Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 164 of 343
Found at i:54225235 original size:27 final size:28
Alignment explanation
Indices: 54225151--54225248 Score: 135
Period size: 27 Copynumber: 3.5 Consensus size: 28
54225141 CATGAGATTG
* * * *
54225151 GCACTAAGTGTGCGGGTTTAAATTGTACA
1 GCACTAAGTGTGCGAGTTT-GATTATATA
54225180 GCACTAAGTGTGCGAGTTTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
54225208 GCACTAAGTGTGCGAG-TTGATTATATA
1 GCACTAAGTGTGCGAGTTTGATTATATA
*
54225235 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
54225249 GACTAATATA
Statistics
Matches: 64, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.38
28 22 0.34
29 18 0.28
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
GCACTAAGTGTGCGAGTTTGATTATATA
Found at i:54305839 original size:40 final size:40
Alignment explanation
Indices: 54305794--54305980 Score: 222
Period size: 39 Copynumber: 4.7 Consensus size: 40
54305784 ACTACTTGCT
54305794 CAAATGCCTTCGGGACTT-GACCCGGTTATAGTAACTAGCA
1 CAAATGCCTTCGGGACTTAG-CCCGGTTATAGTAACTAGCA
*
54305834 CAAATGCCTTCGGGACTTAGCCCGGTTCA-A-TAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTT-ATAGTAACTAGCA
* * * *
54305873 CCAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
* * * * *
54305913 CAATTGCCTTCAGG-TTTAGCCCGG-AATTAGTCACTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTA-TAGTAACTAGCA
54305952 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
54305981 CATCCGAATA
Statistics
Matches: 125, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.02
39 64 0.51
40 56 0.45
41 3 0.02
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTAGCA
Found at i:54305897 original size:79 final size:78
Alignment explanation
Indices: 54305794--54305980 Score: 234
Period size: 79 Copynumber: 2.4 Consensus size: 78
54305784 ACTACTTGCT
* *
54305794 CAAATGCCTTCGGGACTT-GACCCGGTTATAGTAACTAGCACAAATGCCTTCGGGACTTAGCCCG
1 CAAATGCCTTCGGGACTTAG-CCCGGTTATAATAACTAGCACAAATGCCTTCAGG-CTTAGCCCG
*
54305858 G-TTCAATAACTCGCA
64 GATT-AATAACTAGCA
* * * * *
54305873 CCAATGCCTTCGGGACTTAGCCCGGATATAATAACTCGCACAATTGCCTTCAGGTTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTAGCACAAATGCCTTCAGGCTTAGCCCGG-
* *
54305938 ATTAGTCACTAGCA
65 ATTAATAACTAGCA
54305952 CAAATGCCTTCGGGACTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
54305981 CATCCGAATA
Statistics
Matches: 93, Mismatches: 12, Indels: 6
0.84 0.11 0.05
Matches are distributed among these distances:
78 9 0.10
79 81 0.87
80 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (78 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAATAACTAGCACAAATGCCTTCAGGCTTAGCCCGGA
TTAATAACTAGCA
Found at i:54307823 original size:20 final size:20
Alignment explanation
Indices: 54307798--54307844 Score: 85
Period size: 20 Copynumber: 2.4 Consensus size: 20
54307788 ATTCTGATAT
54307798 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
54307818 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
*
54307838 AGATGAT
1 ACATGAT
54307845 GTATTCATAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.36, C:0.09, G:0.21, T:0.34
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:54307928 original size:26 final size:26
Alignment explanation
Indices: 54307890--54307964 Score: 114
Period size: 26 Copynumber: 2.9 Consensus size: 26
54307880 GGAGGAAGTG
54307890 CAAAAAGGGCTTTTGCCCCAGTTTAC
1 CAAAAAGGGCTTTTGCCCCAGTTTAC
* *
54307916 CGAAAAGGGCTTTTGCCCCAGTTTAT
1 CAAAAAGGGCTTTTGCCCCAGTTTAC
* *
54307942 CAAAAAGGGTTTTTTCCCCAGTT
1 CAAAAAGGGCTTTTGCCCCAGTT
54307965 ACTAAAAGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 44 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (26 bp):
CAAAAAGGGCTTTTGCCCCAGTTTAC
Found at i:54315750 original size:20 final size:20
Alignment explanation
Indices: 54315733--54315771 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
54315723 ATACATGACT
54315733 TGTATGATATGCACATGATA
1 TGTATGATATGCACATGATA
54315753 TGTATGATATGCACATGAT
1 TGTATGATATGCACATGAT
54315772 GTATTCATAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.10, G:0.21, T:0.36
Consensus pattern (20 bp):
TGTATGATATGCACATGATA
Found at i:54315853 original size:26 final size:26
Alignment explanation
Indices: 54315817--54315891 Score: 123
Period size: 26 Copynumber: 2.9 Consensus size: 26
54315807 GGAGGAAGTG
*
54315817 CAAAAAGGGCTTTTGCCCTAGTTTAT
1 CAAAAAGGGCTTTTGCCCCAGTTTAT
*
54315843 CAAAAAGGGCTTTTGCCCCAATTTAT
1 CAAAAAGGGCTTTTGCCCCAGTTTAT
*
54315869 TAAAAAGGGCTTTTGCCCCAGTT
1 CAAAAAGGGCTTTTGCCCCAGTT
54315892 ACTAAAAGAG
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 45 1.00
ACGTcount: A:0.28, C:0.21, G:0.19, T:0.32
Consensus pattern (26 bp):
CAAAAAGGGCTTTTGCCCCAGTTTAT
Found at i:54315904 original size:25 final size:24
Alignment explanation
Indices: 54315819--54315904 Score: 91
Period size: 26 Copynumber: 3.4 Consensus size: 24
54315809 AGGAAGTGCA
* *
54315819 AAAAGGGCTTTTGCCCTAGTTTATCA
1 AAAAGGGCTTTTGCCCCAG-TTA-CT
* *
54315845 AAAAGGGCTTTTGCCCCAATTTATT
1 AAAAGGGCTTTTGCCCC-AGTTACT
54315870 AAAAAGGGCTTTTGCCCCAGTTACT
1 -AAAAGGGCTTTTGCCCCAGTTACT
54315895 AAAAGAGGCT
1 AAAAG-GGCT
54315905 AGGCCTCCAG
Statistics
Matches: 51, Mismatches: 6, Indels: 7
0.80 0.09 0.11
Matches are distributed among these distances:
24 5 0.10
25 9 0.18
26 36 0.71
27 1 0.02
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (24 bp):
AAAAGGGCTTTTGCCCCAGTTACT
Found at i:54316149 original size:31 final size:31
Alignment explanation
Indices: 54316111--54316201 Score: 94
Period size: 38 Copynumber: 2.7 Consensus size: 31
54316101 TTGTTACAGT
*
54316111 AAAGGCTTCAGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
54316142 AAAGGCTTTGGCCCAGTGTTATGAAGTATGAAATATGA
1 AAAGGCTTCGGCCCA--G---T-AA-TATGAAATATGA
54316180 AAAGGCTTCGGCCCAGT-ATATG
1 AAAGGCTTCGGCCCAGTAATATG
54316202 CTGAGATTGA
Statistics
Matches: 50, Mismatches: 3, Indels: 15
0.74 0.04 0.22
Matches are distributed among these distances:
30 4 0.08
31 14 0.28
33 2 0.04
36 2 0.04
37 2 0.04
38 26 0.52
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:54317463 original size:18 final size:18
Alignment explanation
Indices: 54317440--54317479 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
54317430 AGTATAGGCA
54317440 ATAAGATACCTTATTGTT
1 ATAAGATACCTTATTGTT
54317458 ATAAGATACCTTATTGTT
1 ATAAGATACCTTATTGTT
54317476 ATAA
1 ATAA
54317480 TATGAAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.42
Consensus pattern (18 bp):
ATAAGATACCTTATTGTT
Found at i:54323999 original size:48 final size:48
Alignment explanation
Indices: 54323943--54324548 Score: 1086
Period size: 48 Copynumber: 12.6 Consensus size: 48
54323933 AGATAAATAT
54323943 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
54323991 ATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
54324039 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
54324087 ATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
54324135 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
54324183 ATATGTATATGTGGTAAAGCCGAATGGCAAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
54324231 ATATGTATATGCGGTAAAGCCGGATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
54324279 ATATGTATATGCGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
54324327 ATATGTATATGAGGTAAAGCCGAATGGCTACTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
54324375 ATATGTATATGTGGTAAAGCCGAATGGCTAGTGTGAACTATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
* *
54324423 ATATGTATACGTGGTAAAGCCGAATGGCTAGTGTGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
*
54324471 ATATGTATATGTGGTAAAGCCGAATGGCTAATGCGAAATATGTATGAG
1 ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
54324519 ATATGTATATGTGGTAAAGCCGAATGGCTA
1 ATATGTATATGTGGTAAAGCCGAATGGCTA
54324549 GTGATTCGGC
Statistics
Matches: 537, Mismatches: 21, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 537 1.00
ACGTcount: A:0.35, C:0.07, G:0.27, T:0.30
Consensus pattern (48 bp):
ATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGAG
Found at i:54331747 original size:12 final size:13
Alignment explanation
Indices: 54331711--54331748 Score: 51
Period size: 14 Copynumber: 2.9 Consensus size: 13
54331701 AAATATTTAA
54331711 CTTGTTCTTAATT
1 CTTGTTCTTAATT
*
54331724 ATGTGTTCTTAATT
1 CT-TGTTCTTAATT
54331738 CTTG-TCTTAAT
1 CTTGTTCTTAAT
54331749 ATTCCAGGAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
12 7 0.32
13 3 0.14
14 12 0.55
ACGTcount: A:0.18, C:0.13, G:0.11, T:0.58
Consensus pattern (13 bp):
CTTGTTCTTAATT
Found at i:54347703 original size:49 final size:48
Alignment explanation
Indices: 54347645--54347774 Score: 138
Period size: 49 Copynumber: 2.6 Consensus size: 48
54347635 GTTGTGTGTT
* *
54347645 AGTGTAAGACCTGGCTAGGACATGGCATCGACACTAG-TAGT-TGAGAGCC
1 AGTGTAAGACCTGCCT-GGACATGGCATCGACA-TAGATA-TATGAAAGCC
* * *
54347694 AGTGTAAGACCTACCTGGAACATGGCATTGACATAGATATATGAAAGTC
1 AGTGTAAGACCTGCCTGG-ACATGGCATCGACATAGATATATGAAAGCC
* *
54347743 AGTGTAAGACCTGTCTGGGACACGGCATCGAC
1 AGTGTAAGACCTGCCT-GGACATGGCATCGAC
54347775 TTTAATGTGC
Statistics
Matches: 68, Mismatches: 9, Indels: 8
0.80 0.11 0.09
Matches are distributed among these distances:
48 6 0.09
49 60 0.88
50 2 0.03
ACGTcount: A:0.31, C:0.20, G:0.28, T:0.22
Consensus pattern (48 bp):
AGTGTAAGACCTGCCTGGACATGGCATCGACATAGATATATGAAAGCC
Found at i:54351381 original size:12 final size:12
Alignment explanation
Indices: 54351364--54351389 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
54351354 AAAATAGGGC
54351364 TTTAGCGGCGTT
1 TTTAGCGGCGTT
54351376 TTTAGCGGCGTT
1 TTTAGCGGCGTT
54351388 TT
1 TT
54351390 ATCAAAAAAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.08, C:0.15, G:0.31, T:0.46
Consensus pattern (12 bp):
TTTAGCGGCGTT
Found at i:54351468 original size:40 final size:41
Alignment explanation
Indices: 54351413--54351692 Score: 184
Period size: 41 Copynumber: 6.8 Consensus size: 41
54351403 GTAAAAATTG
* * * *
54351413 TAAAACACATAGCAATAGCTGTGTTTTA-CCAAAAACGCCAC
1 TAAAA-ACAGAGCAATAGCGGCGTTTTAGCAAAAAACGCCAC
*
54351454 TAAAAACAGAGCAATAGCGGCGTTTTAGTAAAAAACGCCAC
1 TAAAAACAGAGCAATAGCGGCGTTTTAGCAAAAAACGCCAC
* * *
54351495 GAAAAACAGAG-AATTAGCGGCGCTTTTGGC--AAAACGCCGC
1 TAAAAACAGAGCAA-TAGCGGCG-TTTTAGCAAAAAACGCCAC
* * * *
54351535 CAAAAACCAGAGCATTAGCGGCGCTTTT-G-GAAAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCG-TTTTAGCAAAAAACGCCAC
* * * *
54351576 TAAAAACCAGAGCATTAGCGGCGCTTTT-G-GAAAAACACCGC
1 TAAAAA-CAGAGCAATAGCGGCG-TTTTAGCAAAAAACGCCAC
* * * * *
54351617 TAAAAACCAGAGCATTAACGGCGCTATTGGC--AAAACGCCGC
1 TAAAAA-CAGAGCAATAGCGGCG-TTTTAGCAAAAAACGCCAC
* *
54351658 TAAAAACCAGAGCATTAGCGGCGCTTTTGGCAAAA
1 TAAAAA-CAGAGCAATAGCGGCG-TTTTAGCAAAA
54351693 CGCCGCTAAA
Statistics
Matches: 210, Mismatches: 18, Indels: 20
0.85 0.07 0.08
Matches are distributed among these distances:
40 36 0.17
41 165 0.79
42 7 0.03
43 2 0.01
ACGTcount: A:0.38, C:0.24, G:0.21, T:0.17
Consensus pattern (41 bp):
TAAAAACAGAGCAATAGCGGCGTTTTAGCAAAAAACGCCAC
Found at i:54351488 original size:41 final size:41
Alignment explanation
Indices: 54351443--54351703 Score: 366
Period size: 41 Copynumber: 6.4 Consensus size: 41
54351433 GTGTTTTACC
* * *
54351443 AAAAACGCCACTAAAAA-CAGAGCAATAGCGGCG-TTTTAGTA
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTT-G-G
* * *
54351484 AAAAACGCCACGAAAAA-CAGAGAATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* *
54351524 CAAAACGCCGCCAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
54351565 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
* * *
54351606 AAAAACACCGCTAAAAACCAGAGCATTAACGGCGCTATTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
*
54351647 CAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
1 AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
*
54351688 CAAAACGCCGCTAAAA
1 AAAAACGCCGCTAAAA
54351704 GTCATATAAC
Statistics
Matches: 201, Mismatches: 17, Indels: 4
0.91 0.08 0.02
Matches are distributed among these distances:
40 14 0.07
41 183 0.91
42 4 0.02
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (41 bp):
AAAAACGCCGCTAAAAACCAGAGCATTAGCGGCGCTTTTGG
Found at i:54351880 original size:14 final size:14
Alignment explanation
Indices: 54351861--54351897 Score: 74
Period size: 14 Copynumber: 2.6 Consensus size: 14
54351851 TAATTATCAT
54351861 TATAGTTTAAGATA
1 TATAGTTTAAGATA
54351875 TATAGTTTAAGATA
1 TATAGTTTAAGATA
54351889 TATAGTTTA
1 TATAGTTTA
54351898 GGGTTTAAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.46
Consensus pattern (14 bp):
TATAGTTTAAGATA
Found at i:54351905 original size:21 final size:21
Alignment explanation
Indices: 54351879--54351952 Score: 76
Period size: 21 Copynumber: 3.3 Consensus size: 21
54351869 AAGATATATA
54351879 GTTTAAGATATATAGTTTAGG
1 GTTTAAGATATATAGTTTAGG
* * *
54351900 GTTTAAGATTTTTAAGTTAACTATG
1 GTTTAAGATATAT-AGTT---TAGG
*
54351925 GTTTAAGATATATGGTTTAGG
1 GTTTAAGATATATAGTTTAGG
54351946 GTTTAAG
1 GTTTAAG
54351953 GTTTAGGAGT
Statistics
Matches: 42, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
21 21 0.50
22 4 0.10
24 3 0.07
25 14 0.33
ACGTcount: A:0.31, C:0.01, G:0.23, T:0.45
Consensus pattern (21 bp):
GTTTAAGATATATAGTTTAGG
Found at i:54351964 original size:46 final size:46
Alignment explanation
Indices: 54351879--54351968 Score: 135
Period size: 46 Copynumber: 2.0 Consensus size: 46
54351869 AAGATATATA
**
54351879 GTTTAAGATATATAGTTTAGGGTTTAAGATTTTTAAGTTAACTATG
1 GTTTAAGATATATAGTTTAGGGTTTAAGATTTAGAAGTTAACTATG
* * *
54351925 GTTTAAGATATATGGTTTAGGGTTTAAGGTTTAGGAGTTAACTA
1 GTTTAAGATATATAGTTTAGGGTTTAAGATTTAGAAGTTAACTA
54351969 GTATTTGAAG
Statistics
Matches: 39, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.43
Consensus pattern (46 bp):
GTTTAAGATATATAGTTTAGGGTTTAAGATTTAGAAGTTAACTATG
Found at i:54352572 original size:46 final size:46
Alignment explanation
Indices: 54352520--54352617 Score: 121
Period size: 46 Copynumber: 2.1 Consensus size: 46
54352510 TATTTATATT
*
54352520 ATTTTTAATTTA-ATAT-TTAATATCCTATATATGTAATTGTATTTAA-
1 ATTTTTAATTTATATATATTAAAAT--TATATATGTAATTGTA-TTAAC
* *
54352566 ATTTTTAATTTATATTTATTAAAATTTTATATGTAATTGTATTAAC
1 ATTTTTAATTTATATATATTAAAATTATATATGTAATTGTATTAAC
54352612 ATTTTT
1 ATTTTT
54352618 TAATGTTGAC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
45 4 0.09
46 33 0.72
47 3 0.07
48 6 0.13
ACGTcount: A:0.36, C:0.03, G:0.04, T:0.57
Consensus pattern (46 bp):
ATTTTTAATTTATATATATTAAAATTATATATGTAATTGTATTAAC
Found at i:54352608 original size:23 final size:23
Alignment explanation
Indices: 54352547--54352616 Score: 81
Period size: 23 Copynumber: 3.0 Consensus size: 23
54352537 TAATATCCTA
*
54352547 TATATGTAATTGTATTTAAATTT
1 TATATGTAATTGTATTAAAATTT
*
54352570 T-TAATTTATATT-TATTAAAATTT
1 TAT-ATGTA-ATTGTATTAAAATTT
*
54352593 TATATGTAATTGTATTAACATTT
1 TATATGTAATTGTATTAAAATTT
54352616 T
1 T
54352617 TTAATGTTGA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
22 4 0.10
23 31 0.79
24 4 0.10
ACGTcount: A:0.36, C:0.01, G:0.06, T:0.57
Consensus pattern (23 bp):
TATATGTAATTGTATTAAAATTT
Found at i:54357865 original size:43 final size:43
Alignment explanation
Indices: 54357810--54357934 Score: 169
Period size: 43 Copynumber: 2.9 Consensus size: 43
54357800 TTTTTTTTTT
* * *
54357810 GGAAAAGCGCCGCTAAAGGTCTTGACCTTTGGCGGTGTTTGTG
1 GGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCGTTTGTG
* * *
54357853 GGAAAAGTGCCGCTAAAGGTCCTGACCTTTTGCGGCGTTTGTG
1 GGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCGTTTGTG
* * *
54357896 GGAAAAGCACCGTTAAAGGTCAGGACCTTTAGCGGCGTT
1 GGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCGTT
54357935 GTTTTCAAAT
Statistics
Matches: 72, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 72 1.00
ACGTcount: A:0.22, C:0.20, G:0.33, T:0.26
Consensus pattern (43 bp):
GGAAAAGCGCCGCTAAAGGTCATGACCTTTAGCGGCGTTTGTG
Found at i:54361982 original size:46 final size:46
Alignment explanation
Indices: 54361915--54362039 Score: 162
Period size: 46 Copynumber: 2.7 Consensus size: 46
54361905 ATGGTATGTA
* **
54361915 AGCCAATGTAAGACATGTCTGGGACATGCATCGGCCA-TGTTATGAG
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGG-CATTGAGATGAG
**
54361961 AGCCAGTGTAAGACATGTCTGGGATGTGCATCGGCATTGAGATGAG
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGAG
* * *
54362007 AGCTAGTTTAAGACATGTCTGGGACATACATCG
1 AGCCAGTGTAAGACATGTCTGGGACATGCATCG
54362040 ACTTCAGGAT
Statistics
Matches: 68, Mismatches: 10, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
45 2 0.03
46 66 0.97
ACGTcount: A:0.28, C:0.18, G:0.30, T:0.25
Consensus pattern (46 bp):
AGCCAGTGTAAGACATGTCTGGGACATGCATCGGCATTGAGATGAG
Found at i:54368184 original size:56 final size:56
Alignment explanation
Indices: 54368118--54368247 Score: 215
Period size: 56 Copynumber: 2.3 Consensus size: 56
54368108 TCTTACATGT
* * *
54368118 AATCACATATCGATGCCACTGTCCCAGACAAGGTCTTACTTGCACACATATATCGG
1 AATCACATATCGATGCCACTGTCCCAAACAAGGTCTTACTCGCACACATATATCAG
**
54368174 AATCACATATCGATGCCACTGTCCCAAACTGGGTCTTACTCGCACACATATATCAG
1 AATCACATATCGATGCCACTGTCCCAAACAAGGTCTTACTCGCACACATATATCAG
54368230 AATCACATATCGATGCCA
1 AATCACATATCGATGCCA
54368248 TGGTCTTACT
Statistics
Matches: 69, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
56 69 1.00
ACGTcount: A:0.32, C:0.29, G:0.15, T:0.25
Consensus pattern (56 bp):
AATCACATATCGATGCCACTGTCCCAAACAAGGTCTTACTCGCACACATATATCAG
Found at i:54370971 original size:30 final size:30
Alignment explanation
Indices: 54370935--54370995 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
54370925 GAAGTAAATG
*
54370935 ATTGTGACTTACTTATAGTTCTTTTTCCAA
1 ATTGTGACTTACTCATAGTTCTTTTTCCAA
54370965 ATTGTGACTTACTCATAGTTCTTTTTCCAA
1 ATTGTGACTTACTCATAGTTCTTTTTCCAA
54370995 A
1 A
54370996 AACCCGAGCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.25, C:0.18, G:0.10, T:0.48
Consensus pattern (30 bp):
ATTGTGACTTACTCATAGTTCTTTTTCCAA
Found at i:54385771 original size:40 final size:39
Alignment explanation
Indices: 54385727--54385803 Score: 118
Period size: 39 Copynumber: 1.9 Consensus size: 39
54385717 AGTGACCATA
*
54385727 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGACTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
* *
54385767 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTA
1 TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTA
54385804 TAACCAGGCT
Statistics
Matches: 34, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
39 24 0.71
40 10 0.29
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (39 bp):
TCCGGACTAAGCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:54385788 original size:39 final size:40
Alignment explanation
Indices: 54385691--54385831 Score: 132
Period size: 40 Copynumber: 3.5 Consensus size: 40
54385681 ATGATGTCTG
* * *
54385691 GGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGACCATATCC-
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTATAACCA
* *
54385730 GGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTA-ATTCCG
1 GG-CTAAG-TCCCGAAGGCATTTGTGCGAGATACTATA-ACCA
*
54385771 GGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATAACCA
1 GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCA
*
54385810 GGCTATGTCCCGAAGGCATTTG
1 GGCTAAGTCCCGAAGGCATTTG
54385832 AACGAGTAGC
Statistics
Matches: 87, Mismatches: 6, Indels: 17
0.79 0.05 0.15
Matches are distributed among these distances:
39 35 0.40
40 39 0.45
41 12 0.14
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
GGCTAAGTCCCGAAGGCATTTGTGCGAGATACTATAACCA
Found at i:54386124 original size:47 final size:47
Alignment explanation
Indices: 54386055--54386222 Score: 327
Period size: 47 Copynumber: 3.6 Consensus size: 47
54386045 AAGGGTTGGT
54386055 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
54386102 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
54386149 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
1 AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
*
54386196 AATGTGAAAGTGTATAAATGTGATAAG
1 AATGTGAAAGTGTATATATGTGATAAG
54386223 TCCCGAAGGG
Statistics
Matches: 120, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
47 120 1.00
ACGTcount: A:0.34, C:0.07, G:0.29, T:0.30
Consensus pattern (47 bp):
AATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATG
Found at i:54397403 original size:12 final size:12
Alignment explanation
Indices: 54397382--54397437 Score: 60
Period size: 12 Copynumber: 4.7 Consensus size: 12
54397372 CTCTCTCAAA
*
54397382 CTCTTGTTCATT
1 CTCTTTTTCATT
54397394 CTCTTTTTCAATT
1 CTCTTTTTC-ATT
*
54397407 -TCTTTTTCAAT
1 CTCTTTTTCATT
* *
54397418 CTCATTTTCACT
1 CTCTTTTTCATT
54397430 CTCTTTTT
1 CTCTTTTT
54397438 GTTCTTTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
11 2 0.05
12 32 0.86
13 3 0.08
ACGTcount: A:0.12, C:0.25, G:0.02, T:0.61
Consensus pattern (12 bp):
CTCTTTTTCATT
Found at i:54397409 original size:36 final size:36
Alignment explanation
Indices: 54397369--54397437 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
54397359 TCAACTTCTT
*
54397369 TTTCTCTCTCAAACTC-TTGTTCATTCTCTTTTTCAA
1 TTTCTCTCTCAAACTCATT-TTCACTCTCTTTTTCAA
* * *
54397405 TTTCTTTTTCAATCTCATTTTCACTCTCTTTTT
1 TTTCTCTCTCAAACTCATTTTCACTCTCTTTTT
54397438 GTTCTTTTTC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
36 26 0.93
37 2 0.07
ACGTcount: A:0.14, C:0.26, G:0.01, T:0.58
Consensus pattern (36 bp):
TTTCTCTCTCAAACTCATTTTCACTCTCTTTTTCAA
Found at i:54397434 original size:24 final size:24
Alignment explanation
Indices: 54397377--54397437 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
54397367 TTTTTCTCTC
* * * *
54397377 TCAAACTCTTGTTCATTCTCTTTT
1 TCAATCTCTTTTTCAATCTCATTT
*
54397401 TCAATTTCTTTTTCAATCTCATTT
1 TCAATCTCTTTTTCAATCTCATTT
*
54397425 TCACTCTCTTTTT
1 TCAATCTCTTTTT
54397438 GTTCTTTTTC
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.16, C:0.25, G:0.02, T:0.57
Consensus pattern (24 bp):
TCAATCTCTTTTTCAATCTCATTT
Found at i:54398488 original size:11 final size:11
Alignment explanation
Indices: 54398472--54398534 Score: 87
Period size: 11 Copynumber: 5.9 Consensus size: 11
54398462 AACACACTTA
54398472 TTTTTTCGAAT
1 TTTTTTCGAAT
54398483 TTTTTT-GAA-
1 TTTTTTCGAAT
54398492 TTTTTT-GAAT
1 TTTTTTCGAAT
54398502 TTTTTTCGAAT
1 TTTTTTCGAAT
*
54398513 TTTTTTTGAACT
1 TTTTTTCGAA-T
54398525 TTTTTTCGAA
1 TTTTTTCGAA
54398535 ACTCTTTTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 5
0.87 0.04 0.09
Matches are distributed among these distances:
9 9 0.19
10 9 0.19
11 19 0.40
12 10 0.21
ACGTcount: A:0.19, C:0.06, G:0.10, T:0.65
Consensus pattern (11 bp):
TTTTTTCGAAT
Found at i:54398496 original size:20 final size:20
Alignment explanation
Indices: 54398471--54398534 Score: 85
Period size: 23 Copynumber: 3.0 Consensus size: 20
54398461 TAACACACTT
54398471 ATTTTTTCGAATTTTTTT-GA
1 ATTTTTT-GAATTTTTTTCGA
54398491 ATTTTTTGAATTTTTTTCGA
1 ATTTTTTGAATTTTTTTCGA
54398511 ATTTTTTTTGAACTTTTTTTCGA
1 A--TTTTTTGAA-TTTTTTTCGA
54398534 A
1 A
54398535 ACTCTTTTTT
Statistics
Matches: 40, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
19 10 0.25
20 10 0.25
22 9 0.22
23 11 0.28
ACGTcount: A:0.20, C:0.06, G:0.09, T:0.64
Consensus pattern (20 bp):
ATTTTTTGAATTTTTTTCGA
Found at i:54398497 original size:12 final size:11
Alignment explanation
Indices: 54398472--54398573 Score: 77
Period size: 11 Copynumber: 8.9 Consensus size: 11
54398462 AACACACTTA
*
54398472 TTTTTTCGAA-
1 TTTTTTTGAAT
54398482 TTTTTTTGAA-
1 TTTTTTTGAAT
54398492 -TTTTTTGAAT
1 TTTTTTTGAAT
*
54398502 TTTTTTCGAAT
1 TTTTTTTGAAT
54398513 TTTTTTTGAACT
1 TTTTTTTGAA-T
*
54398525 TTTTTTCGAAACT
1 TTTTTTTG-AA-T
54398538 CTTTTTTT-AACT
1 -TTTTTTTGAA-T
54398550 TTTTTTTCGAAACT
1 TTTTTTT-G-AA-T
54398564 TTTTTTTGAA
1 TTTTTTTGAA
54398574 CTTACTTGAT
Statistics
Matches: 79, Mismatches: 5, Indels: 14
0.81 0.05 0.14
Matches are distributed among these distances:
9 9 0.11
10 9 0.11
11 25 0.32
12 14 0.18
13 5 0.06
14 17 0.22
ACGTcount: A:0.20, C:0.09, G:0.08, T:0.64
Consensus pattern (11 bp):
TTTTTTTGAAT
Found at i:54398527 original size:10 final size:10
Alignment explanation
Indices: 54398471--54398530 Score: 77
Period size: 10 Copynumber: 5.8 Consensus size: 10
54398461 TAACACACTT
*
54398471 ATTTTTTCGA
1 ATTTTTTTGA
54398481 ATTTTTTTGA
1 ATTTTTTTGA
54398491 A-TTTTTTGA
1 ATTTTTTTGA
54398500 ATTTTTTTCGA
1 ATTTTTTT-GA
54398511 ATTTTTTTTGA
1 A-TTTTTTTGA
54398522 ACTTTTTTT
1 A-TTTTTTT
54398531 CGAAACTCTT
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
9 9 0.20
10 16 0.36
11 13 0.29
12 7 0.16
ACGTcount: A:0.18, C:0.05, G:0.08, T:0.68
Consensus pattern (10 bp):
ATTTTTTTGA
Found at i:54398542 original size:26 final size:25
Alignment explanation
Indices: 54398492--54398576 Score: 124
Period size: 26 Copynumber: 3.5 Consensus size: 25
54398482 TTTTTTTGAA
54398492 TTTTTTGAA-TTTTTTTCG-AA-TT
1 TTTTTTGAACTTTTTTTCGAAACTT
54398514 TTTTTTGAACTTTTTTTCGAAACTCT
1 TTTTTTGAACTTTTTTTCGAAACT-T
54398540 TTTTTT-AACTTTTTTTTCGAAACTT
1 TTTTTTGAAC-TTTTTTTCGAAACTT
54398565 TTTTTTGAACTT
1 TTTTTTGAACTT
54398577 ACTTGATGAG
Statistics
Matches: 57, Mismatches: 0, Indels: 9
0.86 0.00 0.14
Matches are distributed among these distances:
22 9 0.16
23 9 0.16
24 2 0.04
25 13 0.23
26 24 0.42
ACGTcount: A:0.19, C:0.11, G:0.07, T:0.64
Consensus pattern (25 bp):
TTTTTTGAACTTTTTTTCGAAACTT
Found at i:54398575 original size:12 final size:12
Alignment explanation
Indices: 54398492--54398576 Score: 95
Period size: 11 Copynumber: 7.0 Consensus size: 12
54398482 TTTTTTTGAA
54398492 TTTTTTGAA-TT
1 TTTTTTGAACTT
*
54398503 TTTTTCGAA-TT
1 TTTTTTGAACTT
54398514 TTTTTTGAACTT
1 TTTTTTGAACTT
*
54398526 TTTTTCGAAACTCT
1 TTTTTTG-AACT-T
54398540 TTTTTT-AACTT
1 TTTTTTGAACTT
54398551 TTTTTTCGAAACTT
1 TTTTTT-G-AACTT
54398565 TTTTTTGAACTT
1 TTTTTTGAACTT
54398577 ACTTGATGAG
Statistics
Matches: 64, Mismatches: 4, Indels: 11
0.81 0.05 0.14
Matches are distributed among these distances:
11 25 0.39
12 17 0.27
13 5 0.08
14 17 0.27
ACGTcount: A:0.19, C:0.11, G:0.07, T:0.64
Consensus pattern (12 bp):
TTTTTTGAACTT
Found at i:54414587 original size:9 final size:9
Alignment explanation
Indices: 54414573--54414601 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
54414563 AATGGCACCA
54414573 AAGGAGCTT
1 AAGGAGCTT
54414582 AAGGAGCTT
1 AAGGAGCTT
54414591 AAGGAGCTT
1 AAGGAGCTT
54414600 AA
1 AA
54414602 AGCGCAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.38, C:0.10, G:0.31, T:0.21
Consensus pattern (9 bp):
AAGGAGCTT
Found at i:54416621 original size:93 final size:93
Alignment explanation
Indices: 54416510--54416682 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
54416500 CGCCCATAAG
* *
54416510 CGAACTCAGACTCAACTCAACAAGCTCGGGCGTTCGCATCCACAAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCACAAGTGAACTCAGACTCAACTCA
54416575 ACGAGCTAGGATGCCTAGTTACATCTCT
66 ACGAGCTAGGATGCCTAGTTACATCTCT
* * * * *
54416603 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCACAAGTGAACTCAGACTCAACTCA
* *
54416668 ACGAGTTCGGATGCC
66 ACGAGCTAGGATGCC
54416683 CAAACATCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACAAGCTCGGACATTCGCATCCACAAGTGAACTCAGACTCAACTCA
ACGAGCTAGGATGCCTAGTTACATCTCT
Found at i:54416665 original size:46 final size:46
Alignment explanation
Indices: 54416503--54416678 Score: 160
Period size: 46 Copynumber: 3.8 Consensus size: 46
54416493 TGTAACCCGC
* * * *
54416503 CCATAAGCGAACTCAGACTCAACTCAACAAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* * *
54416549 CCACAAGTGAACTCAGACTCAACTCAACGAGCTAGG--ATGC-CTAGTT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGC-A--T
* *** * *
54416595 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGT-GAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
54416642 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
54416679 TGCCCAAACA
Statistics
Matches: 104, Mismatches: 19, Indels: 14
0.76 0.14 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
46 65 0.62
47 30 0.29
49 4 0.04
50 1 0.01
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:54416697 original size:46 final size:46
Alignment explanation
Indices: 54416554--54416697 Score: 125
Period size: 46 Copynumber: 3.1 Consensus size: 46
54416544 CGCATCCACA
* * * *
54416554 AGTGAACTCAGACTCAACTCAACGAGCTAGGATGCCTAGTTACATCTCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCA--TACATC-CT
* * * * *
54416603 --CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT--A
1 AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGCCCATACATCCT
*
54416647 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCAAACATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
54416693 AGTGA
1 AGTGA
54416698 CATGTCACTT
Statistics
Matches: 74, Mismatches: 15, Indels: 15
0.71 0.14 0.14
Matches are distributed among these distances:
44 8 0.11
46 33 0.45
47 29 0.39
49 4 0.05
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCCATACATCCT
Found at i:54433596 original size:46 final size:46
Alignment explanation
Indices: 54433470--54433597 Score: 193
Period size: 46 Copynumber: 2.8 Consensus size: 46
54433460 GGTTGAGCAT
* * * *
54433470 CCGAACTCGTTGAATTGAGTCCGAGTTCACTTATAGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
54433516 CCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
54433562 CCGAGCTTGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54433598 GCGGGTTACA
Statistics
Matches: 74, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
46 74 1.00
ACGTcount: A:0.22, C:0.22, G:0.27, T:0.30
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:54438973 original size:46 final size:46
Alignment explanation
Indices: 54438923--54439051 Score: 213
Period size: 46 Copynumber: 2.8 Consensus size: 46
54438913 TGGTTGAGCA
* *
54438923 TCCGAACTCGTTGAATTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
*
54438969 TCCGAACTCGTTGAGTTCAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
* *
54439015 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
54439052 GCGGGTTACA
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
46 77 1.00
ACGTcount: A:0.21, C:0.22, G:0.27, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
Found at i:54446547 original size:30 final size:30
Alignment explanation
Indices: 54446513--54446569 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
54446503 TAACTCAAAC
54446513 TTTTGAAAAATTACAATTTTGCCCCTAAAA
1 TTTTGAAAAATTACAATTTTGCCCCTAAAA
* * * *
54446543 TTTTGCATATTTACACTTTTGCCCCTA
1 TTTTGAAAAATTACAATTTTGCCCCTA
54446570 GGCTCAGGAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (30 bp):
TTTTGAAAAATTACAATTTTGCCCCTAAAA
Found at i:54466908 original size:18 final size:18
Alignment explanation
Indices: 54466887--54466965 Score: 70
Period size: 18 Copynumber: 4.3 Consensus size: 18
54466877 GATCTCGATC
54466887 TCTTTTTC-CTTCTCTTTT
1 TCTTTTTCACTT-TCTTTT
54466905 TCTTTTTCACTTTCTTTT
1 TCTTTTTCACTTTCTTTT
** *
54466923 TCAATTTCATTTTTCTTTT
1 TCTTTTTCA-CTTTCTTTT
* * *
54466942 TCTTATTCTCTTTTTTCTT
1 TCTTTTTCACTTTCTT-TT
54466961 TCTTT
1 TCTTT
54466966 CACACCATTT
Statistics
Matches: 48, Mismatches: 10, Indels: 5
0.76 0.16 0.08
Matches are distributed among these distances:
18 26 0.54
19 22 0.46
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (18 bp):
TCTTTTTCACTTTCTTTT
Found at i:54466910 original size:6 final size:6
Alignment explanation
Indices: 54466887--54466965 Score: 61
Period size: 6 Copynumber: 12.8 Consensus size: 6
54466877 GATCTCGATC
* * ** **
54466887 TCTTTT TCCTTC TCTTTT TCTTTT TCACTT TCTTTT TCAATT TCATTTT
1 TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TCTTTT TC-TTTT
*
54466936 TCTTTT TCTTATT CTCTTTT T-TCTT TCTTT
1 TCTTTT TCTT-TT -TCTTTT TCTTTT TCTTT
54466966 CACACCATTT
Statistics
Matches: 55, Mismatches: 14, Indels: 8
0.71 0.18 0.10
Matches are distributed among these distances:
5 4 0.07
6 39 0.71
7 8 0.15
8 4 0.07
ACGTcount: A:0.06, C:0.22, G:0.00, T:0.72
Consensus pattern (6 bp):
TCTTTT
Found at i:54466955 original size:19 final size:19
Alignment explanation
Indices: 54466899--54466964 Score: 50
Period size: 19 Copynumber: 3.5 Consensus size: 19
54466889 TTTTTCCTTC
* *
54466899 TCTTTTTCTTTTTCAC-TT
1 TCTTTTTCTTATTCTCTTT
*
54466917 TCTTTTTC-AATT-TCATTTT
1 TCTTTTTCTTATTCTC--TTT
54466936 TCTTTTTCTTATTCTCTTT
1 TCTTTTTCTTATTCTCTTT
54466955 T-TTCTTTCTT
1 TCTT-TTTCTT
54466965 TCACACCATT
Statistics
Matches: 38, Mismatches: 4, Indels: 11
0.72 0.08 0.21
Matches are distributed among these distances:
16 1 0.03
17 2 0.05
18 10 0.26
19 20 0.53
20 3 0.08
21 2 0.05
ACGTcount: A:0.08, C:0.20, G:0.00, T:0.73
Consensus pattern (19 bp):
TCTTTTTCTTATTCTCTTT
Found at i:54474811 original size:40 final size:40
Alignment explanation
Indices: 54474583--54474804 Score: 283
Period size: 40 Copynumber: 5.6 Consensus size: 40
54474573 AATGATGTCT
* * * *
54474583 GGGCTAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCC
* *
54474623 GGACTAAGAT-CCGAAGGCATTTGTACGAGTTACTAAATCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
54474663 GGACTAAGAT--CGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
54474702 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
*
54474742 GGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA-CC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AATCC
*
54474782 GGGCTATGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCGAAGGCATTTG
54474805 AACGAGTAGC
Statistics
Matches: 166, Mismatches: 11, Indels: 10
0.89 0.06 0.05
Matches are distributed among these distances:
38 1 0.01
39 34 0.20
40 121 0.73
41 10 0.06
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAATCC
Found at i:54474822 original size:80 final size:80
Alignment explanation
Indices: 54474587--54474837 Score: 282
Period size: 79 Copynumber: 3.2 Consensus size: 80
54474577 ATGTCTGGGC
* * * * *
54474587 TAAGTCCCGAAGGC-TTTGTGCTAGGTGACCATATCCGGACTAAGAT-CCGAAGGCATTTGTACG
1 TAAGTCCCGAAGGCATTTGTGCGA-GTTACTATAACCGGGCTAAG-TCCCGAAGGCATTTGTACG
**
54474650 AGTTACTAAATCCGGAC
64 AGTTACTAAATCCGGGT
* *
54474667 TAAGAT--CGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTTGTGCG
1 TAAG-TCCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTTGTACG
54474729 AGTTACTAAATCCGGGT
64 AGTTACTAAATCCGGGT
* *
54474746 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAG
*
54474811 -TAGCTATATCC-GGT
66 TTA-CTAAATCCGGGT
* *
54474825 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
54474838 TACGTGATTT
Statistics
Matches: 147, Mismatches: 16, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
78 3 0.02
79 71 0.48
80 70 0.48
81 3 0.02
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (80 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTGTACGAG
TTACTAAATCCGGGT
Found at i:54474826 original size:119 final size:119
Alignment explanation
Indices: 54474587--54474837 Score: 280
Period size: 119 Copynumber: 2.1 Consensus size: 119
54474577 ATGTCTGGGC
* *
54474587 TAAGTCCCGAAGGCTTTGTGCTAGGTGACCATATCCGGACTAAGATCCGAAGGCATTTGTACGAG
1 TAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTACGAG
**
54474652 TTACTAAATCCGGACTAAGATCGAAGGCATTTGTGCGAGTTACTAAATCCGGGT
66 TTACTAAATCCGGACTAAGATCGAAGGCATTTGAACGAGTTACTAAATCCGGGT
* * ** *
54474706 TAAGTCCCGAAGGCATTTGTGCGA-GTTACTAAATCCGGGTTAAG-TCCCGAAGGCATTTGTGCG
1 TAAGTCCCGAAGGC-TTTGTGCGAGGTGACCAAATCCGGACTAAGAT-CCGAAGGCATTTGTACG
* * *
54474769 AGTTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTGAACGAG-TAGCTATATCC-GGT
64 AGTTACTA-AATCCGGACTAAGAT--CGAAGGCATTTGAACGAGTTA-CTAAATCCGGGT
* *
54474825 TAAATTCCGAAGG
1 TAAGTCCCGAAGG
54474838 TACGTGATTT
Statistics
Matches: 112, Mismatches: 14, Indels: 12
0.81 0.10 0.09
Matches are distributed among these distances:
118 2 0.02
119 77 0.69
120 33 0.29
ACGTcount: A:0.27, C:0.20, G:0.26, T:0.26
Consensus pattern (119 bp):
TAAGTCCCGAAGGCTTTGTGCGAGGTGACCAAATCCGGACTAAGATCCGAAGGCATTTGTACGAG
TTACTAAATCCGGACTAAGATCGAAGGCATTTGAACGAGTTACTAAATCCGGGT
Found at i:54482744 original size:39 final size:40
Alignment explanation
Indices: 54482560--54482781 Score: 287
Period size: 40 Copynumber: 5.7 Consensus size: 40
54482550 TTGAATGATG
* * * *
54482560 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
54482600 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAG-TACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
54482639 TCCGGGCTAAG--CCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54482677 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
54482717 TCCGGGTTAAGT-CCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
54482757 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54482782 AACGAGTAGC
Statistics
Matches: 164, Mismatches: 11, Indels: 14
0.87 0.06 0.07
Matches are distributed among these distances:
37 19 0.12
38 16 0.10
39 47 0.29
40 74 0.45
41 8 0.05
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:54482761 original size:79 final size:78
Alignment explanation
Indices: 54482560--54482800 Score: 292
Period size: 79 Copynumber: 3.1 Consensus size: 78
54482550 TTGAATGATG
* * * * *
54482560 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATATCCGGACTAAGAT-CCGAAGGCAT
1 TCCGGGCTAAGT-CCGAAGGCATTTGTGC-GAGTTACTATAACCGGGCTAAG-TCCCGAAGGCAT
*
54482623 TTGTGCGAGTACTAAT
63 TTGTGCGAGTACTAAA
*
54482639 TCCGGGCTAAG-CCGAAGGCATTTGTGCGAGTTACTA-AATCCGGGTTAAGTCCCGAAGGCATTT
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAA-CCGGGCTAAGTCCCGAAGGCATTT
54482702 GTGCGAGTTACTAAA
65 GTGCGAG-TACTAAA
* *
54482717 TCCGGGTTAAGTCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
** *
54482782 AACGAGTAGCTATA
66 TGCGAGTA-CTAAA
54482796 TCCGG
1 TCCGG
54482801 TTAAATTCCG
Statistics
Matches: 142, Mismatches: 13, Indels: 14
0.84 0.08 0.08
Matches are distributed among these distances:
76 2 0.01
77 41 0.29
78 25 0.18
79 72 0.51
80 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (78 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCATTTG
TGCGAGTACTAAA
Found at i:54498912 original size:18 final size:20
Alignment explanation
Indices: 54498879--54498915 Score: 60
Period size: 18 Copynumber: 1.9 Consensus size: 20
54498869 TACTTATGAC
54498879 TATTAGGTATTTTTACCGAT
1 TATTAGGTATTTTTACCGAT
54498899 TATTAGG-A-TTTTACCGA
1 TATTAGGTATTTTTACCGA
54498916 ATAATCTCCT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 9 0.53
19 1 0.06
20 7 0.41
ACGTcount: A:0.27, C:0.11, G:0.16, T:0.46
Consensus pattern (20 bp):
TATTAGGTATTTTTACCGAT
Found at i:54501034 original size:38 final size:38
Alignment explanation
Indices: 54500970--54501044 Score: 107
Period size: 38 Copynumber: 2.0 Consensus size: 38
54500960 AATCCGAGTT
*
54500970 TAAAGACCCGCTGACTATATGAAGAGATTATGTCCGGG
1 TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
* *
54501008 TAAAGACCCGATGGCTATGT-ACAGAGATTATGTCCGG
1 TAAAGACCCGATGACTATATGA-AGAGATTATGTCCGG
54501045 ATTAAAATTC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
37 1 0.03
38 32 0.97
ACGTcount: A:0.31, C:0.19, G:0.27, T:0.24
Consensus pattern (38 bp):
TAAAGACCCGATGACTATATGAAGAGATTATGTCCGGG
Found at i:54501157 original size:40 final size:39
Alignment explanation
Indices: 54501098--54501488 Score: 551
Period size: 40 Copynumber: 10.1 Consensus size: 39
54501088 AGGTCTCGAC
*
54501098 GATG-ATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGT
54501137 GATGTATCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGT
54501177 GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
*
54501216 GATGTACCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
54501255 GATGTA-CCGGGCTAAGT-CGAAGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
54501292 GATGTATCC-GGCTAAGTCCG-AGAGCATTCATGCTAGT
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
*
54501329 GATGTATCC-GGCTAAGTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
* *
54501367 GATGTATCCGGACTAAGTTCCGAAGAGCATTCGTGCTAGT
1 GATGTATCCGGGCTAAG-TCCGAAGAGCATTCATGCTAGT
* * ** * *
54501407 GATATATCCGTGCTAAACCCCGAAGAGCATTCGTGCTGGT
1 GATGTATCCGGGCT-AAGTCCGAAGAGCATTCATGCTAGT
* * * * *
54501447 GTTATATCCGGGCTAGGTCCCGAAGAGCAATCATGCTGGT
1 GATGTATCCGGGCTAAGT-CCGAAGAGCATTCATGCTAGT
54501487 GA
1 GA
54501489 CGTGTATTCG
Statistics
Matches: 326, Mismatches: 18, Indels: 15
0.91 0.05 0.04
Matches are distributed among these distances:
37 71 0.22
38 40 0.12
39 76 0.23
40 137 0.42
41 2 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (39 bp):
GATGTATCCGGGCTAAGTCCGAAGAGCATTCATGCTAGT
Found at i:54505044 original size:22 final size:22
Alignment explanation
Indices: 54505017--54505091 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
54505007 CATGTGTATG
54505017 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
* * ***
54505039 TGTGATGAATG-TGAAAGTGTATATA
1 TGTGAT-AAGGCCG-AA-TGGCCA-A
54505064 TGTGATAAGGCCGAATGGCCAA
1 TGTGATAAGGCCGAATGGCCAA
54505086 TGTGAT
1 TGTGAT
54505092 GGATGTGGAA
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 14 0.37
23 8 0.21
24 8 0.21
25 8 0.21
ACGTcount: A:0.32, C:0.11, G:0.31, T:0.27
Consensus pattern (22 bp):
TGTGATAAGGCCGAATGGCCAA
Found at i:54505106 original size:47 final size:47
Alignment explanation
Indices: 54504829--54505098 Score: 479
Period size: 47 Copynumber: 5.7 Consensus size: 47
54504819 AGTATATATA
* *
54504829 TGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
54504876 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
54504923 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
54504970 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
* *
54505017 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATA
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTGTATG
*
54505064 TGTGATAAGGCCGAATGGCCAATGTGATGGATGTG
1 TGTGATAAGGCCGAATGGCCAATGTGATGAATGTG
54505099 GAAGTGTATA
Statistics
Matches: 217, Mismatches: 5, Indels: 2
0.97 0.02 0.01
Matches are distributed among these distances:
46 1 0.00
47 216 1.00
ACGTcount: A:0.29, C:0.10, G:0.33, T:0.27
Consensus pattern (47 bp):
TGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATG
Found at i:54505115 original size:141 final size:140
Alignment explanation
Indices: 54504818--54505119 Score: 473
Period size: 141 Copynumber: 2.1 Consensus size: 140
54504808 ATTGATGTAC
* * *
54504818 AAGTATATATATGTGATAGGGCCGAGTGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATA
1 AAGTGTATA-ATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATA
* *
54504883 AGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAAGGCCGAATGGCCAATGT
65 AGGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGT
54504948 GATGAATGTGA
130 GATGAATGTGA
*
54504959 ACATGTGTAT-GTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGAT
1 A-A-GTGTATAATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGAT
54505023 AAGGCCGAATGGCCAATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCGAATGGCCAAT
64 AAGGCCGAATGGCCAATGTGATGAATGTGAACA-TGTATATATGTGATAAGGCCGAATGGCCAAT
* *
54505087 GTGATGGATGTGG
128 GTGATGAATGTGA
54505100 AAGTGTATAAATGTGATAAG
1 AAGTGTAT-AATGTGATAAG
54505120 TCCCGAAGGG
Statistics
Matches: 147, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
139 6 0.04
140 2 0.01
141 133 0.90
142 1 0.01
143 5 0.03
ACGTcount: A:0.31, C:0.09, G:0.32, T:0.28
Consensus pattern (140 bp):
AAGTGTATAATGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAACATGTGTATGTGTGATAA
GGCCGAATGGCCAATGTGATGAATGTGAACATGTATATATGTGATAAGGCCGAATGGCCAATGTG
ATGAATGTGA
Found at i:54509751 original size:40 final size:40
Alignment explanation
Indices: 54509669--54509834 Score: 210
Period size: 40 Copynumber: 4.2 Consensus size: 40
54509659 CGTTTGGATA
* * * *
54509669 AAAAACGCCGCTATAGATCGAGCACTAGCGACGATTTT-G
1 AAAAATGCCGCTATAGATCGAGCATTAGCGGCGCTTTTCG
54509708 AAAAATGCCGCTATAGATCGAGCATTAGCGGCGCTTTTCG
1 AAAAATGCCGCTATAGATCGAGCATTAGCGGCGCTTTTCG
* * * *
54509748 AAAAATGCCACTATAGATCGAGTATTAGTGGCGCTTTTCA
1 AAAAATGCCGCTATAGATCGAGCATTAGCGGCGCTTTTCG
* * *
54509788 AAAAATGCCGCTATA-AGTCGACCATTAGCGGCGGTTTTTG
1 AAAAATGCCGCTATAGA-TCGAGCATTAGCGGCGCTTTTCG
54509828 AAAAATG
1 AAAAATG
54509835 AAGCAAAAAA
Statistics
Matches: 110, Mismatches: 15, Indels: 3
0.86 0.12 0.02
Matches are distributed among these distances:
39 35 0.32
40 75 0.68
ACGTcount: A:0.32, C:0.20, G:0.23, T:0.25
Consensus pattern (40 bp):
AAAAATGCCGCTATAGATCGAGCATTAGCGGCGCTTTTCG
Found at i:54509939 original size:40 final size:40
Alignment explanation
Indices: 54509884--54509987 Score: 127
Period size: 40 Copynumber: 2.6 Consensus size: 40
54509874 GCTGTAGTGA
* * * *
54509884 CATTAGCAGTGCTTTTTGAAAAACGCCACTATAGATTAAG
1 CATTAGCGGTGCTTTTTAAAAAACGCCACTATAGATCAAC
* * *
54509924 CATTAGCGGTGCTTTTTAAAAAACGCCGCTATAGGTCGAC
1 CATTAGCGGTGCTTTTTAAAAAACGCCACTATAGATCAAC
*
54509964 CATTAGCGGCGCTTTTTTAAAAAA
1 CATTAGCGGTGC-TTTTTAAAAAA
54509988 GCCGCAAAAA
Statistics
Matches: 55, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 44 0.80
41 11 0.20
ACGTcount: A:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (40 bp):
CATTAGCGGTGCTTTTTAAAAAACGCCACTATAGATCAAC
Found at i:54510017 original size:154 final size:155
Alignment explanation
Indices: 54509730--54510101 Score: 494
Period size: 154 Copynumber: 2.4 Consensus size: 155
54509720 ATAGATCGAG
* * * * *
54509730 CATTAGCGGCGCTTTTCGAAAAATGCCACTATAGATCGAGTATTAGTGGCGCTTTTCAAAAAATG
1 CATTAGCGGCGCTTTTTGAAAAATGCCACTATAGATCAAGCATTAGCGGCGCTTTTCAAAAAACG
* * *
54509795 CCGCTATAAGTCGACCATTAGCGGCGGTTTTTGAAAAATGAAGCAAAAAAATTAAGCACAACGTC
66 CCGCTATAAGTCGACCATTAGCGGCGCTTTTTGAAAAAAGAAGCAAAAAAATTAAGCACAACGCC
54509860 GTCGTTTTATGTT-AGCTGTAGTGA
131 GTCGTTTTATGTTGAGCTGTAGTGA
* * * * * *
54509884 CATTAGCAGTGCTTTTTGAAAAACGCCACTATAGATTAAGCATTAGCGGTGCTTTTTAAAAAACG
1 CATTAGCGGCGCTTTTTGAAAAATGCCACTATAGATCAAGCATTAGCGGCGCTTTTCAAAAAACG
* * ** *
54509949 CCGCTATAGGTCGACCATTAGCGGCGCTTTTTTAAAAAAGCCGCAAAAAAATTAAGCATAACGCC
66 CCGCTATAAGTCGACCATTAGCGGCGCTTTTTGAAAAAAGAAGCAAAAAAATTAAGCACAACGCC
* *
54510014 GTCGTTTTATGTTGAGCTTTAGTGG
131 GTCGTTTTATGTTGAGCTGTAGTGA
* * * * *
54510039 CATTAGCGGCGCTTTTTGGAAAATGCCGCTATAGATCGAGCTTTAGCGTCGCTTTATCAAAAA
1 CATTAGCGGCGCTTTTTGAAAAATGCCACTATAGATCAAGCATTAGCGGCGCTTT-TCAAAAA
54510102 CACCGTAAAA
Statistics
Matches: 184, Mismatches: 32, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
154 124 0.67
155 54 0.29
156 6 0.03
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.29
Consensus pattern (155 bp):
CATTAGCGGCGCTTTTTGAAAAATGCCACTATAGATCAAGCATTAGCGGCGCTTTTCAAAAAACG
CCGCTATAAGTCGACCATTAGCGGCGCTTTTTGAAAAAAGAAGCAAAAAAATTAAGCACAACGCC
GTCGTTTTATGTTGAGCTGTAGTGA
Found at i:54510173 original size:21 final size:21
Alignment explanation
Indices: 54510148--54510188 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
54510138 TAACTTGTTT
54510148 ATTTA-TATTAATTGAAATACA
1 ATTTATTATTAATT-AAATACA
*
54510169 ATTTATTTTTAATTAAATAC
1 ATTTATTATTAATTAAATAC
54510189 TTAAATTCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.44, C:0.05, G:0.02, T:0.49
Consensus pattern (21 bp):
ATTTATTATTAATTAAATACA
Found at i:54510363 original size:14 final size:14
Alignment explanation
Indices: 54510344--54510393 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
54510334 TTAATTATTA
54510344 TTATAGTTTAGGGT
1 TTATAGTTTAGGGT
* *
54510358 TTATAGTTTAAGAT
1 TTATAGTTTAGGGT
* *
54510372 GTATGGTTTAGGGT
1 TTATAGTTTAGGGT
54510386 TTA-AGTTT
1 TTATAGTTT
54510394 TAGGAGTTAC
Statistics
Matches: 28, Mismatches: 8, Indels: 1
0.76 0.22 0.03
Matches are distributed among these distances:
13 4 0.14
14 24 0.86
ACGTcount: A:0.24, C:0.00, G:0.26, T:0.50
Consensus pattern (14 bp):
TTATAGTTTAGGGT
Found at i:54510450 original size:14 final size:14
Alignment explanation
Indices: 54510423--54510486 Score: 56
Period size: 14 Copynumber: 4.5 Consensus size: 14
54510413 GTTTATATAT
54510423 GGATTATGGGTTTAG
1 GGATTAT-GGTTTAG
*
54510438 GGATTATGGTTTAT
1 GGATTATGGTTTAG
* * *
54510452 GGTTTAAGGGTTAG
1 GGATTATGGTTTAG
* *
54510466 GGTTTAAGGTTTAG
1 GGATTATGGTTTAG
*
54510480 GGGTTAT
1 GGATTAT
54510487 ATATTGGTTA
Statistics
Matches: 41, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
14 34 0.83
15 7 0.17
ACGTcount: A:0.20, C:0.00, G:0.38, T:0.42
Consensus pattern (14 bp):
GGATTATGGTTTAG
Found at i:54510454 original size:7 final size:7
Alignment explanation
Indices: 54510420--54510549 Score: 50
Period size: 7 Copynumber: 18.7 Consensus size: 7
54510410 AAGGTTTATA
*
54510420 TATGGAT
1 TATGGTT
54510427 TATGGGTT
1 TAT-GGTT
* *
54510435 TAGGGAT
1 TATGGTT
54510442 TATGGTT
1 TATGGTT
54510449 TATGGTT
1 TATGGTT
* *
54510456 TAAGGGT
1 TATGGTT
*
54510463 TAGGGTT
1 TATGGTT
*
54510470 TAAGGTT
1 TATGGTT
* *
54510477 TAGGGGT
1 TATGGTT
* *
54510484 TAT-ATA
1 TATGGTT
54510490 T-TGG-T
1 TATGGTT
* *
54510495 TAAGGCT
1 TATGGTT
*
54510502 TAGGGGTT
1 TA-TGGTT
*
54510510 TAGGGTT
1 TATGGTT
*
54510517 TATGATT
1 TATGGTT
*
54510524 TATGTTT
1 TATGGTT
*
54510531 TATGATT
1 TATGGTT
*
54510538 TAAGGTT
1 TATGGTT
54510545 TATGG
1 TATGG
54510550 GGATAGGAGA
Statistics
Matches: 90, Mismatches: 28, Indels: 10
0.70 0.22 0.08
Matches are distributed among these distances:
5 2 0.02
6 3 0.03
7 75 0.83
8 10 0.11
ACGTcount: A:0.22, C:0.01, G:0.32, T:0.45
Consensus pattern (7 bp):
TATGGTT
Found at i:54510457 original size:21 final size:20
Alignment explanation
Indices: 54510420--54510486 Score: 71
Period size: 21 Copynumber: 3.1 Consensus size: 20
54510410 AAGGTTTATA
*
54510420 TATGGATTATGGGTTTAGGGAT
1 TATGGTTTAT-GGTTTAGGG-T
54510442 TATGGTTTATGGTTTAAGGGT
1 TATGGTTTATGGTTT-AGGGT
* *
54510463 TAGGGTTTAAGGTTTAGGGGT
1 TATGGTTTATGGTTTA-GGGT
54510484 TAT
1 TAT
54510487 ATATTGGTTA
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
20 1 0.03
21 25 0.64
22 13 0.33
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (20 bp):
TATGGTTTATGGTTTAGGGT
Found at i:54511645 original size:20 final size:21
Alignment explanation
Indices: 54511600--54511654 Score: 58
Period size: 20 Copynumber: 2.6 Consensus size: 21
54511590 TAAAAATTAC
* *
54511600 AAAAATCTTCAAAATAAAATT
1 AAAAATCTTAAAAATAAAAAT
*
54511621 TAAAAT-TTAAAAATAAAAAT
1 AAAAATCTTAAAAATAAAAAT
*
54511641 AAAAAAACTTAAAA
1 -AAAAATCTTAAAA
54511655 TTTTAATATT
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
20 12 0.44
21 9 0.33
22 6 0.22
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.25
Consensus pattern (21 bp):
AAAAATCTTAAAAATAAAAAT
Found at i:54511784 original size:28 final size:28
Alignment explanation
Indices: 54511746--54511805 Score: 79
Period size: 30 Copynumber: 2.1 Consensus size: 28
54511736 ATCTCAGCAC
54511746 AAAAATTTT-AAAA-GAAAAAAAAAATA
1 AAAAATTTTAAAAATGAAAAAAAAAATA
*
54511772 AAAAATATGTTAAAAATGAAAAAAAAAATC
1 AAAAAT-T-TTAAAAATGAAAAAAAAAATA
54511802 AAAA
1 AAAA
54511806 TTTAGCAATA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 6 0.21
27 1 0.03
28 2 0.07
29 4 0.14
30 16 0.55
ACGTcount: A:0.75, C:0.02, G:0.05, T:0.18
Consensus pattern (28 bp):
AAAAATTTTAAAAATGAAAAAAAAAATA
Found at i:54511873 original size:40 final size:42
Alignment explanation
Indices: 54511802--54511905 Score: 131
Period size: 41 Copynumber: 2.5 Consensus size: 42
54511792 AAAAAAAATC
* * * *
54511802 AAAATTTAGCAATAGTGACGTTTTTGGGTAAAAA-GCCACAA
1 AAAATTGAGCTATAGTGACGTTTTTGCGTAAAAACGCAACAA
*
54511843 AAAATTGAGCTATAGTGACGTTTTT-CGTAAAAACGCAATAA
1 AAAATTGAGCTATAGTGACGTTTTTGCGTAAAAACGCAACAA
* *
54511884 AAAGTTGAGCTATAGTGGCGTT
1 AAAATTGAGCTATAGTGACGTT
54511906 ACCAAAAAAA
Statistics
Matches: 55, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
40 7 0.13
41 48 0.87
ACGTcount: A:0.38, C:0.12, G:0.21, T:0.29
Consensus pattern (42 bp):
AAAATTGAGCTATAGTGACGTTTTTGCGTAAAAACGCAACAA
Found at i:54511927 original size:41 final size:41
Alignment explanation
Indices: 54511831--54511927 Score: 108
Period size: 41 Copynumber: 2.4 Consensus size: 41
54511821 GTTTTTGGGT
** **
54511831 AAAAA-GCCACAAAAAATTGAGCTATAGTGACGTTTTTCGT
1 AAAAACGCCACAAAAAATTGAGCTATAGTGACGTTTACCAA
* * * *
54511871 AAAAACGCAATAAAAAGTTGAGCTATAGTGGCG-TTACCAA
1 AAAAACGCCACAAAAAATTGAGCTATAGTGACGTTTACCAA
54511911 AAAAACGCCACAAAAAA
1 AAAAACGCCACAAAAAA
54511928 CCACTATTTT
Statistics
Matches: 45, Mismatches: 11, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
40 22 0.49
41 23 0.51
ACGTcount: A:0.47, C:0.16, G:0.16, T:0.20
Consensus pattern (41 bp):
AAAAACGCCACAAAAAATTGAGCTATAGTGACGTTTACCAA
Found at i:54516160 original size:43 final size:43
Alignment explanation
Indices: 54516099--54516253 Score: 193
Period size: 43 Copynumber: 3.6 Consensus size: 43
54516089 TATACTTTTC
* * * * *
54516099 AAAGGTCATATTTTTTAGCGGCGTTTGTAGAAAAAGAGCCGCT
1 AAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* *
54516142 AAAGGCCATGTTCTTTAGCAGCGTTTGTGGGAAAAGCGCCGCT
1 AAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* * **
54516185 AAATGTTATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCAACT
1 AAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
* *
54516228 AAAGATCATGTTCTATAGCGGCGTTT
1 AAAGGTCATGTTCTTTAGCGGCGTTT
54516254 TTTTTACATA
Statistics
Matches: 95, Mismatches: 17, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 95 1.00
ACGTcount: A:0.26, C:0.16, G:0.27, T:0.30
Consensus pattern (43 bp):
AAAGGTCATGTTCTTTAGCGGCGTTTGTGGGAAAAGCGCCGCT
Found at i:54523039 original size:17 final size:18
Alignment explanation
Indices: 54523017--54523055 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
54523007 TGCGATGGCT
54523017 TGATATCG-ATGGATATA
1 TGATATCGTATGGATATA
* *
54523034 TGATATCGTATGTATATT
1 TGATATCGTATGGATATA
54523052 TGAT
1 TGAT
54523056 GGATGAAATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 8 0.42
18 11 0.58
ACGTcount: A:0.31, C:0.05, G:0.21, T:0.44
Consensus pattern (18 bp):
TGATATCGTATGGATATA
Found at i:54526247 original size:82 final size:81
Alignment explanation
Indices: 54526144--54526332 Score: 245
Period size: 82 Copynumber: 2.3 Consensus size: 81
54526134 ATTACCGTTG
* * * *
54526144 TTGCTTTACCTTTAGCAGCGTTTATGAGAAAAACCTTGCTATTACTTTACCTTTTGCAGCATTTA
1 TTGCTTTACCTTTTGCGGCGTTTATGAGAAAAACCTTGCTATTACTTTACCCTTTG-AGCAATTA
*
54526209 TGAG-AAAATGCCGCTA
65 TGAGAAAAACGCCGCTA
** * * *
54526225 TTGCTTTTACCTTTTGCGGCGTTTATGAGAAAAATGTTGCTATTGCTTTACCCTTTGTGGAATTA
1 TTGC-TTTACCTTTTGCGGCGTTTATGAGAAAAACCTTGCTATTACTTTACCCTTTGAGCAATTA
*
54526290 TGAGAAAAACGCTGCTA
65 TGAGAAAAACGCCGCTA
*
54526307 TTGCTTTACCTTTTGTGGCGTTTATG
1 TTGCTTTACCTTTTGCGGCGTTTATG
54526333 CAAAAAAGCA
Statistics
Matches: 94, Mismatches: 12, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
81 34 0.36
82 60 0.64
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (81 bp):
TTGCTTTACCTTTTGCGGCGTTTATGAGAAAAACCTTGCTATTACTTTACCCTTTGAGCAATTAT
GAGAAAAACGCCGCTA
Found at i:54526306 original size:40 final size:40
Alignment explanation
Indices: 54526164--54526324 Score: 173
Period size: 40 Copynumber: 4.0 Consensus size: 40
54526154 TTTAGCAGCG
* * *
54526164 TTTATGAGAAAAAC-CTTGCTATTACTTTACCTTTTGCAGCA
1 TTTATGAGAAAAACGC-TGCTATTGCTTTACCTTTTG-TGGA
* * * *
54526205 TTTATGAG-AAAATGCCGCTATTGCTTTTACCTTTTGCGGCG
1 TTTATGAGAAAAACGCTGCTATTGC-TTTACCTTTTGTGG-A
* * *
54526246 TTTATGAGAAAAATGTTGCTATTGCTTTACCCTTTGTGGA
1 TTTATGAGAAAAACGCTGCTATTGCTTTACCTTTTGTGGA
*
54526286 ATTATGAGAAAAACGCTGCTATTGCTTTACCTTTTGTGG
1 TTTATGAGAAAAACGCTGCTATTGCTTTACCTTTTGTGG
54526325 CGTTTATGCA
Statistics
Matches: 101, Mismatches: 15, Indels: 9
0.81 0.12 0.07
Matches are distributed among these distances:
40 47 0.47
41 40 0.40
42 14 0.14
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.40
Consensus pattern (40 bp):
TTTATGAGAAAAACGCTGCTATTGCTTTACCTTTTGTGGA
Found at i:54526338 original size:40 final size:41
Alignment explanation
Indices: 54526144--54526332 Score: 213
Period size: 41 Copynumber: 4.6 Consensus size: 41
54526134 ATTACCGTTG
* *
54526144 TTGCTTTACCTTTAGCAGCGTTTATGAGAAAAAC-CTTGCTA
1 TTGCTTTACCTTTTGCGGCGTTTATGAGAAAAACGC-TGCTA
* * * * *
54526185 TTACTTTACCTTTTGCAGCATTTATGAG-AAAATGCCGCTA
1 TTGCTTTACCTTTTGCGGCGTTTATGAGAAAAACGCTGCTA
* *
54526225 TTGCTTTTACCTTTTGCGGCGTTTATGAGAAAAATGTTGCTA
1 TTGC-TTTACCTTTTGCGGCGTTTATGAGAAAAACGCTGCTA
* * **
54526267 TTGCTTTACCCTTTGTGG-AATTATGAGAAAAACGCTGCTA
1 TTGCTTTACCTTTTGCGGCGTTTATGAGAAAAACGCTGCTA
*
54526307 TTGCTTTACCTTTTGTGGCGTTTATG
1 TTGCTTTACCTTTTGCGGCGTTTATG
54526333 CAAAAAAGCA
Statistics
Matches: 125, Mismatches: 19, Indels: 8
0.82 0.12 0.05
Matches are distributed among these distances:
40 46 0.37
41 65 0.52
42 14 0.11
ACGTcount: A:0.23, C:0.17, G:0.19, T:0.40
Consensus pattern (41 bp):
TTGCTTTACCTTTTGCGGCGTTTATGAGAAAAACGCTGCTA
Found at i:54534505 original size:22 final size:22
Alignment explanation
Indices: 54534477--54534552 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
54534467 ACATGCATAT
54534477 ATGTGATAAGGTAGAATGGCCA
1 ATGTGATAAGGTAGAATGGCCA
* *
54534499 ATGTGATAAATGT-GAACAT-GCATA
1 ATGTGAT-AAGGTAG-A-ATGGC-CA
*
54534523 TATGTGATAAGGCAGAATGGCCA
1 -ATGTGATAAGGTAGAATGGCCA
54534546 ATGTGAT
1 ATGTGAT
54534553 GAACGCGGAA
Statistics
Matches: 42, Mismatches: 5, Indels: 14
0.69 0.08 0.23
Matches are distributed among these distances:
22 15 0.36
23 10 0.24
24 9 0.21
25 8 0.19
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.26
Consensus pattern (22 bp):
ATGTGATAAGGTAGAATGGCCA
Found at i:54534573 original size:141 final size:141
Alignment explanation
Indices: 54534281--54534589 Score: 413
Period size: 141 Copynumber: 2.2 Consensus size: 141
54534271 GGATGTGAAT
* * * * *
54534281 GTGTATATATGAGCTAAGGCCGAATGGCAAATGTGATGAATGTGAACATGCATTTGTGTGATAAG
1 GTGTATATATGTGATAAGGCCGAATGGCAAATGTGATAAATGTGAACATGCATATATGTGATAAG
* * * *
54534346 GCCGAATGGCCAATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCAACGTGA
66 GCAGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAACGTGA
* *
54534411 TGAATATGAAC
131 TGAAGAGGAAC
* * * *
54534422 ATGCACATATGTGATAAGGCCGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAG
1 GTGTATATATGTGATAAGGCCGAATGGCAAATGTGATAAATGTGAACATGCATATATGTGATAAG
* *
54534487 GTAGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAATGTGA
66 GCAGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAACGTGA
*
54534552 TGAACGCGGAA-
131 TGAA-GAGGAAC
** *
54534563 GTGTATATATGTGGGAAAGCCGAATGG
1 GTGTATATATGTGATAAGGCCGAATGG
54534590 TTAATGCGAA
Statistics
Matches: 143, Mismatches: 24, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
141 140 0.98
142 3 0.02
ACGTcount: A:0.34, C:0.12, G:0.29, T:0.25
Consensus pattern (141 bp):
GTGTATATATGTGATAAGGCCGAATGGCAAATGTGATAAATGTGAACATGCATATATGTGATAAG
GCAGAATGGCCAATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCAACGTGA
TGAAGAGGAAC
Found at i:54534575 original size:47 final size:47
Alignment explanation
Indices: 54534264--54534555 Score: 422
Period size: 47 Copynumber: 6.2 Consensus size: 47
54534254 TTAGGATTTT
* ** * * * *
54534264 ATGTGATGGATGTGAATGTGTATATATGAGCTAAGGCCGAATGGCAA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
54534311 ATGTGATGAATGTGAACATGCATTTGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
*
54534358 ATGTGATGAATGTGAACATGCATATGTGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* * *
54534405 ACGTGATGAATATGAACATGCACATATGTGATAAGGCCGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* **
54534452 ATGTGATAAATGTGAACATGCATATATGTGATAAGGTAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
* *
54534499 ATGTGATAAATGTGAACATGCATATATGTGATAAGGCAGAATGGCCA
1 ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
54534546 ATGTGATGAA
1 ATGTGATGAA
54534556 CGCGGAAGTG
Statistics
Matches: 223, Mismatches: 22, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 223 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
ATGTGATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCA
Found at i:54534622 original size:46 final size:46
Alignment explanation
Indices: 54534569--54534659 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
54534559 GGAAGTGTAT
* * *
54534569 ATATGTGGGAAAGCCGAATGGTTAATGCGAAATGTGTATGAGATGG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
* * *
54534615 ATATGTGGTAAAGCCAAATGGCTAATGTGAGATATGTATGAGATG
1 ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATG
54534660 TGTATATATA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 39 1.00
ACGTcount: A:0.34, C:0.07, G:0.32, T:0.27
Consensus pattern (46 bp):
ATATGTGGGAAAGCCAAATGGCTAATGCGAAATATGTATGAGATGG
Found at i:54542972 original size:9 final size:9
Alignment explanation
Indices: 54542958--54542984 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
54542948 AAATGGTACA
54542958 GATTAAATT
1 GATTAAATT
54542967 GATTAAATT
1 GATTAAATT
54542976 GATTAAATT
1 GATTAAATT
54542985 AAGTTTTGCT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (9 bp):
GATTAAATT
Found at i:54544033 original size:23 final size:23
Alignment explanation
Indices: 54544004--54544056 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
54543994 GTTCAATTAT
54544004 ATGTTCATGAACATATTTGTTTA
1 ATGTTCATGAACATATTTGTTTA
*
54544027 ATGTTCATGAACATGTTTGTTTA
1 ATGTTCATGAACATATTTGTTTA
54544050 ATGTTCA
1 ATGTTCA
54544057 CAAATATGTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.28, C:0.09, G:0.15, T:0.47
Consensus pattern (23 bp):
ATGTTCATGAACATATTTGTTTA
Found at i:54544065 original size:23 final size:23
Alignment explanation
Indices: 54544004--54544073 Score: 77
Period size: 23 Copynumber: 3.0 Consensus size: 23
54543994 GTTCAATTAT
** *
54544004 ATGTTCATGAACATATTTGTTTA
1 ATGTTCACAAACATGTTTGTTTA
**
54544027 ATGTTCATGAACATGTTTGTTTA
1 ATGTTCACAAACATGTTTGTTTA
* *
54544050 ATGTTCACAAATATGTTCGTTTA
1 ATGTTCACAAACATGTTTGTTTA
54544073 A
1 A
54544074 CTTAAACAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 42 1.00
ACGTcount: A:0.30, C:0.10, G:0.14, T:0.46
Consensus pattern (23 bp):
ATGTTCACAAACATGTTTGTTTA
Found at i:54553509 original size:23 final size:23
Alignment explanation
Indices: 54553483--54553528 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
54553473 TTTAGTACTA
54553483 TGGTGCTCCTGAAA-CTAGCACTT
1 TGGTGCTCCT-AAATCTAGCACTT
*
54553506 TGGTGCTCCTAAATTTAGCACTT
1 TGGTGCTCCTAAATCTAGCACTT
54553529 ACGTGCTCTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 3 0.14
23 18 0.86
ACGTcount: A:0.22, C:0.24, G:0.20, T:0.35
Consensus pattern (23 bp):
TGGTGCTCCTAAATCTAGCACTT
Found at i:54553534 original size:23 final size:23
Alignment explanation
Indices: 54553485--54553536 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 23
54553475 TAGTACTATG
**
54553485 GTGCTCCTGAAACTAGCACTTTG
1 GTGCTCCTGAAACTAGCACTTAC
*
54553508 GTGCTCCT-AAATTTAGCACTTAC
1 GTGCTCCTGAAA-CTAGCACTTAC
54553531 GTGCTC
1 GTGCTC
54553537 TTGTATTTGT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
22 3 0.12
23 22 0.88
ACGTcount: A:0.21, C:0.27, G:0.19, T:0.33
Consensus pattern (23 bp):
GTGCTCCTGAAACTAGCACTTAC
Found at i:54568395 original size:166 final size:166
Alignment explanation
Indices: 54568121--54568453 Score: 630
Period size: 166 Copynumber: 2.0 Consensus size: 166
54568111 TTTGTTGGCT
*
54568121 ATACTGACAGTGACTGGACTTGCTCGATGGATGACATGAAGAGCACCTCAAGGTATGTTTTCACC
1 ATACTGACAGTGACTGGACTGGCTCGATGGATGACATGAAGAGCACCTCAAGGTATGTTTTCACC
*
54568186 CTTGGCTCAGCCATTTTTTGTTAGAGCTCGAAGAAACAAAATGTAGTTGCTTAGTCAACTGCTGA
66 CTTGGCTCAGCCATTTTTTGTTAGAGCTCAAAGAAACAAAATGTAGTTGCTTAGTCAACTGCTGA
54568251 GGCAGAGTATGTAGCAGCAGCTGGAGCTGTTAACCA
131 GGCAGAGTATGTAGCAGCAGCTGGAGCTGTTAACCA
*
54568287 ATACTGACAGTGACTGGGCTGGCTCGATGGATGACATGAAGAGCACCTCAAGGTATGTTTTCACC
1 ATACTGACAGTGACTGGACTGGCTCGATGGATGACATGAAGAGCACCTCAAGGTATGTTTTCACC
54568352 CTTGGCTCAGCCATTTTTTGTTAGAGCTCAAAGAAACAAAATGTAGTTGCTTAGTCAACTGCTGA
66 CTTGGCTCAGCCATTTTTTGTTAGAGCTCAAAGAAACAAAATGTAGTTGCTTAGTCAACTGCTGA
*
54568417 GGCAGAGTATGTAGCAGTAGCTGGAGCTGTTAACCA
131 GGCAGAGTATGTAGCAGCAGCTGGAGCTGTTAACCA
54568453 A
1 A
54568454 GCTGTGTGGC
Statistics
Matches: 163, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
166 163 1.00
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.27
Consensus pattern (166 bp):
ATACTGACAGTGACTGGACTGGCTCGATGGATGACATGAAGAGCACCTCAAGGTATGTTTTCACC
CTTGGCTCAGCCATTTTTTGTTAGAGCTCAAAGAAACAAAATGTAGTTGCTTAGTCAACTGCTGA
GGCAGAGTATGTAGCAGCAGCTGGAGCTGTTAACCA
Found at i:54582035 original size:27 final size:26
Alignment explanation
Indices: 54581998--54582112 Score: 149
Period size: 27 Copynumber: 4.3 Consensus size: 26
54581988 AGCATGGCTG
* *
54581998 CCAGAACAGATAATGTGACAGAGTCA
1 CCAGAACAGATAATGTGGCAGAGCCA
54582024 CCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGA-ACAGATAAT-GTGGCAGAGCCA
54582052 CCAGAACAGATATATGTGGCAGAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
* * *
54582079 CCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATA-ATGTGGCAGAGCCA
54582106 CCAGAAC
1 CCAGAAC
54582113 GCTTCCTCCA
Statistics
Matches: 80, Mismatches: 6, Indels: 5
0.88 0.07 0.05
Matches are distributed among these distances:
26 5 0.06
27 58 0.73
28 17 0.21
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (26 bp):
CCAGAACAGATAATGTGGCAGAGCCA
Found at i:54582057 original size:54 final size:54
Alignment explanation
Indices: 54581998--54582112 Score: 169
Period size: 54 Copynumber: 2.1 Consensus size: 54
54581988 AGCATGGCTG
*
54581998 CCAGAACAGATA-ATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGAT-CAGATAATCGTGGCAGAGCCA
* * * *
54582052 CCAGAACAGATATATGTGGCAGAGCCACCAGATCAGATATTTGTGGCATAGCCA
1 CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
54582106 CCAGAAC
1 CCAGAAC
54582113 GCTTCCTCCA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
54 37 0.67
55 18 0.33
ACGTcount: A:0.37, C:0.23, G:0.23, T:0.17
Consensus pattern (54 bp):
CCAGAACAGATATATGTGACAGAGCCACCAGATCAGATAATCGTGGCAGAGCCA
Found at i:54583737 original size:26 final size:26
Alignment explanation
Indices: 54583699--54583782 Score: 141
Period size: 26 Copynumber: 3.2 Consensus size: 26
54583689 CATGAAATTC
*
54583699 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
54583725 TTATCATGGAACATTTACCTAACCCA
1 TTATCATGGAACATTTACCTAACCCA
* *
54583751 TTATCATTGAACATTTACCTAACCTA
1 TTATCATGGAACATTTACCTAACCCA
54583777 TTATCA
1 TTATCA
54583783 ATTTGTACCA
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 55 1.00
ACGTcount: A:0.36, C:0.25, G:0.05, T:0.35
Consensus pattern (26 bp):
TTATCATGGAACATTTACCTAACCCA
Found at i:54592423 original size:16 final size:17
Alignment explanation
Indices: 54592404--54592460 Score: 66
Period size: 16 Copynumber: 3.5 Consensus size: 17
54592394 TAATAAGATT
54592404 TAATATTAAT-TTAATA
1 TAATATTAATATTAATA
* *
54592420 TAATATTTATCTTAATA
1 TAATATTAATATTAATA
*
54592437 -AATATT-ATATTAATT
1 TAATATTAATATTAATA
54592452 TAATATTAA
1 TAATATTAA
54592461 AGTTATTAAG
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
15 7 0.20
16 21 0.60
17 7 0.20
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (17 bp):
TAATATTAATATTAATA
Found at i:54592446 original size:21 final size:20
Alignment explanation
Indices: 54592386--54592456 Score: 60
Period size: 21 Copynumber: 3.6 Consensus size: 20
54592376 ATAAACATTC
* *
54592386 TATTATTTTAATAAGATTTAA
1 TATTAATTTAATAA-ATATAA
54592407 TATTAA-TT--T-AATATAA
1 TATTAATTTAATAAATATAA
* *
54592423 TATTTATCTTAATAAATATTA
1 TATTAAT-TTAATAAATATAA
54592444 TATTAATTTAATA
1 TATTAATTTAATA
54592457 TTAAAGTTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 11
0.71 0.09 0.20
Matches are distributed among these distances:
16 10 0.25
17 1 0.03
18 3 0.08
20 9 0.22
21 17 0.43
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.52
Consensus pattern (20 bp):
TATTAATTTAATAAATATAA
Found at i:54592454 original size:5 final size:6
Alignment explanation
Indices: 54592403--54592460 Score: 56
Period size: 5 Copynumber: 10.7 Consensus size: 6
54592393 TTAATAAGAT
* *
54592403 TTAATA TTAAT- TTAATA -TAATA TTTATC TTAATA --AATA TT-ATA
1 TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA TTAATA
54592446 TTAAT- TTAATA TTAA
1 TTAATA TTAATA TTAA
54592461 AGTTATTAAG
Statistics
Matches: 42, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
4 4 0.10
5 20 0.48
6 18 0.43
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (6 bp):
TTAATA
Found at i:54608334 original size:46 final size:47
Alignment explanation
Indices: 54608164--54608335 Score: 176
Period size: 46 Copynumber: 3.7 Consensus size: 47
54608154 TGTAACCCGC
* * * * *
54608164 CCATAAGTGAACTCAGACTCAAATCAATGAGCTC-GAGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
*
54608210 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA-G-C-A-TTCGCAT
* * * *
54608260 --TTCA-CGAACTCGGACTCAACTCATCGAGTTCGGA-CATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
54608303 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTT
54608336 TGGATGCTTA
Statistics
Matches: 102, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 54 0.53
47 30 0.29
48 3 0.03
49 1 0.01
50 3 0.03
51 2 0.02
ACGTcount: A:0.30, C:0.27, G:0.19, T:0.23
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGAGCATTCGCAT
Found at i:54608358 original size:46 final size:46
Alignment explanation
Indices: 54608167--54608358 Score: 134
Period size: 46 Copynumber: 4.2 Consensus size: 46
54608157 AACCCGCCCA
* * * *
54608167 TAAGTGAACTCAGACTCAAATCAATGAGCTC-GA-GCGTT-CGCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-TTAC-CATCC
*
54608212 ATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTA-CAT-T
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATG-C---TTACCATCC
* * *
54608261 TCA-CGAACTCGGACTCAACTCATCGAGTTCGGA--CATT-CGCATCC
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-TTAC-CATCC
*
54608305 ATAAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTTAACCATCC
1 -TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTT-ACCATCC
54608353 T-AGTGA
1 TAAGTGA
54608359 CATGTCACTT
Statistics
Matches: 117, Mismatches: 14, Indels: 30
0.73 0.09 0.19
Matches are distributed among these distances:
42 2 0.02
43 3 0.03
44 1 0.01
45 2 0.02
46 59 0.50
47 33 0.28
48 9 0.08
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.26, G:0.20, T:0.24
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTTACCATCC
Found at i:54615920 original size:28 final size:28
Alignment explanation
Indices: 54615885--54615949 Score: 103
Period size: 28 Copynumber: 2.3 Consensus size: 28
54615875 ATTTACTAGA
*
54615885 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
54615913 ATGCCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
54615941 ATACCCCTA
1 ATACCCCTA
54615950 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.32, C:0.28, G:0.09, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:54616156 original size:29 final size:28
Alignment explanation
Indices: 54616055--54616156 Score: 134
Period size: 28 Copynumber: 3.6 Consensus size: 28
54616045 AGGAAGCGTG
*
54616055 CTGGTGGCTATGCCACAAATTATCTGTT
1 CTGGTGGCTCTGCCACAAATTATCTGTT
*
54616083 CTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCTCTGCCACAAATTATCTGTT
*
54616111 CTGGTGGCAT-TGCCACAAAATATCTGTAT
1 CTGGTGGC-TCTGCCACAAATTATCTGT-T
* *
54616140 CTGGTGACTCTGTCACA
1 CTGGTGGCTCTGCCACA
54616157 TTTTCTGTAT
Statistics
Matches: 65, Mismatches: 6, Indels: 5
0.86 0.08 0.07
Matches are distributed among these distances:
28 51 0.78
29 14 0.22
ACGTcount: A:0.22, C:0.25, G:0.22, T:0.32
Consensus pattern (28 bp):
CTGGTGGCTCTGCCACAAATTATCTGTT
Found at i:54616170 original size:56 final size:55
Alignment explanation
Indices: 54616055--54616170 Score: 137
Period size: 56 Copynumber: 2.1 Consensus size: 55
54616045 AGGAAGCGTG
* *
54616055 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAAATTATCTGTT
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCAC-AATTATCTGTT
* * *
54616111 CTGGTGGC-ATTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGT-T
54616167 CTGG
1 CTGG
54616171 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 6
0.83 0.08 0.10
Matches are distributed among these distances:
55 9 0.17
56 29 0.56
57 14 0.27
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (55 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTT
Found at i:54626257 original size:49 final size:50
Alignment explanation
Indices: 54626141--54626370 Score: 176
Period size: 48 Copynumber: 4.7 Consensus size: 50
54626131 AGGGTATAGT
* * * * * *
54626141 GCCGATGCCATGTCCCAGGCATGGCCTTATACTGGCTCATC-CAT--CAAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAGATAACCAG
*
54626189 TCC-ATGCCATGTCCCAGACATGGTCTTACACTGACTATC-GA-AACCGAG
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAGATAACC-AG
* * * * *
54626237 GTCGATGCCATGTCCTAGACATGGTCTTACACT-AGCTCTCAGATATCCAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGA-CTATCAGATAACCAG
* * * *
54626287 GCCGATGCCCTGTCCCAGACGTGGTCTTACACTGAC-ACCTC-TAT-A-CAT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTA--TCAGATAACCAG
* *
54626335 GCTGATGTCATGTCCCAGACATGGTCTTACACTGAC
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTGAC
54626371 ACATCTCGTA
Statistics
Matches: 148, Mismatches: 24, Indels: 20
0.77 0.12 0.10
Matches are distributed among these distances:
46 4 0.03
47 30 0.20
48 41 0.28
49 32 0.22
50 35 0.24
51 6 0.04
ACGTcount: A:0.23, C:0.31, G:0.20, T:0.26
Consensus pattern (50 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAGATAACCAG
Found at i:54626437 original size:46 final size:44
Alignment explanation
Indices: 54626287--54626551 Score: 160
Period size: 46 Copynumber: 5.7 Consensus size: 44
54626277 AGATATCCAT
* * * *
54626287 GCCGATGCCCTGTCCCAGACGTGGTCTTACACTGACACCTCT-ATACA
1 GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCGT--A
*
54626334 TGCTGATGTCATGTCCCAGACATGGTCTTACACTGACACATCTCGTA
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACTGACACATCTCGTA
* * *
54626381 GCCAATGCATGTCCCAGACATGTTTTACACTGGCTTACATCTCG-A
1 GCCGATGCATGTCCCAGACATGTCTTACACTGAC--ACATCTCGTA
* * * * * *
54626426 GACCGATGCATGTCCTAGACATGTCTCACACTAGCTCTCGTCTC-AA
1 G-CCGATGCATGTCCCAGACATGTCTTACACT-G-ACACATCTCGTA
** * * * *
54626472 TGGTGATGCCATGTCCCAGACATGGTCTTACATTGGATCTCATAAT-GTG
1 -GCCGATG-CATGTCCCAGACAT-GTCTTACACT-GA-CACAT-CTCGTA
54626521 GCCGATGCATGTCCCAGACATGTCTTACACT
1 GCCGATGCATGTCCCAGACATGTCTTACACT
54626552 AGCACAAAAA
Statistics
Matches: 173, Mismatches: 31, Indels: 28
0.75 0.13 0.12
Matches are distributed among these distances:
44 11 0.06
45 16 0.09
46 58 0.34
47 30 0.17
48 56 0.32
49 2 0.01
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.28
Consensus pattern (44 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTGACACATCTCGTA
Found at i:54627831 original size:43 final size:42
Alignment explanation
Indices: 54627754--54627843 Score: 119
Period size: 43 Copynumber: 2.1 Consensus size: 42
54627744 GGCTGTTACA
* * *
54627754 GGCATCGTATTTGATTTCATGTAAGAGCCTGTCTGGGATAGT
1 GGCATCGTATTTGATTACATGTAAGAGCCCGTCTGGGACAGT
*
54627796 GGCATCGATATTTGATTACATGTAAGA-CCACGTCTGGGACATT
1 GGCATCG-TATTTGATTACATGTAAGAGCC-CGTCTGGGACAGT
54627839 GGCAT
1 GGCAT
54627844 TGTACGAGCT
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 9 0.21
43 33 0.79
ACGTcount: A:0.24, C:0.17, G:0.27, T:0.32
Consensus pattern (42 bp):
GGCATCGTATTTGATTACATGTAAGAGCCCGTCTGGGACAGT
Found at i:54636841 original size:9 final size:9
Alignment explanation
Indices: 54636827--54636852 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
54636817 ATGTATATAT
54636827 TTGAAATAC
1 TTGAAATAC
54636836 TTGAAATAC
1 TTGAAATAC
54636845 TTGAAATA
1 TTGAAATA
54636853 TGAATGTCTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.35
Consensus pattern (9 bp):
TTGAAATAC
Found at i:54637008 original size:23 final size:23
Alignment explanation
Indices: 54636982--54637128 Score: 102
Period size: 23 Copynumber: 6.3 Consensus size: 23
54636972 TCACCACAAC
**
54636982 TCAGCTCATTGGAGCTTACCAAT
1 TCAGCTCATTGGAGCTTACCGTT
* ** *
54637005 TCAGCTCGTAAGAGCTTACTGTT
1 TCAGCTCATTGGAGCTTACCGTT
54637028 TCAGCTCATTGGAGCTTACCGTT
1 TCAGCTCATTGGAGCTTACCGTT
* **
54637051 TCAGCTTGA-AAGAGCTTA-C-TAT
1 TCAGC-TCATTGGAGCTTACCGT-T
* *
54637073 TCAGCTCATTAGAGTTTACCGTT
1 TCAGCTCATTGGAGCTTACCGTT
* * * *
54637096 TTAGCTCATTAGAGCCTACTGTCT
1 TCAGCTCATTGGAGCTTACCGT-T
54637120 ATCAGCTCA
1 -TCAGCTCA
54637129 AGAGAAGCTT
Statistics
Matches: 96, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
21 3 0.03
22 14 0.15
23 68 0.71
24 4 0.04
25 7 0.07
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (23 bp):
TCAGCTCATTGGAGCTTACCGTT
Found at i:54637035 original size:46 final size:46
Alignment explanation
Indices: 54636982--54637128 Score: 170
Period size: 46 Copynumber: 3.2 Consensus size: 46
54636972 TCACCACAAC
**
54636982 TCAGCTCATTGGAGCTTACCAATTCAGCTCGTAAGAGCTTACTGTT
1 TCAGCTCATTGGAGCTTACCGTTTCAGCTCGTAAGAGCTTACTGTT
* * *
54637028 TCAGCTCATTGGAGCTTACCGTTTCAGCTTGAAAGAGCTTACT-AT
1 TCAGCTCATTGGAGCTTACCGTTTCAGCTCGTAAGAGCTTACTGTT
* * * * * *
54637073 TCAGCTCATTAGAGTTTACCGTTTTAGCTCATTAGAGCCTACTGTCT
1 TCAGCTCATTGGAGCTTACCGTTTCAGCTCGTAAGAGCTTACTGT-T
54637120 ATCAGCTCA
1 -TCAGCTCA
54637129 AGAGAAGCTT
Statistics
Matches: 84, Mismatches: 14, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
45 36 0.43
46 39 0.46
47 1 0.01
48 8 0.10
ACGTcount: A:0.24, C:0.24, G:0.18, T:0.34
Consensus pattern (46 bp):
TCAGCTCATTGGAGCTTACCGTTTCAGCTCGTAAGAGCTTACTGTT
Found at i:54646077 original size:68 final size:64
Alignment explanation
Indices: 54645989--54646146 Score: 201
Period size: 64 Copynumber: 2.4 Consensus size: 64
54645979 TATGGTGCTG
* * *
54645989 AGTGCACATCATGTGTACAAGAGAGTTACGAGACATTATGATGTAGCTAGGTCACATGGGTGATA
1 AGTGTACACCATGTGTACAAGAGAGCTACG-G-CA-TAT-ATGTAGCTAGGTCACATGGGTGATA
54646054 CTA
62 CTA
* * *
54646057 TGTGTACACCATGTAG-ACAAGAGAGCTACGGGATATATGTAGCTAGGTCACATGGGTGGTACTA
1 AGTGTACACCATGT-GTACAAGAGAGCTACGGCATATATGTAGCTAGGTCACATGGGTGATACTA
*
54646121 AGTGTTCACCATGTGTACAAGAGAGC
1 AGTGTACACCATGTGTACAAGAGAGC
54646147 CGAACTATAT
Statistics
Matches: 80, Mismatches: 8, Indels: 8
0.83 0.08 0.08
Matches are distributed among these distances:
63 1 0.01
64 49 0.61
65 3 0.04
66 1 0.01
67 1 0.01
68 24 0.30
69 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.28, T:0.25
Consensus pattern (64 bp):
AGTGTACACCATGTGTACAAGAGAGCTACGGCATATATGTAGCTAGGTCACATGGGTGATACTA
Found at i:54646786 original size:29 final size:29
Alignment explanation
Indices: 54646744--54646800 Score: 114
Period size: 29 Copynumber: 2.0 Consensus size: 29
54646734 TTTATATGCT
54646744 TAGAAACCTTAATGAGTATATTTTTGATA
1 TAGAAACCTTAATGAGTATATTTTTGATA
54646773 TAGAAACCTTAATGAGTATATTTTTGAT
1 TAGAAACCTTAATGAGTATATTTTTGAT
54646801 TGGAATAATC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (29 bp):
TAGAAACCTTAATGAGTATATTTTTGATA
Found at i:54653306 original size:14 final size:13
Alignment explanation
Indices: 54653285--54653317 Score: 57
Period size: 14 Copynumber: 2.5 Consensus size: 13
54653275 AAATATTTAA
54653285 ATTGTTCTTAATT
1 ATTGTTCTTAATT
54653298 ATGTGTTCTTAATT
1 AT-TGTTCTTAATT
54653312 ATTGTT
1 ATTGTT
54653318 TTGCTATCCC
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 6 0.32
14 13 0.68
ACGTcount: A:0.21, C:0.06, G:0.12, T:0.61
Consensus pattern (13 bp):
ATTGTTCTTAATT
Found at i:54665086 original size:21 final size:21
Alignment explanation
Indices: 54665062--54665103 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
54665052 TCATCAAATC
*
54665062 TACACCTTGAGGCATCGGGGG
1 TACACCTTGAGGAATCGGGGG
**
54665083 TACAGGTTGAGGAATCGGGGG
1 TACACCTTGAGGAATCGGGGG
54665104 AGGTGGGGGA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.21, C:0.17, G:0.43, T:0.19
Consensus pattern (21 bp):
TACACCTTGAGGAATCGGGGG
Found at i:54667662 original size:15 final size:15
Alignment explanation
Indices: 54667633--54667670 Score: 58
Period size: 15 Copynumber: 2.5 Consensus size: 15
54667623 ACAGAGAAGC
*
54667633 CCAAAATAAAGAAAT
1 CCAAGATAAAGAAAT
54667648 CCAAGATAAAGAAAT
1 CCAAGATAAAGAAAT
*
54667663 CCATGATA
1 CCAAGATA
54667671 CGAGAATCCA
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:0.16, G:0.11, T:0.16
Consensus pattern (15 bp):
CCAAGATAAAGAAAT
Found at i:54670829 original size:49 final size:49
Alignment explanation
Indices: 54670773--54670947 Score: 210
Period size: 49 Copynumber: 3.5 Consensus size: 49
54670763 CTAGTACGCA
*
54670773 TAGTAGCCTGCACTTACTACTACACATGCAACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
* * * * *
54670822 TAGTAGCCTGCACTTAGTACTACACGCGTG-ATA-GAAGTTATCGGGTACGCA
1 TAGTAGCCTGCACTTAGTACTACA--CATGCA-ACCAA-TTATCCGGTACACG
* *
54670873 TAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
**
54670922 TAGTAGTTTGCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
54670948 CGTGGCCTCA
Statistics
Matches: 106, Mismatches: 14, Indels: 12
0.80 0.11 0.09
Matches are distributed among these distances:
49 63 0.59
50 5 0.05
51 38 0.36
ACGTcount: A:0.29, C:0.25, G:0.19, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGCAACCAATTATCCGGTACACG
Found at i:54670900 original size:100 final size:100
Alignment explanation
Indices: 54670766--54670951 Score: 318
Period size: 100 Copynumber: 1.9 Consensus size: 100
54670756 AGGCTATCTA
54670766 GTACGCATAGTAGCCTGCACTTACTACTACACATGCAACCAATTATCCGGTACACGTAGTAGCCT
1 GTACGCATAGTAGCCTGCACTTACTACTACACATGCAACCAATTATCCGGTACACGTAGTAGCCT
*
54670831 GCACTTAGTACTACACGCGTGATAGAAGTTATCGG
66 GCACTTAGTACTACACACGTGATAGAAGTTATCGG
* * * **
54670866 GTACGCATAGTAGCTTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGTAGTAGTTT
1 GTACGCATAGTAGCCTGCACTTACTACTACACATGCAACCAATTATCCGGTACACGTAGTAGCCT
54670931 GCACTTAGTACTACACACGTG
66 GCACTTAGTACTACACACGTG
54670952 GCCTCACAAT
Statistics
Matches: 80, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
100 80 1.00
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.26
Consensus pattern (100 bp):
GTACGCATAGTAGCCTGCACTTACTACTACACATGCAACCAATTATCCGGTACACGTAGTAGCCT
GCACTTAGTACTACACACGTGATAGAAGTTATCGG
Found at i:54678118 original size:41 final size:40
Alignment explanation
Indices: 54678071--54678318 Score: 219
Period size: 41 Copynumber: 6.1 Consensus size: 40
54678061 CGGAGTGTAA
* *
54678071 AGGGCACGTATTTGTAATTCAAGGGTACCAAAGTACAAAC
1 AGGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
* ***
54678111 AGCGGCACGTATATGAAATTCAAGGGTATTGAAGTACAAAC
1 AG-GGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
* *
54678152 AGGGACACGCATGTGAAATTCAAGGGTACCAAAGTACAAAT
1 AGGG-CACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
* * *
54678193 AGGGGCACGTATGTGCAATTCAAAGGTACCGAAGTACAAAC
1 A-GGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
** * * * * * * *
54678234 ACATGTACATATGTGCAATTTAGGGGTACCGAAGTACAAAT
1 A-GGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
* * **
54678275 AGAGGCATGTATGT-ACAATTCAGGGGTACTGAAGTACAAAC
1 AG-GGCACGTATGTGA-AATTCAAGGGTACCAAAGTACAAAC
54678316 AGG
1 AGG
54678319 TAATCACATA
Statistics
Matches: 169, Mismatches: 34, Indels: 10
0.79 0.16 0.05
Matches are distributed among these distances:
40 5 0.03
41 161 0.95
42 3 0.02
ACGTcount: A:0.38, C:0.16, G:0.25, T:0.21
Consensus pattern (40 bp):
AGGGCACGTATGTGAAATTCAAGGGTACCAAAGTACAAAC
Found at i:54678227 original size:82 final size:80
Alignment explanation
Indices: 54678086--54678318 Score: 268
Period size: 82 Copynumber: 2.9 Consensus size: 80
54678076 ACGTATTTGT
* * * * *
54678086 AATTCAAGGGTACCAAAGTACAAACAGCGGCACGTATATGAAATTCAAGGGTATTGAAGTACAAA
1 AATTCAAGGGTACCAAAGTACAAATAGAGGCACGTATGTGCAATTCAAGGGTACTGAAGTACAAA
54678151 CAGGGACACGCATGTGA
66 CAGGGACA--CATGTGA
* * *
54678168 AATTCAAGGGTACCAAAGTACAAATAGGGGCACGTATGTGCAATTCAAAGGTACCGAAGTACAAA
1 AATTCAAGGGTACCAAAGTACAAATAGAGGCACGTATGTGCAATTCAAGGGTACTGAAGTAC-AA
* * * *
54678233 CACATGTACATATGTGC
65 -ACAGGGACACATGTGA
* * * * * *
54678250 AATTTAGGGGTACCGAAGTACAAATAGAGGCATGTATGTACAATTCAGGGGTACTGAAGTACAAA
1 AATTCAAGGGTACCAAAGTACAAATAGAGGCACGTATGTGCAATTCAAGGGTACTGAAGTACAAA
54678315 CAGG
66 CAGG
54678319 TAATCACATA
Statistics
Matches: 128, Mismatches: 21, Indels: 6
0.83 0.14 0.04
Matches are distributed among these distances:
80 4 0.03
81 2 0.02
82 113 0.88
83 2 0.02
84 7 0.05
ACGTcount: A:0.39, C:0.16, G:0.24, T:0.20
Consensus pattern (80 bp):
AATTCAAGGGTACCAAAGTACAAATAGAGGCACGTATGTGCAATTCAAGGGTACTGAAGTACAAA
CAGGGACACATGTGA
Found at i:54680145 original size:19 final size:19
Alignment explanation
Indices: 54680121--54680158 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
54680111 AAATGGGATA
54680121 GAGTGAAGATGGATTTTGT
1 GAGTGAAGATGGATTTTGT
*
54680140 GAGTGACGATGGATTTTGT
1 GAGTGAAGATGGATTTTGT
54680159 TTCGAGTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.24, C:0.03, G:0.37, T:0.37
Consensus pattern (19 bp):
GAGTGAAGATGGATTTTGT
Found at i:54682533 original size:44 final size:42
Alignment explanation
Indices: 54682460--54682599 Score: 131
Period size: 44 Copynumber: 3.3 Consensus size: 42
54682450 ATGTGTTTTT
* ** **
54682460 GTGTAAGACCATGCCTAGGATGTTGGCATCG-ACTTATGATTTAC
1 GTGTAAGACCATGCCTGGGACATCAGCATCGTA-TT-TGATTT-C
54682504 GTGTAAGACCATGCCTGGGACATCAGCATCGTATTTGATTTC
1 GTGTAAGACCATGCCTGGGACATCAGCATCGTATTTGATTTC
* * * *
54682546 GTGTAAGACCCTGTCTGGGACAGT-GGCATCGATATTTGATTAC
1 GTGTAAGACCATGCCTGGGACA-TCAGCATCG-TATTTGATTTC
*
54682589 ATGTAAGACCA
1 GTGTAAGACCA
54682600 CGTCTAGGAT
Statistics
Matches: 82, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
42 27 0.33
43 26 0.32
44 28 0.34
45 1 0.01
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATGCCTGGGACATCAGCATCGTATTTGATTTC
Found at i:54682582 original size:43 final size:42
Alignment explanation
Indices: 54682460--54682599 Score: 140
Period size: 42 Copynumber: 3.3 Consensus size: 42
54682450 ATGTGTTTTT
* ** *
54682460 GTGTAAGACCATGCCTAGGATGTTGGCATCGACT-TATGATTTAC
1 GTGTAAGACCATGCCTGGGA-CATGGCATCGA-TATTTGATTT-C
*
54682504 GTGTAAGACCATGCCTGGGACATCAGCATCG-TATTTGATTTC
1 GTGTAAGACCATGCCTGGGACAT-GGCATCGATATTTGATTTC
* * *
54682546 GTGTAAGACCCTGTCTGGGACAGTGGCATCGATATTTGATTAC
1 GTGTAAGACCATGCCTGGGACA-TGGCATCGATATTTGATTTC
*
54682589 ATGTAAGACCA
1 GTGTAAGACCA
54682600 CGTCTAGGAT
Statistics
Matches: 81, Mismatches: 11, Indels: 9
0.80 0.11 0.09
Matches are distributed among these distances:
42 28 0.35
43 28 0.35
44 25 0.31
ACGTcount: A:0.26, C:0.19, G:0.25, T:0.30
Consensus pattern (42 bp):
GTGTAAGACCATGCCTGGGACATGGCATCGATATTTGATTTC
Found at i:54682616 original size:43 final size:43
Alignment explanation
Indices: 54682460--54682617 Score: 126
Period size: 43 Copynumber: 3.7 Consensus size: 43
54682450 ATGTGTTTTT
* *
54682460 GTGTAAGACCATGCCTAGGATGTTGGCATCGACT-TATGATTTAC
1 GTGTAAGACCACGCCTAGGATGTTGGCATCGA-TATTTGA-TTAC
* * ** ** *
54682504 GTGTAAGACCATGCCTGGGACATCAGCATCG-TATTTGATTTC
1 GTGTAAGACCACGCCTAGGATGTTGGCATCGATATTTGATTAC
* * *
54682546 GTGTAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTAC
1 GTGTAAGACCAC-GCCTAGGA-TGTTGGCATCGATATTTGATTAC
* *
54682589 ATGTAAGACCACGTCTAGGATGTTGGCAT
1 GTGTAAGACCACGCCTAGGATGTTGGCAT
54682618 TGTACCGACT
Statistics
Matches: 91, Mismatches: 17, Indels: 13
0.75 0.14 0.11
Matches are distributed among these distances:
42 28 0.31
43 36 0.40
44 27 0.30
ACGTcount: A:0.25, C:0.19, G:0.26, T:0.30
Consensus pattern (43 bp):
GTGTAAGACCACGCCTAGGATGTTGGCATCGATATTTGATTAC
Found at i:54687740 original size:39 final size:40
Alignment explanation
Indices: 54687639--54687783 Score: 165
Period size: 40 Copynumber: 3.6 Consensus size: 40
54687629 TTGAATGATG
* *
54687639 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTA-AGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
54687678 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
* *
54687719 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
54687758 TCCGGGTTAAGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
54687784 AACGAGTAGC
Statistics
Matches: 92, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
39 35 0.38
40 44 0.48
41 12 0.13
42 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:54687790 original size:40 final size:38
Alignment explanation
Indices: 54687639--54687806 Score: 142
Period size: 40 Copynumber: 4.3 Consensus size: 38
54687629 TTGAATGATG
* * * *
54687639 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGTTAAG-CCCGAAGGCATTTGTGC-GAGT-ACTAAA
** * *
54687679 TCCGGACTAAGATCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAG-TACTAAA
*
54687719 TCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGTTAAGCCCGAAGGCATTTGTGCGAG-TACTAAA
** *
54687758 TCCGGGTTAAGTCCCGAAGGCATTTGAACGAGTAGCTATA
1 TCCGGGTTAAG-CCCGAAGGCATTTGTGCGAGTA-CTAAA
54687798 TCC-GGTTAA
1 TCCGGGTTAA
54687807 ATTTCGAAGG
Statistics
Matches: 109, Mismatches: 15, Indels: 9
0.82 0.11 0.07
Matches are distributed among these distances:
39 43 0.39
40 58 0.53
41 8 0.07
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (38 bp):
TCCGGGTTAAGCCCGAAGGCATTTGTGCGAGTACTAAA
Found at i:54687802 original size:79 final size:80
Alignment explanation
Indices: 54687639--54687789 Score: 191
Period size: 79 Copynumber: 1.9 Consensus size: 80
54687629 TTGAATGATG
*
54687639 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
**
54687704 GTGCGAGATACTAAT
66 GAACGAGATACTAAT
* * * **
54687719 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
54687781 TTGAACGAG
64 TTGAACGAG
54687790 TAGCTATATC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
78 1 0.02
79 42 0.69
80 18 0.30
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GAACGAGATACTAAT
Found at i:54687816 original size:39 final size:40
Alignment explanation
Indices: 54687692--54687808 Score: 114
Period size: 39 Copynumber: 3.0 Consensus size: 40
54687682 GGACTAAGAT
** * * * *
54687692 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCT-AAGC
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATC
** *
54687731 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATC
*
54687771 CCGAAGGCATTTGAACGAG-TAGCTATATCC-GGTTAAAT
1 CCGAAGGCATTTGAACGAGTTA-CTAAATCCGGGTTAAAT
54687809 TTCGAAGGTA
Statistics
Matches: 67, Mismatches: 9, Indels: 4
0.84 0.11 0.05
Matches are distributed among these distances:
39 41 0.61
40 26 0.39
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (40 bp):
CCGAAGGCATTTGAACGAGTTACTAAATCCGGGTTAAATC
Found at i:54770231 original size:25 final size:25
Alignment explanation
Indices: 54770202--54770249 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
54770192 TTATAACATG
* * *
54770202 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
54770227 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
54770250 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Done.