Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167849.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_12, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 22966848
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 129000 characters in sequence are not A, C, G, or T
File 78 of 129
Found at i:12372015 original size:29 final size:29
Alignment explanation
Indices: 12371973--12372031 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
12371963 TAAAAATTTC
12371973 ATTGGTAATAGTAAAATTTTGTCGATAAT
1 ATTGGTAATAGTAAAATTTTGTCGATAAT
12372002 ATTGGTAATAGTAAAATTTTGTCGATAAT
1 ATTGGTAATAGTAAAATTTTGTCGATAAT
12372031 A
1 A
12372032 AGCATGAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.39, C:0.03, G:0.17, T:0.41
Consensus pattern (29 bp):
ATTGGTAATAGTAAAATTTTGTCGATAAT
Found at i:12372351 original size:11 final size:11
Alignment explanation
Indices: 12372276--12372359 Score: 52
Period size: 11 Copynumber: 7.9 Consensus size: 11
12372266 AAAATATCAA
*
12372276 ATCCAGAAAAC
1 ATCCATAAAAC
*
12372287 ATTCATCAAATAC
1 ATCCAT-AAA-AC
*
12372300 ATCAATAAAAC
1 ATCCATAAAAC
* *
12372311 ATTCAT--AAT
1 ATCCATAAAAC
* *
12372320 ATCCATCAAAT
1 ATCCATAAAAC
12372331 ATCCAT--AAC
1 ATCCATAAAAC
12372340 ATCCATAAAAC
1 ATCCATAAAAC
12372351 AT-CATAAAA
1 ATCCATAAAA
12372360 TATCAATCCC
Statistics
Matches: 58, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
9 15 0.26
10 7 0.12
11 24 0.41
12 6 0.10
13 6 0.10
ACGTcount: A:0.52, C:0.23, G:0.01, T:0.24
Consensus pattern (11 bp):
ATCCATAAAAC
Found at i:12373541 original size:22 final size:22
Alignment explanation
Indices: 12373478--12373550 Score: 95
Period size: 22 Copynumber: 3.6 Consensus size: 22
12373468 TAAACTATCA
12373478 AATATATAAATTACTTCAAAAC
1 AATATATAAATTACTTCAAAAC
*
12373500 AA-ATATAAA-T-CTT---AAT
1 AATATATAAATTACTTCAAAAC
12373516 AATATATAAATTACTTCAAAAC
1 AATATATAAATTACTTCAAAAC
12373538 AATATATAAATTA
1 AATATATAAATTA
12373551 GTAATATATA
Statistics
Matches: 43, Mismatches: 2, Indels: 12
0.75 0.04 0.21
Matches are distributed among these distances:
16 4 0.09
17 7 0.16
18 1 0.02
19 6 0.14
20 1 0.02
21 7 0.16
22 17 0.40
ACGTcount: A:0.56, C:0.10, G:0.00, T:0.34
Consensus pattern (22 bp):
AATATATAAATTACTTCAAAAC
Found at i:12373556 original size:37 final size:37
Alignment explanation
Indices: 12373478--12373565 Score: 142
Period size: 38 Copynumber: 2.4 Consensus size: 37
12373468 TAAACTATCA
12373478 AATATATAAATTACTTCAAAACAAATATAAATCTTAAT
1 AATATATAAATTACTTCAAAACAAATATAAA-CTTAAT
*
12373516 AATATATAAATTACTTCAAAACAATATATAAA-TTAGT
1 AATATATAAATTACTTCAAAACAA-ATATAAACTTAAT
12373553 AATATATAAATTA
1 AATATATAAATTA
12373566 TAACCTCAAA
Statistics
Matches: 48, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
37 17 0.35
38 24 0.50
39 7 0.15
ACGTcount: A:0.56, C:0.08, G:0.01, T:0.35
Consensus pattern (37 bp):
AATATATAAATTACTTCAAAACAAATATAAACTTAAT
Found at i:12374567 original size:11 final size:11
Alignment explanation
Indices: 12374551--12374580 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
12374541 TTTAATTTTG
*
12374551 TCAATATTCTA
1 TCAATAATCTA
12374562 TCAATAATCTA
1 TCAATAATCTA
12374573 TCAATAAT
1 TCAATAAT
12374581 TAACGGTGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (11 bp):
TCAATAATCTA
Found at i:12374669 original size:16 final size:17
Alignment explanation
Indices: 12374642--12374673 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
12374632 TGATAGTGTT
12374642 AAATTAAGAAAAAAAAC
1 AAATTAAGAAAAAAAAC
12374659 AAATT-AGAAAAAAAA
1 AAATTAAGAAAAAAAA
12374674 TGAAAAGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.78, C:0.03, G:0.06, T:0.12
Consensus pattern (17 bp):
AAATTAAGAAAAAAAAC
Found at i:12375272 original size:20 final size:20
Alignment explanation
Indices: 12375247--12375293 Score: 60
Period size: 20 Copynumber: 2.4 Consensus size: 20
12375237 TGTATTTCTA
12375247 TTATATA-CAATATTAATATT
1 TTATATATCAATATT-ATATT
**
12375267 TTATATATTTATATTATATT
1 TTATATATCAATATTATATT
12375287 TTATATA
1 TTATATA
12375294 AAAATTATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
20 19 0.79
21 5 0.21
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
TTATATATCAATATTATATT
Found at i:12377258 original size:29 final size:29
Alignment explanation
Indices: 12377219--12377295 Score: 75
Period size: 29 Copynumber: 2.6 Consensus size: 29
12377209 TAATGTTTAG
*
12377219 ATAAATCTTTATATTTTTA-TCATAACCAA
1 ATAAATTTTTA-ATTTTTATTCATAACCAA
* * * **
12377248 ATACATTTTTAAATTTTGATTTATATTCAA
1 ATAAATTTTT-AATTTTTATTCATAACCAA
12377278 ATAAATTTTTAATTTTTA
1 ATAAATTTTTAATTTTTA
12377296 ATTTGTATTT
Statistics
Matches: 38, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
29 21 0.55
30 17 0.45
ACGTcount: A:0.39, C:0.08, G:0.01, T:0.52
Consensus pattern (29 bp):
ATAAATTTTTAATTTTTATTCATAACCAA
Found at i:12377286 original size:30 final size:30
Alignment explanation
Indices: 12377245--12377349 Score: 104
Period size: 30 Copynumber: 3.5 Consensus size: 30
12377235 TTATCATAAC
* * *
12377245 CAAATACATTTTTAAATTTTGATTTATATT
1 CAAATAAAATTTTAAATTTTAATTTATATT
* * *
12377275 CAAATAAATTTTTAATTTTTAATTTGTATT
1 CAAATAAAATTTTAAATTTTAATTTATATT
* * * *
12377305 TAAAAAAAATATTAACTTTTAATTTATATAT
1 CAAATAAAATTTTAAATTTTAATTTATAT-T
12377336 -AAATAAAATTTTAA
1 CAAATAAAATTTTAA
12377350 TATAAATCAA
Statistics
Matches: 62, Mismatches: 12, Indels: 2
0.82 0.16 0.03
Matches are distributed among these distances:
30 61 0.98
31 1 0.02
ACGTcount: A:0.45, C:0.04, G:0.02, T:0.50
Consensus pattern (30 bp):
CAAATAAAATTTTAAATTTTAATTTATATT
Found at i:12377345 original size:17 final size:16
Alignment explanation
Indices: 12377325--12377391 Score: 73
Period size: 17 Copynumber: 3.9 Consensus size: 16
12377315 ATTAACTTTT
12377325 AATTTATATATAAATAA
1 AATTT-TATATAAATAA
12377342 AATTTTAATATAAATCAA
1 AATTTT-ATATAAAT-AA
*
12377360 TATTTTATTATAAATAGA
1 AATTTTA-TATAAATA-A
12377378 AA-TTTATATAAATA
1 AATTTTATATAAATA
12377392 CATAAAGATT
Statistics
Matches: 44, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
16 9 0.20
17 19 0.43
18 16 0.36
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (16 bp):
AATTTTATATAAATAA
Found at i:12377364 original size:18 final size:17
Alignment explanation
Indices: 12377327--12377391 Score: 71
Period size: 18 Copynumber: 3.8 Consensus size: 17
12377317 TAACTTTTAA
12377327 TTTATATATAAATAAAAT
1 TTTA-ATATAAATAAAAT
*
12377345 TTTAATATAAATCAATAT
1 TTTAATATAAAT-AAAAT
*
12377363 TTTATTATAAATAGAAA-
1 TTTAATATAAATA-AAAT
12377380 TTT-ATATAAATA
1 TTTAATATAAATA
12377392 CATAAAGATT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
16 8 0.20
17 12 0.29
18 21 0.51
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (17 bp):
TTTAATATAAATAAAAT
Found at i:12384838 original size:17 final size:17
Alignment explanation
Indices: 12384816--12384849 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
12384806 AAGTTGGCTG
12384816 TTAATTTTAGAGATGCA
1 TTAATTTTAGAGATGCA
12384833 TTAATTTTAGAGATGCA
1 TTAATTTTAGAGATGCA
12384850 ATTACTAGTT
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:0.35, C:0.06, G:0.18, T:0.41
Consensus pattern (17 bp):
TTAATTTTAGAGATGCA
Found at i:12386725 original size:23 final size:23
Alignment explanation
Indices: 12386698--12386744 Score: 94
Period size: 23 Copynumber: 2.0 Consensus size: 23
12386688 CTTTAATTGC
12386698 GAACAAGAAAAGACAATACCTAT
1 GAACAAGAAAAGACAATACCTAT
12386721 GAACAAGAAAAGACAATACCTAT
1 GAACAAGAAAAGACAATACCTAT
12386744 G
1 G
12386745 TGATTAAATG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 24 1.00
ACGTcount: A:0.55, C:0.17, G:0.15, T:0.13
Consensus pattern (23 bp):
GAACAAGAAAAGACAATACCTAT
Found at i:12392972 original size:17 final size:19
Alignment explanation
Indices: 12392950--12392990 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
12392940 TTTAAAATTA
12392950 ATAAAATA-T-TTTTTAAT
1 ATAAAATATTATTTTTAAT
12392967 ATAAAATATTATTTTTAAT
1 ATAAAATATTATTTTTAAT
12392986 ATAAA
1 ATAAA
12392991 TATAAAATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
17 8 0.36
18 1 0.05
19 13 0.59
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
ATAAAATATTATTTTTAAT
Found at i:12392991 original size:18 final size:17
Alignment explanation
Indices: 12392947--12392993 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 17
12392937 TAATTTAAAA
12392947 TTAATA-AAATA-TTTT
1 TTAATATAAATATTTTT
12392962 TTAATATAAAATATTATTT
1 TTAATAT-AAATATT-TTT
12392981 TTAATATAAATAT
1 TTAATATAAATAT
12392994 AAAATTAAAT
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
15 6 0.21
17 5 0.18
18 7 0.25
19 10 0.36
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (17 bp):
TTAATATAAATATTTTT
Found at i:12393004 original size:18 final size:18
Alignment explanation
Indices: 12392983--12393044 Score: 65
Period size: 18 Copynumber: 3.4 Consensus size: 18
12392973 TATTATTTTT
12392983 AATATAAATATAAAATTA
1 AATATAAATATAAAATTA
12393001 AATA-AATATATAAATATTA
1 AATATAA-ATATAAA-ATTA
*
12393020 AAT-TAAATAAAATAATTA
1 AATATAAATATAA-AATTA
*
12393038 AAAATAA
1 AATATAA
12393045 TTTTTTATAT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
17 2 0.05
18 22 0.59
19 13 0.35
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (18 bp):
AATATAAATATAAAATTA
Found at i:12393016 original size:24 final size:24
Alignment explanation
Indices: 12392984--12393030 Score: 85
Period size: 24 Copynumber: 2.0 Consensus size: 24
12392974 ATTATTTTTA
12392984 ATATAAATATAAAATTAAATAAAT
1 ATATAAATATAAAATTAAATAAAT
*
12393008 ATATAAATATTAAATTAAATAAA
1 ATATAAATATAAAATTAAATAAA
12393031 ATAATTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (24 bp):
ATATAAATATAAAATTAAATAAAT
Found at i:12394145 original size:16 final size:16
Alignment explanation
Indices: 12394124--12394166 Score: 50
Period size: 16 Copynumber: 2.7 Consensus size: 16
12394114 ATTATTTTTT
*
12394124 AAATATAAATATTTAA
1 AAATATAAATATATAA
* *
12394140 AAATATTATTATATAA
1 AAATATAAATATATAA
*
12394156 ATATATAAATA
1 AAATATAAATA
12394167 AAAAATTAAA
Statistics
Matches: 21, Mismatches: 6, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (16 bp):
AAATATAAATATATAA
Found at i:12394258 original size:22 final size:21
Alignment explanation
Indices: 12394233--12394292 Score: 52
Period size: 22 Copynumber: 2.9 Consensus size: 21
12394223 ATTTATTTAA
12394233 AATTTAAATTTAATTTAATCTC
1 AATTTAAATTTAATTTAAT-TC
** *
12394255 AA-TTATTTTTTAATTTTATTC
1 AATTTA-AATTTAATTTAATTC
*
12394276 GATTT-AATTTAATTTAA
1 AATTTAAATTTAATTTAA
12394293 AATTTAAATT
Statistics
Matches: 29, Mismatches: 7, Indels: 6
0.69 0.17 0.14
Matches are distributed among these distances:
20 9 0.31
21 6 0.21
22 14 0.48
ACGTcount: A:0.37, C:0.05, G:0.02, T:0.57
Consensus pattern (21 bp):
AATTTAAATTTAATTTAATTC
Found at i:12394697 original size:18 final size:18
Alignment explanation
Indices: 12394671--12394727 Score: 64
Period size: 18 Copynumber: 3.2 Consensus size: 18
12394661 TTGATTTTAA
12394671 TAAGATTAAAATTAATAAT
1 TAAG-TTAAAATTAATAAT
*
12394690 TAAGTTAAAATTAATTAT
1 TAAGTTAAAATTAATAAT
*
12394708 TATA-ATAAAATTAA-AAT
1 TA-AGTTAAAATTAATAAT
12394725 TAA
1 TAA
12394728 TAATAAAATA
Statistics
Matches: 34, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
16 1 0.03
17 4 0.12
18 24 0.71
19 5 0.15
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.39
Consensus pattern (18 bp):
TAAGTTAAAATTAATAAT
Found at i:12394702 original size:24 final size:22
Alignment explanation
Indices: 12394667--12394731 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 22
12394657 TGAATTGATT
*
12394667 TTAATAAGATTAAAATTAATAA
1 TTAATAAAATTAAAATTAATAA
*
12394689 TTAAGTTAAAATT--AATT-ATTA
1 TTAA--TAAAATTAAAATTAATAA
12394710 -TAATAAAATTAAAATTAATAA
1 TTAATAAAATTAAAATTAATAA
12394731 T
1 T
12394732 AAAATATATA
Statistics
Matches: 34, Mismatches: 3, Indels: 12
0.69 0.06 0.24
Matches are distributed among these distances:
18 7 0.21
20 7 0.21
21 6 0.18
22 8 0.24
24 6 0.18
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (22 bp):
TTAATAAAATTAAAATTAATAA
Found at i:12394730 original size:18 final size:19
Alignment explanation
Indices: 12394677--12394736 Score: 74
Period size: 18 Copynumber: 3.3 Consensus size: 19
12394667 TTAATAAGAT
12394677 TAAAATTAATAATTAAGT--
1 TAAAATTAATAATTAA-TAA
*
12394695 TAAAATTAATTATT-ATAA
1 TAAAATTAATAATTAATAA
12394713 TAAAATTAA-AATTAATAA
1 TAAAATTAATAATTAATAA
12394731 TAAAAT
1 TAAAAT
12394737 ATATATTTTG
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
16 1 0.03
17 4 0.11
18 32 0.86
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
TAAAATTAATAATTAATAA
Found at i:12394943 original size:33 final size:32
Alignment explanation
Indices: 12394915--12394976 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
12394905 AAATAATTAA
12394915 AATTTATTTATTAATTCATTATATAATAAAGTT
1 AATTTATTTATTAATTCATTATATAAT-AAGTT
* *
12394948 TATTTATTTATTAATTTATTATATAATAA
1 AATTTATTTATTAATTCATTATATAATAA
12394977 AATTTGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 2 0.07
33 25 0.93
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.55
Consensus pattern (32 bp):
AATTTATTTATTAATTCATTATATAATAAGTT
Found at i:12394981 original size:29 final size:29
Alignment explanation
Indices: 12394907--12394981 Score: 96
Period size: 33 Copynumber: 2.4 Consensus size: 29
12394897 TTATTGATAA
12394907 ATAATTAAAATTTATTTATTAATTCATTAT
1 ATAA-TAAAATTTATTTATTAATTCATTAT
*
12394937 ATAATAAAGTTTATTTATTTATTAATTTATTAT
1 ATAATAAA----ATTTATTTATTAATTCATTAT
12394970 ATAATAAAATTT
1 ATAATAAAATTT
12394982 GTTTTATATT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
29 8 0.20
30 4 0.10
33 28 0.70
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (29 bp):
ATAATAAAATTTATTTATTAATTCATTAT
Found at i:12395802 original size:2 final size:2
Alignment explanation
Indices: 12395795--12395832 Score: 60
Period size: 2 Copynumber: 19.5 Consensus size: 2
12395785 TCAATGGTTG
*
12395795 AT AT AT AT AA AT AT AT AT AT AT AT AT AT AT AT -T AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
12395833 AAAAAGTGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 32 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:12412933 original size:2 final size:2
Alignment explanation
Indices: 12412926--12412957 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
12412916 ATATGGATAA
12412926 AT AT 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 AT AT
12412958 TATTGAAGAT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:12418712 original size:33 final size:32
Alignment explanation
Indices: 12418640--12418715 Score: 100
Period size: 32 Copynumber: 2.4 Consensus size: 32
12418630 TCACGTTAAT
*
12418640 ATTAAAAAAAAATTTTTTAAAAATTCAAAAAA
1 ATTAAAAAAAAATTTTTTAAAAACTCAAAAAA
* *
12418672 ATTAAAAAAAAAGTTTTTTAAAAACT-GAAATA
1 ATTAAAAAAAAA-TTTTTTAAAAACTCAAAAAA
*
12418704 TTTAAAAAAAAA
1 ATTAAAAAAAAA
12418716 CTTTAAAAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
32 27 0.69
33 12 0.31
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.30
Consensus pattern (32 bp):
ATTAAAAAAAAATTTTTTAAAAACTCAAAAAA
Found at i:12418739 original size:18 final size:18
Alignment explanation
Indices: 12418709--12418760 Score: 68
Period size: 18 Copynumber: 2.8 Consensus size: 18
12418699 AAATATTTAA
*
12418709 AAAAAAACTTTAAAAATAT
1 AAAAAAAC-TTAAAAAAAT
*
12418728 ATAAAAACTTAAAAAAAT
1 AAAAAAACTTAAAAAAAT
12418746 AAAAAAATCTTAAAA
1 AAAAAAA-CTTAAAA
12418761 TTTTATTAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
18 15 0.52
19 14 0.48
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (18 bp):
AAAAAAACTTAAAAAAAT
Found at i:12418752 original size:19 final size:19
Alignment explanation
Indices: 12418708--12418760 Score: 63
Period size: 19 Copynumber: 2.8 Consensus size: 19
12418698 GAAATATTTA
*
12418708 AAAAAAAACTT-TAAAAAT
1 AAAAAAAACTTAAAAAAAT
*
12418726 ATATAAAAACTTAAAAAAAT
1 A-AAAAAAACTTAAAAAAAT
*
12418746 AAAAAAATCTTAAAA
1 AAAAAAAACTTAAAA
12418761 TTTTATTAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
18 1 0.03
19 21 0.72
20 7 0.24
ACGTcount: A:0.72, C:0.06, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAAAAAACTTAAAAAAAT
Found at i:12418759 original size:37 final size:39
Alignment explanation
Indices: 12418708--12418783 Score: 93
Period size: 38 Copynumber: 2.0 Consensus size: 39
12418698 GAAATATTTA
* *
12418708 AAAAAAAACTTTAAAAATATA-TAAAAACTTAAAAAAAT
1 AAAAAAAACTTTAAAAATATATTAAAAAATAAAAAAAAT
* * *
12418746 AAAAAAATC-TTAAAATTTTATTAAAAAATAAAAAAAAT
1 AAAAAAAACTTTAAAAATATATTAAAAAATAAAAAAAAT
12418784 TCTAAAAAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
37 9 0.28
38 23 0.72
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (39 bp):
AAAAAAAACTTTAAAAATATATTAAAAAATAAAAAAAAT
Found at i:12418801 original size:30 final size:29
Alignment explanation
Indices: 12418739--12418802 Score: 76
Period size: 30 Copynumber: 2.2 Consensus size: 29
12418729 TAAAAACTTA
* * *
12418739 AAAAAATAAAAAAATCTTAAAATTTTATT
1 AAAAAATAAAAAAATCTAAAAAATTCATT
12418768 AAAAAATAAAAAAAATTCTAAAAAATTCA-T
1 AAAAAAT-AAAAAAA-TCTAAAAAATTCATT
12418798 AAAAA
1 AAAAA
12418803 CTTTAAAATT
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
29 7 0.23
30 13 0.43
31 10 0.33
ACGTcount: A:0.69, C:0.05, G:0.00, T:0.27
Consensus pattern (29 bp):
AAAAAATAAAAAAATCTAAAAAATTCATT
Found at i:12418880 original size:21 final size:22
Alignment explanation
Indices: 12418836--12418888 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
12418826 AATCTAATTT
12418836 TTTTAAAAAAATCTAAAAAAAA
1 TTTTAAAAAAATCTAAAAAAAA
* * * *
12418858 TTTTAAAAAAATGTACAATAAT
1 TTTTAAAAAAATCTAAAAAAAA
12418880 TTTTAAAAA
1 TTTTAAAAA
12418889 GTTATTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.60, C:0.04, G:0.02, T:0.34
Consensus pattern (22 bp):
TTTTAAAAAAATCTAAAAAAAA
Found at i:12419650 original size:13 final size:13
Alignment explanation
Indices: 12419632--12419656 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12419622 TTTTTAATAT
12419632 AAAAAATTATAAA
1 AAAAAATTATAAA
12419645 AAAAAATTATAA
1 AAAAAATTATAA
12419657 GTACCGAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (13 bp):
AAAAAATTATAAA
Found at i:12419837 original size:2 final size:2
Alignment explanation
Indices: 12419826--12419872 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
12419816 AATGGAACAA
* *
12419826 AT AT -T AT AT AT AT AT AT GT AT GT 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 AT AT AT
12419867 AT AT AT
1 AT AT AT
12419873 TTGATAAAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
1 1 0.03
2 39 0.98
ACGTcount: A:0.45, C:0.00, G:0.04, T:0.51
Consensus pattern (2 bp):
AT
Found at i:12420740 original size:10 final size:10
Alignment explanation
Indices: 12420727--12420778 Score: 50
Period size: 10 Copynumber: 5.0 Consensus size: 10
12420717 GGAAAAAATC
12420727 TAAAAATTTT
1 TAAAAATTTT
* *
12420737 TAAAAAATTA
1 TAAAAATTTT
12420747 TAAAATATTTTT
1 TAAAA-A-TTTT
*
12420759 TAAAAATTAT
1 TAAAAATTTT
*
12420769 GAAAAATTTT
1 TAAAAATTTT
12420779 CATTCTTTTT
Statistics
Matches: 33, Mismatches: 7, Indels: 4
0.75 0.16 0.09
Matches are distributed among these distances:
10 24 0.73
11 2 0.06
12 7 0.21
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (10 bp):
TAAAAATTTT
Found at i:12420756 original size:21 final size:20
Alignment explanation
Indices: 12420700--12420778 Score: 81
Period size: 20 Copynumber: 3.9 Consensus size: 20
12420690 GAAAAATATT
* *
12420700 AAAAATT-TAAAAGTTTTGGA
1 AAAAATTATAAAAATTTT-TA
*
12420720 AAAAA-TCTAAAAATTTTTA
1 AAAAATTATAAAAATTTTTA
*
12420739 AAAAATTATAAAATATTTTTT
1 AAAAATTATAAAA-ATTTTTA
12420760 AAAAATTATGAAAAATTTT
1 AAAAATTAT-AAAAATTTT
12420779 CATTCTTTTT
Statistics
Matches: 51, Mismatches: 4, Indels: 7
0.82 0.06 0.11
Matches are distributed among these distances:
19 7 0.14
20 20 0.39
21 20 0.39
22 4 0.08
ACGTcount: A:0.54, C:0.01, G:0.05, T:0.39
Consensus pattern (20 bp):
AAAAATTATAAAAATTTTTA
Found at i:12420761 original size:22 final size:21
Alignment explanation
Indices: 12420728--12420778 Score: 77
Period size: 21 Copynumber: 2.4 Consensus size: 21
12420718 GAAAAAATCT
*
12420728 AAAAATTTTTAAAAAATTAT-
1 AAAAATTTTTTAAAAATTATG
12420748 AAAATATTTTTTAAAAATTATG
1 AAAA-ATTTTTTAAAAATTATG
12420770 AAAAATTTT
1 AAAAATTTT
12420779 CATTCTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
20 4 0.14
21 20 0.71
22 4 0.14
ACGTcount: A:0.55, C:0.00, G:0.02, T:0.43
Consensus pattern (21 bp):
AAAAATTTTTTAAAAATTATG
Found at i:12430980 original size:25 final size:25
Alignment explanation
Indices: 12430946--12430997 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
12430936 TAATCACTCT
12430946 AAGAATTGTTTTGCTTGCACATATC
1 AAGAATTGTTTTGCTTGCACATATC
*
12430971 AAGAATTGTTTTGCTTGCGCATATC
1 AAGAATTGTTTTGCTTGCACATATC
12430996 AA
1 AA
12430998 TTACGATCAC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.29, C:0.15, G:0.17, T:0.38
Consensus pattern (25 bp):
AAGAATTGTTTTGCTTGCACATATC
Found at i:12436492 original size:2 final size:2
Alignment explanation
Indices: 12436485--12436512 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
12436475 ATATGGATAA
12436485 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
12436513 TATTGAAGAT
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:12439475 original size:7 final size:6
Alignment explanation
Indices: 12439467--12439536 Score: 50
Period size: 6 Copynumber: 10.5 Consensus size: 6
12439457 TTATTTGAAG
* * *
12439467 AAAATA GAATAATAA AAAATA TAAATA AATAATAA AAAATA AAAAAA GTAAAACA
1 AAAATA -AA-AAT-A AAAATA AAAATA AA-AAT-A AAAATA AAAATA --AAAATA
12439522 AAAATA AAAATA AAA
1 AAAATA AAAATA AAA
12439537 CTGAGATAAA
Statistics
Matches: 52, Mismatches: 5, Indels: 13
0.74 0.07 0.19
Matches are distributed among these distances:
6 27 0.52
7 11 0.21
8 13 0.25
9 1 0.02
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:12439496 original size:10 final size:10
Alignment explanation
Indices: 12439474--12439531 Score: 61
Period size: 9 Copynumber: 6.1 Consensus size: 10
12439464 AAGAAAATAG
12439474 AATAATAAAA
1 AATAATAAAA
12439484 AAT-ATAAATA
1 AATAATAAA-A
12439494 AATAATAAAA
1 AATAATAAAA
12439504 AATAA-AAAA
1 AATAATAAAA
* *
12439513 AGTAA-AACA
1 AATAATAAAA
12439522 AA-AATAAAA
1 AATAATAAAA
12439531 A
1 A
12439532 TAAAACTGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 7
0.79 0.08 0.13
Matches are distributed among these distances:
8 2 0.05
9 21 0.51
10 13 0.32
11 5 0.12
ACGTcount: A:0.79, C:0.02, G:0.02, T:0.17
Consensus pattern (10 bp):
AATAATAAAA
Found at i:12439499 original size:20 final size:19
Alignment explanation
Indices: 12439467--12439535 Score: 77
Period size: 20 Copynumber: 3.4 Consensus size: 19
12439457 TTATTTGAAG
12439467 AAAATAGAATAATAAAAAAT
1 AAAATA-AATAATAAAAAAT
12439487 ATAAATAAATAATAAAAAAT
1 A-AAATAAATAATAAAAAAT
*
12439507 AAAA-AAAGTAAAACAAAAAT
1 AAAATAAA-TAATA-AAAAAT
12439527 AAAAATAAA
1 -AAAATAAA
12439536 ACTGAGATAA
Statistics
Matches: 43, Mismatches: 1, Indels: 8
0.83 0.02 0.15
Matches are distributed among these distances:
18 3 0.07
19 7 0.16
20 21 0.49
21 9 0.21
22 3 0.07
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.17
Consensus pattern (19 bp):
AAAATAAATAATAAAAAAT
Found at i:12439508 original size:27 final size:26
Alignment explanation
Indices: 12439467--12439536 Score: 72
Period size: 27 Copynumber: 2.6 Consensus size: 26
12439457 TTATTTGAAG
12439467 AAAATAGAATAATAAAAAATA-TAAATA-A
1 AAAATA-AA-AATAAAAAA-AGTAAA-ACA
*
12439495 ATAATAAAAAATAAAAAAAGTAAAACA
1 AAAAT-AAAAATAAAAAAAGTAAAACA
12439522 AAAATAAAAATAAAA
1 AAAATAAAAATAAAA
12439537 CTGAGATAAA
Statistics
Matches: 37, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
26 12 0.32
27 18 0.49
28 6 0.16
29 1 0.03
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.17
Consensus pattern (26 bp):
AAAATAAAAATAAAAAAAGTAAAACA
Found at i:12439518 original size:9 final size:8
Alignment explanation
Indices: 12439467--12439536 Score: 52
Period size: 8 Copynumber: 8.1 Consensus size: 8
12439457 TTATTTGAAG
*
12439467 AAAATAGA
1 AAAATAAA
*
12439475 ATAATAAA
1 AAAATAAA
12439483 AAATATAAA
1 AAA-ATAAA
*
12439492 TAAATAATAA
1 AAAAT-A-AA
12439502 AAAATAAA
1 AAAATAAA
12439510 AAAAGTAAA
1 AAAA-TAAA
12439519 ACAAA-AATA
1 A-AAATAA-A
12439528 AAAATAAA
1 AAAATAAA
12439536 A
1 A
12439537 CTGAGATAAA
Statistics
Matches: 50, Mismatches: 5, Indels: 14
0.72 0.07 0.20
Matches are distributed among these distances:
8 23 0.46
9 18 0.36
10 9 0.18
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.17
Consensus pattern (8 bp):
AAAATAAA
Found at i:12440101 original size:11 final size:10
Alignment explanation
Indices: 12440086--12440116 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
12440076 TTCCAGAAAA
12440086 AAAAAATTTC
1 AAAAAATTTC
12440096 AAAAAATTCTC
1 AAAAAATT-TC
12440107 AAAAAATTTC
1 AAAAAATTTC
12440117 TGATGATTCC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.58, C:0.13, G:0.00, T:0.29
Consensus pattern (10 bp):
AAAAAATTTC
Found at i:12445506 original size:58 final size:58
Alignment explanation
Indices: 12445390--12445616 Score: 242
Period size: 58 Copynumber: 3.8 Consensus size: 58
12445380 TTATGCAGAA
* * *
12445390 AAAATTGATACTTTCAACTTTTTCCC-AAAATATTTTTTAGAAATTTTAA-TCTCGAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAATTTAATTTTC-AGG
**
12445447 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAACCTTAATTTTCAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAATTTAATTTTCAGG
* * * * * * *
12445505 AAAATTGATACTTTCAACTTTTCCTCAAAACCCTTTGTTTTTTTGAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCCCAAAA----ATATTTTTTAGAAAATTTAATTTTCAGG
* * *
12445567 AAAATCGATACTTTCAACTTTTCCTCAAAAATATTTCTTTTTGAAAATTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATA-TT-TTTTAGAAAATTT
12445617 TTATTTTTTT
Statistics
Matches: 146, Mismatches: 16, Indels: 13
0.83 0.09 0.07
Matches are distributed among these distances:
57 25 0.17
58 54 0.37
59 5 0.03
60 13 0.09
62 49 0.34
ACGTcount: A:0.35, C:0.15, G:0.07, T:0.43
Consensus pattern (58 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTAGAAAATTTAATTTTCAGG
Found at i:12445639 original size:6 final size:6
Alignment explanation
Indices: 12445630--12445662 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
12445620 TTTTTTTGCA
12445630 AAAAAT AAAAAT -AAAAT -AAAAT AAAAAT AAAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAAAT AAAAA
12445663 ATAATACTCC
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
5 10 0.38
6 16 0.62
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (6 bp):
AAAAAT
Found at i:12445668 original size:16 final size:15
Alignment explanation
Indices: 12445629--12445668 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 15
12445619 ATTTTTTTGC
12445629 AAAAAATAAAAATAA
1 AAAAAATAAAAATAA
12445644 AATAAAATAAAAATAA
1 AA-AAAATAAAAATAA
12445660 AAAATAATA
1 AAAA-AATA
12445669 CTCCTGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 4 0.17
16 19 0.83
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.17
Consensus pattern (15 bp):
AAAAAATAAAAATAA
Found at i:12448949 original size:58 final size:57
Alignment explanation
Indices: 12448879--12449151 Score: 288
Period size: 58 Copynumber: 4.7 Consensus size: 57
12448869 AAAAAATTTA
* *
12448879 AAAAAAGATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTCGAAAATAAGCTTTTT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAG-TTTTT
* * *
12448937 AAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAA-TTTTCTTTGAAAATAAGCTTTCTAA
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC-TCGAAAATAAG-TTT-T-T
* **
12448997 AAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAG-TTTT
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAGTTTTT
* * * *
12449052 CAAAAATGAATTTTTGA-AGAAAAG-TGAAAAGTATCAATTTTCCTCGAAATTAAAGTTTCT
1 AAAAAAT--ATTTTTGAGA-AAAAGTTG-AAAGTATCAATTTTTCTCGAAAAT-AAGTTTTT
* *
12449112 AAAAAAT-GTTTTGGGAAAAAGTTGAAAGTATCAATTTTTC
1 AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTC
12449152 CTACATAAAA
Statistics
Matches: 184, Mismatches: 18, Indels: 27
0.80 0.08 0.12
Matches are distributed among these distances:
55 6 0.03
56 1 0.01
57 41 0.22
58 74 0.40
59 34 0.18
60 28 0.15
ACGTcount: A:0.44, C:0.07, G:0.14, T:0.36
Consensus pattern (57 bp):
AAAAAATATTTTTGAGAAAAAGTTGAAAGTATCAATTTTTCTCGAAAATAAGTTTTT
Found at i:12449034 original size:117 final size:115
Alignment explanation
Indices: 12448877--12449151 Score: 344
Period size: 117 Copynumber: 2.4 Consensus size: 115
12448867 TAAAAAAATT
* * * *
12448877 TAAAAAAAGATTTTTGAGAAAAAATTGAAAGTATCAATTTTTCTCGAAAATAAGCTTTTTAAAAA
1 TAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAG--TTTTAAAAA
* * *
12448942 AT-ATTTTTGAGGAAAAGTTG-AAAGTATCAATTTTCTTTGAAAAT-AAGCTTTC
63 ATAATTTTTGAAGAAAAG-TGAAAAGTATCAATTTTCCTCGAAAATAAAG-TTTC
* *
12448994 TAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTTAAAAATAAGTTTTCAAAAAT
1 T-AAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAGTTTTAAAAAAT
*
12449059 GAATTTTTGAAGAAAAGTGAAAAGTATCAATTTTCCTCGAAATTAAAGTTTC
65 -AATTTTTGAAGAAAAGTGAAAAGTATCAATTTTCCTCGAAAATAAAGTTTC
*
12449111 T-AAAAAAT-GTTTTGGGAAAAAGTTGAAAGTATCAATTTTTC
1 TAAAAAAATATTTTTGGG-AAAAGTTGAAAGTATCAATTTTTC
12449152 CTACATAAAA
Statistics
Matches: 141, Mismatches: 11, Indels: 14
0.85 0.07 0.08
Matches are distributed among these distances:
114 7 0.05
115 41 0.29
116 2 0.01
117 74 0.52
118 17 0.12
ACGTcount: A:0.44, C:0.07, G:0.13, T:0.36
Consensus pattern (115 bp):
TAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTTCTCAAAAATAAGTTTTAAAAAATA
ATTTTTGAAGAAAAGTGAAAAGTATCAATTTTCCTCGAAAATAAAGTTTC
Found at i:12450221 original size:32 final size:32
Alignment explanation
Indices: 12450185--12450253 Score: 79
Period size: 32 Copynumber: 2.2 Consensus size: 32
12450175 AAAATATTTG
* *
12450185 AAAAAAACT-TTAAAAATATA-TAAAAACTTAA
1 AAAAAAAATCTTAAAAATATATTAAAAA-ATAA
* *
12450216 AAAAAAAATCTTAAAATTTTATTAAAAAATAA
1 AAAAAAAATCTTAAAAATATATTAAAAAATAA
12450248 AAAAAA
1 AAAAAA
12450254 TCTAAAAAAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
31 8 0.25
32 18 0.56
33 6 0.19
ACGTcount: A:0.70, C:0.04, G:0.00, T:0.26
Consensus pattern (32 bp):
AAAAAAAATCTTAAAAATATATTAAAAAATAA
Found at i:12450351 original size:21 final size:21
Alignment explanation
Indices: 12450301--12450357 Score: 69
Period size: 21 Copynumber: 2.7 Consensus size: 21
12450291 ATAAGAATCT
12450301 AAAATTTTTTAAAAAATCTAA
1 AAAATTTTTTAAAAAATCTAA
* * * *
12450322 AAAAATTTTTAAAATATGTAC
1 AAAATTTTTTAAAAAATCTAA
*
12450343 AATATTTTTTAAAAA
1 AAAATTTTTTAAAAA
12450358 GTTATGAAAA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (21 bp):
AAAATTTTTTAAAAAATCTAA
Found at i:12451298 original size:2 final size:2
Alignment explanation
Indices: 12451287--12451325 Score: 53
Period size: 2 Copynumber: 20.0 Consensus size: 2
12451277 AATGGAACAA
* *
12451287 AT AT -T AT AT AT AT AT AT AT GT AT GT 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 AT AT
12451326 TTGATAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
AT
Found at i:12451550 original size:14 final size:14
Alignment explanation
Indices: 12451520--12451562 Score: 52
Period size: 14 Copynumber: 3.0 Consensus size: 14
12451510 ACGAAGCCTC
12451520 ATAATCATAT-ATCAT
1 ATAAT-ATATAAT-AT
*
12451535 ATCATATATAATAT
1 ATAATATATAATAT
12451549 ATAATATATAATAT
1 ATAATATATAATAT
12451563 TATAGTACAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 19 0.76
15 6 0.24
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (14 bp):
ATAATATATAATAT
Found at i:12452184 original size:20 final size:19
Alignment explanation
Indices: 12452159--12452216 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
12452149 GAAAAATATT
*
12452159 AAAAATTTAAAAGTTTTGGA
1 AAAAATTTAAAAATTTT-GA
* *
12452179 AAAAATCTAAAAATTTTTA
1 AAAAATTTAAAAATTTTGA
12452198 AAAAATTATAAAATATTTT
1 AAAAATT-TAAAA-ATTTT
12452217 TTAATTATGA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
19 7 0.22
20 20 0.62
21 5 0.16
ACGTcount: A:0.55, C:0.02, G:0.05, T:0.38
Consensus pattern (19 bp):
AAAAATTTAAAAATTTTGA
Found at i:12452200 original size:19 final size:18
Alignment explanation
Indices: 12452134--12452216 Score: 64
Period size: 19 Copynumber: 4.6 Consensus size: 18
12452124 AAAATTCATA
*
12452134 AAAAATTTTT--AAAATG
1 AAAAATTTTTAAAAAATT
* *
12452150 AAAAA-TATTAAAAATTT
1 AAAAATTTTTAAAAAATT
* *
12452167 AAAAGTTTTGGAAAAAATCT
1 AAAAATTTT-TAAAAAAT-T
12452187 AAAAATTTTTAAAAAATT
1 AAAAATTTTTAAAAAATT
12452205 ATAAAATATTTT
1 A-AAAAT-TTTT
12452217 TTAATTATGA
Statistics
Matches: 51, Mismatches: 9, Indels: 10
0.73 0.13 0.14
Matches are distributed among these distances:
15 3 0.06
16 5 0.10
17 8 0.16
18 4 0.08
19 18 0.35
20 13 0.25
ACGTcount: A:0.57, C:0.01, G:0.05, T:0.37
Consensus pattern (18 bp):
AAAAATTTTTAAAAAATT
Found at i:12453912 original size:29 final size:29
Alignment explanation
Indices: 12453880--12453937 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
12453870 TCTTAAATTT
* *
12453880 GAAAATTTAAAAT-ATAATTTTTATTTTTA
1 GAAAATTCAAAATAATAATTTAT-TTTTTA
*
12453909 GAAAATTCATAATAATAATTTATTTTTTA
1 GAAAATTCAAAATAATAATTTATTTTTTA
12453938 ATTATTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 17 0.68
30 8 0.32
ACGTcount: A:0.45, C:0.02, G:0.03, T:0.50
Consensus pattern (29 bp):
GAAAATTCAAAATAATAATTTATTTTTTA
Found at i:12454544 original size:19 final size:20
Alignment explanation
Indices: 12454509--12454558 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 20
12454499 CCTGAAATTA
12454509 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTA-TTTTTAAAT
12454530 ATAAAATATTATTTTT-AAT
1 ATAAAATATTATTTTTAAAT
12454549 ATAAATATAT
1 ATAAA-ATAT
12454559 AATTAAATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
19 8 0.29
20 9 0.32
21 11 0.39
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (20 bp):
ATAAAATATTATTTTTAAAT
Found at i:12459194 original size:2 final size:2
Alignment explanation
Indices: 12459187--12459213 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12459177 TGTGCAGGTT
12459187 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
12459214 ATGCATGCTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:12471386 original size:13 final size:13
Alignment explanation
Indices: 12471370--12471394 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12471360 AATAGAATAA
12471370 TAAAAAAATAAAT
1 TAAAAAAATAAAT
12471383 TAAAAAAATAAA
1 TAAAAAAATAAA
12471395 AAAAAATAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAAAAAATAAAT
Found at i:12471392 original size:21 final size:20
Alignment explanation
Indices: 12471363--12471435 Score: 69
Period size: 21 Copynumber: 3.5 Consensus size: 20
12471353 TAAAGAAAAT
12471363 AGAATAATAAAAAAATAAATTAA
1 AGAA-AATAAAAAAA-AAA-TAA
12471386 A-AAAAT-AAAAAAAAATAA
1 AGAAAATAAAAAAAAAATAA
*
12471404 AGAAAAGTAAAAAAAAATAAAA
1 AGAAAA-TAAAAAAAAA-ATAA
*
12471426 ATAAAATAAA
1 AGAAAATAAA
12471436 GATAAAAAGA
Statistics
Matches: 44, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
18 4 0.09
19 7 0.16
20 7 0.16
21 15 0.34
22 10 0.23
23 1 0.02
ACGTcount: A:0.81, C:0.00, G:0.04, T:0.15
Consensus pattern (20 bp):
AGAAAATAAAAAAAAAATAA
Found at i:12471415 original size:6 final size:5
Alignment explanation
Indices: 12471358--12471442 Score: 59
Period size: 5 Copynumber: 16.8 Consensus size: 5
12471348 TTATTTAAAG
* * * *
12471358 AAAAT AGAAT AATAAA AAAAT -AAAT TAAA- AAAAT AAAAA AAAAT AAAGA-
1 AAAAT AAAAT AA-AAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT
* *
12471407 AAAGT AAAAA AAAAT AAAAAT AAAAT AAAGAT AAAA
1 AAAAT AAAAT AAAAT -AAAAT AAAAT AAA-AT AAAA
12471443 AGAATATTAA
Statistics
Matches: 62, Mismatches: 11, Indels: 14
0.71 0.13 0.16
Matches are distributed among these distances:
4 7 0.11
5 40 0.65
6 15 0.24
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:12471415 original size:26 final size:27
Alignment explanation
Indices: 12471384--12471443 Score: 77
Period size: 30 Copynumber: 2.1 Consensus size: 27
12471374 AAAATAAATT
12471384 AAAAAAATAAAAA-AAAATAAAGAAAAGTAA
1 AAAAAAATAAAAATAAAATAAAG---A-TAA
12471414 AAAAAAATAAAAATAAAATAAAGATAA
1 AAAAAAATAAAAATAAAATAAAGATAA
12471441 AAA
1 AAA
12471444 GAATATTAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
27 6 0.21
28 1 0.03
30 13 0.45
31 9 0.31
ACGTcount: A:0.83, C:0.00, G:0.05, T:0.12
Consensus pattern (27 bp):
AAAAAAATAAAAATAAAATAAAGATAA
Found at i:12471442 original size:11 final size:10
Alignment explanation
Indices: 12471365--12471435 Score: 79
Period size: 10 Copynumber: 6.6 Consensus size: 10
12471355 AAGAAAATAG
12471365 AATAATAAAAA
1 AATAA-AAAAA
12471376 AATAAATTAAAAA
1 AAT-AA--AAAAA
12471389 AATAAAAAAA
1 AATAAAAAAA
*
12471399 AATAAAGAAA
1 AATAAAAAAA
*
12471409 AGTAAAAAAA
1 AATAAAAAAA
12471419 AATAAAAATAA
1 AATAAAAA-AA
12471430 AATAAA
1 AATAAA
12471436 GATAAAAAGA
Statistics
Matches: 53, Mismatches: 4, Indels: 6
0.84 0.06 0.10
Matches are distributed among these distances:
10 29 0.55
11 11 0.21
12 4 0.08
13 9 0.17
ACGTcount: A:0.82, C:0.00, G:0.03, T:0.15
Consensus pattern (10 bp):
AATAAAAAAA
Found at i:12471448 original size:26 final size:25
Alignment explanation
Indices: 12471353--12471431 Score: 66
Period size: 20 Copynumber: 3.4 Consensus size: 25
12471343 TATTTTTATT
*
12471353 TAAAGA-AAATAGAATAATAAAAAAA
1 TAAAGATAAAAAGAATAA-AAAAAAA
*
12471378 TAAA-TTAAAAA-AATAAAAAAAAA
1 TAAAGATAAAAAGAATAAAAAAAAA
12471401 TAAAG---AAAAG--TAAAAAAAAA
1 TAAAGATAAAAAGAATAAAAAAAAA
*
12471421 TAAAAATAAAA
1 TAAAGATAAAA
12471432 TAAAGATAAA
Statistics
Matches: 45, Mismatches: 3, Indels: 14
0.73 0.05 0.23
Matches are distributed among these distances:
20 14 0.31
21 4 0.09
23 14 0.31
24 5 0.11
25 8 0.18
ACGTcount: A:0.80, C:0.00, G:0.05, T:0.15
Consensus pattern (25 bp):
TAAAGATAAAAAGAATAAAAAAAAA
Found at i:12471494 original size:25 final size:26
Alignment explanation
Indices: 12471466--12471514 Score: 64
Period size: 25 Copynumber: 1.9 Consensus size: 26
12471456 AACCTAATCT
* *
12471466 AATAAATAAAAAAAT-AAAGAAAACA
1 AATAAACAAAAAAATGAAAAAAAACA
*
12471491 AATAAACAAAGAAATGAAAAAAAA
1 AATAAACAAAAAAATGAAAAAAAA
12471515 AAAACCTAGA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 13 0.65
26 7 0.35
ACGTcount: A:0.80, C:0.04, G:0.06, T:0.10
Consensus pattern (26 bp):
AATAAACAAAAAAATGAAAAAAAACA
Found at i:12472073 original size:26 final size:27
Alignment explanation
Indices: 12472040--12472091 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
12472030 AGAAATTTCC
12472040 CAAAAATTTTCAAAAAAAT-TTTTCGT
1 CAAAAATTTTCAAAAAAATATTTTCGT
* *
12472066 CAAAAATTTTTAAAAAATTATTTTCG
1 CAAAAATTTTCAAAAAAATATTTTCG
12472092 ATCCCTACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 17 0.74
27 6 0.26
ACGTcount: A:0.46, C:0.10, G:0.04, T:0.40
Consensus pattern (27 bp):
CAAAAATTTTCAAAAAAATATTTTCGT
Found at i:12479443 original size:12 final size:12
Alignment explanation
Indices: 12479426--12479461 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
12479416 AAACGCAATA
12479426 ATTGATAATTTT
1 ATTGATAATTTT
12479438 ATTGATAATTTT
1 ATTGATAATTTT
12479450 ATTGATAATTTT
1 ATTGATAATTTT
12479462 CATCAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.08, T:0.58
Consensus pattern (12 bp):
ATTGATAATTTT
Found at i:12481567 original size:17 final size:17
Alignment explanation
Indices: 12481545--12481577 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12481535 TTATAAAATA
12481545 GAATAAAATGATATTAT
1 GAATAAAATGATATTAT
*
12481562 GAATAAAATTATATTA
1 GAATAAAATGATATTA
12481578 AATAATATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.09, T:0.36
Consensus pattern (17 bp):
GAATAAAATGATATTAT
Found at i:12487202 original size:14 final size:14
Alignment explanation
Indices: 12487184--12487217 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12487174 TTCAAAAGCA
*
12487184 AAAAAGCAAAAAAGT
1 AAAAA-CAAAAAAAT
12487199 AAAAACAAAAAAAT
1 AAAAACAAAAAAAT
12487213 AAAAA
1 AAAAA
12487218 AAAGAGAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 13 0.72
15 5 0.28
ACGTcount: A:0.82, C:0.06, G:0.06, T:0.06
Consensus pattern (14 bp):
AAAAACAAAAAAAT
Found at i:12487216 original size:22 final size:22
Alignment explanation
Indices: 12487177--12487218 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12487167 TCTTATTTTC
* *
12487177 AAAAGCAAAAAAGCAAAAAAGT
1 AAAAACAAAAAAACAAAAAAGT
*
12487199 AAAAACAAAAAAATAAAAAA
1 AAAAACAAAAAAACAAAAAA
12487219 AAGAGAAAAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.81, C:0.07, G:0.07, T:0.05
Consensus pattern (22 bp):
AAAAACAAAAAAACAAAAAAGT
Found at i:12488738 original size:42 final size:42
Alignment explanation
Indices: 12488672--12489079 Score: 375
Period size: 42 Copynumber: 9.7 Consensus size: 42
12488662 AGAATGATCT
* *
12488672 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTCTGGAAGAG
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGAGAG
* ** * *
12488715 TATTTTATTTTTTAAAGTTTCAAAGCCTTAGTTGTGGGGGAG
1 CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGAGAG
* *
12488757 CATTTTATATTTCCAAAA-TTTTAAAGCTTCAGTTGTGGGAGAG
1 CATTTTAT-TTT-CAAAAGTTTCAAAGCCTCAGTTGTGGGAGAG
* * * * *
12488800 AATTTTATTTTCAAAAGTTTTAAAGCCTTAGTTATGGGGGAG
1 CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGAGAG
* * * *
12488842 CATTTTATTTTTC-AAAGTTTTAAAACATCAATTGTGGGAGAG
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGAGAG
* * * * *
12488884 TATTTTATTTTTAAAAGTTTCAAAGCCTTAGTTATGGGGGAG
1 CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGAGAG
* * *
12488926 CATTTTATTTCCAAAAGTTTCAAAGCCAT-AGTTG-GGGGGAAA
1 CATTTTATTTTCAAAAGTTTCAAAGCC-TCAGTTGTGGGAG-AG
* * **
12488968 TATTTTATGTTTCAAAAGTTCCAAAGCCTCAGTTACGGTG-GAG
1 CATTTTAT-TTTCAAAAGTTTCAAAGCCTCAGTTGTGG-GAGAG
* * *
12489011 CATTTTATTTTCAAAAATTTCAAAGCCTCAATTGTGGGAGAA
1 CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGAGAG
*
12489053 CA---T-TTTTCAAAAGTTTTAAAGCCTCAG
1 CATTTTATTTTCAAAAGTTTCAAAGCCTCAG
12489080 CTATGGAGGA
Statistics
Matches: 298, Mismatches: 55, Indels: 29
0.78 0.14 0.08
Matches are distributed among these distances:
38 21 0.07
39 1 0.00
41 15 0.05
42 182 0.61
43 72 0.24
44 6 0.02
45 1 0.00
ACGTcount: A:0.31, C:0.12, G:0.19, T:0.38
Consensus pattern (42 bp):
CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGAGAG
Found at i:12488983 original size:169 final size:170
Alignment explanation
Indices: 12488672--12489051 Score: 520
Period size: 169 Copynumber: 2.2 Consensus size: 170
12488662 AGAATGATCT
* * * *
12488672 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTCTGGAAGAGTATTTTATTTTTTAAAGTTTCA
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGAGAGTATTTTATTTTTAAAAGTTTCA
* * * *
12488737 AAGCCTTAGTTGTGGGGGAGCATTTTATATTTCCAAAATTTTAAAGCTTCAGTTGTGGGAGAGAA
66 AAGCCTTAGTTATGGGGGAGCATTTTATATTTCCAAAATTTCAAAGCATCAGTTGTGGGAGAAAA
** * *
12488802 TTTTATTTTCAAAAGTTTTAAAGCCTTAGTTATGGGGGAG
131 TTTTATTTTCAAAAGTTCCAAAGCCTCAGTTACGGGGGAG
* * *
12488842 CATTTTATTTTTC-AAAGTTTTAAAACATCAATTGTGGGAGAGTATTTTATTTTTAAAAGTTTCA
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGAGAGTATTTTATTTTTAAAAGTTTCA
*
12488906 AAGCCTTAGTTATGGGGGAGCA-TTT-TATTTCCAAAAGTTTCAAAGCCAT-AGTTG-GGGGGAA
66 AAGCCTTAGTTATGGGGGAGCATTTTATATTTCCAAAA-TTTCAAAG-CATCAGTTGTGGGAGAA
*
12488967 ATATTTTATGTTTCAAAAGTTCCAAAGCCTCAGTTACGGTGGAG
129 A-ATTTTAT-TTTCAAAAGTTCCAAAGCCTCAGTTACGGGGGAG
*
12489011 CATTTTA-TTTTCAAAAATTTCAAAGCCTCAATTGTGGGAGA
1 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGAGA
12489052 ACATTTTTCA
Statistics
Matches: 184, Mismatches: 21, Indels: 11
0.85 0.10 0.05
Matches are distributed among these distances:
167 17 0.09
168 27 0.15
169 127 0.69
170 13 0.07
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (170 bp):
CATTTTATTTTTCAAAAGTTTCAAAGCCTCAATTGTGGGAGAGTATTTTATTTTTAAAAGTTTCA
AAGCCTTAGTTATGGGGGAGCATTTTATATTTCCAAAATTTCAAAGCATCAGTTGTGGGAGAAAA
TTTTATTTTCAAAAGTTCCAAAGCCTCAGTTACGGGGGAG
Found at i:12489058 original size:85 final size:84
Alignment explanation
Indices: 12488672--12489058 Score: 451
Period size: 85 Copynumber: 4.6 Consensus size: 84
12488662 AGAATGATCT
* * * **
12488672 CATTTTATTTTTCAAAAGTTTCAAAGCCTCAGTTCTGGAAGAGTATTTTATTTTTTAAAGTTTCA
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGAGAATATTTTATTTTCAAAAGTTTCA
*
12488737 AAGCCTTAGTTGTGGGGGAG
65 AAGCCTTAGTTATGGGGGAG
* *
12488757 CATTTTATATTTCCAAAA-TTTTAAAGCTTCAGTTGTGGGAGAGA-ATTTTATTTTCAAAAGTTT
1 CATTTTAT-TTT-CAAAAGTTTCAAAGCCTCAGTTGTGGGAGA-ATATTTTATTTTCAAAAGTTT
*
12488820 TAAAGCCTTAGTTATGGGGGAG
63 CAAAGCCTTAGTTATGGGGGAG
* * * * * *
12488842 CATTTTATTTTTC-AAAGTTTTAAAACATCAATTGTGGGAGAGTATTTTATTTTTAAAAGTTTCA
1 CATTTTA-TTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGAGAATATTTTATTTTCAAAAGTTTCA
12488906 AAGCCTTAGTTATGGGGGAG
65 AAGCCTTAGTTATGGGGGAG
* * *
12488926 CATTTTATTTCCAAAAGTTTCAAAGCCAT-AGTTG-GGGGGAAATATTTTATGTTTCAAAAGTTC
1 CATTTTATTTTCAAAAGTTTCAAAGCC-TCAGTTGTGGGAG-AATATTTTAT-TTTCAAAAGTTT
* * *
12488989 CAAAGCCTCAGTTACGGTGGAG
63 CAAAGCCTTAGTTATGGGGGAG
* * *
12489011 CATTTTATTTTCAAAAATTTCAAAGCCTCAATTGTGGGAGAACATTTT
1 CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGAGAATATTTT
12489059 TCAAAAGTTT
Statistics
Matches: 258, Mismatches: 32, Indels: 24
0.82 0.10 0.08
Matches are distributed among these distances:
83 11 0.04
84 94 0.36
85 143 0.55
86 10 0.04
ACGTcount: A:0.30, C:0.12, G:0.19, T:0.39
Consensus pattern (84 bp):
CATTTTATTTTCAAAAGTTTCAAAGCCTCAGTTGTGGGAGAATATTTTATTTTCAAAAGTTTCAA
AGCCTTAGTTATGGGGGAG
Found at i:12489096 original size:38 final size:38
Alignment explanation
Indices: 12489018--12489103 Score: 102
Period size: 38 Copynumber: 2.3 Consensus size: 38
12489008 GAGCATTTTA
* *
12489018 TTTTCAAAAATTTCAAAGCCTCAATTGTGGGAGAACAT
1 TTTTCAAAAATTTCAAAGCCTCAACTATGGGAGAACAT
* * * *
12489056 TTTTCAAAAGTTTTAAAGCCTCAGCTAT-GGAGGACTAT
1 TTTTCAAAAATTTCAAAGCCTCAACTATGGGAGAAC-AT
12489094 TTTTCAAAAA
1 TTTTCAAAAA
12489104 AAAAAGTTTC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
37 6 0.15
38 34 0.85
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (38 bp):
TTTTCAAAAATTTCAAAGCCTCAACTATGGGAGAACAT
Found at i:12489386 original size:12 final size:12
Alignment explanation
Indices: 12489371--12489403 Score: 59
Period size: 11 Copynumber: 2.8 Consensus size: 12
12489361 TTATTTGTAT
12489371 TTTAATTTTTAG
1 TTTAATTTTTAG
12489383 TTTAA-TTTTAG
1 TTTAATTTTTAG
12489394 TTTAATTTTT
1 TTTAATTTTT
12489404 TTTAGTCAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.55
12 9 0.45
ACGTcount: A:0.24, C:0.00, G:0.06, T:0.70
Consensus pattern (12 bp):
TTTAATTTTTAG
Found at i:12489470 original size:15 final size:15
Alignment explanation
Indices: 12489434--12489473 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
12489424 TCAATTGGTC
12489434 AAAAAAATAAAAAAAG
1 AAAAAAAT-AAAAAAG
**
12489450 GTAAAAATAAAAAAG
1 AAAAAAATAAAAAAG
12489465 AAAAAAATA
1 AAAAAAATA
12489474 GATTTTGCAT
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.82, C:0.00, G:0.07, T:0.10
Consensus pattern (15 bp):
AAAAAAATAAAAAAG
Found at i:12490043 original size:20 final size:18
Alignment explanation
Indices: 12490018--12490055 Score: 58
Period size: 20 Copynumber: 2.0 Consensus size: 18
12490008 TTTTGCATGA
12490018 ATTTGCATGACTAATATTAT
1 ATTTGCATGA-TAAT-TTAT
12490038 ATTTGCATGATAATTTAT
1 ATTTGCATGATAATTTAT
12490056 TTGCCTAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
18 4 0.22
19 4 0.22
20 10 0.56
ACGTcount: A:0.34, C:0.08, G:0.11, T:0.47
Consensus pattern (18 bp):
ATTTGCATGATAATTTAT
Found at i:12490102 original size:21 final size:21
Alignment explanation
Indices: 12490061--12490235 Score: 68
Period size: 21 Copynumber: 7.9 Consensus size: 21
12490051 TTTATTTGCC
*
12490061 TAATATATTTGTTTGCATGAT
1 TAATATATTTATTTGCATGAT
**
12490082 TAATATATTTATTTGTGTGAT
1 TAATATATTTATTTGCATGAT
* * *
12490103 TTAT-TAATATATTTACATGATTTT
1 TAATAT-ATTTATTTGCATGA---T
**
12490127 TAATATATTTATTTATATGAT
1 TAATATATTTATTTGCATGAT
* *
12490148 TATATTTAATTTGA-TTGCTTGATTAT
1 TA-ATAT-ATTT-ATTTGC---ATGAT
** *
12490174 TAATATATTTAACTGCTTGAT
1 TAATATATTTATTTGCATGAT
* **
12490195 TATTAATATTTTATTTATATGAT
1 TAAT-ATA-TTTATTTGCATGAT
*
12490218 T-ATATATTTAATTGCATG
1 TAATATATTTATTTGCATG
12490236 TTTATTTACA
Statistics
Matches: 111, Mismatches: 29, Indels: 29
0.66 0.17 0.17
Matches are distributed among these distances:
20 10 0.09
21 43 0.39
22 7 0.06
23 17 0.15
24 24 0.22
25 4 0.04
26 6 0.05
ACGTcount: A:0.32, C:0.03, G:0.09, T:0.55
Consensus pattern (21 bp):
TAATATATTTATTTGCATGAT
Found at i:12490131 original size:20 final size:21
Alignment explanation
Indices: 12490099--12490137 Score: 71
Period size: 20 Copynumber: 1.9 Consensus size: 21
12490089 TTTATTTGTG
12490099 TGATTTATTAATATATTTACA
1 TGATTTATTAATATATTTACA
12490120 TGATTT-TTAATATATTTA
1 TGATTTATTAATATATTTA
12490138 TTTATATGAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.36, C:0.03, G:0.05, T:0.56
Consensus pattern (21 bp):
TGATTTATTAATATATTTACA
Found at i:12490135 original size:45 final size:47
Alignment explanation
Indices: 12490080--12490184 Score: 126
Period size: 47 Copynumber: 2.3 Consensus size: 47
12490070 TGTTTGCATG
* *
12490080 ATTAATATATTTATTTGTGTGATT-TA-TTAATAT-ATTTACATGATT
1 ATTAATATATTTATTTATATGATTATATTTAATATGA-TTACATGATT
* * * *
12490125 TTTAATATATTTATTTATATGATTATATTTAATTTGATTGCTTGATT
1 ATTAATATATTTATTTATATGATTATATTTAATATGATTACATGATT
12490172 ATTAATATATTTA
1 ATTAATATATTTA
12490185 ACTGCTTGAT
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
45 21 0.42
46 2 0.04
47 26 0.52
48 1 0.02
ACGTcount: A:0.33, C:0.02, G:0.08, T:0.57
Consensus pattern (47 bp):
ATTAATATATTTATTTATATGATTATATTTAATATGATTACATGATT
Found at i:12490190 original size:24 final size:23
Alignment explanation
Indices: 12490163--12490207 Score: 81
Period size: 24 Copynumber: 1.9 Consensus size: 23
12490153 TTAATTTGAT
12490163 TGCTTGATTATTAATATATTTAAC
1 TGCTTGATTATTAATAT-TTTAAC
12490187 TGCTTGATTATTAATATTTTA
1 TGCTTGATTATTAATATTTTA
12490208 TTTATATGAT
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
23 4 0.19
24 17 0.81
ACGTcount: A:0.31, C:0.07, G:0.09, T:0.53
Consensus pattern (23 bp):
TGCTTGATTATTAATATTTTAAC
Found at i:12490211 original size:27 final size:27
Alignment explanation
Indices: 12490149--12490211 Score: 78
Period size: 24 Copynumber: 2.4 Consensus size: 27
12490139 TTATATGATT
* * *
12490149 ATATTTAATTTGATTGCTTGATTATTA
1 ATATTTTATTTAACTGCTTGATTATTA
12490176 ATA---TATTTAACTGCTTGATTATTA
1 ATATTTTATTTAACTGCTTGATTATTA
12490200 ATATTTTATTTA
1 ATATTTTATTTA
12490212 TATGATTATA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
24 21 0.70
27 9 0.30
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.56
Consensus pattern (27 bp):
ATATTTTATTTAACTGCTTGATTATTA
Found at i:12490227 original size:16 final size:15
Alignment explanation
Indices: 12490206--12490261 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 15
12490196 ATTAATATTT
12490206 TATTTATATGATTATA
1 TATTTA-ATGATTATA
12490222 TATTTAATTGCATGT-T-
1 TATTTAA-TG-AT-TATA
12490238 TATTTACATGATTATA
1 TATTTA-ATGATTATA
12490254 TATTTAAT
1 TATTTAAT
12490262 TGCATATTTT
Statistics
Matches: 34, Mismatches: 0, Indels: 13
0.72 0.00 0.28
Matches are distributed among these distances:
14 1 0.03
15 6 0.18
16 22 0.65
17 4 0.12
18 1 0.03
ACGTcount: A:0.34, C:0.04, G:0.07, T:0.55
Consensus pattern (15 bp):
TATTTAATGATTATA
Found at i:12490232 original size:67 final size:64
Alignment explanation
Indices: 12490061--12490241 Score: 177
Period size: 67 Copynumber: 2.7 Consensus size: 64
12490051 TTTATTTGCC
* ** *
12490061 TAATATATTTGTTTGCATGATTAATATATTTATTTG-TGTGATTTATTAATATATTTACATGATT
1 TAATATATTTATTTATATGATT-ATATATTTAATTGCT-TGA-TTATTAATATATTTACATGATT
*
12490125 TT
63 AT
* *
12490127 TAATATATTTATTTATATGATTATATTTAATTTGATTGCTTGATTATTAATATATTTAACTGCTT
1 TAATATATTTATTTATATGATTATA--T-ATTTAATTGCTTGATTATTAATATATTT-A---CAT
12490192 GATTAT
59 GATTAT
* *
12490198 TAATAT-TTTATTTATATGATTATATATTTAATTGCATGTTTATT
1 TAATATATTTATTTATATGATTATATATTTAATTGCTTGATTATT
12490242 TACATGATTA
Statistics
Matches: 97, Mismatches: 10, Indels: 15
0.80 0.08 0.12
Matches are distributed among these distances:
65 3 0.03
66 19 0.20
67 31 0.32
68 12 0.12
69 1 0.01
70 18 0.19
71 13 0.13
ACGTcount: A:0.31, C:0.03, G:0.09, T:0.56
Consensus pattern (64 bp):
TAATATATTTATTTATATGATTATATATTTAATTGCTTGATTATTAATATATTTACATGATTAT
Found at i:12490249 original size:32 final size:32
Alignment explanation
Indices: 12490204--12490266 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
12490194 TTATTAATAT
*
12490204 TTTATTTATATGATTATATATTTAATTGCATG
1 TTTATTTACATGATTATATATTTAATTGCATG
12490236 TTTATTTACATGATTATATATTTAATTGCAT
1 TTTATTTACATGATTATATATTTAATTGCAT
12490267 ATTTTGCATG
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.32, C:0.05, G:0.08, T:0.56
Consensus pattern (32 bp):
TTTATTTACATGATTATATATTTAATTGCATG
Found at i:12490338 original size:83 final size:87
Alignment explanation
Indices: 12490244--12490438 Score: 226
Period size: 88 Copynumber: 2.3 Consensus size: 87
12490234 TGTTTATTTA
*
12490244 CATGATTATATATTTAATTGCAT-ATT-TT-GCATGGTT-TATATATT-ATT-ATTTACATGATT
1 CATGATTATATATTTAATTGCATGATTATTAGCATGATTATATAT-TTAATTCATTTACAT--TT
*
12490303 GCATGA-T-TTATATGTTATTATTTG
63 GCATGATTGTTA-ATGTTATTAGTTG
* * * **
12490327 TATGATCATATATTTAATTGCATGTTTATTAGCATGATTATATATTTAATTGCATTTTTATTTGC
1 CATGATTATATATTTAATTGCATGATTATTAGCATGATTATATATTTAATT-CATTTACATTTGC
12490392 ATGATTGTTAATGTTATTAGTTG
65 ATGATTGTTAATGTTATTAGTTG
12490415 CATGATTATATATTTAATTGCATG
1 CATGATTATATATTTAATTGCATG
12490439 TCTAACTATA
Statistics
Matches: 94, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
83 21 0.22
84 2 0.02
85 2 0.02
86 9 0.10
87 16 0.17
88 35 0.37
89 9 0.10
ACGTcount: A:0.29, C:0.06, G:0.13, T:0.52
Consensus pattern (87 bp):
CATGATTATATATTTAATTGCATGATTATTAGCATGATTATATATTTAATTCATTTACATTTGCA
TGATTGTTAATGTTATTAGTTG
Found at i:12490397 original size:32 final size:32
Alignment explanation
Indices: 12490320--12490397 Score: 120
Period size: 32 Copynumber: 2.4 Consensus size: 32
12490310 TTATATGTTA
* *
12490320 TTATTTGTATGATCATATATTTAATTGCATGT
1 TTATTTGCATGATTATATATTTAATTGCATGT
* *
12490352 TTATTAGCATGATTATATATTTAATTGCATTT
1 TTATTTGCATGATTATATATTTAATTGCATGT
12490384 TTATTTGCATGATT
1 TTATTTGCATGATT
12490398 GTTAATGTTA
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
32 41 1.00
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.54
Consensus pattern (32 bp):
TTATTTGCATGATTATATATTTAATTGCATGT
Found at i:12490478 original size:56 final size:56
Alignment explanation
Indices: 12490358--12490464 Score: 144
Period size: 56 Copynumber: 1.9 Consensus size: 56
12490348 ATGTTTATTA
* * ** * *
12490358 GCATGATTATATATTTAATTGCATTTTTATTTGCATGATTGTTAATGTTATTAGTT
1 GCATGATTATATATTTAATTGCATGTCTAACTACATGATTATTAATGTTATTAGTT
*
12490414 GCATGATTATATATTTAATTGCATGTCTAACTATATGATTATTAAT-TTATT
1 GCATGATTATATATTTAATTGCATGTCTAACTACATGATTATTAATGTTATT
12490465 TATTTGTGTG
Statistics
Matches: 44, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
55 5 0.11
56 39 0.89
ACGTcount: A:0.30, C:0.07, G:0.12, T:0.51
Consensus pattern (56 bp):
GCATGATTATATATTTAATTGCATGTCTAACTACATGATTATTAATGTTATTAGTT
Found at i:12490537 original size:33 final size:33
Alignment explanation
Indices: 12490479--12490566 Score: 90
Period size: 33 Copynumber: 2.7 Consensus size: 33
12490469 TGTGTGATTA
* **
12490479 CATGA-TTAGATATTTAATTATATATTTATTTG
1 CATGATTTACATATTTAATTGCATATTTATTTG
* * * *
12490511 TATGGTTTATATATTTAATTGCATATTTCTTTG
1 CATGATTTACATATTTAATTGCATATTTATTTG
*
12490544 CATGATTTACAT-TGTAATTGCAT
1 CATGATTTACATATTTAATTGCAT
12490567 GATTATATAT
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
32 13 0.29
33 32 0.71
ACGTcount: A:0.30, C:0.07, G:0.11, T:0.52
Consensus pattern (33 bp):
CATGATTTACATATTTAATTGCATATTTATTTG
Found at i:12490603 original size:24 final size:20
Alignment explanation
Indices: 12490541--12490592 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
12490531 GCATATTTCT
*
12490541 TTGCATGATT-TACATTGTAA
1 TTGCATGATTATATATT-TAA
12490561 TTGCATGATTATATATTTAA
1 TTGCATGATTATATATTTAA
12490581 TTGCATGATTAT
1 TTGCATGATTAT
12490593 TAATCTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 25 0.83
21 5 0.17
ACGTcount: A:0.31, C:0.08, G:0.13, T:0.48
Consensus pattern (20 bp):
TTGCATGATTATATATTTAA
Found at i:12490727 original size:24 final size:24
Alignment explanation
Indices: 12490679--12490734 Score: 78
Period size: 24 Copynumber: 2.3 Consensus size: 24
12490669 TTACATGATT
*
12490679 TTATATTTATTGCATAATATGATA
1 TTATATTTATTGCATAATATAATA
*
12490703 TTATATGTTATTGCATGAT-TAATA
1 TTATAT-TTATTGCATAATATAATA
12490727 TTATATTT
1 TTATATTT
12490735 GAATGATATT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
23 2 0.07
24 16 0.55
25 11 0.38
ACGTcount: A:0.34, C:0.04, G:0.09, T:0.54
Consensus pattern (24 bp):
TTATATTTATTGCATAATATAATA
Found at i:12490880 original size:20 final size:19
Alignment explanation
Indices: 12490863--12490941 Score: 58
Period size: 20 Copynumber: 4.2 Consensus size: 19
12490853 TTTTATATTA
12490863 TTGCATGATAATTAATATAT
1 TTGCATGAT-ATTAATATAT
*
12490883 TTGTATGATATT-ATATAT
1 TTGCATGATATTAATATAT
* **
12490901 TTACAT--TATTGTTAT-T
1 TTGCATGATATTAATATAT
*
12490917 ATTGCATGATAATTAATAAAT
1 -TTGCATGAT-ATTAATATAT
12490938 TTGC
1 TTGC
12490942 TTGACATTCT
Statistics
Matches: 45, Mismatches: 8, Indels: 12
0.69 0.12 0.18
Matches are distributed among these distances:
16 5 0.11
17 8 0.18
18 10 0.22
19 4 0.09
20 17 0.38
21 1 0.02
ACGTcount: A:0.35, C:0.05, G:0.10, T:0.49
Consensus pattern (19 bp):
TTGCATGATATTAATATAT
Found at i:12491823 original size:2 final size:2
Alignment explanation
Indices: 12491816--12491848 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
12491806 TTGGGCAGAT
12491816 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
12491849 TACAGTGTTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:12492680 original size:22 final size:20
Alignment explanation
Indices: 12492650--12492690 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
12492640 ATCATCGTAT
12492650 ATTAAATTTGTTGAATTTTGTC
1 ATTAAATTT-TT-AATTTTGTC
*
12492672 ATTATATTTTTAATTTTGT
1 ATTAAATTTTTAATTTTGT
12492691 TGATATTTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 8 0.44
21 2 0.11
22 8 0.44
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (20 bp):
ATTAAATTTTTAATTTTGTC
Found at i:12492686 original size:29 final size:30
Alignment explanation
Indices: 12492631--12492698 Score: 75
Period size: 29 Copynumber: 2.3 Consensus size: 30
12492621 TAAATCAATA
*
12492631 TTGAATTTTATCATCGTATATTAAA-TTTG
1 TTGAATTTTATCATCATATATTAAATTTTG
* * * *
12492660 TTGAATTTTGTCATTATATTTTTAATTTTG
1 TTGAATTTTATCATCATATATTAAATTTTG
12492690 TTGATATTT
1 TTGA-ATTT
12492699 GGTTTAAAAC
Statistics
Matches: 32, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 20 0.62
30 8 0.25
31 4 0.12
ACGTcount: A:0.26, C:0.04, G:0.10, T:0.59
Consensus pattern (30 bp):
TTGAATTTTATCATCATATATTAAATTTTG
Found at i:12497585 original size:16 final size:15
Alignment explanation
Indices: 12497564--12497609 Score: 51
Period size: 13 Copynumber: 3.1 Consensus size: 15
12497554 TATAGCTAAG
*
12497564 GATAAATAACAATAAA
1 GATAAA-AAAAATAAA
*
12497580 GATAAAAATAA-AAA
1 GATAAAAAAAATAAA
12497594 -ATAAAAAAAATAAA
1 GATAAAAAAAATAAA
12497608 GA
1 GA
12497610 GGACAAATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 9 0.35
14 6 0.23
15 5 0.19
16 6 0.23
ACGTcount: A:0.76, C:0.02, G:0.07, T:0.15
Consensus pattern (15 bp):
GATAAAAAAAATAAA
Found at i:12497987 original size:41 final size:39
Alignment explanation
Indices: 12497942--12498053 Score: 136
Period size: 40 Copynumber: 2.8 Consensus size: 39
12497932 TAAGGGCTCC
12497942 TTTAACATGAAGGCACATAACTTTTAAAAATTAAAAGCTAT
1 TTTAACATGAAGGCACATAACTTTTAAAAATT-AAAGCT-T
* * *
12497983 TTTAACATGAAGGCGCACAA-TTTTAAAAATTAAAGGTT
1 TTTAACATGAAGGCACATAACTTTTAAAAATTAAAGCTT
*
12498021 TCTTCAACACGAAGGCACATAACTTTTTAAAAA
1 T-TT-AACATGAAGGCACATAAC-TTTTAAAAA
12498054 ATAAGGACGA
Statistics
Matches: 61, Mismatches: 6, Indels: 7
0.82 0.08 0.09
Matches are distributed among these distances:
38 2 0.03
39 7 0.11
40 25 0.41
41 18 0.30
42 9 0.15
ACGTcount: A:0.44, C:0.14, G:0.12, T:0.30
Consensus pattern (39 bp):
TTTAACATGAAGGCACATAACTTTTAAAAATTAAAGCTT
Found at i:12498884 original size:41 final size:45
Alignment explanation
Indices: 12498780--12498915 Score: 177
Period size: 45 Copynumber: 3.0 Consensus size: 45
12498770 ATTTATTACA
12498780 AGGCATTAAGAGGAAAAAAGAAAGAATGGAATGAAAATGAAATAT
1 AGGCATTAAGAGGAAAAAAGAAAGAATGGAATGAAAATGAAATAT
* * *
12498825 ATGCATTAAGAGGAAAAAAGAATGCATGGAATGAAAATGAAATAT
1 AGGCATTAAGAGGAAAAAAGAAAGAATGGAATGAAAATGAAATAT
** *
12498870 AGGCATTAAGA--AAAAAAGAGAAGGAATAAAATAAAAAATGAAATAT
1 AGGCATTAAGAGGAAAAAAGA-AA-GAATGGAAT-GAAAATGAAATAT
12498916 CTCTTATTTG
Statistics
Matches: 79, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
43 8 0.10
44 1 0.01
45 58 0.73
46 12 0.15
ACGTcount: A:0.59, C:0.03, G:0.21, T:0.17
Consensus pattern (45 bp):
AGGCATTAAGAGGAAAAAAGAAAGAATGGAATGAAAATGAAATAT
Found at i:12499843 original size:39 final size:40
Alignment explanation
Indices: 12499789--12499871 Score: 132
Period size: 39 Copynumber: 2.1 Consensus size: 40
12499779 TTTAATATGT
*
12499789 TTTTAATATTCTTATTTACGGCTTCGATTTCCCCTATTC-
1 TTTTAATATTCTTATTTACGGCTTCGATTGCCCCTATTCA
* *
12499828 TTTTAATATTCTTATTTATGGCTTCGATTGCCCTTATTCA
1 TTTTAATATTCTTATTTACGGCTTCGATTGCCCCTATTCA
12499868 TTTT
1 TTTT
12499872 TAAATGATAT
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
39 36 0.90
40 4 0.10
ACGTcount: A:0.18, C:0.19, G:0.08, T:0.54
Consensus pattern (40 bp):
TTTTAATATTCTTATTTACGGCTTCGATTGCCCCTATTCA
Found at i:12501512 original size:23 final size:24
Alignment explanation
Indices: 12501477--12501525 Score: 59
Period size: 22 Copynumber: 2.1 Consensus size: 24
12501467 TTTTTCAATA
12501477 AAAATATATTAATTCTA-ATTAATTT
1 AAAATATATTAATT-TATATT-ATTT
12501502 AAAATA-A-TAATTTATATTATTT
1 AAAATATATTAATTTATATTATTT
12501524 AA
1 AA
12501526 TAAAAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
22 8 0.35
23 8 0.35
24 1 0.04
25 6 0.26
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (24 bp):
AAAATATATTAATTTATATTATTT
Found at i:12501527 original size:20 final size:20
Alignment explanation
Indices: 12501504--12501541 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12501494 ATTAATTTAA
*
12501504 AATAATAATTTATATTATTT
1 AATAAAAATTTATATTATTT
*
12501524 AATAAAAATTTATTTTAT
1 AATAAAAATTTATATTAT
12501542 AAATATATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (20 bp):
AATAAAAATTTATATTATTT
Found at i:12503854 original size:23 final size:23
Alignment explanation
Indices: 12503783--12503856 Score: 62
Period size: 23 Copynumber: 3.2 Consensus size: 23
12503773 AAATATTATT
**
12503783 ATATTAATAAAAATAATTTTATTTA
1 ATATTAATATTAA-AATTTT-TTTA
* * **
12503808 ATTTTACT-TTAAAA-TTTTCAA
1 ATATTAATATTAAAATTTTTTTA
12503829 ATATTAATATTAAAATTTTTTTA
1 ATATTAATATTAAAATTTTTTTA
12503852 ATATT
1 ATATT
12503857 TTAATTTAAA
Statistics
Matches: 37, Mismatches: 10, Indels: 6
0.70 0.19 0.11
Matches are distributed among these distances:
21 8 0.22
22 9 0.24
23 12 0.32
24 2 0.05
25 6 0.16
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (23 bp):
ATATTAATATTAAAATTTTTTTA
Found at i:12504123 original size:21 final size:20
Alignment explanation
Indices: 12504099--12504157 Score: 55
Period size: 21 Copynumber: 2.9 Consensus size: 20
12504089 AAATACTATT
12504099 ATATTATTATTTTAATAACAA
1 ATATTATTATTTTAATAA-AA
* * *
12504120 ATATTAATATATTAAGTAATA
1 ATATTATTATTTTAA-TAAAA
* *
12504141 TTTTTATTATTTTAATA
1 ATATTATTATTTTAATA
12504158 TTTAATATTA
Statistics
Matches: 30, Mismatches: 7, Indels: 3
0.75 0.17 0.08
Matches are distributed among these distances:
20 2 0.07
21 25 0.83
22 3 0.10
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATATTATTATTTTAATAAAA
Found at i:12504360 original size:21 final size:22
Alignment explanation
Indices: 12504336--12504410 Score: 84
Period size: 21 Copynumber: 3.4 Consensus size: 22
12504326 TAATAGATAC
12504336 TTTTAATATA-AAATATAACTA
1 TTTTAATATATAAATATAACTA
12504357 TTTTAATAGTATAAATATTTAA-TA
1 TTTTAATA-TATAAATA--TAACTA
**
12504381 TTTTAATA-ATAAATATTGCTA
1 TTTTAATATATAAATATAACTA
12504402 TTTTAATAT
1 TTTTAATAT
12504411 TATTATATTA
Statistics
Matches: 46, Mismatches: 2, Indels: 11
0.78 0.03 0.19
Matches are distributed among these distances:
20 1 0.02
21 18 0.39
22 9 0.20
23 5 0.11
24 10 0.22
25 3 0.07
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.49
Consensus pattern (22 bp):
TTTTAATATATAAATATAACTA
Found at i:12509839 original size:20 final size:19
Alignment explanation
Indices: 12509802--12509840 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
12509792 AAATTATCAA
* *
12509802 ATAAAATATATATTTTTTT
1 ATAAAATATAGATCTTTTT
12509821 ATAAATATATAGATCTTTTT
1 ATAAA-ATATAGATCTTTTT
12509841 TTTACATAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.41, C:0.03, G:0.03, T:0.54
Consensus pattern (19 bp):
ATAAAATATAGATCTTTTT
Found at i:12510398 original size:14 final size:13
Alignment explanation
Indices: 12510355--12510409 Score: 53
Period size: 13 Copynumber: 4.4 Consensus size: 13
12510345 TTTTTAATAA
12510355 TAAAAAT-TTTAT
1 TAAAAATATTTAT
* *
12510367 T-AATATTTTTAT
1 TAAAAATATTTAT
12510379 TAAAAATATTTAT
1 TAAAAATATTTAT
*
12510392 CTAAAAAT-TATAT
1 -TAAAAATATTTAT
12510405 TAAAA
1 TAAAA
12510410 TTTATTAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
11 4 0.11
12 12 0.33
13 13 0.36
14 7 0.19
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (13 bp):
TAAAAATATTTAT
Found at i:12510405 original size:26 final size:24
Alignment explanation
Indices: 12510355--12510436 Score: 73
Period size: 21 Copynumber: 3.5 Consensus size: 24
12510345 TTTTTAATAA
* * *
12510355 TAAAAATTTTATTAATATTTTTAT
1 TAAAAATTTTATTAAAAATTATAT
12510379 TAAAAATATTTATCTAAAAATTATAT
1 TAAAAAT-TTTAT-TAAAAATTATAT
*
12510405 T-AAAA-TTTATT-AAAATT-TTT
1 TAAAAATTTTATTAAAAATTATAT
*
12510425 TTAAAATTTTAT
1 TAAAAATTTTAT
12510437 ATATTTAATT
Statistics
Matches: 50, Mismatches: 4, Indels: 10
0.78 0.06 0.16
Matches are distributed among these distances:
20 3 0.06
21 10 0.20
22 6 0.12
23 5 0.10
24 7 0.14
25 9 0.18
26 10 0.20
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.52
Consensus pattern (24 bp):
TAAAAATTTTATTAAAAATTATAT
Found at i:12510414 original size:12 final size:11
Alignment explanation
Indices: 12510357--12510436 Score: 81
Period size: 11 Copynumber: 6.9 Consensus size: 11
12510347 TTTAATAATA
12510357 AAAATTTTATT
1 AAAATTTTATT
*
12510368 AATATTTTTATT
1 AA-AATTTTATT
12510380 AAAAATATTTATCT
1 -AAAAT-TTTAT-T
*
12510394 AAAAATTATATT
1 -AAAATTTTATT
12510406 AAAA-TTTATT
1 AAAATTTTATT
*
12510416 AAAATTTTTTT
1 AAAATTTTATT
12510427 AAAATTTTAT
1 AAAATTTTAT
12510437 ATATTTAATT
Statistics
Matches: 58, Mismatches: 6, Indels: 10
0.78 0.08 0.14
Matches are distributed among these distances:
10 9 0.16
11 20 0.34
12 11 0.19
13 11 0.19
14 7 0.12
ACGTcount: A:0.46, C:0.01, G:0.00, T:0.53
Consensus pattern (11 bp):
AAAATTTTATT
Found at i:12510496 original size:14 final size:14
Alignment explanation
Indices: 12510479--12510512 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
12510469 TATTAATTTC
* *
12510479 AATTTTTATTTAAT
1 AATTTTTAATTAAA
12510493 AATTTTTAATTAAA
1 AATTTTTAATTAAA
12510507 AATTTT
1 AATTTT
12510513 ATAAATTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (14 bp):
AATTTTTAATTAAA
Found at i:12510503 original size:21 final size:20
Alignment explanation
Indices: 12510460--12510497 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
12510450 GTAATGAGAT
*
12510460 ATTTTAATTTATTAATTTCA
1 ATTTTAATTTAATAATTTCA
*
12510480 ATTTTTATTTAATAATTT
1 ATTTTAATTTAATAATTT
12510498 TTAATTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (20 bp):
ATTTTAATTTAATAATTTCA
Found at i:12513087 original size:43 final size:43
Alignment explanation
Indices: 12513028--12513507 Score: 359
Period size: 43 Copynumber: 11.1 Consensus size: 43
12513018 CTTAAAAAAT
*
12513028 AAATAAATAA-GCTCCTCTAAACAGAAGCTCAACAACTTTGAA
1 AAATAAATAAGGCTCCTCTAAATAGAAGCTCAACAACTTTGAA
* * * *
12513070 AAATAAATAAGGTTCCTCTAAATAGAGGCTCAATAACTTTAAA
1 AAATAAATAAGGCTCCTCTAAATAGAAGCTCAACAACTTTGAA
** * ** * * *
12513113 AAATAAATAAAACTCCTTTAAGCAGAGGCTCAACAATTTTGGA
1 AAATAAATAAGGCTCCTCTAAATAGAAGCTCAACAACTTTGAA
* * * * * *
12513156 AAATAAGTAGGGTTCCTCTAAATA-AAGGCTTAACGATTTTGGAA
1 AAATAAATAAGGCTCCTCTAAATAGAA-GCTCAACAACTTT-GAA
* * * *
12513200 AAGTAAATAAGTCTCTTCTAAACAG-AGACTCAACAACTTTGAA
1 AAATAAATAAGGCTCCTCTAAATAGAAG-CTCAACAACTTTGAA
* * *
12513243 AAATAAATAAAGCTCCTCTAAAT-GAGGCTCAACGACTTTGAAA
1 AAATAAATAAGGCTCCTCTAAATAGAAGCTCAACAACTTTG-AA
* * * *
12513286 AAATAAATAAGGCTCTTCTAAATAGAGGTTCAACGACTTTGAA
1 AAATAAATAAGGCTCCTCTAAATAGAAGCTCAACAACTTTGAA
* * * *
12513329 AAATAAATAAGACTCATCTAAATA-AAGGCTTAACAACTTTAAAAAA
1 AAATAAATAAGGCTCCTCTAAATAGAA-GCTCAACAACTTT---GAA
* * * * * *
12513375 TAAATAAATAAAGCTCATTTAAGTA-AAGGCTCAACGACTTTCAA
1 -AAATAAATAAGGCTCCTCTAAATAGAA-GCTCAACAACTTTGAA
* * *
12513419 AAA-ATA-AAGGCTTCTCTAAATA-AAGGCTCAACAACTTTCAAA
1 AAATAAATAAGGCTCCTCTAAATAGAA-GCTCAACAACTTT-GAA
* * *
12513461 AAATAAATAAGGCTCCTAT-AATCAGAGGCTTAACAACTTTGAA
1 AAATAAATAAGGCTCCTCTAAAT-AGAAGCTCAACAACTTTGAA
12513504 AAAT
1 AAAT
12513508 TACAAAATCT
Statistics
Matches: 345, Mismatches: 75, Indels: 35
0.76 0.16 0.08
Matches are distributed among these distances:
41 26 0.08
42 32 0.09
43 181 0.52
44 69 0.20
45 1 0.00
46 2 0.01
47 34 0.10
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.26
Consensus pattern (43 bp):
AAATAAATAAGGCTCCTCTAAATAGAAGCTCAACAACTTTGAA
Found at i:12513144 original size:86 final size:87
Alignment explanation
Indices: 12513021--12513507 Score: 441
Period size: 86 Copynumber: 5.6 Consensus size: 87
12513011 TCCATGACTT
* *
12513021 AAAAAATAAATAAATAAGCTCCTCTAAACAGAAGCTCAACAACTTTGAAAAATAAATAAGGTTCC
1 AAAAAATAAAT-AA-AA-CTCCTTTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAGGTTCC
* *
12513086 TCTAAATAGAGGCTCAATAACTTT-
63 TCTAAATAAAGGCTCAACAACTTTG
* * * * *
12513110 AAAAAATAAATAAAACTCCTTTAAGCAGAGGCTCAACAATTTTGGAAAATAAGTAGGGTTCCTCT
1 AAAAAATAAATAAAACTCCTTTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAGGTTCCTCT
* * *
12513175 AAATAAAGGCTTAACGATTTTG
66 AAATAAAGGCTCAACAACTTTG
* * ** * * *
12513197 GAAAAGTAAATAAGTCT-CTTCTAAACAGAGACTCAACAACTTTGAAAAATAAATAAAGCTCCTC
1 AAAAAATAAATAAAACTCCTT-TAAACAGAGGCTCAACAACTTTGAAAAATAAATAAGGTTCCTC
* *
12513261 TAAAT-GAGGCTCAACGACTTTG
65 TAAATAAAGGCTCAACAACTTTG
** * * * ** *
12513283 AAAAAATAAATAAGGCT-CTTCTAAATAGAGGTTCAACGACTTTGAAAAATAAATAAGACTCATC
1 AAAAAATAAATAAAACTCCTT-TAAACAGAGGCTCAACAACTTTGAAAAATAAATAAGGTTCCTC
*
12513347 TAAATAAAGGCTTAACAACTTT-
65 TAAATAAAGGCTCAACAACTTTG
* ** * * * *
12513369 AAAAAATAAATAAATAAAGCTCATTTAAGTAAAGGCTCAACGACTTTCAAAAA-ATA-AAGGCTT
1 AAAAAATAAAT--A-AAA-CTCCTTTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAGG-TT
*
12513432 -CTCTAAATAAAGGCTCAACAACTTTC
61 CCTCTAAATAAAGGCTCAACAACTTTG
** * * *
12513458 AAAAAATAAATAAGGCTCCTATAATCAGAGGCTTAACAACTTTGAAAAAT
1 AAAAAATAAATAAAACTCCTTTAAACAGAGGCTCAACAACTTTGAAAAAT
12513508 TACAAAATCT
Statistics
Matches: 325, Mismatches: 62, Indels: 25
0.79 0.15 0.06
Matches are distributed among these distances:
85 26 0.08
86 147 0.45
87 69 0.21
88 29 0.09
89 26 0.08
90 26 0.08
91 2 0.01
ACGTcount: A:0.46, C:0.16, G:0.12, T:0.25
Consensus pattern (87 bp):
AAAAAATAAATAAAACTCCTTTAAACAGAGGCTCAACAACTTTGAAAAATAAATAAGGTTCCTCT
AAATAAAGGCTCAACAACTTTG
Found at i:12513289 original size:173 final size:172
Alignment explanation
Indices: 12513031--12513507 Score: 473
Period size: 173 Copynumber: 2.8 Consensus size: 172
12513021 AAAAAATAAA
* *
12513031 TAAATAAGCTCCTCTAAACAGAAGCTCAACAACTTTGAAAAATAAATAAGGTTCCTCTAAATAGA
1 TAAATAAGCTCCTCTAAACAGAAGCTCAACAACTTTGAAAAATAAATAAAGCTCCTCTAAATAGA
* * * *
12513096 GGCTCAATAACTTTAAAAAATAAATAAAACTCCTT-TAAGCAGAGGCTCAACAATTTTGGAAAAT
66 GGCTCAACAACTTTAAAAAATAAATAAAACT-CTTCTAAACAGAGGCTCAACAACTTTGAAAAAT
* * ** *
12513160 AAGTAGGGTTCCTCTAAATAAAGGCTTAACGATTTTGGAAAAG
130 AAATAAGACTCATCTAAATAAAGGCTTAACGATTTTGGAAAAG
*
12513203 TAAATAAGTCTCTTCTAAACAG-AGACTCAACAACTTTGAAAAATAAATAAAGCTCCTCTAAAT-
1 TAAATAAG-CTCCTCTAAACAGAAG-CTCAACAACTTTGAAAAATAAATAAAGCTCCTCTAAATA
* ** * * *
12513266 GAGGCTCAACGACTTTGAAAAAATAAATAAGGCTCTTCTAAATAGAGGTTCAACGACTTTGAAAA
64 GAGGCTCAACAACTTT-AAAAAATAAATAAAACTCTTCTAAACAGAGGCTCAACAACTTTGAAAA
* *** *
12513331 ATAAATAAGACTCATCTAAATAAAGGCTTAACAACTTTAAAAAATAAA
128 ATAAATAAGACTCATCTAAATAAAGGCTTAACGA-TTT-TGGAA-AAG
* * ** * * *
12513379 TAAATAAAGCTCATTTAAGTA-AAGGCTCAACGACTTT--CAAA-AAATAAAGGCTTCTCTAAAT
1 TAAAT-AAGCTCCTCTAAACAGAA-GCTCAACAACTTTGAAAAATAAATAAA-GCTCCTCTAAAT
* ** * * * *
12513440 AAAGGCTCAACAACTTTCAAAAAATAAATAAGGCTCCTATAATCAGAGGCTTAACAACTTTGAAA
63 AGAGGCTCAACAACTTT-AAAAAATAAATAAAACTCTTCTAAACAGAGGCTCAACAACTTTGAAA
12513505 AAT
127 AAT
12513508 TACAAAATCT
Statistics
Matches: 253, Mismatches: 40, Indels: 21
0.81 0.13 0.07
Matches are distributed among these distances:
172 27 0.11
173 119 0.47
174 17 0.07
175 59 0.23
176 27 0.11
177 4 0.02
ACGTcount: A:0.45, C:0.16, G:0.13, T:0.26
Consensus pattern (172 bp):
TAAATAAGCTCCTCTAAACAGAAGCTCAACAACTTTGAAAAATAAATAAAGCTCCTCTAAATAGA
GGCTCAACAACTTTAAAAAATAAATAAAACTCTTCTAAACAGAGGCTCAACAACTTTGAAAAATA
AATAAGACTCATCTAAATAAAGGCTTAACGATTTTGGAAAAG
Found at i:12513674 original size:19 final size:18
Alignment explanation
Indices: 12513633--12513682 Score: 55
Period size: 19 Copynumber: 2.7 Consensus size: 18
12513623 TAATTCAAAG
*
12513633 ATTCACAAGAATTTTTAA
1 ATTCACAAGAATTTTCAA
*
12513651 ATTCATAAGAACTTTTCAA
1 ATTCACAAGAA-TTTTCAA
* *
12513670 CTTCACAAAAATT
1 ATTCACAAGAATT
12513683 CACAAAAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
18 12 0.46
19 14 0.54
ACGTcount: A:0.44, C:0.16, G:0.04, T:0.36
Consensus pattern (18 bp):
ATTCACAAGAATTTTCAA
Found at i:12513718 original size:31 final size:31
Alignment explanation
Indices: 12513680--12513799 Score: 81
Period size: 31 Copynumber: 4.0 Consensus size: 31
12513670 CTTCACAAAA
12513680 ATTCACAAAAATTTGATTCTCAAAATTTCAG
1 ATTCACAAAAATTTGATTCTCAAAATTTCAG
* ** *
12513711 ATTCAC-AAGA-TT--TT-TC-AGCTTCGCAAG
1 ATTCACAAAAATTTGATTCTCAAAATT-TC-AG
* * *
12513738 AATTCACCAAAATTTGATTATCAAAATTTTAG
1 -ATTCACAAAAATTTGATTCTCAAAATTTCAG
* * *
12513770 TTTCACAAGAATTTGATTCACAAAATTTCA
1 ATTCACAAAAATTTGATTCTCAAAATTTCA
12513800 TATTTGTAAG
Statistics
Matches: 65, Mismatches: 15, Indels: 18
0.66 0.15 0.18
Matches are distributed among these distances:
25 3 0.05
26 3 0.05
27 4 0.06
28 6 0.09
29 5 0.08
30 5 0.08
31 30 0.46
32 4 0.06
33 2 0.03
34 3 0.05
ACGTcount: A:0.39, C:0.17, G:0.08, T:0.36
Consensus pattern (31 bp):
ATTCACAAAAATTTGATTCTCAAAATTTCAG
Found at i:12513727 original size:59 final size:59
Alignment explanation
Indices: 12513663--12513779 Score: 171
Period size: 59 Copynumber: 2.0 Consensus size: 59
12513653 TCATAAGAAC
*
12513663 TTTTCAACTTCACAAAAATTCACAAAAATTTGATTCTCAAAATTTCAGATTCACAAGAT
1 TTTTCAACTTCACAAAAATTCACAAAAATTTGATTATCAAAATTTCAGATTCACAAGAT
* * * * * *
12513722 TTTTCAGCTTCGCAAGAATTCACCAAAATTTGATTATCAAAATTTTAGTTTCACAAGA
1 TTTTCAACTTCACAAAAATTCACAAAAATTTGATTATCAAAATTTCAGATTCACAAGA
12513780 ATTTGATTCA
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.39, C:0.18, G:0.08, T:0.35
Consensus pattern (59 bp):
TTTTCAACTTCACAAAAATTCACAAAAATTTGATTATCAAAATTTCAGATTCACAAGAT
Found at i:12513783 original size:90 final size:89
Alignment explanation
Indices: 12513681--12513923 Score: 324
Period size: 90 Copynumber: 2.7 Consensus size: 89
12513671 TTCACAAAAA
* * * * *
12513681 TTCACAAAAATTTGATTCTCAAAATTTCAGATTCACAAGATTTTTCAGCTTCGCAAGAATTCACC
1 TTCACAAGAATTTGATTCACAAAATTTCAAATTCGCAAGATTTTT-AGCTTCGCAAAAATTCACC
*
12513746 AAAATTTGATTATCAAAATTTTAGT
65 AAAATTTGATTACCAAAATTTTAGT
* * * * * *
12513771 TTCACAAGAATTTGATTCACAAAATTTCATATTTGTAAGATTTTTTGGTTTTGCAAAAATTCACC
1 TTCACAAGAATTTGATTCACAAAATTTCAAATTCGCAAGA-TTTTTAGCTTCGCAAAAATTCACC
* *
12513836 AGAATTTGATTCCCAAAATTTTAGT
65 AAAATTTGATTACCAAAATTTTAGT
*
12513861 TTCACAAGAATTTGATTCACAAAATTTCAAATTCGCAAGACTTTTTAGCTTCGTAAAAATTCA
1 TTCACAAGAATTTGATTCACAAAATTTCAAATTCGCAAGA-TTTTTAGCTTCGCAAAAATTCA
12513924 TATTCATAAG
Statistics
Matches: 131, Mismatches: 21, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
90 126 0.96
91 5 0.04
ACGTcount: A:0.37, C:0.16, G:0.10, T:0.38
Consensus pattern (89 bp):
TTCACAAGAATTTGATTCACAAAATTTCAAATTCGCAAGATTTTTAGCTTCGCAAAAATTCACCA
AAATTTGATTACCAAAATTTTAGT
Found at i:12513881 original size:15 final size:14
Alignment explanation
Indices: 12513838--12513887 Score: 55
Period size: 15 Copynumber: 3.4 Consensus size: 14
12513828 AATTCACCAG
*
12513838 AATTTGATTCCCAA
1 AATTTGATTCACAA
*
12513852 AATTTTAGTTTCACAA
1 AA-TTT-GATTCACAA
12513868 GAATTTGATTCACAA
1 -AATTTGATTCACAA
12513883 AATTT
1 AATTT
12513888 CAAATTCGCA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
14 7 0.23
15 11 0.37
16 10 0.33
17 2 0.07
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (14 bp):
AATTTGATTCACAA
Found at i:12513900 original size:31 final size:31
Alignment explanation
Indices: 12513827--12513900 Score: 94
Period size: 31 Copynumber: 2.4 Consensus size: 31
12513817 GGTTTTGCAA
* * *
12513827 AAATTCACCAGAATTTGATTCCCAAAATTTT
1 AAATTCACAAGAATTTGATTCACAAAATTTC
**
12513858 AGTTTCACAAGAATTTGATTCACAAAATTTC
1 AAATTCACAAGAATTTGATTCACAAAATTTC
*
12513889 AAATTCGCAAGA
1 AAATTCACAAGA
12513901 CTTTTTAGCT
Statistics
Matches: 35, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 35 1.00
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (31 bp):
AAATTCACAAGAATTTGATTCACAAAATTTC
Done.