Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, whole genome shotgun sequence
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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 22 of 195
Found at i:5089379 original size:21 final size:21
Alignment explanation
Indices: 5089353--5089395 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
5089343 TGCTATAGAT
*
5089353 AGATTGATGAATCTCATGTCA
1 AGATTGATGAATATCATGTCA
5089374 AGATTGATGAATATCATGTCA
1 AGATTGATGAATATCATGTCA
5089395 A
1 A
5089396 AATTAGATTG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.37, C:0.12, G:0.19, T:0.33
Consensus pattern (21 bp):
AGATTGATGAATATCATGTCA
Found at i:5096939 original size:52 final size:52
Alignment explanation
Indices: 5096882--5096986 Score: 124
Period size: 52 Copynumber: 2.0 Consensus size: 52
5096872 TTTTAGAAAA
* * * *
5096882 TAAAAAATAAGAGTGAAAACGTGTTTGATAATTA-AAAATGAAAATAA-ATTTT
1 TAAAAAATAAAAATGAAAACGAG-TTGA-AATTAGAAAATAAAAATAATATTTT
*
5096934 TAAAAAATAAAAATGAAAATGAGTTGAAATTATGAAAATAAAAATAATATTTT
1 TAAAAAATAAAAATGAAAACGAGTTGAAATTA-GAAAATAAAAATAATATTTT
5096987 CAATTATGAA
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
50 5 0.11
51 4 0.09
52 31 0.69
53 5 0.11
ACGTcount: A:0.57, C:0.01, G:0.11, T:0.30
Consensus pattern (52 bp):
TAAAAAATAAAAATGAAAACGAGTTGAAATTAGAAAATAAAAATAATATTTT
Found at i:5097894 original size:30 final size:29
Alignment explanation
Indices: 5097860--5097947 Score: 79
Period size: 29 Copynumber: 2.9 Consensus size: 29
5097850 AATAATGATA
*
5097860 TATTTGGATACAAATCAAAAA-ATAAAAATT
1 TATTTGAATA-AAAT-AAAAATATAAAAATT
*
5097890 TATTTGAATATAATAAAAATATAAAAATT
1 TATTTGAATAAAATAAAAATATAAAAATT
* * * *
5097919 AATCTAAATAAAATTTAAAAATTTAAAAA
1 TATTTGAATAAAA--TAAAAATATAAAAA
5097948 CTTTTTAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
28 5 0.10
29 21 0.44
30 9 0.19
31 13 0.27
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.33
Consensus pattern (29 bp):
TATTTGAATAAAATAAAAATATAAAAATT
Found at i:5106323 original size:4 final size:4
Alignment explanation
Indices: 5106314--5106344 Score: 53
Period size: 4 Copynumber: 7.8 Consensus size: 4
5106304 TTTAAATTCT
*
5106314 TTTA TTTA TTTA TCTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
5106345 TTATTGTAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.23, C:0.03, G:0.00, T:0.74
Consensus pattern (4 bp):
TTTA
Found at i:5110903 original size:23 final size:24
Alignment explanation
Indices: 5110864--5110909 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
5110854 TAAAAGATGA
5110864 CATTGATATTTAAATCTT-TATTG
1 CATTGATATTTAAATCTTATATTG
**
5110887 CATTGATATTTTTATCTTATATT
1 CATTGATATTTAAATCTTATATT
5110910 CAGATTACGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.28, C:0.09, G:0.07, T:0.57
Consensus pattern (24 bp):
CATTGATATTTAAATCTTATATTG
Found at i:5111866 original size:1 final size:1
Alignment explanation
Indices: 5111860--5111901 Score: 84
Period size: 1 Copynumber: 42.0 Consensus size: 1
5111850 TATTGTTAAG
5111860 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
5111902 CTATCTACCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 41 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:5114183 original size:180 final size:178
Alignment explanation
Indices: 5113843--5114202 Score: 612
Period size: 180 Copynumber: 2.0 Consensus size: 178
5113833 TGGATAGATA
*
5113843 TTGCTTGATAGATAAAAAGACTTGTAGAAAAAGAATTCTAAGAAAAAATATTCTTAATAGATCAG
1 TTGCTTGATAGACAAAAAGACTTGTAGAAAAAGAATTCTAAGAAAAAATATTCTTAATAGATCAG
* *
5113908 TTTGACTTACAAAAAAAGAATTTTAAGAGGAAAAAATTTTTAATAGGTAAGTTTGTATGCTTATA
66 TTTAACTTACAAAAAAAGAATTTTAAGAGGAAAAAATTTTTAATAGGCAAGTTTGTATGCTTATA
*
5113973 AATATGTAAAATCTCTATAGGGTTAGATATGAGAAGAGAATTGTAAGG
131 AATAGGTAAAATCTCTATAGGGTTAGATATGAGAAGAGAATTGTAAGG
* *
5114021 TTGCTTGATAGACAAAAAGAGTTGTAGAAAAAGAATTTTAAGAAAAAAATATTCTTAATAGATCA
1 TTGCTTGATAGACAAAAAGACTTGTAGAAAAAGAATTCTAAG-AAAAAATATTCTTAATAGATCA
* *
5114086 GTTTAACTTACAGAAGAAGAATTTTAAGAGGAAAGAAATTTTTAATAGGCAAGTTTGTATGCTTA
65 GTTTAACTTACAAAAAAAGAATTTTAAGAGGAAA-AAATTTTTAATAGGCAAGTTTGTATGCTTA
* *
5114151 TAAATAGGTGAAATCTTTATAGGGTTAGATATGAGAAGAGAATTGTAAGG
129 TAAATAGGTAAAATCTCTATAGGGTTAGATATGAGAAGAGAATTGTAAGG
5114201 TT
1 TT
5114203 TTATGGAACA
Statistics
Matches: 170, Mismatches: 10, Indels: 2
0.93 0.05 0.01
Matches are distributed among these distances:
178 39 0.23
179 53 0.31
180 78 0.46
ACGTcount: A:0.44, C:0.05, G:0.19, T:0.32
Consensus pattern (178 bp):
TTGCTTGATAGACAAAAAGACTTGTAGAAAAAGAATTCTAAGAAAAAATATTCTTAATAGATCAG
TTTAACTTACAAAAAAAGAATTTTAAGAGGAAAAAATTTTTAATAGGCAAGTTTGTATGCTTATA
AATAGGTAAAATCTCTATAGGGTTAGATATGAGAAGAGAATTGTAAGG
Found at i:5118334 original size:23 final size:25
Alignment explanation
Indices: 5118308--5118360 Score: 74
Period size: 23 Copynumber: 2.2 Consensus size: 25
5118298 AATTTTTTCT
*
5118308 TTTTTTGTATGTTTTT-TA-GTTTA
1 TTTTTTGTATGTTTTTATACGTGTA
*
5118331 TTTTTTGTGTGTTTTTATACGTGTA
1 TTTTTTGTATGTTTTTATACGTGTA
5118356 TTTTT
1 TTTTT
5118361 GGTGCTGGAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
23 15 0.58
24 2 0.08
25 9 0.35
ACGTcount: A:0.11, C:0.02, G:0.15, T:0.72
Consensus pattern (25 bp):
TTTTTTGTATGTTTTTATACGTGTA
Found at i:5118788 original size:29 final size:26
Alignment explanation
Indices: 5118705--5118788 Score: 64
Period size: 29 Copynumber: 3.0 Consensus size: 26
5118695 ATAAGGAAGA
*
5118705 AGAAGAAAGAAAAAGAAATAAGGAAA-G
1 AGAAGAAAGAAAAA-AAATAA-AAAATG
5118732 A-AAGAAGAGAAAAAAAAACGTAAAAAATG
1 AGAAGAA-AG-AAAAAAAA--TAAAAAATG
5118761 AGAAGAAAGAGAAAAAAATTAAATAAAT
1 AGAAGAAAGA-AAAAAAA-TAAA-AAAT
5118789 AATAATAATA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
26 5 0.11
27 6 0.13
28 13 0.28
29 18 0.38
30 5 0.11
ACGTcount: A:0.71, C:0.01, G:0.19, T:0.08
Consensus pattern (26 bp):
AGAAGAAAGAAAAAAAATAAAAAATG
Found at i:5119177 original size:101 final size:99
Alignment explanation
Indices: 5119053--5119382 Score: 431
Period size: 101 Copynumber: 3.3 Consensus size: 99
5119043 TAAAAGTTCC
5119053 TCTCAGCAGAGGCTTAACAACTTTAAAATCTCATATCATGAAAATGGCTCATCTCAGCAGAGGCT
1 TCTCAGCAGAGGCTTAACAACTTTAAAATCTCATATC-TGAAAA-GGCTCATCTCAGCAGAGGCT
*
5119118 CAACTACTTTAAAATTCTTATCTTGAAAATGGCTCA
64 CAACAACTTTAAAATTCTTATCTTGAAAATGGCTCA
* * * ** *
5119154 TCTCAGCAAAGGCTCAACAACTTTAAAAT-TCTTATCTTGGAAAAGTTTC-TCTTAGCAGAGGCT
1 TCTCAGCAGAGGCTTAACAACTTTAAAATCTCATATC-T-GAAAAGGCTCATCTCAGCAGAGGCT
*
5119217 CAACAACTTTAAAAATCTCATATCTTGAAAATGGCTCA
64 CAACAACTTT-AAAAT-TCTTATCTTGAAAATGGCTCA
* *
5119255 TCTCAGCAGAGGTTTAACAACTTTAAAATCTC--ATCTGAAAAAGCTCATCTCAGCAGAGGCTCA
1 TCTCAGCAGAGGCTTAACAACTTTAAAATCTCATATCTGAAAAGGCTCATCTCAGCAGAGGCTCA
* * *
5119318 ACAACTTTAAAA-TCTCATC-TGAAAA-AGCTCC
66 ACAACTTTAAAATTCTTATCTTGAAAATGGCTCA
*
5119349 TCTCAGCAGAGGCATAACAACTTTAAAATCTCAT
1 TCTCAGCAGAGGCTTAACAACTTTAAAATCTCAT
5119383 CTATTTTCAA
Statistics
Matches: 200, Mismatches: 22, Indels: 19
0.83 0.09 0.08
Matches are distributed among these distances:
94 34 0.17
95 6 0.03
96 5 0.03
98 11 0.05
99 46 0.23
100 18 0.09
101 78 0.39
102 2 0.01
ACGTcount: A:0.36, C:0.22, G:0.13, T:0.28
Consensus pattern (99 bp):
TCTCAGCAGAGGCTTAACAACTTTAAAATCTCATATCTGAAAAGGCTCATCTCAGCAGAGGCTCA
ACAACTTTAAAATTCTTATCTTGAAAATGGCTCA
Found at i:5119306 original size:47 final size:48
Alignment explanation
Indices: 5119044--5119384 Score: 393
Period size: 47 Copynumber: 6.9 Consensus size: 48
5119034 TTTTTTGTGT
* * * *
5119044 AAAAGTTCCTCTCAGCAGAGGCTTAACAACTTTAAAATCTCATATCATGA
1 AAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTC--ATCTTGA
* * *
5119094 AAATGGCTCATCTCAGCAGAGGCTCAACTACTTTAAAATTCTTATCTTGA
1 AAA-AGCTCATCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATCTTGA
* * * *
5119144 AAATGGCTCATCTCAGCAAAGGCTCAACAACTTTAAAATTCTTATCTTGG
1 AAA-AGCTCATCTCAGCAGAGGCTCAACAACTTTAAAA-TCTCATCTTGA
* *
5119194 AAAAGTTTC-TCTTAGCAGAGGCTCAACAACTTTAAAAATCTCATATCTTGA
1 AAAAG-CTCATCTCAGCAGAGGCTCAACAACTTT-AAAATCTC--ATCTTGA
* * *
5119245 AAATGGCTCATCTCAGCAGAGGTTTAACAACTTTAAAATCTCATC-TGA
1 AAA-AGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGA
5119293 AAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATC-TGA
1 AAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGA
*
5119340 AAAAGCTCCTCTCAGCAGAGGCAT-AACAACTTTAAAATCTCATCT
1 AAAAGCTCATCTCAGCAGAGGC-TCAACAACTTTAAAATCTCATCT
5119385 ATTTTCAAAT
Statistics
Matches: 256, Mismatches: 25, Indels: 22
0.84 0.08 0.07
Matches are distributed among these distances:
47 82 0.32
48 7 0.03
49 29 0.11
50 65 0.25
51 48 0.19
52 25 0.10
ACGTcount: A:0.36, C:0.23, G:0.13, T:0.28
Consensus pattern (48 bp):
AAAAGCTCATCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTGA
Found at i:5123148 original size:18 final size:18
Alignment explanation
Indices: 5123127--5123162 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
5123117 TTTTTCTTTA
5123127 ATTTTCAGCAACATCTCT
1 ATTTTCAGCAACATCTCT
5123145 ATTTTCAGCAACATCTCT
1 ATTTTCAGCAACATCTCT
5123163 GGTTTCATGT
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:0.28, C:0.28, G:0.06, T:0.39
Consensus pattern (18 bp):
ATTTTCAGCAACATCTCT
Found at i:5123168 original size:18 final size:18
Alignment explanation
Indices: 5123129--5123169 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
5123119 TTTCTTTAAT
*
5123129 TTTCAGCAACATCTCTAT
1 TTTCAGCAACATCTCTAG
*
5123147 TTTCAGCAACATCTCTGG
1 TTTCAGCAACATCTCTAG
5123165 TTTCA
1 TTTCA
5123170 TGTGTCTTAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.24, C:0.27, G:0.10, T:0.39
Consensus pattern (18 bp):
TTTCAGCAACATCTCTAG
Found at i:5132588 original size:14 final size:14
Alignment explanation
Indices: 5132541--5132603 Score: 60
Period size: 14 Copynumber: 4.5 Consensus size: 14
5132531 GAATCAGATA
*
5132541 AGAAAGAAAAAGAAG
1 AGAAA-AAAAATAAG
5132556 -GAAAAAGAAAT--G
1 AGAAAAA-AAATAAG
*
5132568 AGGAAAAAAATAAG
1 AGAAAAAAAATAAG
5132582 AGAAAAAAAATAAG
1 AGAAAAAAAATAAG
5132596 AAGAAAAA
1 -AGAAAAA
5132604 CGTAAAAAAC
Statistics
Matches: 40, Mismatches: 3, Indels: 10
0.75 0.06 0.19
Matches are distributed among these distances:
12 5 0.12
13 7 0.17
14 21 0.52
15 7 0.17
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.05
Consensus pattern (14 bp):
AGAAAAAAAATAAG
Found at i:5132647 original size:3 final size:3
Alignment explanation
Indices: 5132639--5132700 Score: 124
Period size: 3 Copynumber: 20.7 Consensus size: 3
5132629 AAATTAAATA
5132639 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
5132687 AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AA
5132701 ATGGTGTTTA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 59 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:5136530 original size:52 final size:52
Alignment explanation
Indices: 5136473--5136572 Score: 148
Period size: 52 Copynumber: 1.9 Consensus size: 52
5136463 TGGATAAAAA
* *
5136473 GACTTGCAGAAGAAGAATTTTAAGA-GAAAAAATATTTTTAATAGACAAGTTT
1 GACTTGCAAAAGAAGAATTCTAAGAGGAAAAAA-ATTTTTAATAGACAAGTTT
* *
5136525 GACTTGCAAAAGAAGAATTCTAAGAGGGAAGAAATTTTTAATAGACAA
1 GACTTGCAAAAGAAGAATTCTAAGAGGAAAAAAATTTTTAATAGACAA
5136573 ATTTATATAC
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
52 38 0.88
53 5 0.12
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.27
Consensus pattern (52 bp):
GACTTGCAAAAGAAGAATTCTAAGAGGAAAAAAATTTTTAATAGACAAGTTT
Found at i:5141028 original size:23 final size:23
Alignment explanation
Indices: 5140998--5141046 Score: 89
Period size: 23 Copynumber: 2.1 Consensus size: 23
5140988 TACAAATTAT
*
5140998 GCCTTCAAGTTAGAACTGGTAAA
1 GCCTTCAAGTCAGAACTGGTAAA
5141021 GCCTTCAAGTCAGAACTGGTAAA
1 GCCTTCAAGTCAGAACTGGTAAA
5141044 GCC
1 GCC
5141047 ATACCCGGCT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.33, C:0.22, G:0.22, T:0.22
Consensus pattern (23 bp):
GCCTTCAAGTCAGAACTGGTAAA
Found at i:5141139 original size:2 final size:2
Alignment explanation
Indices: 5141132--5141171 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
5141122 CAAAACCATG
5141132 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
5141172 GACATCTGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:5150150 original size:41 final size:42
Alignment explanation
Indices: 5150063--5150143 Score: 137
Period size: 42 Copynumber: 2.0 Consensus size: 42
5150053 GATAAAGAAT
* *
5150063 AATAAAAGTAACTATGTACCGTACAAAATTGGGAATAAGCAA
1 AATAAAAGTAACTATATACCGTACAAAAGTGGGAATAAGCAA
5150105 AATAAAAGTAACTATATACCGTAC-AAAGTGGGAATAAGC
1 AATAAAAGTAACTATATACCGTACAAAAGTGGGAATAAGC
5150144 TGAATAATAG
Statistics
Matches: 37, Mismatches: 2, Indels: 1
0.93 0.05 0.03
Matches are distributed among these distances:
41 14 0.38
42 23 0.62
ACGTcount: A:0.49, C:0.12, G:0.17, T:0.21
Consensus pattern (42 bp):
AATAAAAGTAACTATATACCGTACAAAAGTGGGAATAAGCAA
Found at i:5157406 original size:17 final size:16
Alignment explanation
Indices: 5157384--5157418 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
5157374 AAAATTGATG
5157384 AACTATAAGCAAATATA
1 AACTATAAGCAAA-ATA
*
5157401 AACTATAATCAAAATA
1 AACTATAAGCAAAATA
5157417 AA
1 AA
5157419 AAGATAGGGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.63, C:0.11, G:0.03, T:0.23
Consensus pattern (16 bp):
AACTATAAGCAAAATA
Found at i:5159461 original size:25 final size:23
Alignment explanation
Indices: 5159433--5159480 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 23
5159423 TATTTTTATT
*
5159433 AATATAATACATATATATAAATATA
1 AATATAATAAATA-ATA-AAATATA
5159458 AATATAATAAATAATAAAATATA
1 AATATAATAAATAATAAAATATA
5159481 TTCTTTTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 7 0.32
24 3 0.14
25 12 0.55
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (23 bp):
AATATAATAAATAATAAAATATA
Found at i:5160043 original size:15 final size:15
Alignment explanation
Indices: 5160025--5160053 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
5160015 AATTTATCTA
5160025 ATAAAAAATTAAAAG
1 ATAAAAAATTAAAAG
5160040 ATAAAAAATTAAAA
1 ATAAAAAATTAAAA
5160054 AAACCCCAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.76, C:0.00, G:0.03, T:0.21
Consensus pattern (15 bp):
ATAAAAAATTAAAAG
Found at i:5160072 original size:8 final size:8
Alignment explanation
Indices: 5160026--5160098 Score: 60
Period size: 8 Copynumber: 8.9 Consensus size: 8
5160016 ATTTATCTAA
5160026 TAAAAAAT
1 TAAAAAAT
*
5160034 TAAAAGA-
1 TAAAAAAT
5160041 TAAAAAAT
1 TAAAAAAT
*
5160049 TAAAAAAACCC
1 T-AAAAAA--T
*
5160060 CAAAAAAT
1 TAAAAAAT
*
5160068 TAAAAATTT
1 TAAAAA-AT
5160077 TAAAAAAT
1 TAAAAAAT
5160085 T-AAAAAT
1 TAAAAAAT
5160092 TAAAAAA
1 TAAAAAA
5160099 GAACAAAATG
Statistics
Matches: 51, Mismatches: 8, Indels: 12
0.72 0.11 0.17
Matches are distributed among these distances:
7 13 0.25
8 19 0.37
9 13 0.25
10 6 0.12
ACGTcount: A:0.71, C:0.05, G:0.01, T:0.22
Consensus pattern (8 bp):
TAAAAAAT
Found at i:5160098 original size:17 final size:17
Alignment explanation
Indices: 5160061--5160098 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
5160051 AAAAAACCCC
**
5160061 AAAAAATTAAAAATTTT
1 AAAAAATTAAAAATTAA
5160078 AAAAAATTAAAAATTAA
1 AAAAAATTAAAAATTAA
5160095 AAAA
1 AAAA
5160099 GAACAAAATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (17 bp):
AAAAAATTAAAAATTAA
Found at i:5160316 original size:18 final size:18
Alignment explanation
Indices: 5160287--5160321 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
5160277 AAATAAATTT
5160287 TAAAAAACCAAATAAAAAG
1 TAAAAAACCAAA-AAAAAG
5160306 TAAAAAA-CAAAAAAAA
1 TAAAAAACCAAAAAAAA
5160322 TAATTTTAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.80, C:0.09, G:0.03, T:0.09
Consensus pattern (18 bp):
TAAAAAACCAAAAAAAAG
Found at i:5160457 original size:29 final size:28
Alignment explanation
Indices: 5160406--5160470 Score: 71
Period size: 29 Copynumber: 2.3 Consensus size: 28
5160396 GTTTTGCAGG
* * *
5160406 AAAAAA-AAATAAATTTAATAAAATAAT
1 AAAAAATAATTAAATTTAATAAAACAAC
5160433 AAAATAATAATTAAATTTTAA-AAAACAAC
1 AAAA-AATAATTAAA-TTTAATAAAACAAC
5160462 AAAAAATAA
1 AAAAAATAA
5160471 AAAATGTAGA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
27 4 0.12
28 7 0.22
29 16 0.50
30 5 0.16
ACGTcount: A:0.72, C:0.03, G:0.00, T:0.25
Consensus pattern (28 bp):
AAAAAATAATTAAATTTAATAAAACAAC
Found at i:5160752 original size:6 final size:6
Alignment explanation
Indices: 5160741--5160788 Score: 51
Period size: 6 Copynumber: 7.8 Consensus size: 6
5160731 TTTTAACTAT
* * * *
5160741 AATTTA AATTTA AATTTA AATTTTT AATTTT AATTTA GATTTA GATTT
1 AATTTA AATTTA AATTTA AA-TTTA AATTTA AATTTA AATTTA AATTT
5160789 TTTTAATTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
6 33 0.87
7 5 0.13
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (6 bp):
AATTTA
Found at i:5160794 original size:21 final size:20
Alignment explanation
Indices: 5160768--5160809 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
5160758 AAATTTTTAA
5160768 TTTTAATTTAGATTTAGATTT
1 TTTTAATTTAG-TTTAGATTT
*
5160789 TTTTAATTTAGTTTTGATTT
1 TTTTAATTTAGTTTAGATTT
5160809 T
1 T
5160810 AATTTTGTGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.24, C:0.00, G:0.10, T:0.67
Consensus pattern (20 bp):
TTTTAATTTAGTTTAGATTT
Found at i:5160810 original size:27 final size:26
Alignment explanation
Indices: 5160740--5160815 Score: 75
Period size: 25 Copynumber: 2.9 Consensus size: 26
5160730 ATTTTAACTA
* * *
5160740 TAATTTAAATTTAAATTTAA-ATTTT
1 TAATTTTAATTTAGATTTAATTTTTT
5160765 TAATTTTAATTTAGATTTAGATTTTTT
1 TAATTTTAATTTAGATTTA-ATTTTTT
* *
5160792 TAA-TTTAGTTTTGATTTTAATTTT
1 TAATTTTAATTTAGA-TTTAATTTT
5160816 GTGGTTTATT
Statistics
Matches: 43, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
25 17 0.40
26 15 0.35
27 11 0.26
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (26 bp):
TAATTTTAATTTAGATTTAATTTTTT
Found at i:5163566 original size:17 final size:16
Alignment explanation
Indices: 5163540--5163578 Score: 51
Period size: 17 Copynumber: 2.4 Consensus size: 16
5163530 TGCAATTCAA
*
5163540 AGATTCGTAAGACTTT
1 AGATTCGTAAGAATTT
*
5163556 CAGATTTGTAAGAATTT
1 -AGATTCGTAAGAATTT
5163573 AGATTC
1 AGATTC
5163579 TCAAGATTTA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
16 5 0.26
17 14 0.74
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.38
Consensus pattern (16 bp):
AGATTCGTAAGAATTT
Found at i:5163584 original size:16 final size:16
Alignment explanation
Indices: 5163569--5163619 Score: 59
Period size: 16 Copynumber: 3.2 Consensus size: 16
5163559 ATTTGTAAGA
*
5163569 ATTT-AGATTCTCAAG
1 ATTTAAGATTCACAAG
5163584 ATTTAAGATTCACAAG
1 ATTTAAGATTCACAAG
* **
5163600 ATTTCAGATTTGCAAG
1 ATTTAAGATTCACAAG
5163616 ATTT
1 ATTT
5163620 TTTAGCTTTG
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 4 0.13
16 27 0.87
ACGTcount: A:0.35, C:0.12, G:0.14, T:0.39
Consensus pattern (16 bp):
ATTTAAGATTCACAAG
Found at i:5163667 original size:32 final size:33
Alignment explanation
Indices: 5163605--5163683 Score: 90
Period size: 32 Copynumber: 2.4 Consensus size: 33
5163595 ACAAGATTTC
*
5163605 AGATTTGCAAGATTTTTTAGCTTTGTAAGACAA
1 AGATTTGCAAGATTTTTTAGCTTTGCAAGACAA
*
5163638 AGATTTGTAAGA-TTTTTAG-TTTCGCAAGACACA
1 AGATTTGCAAGATTTTTTAGCTTT-GCAAGACA-A
*
5163671 CAAATTTGCAAGA
1 -AGATTTGCAAGA
5163684 ACTCAGATTC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
31 3 0.08
32 14 0.36
33 12 0.31
34 10 0.26
ACGTcount: A:0.35, C:0.11, G:0.18, T:0.35
Consensus pattern (33 bp):
AGATTTGCAAGATTTTTTAGCTTTGCAAGACAA
Found at i:5163853 original size:31 final size:32
Alignment explanation
Indices: 5163812--5163900 Score: 92
Period size: 31 Copynumber: 2.8 Consensus size: 32
5163802 ATTTAAGGTC
* *
5163812 CTCAAAATTTCAGTTTTGCAAGAATTT-GATT
1 CTCAAGATTTCAGTTTCGCAAGAATTTAGATT
* *
5163843 CTCAAGATTTCAATTTCGCAAAAATTTAGATT
1 CTCAAGATTTCAGTTTCGCAAGAATTTAGATT
* *
5163875 -TGCAAGTTTTTCAGTTTCGTAAGAAT
1 CT-CAAG-ATTTCAGTTTCGCAAGAAT
5163901 AAATTCGCAT
Statistics
Matches: 47, Mismatches: 8, Indels: 4
0.80 0.14 0.07
Matches are distributed among these distances:
31 24 0.51
32 8 0.17
33 15 0.32
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (32 bp):
CTCAAGATTTCAGTTTCGCAAGAATTTAGATT
Found at i:5164400 original size:14 final size:14
Alignment explanation
Indices: 5164379--5164420 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
5164369 AACCCAAAGA
5164379 CAAAGATTCTTATT
1 CAAAGATTCTTATT
*
5164393 CGAAGATT-TTCATT
1 CAAAGATTCTT-ATT
5164407 CAAAGATTCTTATT
1 CAAAGATTCTTATT
5164421 TAAAACTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
13 2 0.08
14 20 0.83
15 2 0.08
ACGTcount: A:0.33, C:0.14, G:0.10, T:0.43
Consensus pattern (14 bp):
CAAAGATTCTTATT
Found at i:5164430 original size:21 final size:21
Alignment explanation
Indices: 5164406--5164574 Score: 170
Period size: 21 Copynumber: 8.0 Consensus size: 21
5164396 AGATTTTCAT
*
5164406 TCAAAGATTCTTATTTAAAAC
1 TCAAAGATTCTCATTTAAAAC
* * *
5164427 TCAAAGACTCTTATGTAAAAC
1 TCAAAGATTCTCATTTAAAAC
* * *
5164448 TTCTTAAATATTTTAATTTAAAAC
1 -TC--AAAGATTCTCATTTAAAAC
5164472 TCAAAGATTCTCATTTAAAAC
1 TCAAAGATTCTCATTTAAAAC
*
5164493 TCAAGGATTCTCATTTAAAAC
1 TCAAAGATTCTCATTTAAAAC
5164514 TCCTTAAAGATTCTCATTTAAAAC
1 T-C--AAAGATTCTCATTTAAAAC
5164538 TCAAAGATTCTCA-TT-AAA-
1 TCAAAGATTCTCATTTAAAAC
5164556 --AAA-ATTCTCATTTAAAAC
1 TCAAAGATTCTCATTTAAAAC
5164574 T
1 T
5164575 TATTAAAGAT
Statistics
Matches: 126, Mismatches: 12, Indels: 22
0.79 0.08 0.14
Matches are distributed among these distances:
15 7 0.06
16 5 0.04
17 3 0.02
19 3 0.02
20 2 0.02
21 67 0.53
22 3 0.02
23 3 0.02
24 33 0.26
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.37
Consensus pattern (21 bp):
TCAAAGATTCTCATTTAAAAC
Found at i:5164488 original size:66 final size:66
Alignment explanation
Indices: 5164406--5164557 Score: 214
Period size: 66 Copynumber: 2.3 Consensus size: 66
5164396 AGATTTTCAT
* * * * *
5164406 TCAAAGATTCTTATTTAAAACTCAAAGACTCTTATGTAAAACTTCTTAAATATTTTAATTTAAAA
1 TCAAAGATTCTCATTTAAAACTCAAAGACTCTCATGTAAAACTCCTTAAAGATTCTAATTTAAAA
5164471 C
66 C
* * * *
5164472 TCAAAGATTCTCATTTAAAACTCAAGGATTCTCATTTAAAACTCCTTAAAGATTCTCATTTAAAA
1 TCAAAGATTCTCATTTAAAACTCAAAGACTCTCATGTAAAACTCCTTAAAGATTCTAATTTAAAA
5164537 C
66 C
*
5164538 TCAAAGATTCTCATTAAAAA
1 TCAAAGATTCTCATTTAAAA
5164558 AATTCTCATT
Statistics
Matches: 76, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
66 76 1.00
ACGTcount: A:0.42, C:0.16, G:0.05, T:0.36
Consensus pattern (66 bp):
TCAAAGATTCTCATTTAAAACTCAAAGACTCTCATGTAAAACTCCTTAAAGATTCTAATTTAAAA
C
Found at i:5164523 original size:45 final size:42
Alignment explanation
Indices: 5164406--5164574 Score: 170
Period size: 45 Copynumber: 4.0 Consensus size: 42
5164396 AGATTTTCAT
* * * *
5164406 TCAAAGATTCTTATTTAAAACTCAAAGACTCTTATGTAAAAC
1 TCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTAAAAC
* * *
5164448 TTCTTAAATATTTTAATTTAAAACTCAAAGATTCTCATTTAAAAC
1 -TC--AAAGATTCTCATTTAAAACTCAAAGATTCTCATTTAAAAC
*
5164493 TCAAGGATTCTCATTTAAAACTCCTTAAAGATTCTCATTTAAAAC
1 TCAAAGATTCTCATTTAAAACT-C--AAAGATTCTCATTTAAAAC
5164538 TCAAAGATTCTCA-TT-AAA---AAA-ATTCTCATTTAAAAC
1 TCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTAAAAC
5164574 T
1 T
5164575 TATTAAAGAT
Statistics
Matches: 110, Mismatches: 11, Indels: 17
0.80 0.08 0.12
Matches are distributed among these distances:
36 16 0.15
37 3 0.03
42 16 0.15
43 6 0.05
44 4 0.04
45 65 0.59
ACGTcount: A:0.42, C:0.17, G:0.05, T:0.37
Consensus pattern (42 bp):
TCAAAGATTCTCATTTAAAACTCAAAGATTCTCATTTAAAAC
Found at i:5170196 original size:22 final size:23
Alignment explanation
Indices: 5170170--5170216 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
5170160 TAAAAAAATG
*
5170170 AATAAAGA-AAATAATAACC-TAA
1 AATAAAAATAAATAA-AACCATAA
5170192 AATAAAAATAAATAAAACCATAA
1 AATAAAAATAAATAAAACCATAA
5170215 AA
1 AA
5170217 AACCAAAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 11 0.50
23 11 0.50
ACGTcount: A:0.72, C:0.09, G:0.02, T:0.17
Consensus pattern (23 bp):
AATAAAAATAAATAAAACCATAA
Found at i:5171897 original size:2 final size:2
Alignment explanation
Indices: 5171890--5171923 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
5171880 TTTTTATTTC
* *
5171890 AT AT AT AT AT AT AT AT AT AC AT AT GT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5171924 TTACATGCAT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5172068 original size:22 final size:22
Alignment explanation
Indices: 5172019--5172086 Score: 86
Period size: 22 Copynumber: 3.1 Consensus size: 22
5172009 TGTTTGTATG
*
5172019 ATTGCATGATTATT-A-TACTA
1 ATTGCATGATTATTAATTATTA
5172039 ATTGCATGATTATTAATTATTA
1 ATTGCATGATTATTAATTATTA
* *
5172061 TTTGCATGATTTTTAATATATTA
1 ATTGCATGATTATTAAT-TATTA
5172084 ATT
1 ATT
5172087 ATTATTTGCA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
20 14 0.34
21 1 0.02
22 19 0.46
23 7 0.17
ACGTcount: A:0.34, C:0.06, G:0.09, T:0.51
Consensus pattern (22 bp):
ATTGCATGATTATTAATTATTA
Found at i:5172116 original size:33 final size:30
Alignment explanation
Indices: 5172049--5172109 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
5172039 ATTGCATGAT
5172049 TATTAATTATTATTTGCATGATTTTTAATA
1 TATTAATTATTATTTGCATGATTTTTAATA
*
5172079 TATTAATTATTATTTGCATGATTATTAATA
1 TATTAATTATTATTTGCATGATTTTTAATA
5172109 T
1 T
5172110 TATATTATTG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.03, G:0.07, T:0.56
Consensus pattern (30 bp):
TATTAATTATTATTTGCATGATTTTTAATA
Found at i:5173333 original size:18 final size:18
Alignment explanation
Indices: 5173310--5173349 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
5173300 AACCAAATTA
5173310 TATATTTTAATT-AATTTT
1 TATA-TTTAATTAAATTTT
*
5173328 TATATTTATTTAAATTTT
1 TATATTTAATTAAATTTT
5173346 TATA
1 TATA
5173350 AAATAAAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (18 bp):
TATATTTAATTAAATTTT
Found at i:5173384 original size:10 final size:10
Alignment explanation
Indices: 5173367--5173396 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
5173357 ATAATTATTT
5173367 TATATTTAAA
1 TATATTTAAA
*
5173377 TTTATTTAAA
1 TATATTTAAA
5173387 TATATTTAAA
1 TATATTTAAA
5173397 ATAATACAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (10 bp):
TATATTTAAA
Found at i:5173408 original size:11 final size:10
Alignment explanation
Indices: 5173394--5173431 Score: 51
Period size: 11 Copynumber: 3.8 Consensus size: 10
5173384 AAATATATTT
5173394 AAAATAATACA
1 AAAATAATA-A
5173405 AAAATAATAA
1 AAAATAATAA
*
5173415 AAAA-AATTA
1 AAAATAATAA
5173424 AAAATAAT
1 AAAATAAT
5173432 TGATTTAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
9 8 0.32
10 8 0.32
11 9 0.36
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (10 bp):
AAAATAATAA
Found at i:5175430 original size:2 final size:2
Alignment explanation
Indices: 5175425--5175454 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
5175415 ACACACATAC
*
5175425 AT AT AT AT AC AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5175455 TAAAACTATC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:5175436 original size:10 final size:10
Alignment explanation
Indices: 5175421--5175453 Score: 57
Period size: 10 Copynumber: 3.3 Consensus size: 10
5175411 ATGTACACAC
5175421 ATACATATAT
1 ATACATATAT
5175431 ATACATATAT
1 ATACATATAT
*
5175441 ATATATATAT
1 ATACATATAT
5175451 ATA
1 ATA
5175454 TTAAAACTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (10 bp):
ATACATATAT
Found at i:5175526 original size:53 final size:51
Alignment explanation
Indices: 5175448--5175561 Score: 174
Period size: 53 Copynumber: 2.2 Consensus size: 51
5175438 TATATATATA
* * *
5175448 TATATATTAAAACTATCTTTAAAGTGTTGGATGCTTGACATTTGTCCAATT
1 TATATATTAAAACTATCTTTAAAGTGTTAGATGCTAGACATCTGTCCAATT
5175499 TATATATGTAAAACTATCTCTTAAAGTGTTAGATGCTAGACATCTGTCCAATT
1 TATATAT-TAAAACTATCT-TTAAAGTGTTAGATGCTAGACATCTGTCCAATT
5175552 TATGATATTA
1 TAT-ATATTA
5175562 TTTTTTAACC
Statistics
Matches: 57, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
51 7 0.12
52 11 0.19
53 35 0.61
54 4 0.07
ACGTcount: A:0.33, C:0.12, G:0.13, T:0.41
Consensus pattern (51 bp):
TATATATTAAAACTATCTTTAAAGTGTTAGATGCTAGACATCTGTCCAATT
Found at i:5189967 original size:21 final size:20
Alignment explanation
Indices: 5189943--5189981 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
5189933 AATCTAATAA
5189943 CATAAATAAAACAATATAAGG
1 CATAAATAAAACAA-ATAAGG
*
5189964 CATAAATGAAACAAATAA
1 CATAAATAAAACAAATAA
5189982 ATACTAACAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.64, C:0.10, G:0.08, T:0.18
Consensus pattern (20 bp):
CATAAATAAAACAAATAAGG
Found at i:5191704 original size:22 final size:22
Alignment explanation
Indices: 5191674--5191722 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 22
5191664 GTGGATTTCA
* * *
5191674 TGATCATAATAGAAATTATCTT
1 TGATTATAATAAAAATTAACTT
5191696 TGATTATAATAAAAATTAACTT
1 TGATTATAATAAAAATTAACTT
5191718 T-ATTA
1 TGATTA
5191723 CTATAGGATT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 4 0.17
22 20 0.83
ACGTcount: A:0.45, C:0.06, G:0.06, T:0.43
Consensus pattern (22 bp):
TGATTATAATAAAAATTAACTT
Found at i:5193336 original size:20 final size:20
Alignment explanation
Indices: 5193290--5193344 Score: 69
Period size: 20 Copynumber: 2.8 Consensus size: 20
5193280 TAAAAGGAAA
5193290 GATAAAAT-AAATGAAAAAAT
1 GATAAAATAAAAT-AAAAAAT
* *
5193310 G-TGAAATAAAATAAAACAT
1 GATAAAATAAAATAAAAAAT
5193329 GATAAAATAAAATAAA
1 GATAAAATAAAATAAA
5193345 GGGAGTTTAA
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
19 12 0.40
20 18 0.60
ACGTcount: A:0.69, C:0.02, G:0.09, T:0.20
Consensus pattern (20 bp):
GATAAAATAAAATAAAAAAT
Found at i:5194727 original size:19 final size:19
Alignment explanation
Indices: 5194703--5194741 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
5194693 AGTTGTTACT
5194703 TAACCATCTTTTGTTTTGC
1 TAACCATCTTTTGTTTTGC
5194722 TAACCATCTTTTGTTTTGC
1 TAACCATCTTTTGTTTTGC
5194741 T
1 T
5194742 TTTGCACGTA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.15, C:0.21, G:0.10, T:0.54
Consensus pattern (19 bp):
TAACCATCTTTTGTTTTGC
Found at i:5197339 original size:18 final size:18
Alignment explanation
Indices: 5197306--5197358 Score: 60
Period size: 16 Copynumber: 3.1 Consensus size: 18
5197296 TATTTATTGA
5197306 TCAAAA-TTAT-TATTTT
1 TCAAAATTTATATATTTT
5197322 TCAAAATTTATATA-TTT
1 TCAAAATTTATATATTTT
5197339 T-AAAATATTGATATATTTT
1 TCAAAAT-TT-ATATATTTT
5197358 T
1 T
5197359 TATGAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
16 11 0.34
17 10 0.31
18 7 0.22
19 4 0.12
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.55
Consensus pattern (18 bp):
TCAAAATTTATATATTTT
Found at i:5197518 original size:13 final size:13
Alignment explanation
Indices: 5197489--5197538 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
5197479 ATTTTTAGTC
*
5197489 ATTTTTATTTCAG-
1 ATTTTTATTT-TGT
5197502 ATTTTTATTTTGT
1 ATTTTTATTTTGT
*
5197515 ATTTATCATTTTGT
1 ATTT-TTATTTTGT
5197529 ATTTTT-TTTT
1 ATTTTTATTTT
5197539 ATGGTCTATC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
12 5 0.16
13 15 0.47
14 12 0.38
ACGTcount: A:0.18, C:0.04, G:0.06, T:0.72
Consensus pattern (13 bp):
ATTTTTATTTTGT
Found at i:5199296 original size:51 final size:49
Alignment explanation
Indices: 5199194--5199298 Score: 122
Period size: 51 Copynumber: 2.1 Consensus size: 49
5199184 AAGAAAAAAA
* * **
5199194 AAATAAAAATATTTCCAAAAAAGAAAATTTGGAATACTAATTTTTCCTT
1 AAATAAAAATATTTCAAAAAAAGAAAAGTTAAAATACTAATTTTTCCTT
* *
5199243 AAATAAAAATTTTTCAAAAAAAAGAAAAAGTTAAAATA-TCAATTTTTCTTT
1 AAATAAAAATATTTC-AAAAAAAG-AAAAGTTAAAATACT-AATTTTTCCTT
5199294 AAATA
1 AAATA
5199299 GAGAATAAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
49 14 0.30
50 8 0.17
51 25 0.53
ACGTcount: A:0.53, C:0.08, G:0.05, T:0.34
Consensus pattern (49 bp):
AAATAAAAATATTTCAAAAAAAGAAAAGTTAAAATACTAATTTTTCCTT
Found at i:5199474 original size:60 final size:60
Alignment explanation
Indices: 5199405--5199632 Score: 215
Period size: 60 Copynumber: 3.6 Consensus size: 60
5199395 ATTTTAGGGG
*
5199405 AAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAAGGCTTAAAAATATATTTTTGGGAA
1 AAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAAGTCTTAAAAATATATTTTTGGGAA
* * * ** * *
5199465 AAAGTTGAAAGTATTAATTTTCCTTAAAAATAAAATTTCTAAAATAAAAATTTCTAAAAGCATTT
1 AAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAAGTCT----TAAAAA----T-ATA--TTTT
*
5199530 TGAGAA
55 TGGGAA
* * *
5199536 AAAGTTGAAAGTATTAATTTCCTT-TTGAAAATAAAAAGTTTTAAAAAATATATTTTTAGGAA
1 AAAGTTGAAAGTATCAATTT--TTCTTGAAAATAAAAAGTCTT-AAAAATATATTTTTGGGAA
5199598 AAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA
1 AAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAA
5199633 TTTTTAAAAT
Statistics
Matches: 134, Mismatches: 19, Indels: 29
0.74 0.10 0.16
Matches are distributed among these distances:
60 36 0.27
61 12 0.09
62 26 0.19
64 8 0.06
65 1 0.01
68 2 0.01
69 7 0.05
71 28 0.21
72 13 0.10
73 1 0.01
ACGTcount: A:0.47, C:0.05, G:0.11, T:0.36
Consensus pattern (60 bp):
AAAGTTGAAAGTATCAATTTTTCTTGAAAATAAAAAGTCTTAAAAATATATTTTTGGGAA
Found at i:5199510 original size:14 final size:15
Alignment explanation
Indices: 5199491--5199523 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
5199481 ATTTTCCTTA
5199491 AAAAT-AAAATTTCT
1 AAAATAAAAATTTCT
5199505 AAAATAAAAATTTCT
1 AAAATAAAAATTTCT
5199520 AAAA
1 AAAA
5199524 GCATTTTGAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.28
15 13 0.72
ACGTcount: A:0.64, C:0.06, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAATAAAAATTTCT
Found at i:5199646 original size:133 final size:132
Alignment explanation
Indices: 5199302--5199755 Score: 511
Period size: 131 Copynumber: 3.4 Consensus size: 132
5199292 TTAAATAGAG
* * *
5199302 AATAAAAATTTCAAAAAAAATACTTTT-GAAGAAAAGTTGAAAGTATCAA-TTTTCATTAAAAAT
1 AATAAAAATTTCAAAAAATATATTTTTAGGA-AAAAGTTGAAAGTATCAATTTTTC-TTAAAAAT
*
5199365 AAAATTTCTAAAATAAAAATTT-TCAAAAGCATTTT-AGGGGAAAGTTGAAAGTATCAATTT--T
64 AAAATTTCTAAAATAAAAATTTCT-AAAAGCATTTTGA-GGAAAAGTTGAAAGTATCAATTTCCT
5199426 TCTTGAA
127 T-TTGAA
* * * *
5199433 AATAAAAAGGCTT--AAAAATATATTTTTGGGAAAAAGTTGAAAGTATTAATTTTCCTTAAAAAT
1 AATAAAAA--TTTCAAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAAT
* *
5199496 AAAATTTCTAAAATAAAAATTTCTAAAAGCATTTTGAGAAAAAGTTGAAAGTATTAATTTCCTTT
64 AAAATTTCTAAAATAAAAATTTCTAAAAGCATTTTGAGGAAAAGTTGAAAGTATCAATTTCCTTT
5199561 TGAA
129 TGAA
* *
5199565 AATAAAAAGTTTTAAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATA
1 AATAAAAA-TTTCAAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
* * ** *
5199630 AAATTTTTAAAATAAAAATTATCAAAAAAATATTTTGAGGAAAA-TGTGAAAGTACCAATTTTCC
65 AAATTTCTAAAATAAAAATT-TC-TAAAAGCATTTTGAGGAAAAGT-TGAAAGTATCAA-TTTCC
*
5199694 --TTAAA
126 TTTTGAA
* *
5199699 AATAAAAATTATCAAGAAAA-ACATTTTAAGG-AAAAGTTGAAAGTATCAATTTTTCTT
1 AATAAAAATT-TCAA-AAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTT
5199756 GTACAAAAGC
Statistics
Matches: 282, Mismatches: 25, Indels: 30
0.84 0.07 0.09
Matches are distributed among these distances:
131 101 0.36
132 21 0.07
133 98 0.35
134 27 0.10
135 30 0.11
136 5 0.02
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.35
Consensus pattern (132 bp):
AATAAAAATTTCAAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAA
AATTTCTAAAATAAAAATTTCTAAAAGCATTTTGAGGAAAAGTTGAAAGTATCAATTTCCTTTTG
AA
Found at i:5199702 original size:59 final size:60
Alignment explanation
Indices: 5199638--5199751 Score: 178
Period size: 60 Copynumber: 1.9 Consensus size: 60
5199628 TAAAATTTTT
* *
5199638 AAAATAAAAATTATCAA-AAAAATATTTTGAGGAAAA-TGTGAAAGTACCAATTTTCCTTA
1 AAAATAAAAATTATCAAGAAAAACATTTTAAGGAAAAGT-TGAAAGTACCAATTTTCCTTA
*
5199697 AAAATAAAAATTATCAAGAAAAACATTTTAAGGAAAAGTTGAAAGTATCAATTTT
1 AAAATAAAAATTATCAAGAAAAACATTTTAAGGAAAAGTTGAAAGTACCAATTTT
5199752 TCTTGTACAA
Statistics
Matches: 50, Mismatches: 3, Indels: 3
0.89 0.05 0.05
Matches are distributed among these distances:
59 17 0.34
60 32 0.64
61 1 0.02
ACGTcount: A:0.53, C:0.07, G:0.11, T:0.30
Consensus pattern (60 bp):
AAAATAAAAATTATCAAGAAAAACATTTTAAGGAAAAGTTGAAAGTACCAATTTTCCTTA
Found at i:5199708 original size:74 final size:75
Alignment explanation
Indices: 5199558--5199705 Score: 203
Period size: 73 Copynumber: 2.0 Consensus size: 75
5199548 ATTAATTTCC
* * * *
5199558 TTTTGAAAATAAAAAGTTTTAAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTT
1 TTTTGAAAATAAAAAGTTTCAAAAAATATATTTTGAGGAAAAAGTTGAAAGTACCAATTTTCCTT
*
5199623 GAAAATAAAA
66 AAAAATAAAA
* *
5199633 TTTTTAAAATAAAAA-TTATCAAAAAA-ATATTTTGAGGAAAATG-TGAAAGTACCAATTTTCCT
1 TTTTGAAAATAAAAAGTT-TCAAAAAATATATTTTGAGGAAAAAGTTGAAAGTACCAATTTTCCT
5199695 TAAAAATAAAA
65 TAAAAATAAAA
5199706 ATTATCAAGA
Statistics
Matches: 65, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
73 27 0.42
74 17 0.26
75 21 0.32
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (75 bp):
TTTTGAAAATAAAAAGTTTCAAAAAATATATTTTGAGGAAAAAGTTGAAAGTACCAATTTTCCTT
AAAAATAAAA
Found at i:5199756 original size:133 final size:131
Alignment explanation
Indices: 5199302--5199755 Score: 487
Period size: 133 Copynumber: 3.4 Consensus size: 131
5199292 TTAAATAGAG
5199302 AATAAAAATTTCAAAAAAAATACTTTTGAA-G-AAAAGTTGAAAGTATCAA-TTTTCATTAAAAA
1 AATAAAAATTTC-AAAAAAATA-TTTT-AAGGAAAAAGTTGAAAGTATCAATTTTTC-TTAAAAA
** * * * *
5199364 TAAAATTTCTAAAATAAAAATTTTCAAAAGCAT-TTTAGGGGAAAGT-TGAAAGTATCAATTTTT
62 TAAAATTTCTAAAATAAAAA-TTTCAAAAAAATATTTTGAGGAAAATGTGAAAGTATCAATTTTC
5199427 CTTGAA
126 CTTGAA
* * ** * *
5199433 AATAAAAAGGCTT-AAAAATATATTTTTGGGAAAAAGTTGAAAGTATTAATTTTCCTTAAAAATA
1 AATAAAAA--TTTCAAAAAAATATTTTAAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
* ** * *
5199497 AAATTTCTAAAATAAAAATTTC-TAAAAGCATTTTGA-GAAAAAGTTGAAAGTATTAA-TTTCCT
64 AAATTTCTAAAATAAAAATTTCAAAAAAATATTTTGAGGAAAATG-TGAAAGTATCAATTTTCC-
5199559 TTTGAA
127 -TTGAA
* * *
5199565 AATAAAAAGTTTTAAAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTTCTTGAAAATA
1 AATAAAAA-TTTCAAAAAA-ATATTTTAAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATA
* *
5199630 AAATTTTTAAAATAAAAATTATCAAAAAAATATTTTGAGGAAAATGTGAAAGTACCAATTTTCCT
64 AAATTTCTAAAATAAAAATT-TCAAAAAAATATTTTGAGGAAAATGTGAAAGTATCAATTTTCCT
*
5199695 TAAA
128 TGAA
*
5199699 AATAAAAATTATCAAGAAAAACATTTTAAGG-AAAAGTTGAAAGTATCAATTTTTCTT
1 AATAAAAATT-TCAA-AAAAATATTTTAAGGAAAAAGTTGAAAGTATCAATTTTTCTT
5199756 GTACAAAAGC
Statistics
Matches: 271, Mismatches: 34, Indels: 34
0.80 0.10 0.10
Matches are distributed among these distances:
129 6 0.02
130 17 0.06
131 74 0.27
132 22 0.08
133 90 0.33
134 26 0.10
135 25 0.09
136 11 0.04
ACGTcount: A:0.49, C:0.06, G:0.11, T:0.35
Consensus pattern (131 bp):
AATAAAAATTTCAAAAAAATATTTTAAGGAAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAA
ATTTCTAAAATAAAAATTTCAAAAAAATATTTTGAGGAAAATGTGAAAGTATCAATTTTCCTTGA
A
Found at i:5203712 original size:11 final size:11
Alignment explanation
Indices: 5203690--5203766 Score: 69
Period size: 10 Copynumber: 7.5 Consensus size: 11
5203680 ATAATGGATT
5203690 AAAAAAGA-GA
1 AAAAAAGATGA
5203700 AAAAAAGATG-
1 AAAAAAGATGA
**
5203710 AAAAAAGAAAA
1 AAAAAAGATGA
5203721 AAAAAAG-TGAA
1 AAAAAAGATG-A
5203732 AAAAAAGATG-
1 AAAAAAGATGA
*
5203742 -AAAGA-ATGA
1 AAAAAAGATGA
5203751 AAAAAAGAT-A
1 AAAAAAGATGA
5203761 AAAAAA
1 AAAAAA
5203767 AAAAGAGAAA
Statistics
Matches: 54, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
8 3 0.06
9 4 0.07
10 27 0.50
11 18 0.33
12 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (11 bp):
AAAAAAGATGA
Found at i:5203735 original size:32 final size:32
Alignment explanation
Indices: 5203690--5203756 Score: 100
Period size: 32 Copynumber: 2.1 Consensus size: 32
5203680 ATAATGGATT
5203690 AAAAAAGAGAAAAAAAGATGAAA-AAAGAAAA
1 AAAAAAGAGAAAAAAAGATGAAAGAAAGAAAA
* *
5203721 AAAAAAGTGAAAAAAAAGATGAAAGAATGAAAA
1 AAAAAAGAG-AAAAAAAGATGAAAGAAAGAAAA
5203754 AAA
1 AAA
5203757 GATAAAAAAA
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
31 8 0.25
32 14 0.44
33 10 0.31
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (32 bp):
AAAAAAGAGAAAAAAAGATGAAAGAAAGAAAA
Found at i:5203766 original size:32 final size:30
Alignment explanation
Indices: 5203690--5203777 Score: 97
Period size: 33 Copynumber: 2.8 Consensus size: 30
5203680 ATAATGGATT
5203690 AAAAAAGAGAAAAAAAGATGAAAAAAGAAAA
1 AAAAAAGA-AAAAAAAGATGAAAAAAGAAAA
*
5203721 AAAAAAGTGAAAAAAAAGATGAAAGAATGAAAA
1 AAAAAA--GAAAAAAAAGATGAAA-AAAGAAAA
*
5203754 AAAGATAAAAAAAAAAAGA-GAAAA
1 AAA-A-AAGAAAAAAAAGATGAAAA
5203778 TGAATACTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 10
0.81 0.03 0.16
Matches are distributed among these distances:
31 7 0.14
32 18 0.36
33 22 0.44
34 1 0.02
35 2 0.04
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (30 bp):
AAAAAAGAAAAAAAAGATGAAAAAAGAAAA
Found at i:5203767 original size:11 final size:11
Alignment explanation
Indices: 5203690--5203767 Score: 51
Period size: 11 Copynumber: 7.5 Consensus size: 11
5203680 ATAATGGATT
*
5203690 AAAAAAGA-GA
1 AAAAAAGATAA
*
5203700 AAAAAAGAT-G
1 AAAAAAGATAA
*
5203710 AAAAAAGAAAA
1 AAAAAAGATAA
5203721 AAAAAAG-TGAA
1 AAAAAAGAT-AA
5203732 AAAAAAGAT--
1 AAAAAAGATAA
* * *
5203741 GAAAGA-ATGA
1 AAAAAAGATAA
5203751 AAAAAAGATAA
1 AAAAAAGATAA
5203762 AAAAAA
1 AAAAAA
5203768 AAAGAGAAAA
Statistics
Matches: 52, Mismatches: 9, Indels: 13
0.70 0.12 0.18
Matches are distributed among these distances:
8 2 0.04
9 4 0.08
10 20 0.38
11 25 0.48
12 1 0.02
ACGTcount: A:0.78, C:0.00, G:0.15, T:0.06
Consensus pattern (11 bp):
AAAAAAGATAA
Found at i:5203769 original size:14 final size:14
Alignment explanation
Indices: 5203690--5203777 Score: 54
Period size: 14 Copynumber: 5.9 Consensus size: 14
5203680 ATAATGGATT
5203690 AAAAAAGAGAAAAA
1 AAAAAAGAGAAAAA
*
5203704 AAGATGAAA-AAAGAAAA
1 AA-A--AAAGAGA-AAAA
*
5203721 AAAAAAGTGAAAAA
1 AAAAAAGAGAAAAA
**
5203735 AAAGATGAA-AGAATGA
1 AAA-A--AAGAGAAAAA
*
5203751 AAAAAAGATAAAAA
1 AAAAAAGAGAAAAA
5203765 AAAAAAGAGAAAA
1 AAAAAAGAGAAAA
5203778 TGAATACTTA
Statistics
Matches: 55, Mismatches: 10, Indels: 18
0.66 0.12 0.22
Matches are distributed among these distances:
13 2 0.04
14 28 0.51
15 4 0.07
16 10 0.18
17 11 0.20
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.06
Consensus pattern (14 bp):
AAAAAAGAGAAAAA
Found at i:5203777 original size:11 final size:11
Alignment explanation
Indices: 5203690--5203744 Score: 53
Period size: 11 Copynumber: 5.1 Consensus size: 11
5203680 ATAATGGATT
5203690 AAAAAAGAG-A
1 AAAAAAGAGAA
5203700 AAAAAAGATG--
1 AAAAAAGA-GAA
*
5203710 AAAAAAGAAAA
1 AAAAAAGAGAA
*
5203721 AAAAAAGTGAA
1 AAAAAAGAGAA
5203732 AAAAAAGATGAA
1 AAAAAAGA-GAA
5203744 A
1 A
5203745 GAATGAAAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
10 16 0.43
11 17 0.46
12 4 0.11
ACGTcount: A:0.78, C:0.00, G:0.16, T:0.05
Consensus pattern (11 bp):
AAAAAAGAGAA
Found at i:5204958 original size:25 final size:25
Alignment explanation
Indices: 5204930--5205111 Score: 193
Period size: 25 Copynumber: 7.6 Consensus size: 25
5204920 TCTTTGAGTC
* *
5204930 TCAAATGAAAATTTTTAAGATATTT
1 TCAAATGAGAATCTTTAAGATATTT
* *
5204955 TCAAATGAGAATTTTTAAGACA-TT
1 TCAAATGAGAATCTTTAAGATATTT
* * *
5204979 TCAAATGAGAAT-TTT---TTAGTG
1 TCAAATGAGAATCTTTAAGATATTT
*
5205000 TCAAATGAGAATCTTTAAGATGTTT
1 TCAAATGAGAATCTTTAAGATATTT
5205025 TCAAATGAGAATCTTTAAGATATTT
1 TCAAATGAGAATCTTTAAGATATTT
*
5205050 TCAAATAAGAATCTTTAAG---TTT
1 TCAAATGAGAATCTTTAAGATATTT
* * *
5205072 T-AAATGAAAATCTTTAAAATGTTT
1 TCAAATGAGAATCTTTAAGATATTT
5205096 TCAAATGAGAATCTTT
1 TCAAATGAGAATCTTT
5205112 GAGGCTTAAA
Statistics
Matches: 133, Mismatches: 15, Indels: 18
0.80 0.09 0.11
Matches are distributed among these distances:
20 1 0.01
21 27 0.20
22 7 0.05
23 3 0.02
24 18 0.14
25 77 0.58
ACGTcount: A:0.40, C:0.07, G:0.12, T:0.41
Consensus pattern (25 bp):
TCAAATGAGAATCTTTAAGATATTT
Found at i:5205005 original size:21 final size:21
Alignment explanation
Indices: 5204888--5205011 Score: 86
Period size: 21 Copynumber: 5.6 Consensus size: 21
5204878 TCTTTGAATT
* *
5204888 TCAAATAAGAATTTTTTAATG
1 TCAAATGAGAATTTTTTAGTG
* * * *
5204909 TCAAATGAAAATCTTTGAGTC
1 TCAAATGAGAATTTTTTAGTG
* * *
5204930 TCAAATGAAAATTTTTAAGATATTT
1 TCAAATGAGAATTTTT----TAGTG
* *
5204955 TCAAATGAGAATTTTTAAGACATT
1 TCAAATGAGAATTTTTTAG---TG
5204979 TCAAATGAGAATTTTTTAGTG
1 TCAAATGAGAATTTTTTAGTG
5205000 TCAAATGAGAAT
1 TCAAATGAGAAT
5205012 CTTTAAGATG
Statistics
Matches: 81, Mismatches: 15, Indels: 14
0.74 0.14 0.13
Matches are distributed among these distances:
21 44 0.54
24 20 0.25
25 17 0.21
ACGTcount: A:0.41, C:0.07, G:0.13, T:0.39
Consensus pattern (21 bp):
TCAAATGAGAATTTTTTAGTG
Found at i:5205017 original size:70 final size:71
Alignment explanation
Indices: 5204909--5205111 Score: 273
Period size: 70 Copynumber: 2.9 Consensus size: 71
5204899 TTTTTTAATG
* * * * *
5204909 TCAAATGAAAATCTTTGAGTCTCAAATGAAAATTTTTAAGATATTTTCAAATGAGAATTTTTAAG
1 TCAAATGAGAATCTTTAAGTCTCAAATGAAAATCTTTAAGATGTTTTCAAATGAGAATCTTTAAG
5204974 ACA-TT
66 ACATTT
* * * *
5204979 TCAAATGAGAATTTTTTAGTGTCAAATGAGAATCTTTAAGATGTTTTCAAATGAGAATCTTTAAG
1 TCAAATGAGAATCTTTAAGTCTCAAATGAAAATCTTTAAGATGTTTTCAAATGAGAATCTTTAAG
*
5205044 ATATTT
66 ACATTT
* * * *
5205050 TCAAATAAGAATCTTTAAGTTTTAAATGAAAATCTTTAAAATGTTTTCAAATGAGAATCTTT
1 TCAAATGAGAATCTTTAAGTCTCAAATGAAAATCTTTAAGATGTTTTCAAATGAGAATCTTT
5205112 GAGGCTTAAA
Statistics
Matches: 116, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
70 59 0.51
71 57 0.49
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (71 bp):
TCAAATGAGAATCTTTAAGTCTCAAATGAAAATCTTTAAGATGTTTTCAAATGAGAATCTTTAAG
ACATTT
Found at i:5205068 original size:95 final size:91
Alignment explanation
Indices: 5204885--5205068 Score: 260
Period size: 95 Copynumber: 2.0 Consensus size: 91
5204875 GAGTCTTTGA
*
5204885 ATTTCAAATAAGAATTTTTTAATGTCAAATGAAAATCTTTGAGTCTCAAATGAAAATTTTTAAGA
1 ATTTCAAATAAGAATTTTTTAATGTCAAATGAAAATCTTTGAGTCTCAAATGAAAATCTTTAAGA
* *
5204950 TATTTTCAAATGAGAATTTTTAAGAC
66 TATTTTCAAATAAGAATCTTTAAGAC
* * * * *
5204976 ATTTCAAATGAGAATTTTTTAGTGTCAAATGAGAATCTTTAAGATGTTTTCAAATGAGAATCTTT
1 ATTTCAAATAAGAATTTTTTAATGTCAAATGAAAATCTTT--GA-G-TCTCAAATGAAAATCTTT
5205041 AAGATATTTTCAAATAAGAATCTTTAAG
62 AAGATATTTTCAAATAAGAATCTTTAAG
5205069 TTTTAAATGA
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
91 37 0.46
93 2 0.02
94 1 0.01
95 41 0.51
ACGTcount: A:0.40, C:0.08, G:0.12, T:0.40
Consensus pattern (91 bp):
ATTTCAAATAAGAATTTTTTAATGTCAAATGAAAATCTTTGAGTCTCAAATGAAAATCTTTAAGA
TATTTTCAAATAAGAATCTTTAAGAC
Found at i:5205077 original size:46 final size:46
Alignment explanation
Indices: 5204909--5205162 Score: 201
Period size: 46 Copynumber: 5.4 Consensus size: 46
5204899 TTTTTTAATG
* * * * * *
5204909 TCAAATGAAAATCTTTGAGTCTCAAATGAAAATTTTTAAGATATTT
1 TCAAATGAGAATCTTTAAGTTTTAAATGAAAATCTTTAAAATATTT
* * * * * *
5204955 TCAAATGAGAATTTTTAAGACATTTCAAATGAGAAT-TTT---TTAGTG
1 TCAAATGAGAATCTTTAAG---TTTTAAATGAAAATCTTTAAAATATTT
* *
5205000 TCAAATGAGAATCTTTAAGATGTTTTCAAATGAGAATCTTTAAGATATTT
1 TCAAATGAGAATCTTT-A-A-GTTTT-AAATGAAAATCTTTAAAATATTT
* *
5205050 TCAAATAAGAATCTTTAAGTTTTAAATGAAAATCTTTAAAATGTTT
1 TCAAATGAGAATCTTTAAGTTTTAAATGAAAATCTTTAAAATATTT
* ** * ** *
5205096 TCAAATGAGAATCTTTGAGGCTTAAATGAAAATTTTTAAAACGTTG
1 TCAAATGAGAATCTTTAAGTTTTAAATGAAAATCTTTAAAATATTT
5205142 TCAAATGAGAATCTTTGAAGT
1 TCAAATGAGAATCTTT-AAGT
5205163 GTGAAACCTA
Statistics
Matches: 170, Mismatches: 26, Indels: 23
0.78 0.12 0.11
Matches are distributed among these distances:
45 21 0.12
46 102 0.60
47 11 0.06
48 5 0.03
49 13 0.08
50 18 0.11
ACGTcount: A:0.40, C:0.08, G:0.14, T:0.39
Consensus pattern (46 bp):
TCAAATGAGAATCTTTAAGTTTTAAATGAAAATCTTTAAAATATTT
Found at i:5205148 original size:71 final size:69
Alignment explanation
Indices: 5204909--5205157 Score: 229
Period size: 71 Copynumber: 3.6 Consensus size: 69
5204899 TTTTTTAATG
* * * * * * *
5204909 TCAAATGAAAATCTTTGAG-TCTCAAATGAAAATTTTTAAGATATTTTCAAATGAGAATTTTTAA
1 TCAAATGAAAATTTTTAAGTTGTCAAATGAAAATCTTTAAGATGTTTTCAAATGAGAATCTTTGA
5204973 GACATT
66 GAC--T
* * *
5204979 TCAAATGAGAATTTTTTAG-TGTCAAATGAGAATCTTTAAGATGTTTTCAAATGAGAATCTTTAA
1 TCAAATGAAAATTTTTAAGTTGTCAAATGAAAATCTTTAAGATGTTTTCAAATGAGAATCTTT--
* *
5205043 GATATTT
64 GAGA-CT
* * *
5205050 TCAAAT-AAGAATCTTTAAGTT-TTAAATGAAAATCTTTAAAATGTTTTCAAATGAGAATCTTTG
1 TCAAATGAA-AATTTTTAAGTTGTCAAATGAAAATCTTTAAGATGTTTTCAAATGAGAATCTTTG
*
5205113 AGGCT
65 AGACT
*
5205118 T-AAATGAAAATTTTTAAAACGTTGTCAAATGAGAATCTTT
1 TCAAATGAAAATTTTT--AA-GTTGTCAAATGAAAATCTTT
5205158 GAAGTGTGAA
Statistics
Matches: 146, Mismatches: 23, Indels: 19
0.78 0.12 0.10
Matches are distributed among these distances:
67 10 0.07
68 4 0.03
69 4 0.03
70 58 0.40
71 67 0.46
72 3 0.02
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (69 bp):
TCAAATGAAAATTTTTAAGTTGTCAAATGAAAATCTTTAAGATGTTTTCAAATGAGAATCTTTGA
GACT
Found at i:5205213 original size:21 final size:21
Alignment explanation
Indices: 5205188--5205260 Score: 94
Period size: 21 Copynumber: 3.5 Consensus size: 21
5205178 TATCGAGTGT
*
5205188 GAATCTTTGAATTTTAAATGA
1 GAATCTTTGAATTTCAAATGA
* *
5205209 GAATCTTTGAATTTCAAGTAA
1 GAATCTTTGAATTTCAAATGA
*
5205230 GAATCTTT-AAGTGTCAAATGA
1 GAATCTTTGAA-TTTCAAATGA
5205251 GAATCTTTGA
1 GAATCTTTGA
5205261 GGTGTGAAAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
20 2 0.05
21 41 0.93
22 1 0.02
ACGTcount: A:0.37, C:0.08, G:0.16, T:0.38
Consensus pattern (21 bp):
GAATCTTTGAATTTCAAATGA
Found at i:5205538 original size:113 final size:114
Alignment explanation
Indices: 5205403--5205666 Score: 406
Period size: 113 Copynumber: 2.3 Consensus size: 114
5205393 TGAACTTTTG
* *
5205403 AATGTGAACCTCCAAAATTCAAATGAAAAGCTTTGAACTAAACTTTTGGATGTGAATTTCTAAAT
1 AATGTGAACCTCCAAAATTCAAACGAAAAGCTTTGAACTAAACTTTTGGATGTGAATCTCTAAAT
*
5205468 TTTTGAGTGAGAA-CTTTGAACTTAGATGTGAAACTCTAAGATTTCTTG
66 TTTTGAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTA
* * * *
5205516 GATGTGAATCTCTAAAATTCAAACGAAAAGCTTTGAACTCAACTTTTGGATGTGAATCTCTAAAT
1 AATGTGAACCTCCAAAATTCAAACGAAAAGCTTTGAACTAAACTTTTGGATGTGAATCTCTAAAT
5205581 TTTTGAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTA
66 TTTTGAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTA
*** * *
5205630 AATGTGAACCT-TTGAACTCGAACGAAAAGCTTTGAAC
1 AATGTGAACCTCCAAAATTCAAACGAAAAGCTTTGAAC
5205667 ATTTAGATGT
Statistics
Matches: 137, Mismatches: 13, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
113 94 0.69
114 43 0.31
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (114 bp):
AATGTGAACCTCCAAAATTCAAACGAAAAGCTTTGAACTAAACTTTTGGATGTGAATCTCTAAAT
TTTTGAGTGAGAACCTTTGAACTTAGATGTGAAACTCTAAGATTTCTTA
Found at i:5205619 original size:42 final size:44
Alignment explanation
Indices: 5205564--5205647 Score: 118
Period size: 44 Copynumber: 2.0 Consensus size: 44
5205554 TCAACTTTTG
* * *
5205564 GATGTGAATCTCTAA-ATTT-TTGAGTGAGAACCTTTGAACTTA
1 GATGTGAAACTCTAAGATTTCTTAAATGAGAACCTTTGAACTTA
*
5205606 GATGTGAAACTCTAAGATTTCTTAAATGTGAACCTTTGAACT
1 GATGTGAAACTCTAAGATTTCTTAAATGAGAACCTTTGAACT
5205648 CGAACGAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
42 14 0.39
43 4 0.11
44 18 0.50
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (44 bp):
GATGTGAAACTCTAAGATTTCTTAAATGAGAACCTTTGAACTTA
Found at i:5206104 original size:42 final size:42
Alignment explanation
Indices: 5206053--5206187 Score: 139
Period size: 42 Copynumber: 3.3 Consensus size: 42
5206043 AGAAGCTTTG
*
5206053 TTTA-TTTTTTCAAAGTCGTTGAACATCTGTTTAGAAGAGCA
1 TTTATTTTTTTCAAAGTAGTTGAACATCTGTTTAGAAGAGCA
* * * *
5206094 TTTATTTTTTTCAAAGTAGTTGAGCTTCTGTTTAGATGAGCT
1 TTTATTTTTTTCAAAGTAGTTGAACATCTGTTTAGAAGAGCA
** * * * ** *
5206136 TTTATTTTTTAAAAAGTTGTT-AACCTCTGCTTAGGGGAGCC
1 TTTATTTTTTTCAAAGTAGTTGAACATCTGTTTAGAAGAGCA
5206177 TTTATTTTTTT
1 TTTATTTTTTT
5206188 AAAAAGTTGT
Statistics
Matches: 78, Mismatches: 15, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
41 28 0.36
42 50 0.64
ACGTcount: A:0.24, C:0.11, G:0.17, T:0.48
Consensus pattern (42 bp):
TTTATTTTTTTCAAAGTAGTTGAACATCTGTTTAGAAGAGCA
Found at i:5206181 original size:41 final size:41
Alignment explanation
Indices: 5206078--5206313 Score: 197
Period size: 42 Copynumber: 5.7 Consensus size: 41
5206068 TCGTTGAACA
* * * ** * * *
5206078 TCTGTTTAGAAGAGCATTTATTTTTTTCAAAGTAGTTGAGCT
1 TCTGCTTAGGAGAGCCTTTATTTTTTAAAAAGTTG-TCAGCC
* * * *
5206120 TCTGTTTA-GATGAGCTTTTATTTTTTAAAAAGTTGTTAACC
1 TCTGCTTAGGA-GAGCCTTTATTTTTTAAAAAGTTGTCAGCC
*
5206161 TCTGCTTAGGGGAGCCTTTATTTTTTTAAAAAGTTGTCAGCC
1 TCTGCTTAGGAGAGCCTTTA-TTTTTTAAAAAGTTGTCAGCC
* *
5206203 TCTGCTTATGAGAGCCTTTATTTTTTAAAAAGTTGTCAGTC
1 TCTGCTTAGGAGAGCCTTTATTTTTTAAAAAGTTGTCAGCC
* * * * * *
5206244 TCTACTTAGAAGAGCCTTTATTTTTTTTCAAAAGTTATCAACT
1 TCTGCTTAGGAGAGCCTTTA--TTTTTTAAAAAGTTGTCAGCC
**
5206287 TCTATTTA-GATGAGCCTTTATTTTTTA
1 TCTGCTTAGGA-GAGCCTTTATTTTTTA
5206314 TTTTTTTCTC
Statistics
Matches: 161, Mismatches: 27, Indels: 13
0.80 0.13 0.06
Matches are distributed among these distances:
41 62 0.39
42 67 0.42
43 32 0.20
ACGTcount: A:0.25, C:0.13, G:0.16, T:0.46
Consensus pattern (41 bp):
TCTGCTTAGGAGAGCCTTTATTTTTTAAAAAGTTGTCAGCC
Found at i:5206188 original size:42 final size:42
Alignment explanation
Indices: 5206125--5206312 Score: 202
Period size: 41 Copynumber: 4.5 Consensus size: 42
5206115 GAGCTTCTGT
* * * *
5206125 TTAGATGAGCTTTTA-TTTTTTAAAAAGTTGTTAACCTCTGC
1 TTAGAAGAGCCTTTATTTTTTTAAAAAGTTGTCAACCTCTAC
** * *
5206166 TTAGGGGAGCCTTTATTTTTTTAAAAAGTTGTCAGCCTCTGC
1 TTAGAAGAGCCTTTATTTTTTTAAAAAGTTGTCAACCTCTAC
**
5206208 TTATG-AGAGCCTTTA-TTTTTTAAAAAGTTGTCAGTCTCTAC
1 TTA-GAAGAGCCTTTATTTTTTTAAAAAGTTGTCAACCTCTAC
* * * *
5206249 TTAGAAGAGCCTTTATTTTTTTTCAAAAGTTATCAACTTCTAT
1 TTAGAAGAGCCTTTA-TTTTTTTAAAAAGTTGTCAACCTCTAC
*
5206292 TTAGATGAGCCTTTATTTTTT
1 TTAGAAGAGCCTTTATTTTTT
5206313 ATTTTTTTCT
Statistics
Matches: 127, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
40 1 0.01
41 49 0.39
42 42 0.33
43 35 0.28
ACGTcount: A:0.26, C:0.14, G:0.15, T:0.46
Consensus pattern (42 bp):
TTAGAAGAGCCTTTATTTTTTTAAAAAGTTGTCAACCTCTAC
Found at i:5206223 original size:83 final size:83
Alignment explanation
Indices: 5206053--5206313 Score: 278
Period size: 83 Copynumber: 3.1 Consensus size: 83
5206043 AGAAGCTTTG
* * * * * *
5206053 TTTATTTTTT-CAAAGTCGTTGAACATCTGTTTAGAAGAGCATTTATTTTTTTCAAAGTAGTTG-
1 TTTATTTTTTAAAAAGTTGTT-AACCTCTGCTTAGAAGAGCCTTTATTTTTTT-AAA-AAGTTGT
*
5206116 -AGCTTCTGTTTAGATGAGCT
63 CAGCTTCTGTTTAGATGAGCC
**
5206136 TTTATTTTTTAAAAAGTTGTTAACCTCTGCTTAGGGGAGCCTTTATTTTTTTAAAAAGTTGTCAG
1 TTTATTTTTTAAAAAGTTGTTAACCTCTGCTTAGAAGAGCCTTTATTTTTTTAAAAAGTTGTCAG
* *
5206201 CCTCTGCTTATGA-GAGCC
66 CTTCTGTTTA-GATGAGCC
* ** * * *
5206219 TTTATTTTTTAAAAAGTTGTCAGTCTCTACTTAGAAGAGCCTTTATTTTTTTTCAAAAGTTATCA
1 TTTATTTTTTAAAAAGTTGTTAACCTCTGCTTAGAAGAGCCTTTA-TTTTTTTAAAAAGTTGTCA
* *
5206284 ACTTCTATTTAGATGAGCC
65 GCTTCTGTTTAGATGAGCC
5206303 TTTATTTTTTA
1 TTTATTTTTTA
5206314 TTTTTTTCTC
Statistics
Matches: 149, Mismatches: 23, Indels: 11
0.81 0.13 0.06
Matches are distributed among these distances:
81 5 0.03
82 3 0.02
83 91 0.61
84 50 0.34
ACGTcount: A:0.26, C:0.13, G:0.15, T:0.46
Consensus pattern (83 bp):
TTTATTTTTTAAAAAGTTGTTAACCTCTGCTTAGAAGAGCCTTTATTTTTTTAAAAAGTTGTCAG
CTTCTGTTTAGATGAGCC
Found at i:5206584 original size:13 final size:13
Alignment explanation
Indices: 5206555--5206595 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
5206545 CGATTGTAAG
5206555 AATTTTTA-TTC-
1 AATTTTTATTTCA
5206566 -ATTTTTATTTCA
1 AATTTTTATTTCA
5206578 AATTTTTATTTCA
1 AATTTTTATTTCA
*
5206591 TATTT
1 AATTT
5206596 ATCATTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
10 7 0.27
11 3 0.12
13 16 0.62
ACGTcount: A:0.27, C:0.07, G:0.00, T:0.66
Consensus pattern (13 bp):
AATTTTTATTTCA
Found at i:5208312 original size:17 final size:15
Alignment explanation
Indices: 5208290--5208323 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 15
5208280 TTGGAATACT
5208290 AATTTTTCATTAAAAAA
1 AATTTTTCA--AAAAAA
5208307 AATTTTTCAAAAAAA
1 AATTTTTCAAAAAAA
5208322 AA
1 AA
5208324 GTTGAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
17 9 0.53
ACGTcount: A:0.59, C:0.06, G:0.00, T:0.35
Consensus pattern (15 bp):
AATTTTTCAAAAAAA
Found at i:5208430 original size:14 final size:15
Alignment explanation
Indices: 5208411--5208443 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
5208401 AATTTTCTTA
*
5208411 AAAAT-AAAATTTCT
1 AAAATAAAAATTTCC
5208425 AAAATAAAAATTTCC
1 AAAATAAAAATTTCC
5208440 AAAA
1 AAAA
5208444 GCATTTTGGG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 5 0.29
15 12 0.71
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (15 bp):
AAAATAAAAATTTCC
Found at i:5208496 original size:14 final size:15
Alignment explanation
Indices: 5208477--5208514 Score: 60
Period size: 14 Copynumber: 2.5 Consensus size: 15
5208467 TATCAATTTT
5208477 TTTTAAAAAT-AAAA
1 TTTTAAAAATAAAAA
5208491 TTTTAAAAATAAAAA
1 TTTTAAAAATAAAAA
5208506 TTTTCAAAA
1 TTTT-AAAA
5208515 GCATTTTGAG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
14 10 0.45
15 8 0.36
16 4 0.18
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTTAAAAATAAAAA
Found at i:5208499 original size:15 final size:15
Alignment explanation
Indices: 5208477--5208514 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
5208467 TATCAATTTT
5208477 TTTTAAAAAT-AAAA
1 TTTTAAAAATAAAAA
5208491 TTTTAAAAATAAAAA
1 TTTTAAAAATAAAAA
*
5208506 TTTTCAAAA
1 TTTTAAAAA
5208515 GCATTTTGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (15 bp):
TTTTAAAAATAAAAA
Found at i:5208580 original size:71 final size:70
Alignment explanation
Indices: 5208377--5208580 Score: 295
Period size: 71 Copynumber: 2.9 Consensus size: 70
5208367 AAAAATATAT
* * *
5208377 TTTTAAGGAAAAGTTGAAAGTATCAATTTTC-TTAAAAATAAAATTTCTAAAATAAAAATTTCCA
1 TTTTGAGGGAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAATTT-TAAAATAAAAATTTTCA
5208441 AAAGCA
65 AAAGCA
* *
5208447 TTTTGGGGGAAAGTTGAAAGTATCAATTTTTTTTAAAAATAAAATTTTAAAAATAAAAATTTTCA
1 TTTTGAGGGAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAATTTT-AAAATAAAAATTTTCA
5208512 AAAGCA
65 AAAGCA
* *
5208518 TTTTGAGGGAAAGTTGAAAGTATCAATTTCCTTTAAAAATAAAAAGTTTTAAAA-AAATATTTT
1 TTTTGAGGGAAAGTTGAAAGTATCAATTTTCTTTAAAAAT-AAAA-TTTTAAAATAAAAATTTT
5208581 TAGAAAAAAA
Statistics
Matches: 121, Mismatches: 9, Indels: 7
0.88 0.07 0.05
Matches are distributed among these distances:
70 28 0.23
71 81 0.67
72 8 0.07
73 4 0.03
ACGTcount: A:0.47, C:0.06, G:0.11, T:0.36
Consensus pattern (70 bp):
TTTTGAGGGAAAGTTGAAAGTATCAATTTTCTTTAAAAATAAAATTTTAAAATAAAAATTTTCAA
AAGCA
Found at i:5208692 original size:60 final size:59
Alignment explanation
Indices: 5208626--5208800 Score: 198
Period size: 60 Copynumber: 3.0 Consensus size: 59
5208616 ATAAAATTTC
*
5208626 TAAAATAAAAATTATCAAAAAAAACATTTTGAA-G-AAAATGTGGAAGTACCAATTTTCTT
1 TAAAATAAAAATTATCAAAAAAAACATTTT-AAGGAAAAAT-TGAAAGTACCAATTTTCTT
* **
5208685 TAAAAATAAAAATTATCAAGAAAAACATTTTAAGGAAAAATTGAAAGTATTAATTTTCTT
1 T-AAAATAAAAATTATCAAAAAAAACATTTTAAGGAAAAATTGAAAGTACCAATTTTCTT
* ** * *
5208745 TAAAATAAAAA--CTC-CCAAAAGCATTTTAAGGAAAAATTGAAAGTATCAAATTTTCT
1 TAAAATAAAAATTATCAAAAAAAACATTTTAAGGAAAAATTGAAAGTA-CCAATTTTCT
5208801 CGTACAAAAG
Statistics
Matches: 102, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
56 28 0.27
57 10 0.10
59 13 0.13
60 46 0.45
61 5 0.05
ACGTcount: A:0.51, C:0.09, G:0.09, T:0.31
Consensus pattern (59 bp):
TAAAATAAAAATTATCAAAAAAAACATTTTAAGGAAAAATTGAAAGTACCAATTTTCTT
Found at i:5208727 original size:134 final size:131
Alignment explanation
Indices: 5208460--5208754 Score: 357
Period size: 134 Copynumber: 2.2 Consensus size: 131
5208450 TGGGGGAAAG
* * * * *
5208460 TTGAAAGTATCAATTTTTTTTAAAAATAAAATTTTAAAAATAAAAATTTTCAAAAGCATTTTGAG
1 TTGAAAGTATTAATTTTTCTTAAAAATAAAATTTTAAAAATAAAAATTATCAAAAACATTTTGAA
* * * * *
5208525 GGAAAGTTGAAAGTATCAATTTCCTTTAAAAATAAAAAGTTTTAAAAAAATATTTTTAGAAAAAA
66 GAAAAGTTGAAAGTACCAATTTCCTTTAAAAATAAAAAGTTTCAAAAAAACATTTTAAGAAAAAA
5208590 A
131 A
*
5208591 TTGAAAGTATTAATTTTTCTTGAAAATAAAATTTCT-AAAATAAAAATTATCAAAAAAAACATTT
1 TTGAAAGTATTAATTTTTCTTAAAAATAAAATTT-TAAAAATAAAAATTATC---AAAAACATTT
* *
5208655 TGAAGAAAA-TGTGGAAGTACCAATTTTCTTTAAAAATAAAAA-TTATCAAGAAAAACATTTTAA
62 TGAAGAAAAGT-TGAAAGTACCAATTTCCTTTAAAAATAAAAAGTT-TCAA-AAAAACATTTTAA
*
5208718 G-GAAAAA
124 GAAAAAAA
*
5208725 TTGAAAGTATTAA-TTTTCTTTAAAATAAAA
1 TTGAAAGTATTAATTTTTCTTAAAAATAAAA
5208755 ACTCCCAAAA
Statistics
Matches: 142, Mismatches: 15, Indels: 12
0.84 0.09 0.07
Matches are distributed among these distances:
131 45 0.32
132 1 0.01
133 19 0.13
134 65 0.46
135 12 0.08
ACGTcount: A:0.51, C:0.05, G:0.09, T:0.35
Consensus pattern (131 bp):
TTGAAAGTATTAATTTTTCTTAAAAATAAAATTTTAAAAATAAAAATTATCAAAAACATTTTGAA
GAAAAGTTGAAAGTACCAATTTCCTTTAAAAATAAAAAGTTTCAAAAAAACATTTTAAGAAAAAA
A
Found at i:5209356 original size:24 final size:23
Alignment explanation
Indices: 5209329--5209376 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
5209319 TTTCATTTTG
*
5209329 AAAAAATTAAATCATTTTATATTT
1 AAAAAA-TAAATAATTTTATATTT
* *
5209353 AAAAAATAATTAATTTTTTATTT
1 AAAAAATAAATAATTTTATATTT
5209376 A
1 A
5209377 TAATTTTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 15 0.71
24 6 0.29
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (23 bp):
AAAAAATAAATAATTTTATATTT
Found at i:5210839 original size:21 final size:21
Alignment explanation
Indices: 5210813--5210858 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 21
5210803 CAAAATTTCC
* *
5210813 TTTTTTTT--TTTCTTTTTTA
1 TTTTTTTTGCTTTCTGTTTAA
5210832 TTTTTTTTGCTTTCTGTTTAA
1 TTTTTTTTGCTTTCTGTTTAA
5210853 TTTTTT
1 TTTTTT
5210859 AATTTTTCCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 8 0.35
21 15 0.65
ACGTcount: A:0.07, C:0.07, G:0.04, T:0.83
Consensus pattern (21 bp):
TTTTTTTTGCTTTCTGTTTAA
Found at i:5215684 original size:24 final size:24
Alignment explanation
Indices: 5215657--5215706 Score: 75
Period size: 24 Copynumber: 2.1 Consensus size: 24
5215647 AATATATATT
5215657 CAGTTTTACTT-TTAGTTTTTCACA
1 CAGTTTTACTTCTTAGTTTTTC-CA
*
5215681 CAGTTTTATTTCTTAGTTTTTCCA
1 CAGTTTTACTTCTTAGTTTTTCCA
5215705 CA
1 CA
5215707 TGGTATCAGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
24 14 0.58
25 10 0.42
ACGTcount: A:0.20, C:0.18, G:0.08, T:0.54
Consensus pattern (24 bp):
CAGTTTTACTTCTTAGTTTTTCCA
Found at i:5229866 original size:2 final size:2
Alignment explanation
Indices: 5229859--5229890 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
5229849 TTTGATGAGG
5229859 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5229891 TTATTTAGTG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:5238489 original size:27 final size:27
Alignment explanation
Indices: 5238432--5238489 Score: 62
Period size: 27 Copynumber: 2.1 Consensus size: 27
5238422 TATGGTATAG
* ** *
5238432 ATTTCATGCATTGTATCCATTGCATGC
1 ATTTCATGCATTATATCCATCACATGA
* *
5238459 ATTTCATGCATTATATGCATCACATTA
1 ATTTCATGCATTATATCCATCACATGA
5238486 ATTT
1 ATTT
5238490 TAAGTGTTGA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.28, C:0.19, G:0.10, T:0.43
Consensus pattern (27 bp):
ATTTCATGCATTATATCCATCACATGA
Found at i:5238803 original size:34 final size:34
Alignment explanation
Indices: 5238756--5238828 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
5238746 GTTCCCTAGG
* * *
5238756 CAAGATTCATAAGTTTTCTTAGTTGAATTTGTTA
1 CAAGATTCATAAGTTTTCTGAGCTAAATTTGTTA
*
5238790 CAAGATTCGTAAGTTTTCTGAGCTAAATTTGTTA
1 CAAGATTCATAAGTTTTCTGAGCTAAATTTGTTA
*
5238824 TAAGA
1 CAAGA
5238829 CATCCGGACA
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.10, G:0.16, T:0.42
Consensus pattern (34 bp):
CAAGATTCATAAGTTTTCTGAGCTAAATTTGTTA
Found at i:5238947 original size:75 final size:75
Alignment explanation
Indices: 5238819--5238964 Score: 168
Period size: 75 Copynumber: 1.9 Consensus size: 75
5238809 GAGCTAAATT
* * * * *
5238819 TGTTATAAGACATCCGGACATAATCACTAAGTTATTCGGACAAAATTCGTAAGTCTTTCGAGTTG
1 TGTTATAAGACATCCGGACATAATCACCAAGTCATTCGGACAAAATTCATAAGTCTTTCGAGCTA
5238884 AATCTGAATC
66 AATCTGAATC
* * * ** * *
5238894 TGTTATAAGACCTCCAGG-CATAATCACCAGGTCATTTGGGTAAGATTCATAAGTTTTTCGAGCT
1 TGTTATAAGACATCC-GGACATAATCACCAAGTCATTCGGACAAAATTCATAAGTCTTTCGAGCT
5238958 AAATCTG
65 AAATCTG
5238965 TTTTAGAATT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
75 56 0.97
76 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (75 bp):
TGTTATAAGACATCCGGACATAATCACCAAGTCATTCGGACAAAATTCATAAGTCTTTCGAGCTA
AATCTGAATC
Found at i:5239241 original size:21 final size:21
Alignment explanation
Indices: 5239214--5239254 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
5239204 AGCTTGTCGT
*
5239214 AAAAAAATATAATAATAAAAAC
1 AAAAAAAGAT-ATAATAAAAAC
5239236 AAAAAAAGATATAATAAAA
1 AAAAAAAGATATAATAAAA
5239255 GAGGGATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.78, C:0.02, G:0.02, T:0.17
Consensus pattern (21 bp):
AAAAAAAGATATAATAAAAAC
Found at i:5243575 original size:1 final size:1
Alignment explanation
Indices: 5243569--5243605 Score: 74
Period size: 1 Copynumber: 37.0 Consensus size: 1
5243559 ATTATCCTTG
5243569 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
5243606 CCTATTATTC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 36 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:5243949 original size:16 final size:17
Alignment explanation
Indices: 5243928--5243959 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
5243918 GAGTTATACA
5243928 ATTTTATAAGA-TAGAT
1 ATTTTATAAGACTAGAT
5243944 ATTTTATAAGACTAGA
1 ATTTTATAAGACTAGA
5243960 AGATATTGAG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.73
17 4 0.27
ACGTcount: A:0.44, C:0.03, G:0.12, T:0.41
Consensus pattern (17 bp):
ATTTTATAAGACTAGAT
Found at i:5244935 original size:19 final size:19
Alignment explanation
Indices: 5244911--5244947 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
5244901 TTTGTGAACA
5244911 TAACAAACGATCTTAAACT
1 TAACAAACGATCTTAAACT
5244930 TAACAAACGATCTTAAAC
1 TAACAAACGATCTTAAAC
5244948 AGCATTCTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.22, G:0.05, T:0.24
Consensus pattern (19 bp):
TAACAAACGATCTTAAACT
Found at i:5245264 original size:21 final size:21
Alignment explanation
Indices: 5245240--5245293 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
5245230 GTTCATGTAC
5245240 ATATTCATTTAATATTCACAA
1 ATATTCATTTAATATTCACAA
** *
5245261 ATATTTGTTTAATGTTCACAA
1 ATATTCATTTAATATTCACAA
5245282 ATATTCATTTAA
1 ATATTCATTTAA
5245294 CTTAACTGAA
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.39, C:0.11, G:0.04, T:0.46
Consensus pattern (21 bp):
ATATTCATTTAATATTCACAA
Found at i:5248143 original size:43 final size:43
Alignment explanation
Indices: 5248095--5248181 Score: 174
Period size: 43 Copynumber: 2.0 Consensus size: 43
5248085 TGTTCTAAAG
5248095 ATCTATTAGGATATATAAGTTGAAACTTAAACTTAAACTTGTT
1 ATCTATTAGGATATATAAGTTGAAACTTAAACTTAAACTTGTT
5248138 ATCTATTAGGATATATAAGTTGAAACTTAAACTTAAACTTGTT
1 ATCTATTAGGATATATAAGTTGAAACTTAAACTTAAACTTGTT
5248181 A
1 A
5248182 GGCGTCTTTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 44 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.39
Consensus pattern (43 bp):
ATCTATTAGGATATATAAGTTGAAACTTAAACTTAAACTTGTT
Found at i:5252947 original size:21 final size:20
Alignment explanation
Indices: 5252912--5252951 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
5252902 ATGTGATAAT
5252912 TTAAATATATAAAATCAGTTA
1 TTAAATATATAAAAT-AGTTA
5252933 TTAAAT-TATATAAATAGTT
1 TTAAATATATA-AAATAGTT
5252952 CCTATACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 8 0.44
21 10 0.56
ACGTcount: A:0.50, C:0.03, G:0.05, T:0.42
Consensus pattern (20 bp):
TTAAATATATAAAATAGTTA
Found at i:5253200 original size:16 final size:14
Alignment explanation
Indices: 5253175--5253217 Score: 54
Period size: 13 Copynumber: 3.1 Consensus size: 14
5253165 TATTATTATC
5253175 ATTT-ATATTAATCA
1 ATTTAATATTAAT-A
5253189 ATTATAATATTAATA
1 ATT-TAATATTAATA
5253204 ATTTAA-ATTAATA
1 ATTTAATATTAATA
5253217 A
1 A
5253218 ATCAAAGTTA
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 8 0.30
14 6 0.22
15 5 0.19
16 8 0.30
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (14 bp):
ATTTAATATTAATA
Found at i:5254769 original size:11 final size:11
Alignment explanation
Indices: 5254749--5254791 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
5254739 TATTAATATG
*
5254749 TTTAACATTTT
1 TTTAAAATTTT
5254760 TTTAAAATTTT
1 TTTAAAATTTT
**
5254771 AAT-AAATTTT
1 TTTAAAATTTT
5254781 TTTAAAATTTT
1 TTTAAAATTTT
5254792 AAAATTTTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
10 8 0.31
11 18 0.69
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTAAAATTTT
Found at i:5254770 original size:9 final size:9
Alignment explanation
Indices: 5254758--5254808 Score: 59
Period size: 9 Copynumber: 5.4 Consensus size: 9
5254748 GTTTAACATT
5254758 TTTTTAAAA
1 TTTTTAAAA
*
5254767 TTTTAATAAATT
1 TTTT--TAAA-A
5254779 TTTTTAAAA
1 TTTTTAAAA
5254788 -TTTTAAAA
1 TTTTTAAAA
5254796 TTTTTAAAA
1 TTTTTAAAA
5254805 TTTT
1 TTTT
5254809 AGATGAGACC
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
8 8 0.22
9 16 0.44
10 4 0.11
11 4 0.11
12 4 0.11
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTTTAAAA
Found at i:5257440 original size:2 final size:2
Alignment explanation
Indices: 5257433--5257461 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
5257423 ATTGTTTTAT
5257433 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
5257462 TTACTTATTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5259039 original size:10 final size:10
Alignment explanation
Indices: 5259026--5259055 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
5259016 AAAAATTGTT
5259026 AAAAAA-AAA
1 AAAAAAGAAA
5259035 AAAAAAGAAA
1 AAAAAAGAAA
5259045 AAAAAAGAAA
1 AAAAAAGAAA
5259055 A
1 A
5259056 GGTTACAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 6 0.30
10 14 0.70
ACGTcount: A:0.93, C:0.00, G:0.07, T:0.00
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:5259045 original size:15 final size:15
Alignment explanation
Indices: 5259027--5259056 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
5259017 AAAATTGTTA
5259027 AAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAG
*
5259042 AAAAAAAAAGAAAAG
1 AAAAAAAAAAAAAAG
5259057 GTTACAAGTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (15 bp):
AAAAAAAAAAAAAAG
Found at i:5261977 original size:27 final size:27
Alignment explanation
Indices: 5261924--5261974 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
5261914 AAAGACAATG
*
5261924 ATGATAATAAAATTAAATAATATAATA
1 ATGATAATAAAATTAAATAATAAAATA
* *
5261951 ATGAT-ATTAAATTTAATAATAAAA
1 ATGATAATAAAATTAAATAATAAAA
5261975 ATATTTATTT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 16 0.76
27 5 0.24
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (27 bp):
ATGATAATAAAATTAAATAATAAAATA
Found at i:5268130 original size:19 final size:18
Alignment explanation
Indices: 5268108--5268142 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
5268098 ATTAGGTATA
*
5268108 TATATGAAAATA-AATAT
1 TATATAAAAATATAATAT
5268125 TATATAAAAATATAATAT
1 TATATAAAAATATAATAT
5268143 AAGAGTTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (18 bp):
TATATAAAAATATAATAT
Found at i:5273248 original size:14 final size:13
Alignment explanation
Indices: 5273228--5273266 Score: 51
Period size: 16 Copynumber: 2.8 Consensus size: 13
5273218 ATATTATTTT
5273228 ATAAAAAATTATA
1 ATAAAAAATTATA
5273241 ATTAAAAAATATTATA
1 A-T-AAAAA-ATTATA
5273257 ATAAAAAATT
1 ATAAAAAATT
5273267 TTATATTTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
13 4 0.17
14 6 0.26
15 6 0.26
16 7 0.30
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (13 bp):
ATAAAAAATTATA
Found at i:5273254 original size:16 final size:15
Alignment explanation
Indices: 5273230--5273271 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
5273220 ATTATTTTAT
5273230 AAAAA-ATTATAATTA
1 AAAAATATTATAA-TA
5273245 AAAAATATTATAATA
1 AAAAATATTATAATA
*
5273260 AAAAATTTTATA
1 AAAAATATTATA
5273272 TTTTTATCCA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 18 0.72
16 7 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (15 bp):
AAAAATATTATAATA
Found at i:5273271 original size:15 final size:14
Alignment explanation
Indices: 5273228--5273267 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
5273218 ATATTATTTT
5273228 ATAAAAAA-TTATA
1 ATAAAAAATTTATA
5273241 ATTAAAAAATATTATA
1 A-TAAAAAAT-TTATA
5273257 ATAAAAAATTT
1 ATAAAAAATTT
5273268 TATATTTTTA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 1 0.04
14 9 0.38
15 8 0.33
16 6 0.25
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
ATAAAAAATTTATA
Found at i:5277239 original size:23 final size:23
Alignment explanation
Indices: 5277171--5277239 Score: 75
Period size: 23 Copynumber: 3.0 Consensus size: 23
5277161 TGTTAAGTGA
* ** *
5277171 TTATTTAAATATAACTTAAAATT
1 TTATTTGAATATAAAATAAAAAT
* *
5277194 TTATTTGAATATAAATTATAAAT
1 TTATTTGAATATAAAATAAAAAT
*
5277217 TTATTTGAATGTAAAATAAAAAT
1 TTATTTGAATATAAAATAAAAAT
5277240 AAAATATATT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 39 1.00
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (23 bp):
TTATTTGAATATAAAATAAAAAT
Found at i:5277284 original size:29 final size:29
Alignment explanation
Indices: 5277213--5277299 Score: 72
Period size: 29 Copynumber: 3.0 Consensus size: 29
5277203 TATAAATTAT
* *
5277213 AAATTTATTTGAATGTAA-AATAAAAATA
1 AAATTTATTTAAATATAATAATAAAAATA
* * *
5277241 AAATATATTCAAAATATAATAA-AAATATAA
1 AAATTTATT-TAAATATAATAATAAAAAT-A
*
5277271 AAATTTATTTAAATAAAAT-ATCAAAAATA
1 AAATTTATTTAAATATAATAAT-AAAAATA
5277300 TTTTTTTATT
Statistics
Matches: 45, Mismatches: 9, Indels: 9
0.71 0.14 0.14
Matches are distributed among these distances:
28 9 0.20
29 20 0.44
30 16 0.36
ACGTcount: A:0.62, C:0.02, G:0.02, T:0.33
Consensus pattern (29 bp):
AAATTTATTTAAATATAATAATAAAAATA
Found at i:5281318 original size:23 final size:22
Alignment explanation
Indices: 5281282--5281329 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
5281272 GAAATTATTT
* * *
5281282 ATAATTATTTTAATATATAAATA
1 ATAATTAATATAATAAATAAA-A
5281305 ATAATTAATATAATAAATAAAA
1 ATAATTAATATAATAAATAAAA
5281327 ATA
1 ATA
5281330 TTATAAAAGT
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 4 0.18
23 18 0.82
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
ATAATTAATATAATAAATAAAA
Found at i:5281630 original size:16 final size:16
Alignment explanation
Indices: 5281586--5281633 Score: 64
Period size: 16 Copynumber: 3.1 Consensus size: 16
5281576 TTTAATATAG
*
5281586 TAATTTAATATGTAGT
1 TAATTTAATATGTAAT
5281602 TAAGTTT--TATGTAAT
1 TAA-TTTAATATGTAAT
5281617 TAATTTAATATGTAAT
1 TAATTTAATATGTAAT
5281633 T
1 T
5281634 TAATAGTGGC
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
14 3 0.11
15 10 0.36
16 12 0.43
17 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.10, T:0.52
Consensus pattern (16 bp):
TAATTTAATATGTAAT
Found at i:5282976 original size:25 final size:25
Alignment explanation
Indices: 5282947--5283012 Score: 80
Period size: 26 Copynumber: 2.6 Consensus size: 25
5282937 TTAACATAAC
*
5282947 TATTAAAATATTAAAAATTATTTAT
1 TATTAAAATATTAAAAACTATTTAT
*
5282972 TATTAAAGTATATT-GAAACTATTTAT
1 TATTAAA--ATATTAAAAACTATTTAT
5282998 TATTAAAATTATTAA
1 TATTAAAA-TATTAA
5283013 TATTAAAAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
24 1 0.03
25 11 0.32
26 17 0.50
27 5 0.15
ACGTcount: A:0.48, C:0.02, G:0.03, T:0.47
Consensus pattern (25 bp):
TATTAAAATATTAAAAACTATTTAT
Found at i:5283028 original size:17 final size:18
Alignment explanation
Indices: 5282995--5283053 Score: 57
Period size: 18 Copynumber: 3.2 Consensus size: 18
5282985 TGAAACTATT
* *
5282995 TATTATTAAAATTATTAA
1 TATTAATAAAATAATTAA
5283013 TATTAA-AAAATAATTATA
1 TATTAATAAAATAATTA-A
* *
5283031 TGTTAATAATAATATTTAA
1 TATTAATAA-AATAATTAA
5283050 TATT
1 TATT
5283054 TAAATATTTA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
17 9 0.27
18 11 0.33
19 6 0.18
20 7 0.21
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (18 bp):
TATTAATAAAATAATTAA
Found at i:5283499 original size:20 final size:21
Alignment explanation
Indices: 5283476--5283522 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
5283466 ATATTTAAAA
5283476 TTTAAATTAA-ATAA-AATAT
1 TTTAAATTAATATAATAATAT
*
5283495 TTT-TATTAATATAATAATAT
1 TTTAAATTAATATAATAATAT
5283515 TTTAAATT
1 TTTAAATT
5283523 GAATCAAATC
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
18 5 0.22
19 7 0.30
20 8 0.35
21 3 0.13
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (21 bp):
TTTAAATTAATATAATAATAT
Found at i:5284224 original size:22 final size:23
Alignment explanation
Indices: 5284199--5284242 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
5284189 GATTAATATA
*
5284199 TATATAT-ATAAAAGCTCAATTT
1 TATATATGAAAAAAGCTCAATTT
5284221 TATATATGAAAAAAGCTCAATT
1 TATATATGAAAAAAGCTCAATT
5284243 ATTTATGCTC
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.48, C:0.09, G:0.07, T:0.36
Consensus pattern (23 bp):
TATATATGAAAAAAGCTCAATTT
Done.