Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, 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: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 85 of 93
Found at i:13523680 original size:31 final size:31
Alignment explanation
Indices: 13523629--13523695 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
13523619 TACATTATTA
* * * *
13523629 ATAAATTAGATGATATTATTTTATTAATAAG
1 ATAAATCAGATAATAATATTTCATTAATAAG
*
13523660 ATAAATCAGATAATAATATTTCGTTAATAAG
1 ATAAATCAGATAATAATATTTCATTAATAAG
13523691 -TAAAT
1 ATAAAT
13523696 TTTTATAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
30 5 0.16
31 26 0.84
ACGTcount: A:0.48, C:0.03, G:0.09, T:0.40
Consensus pattern (31 bp):
ATAAATCAGATAATAATATTTCATTAATAAG
Found at i:13525609 original size:21 final size:21
Alignment explanation
Indices: 13525574--13525618 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
13525564 TTGATAAAAT
* *
13525574 ATTAAAATTTTAATTTTA-ATA
1 ATTAAAA-TGTAAATTTAGATA
13525595 ATTAAAATGTAAATTTAGATA
1 ATTAAAATGTAAATTTAGATA
13525616 ATT
1 ATT
13525619 TTAATTAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 8 0.38
21 13 0.62
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (21 bp):
ATTAAAATGTAAATTTAGATA
Found at i:13526290 original size:2 final size:2
Alignment explanation
Indices: 13526285--13526314 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
13526275 ATATAAAGAT
13526285 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13526315 TACCATTGCC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13536975 original size:9 final size:9
Alignment explanation
Indices: 13536961--13536989 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
13536951 ACCCTTCGGA
13536961 GGAGGTGGC
1 GGAGGTGGC
13536970 GGAGGTGGC
1 GGAGGTGGC
13536979 GGAGGTGGC
1 GGAGGTGGC
13536988 GG
1 GG
13536990 CGCAATAACC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.10, C:0.10, G:0.69, T:0.10
Consensus pattern (9 bp):
GGAGGTGGC
Found at i:13538353 original size:14 final size:14
Alignment explanation
Indices: 13538313--13538355 Score: 61
Period size: 15 Copynumber: 3.1 Consensus size: 14
13538303 TATTATAATT
13538313 AAAATTTT-TTAAA
1 AAAATTTTATTAAA
13538326 AAAATTTATATTAAA
1 AAAATTT-TATTAAA
*
13538341 TAAATTTTATTAAA
1 AAAATTTTATTAAA
13538355 A
1 A
13538356 TTAATATTTA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
13 7 0.27
14 8 0.31
15 11 0.42
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (14 bp):
AAAATTTTATTAAA
Found at i:13539093 original size:27 final size:26
Alignment explanation
Indices: 13539041--13539091 Score: 77
Period size: 26 Copynumber: 2.0 Consensus size: 26
13539031 TTAAAATTTA
*
13539041 ATAATTTTTAATATTAAAAAATAAAT
1 ATAATTTTAAATATTAAAAAATAAAT
13539067 ATAATTTTAAA-ATATAAAAAATAAA
1 ATAATTTTAAATAT-TAAAAAATAAA
13539092 ATTTAGATAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 21 0.91
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (26 bp):
ATAATTTTAAATATTAAAAAATAAAT
Found at i:13546969 original size:9 final size:9
Alignment explanation
Indices: 13546949--13546979 Score: 53
Period size: 9 Copynumber: 3.3 Consensus size: 9
13546939 GTAAAGTTTT
13546949 TAATTAAAAA
1 TAATT-AAAA
13546959 TAATTAAAA
1 TAATTAAAA
13546968 TAATTAAAA
1 TAATTAAAA
13546977 TAA
1 TAA
13546980 AAAATTAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
9 16 0.76
10 5 0.24
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (9 bp):
TAATTAAAA
Found at i:13551911 original size:22 final size:22
Alignment explanation
Indices: 13551881--13551922 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
13551871 TTTTAAAATT
13551881 AAAAAAATTAATTTGTATTTGG
1 AAAAAAATTAATTTGTATTTGG
*
13551903 AAAATAATTAATTTGTATTT
1 AAAAAAATTAATTTGTATTT
13551923 CATTTGGATG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.45, C:0.00, G:0.10, T:0.45
Consensus pattern (22 bp):
AAAAAAATTAATTTGTATTTGG
Found at i:13563199 original size:32 final size:32
Alignment explanation
Indices: 13563163--13563235 Score: 83
Period size: 32 Copynumber: 2.2 Consensus size: 32
13563153 TATGATACAT
* *
13563163 AATTTTTATATAAAATATGATATAAATATATA
1 AATTTTAATATAAAATATGATACAAATATATA
*** *
13563195 AATTTTAATATTTTATATGATACGAATATATA
1 AATTTTAATATAAAATATGATACAAATATATA
13563227 AATTATTAA
1 AATT-TTAA
13563236 ATCTAATGTT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
32 30 0.88
33 4 0.12
ACGTcount: A:0.49, C:0.01, G:0.04, T:0.45
Consensus pattern (32 bp):
AATTTTAATATAAAATATGATACAAATATATA
Found at i:13563792 original size:29 final size:29
Alignment explanation
Indices: 13563759--13563816 Score: 107
Period size: 29 Copynumber: 2.0 Consensus size: 29
13563749 GAGAATTTAA
13563759 TATAAAGTCTACAGTCAGTCATGTCATTC
1 TATAAAGTCTACAGTCAGTCATGTCATTC
*
13563788 TATAAAGTCTACAGTCGGTCATGTCATTC
1 TATAAAGTCTACAGTCAGTCATGTCATTC
13563817 AAACTCTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 28 1.00
ACGTcount: A:0.29, C:0.21, G:0.16, T:0.34
Consensus pattern (29 bp):
TATAAAGTCTACAGTCAGTCATGTCATTC
Found at i:13565404 original size:7 final size:7
Alignment explanation
Indices: 13565392--13565421 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
13565382 TATATGGTTG
13565392 TGCTAAC
1 TGCTAAC
13565399 TGCTAAC
1 TGCTAAC
13565406 TGCTAAC
1 TGCTAAC
13565413 TGCT-AC
1 TGCTAAC
13565419 TGC
1 TGC
13565422 GAAGTTTGCC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 5 0.22
7 18 0.78
ACGTcount: A:0.23, C:0.30, G:0.17, T:0.30
Consensus pattern (7 bp):
TGCTAAC
Found at i:13577835 original size:17 final size:17
Alignment explanation
Indices: 13577784--13577840 Score: 52
Period size: 17 Copynumber: 3.6 Consensus size: 17
13577774 AAATTATATC
*
13577784 AATAATTTAAATTATATA
1 AATAATTTTAATTA-ATA
13577802 AAT--TTTTAA--AA-A
1 AATAATTTTAATTAATA
13577814 AATAATTTTAATTAATA
1 AATAATTTTAATTAATA
*
13577831 AATAAATTTA
1 AATAATTTTA
13577841 TTTTATCATA
Statistics
Matches: 32, Mismatches: 2, Indels: 11
0.71 0.04 0.24
Matches are distributed among these distances:
12 4 0.12
13 1 0.03
14 7 0.22
16 7 0.22
17 10 0.31
18 3 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
AATAATTTTAATTAATA
Found at i:13577923 original size:27 final size:26
Alignment explanation
Indices: 13577880--13577937 Score: 73
Period size: 27 Copynumber: 2.2 Consensus size: 26
13577870 ATAAAATAAA
13577880 ATAATATTATTTAATTTAATCATATTT
1 ATAATATTATTTAATTTAATCATA-TT
* *
13577907 ATAATATTATCTT-ATTTTATTATATT
1 ATAATATTAT-TTAATTTAATCATATT
13577933 ATAAT
1 ATAAT
13577938 CTCTTCATCG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 7 0.25
27 19 0.68
28 2 0.07
ACGTcount: A:0.40, C:0.03, G:0.00, T:0.57
Consensus pattern (26 bp):
ATAATATTATTTAATTTAATCATATT
Found at i:13579043 original size:28 final size:28
Alignment explanation
Indices: 13578978--13579044 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
13578968 TATTTTAATT
13578978 ATATATAAATATAATATTTTACTAAATA
1 ATATATAAATATAATATTTTACTAAATA
* *
13579006 A-AGTATTAA-ATAATAATTTTATTAATATA
1 ATA-TATAAATATAAT-ATTTTACTAA-ATA
13579035 ATATATAAAT
1 ATATATAAAT
13579045 TAAATAAAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
27 6 0.19
28 15 0.48
29 9 0.29
30 1 0.03
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (28 bp):
ATATATAAATATAATATTTTACTAAATA
Found at i:13580121 original size:16 final size:17
Alignment explanation
Indices: 13580102--13580134 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
13580092 TTTGATAAAA
13580102 AAAAAGAAAA-AAATTT
1 AAAAAGAAAAGAAATTT
*
13580118 AAAAATAAAAGAAATTT
1 AAAAAGAAAAGAAATTT
13580135 CATTAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.73, C:0.00, G:0.06, T:0.21
Consensus pattern (17 bp):
AAAAAGAAAAGAAATTT
Found at i:13582910 original size:18 final size:19
Alignment explanation
Indices: 13582884--13582929 Score: 62
Period size: 18 Copynumber: 2.6 Consensus size: 19
13582874 CGTTTGTAAG
13582884 TTTTT-TTTTT-CATTTTA
1 TTTTTATTTTTACATTTTA
*
13582901 TTTTTATTTTTAGATTTTA
1 TTTTTATTTTTACATTTTA
13582920 -TTTTATTTTT
1 TTTTTATTTTT
13582930 GTTATTTGTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
17 5 0.19
18 15 0.58
19 6 0.23
ACGTcount: A:0.15, C:0.02, G:0.02, T:0.80
Consensus pattern (19 bp):
TTTTTATTTTTACATTTTA
Found at i:13583073 original size:23 final size:23
Alignment explanation
Indices: 13583030--13583073 Score: 54
Period size: 23 Copynumber: 1.9 Consensus size: 23
13583020 AAAAAAACAT
**
13583030 ATAATAATATTTTAATTAAAAAA
1 ATAATAATATTTTAAGGAAAAAA
13583053 ATAATAACTA-TTTAAGGAAAA
1 ATAATAA-TATTTTAAGGAAAA
13583074 TAAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
23 16 0.89
24 2 0.11
ACGTcount: A:0.59, C:0.02, G:0.05, T:0.34
Consensus pattern (23 bp):
ATAATAATATTTTAAGGAAAAAA
Found at i:13583186 original size:10 final size:10
Alignment explanation
Indices: 13583171--13583204 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
13583161 TAATGAAATT
13583171 ATAAAAAAAG
1 ATAAAAAAAG
13583181 ATAAAAAAA-
1 ATAAAAAAAG
*
13583190 ATAAAAAATG
1 ATAAAAAAAG
13583200 ATAAA
1 ATAAA
13583205 TTGTTTAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.79, C:0.00, G:0.06, T:0.15
Consensus pattern (10 bp):
ATAAAAAAAG
Found at i:13583558 original size:17 final size:17
Alignment explanation
Indices: 13583532--13583579 Score: 55
Period size: 17 Copynumber: 2.8 Consensus size: 17
13583522 ATTTTTAAAT
13583532 AATATAATAAAAAAG-A
1 AATATAATAAAAAAGTA
*
13583548 AATAGTAAT-AAACAGTA
1 AATA-TAATAAAAAAGTA
13583565 AATAATAATAAAAAA
1 AAT-ATAATAAAAAA
13583580 AATCACAATA
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
16 9 0.35
17 12 0.46
18 5 0.19
ACGTcount: A:0.71, C:0.02, G:0.06, T:0.21
Consensus pattern (17 bp):
AATATAATAAAAAAGTA
Found at i:13585831 original size:22 final size:24
Alignment explanation
Indices: 13585806--13585851 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
13585796 TTAAAAAAAG
*
13585806 AAAT-ACAAAA-ACATATATTAAT
1 AAATAACAAAATAAATATATTAAT
13585828 AAATAACAAAATAAATATATTAAT
1 AAATAACAAAATAAATATATTAAT
13585852 CATTTTGTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 4 0.19
23 6 0.29
24 11 0.52
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (24 bp):
AAATAACAAAATAAATATATTAAT
Found at i:13589448 original size:30 final size:30
Alignment explanation
Indices: 13589414--13589492 Score: 97
Period size: 30 Copynumber: 2.6 Consensus size: 30
13589404 GAAAGTTTTG
* *
13589414 GGTTTTGATTTTATGGTTTAAAAGGTTTAA
1 GGTTTTGATTTTACGGTTTAAAAGATTTAA
* *
13589444 GGTTTTCG-TTTTACGGTTTAGAAGATTTAG
1 GGTTTT-GATTTTACGGTTTAAAAGATTTAA
*
13589474 GGTTTTGATTTTAGGGTTT
1 GGTTTTGATTTTACGGTTT
13589493 GATTTTAGGA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 1 0.02
30 40 0.95
31 1 0.02
ACGTcount: A:0.20, C:0.03, G:0.27, T:0.51
Consensus pattern (30 bp):
GGTTTTGATTTTACGGTTTAAAAGATTTAA
Found at i:13589493 original size:13 final size:14
Alignment explanation
Indices: 13589469--13589501 Score: 59
Period size: 13 Copynumber: 2.4 Consensus size: 14
13589459 GTTTAGAAGA
13589469 TTTAGGGTTTTGAT
1 TTTAGGGTTTTGAT
13589483 TTTAGGG-TTTGAT
1 TTTAGGGTTTTGAT
13589496 TTTAGG
1 TTTAGG
13589502 ACTTAAAGAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 12 0.63
14 7 0.37
ACGTcount: A:0.15, C:0.00, G:0.30, T:0.55
Consensus pattern (14 bp):
TTTAGGGTTTTGAT
Found at i:13589633 original size:3 final size:3
Alignment explanation
Indices: 13589627--13589654 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
13589617 TTATGAAAAT
13589627 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA T
13589655 GCTTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:13589648 original size:28 final size:27
Alignment explanation
Indices: 13589595--13589648 Score: 65
Period size: 28 Copynumber: 2.0 Consensus size: 27
13589585 AAATTAATTA
* *
13589595 AAAATTTTTATATATATTTTTTTTATG
1 AAAATTTTTATATATATTATTATTATG
13589622 AAAATTTATTAT-TATTATTATTATTAT
1 AAAATTT-TTATATA-TATTATTATTAT
13589649 TATTATGCTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 14 0.61
ACGTcount: A:0.37, C:0.00, G:0.02, T:0.61
Consensus pattern (27 bp):
AAAATTTTTATATATATTATTATTATG
Found at i:13591207 original size:15 final size:15
Alignment explanation
Indices: 13591187--13591224 Score: 67
Period size: 15 Copynumber: 2.5 Consensus size: 15
13591177 CGTCTTCTAT
13591187 TTTTTATTTTTTTTA
1 TTTTTATTTTTTTTA
*
13591202 TTTTTATTTTTTTTG
1 TTTTTATTTTTTTTA
13591217 TTTTTATT
1 TTTTTATT
13591225 AATTATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.11, C:0.00, G:0.03, T:0.87
Consensus pattern (15 bp):
TTTTTATTTTTTTTA
Found at i:13591233 original size:25 final size:24
Alignment explanation
Indices: 13591186--13591233 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
13591176 CCGTCTTCTA
* *
13591186 TTTTTTATTTTTTTTATTTTTATT
1 TTTTTTATTTTTTTAATTATTATT
*
13591210 TTTTTTGTTTTTATTAATTATTAT
1 TTTTTTATTTTT-TTAATTATTAT
13591234 ATATAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 11 0.55
25 9 0.45
ACGTcount: A:0.17, C:0.00, G:0.02, T:0.81
Consensus pattern (24 bp):
TTTTTTATTTTTTTAATTATTATT
Found at i:13591572 original size:37 final size:37
Alignment explanation
Indices: 13591531--13591684 Score: 129
Period size: 37 Copynumber: 4.2 Consensus size: 37
13591521 AACACCATAT
* *
13591531 GTCAAAAAGTAAAGAATCAACTAG-GACAAC-GTCGCAA
1 GTCAAAAAATAAAGAATCAA-TAGAGACAACACT-GCAA
* *
13591568 GTCAAAAAATAAAGAA-CGATTGAGACAACACTGCAA
1 GTCAAAAAATAAAGAATCAATAGAGACAACACTGCAA
*
13591604 GTCAAAAAATAAAGAATCATTCAG-GACAACACTGCAA
1 GTCAAAAAATAAAGAATCAAT-AGAGACAACACTGCAA
* * * * * **
13591641 AT-AGAAAAGTAAAAAATCGATCGAGACAACACCACAA
1 GTCA-AAAAATAAAGAATCAATAGAGACAACACTGCAA
13591678 GTCAAAA
1 GTCAAAA
13591685 TTATGCCCGG
Statistics
Matches: 94, Mismatches: 16, Indels: 14
0.76 0.13 0.11
Matches are distributed among these distances:
35 2 0.02
36 30 0.32
37 60 0.64
38 2 0.02
ACGTcount: A:0.53, C:0.18, G:0.16, T:0.14
Consensus pattern (37 bp):
GTCAAAAAATAAAGAATCAATAGAGACAACACTGCAA
Found at i:13591604 original size:36 final size:37
Alignment explanation
Indices: 13591564--13591684 Score: 140
Period size: 37 Copynumber: 3.3 Consensus size: 37
13591554 GGACAACGTC
13591564 GCAAGTCAAAAAATAAAGAA-CGATTGAGACAACACT
1 GCAAGTCAAAAAATAAAGAATCGATTGAGACAACACT
*
13591600 GCAAGTCAAAAAATAAAGAATC-ATTCAGGACAACACT
1 GCAAGTCAAAAAATAAAGAATCGATTGA-GACAACACT
* * * * *
13591637 GCAAAT-AGAAAAGTAAAAAATCGATCGAGACAACACC
1 GCAAGTCA-AAAAATAAAGAATCGATTGAGACAACACT
*
13591674 ACAAGTCAAAA
1 GCAAGTCAAAA
13591685 TTATGCCCGG
Statistics
Matches: 71, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
36 25 0.35
37 42 0.59
38 4 0.06
ACGTcount: A:0.54, C:0.18, G:0.15, T:0.13
Consensus pattern (37 bp):
GCAAGTCAAAAAATAAAGAATCGATTGAGACAACACT
Found at i:13591898 original size:22 final size:22
Alignment explanation
Indices: 13591841--13591986 Score: 107
Period size: 22 Copynumber: 6.6 Consensus size: 22
13591831 TATACTCGGT
* *
13591841 GGTCTTAGAAATTATGCTTGGA
1 GGTCTTAGAAATTATGCCTAGA
* *
13591863 GGTTTTAAAAAATTATGCCTAGA
1 GGTCTT-AGAAATTATGCCTAGA
* *
13591886 GGTCTTAAAAATTATGCCAAGA
1 GGTCTTAGAAATTATGCCTAGA
* * *
13591908 GATCTTAGAAATTGTG-CTCGAA
1 GGTCTTAGAAATTATGCCTAG-A
* * *
13591930 GGTCTTAGAGATTGTGCCCAGA
1 GGTCTTAGAAATTATGCCTAGA
* * *
13591952 GGTCTTAGAGATTGTGTCT-GAA
1 GGTCTTAGAAATTATGCCTAG-A
*
13591974 GGTCTTACAAATT
1 GGTCTTAGAAATT
13591987 TCAAAATCTT
Statistics
Matches: 101, Mismatches: 19, Indels: 8
0.79 0.15 0.06
Matches are distributed among these distances:
21 3 0.03
22 78 0.77
23 20 0.20
ACGTcount: A:0.31, C:0.12, G:0.24, T:0.33
Consensus pattern (22 bp):
GGTCTTAGAAATTATGCCTAGA
Found at i:13591935 original size:44 final size:44
Alignment explanation
Indices: 13591885--13591986 Score: 125
Period size: 44 Copynumber: 2.3 Consensus size: 44
13591875 TTATGCCTAG
13591885 AGGTCTTAAAAATTATGCCAAGAGATCTTAGAAATTGTG-CTCGA
1 AGGTCTTAAAAATTATGCCAAGAGATCTTAGAAATTGTGTCT-GA
* * * * * *
13591929 AGGTCTTAGAGATTGTGCCCAGAGGTCTTAGAGATTGTGTCTGA
1 AGGTCTTAAAAATTATGCCAAGAGATCTTAGAAATTGTGTCTGA
*
13591973 AGGTCTTACAAATT
1 AGGTCTTAAAAATT
13591987 TCAAAATCTT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
44 47 0.96
45 2 0.04
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.31
Consensus pattern (44 bp):
AGGTCTTAAAAATTATGCCAAGAGATCTTAGAAATTGTGTCTGA
Found at i:13592304 original size:95 final size:97
Alignment explanation
Indices: 13592095--13592319 Score: 269
Period size: 96 Copynumber: 2.4 Consensus size: 97
13592085 GATATTATGT
* * * *
13592095 CCAGAGGTCTTGAAAATTATGCCCAGAAGCCTTACAGATTTCAAAATCTTTAAATGCTCCTCTTA
1 CCAGAGGTCTTGAAAATTGTGCCCAGAGGTCTTACAAATTTCAAAATCTTTAAATGCTCCTCTTA
* * * * * *
13592160 ATTAGAGGCACTGCAACTTTAAAATGTTTTGT
66 ATCAAAAGCAATGAAACTTTAAAATGTTTTGC
* * *
13592192 TC-GAGGTCTTGAAAATTGTGCCTAGAGGTCTTACAAAATTT-AAAATCTTTGAATG-TCCTC-T
1 CCAGAGGTCTTGAAAATTGTGCCCAGAGGTCTTAC-AAATTTCAAAATCTTTAAATGCTCCTCTT
13592253 AATCAAAAGCAATGAAACTTTAAAATGTTTTGC
65 AATCAAAAGCAATGAAACTTTAAAATGTTTTGC
* * *
13592286 CCAGAGGTATTGAAAATTGTACCCAAAGGTCTTA
1 CCAGAGGTCTTGAAAATTGTGCCCAGAGGTCTTA
13592320 GAGATTATAC
Statistics
Matches: 108, Mismatches: 18, Indels: 6
0.82 0.14 0.05
Matches are distributed among these distances:
94 29 0.27
95 32 0.30
96 41 0.38
97 6 0.06
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.32
Consensus pattern (97 bp):
CCAGAGGTCTTGAAAATTGTGCCCAGAGGTCTTACAAATTTCAAAATCTTTAAATGCTCCTCTTA
ATCAAAAGCAATGAAACTTTAAAATGTTTTGC
Found at i:13592855 original size:25 final size:25
Alignment explanation
Indices: 13592827--13592888 Score: 106
Period size: 25 Copynumber: 2.5 Consensus size: 25
13592817 TTTTCTTATG
13592827 GTGCGAATGCAAAAGTTTTATACAA
1 GTGCGAATGCAAAAGTTTTATACAA
*
13592852 GTGCGAATGCAAATGTTTTATACAA
1 GTGCGAATGCAAAAGTTTTATACAA
*
13592877 GTGCAAATGCAA
1 GTGCGAATGCAA
13592889 GTGATGCAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
25 35 1.00
ACGTcount: A:0.39, C:0.13, G:0.21, T:0.27
Consensus pattern (25 bp):
GTGCGAATGCAAAAGTTTTATACAA
Found at i:13601101 original size:31 final size:30
Alignment explanation
Indices: 13601032--13601109 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
13601022 TGGTTTGAGT
* *
13601032 TTTA-AAGGTTTTAGGGTTTAGTCTTAGGG
1 TTTAGAAGGTTTTAGGGTTGAGTCTTAGGA
* *
13601061 TTTATAAGGTTTTAGGGCTTGAGTTTTAGGA
1 TTTAGAAGGTTTTAGGG-TTGAGTCTTAGGA
*
13601092 TTTGGAAGGTTTT-GGGTT
1 TTTAGAAGGTTTTAGGGTT
13601110 TTGATTTTAT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
29 6 0.14
30 15 0.36
31 21 0.50
ACGTcount: A:0.19, C:0.03, G:0.32, T:0.46
Consensus pattern (30 bp):
TTTAGAAGGTTTTAGGGTTGAGTCTTAGGA
Found at i:13601175 original size:29 final size:29
Alignment explanation
Indices: 13601032--13601175 Score: 96
Period size: 29 Copynumber: 4.9 Consensus size: 29
13601022 TGGTTTGAGT
* *
13601032 TTTAAAGGTTTTAGGGTTT-AGTCTTAGGG
1 TTTAAAGGTTTTAGGGTTTGAAT-TTATGG
* *
13601061 TTTATAAGGTTTTAGGGCTTGAGTTT-TAGG
1 TTTA-AAGGTTTTAGGGTTTGAATTTAT-GG
* * **
13601091 ATTTGGAAGGTTTT-GGGTTTTGATTTTATAA
1 -TTT-AAAGGTTTTAGGG-TTTGAATTTATGG
* * **
13601122 TTTAAAGGGTTTAAGGTTTTCATTTATGG
1 TTTAAAGGTTTTAGGGTTTGAATTTATGG
*
13601151 TTTAAAGGATTTAGGGTTTGAATTT
1 TTTAAAGGTTTTAGGGTTTGAATTT
13601176 TAAGACTTAA
Statistics
Matches: 88, Mismatches: 19, Indels: 16
0.72 0.15 0.13
Matches are distributed among these distances:
29 40 0.45
30 26 0.30
31 21 0.24
32 1 0.01
ACGTcount: A:0.23, C:0.02, G:0.27, T:0.48
Consensus pattern (29 bp):
TTTAAAGGTTTTAGGGTTTGAATTTATGG
Found at i:13601488 original size:25 final size:22
Alignment explanation
Indices: 13601458--13601503 Score: 65
Period size: 25 Copynumber: 2.0 Consensus size: 22
13601448 TTCTTATTAT
13601458 CATTTTTAGATTATTATTTTTTAGG
1 CATTTTTAG--TATT-TTTTTTAGG
13601483 CATTTTTAGTATTTTTTTTAG
1 CATTTTTAGTATTTTTTTTAG
13601504 TTATTATCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
22 8 0.38
23 4 0.19
25 9 0.43
ACGTcount: A:0.22, C:0.04, G:0.11, T:0.63
Consensus pattern (22 bp):
CATTTTTAGTATTTTTTTTAGG
Found at i:13601614 original size:23 final size:21
Alignment explanation
Indices: 13601588--13601651 Score: 58
Period size: 23 Copynumber: 2.9 Consensus size: 21
13601578 TATCATGCAT
13601588 AAATATTAAAAAAATAAAACTCA
1 AAATATTAAAAAAATAAAA-T-A
* *
13601611 AAATA-AAAAAATAATAATATA
1 AAATATTAAAAA-AATAAAATA
*
13601632 AAAAATTCAAAAAAATAAAA
1 AAATATT-AAAAAAATAAAA
13601652 AATAAAAAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
21 5 0.15
22 12 0.36
23 16 0.48
ACGTcount: A:0.75, C:0.05, G:0.00, T:0.20
Consensus pattern (21 bp):
AAATATTAAAAAAATAAAATA
Found at i:13601621 original size:8 final size:8
Alignment explanation
Indices: 13601610--13601666 Score: 62
Period size: 8 Copynumber: 7.0 Consensus size: 8
13601600 AATAAAACTC
13601610 AAAATAAA
1 AAAATAAA
*
13601618 AAAATAAT
1 AAAATAAA
*
13601626 AATATAAA
1 AAAATAAA
*
13601634 AAATTCAAA
1 AAAAT-AAA
13601643 AAAAT-AA
1 AAAATAAA
13601650 AAAATAAA
1 AAAATAAA
13601658 AAAACTAAA
1 AAAA-TAAA
13601667 CTGAATTGGT
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
7 7 0.17
8 22 0.55
9 11 0.28
ACGTcount: A:0.79, C:0.04, G:0.00, T:0.18
Consensus pattern (8 bp):
AAAATAAA
Found at i:13604518 original size:33 final size:34
Alignment explanation
Indices: 13604472--13604568 Score: 133
Period size: 34 Copynumber: 2.9 Consensus size: 34
13604462 CATTTTCTAT
* * *
13604472 AAAACGTCACTATATT-AGGGCATTTGTATCTGA
1 AAAATGTCGCTATATTAACGGCATTTGTATCTGA
* *
13604505 AAAATGTCGCTATATTAACGACATTTGTATTTGA
1 AAAATGTCGCTATATTAACGGCATTTGTATCTGA
*
13604539 AAAATGTTGCTATATTAACGGCATTTGTAT
1 AAAATGTCGCTATATTAACGGCATTTGTAT
13604569 ATGGAAAACA
Statistics
Matches: 56, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
33 14 0.25
34 42 0.75
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (34 bp):
AAAATGTCGCTATATTAACGGCATTTGTATCTGA
Found at i:13610718 original size:16 final size:17
Alignment explanation
Indices: 13610699--13610843 Score: 68
Period size: 17 Copynumber: 8.2 Consensus size: 17
13610689 TCTTTTGAAT
13610699 TTTATGTATT-TTATTA
1 TTTATGTATTATTATTA
13610715 TTTAT-TATTATTATTA
1 TTTATGTATTATTATTA
13610731 -TTATGTATTAATATATGTA
1 TTTATGTATT-AT-TAT-TA
* *
13610750 TATCTGTATTTATTTATT-
1 TTTATGTA-TTA-TTATTA
* **
13610768 TTTATTTAGAATATATT-
1 TTTATGTATTAT-TATTA
*
13610785 TATATGTATTTTATTTATATA
1 TTTATGTA--TTA-TTAT-TA
* *
13610806 GTTATATATTTATTATTA
1 TTTATGTA-TTATTATTA
13610824 TTATAT-TATTATTATTA
1 TT-TATGTATTATTATTA
13610841 TTT
1 TTT
13610844 GTAATATATT
Statistics
Matches: 99, Mismatches: 15, Indels: 30
0.69 0.10 0.21
Matches are distributed among these distances:
15 8 0.08
16 17 0.17
17 24 0.24
18 13 0.13
19 14 0.14
20 15 0.15
21 8 0.08
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (17 bp):
TTTATGTATTATTATTA
Found at i:13610722 original size:3 final size:3
Alignment explanation
Indices: 13610700--13610842 Score: 53
Period size: 3 Copynumber: 43.7 Consensus size: 3
13610690 CTTTTGAATT
*
13610700 TTA TGTA TT- TTA TTA TTTA TTA TTA TTA TTA TTA TGTA TTA ATA -TA
1 TTA T-TA TTA TTA TTA -TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA
* * **
13610746 TGTA TATC TGTA TTTA TTTA TTT TTA TTTA GAA TATA TT- TATA TGTA
1 T-TA T-TA T-TA -TTA -TTA TTA TTA -TTA TTA T-TA TTA T-TA T-TA
13610793 TT- TTA TTTA TATA GTTA TATA TTTA TTA TTA TTA -TA TTA TTA TTA
1 TTA TTA -TTA T-TA -TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA
13610838 TTA TT
1 TTA TT
13610843 TGTAATATAT
Statistics
Matches: 110, Mismatches: 12, Indels: 36
0.70 0.08 0.23
Matches are distributed among these distances:
2 9 0.08
3 57 0.52
4 41 0.37
5 3 0.03
ACGTcount: A:0.31, C:0.01, G:0.05, T:0.63
Consensus pattern (3 bp):
TTA
Found at i:13610795 original size:31 final size:32
Alignment explanation
Indices: 13610713--13610836 Score: 85
Period size: 31 Copynumber: 3.8 Consensus size: 32
13610703 TGTATTTTAT
* * *
13610713 TATTTATTATTA-TTATTATTATGTATTAATA
1 TATTTATTATTATTTATTTTTATTTAGTAATA
13610744 TATGTATATCTGTATTTATTTATTTTTATTTAG-AATA
1 TAT-T-TA--T-TA-TTATTTATTTTTATTTAGTAATA
* * *
13610781 TATTTA-TATGTATTT-TATTTATATAGTTATA
1 TATTTATTAT-TATTTATTTTTATTTAGTAATA
*
13610812 TATTTATTATTATTATATTATTATT
1 TATTTATTATTATT-TATTTTTATT
13610837 ATTATTTGTA
Statistics
Matches: 72, Mismatches: 9, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
30 10 0.14
31 23 0.32
32 5 0.07
33 7 0.10
35 3 0.04
36 3 0.04
37 10 0.14
38 11 0.15
ACGTcount: A:0.32, C:0.01, G:0.05, T:0.62
Consensus pattern (32 bp):
TATTTATTATTATTTATTTTTATTTAGTAATA
Found at i:13612114 original size:123 final size:121
Alignment explanation
Indices: 13611965--13612189 Score: 362
Period size: 120 Copynumber: 1.8 Consensus size: 121
13611955 AAAAAAATCA
* *
13611965 AAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAAATTTTCCTTGAAAATCAAAATTTCCAAAA
1 AAAAATATATTTTTAGGAAAAAGTTGAAAGTATC-AATTTTCCTTGAAAATCAAAATTTCC--AA
*
13612030 AAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
63 AAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
* * *
13612089 AAAAA-ATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAATTTTCAAAAC
1 AAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAA
13612153 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTT
66 AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTT
13612190 CCCTACACAA
Statistics
Matches: 95, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
120 40 0.42
122 24 0.25
123 26 0.27
124 5 0.05
ACGTcount: A:0.47, C:0.08, G:0.12, T:0.34
Consensus pattern (121 bp):
AAAAATATATTTTTAGGAAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTCCAAAAA
AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATTTCC
Found at i:13612143 original size:63 final size:63
Alignment explanation
Indices: 13611962--13612189 Score: 228
Period size: 57 Copynumber: 3.7 Consensus size: 63
13611952 AATAAAAAAA
*
13611962 TCAAAAAATATATTTTTGGGGAAAAGTTGAAAGTATCAAATTTTCCTTGAAAATCAAAATTTCCA
1 TCAAAAAA-ATATTTTTGAGGAAAAGTTGAAAGTATC-AATTTTCCTTGAAAATCAAAA--T--A
13612027 AA--
60 AATT
** *
13612029 AAAAAAAAATGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTT----A--AAAATAAATT
1 TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATAAATT
* *
13612086 TCCAAAAAATATTTTT-AGGAAAAAGTTGAAAGTATCAATTTTCTTTGAAAATCAAAAT---TT
1 TCAAAAAAATATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATAAATT
13612146 TCAAAACAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTT
1 TC--AA-AAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTT
13612190 CCCTACACAA
Statistics
Matches: 138, Mismatches: 10, Indels: 30
0.78 0.06 0.17
Matches are distributed among these distances:
55 3 0.02
56 3 0.02
57 38 0.28
59 4 0.03
60 4 0.03
61 2 0.01
62 1 0.01
63 38 0.28
64 3 0.02
65 10 0.07
66 26 0.19
67 6 0.04
ACGTcount: A:0.46, C:0.08, G:0.12, T:0.34
Consensus pattern (63 bp):
TCAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATAAATT
Found at i:13612232 original size:6 final size:6
Alignment explanation
Indices: 13612221--13612248 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
13612211 TTTTCCTTCC
13612221 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
1 TTTTGA TTTTGA TTTTGA TTTTGA TTTT
13612249 TTTTTAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.14, C:0.00, G:0.14, T:0.71
Consensus pattern (6 bp):
TTTTGA
Found at i:13614749 original size:186 final size:186
Alignment explanation
Indices: 13614508--13615981 Score: 1630
Period size: 186 Copynumber: 7.9 Consensus size: 186
13614498 AAAATGTTTG
* * * * *
13614508 GGATTATTAAAGGTATCTTCCAGTAAAAAATACCTTCAAT-TATCCATAGCTCAAATTTTAAGAC
1 GGATTATTAAAGGCATCTTCCAGTGAAAAATACCTTTAATAT-TTCACAGCTCAAATTTTAAGAC
* * * * * *
13614572 GTTTAGTCAAGGCGTTTTTTCTAGAACAATGCATTCACTAATTCCTTCTAATTTATGTACATAAT
65 GATTAGTGAAGGCGTTTATTCTAGAACAATGCCTTCACTAATTTCTTCTAATTTACGTACATAAT
* * *
13614637 TATTATAGGTATTTTTTTAAAACAAACGCCTTCAATAATTTTTTCCTATAATTTTTA
130 TATTATAGGCATTTTTTCAAAACAAACGCCTTCAATAATTTTTTCTTATAATTTTTA
* * * * *
13614694 GGATTATTAAAGGCGTCTTCTAGTGAAAAATACCTTTAAGATTTCACAACTCAAATTTTAAGATG
1 GGATTATTAAAGGCATCTTCCAGTGAAAAATACCTTTAATATTTCACAGCTCAAATTTTAAGACG
* * * * ** * * *
13614759 GTTAGTAAAGGTGTTTATTCTAGAATAACACCTTTACTAATTTCTTGTAATTTACATACATAATT
66 ATTAGTGAAGGCGTTTATTCTAGAACAATGCCTTCACTAATTTCTTCTAATTTACGTACATAATT
* * * * * *
13614824 ATTGA-AGGTATTTTTTCAGAATAAACACCTTTAATAATTTTTTATTATAATTTTT-
131 ATT-ATAGGCATTTTTTCAAAACAAACGCCTTCAATAATTTTTTCTTATAATTTTTA
* * * * *
13614879 GAGATTATTAAAGGCATCTTCCAGTGAAAAACATCATAAATATTTCACAGCTCAAATTTTAACAC
1 G-GATTATTAAAGGCATCTTCCAGTGAAAAATACCTTTAATATTTCACAGCTCAAATTTTAAGAC
* * * * * *
13614944 GATTAGTAAAGGCATTTATTTTAGAACAATGCCTTAACTAATTTCTTCTAATTTATGGACATAAT
65 GATTAGTGAAGGCGTTTATTCTAGAACAATGCCTTCACTAATTTCTTCTAATTTACGTACATAAT
* * *
13615009 TATTATAGGCATTTTTTCAGAACAAACACTTTCAATAATTTTTTCTTATAATTTTTA
130 TATTATAGGCATTTTTTCAAAACAAACGCCTTCAATAATTTTTTCTTATAATTTTTA
* * * * *
13615066 AGATTATTAAAGGTATCTTTCAGTGAAAAAT-GCTTTCAATA-TTCTACAGCTCAAATTTTAACA
1 GGATTATTAAAGGCATCTTCCAGTGAAAAATACCTTT-AATATTTC-ACAGCTCAAATTTTAAGA
* * *
13615129 C-AGTTAGTGAAGGCATTTATTCTAGAACAATGCATTCACTAATTCCTTCTAATTTACGTACATA
64 CGA-TTAGTGAAGGCGTTTATTCTAGAACAATGCCTTCACTAATTTCTTCTAATTTACGTACATA
*
13615193 ATTATTATAGGCATTTTTTCAAAACAAACGCCTTCAATAATTTTCTCTTATAATTTTTTA
128 ATTATTATAGGCATTTTTTCAAAACAAACGCCTTCAATAATTTTTTCTTATAA-TTTTTA
* * * * * * *
13615253 -GATTATTAAAGGCGTTTTCTAATGAAAAATACCTTTAATATTTCATAGCTCAAACTTTAAGACA
1 GGATTATTAAAGGCATCTTCCAGTGAAAAATACCTTTAATATTTCACAGCTCAAATTTTAAGACG
* * *
13615317 ATTAGTGAAGGCATTTATTCTAGAACAACGCCTTCACTAATTTTTTCT-ATCTTACGTACATAAT
66 ATTAGTGAAGGCGTTTATTCTAGAACAATGCCTTCACTAATTTCTTCTAAT-TTACGTACATAAT
*
13615381 TATT-TAAGGCATTTTTTCAAAACAAACACCTTCAATAATTTTCTT-TTATAATTTTTA
130 TATTAT-AGGCATTTTTTCAAAACAAACGCCTTCAATAATTTT-TTCTTATAATTTTTA
* * * * * * *
13615438 GGATTATTAAAAGCATCTTCCAATAAAAAAAATCTTTAATATTTCACAACTCAAATTTTAACACG
1 GGATTATTAAAGGCATCTTCCAGTGAAAAATACCTTTAATATTTCACAGCTCAAATTTTAAGACG
* * * * * * *
13615503 GTTAGTGAATGTGTTTATTCTAGAATAATGCTTTCACTAATTTTTTCTAATTTACGTACACAATT
66 ATTAGTGAAGGCGTTTATTCTAGAACAATGCCTTCACTAATTTCTTCTAATTTACGTACATAATT
* * *
13615568 ATTGA-AGGTATTTTTTCAAAACAAACGCTTTTAATAATTTCTTT-TTATAATTTTTA
131 ATT-ATAGGCATTTTTTCAAAACAAACGCCTTCAATAATTT-TTTCTTATAATTTTTA
** * * * *
13615624 AAATTATTAAAGGCGTCTTCCAGTGAAAAACACCTTCAATATTTCACAGCTCAAATTTTAAGATG
1 GGATTATTAAAGGCATCTTCCAGTGAAAAATACCTTTAATATTTCACAGCTCAAATTTTAAGACG
* * * * * *
13615689 GTTAGTGAAGGCGTTTATACTTGAACAATGCTTTCACTAATTTCTTCTAGTTTATGTACATAATT
66 ATTAGTGAAGGCGTTTATTCTAGAACAATGCCTTCACTAATTTCTTCTAATTTACGTACATAATT
* * * * *
13615754 ATTATAGGCATTTTTTTAGAATAAATGCCTTCAATAATTTTCTCTTATAATTTTTA
131 ATTATAGGCATTTTTTCAAAACAAACGCCTTCAATAATTTTTTCTTATAATTTTTA
* * * *** * * * *
13615810 AGATTATTAAAGGCGT-TTGTCAGTGAAAAACGTCTTCAATATTCCACAGCTCAAACTTTAAGAT
1 GGATTATTAAAGGCATCTT-CCAGTGAAAAATACCTTTAATATTTCACAGCTCAAATTTTAAGAC
** * *
13615874 GATT-GTTGAAGGCGTTTATTCTAGAACAACACCTTCACTAATTTCTTTTAATTTACATACATAA
65 GATTAG-TGAAGGCGTTTATTCTAGAACAATGCCTTCACTAATTTCTTCTAATTTACGTACATAA
* * *
13615938 TTATTGA-AAGTATTTTTTCAAAA-AAATGCCTTCAATAATTTTTT
129 TTATT-ATAGGCATTTTTTCAAAACAAACGCCTTCAATAATTTTTT
13615982 TTGAAAATTA
Statistics
Matches: 1098, Mismatches: 165, Indels: 51
0.84 0.13 0.04
Matches are distributed among these distances:
185 43 0.04
186 1034 0.94
187 21 0.02
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (186 bp):
GGATTATTAAAGGCATCTTCCAGTGAAAAATACCTTTAATATTTCACAGCTCAAATTTTAAGACG
ATTAGTGAAGGCGTTTATTCTAGAACAATGCCTTCACTAATTTCTTCTAATTTACGTACATAATT
ATTATAGGCATTTTTTCAAAACAAACGCCTTCAATAATTTTTTCTTATAATTTTTA
Found at i:13615570 original size:558 final size:554
Alignment explanation
Indices: 13614509--13615983 Score: 1978
Period size: 558 Copynumber: 2.6 Consensus size: 554
13614499 AAATGTTTGG
* * *
13614509 GATTATTAAAGGTATCTTCCAGTAAAAAATACCTTCAAT-TATCCATAGCTCAAATTTTAAGACG
1 GATTATTAAAGGTATCTTCCAGTGAAAAATACCTTCAATAT-TCTACAGCTCAAATTTTAAGACG
* *
13614573 TTTAGTCAAGGCGTTTTTTCTAGAACAATGCATTCACTAATTCCTTCTAATTTATGTACATAATT
65 -TTAGTGAAGGCGTTTATTCTAGAACAATGCATTCACTAATTCCTTCTAATTTATGTACATAATT
* * *
13614638 ATTATAGGTATTTTTTTAAAACAAACGCCTTCAATAATTTTTTCCTATAA-TTTTTAGGATTATT
129 ATTATAGGCATTTTTTTAAAACAAACGCCTTCAATAATTTTCTCTTATAATTTTTTA-GATTATT
* * * * * *
13614702 AAAGGCGTCTTCTAGTGAAAAATACCTTTAAGATTTCACAACTCAAATTTTAAGATGGTTAGTAA
193 AAAGGCGTTTTCTAGTGAAAAATACCTTTAATATTTCACAGCTCAAACTTTAAGATGATTAGTGA
* * * *
13614767 AGGTGTTTATTCTAGAATAACACCTTTACTAATTTCTTGTAATTTACATACATAATTATTGAAGG
258 AGGCGTTTATTCTAGAACAACACCTTCACTAATTT-TTTTAATTTACATACATAATTATTGAAGG
* * *
13614832 TATTTTTTCAGAATAAACACCTTTAATAATTTTTTATTATAATTTTTGAGATTATTAAAGGCATC
322 TATTTTTTCA-AAAAAACACCTTCAATAATTTTTT-TTATAATTTTTGAGATTATTAAAAGCATC
* * * *
13614897 TTCCAGTGAAAAACATCATAAATATTTCACAGCTCAAATTTTAACACGATTAGTAAAGGCATTTA
385 TTCCAATAAAAAAAATCATAAATATTTCACAACTCAAATTTTAACACGATTAGTAAAGGCATTTA
* * *
13614962 TTTTAGAACAATGCCTTAACTAATTTCTTCTAATTTATGGACATAATTATT-ATAGGCATTTTTT
450 TTCTAGAACAATGCCTTAACTAATTTCTTCTAATTTACGGACACAATTATTGA-AGGCATTTTTT
*
13615026 CAGAACAAACACTTTCAATAATTT-TTTCTTATAATTTTTAA
514 CAAAACAAACACTTTCAATAATTTCTTT-TTATAATTTTTAA
* * * *
13615067 GATTATTAAAGGTATCTTTCAGTGAAAAATGCTTTCAATATTCTACAGCTCAAATTTTAACACAG
1 GATTATTAAAGGTATCTTCCAGTGAAAAATACCTTCAATATTCTACAGCTCAAATTTTAAGAC-G
* *
13615132 TTAGTGAAGGCATTTATTCTAGAACAATGCATTCACTAATTCCTTCTAATTTACGTACATAATTA
65 TTAGTGAAGGCGTTTATTCTAGAACAATGCATTCACTAATTCCTTCTAATTTATGTACATAATTA
*
13615197 TTATAGGCATTTTTTCAAAACAAACGCCTTCAATAATTTTCTCTTATAATTTTTTAGATTATTAA
130 TTATAGGCATTTTTTTAAAACAAACGCCTTCAATAATTTTCTCTTATAATTTTTTAGATTATTAA
* * **
13615262 AGGCGTTTTCTAATGAAAAATACCTTTAATATTTCATAGCTCAAACTTTAAGACAATTAGTGAAG
195 AGGCGTTTTCTAGTGAAAAATACCTTTAATATTTCACAGCTCAAACTTTAAGATGATTAGTGAAG
* * * * *
13615327 GCATTTATTCTAGAACAACGCCTTCACTAATTTTTTCT-ATCTTACGTACATAATTATTTAAGGC
260 GCGTTTATTCTAGAACAACACCTTCACTAATTTTTT-TAAT-TTACATACATAATTATTGAAGGT
13615391 ATTTTTTCAAAACAAACACCTTCAATAATTTTCTTTTATAATTTTT-AGGATTATTAAAAGCATC
323 ATTTTTTCAAAA-AAACACCTTCAATAATTTT-TTTTATAATTTTTGA-GATTATTAAAAGCATC
* * * * * **
13615455 TTCCAATAAAAAAAATCTTTAATATTTCACAACTCAAATTTTAACACGGTTAGTGAATGTGTTTA
385 TTCCAATAAAAAAAATCATAAATATTTCACAACTCAAATTTTAACACGATTAGTAAAGGCATTTA
* * * * * *
13615520 TTCTAGAATAATGCTTTCACTAATTTTTTCTAATTTACGTACACAATTATTGAAGGTATTTTTTC
450 TTCTAGAACAATGCCTTAACTAATTTCTTCTAATTTACGGACACAATTATTGAAGGCATTTTTTC
* *
13615585 AAAACAAACGCTTTTAATAATTTCTTTTTATAATTTTTAA
515 AAAACAAACACTTTCAATAATTTCTTTTTATAATTTTTAA
* ** * *
13615625 AATTATTAAAGGCGTCTTCCAGTGAAAAACACCTTCAATATT-TCACAGCTCAAATTTTAAGATG
1 GATTATTAAAGGTATCTTCCAGTGAAAAATACCTTCAATATTCT-ACAGCTCAAATTTTAAGA-C
* * * * *
13615689 GTTAGTGAAGGCGTTTATACTTGAACAATGCTTTCACTAATTTCTTCTAGTTTATGTACATAATT
64 GTTAGTGAAGGCGTTTATTCTAGAACAATGCATTCACTAATTCCTTCTAATTTATGTACATAATT
* * * *
13615754 ATTATAGGCATTTTTTTAGAATAAATGCCTTCAATAATTTTCTCTTATAATTTTTAAGATTATTA
129 ATTATAGGCATTTTTTTAAAACAAACGCCTTCAATAATTTTCTCTTATAATTTTTTAGATTATTA
*** * *
13615819 AAGGCGTTTGTC-AGTGAAAAACGTCTTCAATATTCCACAGCTCAAACTTTAAGATGATT-GTTG
194 AAGGCGTTT-TCTAGTGAAAAATACCTTTAATATTTCACAGCTCAAACTTTAAGATGATTAG-TG
*
13615882 AAGGCGTTTATTCTAGAACAACACCTTCACTAATTTCTTTTAATTTACATACATAATTATTGAAA
257 AAGGCGTTTATTCTAGAACAACACCTTCACTAATTT-TTTTAATTTACATACATAATTATTGAAG
**
13615947 GTATTTTTTCAAAAAAATGCCTTCAATAATTTTTTTT
321 GTATTTTTTCAAAAAAACACCTTCAATAATTTTTTTT
13615984 GAAAATTATT
Statistics
Matches: 803, Mismatches: 98, Indels: 34
0.86 0.10 0.04
Matches are distributed among these distances:
556 4 0.00
557 26 0.03
558 752 0.94
559 21 0.03
ACGTcount: A:0.35, C:0.14, G:0.10, T:0.41
Consensus pattern (554 bp):
GATTATTAAAGGTATCTTCCAGTGAAAAATACCTTCAATATTCTACAGCTCAAATTTTAAGACGT
TAGTGAAGGCGTTTATTCTAGAACAATGCATTCACTAATTCCTTCTAATTTATGTACATAATTAT
TATAGGCATTTTTTTAAAACAAACGCCTTCAATAATTTTCTCTTATAATTTTTTAGATTATTAAA
GGCGTTTTCTAGTGAAAAATACCTTTAATATTTCACAGCTCAAACTTTAAGATGATTAGTGAAGG
CGTTTATTCTAGAACAACACCTTCACTAATTTTTTTAATTTACATACATAATTATTGAAGGTATT
TTTTCAAAAAAACACCTTCAATAATTTTTTTTATAATTTTTGAGATTATTAAAAGCATCTTCCAA
TAAAAAAAATCATAAATATTTCACAACTCAAATTTTAACACGATTAGTAAAGGCATTTATTCTAG
AACAATGCCTTAACTAATTTCTTCTAATTTACGGACACAATTATTGAAGGCATTTTTTCAAAACA
AACACTTTCAATAATTTCTTTTTATAATTTTTAA
Found at i:13616575 original size:25 final size:24
Alignment explanation
Indices: 13616547--13616612 Score: 78
Period size: 25 Copynumber: 2.6 Consensus size: 24
13616537 AATTGTATAT
*
13616547 TGAATGGTGTTTGTGAATGGTTTGC
1 TGAATGGTGTTT-TGAATGATTTGC
*
13616572 TGAATGGTGGTTTTGAGTGATTTGC
1 TGAATGGT-GTTTTGAATGATTTGC
*
13616597 TGAAGGGTGTGTTTGA
1 TGAATGGTGT-TTTGA
13616613 GCACATTGCT
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
24 2 0.06
25 30 0.83
26 4 0.11
ACGTcount: A:0.17, C:0.03, G:0.38, T:0.42
Consensus pattern (24 bp):
TGAATGGTGTTTTGAATGATTTGC
Found at i:13619805 original size:35 final size:35
Alignment explanation
Indices: 13619752--13619821 Score: 104
Period size: 35 Copynumber: 2.0 Consensus size: 35
13619742 ATATATAAAC
* * *
13619752 CAAATGTTTTCTGGGCATAAATATACAACTGACTT
1 CAAATGTTTTATGAGCATAAACATACAACTGACTT
*
13619787 CAAATGTTTTATGAGCATAAACCTACAACTGACTT
1 CAAATGTTTTATGAGCATAAACATACAACTGACTT
13619822 GACATATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 31 1.00
ACGTcount: A:0.36, C:0.19, G:0.13, T:0.33
Consensus pattern (35 bp):
CAAATGTTTTATGAGCATAAACATACAACTGACTT
Found at i:13622623 original size:52 final size:52
Alignment explanation
Indices: 13622519--13622623 Score: 140
Period size: 52 Copynumber: 2.0 Consensus size: 52
13622509 TATGACCATA
* * * * * *
13622519 CAAACTTGCCTATTAAGAATCATTTTCCTTTTAGAATTTTTTTTCTGTAAGT
1 CAAACTTGCCAATTAAAAATCATTTTCCTTTTAGAATTCTTATTATGCAAGT
13622571 CAAACTTGCCAATTAAAAATC-TCTTTCCTTTTAGAATTCTTATTATGCAAGT
1 CAAACTTGCCAATTAAAAATCAT-TTTCCTTTTAGAATTCTTATTATGCAAGT
13622623 C
1 C
13622624 TTCTTATCCA
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
51 1 0.02
52 45 0.98
ACGTcount: A:0.30, C:0.18, G:0.09, T:0.44
Consensus pattern (52 bp):
CAAACTTGCCAATTAAAAATCATTTTCCTTTTAGAATTCTTATTATGCAAGT
Found at i:13622675 original size:22 final size:22
Alignment explanation
Indices: 13622644--13622690 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
13622634 TCAAGTAATA
* * *
13622644 TCTAACAAATCTCAAATATATC
1 TCTAACAAATCCCAAACAAATC
*
13622666 TCTAATAAATCCCAAACAAATC
1 TCTAACAAATCCCAAACAAATC
13622688 TCT
1 TCT
13622691 TATGGGATTT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.45, C:0.26, G:0.00, T:0.30
Consensus pattern (22 bp):
TCTAACAAATCCCAAACAAATC
Found at i:13624203 original size:2 final size:2
Alignment explanation
Indices: 13624196--13624233 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
13624186 CAGCTACTAC
13624196 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13624234 GAGAGAGAGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:13624238 original size:2 final size:2
Alignment explanation
Indices: 13624233--13624278 Score: 92
Period size: 2 Copynumber: 23.0 Consensus size: 2
13624223 ATATATATAT
13624233 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13624275 AG AG
1 AG AG
13624279 GAAGATTCCG
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 44 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:13636705 original size:13 final size:12
Alignment explanation
Indices: 13636672--13636712 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 12
13636662 ATTAAATAAT
13636672 TAAGCTATTAAA
1 TAAGCTATTAAA
*
13636684 TAATACTATTCAAA
1 TAA-GCTATT-AAA
13636698 TAAGCTATTAAA
1 TAAGCTATTAAA
13636710 TAA
1 TAA
13636713 TGGAGGACAT
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
12 9 0.36
13 10 0.40
14 6 0.24
ACGTcount: A:0.51, C:0.10, G:0.05, T:0.34
Consensus pattern (12 bp):
TAAGCTATTAAA
Found at i:13642505 original size:16 final size:17
Alignment explanation
Indices: 13642481--13642514 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13642471 AAAATATTTT
*
13642481 TTAATATAAATATCAAA
1 TTAATATAAATATAAAA
13642498 TTAA-ATAAATATAAAA
1 TTAATATAAATATAAAA
13642514 T
1 T
13642515 ATTTAAATAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (17 bp):
TTAATATAAATATAAAA
Found at i:13642513 original size:39 final size:41
Alignment explanation
Indices: 13642469--13642579 Score: 118
Period size: 43 Copynumber: 2.6 Consensus size: 41
13642459 TTTGAAATTA
* *
13642469 ATAAAATATTT-TTTA-ATATAAATATCAAATTAAATAAAT
1 ATAAAATATTTATATATATATAAATATAAAATTAAATAAAT
*
13642508 ATAAAATATTTAAATATATATATAAATATAAAATTTAATAAAT
1 ATAAAATATTT--ATATATATATAAATATAAAATTAAATAAAT
*
13642551 AATTAAAAATAATTATATATATATCAAAT
1 -A-T-AAAATATTTATATATATAT-AAAT
13642580 TGAGTTGAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
39 11 0.18
42 3 0.05
43 22 0.37
44 11 0.18
45 5 0.08
46 8 0.13
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.40
Consensus pattern (41 bp):
ATAAAATATTTATATATATATAAATATAAAATTAAATAAAT
Found at i:13642522 original size:19 final size:20
Alignment explanation
Indices: 13642498--13642536 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
13642488 AAATATCAAA
13642498 TTAAATAAATATA-AAATAT
1 TTAAATAAATATATAAATAT
*
13642517 TTAAATATATATATAAATAT
1 TTAAATAAATATATAAATAT
13642537 AAAATTTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 12 0.67
20 6 0.33
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAAATAAATATATAAATAT
Found at i:13642548 original size:43 final size:46
Alignment explanation
Indices: 13642484--13642574 Score: 125
Period size: 43 Copynumber: 2.0 Consensus size: 46
13642474 ATATTTTTTA
* *
13642484 ATATAAATATCAAATTAAATAAAT-A-T-AAAATATTTAAATATAT
1 ATATAAATATAAAATTAAATAAATAATTAAAAATAATTAAATATAT
* *
13642527 ATATAAATATAAAATTTAATAAATAATTAAAAATAATTATATATAT
1 ATATAAATATAAAATTAAATAAATAATTAAAAATAATTAAATATAT
13642573 AT
1 AT
13642575 CAAATTGAGT
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
43 22 0.54
44 1 0.02
45 1 0.02
46 17 0.41
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.38
Consensus pattern (46 bp):
ATATAAATATAAAATTAAATAAATAATTAAAAATAATTAAATATAT
Found at i:13642550 original size:16 final size:15
Alignment explanation
Indices: 13642485--13642551 Score: 52
Period size: 16 Copynumber: 4.5 Consensus size: 15
13642475 TATTTTTTAA
*
13642485 TATAAATATCAAATT
1 TATAAATATAAAATT
*
13642500 AAATAAATATAAAATAT
1 -TATAAATATAAAAT-T
*
13642517 T-TAAATAT---ATA
1 TATAAATATAAAATT
13642528 TATAAATATAAAATT
1 TATAAATATAAAATT
13642543 TAATAAATA
1 T-ATAAATA
13642552 ATTAAAAATA
Statistics
Matches: 40, Mismatches: 5, Indels: 12
0.70 0.09 0.21
Matches are distributed among these distances:
11 1 0.03
12 9 0.22
15 10 0.25
16 19 0.47
17 1 0.03
ACGTcount: A:0.61, C:0.01, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATATAAAATT
Found at i:13643220 original size:24 final size:21
Alignment explanation
Indices: 13643181--13643245 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 21
13643171 ATAATATAAA
* *
13643181 AATAATATAATTTAAAATTTT
1 AATAAAATAATATAAAATTTT
13643202 AATAATAATTATATATAAAATTTTT
1 AATAA-AA-TA-ATATAAAA-TTTT
13643227 AATAAAATAATA-AAAATTT
1 AATAAAATAATATAAAATTT
13643246 AAATTTAAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
20 3 0.08
21 9 0.24
22 4 0.11
23 4 0.11
24 9 0.24
25 9 0.24
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (21 bp):
AATAAAATAATATAAAATTTT
Found at i:13662423 original size:51 final size:49
Alignment explanation
Indices: 13662347--13662475 Score: 120
Period size: 51 Copynumber: 2.6 Consensus size: 49
13662337 TTTTAATTTG
* * * *
13662347 TATATTTAAGTAATTTTTTATAAATATCTATTAATA-TATATTAAT-AAAAA
1 TATATTT-ATTAATTATATATAAATAT-AATTAATACTAT-TTAATAAAAAA
*
13662397 TATATTTACTTTAATTA-ATATGAAATAATAATTTATACTATTTAATAAAAAA
1 TATATTTA--TTAATTATATAT-AAAT-ATAATTAATACTATTTAATAAAAAA
*
13662449 TTTATTTATTAATTATATATAAATATA
1 TATATTTATTAATTATATATAAATATA
13662476 TATAGGATAC
Statistics
Matches: 66, Mismatches: 6, Indels: 15
0.76 0.07 0.17
Matches are distributed among these distances:
49 4 0.06
50 21 0.32
51 24 0.36
52 17 0.26
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (49 bp):
TATATTTATTAATTATATATAAATATAATTAATACTATTTAATAAAAAA
Found at i:13668109 original size:28 final size:28
Alignment explanation
Indices: 13668078--13668133 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
13668068 CAAATTCCCA
13668078 ATAATCTTCATTTACAAAAGTTTTCCGT
1 ATAATCTTCATTTACAAAAGTTTTCCGT
13668106 ATAATCTTCATTTACAAAAGTTTTCCGT
1 ATAATCTTCATTTACAAAAGTTTTCCGT
13668134 TGCCGGGACT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.18, G:0.07, T:0.43
Consensus pattern (28 bp):
ATAATCTTCATTTACAAAAGTTTTCCGT
Found at i:13691497 original size:12 final size:12
Alignment explanation
Indices: 13691482--13691515 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13691472 GTTCCATCAT
13691482 CAGATTCCTCTC
1 CAGATTCCTCTC
* *
13691494 CAGACTCCTGTC
1 CAGATTCCTCTC
13691506 CAGATTCCTC
1 CAGATTCCTC
13691516 ATCAGGTTCT
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.18, C:0.41, G:0.12, T:0.29
Consensus pattern (12 bp):
CAGATTCCTCTC
Found at i:13692991 original size:14 final size:15
Alignment explanation
Indices: 13692972--13693000 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13692962 AGTGCTGTTG
13692972 AAAATTTT-TTAAAA
1 AAAATTTTATTAAAA
13692986 AAAATTTTATTAAAA
1 AAAATTTTATTAAAA
13693001 TTTTATTTTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAAATTTTATTAAAA
Found at i:13702741 original size:18 final size:17
Alignment explanation
Indices: 13702718--13702762 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
13702708 AAAAAAACAA
13702718 ATAAAAAGA-ATTCATAT
1 ATAAAAA-ATATTCATAT
*
13702735 CATAAAAAATTTTCATAT
1 -ATAAAAAATATTCATAT
13702753 ATAAAAAATA
1 ATAAAAAATA
13702763 ATTTGTTTCA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 10 0.42
18 14 0.58
ACGTcount: A:0.60, C:0.07, G:0.02, T:0.31
Consensus pattern (17 bp):
ATAAAAAATATTCATAT
Found at i:13702756 original size:17 final size:18
Alignment explanation
Indices: 13702728--13702761 Score: 61
Period size: 17 Copynumber: 1.9 Consensus size: 18
13702718 ATAAAAAGAA
13702728 TTCATATCATAAAAAATT
1 TTCATATCATAAAAAATT
13702746 TTCATAT-ATAAAAAAT
1 TTCATATCATAAAAAAT
13702762 AATTTGTTTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.53, C:0.09, G:0.00, T:0.38
Consensus pattern (18 bp):
TTCATATCATAAAAAATT
Found at i:13703955 original size:15 final size:15
Alignment explanation
Indices: 13703919--13703967 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
13703909 TTTTTACGAT
13703919 AAATT-TAATAATTTA
1 AAATTATAA-AATTTA
*
13703934 AAA-TATAAAATATA
1 AAATTATAAAATTTA
*
13703948 AAATTATATAATTTA
1 AAATTATAAAATTTA
13703963 AAATT
1 AAATT
13703968 TTAACAATAA
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
14 9 0.31
15 20 0.69
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
AAATTATAAAATTTA
Found at i:13703967 original size:7 final size:7
Alignment explanation
Indices: 13703919--13703968 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
13703909 TTTTTACGAT
13703919 AAATTTA
1 AAATTTA
13703926 ATAATTTA
1 A-AATTTA
*
13703934 AAATATA
1 AAATTTA
*
13703941 AAATATA
1 AAATTTA
13703948 AAATTATA
1 AAATT-TA
*
13703956 TAATTTA
1 AAATTTA
13703963 AAATTT
1 AAATTT
13703969 TAACAATAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
7 24 0.65
8 13 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (7 bp):
AAATTTA
Found at i:13704217 original size:43 final size:43
Alignment explanation
Indices: 13704134--13704217 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
13704124 TCTCGAATTT
* *
13704134 CCATCAGACCCAGTGCCCACATAGGTCCTTATAATAGATTTTC
1 CCATCAGACCCAGTGCCCACATAAGTCCTTACAATAGATTTTC
* * *
13704177 CCATCAGACCCTGTGCCCAC-TAAAGTCTTTACAATGGATTT
1 CCATCAGACCCAGTGCCCACAT-AAGTCCTTACAATAGATTT
13704218 GATTTGAATT
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
42 1 0.03
43 34 0.97
ACGTcount: A:0.27, C:0.30, G:0.14, T:0.29
Consensus pattern (43 bp):
CCATCAGACCCAGTGCCCACATAAGTCCTTACAATAGATTTTC
Found at i:13715728 original size:21 final size:22
Alignment explanation
Indices: 13715689--13715729 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
13715679 GATGTAAAAT
* *
13715689 TTTAATAAAAATTATAAATAAA
1 TTTAATAAAAATAAAAAATAAA
13715711 TTTAAT-AAAATAAAAAATA
1 TTTAATAAAAATAAAAAATA
13715730 TTTTATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (22 bp):
TTTAATAAAAATAAAAAATAAA
Found at i:13715768 original size:13 final size:13
Alignment explanation
Indices: 13715746--13715779 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
13715736 ATTTTATATT
*
13715746 TATATAAATTATAA
1 TATATAATTTA-AA
13715760 TATATAATTTAAA
1 TATATAATTTAAA
13715773 TATATAA
1 TATATAA
13715780 AATTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.47
14 10 0.53
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (13 bp):
TATATAATTTAAA
Found at i:13716562 original size:26 final size:27
Alignment explanation
Indices: 13716533--13716610 Score: 95
Period size: 26 Copynumber: 2.8 Consensus size: 27
13716523 AAAATTTATA
*
13716533 AAATAATTTTATTAATTTATTAT-AAT
1 AAATAATTTTATTAATTTATAATAAAT
*
13716559 AAATAATTTTATTTATTATATAATAAAT
1 AAATAATTTTATTAATT-TATAATAAAT
*
13716587 AAATAATTCTAATTAATTTTATAA
1 AAATAATT-TTATTAA-TTTATAA
13716611 ATGTTAAATA
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
26 16 0.36
27 5 0.11
28 11 0.25
29 10 0.23
30 2 0.05
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.50
Consensus pattern (27 bp):
AAATAATTTTATTAATTTATAATAAAT
Found at i:13716795 original size:21 final size:21
Alignment explanation
Indices: 13716757--13716796 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
13716747 ATTTTATCGT
* * *
13716757 TATAATATTTGATCTCATTAC
1 TATAATAATTAATATCATTAC
13716778 TATAATAATTAATATCATT
1 TATAATAATTAATATCATT
13716797 TTTATCATTA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.40, C:0.10, G:0.03, T:0.47
Consensus pattern (21 bp):
TATAATAATTAATATCATTAC
Found at i:13718090 original size:28 final size:30
Alignment explanation
Indices: 13718058--13718121 Score: 96
Period size: 31 Copynumber: 2.2 Consensus size: 30
13718048 CTGTAATATT
13718058 CAAGAA-A-CGATGATGTTTAATTGGTGCA
1 CAAGAACACCGATGATGTTTAATTGGTGCA
13718086 CAAGAACACTCGATGATGTTTAATTGGTGCA
1 CAAGAACAC-CGATGATGTTTAATTGGTGCA
*
13718117 AAAGA
1 CAAGA
13718122 CTACTTACTA
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
28 6 0.19
29 1 0.03
31 25 0.78
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (30 bp):
CAAGAACACCGATGATGTTTAATTGGTGCA
Found at i:13718378 original size:22 final size:23
Alignment explanation
Indices: 13718344--13718386 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
13718334 GCTCTGTTAG
13718344 TTCACATTACTCTCTCTTTCTCT
1 TTCACATTACTCTCTCTTTCTCT
* *
13718367 TTCAC-TTTCTCTTTCTTTCT
1 TTCACATTACTCTCTCTTTCT
13718387 GCCACACACC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 13 0.72
23 5 0.28
ACGTcount: A:0.09, C:0.33, G:0.00, T:0.58
Consensus pattern (23 bp):
TTCACATTACTCTCTCTTTCTCT
Found at i:13731227 original size:45 final size:46
Alignment explanation
Indices: 13731138--13731234 Score: 162
Period size: 46 Copynumber: 2.2 Consensus size: 46
13731128 ATTTTTTTAA
**
13731138 TTTT-ATTTCTAAATTTTCTATCATTTGGGTCTATTTAGAAATTTT
1 TTTTAATTTCTAAATTTTCTATCATTTAAGTCTATTTAGAAATTTT
13731183 TTTTAATTTCTAAATTTTCTATCATTTAAGTCTATTTA-AAATTTT
1 TTTTAATTTCTAAATTTTCTATCATTTAAGTCTATTTAGAAATTTT
13731228 TTTTAAT
1 TTTTAAT
13731235 CTTTGAAAAG
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
45 18 0.37
46 31 0.63
ACGTcount: A:0.28, C:0.08, G:0.05, T:0.59
Consensus pattern (46 bp):
TTTTAATTTCTAAATTTTCTATCATTTAAGTCTATTTAGAAATTTT
Found at i:13732864 original size:40 final size:41
Alignment explanation
Indices: 13732818--13732900 Score: 105
Period size: 40 Copynumber: 2.0 Consensus size: 41
13732808 TGAATAACAT
* *
13732818 AAAAACTCCTCTAAACAAAGGTTTAA-CACTTTGAAAAATA
1 AAAAACTCATCTAAACAAAGGTTCAATCACTTTGAAAAATA
* * * *
13732858 AAAAACTTATCTCAACAGAGGTTCAATGACTTTGAAAAATA
1 AAAAACTCATCTAAACAAAGGTTCAATCACTTTGAAAAATA
13732899 AA
1 AA
13732901 GCTCATATAA
Statistics
Matches: 36, Mismatches: 6, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
40 21 0.58
41 15 0.42
ACGTcount: A:0.49, C:0.16, G:0.10, T:0.25
Consensus pattern (41 bp):
AAAAACTCATCTAAACAAAGGTTCAATCACTTTGAAAAATA
Found at i:13732981 original size:44 final size:44
Alignment explanation
Indices: 13732919--13733124 Score: 195
Period size: 44 Copynumber: 4.8 Consensus size: 44
13732909 AAATGAAAGA
* ** *
13732919 TCAACGAC-TTTGAAAAATAAATAAGGCTTTTTTAAGTAGAAGC
1 TCAACAACTTTTGAAAAATAAATAAGGCTCATTTAAGTAGAGGC
* * *
13732962 TCAATAACTTTTGAAAAATAAGTAAGACTCATTTAAGTAGAGGC
1 TCAACAACTTTTGAAAAATAAATAAGGCTCATTTAAGTAGAGGC
* * *
13733006 TCAACAAC-TTTGAAAAA-AAAGTAATGCTCCTCTAAGTAGAGGC
1 TCAACAACTTTTGAAAAATAAA-TAAGGCTCATTTAAGTAGAGGC
* * * * * * *
13733049 TTAACAACTTTTGAAAAAAAAATAGGGTTCCTCTAAGTAGAGTC
1 TCAACAACTTTTGAAAAATAAATAAGGCTCATTTAAGTAGAGGC
* * *
13733093 TTAACAAC-TTTAAAAAATAAATAAAGCTCATT
1 TCAACAACTTTTGAAAAATAAATAAGGCTCATT
13733125 GACAATCATG
Statistics
Matches: 134, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
42 2 0.01
43 57 0.43
44 72 0.54
45 3 0.02
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.29
Consensus pattern (44 bp):
TCAACAACTTTTGAAAAATAAATAAGGCTCATTTAAGTAGAGGC
Found at i:13733016 original size:87 final size:87
Alignment explanation
Indices: 13732919--13733121 Score: 219
Period size: 87 Copynumber: 2.3 Consensus size: 87
13732909 AAATGAAAGA
* ** * * * *
13732919 TCAACGACTTTGAAAAATAAATAAGGCTTTTTTAAGTAGAAGCTCAATAACTTTTGAAAAATAAG
1 TCAACAACTTTGAAAAATAAATAAGGCTCCTCTAAGTAGAAGCTCAACAACTTTTGAAAAAAAAA
*
13732984 TAAGACTCATTTAAGTAGAGGC
66 TAAGACTCATCTAAGTAGAGGC
* * *
13733006 TCAACAACTTTGAAAAA-AAAGTAATGCTCCTCTAAGTAGAGGCTTAACAACTTTTGAAAAAAAA
1 TCAACAACTTTGAAAAATAAA-TAAGGCTCCTCTAAGTAGAAGCTCAACAACTTTTGAAAAAAAA
* ** * *
13733070 ATAGGGTTCCTCTAAGTAGAGTC
65 ATAAGACTCATCTAAGTAGAGGC
* * *
13733093 TTAACAACTTTAAAAAATAAATAAAGCTC
1 TCAACAACTTTGAAAAATAAATAAGGCTC
13733122 ATTGACAATC
Statistics
Matches: 95, Mismatches: 19, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
86 3 0.03
87 89 0.94
88 3 0.03
ACGTcount: A:0.44, C:0.14, G:0.14, T:0.28
Consensus pattern (87 bp):
TCAACAACTTTGAAAAATAAATAAGGCTCCTCTAAGTAGAAGCTCAACAACTTTTGAAAAAAAAA
TAAGACTCATCTAAGTAGAGGC
Found at i:13741988 original size:4 final size:4
Alignment explanation
Indices: 13741979--13742008 Score: 51
Period size: 4 Copynumber: 7.5 Consensus size: 4
13741969 ATAAAATAGC
*
13741979 TAAA TAAA TAAA TAAA TATA TAAA TAAA TA
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA TA
13742009 CACTAAAAAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
4 24 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (4 bp):
TAAA
Found at i:13756583 original size:34 final size:34
Alignment explanation
Indices: 13756534--13756617 Score: 141
Period size: 34 Copynumber: 2.5 Consensus size: 34
13756524 ATATTAATTA
13756534 ATTTGCTACTTACCTAATAAGATTTTATGGTATT
1 ATTTGCTACTTACCTAATAAGATTTTATGGTATT
* * *
13756568 GTTTGTTACTTACCTAATAAGCTTTTATGGTATT
1 ATTTGCTACTTACCTAATAAGATTTTATGGTATT
13756602 ATTTGCTACTTACCTA
1 ATTTGCTACTTACCTA
13756618 GAAAGTAATT
Statistics
Matches: 45, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
34 45 1.00
ACGTcount: A:0.26, C:0.14, G:0.12, T:0.48
Consensus pattern (34 bp):
ATTTGCTACTTACCTAATAAGATTTTATGGTATT
Found at i:13761505 original size:161 final size:159
Alignment explanation
Indices: 13761233--13763052 Score: 1493
Period size: 161 Copynumber: 11.3 Consensus size: 159
13761223 AAGTAAGTTT
* * * * * *** *
13761233 ATGATATTAAATTTATTTAAATGATTGAACTTAATTTTTATTGTTGATACGTG-GAAAAAAGTTA
1 ATGATATTAAACTTGTCTGAATGATTGAACTT-AGTTTTACAATTGATATGTGTG-AAAAAGTTA
** * * * * * * *
13761297 TAATTTATGTTTATTTAAGACTTTTTATGCCATTAAAAGGTAAAAATATAAATTTATAGTTATTA
64 TTGTTTATATCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAATATAAATTTCTA-TTATTG
* * * *
13761362 TTTTATTTTAACAGTTTTGATAGTTTTAATAC
128 TTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * *
13761394 ATAATATTAAACTTGTCTGAATAATTAAACTTAGTTTCTACAATTGATATGTATGAAAAAGTTAT
1 ATGATATTAAACTTGTCTGAATGATTGAACTTAGTTT-TACAATTGATATGTGTGAAAAAGTTAT
* * * * * * * * * *
13761459 TATTTATGTCTGTTTAAAATTTTTTATGCTGTTAAAAGGCAAAAATATAAATTTTGTTGTTGTTG
65 TGTTTATATCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAATATAAA-TTT-CTATTATTG
* * *
13761524 TTCTGTTTTAACAGTTTGGATAGATTTAATAC
128 TTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * *
13761556 ATGATATTAAACTTGTCTGAATGATTGAACCT-GATTTTCACAATTGACATGTGTGAAAAAGCTA
1 ATGATATTAAACTTGTCTGAATGATTGAACTTAG-TTTT-ACAATTGATATGTGTGAAAAAGTTA
** ** * * * * * * * *
13761620 CCGTTTACGTCTATCTAAGAC-TTTTATGCCGTTAAAAGGCAATAGTACAAATTTGTTATTATTG
64 TTGTTTATATCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAATATAAATTT-CTATTATTG
* * *
13761684 TTCTATTTTAATAGTTTAGATAGCTTTAATAC
128 TTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * *
13761716 ATGATATTAAACTTATCCGAATGATTGAACTTAGTTTTCACAATTGATATGTGT-AATAAAGTTG
1 ATGATATTAAACTTGTCTGAATGATTGAACTTAGTTTT-ACAATTGATATGTGTGAA-AAAGTTA
* **
13761780 TTGGTTTACT-TCTGTTTAAGATTTTTTGTATCGTTAAAAGGTAAAAATATAAATTTGCTATTAT
64 TT-GTTTA-TATCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAATATAAATTT-CTATTAT
* *
13761844 TATTTTATTTTAACAGTTTGGATAGCTTCAATAC
126 TGTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * ** * *
13761878 ACGATATTAAACTTGT-TCGAATAATTAAACTTGGTTTT-CATAGTTTCTATATATGAAAAAGTT
1 ATGATATTAAACTTGTCT-GAATGATTGAACTTAGTTTTACA-A-TTGATATGTGTGAAAAAGTT
** * * *** * *
13761941 ATTGTTTACCTTTGTTTAAGA-TTTTTATATTGTTAAAAGGCAAAAATATAAATTTACTGTTATT
63 ATTGTTTATATCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAATATAAATTT-CTATTATT
* * *
13762005 GTTCTATTTTAACAGTTTAGATGGCTTCAATAT
127 GTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * * * *
13762038 ATGACATTAGACTTGTCTGAATGATTGAACTTGGTTTTCACAAGTTAAAATATGTGAAAAAGCTA
1 ATGATATTAAACTTGTCTGAATGATTGAACTTAGTTTT-ACAA-TTGATATGTGTGAAAAAGTTA
** * * * * * *
13762103 CCGTTTACACCTGTTTAGGATTTTTTGTGCCGTTAAAAGGTAAAAGTACAAATTTGCTATTATTG
64 TTGTTTATATCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAATATAAATTT-CTATTATTG
* *
13762168 TTCTGTTTTAACAATTTGGATAGCTTCAATAC
128 TTCTATTTTAACAGTTTGGATAGCTTCAATAC
* ** *
13762200 ATGATATTAAACTTGT-TCGAATGATTAAACTTAGTTTTCACTGTTGATATGTGTGAAAAAGCTA
1 ATGATATTAAACTTGTCT-GAATGATTGAACTTAGTTTT-ACAATTGATATGTGTGAAAAAGTTA
* * * * * *
13762264 CTATTTATATTTGTTTAAGACTTATTGTGTCGTTAAAAGGTAAAAATGCA-AAATTGCTATTATT
64 TTGTTTATATCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAAT--ATAAATTTCTATTATT
* *
13762328 GTTCTGTTTTAATAGTTTGGATAGCTTCAATAC
127 GTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * * * *
13762361 ATGATATTAAACTTGTCTGAATTATTGAACTTGATTTTTCACAGTTAATATATGTGAAATAGTTG
1 ATGATATTAAACTTGTCTGAATGATTGAACTT-AGTTTT-ACAATTGATATGTGTGAAAAAGTTA
** * * ** * * *
13762426 TTGTTTACCTCTATTTAAG-TTTTTTGTGTTGTTAAAAGGTAAAAATGTAAAATAT-TGTTATTG
64 TTGTTTATATCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAATAT-AAATTTCTATTATTG
13762489 TTCTATTTTAACAGTTTGGAT-GACTTCAATAC
128 TTCTATTTTAACAGTTTGGATAG-CTTCAATAC
* * * * *
13762521 ATGATATTAAACTTATCCGAATGATTGAACTTAGTTTT-CATAGTTAAAATATGTGAAAAAGTTA
1 ATGATATTAAACTTGTCTGAATGATTGAACTTAGTTTTACA-A-TTGATATGTGTGAAAAAGTTA
** * * * *
13762585 TCATTTATATCTATTTAAGACTTTTTGTGCCATTAAAAGCTAAAAATGCA-AAATTGCTATTATT
64 TTGTTTATATCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAAT--ATAAATTTCTATTATT
* * * *
13762649 GTGT-TATTTTAACAATTTGAATGGCTTCAATAT
127 GT-TCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * *
13762682 ATGATATTAAACTTAT-TCGAATGATTGAACTTAATTTTCACAGTTGATATGTTTGAAAAAGTTA
1 ATGATATTAAACTTGTCT-GAATGATTGAACTTAGTTTT-ACAATTGATATGTGTGAAAAAGTTA
* * * *
13762746 TTGTTTATATCTGTTTAAGACTTTTTGTGCCATTAAAAGGCAATAATGCA-AAATTACTATTATT
64 TTGTTTATATCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAAT--ATAAATTTCTATTATT
* * * * * *
13762810 GTGCTACTTCAATAGTTTGGATAGCTTCATTAT
127 GTTCTATTTTAACAGTTTGGATAGCTTCAATAC
* * * * * * * *
13762843 ATGATATTAAATTTTTCTGAATGATTGAATTTGGTTTCCACAATTGATATGTGTGAATAAGCTAC
1 ATGATATTAAACTTGTCTGAATGATTGAACTTAGTTT-TACAATTGATATGTGTGAAAAAGTTAT
** ** * * * *
13762908 CATTTACGTTTGTTTAGGACTTTTTGTGCCGTTAAAA-GTAAAATTACAAATTTGCTATTATTGT
65 TGTTTATATCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAATATAAATTT-CTATTATTGT
* *
13762972 TCTATTTTAACAGTTTGAATATCTTCAATAC
129 TCTATTTTAACAGTTTGGATAGCTTCAATAC
* ** *
13763003 ATGATATTAAATTTGTCCAAATGATTGAACTT-GATTTCTACAGTTGATAT
1 ATGATATTAAACTTGTCTGAATGATTGAACTTAG-TTT-TACAATTGATAT
13763053 ACATAAATAA
Statistics
Matches: 1354, Mismatches: 260, Indels: 91
0.79 0.15 0.05
Matches are distributed among these distances:
157 2 0.00
158 1 0.00
159 47 0.03
160 365 0.27
161 577 0.43
162 356 0.26
163 6 0.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.43
Consensus pattern (159 bp):
ATGATATTAAACTTGTCTGAATGATTGAACTTAGTTTTACAATTGATATGTGTGAAAAAGTTATT
GTTTATATCTGTTTAAGACTTTTTGTGCCGTTAAAAGGTAAAAATATAAATTTCTATTATTGTTC
TATTTTAACAGTTTGGATAGCTTCAATAC
Found at i:13762741 original size:482 final size:482
Alignment explanation
Indices: 13761233--13763040 Score: 1854
Period size: 482 Copynumber: 3.7 Consensus size: 482
13761223 AAGTAAGTTT
* ** * ** *
13761233 ATGATATTAAATTTATTTAAATGATTGAACTTAATTTTTATTGTTGATACGTG-GAAAAAAGTTA
1 ATGATATTAAACTTATTCGAATGATTGAACTTAATTTTCACAGTTGATATGTGTG-AAAAAGTTA
* * * * **
13761297 -TAATTTATGTTTATTTAAGACTTTTTATGCCATTAAAAGGTAAAAAT--ATAAATTTATAGTTA
65 TTAATTTATATCTGTTTAAGACTTTTTGTGCCATTAAAAGGTAAAAATGCA-AAATTGCTA-TTA
* * * * *
13761359 TTATTTTATTTTAACAGTTTTGATAGTTTTAATACATAATATTAAACTTGTCTGAATAATTAAAC
128 TTATTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCTGAATAATTAAAC
* * ** *
13761424 TTAG-TTTCTACAATTGATATGTATGAAAAAGTTATTATTTATGTCTGTTTAAAATTTTTTATGC
193 TTGGTTTTC-ACAATTGATATATATGAAAAAGTTATTATTTACCTCTGTTT-AAGTTTTTTATGC
* * * * *
13761488 TGTTAAAAGGCAAAAATATAAATTTTGTTGTTGTTGTTCTGTTTTAACAGTTTGGATAGA-TTTA
256 TGTTAAAAGGCAAAAATATAAA-TATATTGTTATTGTTCTATTTTAACAGTTTGGAT-GACTTCA
* * * * *
13761552 ATACATGATATTAAACTTGTCTGAATGATTGAACCTGATTTTCACAA-TTGACATGTGTGAAAAA
319 ATACATGATATTAAACTTGTCCGAATGATTGAACTTG-TTTTCA-AAGTTAAAATATGTGAAAAA
* * * * *
13761616 GCTACCGTTTACGTCTATCTAAGAC-TTTTATGCCGTTAAAAGGC-AATAGTACAAATTTGTTAT
382 GCTACCGTTTACATCTATTTAAGACTTTTTGTGCCGTTAAAA-GCTAAAAGTACAAATTTGCTAT
* * *
13761679 TATTGTTCTATTTTAATAGTTT-AGATAGCTTTAATAC
446 TATTGTTCTATTTTAACAATTTGA-ATAGCTTCAATAC
* * * *
13761716 ATGATATTAAACTTATCCGAATGATTGAACTTAGTTTTCACAATTGATATGTGT-AATAAAGTTG
1 ATGATATTAAACTTATTCGAATGATTGAACTTAATTTTCACAGTTGATATGTGTGAA-AAAGTTA
** * ** * ** *
13761780 TTGGTTTACT-TCTGTTTAAGATTTTTTGTATCGTTAAAAGGTAAAAATATAAATTTGCTATTAT
65 TTAATTTA-TATCTGTTTAAGACTTTTTGTGCCATTAAAAGGTAAAAATGCAAAATTGCTATTAT
* *
13761844 TATTTTATTTTAACAGTTTGGATAGCTTCAATACACGATATTAAACTTGT-TCGAATAATTAAAC
129 TATTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCT-GAATAATTAAAC
* * ** * * * **
13761908 TTGGTTTTCATAGTTTCTATATATGAAAAAGTTATTGTTTACCTTTGTTTAAGATTTTTATATTG
193 TTGGTTTTCACAATTGATATATATGAAAAAGTTATTATTTACCTCTGTTTAAGTTTTTTATGCTG
* * * * *
13761973 TTAAAAGGCAAAAATATAAATTTACTGTTATTGTTCTATTTTAACAGTTTAGATGGCTTCAATAT
258 TTAAAAGGCAAAAATATAAATATATTGTTATTGTTCTATTTTAACAGTTTGGATGACTTCAATAC
* * *
13762038 ATGACATTAGACTTGTCTGAATGATTGAACTTGGTTTTCACAAGTTAAAATATGTGAAAAAGCTA
323 ATGATATTAAACTTGTCCGAATGATTGAACTT-GTTTTCA-AAGTTAAAATATGTGAAAAAGCTA
* * * * *
13762103 CCGTTTACACCTGTTTAGGATTTTTTGTGCCGTTAAAAGGTAAAAGTACAAATTTGCTATTATTG
386 CCGTTTACATCTATTTAAGACTTTTTGTGCCGTTAAAAGCTAAAAGTACAAATTTGCTATTATTG
* *
13762168 TTCTGTTTTAACAATTTGGATAGCTTCAATAC
451 TTCTATTTTAACAATTTGAATAGCTTCAATAC
* * * * * *
13762200 ATGATATTAAACTTGTTCGAATGATTAAACTTAGTTTTCACTGTTGATATGTGTGAAAAAGCTAC
1 ATGATATTAAACTTATTCGAATGATTGAACTTAATTTTCACAGTTGATATGTGTGAAAAAGTTAT
* * * * *
13762265 T-ATTTATATTTGTTTAAGACTTATTGTGTCGTTAAAAGGTAAAAATGCAAAATTGCTATTATTG
66 TAATTTATATCTGTTTAAGACTTTTTGTGCCATTAAAAGGTAAAAATGCAAAATTGCTATTATTA
* * * *
13762329 TTCTGTTTTAATAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCTGAATTATTGAACTTG
131 TTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCTGAATAATTAAACTTG
* * * * * * * * * *
13762394 ATTTTTCACAGTTAATATATGTGAAATAGTTGTTGTTTACCTCTATTTAAGTTTTTTGTGTTGTT
196 -GTTTTCACAATTGATATATATGAAAAAGTTATTATTTACCTCTGTTTAAGTTTTTTATGCTGTT
* *
13762459 AAAAGGTAAAAATGTAAA-ATATTGTTATTGTTCTATTTTAACAGTTTGGATGACTTCAATACAT
260 AAAAGGCAAAAATATAAATATATTGTTATTGTTCTATTTTAACAGTTTGGATGACTTCAATACAT
* * * * *
13762523 GATATTAAACTTATCCGAATGATTGAACTTAGTTTTCATAGTTAAAATATGTGAAAAAGTTATCA
325 GATATTAAACTTGTCCGAATGATTGAACTT-GTTTTCAAAGTTAAAATATGTGAAAAAGCTACCG
* * * * *
13762588 TTTATATCTATTTAAGACTTTTTGTGCCATTAAAAGCTAAAAATGCAAAATTGCTATTATTGTGT
389 TTTACATCTATTTAAGACTTTTTGTGCCGTTAAAAGCTAAAAGTACAAATTTGCTATTATTGT-T
* *
13762653 -TATTTTAACAATTTGAATGGCTTCAATAT
453 CTATTTTAACAATTTGAATAGCTTCAATAC
*
13762682 ATGATATTAAACTTATTCGAATGATTGAACTTAATTTTCACAGTTGATATGTTTGAAAAAGTTAT
1 ATGATATTAAACTTATTCGAATGATTGAACTTAATTTTCACAGTTGATATGTGTGAAAAAGTTAT
* * * * *
13762747 T-GTTTATATCTGTTTAAGACTTTTTGTGCCATTAAAAGGCAATAATGCAAAATTACTATTATTG
66 TAATTTATATCTGTTTAAGACTTTTTGTGCCATTAAAAGGTAAAAATGCAAAATTGCTATTATTA
* * * * * * * * * * *
13762811 TGCTACTTCAATAGTTTGGATAGCTTCATTATATGATATTAAATTTTTCTGAATGATTGAATTTG
131 TTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCTGAATAATTAAACTTG
* * * * * ** * * * * * *
13762876 GTTTCCACAATTGATATGTGTGAATAAGCTACCATTTACGTTTGTTTAGGACTTTTTGTGCCGTT
196 GTTTTCACAATTGATATATATGAAAAAGTTATTATTTACCTCTGTTTAAG-TTTTTTATGCTGTT
* * * * ** * *
13762941 AAAA-GTAAAATTACAAATTTGCTATTATTGTTCTATTTTAACAGTTTGAAT-ATCTTCAATACA
260 AAAAGGCAAAAATATAAATATATTGTTATTGTTCTATTTTAACAGTTTGGATGA-CTTCAATACA
* * *
13763004 TGATATTAAATTTGTCCAAATGATTGAACTTGATTTC
324 TGATATTAAACTTGTCCGAATGATTGAACTTGTTTTC
13763041 TACAGTTGAT
Statistics
Matches: 1111, Mismatches: 192, Indels: 46
0.82 0.14 0.03
Matches are distributed among these distances:
481 51 0.05
482 427 0.38
483 300 0.27
484 319 0.29
485 13 0.01
486 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.14, T:0.43
Consensus pattern (482 bp):
ATGATATTAAACTTATTCGAATGATTGAACTTAATTTTCACAGTTGATATGTGTGAAAAAGTTAT
TAATTTATATCTGTTTAAGACTTTTTGTGCCATTAAAAGGTAAAAATGCAAAATTGCTATTATTA
TTCTATTTTAACAGTTTGGATAGCTTCAATACATGATATTAAACTTGTCTGAATAATTAAACTTG
GTTTTCACAATTGATATATATGAAAAAGTTATTATTTACCTCTGTTTAAGTTTTTTATGCTGTTA
AAAGGCAAAAATATAAATATATTGTTATTGTTCTATTTTAACAGTTTGGATGACTTCAATACATG
ATATTAAACTTGTCCGAATGATTGAACTTGTTTTCAAAGTTAAAATATGTGAAAAAGCTACCGTT
TACATCTATTTAAGACTTTTTGTGCCGTTAAAAGCTAAAAGTACAAATTTGCTATTATTGTTCTA
TTTTAACAATTTGAATAGCTTCAATAC
Found at i:13771854 original size:15 final size:14
Alignment explanation
Indices: 13771830--13771864 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
13771820 AAAATTTTAA
*
13771830 ATTATGTTATTTTT
1 ATTATTTTATTTTT
13771844 ATATATTTTATTTTT
1 AT-TATTTTATTTTT
13771859 ATTATT
1 ATTATT
13771865 ATCATGTTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (14 bp):
ATTATTTTATTTTT
Found at i:13776800 original size:26 final size:26
Alignment explanation
Indices: 13776766--13776827 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 26
13776756 TTTATTTATC
* *
13776766 AAATAAAAT-TTTTTAATAAATTATTT
1 AAATTAAATATTTTGAAT-AATTATTT
*
13776792 AAATTAAATATTTTGGATAATTATTT
1 AAATTAAATATTTTGAATAATTATTT
13776818 AAATTGAAAT
1 AAATT-AAAT
13776828 CAATATCTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
26 21 0.68
27 10 0.32
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.47
Consensus pattern (26 bp):
AAATTAAATATTTTGAATAATTATTT
Found at i:13777354 original size:17 final size:17
Alignment explanation
Indices: 13777332--13777367 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
13777322 TTATAATTAA
13777332 TTTTTTGTATTATATAT
1 TTTTTTGTATTATATAT
* *
13777349 TTTTTTGTTTTATTTAT
1 TTTTTTGTATTATATAT
13777366 TT
1 TT
13777368 CTTTAATGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.06, T:0.78
Consensus pattern (17 bp):
TTTTTTGTATTATATAT
Found at i:13779966 original size:16 final size:17
Alignment explanation
Indices: 13779952--13779985 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
13779942 ATAATATTTT
13779952 TAAATTATAAAATTTAA
1 TAAATTATAAAATTTAA
*
13779969 TAAATT-TAAAAATTAA
1 TAAATTATAAAATTTAA
13779985 T
1 T
13779986 TTTCAATACT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (17 bp):
TAAATTATAAAATTTAA
Found at i:13782721 original size:2 final size:2
Alignment explanation
Indices: 13782714--13782739 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13782704 CTTTCCCCTT
13782714 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
13782740 ATGATTGGAG
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:13783760 original size:2 final size:2
Alignment explanation
Indices: 13783753--13783780 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13783743 ATAAATATTC
13783753 AT 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 AT
13783781 CATAAACAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:13783983 original size:2 final size:2
Alignment explanation
Indices: 13783966--13784001 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
13783956 ATTCAATCTA
* *
13783966 AT AT AT AA AT AA 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 AT AT AT AT AT
13784002 CTATCTTTCG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (2 bp):
AT
Found at i:13787262 original size:41 final size:41
Alignment explanation
Indices: 13787205--13787287 Score: 148
Period size: 41 Copynumber: 2.0 Consensus size: 41
13787195 TAAACTAGAA
*
13787205 TTCTTTGACAATGATCCTGTATTAGTTCCCATTAAGGAAAG
1 TTCTTAGACAATGATCCTGTATTAGTTCCCATTAAGGAAAG
*
13787246 TTCTTAGAGAATGATCCTGTATTAGTTCCCATTAAGGAAAG
1 TTCTTAGACAATGATCCTGTATTAGTTCCCATTAAGGAAAG
13787287 T
1 T
13787288 AAGTAACAAA
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.30, C:0.16, G:0.18, T:0.36
Consensus pattern (41 bp):
TTCTTAGACAATGATCCTGTATTAGTTCCCATTAAGGAAAG
Found at i:13790183 original size:19 final size:21
Alignment explanation
Indices: 13790159--13790197 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
13790149 AAAAAATTAT
13790159 TTTTTAATTA-AT-TATTTAA
1 TTTTTAATTATATATATTTAA
*
13790178 TTTTTATTTATATATATTTA
1 TTTTTAATTATATATATTTA
13790198 TATAATAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 9 0.53
20 2 0.12
21 6 0.35
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (21 bp):
TTTTTAATTATATATATTTAA
Found at i:13790258 original size:21 final size:19
Alignment explanation
Indices: 13790213--13790262 Score: 66
Period size: 21 Copynumber: 2.6 Consensus size: 19
13790203 TAATATTTTT
*
13790213 AAATA-TTTATATTTTAAA
1 AAATATTTTATATTTAAAA
13790231 AAATATTTTATATTTAAAAA
1 AAATATTTTATATTT-AAAA
13790251 ATAATATTTTAT
1 A-AATATTTTAT
13790263 TAATTTTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
18 5 0.18
19 9 0.32
20 4 0.14
21 10 0.36
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
AAATATTTTATATTTAAAA
Found at i:13790263 original size:19 final size:20
Alignment explanation
Indices: 13790214--13790263 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
13790204 AATATTTTTA
13790214 AATATTTATATTTTAAAAAAT
1 AATATTTATA-TTTAAAAAAT
13790235 -AT-TTTATATTTAAAAAAT
1 AATATTTATATTTAAAAAAT
13790253 AATATTT-TATT
1 AATATTTATATT
13790264 AATTTTAAAT
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
18 10 0.37
19 12 0.44
20 5 0.19
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (20 bp):
AATATTTATATTTAAAAAAT
Found at i:13790265 original size:18 final size:18
Alignment explanation
Indices: 13790213--13790253 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
13790203 TAATATTTTT
13790213 AAATA-TTTATATTTTAAA
1 AAATATTTTATA-TTTAAA
13790231 AAATATTTTATATTTAAA
1 AAATATTTTATATTTAAA
13790249 AAATA
1 AAATA
13790254 ATATTTTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
18 16 0.73
19 6 0.27
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
AAATATTTTATATTTAAA
Found at i:13790273 original size:21 final size:19
Alignment explanation
Indices: 13790214--13790273 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 19
13790204 AATATTTTTA
*
13790214 AATA-TTTATATTTTAAAA
1 AATATTTTATATTTTAAAT
*
13790232 AATATTTTATATTTAAAAAAT
1 AATATTTTATATTT--TAAAT
13790253 AATATTTTATTAATTTTAAAT
1 AATATTTTA-T-ATTTTAAAT
13790274 TTAAATACGA
Statistics
Matches: 34, Mismatches: 3, Indels: 7
0.77 0.07 0.16
Matches are distributed among these distances:
18 4 0.12
19 9 0.26
21 16 0.47
22 1 0.03
23 4 0.12
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (19 bp):
AATATTTTATATTTTAAAT
Found at i:13809431 original size:15 final size:15
Alignment explanation
Indices: 13809413--13809442 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13809403 ATGAATGATT
*
13809413 TTCCTTTATTTAAAA
1 TTCCTATATTTAAAA
13809428 TTCCTATATTTAAAA
1 TTCCTATATTTAAAA
13809443 AGCAAAGGTA
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:0.37, C:0.13, G:0.00, T:0.50
Consensus pattern (15 bp):
TTCCTATATTTAAAA
Found at i:13815090 original size:11 final size:12
Alignment explanation
Indices: 13815064--13815123 Score: 50
Period size: 13 Copynumber: 4.9 Consensus size: 12
13815054 TTTTTTATTT
13815064 TTTAATTTAAAA
1 TTTAATTTAAAA
*
13815076 TTTAATTT-GAA
1 TTTAATTTAAAA
* *
13815087 TTTAATATTTACA
1 TTTAAT-TTAAAA
* *
13815100 GTTAATATTCAAA
1 TTTAAT-TTAAAA
13815113 TTTAATTTAAA
1 TTTAATTTAAA
13815124 TTAAATAAAA
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
11 8 0.21
12 14 0.37
13 16 0.42
ACGTcount: A:0.43, C:0.03, G:0.03, T:0.50
Consensus pattern (12 bp):
TTTAATTTAAAA
Found at i:13815090 original size:18 final size:17
Alignment explanation
Indices: 13815064--13815128 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 17
13815054 TTTTTTATTT
13815064 TTTAATTTAAAATTTAA
1 TTTAATTTAAAATTTAA
*
13815081 TTTGAATTTAATATTTACA
1 TTT-AATTTAAAATTTA-A
* *
13815100 GTTAATATTCAAATTTAA
1 TTTAAT-TTAAAATTTAA
*
13815118 TTTAAATTAAA
1 TTTAATTTAAA
13815129 TAAAAAAATT
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
17 7 0.18
18 20 0.53
19 11 0.29
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (17 bp):
TTTAATTTAAAATTTAA
Found at i:13822227 original size:16 final size:15
Alignment explanation
Indices: 13822195--13822240 Score: 56
Period size: 16 Copynumber: 2.9 Consensus size: 15
13822185 ATATATATAA
*
13822195 ATATTTTTTATTATTT
1 ATATATTTTA-TATTT
*
13822211 ATTTAATTTTATATTT
1 ATAT-ATTTTATATTT
13822227 ATATATTTTATATT
1 ATATATTTTATATT
13822241 AATAAAATTA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 10 0.38
16 11 0.42
17 5 0.19
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
ATATATTTTATATTT
Found at i:13822358 original size:19 final size:19
Alignment explanation
Indices: 13822326--13822367 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
13822316 TAATATTTTA
*
13822326 TAAA-TATTATATTAAATT
1 TAAATTATTAAATTAAATT
*
13822344 TAAATTATTAAATTAATTT
1 TAAATTATTAAATTAAATT
13822363 TAAAT
1 TAAAT
13822368 CATATTAGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 4 0.19
19 17 0.81
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TAAATTATTAAATTAAATT
Found at i:13833413 original size:12 final size:12
Alignment explanation
Indices: 13833391--13833428 Score: 67
Period size: 12 Copynumber: 3.1 Consensus size: 12
13833381 TCTCTTGTCC
13833391 ACATGGGATATGG
1 ACAT-GGATATGG
13833404 ACATGGATATGG
1 ACATGGATATGG
13833416 ACATGGATATGG
1 ACATGGATATGG
13833428 A
1 A
13833429 ATACTCGACT
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
12 21 0.84
13 4 0.16
ACGTcount: A:0.34, C:0.08, G:0.34, T:0.24
Consensus pattern (12 bp):
ACATGGATATGG
Found at i:13838005 original size:19 final size:19
Alignment explanation
Indices: 13837981--13838019 Score: 78
Period size: 19 Copynumber: 2.1 Consensus size: 19
13837971 CCTGCATCGA
13837981 TGCCAACTCTGGCTCTTCT
1 TGCCAACTCTGGCTCTTCT
13838000 TGCCAACTCTGGCTCTTCT
1 TGCCAACTCTGGCTCTTCT
13838019 T
1 T
13838020 ATCACGAGCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.10, C:0.36, G:0.15, T:0.38
Consensus pattern (19 bp):
TGCCAACTCTGGCTCTTCT
Found at i:13838686 original size:94 final size:94
Alignment explanation
Indices: 13838520--13838703 Score: 332
Period size: 94 Copynumber: 2.0 Consensus size: 94
13838510 GATATATTCT
* * *
13838520 TAAACTCTAGAGATTACAGTCCCTTGATTATAAGAGTTAAGTTACAATCCTTGATTCTAAAGGAT
1 TAAAATCTAGAGATTACAATCCCTTGATTATAAGAGCTAAGTTACAATCCTTGATTCTAAAGGAT
13838585 TTGATGCTGCTGCATAATCCTTGACTTAC
66 TTGATGCTGCTGCATAATCCTTGACTTAC
*
13838614 TAAAATCTAGAGATTACAATCCCTTGATTATAAGAGCTAAGTTAGAATCCTTGATTCTAAAGGAT
1 TAAAATCTAGAGATTACAATCCCTTGATTATAAGAGCTAAGTTACAATCCTTGATTCTAAAGGAT
13838679 TTGATGCTGCTGCATAATCCTTGAC
66 TTGATGCTGCTGCATAATCCTTGAC
13838704 CTAAAATCAT
Statistics
Matches: 86, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 86 1.00
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.34
Consensus pattern (94 bp):
TAAAATCTAGAGATTACAATCCCTTGATTATAAGAGCTAAGTTACAATCCTTGATTCTAAAGGAT
TTGATGCTGCTGCATAATCCTTGACTTAC
Found at i:13842529 original size:21 final size:20
Alignment explanation
Indices: 13842503--13842544 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
13842493 ACGAATCATA
*
13842503 TTATATATTTTTCTTAATTTT
1 TTATATATTTTT-TAAATTTT
13842524 TTATATATTTTTTAAATTTT
1 TTATATATTTTTTAAATTTT
13842544 T
1 T
13842545 ATAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (20 bp):
TTATATATTTTTTAAATTTT
Found at i:13842538 original size:19 final size:21
Alignment explanation
Indices: 13842503--13842547 Score: 67
Period size: 19 Copynumber: 2.2 Consensus size: 21
13842493 ACGAATCATA
*
13842503 TTATATATTTTTCTTAATTTT
1 TTATATATTTTTCTTAAATTT
13842524 TTATATA-TTTT-TTAAATTT
1 TTATATATTTTTCTTAAATTT
13842543 TTATA
1 TTATA
13842548 AAATAAAAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 12 0.52
20 4 0.17
21 7 0.30
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (21 bp):
TTATATATTTTTCTTAAATTT
Found at i:13842775 original size:5 final size:5
Alignment explanation
Indices: 13842767--13842795 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
13842757 ATAAAATAAA
13842767 ATTCT ATTCT ATTCT ATTCT ATTCT ATTC
1 ATTCT ATTCT ATTCT ATTCT ATTCT ATTC
13842796 AAACCGTTAT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTCT
Found at i:13845336 original size:3 final size:3
Alignment explanation
Indices: 13845328--13845352 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
13845318 CATTAGAAAC
13845328 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
13845353 CAAACATTGA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:13845540 original size:12 final size:12
Alignment explanation
Indices: 13845506--13845540 Score: 52
Period size: 12 Copynumber: 2.8 Consensus size: 12
13845496 TGATTGATAA
13845506 AAAATAAAAAATG
1 AAAAT-AAAAATG
*
13845519 AAAATGAAAATG
1 AAAATAAAAATG
13845531 AAAATAAAAA
1 AAAATAAAAA
13845541 AATAAATAGC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 15 0.75
13 5 0.25
ACGTcount: A:0.77, C:0.00, G:0.09, T:0.14
Consensus pattern (12 bp):
AAAATAAAAATG
Found at i:13850290 original size:30 final size:32
Alignment explanation
Indices: 13850254--13850338 Score: 81
Period size: 30 Copynumber: 2.7 Consensus size: 32
13850244 TATAATATTA
13850254 TAAATTTTTGAAATTTAATTTAATTTA-AA-T
1 TAAATTTTTGAAATTTAATTTAATTTATAATT
*
13850284 TAAATTTTATTG--ATTTGATTTAATTTATTAATT
1 TAAA-TTT-TTGAAATTTAATTTAATTTA-TAATT
13850317 TATTAATTTTT-AAATTTAATTT
1 TA--AATTTTTGAAATTTAATTT
13850339 TTTTTGTTTT
Statistics
Matches: 44, Mismatches: 2, Indels: 14
0.73 0.03 0.23
Matches are distributed among these distances:
30 18 0.41
31 3 0.07
32 5 0.11
33 5 0.11
34 11 0.25
35 2 0.05
ACGTcount: A:0.38, C:0.00, G:0.04, T:0.59
Consensus pattern (32 bp):
TAAATTTTTGAAATTTAATTTAATTTATAATT
Found at i:13850608 original size:2 final size:2
Alignment explanation
Indices: 13850601--13850626 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
13850591 ACACTTCATA
13850601 TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC
13850627 AAGCTCTTTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
TC
Found at i:13852286 original size:24 final size:24
Alignment explanation
Indices: 13852255--13852317 Score: 76
Period size: 24 Copynumber: 2.6 Consensus size: 24
13852245 TTAATTTAAT
13852255 ATAAATTTTTTTAAT-CATAGTTATA
1 ATAAATTTTTTTAATGCA-A-TTATA
*
13852280 AT-AATTTTTTTATTGCAATTATA
1 ATAAATTTTTTTAATGCAATTATA
*
13852303 ATAAATTTTATTAAT
1 ATAAATTTTTTTAAT
13852318 ATTTTTAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
23 7 0.21
24 22 0.67
25 4 0.12
ACGTcount: A:0.40, C:0.03, G:0.03, T:0.54
Consensus pattern (24 bp):
ATAAATTTTTTTAATGCAATTATA
Found at i:13852323 original size:33 final size:33
Alignment explanation
Indices: 13852281--13852348 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
13852271 ATAGTTATAA
*
13852281 TAAT-TTTTTTATTGCAATTATAATAAATTTTAT
1 TAATATTTTTAATT-CAATTATAATAAATTTTAT
** *
13852314 TAATATTTTTAATTTTATTATAATTAATTTTAT
1 TAATATTTTTAATTCAATTATAATAAATTTTAT
13852347 TA
1 TA
13852349 TCTATCCAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
33 22 0.73
34 8 0.27
ACGTcount: A:0.37, C:0.01, G:0.01, T:0.60
Consensus pattern (33 bp):
TAATATTTTTAATTCAATTATAATAAATTTTAT
Found at i:13852342 original size:15 final size:15
Alignment explanation
Indices: 13852297--13852349 Score: 61
Period size: 15 Copynumber: 3.3 Consensus size: 15
13852287 TTTTATTGCA
*
13852297 ATTATAATAAATTTT
1 ATTATAATTAATTTT
*
13852312 ATTAATATTTTTAATTTT
1 ATT-ATA--ATTAATTTT
13852330 ATTATAATTAATTTT
1 ATTATAATTAATTTT
13852345 ATTAT
1 ATTAT
13852350 CTATCCAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
15 16 0.50
16 3 0.09
17 3 0.09
18 10 0.31
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTATAATTAATTTT
Found at i:13853091 original size:17 final size:17
Alignment explanation
Indices: 13853051--13853093 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 17
13853041 AAATTTTGTT
13853051 AATATTT-TTATTAAAA
1 AATATTTATTATTAAAA
13853067 AA-ATTTATT-TTAAAA
1 AATATTTATTATTAAAA
13853082 ATATATTTATTA
1 A-ATATTTATTA
13853094 AAATTTATAA
Statistics
Matches: 23, Mismatches: 0, Indels: 6
0.79 0.00 0.21
Matches are distributed among these distances:
15 11 0.48
16 5 0.22
17 7 0.30
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
AATATTTATTATTAAAA
Found at i:13853881 original size:33 final size:31
Alignment explanation
Indices: 13853834--13853903 Score: 79
Period size: 33 Copynumber: 2.2 Consensus size: 31
13853824 AGATTAGATG
* *
13853834 TAATTAAATTAAAAATAATAATAATATTATTA
1 TAATTAAAATAAAAATAATAATAAAATT-TTA
**
13853866 TAATTATAAATAAAAATTTTAATAAAATTTTA
1 TAATTA-AAATAAAAATAATAATAAAATTTTA
13853898 T-ATTAA
1 TAATTAA
13853904 TTTAATTTTA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 1 0.03
31 4 0.12
32 10 0.30
33 18 0.55
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (31 bp):
TAATTAAAATAAAAATAATAATAAAATTTTA
Found at i:13855063 original size:13 final size:13
Alignment explanation
Indices: 13855045--13855080 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
13855035 TTTGATGTGA
*
13855045 ATTAAATTTATAT
1 ATTAAATTTACAT
*
13855058 ATTAAATGTACAT
1 ATTAAATTTACAT
13855071 ATTAAATTTA
1 ATTAAATTTA
13855081 GATCAAATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
13 20 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (13 bp):
ATTAAATTTACAT
Found at i:13855674 original size:18 final size:18
Alignment explanation
Indices: 13855651--13855713 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
13855641 TAATTTATAT
13855651 AATATTAAATCAAAATTA
1 AATATTAAATCAAAATTA
**
13855669 AATATTTAAA--AAATAAAA
1 AATA-TTAAATCAAA-ATTA
13855687 AATTATTAAATC-AAATTA
1 AA-TATTAAATCAAAATTA
13855705 AAT-TTAAAT
1 AATATTAAAT
13855714 ATTATAAATA
Statistics
Matches: 36, Mismatches: 4, Indels: 12
0.69 0.08 0.23
Matches are distributed among these distances:
16 6 0.17
17 4 0.11
18 17 0.47
19 9 0.25
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (18 bp):
AATATTAAATCAAAATTA
Found at i:13855739 original size:26 final size:27
Alignment explanation
Indices: 13855699--13855755 Score: 73
Period size: 26 Copynumber: 2.1 Consensus size: 27
13855689 TTATTAAATC
*
13855699 AAATTAAATTTAAATATTATAAA-TATA
1 AAATTAAATTCAAATATTA-AAAGTATA
*
13855726 AAATTAAA-TCAAATGTTAAAAGTATA
1 AAATTAAATTCAAATATTAAAAGTATA
13855752 AAAT
1 AAAT
13855756 CTATCCGACC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
25 3 0.11
26 16 0.59
27 8 0.30
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (27 bp):
AAATTAAATTCAAATATTAAAAGTATA
Found at i:13865222 original size:21 final size:21
Alignment explanation
Indices: 13865192--13865234 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
13865182 AAAATCAAGT
13865192 TTATTAATTAAA-AATTAAAA
1 TTATTAATTAAATAATTAAAA
*
13865212 TTATCTAATTAAATATTTAAAA
1 TTAT-TAATTAAATAATTAAAA
13865234 T
1 T
13865235 AAAATTTATC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 8 0.40
22 8 0.40
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.44
Consensus pattern (21 bp):
TTATTAATTAAATAATTAAAA
Found at i:13866278 original size:24 final size:24
Alignment explanation
Indices: 13866251--13866297 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 24
13866241 AATAAATTTA
*
13866251 ATTCTTATACTTAACAAAAGCTCT
1 ATTCTTATACTCAACAAAAGCTCT
*
13866275 ATTCTTATACTCAACAAGAGCTC
1 ATTCTTATACTCAACAAAAGCTC
13866298 GAACTCGAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.36, C:0.23, G:0.06, T:0.34
Consensus pattern (24 bp):
ATTCTTATACTCAACAAAAGCTCT
Done.