Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 79 of 141
Found at i:22797529 original size:43 final size:43
Alignment explanation
Indices: 22797477--22797562 Score: 136
Period size: 43 Copynumber: 2.0 Consensus size: 43
22797467 AGAATTGTAC
* *
22797477 TGGTGGCCTGGACTTAAACGAGAAGTAACGGAGTTTGTAGGGA
1 TGGTGGCCTGGACTTAAACAAGAAGTAAAGGAGTTTGTAGGGA
* *
22797520 TGGTGGCCTGGACTTAAATAAGAAGTAAAGGAGTTTTTAGGGA
1 TGGTGGCCTGGACTTAAACAAGAAGTAAAGGAGTTTGTAGGGA
22797563 AATGTCTGAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (43 bp):
TGGTGGCCTGGACTTAAACAAGAAGTAAAGGAGTTTGTAGGGA
Found at i:22799009 original size:10 final size:10
Alignment explanation
Indices: 22798994--22799018 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
22798984 CCATAATTTA
22798994 TGATACAAAT
1 TGATACAAAT
22799004 TGATACAAAT
1 TGATACAAAT
22799014 TGATA
1 TGATA
22799019 ATGGGTTAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.08, G:0.12, T:0.32
Consensus pattern (10 bp):
TGATACAAAT
Found at i:22799050 original size:26 final size:26
Alignment explanation
Indices: 22799014--22799069 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
22799004 TGATACAAAT
22799014 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22799040 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
22799066 TGAT
1 TGAT
22799070 GGGAATTTCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:22802009 original size:24 final size:24
Alignment explanation
Indices: 22801981--22802031 Score: 84
Period size: 24 Copynumber: 2.1 Consensus size: 24
22801971 TTGTAGAAGG
*
22801981 TTTAGTATTTATTAGTATAATATA
1 TTTAGTATTTATTAGCATAATATA
*
22802005 TTTAGTATTTATTAGCATAATTTA
1 TTTAGTATTTATTAGCATAATATA
22802029 TTT
1 TTT
22802032 CAACTACGAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (24 bp):
TTTAGTATTTATTAGCATAATATA
Found at i:22816550 original size:17 final size:18
Alignment explanation
Indices: 22816530--22816563 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
22816520 AAGTGAATTA
22816530 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
22816547 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
22816564 ATGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:22817315 original size:10 final size:10
Alignment explanation
Indices: 22817297--22817330 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
22817287 TAAAAGATAA
22817297 ATAATTAAAG
1 ATAATTAAAG
*
22817307 ATTATTAAAG
1 ATAATTAAAG
22817317 ATAATTAAAG
1 ATAATTAAAG
22817327 ATAA
1 ATAA
22817331 ATGAAAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.59, C:0.00, G:0.09, T:0.32
Consensus pattern (10 bp):
ATAATTAAAG
Found at i:22817340 original size:20 final size:19
Alignment explanation
Indices: 22817295--22817340 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
22817285 TCTAAAAGAT
* *
22817295 AAATAATTAAAGATTATTA
1 AAATAATTAAAGATAATGA
22817314 AAGATAATTAAAGATAAATGA
1 AA-ATAATTAAAGAT-AATGA
22817335 AAATAA
1 AAATAA
22817341 ATCCTAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 2 0.09
20 16 0.70
21 5 0.22
ACGTcount: A:0.63, C:0.00, G:0.09, T:0.28
Consensus pattern (19 bp):
AAATAATTAAAGATAATGA
Found at i:22817992 original size:8 final size:7
Alignment explanation
Indices: 22817962--22817994 Score: 50
Period size: 7 Copynumber: 4.9 Consensus size: 7
22817952 TAATGCATCT
22817962 TTTTTTC
1 TTTTTTC
22817969 TTTTTTC
1 TTTTTTC
22817976 TTTTTT-
1 TTTTTTC
*
22817982 TTTTTCC
1 TTTTTTC
22817989 TTTTTT
1 TTTTTT
22817995 AATATAATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTTC
Found at i:22819027 original size:6 final size:6
Alignment explanation
Indices: 22819016--22819051 Score: 72
Period size: 6 Copynumber: 6.0 Consensus size: 6
22819006 AATGATAAGA
22819016 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT
22819052 TGGGTTGCCT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 30 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAAAAT
Found at i:22821999 original size:17 final size:18
Alignment explanation
Indices: 22821979--22822012 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
22821969 AAGTGAATTA
22821979 AAATTGCA-AAATTAAAT
1 AAATTGCAGAAATTAAAT
22821996 AAATTGCAGAAATTAAA
1 AAATTGCAGAAATTAAA
22822013 ATGAGGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 8 0.50
18 8 0.50
ACGTcount: A:0.59, C:0.06, G:0.09, T:0.26
Consensus pattern (18 bp):
AAATTGCAGAAATTAAAT
Found at i:22822746 original size:10 final size:10
Alignment explanation
Indices: 22822731--22822764 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
22822721 TAAAAGATAA
22822731 ATAATTAAAG
1 ATAATTAAAG
22822741 ATAATTAAAG
1 ATAATTAAAG
*
22822751 ATAAATAAAG
1 ATAATTAAAG
22822761 ATAA
1 ATAA
22822765 ATCAAAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.09, T:0.26
Consensus pattern (10 bp):
ATAATTAAAG
Found at i:22822765 original size:10 final size:10
Alignment explanation
Indices: 22822731--22822776 Score: 58
Period size: 10 Copynumber: 4.6 Consensus size: 10
22822721 TAAAAGATAA
*
22822731 ATAATTAAAG
1 ATAAATAAAG
*
22822741 ATAATTAAAG
1 ATAAATAAAG
22822751 ATAAATAAAG
1 ATAAATAAAG
22822761 ATAAATCAAA-
1 ATAAAT-AAAG
22822771 ATAAAT
1 ATAAAT
22822777 CAAAAAATTT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
10 31 0.91
11 3 0.09
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (10 bp):
ATAAATAAAG
Found at i:22824854 original size:7 final size:7
Alignment explanation
Indices: 22824842--22824881 Score: 71
Period size: 7 Copynumber: 5.7 Consensus size: 7
22824832 GTTTTAATCA
22824842 ACCTTTC
1 ACCTTTC
22824849 ACCTTTC
1 ACCTTTC
*
22824856 AACTTTC
1 ACCTTTC
22824863 ACCTTTC
1 ACCTTTC
22824870 ACCTTTC
1 ACCTTTC
22824877 ACCTT
1 ACCTT
22824882 CCTTAACTCT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
7 31 1.00
ACGTcount: A:0.17, C:0.40, G:0.00, T:0.42
Consensus pattern (7 bp):
ACCTTTC
Found at i:22832312 original size:30 final size:30
Alignment explanation
Indices: 22832278--22832338 Score: 104
Period size: 30 Copynumber: 2.0 Consensus size: 30
22832268 TAAATCTTAG
* *
22832278 CCTTTTCCACCACCAACTCTACTAGCCACA
1 CCTTTTCCACCACCAAATCCACTAGCCACA
22832308 CCTTTTCCACCACCAAATCCACTAGCCACA
1 CCTTTTCCACCACCAAATCCACTAGCCACA
22832338 C
1 C
22832339 TTGCTCCATT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 29 1.00
ACGTcount: A:0.28, C:0.48, G:0.03, T:0.21
Consensus pattern (30 bp):
CCTTTTCCACCACCAAATCCACTAGCCACA
Found at i:22832904 original size:23 final size:23
Alignment explanation
Indices: 22832867--22832996 Score: 72
Period size: 23 Copynumber: 5.5 Consensus size: 23
22832857 CCTTTTTTGT
22832867 TATTAT-TATATTTCTTAATATTA
1 TATTATATATA-TTCTTAATATTA
* *
22832890 TATTATATATATTCTT-TTAATA
1 TATTATATATATTCTTAATATTA
**
22832912 TATTAGGTATATT-TTAA-ATTCTA
1 TATTATATATATTCTTAATA-T-TA
* *
22832935 TATTACGTATATATATATT-ATACTA
1 TATTA--TATATAT-TCTTAATATTA
* *
22832960 TTTTATGTATATATCTTTAATATTA
1 TATTATATATAT-TC-TTAATATTA
*
22832985 TATTATTTATAT
1 TATTATATATAT
22832997 ATATATTTTT
Statistics
Matches: 81, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
21 3 0.04
22 15 0.19
23 26 0.32
24 6 0.07
25 26 0.32
26 2 0.02
27 3 0.04
ACGTcount: A:0.35, C:0.05, G:0.03, T:0.57
Consensus pattern (23 bp):
TATTATATATATTCTTAATATTA
Found at i:22832960 original size:25 final size:26
Alignment explanation
Indices: 22832932--22833003 Score: 85
Period size: 25 Copynumber: 2.8 Consensus size: 26
22832922 ATTTTAAATT
*
22832932 CTATATTACGTATATATATATT-ATA
1 CTATATTATGTATATATATATTAATA
* *
22832957 CTATTTTATGTATATATCT-TTAATA
1 CTATATTATGTATATATATATTAATA
* *
22832982 TTATATTATTTATATATATATT
1 CTATATTATGTATATATATATT
22833004 TTTTTTTACA
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
24 2 0.05
25 34 0.89
26 2 0.05
ACGTcount: A:0.36, C:0.06, G:0.03, T:0.56
Consensus pattern (26 bp):
CTATATTATGTATATATATATTAATA
Found at i:22833049 original size:22 final size:24
Alignment explanation
Indices: 22833021--22833079 Score: 68
Period size: 25 Copynumber: 2.5 Consensus size: 24
22833011 ACATGTTATC
22833021 TTATGTATATATCTT-A-ACTATA
1 TTATGTATATATCTTAACACTATA
* *
22833043 TTATGTATGTATTTTTAACACTATA
1 TTATGTATATA-TCTTAACACTATA
*
22833068 TTATGTACATAT
1 TTATGTATATAT
22833080 TTTTAATATT
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
22 10 0.33
23 3 0.10
24 2 0.07
25 15 0.50
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.51
Consensus pattern (24 bp):
TTATGTATATATCTTAACACTATA
Found at i:22833069 original size:25 final size:25
Alignment explanation
Indices: 22833037--22833085 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 25
22833027 ATATATCTTA
**
22833037 ACTATATTATGTATGTATTTTTAAC
1 ACTATATTATGTACATATTTTTAAC
22833062 ACTATATTATGTACATATTTTTAA
1 ACTATATTATGTACATATTTTTAA
22833086 TATTATCACG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.35, C:0.08, G:0.06, T:0.51
Consensus pattern (25 bp):
ACTATATTATGTACATATTTTTAAC
Found at i:22833256 original size:8 final size:7
Alignment explanation
Indices: 22833245--22833278 Score: 50
Period size: 8 Copynumber: 4.6 Consensus size: 7
22833235 TATTATTCTA
22833245 ATATTTT
1 ATATTTT
22833252 GATATTTT
1 -ATATTTT
22833260 AATATTTT
1 -ATATTTT
22833268 ATATTTT
1 ATATTTT
22833275 ATAT
1 ATAT
22833279 ATTTTATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
7 11 0.44
8 14 0.56
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (7 bp):
ATATTTT
Found at i:22833262 original size:16 final size:15
Alignment explanation
Indices: 22833238--22833285 Score: 69
Period size: 16 Copynumber: 3.1 Consensus size: 15
22833228 TAATTATTAT
*
22833238 TATTCTAATATTTTGA
1 TATTTTAATATTTT-A
22833254 TATTTTAATATTTTA
1 TATTTTAATATTTTA
22833269 TATTTTATATATTTTA
1 TATTTTA-ATATTTTA
22833285 T
1 T
22833286 TATTCACATC
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 8 0.27
16 22 0.73
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (15 bp):
TATTTTAATATTTTA
Found at i:22833273 original size:7 final size:7
Alignment explanation
Indices: 22833191--22833278 Score: 51
Period size: 7 Copynumber: 12.3 Consensus size: 7
22833181 TATTATGTAC
*
22833191 ATTTTTT
1 ATTTTAT
22833198 ATTTT-T
1 ATTTTAT
22833204 ATTTTAT
1 ATTTTAT
22833211 -TTTT-T
1 ATTTTAT
22833216 ATTTGTCA-
1 ATTT-T-AT
*
22833224 ATATTA-
1 ATTTTAT
22833230 ATTATTATT
1 ATT-TTA-T
*
22833239 ATTCTAAT
1 ATT-TTAT
22833247 ATTTTGAT
1 ATTTT-AT
22833255 ATTTTAAT
1 ATTTT-AT
22833263 ATTTTAT
1 ATTTTAT
22833270 ATTTTAT
1 ATTTTAT
22833277 AT
1 AT
22833279 ATTTTATTAT
Statistics
Matches: 66, Mismatches: 6, Indels: 18
0.73 0.07 0.20
Matches are distributed among these distances:
5 1 0.02
6 16 0.24
7 23 0.35
8 21 0.32
9 5 0.08
ACGTcount: A:0.28, C:0.02, G:0.02, T:0.67
Consensus pattern (7 bp):
ATTTTAT
Found at i:22837212 original size:63 final size:63
Alignment explanation
Indices: 22837113--22837234 Score: 208
Period size: 63 Copynumber: 1.9 Consensus size: 63
22837103 CTTTACTTCT
*
22837113 ATAACCCATCGCTGCAATTTTCCAAATAAGTGCTATTGCAGATTCATTAGCAACTGTTGTTCC
1 ATAACCCATCGCTGCAATTTTCCAAATAAGTCCTATTGCAGATTCATTAGCAACTGTTGTTCC
* * *
22837176 ATAACCCATTGCTGCAATTTTCCAAATATGTCCTATTTCAGATTCATTAGCAACTGTTG
1 ATAACCCATCGCTGCAATTTTCCAAATAAGTCCTATTGCAGATTCATTAGCAACTGTTG
22837235 ATGGAGGTGA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
63 55 1.00
ACGTcount: A:0.29, C:0.23, G:0.13, T:0.35
Consensus pattern (63 bp):
ATAACCCATCGCTGCAATTTTCCAAATAAGTCCTATTGCAGATTCATTAGCAACTGTTGTTCC
Found at i:22839621 original size:34 final size:33
Alignment explanation
Indices: 22839528--22839628 Score: 105
Period size: 34 Copynumber: 3.0 Consensus size: 33
22839518 TTTCTTTAAT
**
22839528 TAATTAAATTAGGGTTTAGGGGTTTAAAATAAA
1 TAATTAAATTAGGGTTTAGGTTTTTAAAATAAA
* * *
22839561 TAAATAAAATTAGGGTTTAAAGTTTTTAAGAA-AAC
1 T-AATTAAATTAGGGTTT-AGGTTTTTAA-AATAAA
*
22839596 TAATTAAATTAGGGTTTAGCTTTTTTAAAATAA
1 TAATTAAATTAGGGTTTAG-GTTTTTAAAATAA
22839629 TATTGTGTTT
Statistics
Matches: 55, Mismatches: 8, Indels: 9
0.76 0.11 0.12
Matches are distributed among these distances:
33 4 0.07
34 39 0.71
35 10 0.18
36 2 0.04
ACGTcount: A:0.44, C:0.02, G:0.16, T:0.39
Consensus pattern (33 bp):
TAATTAAATTAGGGTTTAGGTTTTTAAAATAAA
Found at i:22840136 original size:251 final size:252
Alignment explanation
Indices: 22839713--22840205 Score: 679
Period size: 251 Copynumber: 2.0 Consensus size: 252
22839703 CAGGAAAATT
*
22839713 AATTTTAAGAAGACGGTTCTGAAAAGATAATGTCAAAAACGCTTCAAGCAGGATGCACTGTCACA
1 AATTTTAAGAAGACGGTTCTGAAAAGATAATGTAAAAAACGCTTCAAGCAGGATGCACTGTCACA
* * *
22839778 AAAATTACTAAAAAAAGCTTCCACGTGAACGCTCTTTTTCTATAGTAGTTACTGAAAAAATAATT
66 AAAATTACTAAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAATAGTTACTGAAAAAATAATT
* * *
22839843 TTGAGAAGATGGTTTTGAACAAACAGTGTCAAAAACGCTTCAAGTACGATGCACTGTCAGCAAAA
131 TTGAGAAGATGGTTTTGAACAAACAATGTCAAAAACGCTTCAAGTACGATGCACCGTCAGAAAAA
* * * *
22839908 TTGATTAAAAAAGCTCCCACGTGGACACTCTTTTTCTACAGTAGTTCTTAAAAAAAG
196 TTAATGAAAAAAGCTCCCACATGGACACTCTTTTTCTACACTAGTTCTTAAAAAAAG
* * * * *
22839965 AATTTTGAGAAGACGTTTCTGAAAA-ATAGTGTAAAAAATGCTTCAAGTAGGATGCACTGTCAGC
1 AATTTTAAGAAGACGGTTCTGAAAAGATAATGTAAAAAACGCTTCAAGCAGGATGCACTGTCA-C
* * * *
22840029 -AAAATTGA-TGAAAAAAGCTCCCACGTGGACGTTCTTTTTCTACAATAGTTCCTGAAAAAATAA
65 AAAAATT-ACTAAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAATAGTTACTGAAAAAATAA
** * * * * *
22840092 TTTTGAGAAGAT-GTTTCTGAGTAAATAATGTCAAAAATGCTTCAAGTAGGATGCGCCGTTAGAA
129 TTTTGAGAAGATGGTTT-TGAACAAACAATGTCAAAAACGCTTCAAGTACGATGCACCGTCAGAA
*
22840156 AAATTAATGAAAAAAGCTCCCACATGGACACTCTTTTTTTACACTAGTTC
193 AAATTAATGAAAAAAGCTCCCACATGGACACTCTTTTTCTACACTAGTTC
22840206 CTGTTTGGCC
Statistics
Matches: 210, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
250 4 0.02
251 181 0.86
252 25 0.12
ACGTcount: A:0.38, C:0.16, G:0.17, T:0.29
Consensus pattern (252 bp):
AATTTTAAGAAGACGGTTCTGAAAAGATAATGTAAAAAACGCTTCAAGCAGGATGCACTGTCACA
AAAATTACTAAAAAAAGCTCCCACGTGAACGCTCTTTTTCTACAATAGTTACTGAAAAAATAATT
TTGAGAAGATGGTTTTGAACAAACAATGTCAAAAACGCTTCAAGTACGATGCACCGTCAGAAAAA
TTAATGAAAAAAGCTCCCACATGGACACTCTTTTTCTACACTAGTTCTTAAAAAAAG
Found at i:22840206 original size:126 final size:125
Alignment explanation
Indices: 22839686--22840208 Score: 616
Period size: 126 Copynumber: 4.2 Consensus size: 125
22839676 GATTTTATTT
* * * * * * *
22839686 TTTTTCTACAGTTGTTTCAGGAAAATTAATTTTAAGAAGACGGTTCTGAAAAGATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAAAA-ATAATGTCAAAA
* * * * * * *
22839751 ACGCTTCAAGCAGGATGCACTGTCACAAAAATTACTAAAAAAAGCTTCCACGTGAACGCTC
65 ACGCTTCAAGTAGGATGCACTGTCAGAAAAATTAATGAAAAAAGCTCCCACGTGGACACTC
* * * * *
22839812 TTTTTCTATAGTAGTTACTGAAAAAATAATTTTGAGAAGATGGTTT-TGAACAAACAGTGTCAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGA-CGTTTCTGAA-AAATAATGTCAAA
* * * *
22839876 AACGCTTCAAGTACGATGCACTGTCAGCAAAATTGATTAAAAAAGCTCCCACGTGGACACTC
64 AACGCTTCAAGTAGGATGCACTGTCAGAAAAATTAATGAAAAAAGCTCCCACGTGGACACTC
* * * * *
22839938 TTTTTCTACAGTAGTTCTTAAAAAAAGAATTTTGAGAAGACGTTTCTGAAAAATAGTGTAAAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAAAAATAATGTCAAAAA
* * * **
22840003 TGCTTCAAGTAGGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCACGTGGACGTTC
66 CGCTTCAAGTAGGATGCACTGTCAGAAAAATTAATGAAAAAAGCTCCCACGTGGACACTC
* * *
22840063 TTTTTCTACAATAGTTCCTGAAAAAATAATTTTGAGAAGATGTTTCTGAGTAAATAATGTCAAAA
1 TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGA-AAAATAATGTCAAAA
* * * * *
22840128 ATGCTTCAAGTAGGATGCGCCGTTAGAAAAATTAATGAAAAAAGCTCCCACATGGACACTC
65 ACGCTTCAAGTAGGATGCACTGTCAGAAAAATTAATGAAAAAAGCTCCCACGTGGACACTC
* *
22840189 TTTTTTTACACTAGTTCCTG
1 TTTTTCTACAGTAGTTCCTG
22840209 TTTGGCCTTA
Statistics
Matches: 341, Mismatches: 52, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
125 116 0.34
126 220 0.65
127 5 0.01
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (125 bp):
TTTTTCTACAGTAGTTCCTGAAAAAATAATTTTGAGAAGACGTTTCTGAAAAATAATGTCAAAAA
CGCTTCAAGTAGGATGCACTGTCAGAAAAATTAATGAAAAAAGCTCCCACGTGGACACTC
Found at i:22842336 original size:40 final size:40
Alignment explanation
Indices: 22842272--22842359 Score: 122
Period size: 40 Copynumber: 2.2 Consensus size: 40
22842262 TATTCGGATG
* *
22842272 ATATCCGGGCTAAGATCCAAAGGCATTTGTGCTAGTTACT
1 ATATCCGGACTAAGATCCAAAGGCAATTGTGCTAGTTACT
* * *
22842312 ATATTCGGACTAAGATCCGAAGGCAATTGTGCTAGTTATT
1 ATATCCGGACTAAGATCCAAAGGCAATTGTGCTAGTTACT
*
22842352 ATAACCGG
1 ATATCCGG
22842360 GTTAAGTCCC
Statistics
Matches: 41, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.30
Consensus pattern (40 bp):
ATATCCGGACTAAGATCCAAAGGCAATTGTGCTAGTTACT
Found at i:22842372 original size:40 final size:40
Alignment explanation
Indices: 22842291--22842424 Score: 166
Period size: 40 Copynumber: 3.4 Consensus size: 40
22842281 CTAAGATCCA
* * ** **
22842291 AAGGCATTTGTGCTAGTTACTATATTCGGACTAAGAT-CCG
1 AAGGCATTCGTGCTAGTTATTATAACCGGGTTAAG-TCCCG
22842331 AAGGCAATT-GTGCTAGTTATTATAACCGGGTTAAGTCCCG
1 AAGGC-ATTCGTGCTAGTTATTATAACCGGGTTAAGTCCCG
22842371 AAGGCATTCGTGC-AGGTTATTATAACCGGGTTAAGTCCCG
1 AAGGCATTCGTGCTA-GTTATTATAACCGGGTTAAGTCCCG
22842411 AAGGCATTCGTGCT
1 AAGGCATTCGTGCT
22842425 GGTTGTTACA
Statistics
Matches: 84, Mismatches: 5, Indels: 9
0.86 0.05 0.09
Matches are distributed among these distances:
39 5 0.06
40 76 0.90
41 3 0.04
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (40 bp):
AAGGCATTCGTGCTAGTTATTATAACCGGGTTAAGTCCCG
Found at i:22846642 original size:24 final size:23
Alignment explanation
Indices: 22846586--22846642 Score: 60
Period size: 25 Copynumber: 2.3 Consensus size: 23
22846576 AAAAACTTCT
*
22846586 ATTTTATTAAAAATGTAAAAATA
1 ATTTTATTAAAAATGTAAAAACA
* *
22846609 ATTTACTATTAAAATTTTAAAAACA
1 ATTT--TATTAAAAATGTAAAAACA
22846634 ACTTTTATT
1 A-TTTTATT
22846643 TTATTAAATG
Statistics
Matches: 28, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
23 4 0.14
24 4 0.14
25 17 0.61
26 3 0.11
ACGTcount: A:0.49, C:0.05, G:0.02, T:0.44
Consensus pattern (23 bp):
ATTTTATTAAAAATGTAAAAACA
Found at i:22847089 original size:18 final size:18
Alignment explanation
Indices: 22847063--22847105 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
22847053 GATTGAGAAA
* * *
22847063 AGGAAACATATAAGGGTT
1 AGGATACATATAAAGGCT
22847081 AGGATACATATAAAGGCT
1 AGGATACATATAAAGGCT
22847099 AGGATAC
1 AGGATAC
22847106 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.26, T:0.21
Consensus pattern (18 bp):
AGGATACATATAAAGGCT
Found at i:22848909 original size:30 final size:30
Alignment explanation
Indices: 22848875--22848943 Score: 120
Period size: 30 Copynumber: 2.3 Consensus size: 30
22848865 ATAAATTAAA
*
22848875 GAGAGCTTTAAGAAATTTAAGGAGAAATTT
1 GAGAGATTTAAGAAATTTAAGGAGAAATTT
*
22848905 GAGAGATTTAAGAAATTTAGGGAGAAATTT
1 GAGAGATTTAAGAAATTTAAGGAGAAATTT
22848935 GAGAGATTT
1 GAGAGATTT
22848944 TTTGCTAAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.42, C:0.01, G:0.26, T:0.30
Consensus pattern (30 bp):
GAGAGATTTAAGAAATTTAAGGAGAAATTT
Found at i:22859377 original size:25 final size:24
Alignment explanation
Indices: 22859331--22859389 Score: 64
Period size: 25 Copynumber: 2.4 Consensus size: 24
22859321 TTTTTCTAGG
*
22859331 TTAGGGCTTTTTGCATTCTTAGTCC
1 TTAGGGTTTTTTGCATTCTTAGT-C
** * *
22859356 TTAGGGTTTTTTGGGTTTTTAGTG
1 TTAGGGTTTTTTGCATTCTTAGTC
22859380 TTAGGGTTTT
1 TTAGGGTTTT
22859390 GTTGAAATAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.10, C:0.08, G:0.27, T:0.54
Consensus pattern (24 bp):
TTAGGGTTTTTTGCATTCTTAGTC
Found at i:22859597 original size:34 final size:33
Alignment explanation
Indices: 22859467--22859600 Score: 119
Period size: 34 Copynumber: 4.0 Consensus size: 33
22859457 TAGGAATTTT
* * * *
22859467 AAAA-AATAAAATCAGGATTTAGTGTTTTTTTAA
1 AAAATAATTAAATTAGGGTTTAGTG-TTTTTAAA
* * **
22859500 AAATTAATTAAATTAGAGTTTAG-GAATTTAAA
1 AAAATAATTAAATTAGGGTTTAGTGTTTTTAAA
**
22859532 ATAAATAAATTAAATTAGGGTTTAAAGTTTTTAAA
1 A-AAAT-AATTAAATTAGGGTTTAGTGTTTTTAAA
*
22859567 AAAACTAATTAAATTAGGGTTTAGTTTTTTTAAA
1 AAAA-TAATTAAATTAGGGTTTAGTGTTTTTAAA
22859601 TAATATTTTA
Statistics
Matches: 80, Mismatches: 16, Indels: 9
0.76 0.15 0.09
Matches are distributed among these distances:
32 6 0.08
33 7 0.09
34 58 0.73
35 9 0.11
ACGTcount: A:0.46, C:0.01, G:0.12, T:0.40
Consensus pattern (33 bp):
AAAATAATTAAATTAGGGTTTAGTGTTTTTAAA
Found at i:22860009 original size:93 final size:93
Alignment explanation
Indices: 22859850--22860028 Score: 286
Period size: 93 Copynumber: 1.9 Consensus size: 93
22859840 GTGTCAAAAC
* * * **
22859850 CGCTTCAAGTAGGATGCACTGTCAGCAAAATTGATTAAAAAAGCTCCCATGTGGATGCTCTTTTT
1 CGCTTCAAGCAAGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGATGCTCTTTTT
*
22859915 CTATAGTAGTTCCTAAAAAAAGAATAAA
66 CTACAGTAGTTCCTAAAAAAAGAATAAA
*
22859943 CGCTTCAAGCAAGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGATGTTCTTTTT
1 CGCTTCAAGCAAGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGATGCTCTTTTT
*
22860008 CTACAGTAGTTCCTGAAAAAA
66 CTACAGTAGTTCCTAAAAAAA
22860029 TAATTTTGAG
Statistics
Matches: 78, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 78 1.00
ACGTcount: A:0.36, C:0.19, G:0.17, T:0.28
Consensus pattern (93 bp):
CGCTTCAAGCAAGATGCACTGTCAGCAAAATTGATGAAAAAAGCTCCCACATGGATGCTCTTTTT
CTACAGTAGTTCCTAAAAAAAGAATAAA
Found at i:22871397 original size:26 final size:26
Alignment explanation
Indices: 22871367--22871422 Score: 103
Period size: 26 Copynumber: 2.2 Consensus size: 26
22871357 TGAAATGCCC
22871367 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
22871393 ATCATGGAATATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
22871419 ATCA
1 ATCA
22871423 ATTTTTATCA
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.36, C:0.25, G:0.07, T:0.32
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:22871429 original size:22 final size:23
Alignment explanation
Indices: 22871377--22871429 Score: 63
Period size: 26 Copynumber: 2.2 Consensus size: 23
22871367 ATCATGGAAC
22871377 ATTTACCTAACCCATTATCATGGAAT
1 ATTTACCTAACCCATTATC---GAAT
22871403 ATTTACCTAACCCATTATC-AAT
1 ATTTACCTAACCCATTATCGAAT
*
22871425 TTTTA
1 ATTTA
22871430 TCAATTTGTA
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 7 0.27
26 19 0.73
ACGTcount: A:0.34, C:0.23, G:0.04, T:0.40
Consensus pattern (23 bp):
ATTTACCTAACCCATTATCGAAT
Found at i:22874566 original size:24 final size:23
Alignment explanation
Indices: 22874510--22874566 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 23
22874500 AAGTACTTCT
22874510 ATTTTATTAAAAATATAAAAATA
1 ATTTTATTAAAAATATAAAAATA
22874533 ATTTACTATT-AAAATATTAAAAATA
1 ATTT--TATTAAAAATA-TAAAAATA
22874558 ACTTTTATT
1 A-TTTTATT
22874567 TTGTTAAATG
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
23 4 0.13
24 10 0.33
25 13 0.43
26 3 0.10
ACGTcount: A:0.53, C:0.04, G:0.00, T:0.44
Consensus pattern (23 bp):
ATTTTATTAAAAATATAAAAATA
Found at i:22875012 original size:18 final size:18
Alignment explanation
Indices: 22874986--22875029 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
22874976 GACTAAGAAA
* *
22874986 AGGAAACATATAAGGGTT
1 AGGATACATATAAGGGAT
22875004 AGGATACATATAAGGGAT
1 AGGATACATATAAGGGAT
22875022 AGGATACA
1 AGGATACA
22875030 CATCTGACGT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.45, C:0.07, G:0.27, T:0.20
Consensus pattern (18 bp):
AGGATACATATAAGGGAT
Found at i:22876813 original size:21 final size:21
Alignment explanation
Indices: 22876789--22876832 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
22876779 AAATAATTAA
**
22876789 TTAAAGAGAGCTTTGAGAAAT
1 TTAAAGAGAAATTTGAGAAAT
* *
22876810 TTAAGGAGAAATTTGAGAGAT
1 TTAAAGAGAAATTTGAGAAAT
22876831 TT
1 TT
22876833 GAGAAATTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.02, G:0.25, T:0.32
Consensus pattern (21 bp):
TTAAAGAGAAATTTGAGAAAT
Found at i:22876828 original size:30 final size:30
Alignment explanation
Indices: 22876794--22876858 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
22876784 ATTAATTAAA
*
22876794 GAGAGCTTTGAGAAATTTAAGGAGAAATTT
1 GAGAGATTTGAGAAATTTAAGGAGAAATTT
*
22876824 GAGAGATTTGAGAAATTTAGGGAGAAATTT
1 GAGAGATTTGAGAAATTTAAGGAGAAATTT
22876854 GAGAG
1 GAGAG
22876859 TTTTTTTGCC
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.40, C:0.02, G:0.31, T:0.28
Consensus pattern (30 bp):
GAGAGATTTGAGAAATTTAAGGAGAAATTT
Found at i:22876832 original size:9 final size:9
Alignment explanation
Indices: 22876800--22876857 Score: 53
Period size: 9 Copynumber: 5.8 Consensus size: 9
22876790 TAAAGAGAGC
22876800 TTTGAGAAA
1 TTTGAGAAA
22876809 TTTAAGGAGAAA
1 TTT---GAGAAA
*
22876821 TTTGAGAGA
1 TTTGAGAAA
22876830 TTTGAGAAA
1 TTTGAGAAA
22876839 TTTAGGGAGAAA
1 TTT---GAGAAA
22876851 TTTGAGA
1 TTTGAGA
22876858 GTTTTTTTGC
Statistics
Matches: 41, Mismatches: 2, Indels: 12
0.75 0.04 0.22
Matches are distributed among these distances:
9 23 0.56
12 18 0.44
ACGTcount: A:0.41, C:0.00, G:0.28, T:0.31
Consensus pattern (9 bp):
TTTGAGAAA
Found at i:22884810 original size:24 final size:24
Alignment explanation
Indices: 22884776--22884821 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
22884766 TATATGAAAT
* *
22884776 ATAAATTTTAAATATTTTTAAACA
1 ATAAATATTAAATATTTATAAACA
*
22884800 ATAAATATTAATTATTTATAAA
1 ATAAATATTAAATATTTATAAA
22884822 ATTTAATTAG
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:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (24 bp):
ATAAATATTAAATATTTATAAACA
Found at i:22885676 original size:32 final size:31
Alignment explanation
Indices: 22885628--22885718 Score: 128
Period size: 32 Copynumber: 2.9 Consensus size: 31
22885618 AACAGCCCAG
*
22885628 TGACTTAAGTAAAAACTTTTGAATAGTTCAA
1 TGACTTAAATAAAAACTTTTGAATAGTTCAA
* *
22885659 TGACTTAAAATAAAAACTTTTGAATAGTTTAG
1 TGACTT-AAATAAAAACTTTTGAATAGTTCAA
* *
22885691 TGACTTAAATGAAAACTTTCGAATAGTT
1 TGACTTAAATAAAAACTTTTGAATAGTT
22885719 TAGTAATCAG
Statistics
Matches: 54, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
31 26 0.48
32 28 0.52
ACGTcount: A:0.42, C:0.09, G:0.13, T:0.36
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTTGAATAGTTCAA
Found at i:22885719 original size:31 final size:31
Alignment explanation
Indices: 22885626--22885722 Score: 140
Period size: 31 Copynumber: 3.1 Consensus size: 31
22885616 TTAACAGCCC
* *
22885626 AGTGACTTAAGTAAAAACTTTTGAATAGTTC
1 AGTGACTTAAATAAAAACTTTTGAATAGTTT
*
22885657 AATGACTTAAAATAAAAACTTTTGAATAGTTT
1 AGTGACTT-AAATAAAAACTTTTGAATAGTTT
* *
22885689 AGTGACTTAAATGAAAACTTTCGAATAGTTT
1 AGTGACTTAAATAAAAACTTTTGAATAGTTT
22885720 AGT
1 AGT
22885723 AATCAGATTG
Statistics
Matches: 59, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
31 31 0.53
32 28 0.47
ACGTcount: A:0.41, C:0.08, G:0.14, T:0.36
Consensus pattern (31 bp):
AGTGACTTAAATAAAAACTTTTGAATAGTTT
Found at i:22887337 original size:16 final size:16
Alignment explanation
Indices: 22887318--22887348 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22887308 ATCTTATAAT
22887318 TACATATATATATATG
1 TACATATATATATATG
*
22887334 TACATGTATATATAT
1 TACATATATATATAT
22887349 AGATTCATCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.06, G:0.06, T:0.45
Consensus pattern (16 bp):
TACATATATATATATG
Found at i:22896427 original size:34 final size:35
Alignment explanation
Indices: 22896372--22896438 Score: 100
Period size: 34 Copynumber: 1.9 Consensus size: 35
22896362 CAAACACCAG
*
22896372 AAAATATTTTCCAGTAAATCATTTTACAGAAAAGT
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
* *
22896407 AAAACATTTTCCCG-AAATCATTTTACGGAAAA
1 AAAACATTTTCCAGTAAATCATTTTACAGAAAA
22896439 TATTTTACTG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
34 17 0.59
35 12 0.41
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (35 bp):
AAAACATTTTCCAGTAAATCATTTTACAGAAAAGT
Found at i:22900179 original size:42 final size:41
Alignment explanation
Indices: 22900025--22900180 Score: 131
Period size: 42 Copynumber: 3.7 Consensus size: 41
22900015 TGTGTTATCG
* *
22900025 TGTAGGACCACGTCTGGGACGTTGGCATCGAT-TTGAGATTTA
1 TGTAAGACCACGTCTGGGACGTTGGCATCGATATT--GATTCA
* * * *
22900067 TGTATAAGACCATGTCTGGGACATCGGCATC-ATATTTGATTTCG
1 TG--TAAGACCACGTCTGGGACGTTGGCATCGATA-TTGA-TTCA
22900111 TGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTGATTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTGATT-CA
* *
22900153 TGTAAGACCACGTATGGGATGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
22900181 TGTACGAGTT
Statistics
Matches: 91, Mismatches: 12, Indels: 22
0.73 0.10 0.18
Matches are distributed among these distances:
41 3 0.03
42 51 0.56
43 8 0.09
44 27 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (41 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTGATTCA
Found at i:22903442 original size:22 final size:22
Alignment explanation
Indices: 22903400--22903443 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
22903390 ATTTTAACAC
* *
22903400 TTTTATTATTTTAGTTAATTAT
1 TTTTACTATTTTAATTAATTAT
22903422 TTTTACTATTATTAATT-ATTAT
1 TTTTACTATT-TTAATTAATTAT
22903444 CAGTTTTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (22 bp):
TTTTACTATTTTAATTAATTAT
Found at i:22903571 original size:17 final size:18
Alignment explanation
Indices: 22903526--22903571 Score: 60
Period size: 17 Copynumber: 2.6 Consensus size: 18
22903516 TTTATTTTTA
*
22903526 TTATATATATACGTATATT
1 TTATA-ATATACATATATT
22903545 TTATAA-ATACATATATT
1 TTATAATATACATATATT
22903562 TT-TAATATAC
1 TTATAATATAC
22903572 TTACATACCT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
16 3 0.12
17 16 0.64
18 1 0.04
19 5 0.20
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (18 bp):
TTATAATATACATATATT
Found at i:22906660 original size:44 final size:44
Alignment explanation
Indices: 22906533--22906673 Score: 153
Period size: 42 Copynumber: 3.3 Consensus size: 44
22906523 TATCCTAGAT
* *
22906533 ATGGTCTTACATGTT-ATCACATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACACGTTAATCACATATCGATGCCAATGTCCCAGAC
* ** ** * *
22906576 AAGGTCTTACAC-AAAATCGTATA-CGATGTCGATGTCCCAGAC
1 ATGGTCTTACACGTTAATCACATATCGATGCCAATGTCCCAGAC
* *
22906618 ATGGTCTTACACGTTAATCACAAATCGATGCCAATGTCCCAGAT
1 ATGGTCTTACACGTTAATCACATATCGATGCCAATGTCCCAGAC
*
22906662 GTGGTCTTACAC
1 ATGGTCTTACAC
22906674 AATAACACAT
Statistics
Matches: 76, Mismatches: 19, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
42 27 0.36
43 22 0.29
44 27 0.36
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.28
Consensus pattern (44 bp):
ATGGTCTTACACGTTAATCACATATCGATGCCAATGTCCCAGAC
Found at i:22911444 original size:22 final size:23
Alignment explanation
Indices: 22911416--22911469 Score: 65
Period size: 22 Copynumber: 2.4 Consensus size: 23
22911406 TTTCATAAAA
* * *
22911416 TTTTTAAATATATATTT-GAATT
1 TTTTTAAAAATATATTTAAAACT
*
22911438 TTTTTAAAAATTTATTTAAAACT
1 TTTTTAAAAATATATTTAAAACT
22911461 TTTTTAAAA
1 TTTTTAAAA
22911470 TTTATATATT
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
22 15 0.56
23 12 0.44
ACGTcount: A:0.41, C:0.02, G:0.02, T:0.56
Consensus pattern (23 bp):
TTTTTAAAAATATATTTAAAACT
Found at i:22911455 original size:12 final size:12
Alignment explanation
Indices: 22911434--22911474 Score: 50
Period size: 12 Copynumber: 3.6 Consensus size: 12
22911424 TATATATTTG
*
22911434 AATTTTTTTAAA
1 AATTTATTTAAA
22911446 AATTTATTTAAA
1 AATTTATTTAAA
*
22911458 ACTTT-TTT-AA
1 AATTTATTTAAA
22911468 AATTTAT
1 AATTTAT
22911475 ATATTTGGCT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
10 6 0.24
11 4 0.16
12 15 0.60
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.56
Consensus pattern (12 bp):
AATTTATTTAAA
Found at i:22911639 original size:19 final size:16
Alignment explanation
Indices: 22911602--22911645 Score: 52
Period size: 19 Copynumber: 2.6 Consensus size: 16
22911592 TCATTGTTTT
22911602 AAATTTTTAAAATTTA
1 AAATTTTTAAAATTTA
22911618 AAATTTTTGGAAAATATTA
1 AAATTTTT--AAAAT-TTA
*
22911637 AAACTTTTA
1 AAATTTTTA
22911646 CAAAATTTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
16 8 0.33
17 1 0.04
18 5 0.21
19 10 0.42
ACGTcount: A:0.48, C:0.02, G:0.05, T:0.45
Consensus pattern (16 bp):
AAATTTTTAAAATTTA
Found at i:22911650 original size:19 final size:18
Alignment explanation
Indices: 22911610--22911653 Score: 52
Period size: 19 Copynumber: 2.4 Consensus size: 18
22911600 TTAAATTTTT
* **
22911610 AAAATTTAAAATTTTTGG
1 AAAATTTAAAACTTTTAC
22911628 AAAATATTAAAACTTTTAC
1 AAAAT-TTAAAACTTTTAC
22911647 AAAATTT
1 AAAATTT
22911654 GTAGAATATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
18 7 0.32
19 15 0.68
ACGTcount: A:0.50, C:0.05, G:0.05, T:0.41
Consensus pattern (18 bp):
AAAATTTAAAACTTTTAC
Found at i:22912589 original size:13 final size:13
Alignment explanation
Indices: 22912571--22912601 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
22912561 GCATTAAGCT
22912571 AATTAAAAATAAG
1 AATTAAAAATAAG
22912584 AATTAAAAATAAG
1 AATTAAAAATAAG
22912597 AATTA
1 AATTA
22912602 TAGTTTAAGT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (13 bp):
AATTAAAAATAAG
Found at i:22924868 original size:14 final size:14
Alignment explanation
Indices: 22924843--22924875 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
22924833 TGTATTTTTA
22924843 ATTTTAAAAATATT
1 ATTTTAAAAATATT
22924857 -TTTTATAAAATATT
1 ATTTTA-AAAATATT
22924871 ATTTT
1 ATTTT
22924876 GGTGAGATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
13 5 0.29
14 8 0.47
15 4 0.24
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (14 bp):
ATTTTAAAAATATT
Found at i:22931627 original size:9 final size:9
Alignment explanation
Indices: 22931613--22931642 Score: 51
Period size: 9 Copynumber: 3.2 Consensus size: 9
22931603 ATGAAAAATT
22931613 AAGAATGAA
1 AAGAATGAA
22931622 AAGAATGAAA
1 AAGAATG-AA
22931632 AAGAATGAA
1 AAGAATGAA
22931641 AA
1 AA
22931643 AAAAAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 11 0.55
10 9 0.45
ACGTcount: A:0.70, C:0.00, G:0.20, T:0.10
Consensus pattern (9 bp):
AAGAATGAA
Found at i:22931635 original size:10 final size:10
Alignment explanation
Indices: 22931613--22931643 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
22931603 ATGAAAAATT
22931613 AAGAATG-AA
1 AAGAATGAAA
22931622 AAGAATGAAA
1 AAGAATGAAA
22931632 AAGAATGAAA
1 AAGAATGAAA
22931642 AA
1 AA
22931644 AAAAAGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 7 0.33
10 14 0.67
ACGTcount: A:0.71, C:0.00, G:0.19, T:0.10
Consensus pattern (10 bp):
AAGAATGAAA
Found at i:22932399 original size:25 final size:25
Alignment explanation
Indices: 22932351--22932399 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
22932341 CATAATTCAA
* * *
22932351 ATGAAATGGATTGATTTTGTATATT
1 ATGAAATAGATTGATTATGAATATT
*
22932376 ATGAAATATATTGATTATGAATAT
1 ATGAAATAGATTGATTATGAATAT
22932400 ATGTGTATTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.39, C:0.00, G:0.16, T:0.45
Consensus pattern (25 bp):
ATGAAATAGATTGATTATGAATATT
Found at i:22935533 original size:16 final size:15
Alignment explanation
Indices: 22935497--22935534 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
22935487 AAAATTTTAA
22935497 GTAAAAATAAATATT
1 GTAAAAATAAATATT
*
22935512 GTAAAAATAAATGTT
1 GTAAAAATAAATATT
*
22935527 TTAAAAAT
1 GTAAAAAT
22935535 CTTAGTTTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.34
Consensus pattern (15 bp):
GTAAAAATAAATATT
Found at i:22935604 original size:18 final size:19
Alignment explanation
Indices: 22935571--22935611 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
22935561 TTACTAAAGC
22935571 TTTATTTTTCAGTTTTA-T
1 TTTATTTTTCAGTTTTACT
22935589 TTTATTTTT-AGTTTTTACT
1 TTTATTTTTCAG-TTTTACT
22935608 TTTA
1 TTTA
22935612 AATGCTATGC
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 2 0.10
18 14 0.67
19 5 0.24
ACGTcount: A:0.17, C:0.05, G:0.05, T:0.73
Consensus pattern (19 bp):
TTTATTTTTCAGTTTTACT
Found at i:22937156 original size:22 final size:22
Alignment explanation
Indices: 22937115--22937157 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
22937105 ACACCAAAAC
* *
22937115 AGGTTTTTAGCGGCGTTTTTTT
1 AGGTATTTAGCGGCGCTTTTTT
*
22937137 AGGTATTTAGCGGTGCTTTTT
1 AGGTATTTAGCGGCGCTTTTT
22937158 AGCTCCACTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.09, G:0.28, T:0.51
Consensus pattern (22 bp):
AGGTATTTAGCGGCGCTTTTTT
Found at i:22937451 original size:44 final size:42
Alignment explanation
Indices: 22937393--22937492 Score: 146
Period size: 44 Copynumber: 2.3 Consensus size: 42
22937383 GCGCTTTCTT
* *
22937393 CACAAACGCCGCTAAAAGTCATGTTCTTTAACGGTGTTTTTTTC
1 CACAAACGCCGCTAAAAGTCATGCTCTTTAACGGTG--ATTTTC
* *
22937437 CACAAACGCCGCTAAAGGTCATGCTCTTTAGCGGTGATTTTC
1 CACAAACGCCGCTAAAAGTCATGCTCTTTAACGGTGATTTTC
22937479 CACAAACGCCGCTA
1 CACAAACGCCGCTA
22937493 TAGAACATGA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
42 19 0.37
44 33 0.63
ACGTcount: A:0.26, C:0.27, G:0.18, T:0.29
Consensus pattern (42 bp):
CACAAACGCCGCTAAAAGTCATGCTCTTTAACGGTGATTTTC
Found at i:22937491 original size:42 final size:42
Alignment explanation
Indices: 22937236--22937492 Score: 200
Period size: 42 Copynumber: 6.1 Consensus size: 42
22937226 ATAAACACCA
* * *** *
22937236 CTAAATGTCATGTTCTTTAGCGGCG-CTTAAAAAAAACGCCG
1 CTAAAGGTCATGTTCTTTAGCGGCGATTTTCCACAAACGCCG
* * * *
22937277 CTAAAGATCATGTTCTTTAGCGGC-A-CTTCAAAAAACACGCCG
1 CTAAAGGTCATGTTCTTTAGCGGCGATTTTC-CACAA-ACGCCG
* * * *
22937319 CTAAAGGTCATGTTCTTTAGCGGCGCTTCCTCGA-AAACGCGG
1 CTAAAGGTCATGTTCTTTAGCGGCGATT-TTCCACAAACGCCG
* * * *
22937361 CTAAAGCTAATGTTCTTTAGTC-GCGCTTTCTTCACAAACGCCG
1 CTAAAGGTCATGTTCTTTAG-CGGCGATTT-TCCACAAACGCCG
* * * *
22937404 CTAAAAGTCATGTTCTTTAACGGTGTTTTTTTCCACAAACGCCG
1 CTAAAGGTCATGTTCTTTAGCGGCG--ATTTTCCACAAACGCCG
* *
22937448 CTAAAGGTCATGCTCTTTAGCGGTGATTTTCCACAAACGCCG
1 CTAAAGGTCATGTTCTTTAGCGGCGATTTTCCACAAACGCCG
22937490 CTA
1 CTA
22937493 TAGAACATGA
Statistics
Matches: 176, Mismatches: 28, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
40 1 0.01
41 27 0.15
42 80 0.45
43 28 0.16
44 35 0.20
45 5 0.03
ACGTcount: A:0.26, C:0.25, G:0.19, T:0.29
Consensus pattern (42 bp):
CTAAAGGTCATGTTCTTTAGCGGCGATTTTCCACAAACGCCG
Found at i:22937509 original size:42 final size:42
Alignment explanation
Indices: 22937393--22937512 Score: 127
Period size: 42 Copynumber: 2.8 Consensus size: 42
22937383 GCGCTTTCTT
* * * *
22937393 CACAAACGCCGCTAAA-AGTCATGTTCTTTAACGGTGTTTTTTTC
1 CACAAACGCCGCTAAAGA-ACATGCTCTTTAGCGGTG--ATTTTC
**
22937437 CACAAACGCCGCTAAAGGTCATGCTCTTTAGCGGTGATTTTC
1 CACAAACGCCGCTAAAGAACATGCTCTTTAGCGGTGATTTTC
*
22937479 CACAAACGCCGCTATAGAACATGACT-TTTAGCGG
1 CACAAACGCCGCTAAAGAACATG-CTCTTTAGCGG
22937513 CGCTTTTATA
Statistics
Matches: 67, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
42 33 0.49
43 2 0.03
44 32 0.48
ACGTcount: A:0.27, C:0.25, G:0.19, T:0.29
Consensus pattern (42 bp):
CACAAACGCCGCTAAAGAACATGCTCTTTAGCGGTGATTTTC
Found at i:22938233 original size:26 final size:26
Alignment explanation
Indices: 22938195--22938253 Score: 109
Period size: 26 Copynumber: 2.3 Consensus size: 26
22938185 ATTACAATTT
*
22938195 AATTATTTTATAAGCTATAGAGTAAG
1 AATTATTTGATAAGCTATAGAGTAAG
22938221 AATTATTTGATAAGCTATAGAGTAAG
1 AATTATTTGATAAGCTATAGAGTAAG
22938247 AATTATT
1 AATTATT
22938254 ATGCAACGAG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 32 1.00
ACGTcount: A:0.42, C:0.03, G:0.15, T:0.39
Consensus pattern (26 bp):
AATTATTTGATAAGCTATAGAGTAAG
Found at i:22939394 original size:12 final size:12
Alignment explanation
Indices: 22939357--22939396 Score: 53
Period size: 12 Copynumber: 3.2 Consensus size: 12
22939347 GGGGAATTTT
22939357 GGGGAAAATTGGA
1 GGGGAAAATT-GA
*
22939370 GGGGAAATTTGA
1 GGGGAAAATTGA
*
22939382 GGGGAAAACTGA
1 GGGGAAAATTGA
22939394 GGG
1 GGG
22939397 ATTTTTGGCT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
12 15 0.62
13 9 0.38
ACGTcount: A:0.35, C:0.03, G:0.47, T:0.15
Consensus pattern (12 bp):
GGGGAAAATTGA
Found at i:22939941 original size:20 final size:20
Alignment explanation
Indices: 22939916--22939953 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
22939906 AGTAATGCAT
*
22939916 TTTTAAAAAATAATTACACA
1 TTTTAAAAAATAAATACACA
22939936 TTTTAAAAAATAAATACA
1 TTTTAAAAAATAAATACA
22939954 TCAATATATT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.34
Consensus pattern (20 bp):
TTTTAAAAAATAAATACACA
Found at i:22940184 original size:15 final size:16
Alignment explanation
Indices: 22940154--22940187 Score: 52
Period size: 15 Copynumber: 2.2 Consensus size: 16
22940144 ATTTTTTTAA
*
22940154 ATATTAATTTATATTT
1 ATATTAATTTACATTT
22940170 ATATT-ATTTACATTT
1 ATATTAATTTACATTT
22940185 ATA
1 ATA
22940188 GTCTAAAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 12 0.71
16 5 0.29
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (16 bp):
ATATTAATTTACATTT
Found at i:22940336 original size:7 final size:7
Alignment explanation
Indices: 22940326--22940357 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
22940316 CGTAAATCTT
22940326 AAACCCC
1 AAACCCC
*
22940333 AAACCCT
1 AAACCCC
22940340 AAACCCC
1 AAACCCC
22940347 AAACCCC
1 AAACCCC
22940354 AAAC
1 AAAC
22940358 TGTAAAACTT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.47, C:0.50, G:0.00, T:0.03
Consensus pattern (7 bp):
AAACCCC
Found at i:22940342 original size:21 final size:21
Alignment explanation
Indices: 22940313--22940372 Score: 66
Period size: 21 Copynumber: 2.9 Consensus size: 21
22940303 TGTAAGCCTT
*
22940313 AACCGTAAATCTTAAACCCCA
1 AACCGTAAAACTTAAACCCCA
* * **
22940334 AACCCTAAACCCCAAACCCCA
1 AACCGTAAAACTTAAACCCCA
*
22940355 AACTGTAAAACTTAAACC
1 AACCGTAAAACTTAAACC
22940373 TTGAACCCGT
Statistics
Matches: 30, Mismatches: 9, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.45, C:0.37, G:0.03, T:0.15
Consensus pattern (21 bp):
AACCGTAAAACTTAAACCCCA
Found at i:22940478 original size:21 final size:22
Alignment explanation
Indices: 22940453--22940495 Score: 70
Period size: 21 Copynumber: 2.0 Consensus size: 22
22940443 ACATTAATCC
*
22940453 TAAATCTTAAACCC-TAAACCA
1 TAAATATTAAACCCGTAAACCA
22940474 TAAATATTAAACCCGTAAACCA
1 TAAATATTAAACCCGTAAACCA
22940496 CAAACAACAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.49, C:0.26, G:0.02, T:0.23
Consensus pattern (22 bp):
TAAATATTAAACCCGTAAACCA
Found at i:22941134 original size:114 final size:114
Alignment explanation
Indices: 22940926--22941141 Score: 276
Period size: 114 Copynumber: 1.9 Consensus size: 114
22940916 AAACGGCGCA
* ***
22940926 GTTTTGGTTAACAATTTTGCGACGCTTTCACTAAAGCGCCACTAAAAGTTGCTCTATAGCGGCGT
1 GTTTTGGTTAACAATTTTGCGACGCTTTCACAAAAGCGCCACTAAAAGTTGAAATATAGCGGCGT
* * * *
22940991 TTTCAAATAAGCGCCGCTAATGCATCTATAGGTCAAGCTCGAATGATGC
66 TTTCAAATAAGCGCCACTAAGGCAGCTATAGCTCAAGCTCGAATGATGC
*
22941040 GTTTTGGTTAA-AACTTTTGCGACGC-TTCAGAAGAAGCGCCACTAAAAGTTGAAATATAGCGGC
1 GTTTTGGTTAACAA-TTTTGCGACGCTTTCACAA-AAGCGCCACTAAAAGTTGAAATATAGCGGC
***
22941103 GTTTTCTGGTAAGCGCCACTAACGGC-GCTATAGCTCAAG
64 GTTTTCAAATAAGCGCCACTAA-GGCAGCTATAGCTCAAG
22941142 ACAAAACGTT
Statistics
Matches: 87, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
113 7 0.08
114 78 0.90
115 2 0.02
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (114 bp):
GTTTTGGTTAACAATTTTGCGACGCTTTCACAAAAGCGCCACTAAAAGTTGAAATATAGCGGCGT
TTTCAAATAAGCGCCACTAAGGCAGCTATAGCTCAAGCTCGAATGATGC
Found at i:22941155 original size:114 final size:114
Alignment explanation
Indices: 22940926--22941187 Score: 273
Period size: 114 Copynumber: 2.3 Consensus size: 114
22940916 AAACGGCGCA
* ***
22940926 GTTTTGGTTAACAA-TTTTGCGACGCTTTCACTAAAGCGCCACTAAAAGTTGCTCTATAGCGGCG
1 GTTTTGGTTAA-AACTTTTGCGACGCTTTCACAAAAGCGCCACTAAAAGTTGAAATATAGCGGCG
* * * * ** *
22940990 TTTTCAAATAAGCGCCGCTAATGCATCTATAGGTCAAGCTCGAATGATGC
65 TTTTCAAATAAGCGCCACTAAGGCAGCTATAGCTCAAGCTAAAACGATGC
*
22941040 GTTTTGGTTAAAACTTTTGCGACGC-TTCAGAAGAAGCGCCACTAAAAGTTGAAATATAGCGGCG
1 GTTTTGGTTAAAACTTTTGCGACGCTTTCACAA-AAGCGCCACTAAAAGTTGAAATATAGCGGCG
*** *
22941104 TTTTCTGGTAAGCGCCACTAACGGC-GCTATAGCTCAAGAC-AAAACGTTGC
65 TTTTCAAATAAGCGCCACTAA-GGCAGCTATAGCTCAAG-CTAAAACGATGC
* *
22941154 GTTTCGGTTTAAAACTTTT-CGACGTTTTCTACAA
1 GTTTTGG-TTAAAACTTTTGCGACGCTTTC-ACAA
22941188 CCGCCGCTAT
Statistics
Matches: 122, Mismatches: 19, Indels: 12
0.80 0.12 0.08
Matches are distributed among these distances:
113 7 0.06
114 95 0.78
115 17 0.14
116 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (114 bp):
GTTTTGGTTAAAACTTTTGCGACGCTTTCACAAAAGCGCCACTAAAAGTTGAAATATAGCGGCGT
TTTCAAATAAGCGCCACTAAGGCAGCTATAGCTCAAGCTAAAACGATGC
Found at i:22941405 original size:114 final size:114
Alignment explanation
Indices: 22941204--22942053 Score: 1362
Period size: 114 Copynumber: 7.4 Consensus size: 114
22941194 CTATGGGCTC
22941204 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
*
22941269 CTAATGATGTGCTTTAGCGGCATTTTCTCATAAGCGCCACTAATTCTAA
66 CTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAA
* * * *
22941318 TATACATCAAGACAAAACGCTGCGTTCTGGTTAAGATATTTTGCGGCGCTTTTTATAATACGCCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
* * * *
22941383 CTAATGATGTGCTTTAGTGGCATTTTTTCATAAGCGCCACTAATTTTAAA
66 CTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCT-AA
*
22941433 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATACGCCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
*
22941498 CAAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAA
66 CTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAA
* * *
22941547 TATACATCAAGACCAAACGCTGCATTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCTCCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
*
22941612 CTAATGATGTGCTTTAGCGACGTTTTCTCATAAGCGCCACTAATTCTAAA
66 CTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCT-AA
22941662 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
* * *
22941727 CTAATGCTGTGCTTTAGCGGCATTTTTTCATAAGCGCCACTAATTCTAA
66 CTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAA
* * *
22941776 TATACCTCAAGACCAAATGCTGCGTTTTGGTTAAGATATTTTACGGCGCTTTTTATAATGCGCTG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
*** *
22941841 CTAATTCCGTGCTTTAGTGGCGTTTT-TCATAAGCGCCACTAATTCTAA
66 CTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAA
* * * * *
22941889 TATACCTCAAGACCAAGCACTGCATTTTGGTTAAGATATTTTGCGGCGC-TTTTATAAAGGCGTC
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTAT-AATGCGCC
* *
22941953 GCTAATTATGTGCTTTAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAA
65 GCTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAA
*
22942003 TATACCTCAAGACCAAATGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
22942054 ACAAGTAAAC
Statistics
Matches: 681, Mismatches: 50, Indels: 9
0.92 0.07 0.01
Matches are distributed among these distances:
112 6 0.01
113 95 0.14
114 366 0.54
115 214 0.31
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (114 bp):
TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
CTAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAA
Found at i:22941605 original size:229 final size:228
Alignment explanation
Indices: 22941204--22942053 Score: 1355
Period size: 229 Copynumber: 3.7 Consensus size: 228
22941194 CTATGGGCTC
*
22941204 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATACGCCG
*
22941269 CTAATGATGTGCTTTAGCGGCATTTTCTCATAAGCGCCACTAATTCTAATATACATCAAGACAAA
66 CTAATGATGTGCTTTAGCGGCATTTTCTCATAAGCGCCACTAATTCTAATATACATCAAGACCAA
* *
22941334 ACGCTGCGTTCTGGTTAAGATATTTTGCGGCGCTTTTTATAATACGCCGCTAATGATGTGCTTTA
131 ACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTA
*
22941399 GTGGCATTTTTTCATAAGCGCCACTAATTTTAAA
196 GTGGC-TTTTTTCATAAGCGCCACTAATTCTAAA
22941433 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATACGCCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATACGCCG
* *
22941498 CAAATGATGTGCTTTAGCGGCGTTTTCTCATAAGCGCCACTAATTCTAATATACATCAAGACCAA
66 CTAATGATGTGCTTTAGCGGCATTTTCTCATAAGCGCCACTAATTCTAATATACATCAAGACCAA
* *
22941563 ACGCTGCATTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCTCCGCTAATGATGTGCTTTA
131 ACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTA
* * *
22941628 GCGACGTTTTCTCATAAGCGCCACTAATTCTAAA
196 GTGGC-TTTTTTCATAAGCGCCACTAATTCTAAA
*
22941662 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCG
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATACGCCG
* * *
22941727 CTAATGCTGTGCTTTAGCGGCATTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACCAA
66 CTAATGATGTGCTTTAGCGGCATTTTCTCATAAGCGCCACTAATTCTAATATACATCAAGACCAA
* * * ***
22941792 ATGCTGCGTTTTGGTTAAGATATTTTACGGCGCTTTTTATAATGCGCTGCTAATTCCGTGCTTTA
131 ACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTA
*
22941857 GTGGCGTTTTTCATAAGCGCCACTAATTCT-AA
196 GTGGCTTTTTTCATAAGCGCCACTAATTCTAAA
* * * *
22941889 TATACCTCAAGACCAAGCACTGCATTTTGGTTAAGATATTTTGCGGCGC-TTTTATAA-AGGCGT
1 TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATA--CGC
* * * *
22941952 CGCTAATTATGTGCTTTAGCGGCGTTTTTTCATAAGCGCCACTAATTCTAATATACCTCAAGACC
64 CGCTAATGATGTGCTTTAGCGGCATTTTCTCATAAGCGCCACTAATTCTAATATACATCAAGACC
*
22942017 AAATGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
129 AAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTT
22942054 ACAAGTAAAC
Statistics
Matches: 579, Mismatches: 40, Indels: 6
0.93 0.06 0.01
Matches are distributed among these distances:
226 8 0.01
227 148 0.26
228 23 0.04
229 400 0.69
ACGTcount: A:0.25, C:0.21, G:0.19, T:0.35
Consensus pattern (228 bp):
TATACCTCAAGACCAAACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATACGCCG
CTAATGATGTGCTTTAGCGGCATTTTCTCATAAGCGCCACTAATTCTAATATACATCAAGACCAA
ACGCTGCGTTTTGGTTAAGATATTTTGCGGCGCTTTTTATAATGCGCCGCTAATGATGTGCTTTA
GTGGCTTTTTTCATAAGCGCCACTAATTCTAAA
Found at i:22944012 original size:30 final size:29
Alignment explanation
Indices: 22943920--22944017 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 29
22943910 CCCCACCCCC
* ***
22943920 TTAAAAAGGATAAAATTTTAAAATTAAAAA
1 TTAAAAAGGATAAAATTTT-AATTTAACCT
* ** * *
22943950 TTAAAAAAGATAAAATTACACTTTGACCCCT
1 TTAAAAAGGATAAAATTTTAATTT-A-ACCT
22943981 TTAAAAAGGATAAAATTTTAATTTAATCCT
1 TTAAAAAGGATAAAATTTTAATTTAA-CCT
22944011 TTAAAAA
1 TTAAAAA
22944018 CTACATTTTT
Statistics
Matches: 51, Mismatches: 14, Indels: 6
0.72 0.20 0.08
Matches are distributed among these distances:
29 3 0.06
30 28 0.55
31 20 0.39
ACGTcount: A:0.53, C:0.08, G:0.06, T:0.33
Consensus pattern (29 bp):
TTAAAAAGGATAAAATTTTAATTTAACCT
Found at i:22946898 original size:18 final size:18
Alignment explanation
Indices: 22946875--22946918 Score: 70
Period size: 18 Copynumber: 2.4 Consensus size: 18
22946865 TTCACCTCCA
*
22946875 CAACCATCATCCACAGGC
1 CAACCATCATCCACAGAC
*
22946893 CAACCACCATCCACAGAC
1 CAACCATCATCCACAGAC
22946911 CAACCATC
1 CAACCATC
22946919 GTCTACAAGC
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.36, C:0.48, G:0.07, T:0.09
Consensus pattern (18 bp):
CAACCATCATCCACAGAC
Found at i:22949214 original size:17 final size:17
Alignment explanation
Indices: 22949191--22949242 Score: 54
Period size: 17 Copynumber: 3.1 Consensus size: 17
22949181 GTATGCTCTC
22949191 ATAATTTTTGATATTTT
1 ATAATTTTTGATATTTT
* *
22949208 CTAATTTAT-ATAATTTT
1 ATAATTTTTGAT-ATTTT
22949225 ATAA-TTTTGATATCTTT
1 ATAATTTTTGATAT-TTT
22949242 A
1 A
22949243 AAAGCTTTGG
Statistics
Matches: 28, Mismatches: 4, Indels: 6
0.74 0.11 0.16
Matches are distributed among these distances:
16 7 0.25
17 21 0.75
ACGTcount: A:0.33, C:0.04, G:0.04, T:0.60
Consensus pattern (17 bp):
ATAATTTTTGATATTTT
Found at i:22950202 original size:21 final size:19
Alignment explanation
Indices: 22950163--22950236 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 19
22950153 CACATCTCAT
*
22950163 ATTTTTTTT-ATATTCCCTC
1 ATTTTTTTTGGTATT-CCTC
22950182 ATATTTTTTTGGTATCTCCTC
1 AT-TTTTTTTGGTAT-TCCTC
* * *
22950203 ATGTTTATTGGTTTGTCCTC
1 ATTTTTTTTGGTAT-TCCTC
22950223 ATTTTTTTTGGTAT
1 ATTTTTTTTGGTAT
22950237 ATTCACTTTT
Statistics
Matches: 44, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
19 2 0.05
20 32 0.73
21 9 0.20
22 1 0.02
ACGTcount: A:0.14, C:0.15, G:0.11, T:0.61
Consensus pattern (19 bp):
ATTTTTTTTGGTATTCCTC
Found at i:22950290 original size:39 final size:40
Alignment explanation
Indices: 22950247--22950332 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 40
22950237 ATTCACTTTT
* *
22950247 TTTTTTGTATA-T-CCTTGTATTTTCAGGTAAATTATCACA
1 TTTTTTGTATATTCCCTTATATTTTCA-GTAAATCATCACA
* * * *
22950286 TTTTTTTTATATTCCCTTATTTTTTTAGTAAATCCTCACA
1 TTTTTTGTATATTCCCTTATATTTTCAGTAAATCATCACA
22950326 TTTTTTG
1 TTTTTTG
22950333 GTATCTTCTC
Statistics
Matches: 38, Mismatches: 7, Indels: 3
0.79 0.15 0.06
Matches are distributed among these distances:
39 10 0.26
40 18 0.47
41 10 0.26
ACGTcount: A:0.22, C:0.14, G:0.07, T:0.57
Consensus pattern (40 bp):
TTTTTTGTATATTCCCTTATATTTTCAGTAAATCATCACA
Found at i:22950371 original size:19 final size:19
Alignment explanation
Indices: 22950320--22950371 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
22950310 TTAGTAAATC
*
22950320 CTCACATTTTTTGGTATCTT
1 CTCA-ATTTTTTTGTATCTT
*
22950340 CTCAATTTTTTTTGTATTTT
1 CTCAA-TTTTTTTGTATCTT
22950360 CTCAATTTTTTT
1 CTCAATTTTTTT
22950372 ATACTTGCTC
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 8 0.28
20 21 0.72
ACGTcount: A:0.15, C:0.15, G:0.06, T:0.63
Consensus pattern (19 bp):
CTCAATTTTTTTGTATCTT
Found at i:22950371 original size:20 final size:20
Alignment explanation
Indices: 22950326--22950371 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
22950316 AATCCTCACA
22950326 TTTTTTGGTATCTTCTCAAT
1 TTTTTTGGTATCTTCTCAAT
* *
22950346 TTTTTTTGTATTTTCTCAAT
1 TTTTTTGGTATCTTCTCAAT
22950366 TTTTTT
1 TTTTTT
22950372 ATACTTGCTC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.13, C:0.11, G:0.07, T:0.70
Consensus pattern (20 bp):
TTTTTTGGTATCTTCTCAAT
Found at i:22950382 original size:19 final size:20
Alignment explanation
Indices: 22950340--22950383 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
22950330 TTGGTATCTT
* * *
22950340 CTCAATTTTTTTTGTATTTT
1 CTCAATTTTTTTTATACTTG
22950360 CTCAA-TTTTTTTATACTTG
1 CTCAATTTTTTTTATACTTG
22950379 CTCAA
1 CTCAA
22950384 AAAAATATAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 16 0.76
20 5 0.24
ACGTcount: A:0.20, C:0.16, G:0.05, T:0.59
Consensus pattern (20 bp):
CTCAATTTTTTTTATACTTG
Found at i:22951546 original size:40 final size:40
Alignment explanation
Indices: 22951493--22951628 Score: 139
Period size: 40 Copynumber: 3.4 Consensus size: 40
22951483 GTTTGGATAA
* *
22951493 AAAACACCGCTAAAAATCAAGCATTAGCGGCGCTTTAAAT
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTAAAG
* * * *
22951533 AAAACGCCGCTAAAGACCAAGCATTAGCGGCGCTTTCAGG
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTAAAG
* * * * ***
22951573 AAAACGCCACCAAAAAT-GAGCATTAGCGGCGTTTTTTTG
1 AAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTAAAG
22951612 AAAAACGCCGCTAAAAA
1 -AAAACGCCGCTAAAAA
22951629 CCTAAGCCCA
Statistics
Matches: 78, Mismatches: 17, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
39 17 0.22
40 61 0.78
ACGTcount: A:0.39, C:0.24, G:0.19, T:0.18
Consensus pattern (40 bp):
AAAACGCCGCTAAAAATCAAGCATTAGCGGCGCTTTAAAG
Found at i:22951720 original size:41 final size:41
Alignment explanation
Indices: 22951666--22951816 Score: 205
Period size: 41 Copynumber: 3.7 Consensus size: 41
22951656 CTTTCGGGGC
22951666 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
* * * *
22951707 TTTAGCGGTGTTTTTGAAAAAGCGCCACTAATGCTCTGGGT
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
** * *
22951748 TTTAGCGGCGTTTTCCAAGAAGCGCCGCTAATGCTTAGGGC-
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCA-GGCT
*
22951789 TTTAGCGGCGTTTTTGAAAAAGCACCGC
1 TTTAGCGGCGTTTTTGAAAAAGCGCCGC
22951817 AAAAACGTTT
Statistics
Matches: 93, Mismatches: 16, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
41 91 0.98
42 2 0.02
ACGTcount: A:0.22, C:0.21, G:0.27, T:0.30
Consensus pattern (41 bp):
TTTAGCGGCGTTTTTGAAAAAGCGCCGCTAATGCTCAGGCT
Found at i:22952267 original size:7 final size:7
Alignment explanation
Indices: 22952255--22952306 Score: 61
Period size: 7 Copynumber: 7.6 Consensus size: 7
22952245 GGGTTGTGAT
22952255 TTAGGGG
1 TTAGGGG
22952262 TTAGGGG
1 TTAGGGG
22952269 TTAGGGG
1 TTAGGGG
*
22952276 TTAGGGA
1 TTAGGGG
*
22952283 TTAGGGA
1 TTAGGGG
*
22952290 TT-TGGG
1 TTAGGGG
*
22952296 TTAGGGT
1 TTAGGGG
22952303 TTAG
1 TTAG
22952307 ATTAATTAGT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
6 4 0.10
7 35 0.90
ACGTcount: A:0.17, C:0.00, G:0.48, T:0.35
Consensus pattern (7 bp):
TTAGGGG
Found at i:22952368 original size:7 final size:7
Alignment explanation
Indices: 22952358--22952409 Score: 79
Period size: 7 Copynumber: 7.6 Consensus size: 7
22952348 TGGGTTAGTA
*
22952358 GTTATGG
1 GTTAGGG
22952365 GTTA-GG
1 GTTAGGG
22952371 GTTAGGG
1 GTTAGGG
22952378 GTTAGGG
1 GTTAGGG
*
22952385 GTTTGGG
1 GTTAGGG
22952392 GTTAGGG
1 GTTAGGG
22952399 GTTAGGG
1 GTTAGGG
22952406 GTTA
1 GTTA
22952410 AGAGTTAGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
6 6 0.14
7 36 0.86
ACGTcount: A:0.13, C:0.00, G:0.52, T:0.35
Consensus pattern (7 bp):
GTTAGGG
Found at i:22952416 original size:14 final size:14
Alignment explanation
Indices: 22952358--22952417 Score: 68
Period size: 14 Copynumber: 4.4 Consensus size: 14
22952348 TGGGTTAGTA
*
22952358 GTTATGGGTT-AGG
1 GTTAGGGGTTAAGG
*
22952371 GTTAGGGGTTAGGG
1 GTTAGGGGTTAAGG
* *
22952385 GTTTGGGGTTAGGG
1 GTTAGGGGTTAAGG
*
22952399 GTTAGGGGTTAAGA
1 GTTAGGGGTTAAGG
22952413 GTTAG
1 GTTAG
22952418 TGATTTAAGG
Statistics
Matches: 40, Mismatches: 6, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
13 9 0.22
14 31 0.77
ACGTcount: A:0.17, C:0.00, G:0.50, T:0.33
Consensus pattern (14 bp):
GTTAGGGGTTAAGG
Found at i:22955212 original size:5 final size:5
Alignment explanation
Indices: 22955202--22955253 Score: 104
Period size: 5 Copynumber: 10.4 Consensus size: 5
22955192 AAAACCAATC
22955202 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
1 AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT AATAT
22955252 AA
1 AA
22955254 AAATAATTAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 47 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
AATAT
Found at i:22955445 original size:22 final size:21
Alignment explanation
Indices: 22955419--22955482 Score: 65
Period size: 22 Copynumber: 3.0 Consensus size: 21
22955409 GTACTTTTAA
*
22955419 TTATTTTATTTTTTCTAATTTG
1 TTATTTAATTTTTT-TAATTTG
*
22955441 TTATTAAAATTTTTTTAATTTG
1 TTATT-TAATTTTTTTAATTTG
* * *
22955463 GTGTTTGATTTTTTTAATTT
1 TTATTTAATTTTTTTAATTT
22955483 AGTACTTAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 3
0.80 0.14 0.07
Matches are distributed among these distances:
21 13 0.37
22 15 0.43
23 7 0.20
ACGTcount: A:0.22, C:0.02, G:0.08, T:0.69
Consensus pattern (21 bp):
TTATTTAATTTTTTTAATTTG
Found at i:22958899 original size:23 final size:22
Alignment explanation
Indices: 22958869--22958912 Score: 61
Period size: 23 Copynumber: 2.0 Consensus size: 22
22958859 CCCATATAAT
*
22958869 GAAATTTATTTATTTATTGTTAG
1 GAAATTTAATTATTTA-TGTTAG
*
22958892 GAAATTTAATTGTTTATGTTA
1 GAAATTTAATTATTTATGTTA
22958913 ATTTATTTAT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 5 0.26
23 14 0.74
ACGTcount: A:0.32, C:0.00, G:0.14, T:0.55
Consensus pattern (22 bp):
GAAATTTAATTATTTATGTTAG
Found at i:22959116 original size:43 final size:43
Alignment explanation
Indices: 22959069--22959246 Score: 232
Period size: 43 Copynumber: 4.2 Consensus size: 43
22959059 TTTAGCTGAA
* ** * *
22959069 AAAAGCGCCGCTAAAAGTTATAATTTATAGCGACGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGTTTGTGGG
* *
22959112 AAAAGTGTCGCTAAAGGTCCTAATCT-TAGCGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGTTTGTGGG
* * * *
22959154 AAAAGCGTCGCTAAAGGTCCTGATCTATAGCGGCATTTGTGGA
1 AAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGTTTGTGGG
* *
22959197 AAAAGCGCCGCTAAAGGTCCTGATCTATAGTGGCGTTTGTGGG
1 AAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGTTTGTGGG
22959240 AAAAGCG
1 AAAAGCG
22959247 ACATTGAGTA
Statistics
Matches: 119, Mismatches: 15, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
42 39 0.33
43 80 0.67
ACGTcount: A:0.28, C:0.17, G:0.29, T:0.26
Consensus pattern (43 bp):
AAAAGCGCCGCTAAAGGTCCTAATCTATAGCGGCGTTTGTGGG
Found at i:22959150 original size:42 final size:43
Alignment explanation
Indices: 22959094--22959246 Score: 236
Period size: 43 Copynumber: 3.6 Consensus size: 43
22959084 AGTTATAATT
* * *
22959094 TATAGCGACGTTTGTGGGAAAAGTGTCGCTAAAGGTCCTAATC
1 TATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGATC
22959137 T-TAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGATC
1 TATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGATC
* * *
22959179 TATAGCGGCATTTGTGGAAAAAGCGCCGCTAAAGGTCCTGATC
1 TATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGATC
*
22959222 TATAGTGGCGTTTGTGGGAAAAGCG
1 TATAGCGGCGTTTGTGGGAAAAGCG
22959247 ACATTGAGTA
Statistics
Matches: 100, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
42 39 0.39
43 61 0.61
ACGTcount: A:0.25, C:0.17, G:0.31, T:0.26
Consensus pattern (43 bp):
TATAGCGGCGTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGATC
Found at i:22959409 original size:43 final size:42
Alignment explanation
Indices: 22959347--22959437 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 42
22959337 TTACGAAGTG
* *
22959347 GCGTTTGTGGGAAAGCGCCGCTAAAAGTCTTGATC-TATAGCA
1 GCGTTTGTGGAAAAGCGCCGCTAAAAGTCCTGATCAT-TAGCA
* *
22959389 GCGTTTGTGAGAAAAGCGCCGCTAAATGTCCTGATCATTAGCG
1 GCGTTTGTG-GAAAAGCGCCGCTAAAAGTCCTGATCATTAGCA
22959432 GCGTTT
1 GCGTTT
22959438 ATTTCTAAAA
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 9 0.21
43 33 0.77
44 1 0.02
ACGTcount: A:0.24, C:0.20, G:0.29, T:0.27
Consensus pattern (42 bp):
GCGTTTGTGGAAAAGCGCCGCTAAAAGTCCTGATCATTAGCA
Found at i:22960831 original size:21 final size:22
Alignment explanation
Indices: 22960793--22960840 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
22960783 TTTAATTTAG
*
22960793 TTTTGTATTTTTATTTTTAAGAA
1 TTTTGTATTTTCATTTTTAA-AA
22960816 TTTTGT-TTTTCATTTTTAAAA
1 TTTTGTATTTTCATTTTTAAAA
22960837 TTTT
1 TTTT
22960841 AAAATTTAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
21 6 0.25
22 12 0.50
23 6 0.25
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (22 bp):
TTTTGTATTTTCATTTTTAAAA
Found at i:22962095 original size:17 final size:17
Alignment explanation
Indices: 22962045--22962096 Score: 52
Period size: 17 Copynumber: 2.9 Consensus size: 17
22962035 GGGTGAGAAG
*
22962045 TAAAAGTTTAGGGGGAAAA
1 TAAAAGTTT-GAGGG-AAA
*
22962064 TAAAAAGTTT-TGGGAAA
1 T-AAAAGTTTGAGGGAAA
22962081 TAAAAGTTTGAGGGAA
1 TAAAAGTTTGAGGGAA
22962097 GGTAAATAGG
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
16 8 0.28
17 9 0.31
18 3 0.10
19 1 0.03
20 8 0.28
ACGTcount: A:0.46, C:0.00, G:0.29, T:0.25
Consensus pattern (17 bp):
TAAAAGTTTGAGGGAAA
Found at i:22962230 original size:31 final size:30
Alignment explanation
Indices: 22962195--22962254 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
22962185 AGAGGTGGAA
*
22962195 TGGGAAGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGG-AGAGAATAAAAATTTTAGGGGAAAAG
** *
22962226 TGGGAGAGGGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
22962255 TAAAAAGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.42, C:0.00, G:0.38, T:0.20
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:22962420 original size:21 final size:21
Alignment explanation
Indices: 22962396--22962437 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
22962386 GGGGAAAGTA
*
22962396 GGAAGAAGTAAAA-GTTTTGAG
1 GGAA-AAGTAAAACGGTTTGAG
22962417 GGAAAAGTAAAACGGTTTGAG
1 GGAAAAGTAAAACGGTTTGAG
22962438 AGTTTGGGGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 8 0.42
21 11 0.58
ACGTcount: A:0.43, C:0.02, G:0.33, T:0.21
Consensus pattern (21 bp):
GGAAAAGTAAAACGGTTTGAG
Found at i:22962487 original size:9 final size:9
Alignment explanation
Indices: 22962473--22962518 Score: 74
Period size: 9 Copynumber: 5.1 Consensus size: 9
22962463 TATAGTTTGA
22962473 TATTCGAAT
1 TATTCGAAT
22962482 TATTCGAAT
1 TATTCGAAT
22962491 TATTCGAAT
1 TATTCGAAT
*
22962500 TATTCGAGT
1 TATTCGAAT
*
22962509 TATTCAAAT
1 TATTCGAAT
22962518 T
1 T
22962519 TGAAAACTCA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.33, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:22965469 original size:40 final size:40
Alignment explanation
Indices: 22965425--22965602 Score: 139
Period size: 40 Copynumber: 4.4 Consensus size: 40
22965415 ACTATGTTTA
*
22965425 GCACTTAGTGTGCGATTCGAGATAACTTCGGCTATTTATG
1 GCACTTAGTGTGCGATTAGAGATAACTTCGGCTATTTATG
* * *
22965465 GCACTTAGTGTGCGATTAG-GAATAGCTTCGGCTATATACG
1 GCACTTAGTGTGCGATTAGAG-ATAACTTCGGCTATTTATG
* * * * * **
22965505 ACACTTAGTGTGCGA-GACTGAGATAGCTTTAGG-TATGTAAA
1 GCACTTAGTGTGCGATTA--GAGATAAC-TTCGGCTATTTATG
* *
22965546 GCACTTAGTGTGCGAGATTATA-ATAACTTCGGCTATTCGATG
1 GCACTTAGTGTGC--GATTAGAGATAACTTCGGCTATT-TATG
*
22965588 GCATTTAGTGTGCGA
1 GCACTTAGTGTGCGA
22965603 AAAATTAAGT
Statistics
Matches: 108, Mismatches: 20, Indels: 20
0.73 0.14 0.14
Matches are distributed among these distances:
39 2 0.02
40 54 0.50
41 30 0.28
42 19 0.18
43 2 0.02
44 1 0.01
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.32
Consensus pattern (40 bp):
GCACTTAGTGTGCGATTAGAGATAACTTCGGCTATTTATG
Found at i:22966367 original size:16 final size:17
Alignment explanation
Indices: 22966346--22966378 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
22966336 TTGAGCAAGT
*
22966346 AAAATG-TGTTTGGTTA
1 AAAATGTTGTTTAGTTA
22966362 AAAATGTTGTTTAGTTA
1 AAAATGTTGTTTAGTTA
22966379 TGAAATGCTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.45
Consensus pattern (17 bp):
AAAATGTTGTTTAGTTA
Found at i:22983424 original size:15 final size:15
Alignment explanation
Indices: 22983383--22983440 Score: 57
Period size: 15 Copynumber: 4.0 Consensus size: 15
22983373 TCAGTCTCAG
**
22983383 TTAGGCTAGGTGGGC
1 TTAGGCTAATTGGGC
*
22983398 -TAGGGT-ATTGGGC
1 TTAGGCTAATTGGGC
*
22983411 TTAGGCTAATTGGGT
1 TTAGGCTAATTGGGC
*
22983426 TTAGGCTAGTTGGGC
1 TTAGGCTAATTGGGC
22983441 CGTATTGATT
Statistics
Matches: 34, Mismatches: 7, Indels: 4
0.76 0.16 0.09
Matches are distributed among these distances:
13 5 0.15
14 10 0.29
15 19 0.56
ACGTcount: A:0.16, C:0.10, G:0.41, T:0.33
Consensus pattern (15 bp):
TTAGGCTAATTGGGC
Found at i:22983509 original size:18 final size:20
Alignment explanation
Indices: 22983486--22983523 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
22983476 ACTTTTAATA
22983486 ATTTTTG-TT-TTTATTTAT
1 ATTTTTGTTTATTTATTTAT
22983504 ATTTTTGTTTATTTATTTAT
1 ATTTTTGTTTATTTATTTAT
22983524 TTCTGATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 7 0.39
19 2 0.11
20 9 0.50
ACGTcount: A:0.18, C:0.00, G:0.05, T:0.76
Consensus pattern (20 bp):
ATTTTTGTTTATTTATTTAT
Found at i:22990593 original size:32 final size:33
Alignment explanation
Indices: 22990522--22990594 Score: 96
Period size: 33 Copynumber: 2.2 Consensus size: 33
22990512 AAATAAGTAC
*
22990522 ATTTGTATTATTTATATATATTTAGTAAAAAGAT
1 ATTT-TATTATTTATATATAATTAGTAAAAAGAT
22990556 ATTTTATTATTTAT-TATTAATTAGT-AAAAGAT
1 ATTTTATTATTTATATA-TAATTAGTAAAAAGAT
*
22990588 TTTTTAT
1 ATTTTAT
22990595 ATGATAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
32 15 0.42
33 17 0.47
34 4 0.11
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (33 bp):
ATTTTATTATTTATATATAATTAGTAAAAAGAT
Found at i:22991191 original size:29 final size:29
Alignment explanation
Indices: 22991150--22991207 Score: 66
Period size: 29 Copynumber: 2.0 Consensus size: 29
22991140 TTTTTTAGTA
22991150 GGGTTCATGTTGA-ATGAATGATTGAATTAG
1 GGGTTCATGTTGATA-GAATGATTG-ATTAG
* *
22991180 GGGTTTAT-TTGATAGAATTATTGATTAG
1 GGGTTCATGTTGATAGAATGATTGATTAG
22991208 AATTGATTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
28 5 0.20
29 12 0.48
30 8 0.32
ACGTcount: A:0.29, C:0.02, G:0.28, T:0.41
Consensus pattern (29 bp):
GGGTTCATGTTGATAGAATGATTGATTAG
Found at i:22995365 original size:5 final size:5
Alignment explanation
Indices: 22995355--22995500 Score: 292
Period size: 5 Copynumber: 29.2 Consensus size: 5
22995345 GTTTTAAATT
22995355 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
22995405 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
22995455 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA T
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA T
22995501 GTAAAAATAA
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 141 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATTA
Found at i:22995943 original size:16 final size:15
Alignment explanation
Indices: 22995922--22995961 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 15
22995912 TTATGTGTAT
22995922 GGTAAGTAAATAATAA
1 GGTAAGTAAAT-ATAA
22995938 GGTAAGTGAAATATAA
1 GGTAAGT-AAATATAA
*
22995954 GATAAGTA
1 GGTAAGTA
22995962 TTATTATTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 17 0.77
17 4 0.18
ACGTcount: A:0.53, C:0.00, G:0.23, T:0.25
Consensus pattern (15 bp):
GGTAAGTAAATATAA
Found at i:22996343 original size:21 final size:21
Alignment explanation
Indices: 22996299--22996374 Score: 73
Period size: 21 Copynumber: 3.6 Consensus size: 21
22996289 TACCGATTAA
*
22996299 GCACTTTATGTGTCGTACATCAG
1 GCACTTTATGTGTC--ATATCAG
22996322 GCACTTTATGTGTCATATCAG
1 GCACTTTATGTGTCATATCAG
* ** * *
22996343 GCACCTCGTGTGTCGTTTCAG
1 GCACTTTATGTGTCATATCAG
22996364 GCAC-TTATGTG
1 GCACTTTATGTG
22996375 CCGTTTACTG
Statistics
Matches: 45, Mismatches: 8, Indels: 3
0.80 0.14 0.05
Matches are distributed among these distances:
20 5 0.11
21 26 0.58
23 14 0.31
ACGTcount: A:0.18, C:0.22, G:0.24, T:0.36
Consensus pattern (21 bp):
GCACTTTATGTGTCATATCAG
Found at i:22997417 original size:12 final size:12
Alignment explanation
Indices: 22997400--22997430 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
22997390 AACCACACAC
22997400 CCGTGTGCTAGG
1 CCGTGTGCTAGG
22997412 CCGTGTGCTAGG
1 CCGTGTGCTAGG
*
22997424 CCATGTG
1 CCGTGTG
22997431 AAAACTGGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.10, C:0.26, G:0.39, T:0.26
Consensus pattern (12 bp):
CCGTGTGCTAGG
Found at i:23003200 original size:17 final size:17
Alignment explanation
Indices: 23003173--23003205 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
23003163 TCACTATATT
23003173 TTTATTTCACATATTCAC
1 TTTATTTCACA-ATTCAC
23003191 TTTA-TTCACAATTCA
1 TTTATTTCACAATTCA
23003206 TAAAAAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 6 0.40
18 4 0.27
ACGTcount: A:0.30, C:0.21, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTATTTCACAATTCAC
Found at i:23010670 original size:30 final size:30
Alignment explanation
Indices: 23010634--23010814 Score: 253
Period size: 30 Copynumber: 6.1 Consensus size: 30
23010624 AAGGAAATAA
*
23010634 ATCCTAATTTCCTAAGAATCAGTAATTGAT
1 ATCCTAATTTCCTAAGAATCAGTAACTGAT
23010664 ATCCTAATTTCCTAAGAATCAGTAACTGAT
1 ATCCTAATTTCCTAAGAATCAGTAACTGAT
* *
23010694 AT--TAGTTTTCCTAAGAATCAGTAATTGAT
1 ATCCTA-ATTTCCTAAGAATCAGTAACTGAT
23010723 ATCCTAATTTCCTAAGAATCAGTAACTGAT
1 ATCCTAATTTCCTAAGAATCAGTAACTGAT
* * *
23010753 AT--TAGTTTTCCTAAAAATCAGTAATTGAT
1 ATCCTA-ATTTCCTAAGAATCAGTAACTGAT
23010782 ATCCTAATTTCCTAAGAATCAGTTAACTGAT
1 ATCCTAATTTCCTAAGAATCAG-TAACTGAT
23010813 AT
1 AT
23010815 TAGTTTCTAT
Statistics
Matches: 133, Mismatches: 11, Indels: 13
0.85 0.07 0.08
Matches are distributed among these distances:
28 4 0.03
29 47 0.35
30 69 0.52
31 13 0.10
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.37
Consensus pattern (30 bp):
ATCCTAATTTCCTAAGAATCAGTAACTGAT
Found at i:23010733 original size:59 final size:59
Alignment explanation
Indices: 23010641--23010820 Score: 342
Period size: 59 Copynumber: 3.0 Consensus size: 59
23010631 TAAATCCTAA
23010641 TTTCCTAAGAATCAGTAATTGATATCCTAATTTCCTAAGAATCAGTAACTGATATTAGT
1 TTTCCTAAGAATCAGTAATTGATATCCTAATTTCCTAAGAATCAGTAACTGATATTAGT
23010700 TTTCCTAAGAATCAGTAATTGATATCCTAATTTCCTAAGAATCAGTAACTGATATTAGT
1 TTTCCTAAGAATCAGTAATTGATATCCTAATTTCCTAAGAATCAGTAACTGATATTAGT
*
23010759 TTTCCTAAAAATCAGTAATTGATATCCTAATTTCCTAAGAATCAGTTAACTGATATTAGT
1 TTTCCTAAGAATCAGTAATTGATATCCTAATTTCCTAAGAATCAG-TAACTGATATTAGT
23010819 TT
1 TT
23010821 CTATTTACAA
Statistics
Matches: 119, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
59 103 0.87
60 16 0.13
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.38
Consensus pattern (59 bp):
TTTCCTAAGAATCAGTAATTGATATCCTAATTTCCTAAGAATCAGTAACTGATATTAGT
Found at i:23010793 original size:89 final size:89
Alignment explanation
Indices: 23010634--23010814 Score: 251
Period size: 89 Copynumber: 2.0 Consensus size: 89
23010624 AAGGAAATAA
* *
23010634 ATCCTAATTTCCTAAGAATCAGTAATTGATATCCTAATTTCCTAAGAATCAGTAACTGATATTAG
1 ATCCTAATTTCCTAAGAATCAGTAACTGATAT-CTAATTTCCTAAAAATCAGTAACTGATATTAG
* *
23010699 TTTTCCTAAGAATCAG-TAATTGAT
65 ATTTCCTAAGAATCAGTTAACTGAT
* *
23010723 ATCCTAATTTCCTAAGAATCAGTAACTGATAT-TAGTTTTCCTAAAAATCAGTAATTGATATCCT
1 ATCCTAATTTCCTAAGAATCAGTAACTGATATCTA-ATTTCCTAAAAATCAGTAACTGATAT--T
23010787 A-ATTTCCTAAGAATCAGTTAACTGAT
63 AGATTTCCTAAGAATCAGTTAACTGAT
23010813 AT
1 AT
23010815 TAGTTTCTAT
Statistics
Matches: 82, Mismatches: 6, Indels: 7
0.86 0.06 0.07
Matches are distributed among these distances:
87 2 0.02
88 23 0.28
89 46 0.56
90 11 0.13
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.37
Consensus pattern (89 bp):
ATCCTAATTTCCTAAGAATCAGTAACTGATATCTAATTTCCTAAAAATCAGTAACTGATATTAGA
TTTCCTAAGAATCAGTTAACTGAT
Found at i:23027296 original size:3 final size:3
Alignment explanation
Indices: 23027290--23027383 Score: 86
Period size: 3 Copynumber: 30.7 Consensus size: 3
23027280 GTTAATTACT
*
23027290 TTA TTA TTA TT- TTCA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA
1 TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* * *
23027335 TTA TTGA TCA TTA TTA GTT- TTA TTT TTC TT- TTA TTTA TTCA TTA TTA
1 TTA TT-A TTA TTA TTA -TTA TTA TTA TTA TTA TTA -TTA TT-A TTA TTA
23027382 TT
1 TT
23027384 CTGATAATAT
Statistics
Matches: 77, Mismatches: 6, Indels: 16
0.78 0.06 0.16
Matches are distributed among these distances:
2 6 0.08
3 59 0.77
4 12 0.16
ACGTcount: A:0.27, C:0.05, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:23027309 original size:12 final size:11
Alignment explanation
Indices: 23027270--23027336 Score: 62
Period size: 12 Copynumber: 5.7 Consensus size: 11
23027260 TTTAGCAATT
**
23027270 TTATTATTTCG
1 TTATTATTTTA
*
23027281 TTAATTACTTTA
1 TT-ATTATTTTA
23027293 TTATTATTTTCA
1 TTATTATTTT-A
23027305 TTATTATTATTA
1 TTATTATT-TTA
*
23027317 TTATTATTACTA
1 TTATTATT-TTA
23027329 TTATTATT
1 TTATTATT
23027337 ATTGATCATT
Statistics
Matches: 48, Mismatches: 5, Indels: 5
0.83 0.09 0.09
Matches are distributed among these distances:
11 9 0.19
12 37 0.77
13 2 0.04
ACGTcount: A:0.28, C:0.06, G:0.01, T:0.64
Consensus pattern (11 bp):
TTATTATTTTA
Found at i:23027411 original size:15 final size:16
Alignment explanation
Indices: 23027391--23027424 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
23027381 ATTCTGATAA
23027391 TATATTA-ATTAGTTT
1 TATATTATATTAGTTT
*
23027406 TATATTATTTTAGTTT
1 TATATTATATTAGTTT
23027422 TAT
1 TAT
23027425 TTTTATTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (16 bp):
TATATTATATTAGTTT
Found at i:23034370 original size:3 final size:3
Alignment explanation
Indices: 23034358--23034390 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
23034348 CATGAATGTT
23034358 ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
23034391 ATAGTTAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:23035997 original size:92 final size:89
Alignment explanation
Indices: 23035901--23036092 Score: 258
Period size: 92 Copynumber: 2.1 Consensus size: 89
23035891 TACCGATATA
* ** *
23035901 GGAAGACAGGACCTGATGTCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTT
1 GGAAGACAAGACCTGATACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTAC--TTT
23035966 CCTTTGATCTGCTTCGCCACCAGTATG
64 -CTTTGATCTGCTTCGCCACCAGTATG
* ** * * *
23035993 GGAAGGCAAGATTTGTTACCTTTGATCTACTTCATGCCGGTACATGAAGACAAGATCTACTTTCT
1 GGAAGACAAGACCTGATACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCT
23036058 TTGATCTGCTTCGCCACCAGTATG
66 TTGATCTGCTTCGCCACCAGTATG
*
23036082 GGAAGGCAAGA
1 GGAAGACAAGA
23036093 TCTGCTGCTT
Statistics
Matches: 90, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
89 37 0.41
90 3 0.03
92 50 0.56
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.30
Consensus pattern (89 bp):
GGAAGACAAGACCTGATACCTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTCT
TTGATCTGCTTCGCCACCAGTATG
Found at i:23036017 original size:45 final size:45
Alignment explanation
Indices: 23035964--23036095 Score: 133
Period size: 45 Copynumber: 3.0 Consensus size: 45
23035954 GATCTGCTTT
**
23035964 TTCCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGAT-TTG
1 TTCCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTAC
* *** * *** *
23036008 TTACCTTTGATCTACTTC-ATGCCGGTACATGAAGACAAGATCTAC
1 TT-CCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTAC
*
23036053 TTTCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCT
1 TTCCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCT
23036096 GCTGCTTTTC
Statistics
Matches: 64, Mismatches: 21, Indels: 5
0.71 0.23 0.06
Matches are distributed among these distances:
44 30 0.47
45 34 0.53
ACGTcount: A:0.23, C:0.23, G:0.21, T:0.32
Consensus pattern (45 bp):
TTCCTTTGATCTGCTTCGCCACCAGTATGGGAAGGCAAGATCTAC
Found at i:23036089 original size:89 final size:91
Alignment explanation
Indices: 23035920--23036093 Score: 298
Period size: 89 Copynumber: 1.9 Consensus size: 91
23035910 GACCTGATGT
*
23035920 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTGCTTTTTCCTTTGATCTGCTTCGCCA
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTAC-TTTTCCTTTGATCTGCTTCGCCA
23035985 CCAGTATGGGAAGGCAAGATTTGTTAC
65 CCAGTATGGGAAGGCAAGATTTGTTAC
* *
23036012 CTTTGATCTACTTCATGCCGGTACATGAAGACAAGATCTAC-TTT-CTTTGATCTGCTTCGCCAC
1 CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTCCTTTGATCTGCTTCGCCAC
23036075 CAGTATGGGAAGGCAAGAT
66 CAGTATGGGAAGGCAAGAT
23036094 CTGCTGCTTT
Statistics
Matches: 79, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
89 38 0.48
90 3 0.04
92 38 0.48
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (91 bp):
CTTTGATCTACTTCACGCCAGTACATGAAGACAAGATCTACTTTTCCTTTGATCTGCTTCGCCAC
CAGTATGGGAAGGCAAGATTTGTTAC
Done.