Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167937.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_2, 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: 35885061
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 165000 characters in sequence are not A, C, G, or T
File 185 of 195
Found at i:32128485 original size:27 final size:26
Alignment explanation
Indices: 32128450--32128513 Score: 71
Period size: 25 Copynumber: 2.5 Consensus size: 26
32128440 TAAGCTTATC
* *
32128450 ATATTTTTATTAATATATTATATATAT
1 ATATATTTATTAATATATGATATAT-T
*
32128477 TTATATTTA-TAA-ATATGATATATT
1 ATATATTTATTAATATATGATATATT
32128501 ATATA-TTATTAAT
1 ATATATTTATTAAT
32128514 TGATCTCCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
23 3 0.10
24 8 0.26
25 10 0.32
26 3 0.10
27 7 0.23
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (26 bp):
ATATATTTATTAATATATGATATATT
Found at i:32128509 original size:23 final size:22
Alignment explanation
Indices: 32128471--32128517 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 22
32128461 AATATATTAT
32128471 ATATATTTATATTTATAAATATG
1 ATATATTTATATTTATAAAT-TG
*
32128494 ATATA-TTATATATTATTAATTG
1 ATATATTTATAT-TTATAAATTG
32128516 AT
1 AT
32128518 CTCCTAAATG
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
22 10 0.45
23 12 0.55
ACGTcount: A:0.43, C:0.00, G:0.04, T:0.53
Consensus pattern (22 bp):
ATATATTTATATTTATAAATTG
Found at i:32129850 original size:2 final size:2
Alignment explanation
Indices: 32129843--32129872 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
32129833 ATGTTTGATT
*
32129843 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
32129873 AAGTAACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:32131691 original size:14 final size:13
Alignment explanation
Indices: 32131674--32131721 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 13
32131664 TAATAATATC
32131674 TTTTAATTTATCAA
1 TTTTAATTTAT-AA
32131688 TTTTAATTT-TAAA
1 TTTTAATTTAT-AA
*
32131701 TTTTAATTATATAT
1 TTTTAATT-TATAA
32131715 TTTTAAT
1 TTTTAAT
32131722 AACAAATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
13 11 0.37
14 18 0.60
15 1 0.03
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.62
Consensus pattern (13 bp):
TTTTAATTTATAA
Found at i:32131704 original size:13 final size:14
Alignment explanation
Indices: 32131674--32131717 Score: 56
Period size: 13 Copynumber: 3.3 Consensus size: 14
32131664 TAATAATATC
*
32131674 TTTTAATTTATCAA
1 TTTTAATTTATAAA
32131688 TTTTAATTT-TAAA
1 TTTTAATTTATAAA
*
32131701 TTTTAA-TTATATA
1 TTTTAATTTATAAA
32131714 TTTT
1 TTTT
32131718 TAATAACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
12 2 0.07
13 16 0.59
14 9 0.33
ACGTcount: A:0.34, C:0.02, G:0.00, T:0.64
Consensus pattern (14 bp):
TTTTAATTTATAAA
Found at i:32132211 original size:27 final size:27
Alignment explanation
Indices: 32132155--32132207 Score: 90
Period size: 26 Copynumber: 2.0 Consensus size: 27
32132145 TAACTATTAA
*
32132155 ATATTAAAAATTATTTATTATTAAAAT
1 ATATTAAAAAATATTTATTATTAAAAT
32132182 ATATTAAAAAAT-TTTATTATTAAAAT
1 ATATTAAAAAATATTTATTATTAAAAT
32132208 TATAAATGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
26 14 0.56
27 11 0.44
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (27 bp):
ATATTAAAAAATATTTATTATTAAAAT
Found at i:32132268 original size:19 final size:18
Alignment explanation
Indices: 32132233--32132278 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
32132223 CAACTATATT
32132233 TTAATAATAATATTTAATA
1 TTAA-AATAATATTTAATA
*
32132252 TTAAAATATTATATTAATA
1 TTAAAATAATAT-TTAATA
*
32132271 TAAAAATA
1 TTAAAATA
32132279 CTTAACATAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (18 bp):
TTAAAATAATATTTAATA
Found at i:32132324 original size:15 final size:15
Alignment explanation
Indices: 32132306--32132434 Score: 97
Period size: 15 Copynumber: 8.6 Consensus size: 15
32132296 TATTATTCTT
32132306 TATATTATTTATTAA
1 TATATTATTTATTAA
*
32132321 TATATTA-TTA-CAA
1 TATATTATTTATTAA
*
32132334 TAT-TTATTAAATTAA
1 TATATTATT-TATTAA
* *
32132349 TA-A-TATTTGTTAT
1 TATATTATTTATTAA
32132362 TATATTATTTATTATAA
1 TATATTATTTA-T-TAA
*
32132379 TCATATTATTTCTTAA
1 T-ATATTATTTATTAA
*
32132395 TATATTATATTAATAA
1 TATATTAT-TTATTAA
* *
32132411 TATATTGTTTATTAT
1 TATATTATTTATTAA
*
32132426 TATAATATT
1 TATATTATT
32132435 ATCTATAAGT
Statistics
Matches: 88, Mismatches: 16, Indels: 20
0.71 0.13 0.16
Matches are distributed among these distances:
12 3 0.03
13 11 0.12
14 9 0.10
15 35 0.40
16 17 0.19
17 4 0.05
18 9 0.10
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.57
Consensus pattern (15 bp):
TATATTATTTATTAA
Found at i:32132386 original size:18 final size:17
Alignment explanation
Indices: 32132362--32132436 Score: 68
Period size: 18 Copynumber: 4.5 Consensus size: 17
32132352 TATTTGTTAT
32132362 TATATTATTTATTATAA
1 TATATTATTTATTATAA
*
32132379 TCATATTATTT-CT-TAA
1 T-ATATTATTTATTATAA
32132395 TATATTA--TATTAATAA
1 TATATTATTTATT-ATAA
* *
32132411 TATATTGTTTATTATTA
1 TATATTATTTATTATAA
32132428 TAATATTAT
1 T-ATATTAT
32132437 CTATAAGTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 13
0.72 0.08 0.20
Matches are distributed among these distances:
13 1 0.02
14 1 0.02
15 6 0.13
16 13 0.28
17 6 0.13
18 19 0.41
ACGTcount: A:0.39, C:0.03, G:0.01, T:0.57
Consensus pattern (17 bp):
TATATTATTTATTATAA
Found at i:32132389 original size:33 final size:31
Alignment explanation
Indices: 32132323--32132442 Score: 91
Period size: 33 Copynumber: 3.7 Consensus size: 31
32132313 TTTATTAATA
* *
32132323 TATTATTACAATATTTATTA-AATTAATAATATT
1 TATTATTATAATA-TTATTATAA-T-ATATTATT
* *
32132356 TGTTATTATATTATTTATTATAATCATATTATT
1 TATTATTATAATA-TTATTATAAT-ATATTATT
* * * *
32132389 TCTTAATATATTA-TATTAATAATATATTGTT
1 TATTATTATAATATTATT-ATAATATATTATT
32132420 TATTATTATAATATTATCTATAA
1 TATTATTATAATATTAT-TATAA
32132443 GTAAAATTAT
Statistics
Matches: 72, Mismatches: 11, Indels: 9
0.78 0.12 0.10
Matches are distributed among these distances:
31 21 0.29
32 12 0.17
33 37 0.51
34 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.02, T:0.55
Consensus pattern (31 bp):
TATTATTATAATATTATTATAATATATTATT
Found at i:32132427 original size:59 final size:55
Alignment explanation
Indices: 32132299--32132428 Score: 133
Period size: 59 Copynumber: 2.3 Consensus size: 55
32132289 AACTATTTAT
*
32132299 TATTCTTTA-TATTATTTATTAATATATTATTACAATATTTATTAAATTAATAATA
1 TATTGTTTATTATTATTTATTAATATATTATTACAATA-TTATTAAATTAATAATA
* *
32132354 T-TTG-TTATTATATTATTTATTATAATCATATTATTTCTTAATA-TATTATATTAATAATA
1 TATTGTTTA-T-TATTATTTA-T-TAAT-ATATTATTAC--AATATTATTAAATTAATAATA
32132413 TATTGTTTATTATTAT
1 TATTGTTTATTATTAT
32132429 AATATTATCT
Statistics
Matches: 62, Mismatches: 3, Indels: 16
0.77 0.04 0.20
Matches are distributed among these distances:
53 3 0.05
54 2 0.03
55 1 0.02
56 9 0.15
57 1 0.02
58 4 0.06
59 31 0.50
60 4 0.06
61 7 0.11
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.58
Consensus pattern (55 bp):
TATTGTTTATTATTATTTATTAATATATTATTACAATATTATTAAATTAATAATA
Found at i:32135162 original size:16 final size:16
Alignment explanation
Indices: 32135137--32135167 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32135127 GGTAAGATAA
32135137 AAAGGAAAATGCATGG
1 AAAGGAAAATGCATGG
*
32135153 AAAGGGAAATGCATG
1 AAAGGAAAATGCATG
32135168 CATGAGCCAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.06, G:0.32, T:0.13
Consensus pattern (16 bp):
AAAGGAAAATGCATGG
Found at i:32136942 original size:21 final size:19
Alignment explanation
Indices: 32136897--32136945 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 19
32136887 ATTAAAAGTT
*
32136897 TATTAAAATTTAAAATAAAA
1 TATT-AAATTTAAAACAAAA
32136917 T-TTAAATCTTATAAACAAAA
1 TATTAAAT-TTA-AAACAAAA
32136937 TATTAAATT
1 TATTAAATT
32136946 ATTATCAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
18 4 0.16
19 5 0.20
20 10 0.40
21 6 0.24
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
TATTAAATTTAAAACAAAA
Found at i:32137948 original size:25 final size:24
Alignment explanation
Indices: 32137901--32137959 Score: 66
Period size: 25 Copynumber: 2.4 Consensus size: 24
32137891 TATTGCATTT
* * *
32137901 ATATAAAAAATTATTGAATAAAATA
1 ATATAAAAAAATATTCAACAAAA-A
32137926 A-ATAAATAAAATATTCAACAAAAA
1 ATATAAA-AAAATATTCAACAAAAA
32137950 ATATAAAAAA
1 ATATAAAAAA
32137960 TCGACATAAT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
24 10 0.34
25 19 0.66
ACGTcount: A:0.69, C:0.03, G:0.02, T:0.25
Consensus pattern (24 bp):
ATATAAAAAAATATTCAACAAAAA
Found at i:32138431 original size:19 final size:20
Alignment explanation
Indices: 32138402--32138439 Score: 69
Period size: 19 Copynumber: 1.9 Consensus size: 20
32138392 ATGATCGATT
32138402 TATTCTTTTATTAAGTAATG
1 TATTCTTTTATTAAGTAATG
32138422 TATT-TTTTATTAAGTAAT
1 TATTCTTTTATTAAGTAAT
32138440 AAAAAAAGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.78
20 4 0.22
ACGTcount: A:0.32, C:0.03, G:0.08, T:0.58
Consensus pattern (20 bp):
TATTCTTTTATTAAGTAATG
Found at i:32138452 original size:145 final size:147
Alignment explanation
Indices: 32138296--32138579 Score: 527
Period size: 145 Copynumber: 1.9 Consensus size: 147
32138286 TTATTGAATT
*
32138296 AAAAAGTTTTTTTATTTAATTTATTTTTAAAGTATCTTTAAAAATATTAACATATTAATATAGTT
1 AAAAAGTTTTTTTATTTAATTTAATTTTAAAGTATCTTTAAAAATATTAACATATTAATATAGTT
32138361 TATTATAATATTTAATTGTAAATAAATTAAAATGATCGATTTATTCTTTTATTAAGTAATGTATT
66 TATTATAATATTTAATTGTAAATAAATTAAAATGATCGATTTATTCTTTTATTAAGTAATGTATT
32138426 TTT-TATTAAGTAATAA
131 TTTATATTAAGTAATAA
* *
32138442 AAAAAG-TTTTTTATTTAATTTAATTTTACAGTGTCTTTAAAAATATTAACATATTAATATAGTT
1 AAAAAGTTTTTTTATTTAATTTAATTTTAAAGTATCTTTAAAAATATTAACATATTAATATAGTT
32138506 TATTATAATATTTAATTGTAAATAAATTAAAATGATCGATTTATTCTTTTATTAAGTAATGTATT
66 TATTATAATATTTAATTGTAAATAAATTAAAATGATCGATTTATTCTTTTATTAAGTAATGTATT
32138571 TTTATATTA
131 TTTATATTA
32138580 TTAATTTTAA
Statistics
Matches: 134, Mismatches: 3, Indels: 2
0.96 0.02 0.01
Matches are distributed among these distances:
145 123 0.92
146 11 0.08
ACGTcount: A:0.40, C:0.03, G:0.06, T:0.50
Consensus pattern (147 bp):
AAAAAGTTTTTTTATTTAATTTAATTTTAAAGTATCTTTAAAAATATTAACATATTAATATAGTT
TATTATAATATTTAATTGTAAATAAATTAAAATGATCGATTTATTCTTTTATTAAGTAATGTATT
TTTATATTAAGTAATAA
Found at i:32139037 original size:14 final size:15
Alignment explanation
Indices: 32139018--32139049 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
32139008 TTAAATTATA
32139018 TTATTTTTA-TATTT
1 TTATTTTTATTATTT
32139032 TTA-TTTTATTATTT
1 TTATTTTTATTATTT
32139046 TTAT
1 TTAT
32139050 ATCGATATAT
Statistics
Matches: 16, Mismatches: 0, Indels: 3
0.84 0.00 0.16
Matches are distributed among these distances:
13 5 0.31
14 11 0.69
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (15 bp):
TTATTTTTATTATTT
Found at i:32141764 original size:23 final size:26
Alignment explanation
Indices: 32141720--32141775 Score: 91
Period size: 23 Copynumber: 2.3 Consensus size: 26
32141710 TATTTATTTA
32141720 ATTTTATATTTATATTAAAAAATAAT
1 ATTTTATATTTATATTAAAAAATAAT
32141746 ATTTTATA-TT-T-TTAAAAAATAAT
1 ATTTTATATTTATATTAAAAAATAAT
32141769 ATTTTAT
1 ATTTTAT
32141776 TAATTTCGAG
Statistics
Matches: 30, Mismatches: 0, Indels: 3
0.91 0.00 0.09
Matches are distributed among these distances:
23 19 0.63
24 1 0.03
25 2 0.07
26 8 0.27
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (26 bp):
ATTTTATATTTATATTAAAAAATAAT
Found at i:32141870 original size:2 final size:2
Alignment explanation
Indices: 32141863--32141902 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
32141853 GTTTGTGTTT
32141863 TA 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 TA
32141903 GGAGAGAGAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32141909 original size:2 final size:2
Alignment explanation
Indices: 32141904--32141932 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32141894 ATATATATAG
32141904 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 G
32141933 TCGGGTTAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:32147459 original size:9 final size:9
Alignment explanation
Indices: 32147445--32147477 Score: 57
Period size: 9 Copynumber: 3.7 Consensus size: 9
32147435 TTTATTTAAA
32147445 AATAATAGT
1 AATAATAGT
32147454 AATAATAGT
1 AATAATAGT
*
32147463 AATAATAAT
1 AATAATAGT
32147472 AATAAT
1 AATAAT
32147478 TAGTGCGTTA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 23 1.00
ACGTcount: A:0.61, C:0.00, G:0.06, T:0.33
Consensus pattern (9 bp):
AATAATAGT
Found at i:32149916 original size:17 final size:16
Alignment explanation
Indices: 32149894--32149929 Score: 54
Period size: 17 Copynumber: 2.2 Consensus size: 16
32149884 AACCAATTAA
*
32149894 AAACTTATAATAAAACT
1 AAACTTAAAATAAAA-T
32149911 AAACTTAAAATAAAAT
1 AAACTTAAAATAAAAT
32149927 AAA
1 AAA
32149930 TCATAAGTCG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 4 0.22
17 14 0.78
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (16 bp):
AAACTTAAAATAAAAT
Found at i:32150322 original size:20 final size:20
Alignment explanation
Indices: 32150288--32150333 Score: 56
Period size: 20 Copynumber: 2.3 Consensus size: 20
32150278 TATGATATTG
* *
32150288 TTTAAATTTTTAATTTAATA
1 TTTAAATTATAAATTTAATA
**
32150308 TTTAAATTATAAATTTGTTA
1 TTTAAATTATAAATTTAATA
32150328 TTTAAA
1 TTTAAA
32150334 ATAATTATTA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTTAAATTATAAATTTAATA
Found at i:32164030 original size:27 final size:28
Alignment explanation
Indices: 32163975--32164030 Score: 71
Period size: 27 Copynumber: 2.0 Consensus size: 28
32163965 TAGAAATCAG
* *
32163975 AGATAATTTAAAATATAATATAATGATA
1 AGATAATTAAAAATATAAAATAATGATA
32164003 AGAT-ATTAAAAATATAAAAATAAT-ATA
1 AGATAATTAAAAATAT-AAAATAATGATA
32164030 A
1 A
32164031 TTTAAATTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 14 0.56
28 11 0.44
ACGTcount: A:0.62, C:0.00, G:0.05, T:0.32
Consensus pattern (28 bp):
AGATAATTAAAAATATAAAATAATGATA
Found at i:32167233 original size:14 final size:15
Alignment explanation
Indices: 32167203--32167237 Score: 54
Period size: 14 Copynumber: 2.4 Consensus size: 15
32167193 AAAATTTTGT
*
32167203 AAATATTTTTATTAA
1 AAATATTTATATTAA
32167218 AAATATTTAT-TTAA
1 AAATATTTATATTAA
32167232 AAATAT
1 AAATAT
32167238 ATATCAAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.53
15 9 0.47
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AAATATTTATATTAA
Found at i:32168472 original size:14 final size:15
Alignment explanation
Indices: 32168448--32168484 Score: 53
Period size: 14 Copynumber: 2.7 Consensus size: 15
32168438 TTAAATTATT
32168448 TAATA-TTTTAAT-A
1 TAATATTTTTAATGA
32168461 TAATATTTTTAATGA
1 TAATATTTTTAATGA
32168476 TAAT-TTTTT
1 TAATATTTTT
32168485 CTTTTCATTA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 12 0.55
15 5 0.23
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TAATATTTTTAATGA
Found at i:32173999 original size:14 final size:14
Alignment explanation
Indices: 32173980--32174008 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
32173970 GTTAAATAAG
32173980 AGGGCGATTAATGT
1 AGGGCGATTAATGT
32173994 AGGGCGATTAATGT
1 AGGGCGATTAATGT
32174008 A
1 A
32174009 ATCATGTGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.31, C:0.07, G:0.34, T:0.28
Consensus pattern (14 bp):
AGGGCGATTAATGT
Found at i:32177847 original size:2 final size:2
Alignment explanation
Indices: 32177840--32177871 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
32177830 CTTCATCTTC
32177840 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
32177872 TGCTTTTCTT
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:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:32178491 original size:2 final size:2
Alignment explanation
Indices: 32178486--32178522 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
32178476 CACACACACA
32178486 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
32178523 ATACACACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
CT
Found at i:32180783 original size:21 final size:21
Alignment explanation
Indices: 32180749--32180788 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
32180739 ATTTTTATTC
*
32180749 AAATAATTTATTATTTCAAAA
1 AAATAATTTATTATGTCAAAA
32180770 AAAT-ATTTATTTATGTCAA
1 AAATAATTTA-TTATGTCAA
32180789 TAACTTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.45
Consensus pattern (21 bp):
AAATAATTTATTATGTCAAAA
Found at i:32180867 original size:29 final size:29
Alignment explanation
Indices: 32180790--32180888 Score: 126
Period size: 29 Copynumber: 3.3 Consensus size: 29
32180780 TTATGTCAAT
* * *
32180790 AACTTATTTAAGTGTAAATTAAAAGTTAAA
1 AACTTATTTAAATATAAATTAAAA-TTTAA
**
32180820 AACTTATTTTTATATAAATTAAAATTTAA
1 AACTTATTTAAATATAAATTAAAATTTAA
*
32180849 AACTTATTTAAATACAAATTAAAATTTAA
1 AACTTATTTAAATATAAATTAAAATTTAA
32180878 TAACTTATTTA
1 -AACTTATTTA
32180889 TGTGTAATAA
Statistics
Matches: 60, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
29 30 0.50
30 30 0.50
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.42
Consensus pattern (29 bp):
AACTTATTTAAATATAAATTAAAATTTAA
Found at i:32180902 original size:29 final size:30
Alignment explanation
Indices: 32180787--32180888 Score: 125
Period size: 30 Copynumber: 3.4 Consensus size: 30
32180777 TATTTATGTC
* *
32180787 AATAACTTATTTAAGTGTAAATTAAAAGTT
1 AATAACTTATTTAAATGTAAATTAAAATTT
* ** *
32180817 AAAAACTTATTTTTATATAAATTAAAATTT
1 AATAACTTATTTAAATGTAAATTAAAATTT
**
32180847 AA-AACTTATTTAAATACAAATTAAAATTT
1 AATAACTTATTTAAATGTAAATTAAAATTT
32180876 AATAACTTATTTA
1 AATAACTTATTTA
32180889 TGTGTAATAA
Statistics
Matches: 62, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
29 26 0.42
30 36 0.58
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (30 bp):
AATAACTTATTTAAATGTAAATTAAAATTT
Found at i:32180920 original size:59 final size:58
Alignment explanation
Indices: 32180805--32180925 Score: 136
Period size: 59 Copynumber: 2.1 Consensus size: 58
32180795 ATTTAAGTGT
* * * * *
32180805 AAATTAAAAGTTAAAAACTTATTTTTATATAAATTAAAATTTAAAACTTATTTAAATA
1 AAATTAAAAGTTAAAAACTTATTTATATATAAATAAAAATATAAAAATTATCTAAATA
* * * *
32180863 CAAATTAAAATTTAATAACTTATTTATGTGT-AATAAAAATATAAAATATTATCTAAATA
1 -AAATTAAAAGTTAAAAACTTATTTATATATAAATAAAAATATAAAA-ATTATCTAAATA
32180922 AAAT
1 AAAT
32180926 AATAGAATTC
Statistics
Matches: 52, Mismatches: 9, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
58 17 0.33
59 35 0.67
ACGTcount: A:0.54, C:0.04, G:0.02, T:0.40
Consensus pattern (58 bp):
AAATTAAAAGTTAAAAACTTATTTATATATAAATAAAAATATAAAAATTATCTAAATA
Found at i:32192824 original size:28 final size:27
Alignment explanation
Indices: 32192796--32192848 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
32192786 TTTTGAGTTA
*
32192796 AAATTTT-ATTATATGTGAATTTAATTT
1 AAATTTTAATTATATATGAA-TTAATTT
*
32192823 AATTTTTAATTATATATGAATTAATT
1 AAATTTTAATTATATATGAATTAATT
32192849 AATTAATTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 12 0.52
28 11 0.48
ACGTcount: A:0.40, C:0.00, G:0.06, T:0.55
Consensus pattern (27 bp):
AAATTTTAATTATATATGAATTAATTT
Found at i:32192869 original size:23 final size:22
Alignment explanation
Indices: 32192814--32192870 Score: 71
Period size: 23 Copynumber: 2.5 Consensus size: 22
32192804 TTATATGTGA
*
32192814 ATTTAATTTAATTTTTAATTAT
1 ATTTAATTTAATTATTAATTAT
*
32192836 ATATGAA-TTAATTAATTAATTAT
1 AT-TTAATTTAATT-ATTAATTAT
32192859 ATTTAATTTAAT
1 ATTTAATTTAAT
32192871 ATTTTTATGT
Statistics
Matches: 29, Mismatches: 3, Indels: 5
0.78 0.08 0.14
Matches are distributed among these distances:
22 11 0.38
23 18 0.62
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTAATTTAATTATTAATTAT
Found at i:32195066 original size:27 final size:26
Alignment explanation
Indices: 32195022--32195081 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 26
32195012 ATCAAATTAT
32195022 TCAAACTTAAATTTAATTTGATAATAA
1 TCAAA-TTAAATTTAATTTGATAATAA
* * *
32195049 TCAAATTGAATTTAAATTTTATTATAA
1 TCAAATTAAATTT-AATTTGATAATAA
32195076 TCAAAT
1 TCAAAT
32195082 CTTAATAATT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
26 7 0.24
27 22 0.76
ACGTcount: A:0.47, C:0.07, G:0.03, T:0.43
Consensus pattern (26 bp):
TCAAATTAAATTTAATTTGATAATAA
Found at i:32198235 original size:10 final size:10
Alignment explanation
Indices: 32198179--32198235 Score: 50
Period size: 10 Copynumber: 6.1 Consensus size: 10
32198169 GTAATTAGTC
32198179 ATTTATTAAA
1 ATTTATTAAA
*
32198189 TTTTATT--A
1 ATTTATTAAA
* *
32198197 TTTTAATAAA
1 ATTTATTAAA
32198207 A-TT-TTAAA
1 ATTTATTAAA
*
32198215 ATTAATTAAA
1 ATTTATTAAA
32198225 ATTTATTAAA
1 ATTTATTAAA
32198235 A
1 A
32198236 AAATAATTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 8
0.73 0.12 0.16
Matches are distributed among these distances:
8 12 0.32
9 3 0.08
10 22 0.59
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (10 bp):
ATTTATTAAA
Found at i:32199103 original size:2 final size:2
Alignment explanation
Indices: 32199096--32199130 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
32199086 AGGCTTTTCT
*
32199096 TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32199131 CACTATTTTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.46, C:0.00, G:0.03, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32209382 original size:19 final size:18
Alignment explanation
Indices: 32209340--32209389 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
32209330 ATAAATATTA
* *
32209340 ATAAATAATATTTAATTT
1 ATAAATAAAAATTAATTT
*
32209358 ATAAATAAAAATTATTTT
1 ATAAATAAAAATTAATTT
32209376 CATAAATATAAAAT
1 -ATAAATA-AAAAT
32209390 ATATAATAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
18 15 0.56
19 7 0.26
20 5 0.19
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (18 bp):
ATAAATAAAAATTAATTT
Found at i:32209551 original size:29 final size:26
Alignment explanation
Indices: 32209518--32209577 Score: 68
Period size: 29 Copynumber: 2.2 Consensus size: 26
32209508 AATAAGTGAT
32209518 TAAAATTACATAAAAATATATTAAAATGA
1 TAAAATTACATAAAAA-A-A-TAAAATGA
**
32209547 TAAAATTGTATAAAAAAATAAAATGA
1 TAAAATTACATAAAAAAATAAAATGA
32209573 -AAAAT
1 TAAAAT
32209578 ATAAAATTTC
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
25 5 0.17
26 8 0.28
27 1 0.03
28 1 0.03
29 14 0.48
ACGTcount: A:0.65, C:0.02, G:0.05, T:0.28
Consensus pattern (26 bp):
TAAAATTACATAAAAAAATAAAATGA
Found at i:32216354 original size:2 final size:2
Alignment explanation
Indices: 32216347--32216373 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
32216337 AAACAATGAC
32216347 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
32216374 TACTTTCCAT
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:32220611 original size:50 final size:50
Alignment explanation
Indices: 32220552--32220650 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
32220542 CAGTTGCTGC
* *
32220552 TTAGTTTATATTTATCTGCAATTAAATGTTTGAAGTCAAAGCAAACATTA
1 TTAGTTTATATTTATCTGCAAATAAATGTTTGAAGCCAAAGCAAACATTA
32220602 TTAGTTTATATTTATCTGCAAATAAATGTTTGAAGCCAAAGCAAACATT
1 TTAGTTTATATTTATCTGCAAATAAATGTTTGAAGCCAAAGCAAACATT
32220651 CTACATACTG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.38, C:0.11, G:0.12, T:0.38
Consensus pattern (50 bp):
TTAGTTTATATTTATCTGCAAATAAATGTTTGAAGCCAAAGCAAACATTA
Found at i:32239463 original size:21 final size:20
Alignment explanation
Indices: 32239424--32239465 Score: 61
Period size: 19 Copynumber: 2.1 Consensus size: 20
32239414 AATGATAATG
32239424 AATATTTTTAATTCTTATAT
1 AATATTTTTAATTCTTATAT
32239444 AATATTTTATAA-T-TTATAT
1 AATATTTT-TAATTCTTATAT
32239463 AAT
1 AAT
32239466 TACATAAAAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 9 0.43
20 9 0.43
21 3 0.14
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.57
Consensus pattern (20 bp):
AATATTTTTAATTCTTATAT
Found at i:32239466 original size:30 final size:29
Alignment explanation
Indices: 32239431--32239511 Score: 71
Period size: 30 Copynumber: 2.8 Consensus size: 29
32239421 ATGAATATTT
32239431 TTAATTCTTATATAATATTTTA-TAATTTA
1 TTAATTCTTATATAATATTTTAGTAA-TTA
*
32239460 TATAATTAC--ATAAAATATTTATAGTAATTA
1 T-TAATT-CTTATATAATATTT-TAGTAATTA
*
32239490 TTAATT-TATTTATAATATTTTA
1 TTAATTCT-TATATAATATTTTA
32239512 AAATAAATTT
Statistics
Matches: 42, Mismatches: 3, Indels: 14
0.71 0.05 0.24
Matches are distributed among these distances:
29 18 0.43
30 20 0.48
31 4 0.10
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.54
Consensus pattern (29 bp):
TTAATTCTTATATAATATTTTAGTAATTA
Found at i:32244753 original size:24 final size:24
Alignment explanation
Indices: 32244720--32244769 Score: 91
Period size: 24 Copynumber: 2.1 Consensus size: 24
32244710 AAACATAGGT
*
32244720 CATAATCAATTTACAGTCAGTTGC
1 CATAAGCAATTTACAGTCAGTTGC
32244744 CATAAGCAATTTACAGTCAGTTGC
1 CATAAGCAATTTACAGTCAGTTGC
32244768 CA
1 CA
32244770 AATTTAATAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (24 bp):
CATAAGCAATTTACAGTCAGTTGC
Found at i:32246785 original size:16 final size:16
Alignment explanation
Indices: 32246764--32246799 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
32246754 CCTCACATTC
32246764 GTTACCACTCCTTAGG
1 GTTACCACTCCTTAGG
32246780 GTTACCACTCCTTAGG
1 GTTACCACTCCTTAGG
32246796 GTTA
1 GTTA
32246800 AAATGGTAAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.19, C:0.28, G:0.19, T:0.33
Consensus pattern (16 bp):
GTTACCACTCCTTAGG
Found at i:32251722 original size:13 final size:13
Alignment explanation
Indices: 32251704--32251728 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
32251694 TATATCAAAT
32251704 TTATATCATATTA
1 TTATATCATATTA
32251717 TTATATCATATT
1 TTATATCATATT
32251729 TTAAATTATT
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:0.36, C:0.08, G:0.00, T:0.56
Consensus pattern (13 bp):
TTATATCATATTA
Found at i:32256181 original size:18 final size:18
Alignment explanation
Indices: 32256160--32256226 Score: 52
Period size: 18 Copynumber: 3.8 Consensus size: 18
32256150 ACAAATATAT
32256160 TTATAAATATATATAAAA
1 TTATAAATATATATAAAA
*
32256178 TTAT--ATAT-TATAATA
1 TTATAAATATATATAAAA
* *
32256193 TTATTAATAATCTATAAAA
1 TTATAAAT-ATATATAAAA
*
32256212 -TATATATATAATATA
1 TTATAAATAT-ATATA
32256227 TTCAAAAATC
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
15 10 0.26
16 4 0.10
17 4 0.10
18 15 0.38
19 6 0.15
ACGTcount: A:0.54, C:0.01, G:0.00, T:0.45
Consensus pattern (18 bp):
TTATAAATATATATAAAA
Found at i:32256228 original size:34 final size:32
Alignment explanation
Indices: 32256153--32256228 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 32
32256143 GTTTAATACA
32256153 AATATATTTATAAATATATATAAAATTATATAT
1 AATATA-TTATAAATATATATAAAATTATATAT
* * *
32256186 TATAATATTATTAATAATCTATAAAATATATATAT
1 AAT-ATATTATAAAT-ATATATAAAAT-TATATAT
32256221 AATATATT
1 AATATATT
32256229 CAAAAATCAA
Statistics
Matches: 36, Mismatches: 4, Indels: 5
0.80 0.09 0.11
Matches are distributed among these distances:
33 9 0.25
34 18 0.50
35 9 0.25
ACGTcount: A:0.53, C:0.01, G:0.00, T:0.46
Consensus pattern (32 bp):
AATATATTATAAATATATATAAAATTATATAT
Found at i:32256245 original size:32 final size:33
Alignment explanation
Indices: 32256172--32256243 Score: 85
Period size: 32 Copynumber: 2.2 Consensus size: 33
32256162 ATAAATATAT
* *
32256172 ATAAAATTATATATTATAATATTATTAATAATCT
1 ATAAAA-TATATATTATAATATTATTAAAAATCA
32256206 ATAAAATATATA-TATAATA-TATTCAAAAATCAA
1 ATAAAATATATATTATAATATTATT-AAAAATC-A
32256239 ATAAA
1 ATAAA
32256244 TAAGTTTAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
31 4 0.12
32 13 0.38
33 11 0.32
34 6 0.18
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (33 bp):
ATAAAATATATATTATAATATTATTAAAAATCA
Found at i:32261465 original size:2 final size:2
Alignment explanation
Indices: 32261458--32261492 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
32261448 GTCAAGTATG
32261458 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32261493 ACGAGTTGCG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:32262951 original size:21 final size:21
Alignment explanation
Indices: 32262925--32262974 Score: 100
Period size: 21 Copynumber: 2.4 Consensus size: 21
32262915 TTTGGTACGG
32262925 GGTAATCACTTCAAAAATCAT
1 GGTAATCACTTCAAAAATCAT
32262946 GGTAATCACTTCAAAAATCAT
1 GGTAATCACTTCAAAAATCAT
32262967 GGTAATCA
1 GGTAATCA
32262975 ACACATGGTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.42, C:0.18, G:0.12, T:0.28
Consensus pattern (21 bp):
GGTAATCACTTCAAAAATCAT
Found at i:32279921 original size:28 final size:27
Alignment explanation
Indices: 32279889--32279944 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 27
32279879 TTGAATTTTA
*
32279889 AAAAATATAAAATTTGGTATTTAAAAAAT
1 AAAAA-ATAAAATTT-ATATTTAAAAAAT
*
32279918 AAAAAATAAAATTTATATTTTAAAAAT
1 AAAAAATAAAATTTATATTTAAAAAAT
32279945 TTAAATAATA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
27 11 0.44
28 9 0.36
29 5 0.20
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.36
Consensus pattern (27 bp):
AAAAAATAAAATTTATATTTAAAAAAT
Found at i:32288988 original size:20 final size:18
Alignment explanation
Indices: 32288963--32289001 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
32288953 AAAAAGATAT
32288963 AATATAAAATTTTAATAAAA
1 AATAT-AAA-TTTAATAAAA
*
32288983 AATATATATTTAATAAAA
1 AATATAAATTTAATAAAA
32289001 A
1 A
32289002 TAAAAAATAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 11 0.61
19 2 0.11
20 5 0.28
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (18 bp):
AATATAAATTTAATAAAA
Found at i:32298247 original size:13 final size:13
Alignment explanation
Indices: 32298229--32298254 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
32298219 ATCCTTTTAA
32298229 GAGGTTCAACTTC
1 GAGGTTCAACTTC
32298242 GAGGTTCAACTTC
1 GAGGTTCAACTTC
32298255 TGGGCACTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.23, G:0.23, T:0.31
Consensus pattern (13 bp):
GAGGTTCAACTTC
Found at i:32311568 original size:115 final size:114
Alignment explanation
Indices: 32311434--32311662 Score: 388
Period size: 115 Copynumber: 2.0 Consensus size: 114
32311424 CTTTGTATGC
32311434 AGGAATAACCCTAGAGCACA-AGTGAGCCAGAGCACCATTAAAAATGCAGTAAACTAGATATACA
1 AGGAATAACCCTAGAGCACATA-TGAGCCAGAGCACCATTAAAAATGCAGTAAACTAGATATACA
*
32311498 TTCAGACCACCAAAAATTTATGATCCAGCAAAATTTAAACAGATGAAAAAA
65 TTCAGACCA-CAAAAATTTATGATCCAGCAAAACTTAAACAGATGAAAAAA
* * *
32311549 AGGAATAACCCTAGAGCACATATGAGCCGGAGCACCATTAACAATGCAGTCAACTAGATATACAT
1 AGGAATAACCCTAGAGCACATATGAGCCAGAGCACCATTAAAAATGCAGTAAACTAGATATACAT
*
32311614 TCAGACCACTAAAATTTATGATCCAGCAAAACTTAAACAGATGAAAAAA
66 TCAGACCACAAAAATTTATGATCCAGCAAAACTTAAACAGATGAAAAAA
32311663 GTGAAACGTT
Statistics
Matches: 108, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
114 39 0.36
115 68 0.63
116 1 0.01
ACGTcount: A:0.46, C:0.20, G:0.15, T:0.19
Consensus pattern (114 bp):
AGGAATAACCCTAGAGCACATATGAGCCAGAGCACCATTAAAAATGCAGTAAACTAGATATACAT
TCAGACCACAAAAATTTATGATCCAGCAAAACTTAAACAGATGAAAAAA
Found at i:32313996 original size:14 final size:15
Alignment explanation
Indices: 32313958--32313998 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
32313948 CGAAGTTCCT
*
32313958 ACAATAA-AACAATA
1 ACAATAATAATAATA
32313972 ACAATAATAATAATA
1 ACAATAATAATAATA
32313987 A-AATAATAATAA
1 ACAATAATAATAA
32313999 AAAGAAATAG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 18 0.72
15 7 0.28
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (15 bp):
ACAATAATAATAATA
Found at i:32324746 original size:23 final size:24
Alignment explanation
Indices: 32324720--32324770 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
32324710 ATTCAATTAA
32324720 TATATAAAA-ATAAATTTAATT-TT
1 TATATAAAATA-AAATTTAATTATT
**
32324743 TATATTTAATAAAATTTAATTATT
1 TATATAAAATAAAATTTAATTATT
32324767 TATA
1 TATA
32324771 CTCAAATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 17 0.71
24 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (24 bp):
TATATAAAATAAAATTTAATTATT
Found at i:32325696 original size:18 final size:17
Alignment explanation
Indices: 32325668--32325703 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
32325658 GAAAAGTTAA
*
32325668 AAAAATTTTATTTTTAT
1 AAAAATTTTATATTTAT
32325685 AAAAATTATTATATTTAT
1 AAAAATT-TTATATTTAT
32325703 A
1 A
32325704 TTTTATTATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 7 0.41
18 10 0.59
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
AAAAATTTTATATTTAT
Found at i:32328106 original size:18 final size:18
Alignment explanation
Indices: 32328085--32328145 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 18
32328075 ATATCTTTAA
32328085 AAATTATATTAATAATTT
1 AAATTATATTAATAATTT
* *
32328103 AAATTATATAAATAAATT
1 AAATTATATTAATAATTT
**
32328121 ATTTTATATT-AT-ATTT
1 AAATTATATTAATAATTT
*
32328137 AATTTATAT
1 AAATTATAT
32328146 ATAAAGAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
16 11 0.31
17 2 0.06
18 23 0.64
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
AAATTATATTAATAATTT
Found at i:32328136 original size:191 final size:191
Alignment explanation
Indices: 32327929--32328322 Score: 709
Period size: 191 Copynumber: 2.1 Consensus size: 191
32327919 GAATGATAAC
32327929 TATTTTATATTATATTTAATTTATATATAAAGAAAAAGATAGAATTATAAGGAAAGATTATCATT
1 TATTTTATATTATATTTAATTTATATATAAAGAAAAAGATAGAATTATAAGGAAAGATTATCATT
* * *
32327994 TTTTTGGTGTAAGATAATTTAATCCTTTTAAAGTGAAGATGATTATTTTTAATTTATGAGATTAA
66 TTTTTGGTATAAGATAATTTAATCCTTTCAAAGTGAAGATAATTATTTTTAATTTATGAGATTAA
* *
32328059 ATTTATATGTCTTATTATA-TCTTTAAAAATTATATTAATAATTTAAATTATATAAATAAAT
131 ACTTACATGTCTTATTATATTC-TTAAAAATTATATTAATAATTTAAATTATATAAATAAAT
*
32328120 TATTTTATATTATATTTAATTTATATATAAAGAAAAAGATAGAATTATAAGGAAGGATTATCATT
1 TATTTTATATTATATTTAATTTATATATAAAGAAAAAGATAGAATTATAAGGAAAGATTATCATT
32328185 TTTTTGGTATAAGATAATTTAATCCTTTCAAAGTGAAGATAATTATTTTTAATTTATGAGATTAA
66 TTTTTGGTATAAGATAATTTAATCCTTTCAAAGTGAAGATAATTATTTTTAATTTATGAGATTAA
32328250 ACTTACATGTCTTATTATATTCTTAAAAATTATATTAATAATTTAAATTATATAAATAAAT
131 ACTTACATGTCTTATTATATTCTTAAAAATTATATTAATAATTTAAATTATATAAATAAAT
*
32328311 TATCTTATATTA
1 TATTTTATATTA
32328323 ATCTTGATAC
Statistics
Matches: 195, Mismatches: 7, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
191 193 0.99
192 2 0.01
ACGTcount: A:0.42, C:0.04, G:0.08, T:0.46
Consensus pattern (191 bp):
TATTTTATATTATATTTAATTTATATATAAAGAAAAAGATAGAATTATAAGGAAAGATTATCATT
TTTTTGGTATAAGATAATTTAATCCTTTCAAAGTGAAGATAATTATTTTTAATTTATGAGATTAA
ACTTACATGTCTTATTATATTCTTAAAAATTATATTAATAATTTAAATTATATAAATAAAT
Found at i:32328297 original size:18 final size:18
Alignment explanation
Indices: 32328276--32328324 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
32328266 ATATTCTTAA
*
32328276 AAATTATATTAATAATTT
1 AAATTATATTAATAAATT
*
32328294 AAATTATATAAATAAATT
1 AAATTATATTAATAAATT
**
32328312 ATCTTATATTAAT
1 AAATTATATTAAT
32328325 CTTGATACAT
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
AAATTATATTAATAAATT
Found at i:32330597 original size:13 final size:13
Alignment explanation
Indices: 32330579--32330717 Score: 65
Period size: 13 Copynumber: 11.4 Consensus size: 13
32330569 AATCATACCA
32330579 AATATCATGTAAT
1 AATATCATGTAAT
**
32330592 AATATCATG-CCT
1 AATATCATGTAAT
32330604 AA-ATCATGCTAA-
1 AATATCATG-TAAT
*
32330616 AATATTCATGT-AG
1 AATA-TCATGTAAT
32330629 AATATCATGT-A-
1 AATATCATGTAAT
32330640 AATAT-AT-TAAT
1 AATATCATGTAAT
*
32330651 --TATCATGCAAT
1 AATATCATGTAAT
32330662 AATA--A--TAAT
1 AATATCATGTAAT
**
32330671 AATAT-AAATACAT
1 AATATCATGTA-AT
32330684 AATATCATGTAAAT
1 AATATCATGT-AAT
32330698 ATATTATCATGTAAT
1 A-A-TATCATGTAAT
32330713 AATAT
1 AATAT
32330718 AAAATATCAT
Statistics
Matches: 99, Mismatches: 8, Indels: 38
0.68 0.06 0.26
Matches are distributed among these distances:
9 11 0.11
10 6 0.06
11 15 0.15
12 15 0.15
13 27 0.27
14 11 0.11
15 6 0.06
16 8 0.08
ACGTcount: A:0.47, C:0.09, G:0.06, T:0.37
Consensus pattern (13 bp):
AATATCATGTAAT
Found at i:32330705 original size:16 final size:16
Alignment explanation
Indices: 32330686--32330739 Score: 54
Period size: 16 Copynumber: 3.1 Consensus size: 16
32330676 AAATACATAA
32330686 TATCATGTAAATATAT
1 TATCATGTAAATATAT
*
32330702 TATCATGTAATAATATAAAA
1 TATCATGT-A-AATAT--AT
*
32330722 TATCATGCAAATATAT
1 TATCATGTAAATATAT
32330738 TA
1 TA
32330740 ATAACCATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 8
0.74 0.07 0.19
Matches are distributed among these distances:
16 11 0.35
17 1 0.03
18 10 0.32
19 1 0.03
20 8 0.26
ACGTcount: A:0.48, C:0.07, G:0.06, T:0.39
Consensus pattern (16 bp):
TATCATGTAAATATAT
Found at i:32330743 original size:24 final size:24
Alignment explanation
Indices: 32330716--32330761 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
32330706 ATGTAATAAT
32330716 ATAA-AATATCATGCAAATATATTA
1 ATAACAAT-TCATGCAAATATATTA
* *
32330740 ATAACCATTCATGTAAATATAT
1 ATAACAATTCATGCAAATATAT
32330762 AATCACACAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.35
Consensus pattern (24 bp):
ATAACAATTCATGCAAATATATTA
Found at i:32330894 original size:22 final size:21
Alignment explanation
Indices: 32330836--32330919 Score: 59
Period size: 19 Copynumber: 4.0 Consensus size: 21
32330826 CATGTAATTA
*
32330836 AATATCATTCAAATATAATAT
1 AATATCATGCAAATATAATAT
*
32330857 TA-ATCATGCTTTAATATATAATAT
1 AATATCATGC---AA-ATATAATAT
*
32330881 CATATCATGC-AATA-AATAT
1 AATATCATGCAAATATAATAT
*
32330900 AAAATCATGC-AATAATAATA
1 AATATCATGCAAAT-ATAATA
32330920 ATAAATAAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 14
0.73 0.07 0.20
Matches are distributed among these distances:
19 16 0.31
20 10 0.20
21 6 0.12
23 2 0.04
24 10 0.20
25 7 0.14
ACGTcount: A:0.50, C:0.11, G:0.04, T:0.36
Consensus pattern (21 bp):
AATATCATGCAAATATAATAT
Found at i:32330899 original size:24 final size:24
Alignment explanation
Indices: 32330846--32330907 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
32330836 AATATCATTC
* **
32330846 AAATATAATATTA-ATCATGCTTT
1 AAATATAATATCATATCATGCAAT
32330869 AATATATAATATCATATCATGCAAT
1 AA-ATATAATATCATATCATGCAAT
*
32330894 AAATATAAAATCAT
1 AAATATAATATCAT
32330908 GCAATAATAA
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
23 2 0.06
24 21 0.64
25 10 0.30
ACGTcount: A:0.50, C:0.10, G:0.03, T:0.37
Consensus pattern (24 bp):
AAATATAATATCATATCATGCAAT
Found at i:32331112 original size:20 final size:20
Alignment explanation
Indices: 32331087--32331154 Score: 64
Period size: 20 Copynumber: 3.2 Consensus size: 20
32331077 TAAACCATAC
32331087 ATATAAACATGCAATTAAAT
1 ATATAAACATGCAATTAAAT
* * *
32331107 ATATAATCATACAAATAAAT
1 ATATAAACATGCAATTAAAT
*
32331127 ATATCAATAATCAAGCAATTAAAT
1 ATAT--A-AA-CATGCAATTAAAT
32331151 ATAT
1 ATAT
32331155 TAATAATTAT
Statistics
Matches: 37, Mismatches: 7, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
20 21 0.57
22 1 0.03
23 1 0.03
24 14 0.38
ACGTcount: A:0.56, C:0.10, G:0.03, T:0.31
Consensus pattern (20 bp):
ATATAAACATGCAATTAAAT
Found at i:32331169 original size:24 final size:24
Alignment explanation
Indices: 32331109--32331169 Score: 79
Period size: 24 Copynumber: 2.5 Consensus size: 24
32331099 AATTAAATAT
*
32331109 ATAATCATACAAATAAATATATCA
1 ATAATCATACAATTAAATATATCA
*
32331133 ATAATCA-AGCAATTAAATATATTA
1 ATAATCATA-CAATTAAATATATCA
*
32331157 ATAATTATACAAT
1 ATAATCATACAAT
32331170 CGAATTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
23 1 0.03
24 30 0.94
25 1 0.03
ACGTcount: A:0.56, C:0.10, G:0.02, T:0.33
Consensus pattern (24 bp):
ATAATCATACAATTAAATATATCA
Found at i:32331253 original size:21 final size:21
Alignment explanation
Indices: 32331229--32331271 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
32331219 TATATTAATA
*
32331229 AATCACATAAATAAATATATT
1 AATCACACAAATAAATATATT
**
32331250 AATCATGCAAATAAATATATT
1 AATCACACAAATAAATATATT
32331271 A
1 A
32331272 GACAAATAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.56, C:0.09, G:0.02, T:0.33
Consensus pattern (21 bp):
AATCACACAAATAAATATATT
Found at i:32331263 original size:25 final size:25
Alignment explanation
Indices: 32331216--32331266 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 25
32331206 ATAATCATGC
*
32331216 AAATATATTAATAAATCACATAAAT
1 AAATATATTAATAAATCAAATAAAT
*
32331241 AAATATATTAAT-CATGCAAATAAAT
1 AAATATATTAATAAAT-CAAATAAAT
32331266 A
1 A
32331267 TATTAGACAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 2 0.09
25 21 0.91
ACGTcount: A:0.59, C:0.08, G:0.02, T:0.31
Consensus pattern (25 bp):
AAATATATTAATAAATCAAATAAAT
Found at i:32331292 original size:16 final size:16
Alignment explanation
Indices: 32331257--32331304 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
32331247 ATTAATCATG
32331257 CAAATAAATATATTAGA
1 CAAAT-AATATATTAGA
* *
32331274 CAAATAATTTATTATA
1 CAAATAATATATTAGA
32331290 CAAAT-ATAATATTAG
1 CAAATAAT-ATATTAG
32331305 TCATGCAAAT
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
15 2 0.08
16 19 0.73
17 5 0.19
ACGTcount: A:0.54, C:0.06, G:0.04, T:0.35
Consensus pattern (16 bp):
CAAATAATATATTAGA
Found at i:32331337 original size:17 final size:17
Alignment explanation
Indices: 32331311--32331345 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
32331301 TTAGTCATGC
32331311 AAATTCATGCAA-AAAT
1 AAATTCATGCAATAAAT
32331327 AAATATCATGCAATAAAT
1 AAAT-TCATGCAATAAAT
32331345 A
1 A
32331346 TAAAAATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 4 0.24
17 8 0.47
18 5 0.29
ACGTcount: A:0.57, C:0.11, G:0.06, T:0.26
Consensus pattern (17 bp):
AAATTCATGCAATAAAT
Found at i:32331933 original size:13 final size:13
Alignment explanation
Indices: 32331909--32331943 Score: 54
Period size: 13 Copynumber: 2.8 Consensus size: 13
32331899 TTTGACTAAA
32331909 AAAATA-AAAATT
1 AAAATACAAAATT
*
32331921 AAACTACAAAATT
1 AAAATACAAAATT
32331934 AAAATACAAA
1 AAAATACAAA
32331944 TAAAATTTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
12 5 0.25
13 15 0.75
ACGTcount: A:0.71, C:0.09, G:0.00, T:0.20
Consensus pattern (13 bp):
AAAATACAAAATT
Found at i:32335108 original size:2 final size:2
Alignment explanation
Indices: 32335103--32335127 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
32335093 ACACACACGC
32335103 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
32335128 AACAAAGAAC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32336129 original size:70 final size:70
Alignment explanation
Indices: 32336007--32336146 Score: 208
Period size: 70 Copynumber: 2.0 Consensus size: 70
32335997 TCATGCTAGT
* * **
32336007 TATCATTTAAGCCTATTAAAAGGTTGTTTGAATTTAATAAAAATAGTACAATTTATGTGCAATTA
1 TATCATTTAAGCCTATTAAAAGGTTGGTTGAATTTAATAAAAACAGTACAATTTATAAGCAATTA
32336072 CCCAA
66 CCCAA
* * *
32336077 TATCATTTAAGCCTATTAAAATGTTGGTTGAATTTAATAAGAACAGTGCAATTTATAAGCAATTA
1 TATCATTTAAGCCTATTAAAAGGTTGGTTGAATTTAATAAAAACAGTACAATTTATAAGCAATTA
*
32336142 TCCAA
66 CCCAA
32336147 AATTGATTCT
Statistics
Matches: 62, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
70 62 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.36
Consensus pattern (70 bp):
TATCATTTAAGCCTATTAAAAGGTTGGTTGAATTTAATAAAAACAGTACAATTTATAAGCAATTA
CCCAA
Found at i:32339520 original size:17 final size:18
Alignment explanation
Indices: 32339500--32339549 Score: 50
Period size: 17 Copynumber: 2.8 Consensus size: 18
32339490 GAATTTTTGA
*
32339500 ATTTTTTATATATT-ATT
1 ATTTTTTATATATTAAGT
*
32339517 ATTTTTGT-TATTTTAAGT
1 ATTTTT-TATATATTAAGT
32339535 ATTTTTTTATATATT
1 A-TTTTTTATATATT
32339550 GATGCATGAT
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
17 11 0.42
18 5 0.19
19 10 0.38
ACGTcount: A:0.26, C:0.00, G:0.04, T:0.70
Consensus pattern (18 bp):
ATTTTTTATATATTAAGT
Found at i:32342475 original size:24 final size:26
Alignment explanation
Indices: 32342404--32342488 Score: 66
Period size: 24 Copynumber: 3.7 Consensus size: 26
32342394 ATGTTAAATC
*
32342404 ATATCATGC-AATAA-ATCAT-GCAA
1 ATATCATGCTAATAATATCATACCAA
32342427 ATAT-AT--T-ATAA-ATCATACCAA
1 ATATCATGCTAATAATATCATACCAA
*
32342448 ATATCATG-TAATAATATCATACC-T
1 ATATCATGCTAATAATATCATACCAA
*
32342472 ATATTATGCTAA-AATAT
1 ATATCATGCTAATAATAT
32342489 TCATGTAAGA
Statistics
Matches: 52, Mismatches: 3, Indels: 13
0.76 0.04 0.19
Matches are distributed among these distances:
20 9 0.17
21 7 0.13
22 4 0.08
23 5 0.10
24 16 0.31
25 11 0.21
ACGTcount: A:0.47, C:0.14, G:0.05, T:0.34
Consensus pattern (26 bp):
ATATCATGCTAATAATATCATACCAA
Found at i:32342536 original size:3 final size:3
Alignment explanation
Indices: 32342528--32342590 Score: 126
Period size: 3 Copynumber: 21.0 Consensus size: 3
32342518 ATTATCATGC
32342528 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
32342576 AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT
32342591 CATCATCATC
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 60 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:32342595 original size:3 final size:3
Alignment explanation
Indices: 32342589--32342614 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
32342579 AATAATAATA
32342589 ATC ATC ATC ATC ATC ATC ATC ATC AT
1 ATC ATC ATC ATC ATC ATC ATC ATC AT
32342615 GTAAATATAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.35, C:0.31, G:0.00, T:0.35
Consensus pattern (3 bp):
ATC
Found at i:32342631 original size:18 final size:18
Alignment explanation
Indices: 32342610--32342662 Score: 70
Period size: 18 Copynumber: 2.9 Consensus size: 18
32342600 CATCATCATC
*
32342610 ATCATGTAAATATATTAT
1 ATCATGCAAATATATTAT
**
32342628 ATCATGCAAATATAAAAT
1 ATCATGCAAATATATTAT
*
32342646 ACCATGCAAATATATTA
1 ATCATGCAAATATATTA
32342663 ATAACCATTC
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.49, C:0.11, G:0.06, T:0.34
Consensus pattern (18 bp):
ATCATGCAAATATATTAT
Found at i:32342666 original size:24 final size:24
Alignment explanation
Indices: 32342639--32342684 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
32342629 TCATGCAAAT
32342639 ATAA-AATACCATGCAAATATATTA
1 ATAACAAT-CCATGCAAATATATTA
* *
32342663 ATAACCATTCATGCAAATATAT
1 ATAACAATCCATGCAAATATAT
32342685 AATCATAAAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 17 0.89
25 2 0.11
ACGTcount: A:0.50, C:0.15, G:0.04, T:0.30
Consensus pattern (24 bp):
ATAACAATCCATGCAAATATATTA
Found at i:32342669 original size:20 final size:19
Alignment explanation
Indices: 32342612--32342670 Score: 68
Period size: 18 Copynumber: 3.2 Consensus size: 19
32342602 TCATCATCAT
* *
32342612 CATGTAAATATATT-ATAT
1 CATGCAAATATATTAATAC
*
32342630 CATGCAAATATA-AAATAC
1 CATGCAAATATATTAATAC
32342648 CATGCAAATATATTAATAAC
1 CATGCAAATATATTAAT-AC
32342668 CAT
1 CAT
32342671 TCATGCAAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 26 0.76
19 3 0.09
20 5 0.15
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (19 bp):
CATGCAAATATATTAATAC
Found at i:32342742 original size:54 final size:54
Alignment explanation
Indices: 32342673--32342783 Score: 213
Period size: 54 Copynumber: 2.1 Consensus size: 54
32342663 ATAACCATTC
*
32342673 ATGCAAATATATAATCATAAAATCAAATATAAGCACACAAATATATTAGTAATG
1 ATGCAAATATATAATCAAAAAATCAAATATAAGCACACAAATATATTAGTAATG
32342727 ATGCAAATATATAATCAAAAAATCAAATATAAGCACACAAATATATTAGTAATG
1 ATGCAAATATATAATCAAAAAATCAAATATAAGCACACAAATATATTAGTAATG
32342781 ATG
1 ATG
32342784 TATAATCATG
Statistics
Matches: 56, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 56 1.00
ACGTcount: A:0.54, C:0.11, G:0.08, T:0.27
Consensus pattern (54 bp):
ATGCAAATATATAATCAAAAAATCAAATATAAGCACACAAATATATTAGTAATG
Found at i:32342882 original size:25 final size:24
Alignment explanation
Indices: 32342853--32342901 Score: 80
Period size: 25 Copynumber: 2.0 Consensus size: 24
32342843 AAATAATGTG
*
32342853 ATCATGCAATAACATATAATATCAT
1 ATCATGCAATAA-ATATAAAATCAT
32342878 ATCATGCAATAAATATAAAATCAT
1 ATCATGCAATAAATATAAAATCAT
32342902 GCAATAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
24 11 0.48
25 12 0.52
ACGTcount: A:0.51, C:0.14, G:0.04, T:0.31
Consensus pattern (24 bp):
ATCATGCAATAAATATAAAATCAT
Found at i:32342942 original size:24 final size:25
Alignment explanation
Indices: 32342885--32342980 Score: 68
Period size: 28 Copynumber: 3.6 Consensus size: 25
32342875 CATATCATGC
* * *
32342885 AATAAATATA-AAATCATGCAATAA
1 AATAAATAAATAAATCATACAATCA
*
32342909 TAATAAATAAATAAATAAATAACAATGCA
1 -AATAAATAAATAAAT-CAT-ACAAT-CA
*
32342938 AATAAATATATTAATAATCATACAATCA
1 AATAAATA-AAT-A-AATCATACAATCA
*
32342966 AACAAATAAATAAAT
1 AATAAATAAATAAAT
32342981 TAATAATCAT
Statistics
Matches: 56, Mismatches: 8, Indels: 14
0.72 0.10 0.18
Matches are distributed among these distances:
25 12 0.21
26 5 0.09
27 4 0.07
28 21 0.38
29 8 0.14
30 3 0.05
31 3 0.05
ACGTcount: A:0.64, C:0.08, G:0.02, T:0.26
Consensus pattern (25 bp):
AATAAATAAATAAATCATACAATCA
Found at i:32343084 original size:55 final size:54
Alignment explanation
Indices: 32343004--32343215 Score: 244
Period size: 55 Copynumber: 3.9 Consensus size: 54
32342994 ATTAACAATG
* ** *
32343004 TAAATCATGCAAATAAACATGCAATTAAATATATAATTGTACAAATAAAAATATA
1 TAAATCATAC-AATAAACATGCAATTAAATATATAATCATACAAATAATAATATA
* * * * * * *
32343059 TAAACCATACTAATAAATATACAATTAAATATATAACCATCCAACTAATAATACA
1 TAAATCATAC-AATAAACATGCAATTAAATATATAATCATACAAATAATAATATA
* * *
32343114 TAAATCATGCAAATAAACATGCAACTAAATATATAATCATGCAAATAATAATATA
1 TAAATCATAC-AATAAACATGCAATTAAATATATAATCATACAAATAATAATATA
* * *
32343169 TAAATCATACAAAAAATATGCAATTAAATATATAATCATGCAAATAA
1 TAAATCATACAATAAACATGCAATTAAATATATAATCATACAAATAA
32343216 ATATATTAAT
Statistics
Matches: 131, Mismatches: 26, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
54 34 0.26
55 97 0.74
ACGTcount: A:0.56, C:0.13, G:0.04, T:0.28
Consensus pattern (54 bp):
TAAATCATACAATAAACATGCAATTAAATATATAATCATACAAATAATAATATA
Found at i:32343119 original size:110 final size:109
Alignment explanation
Indices: 32343004--32343203 Score: 319
Period size: 110 Copynumber: 1.8 Consensus size: 109
32342994 ATTAACAATG
* **
32343004 TAAATCATGCAAATAAACATGCAATTAAATATATAATTGTACAAATAAAAATATATAAACCATAC
1 TAAATCATGCAAATAAACATGCAACTAAATATATAATCATACAAATAAAAATATATAAACCATAC
*
32343069 TAATAAATATACAATTAAATATATAACCATCCAACTAATAATACA
66 -AAAAAATATACAATTAAATATATAACCATCCAACTAATAATACA
* * *
32343114 TAAATCATGCAAATAAACATGCAACTAAATATATAATCATGCAAATAATAATATATAAATCATAC
1 TAAATCATGCAAATAAACATGCAACTAAATATATAATCATACAAATAAAAATATATAAACCATAC
*
32343179 AAAAAATATGCAATTAAATATATAA
66 AAAAAATATACAATTAAATATATAA
32343204 TCATGCAAAT
Statistics
Matches: 82, Mismatches: 8, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
109 23 0.28
110 59 0.72
ACGTcount: A:0.56, C:0.12, G:0.04, T:0.28
Consensus pattern (109 bp):
TAAATCATGCAAATAAACATGCAACTAAATATATAATCATACAAATAAAAATATATAAACCATAC
AAAAAATATACAATTAAATATATAACCATCCAACTAATAATACA
Found at i:32343154 original size:20 final size:20
Alignment explanation
Indices: 32343126--32343221 Score: 75
Period size: 20 Copynumber: 5.1 Consensus size: 20
32343116 AATCATGCAA
* *
32343126 ATAAACATGCAACTAAATAT
1 ATAATCATGCAAATAAATAT
32343146 ATAATCATGCAAATAATAATAT
1 ATAATCATGCAAAT-A-AATAT
32343168 ATAA--AT-C--ATACAA-A-
1 ATAATCATGCAAATA-AATAT
*
32343182 A-AAT-ATGCAATTAAATAT
1 ATAATCATGCAAATAAATAT
32343200 ATAATCATGCAAATAAATAT
1 ATAATCATGCAAATAAATAT
32343220 AT
1 AT
32343222 TAATAATTAA
Statistics
Matches: 61, Mismatches: 5, Indels: 20
0.71 0.06 0.23
Matches are distributed among these distances:
13 2 0.03
14 3 0.05
15 2 0.03
16 5 0.08
17 5 0.08
18 1 0.02
19 4 0.07
20 29 0.48
21 1 0.02
22 9 0.15
ACGTcount: A:0.56, C:0.10, G:0.04, T:0.29
Consensus pattern (20 bp):
ATAATCATGCAAATAAATAT
Found at i:32343154 original size:32 final size:30
Alignment explanation
Indices: 32343116--32343216 Score: 101
Period size: 32 Copynumber: 3.5 Consensus size: 30
32343106 ATAATACATA
32343116 AATCATGCAAATAAACATGCAACTAAATATAT
1 AATCATGCAAATAAA-ATGCAA-TAAATATAT
32343148 AATCATGCAAAT--AAT--AAT--ATATA-
1 AATCATGCAAATAAAATGCAATAAATATAT
*
32343171 AATCATACAAA-AAATATGCAATTAAATATAT
1 AATCATGCAAATAAA-ATGCAA-TAAATATAT
32343202 AATCATGCAAATAAA
1 AATCATGCAAATAAA
32343217 TATATTAATA
Statistics
Matches: 57, Mismatches: 2, Indels: 20
0.72 0.03 0.25
Matches are distributed among these distances:
23 10 0.18
24 6 0.11
25 2 0.04
26 1 0.02
27 4 0.07
28 1 0.02
29 2 0.04
30 6 0.11
31 10 0.18
32 15 0.26
ACGTcount: A:0.56, C:0.12, G:0.05, T:0.27
Consensus pattern (30 bp):
AATCATGCAAATAAAATGCAATAAATATAT
Found at i:32343169 original size:22 final size:23
Alignment explanation
Indices: 32343141--32343186 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
32343131 CATGCAACTA
* *
32343141 AATATAT-AATCATGCAAATAAT
1 AATATATAAATCATACAAAAAAT
32343163 AATATATAAATCATACAAAAAAT
1 AATATATAAATCATACAAAAAAT
32343186 A
1 A
32343187 TGCAATTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 7 0.33
23 14 0.67
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (23 bp):
AATATATAAATCATACAAAAAAT
Found at i:32343227 original size:24 final size:24
Alignment explanation
Indices: 32343200--32343359 Score: 119
Period size: 24 Copynumber: 7.0 Consensus size: 24
32343190 AATTAAATAT
32343200 ATAATCATGCAAATAAATATATTA
1 ATAATCATGCAAATAAATATATTA
* ** *
32343224 ATAATTAAACAATTAAATATATTA
1 ATAATCATGCAAATAAATATATTA
*
32343248 ATAATCATGC-AATCAAAT-TA-AA
1 ATAATCATGCAAAT-AAATATATTA
* *
32343270 TATAATTATACAAATAAATATATTA
1 -ATAATCATGCAAATAAATATATTA
32343295 ATAATCATGC----AAATATATTA
1 ATAATCATGCAAATAAATATATTA
*
32343315 ATAAATCA--CAGAATAGATATA-T-
1 AT-AATCATGCA-AATAAATATATTA
*
32343337 -TAATCATGCAAACAAATATATTA
1 ATAATCATGCAAATAAATATATTA
32343360 GGTAATTAAA
Statistics
Matches: 104, Mismatches: 17, Indels: 31
0.68 0.11 0.20
Matches are distributed among these distances:
19 1 0.01
20 17 0.16
21 14 0.13
22 4 0.04
23 17 0.16
24 50 0.48
25 1 0.01
ACGTcount: A:0.54, C:0.09, G:0.04, T:0.33
Consensus pattern (24 bp):
ATAATCATGCAAATAAATATATTA
Found at i:32343308 original size:20 final size:20
Alignment explanation
Indices: 32343285--32343348 Score: 69
Period size: 20 Copynumber: 3.1 Consensus size: 20
32343275 TTATACAAAT
32343285 AAATATATTAATAATCATGC
1 AAATATATTAATAATCATGC
32343305 AAATATATTAATAAATCA--C
1 AAATATATTAAT-AATCATGC
* *
32343324 AGAATAGATATATTAATCATGC
1 A-AATATAT-TAATAATCATGC
32343346 AAA
1 AAA
32343349 CAAATATATT
Statistics
Matches: 37, Mismatches: 2, Indels: 9
0.77 0.04 0.19
Matches are distributed among these distances:
19 2 0.05
20 23 0.62
21 10 0.27
22 2 0.05
ACGTcount: A:0.53, C:0.09, G:0.06, T:0.31
Consensus pattern (20 bp):
AAATATATTAATAATCATGC
Found at i:32343315 original size:47 final size:47
Alignment explanation
Indices: 32343200--32343315 Score: 146
Period size: 47 Copynumber: 2.4 Consensus size: 47
32343190 AATTAAATAT
* * *
32343200 ATAATCATGCAAATAAATATATTAATAATTAAACAATTAAATATATTA
1 ATAATCATGCAAATAATTA-AATAATAATTAAACAAATAAATATATTA
*
32343248 ATAATCATGC-AATCAAATTAAAT-ATAATTATACAAATAAATATATTA
1 ATAATCATGCAAAT--AATTAAATAATAATTAAACAAATAAATATATTA
32343295 ATAATCATGCAAATATATTAA
1 ATAATCATGCAAATA-ATTAA
32343316 TAAATCACAG
Statistics
Matches: 60, Mismatches: 4, Indels: 9
0.82 0.05 0.12
Matches are distributed among these distances:
46 1 0.02
47 40 0.67
48 15 0.25
49 4 0.07
ACGTcount: A:0.55, C:0.08, G:0.03, T:0.34
Consensus pattern (47 bp):
ATAATCATGCAAATAATTAAATAATAATTAAACAAATAAATATATTA
Found at i:32346139 original size:20 final size:20
Alignment explanation
Indices: 32346114--32346154 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
32346104 GTAGCCATTT
32346114 TTTCTTTCTTT-TTATTTCTC
1 TTTCTTTCTTTATT-TTTCTC
32346134 TTTCTTTCTTTATTTTTCTC
1 TTTCTTTCTTTATTTTTCTC
32346154 T
1 T
32346155 AAAATTACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 18 0.90
21 2 0.10
ACGTcount: A:0.05, C:0.20, G:0.00, T:0.76
Consensus pattern (20 bp):
TTTCTTTCTTTATTTTTCTC
Found at i:32355110 original size:41 final size:41
Alignment explanation
Indices: 32355047--32355127 Score: 126
Period size: 41 Copynumber: 2.0 Consensus size: 41
32355037 ATACAGTGCC
* * *
32355047 TTAATTTGAAACGGTCGGTAGTCTATCATATGAAGTTGGCT
1 TTAATTTGAAAAGCTCGGTAGTCTATCATATAAAGTTGGCT
*
32355088 TTAATTTGAAAAGCTCGTTAGTCTATCATATAAAGTTGGC
1 TTAATTTGAAAAGCTCGGTAGTCTATCATATAAAGTTGGC
32355128 ATTATATACT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
41 36 1.00
ACGTcount: A:0.30, C:0.12, G:0.21, T:0.37
Consensus pattern (41 bp):
TTAATTTGAAAAGCTCGGTAGTCTATCATATAAAGTTGGCT
Found at i:32368048 original size:21 final size:21
Alignment explanation
Indices: 32367987--32368050 Score: 58
Period size: 21 Copynumber: 3.0 Consensus size: 21
32367977 AAAATATTAA
*
32367987 TTTTAATAA-AATTTATTATTATT
1 TTTTAATAACAA-TTA-TAATA-T
* *
32368010 TTTTAATAATAATAATAATAT
1 TTTTAATAACAATTATAATAT
*
32368031 TTTTAATTACAATTATAATA
1 TTTTAATAACAATTATAATA
32368051 AATATATATT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 18 0.51
22 4 0.11
23 11 0.31
24 2 0.06
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (21 bp):
TTTTAATAACAATTATAATAT
Found at i:32374067 original size:20 final size:21
Alignment explanation
Indices: 32374031--32374082 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
32374021 CCCGAAATTA
32374031 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTA-TTTTTAAAAT
*
32374053 ATAAAATATTATTTTTTAAAT
1 ATAAAATATTATTTTTAAAAT
32374074 AT-AAATATT
1 ATAAAATATT
32374083 TAAAAATATC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 7 0.24
21 11 0.38
22 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (21 bp):
ATAAAATATTATTTTTAAAAT
Found at i:32374073 original size:21 final size:22
Alignment explanation
Indices: 32374031--32374082 Score: 90
Period size: 22 Copynumber: 2.5 Consensus size: 22
32374021 CCCGAAATTA
32374031 ATAAAATATTATTTTTTAAAAT
1 ATAAAATATTATTTTTTAAAAT
32374053 ATAAAATATTATTTTTT-AAAT
1 ATAAAATATTATTTTTTAAAAT
32374074 AT-AAATATT
1 ATAAAATATT
32374083 TAAAAATATC
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
20 7 0.23
21 6 0.20
22 17 0.57
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (22 bp):
ATAAAATATTATTTTTTAAAAT
Found at i:32374118 original size:30 final size:30
Alignment explanation
Indices: 32374050--32374119 Score: 77
Period size: 30 Copynumber: 2.3 Consensus size: 30
32374040 TATTTTTTAA
* * * *
32374050 AATATAAAATATTATTTTTTAAATATAAAT
1 AATAAAAAATATCATTATATAAATATAAAT
* * *
32374080 ATTTAAAAATATCATTATATAAATATATAT
1 AATAAAAAATATCATTATATAAATATAAAT
32374110 AATAAAAAAT
1 AATAAAAAAT
32374120 TAAATAATTA
Statistics
Matches: 31, Mismatches: 9, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.57, C:0.01, G:0.00, T:0.41
Consensus pattern (30 bp):
AATAAAAAATATCATTATATAAATATAAAT
Found at i:32374125 original size:21 final size:20
Alignment explanation
Indices: 32374099--32374139 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 20
32374089 TATCATTATA
32374099 TAAATATATATAA-TAAAAAAT
1 TAAATA-AT-TAATTAAAAAAT
32374120 TAAATAATTAATTAAAAAAT
1 TAAATAATTAATTAAAAAAT
32374140 AATTTTTTAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
19 3 0.16
20 10 0.53
21 6 0.32
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (20 bp):
TAAATAATTAATTAAAAAAT
Found at i:32380138 original size:2 final size:2
Alignment explanation
Indices: 32380131--32380165 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
32380121 TACAGATGAT
32380131 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
32380166 TCCACTGTCA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:32394206 original size:62 final size:63
Alignment explanation
Indices: 32394089--32394230 Score: 153
Period size: 62 Copynumber: 2.3 Consensus size: 63
32394079 TTTCAAATAG
* * * * * *
32394089 AAATGCCTTAAATAATCTTGTGATATTTTTAAAAGGAGATTATTTATGACGTTTTT-GTTAAA
1 AAATACCTTAAATAATCTTATGATATTTTTAAAAGGAGATTATCTAAGACATTTTTCATTAAA
* ** * *
32394151 AAATACCTTAAATAATCTTATTATATTTTTTAAAAGGA-ATTATCTAAGGTATTTTTCATTTAG
1 AAATACCTTAAATAATCTTATGATA-TTTTTAAAAGGAGATTATCTAAGACATTTTTCATTAAA
*
32394214 AAACACCTTAAATAATC
1 AAATACCTTAAATAATC
32394231 CATTTAAAAA
Statistics
Matches: 66, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
62 35 0.53
63 31 0.47
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (63 bp):
AAATACCTTAAATAATCTTATGATATTTTTAAAAGGAGATTATCTAAGACATTTTTCATTAAA
Found at i:32399118 original size:8 final size:8
Alignment explanation
Indices: 32399107--32399148 Score: 59
Period size: 8 Copynumber: 5.4 Consensus size: 8
32399097 AATTAATTAA
32399107 TTATATAT
1 TTATATAT
*
32399115 TTATATAA
1 TTATATAT
32399123 TTATATAT
1 TTATATAT
*
32399131 TTAAATAT
1 TTATATAT
32399139 TTATAT-T
1 TTATATAT
32399146 TTA
1 TTA
32399149 AAAAATAGTA
Statistics
Matches: 30, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
7 4 0.13
8 26 0.87
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (8 bp):
TTATATAT
Found at i:32399123 original size:16 final size:16
Alignment explanation
Indices: 32399099--32399150 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
32399089 AATTAATTAA
*
32399099 TTAATTAATTATATAT
1 TTAAATAATTATATAT
*
32399115 TTATATAATTATATAT
1 TTAAATAATTATATAT
*
32399131 TTAAATATTTATAT-T
1 TTAAATAATTATATAT
32399146 TTAAA
1 TTAAA
32399151 AAATAGTATT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
15 6 0.19
16 26 0.81
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAAATAATTATATAT
Found at i:32399125 original size:24 final size:24
Alignment explanation
Indices: 32399096--32399144 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 24
32399086 TTTAATTAAT
*
32399096 TAATTA-ATTAATTATATATTTATA
1 TAATTATA-TAATTAAATATTTATA
*
32399120 TAATTATATATTTAAATATTTATA
1 TAATTATATAATTAAATATTTATA
32399144 T
1 T
32399145 TTTAAAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
24 21 0.95
25 1 0.05
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (24 bp):
TAATTATATAATTAAATATTTATA
Found at i:32408388 original size:24 final size:23
Alignment explanation
Indices: 32408360--32408404 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
32408350 ATTTAATATT
32408360 ATTAAATCAATAATTTATAAAATA
1 ATTAAA-CAATAATTTATAAAATA
* *
32408384 ATTAAACATTATTTTATAAAA
1 ATTAAACAATAATTTATAAAA
32408405 AACAAAAAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 13 0.68
24 6 0.32
ACGTcount: A:0.56, C:0.04, G:0.00, T:0.40
Consensus pattern (23 bp):
ATTAAACAATAATTTATAAAATA
Found at i:32411079 original size:17 final size:18
Alignment explanation
Indices: 32411059--32411092 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
32411049 AGTTTAATAA
32411059 ATAATTAAATT-TATTTG
1 ATAATTAAATTATATTTG
*
32411076 ATAATTTAATTATATTT
1 ATAATTAAATTATATTT
32411093 ATCATAAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 10 0.67
18 5 0.33
ACGTcount: A:0.41, C:0.00, G:0.03, T:0.56
Consensus pattern (18 bp):
ATAATTAAATTATATTTG
Found at i:32412496 original size:24 final size:24
Alignment explanation
Indices: 32412469--32412556 Score: 58
Period size: 24 Copynumber: 3.6 Consensus size: 24
32412459 CTTATCACTG
32412469 ATTTTAATCTTATCATTACAATAT
1 ATTTTAATCTTATCATTACAATAT
* * *
32412493 A-TTTAAT-TTATTACTATAATAATT
1 ATTTTAATCTTATCATTACAAT-A-T
*
32412517 AATTTT-ATCATTATCATTATCATTAT
1 -ATTTTAATC-TTATCATTA-CAATAT
*
32412543 -TTTTAATTTTATCA
1 ATTTTAATCTTATCA
32412557 AAATTAATTT
Statistics
Matches: 48, Mismatches: 8, Indels: 16
0.67 0.11 0.22
Matches are distributed among these distances:
22 10 0.21
23 7 0.15
24 12 0.25
25 5 0.10
26 4 0.08
27 8 0.17
28 2 0.04
ACGTcount: A:0.36, C:0.09, G:0.00, T:0.55
Consensus pattern (24 bp):
ATTTTAATCTTATCATTACAATAT
Found at i:32419539 original size:17 final size:17
Alignment explanation
Indices: 32419519--32419552 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
32419509 ATGTAAAAAA
*
32419519 AAAAAAAAGATAAAGAT
1 AAAAAAAAGAAAAAGAT
*
32419536 AAAAAGAAGAAAAAGAT
1 AAAAAAAAGAAAAAGAT
32419553 TACCACTCCA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (17 bp):
AAAAAAAAGAAAAAGAT
Found at i:32420415 original size:102 final size:99
Alignment explanation
Indices: 32420303--32420506 Score: 257
Period size: 102 Copynumber: 2.0 Consensus size: 99
32420293 TTCTTGATAA
* * * * * *
32420303 TATGTCAAATACAAAATATATTTTTTTAGTTTTTATAAAATTTATATATATTTTTTAT-AAGAAT
1 TATGTCAAATACAAAACACATGTTTTTAGCTTTTATAAAATTCACATATATTTTTTATGAA-AAT
*
32420367 TTTAAATCATATTATTTTAATATGTTTTTAATTGTTTT
65 TTTAAATCATATTATTTT-AT-T-TTTTTAATTATTTT
* * *
32420405 TATGTTAAATACAAAACACATGTTTTTAGCTTTTATCAAATTCACATATTTTTTTTATGAAAATT
1 TATGTCAAATACAAAACACATGTTTTTAGCTTTTATAAAATTCACATATATTTTTTATGAAAATT
* *
32420470 TTAAATTATATTGTTTTATTTTTTTAATTATTTT
66 TTAAATCATATTATTTTATTTTTTTAATTATTTT
32420504 TAT
1 TAT
32420507 ATTATATTAT
Statistics
Matches: 89, Mismatches: 12, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
99 16 0.18
100 1 0.01
101 2 0.02
102 68 0.76
103 2 0.02
ACGTcount: A:0.35, C:0.05, G:0.05, T:0.55
Consensus pattern (99 bp):
TATGTCAAATACAAAACACATGTTTTTAGCTTTTATAAAATTCACATATATTTTTTATGAAAATT
TTAAATCATATTATTTTATTTTTTTAATTATTTT
Found at i:32420643 original size:23 final size:23
Alignment explanation
Indices: 32420616--32420662 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 23
32420606 AAGAGACAAC
32420616 AAAAC-AGATGTCAAGAATCGATT
1 AAAACAAG-TGTCAAGAATCGATT
32420639 AAAACAAGTGTCAAGAATCGATT
1 AAAACAAGTGTCAAGAATCGATT
32420662 A
1 A
32420663 GAAGTATAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
23 21 0.91
24 2 0.09
ACGTcount: A:0.49, C:0.13, G:0.17, T:0.21
Consensus pattern (23 bp):
AAAACAAGTGTCAAGAATCGATT
Found at i:32420745 original size:2 final size:2
Alignment explanation
Indices: 32420738--32420767 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
32420728 CTTTTGCTTT
32420738 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
32420768 AATAAAGCAC
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:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32421214 original size:1 final size:1
Alignment explanation
Indices: 32421210--32421237 Score: 56
Period size: 1 Copynumber: 28.0 Consensus size: 1
32421200 TTCAAAAGAT
32421210 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAA
32421238 CTCTTGCCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 27 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:32423298 original size:20 final size:20
Alignment explanation
Indices: 32423273--32423313 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
32423263 AATATTCAAT
32423273 TCATGAATCATGATATAATG
1 TCATGAATCATGATATAATG
32423293 TCATGAATCATGATATAATG
1 TCATGAATCATGATATAATG
32423313 T
1 T
32423314 TTGTAAGTAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.10, G:0.15, T:0.37
Consensus pattern (20 bp):
TCATGAATCATGATATAATG
Found at i:32428721 original size:27 final size:28
Alignment explanation
Indices: 32428674--32428728 Score: 69
Period size: 27 Copynumber: 2.0 Consensus size: 28
32428664 TATATAATAG
*
32428674 ATTTTTTATTAAATAATATAAAT-TATT
1 ATTTTATATTAAATAATATAAATATATT
*
32428701 ATTTTATATTAATTAGA-ATAAATATATT
1 ATTTTATATTAAATA-ATATAAATATATT
32428729 TCTATTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
27 19 0.79
28 5 0.21
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
ATTTTATATTAAATAATATAAATATATT
Found at i:32432720 original size:17 final size:17
Alignment explanation
Indices: 32432686--32432728 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
32432676 AAAGTTAAAA
*
32432686 AAAAGAAACAAAATAAG
1 AAAAGAAAGAAAATAAG
32432703 AAAAGAAAGAAACA-AAG
1 AAAAGAAAGAAA-ATAAG
*
32432720 AAGAGAAAG
1 AAAAGAAAG
32432729 CCGAAAACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 22 0.96
18 1 0.04
ACGTcount: A:0.74, C:0.05, G:0.19, T:0.02
Consensus pattern (17 bp):
AAAAGAAAGAAAATAAG
Found at i:32432728 original size:21 final size:21
Alignment explanation
Indices: 32432682--32432728 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
32432672 TAATAAAGTT
* *
32432682 AAAAAAAAGAAACAAAATAAG
1 AAAAGAAAGAAACAAAAGAAG
32432703 AAAAGAAAGAAAC-AAAGAAG
1 AAAAGAAAGAAACAAAAGAAG
32432723 AGAAAG
1 A-AAAG
32432729 CCGAAAACAG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.77, C:0.04, G:0.17, T:0.02
Consensus pattern (21 bp):
AAAAGAAAGAAACAAAAGAAG
Found at i:32438312 original size:4 final size:4
Alignment explanation
Indices: 32438303--32438343 Score: 73
Period size: 4 Copynumber: 10.2 Consensus size: 4
32438293 TCCATATTTA
*
32438303 TATC TATC TATC TATC TATT TATC TATC TATC TATC TATC T
1 TATC TATC TATC TATC TATC TATC TATC TATC TATC TATC T
32438344 GTATTTAACC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
4 35 1.00
ACGTcount: A:0.24, C:0.22, G:0.00, T:0.54
Consensus pattern (4 bp):
TATC
Found at i:32438964 original size:18 final size:17
Alignment explanation
Indices: 32438941--32438983 Score: 61
Period size: 18 Copynumber: 2.5 Consensus size: 17
32438931 ATTTATCAGA
*
32438941 TATATTTTAATATTTTAT
1 TATATTTAAATATTTT-T
32438959 TATATTTAAATATTTTT
1 TATATTTAAATATTTTT
32438976 TAT-TTTAA
1 TATATTTAA
32438984 TTATCTCTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
16 5 0.21
17 4 0.17
18 15 0.62
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (17 bp):
TATATTTAAATATTTTT
Done.