Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A01
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: 104050246
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4660000 characters in sequence are not A, C, G, or T
File 298 of 316
Found at i:98248300 original size:47 final size:44
Alignment explanation
Indices: 98248189--98248402 Score: 171
Period size: 47 Copynumber: 4.7 Consensus size: 44
98248179 CGCGTACTGG
* * * *
98248189 TGCATGTCCCAGACATGTCTTACACTAGCATAACT-TTTAGCCGA
1 TGCATGTCCCAAACATGTCTTACACTGGC-TATCTCTGTAGCCGA
* * *
98248233 TGCGTGTCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCCGA
1 TGCATGTCCCAAACATGTCTTACACTGGCTATCTCTGT--A-GCCGA
*
98248280 TGCATGTCCCAAACATGTCTTACTCTGGCACTCATCTCTGT-GCCGA
1 TGCATGTCCCAAACATGTCTTACACTGG--CT-ATCTCTGTAGCCGA
* * * *
98248326 TGCCATGTCCCAAACATGGTCTTACGCTGGCTCTCATAATGTGGCCGA
1 TG-CATGTCCCAAACAT-GTCTTACACTGGCTATC-T-CTGTAGCCGA
* ** *
98248374 AGCATGTCTTAGACATGTCTTACACTGGC
1 TGCATGTCCCAAACATGTCTTACACTGGC
98248403 GTACAAATCA
Statistics
Matches: 141, Mismatches: 17, Indels: 22
0.78 0.09 0.12
Matches are distributed among these distances:
43 4 0.03
44 28 0.20
45 2 0.01
46 23 0.16
47 57 0.40
48 17 0.12
49 2 0.01
50 8 0.06
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (44 bp):
TGCATGTCCCAAACATGTCTTACACTGGCTATCTCTGTAGCCGA
Found at i:98248782 original size:30 final size:30
Alignment explanation
Indices: 98248742--98248798 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
98248732 AATTTACATC
* *
98248742 TTTGGTAAAATGACCATTTTGCCCCTAGAT
1 TTTGGCAAAATGACCATTTTACCCCTAGAT
98248772 TTTGGCAAAATGACCATTTTACCCCTA
1 TTTGGCAAAATGACCATTTTACCCCTA
98248799 TGCCTGAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.28, C:0.23, G:0.14, T:0.35
Consensus pattern (30 bp):
TTTGGCAAAATGACCATTTTACCCCTAGAT
Found at i:98249440 original size:22 final size:22
Alignment explanation
Indices: 98249415--98249456 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
98249405 CCTCTGCATC
98249415 GACGGGACTCCGCACTGCCACG
1 GACGGGACTCCGCACTGCCACG
*
98249437 GACGGGACTCCTCACTGCCA
1 GACGGGACTCCGCACTGCCA
98249457 TTGCTTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.40, G:0.29, T:0.12
Consensus pattern (22 bp):
GACGGGACTCCGCACTGCCACG
Found at i:98249548 original size:6 final size:6
Alignment explanation
Indices: 98249539--98249596 Score: 50
Period size: 6 Copynumber: 10.2 Consensus size: 6
98249529 AAGAAAGGGG
* * *
98249539 GAAGGA GAA-GA GAAAGA GAA-GA GAA-GA GAAGAA GAAGAA GAAGGA
1 GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA GAAGGA
* *
98249584 GGAGGA GGAGGA G
1 GAAGGA GAAGGA G
98249597 GCGGCATTGG
Statistics
Matches: 47, Mismatches: 3, Indels: 4
0.87 0.06 0.07
Matches are distributed among these distances:
5 15 0.32
6 32 0.68
ACGTcount: A:0.53, C:0.00, G:0.47, T:0.00
Consensus pattern (6 bp):
GAAGGA
Found at i:98249557 original size:11 final size:10
Alignment explanation
Indices: 98249543--98249581 Score: 51
Period size: 11 Copynumber: 3.6 Consensus size: 10
98249533 AAGGGGGAAG
98249543 GAGAAGAGAAA
1 GAGAAGAG-AA
98249554 GAGAAGAGAA
1 GAGAAGAGAA
98249564 GAGAAGAAGAA
1 GAGAAG-AGAA
98249575 GAAGAAG
1 G-AGAAG
98249582 GAGGAGGAGG
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
10 8 0.31
11 13 0.50
12 5 0.19
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (10 bp):
GAGAAGAGAA
Found at i:98249560 original size:5 final size:5
Alignment explanation
Indices: 98249543--98249581 Score: 51
Period size: 5 Copynumber: 7.2 Consensus size: 5
98249533 AAGGGGGAAG
98249543 GAGAA GAGAAA GAGAA GAGAA GAGAA GAAGAA GAAGAA G
1 GAGAA GAG-AA GAGAA GAGAA GAGAA G-AGAA G-AGAA G
98249582 GAGGAGGAGG
Statistics
Matches: 32, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
5 16 0.50
6 16 0.50
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (5 bp):
GAGAA
Found at i:98249564 original size:16 final size:16
Alignment explanation
Indices: 98249543--98249581 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
98249533 AAGGGGGAAG
98249543 GAGAAGAGAA-AGAGAA
1 GAGAAGAGAAGA-AGAA
98249559 GAGAAGAGAAGAAGAA
1 GAGAAGAGAAGAAGAA
98249575 GAAGAAG
1 G-AGAAG
98249582 GAGGAGGAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.62, C:0.00, G:0.38, T:0.00
Consensus pattern (16 bp):
GAGAAGAGAAGAAGAA
Found at i:98249628 original size:6 final size:6
Alignment explanation
Indices: 98249617--98249687 Score: 63
Period size: 6 Copynumber: 11.7 Consensus size: 6
98249607 TGAGGGAAGA
* * *
98249617 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG AGAAGGAG AAGAAG AATAAG
1 AAAAAG AAAAAG AAAAAG AAAAAG AAAAAG A-AA-AAG AAAAAG AAAAAG
* * *
98249667 AGAAAG AGAAGG AAAAA- AAAA
1 AAAAAG AAAAAG AAAAAG AAAA
98249688 GGTAATATTT
Statistics
Matches: 54, Mismatches: 9, Indels: 5
0.79 0.13 0.07
Matches are distributed among these distances:
5 4 0.07
6 44 0.81
7 3 0.06
8 3 0.06
ACGTcount: A:0.75, C:0.00, G:0.24, T:0.01
Consensus pattern (6 bp):
AAAAAG
Found at i:98249677 original size:20 final size:20
Alignment explanation
Indices: 98249620--98249677 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
98249610 GGGAAGAAAA
*
98249620 AAGAAAAAGA-AAA-AGAAA
1 AAGAAAAAGAGAAAGAGAAG
*
98249638 AAGAAAAAGAGAAGGAGAAG
1 AAGAAAAAGAGAAAGAGAAG
*
98249658 AAGAATAAGAGAAAGAGAAG
1 AAGAAAAAGAGAAAGAGAAG
98249678 GAAAAAAAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
18 10 0.29
19 2 0.06
20 22 0.65
ACGTcount: A:0.71, C:0.00, G:0.28, T:0.02
Consensus pattern (20 bp):
AAGAAAAAGAGAAAGAGAAG
Found at i:98249677 original size:26 final size:26
Alignment explanation
Indices: 98249613--98249685 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
98249603 TTGGTGAGGG
**
98249613 AAGAAAAA-AGAAAAAGAAAAAGAAA
1 AAGAAAAAGAGAAGGAGAAAAAGAAA
* *
98249638 AAGAAAAAGAGAAGGAGAAGAAGAAT
1 AAGAAAAAGAGAAGGAGAAAAAGAAA
* *
98249664 AAGAGAAAGAGAAGGAAAAAAA
1 AAGAAAAAGAGAAGGAGAAAAA
98249686 AAGGTAATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
25 8 0.20
26 32 0.80
ACGTcount: A:0.74, C:0.00, G:0.25, T:0.01
Consensus pattern (26 bp):
AAGAAAAAGAGAAGGAGAAAAAGAAA
Found at i:98250113 original size:14 final size:16
Alignment explanation
Indices: 98250089--98250120 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
98250079 AAAATAGCTT
98250089 AATAGTATA-TTTAAA
1 AATAGTATATTTTAAA
98250104 AATA-TATATTTTAAA
1 AATAGTATATTTTAAA
98250119 AA
1 AA
98250121 ATCCGAAAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 4 0.25
15 12 0.75
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
AATAGTATATTTTAAA
Found at i:98250450 original size:286 final size:279
Alignment explanation
Indices: 98250102--98250947 Score: 1137
Period size: 275 Copynumber: 3.0 Consensus size: 279
98250092 AGTATATTTA
98250102 AAAATATATA-TTTT-AAAAAATCCGAAAATAAAAT-AAAAAAGGCCAAAATCAGAGGTTTTTTA
1 AAAATATATATTTTTAAAAAAATCCGAAAATAAAATAAAAAAAGGCCAAAATCAGA-GTTTTTTA
*
98250164 CTAAATTAATATAAATATACTAAAATAATATATATGAAATATTATGTACTAAAATAATAAAAAAA
65 CTAAATTAATATAAA-A-ACTAAAATAATATATATGAAACATTATGTACTAAAATAATAAAAAAA
* *
98250229 TAAAATACGAAAATAGTATATTTTGAAAAATAAAATCCGAAAATCAAATAAAAAACAAACGGCTA
128 TAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATCAAA-AAAAAA-AAACGGCCA
* *
98250294 AAATTAGAAATTTTTACTAAATTAATATAAAAAAACCAAAATAATACATTTGAAACATTATGTAC
191 AAATCAGAAATTTTTACTAAATTAATATAAAAAAACTAAAATAATACA--TGAAACATTATGTAC
98250359 TAAAATAATATAAAAAATAAAATACG
254 TAAAATAATATAAAAAATAAAATACG
* * * *
98250385 AAAATAGTATATTTTTAAAAAAATCCGAAAACAAAATAAAAAAAAGCCAAAATCACAGATTTTTA
1 AAAATA-TATATTTTTAAAAAAATCCGAAAATAAAATAAAAAAAGGCCAAAATCAGAGTTTTTTA
* * * *
98250450 CTAAATTAATATAAAAACAAAAAT-A-ATACATGGAACATTATGTACTAAAATAAT--ATAAA-A
65 CTAAATTAATATAAAAACTAAAATAATATATATGAAACATTATGTACTAAAATAATAAAAAAATA
* * * * *
98250510 AAATACGAAAATAATATATCTTAAAAAATAAAATCCAAAAAT--AAAAATAAAAAGGGCCAAAAT
130 AAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATCAAAAAAAAAAAACGGCCAAAAT
*** *
98250573 CAGGGTTTTTTTCTAAATTAATATAAAAAAACTAAAATAATACATGAAACATTATGTACTAAAAT
195 CAGAAATTTTTACTAAATTAATATAAAAAAACTAAAATAATACATGAAACATTATGTACTAAAAT
**
98250638 AATATAAAAAATAAAATATA
260 AATATAAAAAATAAAATACG
* * *
98250658 AAAAAATAAATTTTAAAAAATAAAATCCGAAAATAAAA-ATAAAAAAGGCCAAAATCAGAGTTTT
1 AAAATATATATTTT--TAAA-AAAATCCGAAAATAAAATA-AAAAAAGGCCAAAATCAGAG-TTT
* * *
98250722 TTTTCTAAATTAATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAA
61 TTTACTAAATTAATAT-AAAAACTAAAATAATATATATGAAACATTATGTACTAAAATAATA-AA
*
98250787 AAGAATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAA-CAAAATAAATAAAACG
124 AA-AATAAAATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATCAAAA-AAAAAAAACG
*
98250851 GCCAAAATCACAAATTTTTACTAAATTAATAT-AAAAAACTAAAATAATACATGAAACATTATGT
187 GCCAAAATCAGAAATTTTTACTAAATTAATATAAAAAAACTAAAATAATACATGAAACATTATGT
98250915 ACTAAAATAATAT-AAAAATAAAAT-CTG
252 ACTAAAATAATATAAAAAATAAAATAC-G
98250942 AAAATA
1 AAAATA
98250948 AAAAATAAAA
Statistics
Matches: 490, Mismatches: 52, Indels: 41
0.84 0.09 0.07
Matches are distributed among these distances:
272 7 0.01
273 44 0.09
274 4 0.01
275 83 0.17
276 22 0.04
277 13 0.03
278 1 0.00
279 64 0.13
280 4 0.01
282 28 0.06
283 9 0.02
284 66 0.13
285 53 0.11
286 75 0.15
287 17 0.03
ACGTcount: A:0.59, C:0.08, G:0.06, T:0.27
Consensus pattern (279 bp):
AAAATATATATTTTTAAAAAAATCCGAAAATAAAATAAAAAAAGGCCAAAATCAGAGTTTTTTAC
TAAATTAATATAAAAACTAAAATAATATATATGAAACATTATGTACTAAAATAATAAAAAAATAA
AATACGAAAATAGTATATTTTAAAAAATAAAATCCGAAAATCAAAAAAAAAAAACGGCCAAAATC
AGAAATTTTTACTAAATTAATATAAAAAAACTAAAATAATACATGAAACATTATGTACTAAAATA
ATATAAAAAATAAAATACG
Found at i:98250650 original size:12 final size:13
Alignment explanation
Indices: 98250633--98250703 Score: 56
Period size: 14 Copynumber: 5.3 Consensus size: 13
98250623 ATTATGTACT
98250633 AAAAT-AATATAA
1 AAAATAAATATAA
98250645 AAAATAAAATATAAA
1 AAAAT-AAATAT-AA
*
98250660 AAAATAAATTTTAA
1 AAAATAAA-TATAA
**
98250674 AAAATAAA-ATCCG
1 AAAATAAATAT-AA
*
98250687 AAAATAAAAATAA
1 AAAATAAATATAA
98250700 AAAA
1 AAAA
98250704 GGCCAAAATC
Statistics
Matches: 47, Mismatches: 6, Indels: 11
0.73 0.09 0.17
Matches are distributed among these distances:
12 6 0.13
13 12 0.26
14 20 0.43
15 9 0.19
ACGTcount: A:0.75, C:0.03, G:0.01, T:0.21
Consensus pattern (13 bp):
AAAATAAATATAA
Found at i:98250657 original size:14 final size:14
Alignment explanation
Indices: 98250638--98250683 Score: 65
Period size: 14 Copynumber: 3.2 Consensus size: 14
98250628 GTACTAAAAT
98250638 AATATAAAAAATAA
1 AATATAAAAAATAA
98250652 AATATAAAAAAATAA
1 AATAT-AAAAAATAA
* *
98250667 ATTTTAAAAAATAA
1 AATATAAAAAATAA
98250681 AAT
1 AAT
98250684 CCGAAAATAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
14 16 0.57
15 12 0.43
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (14 bp):
AATATAAAAAATAA
Found at i:98250663 original size:15 final size:15
Alignment explanation
Indices: 98250632--98250683 Score: 61
Period size: 14 Copynumber: 3.4 Consensus size: 15
98250622 CATTATGTAC
98250632 TAAAATAATATAAAAAA
1 TAAAAT-ATA-AAAAAA
98250649 TAAAATATAAAAAAA
1 TAAAATATAAAAAAA
* *
98250664 T-AAATTTTAAAAAA
1 TAAAATATAAAAAAA
98250678 TAAAAT
1 TAAAAT
98250684 CCGAAAATAA
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
14 12 0.38
15 11 0.34
16 3 0.09
17 6 0.19
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (15 bp):
TAAAATATAAAAAAA
Found at i:98250709 original size:140 final size:140
Alignment explanation
Indices: 98250118--98250947 Score: 1078
Period size: 140 Copynumber: 5.9 Consensus size: 140
98250108 TATATTTTAA
* *
98250118 AAAATCCGAAAAT-AAAATAAAAAAGGCCAAAATCAGAGGTTTTTTACTAAATTAATATAAATAT
1 AAAATCCGAAAATAAAAATAAAAAAGGCCAAAATCAGA-GATTTTTACTAAATTAATATAAA-AA
* *
98250182 ACTAAAATAATATATATGAAATATTATGTACTAAAATAATA-AAAAAATAAAATACGAAAATAGT
64 ACTAAAAT-A-ATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGT
*
98250246 ATATTTTGAAAAAT
127 ATATTTTAAAAAAT
* * * *
98250260 AAAATCCGAAAATCAAATAAAAAACAAACGGCTAAAATTAGAAATTTTTACTAAATTAATATAAA
1 AAAATCCGAAAAT-AAA-AATAAA-AAA-GGCCAAAATCAGAGATTTTTACTAAATTAATAT-AA
*
98250325 AAAACCAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
61 AAAACTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAAT
*
98250390 AGTATATTTT--TAAA-
124 AGTATATTTTAAAAAAT
* * *
98250404 AAAATCCGAAAA-CAAAATAAAAAAAAGCCAAAATCACAGATTTTTACTAAATTAATAT-AAAAA
1 AAAATCCGAAAATAAAAAT-AAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAA
* * *
98250467 CAAAAATAATACATGGAACATTATGTACTAAAATAATAT---AAA-AAAATACGAAAATAATATA
65 CTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA
*
98250528 TCTTAAAAAAT
130 TTTTAAAAAAT
* * * * *
98250539 AAAATCCAAAAATAAAAATAAAAAGGGCCAAAATCAGGGTTTTTTTCTAAATTAATATAAAAAAA
1 AAAATCCGAAAATAAAAATAAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATAT-AAAAAA
* * * *
98250604 CTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATA-TAAAAAAATAAA
65 CTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATA
98250668 TTTTAAAAAAT
130 TTTTAAAAAAT
* *
98250679 AAAATCCGAAAATAAAAATAAAAAAGGCCAAAATCAGAGTTTTTTTTCTAAATTAATATAAAAAA
1 AAAATCCGAAAATAAAAATAAAAAAGGCCAAAATCAGAG-ATTTTTACTAAATTAATATAAAAAA
98250744 CTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATACGAAAATAGT
65 CTAAAATAATACA--TGAAACATTATGTACTAAAATAATATAAAA-AATAAAATACGAAAATAGT
98250809 ATATTTTAAAAAAT
127 ATATTTTAAAAAAT
* * *
98250823 AAAATCCGAAAA-CAAAATAAATAAAACGGCCAAAATCACAAATTTTTACTAAATTAATATAAAA
1 AAAATCCGAAAATAAAAAT-AA-AAAA-GGCCAAAATCAGAGATTTTTACTAAATTAATATAAAA
98250887 AACTAAAATAATACATGAAACATTATGTACTAAAATAATAT-AAAAATAAAAT-CTGAAAATA
63 AACTAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATAC-GAAAATA
98250948 AAAAATAAAA
Statistics
Matches: 611, Mismatches: 48, Indels: 59
0.85 0.07 0.08
Matches are distributed among these distances:
132 21 0.03
133 3 0.00
134 3 0.00
135 44 0.07
136 30 0.05
137 42 0.07
138 17 0.03
140 106 0.17
141 45 0.07
142 51 0.08
143 40 0.07
144 51 0.08
145 49 0.08
146 65 0.11
147 44 0.07
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.27
Consensus pattern (140 bp):
AAAATCCGAAAATAAAAATAAAAAAGGCCAAAATCAGAGATTTTTACTAAATTAATATAAAAAAC
TAAAATAATACATGAAACATTATGTACTAAAATAATATAAAAAATAAAATACGAAAATAGTATAT
TTTAAAAAAT
Found at i:98250978 original size:256 final size:254
Alignment explanation
Indices: 98250671--98251203 Score: 851
Period size: 251 Copynumber: 2.1 Consensus size: 254
98250661 AAATAAATTT
*
98250671 TAAAAAATAAAATCCGAAAAT-AAAAATAAAAAAGGCCAAAATCAGAGTTTTTTTTCTAAATTAA
1 TAAAAAATAAAAT-CGAAAATAAAAAATAAAAAAGGCCAAAATCAGAGTTTTTGTTCTAAATTAA
*
98250735 TATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAGAATAAAATAC
65 TAT---AAA--AAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATAC
*
98250800 GAAAATAGTATATTTTAAAAAATAAAATCCGAAAACAAAAT-AAATA-AAACGGCCAAAATCACA
125 GAAAATAGTATATTTTAAAAAATAAAATCCGAAAACAAAATAAAAAATAAACGGCCAAAATCACA
98250863 AATTTTTACTAAATTAATATAAAAAACTAAAATAATACA-TGAAACATTATGTACTAAAATAATA
190 AATTTTTACTAAATTAATATAAAAAACTAAAATAATACATTGAAACATTATGTACTAAAATAATA
*
98250927 T-AAAAATAAAATCTGAAAATAAAAAATAAAAACGGCCAAAATCAGAGTTTTTGTTCTAAATTAA
1 TAAAAAATAAAATC-GAAAATAAAAAATAAAAAAGGCCAAAATCAGAGTTTTTGTTCTAAATTAA
98250991 TATAAAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAA
65 TATAAAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAA
* * * * *
98251056 TAGTATATTTTAAAAAATAAAATCTGAAAATAAAATAAAAAATAAACGGCCAAAATTAGAATTTT
130 TAGTATATTTTAAAAAATAAAATCCGAAAACAAAATAAAAAATAAACGGCCAAAATCACAAATTT
* *
98251121 TTATTAAATTAATATAAAAAACTAAAATAATACATTTGGAACATTATGTACTAAAATAATA
195 TTACTAAATTAATATAAAAAACTAAAATAATACA-TTGAAACATTATGTACTAAAATAATA
98251182 TAAAAAATAAAATACGAAAATA
1 TAAAAAATAAAAT-CGAAAATA
98251204 GTATATTTTA
Statistics
Matches: 258, Mismatches: 11, Indels: 16
0.91 0.04 0.06
Matches are distributed among these distances:
251 92 0.36
252 4 0.02
253 55 0.21
254 1 0.00
255 42 0.16
256 63 0.24
257 1 0.00
ACGTcount: A:0.58, C:0.08, G:0.06, T:0.27
Consensus pattern (254 bp):
TAAAAAATAAAATCGAAAATAAAAAATAAAAAAGGCCAAAATCAGAGTTTTTGTTCTAAATTAAT
ATAAAAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAATACGAAAAT
AGTATATTTTAAAAAATAAAATCCGAAAACAAAATAAAAAATAAACGGCCAAAATCACAAATTTT
TACTAAATTAATATAAAAAACTAAAATAATACATTGAAACATTATGTACTAAAATAATA
Found at i:98251055 original size:110 final size:108
Alignment explanation
Indices: 98250815--98251057 Score: 307
Period size: 110 Copynumber: 2.2 Consensus size: 108
98250805 TAGTATATTT
*
98250815 TAAAAAATAAAATCCGAAAACAAAATAAATAAAACGGCCAAAATCACAAATTTTTACTAAATTAA
1 TAAAAAATAAAAT-CGAAAATAAAATAAATAAAACGGCCAAAATCACAAATTTTTACTAAATTAA
98250880 TATAAAAAACTAAAATAATACATGAAACATTATGTACTAAAATAATA
65 TAT--AAAAC-AAAATAATACATGAAACATTATGTACTAAAATAATA
* ** *
98250927 T-AAAAATAAAATCTGAAAAT-AAA-AAATAAAAACGGCCAAAATCAGAGTTTTTGTTCTAAATT
1 TAAAAAATAAAATC-GAAAATAAAATAAAT-AAAACGGCCAAAATCACAAATTTT-TACTAAATT
98250989 AATAT-AAA-AAAATAATACATTTGAAACATTATGTACTAAAATAATA
63 AATATAAAACAAAATAATACA--TGAAACATTATGTACTAAAATAATA
98251035 TAAAAAAATAAAATACGAAAATA
1 T-AAAAAATAAAAT-CGAAAATA
98251058 GTATATTTTA
Statistics
Matches: 117, Mismatches: 5, Indels: 19
0.83 0.04 0.13
Matches are distributed among these distances:
106 11 0.09
108 29 0.25
109 4 0.03
110 42 0.36
111 30 0.26
112 1 0.01
ACGTcount: A:0.59, C:0.09, G:0.06, T:0.26
Consensus pattern (108 bp):
TAAAAAATAAAATCGAAAATAAAATAAATAAAACGGCCAAAATCACAAATTTTTACTAAATTAAT
ATAAAACAAAATAATACATGAAACATTATGTACTAAAATAATA
Found at i:98251201 original size:25 final size:25
Alignment explanation
Indices: 98251173--98251247 Score: 78
Period size: 30 Copynumber: 2.8 Consensus size: 25
98251163 ATTATGTACT
98251173 AAAATAATATAAAAAATAAAATACGA
1 AAAATAATATAAAAAATAAAATAC-A
* *
98251199 AAATAGTATATTTTAAAAAATAAAATCCA
1 AAA-A-TA-A-TATAAAAAATAAAATACA
*
98251228 AAAATAAAATAAAAAATAAA
1 AAAATAATATAAAAAATAAA
98251248 CGGCCAAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 9
0.76 0.07 0.17
Matches are distributed among these distances:
25 11 0.27
26 4 0.10
27 3 0.07
28 3 0.07
29 5 0.12
30 15 0.37
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.23
Consensus pattern (25 bp):
AAAATAATATAAAAAATAAAATACA
Found at i:98251215 original size:146 final size:146
Alignment explanation
Indices: 98250928--98251540 Score: 879
Period size: 146 Copynumber: 4.2 Consensus size: 146
98250918 AAAATAATAT
*
98250928 AAAAATAAAATCTGAAAAT-AAA-AAATAA-AAACGGCCAAAATCAGAGTTTTTGT-TCTAAATT
1 AAAAATAAAATCTGAAAATAAAATAAAAAATAAACGGCCAAAATCAGAGTTTTT-TAT-TAAATT
98250989 AATAT---AAA--AAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAAATAAAAT
64 AATATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATAT-AAAAAATAAAAT
98251049 ACGAAAATAGTATATTTTA
128 ACGAAAATAGTATATTTTA
* *
98251068 AAAAATAAAATCTGAAAATAAAATAAAAAATAAACGGCCAAAATTAGAATTTTTTATTAAATTAA
1 AAAAATAAAATCTGAAAATAAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTTATTAAATTAA
*
98251133 TATAAAAAACTAAAATAATACATTTGGAACATTATGTACTAAAATAATATAAAAAATAAAATACG
66 TATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACG
98251198 AAAATAGTATATTTTA
131 AAAATAGTATATTTTA
**
98251214 AAAAATAAAATCCAAAAATAAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTTATTAAATTAA
1 AAAAATAAAATCTGAAAATAAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTTATTAAATTAA
* * *
98251279 TAAAAAAAACTAAAATAATACAATTGGAACATTATGTACTAAAATAATATAAAAAATAAAATACG
66 TATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACG
*
98251344 AAAATAGTATATTTTC
131 AAAATAGTATATTTTA
** *
98251360 AAAAATAAAATCCAAAAATAAAAT-AAAAATAAACGGCCAAAATAAGAGTTTTTCTGTTTTTTAT
1 AAAAATAAAATCTGAAAATAAAATAAAAAATAAACGGCCAAAATCAGA--------GTTTTTTAT
**
98251424 TAAATTAATATAAAAAAACTAAAATAATACATTTGAAACATTATGCGCTAAAATAATAT-AAAAA
58 TAAATTAATAT-AAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAA
*
98251488 TAAAATACGAAAATAATATATTTTA
122 TAAAATACGAAAATAGTATATTTTA
*
98251513 AAAATTTAAAATCTGAAAATAAAATAAA
1 AAAA-ATAAAATCTGAAAATAAAATAAA
98251541 TACCAAAATA
Statistics
Matches: 431, Mismatches: 22, Indels: 25
0.90 0.05 0.05
Matches are distributed among these distances:
140 19 0.04
141 3 0.01
142 17 0.04
143 22 0.05
145 25 0.06
146 194 0.45
147 38 0.09
153 51 0.12
154 60 0.14
155 2 0.00
ACGTcount: A:0.58, C:0.07, G:0.06, T:0.29
Consensus pattern (146 bp):
AAAAATAAAATCTGAAAATAAAATAAAAAATAAACGGCCAAAATCAGAGTTTTTTATTAAATTAA
TATAAAAAACTAAAATAATACATTTGAAACATTATGTACTAAAATAATATAAAAAATAAAATACG
AAAATAGTATATTTTA
Found at i:98251232 original size:13 final size:12
Alignment explanation
Indices: 98251212--98251247 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
98251202 TAGTATATTT
98251212 TAAAAAATAAAA
1 TAAAAAATAAAA
*
98251224 TCCAAAAATAAAA
1 T-AAAAAATAAAA
98251237 TAAAAAATAAA
1 TAAAAAATAAA
98251248 CGGCCAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
12 10 0.48
13 11 0.52
ACGTcount: A:0.78, C:0.06, G:0.00, T:0.17
Consensus pattern (12 bp):
TAAAAAATAAAA
Found at i:98251377 original size:13 final size:12
Alignment explanation
Indices: 98251358--98251392 Score: 54
Period size: 13 Copynumber: 2.9 Consensus size: 12
98251348 TAGTATATTT
98251358 TCAAAAATAAAA
1 TCAAAAATAAAA
98251370 TCCAAAAATAAAA
1 T-CAAAAATAAAA
98251383 T-AAAAATAAA
1 TCAAAAATAAA
98251393 CGGCCAAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 9 0.41
12 1 0.05
13 12 0.55
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (12 bp):
TCAAAAATAAAA
Found at i:98262788 original size:17 final size:17
Alignment explanation
Indices: 98262768--98262802 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
98262758 CAATATCTTT
98262768 AAGAGATAAATATTAAA
1 AAGAGATAAATATTAAA
98262785 AAGAGATAAATATTAAA
1 AAGAGATAAATATTAAA
98262802 A
1 A
98262803 TTATACATTA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (17 bp):
AAGAGATAAATATTAAA
Found at i:98265523 original size:12 final size:12
Alignment explanation
Indices: 98265508--98265555 Score: 60
Period size: 12 Copynumber: 3.8 Consensus size: 12
98265498 TTAATGGCAA
98265508 TGTTAACATGGC
1 TGTTAACATGGC
*
98265520 TGTTAACATACGCC
1 TGTTAACAT--GGC
98265534 ATGTTAACATGGC
1 -TGTTAACATGGC
98265547 TGTTAACAT
1 TGTTAACAT
98265556 ACGCCATGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 18 0.58
13 2 0.06
14 2 0.06
15 9 0.29
ACGTcount: A:0.29, C:0.19, G:0.19, T:0.33
Consensus pattern (12 bp):
TGTTAACATGGC
Found at i:98265537 original size:27 final size:27
Alignment explanation
Indices: 98265507--98265570 Score: 128
Period size: 27 Copynumber: 2.4 Consensus size: 27
98265497 TTTAATGGCA
98265507 ATGTTAACATGGCTGTTAACATACGCC
1 ATGTTAACATGGCTGTTAACATACGCC
98265534 ATGTTAACATGGCTGTTAACATACGCC
1 ATGTTAACATGGCTGTTAACATACGCC
98265561 ATGTTAACAT
1 ATGTTAACAT
98265571 CGATTTGTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.31
Consensus pattern (27 bp):
ATGTTAACATGGCTGTTAACATACGCC
Found at i:98265540 original size:15 final size:15
Alignment explanation
Indices: 98265520--98265570 Score: 72
Period size: 15 Copynumber: 3.6 Consensus size: 15
98265510 TTAACATGGC
98265520 TGTTAACATACGCCA
1 TGTTAACATACGCCA
*
98265535 TGTTAACAT--GGC-
1 TGTTAACATACGCCA
98265547 TGTTAACATACGCCA
1 TGTTAACATACGCCA
98265562 TGTTAACAT
1 TGTTAACAT
98265571 CGATTTGTTG
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
12 9 0.29
13 2 0.06
14 2 0.06
15 18 0.58
ACGTcount: A:0.31, C:0.22, G:0.16, T:0.31
Consensus pattern (15 bp):
TGTTAACATACGCCA
Found at i:98265595 original size:41 final size:40
Alignment explanation
Indices: 98265546--98265622 Score: 109
Period size: 41 Copynumber: 1.9 Consensus size: 40
98265536 GTTAACATGG
*
98265546 CTGTTAACATACGCCATGTTAACATCGATTTGTTGACGTAA
1 CTGTTAACAAACGCCATGTTAACATCGA-TTGTTGACGTAA
* * *
98265587 CTGTTAACAAATGCCATGTTAGCATTGATTGTTGAC
1 CTGTTAACAAACGCCATGTTAACATCGATTGTTGAC
98265623 TTGACATTAT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
40 8 0.25
41 24 0.75
ACGTcount: A:0.29, C:0.18, G:0.18, T:0.35
Consensus pattern (40 bp):
CTGTTAACAAACGCCATGTTAACATCGATTGTTGACGTAA
Found at i:98266067 original size:27 final size:28
Alignment explanation
Indices: 98266037--98266100 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
98266027 AAATAAACTA
98266037 TTTTTATAAATTTTATAA-AA-TATTATT
1 TTTTTATAAA-TTTATAATAATTATTATT
* * *
98266064 TTTTAATTAATTTATAATAATTTTTATT
1 TTTTTATAAATTTATAATAATTATTATT
98266092 TTTTTATAA
1 TTTTTATAA
98266101 TTTCAGATTG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
26 7 0.23
27 10 0.33
28 13 0.43
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (28 bp):
TTTTTATAAATTTATAATAATTATTATT
Found at i:98266101 original size:27 final size:25
Alignment explanation
Indices: 98266037--98266103 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 25
98266027 AAATAAACTA
98266037 TTTTTATAAATTTTATAAAATATTATT
1 TTTTTAT-AA-TTTATAAAATATTATT
* *
98266064 TTTTAATTAATTTATAATAATTTTTATT
1 TTTTTA-TAATTTATAA-AA-TATTATT
98266092 TTTTTATAATTT
1 TTTTTATAATTT
98266104 CAGATTGTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
26 7 0.21
27 15 0.44
28 12 0.35
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (25 bp):
TTTTTATAATTTATAAAATATTATT
Found at i:98275058 original size:25 final size:25
Alignment explanation
Indices: 98275024--98275071 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
98275014 CTCGAACCCA
98275024 CGTCCTCTTGTATTAGCAACAATAT
1 CGTCCTCTTGTATTAGCAACAATAT
98275049 CGTCCTCTTGTATTAGCAACAAT
1 CGTCCTCTTGTATTAGCAACAAT
98275072 GTCCATGCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.27, C:0.25, G:0.12, T:0.35
Consensus pattern (25 bp):
CGTCCTCTTGTATTAGCAACAATAT
Found at i:98283267 original size:29 final size:30
Alignment explanation
Indices: 98283235--98283304 Score: 72
Period size: 30 Copynumber: 2.3 Consensus size: 30
98283225 GTCAATAATT
*
98283235 TATAAAATTTG-AATCAAATCAAA-TTTTCA
1 TATAAAATTTGCAA-AAAATCAAAGTTTTCA
* *
98283264 TATATAAAATTGCAAAAAATCAAAGTTTTTA
1 TATA-AAATTTGCAAAAAATCAAAGTTTTCA
*
98283295 TATAATATTT
1 TATAAAATTT
98283305 ATCTCAAATT
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
29 4 0.12
30 18 0.55
31 11 0.33
ACGTcount: A:0.49, C:0.07, G:0.04, T:0.40
Consensus pattern (30 bp):
TATAAAATTTGCAAAAAATCAAAGTTTTCA
Found at i:98283656 original size:21 final size:19
Alignment explanation
Indices: 98283616--98283658 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
98283606 TTATAATTAA
*
98283616 TTAAAATATTTTTCTTTTT
1 TTAAAATATTTTACTTTTT
* *
98283635 TTAAAATATATTTAGTTATT
1 TTAAAATAT-TTTACTTTTT
98283655 TTAA
1 TTAA
98283659 TTAAAATAAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.60
Consensus pattern (19 bp):
TTAAAATATTTTACTTTTT
Found at i:98284346 original size:40 final size:41
Alignment explanation
Indices: 98284302--98284388 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 41
98284292 TTTTACATTC
98284302 GCGGCGTTTTCAAT-AAAACACCGCAAAAAAC-AAAGCAATA
1 GCGGCGTTTTCAATCAAAACACCGCAAAAAACTAAAG-AATA
** * * *
98284342 GCGGCGTTTTTGATCAAAACGCCGCTAAAAACTGAAGAATA
1 GCGGCGTTTTCAATCAAAACACCGCAAAAAACTAAAGAATA
98284383 GCGGCG
1 GCGGCG
98284389 CTTCTGGAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
40 12 0.30
41 25 0.62
42 3 0.08
ACGTcount: A:0.39, C:0.22, G:0.22, T:0.17
Consensus pattern (41 bp):
GCGGCGTTTTCAATCAAAACACCGCAAAAAACTAAAGAATA
Found at i:98284429 original size:82 final size:83
Alignment explanation
Indices: 98284340--98284734 Score: 424
Period size: 82 Copynumber: 4.8 Consensus size: 83
98284330 AACAAAGCAA
* * * * ** *
98284340 TAGCGGCGTTTTTGATCAAAACGCCGCTAAAAACT-GAAG-AATAGCGGCGCTTCTGGAAAAACG
1 TAGCGGCGCTTTTG-TAAAAACGCCGCTAAAAGCTAGAGGTTTTAGCGGCGCTTTTGGAAAAACG
*
98284403 CCGCTATAGGTCGAGGTTT
65 CCGCTATAGGTAGAGGTTT
* * ** * * * * *
98284422 TAACGGCGCTTCTGGGAAAACGCTGCT-ATAGGTAGAGGTTTTAGCGGCGCCTTTGTAAAAACGC
1 TAGCGGCGCTTTTGTAAAAACGCCGCTAAAAGCTAGAGGTTTTAGCGGCGCTTTTGGAAAAACGC
* *
98284486 CGCTATAGATCGAGGTTT
66 CGCTATAGGTAGAGGTTT
* * * * * *
98284504 TAGCGGCGCTTCTGGAAAAACGCTGCTATATG-TAGAGGTTTTAGCGGCGCTTTTGTAAAAACGC
1 TAGCGGCGCTTTTGTAAAAACGCCGCTAAAAGCTAGAGGTTTTAGCGGCGCTTTTGGAAAAACGC
98284568 CGCTATAGGTAGAGGTTT
66 CGCTATAGGTAGAGGTTT
* * * *
98284586 TAGCGGCGCTTTTGTAAAAACGCCGCTATAGGC-CGATGTTTTAGCGGCGCTTTTGGAAAAACGC
1 TAGCGGCGCTTTTGTAAAAACGCCGCTAAAAGCTAGAGGTTTTAGCGGCGCTTTTGGAAAAACGC
*
98284650 CGTTATAGGTAGAGGTTT
66 CGCTATAGGTAGAGGTTT
* * * * *
98284668 TAGCGGCGCTTTTGTAAAAACGCCGCTATAGGC-CGATGTTTTAGCGGTGCTTTTGGAAAAACGC
1 TAGCGGCGCTTTTGTAAAAACGCCGCTAAAAGCTAGAGGTTTTAGCGGCGCTTTTGGAAAAACGC
98284732 CGC
66 CGC
98284735 AAAAAAGTAA
Statistics
Matches: 275, Mismatches: 34, Indels: 8
0.87 0.11 0.03
Matches are distributed among these distances:
80 3 0.01
81 13 0.05
82 258 0.94
83 1 0.00
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (83 bp):
TAGCGGCGCTTTTGTAAAAACGCCGCTAAAAGCTAGAGGTTTTAGCGGCGCTTTTGGAAAAACGC
CGCTATAGGTAGAGGTTT
Found at i:98284436 original size:41 final size:41
Alignment explanation
Indices: 98284381--98284734 Score: 492
Period size: 41 Copynumber: 8.6 Consensus size: 41
98284371 AACTGAAGAA
* *
98284381 TAGCGGCGCTTCTGGAAAAACGCCGCTATAGGTCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
* * * *
98284422 TAACGGCGCTTCTGGGAAAACGCTGCTATAGGTAGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
* * * *
98284463 TAGCGGCGCCTTTGTAAAAACGCCGCTATAGATCGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
* * *
98284504 TAGCGGCGCTTCTGGAAAAACGCTGCTATATGTAGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
*
98284545 TAGCGGCGCTTTTGTAAAAACGCCGCTATAGGTAGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
* ** *
98284586 TAGCGGCGCTTTTGTAAAAACGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
*
98284627 TAGCGGCGCTTTTGGAAAAACGCCGTTATAGGTAGAGGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
* ** *
98284668 TAGCGGCGCTTTTGTAAAAACGCCGCTATAGGCCGATGTTT
1 TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
*
98284709 TAGCGGTGCTTTTGGAAAAACGCCGC
1 TAGCGGCGCTTTTGGAAAAACGCCGC
98284735 AAAAAAGTAA
Statistics
Matches: 275, Mismatches: 38, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 275 1.00
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.28
Consensus pattern (41 bp):
TAGCGGCGCTTTTGGAAAAACGCCGCTATAGGTAGAGGTTT
Found at i:98285069 original size:18 final size:18
Alignment explanation
Indices: 98285040--98285090 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
98285030 TTGTCCCTTG
98285040 TTATATATATATATTAA-A
1 TTATA-ATATATATTAAGA
*
98285058 CTTCTAATATATATTAAGA
1 -TTATAATATATATTAAGA
98285077 TTATAATATATATT
1 TTATAATATATATT
98285091 TAGGGTGTAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 24 0.83
19 5 0.17
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.49
Consensus pattern (18 bp):
TTATAATATATATTAAGA
Found at i:98285527 original size:15 final size:15
Alignment explanation
Indices: 98285507--98285541 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
98285497 GATTTTAATG
*
98285507 TATAAGATAAATGTA
1 TATAAGATAAATATA
98285522 TATAAGATAAATATA
1 TATAAGATAAATATA
98285537 TATAA
1 TATAA
98285542 ATTATTATTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.57, C:0.00, G:0.09, T:0.34
Consensus pattern (15 bp):
TATAAGATAAATATA
Found at i:98285580 original size:24 final size:23
Alignment explanation
Indices: 98285513--98285580 Score: 64
Period size: 24 Copynumber: 2.8 Consensus size: 23
98285503 AATGTATAAG
* *
98285513 ATAAATGTATATAAGATAAATATAT
1 ATAAAT-TATATATGA-AAAAATAT
* *
98285538 ATAAATTATTATTTTAAAAAATAT
1 ATAAATTA-TATATGAAAAAATAT
98285562 ATAAATATATATATGAAAA
1 ATAAAT-TATATATGAAAA
98285581 GTGGTTTAGT
Statistics
Matches: 35, Mismatches: 6, Indels: 5
0.76 0.13 0.11
Matches are distributed among these distances:
24 23 0.66
25 12 0.34
ACGTcount: A:0.57, C:0.00, G:0.04, T:0.38
Consensus pattern (23 bp):
ATAAATTATATATGAAAAAATAT
Found at i:98289085 original size:24 final size:23
Alignment explanation
Indices: 98289058--98289125 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 23
98289048 ATTATTATTG
*
98289058 AAATATTCTCATCCGTTTTATCAC
1 AAATATTATC-TCCGTTTTATCAC
*
98289082 AAATATTATTCTCCGTTTTATTAC
1 AAATATTA-TCTCCGTTTTATCAC
98289106 AAATATTATCGTCCGTTTTA
1 AAATATTATC-TCCGTTTTA
98289126 CCATTTAAGT
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
23 2 0.05
24 36 0.90
25 2 0.05
ACGTcount: A:0.29, C:0.19, G:0.06, T:0.46
Consensus pattern (23 bp):
AAATATTATCTCCGTTTTATCAC
Found at i:98289346 original size:15 final size:15
Alignment explanation
Indices: 98289302--98289357 Score: 73
Period size: 15 Copynumber: 3.8 Consensus size: 15
98289292 AACGACATGT
98289302 ATATTATTTAATTAAA
1 ATATTATTTAATT-AA
98289318 ATAATT-TTT-A-TAA
1 AT-ATTATTTAATTAA
98289331 ATATTATTTAATTAA
1 ATATTATTTAATTAA
98289346 ATATTATTTAAT
1 ATATTATTTAAT
98289358 CCCGCTACTT
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
12 3 0.08
13 7 0.19
14 2 0.06
15 16 0.44
16 5 0.14
17 3 0.08
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (15 bp):
ATATTATTTAATTAA
Found at i:98289474 original size:9 final size:9
Alignment explanation
Indices: 98289462--98289678 Score: 125
Period size: 9 Copynumber: 23.6 Consensus size: 9
98289452 TATTTGATAT
*
98289462 CATAATTTA
1 CATAACTTA
98289471 CATAACTTA
1 CATAACTTA
* *
98289480 TATAACATA
1 CATAACTTA
*
98289489 TATAACTTA
1 CATAACTTA
98289498 CATAACTTA
1 CATAACTTA
* *
98289507 TATAACATA
1 CATAACTTA
98289516 CATAACTTA
1 CATAACTTA
*
98289525 TATAACTTA
1 CATAACTTA
* *
98289534 GATAA-ATA
1 CATAACTTA
*
98289542 TATAACTTA
1 CATAACTTA
98289551 CATAACTTA
1 CATAACTTA
*
98289560 CATAATATTTA
1 CAT-A-ACTTA
* *
98289571 AATATATTTTATA
1 CATA-A--CT-TA
*
98289584 TCATAATTTA
1 -CATAACTTA
98289594 CATAACTTA
1 CATAACTTA
98289603 CATAACTTA
1 CATAACTTA
*
98289612 TATAACTTA
1 CATAACTTA
* *
98289621 GATAA-ATA
1 CATAACTTA
* *
98289629 TATAATTTA
1 CATAACTTA
*
98289638 CATAA-ATA
1 CATAACTTA
* * *
98289646 TATATCATA
1 CATAACTTA
*
98289655 TCATAAATTA
1 -CATAACTTA
98289665 CATAACTTA
1 CATAACTTA
98289674 CATAA
1 CATAA
98289679 TACTTAAATA
Statistics
Matches: 165, Mismatches: 33, Indels: 20
0.76 0.15 0.09
Matches are distributed among these distances:
8 17 0.10
9 121 0.73
10 11 0.07
11 8 0.05
12 2 0.01
13 3 0.02
14 3 0.02
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (9 bp):
CATAACTTA
Found at i:98289484 original size:18 final size:18
Alignment explanation
Indices: 98289462--98289678 Score: 153
Period size: 18 Copynumber: 12.3 Consensus size: 18
98289452 TATTTGATAT
* *
98289462 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
* *
98289480 TATAACATATATAACTTA
1 CATAACTTATATAACTTA
*
98289498 CATAACTTATATAACATA
1 CATAACTTATATAACTTA
98289516 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* *
98289534 GATAA-ATATATAACTTA
1 CATAACTTATATAACTTA
* *
98289551 CATAACTTACATAATATTTA
1 CATAACTTATAT-A-ACTTA
* *
98289571 AATATA-TTTTAT-A--T-
1 CATA-ACTTATATAACTTA
* *
98289585 CATAATTTACATAACTTA
1 CATAACTTATATAACTTA
98289603 CATAACTTATATAACTTA
1 CATAACTTATATAACTTA
* * *
98289621 GATAA-ATATATAATTTA
1 CATAACTTATATAACTTA
* * *
98289638 CATAA-ATATATATCATA
1 CATAACTTATATAACTTA
* *
98289655 TCATAAATTACATAACTTA
1 -CATAACTTATATAACTTA
98289674 CATAA
1 CATAA
98289679 TACTTAAATA
Statistics
Matches: 155, Mismatches: 33, Indels: 22
0.74 0.16 0.10
Matches are distributed among these distances:
13 1 0.01
14 7 0.05
15 2 0.01
17 40 0.26
18 84 0.54
19 9 0.06
20 11 0.07
21 1 0.01
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (18 bp):
CATAACTTATATAACTTA
Found at i:98289666 original size:114 final size:114
Alignment explanation
Indices: 98289471--98289702 Score: 288
Period size: 114 Copynumber: 2.0 Consensus size: 114
98289461 TCATAATTTA
* * * * *
98289471 CATAACTTATATAACATATATAACTTACATAACTTATATAACATACATAACTTATATAACTTAGA
1 CATAACTTACATAACATACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGA
* * * *
98289536 TAAATATATAACTTACATAACTTACATAATATTTAAATATATTTTATAT
66 TAAATATATAAATTACATAACTTACATAATACTTAAATATATATCATAT
* * * * * *
98289585 CATAATTTACATAACTTACATAACTTATATAACTTAGATAA-ATATATAATTTACATAAA-TATA
1 CATAACTTACATAACATACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGA
*
98289648 TATCATATCATAAATTACATAACTTACATAATACTTAAATATATATCATAT
66 TA-AATAT-ATAAATTACATAACTTACATAATACTTAAATATATATCATAT
98289699 CATA
1 CATA
98289703 CATAACTAGT
Statistics
Matches: 100, Mismatches: 16, Indels: 4
0.83 0.13 0.03
Matches are distributed among these distances:
112 5 0.05
113 18 0.18
114 77 0.77
ACGTcount: A:0.48, C:0.12, G:0.01, T:0.39
Consensus pattern (114 bp):
CATAACTTACATAACATACATAACTTACATAACTTAGATAACATACATAACTTACATAAATTAGA
TAAATATATAAATTACATAACTTACATAATACTTAAATATATATCATAT
Found at i:98295739 original size:43 final size:43
Alignment explanation
Indices: 98295718--98295957 Score: 403
Period size: 43 Copynumber: 5.6 Consensus size: 43
98295708 AAAAAGCGCA
*
98295718 GCTAAAAGCCTTGACGTTTAGCGGCGC-TTTACCCACAAACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTA-CCACAAACGCC
*
98295761 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCC
98295804 GCTAAAAGCCTTGACCTTTAGCGGCGC-TTTACCCACAAACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTA-CCACAAACGCC
* *
98295847 GCTAAATGCCTTGACGTTTAGCGGCGCTTTTACCACAAACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCC
*
98295890 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTCCCACAAACGCC
1 GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCC
98295933 GCTAAAAGCCTTGACCTTTAGCGGC
1 GCTAAAAGCCTTGACCTTTAGCGGC
98295958 ATTTTTTCCA
Statistics
Matches: 186, Mismatches: 8, Indels: 6
0.93 0.04 0.03
Matches are distributed among these distances:
42 3 0.02
43 176 0.95
44 7 0.04
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (43 bp):
GCTAAAAGCCTTGACCTTTAGCGGCGCTTTTACCACAAACGCC
Found at i:98295921 original size:129 final size:129
Alignment explanation
Indices: 98295718--98295957 Score: 455
Period size: 129 Copynumber: 1.9 Consensus size: 129
98295708 AAAAAGCGCA
98295718 GCTAAAAGCCTTGACGTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAAGCCTTGACCTTTAGC
1 GCTAAAAGCCTTGACGTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAAGCCTTGACCTTTAGC
98295783 GGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCC
66 GGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCC
*
98295847 GCTAAATGCCTTGACGTTTAGCGGCGCTTTTA-CCACAAACGCCGCTAAAAGCCTTGACCTTTAG
1 GCTAAAAGCCTTGACGTTTAGCGGCGC-TTTACCCACAAACGCCGCTAAAAGCCTTGACCTTTAG
98295911 CGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGC
65 CGGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGC
98295958 ATTTTTTCCA
Statistics
Matches: 109, Mismatches: 1, Indels: 2
0.97 0.01 0.02
Matches are distributed among these distances:
129 105 0.96
130 4 0.04
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (129 bp):
GCTAAAAGCCTTGACGTTTAGCGGCGCTTTACCCACAAACGCCGCTAAAAGCCTTGACCTTTAGC
GGCGCTTTTCCCACAAACGCCGCTAAAAGCCTTGACCTTTAGCGGCGCTTTACCCACAAACGCC
Found at i:98296863 original size:16 final size:16
Alignment explanation
Indices: 98296842--98296875 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
98296832 TATTTGCAAG
98296842 ATACATCAATACTCCT
1 ATACATCAATACTCCT
98296858 ATACATCAATACTCCT
1 ATACATCAATACTCCT
98296874 AT
1 AT
98296876 GGCACTTAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.38, C:0.29, G:0.00, T:0.32
Consensus pattern (16 bp):
ATACATCAATACTCCT
Found at i:98299368 original size:24 final size:24
Alignment explanation
Indices: 98299336--98299394 Score: 109
Period size: 24 Copynumber: 2.5 Consensus size: 24
98299326 TTCTTTCCAC
98299336 ATTCAACATTTGTAACATATAGAT
1 ATTCAACATTTGTAACATATAGAT
*
98299360 ATTCAACATTTGTAATATATAGAT
1 ATTCAACATTTGTAACATATAGAT
98299384 ATTCAACATTT
1 ATTCAACATTT
98299395 TTCTCATTCA
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.41
Consensus pattern (24 bp):
ATTCAACATTTGTAACATATAGAT
Found at i:98311932 original size:19 final size:18
Alignment explanation
Indices: 98311894--98311931 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
98311884 CCCTAATGCA
*
98311894 TTATCTGTCTTGTTACTT
1 TTATCTGTCTTGCTACTT
98311912 TTATCTGTACTTGCTA-TT
1 TTATCTGT-CTTGCTACTT
98311930 TT
1 TT
98311932 TTTTCTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.13, C:0.16, G:0.11, T:0.61
Consensus pattern (18 bp):
TTATCTGTCTTGCTACTT
Found at i:98319100 original size:26 final size:26
Alignment explanation
Indices: 98319071--98319174 Score: 172
Period size: 26 Copynumber: 4.0 Consensus size: 26
98319061 TGGTACAAAT
98319071 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * *
98319097 TGATAATGGATTAGGTAAATATTTCA
1 TGATAATGGGTTAGGTAAATGTTCCA
98319123 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
98319149 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
98319175 AGATGGGAAT
Statistics
Matches: 71, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
26 71 1.00
ACGTcount: A:0.33, C:0.07, G:0.24, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:98338502 original size:591 final size:591
Alignment explanation
Indices: 98337381--98338561 Score: 2344
Period size: 591 Copynumber: 2.0 Consensus size: 591
98337371 TCTTACTTGA
98337381 GATCCTTTACCATTTGCCGTTCTGGACTCTGTAGAAATTACTGTTTGCATGAGATTCTGTATGTC
1 GATCCTTTACCATTTGCCGTTCTGGACTCTGTAGAAATTACTGTTTGCATGAGATTCTGTATGTC
98337446 ATTTCTAGAGTATACTTTAGGCTCAGGTGTACTAGGTAGCTCAAGTCTAGGAATTTGTGTTCGAC
66 ATTTCTAGAGTATACTTTAGGCTCAGGTGTACTAGGTAGCTCAAGTCTAGGAATTTGTGTTCGAC
98337511 AATCAGTCTTTAGTGCTTGCTTTTGGAAGGATGAACTAGTAGGGCTTTGATGAGGCTTAGAATGA
131 AATCAGTCTTTAGTGCTTGCTTTTGGAAGGATGAACTAGTAGGGCTTTGATGAGGCTTAGAATGA
98337576 TAAGCCTCCATCACTGAGCTGCCGTTGCTGAGATTCCCAAACTGTTTTGTAACTGCTTCTTCATC
196 TAAGCCTCCATCACTGAGCTGCCGTTGCTGAGATTCCCAAACTGTTTTGTAACTGCTTCTTCATC
98337641 TTGAAACTGACTGTATTTCTGTACGGATACTGTGCAAGCATGTAAAGACCTACTAACATCTGCTG
261 TTGAAACTGACTGTATTTCTGTACGGATACTGTGCAAGCATGTAAAGACCTACTAACATCTGCTG
98337706 ATACTTTTATCTGACTATTGTCCTCATTTCTTGAGCCTTCCGAGCTCAACCTCCTTGCCCGAGTT
326 ATACTTTTATCTGACTATTGTCCTCATTTCTTGAGCCTTCCGAGCTCAACCTCCTTGCCCGAGTT
98337771 ATAGAAGATGGAATTTTTGGTCCTCTCCTGTCTTCTGCATTCATTGCCTTCTCAGATTTCATGGT
391 ATAGAAGATGGAATTTTTGGTCCTCTCCTGTCTTCTGCATTCATTGCCTTCTCAGATTTCATGGT
98337836 GCTACCATTCTCAATGCTCAACCTTCGAGTACGTGGGGGAGTTTTCGCAATCGCTGCCATTTGTT
456 GCTACCATTCTCAATGCTCAACCTTCGAGTACGTGGGGGAGTTTTCGCAATCGCTGCCATTTGTT
98337901 TCTCAAATGGAGATTTAGGTTCTTTCATTTTGTATGAAGGTGTGCTCGGTGCTTCCTTATTTGCC
521 TCTCAAATGGAGATTTAGGTTCTTTCATTTTGTATGAAGGTGTGCTCGGTGCTTCCTTATTTGCC
98337966 AATGCT
586 AATGCT
98337972 GATCCTTTACCATTTGCCGTTCTGGACTCTGTAGAAATTACTGTTTGCATGAGATTCTGTATGTC
1 GATCCTTTACCATTTGCCGTTCTGGACTCTGTAGAAATTACTGTTTGCATGAGATTCTGTATGTC
98338037 ATTTCTAGAGTATACTTTAGGCTCAGGTGTACTAGGTAGCTCAAGTCTAGGAATTTGTGTTCGAC
66 ATTTCTAGAGTATACTTTAGGCTCAGGTGTACTAGGTAGCTCAAGTCTAGGAATTTGTGTTCGAC
98338102 AATCAGTCTTTAGTGCTTGCTTTTGGAAGGATGAACTAGTAGGGCTTTGATGAGGCTTAGAATGA
131 AATCAGTCTTTAGTGCTTGCTTTTGGAAGGATGAACTAGTAGGGCTTTGATGAGGCTTAGAATGA
98338167 TAAGCCTCCATCACTGAGCTGCCGTTGCTGAGATTCCCAAACTGTTTTGTAACTGCTTCTTCATC
196 TAAGCCTCCATCACTGAGCTGCCGTTGCTGAGATTCCCAAACTGTTTTGTAACTGCTTCTTCATC
*
98338232 TTGAAACTGACTGTATTTCTGTACGGATACTGTGCTAGCATGTAAAGACCTACTAACATCTGCTG
261 TTGAAACTGACTGTATTTCTGTACGGATACTGTGCAAGCATGTAAAGACCTACTAACATCTGCTG
*
98338297 ATACTTTTATCTGACTATTTTCCTCATTTCTTGAGCCTTCCGAGCTCAACCTCCTTGCCCGAGTT
326 ATACTTTTATCTGACTATTGTCCTCATTTCTTGAGCCTTCCGAGCTCAACCTCCTTGCCCGAGTT
98338362 ATAGAAGATGGAATTTTTGGTCCTCTCCTGTCTTCTGCATTCATTGCCTTCTCAGATTTCATGGT
391 ATAGAAGATGGAATTTTTGGTCCTCTCCTGTCTTCTGCATTCATTGCCTTCTCAGATTTCATGGT
98338427 GCTACCATTCTCAATGCTCAACCTTCGAGTACGTGGGGGAGTTTTCGCAATCGCTGCCATTTGTT
456 GCTACCATTCTCAATGCTCAACCTTCGAGTACGTGGGGGAGTTTTCGCAATCGCTGCCATTTGTT
98338492 TCTCAAATGGAGATTTAGGTTCTTTCATTTTGTATGAAGGTGTGCTCGGTGCTTCCTTATTTGCC
521 TCTCAAATGGAGATTTAGGTTCTTTCATTTTGTATGAAGGTGTGCTCGGTGCTTCCTTATTTGCC
98338557 AATGC
586 AATGC
98338562 CTTCTTGAGG
Statistics
Matches: 588, Mismatches: 2, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
591 588 1.00
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.37
Consensus pattern (591 bp):
GATCCTTTACCATTTGCCGTTCTGGACTCTGTAGAAATTACTGTTTGCATGAGATTCTGTATGTC
ATTTCTAGAGTATACTTTAGGCTCAGGTGTACTAGGTAGCTCAAGTCTAGGAATTTGTGTTCGAC
AATCAGTCTTTAGTGCTTGCTTTTGGAAGGATGAACTAGTAGGGCTTTGATGAGGCTTAGAATGA
TAAGCCTCCATCACTGAGCTGCCGTTGCTGAGATTCCCAAACTGTTTTGTAACTGCTTCTTCATC
TTGAAACTGACTGTATTTCTGTACGGATACTGTGCAAGCATGTAAAGACCTACTAACATCTGCTG
ATACTTTTATCTGACTATTGTCCTCATTTCTTGAGCCTTCCGAGCTCAACCTCCTTGCCCGAGTT
ATAGAAGATGGAATTTTTGGTCCTCTCCTGTCTTCTGCATTCATTGCCTTCTCAGATTTCATGGT
GCTACCATTCTCAATGCTCAACCTTCGAGTACGTGGGGGAGTTTTCGCAATCGCTGCCATTTGTT
TCTCAAATGGAGATTTAGGTTCTTTCATTTTGTATGAAGGTGTGCTCGGTGCTTCCTTATTTGCC
AATGCT
Found at i:98345767 original size:102 final size:102
Alignment explanation
Indices: 98345653--98345841 Score: 249
Period size: 107 Copynumber: 1.8 Consensus size: 102
98345643 CACAAGTTCA
*
98345653 TTTTTTTCATTTCAATTACAATGGTAAAATTTCAGTTTTGA-T-AGTTAAACTCAAATATAATG-
1 TTTTTTTCATTTCAATTACAATGGCAAAATTTCAGTTTTGACTCAGTTAAACTCAAATATAA-GA
98345715 TCTAATCTTTATATTTTTACGCTCTATTTTTTTCTTTT
65 TCTAATCTTTATATTTTTACGCTCTATTTTTTTCTTTT
* * * *
98345753 TTTTTTTGCTATTTCAATTATAATGGCAAAATTTTAGTTTTGATCCCTCTGTTAAACTCAAATTT
1 TTTTTTT-C-ATTTCAATTACAATGGCAAAATTTCAGTTTTGA---CTCAGTTAAACTCAAATAT
*
98345818 AAGATTTAATCTTTATATTTTTAC
61 AAGATCTAATCTTTATATTTTTAC
98345842 ACCCTTTTGT
Statistics
Matches: 75, Mismatches: 6, Indels: 9
0.83 0.07 0.10
Matches are distributed among these distances:
100 7 0.09
101 1 0.01
102 30 0.40
106 2 0.03
107 35 0.47
ACGTcount: A:0.29, C:0.12, G:0.07, T:0.52
Consensus pattern (102 bp):
TTTTTTTCATTTCAATTACAATGGCAAAATTTCAGTTTTGACTCAGTTAAACTCAAATATAAGAT
CTAATCTTTATATTTTTACGCTCTATTTTTTTCTTTT
Found at i:98365196 original size:10 final size:10
Alignment explanation
Indices: 98365181--98365209 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
98365171 AAGGAAAAAA
98365181 AAAGGGAAGG
1 AAAGGGAAGG
98365191 AAAGGGAAGG
1 AAAGGGAAGG
98365201 AAAGGGAAG
1 AAAGGGAAG
98365210 ACGAAAGAAA
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:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (10 bp):
AAAGGGAAGG
Found at i:98367612 original size:56 final size:55
Alignment explanation
Indices: 98367552--98367701 Score: 176
Period size: 56 Copynumber: 2.7 Consensus size: 55
98367542 ATGTAGAAAT
* * *
98367552 ATGAAACATTTAAAAATGATTAAAGTTTTCTCCAAAATGAAAATGAAAATAGAGAA
1 ATGAAACATTTAGAAATGAATAAGGTTTTCTCCAAAATGAAAATGAAAAT-GAGAA
* * ** *
98367608 ATGAAATCATTTAGAAGTTAATGTGGTTTTCTCCAAAATGGAAATGAAAATGAGAA
1 ATGAAA-CATTTAGAAATGAATAAGGTTTTCTCCAAAATGAAAATGAAAATGAGAA
* *
98367664 ATGAATTCATTTAGAAATGAATAAGGATTTCT-CAAAAT
1 ATGAA-ACATTTAGAAATGAATAAGGTTTTCTCCAAAAT
98367702 TGATCGTAAG
Statistics
Matches: 78, Mismatches: 14, Indels: 5
0.80 0.14 0.05
Matches are distributed among these distances:
55 6 0.08
56 36 0.46
57 36 0.46
ACGTcount: A:0.47, C:0.07, G:0.15, T:0.30
Consensus pattern (55 bp):
ATGAAACATTTAGAAATGAATAAGGTTTTCTCCAAAATGAAAATGAAAATGAGAA
Found at i:98375581 original size:24 final size:24
Alignment explanation
Indices: 98375553--98375604 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
98375543 TTAGTAGGTC
* *
98375553 AAATAAACTATGCTAATAAATGCT
1 AAATAAACTATACTAATAAATACT
* *
98375577 AAATATATTATACTAATAAATACT
1 AAATAAACTATACTAATAAATACT
98375601 AAAT
1 AAAT
98375605 CTTCTAGAAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.33
Consensus pattern (24 bp):
AAATAAACTATACTAATAAATACT
Found at i:98377455 original size:30 final size:29
Alignment explanation
Indices: 98377420--98377482 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 29
98377410 TTATATATGT
98377420 AATAGATTT-GAA-AACATAAATATGTATATA
1 AATAGATTTAGAAGAA-AT-AATATGTATA-A
*
98377450 AATAGATTTAGAAGAAATTATATGTATAA
1 AATAGATTTAGAAGAAATAATATGTATAA
98377479 AATA
1 AATA
98377483 ACATAGATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
29 5 0.17
30 18 0.60
31 5 0.17
32 2 0.07
ACGTcount: A:0.54, C:0.02, G:0.11, T:0.33
Consensus pattern (29 bp):
AATAGATTTAGAAGAAATAATATGTATAA
Found at i:98385635 original size:21 final size:21
Alignment explanation
Indices: 98385601--98385651 Score: 59
Period size: 22 Copynumber: 2.4 Consensus size: 21
98385591 AAGATAAAGA
*
98385601 TAAAATTAAACCCT-AAAACG
1 TAAAATAAAACCCTCAAAACG
*
98385621 TAAAATAAGAACCCTCAAAATG
1 TAAAATAA-AACCCTCAAAACG
98385643 TAAACATAA
1 TAAA-ATAA
98385652 TATTCTCTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 7 0.27
21 6 0.23
22 9 0.35
23 4 0.15
ACGTcount: A:0.57, C:0.18, G:0.06, T:0.20
Consensus pattern (21 bp):
TAAAATAAAACCCTCAAAACG
Found at i:98388488 original size:4 final size:4
Alignment explanation
Indices: 98388468--98388526 Score: 55
Period size: 4 Copynumber: 14.8 Consensus size: 4
98388458 GAATATGTAT
* * * * * *
98388468 GTGC GTGG GTGC ATGC GTGC GTGC GTGG GTGC ATGC ATAC GTGC GTGC
1 GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC GTGC
*
98388516 GTAC GTGC GTG
1 GTGC GTGC GTG
98388527 TATGTGTATA
Statistics
Matches: 43, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
4 43 1.00
ACGTcount: A:0.08, C:0.20, G:0.46, T:0.25
Consensus pattern (4 bp):
GTGC
Found at i:98388493 original size:20 final size:20
Alignment explanation
Indices: 98388468--98388514 Score: 76
Period size: 20 Copynumber: 2.4 Consensus size: 20
98388458 GAATATGTAT
* *
98388468 GTGCGTGGGTGCATGCGTGC
1 GTGCGTGGGTGCATGCATAC
98388488 GTGCGTGGGTGCATGCATAC
1 GTGCGTGGGTGCATGCATAC
98388508 GTGCGTG
1 GTGCGTG
98388515 CGTACGTGCG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.09, C:0.19, G:0.47, T:0.26
Consensus pattern (20 bp):
GTGCGTGGGTGCATGCATAC
Found at i:98389559 original size:29 final size:28
Alignment explanation
Indices: 98389502--98389560 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 28
98389492 TGAAAATGTC
*
98389502 AATTAGGGATTAAATTGAGAAAAGTATA
1 AATTAGGGATTAAATTGAGAAAAGAATA
* *
98389530 AATTGAGGGGTTAAATTGTGAAATA-AATA
1 AATT-AGGGATTAAATTGAGAAA-AGAATA
98389559 AA
1 AA
98389561 AAATATGGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
28 4 0.15
29 21 0.81
30 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.22, T:0.29
Consensus pattern (28 bp):
AATTAGGGATTAAATTGAGAAAAGAATA
Found at i:98397800 original size:30 final size:30
Alignment explanation
Indices: 98397764--98397824 Score: 97
Period size: 30 Copynumber: 2.0 Consensus size: 30
98397754 GAGTTTTCAG
*
98397764 GATCCACACGGGCATG-CCACATGCCTATGT
1 GATCCACACGGGCA-GACCACATGCCCATGT
98397794 GATCCACACGGGCAGACCACATGCCCATGT
1 GATCCACACGGGCAGACCACATGCCCATGT
98397824 G
1 G
98397825 CCAGCCCATG
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
29 1 0.03
30 28 0.97
ACGTcount: A:0.25, C:0.34, G:0.25, T:0.16
Consensus pattern (30 bp):
GATCCACACGGGCAGACCACATGCCCATGT
Found at i:98399221 original size:5 final size:5
Alignment explanation
Indices: 98399211--98399242 Score: 57
Period size: 5 Copynumber: 6.6 Consensus size: 5
98399201 GACTATTGTG
98399211 AAAAT AAAAT AAAAT AAAAT AAAAT -AAAT AAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA
98399243 GAACAAAAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 22 0.85
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
AAAAT
Found at i:98404969 original size:25 final size:25
Alignment explanation
Indices: 98404922--98404969 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
98404912 TCCGAGCTAA
*
98404922 TCAGGAAACTCATAAGAGTTTTTAC
1 TCAGGAAACTCATAAGAGCTTTTAC
*
98404947 TCAGGAAGCTCAT-AGAGCCTTTT
1 TCAGGAAACTCATAAGAG-CTTTT
98404970 TGATATCTCT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Consensus pattern (25 bp):
TCAGGAAACTCATAAGAGCTTTTAC
Found at i:98409483 original size:29 final size:29
Alignment explanation
Indices: 98409441--98409497 Score: 105
Period size: 29 Copynumber: 2.0 Consensus size: 29
98409431 GAAGTCGAAT
98409441 TTATAATGAAATTGGATTATTAGATACCC
1 TTATAATGAAATTGGATTATTAGATACCC
*
98409470 TTATAATGAAATTGGATTATTGGATACC
1 TTATAATGAAATTGGATTATTAGATACC
98409498 TTAGTGATTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
29 27 1.00
ACGTcount: A:0.37, C:0.09, G:0.16, T:0.39
Consensus pattern (29 bp):
TTATAATGAAATTGGATTATTAGATACCC
Found at i:98410243 original size:21 final size:21
Alignment explanation
Indices: 98410217--98410256 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
98410207 TTTGGGTGGA
98410217 TCAACTCTTACGAGCTTCTGT
1 TCAACTCTTACGAGCTTCTGT
*
98410238 TCAACTCTTATGAGCTTCT
1 TCAACTCTTACGAGCTTCT
98410257 ATTGGCGTGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.28, G:0.12, T:0.40
Consensus pattern (21 bp):
TCAACTCTTACGAGCTTCTGT
Found at i:98413490 original size:22 final size:22
Alignment explanation
Indices: 98413465--98413530 Score: 66
Period size: 22 Copynumber: 3.1 Consensus size: 22
98413455 AAAGCACATG
98413465 GGCGTGTGCATTGTCTCCACAC
1 GGCGTGTGCATTGTCTCCACAC
* ** *
98413487 GGCGTGTCCCAAAG-C-CCAC-G
1 GGCGTGT-GCATTGTCTCCACAC
98413507 GGCGTGTGCATTGTCTCCACAC
1 GGCGTGTGCATTGTCTCCACAC
98413529 GG
1 GG
98413531 GTATGTGAGA
Statistics
Matches: 32, Mismatches: 8, Indels: 8
0.67 0.17 0.17
Matches are distributed among these distances:
19 3 0.09
20 8 0.25
21 8 0.25
22 10 0.31
23 3 0.09
ACGTcount: A:0.15, C:0.33, G:0.30, T:0.21
Consensus pattern (22 bp):
GGCGTGTGCATTGTCTCCACAC
Found at i:98413501 original size:42 final size:42
Alignment explanation
Indices: 98413448--98413530 Score: 139
Period size: 42 Copynumber: 2.0 Consensus size: 42
98413438 GGACACGGGT
* *
98413448 GTGTCCTAAAGCACATGGGCGTGTGCATTGTCTCCACACGGC
1 GTGTCCCAAAGCACACGGGCGTGTGCATTGTCTCCACACGGC
*
98413490 GTGTCCCAAAGCCCACGGGCGTGTGCATTGTCTCCACACGG
1 GTGTCCCAAAGCACACGGGCGTGTGCATTGTCTCCACACGG
98413531 GTATGTGAGA
Statistics
Matches: 38, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 38 1.00
ACGTcount: A:0.18, C:0.31, G:0.29, T:0.22
Consensus pattern (42 bp):
GTGTCCCAAAGCACACGGGCGTGTGCATTGTCTCCACACGGC
Found at i:98416338 original size:46 final size:46
Alignment explanation
Indices: 98416271--98416361 Score: 164
Period size: 46 Copynumber: 2.0 Consensus size: 46
98416261 AAATTGTCAC
*
98416271 CCACGCTCATACAAGGATTCAAACACAAGACCTCTAGCAAGCTAAT
1 CCACGCTCATACAAAGATTCAAACACAAGACCTCTAGCAAGCTAAT
*
98416317 CCACGCTCATACAAAGATTCAAACACAAGACCTCTAGGAAGCTAA
1 CCACGCTCATACAAAGATTCAAACACAAGACCTCTAGCAAGCTAA
98416362 CTCCTTACCA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.41, C:0.30, G:0.13, T:0.16
Consensus pattern (46 bp):
CCACGCTCATACAAAGATTCAAACACAAGACCTCTAGCAAGCTAAT
Found at i:98424076 original size:25 final size:26
Alignment explanation
Indices: 98424048--98424108 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
98424038 CCCCCATCCC
*
98424048 TTCTTTCCCCCTC-T-TTCCCTTTCTT
1 TTCTTTCCCCCTCTTCTTCCCTTT-TA
*
98424073 TTCTTTTTCCCCTCTTCTTCCCTTTTA
1 TTC-TTTCCCCCTCTTCTTCCCTTTTA
98424100 TTCTTTCCC
1 TTCTTTCCC
98424109 TCCGAACACC
Statistics
Matches: 30, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
25 3 0.10
26 14 0.47
27 5 0.17
28 8 0.27
ACGTcount: A:0.02, C:0.41, G:0.00, T:0.57
Consensus pattern (26 bp):
TTCTTTCCCCCTCTTCTTCCCTTTTA
Found at i:98424084 original size:26 final size:27
Alignment explanation
Indices: 98424055--98424105 Score: 70
Period size: 27 Copynumber: 1.9 Consensus size: 27
98424045 CCCTTCTTTC
*
98424055 CCCCTC-T-TTCCCTTTCTTTTCTTTTT
1 CCCCTCTTCTTCCCTTT-TATTCTTTTT
98424081 CCCCTCTTCTTCCCTTTTATTCTTT
1 CCCCTCTTCTTCCCTTTTATTCTTT
98424106 CCCTCCGAAC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
26 6 0.27
27 8 0.36
28 8 0.36
ACGTcount: A:0.02, C:0.39, G:0.00, T:0.59
Consensus pattern (27 bp):
CCCCTCTTCTTCCCTTTTATTCTTTTT
Found at i:98425978 original size:6 final size:6
Alignment explanation
Indices: 98425963--98426010 Score: 64
Period size: 6 Copynumber: 8.3 Consensus size: 6
98425953 ATTGAGTCCA
* *
98425963 TTTATT TTTATG TTTATT TTTGTT TTTATT TTTA-T TTTA-T TTTATT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT
98426009 TT
1 TT
98426011 CCTCTTTTGA
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
5 10 0.27
6 27 0.73
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (6 bp):
TTTATT
Found at i:98429253 original size:18 final size:19
Alignment explanation
Indices: 98429227--98429271 Score: 74
Period size: 18 Copynumber: 2.4 Consensus size: 19
98429217 TACTTATACT
*
98429227 TTAAGTATAATATATT-TA
1 TTAATTATAATATATTATA
98429245 TTAATTATAATATATTATA
1 TTAATTATAATATATTATA
98429264 TTAATTAT
1 TTAATTAT
98429272 TAATTAATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
18 15 0.60
19 10 0.40
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTAATTATAATATATTATA
Found at i:98440029 original size:43 final size:43
Alignment explanation
Indices: 98439981--98440392 Score: 655
Period size: 43 Copynumber: 9.6 Consensus size: 43
98439971 CCGGCATTAC
98439981 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * * *
98440024 GCCTGCTAGGTACGAGGGCCCGAATACACATCACCAGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * *
98440067 GCCTGCTAGGCACGATGGCTCGAATATACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
98440110 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
98440153 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* * * * *
98440196 GCCTGCTAGGCACGAAGGCTCGAATATACATCACTGACATGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
98440239 GCCTGCTAGGCACAAAGG-TCGAATACACATCACCGGCACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
98440281 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
* *
98440324 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCAGTACGAA
1 GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
98440367 GCCTGCTAGGCACGAAGGCCCGAATA
1 GCCTGCTAGGCACGAAGGCCCGAATA
98440393 TAATACCAGC
Statistics
Matches: 341, Mismatches: 27, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
42 37 0.11
43 304 0.89
ACGTcount: A:0.31, C:0.32, G:0.25, T:0.12
Consensus pattern (43 bp):
GCCTGCTAGGCACGAAGGCCCGAATACACATCACCGGCACGAA
Found at i:98440438 original size:38 final size:38
Alignment explanation
Indices: 98440385--98440527 Score: 196
Period size: 38 Copynumber: 3.8 Consensus size: 38
98440375 GGCACGAAGG
* * * *
98440385 CCCGAATATAATACCAGCACTAGGCCTGCAGGATTTAT
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
* * *
98440423 CCCTGATATAATACCAGCACGAAGCCTACGGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
*
98440461 CCCGGATACAATACCAGCACGAAGCCTGCAGGATTTAA
1 CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
**
98440499 CCCGGATATTTTACCAGCACGAAGCCTGC
1 CCCGGATATAATACCAGCACGAAGCCTGC
98440528 GGGTCTTTAA
Statistics
Matches: 91, Mismatches: 14, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 91 1.00
ACGTcount: A:0.31, C:0.29, G:0.20, T:0.20
Consensus pattern (38 bp):
CCCGGATATAATACCAGCACGAAGCCTGCAGGATTTAA
Found at i:98440488 original size:76 final size:78
Alignment explanation
Indices: 98440384--98440548 Score: 217
Period size: 76 Copynumber: 2.1 Consensus size: 78
98440374 AGGCACGAAG
* * * * * *
98440384 GCCCGAATATAATACCAGCACTAGGCCTGCAGGATTTATCCCTGATATAATACCAGCACGAAGCC
1 GCCCGGATACAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGAAGCC
98440449 TACGGG-ATTTAA
66 TACGGGTATTTAA
**
98440461 -CCCGGATACAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATTTTACCAGCACGAAGCC
1 GCCCGGATACAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGAAGCC
* *
98440525 TGCGGGTCTTTAA
66 TACGGGTATTTAA
*
98440538 GCCCAGATACA
1 GCCCGGATACA
98440549 CATCAAATAT
Statistics
Matches: 75, Mismatches: 11, Indels: 3
0.84 0.12 0.03
Matches are distributed among these distances:
76 61 0.81
77 5 0.07
78 9 0.12
ACGTcount: A:0.31, C:0.28, G:0.21, T:0.21
Consensus pattern (78 bp):
GCCCGGATACAATACCAGCACGAAGCCTGCAGGATTTAACCCGGATATAATACCAGCACGAAGCC
TACGGGTATTTAA
Found at i:98446066 original size:14 final size:14
Alignment explanation
Indices: 98446047--98446073 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
98446037 AGAAAATTGT
98446047 AGGAAGGGAAGAAA
1 AGGAAGGGAAGAAA
98446061 AGGAAGGGAAGAA
1 AGGAAGGGAAGAA
98446074 TGACAGTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.56, C:0.00, G:0.44, T:0.00
Consensus pattern (14 bp):
AGGAAGGGAAGAAA
Found at i:98450010 original size:26 final size:26
Alignment explanation
Indices: 98449974--98450023 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
98449964 TGAAGGTGAT
98449974 CGTCTAAACCATTCTATTAAAACTGA
1 CGTCTAAACCATTCTATTAAAACTGA
98450000 CGTCTAAACCATTCTATTAAAACT
1 CGTCTAAACCATTCTATTAAAACT
98450024 AACCACATGA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.32
Consensus pattern (26 bp):
CGTCTAAACCATTCTATTAAAACTGA
Found at i:98460876 original size:38 final size:38
Alignment explanation
Indices: 98460815--98460934 Score: 154
Period size: 38 Copynumber: 3.1 Consensus size: 38
98460805 ATTTGATGTG
* *
98460815 TATCCGGGCTTAAAGACCCGCAGGCTATATGCTGGAATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTATGTGCTGGAATTA
98460855 TATCCGGGTTAAATCCCGCAGGCT-TCGTGCTGGAATTA
1 TATCCGGGTTAAATCCCGCAGGCTAT-GTGCTGGAATTA
* *
98460893 TATCCAGGTTAAATCCCGCAGGCCTA-GTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGG-CTATGTGCTGGAATTA
98460931 TATC
1 TATC
98460935 TGAGCTTAAA
Statistics
Matches: 73, Mismatches: 4, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
37 1 0.01
38 57 0.78
39 7 0.10
40 8 0.11
ACGTcount: A:0.24, C:0.23, G:0.24, T:0.28
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTATGTGCTGGAATTA
Found at i:98466931 original size:29 final size:29
Alignment explanation
Indices: 98466898--98466953 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
98466888 CTTCAAAAAT
98466898 AAATAAAAGA-AAAAATAG-AATTAAAATGG
1 AAATAAAA-ATAAAAATAGTAA-TAAAATGG
98466927 AAATAAAAATAAAAATAGTAATAAAAT
1 AAATAAAAATAAAAATAGTAATAAAAT
98466954 AAAGGGATTC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
28 1 0.04
29 22 0.88
30 2 0.08
ACGTcount: A:0.71, C:0.00, G:0.09, T:0.20
Consensus pattern (29 bp):
AAATAAAAATAAAAATAGTAATAAAATGG
Found at i:98467068 original size:21 final size:21
Alignment explanation
Indices: 98467044--98467084 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
98467034 CTGTAAAGTC
*
98467044 GCATCGATACTATCGAACCTT
1 GCATCAATACTATCGAACCTT
* *
98467065 GCATCAATACTGTTGAACCT
1 GCATCAATACTATCGAACCT
98467085 CCAAGCACAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.27, G:0.15, T:0.29
Consensus pattern (21 bp):
GCATCAATACTATCGAACCTT
Found at i:98468552 original size:18 final size:18
Alignment explanation
Indices: 98468524--98468574 Score: 59
Period size: 18 Copynumber: 2.8 Consensus size: 18
98468514 ATATAATGCA
98468524 AAATAATAATAATATAACT
1 AAATAA-AATAATATAACT
* *
98468543 AAATAAAATAATAAAATT
1 AAATAAAATAATATAACT
98468561 AAATTAAAA-AATAT
1 AAA-TAAAATAATAT
98468575 GAAGGGTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
18 17 0.61
19 11 0.39
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (18 bp):
AAATAAAATAATATAACT
Found at i:98468772 original size:33 final size:33
Alignment explanation
Indices: 98468708--98468772 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 33
98468698 GGGAGAGTTG
*
98468708 TGCACGGGAGAAAGAGAGCACAGAGGGGGGTTA
1 TGCACGGGAGAAAGAGAGCACAGACGGGGGTTA
* * *
98468741 TGCACGGGAGAAAGAGGGCACGGACGTGGGTT
1 TGCACGGGAGAAAGAGAGCACAGACGGGGGTT
98468773 TTATGGGTGT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.29, C:0.14, G:0.46, T:0.11
Consensus pattern (33 bp):
TGCACGGGAGAAAGAGAGCACAGACGGGGGTTA
Found at i:98471710 original size:17 final size:19
Alignment explanation
Indices: 98471663--98471702 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
98471653 CATTTTATTT
98471663 AACATAAACTATATCTAAA
1 AACATAAACTATATCTAAA
98471682 AACATAAACTATATCTAAA
1 AACATAAACTATATCTAAA
98471701 AA
1 AA
98471703 TCAACTATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.60, C:0.15, G:0.00, T:0.25
Consensus pattern (19 bp):
AACATAAACTATATCTAAA
Found at i:98471811 original size:13 final size:13
Alignment explanation
Indices: 98471793--98471824 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
98471783 GGAATTAAAT
98471793 TGACTTACCAAAG
1 TGACTTACCAAAG
98471806 TGACTTACCAAAG
1 TGACTTACCAAAG
98471819 TGACTT
1 TGACTT
98471825 TAAACCTTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.34, C:0.22, G:0.16, T:0.28
Consensus pattern (13 bp):
TGACTTACCAAAG
Found at i:98474401 original size:20 final size:20
Alignment explanation
Indices: 98474360--98474407 Score: 53
Period size: 20 Copynumber: 2.5 Consensus size: 20
98474350 TATCAGAAGA
* * *
98474360 AAAT-AAAAGAAAATTTAGT
1 AAATAAAAACAAAATTAAAT
98474379 AAATAAAAACAAAATTAAAT
1 AAATAAAAACAAAATTAAAT
*
98474399 AAAGAAAAA
1 AAATAAAAA
98474408 ATAATGACTA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 4 0.17
20 20 0.83
ACGTcount: A:0.73, C:0.02, G:0.06, T:0.19
Consensus pattern (20 bp):
AAATAAAAACAAAATTAAAT
Found at i:98476384 original size:35 final size:35
Alignment explanation
Indices: 98476316--98476442 Score: 202
Period size: 35 Copynumber: 3.6 Consensus size: 35
98476306 AGTACATTGA
*
98476316 TAATCCAACCGAAACACACCAGATGCTCATAAGAGC
1 TAATCCATCCGAAACACACCA-ATGCTCATAAGAGC
*
98476352 TAATCCATCCGGAACACACCAATGCTCATAAGAGC
1 TAATCCATCCGAAACACACCAATGCTCATAAGAGC
*
98476387 TAATCCATCCGGAACACACCAATGCTCATAAGAGC
1 TAATCCATCCGAAACACACCAATGCTCATAAGAGC
*
98476422 T-ATCCATCCAAAACACACCAA
1 TAATCCATCCGAAACACACCAA
98476443 AACAAAGAGT
Statistics
Matches: 87, Mismatches: 4, Indels: 2
0.94 0.04 0.02
Matches are distributed among these distances:
34 18 0.21
35 50 0.57
36 19 0.22
ACGTcount: A:0.40, C:0.32, G:0.12, T:0.16
Consensus pattern (35 bp):
TAATCCATCCGAAACACACCAATGCTCATAAGAGC
Found at i:98481541 original size:27 final size:25
Alignment explanation
Indices: 98481497--98481546 Score: 82
Period size: 27 Copynumber: 1.9 Consensus size: 25
98481487 ATTAGCCAAC
98481497 TATAAAAATAAAAATTTCTAAAAAA
1 TATAAAAATAAAAATTTCTAAAAAA
98481522 TATAATAAATAAAAAATTTCTAAAA
1 TATAA-AAAT-AAAAATTTCTAAAA
98481547 TTTTAAAGTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
25 5 0.22
26 4 0.17
27 14 0.61
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (25 bp):
TATAAAAATAAAAATTTCTAAAAAA
Found at i:98485570 original size:28 final size:28
Alignment explanation
Indices: 98485533--98485586 Score: 108
Period size: 28 Copynumber: 1.9 Consensus size: 28
98485523 AAAAGACTCA
98485533 AAAGCACAAGCTAAACTAAGCCATTCTC
1 AAAGCACAAGCTAAACTAAGCCATTCTC
98485561 AAAGCACAAGCTAAACTAAGCCATTC
1 AAAGCACAAGCTAAACTAAGCCATTC
98485587 AACACCCTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 26 1.00
ACGTcount: A:0.44, C:0.28, G:0.11, T:0.17
Consensus pattern (28 bp):
AAAGCACAAGCTAAACTAAGCCATTCTC
Found at i:98493311 original size:7 final size:7
Alignment explanation
Indices: 98493299--98493330 Score: 64
Period size: 7 Copynumber: 4.6 Consensus size: 7
98493289 TGCATAATTC
98493299 AAAATAA
1 AAAATAA
98493306 AAAATAA
1 AAAATAA
98493313 AAAATAA
1 AAAATAA
98493320 AAAATAA
1 AAAATAA
98493327 AAAA
1 AAAA
98493331 GGGGAGCGAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 25 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (7 bp):
AAAATAA
Found at i:98493748 original size:3 final size:3
Alignment explanation
Indices: 98493740--98493781 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
98493730 TCATCTTCCA
98493740 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
1 ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT ACT
98493782 TCCGTTTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
ACT
Found at i:98502648 original size:18 final size:18
Alignment explanation
Indices: 98502625--98502668 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
98502615 ATAATGTTAT
*
98502625 ATAATATTAATTTAATTA
1 ATAATATTAAGTTAATTA
*
98502643 ATAATATTAAGTTATTTA
1 ATAATATTAAGTTAATTA
*
98502661 ATTATATT
1 ATAATATT
98502669 GGATGATTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (18 bp):
ATAATATTAAGTTAATTA
Found at i:98509555 original size:25 final size:24
Alignment explanation
Indices: 98509519--98509569 Score: 59
Period size: 25 Copynumber: 2.1 Consensus size: 24
98509509 CACACAAGTC
98509519 TTTTCCCTATTTCTCTC-TTCTTT
1 TTTTCCCTATTTCTCTCTTTCTTT
* *
98509542 TTTTCTCCTTATTTTTTTCTTTCTTT
1 TTTTC-CC-TATTTCTCTCTTTCTTT
98509568 TT
1 TT
98509570 CACGGCTGTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
23 5 0.22
24 2 0.09
25 8 0.35
26 8 0.35
ACGTcount: A:0.04, C:0.24, G:0.00, T:0.73
Consensus pattern (24 bp):
TTTTCCCTATTTCTCTCTTTCTTT
Found at i:98509558 original size:14 final size:15
Alignment explanation
Indices: 98509528--98509566 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
98509518 CTTTTCCCTA
*
98509528 TTTCTCTCTTCTTTT
1 TTTCTCTCTTATTTT
98509543 TTTCTC-CTTATTTT
1 TTTCTCTCTTATTTT
*
98509557 TTTCTTTCTT
1 TTTCTCTCTT
98509567 TTTCACGGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.03, C:0.23, G:0.00, T:0.74
Consensus pattern (15 bp):
TTTCTCTCTTATTTT
Found at i:98509634 original size:17 final size:15
Alignment explanation
Indices: 98509608--98509645 Score: 53
Period size: 13 Copynumber: 2.7 Consensus size: 15
98509598 GCAATAGCAG
98509608 CTCTTTTCTTTC-TT
1 CTCTTTTCTTTCTTT
*
98509622 CT-TTCTCTTTCTTT
1 CTCTTTTCTTTCTTT
98509636 CTCTTTTCTT
1 CTCTTTTCTT
98509646 CACTCGATTT
Statistics
Matches: 20, Mismatches: 2, Indels: 3
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.40
14 6 0.30
15 6 0.30
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
CTCTTTTCTTTCTTT
Found at i:98512703 original size:14 final size:14
Alignment explanation
Indices: 98512684--98512715 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
98512674 AGGTCATTTA
98512684 GCCCAACCAAACGG
1 GCCCAACCAAACGG
*
98512698 GCCCAACCAAACTG
1 GCCCAACCAAACGG
98512712 GCCC
1 GCCC
98512716 GGTGATTTGA
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:0.31, C:0.47, G:0.19, T:0.03
Consensus pattern (14 bp):
GCCCAACCAAACGG
Found at i:98517828 original size:14 final size:14
Alignment explanation
Indices: 98517809--98517840 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
98517799 AGGTCATTTA
98517809 GCCCAACCAAACGG
1 GCCCAACCAAACGG
*
98517823 GCCCAACCAAACTG
1 GCCCAACCAAACGG
98517837 GCCC
1 GCCC
98517841 GGTGATTTGA
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:0.31, C:0.47, G:0.19, T:0.03
Consensus pattern (14 bp):
GCCCAACCAAACGG
Found at i:98520320 original size:18 final size:18
Alignment explanation
Indices: 98520297--98520333 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
98520287 TTACTTTTAT
*
98520297 TATTATTGTTATTGGTAC
1 TATTATTATTATTGGTAC
*
98520315 TATTATTATTTTTGGTAC
1 TATTATTATTATTGGTAC
98520333 T
1 T
98520334 TCCCTAATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.22, C:0.05, G:0.14, T:0.59
Consensus pattern (18 bp):
TATTATTATTATTGGTAC
Found at i:98524931 original size:23 final size:23
Alignment explanation
Indices: 98524904--98524948 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
98524894 TTATCTGCTA
* *
98524904 GGAGCAGTCTGTGCTTTTGATAG
1 GGAGCAGTCTATGCCTTTGATAG
*
98524927 GGAGCAGTGTATGCCTTTGATA
1 GGAGCAGTCTATGCCTTTGATA
98524949 CATATCGAGC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.20, C:0.13, G:0.33, T:0.33
Consensus pattern (23 bp):
GGAGCAGTCTATGCCTTTGATAG
Found at i:98527197 original size:32 final size:32
Alignment explanation
Indices: 98527161--98527221 Score: 95
Period size: 32 Copynumber: 1.9 Consensus size: 32
98527151 ATAGACTTAG
* *
98527161 CTAACTTTAATGTAAAAATGTGACTGAATTGT
1 CTAACTTGAATGTAAAAATGAGACTGAATTGT
*
98527193 CTAACTTGAATGTAAAAATGAGGCTGAAT
1 CTAACTTGAATGTAAAAATGAGACTGAAT
98527222 AAGTTTAACG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 26 1.00
ACGTcount: A:0.39, C:0.10, G:0.18, T:0.33
Consensus pattern (32 bp):
CTAACTTGAATGTAAAAATGAGACTGAATTGT
Found at i:98530949 original size:261 final size:261
Alignment explanation
Indices: 98530485--98530996 Score: 911
Period size: 261 Copynumber: 2.0 Consensus size: 261
98530475 AATTGTTACC
*
98530485 TAACCATATACTATTCGTCAGAATTATAACATAAGCCCATATTCCTTCTCTCTGCCATTTTTGCC
1 TAACCATATACTATTCGTCAGAATTATAACATAAGCCCATATTCCTTCTCTCTACCATTTTTGCC
* *
98530550 CATATCTTTAAAAAAGTGGCTAGATTATTTATCGATTTTGCTTCAATAGTTCCCCTAACATATTT
66 CATATCTTTAAAAAAGTGGCTAGATGATTTATCGATTTTGCTTCAATAGTTCCCCTAACATATTG
98530615 CTGCCTTTAGAAAGTTGGGTGCCAAAATCGTTATATCCACAGGGAATTTGAAACTGCCCTCATTA
131 CTGCCTTTAGAAAGTTGGGTGCCAAAATCGTTATATCCACAGGGAATTTGAAACTGCCCTCATTA
*
98530680 CCTTGCCAAGTTCCTTTACGATTATTTTTGACACATAGCATTTGCTACTTCTGTTCGTCAGAATT
196 CCTTGCCAAATTCCTTTACGATTATTTTTGACACATAGCATTTGCTACTTCTGTTCGTCAGAATT
98530745 A
261 A
*
98530746 TAACCATATACTGA-TCGTCAGAATTATAACATAAGCCCTTCA-TCCTTCTCTCTACCATTTTTG
1 TAACCATATACT-ATTCGTCAGAATTATAACATAAGCCCAT-ATTCCTTCTCTCTACCATTTTTG
*
98530809 CCCATATCTTTAAAAAAGTGGCTAGATGATTTATTGATTTTGCTTCAATAGTTCCCCTAACATAT
64 CCCATATCTTTAAAAAAGTGGCTAGATGATTTATCGATTTTGCTTCAATAGTTCCCCTAACATAT
* * *
98530874 TGCTGCCTTTAGAAAGTTGGGTGCCAAAATTGTTATATCCACAGGGAATTTGTAACTTCCCTCAT
129 TGCTGCCTTTAGAAAGTTGGGTGCCAAAATCGTTATATCCACAGGGAATTTGAAACTGCCCTCAT
98530939 TACCTTGCCAAATTCCTTTACGATTATTTTTGACACATAGCATTTGCTACTTCTGTTC
194 TACCTTGCCAAATTCCTTTACGATTATTTTTGACACATAGCATTTGCTACTTCTGTTC
98530997 ATAGGCACTA
Statistics
Matches: 240, Mismatches: 9, Indels: 4
0.95 0.04 0.02
Matches are distributed among these distances:
261 238 0.99
262 2 0.01
ACGTcount: A:0.27, C:0.22, G:0.13, T:0.38
Consensus pattern (261 bp):
TAACCATATACTATTCGTCAGAATTATAACATAAGCCCATATTCCTTCTCTCTACCATTTTTGCC
CATATCTTTAAAAAAGTGGCTAGATGATTTATCGATTTTGCTTCAATAGTTCCCCTAACATATTG
CTGCCTTTAGAAAGTTGGGTGCCAAAATCGTTATATCCACAGGGAATTTGAAACTGCCCTCATTA
CCTTGCCAAATTCCTTTACGATTATTTTTGACACATAGCATTTGCTACTTCTGTTCGTCAGAATT
A
Found at i:98536933 original size:3 final size:3
Alignment explanation
Indices: 98536925--98536981 Score: 98
Period size: 3 Copynumber: 19.3 Consensus size: 3
98536915 CGCTATTAGT
*
98536925 ATA ATA AT- ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
98536972 ATA ATA ATA A
1 ATA ATA ATA A
98536982 AGCATATTTA
Statistics
Matches: 52, Mismatches: 1, Indels: 2
0.95 0.02 0.04
Matches are distributed among these distances:
2 2 0.04
3 50 0.96
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:98538925 original size:19 final size:20
Alignment explanation
Indices: 98538887--98538925 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
98538877 TTTATCACGA
**
98538887 GTATCGATACCCTTATTTGG
1 GTATCGATACCCAAATTTGG
98538907 GTATCGATA-CCAAATTTGG
1 GTATCGATACCCAAATTTGG
98538926 TTGCTGTCGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.26, C:0.18, G:0.21, T:0.36
Consensus pattern (20 bp):
GTATCGATACCCAAATTTGG
Found at i:98556425 original size:29 final size:31
Alignment explanation
Indices: 98556368--98556426 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 31
98556358 GGTTGGGATG
* * *
98556368 GGAAGGGAGTAAAAGTTTTGGGGGGAAAGTA
1 GGAAGGGAGTAAAAGTTTTGAGAGAAAAGTA
98556399 GGAA-GGAGT-AAAGTTTTGAGAGAAAAGT
1 GGAAGGGAGTAAAAGTTTTGAGAGAAAAGT
98556427 CAAAAGGTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 16 0.64
30 5 0.20
31 4 0.16
ACGTcount: A:0.39, C:0.00, G:0.41, T:0.20
Consensus pattern (31 bp):
GGAAGGGAGTAAAAGTTTTGAGAGAAAAGTA
Found at i:98560274 original size:15 final size:16
Alignment explanation
Indices: 98560252--98560302 Score: 70
Period size: 15 Copynumber: 3.2 Consensus size: 16
98560242 AATAAATAGT
98560252 TAATAATAAAATGATA
1 TAATAATAAAATGATA
*
98560268 TAA-AATAAAATAATA
1 TAATAATAAAATGATA
98560283 -AATAATAAAAATGATA
1 TAATAAT-AAAATGATA
98560299 TAAT
1 TAAT
98560303 GATTTACATA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
14 2 0.07
15 14 0.47
16 11 0.37
17 3 0.10
ACGTcount: A:0.67, C:0.00, G:0.04, T:0.29
Consensus pattern (16 bp):
TAATAATAAAATGATA
Found at i:98565977 original size:3 final size:3
Alignment explanation
Indices: 98565969--98565998 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
98565959 GGGGTGGGGG
98565969 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
1 TGA TGA TGA TGA TGA TGA TGA TGA TGA TGA
98565999 GGGATTAAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.33, T:0.33
Consensus pattern (3 bp):
TGA
Found at i:98567101 original size:5 final size:5
Alignment explanation
Indices: 98567091--98567116 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
98567081 TGACGAAGAG
98567091 AGGGA AGGGA AGGGA AGGGA AGGGA A
1 AGGGA AGGGA AGGGA AGGGA AGGGA A
98567117 ACCTGAGTAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.42, C:0.00, G:0.58, T:0.00
Consensus pattern (5 bp):
AGGGA
Found at i:98567889 original size:6 final size:6
Alignment explanation
Indices: 98567878--98567917 Score: 71
Period size: 6 Copynumber: 6.7 Consensus size: 6
98567868 AACTTTAGAA
*
98567878 AGAGGG AGAGGG AGAGGG AGAGGG AGTGGG AGAGGG AGAG
1 AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAGGG AGAG
98567918 CAACATGGGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.33, C:0.00, G:0.65, T:0.03
Consensus pattern (6 bp):
AGAGGG
Found at i:98572221 original size:156 final size:156
Alignment explanation
Indices: 98571937--98572248 Score: 529
Period size: 156 Copynumber: 2.0 Consensus size: 156
98571927 TCGATATCAA
*
98571937 ATGTAAGCTCAAATAAACATGTCATGGAACGATGGTATGTAAATGATATATCAATTCATAGCATG
1 ATGTAAGCTCAAATAAACATGTCATGGAACAATGGTATGTAAATGATATATCAATTCATAGCATG
*
98572002 ATACCATTGAGAATTCCAAAGTCTTAAGCCTAAGTAAAAATATTAATCTTATATCCTAAGTCTAA
66 ATACCATCGAGAATTCCAAAGTCTTAAGCCTAAGTAAAAATATTAATCTTATATCCTAAGTCTAA
* *
98572067 -TCCTAATTCTAATTGTAGTTCTAAAC
131 GT-CTAATCCTAATTCTAGTTCTAAAC
* *
98572093 ATGTAAGCTCAAATAAACATGTCATGGAACAATGGTATGT-ATTGATATATTAATTCATAGCATG
1 ATGTAAGCTCAAATAAACATGTCATGGAACAATGGTATGTAAATGATATATCAATTCATAGCATG
98572157 ATACCATCGAGAATTCCAAAGTCTTTAAGCCTAAGTAAAAATATTAATCTTATATCCTAAGTCTA
66 ATACCATCGAGAATTCCAAAGTC-TTAAGCCTAAGTAAAAATATTAATCTTATATCCTAAGTCTA
*
98572222 AGTTTAATCCTAATTCTAGTTCTAAAC
130 AGTCTAATCCTAATTCTAGTTCTAAAC
98572249 CTAGTTTTGT
Statistics
Matches: 147, Mismatches: 7, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
155 44 0.30
156 102 0.69
157 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.33
Consensus pattern (156 bp):
ATGTAAGCTCAAATAAACATGTCATGGAACAATGGTATGTAAATGATATATCAATTCATAGCATG
ATACCATCGAGAATTCCAAAGTCTTAAGCCTAAGTAAAAATATTAATCTTATATCCTAAGTCTAA
GTCTAATCCTAATTCTAGTTCTAAAC
Found at i:98572315 original size:36 final size:36
Alignment explanation
Indices: 98572224--98572318 Score: 95
Period size: 36 Copynumber: 2.6 Consensus size: 36
98572214 TAAGTCTAAG
* * * * *
98572224 TTTAATCCTAATTCTAGTTCTAAACCTAGTTTTGTT
1 TTTAATCCTAATTCTAATTCTAAACCTAATCTAGTA
* *
98572260 TTTAATCCTAAGTT-GAATTCTAAACTTAATGCTAG-A
1 TTTAATCCTAA-TTCTAATTCTAAACCTAAT-CTAGTA
98572296 TTTAATCCTAATTCTAATTCTAA
1 TTTAATCCTAATTCTAATTCTAA
98572319 TTTTATAAAC
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
35 2 0.04
36 42 0.88
37 4 0.08
ACGTcount: A:0.32, C:0.16, G:0.07, T:0.45
Consensus pattern (36 bp):
TTTAATCCTAATTCTAATTCTAAACCTAATCTAGTA
Found at i:98579159 original size:41 final size:42
Alignment explanation
Indices: 98579095--98579198 Score: 124
Period size: 41 Copynumber: 2.5 Consensus size: 42
98579085 ACATAAAATT
*
98579095 TGCTAGGC-ATAAAGCCT-AGTATAATACACCAGC-ACAGAGCC
1 TGCTAGGCAAT-AAGCCTGA-TATAATACACCAGCAACAAAGCC
* * *
98579136 TTCTAGGCAATAAGCCTGATATAATACACCGGCATATAAAGCC
1 TGCTAGGCAATAAGCCTGATATAATACACCAGCA-ACAAAGCC
98579179 TGCTAGGCAATAAGCCTGAT
1 TGCTAGGCAATAAGCCTGAT
98579199 TATACAATCA
Statistics
Matches: 54, Mismatches: 5, Indels: 6
0.83 0.08 0.09
Matches are distributed among these distances:
41 26 0.48
42 3 0.06
43 25 0.46
ACGTcount: A:0.36, C:0.24, G:0.19, T:0.21
Consensus pattern (42 bp):
TGCTAGGCAATAAGCCTGATATAATACACCAGCAACAAAGCC
Found at i:98580281 original size:41 final size:41
Alignment explanation
Indices: 98580243--98580402 Score: 257
Period size: 41 Copynumber: 3.9 Consensus size: 41
98580233 TAAAGCCTAG
* * *
98580243 TATAATACACCAGCACAGAGCCTGCTAGGCAATAAGCCTGA
1 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCTTGA
*
98580284 TATAATACACCGGCATATAAGGCCTGCTAGGCAATAAGCTTGA
1 TATAATACACCGGCACA-AA-GCCTGCTAGGCAATAAGCTTGA
98580327 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCTTGA
1 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCTTGA
*
98580368 TATAATACACTGGCACAAAGCCTGCTAGGCAATAA
1 TATAATACACCGGCACAAAGCCTGCTAGGCAATAA
98580403 AGCCCGAATA
Statistics
Matches: 111, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
41 71 0.64
42 3 0.03
43 37 0.33
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (41 bp):
TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCTTGA
Found at i:98580369 original size:84 final size:82
Alignment explanation
Indices: 98580243--98580402 Score: 257
Period size: 84 Copynumber: 1.9 Consensus size: 82
98580233 TAAAGCCTAG
* *
98580243 TATAATACACCAGCACAGAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGCATATAAGGCC
1 TATAATACACCAGCACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGCACA-AA-GCC
98580308 TGCTAGGCAATAAGCTTGA
64 TGCTAGGCAATAAGCTTGA
* * *
98580327 TATAATACACCGGCACAAAGCCTGCTAGGCAATAAGCTTGATATAATACACTGGCACAAAGCCTG
1 TATAATACACCAGCACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTG
98580392 CTAGGCAATAA
66 CTAGGCAATAA
98580403 AGCCCGAATA
Statistics
Matches: 71, Mismatches: 5, Indels: 2
0.91 0.06 0.03
Matches are distributed among these distances:
82 16 0.23
83 2 0.03
84 53 0.75
ACGTcount: A:0.37, C:0.24, G:0.19, T:0.20
Consensus pattern (82 bp):
TATAATACACCAGCACAAAGCCTGCTAGGCAATAAGCCTGATATAATACACCGGCACAAAGCCTG
CTAGGCAATAAGCTTGA
Found at i:98583148 original size:23 final size:24
Alignment explanation
Indices: 98583104--98583148 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
98583094 CTTCTGACGT
98583104 GGAGAAATAAGGAAGGTGAGAGAA
1 GGAGAAATAAGGAAGGTGAGAGAA
*
98583128 GGAGAAATAAGG-TGGTGAGAG
1 GGAGAAATAAGGAAGGTGAGAG
98583149 GGCATGGGTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 8 0.40
24 12 0.60
ACGTcount: A:0.44, C:0.00, G:0.44, T:0.11
Consensus pattern (24 bp):
GGAGAAATAAGGAAGGTGAGAGAA
Found at i:98585409 original size:13 final size:13
Alignment explanation
Indices: 98585391--98585432 Score: 75
Period size: 13 Copynumber: 3.2 Consensus size: 13
98585381 GTTTTGTATA
98585391 TTTCTCGAAAGTT
1 TTTCTCGAAAGTT
*
98585404 TTTCTCGAAATTT
1 TTTCTCGAAAGTT
98585417 TTTCTCGAAAGTT
1 TTTCTCGAAAGTT
98585430 TTT
1 TTT
98585433 TGATCTCCTC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
13 27 1.00
ACGTcount: A:0.21, C:0.14, G:0.12, T:0.52
Consensus pattern (13 bp):
TTTCTCGAAAGTT
Found at i:98591144 original size:18 final size:19
Alignment explanation
Indices: 98591104--98591145 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
98591094 GCAAATGAAT
*
98591104 CATTTCTCAGTTTCATTTT
1 CATTTCTCAGTTTCATTTC
98591123 CATTTC-CA-TTTCAATTTC
1 CATTTCTCAGTTTC-ATTTC
98591141 CATTT
1 CATTT
98591146 TGATAAAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
17 4 0.19
18 11 0.52
19 6 0.29
ACGTcount: A:0.19, C:0.24, G:0.02, T:0.55
Consensus pattern (19 bp):
CATTTCTCAGTTTCATTTC
Found at i:98606199 original size:21 final size:23
Alignment explanation
Indices: 98606163--98606207 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
98606153 TATTAACATG
*
98606163 CCTAAACTCTTATACAA-GTATT
1 CCTAAACTCATATACAATGTATT
98606185 CCTAAA-TCATATACAATGTATT
1 CCTAAACTCATATACAATGTATT
98606207 C
1 C
98606208 TAATAAATAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 9 0.43
22 12 0.57
ACGTcount: A:0.38, C:0.22, G:0.04, T:0.36
Consensus pattern (23 bp):
CCTAAACTCATATACAATGTATT
Found at i:98610342 original size:141 final size:140
Alignment explanation
Indices: 98610020--98610818 Score: 965
Period size: 141 Copynumber: 5.7 Consensus size: 140
98610010 TTATGGGGCA
* * * *
98610020 ACACTTTCTTAAGTGTTGGGATAGAC-TGGCCAACATACGCTTTAGCCAACTTTTTGTATAAAGG
1 ACACTTTCTTAAGTGTTGGGATAGACAT-GCCAATATACGCTTTAGGCAACTCTTTGTATAAGGG
* * * * * * *
98610084 TTGGGATATGCATGCTTAAAGCAATGCTTAAATAAGAGTTGGCTTTGTCTAGCCCTAAGACGACA
65 TTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGGTTTTGTGTAGTCCTAAGACGACA
* *
98610149 CTATAATGACG
130 CTATTATGGCG
* * * * *
98610160 ACTCTTTTTTAACTGTTGCGATAGACATGCCAAGATACGCTTTAGGCAACTCTTTGTATAAGGGT
1 ACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTTAGGCAACTCTTTGTATAAGGGT
* *
98610225 TGAGATATGTATGCCTAAGGCAACGCTTGAATAAGAGTTGGTTTTTGTGTAGTCCTAAGACGACA
66 TGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGG-TTTTGTGTAGTCCTAAGACGACA
*
98610290 CTATTTTGGCG
130 CTATTATGGCG
* *
98610301 ACACTTTCTTATGTGTTGGGATAGACATGCCAATATACGCTTTAAGCAACTCTTTGTATAAGGGT
1 ACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTTAGGCAACTCTTTGTATAAGGGT
*
98610366 TGGGATATGTATGCCTAAGGCAACGCTGAAATAAGAGTTGGCTTTTGTGTAGTCCTAAGACGACA
66 TGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGG-TTTTGTGTAGTCCTAAGACGACA
*
98610431 CTATTGTGGCG
130 CTATTATGGCG
*
98610442 ACACTTTCTTAAGTGTTGGGATATACATGCCAATATACGCTTTAGGCAACTCTTTGTATAAGGG-
1 ACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTTAGGCAACTCTTTGTATAAGGGT
* * *
98610506 TGGGAATATGTATGCCTAAGGAAACGCTTGAATAAGAGTTGGCTTTTGTGTAGTCCTAAGACAAC
66 TGGG-ATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGG-TTTTGTGTAGTCCTAAGACGAC
*
98610571 ACTATTGTGGCG
129 ACTATTATGGCG
* * * *
98610583 ACACTTTCTTAAGTGTTGGGATAGACTTGCCAACT-TATG-TTTTGGCCAACTCTTTGTATAAGA
1 ACACTTTCTTAAGTGTTGGGATAGACATGCCAA-TATACGCTTTAGG-CAACTCTTTGTATAAGG
* * * * ** *
98610646 GTTGGTATATGTATGCCTAAGTCAACGCTTAAATAATAGTTGGATTTGTCCAGTCCTAAGACGAT
64 GTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGGTTTTGTGTAGTCCTAAGACGAC
98610711 A-TA-TAT----
129 ACTATTATGGCG
* * * * * * *
98610717 ATA-TATTCCTAAGTGTTGGGATAGACTTTCCGACATACGCTTT-GGTCAACTTTTTGTATAAGG
1 ACACT-TTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTTAGG-CAACTCTTTGTATAAGG
* * **
98610780 ATTGGGATATGTATGCTTAAGGCAAAACTTAAATAAGAG
64 GTTGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAG
98610819 CCGGCTTTAT
Statistics
Matches: 579, Mismatches: 71, Indels: 24
0.86 0.11 0.04
Matches are distributed among these distances:
133 1 0.00
134 79 0.14
135 3 0.01
138 2 0.00
139 2 0.00
140 117 0.20
141 371 0.64
142 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (140 bp):
ACACTTTCTTAAGTGTTGGGATAGACATGCCAATATACGCTTTAGGCAACTCTTTGTATAAGGGT
TGGGATATGTATGCCTAAGGCAACGCTTAAATAAGAGTTGGTTTTGTGTAGTCCTAAGACGACAC
TATTATGGCG
Found at i:98610970 original size:7 final size:7
Alignment explanation
Indices: 98610945--98611014 Score: 69
Period size: 7 Copynumber: 10.7 Consensus size: 7
98610935 CATATATAAG
98610945 GGGTTTA
1 GGGTTTA
*
98610952 GGGTGTA
1 GGGTTTA
*
98610959 TGGTTTA
1 GGGTTTA
98610966 GGGTTTA
1 GGGTTTA
*
98610973 TGGTTTA
1 GGGTTTA
98610980 GGGTTTA
1 GGGTTTA
*
98610987 GGG--TG
1 GGGTTTA
98610992 GGGTTTA
1 GGGTTTA
98610999 --G-TTA
1 GGGTTTA
98611003 GGGTTTA
1 GGGTTTA
98611010 GGGTT
1 GGGTT
98611015 AAGAGTTAGC
Statistics
Matches: 50, Mismatches: 8, Indels: 10
0.74 0.12 0.15
Matches are distributed among these distances:
4 3 0.06
5 5 0.10
6 1 0.02
7 41 0.82
ACGTcount: A:0.13, C:0.00, G:0.44, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:98612041 original size:35 final size:35
Alignment explanation
Indices: 98611995--98612093 Score: 126
Period size: 35 Copynumber: 2.8 Consensus size: 35
98611985 GAAAACCAAT
* *
98611995 TGCATCTGCCGTCCACAACCTGCTCCAGGCACTAG
1 TGCATCTGCCGTCCACCACCTGCTCCAGCCACTAG
* * * *
98612030 TGCATCTGCCGTTCACCACCTGATCCACCCACTGG
1 TGCATCTGCCGTCCACCACCTGCTCCAGCCACTAG
* *
98612065 TGCATTTGTCGTCCACCACCTGCTCCAGC
1 TGCATCTGCCGTCCACCACCTGCTCCAGC
98612094 TACTGGCATT
Statistics
Matches: 53, Mismatches: 11, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
35 53 1.00
ACGTcount: A:0.17, C:0.41, G:0.18, T:0.23
Consensus pattern (35 bp):
TGCATCTGCCGTCCACCACCTGCTCCAGCCACTAG
Found at i:98613761 original size:12 final size:12
Alignment explanation
Indices: 98613744--98613769 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
98613734 ACCTTGTAGA
98613744 CAGGGCCAAAGC
1 CAGGGCCAAAGC
98613756 CAGGGCCAAAGC
1 CAGGGCCAAAGC
98613768 CA
1 CA
98613770 CCTTGCCCAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.35, G:0.31, T:0.00
Consensus pattern (12 bp):
CAGGGCCAAAGC
Found at i:98621283 original size:23 final size:18
Alignment explanation
Indices: 98621237--98621276 Score: 80
Period size: 18 Copynumber: 2.2 Consensus size: 18
98621227 TTTTTGCATA
98621237 TGATTTCCATGAGTGCAG
1 TGATTTCCATGAGTGCAG
98621255 TGATTTCCATGAGTGCAG
1 TGATTTCCATGAGTGCAG
98621273 TGAT
1 TGAT
98621277 AAAATTTTTG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.23, C:0.15, G:0.28, T:0.35
Consensus pattern (18 bp):
TGATTTCCATGAGTGCAG
Done.