Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A07
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: 92880876
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2857347 characters in sequence are not A, C, G, or T
File 125 of 290
Found at i:39350706 original size:20 final size:19
Alignment explanation
Indices: 39350681--39350724 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
39350671 TGGAGAATGA
39350681 TTTCTGAAAAATGATTTACT
1 TTTCTG-AAAATGATTTACT
*
39350701 TTTCTGGAAATGATTTACT
1 TTTCTGAAAATGATTTACT
39350720 TTTCT
1 TTTCT
39350725 AGTGTTTGGA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 17 0.74
20 6 0.26
ACGTcount: A:0.27, C:0.11, G:0.11, T:0.50
Consensus pattern (19 bp):
TTTCTGAAAATGATTTACT
Found at i:39350870 original size:36 final size:36
Alignment explanation
Indices: 39350798--39350871 Score: 89
Period size: 36 Copynumber: 2.1 Consensus size: 36
39350788 TTGGAAAAGC
**
39350798 TATTTTTACATATATTAATAAATTTATATTTTAAAT
1 TATTTTTACATATATTAATAAATTTATATTAAAAAT
*
39350834 TATTTTTACATATATTACA-ATGATTTAT-TTAAAAAT
1 TATTTTTACATATATTA-ATA-AATTTATATTAAAAAT
39350870 TA
1 TA
39350872 ATTAATTAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
36 26 0.79
37 7 0.21
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.53
Consensus pattern (36 bp):
TATTTTTACATATATTAATAAATTTATATTAAAAAT
Found at i:39351887 original size:24 final size:24
Alignment explanation
Indices: 39351857--39351907 Score: 93
Period size: 24 Copynumber: 2.1 Consensus size: 24
39351847 AATATTGTGA
*
39351857 TTTAACTCTTAATTTTTATAAAAT
1 TTTAACTCTTAATATTTATAAAAT
39351881 TTTAACTCTTAATATTTATAAAAT
1 TTTAACTCTTAATATTTATAAAAT
39351905 TTT
1 TTT
39351908 CTTTCCCTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.00, T:0.55
Consensus pattern (24 bp):
TTTAACTCTTAATATTTATAAAAT
Found at i:39353230 original size:14 final size:14
Alignment explanation
Indices: 39353211--39353237 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
39353201 AGAAAAGCCT
39353211 GAAAAGCTTTTACG
1 GAAAAGCTTTTACG
39353225 GAAAAGCTTTTAC
1 GAAAAGCTTTTAC
39353238 AGGTTACCAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.37, C:0.15, G:0.19, T:0.30
Consensus pattern (14 bp):
GAAAAGCTTTTACG
Found at i:39355494 original size:20 final size:19
Alignment explanation
Indices: 39355453--39355495 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
39355443 TAAAAAATAA
** *
39355453 TTAAAAATCATAAATTTTT
1 TTAAAAATCATAAAAATCT
39355472 TTAAAAATTCATAAAAATCT
1 TTAAAAA-TCATAAAAATCT
39355492 TTAA
1 TTAA
39355496 GGGTAAAGTA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 7 0.35
20 13 0.65
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (19 bp):
TTAAAAATCATAAAAATCT
Found at i:39358646 original size:34 final size:34
Alignment explanation
Indices: 39358603--39358670 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
39358593 TCAATTGAAA
* * *
39358603 AAGTTGGAAATATCAAATGTCATGGCCTTGACTT
1 AAGTTGGAAATATCAAATGCCATGACATTGACTT
39358637 AAGTTGGAAATATCAAATGCCATGACATTGACTT
1 AAGTTGGAAATATCAAATGCCATGACATTGACTT
39358671 GCAATCTCTC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.35, C:0.15, G:0.19, T:0.31
Consensus pattern (34 bp):
AAGTTGGAAATATCAAATGCCATGACATTGACTT
Found at i:39358994 original size:22 final size:23
Alignment explanation
Indices: 39358969--39359011 Score: 70
Period size: 22 Copynumber: 1.9 Consensus size: 23
39358959 GGTCGATGAG
39358969 AAAAAATAAATAT-AAATTATAA
1 AAAAAATAAATATAAAATTATAA
*
39358991 AAAAAGTAAATATAAAATTAT
1 AAAAAATAAATATAAAATTAT
39359012 TTTAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
22 12 0.63
23 7 0.37
ACGTcount: A:0.70, C:0.00, G:0.02, T:0.28
Consensus pattern (23 bp):
AAAAAATAAATATAAAATTATAA
Found at i:39362376 original size:14 final size:14
Alignment explanation
Indices: 39362313--39362386 Score: 59
Period size: 13 Copynumber: 5.6 Consensus size: 14
39362303 ATCTTATCAG
39362313 ATTTATAATTT-TA
1 ATTTATAATTTATA
* *
39362326 CTTTATAAGTTAT-
1 ATTTATAATTTATA
* * *
39362339 TTTTTTAATTAAT-
1 ATTTATAATTTATA
*
39362352 A-TTGTAA-TTATA
1 ATTTATAATTTATA
39362364 ATTTATAATTTATA
1 ATTTATAATTTATA
39362378 ATTTATAAT
1 ATTTATAAT
39362387 GATAATTATT
Statistics
Matches: 47, Mismatches: 10, Indels: 7
0.73 0.16 0.11
Matches are distributed among these distances:
11 3 0.06
12 6 0.13
13 23 0.49
14 15 0.32
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (14 bp):
ATTTATAATTTATA
Found at i:39362404 original size:7 final size:7
Alignment explanation
Indices: 39362313--39362386 Score: 59
Period size: 7 Copynumber: 11.3 Consensus size: 7
39362303 ATCTTATCAG
39362313 ATTTATA
1 ATTTATA
39362320 ATTT-TA
1 ATTTATA
*
39362326 CTTTATA
1 ATTTATA
*
39362333 AGTTAT-
1 ATTTATA
* *
39362339 TTTTTTA
1 ATTTATA
*
39362346 ATTAAT-
1 ATTTATA
*
39362352 A-TTGTA
1 ATTTATA
39362358 A-TTATA
1 ATTTATA
39362364 ATTTATA
1 ATTTATA
39362371 ATTTATA
1 ATTTATA
39362378 ATTTATA
1 ATTTATA
39362385 AT
1 AT
39362387 GATAATTATT
Statistics
Matches: 51, Mismatches: 12, Indels: 8
0.72 0.17 0.11
Matches are distributed among these distances:
5 2 0.04
6 15 0.29
7 34 0.67
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (7 bp):
ATTTATA
Found at i:39362487 original size:56 final size:56
Alignment explanation
Indices: 39362425--39362535 Score: 136
Period size: 56 Copynumber: 2.0 Consensus size: 56
39362415 TTTTAAAATT
* * *
39362425 TTATAACTTTTATTACTCAG-GGTTTG-TTTAGGGTTACACACAAAATTAATGAAAAA
1 TTATAACCTCTATTACT-AGCGGTTTGCTTGA-GGTTACACACAAAATTAATGAAAAA
* * *
39362481 TTATAACCTCTGTTGCTTGCGGTTTGCTTGAGGTTACACACAAAATTAATGAAAA
1 TTATAACCTCTATTACTAGCGGTTTGCTTGAGGTTACACACAAAATTAATGAAAA
39362536 TAATTATAGC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
55 1 0.02
56 43 0.91
57 3 0.06
ACGTcount: A:0.34, C:0.14, G:0.16, T:0.36
Consensus pattern (56 bp):
TTATAACCTCTATTACTAGCGGTTTGCTTGAGGTTACACACAAAATTAATGAAAAA
Found at i:39365258 original size:49 final size:50
Alignment explanation
Indices: 39365198--39365337 Score: 201
Period size: 51 Copynumber: 2.8 Consensus size: 50
39365188 AAAATATCTA
*
39365198 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCAA-TTATCCG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTTATCCG
* * * * *
39365247 GTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTATCGG
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGA-CCAAGTTATCCG
*
39365298 GTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACC
39365338 TAGCTACATA
Statistics
Matches: 78, Mismatches: 11, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
49 34 0.44
50 4 0.05
51 40 0.51
ACGTcount: A:0.28, C:0.27, G:0.21, T:0.24
Consensus pattern (50 bp):
GTACACATAGTAGCCTGCACTTAGTACTACACATGCGACCAAGTTATCCG
Found at i:39366171 original size:30 final size:30
Alignment explanation
Indices: 39366137--39366196 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
39366127 CCTTAACTCG
39366137 AACTTTTGCAAATTTACAATTTTGCCCCTA
1 AACTTTTGCAAATTTACAATTTTGCCCCTA
* *
39366167 AACTTTTGCATATTTACACTTTTGCCCCTA
1 AACTTTTGCAAATTTACAATTTTGCCCCTA
39366197 GGCTCGGGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.27, C:0.25, G:0.07, T:0.42
Consensus pattern (30 bp):
AACTTTTGCAAATTTACAATTTTGCCCCTA
Found at i:39366540 original size:52 final size:52
Alignment explanation
Indices: 39366462--39366568 Score: 196
Period size: 52 Copynumber: 2.1 Consensus size: 52
39366452 ACCCTAGCTT
39366462 AAATTATTGCTAGAATAAGCTTAATCAAATTACCGGAATTCCAAAAACGTAA
1 AAATTATTGCTAGAATAAGCTTAATCAAATTACCGGAATTCCAAAAACGTAA
* *
39366514 AAATTATTGCTAGAATAAGCTTAATCAAATTATCGGGATTCCAAAAACGTAA
1 AAATTATTGCTAGAATAAGCTTAATCAAATTACCGGAATTCCAAAAACGTAA
39366566 AAA
1 AAA
39366569 ACTTGAAAAA
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
52 53 1.00
ACGTcount: A:0.47, C:0.14, G:0.12, T:0.27
Consensus pattern (52 bp):
AAATTATTGCTAGAATAAGCTTAATCAAATTACCGGAATTCCAAAAACGTAA
Found at i:39368955 original size:13 final size:13
Alignment explanation
Indices: 39368923--39368960 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
39368913 CAGTTAATTA
39368923 AATTAT-TTAATTT
1 AATTATATT-ATTT
39368936 AATTTATATTATTT
1 AA-TTATATTATTT
39368950 AATTATATTAT
1 AATTATATTAT
39368961 ACATTTTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 11 0.48
14 10 0.43
15 2 0.09
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (13 bp):
AATTATATTATTT
Found at i:39370935 original size:18 final size:18
Alignment explanation
Indices: 39370912--39370951 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
39370902 AATAAAAAAG
39370912 TAAAAAAATAAGAAATAT
1 TAAAAAAATAAGAAATAT
39370930 TAAAAAAATAAGAAATAT
1 TAAAAAAATAAGAAATAT
39370948 TAAA
1 TAAA
39370952 CATTTATTGC
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:0.72, C:0.00, G:0.05, T:0.23
Consensus pattern (18 bp):
TAAAAAAATAAGAAATAT
Found at i:39372502 original size:14 final size:14
Alignment explanation
Indices: 39372464--39372506 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
39372454 CAAAATTTAC
39372464 AATATAATTAAA-T
1 AATATAATTAAATT
39372477 AATATAAATTAAATT
1 AATAT-AATTAAATT
*
39372492 AA-ATAATTTAATT
1 AATATAATTAAATT
39372505 AA
1 AA
39372507 CTGTTTACCC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (14 bp):
AATATAATTAAATT
Found at i:39383317 original size:21 final size:21
Alignment explanation
Indices: 39383293--39383335 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
39383283 CTCCTCTTTT
39383293 TGTCTATTTTCTTTGTGTTGC
1 TGTCTATTTTCTTTGTGTTGC
39383314 TGTCTATTTTCTTTGTGTTGC
1 TGTCTATTTTCTTTGTGTTGC
39383335 T
1 T
39383336 TTCTTTCAGT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.05, C:0.14, G:0.19, T:0.63
Consensus pattern (21 bp):
TGTCTATTTTCTTTGTGTTGC
Found at i:39386824 original size:5 final size:5
Alignment explanation
Indices: 39386808--39386850 Score: 54
Period size: 5 Copynumber: 8.6 Consensus size: 5
39386798 TGAGTATTGG
39386808 TTTTA -TTT- TTTTA TTTTA TTTTTA TTTTA TTTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA -TTTTA TTTTA TTT
39386851 GGTTAAGTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
4 6 0.18
5 18 0.53
6 10 0.29
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (5 bp):
TTTTA
Found at i:39386824 original size:6 final size:6
Alignment explanation
Indices: 39386808--39386850 Score: 54
Period size: 6 Copynumber: 7.3 Consensus size: 6
39386798 TGAGTATTGG
*
39386808 TTTTAT TTTTTT ATTTTAT TTTTA- TTTTAT TTTTA- TTTTAT TT
1 TTTTAT TTTTAT -TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TT
39386851 GGTTAAGTTT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
5 10 0.31
6 17 0.53
7 5 0.16
ACGTcount: A:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTTAT
Found at i:39386831 original size:11 final size:11
Alignment explanation
Indices: 39386815--39386850 Score: 72
Period size: 11 Copynumber: 3.3 Consensus size: 11
39386805 TGGTTTTATT
39386815 TTTTTATTTTA
1 TTTTTATTTTA
39386826 TTTTTATTTTA
1 TTTTTATTTTA
39386837 TTTTTATTTTA
1 TTTTTATTTTA
39386848 TTT
1 TTT
39386851 GGTTAAGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (11 bp):
TTTTTATTTTA
Found at i:39397961 original size:27 final size:27
Alignment explanation
Indices: 39397931--39398051 Score: 154
Period size: 27 Copynumber: 4.5 Consensus size: 27
39397921 ATACTAGACC
*
39397931 CCCTTATGTGATAAAATAACTATTTTG
1 CCCTTATGTGATAAAATGACTATTTTG
* *
39397958 CCCTTATAT-AGTAAAATGACTGTTTTG
1 CCCTTATGTGA-TAAAATGACTATTTTG
* *
39397985 CCCTCATGTGGTAAAATGACTATTTTG
1 CCCTTATGTGATAAAATGACTATTTTG
* *
39398012 CCCTTATATGGTAAAATGACTATTTTG
1 CCCTTATGTGATAAAATGACTATTTTG
*
39398039 CCCCTATGTGATA
1 CCCTTATGTGATA
39398052 TATGTTTATA
Statistics
Matches: 80, Mismatches: 12, Indels: 4
0.83 0.12 0.04
Matches are distributed among these distances:
26 1 0.01
27 79 0.99
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (27 bp):
CCCTTATGTGATAAAATGACTATTTTG
Found at i:39398018 original size:54 final size:54
Alignment explanation
Indices: 39397931--39398051 Score: 181
Period size: 54 Copynumber: 2.2 Consensus size: 54
39397921 ATACTAGACC
* *
39397931 CCCTTATGTGATAAAATAACTATTTTGCCCTTATATAGTAAAATGACTGTTTTG
1 CCCTCATGTGATAAAATAACTATTTTGCCCTTATATAGTAAAATGACTATTTTG
* * *
39397985 CCCTCATGTGGTAAAATGACTATTTTGCCCTTATATGGTAAAATGACTATTTTG
1 CCCTCATGTGATAAAATAACTATTTTGCCCTTATATAGTAAAATGACTATTTTG
39398039 CCC-CTATGTGATA
1 CCCTC-ATGTGATA
39398052 TATGTTTATA
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
53 1 0.02
54 59 0.98
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.39
Consensus pattern (54 bp):
CCCTCATGTGATAAAATAACTATTTTGCCCTTATATAGTAAAATGACTATTTTG
Found at i:39400872 original size:22 final size:22
Alignment explanation
Indices: 39400847--39400890 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
39400837 TAGTCATATA
39400847 ATAAATTATTAATATAATAAAT
1 ATAAATTATTAATATAATAAAT
* * *
39400869 ATAATTTATTATTTTAATAAAT
1 ATAAATTATTAATATAATAAAT
39400891 TATTTAATAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
ATAAATTATTAATATAATAAAT
Found at i:39400926 original size:13 final size:14
Alignment explanation
Indices: 39400910--39400951 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
39400900 TTTCAATTTT
39400910 ATTTTAATAATA-A
1 ATTTTAATAATATA
*
39400923 ATTTTAAAAATAATA
1 ATTTTAATAAT-ATA
39400938 ATTTTAAATAATAT
1 ATTTT-AATAATAT
39400952 TATTCACATA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 10 0.42
14 1 0.04
15 8 0.33
16 5 0.21
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAATAATATA
Found at i:39400936 original size:16 final size:16
Alignment explanation
Indices: 39400914--39400950 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
39400904 AATTTTATTT
39400914 TAATAATAAATTTTAAA
1 TAATAAT-AATTTTAAA
39400931 -AATAATAATTTTAAA
1 TAATAATAATTTTAAA
39400946 TAATA
1 TAATA
39400951 TTATTCACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (16 bp):
TAATAATAATTTTAAA
Found at i:39403354 original size:20 final size:19
Alignment explanation
Indices: 39403320--39403359 Score: 53
Period size: 20 Copynumber: 2.1 Consensus size: 19
39403310 CATTTCAATT
*
39403320 TCATTTATCATTTCACATG
1 TCATTTATCAATTCACATG
*
39403339 TCATTTAATCAATTCATATG
1 TCATTT-ATCAATTCACATG
39403359 T
1 T
39403360 TTATAACCCT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.30, C:0.17, G:0.05, T:0.47
Consensus pattern (19 bp):
TCATTTATCAATTCACATG
Found at i:39404748 original size:63 final size:63
Alignment explanation
Indices: 39404638--39404757 Score: 179
Period size: 63 Copynumber: 1.9 Consensus size: 63
39404628 TCAAGTTGTG
* * *
39404638 TAACTCACTGTTTGTGATTTAGGGTCACATGAGGTAGGGACATGGGCGTGTGTCCAGACTGTT
1 TAACTCACTATTTGTGATTTAGGGTCACATGAGGTAGAGACACGGGCGTGTGTCCAGACTGTT
* *
39404701 TAACTCACTATTTGTGATTTAGTGTCACATG-GGTCATAGACACGGGCGTGTGTCCAG
1 TAACTCACTATTTGTGATTTAGGGTCACATGAGGT-AGAGACACGGGCGTGTGTCCAG
39404758 GTTGTGTGAG
Statistics
Matches: 51, Mismatches: 5, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
62 3 0.06
63 48 0.94
ACGTcount: A:0.22, C:0.17, G:0.29, T:0.32
Consensus pattern (63 bp):
TAACTCACTATTTGTGATTTAGGGTCACATGAGGTAGAGACACGGGCGTGTGTCCAGACTGTT
Found at i:39405911 original size:22 final size:21
Alignment explanation
Indices: 39405863--39405913 Score: 57
Period size: 22 Copynumber: 2.4 Consensus size: 21
39405853 ATAAACTATT
39405863 ACTATTTTAGGGAAAAATAAC
1 ACTATTTTAGGGAAAAATAAC
* * * *
39405884 AATATTTTAGAGTAACAATATC
1 ACTATTTTAG-GGAAAAATAAC
39405906 ACTATTTT
1 ACTATTTT
39405914 CGCCTGGAGG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
21 9 0.38
22 15 0.62
ACGTcount: A:0.43, C:0.10, G:0.10, T:0.37
Consensus pattern (21 bp):
ACTATTTTAGGGAAAAATAAC
Found at i:39406785 original size:14 final size:14
Alignment explanation
Indices: 39406768--39406795 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
39406758 ACTAATTTGT
39406768 TTGAAAAAATTACA
1 TTGAAAAAATTACA
39406782 TTGAAAAAATTACA
1 TTGAAAAAATTACA
39406796 AGTGTACTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.07, T:0.29
Consensus pattern (14 bp):
TTGAAAAAATTACA
Found at i:39413329 original size:25 final size:24
Alignment explanation
Indices: 39413280--39413427 Score: 104
Period size: 25 Copynumber: 6.0 Consensus size: 24
39413270 TGTCATTAGA
*
39413280 TTACCGATTCTCAGCTCG-AGAGAGC
1 TTACCGATT-TCAGCTCGTA-TGAGC
39413305 TTACCGATATTCAGCTCGTATGAGC
1 TTACCGAT-TTCAGCTCGTATGAGC
* * * *
39413330 TTATC-ATTATTCAACTTGTATGAGT
1 TTACCGA-T-TTCAGCTCGTATGAGC
*
39413355 TTA-CTATTACTCAGCTCGTATGAGC
1 TTACCGATT--TCAGCTCGTATGAGC
* *
39413380 TTACCGATTACAGCTCGTAAGAGC
1 TTACCGATTTCAGCTCGTATGAGC
* * *
39413404 ATACCAATTTAGAGCTCGTATGAG
1 TTACCGATTT-CAGCTCGTATGAG
39413428 TATACATGTA
Statistics
Matches: 99, Mismatches: 16, Indels: 16
0.76 0.12 0.12
Matches are distributed among these distances:
23 1 0.01
24 23 0.23
25 69 0.70
26 6 0.06
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.32
Consensus pattern (24 bp):
TTACCGATTTCAGCTCGTATGAGC
Found at i:39414139 original size:10 final size:10
Alignment explanation
Indices: 39414124--39414152 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
39414114 ATTTGGAAGA
39414124 GTTTAAAATT
1 GTTTAAAATT
39414134 GTTTAAAATT
1 GTTTAAAATT
39414144 GTTTAAAAT
1 GTTTAAAAT
39414153 CCTACTATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.48
Consensus pattern (10 bp):
GTTTAAAATT
Found at i:39417439 original size:52 final size:52
Alignment explanation
Indices: 39417381--39417581 Score: 159
Period size: 52 Copynumber: 4.0 Consensus size: 52
39417371 GACGGAAAAT
* * *
39417381 ATGTGATATGTGCTTCTGTAAAAGACCATAGCTAGGCTATGGCATCGGTACA
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * * ***
39417433 ATGTGAT-TCGAG-TTCCCGTATAAGACCATGGCTGGGCTATAGCATCGGTGTG
1 ATGTGATAT-GTGCTT-CCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * *
39417485 ATGTGATAATATGAC-TCCGTATAAGACCATATCTGGGATATGGCATCGGT---
1 ATGTGAT-ATGTG-CTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
* * * *
39417535 ATGT--TATGTG-ATCCGTATAAGACCATGGCAGGGCTATGGCTTCGGTA
1 ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTA
39417582 TGTGATGTGT
Statistics
Matches: 120, Mismatches: 21, Indels: 21
0.74 0.13 0.13
Matches are distributed among these distances:
46 30 0.25
47 4 0.03
48 1 0.01
50 4 0.03
51 3 0.03
52 45 0.38
53 31 0.26
54 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.29
Consensus pattern (52 bp):
ATGTGATATGTGCTTCCGTATAAGACCATAGCTGGGCTATGGCATCGGTACA
Found at i:39417573 original size:46 final size:46
Alignment explanation
Indices: 39417500--39417590 Score: 128
Period size: 46 Copynumber: 2.0 Consensus size: 46
39417490 ATAATATGAC
* * *
39417500 TCCGTATAAGACCATATCTGGGATATGGCATCGGTATGTTATGTGA
1 TCCGTATAAGACCATAGCAGGGATATGGCATCGGTATGTGATGTGA
* * *
39417546 TCCGTATAAGACCATGGCAGGGCTATGGCTTCGGTATGTGATGTG
1 TCCGTATAAGACCATAGCAGGGATATGGCATCGGTATGTGATGTG
39417591 TGACAATGTG
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:0.23, C:0.16, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGTATAAGACCATAGCAGGGATATGGCATCGGTATGTGATGTGA
Found at i:39417631 original size:28 final size:28
Alignment explanation
Indices: 39417591--39417653 Score: 117
Period size: 28 Copynumber: 2.2 Consensus size: 28
39417581 ATGTGATGTG
39417591 TGACAATGTGAAAGTCCATAGTTTACTA
1 TGACAATGTGAAAGTCCATAGTTTACTA
39417619 TGACAATGTGAAAGTCCATAGTTTACTA
1 TGACAATGTGAAAGTCCATAGTTTACTA
*
39417647 TGGCAAT
1 TGACAAT
39417654 ATGATAATGA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.32
Consensus pattern (28 bp):
TGACAATGTGAAAGTCCATAGTTTACTA
Found at i:39421076 original size:1 final size:1
Alignment explanation
Indices: 39421070--39421117 Score: 51
Period size: 1 Copynumber: 48.0 Consensus size: 1
39421060 TTAGTACTTA
* * * * *
39421070 TTTTTTTCTTCTTTTTTTTCTTTTTTTTTTCTTTTTTTTTCTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
39421118 AAATTTTATT
Statistics
Matches: 37, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
1 37 1.00
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (1 bp):
T
Found at i:39421084 original size:11 final size:10
Alignment explanation
Indices: 39421070--39421117 Score: 71
Period size: 10 Copynumber: 4.7 Consensus size: 10
39421060 TTAGTACTTA
39421070 TTTTTTTCTTC
1 TTTTTTT-TTC
39421081 -TTTTTTTTC
1 TTTTTTTTTC
39421090 TTTTTTTTTTC
1 -TTTTTTTTTC
39421101 TTTTTTTTTC
1 TTTTTTTTTC
39421111 TTTTTTT
1 TTTTTTT
39421118 AAATTTTATT
Statistics
Matches: 35, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
9 3 0.09
10 23 0.66
11 9 0.26
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (10 bp):
TTTTTTTTTC
Found at i:39421095 original size:20 final size:21
Alignment explanation
Indices: 39421070--39421117 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
39421060 TTAGTACTTA
39421070 TTTTTTTCTTC-TTTTTTTTC
1 TTTTTTTCTTCTTTTTTTTTC
*
39421090 TTTTTTTTTTCTTTTTTTTTC
1 TTTTTTTCTTCTTTTTTTTTC
39421111 TTTTTTT
1 TTTTTTT
39421118 AAATTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
20 10 0.38
21 16 0.62
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (21 bp):
TTTTTTTCTTCTTTTTTTTTC
Found at i:39421403 original size:118 final size:118
Alignment explanation
Indices: 39421243--39421473 Score: 390
Period size: 118 Copynumber: 2.0 Consensus size: 118
39421233 TATTTCCGGT
39421243 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
* *
39421308 CCTACCCCGGTTACTCAGTCAGTCACGATTTGAGCCATACTCATAACCTCGGC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
****
39421361 TAGCGGAGTTTTACTTGTCACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
1 TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
**
39421426 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCTGTACTCATAACC
66 CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACC
39421474 ATGGAAAACA
Statistics
Matches: 105, Mismatches: 8, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 105 1.00
ACGTcount: A:0.29, C:0.31, G:0.18, T:0.23
Consensus pattern (118 bp):
TAGCGGAGTTTTACCCAACACGTCACACAACCTTTTGACGCGAAGTAGAATGACAACCCAAGCAC
CCTACCCCGGTTACTCAGTCAGTCACGATCTAAGCCATACTCATAACCTCGGC
Found at i:39422267 original size:42 final size:42
Alignment explanation
Indices: 39422220--39422310 Score: 146
Period size: 42 Copynumber: 2.2 Consensus size: 42
39422210 TGAAAAGGGG
* **
39422220 TGTTTGGCTGCAGGTTTATGACATTTTGGGCTGGAATAGAAC
1 TGTTTGGCAGCAGGGATATGACATTTTGGGCTGGAATAGAAC
*
39422262 TGTTTGGCAGCAGGGATATGGCATTTTGGGCTGGAATAGAAC
1 TGTTTGGCAGCAGGGATATGACATTTTGGGCTGGAATAGAAC
39422304 TGTTTGG
1 TGTTTGG
39422311 TACCATGGAT
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.21, C:0.11, G:0.34, T:0.34
Consensus pattern (42 bp):
TGTTTGGCAGCAGGGATATGACATTTTGGGCTGGAATAGAAC
Found at i:39422321 original size:42 final size:42
Alignment explanation
Indices: 39422236--39422321 Score: 136
Period size: 42 Copynumber: 2.0 Consensus size: 42
39422226 GCTGCAGGTT
*
39422236 TATGACATTTTGGGCTGGAATAGAACTGTTTGGCAGCAGGGA
1 TATGACATTTTGGGCTGGAATAGAACTGTTTGGCACCAGGGA
* * *
39422278 TATGGCATTTTGGGCTGGAATAGAACTGTTTGGTACCATGGA
1 TATGACATTTTGGGCTGGAATAGAACTGTTTGGCACCAGGGA
39422320 TA
1 TA
39422322 GGGTTGTTTT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.26, C:0.12, G:0.31, T:0.31
Consensus pattern (42 bp):
TATGACATTTTGGGCTGGAATAGAACTGTTTGGCACCAGGGA
Found at i:39422430 original size:10 final size:10
Alignment explanation
Indices: 39422417--39422500 Score: 70
Period size: 10 Copynumber: 8.4 Consensus size: 10
39422407 AATATTTAAC
39422417 TAAAATAAAA
1 TAAAATAAAA
39422427 TAAAATAAAA
1 TAAAATAAAA
39422437 TAAAATAATAA
1 TAAAATAA-AA
*
39422448 -ATAAT-AAA
1 TAAAATAAAA
39422456 TAATAA-AAAA
1 TAA-AATAAAA
*
39422466 AAAAATAAAA
1 TAAAATAAAA
39422476 -AATAAT-AAA
1 TAA-AATAAAA
39422485 TAAAAATAAAAA
1 T-AAAAT-AAAA
39422497 TAAA
1 TAAA
39422501 GATTGGGTTG
Statistics
Matches: 61, Mismatches: 3, Indels: 19
0.73 0.04 0.23
Matches are distributed among these distances:
8 2 0.03
9 9 0.15
10 39 0.64
11 7 0.11
12 4 0.07
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (10 bp):
TAAAATAAAA
Found at i:39422451 original size:7 final size:7
Alignment explanation
Indices: 39422439--39422499 Score: 72
Period size: 7 Copynumber: 8.9 Consensus size: 7
39422429 AAATAAAATA
39422439 AAATAAT
1 AAATAAT
39422446 AAATAAT
1 AAATAAT
39422453 AAATAAT
1 AAATAAT
* *
39422460 AAAAAAAA
1 -AAATAAT
*
39422468 AAATAAA
1 AAATAAT
39422475 AAATAAT
1 AAATAAT
39422482 AAATAA-
1 AAATAAT
39422488 AAATAA-
1 AAATAAT
39422494 AAATAA
1 AAATAA
39422500 AGATTGGGTT
Statistics
Matches: 49, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
6 12 0.24
7 32 0.65
8 5 0.10
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (7 bp):
AAATAAT
Found at i:39422470 original size:29 final size:28
Alignment explanation
Indices: 39422424--39422496 Score: 92
Period size: 29 Copynumber: 2.5 Consensus size: 28
39422414 AACTAAAATA
* * *
39422424 AAATAAAATAAAATAAAATAATAAATAAT
1 AAATAAAAAAAAAAAAA-TAAAAAATAAT
39422453 AAATAATAAAAAAAAAAATAAAAAATAAT
1 AAATAA-AAAAAAAAAAATAAAAAATAAT
*
39422482 AAATAAAAATAAAAA
1 AAATAAAAAAAAAAA
39422497 TAAAGATTGG
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
28 8 0.21
29 22 0.56
30 9 0.23
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (28 bp):
AAATAAAAAAAAAAAAATAAAAAATAAT
Found at i:39422474 original size:26 final size:26
Alignment explanation
Indices: 39422429--39422500 Score: 92
Period size: 26 Copynumber: 2.7 Consensus size: 26
39422419 AAATAAAATA
* *
39422429 AAATAAAATAAAATAATAAATAATAA-
1 AAATAAAA-AAAAAAATAAAAAATAAT
39422455 ATAATAAAAAAAAAAATAAAAAATAAT
1 A-AATAAAAAAAAAAATAAAAAATAAT
*
39422482 AAATAAAAATAAAAATAAA
1 AAATAAAAAAAAAAATAAA
39422501 GATTGGGTTG
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
26 33 0.80
27 8 0.20
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (26 bp):
AAATAAAAAAAAAAATAAAAAATAAT
Found at i:39425151 original size:22 final size:22
Alignment explanation
Indices: 39425126--39425177 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
39425116 TTTTGTTTCC
39425126 TTTCGATTAGCTTTCGCAGTCT
1 TTTCGATTAGCTTTCGCAGTCT
39425148 TTTCGATTAGCTTTCGCAGTCT
1 TTTCGATTAGCTTTCGCAGTCT
39425170 TTTCGATT
1 TTTCGATT
39425178 TCTGAGTCGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.13, C:0.21, G:0.17, T:0.48
Consensus pattern (22 bp):
TTTCGATTAGCTTTCGCAGTCT
Found at i:39425688 original size:29 final size:29
Alignment explanation
Indices: 39425656--39425744 Score: 178
Period size: 29 Copynumber: 3.1 Consensus size: 29
39425646 GGGGGAGAGT
39425656 GTTTACAGAAAAAGATGCCCCTAAATAGA
1 GTTTACAGAAAAAGATGCCCCTAAATAGA
39425685 GTTTACAGAAAAAGATGCCCCTAAATAGA
1 GTTTACAGAAAAAGATGCCCCTAAATAGA
39425714 GTTTACAGAAAAAGATGCCCCTAAATAGA
1 GTTTACAGAAAAAGATGCCCCTAAATAGA
39425743 GT
1 GT
39425745 CACTTCACCC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 60 1.00
ACGTcount: A:0.44, C:0.17, G:0.18, T:0.21
Consensus pattern (29 bp):
GTTTACAGAAAAAGATGCCCCTAAATAGA
Found at i:39427089 original size:25 final size:24
Alignment explanation
Indices: 39427058--39427182 Score: 96
Period size: 25 Copynumber: 5.0 Consensus size: 24
39427048 TTCATAAGAT
39427058 TAGCCACAAAGGCTTTCTAGATAA
1 TAGCCACAAAGGCTTTCTAGATAA
* *
39427082 TACACCACAAATGCTTCTCATAAGAT--
1 TA-GCCACAAAGGCTT-TC-T-AGATAA
* *
39427108 TAGCCACAAAGGCTTTCCAAATAA
1 TAGCCACAAAGGCTTTCTAGATAA
*
39427132 TATGCCAAAAAGGCTTTTCATAAGAT--
1 TA-GCCACAAAGGC-TTTC-T-AGATAA
*
39427158 TAGCCACAAAGGTTTTCTAGATAA
1 TAGCCACAAAGGCTTTCTAGATAA
39427182 T
1 T
39427183 CCATTTTTAC
Statistics
Matches: 78, Mismatches: 11, Indels: 24
0.69 0.10 0.21
Matches are distributed among these distances:
22 7 0.09
23 1 0.01
24 11 0.14
25 41 0.53
26 10 0.13
27 1 0.01
28 7 0.09
ACGTcount: A:0.38, C:0.21, G:0.14, T:0.27
Consensus pattern (24 bp):
TAGCCACAAAGGCTTTCTAGATAA
Found at i:39427103 original size:50 final size:50
Alignment explanation
Indices: 39426948--39427182 Score: 196
Period size: 50 Copynumber: 4.7 Consensus size: 50
39426938 TTACAAGGGT
* * * * * **
39426948 TTCTCACAAGATTAGCCACAAAGGCTTTTTATAGGAATA-GCCACAAAAGTT
1 TTCTCATAAGATTAGCCACAAAGGCTTTCTAGA-TAATACACCA-AAAAGGC
* * * * *
39426999 TTC-CATATA-ATATA-CCATAAAGGCTTTCCAAAAAATA-ACACAAAAACG-
1 TTCTCATA-AGAT-TAGCCACAAAGGCTTTCTAGATAATACAC-CAAAAAGGC
* *
39427047 TT-TCATAAGATTAGCCACAAAGGCTTTCTAGATAATACACCACAAATGC
1 TTCTCATAAGATTAGCCACAAAGGCTTTCTAGATAATACACCAAAAAGGC
* * **
39427096 TTCTCATAAGATTAGCCACAAAGGCTTTCCAAATAATATGCCAAAAAGGC
1 TTCTCATAAGATTAGCCACAAAGGCTTTCTAGATAATACACCAAAAAGGC
* *
39427146 TTTTCATAAGATTAGCCACAAAGGTTTTCTAGATAAT
1 TTCTCATAAGATTAGCCACAAAGGCTTTCTAGATAAT
39427183 CCATTTTTAC
Statistics
Matches: 150, Mismatches: 25, Indels: 19
0.77 0.13 0.10
Matches are distributed among these distances:
47 3 0.02
48 33 0.22
49 13 0.09
50 95 0.63
51 6 0.04
ACGTcount: A:0.40, C:0.20, G:0.12, T:0.27
Consensus pattern (50 bp):
TTCTCATAAGATTAGCCACAAAGGCTTTCTAGATAATACACCAAAAAGGC
Found at i:39429551 original size:29 final size:29
Alignment explanation
Indices: 39429519--39429586 Score: 77
Period size: 29 Copynumber: 2.3 Consensus size: 29
39429509 ATACTATTAT
*
39429519 TATTTATATAATTTTTAT-TTATCTATTTA
1 TATTTATATAATTATTATATT-TCTATTTA
* *
39429548 TATTTCTACT-ATTATTATATTTCTATTTC
1 TATTTATA-TAATTATTATATTTCTATTTA
39429577 TATTTATATA
1 TATTTATATA
39429587 CTAATATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
28 1 0.03
29 28 0.88
30 3 0.09
ACGTcount: A:0.29, C:0.07, G:0.00, T:0.63
Consensus pattern (29 bp):
TATTTATATAATTATTATATTTCTATTTA
Found at i:39429560 original size:23 final size:23
Alignment explanation
Indices: 39429510--39429578 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 23
39429500 GTTATTCCAA
*
39429510 TACTATTATTAT-TTATATAATTTT
1 TACTATTATTATATT-TAT-ATTTC
*
39429534 TA-T-TTA-TCTATTTATATTTC
1 TACTATTATTATATTTATATTTC
*
39429554 TACTATTATTATATTTCTATTTC
1 TACTATTATTATATTTATATTTC
39429577 TA
1 TA
39429579 TTTATATACT
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
20 6 0.16
21 6 0.16
22 8 0.22
23 15 0.41
24 2 0.05
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (23 bp):
TACTATTATTATATTTATATTTC
Found at i:39429823 original size:13 final size:13
Alignment explanation
Indices: 39429805--39429830 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39429795 ACTATTAGTA
39429805 CTATTATTCTTTT
1 CTATTATTCTTTT
39429818 CTATTATTCTTTT
1 CTATTATTCTTTT
39429831 TATATTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.15, G:0.00, T:0.69
Consensus pattern (13 bp):
CTATTATTCTTTT
Found at i:39429825 original size:3 final size:3
Alignment explanation
Indices: 39429716--39429812 Score: 79
Period size: 3 Copynumber: 31.7 Consensus size: 3
39429706 TTTAAAACTT
* * *
39429716 TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTTA TGTA TCA ATA TCA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA T-TA TTA TTA TTA
* * * * * *
39429762 TTT TTT TTA TATA TTA TTA TCA TTA TTA TTA TTA CTA TTA GTA CTA
1 TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
39429808 TTA TT
1 TTA TT
39429813 CTTTTCTATT
Statistics
Matches: 75, Mismatches: 15, Indels: 8
0.77 0.15 0.08
Matches are distributed among these distances:
2 2 0.03
3 65 0.87
4 8 0.11
ACGTcount: A:0.32, C:0.05, G:0.02, T:0.61
Consensus pattern (3 bp):
TTA
Found at i:39431998 original size:19 final size:19
Alignment explanation
Indices: 39431974--39432018 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
39431964 CGTCTCTTTT
*
39431974 TGCATT-CATTTCATGCATC
1 TGCATTGCATTTCAT-CATA
39431993 TGCATTGCATTTCATCATA
1 TGCATTGCATTTCATCATA
39432012 TGCATTG
1 TGCATTG
39432019 AATGTCACAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
19 16 0.67
20 8 0.33
ACGTcount: A:0.22, C:0.22, G:0.13, T:0.42
Consensus pattern (19 bp):
TGCATTGCATTTCATCATA
Found at i:39435489 original size:21 final size:21
Alignment explanation
Indices: 39435443--39435488 Score: 76
Period size: 20 Copynumber: 2.2 Consensus size: 21
39435433 CCTTAAGACC
*
39435443 AAAAATAATAATAATAATCAA
1 AAAAATAATAATAAAAATCAA
39435464 AAAAATAATAA-AAAAATCAA
1 AAAAATAATAATAAAAATCAA
39435484 AAAAA
1 AAAAA
39435489 AGATAAGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 13 0.54
21 11 0.46
ACGTcount: A:0.78, C:0.04, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAATAATAATAAAAATCAA
Found at i:39437221 original size:44 final size:45
Alignment explanation
Indices: 39437131--39437259 Score: 152
Period size: 44 Copynumber: 2.8 Consensus size: 45
39437121 ACAGAACGGA
*
39437131 AATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAGACAGG
* *
39437177 ATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAGACAGG
1 AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
* ** * * *
39437221 AATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 AATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
39437260 CAGGATATTG
Statistics
Matches: 70, Mismatches: 11, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
44 36 0.51
45 1 0.01
46 33 0.47
ACGTcount: A:0.34, C:0.14, G:0.24, T:0.28
Consensus pattern (45 bp):
AATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAGACAGG
Found at i:39439496 original size:45 final size:45
Alignment explanation
Indices: 39439388--39439719 Score: 157
Period size: 44 Copynumber: 7.5 Consensus size: 45
39439378 AGCCACCAGC
* * ** * * *
39439388 CTTATTTCCCTGAGGTAGCAAATGAGTAGGCTGAAGATTGTAG-T
1 CTTATCTCTCTGAGGTAGCAAGGGAGCAGACTGAAGATTGAAGAT
* *
39439432 CTTATCTTTTTGAGGTAGCAAGGGAGCAGACTGAAGATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGGGAGCAGACTGAAGATTGAAGAT
* * * * *
39439477 CTTATCTCTCTGAGATAGC-AGTGGAGTAGA-TCGAATA-CGACAAAT
1 CTTATCTCTCTGAGGTAGCAAG-GGAGCAGACT-GAAGATTGA-AGAT
* * ** ***** *
39439522 CTTATCT-TCCCGAGGTAGC-AGAGGAGCAGATTTTAGCCACCAG-C
1 CTTATCTCT-CTGAGGTAGCAAG-GGAGCAGACTGAAGATTGAAGAT
* * * * * *
39439566 CTTATTTCCCTGAGGTAGCAAGGGAGTAGGCTAAAGATTGCAG-T
1 CTTATCTCTCTGAGGTAGCAAGGGAGCAGACTGAAGATTGAAGAT
* * *
39439610 CTTATCTTTCTGAGGTAGCAAAGGAACAGACTGAAGATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGGGAGCAGACTGAAGATTGAAGAT
* ** * * *
39439655 CTTGTAT-TC-CTGA-GCAGCAATAGAGCAGGCTGAGGATTGTAGAT
1 C-T-TATCTCTCTGAGGTAGCAAGGGAGCAGACTGAAGATTGAAGAT
39439699 CTTATCT-TCATGAGGTAGCAA
1 CTTATCTCTC-TGAGGTAGCAA
39439720 TAGAGTAGAT
Statistics
Matches: 212, Mismatches: 60, Indels: 31
0.70 0.20 0.10
Matches are distributed among these distances:
42 3 0.01
43 3 0.01
44 129 0.61
45 71 0.33
46 3 0.01
47 3 0.01
ACGTcount: A:0.30, C:0.17, G:0.26, T:0.28
Consensus pattern (45 bp):
CTTATCTCTCTGAGGTAGCAAGGGAGCAGACTGAAGATTGAAGAT
Found at i:39439592 original size:89 final size:89
Alignment explanation
Indices: 39439338--39439639 Score: 238
Period size: 88 Copynumber: 3.4 Consensus size: 89
39439328 GTGCAAAACG
* *
39439338 GCAAATCTTATCTTCCCGAGGTAGCAGGGGAGTAGATTTTAGCCACCAGCCTTATTTCCCTGAGG
1 GCAAATCTTATCTTCCCGAGGTAGCAGAGGAGCAGATTTTAGCCACCAGCCTTATTTCCCTGAGG
** *
39439403 TAGCAAATGAGTAGGCTGAAGATT
66 TAGCAAGGGAGTAGGCTGAAGATC
* * *** * ** ***** * * *
39439427 G-TAGTCTTATCTTTTTGAGGTAGCA-AGGGAGCAGACTGAAGATTGAAGATCTTATCTCTCTGA
1 GCAAATCTTATCTTCCCGAGGTAGCAGA-GGAGCAGATTTTAGCCACCAG-CCTTATTTCCCTGA
* * *
39439490 GATAGC-AGTGGAGTA-GATCGAATA-C
64 GGTAGCAAG-GGAGTAGGCT-GAAGATC
39439515 GACAAATCTTATCTTCCCGAGGTAGCAGAGGAGCAGATTTTAGCCACCAGCCTTATTTCCCTGAG
1 G-CAAATCTTATCTTCCCGAGGTAGCAGAGGAGCAGATTTTAGCCACCAGCCTTATTTCCCTGAG
* *
39439580 GTAGCAAGGGAGTAGGCTAAAGATT
65 GTAGCAAGGGAGTAGGCTGAAGATC
* * * * *
39439605 GC-AGTCTTATCTTTCTGAGGTAGCAAAGGAACAGA
1 GCAAATCTTATCTTCCCGAGGTAGCAGAGGAGCAGA
39439640 CTGAAGATTG
Statistics
Matches: 153, Mismatches: 50, Indels: 21
0.68 0.22 0.09
Matches are distributed among these distances:
88 63 0.41
89 52 0.34
90 37 0.24
91 1 0.01
ACGTcount: A:0.29, C:0.18, G:0.26, T:0.27
Consensus pattern (89 bp):
GCAAATCTTATCTTCCCGAGGTAGCAGAGGAGCAGATTTTAGCCACCAGCCTTATTTCCCTGAGG
TAGCAAGGGAGTAGGCTGAAGATC
Found at i:39439858 original size:88 final size:87
Alignment explanation
Indices: 39439744--39440216 Score: 289
Period size: 88 Copynumber: 5.3 Consensus size: 87
39439734 GGTGGCGAAT
* * * *
39439744 CTTATCTCCATGAGGTAGCAATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAG-CACCAGCCTTATCTCCCTGAAGTTGCAG
*
39439809 TGGAGCAGGTCGAAATTACAAAC
65 TGGAGCAGGTTGAAATTACAAAC
* * * * * ** * *
39439832 CTTATCTCCCTGAAGTTGCATTGGAGCAGACTGAAGATAGCAAATCTTATTTCCCTGAAGATGCA
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAG-CA-CCAGCCTTATCTCCCTGAAGTTGCA
* * * *
39439897 GTGGAACAGATTGAAGCTATAAATAAACAGAT
64 GTGGAGCAGGTTGAA---AT---T--ACAAAC
* * * * *
39439929 CTTATCTCTCTGAA-TTGCAGTAGAGCAGA-TCATAGCA--AACTTTATCTCCCTGAAGTTGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTA-AGCACCAGCCTTATCTCCCTGAAGTTGCAG
* * ***
39439990 TGGAGCAGGTTGAAGTAACAGGT
65 TGGAGCAGGTTGAAATTACAAAC
* * ** * *
39440013 CTTATCTCCTTGAGGTACCAG-GGAAGAAGATTTAAGCCACCAGCCTTATCTCCCTGAA-TTACA
1 CTTATCTCCCTGAAGTTGCAGTGG-AGCAGATTTAAG-CACCAGCCTTATCTCCCTGAAGTTGCA
* *
39440076 GTGGAGCAAGTT-AACATTACCAATC
64 GTGGAGCAGGTTGAA-ATTA-CAAAC
* * ** * * *
39440101 CTTATCTCCCTAAAGTTGTAGTGGAGCAAGAAAATAA--ACGAGTCTTATCTCCCTGAAGTTGTA
1 CTTATCTCCCTGAAGTTGCAGTGGAGC-AG-ATTTAAGCACCAGCCTTATCTCCCTGAAGTTGCA
* * * *
39440164 GTGGAGCAAGTTGAAGTCACGAAC
64 GTGGAGCAGGTTGAAATTACAAAC
*
39440188 CTTATCTCCCTGAAGTTGTAGTGGAGCAG
1 CTTATCTCCCTGAAGTTGCAGTGGAGCAG
39440217 GTTGAAATTA
Statistics
Matches: 295, Mismatches: 67, Indels: 48
0.72 0.16 0.12
Matches are distributed among these distances:
84 17 0.06
85 11 0.04
86 8 0.03
87 64 0.22
88 82 0.28
89 39 0.13
90 4 0.01
92 34 0.12
95 4 0.01
96 15 0.05
97 17 0.06
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.27
Consensus pattern (87 bp):
CTTATCTCCCTGAAGTTGCAGTGGAGCAGATTTAAGCACCAGCCTTATCTCCCTGAAGTTGCAGT
GGAGCAGGTTGAAATTACAAAC
Found at i:39439864 original size:222 final size:222
Alignment explanation
Indices: 39439455--39439869 Score: 482
Period size: 222 Copynumber: 1.9 Consensus size: 222
39439445 GGTAGCAAGG
* * *
39439455 GAGCAGACTGAAGATTGAAGATCTTATCTCTCTGAGATAGCAGTGGAGTAGATCGAATACGACAA
1 GAGCAGACTGAAGATTGAAGATCTTATCTCTCTGAGATAGCAATAGAGTAGATCGAAGACGACAA
* * *
39439520 ATCTTATCTTCCCGAGGTAGCAGAGGAGCAGATTTTAGCCACCAGCCTTATTTCCCTGAGGTAGC
66 ATCTTATCTTCCCGAGGTAGCAGAGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTAGC
* * ** ** *
39439585 AAGGGAGTAGGCTAAAGATTGCAGTCTTATCTTTCTGAGGTAGCAAAGGAACAGACTGAAGATTG
131 AAGGGAGCAGGCTAAAGATTACAACCTTATCTCCCTGAAGTAGCAAAGGAACAGACTGAAGATTG
39439650 AAGATCTTGTATTCCTGAGCAGCAATA
196 AAGATCTTGTATTCCTGAGCAGCAATA
* * * * ** * *
39439677 GAGCAGGCTGAGGATTGTAGATCTTATCT-TCATGAGGTAGCAATAGAGTAGATCGAAGGTGGCG
1 GAGCAGACTGAAGATTGAAGATCTTATCTCTC-TGAGATAGCAATAGAGTAGATCGAAGACGACA
*
39439741 AATCTTATC-TCCATGAGGTAGCA-ATGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGT
65 AATCTTATCTTCC-CGAGGTAGCAGA-GGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGT
* * * ** *
39439804 TGC-AGTGGAGCAGG-TCGAA-ATTACAAACCTTATCTCCCTGAAGTTGCATTGGAGCAGACTGA
128 AGCAAG-GGAGCAGGCT-AAAGATTAC-AACCTTATCTCCCTGAAGTAGCAAAGGAACAGACTGA
39439866 AGAT
190 AGAT
39439870 AGCAAATCTT
Statistics
Matches: 159, Mismatches: 28, Indels: 12
0.80 0.14 0.06
Matches are distributed among these distances:
221 13 0.08
222 146 0.92
ACGTcount: A:0.30, C:0.19, G:0.26, T:0.26
Consensus pattern (222 bp):
GAGCAGACTGAAGATTGAAGATCTTATCTCTCTGAGATAGCAATAGAGTAGATCGAAGACGACAA
ATCTTATCTTCCCGAGGTAGCAGAGGAGCAGATTTAAGCCACCAGCCTTATCTCCCTGAAGTAGC
AAGGGAGCAGGCTAAAGATTACAACCTTATCTCCCTGAAGTAGCAAAGGAACAGACTGAAGATTG
AAGATCTTGTATTCCTGAGCAGCAATA
Found at i:39439912 original size:45 final size:45
Alignment explanation
Indices: 39439787--39440268 Score: 230
Period size: 44 Copynumber: 10.8 Consensus size: 45
39439777 AAGCCACCAG
* *
39439787 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTCGAA-ATTACAAA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTACAAA
* *
39439831 CCTTATCTCCCTGAAGTTGCATTGGAGCAGACTGAAGA-TAGCAAA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTA-CAAA
* * * * *
39439876 TCTTATTTCCCTGAAGATGCAGTGGAACAGATTGAAGCTATAAATAAACAGA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG--AT---T--ACAAA
* * * *
39439928 TCTTATCTCTCTGAA-TTGCAGTAGAGCAGA-T---CA-TAGCAAA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTA-CAAA
* * * **
39439968 CTTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAG-TAACAGG
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTACAAA
* * * ** * * ** * *
39440012 TCTTATCTCCTTGAGGTACCAG-GGAAGAAGATTTAAG-CCACCAG
1 CCTTATCTCCCTGAAGTTGCAGTGG-AGCAGATTGAAGATTACAAA
* * *
39440056 CCTTATCTCCCTGAA-TTACAGTGGAGCA-AGTT-AACATTACCAAT
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATTA-CAAA
* * * * * *
39440100 CCTTATCTCCCTAAAGTTGTAGTGGAGCA-A--GAAAATAAACGAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-TACAAA
* * * *
39440143 TCTTATCTCCCTGAAGTTGTAGTGGAGCA-AGTTGAAG-TCACGAA
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGA-TTGAAGATTACAAA
* * *
39440187 CCTTATCTCCCTGAAGTTGTAGTGGAGCAGGTTGAA-ATTATCAAT
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTA-CAAA
* * * * * *
39440232 TCTTATCTCCTTGAAGTTTCAGCGGAGTAGATCGAAG
1 CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAG
39440269 CTACAAATCT
Statistics
Matches: 330, Mismatches: 76, Indels: 62
0.71 0.16 0.13
Matches are distributed among these distances:
39 1 0.00
40 15 0.05
41 14 0.04
42 4 0.01
43 46 0.14
44 134 0.41
45 81 0.25
46 3 0.01
47 1 0.00
50 1 0.00
51 13 0.04
52 16 0.05
53 1 0.00
ACGTcount: A:0.30, C:0.20, G:0.22, T:0.28
Consensus pattern (45 bp):
CCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATTACAAA
Found at i:39440204 original size:87 final size:87
Alignment explanation
Indices: 39440057--39440215 Score: 232
Period size: 87 Copynumber: 1.8 Consensus size: 87
39440047 AGCCACCAGC
*
39440057 CTTATCTCCCTGAATTACAGTGGAGCAAGTTAACATTACCAATCCTTATCTCCCTAAAGTTGTAG
1 CTTATCTCCCTGAATTACAGTGGAGCAAGTTAACATCACCAATCCTTATCTCCCTAAAGTTGTAG
39440122 TGGAGCAAGAAAATAAACGAGT
66 TGGAGCAAGAAAATAAACGAGT
** * * *
39440144 CTTATCTCCCTGAAGTTGTAGTGGAGCAAGTTGAA-GTCACGAA-CCTTATCTCCCTGAAGTTGT
1 CTTATCTCCCTGAA-TTACAGTGGAGCAAGTT-AACATCACCAATCCTTATCTCCCTAAAGTTGT
39440207 AGTGGAGCA
64 AGTGGAGCA
39440216 GGTTGAAATT
Statistics
Matches: 64, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
87 42 0.66
88 20 0.31
89 2 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (87 bp):
CTTATCTCCCTGAATTACAGTGGAGCAAGTTAACATCACCAATCCTTATCTCCCTAAAGTTGTAG
TGGAGCAAGAAAATAAACGAGT
Found at i:39440713 original size:5 final size:5
Alignment explanation
Indices: 39440686--39440727 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
39440676 GTTTTTGTTT
* *
39440686 TTTTA -TTTA TTTTTA TTTCA TTTTA TTTTA TTTTA ATTTA TT
1 TTTTA TTTTA -TTTTA TTTTA TTTTA TTTTA TTTTA TTTTA TT
39440728 AAATTAATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
4 4 0.13
5 23 0.74
6 4 0.13
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.76
Consensus pattern (5 bp):
TTTTA
Found at i:39441298 original size:15 final size:14
Alignment explanation
Indices: 39441272--39441358 Score: 70
Period size: 15 Copynumber: 6.0 Consensus size: 14
39441262 TATTCTAATA
*
39441272 CTATTATTATTTAT
1 CTATTTTTATTTAT
39441286 CTAATTTTTATTTAT
1 CT-ATTTTTATTTAT
* *
39441301 CTATTTATATTTCT
1 CTATTTTTATTTAT
*
39441315 ACTATTATTATATT-T
1 -CTATTTTTAT-TTAT
39441330 CTATTTATTATATT-T
1 CTATTT-TTAT-TTAT
*
39441345 CTATTTGTATTTAT
1 CTATTTTTATTTAT
39441359 ATACTAATAT
Statistics
Matches: 61, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
13 2 0.03
14 21 0.34
15 36 0.59
16 2 0.03
ACGTcount: A:0.26, C:0.08, G:0.01, T:0.64
Consensus pattern (14 bp):
CTATTTTTATTTAT
Found at i:39441311 original size:29 final size:28
Alignment explanation
Indices: 39441244--39441358 Score: 92
Period size: 29 Copynumber: 3.9 Consensus size: 28
39441234 ATTGCTATTA
*
39441244 TTATTATGTTTCTATTGTTATTCTAATACTA-
1 TTATTAT-TTTCTATTTTTATT-T-AT-CTAT
39441275 TTATTATTTATCTAATTTTTATTTATCTAT
1 TTATTATTT-TCT-ATTTTTATTTATCTAT
*
39441305 TTA-TATTTCTACTATTATTATATT-TCTAT
1 TTATTATTT-T-CTATTTTTAT-TTATCTAT
*
39441334 TTATTATATTTCTATTTGTATTTAT
1 TTATTAT-TTTCTATTTTTATTTAT
39441359 ATACTAATAT
Statistics
Matches: 71, Mismatches: 5, Indels: 18
0.76 0.05 0.19
Matches are distributed among these distances:
28 2 0.03
29 33 0.46
30 15 0.21
31 13 0.18
32 8 0.11
ACGTcount: A:0.26, C:0.08, G:0.03, T:0.63
Consensus pattern (28 bp):
TTATTATTTTCTATTTTTATTTATCTAT
Found at i:39441327 original size:17 final size:15
Alignment explanation
Indices: 39441305--39441350 Score: 74
Period size: 15 Copynumber: 2.9 Consensus size: 15
39441295 ATTTATCTAT
39441305 TTATATTTCTACTATTA
1 TTATATTTCTA-T-TTA
39441322 TTATATTTCTATTTA
1 TTATATTTCTATTTA
39441337 TTATATTTCTATTT
1 TTATATTTCTATTT
39441351 GTATTTATAT
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
15 17 0.59
16 1 0.03
17 11 0.38
ACGTcount: A:0.26, C:0.09, G:0.00, T:0.65
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:39441348 original size:44 final size:44
Alignment explanation
Indices: 39441244--39441373 Score: 133
Period size: 44 Copynumber: 2.8 Consensus size: 44
39441234 ATTGCTATTA
39441244 TTATTATGTTTCTATTGTTATTCTAATACTATTATTATTTATCTAAT
1 TTATTAT-TTTCTATT-TTATT-TAATACTATTATTATTTATCTAAT
*
39441291 TT-TTATTTATCTATTTATATTT-CTACTATTATTATATT-TCT-AT
1 TTATTATTT-TCTATTT-TATTTAATACTATTATTAT-TTATCTAAT
*
39441334 TTATTATATTTCTATTTGTATTTATATACTAATATTATTT
1 TTATTAT-TTTCTATTT-TATTTA-ATACTATTATTATTT
39441374 TCATTATTAG
Statistics
Matches: 72, Mismatches: 4, Indels: 16
0.78 0.04 0.17
Matches are distributed among these distances:
43 4 0.06
44 31 0.43
45 10 0.14
46 25 0.35
47 2 0.03
ACGTcount: A:0.28, C:0.08, G:0.02, T:0.62
Consensus pattern (44 bp):
TTATTATTTTCTATTTTATTTAATACTATTATTATTTATCTAAT
Found at i:39441507 original size:3 final size:3
Alignment explanation
Indices: 39441492--39441617 Score: 87
Period size: 3 Copynumber: 41.3 Consensus size: 3
39441482 TTTAAAACTT
* * * *
39441492 TTA TTA CTA TTA TTA TTA TTA TATA TATA TGTA TCA ATA TCA TTA TT-
1 TTA TTA TTA TTA TTA TTA TTA T-TA T-TA T-TA TTA TTA TTA TTA TTA
* * *
39441539 TTA TT- TTA TT- TTT TTA TATA TTA TTA TTA TCA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
39441583 TTA GTA CTA TTA TTA TTT TCTA TTA TTA TTT TTA T
1 TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA T
39441618 GTTTATTTAT
Statistics
Matches: 96, Mismatches: 21, Indels: 12
0.74 0.16 0.09
Matches are distributed among these distances:
2 6 0.06
3 75 0.78
4 15 0.16
ACGTcount: A:0.31, C:0.06, G:0.02, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:39441613 original size:13 final size:13
Alignment explanation
Indices: 39441589--39441614 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
39441579 ACTATTAGTA
39441589 CTATTATTATTTT
1 CTATTATTATTTT
39441602 CTATTATTATTTT
1 CTATTATTATTTT
39441615 TATGTTTATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.08, G:0.00, T:0.69
Consensus pattern (13 bp):
CTATTATTATTTT
Found at i:39443023 original size:5 final size:5
Alignment explanation
Indices: 39443013--39443052 Score: 50
Period size: 5 Copynumber: 8.4 Consensus size: 5
39443003 GAGATCTATA
39443013 TTTTC TTTTC TTTTC TTTTC TTTT- TTTGT- TTTT- TTTTC TT
1 TTTTC TTTTC TTTTC TTTTC TTTTC TTT-TC TTTTC TTTTC TT
39443053 GTTAAATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
4 8 0.24
5 25 0.76
ACGTcount: A:0.00, C:0.12, G:0.03, T:0.85
Consensus pattern (5 bp):
TTTTC
Found at i:39443044 original size:18 final size:18
Alignment explanation
Indices: 39443018--39443052 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
39443008 CTATATTTTC
39443018 TTTTCTTTTCTTTTCTTT
1 TTTTCTTTTCTTTTCTTT
* *
39443036 TTTTGTTTTTTTTTCTT
1 TTTTCTTTTCTTTTCTT
39443053 GTTAAATATA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.86
Consensus pattern (18 bp):
TTTTCTTTTCTTTTCTTT
Found at i:39444377 original size:17 final size:17
Alignment explanation
Indices: 39444346--39444382 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 17
39444336 TTAAAATAAA
39444346 AATAAAAATCTTAAAAC
1 AATAAAAATCTTAAAAC
*
39444363 AATAATAAATCTAAAAAC
1 AATAA-AAATCTTAAAAC
39444381 AA
1 AA
39444383 AGTTTTAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 5 0.28
18 13 0.72
ACGTcount: A:0.68, C:0.11, G:0.00, T:0.22
Consensus pattern (17 bp):
AATAAAAATCTTAAAAC
Found at i:39444527 original size:7 final size:7
Alignment explanation
Indices: 39444515--39444544 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
39444505 AAATTATAAA
39444515 AATTATT
1 AATTATT
39444522 AATTATT
1 AATTATT
39444529 AATTATT
1 AATTATT
*
39444536 AGTTATT
1 AATTATT
39444543 AA
1 AA
39444545 AAATTCTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (7 bp):
AATTATT
Found at i:39444549 original size:17 final size:17
Alignment explanation
Indices: 39444506--39444549 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 17
39444496 AATTATAAAA
39444506 AATTA-TAAAAATTATT
1 AATTATTAAAAATTATT
39444522 AATTATT---AATTATT
1 AATTATTAAAAATTATT
*
39444536 AGTTATTAAAAATT
1 AATTATTAAAAATT
39444550 CTAAATATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
14 13 0.57
16 5 0.22
17 5 0.22
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (17 bp):
AATTATTAAAAATTATT
Found at i:39446874 original size:21 final size:22
Alignment explanation
Indices: 39446830--39446874 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 22
39446820 AAAGAGGGAG
* *
39446830 AAATTCTAATTTAGAATAGAAA
1 AAATCCTAATGTAGAATAGAAA
*
39446852 AAATCCTAATGTA-AATAGGAA
1 AAATCCTAATGTAGAATAGAAA
39446873 AA
1 AA
39446875 GGGGACTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 9 0.45
22 11 0.55
ACGTcount: A:0.56, C:0.07, G:0.11, T:0.27
Consensus pattern (22 bp):
AAATCCTAATGTAGAATAGAAA
Found at i:39454230 original size:9 final size:9
Alignment explanation
Indices: 39454208--39454251 Score: 63
Period size: 9 Copynumber: 4.9 Consensus size: 9
39454198 TGACATGTAC
39454208 AATTAAAAA
1 AATTAAAAA
39454217 CAATTAAAAA
1 -AATTAAAAA
39454227 AATTAAAAA
1 AATTAAAAA
*
39454236 AA-CAAAAA
1 AATTAAAAA
39454244 AATTAAAA
1 AATTAAAA
39454252 TACAAAAAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
8 7 0.23
9 15 0.48
10 9 0.29
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (9 bp):
AATTAAAAA
Found at i:39454262 original size:17 final size:17
Alignment explanation
Indices: 39454208--39454261 Score: 65
Period size: 16 Copynumber: 3.1 Consensus size: 17
39454198 TGACATGTAC
*
39454208 AATTAAAAACAATTAAAAA
1 AATTAAAAA-AA-CAAAAA
39454227 AATTAAAAAAACAAAAA
1 AATTAAAAAAACAAAAA
*
39454244 AATT-AAAATACAAAAA
1 AATTAAAAAAACAAAAA
39454260 AA
1 AA
39454262 AAACACTGGT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
16 13 0.39
17 9 0.27
18 2 0.06
19 9 0.27
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (17 bp):
AATTAAAAAAACAAAAA
Found at i:39454384 original size:12 final size:12
Alignment explanation
Indices: 39454367--39454424 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
39454357 AGCCGACTCC
39454367 TCTTTCTTCTCT
1 TCTTTCTTCTCT
*
39454379 TCTTTCTTTTCT
1 TCTTTCTTCTCT
39454391 TC-TTC-TC-CT
1 TCTTTCTTCTCT
*
39454400 TCTTTCTTTTCT
1 TCTTTCTTCTCT
39454412 TCTTCTCTT-TCT
1 TCTT-TCTTCTCT
39454424 T
1 T
39454425 TATTTTCCTC
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
9 4 0.10
10 4 0.10
11 4 0.10
12 23 0.59
13 4 0.10
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (12 bp):
TCTTTCTTCTCT
Found at i:39454391 original size:17 final size:17
Alignment explanation
Indices: 39454369--39454425 Score: 62
Period size: 17 Copynumber: 3.1 Consensus size: 17
39454359 CCGACTCCTC
39454369 TTTCTTCTCTTCTTTCTTT
1 TTTCTTCTCTTCTTTC--T
39454388 TCTTCTTCTCCTTCTTTCT
1 T-TTCTTCT-CTTCTTTCT
39454407 TTTCTTCT-TCTCTTTCT
1 TTTCTTCTCT-TCTTTCT
39454424 TT
1 TT
39454426 ATTTTCCTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
16 1 0.03
17 9 0.26
18 7 0.20
19 3 0.09
20 7 0.20
21 8 0.23
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (17 bp):
TTTCTTCTCTTCTTTCT
Found at i:39454401 original size:21 final size:21
Alignment explanation
Indices: 39454370--39454458 Score: 135
Period size: 21 Copynumber: 4.3 Consensus size: 21
39454360 CGACTCCTCT
39454370 TTCTTCT-CTTCTTTCTTTTC
1 TTCTTCTCCTTCTTTCTTTTC
39454390 TTCTTCTCCTTCTTTCTTTTC
1 TTCTTCTCCTTCTTTCTTTTC
* *
39454411 TTCTTCTCTTTCTTTATTTTC
1 TTCTTCTCCTTCTTTCTTTTC
* *
39454432 CTCTTCTCCTTATTTCTTTTC
1 TTCTTCTCCTTCTTTCTTTTC
39454453 TTCTTC
1 TTCTTC
39454459 CCGAAATGGA
Statistics
Matches: 61, Mismatches: 7, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
20 7 0.11
21 54 0.89
ACGTcount: A:0.02, C:0.30, G:0.00, T:0.67
Consensus pattern (21 bp):
TTCTTCTCCTTCTTTCTTTTC
Found at i:39454612 original size:20 final size:20
Alignment explanation
Indices: 39454587--39454636 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
39454577 ACCACCAATC
39454587 CAGCTTTTTTTTTTCAAATT
1 CAGCTTTTTTTTTTCAAATT
**
39454607 CAGC-TTTTTTTTTCAGTTT
1 CAGCTTTTTTTTTTCAAATT
39454626 CAGCTTTTTTT
1 CAGCTTTTTTT
39454637 CAGCTACTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
19 17 0.63
20 10 0.37
ACGTcount: A:0.14, C:0.16, G:0.08, T:0.62
Consensus pattern (20 bp):
CAGCTTTTTTTTTTCAAATT
Found at i:39458994 original size:61 final size:61
Alignment explanation
Indices: 39458942--39459129 Score: 156
Period size: 61 Copynumber: 3.1 Consensus size: 61
39458932 TTATAGTATT
39458942 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
* * * * ** ** *
39459003 ATATATT-TTA-ATTAAAATATATTTA-ATATTAATCATTTCAA-ATT-A-TCTTTTA-TAGTAT
1 ATATATTATGATTTTAGAA-A-ATTCATATAAGAAT-ATTT-AATATTAAGAATTTTATTA-AAT
39459061 C
61 C
* * * * *
39459062 ATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
39459123 ATATATT
1 ATATATT
39459130 TTAATTAAAA
Statistics
Matches: 92, Mismatches: 23, Indels: 24
0.66 0.17 0.17
Matches are distributed among these distances:
58 3 0.03
59 30 0.33
60 20 0.22
61 35 0.38
62 4 0.04
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (61 bp):
ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTATTAAATC
Found at i:39459090 original size:120 final size:120
Alignment explanation
Indices: 39458877--39459151 Score: 426
Period size: 120 Copynumber: 2.3 Consensus size: 120
39458867 AGTATGATGA
* ** * * *
39458877 TAAATTATATATTTTTATTAACTTATATTTAATAATAATTATGTTAAATTATATTTTATAGTATT
1 TAAATTATATATTTTAATTAAAATATATTTAATATTAATCATGTTAAATTATATTTTATAGTATC
* *
39458942 ATATATTATGATTTTAGAAAATTCATATAAGAATATTTAATATTAAGAATTTTAT
66 ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
* *
39458997 TAAATCATATATTTTAATTAAAATATATTTAATATTAATCAT-TTCAAATTATCTTTTATAGTAT
1 TAAATTATATATTTTAATTAAAATATATTTAATATTAATCATGTT-AAATTATATTTTATAGTAT
* *
39459061 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTAT
65 CATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
39459117 TAAATTATATATTTTAATTAAAATATATTTAATAT
1 TAAATTATATATTTTAATTAAAATATATTTAATAT
39459152 ATTTAATAAT
Statistics
Matches: 141, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
119 2 0.01
120 139 0.99
ACGTcount: A:0.43, C:0.03, G:0.05, T:0.49
Consensus pattern (120 bp):
TAAATTATATATTTTAATTAAAATATATTTAATATTAATCATGTTAAATTATATTTTATAGTATC
ATATATTATGATTTGAGAAAATTCATATAAGAATATTGAATATTAAGAATTTTAT
Found at i:39459126 original size:59 final size:59
Alignment explanation
Indices: 39458943--39459126 Score: 130
Period size: 64 Copynumber: 3.1 Consensus size: 59
39458933 TATAGTATTA
* *
39458943 TATATTATGATTTTAGAAAATTCATATAAGAATATTTAA-TATTAAGAATTTTATTAAAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATA-TTAATTATTAAGAATTTTATTAAAT
* * * ** * * *
39459002 CATA-TAT--TTTAATTAAAAT-ATAT-TTAATATTAATCATTTCA-AATTATCTTTTATAGTAT
1 TATATTATGATTTAAGTAAATTCATATAAGAATATTAATTA-TTAAGAATT-T-TATTA-A--AT
* *
39459061 CATATATTATGATTTGAGTAAATTCATATAAGAATATTGATTATTAAGAATTTTATTAAAT
1 --TATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
39459122 TATAT
1 TATAT
39459127 ATTTTAATTA
Statistics
Matches: 90, Mismatches: 20, Indels: 30
0.64 0.14 0.21
Matches are distributed among these distances:
53 4 0.04
54 9 0.10
55 8 0.09
56 12 0.13
57 1 0.01
58 3 0.03
59 10 0.11
61 5 0.06
62 3 0.03
63 1 0.01
64 13 0.14
65 8 0.09
66 13 0.14
ACGTcount: A:0.43, C:0.04, G:0.06, T:0.47
Consensus pattern (59 bp):
TATATTATGATTTAAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAAT
Found at i:39459138 original size:18 final size:17
Alignment explanation
Indices: 39459110--39459144 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
39459100 ATTATTAAGA
*
39459110 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
39459127 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
39459145 TTAATATATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:39459364 original size:44 final size:45
Alignment explanation
Indices: 39459315--39459409 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
39459305 TTACACCTCT
* *
39459315 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
39459359 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
39459404 ATTACA
1 ATTACA
39459410 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:39459409 original size:16 final size:16
Alignment explanation
Indices: 39459390--39459441 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
39459380 GATTTGCTAT
* *
39459390 TACACCTCTATTCCAT
1 TACACCTCTAATCCAA
39459406 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
39459422 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
39459438 TACA
1 TACA
39459442 GCGAACCAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 34 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:39459868 original size:20 final size:20
Alignment explanation
Indices: 39459843--39459910 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
39459833 TTTAAGATAC
39459843 AACAATTATTACTATTTTTT
1 AACAATTATTACTATTTTTT
* *
39459863 AACAATCTTTTA-TAATTTTT
1 AACAAT-TATTACTATTTTTT
* * *
39459883 AATAATT-CTACGATTTTTT
1 AACAATTATTACTATTTTTT
39459902 -ACAA-TATTA
1 AACAATTATTA
39459911 TACAATTTCT
Statistics
Matches: 37, Mismatches: 8, Indels: 8
0.70 0.15 0.15
Matches are distributed among these distances:
17 1 0.03
18 7 0.19
19 7 0.19
20 18 0.49
21 4 0.11
ACGTcount: A:0.37, C:0.10, G:0.01, T:0.51
Consensus pattern (20 bp):
AACAATTATTACTATTTTTT
Found at i:39460981 original size:27 final size:27
Alignment explanation
Indices: 39460933--39460984 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
39460923 CGATATCATA
*
39460933 AATAGTTTGACGAGACATTAAACATGG
1 AATAGTTTGACGAGACACTAAACATGG
* * *
39460960 AATAGTTTGATGGGACGCTAAACAT
1 AATAGTTTGACGAGACACTAAACAT
39460985 CATCTAGTAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (27 bp):
AATAGTTTGACGAGACACTAAACATGG
Found at i:39461767 original size:30 final size:29
Alignment explanation
Indices: 39461733--39461798 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 29
39461723 CCCAACCACC
39461733 CCCAATCC-AGATAAAAATTTATAAACCCAA
1 CCCAATCCGA-ATAAAAATTTAT-AACCCAA
*
39461763 CCCAATTCGAATAAAAATTTATAACCCAA
1 CCCAATCCGAATAAAAATTTATAACCCAA
*
39461792 TCCAATC
1 CCCAATC
39461799 TAAATAATTA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
29 12 0.38
30 19 0.59
31 1 0.03
ACGTcount: A:0.47, C:0.27, G:0.03, T:0.23
Consensus pattern (29 bp):
CCCAATCCGAATAAAAATTTATAACCCAA
Found at i:39461837 original size:18 final size:18
Alignment explanation
Indices: 39461804--39461846 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
39461794 CAATCTAAAT
39461804 AATTAATTTAATTATA-A
1 AATTAATTTAATTATATA
39461821 AATTAATTTATATTATATA
1 AATTAATTTA-ATTATATA
39461840 AA-TAATT
1 AATTAATT
39461847 AATAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
17 10 0.42
18 11 0.46
19 3 0.12
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (18 bp):
AATTAATTTAATTATATA
Found at i:39461868 original size:16 final size:16
Alignment explanation
Indices: 39461843--39461876 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
39461833 TTATATAAAT
*
39461843 AATTAATAAAAATTAA
1 AATTAATAAAAACTAA
*
39461859 AATTATTAAAAACTAA
1 AATTAATAAAAACTAA
39461875 AA
1 AA
39461877 CTAACTCACC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.68, C:0.03, G:0.00, T:0.29
Consensus pattern (16 bp):
AATTAATAAAAACTAA
Found at i:39464083 original size:54 final size:54
Alignment explanation
Indices: 39464024--39464132 Score: 209
Period size: 54 Copynumber: 2.0 Consensus size: 54
39464014 TTAGTGAAAC
*
39464024 TGTGAAATTGGTTTGAAATTAAGATGATTCATGTTATTATATGAATTAAATGAG
1 TGTGAAATTGGTTTGAAATTAAGATGATTCATGCTATTATATGAATTAAATGAG
39464078 TGTGAAATTGGTTTGAAATTAAGATGATTCATGCTATTATATGAATTAAATGAG
1 TGTGAAATTGGTTTGAAATTAAGATGATTCATGCTATTATATGAATTAAATGAG
39464132 T
1 T
39464133 ATTTGATTAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 54 1.00
ACGTcount: A:0.37, C:0.03, G:0.20, T:0.40
Consensus pattern (54 bp):
TGTGAAATTGGTTTGAAATTAAGATGATTCATGCTATTATATGAATTAAATGAG
Found at i:39464124 original size:27 final size:26
Alignment explanation
Indices: 39464040--39464130 Score: 76
Period size: 27 Copynumber: 3.4 Consensus size: 26
39464030 ATTGGTTTGA
*
39464040 AATTAAGATGATTCATGTTATTATATG
1 AATTAA-ATGATTCATGATATTATATG
* * * * *
39464067 AATTAAATGAGT-GTGAAATTGGTTTG
1 AATTAAATGATTCATGATATT-ATATG
*
39464093 AAATTAAGATGATTCATGCTATTATATG
1 -AATTAA-ATGATTCATGATATTATATG
39464121 AATTAAATGA
1 AATTAAATGA
39464131 GTATTTGATT
Statistics
Matches: 48, Mismatches: 12, Indels: 9
0.70 0.17 0.13
Matches are distributed among these distances:
25 5 0.10
26 12 0.25
27 18 0.38
28 8 0.17
29 5 0.10
ACGTcount: A:0.40, C:0.03, G:0.18, T:0.40
Consensus pattern (26 bp):
AATTAAATGATTCATGATATTATATG
Found at i:39464728 original size:26 final size:30
Alignment explanation
Indices: 39464672--39464728 Score: 68
Period size: 30 Copynumber: 2.0 Consensus size: 30
39464662 TAAATTGATT
**
39464672 AAATGTTGATTGATTATGTGAATGACACTG
1 AAATGTTGATTGATTATGTGAACAACACTG
39464702 AAATGTTGATT-A-TATGT-AACAAC-CTG
1 AAATGTTGATTGATTATGTGAACAACACTG
39464728 A
1 A
39464729 TTTTGGGCTT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
26 4 0.16
27 4 0.16
28 5 0.20
29 1 0.04
30 11 0.44
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (30 bp):
AAATGTTGATTGATTATGTGAACAACACTG
Found at i:39464845 original size:38 final size:38
Alignment explanation
Indices: 39464792--39464864 Score: 137
Period size: 38 Copynumber: 1.9 Consensus size: 38
39464782 AAGAATTTTA
39464792 TTATTATTTTAGAGTTATAGCATGTTTATATTAGTATT
1 TTATTATTTTAGAGTTATAGCATGTTTATATTAGTATT
*
39464830 TTATTATTTTGGAGTTATAGCATGTTTATATTAGT
1 TTATTATTTTAGAGTTATAGCATGTTTATATTAGT
39464865 GCATGAAAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.27, C:0.03, G:0.15, T:0.55
Consensus pattern (38 bp):
TTATTATTTTAGAGTTATAGCATGTTTATATTAGTATT
Found at i:39464877 original size:38 final size:38
Alignment explanation
Indices: 39464797--39464879 Score: 103
Period size: 38 Copynumber: 2.2 Consensus size: 38
39464787 TTTTATTATT
* ** * **
39464797 ATTTTAGAGTTATAGCATGTTTATATTAGTATTTTATT
1 ATTTTGGAGTTATAGCATGTTTATATTAGTACATGAAA
*
39464835 ATTTTGGAGTTATAGCATGTTTATATTAGTGCATGAAA
1 ATTTTGGAGTTATAGCATGTTTATATTAGTACATGAAA
39464873 ATTTTGG
1 ATTTTGG
39464880 TGAAGTAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.29, C:0.04, G:0.18, T:0.49
Consensus pattern (38 bp):
ATTTTGGAGTTATAGCATGTTTATATTAGTACATGAAA
Found at i:39466076 original size:48 final size:48
Alignment explanation
Indices: 39465969--39466134 Score: 169
Period size: 48 Copynumber: 3.5 Consensus size: 48
39465959 TTTGTGTGCT
* * * *
39465969 AGTGTAAGACATGTCTGGGACATGCATCAGCCAC-AG-TA-TGAGAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTCA-AGCC
*
39466015 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTTAAGCC
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTCAAGCC
* * ** * * *
39466063 AGTTTAAGACATGTTTACTACATGCATCGGCCTCGCGATATACAAGCT
1 AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTCAAGCC
*
39466111 AGTGTAAGACCTGTCT-GAGACATG
1 AGTGTAAGACATGTCTAG-GACATG
39466135 GCGTCAGCTT
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
46 31 0.31
47 2 0.02
48 64 0.65
49 2 0.02
ACGTcount: A:0.30, C:0.21, G:0.25, T:0.25
Consensus pattern (48 bp):
AGTGTAAGACATGTCTAGGACATGCATCGGCCTCGAGATATTCAAGCC
Found at i:39466216 original size:49 final size:49
Alignment explanation
Indices: 39466154--39466279 Score: 166
Period size: 49 Copynumber: 2.6 Consensus size: 49
39466144 TGTAGTTTAT
*
39466154 CAGTGTAAGACCTGTCTGGGACATGGCATCGACAC-CTA-TAGATGAGAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGAC-CTC-ACTAGATGAAAGC
* * *
39466203 CAGTGTAAAACCTGTCTGGGACATGGCATCGGCCTCACTATATGAAAGC
1 CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCACTAGATGAAAGC
*
39466252 CAGTGTAAGACCATGTCTAGGACATGGC
1 CAGTGTAAGACC-TGTCTGGGACATGGC
39466280 GTTGGTATCT
Statistics
Matches: 68, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
48 2 0.03
49 52 0.76
50 14 0.21
ACGTcount: A:0.29, C:0.23, G:0.27, T:0.21
Consensus pattern (49 bp):
CAGTGTAAGACCTGTCTGGGACATGGCATCGACCTCACTAGATGAAAGC
Found at i:39468920 original size:12 final size:12
Alignment explanation
Indices: 39468903--39468931 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
39468893 AGTGTATCCA
39468903 AGGGTGAAAGTG
1 AGGGTGAAAGTG
39468915 AGGGTGAAAGTG
1 AGGGTGAAAGTG
39468927 AGGGT
1 AGGGT
39468932 TCAAGAAGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.31, C:0.00, G:0.52, T:0.17
Consensus pattern (12 bp):
AGGGTGAAAGTG
Found at i:39475765 original size:15 final size:15
Alignment explanation
Indices: 39475730--39475788 Score: 66
Period size: 15 Copynumber: 4.0 Consensus size: 15
39475720 AAGAGTGAGA
**
39475730 AGTAAAATTTTAGAA
1 AGTAAAATTTTAGGG
39475745 AGTAAAATTTTAGGG
1 AGTAAAATTTTAGGG
* *
39475760 A-TTAAATTTAAGGG
1 AGTAAAATTTTAGGG
*
39475774 GGTAAAATTTTAGGG
1 AGTAAAATTTTAGGG
39475789 GAAAATAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
14 11 0.31
15 25 0.69
ACGTcount: A:0.42, C:0.00, G:0.24, T:0.34
Consensus pattern (15 bp):
AGTAAAATTTTAGGG
Found at i:39482137 original size:46 final size:45
Alignment explanation
Indices: 39482070--39482244 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
39482060 TGTAACCCGC
* * *
39482070 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTC-GGCATTCGCAT
* *
39482116 CCATAGGTGAACTCGGACTCAACTCAACGAGTTCGG-ATGC-CTAGTT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGC-A--T
* * *
39482162 ACATTTCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCA--TAAGTGAACTCGGACTCAACTCAACGAGTTCGG-CATTCGCAT
39482209 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGG
39482245 AAGCCCAAAT
Statistics
Matches: 107, Mismatches: 13, Indels: 18
0.78 0.09 0.13
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 4 0.04
46 62 0.58
47 31 0.29
48 1 0.01
49 4 0.04
50 1 0.01
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (45 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGCATTCGCAT
Found at i:39482236 original size:93 final size:93
Alignment explanation
Indices: 39482077--39482245 Score: 295
Period size: 93 Copynumber: 1.8 Consensus size: 93
39482067 CGCCCATAAG
* *
39482077 CGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCATAGGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
39482142 ACGAGTTCGGATGCCTAGTTACATTTCA
66 ACGAGTTCGGATGCCTAGTTACATTTCA
*
39482170 CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
1 CGAACTCGGACTCAACTCAACGAGCTCAGG-CATTCGCATCCATAAGTGAACTCGGACTCAACTC
39482234 AACGAGTTCGGA
65 AACGAGTTCGGA
39482246 AGCCCAAATA
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 70 0.97
ACGTcount: A:0.28, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCAGGCATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATTTCA
Found at i:39492583 original size:19 final size:19
Alignment explanation
Indices: 39492545--39492602 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
39492535 TCTTTATATA
* *
39492545 TTATAAAT-TTTGGAATTT
1 TTATAAATATTTTGTATTT
39492563 TTATAAATATTTTGTATTT
1 TTATAAATATTTTGTATTT
39492582 TTGA-AAATTATTTT-TATTT
1 TT-ATAAA-TATTTTGTATTT
39492601 TT
1 TT
39492603 TGTAATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
18 8 0.23
19 20 0.57
20 7 0.20
ACGTcount: A:0.31, C:0.00, G:0.07, T:0.62
Consensus pattern (19 bp):
TTATAAATATTTTGTATTT
Found at i:39492583 original size:20 final size:19
Alignment explanation
Indices: 39492560--39492603 Score: 54
Period size: 20 Copynumber: 2.3 Consensus size: 19
39492550 AATTTTGGAA
39492560 TTTTTATAAA-TATTTTGTAT
1 TTTTTA-AAATTATTTT-TAT
*
39492580 TTTTGAAAATTATTTTTAT
1 TTTTTAAAATTATTTTTAT
39492599 TTTTT
1 TTTTT
39492604 GTAATTTATG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 10 0.48
20 11 0.52
ACGTcount: A:0.27, C:0.00, G:0.05, T:0.68
Consensus pattern (19 bp):
TTTTTAAAATTATTTTTAT
Found at i:39492609 original size:19 final size:19
Alignment explanation
Indices: 39492559--39492609 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
39492549 AAATTTTGGA
* *
39492559 ATTTTTATAAATATTTTGT
1 ATTTTTGTAATTATTTTGT
*
39492578 ATTTTTGAAAATTATTTT-T
1 ATTTTTG-TAATTATTTTGT
39492597 ATTTTTTGTAATT
1 A-TTTTTGTAATT
39492610 TATGTTGAGA
Statistics
Matches: 26, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
19 12 0.46
20 14 0.54
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (19 bp):
ATTTTTGTAATTATTTTGT
Found at i:39496722 original size:18 final size:18
Alignment explanation
Indices: 39496686--39496731 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
39496676 ATTCGAAAAA
39496686 AATTCGAGTTAACTTAAAT
1 AATTCGA-TTAACTTAAAT
39496705 AATTCGATTAA-TTCAAAT
1 AATTCGATTAACTT-AAAT
*
39496723 AACTCGATT
1 AATTCGATT
39496732 CGTTTAACTC
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
17 2 0.08
18 16 0.64
19 7 0.28
ACGTcount: A:0.41, C:0.13, G:0.09, T:0.37
Consensus pattern (18 bp):
AATTCGATTAACTTAAAT
Found at i:39503724 original size:19 final size:18
Alignment explanation
Indices: 39503694--39503743 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
39503684 ATATGAATTG
*
39503694 AAAAATAAATATTCACATAT
1 AAAAAT-AATATTCAC-TAA
* *
39503714 AAAAATTATATTTACTAA
1 AAAAATAATATTCACTAA
39503732 AAAAATAATATT
1 AAAAATAATATT
39503744 TACAATAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 13 0.50
19 7 0.27
20 6 0.23
ACGTcount: A:0.60, C:0.06, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATAATATTCACTAA
Found at i:39504194 original size:16 final size:16
Alignment explanation
Indices: 39504170--39504200 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
39504160 ATATATCGAT
39504170 AAATATAAAAAAATTA
1 AAATATAAAAAAATTA
*
39504186 AAATTTAAAAAAATT
1 AAATATAAAAAAATT
39504201 CAACCCAAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (16 bp):
AAATATAAAAAAATTA
Found at i:39504368 original size:30 final size:32
Alignment explanation
Indices: 39504332--39504401 Score: 85
Period size: 30 Copynumber: 2.3 Consensus size: 32
39504322 GTTTCATTTC
*
39504332 AATCACTGAAC-TT-TCGAAAAA-TTACAAAAT
1 AATCACTGAACGTTAT-GAAAAAGTGACAAAAT
39504362 AATCACT-AACGTTATGAAAAAGTGACAAAAT
1 AATCACTGAACGTTATGAAAAAGTGACAAAAT
*
39504393 AGTCACTGA
1 AATCACTGA
39504402 TTAGCATGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
29 3 0.09
30 15 0.44
31 15 0.44
32 1 0.03
ACGTcount: A:0.49, C:0.16, G:0.11, T:0.24
Consensus pattern (32 bp):
AATCACTGAACGTTATGAAAAAGTGACAAAAT
Found at i:39504439 original size:21 final size:21
Alignment explanation
Indices: 39504413--39504453 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
39504403 TAGCATGAGT
*
39504413 GTTGATGTGGCAAGTTAACTA
1 GTTGATGTGACAAGTTAACTA
*
39504434 GTTGATGTGACTAGTTAACT
1 GTTGATGTGACAAGTTAACT
39504454 TGTCACTTTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.27, C:0.10, G:0.27, T:0.37
Consensus pattern (21 bp):
GTTGATGTGACAAGTTAACTA
Found at i:39506066 original size:11 final size:11
Alignment explanation
Indices: 39506052--39506085 Score: 50
Period size: 11 Copynumber: 3.1 Consensus size: 11
39506042 TTTCTCTTAT
*
39506052 TCTTCTTTTTC
1 TCTTCTTCTTC
*
39506063 TCTTCTTCTCC
1 TCTTCTTCTTC
39506074 TCTTCTTCTTC
1 TCTTCTTCTTC
39506085 T
1 T
39506086 ACAGTCCAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (11 bp):
TCTTCTTCTTC
Found at i:39514176 original size:21 final size:22
Alignment explanation
Indices: 39514152--39514206 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
39514142 TAAAGTAACT
39514152 ATTTATTATATATTACATA-AA
1 ATTTATTATATATTACATATAA
* *
39514173 ATTTCATTTATATTTTACATATAT
1 ATTT-A-TTATATATTACATATAA
39514197 ATTT-TTATAT
1 ATTTATTATAT
39514207 GCATGCGCCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
21 10 0.34
22 1 0.03
23 13 0.45
24 5 0.17
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.56
Consensus pattern (22 bp):
ATTTATTATATATTACATATAA
Found at i:39520149 original size:3 final size:3
Alignment explanation
Indices: 39520141--39520188 Score: 78
Period size: 3 Copynumber: 16.0 Consensus size: 3
39520131 CAAGGTGATT
* *
39520141 TTC TTC TTC TTC TTC TTC GTC TTC TTC TTC TTC TTC ATC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC
39520189 CACCTCCTCC
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.02, C:0.33, G:0.02, T:0.62
Consensus pattern (3 bp):
TTC
Found at i:39524631 original size:12 final size:12
Alignment explanation
Indices: 39524614--39524639 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39524604 GCTAACGAAA
39524614 TAACCAGACAGT
1 TAACCAGACAGT
39524626 TAACCAGACAGT
1 TAACCAGACAGT
39524638 TA
1 TA
39524640 CACATGATGT
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:0.42, C:0.23, G:0.15, T:0.19
Consensus pattern (12 bp):
TAACCAGACAGT
Found at i:39532052 original size:18 final size:17
Alignment explanation
Indices: 39532012--39532045 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
39532002 ATGTGTACAA
*
39532012 ATAATATATATATGTAT
1 ATAATATATATATGAAT
39532029 ATAATA-ATATATGAAT
1 ATAATATATATATGAAT
39532045 A
1 A
39532046 CTTAATATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.53, C:0.00, G:0.06, T:0.41
Consensus pattern (17 bp):
ATAATATATATATGAAT
Found at i:39533124 original size:40 final size:40
Alignment explanation
Indices: 39533002--39533139 Score: 124
Period size: 40 Copynumber: 3.5 Consensus size: 40
39532992 ACCTCGAGTC
*
39533002 GATGAGACACTGGGTGTCAATTTATTACTTC-AGATATAT-T
1 GATGAGACACTGAGTGTCAATTTATTACTTCGA-AT-TATCT
* * ** * *
39533042 CGATGAGGCACTGAGTGCCAA---ATTACTTCGGTTTAGCC
1 -GATGAGACACTGAGTGTCAATTTATTACTTCGAATTATCT
*
39533080 GATGAGACACTGAATGTCAATTTATTACTTCGAATTATCT
1 GATGAGACACTGAGTGTCAATTTATTACTTCGAATTATCT
* *
39533120 GATGAGGCACTGGGTGTCAA
1 GATGAGACACTGAGTGTCAA
39533140 ACTGGTGTGT
Statistics
Matches: 75, Mismatches: 17, Indels: 11
0.73 0.17 0.11
Matches are distributed among these distances:
37 19 0.25
38 9 0.12
40 30 0.40
41 17 0.23
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (40 bp):
GATGAGACACTGAGTGTCAATTTATTACTTCGAATTATCT
Found at i:39536723 original size:43 final size:43
Alignment explanation
Indices: 39536673--39536759 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
39536663 TCATATTTTA
39536673 TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
* * *
39536716 TTTCTCATCTCATATTCATTTCTCATCTTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
39536759 T
1 T
39536760 AATCATATAA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.24, C:0.23, G:0.02, T:0.51
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTATCATATTTGCCATTTCAATAT
Found at i:39547077 original size:19 final size:20
Alignment explanation
Indices: 39547040--39547078 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
39547030 TTAACAACCA
39547040 TAAAATAAAAATGATCAAAT
1 TAAAATAAAAATGATCAAAT
*
39547060 TAAAATATAAAT-ATCAAAT
1 TAAAATAAAAATGATCAAAT
39547079 ATGTAACTTA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 7 0.39
20 11 0.61
ACGTcount: A:0.64, C:0.05, G:0.03, T:0.28
Consensus pattern (20 bp):
TAAAATAAAAATGATCAAAT
Found at i:39551548 original size:19 final size:19
Alignment explanation
Indices: 39551524--39551560 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
39551514 TTTTATTAAT
*
39551524 ATATTTATAATTATAATAA
1 ATATTTATAATTAAAATAA
*
39551543 ATATTTATTATTAAAATA
1 ATATTTATAATTAAAATA
39551561 TTAATATTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATATTTATAATTAAAATAA
Found at i:39554956 original size:7 final size:7
Alignment explanation
Indices: 39554944--39555016 Score: 67
Period size: 7 Copynumber: 10.4 Consensus size: 7
39554934 AAAATATTTT
39554944 AGAATTG
1 AGAATTG
39554951 AGAATTG
1 AGAATTG
39554958 AGAATTG
1 AGAATTG
* *
39554965 AAAATTA
1 AGAATTG
*
39554972 AGAATTA
1 AGAATTG
*
39554979 AGGATT-
1 AGAATTG
*
39554985 ACGAATTT
1 A-GAATTG
39554993 AGAATTG
1 AGAATTG
*
39555000 AGGATTG
1 AGAATTG
*
39555007 AGTATTG
1 AGAATTG
39555014 AGA
1 AGA
39555017 TAAAAAGAAT
Statistics
Matches: 55, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
6 1 0.02
7 53 0.96
8 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.25, T:0.30
Consensus pattern (7 bp):
AGAATTG
Done.