Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 49 of 138
Found at i:10476886 original size:11 final size:10
Alignment explanation
Indices: 10476863--10476892 Score: 51
Period size: 11 Copynumber: 2.9 Consensus size: 10
10476853 GAGTTAGCAC
10476863 AAACAAAAAA
1 AAACAAAAAA
10476873 AAACAAAAACA
1 AAACAAAAA-A
10476884 AAACAAAAA
1 AAACAAAAA
10476893 GGTAGCTTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 9 0.47
11 10 0.53
ACGTcount: A:0.87, C:0.13, G:0.00, T:0.00
Consensus pattern (10 bp):
AAACAAAAAA
Found at i:10478444 original size:17 final size:17
Alignment explanation
Indices: 10478399--10478447 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
10478389 AATTAAACAA
*
10478399 TAAAATAATA-AAAAAT
1 TAAAATAAAATAAAAAT
*
10478415 TAAAATTAGAATAAAAAT
1 TAAAA-TAAAATAAAAAT
10478433 TAAAATAAAATAAAA
1 TAAAATAAAATAAAA
10478448 CAAGAATGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
16 5 0.18
17 12 0.43
18 11 0.39
ACGTcount: A:0.73, C:0.00, G:0.02, T:0.24
Consensus pattern (17 bp):
TAAAATAAAATAAAAAT
Found at i:10485520 original size:12 final size:12
Alignment explanation
Indices: 10485501--10485532 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10485491 CAAAATTAAA
10485501 AATAAAATAATT
1 AATAAAATAATT
*
10485513 AATTAAATAATT
1 AATAAAATAATT
10485525 AATAAAAT
1 AATAAAAT
10485533 TTTTGAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (12 bp):
AATAAAATAATT
Found at i:10486238 original size:43 final size:43
Alignment explanation
Indices: 10486167--10486280 Score: 129
Period size: 43 Copynumber: 2.7 Consensus size: 43
10486157 TTTTGAAAAT
** * * *
10486167 AATAAATAAGGCTCCTCTAAGCAAAGGCTCAACGATTTTGGAA
1 AATAAATAATACTCCTCTAAACAGAGGCTCAACGACTTTGGAA
* * * **
10486210 AATAAATAATATTTCTTTAAACAGAGGCTCAATTACTTTGGAA
1 AATAAATAATACTCCTCTAAACAGAGGCTCAACGACTTTGGAA
*
10486253 AATAAATAATGCTCCTCTAAACAGAGGC
1 AATAAATAATACTCCTCTAAACAGAGGC
10486281 CAAACAACTT
Statistics
Matches: 57, Mismatches: 14, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
43 57 1.00
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (43 bp):
AATAAATAATACTCCTCTAAACAGAGGCTCAACGACTTTGGAA
Found at i:10486291 original size:43 final size:42
Alignment explanation
Indices: 10486227--10486436 Score: 134
Period size: 42 Copynumber: 5.1 Consensus size: 42
10486217 AATATTTCTT
** *
10486227 TAAACAGAGGCTC-AATTACTTTGGAAAATAAATAATGCTCCTC
1 TAAACAGAGGC-CAAACAACTTTGAAAAATAAA-AATGCTCCTC
*
10486270 TAAACAGAGGCCAAACAACTTT-AAAAAT-AAAA--CTTCTC
1 TAAACAGAGGCCAAACAACTTTGAAAAATAAAAATGCTCCTC
** * * * *
10486308 TAAGTAGA-GCCTCAACAACTTTAAAAAAT-AAAATGCTCTTT
1 TAAACAGAGGCC-AAACAACTTTGAAAAATAAAAATGCTCCTC
* * *
10486349 TAAATAGAGG-CATAACAACTTTTTAAAAGTAAAAA-GCTCCTC
1 TAAACAGAGGCCA-AACAAC-TTTGAAAAATAAAAATGCTCCTC
* ** * *
10486391 TAAACAGAAG-CACAACAACTTTTTAAAATAAAAAGGCTCATC
1 TAAACAGAGGCCA-AACAACTTTGAAAAATAAAAATGCTCCTC
10486433 TAAA
1 TAAA
10486437 TAGAAAATAA
Statistics
Matches: 135, Mismatches: 22, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
37 3 0.02
38 20 0.15
39 10 0.07
40 2 0.01
41 32 0.24
42 46 0.34
43 22 0.16
ACGTcount: A:0.46, C:0.18, G:0.10, T:0.25
Consensus pattern (42 bp):
TAAACAGAGGCCAAACAACTTTGAAAAATAAAAATGCTCCTC
Found at i:10486408 original size:42 final size:42
Alignment explanation
Indices: 10486251--10486454 Score: 156
Period size: 42 Copynumber: 5.0 Consensus size: 42
10486241 ATTACTTTGG
* *
10486251 AAAATAAATAATGCTCCTCTAAACAGAGGC-CAAACAAC--TTTA
1 AAAATAAA-AA-GCTCCTCTAAATAGAAGCAC-AACAACTTTTTA
* * * *
10486293 AAAAT-AAAA-CTTCTCTAAGTAG-AGCCTCAACAAC-TTTAA
1 AAAATAAAAAGCTCCTCTAAATAGAAG-CACAACAACTTTTTA
* * * * *
10486332 AAAATAAAATGCTCTTTTAAATAGAGGCATAACAACTTTTTA
1 AAAATAAAAAGCTCCTCTAAATAGAAGCACAACAACTTTTTA
* *
10486374 AAAGTAAAAAGCTCCTCTAAACAGAAGCACAACAACTTTTT-
1 AAAATAAAAAGCTCCTCTAAATAGAAGCACAACAACTTTTTA
* * *
10486415 AAAATAAAAAGGCTCATCTAAATAGAA-AATAACAACTTTT
1 AAAATAAAAA-GCTCCTCTAAATAGAAGCACAACAACTTTT
10486455 GGAAAACAAA
Statistics
Matches: 128, Mismatches: 26, Indels: 17
0.75 0.15 0.10
Matches are distributed among these distances:
37 1 0.01
38 17 0.13
39 9 0.07
40 5 0.04
41 38 0.30
42 58 0.45
ACGTcount: A:0.48, C:0.18, G:0.09, T:0.25
Consensus pattern (42 bp):
AAAATAAAAAGCTCCTCTAAATAGAAGCACAACAACTTTTTA
Found at i:10486466 original size:41 final size:42
Alignment explanation
Indices: 10486360--10486472 Score: 124
Period size: 42 Copynumber: 2.7 Consensus size: 42
10486350 AAATAGAGGC
* *
10486360 ATAACAACTTTTTAAAAGTAAAAA-GCTCCTCTAAACAGAAGC
1 ATAACAACTTTTTAAAAG-AAAAAGGCTCATCTAAACAGAAGA
* * *
10486402 ACAACAACTTTTTAAAATAAAAAGGCTCATCTAAATAGAA-A
1 ATAACAACTTTTTAAAAGAAAAAGGCTCATCTAAACAGAAGA
* *
10486443 ATAACAACTTTTGGAAAA-CAAAAGGCTCAT
1 ATAACAACTTTT-TAAAAGAAAAAGGCTCAT
10486473 TGACATCTTG
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
41 27 0.44
42 34 0.56
ACGTcount: A:0.50, C:0.17, G:0.10, T:0.24
Consensus pattern (42 bp):
ATAACAACTTTTTAAAAGAAAAAGGCTCATCTAAACAGAAGA
Found at i:10486887 original size:24 final size:21
Alignment explanation
Indices: 10486854--10486912 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 21
10486844 AAAAAGTTCA
10486854 AAAGTTCACATTTAATAAATCTT
1 AAAGTTCACATTT-A-AAATCTT
*
10486877 AAAGTTTCACATCTAAAATCTT
1 AAAG-TTCACATTTAAAATCTT
*
10486899 AAAGGTTCTCATTT
1 AAA-GTTCACATTT
10486913 GAGTTCTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 17 0.55
23 6 0.19
24 8 0.26
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (21 bp):
AAAGTTCACATTTAAAATCTT
Found at i:10486969 original size:21 final size:21
Alignment explanation
Indices: 10486924--10487019 Score: 97
Period size: 21 Copynumber: 4.4 Consensus size: 21
10486914 AGTTCTTCTT
*
10486924 AAAGATTCTTATTTGGAAACTC
1 AAAGATTCTCATTT-GAAACTC
*
10486946 AAAGATTCTCATTTGAAACCC
1 AAAGATTCTCATTTGAAACTC
* *
10486967 AAAGATTCTAATTT-AAGGCTC
1 AAAGATTCTCATTTGAA-ACTC
10486988 AAA-AGTTCTCATTTGAAAAACTC
1 AAAGA-TTCTCATTTG--AAACTC
10487011 AAAGATTCT
1 AAAGATTCT
10487020 AAAAAATTCT
Statistics
Matches: 61, Mismatches: 7, Indels: 11
0.77 0.09 0.14
Matches are distributed among these distances:
20 3 0.05
21 32 0.52
22 13 0.21
23 10 0.16
24 3 0.05
ACGTcount: A:0.40, C:0.17, G:0.11, T:0.32
Consensus pattern (21 bp):
AAAGATTCTCATTTGAAACTC
Found at i:10487046 original size:31 final size:32
Alignment explanation
Indices: 10486988--10487048 Score: 88
Period size: 33 Copynumber: 1.9 Consensus size: 32
10486978 TTTAAGGCTC
*
10486988 AAAAGTTCTCATTTGAAAAACTCAAAGATTCTA
1 AAAAATTCTCATTTG-AAAACTCAAAGATTCTA
*
10487021 AAAAATTCTCATTTG-AAACTTAAAGATT
1 AAAAATTCTCATTTGAAAACTCAAAGATT
10487049 TTATTTAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 12 0.46
33 14 0.54
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (32 bp):
AAAAATTCTCATTTGAAAACTCAAAGATTCTA
Found at i:10487108 original size:46 final size:46
Alignment explanation
Indices: 10487039--10487284 Score: 300
Period size: 46 Copynumber: 5.4 Consensus size: 46
10487029 TCATTTGAAA
* * * *
10487039 CTTAAAGATT-TTATTTAATACTCAAAGATTCTGATTTGAAAATGT
1 CTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAATGT
* *
10487084 TTTAAAAATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAGCAT-T
1 CTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAA--ATGT
* * *
10487131 -TTAAAGGTTCTCATTTAAGACTCAAAGGTTCTTATTTGAAAACGT
1 CTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAATGT
* * * * *
10487176 ATTAAAGATTTTCATTTAAAACTCAAAGGTTTTTATTTGAAAATGT
1 CTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAATGT
* * *
10487222 CTTAAAGATTCTCATTTAACACTCAAAAGTTTTCATTTGAAAATGT
1 CTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAATGT
10487268 CTTAAAGATTCTCATTT
1 CTTAAAGATTCTCATTT
10487285 GAAAGCATTT
Statistics
Matches: 176, Mismatches: 20, Indels: 9
0.86 0.10 0.04
Matches are distributed among these distances:
44 1 0.01
45 9 0.05
46 163 0.93
47 1 0.01
48 2 0.01
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (46 bp):
CTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAATGT
Found at i:10487300 original size:71 final size:71
Alignment explanation
Indices: 10487223--10487355 Score: 230
Period size: 71 Copynumber: 1.9 Consensus size: 71
10487213 TGAAAATGTC
* *
10487223 TTAAAGATTCTCATTTAACACTCAAAAGTTTTCATTTGAAAATGTCTTAAAGATTCTCATTTGAA
1 TTAAAGATTCTCATTTAACACTCAAAAGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTGAA
10487288 AGCATT
66 AGCATT
* *
10487294 TTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTT
1 TTAAAGATTCTCATTTAACACTCAAAAGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTT
10487356 AAGACTTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (71 bp):
TTAAAGATTCTCATTTAACACTCAAAAGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTGAA
AGCATT
Found at i:10487319 original size:117 final size:117
Alignment explanation
Indices: 10487154--10487393 Score: 320
Period size: 117 Copynumber: 2.1 Consensus size: 117
10487144 TTTAAGACTC
* * * * * *
10487154 AAAGGTTCTTATTTGAAAACGTATTAAAGATTTTCATTTAAAACTCAAAGGTTTTTATTTGAAAA
1 AAAGATTCTCATTTGAAAACATATTAAAGATTCTCATTTAAAACTCAAAGGTTCTCATTTGAAAA
* * **
10487219 TGTCTTAAAGATTCTCATTTAACACTCAAAAGTT-TTCATTTGAAAATGTCTT
66 AGTCTTAAAGATTCTCATTTAACACTCAAAAGTTCTT-ATTTAAAAACCTCTT
* * *
10487271 AAAGATTCTCATTTGAAAGCATTTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAA
1 AAAGATTCTCATTTGAAAACATATTAAAGATTCTCATTTAAAACTCAAAGGTTCTCATTTGAAAA
* * *
10487336 AGTCTTAAAGATTCTCATTTAAGACTTAAAGGTTCTTATTTAAAAACCTCTT
66 AGTCTTAAAGATTCTCATTTAACACTCAAAAGTTCTTATTTAAAAACCTCTT
10487388 AAAGAT
1 AAAGAT
10487394 CCTTATTCAA
Statistics
Matches: 106, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
117 104 0.98
118 2 0.02
ACGTcount: A:0.38, C:0.12, G:0.11, T:0.39
Consensus pattern (117 bp):
AAAGATTCTCATTTGAAAACATATTAAAGATTCTCATTTAAAACTCAAAGGTTCTCATTTGAAAA
AGTCTTAAAGATTCTCATTTAACACTCAAAAGTTCTTATTTAAAAACCTCTT
Found at i:10487326 original size:46 final size:46
Alignment explanation
Indices: 10487271--10487393 Score: 160
Period size: 46 Copynumber: 2.7 Consensus size: 46
10487261 AAAATGTCTT
* * *
10487271 AAAGATTCTCATTTGAAAGCA-TTTTAAAGATTCTCATTTAAGACTC
1 AAAGGTTCTCATTTGAAA-AAGTCTTAAAGATTCTCATTTAAGACTC
*
10487317 AAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTAAGACTT
1 AAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTAAGACTC
* *
10487363 AAAGGTTCTTATTT-AAAAACCTCTTAAAGAT
1 AAAGGTTCTCATTTGAAAAA-GTCTTAAAGAT
10487394 CCTTATTCAA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 6 0.09
46 63 0.91
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (46 bp):
AAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTAAGACTC
Found at i:10487424 original size:163 final size:163
Alignment explanation
Indices: 10487108--10487403 Score: 439
Period size: 163 Copynumber: 1.8 Consensus size: 163
10487098 TTTAAGACTC
* * *
10487108 AAAGGTTCTCATTTGAAAGCATTTTAAAGGTTCTCATTTAAGACTCAAAGGTTCTTATTTGAAAA
1 AAAGATTCTCATTTGAAAGCATTTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAA
* * * * ** *
10487173 CGTATTAAAGATTTTCATTTAAAACTCAAAGGTTTTTATTTGAAAATGTCTTAAAGATTCTCATT
66 AGTATTAAAGATTCTCATTTAAAACTCAAAGGTTCTTATTTAAAAACCTCTTAAAGATCCTCATT
* * *
10487238 TAACACTCAAAAGTTTTCATTTGAAAATGTCTT
131 CAACAATCAAAAGTTCTCATTTGAAAATGTCTT
10487271 AAAGATTCTCATTTGAAAGCATTTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAA
1 AAAGATTCTCATTTGAAAGCATTTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAA
* * * *
10487336 AGTCTTAAAGATTCTCATTTAAGACTTAAAGGTTCTTATTTAAAAACCTCTTAAAGATCCTTATT
66 AGTATTAAAGATTCTCATTTAAAACTCAAAGGTTCTTATTTAAAAACCTCTTAAAGATCCTCATT
10487401 CAA
131 CAA
10487404 GAATTAGAGA
Statistics
Matches: 118, Mismatches: 15, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
163 118 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (163 bp):
AAAGATTCTCATTTGAAAGCATTTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAA
AGTATTAAAGATTCTCATTTAAAACTCAAAGGTTCTTATTTAAAAACCTCTTAAAGATCCTCATT
CAACAATCAAAAGTTCTCATTTGAAAATGTCTT
Found at i:10488653 original size:7 final size:7
Alignment explanation
Indices: 10488643--10488697 Score: 55
Period size: 7 Copynumber: 8.3 Consensus size: 7
10488633 TTTTTCCTTT
10488643 TTTTTCA
1 TTTTTCA
10488650 TTTTTCA
1 TTTTTCA
*
10488657 TTTTTTA
1 TTTTTCA
*
10488664 TTTTTTA
1 TTTTTCA
10488671 -TTTT--
1 TTTTTCA
10488675 TTTTTCA
1 TTTTTCA
10488682 TTTTT-A
1 TTTTTCA
10488688 TTTTTTCA
1 -TTTTTCA
10488696 TT
1 TT
10488698 CTTTTCTCTT
Statistics
Matches: 42, Mismatches: 1, Indels: 10
0.79 0.02 0.19
Matches are distributed among these distances:
5 4 0.10
6 5 0.12
7 32 0.76
8 1 0.02
ACGTcount: A:0.13, C:0.07, G:0.00, T:0.80
Consensus pattern (7 bp):
TTTTTCA
Found at i:10488668 original size:25 final size:24
Alignment explanation
Indices: 10488640--10488693 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 24
10488630 ATTTTTTTCC
*
10488640 TTTTTT-TTCATTTTTCATTTTTTA
1 TTTTTTATTTATTTTTCA-TTTTTA
*
10488664 TTTTTTATTTTTTTTTCATTTTTA
1 TTTTTTATTTATTTTTCATTTTTA
10488688 TTTTTT
1 TTTTTT
10488694 CATTCTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
24 18 0.67
25 9 0.33
ACGTcount: A:0.11, C:0.06, G:0.00, T:0.83
Consensus pattern (24 bp):
TTTTTTATTTATTTTTCATTTTTA
Found at i:10488668 original size:32 final size:32
Alignment explanation
Indices: 10488632--10488712 Score: 110
Period size: 32 Copynumber: 2.5 Consensus size: 32
10488622 TTTCTCTCAT
10488632 TTTTTTCCTTTTTTTTCATTTTTCATTTTTT-A
1 TTTTTTCCTTTTTTTTCATTTTT-ATTTTTTCA
**
10488664 TTTTTTATTTTTTTTTCATTTTTATTTTTTCA
1 TTTTTTCCTTTTTTTTCATTTTTATTTTTTCA
10488696 TTCTTTTCTCTTTTTTT
1 TT-TTTTC-CTTTTTTT
10488713 CATCCATTAG
Statistics
Matches: 42, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
31 7 0.17
32 24 0.57
33 4 0.10
34 7 0.17
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.80
Consensus pattern (32 bp):
TTTTTTCCTTTTTTTTCATTTTTATTTTTTCA
Found at i:10488702 original size:10 final size:9
Alignment explanation
Indices: 10488628--10488715 Score: 52
Period size: 7 Copynumber: 10.4 Consensus size: 9
10488618 TTCTTTTCTC
10488628 TCATTTTTT
1 TCATTTTTT
*
10488637 TCCTTTTTTT
1 T-CATTTTTT
10488647 TCA--TTTT
1 TCATTTTTT
10488654 TCA-TTTTT
1 TCATTTTTT
10488662 T-ATTTTTT
1 TCATTTTTT
*
10488670 AT-TTTTTTT
1 -TCATTTTTT
10488679 TCA--TTTT
1 TCATTTTTT
10488686 T-A-TTTTT
1 TCATTTTTT
10488693 TCATTCTTTT
1 TCATT-TTTT
10488703 CTC-TTTTTT
1 -TCATTTTTT
10488712 TCAT
1 TCAT
10488716 CCATTAGCGA
Statistics
Matches: 64, Mismatches: 4, Indels: 22
0.71 0.04 0.24
Matches are distributed among these distances:
6 1 0.02
7 18 0.28
8 14 0.22
9 15 0.23
10 14 0.22
11 2 0.03
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.77
Consensus pattern (9 bp):
TCATTTTTT
Found at i:10488702 original size:25 final size:24
Alignment explanation
Indices: 10488640--10488711 Score: 83
Period size: 25 Copynumber: 3.0 Consensus size: 24
10488630 ATTTTTTTCC
*
10488640 TTTTTT-TTCATTTTTCATTTTTTA
1 TTTTTTATTCTTTTTTCA-TTTTTA
*
10488664 TTTTTTATTTTTTTTTCATTTTTA
1 TTTTTTATTCTTTTTTCATTTTTA
* *
10488688 TTTTTTCATTCTTTTCTCTTTTTT
1 TTTTTT-ATTCTTTTTTCATTTTT
10488712 TCATCCATTA
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 18 0.44
25 23 0.56
ACGTcount: A:0.10, C:0.10, G:0.00, T:0.81
Consensus pattern (24 bp):
TTTTTTATTCTTTTTTCATTTTTA
Found at i:10489090 original size:15 final size:14
Alignment explanation
Indices: 10489067--10489105 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
10489057 TTTATTTCTC
*
10489067 TTTTGTTTTGCCTTT
1 TTTTCTTTTG-CTTT
10489082 TTTTCTTTTTGCTTT
1 TTTTC-TTTTGCTTT
10489097 TTTTCTTTT
1 TTTTCTTTT
10489106 TTGTATCTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 4 0.18
15 13 0.59
16 5 0.23
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (14 bp):
TTTTCTTTTGCTTT
Found at i:10489108 original size:16 final size:16
Alignment explanation
Indices: 10489072--10489106 Score: 63
Period size: 15 Copynumber: 2.2 Consensus size: 16
10489062 TTCTCTTTTG
10489072 TTTTGCCTTTTTTTCT
1 TTTTGCCTTTTTTTCT
10489088 TTTTG-CTTTTTTTCT
1 TTTTGCCTTTTTTTCT
10489103 TTTT
1 TTTT
10489107 TGTATCTTTA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
15 14 0.74
16 5 0.26
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (16 bp):
TTTTGCCTTTTTTTCT
Found at i:10492628 original size:54 final size:56
Alignment explanation
Indices: 10492566--10492705 Score: 187
Period size: 56 Copynumber: 2.5 Consensus size: 56
10492556 TTTAATTTTT
10492566 AATTTTTCATCATTTGAGCCTATTTA-AAAAT-TCTCTTTTTTTGTTGGATTTCTA
1 AATTTTTCATCATTTGAGCCTATTTAGAAAATCTCTCTTTTTTTGTTGGATTTCTA
* * * *
10492620 AATTTTTCACCATTAGGGCCTATTTAGAAATTCTCTCTTTTTTTGTTGGATTTCTA
1 AATTTTTCATCATTTGAGCCTATTTAGAAAATCTCTCTTTTTTTGTTGGATTTCTA
* * *
10492676 AA-TTTTCTATCATTTGGGTCAATTTAGAAA
1 AATTTTTC-ATCATTTGAGCCTATTTAGAAA
10492706 TATTTTCTTG
Statistics
Matches: 75, Mismatches: 8, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
54 23 0.31
55 9 0.12
56 43 0.57
ACGTcount: A:0.25, C:0.14, G:0.11, T:0.50
Consensus pattern (56 bp):
AATTTTTCATCATTTGAGCCTATTTAGAAAATCTCTCTTTTTTTGTTGGATTTCTA
Found at i:10492701 original size:56 final size:55
Alignment explanation
Indices: 10492544--10492706 Score: 185
Period size: 56 Copynumber: 3.0 Consensus size: 55
10492534 AATTAGAATT
* * * *
10492544 ATTT-TCTTTTTTT-TT-AATTTTTAATTTTTC-ATCATTTGAGCCTATTTA-AA
1 ATTTCTCTTTTTTTGTTGGATTTCTAAATTTTCTATCATTTGGGCCTATTTAGAA
* * *
10492594 AATTCTCTTTTTTTGTTGGATTTCTAAATTTT-TCACCATTAGGGCCTATTTAGAA
1 ATTTCTCTTTTTTTGTTGGATTTCTAAATTTTCT-ATCATTTGGGCCTATTTAGAA
* *
10492649 ATTCTCTCTTTTTTTGTTGGATTTCTAAATTTTCTATCATTTGGGTCAATTTAGAA
1 ATT-TCTCTTTTTTTGTTGGATTTCTAAATTTTCTATCATTTGGGCCTATTTAGAA
10492705 AT
1 AT
10492707 ATTTTCTTGT
Statistics
Matches: 93, Mismatches: 12, Indels: 10
0.81 0.10 0.09
Matches are distributed among these distances:
50 3 0.03
51 9 0.10
52 2 0.02
53 11 0.12
54 15 0.16
55 4 0.04
56 48 0.52
57 1 0.01
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (55 bp):
ATTTCTCTTTTTTTGTTGGATTTCTAAATTTTCTATCATTTGGGCCTATTTAGAA
Found at i:10494495 original size:30 final size:30
Alignment explanation
Indices: 10494459--10494553 Score: 104
Period size: 30 Copynumber: 3.2 Consensus size: 30
10494449 CATACCATTT
* *
10494459 TTTAAAAATTAAGCAAAAATTTTTATATCA
1 TTTAAAAATTAAGTAAAAATTTTCATATCA
* * *
10494489 TTTAAAAATTAAATAACAA-CTTCATA-CA
1 TTTAAAAATTAAGTAAAAATTTTCATATCA
*
10494517 TTTTTAAATATTAAGTAAAAATTTTCATATCA
1 --TTTAAAAATTAAGTAAAAATTTTCATATCA
10494549 TTTAA
1 TTTAA
10494554 TAAAATCAAT
Statistics
Matches: 52, Mismatches: 9, Indels: 8
0.75 0.13 0.12
Matches are distributed among these distances:
28 2 0.04
29 5 0.10
30 37 0.71
31 6 0.12
32 2 0.04
ACGTcount: A:0.48, C:0.08, G:0.02, T:0.41
Consensus pattern (30 bp):
TTTAAAAATTAAGTAAAAATTTTCATATCA
Found at i:10494942 original size:10 final size:10
Alignment explanation
Indices: 10494927--10494962 Score: 54
Period size: 10 Copynumber: 3.6 Consensus size: 10
10494917 AAATGAAATG
10494927 AAAATTTTTT
1 AAAATTTTTT
10494937 AAAATTTTTT
1 AAAATTTTTT
**
10494947 TTAATTTTTT
1 AAAATTTTTT
10494957 AAAATT
1 AAAATT
10494963 CATTTTAATT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (10 bp):
AAAATTTTTT
Found at i:10494952 original size:20 final size:20
Alignment explanation
Indices: 10494929--10494972 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
10494919 ATGAAATGAA
**
10494929 AATTTTTTAAAATTTTTTTT
1 AATTTTTTAAAATTCATTTT
10494949 AATTTTTTAAAATTCATTTT
1 AATTTTTTAAAATTCATTTT
10494969 AATT
1 AATT
10494973 AAAAATATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (20 bp):
AATTTTTTAAAATTCATTTT
Found at i:10498532 original size:41 final size:41
Alignment explanation
Indices: 10498475--10498555 Score: 162
Period size: 41 Copynumber: 2.0 Consensus size: 41
10498465 ATTTGAGCCT
10498475 CAGCCAAGTGTAAGGTTCTTCTACTCTAGCTAATGATTGAC
1 CAGCCAAGTGTAAGGTTCTTCTACTCTAGCTAATGATTGAC
10498516 CAGCCAAGTGTAAGGTTCTTCTACTCTAGCTAATGATTGA
1 CAGCCAAGTGTAAGGTTCTTCTACTCTAGCTAATGATTGA
10498556 TCATTATATA
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (41 bp):
CAGCCAAGTGTAAGGTTCTTCTACTCTAGCTAATGATTGAC
Found at i:10499335 original size:14 final size:14
Alignment explanation
Indices: 10499316--10499357 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
10499306 GTCTTTAATT
10499316 AATTTATATTTTAA
1 AATTTATATTTTAA
***
10499330 AATTTATATAAAAA
1 AATTTATATTTTAA
10499344 AATTTA-ATTTTAA
1 AATTTATATTTTAA
10499357 A
1 A
10499358 TATCTTCTTT
Statistics
Matches: 22, Mismatches: 6, Indels: 1
0.76 0.21 0.03
Matches are distributed among these distances:
13 5 0.23
14 17 0.77
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (14 bp):
AATTTATATTTTAA
Found at i:10500553 original size:8 final size:8
Alignment explanation
Indices: 10500540--10500584 Score: 76
Period size: 8 Copynumber: 5.9 Consensus size: 8
10500530 TGAAGCAAAT
10500540 AAAGAATA
1 AAAGAATA
10500548 AAAGAATA
1 AAAGAATA
10500556 AAA-AATA
1 AAAGAATA
10500563 AAAGAATA
1 AAAGAATA
10500571 AAA-AATA
1 AAAGAATA
10500578 AAAGAAT
1 AAAGAAT
10500585 TAGAGAACTA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
7 14 0.40
8 21 0.60
ACGTcount: A:0.78, C:0.00, G:0.09, T:0.13
Consensus pattern (8 bp):
AAAGAATA
Found at i:10500557 original size:15 final size:15
Alignment explanation
Indices: 10500537--10500584 Score: 87
Period size: 15 Copynumber: 3.2 Consensus size: 15
10500527 AAATGAAGCA
*
10500537 AATAAAGAATAAAAG
1 AATAAAAAATAAAAG
10500552 AATAAAAAATAAAAG
1 AATAAAAAATAAAAG
10500567 AATAAAAAATAAAAG
1 AATAAAAAATAAAAG
10500582 AAT
1 AAT
10500585 TAGAGAACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
15 32 1.00
ACGTcount: A:0.77, C:0.00, G:0.08, T:0.15
Consensus pattern (15 bp):
AATAAAAAATAAAAG
Found at i:10507688 original size:5 final size:5
Alignment explanation
Indices: 10507678--10507711 Score: 52
Period size: 5 Copynumber: 7.0 Consensus size: 5
10507668 GAAGTCTTTC
*
10507678 TTTTG TTTTG TTTTG TTTTG TTTT- TTTTT TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG TTTTG
10507712 GATGAGATGA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (5 bp):
TTTTG
Found at i:10507698 original size:15 final size:14
Alignment explanation
Indices: 10507678--10507711 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
10507668 GAAGTCTTTC
10507678 TTTTGTTTTGTTTTG
1 TTTTGTTTT-TTTTG
*
10507693 TTTTGTTTTTTTTT
1 TTTTGTTTTTTTTG
10507707 TTTTG
1 TTTTG
10507712 GATGAGATGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 9 0.50
15 9 0.50
ACGTcount: A:0.00, C:0.00, G:0.15, T:0.85
Consensus pattern (14 bp):
TTTTGTTTTTTTTG
Found at i:10508998 original size:17 final size:18
Alignment explanation
Indices: 10508958--10508998 Score: 68
Period size: 17 Copynumber: 2.4 Consensus size: 18
10508948 AAAAGGTTAC
10508958 AAAAA-TCCAAAAAATTA
1 AAAAATTCCAAAAAATTA
10508975 AAAAATTCC-AAAAATTA
1 AAAAATTCCAAAAAATTA
10508992 AAAAATT
1 AAAAATT
10508999 TTTAAAATTT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 20 0.87
18 3 0.13
ACGTcount: A:0.68, C:0.10, G:0.00, T:0.22
Consensus pattern (18 bp):
AAAAATTCCAAAAAATTA
Found at i:10509721 original size:25 final size:25
Alignment explanation
Indices: 10509680--10509728 Score: 73
Period size: 24 Copynumber: 2.0 Consensus size: 25
10509670 TCAAATTTTT
10509680 TCAGATTTTTTAATTTTT-AAAAAG
1 TCAGATTTTTTAATTTTTGAAAAAG
*
10509704 TCAGATTTTTTATTTTTTTGAAAAA
1 TCAGATTTTTTA-ATTTTTGAAAAA
10509729 TTTTAATTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 12 0.55
25 5 0.23
26 5 0.23
ACGTcount: A:0.35, C:0.04, G:0.08, T:0.53
Consensus pattern (25 bp):
TCAGATTTTTTAATTTTTGAAAAAG
Found at i:10509781 original size:27 final size:26
Alignment explanation
Indices: 10509751--10509844 Score: 66
Period size: 27 Copynumber: 3.5 Consensus size: 26
10509741 AGATTTTCCT
10509751 ATTTGTTTACTTTTTGGATTTTTAAAA
1 ATTT-TTTACTTTTTGGATTTTTAAAA
* * * *
10509778 ATTTTCGTATTTTTTGAATTTTT-AAT
1 ATTTT-TTACTTTTTGGATTTTTAAAA
* *
10509804 A-TTTTTACTTTTTTTAGTTTTTTAAAA
1 ATTTTTTAC--TTTTTGGATTTTTAAAA
*
10509831 ATTTGTTTAGTTTT
1 ATTT-TTTACTTTT
10509845 AAGAATTTGG
Statistics
Matches: 50, Mismatches: 11, Indels: 12
0.68 0.15 0.16
Matches are distributed among these distances:
24 2 0.04
25 3 0.06
26 14 0.28
27 25 0.50
28 2 0.04
29 4 0.08
ACGTcount: A:0.23, C:0.03, G:0.09, T:0.65
Consensus pattern (26 bp):
ATTTTTTACTTTTTGGATTTTTAAAA
Found at i:10509957 original size:18 final size:18
Alignment explanation
Indices: 10509919--10509958 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
10509909 TTTAGATTTC
* *
10509919 TTTTGAAAATTTTTGAAA
1 TTTTCAAAATTTTGGAAA
*
10509937 TTTTCAAAATTTTGGATA
1 TTTTCAAAATTTTGGAAA
10509955 TTTT
1 TTTT
10509959 TATTAATTAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.55
Consensus pattern (18 bp):
TTTTCAAAATTTTGGAAA
Found at i:10515545 original size:48 final size:48
Alignment explanation
Indices: 10515493--10515811 Score: 473
Period size: 48 Copynumber: 6.7 Consensus size: 48
10515483 AACAGAAGAG
* *
10515493 AATTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTCCAATATGA
1 AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGA
** * *
10515541 AATTTTAAAGTTGTTGAGCCTCTGTTGATAGGAGCTTTTTCAAGATGA
1 AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGA
* *
10515589 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAATATGA
1 AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGA
* *
10515637 GAA-TTTAAAGTTGTTGAGCTTCTACTGAGAGGAGCTTTTTCAAGA-G-
1 -AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGA
*
10515683 AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATGA
1 AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGA
* * *
10515731 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAACTTTTCCAAGATGA
1 AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGA
*
10515779 GATTTTAAAGTTGTTGAGCCTCTACTGAGAGGA
1 AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGA
10515812 CCCTGCATTG
Statistics
Matches: 245, Mismatches: 22, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
45 2 0.01
46 41 0.17
47 2 0.01
48 198 0.81
49 2 0.01
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.35
Consensus pattern (48 bp):
AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAAGATGA
Found at i:10515670 original size:96 final size:96
Alignment explanation
Indices: 10515493--10516023 Score: 615
Period size: 96 Copynumber: 5.4 Consensus size: 96
10515483 AACAGAAGAG
*
10515493 AATTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTCCAATATGAAATTTTAAAGTTGTTGA
1 AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAATATGAAATTTTAAAGTTGTTGA
* *
10515558 GCCTCTGTTGATAGGAGCTTTTTCAAGATGA
66 GCCTCTGCTGAGAGGAGCTTTTTCAAGATGA
*
10515589 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTCCAATATGAGAA-TTTAAAGTTGTTG
1 AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAATATGA-AATTTTAAAGTTGTTG
* *
10515653 AGCTTCTACTGAGAGGAGCTTTTTCAAGA-G-
65 AGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA
* *
10515683 AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGA
1 AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAATATGAAATTTTAAAGTTGTTGA
* * *
10515748 GCCTCTGCTGAGAAGAACTTTTCCAAGATGA
66 GCCTCTGCTGAGAGGAGCTTTTTCAAGATGA
* * *** * *
10515779 GATTTTAAAGTTGTTGAGCCTCTACTGAGAGGACCCTGCATTGAGAGGAGCTTTTTCAAGAGATT
1 AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGA----GCTTTTCCA--A------T-ATGA-AAT
**
10515844 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-TTTTTTTAGATGA
52 TTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA
* * * * *
10515888 GATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGGTTTTTCAAGATGAAATTTTAAAGTTGTTG
1 -AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAATATGAAATTTTAAAGTTGTTG
10515953 AGCCTCTGCTGAGAGGAGCTTTTTTCAAGA-G-
65 AGCCTCTGCTGAGAGGAGC-TTTTTCAAGATGA
* *
10515984 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGAAGCCTTTT
1 AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAG-CTTTT
10516024 AAACTTTCAA
Statistics
Matches: 368, Mismatches: 45, Indels: 44
0.81 0.10 0.10
Matches are distributed among these distances:
93 2 0.01
94 82 0.22
95 32 0.09
96 153 0.42
97 6 0.02
98 8 0.02
100 5 0.01
102 1 0.00
104 1 0.00
106 4 0.01
109 13 0.04
110 61 0.17
ACGTcount: A:0.27, C:0.13, G:0.24, T:0.36
Consensus pattern (96 bp):
AATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTCCAATATGAAATTTTAAAGTTGTTGA
GCCTCTGCTGAGAGGAGCTTTTTCAAGATGA
Found at i:10515721 original size:142 final size:143
Alignment explanation
Indices: 10515490--10516023 Score: 680
Period size: 142 Copynumber: 3.6 Consensus size: 143
10515480 GAAAACAGAA
* * *
10515490 GAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGAAGCTTTTCCAATATGAAATTTTAAAGTTGT
1 GAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGA-G-AATTTTAAAGTTGT
* * *
10515555 TGAGCCTCTGTTGATAGGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAG
64 TGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAA
*
10515620 GAGCTTTTCCAATAT
129 GAGCTTTTCCAAGAT
*
10515635 GAGAA-TTTAAAGTTGTTGAGCTTCTACTGAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTGTTG
1 GAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTGTTG
*
10515699 AGCCTCTACTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGA
66 AGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGA
*
10515764 ACTTTTCCAAGAT
131 GCTTTTCCAAGAT
10515777 GAG-ATTTTAAAGTTGTTGAGCCTCTACTGAGAGGACCCTGCATTGAGAGGAGCTTTTTCAAGAG
1 GAGAATTTTAAAGTTGTTGAG-C-CT-CT------A-----C--TGAGAGGAGCTTTTTCAAGAG
* ** *
10515841 ATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-TTTTTTTAGATGAGATTTTTAAAGTTGTTG
50 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTCAAGATGA-AATTTTAAAGTTGTTG
* * *
10515905 AGCCTCTACTGAGAAGAGGTTTTTCAAGAT
114 AGCCTCTGCTGAGAAGAGCTTTTCCAAGAT
*
10515935 GA-AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCTTTTTTCAAGAGAATTTTAAAGTTGTT
1 GAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGC-TTTTTCAAGAGAATTTTAAAGTTGTT
* *
10515999 GAGCCTCTGCTGAGAGAAGCCTTTT
65 GAGCCTCTGCTGAGAGGAGCTTTTT
10516024 AAACTTTCAA
Statistics
Matches: 344, Mismatches: 24, Indels: 43
0.84 0.06 0.10
Matches are distributed among these distances:
141 1 0.00
142 116 0.34
143 45 0.13
144 44 0.13
145 7 0.02
151 1 0.00
155 2 0.01
156 3 0.01
157 12 0.03
158 113 0.33
ACGTcount: A:0.28, C:0.13, G:0.24, T:0.36
Consensus pattern (143 bp):
GAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTGTTG
AGCCTCTGCTGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGA
GCTTTTCCAAGAT
Found at i:10515898 original size:48 final size:46
Alignment explanation
Indices: 10515820--10516014 Score: 282
Period size: 48 Copynumber: 4.1 Consensus size: 46
10515810 GACCCTGCAT
* *
10515820 TGAGAGGAGCTTTTTCAAGAGATTTTTAAAGTTGTTGAGCCTCTGC
1 TGAGAGGAGTTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTGC
* * *
10515866 TGAGAGGAGTTTTTTTAGATGAGATTTTTAAAGTTGTTGAGCCTCTAC
1 TGAGAGGAGTTTTTTCA-A-GAGAATTTTAAAGTTGTTGAGCCTCTGC
* *
10515914 TGAGAAGAGGTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGC
1 TGAGAGGAGTTTTTTCAAGA-G-AATTTTAAAGTTGTTGAGCCTCTGC
10515962 TGAGAGGAGCTTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTGC
1 TGAGAGGAG-TTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTGC
10516009 TGAGAG
1 TGAGAG
10516015 AAGCCTTTTA
Statistics
Matches: 134, Mismatches: 10, Indels: 9
0.88 0.07 0.06
Matches are distributed among these distances:
46 17 0.13
47 34 0.25
48 73 0.54
49 10 0.07
ACGTcount: A:0.26, C:0.11, G:0.26, T:0.37
Consensus pattern (46 bp):
TGAGAGGAGTTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTGC
Found at i:10515903 original size:110 final size:112
Alignment explanation
Indices: 10515708--10515918 Score: 338
Period size: 110 Copynumber: 1.9 Consensus size: 112
10515698 GAGCCTCTAC
10515708 TGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAACTTTTCCA
1 TGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAACTTTTCCA
10515773 AGATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGAGGACCCTGCAT
66 AGATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGAGGACCCTGCAT
* * * ***
10515820 TGAGAGGAGCTTTTTCAAGA-G-ATTTTTAAAGTTGTTGAGCCTCTGCTGAG-AGGAGTTTTTTT
1 TGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAACTTTTCCA
10515882 AGATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGA
66 AGATGAGA-TTTTAAAGTTGTTGAGCCTCTACTGAGA
10515919 AGAGGTTTTT
Statistics
Matches: 92, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
109 15 0.16
110 56 0.61
111 1 0.01
112 20 0.22
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (112 bp):
TGAGAGGAGCTTTTTCAAGATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAACTTTTCCA
AGATGAGATTTTAAAGTTGTTGAGCCTCTACTGAGAGGACCCTGCAT
Found at i:10515950 original size:158 final size:158
Alignment explanation
Indices: 10515662--10515969 Score: 501
Period size: 158 Copynumber: 1.9 Consensus size: 158
10515652 GAGCTTCTAC
10515662 TGAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAG
1 TGAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAG
* *
10515727 ATGAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAAGAACTTTTCCAAGATGAGATTTTAAAGTTG
66 ATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGAAGAACTTTTCCAAGATGAAATTTTAAAGTTG
10515792 TTGAGCCTCTACTGAGAGGACCCTGCAT
131 TTGAGCCTCTACTGAGAGGACCCTGCAT
* * **
10515820 TGAGAGGAGCTTTTTCAAGAGATTTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAG-TTTTTTTAG
1 TGAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAG
* ** *
10515884 ATGAGATTTTTAAAGTTGTTGAGCCTCTACTGAGAAGAGGTTTTTCAAGATGAAATTTTAAAGTT
66 ATGA-AATTTTAAAGTTGTTGAGCCTCTACTGAGAAGAACTTTTCCAAGATGAAATTTTAAAGTT
*
10515949 GTTGAGCCTCTGCTGAGAGGA
130 GTTGAGCCTCTACTGAGAGGA
10515970 GCTTTTTTCA
Statistics
Matches: 138, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
157 11 0.08
158 127 0.92
ACGTcount: A:0.28, C:0.12, G:0.25, T:0.35
Consensus pattern (158 bp):
TGAGAGGAGCTTTTTCAAGAGAATTTTAAAGTTGTTGAGCCTCTACTGAGAGGAGCTTTTTCAAG
ATGAAATTTTAAAGTTGTTGAGCCTCTACTGAGAAGAACTTTTCCAAGATGAAATTTTAAAGTTG
TTGAGCCTCTACTGAGAGGACCCTGCAT
Found at i:10516212 original size:3 final size:3
Alignment explanation
Indices: 10516204--10516232 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
10516194 TAAACACCAT
10516204 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
10516233 TTTTTTTTTT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:10517210 original size:13 final size:13
Alignment explanation
Indices: 10517192--10517221 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10517182 AATCGAGCCA
*
10517192 AACCGTCGGACCG
1 AACCGTCGAACCG
10517205 AACCGTCGAACCG
1 AACCGTCGAACCG
10517218 AACC
1 AACC
10517222 ACGCATTGAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.40, G:0.23, T:0.07
Consensus pattern (13 bp):
AACCGTCGAACCG
Found at i:10517656 original size:18 final size:18
Alignment explanation
Indices: 10517614--10517658 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
10517604 ATTTTTTTTA
10517614 AAGTAATAAATAAAAATT
1 AAGTAATAAATAAAAATT
* *
10517632 GATTAATATAATAAAAA-T
1 AAGTAATA-AATAAAAATT
10517650 AAGTAATAA
1 AAGTAATAA
10517659 GAATGAGAAG
Statistics
Matches: 22, Mismatches: 4, Indels: 3
0.76 0.14 0.10
Matches are distributed among these distances:
17 1 0.05
18 13 0.59
19 8 0.36
ACGTcount: A:0.64, C:0.00, G:0.07, T:0.29
Consensus pattern (18 bp):
AAGTAATAAATAAAAATT
Found at i:10517843 original size:12 final size:12
Alignment explanation
Indices: 10517826--10517857 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
10517816 TTTTCTTCAA
10517826 AATTAAATAATT
1 AATTAAATAATT
10517838 AATTAAATAATT
1 AATTAAATAATT
*
10517850 AATAAAAT
1 AATTAAAT
10517858 TTTTGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATTAAATAATT
Found at i:10518560 original size:43 final size:43
Alignment explanation
Indices: 10518487--10518735 Score: 147
Period size: 43 Copynumber: 6.0 Consensus size: 43
10518477 TTTTTTGAAA
** * * *
10518487 AAAATAAATAAGGCTCCTCTAAGCAAAGGCTCAACGATTTTGG
1 AAAATAAATAATACTCCTCTAAACAGAGGCTCAACGACTTTGG
* * * **
10518530 AAAATAAATAATATTTCTTTAAACAGAGGCTCAATTACTTTGG
1 AAAATAAATAATACTCCTCTAAACAGAGGCTCAACGACTTTGG
* * **
10518573 AAAATAAATAATGCTCCTCTAAACAGAGGC-CAAACAACTTTAA
1 AAAATAAATAATACTCCTCTAAACAGAGGCTC-AACGACTTTGG
* ** * * **
10518616 AAAAT-AA-AA-ACTTCTCTAAGTAGAGCCTCAACAACTTTAA
1 AAAATAAATAATACTCCTCTAAACAGAGGCTCAACGACTTTGG
* * * **
10518656 AAAAT-AA-AATGCTCTTCTAAACAGAGGCAT-AACAACTTTTA
1 AAAATAAATAATACTCCTCTAAACAGAGGC-TCAACGACTTTGG
* * * *
10518697 AAAATAAA-AA-GCTCCTCTAAACAGAAGCACAACAACTTT
1 AAAATAAATAATACTCCTCTAAACAGAGGCTCAACGACTTT
10518736 TTAAAAATAA
Statistics
Matches: 167, Mismatches: 33, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
40 33 0.20
41 55 0.33
42 8 0.05
43 71 0.43
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (43 bp):
AAAATAAATAATACTCCTCTAAACAGAGGCTCAACGACTTTGG
Found at i:10518649 original size:40 final size:40
Alignment explanation
Indices: 10518544--10518748 Score: 148
Period size: 41 Copynumber: 5.0 Consensus size: 40
10518534 TAAATAATAT
* * ** **
10518544 TTCTTTAAACAGAGGCTCAATTACTTTGGAAAATAAATAATGC
1 TTCTCTAAACAGAGCCTCAACAACTTTAAAAAATAAA-AA--C
* *
10518587 TCCTCTAAACAGAGGCC-AAACAACTTTAAAAAATAAAAAC
1 TTCTCTAAACAGA-GCCTCAACAACTTTAAAAAATAAAAAC
** *
10518627 TTCTCTAAGTAGAGCCTCAACAACTTTAAAAAATAAAATGC
1 TTCTCTAAACAGAGCCTCAACAACTTTAAAAAATAAAA-AC
* *
10518668 -TCTTCTAAACAGAGGCAT-AACAACTTTTAAAAATAAAAAGC
1 TTC-TCTAAACAGA-GCCTCAACAACTTTAAAAAATAAAAA-C
* * *
10518709 TCCTCTAAACAGAAG-CACAACAACTTTTTAAAAATAAAAA
1 TTCTCTAAACAG-AGCCTCAACAAC-TTTAAAAAATAAAAA
10518749 GGCTCATCTA
Statistics
Matches: 131, Mismatches: 21, Indels: 21
0.76 0.12 0.12
Matches are distributed among these distances:
39 3 0.02
40 33 0.25
41 45 0.34
42 22 0.17
43 26 0.20
44 2 0.02
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.25
Consensus pattern (40 bp):
TTCTCTAAACAGAGCCTCAACAACTTTAAAAAATAAAAAC
Found at i:10518681 original size:81 final size:83
Alignment explanation
Indices: 10518573--10518747 Score: 223
Period size: 81 Copynumber: 2.1 Consensus size: 83
10518563 ATTACTTTGG
* *
10518573 AAAATAAATAATGCTCCTCTAAACAGAGGCCA-AACAACTTTAAAAAATAAAAA-CTTCTCTAAG
1 AAAAT-AA-AATGCTCCTCTAAACAGAGG-CATAACAACTTTAAAAAATAAAAAGCTCCTCTAAA
* *
10518636 TAG-AGCCTCAACAAC-TTTAA
63 CAGAAG-CACAACAACTTTTAA
* *
10518656 AAAATAAAATGCTCTTCTAAACAGAGGCATAACAACTTTTAAAAATAAAAAGCTCCTCTAAACAG
1 AAAATAAAATGCTCCTCTAAACAGAGGCATAACAACTTTAAAAAATAAAAAGCTCCTCTAAACAG
*
10518721 AAGCACAACAACTTTTTA
66 AAGCACAACAACTTTTAA
10518739 AAAATAAAA
1 AAAATAAAA
10518748 AGGCTCATCT
Statistics
Matches: 81, Mismatches: 7, Indels: 8
0.84 0.07 0.08
Matches are distributed among these distances:
80 2 0.02
81 39 0.48
82 20 0.25
83 20 0.25
ACGTcount: A:0.50, C:0.19, G:0.08, T:0.23
Consensus pattern (83 bp):
AAAATAAAATGCTCCTCTAAACAGAGGCATAACAACTTTAAAAAATAAAAAGCTCCTCTAAACAG
AAGCACAACAACTTTTAA
Found at i:10518772 original size:43 final size:42
Alignment explanation
Indices: 10518573--10518797 Score: 187
Period size: 41 Copynumber: 5.4 Consensus size: 42
10518563 ATTACTTTGG
* * * *
10518573 AAAATAAATAATGCTCCTCTAAACAGAGGC-CAAACAACTTTAA
1 AAAATAAA-AAGGCTCATCTAAACAGAAGCAC-AACAACTTTTA
** * *
10518616 AAAATAAAAA--CTTC-TCTAAGTAG-AGCCTCAACAACTTTAA
1 AAAATAAAAAGGC-TCATCTAAACAGAAG-CACAACAACTTTTA
* * * *
10518656 AAAAT-AAAATGCTCTTCTAAACAGAGGCATAACAACTTTTA
1 AAAATAAAAAGGCTCATCTAAACAGAAGCACAACAACTTTTA
*
10518697 AAAATAAAAA-GCTCCTCTAAACAGAAGCACAACAACTTTTTA
1 AAAATAAAAAGGCTCATCTAAACAGAAGCACAACAAC-TTTTA
* * *
10518739 AAAATAAAAAGGCTCATCTAAATAGAAGAACAACAACTTTTGG
1 AAAATAAAAAGGCTCATCTAAACAGAAGCACAACAACTTTT-A
*
10518782 AAAA-CAAAAGGCTCAT
1 AAAATAAAAAGGCTCAT
10518798 TGACAATCCT
Statistics
Matches: 154, Mismatches: 17, Indels: 23
0.79 0.09 0.12
Matches are distributed among these distances:
39 5 0.03
40 27 0.18
41 50 0.32
42 37 0.24
43 35 0.23
ACGTcount: A:0.49, C:0.19, G:0.10, T:0.22
Consensus pattern (42 bp):
AAAATAAAAAGGCTCATCTAAACAGAAGCACAACAACTTTTA
Found at i:10519214 original size:24 final size:21
Alignment explanation
Indices: 10519181--10519239 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 21
10519171 AAAAAGTTCA
10519181 AAAGTTCACATTTAATAAATCTT
1 AAAGTTCACATTT-A-AAATCTT
*
10519204 AAAGTTTCACATCTAAAATCTT
1 AAAG-TTCACATTTAAAATCTT
*
10519226 AAAGGTTCTCATTT
1 AAA-GTTCACATTT
10519240 GAGTTCTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 17 0.55
23 6 0.19
24 8 0.26
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (21 bp):
AAAGTTCACATTTAAAATCTT
Found at i:10519294 original size:21 final size:22
Alignment explanation
Indices: 10519251--10519347 Score: 110
Period size: 21 Copynumber: 4.4 Consensus size: 22
10519241 AGTTCTTCTT
*
10519251 AAAGATTCTTATTTGGAAAACTC
1 AAAGATTCTCATTT-GAAAACTC
10519274 AAAGATTCTCATTTG-AAACTC
1 AAAGATTCTCATTTGAAAACTC
* **
10519295 AAAGATTCTAATTT-AAGGCTC
1 AAAGATTCTCATTTGAAAACTC
10519316 AAA-AGTTCTCATTTGAAAAACTC
1 AAAGA-TTCTCATTTG-AAAACTC
10519339 AAAGATTCT
1 AAAGATTCT
10519348 AAAAAATTCT
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
20 1 0.02
21 34 0.55
22 1 0.02
23 25 0.40
24 1 0.02
ACGTcount: A:0.40, C:0.15, G:0.11, T:0.33
Consensus pattern (22 bp):
AAAGATTCTCATTTGAAAACTC
Found at i:10519436 original size:46 final size:46
Alignment explanation
Indices: 10519368--10519612 Score: 305
Period size: 46 Copynumber: 5.3 Consensus size: 46
10519358 CATTTGAAAT
* * * * *
10519368 TTAAAGATT-TTATTTAATACTCAAAGATTTTGATTTGAAAATGTT
1 TTAAAGATTCTCATTTAAGACTCAAAGGTTTTCATTTGAAAATGTC
* * ** *
10519413 TTAAAAATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAGCGTT
1 TTAAAGATTCTCATTTAAGACTCAAAGGTTTTCATTTGAAAATGTC
* * * *
10519459 TTAAAGGTTCTCATTTAAGACTCAAAGGTTCTT-ATTTAAAAACGTA
1 TTAAAGATTCTCATTTAAGACTCAAAGGTT-TTCATTTGAAAATGTC
* *
10519505 TTAAAGATTTTCATTTAAGACTCAAAGGTTTTCATTTTAAAATGTC
1 TTAAAGATTCTCATTTAAGACTCAAAGGTTTTCATTTGAAAATGTC
* *
10519551 TTAAAGATTCTCATTTAACACTCAAAAGTTTTCATTTGAAAATGTC
1 TTAAAGATTCTCATTTAAGACTCAAAGGTTTTCATTTGAAAATGTC
10519597 TTAAAGATTCTCATTT
1 TTAAAGATTCTCATTT
10519613 GAAAGCATTT
Statistics
Matches: 174, Mismatches: 23, Indels: 5
0.86 0.11 0.02
Matches are distributed among these distances:
45 10 0.06
46 163 0.94
47 1 0.01
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.41
Consensus pattern (46 bp):
TTAAAGATTCTCATTTAAGACTCAAAGGTTTTCATTTGAAAATGTC
Found at i:10519520 original size:25 final size:24
Alignment explanation
Indices: 10519436--10519685 Score: 103
Period size: 25 Copynumber: 10.7 Consensus size: 24
10519426 TTTAAGACTC
* * *
10519436 AAAGGTTCTCATTTGAAAGCGTTTT
1 AAAGATTCTCATTT-AAAACGTATT
* * *
10519461 AAAGGTTCTCATTTAAGAC---TC
1 AAAGATTCTCATTTAAAACGTATT
* *
10519482 AAAGGTTCTTATTTAAAAACGTATT
1 AAAGATTCTCATTT-AAAACGTATT
* * *
10519507 AAAGATTTTCATTTAAGAC---TC
1 AAAGATTCTCATTTAAAACGTATT
* * * *
10519528 AAAGGTTTTCATTTTAAAATGTCTT
1 AAAGATTCTCA-TTTAAAACGTATT
*
10519553 AAAGATTCTCATTTAACAC-TCA--
1 AAAGATTCTCATTTAAAACGT-ATT
* * *
10519575 AAAG-TTTTCATTTGAAAATGTCTT
1 AAAGATTCTCATTT-AAAACGTATT
* * *
10519599 AAAGATTCTCATTTGAAAGCATTTT
1 AAAGATTCTCATTT-AAAACGTATT
* *
10519624 AAAGATTCTCATTTAAGAC---TC
1 AAAGATTCTCATTTAAAACGTATT
* * *
10519645 AAAGGTTCTCATTTGAAAAAGTCTT
1 AAAGATTCTCATTT-AAAACGTATT
10519670 AAAGATTCTCATTTAA
1 AAAGATTCTCATTTAA
10519686 GACTTAAAGG
Statistics
Matches: 170, Mismatches: 37, Indels: 37
0.70 0.15 0.15
Matches are distributed among these distances:
21 47 0.28
22 20 0.12
23 2 0.01
24 22 0.13
25 79 0.46
ACGTcount: A:0.36, C:0.13, G:0.12, T:0.39
Consensus pattern (24 bp):
AAAGATTCTCATTTAAAACGTATT
Found at i:10519562 original size:117 final size:115
Alignment explanation
Indices: 10519465--10519707 Score: 301
Period size: 117 Copynumber: 2.1 Consensus size: 115
10519455 CGTTTTAAAG
* * * *
10519465 GTTCTCATTT-AA-GACTCAAAGGTTCTTATTTAAAAACGTATTAAAGATTTTCATTTAAGACTC
1 GTTCTCATTTAAATGACTCAAAGATTCTCATTTAAAAACATATTAAAGATTCTCATTTAAGACTC
* * *
10519528 AAAGGTTTTCATTTTAAAATGTCTTAAAGATTCTCATTTAACACTCAAAA
66 AAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTAACACTCAAAA
* * * * * *
10519578 GTTTTCATTTGAAAATGTCTTAAAGATTCTCATTTGAAAGCATTTTAAAGATTCTCATTTAAGAC
1 GTTCTCATTT--AAATGACTCAAAGATTCTCATTTAAAAACATATTAAAGATTCTCATTTAAGAC
* * *
10519643 TCAAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTAAGACTTAAAG
64 TCAAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTAACACTCAAAA
*
10519695 GTTCTTATTTAAA
1 GTTCTCATTTAAA
10519708 AACCTCTTAA
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
113 9 0.08
115 3 0.03
116 2 0.02
117 94 0.87
ACGTcount: A:0.36, C:0.13, G:0.11, T:0.40
Consensus pattern (115 bp):
GTTCTCATTTAAATGACTCAAAGATTCTCATTTAAAAACATATTAAAGATTCTCATTTAAGACTC
AAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTAACACTCAAAA
Found at i:10519611 original size:71 final size:70
Alignment explanation
Indices: 10519551--10519683 Score: 221
Period size: 71 Copynumber: 1.9 Consensus size: 70
10519541 TTAAAATGTC
* *
10519551 TTAAAGATTCTCATTTAACACTCAAAAGTTTTCATTTGAAAATGTCTTAAAGATTCTCATTTGAA
1 TTAAAGATTCTCATTTAACACTCAAAAGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTGAA
10519616 AGCATT
66 A-CATT
* *
10519622 TTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTT
1 TTAAAGATTCTCATTTAACACTCAAAAGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTT
10519684 AAGACTTAAA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
71 58 1.00
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (70 bp):
TTAAAGATTCTCATTTAACACTCAAAAGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTGAA
ACATT
Found at i:10519654 original size:46 final size:46
Alignment explanation
Indices: 10519599--10519721 Score: 160
Period size: 46 Copynumber: 2.7 Consensus size: 46
10519589 AAAATGTCTT
* * *
10519599 AAAGATTCTCATTTGAAAGCA-TTTTAAAGATTCTCATTTAAGACTC
1 AAAGGTTCTCATTTGAAA-AAGTCTTAAAGATTCTCATTTAAGACTC
*
10519645 AAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTAAGACTT
1 AAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTAAGACTC
* *
10519691 AAAGGTTCTTATTT-AAAAACCTCTTAAAGAT
1 AAAGGTTCTCATTTGAAAAA-GTCTTAAAGAT
10519722 CCTTATTCAA
Statistics
Matches: 69, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 6 0.09
46 63 0.91
ACGTcount: A:0.38, C:0.14, G:0.11, T:0.37
Consensus pattern (46 bp):
AAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTAAGACTC
Found at i:10519657 original size:138 final size:136
Alignment explanation
Indices: 10519370--10519658 Score: 305
Period size: 138 Copynumber: 2.1 Consensus size: 136
10519360 TTTGAAATTT
* * * * *
10519370 AAAGATT-TTATTTAATACTCAAAGATTTTGATTTGAAAATGTTTTAAAAATTCTCATTTAAGAC
1 AAAGATTCTCATTTAAGACTCAAAGATTTTCATTTGAAAATGTCTTAAAAATTCTCATTTAACAC
* * * * * *
10519434 TCAAAGGTTCTCATTTGAAAGCGTTTTAAAGGTTCTCATTTAAGACTCAAAGGTTCTTATTTAAA
66 TCAAAAGTTCTCATTTGAAAACGTCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTAAA
*
10519499 AACGTATT
131 AAC--ATC
* * * *
10519507 AAAGATTTTCATTTAAGACTCAAAGGTTTTCATTTTAAAATGTCTTAAAGATTCTCATTTAACAC
1 AAAGATTCTCATTTAAGACTCAAAGATTTTCATTTGAAAATGTCTTAAAAATTCTCATTTAACAC
* * * *
10519572 TCAAAAGTTTTCATTTGAAAATGTCTTAAAGATTCTCATTTGAAAGCATTTTAAAGATTCTCATT
66 TCAAAAGTTCTCATTTGAAAACGTCTTAAAGATTCTCATTT--AAG-A-CTCAAAGATTCTCATT
*
10519637 T-AAGAC-TC
127 TAAAAACATC
*
10519645 AAAGGTTCTCATTT
1 AAAGATTCTCATTT
10519659 GAAAAAGTCT
Statistics
Matches: 125, Mismatches: 22, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
137 7 0.06
138 97 0.78
140 3 0.02
141 5 0.04
142 13 0.10
ACGTcount: A:0.36, C:0.12, G:0.11, T:0.40
Consensus pattern (136 bp):
AAAGATTCTCATTTAAGACTCAAAGATTTTCATTTGAAAATGTCTTAAAAATTCTCATTTAACAC
TCAAAAGTTCTCATTTGAAAACGTCTTAAAGATTCTCATTTAAGACTCAAAGATTCTCATTTAAA
AACATC
Found at i:10519716 original size:117 final size:117
Alignment explanation
Indices: 10519505--10519721 Score: 328
Period size: 117 Copynumber: 1.9 Consensus size: 117
10519495 TAAAAACGTA
* * * *
10519505 TTAAAGATTTTCATTTAAGACTCAAAGGTTTTCATTTTAAAATGTCTTAAAGATTCTCATTTAAC
1 TTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTAAC
* **
10519570 ACTCAAAAGTTTTCATTTGAAAATGTCTTAAAGATTCTCATTTGAAAGCATT
66 ACTCAAAAGTTTTCATTTAAAAACCTCTTAAAGATTCTCATTTGAAAGCATT
*
10519622 TTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTAAG
1 TTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTAAC
* *
10519687 ACTTAAAGGTTCTT-ATTTAAAAACCTCTTAAAGAT
66 ACTCAAAAGTT-TTCATTTAAAAACCTCTTAAAGAT
10519722 CCTTATTCAA
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
117 87 0.98
118 2 0.02
ACGTcount: A:0.37, C:0.13, G:0.11, T:0.39
Consensus pattern (117 bp):
TTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAAAGTCTTAAAGATTCTCATTTAAC
ACTCAAAAGTTTTCATTTAAAAACCTCTTAAAGATTCTCATTTGAAAGCATT
Found at i:10519752 original size:163 final size:163
Alignment explanation
Indices: 10519436--10519731 Score: 425
Period size: 163 Copynumber: 1.8 Consensus size: 163
10519426 TTTAAGACTC
* * * *
10519436 AAAGGTTCTCATTTGAAAGCGTTTTAAAGGTTCTCATTTAAGACTCAAAGGTTCTTATTTAAAAA
1 AAAGATTCTCATTTGAAAGCATTTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTAAAAA
* * ** *
10519501 CGTATTAAAGATTTTCATTTAAGACTCAAAGGTTTTCATTTTAAAATGTCTTAAAGATTCTCATT
66 CGTATTAAAGATTCTCATTTAAGACTCAAAGGTTTTCATTTAAAAACCTCTTAAAGATCCTCATT
* * *
10519566 TAACACTCAAAAGTTTTCATTTGAAAATGTCTT
131 CAACAATCAAAAGTTCTCATTTGAAAATGTCTT
10519599 AAAGATTCTCATTTGAAAGCATTTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTGAAAA
1 AAAGATTCTCATTTGAAAGCATTTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTT-AAAA
* * *
10519664 A-GTCTTAAAGATTCTCATTTAAGACTTAAAGGTTCTT-ATTTAAAAACCTCTTAAAGATCCTTA
65 ACGTATTAAAGATTCTCATTTAAGACTCAAAGGTT-TTCATTTAAAAACCTCTTAAAGATCCTCA
10519727 TTCAA
129 TTCAA
10519732 GAATTAGAGA
Statistics
Matches: 118, Mismatches: 13, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
163 111 0.94
164 7 0.06
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (163 bp):
AAAGATTCTCATTTGAAAGCATTTTAAAGATTCTCATTTAAGACTCAAAGGTTCTCATTTAAAAA
CGTATTAAAGATTCTCATTTAAGACTCAAAGGTTTTCATTTAAAAACCTCTTAAAGATCCTCATT
CAACAATCAAAAGTTCTCATTTGAAAATGTCTT
Found at i:10520973 original size:10 final size:10
Alignment explanation
Indices: 10520960--10521006 Score: 51
Period size: 10 Copynumber: 4.5 Consensus size: 10
10520950 TTCTCTCATT
*
10520960 TTTTTTTTCC
1 TTTTTTTTCA
10520970 TTTTTTTTCA
1 TTTTTTTTCA
10520980 TTTTTTATT-A
1 TTTTTT-TTCA
10520990 TTATTTTTTTCA
1 -T-TTTTTTTCA
10521002 TTTTT
1 TTTTT
10521007 ATTTTTTCAT
Statistics
Matches: 32, Mismatches: 1, Indels: 8
0.78 0.02 0.20
Matches are distributed among these distances:
10 20 0.62
11 6 0.19
12 6 0.19
ACGTcount: A:0.11, C:0.09, G:0.00, T:0.81
Consensus pattern (10 bp):
TTTTTTTTCA
Found at i:10520983 original size:21 final size:22
Alignment explanation
Indices: 10520959--10521011 Score: 63
Period size: 22 Copynumber: 2.4 Consensus size: 22
10520949 TTTCTCTCAT
*
10520959 TTTTTTTTTCCT-TTTTTTTCA
1 TTTTTTTTTACTATTTTTTTCA
* *
10520980 TTTTTTATTATTATTTTTTTCA
1 TTTTTTTTTACTATTTTTTTCA
10521002 TTTTTATTTT
1 TTTTT-TTTT
10521012 TTCATTCTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
21 9 0.35
22 14 0.54
23 3 0.12
ACGTcount: A:0.11, C:0.08, G:0.00, T:0.81
Consensus pattern (22 bp):
TTTTTTTTTACTATTTTTTTCA
Found at i:10521014 original size:14 final size:14
Alignment explanation
Indices: 10520973--10521017 Score: 56
Period size: 14 Copynumber: 3.1 Consensus size: 14
10520963 TTTTTCCTTT
10520973 TTTTTCATTTTTT-A
1 TTTTT-ATTTTTTCA
*
10520987 TTATTATTTTTTTCA
1 TTTTTA-TTTTTTCA
10521002 TTTTTATTTTTTCA
1 TTTTTATTTTTTCA
10521016 TT
1 TT
10521018 CTTTTCTCTT
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
13 1 0.04
14 20 0.74
15 6 0.22
ACGTcount: A:0.16, C:0.07, G:0.00, T:0.78
Consensus pattern (14 bp):
TTTTTATTTTTTCA
Found at i:10521413 original size:19 final size:19
Alignment explanation
Indices: 10521386--10521430 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 19
10521376 TATTTATTTC
*
10521386 TCTTTTTTTT-TC-TTTTT
1 TCTTTTTTTTGCCTTTTTT
10521403 TCTTTTGTTTTGCCTTTTTT
1 TCTTTT-TTTTGCCTTTTTT
10521423 TCTTTTTT
1 TCTTTTTT
10521431 GTATCTTTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
17 6 0.25
18 4 0.17
19 3 0.12
20 11 0.46
ACGTcount: A:0.00, C:0.13, G:0.04, T:0.82
Consensus pattern (19 bp):
TCTTTTTTTTGCCTTTTTT
Found at i:10525026 original size:56 final size:56
Alignment explanation
Indices: 10524870--10525031 Score: 213
Period size: 55 Copynumber: 2.9 Consensus size: 56
10524860 AGAATTATTT
** * * *
10524870 TCTTTTTTT-TTTAATTTTTAAATTTTTCATCATTTGAGCCTATTTAGAAATTCTC
1 TCTTTTTTTGTTGGATTTCTAAATTTTTCATCATTTGGGCCAATTTAGAAATTCTC
* * *
10524925 T-TTTTTTTGTTGGATTTCTAAATTTTTCACCATTAGGGCCTATTTAGAAATTCTC
1 TCTTTTTTTGTTGGATTTCTAAATTTTTCATCATTTGGGCCAATTTAGAAATTCTC
*
10524980 TCTTTTTTTGTTGGATTTCTAAA-TTTTCTATCATTTGGGTCAATTTAGAAAT
1 TCTTTTTTTGTTGGATTTCTAAATTTTTC-ATCATTTGGGCCAATTTAGAAAT
10525032 ATTTTCTTGT
Statistics
Matches: 94, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
54 7 0.07
55 47 0.50
56 40 0.43
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.54
Consensus pattern (56 bp):
TCTTTTTTTGTTGGATTTCTAAATTTTTCATCATTTGGGCCAATTTAGAAATTCTC
Found at i:10525416 original size:11 final size:10
Alignment explanation
Indices: 10525402--10525434 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
10525392 TTTATCAATA
10525402 TTTTTATTTAT
1 TTTTTATTT-T
10525413 TTTTTA-TTT
1 TTTTTATTTT
10525422 TTTTTATTTT
1 TTTTTATTTT
10525432 TTT
1 TTT
10525435 GTTTTGAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 7 0.33
10 8 0.38
11 6 0.29
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (10 bp):
TTTTTATTTT
Found at i:10525439 original size:16 final size:17
Alignment explanation
Indices: 10525400--10525433 Score: 61
Period size: 16 Copynumber: 2.1 Consensus size: 17
10525390 TTTTTATCAA
10525400 TATTTTTATTTATTTTT
1 TATTTTTATTTATTTTT
10525417 TATTTTT-TTTATTTTT
1 TATTTTTATTTATTTTT
10525433 T
1 T
10525434 TGTTTTGAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (17 bp):
TATTTTTATTTATTTTT
Found at i:10525625 original size:14 final size:15
Alignment explanation
Indices: 10525602--10525635 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
10525592 CTAAAATTTA
10525602 TTTTATTTTTTACTT
1 TTTTATTTTTTACTT
*
10525617 TTTTA-TTTTTATTT
1 TTTTATTTTTTACTT
10525631 TTTTA
1 TTTTA
10525636 AAATTTAATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (15 bp):
TTTTATTTTTTACTT
Found at i:10536998 original size:15 final size:15
Alignment explanation
Indices: 10536978--10537007 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
10536968 CACCCTTGAC
10536978 TCTCACTCTAATTAT
1 TCTCACTCTAATTAT
10536993 TCTCACTCTAATTAT
1 TCTCACTCTAATTAT
10537008 GTTCTGGTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.27, G:0.00, T:0.47
Consensus pattern (15 bp):
TCTCACTCTAATTAT
Found at i:10541724 original size:2 final size:2
Alignment explanation
Indices: 10541717--10541742 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10541707 CCAAATTGCA
10541717 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10541743 GAAACTTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10542090 original size:18 final size:18
Alignment explanation
Indices: 10542069--10542110 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
10542059 AAATTTTCAA
*
10542069 ATTTTTTGAATTTTTAGT
1 ATTTTTAGAATTTTTAGT
*
10542087 ATTTTTAGTATTTTTAGT
1 ATTTTTAGAATTTTTAGT
10542105 -TTTTTA
1 ATTTTTA
10542111 AAAATTTGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 6 0.27
18 16 0.73
ACGTcount: A:0.21, C:0.00, G:0.10, T:0.69
Consensus pattern (18 bp):
ATTTTTAGAATTTTTAGT
Found at i:10542091 original size:8 final size:9
Alignment explanation
Indices: 10542078--10542110 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
10542068 AATTTTTTGA
10542078 ATTTTTAGT
1 ATTTTTAGT
10542087 ATTTTTAGT
1 ATTTTTAGT
10542096 ATTTTTAGT
1 ATTTTTAGT
10542105 -TTTTTA
1 ATTTTTA
10542111 AAAATTTGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
8 6 0.25
9 18 0.75
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (9 bp):
ATTTTTAGT
Found at i:10542689 original size:10 final size:9
Alignment explanation
Indices: 10542674--10542723 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
10542664 TTTAGATTTC
10542674 TTTTGAAAAT
1 TTTTG-AAAT
10542684 TTTTGAAAT
1 TTTTGAAAT
*
10542693 TTTTGAAAA
1 TTTTGAAAT
10542702 TTTTGAAAT
1 TTTTGAAAT
* *
10542711 TTTGGATAT
1 TTTTGAAAT
10542720 TTTT
1 TTTT
10542724 ACTAATTATA
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
9 30 0.86
10 5 0.14
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (9 bp):
TTTTGAAAT
Found at i:10542705 original size:18 final size:19
Alignment explanation
Indices: 10542674--10542713 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
10542664 TTTAGATTTC
10542674 TTTTGAAAATTTTTGAAAT
1 TTTTGAAAATTTTTGAAAT
10542693 TTTTGAAAA-TTTTGAAAT
1 TTTTGAAAATTTTTGAAAT
10542711 TTT
1 TTT
10542714 GGATATTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.35, C:0.00, G:0.10, T:0.55
Consensus pattern (19 bp):
TTTTGAAAATTTTTGAAAT
Found at i:10542830 original size:12 final size:12
Alignment explanation
Indices: 10542815--10542844 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
10542805 TTTTTCTGAA
*
10542815 TTTTGAAAATAT
1 TTTTAAAAATAT
10542827 TTTTAAAAATAT
1 TTTTAAAAATAT
10542839 TTTTAA
1 TTTTAA
10542845 TGTTTTTCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (12 bp):
TTTTAAAAATAT
Found at i:10544956 original size:101 final size:101
Alignment explanation
Indices: 10544845--10545047 Score: 388
Period size: 101 Copynumber: 2.0 Consensus size: 101
10544835 TACCTAAAAA
10544845 ATATAATAATAATTAATCTTAAATGAGAGTTGGAAACATTGATTACTATATCTATGGTGTACGGT
1 ATATAATAATAATTAATCTTAAATGAGAGTTGGAAACATTGATTACTATATCTATGGTGTACGGT
*
10544910 ATTACATCTCGGTATTGATAGAAGTATCTATTTTTT
66 ATTACATCTCGGTATTGATAGAAGTATCTATATTTT
*
10544946 ATATAATAATAATTAATCTTAAATGAGAGTTGGAAACATTGATTACTGTATCTATGGTGTACGGT
1 ATATAATAATAATTAATCTTAAATGAGAGTTGGAAACATTGATTACTATATCTATGGTGTACGGT
10545011 ATTACATCTCGGTATTGATAGAAGTATCTATATTTT
66 ATTACATCTCGGTATTGATAGAAGTATCTATATTTT
10545047 A
1 A
10545048 AAGGGTTGAG
Statistics
Matches: 100, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
101 100 1.00
ACGTcount: A:0.35, C:0.09, G:0.16, T:0.40
Consensus pattern (101 bp):
ATATAATAATAATTAATCTTAAATGAGAGTTGGAAACATTGATTACTATATCTATGGTGTACGGT
ATTACATCTCGGTATTGATAGAAGTATCTATATTTT
Found at i:10545947 original size:3 final size:3
Alignment explanation
Indices: 10545941--10545966 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10545931 ATTTTTTTAA
10545941 TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TA
10545967 ATCTTAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10547041 original size:13 final size:13
Alignment explanation
Indices: 10547023--10547060 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
10547013 ATTCCTTTAG
10547023 AAATAAATAAATA
1 AAATAAATAAATA
10547036 AAATAAAT-AATA
1 AAATAAATAAATA
10547048 AAACTAAAATAAA
1 AAA-T-AAATAAA
10547061 ATATGGACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.32
13 9 0.41
14 4 0.18
15 2 0.09
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (13 bp):
AAATAAATAAATA
Found at i:10547409 original size:3 final size:3
Alignment explanation
Indices: 10547401--10547468 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
10547391 TTTAAACAAT
10547401 ATA ATA ATA ATA 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
10547449 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
10547469 TGATATTTGA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:10557313 original size:19 final size:19
Alignment explanation
Indices: 10557289--10557327 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
10557279 TAAAACATAC
*
10557289 TTATATA-AGATACACTATA
1 TTATATACAGA-ACAATATA
10557308 TTATATACAGAACAATATA
1 TTATATACAGAACAATATA
10557327 T
1 T
10557328 GTTTACCCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 15 0.83
20 3 0.17
ACGTcount: A:0.49, C:0.10, G:0.05, T:0.36
Consensus pattern (19 bp):
TTATATACAGAACAATATA
Found at i:10560063 original size:18 final size:18
Alignment explanation
Indices: 10560037--10560071 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10560027 ATAATATACA
* *
10560037 TAAAGTTATTTTTAATGC
1 TAAAATTATTTTCAATGC
10560055 TAAAATTATTTTCAATG
1 TAAAATTATTTTCAATG
10560072 TTATAACTTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.37, C:0.06, G:0.09, T:0.49
Consensus pattern (18 bp):
TAAAATTATTTTCAATGC
Found at i:10563083 original size:32 final size:33
Alignment explanation
Indices: 10563025--10563086 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 33
10563015 TTTTTTTTGT
10563025 TTAAAAAATTATAATCATAATAAAATAAATCAA
1 TTAAAAAATTATAATCATAATAAAATAAATCAA
* *
10563058 TTAATAAATTATAA-CATAATTAAATAAAT
1 TTAAAAAATTATAATCATAATAAAATAAAT
10563087 TTAATTCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 14 0.52
33 13 0.48
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (33 bp):
TTAAAAAATTATAATCATAATAAAATAAATCAA
Found at i:10563099 original size:32 final size:32
Alignment explanation
Indices: 10563028--10563108 Score: 94
Period size: 32 Copynumber: 2.5 Consensus size: 32
10563018 TTTTTGTTTA
10563028 AAAAATTATAATCATAATAAAATAAATCAATT
1 AAAAATTATAATCATAATAAAATAAATCAATT
* *
10563060 AATAAATTATAA-CATAATTAAATAAATTTAATT
1 AA-AAATTATAATCATAATAAAATAAA-TCAATT
* *
10563093 CAAAATTAAAAT-ATAA
1 AAAAATTATAATCATAA
10563109 AACTCATACA
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
32 27 0.64
33 15 0.36
ACGTcount: A:0.62, C:0.05, G:0.00, T:0.33
Consensus pattern (32 bp):
AAAAATTATAATCATAATAAAATAAATCAATT
Found at i:10563714 original size:25 final size:26
Alignment explanation
Indices: 10563675--10563731 Score: 66
Period size: 24 Copynumber: 2.2 Consensus size: 26
10563665 TAAAATGATA
10563675 TTTAAAATAATACA-TTAAATATAATTT
1 TTTAAAATAATACATTTAAAT-T-ATTT
*
10563702 TTTAAAAT-A-ACATTTTAATTATTT
1 TTTAAAATAATACATTTAAATTATTT
10563726 TTTAAA
1 TTTAAA
10563732 GTTATAAATT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
24 10 0.36
25 4 0.14
26 6 0.21
27 8 0.29
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (26 bp):
TTTAAAATAATACATTTAAATTATTT
Found at i:10563719 original size:27 final size:24
Alignment explanation
Indices: 10563675--10563731 Score: 60
Period size: 27 Copynumber: 2.2 Consensus size: 24
10563665 TAAAATGATA
*
10563675 TTTAAAATAATACATTAAATATAATTT
1 TTTAAAATAACACATT-AAT-T-ATTT
**
10563702 TTTAAAATAACATTTTAATTATTT
1 TTTAAAATAACACATTAATTATTT
10563726 TTTAAA
1 TTTAAA
10563732 GTTATAAATT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
24 10 0.37
25 1 0.04
26 3 0.11
27 13 0.48
ACGTcount: A:0.47, C:0.04, G:0.00, T:0.49
Consensus pattern (24 bp):
TTTAAAATAACACATTAATTATTT
Found at i:10570454 original size:22 final size:22
Alignment explanation
Indices: 10570426--10570468 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
10570416 TCTTTTTTCG
10570426 TTTTCTCTTCTC-CTTCCTCTCA
1 TTTTCTC-TCTCGCTTCCTCTCA
*
10570448 TTTTCTCTCTCGCTTTCTCTC
1 TTTTCTCTCTCGCTTCCTCTC
10570469 TCTCTCTCTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.02, C:0.40, G:0.02, T:0.56
Consensus pattern (22 bp):
TTTTCTCTCTCGCTTCCTCTCA
Found at i:10571058 original size:13 final size:13
Alignment explanation
Indices: 10571040--10571064 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
10571030 TATTGAATAT
10571040 AAGTTTGTTTTTC
1 AAGTTTGTTTTTC
10571053 AAGTTTGTTTTT
1 AAGTTTGTTTTT
10571065 GTTTTCTGCA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.04, G:0.16, T:0.64
Consensus pattern (13 bp):
AAGTTTGTTTTTC
Found at i:10572173 original size:50 final size:50
Alignment explanation
Indices: 10572098--10572199 Score: 186
Period size: 50 Copynumber: 2.0 Consensus size: 50
10572088 TAAAATTATA
* *
10572098 AACTATGACCTTGACATTTATGATGGATTATGATCATGTGTTAAGCATTT
1 AACTATGACCCTGACATTTATGATGGATTATGATCATGTGTTAAGAATTT
10572148 AACTATGACCCTGACATTTATGATGGATTATGATCATGTGTTAAGAATTT
1 AACTATGACCCTGACATTTATGATGGATTATGATCATGTGTTAAGAATTT
10572198 AA
1 AA
10572200 ACTAAAACTA
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.32, C:0.12, G:0.18, T:0.38
Consensus pattern (50 bp):
AACTATGACCCTGACATTTATGATGGATTATGATCATGTGTTAAGAATTT
Found at i:10579554 original size:2 final size:2
Alignment explanation
Indices: 10579547--10579571 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10579537 AAAGTAATTA
10579547 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
10579572 GAGAGAGAGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:10579576 original size:2 final size:2
Alignment explanation
Indices: 10579571--10579609 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
10579561 ATATATATAT
*
10579571 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AA AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10579610 AAAGAGATCC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.54, C:0.00, G:0.46, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10579615 original size:7 final size:8
Alignment explanation
Indices: 10579573--10579616 Score: 54
Period size: 8 Copynumber: 5.6 Consensus size: 8
10579563 ATATATATAG
*
10579573 AGAGAGAG
1 AGAGAGAA
*
10579581 AGAGAGAG
1 AGAGAGAA
*
10579589 AGAGAGAG
1 AGAGAGAA
10579597 AGAGAGAA
1 AGAGAGAA
10579605 AGAGA-AA
1 AGAGAGAA
10579612 AGAGA
1 AGAGA
10579617 TCCATTTATA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
7 7 0.20
8 28 0.80
ACGTcount: A:0.57, C:0.00, G:0.43, T:0.00
Consensus pattern (8 bp):
AGAGAGAA
Found at i:10579781 original size:17 final size:18
Alignment explanation
Indices: 10579750--10579783 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
10579740 AAAAAATTTT
10579750 TTTTATCAATGAATTTAA
1 TTTTATCAATGAATTTAA
*
10579768 TTTTATTAAT-AATTTA
1 TTTTATCAATGAATTTA
10579784 TAGGTGATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (18 bp):
TTTTATCAATGAATTTAA
Found at i:10580427 original size:23 final size:24
Alignment explanation
Indices: 10580392--10580441 Score: 68
Period size: 22 Copynumber: 2.1 Consensus size: 24
10580382 TTTGGGTTTA
10580392 TTTTTAGTATTGTTGAGGAAATTTT
1 TTTTTAGTATTGTTGA-GAAATTTT
*
10580417 TTTTTA-T-TTGTTGAGTAATTTT
1 TTTTTAGTATTGTTGAGAAATTTT
10580439 TTT
1 TTT
10580442 ATTTGTGTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
22 10 0.42
23 7 0.29
24 1 0.04
25 6 0.25
ACGTcount: A:0.20, C:0.00, G:0.16, T:0.64
Consensus pattern (24 bp):
TTTTTAGTATTGTTGAGAAATTTT
Found at i:10585013 original size:22 final size:22
Alignment explanation
Indices: 10584980--10585030 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 22
10584970 ATTTTACAAA
10584980 AAAAAATCTATG-AAAATAATACT
1 AAAAAATCTATGCAAAATAAT--T
10585003 AAAAAAT-TATGCTAAAATAATT
1 AAAAAATCTATGC-AAAATAATT
10585025 AAAAAA
1 AAAAAA
10585031 ACTCCTTAAG
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
22 11 0.42
23 7 0.27
24 8 0.31
ACGTcount: A:0.65, C:0.06, G:0.04, T:0.25
Consensus pattern (22 bp):
AAAAAATCTATGCAAAATAATT
Found at i:10585031 original size:24 final size:22
Alignment explanation
Indices: 10584978--10585031 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 22
10584968 ACATTTTACA
10584978 AAAAAAAATCTATGAAAATAAT
1 AAAAAAAATCTATGAAAATAAT
*
10585000 ACTAAAAAAT-TATGCTAAAATAAT
1 A-AAAAAAATCTATG--AAAATAAT
*
10585024 TAAAAAAA
1 AAAAAAAA
10585032 CTCCTTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
22 5 0.19
23 13 0.50
24 8 0.31
ACGTcount: A:0.67, C:0.06, G:0.04, T:0.24
Consensus pattern (22 bp):
AAAAAAAATCTATGAAAATAAT
Found at i:10585441 original size:31 final size:31
Alignment explanation
Indices: 10585379--10585457 Score: 104
Period size: 31 Copynumber: 2.5 Consensus size: 31
10585369 GACCTGGTAA
* * * *
10585379 TTCATGTATTTGTGTTGTGTAAAATATTAAAT
1 TTCATGTATTTGT-ATCTATAAAATACTAAAT
10585411 TTCATGTATTTGTATCTATAAAATACTAAAT
1 TTCATGTATTTGTATCTATAAAATACTAAAT
*
10585442 TTCATGTATTCGTATC
1 TTCATGTATTTGTATC
10585458 GTGTTTTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
31 29 0.69
32 13 0.31
ACGTcount: A:0.32, C:0.09, G:0.11, T:0.48
Consensus pattern (31 bp):
TTCATGTATTTGTATCTATAAAATACTAAAT
Found at i:10586893 original size:35 final size:35
Alignment explanation
Indices: 10586842--10586918 Score: 111
Period size: 35 Copynumber: 2.2 Consensus size: 35
10586832 GTTTAATTAT
* * *
10586842 ACATGTGAAGTTAGTTGTA-GTTTTATGCCTAAAAA
1 ACATTTGAAGTCAGTTGTAGGTTGT-TGCCTAAAAA
10586877 ACATTTGAAGTCAGTTGTAGGTTGTTGCCTAAAAA
1 ACATTTGAAGTCAGTTGTAGGTTGTTGCCTAAAAA
10586912 ACATTTG
1 ACATTTG
10586919 GTTAGTTGAT
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
35 34 0.89
36 4 0.11
ACGTcount: A:0.32, C:0.10, G:0.21, T:0.36
Consensus pattern (35 bp):
ACATTTGAAGTCAGTTGTAGGTTGTTGCCTAAAAA
Found at i:10588351 original size:21 final size:21
Alignment explanation
Indices: 10588313--10588357 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
10588303 ATAATGAAAT
* *
10588313 ATAAATATTAAAACCAAATCA
1 ATAAATATTAAAAACAAATAA
10588334 ATAAATA-TAATAAACAAATAA
1 ATAAATATTAA-AAACAAATAA
10588355 ATA
1 ATA
10588358 TTAAACTTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 3 0.14
21 18 0.86
ACGTcount: A:0.67, C:0.09, G:0.00, T:0.24
Consensus pattern (21 bp):
ATAAATATTAAAAACAAATAA
Found at i:10590005 original size:12 final size:12
Alignment explanation
Indices: 10589988--10590053 Score: 64
Period size: 12 Copynumber: 5.3 Consensus size: 12
10589978 GTTTAGAAAC
10589988 ACCATTCAACAA
1 ACCATTCAACAA
*
10590000 ACCATTTAGA-AA
1 ACCATTCA-ACAA
*
10590012 CACTATTCAGA-AA
1 -ACCATTCA-ACAA
10590025 CACCATTCAACAA
1 -ACCATTCAACAA
10590038 ACCATTCAACAA
1 ACCATTCAACAA
10590050 ACCA
1 ACCA
10590054 ATATCATACA
Statistics
Matches: 47, Mismatches: 4, Indels: 6
0.82 0.07 0.11
Matches are distributed among these distances:
12 26 0.55
13 21 0.45
ACGTcount: A:0.48, C:0.30, G:0.03, T:0.18
Consensus pattern (12 bp):
ACCATTCAACAA
Found at i:10590007 original size:25 final size:25
Alignment explanation
Indices: 10589979--10590053 Score: 84
Period size: 25 Copynumber: 3.0 Consensus size: 25
10589969 CAGTAATGTG
10589979 TTTAGAAACACCATTCAACAAACCA
1 TTTAGAAACACCATTCAACAAACCA
*
10590004 TTTAGAAACACTATTCAGA-AACACCA
1 TTTAGAAACACCATTCA-ACAA-ACCA
*
10590030 TTCA-ACAA-ACCATTCAACAAACCA
1 TTTAGA-AACACCATTCAACAAACCA
10590054 ATATCATACA
Statistics
Matches: 43, Mismatches: 3, Indels: 9
0.78 0.05 0.16
Matches are distributed among these distances:
24 5 0.12
25 28 0.65
26 10 0.23
ACGTcount: A:0.48, C:0.28, G:0.04, T:0.20
Consensus pattern (25 bp):
TTTAGAAACACCATTCAACAAACCA
Found at i:10590025 original size:13 final size:13
Alignment explanation
Indices: 10589982--10590045 Score: 64
Period size: 13 Copynumber: 5.1 Consensus size: 13
10589972 TAATGTGTTT
10589982 AGAAACACCATTC
1 AGAAACACCATTC
*
10589995 A-ACAA-ACCATTT
1 AGA-AACACCATTC
*
10590007 AGAAACACTATTC
1 AGAAACACCATTC
10590020 AGAAACACCATTC
1 AGAAACACCATTC
10590033 A-ACAA-ACCATTC
1 AGA-AACACCATTC
10590045 A
1 A
10590046 ACAAACCAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 9
0.77 0.07 0.16
Matches are distributed among these distances:
12 19 0.44
13 24 0.56
ACGTcount: A:0.48, C:0.28, G:0.05, T:0.19
Consensus pattern (13 bp):
AGAAACACCATTC
Found at i:10591355 original size:62 final size:62
Alignment explanation
Indices: 10591242--10591513 Score: 198
Period size: 62 Copynumber: 4.3 Consensus size: 62
10591232 AATAGCTTGT
* * *
10591242 TTATTGAAGGTGTTTTATGCAAAAAAAATGCCTTCAATAATTAT-GTCTAAAAATATTATGAGGA
1 TTATTGAAGGTGTTTTAT--AAAAAAAATGCCTTCAATAATT-TCCTTTAAAAATATTAAGAGGA
* * *
10591306 TTATTGAAGGTATTTTATAAAAAAAATGCC-TCTAATAATTTCCTTTAAAAATTTTAAAGAGAAA
1 TTATTGAAGGTGTTTTATAAAAAAAATGCCTTC-AATAATTTCCTTTAAAAATATT-AAGAG--G
10591370 A
62 A
* * * *
10591371 TTATTGAAGGTGTGTTTTAGTAAAAAAAATGCCTTCAATAAATTCCGTCAAAAAAATTAAG-GGA
1 TTATTGAA-G-GTGTTTTA-TAAAAAAAATGCCTTCAATAATTTCCTTTAAAAATATTAAGAGG-
10591435 A
62 A
* *** * * *
10591436 TTAGTGAAGACATTGTGAT-AAAACAATGCCTAT-AATAATCTCCTCGTT-AAAAT-TTAAGAGG
1 TTATTGAAGGTGTT-TTATAAAAAAAATGCCT-TCAATAATTTCCT--TTAAAAATATTAAGAGG
10591497 A
62 A
*
10591498 TTATCGAAGGTGTTTT
1 TTATTGAAGGTGTTTT
10591514 TCGTAGAAAA
Statistics
Matches: 163, Mismatches: 30, Indels: 33
0.72 0.13 0.15
Matches are distributed among these distances:
61 4 0.02
62 63 0.39
63 14 0.09
64 21 0.13
65 17 0.10
66 2 0.01
67 10 0.06
68 30 0.18
69 2 0.01
ACGTcount: A:0.41, C:0.09, G:0.15, T:0.35
Consensus pattern (62 bp):
TTATTGAAGGTGTTTTATAAAAAAAATGCCTTCAATAATTTCCTTTAAAAATATTAAGAGGA
Found at i:10591438 original size:65 final size:64
Alignment explanation
Indices: 10591242--10591444 Score: 200
Period size: 68 Copynumber: 3.1 Consensus size: 64
10591232 AATAGCTTGT
* ** *
10591242 TTATTGAAGGTGTTTTATGCAAAAAAAATGCCTTCAAT-AATTATGTCTAAAAATATTATGAGG-
1 TTATTGAAGGTGTTTTA-GTAAAAAAAATGCCTTCAATAAATTCCGTC-AAAAATATTAAGAGGA
10591305 A
64 A
* * * * * *
10591306 TTATTGAAGGTATTTTA-TAAAAAAAATGCC-TCTAATAATTTCCTTTAAAAATTTTAAAGAGAA
1 TTATTGAAGGTGTTTTAGTAAAAAAAATGCCTTC-AATAAATTCCGTCAAAAATATT-AAGAG-G
10591369 AA
63 AA
*
10591371 TTATTGAAGGTGTGTTTTAGTAAAAAAAATGCCTTCAATAAATTCCGTCAAAAAAATTAAG-GGA
1 TTATTGAA-G-GTGTTTTAGTAAAAAAAATGCCTTCAATAAATTCCGTCAAAAATATTAAGAGGA
10591435 A
64 A
*
10591436 TTAGTGAAG
1 TTATTGAAG
10591445 ACATTGTGAT
Statistics
Matches: 112, Mismatches: 18, Indels: 18
0.76 0.12 0.12
Matches are distributed among these distances:
61 2 0.02
62 23 0.21
63 8 0.07
64 17 0.15
65 18 0.16
66 2 0.02
67 10 0.09
68 30 0.27
69 2 0.02
ACGTcount: A:0.43, C:0.08, G:0.15, T:0.34
Consensus pattern (64 bp):
TTATTGAAGGTGTTTTAGTAAAAAAAATGCCTTCAATAAATTCCGTCAAAAATATTAAGAGGAA
Found at i:10591492 original size:130 final size:129
Alignment explanation
Indices: 10591242--10591479 Score: 295
Period size: 130 Copynumber: 1.8 Consensus size: 129
10591232 AATAGCTTGT
* * *
10591242 TTATTGAAGGTGTTTTATGCAAAAAAAATGCCTTCAATAATTATGTCTAAAAATATTATGAGGAT
1 TTATTGAAGGTGTTTTATGCAAAAAAAATGCCTTCAATAATTACGTCTAAAAAAATTAAGAGGAT
* ** * * *
10591307 TATTGAAGGTATTTTATAAAAAAAATGCCTCTAATAATTTCCTTTAAAAATTTTAAAGAGAAAA
66 TAGTGAAGACATTTGATAAAAAAAATGCCTATAATAATCTCCTTTAAAAATTTTAAAGAGAAAA
* *
10591371 TTATTGAAGGTGTGTTT-TAGTAAAAAAAATGCCTTCAATAAATTCCGTC-AAAAAAATTAAG-G
1 TTATTGAAGGTGT-TTTAT-GCAAAAAAAATGCCTTCAAT-AATTACGTCTAAAAAAATTAAGAG
*
10591433 GAATTAGTGAAGACATTGTGAT-AAAACAATGCCTATAATAATCTCCT
63 G-ATTAGTGAAGACATT-TGATAAAAAAAATGCCTATAATAATCTCCT
10591480 CGTTAAAATT
Statistics
Matches: 92, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
129 16 0.17
130 66 0.72
131 10 0.11
ACGTcount: A:0.42, C:0.10, G:0.14, T:0.34
Consensus pattern (129 bp):
TTATTGAAGGTGTTTTATGCAAAAAAAATGCCTTCAATAATTACGTCTAAAAAAATTAAGAGGAT
TAGTGAAGACATTTGATAAAAAAAATGCCTATAATAATCTCCTTTAAAAATTTTAAAGAGAAAA
Found at i:10594157 original size:21 final size:21
Alignment explanation
Indices: 10594109--10594151 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
10594099 AGCCTTATAT
*
10594109 TACTTAAGTTGGTGATATTGA
1 TACTCAAGTTGGTGATATTGA
*
10594130 TACTCAAGTTGGTGATCTTGA
1 TACTCAAGTTGGTGATATTGA
10594151 T
1 T
10594152 GTTCAAAGTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.26, C:0.09, G:0.23, T:0.42
Consensus pattern (21 bp):
TACTCAAGTTGGTGATATTGA
Found at i:10597744 original size:147 final size:147
Alignment explanation
Indices: 10597542--10597823 Score: 390
Period size: 147 Copynumber: 1.9 Consensus size: 147
10597532 GAATGAATGA
* * * * *
10597542 ACTTTTTGTGCCGTTAAAAGGTAAAAATGCAAATTAACAGCTATTGTTTTGTTTTAATAGTTTTG
1 ACTTTTTGTGCCATTAAAAGGTAAAAATACAAATTAACAGCTATTGTTCTATTTTAATAGTTTGG
*
10597607 ATAG-TTTCAATACATGATATTAAACTTATCCAAA-GTATTGAACTTAGTTTCTATGGTTGATAT
66 ATAGCTTT-AATACATGATATTAAACTTATCCAAATG-ATTGAACTTAGTTTCTATAGTTGATAT
10597670 GTATGAACGTCTATTTAGG
129 GTATGAACGTCTATTTAGG
* ** *
10597689 ACTTTTTGTGCCATTAATAGGTAAAAATACAAAATT-ATTGTTATTGTTCTATTTTAATAGTTTG
1 ACTTTTTGTGCCATTAAAAGGTAAAAATAC-AAATTAACAGCTATTGTTCTATTTTAATAGTTTG
* * * *
10597753 GATAGCTTTAATACATGATATTAAACTTTTTCGAATGATTGAACTTGGTTTCTATAGTTGATATG
65 GATAGCTTTAATACATGATATTAAACTTATCCAAATGATTGAACTTAGTTTCTATAGTTGATATG
10597818 TATGAA
130 TATGAA
10597824 AAAGTTATCG
Statistics
Matches: 118, Mismatches: 14, Indels: 6
0.86 0.10 0.04
Matches are distributed among these distances:
147 109 0.92
148 9 0.08
ACGTcount: A:0.32, C:0.09, G:0.16, T:0.43
Consensus pattern (147 bp):
ACTTTTTGTGCCATTAAAAGGTAAAAATACAAATTAACAGCTATTGTTCTATTTTAATAGTTTGG
ATAGCTTTAATACATGATATTAAACTTATCCAAATGATTGAACTTAGTTTCTATAGTTGATATGT
ATGAACGTCTATTTAGG
Found at i:10599314 original size:35 final size:34
Alignment explanation
Indices: 10599275--10599349 Score: 98
Period size: 34 Copynumber: 2.2 Consensus size: 34
10599265 TTTGTACCAT
10599275 AAAATGCCACTAAAATTA-ACGACGTTCTTATCATA
1 AAAATGCCACT-AAATTAGA-GACGTTCTTATCATA
* * *
10599310 AAAATGTCTCTAAATTAGAGGCGTTCTTATCATA
1 AAAATGCCACTAAATTAGAGACGTTCTTATCATA
10599344 AAAATG
1 AAAATG
10599350 TCGTTAAATT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
34 26 0.72
35 10 0.28
ACGTcount: A:0.41, C:0.16, G:0.12, T:0.31
Consensus pattern (34 bp):
AAAATGCCACTAAATTAGAGACGTTCTTATCATA
Found at i:10599347 original size:34 final size:34
Alignment explanation
Indices: 10599297--10599361 Score: 114
Period size: 34 Copynumber: 1.9 Consensus size: 34
10599287 AAATTAACGA
10599297 CGTTCTTATCATAAAAATGTC-TCTAAATTAGAGG
1 CGTTCTTATCATAAAAATGTCGT-TAAATTAGAGG
10599331 CGTTCTTATCATAAAAATGTCGTTAAATTAG
1 CGTTCTTATCATAAAAATGTCGTTAAATTAG
10599362 TGACGATTGT
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
34 29 0.97
35 1 0.03
ACGTcount: A:0.35, C:0.14, G:0.14, T:0.37
Consensus pattern (34 bp):
CGTTCTTATCATAAAAATGTCGTTAAATTAGAGG
Found at i:10604893 original size:2 final size:2
Alignment explanation
Indices: 10604886--10604915 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
10604876 TACATACATC
10604886 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
10604916 CACACCAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10616612 original size:24 final size:24
Alignment explanation
Indices: 10616580--10616626 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
10616570 TAGGCTTGAT
10616580 TTTGGATTCTATTTT-TTTTTGGG
1 TTTGGATTCTATTTTCTTTTTGGG
*
10616603 TTTGGAATTCTTTTTTCTTTTTGG
1 TTTGG-ATTCTATTTTCTTTTTGG
10616627 TTTATGTTTC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 5 0.24
24 9 0.43
25 7 0.33
ACGTcount: A:0.09, C:0.06, G:0.19, T:0.66
Consensus pattern (24 bp):
TTTGGATTCTATTTTCTTTTTGGG
Found at i:10629045 original size:15 final size:16
Alignment explanation
Indices: 10629027--10629059 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
10629017 AAATATTATG
10629027 AAAAATTTAT-TTTTT
1 AAAAATTTATATTTTT
*
10629042 AAAATTTTATATTTTT
1 AAAAATTTATATTTTT
10629058 AA
1 AA
10629060 TAAAGACTGC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (16 bp):
AAAAATTTATATTTTT
Found at i:10629258 original size:88 final size:89
Alignment explanation
Indices: 10628984--10629279 Score: 253
Period size: 88 Copynumber: 3.3 Consensus size: 89
10628974 AAAAACTATG
* * * ** ****
10628984 TTTTTAAAATTAAAAATGTAATCTTTGTTAAAAAAATATTATGAAAAATTTATTTTT-TAAAATT
1 TTTTTAAGATTAAAAATGTAATCTTTGTTGAAAAAATATTAAGAAAAAGATATTTTTCTTTTGTT
* * **
10629048 T-TATATTTTTAATAAAGACTGCA
66 TCTATAGTTTCAATAAAGACTAAA
* * ** * * * *
10629071 TTTTTTATATTAAAAACATAATTTTTGTTGAAAATATACTACA-AAAAAGATTATTTTTCATTTG
1 TTTTTAAGATTAAAAATGTAATCTTTGTTGAAAAAATATTA-AGAAAAAGA-TATTTTTCTTTTG
* *
10629135 GTTCTATAGTTTCAACAAATG-CTACAA
64 TTTCTATAGTTTCAATAAA-GACTA-AA
** * * *
10629162 -CATTAAGATTAAAAATGTAATTTTTGTTGAAAACACATTAAGAAAAA-ATATTTTTCTTTTGTT
1 TTTTTAAGATTAAAAATGTAATCTTTGTTGAAAAAATATTAAGAAAAAGATATTTTTCTTTTGTT
10629225 TCTATAGTTTCAATAAAGACTAAA
66 TCTATAGTTTCAATAAAGACTAAA
*
10629249 TTTTTAAGATTAAAAATGTAGTCTTTGTTGA
1 TTTTTAAGATTAAAAATGTAATCTTTGTTGA
10629280 GTTTTAACAA
Statistics
Matches: 162, Mismatches: 38, Indels: 17
0.75 0.18 0.08
Matches are distributed among these distances:
87 41 0.25
88 65 0.40
89 4 0.02
90 50 0.31
91 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (89 bp):
TTTTTAAGATTAAAAATGTAATCTTTGTTGAAAAAATATTAAGAAAAAGATATTTTTCTTTTGTT
TCTATAGTTTCAATAAAGACTAAA
Found at i:10629783 original size:24 final size:24
Alignment explanation
Indices: 10629756--10629821 Score: 91
Period size: 24 Copynumber: 2.8 Consensus size: 24
10629746 TATATTTTTC
10629756 ATAATTTACATGTTAAATAAATAA
1 ATAATTTACATGTTAAATAAATAA
10629780 ATAATTTATTCA--TTAAATAAATAA
1 ATAATTTA--CATGTTAAATAAATAA
*
10629804 ATAATTTATATGTTAAAT
1 ATAATTTACATGTTAAAT
10629822 CCAATTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
22 1 0.03
24 34 0.92
26 2 0.05
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (24 bp):
ATAATTTACATGTTAAATAAATAA
Found at i:10630171 original size:26 final size:26
Alignment explanation
Indices: 10630142--10630193 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
10630132 TACATTATTC
*
10630142 TAAATCGAACACATAAATCTTACGTT
1 TAAACCGAACACATAAATCTTACGTT
*
10630168 TAAACCGAACATATAAATCTTACGTT
1 TAAACCGAACACATAAATCTTACGTT
10630194 CTTATAAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.19, G:0.08, T:0.31
Consensus pattern (26 bp):
TAAACCGAACACATAAATCTTACGTT
Found at i:10634199 original size:8 final size:8
Alignment explanation
Indices: 10634186--10634239 Score: 51
Period size: 8 Copynumber: 7.0 Consensus size: 8
10634176 GTTTCTTTTA
10634186 TATATATT
1 TATATATT
10634194 TATATA--
1 TATATATT
*
10634200 TATATATA
1 TATATATT
10634208 TATATATCT
1 TATATAT-T
* *
10634217 CA-AAATT
1 TATATATT
10634224 TATATATT
1 TATATATT
10634232 TATATATT
1 TATATATT
10634240 ATTTACTTTG
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
6 6 0.16
7 2 0.05
8 28 0.76
9 1 0.03
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.54
Consensus pattern (8 bp):
TATATATT
Found at i:10634230 original size:2 final size:2
Alignment explanation
Indices: 10634184--10634214 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
10634174 AGGTTTCTTT
*
10634184 TA TA TA TA TT TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
10634215 CTCAAAATTT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:10635268 original size:11 final size:11
Alignment explanation
Indices: 10635249--10635288 Score: 57
Period size: 11 Copynumber: 3.8 Consensus size: 11
10635239 ATGAGAGCTC
*
10635249 AAATGAAACTA
1 AAATAAAACTA
10635260 AAATAAAAC--
1 AAATAAAACTA
10635269 AAATAAAACTA
1 AAATAAAACTA
10635280 AAATAAAAC
1 AAATAAAAC
10635289 AAATGAAAGT
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
9 9 0.35
11 17 0.65
ACGTcount: A:0.72, C:0.10, G:0.03, T:0.15
Consensus pattern (11 bp):
AAATAAAACTA
Found at i:10635277 original size:20 final size:20
Alignment explanation
Indices: 10635248--10635292 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
10635238 CATGAGAGCT
*
10635248 CAAATGAAACTAAAATAAAA
1 CAAATAAAACTAAAATAAAA
10635268 CAAATAAAACTAAAATAAAA
1 CAAATAAAACTAAAATAAAA
10635288 CAAAT
1 CAAAT
10635293 GAAAGTAACC
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.71, C:0.11, G:0.02, T:0.16
Consensus pattern (20 bp):
CAAATAAAACTAAAATAAAA
Found at i:10635630 original size:18 final size:18
Alignment explanation
Indices: 10635603--10635640 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 18
10635593 AAGGAGAGGC
10635603 AAAAAGAAAACAAAA-AA
1 AAAAAGAAAACAAAAGAA
10635620 AAAAAGCAAAACAAAAGAA
1 AAAAAG-AAAACAAAAGAA
10635639 AA
1 AA
10635641 TTGGTATAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.32
18 9 0.47
19 4 0.21
ACGTcount: A:0.84, C:0.08, G:0.08, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAACAAAAGAA
Done.