Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 307 of 333
Found at i:100715985 original size:24 final size:24
Alignment explanation
Indices: 100715878--100715999 Score: 90
Period size: 25 Copynumber: 5.0 Consensus size: 24
100715868 AGGAAGTGCT
*
100715878 AAAAG-GGCTTTGCCCCAGTTTACC
1 AAAAGAGGCTTTGCCCCAG-TTATC
* * *
100715902 GAAAAG-GACTTTACCCCAGTTTACC
1 -AAAAGAGGCTTTGCCCCAG-TTATC
100715927 GAAAAG-GGCTTTGCCCCAGTTTATC
1 -AAAAGAGGCTTTGCCCCAG-TTATC
*
100715952 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
100715976 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
100716000 ATGATAAAGT
Statistics
Matches: 85, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
24 19 0.22
25 66 0.78
ACGTcount: A:0.29, C:0.25, G:0.21, T:0.25
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:100720315 original size:19 final size:21
Alignment explanation
Indices: 100720283--100720324 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
100720273 GAGTGCCAAG
100720283 TGTGTGATAAAAATAA-GTACA
1 TGTGTGAT-AAAATAATGTACA
100720304 TGTGTGAT-AAATAATGTACA
1 TGTGTGATAAAATAATGTACA
100720324 T
1 T
100720325 ACATTTGTAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 6 0.30
20 6 0.30
21 8 0.40
ACGTcount: A:0.43, C:0.05, G:0.19, T:0.33
Consensus pattern (21 bp):
TGTGTGATAAAATAATGTACA
Found at i:100720597 original size:5 final size:5
Alignment explanation
Indices: 100720539--100720584 Score: 76
Period size: 5 Copynumber: 9.2 Consensus size: 5
100720529 TTGGTATAAT
100720539 TATTA -ATTAA TATTA TATTA TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATT-A TATTA TATTA TATTA TATTA TATTA TATTA TATTA T
100720585 GAAATAAATT
Statistics
Matches: 39, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
4 3 0.08
5 33 0.85
6 3 0.08
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:100720889 original size:15 final size:16
Alignment explanation
Indices: 100720864--100720911 Score: 57
Period size: 15 Copynumber: 3.2 Consensus size: 16
100720854 AAAGTAAAAC
100720864 AAAAGAAAAAGAAATG
1 AAAAGAAAAAGAAATG
*
100720880 AAAA-AAAAAGATA-G
1 AAAAGAAAAAGAAATG
*
100720894 AAAAGAAACAG-AATG
1 AAAAGAAAAAGAAATG
100720909 AAA
1 AAA
100720912 CAAAACAGAG
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
14 6 0.22
15 17 0.63
16 4 0.15
ACGTcount: A:0.75, C:0.02, G:0.17, T:0.06
Consensus pattern (16 bp):
AAAAGAAAAAGAAATG
Found at i:100722337 original size:20 final size:21
Alignment explanation
Indices: 100722314--100722362 Score: 66
Period size: 20 Copynumber: 2.4 Consensus size: 21
100722304 AATTATATTG
100722314 AATTGAAAAAAAATAT-AATT
1 AATTGAAAAAAAATATGAATT
**
100722334 AATT-AATTAAAATATGAATT
1 AATTGAAAAAAAATATGAATT
100722354 AATTGAAAA
1 AATTGAAAA
100722363 CTGAAAAGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 9 0.39
20 12 0.52
21 2 0.09
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (21 bp):
AATTGAAAAAAAATATGAATT
Found at i:100722609 original size:47 final size:48
Alignment explanation
Indices: 100722543--100722659 Score: 161
Period size: 47 Copynumber: 2.5 Consensus size: 48
100722533 GATATTGTTA
100722543 CTGT-TACCGTTACTGTTACTGTTTCAG-ATTTGTTC-GAATGAGGTACT
1 CTGTGTACCG-TACTGTTACTGTTTCAGAATTTGTTCTG-ATGAGGTACT
*
100722590 CTGTGTACCGTACTGTTACTG-TTCCGAATTTGTTCTGATGAGGTACT
1 CTGTGTACCGTACTGTTACTGTTTCAGAATTTGTTCTGATGAGGTACT
* *
100722637 CTGTGTACCGTATTGCTACTGTT
1 CTGTGTACCGTACTGTTACTGTT
100722660 ACTGTTACTA
Statistics
Matches: 63, Mismatches: 3, Indels: 7
0.86 0.04 0.10
Matches are distributed among these distances:
46 4 0.06
47 52 0.83
48 7 0.11
ACGTcount: A:0.17, C:0.19, G:0.22, T:0.42
Consensus pattern (48 bp):
CTGTGTACCGTACTGTTACTGTTTCAGAATTTGTTCTGATGAGGTACT
Found at i:100722851 original size:18 final size:18
Alignment explanation
Indices: 100722786--100722871 Score: 91
Period size: 18 Copynumber: 4.7 Consensus size: 18
100722776 GAAGATCGAC
* *
100722786 TGTTACTGAATAATTTAAT
1 TGTTACTGAATAA-CTGAT
*
100722805 TGTTACTCAATAACTGAT
1 TGTTACTGAATAACTGAT
* * *
100722823 TATTATTGAATAATTGAT
1 TGTTACTGAATAACTGAT
* *
100722841 TGTTACCGAATAACTGAC
1 TGTTACTGAATAACTGAT
100722859 TGTTACTGAATAA
1 TGTTACTGAATAA
100722872 ATAATCGTTC
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
18 42 0.78
19 12 0.22
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (18 bp):
TGTTACTGAATAACTGAT
Found at i:100722853 original size:36 final size:37
Alignment explanation
Indices: 100722783--100722871 Score: 110
Period size: 36 Copynumber: 2.4 Consensus size: 37
100722773 CTGGAAGATC
*
100722783 GACTGTTACTGAATAATTTAATTGTTACTCAATAACT
1 GACTATTACTGAATAATTTAATTGTTACTCAATAACT
* * *
100722820 GATTATTATTGAATAA-TTGATTGTTAC-CGAATAACT
1 GACTATTACTGAATAATTTAATTGTTACTC-AATAACT
*
100722856 GACTGTTACTGAATAA
1 GACTATTACTGAATAA
100722872 ATAATCGTTC
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
35 1 0.02
36 30 0.68
37 13 0.30
ACGTcount: A:0.36, C:0.11, G:0.13, T:0.39
Consensus pattern (37 bp):
GACTATTACTGAATAATTTAATTGTTACTCAATAACT
Found at i:100724125 original size:178 final size:178
Alignment explanation
Indices: 100723812--100724893 Score: 1433
Period size: 178 Copynumber: 6.1 Consensus size: 178
100723802 GTGAATTCAC
* * * * * *
100723812 AGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATTGAATACAGTGAATCTTATCTTCCCGAGGT
1 AGATCTCATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGGT
* *
100723877 AGCAGGGGAGTC-GATTTTAGCCACTAGCCTTATTTCCCTAAGGTAGCAATGGAGCAGGCTGAAG
66 AGCAGGGGAG-CAGATTTTAGCCACTAGCCTTATCTCCCTAAGGTAGCAAAGGAGCAGGCTGAAG
* * * *
100723941 ATTGTGGTTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTAA
130 ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
**
100723990 AGATCTCATCTCTTTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGGT
1 AGATCTCATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGGT
* * * *
100724055 AGTAGGGGAGCAGATTTTAGTCACTAGCCTTATCTCCATGAGGTAGCAAAGGAGCAGGCTGAAGA
66 AGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGTAGCAAAGGAGCAGGCTGAAGA
*
100724120 TTGTGGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
131 TTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
*
100724168 AGATCTCATCTCCCTGAGATAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTT-TCCGAGG
1 AGATCTCATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCT-CGAGG
* * * *
100724232 TAGCAAGGGAGCAGATTTTAGCCACTAGCCTTCTCTCCCTGAGGTAGCAAGGGAGCAGGCTGAAG
65 TAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGTAGCAAAGGAGCAGGCTGAAG
* * *
100724297 ATTGTAGTCTTATCTTCCTGAGGCAGCAAGGAAGAAGATTGAAGATTGA
130 ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
* * *
100724346 AGATCTCATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACAGTGAATCTTATCTTC-CTAAGG
1 AGATCTCATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCTC-GAGG
* *
100724410 TAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGTAG-TAAGAGAGCAGGCCGAA
65 TAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGTAGCAAAG-GAGCAGGCTGAA
** * * *
100724474 GATTGTAG-AATATCTTCTTGAAGTAGCAAGGAAGTAGACTGAAGATTGA
129 GATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
* * * * * * *
100724523 AGATCTTACCTCCCTAAGATGGCAGTGGAGCAGATCGAAGATGACGAATCCTATCTT-TCCGAGG
1 AGATCTCATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCT-CGAGG
* **
100724587 TAGCAGGGGAGCAGATTTTAGCTACTAGCCTTATCTCCCTAAGGTAGC-AAGAGAGCAGATTGAA
65 TAGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGTAGCAAAG-GAGCAGGCTGAA
* * * ** *
100724651 GATTGTAGTCTTATCTTCCTCAGATAGCAAGAAAATAGAATGAAGATTGA
129 GATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
* * *
100724701 AGATCTCATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCGACTCTTATTTTCCCGAGGT
1 AGATCTCATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGGT
* * * *
100724766 AGCAGGGGAGCAGATTTTAGCCATTAGCCTTATCTCCCTGAGGTAACAAGGGAGCAGG-TCGAAG
66 AGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGTAGCAAAGGAGCAGGCT-GAAG
* * * * * * *
100724830 GTTGTAGTCTTATCTCCCTGAGGTAGCAATGAAGCAAACTGAAAATGGT
130 ATTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
*
100724879 AGATCTTATCTCCCT
1 AGATCTCATCTCCCT
100724894 AAAGTTGCAG
Statistics
Matches: 792, Mismatches: 100, Indels: 24
0.86 0.11 0.03
Matches are distributed among these distances:
177 158 0.20
178 632 0.80
179 2 0.00
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (178 bp):
AGATCTCATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGGT
AGCAGGGGAGCAGATTTTAGCCACTAGCCTTATCTCCCTAAGGTAGCAAAGGAGCAGGCTGAAGA
TTGTAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGA
Found at i:100724131 original size:44 final size:44
Alignment explanation
Indices: 100724083--100724424 Score: 158
Period size: 45 Copynumber: 7.7 Consensus size: 44
100724073 AGTCACTAGC
*
100724083 CTTATC-TCCATGAGGTAGCAAAGG-AGCAGGCTGAAGATTGTGGT
1 CTTATCTTCC-TGAGGTAGC-AAGGAAGCAGACTGAAGATTGTGGT
* *
100724127 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGAT
1 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG-TGGT
* * * * * ** * *
100724172 CTCATCTCCCTGAGATAG-TAGTGGAGCAGA-TCGAAGACGGCGAAT
1 CTTATCTTCCTGAGGTAGCAAG-GAAGCAGACT-GAAGATTGTG-GT
* * ** **** * *
100724217 CTTATCTTTCC-GAGGTAGCAAGGGAGCAGATTTTAGCCACTAGC
1 CTTATC-TTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTGGT
* * * * *
100724261 CTTCTCTCCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGT
1 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTGGT
* * * * *
100724305 CTTATCTTCCTGAGGCAGCAAGGAAGAAGATTGAAGATTGAAGAT
1 CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTG-TGGT
* * * * ** *
100724350 CTCATCTCCCTGAGATAGC-AGTGGAGCAGA-TCGAAGACAGTGAAT
1 CTTATCTTCCTGAGGTAGCAAG-GAAGCAGACT-GAAGATTGTG-GT
* * *
100724395 CTTATCTTCCTAAGGTAGCAGGGGAGCAGA
1 CTTATCTTCCTGAGGTAGCAAGGAAGCAGA
100724425 TTTTAGCCAC
Statistics
Matches: 224, Mismatches: 59, Indels: 29
0.72 0.19 0.09
Matches are distributed among these distances:
43 7 0.03
44 100 0.45
45 110 0.49
46 7 0.03
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (44 bp):
CTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAGATTGTGGT
Found at i:100724892 original size:533 final size:534
Alignment explanation
Indices: 100723812--100724893 Score: 1570
Period size: 533 Copynumber: 2.0 Consensus size: 534
100723802 GTGAATTCAC
* * *
100723812 AGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATTGAATACAGTGAATCTTATCTTCCCGAGGT
1 AGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACAGTGAATCTTATCTTCCCAAGGT
* *
100723877 AGCAGGGGAGTCGATTTTAGCCACTAGCCTTATTTCCCTAAGGTAGCAATGGAGCAGGCTGAAGA
66 AGCAGGGGAGTCGATTTTAGCCACTAGCCTTATCTCCCTAAGGTAGCAATGGAGCAGGCCGAAGA
* ** * * * ** *
100723942 TTGTGGTTTTATCTTCCTGAGGTAGCAAGGAAGCAGATTGAAGATTAAAGATCTCATCTCTTTGA
131 TTGTAGTAATATCTTCCTGAAGTAGCAAGGAAGCAGACTGAAGATTAAAGATCTCACCTCCCTAA
* * *
100724007 GATAGCAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTCTCGAGGTAGTAGGGGAGCAGATTT
196 GATAGCAGTGGAGCAGATCGAAGACGACGAATCCTATCTTCTCGAGGTAGCAGGGGAGCAGATTT
* * *
100724072 TAGTCACTAGCCTTATCTCCATGAGGTAGCAAAGGAGCAGGCTGAAGATTGTGGTCTTATCTTCC
261 TAGTCACTAGCCTTATCTCCATAAGGTAGCAAAGGAGCAGACTGAAGATTGTAGTCTTATCTTCC
* * * * * *
100724137 TGAGGTAGCAAGGAAGCAGACTGAAGATTGAAGATCTCATCTCCCTGAGATAGTAGTGGAGCAGA
326 TCAGATAGCAAGAAAACAGAATGAAGATTGAAGATCTCATCTCCCTGAGATAGCAGTGGAGCAGA
*
100724202 TCGAAGACGGCGAATCTTATCTTTCCGAGGTAGCAAGGGAGCAGATTTTAGCCACTAGCCTTCTC
391 TCGAAGACGGCGAATCTTATCTTTCCGAGGTAGCAAGGGAGCAGATTTTAGCCACTAGCCTTATC
* *
100724267 TCCCTGAGGTAGCAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTTCCTGAGGCAGCAAGGAAGA
456 TCCCTGAGGTAACAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTCCCTGAGGCAGCAAGGAAGA
* * *
100724332 AGATTGAAGATTGA
521 AGACTGAAAATGGA
* *
100724346 AGATCTCATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACAGTGAATCTTATCTTCCTAAGGT
1 AGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACAGTGAATCTTATCTTCCCAAGGT
*
100724411 AGCAGGGGAG-CAGATTTTAGCCACTAGCCTTATCTCCCTAAGGTAGTAA-GAGAGCAGGCCGAA
66 AGCAGGGGAGTC-GATTTTAGCCACTAGCCTTATCTCCCTAAGGTAGCAATG-GAGCAGGCCGAA
* * * *
100724474 GATTGTAG-AATATCTTCTTGAAGTAGCAAGGAAGTAGACTGAAGATTGAAGATCTTACCTCCCT
129 GATTGTAGTAATATCTTCCTGAAGTAGCAAGGAAGCAGACTGAAGATTAAAGATCTCACCTCCCT
* *
100724538 AAGATGGCAGTGGAGCAGATCGAAGATGACGAATCCTATCTT-TCCGAGGTAGCAGGGGAGCAGA
194 AAGATAGCAGTGGAGCAGATCGAAGACGACGAATCCTATCTTCT-CGAGGTAGCAGGGGAGCAGA
* *
100724602 TTTTAG-CTACTAGCCTTATCTCCCTAAGGTAGC-AAGAGAGCAGATTGAAGATTGTAGTCTTAT
258 TTTTAGTC-ACTAGCCTTATCTCCATAAGGTAGCAAAG-GAGCAGACTGAAGATTGTAGTCTTAT
*
100724665 CTTCCTCAGATAGCAAGAAAATAGAATGAAGATTGAAGATCTCATCTCCCTGAGATAGCAGTGGA
321 CTTCCTCAGATAGCAAGAAAACAGAATGAAGATTGAAGATCTCATCTCCCTGAGATAGCAGTGGA
* * *
100724730 GCAGATCGAAGACGGCGACTCTTAT-TTTCCCGAGGTAGCAGGGGAGCAGATTTTAGCCATTAGC
386 GCAGATCGAAGACGGCGAATCTTATCTTT-CCGAGGTAGCAAGGGAGCAGATTTTAGCCACTAGC
* *
100724794 CTTATCTCCCTGAGGTAACAAGGGAGCAGG-TCGAAGGTTGTAGTCTTATCTCCCTGAGGTAGCA
450 CTTATCTCCCTGAGGTAACAAGGGAGCAGGCT-GAAGATTGTAGTCTTATCTCCCTGAGGCAGCA
* *
100724858 ATGAAGCAA-ACTGAAAATGGT
514 AGGAAG-AAGACTGAAAATGGA
100724879 AGATCTTATCTCCCT
1 AGATCTTATCTCCCT
100724894 AAAGTTGCAG
Statistics
Matches: 488, Mismatches: 52, Indels: 17
0.88 0.09 0.03
Matches are distributed among these distances:
532 9 0.02
533 354 0.73
534 125 0.26
ACGTcount: A:0.29, C:0.19, G:0.27, T:0.26
Consensus pattern (534 bp):
AGATCTTATCTCCCTGAGATAGCAGTGGAGCAGATCGAAGACAGTGAATCTTATCTTCCCAAGGT
AGCAGGGGAGTCGATTTTAGCCACTAGCCTTATCTCCCTAAGGTAGCAATGGAGCAGGCCGAAGA
TTGTAGTAATATCTTCCTGAAGTAGCAAGGAAGCAGACTGAAGATTAAAGATCTCACCTCCCTAA
GATAGCAGTGGAGCAGATCGAAGACGACGAATCCTATCTTCTCGAGGTAGCAGGGGAGCAGATTT
TAGTCACTAGCCTTATCTCCATAAGGTAGCAAAGGAGCAGACTGAAGATTGTAGTCTTATCTTCC
TCAGATAGCAAGAAAACAGAATGAAGATTGAAGATCTCATCTCCCTGAGATAGCAGTGGAGCAGA
TCGAAGACGGCGAATCTTATCTTTCCGAGGTAGCAAGGGAGCAGATTTTAGCCACTAGCCTTATC
TCCCTGAGGTAACAAGGGAGCAGGCTGAAGATTGTAGTCTTATCTCCCTGAGGCAGCAAGGAAGA
AGACTGAAAATGGA
Found at i:100729194 original size:51 final size:51
Alignment explanation
Indices: 100729116--100729236 Score: 179
Period size: 51 Copynumber: 2.3 Consensus size: 51
100729106 TCTTACATTG
**
100729116 ATCACATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTTTCACTT
1 ATCAC-TTT-TCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTT
*
100729169 ATCACTTTTCACTTGTCACTGATCAGATAAGTGTAGCTAAAGCTACCACTT
1 ATCACTTTTCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTT
* *
100729220 ATCACTTGTCGCTTGTC
1 ATCACTTTTCACTTGTC
100729237 GCTTGTCACT
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 55 0.87
52 3 0.05
53 5 0.08
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.36
Consensus pattern (51 bp):
ATCACTTTTCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTT
Found at i:100737083 original size:40 final size:40
Alignment explanation
Indices: 100737039--100737132 Score: 161
Period size: 40 Copynumber: 2.4 Consensus size: 40
100737029 GCTATGTTTG
*
100737039 GCACTTAGTGTGTGCTTCGAGACAGCTTCGGCTATATACA
1 GCACTTAGTGTGCGCTTCGAGACAGCTTCGGCTATATACA
* *
100737079 GCACTTAGTGTGCGCTTCGAGATAGCTTTGGCTATATACA
1 GCACTTAGTGTGCGCTTCGAGACAGCTTCGGCTATATACA
100737119 GCACTTAGTGTGCG
1 GCACTTAGTGTGCG
100737133 AATTGGAATA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
40 51 1.00
ACGTcount: A:0.21, C:0.21, G:0.27, T:0.31
Consensus pattern (40 bp):
GCACTTAGTGTGCGCTTCGAGACAGCTTCGGCTATATACA
Found at i:100737144 original size:40 final size:40
Alignment explanation
Indices: 100737039--100737147 Score: 148
Period size: 40 Copynumber: 2.7 Consensus size: 40
100737029 GCTATGTTTG
* * *
100737039 GCACTTAGTGTGTGCTTCGAGACAGCTTCGGCTATATACA
1 GCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATACA
* *
100737079 GCACTTAGTGTGCGCTTCGAGATAGCTTTGGCTATATACA
1 GCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATACA
*
100737119 GCACTTAGTGTGCGAATTGGA-ATAGCTTC
1 GCACTTAGTGTGCG-ATTCGAGATAGCTTC
100737148 AGTTTTATGT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
40 58 0.94
41 4 0.06
ACGTcount: A:0.23, C:0.20, G:0.26, T:0.31
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTCGAGATAGCTTCGGCTATATACA
Found at i:100740054 original size:44 final size:44
Alignment explanation
Indices: 100739988--100741061 Score: 656
Period size: 44 Copynumber: 23.5 Consensus size: 44
100739978 ATGAAGAATA
* * * ** *
100739988 TTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAGCCAAAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATC
* *
100740032 TTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGTTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATC
* * *
100740076 TTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGATACAAGTTGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT---A----CAAATC
* * * * *
100740127 TTATCCCCCTGAAGTTGTAGTCGAGTAGATTGAAGATAGTAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATC
* **
100740172 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAAATAGTGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATC
** * * **
100740217 TTATCTCTTTGAAGTTGCAATGGAGCAGATTAAAGCCACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATC
* * * *
100740261 TTATCTCCCTAAAATTACAGTGGAGCAGATTGAAGTTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATC
* * * *
100740305 TTATCTCTCTGAAGTTGTAGTGGAGCAGAATAAAGATAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATC
* * * *
100740350 TTATCTCTCTAAAGTTGCTGTGGAGCAGATTGAAGTTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATC
* ***
100740394 CTATAC-CCCTGAAGTTGCAGTGG-G-ACGAATTGAAGTCATTGTGGTGAATC
1 TTAT-CTCCCTGAAGTTGCAGTGGAGCA-G-ATTGAAG--A---T-ACAAATC
* * * * * *
100740444 TTATCTCCCTGAAGTTGCAGTGAAGTAGATTAAAGTTAAAAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATC
* *
100740488 ATATCTCCCTGAAGTTGCAGTGGAGCAGATTGTAGATAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATC
* * *
100740533 TTATCTTCCTGAAGTTGCAGTGAAGC-GAGTTGAAGCTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATACAAATC
* * ** * *
100740577 TTATTTCCCTAAAGTTGCAGTGGAAAAAAATTAAAGCTACAAGTTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGG-AGCAGATT---G----AAGATACAAATC
* ** ** * *
100740629 TTATCTCTCTGAAGTTATAGTGGAATAGATTAAATATAGCAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATC
* * * *
100740674 TTATTTCCCT-AATGTTGCAGTGGAACAAATTAAAGCTTCAAGTTACAAATC
1 TTATCTCCCTGAA-GTTGCAGTGGAGCAGATT---G----AAGATACAAATC
* * * * * *
100740725 TTATATTCTTGAAGTTGCAGTGGAACAGATTGAAG-T--GAACC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATC
** * * *
100740766 TTATCTCTTTGAAGTTGCTGTGGAGCAGGTTGAAGCTACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATC
* **
100740810 TTATTTCCCTGAAGTTGCAGTGGAATAGATAAAAGCTGCAAG-TCACAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGAT------TG-AAGAT-ACAAATC
* * * *
100740861 TTATTTCCCTGAAGTTGCATTGGAGTAGATTGAAGATAATAAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACAAATC
* * * * ** *
100740906 TTATCTCCATGAAGTTGTAGTGGAGTAGATTGAAGGTAGTGAATA
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CAAATC
** * **
100740951 TTATCTCCCTGAAGTTGCAGCAGAGCAAATTGAAGATATGAATC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATC
* * * * * * *
100740995 TCATCTCTCTGAGGTTGGAGCGGAGTAGATTGAA-ATTACAATTC
1 TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-TACAAATC
* * *
100741039 CTATATCCCTGAAGTTCCAGTGG
1 TTATCTCCCTGAAGTTGCAGTGG
100741062 GTTAGAATTG
Statistics
Matches: 805, Mismatches: 170, Indels: 110
0.74 0.16 0.10
Matches are distributed among these distances:
41 32 0.04
42 2 0.00
43 4 0.00
44 323 0.40
45 257 0.32
46 1 0.00
47 1 0.00
48 3 0.00
49 2 0.00
50 32 0.04
51 112 0.14
52 36 0.04
ACGTcount: A:0.33, C:0.16, G:0.21, T:0.30
Consensus pattern (44 bp):
TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACAAATC
Found at i:100740140 original size:51 final size:48
Alignment explanation
Indices: 100740064--100740988 Score: 408
Period size: 45 Copynumber: 20.0 Consensus size: 48
100740054 GAGCAGATTG
* *
100740064 AAGTTACAAATCTTATTTCCCTGAAGTTGCAGTGGAACAGATTAAAGAT
1 AAGTT-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * *
100740113 ACAAGTTGCAAATCTTATCCCCCTGAAGTTGTAGTCGAGTAGATTGAAGAT
1 --AAGTT-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
100740164 -AG-T-AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAA-AT
1 AAGTTCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT-AAAGAT
* ** * *
100740209 -AG-T-GAATCTTATCTCTTTGAAGTTGCAATGGAGCAGATTAAAG-C
1 AAGTTCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * *
100740253 CA---CAAATCTTATCTCCCTAAAATTACAGTGGAGCAGATT---G--
1 AAGTTCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * *
100740293 AAGTTACAAATCTTATCTCTCTGAAGTTGTAGTGGAGCAGAATAAAGAT
1 AAGTT-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * *
100740342 -AG--CAAATCTTATCTCTCTAAAGTTGCTGTGGAGCAGATT---G--
1 AAGTTCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* *
100740382 AAGTTACAAATCCTATAC-CCCTGAAGTTGCAGTGG-G-ACGAATTGAAG-T
1 AAGTT-CAAATCTTAT-CTCCCTGAAGTTGCAGTGGAGCA-G-ATTAAAGAT
* * * * *
100740430 CATTGTGGT-GAATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTAAAGTT
1 -A-AGT--TCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * **
100740481 AA----AAACCATATCTCCCTGAAGTTGCAGTGGAGCAGATTGTAGAT
1 AAGTTCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * *
100740525 -AG--CAAATCTTATCTTCCTGAAGTTGCAGTGAAGC-GAGTTGAAGCT
1 AAGTTCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTAAAGAT
* * ** * *
100740570 -A---CAAATCTTATTTCCCTAAAGTTGCAGTGGAAAAAAATTAAAGCTAC
1 AAGTTCAAATCTTATCTCCCTGAAGTTGCAGTGG-AGCAGATTAAAG--AT
* ** ** *
100740617 AAGTTACAAATCTTATCTCTCTGAAGTTATAGTGGAATAGATTAAATAT
1 AAGTT-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * *
100740666 -AG--CAAATCTTATTTCCCT-AATGTTGCAGTGGAACAAATTAAAGCTT
1 AAGTTCAAATCTTATCTCCCTGAA-GTTGCAGTGGAGCAGATTAAAG-AT
* * * *
100740712 CAAGTTACAAATCTTATATTCTTGAAGTTGCAGTGGAACAGATT---G--
1 -AAGTT-CAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * ** * * * *
100740757 AAG-T-GAACCTTATCTCTTTGAAGTTGCTGTGGAGCAGGTTGAAGCT
1 AAGTTCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* ** * *
100740803 -A---CAAATCTTATTTCCCTGAAGTTGCAGTGGAATAGATAAAAGCT
1 AAGTTCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * *
100740847 GCAAGTCACAAATCTTATTTCCCTGAAGTTGCATTGGAGTAGATTGAAGAT
1 --AAGT-TCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * * * *
100740898 AA--T-AAATCTTATCTCCATGAAGTTGTAGTGGAGTAGATTGAAGGT
1 AAGTTCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
* * ** * *
100740943 -AG-T-GAATATTATCTCCCTGAAGTTGCAGCAGAGCAAATTGAAGAT
1 AAGTTCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
100740988 A
1 A
100740989 TGAATCTCAT
Statistics
Matches: 677, Mismatches: 130, Indels: 139
0.72 0.14 0.15
Matches are distributed among these distances:
40 1 0.00
41 31 0.05
42 2 0.00
43 4 0.01
44 188 0.28
45 247 0.36
46 4 0.01
47 4 0.01
48 10 0.01
49 5 0.01
50 32 0.05
51 121 0.18
52 28 0.04
ACGTcount: A:0.33, C:0.15, G:0.21, T:0.30
Consensus pattern (48 bp):
AAGTTCAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTAAAGAT
Found at i:100740284 original size:89 final size:89
Alignment explanation
Indices: 100740121--100740600 Score: 315
Period size: 89 Copynumber: 5.3 Consensus size: 89
100740111 ATACAAGTTG
* * * * * * * * * * *
100740121 CAAATCTTATCCCCCTGAAGTTGTAGTCGAGTAGATTGAAGATAGTAAATCTTATCTCCCTGAAG
1 CAAATCTTATCTCTCTGAAGTTGCAATGGAGCAGAATAAAGACAGCAAATCTTATCTCCCTAAAG
100740186 TTGCAGTGGAGCAGATTGAAAATA
66 TTGCAGTGGAGCAGATTGAAAATA
** * * *
100740210 GTGAATCTTATCTCTTTGAAGTTGCAATGGAGCAGATTAAAGCCA-CAAATCTTATCTCCCTAAA
1 -CAAATCTTATCTCTCTGAAGTTGCAATGGAGCAGAATAAAGACAGCAAATCTTATCTCCCTAAA
* * **
100740274 ATTACAGTGGAGCAGATTGAAGTTA
65 GTTGCAGTGGAGCAGATTGAAAATA
* * * *
100740299 CAAATCTTATCTCTCTGAAGTTGTAGTGGAGCAGAATAAAGATAGCAAATCTTATCTCTCTAAAG
1 CAAATCTTATCTCTCTGAAGTTGCAATGGAGCAGAATAAAGACAGCAAATCTTATCTCCCTAAAG
* **
100740364 TTGCTGTGGAGCAGATTGAAGTTA
66 TTGCAGTGGAGCAGATTGAAAATA
* * * * * **
100740388 CAAATCCTATAC-CCCTGAAGTTGCAGTGG-G-ACGAATTGAAGTCATTGTGGTGAATCTTATCT
1 CAAATCTTAT-CTCTCTGAAGTTGCAATGGAGCA-GAA-TAAAGACA-----GCAAATCTTATCT
* * * *
100740450 CCCTGAAGTTGCAGTGAAGTAGATT-AAAGTTA
58 CCCTAAAGTTGCAGTGGAGCAGATTGAAA-ATA
* * * * * * ** * * *
100740482 AAAACCATATCTCCCTGAAGTTGCAGTGGAGCAGATTGTAGATAGCAAATCTTATCTTCCTGAAG
1 CAAATCTTATCTCTCTGAAGTTGCAATGGAGCAGAATAAAGACAGCAAATCTTATCTCCCTAAAG
* **
100740547 TTGCAGTGAAGC-GAGTTGAAGCTA
66 TTGCAGTGGAGCAGA-TTGAAAATA
* * * *
100740571 CAAATCTTATTTCCCTAAAGTTGCAGTGGA
1 CAAATCTTATCTCTCTGAAGTTGCAATGGA
100740601 AAAAAATTAA
Statistics
Matches: 313, Mismatches: 62, Indels: 31
0.77 0.15 0.08
Matches are distributed among these distances:
87 1 0.00
88 42 0.13
89 165 0.53
90 35 0.11
93 3 0.01
94 63 0.20
95 3 0.01
96 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.21, T:0.30
Consensus pattern (89 bp):
CAAATCTTATCTCTCTGAAGTTGCAATGGAGCAGAATAAAGACAGCAAATCTTATCTCCCTAAAG
TTGCAGTGGAGCAGATTGAAAATA
Found at i:100740527 original size:183 final size:183
Alignment explanation
Indices: 100740257--100740599 Score: 456
Period size: 183 Copynumber: 1.9 Consensus size: 183
100740247 TAAAGCCACA
* * * * * *
100740257 AATCTTATCTCCCTAAAATTACAGTGGAGCAGATTGAAGTTACAAATCTTATCTCTCTGAAGTTG
1 AATCTTATCTCCCTAAAATTACAGTGAAGCAGATTAAAGTTAAAAACCATATCTCCCTGAAGTTG
* * *
100740322 TAGTGGAGCAGAATAAAGATAGCAAATCTTATC-TCTCTAAAGTTGCTGTGGAGC-AGATTGAAG
66 CAGTGGAGCAGAATAAAGATAGCAAATCTTATCTTC-CTAAAGTTGCAGTGAAGCGAG-TTGAAG
* *
100740385 TTACAAATCCTATACCCCTGAAGTTGCAGTGGGACGAATTGAAGTCATTGTGGTG
129 CTACAAATCCTATACCCCTAAAGTTGCAGTGGGACGAATTGAAGTCATTGTGGTG
* * * *
100740440 AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTAAAGTTAAAAACCATATCTCCCTGAAGTTG
1 AATCTTATCTCCCTAAAATTACAGTGAAGCAGATTAAAGTTAAAAACCATATCTCCCTGAAGTTG
* ** *
100740505 CAGTGGAGCAGATTGTAGATAGCAAATCTTATCTTCCTGAAGTTGCAGTGAAGCGAGTTGAAGCT
66 CAGTGGAGCAGAATAAAGATAGCAAATCTTATCTTCCTAAAGTTGCAGTGAAGCGAGTTGAAGCT
* **
100740570 ACAAATCTTATTTCCCTAAAGTTGCAGTGG
131 ACAAATCCTATACCCCTAAAGTTGCAGTGG
100740600 AAAAAAATTA
Statistics
Matches: 136, Mismatches: 22, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
183 132 0.97
184 4 0.03
ACGTcount: A:0.31, C:0.17, G:0.22, T:0.30
Consensus pattern (183 bp):
AATCTTATCTCCCTAAAATTACAGTGAAGCAGATTAAAGTTAAAAACCATATCTCCCTGAAGTTG
CAGTGGAGCAGAATAAAGATAGCAAATCTTATCTTCCTAAAGTTGCAGTGAAGCGAGTTGAAGCT
ACAAATCCTATACCCCTAAAGTTGCAGTGGGACGAATTGAAGTCATTGTGGTG
Found at i:100740567 original size:139 final size:139
Alignment explanation
Indices: 100740301--100740555 Score: 325
Period size: 139 Copynumber: 1.8 Consensus size: 139
100740291 TGAAGTTACA
* * * * * * *
100740301 AATCTTATCTCTCTGAAGTTGTAGTGGAGCAGAATAAAGATAGCAAATCTTATCTCTCTAAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGAATAAAGATAGAAAACCATATCTCCCTAAAGTT
* * *
100740366 GCTGTGGAGCAGATTGAAGTTACAAATCCTATACCCCTGAAGTTGCAGTGGGACGAATTGAAGTC
66 GCAGTGGAGCAGATTGAAGATACAAATCCTATACCCCTGAAGTTGCAGTGAGACGAATTGAAGTC
100740431 ATTGTGGTG
131 ATTGTGGTG
* * * *
100740440 AATCTTATCTCCCTGAAGTTGCAGTGAAGTAGATTAAAGTTA-AAAACCATATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGAATAAAGATAGAAAACCATATCTCCCTAAAGTT
* * *
100740504 GCAGTGGAGCAGATTGTAGATAGCAAATCTTAT-CTTCCTGAAGTTGCAGTGA
66 GCAGTGGAGCAGATTGAAGATA-CAAATCCTATAC-CCCTGAAGTTGCAGTGA
100740556 AGCGAGTTGA
Statistics
Matches: 97, Mismatches: 17, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
138 37 0.38
139 60 0.62
ACGTcount: A:0.31, C:0.16, G:0.22, T:0.30
Consensus pattern (139 bp):
AATCTTATCTCCCTGAAGTTGCAGTGAAGCAGAATAAAGATAGAAAACCATATCTCCCTAAAGTT
GCAGTGGAGCAGATTGAAGATACAAATCCTATACCCCTGAAGTTGCAGTGAGACGAATTGAAGTC
ATTGTGGTG
Found at i:100740709 original size:96 final size:97
Alignment explanation
Indices: 100740571--100740755 Score: 284
Period size: 96 Copynumber: 1.9 Consensus size: 97
100740561 GTTGAAGCTA
*
100740571 CAAATCTTATTTCCCTAAAGTTGCAGTGGAAAAAAATTAAAGCTACAAGTTACAAATCTTAT-CT
1 CAAATCTTATTTCCCTAAAGTTGCAGTGGAAAAAAATTAAAGCTACAAGTTACAAATCTTATATT
* *
100740635 CTCTGAAGTTATAGTGGAATAGATTAAATATAG
66 CT-TGAAGTTACAGTGGAACAGATTAAATATAG
* * *
100740668 CAAATCTTATTTCCCTAATGTTGCAGTGG-AACAAATTAAAGCTTCAAGTTACAAATCTTATATT
1 CAAATCTTATTTCCCTAAAGTTGCAGTGGAAAAAAATTAAAGCTACAAGTTACAAATCTTATATT
*
100740732 CTTGAAGTTGCAGTGGAACAGATT
66 CTTGAAGTTACAGTGGAACAGATT
100740756 GAAGTGAACC
Statistics
Matches: 80, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
96 49 0.61
97 31 0.39
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (97 bp):
CAAATCTTATTTCCCTAAAGTTGCAGTGGAAAAAAATTAAAGCTACAAGTTACAAATCTTATATT
CTTGAAGTTACAGTGGAACAGATTAAATATAG
Found at i:100742604 original size:23 final size:25
Alignment explanation
Indices: 100742569--100742619 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
100742559 TTGGTTCTTC
*
100742569 TTATTATTCTCATTATTGTTATTAT
1 TTATTATTCTCATTATTATTATTAT
*
100742594 TTATT-TT-TCATTATTATTATTTT
1 TTATTATTCTCATTATTATTATTAT
100742617 TTA
1 TTA
100742620 AAATTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 17 0.71
24 2 0.08
25 5 0.21
ACGTcount: A:0.24, C:0.06, G:0.02, T:0.69
Consensus pattern (25 bp):
TTATTATTCTCATTATTATTATTAT
Found at i:100747658 original size:43 final size:42
Alignment explanation
Indices: 100747575--100747694 Score: 127
Period size: 43 Copynumber: 2.8 Consensus size: 42
100747565 CAGAAAGCTC
* * * * * *
100747575 ATACAATGCTAACATCCCAGACATGGTCTTACATGTAATCAA
1 ATACGATGCCAACATCCTAGACAGGGTCTTACACGAAATCAA
*
100747617 ATATCGTTGCC-ACTATCCTAGACAGGGTCTTACACGAAATCAA
1 ATA-CGATGCCAAC-ATCCTAGACAGGGTCTTACACGAAATCAA
*
100747660 ATACGATGCCAACGTCCTAGA-AGTGGTCTTACACG
1 ATACGATGCCAACATCCTAGACAG-GGTCTTACACG
100747695 TAAAACATAA
Statistics
Matches: 65, Mismatches: 9, Indels: 8
0.79 0.11 0.10
Matches are distributed among these distances:
41 2 0.03
42 29 0.45
43 34 0.52
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (42 bp):
ATACGATGCCAACATCCTAGACAGGGTCTTACACGAAATCAA
Found at i:100747688 original size:42 final size:42
Alignment explanation
Indices: 100747598--100747736 Score: 131
Period size: 44 Copynumber: 3.2 Consensus size: 42
100747588 ATCCCAGACA
* * * *
100747598 TGGTCTTACATGTAATCAAATATCGTTGCC-ACTATCCTAGACAG
1 TGGTCTTACACGAAATCAAATA-CGATGCCAAC-GTCCTAGA-AG
100747642 -GGTCTTACACGAAATCAAATACGATGCCAACGTCCTAGAAG
1 TGGTCTTACACGAAATCAAATACGATGCCAACGTCCTAGAAG
* * * *
100747683 TGGTCTTACACGTAAAACATAAGT-CGATGCTAACGTCCCAGACG
1 TGGTCTTACACG-AAATCA-AA-TACGATGCCAACGTCCTAGAAG
100747727 TGGTCTTACA
1 TGGTCTTACA
100747737 TGATAAAACA
Statistics
Matches: 82, Mismatches: 8, Indels: 10
0.82 0.08 0.10
Matches are distributed among these distances:
41 2 0.02
42 24 0.29
43 26 0.32
44 29 0.35
45 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.19, T:0.26
Consensus pattern (42 bp):
TGGTCTTACACGAAATCAAATACGATGCCAACGTCCTAGAAG
Found at i:100747730 original size:44 final size:44
Alignment explanation
Indices: 100747642--100747748 Score: 130
Period size: 44 Copynumber: 2.5 Consensus size: 44
100747632 TCCTAGACAG
* *
100747642 GGTCTTACACG-AAATCA-AATACGATGCCAACGTCCTAGAAGT
1 GGTCTTACACGTAAAACATAATACGATGCCAACGTCCCAGAAGT
* *
100747684 GGTCTTACACGTAAAACATAAGT-CGATGCTAACGTCCCAGACGT
1 GGTCTTACACGTAAAACATAA-TACGATGCCAACGTCCCAGAAGT
*
100747728 GGTCTTACATGATAAAACATA
1 GGTCTTACACG-TAAAACATA
100747749 TCGGATCCTA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
42 11 0.20
43 5 0.09
44 30 0.54
45 10 0.18
ACGTcount: A:0.36, C:0.22, G:0.19, T:0.23
Consensus pattern (44 bp):
GGTCTTACACGTAAAACATAATACGATGCCAACGTCCCAGAAGT
Found at i:100756230 original size:47 final size:48
Alignment explanation
Indices: 100756127--100756233 Score: 114
Period size: 47 Copynumber: 2.3 Consensus size: 48
100756117 GATTATCGAC
*
100756127 AATTAAATTAAAATTATCTATATAATATATATATTTAATTTTTTTAAT
1 AATTAAATTATAATTATCTATATAATATATATATTTAATTTTTTTAAT
* * * * *
100756175 CA-TCAATTATATTTAT-TATAATAAT-TTTATCTTTGAATTTTTTT-AT
1 AATTAAATTATAATTATCTAT-ATAATATATATATTT-AATTTTTTTAAT
100756221 AATTAAATTATAA
1 AATTAAATTATAA
100756234 ATCATATGCA
Statistics
Matches: 47, Mismatches: 9, Indels: 7
0.75 0.14 0.11
Matches are distributed among these distances:
46 13 0.28
47 33 0.70
48 1 0.02
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (48 bp):
AATTAAATTATAATTATCTATATAATATATATATTTAATTTTTTTAAT
Found at i:100757207 original size:3 final size:3
Alignment explanation
Indices: 100757199--100757278 Score: 60
Period size: 3 Copynumber: 27.0 Consensus size: 3
100757189 ATACTAATTA
* *
100757199 AAT AAT AAT -AT AA- AA- AAT AA- AAA AAT AAAT AAT AAT GAAA AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT AAT -AAT AAT
* * *
100757242 AAAT AAC AAT AAT AAT AAT GAG AAT AAT AAT AAT AAT
1 -AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
100757279 GACAAAATGT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
2 8 0.13
3 46 0.74
4 8 0.13
ACGTcount: A:0.70, C:0.01, G:0.04, T:0.25
Consensus pattern (3 bp):
AAT
Found at i:100757227 original size:27 final size:29
Alignment explanation
Indices: 100757197--100757260 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 29
100757187 TAATACTAAT
100757197 TAAATAATAATATAAAAAATAAA-AA-AA
1 TAAATAATAATATAAAAAATAAATAACAA
*
100757224 TAAATAAT-A-ATGAAAAATAAATAACAA
1 TAAATAATAATATAAAAAATAAATAACAA
100757251 T-AATAATAAT
1 TAAATAATAAT
100757261 GAGAATAATA
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
25 11 0.34
26 9 0.28
27 12 0.38
ACGTcount: A:0.72, C:0.02, G:0.02, T:0.25
Consensus pattern (29 bp):
TAAATAATAATATAAAAAATAAATAACAA
Found at i:100758611 original size:21 final size:21
Alignment explanation
Indices: 100758586--100758635 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
100758576 CATGGGCCTT
* * *
100758586 TTTTGTTTTTTGGGCTTGTAC
1 TTTTGTTATTTGGGCCTGTAA
100758607 TTTTGTTATTTGGGCCTGTAA
1 TTTTGTTATTTGGGCCTGTAA
100758628 TTTTGTTA
1 TTTTGTTA
100758636 ATGGACTATT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.10, C:0.08, G:0.22, T:0.60
Consensus pattern (21 bp):
TTTTGTTATTTGGGCCTGTAA
Found at i:100759818 original size:15 final size:14
Alignment explanation
Indices: 100759797--100759833 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
100759787 AAAGGCCAAG
100759797 AATAAAATAAAGTAA
1 AATAAAATAAA-TAA
*
100759812 GATAAAATAAATAA
1 AATAAAATAAATAA
100759826 AATAAAAT
1 AATAAAAT
100759834 GAAGGTTCAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.22
Consensus pattern (14 bp):
AATAAAATAAATAA
Found at i:100761754 original size:44 final size:44
Alignment explanation
Indices: 100761522--100761996 Score: 186
Period size: 44 Copynumber: 10.5 Consensus size: 44
100761512 TTTAATCTAT
* * * * **
100761522 TCCACTGCAACTTTAGGGAAATAAGATTCACTATCTTCAGTCTAT
1 TCCACTGCAACTTCAGGGAGATAAGACT-AGTATCTTCAGTCTGC
* * * ** * *
100761567 TTCACTG-AACTTTAGGGAGATGAGGTTA--ATGGTTACAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTAGTAT-CTT-CAGTCTGC
* * * * * * *
100761610 TCCACTGCAGCTTTAGGGAGATGAGATTTGTATCTTCAATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGACTAGTATCTTCAGTCTGC
* * *
100761654 TCCACTGTAACTTCAGGGAGATAATACTCACTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACT-AGTATCTTCAGTCTGC
* * * * **
100761699 TCTACTACAACTTCAGGGAGATAAGGCTGGTGGCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTAGTATCTTCAGTCTGC
* * * * *
100761743 TCCACTGCAACTTCAGGAAGATAAGATTCGTCATAATTTGTAGCTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGA-----C-T-A---GTATCTTCAGTCTGC
* * * * * * *
100761797 TCCACTACAACTTCAAGGAAATGAGATTCGCTATCTTCAGTCTAC
1 TCCACTGCAACTTCAGGGAGATAAGACTAG-TATCTTCAGTCTGC
* * * ** * ** *
100761842 TCCGCTGTAACTTTAACGAGATAAGGCTAGTGGCTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGACTAGTATCTTCAGTCTGC
* * * * * * *
100761886 TCCATTGCAACTTTAAGAAGATAAGATTCGTCATCTTC-GATCTTC
1 TCCACTGCAACTTCAGGGAGATAAGACTAGT-ATCTTCAG-TCTGC
* * * * *
100761931 TCCACTACAACTTCAAGGAGATAAGATCTA-CAACTTCAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGA-CTAGTATCTTCAGTCTGC
*
100761975 TCCACTGCTACTTCAGGGAGAT
1 TCCACTGCAACTTCAGGGAGAT
100761997 GAGATTTGTG
Statistics
Matches: 316, Mismatches: 93, Indels: 43
0.70 0.21 0.10
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 12 0.04
44 160 0.51
45 102 0.32
46 3 0.01
48 1 0.00
49 1 0.00
50 1 0.00
54 32 0.10
ACGTcount: A:0.28, C:0.23, G:0.18, T:0.31
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGACTAGTATCTTCAGTCTGC
Found at i:100771166 original size:22 final size:23
Alignment explanation
Indices: 100771140--100771184 Score: 83
Period size: 22 Copynumber: 2.0 Consensus size: 23
100771130 ACCTAATCAG
100771140 AATACGACACAT-AAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
100771162 AATACGACACATAAAGTGCCTGA
1 AATACGACACATAAAGTGCCTGA
100771185 TCAGTAAAGC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (23 bp):
AATACGACACATAAAGTGCCTGA
Found at i:100771444 original size:23 final size:23
Alignment explanation
Indices: 100771375--100771472 Score: 79
Period size: 28 Copynumber: 3.8 Consensus size: 23
100771365 AAATGTCCAA
*
100771375 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
100771398 CCAAAACACACCAGTATAATATAATCCT
1 CCAAAACACACCAG----A-ATAATCCT
*
100771426 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----A-ATAATCC-T
100771455 CCAAAACACACCAGAATA
1 CCAAAACACACCAGAATA
100771473 GCACAAAGTG
Statistics
Matches: 65, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
23 14 0.22
24 3 0.05
25 1 0.02
28 33 0.51
29 14 0.22
ACGTcount: A:0.48, C:0.32, G:0.04, T:0.16
Consensus pattern (23 bp):
CCAAAACACACCAGAATAATCCT
Found at i:100771471 original size:29 final size:28
Alignment explanation
Indices: 100771389--100771472 Score: 141
Period size: 28 Copynumber: 3.0 Consensus size: 28
100771379 AACACACCAG
*
100771389 TATAATCCTCCAAAACACACCAGTATAA
1 TATAATCCTCCAAAACACACCAGAATAA
*
100771417 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
100771445 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
100771473 GCACAAAGTG
Statistics
Matches: 52, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
28 34 0.65
29 18 0.35
ACGTcount: A:0.48, C:0.30, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:100777758 original size:19 final size:19
Alignment explanation
Indices: 100777734--100777779 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
100777724 TGTGACATTT
*
100777734 AATGCATATG-ATGCGATG
1 AATGCAAATGCATGCGATG
*
100777752 AAATGCAAATGCATGGGATG
1 -AATGCAAATGCATGCGATG
100777772 AATGCAAA
1 AATGCAAA
100777780 AAAAGACATC
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 17 0.71
20 7 0.29
ACGTcount: A:0.41, C:0.11, G:0.26, T:0.22
Consensus pattern (19 bp):
AATGCAAATGCATGCGATG
Found at i:100781719 original size:3 final size:3
Alignment explanation
Indices: 100781713--100781759 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
100781703 TATGTAAAAA
* *
100781713 AAT AAT AAT AGAT AA- AAT AAT AAT AAT GAT AGT AAT AAT AAAT AAT
1 AAT AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT -AAT AAT
100781759 A
1 A
100781760 TATATAAGTA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.30
Consensus pattern (3 bp):
AAT
Found at i:100781734 original size:18 final size:18
Alignment explanation
Indices: 100781707--100781759 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
100781697 AAAACCTATG
*
100781707 TAAAAAAATAATAATAGA
1 TAAAATAATAATAATAGA
100781725 TAAAATAATAATAAT-GA
1 TAAAATAATAATAATAGA
*
100781742 TAGTAATAATAAATAATA
1 TA-AAATAAT-AATAATA
100781760 TATATAAGTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
17 4 0.13
18 20 0.67
19 6 0.20
ACGTcount: A:0.66, C:0.00, G:0.06, T:0.28
Consensus pattern (18 bp):
TAAAATAATAATAATAGA
Found at i:100782977 original size:20 final size:23
Alignment explanation
Indices: 100782948--100782992 Score: 60
Period size: 20 Copynumber: 2.1 Consensus size: 23
100782938 AGGTATAGAG
100782948 GTACGAAGGC-G-ACGTG-GAGT
1 GTACGAAGGCTGTACGTGCGAGT
*
100782968 GTACGGAGGCTGTACGTGCGAGT
1 GTACGAAGGCTGTACGTGCGAGT
100782991 GT
1 GT
100782993 CAACGTGGCG
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 1 0.05
22 5 0.24
23 6 0.29
ACGTcount: A:0.20, C:0.16, G:0.44, T:0.20
Consensus pattern (23 bp):
GTACGAAGGCTGTACGTGCGAGT
Found at i:100785352 original size:21 final size:19
Alignment explanation
Indices: 100785322--100785368 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
100785312 ATCGAGAATT
*
100785322 GTTTTAATTTAGTAATTTATG
1 GTTTTTATTTA-TAA-TTATG
*
100785343 GTTTTTATTTATAATTCTG
1 GTTTTTATTTATAATTATG
100785362 GTTTTTA
1 GTTTTTA
100785369 AGAGTTTGTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 11 0.46
20 3 0.12
21 10 0.42
ACGTcount: A:0.23, C:0.02, G:0.13, T:0.62
Consensus pattern (19 bp):
GTTTTTATTTATAATTATG
Found at i:100787134 original size:25 final size:25
Alignment explanation
Indices: 100787105--100787154 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 25
100787095 TGTTGATTTG
100787105 ATTCTCACTTTCCTTT-TTTAATATA
1 ATTCTCAC-TTCCTTTATTTAATATA
*
100787130 ATTCTCACTTCCTTTATTTGATATA
1 ATTCTCACTTCCTTTATTTAATATA
100787155 TGAATTCTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 16 0.70
ACGTcount: A:0.24, C:0.20, G:0.02, T:0.54
Consensus pattern (25 bp):
ATTCTCACTTCCTTTATTTAATATA
Found at i:100787357 original size:54 final size:54
Alignment explanation
Indices: 100787275--100787381 Score: 214
Period size: 54 Copynumber: 2.0 Consensus size: 54
100787265 TGTTATAGAG
100787275 AAGGTTTACTATAGTATAGATATCGATATGTTTGGTTCAAACTGATGTTTAAAT
1 AAGGTTTACTATAGTATAGATATCGATATGTTTGGTTCAAACTGATGTTTAAAT
100787329 AAGGTTTACTATAGTATAGATATCGATATGTTTGGTTCAAACTGATGTTTAAA
1 AAGGTTTACTATAGTATAGATATCGATATGTTTGGTTCAAACTGATGTTTAAA
100787382 CTAATTAAAT
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.34, C:0.07, G:0.19, T:0.40
Consensus pattern (54 bp):
AAGGTTTACTATAGTATAGATATCGATATGTTTGGTTCAAACTGATGTTTAAAT
Found at i:100787693 original size:26 final size:24
Alignment explanation
Indices: 100787663--100787712 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
100787653 AAATAAAAAA
*
100787663 ATTTAAAAATATAATAAATCAAATAT
1 ATTTAAAAACATAA-AAA-CAAATAT
100787689 ATTTAAAAACATAAAAACAAATAT
1 ATTTAAAAACATAAAAACAAATAT
100787713 TAAAACAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (24 bp):
ATTTAAAAACATAAAAACAAATAT
Found at i:100787732 original size:21 final size:21
Alignment explanation
Indices: 100787683--100787741 Score: 59
Period size: 21 Copynumber: 2.8 Consensus size: 21
100787673 ATAATAAATC
*
100787683 AAAT-ATATTTAAAA-ACATAA
1 AAATAATA-TTAAAACAAATAA
*
100787703 AAACAAATATTAAAACAAATAA
1 AAA-TAATATTAAAACAAATAA
*
100787725 AAATAATACTAAAACAA
1 AAATAATATTAAAACAA
100787742 TTCTTAAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 5
0.78 0.10 0.12
Matches are distributed among these distances:
20 3 0.09
21 18 0.56
22 11 0.34
ACGTcount: A:0.69, C:0.08, G:0.00, T:0.22
Consensus pattern (21 bp):
AAATAATATTAAAACAAATAA
Found at i:100791899 original size:32 final size:32
Alignment explanation
Indices: 100791853--100791922 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
100791843 TTTTTTTCTC
100791853 TTTACTCACAAAATGAGTAAATTAGTTGGTTAT
1 TTTA-TCACAAAATGAGTAAATTAGTTGGTTAT
100791886 TTTATCACAAAATGAGTAAATTAGTTGGTTAT
1 TTTATCACAAAATGAGTAAATTAGTTGGTTAT
100791918 TTTAT
1 TTTAT
100791923 TAAAGTTTCA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 33 0.89
33 4 0.11
ACGTcount: A:0.36, C:0.07, G:0.14, T:0.43
Consensus pattern (32 bp):
TTTATCACAAAATGAGTAAATTAGTTGGTTAT
Found at i:100793698 original size:16 final size:16
Alignment explanation
Indices: 100793677--100793710 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
100793667 TTGAAACAAC
*
100793677 ATAAATCAATAATTAA
1 ATAAATCAAAAATTAA
*
100793693 ATAAATTAAAAATTAA
1 ATAAATCAAAAATTAA
100793709 AT
1 AT
100793711 TGGAAATTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.32
Consensus pattern (16 bp):
ATAAATCAAAAATTAA
Found at i:100805344 original size:4 final size:4
Alignment explanation
Indices: 100805335--100805444 Score: 220
Period size: 4 Copynumber: 27.5 Consensus size: 4
100805325 CTAGCTAACT
100805335 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
100805383 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
100805431 CATA CATA CATA CA
1 CATA CATA CATA CA
100805445 GAGTCTTGTG
Statistics
Matches: 106, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 106 1.00
ACGTcount: A:0.50, C:0.25, G:0.00, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:100806377 original size:99 final size:99
Alignment explanation
Indices: 100806087--100806365 Score: 425
Period size: 99 Copynumber: 2.8 Consensus size: 99
100806077 TTTTGTGGTT
* * * * *
100806087 TTTTTCTTAAGAATATATTGAACCTTTTGACGCAAAGAGAGATGACAGCCAAACACTCCACCCCA
1 TTTTTCTTAAGAATATATCGAACCTTTTGACGCAAAGAGAGATGACAGTCAAGCACCCCACCCCG
*
100806152 GTTACTCAACCCAATATACTCTTAATTTATTATA
66 GTTACTCAACCCAACATACTCTTAATTTATTATA
* * * *
100806186 TTTTTCTTAAGAATATATCGAACCTTTTAACACGAAGAGAGATGGCAGTCAAGCACCCCACCCCG
1 TTTTTCTTAAGAATATATCGAACCTTTTGACGCAAAGAGAGATGACAGTCAAGCACCCCACCCCG
100806251 GTTACTCAACCCAACATACTCTTAATTTATTATA
66 GTTACTCAACCCAACATACTCTTAATTTATTATA
*
100806285 TATTTT-TTAAGAATATATCGAACATTTTGACGCAAAGAGAGATGACAGTCAAGCACCCCACCCC
1 T-TTTTCTTAAGAATATATCGAACCTTTTGACGCAAAGAGAGATGACAGTCAAGCACCCCACCCC
* *
100806349 GGTTACTTAGCCCAACA
65 GGTTACTCAACCCAACA
100806366 CATTCCTAAT
Statistics
Matches: 162, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
99 158 0.98
100 4 0.02
ACGTcount: A:0.34, C:0.24, G:0.13, T:0.29
Consensus pattern (99 bp):
TTTTTCTTAAGAATATATCGAACCTTTTGACGCAAAGAGAGATGACAGTCAAGCACCCCACCCCG
GTTACTCAACCCAACATACTCTTAATTTATTATA
Found at i:100818163 original size:24 final size:24
Alignment explanation
Indices: 100818136--100818181 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
100818126 GTGAAACTGT
* *
100818136 AAAGGCTGAAAAGCCGAAAAGTCA
1 AAAGGCTGAAAAACCAAAAAGTCA
*
100818160 AAAGGTTGAAAAACCAAAAAGT
1 AAAGGCTGAAAAACCAAAAAGT
100818182 AGGTTGTTGA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.54, C:0.13, G:0.22, T:0.11
Consensus pattern (24 bp):
AAAGGCTGAAAAACCAAAAAGTCA
Found at i:100818638 original size:27 final size:28
Alignment explanation
Indices: 100818580--100818640 Score: 72
Period size: 27 Copynumber: 2.2 Consensus size: 28
100818570 TAAAATAACT
100818580 GAAATACCCCCATAAGGTAAAATGACCA
1 GAAATACCCCCATAAGGTAAAATGACCA
* * * *
100818608 -AAATATCGCCATAGGGTAAAATGA-TA
1 GAAATACCCCCATAAGGTAAAATGACCA
100818634 GAAATAC
1 GAAATAC
100818641 ACTTGTAGGG
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
26 1 0.04
27 26 0.96
ACGTcount: A:0.48, C:0.18, G:0.16, T:0.18
Consensus pattern (28 bp):
GAAATACCCCCATAAGGTAAAATGACCA
Found at i:100818708 original size:27 final size:27
Alignment explanation
Indices: 100818678--100818912 Score: 238
Period size: 27 Copynumber: 8.7 Consensus size: 27
100818668 CCCTGTAAGA
* *
100818678 TAAAATGACTGTTTTACCTTTATGTGT
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * * *
100818705 TAAAATGACTATTTTGTCCTCATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGT
100818732 TAAAATGAC-GATTTTGCCCTTATGTGT
1 TAAAATGACTG-TTTTGCCCTTATGTGT
* *
100818759 TAAAATAACTATTTTGCCCTTATGTGT
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * *
100818786 TAAAATAACAGTTTTGCCTTTATGTGT
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * *
100818813 TAAAATGACGGTTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * * *
100818840 TAAAATGACGGTTTTGCTCTTATGAGG
1 TAAAATGACTGTTTTGCCCTTATGTGT
* * *
100818867 TAAAATGACTATTTTGCCCTTACGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGT
** *
100818894 TAGGATGATTGTTTTGCCC
1 TAAAATGACTGTTTTGCCC
100818913 CTATATGATT
Statistics
Matches: 174, Mismatches: 32, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
27 174 1.00
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.41
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGT
Found at i:100818895 original size:54 final size:54
Alignment explanation
Indices: 100818678--100818895 Score: 267
Period size: 54 Copynumber: 4.0 Consensus size: 54
100818668 CCCTGTAAGA
* * * * *
100818678 TAAAATGACTGTTTTACCTTTATGTGTTAAAATGACTATTTTGTCCTCATGTGA
1 TAAAATGACGGTTTTGCCTTTATGTGTTAAAATGACTATTTTGCCCTTATGTGG
* * * *
100818732 TAAAATGACGATTTTGCCCTTATGTGTTAAAATAACTATTTTGCCCTTATGTGT
1 TAAAATGACGGTTTTGCCTTTATGTGTTAAAATGACTATTTTGCCCTTATGTGG
* * ** *
100818786 TAAAATAACAGTTTTGCCTTTATGTGTTAAAATGACGGTTTTGCCCTTATATGG
1 TAAAATGACGGTTTTGCCTTTATGTGTTAAAATGACTATTTTGCCCTTATGTGG
* * *
100818840 TAAAATGACGGTTTTG-CTCTTATGAGGTAAAATGACTATTTTGCCCTTACGTGG
1 TAAAATGACGGTTTTGCCT-TTATGTGTTAAAATGACTATTTTGCCCTTATGTGG
100818894 TA
1 TA
100818896 GGATGATTGT
Statistics
Matches: 138, Mismatches: 25, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
53 2 0.01
54 136 0.99
ACGTcount: A:0.28, C:0.14, G:0.17, T:0.41
Consensus pattern (54 bp):
TAAAATGACGGTTTTGCCTTTATGTGTTAAAATGACTATTTTGCCCTTATGTGG
Found at i:100819270 original size:18 final size:18
Alignment explanation
Indices: 100819225--100819270 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
100819215 TACTGCTTAT
100819225 TATTACTGCACTAATTAC
1 TATTACTGCACTAATTAC
* * **
100819243 TGTTATTGCACTGTTTAC
1 TATTACTGCACTAATTAC
100819261 TATTACTGCA
1 TATTACTGCA
100819271 ATGGGTTAAG
Statistics
Matches: 22, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.26, C:0.20, G:0.11, T:0.43
Consensus pattern (18 bp):
TATTACTGCACTAATTAC
Found at i:100840639 original size:24 final size:24
Alignment explanation
Indices: 100840612--100840662 Score: 59
Period size: 24 Copynumber: 2.1 Consensus size: 24
100840602 TAGACAAATG
*
100840612 AAATA-CAAAGCCTAACTGATATAC
1 AAATATCAAAGAC-AACTGATATAC
* *
100840636 AAATATTATAGACAACTGATATAC
1 AAATATCAAAGACAACTGATATAC
100840660 AAA
1 AAA
100840663 AAAAATTCGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.53, C:0.16, G:0.08, T:0.24
Consensus pattern (24 bp):
AAATATCAAAGACAACTGATATAC
Found at i:100843292 original size:13 final size:13
Alignment explanation
Indices: 100843265--100843301 Score: 58
Period size: 13 Copynumber: 2.9 Consensus size: 13
100843255 ATCTTGGAAT
100843265 ATTAA-AACAAGA
1 ATTAAGAACAAGA
*
100843277 ATTAAGAACAATA
1 ATTAAGAACAAGA
100843290 ATTAAGAACAAG
1 ATTAAGAACAAG
100843302 TCAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 5 0.23
13 17 0.77
ACGTcount: A:0.62, C:0.08, G:0.11, T:0.19
Consensus pattern (13 bp):
ATTAAGAACAAGA
Found at i:100852201 original size:3 final size:3
Alignment explanation
Indices: 100852193--100852232 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
100852183 TGTAATGAAC
*
100852193 TAT TAT TAT TAT TAT AAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
100852233 TTAAGAACAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:100862407 original size:27 final size:27
Alignment explanation
Indices: 100862377--100862450 Score: 121
Period size: 27 Copynumber: 2.7 Consensus size: 27
100862367 TTATTTACTT
* *
100862377 GTAAAACGACCGAAATACCCCCATAGG
1 GTAAAATGACTGAAATACCCCCATAGG
*
100862404 GTAAAATAACTGAAATACCCCCATAGG
1 GTAAAATGACTGAAATACCCCCATAGG
100862431 GTAAAATGACTGAAATACCC
1 GTAAAATGACTGAAATACCC
100862451 TTGTAAGGTA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 43 1.00
ACGTcount: A:0.43, C:0.24, G:0.16, T:0.16
Consensus pattern (27 bp):
GTAAAATGACTGAAATACCCCCATAGG
Found at i:100862460 original size:27 final size:27
Alignment explanation
Indices: 100862388--100862466 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
100862378 TAAAACGACC
*
100862388 GAAATACCCCCATAGGGTAAAATAACT
1 GAAATACCCCCATAAGGTAAAATAACT
* *
100862415 GAAATACCCCCATAGGGTAAAATGACT
1 GAAATACCCCCATAAGGTAAAATAACT
***
100862442 GAAATACCCTTGTAAGGTAAAATAA
1 GAAATACCCCCATAAGGTAAAATAA
100862467 TTATTTTGCC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.44, C:0.19, G:0.16, T:0.20
Consensus pattern (27 bp):
GAAATACCCCCATAAGGTAAAATAACT
Found at i:100862506 original size:54 final size:54
Alignment explanation
Indices: 100862448--100862665 Score: 181
Period size: 54 Copynumber: 4.1 Consensus size: 54
100862438 GACTGAAATA
* * * *
100862448 CCCTTGTAAGGTAAAATAATTATTTTGCCTTTATGTGTTAAAATGATGATTTTG
1 CCCTTATAAGGTAAAATAATTATTTTGCCCTTATGTGGTAAAATGACGATTTTG
** * * * * * * * *
100862502 CCCTTATGTGATAAAATGATGATTTAGCCCTTGTGTGGCAAAATAACGTTTTTG
1 CCCTTATAAGGTAAAATAATTATTTTGCCCTTATGTGGTAAAATGACGATTTTG
* * * * *
100862556 -CCTTATATGTTAAAATAA-CAGTTTTGCCCTTATGTGGTAAAATGACGGTTTTT
1 CCCTTATAAGGTAAAATAATTA-TTTTGCCCTTATGTGGTAAAATGACGATTTTG
* * * **
100862609 CCCTTATAAGGTAAAATGACTATTTTGCCCTTATATGGTAGGATGACTG-TTTTG
1 CCCTTATAAGGTAAAATAATTATTTTGCCCTTATGTGGTAAAATGAC-GATTTTG
100862663 CCC
1 CCC
100862666 CTATGTGATG
Statistics
Matches: 128, Mismatches: 32, Indels: 8
0.76 0.19 0.05
Matches are distributed among these distances:
52 1 0.01
53 41 0.32
54 84 0.66
55 2 0.02
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (54 bp):
CCCTTATAAGGTAAAATAATTATTTTGCCCTTATGTGGTAAAATGACGATTTTG
Found at i:100862654 original size:27 final size:27
Alignment explanation
Indices: 100862470--100862665 Score: 157
Period size: 27 Copynumber: 7.3 Consensus size: 27
100862460 AAAATAATTA
* * *
100862470 TTTTGCCTTTATGTGTTAAAATGA-TG
1 TTTTGCCCTTATATGGTAAAATGACTG
* *
100862496 ATTTTGCCCTTATGTGATAAAATGA-TG
1 -TTTTGCCCTTATATGGTAAAATGACTG
* * * * *
100862523 ATTTAGCCCTTGTGTGGCAAAATAAC-G
1 -TTTTGCCCTTATATGGTAAAATGACTG
* * *
100862550 TTTTTG-CCTTATATGTTAAAATAACAG
1 -TTTTGCCCTTATATGGTAAAATGACTG
* *
100862577 TTTTGCCCTTATGTGGTAAAATGACGG
1 TTTTGCCCTTATATGGTAAAATGACTG
* * *
100862604 TTTTTCCCTTATAAGGTAAAATGACTA
1 TTTTGCCCTTATATGGTAAAATGACTG
**
100862631 TTTTGCCCTTATATGGTAGGATGACTG
1 TTTTGCCCTTATATGGTAAAATGACTG
100862658 TTTTGCCC
1 TTTTGCCC
100862666 CTATGTGATG
Statistics
Matches: 139, Mismatches: 27, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
26 20 0.14
27 119 0.86
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.41
Consensus pattern (27 bp):
TTTTGCCCTTATATGGTAAAATGACTG
Found at i:100865034 original size:20 final size:20
Alignment explanation
Indices: 100864997--100865045 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
100864987 TTAAATTCAA
*
100864997 AAAGATAAATAGAAATAATT
1 AAAGATAAATAGAAATAAAT
*
100865017 AAAGATAATTA-AATATAAAT
1 AAAGATAAATAGAA-ATAAAT
*
100865037 AAACATAAA
1 AAAGATAAA
100865046 AGTTAAAATT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.67, C:0.02, G:0.06, T:0.24
Consensus pattern (20 bp):
AAAGATAAATAGAAATAAAT
Found at i:100871026 original size:22 final size:22
Alignment explanation
Indices: 100870985--100871026 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
100870975 AATGCGGAAT
*
100870985 GTTTTTGTTTTAAAAGTTGAAA
1 GTTTTTGTTTGAAAAGTTGAAA
* *
100871007 GTTTTTGTTTGGAAATTTGA
1 GTTTTTGTTTGAAAAGTTGA
100871027 GGATCAAACT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.26, C:0.00, G:0.21, T:0.52
Consensus pattern (22 bp):
GTTTTTGTTTGAAAAGTTGAAA
Found at i:100880098 original size:5 final size:5
Alignment explanation
Indices: 100880080--100880134 Score: 83
Period size: 5 Copynumber: 10.6 Consensus size: 5
100880070 ATAACTCATA
*
100880080 AATTCC AATTC AATAC AATTC AATTC AATTC AATTC AATTC AATTC AATTTC
1 AATT-C AATTC AATTC AATTC AATTC AATTC AATTC AATTC AATTC AA-TTC
100880132 AAT
1 AAT
100880135 ACTACAATTT
Statistics
Matches: 46, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
5 37 0.80
6 9 0.20
ACGTcount: A:0.42, C:0.20, G:0.00, T:0.38
Consensus pattern (5 bp):
AATTC
Found at i:100882070 original size:40 final size:40
Alignment explanation
Indices: 100881886--100882056 Score: 288
Period size: 40 Copynumber: 4.3 Consensus size: 40
100881876 TCCTCGTTCA
* *
100881886 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
100881926 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
100881966 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
100882006 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
100882046 AAGGCCTTCGG
1 AATGCCTTCGG
100882057 ATCTTAGTCC
Statistics
Matches: 125, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 125 1.00
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:100882093 original size:80 final size:80
Alignment explanation
Indices: 100881884--100882109 Score: 249
Period size: 80 Copynumber: 2.8 Consensus size: 80
100881874 GCTCCTCGTT
* * * * * *
100881884 CAAATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCACGAAAGCCTTCGGGACTTAACCCGG
100881949 ATTTAATAACTCGCA
66 ATTTAATAACTCGCA
* * * * *
100881964 CGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGG
1 CAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCACGAAAGCCTTCGGGACTTAACCCGG
* *
100882029 ATTTAGTATCTCGCA
66 ATTTAATAACTCGCA
** * * * *
100882044 CAAAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-AAAGCCTTCAGGACTTAGCCC
1 CAAAGGCCTTCGGGA-CTTAACCCGGATATAATAAC-TAGCACGAAAGCCTTCGGGACTTAACCC
100882107 GGA
64 GGA
100882110 CAGCATTCAA
Statistics
Matches: 128, Mismatches: 16, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
79 3 0.02
80 120 0.94
81 5 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.24
Consensus pattern (80 bp):
CAAAGGCCTTCGGGACTTAACCCGGATATAATAACTAGCACGAAAGCCTTCGGGACTTAACCCGG
ATTTAATAACTCGCA
Found at i:100882093 original size:120 final size:120
Alignment explanation
Indices: 100881886--100882109 Score: 281
Period size: 120 Copynumber: 1.9 Consensus size: 120
100881876 TCCTCGTTCA
* *
100881886 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACGAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGAT
* * * *
100881951 TTAATAACTCGCACGAATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
66 ATAATAACTAGCACGAAAGCCTTCAGGACTTAACCCGGATTTAATAACTCGCACG
* ** * **
100882006 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACAAAGGCCTTC-GGATCTTAGTCCGGA
1 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGA-CTTAACCCGGA
* * *
100882070 TATATTCACTTAGCAC-AAAGCCTTCAGGACTTAGCCCGGA
65 TATAATAAC-TAGCACGAAAGCCTTCAGGACTTAACCCGGA
100882110 CAGCATTCAA
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
119 3 0.03
120 79 0.91
121 5 0.06
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACAAAGGCCTTCGGGACTTAACCCGGAT
ATAATAACTAGCACGAAAGCCTTCAGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:100882118 original size:41 final size:41
Alignment explanation
Indices: 100882041--100882118 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
100882031 TTAGTATCTC
* * *
100882041 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
100882082 GCACAAA-GCCTTCAGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
100882119 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:100889740 original size:40 final size:40
Alignment explanation
Indices: 100889642--100889904 Score: 298
Period size: 40 Copynumber: 6.6 Consensus size: 40
100889632 TCCTCGTTCA
* * * * *
100889642 AATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
100889681 AATGCCTTCGGGACATAACCCAGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
*
100889721 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCTCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
100889761 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
100889801 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* ** * * * *
100889841 AAGGCCTTC-GGATCTTAGTCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
100889881 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
100889905 CAGCATTCAA
Statistics
Matches: 196, Mismatches: 24, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
39 36 0.18
40 152 0.78
41 8 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:100889913 original size:41 final size:41
Alignment explanation
Indices: 100889836--100889913 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
100889826 TTAGTATCTC
* * *
100889836 GCACAAAGGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
100889877 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAAGGCCTTC-GGATCTTAGCCCGGACA-CATTCA
100889914 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
GCACAAAGGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:100897336 original size:18 final size:18
Alignment explanation
Indices: 100897295--100897329 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
100897285 ATTAAAAAAT
100897295 ATATATATAATATTTAAA
1 ATATATATAATATTTAAA
100897313 ATATATATAAT-TTTAAA
1 ATATATATAATATTTAAA
100897330 CTAATATCCT
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:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
ATATATATAATATTTAAA
Found at i:100898815 original size:20 final size:22
Alignment explanation
Indices: 100898759--100898815 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 22
100898749 ATTAGATTGG
100898759 TTTTTTTTAAAT--GATTTTGA
1 TTTTTTTTAAATAGGATTTTGA
*
100898779 TTTTTTTTAGAGTTAGGATTTT-A
1 TTTTTTTTA-A-ATAGGATTTTGA
100898802 -TTTTTTTAAATAGG
1 TTTTTTTTAAATAGG
100898816 GTTAGGGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
20 13 0.42
21 2 0.06
22 9 0.29
23 1 0.03
24 6 0.19
ACGTcount: A:0.25, C:0.00, G:0.14, T:0.61
Consensus pattern (22 bp):
TTTTTTTTAAATAGGATTTTGA
Found at i:100905780 original size:42 final size:43
Alignment explanation
Indices: 100905674--100905843 Score: 193
Period size: 43 Copynumber: 4.0 Consensus size: 43
100905664 TCGTAAAATT
* * * *
100905674 CCAACGTCCCAGACATGGTCTTATATGTAATCACATATCGATA
1 CCAACGTCCCAGACATGGTCTTACACGCAATCACATATCGATG
*
100905717 CC-ACTGTCCCAGACATGGTCTTACACG-AA-CTCATATACGATG
1 CCAAC-GTCCCAGACATGGTCTTACACGCAATCACATAT-CGATG
* * *
100905759 CCAATGTCCCAGACATGGTCTTACACGCAAATCACAAATTGATG
1 CCAACGTCCCAGACATGGTCTTACACGC-AATCACATATCGATG
* * *
100905803 CCAACGTCCCAGACGTGGTCTTACATGAAATCACATATCGA
1 CCAACGTCCCAGACATGGTCTTACACGCAATCACATATCGA
100905844 AATCATATGT
Statistics
Matches: 107, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
41 6 0.06
42 32 0.30
43 34 0.32
44 30 0.28
45 5 0.05
ACGTcount: A:0.32, C:0.28, G:0.16, T:0.24
Consensus pattern (43 bp):
CCAACGTCCCAGACATGGTCTTACACGCAATCACATATCGATG
Found at i:100914980 original size:16 final size:17
Alignment explanation
Indices: 100914959--100915002 Score: 63
Period size: 16 Copynumber: 2.5 Consensus size: 17
100914949 TTTTTGCATT
100914959 CATTACATTGCATC-TG
1 CATTACATTGCATCATG
100914975 CATTACATTGCATCATATG
1 CATTACATTGCATC--ATG
100914994 CATTACATT
1 CATTACATT
100915003 TTTTTAAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
16 14 0.56
19 11 0.44
ACGTcount: A:0.30, C:0.23, G:0.09, T:0.39
Consensus pattern (17 bp):
CATTACATTGCATCATG
Found at i:100917885 original size:44 final size:45
Alignment explanation
Indices: 100917815--100918268 Score: 224
Period size: 44 Copynumber: 9.9 Consensus size: 45
100917805 CATCATGGCG
* * *
100917815 AATCTTATCTCTCTGAAATTGTAGTGGAGCAGATTGAAGCCA-CT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCT
* ** *
100917859 AATCTTATCTCCCTGATGTTGCAGTGGAGCAGATTGAAGATAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCT
* * * * *
100917904 AATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAGCTA--T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCT
* * * * ** * *
100917947 AAATCTTATAC-CTCTGAAGTTTCAATAGG-TCAGATCAAATCTACCATGTT
1 -AATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAA---GCCA-GCT
* *
100917997 GAATCTTATCTCCCTGAAGTTGCTA-TTGAGCAGATTGAAGCCA-CC
1 -AATCTTATCTCCCTGAAGTTGC-AGTGGAGCAGATTGAAGCCAGCT
** ** * * * * *
100918042 AGCCTTATCTTTCTGAAGTTGCAGCGGAGCAGACTGAAGACATCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCT
* ** *
100918087 AATCTTATTTCCCTGAAGTT-CTAGTGGAATAGATTGAAGCTACAAATCAT
1 AATCTTATCTCCCTGAAGTTGC-AGTGGAGCAGATTGAAGC--C--AGC-T
* *
100918137 GGAGAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCA-CC
1 ----AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCT
** * * ** * * * *
100918185 AGCCTTATCTCCCAGAAGTTACAGCAGAGTAGACTGAAGACAGCG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCT
* * *
100918230 AATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
100918269 GTACAAATTA
Statistics
Matches: 306, Mismatches: 77, Indels: 53
0.70 0.18 0.12
Matches are distributed among these distances:
43 1 0.00
44 131 0.43
45 97 0.32
47 6 0.02
49 6 0.02
50 28 0.09
51 1 0.00
52 1 0.00
54 34 0.11
55 1 0.00
ACGTcount: A:0.31, C:0.20, G:0.21, T:0.29
Consensus pattern (45 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGCCAGCT
Found at i:100917934 original size:89 final size:89
Alignment explanation
Indices: 100917812--100918106 Score: 238
Period size: 89 Copynumber: 3.3 Consensus size: 89
100917802 GGTCATCATG
* * * * * * *
100917812 GCGAATCTTATCTCTCTGAAATTGTAGTGGAGCAGATTGAAGCCACTAATCTTATCTCCCTGATG
1 GCGAATCTTATCTCCCTGAAGTTGCAATAGAGCAGATTGAAGCCACTAATCTTATCTCTCTGAAG
100917877 TTGCAGTGGAGCAGATTGAAGATA
66 TTGCAGTGGAGCAGATTGAAGATA
* * *
100917901 GCGAATCTTATCTCTCTGAAGTTGCAATAGAGCAGATTAAAGCTA-TAAATCTTATAC-CTCTGA
1 GCGAATCTTATCTCCCTGAAGTTGCAATAGAGCAGATTGAAGCCACT-AATCTTAT-CTCTCTGA
* * * **
100917964 AGTTTCAATAGGTCAGATCAAATCT-ACCAT-
64 AGTTGCAGT-GG--AG--CAGAT-TGAAGATA
* * * * ** *
100917994 GTTGAATCTTATCTCCCTGAAGTTGCTATTGAGCAGATTGAAGCCACCAGCCTTATCTTTCTGAA
1 G-CGAATCTTATCTCCCTGAAGTTGCAATAGAGCAGATTGAAGCCACTAATCTTATCTCTCTGAA
* * *
100918059 GTTGCAGCGGAGCAGACTGAAGACA
65 GTTGCAGTGGAGCAGATTGAAGATA
* *
100918084 TCGAATCTTATTTCCCTGAAGTT
1 GCGAATCTTATCTCCCTGAAGTT
100918107 CTAGTGGAAT
Statistics
Matches: 159, Mismatches: 34, Indels: 26
0.73 0.16 0.12
Matches are distributed among these distances:
88 2 0.01
89 83 0.52
90 3 0.02
91 2 0.01
92 2 0.01
93 4 0.03
94 62 0.39
95 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.31
Consensus pattern (89 bp):
GCGAATCTTATCTCCCTGAAGTTGCAATAGAGCAGATTGAAGCCACTAATCTTATCTCTCTGAAG
TTGCAGTGGAGCAGATTGAAGATA
Found at i:100918171 original size:143 final size:143
Alignment explanation
Indices: 100917997--100918639 Score: 780
Period size: 143 Copynumber: 4.5 Consensus size: 143
100917987 CTACCATGTT
* * * **
100917997 GAATCTTATCTCCCTGAAGTTGCTA-TTGAGCAGATTGAAGCCACCAGCCTTATCTTTCTGAAGT
1 GAATCTTATCTCCCTAAAGTTAC-AGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGT
* * *
100918061 TGCAGCGGAGCAGACTGAAGACATCGAATCTTATTTCCCTGAAGTTCTAGTGGAATAGATTGAAG
65 TGCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTCTAGTGGAACAGATTAAAG
*
100918126 CTACAAATCATGGA-
130 CTACAAATTAT-GAC
* *
100918140 GAATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCAGAAGTT
1 GAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* * * * * *
100918205 ACAGCAGAGTAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTGTAGTGGAACAGATTGAAGG
66 GCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTCTAGTGGAACAGATTAAAGC
*
100918270 TACAAATTATAAC
131 TACAAATTATGAC
* * * * * * *
100918283 GAAACTTATCTTCTTGAAGTTACGGTAGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGCT
1 GAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* * * * * *
100918348 ACAGCGGAGTAGACTAAAGACTGCGAATCTTATTTCCCTGATA-TTGTAATGGAACAGATTAAAG
66 GCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGA-AGTTCTAGTGGAACAGATTAAAG
100918412 CTACAAATTATGAC
130 CTACAAATTATGAC
* * * * *
100918426 GAATCTTATCTTCCTAAAGTTTCAGTGGAGTAGATTGAAGCCATCAGCCTTATCTCCCTAAAGTT
1 GAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
* * *
100918491 GCAGCGAAACAGACTGAAGACAGCGAATCTTATTTCCCT-AACATTGC-AGTGGAACAGGA-TAA
66 GCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAA-GTT-CTAGTGGAACA-GATTAA
100918553 AGCTACAAATTAT-AGC
128 AGCTACAAATTATGA-C
* * *
100918569 GAATCTTATCAT-CCTAAAGTTACAGTGAAGCAGATTAAAGCCACCAGTCTTATCTCCCTGAAGT
1 GAATCTTATC-TCCCTAAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGT
100918633 TGCAGCG
65 TGCAGCG
100918640 AAGTAGATTG
Statistics
Matches: 436, Mismatches: 55, Indels: 18
0.86 0.11 0.04
Matches are distributed among these distances:
141 1 0.00
142 4 0.01
143 427 0.98
144 4 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (143 bp):
GAATCTTATCTCCCTAAAGTTACAGTGGAGCAGATTGAAGCCACCAGCCTTATCTCCCTGAAGTT
GCAGCGGAGCAGACTGAAGACAGCGAATCTTATTTCCCTGAAGTTCTAGTGGAACAGATTAAAGC
TACAAATTATGAC
Found at i:100918677 original size:44 final size:44
Alignment explanation
Indices: 100918572--100918678 Score: 110
Period size: 44 Copynumber: 2.4 Consensus size: 44
100918562 TTATAGCGAA
* * *
100918572 TCTTATCAT-CCTAAAGTTACAGTGAAGCAGATTAAAGCCACCAG
1 TCTTATC-TCCCTAAAGTTGCAGCGAAGCAGATTAAAGCCACAAG
* * *
100918616 TCTTATCTCCCTGAAGTTGCAGCGAAGTAGATTGAAA-CTACAAG
1 TCTTATCTCCCTAAAGTTGCAGCGAAGCAGATT-AAAGCCACAAG
* *
100918660 TCTTATTTCTCTAAAGTTG
1 TCTTATCTCCCTAAAGTTG
100918679 TGGTGGAGGG
Statistics
Matches: 52, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
43 1 0.02
44 48 0.92
45 3 0.06
ACGTcount: A:0.32, C:0.21, G:0.17, T:0.31
Consensus pattern (44 bp):
TCTTATCTCCCTAAAGTTGCAGCGAAGCAGATTAAAGCCACAAG
Found at i:100929786 original size:3 final size:3
Alignment explanation
Indices: 100929778--100929840 Score: 117
Period size: 3 Copynumber: 20.7 Consensus size: 3
100929768 TCTTTTCTGT
100929778 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
100929826 TTA TTA TTA TCTA TT
1 TTA TTA TTA T-TA TT
100929841 CAAGCATTTT
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 56 0.95
4 3 0.05
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:100930504 original size:25 final size:25
Alignment explanation
Indices: 100930476--100930525 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
100930466 TTTCAAAGTA
100930476 AGGCAATATTCTGTGTTTAGAGACT
1 AGGCAATATTCTGTGTTTAGAGACT
*
100930501 AGGCAATATTTTGTGTTTAGAGACT
1 AGGCAATATTCTGTGTTTAGAGACT
100930526 CGAGAAAGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.28, C:0.10, G:0.24, T:0.38
Consensus pattern (25 bp):
AGGCAATATTCTGTGTTTAGAGACT
Found at i:100934403 original size:17 final size:17
Alignment explanation
Indices: 100934381--100934419 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
100934371 CCAATAATTA
100934381 TTTTAAAAAGTCAGAAT
1 TTTTAAAAAGTCAGAAT
100934398 TTTTAAAAAGTCAGAAT
1 TTTTAAAAAGTCAGAAT
100934415 TTTTA
1 TTTTA
100934420 TGTAATTCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.44, C:0.05, G:0.10, T:0.41
Consensus pattern (17 bp):
TTTTAAAAAGTCAGAAT
Found at i:100935396 original size:13 final size:13
Alignment explanation
Indices: 100935378--100935411 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
100935368 TGATCTGCTG
100935378 TAATGTGTGTGGA
1 TAATGTGTGTGGA
*
100935391 TAATGTATGTGGA
1 TAATGTGTGTGGA
*
100935404 TAAGGTGT
1 TAATGTGT
100935412 TGAAATTGGG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.26, C:0.00, G:0.35, T:0.38
Consensus pattern (13 bp):
TAATGTGTGTGGA
Found at i:100943692 original size:51 final size:51
Alignment explanation
Indices: 100943614--100943825 Score: 361
Period size: 51 Copynumber: 4.2 Consensus size: 51
100943604 ATTTCTGATC
*
100943614 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
* *
100943665 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
* *
100943716 AGTGATAAATGATAAGTGGTAGCTTTAGCTACATTTATCTGATCAATGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
* *
100943767 AGTGATAAGTGATAAGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
1 AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
100943818 AGTGATAA
1 AGTGATAA
100943826 ATGTGATCAG
Statistics
Matches: 150, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 150 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (51 bp):
AGTGATAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACA
Found at i:100943776 original size:102 final size:102
Alignment explanation
Indices: 100943614--100943828 Score: 403
Period size: 102 Copynumber: 2.1 Consensus size: 102
100943604 ATTTCTGATC
* *
100943614 AGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
100943679 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
*
100943716 AGTGATAAATGATAAGTGGTAGCTTTAGCTACATTTATCTGATCAATGACAAGTGATAAGTGATA
1 AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
100943781 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
66 AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
100943818 AGTGATAAATG
1 AGTGATAAATG
100943829 TGATCAGTGT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 110 1.00
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.32
Consensus pattern (102 bp):
AGTGATAAATGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAATGACAAGTGATAAGTGATA
AGTGGTAGTTTTAGCTACACTTATCTGATCAGTGACA
Found at i:100945066 original size:43 final size:44
Alignment explanation
Indices: 100945007--100945097 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 44
100944997 CTATGAAAGA
100945007 AATTAAAAGTTTAGGGGTAAAATGATAATTTTATTTAGAGCATT
1 AATTAAAAGTTTAGGGGTAAAATGATAATTTTATTTAGAGCATT
100945051 AATT-AAAGTTTAGGGGTAAAATGATAATTTTATTTAGAGCATT
1 AATTAAAAGTTTAGGGGTAAAATGATAATTTTATTTAGAGCATT
100945094 AATT
1 AATT
100945098 GAATGTATTA
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 43 0.91
44 4 0.09
ACGTcount: A:0.41, C:0.02, G:0.18, T:0.40
Consensus pattern (44 bp):
AATTAAAAGTTTAGGGGTAAAATGATAATTTTATTTAGAGCATT
Found at i:100945944 original size:28 final size:28
Alignment explanation
Indices: 100945891--100945997 Score: 134
Period size: 28 Copynumber: 4.0 Consensus size: 28
100945881 CACTTTGTGC
100945891 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
* *
100945920 TATTCTGGTGTATTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
100945948 GATACTGGTGTGTTTTGGAGGA-T-TA-
1 TATTCTGGTGTGTTTTGGAGGATTATAT
100945973 TA--CTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
100945998 CTGGTGTGTT
Statistics
Matches: 69, Mismatches: 7, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
23 18 0.26
24 1 0.01
25 3 0.04
26 2 0.03
27 1 0.01
28 27 0.39
29 17 0.25
ACGTcount: A:0.20, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:100945992 original size:51 final size:56
Alignment explanation
Indices: 100945895--100945997 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 56
100945885 TTGTGCTATT
100945895 CTGGTGTGTTTTGGATGGATTATATTATTCTGGTGTATTTGGGAGGATTATATGATA
1 CTGGTGTGTTTTGGATGGATTATATTA-TCTGGTGTATTTGGGAGGATTATATGATA
* *
100945952 CTGGTGTGTTTTGGA-GGA-T-TA-TA-CTGGTGTGTTTTGGAGGATTATA
1 CTGGTGTGTTTTGGATGGATTATATTATCTGGTGTATTTGGGAGGATTATA
100945998 CTGGTGTGTT
Statistics
Matches: 44, Mismatches: 2, Indels: 6
0.85 0.04 0.12
Matches are distributed among these distances:
51 21 0.48
53 2 0.05
54 2 0.05
55 1 0.02
56 3 0.07
57 15 0.34
ACGTcount: A:0.19, C:0.04, G:0.32, T:0.45
Consensus pattern (56 bp):
CTGGTGTGTTTTGGATGGATTATATTATCTGGTGTATTTGGGAGGATTATATGATA
Found at i:100946006 original size:25 final size:23
Alignment explanation
Indices: 100945949--100946011 Score: 126
Period size: 23 Copynumber: 2.7 Consensus size: 23
100945939 GGATTATATG
100945949 ATACTGGTGTGTTTTGGAGGATT
1 ATACTGGTGTGTTTTGGAGGATT
100945972 ATACTGGTGTGTTTTGGAGGATT
1 ATACTGGTGTGTTTTGGAGGATT
100945995 ATACTGGTGTGTTTTGG
1 ATACTGGTGTGTTTTGG
100946012 TTGGACGTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 40 1.00
ACGTcount: A:0.16, C:0.05, G:0.35, T:0.44
Consensus pattern (23 bp):
ATACTGGTGTGTTTTGGAGGATT
Found at i:100946252 original size:21 final size:21
Alignment explanation
Indices: 100946228--100946273 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
100946218 CGTATTTCAA
*
100946228 GCACCTTGTGTGTCGTAGCAG
1 GCACCTCGTGTGTCGTAGCAG
**
100946249 GCACCTCGTGTGTCGTTTCAG
1 GCACCTCGTGTGTCGTAGCAG
100946270 GCAC
1 GCAC
100946274 TTATATGTCG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.13, C:0.28, G:0.30, T:0.28
Consensus pattern (21 bp):
GCACCTCGTGTGTCGTAGCAG
Found at i:100950771 original size:23 final size:25
Alignment explanation
Indices: 100950744--100950795 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 25
100950734 CTTTAAGAAT
**
100950744 AAATAGATAT-TTTTCAAA-TTAGA
1 AAATAGATATATTTAAAAAGTTAGA
*
100950767 AAATATATATATTTAAAAAGTTAGA
1 AAATAGATATATTTAAAAAGTTAGA
100950792 AAAT
1 AAAT
100950796 TTGTAACTTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 9 0.38
24 6 0.25
25 9 0.38
ACGTcount: A:0.54, C:0.02, G:0.08, T:0.37
Consensus pattern (25 bp):
AAATAGATATATTTAAAAAGTTAGA
Found at i:100951431 original size:11 final size:11
Alignment explanation
Indices: 100951404--100951442 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
100951394 GGAAAATAGT
*
100951404 AAAAAATAACA
1 AAAAAATAATA
*
100951415 AGAAAATAATA
1 AAAAAATAATA
*
100951426 AAAAAACAATA
1 AAAAAATAATA
100951437 AAAAAA
1 AAAAAA
100951443 AGGGAAAAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.82, C:0.05, G:0.03, T:0.10
Consensus pattern (11 bp):
AAAAAATAATA
Found at i:100954292 original size:13 final size:13
Alignment explanation
Indices: 100954274--100954302 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
100954264 AACAAAAAAG
100954274 TATATTATTTTGA
1 TATATTATTTTGA
100954287 TATATTATTTTGA
1 TATATTATTTTGA
100954300 TAT
1 TAT
100954303 TGTGAAATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (13 bp):
TATATTATTTTGA
Found at i:100955916 original size:23 final size:22
Alignment explanation
Indices: 100955872--100955931 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 22
100955862 AATAGAGTTC
100955872 AAAATAAGGTATATAAAACAATTT
1 AAAATAA-GTA-ATAAAACAATTT
100955896 AAAATAAGTAATCAAAACAATTT
1 AAAATAAGTAAT-AAAACAATTT
* *
100955919 TAAATAAATAATA
1 AAAATAAGTAATA
100955932 TATAATAACT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
22 3 0.09
23 23 0.70
24 7 0.21
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.28
Consensus pattern (22 bp):
AAAATAAGTAATAAAACAATTT
Found at i:100957219 original size:99 final size:99
Alignment explanation
Indices: 100957105--100957303 Score: 398
Period size: 99 Copynumber: 2.0 Consensus size: 99
100957095 AATGAAATGA
100957105 AATGAAAACAAGAAATAGAAATAAATAGTCAACCTTTTTTCTTGTATTTTTACTTTTTGATTGCT
1 AATGAAAACAAGAAATAGAAATAAATAGTCAACCTTTTTTCTTGTATTTTTACTTTTTGATTGCT
100957170 CAATATTCATGTGTTCTACAATATTTGGGTTTCT
66 CAATATTCATGTGTTCTACAATATTTGGGTTTCT
100957204 AATGAAAACAAGAAATAGAAATAAATAGTCAACCTTTTTTCTTGTATTTTTACTTTTTGATTGCT
1 AATGAAAACAAGAAATAGAAATAAATAGTCAACCTTTTTTCTTGTATTTTTACTTTTTGATTGCT
100957269 CAATATTCATGTGTTCTACAATATTTGGGTTTCT
66 CAATATTCATGTGTTCTACAATATTTGGGTTTCT
100957303 A
1 A
100957304 GGCTTTTATA
Statistics
Matches: 100, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
99 100 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (99 bp):
AATGAAAACAAGAAATAGAAATAAATAGTCAACCTTTTTTCTTGTATTTTTACTTTTTGATTGCT
CAATATTCATGTGTTCTACAATATTTGGGTTTCT
Found at i:100957390 original size:24 final size:24
Alignment explanation
Indices: 100957356--100957419 Score: 71
Period size: 21 Copynumber: 2.8 Consensus size: 24
100957346 TGCTTTTGCT
100957356 TGTTTTCTTGCTTTGTTTCTACTC
1 TGTTTTCTTGCTTTGTTTCTACTC
* * *
100957380 TGTTTTTTTGC-CT-TTT-TGCTC
1 TGTTTTCTTGCTTTGTTTCTACTC
*
100957401 TGTTGTCTTGCTTTGTTTC
1 TGTTTTCTTGCTTTGTTTC
100957420 CTTTTTTTTG
Statistics
Matches: 31, Mismatches: 6, Indels: 6
0.72 0.14 0.14
Matches are distributed among these distances:
21 13 0.42
22 4 0.13
23 4 0.13
24 10 0.32
ACGTcount: A:0.02, C:0.19, G:0.16, T:0.64
Consensus pattern (24 bp):
TGTTTTCTTGCTTTGTTTCTACTC
Found at i:100958020 original size:13 final size:13
Alignment explanation
Indices: 100957981--100958020 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
100957971 TTTAAACCAA
*
100957981 ACTTTTCAAAAGA
1 ACTTTTCAAAAGC
* *
100957994 ACTTTTCCATAGC
1 ACTTTTCAAAAGC
100958007 ACTTTTCAAAAGC
1 ACTTTTCAAAAGC
100958020 A
1 A
100958021 TTGCCAAACT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.38, C:0.23, G:0.07, T:0.33
Consensus pattern (13 bp):
ACTTTTCAAAAGC
Found at i:100973958 original size:22 final size:22
Alignment explanation
Indices: 100973932--100973977 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
100973922 TCTTTCTTAT
100973932 TTAATACAATT-TAATTTTATTA
1 TTAAT-CAATTCTAATTTTATTA
* *
100973954 TTAATTAATTCTAATTTTTTTA
1 TTAATCAATTCTAATTTTATTA
100973976 TT
1 TT
100973978 TAGAATTAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.61
Consensus pattern (22 bp):
TTAATCAATTCTAATTTTATTA
Found at i:100984164 original size:15 final size:15
Alignment explanation
Indices: 100984144--100984173 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
100984134 TGATAGCTTC
100984144 GGCTACACTTATCTG
1 GGCTACACTTATCTG
100984159 GGCTACACTTATCTG
1 GGCTACACTTATCTG
100984174 ATCAAGGAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.20, C:0.27, G:0.20, T:0.33
Consensus pattern (15 bp):
GGCTACACTTATCTG
Found at i:100984171 original size:65 final size:64
Alignment explanation
Indices: 100984094--100984222 Score: 240
Period size: 65 Copynumber: 2.0 Consensus size: 64
100984084 TGATAGCTTC
100984094 GGCTACACTTATCTGATCAAGGAAAAGTGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTG
1 GGCTACACTTATCTGATCAAGGAAAAGTGAAAGT-ATAAGTGATAGCTTCGGCTACACTTATCTG
*
100984159 GGCTACACTTATCTGATCAAGGAAAAGTGAAAGTATAAGTGATAGCTTCGGCTACATTTATCTG
1 GGCTACACTTATCTGATCAAGGAAAAGTGAAAGTATAAGTGATAGCTTCGGCTACACTTATCTG
100984223 ATCAATGACA
Statistics
Matches: 63, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
64 29 0.46
65 34 0.54
ACGTcount: A:0.33, C:0.16, G:0.22, T:0.29
Consensus pattern (64 bp):
GGCTACACTTATCTGATCAAGGAAAAGTGAAAGTATAAGTGATAGCTTCGGCTACACTTATCTG
Found at i:100984278 original size:31 final size:31
Alignment explanation
Indices: 100984240--100984419 Score: 272
Period size: 31 Copynumber: 5.8 Consensus size: 31
100984230 ACAAATGACA
**
100984240 AGTGAAAAGTGGTAGCTTTAGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
100984271 AGTGAAAAGTGGTAGCTTCTGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
100984302 AGTGAAAAGTGGTAG-TTCCGGCTAACTGATC
1 AGTGAAAAGTGGTAGCTT-CGGCTACCTGATC
*
100984333 AGTGAAAAGTGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
100984364 AGTGAAAAATGGTAGCTCCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
100984395 AGTGAATAGTGGTAGCTTCGGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
100984420 AAGTGACAAG
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
30 2 0.01
31 134 0.98
32 1 0.01
ACGTcount: A:0.27, C:0.19, G:0.28, T:0.26
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:100984562 original size:46 final size:43
Alignment explanation
Indices: 100984495--100984609 Score: 117
Period size: 42 Copynumber: 2.6 Consensus size: 43
100984485 TGCTACTGTA
* * * *
100984495 TAAGACCATATCTAGGATATGGCATCAGTGAGATATGTGAT-TCACG
1 TAAGACCATAGCTGGGCTATGGCATCA--GAGATATG-AATAT-ACG
* **
100984541 TAAGACCATAGCTGGGCTATGGCATC-GATATATGAATATGTG
1 TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATACG
100984583 TAAGACCATAGCTGGGCTATGGCATCA
1 TAAGACCATAGCTGGGCTATGGCATCA
100984610 TTATGTGAAA
Statistics
Matches: 60, Mismatches: 7, Indels: 7
0.81 0.09 0.09
Matches are distributed among these distances:
42 29 0.48
43 8 0.13
46 23 0.38
ACGTcount: A:0.31, C:0.17, G:0.25, T:0.27
Consensus pattern (43 bp):
TAAGACCATAGCTGGGCTATGGCATCAGAGATATGAATATACG
Found at i:100984596 original size:42 final size:43
Alignment explanation
Indices: 100984540--100984652 Score: 167
Period size: 42 Copynumber: 2.7 Consensus size: 43
100984530 TGTGATTCAC
*
100984540 GTAAGACCATAGCTGGGCTATGGCATCGA-TATATGAATATGT
1 GTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAAATGT
*
100984582 GTAAGACCATAGCTGGGCTATGGCATC-ATTATGTGAAAATGT
1 GTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAAATGT
* **
100984624 GTAAGACCATAGTTGAACTATGGCATCGA
1 GTAAGACCATAGCTGGGCTATGGCATCGA
100984653 GAAAACGAAG
Statistics
Matches: 64, Mismatches: 5, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
41 1 0.02
42 62 0.97
43 1 0.02
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.27
Consensus pattern (43 bp):
GTAAGACCATAGCTGGGCTATGGCATCGATTATATGAAAATGT
Found at i:100987498 original size:16 final size:16
Alignment explanation
Indices: 100987473--100987512 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
100987463 GCTTATTTAA
*
100987473 TATTTCATTTATTCATT
1 TATTT-ATTTATACATT
*
100987490 TATTTATTTCTACATT
1 TATTTATTTATACATT
100987506 TATTTAT
1 TATTTAT
100987513 CTGCTTTTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 16 0.76
17 5 0.24
ACGTcount: A:0.25, C:0.10, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTATTTATACATT
Found at i:100987543 original size:3 final size:3
Alignment explanation
Indices: 100987531--100987959 Score: 192
Period size: 3 Copynumber: 143.7 Consensus size: 3
100987521 TACTTATATA
* *
100987531 TAT TATT TAT TAT TAC TAT TAT T-T TTT TCA- TAT TAT TAT T-T ATAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT -TAT
* * * * *
100987576 TGT TGT TGT TAT TAT TAT TAT TAT TCCT GAT T-T TAT TAT TAT TAAT
1 TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT TAT T-AT
* * *
100987622 GTAT TAT TAT TAT TCT TCAT T-T TTT TATT TAT TAT TTT CTAT TAT TAT
1 -TAT TAT TAT TAT TAT T-AT TAT TAT TA-T TAT TAT TAT -TAT TAT TAT
* * * *
100987670 TTT TAT T-T T-T TAC TAT TAT TATT TAT TAT CAA TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT TAT TAT TAT
* ** * * * *
100987714 CAT TGC TAT TTT TAT TTT TAT TAC TAT TAT TAT TAT TAT TAT TAC TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
** * * * *
100987762 TAT CCT TAT TAA CA- TAT TAT TAT TAT TAT TAT TTT CTAC T-T TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
* * * * * *
100987806 TAT TA- TAG TAT TAT TAC TAT TAT TGT CAT CA- TAT TAT TA- AACT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* * * * * *
100987849 AAT TAAT T-T TA- TAT TGT TAT TAT GA- CAT TAAA TAT T-T TCT T-T
1 TAT T-AT TAT TAT TAT TAT TAT TAT TAT TAT T-AT TAT TAT TAT TAT
** *
100987891 TCG TATT TAT TAT TAT TAT TAT TAT TAT CAT TAT TAT TAT TAT TATT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T
* *
100987938 TAT TA- CAT TTT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TA
100987960 CCCTTTTATT
Statistics
Matches: 321, Mismatches: 72, Indels: 66
0.70 0.16 0.14
Matches are distributed among these distances:
2 28 0.09
3 260 0.81
4 32 0.10
5 1 0.00
ACGTcount: A:0.29, C:0.06, G:0.03, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:100987648 original size:38 final size:38
Alignment explanation
Indices: 100987585--100987829 Score: 134
Period size: 38 Copynumber: 6.4 Consensus size: 38
100987575 TTGTTGTTGT
* *
100987585 TATTATTATTATTATTCCTGATTTTA-TTATTATTAATG
1 TATTATTATTATTATTCATGATTTTATTTATTATT-ATC
* ** *
100987623 TATTATTATTATTCTTCATTTTTTTATTTATTATTTTC
1 TATTATTATTATTATTCATGATTTTATTTATTATTATC
* ** * *
100987661 TATTATTATTTTTATTTTTTACTATTA-TTATTTATTATC
1 TATTATTATTATTATTCATGA-TTTTATTTA-TTATTATC
*
100987700 -AATATTATTATTA-TCATTGCTATTTTTATTT-TTATTA-C
1 TATTATTATTATTATTCA-TG--A-TTTTATTTATTATTATC
* * ** *
100987738 TATTATTATTATTATT-ATTACTATTA-TCCTTATTAAC
1 TATTATTATTATTATTCATGA-TTTTATTTATTATTATC
*
100987775 ATATTATTATTATTATT-AT--TTTCTACTTTATTATTATAG
1 -TATTATTATTATTATTCATGATTT-TA-TTTATTATTAT-C
*
100987814 TATTATTACTATTATT
1 TATTATTATTATTATT
100987830 GTCATCATAT
Statistics
Matches: 160, Mismatches: 31, Indels: 32
0.72 0.14 0.14
Matches are distributed among these distances:
35 3 0.02
36 13 0.08
37 2 0.01
38 96 0.60
39 38 0.24
40 6 0.04
41 2 0.01
ACGTcount: A:0.28, C:0.07, G:0.02, T:0.63
Consensus pattern (38 bp):
TATTATTATTATTATTCATGATTTTATTTATTATTATC
Found at i:100987665 original size:35 final size:34
Alignment explanation
Indices: 100987584--100987698 Score: 103
Period size: 35 Copynumber: 3.4 Consensus size: 34
100987574 ATTGTTGTTG
* * * *
100987584 TTATTATTATTATTATTCCTGATTTTATTA-TTA
1 TTATTTTTATTATTATTCTTCATTTTTTTATTTA
*
100987617 TTAATGTATTATTATTATTCTTCATTTTTTTATTTA
1 TT-AT-TTTTATTATTATTCTTCATTTTTTTATTTA
* *
100987653 TTATTTTCTATTATTATT-TTTA-TTTTTTA-CTA
1 TTATTTT-TATTATTATTCTTCATTTTTTTATTTA
100987685 TTATTATTTATTAT
1 TTATT-TTTATTAT
100987699 CAATATTATT
Statistics
Matches: 71, Mismatches: 6, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
32 13 0.18
33 11 0.15
34 7 0.10
35 35 0.49
36 5 0.07
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (34 bp):
TTATTTTTATTATTATTCTTCATTTTTTTATTTA
Found at i:100987674 original size:22 final size:22
Alignment explanation
Indices: 100987623--100987698 Score: 77
Period size: 22 Copynumber: 3.4 Consensus size: 22
100987613 ATTATTAATG
*
100987623 TATTATTATTATTCTTC-ATT-T
1 TATTTTTATTATT-TTCTATTAT
*
100987644 TTTTATTTATTATTTTCTATTAT
1 TATT-TTTATTATTTTCTATTAT
100987667 TATTTTTATT-TTTTACTATTAT
1 TATTTTTATTATTTT-CTATTAT
100987689 TATTTATTAT
1 TATTT-TTAT
100987699 CAATATTATT
Statistics
Matches: 47, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
21 10 0.21
22 29 0.62
23 8 0.17
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (22 bp):
TATTTTTATTATTTTCTATTAT
Found at i:100987806 original size:35 final size:35
Alignment explanation
Indices: 100987741--100987829 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
100987731 TTATTACTAT
*
100987741 TATTATTATTATTATTACTATTATCCTTATTAACA
1 TATTATTATTATTATTATTATTATCCTTATTAACA
* * **
100987776 TATTATTATTATTATTATT-TTCTACTTTATTATTA
1 TATTATTATTATTATTATTATTAT-CCTTATTAACA
* *
100987811 TAGTATTATTACTATTATT
1 TATTATTATTATTATTATT
100987830 GTCATCATAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
34 3 0.07
35 43 0.93
ACGTcount: A:0.31, C:0.08, G:0.01, T:0.60
Consensus pattern (35 bp):
TATTATTATTATTATTATTATTATCCTTATTAACA
Found at i:100987966 original size:18 final size:16
Alignment explanation
Indices: 100987896--100987974 Score: 56
Period size: 18 Copynumber: 4.8 Consensus size: 16
100987886 TCTTTTCGTA
100987896 TTTATTATTATT--AT
1 TTTATTATTATTACAT
* *
100987910 TATTATTATCATTATTAT
1 T-TTATTATTATTA-CAT
100987928 TATTATTATTTATTACATT
1 T-TTATTA-TTATTACA-T
*
100987947 TTTATTATTATTACCCT
1 TTTATTATTATTA-CAT
100987964 TTTATT-TTATT
1 TTTATTATTATT
100987975 TTATATTTTT
Statistics
Matches: 54, Mismatches: 4, Indels: 12
0.77 0.06 0.17
Matches are distributed among these distances:
14 1 0.02
15 10 0.19
16 5 0.09
17 13 0.24
18 18 0.33
19 7 0.13
ACGTcount: A:0.28, C:0.06, G:0.00, T:0.66
Consensus pattern (16 bp):
TTTATTATTATTACAT
Found at i:100990038 original size:19 final size:20
Alignment explanation
Indices: 100990003--100990040 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
100989993 TTTTTGCACT
*
100990003 CATTTCATGCATCTGCATTG
1 CATTTCATGCATATGCATTG
100990023 CATTTCAT-CATATGCATT
1 CATTTCATGCATATGCATT
100990041 AAATGTCACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 9 0.53
20 8 0.47
ACGTcount: A:0.24, C:0.24, G:0.11, T:0.42
Consensus pattern (20 bp):
CATTTCATGCATATGCATTG
Found at i:100993056 original size:51 final size:51
Alignment explanation
Indices: 100992974--100993093 Score: 177
Period size: 51 Copynumber: 2.4 Consensus size: 51
100992964 CTCAAACTTA
* *
100992974 CTTCATACTTCATCCGGAATTATTACCTTGTTGCTCTAACTTCAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
* * * *
100993025 CTTCATATTTCATCCGGAATAATTTCTTTGTTGCTCTAGCTTTAACAAGAG
1 CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
*
100993076 CTTCATATTTTATCCGGA
1 CTTCATATTTCATCCGGA
100993094 TAACTTAGTT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
51 62 1.00
ACGTcount: A:0.26, C:0.23, G:0.12, T:0.39
Consensus pattern (51 bp):
CTTCATATTTCATCCGGAATAATTACCTTGTTGCTCTAACTTCAACAAGAG
Found at i:100998042 original size:12 final size:12
Alignment explanation
Indices: 100998025--100998049 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
100998015 GTCATTCCAT
100998025 AAAAAAAGAAGA
1 AAAAAAAGAAGA
100998037 AAAAAAAGAAGA
1 AAAAAAAGAAGA
100998049 A
1 A
100998050 GAAGCAGGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAGAAGA
Found at i:100998245 original size:68 final size:69
Alignment explanation
Indices: 100998160--100998299 Score: 246
Period size: 69 Copynumber: 2.0 Consensus size: 69
100998150 TCCATGTACT
* * *
100998160 ATGGATTTGACTTGAAGTTGACATATTCGA-CCCTCTTTTTTTTGAATTTTCCACTTAAATACAC
1 ATGGAATTGACTTGAAGTTGACATACTCGACCCCTCTTTTTGTTGAATTTTCCACTTAAATACAC
100998224 TAAC
66 TAAC
100998228 ATGGAATTGACTTGAAGTTGACATACTCGACCCCTCTTTTTGTTGAATTTTCCACTTAAATACAC
1 ATGGAATTGACTTGAAGTTGACATACTCGACCCCTCTTTTTGTTGAATTTTCCACTTAAATACAC
100998293 TAAC
66 TAAC
100998297 ATG
1 ATG
100998300 TTTCAAATCC
Statistics
Matches: 68, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
68 28 0.41
69 40 0.59
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.39
Consensus pattern (69 bp):
ATGGAATTGACTTGAAGTTGACATACTCGACCCCTCTTTTTGTTGAATTTTCCACTTAAATACAC
TAAC
Found at i:101005295 original size:31 final size:31
Alignment explanation
Indices: 101005259--101005362 Score: 131
Period size: 31 Copynumber: 3.4 Consensus size: 31
101005249 AATCACATTC
*
101005259 ATATTAAATTAATAAAATATTATCTAGATAA
1 ATATTAAATTAATAAAATATTATCTAAATAA
** * * *
101005290 ATATTAAATT-A-AATTTAATATCTCATATTA
1 ATATTAAATTAATAAAATATTATCT-AAATAA
101005320 ATATTAAATTAATAAAATATTATCTAAATAA
1 ATATTAAATTAATAAAATATTATCTAAATAA
101005351 ATATTAAATTAA
1 ATATTAAATTAA
101005363 ATTAAATTTA
Statistics
Matches: 60, Mismatches: 10, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
29 9 0.15
30 15 0.25
31 27 0.45
32 9 0.15
ACGTcount: A:0.54, C:0.04, G:0.01, T:0.41
Consensus pattern (31 bp):
ATATTAAATTAATAAAATATTATCTAAATAA
Found at i:101005331 original size:61 final size:65
Alignment explanation
Indices: 101005259--101005389 Score: 216
Period size: 66 Copynumber: 2.1 Consensus size: 65
101005249 AATCACATTC
*
101005259 ATATTAAATTAATAAAATATTATCTAGAT-AA-A-T-ATTAAATTAAATTTAATATCTCATATTA
1 ATATTAAATTAATAAAATATTATCTAAATAAATATTAATTAAATTAAATTTAATATCTCATATTA
101005320 ATATTAAATTAATAAAATATTATCTAAATAAATATTAAATTAAATTAAATTTAATATCTCATATT
1 ATATTAAATTAATAAAATATTATCTAAATAAATATT-AATTAAATTAAATTTAATATCTCATATT
101005385 A
65 A
101005386 ATAT
1 ATAT
101005390 ATAGAAAAAT
Statistics
Matches: 64, Mismatches: 1, Indels: 5
0.91 0.01 0.07
Matches are distributed among these distances:
61 28 0.44
62 2 0.03
63 1 0.02
64 1 0.02
66 32 0.50
ACGTcount: A:0.52, C:0.05, G:0.01, T:0.43
Consensus pattern (65 bp):
ATATTAAATTAATAAAATATTATCTAAATAAATATTAATTAAATTAAATTTAATATCTCATATTA
Found at i:101005433 original size:17 final size:15
Alignment explanation
Indices: 101005319--101005434 Score: 53
Period size: 17 Copynumber: 7.3 Consensus size: 15
101005309 ATCTCATATT
101005319 AATATTAAATTAATAA
1 AATATTAAATTAA-AA
101005335 AATATT--ATCTAAATA
1 AATATTAAAT-TAAA-A
101005350 AATATTAAATTAAATTA
1 AATATTAAATTAAA--A
***
101005367 AAT-TT-AA-TATCT
1 AATATTAAATTAAAA
*
101005379 CATATTAATATATAGAAA
1 AATATTAA-AT-TA-AAA
101005397 AATATTAAATTAAATGA
1 AATATTAAATTAAA--A
101005414 AATATTAAATTCATAAA
1 AATATTAAATT-A-AAA
101005431 AATA
1 AATA
101005435 ATATTTTCTT
Statistics
Matches: 77, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
12 2 0.03
13 2 0.03
14 6 0.08
15 15 0.19
16 14 0.18
17 28 0.36
18 8 0.10
19 2 0.03
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (15 bp):
AATATTAAATTAAAA
Found at i:101005675 original size:138 final size:138
Alignment explanation
Indices: 101005427--101005703 Score: 545
Period size: 138 Copynumber: 2.0 Consensus size: 138
101005417 ATTAAATTCA
*
101005427 TAAAAATAATATTTTCTTTAGAAAAGTTAATTTGAAATCAAGTTACTTATAGAATCCCACTAGGT
1 TAAAAATAATATTTTCTTTAGAAAAGTTAATTTGAAATCAAGTTACTTATAGAATCCCACTAGGA
101005492 GTCTAATTTTTCCACTGCTCTACCATCGAAGAATCACAACCACCGTGCCCAATGGTGCCATTGTT
66 GTCTAATTTTTCCACTGCTCTACCATCGAAGAATCACAACCACCGTGCCCAATGGTGCCATTGTT
101005557 GGCGCCAC
131 GGCGCCAC
101005565 TAAAAATAATATTTTCTTTAGAAAAGTTAATTTGAAATCAAGTTACTTATAGAATCCCACTAGGA
1 TAAAAATAATATTTTCTTTAGAAAAGTTAATTTGAAATCAAGTTACTTATAGAATCCCACTAGGA
101005630 GTCTAATTTTTCCACTGCTCTACCATCGAAGAATCACAACCACCGTGCCCAATGGTGCCATTGTT
66 GTCTAATTTTTCCACTGCTCTACCATCGAAGAATCACAACCACCGTGCCCAATGGTGCCATTGTT
101005695 GGCGCCAC
131 GGCGCCAC
101005703 T
1 T
101005704 TCTCCTCGAC
Statistics
Matches: 138, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
138 138 1.00
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.31
Consensus pattern (138 bp):
TAAAAATAATATTTTCTTTAGAAAAGTTAATTTGAAATCAAGTTACTTATAGAATCCCACTAGGA
GTCTAATTTTTCCACTGCTCTACCATCGAAGAATCACAACCACCGTGCCCAATGGTGCCATTGTT
GGCGCCAC
Found at i:101008688 original size:9 final size:9
Alignment explanation
Indices: 101008674--101008701 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
101008664 TCTTTATTTC
101008674 TTTATTTTA
1 TTTATTTTA
101008683 TTTATTTTA
1 TTTATTTTA
101008692 TTTATTTTA
1 TTTATTTTA
101008701 T
1 T
101008702 GTTTTAATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (9 bp):
TTTATTTTA
Found at i:101010453 original size:25 final size:25
Alignment explanation
Indices: 101010425--101010494 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
101010415 CTAAGCATCA
* *
101010425 GTGGTGAATATTTTGTAAAGCATTT
1 GTGGCGAATATTCTGTAAAGCATTT
* *
101010450 GTGGCGAACT-TTCTATAAAGCTTTT
1 GTGGCGAA-TATTCTGTAAAGCATTT
*
101010475 ATGGCGAATATTCTGTAAAG
1 GTGGCGAATATTCTGTAAAG
101010495 TCCTTATGGC
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
24 1 0.03
25 35 0.95
26 1 0.03
ACGTcount: A:0.29, C:0.10, G:0.23, T:0.39
Consensus pattern (25 bp):
GTGGCGAATATTCTGTAAAGCATTT
Found at i:101010514 original size:25 final size:25
Alignment explanation
Indices: 101010438--101010518 Score: 78
Period size: 25 Copynumber: 3.2 Consensus size: 25
101010428 GTGAATATTT
*
101010438 TGTAAAGCAT-TTGTGGCGAACTTTC
1 TGTAAAGC-TCTTATGGCGAACTTTC
* *
101010463 TATAAAGCTTTTATGGCGAA-TATTC
1 TGTAAAGCTCTTATGGCGAACT-TTC
*
101010488 TGTAAAG-TCCTTATGGCGAACTCTC
1 TGTAAAGCT-CTTATGGCGAACTTTC
101010513 TGTAAA
1 TGTAAA
101010519 ACCTTCTTGG
Statistics
Matches: 47, Mismatches: 5, Indels: 8
0.78 0.08 0.13
Matches are distributed among these distances:
24 3 0.06
25 43 0.91
26 1 0.02
ACGTcount: A:0.28, C:0.16, G:0.20, T:0.36
Consensus pattern (25 bp):
TGTAAAGCTCTTATGGCGAACTTTC
Found at i:101011809 original size:16 final size:16
Alignment explanation
Indices: 101011760--101011810 Score: 50
Period size: 16 Copynumber: 3.2 Consensus size: 16
101011750 TAAATTATAT
101011760 ATAGATTTAAAAGAAA
1 ATAGATTTAAAAGAAA
* * * *
101011776 ACAAATATAAACA-TAA
1 ATAGATTTAAA-AGAAA
101011792 ATAGATTTAAAAGAAA
1 ATAGATTTAAAAGAAA
101011808 ATA
1 ATA
101011811 TATACATAAA
Statistics
Matches: 25, Mismatches: 8, Indels: 4
0.68 0.22 0.11
Matches are distributed among these distances:
15 1 0.04
16 23 0.92
17 1 0.04
ACGTcount: A:0.65, C:0.04, G:0.08, T:0.24
Consensus pattern (16 bp):
ATAGATTTAAAAGAAA
Found at i:101011809 original size:28 final size:30
Alignment explanation
Indices: 101011760--101011820 Score: 81
Period size: 28 Copynumber: 2.0 Consensus size: 30
101011750 TAAATTATAT
101011760 ATAGATTTAAAAGAAAACAAATATAAACATAA
1 ATAGATTTAAAAG--AACAAATATAAACATAA
*
101011792 ATAGATTTAAAAG-A-AAATATATACATAA
1 ATAGATTTAAAAGAACAAATATAAACATAA
101011820 A
1 A
101011821 ATAATACAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
28 14 0.50
29 1 0.04
32 13 0.46
ACGTcount: A:0.64, C:0.05, G:0.07, T:0.25
Consensus pattern (30 bp):
ATAGATTTAAAAGAACAAATATAAACATAA
Found at i:101011831 original size:28 final size:28
Alignment explanation
Indices: 101011778--101011831 Score: 65
Period size: 28 Copynumber: 1.9 Consensus size: 28
101011768 AAAAGAAAAC
**
101011778 AAATATAAACATAAATAGATTTAAAAGA
1 AAATATAAACATAAATAGATACAAAAGA
*
101011806 AAATATATACATAAAATA-ATACAAAA
1 AAATATAAACAT-AAATAGATACAAAA
101011832 ACAACAATAT
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
28 17 0.77
29 5 0.23
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (28 bp):
AAATATAAACATAAATAGATACAAAAGA
Done.