Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: 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: 64368997
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1610000 characters in sequence are not A, C, G, or T
File 179 of 208
Found at i:56536555 original size:14 final size:16
Alignment explanation
Indices: 56536530--56536565 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
56536520 GTCAAAATGC
56536530 AATTTTTATTTTTT-A
1 AATTTTTATTTTTTGA
56536545 AATTTTT-TTTTTTGA
1 AATTTTTATTTTTTGA
56536560 AATTTT
1 AATTTT
56536566 GAAAATTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
14 6 0.30
15 14 0.70
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (16 bp):
AATTTTTATTTTTTGA
Found at i:56536913 original size:54 final size:54
Alignment explanation
Indices: 56536807--56536963 Score: 289
Period size: 54 Copynumber: 2.9 Consensus size: 54
56536797 CACGTGAGCC
*
56536807 AAGGCTCAACTCACTTCTCGCAATATG-GTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
56536860 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
*
56536914 AAGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA
56536964 CTGAAAAGTA
Statistics
Matches: 101, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
53 26 0.26
54 75 0.74
ACGTcount: A:0.38, C:0.18, G:0.15, T:0.29
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:56537073 original size:200 final size:199
Alignment explanation
Indices: 56536722--56537261 Score: 839
Period size: 200 Copynumber: 2.7 Consensus size: 199
56536712 GTGATCCTGA
* * * * * *
56536722 GCTCAACTCATTTCTCGCAATATGAATTGACTATTT--AAAACTAGACATTAAAAATAGAAATTG
1 GCTCAACTCATCTCTCGCAATATGAGTTGA-TTTTTGAAAAAC-AGAAATGAAAAGTAGAAATTG
* * * *
56536785 AAAATAGC-TCAGCACGTGAGCC-AAGGCTCAACTCACTTCTCGCAATATG-GTTGA-----TTT
64 AAAATA-CATCAG--CGTG-TCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTT
*
56536842 TTGAAAAACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
125 TTGAAACACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAG
56536907 AAATTAAAAG
190 AAATTAAAAG
56536917 GCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAACTGAAAAGTAGAAATTGA
1 GCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TGAAAAGTAGAAATTGA
56536982 AAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTTGAA
65 AAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTTGAA
56537047 ACACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
130 ACACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT
56537112 AAAAG
195 AAAAG
56537117 GCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAAAGTAGAAATTGA
1 GCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAA-TGAAAAGTAGAAATTGA
56537182 AAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTTGAA
65 AAATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTTGAA
56537247 ACACAGAAATTAAAA
130 ACACAGAAATTAAAA
56537262 AACAGAAATT
Statistics
Matches: 322, Mismatches: 12, Indels: 17
0.92 0.03 0.05
Matches are distributed among these distances:
193 2 0.01
194 32 0.10
195 38 0.12
196 29 0.09
200 221 0.69
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (199 bp):
GCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATGAAAAGTAGAAATTGAA
AATACATCAGCGTGTCCTGAGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTTGAAA
CACAGAAATTAAAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTA
AAAG
Found at i:56537121 original size:54 final size:54
Alignment explanation
Indices: 56537002--56537171 Score: 259
Period size: 54 Copynumber: 3.0 Consensus size: 54
56536992 GCGTGTCCTG
* *
56537002 AGGCTCAACTCACCTCTTGCAATATGAGTTGATTTTTTTTTTGAAACACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-----TTTTTGAAAAACAGAAATTAAA
56537061 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
*
56537115 AGGCTCAACTCATCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT-AAA
56537170 AG
1 AG
56537172 TAGAAATTGA
Statistics
Matches: 107, Mismatches: 3, Indels: 6
0.92 0.03 0.05
Matches are distributed among these distances:
54 71 0.66
55 5 0.05
59 31 0.29
ACGTcount: A:0.37, C:0.17, G:0.15, T:0.31
Consensus pattern (54 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAAA
Found at i:56537169 original size:14 final size:14
Alignment explanation
Indices: 56537150--56537184 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
56537140 GAGTTGATTT
56537150 TTGAAAAACAGAAA
1 TTGAAAAACAGAAA
**
56537164 TTGAAAAGTAGAAA
1 TTGAAAAACAGAAA
56537178 TTGAAAA
1 TTGAAAA
56537185 TACATCAGCG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.60, C:0.03, G:0.17, T:0.20
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:56537277 original size:13 final size:14
Alignment explanation
Indices: 56537249--56537281 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
56537239 TTTTTGAAAC
56537249 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
56537263 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
56537276 ACAGAA
1 ACAGAA
56537282 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:56537289 original size:14 final size:14
Alignment explanation
Indices: 56537242--56537289 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
56537232 GATTTTTTTT
*
56537242 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
56537256 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
56537270 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
56537283 TTGAAAA
1 TTGAAAA
56537290 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:56537420 original size:85 final size:87
Alignment explanation
Indices: 56537277--56537441 Score: 219
Period size: 87 Copynumber: 1.9 Consensus size: 87
56537267 AAATTAAAAA
* *
56537277 CAGAATTTGAAAAGACCTCAGCGTGTGGCCTGAGACTCAACTCACCTCTTGCAATATGAGTT-GA
1 CAGAAATTGAAAAGACCTCAGCG-GTGGCCTGAGACTCAACTCACCTCTCGCAATATGAGTTAGA
*
56537341 TTTGAAAAGTAGAATTAGTAAAG
65 TTTGAAAAGCAGAATTAGTAAAG
* * *
56537364 CAGAAATTGAAAATACCTCAGC-GT-GCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTTAAG
1 CAGAAATTGAAAAGACCTCAGCGGTGGCC-TGAGACTCAACTCACCTCTCGCAATATGAGTT-AG
*
56537427 TTTTGAAAAGCAGAA
64 ATTTGAAAAGCAGAA
56537442 ATTGAAAATA
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
84 3 0.04
85 31 0.46
87 34 0.50
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.26
Consensus pattern (87 bp):
CAGAAATTGAAAAGACCTCAGCGGTGGCCTGAGACTCAACTCACCTCTCGCAATATGAGTTAGAT
TTGAAAAGCAGAATTAGTAAAG
Found at i:56537479 original size:73 final size:73
Alignment explanation
Indices: 56537360--56537737 Score: 597
Period size: 73 Copynumber: 5.2 Consensus size: 73
56537350 TAGAATTAGT
* * *
56537360 AAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
56537424 AAGTTTTGA
66 AA-TTTTGA
* *
56537433 AAAGCAGAAATTGAAAATACCTCAATGTGTCTTGACGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
56537498 AATTTTGA
66 AATTTTGA
*
56537506 AAA-CA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 AAAGCAGAA-ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
56537569 GAATTTTGA
65 GAATTTTGA
*
56537578 GAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
56537643 AATTTTGA
66 AATTTTGA
* *
56537651 AAA-CAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
56537715 -ATTTTGA
66 AATTTTGA
* *
56537722 AAAACAAAAATT-AAAA
1 AAAGCAGAAATTGAAAA
56537738 GGCTTAACTC
Statistics
Matches: 285, Mismatches: 15, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
71 15 0.05
72 131 0.46
73 135 0.47
74 4 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (73 bp):
AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
AATTTTGA
Found at i:56537552 original size:72 final size:72
Alignment explanation
Indices: 56537364--56537737 Score: 585
Period size: 72 Copynumber: 5.2 Consensus size: 72
56537354 ATTAGTAAAG
* * *
56537364 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
56537428 TTTGAAAA
65 TTTGAAAA
* *
56537436 GCAGAAATTGAAAATACCTCAATGTGTCTTGACGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 -CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
56537501 TTTGAAAA
65 TTTGAAAA
*
56537509 CA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 CAGAA-ATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
*
56537573 TTTGAGAAG
65 TTTGA-AAA
56537582 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
56537647 TTGAAAA
66 TTGAAAA
* *
56537654 CAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATT
1 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
56537718 TTGAAAAA
66 TTG-AAAA
*
56537726 CAAAAATT-AAAA
1 CAGAAATTGAAAA
56537738 GGCTTAACTC
Statistics
Matches: 281, Mismatches: 15, Indels: 12
0.91 0.05 0.04
Matches are distributed among these distances:
71 11 0.04
72 135 0.48
73 131 0.47
74 4 0.01
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (72 bp):
CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAA
Found at i:56537618 original size:145 final size:145
Alignment explanation
Indices: 56537364--56537737 Score: 612
Period size: 145 Copynumber: 2.6 Consensus size: 145
56537354 ATTAGTAAAG
* * * *
56537364 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
*
56537428 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGACGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGACGCTCAACTCATTTCTCGCAATATG
56537493 AGTTGAATTTTGAAAA
130 AGTTGAATTTTGAAAA
56537509 CA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
1 CAGAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAAT
* *
56537573 TTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGACGCTCAACTCATTTCTCGCAATATG
56537638 AGTTGAATTTTGAAAA
130 AGTTGAATTTTGAAAA
*
56537654 CAGAAATTGAAATTACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* *
56537718 TTGAAAAACAAAAATT-AAAA
66 TTGAAAAGCAGAAATTGAAAA
56537738 GGCTTAACTC
Statistics
Matches: 215, Mismatches: 11, Indels: 8
0.92 0.05 0.03
Matches are distributed among these distances:
143 4 0.02
144 18 0.08
145 189 0.88
146 4 0.02
ACGTcount: A:0.35, C:0.18, G:0.17, T:0.30
Consensus pattern (145 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGACGCTCAACTCATTTCTCGCAATATGA
GTTGAATTTTGAAAA
Found at i:56537832 original size:122 final size:127
Alignment explanation
Indices: 56537612--56538271 Score: 462
Period size: 145 Copynumber: 5.0 Consensus size: 127
56537602 ACGTGTCTTG
** * * * *
56537612 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAATG
56537677 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTGAAA
* *
56537737 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAATG
* *
56537799 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTGAAA
** * * * * * * * * **
56537861 ATACCTCAATGTGTCTTGACGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AA
1 A-GGCTCAA-----C-TCAC-CTC-TCGCA-ATAT-G-AGT-TCA----ATTTTGAAAA-CAGAA
* * * *
56537925 TATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
48 -ACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
* * *
56537990 GAAGCAGAAATTGAAA
112 AAAACAAAAATTGAAA
** * * * * * * * * ** *
56538006 ATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAA
1 A-GGCTCAAC---TC---A-CCTC-TCGCA-ATAT-G-AGT-TCA----ATTTTGAAAA-CAGAA
* * * *
56538071 ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAA
48 ACTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAA
56538135 AAACAAAAATT-AAA
113 AAACAAAAATTGAAA
* *
56538149 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAATG
*
56538211 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATTGAAA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTGAAA
56538272 TTACCTCAAC
Statistics
Matches: 453, Mismatches: 49, Indels: 68
0.79 0.09 0.12
Matches are distributed among these distances:
122 128 0.28
123 32 0.07
124 10 0.02
125 30 0.07
129 2 0.00
130 1 0.00
131 4 0.01
132 4 0.01
133 5 0.01
134 5 0.01
135 4 0.01
136 2 0.00
138 2 0.00
139 2 0.00
140 1 0.00
142 7 0.02
143 7 0.02
144 21 0.05
145 184 0.41
146 2 0.00
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (127 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAATG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAACAAAAATTGAAA
Found at i:56537879 original size:73 final size:72
Alignment explanation
Indices: 56537737--56538149 Score: 620
Period size: 72 Copynumber: 5.8 Consensus size: 72
56537727 AAAAATTAAA
* ** * * * * *
56537737 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAAATACCTCAACG
56537799 TGTCTTG
66 TGTCTTG
* *
56537806 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAAT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA-CAAAAATTGAAAATACCTCAAC
56537871 GTGTCTTG
65 GTGTCTTG
* * *
56537879 ACGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAATATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAAATACCTCAACG
56537944 TGTCTTG
66 TGTCTTG
* *
56537951 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAAAAATTGAAAATACCTCAAC
56538016 GTGTCTTG
65 GTGTCTTG
*
56538024 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAAATACCTCAACG
56538089 TGTCTTG
66 TGTCTTG
56538096 AGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAAA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTGAAAA
56538150 GGCTTAACTC
Statistics
Matches: 317, Mismatches: 21, Indels: 10
0.91 0.06 0.03
Matches are distributed among these distances:
69 25 0.08
70 3 0.01
71 12 0.04
72 141 0.44
73 136 0.43
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAAATACCTCAACG
TGTCTTG
Found at i:56538003 original size:145 final size:144
Alignment explanation
Indices: 56537751--56538149 Score: 646
Period size: 145 Copynumber: 2.8 Consensus size: 144
56537741 TTAACTCACC
* * * * *
56537751 TCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAACA-AAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
*
56537813 ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTT
65 ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTT
56537878 GACGCTCAACTCATT
130 GACGCTCAACTCATT
56537893 TCTCGCAATATGAGTTGAATTTTGAAAACAAATATTGAAATTACCTCAACGTGTCTTGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCA
*
56537958 ACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTT
65 ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTT
*
56538023 GAGGCTCAACTCATT
130 GACGCTCAACTCATT
56538038 TCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAAC-AAAATTGAAATTACCTCAACGTGTCTTGAGGCTCA
* *
56538103 ACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATT-AAAA
65 ACTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAA
56538150 GGCTTAACTC
Statistics
Matches: 241, Mismatches: 11, Indels: 9
0.92 0.04 0.03
Matches are distributed among these distances:
142 14 0.06
143 7 0.03
144 21 0.09
145 196 0.81
146 3 0.01
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (144 bp):
TCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAA
CTCATTTCTCGCAATATGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTG
ACGCTCAACTCATT
Found at i:56538291 original size:72 final size:72
Alignment explanation
Indices: 56538149--56538845 Score: 1179
Period size: 72 Copynumber: 9.7 Consensus size: 72
56538139 AAAAATTAAA
* ** * * * * * *
56538149 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
56538211 TGTCTTG
66 TGTCTTG
56538218 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
56538283 TGTCTTG
66 TGTCTTG
56538290 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
56538355 TGTCTTG
66 TGTCTTG
56538362 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
56538427 TGTCTTG
66 TGTCTTG
* *
56538434 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAAC
56538499 GTGTCTTG
65 GTGTCTTG
*
56538507 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
56538572 TGTCTTG
66 TGTCTTG
*
56538579 ACGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAA-ATTGAAATTACCTCAAC
56538643 GTGTCTTG
65 GTGTCTTG
* *
56538651 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAAC
56538716 GTGTCTTG
65 GTGTCTTG
56538724 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
56538789 TGTCTTG
66 TGTCTTG
*
56538796 AGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
56538846 AAAAGGCTTA
Statistics
Matches: 598, Mismatches: 22, Indels: 13
0.94 0.03 0.02
Matches are distributed among these distances:
69 25 0.04
70 3 0.01
71 11 0.02
72 420 0.70
73 137 0.23
74 2 0.00
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:56538577 original size:217 final size:216
Alignment explanation
Indices: 56538149--56539545 Score: 1509
Period size: 217 Copynumber: 6.2 Consensus size: 216
56538139 AAAAATTAAA
* ** * * * * *
56538149 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAATTGAAATTACCTCAACG
* *
56538211 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTA
65 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATA
56538275 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
130 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
56538340 GAAATTACCTCAACGTGTCTTG
195 GAAATTACCTCAACGTGTCTTG
56538362 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAATTGAAATTACCTCAACG
56538427 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATA
65 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATA
56538492 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
130 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
*
56538557 GAAATTACCTCAATGTGTCTTG
195 GAAATTACCTCAACGTGTCTTG
*
56538579 ACGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAGATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAA-ATTGAAATTACCTCAACG
56538644 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATA
65 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATA
56538709 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
130 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
56538774 GAAATTACCTCAACGTGTCTTG
195 GAAATTACCTCAACGTGTCTTG
* *
56538796 AGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATTAAAAGGCTTAACTC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAAC-AAAATTGAAA---TTACCTC
* * * * ** ** *** * * *
56538860 -ACCTCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTG--TCTTGAG--
61 AACGTGT--C--T-TGAGGC---TCAACTCAT-TTCTCGCAATA--TGAGT-TGAATTTTGAGAA
** * ** * ** ** * * * *
56538920 GCTCAACTCATTTCTCGCAATATGAGTTGAA--T-T-TTGAAAACAGAAATTGAAATTAC-CTCA
114 GCAGAA---A--T-T-G-AAAAT-ACCTCAACGTGTCTTG-AGGC-TCAACT--CATTTCTCGCA
* ** *
56538980 ACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAAT
166 A----T-ATGA-G-TTGA---ATTT-T-G-AA-A--A----CA-----------GAAATTGAAAT
56539045 TACCTCAACGTGTCTTG
200 TACCTCAACGTGTCTTG
56539062 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAATTGAAATTACCTCAACG
56539127 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATA
65 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATA
56539192 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
130 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
56539257 GAAATTACCTCAACGTGTCTTG
195 GAAATTACCTCAACGTGTCTTG
*
56539279 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTAAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACA-AAATTGAAATTACCTCAACG
* *
56539344 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTA
65 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATA
* * *
56539408 CCTCAACGTGTCCTGAGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAA
130 CCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAA-AACAGAA
* *
56539472 ATT-AAATTACCTCAGCGTGTCCTG
192 ATTGAAATTACCTCAACGTGTCTTG
** *
56539496 AGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACATAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACA-AAATT
56539546 AAAAGGCTTA
Statistics
Matches: 1007, Mismatches: 95, Indels: 160
0.80 0.08 0.13
Matches are distributed among these distances:
213 25 0.02
214 3 0.00
215 22 0.02
216 124 0.12
217 557 0.55
218 13 0.01
219 4 0.00
220 6 0.01
221 1 0.00
223 1 0.00
224 5 0.00
227 10 0.01
228 7 0.01
229 6 0.01
230 4 0.00
231 2 0.00
232 5 0.00
233 4 0.00
234 6 0.01
235 10 0.01
236 9 0.01
237 1 0.00
238 4 0.00
239 1 0.00
240 3 0.00
241 3 0.00
242 3 0.00
243 3 0.00
244 1 0.00
245 4 0.00
246 1 0.00
247 9 0.01
248 10 0.01
249 6 0.01
250 4 0.00
251 5 0.00
252 2 0.00
253 4 0.00
254 6 0.01
255 7 0.01
256 10 0.01
259 5 0.00
260 1 0.00
262 1 0.00
263 6 0.01
264 4 0.00
265 1 0.00
266 72 0.07
267 6 0.01
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (216 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAATTGAAATTACCTCAACGT
GTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATAC
CTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTG
AAATTACCTCAACGTGTCTTG
Found at i:56538944 original size:122 final size:125
Alignment explanation
Indices: 56538724--56538967 Score: 361
Period size: 122 Copynumber: 2.0 Consensus size: 125
56538714 ACGTGTCTTG
** * * * *
56538724 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
56538789 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAAACAAAAATTAAA
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAAAAATTAAA
* * *
56538849 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
*
56538911 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATT
56538968 GAAATTACCT
Statistics
Matches: 108, Mismatches: 10, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
122 71 0.66
123 9 0.08
124 3 0.03
125 25 0.23
ACGTcount: A:0.37, C:0.18, G:0.14, T:0.31
Consensus pattern (125 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTCAATTTTGAAAACAGAAACTAAAAATACCTCAACG
TGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAAAAATTAAA
Found at i:56538991 original size:72 final size:72
Alignment explanation
Indices: 56538849--56539545 Score: 1118
Period size: 72 Copynumber: 9.7 Consensus size: 72
56538839 AAAAATTAAA
* ** * * * * * *
56538849 AGGCTTAACTCACCTCTCGCAATATGAG-TCAA-TTT-AAAACATAAACTAAAAATACCTCAATG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
56538911 TGTCTTG
66 TGTCTTG
56538918 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
56538983 TGTCTTG
66 TGTCTTG
56538990 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
56539055 TGTCTTG
66 TGTCTTG
56539062 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
56539127 TGTCTTG
66 TGTCTTG
* *
56539134 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAAC
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAAC
56539199 GTGTCTTG
65 GTGTCTTG
56539207 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
56539272 TGTCTTG
66 TGTCTTG
*
56539279 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTAAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
56539344 TGTCTTG
66 TGTCTTG
56539351 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
*
56539416 TGTCCTG
66 TGTCTTG
* *
56539423 AGGCTCAACTCA-TTCTCGCAATATGAGTTGATTTTTTTTAACAACAGAAATT-AAATTACCTCA
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAA-AACAGAAATTGAAATTACCTCA
* *
56539486 GCGTGTCCTG
63 ACGTGTCTTG
** * *
56539496 AGGCTCAACTCACCTCTAGCAATATGAGTTG-ATTTTGAAAAACATAAATT
1 AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
56539546 AAAAGGCTTA
Statistics
Matches: 595, Mismatches: 24, Indels: 16
0.94 0.04 0.03
Matches are distributed among these distances:
69 25 0.04
70 3 0.01
71 35 0.06
72 398 0.67
73 108 0.18
74 26 0.04
ACGTcount: A:0.34, C:0.19, G:0.16, T:0.31
Consensus pattern (72 bp):
AGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACG
TGTCTTG
Found at i:56539188 original size:700 final size:699
Alignment explanation
Indices: 56537481--56539667 Score: 3692
Period size: 700 Copynumber: 3.2 Consensus size: 699
56537471 TCAACTCATT
* * * *
56537481 TCTCGCAATATGAGTTGAATTTTGAAAACA-AAGATTGAAATTACCTCAACGTGTCTTGAGGCTC
1 TCTCGCAATATGAG-TCAA-TTT-AAAACATAA-ACTAAAAATACCTCAACGTGTCTTGAGGCTC
* *
56537545 AACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCT
62 AACTCATTTCTCGCAATATGAGTTGAATTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCT
56537610 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
126 TGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAA
* *
56537675 TGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG-ATTTTGAAAA-A-CAA---AAATT
191 CGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATT
* * * * *
56537734 A----AAAG-G-CTT-A-ACTC-AC-C---TCTCGCAATATGAG-TCAA-TTT-A-AAACATAAA
256 ACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAA
* * *
56537782 CTAAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
321 TTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAA
*
56537847 AGCAGAAATTGAAAATACCTCAATGTGTCTTGACGCTCAACTCATTTCTCGCAATATGAGTTGAA
386 A-CAGAAATTGAAATTACCTCAATGTGTCTTGACGCTCAACTCATTTCTCGCAATATGAGTTGAA
56537912 TTTTGAAAACAAATATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
450 TTTTGAAAACAAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
56537977 AGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
514 AGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
*
56538042 GCAATATGAGTTGAATTTTGAAAACAAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTC
579 GCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTC
56538107 ATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
644 ATTTCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
*
56538163 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAACT
1 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGTCTTGAGGCTCAACT
56538228 CATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGG
66 CATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGG
56538293 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
131 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
56538358 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTC
196 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTC
56538423 AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAA
261 AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAA
56538488 AATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
326 AATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
56538553 AATTGAAATTACCTCAATGTGTCTTGACGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
391 AATTGAAATTACCTCAATGTGTCTTGACGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
56538618 AAACAAAGATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
456 AAACAAA-ATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
56538683 ATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
520 ATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
56538748 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
585 TGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
56538813 CGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
650 CGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
*
56538863 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAATGTGTCTTGAGGCTCAACT
1 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGTCTTGAGGCTCAACT
56538928 CATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGG
66 CATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGG
56538993 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
131 CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
56539058 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTC
196 CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTC
56539123 AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAA
261 AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAA
56539188 AATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
326 AATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
* *
56539253 AATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
391 AATTGAAATTACCTCAATGTGTCTTGACGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
*
56539318 AAACAGAAATTAAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
456 AAACA-AAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA
* * *
56539383 ATTTTGA-AAACAGAAATTGAAATTACCTCAACGTGTCCTGAGGCTCAACTCA-TTCTCGCAATA
520 ATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
* * * * **
56539446 TGAGTTGATTTTTTTTAACAACAGAAATT-AAATTACCTCAGCGTGTCCTGAGGCTCAACTCACC
585 TGAGTTGA--ATTTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATT
* *
56539510 TCTAGCAATATGAGTTGATTTTGAAAAACATAAATTAAAAGGCTTAACTCACC
647 TCTCGCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
*** * *
56539563 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTTGGCGTGCCCCT-AGGCTCAAC
1 TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTG-TCTTGAGGCTCAAC
* *
56539627 TCACTTCTCGCAATATGAGTTGATTTTTGAAAACAGAAATT
65 TCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
56539668 AAAAGGCTCA
Statistics
Matches: 1434, Mismatches: 42, Indels: 40
0.95 0.03 0.03
Matches are distributed among these distances:
678 133 0.09
679 76 0.05
680 6 0.00
681 5 0.00
682 14 0.01
684 6 0.00
688 3 0.00
689 1 0.00
690 3 0.00
691 1 0.00
692 3 0.00
693 2 0.00
694 1 0.00
697 14 0.01
698 22 0.02
699 45 0.03
700 1015 0.71
701 84 0.06
ACGTcount: A:0.35, C:0.18, G:0.16, T:0.31
Consensus pattern (699 bp):
TCTCGCAATATGAGTCAATTTAAAACATAAACTAAAAATACCTCAACGTGTCTTGAGGCTCAACT
CATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGG
CTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGT
CTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTC
AACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAGAAGCAGAAATTGAA
AATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGA
AATTGAAATTACCTCAATGTGTCTTGACGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGA
AAACAAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
TTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
GAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTC
GCAATATGAGTTGATTTTGAAAAACAAAAATTAAAAGGCTTAACTCACC
Found at i:56542139 original size:934 final size:933
Alignment explanation
Indices: 56539941--56542742 Score: 5545
Period size: 934 Copynumber: 3.0 Consensus size: 933
56539931 AGCCATGATT
56539941 GTTGAGGATCTGCGTTCATTGCTTTGATTCTCGACCTTCTCTTCAGGCCTCATACCTGTCTTCGA
1 GTTGAGGATCTGCGTTCATTGCTTTGATTCTCGACCTTCTCTTCAGGCCTCATACCTGTCTTCGA
56540006 GCTTTACGAGTAATCGACGTTTCTCAGATATCACCCTTTTGCCCTTGGTTAAACTTTGTTCTTGC
66 GCTTTACGAGTAATCGACGTTTCTCAGATATCACCCTTTTGCCCTTGGTTAAACTTTGTTCTTGC
56540071 TTTGAAGATCTTGCACTTATCAAATTCTTATCCGGGTAATGCTTGACATTTCTTTTGTTTAGAGC
131 TTTGAAGATCTTGCACTTATCAAATTCTTATCCGGGTAATGCTTGACATTTCTTTTGTTTAGAGC
56540136 ATGTCATTTCACTAGTTATCATTAAATAAACACATAATGAGATACATGAGAATGGTCAGGTAGGG
196 ATGTCATTTCACTAGTTATCATTAAATAAACACATAATGAGATACATGAGAATGGTCAGGTAGGG
56540201 ACAAAAAGGATATCTCATATTCCTTTATTTCAAATGTGGCAAACAAAGAAAGTTAACCAATGAGA
261 ACAAAAAGGATATCTCATATTCCTTTATTTCAAATGTGGCAAACAAAGAAAGTTAACCAATGAGA
*
56540266 GTAAAAATATCAAAAAGAAAGAAAATGTCGTATACAACGGATACAAATGCTCTAGATATTCAACA
326 GTAAAAATGTCAAAAAGAAAGAAAATGTCGTATACAACGGATACAAATGCTCTAGATATTCAACA
56540331 CATGAACTCTTCCACGTTCCTCAATCAATAATCTTTTCGAGCATGGCTTCTTGCGTAGAAAATTT
391 CATGAACTCTTCCACGTTCCTCAATCAATAATCTTTTCGAGCATGGCTTCTTGCGTAGAAAATTT
56540396 TGAGCTTTCAGAAGTGCTTCAAATACTGTAGTCTCACTACTTGACCTACCGTTCGACCGCCAGGT
456 TGAGCTTTCAGAAGTGCTTCAAATACTGTAGTCTCACTACTTGACCTACCGTTCGACCGCCAGGT
*
56540461 TTGTTTCATTAGGACGCCCTCTCGAGTTTTCATCCTAATCTTTTTGTACTAATCAAGACGCCCTT
521 TTGTTTCATTAGGACGCCCTCTCGGGTTTTCATCCTAATC-TTTTGTACTAATCAAGACGCCCTT
56540526 TTCGGGTTTTCGCCCTGATCCTTTTTTTTTAAGATGCCCTTTTCGGGTTTTCATCTTAAGCATAA
585 TTCGGGTTTTCGCCCTGATCCTTTTTTTTTAAGATGCCCTTTTCGGGTTTTCATCTTAAGCATAA
56540591 TATTTCTTCACCACATCTGAATTCACCGGATTCGGTAACTCCTTCCCATCCATCTCGGTAAGGAT
650 TATTTCTTCACCACATCTGAATTCACCGGATTCGGTAACTCCTTCCCATCCATCTCGGTAAGGAT
56540656 TAAAGCTCCTCCTGAGAATGCCTTTTTTACAACGTATGGTCCTTCCCAATTTGGTGCCCATTTTC
715 TAAAGCTCCTCCTGAGAATGCCTTTTTTACAACGTATGGTCCTTCCCAATTTGGTGCCCATTTTC
56540721 CTCGTAGGTC-TTTTGTATTGGGAGAATCTTTCTTAGAACGAGTTCTCCTTCATGGAACTCTCTT
780 CTCGTAGGTCTTTTTGTATTGGGAGAATCTTTCTTAGAACGAGTTCTCCTTCATGGAACTCTCTT
56540785 GGTCGTACCTTCTTGTCATGGGCTGCGATCATTCTCTTTTGGTACATTTGCCCATGACAAATTGC
845 GGTCGTACCTTCTTGTCATGGGCTGCGATCATTCTCTTTTGGTACATTTGCCCATGACAAATTGC
56540850 CCTTAGACGTTTTTCTTCAATGAG
910 CCTTAGACGTTTTTCTTCAATGAG
56540874 GTTGAGGATCTGCGTTCATTGCTTTGATTCTCGACCTTCTCTTCAGGCCTCATACCTGTCTTCGA
1 GTTGAGGATCTGCGTTCATTGCTTTGATTCTCGACCTTCTCTTCAGGCCTCATACCTGTCTTCGA
56540939 GCTTTACGAGTAATCGACGTTTCTCAGATATCACCCTTTTGCCCTTGGTTAAACTTTGTTCTTGC
66 GCTTTACGAGTAATCGACGTTTCTCAGATATCACCCTTTTGCCCTTGGTTAAACTTTGTTCTTGC
56541004 TTTGAAGATCTTGCACTTATCAAATTCTTATCCGGGTAATGCTTGACATTTCTTTTGTTTAGAGC
131 TTTGAAGATCTTGCACTTATCAAATTCTTATCCGGGTAATGCTTGACATTTCTTTTGTTTAGAGC
56541069 ATGTCATTTCACTAGTTATCATTAAATAAACACATAATGAGATACATGAGAATGGTCAGGTAGGG
196 ATGTCATTTCACTAGTTATCATTAAATAAACACATAATGAGATACATGAGAATGGTCAGGTAGGG
56541134 ACAAAAAGGATATCTCATATTCCTTTATTTCAAATGTGGCAAACAAAGAAAGTTAACCAATGAGA
261 ACAAAAAGGATATCTCATATTCCTTTATTTCAAATGTGGCAAACAAAGAAAGTTAACCAATGAGA
56541199 GTAAAAATGTCAAAAAGAAAGAAAATGTCGTATACAACGGATACAAATGCTCTAGATATTCAACA
326 GTAAAAATGTCAAAAAGAAAGAAAATGTCGTATACAACGGATACAAATGCTCTAGATATTCAACA
56541264 CATGAACTCTTCCACGTTCCTCAATCAATAATCTTTTCGAGCATGGCTTCTTGCGTAGAAAATTT
391 CATGAACTCTTCCACGTTCCTCAATCAATAATCTTTTCGAGCATGGCTTCTTGCGTAGAAAATTT
56541329 TGAGCTTTCAGAAGTGCTTCAAATACTGTAGTCTCACTACTTGACCTACCGTTCGACCGCCAGGT
456 TGAGCTTTCAGAAGTGCTTCAAATACTGTAGTCTCACTACTTGACCTACCGTTCGACCGCCAGGT
56541394 TTGTTTCATTAGGACGCCCTCTCGGGTTTTCATCCTAATCTTTTGTACTAATCAAGACGCCCTTT
521 TTGTTTCATTAGGACGCCCTCTCGGGTTTTCATCCTAATCTTTTGTACTAATCAAGACGCCCTTT
56541459 TCGGGTTTTCGCCCTGATCCTTTTTTTTTTAAGATGCCCTTTTCGGGTTTTCATCTTAAGCATAA
586 TCGGGTTTTCGCCCTGATCC-TTTTTTTTTAAGATGCCCTTTTCGGGTTTTCATCTTAAGCATAA
56541524 TATTTCTTCACCACATCTGAATTCACCGGATTCGGTAACTCCTTCCCATCCATCTCGGTAAGGAT
650 TATTTCTTCACCACATCTGAATTCACCGGATTCGGTAACTCCTTCCCATCCATCTCGGTAAGGAT
56541589 TAAAGCTCCTCCTGAGAATGCCTTTTTTACAACGTATGGTCCTTCCCAATTTGGTGCCCATTTTC
715 TAAAGCTCCTCCTGAGAATGCCTTTTTTACAACGTATGGTCCTTCCCAATTTGGTGCCCATTTTC
56541654 CTCGTAGGTCTTTTTGTATTGGGAGAATCTTTCTTAGAACGAGTTCTCCTTCATGGAACTCTCTT
780 CTCGTAGGTCTTTTTGTATTGGGAGAATCTTTCTTAGAACGAGTTCTCCTTCATGGAACTCTCTT
56541719 GGTCGTACCTTCTTGTCATGGGCTGCGATCATTCTCTTTTGGTACATTTGCCCATGACAAATTGC
845 GGTCGTACCTTCTTGTCATGGGCTGCGATCATTCTCTTTTGGTACATTTGCCCATGACAAATTGC
56541784 CCTTAGACGTTTTTCTTCAATGAG
910 CCTTAGACGTTTTTCTTCAATGAG
56541808 GTTGAGGATCTGCGTTCATTGCTTTGATTCTCGACCTTCTCTTCAGGCCTCATACCTGTCTTCGA
1 GTTGAGGATCTGCGTTCATTGCTTTGATTCTCGACCTTCTCTTCAGGCCTCATACCTGTCTTCGA
56541873 GCTTTACGAGTAATCGACGTTTCTCAGATATCACCCTTTTGCCCTTGGTTAAACTTTGTTCTTGC
66 GCTTTACGAGTAATCGACGTTTCTCAGATATCACCCTTTTGCCCTTGGTTAAACTTTGTTCTTGC
56541938 TTTGAAGATCTTGCACTTATCAAATTCTTATCCGGGTAATGCTTGACATTTCTTTTGTTTAGAGC
131 TTTGAAGATCTTGCACTTATCAAATTCTTATCCGGGTAATGCTTGACATTTCTTTTGTTTAGAGC
56542003 ATGTCATTTCACTAGTTATCATTAAATAAACACATAATGAGATACATGAGAATGGTCAGGTAGGG
196 ATGTCATTTCACTAGTTATCATTAAATAAACACATAATGAGATACATGAGAATGGTCAGGTAGGG
56542068 ACAAAAAGGATATCTCATATTCCTTTATTTCAAATGTGGCAAACAAAGAAAGTTAACCAATGAGA
261 ACAAAAAGGATATCTCATATTCCTTTATTTCAAATGTGGCAAACAAAGAAAGTTAACCAATGAGA
56542133 GTAAAAATGTCAAAAAGAAAGAAAATGTCGTATACAACGGATACAAATGCTCTAGATATTCAACA
326 GTAAAAATGTCAAAAAGAAAGAAAATGTCGTATACAACGGATACAAATGCTCTAGATATTCAACA
56542198 CATGAACTCTTCCACGTTCCTCAATCAATAATCTTTTCGAGCATGGCTTCTTGCGTAGAAAATTT
391 CATGAACTCTTCCACGTTCCTCAATCAATAATCTTTTCGAGCATGGCTTCTTGCGTAGAAAATTT
56542263 TGAGCTTTCAGAAGTGCTTCAAATACTGTAGTCTCACTACTTGACCTACCGTTCGACCGCCAGGT
456 TGAGCTTTCAGAAGTGCTTCAAATACTGTAGTCTCACTACTTGACCTACCGTTCGACCGCCAGGT
56542328 TTGTTTCATTAGGACGCCCTCTCGGGTTTTCATCCTAATCTTTTGTACTAATCAAGACGCCCTTT
521 TTGTTTCATTAGGACGCCCTCTCGGGTTTTCATCCTAATCTTTTGTACTAATCAAGACGCCCTTT
56542393 TCGGGTTTTCGCCCTGATCC-TTTTTTTTAAGATGCCCTTTTCGGGTTTTCATCTTAAGCATAAT
586 TCGGGTTTTCGCCCTGATCCTTTTTTTTTAAGATGCCCTTTTCGGGTTTTCATCTTAAGCATAAT
56542457 ATTTCTTCACCACATCTGAATTCACCGGATTCGGTAACTCCTTCCCATCCATCTCGGTAAGGATT
651 ATTTCTTCACCACATCTGAATTCACCGGATTCGGTAACTCCTTCCCATCCATCTCGGTAAGGATT
*
56542522 AAAGCTCCTCCTGAGAATGCCTTTTTTACAATGTATGGTCCTTCCCAATTTGGTGCCCATTTTCC
716 AAAGCTCCTCCTGAGAATGCCTTTTTTACAACGTATGGTCCTTCCCAATTTGGTGCCCATTTTCC
56542587 TCGTAGGTCTTTTTGTATTGGGAGAATCTTTCTTAGAACGAGTTCTCCTTCATGGAACTCTCTTG
781 TCGTAGGTCTTTTTGTATTGGGAGAATCTTTCTTAGAACGAGTTCTCCTTCATGGAACTCTCTTG
56542652 GTCGTACCTTCTTGTCATGGGCTGCGATCATTCTCTTTTGGTACATTTGCCCATGACAAATTGCC
846 GTCGTACCTTCTTGTCATGGGCTGCGATCATTCTCTTTTGGTACATTTGCCCATGACAAATTGCC
56542717 CTTAGACGTTTTTCTTCAATGAG
911 CTTAGACGTTTTTCTTCAATGAG
56542740 GTT
1 GTT
56542743 CAACTGATCA
Statistics
Matches: 1864, Mismatches: 3, Indels: 5
1.00 0.00 0.00
Matches are distributed among these distances:
932 374 0.20
933 742 0.40
934 748 0.40
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (933 bp):
GTTGAGGATCTGCGTTCATTGCTTTGATTCTCGACCTTCTCTTCAGGCCTCATACCTGTCTTCGA
GCTTTACGAGTAATCGACGTTTCTCAGATATCACCCTTTTGCCCTTGGTTAAACTTTGTTCTTGC
TTTGAAGATCTTGCACTTATCAAATTCTTATCCGGGTAATGCTTGACATTTCTTTTGTTTAGAGC
ATGTCATTTCACTAGTTATCATTAAATAAACACATAATGAGATACATGAGAATGGTCAGGTAGGG
ACAAAAAGGATATCTCATATTCCTTTATTTCAAATGTGGCAAACAAAGAAAGTTAACCAATGAGA
GTAAAAATGTCAAAAAGAAAGAAAATGTCGTATACAACGGATACAAATGCTCTAGATATTCAACA
CATGAACTCTTCCACGTTCCTCAATCAATAATCTTTTCGAGCATGGCTTCTTGCGTAGAAAATTT
TGAGCTTTCAGAAGTGCTTCAAATACTGTAGTCTCACTACTTGACCTACCGTTCGACCGCCAGGT
TTGTTTCATTAGGACGCCCTCTCGGGTTTTCATCCTAATCTTTTGTACTAATCAAGACGCCCTTT
TCGGGTTTTCGCCCTGATCCTTTTTTTTTAAGATGCCCTTTTCGGGTTTTCATCTTAAGCATAAT
ATTTCTTCACCACATCTGAATTCACCGGATTCGGTAACTCCTTCCCATCCATCTCGGTAAGGATT
AAAGCTCCTCCTGAGAATGCCTTTTTTACAACGTATGGTCCTTCCCAATTTGGTGCCCATTTTCC
TCGTAGGTCTTTTTGTATTGGGAGAATCTTTCTTAGAACGAGTTCTCCTTCATGGAACTCTCTTG
GTCGTACCTTCTTGTCATGGGCTGCGATCATTCTCTTTTGGTACATTTGCCCATGACAAATTGCC
CTTAGACGTTTTTCTTCAATGAG
Found at i:56554960 original size:9 final size:9
Alignment explanation
Indices: 56554943--56555036 Score: 100
Period size: 9 Copynumber: 10.4 Consensus size: 9
56554933 TGTATGATTC
*
56554943 AATTAGGTT
1 AATTCGGTT
56554952 AATTCGGTT
1 AATTCGGTT
*
56554961 AATTCGGGT
1 AATTCGGTT
*
56554970 AATTCGGGT
1 AATTCGGTT
*
56554979 AATTTGGTT
1 AATTCGGTT
*
56554988 AATTTGAG-T
1 AATTCG-GTT
*
56554997 AATTCGGGT
1 AATTCGGTT
56555006 AATTCGGTT
1 AATTCGGTT
*
56555015 AATTTGGTT
1 AATTCGGTT
*
56555024 AATTCGGCT
1 AATTCGGTT
56555033 AATT
1 AATT
56555037 TTAACCAAAA
Statistics
Matches: 74, Mismatches: 9, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
8 1 0.01
9 72 0.97
10 1 0.01
ACGTcount: A:0.26, C:0.07, G:0.24, T:0.43
Consensus pattern (9 bp):
AATTCGGTT
Found at i:56554981 original size:27 final size:27
Alignment explanation
Indices: 56554951--56555036 Score: 127
Period size: 27 Copynumber: 3.2 Consensus size: 27
56554941 TCAATTAGGT
*
56554951 TAATTCGGTTAATTCGGGTAATTCGGG
1 TAATTCGGTTAATTTGGGTAATTCGGG
* *
56554978 TAATTTGGTTAATTTGAGTAATTCGGG
1 TAATTCGGTTAATTTGGGTAATTCGGG
* *
56555005 TAATTCGGTTAATTTGGTTAATTCGGC
1 TAATTCGGTTAATTTGGGTAATTCGGG
56555032 TAATT
1 TAATT
56555037 TTAACCAAAA
Statistics
Matches: 52, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.24, C:0.08, G:0.24, T:0.43
Consensus pattern (27 bp):
TAATTCGGTTAATTTGGGTAATTCGGG
Found at i:56555528 original size:27 final size:27
Alignment explanation
Indices: 56555485--56555540 Score: 96
Period size: 27 Copynumber: 2.1 Consensus size: 27
56555475 TTAAATGATA
56555485 TATTATGTACCAGAGTTAGAAAGAATG
1 TATTATGTACCAGAGTTAGAAAGAATG
56555512 TATTATGT-CCAGAAGTTAGAAAGAATG
1 TATTATGTACCAG-AGTTAGAAAGAATG
56555539 TA
1 TA
56555541 GTGTCTGGAG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
26 4 0.14
27 24 0.86
ACGTcount: A:0.41, C:0.07, G:0.21, T:0.30
Consensus pattern (27 bp):
TATTATGTACCAGAGTTAGAAAGAATG
Found at i:56568467 original size:42 final size:42
Alignment explanation
Indices: 56568412--56568507 Score: 174
Period size: 42 Copynumber: 2.3 Consensus size: 42
56568402 CTAAATTAGT
*
56568412 ACTACGGATACAAAATTGTAATGCTAAGTGCAAGTTGTATTA
1 ACTATGGATACAAAATTGTAATGCTAAGTGCAAGTTGTATTA
*
56568454 ACTATGGGTACAAAATTGTAATGCTAAGTGCAAGTTGTATTA
1 ACTATGGATACAAAATTGTAATGCTAAGTGCAAGTTGTATTA
56568496 ACTATGGATACA
1 ACTATGGATACA
56568508 GCAGCCAAAA
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.31
Consensus pattern (42 bp):
ACTATGGATACAAAATTGTAATGCTAAGTGCAAGTTGTATTA
Found at i:56569923 original size:147 final size:147
Alignment explanation
Indices: 56569651--56569947 Score: 504
Period size: 147 Copynumber: 2.0 Consensus size: 147
56569641 CTAACTGCAT
* *
56569651 GTACCATATCCAAGAAAGAAGAAAAACGGACAGTTACTTAGAAACAGAAAACATTATGTAAAGCA
1 GTACCATATACAAGAAAGAAGAAAAACGGACAGTTACTTAGAAACAGAAAACATTATGTAAAACA
56569716 AATTAAAGAAAATGTCAGTGAAGTAGCCAGTACATCACACATCACATAGCACATAAATAATCAAC
66 AATTAAAGAAAATGTCAGTGAAGTAGCCAGTACATCACACATCACATAGCACATAAATAATCAAC
*
56569781 ATGATGAATAGAAGAAA
131 ATGATGAATAAAAGAAA
* * * *
56569798 GTACCATATATAAGAAAGAAGAAAAATGGACAGTTACTTGGAAACTGAAAACATTATGTAAAACA
1 GTACCATATACAAGAAAGAAGAAAAACGGACAGTTACTTAGAAACAGAAAACATTATGTAAAACA
* * *
56569863 TATTAAAGAAAATGTCAGTGAAGTATCCAGTACATCACACATCACATAGCACATACATAATCAAC
66 AATTAAAGAAAATGTCAGTGAAGTAGCCAGTACATCACACATCACATAGCACATAAATAATCAAC
56569928 ATGATGAATAAAAGAAA
131 ATGATGAATAAAAGAAA
56569945 GTA
1 GTA
56569948 TTTGCTCTGA
Statistics
Matches: 140, Mismatches: 10, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
147 140 1.00
ACGTcount: A:0.50, C:0.15, G:0.15, T:0.20
Consensus pattern (147 bp):
GTACCATATACAAGAAAGAAGAAAAACGGACAGTTACTTAGAAACAGAAAACATTATGTAAAACA
AATTAAAGAAAATGTCAGTGAAGTAGCCAGTACATCACACATCACATAGCACATAAATAATCAAC
ATGATGAATAAAAGAAA
Found at i:56571590 original size:153 final size:154
Alignment explanation
Indices: 56571288--56571711 Score: 592
Period size: 153 Copynumber: 2.8 Consensus size: 154
56571278 TCTTTATTCA
* *
56571288 TATTTTTTCCTCGAATTTTATTACTTTC--AAAAATATACTATTTTCTAATTTTATCATTTTACA
1 TATTTTTTCCCCGAATTTTATTACTTTCAAAAAAATATACTATTTTCTAATTTTATTATTTTACA
* *
56571351 TTATTTTAGTACATTATATTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTGGAAGAAA
66 TTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTGGAAAAAA
* *
56571416 ACCCTAATTTTGGCCAGTTGTTCG
131 AACCTAATTTCGGCCAGTTGTTCG
** * *
56571440 TATTTTTTTTCTG-ATTTTATTACTTTCAATAAAAATATATTATTTTCGT-A-TTTATTATTTTA
1 TATTTTTTCCCCGAATTTTATTACTTTCAA-AAAAATATACTATTTTC-TAATTTTATTATTTTA
* * * **
56571502 CATTATTTTAGTACATTATGTTTGAAATGTATTAATTTACTAT-TTTTTTAAATAAATTTTTAAA
64 CATTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAA-TTGGAAA
* **
56571566 AAAAACCTTATTTCGGCCTTTTGTTCG
128 AAAAACCTAATTTCGGCCAGTTGTTCG
*
56571593 TATTTTTTCCCCGAATTTTATTACTTT-AAAAAAATATACTATTTTCTAATTTTATTATTTTATA
1 TATTTTTTCCCCGAATTTTATTACTTTCAAAAAAATATACTATTTTCTAATTTTATTATTTTACA
*
56571657 TTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTAAAATAAA
66 TTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAA
56571712 ATAAAAAATC
Statistics
Matches: 236, Mismatches: 27, Indels: 16
0.85 0.10 0.06
Matches are distributed among these distances:
151 15 0.06
152 39 0.17
153 139 0.59
154 42 0.18
155 1 0.00
ACGTcount: A:0.31, C:0.09, G:0.08, T:0.52
Consensus pattern (154 bp):
TATTTTTTCCCCGAATTTTATTACTTTCAAAAAAATATACTATTTTCTAATTTTATTATTTTACA
TTATTTTAGTACATTATGTTTGAAATGTATTCATTTAGTGTGTTTTTTAAATAAATTGGAAAAAA
AACCTAATTTCGGCCAGTTGTTCG
Found at i:56572127 original size:59 final size:59
Alignment explanation
Indices: 56572060--56572173 Score: 228
Period size: 59 Copynumber: 1.9 Consensus size: 59
56572050 TACCCATTTG
56572060 AGGTTACTTAATATTGAAGTACCTAATTAAATATTTGTTTTTTATTTATAAGATAGTAA
1 AGGTTACTTAATATTGAAGTACCTAATTAAATATTTGTTTTTTATTTATAAGATAGTAA
56572119 AGGTTACTTAATATTGAAGTACCTAATTAAATATTTGTTTTTTATTTATAAGATA
1 AGGTTACTTAATATTGAAGTACCTAATTAAATATTTGTTTTTTATTTATAAGATA
56572174 TTATATTTTA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.37, C:0.05, G:0.11, T:0.46
Consensus pattern (59 bp):
AGGTTACTTAATATTGAAGTACCTAATTAAATATTTGTTTTTTATTTATAAGATAGTAA
Found at i:56573202 original size:26 final size:24
Alignment explanation
Indices: 56573166--56573215 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 24
56573156 ATTGGTATAG
56573166 AATTGTAAAATTAAATATGTGATAATT
1 AATTGTAAAA-T-AATATGTG-TAATT
56573193 AATT-TAAAATAATATGTGTAATT
1 AATTGTAAAATAATATGTGTAATT
56573216 TAATATCGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 5 0.22
24 8 0.35
25 1 0.04
26 5 0.22
27 4 0.17
ACGTcount: A:0.48, C:0.00, G:0.10, T:0.42
Consensus pattern (24 bp):
AATTGTAAAATAATATGTGTAATT
Found at i:56577952 original size:29 final size:27
Alignment explanation
Indices: 56577886--56577952 Score: 62
Period size: 31 Copynumber: 2.3 Consensus size: 27
56577876 AAGTTTTATG
*
56577886 TGTATAATTGCACTGAATTAAAATTCA
1 TGTATAATTGCACTGAATCAAAATTCA
* * *
56577913 CGTATCAAATTGCTTATTGAATCAAAGTTCA
1 TGTAT--AATTGC--ACTGAATCAAAATTCA
56577944 TGTATAATT
1 TGTATAATT
56577953 TTGAGATTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
27 4 0.13
29 10 0.32
31 17 0.55
ACGTcount: A:0.37, C:0.12, G:0.12, T:0.39
Consensus pattern (27 bp):
TGTATAATTGCACTGAATCAAAATTCA
Found at i:56578871 original size:21 final size:21
Alignment explanation
Indices: 56578825--56578871 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
56578815 GATTTATAGT
*
56578825 TATTATTATTAATATATTGTA
1 TATTATTATTAATATATTATA
*
56578846 AATTA-TATTAATTATATTATA
1 TATTATTATTAA-TATATTATA
56578867 TATTA
1 TATTA
56578872 ATTTTAAAAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
20 6 0.27
21 16 0.73
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (21 bp):
TATTATTATTAATATATTATA
Found at i:56582046 original size:11 final size:11
Alignment explanation
Indices: 56582021--56582055 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
56582011 GCTCAAGTTC
*
56582021 TTATTAAAA-A
1 TTATAAAAATA
56582031 TTATAAAAATA
1 TTATAAAAATA
56582042 TTATAAAAATA
1 TTATAAAAATA
56582053 TTA
1 TTA
56582056 AATTTTAAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
10 8 0.35
11 15 0.65
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
TTATAAAAATA
Found at i:56582058 original size:18 final size:18
Alignment explanation
Indices: 56582037--56582105 Score: 79
Period size: 19 Copynumber: 3.8 Consensus size: 18
56582027 AAAATTATAA
*
56582037 AAATATTATAAAAATATT
1 AAATTTTATAAAAATATT
56582055 AAATTTTA-AAAAATATT
1 AAATTTTATAAAAATATT
*
56582072 AGATTTTAATAAAAA-ATT
1 AAATTTT-ATAAAAATATT
56582090 AAAATTTTATTAAAAA
1 -AAATTTTA-TAAAAA
56582106 ATATAATTTT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
17 15 0.34
18 12 0.27
19 17 0.39
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.39
Consensus pattern (18 bp):
AAATTTTATAAAAATATT
Found at i:56582068 original size:17 final size:17
Alignment explanation
Indices: 56582046--56582098 Score: 70
Period size: 17 Copynumber: 3.0 Consensus size: 17
56582036 AAAATATTAT
56582046 AAAAATATTAAATTTTA
1 AAAAATATTAAATTTTA
*
56582063 AAAAATATTAGATTTTA
1 AAAAATATTAAATTTTA
*
56582080 ATAAAAAATTAAAATTTTA
1 A-AAAATATT-AAATTTTA
56582099 TTAAAAAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
17 17 0.55
18 7 0.23
19 7 0.23
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (17 bp):
AAAAATATTAAATTTTA
Found at i:56582117 original size:20 final size:20
Alignment explanation
Indices: 56582021--56582111 Score: 77
Period size: 19 Copynumber: 4.8 Consensus size: 20
56582011 GCTCAAGTTC
*
56582021 TTATTAAAAATTATAAAA--
1 TTATTAAAAAATATAAAATT
* *
56582039 ATATTATAAAAATATTAAA--
1 TTATTA-AAAAATATAAAATT
* *
56582058 TT-TTAAAAAATATTAGATT
1 TTATTAAAAAATATAAAATT
*
56582077 TTAATAAAAAAT-TAAAATT
1 TTATTAAAAAATATAAAATT
56582096 TTATTAAAAAATATAA
1 TTATTAAAAAATATAA
56582112 TTTTTTTTAT
Statistics
Matches: 59, Mismatches: 9, Indels: 8
0.78 0.12 0.11
Matches are distributed among these distances:
17 11 0.19
18 8 0.14
19 29 0.49
20 11 0.19
ACGTcount: A:0.59, C:0.00, G:0.01, T:0.40
Consensus pattern (20 bp):
TTATTAAAAAATATAAAATT
Found at i:56582213 original size:29 final size:29
Alignment explanation
Indices: 56582116--56582203 Score: 149
Period size: 29 Copynumber: 3.0 Consensus size: 29
56582106 ATATAATTTT
56582116 TTTTATAAAAATCGTAAAAGAATATAAAA
1 TTTTATAAAAATCGTAAAAGAATATAAAA
*
56582145 TTTTATAAAAATCGTAAAAGAATGTAAAA
1 TTTTATAAAAATCGTAAAAGAATATAAAA
* *
56582174 TTTTATAAAAATCATAAAAAAATATAAAA
1 TTTTATAAAAATCGTAAAAGAATATAAAA
56582203 T
1 T
56582204 GCATTAAAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 55 1.00
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (29 bp):
TTTTATAAAAATCGTAAAAGAATATAAAA
Found at i:56582515 original size:18 final size:19
Alignment explanation
Indices: 56582494--56582543 Score: 59
Period size: 18 Copynumber: 2.7 Consensus size: 19
56582484 TTTTCTCATT
*
56582494 TTTAATAATTTT-GTAATA
1 TTTAATAATTTTAGTAAAA
*
56582512 TTTAAT-ATTTTATTAAAA
1 TTTAATAATTTTAGTAAAA
56582530 TTTAATAATATTTA
1 TTTAATAAT-TTTA
56582544 TAGCTTTGAT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
17 5 0.19
18 16 0.59
19 2 0.07
20 4 0.15
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (19 bp):
TTTAATAATTTTAGTAAAA
Found at i:56584512 original size:18 final size:18
Alignment explanation
Indices: 56584489--56584525 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
56584479 TTAAGAATGC
*
56584489 TTTTGTCTCCAAAGTGTT
1 TTTTGTCGCCAAAGTGTT
56584507 TTTTGTCGCCAAAGTGTT
1 TTTTGTCGCCAAAGTGTT
56584525 T
1 T
56584526 ATTAGATGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.16, C:0.16, G:0.19, T:0.49
Consensus pattern (18 bp):
TTTTGTCGCCAAAGTGTT
Found at i:56587418 original size:22 final size:23
Alignment explanation
Indices: 56587392--56587437 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
56587382 GAATTTTGTC
* *
56587392 TGCTTA-GTACATTTTTTAGTTT
1 TGCTTATGTACATTATATAGTTT
*
56587414 TGCTTATGTATATTATATAGTTT
1 TGCTTATGTACATTATATAGTTT
56587437 T
1 T
56587438 ATAAGTGATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.22, C:0.07, G:0.13, T:0.59
Consensus pattern (23 bp):
TGCTTATGTACATTATATAGTTT
Found at i:56593809 original size:20 final size:20
Alignment explanation
Indices: 56593795--56593864 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
56593785 AAATATTTTC
56593795 AAAAATATAATAATAAATTT
1 AAAAATATAATAATAAATTT
*
56593815 AAAAATAT-ATAAAAAATGTT
1 AAAAATATAATAATAAAT-TT
*
56593835 GAAAATATAATATATAAATTT
1 AAAAATATAATA-ATAAATTT
*
56593856 TAAAATATA
1 AAAAATATA
56593865 TAAGAAACTT
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
19 8 0.19
20 17 0.40
21 13 0.30
22 5 0.12
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
AAAAATATAATAATAAATTT
Found at i:56617903 original size:3 final size:3
Alignment explanation
Indices: 56617897--56617942 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
56617887 TTTTCTTTCT
*
56617897 TTC TTC TTC CTC TT- TTC TTC TTCC TTC TTC TTCC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TT-C TTC TTC TT-C TTC TTC TTC TTC
56617943 AAAGTCTAGC
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
2 2 0.05
3 30 0.79
4 6 0.16
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (3 bp):
TTC
Found at i:56617926 original size:10 final size:10
Alignment explanation
Indices: 56617911--56617939 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
56617901 TCTTCCTCTT
56617911 TTCTTCTTCC
1 TTCTTCTTCC
56617921 TTCTTCTTCC
1 TTCTTCTTCC
56617931 TTCTTCTTC
1 TTCTTCTTC
56617940 TTCAAAGTCT
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:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (10 bp):
TTCTTCTTCC
Found at i:56617927 original size:13 final size:13
Alignment explanation
Indices: 56617897--56617942 Score: 62
Period size: 13 Copynumber: 3.7 Consensus size: 13
56617887 TTTTCTTTCT
56617897 TTCTTCTTCC-TC
1 TTCTTCTTCCTTC
56617909 TT-TTCTT-CTTCC
1 TTCTTCTTCCTT-C
56617921 TTCTTCTTCCTTC
1 TTCTTCTTCCTTC
56617934 TTCTTCTTC
1 TTCTTCTTC
56617943 AAAGTCTAGC
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
10 1 0.03
11 6 0.20
12 5 0.17
13 15 0.50
14 3 0.10
ACGTcount: A:0.00, C:0.37, G:0.00, T:0.63
Consensus pattern (13 bp):
TTCTTCTTCCTTC
Found at i:56618033 original size:10 final size:10
Alignment explanation
Indices: 56617998--56618047 Score: 59
Period size: 10 Copynumber: 5.2 Consensus size: 10
56617988 ACGCCGGTAC
56617998 TCTT-TCTTT
1 TCTTCTCTTT
* *
56618007 TCTTCTCCTC
1 TCTTCTCTTT
56618017 T-TTCTCTTT
1 TCTTCTCTTT
56618026 TCTTCTCTTT
1 TCTTCTCTTT
*
56618036 TCTTCTTTTT
1 TCTTCTCTTT
56618046 TC
1 TC
56618048 CTTCGAAAAA
Statistics
Matches: 34, Mismatches: 5, Indels: 3
0.81 0.12 0.07
Matches are distributed among these distances:
9 11 0.32
10 23 0.68
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (10 bp):
TCTTCTCTTT
Found at i:56618045 original size:19 final size:19
Alignment explanation
Indices: 56618002--56618044 Score: 63
Period size: 19 Copynumber: 2.3 Consensus size: 19
56617992 CGGTACTCTT
56618002 TCTTTTCTTCTCCTCTTTC
1 TCTTTTCTTCTCCTCTTTC
56618021 TCTTTTCTTCT-CT-TTTC
1 TCTTTTCTTCTCCTCTTTC
56618038 TTCTTTT
1 -TCTTTT
56618045 TTCCTTCGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 4 0.17
18 8 0.35
19 11 0.48
ACGTcount: A:0.00, C:0.30, G:0.00, T:0.70
Consensus pattern (19 bp):
TCTTTTCTTCTCCTCTTTC
Found at i:56618325 original size:29 final size:29
Alignment explanation
Indices: 56618292--56618408 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
56618282 TGTAATTTTT
*
56618292 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
56618321 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
56618351 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
56618380 GGAAAAGTTTAGGTGTCAAAATGCAATTT
1 AGAAAA-TTTAGG-GTTAAAATGAAATTT
56618409 TTATTTTTTA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 16 0.22
30 54 0.75
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.21, T:0.31
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:56618347 original size:30 final size:30
Alignment explanation
Indices: 56618307--56618408 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
56618297 ATTTAGGATT
*
56618307 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
56618337 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* *
56618367 AAAATGAAATTT-AGGAAAAGTTTAGGTGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
56618397 AAAATGCAATTT
1 AAAATGAAATTT
56618409 TTATTTTTTA
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
29 2 0.03
30 59 0.97
ACGTcount: A:0.44, C:0.04, G:0.22, T:0.30
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:56618810 original size:50 final size:52
Alignment explanation
Indices: 56618681--56618930 Score: 321
Period size: 50 Copynumber: 4.7 Consensus size: 52
56618671 CACGTGAGCC
*
56618681 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAATAGAA--T--AA
* *
56618736 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAATAG-A-AA
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAATAGAATAA
*
56618786 AAGGCTCAACTCACTTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAATAG-AA-TAA
* *
56618840 AAGGCTCAACTCACCTCTCGCAATATGA-TTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAATAG-AA-TAA
*
56618893 AAGGCTCAACTCACCTT-TTGCAATATGAGTTGATTTTT
1 AAGGCTCAACTCA-CTTCTCGCAATATGAGTTGATTTTT
56618931 TTTTTGAAAC
Statistics
Matches: 177, Mismatches: 11, Indels: 15
0.87 0.05 0.07
Matches are distributed among these distances:
50 46 0.26
52 1 0.01
53 46 0.26
54 40 0.23
55 38 0.21
56 6 0.03
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (52 bp):
AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTGAAAAATAGAATAA
Found at i:56618899 original size:53 final size:54
Alignment explanation
Indices: 56618681--56618930 Score: 359
Period size: 53 Copynumber: 4.7 Consensus size: 54
56618671 CACGTGAGCC
* *
56618681 AAGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTTG-AAAACAGAATTTGCAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATT--AA
* *
56618736 AAGGCTCAACTCACCTCTCACAATATGAGTTGATTTTTGAAAAATAG--A--AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* * *
56618786 AAGGCTCAACTCACTTCTCGCAATATGAGTTGGTTTTTGAAAAATAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
56618840 AAGGCTCAACTCACCTCTCGCAATATGA-TTGATTTTTGAAAAACAGAAATTAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
* *
56618893 AAGGCTCAACTCACCTTTTGCAATATGAGTTGATTTTT
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
56618931 TTTTTGAAAC
Statistics
Matches: 177, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
50 46 0.26
52 1 0.01
53 49 0.28
54 38 0.21
55 37 0.21
56 6 0.03
ACGTcount: A:0.36, C:0.18, G:0.15, T:0.31
Consensus pattern (54 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTAA
Found at i:56618969 original size:13 final size:14
Alignment explanation
Indices: 56618941--56618973 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
56618931 TTTTTGAAAC
56618941 ACAGAAATTAAAAA
1 ACAGAAATTAAAAA
56618955 ACAGAAATT-AAAA
1 ACAGAAATTAAAAA
56618968 ACAGAA
1 ACAGAA
56618974 TTTGAAAAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 10 0.53
14 9 0.47
ACGTcount: A:0.70, C:0.09, G:0.09, T:0.12
Consensus pattern (14 bp):
ACAGAAATTAAAAA
Found at i:56618981 original size:14 final size:14
Alignment explanation
Indices: 56618934--56618981 Score: 62
Period size: 14 Copynumber: 3.5 Consensus size: 14
56618924 GATTTTTTTT
*
56618934 TTGAAACACAGAAA
1 TTGAAAAACAGAAA
*
56618948 TTAAAAAACAGAAA
1 TTGAAAAACAGAAA
*
56618962 TT-AAAAACAGAAT
1 TTGAAAAACAGAAA
56618975 TTGAAAA
1 TTGAAAA
56618982 GACCTCAGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
13 12 0.40
14 18 0.60
ACGTcount: A:0.62, C:0.08, G:0.10, T:0.19
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:56619308 original size:145 final size:144
Alignment explanation
Indices: 56619057--56620079 Score: 1692
Period size: 145 Copynumber: 7.1 Consensus size: 144
56619047 ATTAGTAAAG
* * * *
56619057 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
*
56619121 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
56619186 AGTTGAATTTTGAAAA
129 AGTTGAATTTTGAAAA
56619202 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
56619267 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
56619332 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
56619347 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
56619412 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
56619477 TTGAATTTTGAGAAG
131 TTGAATTTTGA-AAA
*
56619492 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
56619557 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
*
56619622 TTGAATTTTGAGAAG
131 TTGAATTTTGA-AAA
*
56619637 CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
56619702 TTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
66 TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
56619767 TTGAATTTTGAAAA
131 TTGAATTTTGAAAA
56619781 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* * *
56619846 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAA
66 TTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
56619911 GTTGAATTTTGAAAA
130 GTTGAATTTTGAAAA
* * *
56619926 CAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTGATTT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGA-AT
* * * ** *
56619991 TTTTAACAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAATAT
65 TTTGAA-AACAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATAT
*
56620055 GAATTG-ATTTTGAAAAA
128 GAGTTGAATTTTG-AAAA
*
56620072 CATAAATT
1 CAGAAATT
56620080 AAAAGGCTTA
Statistics
Matches: 844, Mismatches: 26, Indels: 15
0.95 0.03 0.02
Matches are distributed among these distances:
144 143 0.17
145 627 0.74
146 72 0.09
147 2 0.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (144 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAG
TTGAATTTTGAAAA
Found at i:56619430 original size:217 final size:216
Alignment explanation
Indices: 56619053--56620083 Score: 1717
Period size: 217 Copynumber: 4.7 Consensus size: 216
56619043 TAGAATTAGT
* * *
56619053 AAAGCAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* *
56619117 AAGTTTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAA
66 AA-TTTTGAAAA-CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
*
56619182 TATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTT
129 TATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTT
56619247 CTCGCAATATGAGTTGAATTTTG
194 CTCGCAATATGAGTTGAATTTTG
56619270 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
56619335 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
65 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
*
56619400 ATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTC
130 ATGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
56619465 TCGCAATATGAGTTGAATTTTG
195 TCGCAATATGAGTTGAATTTTG
56619487 AGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
1 A-AAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTT
56619552 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
65 GAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAAT
*
56619617 ATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTT
130 ATGAGTTGAATTTTGA-AAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTT
56619682 CTCGCAATATGAGTTGAATTTTG
194 CTCGCAATATGAGTTGAATTTTG
* *
56619705 AAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
56619770 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
66 AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
* *
56619835 TGAGTTGAATTTTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTC
131 TGAGTTGAATTTTGAAAA-CAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTC
*
56619900 TCGCAATATAAGTTGAATTTTG
195 TCGCAATATGAGTTGAATTTTG
* * * *
56619922 AAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
1 AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
* * * * * ** *
56619987 ATTTTTTTAACAACAGAAATTAAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACCTCTAGCAA
66 A-ATTTTGAA-AACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAA
* *
56620052 TATGAATTG-ATTTTGAAAAACATAAATT-AAAA
129 TATGAGTTGAATTTTG-AAAACAGAAATTGAAAA
56620084 GGCTTAACTC
Statistics
Matches: 782, Mismatches: 25, Indels: 14
0.95 0.03 0.02
Matches are distributed among these distances:
216 2 0.00
217 560 0.72
218 158 0.20
219 62 0.08
ACGTcount: A:0.34, C:0.18, G:0.17, T:0.31
Consensus pattern (216 bp):
AAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTG
AATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATA
TGAGTTGAATTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCT
CGCAATATGAGTTGAATTTTG
Found at i:56619496 original size:362 final size:362
Alignment explanation
Indices: 56619057--56620079 Score: 1784
Period size: 362 Copynumber: 2.8 Consensus size: 362
56619047 ATTAGTAAAG
* * * *
56619057 CAGAAATTGAAAATACCTCAGCGTGCCTTGAGGCTCAACTCATCTCTCGCAATATGAGTT-AAGT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA-T
*
56619121 TTTGAAAAGCAGAAATTGAAAATACCTCAATGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
65 TTTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
56619186 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
130 AGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCG
56619251 CAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTC
195 CAATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTC
56619316 ATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGC
260 ATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGC
56619381 TCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
325 TCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
56619419 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
*
56619484 TTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
66 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
56619549 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
131 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
56619614 AATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
196 AATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
56619679 TTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCT
261 TTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCT
56619744 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
326 CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
56619781 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
1 CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
* * *
56619846 TTGAAAAGCAGAAATTGAAAATACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGCAATATAA
66 TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
* *
56619911 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCATTTCTCGC
131 GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
* * * * *
56619976 AATATGAGTTGATTTTTTTA-ACAACAGAAATT-AAAATTACCTCAGCGTGTCCTGAGGCTCAAC
196 AATATGAGTTGA-ATTTTGAGA-AGCAGAAATTGAAAA-TACCTCAACGTGTCTTGAGGCTCAAC
** * * *
56620039 TCACCTCTAGCAATATGAATTG-ATTTTGAAAAACATAAATT
258 TCATTTCTCGCAATATGAGTTGAATTTTG-AAAACAGAAATT
56620080 AAAAGGCTTA
Statistics
Matches: 634, Mismatches: 22, Indels: 9
0.95 0.03 0.01
Matches are distributed among these distances:
362 565 0.89
363 69 0.11
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.31
Consensus pattern (362 bp):
CAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAATT
TTGAAAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGA
GTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGC
AATATGAGTTGAATTTTGAGAAGCAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCA
TTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCAACGTGTCTTGAGGCT
CAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAA
Found at i:56628384 original size:17 final size:17
Alignment explanation
Indices: 56628364--56628771 Score: 181
Period size: 17 Copynumber: 23.3 Consensus size: 17
56628354 GAAAGTTTTT
*
56628364 TTTTTAAAATACGAGAA
1 TTTTTAAAACACGAGAA
56628381 TTTTTGAAAACACGAGAA
1 TTTTT-AAAACACGAGAA
*
56628399 TTTGT-AAACACGA-AA
1 TTTTTAAAACACGAGAA
* *
56628414 ATTTTAGAAACACGAAAA
1 TTTTTA-AAACACGAGAA
*
56628432 TTTTTGGAAAAAACGA-AA
1 TTTTT--AAAACACGAGAA
* *
56628450 TTTTCTTAAAACACGACATTTT
1 -TTT-TTAAAACACGAGA---A
* *
56628472 TTTTTGAAACACGGGAA
1 TTTTTAAAACACGAGAA
* * *
56628489 TTTTTAAAACAAGACATT
1 TTTTTAAAACACGAGA-A
* * ***
56628507 TTTTTGAAACACAATTT
1 TTTTTAAAACACGAGAA
56628524 TTTCTTAAAA-A--A-AA
1 TTT-TTAAAACACGAGAA
*
56628538 -TTTT-AAATACGAGAA
1 TTTTTAAAACACGAGAA
*
56628553 TTTTTAAAACACGAAAA
1 TTTTTAAAACACGAGAA
56628570 TTTTTAAAACACG-GAA
1 TTTTTAAAACACGAGAA
*
56628586 TTTTTTTTTAAAACACGAAAA
1 ----TTTTTAAAACACGAGAA
* *
56628607 TTTTTTCTGAAAACAAGAAAA
1 --TTTT-T-AAAACACGAGAA
* *
56628628 TTTTTGAAACACTAGAA
1 TTTTTAAAACACGAGAA
*
56628645 TTTTGAAAACACGA-AGA
1 TTTTTAAAACACGAGA-A
* *
56628662 TTTTTGAAACATGAGAA
1 TTTTTAAAACACGAGAA
*
56628679 TTTTTAAAAGCACGAGGA
1 TTTTTAAAA-CACGAGAA
* * *
56628697 TTATTGAAAGCACGAAAA
1 TT-TTTAAAACACGAGAA
* * *
56628715 TTTGTAAAAAACGACAA
1 TTTTTAAAACACGAGAA
* *
56628732 TTTTTGAAATACGAGAAA
1 TTTTTAAAACACGAG-AA
* * *
56628750 TTTTTTAAACGCGAAAA
1 TTTTTAAAACACGAGAA
56628767 TTTTT
1 TTTTT
56628772 TTCAAACACG
Statistics
Matches: 299, Mismatches: 60, Indels: 64
0.71 0.14 0.15
Matches are distributed among these distances:
11 3 0.01
12 3 0.01
13 2 0.01
14 1 0.00
15 8 0.03
16 15 0.05
17 120 0.40
18 78 0.26
19 26 0.09
20 27 0.09
21 16 0.05
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (17 bp):
TTTTTAAAACACGAGAA
Found at i:56628402 original size:16 final size:16
Alignment explanation
Indices: 56628383--56628434 Score: 68
Period size: 16 Copynumber: 3.2 Consensus size: 16
56628373 TACGAGAATT
*
56628383 TTTGAAAACACGAGAA
1 TTTGAAAACACGAAAA
*
56628399 TTTGTAAACACGAAAA
1 TTTGAAAACACGAAAA
*
56628415 TTTTAGAAACACGAAAA
1 TTTGA-AAACACGAAAA
56628432 TTT
1 TTT
56628435 TTGGAAAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
16 17 0.55
17 14 0.45
ACGTcount: A:0.48, C:0.12, G:0.13, T:0.27
Consensus pattern (16 bp):
TTTGAAAACACGAAAA
Found at i:56628595 original size:20 final size:21
Alignment explanation
Indices: 56628553--56628632 Score: 89
Period size: 21 Copynumber: 4.0 Consensus size: 21
56628543 AATACGAGAA
56628553 TTTTTAAAACACGAAAA----
1 TTTTTAAAACACGAAAATTTT
*
56628570 TTTTTAAAACACG-GAATTTT
1 TTTTTAAAACACGAAAATTTT
56628590 TTTTTAAAACACGAAAATTTT
1 TTTTTAAAACACGAAAATTTT
* * *
56628611 TTCTGAAAACAAGAAAATTTT
1 TTTTTAAAACACGAAAATTTT
56628632 T
1 T
56628633 GAAACACTAG
Statistics
Matches: 53, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
16 2 0.04
17 13 0.25
20 13 0.25
21 25 0.47
ACGTcount: A:0.44, C:0.10, G:0.07, T:0.39
Consensus pattern (21 bp):
TTTTTAAAACACGAAAATTTT
Found at i:56628739 original size:35 final size:32
Alignment explanation
Indices: 56628536--56628771 Score: 114
Period size: 35 Copynumber: 6.7 Consensus size: 32
56628526 TCTTAAAAAA
* * *
56628536 AATTTT-AAATACGAGAATTTTTAAAACACGAA
1 AATTTTAAAACACGA-AATTTTTGAAACACGAG
* * *
56628568 AATTTTTAAAACACGGAATTTTTTTTTAAAACACGAA
1 AA-TTTTAAAACAC-GAA---ATTTTTGAAACACGAG
* *
56628605 AATTTTTTCTGAAAACAAGAAAATTTTTGAAACACTAG
1 AA---TTT-T-AAAACACG-AAATTTTTGAAACACGAG
*
56628643 AATTTTGAAAACACGAAGATTTTTGAAACATGAG
1 AATTTT-AAAACACGAA-ATTTTTGAAACACGAG
* * *
56628677 AATTTTTAAAAGCACGAGGATTATTGAAAGCACGAA
1 AA-TTTTAAAA-CACGA-AATTTTTGAAA-CACGAG
* *
56628713 AATTTGTAAAAAACGACAATTTTTGAAATACGAG
1 AATTT-TAAAACACGA-AATTTTTGAAACACGAG
* *
56628747 AAATTTTTTAAACGCGAAAATTTTT
1 -AA-TTTTAAAACACG-AAATTTTT
56628772 TTCAAACACG
Statistics
Matches: 161, Mismatches: 23, Indels: 37
0.73 0.10 0.17
Matches are distributed among these distances:
32 2 0.01
33 6 0.04
34 39 0.24
35 54 0.34
36 15 0.09
37 17 0.11
38 14 0.09
39 4 0.02
40 2 0.01
41 8 0.05
ACGTcount: A:0.45, C:0.10, G:0.13, T:0.33
Consensus pattern (32 bp):
AATTTTAAAACACGAAATTTTTGAAACACGAG
Found at i:56628788 original size:37 final size:37
Alignment explanation
Indices: 56628732--56628805 Score: 103
Period size: 37 Copynumber: 2.0 Consensus size: 37
56628722 AAAACGACAA
* * * **
56628732 TTTTTGAAATACGAGAAATTTTTTAAACGCGAAAATT
1 TTTTTCAAACACGAAAAATTTTGAAAACGCGAAAATT
56628769 TTTTTCAAACACGAAAAATTTTGAAAACGCGAAAATT
1 TTTTTCAAACACGAAAAATTTTGAAAACGCGAAAATT
56628806 CGAAAATTTC
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 32 1.00
ACGTcount: A:0.43, C:0.11, G:0.12, T:0.34
Consensus pattern (37 bp):
TTTTTCAAACACGAAAAATTTTGAAAACGCGAAAATT
Found at i:56628801 original size:18 final size:19
Alignment explanation
Indices: 56628756--56628804 Score: 55
Period size: 18 Copynumber: 2.6 Consensus size: 19
56628746 GAAATTTTTT
* **
56628756 AAACGCGAAAATTTTTTTC
1 AAACGCGAAAATATTTTGA
*
56628775 AAACACGAAAA-ATTTTGA
1 AAACGCGAAAATATTTTGA
56628793 AAACGCGAAAAT
1 AAACGCGAAAAT
56628805 TCGAAAATTT
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
18 14 0.58
19 10 0.42
ACGTcount: A:0.49, C:0.14, G:0.12, T:0.24
Consensus pattern (19 bp):
AAACGCGAAAATATTTTGA
Found at i:56628849 original size:18 final size:17
Alignment explanation
Indices: 56628800--56628850 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
56628790 TGAAAACGCG
56628800 AAAATTCGAAAATTTCT
1 AAAATTCGAAAATTTCT
* * *
56628817 AAAATACGAGTAATTTTT
1 AAAATTCGA-AAATTTCT
56628835 AAAGATTCGAAAATTT
1 AAA-ATTCGAAAATTT
56628851 GAAACAAGAA
Statistics
Matches: 27, Mismatches: 5, Indels: 3
0.77 0.14 0.09
Matches are distributed among these distances:
17 8 0.30
18 14 0.52
19 5 0.19
ACGTcount: A:0.47, C:0.08, G:0.10, T:0.35
Consensus pattern (17 bp):
AAAATTCGAAAATTTCT
Found at i:56629388 original size:25 final size:26
Alignment explanation
Indices: 56629333--56629388 Score: 87
Period size: 26 Copynumber: 2.2 Consensus size: 26
56629323 CCTTTTTTTT
*
56629333 CTGCTGCAGGATTCGGGCCTGGGGGC
1 CTGCTGCAGAATTCGGGCCTGGGGGC
*
56629359 CTGCTGCCGAATTCGGGCCT-GGGGC
1 CTGCTGCAGAATTCGGGCCTGGGGGC
56629384 CTGCT
1 CTGCT
56629389 TGGTCTGCTG
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
25 10 0.36
26 18 0.64
ACGTcount: A:0.07, C:0.30, G:0.41, T:0.21
Consensus pattern (26 bp):
CTGCTGCAGAATTCGGGCCTGGGGGC
Found at i:56629520 original size:20 final size:19
Alignment explanation
Indices: 56629495--56629538 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
56629485 TGGCTGTGGC
56629495 CTGCTTCTATTTTATTTTTT
1 CTGCTT-TATTTTATTTTTT
* *
56629515 CTGCTTTGTTTTGTTTTTT
1 CTGCTTTATTTTATTTTTT
*
56629534 TTGCT
1 CTGCT
56629539 GCTTTGTTTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 15 0.71
20 6 0.29
ACGTcount: A:0.05, C:0.14, G:0.11, T:0.70
Consensus pattern (19 bp):
CTGCTTTATTTTATTTTTT
Found at i:56629531 original size:19 final size:21
Alignment explanation
Indices: 56629495--56629548 Score: 58
Period size: 22 Copynumber: 2.6 Consensus size: 21
56629485 TGGCTGTGGC
*
56629495 CTGCTTCTATTTTA-TTTTTT-
1 CTGCTT-TGTTTTATTTTTTTG
*
56629515 CTGCTTTGTTTTGTTTTTTTTG
1 CTGCTTTGTTTT-ATTTTTTTG
56629537 CTGCTTTGTTTT
1 CTGCTTTGTTTT
56629549 TTTCAAAAAC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 5 0.17
20 6 0.21
21 6 0.21
22 12 0.41
ACGTcount: A:0.04, C:0.13, G:0.13, T:0.70
Consensus pattern (21 bp):
CTGCTTTGTTTTATTTTTTTG
Found at i:56629550 original size:19 final size:19
Alignment explanation
Indices: 56629504--56629551 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 19
56629494 CCTGCTTCTA
*
56629504 TTTTATTTTTTCTGCTTTG
1 TTTTTTTTTTTCTGCTTTG
56629523 TTTTGTTTTTTTTGCTGCTTTG
1 -TTT-TTTTTTTT-CTGCTTTG
56629545 TTTTTTT
1 TTTTTTT
56629552 CAAAAACCTC
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
20 7 0.28
21 10 0.40
22 8 0.32
ACGTcount: A:0.02, C:0.08, G:0.12, T:0.77
Consensus pattern (19 bp):
TTTTTTTTTTTCTGCTTTG
Found at i:56630133 original size:29 final size:29
Alignment explanation
Indices: 56630100--56630216 Score: 94
Period size: 30 Copynumber: 3.9 Consensus size: 29
56630090 TTTAATTTTT
*
56630100 AGAAAATTTAGGATTAAAATGAAATTTAA
1 AGAAAATTTAGGGTTAAAATGAAATTTAA
* * *
56630129 TGAAAGTTTAGGGGTCT-AAGTGAAATTTAA
1 AGAAAATTTA-GGGT-TAAAATGAAATTTAA
* *
56630159 AGAAAGTTTAAGGGTCAAAATGAAATTT-A
1 AGAAAATTT-AGGGTTAAAATGAAATTTAA
* * *
56630188 GGAAAAGTTTAGGGGTCAAAATGCAATTT
1 AGAAAA-TTTA-GGGTTAAAATGAAATTT
56630217 TTATTTTTAA
Statistics
Matches: 72, Mismatches: 10, Indels: 11
0.77 0.11 0.12
Matches are distributed among these distances:
29 14 0.19
30 56 0.78
31 2 0.03
ACGTcount: A:0.44, C:0.03, G:0.22, T:0.30
Consensus pattern (29 bp):
AGAAAATTTAGGGTTAAAATGAAATTTAA
Found at i:56630155 original size:30 final size:30
Alignment explanation
Indices: 56630115--56630216 Score: 134
Period size: 30 Copynumber: 3.4 Consensus size: 30
56630105 ATTTAGGATT
*
56630115 AAAATGAAATTTAATGAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
* * *
56630145 TAAGTGAAATTTAAAGAAAGTTTAAGGGTC
1 AAAATGAAATTTAAAGAAAGTTTAGGGGTC
*
56630175 AAAATGAAATTT-AGGAAAAGTTTAGGGGTC
1 AAAATGAAATTTAAAG-AAAGTTTAGGGGTC
*
56630205 AAAATGCAATTT
1 AAAATGAAATTT
56630217 TTATTTTTAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 2 0.03
30 60 0.97
ACGTcount: A:0.44, C:0.04, G:0.23, T:0.29
Consensus pattern (30 bp):
AAAATGAAATTTAAAGAAAGTTTAGGGGTC
Found at i:56630237 original size:14 final size:15
Alignment explanation
Indices: 56630212--56630246 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
56630202 GTCAAAATGC
56630212 AATTTTTATTTTTAA
1 AATTTTTATTTTTAA
*
56630227 AATTTTT-TTTTTGA
1 AATTTTTATTTTTAA
56630241 AATTTT
1 AATTTT
56630247 GAAAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.63
15 7 0.37
ACGTcount: A:0.29, C:0.00, G:0.03, T:0.69
Consensus pattern (15 bp):
AATTTTTATTTTTAA
Found at i:56639627 original size:125 final size:124
Alignment explanation
Indices: 56639432--56639659 Score: 352
Period size: 125 Copynumber: 1.8 Consensus size: 124
56639422 ATGCTATTTA
* *
56639432 AGAAGAAATTGTGAAATAGTGGCCTCGTGGACGCGATTTCGCTACAGCGGTCATGTGAGAAATAA
1 AGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCGCTACAGCGGTCATGTGAGAAATAA
*
56639497 TTTTTTTTTGACGTTTTCTGAGGAAATAGTATAAAATCGTTGATACCAGGATACTATATG
66 TTTTTTTTTGACG-TTTCTGAGCAAATAGTATAAAATCGTTGATACCAGGATACTATATG
* *
56639557 AGAAGAAATTGTGAAATCGCGCCCTCGTGGACGCGATTTCGCTACAGTTGGTCATGT-AGGAAAT
1 AGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCGCTACAG-CGGTCATGTGA-GAAAT
* *
56639621 AA-TTTTTTTTGACGTTTCTGAGCAAATAGTGTCAAATCG
64 AATTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCG
56639660 CACCCTCGTG
Statistics
Matches: 94, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
124 22 0.23
125 57 0.61
126 15 0.16
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.32
Consensus pattern (124 bp):
AGAAGAAATTGTGAAATAGCGCCCTCGTGGACGCGATTTCGCTACAGCGGTCATGTGAGAAATAA
TTTTTTTTTGACGTTTCTGAGCAAATAGTATAAAATCGTTGATACCAGGATACTATATG
Found at i:56642898 original size:17 final size:18
Alignment explanation
Indices: 56642865--56642899 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56642855 GGGTTTTTAA
*
56642865 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
56642883 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
56642900 AGGGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:56642946 original size:34 final size:34
Alignment explanation
Indices: 56642906--56643004 Score: 118
Period size: 34 Copynumber: 3.1 Consensus size: 34
56642896 GGTTAGGGTT
56642906 TTTAATTTAATTAAAATAAGGTTAGGG---TT--
1 TTTAATTTAATTAAAATAAGGTTAGGGTTTTTAA
56642935 TTTAATTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATTTAATTAAAATAAGGTTAGGGTTTTTAA
* *** *
56642969 TTTAATTAAATTAGGTTAGGGTTAGGGTTTTTAA
1 TTTAATTTAATTAAAATAAGGTTAGGGTTTTTAA
56643003 TT
1 TT
56643005 AAGTAGGGTT
Statistics
Matches: 60, Mismatches: 5, Indels: 5
0.86 0.07 0.07
Matches are distributed among these distances:
29 27 0.45
32 2 0.03
34 31 0.52
ACGTcount: A:0.34, C:0.00, G:0.18, T:0.47
Consensus pattern (34 bp):
TTTAATTTAATTAAAATAAGGTTAGGGTTTTTAA
Found at i:56643065 original size:17 final size:18
Alignment explanation
Indices: 56643032--56643066 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56643022 TTTAATTTAA
*
56643032 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
56643050 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
56643067 AGGGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:56643190 original size:133 final size:133
Alignment explanation
Indices: 56642911--56644303 Score: 2379
Period size: 133 Copynumber: 10.4 Consensus size: 133
56642901 GGGTTTTTAA
* *
56642911 TTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATT
1 TTTAATT-AAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATT
**
56642976 AAATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTTAATTAA
65 AGGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGG---TT--TTTAATTTAATTAA
56643041 ATTAGGGTT
125 ATTAGGGTT
56643050 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
1 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
*
56643115 GGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTCTAATTTAATTAAATTAGG
66 GGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
56643180 GTT
131 GTT
56643183 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
1 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
56643248 GGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
66 GGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
*
56643313 TTT
131 GTT
56643316 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
1 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
56643381 GGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
66 GGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
56643446 GTT
131 GTT
*
56643449 TTTAATTAAGTAGGGTTAGGATTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
1 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
*
56643514 GGTTAGGTTAGGGTTAGAGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
66 GGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
56643579 GTT
131 GTT
56643582 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
1 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
56643647 GGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
66 GGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
56643712 GTT
131 GTT
*
56643715 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTATTTA
1 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
56643780 GGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
66 GGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
56643845 GTT
131 GTT
56643848 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
1 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
**
56643913 AATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
66 GGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
56643978 GTT
131 GTT
*
56643981 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGATTTTTAATTTAATTA
1 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
**
56644046 AATTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
66 GGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
56644111 G-T
131 GTT
56644113 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAA--T--TTA
1 TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
* * *
56644174 -CTTAGGTTA-GGTTAGGGTTTTTAATTTAAGTAGGTTAGGTTAGGGTTTTTAATTTAATAAAAT
66 GGTTAGGTTAGGGTTAGGGTTTTTAA-TTAAGTAGG---GTTTAGGGTTTTTAATTTAATTAAAT
*
56644237 AAGGTTAGGTT
127 TA-G---GGTT
* *
56644248 TTTAATTAAATTAGGTTAGGTTAGGGTTTTTAATTTAATT-AAATTAGGTTAGGGTT
1 TTTAATT-AAGTA-G---GGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTT
56644304 AGGGTTTTTA
Statistics
Matches: 1216, Mismatches: 24, Indels: 28
0.96 0.02 0.02
Matches are distributed among these distances:
126 15 0.01
127 17 0.01
128 3 0.00
130 26 0.02
131 1 0.00
132 57 0.05
133 939 0.77
134 2 0.00
135 10 0.01
136 4 0.00
137 1 0.00
138 97 0.08
139 22 0.02
140 22 0.02
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (133 bp):
TTTAATTAAGTAGGGTTAGGGTTTTTAATTTAATTAAAATAAGGTTAGGGTTTTTAATTTAATTA
GGTTAGGTTAGGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAATTAGG
GTT
Found at i:56643198 original size:17 final size:18
Alignment explanation
Indices: 56643165--56643199 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56643155 GGGTTTCTAA
*
56643165 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
56643183 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
56643200 AGGGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:56643464 original size:17 final size:18
Alignment explanation
Indices: 56643431--56643465 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56643421 GGGTTTTTAA
*
56643431 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
56643449 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
56643466 AGGATTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:56643597 original size:17 final size:18
Alignment explanation
Indices: 56643564--56643598 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56643554 GGGTTTTTAA
*
56643564 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
56643582 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
56643599 AGGGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:56643662 original size:34 final size:29
Alignment explanation
Indices: 56642883--56644356 Score: 429
Period size: 29 Copynumber: 54.6 Consensus size: 29
56642873 AATTAGGGTT
*
56642883 TTTAATT-AAGTAGGGTTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
*
56642911 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
*
56642940 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* *
56642969 TTTAATTAAATTA-GGTTAGGGTTAGGGTT--
1 TTTAATTAAAATAGGGTTAGGGTT---TTTAA
*
56642998 TTTAATT-AAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAAATAGGG-TTAGGGTTTTTAA
* * **
56643027 TTTAATTTAATTA-AATTAGGG---TT--
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
*
56643050 TTTAATT-AAGTAGGGTTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
*
56643078 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
*** *
56643107 TTTAATTAGGTTA-GGTTAGGGTTAGGGTT--
1 TTTAATTAAAATAGGGTTAGGGTT---TTTAA
* *
56643136 TTTAATT-AAGTAGGGTTTAGGGTTTCTAA
1 TTTAATTAAAATAGGG-TTAGGGTTTTTAA
56643165 TTTAATT--AA-A---TTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* ***
56643188 -TTAAGTAGGGTTAGGG------TTTTTAA
1 TTTAATTA-AAATAGGGTTAGGGTTTTTAA
*
56643211 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
*** *
56643240 TTTAATTAGGTTA-GGTTAGGGTTAGGGTT--
1 TTTAATTAAAATAGGGTTAGGGTT---TTTAA
*
56643269 TTTAATT-AAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAAATAGGG-TTAGGGTTTTTAA
*
56643298 TTTAATT--AA-A---TTAGGTTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* ***
56643321 -TTAAGTAGGGTTAGGG------TTTTTAA
1 TTTAATTA-AAATAGGGTTAGGGTTTTTAA
*
56643344 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
*** *
56643373 TTTAATTAGGTTA-GGTTAGGGTTAGGGTT--
1 TTTAATTAAAATAGGGTTAGGGTT---TTTAA
*
56643402 TTTAATT-AAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAAATAGGG-TTAGGGTTTTTAA
56643431 TTTAATT--AA-A---TTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* ***
56643454 -TTAAGTAGGGTTA-GG--A---TTTTTAA
1 TTTAATTA-AAATAGGGTTAGGGTTTTTAA
*
56643477 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
*** *
56643506 TTTAATTAGGTTA-GGTTAGGGTTAGAGTT--
1 TTTAATTAAAATAGGGTTAGGGTT---TTTAA
*
56643535 TTTAATT-AAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAAATAGGG-TTAGGGTTTTTAA
56643564 TTTAATT--AA-A---TTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* ***
56643587 -TTAAGTAGGGTTAGGG------TTTTTAA
1 TTTAATTA-AAATAGGGTTAGGGTTTTTAA
*
56643610 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
*** *
56643639 TTTAATTAGGTTA-GGTTAGGGTTAGGGTT--
1 TTTAATTAAAATAGGGTTAGGGTT---TTTAA
*
56643668 TTTAATT-AAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAAATAGGG-TTAGGGTTTTTAA
56643697 TTTAATT--AA-A---TTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* ***
56643720 -TTAAGTAGGGTTAGGG------TTTTTAA
1 TTTAATTA-AAATAGGGTTAGGGTTTTTAA
*
56643743 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* *** *
56643772 TTTATTTAGGTTA-GGTTAGGGTTAGGGTT--
1 TTTAATTAAAATAGGGTTAGGGTT---TTTAA
*
56643801 TTTAATT-AAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAAATAGGG-TTAGGGTTTTTAA
56643830 TTTAATT--AA-A---TTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* ***
56643853 -TTAAGTAGGGTTAGGG------TTTTTAA
1 TTTAATTA-AAATAGGGTTAGGGTTTTTAA
*
56643876 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* *
56643905 TTTAATTAAATTA-GGTTAGGGTTAGGGTT--
1 TTTAATTAAAATAGGGTTAGGGTT---TTTAA
*
56643934 TTTAATT-AAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAAATAGGG-TTAGGGTTTTTAA
56643963 TTTAATT--AA-A---TTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* ***
56643986 -TTAAGTAGGGTTAGGG------TTTTTAA
1 TTTAATTA-AAATAGGGTTAGGGTTTTTAA
* *
56644009 TTTAATTAAAATAAGGTTAGGATTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* *
56644038 TTTAATTAAATTA-GGTTAGGGTTAGGGTT--
1 TTTAATTAAAATAGGGTTAGGGTT---TTTAA
*
56644067 TTTAATT-AAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAAATAGGG-TTAGGGTTTTTAA
56644096 TTTAATT--AA-A---TTAGGG-TTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* ***
56644118 -TTAAGTAGGGTTAGGGTT------TTTAA
1 TTTAATTA-AAATAGGGTTAGGGTTTTTAA
*
56644141 TTTAATTAAAATAAGGTTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* ***
56644170 TTTACTTAGGTTA-GGTTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* ***
56644198 TTTAAGTAGGTTA-GGTTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
*
56644226 TTTAA-TAAAATAAGGTTA-GGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* ***
56644253 TTAAATTAGGTTA-GGTTAGGGTTTTTAA
1 TTTAATTAAAATAGGGTTAGGGTTTTTAA
* *
56644281 TTTAATTAAATTA-GGTTAGGGTTAGGGTT--
1 TTTAATTAAAATAGGGTTAGGGTT---TTTAA
*
56644310 TTTAATT-AAGTAGGGTTTAGGGTTTTTAA
1 TTTAATTAAAATAGGG-TTAGGGTTTTTAA
*
56644339 TTTAATTAAATTAGGGTT
1 TTTAATTAAAATAGGGTT
56644357 TTTAATTAAG
Statistics
Matches: 1085, Mismatches: 167, Indels: 387
0.66 0.10 0.24
Matches are distributed among these distances:
21 5 0.00
22 45 0.04
23 194 0.18
24 50 0.05
25 3 0.00
26 11 0.01
27 49 0.05
28 231 0.21
29 386 0.36
30 91 0.08
31 20 0.02
ACGTcount: A:0.30, C:0.00, G:0.23, T:0.47
Consensus pattern (29 bp):
TTTAATTAAAATAGGGTTAGGGTTTTTAA
Found at i:56643730 original size:17 final size:18
Alignment explanation
Indices: 56643697--56643731 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56643687 GGGTTTTTAA
*
56643697 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
56643715 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
56643732 AGGGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:56643863 original size:17 final size:18
Alignment explanation
Indices: 56643830--56643864 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56643820 GGGTTTTTAA
*
56643830 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
56643848 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
56643865 AGGGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:56643884 original size:46 final size:47
Alignment explanation
Indices: 56643793--56644150 Score: 203
Period size: 47 Copynumber: 7.0 Consensus size: 47
56643783 TAGGTTAGGG
56643793 TTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAA
1 TTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAA
56643840 TTAGGGTTTTTAATTAAGTAGGG-TTAGGGTTTTTAATTTAATTAAAATAA
1 TTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATT---A-AA
* **
56643890 GGTTAGGGTTTTTAATTTAATTAAATTAGGTTAGGG-TTAGGGTTTTTAA-TTAAGTAGGGT
1 --TTAGGG---TT--TTTAATT--A--A-G-TAGGGTTTAGGGTTTTTAATTTAATTA--AA
* ** * **
56643950 TTAGGGTTTTTAATTTAATTA--AATTAGGGTTTTTAA-TTAAGTAGGG
1 TTAGGGTTTTTAA-TTAAGTAGGGTTTAGGGTTTTTAATTTAATTA-AA
* * *
56643996 TTAGGGTTTTTAATTTAATTAAAATAAGG-TTAGGATTTTTAATTTAATTAAATTAGGTTA
1 TTAGGG---TT--TTTAATT-AAGTAGGGTTTAGGGTTTTTAATTTAATT--A--A----A
56644056 GGGTTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAA
1 ---TTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAA
56644106 TTAGGG-TTTTAATTAAGTAGGG-TTAGGGTTTTTAATTTAATTAAA
1 TTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAA
56644151 ATAAGGTTAG
Statistics
Matches: 254, Mismatches: 17, Indels: 82
0.72 0.05 0.23
Matches are distributed among these distances:
45 23 0.09
46 44 0.17
47 49 0.19
48 2 0.01
49 3 0.01
50 6 0.02
51 9 0.04
52 19 0.07
53 10 0.04
54 3 0.01
55 5 0.02
56 1 0.00
57 13 0.05
58 32 0.13
59 2 0.01
60 2 0.01
61 1 0.00
62 6 0.02
63 24 0.09
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (47 bp):
TTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAA
Found at i:56643996 original size:17 final size:18
Alignment explanation
Indices: 56643963--56643997 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56643953 GGGTTTTTAA
*
56643963 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
56643981 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
56643998 AGGGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:56644128 original size:16 final size:17
Alignment explanation
Indices: 56644096--56644129 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
56644086 GGGTTTTTAA
*
56644096 TTTAATTAAATTAGGGT
1 TTTAATTAAAGTAGGGT
56644113 TTTAATT-AAGTAGGGT
1 TTTAATTAAAGTAGGGT
56644129 T
1 T
56644130 AGGGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 9 0.56
17 7 0.44
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (17 bp):
TTTAATTAAAGTAGGGT
Found at i:56644147 original size:45 final size:47
Alignment explanation
Indices: 56644059--56644150 Score: 170
Period size: 45 Copynumber: 2.0 Consensus size: 47
56644049 TAGGTTAGGG
56644059 TTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAA
1 TTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAA
56644106 TTAGGG-TTTTAATTAAGTAGGG-TTAGGGTTTTTAATTTAATTAAA
1 TTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAA
56644151 ATAAGGTTAG
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 23 0.51
46 16 0.36
47 6 0.13
ACGTcount: A:0.30, C:0.00, G:0.22, T:0.48
Consensus pattern (47 bp):
TTAGGGTTTTTAATTAAGTAGGGTTTAGGGTTTTTAATTTAATTAAA
Found at i:56644180 original size:23 final size:23
Alignment explanation
Indices: 56644057--56644385 Score: 148
Period size: 28 Copynumber: 12.7 Consensus size: 23
56644047 ATTAGGTTAG
*
56644057 GGTTAGGGTTTTTAA-TTAAGTA
1 GGTTAGGGTTTTTAATTTAATTA
56644079 GGGTTTAGGGTTTTTAATTTAATTA
1 -GG-TTAGGGTTTTTAATTTAATTA
** *
56644104 AATTAGGG-TTTTAA-TTAAGTA
1 GGTTAGGGTTTTTAATTTAATTA
56644125 GGGTTAGGGTTTTTAATTTAATTAAAATAA
1 -GGTTAGGGTTTTTAATTTAA-T----T-A
56644155 GGTTAGGGTTTTTAATTTACTTAGGTTA
1 GGTTAGGGTTTTTAATTTA---A--TTA
56644183 GGTTAGGGTTTTTAATTTAAGTAGGTTA
1 GGTTAGGGTTTTTAATTT-A--A--TTA
56644211 GGTTAGGGTTTTTAATTTAATAAAATAA
1 GGTTAGGGTTTTTAATTTAAT----T-A
*
56644239 GGTTA-GGTTTTTAATTAAATTAGGTTA
1 GGTTAGGGTTTTTAA-T---TTA-ATTA
56644266 GGTTAGGGTTTTTAATTTAATTAAATTA
1 GGTTAGGGTTTTTAA--T--TT-AATTA
*
56644294 GGTTAGGGTTAGGGTTTTTAA-TTAAGTA
1 GGTTAGGG------TTTTTAATTTAATTA
56644322 GGGTTTAGGGTTTTTAATTTAATTA
1 -GG-TTAGGGTTTTTAATTTAATTA
** *
56644347 AATTAGGGTTTTTAA-TTAAGTA
1 GGTTAGGGTTTTTAATTTAATTA
56644369 GGGTTAGGGTTTTTAAT
1 -GGTTAGGGTTTTTAAT
56644386 CAAATAATGT
Statistics
Matches: 248, Mismatches: 18, Indels: 79
0.72 0.05 0.23
Matches are distributed among these distances:
21 6 0.02
22 18 0.07
23 41 0.17
24 24 0.10
25 13 0.05
27 17 0.07
28 80 0.32
29 29 0.12
30 7 0.03
31 3 0.01
32 2 0.01
33 1 0.00
34 7 0.03
ACGTcount: A:0.29, C:0.00, G:0.24, T:0.47
Consensus pattern (23 bp):
GGTTAGGGTTTTTAATTTAATTA
Found at i:56644212 original size:33 final size:30
Alignment explanation
Indices: 56644126--56644316 Score: 195
Period size: 28 Copynumber: 6.6 Consensus size: 30
56644116 AATTAAGTAG
* ** *
56644126 GGTTAGGGTTTTTAATTTAAT-TAAAATAA
1 GGTTAGGGTTTTTAATTTAATATTAGGTTA
*
56644155 GGTTAGGGTTTTTAATTT-A-CTTAGGTTA
1 GGTTAGGGTTTTTAATTTAATATTAGGTTA
*
56644183 GGTTAGGGTTTTTAATTT-A-AGTAGGTTA
1 GGTTAGGGTTTTTAATTTAATATTAGGTTA
** *
56644211 GGTTAGGGTTTTTAATTTAATA--AAATAA
1 GGTTAGGGTTTTTAATTTAATATTAGGTTA
56644239 GGTTA-GGTTTTTAA-TTAA-ATTAGGTTA
1 GGTTAGGGTTTTTAATTTAATATTAGGTTA
56644266 GGTTAGGGTTTTTAATTTAATTAAATTAGGTTA
1 GGTTAGGGTTTTTAATTTAA-T--ATTAGGTTA
56644299 GGGTTAGGGTTTTTAATT
1 -GGTTAGGGTTTTTAATT
56644317 AAGTAGGGTT
Statistics
Matches: 138, Mismatches: 12, Indels: 19
0.82 0.07 0.11
Matches are distributed among these distances:
25 1 0.01
26 4 0.03
27 17 0.12
28 66 0.48
29 23 0.17
30 1 0.01
33 9 0.07
34 17 0.12
ACGTcount: A:0.29, C:0.01, G:0.23, T:0.47
Consensus pattern (30 bp):
GGTTAGGGTTTTTAATTTAATATTAGGTTA
Found at i:56644251 original size:22 final size:22
Alignment explanation
Indices: 56644226--56644269 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
56644216 GGGTTTTTAA
56644226 TTTAATAAAATAAGGTTAGGTT
1 TTTAATAAAATAAGGTTAGGTT
* *
56644248 TTTAATTAAATTAGGTTAGGTT
1 TTTAATAAAATAAGGTTAGGTT
56644270 AGGGTTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.45
Consensus pattern (22 bp):
TTTAATAAAATAAGGTTAGGTT
Found at i:56644372 original size:17 final size:18
Alignment explanation
Indices: 56644339--56644373 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
56644329 GGGTTTTTAA
*
56644339 TTTAATTAAATTAGGGTT
1 TTTAATTAAAGTAGGGTT
56644357 TTTAATT-AAGTAGGGTT
1 TTTAATTAAAGTAGGGTT
56644374 AGGGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.31, C:0.00, G:0.20, T:0.49
Consensus pattern (18 bp):
TTTAATTAAAGTAGGGTT
Found at i:56644908 original size:18 final size:18
Alignment explanation
Indices: 56644864--56644909 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
56644854 GATTCGGAAA
* *
56644864 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
56644882 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
56644900 AGGAAACATA
1 AGGATACATA
56644910 CCTGGCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:56646784 original size:22 final size:22
Alignment explanation
Indices: 56646754--56646795 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
56646744 ATTTGGAGAT
*
56646754 TTTTTGAAGGAAATTGAGAGGA
1 TTTTGGAAGGAAATTGAGAGGA
*
56646776 TTTTGGAAGGAATTTGAGAG
1 TTTTGGAAGGAAATTGAGAG
56646796 TTTGAGAGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (22 bp):
TTTTGGAAGGAAATTGAGAGGA
Found at i:56646816 original size:52 final size:51
Alignment explanation
Indices: 56646745--56646847 Score: 129
Period size: 52 Copynumber: 2.0 Consensus size: 51
56646735 TTAATATGGA
* * *
56646745 TTTGGAGATTTTTTGAAGGAAATTGAGAG-GATTTTGGAA-GGAATTTGAGAG
1 TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTT-GAAGGGAA-TTGAGAG
*
56646796 TTTGAGAGAATTTTGGAAGGAAATTGATAGAAATTTTGAAGGGAATTGAGAG
1 TTTG-GAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
56646848 AAATTTAGAA
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
51 4 0.09
52 32 0.71
53 9 0.20
ACGTcount: A:0.35, C:0.00, G:0.32, T:0.33
Consensus pattern (51 bp):
TTTGGAGAATTTTGGAAGGAAATTGAGAGAAATTTTGAAGGGAATTGAGAG
Found at i:56646822 original size:22 final size:23
Alignment explanation
Indices: 56646797--56646886 Score: 98
Period size: 22 Copynumber: 4.1 Consensus size: 23
56646787 ATTTGAGAGT
56646797 TTGAGAG-AATTTTGGAAGGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
56646819 TTGATAGAAATTTT-GAAGGGAA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
56646841 TTGAGAGAAATTTAGAAAGG-AA
1 TTGAGAGAAATTTTGGAAGGAAA
* *
56646863 TTGAGAG-AATTTTTGAAAGAAA
1 TTGAGAGAAATTTTGGAAGGAAA
56646885 TT
1 TT
56646887 AATATTGAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 6
0.79 0.13 0.08
Matches are distributed among these distances:
21 8 0.14
22 38 0.68
23 10 0.18
ACGTcount: A:0.43, C:0.00, G:0.27, T:0.30
Consensus pattern (23 bp):
TTGAGAGAAATTTTGGAAGGAAA
Found at i:56655055 original size:105 final size:105
Alignment explanation
Indices: 56654882--56655110 Score: 246
Period size: 105 Copynumber: 2.2 Consensus size: 105
56654872 ACCATTAACT
* * * **
56654882 AATGCACTATAGGTAACAACATTAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATATCCTC
1 AATGTACTATACGTGACAACATTAGGCTCAATGCCTCGCTTTATCATCACGTCAACAATATCCTC
* *
56654947 AGCTTCAGAGACCATCCCTTCCTTGCAATGCA-CATCAACC
66 AGCTTCAGAAACCATCCCTTCCTTGCAAAG-AGCATCAACC
* * * *** *
56654987 AATGTACTATACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCATCATGTCAATGGTCT-CTA
1 AATGTACTATACGTGACAACATTAGGCTCAATGCCTCGCTTTATCATCACGTCAACAATATCCT-
* * * * *
56655051 CAGCTTTAGAAATCGTTCCTTCCTTGCAAAGAGCGTCAACC
65 CAGCTTCAGAAACCATCCCTTCCTTGCAAAGAGCATCAACC
*
56655092 AATGTATTATACGTGACAA
1 AATGTACTATACGTGACAA
56655111 TATCAAGTGA
Statistics
Matches: 102, Mismatches: 20, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
104 3 0.03
105 99 0.97
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (105 bp):
AATGTACTATACGTGACAACATTAGGCTCAATGCCTCGCTTTATCATCACGTCAACAATATCCTC
AGCTTCAGAAACCATCCCTTCCTTGCAAAGAGCATCAACC
Found at i:56656844 original size:21 final size:21
Alignment explanation
Indices: 56656818--56656872 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 21
56656808 AATAGCGGTG
*
56656818 GCGGTGAGATTAGTTACTATA
1 GCGGTGAGATTAGGTACTATA
* *
56656839 GCGGTGAGATTAGGTATTGTA
1 GCGGTGAGATTAGGTACTATA
*
56656860 GCAGTGAGATTAG
1 GCGGTGAGATTAG
56656873 AAATAGCGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.07, G:0.35, T:0.31
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTATA
Found at i:56657480 original size:68 final size:68
Alignment explanation
Indices: 56657368--56657496 Score: 231
Period size: 68 Copynumber: 1.9 Consensus size: 68
56657358 CAAAGGAGGC
* *
56657368 CTTAGTCTTATTTAACTCAGCAAACTCAGCAGCTCCAATTACCCCCATTAACCCCATCGCCAAGC
1 CTTAGTCTTATTTAACTCAGCAAACTCAACAGCTCCAATGACCCCCATTAACCCCATCGCCAAGC
56657433 AGA
66 AGA
*
56657436 CTTAGTCTTATTTAACTCAGCAAACTCAACAGCTCCAATGACCCCCATTAATCCCATCGCC
1 CTTAGTCTTATTTAACTCAGCAAACTCAACAGCTCCAATGACCCCCATTAACCCCATCGCC
56657497 CTTGAGCTTC
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 58 1.00
ACGTcount: A:0.30, C:0.36, G:0.09, T:0.25
Consensus pattern (68 bp):
CTTAGTCTTATTTAACTCAGCAAACTCAACAGCTCCAATGACCCCCATTAACCCCATCGCCAAGC
AGA
Found at i:56658204 original size:13 final size:13
Alignment explanation
Indices: 56658168--56658206 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
56658158 AATCACATTT
56658168 AATATTTTTTA-A
1 AATATTTTTTATA
56658180 AATATTTTTTTATA
1 AATA-TTTTTTATA
*
56658194 AATATATTTTATA
1 AATATTTTTTATA
56658207 CATAAAAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
12 4 0.17
13 15 0.62
14 5 0.21
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
AATATTTTTTATA
Found at i:56660287 original size:37 final size:36
Alignment explanation
Indices: 56660238--56660308 Score: 90
Period size: 37 Copynumber: 1.9 Consensus size: 36
56660228 GGATGGGATG
* * *
56660238 AATATTATTTTATTGAAAATAT-TGTTGAATTTTTT
1 AATATTATTTTATAGAAAAAATATATTGAATTTTTT
56660273 AATATATATATTTATAGAAAAAATATATTGAATTTT
1 AATAT-TAT-TTTATAGAAAAAATATATTGAATTTT
56660309 AAGTTTTCAT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
35 5 0.17
36 3 0.10
37 12 0.40
38 10 0.33
ACGTcount: A:0.42, C:0.00, G:0.07, T:0.51
Consensus pattern (36 bp):
AATATTATTTTATAGAAAAAATATATTGAATTTTTT
Found at i:56662535 original size:105 final size:105
Alignment explanation
Indices: 56662375--56662603 Score: 262
Period size: 105 Copynumber: 2.2 Consensus size: 105
56662365 ACCATTAACT
* * * *
56662375 AATGCACTATAGGTAACAACATTAGGCTCAATGCCTCGCTTTATCATTGCATCAACAATATCCT-
1 AATGTACTATACGTGACAACATCAGGCTCAATGCCTCGCTTTATCATTGCATCAACAATAT-CTA
* * *
56662439 CAGCTTCAGAGACCATCCCTTCCTTGCAATGCGCATCAACC
65 CAGCTTCAGAAACCATCCCTTCCTTGCAAAGAGCATCAACC
* * * ** * *
56662480 AATGTACTATACGTGACAACATCAGGCTCAATGCCTTGCTTTCTTATTGTGTCAACGATCTCTAC
1 AATGTACTATACGTGACAACATCAGGCTCAATGCCTCGCTTTATCATTGCATCAACAATATCTAC
* *** *
56662545 AGCTTTAGAAATTGTTCCTTCCTTGCAAAGAGCATCAACC
66 AGCTTCAGAAACCATCCCTTCCTTGCAAAGAGCATCAACC
*
56662585 AATGTATTATACGTGACAA
1 AATGTACTATACGTGACAA
56662604 TAATATTGTT
Statistics
Matches: 103, Mismatches: 20, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
104 2 0.02
105 101 0.98
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (105 bp):
AATGTACTATACGTGACAACATCAGGCTCAATGCCTCGCTTTATCATTGCATCAACAATATCTAC
AGCTTCAGAAACCATCCCTTCCTTGCAAAGAGCATCAACC
Found at i:56667284 original size:40 final size:39
Alignment explanation
Indices: 56667220--56667350 Score: 219
Period size: 39 Copynumber: 3.4 Consensus size: 39
56667210 AAATTAAAAC
56667220 AAAAAA-TAAAAAAGTATTTTAAAAATATTTTAAAATTT
1 AAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTT
*
56667258 AAAAAATTAAAAAAGTATTTTAAAAAAATTTTAAAATTT
1 AAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTT
*
56667297 AAAAAATTAAAAAAAGTATTTTAAAAGTATTTTAAAATTT
1 AAAAAATT-AAAAAAGTATTTTAAAAATATTTTAAAATTT
*
56667337 AAAAAAATAAAAAA
1 AAAAAATTAAAAAA
56667351 ATTTATTTTA
Statistics
Matches: 87, Mismatches: 4, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
38 6 0.07
39 45 0.52
40 36 0.41
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (39 bp):
AAAAAATTAAAAAAGTATTTTAAAAATATTTTAAAATTT
Found at i:56667351 original size:40 final size:40
Alignment explanation
Indices: 56667220--56667360 Score: 214
Period size: 40 Copynumber: 3.5 Consensus size: 40
56667210 AAATTAAAAC
56667220 AAAAAAT-AAAAAAGTATTTTAAAAATATTTTAAAATTT-
1 AAAAAATAAAAAAAGTATTTTAAAAATATTTTAAAATTTA
* *
56667258 AAAAAATTAAAAAAGTATTTTAAAAAAATTTTAAAATTTA
1 AAAAAATAAAAAAAGTATTTTAAAAATATTTTAAAATTTA
* *
56667298 AAAAATTAAAAAAAGTATTTTAAAAGTATTTTAAAATTTA
1 AAAAAATAAAAAAAGTATTTTAAAAATATTTTAAAATTTA
*
56667338 AAAAAATAAAAAAATTTATTTTA
1 AAAAAATAAAAAAA-GTATTTTA
56667361 TTCGGGTCGG
Statistics
Matches: 93, Mismatches: 7, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
38 7 0.08
39 30 0.32
40 49 0.53
41 7 0.08
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (40 bp):
AAAAAATAAAAAAAGTATTTTAAAAATATTTTAAAATTTA
Found at i:56669235 original size:13 final size:13
Alignment explanation
Indices: 56669217--56669246 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
56669207 TCAATGACGA
56669217 TGAAAGCTTATTG
1 TGAAAGCTTATTG
56669230 TGAAAGCTTATTG
1 TGAAAGCTTATTG
56669243 TGAA
1 TGAA
56669247 CAATGTTTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.37
Consensus pattern (13 bp):
TGAAAGCTTATTG
Found at i:56673220 original size:36 final size:36
Alignment explanation
Indices: 56673179--56673377 Score: 238
Period size: 36 Copynumber: 5.3 Consensus size: 36
56673169 GGTAGCTTTA
56673179 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
56673215 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGAT-A-----AG---T
56673260 AGCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 -GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
56673297 GTTATACTTATCTGATCAAGTGAAAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
* *
56673333 GCTATACTTATCTGATCAAGTGACAAAGTGATAAGT
1 GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
*
56673369 GGTA-ACTTA
1 GCTACACTTA
56673378 GCTACACTTA
Statistics
Matches: 144, Mismatches: 9, Indels: 21
0.83 0.05 0.12
Matches are distributed among these distances:
35 5 0.03
36 101 0.70
37 2 0.01
40 2 0.01
42 2 0.01
45 2 0.01
46 30 0.21
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (36 bp):
GCTACACTTATCTGATCAAGTGAAAAAGTGATAAGT
Found at i:56673280 original size:82 final size:82
Alignment explanation
Indices: 56673143--56673333 Score: 337
Period size: 82 Copynumber: 2.3 Consensus size: 82
56673133 TTTGAGTACT
*
56673143 TCTGATCAAGAGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
56673208 GATAAGTGCTACACTTA
66 GATAAGTGCTACACTTA
*
56673225 TCTGATCAAGAGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
1 TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
* *
56673290 GATAAGTGTTATACTTA
66 GATAAGTGCTACACTTA
*
56673307 TCTGATCAAGTGAAAAAGTGATAAGTG
1 TCTGATCAAGAGAAAAAGTGATAAGTG
56673334 CTATACTTAT
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
82 104 1.00
ACGTcount: A:0.37, C:0.12, G:0.21, T:0.29
Consensus pattern (82 bp):
TCTGATCAAGAGAAAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGAAAAAGT
GATAAGTGCTACACTTA
Found at i:56674411 original size:51 final size:51
Alignment explanation
Indices: 56674229--56674884 Score: 593
Period size: 51 Copynumber: 12.9 Consensus size: 51
56674219 ACTATTATCA
* * *
56674229 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * *
56674278 TTACGGTTCACGTAATAGCCTTCACATAGTACTATACACGTGATC-AAG-TT
1 TT-CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * *
56674328 TTACGATTCACGTAGTAGTCTTCACATAGTACTACATACGTGACTAAAGCTT
1 TT-CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * * *
56674380 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACC--ATCATT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGC-TT
* *
56674430 TATCAATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * ** * * * *
56674482 CTCGGTACATATTGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTT
* *
56674532 TATCGATTCATGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * ** * * * * *
56674584 CTCGATGCATATTGTAGTCTTCACTTAGTACTACACATGTGACCATTA--TT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTT
*
56674634 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * * * * *
56674686 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTT
*
56674736 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * * * * *
56674788 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTT
*
56674838 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
1 T-TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAA
56674885 CACACAGTCC
Statistics
Matches: 482, Mismatches: 103, Indels: 43
0.77 0.16 0.07
Matches are distributed among these distances:
49 4 0.01
50 94 0.20
51 366 0.76
52 16 0.03
53 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (51 bp):
TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
Found at i:56674461 original size:102 final size:102
Alignment explanation
Indices: 56674230--56674884 Score: 1012
Period size: 102 Copynumber: 6.4 Consensus size: 102
56674220 CTATTATCAT
* * * * * * * **
56674230 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTTTTACGGTTCACGTAA
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATTG
* * * * *
56674293 TAGCCTTCACATAGTACTATACACGTGATCAAGT-TTTA
65 TAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTA
* * * * * *
56674331 -CGATTCACGTAGTAGTCTTCACATAGTACTACATACGTGACTAAAGCTTTTCGGTACACATAGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
*
56674395 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
* *
56674432 TCAATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
56674497 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
* * * *
56674534 TCGATTCATGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGATGCATATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
*
56674599 AGTCTTCACTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
56674636 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
56674701 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
56674738 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
56674803 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
56674840 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
56674885 CACACAGTCC
Statistics
Matches: 516, Mismatches: 34, Indels: 7
0.93 0.06 0.01
Matches are distributed among these distances:
100 39 0.08
101 40 0.08
102 437 0.85
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
Found at i:56677523 original size:47 final size:49
Alignment explanation
Indices: 56677405--56677531 Score: 152
Period size: 49 Copynumber: 2.6 Consensus size: 49
56677395 GTTTTTACAT
* * *
56677405 TGCCATAGTCCA-ACTATGGTCTTACATGTAATCACATATCACATACCGA
1 TGCCATAGTCCAGA-TATGGTCTTACACGGAATAACATATCACATACCGA
* * * *
56677454 TGCCATAGCCCAGCTATAGTCTTACACGGAATAACATATCACA-A-TGA
1 TGCCATAGTCCAGATATGGTCTTACACGGAATAACATATCACATACCGA
*
56677501 TGCCATATTCCAGATATGGTCTTACACGGAA
1 TGCCATAGTCCAGATATGGTCTTACACGGAA
56677532 ATTTCATAAT
Statistics
Matches: 66, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
47 29 0.44
48 1 0.02
49 36 0.55
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.27
Consensus pattern (49 bp):
TGCCATAGTCCAGATATGGTCTTACACGGAATAACATATCACATACCGA
Found at i:56679835 original size:51 final size:51
Alignment explanation
Indices: 56679653--56680410 Score: 666
Period size: 51 Copynumber: 14.9 Consensus size: 51
56679643 ACTATTATCA
* * *
56679653 TTCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * *
56679702 TTACGGTTCACGTAATAGCCTTCACATAGTACTATACACGTGATC-AAG-TT
1 TT-CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * *
56679752 TTACGATTCACGTAGTAGTCTTCACATAGTACTACATACGTGACTAAAGCTT
1 TT-CGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * * *
56679804 TTCGGTACACATAGTAGCCTTCACTTAGTACTACACATGTGACC--ATCATT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGC-TT
* *
56679854 TATCAATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * * * * *
56679906 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTT
*
56679956 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * ** * * * * *
56680008 CTCGGTACATATTGTAGCCTTCACTTAGTACTACACATGTTACCATTA--TT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTT
* *
56680058 TATCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGATCAAAGCTT
1 T-TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * * * * *
56680110 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTT
* * *
56680160 TATTGATTCACGTAGTAGCCTTCACACAGTACTACACATGTGACCAAAGCTT
1 T-TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * * * * *
56680212 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTT
* *
56680262 TATAGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTT
1 T-TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
* * * * * * * *
56680314 CTCGGTACACATTGTAGCCTTCACTTAGTACTACACATGTGACCATTA--TT
1 TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCA-AAGCTT
56680364 TATCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAA
1 T-TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAA
56680411 CACTTTCACT
Statistics
Matches: 557, Mismatches: 126, Indels: 51
0.76 0.17 0.07
Matches are distributed among these distances:
49 4 0.01
50 97 0.17
51 435 0.78
52 19 0.03
53 2 0.00
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (51 bp):
TTCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAAAGCTT
Found at i:56679885 original size:102 final size:102
Alignment explanation
Indices: 56679654--56680410 Score: 1207
Period size: 102 Copynumber: 7.4 Consensus size: 102
56679644 CTATTATCAT
* * * * * * * **
56679654 TCGATACACGTAGTAGCCTTCACATAGTACTACACACGTGATC-AA-TTTTTACGGTTCACGTAA
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCT-CGGTACACATTG
* * * * *
56679717 TAGCCTTCACATAGTACTATACACGTGATCAAGT-TTTA
65 TAGCCTTCACTTAGTACTACACATGTGA-CCATTATTTA
* * * * * *
56679755 -CGATTCACGTAGTAGTCTTCACATAGTACTACATACGTGACTAAAGCTTTTCGGTACACATAGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
*
56679819 AGCCTTCACTTAGTACTACACATGTGACCATCATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
*
56679856 TCAATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
56679921 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
*
56679958 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACATATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
*
56680023 AGCCTTCACTTAGTACTACACATGTTACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
*
56680060 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGATCAAAGCTTCTCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
56680125 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
* *
56680162 TTGATTCACGTAGTAGCCTTCACACAGTACTACACATGTGACCAAAGCTTCTCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
56680227 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
*
56680264 TAGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
56680329 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
66 AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
*
56680366 TCGATTCACGTAGTAGCCTTCACATAGTACTACACACGTGACCAA
1 TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAA
56680411 CACTTTCACT
Statistics
Matches: 616, Mismatches: 36, Indels: 7
0.93 0.05 0.01
Matches are distributed among these distances:
100 39 0.06
101 40 0.06
102 537 0.87
ACGTcount: A:0.29, C:0.26, G:0.15, T:0.30
Consensus pattern (102 bp):
TCGATTCACGTAGTAGCCTTCACACAGTACTACACACGTGACCAAAGCTTCTCGGTACACATTGT
AGCCTTCACTTAGTACTACACATGTGACCATTATTTA
Found at i:56680543 original size:12 final size:11
Alignment explanation
Indices: 56680517--56680541 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56680507 AATCGGGAAA
56680517 TTTCTCATTTT
1 TTTCTCATTTT
56680528 TTTCTCATTTT
1 TTTCTCATTTT
56680539 TTT
1 TTT
56680542 TCACTAATCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.08, C:0.16, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTCTCATTTT
Found at i:56683177 original size:6 final size:6
Alignment explanation
Indices: 56683166--56683194 Score: 58
Period size: 6 Copynumber: 4.8 Consensus size: 6
56683156 AAGGAGAGAA
56683166 GAAAAG GAAAAG GAAAAG GAAAAG GAAAA
1 GAAAAG GAAAAG GAAAAG GAAAAG GAAAA
56683195 ATTAGGGTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (6 bp):
GAAAAG
Found at i:56684332 original size:23 final size:23
Alignment explanation
Indices: 56684268--56684376 Score: 102
Period size: 23 Copynumber: 5.0 Consensus size: 23
56684258 GCTTTGCCGA
* * *
56684268 TCAGGCACTATATGTGTTGTATA
1 TCAGGCACTTTATGTGTCGTATT
* *
56684291 TCAGGAACTTTATGAGTCGTATT
1 TCAGGCACTTTATGTGTCGTATT
**
56684314 TCAGGCACTCCATGTGTCG--TT
1 TCAGGCACTTTATGTGTCGTATT
*
56684335 TCAAGCACTTTATGTGTCGTA--
1 TCAGGCACTTTATGTGTCGTATT
*
56684356 TCATGCAC-TTATGTGTCGTAT
1 TCAGGCACTTTATGTGTCGTAT
56684377 ACTGATCGGG
Statistics
Matches: 70, Mismatches: 13, Indels: 8
0.77 0.14 0.09
Matches are distributed among these distances:
20 12 0.17
21 25 0.36
23 33 0.47
ACGTcount: A:0.22, C:0.18, G:0.21, T:0.39
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCGTATT
Found at i:56684369 original size:20 final size:21
Alignment explanation
Indices: 56684297--56684376 Score: 81
Period size: 21 Copynumber: 3.8 Consensus size: 21
56684287 TATATCAGGA
* *
56684297 ACTTTATGAGTCGTATTTCAGGC
1 ACTTTATGTGTCGTA--TCAAGC
** *
56684320 ACTCCATGTGTCGTTTCAAGC
1 ACTTTATGTGTCGTATCAAGC
*
56684341 ACTTTATGTGTCGTATCATGC
1 ACTTTATGTGTCGTATCAAGC
56684362 AC-TTATGTGTCGTAT
1 ACTTTATGTGTCGTAT
56684377 ACTGATCGGG
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
20 13 0.27
21 24 0.50
23 11 0.23
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.40
Consensus pattern (21 bp):
ACTTTATGTGTCGTATCAAGC
Found at i:56684807 original size:19 final size:19
Alignment explanation
Indices: 56684780--56684816 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
56684770 GAAACGAGCT
*
56684780 ATTGAAATGAGATTGAAAA
1 ATTGAAATGAAATTGAAAA
*
56684799 ATTGCAATGAAATTGAAA
1 ATTGAAATGAAATTGAAA
56684817 TAGTGAAATA
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:0.03, G:0.19, T:0.27
Consensus pattern (19 bp):
ATTGAAATGAAATTGAAAA
Found at i:56690211 original size:21 final size:21
Alignment explanation
Indices: 56690185--56690225 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
56690175 AGACGAGCAA
* *
56690185 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
56690206 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
56690226 TTGAGCAGAT
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:0.29, C:0.22, G:0.29, T:0.20
Consensus pattern (21 bp):
TACTCCAAAACAGGTGGAGTG
Found at i:56695559 original size:105 final size:105
Alignment explanation
Indices: 56695442--56695702 Score: 396
Period size: 105 Copynumber: 2.5 Consensus size: 105
56695432 AATGACCATT
* * * * **
56695442 AACTAATATATTATAGGTAACAACATCAGGCTCGATTTCTCGCTTTATCATTGCGTCAACAATAT
1 AACTAATGTATTATACGTGACAACATCAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATAT
56695507 CCTCAGCTTCAAAGACCATCCCTTCCTTGCAATGCGCATC
66 CCTCAGCTTCAAAGACCATCCCTTCCTTGCAATGCGCATC
56695547 AACTAATGTATTATACGTGACAACATCAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATAT
1 AACTAATGTATTATACGTGACAACATCAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATAT
* *
56695612 CCTCAGCTTCAGAGACCATCCCTTCCTTGCAATGTGCATC
66 CCTCAGCTTCAAAGACCATCCCTTCCTTGCAATGCGCATC
* * * * * *
56695652 AACCATTGTAGTATACGTGACAACATTAGGCTCAATGCCTTGCTTTCTCAT
1 AACTAATGTATTATACGTGACAACATCAGGCTCAATGCCTCGCTTTATCAT
56695703 CATGTCAACG
Statistics
Matches: 142, Mismatches: 14, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
105 142 1.00
ACGTcount: A:0.28, C:0.27, G:0.14, T:0.31
Consensus pattern (105 bp):
AACTAATGTATTATACGTGACAACATCAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATAT
CCTCAGCTTCAAAGACCATCCCTTCCTTGCAATGCGCATC
Found at i:56695725 original size:105 final size:105
Alignment explanation
Indices: 56695461--56695784 Score: 335
Period size: 105 Copynumber: 3.1 Consensus size: 105
56695451 ATTATAGGTA
* ** ** * *
56695461 ACAACATCAGGCTCGATTTCTCGCTTTATCATTGCGTCAACAATATCCTCAGCTTCAAAGACCAT
1 ACAACATCAGGCTCAATGCCTCGCTTTATCATCACGTCAACAATATCCTAAGCTTCAGAGACCAT
* * *
56695526 CCCTTCCTTGCAATGCGCATCAACTAATGTATTATACGTG
66 CCCTTCCTTGCAATGAGCATCAACCAATGTAGTATACGTG
** *
56695566 ACAACATCAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATATCCTCAGCTTCAGAGACCAT
1 ACAACATCAGGCTCAATGCCTCGCTTTATCATCACGTCAACAATATCCTAAGCTTCAGAGACCAT
* *
56695631 CCCTTCCTTGCAATGTGCATCAACCATTGTAGTATACGTG
66 CCCTTCCTTGCAATGAGCATCAACCAATGTAGTATACGTG
* * * * ** * * * * *
56695671 ACAACATTAGGCTCAATGCCTTGCTTTCTCATCATGTCAACGGTCT-CTAAAGCTTTAGAAATCG
1 ACAACATCAGGCTCAATGCCTCGCTTTATCATCACGTCAACAATATCCT-AAGCTTCAGAGACCA
* * * ** *
56695735 TTCCTTCCTTGCAAAGAGCATCAATCAATAAAGTATATGTG
65 TCCCTTCCTTGCAATGAGCATCAACCAATGTAGTATACGTG
*
56695776 ACAATATCA
1 ACAACATCA
56695785 AGTGAAATAT
Statistics
Matches: 186, Mismatches: 32, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
104 2 0.01
105 184 0.99
ACGTcount: A:0.29, C:0.27, G:0.14, T:0.30
Consensus pattern (105 bp):
ACAACATCAGGCTCAATGCCTCGCTTTATCATCACGTCAACAATATCCTAAGCTTCAGAGACCAT
CCCTTCCTTGCAATGAGCATCAACCAATGTAGTATACGTG
Found at i:56696908 original size:18 final size:18
Alignment explanation
Indices: 56696885--56696920 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
56696875 ACTTATTTTT
56696885 ATAATTAAGTTTTAAATA
1 ATAATTAAGTTTTAAATA
56696903 ATAATTAAGTTTTAAATA
1 ATAATTAAGTTTTAAATA
56696921 TGATTAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (18 bp):
ATAATTAAGTTTTAAATA
Found at i:56699574 original size:14 final size:14
Alignment explanation
Indices: 56699555--56699586 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
56699545 CACATTTGAT
*
56699555 TTTTTTTAAAAATA
1 TTTTTTAAAAAATA
56699569 TTTTTTAAAAAATA
1 TTTTTTAAAAAATA
56699583 TTTT
1 TTTT
56699587 ATACATAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
TTTTTTAAAAAATA
Found at i:56701674 original size:11 final size:11
Alignment explanation
Indices: 56701658--56701682 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56701648 TATGTGTGAG
56701658 TTTTTTATAAA
1 TTTTTTATAAA
56701669 TTTTTTATAAA
1 TTTTTTATAAA
56701680 TTT
1 TTT
56701683 AAATATTTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (11 bp):
TTTTTTATAAA
Found at i:56707209 original size:105 final size:105
Alignment explanation
Indices: 56707074--56707302 Score: 280
Period size: 105 Copynumber: 2.2 Consensus size: 105
56707064 ACCATTAACT
* * * *
56707074 AATGTATTATAGGTAACAACATTAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATATCCT-
1 AATGTACTATACGTGACAACATCAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATAT-CTA
* * *
56707138 CAGCTTCAGAGACCATCCCTTCCTTGCAATGCGCATCAACC
65 CAGCTTCAGAAACCATCCCTTCCTTGCAAAGAGCATCAACC
* * * * ** *
56707179 AATGTACTATACGTGACAACATCGGGCTCAATGCCTTGCTTTCTCATTGTGTCAACGGTCTCTAC
1 AATGTACTATACGTGACAACATCAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATATCTAC
* * * *
56707244 AGCTTTAGAAATCGTTCCTTCCTTGCAAAGAGCATCAACC
66 AGCTTCAGAAACCATCCCTTCCTTGCAAAGAGCATCAACC
56707284 AATGTACTATACGTGACAA
1 AATGTACTATACGTGACAA
56707303 TATTAAGTGA
Statistics
Matches: 105, Mismatches: 18, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
104 2 0.02
105 103 0.98
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.29
Consensus pattern (105 bp):
AATGTACTATACGTGACAACATCAGGCTCAATGCCTCGCTTTATCATTGCGTCAACAATATCTAC
AGCTTCAGAAACCATCCCTTCCTTGCAAAGAGCATCAACC
Found at i:56708570 original size:21 final size:21
Alignment explanation
Indices: 56708544--56708584 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
56708534 ATTTATATTT
56708544 TTATAA-TCTATAAATTATAAG
1 TTATAAGT-TATAAATTATAAG
*
56708565 TTATAAGTTATAATTTATAA
1 TTATAAGTTATAAATTATAA
56708585 CTTCAAAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.46, C:0.02, G:0.05, T:0.46
Consensus pattern (21 bp):
TTATAAGTTATAAATTATAAG
Found at i:56710620 original size:3 final size:3
Alignment explanation
Indices: 56710604--56710642 Score: 60
Period size: 3 Copynumber: 13.0 Consensus size: 3
56710594 AAAGATAAAT
* *
56710604 ATA ATA ACA GTA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56710643 GTAGTAGTAG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (3 bp):
ATA
Done.