Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 65 of 129
Found at i:9982177 original size:16 final size:17
Alignment explanation
Indices: 9982156--9982194 Score: 57
Period size: 16 Copynumber: 2.5 Consensus size: 17
9982146 AATTCAAAAT
9982156 ATAAAATAT-AAAATAA
1 ATAAAATATAAAAATAA
9982172 ATAAAA-ATAAAAATAA
1 ATAAAATATAAAAATAA
9982188 A-AAAATA
1 ATAAAATA
9982195 AAATGAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 6 0.29
16 15 0.71
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
ATAAAATATAAAAATAA
Found at i:9982182 original size:36 final size:35
Alignment explanation
Indices: 9982117--9982198 Score: 103
Period size: 36 Copynumber: 2.3 Consensus size: 35
9982107 GTCAATAAAC
* * * *
9982117 AAAAAATGAAA-ATAAAATAATAAATATAAAATTC
1 AAAAAATAAAATATAAAATAATAAAAATAAAAATA
*
9982151 AAAATATAAAATATAAAATAAATAAAAATAAAAATA
1 AAAAAATAAAATATAAAAT-AATAAAAATAAAAATA
9982187 AAAAAATAAAAT
1 AAAAAATAAAAT
9982199 GAAAATGAAA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
34 9 0.22
35 7 0.17
36 24 0.60
ACGTcount: A:0.76, C:0.01, G:0.01, T:0.22
Consensus pattern (35 bp):
AAAAAATAAAATATAAAATAATAAAAATAAAAATA
Found at i:9982197 original size:6 final size:6
Alignment explanation
Indices: 9982118--9982210 Score: 66
Period size: 7 Copynumber: 14.8 Consensus size: 6
9982108 TCAATAAACA
* *
9982118 AAAAAT GAAAAT -AAAAT AATAAAT ATAAAATT CAAAAT ATAAAAT ATAAAAT
1 AAAAAT AAAAAT AAAAAT AA-AAAT A-AAAA-T AAAAAT A-AAAAT A-AAAAT
* *
9982170 --AAAT AAAAAT AAAAAT AAAAAA ATAAAAT GAAAAT GAAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT A-AAAAT AAAAAT -AAAAA
9982211 AAGAAAAACT
Statistics
Matches: 71, Mismatches: 7, Indels: 17
0.75 0.07 0.18
Matches are distributed among these distances:
4 4 0.06
5 5 0.07
6 28 0.39
7 32 0.45
8 2 0.03
ACGTcount: A:0.75, C:0.01, G:0.03, T:0.20
Consensus pattern (6 bp):
AAAAAT
Found at i:9983017 original size:5 final size:5
Alignment explanation
Indices: 9982999--9983060 Score: 58
Period size: 5 Copynumber: 12.4 Consensus size: 5
9982989 AAATAAAATA
* *
9982999 ATAAT AATAA- ATAAT ATAAT AATAAT TTACT ATAAT GATAAT AT--T
1 ATAAT -ATAAT ATAAT ATAAT -ATAAT ATAAT ATAAT -ATAAT ATAAT
9983044 ATAAT ATAAT ATAAT AT
1 ATAAT ATAAT ATAAT AT
9983061 TATGTACTAT
Statistics
Matches: 47, Mismatches: 4, Indels: 11
0.76 0.06 0.18
Matches are distributed among these distances:
3 3 0.06
4 4 0.09
5 26 0.55
6 14 0.30
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.40
Consensus pattern (5 bp):
ATAAT
Found at i:9983032 original size:16 final size:16
Alignment explanation
Indices: 9982999--9983190 Score: 74
Period size: 16 Copynumber: 12.8 Consensus size: 16
9982989 AAATAAAATA
9982999 ATAATAATAA-ATAAT
1 ATAATAATAATATAAT
* *
9983014 ATAATAATAATTTACT
1 ATAATAATAATATAAT
*
9983030 ATAATGATAATAT--T
1 ATAATAATAATATAAT
9983044 ATAAT-ATAATATAAT
1 ATAATAATAATATAAT
* * * *
9983059 ATTAT-GTACTATACT
1 ATAATAATAATATAAT
*
9983074 ATACTAAT-ATACTACAT
1 ATAATAATAATA-TA-AT
* * *
9983091 -T-GTAATAACATACT
1 ATAATAATAATATAAT
*
9983105 ATACTAAT-A-ATAA-
1 ATAATAATAATATAAT
9983118 AT-ATAATAATATAAT
1 ATAATAATAATATAAT
* * *
9983133 AACAAT-ATACTATATT
1 -ATAATAATAATATAAT
* *
9983149 ATAGTAATAATAATAAC
1 ATAATAATAAT-ATAAT
*
9983166 A-AATAATAATACAA-
1 ATAATAATAATATAAT
9983180 A-AATAATAATA
1 ATAATAATAATA
9983191 GTAAGGAAAC
Statistics
Matches: 132, Mismatches: 29, Indels: 33
0.68 0.15 0.17
Matches are distributed among these distances:
12 4 0.03
13 10 0.08
14 25 0.19
15 41 0.31
16 45 0.34
17 7 0.05
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (16 bp):
ATAATAATAATATAAT
Found at i:9983059 original size:18 final size:19
Alignment explanation
Indices: 9982991--9983063 Score: 75
Period size: 18 Copynumber: 4.1 Consensus size: 19
9982981 AGAGGAAAAA
* *
9982991 ATAAAATAATAATAATA-A
1 ATAATATAATAATAATATT
9983009 ATAATATAATAAT-A-ATT
1 ATAATATAATAATAATATT
* *
9983026 -TACTATAATGATAATATT
1 ATAATATAATAATAATATT
9983044 ATAATATAAT-ATAATATT
1 ATAATATAATAATAATATT
9983062 AT
1 AT
9983064 GTACTATACT
Statistics
Matches: 46, Mismatches: 5, Indels: 8
0.78 0.08 0.14
Matches are distributed among these distances:
16 11 0.24
17 2 0.04
18 25 0.54
19 8 0.17
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.40
Consensus pattern (19 bp):
ATAATATAATAATAATATT
Found at i:9983172 original size:13 final size:13
Alignment explanation
Indices: 9983154--9983188 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
9983144 ATATTATAGT
9983154 AATAATAATAACA
1 AATAATAATAACA
9983167 AATAATAAT-ACA
1 AATAATAATAACA
9983179 AA-AATAATAA
1 AATAATAATAA
9983189 TAGTAAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 6 0.29
12 6 0.29
13 9 0.43
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (13 bp):
AATAATAATAACA
Found at i:9984439 original size:20 final size:20
Alignment explanation
Indices: 9984414--9984451 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
9984404 AAAATTTTTA
9984414 TTTTATTCCTAAATAAAAAG
1 TTTTATTCCTAAATAAAAAG
*
9984434 TTTTATTTCTAAATAAAA
1 TTTTATTCCTAAATAAAA
9984452 TGAATAAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.45, C:0.08, G:0.03, T:0.45
Consensus pattern (20 bp):
TTTTATTCCTAAATAAAAAG
Found at i:9990293 original size:2 final size:2
Alignment explanation
Indices: 9990286--9990315 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
9990276 AATAAATGCA
9990286 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
9990316 ATGGAAGAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9994941 original size:22 final size:22
Alignment explanation
Indices: 9994916--9994959 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
9994906 TTGTTTCATT
*
9994916 CTTAGATTCTTTTAATATATTA
1 CTTAGATTCTTTTAATAAATTA
9994938 CTTAGATTCTTTTAATAAATTA
1 CTTAGATTCTTTTAATAAATTA
9994960 GACCTAGATA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (22 bp):
CTTAGATTCTTTTAATAAATTA
Found at i:9995087 original size:1 final size:1
Alignment explanation
Indices: 9995083--9995138 Score: 67
Period size: 1 Copynumber: 56.0 Consensus size: 1
9995073 TTAGAAAATT
* ** * *
9995083 AAAAAAAAAAAAAAAAAAAAAAAACATGAAAAGAGAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
9995139 GCAATTCTTT
Statistics
Matches: 46, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.91, C:0.02, G:0.05, T:0.02
Consensus pattern (1 bp):
A
Found at i:9998117 original size:17 final size:18
Alignment explanation
Indices: 9998090--9998123 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
9998080 AACTTGTCTA
9998090 TTAATAATTTTTTTTCTC
1 TTAATAATTTTTTTTCTC
9998108 TTAA-AATTTTTTTTCT
1 TTAATAATTTTTTTTCT
9998124 GTAAGTCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 12 0.75
18 4 0.25
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.68
Consensus pattern (18 bp):
TTAATAATTTTTTTTCTC
Found at i:10003045 original size:18 final size:20
Alignment explanation
Indices: 10003000--10003050 Score: 56
Period size: 18 Copynumber: 2.8 Consensus size: 20
10002990 CTAATTATAT
10003000 TTTTAAAAATTATATCAATA
1 TTTTAAAAATTATATCAATA
*
10003020 ATTT--AAATTATAT-AA-A
1 TTTTAAAAATTATATCAATA
*
10003036 TTTTAAAAATAATAT
1 TTTTAAAAATTATAT
10003051 TTTTTATCAA
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
16 4 0.15
17 2 0.08
18 17 0.65
20 3 0.12
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.45
Consensus pattern (20 bp):
TTTTAAAAATTATATCAATA
Found at i:10003163 original size:27 final size:26
Alignment explanation
Indices: 10003111--10003173 Score: 74
Period size: 27 Copynumber: 2.4 Consensus size: 26
10003101 ATAAGATAAA
10003111 ATAATATTATTTAATCTAATTATATTT
1 ATAATATTATTTAATCTAATTATA-TT
* *
10003138 ATAATATTATTTTATCT-TTTATTATT
1 ATAATATTATTTAATCTAATTA-TATT
*
10003164 ATAATTTTAT
1 ATAATATTAT
10003174 GTATTAAATA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 14 0.44
27 18 0.56
ACGTcount: A:0.37, C:0.03, G:0.00, T:0.60
Consensus pattern (26 bp):
ATAATATTATTTAATCTAATTATATT
Found at i:10003512 original size:17 final size:18
Alignment explanation
Indices: 10003487--10003526 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
10003477 GAGATTTTTT
*
10003487 AAAAA-ATTATT-TATTA
1 AAAAATATTATTAAATTA
10003503 AAAAATATTATTAAATTA
1 AAAAATATTATTAAATTA
10003521 AAAAAT
1 AAAAAT
10003527 TATAAATACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 5 0.24
17 6 0.29
18 10 0.48
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (18 bp):
AAAAATATTATTAAATTA
Found at i:10003513 original size:13 final size:15
Alignment explanation
Indices: 10003480--10003529 Score: 55
Period size: 17 Copynumber: 3.1 Consensus size: 15
10003470 CATGGTTGAG
*
10003480 ATTTTTTAAAAAATT
1 ATTTATTAAAAAATT
10003495 ATTTATTAAAAAATATT
1 ATTTATT-AAAAA-ATT
*
10003512 ATTAAATTAAAAAATT
1 ATT-TATTAAAAAATT
10003528 AT
1 AT
10003530 AAATACGGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
15 6 0.20
16 10 0.33
17 11 0.37
18 3 0.10
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
ATTTATTAAAAAATT
Found at i:10003523 original size:16 final size:15
Alignment explanation
Indices: 10003485--10003533 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
10003475 TTGAGATTTT
**
10003485 TTAAAAAATTATTTA
1 TTAAAAAATTATAAA
10003500 TTAAAAAATATTATTAAA
1 TT-AAAAA-ATTA-TAAA
10003518 TTAAAAAATTATAAA
1 TTAAAAAATTATAAA
10003533 T
1 T
10003534 ACGGACAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
15 7 0.24
16 9 0.31
17 9 0.31
18 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTAAAAAATTATAAA
Found at i:10003615 original size:22 final size:22
Alignment explanation
Indices: 10003590--10003631 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
10003580 AGATAATTAT
* *
10003590 TTTAAAATATTAATTTTTAAAA
1 TTTAAAATAATAATATTTAAAA
10003612 TTTAAAATAATAATATTTAA
1 TTTAAAATAATAATATTTAA
10003632 TTTATTGAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTTAAAATAATAATATTTAAAA
Found at i:10015717 original size:56 final size:55
Alignment explanation
Indices: 10015600--10015706 Score: 151
Period size: 56 Copynumber: 1.9 Consensus size: 55
10015590 TGTTTATAAC
10015600 TTTATAAAAAAATCAATTAAGACATTTGTGTAACCAAATACCTTAATTGATCATA
1 TTTATAAAAAAATCAATTAAGACATTTGTGTAACCAAATACCTTAATTGATCATA
* ** * * *
10015655 TTTATAAAAAGGATCAATTAAGGTATTTTTGTAACTAAATGCCTTAATTGAT
1 TTTATAAAAA-AATCAATTAAGACATTTGTGTAACCAAATACCTTAATTGAT
10015707 TTTTTTTATA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
55 10 0.22
56 35 0.78
ACGTcount: A:0.42, C:0.10, G:0.10, T:0.37
Consensus pattern (55 bp):
TTTATAAAAAAATCAATTAAGACATTTGTGTAACCAAATACCTTAATTGATCATA
Found at i:10015736 original size:62 final size:63
Alignment explanation
Indices: 10015654--10015846 Score: 193
Period size: 62 Copynumber: 3.1 Consensus size: 63
10015644 AATTGATCAT
* *
10015654 ATTTATAAAAAGGATCAATTAAGGTATTT-TTGTAACTAAATGCCTTAATTGATTTTTTTTAT-A
1 ATTTATAAATA-GATCAATTAAGGTATTTATT-TAACTAAATGTCTTAATTGATTTTTTTTATAA
* * * * **
10015717 A-TTATAATATAGATCAATTAAGGTGTTTGTTTAA-TAAAACGTCTTAATTGATCTTCGTTATAA
1 ATTTATAA-ATAGATCAATTAAGGTATTTATTTAACT-AAATGTCTTAATTGATTTTTTTTATAA
** *
10015780 ATTTATAAATAGATCAATTAAGACATTTATTTATAC-AAATGTTTTAATTGA-TTTTTTTA-AA
1 ATTTATAAATAGATCAATTAAGGTATTTATTTA-ACTAAATGTCTTAATTGATTTTTTTTATAA
10015841 ATTTAT
1 ATTTAT
10015847 TAATTAAGGT
Statistics
Matches: 107, Mismatches: 16, Indels: 16
0.77 0.12 0.12
Matches are distributed among these distances:
61 9 0.08
62 50 0.47
63 41 0.38
64 7 0.07
ACGTcount: A:0.38, C:0.06, G:0.10, T:0.46
Consensus pattern (63 bp):
ATTTATAAATAGATCAATTAAGGTATTTATTTAACTAAATGTCTTAATTGATTTTTTTTATAA
Found at i:10018708 original size:20 final size:20
Alignment explanation
Indices: 10018683--10018721 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
10018673 ATGACATCTA
*
10018683 ATATCATATCTATTATTTTT
1 ATATCATACCTATTATTTTT
*
10018703 ATATCATGCCTATTATTTT
1 ATATCATACCTATTATTTT
10018722 GTAGGCGTCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.28, C:0.13, G:0.03, T:0.56
Consensus pattern (20 bp):
ATATCATACCTATTATTTTT
Found at i:10018914 original size:17 final size:18
Alignment explanation
Indices: 10018880--10018921 Score: 50
Period size: 17 Copynumber: 2.3 Consensus size: 18
10018870 TAAATTATGT
10018880 TTTTTTGTAATTACTATTA
1 TTTTTTGT-ATTACTATTA
* *
10018899 TTTTTTGT-TTATTATTG
1 TTTTTTGTATTACTATTA
10018916 TTTTTT
1 TTTTTT
10018922 CTGTTTAATT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 13 0.62
19 8 0.38
ACGTcount: A:0.17, C:0.02, G:0.07, T:0.74
Consensus pattern (18 bp):
TTTTTTGTATTACTATTA
Found at i:10020200 original size:15 final size:15
Alignment explanation
Indices: 10020176--10020213 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
10020166 AGCTGAACCA
10020176 ATTT-CTTTTTCT-T
1 ATTTCCTTTTTCTAT
10020189 CATTTCCTTTTTCTAT
1 -ATTTCCTTTTTCTAT
10020205 ATTTCCTTT
1 ATTTCCTTT
10020214 GGTATAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 4 0.18
15 17 0.77
16 1 0.05
ACGTcount: A:0.11, C:0.21, G:0.00, T:0.68
Consensus pattern (15 bp):
ATTTCCTTTTTCTAT
Found at i:10021436 original size:26 final size:29
Alignment explanation
Indices: 10021406--10021458 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
10021396 GATTTGAAAT
*
10021406 AAAAAA-T-TCAA-GGCTTAATTAATTGC
1 AAAAAATTGTCAATGGCTTAAATAATTGC
10021432 AAAAAATTGTCAATGGCTTAAATAATT
1 AAAAAATTGTCAATGGCTTAAATAATT
10021459 ATTGAACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
27 1 0.04
28 4 0.17
29 12 0.52
ACGTcount: A:0.47, C:0.09, G:0.11, T:0.32
Consensus pattern (29 bp):
AAAAAATTGTCAATGGCTTAAATAATTGC
Found at i:10023915 original size:16 final size:15
Alignment explanation
Indices: 10023894--10023932 Score: 55
Period size: 16 Copynumber: 2.7 Consensus size: 15
10023884 TAGATATCAT
10023894 TAAAGATAAAAAGTAA
1 TAAAGATAAAAA-TAA
10023910 TAAAGATAAAAATAA
1 TAAAGATAAAAATAA
10023925 -AAA-ATAAA
1 TAAAGATAAA
10023933 TAAAGAGGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.22
14 3 0.13
15 3 0.13
16 12 0.52
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (15 bp):
TAAAGATAAAAATAA
Found at i:10023919 original size:22 final size:23
Alignment explanation
Indices: 10023894--10023981 Score: 74
Period size: 24 Copynumber: 3.7 Consensus size: 23
10023884 TAGATATCAT
* *
10023894 TAAAGATAAAAAGT-AATAAAGA
1 TAAAAATAAAAAATAAATAAAGA
10023916 TAAAAATAAAAAATAAATAAAGA
1 TAAAAATAAAAAATAAATAAAGA
* *
10023939 GGATAAATAAAATAAT-AATAATA-A
1 -TAAAAATAAAA-AATAAATAA-AGA
10023963 TAAAAAATAAATAAATAAA
1 T-AAAAATAAA-AAATAAA
10023982 AGAAAATAAA
Statistics
Matches: 53, Mismatches: 6, Indels: 11
0.76 0.09 0.16
Matches are distributed among these distances:
22 12 0.23
23 8 0.15
24 26 0.49
25 7 0.13
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (23 bp):
TAAAAATAAAAAATAAATAAAGA
Found at i:10024224 original size:25 final size:24
Alignment explanation
Indices: 10024196--10024242 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
10024186 TACTACCAAT
*
10024196 ATTACTATTATTTTTTGTTATTAGC
1 ATTACTATTATTTGTTG-TATTAGC
* *
10024221 ATTATTTTTATTTGTTGTATTA
1 ATTACTATTATTTGTTGTATTA
10024243 TTATATTATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 5 0.26
25 14 0.74
ACGTcount: A:0.23, C:0.04, G:0.09, T:0.64
Consensus pattern (24 bp):
ATTACTATTATTTGTTGTATTAGC
Found at i:10024256 original size:21 final size:19
Alignment explanation
Indices: 10024201--10024262 Score: 56
Period size: 19 Copynumber: 3.2 Consensus size: 19
10024191 CCAATATTAC
*
10024201 TATTATTTTT-TGTTATTAG
1 TATTATTTTTAT-TTGTTAG
*
10024220 CATTATTTTTATTTGTT-G
1 TATTATTTTTATTTGTTAG
10024238 TATTATTATATTATATTGTTAG
1 TATTATT-T-TTAT-TTGTTAG
10024260 TAT
1 TAT
10024263 ATCATAATAT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
18 7 0.20
19 14 0.40
20 5 0.14
21 5 0.14
22 4 0.11
ACGTcount: A:0.24, C:0.02, G:0.10, T:0.65
Consensus pattern (19 bp):
TATTATTTTTATTTGTTAG
Found at i:10024273 original size:21 final size:21
Alignment explanation
Indices: 10024232--10024274 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
10024222 TTATTTTTAT
* *
10024232 TTGTTGTATTATTATATTATA
1 TTGTTGTATTATCATAATATA
10024253 TTGTTAGTA-TATCATAATATA
1 TTGTT-GTATTATCATAATATA
10024274 T
1 T
10024275 CAGTATAGTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.33, C:0.02, G:0.09, T:0.56
Consensus pattern (21 bp):
TTGTTGTATTATCATAATATA
Found at i:10024398 original size:9 final size:9
Alignment explanation
Indices: 10024381--10024430 Score: 55
Period size: 9 Copynumber: 5.6 Consensus size: 9
10024371 TAGTATCTCA
*
10024381 TATTATTAC
1 TATTACTAC
* *
10024390 TACTATTAC
1 TATTACTAC
10024399 TATTACTAC
1 TATTACTAC
*
10024408 TACTACTAC
1 TATTACTAC
*
10024417 TATTACTAT
1 TATTACTAC
10024426 TATTA
1 TATTA
10024431 TTATTATTAT
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
9 35 1.00
ACGTcount: A:0.34, C:0.18, G:0.00, T:0.48
Consensus pattern (9 bp):
TATTACTAC
Found at i:10024401 original size:6 final size:6
Alignment explanation
Indices: 10024390--10024456 Score: 71
Period size: 6 Copynumber: 11.2 Consensus size: 6
10024380 ATATTATTAC
* * * *
10024390 TACTAT TACTAT TACTAC TACTAC TACTAT TACTAT TATTAT TATTAT
1 TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT TACTAT
* * *
10024438 TATTAT TATTAT TATTAT T
1 TACTAT TACTAT TACTAT T
10024457 TTCATTTAAT
Statistics
Matches: 58, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 58 1.00
ACGTcount: A:0.33, C:0.12, G:0.00, T:0.55
Consensus pattern (6 bp):
TACTAT
Found at i:10024429 original size:3 final size:3
Alignment explanation
Indices: 10024417--10024456 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
10024407 CTACTACTAC
*
10024417 TAT TAC TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
10024457 TTCATTTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:10024484 original size:16 final size:16
Alignment explanation
Indices: 10024446--10024498 Score: 54
Period size: 16 Copynumber: 3.2 Consensus size: 16
10024436 ATTATTATTA
*
10024446 TTATTATTATTTTCATT
1 TTATT-TTATTTTCTTT
* *
10024463 TAATTTTATTTTGTTT
1 TTATTTTATTTTCTTT
10024479 TTATTTT-TCTTTCTTT
1 TTATTTTAT-TTTCTTT
10024495 TTAT
1 TTAT
10024499 ATTCAATCTG
Statistics
Matches: 30, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
15 1 0.03
16 25 0.83
17 4 0.13
ACGTcount: A:0.17, C:0.06, G:0.02, T:0.75
Consensus pattern (16 bp):
TTATTTTATTTTCTTT
Found at i:10029400 original size:10 final size:10
Alignment explanation
Indices: 10029373--10029402 Score: 51
Period size: 10 Copynumber: 3.0 Consensus size: 10
10029363 ACTCATTCTT
*
10029373 TATATATATA
1 TATATATTTA
10029383 TATATATTTA
1 TATATATTTA
10029393 TATATATTTA
1 TATATATTTA
10029403 GTAAATATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (10 bp):
TATATATTTA
Found at i:10037831 original size:13 final size:12
Alignment explanation
Indices: 10037795--10037835 Score: 50
Period size: 11 Copynumber: 3.4 Consensus size: 12
10037785 TTAAAAATCA
10037795 CATATCTTTTTAT
1 CATAT-TTTTTAT
10037808 CAT-TTTTTTAT
1 CATATTTTTTAT
10037819 CATATTTTATTAT
1 CATATTTT-TTAT
10037832 -ATAT
1 CATAT
10037836 GAAAACTAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 10 0.38
12 9 0.35
13 7 0.27
ACGTcount: A:0.27, C:0.10, G:0.00, T:0.63
Consensus pattern (12 bp):
CATATTTTTTAT
Found at i:10041883 original size:494 final size:494
Alignment explanation
Indices: 10040085--10042897 Score: 5132
Period size: 494 Copynumber: 5.7 Consensus size: 494
10040075 CAAACTATAG
*
10040085 CACTTCAAATTTACTTTGGTTTTGATGTTTAATAAAAAATATGGGCATAGCACCATCCTCCACCA
1 CACTTCAAATTTACTTTGGTTTTGATGTTTAATAAAAAATATGAGCATAGCACCATCCTCCACCA
10040150 TCAAACTTTACTATGATAATCGTAGTACCATTTAGATTGCTCATGATGATTTCTTTCATGAGTGC
66 TCAAACTTTACTATGATAATCGTAGTACCATTTAGATTGCTCATGATGATTTCTTTCATGAGTGC
* *
10040215 ACCAAGTATATTAAGATTTATTATCATTTTTGTACACCATCATCTAGCACGATAGACTATTCTTT
131 ACCAAGTATATTAAGATTGATTATCATTTTTGTACACCATCATCTAGCACGATGGACTATTCTTT
*
10040280 TGACTTTTGTGTTTTTTACAAATCAAACTACTAATTATTAAGATAATTTTTTGCTTATTATCAAT
196 TGACTTTTGTGTCTTTTACAAATCAAACTACTAATTATTAAGATAATTTTTTGCTTATTATCAAT
* * *
10040345 ATATAGTTAACAAACTCAAGCTAACATCTTCACTGCCACTTTGAGTATGATGAAGGTGTTTATGT
261 ACATAGTTAACAAACTCAAGCTAACATCTTCAATGCCACTTTGAGTATGATGGAGGTGTTTATGT
* *
10040410 AAATTAATATAATTATTAATACTGACTAGGCAATAGATCCTATAGATCATTCTTCCACCATTGGT
326 AAATTAATATAATTATTAATACTGACTAGGCAAGAGATCCTATAGATCATTATTCCACCATTGGT
*
10040475 TATTTTTTCTTTTTAGGAGATTCTCTCTTTTTTAGGTGAAGTAAGAAACAAACTATAGTTGATCA
391 TATTCTTTCTTTTTAGGAGATTCTCTCTTTTTTAGGTGAAGTAAGAAACAAACTATAGTTGATCA
*
10040540 ATTTAACACTGAATCAAAATATTGTGTTTTTGCTAATAT
456 ATCTAACACTGAATCAAAATATTGTGTTTTTGCTAATAT
*
10040579 CACTTCAAATTTACTTTGGTTTTGATGTTTAATAAAAAATATGGGCATAGCACCATCCTCCACCA
1 CACTTCAAATTTACTTTGGTTTTGATGTTTAATAAAAAATATGAGCATAGCACCATCCTCCACCA
10040644 TCAAACTTTACTATGATAATCGTAGTACCATTTAGA----TCATGATGATTTCTTTCATGAGTGC
66 TCAAACTTTACTATGATAATCGTAGTACCATTTAGATTGCTCATGATGATTTCTTTCATGAGTGC
*
10040705 ACCAAGTATATTAAGATTGATTATCATTTTTGTACACCATCATCTAGCACAATGGACTATTCTTT
131 ACCAAGTATATTAAGATTGATTATCATTTTTGTACACCATCATCTAGCACGATGGACTATTCTTT
* *
10040770 TGACTTTTGTGTCTTTTACAAATCAAACTATTAGTTATTAAGA-AATTTTTTTGCTTATTATCAA
196 TGACTTTTGTGTCTTTTACAAATCAAACTACTAATTATTAAGATAA-TTTTTTGCTTATTATCAA
10040834 TACATAGTTAACAAACTCAAGCTAACATCTTCAATGCCACTTTGAGTATGATGGAGGTGTTTATG
260 TACATAGTTAACAAACTCAAGCTAACATCTTCAATGCCACTTTGAGTATGATGGAGGTGTTTATG
*
10040899 TAAATTAATATAATTATTAATACTGACTAGGCAAAAGATCCTATAGATCATTATTCCACCATTGG
325 TAAATTAATATAATTATTAATACTGACTAGGCAAGAGATCCTATAGATCATTATTCCACCATTGG
*
10040964 TTATTCTTTCTTTTTAGGAGATTCTCTTTTTTTTAGGTGAAGTAAGAAACAAACTATAGTTGATC
390 TTATTCTTTCTTTTTAGGAGATTCTCTCTTTTTTAGGTGAAGTAAGAAACAAACTATAGTTGATC
10041029 AATCTAACACTGAATCAAAATATTGTGTTTTTGCTAATAT
455 AATCTAACACTGAATCAAAATATTGTGTTTTTGCTAATAT
*
10041069 TACTTCAAATTTACTTTGGTTTTGATGTTTAATAAAAAAATATGAGCATAGCACCATCCTCCACC
1 CACTTCAAATTTACTTTGGTTTTGATGTTTAAT-AAAAAATATGAGCATAGCACCATCCTCCACC
*
10041134 ATCAAACTTTACTATGATAATCGTAATACCATTTAGATTGCTCATGATGATTTCTTTCATGAGTG
65 ATCAAACTTTACTATGATAATCGTAGTACCATTTAGATTGCTCATGATGATTTCTTTCATGAGTG
*
10041199 CACCAAGTATATTAAAATTGATTATCATTTTTGTACACCATCATCTAGCACGATGGACTATTCTT
130 CACCAAGTATATTAAGATTGATTATCATTTTTGTACACCATCATCTAGCACGATGGACTATTCTT
10041264 TTGACTTTTGTGTCTTTTACAAATCAAACTACTAATTATTAAGATAATTTTTTGCTTATTATCAA
195 TTGACTTTTGTGTCTTTTACAAATCAAACTACTAATTATTAAGATAATTTTTTGCTTATTATCAA
*
10041329 TACATAGTTAACAAACTCAAGCTAACATCTTCAATGCCACTTTGAGTATGATGAAGGTGTTTATG
260 TACATAGTTAACAAACTCAAGCTAACATCTTCAATGCCACTTTGAGTATGATGGAGGTGTTTATG
* *
10041394 TAAATTAATATAATTATTAATACTGACTAGGCAATAGATCCTATAGATCACTATTCCACCATTGG
325 TAAATTAATATAATTATTAATACTGACTAGGCAAGAGATCCTATAGATCATTATTCCACCATTGG
* * *
10041459 TTATTCTTTCTTTTTAGAAAATTCTCTCTTTTTTAGGTGAAGTAAGAAACAAACTATTGTTGATC
390 TTATTCTTTCTTTTTAGGAGATTCTCTCTTTTTTAGGTGAAGTAAGAAACAAACTATAGTTGATC
10041524 AATCTAACACTGAATCAAAATATTGTGTTTTTGCTAATAT
455 AATCTAACACTGAATCAAAATATTGTGTTTTTGCTAATAT
* *
10041564 CACTTCAATTTTACTTTGGTTTTGATGTTTAATAAAAAATATGAGCATAGCACCATCATCCACCA
1 CACTTCAAATTTACTTTGGTTTTGATGTTTAATAAAAAATATGAGCATAGCACCATCCTCCACCA
*
10041629 TCAAACCTTACTATGATAATCGTAGTACCATTTAGATTGCTCATGATGATTTCTTTCATGAGTGC
66 TCAAACTTTACTATGATAATCGTAGTACCATTTAGATTGCTCATGATGATTTCTTTCATGAGTGC
10041694 ACCAAGTATATTAAGATTGATTATCATTTTTGTACACCATCATCTAGCACGATGGACTATTCTTT
131 ACCAAGTATATTAAGATTGATTATCATTTTTGTACACCATCATCTAGCACGATGGACTATTCTTT
10041759 TGACTTTTGTGTCTTTTACAAATCAAACTACTAATTATTAAGATAATTTTTTGCTTATTATCAAT
196 TGACTTTTGTGTCTTTTACAAATCAAACTACTAATTATTAAGATAATTTTTTGCTTATTATCAAT
* * *
10041824 ACATAGTTAACAAACTCAAGCTAACATCTTCAACGTCACTTTGAGTATGACGGAGGTGTTTATGT
261 ACATAGTTAACAAACTCAAGCTAACATCTTCAATGCCACTTTGAGTATGATGGAGGTGTTTATGT
*
10041889 AAATTAATATAATTATTAATGCTGACTAGGCAAGAGATCCTATAGATCATTATTCCACCATTGGT
326 AAATTAATATAATTATTAATACTGACTAGGCAAGAGATCCTATAGATCATTATTCCACCATTGGT
10041954 TATTCTTTCTTTTTAGGAGATTCTCTCTTTTTTAGGTGAAGTAAGAAACAAACTATAGTTGATCA
391 TATTCTTTCTTTTTAGGAGATTCTCTCTTTTTTAGGTGAAGTAAGAAACAAACTATAGTTGATCA
10042019 ATCTAACACTGAATCAAAATATTGTGTTTTTGCTAATAT
456 ATCTAACACTGAATCAAAATATTGTGTTTTTGCTAATAT
10042058 CACTTCAAATTTACTTTGGTTTTGATGTTTAATAAAAAATATGAGCATAGCACCATCCTCCACCA
1 CACTTCAAATTTACTTTGGTTTTGATGTTTAATAAAAAATATGAGCATAGCACCATCCTCCACCA
*
10042123 TCAAACTTTATTATGATAATCGTAGTACCATTTAGATTGCTCATGATGATTTCTTTCATGAGTGC
66 TCAAACTTTACTATGATAATCGTAGTACCATTTAGATTGCTCATGATGATTTCTTTCATGAGTGC
10042188 ACCAAGTATATTAAGATTGATTATCATTTTTGTACACCATCATCTAGCACGATGGACTATTCTTT
131 ACCAAGTATATTAAGATTGATTATCATTTTTGTACACCATCATCTAGCACGATGGACTATTCTTT
10042253 TGACTTTTGTGTCTTTTACAAATCAAACTACTAATTATTAAGATAATTTTTTGCTTATTATCAAT
196 TGACTTTTGTGTCTTTTACAAATCAAACTACTAATTATTAAGATAATTTTTTGCTTATTATCAAT
* * *
10042318 ACATAGTTAACAAACTCAAGCTAACATCTTCAATTCCACTTTGAGTATGATAGAGGTGTTTATAT
261 ACATAGTTAACAAACTCAAGCTAACATCTTCAATGCCACTTTGAGTATGATGGAGGTGTTTATGT
*
10042383 AAATTAATATAATTTTTAATACTGACTAGGCAAGAGATCCTATAGATCATTATTCCACCATTGGT
326 AAATTAATATAATTATTAATACTGACTAGGCAAGAGATCCTATAGATCATTATTCCACCATTGGT
10042448 TATTCTTTCTTTTTAGGAGATTCTCTCTTTTTTAGGTGAAGTAAGAAACAAACTATAGTTGATCA
391 TATTCTTTCTTTTTAGGAGATTCTCTCTTTTTTAGGTGAAGTAAGAAACAAACTATAGTTGATCA
* *
10042513 ATCTAATACCGAATCAAAATATTGTGTTTTTGCTAATAT
456 ATCTAACACTGAATCAAAATATTGTGTTTTTGCTAATAT
* *
10042552 CACTTCAAATTTACTTTGGTTTTAATGTTTAATAAAAAATATGGGCATAGCACCATCCTCCACCA
1 CACTTCAAATTTACTTTGGTTTTGATGTTTAATAAAAAATATGAGCATAGCACCATCCTCCACCA
10042617 TCAAACTTTACTATGATAATCGTAGTACCATTTAGATTGCTCATGATGATTTCTTTCATGAGTGC
66 TCAAACTTTACTATGATAATCGTAGTACCATTTAGATTGCTCATGATGATTTCTTTCATGAGTGC
* * *
10042682 ACCAAGTATATTAAGATTGATCATCATTTTTGTACACCATCATCTACCACGAGGGACTATTCTTT
131 ACCAAGTATATTAAGATTGATTATCATTTTTGTACACCATCATCTAGCACGATGGACTATTCTTT
10042747 TGACTTTTGTGTCTTTTACAAATCAAACTACTAATTATTAAGATAATTTTTTGCTTATTATCAAT
196 TGACTTTTGTGTCTTTTACAAATCAAACTACTAATTATTAAGATAATTTTTTGCTTATTATCAAT
* * *
10042812 ATATAGTTAATAAACTCAAGCTAACATCTTCAATGCCACTTTAAGTATGATGGAGGTGTTTATGT
261 ACATAGTTAACAAACTCAAGCTAACATCTTCAATGCCACTTTGAGTATGATGGAGGTGTTTATGT
10042877 AAATTAATATAATTATGTAAT
326 AAATTAATATAATTAT-TAAT
10042898 CAAATGTAAT
Statistics
Matches: 2240, Mismatches: 71, Indels: 15
0.96 0.03 0.01
Matches are distributed among these distances:
489 2 0.00
490 404 0.18
491 66 0.03
494 1356 0.61
495 410 0.18
496 2 0.00
ACGTcount: A:0.33, C:0.16, G:0.12, T:0.39
Consensus pattern (494 bp):
CACTTCAAATTTACTTTGGTTTTGATGTTTAATAAAAAATATGAGCATAGCACCATCCTCCACCA
TCAAACTTTACTATGATAATCGTAGTACCATTTAGATTGCTCATGATGATTTCTTTCATGAGTGC
ACCAAGTATATTAAGATTGATTATCATTTTTGTACACCATCATCTAGCACGATGGACTATTCTTT
TGACTTTTGTGTCTTTTACAAATCAAACTACTAATTATTAAGATAATTTTTTGCTTATTATCAAT
ACATAGTTAACAAACTCAAGCTAACATCTTCAATGCCACTTTGAGTATGATGGAGGTGTTTATGT
AAATTAATATAATTATTAATACTGACTAGGCAAGAGATCCTATAGATCATTATTCCACCATTGGT
TATTCTTTCTTTTTAGGAGATTCTCTCTTTTTTAGGTGAAGTAAGAAACAAACTATAGTTGATCA
ATCTAACACTGAATCAAAATATTGTGTTTTTGCTAATAT
Found at i:10047116 original size:11 final size:11
Alignment explanation
Indices: 10047100--10047129 Score: 51
Period size: 11 Copynumber: 2.6 Consensus size: 11
10047090 AGAGAGAGAA
10047100 AAAAAAAGAGG
1 AAAAAAAGAGG
10047111 AAAAAAAGAGG
1 AAAAAAAGAGG
10047122 AAAGAAAA
1 AAA-AAAA
10047130 ATCTGAAGGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.78
12 4 0.22
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAGG
Found at i:10051944 original size:16 final size:16
Alignment explanation
Indices: 10051923--10051973 Score: 59
Period size: 16 Copynumber: 3.1 Consensus size: 16
10051913 AGATATTAAT
*
10051923 AATAAAAAAAATAAAA
1 AATAAAAAAAAGAAAA
10051939 AATAAAAATGAAAGAAAA
1 AATAAAAA--AAAGAAAA
10051957 AA-AGAAAAAAAGAAAA
1 AATA-AAAAAAAGAAAA
10051973 A
1 A
10051974 TTTAAAAAAT
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
16 17 0.55
17 1 0.03
18 13 0.42
ACGTcount: A:0.84, C:0.00, G:0.08, T:0.08
Consensus pattern (16 bp):
AATAAAAAAAAGAAAA
Found at i:10051960 original size:8 final size:8
Alignment explanation
Indices: 10051927--10051973 Score: 51
Period size: 8 Copynumber: 5.6 Consensus size: 8
10051917 ATTAATAATA
*
10051927 AAAAAAAT
1 AAAAAAAG
10051935 AAAAAATA-
1 AAAAAA-AG
10051943 AAAATGAAAG
1 AAAA--AAAG
10051953 AAAAAAAG
1 AAAAAAAG
10051961 AAAAAAAG
1 AAAAAAAG
10051969 AAAAA
1 AAAAA
10051974 TTTAAAAAAT
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 27 0.77
9 2 0.06
10 6 0.17
ACGTcount: A:0.85, C:0.00, G:0.09, T:0.06
Consensus pattern (8 bp):
AAAAAAAG
Found at i:10053117 original size:21 final size:21
Alignment explanation
Indices: 10053093--10053148 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
10053083 ATGGATCCTT
* *
10053093 AAATAAGAATTTTTTAGTTTC
1 AAATGAGAATTTTTGAGTTTC
*
10053114 AAATGAG-ATTCTTTGAGTTTT
1 AAATGAGAATT-TTTGAGTTTC
*
10053135 AAATGATAATTTTT
1 AAATGAGAATTTTT
10053149 AAGAAGAACT
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
20 3 0.10
21 23 0.79
22 3 0.10
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.48
Consensus pattern (21 bp):
AAATGAGAATTTTTGAGTTTC
Found at i:10053534 original size:31 final size:31
Alignment explanation
Indices: 10053474--10053534 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
10053464 TCTTGAATAT
* *
10053474 CTGAAATTTTGCAAATCAAGTTATTGTGAAA
1 CTGAAATTTTGAAAATCAAATTATTGTGAAA
10053505 CTGAAATTTTGAAAATCAAATT-TTGGTGAA
1 CTGAAATTTTGAAAATCAAATTATT-GTGAA
10053535 TTCTTGCAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 2 0.07
31 25 0.93
ACGTcount: A:0.39, C:0.08, G:0.16, T:0.36
Consensus pattern (31 bp):
CTGAAATTTTGAAAATCAAATTATTGTGAAA
Found at i:10053741 original size:43 final size:43
Alignment explanation
Indices: 10053664--10053994 Score: 317
Period size: 43 Copynumber: 7.6 Consensus size: 43
10053654 TGCCAAAGAG
* *
10053664 ATTTATTTTTCAAAAGTTGTTGAACCTCTGATTAGAGGAGCTTT
1 ATTTATTTTTC-AAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * *
10053708 GTTTATTTTTCAAAGTCATTGAGCCTCTAATTAGAGGAGCTTT
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* ** * * * * *
10053751 ATTTGTTTCCCAAAGTTGTTGAGCCTTTGATTAAATGAGCATT
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * *
10053794 ATTTATTTTTTCAAAGTCGTTGAGCCTCTAATTAG-GCAAGTTTT
1 ATTTA-TTTTTCAAAGTCGTTGAGCCTCTGATTAGAG-GAGCTTT
** *
10053838 ATTTATTTCCCAAAGTCGTTGAGCCTCTGATTCGAGGAGCTTT
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * * *
10053881 ATCTATTTTTCAAAGTCGTTAAGCCTTTGATTATAGGAGCTTT
1 ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* * * **
10053924 ATTTATTTTCTCAAAGTTGTTGAG-ATCTGATTAGAAGAGCCGT
1 ATTTATTTT-TCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
* *
10053967 ATTTAATTTTTTAAAAGTTG-TGAGCCTC
1 ATTT-A-TTTTTCAAAGTCGTTGAGCCTC
10053995 AACATAGGAG
Statistics
Matches: 229, Mismatches: 51, Indels: 14
0.78 0.17 0.05
Matches are distributed among these distances:
43 159 0.69
44 66 0.29
45 4 0.02
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (43 bp):
ATTTATTTTTCAAAGTCGTTGAGCCTCTGATTAGAGGAGCTTT
Found at i:10053826 original size:87 final size:86
Alignment explanation
Indices: 10053676--10053956 Score: 341
Period size: 87 Copynumber: 3.3 Consensus size: 86
10053666 TTATTTTTCA
* * * *
10053676 AAAGTTGTTGAACCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCATTGAGCCTCTAATTA
1 AAAGTTGTTGAGCCTCTGATTAAAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTAATTA
*
10053741 GAGGAGCTTTATTTGTTTCCC
66 GAGGAGCTTTATTTATTTCCC
* * *
10053762 AAAGTTGTTGAGCCTTTGATTAAATGAGCATTATTTATTTTTTCAAAGTCGTTGAGCCTCTAATT
1 AAAGTTGTTGAGCCTCTGATTAAAGGAGCTTTATTTA-TTTTTCAAAGTCGTTGAGCCTCTAATT
* *
10053827 AG-GCAAGTTTTATTTATTTCCC
65 AGAG-GAGCTTTATTTATTTCCC
* ** * * * *
10053849 AAAGTCGTTGAGCCTCTGATTCGAGGAGCTTTATCTATTTTTCAAAGTCGTTAAGCCTTTGATTA
1 AAAGTTGTTGAGCCTCTGATTAAAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTAATTA
* *
10053914 TAGGAGCTTTATTTATTTTCTC
66 GAGGAGCTTTATTTA-TTTCCC
*
10053936 AAAGTTGTTGAG-ATCTGATTA
1 AAAGTTGTTGAGCCTCTGATTA
10053957 GAAGAGCCGT
Statistics
Matches: 164, Mismatches: 27, Indels: 8
0.82 0.14 0.04
Matches are distributed among these distances:
86 74 0.45
87 90 0.55
ACGTcount: A:0.25, C:0.14, G:0.19, T:0.42
Consensus pattern (86 bp):
AAAGTTGTTGAGCCTCTGATTAAAGGAGCTTTATTTATTTTTCAAAGTCGTTGAGCCTCTAATTA
GAGGAGCTTTATTTATTTCCC
Found at i:10053828 original size:130 final size:130
Alignment explanation
Indices: 10053664--10053947 Score: 347
Period size: 130 Copynumber: 2.2 Consensus size: 130
10053654 TGCCAAAGAG
* * * * **
10053664 ATTTA-TTTTTCAAAAGTTGTTGAACCTCTGATTAGAG-GAGCTTTGTTTATTTTTCAAAGTCAT
1 ATTTATTTTTTC-AAAGTTGTTGAGCCTCTAATTAG-GCAAGCTTTATTTATTTCCCAAAGTCAT
* * * * *
10053727 TGAGCCTCTAATTAGAGGAGCTTTATTTGTTTCCCAAAGTTGTTGAGCCTTTGATTAAATGAGCA
64 TGAGCCTCTAATTAGAGGAGCTTTATCTATTTCCCAAAGTCGTTAAGCCTTTGATTAAAGGAGCA
10053792 TT
129 TT
* * *
10053794 ATTTATTTTTTCAAAGTCGTTGAGCCTCTAATTAGGCAAGTTTTATTTATTTCCCAAAGTCGTTG
1 ATTTATTTTTTCAAAGTTGTTGAGCCTCTAATTAGGCAAGCTTTATTTATTTCCCAAAGTCATTG
* * ** * *
10053859 AGCCTCTGATTCGAGGAGCTTTATCTATTTTTCAAAGTCGTTAAGCCTTTGATTATAGGAGCTTT
66 AGCCTCTAATTAGAGGAGCTTTATCTATTTCCCAAAGTCGTTAAGCCTTTGATTAAAGGAGCATT
*
10053924 ATTTATTTTCTCAAAGTTGTTGAG
1 ATTTATTTTTTCAAAGTTGTTGAG
10053948 ATCTGATTAG
Statistics
Matches: 130, Mismatches: 22, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
129 1 0.01
130 123 0.95
131 6 0.05
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (130 bp):
ATTTATTTTTTCAAAGTTGTTGAGCCTCTAATTAGGCAAGCTTTATTTATTTCCCAAAGTCATTG
AGCCTCTAATTAGAGGAGCTTTATCTATTTCCCAAAGTCGTTAAGCCTTTGATTAAAGGAGCATT
Found at i:10053991 original size:130 final size:127
Alignment explanation
Indices: 10053664--10053994 Score: 317
Period size: 130 Copynumber: 2.5 Consensus size: 127
10053654 TGCCAAAGAG
* *
10053664 ATTTATTTTTCAAAAGTTGTTGA-ACCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCAT-
1 ATTTATTTTTC-AAAGTTGTTGAGA--TCTGATTAGAAGAGCTTTATTTATTTTTCAAAGT--TG
* * * * *
10053727 TGAGCCTCTAATTAGAGGAGCTTTATTTGTTTCCCAAAGTTGTTGAGCCTTTGATTAAATGAGCA
61 TGAGCCTCTAATTAGAGGAGCTTTATCTATTTCCCAAAGTCGTTAAGCCTTTGATTAAAGGAGCA
10053792 TT
126 TT
* * * * * ** *
10053794 ATTTATTTTTTCAAAGTCGTTGAGCCTCTAATTAGGCA-AGTTTTATTTATTTCCCAAAGTCGTT
1 ATTTA-TTTTTCAAAGTTGTTGAG-ATCTGATTA-GAAGAGCTTTATTTATTTTTCAAAGTTG-T
* * ** * *
10053858 GAGCCTCTGATTCGAGGAGCTTTATCTATTTTTCAAAGTCGTTAAGCCTTTGATTATAGGAGCTT
62 GAGCCTCTAATTAGAGGAGCTTTATCTATTTCCCAAAGTCGTTAAGCCTTTGATTAAAGGAGCAT
10053923 T
127 T
** *
10053924 ATTTATTTTCTCAAAGTTGTTGAGATCTGATTAGAAGAGCCGTATTTAATTTTTTAAAAGTTGTG
1 ATTTATTTT-TCAAAGTTGTTGAGATCTGATTAGAAGAGCTTTATTT-A-TTTTTCAAAGTTGTG
10053989 AGCCTC
63 AGCCTC
10053995 AACATAGGAG
Statistics
Matches: 159, Mismatches: 32, Indels: 20
0.75 0.15 0.09
Matches are distributed among these distances:
128 2 0.01
129 18 0.11
130 123 0.77
131 16 0.10
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (127 bp):
ATTTATTTTTCAAAGTTGTTGAGATCTGATTAGAAGAGCTTTATTTATTTTTCAAAGTTGTGAGC
CTCTAATTAGAGGAGCTTTATCTATTTCCCAAAGTCGTTAAGCCTTTGATTAAAGGAGCATT
Found at i:10053993 original size:87 final size:86
Alignment explanation
Indices: 10053664--10053994 Score: 314
Period size: 87 Copynumber: 3.8 Consensus size: 86
10053654 TGCCAAAGAG
* * * * * * *
10053664 ATTTATTTTTCAAAAGTTGTTGAACCTCTGATTAGAGGAGCTTTGTTTATTTTTCAAAGTCATTG
1 ATTTATTTTCCCAAAGTTGTTGAGCATCTGATTAGAAGAGCTTTATTTATTTTTCAAAGTCGTTG
*
10053729 AGCCTCTAATTAGAGGAGCTTT
66 AGCCTCT-ATTATAGGAGCTTT
* * * *
10053751 ATTT-GTTTCCCAAAGTTGTTGAGCCTTTGATTA-AATGAGCATTATTTATTTTTTCAAAGTCGT
1 ATTTATTTTCCCAAAGTTGTTGAGCATCTGATTAGAA-GAGCTTTATTTA-TTTTTCAAAGTCGT
* *
10053814 TGAGCCTCTAAT-TAGGCAAGTTTT
64 TGAGCCTCTATTATAGG--AGCTTT
* * * * * *
10053838 ATTTA-TTTCCCAAAGTCGTTGAGCCTCTGATTCGAGGAGCTTTATCTATTTTTCAAAGTCGTTA
1 ATTTATTTTCCCAAAGTTGTTGAGCATCTGATTAGAAGAGCTTTATTTATTTTTCAAAGTCGTTG
*
10053902 AGCCTTTGATTATAGGAGCTTT
66 AGCCTCT-ATTATAGGAGCTTT
* ** * *
10053924 ATTTATTTTCTCAAAGTTGTTGAG-ATCTGATTAGAAGAGCCGTATTTAATTTTTTAAAAGTTG-
1 ATTTATTTTCCCAAAGTTGTTGAGCATCTGATTAGAAGAGCTTTATTT-A-TTTTTCAAAGTCGT
10053987 TGAGCCTC
64 TGAGCCTC
10053995 AACATAGGAG
Statistics
Matches: 199, Mismatches: 34, Indels: 22
0.78 0.13 0.09
Matches are distributed among these distances:
85 4 0.02
86 84 0.42
87 95 0.48
88 16 0.08
ACGTcount: A:0.26, C:0.14, G:0.18, T:0.42
Consensus pattern (86 bp):
ATTTATTTTCCCAAAGTTGTTGAGCATCTGATTAGAAGAGCTTTATTTATTTTTCAAAGTCGTTG
AGCCTCTATTATAGGAGCTTT
Found at i:10054794 original size:31 final size:31
Alignment explanation
Indices: 10054727--10054794 Score: 100
Period size: 31 Copynumber: 2.2 Consensus size: 31
10054717 ATTTTCTAGA
* * *
10054727 TTTTGATGAATTTTTTAATGTCGGTTGAATT
1 TTTTGGTGAATTTTTCAATGTCGATTGAATT
*
10054758 TTTTGGTGAATTTTTCAATGTCGATTTAATT
1 TTTTGGTGAATTTTTCAATGTCGATTGAATT
10054789 TTTTGG
1 TTTTGG
10054795 CAAGCTTCCC
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.21, C:0.04, G:0.19, T:0.56
Consensus pattern (31 bp):
TTTTGGTGAATTTTTCAATGTCGATTGAATT
Found at i:10059796 original size:11 final size:10
Alignment explanation
Indices: 10059776--10059889 Score: 84
Period size: 11 Copynumber: 10.3 Consensus size: 10
10059766 ATCAATAGTG
10059776 AAAAAAGAAA
1 AAAAAAGAAA
10059786 AAAAAATGAAA
1 AAAAAA-GAAA
10059797 AAAAAAGAAATAA
1 AAAAAAG--A-AA
10059810 AAAAAAGAAA
1 AAAAAAGAAA
10059820 GAAAAAGAGAAA
1 -AAAAA-AGAAA
10059832 AGGAAAAAGAGAA
1 A--AAAAAGA-AA
*
10059845 AAAAGAGAAA
1 AAAAAAGAAA
*
10059855 AGAGAAAGAAA
1 A-AAAAAGAAA
* *
10059866 AAATATGAAA
1 AAAAAAGAAA
*
10059876 TGAAAAAGAAA
1 -AAAAAAGAAA
10059887 AAA
1 AAA
10059890 TATGAAAGGA
Statistics
Matches: 83, Mismatches: 10, Indels: 22
0.72 0.09 0.19
Matches are distributed among these distances:
10 20 0.24
11 38 0.46
12 9 0.11
13 16 0.19
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (10 bp):
AAAAAAGAAA
Found at i:10059802 original size:14 final size:14
Alignment explanation
Indices: 10059783--10059896 Score: 65
Period size: 14 Copynumber: 8.0 Consensus size: 14
10059773 GTGAAAAAAG
10059783 AAAAAAAAATGAAA
1 AAAAAAAAATGAAA
10059797 AAAAAAGAAAT-AAA
1 AAAAAA-AAATGAAA
*
10059811 AAAAAGAAA-GAAA
1 AAAAAAAAATGAAA
* * *
10059824 AAGAGAAAAGGAAA
1 AAAAAAAAATGAAA
*
10059838 AAGAGAAAAAA-GAGA
1 AA-A-AAAAAATGAAA
* *
10059853 AAAGAGAAA-GAAA
1 AAAAAAAAATGAAA
**
10059866 AAATATGAAATGAAA
1 AAA-AAAAAATGAAA
10059881 AAGAAAAAATATGAAA
1 AA-AAAAAA-ATGAAA
10059897 GGAGAGAAAA
Statistics
Matches: 77, Mismatches: 14, Indels: 16
0.72 0.13 0.15
Matches are distributed among these distances:
13 22 0.29
14 25 0.32
15 18 0.23
16 12 0.16
ACGTcount: A:0.77, C:0.00, G:0.17, T:0.06
Consensus pattern (14 bp):
AAAAAAAAATGAAA
Found at i:10059838 original size:23 final size:23
Alignment explanation
Indices: 10059775--10059865 Score: 84
Period size: 23 Copynumber: 4.0 Consensus size: 23
10059765 TATCAATAGT
10059775 GAAAAAAGA-AAAA-AAAATGAAA
1 GAAAAAAGAGAAAAGAAAA-GAAA
* *
10059797 -AAAAAAGAAATAAAAAAAAGAAA
1 GAAAAAAGAGA-AAAGAAAAGAAA
*
10059820 G-AAAAAGAGAAAAGGAAAA-AGA
1 GAAAAAAGAGAAAA-GAAAAGAAA
10059842 GAAAAAAGAGAAAAGAGAAAGAAA
1 GAAAAAAGAGAAAAGA-AAAGAAA
10059866 AAATATGAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 14
0.76 0.05 0.19
Matches are distributed among these distances:
21 8 0.14
22 9 0.16
23 34 0.60
24 6 0.11
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (23 bp):
GAAAAAAGAGAAAAGAAAAGAAA
Found at i:10059855 original size:16 final size:15
Alignment explanation
Indices: 10059797--10059861 Score: 69
Period size: 16 Copynumber: 4.2 Consensus size: 15
10059787 AAAAATGAAA
* *
10059797 AAAAAAGAAATAAAAA
1 AAAAAAGAAA-AAGAG
10059813 AAAGAAAGAAAAAGAG
1 AAA-AAAGAAAAAGAG
*
10059829 -AAAAGGAAAAAGAG
1 AAAAAAGAAAAAGAG
10059843 AAAAAAGAGAAAAGAG
1 AAAAAAGA-AAAAGAG
10059859 AAA
1 AAA
10059862 GAAAAAATAT
Statistics
Matches: 42, Mismatches: 4, Indels: 6
0.81 0.08 0.12
Matches are distributed among these distances:
14 11 0.26
15 8 0.19
16 16 0.38
17 7 0.17
ACGTcount: A:0.78, C:0.00, G:0.20, T:0.02
Consensus pattern (15 bp):
AAAAAAGAAAAAGAG
Found at i:10059875 original size:21 final size:21
Alignment explanation
Indices: 10059841--10059910 Score: 81
Period size: 21 Copynumber: 3.4 Consensus size: 21
10059831 AAGGAAAAAG
*
10059841 AGAAAAAAGA-GAAAAGAGAA
1 AGAAAAAATATGAAAAGAGAA
* *
10059861 AGAAAAAATATGAAATGAAAA
1 AGAAAAAATATGAAAAGAGAA
*
10059882 AGAAAAAATATGAAAGGAGAGA
1 AGAAAAAATATGAAAAGAGA-A
10059904 A-AAAAAA
1 AGAAAAAA
10059911 GACTTAAATT
Statistics
Matches: 43, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
20 9 0.21
21 32 0.74
22 2 0.05
ACGTcount: A:0.73, C:0.00, G:0.20, T:0.07
Consensus pattern (21 bp):
AGAAAAAATATGAAAAGAGAA
Found at i:10059888 original size:7 final size:7
Alignment explanation
Indices: 10059775--10059868 Score: 61
Period size: 7 Copynumber: 13.0 Consensus size: 7
10059765 TATCAATAGT
10059775 GAAAAAA
1 GAAAAAA
10059782 GAAAAAA
1 GAAAAAA
10059789 -AAATGAAA
1 GAAA--AAA
10059797 -AAAAAA
1 GAAAAAA
10059803 GAAATAAA
1 GAAA-AAA
10059811 -AAAAAGA
1 GAAAAA-A
*
10059818 AAGAAAAA
1 GA-AAAAA
*
10059826 GAGAAAAG
1 GA-AAAAA
10059834 GAAAAAGA
1 GAAAAA-A
10059842 GAAAAAA
1 GAAAAAA
*
10059849 GAGAAAA
1 GAAAAAA
*
10059856 G-AGAAA
1 GAAAAAA
10059862 GAAAAAA
1 GAAAAAA
10059869 TATGAAATGA
Statistics
Matches: 71, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
6 12 0.17
7 30 0.42
8 25 0.35
9 4 0.06
ACGTcount: A:0.80, C:0.00, G:0.18, T:0.02
Consensus pattern (7 bp):
GAAAAAA
Found at i:10061197 original size:21 final size:21
Alignment explanation
Indices: 10061173--10061215 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10061163 AACTTTTGGG
10061173 TGTGAATCACCAGAATTCGAA
1 TGTGAATCACCAGAATTCGAA
***
10061194 TGTGAATCTTTAGAATTCGAA
1 TGTGAATCACCAGAATTCGAA
10061215 T
1 T
10061216 CTTTAAATGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TGTGAATCACCAGAATTCGAA
Found at i:10061565 original size:43 final size:43
Alignment explanation
Indices: 10061483--10061737 Score: 312
Period size: 43 Copynumber: 5.9 Consensus size: 43
10061473 TATCAAATAG
* * * *
10061483 ATTTATTTTTCAAAAGTTGTTAAGCCTCTGATTAGAGGAGCATT
1 ATTTATTTTTC-AAAGTCGTTGAGCCTTTGATTAGAGGAGCTTT
* * *
10061527 ATTTATTTTTCAAAGTCATTGAGCCTTTAATTATAGGAGCTTT
1 ATTTATTTTTCAAAGTCGTTGAGCCTTTGATTAGAGGAGCTTT
* *
10061570 ATTTATTTTCCAAAGTCGTTGAGCCTTTGATTAGAGAAGCTTT
1 ATTTATTTTTCAAAGTCGTTGAGCCTTTGATTAGAGGAGCTTT
* * * *
10061613 ATTTTTTTTTCAAAGTTGTTGAGCCTCTAATTAGAGGAGCTTT
1 ATTTATTTTTCAAAGTCGTTGAGCCTTTGATTAGAGGAGCTTT
* ** * *
10061656 ATTTATTTTTTAAAGTATTTGAGCCTTTGATAAGAAGAGCTTT
1 ATTTATTTTTCAAAGTCGTTGAGCCTTTGATTAGAGGAGCTTT
* *
10061699 ATTTATTTTCTCAAAGTTGTTGAACCTTTGATTAGAGGA
1 ATTTATTTT-TCAAAGTCGTTGAGCCTTTGATTAGAGGA
10061738 ACCATATTTA
Statistics
Matches: 178, Mismatches: 32, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
43 144 0.81
44 34 0.19
ACGTcount: A:0.27, C:0.11, G:0.17, T:0.44
Consensus pattern (43 bp):
ATTTATTTTTCAAAGTCGTTGAGCCTTTGATTAGAGGAGCTTT
Found at i:10061626 original size:86 final size:86
Alignment explanation
Indices: 10061483--10061771 Score: 285
Period size: 86 Copynumber: 3.3 Consensus size: 86
10061473 TATCAAATAG
* * * * * *
10061483 ATTTATTTTTCAAAAGTTGTTAAGCCTCTGATTAGAGGAGCATTATTTATTTTTCAAAGTCATTG
1 ATTTA-TTTTCAAAAGTAGTTGAGCCTTTGATTAGAGAAGCTTTATTTTTTTTTCAAAGTCATTG
* *
10061548 AGCCTTTAATTATAGGAGCTTT
65 AGCCTCTAATTAGAGGAGCTTT
* * **
10061570 ATTTATTTTCCAAAGTCGTTGAGCCTTTGATTAGAGAAGCTTTATTTTTTTTTCAAAGTTGTTGA
1 ATTTATTTTCAAAAGTAGTTGAGCCTTTGATTAGAGAAGCTTTATTTTTTTTTCAAAGTCATTGA
10061635 GCCTCTAATTAGAGGAGCTTT
66 GCCTCTAATTAGAGGAGCTTT
** * * * **
10061656 ATTTATTTTTTAAAGTATTTGAGCCTTTGATAAGA-AGAGCTTTATTTATTTTCTCAAAGTTGTT
1 ATTTATTTTCAAAAGTAGTTGAGCCTTTGATTAGAGA-AGCTTTATTT-TTTTTTCAAAGTCATT
* * * * **
10061720 GAACCTTTGATTAGAGGAACCAT
64 GAGCCTCTAATTAGAGGAGCTTT
*
10061743 ATTTAATTTTCTAAAAGTTG-TGAGCCTTT
1 ATTT-ATTTTC-AAAAGTAGTTGAGCCTTT
10061772 ACTTAAGGGA
Statistics
Matches: 171, Mismatches: 27, Indels: 7
0.83 0.13 0.03
Matches are distributed among these distances:
85 1 0.01
86 110 0.64
87 41 0.24
88 14 0.08
89 5 0.03
ACGTcount: A:0.28, C:0.11, G:0.17, T:0.44
Consensus pattern (86 bp):
ATTTATTTTCAAAAGTAGTTGAGCCTTTGATTAGAGAAGCTTTATTTTTTTTTCAAAGTCATTGA
GCCTCTAATTAGAGGAGCTTT
Found at i:10064105 original size:67 final size:64
Alignment explanation
Indices: 10063846--10064117 Score: 201
Period size: 67 Copynumber: 4.2 Consensus size: 64
10063836 TAGTAAGATT
* * * * *
10063846 AATTTAATTTTAAAAATTATTTTTAAAAGTCATGAAATCCTCTAATTACTTAATAAGATTTCATA
1 AATTTAATTTCAAAATTTATTTTTTAAA-TCATGAAATCCTCTAATAATTTAATAAGATTTCATA
* * * * * * *
10063911 AATTTTATTTCAAAA-ATAATTTTGAAATACATGGAAT-CTTTCAATAATTTGAT-AGATTTTCA
1 AATTTAATTTCAAAATTTATTTTTTAAAT-CATGAAATCCTCT-AATAATTTAATAAGA-TTTCA
*
10063973 TG
63 TA
* * * * ***
10063975 AATTT-ATTTCCAAAAGTTTATTTTTTTAATTCATGAAATTCTCTGATAATTTAGTATTCTTTCA
1 AATTTAATTT-CAAAA-TTTA-TTTTTTAAATCATGAAATCCTCTAATAATTTAATAAGATTTCA
*
10064039 TG
63 TA
* ** *
10064041 AATTTAATTTTAAAATTTTATTTTTTTAAATCTATGAAATTTTTTAATAATTTAATAAGATTTCA
1 AATTTAATTTCAAAA-TTTA-TTTTTTAAATC-ATGAAATCCTCTAATAATTTAATAAGATTTCA
10064106 TA
63 TA
10064108 AATTTAATTT
1 AATTTAATTT
10064118 ATTTTTTGAA
Statistics
Matches: 162, Mismatches: 34, Indels: 20
0.75 0.16 0.09
Matches are distributed among these distances:
63 11 0.07
64 40 0.25
65 13 0.08
66 48 0.30
67 50 0.31
ACGTcount: A:0.38, C:0.07, G:0.06, T:0.49
Consensus pattern (64 bp):
AATTTAATTTCAAAATTTATTTTTTAAATCATGAAATCCTCTAATAATTTAATAAGATTTCATA
Found at i:10064505 original size:11 final size:10
Alignment explanation
Indices: 10064452--10064513 Score: 58
Period size: 10 Copynumber: 6.4 Consensus size: 10
10064442 TTGGTTTTTG
10064452 AAAAT-AATA
1 AAAATAAATA
10064461 AAAATAAATA
1 AAAATAAATA
*
10064471 AAAA-ATAT-
1 AAAATAAATA
* * *
10064479 AAAAGAGATG
1 AAAATAAATA
10064489 AAAATAAAATA
1 AAAAT-AAATA
10064500 AAAATAAATA
1 AAAATAAATA
10064510 AAAA
1 AAAA
10064514 GAAGAACGAG
Statistics
Matches: 44, Mismatches: 5, Indels: 7
0.79 0.09 0.12
Matches are distributed among these distances:
8 4 0.09
9 11 0.25
10 21 0.48
11 8 0.18
ACGTcount: A:0.77, C:0.00, G:0.05, T:0.18
Consensus pattern (10 bp):
AAAATAAATA
Found at i:10066623 original size:111 final size:112
Alignment explanation
Indices: 10066477--10066693 Score: 330
Period size: 111 Copynumber: 1.9 Consensus size: 112
10066467 CTAGGTCGGC
* *
10066477 TAAATTCATTTTTCTTTGTTTAAAAAAGTGAGGTCCACGTGGGTGTCAATCTCCGTAGCAGGATT
1 TAAATTCATTTTCCTTTGTTTAAAAAAGTGAGGTCCACGTGGGTGTCAATCTCCGTAGCAGGACT
10066542 CCG-T-TTTTCGATGTATTAAAAAAATAAATATATTTTTTGGTTTGT
66 CCGTTGTTTTCGATGTATTAAAAAAATAAATATATTTTTTGGTTTGT
* *
10066587 TAAATTCCATTTTCCTTTGTTTAAAAAAGTGGGGTCCACGTGGGTGTCAATCTCCGTAGCTGGAC
1 TAAATT-CATTTTCCTTTGTTTAAAAAAGTGAGGTCCACGTGGGTGTCAATCTCCGTAGCAGGAC
*
10066652 TCCGTTTTGGGTTTTGGATGTATTAAAAAAATAAATATATTT
65 TCCG--TT--GTTTTCGATGTATTAAAAAAATAAATATATTT
10066694 GATAAACAAA
Statistics
Matches: 95, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
110 6 0.06
111 58 0.61
114 1 0.01
117 30 0.32
ACGTcount: A:0.28, C:0.13, G:0.19, T:0.40
Consensus pattern (112 bp):
TAAATTCATTTTCCTTTGTTTAAAAAAGTGAGGTCCACGTGGGTGTCAATCTCCGTAGCAGGACT
CCGTTGTTTTCGATGTATTAAAAAAATAAATATATTTTTTGGTTTGT
Found at i:10074920 original size:45 final size:45
Alignment explanation
Indices: 10074856--10074941 Score: 136
Period size: 45 Copynumber: 1.9 Consensus size: 45
10074846 TCAAGACGCT
*
10074856 TGACAAAATCAAAGATGTTAAAGGCAGAAGCTTGTTTCTCTAGGC
1 TGACAAAATCAAAGATGTTAAAGGCAAAAGCTTGTTTCTCTAGGC
* * *
10074901 TGACAAAATCGAAGTTGTTAAAGGCAAAAGTTTGTTTCTCT
1 TGACAAAATCAAAGATGTTAAAGGCAAAAGCTTGTTTCTCT
10074942 TTATCTTTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 37 1.00
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (45 bp):
TGACAAAATCAAAGATGTTAAAGGCAAAAGCTTGTTTCTCTAGGC
Found at i:10076342 original size:19 final size:19
Alignment explanation
Indices: 10076320--10076373 Score: 81
Period size: 19 Copynumber: 2.8 Consensus size: 19
10076310 AAAACATTCT
10076320 AGAATAGCTAAAATCCCAA
1 AGAATAGCTAAAATCCCAA
* *
10076339 AGAATACCTAAAATGCCAA
1 AGAATAGCTAAAATCCCAA
*
10076358 AGAATAGCTCAAATCC
1 AGAATAGCTAAAATCC
10076374 TTAGAGAACA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.50, C:0.22, G:0.11, T:0.17
Consensus pattern (19 bp):
AGAATAGCTAAAATCCCAA
Found at i:10076440 original size:2 final size:2
Alignment explanation
Indices: 10076433--10076469 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
10076423 TAAGAAGAGC
10076433 AT AT AT AT AT 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 AT AT AT AT AT A
10076470 GAAAAAGGTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:10077763 original size:21 final size:22
Alignment explanation
Indices: 10077723--10077764 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
10077713 TATAAAATTT
* *
10077723 TATTTTAACTGAATAATTATAA
1 TATTTTAACTAAAAAATTATAA
10077745 TATTTTAA-TAAAAAATTATA
1 TATTTTAACTAAAAAATTATA
10077765 GGTTGTACGT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.50, C:0.02, G:0.02, T:0.45
Consensus pattern (22 bp):
TATTTTAACTAAAAAATTATAA
Found at i:10078058 original size:21 final size:21
Alignment explanation
Indices: 10078017--10078058 Score: 50
Period size: 21 Copynumber: 2.0 Consensus size: 21
10078007 ATTAATCAAT
* *
10078017 TAAATAATTTTATTTTATTAA
1 TAAATAATATTAATTTATTAA
10078038 TAAATAGATATTAATTT-TTAA
1 TAAATA-ATATTAATTTATTAA
10078059 AATAAATATA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (21 bp):
TAAATAATATTAATTTATTAA
Found at i:10078150 original size:17 final size:17
Alignment explanation
Indices: 10078099--10078151 Score: 51
Period size: 16 Copynumber: 3.3 Consensus size: 17
10078089 ATTTTATTCA
10078099 TTAATAAAATAATATTAT
1 TTAATAAAATAAT-TTAT
* *
10078117 TTAAT---TTATTTTA-
1 TTAATAAAATAATTTAT
10078130 TTAATAAAATAATTTAT
1 TTAATAAAATAATTTAT
10078147 TTAAT
1 TTAAT
10078152 TTAATAATAA
Statistics
Matches: 27, Mismatches: 4, Indels: 9
0.68 0.10 0.22
Matches are distributed among these distances:
13 5 0.19
14 3 0.11
15 3 0.11
16 6 0.22
17 5 0.19
18 5 0.19
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTAATAAAATAATTTAT
Found at i:10078157 original size:17 final size:17
Alignment explanation
Indices: 10078106--10078159 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
10078096 TCATTAATAA
10078106 AATAATATTATTTAATTT
1 AATAAT-TTATTTAATTT
**
10078124 -AT--TTTA-TTAATAA
1 AATAATTTATTTAATTT
10078137 AATAATTTATTTAATTT
1 AATAATTTATTTAATTT
10078154 AATAAT
1 AATAAT
10078160 AATATATAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 9
0.68 0.10 0.22
Matches are distributed among these distances:
13 5 0.18
14 5 0.18
15 1 0.04
16 4 0.14
17 13 0.46
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
AATAATTTATTTAATTT
Found at i:10078594 original size:21 final size:20
Alignment explanation
Indices: 10078570--10078612 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
10078560 TTAGTGTTAA
*
10078570 TATATTACACATATGTTTTAT
1 TATATT-CACAAATGTTTTAT
*
10078591 TATATTCATAAATGTTTTAT
1 TATATTCACAAATGTTTTAT
10078611 TA
1 TA
10078613 AAATTTAAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.35, C:0.07, G:0.05, T:0.53
Consensus pattern (20 bp):
TATATTCACAAATGTTTTAT
Found at i:10082091 original size:41 final size:41
Alignment explanation
Indices: 10082012--10082100 Score: 117
Period size: 41 Copynumber: 2.2 Consensus size: 41
10082002 GGTATAGTTG
* *
10082012 GAGGTCAAAACCTGCATTGTCCCTCAAGGCGCCAATTAGAA
1 GAGGTCAAAACCTACATTGTCCCTCAAGGAGCCAATTAGAA
* * * *
10082053 GAGGTCAAAACCTACATTGTCCCTCTAGTATCCCATTAGAA
1 GAGGTCAAAACCTACATTGTCCCTCAAGGAGCCAATTAGAA
10082094 -AGGTCAA
1 GAGGTCAA
10082101 GGCAATATTG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
40 7 0.17
41 35 0.83
ACGTcount: A:0.33, C:0.26, G:0.19, T:0.22
Consensus pattern (41 bp):
GAGGTCAAAACCTACATTGTCCCTCAAGGAGCCAATTAGAA
Found at i:10082118 original size:39 final size:39
Alignment explanation
Indices: 10082075--10082149 Score: 114
Period size: 39 Copynumber: 1.9 Consensus size: 39
10082065 TACATTGTCC
* *
10082075 CTCTAGTATCCCATTAGAAAGGTCAAGGCAATATTGTAT
1 CTCTAGTATCCAATTAGAAAGCTCAAGGCAATATTGTAT
* *
10082114 CTCTAGTCTCCAATTAGAAAGCTTAAGGCAATATTG
1 CTCTAGTATCCAATTAGAAAGCTCAAGGCAATATTG
10082150 ATTTAGCGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 32 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (39 bp):
CTCTAGTATCCAATTAGAAAGCTCAAGGCAATATTGTAT
Found at i:10086116 original size:28 final size:27
Alignment explanation
Indices: 10086071--10086139 Score: 75
Period size: 28 Copynumber: 2.5 Consensus size: 27
10086061 ATATTATTAT
* * * *
10086071 AAAAAATAATAATTAATAAAAGCAAAA
1 AAAAAAAAAAAATAAATAAAAACAAAA
10086098 AAAAAAACAAAAATAAATAAAAACAAAA
1 AAAAAAA-AAAAATAAATAAAAACAAAA
* *
10086126 ACAAACAAAAAATA
1 AAAAAAAAAAAATA
10086140 GAAACAGAAA
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
27 13 0.37
28 22 0.63
ACGTcount: A:0.80, C:0.07, G:0.01, T:0.12
Consensus pattern (27 bp):
AAAAAAAAAAAATAAATAAAAACAAAA
Found at i:10086121 original size:16 final size:16
Alignment explanation
Indices: 10086100--10086136 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
10086090 AAGCAAAAAA
* *
10086100 AAAAACAAAAATAAAT
1 AAAAACAAAAACAAAC
10086116 AAAAACAAAAACAAAC
1 AAAAACAAAAACAAAC
10086132 AAAAA
1 AAAAA
10086137 ATAGAAACAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.84, C:0.11, G:0.00, T:0.05
Consensus pattern (16 bp):
AAAAACAAAAACAAAC
Found at i:10086155 original size:23 final size:23
Alignment explanation
Indices: 10086094--10086150 Score: 71
Period size: 22 Copynumber: 2.5 Consensus size: 23
10086084 TAATAAAAGC
* *
10086094 AAAAAAAAAAACAAA-AATAAAT
1 AAAAACAAAAACAAACAAAAAAT
10086116 AAAAACAAAAACAAACAAAAAAT
1 AAAAACAAAAACAAACAAAAAAT
*
10086139 AGAAACAGAAAA
1 AAAAACA-AAAA
10086151 GAACAGAAGA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
22 14 0.47
23 12 0.40
24 4 0.13
ACGTcount: A:0.82, C:0.09, G:0.04, T:0.05
Consensus pattern (23 bp):
AAAAACAAAAACAAACAAAAAAT
Found at i:10087181 original size:10 final size:11
Alignment explanation
Indices: 10087164--10087201 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
10087154 CCGTTCAAGT
*
10087164 ATTTTTTTTTC
1 ATTTTTTTCTC
10087175 ATTTTTTTCTC
1 ATTTTTTTCTC
*
10087186 ATTTTTTTCTA
1 ATTTTTTTCTC
10087197 ATTTT
1 ATTTT
10087202 CTTTATATTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
11 25 1.00
ACGTcount: A:0.13, C:0.11, G:0.00, T:0.76
Consensus pattern (11 bp):
ATTTTTTTCTC
Found at i:10087381 original size:21 final size:20
Alignment explanation
Indices: 10087357--10087405 Score: 62
Period size: 21 Copynumber: 2.4 Consensus size: 20
10087347 AAAATGCTTA
*
10087357 AAAAATAACAATAATGATTTG
1 AAAAATAACAATAAT-AATTG
*
10087378 AAAAATAATAATAATAATTG
1 AAAAATAACAATAATAATTG
*
10087398 AACAATAA
1 AAAAATAA
10087406 TTTTTTCCCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 11 0.44
21 14 0.56
ACGTcount: A:0.63, C:0.04, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAAATAACAATAATAATTG
Found at i:10087709 original size:21 final size:21
Alignment explanation
Indices: 10087676--10087717 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
10087666 TCATAAACTC
10087676 TAAAATCCAAAATCCAAAAAT
1 TAAAATCCAAAATCCAAAAAT
*
10087697 TAAAA-CCATAAATCCTAAAAT
1 TAAAATCCA-AAATCCAAAAAT
10087718 CCAAAAATTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
20 3 0.16
21 16 0.84
ACGTcount: A:0.60, C:0.19, G:0.00, T:0.21
Consensus pattern (21 bp):
TAAAATCCAAAATCCAAAAAT
Found at i:10087716 original size:29 final size:27
Alignment explanation
Indices: 10087677--10087765 Score: 115
Period size: 29 Copynumber: 3.1 Consensus size: 27
10087667 CATAAACTCT
10087677 AAAATCCAAAATCCAAAAATTAAAACC
1 AAAATCCAAAATCCAAAAATTAAAACC
10087704 ATAAATCCTAAAATCCAAAAATTAAAACC
1 A-AAATCC-AAAATCCAAAAATTAAAACC
* * *
10087733 AAAACCCAAAATTTCAAAAACTTAAAATC
1 AAAATCCAAAA-TCCAAAAA-TTAAAACC
10087762 AAAA
1 AAAA
10087766 CCCCAAAACT
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
27 5 0.09
28 18 0.33
29 32 0.58
ACGTcount: A:0.62, C:0.20, G:0.00, T:0.18
Consensus pattern (27 bp):
AAAATCCAAAATCCAAAAATTAAAACC
Found at i:10087792 original size:29 final size:29
Alignment explanation
Indices: 10087763--10088004 Score: 285
Period size: 29 Copynumber: 8.4 Consensus size: 29
10087753 CTTAAAATCA
* * *
10087763 AAACCCCAAAACTAAACCCTAAACTCTCA
1 AAACCCTAAAACTAAACCCTAAACCCTCC
* *
10087792 AAACCCTAAAATTAAACCCTAAACCTTCC
1 AAACCCTAAAACTAAACCCTAAACCCTCC
* * *
10087821 AAACCTTAAAA-TAAAATCTTAAACCCTCC
1 AAACCCTAAAACT-AAACCCTAAACCCTCC
10087850 AAACCCTAAAACTAAACCCTAAACCCTCC
1 AAACCCTAAAACTAAACCCTAAACCCTCC
* *
10087879 AAACCCTAAAACAAAACCTTAAACCCTCC
1 AAACCCTAAAACTAAACCCTAAACCCTCC
*
10087908 AAACCCTAAAATCGAAACCCTAAA-CCTCC
1 AAACCCTAAAA-CTAAACCCTAAACCCTCC
* *
10087937 AAACCCTAAAATTAAACCCT-AA-TCTCC
1 AAACCCTAAAACTAAACCCTAAACCCTCC
* **
10087964 AAACCCTAAAATCAAAACCCTAAACTTTCC
1 AAACCCTAAAA-CTAAACCCTAAACCCTCC
10087994 AAACCCTAAAA
1 AAACCCTAAAA
10088005 TTCAAGCCTT
Statistics
Matches: 185, Mismatches: 22, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
27 17 0.09
28 15 0.08
29 127 0.69
30 26 0.14
ACGTcount: A:0.47, C:0.35, G:0.00, T:0.17
Consensus pattern (29 bp):
AAACCCTAAAACTAAACCCTAAACCCTCC
Found at i:10087810 original size:13 final size:13
Alignment explanation
Indices: 10087763--10087814 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
10087753 CTTAAAATCA
* *
10087763 AAACCCCAAAACT
1 AAACCCTAAAATT
*
10087776 AAACCCTAAACTCT
1 AAACCCTAAAAT-T
10087790 CAAAACCCTAAAATT
1 --AAACCCTAAAATT
10087805 AAACCCTAAA
1 AAACCCTAAA
10087815 CCTTCCAAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 19 0.59
14 1 0.03
15 1 0.03
16 11 0.34
ACGTcount: A:0.52, C:0.33, G:0.00, T:0.15
Consensus pattern (13 bp):
AAACCCTAAAATT
Found at i:10088020 original size:87 final size:88
Alignment explanation
Indices: 10087763--10088043 Score: 347
Period size: 87 Copynumber: 3.2 Consensus size: 88
10087753 CTTAAAATCA
* * * *
10087763 AAACCCCAAAACTAAACCCTAAACTCTCAAAACCCTAAAAT-TAAACCCTAAACCTTCCAAACCT
1 AAACCCTAAAACTAAACCCTAAACTCTCCAAACCCTAAAATCAAAACCCTAAACCTTCCAAACCC
* * *
10087827 TAAAATAAAATCTTAAACCCTCC
66 TAAAATCAAACCTTAAAACCTCC
* * *
10087850 AAACCCTAAAACTAAACCCTAAACCCTCCAAACCCTAAAA-CAAAACCTTAAACCCTCCAAACCC
1 AAACCCTAAAACTAAACCCTAAACTCTCCAAACCCTAAAATCAAAACCCTAAACCTTCCAAACCC
*
10087914 TAAAATCGAAACCCT-AAACCTCC
66 TAAAATC-AAACCTTAAAACCTCC
* *
10087937 AAACCCTAAAATTAAACCCT-AA-TCTCCAAACCCTAAAATCAAAACCCTAAACTTTCCAAACCC
1 AAACCCTAAAACTAAACCCTAAACTCTCCAAACCCTAAAATCAAAACCCTAAACCTTCCAAACCC
* *
10088000 TAAAATTCAAGCCTTAAAACCTTCT
66 TAAAA-TCAAACCTTAAAACC-TCC
* *
10088025 AAACCCTAAGACCAAACCC
1 AAACCCTAAAACTAAACCC
10088044 CAAAGCCTTT
Statistics
Matches: 166, Mismatches: 22, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
85 15 0.09
86 33 0.20
87 95 0.57
88 23 0.14
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.18
Consensus pattern (88 bp):
AAACCCTAAAACTAAACCCTAAACTCTCCAAACCCTAAAATCAAAACCCTAAACCTTCCAAACCC
TAAAATCAAACCTTAAAACCTCC
Found at i:10088032 original size:31 final size:30
Alignment explanation
Indices: 10087763--10088033 Score: 267
Period size: 29 Copynumber: 9.3 Consensus size: 30
10087753 CTTAAAATCA
* * *
10087763 AAACCCCAAAA-CTAAACCCTAAA-CTCTCA
1 AAACCCTAAAATCAAAACCCTAAACCT-TCC
*
10087792 AAACCCTAAAAT-TAAACCCTAAACCTTCC
1 AAACCCTAAAATCAAAACCCTAAACCTTCC
* * * *
10087821 AAACCTTAAAAT-AAAATCTTAAACCCTCC
1 AAACCCTAAAATCAAAACCCTAAACCTTCC
* *
10087850 AAACCCTAAAA-CTAAACCCTAAACCCTCC
1 AAACCCTAAAATCAAAACCCTAAACCTTCC
* *
10087879 AAACCCTAAAA-CAAAACCTTAAACCCTCC
1 AAACCCTAAAATCAAAACCCTAAACCTTCC
*
10087908 AAACCCTAAAATCGAAACCCTAAACC-TCC
1 AAACCCTAAAATCAAAACCCTAAACCTTCC
* *
10087937 AAACCCTAAAAT-TAAACCCT-AATC-TCC
1 AAACCCTAAAATCAAAACCCTAAACCTTCC
*
10087964 AAACCCTAAAATCAAAACCCTAAACTTTCC
1 AAACCCTAAAATCAAAACCCTAAACCTTCC
* * *
10087994 AAACCCTAAAATTC-AAGCCTTAAAACCTTCT
1 AAACCCTAAAA-TCAAAACCCT-AAACCTTCC
10088025 AAACCCTAA
1 AAACCCTAA
10088034 GACCAAACCC
Statistics
Matches: 209, Mismatches: 24, Indels: 16
0.84 0.10 0.06
Matches are distributed among these distances:
27 18 0.09
28 14 0.07
29 126 0.60
30 33 0.16
31 18 0.09
ACGTcount: A:0.46, C:0.35, G:0.01, T:0.18
Consensus pattern (30 bp):
AAACCCTAAAATCAAAACCCTAAACCTTCC
Found at i:10094190 original size:16 final size:16
Alignment explanation
Indices: 10094168--10094199 Score: 55
Period size: 16 Copynumber: 1.9 Consensus size: 16
10094158 ATCACAAAAA
10094168 AAAAAAAGTAAAAAGAT
1 AAAAAAA-TAAAAAGAT
10094185 AAAAAAATAAAAAGA
1 AAAAAAATAAAAAGA
10094200 CATCTTCAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.81, C:0.00, G:0.09, T:0.09
Consensus pattern (16 bp):
AAAAAAATAAAAAGAT
Found at i:10096108 original size:41 final size:41
Alignment explanation
Indices: 10096033--10096114 Score: 103
Period size: 41 Copynumber: 2.0 Consensus size: 41
10096023 GTTTTTAAAG
*
10096033 TTTCAAAGCCTCTGTTTAAGAAGAACCAATTTCAATCAAGA
1 TTTCAAAGCCTCTGTTTAAGAAGAACCAATTTCAAACAAGA
* * * *
10096074 TTTCAAAGCTTCTGTTTATGAGGAACC-TTCTTCAAACAAGA
1 TTTCAAAGCCTCTGTTTAAGAAGAACCAAT-TTCAAACAAGA
10096115 CCTTTAGAGT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
40 1 0.03
41 34 0.97
ACGTcount: A:0.35, C:0.20, G:0.13, T:0.32
Consensus pattern (41 bp):
TTTCAAAGCCTCTGTTTAAGAAGAACCAATTTCAAACAAGA
Found at i:10096340 original size:22 final size:22
Alignment explanation
Indices: 10096315--10096357 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
10096305 GTCGATTTTA
* *
10096315 TAAGACCTTCGAGCATAATTTC
1 TAAGACATTCAAGCATAATTTC
*
10096337 TAAGACATTTAAGCATAATTT
1 TAAGACATTCAAGCATAATTT
10096358 TGATTTACAG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.37, C:0.16, G:0.12, T:0.35
Consensus pattern (22 bp):
TAAGACATTCAAGCATAATTTC
Found at i:10096413 original size:22 final size:23
Alignment explanation
Indices: 10096388--10096450 Score: 62
Period size: 22 Copynumber: 2.9 Consensus size: 23
10096378 ATCGATTCTG
*
10096388 TAAGACCTTCGA-GTATGAT-TT
1 TAAGACCTTCGAGGTATAATCTT
*
10096409 CTAAGACC-TCCAGGTATAATCTT
1 -TAAGACCTTCGAGGTATAATCTT
*
10096432 TAAGACCTTCG-GGCATAAT
1 TAAGACCTTCGAGGTATAAT
10096451 TTTGATTCAC
Statistics
Matches: 34, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
21 3 0.09
22 27 0.79
23 4 0.12
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (23 bp):
TAAGACCTTCGAGGTATAATCTT
Found at i:10096601 original size:132 final size:131
Alignment explanation
Indices: 10096368--10096681 Score: 335
Period size: 132 Copynumber: 2.4 Consensus size: 131
10096358 TGATTTACAG
* * * * * *
10096368 TATTATCTCGATCGATTCTGTAAGACCTTCGAGTATGATTTCTAAGACCTCCAGGTATAATCTTT
1 TATTATCCCG-TCGATTCTGTAAGACATTTGGGCATGATTTCTAAGACCTCCAGGCATAATCTTT
* * * *
10096433 AAGACCTTCGGGCATAATTTTGATTCACGGTATTATCTTGATTGATTCTTTATTTTTTGACTCGC
65 AAGACCTTCAGGCATAATTTTGATTCACGGTATTATCCTAATTGATTCTTTACTTTTTGACTCGC
10096498 GA
130 GA
* * * * *
10096500 TGTTATCTC-TACTGATTCTGTAAGACTTTTGGGCATGATTTCTAAGATCTAC-GAGCATAATCT
1 TATTATCCCGT-C-GATTCTGTAAGACATTTGGGCATGATTTCTAAGACCTCCAG-GCATAATCT
* * * ** * *
10096563 TTAATACTTTCAGGTATAATTTTGATTCGTGGTGTTATCCTAATTGATTCTTTACTTTTTGACTT
63 TTAAGACCTTCAGGCATAATTTTGATTCACGGTATTATCCTAATTGATTCTTTACTTTTTGACTC
* *
10096628 GTGG
128 GCGA
* *
10096632 TATTATCCCGGTCAATTTTGTAAGACATTTGGGCATGATTTCTAAGACCT
1 TATTATCCC-GTCGATTCTGTAAGACATTTGGGCATGATTTCTAAGACCT
10096682 TCGGCCATAA
Statistics
Matches: 150, Mismatches: 27, Indels: 10
0.80 0.14 0.05
Matches are distributed among these distances:
130 1 0.01
131 2 0.01
132 145 0.97
133 1 0.01
134 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.17, T:0.42
Consensus pattern (131 bp):
TATTATCCCGTCGATTCTGTAAGACATTTGGGCATGATTTCTAAGACCTCCAGGCATAATCTTTA
AGACCTTCAGGCATAATTTTGATTCACGGTATTATCCTAATTGATTCTTTACTTTTTGACTCGCG
A
Found at i:10096808 original size:73 final size:73
Alignment explanation
Indices: 10096704--10097032 Score: 311
Period size: 73 Copynumber: 4.5 Consensus size: 73
10096694 TTGATTCTAA
* * * ** * *
10096704 GTGTTGTCTTGATCGATTCTTTATTTTTCGACTTGCAATATTATCCTAGTTGATTATTTAATTTT
1 GTGTTGTCCTGATCGATTCTTTATTTCTCGACTTACGGTGTTATCCTAGTCGATTATTTAATTTT
* *
10096769 AACTCGCG
66 GACTCACG
* * * * *
10096777 GTGTTATCCTGATCAATTCTTTATTTCTCGACTTACGGTGTTATCTTAATCGATTTTTTAATTTT
1 GTGTTGTCCTGATCGATTCTTTATTTCTCGACTTACGGTGTTATCCTAGTCGATTATTTAATTTT
*
10096842 GACTTACG
66 GACTCACG
* * * * *
10096850 GTGTTGTCCCGATCGATTCTTTATTTCTCAACTTACGGTGTTGTCCTTGTCGATTCTTTAATTTT
1 GTGTTGTCCTGATCGATTCTTTATTTCTCGACTTACGGTGTTATCCTAGTCGATTATTTAATTTT
*
10096915 GACTCACA
66 GACTCACG
* * * * * ** * * *
10096923 GTGTTGTCCTGGTCGATTCTTTATTTTTTGACTTACGATGTTGTTTTGGTCGATTCTTTAATTTC
1 GTGTTGTCCTGATCGATTCTTTATTTCTCGACTTACGGTGTTATCCTAGTCGATTATTTAATTTT
* *
10096988 AACTTACG
66 GACTCACG
* *
10096996 GTGTTGTCCTCG-TCTATTTTTTACTTT-TCGACTTACG
1 GTGTTGTCCT-GATCGATTCTTTA-TTTCTCGACTTACG
10097033 ATATTGTTCC
Statistics
Matches: 212, Mismatches: 42, Indels: 4
0.82 0.16 0.02
Matches are distributed among these distances:
73 208 0.98
74 4 0.02
ACGTcount: A:0.17, C:0.18, G:0.16, T:0.49
Consensus pattern (73 bp):
GTGTTGTCCTGATCGATTCTTTATTTCTCGACTTACGGTGTTATCCTAGTCGATTATTTAATTTT
GACTCACG
Found at i:10096818 original size:37 final size:36
Alignment explanation
Indices: 10096704--10097064 Score: 250
Period size: 37 Copynumber: 9.9 Consensus size: 36
10096694 TTGATTCTAA
* * *
10096704 GTGTTGTCTTGATCGATTCTTTATTTTTCGACTTGCA
1 GTGTTGTCCTGATCGATTCTTTA-TTTTCGACTTACG
* * * * * * **
10096741 ATATTATCCT-AGTTGATTATTTAATTTT-AACTCGCG
1 GTGTTGTCCTGA-TCGATTCTTT-ATTTTCGACTTACG
* *
10096777 GTGTTATCCTGATCAATTCTTTATTTCTCGACTTACG
1 GTGTTGTCCTGATCGATTCTTTATTT-TCGACTTACG
* * * *
10096814 GTGTTATCTTAATCGATTTTTTAATTTT-GACTTACG
1 GTGTTGTCCTGATCGATTCTTT-ATTTTCGACTTACG
* *
10096850 GTGTTGTCCCGATCGATTCTTTATTTCTCAACTTACG
1 GTGTTGTCCTGATCGATTCTTTATTT-TCGACTTACG
* *
10096887 GTGTTGTCCTTG-TCGATTCTTTAATTTT-GACTCACA
1 GTGTTGTCC-TGATCGATTCTTT-ATTTTCGACTTACG
* *
10096923 GTGTTGTCCTGGTCGATTCTTTATTTTTTGACTTACG
1 GTGTTGTCCTGATCGATTCTTTA-TTTTCGACTTACG
* ** * * *
10096960 ATGTTGTTTTGGTCGATTCTTTAATTTCAACTTACG
1 GTGTTGTCCTGATCGATTCTTTATTTTCGACTTACG
* *
10096996 GTGTTGTCCTCG-TCTATTTTTTACTTTTCGACTTACG
1 GTGTTGTCCT-GATCGATTCTTTA-TTTTCGACTTACG
* * * *
10097033 ATATTGTTCC-AATCAATTCTTTATTTTCGACT
1 GTGTTG-TCCTGATCGATTCTTTATTTTCGACT
10097065 CGTGGTGTTA
Statistics
Matches: 256, Mismatches: 51, Indels: 35
0.75 0.15 0.10
Matches are distributed among these distances:
35 11 0.04
36 111 0.43
37 121 0.47
38 13 0.05
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.49
Consensus pattern (36 bp):
GTGTTGTCCTGATCGATTCTTTATTTTCGACTTACG
Found at i:10097052 original size:73 final size:72
Alignment explanation
Indices: 10096775--10097064 Score: 246
Period size: 73 Copynumber: 4.0 Consensus size: 72
10096765 TTTTAACTCG
* * * * * *
10096775 CGGTGTTATCCT-GATCAATTCTTTATTTCTCGACTTACGGTGTT-ATCTTAATCGATTTTTTAA
1 CGGTGTTGTCCTCG-TCGATTCTTTATTT-TCGACTTACGATGTTGTTC-CAATCGATTCTTTAA
*
10096838 TTTTGACTTA
63 TTTCGACTTA
* * **
10096848 CGGTGTTGTCC-CGATCGATTCTTTATTTCTCAACTTACGGTGTTG-TCCTTGTCGATTCTTTAA
1 CGGTGTTGTCCTCG-TCGATTCTTTATTT-TCGACTTACGATGTTGTTCC-AATCGATTCTTTAA
* *
10096911 TTTTGACTCA
63 TTTCGACTTA
* * * ****
10096921 CAGTGTTGTCCTGGTCGATTCTTTATTTTTTGACTTACGATGTTGTTTTGGTCGATTCTTTAATT
1 CGGTGTTGTCCTCGTCGATTCTTTA-TTTTCGACTTACGATGTTGTTCCAATCGATTCTTTAATT
*
10096986 TCAACTTA
65 TCGACTTA
* * * * *
10096994 CGGTGTTGTCCTCGTCTATTTTTTACTTTTCGACTTACGATATTGTTCCAATCAATTCTTTATTT
1 CGGTGTTGTCCTCGTCGATTCTTTA-TTTTCGACTTACGATGTTGTTCCAATCGATTCTTTAATT
10097059 TCGACT
65 TCGACT
10097065 CGTGGTGTTA
Statistics
Matches: 178, Mismatches: 33, Indels: 12
0.80 0.15 0.05
Matches are distributed among these distances:
73 173 0.97
74 5 0.03
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.49
Consensus pattern (72 bp):
CGGTGTTGTCCTCGTCGATTCTTTATTTTCGACTTACGATGTTGTTCCAATCGATTCTTTAATTT
CGACTTA
Found at i:10097052 original size:110 final size:110
Alignment explanation
Indices: 10096838--10097059 Score: 261
Period size: 110 Copynumber: 2.0 Consensus size: 110
10096828 GATTTTTTAA
* * *
10096838 TTTTGACTTACGGTGTTGTCCCGATCGATTCTTTATTTCTCAACTTACGGTGTTGTCCTTGTCGA
1 TTTTGACTTACGATGTTGTCCCGATCGATTCTTTAATTCTCAACTTACGGTGTTGTCCTCGTCGA
* ** *
10096903 TTCTTTAATTTTGACTCACAGTGTTGTCCTGGTCGATTCTTTATT
66 TTCTTTAATTTTGACTCACAGTATTGTCCTAATCAATTCTTTATT
*** * *
10096948 TTTTGACTTACGATGTTGTTTTGGTCGATTCTTTAATT-TCAACTTACGGTGTTGTCCTCGTCTA
1 TTTTGACTTACGATGTTGTCCCGATCGATTCTTTAATTCTCAACTTACGGTGTTGTCCTCGTCGA
* * *
10097012 TTTTTTACTTTTCGACTTAC-GATATTGTTCC-AATCAATTCTTTATT
66 TTCTTTAATTTT-GACTCACAG-TATTG-TCCTAATCAATTCTTTATT
10097058 TT
1 TT
10097060 CGACTCGTGG
Statistics
Matches: 94, Mismatches: 15, Indels: 6
0.82 0.13 0.05
Matches are distributed among these distances:
109 35 0.37
110 56 0.60
111 3 0.03
ACGTcount: A:0.16, C:0.18, G:0.16, T:0.50
Consensus pattern (110 bp):
TTTTGACTTACGATGTTGTCCCGATCGATTCTTTAATTCTCAACTTACGGTGTTGTCCTCGTCGA
TTCTTTAATTTTGACTCACAGTATTGTCCTAATCAATTCTTTATT
Found at i:10097073 original size:146 final size:146
Alignment explanation
Indices: 10096704--10097077 Score: 360
Period size: 146 Copynumber: 2.6 Consensus size: 146
10096694 TTGATTCTAA
** * * * * * * ** *
10096704 GTGTTGTCTTGATCGATTCTTTATTTTTCGACTTGCAATATTATCCTAGTTGATTATTTAATTTT
1 GTGTTGTCCCGATCGATTCTTTATTTCTCAACTTACGATATTGTCCTAATCAATTCTTTAATTTT
* * *
10096769 AACTCGCGGTGTTATCCTGATCAATTCTTTATTTCTCGACTTACGGTGTTATCTTAATCGATTTT
66 GACTCGCGGTGTTATCCTGATCAATTCTTTATTTCTCGACTTACGATGTTATCTTAATCGATTCT
**
10096834 TTAATTTTGACTTACG
131 TTAATTTCAACTTACG
* * ** *
10096850 GTGTTGTCCCGATCGATTCTTTATTTCTCAACTTACGGTGTTGTCCTTGTCGATTCTTTAATTTT
1 GTGTTGTCCCGATCGATTCTTTATTTCTCAACTTACGATATTGTCCTAATCAATTCTTTAATTTT
* * * * * * * * * **
10096915 GACTCACAGTGTTGTCCTGGTCGATTCTTTATTTTTTGACTTACGATGTTGTTTTGGTCGATTCT
66 GACTCGCGGTGTTATCCTGATCAATTCTTTATTTCTCGACTTACGATGTTATCTTAATCGATTCT
10096980 TTAATTTCAACTTACG
131 TTAATTTCAACTTACG
* * *
10096996 GTGTTGTCCTCG-TCTATTTTTTACTTT-TCGACTTACGATATTGTTCC-AATCAATTCTTT-AT
1 GTGTTGTCC-CGATCGATTCTTTA-TTTCTCAACTTACGATATTG-TCCTAATCAATTCTTTAAT
*
10097057 TTTCGACTCGTGGTGTTATCC
63 TTT-GACTCGCGGTGTTATCC
10097078 CAATCGTCTT
Statistics
Matches: 184, Mismatches: 40, Indels: 8
0.79 0.17 0.03
Matches are distributed among these distances:
145 5 0.03
146 171 0.93
147 8 0.04
ACGTcount: A:0.18, C:0.18, G:0.16, T:0.49
Consensus pattern (146 bp):
GTGTTGTCCCGATCGATTCTTTATTTCTCAACTTACGATATTGTCCTAATCAATTCTTTAATTTT
GACTCGCGGTGTTATCCTGATCAATTCTTTATTTCTCGACTTACGATGTTATCTTAATCGATTCT
TTAATTTCAACTTACG
Found at i:10097344 original size:14 final size:13
Alignment explanation
Indices: 10097325--10097377 Score: 65
Period size: 14 Copynumber: 4.1 Consensus size: 13
10097315 TATAATAATT
10097325 AATAAAAGCAAAAA
1 AATAAAA-CAAAAA
*
10097339 AATAAAA-ACAAA
1 AATAAAACAAAAA
10097351 AAT-AAACAAAAA
1 AATAAAACAAAAA
10097363 AATAAAAACAAAAA
1 AAT-AAAACAAAAA
10097377 A
1 A
10097378 GAACAAAAGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 3 0.09
12 14 0.41
14 17 0.50
ACGTcount: A:0.83, C:0.08, G:0.02, T:0.08
Consensus pattern (13 bp):
AATAAAACAAAAA
Found at i:10097353 original size:12 final size:12
Alignment explanation
Indices: 10097336--10097376 Score: 66
Period size: 12 Copynumber: 3.4 Consensus size: 12
10097326 ATAAAAGCAA
10097336 AAAAATAAAAAC
1 AAAAATAAAAAC
10097348 AAAAATAAACAA-
1 AAAAATAAA-AAC
10097360 AAAAATAAAAAC
1 AAAAATAAAAAC
10097372 AAAAA
1 AAAAA
10097377 AGAACAAAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
11 2 0.07
12 23 0.85
13 2 0.07
ACGTcount: A:0.85, C:0.07, G:0.00, T:0.07
Consensus pattern (12 bp):
AAAAATAAAAAC
Found at i:10097360 original size:24 final size:24
Alignment explanation
Indices: 10097333--10097385 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
10097323 TTAATAAAAG
10097333 CAAAAAAATAAAAACAAAAATA-AA
1 CAAAAAAATAAAAACAAAAA-AGAA
10097357 CAAAAAAATAAAAACAAAAAAGAA
1 CAAAAAAATAAAAACAAAAAAGAA
10097381 CAAAA
1 CAAAA
10097386 GACTGGGGTG
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
23 1 0.04
24 27 0.96
ACGTcount: A:0.83, C:0.09, G:0.02, T:0.06
Consensus pattern (24 bp):
CAAAAAAATAAAAACAAAAAAGAA
Found at i:10098725 original size:3 final size:3
Alignment explanation
Indices: 10098717--10098744 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
10098707 TACAAAAAGG
10098717 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10098745 ATTTTCATAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10098908 original size:29 final size:28
Alignment explanation
Indices: 10098871--10098925 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
10098861 ATAAACCCTA
*
10098871 AAATCTAAAATCAAAAAATTAGAACCAT
1 AAATCTAAAATCAAAAAATTAAAACCAT
*
10098899 AAATCTTAAAATCCAAAAATTAAAACC
1 AAATC-TAAAATCAAAAAATTAAAACC
10098926 CTCAAAATGC
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.60, C:0.16, G:0.02, T:0.22
Consensus pattern (28 bp):
AAATCTAAAATCAAAAAATTAAAACCAT
Found at i:10098970 original size:29 final size:29
Alignment explanation
Indices: 10098921--10099200 Score: 211
Period size: 29 Copynumber: 9.8 Consensus size: 29
10098911 CCAAAAATTA
*
10098921 AAACCCTCAAAATGCC--AAATTAAACCCT
1 AAACCCTCCAAAT-CCTAAAATTAAACCCT
*
10098949 AAACCCTCAAAATGCC-AAAATTAAACCCT
1 AAACCCTCCAAAT-CCTAAAATTAAACCCT
*
10098978 AAACCCTCCAAA-CCTTAAAATAAAACCCT
1 AAACCCTCCAAATCC-TAAAATTAAACCCT
* *
10099007 AAACCCTCCAAATCCTAAAACTAAACCTT
1 AAACCCTCCAAATCCTAAAATTAAACCCT
* * **
10099036 AAACCCTCCAAACCCAAAAACAAAACCCT
1 AAACCCTCCAAATCCTAAAATTAAACCCT
* * *
10099065 AAACCTTCCAAA-CCTCAAAATCGAAACCCC
1 AAACCCTCCAAATCCT-AAAAT-TAAACCCT
* * * *
10099095 AAA-CCT-TAAATCTTGAAATCAAAACCCT
1 AAACCCTCCAAATCCTAAAAT-TAAACCCT
*
10099123 AAA-CCTCCAAACCCTAAAATTAAACCCT
1 AAACCCTCCAAATCCTAAAATTAAACCCT
* * *
10099151 -AATCC-CCAAACCCTAAAATCAAAACCCT
1 AAACCCTCCAAATCCTAAAAT-TAAACCCT
** * *
10099179 AAACTTTTCAAACCCTAAAATT
1 AAACCCTCCAAATCCTAAAATT
10099201 CAAGCCTTAA
Statistics
Matches: 209, Mismatches: 31, Indels: 23
0.79 0.12 0.09
Matches are distributed among these distances:
27 18 0.09
28 54 0.26
29 113 0.54
30 24 0.11
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.18
Consensus pattern (29 bp):
AAACCCTCCAAATCCTAAAATTAAACCCT
Found at i:10099007 original size:58 final size:58
Alignment explanation
Indices: 10098937--10099200 Score: 254
Period size: 58 Copynumber: 4.6 Consensus size: 58
10098927 TCAAAATGCC
* * * *
10098937 AAATTAAACCCTAAACCCTCAAAATGCC-AAAATTAAACCCTAAACCCTCCAAACCTTA
1 AAATAAAACCCTAAACCCTCCAAA-CCCTAAAATTAAACCCTAAACCCTCCAAACCCTA
* * * *
10098995 AAATAAAACCCTAAACCCTCCAAATCCTAAAACTAAACCTTAAACCCTCCAAACCCAA
1 AAATAAAACCCTAAACCCTCCAAACCCTAAAATTAAACCCTAAACCCTCCAAACCCTA
* * * * * * * *
10099053 AAACAAAACCCTAAACCTTCCAAA-CCTCAAAATCGAAACCCCAAA-CCT-TAAATCTTG
1 AAATAAAACCCTAAACCCTCCAAACCCT-AAAAT-TAAACCCTAAACCCTCCAAACCCTA
*
10099110 AAATCAAAACCCTAAA-CCTCCAAACCCTAAAATTAAACCCT-AATCC-CCAAACCCTA
1 AAAT-AAAACCCTAAACCCTCCAAACCCTAAAATTAAACCCTAAACCCTCCAAACCCTA
** *
10099166 AAATCAAAACCCTAAACTTTTCAAACCCTAAAATT
1 AAAT-AAAACCCTAAACCCTCCAAACCCTAAAATT
10099201 CAAGCCTTAA
Statistics
Matches: 169, Mismatches: 29, Indels: 17
0.79 0.13 0.08
Matches are distributed among these distances:
55 2 0.01
56 29 0.17
57 39 0.23
58 91 0.54
59 8 0.05
ACGTcount: A:0.47, C:0.34, G:0.01, T:0.18
Consensus pattern (58 bp):
AAATAAAACCCTAAACCCTCCAAACCCTAAAATTAAACCCTAAACCCTCCAAACCCTA
Found at i:10099039 original size:87 final size:88
Alignment explanation
Indices: 10098941--10099182 Score: 273
Period size: 87 Copynumber: 2.8 Consensus size: 88
10098931 AATGCCAAAT
* *
10098941 TAAACCCTAAACCCTCAAAATGCC-AAAATTAAACCCTAAACCCTCCAAACCTTAAAAT-AAAAC
1 TAAACCCTAAACCCTCCAAA-CCCAAAAATTAAACCCTAAACCCTCCAAACCTTAAAATCAAAAC
10099004 CCTAAACCCTCCAAATCCT-AAAAC
65 CCTAAACCCT-CAAATCCTGAAAAC
* ** * * *
10099028 TAAACCTTAAACCCTCCAAACCCAAAAACAAAACCCTAAACCTTCCAAACCTCAAAATCGAAACC
1 TAAACCCTAAACCCTCCAAACCCAAAAATTAAACCCTAAACCCTCCAAACCTTAAAATCAAAACC
* * * *
10099093 CCAAA-CCTTAAATCTTGAAATC
66 CTAAACCCTCAAATCCTGAAAAC
* * * *
10099115 AAAACCCTAAA-CCTCCAAACCCTAAAATTAAACCCT-AATCC-CCAAACCCTAAAATCAAAACC
1 TAAACCCTAAACCCTCCAAACCCAAAAATTAAACCCTAAACCCTCCAAACCTTAAAATCAAAACC
10099177 CTAAAC
66 CTAAAC
10099183 TTTTCAAACC
Statistics
Matches: 128, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
84 22 0.17
85 3 0.02
86 30 0.23
87 64 0.50
88 9 0.07
ACGTcount: A:0.47, C:0.35, G:0.01, T:0.17
Consensus pattern (88 bp):
TAAACCCTAAACCCTCCAAACCCAAAAATTAAACCCTAAACCCTCCAAACCTTAAAATCAAAACC
CTAAACCCTCAAATCCTGAAAAC
Found at i:10099175 original size:14 final size:14
Alignment explanation
Indices: 10099110--10099181 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 14
10099100 TTAAATCTTG
10099110 AAATCAAAACCCTA
1 AAATCAAAACCCTA
* *
10099124 AACCTCCAAACCCTA
1 AA-ATCAAAACCCTA
*
10099139 AAAT-TAAACCCTA
1 AAATCAAAACCCTA
*** *
10099152 ATCCCCAAACCCTA
1 AAATCAAAACCCTA
10099166 AAATCAAAACCCTA
1 AAATCAAAACCCTA
10099180 AA
1 AA
10099182 CTTTTCAAAC
Statistics
Matches: 44, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
13 9 0.20
14 23 0.52
15 12 0.27
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
AAATCAAAACCCTA
Found at i:10100014 original size:16 final size:17
Alignment explanation
Indices: 10099974--10100015 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
10099964 TACCTCAATA
10099974 TTTTTAAATAAAAAATT
1 TTTTTAAATAAAAAATT
** *
10099991 TTCGTAAA-AAAATATT
1 TTTTTAAATAAAAAATT
10100007 TTTTTAAAT
1 TTTTTAAAT
10100016 GAAGGGAACT
Statistics
Matches: 19, Mismatches: 5, Indels: 2
0.73 0.19 0.08
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
TTTTTAAATAAAAAATT
Found at i:10102669 original size:35 final size:35
Alignment explanation
Indices: 10102630--10102697 Score: 100
Period size: 35 Copynumber: 1.9 Consensus size: 35
10102620 TGTTGTATGG
* * *
10102630 GTGCATATGGGTATGTGTTTGATTGTGTTGAAAGA
1 GTGCACATGGATATGTGTTTGATTGAGTTGAAAGA
*
10102665 GTGCACATGGATATGTGTTTGTTTGAGTTGAAA
1 GTGCACATGGATATGTGTTTGATTGAGTTGAAA
10102698 ATACTTCATA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 29 1.00
ACGTcount: A:0.24, C:0.04, G:0.32, T:0.40
Consensus pattern (35 bp):
GTGCACATGGATATGTGTTTGATTGAGTTGAAAGA
Found at i:10104995 original size:18 final size:18
Alignment explanation
Indices: 10104972--10105012 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
10104962 TAAAAATAAT
* *
10104972 AAATAAATAAATAAAGTA
1 AAATAAAAAAATAAAATA
10104990 AAATAAAAAAATAAAATA
1 AAATAAAAAAATAAAATA
10105008 AAATA
1 AAATA
10105013 TTTTAGGACA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (18 bp):
AAATAAAAAAATAAAATA
Found at i:10105006 original size:13 final size:13
Alignment explanation
Indices: 10104972--10105010 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
10104962 TAAAAATAAT
10104972 AAAT-AAATAAATA
1 AAATAAAATAAA-A
*
10104985 AAGTAAAATAAAA
1 AAATAAAATAAAA
10104998 AAATAAAATAAAA
1 AAATAAAATAAAA
10105011 TATTTTAGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
13 16 0.70
14 7 0.30
ACGTcount: A:0.79, C:0.00, G:0.03, T:0.18
Consensus pattern (13 bp):
AAATAAAATAAAA
Found at i:10105274 original size:20 final size:21
Alignment explanation
Indices: 10105240--10105297 Score: 82
Period size: 20 Copynumber: 2.8 Consensus size: 21
10105230 GAATATAATA
* *
10105240 ATAAAAATAAAATTAATTATT
1 ATAATAATAAAATTAAATATT
10105261 ATAATAAT-AAATTAAATATT
1 ATAATAATAAAATTAAATATT
*
10105281 ATAATTATAAAATTAAA
1 ATAATAATAAAATTAAA
10105298 ATCAGTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
20 18 0.55
21 15 0.45
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
ATAATAATAAAATTAAATATT
Found at i:10105408 original size:24 final size:24
Alignment explanation
Indices: 10105381--10105427 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
10105371 TAAAGATATT
10105381 AAATTAAAATTTAT-AAATAATAAA
1 AAATT-AAATTTATAAAATAATAAA
**
10105405 AAATTTTATTTATAAAATAATAA
1 AAATTAAATTTATAAAATAATAA
10105428 TATTTTTAAT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 6 0.30
24 14 0.70
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (24 bp):
AAATTAAATTTATAAAATAATAAA
Found at i:10105450 original size:27 final size:27
Alignment explanation
Indices: 10105390--10105478 Score: 93
Period size: 24 Copynumber: 3.6 Consensus size: 27
10105380 TAAATTAAAA
* *
10105390 TTTATAA-ATAATAA-AAAATTT-TA-
1 TTTATAATATAATAATATATTTTATAT
*
10105413 TTTATAAAATAATAATAT-TTTTA-AT
1 TTTATAATATAATAATATATTTTATAT
10105438 TTT-TAATATAATAATATATTTTATAT
1 TTTATAATATAATAATATATTTTATAT
*
10105464 TTTATTATATAATAA
1 TTTATAATATAATAA
10105479 AATTTAGTTT
Statistics
Matches: 55, Mismatches: 4, Indels: 10
0.80 0.06 0.14
Matches are distributed among these distances:
23 7 0.13
24 24 0.44
25 9 0.16
26 5 0.09
27 10 0.18
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (27 bp):
TTTATAATATAATAATATATTTTATAT
Found at i:10118499 original size:18 final size:17
Alignment explanation
Indices: 10118468--10118501 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
10118458 TTATTATTGA
*
10118468 ATTTTTATATTATATTC
1 ATTTTCATATTATATTC
10118485 ATTTTCATATCTATATT
1 ATTTTCATAT-TATATT
10118502 TAATGAATAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.29, C:0.09, G:0.00, T:0.62
Consensus pattern (17 bp):
ATTTTCATATTATATTC
Found at i:10118605 original size:6 final size:6
Alignment explanation
Indices: 10118594--10118636 Score: 50
Period size: 6 Copynumber: 6.7 Consensus size: 6
10118584 TAAAAAATAA
*
10118594 ATATTT ATATTT ATATTT TTATTT ATATCTTTT ATATTT ATAT
1 ATATTT ATATTT ATATTT ATATTT ATA---TTT ATATTT ATAT
10118637 AGTTTTTTAT
Statistics
Matches: 32, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
6 26 0.81
9 6 0.19
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (6 bp):
ATATTT
Found at i:10119659 original size:2 final size:2
Alignment explanation
Indices: 10119654--10119679 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10119644 ATTTAATCTC
10119654 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
10119680 GAAAAGAGAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10126232 original size:15 final size:17
Alignment explanation
Indices: 10126202--10126233 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
10126192 GAATTTTTTC
10126202 AATTGTACTATAAATAT
1 AATTGTACTATAAATAT
10126219 AATTGTA-T-TAAATAT
1 AATTGTACTATAAATAT
10126234 GTATAAAAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 1 0.07
17 7 0.47
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (17 bp):
AATTGTACTATAAATAT
Found at i:10132692 original size:41 final size:35
Alignment explanation
Indices: 10132647--10132726 Score: 97
Period size: 35 Copynumber: 2.1 Consensus size: 35
10132637 ATTATATATA
10132647 AAATATAAAATATATTATATTATAATTTATATTAAAATATT
1 AAATATAAAATAT-TT-T-TTAT--TTT-TATTAAAATATT
*
10132688 AAATATAAAATATTTTTTATTTTTATTAAAATTTT
1 AAATATAAAATATTTTTTATTTTTATTAAAATATT
10132723 AAAT
1 AAAT
10132727 TATATCATTT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
35 15 0.39
36 3 0.08
38 4 0.11
39 1 0.03
40 2 0.05
41 13 0.34
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (35 bp):
AAATATAAAATATTTTTTATTTTTATTAAAATATT
Found at i:10134470 original size:15 final size:15
Alignment explanation
Indices: 10134424--10134470 Score: 60
Period size: 15 Copynumber: 3.1 Consensus size: 15
10134414 GGCAAGCACA
*
10134424 TGGGGAGGGATTGGG
1 TGGGGTGGGATTGGG
*
10134439 TGGGGTGGG-GTGAGG
1 TGGGGTGGGATTG-GG
10134454 TGGGGTGGGATTGGG
1 TGGGGTGGGATTGGG
10134469 TG
1 TG
10134471 TTGTAATTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 2 0.07
15 23 0.85
16 2 0.07
ACGTcount: A:0.09, C:0.00, G:0.68, T:0.23
Consensus pattern (15 bp):
TGGGGTGGGATTGGG
Found at i:10138423 original size:18 final size:15
Alignment explanation
Indices: 10138402--10138442 Score: 55
Period size: 15 Copynumber: 2.5 Consensus size: 15
10138392 TAAGTCCAGA
10138402 TGATGGTGATGGAGATGG
1 TGATGGTGAT-G-G-TGG
10138420 TGATGGTGATGGTGG
1 TGATGGTGATGGTGG
10138435 TGATGGTG
1 TGATGGTG
10138443 GCGATTTTAG
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 11 0.48
16 1 0.04
17 1 0.04
18 10 0.43
ACGTcount: A:0.17, C:0.00, G:0.51, T:0.32
Consensus pattern (15 bp):
TGATGGTGATGGTGG
Found at i:10138442 original size:6 final size:6
Alignment explanation
Indices: 10138402--10138433 Score: 55
Period size: 6 Copynumber: 5.3 Consensus size: 6
10138392 TAAGTCCAGA
*
10138402 TGATGG TGATGG AGATGG TGATGG TGATGG TG
1 TGATGG TGATGG TGATGG TGATGG TGATGG TG
10138434 GTGATGGTGG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.50, T:0.31
Consensus pattern (6 bp):
TGATGG
Found at i:10138787 original size:21 final size:21
Alignment explanation
Indices: 10138761--10138813 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
10138751 CTCCTCATGG
* *
10138761 TTATCTACCTCTATATGGTTA
1 TTATCTACCTCCATATAGTTA
*
10138782 TTATCTACCTCCATATAGTTG
1 TTATCTACCTCCATATAGTTA
*
10138803 TTATCCACCTC
1 TTATCTACCTC
10138814 AAATGTATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.23, C:0.26, G:0.08, T:0.43
Consensus pattern (21 bp):
TTATCTACCTCCATATAGTTA
Found at i:10138835 original size:21 final size:21
Alignment explanation
Indices: 10138810--10138850 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
10138800 TTGTTATCCA
*
10138810 CCTCAAATGTATCTTTTACCT
1 CCTCAAATGTATCATTTACCT
10138831 CCTCAAATGTATCATTTACC
1 CCTCAAATGTATCATTTACC
10138851 ACAAATGTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.05, T:0.39
Consensus pattern (21 bp):
CCTCAAATGTATCATTTACCT
Found at i:10142422 original size:304 final size:304
Alignment explanation
Indices: 10141826--10142430 Score: 854
Period size: 304 Copynumber: 2.0 Consensus size: 304
10141816 CAAAAAGCCT
* *
10141826 TTAATATTTCAAATGATAAATTTTATGGTCAGATTATTGAAGGTGGTTATATCTAAAAACGCCTT
1 TTAATATTTCAAACGATAAATTTTATGGTCAGATTATTGAAGGTGATTATATCTAAAAACGCCTT
*
10141891 CAATAACATTTTGTTAGGGATTATTCAAGACATTACCCATAGAAAAACACCCTTCATAATCCATT
66 CAATAACATTTTGTTAAGGATTATTCAAGACATTACCCATAGAAAAACACCCTTCATAATCCATT
* * * **
10141956 TGATTAATTTTTAGTTGGTATTATTGAAGGCATTTTTTGTAAAACGCCTTCAATAATTTATACAA
131 CGATTAATTTTGAGTTGGTATTATTGAAGGCATTTTTTGTAAAACACCTTCAATAATCCATACAA
* * *
10142021 AAAAGACGCGACGAATTCTTGAAGGCATTTTTTGCCCAAAACACCTTTAATATTTCATATAATAA
196 AAAAGACGCGACGAATTCTTGAAAGCATTTTTTGCCCAAAACACCTTTAATATTTCACACAATAA
*
10142086 ATTTTTGGTGGGATTATTGAAAGCGATTTTGGTAAAAAACGTCA
261 ATTTTTGGTGGAATTATTGAAAGCGATTTTGGTAAAAAACGTCA
* * * *
10142130 TTAATATTTCATACGATAAATTTTAATGGTCAGATTATTGAAGGTGATTATATCTAGAAATGTCT
1 TTAATATTTCAAACGATAAATTTT-ATGGTCAGATTATTGAAGGTGATTATATCTAAAAACGCCT
* * ** * *
10142195 TCAATAACATTTTGTTAAGGATTATTCAAGGCGTTACCTGTAGGAAAACGCCCTTCATAATCCAT
65 TCAATAACATTTTGTTAAGGATTATTCAAGACATTACCCATAGAAAAACACCCTTCATAATCCAT
*
10142260 TCGATTAATTTTGAGTTGGTATTATTGAAGGTATTTTTT-TAAAACACCTTCAATAATCCATACA
130 TCGATTAATTTTGAGTTGGTATTATTGAAGGCATTTTTTGTAAAACACCTTCAATAATCCATACA
** * * * * * *
10142324 AAAAAGGTGTGACGGATTCTTGAAAGCGTTTTTTTCCCAAAATACCTTTAATATTTCACACAATT
195 AAAAAGACGCGACGAATTCTTGAAAGCATTTTTTGCCCAAAACACCTTTAATATTTCACACAATA
* * * * *
10142389 GATTTTT-GTGATAATTATTGAAGGCGGTTTTGGTTAAAAACG
260 AATTTTTGGTG-GAATTATTGAAAGCGATTTTGGTAAAAAACG
10142431 CCTTCAAAAT
Statistics
Matches: 263, Mismatches: 36, Indels: 4
0.87 0.12 0.01
Matches are distributed among these distances:
303 3 0.01
304 130 0.49
305 130 0.49
ACGTcount: A:0.34, C:0.13, G:0.15, T:0.37
Consensus pattern (304 bp):
TTAATATTTCAAACGATAAATTTTATGGTCAGATTATTGAAGGTGATTATATCTAAAAACGCCTT
CAATAACATTTTGTTAAGGATTATTCAAGACATTACCCATAGAAAAACACCCTTCATAATCCATT
CGATTAATTTTGAGTTGGTATTATTGAAGGCATTTTTTGTAAAACACCTTCAATAATCCATACAA
AAAAGACGCGACGAATTCTTGAAAGCATTTTTTGCCCAAAACACCTTTAATATTTCACACAATAA
ATTTTTGGTGGAATTATTGAAAGCGATTTTGGTAAAAAACGTCA
Found at i:10147255 original size:166 final size:165
Alignment explanation
Indices: 10146972--10147412 Score: 609
Period size: 166 Copynumber: 2.7 Consensus size: 165
10146962 TTAAAGGTGT
* * * *
10146972 TTTTCTTGAATATACGACTTCAATT-ACCATGTTAAAATTTGTGTTGC-TGTATATTGAAGGCAT
1 TTTTCTTGAATATACGCCTT-TATTAACCATGTTAATATTTGTG-TGCGT-TATATTGAAGGTAT
* * * *
10147035 TTTATAGTAGAAGACACCTTTAATAATCCTAACAAATTTTAGAAGGCATTTATTATCAAGAAATG
63 TTTATAATAGAAGACACCTTTAATAATCCCAACAAAATTTAGAAAGCATTTATTATCAAGAAATG
*
10147100 CCTTCAATATTTATGTAGATAATTTATAATAAAAGTTG
128 CCTTCAATATTTATGTAGATAATTTATAATAAAAGATG
* * *
10147138 TTTTCTTAAATATACGCCTTTATTAACCGTGTTAATATTTGTGTGACGTTATATTAAAGGTATTT
1 TTTTCTTGAATATACGCCTTTATTAACCATGTTAATATTTGTGTG-CGTTATATTGAAGGTATTT
* *
10147203 TATAATAGAAGACGCCTTTAATAATCCCAACAAAATTTAGAAAGCGTTTATTATCAAGAAATGCC
65 TATAATAGAAGACACCTTTAATAATCCCAACAAAATTTAGAAAGCATTTATTATCAAGAAATGCC
*
10147268 TTTAATATTTATGTAGATAATTTATAATAAAAGATG
130 TTCAATATTTATGTAGATAATTTATAATAAAAGATG
* * *
10147304 TTTTCTTGAATATACACATTTATTAACCATGTTAATATTTGTATGGCGTTATATTGAAGGTATTT
1 TTTTCTTGAATATACGCCTTTATTAACCATGTTAATATTTGTGT-GCGTTATATTGAAGGTATTT
* * * *
10147369 TATAATAGAAGATACTTTTATTAATTCCAAC-AAATTCTAGAAAG
65 TATAATAGAAGACACCTTTAATAATCCCAACAAAATT-TAGAAAG
10147413 AAATTATTGA
Statistics
Matches: 244, Mismatches: 26, Indels: 10
0.87 0.09 0.04
Matches are distributed among these distances:
165 10 0.04
166 232 0.95
167 2 0.01
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.40
Consensus pattern (165 bp):
TTTTCTTGAATATACGCCTTTATTAACCATGTTAATATTTGTGTGCGTTATATTGAAGGTATTTT
ATAATAGAAGACACCTTTAATAATCCCAACAAAATTTAGAAAGCATTTATTATCAAGAAATGCCT
TCAATATTTATGTAGATAATTTATAATAAAAGATG
Found at i:10156056 original size:133 final size:134
Alignment explanation
Indices: 10155776--10156107 Score: 362
Period size: 133 Copynumber: 2.5 Consensus size: 134
10155766 TTTTTTATAT
* * * *** *
10155776 AAACACCACCAAAGCAATGGCATTTTTCTCATAAAAACGTCACTAAATTAGCAGCGTCTCAAAGA
1 AAACACCACCAAAGCAACGACATTTGTCTCATAAAAATACCACTAAATTAGCAGCATCTCAAAGA
* * * * *
10155841 TACAAATGCCGTTAATATAGAGGCATTTTCATATACAAATGTCTTTAAAGTAACGGTGTTTTTAA
66 TACAAACGCCGTTAATATAGAGGCATTTTCATATACAAATGACTCTAAAATAACGATGTTTTTAA
10155906 TTAC
131 TTAC
* * * ** * *
10155910 AAATACCATCAAAGTAACGATGTTTGTCTCATAAAAATACCACTAAATTA-TAGCATCTCAAAGG
1 AAACACCACCAAAGCAACGACATTTGTCTCATAAAAATACCACTAAATTAGCAGCATCTCAAAGA
* **
10155974 TACAAACGCTGTTAATATAGAGGC-TTTTGCATATACAAATGACTCTAAAATAGTGATGTTTTTA
66 TACAAACGCCGTTAATATAGAGGCATTTT-CATATACAAATGACTCTAAAATAACGATGTTTTTA
*
10156038 GTTAC
130 ATTAC
* * * * * * * *
10156043 AAACGCCACCAAAGCAACGACATTTTTATCATAAAAATGCAACTTATTTAGCAGCATTTCAAAGA
1 AAACACCACCAAAGCAACGACATTTGTCTCATAAAAATACCACTAAATTAGCAGCATCTCAAAGA
10156108 GAGAAACGTT
Statistics
Matches: 158, Mismatches: 38, Indels: 4
0.79 0.19 0.02
Matches are distributed among these distances:
132 4 0.03
133 104 0.66
134 50 0.32
ACGTcount: A:0.39, C:0.18, G:0.13, T:0.30
Consensus pattern (134 bp):
AAACACCACCAAAGCAACGACATTTGTCTCATAAAAATACCACTAAATTAGCAGCATCTCAAAGA
TACAAACGCCGTTAATATAGAGGCATTTTCATATACAAATGACTCTAAAATAACGATGTTTTTAA
TTAC
Found at i:10158107 original size:145 final size:144
Alignment explanation
Indices: 10157896--10158295 Score: 432
Period size: 145 Copynumber: 2.8 Consensus size: 144
10157886 AGTAGAATAT
* * *
10157896 ATTTTTAAAAAATTAAGATTAAATT--AAAATTCAAACAAAGCAATT-GTATTAATTTATAATAT
1 ATTTTTAAAAAA-TAAAATTAAATTAAAAAATTC-AACAAAGAAATTAAT-TTAATTTATAATAT
* * *
10157958 TAAAAATCATTAGTATTTA-ATTTTATTATAGTATGATTTTTTTTAG-AAAA-ATATCTATTTGC
63 TAAAAACCATTAGCATTTATATTTTATTATAGTATGA--TTTATTAGTAAAATATATCTATTTG-
10158020 CTTTTG-AAAA-AAAAAAGAG
125 -TTTTGTAAAATAAAAAAGAG
* * *
10158039 TTTTTTAAAAAAGTAAAATTAAATTAAAAAATTGCAACAAAGTAATTAATTTCATTTATAATATT
1 ATTTTTAAAAAA-TAAAATTAAATTAAAAAATT-CAACAAAGAAATTAATTTAATTTATAATATT
* * *
10158104 AAAAACCATTAGCATTTATTTTTTATTATAGTATGATTTATTAGTAAAATATATTTTTTTGTTTT
64 AAAAACCATTAGCATTTATATTTTATTATAGTATGATTTATTAGTAAAATATATCTATTTGTTTT
* *
10158169 GTAAAATAGAAAATAG
129 GTAAAATAAAAAAGAG
* *
10158185 ATTTTT-AAAAATAAAGATTAAA-TAAAAATTTTCAACAAAGAAATTAATTTAATTTATAATATC
1 ATTTTTAAAAAATAAA-ATTAAATTAAAAA-ATTCAACAAAGAAATTAATTTAATTTATAATATT
* * *
10158248 AAAAGCCA-TAGCATTTATATTTT-TTA-A-TATAAATTATTAGTAAAATAT
64 AAAAACCATTAGCATTTATATTTTATTATAGTATGATTTATTAGTAAAATAT
10158296 TTTTCTTTTT
Statistics
Matches: 223, Mismatches: 23, Indels: 25
0.82 0.08 0.09
Matches are distributed among these distances:
140 19 0.09
141 1 0.00
142 3 0.01
143 36 0.16
144 57 0.26
145 68 0.30
146 39 0.17
ACGTcount: A:0.47, C:0.05, G:0.07, T:0.42
Consensus pattern (144 bp):
ATTTTTAAAAAATAAAATTAAATTAAAAAATTCAACAAAGAAATTAATTTAATTTATAATATTAA
AAACCATTAGCATTTATATTTTATTATAGTATGATTTATTAGTAAAATATATCTATTTGTTTTGT
AAAATAAAAAAGAG
Done.