Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D13
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: 64892201
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1760000 characters in sequence are not A, C, G, or T
File 73 of 221
Found at i:21179272 original size:19 final size:20
Alignment explanation
Indices: 21179248--21179297 Score: 63
Period size: 18 Copynumber: 2.7 Consensus size: 20
21179238 TGATAAACTT
*
21179248 TCTTTATATATTTTT-AGAA
1 TCTTTATATATTTTTGAAAA
21179267 TCTTTA-ATATTTTTGAAAA
1 TCTTTATATATTTTTGAAAA
21179286 T-TTTATA-ATTTT
1 TCTTTATATATTTT
21179298 ACATATAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
18 17 0.61
19 11 0.39
ACGTcount: A:0.32, C:0.04, G:0.04, T:0.60
Consensus pattern (20 bp):
TCTTTATATATTTTTGAAAA
Found at i:21181861 original size:21 final size:20
Alignment explanation
Indices: 21181847--21181902 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 20
21181837 TTGAGGATTG
21181847 AAAATTGGAAATTGAAAATT
1 AAAATTGGAAATTGAAAATT
*
21181867 AAAATTTGGAGATTGAAAATAT
1 AAAA-TTGGAAATTGAAAAT-T
*
21181889 AAAATTGAAAATTG
1 AAAATTGGAAATTG
21181903 GGGATTGAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
20 4 0.13
21 22 0.71
22 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.16, T:0.30
Consensus pattern (20 bp):
AAAATTGGAAATTGAAAATT
Found at i:21181886 original size:28 final size:28
Alignment explanation
Indices: 21181850--21181922 Score: 78
Period size: 28 Copynumber: 2.6 Consensus size: 28
21181840 AGGATTGAAA
*
21181850 ATTGGAAATTGAAAATT-AAAATTTGGAG
1 ATTGAAAATTGAAAATTGAAAA-TTGGAG
*
21181878 ATTGAAAATAT-AAAATTGAAAATTGGGG
1 ATTGAAAAT-TGAAAATTGAAAATTGGAG
* *
21181906 ATTGAAGATTGAGAATT
1 ATTGAAAATTGAAAATT
21181923 TAGGAAGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
27 1 0.03
28 32 0.84
29 5 0.13
ACGTcount: A:0.47, C:0.00, G:0.22, T:0.32
Consensus pattern (28 bp):
ATTGAAAATTGAAAATTGAAAATTGGAG
Found at i:21181917 original size:7 final size:7
Alignment explanation
Indices: 21181843--21181902 Score: 61
Period size: 7 Copynumber: 8.6 Consensus size: 7
21181833 AGGATTGAGG
21181843 ATTGAAA
1 ATTGAAA
*
21181850 ATTGGAA
1 ATTGAAA
21181857 ATTGAAA
1 ATTGAAA
21181864 ATT-AAA
1 ATTGAAA
* *
21181870 ATTTGGAG
1 A-TTGAAA
21181878 ATTGAAA
1 ATTGAAA
21181885 ATAT-AAA
1 AT-TGAAA
21181892 ATTGAAA
1 ATTGAAA
21181899 ATTG
1 ATTG
21181903 GGGATTGAAG
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
6 5 0.12
7 35 0.81
8 3 0.07
ACGTcount: A:0.52, C:0.00, G:0.17, T:0.32
Consensus pattern (7 bp):
ATTGAAA
Found at i:21182631 original size:12 final size:12
Alignment explanation
Indices: 21182606--21182665 Score: 61
Period size: 12 Copynumber: 5.1 Consensus size: 12
21182596 TTGAAAATTT
*
21182606 AAAATTATTCAAA
1 AAAATTA-TAAAA
*
21182619 AAAATCAT--AA
1 AAAATTATAAAA
*
21182629 AAAATTGTAAAA
1 AAAATTATAAAA
21182641 AAAATTATAAAA
1 AAAATTATAAAA
*
21182653 AAAGTTATAAAA
1 AAAATTATAAAA
21182665 A
1 A
21182666 TTTAAAATTA
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
10 8 0.20
12 26 0.65
13 6 0.15
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.25
Consensus pattern (12 bp):
AAAATTATAAAA
Found at i:21182664 original size:22 final size:23
Alignment explanation
Indices: 21182616--21182672 Score: 59
Period size: 22 Copynumber: 2.7 Consensus size: 23
21182606 AAAATTATTC
* *
21182616 AAAAAAATCAT-AAAAAATTGTA
1 AAAAAAATTATAAAAAAAGTGTA
21182638 AAAAAAATTATAAAAAAAGT-T-
1 AAAAAAATTATAAAAAAAGTGTA
*
21182659 ATAAAAATT-TAAAA
1 AAAAAAATTATAAAA
21182673 TTATAAAATT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
20 5 0.16
21 8 0.26
22 11 0.35
23 7 0.23
ACGTcount: A:0.70, C:0.02, G:0.04, T:0.25
Consensus pattern (23 bp):
AAAAAAATTATAAAAAAAGTGTA
Found at i:21183593 original size:30 final size:29
Alignment explanation
Indices: 21183559--21183615 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
21183549 GTCCTAAATA
21183559 ATATTATTTTAGAATTTTTAA-ATTTTTTAT
1 ATATTA-TTTA-AATTTTTAATATTTTTTAT
*
21183589 ATATTATTTACATTTTTAATATTTTTT
1 ATATTATTTAAATTTTTAATATTTTTT
21183616 TAAAATATAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 8 0.32
29 11 0.44
30 6 0.24
ACGTcount: A:0.32, C:0.02, G:0.02, T:0.65
Consensus pattern (29 bp):
ATATTATTTAAATTTTTAATATTTTTTAT
Found at i:21184512 original size:4 final size:4
Alignment explanation
Indices: 21184505--21184530 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
21184495 GTTTGAATTT
21184505 TTAA TTAA TTAA TTAA TTAA TTAA TT
1 TTAA TTAA TTAA TTAA TTAA TTAA TT
21184531 TTTATTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (4 bp):
TTAA
Found at i:21184543 original size:47 final size:47
Alignment explanation
Indices: 21184485--21184589 Score: 115
Period size: 47 Copynumber: 2.2 Consensus size: 47
21184475 GAAATTGTTA
* * *
21184485 TATTTAATTTGTTTGAATTTTTAATTAATTAATTAATT-AATTAATTTT
1 TATTTAATTTGTTTGAATTATAAATAAATT--TTAATTAAATTAATTTT
* *
21184533 TATTT-ATTTGTTTTAATTATAAATAAATTTTATTTAAAATTAATTTT
1 TATTTAATTTGTTTGAATTATAAATAAATTTTAATT-AAATTAATTTT
*
21184580 TATTTGATTT
1 TATTTAATTT
21184590 TATATTGTTT
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
45 5 0.10
47 35 0.71
48 9 0.18
ACGTcount: A:0.35, C:0.00, G:0.04, T:0.61
Consensus pattern (47 bp):
TATTTAATTTGTTTGAATTATAAATAAATTTTAATTAAATTAATTTT
Found at i:21184577 original size:16 final size:18
Alignment explanation
Indices: 21184543--21184584 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
21184533 TATTTATTTG
*
21184543 TTTTAATTATAAATAAA-
1 TTTTATTTATAAATAAAT
*
21184560 TTTTATTTA-AAATTAAT
1 TTTTATTTATAAATAAAT
21184577 TTTTATTT
1 TTTTATTT
21184585 GATTTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
16 6 0.27
17 16 0.73
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTTATTTATAAATAAAT
Found at i:21185288 original size:16 final size:17
Alignment explanation
Indices: 21185259--21185291 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21185249 AAATGTTTTT
21185259 TAAAAAATTATTTAATA
1 TAAAAAATTATTTAATA
*
21185276 TAAAATATT-TTTAATA
1 TAAAAAATTATTTAATA
21185292 CTATAATTAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TAAAAAATTATTTAATA
Found at i:21185341 original size:25 final size:25
Alignment explanation
Indices: 21185313--21185395 Score: 77
Period size: 25 Copynumber: 3.4 Consensus size: 25
21185303 TATGTAAAAT
21185313 AAATATATAAAATTAATAATTATAA
1 AAATATATAAAATTAATAATTATAA
*
21185338 AAATCTATAAAATTAA-AATT-TAA
1 AAATATATAAAATTAATAATTATAA
21185361 TGATAATATAATAAAA-T-AT-ATTATAA
1 --A-AATAT-ATAAAATTAATAATTATAA
*
21185387 TAATATATA
1 AAATATATA
21185396 TAGTATTACA
Statistics
Matches: 49, Mismatches: 3, Indels: 15
0.73 0.04 0.22
Matches are distributed among these distances:
22 3 0.06
23 8 0.16
24 4 0.08
25 20 0.41
26 8 0.16
27 6 0.12
ACGTcount: A:0.60, C:0.01, G:0.01, T:0.37
Consensus pattern (25 bp):
AAATATATAAAATTAATAATTATAA
Found at i:21185387 original size:15 final size:15
Alignment explanation
Indices: 21185367--21185396 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21185357 TTAATGATAA
21185367 TATAATAAAATATAT
1 TATAATAAAATATAT
*
21185382 TATAATAATATATAT
1 TATAATAAAATATAT
21185397 AGTATTACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
TATAATAAAATATAT
Found at i:21185630 original size:20 final size:20
Alignment explanation
Indices: 21185567--21185630 Score: 62
Period size: 18 Copynumber: 3.4 Consensus size: 20
21185557 TAAACAATAA
*
21185567 TATATAAT-AATTAATATAT
1 TATATAATGAAATAATATAT
* *
21185586 TATGTAATGATAT-A-ATAT
1 TATATAATGAAATAATATAT
*
21185604 TACATAATGAAATAATATAT
1 TATATAATGAAATAATATAT
*
21185624 TTTATAA
1 TATATAA
21185631 GTATTAATAT
Statistics
Matches: 34, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
18 14 0.41
19 9 0.26
20 11 0.32
ACGTcount: A:0.50, C:0.02, G:0.05, T:0.44
Consensus pattern (20 bp):
TATATAATGAAATAATATAT
Found at i:21194951 original size:30 final size:31
Alignment explanation
Indices: 21194917--21194984 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
21194907 TTGCCCAAGA
** * **
21194917 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
21194947 GTAAATACAAAAAATTTGAAGGACCAATAGT
1 GTAAATACAAAAAATTTGAAGGACCAATAGT
21194978 GTAAATA
1 GTAAATA
21194985 TTTAAGGGTG
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.49, C:0.07, G:0.18, T:0.26
Consensus pattern (31 bp):
GTAAATACAAAAAATTTGAAGGACCAATAGT
Found at i:21202328 original size:22 final size:21
Alignment explanation
Indices: 21202303--21202345 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
21202293 TTTTACGAAT
21202303 AGAA-ATAGAAAAGGGAATGAGA
1 AGAATATA-AAAAGGG-ATGAGA
*
21202325 AGAATATAAAAATGGATGAGA
1 AGAATATAAAAAGGGATGAGA
21202346 GGAGAGAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
21 6 0.32
22 10 0.53
23 3 0.16
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (21 bp):
AGAATATAAAAAGGGATGAGA
Found at i:21203491 original size:12 final size:12
Alignment explanation
Indices: 21203474--21203521 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 12
21203464 GTTCACGAAC
*
21203474 AAGCTCGTTTAA
1 AAGCTCGTTTAT
*
21203486 AAGCTCATTTAT
1 AAGCTCGTTTAT
** *
21203498 TGGCTTGTTTAT
1 AAGCTCGTTTAT
21203510 AAGCTCGTTTAT
1 AAGCTCGTTTAT
21203522 TGACTCGTTT
Statistics
Matches: 27, Mismatches: 9, Indels: 0
0.75 0.25 0.00
Matches are distributed among these distances:
12 27 1.00
ACGTcount: A:0.25, C:0.15, G:0.17, T:0.44
Consensus pattern (12 bp):
AAGCTCGTTTAT
Found at i:21203513 original size:24 final size:24
Alignment explanation
Indices: 21203477--21203545 Score: 86
Period size: 24 Copynumber: 2.9 Consensus size: 24
21203467 CACGAACAAG
* *
21203477 CTCGTTTAAAAGCTCATTTATTGG
1 CTCGTTTATAAGCTCATTTATTGA
* *
21203501 CTTGTTTATAAGCTCGTTTATTGA
1 CTCGTTTATAAGCTCATTTATTGA
*
21203525 CTCGTTTATGA-CTCATTTATT
1 CTCGTTTATAAGCTCATTTATT
21203546 TATTCATGAT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
23 9 0.24
24 29 0.76
ACGTcount: A:0.22, C:0.16, G:0.14, T:0.48
Consensus pattern (24 bp):
CTCGTTTATAAGCTCATTTATTGA
Found at i:21203528 original size:12 final size:12
Alignment explanation
Indices: 21203513--21203545 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
21203503 TGTTTATAAG
21203513 CTCGTTTATTGA
1 CTCGTTTATTGA
21203525 CTCGTTTA-TGA
1 CTCGTTTATTGA
*
21203536 CTCATTTATT
1 CTCGTTTATT
21203546 TATTCATGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.18, C:0.18, G:0.12, T:0.52
Consensus pattern (12 bp):
CTCGTTTATTGA
Found at i:21203742 original size:24 final size:24
Alignment explanation
Indices: 21203715--21203760 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
21203705 TTATTAACAT
*
21203715 TGTTCGTGAACATGTTCAATTATA
1 TGTTCATGAACATGTTCAATTATA
21203739 TGTTCATGAACATGTTCAATTA
1 TGTTCATGAACATGTTCAATTA
21203761 AGTTAAATGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.30, C:0.13, G:0.15, T:0.41
Consensus pattern (24 bp):
TGTTCATGAACATGTTCAATTATA
Found at i:21208064 original size:67 final size:67
Alignment explanation
Indices: 21207956--21208387 Score: 448
Period size: 67 Copynumber: 6.5 Consensus size: 67
21207946 GCTATAATGG
** * * * *
21207956 GGTATAACATGTAAGATCATAACTCGACTAT-GATAACATAGAGAGTCCACCATGACGTTAAACA
1 GGTATAATGTGTAAGACCATAGCTCGACTATGGA-AACATAGAGAGTCCACCAGGACATTAAACA
21208020 TGT
65 TGT
* **
21208023 GGTATTATGTGTAAGACCATAGCTC-ATCTATGGAAACATAGAGAGTCTGCCAGGACATTAAACA
1 GGTATAATGTGTAAGACCATAGCTCGA-CTATGGAAACATAGAGAGTCCACCAGGACATTAAACA
21208087 TAGT
65 T-GT
* * * *
21208091 -GTATAATGTGTAAGACTATAGC-CGACTATGGCAACATAGAGAGTTCACTAGGACATTAAACAT
1 GGTATAATGTGTAAGACCATAGCTCGACTATGGAAACATAGAGAGTCCACCAGGACATTAAACAT
21208154 GT
66 GT
* * * * *
21208156 GGTATAATGTGTAAGACCATAGCGCGACTATGGTAACATAAAAAGTCCACTAGGACATTAAACAT
1 GGTATAATGTGTAAGACCATAGCTCGACTATGGAAACATAGAGAGTCCACCAGGACATTAAACAT
21208221 AG-
66 -GT
* * * * * * *
21208223 GGTATAATGTGTAAAAACATAGTTCG-CTAT-GACAACATAAAGAGTCCGCCAAGATATTAAACA
1 GGTATAATGTGTAAGACCATAGCTCGACTATGGA-AACATAGAGAGTCCACCAGGACATTAAACA
*
21208286 TAT
65 TGT
* * * * *
21208289 GGTATATTGTGTAAGACCATAGCTTGACTATGGCAACATAGAGAGTTTC-CTAGGACATTAAACA
1 GGTATAATGTGTAAGACCATAGCTCGACTATGGAAACATAGAGAG-TCCACCAGGACATTAAACA
*
21208353 TGG
65 TGT
* *
21208356 GGTATGATGTGTAAGACCACAGCTCGACTATG
1 GGTATAATGTGTAAGACCATAGCTCGACTATG
21208388 ACAGCATATA
Statistics
Matches: 304, Mismatches: 49, Indels: 24
0.81 0.13 0.06
Matches are distributed among these distances:
65 3 0.01
66 107 0.35
67 186 0.61
68 8 0.03
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (67 bp):
GGTATAATGTGTAAGACCATAGCTCGACTATGGAAACATAGAGAGTCCACCAGGACATTAAACAT
GT
Found at i:21208166 original size:133 final size:131
Alignment explanation
Indices: 21207955--21208401 Score: 475
Period size: 133 Copynumber: 3.3 Consensus size: 131
21207945 GGCTATAATG
** * * * *
21207955 GGGTATAACATGTAAGATCATAACTCGACTATGATAACATAGAGAGTCCACCATGACGTTAAACA
1 GGGTATAATGTGTAAGA-CATAGC-CGACTATGACAACATAGAGAGTCCACCAAGACATTAAACA
* *
21208020 TGTGGTATTATGTGTAAGACCATAGCTCATCTATGGAAACATAGAGAGTCTGCCAGGACATTAAA
64 TGTGGTATAATGTGTAAGACCATAGCTCA-CTATGGAAACATAGAGAGTCTACCAGGACATTAAA
21208085 CATA
128 CATA
* * * * *
21208089 GTGTATAATGTGTAAGACTATAGCCGACTATGGCAACATAGAGAGTTCACTAGGACATTAAACAT
1 GGGTATAATGTGTAAGAC-ATAGCCGACTATGACAACATAGAGAGTCCACCAAGACATTAAACAT
* * * * * *
21208154 GTGGTATAATGTGTAAGACCATAGCGCGACTATGGTAACATAAAAAGTCCACTAGGACATTAAAC
65 GTGGTATAATGTGTAAGACCATAGCTC-ACTATGGAAACATAGAGAGTCTACCAGGACATTAAAC
21208219 ATA
129 ATA
* * * * *
21208222 GGGTATAATGTGTAAAAACATAGTTCG-CTATGACAACATAAAGAGTCCGCCAAGATATTAAACA
1 GGGTATAATGTGT-AAGACATAG-CCGACTATGACAACATAGAGAGTCCACCAAGACATTAAACA
* * * * *
21208286 TATGGTATATTGTGTAAGACCATAGCTTGACTATGGCAACATAGAGAGT-TTCCTAGGACATTAA
64 TGTGGTATAATGTGTAAGACCATAGC-TCACTATGGAAACATAGAGAGTCTACC-AGGACATTAA
*
21208350 ACATG
127 ACATA
* * * *
21208355 GGGTATGATGTGTAAGACCACAGCTCGACTATGACAGCATATAGAGT
1 GGGTATAATGTGTAAGA-CATAGC-CGACTATGACAACATAGAGAGT
21208402 TTGTCGGGAT
Statistics
Matches: 259, Mismatches: 45, Indels: 18
0.80 0.14 0.06
Matches are distributed among these distances:
132 4 0.02
133 213 0.82
134 42 0.16
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (131 bp):
GGGTATAATGTGTAAGACATAGCCGACTATGACAACATAGAGAGTCCACCAAGACATTAAACATG
TGGTATAATGTGTAAGACCATAGCTCACTATGGAAACATAGAGAGTCTACCAGGACATTAAACAT
A
Found at i:21208320 original size:200 final size:200
Alignment explanation
Indices: 21207952--21208388 Score: 560
Period size: 200 Copynumber: 2.2 Consensus size: 200
21207942 ATGGGCTATA
** * * * * * *
21207952 ATGGGGTATAACATGTAAGATCATAACTCGACTATGATAACATAGAGAGTCCACCATGACGTTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGATAACATAAAAAGTCCACCAGGACATTAA
* * * * * * *
21208017 ACATGTGGTATTATGTGTAAGACCATAGCTCATCTATGGAAACATAGAGAGTCTGCCAGGACATT
66 ACATGTGGTATAATGTGTAAAAACATAGCTCAGCTATGGAAACATAAAGAGTCCGCCAAGACATT
*
21208082 AAACATAGTGTATAATGTGTAAGACTATAGCCGACTATGGCAACATAGAGAG-TTCACTAGGACA
131 AAACATAGTGTATAATGTGTAAGACCATAGCCGACTATGGCAACATAGAGAGTTTC-CTAGGACA
21208146 TTAAAC
195 TTAAAC
* * * *
21208152 ATGTGGTATAATGTGTAAGACCATAGCGCGACTATGGTAACATAAAAAGTCCACTAGGACATTAA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGATAACATAAAAAGTCCACCAGGACATTAA
* *
21208217 ACATAG-GGTATAATGTGTAAAAACATAGTTC-GCTAT-GACAACATAAAGAGTCCGCCAAGATA
66 ACAT-GTGGTATAATGTGTAAAAACATAGCTCAGCTATGGA-AACATAAAGAGTCCGCCAAGACA
* *
21208279 TTAAACATA-TGGTATATTGTGTAAGACCATAGCTTGACTATGGCAACATAGAGAGTTTCCTAGG
129 TTAAACATAGT-GTATAATGTGTAAGACCATAGC-CGACTATGGCAACATAGAGAGTTTCCTAGG
21208343 ACATTAAAC
192 ACATTAAAC
* *
21208352 ATGGGGTATGATGTGTAAGACCACAGCTCGACTATGA
1 ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGA
21208389 CAGCATATAG
Statistics
Matches: 203, Mismatches: 29, Indels: 10
0.84 0.12 0.04
Matches are distributed among these distances:
198 3 0.01
199 52 0.26
200 144 0.71
201 4 0.02
ACGTcount: A:0.37, C:0.16, G:0.21, T:0.26
Consensus pattern (200 bp):
ATGGGGTATAATGTGTAAGACCATAGCTCGACTATGATAACATAAAAAGTCCACCAGGACATTAA
ACATGTGGTATAATGTGTAAAAACATAGCTCAGCTATGGAAACATAAAGAGTCCGCCAAGACATT
AAACATAGTGTATAATGTGTAAGACCATAGCCGACTATGGCAACATAGAGAGTTTCCTAGGACAT
TAAAC
Found at i:21222500 original size:18 final size:19
Alignment explanation
Indices: 21222463--21222500 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
21222453 AAAAAACACA
21222463 AGTAAGCTTCATGAAGTTT
1 AGTAAGCTTCATGAAGTTT
21222482 AGTAAG-TTCGATG-AGTTT
1 AGTAAGCTTC-ATGAAGTTT
21222500 A
1 A
21222501 ATGATAAATC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.32, C:0.08, G:0.24, T:0.37
Consensus pattern (19 bp):
AGTAAGCTTCATGAAGTTT
Found at i:21222785 original size:21 final size:21
Alignment explanation
Indices: 21222745--21222801 Score: 73
Period size: 21 Copynumber: 2.8 Consensus size: 21
21222735 CCAAATACGT
*
21222745 AACAGAAGCTTG-AA-AGCTG
1 AACAGAAGCTCGTAAGAGCTG
21222764 AACAGAAGCTCGTAAGAGCTG
1 AACAGAAGCTCGTAAGAGCTG
* *
21222785 AACAAAAGCTCATAAGA
1 AACAGAAGCTCGTAAGA
21222802 TTTTATCCAC
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
19 11 0.33
20 2 0.06
21 20 0.61
ACGTcount: A:0.46, C:0.18, G:0.23, T:0.14
Consensus pattern (21 bp):
AACAGAAGCTCGTAAGAGCTG
Found at i:21223346 original size:17 final size:18
Alignment explanation
Indices: 21223316--21223357 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
21223306 AGTTAATTCA
*
21223316 TCAAATTAACTAATTT-TC
1 TCAAA-TAAATAATTTATC
21223334 TCAAATAAATAATTTATC
1 TCAAATAAATAATTTATC
21223352 -CAAATA
1 TCAAATA
21223358 TTCTAAGCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.48, C:0.14, G:0.00, T:0.38
Consensus pattern (18 bp):
TCAAATAAATAATTTATC
Found at i:21225806 original size:16 final size:16
Alignment explanation
Indices: 21225785--21225815 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21225775 TGTTTCATTT
*
21225785 GTATTTGTATCAATTC
1 GTATTTGGATCAATTC
21225801 GTATTTGGATCAATT
1 GTATTTGGATCAATT
21225816 TGTAGTTGTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.26, C:0.10, G:0.16, T:0.48
Consensus pattern (16 bp):
GTATTTGGATCAATTC
Found at i:21231189 original size:3 final size:3
Alignment explanation
Indices: 21231181--21231236 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
21231171 AAGAATAGTG
21231181 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
21231229 AAT AAT AA
1 AAT AAT AA
21231237 ACATCAACTA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:21233003 original size:51 final size:51
Alignment explanation
Indices: 21232941--21233072 Score: 176
Period size: 51 Copynumber: 2.6 Consensus size: 51
21232931 TGATAGGTCG
* * *
21232941 CATGTGTAGTACCATGTGCAGGCTACTATGCGTACCGGAT-AGATTCGATCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAAT-GATCA
* * * * *
21232992 CGTGTGTAGTACTATGTGCAGGCTACTACGTGTATCGGATGAAAATGGTCA
1 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGATCA
21233043 CATGTGTAGTACTATGTGCAGGCTACTATG
1 CATGTGTAGTACTATGTGCAGGCTACTATG
21233073 TGAACCGTGT
Statistics
Matches: 70, Mismatches: 10, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
51 67 0.96
52 3 0.04
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (51 bp):
CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATGAAAATGATCA
Found at i:21233074 original size:26 final size:26
Alignment explanation
Indices: 21232994--21233074 Score: 62
Period size: 26 Copynumber: 3.2 Consensus size: 26
21232984 TTCGATCACG
21232994 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
* * ***
21233020 CGTGTA-T-CGGATGAAAATGG-TCAC-A
1 TGTGTAGTAC-TATGTGCA-GGCT-ACTA
21233045 TGTGTAGTACTATGTGCAGGCTACTA
1 TGTGTAGTACTATGTGCAGGCTACTA
21233071 TGTG
1 TGTG
21233075 AACCGTGTAT
Statistics
Matches: 38, Mismatches: 10, Indels: 14
0.61 0.16 0.23
Matches are distributed among these distances:
24 1 0.03
25 16 0.42
26 20 0.53
27 1 0.03
ACGTcount: A:0.25, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTATGTGCAGGCTACTA
Found at i:21239488 original size:124 final size:127
Alignment explanation
Indices: 21239267--21239564 Score: 442
Period size: 125 Copynumber: 2.4 Consensus size: 127
21239257 ACATGGACGC
* * * * * * *
21239267 GAAGAATTTGTGAAATCACGCCCTCCTGGACGCGATTTTGCTAAAGT-TGGTCTTGGAAGAAATA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAAAGTATGGTCCTGAAAAAAATA
*
21239331 ATTTCGAGTTGACGTTTCTGAGCAAATAGTAT-AAAATCGCTTCTACCAGGATGCTTTATGA
66 ATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCTACCAGGATGCTTTATGA
* * * *
21239392 GAAGAATTTGTTAAATCGTGCCCACGTGGACGCGCTTTTGCTACAGTAT-GTCCT-AAAAAAATT
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAAAGTATGGTCCTGAAAAAAATA
21239455 ATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCTACCAGGATGCTTTATGA
66 ATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCTACCAGGATGCTTTATGA
* *
21239517 GAAGAATTTGTGAAACCGCGCCCACGTGGACGCGCTTTTGCTATAGTA
1 GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAAAGTA
21239565 GCATGTTTGG
Statistics
Matches: 155, Mismatches: 16, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
124 38 0.25
125 116 0.75
126 1 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.30
Consensus pattern (127 bp):
GAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTAAAGTATGGTCCTGAAAAAAATA
ATTTCGAGTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTCTACCAGGATGCTTTATGA
Found at i:21242756 original size:60 final size:60
Alignment explanation
Indices: 21242692--21242829 Score: 258
Period size: 60 Copynumber: 2.3 Consensus size: 60
21242682 AATAGAATTC
21242692 TCAAATAATATCAAAATATTCAAAATATTTGTACAAATTAATTAAGCTCATGTTATTACA
1 TCAAATAATATCAAAATATTCAAAATATTTGTACAAATTAATTAAGCTCATGTTATTACA
*
21242752 TCAAATAATATCAAAATATTCAAAATATTTGTACAAATTAATTACGCTCATGTTATTACA
1 TCAAATAATATCAAAATATTCAAAATATTTGTACAAATTAATTAAGCTCATGTTATTACA
*
21242812 CCAAATAATATCAAAATA
1 TCAAATAATATCAAAATA
21242830 ACTCAAAAAA
Statistics
Matches: 76, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
60 76 1.00
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (60 bp):
TCAAATAATATCAAAATATTCAAAATATTTGTACAAATTAATTAAGCTCATGTTATTACA
Found at i:21242871 original size:25 final size:25
Alignment explanation
Indices: 21242842--21242889 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
21242832 TCAAAAAATT
*
21242842 TTCTATTTTATTATATAAAATAAAC
1 TTCTATTTTATTACATAAAATAAAC
*
21242867 TTCTATTTTATTACATTAAATAA
1 TTCTATTTTATTACATAAAATAA
21242890 TATCAAAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (25 bp):
TTCTATTTTATTACATAAAATAAAC
Found at i:21242878 original size:70 final size:70
Alignment explanation
Indices: 21242804--21242934 Score: 217
Period size: 70 Copynumber: 1.9 Consensus size: 70
21242794 TACGCTCATG
* * *
21242804 TTATTACACCAAATAATATCAAAATAACTCAAAAAATTTTCTATTTTATTATATAAAATAAACTT
1 TTATTACACCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTACTACATAAAATAAACTT
21242869 CTATT
66 CTATT
**
21242874 TTATTACATTAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTACTACATAAAATAA
1 TTATTACACCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTACTACATAAAATAA
21242935 TATCAAAACA
Statistics
Matches: 56, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
70 56 1.00
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (70 bp):
TTATTACACCAAATAATATCAAAATAACTCAAAAAAATTTCTATTTTACTACATAAAATAAACTT
CTATT
Found at i:21243085 original size:21 final size:21
Alignment explanation
Indices: 21243061--21243108 Score: 53
Period size: 21 Copynumber: 2.3 Consensus size: 21
21243051 TTGTCTAGCT
*
21243061 TCCGGTGGCGG-TTCTTGTTCC
1 TCCGGTGG-GGATTCTGGTTCC
* *
21243082 TCCGGCGGGGATTCTGGTTCT
1 TCCGGTGGGGATTCTGGTTCC
21243103 TCCGGT
1 TCCGGT
21243109 ACGGCATCTG
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
20 2 0.09
21 20 0.91
ACGTcount: A:0.02, C:0.27, G:0.35, T:0.35
Consensus pattern (21 bp):
TCCGGTGGGGATTCTGGTTCC
Found at i:21243386 original size:18 final size:18
Alignment explanation
Indices: 21243363--21243402 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
21243353 GACTCAGAAA
*
21243363 AGGATACACATAAGGGTT
1 AGGATACACATAAGGGCT
*
21243381 AGGATACATATAAGGGCT
1 AGGATACACATAAGGGCT
21243399 AGGA
1 AGGA
21243403 AACGCACTTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.30, T:0.20
Consensus pattern (18 bp):
AGGATACACATAAGGGCT
Found at i:21245277 original size:51 final size:51
Alignment explanation
Indices: 21245222--21245319 Score: 128
Period size: 51 Copynumber: 1.9 Consensus size: 51
21245212 AATTATTTAA
21245222 AAATAGGGATTTAAGAGAAAT-TT-AAGAAGAACTTGAGAGAAAATTGAAAGT
1 AAATAGGGATTTAAGAGAAATATTGAAG--GAACTTGAGAGAAAATTGAAAGT
* * * *
21245273 AAATATGGATTTGAGAGAAATATTGAAGGAATTTGAGAGCAAATTGA
1 AAATAGGGATTTAAGAGAAATATTGAAGGAACTTGAGAGAAAATTGA
21245320 GAGGAAATTT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
51 36 0.88
52 2 0.05
53 3 0.07
ACGTcount: A:0.48, C:0.02, G:0.24, T:0.26
Consensus pattern (51 bp):
AAATAGGGATTTAAGAGAAATATTGAAGGAACTTGAGAGAAAATTGAAAGT
Found at i:21245317 original size:12 final size:11
Alignment explanation
Indices: 21245281--21245335 Score: 60
Period size: 11 Copynumber: 4.9 Consensus size: 11
21245271 GTAAATATGG
21245281 ATTTGAGAGAA
1 ATTTGAGAGAA
*
21245292 ATATTGA-AGGA
1 AT-TTGAGAGAA
21245303 ATTTGAGAGCAA
1 ATTTGAGAG-AA
21245315 A-TTGAGAGGAA
1 ATTTGAGA-GAA
21245326 ATTTGAGAGA
1 ATTTGAGAGA
21245336 GGATTAGTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
10 4 0.11
11 20 0.54
12 13 0.35
ACGTcount: A:0.44, C:0.02, G:0.29, T:0.25
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:21245328 original size:23 final size:22
Alignment explanation
Indices: 21245281--21245335 Score: 76
Period size: 22 Copynumber: 2.5 Consensus size: 22
21245271 GTAAATATGG
21245281 ATTTGAGAGAAATATTGAAGGA
1 ATTTGAGAGAAATATTGAAGGA
*
21245303 ATTTGAGAGCAA-ATTGAGAGGAA
1 ATTTGAGAGAAATATTGA-AGG-A
21245326 ATTTGAGAGA
1 ATTTGAGAGA
21245336 GGATTAGTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 5 0.17
22 14 0.48
23 10 0.34
ACGTcount: A:0.44, C:0.02, G:0.29, T:0.25
Consensus pattern (22 bp):
ATTTGAGAGAAATATTGAAGGA
Found at i:21246135 original size:10 final size:10
Alignment explanation
Indices: 21246120--21246169 Score: 64
Period size: 10 Copynumber: 5.0 Consensus size: 10
21246110 TAAATATTAT
21246120 AAAAATATAA
1 AAAAATATAA
*
21246130 AAAAATCTAA
1 AAAAATATAA
*
21246140 CAAAATATAA
1 AAAAATATAA
* *
21246150 TAAATTATAA
1 AAAAATATAA
21246160 AAAAATATAA
1 AAAAATATAA
21246170 CATTAATAAA
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
10 33 1.00
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (10 bp):
AAAAATATAA
Found at i:21246278 original size:9 final size:10
Alignment explanation
Indices: 21246249--21246290 Score: 59
Period size: 10 Copynumber: 4.3 Consensus size: 10
21246239 ATTGTAAAAC
21246249 AAATTATTAA
1 AAATTATTAA
*
21246259 AAAATATTAA
1 AAATTATTAA
*
21246269 AATTTA-TAA
1 AAATTATTAA
21246278 AAATTATTAA
1 AAATTATTAA
21246288 AAA
1 AAA
21246291 AATTATAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
9 8 0.30
10 19 0.70
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (10 bp):
AAATTATTAA
Found at i:21246279 original size:32 final size:29
Alignment explanation
Indices: 21246217--21246300 Score: 80
Period size: 29 Copynumber: 2.8 Consensus size: 29
21246207 AAAGTATTAG
* * *
21246217 AATTCTTAAAAAGATAATAAAAATTGTAAAACA
1 AATTATTAAAAA-ATATTAAAAA-T-TATAA-A
*
21246250 AATTATTAAAAAATATTAAAATTTATAAA
1 AATTATTAAAAAATATTAAAAATTATAAA
21246279 AATTATTAAAAAA-ATTATAAAA
1 AATTATTAAAAAATATTA-AAAA
21246301 ACTTGAACTG
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
28 4 0.09
29 17 0.38
30 4 0.09
31 1 0.02
32 8 0.18
33 11 0.24
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.32
Consensus pattern (29 bp):
AATTATTAAAAAATATTAAAAATTATAAA
Found at i:21246833 original size:19 final size:19
Alignment explanation
Indices: 21246811--21246878 Score: 68
Period size: 18 Copynumber: 3.6 Consensus size: 19
21246801 AATTTATTAA
21246811 TTTTATATTTTTATAAAAT
1 TTTTATATTTTTATAAAAT
21246830 TTTTATA-TTTTATAAAA-
1 TTTTATATTTTTATAAAAT
** * *
21246847 AATTATATTTTTCTATAAT
1 TTTTATATTTTTATAAAAT
*
21246866 TTATTAGATTTTT
1 TT-TTATATTTTT
21246879 TTAGTTTTTT
Statistics
Matches: 39, Mismatches: 7, Indels: 5
0.76 0.14 0.10
Matches are distributed among these distances:
17 5 0.13
18 18 0.46
19 7 0.18
20 9 0.23
ACGTcount: A:0.35, C:0.01, G:0.01, T:0.62
Consensus pattern (19 bp):
TTTTATATTTTTATAAAAT
Found at i:21246869 original size:17 final size:17
Alignment explanation
Indices: 21246812--21246869 Score: 62
Period size: 17 Copynumber: 3.3 Consensus size: 17
21246802 ATTTATTAAT
21246812 TTTATATTTTTATAAAA
1 TTTATATTTTTATAAAA
*
21246829 TTTTTATATTTTATAAAAA
1 TTTATAT-TTTTAT-AAAA
* * *
21246848 ATTATATTTTTCTATAA
1 TTTATATTTTTATAAAA
21246865 TTTAT
1 TTTAT
21246870 TAGATTTTTT
Statistics
Matches: 33, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
17 13 0.39
18 11 0.33
19 9 0.27
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (17 bp):
TTTATATTTTTATAAAA
Found at i:21246907 original size:20 final size:20
Alignment explanation
Indices: 21246810--21246912 Score: 59
Period size: 21 Copynumber: 4.8 Consensus size: 20
21246800 AAATTTATTA
*
21246810 ATTTTATATTTTTATAA-A-
1 ATTTTTTATTTTTATAATAT
*
21246828 ATTTTTATATTTTATAAAAAATTAT
1 ATTTTT-TATTTT-T--ATAA-TAT
* * *
21246853 ATTTTTCTATAATTTATTAGAT
1 ATTTTT-TAT-TTTTATAATAT
21246875 -TTTTTTAGTTTTTTATAATAT
1 ATTTTTTA--TTTTTATAATAT
21246896 ATTTTTTATTTTTATAA
1 ATTTTTTATTTTTATAA
21246913 GTTTATATCT
Statistics
Matches: 64, Mismatches: 10, Indels: 20
0.68 0.11 0.21
Matches are distributed among these distances:
18 5 0.08
19 6 0.09
20 12 0.19
21 13 0.20
22 13 0.20
23 2 0.03
24 1 0.02
25 10 0.16
26 2 0.03
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.63
Consensus pattern (20 bp):
ATTTTTTATTTTTATAATAT
Found at i:21254187 original size:21 final size:20
Alignment explanation
Indices: 21254138--21254194 Score: 55
Period size: 21 Copynumber: 2.8 Consensus size: 20
21254128 ATTAAATGGA
21254138 AATTGCAAATGATATTATTTG
1 AATTG-AAATGATATTATTTG
21254159 AATT-AAATGA-ATTATTGTGG
1 AATTGAAATGATATTATT-T-G
*
21254179 TATTGAAATGTATATT
1 AATTGAAATG-ATATT
21254195 GGATTGAGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 8
0.77 0.03 0.21
Matches are distributed among these distances:
18 6 0.20
19 7 0.23
20 4 0.13
21 9 0.30
22 1 0.03
23 3 0.10
ACGTcount: A:0.39, C:0.02, G:0.16, T:0.44
Consensus pattern (20 bp):
AATTGAAATGATATTATTTG
Found at i:21256861 original size:40 final size:40
Alignment explanation
Indices: 21256802--21257013 Score: 230
Period size: 40 Copynumber: 5.3 Consensus size: 40
21256792 CATTTGAATG
* *
21256802 ATATCCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * *
21256842 TTATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAG-TGATT
* * *
21256882 ATACCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * * * * *
21256922 TTATCCGGACTCAGATCCGAAGGCATTTGTGCGAGTTACT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
* * * *
21256962 AAATCCGGGCTAAGACCTGAAGGCATTTGTGCTTGTGGTT
1 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
21257002 ATATCC-GGCTAA
1 ATATCCGGGCTAA
21257014 ATTCCGAAGA
Statistics
Matches: 137, Mismatches: 33, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
39 8 0.06
40 127 0.93
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.27, T:0.28
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCATTTGTGCTAGTGATT
Found at i:21256942 original size:80 final size:80
Alignment explanation
Indices: 21256806--21257013 Score: 292
Period size: 80 Copynumber: 2.6 Consensus size: 80
21256796 TGAATGATAT
* *
21256806 CCGGGCTAAGTCCCGAAGGCAATTGTGCTAGTGATTTTATCCGGGCTAAGACCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGACCCGAAGGCATTTG
* *
21256871 TGCGAGTTGCTATAC
66 TGCGAGTTACTAAAC
* * *
21256886 CCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTCAGATCCGAAGGCATTTG
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGACCCGAAGGCATTTG
*
21256951 TGCGAGTTACTAAAT
66 TGCGAGTTACTAAAC
* * * * *
21256966 CCGGGCTAAGACCTGAAGGCATTTGTGCTTGTGGTTATATCCGG-CTAA
1 CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAA
21257014 ATTCCGAAGA
Statistics
Matches: 113, Mismatches: 15, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
79 3 0.03
80 110 0.97
ACGTcount: A:0.24, C:0.21, G:0.28, T:0.27
Consensus pattern (80 bp):
CCGGGCTAAGACCCGAAGGCAATTGTGCTAGTGATTTTATCCGGACTAAGACCCGAAGGCATTTG
TGCGAGTTACTAAAC
Found at i:21263542 original size:25 final size:25
Alignment explanation
Indices: 21263508--21263602 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
21263498 CAGACCCATT
*
21263508 TTCATAGCTCGTGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
21263533 TTCACAGCTCGTGTGAGCATTCTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
* * *
21263558 TTCATAGCTTGTGTGAGCATTTTGA
1 TTCACAGCTCGTGTGAGCATTCTGA
21263583 TTCACAGCTCGTGTGAGCAT
1 TTCACAGCTCGTGTGAGCAT
21263603 ACATGTATAA
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (25 bp):
TTCACAGCTCGTGTGAGCATTCTGA
Found at i:21263572 original size:50 final size:50
Alignment explanation
Indices: 21263508--21263602 Score: 172
Period size: 50 Copynumber: 1.9 Consensus size: 50
21263498 CAGACCCATT
21263508 TTCATAGCTCGTGTGAGCATTCTGATTCACAGCTCGTGTGAGCATTCTGA
1 TTCATAGCTCGTGTGAGCATTCTGATTCACAGCTCGTGTGAGCATTCTGA
* *
21263558 TTCATAGCTTGTGTGAGCATTTTGATTCACAGCTCGTGTGAGCAT
1 TTCATAGCTCGTGTGAGCATTCTGATTCACAGCTCGTGTGAGCAT
21263603 ACATGTATAA
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 43 1.00
ACGTcount: A:0.20, C:0.20, G:0.24, T:0.36
Consensus pattern (50 bp):
TTCATAGCTCGTGTGAGCATTCTGATTCACAGCTCGTGTGAGCATTCTGA
Found at i:21273098 original size:20 final size:20
Alignment explanation
Indices: 21273069--21273119 Score: 57
Period size: 20 Copynumber: 2.5 Consensus size: 20
21273059 ATTTTAAAAT
* * *
21273069 CAAGTGAAAATTATTTTAAC
1 CAAGTAAAAATGATTTCAAC
*
21273089 CAAGTAAAAATGATTTCAAT
1 CAAGTAAAAATGATTTCAAC
*
21273109 CAAGTTAAAAT
1 CAAGTAAAAAT
21273120 CATCTAACAC
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.49, C:0.10, G:0.10, T:0.31
Consensus pattern (20 bp):
CAAGTAAAAATGATTTCAAC
Found at i:21287344 original size:23 final size:23
Alignment explanation
Indices: 21287313--21287361 Score: 71
Period size: 23 Copynumber: 2.1 Consensus size: 23
21287303 ACCTACTTTC
* * *
21287313 TTACTGTAGTAATTTTTGGGGTA
1 TTACAGTAGTAATTTTCGGGATA
21287336 TTACAGTAGTAATTTTCGGGATA
1 TTACAGTAGTAATTTTCGGGATA
21287359 TTA
1 TTA
21287362 TAGTTTTTCT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.27, C:0.06, G:0.22, T:0.45
Consensus pattern (23 bp):
TTACAGTAGTAATTTTCGGGATA
Found at i:21306820 original size:30 final size:29
Alignment explanation
Indices: 21306786--21306893 Score: 83
Period size: 30 Copynumber: 3.6 Consensus size: 29
21306776 TTGATTCATG
21306786 TATGGTTATACATTGTCGAATTGTTTGGTA
1 TATGGTTATACATTGTCGAATTGTTT-GTA
* ** *
21306816 TATGGATATAGGTTG-CTGAATTGATTCGTA
1 TATGGTTATACATTGTC-GAATTG-TTTGTA
* * *
21306846 TATGGTTGTACATTGTTGGAATTAATTTGTA
1 TATGGTTATACATTG-TCGAATT-GTTTGTA
* *
21306877 CATGGTTATATATTGTC
1 TATGGTTATACATTGTC
21306894 AAAATTTAAT
Statistics
Matches: 58, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
29 1 0.02
30 33 0.57
31 24 0.41
ACGTcount: A:0.25, C:0.06, G:0.23, T:0.45
Consensus pattern (29 bp):
TATGGTTATACATTGTCGAATTGTTTGTA
Found at i:21306882 original size:31 final size:31
Alignment explanation
Indices: 21306833--21306892 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
21306823 ATAGGTTGCT
* * *
21306833 GAATTGATTCGTATATGGTTGTACATTGTTG
1 GAATTAATTCGTACATGGTTATACATTGTTG
* *
21306864 GAATTAATTTGTACATGGTTATATATTGT
1 GAATTAATTCGTACATGGTTATACATTGT
21306893 CAAAATTTAA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 24 1.00
ACGTcount: A:0.27, C:0.05, G:0.22, T:0.47
Consensus pattern (31 bp):
GAATTAATTCGTACATGGTTATACATTGTTG
Found at i:21306972 original size:31 final size:30
Alignment explanation
Indices: 21306931--21307010 Score: 81
Period size: 31 Copynumber: 2.6 Consensus size: 30
21306921 ATATAGGAAG
21306931 CCGAATTTGATTTGTATATGATTATACATTA
1 CCGAA-TTGATTTGTATATGATTATACATTA
** * * *
21306962 CCGAACTTGATACGTGTATGGTTATACATTG
1 CCGAA-TTGATTTGTATATGATTATACATTA
21306993 CCGAATTG-TTTGGTATAT
1 CCGAATTGATTT-GTATAT
21307011 TGATATTCAT
Statistics
Matches: 39, Mismatches: 9, Indels: 3
0.76 0.18 0.06
Matches are distributed among these distances:
29 1 0.03
30 8 0.21
31 30 0.77
ACGTcount: A:0.28, C:0.12, G:0.19, T:0.41
Consensus pattern (30 bp):
CCGAATTGATTTGTATATGATTATACATTA
Found at i:21308573 original size:39 final size:39
Alignment explanation
Indices: 21308530--21308625 Score: 113
Period size: 39 Copynumber: 2.5 Consensus size: 39
21308520 ACTCAATTTT
* *
21308530 AAGCATATATC-CTATTACACATATAATCACCTAACGTTC
1 AAGCATATATCAC-AATACACATATAATCACCTAACATTC
* * *
21308569 AAGCATATATCACAATACACATATAATCTCGTAACATTT
1 AAGCATATATCACAATACACATATAATCACCTAACATTC
* *
21308608 AAGCATACATCTCAATAC
1 AAGCATATATCACAATAC
21308626 TCAAAATCAT
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
39 48 0.98
40 1 0.02
ACGTcount: A:0.42, C:0.24, G:0.05, T:0.29
Consensus pattern (39 bp):
AAGCATATATCACAATACACATATAATCACCTAACATTC
Found at i:21310393 original size:50 final size:50
Alignment explanation
Indices: 21310322--21310607 Score: 295
Period size: 50 Copynumber: 5.6 Consensus size: 50
21310312 TTGTACTGCT
* * * * * ** *
21310322 AATGCCATATCCAAGATATGGTCTTACAAGAGAGTTCTCATATAGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCC
* ** *
21310372 CATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTTGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCC
* * * * *
21310422 AACGTCATGTCCTAGACATGGTCTTACATGGGACCTCTCATCTTGTTGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCC
** * *
21310472 AACACCATGTCCCAGACATGGTCTT-CAATGGGACCCCTCATCTCGGTGCC
1 AATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATCTAGGTGCC
* *
21310522 AATGCCATGTCCCAAACATGGTCTTACATGGGACCTCTCATAATCTCAATGATGCC
1 AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCT--A-GGTGCC
21310578 AATGCCATGTCCCAGACATGGTCTTACATG
1 AATGCCATGTCCCAGACATGGTCTTACATG
21310608 AGATCTCTTT
Statistics
Matches: 197, Mismatches: 31, Indels: 10
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.01
50 157 0.80
51 1 0.01
53 4 0.02
56 34 0.17
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
AATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTAGGTGCC
Found at i:21322234 original size:144 final size:144
Alignment explanation
Indices: 21321974--21322253 Score: 384
Period size: 144 Copynumber: 1.9 Consensus size: 144
21321964 TAAATAATTG
* **
21321974 CAAATATCGTTGATTTATCCAACTTGAGCTAGGCTCACTATTTATTTCATTGGTTTATCCGACTA
1 CAAATATCGTTGATTTATCAAACTTGAGCTAGGCTCACTATTTATTTCATTGGTTTAAACGACTA
* * * * *
21322039 GCGTTGGGCACAACTTCTGTCAGTTTATCTGACTACTGCTGGGCATACATTCGTCGGTTTATCCA
66 ACGTTGGGCACAACTTCCGCCAGTTTATCTGACTACTGCTGGGCACACATTCGTCGATTTATCCA
21322104 ACTAGCATTAGGCA
131 ACTAGCATTAGGCA
* * *
21322118 CAAATATTGTTGATTTATCAAACTTGGGCTAGGCTCACTATTTTTTTC-TTCGGTTTAAACGACT
1 CAAATATCGTTGATTTATCAAACTTGAGCTAGGCTCACTATTTATTTCATT-GGTTTAAACGACT
* * * * *
21322182 AACGCTT-GGCTCAACTTCCGCCAGTTTATCTGACTAGTGTTGGGTACACATTCGTTGATTTATC
65 AACG-TTGGGCACAACTTCCGCCAGTTTATCTGACTACTGCTGGGCACACATTCGTCGATTTATC
21322246 CAACTAGC
129 CAACTAGC
21322254 GCTAGGCGCA
Statistics
Matches: 118, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
143 2 0.02
144 114 0.97
145 2 0.02
ACGTcount: A:0.24, C:0.22, G:0.18, T:0.36
Consensus pattern (144 bp):
CAAATATCGTTGATTTATCAAACTTGAGCTAGGCTCACTATTTATTTCATTGGTTTAAACGACTA
ACGTTGGGCACAACTTCCGCCAGTTTATCTGACTACTGCTGGGCACACATTCGTCGATTTATCCA
ACTAGCATTAGGCA
Found at i:21339166 original size:31 final size:30
Alignment explanation
Indices: 21339131--21339190 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
21339121 AGAGGTGGGA
*
21339131 TGGGATGAGAATAAAAGTTTTAGGGGAAAAG
1 TGGGA-GAGAATAAAAATTTTAGGGGAAAAG
* * *
21339162 TGGGAGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAGAGAATAAAAATTTTAGGGGAAAA
21339191 TAAAAGGTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 20 0.80
31 5 0.20
ACGTcount: A:0.40, C:0.00, G:0.38, T:0.22
Consensus pattern (30 bp):
TGGGAGAGAATAAAAATTTTAGGGGAAAAG
Found at i:21339356 original size:20 final size:21
Alignment explanation
Indices: 21339325--21339364 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
21339315 GAGGGAAACT
*
21339325 GGGAATAAGTAAAAGTTTTGA
1 GGGAATAAGTAAAAGATTTGA
21339346 GGGAA-AAGTAAAAGATTTG
1 GGGAATAAGTAAAAGATTTG
21339365 GGAGTTTGGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 13 0.72
21 5 0.28
ACGTcount: A:0.45, C:0.00, G:0.30, T:0.25
Consensus pattern (21 bp):
GGGAATAAGTAAAAGATTTGA
Found at i:21342191 original size:4 final size:4
Alignment explanation
Indices: 21342182--21342215 Score: 68
Period size: 4 Copynumber: 8.5 Consensus size: 4
21342172 CACATATAAC
21342182 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
1 ACAT ACAT ACAT ACAT ACAT ACAT ACAT ACAT AC
21342216 CCTAATAACA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 30 1.00
ACGTcount: A:0.50, C:0.26, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:21347807 original size:39 final size:39
Alignment explanation
Indices: 21347753--21347830 Score: 156
Period size: 39 Copynumber: 2.0 Consensus size: 39
21347743 AACAAGTTAG
21347753 ACCTGATGAGCCTTTTAGGATGGGGGTTCCTATTGCTCC
1 ACCTGATGAGCCTTTTAGGATGGGGGTTCCTATTGCTCC
21347792 ACCTGATGAGCCTTTTAGGATGGGGGTTCCTATTGCTCC
1 ACCTGATGAGCCTTTTAGGATGGGGGTTCCTATTGCTCC
21347831 TACTGGGATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.15, C:0.23, G:0.28, T:0.33
Consensus pattern (39 bp):
ACCTGATGAGCCTTTTAGGATGGGGGTTCCTATTGCTCC
Found at i:21351746 original size:43 final size:43
Alignment explanation
Indices: 21351698--21351816 Score: 111
Period size: 43 Copynumber: 2.8 Consensus size: 43
21351688 AAGCTCGTAT
*
21351698 AATGCCAAC-ATCCCATAC-GTGGTCTTACAAGTAATCAAATAAC
1 AATGCCAACTATCCCAGACAG-GGTCTTACAAGTAATCAAAT-AC
* *
21351741 AATGCC-ACTATCCCAGACAGGGTCTTACACGTAATCATATAC
1 AATGCCAACTATCCCAGACAGGGTCTTACAAGTAATCAAATAC
* * * * * *
21351783 GATGCCAA-TGTCCCAAACACGATCTTACACGTAA
1 AATGCCAACTATCCCAGACAGGGTCTTACAAGTAA
21351817 ATCTCAAATC
Statistics
Matches: 65, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
42 31 0.48
43 33 0.51
44 1 0.02
ACGTcount: A:0.36, C:0.28, G:0.13, T:0.23
Consensus pattern (43 bp):
AATGCCAACTATCCCAGACAGGGTCTTACAAGTAATCAAATAC
Found at i:21351809 original size:42 final size:43
Alignment explanation
Indices: 21351720--21351816 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 43
21351710 CCATACGTGG
* * * * *
21351720 TCTTACAAGTAATCAAATAACAATGCCACTATCCCAGACAGGG
1 TCTTACACGTAATCAAATAACAATGCCAATATCCCAAACACGA
* * *
21351763 TCTTACACGTAATCATAT-ACGATGCCAATGTCCCAAACACGA
1 TCTTACACGTAATCAAATAACAATGCCAATATCCCAAACACGA
21351805 TCTTACACGTAA
1 TCTTACACGTAA
21351817 ATCTCAAATC
Statistics
Matches: 46, Mismatches: 8, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
42 30 0.65
43 16 0.35
ACGTcount: A:0.37, C:0.27, G:0.12, T:0.24
Consensus pattern (43 bp):
TCTTACACGTAATCAAATAACAATGCCAATATCCCAAACACGA
Found at i:21355484 original size:18 final size:17
Alignment explanation
Indices: 21355453--21355486 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
21355443 CGACGATTTG
*
21355453 CTAAAAATATGGTTTTA
1 CTAAAAATAAGGTTTTA
21355470 CTAAAAATAAAGGTTTT
1 CTAAAAAT-AAGGTTTT
21355487 TTGAAAATAC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (17 bp):
CTAAAAATAAGGTTTTA
Found at i:21356263 original size:11 final size:12
Alignment explanation
Indices: 21356247--21356279 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
21356237 GGACCCAAGA
21356247 TGAATTAATTT-
1 TGAATTAATTTG
*
21356258 TGAATTCATTTG
1 TGAATTAATTTG
21356270 TGAATTAATT
1 TGAATTAATT
21356280 CACTTGTGAC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
11 10 0.53
12 9 0.47
ACGTcount: A:0.33, C:0.03, G:0.12, T:0.52
Consensus pattern (12 bp):
TGAATTAATTTG
Found at i:21357619 original size:10 final size:10
Alignment explanation
Indices: 21357604--21357638 Score: 52
Period size: 10 Copynumber: 3.4 Consensus size: 10
21357594 AATATTCTAT
21357604 TAATTTAATA
1 TAATTTAATA
21357614 TAATTTAATA
1 TAATTTAATA
*
21357624 TTAATTTAATC
1 -TAATTTAATA
21357635 TAAT
1 TAAT
21357639 ATTTATCTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
10 14 0.61
11 9 0.39
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (10 bp):
TAATTTAATA
Found at i:21357627 original size:16 final size:16
Alignment explanation
Indices: 21357603--21357641 Score: 53
Period size: 16 Copynumber: 2.5 Consensus size: 16
21357593 AAATATTCTA
21357603 TTAAT-TTAATATAAT
1 TTAATATTAATATAAT
*
21357618 TTAATATTAATTTAAT
1 TTAATATTAATATAAT
*
21357634 CTAATATT
1 TTAATATT
21357642 TATCTTAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 5 0.24
16 16 0.76
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.54
Consensus pattern (16 bp):
TTAATATTAATATAAT
Found at i:21357630 original size:11 final size:11
Alignment explanation
Indices: 21357601--21357633 Score: 59
Period size: 11 Copynumber: 3.1 Consensus size: 11
21357591 ATAAATATTC
21357601 TATTAATTTAA
1 TATTAATTTAA
21357612 TA-TAATTTAA
1 TATTAATTTAA
21357622 TATTAATTTAA
1 TATTAATTTAA
21357633 T
1 T
21357634 CTAATATTTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.48
11 11 0.52
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (11 bp):
TATTAATTTAA
Found at i:21357644 original size:61 final size:59
Alignment explanation
Indices: 21357556--21357672 Score: 155
Period size: 58 Copynumber: 1.9 Consensus size: 59
21357546 AGTGATTATC
* * ** *
21357556 TTAATATTAAATTTAATTTAATGTTTATCTTGTAGATAAATATTCTATTAATTTAATATAAT
1 TTAATATTAAATTTAATCTAATATTTATC-T-TA-ATAAATATTAGATTAAATTAATATAAT
21357618 TTAATATT-AATTTAATCTAATATTTATCTTAATAAATATTAGATTAAATTAATAT
1 TTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTAGATTAAATTAATAT
21357673 TAAAGTGATT
Statistics
Matches: 50, Mismatches: 5, Indels: 4
0.85 0.08 0.07
Matches are distributed among these distances:
58 21 0.42
59 2 0.04
60 1 0.02
61 18 0.36
62 8 0.16
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTAGATTAAATTAATATAAT
Found at i:21357821 original size:25 final size:25
Alignment explanation
Indices: 21357781--21357830 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
21357771 AGTTGTAAAG
*
21357781 AGAAAATTCTCTAAATAAATTATTTC
1 AGAAAATTATCTAAATAAATT-TTTC
*
21357807 AGAAAA-TATCTAAATATATTTTTC
1 AGAAAATTATCTAAATAAATTTTTC
21357831 TTATTTATAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 4 0.18
25 12 0.55
26 6 0.27
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (25 bp):
AGAAAATTATCTAAATAAATTTTTC
Found at i:21365903 original size:51 final size:50
Alignment explanation
Indices: 21365776--21365965 Score: 211
Period size: 51 Copynumber: 3.8 Consensus size: 50
21365766 GTGAAAGTGA
* * *
21365776 TGGTCACGTGTGTAGTACTATGTGTAGGCTACTACGTGTACCGGA-ATGAT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATA-GAT
* * * *
21365826 GGGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACCGGATAGCTT
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAG-AT
* * * * * *
21365877 TGATCACGTATGTAGTACTATGTGCAGGCTACTATGTGTATCGGATGGAAA
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAG-AT
* *
21365928 TGGTCACATGTGTAGTACTATGTGTAGGCTACTGTGTG
1 TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTG
21365966 AATCGGGTAC
Statistics
Matches: 115, Mismatches: 23, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
50 40 0.35
51 75 0.65
ACGTcount: A:0.22, C:0.16, G:0.30, T:0.32
Consensus pattern (50 bp):
TGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTGTACCGGATAGAT
Found at i:21366041 original size:44 final size:45
Alignment explanation
Indices: 21365976--21366065 Score: 137
Period size: 44 Copynumber: 2.0 Consensus size: 45
21365966 AATCGGGTAC
*
21365976 CATTGACTATAAAGGTGGTTGCTATATGTTGATTCCACCGAGTAT
1 CATTGACTATAAAGGTGGTTGCTATATGCTGATTCCACCGAGTAT
* * *
21366021 CATTGATTAT-AAGGTGGTTGCTATGTGCTGATTCCACCGTGTAT
1 CATTGACTATAAAGGTGGTTGCTATATGCTGATTCCACCGAGTAT
21366065 C
1 C
21366066 TGTTATTATT
Statistics
Matches: 41, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
44 32 0.78
45 9 0.22
ACGTcount: A:0.23, C:0.17, G:0.23, T:0.37
Consensus pattern (45 bp):
CATTGACTATAAAGGTGGTTGCTATATGCTGATTCCACCGAGTAT
Found at i:21370553 original size:12 final size:12
Alignment explanation
Indices: 21370536--21370564 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
21370526 GGGTGGCAAC
21370536 GATGCATTGCTA
1 GATGCATTGCTA
21370548 GATGCATTGCTA
1 GATGCATTGCTA
21370560 GATGC
1 GATGC
21370565 CACTCATTGC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.24, C:0.17, G:0.28, T:0.31
Consensus pattern (12 bp):
GATGCATTGCTA
Found at i:21371619 original size:32 final size:32
Alignment explanation
Indices: 21371583--21371648 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
21371573 TCTTTAACTT
21371583 TAATAAGCTCTACATGCATTTTATGTTTATTC
1 TAATAAGCTCTACATGCATTTTATGTTTATTC
21371615 TAATAAGCTCTACATGCATTTTATGTTTATTC
1 TAATAAGCTCTACATGCATTTTATGTTTATTC
21371647 TA
1 TA
21371649 TGTTATTTTG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.29, C:0.15, G:0.09, T:0.47
Consensus pattern (32 bp):
TAATAAGCTCTACATGCATTTTATGTTTATTC
Found at i:21378268 original size:15 final size:15
Alignment explanation
Indices: 21378248--21378298 Score: 93
Period size: 15 Copynumber: 3.4 Consensus size: 15
21378238 AAAAAAATGT
21378248 ATCAAATTATGACAA
1 ATCAAATTATGACAA
*
21378263 ATCAAATTATGAGAA
1 ATCAAATTATGACAA
21378278 ATCAAATTATGACAA
1 ATCAAATTATGACAA
21378293 ATCAAA
1 ATCAAA
21378299 CTCCCCCACA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 34 1.00
ACGTcount: A:0.55, C:0.12, G:0.08, T:0.25
Consensus pattern (15 bp):
ATCAAATTATGACAA
Found at i:21385914 original size:17 final size:18
Alignment explanation
Indices: 21385879--21385919 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
21385869 AAAAATATTT
* *
21385879 AAAAATAATAAAACTCTA
1 AAAAATAACAAAACACTA
21385897 AAAAATAACAAAA-ACTA
1 AAAAATAACAAAACACTA
21385914 AAAAAT
1 AAAAAT
21385920 GTATTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.73, C:0.10, G:0.00, T:0.17
Consensus pattern (18 bp):
AAAAATAACAAAACACTA
Found at i:21396421 original size:18 final size:18
Alignment explanation
Indices: 21396377--21396422 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 18
21396367 TATTCGGAAA
* *
21396377 AGGATACATGTAAGGGTT
1 AGGATACATATAAGGGCT
*
21396395 AGGGTACATATAAGGGCT
1 AGGATACATATAAGGGCT
*
21396413 AGGAAACATA
1 AGGATACATA
21396423 CCTGGCATCA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.39, C:0.09, G:0.30, T:0.22
Consensus pattern (18 bp):
AGGATACATATAAGGGCT
Found at i:21397079 original size:7 final size:7
Alignment explanation
Indices: 21397067--21397091 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21397057 TTATACACAT
21397067 AATACTA
1 AATACTA
21397074 AATACTA
1 AATACTA
21397081 AATACTA
1 AATACTA
21397088 AATA
1 AATA
21397092 TCAATCGACT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.60, C:0.12, G:0.00, T:0.28
Consensus pattern (7 bp):
AATACTA
Found at i:21398222 original size:30 final size:30
Alignment explanation
Indices: 21398158--21398220 Score: 101
Period size: 29 Copynumber: 2.1 Consensus size: 30
21398148 GCCATTGATG
*
21398158 AAAATATAAAAAAATTTAAAATTATTTTAA
1 AAAATATAAAAAAATTTAAAATTATTTAAA
*
21398188 AAAATATAAAAAAA-TTATAATTATTTAAA
1 AAAATATAAAAAAATTTAAAATTATTTAAA
21398217 AAAA
1 AAAA
21398221 ATGGATTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
29 17 0.55
30 14 0.45
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (30 bp):
AAAATATAAAAAAATTTAAAATTATTTAAA
Found at i:21398292 original size:22 final size:22
Alignment explanation
Indices: 21398267--21398317 Score: 102
Period size: 22 Copynumber: 2.3 Consensus size: 22
21398257 AAATATGAGT
21398267 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
21398289 TTGAGAGAATTTTGGAAGGAAA
1 TTGAGAGAATTTTGGAAGGAAA
21398311 TTGAGAG
1 TTGAGAG
21398318 GATTAGAGAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 29 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.27
Consensus pattern (22 bp):
TTGAGAGAATTTTGGAAGGAAA
Found at i:21400215 original size:31 final size:30
Alignment explanation
Indices: 21400180--21400278 Score: 112
Period size: 31 Copynumber: 3.3 Consensus size: 30
21400170 ACTACTAAAA
* *
21400180 TAGTCACTTTTGTTTGGCACAGGTTACATTT
1 TAGTCACTTATGTTT-GCACATGTTACATTT
* *
21400211 TAGTCACTTATGTTTG-AAATGTTACGTTT
1 TAGTCACTTATGTTTGCACATGTTACATTT
*
21400240 TAGTCACTTATGTTAT-CACATTGTAACATTT
1 TAGTCACTTATGTT-TGCACA-TGTTACATTT
21400271 TAGTCACT
1 TAGTCACT
21400279 GAGCCGTTAG
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
29 24 0.41
30 4 0.07
31 30 0.52
ACGTcount: A:0.24, C:0.15, G:0.15, T:0.45
Consensus pattern (30 bp):
TAGTCACTTATGTTTGCACATGTTACATTT
Found at i:21401144 original size:29 final size:30
Alignment explanation
Indices: 21401112--21401174 Score: 92
Period size: 30 Copynumber: 2.1 Consensus size: 30
21401102 AACCAAAAAA
21401112 GGCCGGTTTTTTCAA-AATTTACCGAAATG
1 GGCCGGTTTTTTCAATAATTTACCGAAATG
* * *
21401141 GGCCGGTTTTTTTAATTATTTACCGGAATG
1 GGCCGGTTTTTTCAATAATTTACCGAAATG
21401171 GGCC
1 GGCC
21401175 ATTTTCCGCG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
29 14 0.47
30 16 0.53
ACGTcount: A:0.22, C:0.17, G:0.24, T:0.37
Consensus pattern (30 bp):
GGCCGGTTTTTTCAATAATTTACCGAAATG
Found at i:21402055 original size:40 final size:40
Alignment explanation
Indices: 21402011--21402100 Score: 103
Period size: 41 Copynumber: 2.2 Consensus size: 40
21402001 TCCTAGAGGG
21402011 CGCGATTTCCTTCCACGT-CAAC-AAATCGCGCTGACGTGGA
1 CGCGATTTCC-TCCACGTAC-ACGAAATCGCGCTGACGTGGA
* * * *
21402051 CGCGATTTCCTGCGCGTACCCTGACATCGCGCTGACGTGGA
1 CGCGATTTCCTCCACGTACAC-GAAATCGCGCTGACGTGGA
21402092 CGCGATTTC
1 CGCGATTTC
21402101 ACGAAAAATG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
39 6 0.14
40 11 0.26
41 26 0.60
ACGTcount: A:0.18, C:0.33, G:0.26, T:0.23
Consensus pattern (40 bp):
CGCGATTTCCTCCACGTACACGAAATCGCGCTGACGTGGA
Found at i:21404135 original size:19 final size:20
Alignment explanation
Indices: 21404096--21404138 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
21404086 TAATAATAAT
* *
21404096 ATATTTTTTAATTGTTATCA
1 ATATGTTTTAAATGTTATCA
21404116 ATATGTTTTAAATG-TATCA
1 ATATGTTTTAAATGTTATCA
21404135 ATAT
1 ATAT
21404139 TATTTAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.35, C:0.05, G:0.07, T:0.53
Consensus pattern (20 bp):
ATATGTTTTAAATGTTATCA
Found at i:21404144 original size:19 final size:19
Alignment explanation
Indices: 21404100--21404146 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 19
21404090 AATAATATAT
*
21404100 TTTTTAATTGTTATCAATA
1 TTTTTAAATGTTATCAATA
21404119 TGTTTTAAATG-TATCAATA
1 T-TTTTAAATGTTATCAATA
21404138 TTATTTAAA
1 TT-TTTAAA
21404147 AATACATATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
18 1 0.04
19 16 0.64
20 8 0.32
ACGTcount: A:0.36, C:0.04, G:0.06, T:0.53
Consensus pattern (19 bp):
TTTTTAAATGTTATCAATA
Found at i:21407652 original size:26 final size:27
Alignment explanation
Indices: 21407603--21407661 Score: 75
Period size: 26 Copynumber: 2.2 Consensus size: 27
21407593 ACCCGTAATT
* *
21407603 ATATATGTTATATAATAAGACCCATGC
1 ATATATGTTACATAATAAGACCCACGC
*
21407630 ATATATG-TACATAGTAAGACCCACGC
1 ATATATGTTACATAATAAGACCCACGC
*
21407656 AAATAT
1 ATATAT
21407662 ATTATATTAA
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 21 0.75
27 7 0.25
ACGTcount: A:0.42, C:0.17, G:0.12, T:0.29
Consensus pattern (27 bp):
ATATATGTTACATAATAAGACCCACGC
Found at i:21407792 original size:62 final size:65
Alignment explanation
Indices: 21407726--21407850 Score: 184
Period size: 66 Copynumber: 2.0 Consensus size: 65
21407716 TATATATTGT
* * *
21407726 ATACAACATAACCATGCATAT-T-TATTATATATA-ACACCAAAATCCATTAATATATATACCGC
1 ATACAACAGAACCATGCATATGTATATTATATATAGACACCAAAACCCATCAATATATATACCGC
*
21407788 ATACAATAGAACCATGCATATGTATATTATATATATGACACCAAAACCCATCAATATATATAC
1 ATACAACAGAACCATGCATATGTATATTATATATA-GACACCAAAACCCATCAATATATATAC
21407851 TATATATAAA
Statistics
Matches: 55, Mismatches: 4, Indels: 4
0.87 0.06 0.06
Matches are distributed among these distances:
62 19 0.35
63 1 0.02
64 11 0.20
66 24 0.44
ACGTcount: A:0.46, C:0.20, G:0.05, T:0.30
Consensus pattern (65 bp):
ATACAACAGAACCATGCATATGTATATTATATATAGACACCAAAACCCATCAATATATATACCGC
Found at i:21409572 original size:41 final size:41
Alignment explanation
Indices: 21409515--21409629 Score: 128
Period size: 41 Copynumber: 2.8 Consensus size: 41
21409505 CTTTGAGTCC
* *
21409515 AGCAGACTTCGTGCCGGTGATTTATA-CTAGGCTCTCTACCT
1 AGCAGGCTTCATGCCGGTGATTTATATC-AGGCTCTCTACCT
* *
21409556 AGCAGGC-TCTATGCCGGTG-TGTTGTATCAGGCTCTGTACCT
1 AGCAGGCTTC-ATGCCGGTGAT-TTATATCAGGCTCTCTACCT
* *
21409597 AGCAGGCTTCGTGCCAGTGATTTATATCAGGCT
1 AGCAGGCTTCATGCCGGTGATTTATATCAGGCT
21409630 TTGTGCTGGT
Statistics
Matches: 62, Mismatches: 7, Indels: 10
0.78 0.09 0.13
Matches are distributed among these distances:
40 3 0.05
41 55 0.89
42 4 0.06
ACGTcount: A:0.18, C:0.24, G:0.26, T:0.31
Consensus pattern (41 bp):
AGCAGGCTTCATGCCGGTGATTTATATCAGGCTCTCTACCT
Found at i:21416548 original size:28 final size:28
Alignment explanation
Indices: 21416503--21416585 Score: 98
Period size: 28 Copynumber: 3.0 Consensus size: 28
21416493 ACTGTACTTG
21416503 TTACTGTATTGGGA-TAAGGCCCACACTA
1 TTACTGTATT-GGACTAAGGCCCACACTA
* *
21416531 TTACTGTATTGGACTAAGGCCCACATTG
1 TTACTGTATTGGACTAAGGCCCACACTA
* *
21416559 TTA-TCGTTTTGGGCTAAGGCCCACACT
1 TTACT-GTATTGGACTAAGGCCCACACT
21416586 GTACTGTTAC
Statistics
Matches: 48, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
27 4 0.08
28 44 0.92
ACGTcount: A:0.24, C:0.23, G:0.22, T:0.31
Consensus pattern (28 bp):
TTACTGTATTGGACTAAGGCCCACACTA
Found at i:21419211 original size:20 final size:20
Alignment explanation
Indices: 21419186--21419225 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
21419176 TAACAGTTAG
21419186 TATC-AAGATTTTGACAAGAT
1 TATCAAAGA-TTTGACAAGAT
21419206 TATCAAAGATTTGACAAGAT
1 TATCAAAGATTTGACAAGAT
21419226 AAAAAAATTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 15 0.79
21 4 0.21
ACGTcount: A:0.42, C:0.10, G:0.15, T:0.33
Consensus pattern (20 bp):
TATCAAAGATTTGACAAGAT
Found at i:21419766 original size:12 final size:11
Alignment explanation
Indices: 21419749--21419796 Score: 51
Period size: 12 Copynumber: 4.0 Consensus size: 11
21419739 TTTAAATTTT
21419749 AAAAATTATTAA
1 AAAAATTA-TAA
21419761 AAAAATTATAA
1 AAAAATTATAA
*
21419772 ACAAACTTCATAA
1 A-AAAATT-ATAA
21419785 AAAAATTTATAA
1 AAAAA-TTATAA
21419797 CAAATTTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
11 4 0.13
12 20 0.65
13 7 0.23
ACGTcount: A:0.65, C:0.06, G:0.00, T:0.29
Consensus pattern (11 bp):
AAAAATTATAA
Found at i:21439963 original size:6 final size:6
Alignment explanation
Indices: 21439952--21439985 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
21439942 AATATGTGTG
21439952 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
1 TTTTAT TTTTAT TTTTAT TTTTAT TTTTAT TTTT
21439986 TTGCAATCAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTAT
Found at i:21443597 original size:20 final size:18
Alignment explanation
Indices: 21443531--21443624 Score: 78
Period size: 17 Copynumber: 5.5 Consensus size: 18
21443521 ATTTTAATAG
21443531 TTTAATATTAAAT-TTAA
1 TTTAATATTAAATATTAA
* *
21443548 TTTAATACT-AATCTTAA
1 TTTAATATTAAATATTAA
*
21443565 --TAATATT--TTATTAA
1 TTTAATATTAAATATTAA
21443579 TTTAATATTAAAGTGATT-A
1 TTTAATATTAAA-T-ATTAA
21443598 TCTTAATATTAAAT-TTAA
1 T-TTAATATTAAATATTAA
21443616 TTTAATATT
1 TTTAATATT
21443625 TATCTTGTTG
Statistics
Matches: 63, Mismatches: 5, Indels: 18
0.73 0.06 0.21
Matches are distributed among these distances:
14 5 0.08
15 6 0.10
16 10 0.16
17 22 0.35
18 2 0.03
19 4 0.06
20 14 0.22
ACGTcount: A:0.43, C:0.03, G:0.02, T:0.52
Consensus pattern (18 bp):
TTTAATATTAAATATTAA
Found at i:21443686 original size:18 final size:17
Alignment explanation
Indices: 21443665--21443700 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
21443655 ATGAGATTTA
21443665 ATATTAAATATAAATATT
1 ATATTAAAT-TAAATATT
*
21443683 ATATTAAATTTAATATT
1 ATATTAAATTAAATATT
21443700 A
1 A
21443701 AAGTGACTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 8 0.47
18 9 0.53
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
ATATTAAATTAAATATT
Found at i:21451799 original size:27 final size:27
Alignment explanation
Indices: 21451768--21451945 Score: 178
Period size: 27 Copynumber: 6.6 Consensus size: 27
21451758 ATATTGAGCC
* *
21451768 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* * *
21451795 TGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
21451822 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
** ** *
21451850 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
21451877 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* * *
21451904 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
21451931 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
21451946 GTACAATTTA
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 103 0.81
28 24 0.19
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.28
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:21456463 original size:35 final size:35
Alignment explanation
Indices: 21456394--21456464 Score: 83
Period size: 35 Copynumber: 2.0 Consensus size: 35
21456384 TCACAGCGGA
*
21456394 TTAAAACGAAATAACAACAAAATAAAAGATCAGAT
1 TTAAAACGAAATAACAACAAAATAAAAGACCAGAT
* *
21456429 TTAAAAGGAAATAA-AA-ATAAATGAAAGAACCAGAT
1 TTAAAACGAAATAACAACA-AAATAAAAG-ACCAGAT
21456464 T
1 T
21456465 GTAACACACT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
33 1 0.03
34 10 0.32
35 20 0.65
ACGTcount: A:0.62, C:0.08, G:0.11, T:0.18
Consensus pattern (35 bp):
TTAAAACGAAATAACAACAAAATAAAAGACCAGAT
Found at i:21460491 original size:39 final size:40
Alignment explanation
Indices: 21460448--21460551 Score: 105
Period size: 37 Copynumber: 2.7 Consensus size: 40
21460438 CTATTCCAAA
*
21460448 AATAATATTATTTTAATAGTTTAATATTAAATTTAAT-TT
1 AATAATATTATCTTAATAGTTTAATATTAAATTTAATATT
*
21460487 AAT-A-ATTATCTTAATAGTATT-TTATT-AATTTAATATT
1 AATAATATTATCTTAATAGT-TTAATATTAAATTTAATATT
* *
21460524 AA-ATTAATTATCTTAATA-TTAAATATTA
1 AATAAT-ATTATCTTAATAGTTTAATATTA
21460552 TTTAATGTTT
Statistics
Matches: 53, Mismatches: 5, Indels: 14
0.74 0.07 0.19
Matches are distributed among these distances:
36 8 0.15
37 22 0.42
38 8 0.15
39 15 0.28
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (40 bp):
AATAATATTATCTTAATAGTTTAATATTAAATTTAATATT
Found at i:21460539 original size:20 final size:20
Alignment explanation
Indices: 21460489--21460547 Score: 68
Period size: 20 Copynumber: 3.0 Consensus size: 20
21460479 TTTAATTTAA
* *
21460489 TAATTATCTTAATAGT-ATT
1 TAATTATCTTAATATTAAAT
*
21460508 TTATTAAT-TTAATATTAAAT
1 TAATT-ATCTTAATATTAAAT
21460528 TAATTATCTTAATATTAAAT
1 TAATTATCTTAATATTAAAT
21460548 ATTATTTAAT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
19 13 0.39
20 20 0.61
ACGTcount: A:0.42, C:0.03, G:0.02, T:0.53
Consensus pattern (20 bp):
TAATTATCTTAATATTAAAT
Found at i:21467458 original size:11 final size:11
Alignment explanation
Indices: 21467432--21467464 Score: 52
Period size: 11 Copynumber: 3.2 Consensus size: 11
21467422 AAATGACGAA
21467432 TTAAAT-ATAC
1 TTAAATGATAC
21467442 -TAAATGATAC
1 TTAAATGATAC
21467452 TTAAATGATAC
1 TTAAATGATAC
21467463 TT
1 TT
21467465 TTCCCAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 5 0.24
10 4 0.19
11 12 0.57
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.39
Consensus pattern (11 bp):
TTAAATGATAC
Found at i:21467734 original size:21 final size:21
Alignment explanation
Indices: 21467710--21467759 Score: 64
Period size: 21 Copynumber: 2.4 Consensus size: 21
21467700 TTCTGCTTTG
*
21467710 CTCTGCTTCCCTCGTTGCTGC
1 CTCTGCTTCCCTCATTGCTGC
* *
21467731 CTCTACTTCCCTCATTGTTGC
1 CTCTGCTTCCCTCATTGCTGC
*
21467752 CTCCGCTT
1 CTCTGCTT
21467760 TAAGTTGTAG
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.04, C:0.42, G:0.14, T:0.40
Consensus pattern (21 bp):
CTCTGCTTCCCTCATTGCTGC
Found at i:21473710 original size:3 final size:3
Alignment explanation
Indices: 21473693--21473752 Score: 50
Period size: 3 Copynumber: 20.0 Consensus size: 3
21473683 TAATTACTCA
* * * * *
21473693 ATT ATT -TT CATT ATT ATT GTT ATT ATT ATT AAT GTT ATT ATA ACT
1 ATT ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
*
21473738 ATT AGT ATT ATT ATT
1 ATT ATT ATT ATT ATT
21473753 TATATTAGTT
Statistics
Matches: 43, Mismatches: 12, Indels: 4
0.73 0.20 0.07
Matches are distributed among these distances:
2 2 0.05
3 39 0.91
4 2 0.05
ACGTcount: A:0.32, C:0.03, G:0.05, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:21474149 original size:28 final size:27
Alignment explanation
Indices: 21474095--21474156 Score: 72
Period size: 28 Copynumber: 2.2 Consensus size: 27
21474085 ACCGTATTTT
21474095 TAATTTATTTCAAATTTTCATTTATATA
1 TAATTTATTTCAAATTTT-ATTTATATA
* *
21474123 TTATTTATTTTAAA-TTTATTTTAATATA
1 TAATTTATTTCAAATTTTA-TTT-ATATA
21474151 TAATTT
1 TAATTT
21474157 CCTTTCTTTC
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
26 1 0.03
27 6 0.21
28 22 0.76
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.61
Consensus pattern (27 bp):
TAATTTATTTCAAATTTTATTTATATA
Found at i:21479372 original size:9 final size:9
Alignment explanation
Indices: 21479336--21479410 Score: 50
Period size: 9 Copynumber: 8.2 Consensus size: 9
21479326 TTCGTTTCTG
21479336 AATTTTTTT
1 AATTTTTTT
21479345 AATATATTTTT
1 AAT-T-TTTTT
*
21479356 -TTTATTTTT
1 AATT-TTTTT
21479365 AATTTTTTT
1 AATTTTTTT
21479374 AATATTTTGTT
1 AAT-TTTT-TT
*
21479385 AA--TATTT
1 AATTTTTTT
21479392 -ATTTTTTT
1 AATTTTTTT
*
21479400 AACTTTTTT
1 AATTTTTTT
21479409 AA
1 AA
21479411 AATATTTTAA
Statistics
Matches: 53, Mismatches: 5, Indels: 16
0.72 0.07 0.22
Matches are distributed among these distances:
6 1 0.02
7 2 0.04
8 6 0.11
9 27 0.51
10 8 0.15
11 9 0.17
ACGTcount: A:0.27, C:0.01, G:0.01, T:0.71
Consensus pattern (9 bp):
AATTTTTTT
Found at i:21479378 original size:27 final size:27
Alignment explanation
Indices: 21479336--21479401 Score: 80
Period size: 27 Copynumber: 2.4 Consensus size: 27
21479326 TTCGTTTCTG
* * *
21479336 AATTTTTTTAATATATTTTTTTTATTTTT
1 AATTTTTTT-A-ATATTTTGTTAATATTT
21479365 AATTTTTTTAATATTTTGTTAATATTT
1 AATTTTTTTAATATTTTGTTAATATTT
21479392 -ATTTTTTTAA
1 AATTTTTTTAA
21479402 CTTTTTTAAA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
26 10 0.29
27 14 0.41
28 1 0.03
29 9 0.26
ACGTcount: A:0.27, C:0.00, G:0.02, T:0.71
Consensus pattern (27 bp):
AATTTTTTTAATATTTTGTTAATATTT
Found at i:21479386 original size:11 final size:10
Alignment explanation
Indices: 21479339--21479391 Score: 56
Period size: 11 Copynumber: 5.3 Consensus size: 10
21479329 GTTTCTGAAT
21479339 TTTTTTAATA
1 TTTTTTAATA
**
21479349 TATTTTTTTTA
1 T-TTTTTAATA
21479360 -TTTTTAAT-
1 TTTTTTAATA
21479368 TTTTTTAATA
1 TTTTTTAATA
21479378 TTTTGTTAATA
1 TTTT-TTAATA
21479389 TTT
1 TTT
21479392 ATTTTTTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
9 14 0.40
10 5 0.14
11 16 0.46
ACGTcount: A:0.25, C:0.00, G:0.02, T:0.74
Consensus pattern (10 bp):
TTTTTTAATA
Found at i:21479430 original size:37 final size:37
Alignment explanation
Indices: 21479348--21479435 Score: 101
Period size: 35 Copynumber: 2.4 Consensus size: 37
21479338 TTTTTTTAAT
* * * *
21479348 ATATTTTTTTTATTTTTAATTTTTTTAATATTTTGTTA
1 ATATTTTTATT-TTTTTAACTTTTTTAAAATATTGTTA
21479386 ATA--TTTATTTTTTTAACTTTTTTAAAATATT-TTA
1 ATATTTTTATTTTTTTAACTTTTTTAAAATATTGTTA
21479420 AGTATTTTTATTTTTT
1 A-TATTTTTATTTTTT
21479436 AAAGAATATT
Statistics
Matches: 43, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
34 4 0.09
35 21 0.49
36 5 0.12
37 10 0.23
38 3 0.07
ACGTcount: A:0.26, C:0.01, G:0.02, T:0.70
Consensus pattern (37 bp):
ATATTTTTATTTTTTTAACTTTTTTAAAATATTGTTA
Found at i:21481501 original size:32 final size:32
Alignment explanation
Indices: 21481458--21481527 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
21481448 GAATGTATTG
21481458 CAGTGTAGAATTTCCAAACAAGTCTTCTCATT
1 CAGTGTAGAATTTCCAAACAAGTCTTCTCATT
*
21481490 CGGTGTAGAATTTCCAAACAAGTCTTCTCATT
1 CAGTGTAGAATTTCCAAACAAGTCTTCTCATT
21481522 CAGTGT
1 CAGTGT
21481528 CTCCATGCTA
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 36 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (32 bp):
CAGTGTAGAATTTCCAAACAAGTCTTCTCATT
Found at i:21484177 original size:19 final size:18
Alignment explanation
Indices: 21484140--21484184 Score: 65
Period size: 19 Copynumber: 2.5 Consensus size: 18
21484130 AATTTTAAAT
*
21484140 ATTTTT-AAAAAATATCA
1 ATTTTTAAAAAAATAGCA
21484157 ATTTTTAAAAAGAATAGCA
1 ATTTTTAAAAA-AATAGCA
21484176 ATTTTTAAA
1 ATTTTTAAA
21484185 TTTTTTAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 6 0.24
18 4 0.16
19 15 0.60
ACGTcount: A:0.51, C:0.04, G:0.04, T:0.40
Consensus pattern (18 bp):
ATTTTTAAAAAAATAGCA
Found at i:21494176 original size:21 final size:20
Alignment explanation
Indices: 21494147--21494236 Score: 53
Period size: 21 Copynumber: 4.5 Consensus size: 20
21494137 TTTTAATATT
*
21494147 AAATTAATATAATATTTATC
1 AAATAAATATAATATTTATC
* *
21494167 AAGATAAATATTAGA-TTA--
1 AA-ATAAATATAATATTTATC
* * *
21494185 AATTTAATATTAA-ATCTTATT
1 AAATAAATA-TAATAT-TTATC
*
21494206 AAATTAATATAATATTTATC
1 AAATAAATATAATATTTATC
21494226 AAGATAAATAT
1 AA-ATAAATAT
21494237 TAAATTAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 15
0.69 0.12 0.19
Matches are distributed among these distances:
17 6 0.11
18 4 0.08
19 3 0.06
20 14 0.26
21 26 0.49
ACGTcount: A:0.51, C:0.03, G:0.03, T:0.42
Consensus pattern (20 bp):
AAATAAATATAATATTTATC
Found at i:21494185 original size:32 final size:32
Alignment explanation
Indices: 21494141--21494244 Score: 121
Period size: 32 Copynumber: 3.4 Consensus size: 32
21494131 TAATCATTTT
21494141 AATATTAAATTAATATAATATTTATCAAGATA
1 AATATTAAATTAATATAATATTTATCAAGATA
* *
21494173 AATATTAGATTAAATTTAATA--T-T-AA-AT-
1 AATATTAAATT-AATATAATATTTATCAAGATA
**
21494200 CTTATTAAATTAATATAATATTTATCAAGATA
1 AATATTAAATTAATATAATATTTATCAAGATA
21494232 AATATTAAATTAA
1 AATATTAAATTAA
21494245 ATTAAATATT
Statistics
Matches: 57, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
26 8 0.14
27 8 0.14
28 3 0.05
29 3 0.05
30 3 0.05
31 3 0.05
32 21 0.37
33 8 0.14
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (32 bp):
AATATTAAATTAATATAATATTTATCAAGATA
Found at i:21494213 original size:59 final size:59
Alignment explanation
Indices: 21494143--21494256 Score: 210
Period size: 59 Copynumber: 1.9 Consensus size: 59
21494133 ATCATTTTAA
* *
21494143 TATTAAATTAATATAATATTTATCAAGATAAATATTAGATTAAATTTAATATTAAATCT
1 TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAAATTAAATATTAAATCT
21494202 TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAAATTAAATATTAA
1 TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAAATTAAATATTAA
21494257 GATAATCACT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
59 53 1.00
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.43
Consensus pattern (59 bp):
TATTAAATTAATATAATATTTATCAAGATAAATATTAAATTAAATTAAATATTAAATCT
Found at i:21496021 original size:30 final size:30
Alignment explanation
Indices: 21495987--21496178 Score: 180
Period size: 30 Copynumber: 6.5 Consensus size: 30
21495977 CAAATCTATT
21495987 CCTTTTCATTATTTGATGGTCGTCACCATC
1 CCTTTTCATTATTTGATGGTCGTCACCATC
21496017 CCTTTTCATTA-TTGATGGTCGTCACCATC
1 CCTTTTCATTATTTGATGGTCGTCACCATC
* * * * *
21496046 CCTCTTCATTAATTGATAG-C-TGAAGCTATC
1 CCTTTTCATTATTTGATGGTCGT-CA-CCATC
* *
21496076 CCTTTTCGTTATTCGATGGTCGTCACCATC
1 CCTTTTCATTATTTGATGGTCGTCACCATC
* *
21496106 CCTTTTCATT-TTTGATGATCATCACCAT-
1 CCTTTTCATTATTTGATGGTCGTCACCATC
* * ***
21496134 CCTATTTCATAATTTGATAGTCGAT-GTTATC
1 CCT-TTTCATTATTTGATGGTCG-TCACCATC
21496165 CCTTTTCATTATTT
1 CCTTTTCATTATTT
21496179 TGATAACCGA
Statistics
Matches: 130, Mismatches: 23, Indels: 18
0.76 0.13 0.11
Matches are distributed among these distances:
28 4 0.03
29 51 0.39
30 68 0.52
31 6 0.05
32 1 0.01
ACGTcount: A:0.20, C:0.24, G:0.12, T:0.44
Consensus pattern (30 bp):
CCTTTTCATTATTTGATGGTCGTCACCATC
Found at i:21496040 original size:29 final size:29
Alignment explanation
Indices: 21495987--21496143 Score: 167
Period size: 29 Copynumber: 5.3 Consensus size: 29
21495977 CAAATCTATT
21495987 CCTTTTCATTATTTGATGGTCGTCACCATC
1 CCTTTTCATTA-TTGATGGTCGTCACCATC
21496017 CCTTTTCATTATTGATGGTCGTCACCATC
1 CCTTTTCATTATTGATGGTCGTCACCATC
* * * *
21496046 CCTCTTCATTAATTGATAG-C-TGAAGCTATC
1 CCTTTTCATT-ATTGATGGTCGT-CA-CCATC
*
21496076 CCTTTTCGTTATTCGATGGTCGTCACCATC
1 CCTTTTCATTATT-GATGGTCGTCACCATC
* * *
21496106 CCTTTTCATTTTTGATGATCATCACCAT-
1 CCTTTTCATTATTGATGGTCGTCACCATC
21496134 CCTATTTCAT
1 CCT-TTTCAT
21496144 AATTTGATAG
Statistics
Matches: 107, Mismatches: 13, Indels: 15
0.79 0.10 0.11
Matches are distributed among these distances:
28 4 0.04
29 51 0.48
30 49 0.46
31 2 0.02
32 1 0.01
ACGTcount: A:0.19, C:0.27, G:0.12, T:0.42
Consensus pattern (29 bp):
CCTTTTCATTATTGATGGTCGTCACCATC
Found at i:21496064 original size:89 final size:89
Alignment explanation
Indices: 21495971--21496177 Score: 256
Period size: 89 Copynumber: 2.3 Consensus size: 89
21495961 TTCGCAACTC
* * * *
21495971 GATAGCCAAATCTATTCCTTTTCATTATTTGATGGTCGTCACCATCCCTTTTCATTATTGATGGT
1 GATAGCCAAAGCTATCCCTTTTCATTATTCGATGGTCGTCACCATCCCTTTTCATTATTGATGAT
*
21496036 CGTCACCATCCCTCTTCATTAATT
66 CATCACCATCCCTCTTCATTAATT
** * *
21496060 GATAGCTGAAGCTATCCCTTTTCGTTATTCGATGGTCGTCACCATCCCTTTTCATTTTTGATGAT
1 GATAGCCAAAGCTATCCCTTTTCATTATTCGATGGTCGTCACCATCCCTTTTCATTATTGATGAT
*
21496125 CATCACCAT-CCTATTTCA-TAATTT
66 CATCACCATCCCT-CTTCATTAA-TT
* * * *
21496149 GATAGTCGATGTTATCCCTTTTCATTATT
1 GATAGCCAAAGCTATCCCTTTTCATTATT
21496178 TTGATAACCG
Statistics
Matches: 101, Mismatches: 15, Indels: 4
0.84 0.12 0.03
Matches are distributed among these distances:
88 6 0.06
89 95 0.94
ACGTcount: A:0.21, C:0.24, G:0.12, T:0.43
Consensus pattern (89 bp):
GATAGCCAAAGCTATCCCTTTTCATTATTCGATGGTCGTCACCATCCCTTTTCATTATTGATGAT
CATCACCATCCCTCTTCATTAATT
Found at i:21496182 original size:31 final size:31
Alignment explanation
Indices: 21496138--21496206 Score: 86
Period size: 31 Copynumber: 2.3 Consensus size: 31
21496128 CACCATCCTA
** * *
21496138 TTTCA-TAATTTGATAGTCGATGTTATCCCT
1 TTTCATTAATTTGATAACCGAGGCTATCCCT
*
21496168 TTTCATTATTTTGATAACCGAGGCTATCCCT
1 TTTCATTAATTTGATAACCGAGGCTATCCCT
21496199 TTTCATTA
1 TTTCATTA
21496207 GCTGATAATC
Statistics
Matches: 33, Mismatches: 5, Indels: 1
0.85 0.13 0.03
Matches are distributed among these distances:
30 5 0.15
31 28 0.85
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (31 bp):
TTTCATTAATTTGATAACCGAGGCTATCCCT
Found at i:21505919 original size:108 final size:108
Alignment explanation
Indices: 21505723--21505920 Score: 308
Period size: 108 Copynumber: 1.8 Consensus size: 108
21505713 CACGAGGGTG
* * * *
21505723 TATCTTGAGGCTCTTATCAGGTTCTGCATGTACATCATCAGCTGGTTCAGTTTCAGCAGATTTTT
1 TATCTTGAGGCTCCTATCAGGTTCTGCAAGTACATCATCAGCCGGTTCAGTTTCAGCAGAATTTT
21505788 TTTCATTATACTTCTCAAGAACAGTCGCATCTTTCAAATTAGA
66 TTTCATTATACTTCTCAAGAACAGTCGCATCTTTCAAATTAGA
* * *
21505831 TATCTTGGGGCTCCTATCAGGTTCTGCAAGTACATTATCTGCCGGTTCAGTTTCAGCAGAATTTT
1 TATCTTGAGGCTCCTATCAGGTTCTGCAAGTACATCATCAGCCGGTTCAGTTTCAGCAGAATTTT
*
21505896 TTTCATTATCCTTCTCCAA-AACAGT
66 TTTCATTATACTTCT-CAAGAACAGT
21505921 TGCACCTGTC
Statistics
Matches: 81, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
108 78 0.96
109 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.16, T:0.38
Consensus pattern (108 bp):
TATCTTGAGGCTCCTATCAGGTTCTGCAAGTACATCATCAGCCGGTTCAGTTTCAGCAGAATTTT
TTTCATTATACTTCTCAAGAACAGTCGCATCTTTCAAATTAGA
Found at i:21507608 original size:10 final size:10
Alignment explanation
Indices: 21507576--21507643 Score: 63
Period size: 11 Copynumber: 6.8 Consensus size: 10
21507566 AATAAAATAT
*
21507576 ATATTTTT-T
1 ATATTTTTAA
21507585 ATATTTTT-A
1 ATATTTTTAA
21507594 A-ATTTTTAA
1 ATATTTTTAA
21507603 ATATTTTTAAA
1 ATATTTTT-AA
21507614 ATATTTTTAAA
1 ATATTTTT-AA
21507625 ATACTTTTTTAA
1 ATA--TTTTTAA
21507637 A-ATTTTT
1 ATATTTTT
21507644 TTAAAAAATT
Statistics
Matches: 53, Mismatches: 1, Indels: 10
0.83 0.02 0.16
Matches are distributed among these distances:
8 6 0.11
9 16 0.30
10 6 0.11
11 17 0.32
12 3 0.06
13 5 0.09
ACGTcount: A:0.37, C:0.01, G:0.00, T:0.62
Consensus pattern (10 bp):
ATATTTTTAA
Found at i:21507615 original size:11 final size:11
Alignment explanation
Indices: 21507595--21507649 Score: 76
Period size: 11 Copynumber: 4.9 Consensus size: 11
21507585 ATATTTTTAA
21507595 ATTTTT-AAAT
1 ATTTTTAAAAT
21507605 ATTTTTAAAAT
1 ATTTTTAAAAT
21507616 ATTTTTAAAAT
1 ATTTTTAAAAT
21507627 ACTTTTTTAAAAT
1 A--TTTTTAAAAT
*
21507640 TTTTTTAAAA
1 ATTTTTAAAA
21507650 AATTGGTGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 5
0.87 0.02 0.11
Matches are distributed among these distances:
10 6 0.15
11 25 0.61
13 10 0.24
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (11 bp):
ATTTTTAAAAT
Found at i:21513390 original size:17 final size:17
Alignment explanation
Indices: 21513368--21513401 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
21513358 TGTCATGACA
21513368 TAGGATTTCCGATATGT
1 TAGGATTTCCGATATGT
21513385 TAGGATTTCCGATATGT
1 TAGGATTTCCGATATGT
21513402 GTTTTCATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.41
Consensus pattern (17 bp):
TAGGATTTCCGATATGT
Done.