Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D05
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: 63323194
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1953226 characters in sequence are not A, C, G, or T
File 101 of 199
Found at i:34461976 original size:7 final size:7
Alignment explanation
Indices: 34461966--34462007 Score: 52
Period size: 7 Copynumber: 6.0 Consensus size: 7
34461956 AAAGATGTGA
34461966 AAAAATG
1 AAAAATG
34461973 -AAAATG
1 AAAAATG
34461979 AAAAATG
1 AAAAATG
34461986 AAAAATGG
1 AAAAAT-G
34461994 AAAAA-G
1 AAAAATG
34462000 TAAAAATG
1 -AAAAATG
34462008 GAAAGGCTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
6 7 0.23
7 17 0.55
8 7 0.23
ACGTcount: A:0.69, C:0.00, G:0.17, T:0.14
Consensus pattern (7 bp):
AAAAATG
Found at i:34461996 original size:15 final size:15
Alignment explanation
Indices: 34461966--34462011 Score: 62
Period size: 15 Copynumber: 3.2 Consensus size: 15
34461956 AAAGATGTGA
34461966 AAAAATG-AAAAT-G
1 AAAAATGAAAAATGG
34461979 AAAAATGAAAAATGG
1 AAAAATGAAAAATGG
34461994 AAAAA-GTAAAAATGG
1 AAAAATG-AAAAATGG
34462009 AAA
1 AAA
34462012 GGCTAAGGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
13 7 0.23
14 6 0.20
15 17 0.57
ACGTcount: A:0.70, C:0.00, G:0.17, T:0.13
Consensus pattern (15 bp):
AAAAATGAAAAATGG
Found at i:34463494 original size:99 final size:99
Alignment explanation
Indices: 34463317--34463850 Score: 709
Period size: 99 Copynumber: 5.4 Consensus size: 99
34463307 ACGTTGTAGC
* *
34463317 GGAGCAGATTGAAGTCACAACGGC-GAATCTGGTTT-CCTCGACAACACAATTAAAAGATTGAAG
1 GGAGCAGATTGAAGTCACAACGGCAG-ATCTGGTTTCCCT-GACAGCGCAATTAAAAGATTGAAG
* * *
34463380 CCACAATGGCAGATCTTACTTCCCTGGTGATGCAGT
64 CCACAACGGCGGATCTTACTTCCCTGGCGATGCAGT
* *
34463416 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCTGACAGTGCAATTAAAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAGCGCAATTAAAAGATTGAAGCC
* *
34463481 ACAACGGTGGATCTTACTTCCTTGGCGATGCAGT
66 ACAACGGCGGATCTTACTTCCCTGGCGATGCAGT
*
34463515 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTT-CCTCGACAGTGCAATTAAAAAGATTGAAG
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCT-GACAGCGCAATT-AAAAGATTGAAG
* *
34463579 CCATAACAGCGGATCTTACTTCCCTGGCGATGCAGT
64 CCACAACGGCGGATCTTACTTCCCTGGCGATGCAGT
* * *
34463615 GGAGCAGATTGAAGTCACAACGACAGATCTAGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAGCGCAATTAAAAGATTGAAGCC
* * * *
34463680 ACAACGGCAGATCTTACTTCTCTGGCGGTGCAAT
66 ACAACGGCGGATCTTACTTCCCTGGCGATGCAGT
* *
34463714 GGAGCAGATTGAAGTCACAGCAGCAGATCTGGTTTCCCTGACAGCGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAGCGCAATT-AAAAGATTGAAGC
* * *
34463779 CACAACGGCGGATCTTACCTCCTTAGC-AGTGCAGT
65 CACAACGGCGGATCTTACTTCCCTGGCGA-TGCAGT
* * * * *
34463814 TGAACAGATTGAAG-CTACGACGGCGGATCTTGTTTCC
1 GGAGCAGATTGAAGTC-ACAACGGCAGATCTGGTTTCC
34463851 TCGACATTGT
Statistics
Matches: 385, Mismatches: 42, Indels: 15
0.87 0.10 0.03
Matches are distributed among these distances:
98 3 0.01
99 220 0.57
100 160 0.42
101 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.25, T:0.23
Consensus pattern (99 bp):
GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAGCGCAATTAAAAGATTGAAGCC
ACAACGGCGGATCTTACTTCCCTGGCGATGCAGT
Found at i:34463666 original size:199 final size:199
Alignment explanation
Indices: 34463317--34463827 Score: 735
Period size: 199 Copynumber: 2.6 Consensus size: 199
34463307 ACGTTGTAGC
* *
34463317 GGAGCAGATTGAAGTCACAACGGC-GAATCTGGTTTCCTCGACAACACAATT-AAAAGATTGAAG
1 GGAGCAGATTGAAGTCACAACGGCAG-ATCTGGTTTCCTCGACAGCGCAATTAAAAAGATTGAAG
* * * * *
34463380 CCACAATGGCAGATCTTACTTCCCTGGTGATGCAGTGGAGCAGATTGAAGTCACAACGGCGGATC
65 CCACAACGGCGGATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTGAAGTCACAACGACAGATC
* * * **
34463445 TGGTTTCCCTGACAGTGCAATTAAAAGATTGAAGCCACAACGGTGGATCTTACTTC-CTTGGCGA
130 TAGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCCACAACGGCAGATCTTACTTCTC-TGGCGA
*
34463509 TGCAGT
194 TGCAAT
*
34463515 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCTCGACAGTGCAATTAAAAAGATTGAAGC
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCTCGACAGCGCAATTAAAAAGATTGAAGC
* *
34463580 CATAACAGCGGATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTGAAGTCACAACGACAGATCT
66 CACAACGGCGGATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTGAAGTCACAACGACAGATCT
*
34463645 AGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCCACAACGGCAGATCTTACTTCTCTGGCGGTG
131 AGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCCACAACGGCAGATCTTACTTCTCTGGCGATG
34463710 CAAT
196 CAAT
* *
34463714 GGAGCAGATTGAAGTCACAGCAGCAGATCTGGTTTCC-CTGACAGCGCAATTAAAAAGATTGAAG
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCTC-GACAGCGCAATTAAAAAGATTGAAG
* * * * *
34463778 CCACAACGGCGGATCTTACCTCCTTAGC-AGTGCAGTTGAACAGATTGAAG
65 CCACAACGGCGGATCTTACTTCCCTGGCGA-TGCAGTGGAGCAGATTGAAG
34463828 CTACGACGGC
Statistics
Matches: 281, Mismatches: 27, Indels: 9
0.89 0.09 0.03
Matches are distributed among these distances:
198 48 0.17
199 232 0.83
200 1 0.00
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (199 bp):
GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCTCGACAGCGCAATTAAAAAGATTGAAGC
CACAACGGCGGATCTTACTTCCCTGGCGATGCAGTGGAGCAGATTGAAGTCACAACGACAGATCT
AGTTTCCCCGACAGCGCAATTAAAAGATTGAAGCCACAACGGCAGATCTTACTTCTCTGGCGATG
CAAT
Found at i:34463763 original size:50 final size:50
Alignment explanation
Indices: 34463317--34463793 Score: 270
Period size: 50 Copynumber: 9.6 Consensus size: 50
34463307 ACGTTGTAGC
***
34463317 GGAGCAGATTGAAGTCACAACGGC-GAATCTGGTTT-CCTCGACAACACAAT
1 GGAGCAGATTGAAGTCACAACGGCAG-ATCTGGTTTCCCT-GACAGTGCAAT
* ** * * *** ** *
34463367 -TAAAAGATTGAAGCCACAATGGCAGATCTTACTTCCCTG-GTGATGCAGT
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAG-TGCAAT
*
34463416 GGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTCCCTGACAGTGCAAT
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAGTGCAAT
* ** * ** *** * * *
34463466 -TAAAAGATTGAAGCCACAACGGTGGATCTTACTTCCTTGGC-GATGCAGT
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAG-TGCAAT
34463515 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTT-CCTCGACAGTGCAAT
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCT-GACAGTGCAAT
** ** * * * * *** * *
34463565 TAAAAAGATTGAAGCCATAACAGCGGATCTTACTTCCCTGGC-GATGCAGT
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAG-TGCAAT
* * * *
34463615 GGAGCAGATTGAAGTCACAACGACAGATCTAGTTTCCCCGACAGCGCAAT
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAGTGCAAT
* ** * *** * * *
34463665 -TAAAAGATTGAAGCCACAACGGCAGATCTTACTTCTCTGGCGGTGCAAT
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAGTGCAAT
* * *
34463714 GGAGCAGATTGAAGTCACAGCAGCAGATCTGGTTTCCCTGACAGCGCAAT
1 GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAGTGCAAT
** ** * *
34463764 TAAAAAGATTGAAGCCACAACGGCGGATCT
1 GGAGCAGATTGAAGTCACAACGGCAGATCT
34463794 TACCTCCTTA
Statistics
Matches: 302, Mismatches: 112, Indels: 26
0.69 0.25 0.06
Matches are distributed among these distances:
48 1 0.00
49 103 0.34
50 192 0.64
51 6 0.02
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.22
Consensus pattern (50 bp):
GGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCCCTGACAGTGCAAT
Found at i:34463823 original size:50 final size:50
Alignment explanation
Indices: 34463363--34463844 Score: 175
Period size: 50 Copynumber: 9.7 Consensus size: 50
34463353 CTCGACAACA
* * * * **
34463363 CAATT-AAAAGATTGAAGCCACAATGGCAGATCTTACTTCCCT-GGTGATG
1 CAATTGAACAGATTGAAGCCACAACGGCAGATCTTACCTCCTTAGCAG-TG
* * * * * ** *
34463412 CAGTGGAGCAGATTGAAGTCACAACGGCGGATCTGGTTTC-CCTGA-CAGTG
1 CAATTGAACAGATTGAAGCCACAACGGCAGATCT--TACCTCCTTAGCAGTG
* ** * *
34463462 CAATT-AAAAGATTGAAGCCACAACGGTGGATCTTACTTCCTTGGC-GATG
1 CAATTGAACAGATTGAAGCCACAACGGCAGATCTTACCTCCTTAGCAG-TG
* * * * **** *
34463511 CAGTGGAGCAGATTGAAGTCACAACGGCAGATCTGGTTTCC-TCGACAGTG
1 CAATTGAACAGATTGAAGCCACAACGGCAGATCTTACCTCCTTAG-CAGTG
* * * * * * * *
34463561 CAATTAAAAAGATTGAAGCCATAACAGCGGATCTTACTTCCCTGGC-GATG
1 CAATTGAACAGATTGAAGCCACAACGGCAGATCTTACCTCCTTAGCAG-TG
* * * * * * * *
34463611 CAGTGGAGCAGATTGAAGTCACAACGACAGATCTAGTTTCC-CC-GA-CAGCG
1 CAATTGAACAGATTGAAGCCACAACGGCAGATC---TTACCTCCTTAGCAGTG
* * * *
34463661 CAATT-AAAAGATTGAAGCCACAACGGCAGATCTTA-CTTCTCTGGCGGTG
1 CAATTGAACAGATTGAAGCCACAACGGCAGATCTTACCTCCT-TAGCAGTG
* * * * * ** * *
34463710 CAATGGAGCAGATTGAAGTCACAGCAGCAGATCTGGTTTC-CCTGA-CAGCG
1 CAATTGAACAGATTGAAGCCACAACGGCAGATCT--TACCTCCTTAGCAGTG
* * *
34463760 CAATTAAAAAGATTGAAGCCACAACGGCGGATCTTACCTCCTTAGCAGTG
1 CAATTGAACAGATTGAAGCCACAACGGCAGATCTTACCTCCTTAGCAGTG
* * * *
34463810 CAGTTGAACAGATTGAAGCTACGACGGCGGATCTT
1 CAATTGAACAGATTGAAGCCACAACGGCAGATCTT
34463845 GTTTCCTCGA
Statistics
Matches: 302, Mismatches: 105, Indels: 51
0.66 0.23 0.11
Matches are distributed among these distances:
45 1 0.00
46 3 0.01
47 1 0.00
48 6 0.02
49 70 0.23
50 204 0.68
51 7 0.02
52 6 0.02
53 4 0.01
ACGTcount: A:0.30, C:0.22, G:0.25, T:0.23
Consensus pattern (50 bp):
CAATTGAACAGATTGAAGCCACAACGGCAGATCTTACCTCCTTAGCAGTG
Found at i:34465241 original size:25 final size:25
Alignment explanation
Indices: 34465193--34465258 Score: 80
Period size: 25 Copynumber: 2.6 Consensus size: 25
34465183 ATTTATGCGC
*
34465193 ATATGTATCTTATTATATATATATTTT
1 ATAT-TAT-TTATTATATACATATTTT
34465220 AT-TTATTTATATATATACATATTTT
1 ATATTATTTAT-TATATACATATTTT
*
34465245 ATATTTTTTATTAT
1 ATATTATTTATTAT
34465259 TATATTTATG
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
24 4 0.11
25 21 0.60
26 8 0.23
27 2 0.06
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (25 bp):
ATATTATTTATTATATACATATTTT
Found at i:34465254 original size:34 final size:32
Alignment explanation
Indices: 34465210--34465273 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 32
34465200 TCTTATTATA
34465210 TATATATTTTATTTATTTATATATATACATATTT
1 TATATATTTTA-TTA-TTATATATATACATATTT
* * *
34465244 TATATTTTTTATTATTATATTTATGCATAT
1 TATATATTTTATTATTATATATATACATAT
34465274 ACACGCATAT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
32 14 0.52
33 3 0.11
34 10 0.37
ACGTcount: A:0.33, C:0.03, G:0.02, T:0.62
Consensus pattern (32 bp):
TATATATTTTATTATTATATATATACATATTT
Found at i:34467388 original size:16 final size:16
Alignment explanation
Indices: 34467367--34467401 Score: 61
Period size: 16 Copynumber: 2.2 Consensus size: 16
34467357 GCACTTTGAC
*
34467367 TAAAATTAATAGGTTG
1 TAAAATTAATAGGCTG
34467383 TAAAATTAATAGGCTG
1 TAAAATTAATAGGCTG
34467399 TAA
1 TAA
34467402 GACTTGAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.46, C:0.03, G:0.17, T:0.34
Consensus pattern (16 bp):
TAAAATTAATAGGCTG
Found at i:34470881 original size:17 final size:18
Alignment explanation
Indices: 34470847--34470892 Score: 64
Period size: 17 Copynumber: 2.8 Consensus size: 18
34470837 CCGTTATGTC
34470847 CGCGACCGCGA-C--AAA
1 CGCGACCGCGACCGAAAA
34470862 CGCGA-CGCGACCGAAAA
1 CGCGACCGCGACCGAAAA
34470879 CGCGACCGCGACCG
1 CGCGACCGCGACCG
34470893 CAATTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
17 8 0.30
18 8 0.30
ACGTcount: A:0.28, C:0.41, G:0.30, T:0.00
Consensus pattern (18 bp):
CGCGACCGCGACCGAAAA
Found at i:34474863 original size:24 final size:23
Alignment explanation
Indices: 34474801--34474865 Score: 60
Period size: 29 Copynumber: 2.6 Consensus size: 23
34474791 TTAAAACGTT
34474801 TTCTATA-AGTCTTTTTTGTCTG
1 TTCTATAGAGTCTTTTTTGTCTG
34474823 TTCTGTACTTTAAGAGTCTTTTTTGTCTG
1 TTC--TA---T-AGAGTCTTTTTTGTCTG
34474852 TTCTATAGGAGTCT
1 TTCTATA-GAGTCT
34474866 ATAATACTTT
Statistics
Matches: 35, Mismatches: 0, Indels: 14
0.71 0.00 0.29
Matches are distributed among these distances:
22 3 0.09
23 1 0.03
24 9 0.26
27 3 0.09
28 1 0.03
29 18 0.51
ACGTcount: A:0.15, C:0.14, G:0.17, T:0.54
Consensus pattern (23 bp):
TTCTATAGAGTCTTTTTTGTCTG
Found at i:34478684 original size:29 final size:29
Alignment explanation
Indices: 34478652--34478709 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
34478642 TGTATAACCC
* *
34478652 ATATTAATTTGA-AAATAATTTCTTATTTT
1 ATATTAATTTGATAAA-AATCTCTAATTTT
*
34478681 ATATTATTTTGATAAAAATCTCTAATTTT
1 ATATTAATTTGATAAAAATCTCTAATTTT
34478710 TAAACTAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 22 0.88
30 3 0.12
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.53
Consensus pattern (29 bp):
ATATTAATTTGATAAAAATCTCTAATTTT
Found at i:34479924 original size:18 final size:17
Alignment explanation
Indices: 34479881--34479935 Score: 58
Period size: 17 Copynumber: 3.2 Consensus size: 17
34479871 TAAATTTATT
34479881 TTTAATTT-ATCATAAAA
1 TTTAATTTAAT-ATAAAA
*
34479898 TTTAATTTAATATAATA
1 TTTAATTTAATATAAAA
* *
34479915 TTTGAATTTAAAATATAA
1 TTT-AATTTAATATAAAA
34479933 TTT
1 TTT
34479936 TTTATTTATA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 16 0.50
18 16 0.50
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (17 bp):
TTTAATTTAATATAAAA
Found at i:34480052 original size:18 final size:17
Alignment explanation
Indices: 34480029--34480088 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
34480019 TATGATATGG
34480029 AACTTATTCAGTTTATTA
1 AACTTATTCAGTTTA-TA
*
34480047 AACTTAATTAAAG--TATA
1 AACTT-ATT-CAGTTTATA
34480064 AACTTATTTCAGTTTATA
1 AACTTA-TTCAGTTTATA
34480082 AA-TTATT
1 AACTTATT
34480089 TGAAAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
16 5 0.14
17 12 0.34
18 13 0.37
19 3 0.09
20 2 0.06
ACGTcount: A:0.40, C:0.08, G:0.05, T:0.47
Consensus pattern (17 bp):
AACTTATTCAGTTTATA
Found at i:34481266 original size:22 final size:22
Alignment explanation
Indices: 34481240--34481290 Score: 86
Period size: 22 Copynumber: 2.3 Consensus size: 22
34481230 TTCTCTCAAA
34481240 CTCTCAATTTCCTTCC-AAAAT
1 CTCTCAATTTCCTTCCAAAAAT
34481261 CATCTCAATTTCCTTCCAAAAAT
1 C-TCTCAATTTCCTTCCAAAAAT
34481284 CTCTCAA
1 CTCTCAA
34481291 ATCCATATTA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
21 1 0.04
22 21 0.75
23 6 0.21
ACGTcount: A:0.31, C:0.33, G:0.00, T:0.35
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAAAT
Found at i:34481267 original size:30 final size:30
Alignment explanation
Indices: 34481211--34481268 Score: 91
Period size: 30 Copynumber: 1.9 Consensus size: 30
34481201 ACAAATCCTA
*
34481211 TCTCAATTTCCTTCCAAATTTCTCTCAAAC
1 TCTCAATTTCCTTCCAAATATCTCTCAAAC
34481241 TCTCAATTTCCTTCCAAA-ATCATCTCAA
1 TCTCAATTTCCTTCCAAATATC-TCTCAA
34481269 TTTCCTTCCA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
29 2 0.08
30 24 0.92
ACGTcount: A:0.29, C:0.33, G:0.00, T:0.38
Consensus pattern (30 bp):
TCTCAATTTCCTTCCAAATATCTCTCAAAC
Found at i:34483747 original size:29 final size:29
Alignment explanation
Indices: 34483690--34483946 Score: 433
Period size: 29 Copynumber: 8.8 Consensus size: 29
34483680 AAAAAAATCA
*
34483690 TAATTTAATTAAAAACCCTAAACACTAACC
1 TAATTTAATTAAAAACCCT-AACCCTAACC
34483720 TAATTTAATTAAAAACCCTAACCCTAACC
1 TAATTTAATTAAAAACCCTAACCCTAACC
*
34483749 TAATTTAATTAAAAACCCTAACCCTAACT
1 TAATTTAATTAAAAACCCTAACCCTAACC
*
34483778 TAATTTAATTAAAAACCCTAACCCTACCC
1 TAATTTAATTAAAAACCCTAACCCTAACC
*
34483807 TAATTTAATTAAAAACCCTAACCCTAACT
1 TAATTTAATTAAAAACCCTAACCCTAACC
*
34483836 TAATTTAATTAAAAATCCTAACCCTAACC
1 TAATTTAATTAAAAACCCTAACCCTAACC
*
34483865 TAATCTAATTAAAAACCCTAACCCTAACC
1 TAATTTAATTAAAAACCCTAACCCTAACC
*
34483894 TAATTTAATTAAAAACCCTAAACCCTAACT
1 TAATTTAATTAAAAACCCT-AACCCTAACC
34483924 TAATTTAATTAAAAACCCTAACC
1 TAATTTAATTAAAAACCCTAACC
34483947 ATTAACAAAA
Statistics
Matches: 214, Mismatches: 12, Indels: 3
0.93 0.05 0.01
Matches are distributed among these distances:
29 167 0.78
30 47 0.22
ACGTcount: A:0.46, C:0.26, G:0.00, T:0.29
Consensus pattern (29 bp):
TAATTTAATTAAAAACCCTAACCCTAACC
Found at i:34487362 original size:124 final size:124
Alignment explanation
Indices: 34487142--34487420 Score: 463
Period size: 124 Copynumber: 2.2 Consensus size: 124
34487132 CACGAGGGCA
*
34487142 CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAGTATTTCTTACATGACCAACTGTAGCAA
1 CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAGTATTTCTTACATGACCAACTATAGCAA
*
34487207 AATTGCGTCCACGAGGGCACGATTTCACAATTCCTTCTCAAATAGCATCCTGGTAGAAG
66 AATCGCGTCCACGAGGGCACGATTTCACAATTCCTTCTCAAATAGCATCCTGGTAGAAG
* * *
34487266 CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAATTATTTCTTATATGACCAACTATAGCGA
1 CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAGTATTTCTTACATGACCAACTATAGCAA
*
34487331 AATCGCGTCCACGAGGGCACGATTTCACAATTTCTTCTCAAATAGCATCCTGGTAGAAG
66 AATCGCGTCCACGAGGGCACGATTTCACAATTCCTTCTCAAATAGCATCCTGGTAGAAG
*
34487390 TGATTTTGA-ACTATTTGAC-CAGAAACGTCAA
1 CGATTTT-ATACTATTTG-CTCAGAAACGTCAA
34487421 CTCGAAATAA
Statistics
Matches: 146, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
124 144 0.99
125 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.16, T:0.29
Consensus pattern (124 bp):
CGATTTTATACTATTTGCTCAGAAACGTCAAAAAAAAGTATTTCTTACATGACCAACTATAGCAA
AATCGCGTCCACGAGGGCACGATTTCACAATTCCTTCTCAAATAGCATCCTGGTAGAAG
Found at i:34489214 original size:43 final size:43
Alignment explanation
Indices: 34489161--34489305 Score: 157
Period size: 43 Copynumber: 3.4 Consensus size: 43
34489151 CTTTATGTGA
* * *
34489161 AAAAAATGCCGCTATAGAACATGACCTTTAGCGGCGCTTTTAT
1 AAAAAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTAT
* * * *
34489204 AAAAAATGCCGCTAAAGAACATGTCTTTTAGCAGCGC-TTTACC
1 AAAAAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTA-T
* * * *
34489247 CACAAACGCCACTAAAGAACATGACCTTTAGCAACGCTTTTAT
1 AAAAAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTAT
* *
34489290 CACAAACGCCGCTAAA
1 AAAAAACGCCGCTAAA
34489306 CAAACTCCGT
Statistics
Matches: 86, Mismatches: 14, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
42 4 0.05
43 78 0.91
44 4 0.05
ACGTcount: A:0.36, C:0.26, G:0.15, T:0.23
Consensus pattern (43 bp):
AAAAAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTAT
Found at i:34489374 original size:43 final size:43
Alignment explanation
Indices: 34489305--34489490 Score: 205
Period size: 43 Copynumber: 4.3 Consensus size: 43
34489295 ACGCCGCTAA
* * *
34489305 ACAAACTCCGTTAAAGAACATAACCTTTAGCGGCGCTTTTATC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC
* *
34489348 ACAAACGCCGCTAAAGAGCATGACCTTTTGCGGCGCTTTTATC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC
* * * * * *
34489391 ACAAACGCTGCTATAGAGA-ATGACTTTTAGTGGC-TTTTTTTC
1 ACAAACGCCGCTAAAGA-ACATGACCTTTAGCGGCGCTTTTATC
** * *
34489433 ACAAATTCCGCTAAAGAACATGATCTTTAGCGGTGCTTTTATC
1 ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC
*
34489476 ACAAACGCCGTTAAA
1 ACAAACGCCGCTAAA
34489491 AGTATCGTTC
Statistics
Matches: 114, Mismatches: 26, Indels: 6
0.78 0.18 0.04
Matches are distributed among these distances:
41 1 0.01
42 30 0.26
43 83 0.73
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (43 bp):
ACAAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC
Found at i:34489389 original size:100 final size:100
Alignment explanation
Indices: 34489216--34489403 Score: 261
Period size: 100 Copynumber: 1.9 Consensus size: 100
34489206 AAAATGCCGC
** *
34489216 TAAAGAACATGTCTTTTAGCAGCGCTTTACCCACAAACGCCACTAAAGAACATGACCTTTAGCAA
1 TAAAGAACATAACCTTTAGCAGCGCTTTACCCACAAACGCCACTAAAGAACATGACCTTTAGCAA
34489281 CGCTTTTATCACAAACGCCGCTAAACAAACTCCGT
66 CGCTTTTATCACAAACGCCGCTAAACAAACTCCGT
* * * * * *
34489316 TAAAGAACATAACCTTTAGCGGCGCTTTTA-TCACAAACGCCGCTAAAGAGCATGACCTTTTGCG
1 TAAAGAACATAACCTTTAGCAGCGC-TTTACCCACAAACGCCACTAAAGAACATGACCTTTAGCA
* *
34489380 GCGCTTTTATCACAAACGCTGCTA
65 ACGCTTTTATCACAAACGCCGCTA
34489404 TAGAGAATGA
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
100 72 0.95
101 4 0.05
ACGTcount: A:0.32, C:0.28, G:0.15, T:0.24
Consensus pattern (100 bp):
TAAAGAACATAACCTTTAGCAGCGCTTTACCCACAAACGCCACTAAAGAACATGACCTTTAGCAA
CGCTTTTATCACAAACGCCGCTAAACAAACTCCGT
Found at i:34492561 original size:42 final size:42
Alignment explanation
Indices: 34492510--34492631 Score: 138
Period size: 43 Copynumber: 2.9 Consensus size: 42
34492500 GATTTGAGAT
*
34492510 TTACGTGTAAGACCATGTCTGGGACGTTGACATTGTATATGA
1 TTACGTGTAAGACCATGTCTGGGACGTTGGCATTGTATATGA
* * * *
34492552 TTACGTGTAAGACCCTGTCTAGGACAG-TGGCATCGTTATTTGA
1 TTACGTGTAAGACCATGTCTGGGAC-GTTGGCATTG-TATATGA
* * * *
34492595 TTACATGTAAGGCCATGTTTGGGACATTGGCATTGTA
1 TTACGTGTAAGACCATGTCTGGGACGTTGGCATTGTA
34492632 CGAGCTTTTT
Statistics
Matches: 65, Mismatches: 12, Indels: 6
0.78 0.14 0.07
Matches are distributed among these distances:
42 31 0.48
43 34 0.52
ACGTcount: A:0.25, C:0.16, G:0.26, T:0.34
Consensus pattern (42 bp):
TTACGTGTAAGACCATGTCTGGGACGTTGGCATTGTATATGA
Found at i:34495832 original size:7 final size:7
Alignment explanation
Indices: 34495816--34495991 Score: 123
Period size: 7 Copynumber: 25.4 Consensus size: 7
34495806 GTTTAAAATC
*
34495816 AAACCCT
1 AAACCTT
34495823 AAACCTT
1 AAACCTT
*
34495830 AAACCCT
1 AAACCTT
*
34495837 AAACTTT
1 AAACCTT
34495844 AAACCTT
1 AAACCTT
34495851 AAACCTT
1 AAACCTT
34495858 AAACCTT
1 AAACCTT
* *
34495865 AAGCCCCT
1 AA-ACCTT
34495873 -AACACTT
1 AAAC-CTT
34495880 AAACCTT
1 AAACCTT
*
34495887 AAACCCT
1 AAACCTT
34495894 AAACAC-T
1 AAAC-CTT
*
34495901 AAACCAT
1 AAACCTT
34495908 AAACC-T
1 AAACCTT
* *
34495914 ACACCCT
1 AAACCTT
34495921 AAA-CTGT
1 AAACCT-T
34495928 AAACAC-T
1 AAAC-CTT
* *
34495935 AAATCAT
1 AAACCTT
*
34495942 AAACCCT
1 AAACCTT
34495949 AAACCTT
1 AAACCTT
*
34495956 AAA-CTC
1 AAACCTT
*
34495962 AAACCAT
1 AAACCTT
34495969 AAACC-T
1 AAACCTT
*
34495975 ACACCTT
1 AAACCTT
34495982 AAACCTT
1 AAACCTT
34495989 AAA
1 AAA
34495992 TATACATTAC
Statistics
Matches: 135, Mismatches: 22, Indels: 24
0.75 0.12 0.13
Matches are distributed among these distances:
6 19 0.14
7 108 0.80
8 7 0.05
9 1 0.01
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (7 bp):
AAACCTT
Found at i:34495835 original size:14 final size:14
Alignment explanation
Indices: 34495816--34495991 Score: 139
Period size: 14 Copynumber: 12.7 Consensus size: 14
34495806 GTTTAAAATC
34495816 AAACCCTAAACCTT
1 AAACCCTAAACCTT
*
34495830 AAACCCTAAACTTT
1 AAACCCTAAACCTT
*
34495844 AAACCTTAAACCTT
1 AAACCCTAAACCTT
* * *
34495858 AAACCTTAAGCCCCT
1 AAACCCTAA-ACCTT
*
34495873 -AACACTTAAACCTT
1 AAAC-CCTAAACCTT
34495887 AAACCCTAAACAC-T
1 AAACCCTAAAC-CTT
*
34495901 AAACCATAAACC-T
1 AAACCCTAAACCTT
*
34495914 ACACCCTAAA-CTGT
1 AAACCCTAAACCT-T
* * *
34495928 AAACACTAAATCAT
1 AAACCCTAAACCTT
34495942 AAACCCTAAACCTT
1 AAACCCTAAACCTT
* *
34495956 AAACTC-AAACCAT
1 AAACCCTAAACCTT
*
34495969 AAA-CCTACACCTT
1 AAACCCTAAACCTT
*
34495982 AAACCTTAAA
1 AAACCCTAAA
34495992 TATACATTAC
Statistics
Matches: 129, Mismatches: 24, Indels: 18
0.75 0.14 0.11
Matches are distributed among these distances:
12 2 0.02
13 27 0.21
14 87 0.67
15 13 0.10
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.22
Consensus pattern (14 bp):
AAACCCTAAACCTT
Found at i:34495882 original size:22 final size:22
Alignment explanation
Indices: 34495855--34495991 Score: 78
Period size: 20 Copynumber: 6.6 Consensus size: 22
34495845 AACCTTAAAC
* **
34495855 CTTAAACCTTAAGCCCCTAACA
1 CTTAAACCTTAAACCCTAAACA
34495877 CTTAAACCTTAAACCCTAAACA
1 CTTAAACCTTAAACCCTAAACA
* *
34495899 C-TAAACCATAAA-CCTACAC-
1 CTTAAACCTTAAACCCTAAACA
* *
34495918 CCTAAA-CTGTAAACACTAAATCA
1 CTTAAACCT-TAAACCCTAAA-CA
* *
34495941 --TAAACCCTAAA-CCTTAA-A
1 CTTAAACCTTAAACCCTAAACA
* * *
34495959 CTCAAACCATAAA-CCTACAC-
1 CTTAAACCTTAAACCCTAAACA
34495979 CTTAAACCTTAAA
1 CTTAAACCTTAAA
34495992 TATACATTAC
Statistics
Matches: 89, Mismatches: 17, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
18 1 0.01
19 2 0.02
20 42 0.47
21 22 0.25
22 22 0.25
ACGTcount: A:0.45, C:0.32, G:0.01, T:0.21
Consensus pattern (22 bp):
CTTAAACCTTAAACCCTAAACA
Found at i:34495931 original size:34 final size:35
Alignment explanation
Indices: 34495879--34495960 Score: 103
Period size: 34 Copynumber: 2.4 Consensus size: 35
34495869 CCCTAACACT
* **
34495879 TAAACCTTAAACCCTAAACACTAAACCATAAA-CC
1 TAAACCCTAAACTGTAAACACTAAACCATAAACCC
* *
34495913 TACACCCTAAACTGTAAACACTAAATCATAAACCC
1 TAAACCCTAAACTGTAAACACTAAACCATAAACCC
*
34495948 TAAACCTTAAACT
1 TAAACCCTAAACT
34495961 CAAACCATAA
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 27 0.68
35 13 0.32
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.21
Consensus pattern (35 bp):
TAAACCCTAAACTGTAAACACTAAACCATAAACCC
Found at i:34496208 original size:14 final size:15
Alignment explanation
Indices: 34496163--34496213 Score: 54
Period size: 14 Copynumber: 3.6 Consensus size: 15
34496153 AGTAAACCCC
*
34496163 AAACCCCAAACT-AT
1 AAACCCTAAACTCAT
*
34496177 AAACCATAAAC-CAT
1 AAACCCTAAACTCAT
34496191 AAACCCTAAACTCA-
1 AAACCCTAAACTCAT
*
34496205 AAACTCTAA
1 AAACCCTAA
34496214 TTCCAAAATG
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
14 29 0.94
15 2 0.06
ACGTcount: A:0.53, C:0.31, G:0.00, T:0.16
Consensus pattern (15 bp):
AAACCCTAAACTCAT
Found at i:34496297 original size:14 final size:14
Alignment explanation
Indices: 34496238--34496298 Score: 50
Period size: 14 Copynumber: 4.3 Consensus size: 14
34496228 ATATATATCA
*
34496238 TAAACCCTAAAAACC
1 TAAACCCTAAACA-C
* *
34496253 TAAACCATAAACAT
1 TAAACCCTAAACAC
* * *
34496267 TAAAACTTAAATAC
1 TAAACCCTAAACAC
*
34496281 TAAACCCTAAACCC
1 TAAACCCTAAACAC
34496295 TAAA
1 TAAA
34496299 ATAAAATGAT
Statistics
Matches: 35, Mismatches: 11, Indels: 1
0.74 0.23 0.02
Matches are distributed among these distances:
14 24 0.69
15 11 0.31
ACGTcount: A:0.54, C:0.26, G:0.00, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACAC
Found at i:34496789 original size:81 final size:80
Alignment explanation
Indices: 34496653--34496802 Score: 201
Period size: 81 Copynumber: 1.9 Consensus size: 80
34496643 TTTTTGTGAC
* * * *
34496653 GTTTTCCAAAAAACGCCCCTAATGCTAGATCTATATCAGCGTTTTTCCAATAGCACCGCTAATGC
1 GTTTTCCAAAAAACGCCCCTAATGCTAGATCTATAGCAGAGTTTTTCAAAAAGCACCGCTAATGC
34496718 TTGATTTATAACGGT
66 TTGATTTATAACGGT
* ** * * *
34496733 GTTTTTCAAAAAGTGCCCACTAATGCTCGATCTATAGCGGAGTTTTTTAAAAAGCACCGCTAATG
1 GTTTTCCAAAAAACGCCC-CTAATGCTAGATCTATAGCAGAGTTTTTCAAAAAGCACCGCTAATG
34496798 CTTGA
65 CTTGA
34496803 CCTATAGCGA
Statistics
Matches: 59, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
80 15 0.25
81 44 0.75
ACGTcount: A:0.29, C:0.22, G:0.17, T:0.32
Consensus pattern (80 bp):
GTTTTCCAAAAAACGCCCCTAATGCTAGATCTATAGCAGAGTTTTTCAAAAAGCACCGCTAATGC
TTGATTTATAACGGT
Found at i:34496809 original size:40 final size:40
Alignment explanation
Indices: 34496653--34496811 Score: 140
Period size: 40 Copynumber: 4.0 Consensus size: 40
34496643 TTTTTGTGAC
* * * * * * * *
34496653 GTTTTCCAAAAAACGCCCCTAATGCTAGATCTATATCAGC
1 GTTTTTCAAAAAGCACCGCTAATGCTTGATCTATAGCGGA
* * * * *
34496693 GTTTTTCCAATAGCACCGCTAATGCTTGATTTATAACGGT
1 GTTTTTCAAAAAGCACCGCTAATGCTTGATCTATAGCGGA
* *
34496733 GTTTTTCAAAAAGTGC-CCACTAATGCTCGATCTATAGCGGA
1 GTTTTTCAAAAA--GCACCGCTAATGCTTGATCTATAGCGGA
* *
34496774 GTTTTTTAAAAAGCACCGCTAATGCTTGACCTATAGCG
1 GTTTTTCAAAAAGCACCGCTAATGCTTGATCTATAGCG
34496812 ACATTTGTTT
Statistics
Matches: 94, Mismatches: 22, Indels: 6
0.77 0.18 0.05
Matches are distributed among these distances:
39 2 0.02
40 59 0.63
41 31 0.33
42 2 0.02
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (40 bp):
GTTTTTCAAAAAGCACCGCTAATGCTTGATCTATAGCGGA
Found at i:34496840 original size:41 final size:41
Alignment explanation
Indices: 34496792--34496872 Score: 101
Period size: 41 Copynumber: 2.0 Consensus size: 41
34496782 AAAAGCACCG
*
34496792 CTAATGCTTGACCTATAGCGACATTTGTT-TCAGAAACGCTA
1 CTAATGCTTAACCTATAGCGACATTT-TTGTCAGAAACGCTA
* * * *
34496833 CTAATGCTTAACCTTTTGCGGCATTTTTGTCATAAACGCT
1 CTAATGCTTAACCTATAGCGACATTTTTGTCAGAAACGCT
34496873 GCTATAGATC
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 2 0.06
41 32 0.94
ACGTcount: A:0.26, C:0.22, G:0.16, T:0.36
Consensus pattern (41 bp):
CTAATGCTTAACCTATAGCGACATTTTTGTCAGAAACGCTA
Found at i:34498015 original size:19 final size:19
Alignment explanation
Indices: 34497993--34498029 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
34497983 TTTAAGGATC
34497993 TTTTT-GGTTATTA-ATTAA
1 TTTTTAGGTT-TTAGATTAA
34498011 TTTTTAGGTTTTAGATTAA
1 TTTTTAGGTTTTAGATTAA
34498030 AGCTTTTCTA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 8 0.47
19 9 0.53
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (19 bp):
TTTTTAGGTTTTAGATTAA
Found at i:34499707 original size:48 final size:47
Alignment explanation
Indices: 34499502--34499707 Score: 154
Period size: 46 Copynumber: 4.4 Consensus size: 47
34499492 CATGCTATTT
* *
34499502 TTTGTGTAGGTTCAACCCTTACGAGTGATC-AGACACTATTA-TCTGA
1 TTTGTGTAGGTTCAACCCTTACGAGTGACCAAGA-ACTATGATTCTGA
* * * *
34499548 TTCGTGTAGGTTCAACCCTTACG-GTTGACCAAGGACTATGATTTATTA
1 TTTGTGTAGGTTCAACCCTTACGAG-TGACCAAGAACTATGA-TTCTGA
* * * * * *
34499596 TTTGTGTAGGTTTAATCCTTA-TAGGTGA-CTAGAAAGTATTATT-TGA
1 TTTGTGTAGGTTCAACCCTTACGA-GTGACCAAG-AACTATGATTCTGA
** * *
34499642 TTCATGTAGGTTCAACCCTTACGAGTGACCAAGAATTATGATTCATTA
1 TTTGTGTAGGTTCAACCCTTACGAGTGACCAAGAACTATGATTC-TGA
* *
34499690 TTTTTGTAGGTTTAACCC
1 TTTGTGTAGGTTCAACCC
34499708 AAATGGGTAA
Statistics
Matches: 122, Mismatches: 27, Indels: 20
0.72 0.16 0.12
Matches are distributed among these distances:
45 1 0.01
46 63 0.52
47 11 0.09
48 46 0.38
49 1 0.01
ACGTcount: A:0.27, C:0.16, G:0.19, T:0.38
Consensus pattern (47 bp):
TTTGTGTAGGTTCAACCCTTACGAGTGACCAAGAACTATGATTCTGA
Found at i:34499730 original size:94 final size:94
Alignment explanation
Indices: 34499531--34499730 Score: 258
Period size: 94 Copynumber: 2.1 Consensus size: 94
34499521 TACGAGTGAT
* * *
34499531 CAGACACTATTATCTGATTCGTGTAGGTTCAACCCTTACGGTTGACCAAGGACTATGATTTATTA
1 CAGACACTATTATCTGATTCATGTAGGTTCAACCCTTACGGTTGACCAAGAACTATGATTCATTA
* ** *
34499596 TTTGTGTAGGTTTAATCCTTATAGGTGAC
66 TTTGTGTAGGTTTAACCCAAATAGGTAAC
* * * * *
34499625 TAGAAAGTATTATTTGATTCATGTAGGTTCAACCCTTACGAG-TGACCAAGAATTATGATTCATT
1 CAGACACTATTATCTGATTCATGTAGGTTCAACCCTTACG-GTTGACCAAGAACTATGATTCATT
* *
34499689 ATTTTTGTAGGTTTAACCCAAATGGGTAAC
65 ATTTGTGTAGGTTTAACCCAAATAGGTAAC
34499719 CAGACACTATTA
1 CAGACACTATTA
34499731 CTTTTACCTG
Statistics
Matches: 88, Mismatches: 17, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
94 87 0.99
95 1 0.01
ACGTcount: A:0.29, C:0.16, G:0.18, T:0.36
Consensus pattern (94 bp):
CAGACACTATTATCTGATTCATGTAGGTTCAACCCTTACGGTTGACCAAGAACTATGATTCATTA
TTTGTGTAGGTTTAACCCAAATAGGTAAC
Found at i:34502298 original size:24 final size:24
Alignment explanation
Indices: 34502271--34502320 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
34502261 CGATGTACTA
*
34502271 TCAGTCTAATCATTCACATCTATG
1 TCAGTCTAATCAGTCACATCTATG
*
34502295 TCAGTCTAATTAGTCACATCTATG
1 TCAGTCTAATCAGTCACATCTATG
34502319 TC
1 TC
34502321 TCTATCTTCT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.28, C:0.24, G:0.10, T:0.38
Consensus pattern (24 bp):
TCAGTCTAATCAGTCACATCTATG
Found at i:34515074 original size:107 final size:107
Alignment explanation
Indices: 34514888--34515104 Score: 407
Period size: 107 Copynumber: 2.0 Consensus size: 107
34514878 ACGATATGTG
*
34514888 TTAGGGTTTTTGGCCAAATTGGTTTGAATATGCTTTACATGTTATTCTTTATATGAATGAATGGT
1 TTAGGGTTTTTGGCCAAATTGGTTTGAATATGCTTTACATATTATTCTTTATATGAATGAATGGT
34514953 AAGTTAATTACCATGTTATACGAACTTACTAAGCTTTAAAGC
66 AAGTTAATTACCATGTTATACGAACTTACTAAGCTTTAAAGC
*
34514995 TTAGGGTTTTTGGCCAAATTGGTTTGAATGTGCTTTACATATTATTCTTTATATGAATGAATGGT
1 TTAGGGTTTTTGGCCAAATTGGTTTGAATATGCTTTACATATTATTCTTTATATGAATGAATGGT
*
34515060 AAGTTAATTACCATGTTATTCGAACTTACTAAGCTTTAAAGC
66 AAGTTAATTACCATGTTATACGAACTTACTAAGCTTTAAAGC
34515102 TTA
1 TTA
34515105 CTCTATTTTA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
107 107 1.00
ACGTcount: A:0.29, C:0.11, G:0.18, T:0.42
Consensus pattern (107 bp):
TTAGGGTTTTTGGCCAAATTGGTTTGAATATGCTTTACATATTATTCTTTATATGAATGAATGGT
AAGTTAATTACCATGTTATACGAACTTACTAAGCTTTAAAGC
Found at i:34517991 original size:28 final size:28
Alignment explanation
Indices: 34517933--34517991 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 28
34517923 ATGGGAGTAA
*
34517933 TTTTATTTTAGATATTTATGTATATTTT
1 TTTTATTTTAGATATTTATGTATATTAT
* * *
34517961 TTTTATTTTATATATTTATTTATCTTAT
1 TTTTATTTTAGATATTTATGTATATTAT
34517989 TTT
1 TTT
34517992 AGTTAGTGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.24, C:0.02, G:0.03, T:0.71
Consensus pattern (28 bp):
TTTTATTTTAGATATTTATGTATATTAT
Found at i:34518767 original size:21 final size:20
Alignment explanation
Indices: 34518721--34518776 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
34518711 CATGGGCTGC
34518721 TCACACGGGCGTGTGCCCCT
1 TCACACGGGCGTGTGCCCCT
*
34518741 TCCACACGGGCATGTGTG-GCCT
1 T-CACACGGGC--GTGTGCCCCT
*
34518763 TCACATGGGCGTGT
1 TCACACGGGCGTGT
34518777 AGACCCCCAG
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
19 4 0.13
20 1 0.03
21 17 0.55
22 4 0.13
23 5 0.16
ACGTcount: A:0.12, C:0.32, G:0.32, T:0.23
Consensus pattern (20 bp):
TCACACGGGCGTGTGCCCCT
Found at i:34523115 original size:3 final size:3
Alignment explanation
Indices: 34523103--34523157 Score: 74
Period size: 3 Copynumber: 18.0 Consensus size: 3
34523093 TGATGATGAT
* * *
34523103 GAG GAA GAG GAG GAG GAG GAG GAA GAG GAG GAG GAG GAG GAG GAG AAG
1 GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG GAG
34523151 GATG GAG
1 GA-G GAG
34523158 ATGGAGAAGG
Statistics
Matches: 45, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
3 42 0.93
4 3 0.07
ACGTcount: A:0.38, C:0.00, G:0.60, T:0.02
Consensus pattern (3 bp):
GAG
Found at i:34525825 original size:16 final size:16
Alignment explanation
Indices: 34525806--34525846 Score: 55
Period size: 16 Copynumber: 2.6 Consensus size: 16
34525796 AAACTTAAGG
34525806 TGATTTGAACTAGAAA
1 TGATTTGAACTAGAAA
* * *
34525822 TGATTAGGACTCGAAA
1 TGATTTGAACTAGAAA
34525838 TGATTTGAA
1 TGATTTGAA
34525847 TAAATAATTT
Statistics
Matches: 20, Mismatches: 5, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.22, T:0.32
Consensus pattern (16 bp):
TGATTTGAACTAGAAA
Found at i:34529051 original size:16 final size:16
Alignment explanation
Indices: 34529030--34529083 Score: 90
Period size: 16 Copynumber: 3.4 Consensus size: 16
34529020 TTTGGTTCAC
34529030 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
34529046 TGTAATGGAATAGAGC
1 TGTAATGGAATAGAGG
34529062 TGTAATGGAATAGAGG
1 TGTAATGGAATAGAGG
*
34529078 CGTAAT
1 TGTAAT
34529084 AGTAATTCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.26
Consensus pattern (16 bp):
TGTAATGGAATAGAGG
Found at i:34529411 original size:61 final size:61
Alignment explanation
Indices: 34529331--34529521 Score: 228
Period size: 61 Copynumber: 3.2 Consensus size: 61
34529321 ATTTAATAAA
*
34529331 AATATATAATTTAATAAAATTCTTAATATTAAATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTATTATATGAATTTACTAAAATCAT
* * * * * * ** * *
34529392 AATATATAA--TAATATAAAAT-ATAATATAAAATAATTATTAT-TAAATATAATTTAATAAA
1 AATATATAATTTAATA-AAATTCTTAATATTAAAT-ATTATTATATGAATTTACTAAAATCAT
*
34529451 AATATATAATTTAATAAAATTCTTAATATTAAATATTTTTATATGAATTTACTAAAATCAT
1 AATATATAATTTAATAAAATTCTTAATATTAAATATTATTATATGAATTTACTAAAATCAT
34529512 AATATATAAT
1 AATATATAAT
34529522 ACTAAAATCA
Statistics
Matches: 102, Mismatches: 22, Indels: 12
0.75 0.16 0.09
Matches are distributed among these distances:
59 35 0.34
60 22 0.22
61 45 0.44
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATATTAAATATTATTATATGAATTTACTAAAATCAT
Found at i:34529415 original size:22 final size:23
Alignment explanation
Indices: 34529383--34529426 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 23
34529373 ATGAATTTAC
*
34529383 TAAAATCATAATATATAATAATA
1 TAAAATCATAATATAAAATAATA
34529406 TAAAAT-ATAATATAAAATAAT
1 TAAAATCATAATATAAAATAAT
34529427 TATTATTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 14 0.70
23 6 0.30
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (23 bp):
TAAAATCATAATATAAAATAATA
Found at i:34529437 original size:120 final size:119
Alignment explanation
Indices: 34529288--34529538 Score: 432
Period size: 120 Copynumber: 2.1 Consensus size: 119
34529278 TAAATAATTT
* * *
34529288 AATCATATTTTAACATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
1 AATCATAATATAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
34529353 TTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATAATATAA
66 TTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAAT-A-ATAA
34529409 AAT-ATAATATAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
1 AATCATAATATAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
* *
34529473 TTAATATTAAATATTTTTATATGAATTTACTAAAATCATAATATATAATACTAA
66 TTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATAATAA
34529527 AATCATAATATA
1 AATCATAATATA
34529539 TATAATTTAA
Statistics
Matches: 124, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
118 6 0.05
119 9 0.07
120 106 0.85
121 3 0.02
ACGTcount: A:0.53, C:0.04, G:0.01, T:0.42
Consensus pattern (119 bp):
AATCATAATATAAAATAATTATTATTAAATATAATTTAATAAAAATATATAATTTAATAAAATTC
TTAATATTAAATATTCTTATATGAATTTACTAAAATCATAATATATAATAATAA
Found at i:34529482 original size:18 final size:18
Alignment explanation
Indices: 34529316--34529469 Score: 76
Period size: 18 Copynumber: 8.9 Consensus size: 18
34529306 TTATTATTAA
34529316 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
*
34529334 ATATAATTTAATAAAATT
1 ATATAATTTAATAAAAAT
* ****
34529352 CT-TAATATTAAATATTCTT
1 ATATAAT-TT-AATAAAAAT
*
34529371 ATATGAATTTACT-AAAAT
1 ATAT-AATTTAATAAAAAT
* * *
34529389 -CATAATAT-ATAATAAT
1 ATATAATTTAATAAAAAT
* *
34529405 ATAAAATATAATATAAAAT
1 ATATAATTTAATA-AAAAT
* *
34529424 A-ATTA-TT-AT--TAA-
1 ATATAATTTAATAAAAAT
34529436 ATATAATTTAATAAAAAT
1 ATATAATTTAATAAAAAT
34529454 ATATAATTTAATAAAA
1 ATATAATTTAATAAAA
34529470 TTCTTAATAT
Statistics
Matches: 98, Mismatches: 24, Indels: 28
0.65 0.16 0.19
Matches are distributed among these distances:
12 1 0.01
13 5 0.05
14 2 0.02
15 3 0.03
16 10 0.10
17 15 0.15
18 42 0.43
19 14 0.14
20 3 0.03
21 3 0.03
ACGTcount: A:0.56, C:0.03, G:0.01, T:0.41
Consensus pattern (18 bp):
ATATAATTTAATAAAAAT
Found at i:34529544 original size:23 final size:21
Alignment explanation
Indices: 34529500--34529540 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
34529490 TATATGAATT
34529500 TACTAAAATCATAATATATAA
1 TACTAAAATCATAATATATAA
34529521 TACTAAAATCATAATATATA
1 TACTAAAATCATAATATATA
34529541 TAATTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (21 bp):
TACTAAAATCATAATATATAA
Found at i:34529557 original size:59 final size:58
Alignment explanation
Indices: 34529331--34529557 Score: 144
Period size: 59 Copynumber: 3.8 Consensus size: 58
34529321 ATTTAATAAA
* * *
34529331 AATATATAATTTAATAAAATTCTTAATAT-TA-AATATTCTTATATGAATTTACTAAAATCAT
1 AATATATAA--TAATAAAA-TCATAATATATATAAT-TTATT-TTTGAATTTACTAAAATCAT
* * * * * ** * *
34529392 AATATATAATAATATAAAAT-ATAATATAAAATAA-TTATTATTAAATATAATTTAATAAA
1 AATATATAAT-A-ATAAAATCATAATAT-ATATAATTTATTTTTGAATTTACTAAAATCAT
*
34529451 AATATATAATTTAATAAAATTCTTAATAT-TA-AATATT-TTTATATGAATTTACTAAAATCAT
1 AATATATAA--TAATAAAA-TCATAATATATATAAT-TTATTT-T-TGAATTTACTAAAATCAT
*
34529512 AATATATAATACTAAAATCATAATATATATAATTTAATTTTTGAAT
1 AATATATAATAATAAAATCATAATATATATAATTT-ATTTTTGAAT
34529558 GAATGCAAAT
Statistics
Matches: 125, Mismatches: 24, Indels: 36
0.68 0.13 0.19
Matches are distributed among these distances:
58 10 0.08
59 52 0.42
60 15 0.12
61 46 0.37
62 2 0.02
ACGTcount: A:0.52, C:0.04, G:0.01, T:0.43
Consensus pattern (58 bp):
AATATATAATAATAAAATCATAATATATATAATTTATTTTTGAATTTACTAAAATCAT
Found at i:34531565 original size:34 final size:34
Alignment explanation
Indices: 34531526--34531594 Score: 129
Period size: 34 Copynumber: 2.0 Consensus size: 34
34531516 ATCACAAACT
34531526 TTAGACAGTAATCAAAATACCATGATCAAATATA
1 TTAGACAGTAATCAAAATACCATGATCAAATATA
*
34531560 TTAGACAGTAATTAAAATACCATGATCAAATATA
1 TTAGACAGTAATCAAAATACCATGATCAAATATA
34531594 T
1 T
34531595 CTTTATAATT
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.49, C:0.13, G:0.09, T:0.29
Consensus pattern (34 bp):
TTAGACAGTAATCAAAATACCATGATCAAATATA
Found at i:34535152 original size:67 final size:67
Alignment explanation
Indices: 34535022--34535152 Score: 156
Period size: 67 Copynumber: 2.0 Consensus size: 67
34535012 AGAGGTTTAA
* * * *
34535022 AGGTGTAAAACCATAGCTCGGCTATGGCAACCAATAGAATCTACCAGGACATTGAACATGGGGTT
1 AGGTGTAAAACCATAGCTCGACTATGGCAACCAATAGAATCTACCAGGACAATAAACACGGGGTT
34535087 AT
66 AT
* * * * * *
34535089 AGGTGTAAGATCATAGCTCGACTATGGTAACCAATGGAGTCTA-CAGGGACAATAAATACGGGGT
1 AGGTGTAAAACCATAGCTCGACTATGGCAACCAATAGAATCTACCA-GGACAATAAACACGGGGT
34535153 AGTTCATCAG
Statistics
Matches: 53, Mismatches: 10, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
66 2 0.04
67 51 0.96
ACGTcount: A:0.34, C:0.18, G:0.26, T:0.22
Consensus pattern (67 bp):
AGGTGTAAAACCATAGCTCGACTATGGCAACCAATAGAATCTACCAGGACAATAAACACGGGGTT
AT
Found at i:34536407 original size:27 final size:27
Alignment explanation
Indices: 34536369--34536422 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
34536359 AAAAAATGAG
34536369 TTAGAGTCTATCATTCTAGATTAAGGT
1 TTAGAGTCTATCATTCTAGATTAAGGT
34536396 TTAGAGTCTATCATTCTAGATTAAGGT
1 TTAGAGTCTATCATTCTAGATTAAGGT
34536423 AAAATTTCGC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.11, G:0.19, T:0.41
Consensus pattern (27 bp):
TTAGAGTCTATCATTCTAGATTAAGGT
Found at i:34537736 original size:16 final size:16
Alignment explanation
Indices: 34537715--34537749 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
34537705 ACAAAAAGAA
34537715 TTTTTTGCAGTTTACT
1 TTTTTTGCAGTTTACT
34537731 TTTTTTGCAGTTTACT
1 TTTTTTGCAGTTTACT
34537747 TTT
1 TTT
34537750 CTTAGCAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.11, C:0.11, G:0.11, T:0.66
Consensus pattern (16 bp):
TTTTTTGCAGTTTACT
Found at i:34545481 original size:27 final size:27
Alignment explanation
Indices: 34545436--34545739 Score: 242
Period size: 27 Copynumber: 11.3 Consensus size: 27
34545426 CAGAACATGC
* * *
34545436 CACAAAAGCAATCCATTCA-AGATACGA
1 CACAAAGGCATTCCTTTCAGAG-TACGA
* * *
34545463 CACAAATGCATTCCTTTCAGAGTAAGC
1 CACAAAGGCATTCCTTTCAGAGTACGA
* * * *
34545490 CAC-AA-GCATTTCTTTTAGAGTATGC
1 CACAAAGGCATTCCTTTCAGAGTACGA
34545515 CACAAAGGCATTCCTTTCAGAGTAC-A
1 CACAAAGGCATTCCTTTCAGAGTACGA
34545541 CTACAAAGGCATTCCTTTCAGAGTAC-A
1 C-ACAAAGGCATTCCTTTCAGAGTACGA
* *
34545568 CTACAAAGGCATTCCTTTCAGAGTATGT
1 C-ACAAAGGCATTCCTTTCAGAGTACGA
* * * *
34545596 CACAAAGGCATTCTTTTCAGAATATGC
1 CACAAAGGCATTCCTTTCAGAGTACGA
* * * *
34545623 CATAAATGCATTCCTGTCAGAGTACGC
1 CACAAAGGCATTCCTTTCAGAGTACGA
* ** *
34545650 CATAAAGTTATTCCTTTTAGAGTAC-A
1 CACAAAGGCATTCCTTTCAGAGTACGA
* * *
34545676 CCAAAAAGGCATTTCTTTCAGAGTACGC
1 -CACAAAGGCATTCCTTTCAGAGTACGA
** * * *
34545704 CACAAAGGCATTTATTTCAAAGTATGC
1 CACAAAGGCATTCCTTTCAGAGTACGA
34545731 CACAAAGGC
1 CACAAAGGC
34545740 TAACACGATG
Statistics
Matches: 231, Mismatches: 39, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
25 20 0.09
26 5 0.02
27 203 0.88
28 3 0.01
ACGTcount: A:0.34, C:0.23, G:0.15, T:0.27
Consensus pattern (27 bp):
CACAAAGGCATTCCTTTCAGAGTACGA
Found at i:34545604 original size:81 final size:81
Alignment explanation
Indices: 34545432--34545739 Score: 300
Period size: 81 Copynumber: 3.8 Consensus size: 81
34545422 CATACAGAAC
* * * * *
34545432 ATGCCACAAAAGCAATCCATTCA-AGATACGACACAAATGCATTCCTTTCAGAGTA-AGCCAC-A
1 ATGCCACAAAGGCATTCCTTTCAGAG-TACGCCACAAAGGCATTCCTTTCAGAGTACA-CCACAA
*
34545494 A-GCATTTCTTTTAGAGT
64 AGGCATTCCTTTTAGAGT
* * *
34545511 ATGCCACAAAGGCATTCCTTTCAGAGTACACTACAAAGGCATTCCTTTCAGAGTACACTACAAAG
1 ATGCCACAAAGGCATTCCTTTCAGAGTACGCCACAAAGGCATTCCTTTCAGAGTACACCACAAAG
*
34545576 GCATTCCTTTCAGAGT
66 GCATTCCTTTTAGAGT
* * * * * * * * *
34545592 ATGTCACAAAGGCATTCTTTTCAGAATATGCCATAAATGCATTCCTGTCAGAGTACGCCATAAAG
1 ATGCCACAAAGGCATTCCTTTCAGAGTACGCCACAAAGGCATTCCTTTCAGAGTACACCACAAAG
**
34545657 TTATTCCTTTTAGAGT
66 GCATTCCTTTTAGAGT
** * * ** * **
34545673 ACACCAAAAAGGCATTTCTTTCAGAGTACGCCACAAAGGCATTTATTTCAAAGTATGCCACAAAG
1 ATGCCACAAAGGCATTCCTTTCAGAGTACGCCACAAAGGCATTCCTTTCAGAGTACACCACAAAG
34545738 GC
66 GC
34545740 TAACACGATG
Statistics
Matches: 182, Mismatches: 43, Indels: 6
0.79 0.19 0.03
Matches are distributed among these distances:
79 48 0.26
80 5 0.03
81 129 0.71
ACGTcount: A:0.34, C:0.23, G:0.16, T:0.27
Consensus pattern (81 bp):
ATGCCACAAAGGCATTCCTTTCAGAGTACGCCACAAAGGCATTCCTTTCAGAGTACACCACAAAG
GCATTCCTTTTAGAGT
Found at i:34549490 original size:35 final size:36
Alignment explanation
Indices: 34549439--34549513 Score: 125
Period size: 35 Copynumber: 2.1 Consensus size: 36
34549429 GTTCTATGAC
* *
34549439 TATATTTTTTACACACTATTTCTATGAATCAATCCA
1 TATATTTTTTAAACACTATTTCCATGAATCAATCCA
34549475 TATA-TTTTTAAACACTATTTCCATGAATCAATCCA
1 TATATTTTTTAAACACTATTTCCATGAATCAATCCA
34549510 TATA
1 TATA
34549514 ATTTAGTACT
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
35 33 0.89
36 4 0.11
ACGTcount: A:0.36, C:0.19, G:0.03, T:0.43
Consensus pattern (36 bp):
TATATTTTTTAAACACTATTTCCATGAATCAATCCA
Found at i:34556352 original size:27 final size:27
Alignment explanation
Indices: 34556332--34556556 Score: 310
Period size: 27 Copynumber: 8.4 Consensus size: 27
34556322 GGGTATAAAA
34556332 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
34556359 ATCATTTTATCTTATGGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
34556386 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
34556413 GTCATTTTACCTTATGAGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
34556440 GTCATTTTACCTTATGGGGGTGTTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
34556467 GTCATTTTACCCTATGGGGGTATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* *
34556494 ATCATTTTACCCTAT-GGGATATTTCG
1 GTCATTTTACCCTATGGGGGTATTTCG
* * * *
34556520 ATTATTTTACCCT-TAGGGGTATTTTG
1 GTCATTTTACCCTATGGGGGTATTTCG
34556546 GTCATTTTACC
1 GTCATTTTACC
34556557 TATTTTAGGG
Statistics
Matches: 176, Mismatches: 21, Indels: 3
0.88 0.10 0.01
Matches are distributed among these distances:
25 1 0.01
26 40 0.23
27 135 0.77
ACGTcount: A:0.17, C:0.16, G:0.23, T:0.44
Consensus pattern (27 bp):
GTCATTTTACCCTATGGGGGTATTTCG
Found at i:34563667 original size:19 final size:21
Alignment explanation
Indices: 34563640--34563682 Score: 54
Period size: 20 Copynumber: 2.1 Consensus size: 21
34563630 ATTATAATAT
*
34563640 ATTTATTTTA-AAAAGTTATA
1 ATTTATTTTATAAAAGCTATA
*
34563660 ATTT-TTTTATAAATGCTATA
1 ATTTATTTTATAAAAGCTATA
34563680 ATT
1 ATT
34563683 ATAAATTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (21 bp):
ATTTATTTTATAAAAGCTATA
Found at i:34563686 original size:15 final size:16
Alignment explanation
Indices: 34563666--34563703 Score: 51
Period size: 15 Copynumber: 2.4 Consensus size: 16
34563656 TATAATTTTT
*
34563666 TTATAAATGCTATA-A
1 TTATAAATGATATATA
*
34563681 TTATAAATTATATATA
1 TTATAAATGATATATA
34563697 TTATAAA
1 TTATAAA
34563704 ATTATTTCTT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.50, C:0.03, G:0.03, T:0.45
Consensus pattern (16 bp):
TTATAAATGATATATA
Found at i:34563705 original size:17 final size:15
Alignment explanation
Indices: 34563666--34563708 Score: 50
Period size: 15 Copynumber: 2.7 Consensus size: 15
34563656 TATAATTTTT
**
34563666 TTATAAATGCTATAA
1 TTATAAATTATATAA
34563681 TTATAAATTATATATA
1 TTATAAATTATATA-A
34563697 TTATAAAATTAT
1 TTAT-AAATTAT
34563709 TTCTTCAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
15 12 0.50
16 5 0.21
17 7 0.29
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
TTATAAATTATATAA
Found at i:34564549 original size:13 final size:13
Alignment explanation
Indices: 34564531--34564555 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34564521 TAAGAAAATA
34564531 TAATTACATTTTG
1 TAATTACATTTTG
34564544 TAATTACATTTT
1 TAATTACATTTT
34564556 TATTCAATTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.08, G:0.04, T:0.56
Consensus pattern (13 bp):
TAATTACATTTTG
Found at i:34568956 original size:44 final size:44
Alignment explanation
Indices: 34568891--34568977 Score: 129
Period size: 44 Copynumber: 2.0 Consensus size: 44
34568881 TATGTTTTTA
* * *
34568891 GTTTCTCACTTAAACTCTGATTAGTATAAGTTGTTTTAATATTG
1 GTTTCCCACTTAAACTATGATTAGTATAAGTTATTTTAATATTG
* *
34568935 GTTTCCCACTTAAACTATGATTAGTGTAGGTTATTTTAATATT
1 GTTTCCCACTTAAACTATGATTAGTATAAGTTATTTTAATATT
34568978 ATTTGACCTA
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
44 38 1.00
ACGTcount: A:0.28, C:0.11, G:0.14, T:0.47
Consensus pattern (44 bp):
GTTTCCCACTTAAACTATGATTAGTATAAGTTATTTTAATATTG
Found at i:34569435 original size:29 final size:29
Alignment explanation
Indices: 34569403--34569459 Score: 78
Period size: 29 Copynumber: 2.0 Consensus size: 29
34569393 TATTATAATC
*
34569403 TAATGGTTAAAAATATTTTAATTCTCATG
1 TAATGATTAAAAATATTTTAATTCTCATG
* * *
34569432 TAATGATTGAGAATATTTTAATTTTCAT
1 TAATGATTAAAAATATTTTAATTCTCAT
34569460 AATTCTTATA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
29 24 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.47
Consensus pattern (29 bp):
TAATGATTAAAAATATTTTAATTCTCATG
Found at i:34575940 original size:31 final size:30
Alignment explanation
Indices: 34575847--34575940 Score: 81
Period size: 31 Copynumber: 3.2 Consensus size: 30
34575837 CATGGTTTGA
34575847 AATGCAAACTTCACTAACATGAAAGTTACAT
1 AATGCAAACTT-ACTAACATGAAAGTTACAT
* * * *
34575878 AAT-TAAAC-TACATTAC-T-TAA-TTAAAT
1 AATGCAAACTTAC-TAACATGAAAGTTACAT
*
34575904 GATGCAAACTTAACTAACATGAAAGTTACAT
1 AATGCAAACTT-ACTAACATGAAAGTTACAT
34575935 AATGCA
1 AATGCA
34575941 TGACTTTATT
Statistics
Matches: 46, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
26 7 0.15
27 6 0.13
28 7 0.15
29 7 0.15
30 6 0.13
31 13 0.28
ACGTcount: A:0.47, C:0.16, G:0.09, T:0.29
Consensus pattern (30 bp):
AATGCAAACTTACTAACATGAAAGTTACAT
Found at i:34588594 original size:21 final size:21
Alignment explanation
Indices: 34588568--34588621 Score: 90
Period size: 21 Copynumber: 2.6 Consensus size: 21
34588558 ACATATACAG
34588568 CAAAAAGTCCGTATGACTTAA
1 CAAAAAGTCCGTATGACTTAA
**
34588589 CAAAAAGTCAATATGACTTAA
1 CAAAAAGTCCGTATGACTTAA
34588610 CAAAAAGTCCGT
1 CAAAAAGTCCGT
34588622 GTTACATGGA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.46, C:0.19, G:0.13, T:0.22
Consensus pattern (21 bp):
CAAAAAGTCCGTATGACTTAA
Found at i:34588989 original size:21 final size:21
Alignment explanation
Indices: 34588948--34588990 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
34588938 AATAAAGTAG
*
34588948 ATTATATATTATTTTTATAGT
1 ATTATATATTATATTTATAGT
34588969 ATTATATATTATGATTT-TAGT
1 ATTATATATTAT-ATTTATAGT
34588990 A
1 A
34588991 AATTCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.35, C:0.00, G:0.07, T:0.58
Consensus pattern (21 bp):
ATTATATATTATATTTATAGT
Found at i:34589133 original size:58 final size:57
Alignment explanation
Indices: 34588983--34589135 Score: 159
Period size: 58 Copynumber: 2.7 Consensus size: 57
34588973 TATATTATGA
* * * **
34588983 TTTTAGTAAATTCATA--TAATAATAAATATATTAAGAATTTTATTAAATTATATACTT
1 TTTTATTAAA-TCATATTTAATAATAATTATATTAA-AATATGGTTAAATTATATACTT
* * *
34589040 TTTTATTAAATCATATTTAATAATAATTATGTTAAAATATGGTTAAATTATTTATTAT
1 TTTTATTAAATCATATTTAATAATAATTATATTAAAATATGGTTAAATTATATACT-T
* *
34589098 TTTTATTAAATTATTTTTAATAATAATCT-TATTAAAAT
1 TTTTATTAAATCATATTTAATAATAAT-TATATTAAAAT
34589136 TTAATAACAA
Statistics
Matches: 81, Mismatches: 11, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
56 5 0.06
57 25 0.31
58 50 0.62
59 1 0.01
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.51
Consensus pattern (57 bp):
TTTTATTAAATCATATTTAATAATAATTATATTAAAATATGGTTAAATTATATACTT
Found at i:34589326 original size:16 final size:15
Alignment explanation
Indices: 34589302--34589372 Score: 88
Period size: 16 Copynumber: 4.5 Consensus size: 15
34589292 TTGATTACTG
*
34589302 ATTACAGCTTTATTAC
1 ATTACAGCTCTATT-C
*
34589318 ATTATAGCTCTATTC
1 ATTACAGCTCTATTC
34589333 AATTACAGCTCTATTTC
1 -ATTACAGCTCTA-TTC
34589350 ATTACAGCTCTATTC
1 ATTACAGCTCTATTC
34589365 TATTACAG
1 -ATTACAG
34589373 TGAACCAAAC
Statistics
Matches: 49, Mismatches: 3, Indels: 6
0.84 0.05 0.10
Matches are distributed among these distances:
15 4 0.08
16 42 0.86
17 3 0.06
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (15 bp):
ATTACAGCTCTATTC
Found at i:34589353 original size:32 final size:32
Alignment explanation
Indices: 34589302--34589372 Score: 106
Period size: 32 Copynumber: 2.2 Consensus size: 32
34589292 TTGATTACTG
* *
34589302 ATTACAGCTTTATTACATTATAGCTCTATTCA
1 ATTACAGCTCTATTACATTACAGCTCTATTCA
* *
34589334 ATTACAGCTCTATTTCATTACAGCTCTATTCT
1 ATTACAGCTCTATTACATTACAGCTCTATTCA
34589366 ATTACAG
1 ATTACAG
34589373 TGAACCAAAC
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.30, C:0.21, G:0.07, T:0.42
Consensus pattern (32 bp):
ATTACAGCTCTATTACATTACAGCTCTATTCA
Found at i:34589859 original size:19 final size:19
Alignment explanation
Indices: 34589835--34589873 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 19
34589825 GGAAAATAAA
34589835 AAAGAAATAAC-TAATTTGG
1 AAAGAAA-AACATAATTTGG
34589854 AAAGAAAAACATTAATTTGG
1 AAAGAAAAACA-TAATTTGG
34589874 TGTTTGGCAA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 3 0.17
19 7 0.39
20 8 0.44
ACGTcount: A:0.54, C:0.05, G:0.15, T:0.26
Consensus pattern (19 bp):
AAAGAAAAACATAATTTGG
Found at i:34590174 original size:10 final size:8
Alignment explanation
Indices: 34590154--34590187 Score: 50
Period size: 8 Copynumber: 4.0 Consensus size: 8
34590144 TTTTAATATT
34590154 TTATTTAA
1 TTATTTAA
34590162 TTATTCCTAA
1 TTATT--TAA
34590172 TTATTTAA
1 TTATTTAA
34590180 TTATTTAA
1 TTATTTAA
34590188 CTTAATTAAG
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
8 16 0.67
10 8 0.33
ACGTcount: A:0.35, C:0.06, G:0.00, T:0.59
Consensus pattern (8 bp):
TTATTTAA
Found at i:34590175 original size:31 final size:31
Alignment explanation
Indices: 34590137--34590195 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
34590127 ATTTTTAATT
* *
34590137 CTAATTATTTTAA-TATTTTATTTAATTATTC
1 CTAATTA-TTTAATTATTTAACTTAATTATTC
34590168 CTAATTATTTAATTATTTAACTTAATTA
1 CTAATTATTTAATTATTTAACTTAATTA
34590196 AGGCTTCTGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 5 0.20
31 20 0.80
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.58
Consensus pattern (31 bp):
CTAATTATTTAATTATTTAACTTAATTATTC
Found at i:34592745 original size:23 final size:21
Alignment explanation
Indices: 34592698--34592752 Score: 65
Period size: 21 Copynumber: 2.6 Consensus size: 21
34592688 GTAACTCGGT
*
34592698 CACACGGGCGTGTGTCTCCTC
1 CACACGAGCGTGTGTCTCCTC
* * *
34592719 CACACGAGTGTGTGTGTCCTG
1 CACACGAGCGTGTGTCTCCTC
*
34592740 CACACAAGCGTGT
1 CACACGAGCGTGT
34592753 AGACCACCAC
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.16, C:0.31, G:0.29, T:0.24
Consensus pattern (21 bp):
CACACGAGCGTGTGTCTCCTC
Found at i:34599290 original size:22 final size:22
Alignment explanation
Indices: 34599257--34599304 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 22
34599247 TTCATTTTAG
34599257 TTATTTTTAAAAAAATT-ATTT
1 TTATTTTTAAAAAAATTAATTT
34599278 TTATTTTTAAAAAAAATTGAATTT
1 TTATTTTT-AAAAAAATT-AATTT
34599302 TTA
1 TTA
34599305 CAAAAAAATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
21 8 0.33
22 9 0.38
24 7 0.29
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (22 bp):
TTATTTTTAAAAAAATTAATTT
Found at i:34599303 original size:19 final size:19
Alignment explanation
Indices: 34599280--34599319 Score: 73
Period size: 19 Copynumber: 2.2 Consensus size: 19
34599270 AATTATTTTT
34599280 ATTTTTA-AAAAAAATTGA
1 ATTTTTACAAAAAAATTGA
34599298 ATTTTTACAAAAAAATTGA
1 ATTTTTACAAAAAAATTGA
34599317 ATT
1 ATT
34599320 ATTCAGTTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 7 0.33
19 14 0.67
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.40
Consensus pattern (19 bp):
ATTTTTACAAAAAAATTGA
Found at i:34601377 original size:17 final size:18
Alignment explanation
Indices: 34601351--34601384 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
34601341 AAATTTGAAA
34601351 ATAAAAAAATAA-AAATC
1 ATAAAAAAATAAGAAATC
*
34601368 ATAAATAAATAAGAAAT
1 ATAAAAAAATAAGAAAT
34601385 AGAAATTAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (18 bp):
ATAAAAAAATAAGAAATC
Found at i:34602660 original size:22 final size:22
Alignment explanation
Indices: 34602632--34602678 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
34602622 AGAGCTCAAA
*
34602632 TGACGAATAGCCAGTTGTAGAG
1 TGACGAATAACCAGTTGTAGAG
34602654 TGACGAATAACCAGTTGTAGAG
1 TGACGAATAACCAGTTGTAGAG
34602676 TGA
1 TGA
34602679 ATAGATCGAT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.34, C:0.13, G:0.30, T:0.23
Consensus pattern (22 bp):
TGACGAATAACCAGTTGTAGAG
Found at i:34604247 original size:50 final size:50
Alignment explanation
Indices: 34604189--34604382 Score: 221
Period size: 50 Copynumber: 3.9 Consensus size: 50
34604179 CATTGAGGTT
* * *
34604189 ATGAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
* ** * *
34604239 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAT
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
* * *
34604289 ATGAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTAC
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AC
* * * * *
34604338 AAGAAAAATCCCATGTAAGACTATGTCTGGGACATGGCTTTGGCA
1 ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
34604383 TGTTATTATC
Statistics
Matches: 123, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
48 1 0.01
49 39 0.32
50 83 0.67
ACGTcount: A:0.28, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
ATGAGAAGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAC
Found at i:34607693 original size:23 final size:22
Alignment explanation
Indices: 34607630--34607694 Score: 62
Period size: 23 Copynumber: 3.0 Consensus size: 22
34607620 CTTGATCAAT
*
34607630 ATACGACACATAAGTGCCT-GA
1 ATACGACACATAAGTGCCTAAA
* * *
34607651 A-ACGACACACGAGGTTCCTAAA
1 ATACGACACA-TAAGTGCCTAAA
34607673 ATACGACACATAAAGTGCCTAA
1 ATACGACACAT-AAGTGCCTAA
34607695 TCGGTAGAGC
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
20 8 0.24
21 7 0.21
22 2 0.06
23 16 0.48
ACGTcount: A:0.42, C:0.25, G:0.17, T:0.17
Consensus pattern (22 bp):
ATACGACACATAAGTGCCTAAA
Found at i:34609266 original size:12 final size:12
Alignment explanation
Indices: 34609250--34609285 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
34609240 AATAAAATCT
34609250 ATAATAATAGTA
1 ATAATAATAGTA
*
34609262 GTAATAATAGTA
1 ATAATAATAGTA
34609274 ATAATAATAGTA
1 ATAATAATAGTA
34609286 TTATAACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:34609300 original size:24 final size:24
Alignment explanation
Indices: 34609250--34609306 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
34609240 AATAAAATCT
**
34609250 ATAATAATAGTAGTAATAATAGTA
1 ATAATAATAGTAGTAATAATAAAA
*
34609274 ATAATAATAGTA-TTATAACTAAAA
1 ATAATAATAGTAGTAATAA-TAAAA
*
34609298 ATAAGAATA
1 ATAATAATA
34609307 AAAAAAGGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
23 5 0.18
24 23 0.82
ACGTcount: A:0.58, C:0.02, G:0.09, T:0.32
Consensus pattern (24 bp):
ATAATAATAGTAGTAATAATAAAA
Found at i:34609938 original size:18 final size:18
Alignment explanation
Indices: 34609912--34609951 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
34609902 ATGAAACGAG
34609912 AAAAGAAAACAAAAGAAA
1 AAAAGAAAACAAAAGAAA
* * *
34609930 AAAATAAAATAAAATAAA
1 AAAAGAAAACAAAAGAAA
34609948 AAAA
1 AAAA
34609952 CATGAAATCA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.85, C:0.03, G:0.05, T:0.07
Consensus pattern (18 bp):
AAAAGAAAACAAAAGAAA
Found at i:34611167 original size:29 final size:30
Alignment explanation
Indices: 34611108--34611165 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
34611098 TCCGAGCCTT
*
34611108 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
34611138 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
34611166 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:34611395 original size:13 final size:13
Alignment explanation
Indices: 34611377--34611408 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
34611367 TTTCCAGCAA
34611377 TTATGAATTTATT
1 TTATGAATTTATT
34611390 TTATGAATTTATT
1 TTATGAATTTATT
*
34611403 TGATGA
1 TTATGA
34611409 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:34611616 original size:50 final size:50
Alignment explanation
Indices: 34611503--34611744 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
34611493 ATTTGGGTAA
* * *
34611503 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
34611559 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
34611609 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
34611659 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
34611709 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
34611745 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:34611692 original size:100 final size:103
Alignment explanation
Indices: 34611503--34611752 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
34611493 ATTTGGGTAA
34611503 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
34611568 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
34611609 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
34611671 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
34611709 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
34611753 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:34618742 original size:29 final size:30
Alignment explanation
Indices: 34618705--34618761 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
34618695 TCCGAGCCTT
*
34618705 GGGGAAAAA-TGTAATTATGTAAAAGTTTA
1 GGGGAAAAATTGTAATTATGAAAAAGTTTA
* *
34618734 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGAAAAATTGTAATTATGAAAAAGTT
34618762 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.32
Consensus pattern (30 bp):
GGGGAAAAATTGTAATTATGAAAAAGTTTA
Found at i:34618990 original size:13 final size:13
Alignment explanation
Indices: 34618972--34619003 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
34618962 TTTCCAGCAA
34618972 TTATGAATTTATT
1 TTATGAATTTATT
34618985 TTATGAATTTATT
1 TTATGAATTTATT
*
34618998 TGATGA
1 TTATGA
34619004 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:34619256 original size:50 final size:51
Alignment explanation
Indices: 34619098--34619345 Score: 297
Period size: 50 Copynumber: 4.8 Consensus size: 51
34619088 ATTTGGGTAA
*
34619098 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-CC----GATCATG
* * * *
34619154 AGAGGTCCCCTGTAAGACCATGTCT-GGACATGGCATGGGCACCGA-GACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
* *
34619203 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGA-GATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
* * *
34619253 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
** *
34619303 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
34619346 TGTTATTATC
Statistics
Matches: 169, Mismatches: 20, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
49 27 0.16
50 68 0.40
51 34 0.20
54 2 0.01
55 15 0.09
56 23 0.14
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (51 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGATCATG
Found at i:34619291 original size:105 final size:102
Alignment explanation
Indices: 34619098--34619346 Score: 344
Period size: 105 Copynumber: 2.4 Consensus size: 102
34619088 ATTTGGGTAA
34619098 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
34619163 CTGTAAGACCATGTCTGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGACATGGCATGGGCACC-ATCACG
* * *
34619203 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
*
34619265 TAAGACCATGTCTGGGACATGGCATGGGCACCATCATG
66 TAAGACCATGTCT-GGACATGGCATGGGCACCATCACG
* *
34619303 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
34619347 GTTATTATCA
Statistics
Matches: 131, Mismatches: 9, Indels: 11
0.87 0.06 0.07
Matches are distributed among these distances:
99 28 0.21
100 24 0.18
101 37 0.28
104 2 0.02
105 40 0.31
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (102 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGACATGGCATGGGCACCATCACG
Found at i:34621306 original size:44 final size:44
Alignment explanation
Indices: 34621210--34621477 Score: 190
Period size: 44 Copynumber: 6.2 Consensus size: 44
34621200 ACTTGATGCG
* * * * *
34621210 ATCTGCTCTACTGCAACTTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATGACTTCA
*
34621254 ATCCGCTCCACTACAACTTCAGGGAGAT-AGAAT-TATCGACTTCA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAG-ATCTAT-GACTTCA
* * * *
34621298 ATCTGCTCCACTACAACCTCAAGGAGATAAGATTTACT-TCTTCA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTA-TGACTTCA
* * *** * * *
34621342 GTCTGCCCCACTGTGACTTCAGGGGGATAAGA-CT-TGA-TGCG
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATGACTTCA
** * * * * * *
34621383 ATCCACTCTACTGCAACGTCAGAGAGATAAGATCTATTACTTTA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATGACTTCA
* * *
34621427 ATCTGCTCCACTACAACTTCAGGGAAATAGGAT-TATAAGCTTCA
1 ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATGA-CTTCA
34621471 ATCTGCT
1 ATCTGCT
34621478 TCCTTACACT
Statistics
Matches: 168, Mismatches: 46, Indels: 20
0.72 0.20 0.09
Matches are distributed among these distances:
41 25 0.15
42 2 0.01
43 12 0.07
44 124 0.74
45 4 0.02
46 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.17, T:0.29
Consensus pattern (44 bp):
ATCTGCTCCACTACAACTTCAGGGAGATAAGATCTATGACTTCA
Found at i:34621639 original size:128 final size:128
Alignment explanation
Indices: 34621465--34621976 Score: 808
Period size: 128 Copynumber: 4.0 Consensus size: 128
34621455 AGGATTATAA
* *
34621465 GCTTCAATCTGCTTCCTTACACTTGAAGATAAGATTCACCATCTTCAATCTGCTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCAATCTGCTCCGCTACTGCT
* * *
34621530 TAGGGAGACAAGATTTGCAATTTCCAACCTATTCCACTGTTGGTCAGGGACATAGAACTTGTG
66 TAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
* *** * *
34621593 GCTTAAATCTGCTTCTTTACACTTGAAGATAAGATTTTTCGTCTTCAATCTGCTCCGTTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCAATCTGCTCCGCTACTGCT
34621658 TAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
66 TAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
* * * *
34621721 GTTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCGTCTTCGATCTGGTCCGCTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCAATCTGCTCCGCTACTGCT
* *
34621786 TAGGGAGATAAGATCTACAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
66 TAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
* * * *
34621849 GCTTAAATCTGCTTCTTTACACTTGAAGATAAGATTTGCCATCTTCGATCTGCTCCGTTACTGCT
1 GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCAATCTGCTCCGCTACTGCT
* * *
34621914 TAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTACTGGCCAGGGATATAGGACTTGTG
66 TAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
34621977 ATTTCACCGA
Statistics
Matches: 353, Mismatches: 31, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
128 353 1.00
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.32
Consensus pattern (128 bp):
GCTTAAATCTGCTTCCTTACACTTGAAGATAAGATTCGCCATCTTCAATCTGCTCCGCTACTGCT
TAGGGAGACAAGATCTGCAATTTCCAACCTATTCCACTGCTGGTCAGGGACATAGGACTTGTG
Found at i:34623156 original size:7 final size:7
Alignment explanation
Indices: 34623141--34623181 Score: 57
Period size: 7 Copynumber: 6.0 Consensus size: 7
34623131 CCGTCATTAC
34623141 TTTTCAT
1 TTTTCAT
*
34623148 TTTTTAT
1 TTTTCAT
34623155 TTTTCA-
1 TTTTCAT
34623161 TTTTCAT
1 TTTTCAT
*
34623168 TTTTAAT
1 TTTTCAT
34623175 TTTTCAT
1 TTTTCAT
34623182 CCCCCCCTTT
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
6 6 0.21
7 23 0.79
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (7 bp):
TTTTCAT
Found at i:34623166 original size:20 final size:20
Alignment explanation
Indices: 34623141--34623181 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
34623131 CCGTCATTAC
*
34623141 TTTTCATTTTTTATTTTTCA
1 TTTTCATTTTTAATTTTTCA
34623161 TTTTCATTTTTAATTTTTCA
1 TTTTCATTTTTAATTTTTCA
34623181 T
1 T
34623182 CCCCCCCTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.73
Consensus pattern (20 bp):
TTTTCATTTTTAATTTTTCA
Found at i:34624080 original size:29 final size:29
Alignment explanation
Indices: 34624046--34624110 Score: 78
Period size: 30 Copynumber: 2.2 Consensus size: 29
34624036 CTTTTTTCTC
34624046 TTTTTC-ATATTTTTATTTTGACTTTAAT
1 TTTTTCTATATTTTTATTTTGACTTTAAT
* * * *
34624074 TTATTTCTCTTTTTTTCTTTTGACTTTGAT
1 TT-TTTCTATATTTTTATTTTGACTTTAAT
34624104 TTTTTCT
1 TTTTTCT
34624111 TTTTTTGTTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
28 2 0.06
29 9 0.29
30 20 0.65
ACGTcount: A:0.14, C:0.11, G:0.05, T:0.71
Consensus pattern (29 bp):
TTTTTCTATATTTTTATTTTGACTTTAAT
Found at i:34624116 original size:22 final size:21
Alignment explanation
Indices: 34624083--34624153 Score: 63
Period size: 22 Copynumber: 3.3 Consensus size: 21
34624073 TTTATTTCTC
34624083 TTTTTTTCTTTTGACTTTGAT
1 TTTTTTTCTTTTGACTTTGAT
* **
34624104 TTTTTCTTTTTTTGTTTTTGAT
1 TTTTT-TTCTTTTGACTTTGAT
**
34624126 TTTGATTTTGATTTGA-TTTGAT
1 TTT--TTTTCTTTTGACTTTGAT
34624148 TTTTTT
1 TTTTTT
34624154 ATTGAATCTG
Statistics
Matches: 41, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
20 3 0.07
21 5 0.12
22 25 0.61
23 6 0.15
24 2 0.05
ACGTcount: A:0.10, C:0.04, G:0.11, T:0.75
Consensus pattern (21 bp):
TTTTTTTCTTTTGACTTTGAT
Found at i:34624121 original size:6 final size:6
Alignment explanation
Indices: 34624113--34624150 Score: 53
Period size: 6 Copynumber: 6.7 Consensus size: 6
34624103 TTTTTTCTTT
*
34624113 TTTTGT TTTTGA TTTTGA TTTTGA -TTTGA -TTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTTGA TTTT
34624151 TTTATTGAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
5 10 0.33
6 20 0.67
ACGTcount: A:0.13, C:0.00, G:0.16, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:34628984 original size:25 final size:24
Alignment explanation
Indices: 34628917--34628984 Score: 59
Period size: 25 Copynumber: 2.8 Consensus size: 24
34628907 ATGAAAATGT
*
34628917 TATTGTATAAATAAAATTA-CAAA
1 TATTGTAAAAATAAAATTATCAAA
* * * *
34628940 TA-TATAAAAATGGAATTTATGAATA
1 TATTGTAAAAAT-AAAATTATCAA-A
34628965 TATTGTAAAAATAAAATTAT
1 TATTGTAAAAATAAAATTAT
34628985 AAAAATGTGT
Statistics
Matches: 33, Mismatches: 8, Indels: 6
0.70 0.17 0.13
Matches are distributed among these distances:
22 7 0.21
23 7 0.21
24 2 0.06
25 9 0.27
26 8 0.24
ACGTcount: A:0.54, C:0.01, G:0.07, T:0.37
Consensus pattern (24 bp):
TATTGTAAAAATAAAATTATCAAA
Found at i:34629102 original size:15 final size:17
Alignment explanation
Indices: 34629066--34629109 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
34629056 ATGATAAAGG
34629066 AATAAAATTCATAATAA
1 AATAAAATTCATAATAA
*
34629083 AATAAAATT-A-AATTA
1 AATAAAATTCATAATAA
34629098 AATAAATATTCA
1 AATAAA-ATTCA
34629110 AACTAATACG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
15 10 0.42
16 4 0.17
17 10 0.42
ACGTcount: A:0.64, C:0.05, G:0.00, T:0.32
Consensus pattern (17 bp):
AATAAAATTCATAATAA
Found at i:34629148 original size:12 final size:12
Alignment explanation
Indices: 34629132--34629167 Score: 63
Period size: 12 Copynumber: 3.0 Consensus size: 12
34629122 AATAACATCT
34629132 ATAATAATAGTA
1 ATAATAATAGTA
*
34629144 GTAATAATAGTA
1 ATAATAATAGTA
34629156 ATAATAATAGTA
1 ATAATAATAGTA
34629168 TTATAATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.56, C:0.00, G:0.11, T:0.33
Consensus pattern (12 bp):
ATAATAATAGTA
Found at i:34634565 original size:17 final size:18
Alignment explanation
Indices: 34634543--34634592 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
34634533 ACCCACATAA
34634543 TATTTTT-TATTTTTCTT
1 TATTTTTGTATTTTTCTT
34634560 TATTTTTCGTA-TTTTCTT
1 TATTTTT-GTATTTTTCTT
*
34634578 TTTTTTTGTATTTTT
1 TATTTTTGTATTTTT
34634593 TCAATCAATT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
17 10 0.34
18 17 0.59
19 2 0.07
ACGTcount: A:0.10, C:0.06, G:0.04, T:0.80
Consensus pattern (18 bp):
TATTTTTGTATTTTTCTT
Found at i:34634574 original size:18 final size:17
Alignment explanation
Indices: 34634553--34634591 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 17
34634543 TATTTTTTAT
34634553 TTTTCTTTATTTTTCGTA
1 TTTTCTTT-TTTTTCGTA
*
34634571 TTTTCTTTTTTTTTGTA
1 TTTTCTTTTTTTTCGTA
34634588 TTTT
1 TTTT
34634592 TTCAATCAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
17 12 0.60
18 8 0.40
ACGTcount: A:0.08, C:0.08, G:0.05, T:0.79
Consensus pattern (17 bp):
TTTTCTTTTTTTTCGTA
Found at i:34634581 original size:26 final size:26
Alignment explanation
Indices: 34634543--34634592 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
34634533 ACCCACATAA
34634543 TATTTTTTATTTTTCTT-TATTTTTCG
1 TATTTTTTATTTTT-TTGTATTTTTCG
34634569 TATTTTCTT-TTTTTTTGTATTTTT
1 TATTTT-TTATTTTTTTGTATTTTT
34634593 TCAATCAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 2 0.09
26 18 0.82
27 2 0.09
ACGTcount: A:0.10, C:0.06, G:0.04, T:0.80
Consensus pattern (26 bp):
TATTTTTTATTTTTTTGTATTTTTCG
Found at i:34637684 original size:18 final size:15
Alignment explanation
Indices: 34637647--34637685 Score: 62
Period size: 15 Copynumber: 2.6 Consensus size: 15
34637637 ATAAAGGTTA
34637647 TAATAATAATAAAAG
1 TAATAATAATAAAAG
34637662 TAATAATAATAAAAG
1 TAATAATAATAAAAG
34637677 -AATCAATAA
1 TAAT-AATAA
34637686 AGAAATTGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 3 0.13
15 20 0.87
ACGTcount: A:0.67, C:0.03, G:0.05, T:0.26
Consensus pattern (15 bp):
TAATAATAATAAAAG
Found at i:34654755 original size:26 final size:27
Alignment explanation
Indices: 34654718--34654778 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
34654708 CAATTTGAAT
*
34654718 ATTTTTTGTAATT-TTAAATAAAT-TTA
1 ATTTTTTATAATTCTT-AATAAATGTTA
*
34654744 ATTTTTTATAATTCTTAATAATTGTTA
1 ATTTTTTATAATTCTTAATAAATGTTA
34654771 ATTATTTT
1 ATT-TTTT
34654779 TTCATAATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 18 0.60
27 8 0.27
28 4 0.13
ACGTcount: A:0.34, C:0.02, G:0.03, T:0.61
Consensus pattern (27 bp):
ATTTTTTATAATTCTTAATAAATGTTA
Found at i:34657497 original size:19 final size:19
Alignment explanation
Indices: 34657473--34657512 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
34657463 TTAATACTAG
34657473 TTGCATTGCTATTAAGGCA
1 TTGCATTGCTATTAAGGCA
34657492 TTGCATTGCTATTAAGGCA
1 TTGCATTGCTATTAAGGCA
34657511 TT
1 TT
34657513 AGCTTGATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.25, C:0.15, G:0.20, T:0.40
Consensus pattern (19 bp):
TTGCATTGCTATTAAGGCA
Found at i:34667182 original size:24 final size:24
Alignment explanation
Indices: 34667144--34667443 Score: 151
Period size: 24 Copynumber: 12.8 Consensus size: 24
34667134 TGAATTGGAT
* *
34667144 AATTTACAATAAATAATATATAATA
1 AATTTAAAAT-AATAATATATGATA
* *
34667169 AATTTGAAATAATAATACAT-ATA
1 AATTTAAAATAATAATATATGATA
* * *
34667192 AAATTCAAA-AAT--TTTGATGAT-
1 AATTTAAAATAATAATAT-ATGATA
* * **
34667213 AATTCTAGAATAATCATACGTGATA
1 AATT-TAAAATAATAATATATGATA
** * *
34667238 AATCCAAAATAATAGTATATAATA
1 AATTTAAAATAATAATATATGATA
*
34667262 AATTT-AAA-AATATTA-ATGATA
1 AATTTAAAATAATAATATATGATA
* *
34667283 AATTTGAAATAA-ATATACATGATA
1 AATTTAAAATAATA-ATATATGATA
** * *
34667307 AATTTAAAATAATGTTA-ACGATG
1 AATTTAAAATAATAATATATGATA
34667330 AATTTAAAATAATAATAT-TGATA
1 AATTTAAAATAATAATATATGATA
* *
34667353 AA-TTACAAATAATAAAACATGATA
1 AATTTA-AAATAATAATATATGATA
* **
34667377 AATCTAAAATAATAATATACAATA
1 AATTTAAAATAATAATATATGATA
* * * *
34667401 AACTT-AGATAATATTA-ATGATT
1 AATTTAAAATAATAATATATGATA
*
34667423 AATTTAATGATAATAAGTATA
1 AATTTAA-AATAATAA-TATA
34667444 AACATTCAAA
Statistics
Matches: 204, Mismatches: 51, Indels: 39
0.69 0.17 0.13
Matches are distributed among these distances:
20 1 0.00
21 15 0.07
22 28 0.14
23 64 0.31
24 79 0.39
25 16 0.08
26 1 0.00
ACGTcount: A:0.54, C:0.05, G:0.06, T:0.34
Consensus pattern (24 bp):
AATTTAAAATAATAATATATGATA
Found at i:34667240 original size:69 final size:69
Alignment explanation
Indices: 34667151--34667427 Score: 172
Period size: 69 Copynumber: 4.0 Consensus size: 69
34667141 GATAATTTAC
* * * * *
34667151 AATAAATAATATATAATAAATTTGAAATAATAATACAT-ATAAAATTCAAAAATTTTGATGAT-A
1 AATAAAT-ATACATGATAAATTTAAAATAATAATACATAAT-AAATTCAAAAATATTAATGATAA
34667214 ATTCT-A
64 ATT-TGA
* ** * * *
34667220 GAAT-AATCATACGTGATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAA
1 -AATAAAT-ATACATGATAAATTTAAAATAATAATACATAATAAATTCAAAAATATTAATGATAA
34667284 ATTTGA
64 ATTTGA
** ** * * * *
34667290 AATAAATATACATGATAAATTTAAAATAATGTTA-ACGATGAATTTAAAATAATAATATTGATAA
1 AATAAATATACATGATAAATTTAAAATAATAATACATAAT-AAATTCAAA-AATATTAATGATAA
**
34667354 ATTACA
64 ATTTGA
* * * * * *
34667360 AAT-AATAAAACATGATAAATCTAAAATAATAATATACAATAAACTT-AGATAATATTAATGATT
1 AATAAAT-ATACATGATAAATTTAAAATAATAATACATAATAAA-TTCA-AAAATATTAATGATA
34667423 AATTT
63 AATTT
34667428 AATGATAATA
Statistics
Matches: 161, Mismatches: 36, Indels: 20
0.74 0.17 0.09
Matches are distributed among these distances:
68 3 0.02
69 79 0.49
70 72 0.45
71 7 0.04
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (69 bp):
AATAAATATACATGATAAATTTAAAATAATAATACATAATAAATTCAAAAATATTAATGATAAAT
TTGA
Found at i:34667412 original size:70 final size:69
Alignment explanation
Indices: 34667233--34667426 Score: 185
Period size: 70 Copynumber: 2.8 Consensus size: 69
34667223 TAATCATACG
* * * * * **
34667233 TGATAAATCCAAAATAATAGTATATAATAAATTTAAAAATATTAATGATAAATTTGAAATAAATA
1 TGATAAATCTAAAATAATAATATACAATAAATTTAATAATAATAATGATAAATTACAAATAAATA
*
34667298 TACA
66 AACA
* ** * * *
34667302 TGATAAATTTAAAATAATGTTA-ACGATGAATTTAAAATAATAATATTGATAAATTACAAAT-AA
1 TGATAAATCTAAAATAATAATATACAATAAATTT--AATAATAATAATGATAAATTACAAATAAA
34667365 TAAAACA
64 T-AAACA
* * *
34667372 TGATAAATCTAAAATAATAATATACAATAAACTTAGATAATATTAATGATTAATT
1 TGATAAATCTAAAATAATAATATACAATAAATTTA-ATAATAATAATGATAAATT
34667427 TAATGATAAT
Statistics
Matches: 98, Mismatches: 22, Indels: 9
0.76 0.17 0.07
Matches are distributed among these distances:
68 8 0.08
69 22 0.22
70 60 0.61
71 8 0.08
ACGTcount: A:0.55, C:0.05, G:0.06, T:0.34
Consensus pattern (69 bp):
TGATAAATCTAAAATAATAATATACAATAAATTTAATAATAATAATGATAAATTACAAATAAATA
AACA
Found at i:34668230 original size:19 final size:19
Alignment explanation
Indices: 34668197--34668266 Score: 88
Period size: 19 Copynumber: 3.6 Consensus size: 19
34668187 TTGATTTCTT
34668197 TTTTCCTCCCTTTACACTGA
1 TTTTCC-CCCTTTACACTGA
** *
34668217 TTTTTTCTCTTTACACTGA
1 TTTTCCCCCTTTACACTGA
34668236 TTTTCCCCCTTTACACTGA
1 TTTTCCCCCTTTACACTGA
34668255 -TTTCCTCCCTTT
1 TTTTCC-CCCTTT
34668267 TTTATGAATA
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
18 5 0.12
19 34 0.79
20 4 0.09
ACGTcount: A:0.13, C:0.33, G:0.04, T:0.50
Consensus pattern (19 bp):
TTTTCCCCCTTTACACTGA
Found at i:34674306 original size:82 final size:82
Alignment explanation
Indices: 34674169--34674332 Score: 328
Period size: 82 Copynumber: 2.0 Consensus size: 82
34674159 CCAATGAGGC
34674169 AAGATGGAATGTACCTTTGGTTTAGAGCTTACTTTCAGATGTTGAGGCCAAACGTGTTTTATGTA
1 AAGATGGAATGTACCTTTGGTTTAGAGCTTACTTTCAGATGTTGAGGCCAAACGTGTTTTATGTA
34674234 TCCCATTGGCTCTTTCG
66 TCCCATTGGCTCTTTCG
34674251 AAGATGGAATGTACCTTTGGTTTAGAGCTTACTTTCAGATGTTGAGGCCAAACGTGTTTTATGTA
1 AAGATGGAATGTACCTTTGGTTTAGAGCTTACTTTCAGATGTTGAGGCCAAACGTGTTTTATGTA
34674316 TCCCATTGGCTCTTTCG
66 TCCCATTGGCTCTTTCG
34674333 GGTCAAGAGG
Statistics
Matches: 82, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
82 82 1.00
ACGTcount: A:0.22, C:0.17, G:0.23, T:0.38
Consensus pattern (82 bp):
AAGATGGAATGTACCTTTGGTTTAGAGCTTACTTTCAGATGTTGAGGCCAAACGTGTTTTATGTA
TCCCATTGGCTCTTTCG
Found at i:34675925 original size:18 final size:18
Alignment explanation
Indices: 34675867--34675926 Score: 52
Period size: 20 Copynumber: 3.3 Consensus size: 18
34675857 AAATATAAAT
34675867 TATTCTATTTATATTT-TA
1 TATT-TATTTATATTTATA
* **
34675885 T-TTTATATATATAAATAA
1 TATTTATTTATATTTAT-A
34675903 TTATTTATTTATATTTATA
1 -TATTTATTTATATTTATA
34675922 TATTT
1 TATTT
34675927 TCTTCACTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 8 0.25
17 3 0.09
18 7 0.22
19 2 0.06
20 12 0.38
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (18 bp):
TATTTATTTATATTTATA
Found at i:34676538 original size:30 final size:30
Alignment explanation
Indices: 34676502--34676559 Score: 116
Period size: 30 Copynumber: 1.9 Consensus size: 30
34676492 ACCTACAAGA
34676502 TTATGATTGTCTTGTGACTGAAGATAATGT
1 TTATGATTGTCTTGTGACTGAAGATAATGT
34676532 TTATGATTGTCTTGTGACTGAAGATAAT
1 TTATGATTGTCTTGTGACTGAAGATAAT
34676560 ATTTTTTTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.28, C:0.07, G:0.22, T:0.43
Consensus pattern (30 bp):
TTATGATTGTCTTGTGACTGAAGATAATGT
Found at i:34683992 original size:13 final size:13
Alignment explanation
Indices: 34683974--34683998 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
34683964 AAAACTGTTT
34683974 TGAGTGCTGCTCA
1 TGAGTGCTGCTCA
34683987 TGAGTGCTGCTC
1 TGAGTGCTGCTC
34683999 TTGTTAAGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.12, C:0.24, G:0.32, T:0.32
Consensus pattern (13 bp):
TGAGTGCTGCTCA
Found at i:34684456 original size:16 final size:16
Alignment explanation
Indices: 34684435--34684476 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
34684425 TTATTAAATT
*
34684435 ATATATTTTAATTATA
1 ATATATTTTAATAATA
34684451 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
34684466 AT-TATGTTTAA
1 ATATAT-TTTAA
34684477 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:34684461 original size:15 final size:15
Alignment explanation
Indices: 34684426--34684467 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34684416 TTAAGAATTT
*
34684426 TATTAAATTAT-ATA
1 TATTTAATTATAATA
34684440 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
34684454 TATTTAATAATAAT
1 TATTTAATTATAAT
34684468 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:34684607 original size:18 final size:17
Alignment explanation
Indices: 34684579--34684613 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34684569 ATTATTAAGA
*
34684579 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34684596 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34684614 TTAATAATAA
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:34684612 original size:157 final size:157
Alignment explanation
Indices: 34684410--34684726 Score: 571
Period size: 157 Copynumber: 2.0 Consensus size: 157
34684400 ATAAGAATAT
*
34684410 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
34684475 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAAATTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAAATTAAATAACAATAACAA
*
34684540 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
34684567 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* * *
34684632 AAATATGGTTAAATTATTTATTTTTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAAATTAAATAACAATAACAA
*
34684697 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
34684724 TAA
1 TAA
34684727 GGGTATTTTA
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAAATTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:34684870 original size:16 final size:16
Alignment explanation
Indices: 34684849--34684900 Score: 86
Period size: 16 Copynumber: 3.2 Consensus size: 16
34684839 GATTTGCTAT
*
34684849 TACACCTCTATTCCAA
1 TACACCTCTAATCCAA
*
34684865 TACACCTCTAATCCAT
1 TACACCTCTAATCCAA
34684881 TACACCTCTAATCCAA
1 TACACCTCTAATCCAA
34684897 TACA
1 TACA
34684901 GCGAACCAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 33 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.29
Consensus pattern (16 bp):
TACACCTCTAATCCAA
Found at i:34685093 original size:19 final size:17
Alignment explanation
Indices: 34685052--34685088 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
34685042 ATTATTATTC
34685052 TATTTAAAATAAAATAT
1 TATTTAAAATAAAATAT
34685069 TATTTATAAATAAAA-AT
1 TATTTA-AAATAAAATAT
34685086 TAT
1 TAT
34685089 ATTTACTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (17 bp):
TATTTAAAATAAAATAT
Found at i:34685849 original size:12 final size:12
Alignment explanation
Indices: 34685819--34685851 Score: 52
Period size: 11 Copynumber: 2.9 Consensus size: 12
34685809 TATATTTTTT
34685819 AAAATT-ATATA
1 AAAATTAATATA
34685830 AAAA-TAATATA
1 AAAATTAATATA
34685841 AAAATTAATAT
1 AAAATTAATAT
34685852 GGAAGGGGTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
10 1 0.05
11 13 0.65
12 6 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AAAATTAATATA
Found at i:34688719 original size:9 final size:9
Alignment explanation
Indices: 34688705--34688729 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
34688695 AAACAAAAAG
34688705 ATAATAACA
1 ATAATAACA
34688714 ATAATAACA
1 ATAATAACA
34688723 ATAATAA
1 ATAATAA
34688730 TAATTTATTA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.68, C:0.08, G:0.00, T:0.24
Consensus pattern (9 bp):
ATAATAACA
Done.