Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr2
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: 43198478
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 2088848 characters in sequence are not A, C, G, or T
File 60 of 131
Found at i:19516473 original size:142 final size:142
Alignment explanation
Indices: 19516292--19516566 Score: 514
Period size: 142 Copynumber: 1.9 Consensus size: 142
19516282 GATTACTAGC
19516292 TTCAATCTGATGCGATCTACTCCGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCT
1 TTCAATCTGATGCGATCTACTCCGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCT
* * *
19516357 CTACTGTAATCTCAGGGAGATAGGATTACTAGCTTTAATCTGCTTCGCTGTAAACTCAGGGAGAT
66 CCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAAACTCAGGGAGAT
19516422 AAGATTTCTGGT
131 AAGATTTCTGGT
19516434 TTCAATCTGATGCGATCTACTCCGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCT
1 TTCAATCTGATGCGATCTACTCCGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCT
*
19516499 CCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGAT
66 CCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAAACTCAGGGAGAT
19516564 AAG
131 AAG
19516567 GTTTTTGGCT
Statistics
Matches: 129, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
142 129 1.00
ACGTcount: A:0.27, C:0.21, G:0.20, T:0.32
Consensus pattern (142 bp):
TTCAATCTGATGCGATCTACTCCGCTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCT
CCACTGTAATCTCAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAAACTCAGGGAGAT
AAGATTTCTGGT
Found at i:19529017 original size:16 final size:18
Alignment explanation
Indices: 19528984--19529017 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
19528974 ATGGCTTTTG
19528984 AAAGTCTATTATAAAATA
1 AAAGTCTATTATAAAATA
19529002 AAAGT-TATTA-AAAATA
1 AAAGTCTATTATAAAATA
19529018 TTATAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 5 0.31
18 5 0.31
ACGTcount: A:0.59, C:0.03, G:0.06, T:0.32
Consensus pattern (18 bp):
AAAGTCTATTATAAAATA
Found at i:19529120 original size:25 final size:28
Alignment explanation
Indices: 19529074--19529132 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 28
19529064 AGAATTTAAA
19529074 AATAAGTAATCGAAAATGTAACCAAAT-AT
1 AATAAGTAATCGAAAA-GTAA-CAAATAAT
19529103 AATAA-TAAT-GAAAA-TAACAAATAAT
1 AATAAGTAATCGAAAAGTAACAAATAAT
19529128 AATAA
1 AATAA
19529133 ATTAATATTA
Statistics
Matches: 29, Mismatches: 0, Indels: 6
0.83 0.00 0.17
Matches are distributed among these distances:
24 5 0.17
25 10 0.34
27 5 0.17
28 4 0.14
29 5 0.17
ACGTcount: A:0.63, C:0.07, G:0.07, T:0.24
Consensus pattern (28 bp):
AATAAGTAATCGAAAAGTAACAAATAAT
Found at i:19534796 original size:19 final size:18
Alignment explanation
Indices: 19534757--19534800 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
19534747 GTTAGATAAA
*
19534757 TAATTAATTAAACTTACT
1 TAATTAATTAAACTTAAT
19534775 TAACTTAATTAAA-TATAAT
1 TAA-TTAATTAAACT-TAAT
19534794 TAATTAA
1 TAATTAA
19534801 CCTAAAGCAT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
18 8 0.35
19 15 0.65
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (18 bp):
TAATTAATTAAACTTAAT
Found at i:19534800 original size:23 final size:23
Alignment explanation
Indices: 19534757--19534801 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
19534747 GTTAGATAAA
* *
19534757 TAATTAATTAAACTTACTTAACT
1 TAATTAAATAAACTTAATTAACT
19534780 TAATTAAATATAA-TTAATTAAC
1 TAATTAAATA-AACTTAATTAAC
19534802 CTAAAGCATA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
23 17 0.89
24 2 0.11
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (23 bp):
TAATTAAATAAACTTAATTAACT
Found at i:19545030 original size:39 final size:39
Alignment explanation
Indices: 19544976--19545055 Score: 142
Period size: 39 Copynumber: 2.1 Consensus size: 39
19544966 GTCCTATATA
19544976 AAGAGAGCCGTGGGTCATTATTTACATACACTTGAATTC
1 AAGAGAGCCGTGGGTCATTATTTACATACACTTGAATTC
* *
19545015 AAGAGAGTCTTGGGTCATTATTTACATACACTTGAATTC
1 AAGAGAGCCGTGGGTCATTATTTACATACACTTGAATTC
19545054 AA
1 AA
19545056 TAGAAAGTTG
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.33, C:0.16, G:0.19, T:0.33
Consensus pattern (39 bp):
AAGAGAGCCGTGGGTCATTATTTACATACACTTGAATTC
Found at i:19549897 original size:170 final size:171
Alignment explanation
Indices: 19549696--19550014 Score: 493
Period size: 172 Copynumber: 1.9 Consensus size: 171
19549686 GGAAAAGTGC
*
19549696 AGAAAGTTTGCAAACTGCTAAGATCCATTTATGGGCTTAAGCA-G-ATCCCGCTCATGGAATAA-
1 AGAAAGTTTGCAAACTGCTAAGATCCATTTATGGACTTAAGCAGGCATCCCGCTCATGGAATAAG
*
19549758 AAGATTTGATCAAACGATCAAGACTTTTGGATATGAG-AAAAACATTGATGAACCTTGTGTTTAT
66 AA-AATTGATCAAACGATCAAGACTTTTGGATATGAGCAAAAA-ATTGATGAACCTTGTGTTTAT
19549822 AAGCATATAAAGGACAAAAAAGTTTTTATAAGTGTATAAAGGAT
129 AAGCATATAAAGGA-AAAAAAGTTTTTATAAGTGTATAAAGGAT
* * *
19549866 AGAAAGTTTGCAAACTGCTAAGATCCATTTATGGACTTAAGCAGGCGTCTCGCTCATTGAATAAG
1 AGAAAGTTTGCAAACTGCTAAGATCCATTTATGGACTTAAGCAGGCATCCCGCTCATGGAATAAG
* * * * *
19549931 AAAATTGATCAAACGCTCGAGACTTTTGGATTTGAGCTAAAAATTGATGGACCTTGTGTTTATAA
66 AAAATTGATCAAACGATCAAGACTTTTGGATATGAGCAAAAAATTGATGAACCTTGTGTTTATAA
19549996 GCATATAAAGGAAAAAAAG
131 GCATATAAAGGAAAAAAAG
19550015 GTGGTATTCC
Statistics
Matches: 135, Mismatches: 10, Indels: 7
0.89 0.07 0.05
Matches are distributed among these distances:
170 42 0.31
171 8 0.06
172 79 0.59
173 6 0.04
ACGTcount: A:0.38, C:0.13, G:0.20, T:0.29
Consensus pattern (171 bp):
AGAAAGTTTGCAAACTGCTAAGATCCATTTATGGACTTAAGCAGGCATCCCGCTCATGGAATAAG
AAAATTGATCAAACGATCAAGACTTTTGGATATGAGCAAAAAATTGATGAACCTTGTGTTTATAA
GCATATAAAGGAAAAAAAGTTTTTATAAGTGTATAAAGGAT
Found at i:19553617 original size:20 final size:21
Alignment explanation
Indices: 19553594--19553639 Score: 60
Period size: 20 Copynumber: 2.3 Consensus size: 21
19553584 TAAATAAAAC
19553594 AAGACAC-AATTAATTAAGTT
1 AAGACACTAATTAATTAAGTT
**
19553614 AAGAC-CTAATTAATTCGGTT
1 AAGACACTAATTAATTAAGTT
19553634 AAGACA
1 AAGACA
19553640 AGACACATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
19 1 0.05
20 21 0.95
ACGTcount: A:0.46, C:0.13, G:0.13, T:0.28
Consensus pattern (21 bp):
AAGACACTAATTAATTAAGTT
Found at i:19554840 original size:15 final size:15
Alignment explanation
Indices: 19554820--19554850 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
19554810 ATTAATGCTC
19554820 AGACTTAATTTATTG
1 AGACTTAATTTATTG
19554835 AGACTTAATTTATTG
1 AGACTTAATTTATTG
19554850 A
1 A
19554851 TGTGCATACT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.35, C:0.06, G:0.13, T:0.45
Consensus pattern (15 bp):
AGACTTAATTTATTG
Found at i:19563868 original size:42 final size:42
Alignment explanation
Indices: 19563809--19563892 Score: 159
Period size: 42 Copynumber: 2.0 Consensus size: 42
19563799 AGGAGATTGA
19563809 AGTTCAAATTGATCTAACCTATGAGGAAAAGTCGATTAAGAT
1 AGTTCAAATTGATCTAACCTATGAGGAAAAGTCGATTAAGAT
*
19563851 AGTTCAAATTGATCTAACCTATGAGGAAGAGTCGATTAAGAT
1 AGTTCAAATTGATCTAACCTATGAGGAAAAGTCGATTAAGAT
19563893 TCTAACTCGT
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 41 1.00
ACGTcount: A:0.39, C:0.12, G:0.20, T:0.29
Consensus pattern (42 bp):
AGTTCAAATTGATCTAACCTATGAGGAAAAGTCGATTAAGAT
Found at i:19566199 original size:45 final size:45
Alignment explanation
Indices: 19566135--19566222 Score: 142
Period size: 45 Copynumber: 2.0 Consensus size: 45
19566125 ACAAATACTC
*
19566135 GGTGGATTCAGCACATAGCAACCACCTTA-TAAATCAATGATGTCT
1 GGTGGAATCAGCACATAGCAACCACCTTACT-AATCAATGATGTCT
*
19566180 GGTGGAATCAGCACATAGCAACCACCTTACTAATTAATGATGT
1 GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGT
19566223 TTGATTCACA
Statistics
Matches: 40, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
45 39 0.98
46 1 0.03
ACGTcount: A:0.34, C:0.22, G:0.18, T:0.26
Consensus pattern (45 bp):
GGTGGAATCAGCACATAGCAACCACCTTACTAATCAATGATGTCT
Found at i:19566291 original size:51 final size:51
Alignment explanation
Indices: 19566229--19566352 Score: 160
Period size: 51 Copynumber: 2.4 Consensus size: 51
19566219 ATGTTTGATT
* * *
19566229 CACATAGTAGCCTGCACATAGTACTATACATGTGA-CCATTACCATCCGATA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGATCCA-AACCATCCGATA
* * * *
19566280 CACGTAGTAGCCTGCACATAGTACTACACACGTGATCGAAACTATCCGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGTGATCCAAACCATCCGATA
*
19566331 CGCATAGTAGCCTGCACATAGT
1 CACATAGTAGCCTGCACATAGT
19566353 NNNNNAACAC
Statistics
Matches: 63, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
51 61 0.97
52 2 0.03
ACGTcount: A:0.31, C:0.27, G:0.18, T:0.23
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGTGATCCAAACCATCCGATA
Found at i:19578105 original size:6 final size:6
Alignment explanation
Indices: 19578094--19578168 Score: 78
Period size: 6 Copynumber: 12.5 Consensus size: 6
19578084 CATGTTCAGG
* * *
19578094 TAATAA TAATAA TAATAA TAATAA TAATAA CAATAA TAACAA TAACAA
1 TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA TAATAA
* * * * *
19578142 CAATAA CAACAA TAACAA TAACAA TAA
1 TAATAA TAATAA TAATAA TAATAA TAA
19578169 CAACCATCAT
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.23
Consensus pattern (6 bp):
TAATAA
Found at i:19578108 original size:9 final size:9
Alignment explanation
Indices: 19578098--19578171 Score: 85
Period size: 9 Copynumber: 8.2 Consensus size: 9
19578088 TTCAGGTAAT
*
19578098 AATAATAAT
1 AATAATAAC
*
19578107 AATAATAAT
1 AATAATAAC
19578116 AATAATAAC
1 AATAATAAC
19578125 AATAATAAC
1 AATAATAAC
*
19578134 AATAACAAC
1 AATAATAAC
*
19578143 AATAACAAC
1 AATAATAAC
* *
19578152 AATAACAAT
1 AATAATAAC
*
19578161 AACAATAAC
1 AATAATAAC
19578170 AA
1 AA
19578172 CCATCATCAT
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 59 1.00
ACGTcount: A:0.68, C:0.12, G:0.00, T:0.20
Consensus pattern (9 bp):
AATAATAAC
Found at i:19578114 original size:15 final size:15
Alignment explanation
Indices: 19578094--19578168 Score: 87
Period size: 15 Copynumber: 5.0 Consensus size: 15
19578084 CATGTTCAGG
*
19578094 TAATAATAATAATAA
1 TAATAATAACAATAA
*
19578109 TAATAATAATAATAA
1 TAATAATAACAATAA
*
19578124 CAATAATAACAATAA
1 TAATAATAACAATAA
* * *
19578139 CAACAATAACAACAA
1 TAATAATAACAATAA
*
19578154 TAACAATAACAATAA
1 TAATAATAACAATAA
19578169 CAACCATCAT
Statistics
Matches: 54, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 54 1.00
ACGTcount: A:0.67, C:0.11, G:0.00, T:0.23
Consensus pattern (15 bp):
TAATAATAACAATAA
Found at i:19578181 original size:3 final size:3
Alignment explanation
Indices: 19578173--19578200 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
19578163 CAATAACAAC
19578173 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT C
19578201 CTTCTGTGAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:19583912 original size:5 final size:5
Alignment explanation
Indices: 19583902--19583974 Score: 64
Period size: 5 Copynumber: 15.0 Consensus size: 5
19583892 ATAAAAAAAT
* * * *
19583902 TTTAA TTTAA TTTAA TTTGA TTTGA TTT-G TTT-T TTTAA TTTAA TTTAA
1 TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA TTTAA
19583950 TTCT-- TTTAA TTTAA CTTTAA TTTAA
1 TT-TAA TTTAA TTTAA -TTTAA TTTAA
19583975 AAGTCTCACT
Statistics
Matches: 59, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
3 1 0.02
4 8 0.14
5 44 0.75
6 6 0.10
ACGTcount: A:0.30, C:0.03, G:0.04, T:0.63
Consensus pattern (5 bp):
TTTAA
Found at i:19583958 original size:19 final size:20
Alignment explanation
Indices: 19583934--19583971 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
19583924 TGATTTGTTT
19583934 TTTTAATTTAA-TTTAATTC
1 TTTTAATTTAACTTTAATTC
19583953 TTTTAATTTAACTTTAATT
1 TTTTAATTTAACTTTAATT
19583972 TAAAAGTCTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 11 0.61
20 7 0.39
ACGTcount: A:0.32, C:0.05, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTTAATTTAACTTTAATTC
Found at i:19585537 original size:29 final size:29
Alignment explanation
Indices: 19585498--19585581 Score: 98
Period size: 29 Copynumber: 2.8 Consensus size: 29
19585488 TTGTGAGTCC
19585498 CTATACTTTTTAACATTTTAAAATTTAATCT
1 CTATACTTTTT-A-ATTTTAAAATTTAATCT
* *
19585529 CTATA-TTTTTATTTTTAAAAACTTAATCT
1 CTATACTTTTTAATTTT-AAAATTTAATCT
*
19585558 CTTTACTTTTTATATTTTAAAATT
1 CTATACTTTTTA-ATTTTAAAATT
19585582 CAGGTCCAAT
Statistics
Matches: 45, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
28 4 0.09
29 16 0.36
30 16 0.36
31 9 0.20
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (29 bp):
CTATACTTTTTAATTTTAAAATTTAATCT
Found at i:19590105 original size:5 final size:5
Alignment explanation
Indices: 19590091--19590156 Score: 62
Period size: 5 Copynumber: 13.2 Consensus size: 5
19590081 GGGGTAGGAA
* * * * *
19590091 ATGAT TTGAT ATGAT ATGAT ATGAT ATGAT TTGAT ATTAC ATTAT ATG-T
1 ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT ATGAT
*
19590140 CATGAT ATGAT AAGAT A
1 -ATGAT ATGAT ATGAT A
19590157 CGATTTGTAT
Statistics
Matches: 50, Mismatches: 9, Indels: 4
0.79 0.14 0.06
Matches are distributed among these distances:
4 1 0.02
5 48 0.96
6 1 0.02
ACGTcount: A:0.38, C:0.03, G:0.17, T:0.42
Consensus pattern (5 bp):
ATGAT
Found at i:19590137 original size:25 final size:25
Alignment explanation
Indices: 19590091--19590151 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 25
19590081 GGGGTAGGAA
*
19590091 ATGATTTGATATGATATGATATGAT-
1 ATGATTTGATATGACATGATATG-TC
* *
19590116 ATGATTTGATATTACATTATATGTC
1 ATGATTTGATATGACATGATATGTC
*
19590141 ATGATATGATA
1 ATGATTTGATA
19590152 AGATACGATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
24 1 0.03
25 30 0.97
ACGTcount: A:0.36, C:0.03, G:0.16, T:0.44
Consensus pattern (25 bp):
ATGATTTGATATGACATGATATGTC
Found at i:19611123 original size:13 final size:13
Alignment explanation
Indices: 19611096--19611128 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
19611086 AACTATGAAC
19611096 TTTTCTT-TCTTT
1 TTTTCTTCTCTTT
*
19611108 TTTTCTTCTTTTT
1 TTTTCTTCTCTTT
19611121 TTTTCTTC
1 TTTTCTTC
19611129 AATACTAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (13 bp):
TTTTCTTCTCTTT
Found at i:19611189 original size:11 final size:11
Alignment explanation
Indices: 19611173--19611221 Score: 64
Period size: 12 Copynumber: 4.4 Consensus size: 11
19611163 ATAAACTTTC
19611173 TTTTGAATTTT
1 TTTTGAATTTT
19611184 TTTTGAATTTAT
1 TTTTGAATTT-T
*
19611196 TTTTCAAGTTTT
1 TTTTGAA-TTTT
19611208 TTTTG-ATTTT
1 TTTTGAATTTT
19611218 TTTT
1 TTTT
19611222 ACAATACCGT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
10 8 0.24
11 11 0.32
12 12 0.35
13 3 0.09
ACGTcount: A:0.16, C:0.02, G:0.08, T:0.73
Consensus pattern (11 bp):
TTTTGAATTTT
Found at i:19611577 original size:23 final size:23
Alignment explanation
Indices: 19611551--19611613 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
19611541 TCGGTTTAGG
**
19611551 TTTGTTACGAAATGGTAGTGTGA
1 TTTGTTACGAAATGGTAGTACGA
*
19611574 TTTGGTT-CGAAATGGTATTACGA
1 TTT-GTTACGAAATGGTAGTACGA
*
19611597 TTTGGTACGAAATGGTA
1 TTTGTTACGAAATGGTA
19611614 ATGGTTCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
22 2 0.06
23 29 0.85
24 3 0.09
ACGTcount: A:0.27, C:0.06, G:0.29, T:0.38
Consensus pattern (23 bp):
TTTGTTACGAAATGGTAGTACGA
Found at i:19614853 original size:6 final size:6
Alignment explanation
Indices: 19614842--19614868 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
19614832 TAGGAGTTTG
19614842 TTTAGT TTTAGT TTTAGT TTTAGT TTT
1 TTTAGT TTTAGT TTTAGT TTTAGT TTT
19614869 CTAATTAGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.15, T:0.70
Consensus pattern (6 bp):
TTTAGT
Found at i:19652422 original size:132 final size:133
Alignment explanation
Indices: 19652185--19653096 Score: 1277
Period size: 132 Copynumber: 6.9 Consensus size: 133
19652175 NNNNNNNNNN
* * * *
19652185 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTGCATTTTTAAAACCACTCCGCTGCTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGC
* * * *
19652250 TCAGGGAGACAACGCTTTGTGACTTAAA--TATGCTTCCCACTATCTTGGAAATATAAGATTTGT
66 TCAGGGAGACAAGGCTTGGTGACTTAAATCTAT-CTTCCCACTATCTTGGAAAGATAAGATTTGC
*
19652313 CGCC
130 CGTC
*
19652317 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAGCCCACTCCGCTGCTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGC
* * * *
19652382 TTAGGGTGACAAGGCTTGTTGACTTAAAT-TATCTTCCCACTATCTTGGAAAGATAAGATTTGAC
66 TCAGGGAGACAAGGCTTGGTGACTTAAATCTATCTTCCCACTATCTTGGAAAGATAAGATTTGCC
*
19652446 ATC
131 GTC
* *
19652449 TTCGATCAGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACACCGCTGCTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGC
* * * * * * * *
19652514 TCAGGGAGATAATGTTTGGTGACTCAAATCT-GCTTCCCACTATGTTGGAAAGATAAAATTTGTC
66 TCAGGGAGACAAGGCTTGGTGACTTAAATCTATCTTCCCACTATCTTGGAAAGATAAGATTTGCC
*
19652578 ATC
131 GTC
* * * ** *
19652581 TTCGATCTGCTCCACTACTACTTAGGGAGATAAGATATGCAATTTTCAACATACTCCGCTCCTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGC
* *
19652646 TCAGGGAGACAAGGCTTGGTGGCTTAAATCTA-CTTCCCACTATGTTGGAAAGATAAGATTTGCC
66 TCAGGGAGACAAGGCTTGGTGACTTAAATCTATCTTCCCACTATCTTGGAAAGATAAGATTTGCC
19652710 GTC
131 GTC
* * * ** *
19652713 TTCGATCTGCTCCACTACTACTTAGGGAGATAAGATATGCAATTTTCAACATACTCCGCTCCTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGC
* *
19652778 TCAGGGAGAC-AGTGCTTGGTGACTTAAATCTA-CTTCCCACTATGTTGGAAAGATAAGATTTAC
66 TCAGGGAGACAAG-GCTTGGTGACTTAAATCTATCTTCCCACTATCTTGGAAAGATAAGATTTGC
19652841 CGTC
130 CGTC
19652845 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGC
* *
19652910 TCAGGGAGACAAGGCTTTGTGACTTAAA--TATGATTCCCACTATCTTGGAAAGATAAGATTTGC
66 TCAGGGAGACAAGGCTTGGTGACTTAAATCTAT-CTTCCCACTATCTTGGAAAGATAAGATTTGC
*
19652973 CGCC
130 CGTC
19652977 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGC
1 TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGC
** * *
19653042 TCAGGGAGACAATGTTTTGGTGACTTAAATCT-GCTTCCCACTAACTTGGAAAGAT
66 TCAGGGAGACAA-GGCTTGGTGACTTAAATCTATCTTCCCACTATCTTGGAAAGAT
19653097 GATTTATGAA
Statistics
Matches: 707, Mismatches: 63, Indels: 19
0.90 0.08 0.02
Matches are distributed among these distances:
130 2 0.00
131 2 0.00
132 663 0.94
133 39 0.06
135 1 0.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (133 bp):
TTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGC
TCAGGGAGACAAGGCTTGGTGACTTAAATCTATCTTCCCACTATCTTGGAAAGATAAGATTTGCC
GTC
Found at i:19654423 original size:132 final size:132
Alignment explanation
Indices: 19654185--19654709 Score: 825
Period size: 132 Copynumber: 4.0 Consensus size: 132
19654175 NNNNNNATGA
* *
19654185 CTTAAATCTGCTTCCCACTATTTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTATTG
1 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTG
* *
19654250 CTTAGGGAGATAAGATCTACAATTTTCAACCCACTCTGCTGCTGCTCAGGGTGACAAGGCTTGGT
66 CTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT
19654315 GG
131 GG
** * * *
19654317 CTTAAATCCACTTCCCCCTATCTTGGAAAGATAAGAGTTGTCGTCTTCGATCTGCTCCACTACTG
1 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTG
* * * * * *
19654382 CTTAGGGAGATAACATATACAAGTTTCAACCCACTCCGCTGCTTCTTAGGGAGACAAGGCTTGAT
66 CTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT
*
19654447 GA
131 GG
** * *
19654449 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGTTGCCTTCGATCTGCTCCACTATTG
1 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTG
* *
19654514 CTTAGGGATATAAGATCTACAATTTTCAACCCACTCCGCTACTGCTCAGGGAGACAAGGCTTGGT
66 CTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT
19654579 GG
131 GG
19654581 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTG
1 CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTG
* * *
19654646 CTTCGGAAGATAAGATCTACAATTTCCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGG
66 CTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGG
19654710 NNNNNNNNNN
Statistics
Matches: 352, Mismatches: 41, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
132 352 1.00
ACGTcount: A:0.25, C:0.25, G:0.20, T:0.30
Consensus pattern (132 bp):
CTTAAATCTGCTTCCCACTATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTG
CTTAGGGAGATAAGATCTACAATTTTCAACCCACTCCGCTGCTGCTCAGGGAGACAAGGCTTGGT
GG
Found at i:19655332 original size:395 final size:396
Alignment explanation
Indices: 19654849--19655583 Score: 1168
Period size: 395 Copynumber: 1.9 Consensus size: 396
19654839 NNNNNNNNNN
*
19654849 ATCTTGGAAAGATAAGGTTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
1 ATCTTGGAAAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
* *
19654914 CAATTTTCAACCCACTCCACTGCTGCTCAGGGAGACAATGTTTGGTGACTTAAATCTGCTTCCCA
66 CAATTTTCAACCCACTCCACTGCTGCTCAAGGAGACAATGCTTGGTGACTTAAATCTGCTTCCCA
*
19654979 CTAACTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCACCACTACTGGC-TAGGGAGATAAGAT
131 CTAACTTGGAAAGATAAAATTTGTCGTCTTCGATCTGCACCACTACT-GCTTAGGGAGATAAGAT
* * * * * *
19655043 CTATAATTTTCAA-CCACTTCGCTCCTGCTCAGGGAGACAAGGCTTAGTGGCTTAAATCTGCTTC
195 CTACAATTTTCAATCCACTCCGCTCCTGATCAGGGAAACAAGGCTTAGTGGCTTAAATATACTTC
* * * *
19655107 CTACTATCTTGGAAAGATAAGATTTGCCGTATTTGATCTGCTCCACTCCTACTTAGGGAGATAAG
260 CCACTATCTTGGAAAGATAAGATTTGCCGTATTCGATCTACTCCACTACTACTTAGGGAGATAAG
19655172 ATCTACAATTTTCAACACACTCCGCTGCTGCTTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCT
325 ATCTACAATTTTCAACACACTCCGCTGCTGCTTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCT
19655237 TCCCACT
390 TCCCACT
*
19655244 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
1 ATCTTGGAAAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
**
19655309 CAATTTTCAACCCACTCCACTGCTGCTCAAGGAGACAATGCTTGGTGACTTAAATCTGCTTGGCA
66 CAATTTTCAACCCACTCCACTGCTGCTCAAGGAGACAATGCTTGGTGACTTAAATCTGCTTCCCA
** * **
19655374 CTATGTTGGAAGGATAAAATTTGTCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATC
131 CTAACTTGGAAAGATAAAATTTGTCGTCTTCGATCTGCACCACTACTGCTTAGGGAGATAAGATC
* * *
19655439 TACAATTTTCAATCCACTCCGCTCCTGATTAGGGAAACAATGCTTGGTGGCTTAAATATACTTCC
196 TACAATTTTCAATCCACTCCGCTCCTGATCAGGGAAACAAGGCTTAGTGGCTTAAATATACTTCC
* * * *
19655504 CCCTATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGA
261 CACTATCTTGGAAAGATAAGATTTGCCGTATTCGATCTACTCCACTACTACTTAGGGAGATAAGA
* *
19655569 TTTTCAATTTTCAAC
326 TCTACAATTTTCAAC
19655584 CTGCTCTGCT
Statistics
Matches: 307, Mismatches: 31, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
394 2 0.01
395 191 0.62
396 114 0.37
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (396 bp):
ATCTTGGAAAGATAAGATTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
CAATTTTCAACCCACTCCACTGCTGCTCAAGGAGACAATGCTTGGTGACTTAAATCTGCTTCCCA
CTAACTTGGAAAGATAAAATTTGTCGTCTTCGATCTGCACCACTACTGCTTAGGGAGATAAGATC
TACAATTTTCAATCCACTCCGCTCCTGATCAGGGAAACAAGGCTTAGTGGCTTAAATATACTTCC
CACTATCTTGGAAAGATAAGATTTGCCGTATTCGATCTACTCCACTACTACTTAGGGAGATAAGA
TCTACAATTTTCAACACACTCCGCTGCTGCTTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTT
CCCACT
Found at i:19655603 original size:132 final size:131
Alignment explanation
Indices: 19654849--19655584 Score: 1051
Period size: 132 Copynumber: 5.6 Consensus size: 131
19654839 NNNNNNNNNN
* *
19654849 ATCTTGGAAAGATAAGGTTTGCCATCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
1 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
* * *
19654914 CAATTTTCAACCCACTCCACTGCTGCTCAGGGAGACAATGTTTGGTGACTTAAATCTGCTTCCCA
66 CAATTTTCAA-CCACTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCCCA
19654979 CT
130 CT
* * *
19654981 AACTTGGAAAGATAAGATTTGTCGTCTTCGATCTGCACCACTACTGGC-TAGGGAGATAAGATCT
1 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACT-GCTTAGGGAGATAAGATCT
* * * * * *
19655045 ATAATTTTCAACCACTTCGCTCCTGCTCAGGGAGACAAGGCTTAGTGGCTTAAATCTGCTTCCTA
65 ACAATTTTCAACCACTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCCCA
19655110 CT
130 CT
* * * *
19655112 ATCTTGGAAAGATAAGATTTGCCGTATTTGATCTGCTCCACTCCTACTTAGGGAGATAAGATCTA
1 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
* *
19655177 CAATTTTCAACACACTCCGCTGCTGCTTAGGGAGACAAGGCTTGGTGGCTTAAATCTGCTTCCCA
66 CAATTTTCAAC-CACTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCCCA
19655242 CT
130 CT
19655244 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
1 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
* * * **
19655309 CAATTTTCAACCCACTCCACTGCTGCTCAAGGAGACAATGCTTGGTGACTTAAATCTGCTTGGCA
66 CAATTTTCAA-CCACTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCCCA
19655374 CT
130 CT
* * * * *
19655376 ATGTTGGAAGGATAAAATTTGTCGTCTTCGATCTGTTCCACTACTGCTTAGGGAGATAAGATCTA
1 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
* * * * * * *
19655441 CAATTTTCAATCCACTCCGCTCCTGATTAGGGAAACAATGCTTGGTGGCTTAAATATACTTCCCC
66 CAATTTTCAA-CCACTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCCCA
19655506 CT
130 CT
* * * *
19655508 ATCTTGGAAAGATAAGATTTGTCGTCTTCGATCTACTCCACTACTGCTTAGGGAGATAAGATTTT
1 ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
19655573 CAATTTTCAACC
66 CAATTTTCAACC
19655585 TGCTCTGCTG
Statistics
Matches: 537, Mismatches: 63, Indels: 9
0.88 0.10 0.01
Matches are distributed among these distances:
130 1 0.00
131 116 0.22
132 417 0.78
133 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.19, T:0.31
Consensus pattern (131 bp):
ATCTTGGAAAGATAAGATTTGCCGTCTTCGATCTGCTCCACTACTGCTTAGGGAGATAAGATCTA
CAATTTTCAACCACTCCGCTGCTGCTCAGGGAGACAATGCTTGGTGGCTTAAATCTGCTTCCCAC
T
Found at i:19655684 original size:88 final size:88
Alignment explanation
Indices: 19655575--19655829 Score: 323
Period size: 88 Copynumber: 2.9 Consensus size: 88
19655565 AAGATTTTCA
** ** * *
19655575 ATTTTCAACCTGCTCTGCTGCAACTTAGGAAGGCAAGGCTGGTGTCTTTGATCTGCTTCGCTGCC
1 ATTTTCAACCTGCTCCACTGCAACCCAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTC
*
19655640 GGTACAGGAAGGCAAGATTTGTT
66 GGTACAGGAAGGCAAGATCTGTT
* * * * * *
19655663 ATTTTTAATCTGCTCCACTGCAACCCAGGGAGGCAAGGCTAGTGTCTTCGATCTGCTTCGTTGTT
1 ATTTTCAACCTGCTCCACTGCAACCCAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTC
*
19655728 AGTACAGGAAGGCAAGATCTGTT
66 GGTACAGGAAGGCAAGATCTGTT
* * * *
19655751 ATTTTCAACCTGCTTCGCTGCAACCCA-GAGAGGCAAGGTTGGTGTCTTCGATCTACTTCGCTGT
1 ATTTTCAACCTGCTCCACTGCAACCCAGGA-AGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGT
*
19655815 CGGTGCAGGAAGGCA
65 CGGTACAGGAAGGCA
19655830 CCGCTACAAC
Statistics
Matches: 140, Mismatches: 26, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
87 1 0.01
88 139 0.99
ACGTcount: A:0.21, C:0.23, G:0.27, T:0.29
Consensus pattern (88 bp):
ATTTTCAACCTGCTCCACTGCAACCCAGGAAGGCAAGGCTGGTGTCTTCGATCTGCTTCGCTGTC
GGTACAGGAAGGCAAGATCTGTT
Found at i:19660898 original size:195 final size:195
Alignment explanation
Indices: 19660565--19660954 Score: 735
Period size: 195 Copynumber: 2.0 Consensus size: 195
19660555 ACCATGTGAA
* *
19660565 GACATCTTTGAATTCTTGGAGTAATTTAATAAGGTCTCGTCTTGTCTTTGCAGAAATCTCAGTTC
1 GACATCTTTGAATTCTTCGAGTAATTCAATAAGGTCTCGTCTTGTCTTTGCAGAAATCTCAGTTC
19660630 CAATTTTCACCTCTTTTCCTTCTTCCAAACTCACAATTTCTACTAATTCTCTGTGAGGTAGGATT
66 CAATTTTCACCTCTTTTCCTTCTTCCAAACTCACAATTTCTACTAATTCTCTGTGAGGTAGGATT
*
19660695 TGCTTTTTCTCTTGTTCTACCATCATCAACAAATCCAAAGATAAACCACTATCTTCGTCACCTTC
131 TACTTTTTCTCTTGTTCTACCATCATCAACAAATCCAAAGATAAACCACTATCTTCGTCACCTTC
*
19660760 GACATCTTTGAATTCTTCGAGTAATTCAATGAGGTCTCGTCTTGTCTTTGCAGAAATCTCAGTTC
1 GACATCTTTGAATTCTTCGAGTAATTCAATAAGGTCTCGTCTTGTCTTTGCAGAAATCTCAGTTC
19660825 CAATTTTCACCTCTTTTCCTTCTTCCAAACTCACAATTTCTACTAATTCTCTGTGAGGTAGGATT
66 CAATTTTCACCTCTTTTCCTTCTTCCAAACTCACAATTTCTACTAATTCTCTGTGAGGTAGGATT
*
19660890 TACTTTTTCTCTTGTTCTACCATCATCAACAAATCTAAAGATAAACCACTATCTTCGTCACCTTC
131 TACTTTTTCTCTTGTTCTACCATCATCAACAAATCCAAAGATAAACCACTATCTTCGTCACCTTC
19660955 AAAGTCGTAC
Statistics
Matches: 190, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
195 190 1.00
ACGTcount: A:0.25, C:0.25, G:0.11, T:0.39
Consensus pattern (195 bp):
GACATCTTTGAATTCTTCGAGTAATTCAATAAGGTCTCGTCTTGTCTTTGCAGAAATCTCAGTTC
CAATTTTCACCTCTTTTCCTTCTTCCAAACTCACAATTTCTACTAATTCTCTGTGAGGTAGGATT
TACTTTTTCTCTTGTTCTACCATCATCAACAAATCCAAAGATAAACCACTATCTTCGTCACCTTC
Found at i:19670838 original size:25 final size:25
Alignment explanation
Indices: 19670788--19670847 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
19670778 ATATAAATTT
* * *
19670788 TAATTTTTTTAAAAATTTAATGTAA
1 TAATGTTTTTAAAAATATAATATAA
*
19670813 TTATGTTTTTAAAAA-ATAATAATAA
1 TAATGTTTTTAAAAATATAAT-ATAA
*
19670838 TAATTTTTTT
1 TAATGTTTTT
19670848 TAAAGATACT
Statistics
Matches: 28, Mismatches: 6, Indels: 2
0.78 0.17 0.06
Matches are distributed among these distances:
24 4 0.14
25 24 0.86
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (25 bp):
TAATGTTTTTAAAAATATAATATAA
Found at i:19673369 original size:18 final size:17
Alignment explanation
Indices: 19673336--19673374 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
19673326 TTTTATAAAT
19673336 TGTGAATTATATTTGATA
1 TGTGAATTATATTTGA-A
19673354 TGTGAATTA-ATATTGAA
1 TGTGAATTATAT-TTGAA
19673371 TGTG
1 TGTG
19673375 GAAGGAAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 13 0.65
ACGTcount: A:0.33, C:0.00, G:0.21, T:0.46
Consensus pattern (17 bp):
TGTGAATTATATTTGAA
Found at i:19673505 original size:8 final size:8
Alignment explanation
Indices: 19673492--19673520 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
19673482 CACTAGAGAC
19673492 CAGTGTTA
1 CAGTGTTA
19673500 CAGTGTTA
1 CAGTGTTA
19673508 CAGTGTTA
1 CAGTGTTA
19673516 CAGTG
1 CAGTG
19673521 AGTCCCGGGT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.24, C:0.14, G:0.28, T:0.34
Consensus pattern (8 bp):
CAGTGTTA
Found at i:19673634 original size:23 final size:23
Alignment explanation
Indices: 19673608--19673652 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
19673598 GTGTTATTGA
19673608 TCAGTGGTAGCTTCGGCTACATT
1 TCAGTGGTAGCTTCGGCTACATT
19673631 TCAGTGGTAGCTTCGGCTACAT
1 TCAGTGGTAGCTTCGGCTACAT
19673653 ANNNNNNNNN
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.18, C:0.22, G:0.27, T:0.33
Consensus pattern (23 bp):
TCAGTGGTAGCTTCGGCTACATT
Found at i:19694191 original size:29 final size:29
Alignment explanation
Indices: 19694149--19694214 Score: 105
Period size: 29 Copynumber: 2.3 Consensus size: 29
19694139 ACACGATTCA
19694149 GCACACGGTCTGTCACATAGCCATGTGTC
1 GCACACGGTCTGTCACATAGCCATGTGTC
* * *
19694178 GCACACGGTCTGTCACATGGCCGTGTGTT
1 GCACACGGTCTGTCACATAGCCATGTGTC
19694207 GCACACGG
1 GCACACGG
19694215 CCTACCACAC
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
29 34 1.00
ACGTcount: A:0.18, C:0.30, G:0.29, T:0.23
Consensus pattern (29 bp):
GCACACGGTCTGTCACATAGCCATGTGTC
Found at i:19694223 original size:29 final size:29
Alignment explanation
Indices: 19694162--19694233 Score: 72
Period size: 29 Copynumber: 2.5 Consensus size: 29
19694152 CACGGTCTGT
* * * **
19694162 CACATAGCCATGTGTCGCACACGGTCTGT
1 CACATGGCCGTGTGTCGCACACGGCCTAC
*
19694191 CACATGGCCGTGTGTTGCACACGGCCTAC
1 CACATGGCCGTGTGTCGCACACGGCCTAC
* *
19694220 CACACGACCGTGTG
1 CACATGGCCGTGTG
19694234 GCGTTGACAG
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.19, C:0.33, G:0.26, T:0.21
Consensus pattern (29 bp):
CACATGGCCGTGTGTCGCACACGGCCTAC
Found at i:19695002 original size:15 final size:15
Alignment explanation
Indices: 19694982--19695010 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19694972 ATATATATAT
19694982 TTTAAAATTAACTCA
1 TTTAAAATTAACTCA
19694997 TTTAAAATTAACTC
1 TTTAAAATTAACTC
19695011 TAAAATTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.14, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTAAAATTAACTCA
Found at i:19698112 original size:11 final size:11
Alignment explanation
Indices: 19698096--19698122 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
19698086 ATTTGATAAA
19698096 CAATGCAAATT
1 CAATGCAAATT
19698107 CAATGCAAATT
1 CAATGCAAATT
19698118 CAATG
1 CAATG
19698123 GCTAAAAAGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (11 bp):
CAATGCAAATT
Found at i:19698705 original size:29 final size:28
Alignment explanation
Indices: 19698630--19698707 Score: 77
Period size: 29 Copynumber: 2.7 Consensus size: 28
19698620 ATTGGACTTA
* * *
19698630 AAATTTGAAATTTGAAAAATAGATAGACT
1 AAATTTCAAAATT-AAAAATACATAGACT
* *
19698659 AAATTCTTAGAAA-TAAAAGTACATAGACT
1 AAATT-TCA-AAATTAAAAATACATAGACT
19698688 AAATTTCAAAATTAAAAATA
1 AAATTTCAAAATTAAAAATA
19698708 ATACAAAAAC
Statistics
Matches: 40, Mismatches: 6, Indels: 7
0.75 0.11 0.13
Matches are distributed among these distances:
27 3 0.08
28 9 0.22
29 23 0.57
30 3 0.08
31 2 0.05
ACGTcount: A:0.55, C:0.06, G:0.09, T:0.29
Consensus pattern (28 bp):
AAATTTCAAAATTAAAAATACATAGACT
Found at i:19699847 original size:38 final size:37
Alignment explanation
Indices: 19699717--19700503 Score: 505
Period size: 37 Copynumber: 21.5 Consensus size: 37
19699707 TCATTGAAGG
* * * *
19699717 GTTGGGAAAGACCTAGTC-AAGGCCAACCTTTGAAAAAG
1 GTTGGGATAGACCTTGTCTAAGG-CAA-CTTTTAAAAAA
* * * * *
19699755 GTTGTGATATA-CTTGCCTAAGGCAAC-CTTAAAAAG
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTTAAAAAA
** **
19699790 GTTGGGATAG-CCGAGTCTAAGATAACTATTTAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAACT-TTTAAAAAA
* *
19699827 GTTGGGATAGACCTTATCTAAGGCAACATTTAAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAAC-TTTTAAAAAA
* * *
19699865 GTTGGGATAGATCTTGTCTAAGACAACCTTTAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTTAAAAAA
* * * * * *
19699902 GATTGGGATAGA-ATCGTCTAAAGCAAC-CTTAAATAG
1 G-TTGGGATAGACCTTGTCTAAGGCAACTTTTAAAAAA
* * * *
19699938 GTTGGTATAGACCGTGTCTAAGGCAACCTTTAAGAAAG
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTTAA-AAAA
* * * * *
19699976 GTTGAGATAGACC-AGTTTAAGGTAACCTTTAAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAA-CTTTTAAAAAA
*
19700013 GTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAA-CTTTTAAAAAA
*
19700051 GTTGGGATAGACC-TGTCTAAGGCAATCTTTTAAAAAT
1 GTTGGGATAGACCTTGTCTAAGGCAA-CTTTTAAAAAA
* * *
19700088 GTTGGGATAGACC-AGTCTAAGACAACCTTTTAAAAAT
1 GTTGGGATAGACCTTGTCTAAGGCAA-CTTTTAAAAAA
* *
19700125 GTTGGGATAGATCTTGTCTAAGGCAAC-CTTAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTTAAAAAA
* * *
19700161 GGGTTGGGATA-AACTTGTCTAAGGCAA-TCTTCAAAAAGG
1 --GTTGGGATAGACCTTGTCTAAGGCAACT-TTTAAAAA-A
* * *
19700200 GTTGGGATAGA-CTTGTCTAAAGCAAC-ATTAAAAAG
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTTAAAAAA
* * * * *
19700235 GCTGGGATAGA--TTGATCTAAAGTAAC-CTTAAAAAG
1 GTTGGGATAGACCTTG-TCTAAGGCAACTTTTAAAAAA
* * *
19700270 GTTGAGATAGACCTTGTCTAAGGCAAATTTTAGAAAAG
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTTA-AAAAA
* * * *
19700308 GTTGGGATTGACC-TGTCTAAGACAAC-CTTAAAAAT
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTTAAAAAA
* * * * * *
19700343 GTCGGGATAGACC-CGTTTAAAGCAAC-CTTAAAAAG
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTTAAAAAA
* * * *
19700378 GTTGGGATAAACCTTTTCCAAGGCAAC-TTAAAAAAA
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTTAAAAAA
* ** * *
19700414 GTTGGGATAAACC-CATCTAAGGCAAC-CTTAAAAAG
1 GTTGGGATAGACCTTGTCTAAGGCAACTTTTAAAAAA
* * * *
19700449 GTTAAGG-TA-AACTCGTCTAAGGCAAAC--TTAAAAAG
1 GTT-GGGATAGACCTTGTCTAAGGC-AACTTTTAAAAAA
*
19700484 GTTGGGATAGATCTTTGTCT
1 GTTGGGATAGA-CCTTGTCT
19700504 CATGTCTAAT
Statistics
Matches: 601, Mismatches: 116, Indels: 65
0.77 0.15 0.08
Matches are distributed among these distances:
34 7 0.01
35 158 0.26
36 76 0.13
37 199 0.33
38 160 0.27
39 1 0.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (37 bp):
GTTGGGATAGACCTTGTCTAAGGCAACTTTTAAAAAA
Found at i:19699897 original size:75 final size:74
Alignment explanation
Indices: 19699716--19700503 Score: 611
Period size: 75 Copynumber: 10.8 Consensus size: 74
19699706 CTCATTGAAG
* * * * * * *
19699716 GGTTGGGAAAGACCTAGTC-AAGGCCAACCTTTGAAAAAGGTTGTGATATA-CTTGCCTAAGGCA
1 GGTTGGGATAGACCTTGTCTAA-GACAACCTTT-AAAAAAGTTGGGATAGACCTTGTCTAAGGCA
19699779 ACCTT-AAAAA
64 ACCTTAAAAAA
** * * *
19699789 GGTTGGGATAG-CCGAGTCTAAGATAACTATTTAAAAAAGTTGGGATAGACCTTATCTAAGGCAA
1 GGTTGGGATAGACCTTGTCTAAGACAAC-CTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAA
*
19699853 CATTTAAAAAA
65 C-CTTAAAAAA
* * * * *
19699864 AGTTGGGATAGATCTTGTCTAAGACAACCTTTAAAAAAGATTGGGATAGA-ATCGTCTAAAGCAA
1 GGTTGGGATAGACCTTGTCTAAGACAACCTTTAAAAAAG-TTGGGATAGACCTTGTCTAAGGCAA
*
19699928 CCTT-AAATA
65 CCTTAAAAAA
* * * * * * * *
19699937 GGTTGGTATAGACCGTGTCTAAGGCAACCTTTAAGAAAGGTTGAGATAGACC-AGTTTAAGGTAA
1 GGTTGGGATAGACCTTGTCTAAGACAACCTTTAA-AAAAGTTGGGATAGACCTTGTCTAAGGCAA
19700001 CCTTTAAAAAA
65 CC-TTAAAAAA
* *
19700012 AGTTGGGATAGACCTTGTCTAAGGCAACCTTTAAAAAAAGTTGGGATAGACC-TGTCTAAGGCAA
1 GGTTGGGATAGACCTTGTCTAAGACAACCTTT-AAAAAAGTTGGGATAGACCTTGTCTAAGGCAA
* *
19700076 TCTTTTAAAAA
65 -CCTTAAAAAA
* * * *
19700087 TGTTGGGATAGACC-AGTCTAAGACAACCTTTTAAAAATGTTGGGATAGATCTTGTCTAAGGCAA
1 GGTTGGGATAGACCTTGTCTAAGACAACC-TTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAA
19700151 CCTTAAAAAA
65 CCTTAAAAAA
* * * * * *
19700161 GGGTTGGGATA-AACTTGTCTAAGGCAATCTTCAAAAAGGGTTGGGATAGA-CTTGTCTAAAGCA
1 -GGTTGGGATAGACCTTGTCTAAGACAACCTTTAAAAA-AGTTGGGATAGACCTTGTCTAAGGCA
*
19700224 ACATT-AAAAA
64 ACCTTAAAAAA
* * * *
19700234 GGCTGGGATAGA--TTGATCTAA-AGTAACC-TTAAAAAGGTTGAGATAGACCTTGTCTAAGGCA
1 GGTTGGGATAGACCTTG-TCTAAGA-CAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGC-
** *
19700295 AATTTTAGAAAA
63 AACCTTAAAAAA
* * * * * *
19700307 GGTTGGGATTGACC-TGTCTAAGACAACC-TTAAAAATGTCGGGATAGACC-CGTTTAAAGCAAC
1 GGTTGGGATAGACCTTGTCTAAGACAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAAC
19700369 CTT-AAAAA
66 CTTAAAAAA
* * * * * * **
19700377 GGTTGGGATAAACCTTTTCCAAGGCAA-CTTAAAAAAAGTTGGGATAAACC-CATCTAAGGCAAC
1 GGTTGGGATAGACCTTGTCTAAGACAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAAC
19700440 CTT-AAAAA
66 CTTAAAAAA
* * * * * * *
19700448 GGTTAAGG-TA-AACTCGTCTAAGGCAAAC-TTAAAAAGGTTGGGATAGATCTTTGTCT
1 GGTT-GGGATAGACCTTGTCTAAGACAACCTTTAAAAAAGTTGGGATAGA-CCTTGTCT
19700504 CATGTCTAAT
Statistics
Matches: 575, Mismatches: 107, Indels: 67
0.77 0.14 0.09
Matches are distributed among these distances:
70 56 0.10
71 76 0.13
72 57 0.10
73 127 0.22
74 75 0.13
75 159 0.28
76 25 0.04
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.26
Consensus pattern (74 bp):
GGTTGGGATAGACCTTGTCTAAGACAACCTTTAAAAAAGTTGGGATAGACCTTGTCTAAGGCAAC
CTTAAAAAA
Found at i:19700460 original size:71 final size:70
Alignment explanation
Indices: 19700334--19700492 Score: 178
Period size: 71 Copynumber: 2.3 Consensus size: 70
19700324 CTAAGACAAC
* * * * * * **
19700334 CTTAAAAATGTCGGGATAGACCCGTTTAAAGCAACCTTAAAAAGGTTGGGATAAACCTTTTCCAA
1 CTTAAAAAAGTTGGGATAAACCCATCTAAAGCAACCTTAAAAAGGTTAGGATAAA-CTCGTCCAA
19700399 GGC-AA
65 GGCAAA
* *
19700404 CTTAAAAAAAGTTGGGATAAACCCATCTAAGGCAACCTTAAAAAGGTTAAGG-TAAACTCGTCTA
1 CTT-AAAAAAGTTGGGATAAACCCATCTAAAGCAACCTTAAAAAGGTT-AGGATAAACTCGTCCA
19700468 AGGCAAA
64 AGGCAAA
*
19700475 CTTAAAAAGGTTGGGATA
1 CTTAAAAAAGTTGGGATA
19700493 GATCTTTGTC
Statistics
Matches: 75, Mismatches: 11, Indels: 6
0.82 0.12 0.07
Matches are distributed among these distances:
70 26 0.35
71 47 0.63
72 2 0.03
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.23
Consensus pattern (70 bp):
CTTAAAAAAGTTGGGATAAACCCATCTAAAGCAACCTTAAAAAGGTTAGGATAAACTCGTCCAAG
GCAAA
Found at i:19700807 original size:74 final size:75
Alignment explanation
Indices: 19700685--19700836 Score: 234
Period size: 74 Copynumber: 2.0 Consensus size: 75
19700675 TAGTAATTTA
* *
19700685 TATACAAAATCCTAATAGAAGGAGTCAACAAGTTGCGAACATATTGTCAACCTATTTCACATGAC
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATATTGTCAACCTATTTCACATGAC
19700750 ATCAAAAAAT
66 ATCAAAAAAT
* * * * *
19700760 TATACAAAATCCTAATAGAA-CAGTCAACACGTTGCAAACATGTTGTCAACTTGTTTCCCATGAC
1 TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATATTGTCAACCTATTTCACATGAC
19700824 ATCAAAAAAT
66 ATCAAAAAAT
19700834 TAT
1 TAT
19700837 GGGACAACAA
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
74 50 0.71
75 20 0.29
ACGTcount: A:0.42, C:0.20, G:0.11, T:0.27
Consensus pattern (75 bp):
TATACAAAATCCTAATAGAAGCAGTCAACAAGTTGCAAACATATTGTCAACCTATTTCACATGAC
ATCAAAAAAT
Found at i:19705011 original size:8 final size:8
Alignment explanation
Indices: 19704987--19705049 Score: 56
Period size: 8 Copynumber: 7.4 Consensus size: 8
19704977 ATTATTTTGA
19704987 AAATATAT
1 AAATATAT
19704995 AAA-ATAT
1 AAATATAT
19705002 AAATATAT
1 AAATATAT
*
19705010 AAAATCCTAT
1 -AAAT-ATAT
*
19705020 AACATATGCAA
1 AA-ATAT--AT
19705031 AAATATAT
1 AAATATAT
19705039 AAATATAT
1 AAATATAT
19705047 AAA
1 AAA
19705050 AGTGTCTAAT
Statistics
Matches: 45, Mismatches: 4, Indels: 12
0.74 0.07 0.20
Matches are distributed among these distances:
7 7 0.16
8 19 0.42
9 7 0.16
10 9 0.20
11 3 0.07
ACGTcount: A:0.62, C:0.06, G:0.02, T:0.30
Consensus pattern (8 bp):
AAATATAT
Found at i:19705110 original size:20 final size:19
Alignment explanation
Indices: 19705087--19705132 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 19
19705077 AAAAATTATA
*
19705087 ATATATAAGTTTATAAAAAT
1 ATATATAAATTTA-AAAAAT
*
19705107 ATATTATAAATTTAGAAAAT
1 ATA-TATAAATTTAAAAAAT
19705127 ATATAT
1 ATATAT
19705133 TTGTTATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
19 3 0.13
20 11 0.48
21 9 0.39
ACGTcount: A:0.54, C:0.00, G:0.04, T:0.41
Consensus pattern (19 bp):
ATATATAAATTTAAAAAAT
Found at i:19705133 original size:22 final size:21
Alignment explanation
Indices: 19705090--19705133 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
19705080 AATTATAATA
* *
19705090 TATAAGTTTATAAAAATATAT
1 TATAAATTTAGAAAAATATAT
19705111 TATAAATTTAGAAAATATATAT
1 TATAAATTTAGAAAA-ATATAT
19705133 T
1 T
19705134 TGTTATATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.52, C:0.00, G:0.05, T:0.43
Consensus pattern (21 bp):
TATAAATTTAGAAAAATATAT
Found at i:19707125 original size:96 final size:88
Alignment explanation
Indices: 19706936--19707113 Score: 340
Period size: 87 Copynumber: 2.0 Consensus size: 88
19706926 ATCCCATAAG
19706936 ATACCTACATCACATACATATATTTTTACATACTTATTATATACTATATTAAAATAATAAAAATA
1 ATACCTACATCACATACATATATTTTTACATACTTATTATATACTATATTAAAATAATAAAAATA
*
19707001 AAATATTGTGAACTATTATTGAT
66 AAATATTGTGAAATATTATTGAT
19707024 ATACCTACATCA-ATACATATATTTTTACATACTTATTATATACTATATTAAAATAATAAAAATA
1 ATACCTACATCACATACATATATTTTTACATACTTATTATATACTATATTAAAATAATAAAAATA
19707088 AAATATTGTGAAATATTATTGAT
66 AAATATTGTGAAATATTATTGAT
19707111 ATA
1 ATA
19707114 TTTCATATAC
Statistics
Matches: 89, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
87 77 0.87
88 12 0.13
ACGTcount: A:0.47, C:0.10, G:0.03, T:0.40
Consensus pattern (88 bp):
ATACCTACATCACATACATATATTTTTACATACTTATTATATACTATATTAAAATAATAAAAATA
AAATATTGTGAAATATTATTGAT
Found at i:19710839 original size:43 final size:43
Alignment explanation
Indices: 19710762--19711144 Score: 336
Period size: 43 Copynumber: 8.9 Consensus size: 43
19710752 AGCTCGTACA
* * * *
19710762 ATGCC-ATATCCCAGACAGGGTCTTATACGAAATCATATAATG
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAATG
** *
19710804 ATGCCAATGTCCCAGACATGGAGTTAAACGTAATCACAGTACA--
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACA-TA-ATG
* * *
19710847 ATGCCAATGTCCCAGACATGGTCTTACATGTTATCACAT-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAAT-G
* * * *
19710890 ATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATG
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAATG
* *
19710933 ATGTCAATGTCCTAGACATGGTCTTATACGTAATCACAATACA--
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCAC-ATA-ATG
* * * * *
19710976 ATGTCAAAGTCCCAGACATGGTCTTACATGTTATCACAT-ATCG
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAAT-G
* ** * *
19711019 ATGCCATTGTCCCAGACA-GCGTCTTATACAAAATCATATAACG
1 ATGCCAATGTCCCAGACATG-GTCTTATACGTAATCACATAATG
*
19711062 ATGTCAATGTCCCAGACATGGTCTTATACGTAATCACAGTACA--
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACA-TA-ATG
* * * *
19711105 ATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATA
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATA
19711145 TCGGTAACCC
Statistics
Matches: 274, Mismatches: 50, Indels: 34
0.77 0.14 0.09
Matches are distributed among these distances:
40 2 0.01
42 11 0.04
43 247 0.90
44 11 0.04
45 3 0.01
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (43 bp):
ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAATG
Found at i:19711000 original size:129 final size:128
Alignment explanation
Indices: 19710762--19711147 Score: 637
Period size: 129 Copynumber: 3.0 Consensus size: 128
19710752 AGCTCGTACA
* * **
19710762 ATGCCATATCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATGGAG
1 ATGCCATGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGTCAATGTCCCAGACATGGTC
*
19710827 TTAAACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCG
66 TTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCG
*
19710890 ATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGTCAATGTCCTAGACATGGT
1 ATGCCA-TGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGTCAATGTCCCAGACATGGT
* * *
19710955 CTTATACGTAATCACAATACAATGTCAAAGTCCCAGACATGGTCTTACATGTTATCACATATCG
65 CTTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCG
* * *
19711019 ATGCCATTGTCCCAGACAGCGTCTTATACAAAATCATATAACGATGTCAATGTCCCAGACATGGT
1 ATGCCA-TGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGTCAATGTCCCAGACATGGT
*
19711084 CTTATACGTAATCACAGTACAATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATATCG
65 CTTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCG
19711148 GTAACCCTAA
Statistics
Matches: 239, Mismatches: 18, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
128 6 0.03
129 233 0.97
ACGTcount: A:0.33, C:0.23, G:0.16, T:0.28
Consensus pattern (128 bp):
ATGCCATGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGTCAATGTCCCAGACATGGTC
TTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATATCG
Found at i:19719677 original size:43 final size:42
Alignment explanation
Indices: 19719600--19719982 Score: 346
Period size: 43 Copynumber: 9.0 Consensus size: 42
19719590 ACCTCGTACA
* * * *
19719600 ATGCC-ATATCCCAGACAAGGTCTTATACGAAATCATATAAT
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAAT
* *
19719641 GATGCCAATGTCCCAGACATGGACTTAAACGTAATCACAGTACA-
1 -ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACA-TA-AT
* * * *
19719685 ATGCCAATGTCACAGACATGGTCTTACATGTTATCACAT-AT
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAAT
* * * *
19719726 CAATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAAT
1 --ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAAT
*
19719770 GATGCCAATGTCCTAGACATGGTCTTATACGTAATCACAATACA-
1 -ATGCCAATGTCCCAGACATGGTCTTATACGTAATCAC-ATA-AT
* * *
19719814 ATGCCAATGTCCCAGACATGGTCTTACATGTTATCACAT-AT
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAAT
* * ** * *
19719855 CGATGCCACTGTCCCAGACAGGGTCTTATACAAAATCATATAACA
1 --ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAA-T
*
19719900 ATGCCAATGTCCCAGACATGGTCTTATACATAATCACAGTACA-
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACA-TA-AT
* * * *
19719943 ATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATA
1 ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATA
19719983 TCGGTAACCC
Statistics
Matches: 278, Mismatches: 47, Indels: 32
0.78 0.13 0.09
Matches are distributed among these distances:
40 2 0.01
42 10 0.04
43 253 0.91
44 10 0.04
45 3 0.01
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGTCTTATACGTAATCACATAAT
Found at i:19719708 original size:86 final size:85
Alignment explanation
Indices: 19719595--19719968 Score: 382
Period size: 86 Copynumber: 4.4 Consensus size: 85
19719585 ATTATACCTC
* * *
19719595 GTACAATGCCATAT-CCCAGACAAGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGAC
1 GTACAATGCCA-ATGTCCAGACATGGTCTTATACGAAATCATATAATAATGCCAATGTCCCAGAC
* *
19719659 ATGGACTTAAACGTAATCACA
65 ATGGTCTTATACGTAATCACA
* * ** * *
19719680 GTACAATGCCAATGTCACAGACATGGTCTTACATGTTATCACAT-ATCAATGCCACTGTCCCAGA
1 GTACAATGCCAATGTC-CAGACATGGTCTTATACGAAATCATATAAT-AATGCCAATGTCCCAGA
* * *
19719744 CAGGGTCTTATACGAAATCATA
64 CATGGTCTTATACGTAATCACA
* * *
19719766 -TA-ATGATGCCAATGTCCTAGACATGGTCTTATACGTAATCACA-ATACAATGCCAATGTCCCA
1 GTACA--ATGCCAATGTCC-AGACATGGTCTTATACGAAATCATATA-ATAATGCCAATGTCCCA
* * *
19719828 GACATGGTCTTACATGTTATCACA
62 GACATGGTCTTATACGTAATCACA
* * * * *
19719852 -TATCGATGCCACTGTCCCAGACAGGGTCTTATACAAAATCATATAACAATGCCAATGTCCCAGA
1 GTA-CAATGCCAATGT-CCAGACATGGTCTTATACGAAATCATATAATAATGCCAATGTCCCAGA
*
19719916 CATGGTCTTATACATAATCACA
64 CATGGTCTTATACGTAATCACA
19719938 GTACAATGCCAATGTCCTAGACATGGTCTTA
1 GTACAATGCCAATGTCC-AGACATGGTCTTA
19719969 CATGTTATCA
Statistics
Matches: 237, Mismatches: 38, Indels: 27
0.78 0.13 0.09
Matches are distributed among these distances:
84 3 0.01
85 19 0.08
86 209 0.88
87 6 0.03
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.26
Consensus pattern (85 bp):
GTACAATGCCAATGTCCAGACATGGTCTTATACGAAATCATATAATAATGCCAATGTCCCAGACA
TGGTCTTATACGTAATCACA
Found at i:19719838 original size:129 final size:129
Alignment explanation
Indices: 19719598--19719984 Score: 650
Period size: 129 Copynumber: 3.0 Consensus size: 129
19719588 ATACCTCGTA
* *
19719598 CAATGCCA-TATCCCAGACAAGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATG
1 CAATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATG
* * *
19719662 GACTTAAACGTAATCACAGTACAATGCCAATGTCACAGACATGGTCTTACATGTTATCACATAT
66 GTCTTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATAT
*
19719726 CAATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCTAGACATG
1 CAATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATG
*
19719791 GTCTTATACGTAATCACAATACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATAT
66 GTCTTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATAT
* * **
19719855 CGATGCCACTGTCCCAGACAGGGTCTTATACAAAATCATATAACAATGCCAATGTCCCAGACATG
1 CAATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATG
* *
19719920 GTCTTATACATAATCACAGTACAATGCCAATGTCCTAGACATGGTCTTACATGTTATCACATAT
66 GTCTTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATAT
19719984 C
1 C
19719985 GGTAACCCTA
Statistics
Matches: 243, Mismatches: 15, Indels: 1
0.94 0.06 0.00
Matches are distributed among these distances:
128 8 0.03
129 235 0.97
ACGTcount: A:0.34, C:0.24, G:0.15, T:0.27
Consensus pattern (129 bp):
CAATGCCACTGTCCCAGACAGGGTCTTATACGAAATCATATAATGATGCCAATGTCCCAGACATG
GTCTTATACGTAATCACAGTACAATGCCAATGTCCCAGACATGGTCTTACATGTTATCACATAT
Found at i:19723373 original size:13 final size:13
Alignment explanation
Indices: 19723355--19723379 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
19723345 TTTTATTTGT
19723355 TTATTCCCACCGA
1 TTATTCCCACCGA
19723368 TTATTCCCACCG
1 TTATTCCCACCG
19723380 GCCGAATGTT
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:0.20, C:0.40, G:0.08, T:0.32
Consensus pattern (13 bp):
TTATTCCCACCGA
Found at i:19731291 original size:39 final size:41
Alignment explanation
Indices: 19731246--19731351 Score: 135
Period size: 44 Copynumber: 2.5 Consensus size: 41
19731236 TTTCCTTATG
* *
19731246 CTATTACACCTCTATTCCATTCAACCAAACACAAGAA-TAC
1 CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
19731286 C-ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATT-C----CATTCAACCAAACAAAAGAATTAC
19731331 CTATTACGCCTCTATTCCATT
1 CTATTACGCCTCTATTCCATT
19731352 ACAGCGAACC
Statistics
Matches: 57, Mismatches: 2, Indels: 13
0.79 0.03 0.18
Matches are distributed among these distances:
39 13 0.23
40 2 0.04
41 4 0.07
44 19 0.33
45 5 0.09
46 14 0.25
ACGTcount: A:0.36, C:0.31, G:0.04, T:0.29
Consensus pattern (41 bp):
CTATTACGCCTCTATTCCATTCAACCAAACAAAAGAATTAC
Found at i:19731326 original size:44 final size:46
Alignment explanation
Indices: 19731263--19731354 Score: 161
Period size: 46 Copynumber: 2.0 Consensus size: 46
19731253 ACCTCTATTC
*
19731263 CATTCAACCAAACACAAGAA-TACC-ATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
19731307 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
1 CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
19731353 CA
1 CA
19731355 GCGAACCAAA
Statistics
Matches: 45, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
44 19 0.42
45 4 0.09
46 22 0.49
ACGTcount: A:0.39, C:0.30, G:0.04, T:0.26
Consensus pattern (46 bp):
CATTCAACCAAACAAAAGAATTACCTATTACGCCTCTATTCCATTA
Found at i:19731362 original size:46 final size:43
Alignment explanation
Indices: 19731246--19731365 Score: 149
Period size: 46 Copynumber: 2.8 Consensus size: 43
19731236 TTTCCTTATG
* *
19731246 CTATTACACCTCTATTCCATT---CAACCAAACACAAGAATAC
1 CTATTACGCCTCTATTCCATTACACAACCAAACAAAAGAATAC
19731286 C-ATTACGCCTCTATTCCATTACATTCAACCAAACAAAAGAATTAC
1 CTATTACGCCTCTATTCCATTACA--CAACCAAACAAAAGAA-TAC
19731331 CTATTACGCCTCTATTCCATTACAGCGAACCAAAC
1 CTATTACGCCTCTATTCCATTACA-C-AACCAAAC
19731366 GTGCTGTAAG
Statistics
Matches: 69, Mismatches: 3, Indels: 10
0.84 0.04 0.12
Matches are distributed among these distances:
39 18 0.26
40 1 0.01
44 15 0.22
45 5 0.07
46 30 0.43
ACGTcount: A:0.38, C:0.32, G:0.05, T:0.26
Consensus pattern (43 bp):
CTATTACGCCTCTATTCCATTACACAACCAAACAAAAGAATAC
Found at i:19731830 original size:22 final size:21
Alignment explanation
Indices: 19731790--19731830 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
19731780 AAAATTAAAA
*
19731790 TTCAAAAAATTATACAAATAG
1 TTCAAAAAATTATAAAAATAG
*
19731811 TTCATAAAAATTTTAAAAAT
1 TTCA-AAAAATTATAAAAAT
19731831 TAATAAGATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 4 0.24
22 13 0.76
ACGTcount: A:0.56, C:0.07, G:0.02, T:0.34
Consensus pattern (21 bp):
TTCAAAAAATTATAAAAATAG
Found at i:19731926 original size:39 final size:39
Alignment explanation
Indices: 19731867--19731946 Score: 151
Period size: 39 Copynumber: 2.1 Consensus size: 39
19731857 CGTTTAAATT
*
19731867 TTTCACATTTTAATTGGTTTTTCATTAAAATAATAATGA
1 TTTCACATTTTAATTAGTTTTTCATTAAAATAATAATGA
19731906 TTTCACATTTTAATTAGTTTTTCATTAAAATAATAATGA
1 TTTCACATTTTAATTAGTTTTTCATTAAAATAATAATGA
19731945 TT
1 TT
19731947 AAGAATTAGA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.36, C:0.07, G:0.06, T:0.50
Consensus pattern (39 bp):
TTTCACATTTTAATTAGTTTTTCATTAAAATAATAATGA
Found at i:19732826 original size:126 final size:126
Alignment explanation
Indices: 19732601--19733529 Score: 569
Period size: 141 Copynumber: 6.9 Consensus size: 126
19732591 AGACATACTA
* * **
19732601 TTGGACAAAGCCAACTCTTATTTAAGTATTACCTTAGGCATGCATAGACCAACCCTTATACAAAG
1 TTGGACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATACAAAG
** *
19732666 AGTTGGCCAAAGAATATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTG
66 AGTTAACCAAAGTATATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTG
* *
19732727 TTGGACAAAGCCGAA-TCTTATTGAAGCATTGCCTTAGGCATGCATATCCCAACCCTTACACAAA
1 TTGGACAAAGCC-AACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATACAAA
* * *
19732791 GAGTTAACCAAAGTGTATGTTGGCAAGTATATCCCAACACTTAGGAAAGTGTTAGCCCAAAAGTG
65 GAGTTAACCAAAGTATATGTTGACAAGTCTATCCCAACACTTAGGAAA--G-T---------GT-
*
19732856 TAGGCACAGTG
117 T-GGCATAGTG
* * * *
19732867 TTGGACAAAGTCGAA-TCTTATTTAAGCGTTGCCTTAAGCATGCATATCCCAACCCTTATATAAA
1 TTGGACAAAG-CCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATACAAA
* * * * * * *** *
19732931 AAGTTGACCAAAATGTATG-TCAGCAAGTCTA-CCCAACACTTAGGAAAATGTCATCTTAG-G
65 GAGTTAACCAAAGTATATGTTGA-CAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTG
* * *
19732991 ACTGGACAAAGCCAACTCTTATTTAAGCATTGCCGTAGGCATGCATACCCCAACCCTTATACAAA
1 -TTGGACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATACAAA
* * * * * * *
19733056 GAGTTAGCCAGAGCATATGTTGACAAGTCTATCCCAACACTTAGGAAGGTGTCGCCCCAAAAGTG
65 GAGTTAACCAAAGTATATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTG--GC-ATA--G
19733121 TCG
125 T-G
* * *
19733124 TCTTAGGACTACACAAAAGCCAACTCTTATTTAAGCGTTGTCTTAGGCATGCATA-CCTCAACCT
1 --TT-GG-----AC-AAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCC-CAACCC
* * * *** *** * * *
19733188 TTATGCAAAAATTTGGTCAAAACGTATGTTGGCAAGTCTATCCCAACACTTAGAAAAGTGTCGCC
56 TTATACAAAGAGTTAACCAAAGTATATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTG--
* *
19733253 CCAAAAGTG
119 GC-ATAGTG
** *
19733262 TCATCTTAGGACTACACAAAAGCCAACTCTTATTTAAGTGTTGCCTTAGGCATACATATCCCAAC
1 -----TT-GG-----AC-AAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAAC
* ** **
19733327 CCTTATACAAAGAGTTGACCAAAGCGTATGTTGGTAAGTCTATCCCAACACTTAGGAAAGTGTCA
54 CCTTATACAAAGAGTTAACCAAAGTATATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGT--
*** *
19733392 CCCCAAAAGTGTCG
117 TGGC-ATA--GT-G
19733406 TCTTAGGACTAGACAGAGCCAACTCTTATTTAAG-AGTTGCCTTAGGCATGCATATCCCAACCCT
1 --TT-GGAC---A-A-AGCCAACTCTTATTTAAGCA-TTGCCTTAGGCATGCATATCCCAACCCT
* *** **
19733470 AATACAAAGAGTTGGTCAAAGCGTATGTTGATCAA-TCTATCCCAACACTTAGGAAAGTGT
57 TATACAAAGAGTTAACCAAAGTATATGTTGA-CAAGTCTATCCCAACACTTAGGAAAGTGT
19733530 AGCCCCAAAA
Statistics
Matches: 661, Mismatches: 90, Indels: 90
0.79 0.11 0.11
Matches are distributed among these distances:
124 4 0.01
125 76 0.11
126 118 0.18
127 4 0.01
128 2 0.00
129 2 0.00
131 1 0.00
133 1 0.00
134 1 0.00
135 2 0.00
136 3 0.00
138 4 0.01
139 21 0.03
140 188 0.28
141 228 0.34
142 2 0.00
143 3 0.00
144 1 0.00
ACGTcount: A:0.33, C:0.23, G:0.18, T:0.26
Consensus pattern (126 bp):
TTGGACAAAGCCAACTCTTATTTAAGCATTGCCTTAGGCATGCATATCCCAACCCTTATACAAAG
AGTTAACCAAAGTATATGTTGACAAGTCTATCCCAACACTTAGGAAAGTGTTGGCATAGTG
Found at i:19733216 original size:141 final size:140
Alignment explanation
Indices: 19732975--19733556 Score: 819
Period size: 141 Copynumber: 4.2 Consensus size: 140
19732965 AACACTTAGG
** * * *
19732975 AAAA-TGTCATCTTAGGACTGGACAAAGCCAACTCTTATTTAAGCATTGCCGTAGGCATGCATAC
1 AAAAGTGTCATCTTAGGACTACACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
* * * *
19733039 CCCAACCCTTATACAAAGAGTTAGCCAGAGCATATGTTGACAAGTCTATCCCAACACTTAGGAAG
66 CCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAA
19733104 GTGTCGCCCC
131 GTGTCGCCCC
* *
19733114 AAAAGTGTCGTCTTAGGACTACACAAAAGCCAACTCTTATTTAAGCGTTGTCTTAGGCATGCATA
1 AAAAGTGTCATCTTAGGACTACAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATA
* * * * * * * *
19733179 -CCTCAACCTTTATGCAAAAATTTGGTCAAAACGTATGTTGGCAAGTCTATCCCAACACTTAGAA
65 TCC-CAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGA
19733243 AAGTGTCGCCCC
129 AAGTGTCGCCCC
* *
19733255 AAAAGTGTCATCTTAGGACTACACAAAAGCCAACTCTTATTTAAGTGTTGCCTTAGGCATACATA
1 AAAAGTGTCATCTTAGGACTACAC-AAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATA
* **
19733320 TCCCAACCCTTATACAAAGAGTTGACCAAAGCGTATGTTGGTAAGTCTATCCCAACACTTAGGAA
65 TCCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAA
*
19733385 AGTGTCACCCC
130 AGTGTCGCCCC
* * * *
19733396 AAAAGTGTCGTCTTAGGACTAGACAGAGCCAACTCTTATTTAAGAGTTGCCTTAGGCATGCATAT
1 AAAAGTGTCATCTTAGGACTACACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
* *
19733461 CCCAACCCTAATACAAAGAGTTGGTCAAAGCGTATGTTGATCAA-TCTATCCCAACACTTAGGAA
66 CCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGA-CAAGTCTATCCCAACACTTAGGAA
*
19733525 AGTGTAGCCCC
130 AGTGTCGCCCC
19733536 AAAAGTGTCATCTTAGGACTA
1 AAAAGTGTCATCTTAGGACTA
19733557 TTTTGTTGTA
Statistics
Matches: 393, Mismatches: 45, Indels: 9
0.88 0.10 0.02
Matches are distributed among these distances:
139 4 0.01
140 141 0.36
141 246 0.63
142 2 0.01
ACGTcount: A:0.32, C:0.24, G:0.18, T:0.26
Consensus pattern (140 bp):
AAAAGTGTCATCTTAGGACTACACAAAGCCAACTCTTATTTAAGCGTTGCCTTAGGCATGCATAT
CCCAACCCTTATACAAAGAGTTGGCCAAAGCGTATGTTGACAAGTCTATCCCAACACTTAGGAAA
GTGTCGCCCC
Found at i:19736327 original size:49 final size:49
Alignment explanation
Indices: 19736249--19736345 Score: 158
Period size: 49 Copynumber: 2.0 Consensus size: 49
19736239 TTATGCTATG
* *
19736249 CATTTCTAAACTTGGTCTTCCATTATCTACACTCTTATCACTATTTATA
1 CATTGCTAAACTTAGTCTTCCATTATCTACACTCTTATCACTATTTATA
* *
19736298 CATTGCTAAACTTAGTCTTCCATTGTCTACACTCTTATCGCTATTTAT
1 CATTGCTAAACTTAGTCTTCCATTATCTACACTCTTATCACTATTTAT
19736346 CCCTTCTAGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 44 1.00
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (49 bp):
CATTGCTAAACTTAGTCTTCCATTATCTACACTCTTATCACTATTTATA
Found at i:19737660 original size:43 final size:43
Alignment explanation
Indices: 19737608--19737693 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
19737598 TCATATCTCA
*
19737608 TTTCTCATCTCATAATCATTTCTCATATTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATAATTGCCATTTCAATAT
* *
19737651 TTTCTCATCTCATATTCATTTCTCATAATTGTCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATAATTGCCATTTCAATAT
19737694 CAATCACATA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.26, C:0.22, G:0.02, T:0.50
Consensus pattern (43 bp):
TTTCTCATCTCATAATCATTTCTCATAATTGCCATTTCAATAT
Found at i:19748454 original size:18 final size:17
Alignment explanation
Indices: 19748421--19748454 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
19748411 TCAGAGTGTG
*
19748421 TGTTAGTGAGATTTAGT
1 TGTTAGTGAGAGTTAGT
19748438 TGTTAGTGGAGAGTTAG
1 TGTTAGT-GAGAGTTAG
19748455 GATATTCTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.24, C:0.00, G:0.35, T:0.41
Consensus pattern (17 bp):
TGTTAGTGAGAGTTAGT
Found at i:19751139 original size:24 final size:24
Alignment explanation
Indices: 19751112--19751163 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
19751102 TTAGTAAGTC
*
19751112 AAATAAAATATACTAATAAATGCT
1 AAATAAAATATACTAATAAATACT
* *
19751136 AAATATATTATACTAATAAATACT
1 AAATAAAATATACTAATAAATACT
19751160 AAAT
1 AAAT
19751164 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.58, C:0.08, G:0.02, T:0.33
Consensus pattern (24 bp):
AAATAAAATATACTAATAAATACT
Found at i:19752970 original size:15 final size:15
Alignment explanation
Indices: 19752940--19752969 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
19752930 AAACTAAACC
19752940 CAAAAACCCGAAAAA
1 CAAAAACCCGAAAAA
19752955 CAAAGAACCCGAAAA
1 CAAA-AACCCGAAAA
19752970 CGTAAACACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.63, C:0.27, G:0.10, T:0.00
Consensus pattern (15 bp):
CAAAAACCCGAAAAA
Found at i:19765246 original size:50 final size:50
Alignment explanation
Indices: 19765139--19765385 Score: 248
Period size: 50 Copynumber: 4.8 Consensus size: 50
19765129 ATTTGGGTAA
* *
19765139 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCGTTGAGGTTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGA-G--ATG
*
19765195 AGAGGTCCCATGTAAGATCATGTCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
19765245 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * *
19765295 AGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCA--GTACA-G
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * *
19765343 AAAACATCCCATGCAAGACCATGTCTGGGACATGGCTTTGGCA
1 -AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
19765386 TGTTATTATC
Statistics
Matches: 166, Mismatches: 23, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
48 2 0.01
49 37 0.22
50 83 0.50
52 1 0.01
53 2 0.01
55 1 0.01
56 40 0.24
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:19779702 original size:18 final size:18
Alignment explanation
Indices: 19779679--19779717 Score: 60
Period size: 18 Copynumber: 2.2 Consensus size: 18
19779669 CCACAGGAGA
*
19779679 AAGGAAGTGAGGACGAGG
1 AAGGAAGTGAAGACGAGG
*
19779697 AAGGAAGTGAAGAGGAGG
1 AAGGAAGTGAAGACGAGG
19779715 AAG
1 AAG
19779718 AAGCTACAGA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.44, C:0.03, G:0.49, T:0.05
Consensus pattern (18 bp):
AAGGAAGTGAAGACGAGG
Found at i:19790762 original size:36 final size:35
Alignment explanation
Indices: 19790707--19790779 Score: 101
Period size: 36 Copynumber: 2.1 Consensus size: 35
19790697 TGAGTCTCCA
* **
19790707 TCCAAACATACCAAAGAGCACATAAGTGGTAATCC
1 TCCAAACACACCAAAGAGCACATAAGTACTAATCC
*
19790742 TCCAAAGCACACCATAGAGCACATAAGTACTAATCC
1 TCCAAA-CACACCAAAGAGCACATAAGTACTAATCC
19790778 TC
1 TC
19790780 TAAAACATTA
Statistics
Matches: 33, Mismatches: 4, Indels: 1
0.87 0.11 0.03
Matches are distributed among these distances:
35 6 0.18
36 27 0.82
ACGTcount: A:0.41, C:0.29, G:0.12, T:0.18
Consensus pattern (35 bp):
TCCAAACACACCAAAGAGCACATAAGTACTAATCC
Found at i:19790919 original size:18 final size:18
Alignment explanation
Indices: 19790859--19790924 Score: 60
Period size: 18 Copynumber: 3.7 Consensus size: 18
19790849 AAGGAAATAG
* *
19790859 AACTCCAGATCACAACAA
1 AACTCCATATCAGAACAA
* * * *
19790877 AAATCCATATTAGAATAG
1 AACTCCATATCAGAACAA
*
19790895 AATTCCATATCAGAACAA
1 AACTCCATATCAGAACAA
*
19790913 AACTCCACATCA
1 AACTCCATATCA
19790925 CAACTAAAAT
Statistics
Matches: 36, Mismatches: 12, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
18 36 1.00
ACGTcount: A:0.48, C:0.26, G:0.06, T:0.20
Consensus pattern (18 bp):
AACTCCATATCAGAACAA
Found at i:19792852 original size:42 final size:42
Alignment explanation
Indices: 19792803--19792888 Score: 163
Period size: 42 Copynumber: 2.0 Consensus size: 42
19792793 TAAATTCTTC
*
19792803 TTTCATAAAAATTCTTTATCTCATCCAATATCCTCAAAATTT
1 TTTCATAAAAATTCTTTATCTCATCCAATATCCTCAAAAATT
19792845 TTTCATAAAAATTCTTTATCTCATCCAATATCCTCAAAAATT
1 TTTCATAAAAATTCTTTATCTCATCCAATATCCTCAAAAATT
19792887 TT
1 TT
19792889 CACTTATCTA
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 43 1.00
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.43
Consensus pattern (42 bp):
TTTCATAAAAATTCTTTATCTCATCCAATATCCTCAAAAATT
Found at i:19793189 original size:21 final size:21
Alignment explanation
Indices: 19793165--19793218 Score: 99
Period size: 21 Copynumber: 2.6 Consensus size: 21
19793155 TTGGGTAGAG
19793165 GTTTTGAGACATATTAGACAA
1 GTTTTGAGACATATTAGACAA
19793186 GTTTTGAGACATATTAGACAA
1 GTTTTGAGACATATTAGACAA
*
19793207 GTTTCGAGACAT
1 GTTTTGAGACAT
19793219 GATACCATTG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.35, C:0.11, G:0.20, T:0.33
Consensus pattern (21 bp):
GTTTTGAGACATATTAGACAA
Found at i:19793394 original size:20 final size:20
Alignment explanation
Indices: 19793363--19793409 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
19793353 TTTATTACAA
*
19793363 TTTTATTAAT-TTTTATG-T
1 TTTTATAAATATTTTATGAT
19793381 TTTTATAAATATTTTATGATT
1 TTTTATAAATATTTTATGA-T
19793402 TTTTATAA
1 TTTTATAA
19793410 CCACGTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 9 0.36
19 7 0.28
21 9 0.36
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTATAAATATTTTATGAT
Found at i:19793539 original size:20 final size:20
Alignment explanation
Indices: 19793508--19793554 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
19793498 TTTATTACAA
*
19793508 TTTTATTAAT-TTTTATG-T
1 TTTTATAAATATTTTATGAT
19793526 TTTTATAAATATTTTATGATT
1 TTTTATAAATATTTTATGA-T
19793547 TTTTATAA
1 TTTTATAA
19793555 CCACGTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 9 0.36
19 7 0.28
21 9 0.36
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTATAAATATTTTATGAT
Found at i:19793557 original size:145 final size:145
Alignment explanation
Indices: 19793294--19793729 Score: 872
Period size: 145 Copynumber: 3.0 Consensus size: 145
19793284 TAACAAGCAA
19793294 AGCCTTCTCTAAGTTAGTGATGGTGGAATATTTTAATAATTATTTATAATTATTTTATTTTTATT
1 AGCCTTCTCTAAGTTAGTGATGGTGGAATATTTTAATAATTATTTATAATTATTTTATTTTTATT
19793359 ACAATTTTATTAATTTTTATGTTTTTATAAATATTTTATGATTTTTTATAACCACGTTTAAAATG
66 ACAATTTTATTAATTTTTATGTTTTTATAAATATTTTATGATTTTTTATAACCACGTTTAAAATG
19793424 AATCTAGACAAATAT
131 AATCTAGACAAATAT
19793439 AGCCTTCTCTAAGTTAGTGATGGTGGAATATTTTAATAATTATTTATAATTATTTTATTTTTATT
1 AGCCTTCTCTAAGTTAGTGATGGTGGAATATTTTAATAATTATTTATAATTATTTTATTTTTATT
19793504 ACAATTTTATTAATTTTTATGTTTTTATAAATATTTTATGATTTTTTATAACCACGTTTAAAATG
66 ACAATTTTATTAATTTTTATGTTTTTATAAATATTTTATGATTTTTTATAACCACGTTTAAAATG
19793569 AATCTAGACAAATAT
131 AATCTAGACAAATAT
19793584 AGCCTTCTCTAAGTTAGTGATGGTGGAATATTTTAATAATTATTTATAATTATTTTATTTTTATT
1 AGCCTTCTCTAAGTTAGTGATGGTGGAATATTTTAATAATTATTTATAATTATTTTATTTTTATT
19793649 ACAATTTTATTAATTTTTATGTTTTTATAAATATTTTATGATTTTTTATAACCACGTTTAAAATG
66 ACAATTTTATTAATTTTTATGTTTTTATAAATATTTTATGATTTTTTATAACCACGTTTAAAATG
19793714 AATCTAGACAAATAT
131 AATCTAGACAAATAT
19793729 A
1 A
19793730 AATAAATATT
Statistics
Matches: 291, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
145 291 1.00
ACGTcount: A:0.34, C:0.07, G:0.09, T:0.50
Consensus pattern (145 bp):
AGCCTTCTCTAAGTTAGTGATGGTGGAATATTTTAATAATTATTTATAATTATTTTATTTTTATT
ACAATTTTATTAATTTTTATGTTTTTATAAATATTTTATGATTTTTTATAACCACGTTTAAAATG
AATCTAGACAAATAT
Found at i:19793684 original size:20 final size:20
Alignment explanation
Indices: 19793653--19793699 Score: 62
Period size: 18 Copynumber: 2.4 Consensus size: 20
19793643 TTTATTACAA
*
19793653 TTTTATTAAT-TTTTATG-T
1 TTTTATAAATATTTTATGAT
19793671 TTTTATAAATATTTTATGATT
1 TTTTATAAATATTTTATGA-T
19793692 TTTTATAA
1 TTTTATAA
19793700 CCACGTTTAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
18 9 0.36
19 7 0.28
21 9 0.36
ACGTcount: A:0.30, C:0.00, G:0.04, T:0.66
Consensus pattern (20 bp):
TTTTATAAATATTTTATGAT
Found at i:19794900 original size:20 final size:21
Alignment explanation
Indices: 19794862--19794918 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 21
19794852 TTGAAAAATT
19794862 AATGACAAAATTAAATTAAAA
1 AATGACAAAATTAAATTAAAA
*
19794883 AATGACCAAATT-AATTAAAA
1 AATGACAAAATTAAATTAAAA
**
19794903 AAAAACAAACATTAAA
1 AATGACAAA-ATTAAA
19794919 AACTAAAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
20 14 0.47
21 14 0.47
22 2 0.07
ACGTcount: A:0.67, C:0.09, G:0.04, T:0.21
Consensus pattern (21 bp):
AATGACAAAATTAAATTAAAA
Found at i:19812102 original size:17 final size:17
Alignment explanation
Indices: 19812080--19812112 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
19812070 ATAAGTACAC
19812080 ATTGTCATTACATTTTT
1 ATTGTCATTACATTTTT
19812097 ATTGTCATTACATTTT
1 ATTGTCATTACATTTT
19812113 CATGTTAGTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.06, T:0.58
Consensus pattern (17 bp):
ATTGTCATTACATTTTT
Found at i:19821586 original size:10 final size:10
Alignment explanation
Indices: 19821569--19821598 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
19821559 CCAAAAAATC
19821569 AGTC-AAAAA
1 AGTCAAAAAA
19821578 AGTCAAAAAA
1 AGTCAAAAAA
19821588 AGTCAAAAAA
1 AGTCAAAAAA
19821598 A
1 A
19821599 TACGAAATCC
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 4 0.20
10 16 0.80
ACGTcount: A:0.70, C:0.10, G:0.10, T:0.10
Consensus pattern (10 bp):
AGTCAAAAAA
Found at i:19834913 original size:2 final size:2
Alignment explanation
Indices: 19834906--19834932 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
19834896 TTACCTAAAC
19834906 AT 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 AT A
19834933 CTTGACTACA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:19838125 original size:50 final size:50
Alignment explanation
Indices: 19838056--19838200 Score: 182
Period size: 50 Copynumber: 2.9 Consensus size: 50
19838046 TATTGAGGTT
** *
19838056 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCATTGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAC
* * *
19838106 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGAC
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAC
** * * * *
19838156 ATGAGAACTCCCATGTACGACCATATCTGGGATATGGCGTTGGCA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCA
19838201 GTACAGGAAA
Statistics
Matches: 80, Mismatches: 15, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
50 80 1.00
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAC
Found at i:19845550 original size:50 final size:50
Alignment explanation
Indices: 19845475--19845606 Score: 174
Period size: 50 Copynumber: 2.6 Consensus size: 50
19845465 TATTAAGGTT
* * * *
19845475 ATGAGAGGTCCCACGTAAGAACATGTCTGGGACATGGCGTTGGCACCGAG
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAG
* *
19845525 ATGAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCAAT
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAG
** * *
19845575 ATGAGAACTCCCATGTAAGACCATATCTGGGA
1 ATGAGAGGTCCCACGTAAGACCATGTCTGGGA
19845607 TATGACATTA
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 71 1.00
ACGTcount: A:0.28, C:0.23, G:0.30, T:0.19
Consensus pattern (50 bp):
ATGAGAGGTCCCACGTAAGACCATGTCTGGGACATGGCATGGGCACCAAG
Found at i:19845895 original size:20 final size:20
Alignment explanation
Indices: 19845870--19845908 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
19845860 TGAGTTACTT
19845870 AAGTAAGCA-AGTAAGTAAAC
1 AAGTAAG-AGAGTAAGTAAAC
19845890 AAGTAAGAGAGTAAGTAAA
1 AAGTAAGAGAGTAAGTAAA
19845909 GAAGAAGTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.56, C:0.05, G:0.23, T:0.15
Consensus pattern (20 bp):
AAGTAAGAGAGTAAGTAAAC
Found at i:19855136 original size:25 final size:25
Alignment explanation
Indices: 19855108--19855161 Score: 72
Period size: 25 Copynumber: 2.2 Consensus size: 25
19855098 TGTAGTGGCA
19855108 AGGTGGCAACACAAGTGTGGCAAGG
1 AGGTGGCAACACAAGTGTGGCAAGG
** * *
19855133 AGGTGGCGTCACAGGTGTGGTAAGG
1 AGGTGGCAACACAAGTGTGGCAAGG
19855158 AGGT
1 AGGT
19855162 CAGAGGTTCA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.26, C:0.13, G:0.44, T:0.17
Consensus pattern (25 bp):
AGGTGGCAACACAAGTGTGGCAAGG
Found at i:19855857 original size:27 final size:27
Alignment explanation
Indices: 19855795--19856137 Score: 406
Period size: 27 Copynumber: 12.7 Consensus size: 27
19855785 GGCTTGGACC
*
19855795 GTAAAATTATCGAAATA-CCTCGAAGG
1 GTAAAATTATCGAAATACCCTCGATGG
*
19855821 GTAAAATTATCGAAATACCCCCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
*
19855848 GTAAAATTATCGAAATACCCTCGAAGG
1 GTAAAATTATCGAAATACCCTCGATGG
* * *
19855875 GTAAAATTATTGAAATACCCCCGATAG
1 GTAAAATTATCGAAATACCCTCGATGG
*
19855902 GTAAAATTA-CTGAAATACCCTCTATGG
1 GTAAAATTATC-GAAATACCCTCGATGG
19855929 GTAAAATTATCGAAATACCCTCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* *
19855956 GTAAAACTACCGAAATACCCTCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* * **
19855983 GTAAAATTACCGAAATACCATTAATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* * **
19856010 GTAAAACTATCAAAATATTCTCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
*
19856037 GTAAAATTATCGAAATGCCCTCGATGG
1 GTAAAATTATCGAAATACCCTCGATGG
* * *
19856064 GTAAAATTATCTAAATACCCCCGGTGG
1 GTAAAATTATCGAAATACCCTCGATGG
* * * *
19856091 GGAAAATTA-CTGAAATACCCCCAAAGG
1 GTAAAATTATC-GAAATACCCTCGATGG
19856118 GTAAAATTA-CTGAAATACCC
1 GTAAAATTATC-GAAATACCC
19856138 CCATAGGGTA
Statistics
Matches: 271, Mismatches: 42, Indels: 7
0.85 0.13 0.02
Matches are distributed among these distances:
26 18 0.07
27 252 0.93
28 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.17, T:0.24
Consensus pattern (27 bp):
GTAAAATTATCGAAATACCCTCGATGG
Found at i:19858578 original size:33 final size:34
Alignment explanation
Indices: 19858527--19858601 Score: 107
Period size: 33 Copynumber: 2.2 Consensus size: 34
19858517 AGATTTAAAC
*
19858527 AAATTAATTACTAACACTTATTTAAGCTGAACTA
1 AAATTAATTACTAACACTTACTTAAGCTGAACTA
* *
19858561 AAATTAATT-CTAACACTTACTTGAGTTGAACTA
1 AAATTAATTACTAACACTTACTTAAGCTGAACTA
*
19858594 AATTTAAT
1 AAATTAAT
19858602 AAACTAACTC
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
33 28 0.76
34 9 0.24
ACGTcount: A:0.43, C:0.13, G:0.07, T:0.37
Consensus pattern (34 bp):
AAATTAATTACTAACACTTACTTAAGCTGAACTA
Found at i:19860390 original size:18 final size:18
Alignment explanation
Indices: 19860367--19860405 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
19860357 CTCTTTTTGC
19860367 TCTTTTTC-ATTCTCTTTT
1 TCTTTTTCGATT-TCTTTT
19860385 TCTTTTTCGATTTCTTTT
1 TCTTTTTCGATTTCTTTT
19860403 TCT
1 TCT
19860406 GTCTTTCTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
18 17 0.85
19 3 0.15
ACGTcount: A:0.05, C:0.21, G:0.03, T:0.72
Consensus pattern (18 bp):
TCTTTTTCGATTTCTTTT
Found at i:19863521 original size:18 final size:18
Alignment explanation
Indices: 19863478--19863514 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
19863468 AATTTCAAGA
19863478 AGGGTTTTTAATGAAAAC
1 AGGGTTTTTAATGAAAAC
19863496 AGGGTTTTTAATGAAAAC
1 AGGGTTTTTAATGAAAAC
19863514 A
1 A
19863515 TGTTTTTCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.41, C:0.05, G:0.22, T:0.32
Consensus pattern (18 bp):
AGGGTTTTTAATGAAAAC
Found at i:19866078 original size:946 final size:934
Alignment explanation
Indices: 19864678--19866431 Score: 2536
Period size: 946 Copynumber: 1.9 Consensus size: 934
19864668 ATATGGTAGG
* *
19864678 TTTCATATAGAAATAAGTTAGTTGTGAATGGTTGATAAACAGAAAAATATGCACAAGTTTAGATA
1 TTTCATATAAAAATAAGTTAGTTGGGAATGGTTGATAAACAGAAAAATATGCACAAGTTTAGATA
*
19864743 GGTTTGATAAATTGTGATTGAGGTGCCTTTTGGCATATTGGTTGTGTGGATATTTGGTATAGAAA
66 GGTTTGATAAATTGTGATTGAGGTGCCTTTTGGCATATTGGTTGTATGGATATTTGGTATAGAAA
*
19864808 TTTGGTTATTTTATGCATGTATTGGACATGATTAAGGGTATTGGTTTTATGTGCAAATGGCTTGT
131 TTTGGTTATTTTATGCATGTATTGGACATGATTAAGGGTATTGGTTTTATGTACAAATGGCTTGT
* *
19864873 AGGTATGTGCTTGAATTGGGTGAAAGAAATGGCTTGATTTTGGCCTATTTCTTGTCCACATGCCT
196 AGGTATGTGCTTGAATTGGGTGAAAGAAATGGCTTGATTTTGGCCTATTTCTTGCCCACAGGCCT
* * * *
19864938 AAGACATGGGCGTGTCTCTCAACCGTGTGTGACACACAGCCAAGCGACACGACCATGTGTCCCAT
261 AAGACATCGGCATGTCTCTCAACCGTGTGTGACACACAGCCAAGCAACACGACCATCTGTCCCAT
* * **
19865003 GTAGATTTTAAAGGGTTACAAGTCAGGTAGTTACACGGCCTAGCACATGGGTGTGTGAGACCATT
326 GTAGATTTTAAAGGGTTACAAGTCAGGTAGATACACGGCCTAGCACAAGGGCATGTGAGACCATT
* *
19865068 TCGAGAGTTACACAGCCTGGCACACAAGCGTGTGGCTTGGCCGTGTCACCCAAGTCAGAGAGTTA
391 TCGAGAGTTACACAGCCTGGCACACAAGCGTGTAGCTTGGCCATGTCACCCAAGTCAGAGAGTTA
* * **
19865133 CACGAGCACAGACACGATTTGGGACACGGCTATATGTGTCCCTATTTTGAATGTTACACGACCTA
456 CAC--G---AG---C----TGGGACACGGC--CATGTGTCCCTATGTCAAATGTTACACGACCTA
* *
19865198 AGACACAAGCGTGTGTCTCAGCCGTGTGAGGAACACAGCCTGGCCACACGGCTGTGTAACCCCTA
507 AGACACAAGCGTGTGTCTCAGCCGCGTGAGGAACACAGCCTGGCCACACGGCCGTGTAACCCCTA
*
19865263 CAGTGTGAATTTTTCTAGCTTTTTCCTTAAGGTTTCATATGTTTTCGATTTAGTCCC-GAAT-CG
572 CAGTGTGAATTTTTCTAACTTTTTCCTTAAGGTTTCATATGTTTTCGATTTAG-CCCAGAATGC-
* * * * * * *
19865326 TTTCTAAAGTGTTTTTAAGGCCTCGAGG-TTCGAACAAGGGATGATATGCATGTGTTTTAATGGA
635 TTTATAAAGTGTTTTTAAGGACTCAAGGCCTCGAACAAGGGACGATATGCATGTATTTGAATGGA
* * *
19865390 TTATGCTATGATTTATGAAATGTTTGGAAAAT-AATGA-TTCAAGTTACGTTTTTACGGTAATGA
700 TTATGATATGATTTATGAAATGTTTGG-AAATGAATGATTTCAAGTTACATTTTTACGGTAATGC
*
19865453 T-TCGTAA-TCTCATTCTAGCGA-CGGATATGGGTTAGGGGTGTTACATTTAATGGTATCAGAGC
764 TCT-GTAACCCT-ATTCTAGCGATC-GATATGGGTTAGGGGTGTTACATTTAATGGTATCAGAGC
19865515 TACAGTTTAGTCAATTCTCAGACTGAACATTGTTTGTATGAGTCTAGAAATACATGCCATTATAT
826 TACAGTTTAGTCAATTCTCAGACTGAACATTGTTTGTATGAGTCTAGAAATACATGCCATTATAT
19865580 AACCTGAGATAGTGTGATAACTCTTGACTCATTTTGAATTATGC
891 AACCTGAGATAGTGTGATAACTCTTGACTCATTTTGAATTATGC
* * * *
19865624 TTTCGTATAAAAATAAGTTAGTTGGGAATGGTTGATGAATAGACAAATATGCACAAGTTTAGATA
1 TTTCATATAAAAATAAGTTAGTTGGGAATGGTTGATAAACAGAAAAATATGCACAAGTTTAGATA
19865689 GGTTTGATAAATTGTGATTGAGGTGCCTTTTGGCATATTGGTTGTAT-GATATTTGGTATAGAAA
66 GGTTTGATAAATTGTGATTGAGGTGCCTTTTGGCATATTGGTTGTATGGATATTTGGTATAGAAA
** * *
19865753 TTTTTTTATTTTATGCATGTATTGGACATGATTTAGGGTCTTGGTTTTATGTACAAATGGCTTGT
131 TTTGGTTATTTTATGCATGTATTGGACATGATTAAGGGTATTGGTTTTATGTACAAATGGCTTGT
* *
19865818 AGGTATGTGCTTGAATTGGGTGAAATAAATTGCTTGATTTTGGCCTATTTCTTGCCCACACGGCC
196 AGGTATGTGCTTGAATTGGGTGAAAGAAATGGCTTGATTTTGGCCTATTTCTTGCCCACA-GGCC
* * ** * * *
19865883 TAATACATCGGTATGTCTCTCAACCGTGTGTTTCACACGGCCAGGCAACACGACCGTCTGTCCCA
260 TAAGACATCGGCATGTCTCTCAACCGTGTGTGACACACAGCCAAGCAACACGACCATCTGTCCCA
* * *
19865948 TGTAGATTTTAAAGGGTTGCAAGTCAGGTAGATACACGGCCTATCACAAGGGCATGTGAGGCCAT
325 TGTAGATTTTAAAGGGTTACAAGTCAGGTAGATACACGGCCTAGCACAAGGGCATGTGAGACCAT
* ** * *
19866013 TTTGAGAGTTACACAGCCTGGCACACGGGCGTGTAGCTTGGCCATGTGACCCAATTCAGAGAGTT
390 TTCGAGAGTTACACAGCCTGGCACACAAGCGTGTAGCTTGGCCATGTCACCCAAGTCAGAGAGTT
* * ** *
19866078 ACACGAGCTGGGACACGGCCATGTGTCCCTATGTCAAATGTTACATGGCCTAAGACACGGGCTTG
455 ACACGAGCTGGGACACGGCCATGTGTCCCTATGTCAAATGTTACACGACCTAAGACACAAGCGTG
* * * * * *
19866143 TGTCTCAGCCGCGTGAGGCACACAGCTTGGCCACATGGCCGTGTGACCGCTATAGTGTGAATTTT
520 TGTCTCAGCCGCGTGAGGAACACAGCCTGGCCACACGGCCGTGTAACCCCTACAGTGTGAATTTT
** *
19866208 TCTAACTTTTTCCTTAAGGTTTCATATGTTTTTTATTTAGCCCAGAATGCTTTATAATGTGTTTT
585 TCTAACTTTTTCCTTAAGGTTTCATATGTTTTCGATTTAGCCCAGAATGCTTTATAAAGTGTTTT
*
19866273 TAAGGACTCAAGGCCTCGAACAAGGGACGATATGCATGTATTTGAATGGATTCTGATATGATTTA
650 TAAGGACTCAAGGCCTCGAACAAGGGACGATATGCATGTATTTGAATGGATTATGATATGATTTA
* * * * *
19866338 TGAAATGTTTGGAAATGGATTATTTTAAGTTACATTTTTATGGTAATGCTCTGTAACCCTATTTT
715 TGAAATGTTTGGAAATGAATGATTTCAAGTTACATTTTTACGGTAATGCTCTGTAACCCTATTCT
*
19866403 AGTGATCGATATGGGTTAGGGGTGTTACA
780 AGCGATCGATATGGGTTAGGGGTGTTACA
19866432 AAAATGCTCT
Statistics
Matches: 719, Mismatches: 80, Indels: 30
0.87 0.10 0.04
Matches are distributed among these distances:
931 3 0.00
932 163 0.23
933 61 0.08
934 68 0.09
935 4 0.01
938 1 0.00
941 2 0.00
944 1 0.00
945 134 0.19
946 282 0.39
ACGTcount: A:0.26, C:0.16, G:0.24, T:0.33
Consensus pattern (934 bp):
TTTCATATAAAAATAAGTTAGTTGGGAATGGTTGATAAACAGAAAAATATGCACAAGTTTAGATA
GGTTTGATAAATTGTGATTGAGGTGCCTTTTGGCATATTGGTTGTATGGATATTTGGTATAGAAA
TTTGGTTATTTTATGCATGTATTGGACATGATTAAGGGTATTGGTTTTATGTACAAATGGCTTGT
AGGTATGTGCTTGAATTGGGTGAAAGAAATGGCTTGATTTTGGCCTATTTCTTGCCCACAGGCCT
AAGACATCGGCATGTCTCTCAACCGTGTGTGACACACAGCCAAGCAACACGACCATCTGTCCCAT
GTAGATTTTAAAGGGTTACAAGTCAGGTAGATACACGGCCTAGCACAAGGGCATGTGAGACCATT
TCGAGAGTTACACAGCCTGGCACACAAGCGTGTAGCTTGGCCATGTCACCCAAGTCAGAGAGTTA
CACGAGCTGGGACACGGCCATGTGTCCCTATGTCAAATGTTACACGACCTAAGACACAAGCGTGT
GTCTCAGCCGCGTGAGGAACACAGCCTGGCCACACGGCCGTGTAACCCCTACAGTGTGAATTTTT
CTAACTTTTTCCTTAAGGTTTCATATGTTTTCGATTTAGCCCAGAATGCTTTATAAAGTGTTTTT
AAGGACTCAAGGCCTCGAACAAGGGACGATATGCATGTATTTGAATGGATTATGATATGATTTAT
GAAATGTTTGGAAATGAATGATTTCAAGTTACATTTTTACGGTAATGCTCTGTAACCCTATTCTA
GCGATCGATATGGGTTAGGGGTGTTACATTTAATGGTATCAGAGCTACAGTTTAGTCAATTCTCA
GACTGAACATTGTTTGTATGAGTCTAGAAATACATGCCATTATATAACCTGAGATAGTGTGATAA
CTCTTGACTCATTTTGAATTATGC
Found at i:19877909 original size:51 final size:53
Alignment explanation
Indices: 19877833--19877943 Score: 208
Period size: 51 Copynumber: 2.1 Consensus size: 53
19877823 TGCCATGAAA
19877833 ACTTAGTTTCTTTTGAGATTAGACATGCATGAA-GTTTATATCTTTAGAATT-
1 ACTTAGTTTCTTTTGAGATTAGACATGCATGAAGGTTTATATCTTTAGAATTG
19877884 ACTTAGTTTCTTTTGAGATTAGACATGCATGAAGGTTTATATCTTTAGAATTG
1 ACTTAGTTTCTTTTGAGATTAGACATGCATGAAGGTTTATATCTTTAGAATTG
19877937 ACTTAGT
1 ACTTAGT
19877944 AGCTTTCTTG
Statistics
Matches: 58, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
51 33 0.57
52 18 0.31
53 7 0.12
ACGTcount: A:0.29, C:0.10, G:0.17, T:0.44
Consensus pattern (53 bp):
ACTTAGTTTCTTTTGAGATTAGACATGCATGAAGGTTTATATCTTTAGAATTG
Found at i:19880250 original size:11 final size:11
Alignment explanation
Indices: 19880236--19880260 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
19880226 TATGTCATTA
19880236 ATATAGTTTGC
1 ATATAGTTTGC
19880247 ATATAGTTTGC
1 ATATAGTTTGC
19880258 ATA
1 ATA
19880261 CTTAGGATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.32, C:0.08, G:0.16, T:0.44
Consensus pattern (11 bp):
ATATAGTTTGC
Found at i:19884226 original size:45 final size:45
Alignment explanation
Indices: 19884155--19884261 Score: 182
Period size: 45 Copynumber: 2.4 Consensus size: 45
19884145 ATAAGGGTGG
*
19884155 GATC-ACTTAATGAAACTCTTATTTTCTTTAATTACTAAAGCGTA
1 GATCTACTTAATGAAACTCTTAATTTCTTTAATTACTAAAGCGTA
19884199 GATCTACTTAATGAAACTCTTAATTTCTTTAATTACTAAAGCGTA
1 GATCTACTTAATGAAACTCTTAATTTCTTTAATTACTAAAGCGTA
19884244 GATCTACTTTAAT-AAACT
1 GATCTAC-TTAATGAAACT
19884262 ATTTCATTTA
Statistics
Matches: 60, Mismatches: 1, Indels: 3
0.94 0.02 0.05
Matches are distributed among these distances:
44 4 0.07
45 51 0.85
46 5 0.08
ACGTcount: A:0.36, C:0.16, G:0.08, T:0.40
Consensus pattern (45 bp):
GATCTACTTAATGAAACTCTTAATTTCTTTAATTACTAAAGCGTA
Found at i:19897706 original size:41 final size:41
Alignment explanation
Indices: 19897649--19897938 Score: 305
Period size: 41 Copynumber: 7.0 Consensus size: 41
19897639 TGTAAACAGA
* **
19897649 GGCACGTATGTGCAATTCAAGACTACCGAAA-TACAAATAGG
1 GGCACGTATGTGCAATTCAGGGGTACC-AAAGTACAAATAGG
*
19897690 GGCACGTATGTGCAATTCAGGGGTA-CACAAGTACAACAGTGTCAGT
1 GGCACGTATGTGCAATTCAGGGGTACCA-AAGTACAA-A---T-AGG
* * * * *
19897736 GTCATGTATGTGCAATTCAAGGGTACCAAAGTACAAACAGT
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGG
* * *
19897777 GGCACGTATGTGCAATTTAGGGGTACTAAAGTACAAATAGT
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGG
* *
19897818 GGCACGTATGTGTAATTTAGGGGTACCAAAGTACAAATAGG
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGG
* * * * *
19897859 GGCACGTATGTGCAATTTAGGGGTATCGAAGTAAAAATATG
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGG
* * *
19897900 GGCACGTATGTGCAATTCAGGGGTATCGAAGTAAAAATA
1 GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATA
19897939 TGAGATATTA
Statistics
Matches: 218, Mismatches: 23, Indels: 16
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.00
40 3 0.01
41 177 0.81
42 1 0.00
45 2 0.01
46 32 0.15
47 2 0.01
ACGTcount: A:0.35, C:0.15, G:0.27, T:0.24
Consensus pattern (41 bp):
GGCACGTATGTGCAATTCAGGGGTACCAAAGTACAAATAGG
Found at i:19897881 original size:21 final size:21
Alignment explanation
Indices: 19897777--19897881 Score: 72
Period size: 21 Copynumber: 5.1 Consensus size: 21
19897767 TACAAACAGT
19897777 GGCACGTATGTGCAATTTAGG
1 GGCACGTATGTGCAATTTAGG
* * * * *
19897798 GGTAC-TAAAGTACAA-ATAGT
1 GGCACGT-ATGTGCAATTTAGG
*
19897818 GGCACGTATGTGTAATTTAGG
1 GGCACGTATGTGCAATTTAGG
* ** * * *
19897839 GGTACCAAAGTACAA-ATAGG
1 GGCACGTATGTGCAATTTAGG
19897859 GGCACGTATGTGCAATTTAGG
1 GGCACGTATGTGCAATTTAGG
19897880 GG
1 GG
19897882 TATCGAAGTA
Statistics
Matches: 56, Mismatches: 24, Indels: 8
0.64 0.27 0.09
Matches are distributed among these distances:
20 27 0.48
21 29 0.52
ACGTcount: A:0.31, C:0.12, G:0.30, T:0.26
Consensus pattern (21 bp):
GGCACGTATGTGCAATTTAGG
Found at i:19900024 original size:6 final size:6
Alignment explanation
Indices: 19900006--19900053 Score: 78
Period size: 6 Copynumber: 7.8 Consensus size: 6
19899996 GCAAATAAAT
*
19900006 CATTTC TCATTTC CATTTC CATTTC CATTTC AATTTC CATTTC CATTT
1 CATTTC -CATTTC CATTTC CATTTC CATTTC CATTTC CATTTC CATTT
19900054 TTGGGAAAAC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
6 33 0.85
7 6 0.15
ACGTcount: A:0.19, C:0.29, G:0.00, T:0.52
Consensus pattern (6 bp):
CATTTC
Found at i:19906889 original size:9 final size:9
Alignment explanation
Indices: 19906875--19906899 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
19906865 TATCATTTTC
19906875 CATTTTATT
1 CATTTTATT
19906884 CATTTTATT
1 CATTTTATT
19906893 CATTTTA
1 CATTTTA
19906900 GTCCTCTATC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.24, C:0.12, G:0.00, T:0.64
Consensus pattern (9 bp):
CATTTTATT
Found at i:19909606 original size:35 final size:35
Alignment explanation
Indices: 19909560--19909629 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
19909550 AAGAATCATC
* * *
19909560 TTTCATATTTTATTTTTATGTTTGTTTGCTTGAGG
1 TTTCAAATTTTATTTTTATGTTTCTTTACTTGAGG
19909595 TTTCAAATTTTATTTTTATGTTTCTTTACTTGAGG
1 TTTCAAATTTTATTTTTATGTTTCTTTACTTGAGG
19909630 ACAAGCAATG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
35 32 1.00
ACGTcount: A:0.17, C:0.07, G:0.14, T:0.61
Consensus pattern (35 bp):
TTTCAAATTTTATTTTTATGTTTCTTTACTTGAGG
Found at i:19913118 original size:27 final size:27
Alignment explanation
Indices: 19913079--19913150 Score: 92
Period size: 27 Copynumber: 2.6 Consensus size: 27
19913069 CATATCGGAA
* *
19913079 AAAGGAAGTCTTTGTGGCCATCTAT-G
1 AAAGGAAGCCTTTATGGCCATCTATAG
*
19913105 AAATGGAAGCCTTTATGGCGATCTATAG
1 AAA-GGAAGCCTTTATGGCCATCTATAG
19913133 AAAGGAATGCCTTTATGG
1 AAAGGAA-GCCTTTATGG
19913151 TGCATTCTAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 3 0.08
27 23 0.57
28 14 0.35
ACGTcount: A:0.31, C:0.14, G:0.26, T:0.29
Consensus pattern (27 bp):
AAAGGAAGCCTTTATGGCCATCTATAG
Found at i:19913167 original size:30 final size:27
Alignment explanation
Indices: 19913079--19913167 Score: 81
Period size: 27 Copynumber: 3.2 Consensus size: 27
19913069 CATATCGGAA
* * * *
19913079 AAAGGAAGTCTTTGTGGCCATCT-ATG
1 AAAGGAAGCCTTTATGGCGATCTAAAG
*
19913105 AAATGGAAGCCTTTATGGCGATCTATAG
1 AAA-GGAAGCCTTTATGGCGATCTAAAG
*
19913133 AAAGGAATGCCTTTATGGTGCATTCTAAAG
1 AAAGGAA-GCCTTTATGGCG-A-TCTAAAG
19913163 AAAGG
1 AAAGG
19913168 CCCTAATGGT
Statistics
Matches: 51, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
26 3 0.06
27 21 0.41
28 15 0.29
29 1 0.02
30 11 0.22
ACGTcount: A:0.33, C:0.13, G:0.26, T:0.28
Consensus pattern (27 bp):
AAAGGAAGCCTTTATGGCGATCTAAAG
Found at i:19913348 original size:27 final size:27
Alignment explanation
Indices: 19913302--19913387 Score: 77
Period size: 27 Copynumber: 3.2 Consensus size: 27
19913292 AACATTGAGA
* **
19913302 GAATAATATGTGTGTTAAACTCTGAAG
1 GAATAATATGTATGGCAAACTCTGAAG
*
19913329 GAATAATATGTATGGCAAACTCTAAAAG
1 GAATAATATGTATGGCAAACTCT-GAAG
* * *
19913357 G-ATAA-ATCTTATAGCGAACTCTGAAG
1 GAATAATAT-GTATGGCAAACTCTGAAG
19913383 GAATA
1 GAATA
19913388 GTACATATGG
Statistics
Matches: 48, Mismatches: 8, Indels: 6
0.77 0.13 0.10
Matches are distributed among these distances:
26 6 0.12
27 38 0.79
28 4 0.08
ACGTcount: A:0.42, C:0.10, G:0.20, T:0.28
Consensus pattern (27 bp):
GAATAATATGTATGGCAAACTCTGAAG
Found at i:19916008 original size:21 final size:23
Alignment explanation
Indices: 19915963--19916011 Score: 66
Period size: 21 Copynumber: 2.2 Consensus size: 23
19915953 TGCACATAGT
19915963 TATGAAAACCCTTTTATGAGTAG
1 TATGAAAACCCTTTTATGAGTAG
* *
19915986 TATGAAAGCCC-TTTA-GGGTAG
1 TATGAAAACCCTTTTATGAGTAG
19916007 TATGA
1 TATGA
19916012 GACTTTCCGG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 10 0.42
22 4 0.17
23 10 0.42
ACGTcount: A:0.33, C:0.12, G:0.22, T:0.33
Consensus pattern (23 bp):
TATGAAAACCCTTTTATGAGTAG
Found at i:19916155 original size:36 final size:37
Alignment explanation
Indices: 19916066--19916278 Score: 146
Period size: 37 Copynumber: 5.8 Consensus size: 37
19916056 AGACCATATC
* * *
19916066 CATGGCATGATCCAGGAAAGTCTGCCAGACTCACCTA
1 CATGGCATGATCCAGGGAGGTCAGCCAGACTCACCTA
* * *
19916103 TATGGCATGATCCAGGGAGGTCAGCCGGACTCATCTA
1 CATGGCATGATCCAGGGAGGTCAGCCAGACTCACCTA
* *
19916140 CATGG-ATGATCCAGGGAGGTTC-GCCA-AATCCACCTT
1 CATGGCATGATCCAGGGAGG-TCAGCCAGACT-CACCTA
* * * ** ** *
19916176 TAAGGCATAATCCAATGAGGTCAGTAAGACTCGCCTA
1 CATGGCATGATCCAGGGAGGTCAGCCAGACTCACCTA
* * * * *
19916213 TATGGCATGATCTAGGGAGGTCAGCTAAACTCGCCTA
1 CATGGCATGATCCAGGGAGGTCAGCCAGACTCACCTA
* ** *
19916250 TATGGCACAACCCAGGGAGGTTCA-CCAGA
1 CATGGCATGATCCAGGGAGG-TCAGCCAGA
19916279 TCCATCTTTA
Statistics
Matches: 135, Mismatches: 35, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
35 2 0.01
36 26 0.19
37 102 0.76
38 5 0.04
ACGTcount: A:0.29, C:0.25, G:0.25, T:0.21
Consensus pattern (37 bp):
CATGGCATGATCCAGGGAGGTCAGCCAGACTCACCTA
Found at i:19916300 original size:111 final size:110
Alignment explanation
Indices: 19916092--19916342 Score: 299
Period size: 111 Copynumber: 2.3 Consensus size: 110
19916082 AAAGTCTGCC
* * ** * ** *
19916092 AGACTCACCTATATGGCATGATCCAGGGAGGTCAGCCGGACTCATCTACATGGATGATCCAGGGA
1 AGACTCGCCTATATGGCATGATCTAGGGAGGTCAGCCAAACTCACCTACATGGACAACCCAGGGA
* *
19916157 GGTTCGCCAAATCCACCTTTAAGGCATAATCCAATGAGGTCAG-T
66 GGTTCACCAAATCCACCTTTAAGGCATAATCCAAGGAGGTCAGCT
* * *
19916201 AAGACTCGCCTATATGGCATGATCTAGGGAGGTCAGCTAAACTCGCCTATATGGCACAACCCAGG
1 -AGACTCGCCTATATGGCATGATCTAGGGAGGTCAGCCAAACTCACCTACATGG-ACAACCCAGG
* * * *
19916266 GAGGTTCACCAGATCCATCTTTAAGGCATAATCCAGGGAGGTTAGCT
64 GAGGTTCACCAAATCCACCTTTAAGGCATAATCCAAGGAGGTCAGCT
*
19916313 TGACTCG-CTCATATGGCATGATCTAGGGAG
1 AGACTCGCCT-ATATGGCATGATCTAGGGAG
19916343 TTTCACCAGA
Statistics
Matches: 120, Mismatches: 18, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
110 47 0.39
111 72 0.60
112 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.25, T:0.23
Consensus pattern (110 bp):
AGACTCGCCTATATGGCATGATCTAGGGAGGTCAGCCAAACTCACCTACATGGACAACCCAGGGA
GGTTCACCAAATCCACCTTTAAGGCATAATCCAAGGAGGTCAGCT
Found at i:19916411 original size:74 final size:74
Alignment explanation
Indices: 19916216--19916412 Score: 234
Period size: 74 Copynumber: 2.7 Consensus size: 74
19916206 TCGCCTATAT
* * *
19916216 GGCATGATCTAGGGAGGTCAGCTAAACTCGCCTATATGGCACAACCCAGGGAGGTTCACCAGATC
1 GGCATAATCTAGGGAGGTCAGCTAAACTCGCCTATATGGCACAATCTAGGGAGGTTCACCAGATC
* *
19916281 CATCTTTAA
66 AACCTTTAA
* * ** ** *
19916290 GGCATAATCCAGGGAGGTTAGCTTGACTCG-CTCATATGGCATGATCTAGGGAGTTTCACCAGAT
1 GGCATAATCTAGGGAGGTCAGCTAAACTCGCCT-ATATGGCACAATCTAGGGAGGTTCACCAGAT
19916354 CAACCTTTAA
65 CAACCTTTAA
* * * *
19916364 GGCATAATCTAGTGAGGTCAGCCAAACACGCCTGTATGGCACAATCTAG
1 GGCATAATCTAGGGAGGTCAGCTAAACTCGCCTATATGGCACAATCTAG
19916413 TAGAGCCCAT
Statistics
Matches: 99, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
73 2 0.02
74 95 0.96
75 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.24, T:0.23
Consensus pattern (74 bp):
GGCATAATCTAGGGAGGTCAGCTAAACTCGCCTATATGGCACAATCTAGGGAGGTTCACCAGATC
AACCTTTAA
Found at i:19917722 original size:74 final size:75
Alignment explanation
Indices: 19917622--19917770 Score: 291
Period size: 74 Copynumber: 2.0 Consensus size: 75
19917612 AAGTTTAATG
19917622 GTAGAAAATGAAAGGTTGTTGATAGATAAACAACTTTTGTAAAGGAAATTTTAATGAAATTGTGA
1 GTAGAAAATGAAAGGTTGTTGATAGATAAACAACTTTTGTAAAGGAAATTTTAATGAAATTGTGA
19917687 TTTAGGGACT
66 TTTAGGGACT
19917697 GTAGAAAATG-AAGGTTGTTGATAGATAAACAACTTTTGTAAAGGAAATTTTAATGAAATTGTGA
1 GTAGAAAATGAAAGGTTGTTGATAGATAAACAACTTTTGTAAAGGAAATTTTAATGAAATTGTGA
19917761 TTTAGGGACT
66 TTTAGGGACT
19917771 AAATTGAAAT
Statistics
Matches: 74, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
74 64 0.86
75 10 0.14
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.34
Consensus pattern (75 bp):
GTAGAAAATGAAAGGTTGTTGATAGATAAACAACTTTTGTAAAGGAAATTTTAATGAAATTGTGA
TTTAGGGACT
Found at i:19918509 original size:25 final size:26
Alignment explanation
Indices: 19918454--19918525 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
19918444 CCCGATATAT
* *
19918454 GGCTCTTTATGAGCTTCTCGATTAAA
1 GGCTCTTTGTGAGCTTCCCGATTAAA
*
19918480 GGCTCTTTGTGAGCTTCCCG-TTAAC
1 GGCTCTTTGTGAGCTTCCCGATTAAA
**
19918505 GGCTCTCCG-GAGCTTCCCGAT
1 GGCTCTTTGTGAGCTTCCCGAT
19918526 ACTTGCTTGT
Statistics
Matches: 40, Mismatches: 5, Indels: 3
0.83 0.10 0.06
Matches are distributed among these distances:
24 10 0.25
25 12 0.30
26 18 0.45
ACGTcount: A:0.15, C:0.28, G:0.24, T:0.33
Consensus pattern (26 bp):
GGCTCTTTGTGAGCTTCCCGATTAAA
Found at i:19924096 original size:17 final size:17
Alignment explanation
Indices: 19924074--19924110 Score: 74
Period size: 17 Copynumber: 2.2 Consensus size: 17
19924064 GCTGGAGAAT
19924074 GTTGCAGTAATATGGTG
1 GTTGCAGTAATATGGTG
19924091 GTTGCAGTAATATGGTG
1 GTTGCAGTAATATGGTG
19924108 GTT
1 GTT
19924111 TACTAATTCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.22, C:0.05, G:0.35, T:0.38
Consensus pattern (17 bp):
GTTGCAGTAATATGGTG
Found at i:19928623 original size:20 final size:20
Alignment explanation
Indices: 19928564--19928623 Score: 63
Period size: 19 Copynumber: 3.1 Consensus size: 20
19928554 TCAGGATTCT
* *
19928564 TATTTATAAAT-ATGATAAA
1 TATTTATAAATAATAAAAAA
19928583 T-TTTATAAATAATAAAAAA
1 TATTTATAAATAATAAAAAA
*
19928602 TATTTA-AAATGATAAAACAA
1 TATTTATAAATAATAAAA-AA
19928622 TA
1 TA
19928624 ATATAATCAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
18 9 0.26
19 18 0.51
20 8 0.23
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (20 bp):
TATTTATAAATAATAAAAAA
Found at i:19934314 original size:7 final size:7
Alignment explanation
Indices: 19934302--19934335 Score: 54
Period size: 7 Copynumber: 5.1 Consensus size: 7
19934292 CTAAAAGACC
19934302 ATAAAAA
1 ATAAAAA
19934309 AT-AAAA
1 ATAAAAA
19934315 AT-AAAA
1 ATAAAAA
19934321 ATAAAAA
1 ATAAAAA
19934328 ATAAAAA
1 ATAAAAA
19934335 A
1 A
19934336 CCAAGTAATA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
ATAAAAA
Found at i:19934320 original size:5 final size:6
Alignment explanation
Indices: 19934305--19934334 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
19934295 AAAGACCATA
19934305 AAAAAT AAAAAT AAAAAT AAAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT -AAAAAT AAAAA
19934335 ACCAAGTAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 17 0.74
7 6 0.26
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (6 bp):
AAAAAT
Found at i:19934320 original size:13 final size:12
Alignment explanation
Indices: 19934305--19934334 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
19934295 AAAGACCATA
19934305 AAAAATAAAAAT
1 AAAAATAAAAAT
19934317 AAAAATAAAAAAT
1 AAAAAT-AAAAAT
19934330 AAAAA
1 AAAAA
19934335 ACCAAGTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 6 0.35
13 11 0.65
ACGTcount: A:0.87, C:0.00, G:0.00, T:0.13
Consensus pattern (12 bp):
AAAAATAAAAAT
Found at i:19937240 original size:18 final size:18
Alignment explanation
Indices: 19937214--19937272 Score: 54
Period size: 16 Copynumber: 3.5 Consensus size: 18
19937204 CTTTGATTTT
*
19937214 CAAAATATTTTGATATAA
1 CAAACTATTTTGATATAA
* * *
19937232 CAAACTA--TTAAGATGA
1 CAAACTATTTTGATATAA
19937248 -AAA-TATTTTGATATAA
1 CAAACTATTTTGATATAA
19937264 CAAACTATT
1 CAAACTATT
19937273 AAGAATTAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 8
0.67 0.16 0.18
Matches are distributed among these distances:
14 2 0.07
15 3 0.10
16 12 0.40
17 3 0.10
18 10 0.33
ACGTcount: A:0.49, C:0.08, G:0.07, T:0.36
Consensus pattern (18 bp):
CAAACTATTTTGATATAA
Found at i:19937252 original size:32 final size:32
Alignment explanation
Indices: 19937215--19937276 Score: 124
Period size: 32 Copynumber: 1.9 Consensus size: 32
19937205 TTTGATTTTC
19937215 AAAATATTTTGATATAACAAACTATTAAGATG
1 AAAATATTTTGATATAACAAACTATTAAGATG
19937247 AAAATATTTTGATATAACAAACTATTAAGA
1 AAAATATTTTGATATAACAAACTATTAAGA
19937277 ATTAAATTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.52, C:0.06, G:0.08, T:0.34
Consensus pattern (32 bp):
AAAATATTTTGATATAACAAACTATTAAGATG
Found at i:19942680 original size:45 final size:45
Alignment explanation
Indices: 19942608--19942725 Score: 121
Period size: 45 Copynumber: 2.6 Consensus size: 45
19942598 GCTATACGCT
* * * *
19942608 TAAAATGAATAAGGCCGTAGCTGAAAGATGCTATGGCATCATGAC
1 TAAAATGAATAAGACCATAGCTAAAAGATGCTATAGCATCATGAC
* * * *
19942653 TAAAATGAGTAAGACCATGGCTAAAAGATGTTATAGCATCATG-G
1 TAAAATGAATAAGACCATAGCTAAAAGATGCTATAGCATCATGAC
* * *
19942697 TAAATAAGACTAAGACCATAGCTGAAAGA
1 TAAA-ATGAATAAGACCATAGCTAAAAGA
19942726 CTTTATGGCA
Statistics
Matches: 60, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
44 4 0.07
45 56 0.93
ACGTcount: A:0.42, C:0.14, G:0.22, T:0.22
Consensus pattern (45 bp):
TAAAATGAATAAGACCATAGCTAAAAGATGCTATAGCATCATGAC
Found at i:19942737 original size:45 final size:45
Alignment explanation
Indices: 19942625--19942737 Score: 131
Period size: 45 Copynumber: 2.5 Consensus size: 45
19942615 AATAAGGCCG
* * *
19942625 TAGCTGAAAGATGCTATGGCATCATGACTAAAATGAGTAAGACCA
1 TAGCTGAAAGATGTTATGGCATCATGACTAAAAAGACTAAGACCA
* * * *
19942670 TGGCTAAAAGATGTTATAGCATCATG-GTAAATAAGACTAAGACCA
1 TAGCTGAAAGATGTTATGGCATCATGACTAAA-AAGACTAAGACCA
19942715 TAGCTGAAAGACT-TTATGGCATC
1 TAGCTGAAAGA-TGTTATGGCATC
19942738 TTTCGATAGT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
44 4 0.07
45 51 0.91
46 1 0.02
ACGTcount: A:0.39, C:0.15, G:0.21, T:0.25
Consensus pattern (45 bp):
TAGCTGAAAGATGTTATGGCATCATGACTAAAAAGACTAAGACCA
Found at i:19945111 original size:68 final size:67
Alignment explanation
Indices: 19944925--19945157 Score: 222
Period size: 68 Copynumber: 3.4 Consensus size: 67
19944915 AAAGAGGTTT
* * * ** *
19944925 AAGGTGTAAGATCATAGCTCGGCTATGACCACCAATAAAGTCTGCCAAAATGTTAAACATGGGTT
1 AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTGCCAGGACGTTAAACATGGGTT
19944990 AC
66 AC
* * *
19944992 AAGGTGTAAGACCATAGCTTGGATATGACAACCAATAGAGT-T-CAACTGGACGTTAAACATGAG
1 AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTGC--CAGGACGTTAAACATG-G
* *
19945055 TTTCC
63 GTTAC
* * *
19945060 AATGTGT-AGAACCATAGCTCAGCTATGACAACTAATAGAGTCTGCCAGGACGTTAAACATGGGT
1 AAGGTGTAAG-ACCATAGCTCGGCTATGACAACCAATAGAGTCTGCCAGGACGTTAAACATGGGT
19945124 T-C
65 TAC
* * **
19945126 ATACTGTGTAAGACCATAACTCAACTATGACA
1 A-A-GGTGTAAGACCATAGCTCGGCTATGACA
19945158 TTAGGTGAAG
Statistics
Matches: 137, Mismatches: 20, Indels: 17
0.79 0.11 0.10
Matches are distributed among these distances:
65 1 0.01
66 3 0.02
67 54 0.39
68 75 0.55
69 3 0.02
70 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (67 bp):
AAGGTGTAAGACCATAGCTCGGCTATGACAACCAATAGAGTCTGCCAGGACGTTAAACATGGGTT
AC
Found at i:19954147 original size:6 final size:6
Alignment explanation
Indices: 19954086--19954170 Score: 62
Period size: 6 Copynumber: 13.7 Consensus size: 6
19954076 AGAAAACAAA
* ** **
19954086 AAAATC AAAATC AAAATC AAAAATAA AAAATC AAAAAA AAGAAGA AAAATC
1 AAAATC AAAATC AAAATC -AAAAT-C AAAATC AAAATC AA-AATC AAAATC
** * *
19954137 AAAATC AAAATC AAGGTC AAAATG AAAATG AAAA
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAA
19954171 AAGAGAAGAA
Statistics
Matches: 64, Mismatches: 12, Indels: 6
0.78 0.15 0.07
Matches are distributed among these distances:
6 49 0.77
7 15 0.23
ACGTcount: A:0.71, C:0.09, G:0.07, T:0.13
Consensus pattern (6 bp):
AAAATC
Found at i:19954947 original size:8 final size:8
Alignment explanation
Indices: 19954930--19954969 Score: 73
Period size: 8 Copynumber: 5.1 Consensus size: 8
19954920 ATGAACTATG
19954930 AATG-AAA
1 AATGAAAA
19954937 AATGAAAA
1 AATGAAAA
19954945 AATGAAAA
1 AATGAAAA
19954953 AATGAAAA
1 AATGAAAA
19954961 AATGAAAA
1 AATGAAAA
19954969 A
1 A
19954970 GTAAAAATGG
Statistics
Matches: 32, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
7 4 0.12
8 28 0.88
ACGTcount: A:0.75, C:0.00, G:0.12, T:0.12
Consensus pattern (8 bp):
AATGAAAA
Found at i:19954952 original size:6 final size:7
Alignment explanation
Indices: 19954930--19954978 Score: 55
Period size: 8 Copynumber: 6.6 Consensus size: 7
19954920 ATGAACTATG
19954930 AATGAAA
1 AATGAAA
19954937 AATGAAAA
1 AATG-AAA
19954945 AATGAAAA
1 AATG-AAA
19954953 AATGAAAA
1 AATG-AAA
19954961 AATGAAA
1 AATGAAA
19954968 AA-GTAAA
1 AATG-AAA
19954975 AATG
1 AATG
19954979 GAGAGGCTAA
Statistics
Matches: 39, Mismatches: 0, Indels: 5
0.89 0.00 0.11
Matches are distributed among these distances:
6 1 0.03
7 14 0.36
8 24 0.62
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (7 bp):
AATGAAA
Found at i:19954976 original size:16 final size:15
Alignment explanation
Indices: 19954930--19954978 Score: 73
Period size: 16 Copynumber: 3.3 Consensus size: 15
19954920 ATGAACTATG
19954930 AATGAAAAATGAAAA
1 AATGAAAAATGAAAA
19954945 AATGAAAAAATGAAAA
1 AATG-AAAAATGAAAA
*
19954961 AATGAAAAA-GTAAA
1 AATGAAAAATGAAAA
19954975 AATG
1 AATG
19954979 GAGAGGCTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
14 8 0.25
15 9 0.28
16 15 0.47
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (15 bp):
AATGAAAAATGAAAA
Done.