968 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
49670925 GTTTTTTATT
**
49670935 TTTATAAAAAATTAA
1 TTTATAAAAAAAAAA
49670950 TTTATAAAAAAAAAA
1 TTTATAAAAAAAAAA
49670965 TTTA
1 TTTA
49670969 GCATAACAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (15 bp):
TTTATAAAAAAAAAA
Found at i:49671035 original size:21 final size:21
Alignment explanation
Indices: 49671011--49671078 Score: 66
Period size: 21 Copynumber: 3.2 Consensus size: 21
49671001 TAAATAAGGT
49671011 TTAGGGGTTAGTAGTTAGGGG
1 TTAGGGGTTAGTAGTTAGGGG
*
49671032 TTAGGGGTTAG-ATGTTAGAGG
1 TTAGGGGTTAGTA-GTTAGGGG
* * * *
49671053 TTAAGAGTTAGTGATTTAGGGT
1 TTAGGGGTTAGT-AGTTAGGGG
49671075 TTAG
1 TTAG
49671079 ATATTCGGGA
Statistics
Matches: 37, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
20 1 0.03
21 27 0.73
22 8 0.22
23 1 0.03
ACGTcount: A:0.24, C:0.00, G:0.40, T:0.37
Consensus pattern (21 bp):
TTAGGGGTTAGTAGTTAGGGG
Found at i:49671389 original size:4 final size:4
Alignment explanation
Indices: 49671380--49671408 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
49671370 AATTATATTG
49671380 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
1 ATAA ATAA ATAA ATAA ATAA ATAA ATAA A
49671409 AGCAAAATAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (4 bp):
ATAA
Found at i:49674574 original size:15 final size:17
Alignment explanation
Indices: 49674540--49674577 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
49674530 TAGTTTATTT
49674540 ATTTTTATTATTTTAGA
1 ATTTTTATTATTTTAGA
*
49674557 ATTTTTA-TA-TTTATA
1 ATTTTTATTATTTTAGA
49674572 ATTTTT
1 ATTTTT
49674578 TTTCCTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 11 0.55
16 2 0.10
17 7 0.35
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTTATTATTTTAGA
Found at i:49675294 original size:27 final size:26
Alignment explanation
Indices: 49675264--49675320 Score: 62
Period size: 27 Copynumber: 2.2 Consensus size: 26
49675254 AATTTCGAAG
*
49675264 TTTACAATTTT-TAATTTTTATTAATT
1 TTTA-AATTTTCTAACTTTTATTAATT
* *
49675290 ATTTATATTTTCTCACTTTTATTAATT
1 -TTTAAATTTTCTAACTTTTATTAATT
49675317 TTTA
1 TTTA
49675321 TTATTATTTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
26 9 0.35
27 17 0.65
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (26 bp):
TTTAAATTTTCTAACTTTTATTAATT
Found at i:49675611 original size:43 final size:42
Alignment explanation
Indices: 49675503--49675611 Score: 94
Period size: 43 Copynumber: 2.5 Consensus size: 42
49675493 TGCATATGTT
* * * * *
49675503 TTTAGCGGCGTTTTTGCGAGAAGCGTCGCTAAAGGTTTGTTC
1 TTTAGCGGCGTTTGTGCGAAAAGCGTCGCTAAAGATATGGTC
* * **
49675545 TATAGTC-GCGTTTGAGATAAAAAGCGTCGCTAAAGATCATGGTC
1 TTTAG-CGGCGTTTGTG-CGAAAAGCGTCGCTAAAGAT-ATGGTC
*
49675589 TTTAGCGGCGTTTGTGGGAAAAG
1 TTTAGCGGCGTTTGTGCGAAAAG
49675612 TGCCGCAAAA
Statistics
Matches: 50, Mismatches: 13, Indels: 7
0.71 0.19 0.10
Matches are distributed among these distances:
42 11 0.22
43 23 0.46
44 16 0.32
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (42 bp):
TTTAGCGGCGTTTGTGCGAAAAGCGTCGCTAAAGATATGGTC
Found at i:49675737 original size:22 final size:22
Alignment explanation
Indices: 49675694--49675737 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
49675684 TAGTAGCGCT
**
49675694 AAAAAGCGCCGCTAAAGGCCTA
1 AAAAAGCGCCGCTAAAAACCTA
49675716 AAAAAGCGCCGCTAAAAACCTA
1 AAAAAGCGCCGCTAAAAACCTA
49675738 TTTTGGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.45, C:0.27, G:0.18, T:0.09
Consensus pattern (22 bp):
AAAAAGCGCCGCTAAAAACCTA
Found at i:49676012 original size:15 final size:15
Alignment explanation
Indices: 49675992--49676029 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
49675982 TCATTAAGAA
*
49675992 AATATTTTATTTTTT
1 AATATTTTATCTTTT
49676007 AATATTTTATCTTTT
1 AATATTTTATCTTTT
*
49676022 GATATTTT
1 AATATTTT
49676030 TAAATATCAC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (15 bp):
AATATTTTATCTTTT
Found at i:49679070 original size:8 final size:8
Alignment explanation
Indices: 49679057--49679124 Score: 50
Period size: 8 Copynumber: 8.8 Consensus size: 8
49679047 ACCACATTTT
49679057 AATAAACA
1 AATAAACA
*
49679065 AATAAACG
1 AATAAACA
*
49679073 AA-ACA-A
1 AATAAACA
***
49679079 AATAATTG
1 AATAAACA
49679087 AATAAACA
1 AATAAACA
*
49679095 AACAAACA
1 AATAAACA
*
49679103 AACAAACA
1 AATAAACA
*
49679111 AATAAACG
1 AATAAACA
49679119 AATAAA
1 AATAAA
49679125 TCGATTACAT
Statistics
Matches: 46, Mismatches: 12, Indels: 4
0.74 0.19 0.06
Matches are distributed among these distances:
6 2 0.04
7 3 0.07
8 41 0.89
ACGTcount: A:0.71, C:0.13, G:0.04, T:0.12
Consensus pattern (8 bp):
AATAAACA
Found at i:49679125 original size:12 final size:12
Alignment explanation
Indices: 49679087--49679117 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
49679077 AAAATAATTG
49679087 AATAAACAAACA
1 AATAAACAAACA
*
49679099 AACAAACAAACA
1 AATAAACAAACA
49679111 AATAAAC
1 AATAAAC
49679118 GAATAAATCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.74, C:0.19, G:0.00, T:0.06
Consensus pattern (12 bp):
AATAAACAAACA
Found at i:49680984 original size:40 final size:40
Alignment explanation
Indices: 49680929--49681079 Score: 205
Period size: 40 Copynumber: 3.7 Consensus size: 40
49680919 TATCTTCAAC
*
49680929 CTGCTCCACTACTGCTTAGGGAGATAAAACTTGAGGCGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGAT
* * *
49680969 ATGCTCCACTACTGCTTAGGGAGATAAGATTTGTGGTTCTG-T
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGG--C-GAT
* * *
49681011 CTGCTCCACTACTACTTAGGGAGATAAGACTTGATGTGAT
1 CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGAT
49681051 CTGCTCCACTACTGCTTAGGGAGATAAGA
1 CTGCTCCACTACTGCTTAGGGAGATAAGA
49681080 TTTATGGTTT
Statistics
Matches: 96, Mismatches: 11, Indels: 8
0.83 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 61 0.64
42 33 0.34
43 1 0.01
ACGTcount: A:0.26, C:0.21, G:0.25, T:0.29
Consensus pattern (40 bp):
CTGCTCCACTACTGCTTAGGGAGATAAGACTTGAGGCGAT
Found at i:49681023 original size:82 final size:82
Alignment explanation
Indices: 49680929--49681088 Score: 266
Period size: 82 Copynumber: 2.0 Consensus size: 82
49680919 TATCTTCAAC
*
49680929 CTGCTCCACTACTGCTTAGGGAGATAAAACTTGAGGCGATATGCTCCACTACTGCTTAGGGAGAT
1 CTGCTCCACTACTACTTAGGGAGATAAAACTTGAGGCGATATGCTCCACTACTGCTTAGGGAGAT
*
49680994 AAGATTTGTGGTTCTGT
66 AAGATTTATGGTTCTGT
* * * *
49681011 CTGCTCCACTACTACTTAGGGAGATAAGACTTGATGTGATCTGCTCCACTACTGCTTAGGGAGAT
1 CTGCTCCACTACTACTTAGGGAGATAAAACTTGAGGCGATATGCTCCACTACTGCTTAGGGAGAT
49681076 AAGATTTATGGTT
66 AAGATTTATGGTT
49681089 TCAATCCGCT
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
82 72 1.00
ACGTcount: A:0.25, C:0.19, G:0.24, T:0.31
Consensus pattern (82 bp):
CTGCTCCACTACTACTTAGGGAGATAAAACTTGAGGCGATATGCTCCACTACTGCTTAGGGAGAT
AAGATTTATGGTTCTGT
Found at i:49681269 original size:50 final size:50
Alignment explanation
Indices: 49681148--49681579 Score: 229
Period size: 50 Copynumber: 8.6 Consensus size: 50
49681138 TCTAATTAAC
* * ** * * ** *
49681148 TGCAATGTCGGGGAAGCAAGATTCGTTGTTGTAGCTTCAATCTGTTCCAC
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
* ** * * *
49681198 TACACCGCCAGGAAAGTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
** * * * * ** ** *
49681248 TGCAATATCAGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCAC
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
* * ** *
49681298 TGTACTGCCAGGGAAGTGAGATTTGCCGTTGTGGCTTCAATCTCTTTTAAAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAA--TCTTTTAAAT
** * * * * ** **
49681350 TGCAATATCAGGGAAGCAAGATTCGACGTCGTAGCTTTAATCTGCTCCAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
** * ** *
49681400 TATACTGCCAGGGAAGTGAGATTTGCCGTTGTGGCTTCAATCTCTTTTAAAT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAA--TCTTTTAAAT
* * * * ** ** *
49681452 TGCAATGCCGGGGGA-CAAGATTCGTCGTTGTAGCTTCAATCTGATCCAC
1 TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
* * * * *
49681501 TGC-ATCGCCTGGAAAGTAAGATTCGCCATTGCGGCTTCAATCTTTTAAAT
1 TGCAAT-GCCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
** *
49681551 TGCAATATCAGGGAAGCAAGATTCACCGT
1 TGCAATGCCAGGGAAGCAAGATTCGCCGT
49681580 CGTAGATTTA
Statistics
Matches: 261, Mismatches: 114, Indels: 14
0.67 0.29 0.04
Matches are distributed among these distances:
48 2 0.01
49 14 0.05
50 174 0.67
51 21 0.08
52 50 0.19
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (50 bp):
TGCAATGCCAGGGAAGCAAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
Found at i:49681326 original size:100 final size:100
Alignment explanation
Indices: 49681148--49681643 Score: 600
Period size: 100 Copynumber: 4.9 Consensus size: 100
49681138 TCTAATTAAC
* * ** * * * ** * *
49681148 TGCAATGTCGGGGAAGCAAGATTCGTTGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGGAAA
1 TGCAATATCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAA
* *
49681213 GTAAGATTCGCCGTTGCGGCTTCAATCTTTTAAAT
66 GTGAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
*
49681248 TGCAATATCAGGGAAGCAAGATTCGCCATCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAA
1 TGCAATATCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAA
*
49681313 GTGAGATTTGCCGTTGTGGCTTCAATCTCTTTTAAAT
66 GTGAGATTCGCCGTTGTGGCTTCAA--TCTTTTAAAT
* * *
49681350 TGCAATATCAGGGAAGCAAGATTCGACGTCGTAGCTTTAATCTGCTCCATTATACTGCCAGGGAA
1 TGCAATATCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAA
*
49681415 GTGAGATTTGCCGTTGTGGCTTCAATCTCTTTTAAAT
66 GTGAGATTCGCCGTTGTGGCTTCAA--TCTTTTAAAT
** * * * * * * * * *
49681452 TGCAATGCCGGGGGA-CAAGATTCGTCGTTGTAGCTTCAATCTGATCCACTGCA-TCGCCTGGAA
1 TGCAATATCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGTACT-GCCAGGGA
* * *
49681515 AGTAAGATTCGCCATTGCGGCTTCAATCTTTTAAAT
65 AGTGAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
* * *
49681551 TGCAATATCAGGGAAGCAAGATTCACCGTCGTAGATTTAATTTGCTCCACTGTACTGCCAGGGAA
1 TGCAATATCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAA
*
49681616 GTGAGATTCGCCGTTGTAGCTTCAATCT
66 GTGAGATTCGCCGTTGTGGCTTCAATCT
49681644 GCTCCATTGC
Statistics
Matches: 337, Mismatches: 54, Indels: 10
0.84 0.13 0.02
Matches are distributed among these distances:
99 21 0.06
100 137 0.41
101 60 0.18
102 119 0.35
ACGTcount: A:0.25, C:0.22, G:0.23, T:0.30
Consensus pattern (100 bp):
TGCAATATCAGGGAAGCAAGATTCGCCGTCGTAGCTTTAATCTGCTCCACTGTACTGCCAGGGAA
GTGAGATTCGCCGTTGTGGCTTCAATCTTTTAAAT
Found at i:49681616 original size:50 final size:50
Alignment explanation
Indices: 49681559--49681666 Score: 135
Period size: 50 Copynumber: 2.2 Consensus size: 50
49681549 ATTGCAATAT
* * *
49681559 CAGGGAAGCAAGATTCACCGTCGTAGATTTAATTTGCTCCACTGTACTGC
1 CAGGGAAGCAAGATTCACCGTCGTAGATTCAATCTGCTCCACTGCACTGC
** * * * *
49681609 CAGGGAAGTGAGATTCGCCGTTGTAGCTTCAATCTGCTCCATTGCACTGC
1 CAGGGAAGCAAGATTCACCGTCGTAGATTCAATCTGCTCCACTGCACTGC
49681659 CAGGGAAG
1 CAGGGAAG
49681667 GTAACTTCAT
Statistics
Matches: 49, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 49 1.00
ACGTcount: A:0.24, C:0.24, G:0.26, T:0.26
Consensus pattern (50 bp):
CAGGGAAGCAAGATTCACCGTCGTAGATTCAATCTGCTCCACTGCACTGC
Found at i:49681980 original size:24 final size:24
Alignment explanation
Indices: 49681947--49682004 Score: 80
Period size: 24 Copynumber: 2.4 Consensus size: 24
49681937 CGGACTGCCC
*
49681947 CCACTGTAATCTTCAAAGTTTAAT
1 CCACTGTAATCTTCAAAGTTCAAT
* * *
49681971 CCACTATAATCTTCAAGGTTCAGT
1 CCACTGTAATCTTCAAAGTTCAAT
49681995 CCACTGTAAT
1 CCACTGTAAT
49682005 TTAGGGACAT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (24 bp):
CCACTGTAATCTTCAAAGTTCAAT
Found at i:49683375 original size:7 final size:7
Alignment explanation
Indices: 49683363--49683418 Score: 69
Period size: 7 Copynumber: 7.9 Consensus size: 7
49683353 CCCTAGTAGA
49683363 GTTTTTT
1 GTTTTTT
49683370 GTTTTTTT
1 G-TTTTTT
49683378 GTTTTTT
1 GTTTTTT
49683385 GTTTTTT
1 GTTTTTT
*
49683392 ATTTTCTT
1 GTTTT-TT
*
49683400 ATTTTTT
1 GTTTTTT
49683407 G-TTTTT
1 GTTTTTT
49683413 GTTTTT
1 GTTTTT
49683419 CTGCTTTTTA
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
6 6 0.14
7 24 0.55
8 14 0.32
ACGTcount: A:0.04, C:0.02, G:0.11, T:0.84
Consensus pattern (7 bp):
GTTTTTT
Found at i:49683391 original size:22 final size:22
Alignment explanation
Indices: 49683363--49683427 Score: 78
Period size: 22 Copynumber: 3.0 Consensus size: 22
49683353 CCCTAGTAGA
49683363 GTTTTTTGTTTTTTTGTTTTTT
1 GTTTTTTGTTTTTTTGTTTTTT
* * *
49683385 GTTTTTTATTTTCTTATTTTTT
1 GTTTTTTGTTTTTTTGTTTTTT
* *
49683407 G-TTTTTGTTTTTCTGCTTTTT
1 GTTTTTTGTTTTTTTGTTTTTT
49683428 ACTTTTTTTC
Statistics
Matches: 35, Mismatches: 8, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
21 15 0.43
22 20 0.57
ACGTcount: A:0.03, C:0.05, G:0.11, T:0.82
Consensus pattern (22 bp):
GTTTTTTGTTTTTTTGTTTTTT
Found at i:49683427 original size:15 final size:14
Alignment explanation
Indices: 49683363--49683418 Score: 69
Period size: 15 Copynumber: 3.9 Consensus size: 14
49683353 CCCTAGTAGA
49683363 GTTTTTTGTTTTTTT
1 GTTTTTTG-TTTTTT
49683378 GTTTTTTGTTTTTT
1 GTTTTTTGTTTTTT
* *
49683392 ATTTTCTTATTTTTT
1 GTTTT-TTGTTTTTT
49683407 G-TTTTTGTTTTT
1 GTTTTTTGTTTTT
49683419 CTGCTTTTTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
13 7 0.19
14 13 0.36
15 16 0.44
ACGTcount: A:0.04, C:0.02, G:0.11, T:0.84
Consensus pattern (14 bp):
GTTTTTTGTTTTTT
Found at i:49683433 original size:28 final size:29
Alignment explanation
Indices: 49683373--49683434 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
49683363 GTTTTTTGTT
* *
49683373 TTTTTGTTTTTTGTTTTTTATTTTCTTAT
1 TTTTTGTTTTTTGTTTTTTACTTTCTTAC
*
49683402 TTTTTG-TTTTTGTTTTTCTGCTTT-TTAC
1 TTTTTGTTTTTTGTTTTT-TACTTTCTTAC
49683430 TTTTT
1 TTTTT
49683435 TTCCTTCTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
28 19 0.66
29 10 0.34
ACGTcount: A:0.05, C:0.06, G:0.08, T:0.81
Consensus pattern (29 bp):
TTTTTGTTTTTTGTTTTTTACTTTCTTAC
Found at i:49683433 original size:29 final size:29
Alignment explanation
Indices: 49683372--49683435 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
49683362 AGTTTTTTGT
*
49683372 TTTTTTGTTTTTTGTTTTTTATTTTCTTA
1 TTTTTTGTTTTTTGTTTTTTACTTTCTTA
*
49683401 TTTTTTG-TTTTTGTTTTTCTGCTTT-TTA
1 TTTTTTGTTTTTTGTTTTT-TACTTTCTTA
49683429 CTTTTTT
1 -TTTTTT
49683436 TCCTTCTTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 14 0.45
29 17 0.55
ACGTcount: A:0.05, C:0.06, G:0.08, T:0.81
Consensus pattern (29 bp):
TTTTTTGTTTTTTGTTTTTTACTTTCTTA
Found at i:49686984 original size:126 final size:127
Alignment explanation
Indices: 49686757--49687025 Score: 384
Period size: 126 Copynumber: 2.1 Consensus size: 127
49686747 CGCCAAACAT
*
49686757 GAACTACTGTAGAAAAAGAGCGTCGACGTGAGAGCTTTTTTTCATCAATTTTGCTGACAATGCAT
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTTCATCAATTTTGCTGACAATGCAT
* * *
49686822 CCTGCTTGACGTGTTTTGGACACTATTTGTTCAGAACCGTCTTCTCAAAATTATTTTTTCAG
66 CCTGCTTGACGTGTTTTGGACACTATTTGTTCAGAACCATATTCTCAAAATTATTTTTTCAA
* *
49686884 GAACTACTGTAGAAAAAGAGCGTCCACGTGGGAGC-TTTTTTCAGT-AATTTTGCTGACAGTGCA
1 GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTTCA-TCAATTTTGCTGACAATGCA
* * * * *
49686947 TCCTGTTTGAAACGT-TTTTTG-CATTATTTGTTTAGAACCATATTCTCTAAATTATTTTTTCAA
65 TCCTGCTTG--ACGTGTTTTGGACACTATTTGTTCAGAACCATATTCTCAAAATTATTTTTTCAA
49687010 GAACTACTGTAGAAAA
1 GAACTACTGTAGAAAA
49687026 CAAACAAAAT
Statistics
Matches: 128, Mismatches: 11, Indels: 7
0.88 0.08 0.05
Matches are distributed among these distances:
126 85 0.66
127 39 0.30
128 4 0.03
ACGTcount: A:0.28, C:0.17, G:0.18, T:0.37
Consensus pattern (127 bp):
GAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTTCATCAATTTTGCTGACAATGCAT
CCTGCTTGACGTGTTTTGGACACTATTTGTTCAGAACCATATTCTCAAAATTATTTTTTCAA
Found at i:49687139 original size:34 final size:33
Alignment explanation
Indices: 49687087--49687190 Score: 127
Period size: 34 Copynumber: 3.1 Consensus size: 33
49687077 CACATTATTA
* *
49687087 TTTTTAAAAAAACTAAACCCTGATTTAATTAAT
1 TTTTTAAAAACACTAAACCCTAATTTAATTAAT
* * *
49687120 TTTCTTAAAAACACAAAACCTTAATTTAGTTAAT
1 TTT-TTAAAAACACTAAACCCTAATTTAATTAAT
* *
49687154 TTATTTAAAACCTCTAAACCCTAATTTAATTAAT
1 TT-TTTAAAAACACTAAACCCTAATTTAATTAAT
49687188 TTT
1 TTT
49687191 AAAAAAGAAC
Statistics
Matches: 59, Mismatches: 10, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
33 4 0.07
34 54 0.92
35 1 0.02
ACGTcount: A:0.42, C:0.14, G:0.02, T:0.41
Consensus pattern (33 bp):
TTTTTAAAAACACTAAACCCTAATTTAATTAAT
Found at i:49688123 original size:37 final size:37
Alignment explanation
Indices: 49688073--49688147 Score: 141
Period size: 37 Copynumber: 2.0 Consensus size: 37
49688063 AGATTTATCC
49688073 TTTGTTTGTTTAATTAATTTAGGTAAACGAGTTTGAA
1 TTTGTTTGTTTAATTAATTTAGGTAAACGAGTTTGAA
*
49688110 TTTGTTTGTTTAATTAATTTAGGTAAGCGAGTTTGAA
1 TTTGTTTGTTTAATTAATTTAGGTAAACGAGTTTGAA
49688147 T
1 T
49688148 AGGACATTAA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.28, C:0.03, G:0.20, T:0.49
Consensus pattern (37 bp):
TTTGTTTGTTTAATTAATTTAGGTAAACGAGTTTGAA
Found at i:49688997 original size:123 final size:123
Alignment explanation
Indices: 49688791--49689025 Score: 357
Period size: 123 Copynumber: 1.9 Consensus size: 123
49688781 TTCGACAATG
* *
49688791 TAGAAGACCAAGGAGACCCTTCAATGGTATCATGATATCCCTTTTGGGTATCACGATATCCACCT
1 TAGAAGACCAAGGAGACCATTCAATGGTATCATGATATCCCTTTTCGGTATCACGATATCCACCT
* * *
49688856 CTCAAGGAAGACCTTAAGTTTCTATTCTACCCTAGATATCGCGATATATCCAACAGTC
66 CTCAAGGAAGACCCTAAGTTTCTATTCTACCCAAGATATCGCAATATATCCAACAGTC
* *
49688914 TAGAAGACCTAGGAGACCATTCAGTGGTATCATGATATTCCC-TTTCGGTATCACGATATCCACC
1 TAGAAGACCAAGGAGACCATTCAATGGTATCATGATA-TCCCTTTTCGGTATCACGATATCCACC
* *
49688978 T-TGCAAGGATGACCCTAAGTTTCTATTCTGCCCAAGATATCGCAATAT
65 TCT-CAAGGAAGACCCTAAGTTTCTATTCTACCCAAGATATCGCAATAT
49689026 CTAACACCTC
Statistics
Matches: 101, Mismatches: 9, Indels: 4
0.89 0.08 0.04
Matches are distributed among these distances:
122 1 0.01
123 96 0.95
124 4 0.04
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.29
Consensus pattern (123 bp):
TAGAAGACCAAGGAGACCATTCAATGGTATCATGATATCCCTTTTCGGTATCACGATATCCACCT
CTCAAGGAAGACCCTAAGTTTCTATTCTACCCAAGATATCGCAATATATCCAACAGTC
Found at i:49689274 original size:145 final size:145
Alignment explanation
Indices: 49688908--49689316 Score: 516
Period size: 144 Copynumber: 2.8 Consensus size: 145
49688898 GATATATCCA
* * * *
49688908 ACAGTCTAGAAGACCTAGGAGACCATTCAGTGGTATCATGATATTCCCTTTCGG-TATCACGATA
1 ACAGTGTAGAAGACCAAGGAGACCATTCAGTGGTATCATGATA-TCCCTTTTGGCTATCGCGATA
** * * ** * *
49688972 TCCACCTTGCAAGGATGACCCTAAGTTTCTATTCTGCCCAAGATATCGCAATATCTAACACCTCG
65 TCCACCTCCCAAGGAAGACCCCAAGTTTCTATTCTGCCTGAGATATCGCGATATCCAACACCTCG
*
49689037 AATCGCGATACCTTTG
130 AATCGCGATACCTCTG
* * * * * *
49689053 ACAATGT-GAAGACCAATGAGACCCTTCAGTCGTATCATGATATCCCCTTTGGCTATCGTGATAT
1 ACAGTGTAGAAGACCAAGGAGACCATTCAGTGGTATCATGATATCCCTTTTGGCTATCGCGATAT
* * *
49689117 CCACCTCCCAAGGAAGGCCCCAAGTTTCTATTCTGCCTGAGATATTGCGATATCCAACCCCTCGA
66 CCACCTCCCAAGGAAGACCCCAAGTTTCTATTCTGCCTGAGATATCGCGATATCCAACACCTCGA
*
49689182 ATCGTGATACCTCTG
131 ATCGCGATACCTCTG
* * * *
49689197 ACAGTGTAGAAAACCAAGGAGACCTTTCAGTGGTATCGTGATATCCCTTTTGGCTATTGCGATAT
1 ACAGTGTAGAAGACCAAGGAGACCATTCAGTGGTATCATGATATCCCTTTTGGCTATCGCGATAT
* * * *
49689262 CCACCTCCCAAGGAAGTCCTCAAGTTTCTATTCTGCCTGGGATATCACGATATCC
66 CCACCTCCCAAGGAAGACCCCAAGTTTCTATTCTGCCTGAGATATCGCGATATCC
49689317 TCTTCTGGGT
Statistics
Matches: 225, Mismatches: 37, Indels: 4
0.85 0.14 0.02
Matches are distributed among these distances:
143 8 0.04
144 113 0.50
145 104 0.46
ACGTcount: A:0.27, C:0.27, G:0.18, T:0.28
Consensus pattern (145 bp):
ACAGTGTAGAAGACCAAGGAGACCATTCAGTGGTATCATGATATCCCTTTTGGCTATCGCGATAT
CCACCTCCCAAGGAAGACCCCAAGTTTCTATTCTGCCTGAGATATCGCGATATCCAACACCTCGA
ATCGCGATACCTCTG
Found at i:49689551 original size:21 final size:21
Alignment explanation
Indices: 49689513--49689557 Score: 74
Period size: 21 Copynumber: 2.1 Consensus size: 21
49689503 TAGTTTTAGG
49689513 TTTAGTTTTCTTTAAGTTTTC
1 TTTAGTTTTCTTTAAGTTTTC
49689534 TTTAGGTTTTCTTT-AGTTTTC
1 TTTA-GTTTTCTTTAAGTTTTC
49689555 TTT
1 TTT
49689558 GCACTTTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
21 14 0.61
22 9 0.39
ACGTcount: A:0.11, C:0.09, G:0.11, T:0.69
Consensus pattern (21 bp):
TTTAGTTTTCTTTAAGTTTTC
Found at i:49689554 original size:10 final size:10
Alignment explanation
Indices: 49689513--49689557 Score: 72
Period size: 11 Copynumber: 4.3 Consensus size: 10
49689503 TAGTTTTAGG
49689513 TTTAGTTTTC
1 TTTAGTTTTC
49689523 TTTAAGTTTTC
1 TTT-AGTTTTC
49689534 TTTAGGTTTTC
1 TTTA-GTTTTC
49689545 TTTAGTTTTC
1 TTTAGTTTTC
49689555 TTT
1 TTT
49689558 GCACTTTTTT
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
10 13 0.39
11 20 0.61
ACGTcount: A:0.11, C:0.09, G:0.11, T:0.69
Consensus pattern (10 bp):
TTTAGTTTTC
Found at i:49693978 original size:20 final size:21
Alignment explanation
Indices: 49693924--49693984 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 21
49693914 AGAATAAAAT
49693924 TAGAAATAATAATAATACTACTAA
1 TAGAAATAATAATAA-A--ACTAA
*
49693948 TAGTAAT-ATAATAAAACTAA
1 TAGAAATAATAATAAAACTAA
49693968 TA-AAATAATAAATAAAA
1 TAGAAATAAT-AATAAAA
49693985 TAAACAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 3 0.09
20 9 0.27
21 7 0.21
22 1 0.03
23 7 0.21
24 6 0.18
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (21 bp):
TAGAAATAATAATAAAACTAA
Found at i:49700780 original size:20 final size:21
Alignment explanation
Indices: 49700741--49700780 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
49700731 TGTTTATTTG
49700741 TTGTAATTAGATGAATTAAAA
1 TTGTAATTAGATGAATTAAAA
* *
49700762 TTGTATTTATATG-ATTAAA
1 TTGTAATTAGATGAATTAAA
49700781 TTAATAAAAC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.42, C:0.00, G:0.12, T:0.45
Consensus pattern (21 bp):
TTGTAATTAGATGAATTAAAA
Found at i:49712063 original size:25 final size:26
Alignment explanation
Indices: 49712029--49712095 Score: 79
Period size: 25 Copynumber: 2.7 Consensus size: 26
49712019 TATTTTAAGT
49712029 GTTTTCAGTATAGT-CTA-TCTATAGTA
1 GTTTTCAGTATA-TACTACT-TATAGTA
49712055 GTTTT-AGTATATACTACTTATAGTA
1 GTTTTCAGTATATACTACTTATAGTA
*
49712080 G-TTTCAGGATATACTA
1 GTTTTCAGTATATACTA
49712096 TCAAAGACAG
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
24 4 0.11
25 27 0.73
26 6 0.16
ACGTcount: A:0.30, C:0.10, G:0.15, T:0.45
Consensus pattern (26 bp):
GTTTTCAGTATATACTACTTATAGTA
Found at i:49717675 original size:43 final size:44
Alignment explanation
Indices: 49717612--49717842 Score: 213
Period size: 43 Copynumber: 5.4 Consensus size: 44
49717602 GCATTCTCCC
* *
49717612 ACAAACGTCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACCT
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTACCT
* * *
49717656 A-AAACGCCACTAAAGAACATGATCTTTAGCGACGCTTTTTCC-
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTACCT
* * * * *
49717698 ACAAACGCCGCTAAAAAACATGATCTTTATCAAGGCTTTT-CCT
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTACCT
* * * *
49717741 ACAAATGCTGCTAAAGAACATGACCTTTAGTGACGCTTTTA-TT
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTACCT
* * * *** * *
49717784 AAAAACACCGCTAAAGATCATGTTATTTA-CCAGTGCTTTT-CCT
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGA-CGCTTTTACCT
49717827 ACAAACGCCGCTAAAG
1 ACAAACGCCGCTAAAG
49717843 GTCATGTTCT
Statistics
Matches: 149, Mismatches: 33, Indels: 11
0.77 0.17 0.06
Matches are distributed among these distances:
42 4 0.03
43 144 0.97
44 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (44 bp):
ACAAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTACCT
Found at i:49717755 original size:86 final size:86
Alignment explanation
Indices: 49717610--49717842 Score: 249
Period size: 86 Copynumber: 2.7 Consensus size: 86
49717600 TGGCATTCTC
* * * *
49717610 CCACAAACGTCGCTAAAGAACATGACCTTTAGCGGCGCTTTTACCTA-AAACGCCACTAAAGAAC
1 CCACAAACGCCGCTAAAGAACATGATCTTTA-CAGCGCTTTT-CCTACAAACGCCGCTAAAGAAC
*
49717674 ATGATCTTTAGCGACGCTTTT-T
64 ATGACCTTTAGCGACGCTTTTAT
* * *
49717696 CCACAAACGCCGCTAAAAAACATGATCTTTATCAAG-GCTTTTCCTACAAATGCTGCTAAAGAAC
1 CCACAAACGCCGCTAAAGAACATGATCTTTA-C-AGCGCTTTTCCTACAAACGCCGCTAAAGAAC
*
49717760 ATGACCTTTAGTGACGCTTTTAT
64 ATGACCTTTAGCGACGCTTTTAT
* * * * * * *
49717783 -TAAAAACACCGCTAAAGATCATGTTATTTACCAGTGCTTTTCCTACAAACGCCGCTAAAG
1 CCACAAACGCCGCTAAAGAACATGATCTTTA-CAGCGCTTTTCCTACAAACGCCGCTAAAG
49717843 GTCATGTTCT
Statistics
Matches: 123, Mismatches: 20, Indels: 8
0.81 0.13 0.05
Matches are distributed among these distances:
85 6 0.05
86 115 0.93
87 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (86 bp):
CCACAAACGCCGCTAAAGAACATGATCTTTACAGCGCTTTTCCTACAAACGCCGCTAAAGAACAT
GACCTTTAGCGACGCTTTTAT
Found at i:49726310 original size:26 final size:26
Alignment explanation
Indices: 49726281--49726342 Score: 97
Period size: 26 Copynumber: 2.4 Consensus size: 26
49726271 TACCTACAGT
49726281 AGTTTCAGAATATCATAACATATATC
1 AGTTTCAGAATATCATAACATATATC
* * *
49726307 AGTTTCAGAATATCATAGCATGTATT
1 AGTTTCAGAATATCATAACATATATC
49726333 AGTTTCAGAA
1 AGTTTCAGAA
49726343 CACTTACAGG
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 33 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (26 bp):
AGTTTCAGAATATCATAACATATATC
Found at i:49747949 original size:15 final size:15
Alignment explanation
Indices: 49747929--49747959 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49747919 AAAATAACAT
49747929 AACTCTTGAACTTTC
1 AACTCTTGAACTTTC
*
49747944 AACTCTTGACCTTTC
1 AACTCTTGAACTTTC
49747959 A
1 A
49747960 CTTACATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.29, G:0.06, T:0.39
Consensus pattern (15 bp):
AACTCTTGAACTTTC
Found at i:49752275 original size:15 final size:15
Alignment explanation
Indices: 49752255--49752285 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
49752245 AAAACAACAT
*
49752255 AACTCTTGACCTTTC
1 AACTCTTGACCATTC
49752270 AACTCTTGACCATTC
1 AACTCTTGACCATTC
49752285 A
1 A
49752286 CTTACATAAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.26, C:0.32, G:0.06, T:0.35
Consensus pattern (15 bp):
AACTCTTGACCATTC
Found at i:49763016 original size:15 final size:16
Alignment explanation
Indices: 49762991--49763023 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
49762981 CAGAAAACTT
*
49762991 AAATATCAAATTTCAA
1 AAATATCAAATGTCAA
49763007 AAAT-TCAAATGTCAA
1 AAATATCAAATGTCAA
49763022 AA
1 AA
49763024 CGAAACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (16 bp):
AAATATCAAATGTCAA
Found at i:49763659 original size:91 final size:91
Alignment explanation
Indices: 49763504--49763680 Score: 291
Period size: 91 Copynumber: 1.9 Consensus size: 91
49763494 TCAAAGACTT
* *
49763504 TTGGGTCTGCAAACTAAGCTAATTACGCCCAACGTCTGAATTGCACCTCAAATCCCTGAACCATA
1 TTGGGTCTGCAAACAAAGCTAATTACGCCCAACATCTGAATTGCACCTCAAATCCCTGAACCATA
*
49763569 ATCTGAACATGGCCTACTTCATCAAA
66 ATCTGAACATGGCCAACTTCATCAAA
* * * *
49763595 TTGGGTCTGCAAACAAAGTTCATTAGGCCCAACATCTGGATTGCACCTCAAATCCCTGAACCATA
1 TTGGGTCTGCAAACAAAGCTAATTACGCCCAACATCTGAATTGCACCTCAAATCCCTGAACCATA
49763660 ATCTGAACATGGCCAACTTCA
66 ATCTGAACATGGCCAACTTCA
49763681 ACAATATTTA
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 79 1.00
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.25
Consensus pattern (91 bp):
TTGGGTCTGCAAACAAAGCTAATTACGCCCAACATCTGAATTGCACCTCAAATCCCTGAACCATA
ATCTGAACATGGCCAACTTCATCAAA
Found at i:49767596 original size:25 final size:25
Alignment explanation
Indices: 49767562--49767611 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
49767552 TTGAATGGCA
49767562 ACTCTATCAAATCAGTTGGAAATAC
1 ACTCTATCAAATCAGTTGGAAATAC
49767587 ACTCTATCAAATCAGTTGGAAATAC
1 ACTCTATCAAATCAGTTGGAAATAC
49767612 TTACCCCTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.28
Consensus pattern (25 bp):
ACTCTATCAAATCAGTTGGAAATAC
Found at i:49769842 original size:23 final size:24
Alignment explanation
Indices: 49769816--49769861 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 24
49769806 AATTTAGCCA
*
49769816 ATTTTATTTTA-TTTTATTTTTAT
1 ATTTTATTTTAGTTTAATTTTTAT
49769839 ATTTTATTTTAGTTTAATTTTTA
1 ATTTTATTTTAGTTTAATTTTTA
49769862 CGTTCTAATT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (24 bp):
ATTTTATTTTAGTTTAATTTTTAT
Found at i:49782579 original size:47 final size:47
Alignment explanation
Indices: 49782501--49782810 Score: 476
Period size: 47 Copynumber: 6.6 Consensus size: 47
49782491 CCCTTCGGGA
* * * * * *
49782501 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49782548 CCTGTCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49782595 CTCATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49782642 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49782689 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGC
49782738 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
* *
49782785 CTTATCACATATATATACATTCACAT
1 CTTATCACATATATACACTTTCACAT
49782811 CACAATTATC
Statistics
Matches: 241, Mismatches: 20, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
47 196 0.81
49 45 0.19
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49782739 original size:96 final size:96
Alignment explanation
Indices: 49782501--49782810 Score: 497
Period size: 96 Copynumber: 3.3 Consensus size: 96
49782491 CCCTTCGGGA
* * * * *
49782501 CTTATCACAT-T-TATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
49782564 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
* * * *
49782595 CTCATCAC--ATATATACACTTTCACATTCATCACATCGGCTATTAGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
49782658 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
49782689 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
49782754 ACTTTCACATTCATCACATCGGCCATTAGGC
66 ACTTTCACATTCATCACATCGGCCATTAGGC
49782785 CTTATCACATATATATACA--TTCACAT
1 CTTATCACATATATATACACTTTCACAT
49782811 CACAATTATC
Statistics
Matches: 199, Mismatches: 13, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
93 1 0.01
94 96 0.48
96 102 0.51
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (96 bp):
CTTATCACATATATATACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
ACTTTCACATTCATCACATCGGCCATTAGGC
Found at i:49782757 original size:143 final size:141
Alignment explanation
Indices: 49782501--49782811 Score: 478
Period size: 143 Copynumber: 2.2 Consensus size: 141
49782491 CCCTTCGGGA
* * * * *
49782501 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
49782566 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
66 TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
*
49782631 GGCTATTAGGC
131 GGCCATTAGGC
* * *
49782642 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATATATAC
1 CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCAC--ATATATAC
* * *
49782707 ACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACACTTTCACATTCATCACA
64 ACTTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACA
49782772 TCGGCCATTAGGC
129 TCGGCCATTAGGC
* *
49782785 CTTATCACATATATATACATTCACATC
1 CTTATCACATATATACACTTTCACATC
49782812 ACAATTATCC
Statistics
Matches: 153, Mismatches: 15, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
141 47 0.31
143 106 0.69
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.32
Consensus pattern (141 bp):
CTTATCACATATATACACTTTCACATCCATCACATCGGCCACTAGGCCCTATCACATATATACAC
TTTCACATTCATCACATCGGCCATTAGGCCTCATCACATATATACACTTTCACATTCATCACATC
GGCCATTAGGC
Found at i:49793463 original size:23 final size:23
Alignment explanation
Indices: 49793435--49793548 Score: 128
Period size: 23 Copynumber: 5.1 Consensus size: 23
49793425 TGTGTAACTT
49793435 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
* * * * *
49793458 TTCATA---ATGTGT-GTAACTT
1 TTCATATTCAAGTCTCTTCACTC
* * *
49793477 TTCATCTTCAAGTCTATTCACTA
1 TTCATATTCAAGTCTCTTCACTC
49793500 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
49793523 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTCTTCACTC
49793546 TTC
1 TTC
49793549 TAACTTTTCA
Statistics
Matches: 73, Mismatches: 14, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
19 9 0.12
20 4 0.05
22 4 0.05
23 56 0.77
ACGTcount: A:0.23, C:0.26, G:0.06, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTCTTCACTC
Found at i:49793475 original size:42 final size:43
Alignment explanation
Indices: 49793425--49793548 Score: 142
Period size: 42 Copynumber: 2.8 Consensus size: 43
49793415 TTCATGCATA
*
49793425 TGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTCATA-ATG
1 TGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTCATATAAG
* * *
49793467 TGTGTAACTTTTCATCTTCAAGTCTATTCACTATTCATATTCAAG
1 TGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTCATA-T-AAG
* * * *
49793512 TCTCTTCACTCTTCATATTCAAGTCTCTTCACTCTTC
1 TGT-GTAACTTTTCATATTCAAGTCTCTTCACTCTTC
49793549 TAACTTTTCA
Statistics
Matches: 67, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
42 36 0.54
45 4 0.06
46 27 0.40
ACGTcount: A:0.23, C:0.25, G:0.07, T:0.45
Consensus pattern (43 bp):
TGTGTAACTTTTCATATTCAAGTCTCTTCACTCTTCATATAAG
Found at i:49796195 original size:23 final size:23
Alignment explanation
Indices: 49796163--49796211 Score: 80
Period size: 23 Copynumber: 2.1 Consensus size: 23
49796153 TGTGTAACTT
*
49796163 TTCATCTTCAAGTCTATTCACTC
1 TTCATATTCAAGTCTATTCACTC
*
49796186 TTCATATTCAAGTCTCTTCACTC
1 TTCATATTCAAGTCTATTCACTC
49796209 TTC
1 TTC
49796212 TAACTTTTCA
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:0.20, C:0.31, G:0.04, T:0.45
Consensus pattern (23 bp):
TTCATATTCAAGTCTATTCACTC
Found at i:49799066 original size:17 final size:17
Alignment explanation
Indices: 49799044--49799078 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
49799034 TCTGTGTAAA
* *
49799044 ATATTTTTTGTTTTTTG
1 ATATTTTCTGATTTTTG
49799061 ATATTTTCTGATTTTTG
1 ATATTTTCTGATTTTTG
49799078 A
1 A
49799079 CAGATTTCTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.17, C:0.03, G:0.11, T:0.69
Consensus pattern (17 bp):
ATATTTTCTGATTTTTG
Found at i:49799156 original size:18 final size:19
Alignment explanation
Indices: 49799124--49799160 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
49799114 TTTACATATA
49799124 TTAATAAATTTTATATTTT
1 TTAATAAATTTTATATTTT
49799143 TTAATAAA-TTTATATTTT
1 TTAATAAATTTTATATTTT
49799161 AATTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 10 0.56
19 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTAATAAATTTTATATTTT
Found at i:49800463 original size:27 final size:30
Alignment explanation
Indices: 49800396--49800469 Score: 91
Period size: 32 Copynumber: 2.5 Consensus size: 30
49800386 TGTCAACCAT
*
49800396 TTCAATATCCAACAAGCTTAAAACATTATAAA
1 TTCAATATCTAACAAGCTTAAAAC--TATAAA
*
49800428 TTAAATATCTAACAAGCTTAAAAC-AT-AA
1 TTCAATATCTAACAAGCTTAAAACTATAAA
49800456 -TCAATATCTAACAA
1 TTCAATATCTAACAA
49800470 ATTCAAGACA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
27 13 0.33
28 2 0.05
29 2 0.05
32 22 0.56
ACGTcount: A:0.51, C:0.18, G:0.03, T:0.28
Consensus pattern (30 bp):
TTCAATATCTAACAAGCTTAAAACTATAAA
Found at i:49800480 original size:27 final size:27
Alignment explanation
Indices: 49800431--49800483 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
49800421 TTATAAATTA
*
49800431 AATATCTAACAAGCTTAAAACATAATC
1 AATATCTAACAAGATTAAAACATAATC
*
49800458 AATATCTAACAA-ATTCAAGACATAAT
1 AATATCTAACAAGATT-AAAACATAAT
49800484 AATTTCAAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
26 2 0.09
27 21 0.91
ACGTcount: A:0.53, C:0.17, G:0.04, T:0.26
Consensus pattern (27 bp):
AATATCTAACAAGATTAAAACATAATC
Found at i:49804161 original size:17 final size:16
Alignment explanation
Indices: 49804135--49804169 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
49804125 AATTTCAAAT
*
49804135 AATAAAAATATTATTA
1 AATAAAAATATTAATA
49804151 AATATAAAATATTAATA
1 AATA-AAAATATTAATA
49804168 AA
1 AA
49804170 AGAATAATGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (16 bp):
AATAAAAATATTAATA
Found at i:49804511 original size:5 final size:6
Alignment explanation
Indices: 49804493--49804522 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
49804483 AATAAAACAA
49804493 TTATTT TTATTT TTATTT TTATTT TATATT
1 TTATTT TTATTT TTATTT TTATTT T-TATT
49804523 AATAATATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 19 0.83
7 4 0.17
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:49807855 original size:10 final size:10
Alignment explanation
Indices: 49807840--49807938 Score: 63
Period size: 10 Copynumber: 10.6 Consensus size: 10
49807830 AAATTGTAAA
49807840 AAAAATATTT
1 AAAAATATTT
49807850 AAAAAT-TTT
1 AAAAATATTT
49807859 --AAATA--T
1 AAAAATATTT
49807865 AAAAATATTT
1 AAAAATATTT
*
49807875 AATAA-A-TT
1 AAAAATATTT
*
49807883 AAAAACATTT
1 AAAAATATTT
*
49807893 AATAAAT-TGT
1 AA-AAATATTT
49807903 AAAAATTATTT
1 AAAAA-TATTT
*
49807914 -AAAATTTTT
1 AAAAATATTT
* *
49807923 AAAACTAATT
1 AAAAATATTT
49807933 AAAAAT
1 AAAAAT
49807939 TAAAAATAAT
Statistics
Matches: 68, Mismatches: 10, Indels: 22
0.68 0.10 0.22
Matches are distributed among these distances:
6 1 0.01
7 4 0.06
8 11 0.16
9 12 0.18
10 35 0.51
11 5 0.07
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (10 bp):
AAAAATATTT
Found at i:49807887 original size:18 final size:18
Alignment explanation
Indices: 49807858--49807946 Score: 74
Period size: 18 Copynumber: 4.7 Consensus size: 18
49807848 TTAAAAATTT
49807858 TAAATATAAAAATATTTAA
1 TAAAT-TAAAAATATTTAA
*
49807877 TAAATTAAAAACATTTAA
1 TAAATTAAAAATATTTAA
49807895 TAAATTGTAAAAATTATTTAA
1 TAAA-T-TAAAAA-TATTTAA
* * *
49807916 -AATTTTTAAAACTAATTAA
1 TAA--ATTAAAAATATTTAA
49807935 -AAATTAAAAATA
1 TAAATTAAAAATA
49807947 ATATAAAAAA
Statistics
Matches: 58, Mismatches: 7, Indels: 12
0.75 0.09 0.16
Matches are distributed among these distances:
17 8 0.14
18 16 0.28
19 14 0.24
20 13 0.22
21 7 0.12
ACGTcount: A:0.60, C:0.02, G:0.01, T:0.37
Consensus pattern (18 bp):
TAAATTAAAAATATTTAA
Found at i:49807943 original size:17 final size:18
Alignment explanation
Indices: 49807921--49807955 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
49807911 TTTAAAATTT
*
49807921 TTAAAACTAAT-TAAAAA
1 TTAAAAATAATATAAAAA
49807938 TTAAAAATAATATAAAAA
1 TTAAAAATAATATAAAAA
49807956 ATTAGTAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.29
Consensus pattern (18 bp):
TTAAAAATAATATAAAAA
Found at i:49811236 original size:307 final size:298
Alignment explanation
Indices: 49810686--49811237 Score: 705
Period size: 307 Copynumber: 1.8 Consensus size: 298
49810676 TGAGTTGGAT
* *
49810686 ACTATCTATGATTTCAACTCAACCCAAATATGTGGTTCAATAAATTGTCAATCACACAAATGTGG
1 ACTATCTATGATTTCAACTCAACCCAAATATGTGGTTCAATAAATTGCCAATCACACAAATATGG
* * *
49810751 GAAAAACCAGTCTTTCACAATGTTTCAAGAAGTGGGCACTTCCTCAGACACATCTCAATCGTTTC
66 GAAAAACCAGTCTGTCACAATGTTTCAAGAAGTGGGCACTTCCTCAGACACATCTCAATCATTCC
* * * * *
49810816 ATATTTTTCAACAATCTCCTCTTTTAGCAATTCTTGAACAAAACACGTACAACACATGAAGCTAT
131 ATATCTTTCAACAATCTCCTCTTTCAGCAATTCTTGAACAAAACACATACAACACAGGAAACTAT
* * * **
49810881 ATCATCAAATAAACCTTAGTGCCTCCTTAGCATATTTCTTTTAATTTCAAATACTTAGATAAACA
196 ATCATCAAATAAACCTAACTGCCTCCTTAGCATATTCCTAGTAATTTCAAATACTTAGATAAACA
49810946 TTTAATTCCTCTTTAGCATATCCCCTTTAATTTCAAAC
261 TTTAATTCCTCTTTAGCATATCCCCTTTAATTTCAAAC
* * *
49810984 ACTATCTATGATTTTAGCTCAGCCCAAATATGTGGTTCAATAAATTGCCAATCACACAAATATGA
1 ACTATCTATGATTTCAACTCAACCCAAATATGTGGTTCAATAAATTGCCAATCACACAAATATG-
** * * * * *
49811049 AAGGAAAAAAAAAGCCAGT-TCGTCGTAGTGTTTCAGGAAGTGGGTACTTCCTGATACACATCTC
65 --GG----AAAAA-CCAGTCT-GTCACAATGTTTCAAGAAGTGGGCACTTCCTCAGACACATCTC
* * * * *
49811113 AGTCATTCCCTGTCTTTCAACAATCT-CTCTCTTCAGCAATTTGTTGAATAAAACACATACAACA
122 AATCATTCCATATCTTTCAACAATCTCCTCT-TTCAGCAA-TTCTTGAACAAAACACATACAACA
49811177 CAGGAAACTATATCATCAAATAAACCTGAACT-CCTCCTTAGCATATTCCTAGTAATTTCAA
185 CAGGAAACTATATCATCAAATAAACCT-AACTGCCTCCTTAGCATATTCCTAGTAATTTCAA
49811238 GTACATAACT
Statistics
Matches: 212, Mismatches: 30, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
298 59 0.28
301 2 0.01
305 10 0.05
306 67 0.32
307 72 0.34
308 2 0.01
ACGTcount: A:0.35, C:0.23, G:0.11, T:0.32
Consensus pattern (298 bp):
ACTATCTATGATTTCAACTCAACCCAAATATGTGGTTCAATAAATTGCCAATCACACAAATATGG
GAAAAACCAGTCTGTCACAATGTTTCAAGAAGTGGGCACTTCCTCAGACACATCTCAATCATTCC
ATATCTTTCAACAATCTCCTCTTTCAGCAATTCTTGAACAAAACACATACAACACAGGAAACTAT
ATCATCAAATAAACCTAACTGCCTCCTTAGCATATTCCTAGTAATTTCAAATACTTAGATAAACA
TTTAATTCCTCTTTAGCATATCCCCTTTAATTTCAAAC
Found at i:49812023 original size:22 final size:22
Alignment explanation
Indices: 49811979--49812023 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
49811969 GGGCCGAGAT
**
49811979 AATAAAAAATAATAAATTTAAA
1 AATAAAAAATAATAAATGAAAA
49812001 AATAAAAAATAATTAAA-GAAAA
1 AATAAAAAATAA-TAAATGAAAA
49812023 A
1 A
49812024 TAATTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.76, C:0.00, G:0.02, T:0.22
Consensus pattern (22 bp):
AATAAAAAATAATAAATGAAAA
Found at i:49812044 original size:32 final size:32
Alignment explanation
Indices: 49811977--49812041 Score: 80
Period size: 33 Copynumber: 2.0 Consensus size: 32
49811967 GGGGGCCGAG
49811977 ATAATAAAAAATAATAAATTTAAAAATAAAAA
1 ATAATAAAAAATAATAAATTTAAAAATAAAAA
*
49812009 ATAATTAAAGAAA-AAT-AATTTAATAAATGAAAA
1 ATAA-TAAA-AAATAATAAATTTAA-AAATAAAAA
49812042 TAAACTAGAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
32 11 0.38
33 15 0.52
34 3 0.10
ACGTcount: A:0.71, C:0.00, G:0.03, T:0.26
Consensus pattern (32 bp):
ATAATAAAAAATAATAAATTTAAAAATAAAAA
Found at i:49813675 original size:37 final size:37
Alignment explanation
Indices: 49813634--49813705 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
49813624 ACTGGCATAA
*
49813634 ATTTGCATTATCTCTTTTTGTATTGTTGAAGTAGTCC
1 ATTTGCAATATCTCTTTTTGTATTGTTGAAGTAGTCC
49813671 ATTTGCAATATCTCTTTTTGTATTGTTGAAGTAGT
1 ATTTGCAATATCTCTTTTTGTATTGTTGAAGTAGT
49813706 ATAACTAGCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.21, C:0.11, G:0.17, T:0.51
Consensus pattern (37 bp):
ATTTGCAATATCTCTTTTTGTATTGTTGAAGTAGTCC
Found at i:49815449 original size:12 final size:12
Alignment explanation
Indices: 49815432--49815466 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
49815422 CGACGTTAGC
49815432 CTATTACTGTTA
1 CTATTACTGTTA
49815444 CTATTACTGTTA
1 CTATTACTGTTA
*
49815456 CTGTTACTGTT
1 CTATTACTGTT
49815467 TTCTTGTGCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.20, C:0.17, G:0.11, T:0.51
Consensus pattern (12 bp):
CTATTACTGTTA
Found at i:49815450 original size:6 final size:6
Alignment explanation
Indices: 49815435--49815466 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
49815425 CGTTAGCCTA
*
49815435 TTACTG TTACTA TTACTG TTACTG TTACTG TT
1 TTACTG TTACTG TTACTG TTACTG TTACTG TT
49815467 TTCTTGTGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.16, G:0.12, T:0.53
Consensus pattern (6 bp):
TTACTG
Found at i:49816050 original size:19 final size:19
Alignment explanation
Indices: 49816026--49816066 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
49816016 TGTCGTTTAG
49816026 AACTTAGAAAATCTACGAC
1 AACTTAGAAAATCTACGAC
*
49816045 AACTTAGAAAATCTATGAC
1 AACTTAGAAAATCTACGAC
49816064 AAC
1 AAC
49816067 AAAGGTTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.49, C:0.20, G:0.10, T:0.22
Consensus pattern (19 bp):
AACTTAGAAAATCTACGAC
Found at i:49823502 original size:10 final size:11
Alignment explanation
Indices: 49823489--49823517 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
49823479 AGTTCAATCA
49823489 AGCTCAATT-T
1 AGCTCAATTCT
49823499 AGCTCAATTCT
1 AGCTCAATTCT
49823510 AGCTCAAT
1 AGCTCAAT
49823518 GAGCTCGTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.50
11 9 0.50
ACGTcount: A:0.31, C:0.24, G:0.10, T:0.34
Consensus pattern (11 bp):
AGCTCAATTCT
Found at i:49825179 original size:19 final size:17
Alignment explanation
Indices: 49825151--49825185 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 17
49825141 TGTATTGAAG
49825151 TATAAAAAAATTTGAAAT
1 TATAAAAAAA-TTGAAAT
49825169 TATACAAAAAATTGAAA
1 TATA-AAAAAATTGAAA
49825186 AAAAATTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.63, C:0.03, G:0.06, T:0.29
Consensus pattern (17 bp):
TATAAAAAAATTGAAAT
Found at i:49825190 original size:11 final size:12
Alignment explanation
Indices: 49825174--49825202 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
49825164 GAAATTATAC
49825174 AAAAAA-TTGAA
1 AAAAAATTTGAA
49825185 AAAAAATTTGAA
1 AAAAAATTTGAA
49825197 AAAAAA
1 AAAAAA
49825203 GAAATTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.76, C:0.00, G:0.07, T:0.17
Consensus pattern (12 bp):
AAAAAATTTGAA
Found at i:49825207 original size:16 final size:16
Alignment explanation
Indices: 49825183--49825221 Score: 71
Period size: 16 Copynumber: 2.5 Consensus size: 16
49825173 CAAAAAATTG
49825183 AAAAA-AAATTTGAAA
1 AAAAAGAAATTTGAAA
49825198 AAAAAGAAATTTGAAA
1 AAAAAGAAATTTGAAA
49825214 AAAAAGAA
1 AAAAAGAA
49825222 GTGAAGTTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
15 5 0.22
16 18 0.78
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.15
Consensus pattern (16 bp):
AAAAAGAAATTTGAAA
Found at i:49826142 original size:18 final size:16
Alignment explanation
Indices: 49826112--49826151 Score: 53
Period size: 18 Copynumber: 2.4 Consensus size: 16
49826102 AATTGAGATT
49826112 GAGAAAAAAGTTGAAA
1 GAGAAAAAAGTTGAAA
49826128 GAGAAAAAGATGTTGAAA
1 GAGAAAAA-A-GTTGAAA
*
49826146 AAGAAA
1 GAGAAA
49826152 CGAAAGAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 8 0.38
17 1 0.05
18 12 0.57
ACGTcount: A:0.62, C:0.00, G:0.25, T:0.12
Consensus pattern (16 bp):
GAGAAAAAAGTTGAAA
Found at i:49830076 original size:20 final size:20
Alignment explanation
Indices: 49830038--49830076 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
49830028 AGTATTATTT
*
49830038 TTAGGATATTTTTTATTTAC
1 TTAGGATATTTTGTATTTAC
49830058 TTAGGAATATTTTGT-TTTA
1 TTAGG-ATATTTTGTATTTA
49830077 TGCATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 9 0.53
21 8 0.47
ACGTcount: A:0.26, C:0.03, G:0.13, T:0.59
Consensus pattern (20 bp):
TTAGGATATTTTGTATTTAC
Found at i:49845256 original size:23 final size:23
Alignment explanation
Indices: 49845151--49845547 Score: 234
Period size: 23 Copynumber: 17.0 Consensus size: 23
49845141 AGCATATATA
* *
49845151 TATATACAAAATTGGACAACATT
1 TATATACAAAATTGGACAGCATG
* ** *
49845174 TATACACCAAAATTGGGTAGCATATA
1 TATATA-CAAAATTGGACAGC--ATG
* * * *
49845200 TATATACCAATTTGGATAACACT-
1 TATATACAAAATTGGACAGCA-TG
* * *
49845223 TATACATAAAATTTGACAGCATG
1 TATATACAAAATTGGACAGCATG
* * *
49845246 TATATACAAAATGGGCCAGCATT
1 TATATACAAAATTGGACAGCATG
** *
49845269 TAT-TCACCAAAATTGGGTAGCATT
1 TATAT-A-CAAAATTGGACAGCATG
* *
49845293 TATATACCAATTTGGACAGCACT-
1 TATATACAAAATTGGACAGCA-TG
* *
49845316 TATACACAAAATTTGACAGCATG
1 TATATACAAAATTGGACAGCATG
* *
49845339 TATATACAAAAAATGGACAGCATT
1 TATATAC-AAAATTGGACAGCATG
* * *
49845363 TAT-TCACCAAAATTGGGCCGCATA
1 TATAT-A-CAAAATTGGACAGCATG
* * *
49845387 TATATACCAATTTGGATAGCACT-
1 TATATACAAAATTGGACAGCA-TG
*
49845410 TATACACAAAAGTT-GACAGCATG
1 TATATACAAAA-TTGGACAGCATG
*
49845433 TATATACAAAATTGGACAGCATT
1 TATATACAAAATTGGACAGCATG
** *
49845456 TAT-TCACCAAAATTGGGTAGCATA
1 TATAT-A-CAAAATTGGACAGCATG
* *
49845480 TATATACCAATTTGGACAGCACT-
1 TATATACAAAATTGGACAGCA-TG
* **
49845503 TATACACAAAATTTAACAGCATG
1 TATATACAAAATTGGACAGCATG
49845526 TATATACAAAATTGGACAGCAT
1 TATATACAAAATTGGACAGCAT
49845548 TTAAGCATAA
Statistics
Matches: 283, Mismatches: 68, Indels: 46
0.71 0.17 0.12
Matches are distributed among these distances:
22 8 0.03
23 168 0.59
24 86 0.30
25 14 0.05
26 7 0.02
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.29
Consensus pattern (23 bp):
TATATACAAAATTGGACAGCATG
Found at i:49845431 original size:187 final size:188
Alignment explanation
Indices: 49845109--49845550 Score: 656
Period size: 187 Copynumber: 2.3 Consensus size: 188
49845099 ATCTACCTTG
* * * * *
49845109 TTTGGACAGCTCTTATACATTAGAAA-TTGAGCAGCATATATATATATACAAAATTGGACAACAT
1 TTTGGACAGCACTTATACA-CA-AAATTTGA-CAGCATGTATATACA-A-AAAA-TGGACAGCAT
* * *
49845173 TTATACACCAAAATTGGGTAGCATATATATATACCAATTTGGATAACACTTATACATAAAATTTG
60 TTATACACCAAAATTGGGCAGCA-ATATATATACCAATTTGGATAACACTTATACACAAAAGTTG
* *
49845238 ACAGCATGTATATACAAAATGGGCCAGCATTTATTCACCAAAATTGGGTAGCATTTATATACCAA
124 ACAGCATGTATATACAAAATGGGACAGCATTTATTCACCAAAATTGGGTAGCATATATATACCAA
*
49845303 TTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAAAATGGACAGCATTTATTC
1 TTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAAAATGGACAGCATTTATAC
* *
49845368 ACCAAAATTGGGCCGC-ATATATATACCAATTTGGATAGCACTTATACACAAAAGTTGACAGCAT
66 ACCAAAATTGGGCAGCAATATATATACCAATTTGGATAACACTTATACACAAAAGTTGACAGCAT
*
49845432 GTATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGTAGCATATATATACCAA
131 GTATATACAAAATGGGACAGCATTTATTCACCAAAATTGGGTAGCATATATATACCAA
* *
49845490 TTTGGACAGCACTTATACACAAAATTTAACAGCATGTATATAC-AAAATTGGACAGCATTTA
1 TTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAAAATGGACAGCATTTA
49845551 AGCATAAAAA
Statistics
Matches: 231, Mismatches: 16, Indels: 10
0.90 0.06 0.04
Matches are distributed among these distances:
186 17 0.07
187 142 0.61
189 28 0.12
190 4 0.02
191 1 0.00
192 16 0.07
193 5 0.02
194 18 0.08
ACGTcount: A:0.40, C:0.17, G:0.14, T:0.29
Consensus pattern (188 bp):
TTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAAAATGGACAGCATTTATAC
ACCAAAATTGGGCAGCAATATATATACCAATTTGGATAACACTTATACACAAAAGTTGACAGCAT
GTATATACAAAATGGGACAGCATTTATTCACCAAAATTGGGTAGCATATATATACCAA
Found at i:49845498 original size:70 final size:68
Alignment explanation
Indices: 49845151--49845540 Score: 252
Period size: 70 Copynumber: 5.6 Consensus size: 68
49845141 AGCATATATA
* * *
49845151 TATATACAAAATTGGACAACATTTATACACCAAAATTGGGTAGCATATATATATACCAATTTGGA
1 TATATACAAAATTGGACAGCATTTATATA-CAAAATTGGGTAGC--ATATATATACCAAATTGGA
* *
49845216 TAACACT
63 CAGCA-T
* * * * * * *
49845223 TATACATAAAATTTGACAGCATGTATATACAAAA-TGGGCCAGCATTTAT-TCACCAAAATTGGG
1 TATATACAAAATTGGACAGCATTTATATACAAAATTGGG-TAGCATATATAT-ACC-AAATTGGA
*
49845286 TAGCATT
63 CAGCA-T
* * * * * ** * * *
49845293 TATATACCAATTTGGACAGCACTTATACACAAAATTTGACAGCATGTATATACAAAAAATGGACA
1 TATATACAAAATTGGACAGCATTTATATACAAAATTGGGTAGCATATATATAC-CAAATTGGACA
49845358 GCAT
65 GCAT
* * * * * * * *
49845362 T-TATTCACCAAAATTGGGCCGCATATATATACCAATTTGGATAGCACT-TATACACAAAAGTT-
1 TATA-T-A-CAAAATTGGACAGCATTTATATACAAAATTGGGTAGCA-TATATATACCAAA-TTG
49845424 GACAGCAT
61 GACAGCAT
*
49845432 GTATATACAAAATTGGACAGCATTTAT-TCACCAAAATTGGGTAGCATATATATACCAATTTGGA
1 -TATATACAAAATTGGACAGCATTTATAT-A-CAAAATTGGGTAGCATATATATACCAAATTGGA
49845496 CAGCACT
63 CAGCA-T
* ** *
49845503 TATACACAAAATTTAACAGCATGTATATACAAAATTGG
1 TATATACAAAATTGGACAGCATTTATATACAAAATTGG
49845541 ACAGCATTTA
Statistics
Matches: 246, Mismatches: 53, Indels: 41
0.72 0.16 0.12
Matches are distributed among these distances:
68 4 0.02
69 41 0.17
70 126 0.51
71 49 0.20
72 26 0.11
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.29
Consensus pattern (68 bp):
TATATACAAAATTGGACAGCATTTATATACAAAATTGGGTAGCATATATATACCAAATTGGACAG
CAT
Found at i:49845562 original size:93 final size:93
Alignment explanation
Indices: 49845151--49845550 Score: 647
Period size: 93 Copynumber: 4.3 Consensus size: 93
49845141 AGCATATATA
* *
49845151 TATATACAAAATTGGACAACATTTATACACCAAAATTGGGTAGCATATATATATACCAATTTGGA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGTAGC--ATATATATACCAATTTGGA
* * *
49845216 TAACACTTATACATAAAATTTGACAGCATG
64 CAGCACTTATACACAAAATTTGACAGCATG
* * *
49845246 TATATACAAAATGGGCCAGCATTTATTCACCAAAATTGGGTAGCATTTATATACCAATTTGGACA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGTAGCATATATATACCAATTTGGACA
49845311 GCACTTATACACAAAATTTGACAGCATG
66 GCACTTATACACAAAATTTGACAGCATG
* ** *
49845339 TATATACAAAAAATGGACAGCATTTATTCACCAAAATTGGGCCGCATATATATACCAATTTGGAT
1 TATATAC-AAAATTGGACAGCATTTATTCACCAAAATTGGGTAGCATATATATACCAATTTGGAC
*
49845404 AGCACTTATACACAAAAGTTGACAGCATG
65 AGCACTTATACACAAAATTTGACAGCATG
49845433 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGTAGCATATATATACCAATTTGGACA
1 TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGTAGCATATATATACCAATTTGGACA
*
49845498 GCACTTATACACAAAATTTAACAGCATG
66 GCACTTATACACAAAATTTGACAGCATG
49845526 TATATACAAAATTGGACAGCATTTA
1 TATATACAAAATTGGACAGCATTTA
49845551 AGCATAAAAA
Statistics
Matches: 282, Mismatches: 22, Indels: 4
0.92 0.07 0.01
Matches are distributed among these distances:
93 157 0.56
94 85 0.30
95 40 0.14
ACGTcount: A:0.41, C:0.17, G:0.14, T:0.29
Consensus pattern (93 bp):
TATATACAAAATTGGACAGCATTTATTCACCAAAATTGGGTAGCATATATATACCAATTTGGACA
GCACTTATACACAAAATTTGACAGCATG
Found at i:49846395 original size:28 final size:28
Alignment explanation
Indices: 49846274--49846396 Score: 146
Period size: 28 Copynumber: 4.5 Consensus size: 28
49846264 TTTAATAAGT
** *
49846274 TCGCACACTTAGTGCTCAATAATCT-AAC
1 TCGCACACTTAGTGCTTTACAAT-TAAAC
*
49846302 TCGCACAC-T--TGCTTTACCATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
49846327 TCGCACACTTAGAGTTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
*
49846355 TCGCACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
49846383 TCGCACACTTAGTG
1 TCGCACACTTAGTG
49846397 TCGAAAGTCA
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
24 1 0.01
25 18 0.22
26 1 0.01
27 1 0.01
28 60 0.74
ACGTcount: A:0.31, C:0.26, G:0.11, T:0.32
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:49849074 original size:50 final size:50
Alignment explanation
Indices: 49849008--49849153 Score: 177
Period size: 50 Copynumber: 2.9 Consensus size: 50
49848998 GAAAATAGCA
* **
49849008 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* ** * * *
49849058 TGTCC-ATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTCGG
1 TG-CCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
* *
49849108 TGCCAACGCCATGTCCAAGACATGGTCTTACATGGGACCTCTCATA
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATA
49849154 ACCTCAATAA
Statistics
Matches: 80, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
49 2 0.03
50 76 0.95
51 2 0.03
ACGTcount: A:0.23, C:0.29, G:0.23, T:0.26
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATATCGG
Found at i:49849573 original size:29 final size:30
Alignment explanation
Indices: 49849540--49849597 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
49849530 TCATTGACTC
49849540 AAACTTTGGCAAAATTACA-ATTTTCCCCT
1 AAACTTTGGCAAAATTACACATTTTCCCCT
* * *
49849569 AAACTTTTGCAAATTTACACTTTTTCCCC
1 AAACTTTGGCAAAATTACACATTTTCCCC
49849598 AAAGCTCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.31, C:0.26, G:0.05, T:0.38
Consensus pattern (30 bp):
AAACTTTGGCAAAATTACACATTTTCCCCT
Found at i:49851646 original size:23 final size:24
Alignment explanation
Indices: 49851607--49851655 Score: 57
Period size: 23 Copynumber: 2.1 Consensus size: 24
49851597 GTCTCTCTCA
49851607 TTGATTATTATTATGTTGC-TTCT
1 TTGATTATTATTATGTTGCATTCT
* *
49851630 TTGATTTATT-TTCTGTTTCATTCT
1 TTGA-TTATTATTATGTTGCATTCT
49851654 TT
1 TT
49851656 AGTTAAATTA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
23 11 0.50
24 11 0.50
ACGTcount: A:0.14, C:0.10, G:0.10, T:0.65
Consensus pattern (24 bp):
TTGATTATTATTATGTTGCATTCT
Found at i:49851939 original size:6 final size:5
Alignment explanation
Indices: 49851911--49851936 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
49851901 TAATTTAGCC
49851911 TATTT TATTT TATTT TATTT TATTT T
1 TATTT TATTT TATTT TATTT TATTT T
49851937 TATATTTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (5 bp):
TATTT
Found at i:49851945 original size:29 final size:30
Alignment explanation
Indices: 49851913--49851969 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
49851903 ATTTAGCCTA
* *
49851913 TTTTATTTTATTTTA-TTTTATTTTTATAT
1 TTTTATTTTAGTTTAGTTTAATTTTTATAT
*
49851942 TTTTGTTTTAGTTTAGTTTAATTTTTAT
1 TTTTATTTTAGTTTAGTTTAATTTTTAT
49851970 GTTCTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 13 0.54
30 11 0.46
ACGTcount: A:0.19, C:0.00, G:0.05, T:0.75
Consensus pattern (30 bp):
TTTTATTTTAGTTTAGTTTAATTTTTATAT
Found at i:49851972 original size:24 final size:24
Alignment explanation
Indices: 49851918--49851972 Score: 58
Period size: 24 Copynumber: 2.3 Consensus size: 24
49851908 GCCTATTTTA
* * * *
49851918 TTTTATTTTATTTTATTTTTATAT
1 TTTTGTTTTAGTTTAGTTTAATAT
49851942 TTTTGTTTTAGTTTAGTTTAAT-T
1 TTTTGTTTTAGTTTAGTTTAATAT
49851965 TTTATGTT
1 TTT-TGTT
49851973 CTAATTTTTC
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
23 4 0.15
24 22 0.85
ACGTcount: A:0.18, C:0.00, G:0.07, T:0.75
Consensus pattern (24 bp):
TTTTGTTTTAGTTTAGTTTAATAT
Found at i:49855880 original size:14 final size:14
Alignment explanation
Indices: 49855861--49855895 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
49855851 CTTATATTGG
49855861 TAGTTTTTTATCAT
1 TAGTTTTTTATCAT
*
49855875 TAGTTTTTTATTAT
1 TAGTTTTTTATCAT
*
49855889 TTGTTTT
1 TAGTTTT
49855896 AATACTTTGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.17, C:0.03, G:0.09, T:0.71
Consensus pattern (14 bp):
TAGTTTTTTATCAT
Found at i:49857509 original size:20 final size:20
Alignment explanation
Indices: 49857467--49857506 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
49857457 AATACCACTG
*
49857467 ATTTTATTTTTTTATTTTTT
1 ATTTTATTGTTTTATTTTTT
49857487 ATTTTAGTTGTTTTATTTTT
1 ATTTTA-TTGTTTTATTTTT
49857507 ATTGTCTTAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.15, C:0.00, G:0.05, T:0.80
Consensus pattern (20 bp):
ATTTTATTGTTTTATTTTTT
Found at i:49857511 original size:14 final size:14
Alignment explanation
Indices: 49857475--49857511 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
49857465 TGATTTTATT
49857475 TTTTTATT-TTTTA
1 TTTTTATTGTTTTA
49857488 -TTTTAGTTGTTTTA
1 TTTTTA-TTGTTTTA
49857502 TTTTTATTGT
1 TTTTTATTGT
49857512 CTTAGACTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
12 5 0.24
13 2 0.10
14 9 0.43
15 5 0.24
ACGTcount: A:0.14, C:0.00, G:0.08, T:0.78
Consensus pattern (14 bp):
TTTTTATTGTTTTA
Found at i:49860882 original size:19 final size:18
Alignment explanation
Indices: 49860849--49860884 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
49860839 AATTGAACCA
49860849 ATTTTTGAAAACACAACG
1 ATTTTTGAAAACACAACG
*
49860867 ATTTTCTGAAATCACAAC
1 ATTTT-TGAAAACACAAC
49860885 TTAATCGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 5 0.31
19 11 0.69
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (18 bp):
ATTTTTGAAAACACAACG
Found at i:49862000 original size:49 final size:48
Alignment explanation
Indices: 49861928--49862037 Score: 132
Period size: 49 Copynumber: 2.3 Consensus size: 48
49861918 CGTGTGGTCC
* * *
49861928 ACATGGCCTACCACACGGTCTGCAATG-TTTCACATGGTCATGTGCTCT
1 ACATGGCCAACCACACGGGCTGCAA-GATTTCACACGGTCATGTGCTCT
* *
49861976 ACATGGCCAAGCCACACGGGCTGCAAGATTTCACACGGTCTTGTGCTTT
1 ACATGGCCAA-CCACACGGGCTGCAAGATTTCACACGGTCATGTGCTCT
* *
49862025 ACACGACCAACCA
1 ACATGGCCAACCA
49862038 ACACAGCCTA
Statistics
Matches: 53, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
48 13 0.25
49 40 0.75
ACGTcount: A:0.25, C:0.31, G:0.21, T:0.24
Consensus pattern (48 bp):
ACATGGCCAACCACACGGGCTGCAAGATTTCACACGGTCATGTGCTCT
Found at i:49864670 original size:17 final size:18
Alignment explanation
Indices: 49864648--49864681 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
49864638 GCACTAAAAA
49864648 TTCAACATTT-AATTTTT
1 TTCAACATTTAAATTTTT
49864665 TTCAACATTTAAATTTT
1 TTCAACATTTAAATTTT
49864682 CAGTTTATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.62
18 6 0.38
ACGTcount: A:0.32, C:0.12, G:0.00, T:0.56
Consensus pattern (18 bp):
TTCAACATTTAAATTTTT
Found at i:49865721 original size:5 final size:5
Alignment explanation
Indices: 49865711--49865740 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
49865701 ATACTTATTT
49865711 TTTTA TTTTA TTTTA TTTTTA TTTTA TTTT
1 TTTTA TTTTA TTTTA -TTTTA TTTTA TTTT
49865741 GTTGATATCT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:49865730 original size:11 final size:11
Alignment explanation
Indices: 49865711--49865740 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
49865701 ATACTTATTT
49865711 TTTTA-TTTTA
1 TTTTATTTTTA
49865721 TTTTATTTTTA
1 TTTTATTTTTA
49865732 TTTTATTTT
1 TTTTATTTT
49865741 GTTGATATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.26
11 14 0.74
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTATTTTTA
Found at i:49865731 original size:16 final size:16
Alignment explanation
Indices: 49865710--49865740 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
49865700 AATACTTATT
49865710 TTTTTATTTTATTTTA
1 TTTTTATTTTATTTTA
49865726 TTTTTATTTTATTTT
1 TTTTTATTTTATTTT
49865741 GTTGATATCT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTATTTTATTTTA
Found at i:49867967 original size:17 final size:19
Alignment explanation
Indices: 49867942--49867985 Score: 56
Period size: 17 Copynumber: 2.4 Consensus size: 19
49867932 TTAAAAGTAA
*
49867942 TTTTCAAAAAACAA-TAT-
1 TTTTTAAAAAACAACTATC
*
49867959 TTTTTAAAAAAGAACTATC
1 TTTTTAAAAAACAACTATC
49867978 TTTTTAAA
1 TTTTTAAA
49867986 GCAAATAAGT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 12 0.52
18 3 0.13
19 8 0.35
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (19 bp):
TTTTTAAAAAACAACTATC
Found at i:49877039 original size:29 final size:29
Alignment explanation
Indices: 49877002--49877062 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 29
49876992 TCCGACCCTT
* *
49877002 GGGGAAAAAT-GTAATTATGTAAAAGTTTA
1 GGGGAAAAATCATAATTATGAAAAAG-TTA
* *
49877031 GGGGCAAAATCATAATTTTGAAAAAGTTA
1 GGGGAAAAATCATAATTATGAAAAAGTTA
49877060 GGG
1 GGG
49877063 TTGAGGGCTG
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
29 15 0.56
30 12 0.44
ACGTcount: A:0.43, C:0.03, G:0.26, T:0.28
Consensus pattern (29 bp):
GGGGAAAAATCATAATTATGAAAAAGTTA
Found at i:49879051 original size:50 final size:50
Alignment explanation
Indices: 49878985--49879327 Score: 517
Period size: 50 Copynumber: 6.8 Consensus size: 50
49878975 ATTTGGGTAA
*
49878985 AGAGGTCCCATGTAAGACCATGTCTGGGACATGACATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
49879035 AGAGGTCTCATATAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
49879085 AGAGGTCCCATGTAAGACCATATCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
* *
49879135 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTAGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
49879185 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGTATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
49879235 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCA-TGGACACCGACATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGG-CACCGAGATG
** * * *
49879285 AGTACATCCTATGTAAGACCATGTCTGGTACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
49879328 TGTTATTATC
Statistics
Matches: 267, Mismatches: 23, Indels: 5
0.91 0.08 0.02
Matches are distributed among these distances:
49 3 0.01
50 232 0.87
51 29 0.11
52 3 0.01
ACGTcount: A:0.27, C:0.22, G:0.30, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:49890084 original size:14 final size:14
Alignment explanation
Indices: 49890065--49890093 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
49890055 CTTCAGGTTA
49890065 AGCCGTCATGGATT
1 AGCCGTCATGGATT
49890079 AGCCGTCATGGATT
1 AGCCGTCATGGATT
49890093 A
1 A
49890094 AGCAGATTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.28
Consensus pattern (14 bp):
AGCCGTCATGGATT
Found at i:49899798 original size:24 final size:24
Alignment explanation
Indices: 49899770--49899821 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
49899760 TTTCTAGAAG
* * *
49899770 ATTTAGTATTTATTAGTATAATAT
1 ATTTAGAATTTATAAGCATAATAT
*
49899794 ATTTAGAATTTATAAGCATAATTT
1 ATTTAGAATTTATAAGCATAATAT
49899818 ATTT
1 ATTT
49899822 GACCTACGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.02, G:0.08, T:0.52
Consensus pattern (24 bp):
ATTTAGAATTTATAAGCATAATAT
Found at i:49901440 original size:33 final size:31
Alignment explanation
Indices: 49901377--49901440 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
49901367 AAATGTTACG
* *
49901377 TTTTAGTCACTTATGTTAATGTGTTGTAACA
1 TTTTAGTCACTGATGTTAATGTGTCGTAACA
49901408 TTTTAGTCACTGAGTCGTTAAT-TGTCGTTAACA
1 TTTTAGTCACTGA-T-GTTAATGTGTCG-TAACA
49901441 GTGTAACAGT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 12 0.43
32 5 0.18
33 11 0.39
ACGTcount: A:0.25, C:0.12, G:0.17, T:0.45
Consensus pattern (31 bp):
TTTTAGTCACTGATGTTAATGTGTCGTAACA
Found at i:49904217 original size:28 final size:29
Alignment explanation
Indices: 49904186--49904241 Score: 69
Period size: 28 Copynumber: 2.0 Consensus size: 29
49904176 TATTATTATT
*
49904186 TATATAAATATATAAATTA-ATTATAAAG
1 TATATAAATAAATAAATTACATTATAAAG
* * *
49904214 TATATTATTAAATTAATTACATTATAAA
1 TATATAAATAAATAAATTACATTATAAA
49904242 TATTATATTA
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
28 15 0.65
29 8 0.35
ACGTcount: A:0.54, C:0.02, G:0.02, T:0.43
Consensus pattern (29 bp):
TATATAAATAAATAAATTACATTATAAAG
Found at i:49905598 original size:3 final size:3
Alignment explanation
Indices: 49905584--49905622 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
49905574 GTAAGTATAA
* *
49905584 TAT TAG TAT TAT TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49905623 GAGTGGGAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:49905604 original size:15 final size:15
Alignment explanation
Indices: 49905584--49905618 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
49905574 GTAAGTATAA
49905584 TATTAGTATTATTAT
1 TATTAGTATTATTAT
49905599 TATTAGTATTATTAT
1 TATTAGTATTATTAT
49905614 TATTA
1 TATTA
49905619 TTATGAGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.34, C:0.00, G:0.06, T:0.60
Consensus pattern (15 bp):
TATTAGTATTATTAT
Found at i:49906034 original size:37 final size:39
Alignment explanation
Indices: 49905975--49906070 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
49905965 CGGATAGATT
* * * *
49905975 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
49906012 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
49906051 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
49906071 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Found at i:49912076 original size:24 final size:24
Alignment explanation
Indices: 49912052--49912132 Score: 87
Period size: 24 Copynumber: 3.4 Consensus size: 24
49912042 TTTTTATATT
*
49912052 ATTATTTATATAAATATATAAATTA
1 ATTATATATATAAATAT-TAAATTA
* *
49912077 ATTATAAAGTAT-ATTATTAAATTA
1 ATTATATA-TATAAATATTAAATTA
*
49912101 ATTATAT-TATAAATATTATATT-
1 ATTATATATATAAATATTAAATTA
49912123 ATTATATATA
1 ATTATATATA
49912133 AAAGAAACAA
Statistics
Matches: 47, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
22 10 0.21
23 11 0.23
24 13 0.28
25 10 0.21
26 3 0.06
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.49
Consensus pattern (24 bp):
ATTATATATATAAATATTAAATTA
Found at i:49912084 original size:11 final size:11
Alignment explanation
Indices: 49912068--49912106 Score: 51
Period size: 11 Copynumber: 3.4 Consensus size: 11
49912058 TATATAAATA
49912068 TATAAATTAAT
1 TATAAATTAAT
*
49912079 TATAAAGTATAT
1 TATAAATTA-AT
49912091 TATTAAATTAAT
1 TA-TAAATTAAT
49912103 TATA
1 TATA
49912107 TTATAAATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 10 0.42
12 8 0.33
13 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (11 bp):
TATAAATTAAT
Found at i:49912108 original size:17 final size:15
Alignment explanation
Indices: 49912051--49912131 Score: 60
Period size: 15 Copynumber: 5.2 Consensus size: 15
49912041 ATTTTTATAT
49912051 TATTAT-TTATATAAA
1 TATTATATTAT-TAAA
*
49912066 TATATAAATTAATTATAA
1 TAT-TATATT-ATTA-AA
*
49912084 -AGTATATTATTAAA
1 TATTATATTATTAAA
49912098 TTAATTATATTA-TAAA
1 -T-ATTATATTATTAAA
*
49912114 TATTATATTATTATA
1 TATTATATTATTAAA
49912129 TAT
1 TAT
49912132 AAAAGAAACA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
14 11 0.21
15 14 0.26
16 11 0.21
17 13 0.25
18 4 0.08
ACGTcount: A:0.48, C:0.00, G:0.01, T:0.51
Consensus pattern (15 bp):
TATTATATTATTAAA
Found at i:49912118 original size:14 final size:16
Alignment explanation
Indices: 49912086--49912124 Score: 55
Period size: 14 Copynumber: 2.5 Consensus size: 16
49912076 AATTATAAAG
49912086 TATATTATTAAATTAAT
1 TATATTA-TAAATTAAT
49912103 TATATTATAAA-T-AT
1 TATATTATAAATTAAT
49912117 TATATTAT
1 TATATTAT
49912125 TATATATAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 10 0.45
15 1 0.05
16 4 0.18
17 7 0.32
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (16 bp):
TATATTATAAATTAAT
Found at i:49913468 original size:3 final size:3
Alignment explanation
Indices: 49913460--49913500 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
49913450 AGGTAAGTAA
* *
49913460 TAT TAT TAT TAA T-T TAT TAT TAG TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
49913501 GAGTGGGAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
2 1 0.03
3 32 0.97
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.63
Consensus pattern (3 bp):
TAT
Found at i:49913685 original size:24 final size:27
Alignment explanation
Indices: 49913643--49913711 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 27
49913633 TGTTAATTGT
*
49913643 GAAATTAATTATTG-ATTGAAAG-GTG-
1 GAAA-TAATGATTGAATTGAAAGTGTGA
49913668 GAAA-AATGATTGAATTGAAAGTGTGA
1 GAAATAATGATTGAATTGAAAGTGTGA
**
49913694 GAAATTGTGATTGAATTG
1 GAAATAATGATTGAATTG
49913712 GGATTATATG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
23 7 0.19
24 8 0.22
25 7 0.19
26 4 0.11
27 11 0.30
ACGTcount: A:0.41, C:0.00, G:0.26, T:0.33
Consensus pattern (27 bp):
GAAATAATGATTGAATTGAAAGTGTGA
Found at i:49913915 original size:37 final size:39
Alignment explanation
Indices: 49913856--49913951 Score: 108
Period size: 39 Copynumber: 2.5 Consensus size: 39
49913846 CGGATAGATT
* * * *
49913856 CGATGAGGTACTGGGTACCAACT-TT-CTTCG-GCTTTGC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTAT-C
* *
49913893 CGATGAGACACTGGGTGTCAACTATTGCTTCGAACTATC
1 CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
49913932 CGATGAGGCACTGGGTGCCA
1 CGATGAGGCACTGGGTGCCA
49913952 TTCTGGTGTG
Statistics
Matches: 48, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
37 19 0.40
38 2 0.04
39 24 0.50
40 3 0.06
ACGTcount: A:0.21, C:0.24, G:0.28, T:0.27
Consensus pattern (39 bp):
CGATGAGGCACTGGGTGCCAACTATTGCTTCGAACTATC
Done.