Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167949.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_21, 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: 19848060
ACGTcount: A:0.31, C:0.19, G:0.19, T:0.31
Warning! 113000 characters in sequence are not A, C, G, or T
File 24 of 138
Found at i:6224039 original size:28 final size:28
Alignment explanation
Indices: 6223985--6224039 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
6223975 GTCGACTGTT
* * *
6223985 TTAGGCTTCCAATAAGAGCAGTCGATTA
1 TTAGGCTTCCAAGAAAAGCAATCGATTA
*
6224013 TTAGGCTTCCAAGAAAAGCAATTGATT
1 TTAGGCTTCCAAGAAAAGCAATCGATT
6224040 GCCAAGGCAT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.35, C:0.16, G:0.20, T:0.29
Consensus pattern (28 bp):
TTAGGCTTCCAAGAAAAGCAATCGATTA
Found at i:6228578 original size:7 final size:7
Alignment explanation
Indices: 6228566--6228591 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6228556 ATAGGACAAA
6228566 TAAATTT
1 TAAATTT
6228573 TAAATTT
1 TAAATTT
6228580 TAAATTT
1 TAAATTT
6228587 TAAAT
1 TAAAT
6228592 AATTATGAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (7 bp):
TAAATTT
Found at i:6229744 original size:23 final size:24
Alignment explanation
Indices: 6229696--6229758 Score: 76
Period size: 23 Copynumber: 2.7 Consensus size: 24
6229686 TATTTAATAT
*
6229696 TTAAATAATAATAATATTATTAAA
1 TTAAATATTAATAATATTATTAAA
* *
6229720 TTAAATATTAA-AATATTCTTCAA
1 TTAAATATTAATAATATTATTAAA
6229743 TT-AATATTTAATAATA
1 TTAAATA-TTAATAATA
6229759 ACAATAACAT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
22 4 0.12
23 16 0.47
24 14 0.41
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.44
Consensus pattern (24 bp):
TTAAATATTAATAATATTATTAAA
Found at i:6229974 original size:11 final size:11
Alignment explanation
Indices: 6229928--6229983 Score: 51
Period size: 11 Copynumber: 5.2 Consensus size: 11
6229918 TTAAAAATTA
*
6229928 AAATAATACTG
1 AAATAATACTT
*
6229939 AAATATTA-TT
1 AAATAATACTT
* *
6229949 AAATAACACTA
1 AAATAATACTT
*
6229960 AAATAATATTT
1 AAATAATACTT
*
6229971 AAATAATATTT
1 AAATAATACTT
6229982 AA
1 AA
6229984 TATTCAAGTA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
10 7 0.19
11 29 0.81
ACGTcount: A:0.57, C:0.05, G:0.02, T:0.36
Consensus pattern (11 bp):
AAATAATACTT
Found at i:6229986 original size:18 final size:18
Alignment explanation
Indices: 6229963--6229998 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
6229953 AACACTAAAA
*
6229963 TAATATTTAAATAATATT
1 TAATATTCAAATAATATT
*
6229981 TAATATTCAAGTAATATT
1 TAATATTCAAATAATATT
6229999 AAAACAATAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (18 bp):
TAATATTCAAATAATATT
Found at i:6230042 original size:22 final size:21
Alignment explanation
Indices: 6229888--6230115 Score: 111
Period size: 21 Copynumber: 11.2 Consensus size: 21
6229878 TTTCATGACC
*
6229888 AATAATATTAAAATATTACTCA
1 AATAATATTAAAATATTA-TTA
* *
6229910 ATTAATTTTTAAAA-ATTA--A
1 AATAA-TATTAAAATATTATTA
* *
6229929 AATAATACTGAAATATTATTA
1 AATAATATTAAAATATTATTA
* * *
6229950 AATAACACTAAAATAATATTTA
1 AATAATATTAAAATATTA-TTA
* *
6229972 AATAATATT-TAATA-T-TCA
1 AATAATATTAAAATATTATTA
* * *
6229990 AGTAATATTAAAACAATA-T-
1 AATAATATTAAAATATTATTA
* * *
6230009 GA-AACATTAAAATATCATTAA
1 AATAATATTAAAATATTATT-A
*
6230030 AATAATATTAAAATGTTATTA
1 AATAATATTAAAATATTATTA
* *
6230051 AATAAAATTAAAATATTATCCA
1 AATAATATTAAAATATTAT-TA
* *
6230073 AATAATACT-AAATA-T-TGA
1 AATAATATTAAAATATTATTA
* * *
6230091 AATATTATTAAATTATTATTT
1 AATAATATTAAAATATTATTA
6230112 AATA
1 AATA
6230116 TTATAGTAAT
Statistics
Matches: 152, Mismatches: 38, Indels: 33
0.68 0.17 0.15
Matches are distributed among these distances:
18 34 0.22
19 18 0.12
20 4 0.03
21 49 0.32
22 40 0.26
23 7 0.05
ACGTcount: A:0.54, C:0.05, G:0.02, T:0.38
Consensus pattern (21 bp):
AATAATATTAAAATATTATTA
Found at i:6230107 original size:11 final size:10
Alignment explanation
Indices: 6230018--6230119 Score: 55
Period size: 11 Copynumber: 9.9 Consensus size: 10
6230008 TGAAACATTA
*
6230018 AAATATCATT
1 AAATATTATT
*
6230028 AAAATAATATT
1 -AAATATTATT
*
6230039 AAAATGTTATT
1 -AAATATTATT
**
6230050 AAATAAAATT
1 AAATATTATT
*
6230060 AAAATATTATCC
1 -AAATATTAT-T
* *
6230072 AAATAATACT
1 AAATATTATT
*
6230082 AAATA-T-TG
1 AAATATTATT
6230090 AAATATTATT
1 AAATATTATT
6230100 AAATTATTATT
1 AAA-TATTATT
*
6230111 TAATATTAT
1 AAATATTAT
6230120 AGTAATATTA
Statistics
Matches: 69, Mismatches: 17, Indels: 11
0.71 0.18 0.11
Matches are distributed among these distances:
8 5 0.07
9 2 0.03
10 22 0.32
11 40 0.58
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.41
Consensus pattern (10 bp):
AAATATTATT
Found at i:6230258 original size:11 final size:11
Alignment explanation
Indices: 6230242--6230312 Score: 83
Period size: 11 Copynumber: 6.5 Consensus size: 11
6230232 ACATTTCATT
*
6230242 TTAAAATATTA
1 TTAAAATAATA
6230253 TTAAAATAATA
1 TTAAAATAATA
6230264 -TAAAA-ACATA
1 TTAAAATA-ATA
*
6230274 TTAAAATATTA
1 TTAAAATAATA
6230285 TTAAAATAATA
1 TTAAAATAATA
*
6230296 TTAAAACAATA
1 TTAAAATAATA
6230307 TATAAA
1 T-TAAA
6230313 TATCATTAAC
Statistics
Matches: 52, Mismatches: 4, Indels: 7
0.83 0.06 0.11
Matches are distributed among these distances:
9 1 0.02
10 8 0.15
11 38 0.73
12 5 0.10
ACGTcount: A:0.62, C:0.03, G:0.00, T:0.35
Consensus pattern (11 bp):
TTAAAATAATA
Found at i:6230278 original size:32 final size:31
Alignment explanation
Indices: 6230242--6230321 Score: 115
Period size: 32 Copynumber: 2.5 Consensus size: 31
6230232 ACATTTCATT
6230242 TTAAAATATTATTAAAATAATATAAAAACATA
1 TTAAAATATTATTAAAATAATATAAAAACA-A
*
6230274 TTAAAATATTATTAAAATAATATTAAAACAA
1 TTAAAATATTATTAAAATAATATAAAAACAA
*
6230305 TATATAAATATCATTAA
1 T-TA-AAATATTATTAA
6230322 CCTAATATTA
Statistics
Matches: 44, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
31 2 0.05
32 31 0.70
33 11 0.25
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (31 bp):
TTAAAATATTATTAAAATAATATAAAAACAA
Found at i:6230320 original size:22 final size:21
Alignment explanation
Indices: 6230245--6230321 Score: 75
Period size: 22 Copynumber: 3.5 Consensus size: 21
6230235 TTTCATTTTA
*
6230245 AAATATTATTAAAATAATATAA
1 AAATA-TATTAAAATAATATAT
* *
6230267 AAACATATTAAAATATTAT-T
1 AAATATATTAAAATAATATAT
*
6230287 AAAATAATATTAAAACAATATAT
1 -AAAT-ATATTAAAATAATATAT
6230310 AAATATCATTAA
1 AAATAT-ATTAA
6230322 CCTAATATTA
Statistics
Matches: 45, Mismatches: 6, Indels: 8
0.76 0.10 0.14
Matches are distributed among these distances:
21 18 0.40
22 26 0.58
23 1 0.02
ACGTcount: A:0.61, C:0.04, G:0.00, T:0.35
Consensus pattern (21 bp):
AAATATATTAAAATAATATAT
Found at i:6230349 original size:21 final size:21
Alignment explanation
Indices: 6230324--6230619 Score: 290
Period size: 21 Copynumber: 14.5 Consensus size: 21
6230314 ATCATTAACC
* *
6230324 TAATATTATTAAATTTAGATT
1 TAATATTATTAAATTAATATT
* * *
6230345 TAATATTATCATATTAGTATT
1 TAATATTATTAAATTAATATT
* *
6230366 TAATATTTTTAAATCAATATT
1 TAATATTATTAAATTAATATT
*
6230387 TAATATTAAT-AATTCAATATT
1 TAATATTATTAAATT-AATATT
* * * *
6230408 CAATTTTTTTAAATTAAAATT
1 TAATATTATTAAATTAATATT
*
6230429 T-ATA-TGTTAAATTAATA-T
1 TAATATTATTAAATTAATATT
*
6230447 T--TATTATTATATTAATATT
1 TAATATTATTAAATTAATATT
*
6230466 TAATATTATTCAA-TAATATT
1 TAATATTATTAAATTAATATT
* *
6230486 TAACATTATTAAATTAATAGT
1 TAATATTATTAAATTAATATT
*
6230507 TAATATTATTAAATTAATAAT
1 TAATATTATTAAATTAATATT
* * *
6230528 TAATAATATGAAATTAACATT
1 TAATATTATTAAATTAATATT
6230549 TAATATTATTAAATTAAT-TT
1 TAATATTATTAAATTAATATT
*
6230569 TGAATATTATT-AATTAATAAT
1 T-AATATTATTAAATTAATATT
*
6230590 TAATATTATTAAATTAGTA--
1 TAATATTATTAAATTAATATT
6230609 TAATATTATTA
1 TAATATTATTA
6230620 TTATTTTATT
Statistics
Matches: 225, Mismatches: 40, Indels: 22
0.78 0.14 0.08
Matches are distributed among these distances:
17 2 0.01
18 13 0.06
19 24 0.11
20 42 0.19
21 140 0.62
22 4 0.02
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (21 bp):
TAATATTATTAAATTAATATT
Found at i:6230480 original size:10 final size:10
Alignment explanation
Indices: 6230448--6230656 Score: 59
Period size: 10 Copynumber: 21.4 Consensus size: 10
6230438 AATTAATATT
*
6230448 TATTATTATAT
1 TATTATT-TAA
*
6230459 TAATATTTAA
1 TATTATTTAA
*
6230469 TATTATTCAA
1 TATTATTTAA
*
6230479 TAATATTTAA
1 TATTATTTAA
* *
6230489 CATTATTAAA
1 TATTATTTAA
* *
6230499 TTAATAGTTAA
1 -TATTATTTAA
*
6230510 TATTATTAAA
1 TATTATTTAA
* *
6230520 TTAATAATTAA
1 -TATTATTTAA
* **
6230531 TAATATGAAA
1 TATTATTTAA
**
6230541 TTAACATTTAA
1 -TATTATTTAA
6230552 TATTA-TTAA
1 TATTATTTAA
6230561 -ATTAATTTTGAA
1 TATT-A-TTT-AA
6230573 TATTA-TTAA
1 TATTATTTAA
* *
6230582 TTAATAATTAA
1 -TATTATTTAA
6230593 TATTA-TTAA
1 TATTATTTAA
*
6230602 -ATTAGTATAA
1 TATTA-TTTAA
6230612 TATTA--T--
1 TATTATTTAA
6230618 TATTATTT--
1 TATTATTTAA
6230626 TATTATTT-A
1 TATTATTTAA
6230635 T-TTATTT-A
1 TATTATTTAA
*
6230643 TATTAATTAA
1 TATTATTTAA
6230653 TATT
1 TATT
6230657 TTTTTATAAT
Statistics
Matches: 149, Mismatches: 31, Indels: 37
0.69 0.14 0.17
Matches are distributed among these distances:
6 5 0.03
8 25 0.17
9 17 0.11
10 60 0.40
11 36 0.24
12 3 0.02
13 3 0.02
ACGTcount: A:0.44, C:0.01, G:0.02, T:0.52
Consensus pattern (10 bp):
TATTATTTAA
Found at i:6230528 original size:7 final size:7
Alignment explanation
Indices: 6230497--6230594 Score: 53
Period size: 7 Copynumber: 14.1 Consensus size: 7
6230487 AACATTATTA
6230497 AATTAAT
1 AATTAAT
*
6230504 AGTTAAT
1 AATTAAT
*
6230511 -ATTATT
1 AATTAAT
6230517 AAATTAAT
1 -AATTAAT
6230525 AATTAAT
1 AATTAAT
*
6230532 AATATGA-
1 AAT-TAAT
*
6230539 AATTAAC
1 AATTAAT
*
6230546 ATTTAAT
1 AATTAAT
*
6230553 -ATTATT
1 AATTAAT
6230559 AAATTAAT
1 -AATTAAT
*
6230567 -TTTGAAT
1 AATT-AAT
*
6230574 -ATTATT
1 AATTAAT
6230580 AATTAAT
1 AATTAAT
6230587 AATTAAT
1 AATTAAT
6230594 A
1 A
6230595 TTATTAAATT
Statistics
Matches: 68, Mismatches: 15, Indels: 16
0.69 0.15 0.16
Matches are distributed among these distances:
6 14 0.21
7 42 0.62
8 12 0.18
ACGTcount: A:0.50, C:0.01, G:0.03, T:0.46
Consensus pattern (7 bp):
AATTAAT
Found at i:6230648 original size:83 final size:82
Alignment explanation
Indices: 6230381--6230650 Score: 243
Period size: 83 Copynumber: 3.3 Consensus size: 82
6230371 TTTTTAAATC
* * ** * * *
6230381 AATATTTAATATTA-ATAATTCAATATTCAATTTTTTTAAATTAA-AATTTATA-TGTTAAATTA
1 AATATTTAATATTATTTAATT-AAT-TTTAACATTATTAAATTAATAATTAATATTATTAAATTA
6230443 AT-AT-TTATTATTATATT
64 ATAATATTATTATTATATT
* *
6230460 AATATTTAATATTATTCAA-TAATATTTAACATTATTAAATTAATAGTTAATATTATTAAATTAA
1 AATATTTAATATTATTTAATTAAT-TTTAACATTATTAAATTAATAATTAATATTATTAAATTAA
* * * *
6230524 TAATTAATAATATGAAATT
65 TAA-TATTATTATTATATT
* * *
6230543 AACATTTAATATTATTAAATTAATTTTGAATATTATT-AATTAATAATTAATATTATTAAATTAG
1 AATATTTAATATTATTTAATTAATTTT-AACATTATTAAATTAATAATTAATATTATTAAATTA-
*
6230607 TATAATATTATTATTATTTT
64 -ATAATATTATTATTATATT
*
6230627 ATTATTT-AT-TTATTTATATTAATT
1 AATATTTAATATTATTTA-ATTAATT
6230651 AATATTTTTT
Statistics
Matches: 155, Mismatches: 25, Indels: 18
0.78 0.13 0.09
Matches are distributed among these distances:
78 19 0.12
79 21 0.14
80 13 0.08
81 1 0.01
82 7 0.05
83 63 0.41
84 27 0.17
85 4 0.03
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.52
Consensus pattern (82 bp):
AATATTTAATATTATTTAATTAATTTTAACATTATTAAATTAATAATTAATATTATTAAATTAAT
AATATTATTATTATATT
Found at i:6230648 original size:104 final size:103
Alignment explanation
Indices: 6230324--6230619 Score: 268
Period size: 104 Copynumber: 2.9 Consensus size: 103
6230314 ATCATTAACC
* * * * * * * * * *
6230324 TAATATTATTAAATTTAGATTTAATATTATCATATTAGTATTTAATATTTTTAAATCAATATTTA
1 TAATAATATGAAATTAACATTTAATATTATTAAATTAATATTTAATATTATTCAAT-AATAATTA
* * * * *
6230389 ATATTAAT-AATTCAATATTCAATTTTTTTAAATTAA-AAT
65 ACATTATTAAATT-AATAGT-AATATTATTAAATTAATAAT
* * * * * *
6230428 TTAT-ATGTTAAATTAATA-TT--TATTATTATATTAATATTTAATATTATTCAATAATATTTAA
1 TAATAATATGAAATTAACATTTAATATTATTAAATTAATATTTAATATTATTCAATAATAATTAA
6230489 CATTATTAAATTAATAGTTAATATTATTAAATTAATAAT
66 CATTATTAAATTAATAG-TAATATTATTAAATTAATAAT
6230528 TAATAATATGAAATTAACATTTAATATTATTAAATTAAT-TTTGAATATTATT-AATTAATAATT
1 TAATAATATGAAATTAACATTTAATATTATTAAATTAATATTT-AATATTATTCAA-TAATAATT
* *
6230591 AATATTATTAAATTAGTA-TAATATTATTA
64 AACATTATTAAATTAATAGTAATATTATTA
6230620 TTATTTTATT
Statistics
Matches: 161, Mismatches: 22, Indels: 20
0.79 0.11 0.10
Matches are distributed among these distances:
99 32 0.20
100 39 0.24
101 11 0.07
102 15 0.09
103 15 0.09
104 49 0.30
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.50
Consensus pattern (103 bp):
TAATAATATGAAATTAACATTTAATATTATTAAATTAATATTTAATATTATTCAATAATAATTAA
CATTATTAAATTAATAGTAATATTATTAAATTAATAAT
Found at i:6235062 original size:3 final size:3
Alignment explanation
Indices: 6235054--6235105 Score: 95
Period size: 3 Copynumber: 17.0 Consensus size: 3
6235044 ATAATCATAA
6235054 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATTT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT ATT ATT
6235100 ATT ATT
1 ATT ATT
6235106 TCTTCCATTT
Statistics
Matches: 48, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
3 45 0.94
4 3 0.06
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:6236559 original size:14 final size:15
Alignment explanation
Indices: 6236519--6236552 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
6236509 AAGTTTGAAA
6236519 AAAATAAA-AAGATT
1 AAAATAAATAAGATT
6236533 AAAATAAATAAGATT
1 AAAATAAATAAGATT
6236548 AAAAT
1 AAAAT
6236553 TTTAAGAGAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 8 0.42
15 11 0.58
ACGTcount: A:0.71, C:0.00, G:0.06, T:0.24
Consensus pattern (15 bp):
AAAATAAATAAGATT
Found at i:6236774 original size:18 final size:18
Alignment explanation
Indices: 6236726--6236776 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
6236716 GCTCAAAATT
6236726 TTTA-ATTTGATTTT-AA
1 TTTAGATTTGATTTTAAA
**
6236742 TTTAGATTTTTTTTTAAA
1 TTTAGATTTGATTTTAAA
6236760 TTTAG-TCTTGATTTTAA
1 TTTAGAT-TTGATTTTAA
6236777 TTTTGTAATT
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
16 4 0.14
17 9 0.32
18 15 0.54
ACGTcount: A:0.27, C:0.02, G:0.08, T:0.63
Consensus pattern (18 bp):
TTTAGATTTGATTTTAAA
Found at i:6236791 original size:18 final size:18
Alignment explanation
Indices: 6236728--6236792 Score: 53
Period size: 18 Copynumber: 3.6 Consensus size: 18
6236718 TCAAAATTTT
6236728 TAATTTGATTTTAATTTAG
1 TAATTT-ATTTTAATTTAG
* *
6236747 -ATTTTTTTTTAAATTTAG
1 TAATTTATTTT-AATTTAG
* * *
6236765 T-CTTGATTTTAATTTTG
1 TAATTTATTTTAATTTAG
6236782 TAATTTATTTT
1 TAATTTATTTT
6236793 GGCTAAAAAA
Statistics
Matches: 35, Mismatches: 8, Indels: 7
0.70 0.16 0.14
Matches are distributed among these distances:
17 11 0.31
18 24 0.69
ACGTcount: A:0.26, C:0.02, G:0.08, T:0.65
Consensus pattern (18 bp):
TAATTTATTTTAATTTAG
Found at i:6241444 original size:100 final size:102
Alignment explanation
Indices: 6241322--6241521 Score: 341
Period size: 100 Copynumber: 2.0 Consensus size: 102
6241312 TTTCAAAAAA
* **
6241322 TATTTTTTCAAGAAAATTCATTAAGTCCTCCAATAGTTTGGTAAGACTTAATTCAAGATTTAAAT
1 TATTTTTACAAGAAAATTCATTAAGTCCTCCAATAGTTCAGTAAGACTTAATTCAAGATTTAAAT
6241387 CCTCAAATAGTTTGGTAGGATTG-AAAATTTTATTAC
66 CCTCAAATAGTTTGGTAGGATTGTAAAATTTTATTAC
6241423 TATTTTTACAA-AAAATTCATTAAGTCCTCCAATAGTTCAGTAAGACTTAATTCAAGATTTAAAT
1 TATTTTTACAAGAAAATTCATTAAGTCCTCCAATAGTTCAGTAAGACTTAATTCAAGATTTAAAT
* *
6241487 CCTCCAATAGTTTGGTAGGATTGTAAACTTTTATT
66 CCTCAAATAGTTTGGTAGGATTGTAAAATTTTATT
6241522 TTATCAAAAA
Statistics
Matches: 93, Mismatches: 5, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
100 73 0.78
101 20 0.22
ACGTcount: A:0.35, C:0.13, G:0.12, T:0.40
Consensus pattern (102 bp):
TATTTTTACAAGAAAATTCATTAAGTCCTCCAATAGTTCAGTAAGACTTAATTCAAGATTTAAAT
CCTCAAATAGTTTGGTAGGATTGTAAAATTTTATTAC
Found at i:6242599 original size:13 final size:12
Alignment explanation
Indices: 6242560--6242600 Score: 55
Period size: 12 Copynumber: 3.3 Consensus size: 12
6242550 TTTTTTAACC
6242560 AAAATAAATTAA
1 AAAATAAATTAA
*
6242572 AAAATAAAAATAA
1 AAAAT-AAATTAA
*
6242585 AAACTAAATTAA
1 AAAATAAATTAA
6242597 AAAA
1 AAAA
6242601 ATCTAAATCT
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
12 14 0.58
13 10 0.42
ACGTcount: A:0.78, C:0.02, G:0.00, T:0.20
Consensus pattern (12 bp):
AAAATAAATTAA
Found at i:6242600 original size:20 final size:21
Alignment explanation
Indices: 6242577--6242619 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
6242567 ATTAAAAAAT
6242577 AAAAAT-AAAAACTAAATTAA
1 AAAAATCAAAAACTAAATTAA
* *
6242597 AAAAATCTAAATCTAAATTAA
1 AAAAATCAAAAACTAAATTAA
6242618 AA
1 AA
6242620 TCTAAATTAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.70, C:0.07, G:0.00, T:0.23
Consensus pattern (21 bp):
AAAAATCAAAAACTAAATTAA
Found at i:6242614 original size:12 final size:11
Alignment explanation
Indices: 6242599--6242641 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 11
6242589 TAAATTAAAA
6242599 AAATCTAAATCT
1 AAAT-TAAATCT
6242611 AAATTAAAATCT
1 AAATT-AAATCT
6242623 AAATTAAAATC-
1 AAATT-AAATCT
6242634 AAATTAAA
1 AAATTAAA
6242642 AGTTTTGGGC
Statistics
Matches: 30, Mismatches: 0, Indels: 4
0.88 0.00 0.12
Matches are distributed among these distances:
10 3 0.10
11 6 0.20
12 21 0.70
ACGTcount: A:0.60, C:0.09, G:0.00, T:0.30
Consensus pattern (11 bp):
AAATTAAATCT
Found at i:6242637 original size:11 final size:12
Alignment explanation
Indices: 6242605--6242642 Score: 69
Period size: 12 Copynumber: 3.2 Consensus size: 12
6242595 AAAAAAATCT
6242605 AAATCTAAATTA
1 AAATCTAAATTA
6242617 AAATCTAAATTA
1 AAATCTAAATTA
6242629 AAATC-AAATTA
1 AAATCTAAATTA
6242640 AAA
1 AAA
6242643 GTTTTGGGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (12 bp):
AAATCTAAATTA
Found at i:6243160 original size:34 final size:35
Alignment explanation
Indices: 6243122--6243209 Score: 110
Period size: 34 Copynumber: 2.6 Consensus size: 35
6243112 TAGAGGTTTG
* **
6243122 AGATTCACAAAGATTCCAAATTTTGC-AGGA-TTCT
1 AGATTCACAAAGATTTCAAA-TTCACAAGGATTTCT
*
6243156 AGATTCACAAAGATTTTAAATTCACAAGGATTTCT
1 AGATTCACAAAGATTTCAAATTCACAAGGATTTCT
6243191 AGATTCA-AAAGATTTCAAA
1 AGATTCACAAAGATTTCAAA
6243210 AATTTGCAAG
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
33 3 0.06
34 33 0.70
35 11 0.23
ACGTcount: A:0.41, C:0.15, G:0.12, T:0.32
Consensus pattern (35 bp):
AGATTCACAAAGATTTCAAATTCACAAGGATTTCT
Found at i:6243205 original size:17 final size:18
Alignment explanation
Indices: 6243152--6243206 Score: 78
Period size: 17 Copynumber: 3.2 Consensus size: 18
6243142 TTTTGCAGGA
6243152 TTCTAGATTCACAAAGAT
1 TTCTAGATTCACAAAGAT
* *
6243170 TT-TAAATTCACAAGGAT
1 TTCTAGATTCACAAAGAT
6243187 TTCTAGATTCA-AAAGAT
1 TTCTAGATTCACAAAGAT
6243204 TTC
1 TTC
6243207 AAAAATTTGC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
17 23 0.72
18 9 0.28
ACGTcount: A:0.38, C:0.15, G:0.11, T:0.36
Consensus pattern (18 bp):
TTCTAGATTCACAAAGAT
Found at i:6243231 original size:17 final size:18
Alignment explanation
Indices: 6243209--6243265 Score: 73
Period size: 17 Copynumber: 3.3 Consensus size: 18
6243199 AAGATTTCAA
6243209 AAATTTGCAAG-ATTTTC
1 AAATTTGCAAGAATTTTC
*
6243226 AAATTTGTAAGAATTTT-
1 AAATTTGCAAGAATTTTC
**
6243243 AGGTTTGCAAGAATTTTC
1 AAATTTGCAAGAATTTTC
6243261 AAATT
1 AAATT
6243266 CACAAGAATG
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
17 24 0.75
18 8 0.25
ACGTcount: A:0.37, C:0.07, G:0.14, T:0.42
Consensus pattern (18 bp):
AAATTTGCAAGAATTTTC
Found at i:6243289 original size:52 final size:53
Alignment explanation
Indices: 6243234--6243472 Score: 165
Period size: 52 Copynumber: 4.6 Consensus size: 53
6243224 TCAAATTTGT
* * * * *
6243234 AAGAATTTTAGGTTTGCAAGAATTTTCAAATTCACAAGAA-TGAAAGATTCAT
1 AAGAATTTCAGATTCGCAAGAATTTTCAAATTCACAAGAATTCAAAGATTCAC
* * ** *
6243286 AAGAA-TTCAGATTCGCAATAA-TTTCATATTTGCAAGAATTCAAAGATTCGC
1 AAGAATTTCAGATTCGCAAGAATTTTCAAATTCACAAGAATTCAAAGATTCAC
* * ** *
6243337 AAGACTTTCAGATTTGCAAGAATTTT-AGGTTCACAAGAATTTAAAGATTCAC
1 AAGAATTTCAGATTCGCAAGAATTTTCAAATTCACAAGAATTCAAAGATTCAC
* * * * **
6243389 AAGAATTTTA-AGTTCACAAGAA--TTCAAAGATTTACAAGAATT--TAGATTTGC
1 AAGAATTTCAGA-TTCGCAAGAATTTTC-AA-ATTCACAAGAATTCAAAGATTCAC
* * *
6243440 AAGAA-TTCAAATTCACAAGAATTTTTAAATTCA
1 AAGAATTTCAGATTCGCAAGAATTTTCAAATTCA
6243473 TATTCATAAC
Statistics
Matches: 145, Mismatches: 32, Indels: 22
0.73 0.16 0.11
Matches are distributed among these distances:
50 33 0.23
51 40 0.28
52 58 0.40
53 14 0.10
ACGTcount: A:0.42, C:0.12, G:0.13, T:0.33
Consensus pattern (53 bp):
AAGAATTTCAGATTCGCAAGAATTTTCAAATTCACAAGAATTCAAAGATTCAC
Found at i:6243337 original size:35 final size:33
Alignment explanation
Indices: 6243286--6243446 Score: 110
Period size: 35 Copynumber: 4.7 Consensus size: 33
6243276 AAAGATTCAT
* *
6243286 AAGAATTCAGATTCGCAATAATTTCATATTTGC
1 AAGAATTCAGATTCGCAAGAATTTCAGATTTGC
*
6243319 AAGAATTCAAAGATTCGCAAGACTTTCAGATTTGC
1 AAGAATTC--AGATTCGCAAGAATTTCAGATTTGC
* * * * **
6243354 AAGAATTTTAGGTTCACAAGAATTTAAAGATTCAC
1 AAGAA-TTCAGATTCGCAAGAATTT-CAGATTTGC
* * *
6243389 AAGAATTTTA-AGTTCACAAGAA-TTCAAAGATTTAC
1 AAGAA-TTCAGA-TTCGCAAGAATTTC--AGATTTGC
* *
6243424 AAGAATTTAGATTTGCAAGAATT
1 AAGAATTCAGATTCGCAAGAATT
6243447 CAAATTCACA
Statistics
Matches: 104, Mismatches: 15, Indels: 16
0.77 0.11 0.12
Matches are distributed among these distances:
33 8 0.08
34 27 0.26
35 67 0.64
36 2 0.02
ACGTcount: A:0.41, C:0.12, G:0.14, T:0.32
Consensus pattern (33 bp):
AAGAATTCAGATTCGCAAGAATTTCAGATTTGC
Found at i:6243358 original size:120 final size:120
Alignment explanation
Indices: 6243199--6243450 Score: 303
Period size: 120 Copynumber: 2.1 Consensus size: 120
6243189 CTAGATTCAA
* * * * ** *
6243199 AAGATTTCAAAAATTTGCAAGATTTTCAAATTTGTAAGAATTTTAGGTTTGCAAGAATTTTCAA-
1 AAGAATTCAAAAATTCGCAAGACTTTCAAATTTGCAAGAATTTTAGGTTCACAAGAA-TTTAAAG
* * * *
6243263 ATTCACAAGAA-TGAAAGATTCATAAGAATTC-AGATTCGCAATAATTTCATATTTGC
65 ATTCACAAGAATTGAAAG-TTCACAAGAATTCAAGATTCACAAGAATTT-AGATTTGC
* *
6243319 AAGAATTCAAAGATTCGCAAGACTTTCAGATTTGCAAGAATTTTAGGTTCACAAGAATTTAAAGA
1 AAGAATTCAAAAATTCGCAAGACTTTCAAATTTGCAAGAATTTTAGGTTCACAAGAATTTAAAGA
** *
6243384 TTCACAAGAATTTTAAGTTCACAAGAATTCAAAGATTTACAAGAATTTAGATTTGC
66 TTCACAAGAATTGAAAGTTCACAAGAATTC-AAGATTCACAAGAATTTAGATTTGC
6243440 AAGAATTCAAA
1 AAGAATTCAAA
6243451 TTCACAAGAA
Statistics
Matches: 112, Mismatches: 16, Indels: 7
0.83 0.12 0.05
Matches are distributed among these distances:
119 5 0.04
120 72 0.64
121 22 0.20
122 13 0.12
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.33
Consensus pattern (120 bp):
AAGAATTCAAAAATTCGCAAGACTTTCAAATTTGCAAGAATTTTAGGTTCACAAGAATTTAAAGA
TTCACAAGAATTGAAAGTTCACAAGAATTCAAGATTCACAAGAATTTAGATTTGC
Found at i:6243437 original size:16 final size:16
Alignment explanation
Indices: 6243263--6243463 Score: 98
Period size: 17 Copynumber: 11.9 Consensus size: 16
6243253 GAATTTTCAA
**
6243263 ATTCACAAGAATGAAAG
1 ATTCACAAGAAT-TTAG
* *
6243280 ATTCATAAGAATTCAG
1 ATTCACAAGAATTTAG
* * *
6243296 ATTCGCAATAATTTCAT
1 ATTCACAAGAATTT-AG
** *
6243313 ATTTGCAAGAATTCAAAG
1 ATTCACAAGAATT--TAG
* *
6243331 ATTCGCAAGACTTTCAG
1 ATTCACAAGAATTT-AG
**
6243348 ATTTGCAAGAATTTTAG
1 ATTCACAAGAA-TTTAG
*
6243365 GTTCACAAGAATTTAAAG
1 ATTCACAAGAATTT--AG
6243383 ATTCACAAGAATTTTA-
1 ATTCACAAGAA-TTTAG
*
6243399 AGTTCACAAGAATTCAAAG
1 A-TTCACAAGAATT--TAG
*
6243418 ATTTACAAGAATTTAG
1 ATTCACAAGAATTTAG
** * *
6243434 ATTTGCAAGAATTCAA
1 ATTCACAAGAATTTAG
6243450 ATTCACAAGAATTT
1 ATTCACAAGAATTT
6243464 TTAAATTCAT
Statistics
Matches: 142, Mismatches: 30, Indels: 25
0.72 0.15 0.13
Matches are distributed among these distances:
16 44 0.31
17 55 0.39
18 39 0.27
19 4 0.03
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.31
Consensus pattern (16 bp):
ATTCACAAGAATTTAG
Found at i:6243471 original size:18 final size:17
Alignment explanation
Indices: 6243353--6243472 Score: 100
Period size: 18 Copynumber: 7.0 Consensus size: 17
6243343 TTCAGATTTG
**
6243353 CAAGAATTTTAGGTTCA
1 CAAGAATTTTAAATTCA
*
6243370 CAAGAATTTAAAGATTCA
1 CAAGAATTTTAA-ATTCA
*
6243388 CAAGAATTTTAAGTTCA
1 CAAGAATTTTAAATTCA
** *
6243405 CAAGAATTCAAAGATTTA
1 CAAGAATTTTAA-ATTCA
* **
6243423 CAAGAA-TTTAGATTTG
1 CAAGAATTTTAAATTCA
*
6243439 CAAGAA-TTCAAATTCA
1 CAAGAATTTTAAATTCA
6243455 CAAGAATTTTTAAATTCA
1 CAAGAA-TTTTAAATTCA
6243473 TATTCATAAC
Statistics
Matches: 81, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
16 22 0.27
17 26 0.32
18 33 0.41
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.33
Consensus pattern (17 bp):
CAAGAATTTTAAATTCA
Found at i:6243689 original size:45 final size:45
Alignment explanation
Indices: 6243627--6243741 Score: 137
Period size: 47 Copynumber: 2.5 Consensus size: 45
6243617 TCACATCTAG
* * *
6243627 AATTCAAAAATTCTCATTTGAAAAT-TTTTAGAGATTCACACCAAA
1 AATTCAAAGATTTTCATTTGAAAATAATTTAGAGATTCACACC-AA
6243672 AATTCAAAGATTTTCA-TTGAAAAAATAATTTAGAGATTCACACCAA
1 AATTCAAAGATTTTCATTTG--AAAATAATTTAGAGATTCACACCAA
*
6243718 AATGCTAAAGATTTT-ATTTGAAAA
1 AATTC-AAAGATTTTCATTTGAAAA
6243742 ATTTAAGGAT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
44 3 0.05
45 18 0.30
46 12 0.20
47 28 0.46
ACGTcount: A:0.46, C:0.12, G:0.09, T:0.33
Consensus pattern (45 bp):
AATTCAAAGATTTTCATTTGAAAATAATTTAGAGATTCACACCAA
Found at i:6243712 original size:47 final size:47
Alignment explanation
Indices: 6243653--6243742 Score: 139
Period size: 47 Copynumber: 1.9 Consensus size: 47
6243643 TTTGAAAATT
*
6243653 TTTAGAGATTCACACCAAAAATTC-AAAGATTTTCA-TTGAAAAAATAA
1 TTTAGAGATTCACACC-AAAATGCTAAAGATTTT-ATTTGAAAAAATAA
6243700 TTTAGAGATTCACACCAAAATGCTAAAGATTTTATTTGAAAAA
1 TTTAGAGATTCACACCAAAATGCTAAAGATTTTATTTGAAAAA
6243743 TTTAAGGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
46 7 0.17
47 33 0.82
ACGTcount: A:0.47, C:0.12, G:0.10, T:0.31
Consensus pattern (47 bp):
TTTAGAGATTCACACCAAAATGCTAAAGATTTTATTTGAAAAAATAA
Found at i:6243832 original size:45 final size:46
Alignment explanation
Indices: 6243724--6243912 Score: 169
Period size: 45 Copynumber: 4.2 Consensus size: 46
6243714 CCAAAATGCT
* * *
6243724 AAAGATT-TTATTTG-AAAAATTTAAGGATTTACAT-T-CACATTTTC
1 AAAGATTCTAATTTGAAAAAATTTAAGG-TTT-CATATCCAAAATTTC
* *
6243768 AAAGATTCAAATTTG-AAAAATTTTAGTGTTTCATATCCAAAATTTC
1 AAAGATTCTAATTTGAAAAAATTTAAG-GTTTCATATCCAAAATTTC
* * * * *
6243814 AAAGGTTCTCA-TT-AAAAAATTTCAAGGTTTCACATCCAAACTTTT
1 AAAGATTCTAATTTGAAAAAATTT-AAGGTTTCATATCCAAAATTTC
*
6243859 AAAAATTCTAATTTGAAATAAATTTAAGGTTTCACT-TCCAAAATTTC
1 AAAGATTCTAATTTGAAA-AAATTTAAGGTTTCA-TATCCAAAATTTC
6243906 AAAGATT
1 AAAGATT
6243913 TTTATTCAAA
Statistics
Matches: 116, Mismatches: 19, Indels: 17
0.76 0.12 0.11
Matches are distributed among these distances:
44 10 0.09
45 53 0.46
46 20 0.17
47 27 0.23
48 6 0.05
ACGTcount: A:0.41, C:0.12, G:0.08, T:0.39
Consensus pattern (46 bp):
AAAGATTCTAATTTGAAAAAATTTAAGGTTTCATATCCAAAATTTC
Found at i:6243900 original size:92 final size:90
Alignment explanation
Indices: 6243738--6243936 Score: 217
Period size: 92 Copynumber: 2.2 Consensus size: 90
6243728 ATTTTATTTG
* * * *
6243738 AAAAATTTAAGGATTTACATTCACATTTTCAAAGATTCAAATTTGAAAAATTTTAGTGTTTCATA
1 AAAAATTTAAGG-TTTACATCCAAATTTTCAAAAATTCAAATTTGAAAAATTTAAGTGTTTCATA
*
6243803 TCCAAAATTTCAAAGGTTCTCATT-A
65 TCCAAAATTTCAAAGATTCTCATTCA
*
6243828 AAAAATTTCAAGGTTTCACATCCAAACTTTT-AAAAATTCTAATTTGAAATAAATTTAAG-GTTT
1 AAAAATTT-AAGGTTT-ACATCCAAA-TTTTCAAAAATTCAAATTTG-AA-AAATTTAAGTGTTT
* *
6243891 CACT-TCCAAAATTTCAAAGATTTTTATTCA
61 CA-TATCCAAAATTTCAAAGATTCTCATTCA
*
6243921 AAAAGTTTTAAGGTTT
1 AAAA-ATTTAAGGTTT
6243937 TGCACCTAAA
Statistics
Matches: 92, Mismatches: 9, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
90 11 0.12
91 24 0.26
92 33 0.36
93 21 0.23
94 3 0.03
ACGTcount: A:0.40, C:0.12, G:0.09, T:0.39
Consensus pattern (90 bp):
AAAAATTTAAGGTTTACATCCAAATTTTCAAAAATTCAAATTTGAAAAATTTAAGTGTTTCATAT
CCAAAATTTCAAAGATTCTCATTCA
Found at i:6245406 original size:13 final size:12
Alignment explanation
Indices: 6245368--6245423 Score: 53
Period size: 13 Copynumber: 4.6 Consensus size: 12
6245358 GCCCCATCAA
6245368 TTTC-TTCTTGTT
1 TTTCTTTCTT-TT
*
6245380 TTTCCTTCTTTTT
1 TTTCTTTC-TTTT
6245393 TTTCTTTCTCTTT
1 TTTCTTTCT-TTT
*
6245406 TTT-TTTATTTT
1 TTTCTTTCTTTT
6245417 TTTCTTT
1 TTTCTTT
6245424 ACATTTTTCA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
11 6 0.16
12 12 0.32
13 18 0.47
14 2 0.05
ACGTcount: A:0.02, C:0.16, G:0.02, T:0.80
Consensus pattern (12 bp):
TTTCTTTCTTTT
Found at i:6245430 original size:24 final size:24
Alignment explanation
Indices: 6245389--6245441 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
6245379 TTTTCCTTCT
* **
6245389 TTTTTTTCTTTCTCTTTTTTTTTA
1 TTTTTTTCTTTCTATTTTTCATTA
6245413 TTTTTTTCTTTAC-ATTTTTCATTA
1 TTTTTTTCTTT-CTATTTTTCATTA
6245437 TTTTT
1 TTTTT
6245442 CAATAAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 24 0.96
25 1 0.04
ACGTcount: A:0.09, C:0.11, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTTTTTCTTTCTATTTTTCATTA
Found at i:6247900 original size:12 final size:12
Alignment explanation
Indices: 6247885--6247958 Score: 60
Period size: 12 Copynumber: 5.9 Consensus size: 12
6247875 AATAAATTAA
6247885 AAAATTAAAATC
1 AAAATTAAAATC
* **
6247897 AAAACTAAATTAAA
1 AAAATTAAA--ATC
6247911 AAAATCT-AAATC
1 AAAAT-TAAAATC
*
6247923 TAAATTAAAATC
1 AAAATTAAAATC
6247935 AAAATTAAAAATC
1 AAAATT-AAAATC
*
6247948 AAATTTAAAAT
1 AAAATTAAAAT
6247959 TTTGGGTTTT
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
11 1 0.02
12 28 0.58
13 11 0.23
14 7 0.15
15 1 0.02
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (12 bp):
AAAATTAAAATC
Found at i:6247914 original size:20 final size:21
Alignment explanation
Indices: 6247891--6247932 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6247881 TTAAAAAATT
6247891 AAAATC-AAAACTAAATTAAA
1 AAAATCTAAAACTAAATTAAA
*
6247911 AAAATCTAAATCTAAATTAAA
1 AAAATCTAAAACTAAATTAAA
6247932 A
1 A
6247933 TCAAAATTAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.67, C:0.10, G:0.00, T:0.24
Consensus pattern (21 bp):
AAAATCTAAAACTAAATTAAA
Found at i:6247938 original size:26 final size:26
Alignment explanation
Indices: 6247878--6247950 Score: 62
Period size: 26 Copynumber: 2.8 Consensus size: 26
6247868 CTACCCAAAT
*
6247878 AAATTAAAAAATTAAAATCAAAACTA
1 AAATAAAAAAATTAAAATCAAAACTA
* * *
6247904 AATTAAAAAAATCT-AAATCTAAATTA
1 AAATAAAAAAAT-TAAAATCAAAACTA
*
6247930 AAAT--CAAAATTAAAAATCAAA
1 AAATAAAAAAATT-AAAATCAAA
6247951 TTTAAAATTT
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
23 1 0.03
24 5 0.14
25 7 0.19
26 23 0.62
27 1 0.03
ACGTcount: A:0.67, C:0.08, G:0.00, T:0.25
Consensus pattern (26 bp):
AAATAAAAAAATTAAAATCAAAACTA
Found at i:6247955 original size:13 final size:13
Alignment explanation
Indices: 6247918--6247957 Score: 55
Period size: 13 Copynumber: 3.2 Consensus size: 13
6247908 AAAAAAATCT
*
6247918 AAATCTAAATT-A
1 AAATCAAAATTAA
6247930 AAATCAAAATTAA
1 AAATCAAAATTAA
*
6247943 AAATCAAATTTAA
1 AAATCAAAATTAA
6247956 AA
1 AA
6247958 TTTTGGGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
12 10 0.40
13 15 0.60
ACGTcount: A:0.65, C:0.07, G:0.00, T:0.28
Consensus pattern (13 bp):
AAATCAAAATTAA
Found at i:6249108 original size:20 final size:18
Alignment explanation
Indices: 6249071--6249110 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 18
6249061 TAATAAAATA
6249071 AATAAAAAATGAAAAAAC
1 AATAAAAAATGAAAAAAC
*
6249089 AATAAAAATATTACAAAAAC
1 AATAAAAA-ATGA-AAAAAC
6249109 AA
1 AA
6249111 ATTTATTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 8 0.42
19 3 0.16
20 8 0.42
ACGTcount: A:0.75, C:0.07, G:0.03, T:0.15
Consensus pattern (18 bp):
AATAAAAAATGAAAAAAC
Found at i:6251189 original size:12 final size:11
Alignment explanation
Indices: 6251172--6251201 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
6251162 TCTCTTTTTC
6251172 TTTTTTTTCTT
1 TTTTTTTTCTT
*
6251183 TTTTTTTTGTT
1 TTTTTTTTCTT
6251194 TTTTTTTT
1 TTTTTTTT
6251202 AAATCAAACA
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:0.00, C:0.03, G:0.03, T:0.93
Consensus pattern (11 bp):
TTTTTTTTCTT
Found at i:6251350 original size:42 final size:42
Alignment explanation
Indices: 6251245--6251469 Score: 321
Period size: 42 Copynumber: 5.4 Consensus size: 42
6251235 TGACTTTGAA
*
6251245 AAAAATAAAATACTCCTCTAAACAGAGGC-ACCATAACTTTGG
1 AAAAATAAAATGCTCCTCTAAACAGAGGCAACCATAACTTT-G
* *
6251287 AAAAAATAAAATGCTCTTCTAAACAAAGGCAACCATAACTTTG
1 -AAAAATAAAATGCTCCTCTAAACAGAGGCAACCATAACTTTG
*
6251330 AAAAATAAAATGCTCCTCTAAACAGAGG-AACCACAACTTTG
1 AAAAATAAAATGCTCCTCTAAACAGAGGCAACCATAACTTTG
* *
6251371 AAAAATAAAATGCTTCTCTAAACAGAGGTAACCATAACTTTG
1 AAAAATAAAATGCTCCTCTAAACAGAGGCAACCATAACTTTG
* *
6251413 AAAAATAAAATGCTCCTCTAAATAGAGGCCA-CATAACTTTGG
1 AAAAATAAAATGCTCCTCTAAACAGAGGCAACCATAACTTT-G
*
6251455 AAAAATAAATTGCTC
1 AAAAATAAAATGCTC
6251470 TAAACAATCA
Statistics
Matches: 166, Mismatches: 13, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
41 48 0.29
42 80 0.48
43 27 0.16
44 11 0.07
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (42 bp):
AAAAATAAAATGCTCCTCTAAACAGAGGCAACCATAACTTTG
Found at i:6251411 original size:83 final size:84
Alignment explanation
Indices: 6251245--6251468 Score: 321
Period size: 83 Copynumber: 2.7 Consensus size: 84
6251235 TGACTTTGAA
* *
6251245 AAAAATAAAATACTCCTCTAAACAGAGGCACCATAACTTTGGAAAAAATAAAATGC-TCTTCTAA
1 AAAAATAAAATGCTCCTCTAAACAGAGG-ACCACAACTTTGG-AAAAATAAAATGCTTCTTCTAA
6251309 ACAAAGGCAACCATAACTTTG
64 ACAAAGGCAACCATAACTTTG
6251330 AAAAATAAAATGCTCCTCTAAACAGAGGAACCACAACTTT-GAAAAATAAAATGCTTC-TCTAAA
1 AAAAATAAAATGCTCCTCTAAACAGAGG-ACCACAACTTTGGAAAAATAAAATGCTTCTTCTAAA
* *
6251393 CAGAGGTAACCATAACTTTG
65 CAAAGGCAACCATAACTTTG
* *
6251413 AAAAATAAAATGCTCCTCTAAATAGAGG-CCACATAACTTTGGAAAAATAAATTGCT
1 AAAAATAAAATGCTCCTCTAAACAGAGGACCAC--AACTTTGGAAAAATAAAATGCT
6251469 CTAAACAATC
Statistics
Matches: 128, Mismatches: 7, Indels: 9
0.89 0.05 0.06
Matches are distributed among these distances:
81 4 0.03
83 70 0.55
84 17 0.13
85 37 0.29
ACGTcount: A:0.46, C:0.19, G:0.12, T:0.23
Consensus pattern (84 bp):
AAAAATAAAATGCTCCTCTAAACAGAGGACCACAACTTTGGAAAAATAAAATGCTTCTTCTAAAC
AAAGGCAACCATAACTTTG
Found at i:6251659 original size:31 final size:30
Alignment explanation
Indices: 6251598--6251660 Score: 74
Period size: 31 Copynumber: 2.0 Consensus size: 30
6251588 TCACTGAAAA
* *
6251598 TTGATTCTTAAAATTTCAGTTTCACTAGAAT
1 TTGATTCGTAAAATTTCAGTTGCAC-AGAAT
6251629 TTGATTCGTAAAATTTCAGATATGCA-AGAAT
1 TTGATTCGTAAAATTTCAG-T-TGCACAGAAT
6251660 T
1 T
6251661 CAGATCTACA
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
31 24 0.86
32 1 0.04
33 3 0.11
ACGTcount: A:0.35, C:0.11, G:0.13, T:0.41
Consensus pattern (30 bp):
TTGATTCGTAAAATTTCAGTTGCACAGAAT
Found at i:6252985 original size:22 final size:21
Alignment explanation
Indices: 6252954--6253047 Score: 72
Period size: 22 Copynumber: 4.4 Consensus size: 21
6252944 CTTTTCTCTA
*
6252954 TTTTTCCTTTTTTCTTCCATTT
1 TTTTTTCTTTTTT-TTCCATTT
6252976 TTTTTTCTTTTTTTTTCC-TTCT
1 TTTTTTC-TTTTTTTTCCATT-T
6252998 TTTTTT-TTTTGCTTTTCCATTT
1 TTTTTTCTTTT--TTTTCCATTT
* *
6253020 TTTGCTT-TTTTTTTT--ATTC
1 TTT-TTTCTTTTTTTTCCATTT
6253039 TTTTTTCTT
1 TTTTTTCTT
6253048 CCTTCATTCG
Statistics
Matches: 61, Mismatches: 4, Indels: 17
0.74 0.05 0.21
Matches are distributed among these distances:
18 2 0.03
19 8 0.13
20 4 0.07
21 6 0.10
22 27 0.44
23 14 0.23
ACGTcount: A:0.03, C:0.16, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTTCTTTTTTTTCCATTT
Found at i:6252990 original size:14 final size:14
Alignment explanation
Indices: 6252973--6253044 Score: 65
Period size: 14 Copynumber: 5.1 Consensus size: 14
6252963 TTTTCTTCCA
6252973 TTTTTTTTTCTTTT
1 TTTTTTTTTCTTTT
**
6252987 TTTTTCCTTC-TTT
1 TTTTTTTTTCTTTT
*
6253000 TTTTTTTTGCTTTT
1 TTTTTTTTTCTTTT
** *
6253014 CCATTTTTTGCTTTT
1 -TTTTTTTTTCTTTT
*
6253029 TTTTTTATTCTTTT
1 TTTTTTTTTCTTTT
6253043 TT
1 TT
6253045 CTTCCTTCAT
Statistics
Matches: 45, Mismatches: 11, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
13 10 0.22
14 23 0.51
15 12 0.27
ACGTcount: A:0.03, C:0.12, G:0.03, T:0.82
Consensus pattern (14 bp):
TTTTTTTTTCTTTT
Found at i:6253414 original size:12 final size:11
Alignment explanation
Indices: 6253394--6253432 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6253384 AGGTGTGCCA
6253394 TTTTTCTTTGC
1 TTTTTCTTTGC
*
6253405 TTTCTTCTTTTC
1 TTT-TTCTTTGC
*
6253417 TTTTTTTTTGC
1 TTTTTCTTTGC
6253428 TTTTT
1 TTTTT
6253433 TTTAGACCTT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
11 14 0.58
12 10 0.42
ACGTcount: A:0.00, C:0.15, G:0.05, T:0.79
Consensus pattern (11 bp):
TTTTTCTTTGC
Found at i:6257086 original size:58 final size:60
Alignment explanation
Indices: 6256983--6257099 Score: 175
Period size: 59 Copynumber: 2.0 Consensus size: 60
6256973 TGCTTTTATA
* * * *
6256983 CAAGGAAAATTGATACTTTCAACTTTTTCTTAACAATATTTTTTTT-AAAATTTTATTTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAAATTTATTTT
*
6257042 CAAGAAAAATTGATACTTTTAACTTTTCCTTAAAAAT-TTTTTTTTGAAAAATTTATTT
1 CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAAATTTATTT
6257100 ATTTTTTATT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
58 8 0.15
59 44 0.85
ACGTcount: A:0.36, C:0.09, G:0.05, T:0.50
Consensus pattern (60 bp):
CAAGAAAAATTGATACTTTCAACTTTTCCTTAAAAATATTTTTTTTGAAAAATTTATTTT
Found at i:6257682 original size:31 final size:30
Alignment explanation
Indices: 6257626--6257684 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 30
6257616 AAAAAATTTT
*
6257626 ATCGAAAAATTCAACTTATGCCAAAAAACTC
1 ATCGAAAAATTCAACTGAT-CCAAAAAACTC
6257657 ATCGAAAAATTCAACCTGGAT-CAAAAAA
1 ATCGAAAAATTCAA-CT-GATCCAAAAAA
6257685 TTTCATGGGA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
31 21 0.84
32 2 0.08
33 2 0.08
ACGTcount: A:0.51, C:0.20, G:0.08, T:0.20
Consensus pattern (30 bp):
ATCGAAAAATTCAACTGATCCAAAAAACTC
Found at i:6261539 original size:31 final size:30
Alignment explanation
Indices: 6261495--6261554 Score: 102
Period size: 31 Copynumber: 2.0 Consensus size: 30
6261485 TTTTTTAAAA
*
6261495 ATTTACTTATTAATGAGATGATATCATCTG
1 ATTTACTTATTAATGAGATGACATCATCTG
6261525 ATTTACTTTATTAATGAGATGACATCATCT
1 ATTTAC-TTATTAATGAGATGACATCATCT
6261555 TATTCACTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
30 6 0.21
31 22 0.79
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (30 bp):
ATTTACTTATTAATGAGATGACATCATCTG
Found at i:6264444 original size:15 final size:15
Alignment explanation
Indices: 6264424--6264466 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
6264414 AATGTAACTC
6264424 TCAAAAATAAATTTT
1 TCAAAAATAAATTTT
**
6264439 TCAAAAATCTATTTT
1 TCAAAAATAAATTTT
6264454 T-AAAAATATAATT
1 TCAAAAATA-AATT
6264467 ATATTCTTAA
Statistics
Matches: 23, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 6 0.26
15 17 0.74
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (15 bp):
TCAAAAATAAATTTT
Found at i:6270455 original size:16 final size:17
Alignment explanation
Indices: 6270430--6270463 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
6270420 GTAAAATATT
*
6270430 TAATTTTTAAT-TTTAA
1 TAATTATTAATGTTTAA
6270446 TAATTATTAATGTTTAA
1 TAATTATTAATGTTTAA
6270463 T
1 T
6270464 TCTAGATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (17 bp):
TAATTATTAATGTTTAA
Found at i:6270455 original size:23 final size:24
Alignment explanation
Indices: 6270429--6270474 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 24
6270419 AGTAAAATAT
* *
6270429 TTAATTTTTAATTTTA-ATAATTA
1 TTAATGTTTAATTCTAGATAATTA
6270452 TTAATGTTTAATTCTAGATAATT
1 TTAATGTTTAATTCTAGATAATT
6270475 TCAATTATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
23 14 0.70
24 6 0.30
ACGTcount: A:0.37, C:0.02, G:0.04, T:0.57
Consensus pattern (24 bp):
TTAATGTTTAATTCTAGATAATTA
Found at i:6270922 original size:21 final size:22
Alignment explanation
Indices: 6270896--6270940 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 22
6270886 ATTTTTATTT
*
6270896 TATAAA-AATTTAAAATATATA
1 TATAAATAATTAAAAATATATA
6270917 TATAAATTAATTAAAAATATATA
1 TATAAA-TAATTAAAAATATATA
6270940 T
1 T
6270941 TTCAATTCAG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
23 15 0.71
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (22 bp):
TATAAATAATTAAAAATATATA
Found at i:6274120 original size:20 final size:22
Alignment explanation
Indices: 6274087--6274126 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
6274077 ACCCATTTTC
6274087 TTCCATTTCTTTCCTTTTTGGT
1 TTCCATTTCTTTCCTTTTTGGT
6274109 TTCC-TTTC-TTCCTTTTTG
1 TTCCATTTCTTTCCTTTTTG
6274127 TCACCTATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 10 0.56
21 4 0.22
22 4 0.22
ACGTcount: A:0.03, C:0.25, G:0.07, T:0.65
Consensus pattern (22 bp):
TTCCATTTCTTTCCTTTTTGGT
Found at i:6282376 original size:18 final size:17
Alignment explanation
Indices: 6282333--6282376 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
6282323 TAAAATCTTT
*
6282333 ATTATTGAATAAATTTA
1 ATTATTAAATAAATTTA
*
6282350 ATAATTTAAATAAATTTAA
1 ATTA-TTAAATAAATTT-A
6282369 ATTATTAA
1 ATTATTAA
6282377 TAATTTTTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
17 3 0.14
18 15 0.68
19 4 0.18
ACGTcount: A:0.52, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
ATTATTAAATAAATTTA
Found at i:6282943 original size:19 final size:19
Alignment explanation
Indices: 6282912--6282957 Score: 51
Period size: 19 Copynumber: 2.5 Consensus size: 19
6282902 AATTTATTAA
*
6282912 AAAAATA-ATTTTGATTTAT
1 AAAAATATATTTTGAGTT-T
6282931 AAAAATATA-TTTGAGTTT
1 AAAAATATATTTTGAGTTT
*
6282949 CAAAATATA
1 AAAAATATA
6282958 ATTACTTGTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 9 0.38
19 14 0.58
20 1 0.04
ACGTcount: A:0.50, C:0.02, G:0.07, T:0.41
Consensus pattern (19 bp):
AAAAATATATTTTGAGTTT
Found at i:6283177 original size:11 final size:11
Alignment explanation
Indices: 6283161--6283236 Score: 50
Period size: 11 Copynumber: 6.7 Consensus size: 11
6283151 ATCAATGTGC
6283161 AAAATTTTAAA
1 AAAATTTTAAA
6283172 AAAATTTT--A
1 AAAATTTTAAA
6283181 AAAATTTTAATA
1 AAAATTTTAA-A
* **
6283193 TATTTTTTAAA
1 AAAATTTTAAA
*
6283204 TAAATATTTTATTA
1 -AAA-ATTTTA-AA
6283218 AAAA-TTTAAA
1 AAAATTTTAAA
6283228 TAAAATTTT
1 -AAAATTTT
6283237 TGTTATTGAA
Statistics
Matches: 49, Mismatches: 8, Indels: 15
0.68 0.11 0.21
Matches are distributed among these distances:
9 9 0.18
10 1 0.02
11 17 0.35
12 13 0.27
13 8 0.16
14 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (11 bp):
AAAATTTTAAA
Found at i:6285483 original size:20 final size:20
Alignment explanation
Indices: 6285446--6285504 Score: 68
Period size: 21 Copynumber: 3.0 Consensus size: 20
6285436 TTGTTATTAA
*
6285446 ATTT-TTTATC-TAAATTTT
1 ATTTATTTATCTTTAATTTT
6285464 ATTTATTTATCTTTAATTTTT
1 ATTTATTTATCTTTAA-TTTT
* *
6285485 ATTAATTTATCTTTAGTTTT
1 ATTTATTTATCTTTAATTTT
6285505 TATATTATCT
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
18 4 0.11
19 6 0.17
20 7 0.20
21 18 0.51
ACGTcount: A:0.25, C:0.05, G:0.02, T:0.68
Consensus pattern (20 bp):
ATTTATTTATCTTTAATTTT
Found at i:6285486 original size:21 final size:21
Alignment explanation
Indices: 6285460--6285512 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
6285450 TTTATCTAAA
6285460 TTTTATTTATTTATCTTTAAT
1 TTTTATTTATTTATCTTTAAT
* *
6285481 TTTTATTAATTTATCTTTAGT
1 TTTTATTTATTTATCTTTAAT
6285502 TTTTATATTAT
1 TTTTAT-TTAT
6285513 CTGATTAGGT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
21 25 0.89
22 3 0.11
ACGTcount: A:0.25, C:0.04, G:0.02, T:0.70
Consensus pattern (21 bp):
TTTTATTTATTTATCTTTAAT
Found at i:6286273 original size:12 final size:12
Alignment explanation
Indices: 6286239--6286273 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
6286229 ATTTTGTTAT
*
6286239 TTATTTATTTAG
1 TTATTTATTTGG
6286251 TTATTTATTTGG
1 TTATTTATTTGG
*
6286263 TTATTTTTTTG
1 TTATTTATTTG
6286274 TTTGTTTGTC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.17, C:0.00, G:0.11, T:0.71
Consensus pattern (12 bp):
TTATTTATTTGG
Found at i:6291327 original size:18 final size:18
Alignment explanation
Indices: 6291302--6291337 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
6291292 ATTTATCATT
6291302 TTAATAAAATT-TTAAAA
1 TTAATAAAATTATTAAAA
6291319 TTAATTAAAATTATTAAAA
1 TTAA-TAAAATTATTAAAA
6291338 AGATAATTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (18 bp):
TTAATAAAATTATTAAAA
Found at i:6291812 original size:10 final size:10
Alignment explanation
Indices: 6291797--6291824 Score: 56
Period size: 10 Copynumber: 2.8 Consensus size: 10
6291787 TATTTAAAAA
6291797 TTTTATTAAT
1 TTTTATTAAT
6291807 TTTTATTAAT
1 TTTTATTAAT
6291817 TTTTATTA
1 TTTTATTA
6291825 TTATTTTCAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (10 bp):
TTTTATTAAT
Found at i:6292033 original size:22 final size:21
Alignment explanation
Indices: 6292000--6292048 Score: 62
Period size: 22 Copynumber: 2.3 Consensus size: 21
6291990 CTTTTCCTAC
*
6292000 ATTTTTTATTAATTATTATTA
1 ATTTATTATTAATTATTATTA
*
6292021 ATTTATTAGTTAATTTTTATTA
1 ATTTATTA-TTAATTATTATTA
*
6292043 TTTTAT
1 ATTTAT
6292049 AACCAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
21 7 0.29
22 17 0.71
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (21 bp):
ATTTATTATTAATTATTATTA
Found at i:6292254 original size:21 final size:21
Alignment explanation
Indices: 6292221--6292263 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
6292211 TAACTTTGTA
6292221 TTATTATTATAAAGTTTATTT
1 TTATTATTATAAAGTTTATTT
* *
6292242 TTATTTTTTTAAAGTTTATTT
1 TTATTATTATAAAGTTTATTT
6292263 T
1 T
6292264 AAAATTAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.28, C:0.00, G:0.05, T:0.67
Consensus pattern (21 bp):
TTATTATTATAAAGTTTATTT
Found at i:6293599 original size:21 final size:22
Alignment explanation
Indices: 6293575--6293615 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
6293565 TACTTAAACT
*
6293575 AATTAGAAA-GCTTTTCTTATC
1 AATTAGAAATGCTCTTCTTATC
*
6293596 AATTGGAAATGCTCTTCTTA
1 AATTAGAAATGCTCTTCTTA
6293616 CTCGAGGCTC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 8 0.47
22 9 0.53
ACGTcount: A:0.32, C:0.15, G:0.12, T:0.41
Consensus pattern (22 bp):
AATTAGAAATGCTCTTCTTATC
Found at i:6293724 original size:48 final size:48
Alignment explanation
Indices: 6293661--6295263 Score: 1189
Period size: 48 Copynumber: 32.6 Consensus size: 48
6293651 GAAAAAAACG
*
6293661 CCTCTCAGTAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAGCT
* * *
6293709 CCTCTAAGTAGAGGCTCCACAACTTTAAAAATTTTTATCTTGAAAAAGACT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAA--TTTATCTTGAAAAAG-CT
* * * * *
6293760 CATTTCAGCAGAGGTTCAACAACTTAAAAAATTTTCATCTTGAAAAAAGTT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAA-TTT-ATCTTG-AAAAAGCT
* * *
6293811 TCTCTCAGCAGAAGCTTAACAACTTTAAAAATTTTATCTTGAAAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAA-TTTATCTTG-AAAAAGCT
* * * * * * *
6293861 CATCTCAGTAAAAGCTCAACAA-TTTTAAAATCTCATCTT-ACAAAGAACT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAAT-TTATCTTGA-AAA-AGCT
* * * * *
6293910 CCTTTCAACAGATGTTCAACGACTTT-AAAATTATATCTTGAAAAAGGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAATT-TATCTTGAAAAA-GCT
* ** * *
6293959 CCTTTCAATAGAGGCTCAATAACTTT-AAAATCTCATCTTAGAAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAAT-TTATCTT-GAAAAAGCT
* * * * *
6294008 CATCTCAACAGAGGCTCAACGACTTT-AAAATTCAATATTAGAAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAATT-TATCTT-GAAAAAGCT
* * * * * *
6294057 CATATTAGCAGAGGCTCAACAACTTTAAAAGTTCTCATATTAAAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAATT-T-ATCTTGAAAAAGCT
** * *
6294107 TATCTCAGTAGAGGCTCAACAACTTTAAAAATTCATCTTGAAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAGCT
* * * *
6294155 CCTATCAACAGAGGCTTAACAACTTTAAAGAAATTCTCATCTTGAAAGAGGCT
1 CCTCTCAGCAGAGGCTCAACAACTTT-AA-AAATT-T-ATCTTGAAA-AAGCT
* *
6294208 CTTCTCAGCAGAGACTCAACAACTTTAAAAAAATTCTTATCTTGAAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTT--AAAAA-T-TTATCTTGAAAAAGCT
** * * * *
6294260 TATCTCAGTAGAAGCTCAATAACTTTAAAAATCTCATC-TGAAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAAT-TTATCTTGAAAAAGCT
* * * *
6294308 CCTCTAAGCAGAGGCTCAATAACTTTAAAAATCTATTTTGAAAAAAGGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG-AAAAA-GCT
* * * * * * *
6294358 CATCTCAGCAAAAGCTTAACAATTTTAAAAATCTCAT-TTGAAAAAGTT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAAT-TTATCTTGAAAAAGCT
* * * *
6294406 CCTCTAAACAGAGGCTCAACAACTTTAAAATACTAATCTTGAAAAAAGC-
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAA-ATTTATCTTG-AAAAAGCT
* * * * * ** *
6294455 CTATCTCAACAGATGTTCAATAACTTTAAAAATCCATCTTG-AAAATCT
1 C-CTCTCAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAGCT
* * * * *
6294503 CCTCTTAGTAAAGGCTTAACAACTTTAAAAATTTTATCTTGAAAGAAACT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAA-TTTATCTTGAAA-AAGCT
* * *
6294553 CCTCTCAGTAGAGGCTCAATAACTTTAAAAATTCATCTTGAAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAGCT
* * * *
6294601 TCTCTTAGCAGAGGTTCAACAACATT-AAAATTCTATCTTGAAAAAGGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAATT-TATCTTGAAAAA-GCT
* * * * *
6294650 CATTTGAGCAGAGGCTCATCAACTTCAAAAATTTTATCTT-AAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAA-TTTATCTTGAAAAAGCT
* * *
6294698 CCTCTTAGTAGAGGCTCAATAACTTT-AAAATTTATCTTGAAAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTATCTTG-AAAAAGCT
* * * *
6294746 TCTCTCAGTAGAGACTCAACAA-TATTAAAAATTCTATCTT-AAAAAACT
1 CCTCTCAGCAGAGGCTCAACAACT-TTAAAAATT-TATCTTGAAAAAGCT
* * *
6294794 CCTCTCAACAGAGGCTCAACAACTTT-AAATTTCTATTTTGAAAAAGGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAATT-TATCTTGAAAAA-GCT
* * * *
6294843 CTTCTCAGTAGAGGTTCAACAATTTTAAAAATTCTATCTT-AAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAATT-TATCTTGAAAAAGCT
* * * *
6294891 CATCTCAACAGAGGCTCAACAACTTT-AAAATCTTATATTAGAAAAAACT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAAT-TTATCTT-GAAAAAGCT
* * ** * **
6294940 CATCTTAATAAAGGCTCAATGACTTT-AAAATTCTATCTTGAAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAATT-TATCTTGAAAAAGCT
** * *
6294988 TTTTTCAGCAGAGGCTCAATAACTTT-AAAATTCTATCTTGAAAAAGGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAATT-TATCTTGAAAAA-GCT
* * * *
6295037 CCTCTCAGCAAAAGCTTAATAACTTTAAAAATTCTATCTT-AAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAATT-TATCTTGAAAAAGCT
* * * * *
6295085 TCTTTCAGTAAAGGCTCAACAA-TTTTAAAATCTTATCTTAGAAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAAT-TTATCTT-GAAAAAGCT
* *
6295134 CCTCTCAACAGAGGCTCAACGACTTT-AAAATTCTATCTTGAAAAAGCT
1 CCTCTCAGCAGAGGCTCAACAACTTTAAAAATT-TATCTTGAAAAAGCT
* * * * *
6295182 CCTCTTAGTAGCGACTCCACAACTTTAAAAAGATTTTCATCTTGAAAAAGGCT
1 CCTCTCAGCAGAGGCTCAACAACTTT-AAAA-A-TTT-ATCTTGAAAAA-GCT
** * * * *
6295235 TATCTTAGTAGAAGCTCAACAATTTTAAA
1 CCTCTCAGCAGAGGCTCAACAACTTTAAA
6295264 TTAAACCATT
Statistics
Matches: 1252, Mismatches: 236, Indels: 130
0.77 0.15 0.08
Matches are distributed among these distances:
46 8 0.01
47 75 0.06
48 380 0.30
49 346 0.28
50 251 0.20
51 72 0.06
52 55 0.04
53 59 0.05
54 5 0.00
55 1 0.00
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.30
Consensus pattern (48 bp):
CCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAGCT
Found at i:6294572 original size:97 final size:96
Alignment explanation
Indices: 6293653--6295263 Score: 1125
Period size: 97 Copynumber: 16.4 Consensus size: 96
6293643 TAAAATCTGA
* * * ** * *
6293653 AAAAAACGCCTCTCAGTAGAGGCTCAACAACTTTAAAAATTTATCTTGAAAAAGCTCCTCTAAGT
1 AAAAAACTCATCTCAGCAGAGGCTCAACAACTTTAAAAATCCATCTTGAAAAAGCTCCTCTTAGC
*
6293718 AGAGGCTCCACAACTTTAAAAATTTTTATCTTG
66 AGAGGCTCAACAACTTT-AAAA-TTTTATCTTG
* * * * * *
6293751 AAAAAGACTCATTTCAGCAGAGGTTCAACAACTTAAAAAATTTTCATCTTGAAAAAAGTTTCTCT
1 AAAAA-ACTCATCTCAGCAGAGGCTCAACAACTTTAAAAA--TCCATCTTG-AAAAAGCTCCTCT
* * *
6293816 CAGCAGAAGCTTAACAACTTTAAAAATTTTATCTTG
62 TAGCAGAGGCTCAACAACTTT-AAAATTTTATCTTG
* * * * *
6293852 AAAAAAGCTCATCTCAGTAAAAGCTCAACAA-TTTTAAAATCTCATCTT-ACAAAGAACTCCT-T
1 AAAAAA-CTCATCTCAGCAGAGGCTCAACAACTTTAAAAATC-CATCTTGA-AAA-AGCTCCTCT
* * * * *
6293914 TCAACAGATGTTCAACGACTTTAAAATTATATCTTG
62 T-AGCAGAGGCTCAACAACTTTAAAATTTTATCTTG
* * * ** * * *
6293950 AAAAAGGCTCCTTTCAATAGAGGCTCAATAACTTT-AAAATCTCATCTTAGAAAAAGCTCATCTC
1 AAAAA-ACTCATCTCAGCAGAGGCTCAACAACTTTAAAAATC-CATCTT-GAAAAAGCTCCTCTT
* * ** *
6294014 AACAGAGGCTCAACGACTTTAAAATTCAATATTAG
63 AGCAGAGGCTCAACAACTTTAAAATTTTATCTT-G
* * * * * * ** *
6294049 AAAAAGCTCATATTAGCAGAGGCTCAACAACTTTAAAAGTTCTCATATTAAAAAAGCTTATCTCA
1 AAAAAACTCATCTCAGCAGAGGCTCAACAACTTTAAAA-ATC-CATCTTGAAAAAGCTCCTCTTA
* * *
6294114 GTAGAGGCTCAACAACTTTAAAAATTCATCTTG
64 GCAGAGGCTCAACAACTTTAAAATTTTATCTTG
* * * * * * *
6294147 AAAAAGCTCCTATCAACAGAGGCTTAACAACTTTAAAGAAATTCTCATCTTGAAAGAGGCTCTTC
1 AAAAAACTCATCTCAGCAGAGGCTCAACAACTTT-AA-AAA-TC-CATCTTGAAA-AAGCTCCTC
* *
6294212 TCAGCAGAGACTCAACAACTTTAAAAAAATTCTTATCTTG
61 TTAGCAGAGGCTCAACAACTTT---AAAATT-TTATCTTG
* * * * * *
6294252 AAAAAGCTTATCTCAGTAGAAGCTCAATAACTTTAAAAATCTCATC-TGAAAAAGCTCCTCTAAG
1 AAAAAACTCATCTCAGCAGAGGCTCAACAACTTTAAAAATC-CATCTTGAAAAAGCTCCTCTTAG
* * * *
6294316 CAGAGGCTCAATAACTTTAAAAATCTATTTTG
65 CAGAGGCTCAACAACTTTAAAATTTTATCTTG
* * * * * *
6294348 AAAAAAGGCTCATCTCAGCAAAAGCTTAACAATTTTAAAAATCTCAT-TTGAAAAAGTTCCTCTA
1 AAAAAA--CTCATCTCAGCAGAGGCTCAACAACTTTAAAAATC-CATCTTGAAAAAGCTCCTCTT
* * *
6294412 AACAGAGGCTCAACAACTTTAAAATACTAATCTTG
63 AGCAGAGGCTCAACAACTTTAAAAT-TTTATCTTG
* * * * *
6294447 AAAAAAGC-CTATCTCAACAGATGTTCAATAACTTTAAAAATCCATCTTG-AAAATCTCCTCTTA
1 AAAAAA-CTC-ATCTCAGCAGAGGCTCAACAACTTTAAAAATCCATCTTGAAAAAGCTCCTCTTA
* * *
6294510 GTAAAGGCTTAACAACTTTAAAAATTTTATCTTG
64 GCAGAGGCTCAACAACTTT-AAAATTTTATCTTG
* * * * *
6294544 AAAGAAACTCCTCTCAGTAGAGGCTCAATAACTTTAAAAATTCATCTTGAAAAAGCTTCTCTTAG
1 AAA-AAACTCATCTCAGCAGAGGCTCAACAACTTTAAAAATCCATCTTGAAAAAGCTCCTCTTAG
* * *
6294609 CAGAGGTTCAACAACATTAAAATTCTATCTTG
65 CAGAGGCTCAACAACTTTAAAATTTTATCTTG
* * * * * **
6294641 AAAAAGGCTCATTTGAGCAGAGGCTCATCAACTTCAAAAATTTTATCTT-AAAAAGCTCCTCTTA
1 AAAAA-ACTCATCTCAGCAGAGGCTCAACAACTTTAAAAA-TCCATCTTGAAAAAGCTCCTCTTA
* *
6294705 GTAGAGGCTCAATAACTTTAAAA-TTTATCTTG
64 GCAGAGGCTCAACAACTTTAAAATTTTATCTTG
* * * *
6294737 AAAAAAGCTTC-TCTCAGTAGAGACTCAACAA-TATTAAAAATTCTATCTT-AAAAAACTCCTCT
1 AAAAAA-C-TCATCTCAGCAGAGGCTCAACAACT-TTAAAAA-TCCATCTTGAAAAAGCTCCTCT
* * *
6294799 CAACAGAGGCTCAACAACTTT-AAATTTCTATTTTG
62 TAGCAGAGGCTCAACAACTTTAAAATTT-TATCTTG
* * * * * * * *
6294834 AAAAAGGCTCTTCTCAGTAGAGGTTCAACAATTTTAAAAATTCTATCTT-AAAAAGCTCATCTCA
1 AAAAA-ACTCATCTCAGCAGAGGCTCAACAACTTTAAAAA-TCCATCTTGAAAAAGCTCCTCTTA
* * *
6294898 ACAGAGGCTCAACAACTTTAAAATCTTATATTAG
64 GCAGAGGCTCAACAACTTTAAAATTTTATCTT-G
* ** * ** * * * *
6294932 AAAAAACTCATCTTAATAAAGGCTCAATGACTTTAAAATTCTATCTTGAAAAAGCT-TTTTTCAG
1 AAAAAACTCATCTCAGCAGAGGCTCAACAACTTTAAAAATCCATCTTGAAAAAGCTCCTCTT-AG
* *
6294996 CAGAGGCTCAATAACTTTAAAATTCTATCTTG
65 CAGAGGCTCAACAACTTTAAAATTTTATCTTG
* * * * * * * *
6295028 AAAAAGGCTCCTCTCAGCAAAAGCTTAATAACTTTAAAAATTCTATCTT-AAAAAGCTTCT-TTC
1 AAAAA-ACTCATCTCAGCAGAGGCTCAACAACTTTAAAAA-TCCATCTTGAAAAAGCTCCTCTT-
* * * *
6295091 AGTAAAGGCTCAACAATTTTAAAATCTTATCTTAG
63 AGCAGAGGCTCAACAACTTTAAAATTTTATCTT-G
* * * * * * *
6295126 AAAAAGCTCCTCTCAACAGAGGCTCAACGACTTTAAAATTCTATCTTGAAAAAGCTCCTCTTAGT
1 AAAAAACTCATCTCAGCAGAGGCTCAACAACTTTAAAAATCCATCTTGAAAAAGCTCCTCTTAGC
* * *
6295191 AGCGACTCCACAACTTTAAAAAGATTTTCATCTTG
66 AGAGGCTCAACAACTTT--AAA-ATTTT-ATCTTG
* * * * * *
6295226 AAAAAGGCTTATCTTAGTAGAAGCTCAACAATTTTAAA
1 AAAAA-ACTCATCTCAGCAGAGGCTCAACAACTTTAAA
6295264 TTAAACCATT
Statistics
Matches: 1222, Mismatches: 231, Indels: 117
0.78 0.15 0.07
Matches are distributed among these distances:
95 4 0.00
96 113 0.09
97 415 0.34
98 317 0.26
99 124 0.10
100 65 0.05
101 102 0.08
102 39 0.03
103 3 0.00
104 7 0.01
105 33 0.03
ACGTcount: A:0.40, C:0.19, G:0.11, T:0.30
Consensus pattern (96 bp):
AAAAAACTCATCTCAGCAGAGGCTCAACAACTTTAAAAATCCATCTTGAAAAAGCTCCTCTTAGC
AGAGGCTCAACAACTTTAAAATTTTATCTTG
Found at i:6296152 original size:35 final size:37
Alignment explanation
Indices: 6296080--6296168 Score: 128
Period size: 35 Copynumber: 2.4 Consensus size: 37
6296070 TACCATTATG
*
6296080 ATGCAAATGTCTTCTCTTAAAATGATGATGCAAATGAA
1 ATGCAAATGTCTTTTCTTAAAA-GATGATGCAAATGAA
*
6296118 ATGCAAATGTCTTTTCTT-AAA-ATGATGCACATGAA
1 ATGCAAATGTCTTTTCTTAAAAGATGATGCAAATGAA
*
6296153 ATGCAAATATCTTTTC
1 ATGCAAATGTCTTTTC
6296169 AAAAAAAATC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
35 28 0.58
37 3 0.06
38 17 0.35
ACGTcount: A:0.37, C:0.15, G:0.13, T:0.35
Consensus pattern (37 bp):
ATGCAAATGTCTTTTCTTAAAAGATGATGCAAATGAA
Found at i:6316885 original size:22 final size:24
Alignment explanation
Indices: 6316857--6316913 Score: 73
Period size: 25 Copynumber: 2.4 Consensus size: 24
6316847 TAAAATTCAT
*
6316857 AAAATTTTAAATA-T-AAAAAATA
1 AAAATTTTAAATATTAAAAAAAAA
*
6316879 AAAATTTTAGATATTCAAAAAAAAA
1 AAAATTTTAAATATT-AAAAAAAAA
6316904 AAAATTTTAA
1 AAAATTTTAA
6316914 GACGTTCTTA
Statistics
Matches: 29, Mismatches: 3, Indels: 3
0.83 0.09 0.09
Matches are distributed among these distances:
22 12 0.41
23 1 0.03
25 16 0.55
ACGTcount: A:0.65, C:0.02, G:0.02, T:0.32
Consensus pattern (24 bp):
AAAATTTTAAATATTAAAAAAAAA
Found at i:6316926 original size:26 final size:25
Alignment explanation
Indices: 6316869--6316930 Score: 70
Period size: 26 Copynumber: 2.4 Consensus size: 25
6316859 AATTTTAAAT
*
6316869 ATAAAAAATAAAAATTTTAGATATTC
1 ATAAAAAA-AAAAATTTTAGACATTC
* *
6316895 AAAAAAAAAAAAATTTTAAGACGTTC
1 ATAAAAAAAAAAATTTT-AGACATTC
*
6316921 TTAAAAAAAA
1 ATAAAAAAAA
6316931 GACGAAGGAA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
25 9 0.30
26 21 0.70
ACGTcount: A:0.63, C:0.05, G:0.05, T:0.27
Consensus pattern (25 bp):
ATAAAAAAAAAAATTTTAGACATTC
Found at i:6317171 original size:15 final size:15
Alignment explanation
Indices: 6317135--6317171 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
6317125 TTTTTATTTT
* *
6317135 TATTAAAATTTGGTA
1 TATTAATATTTGATA
6317150 TATTAATATTTGATA
1 TATTAATATTTGATA
6317165 TATTAAT
1 TATTAAT
6317172 TTTTTTAAGT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.08, T:0.51
Consensus pattern (15 bp):
TATTAATATTTGATA
Found at i:6319461 original size:31 final size:31
Alignment explanation
Indices: 6319370--6319493 Score: 126
Period size: 32 Copynumber: 3.9 Consensus size: 31
6319360 ATTCTTTTCA
* *
6319370 AAAAATTCCATATAATTTTAAAAAATTAACT
1 AAAAATTCCATATCATTTTAAAAAATTAAAT
* * *
6319401 AAAAATTTCTATATCGA-TTCAAACAATTAAAT
1 AAAAA-TTCCATATC-ATTTTAAAAAATTAAAT
* *
6319433 AAAAACTCCATATCATTTTAAAATATTAAAT
1 AAAAATTCCATATCATTTTAAAAAATTAAAT
*
6319464 AAAAAAGTT-CATATCATTTGAAAAAATTAA
1 -AAAAA-TTCCATATCATTTTAAAAAATTAA
6319494 TTTATTAATC
Statistics
Matches: 75, Mismatches: 13, Indels: 9
0.77 0.13 0.09
Matches are distributed among these distances:
30 1 0.01
31 24 0.32
32 48 0.64
33 2 0.03
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.34
Consensus pattern (31 bp):
AAAAATTCCATATCATTTTAAAAAATTAAAT
Found at i:6319492 original size:63 final size:63
Alignment explanation
Indices: 6319370--6319493 Score: 153
Period size: 63 Copynumber: 2.0 Consensus size: 63
6319360 ATTCTTTTCA
* * * *
6319370 AAAAATTCCATATAATTTTAAAAAATTAACTAAAAATTTCTATATCGATTCAAACAATTAAAT
1 AAAAACTCCATATAATTTTAAAAAATTAAATAAAAAGTTCTATATCGATTCAAAAAATTAAAT
* * *
6319433 AAAAACTCCATATCATTTTAAAATATTAAATAAAAAAGTTC-ATATC-ATTTGAAAAAATTAA
1 AAAAACTCCATATAATTTTAAAAAATTAAAT-AAAAAGTTCTATATCGA-TTCAAAAAATTAA
6319494 TTTATTAATC
Statistics
Matches: 52, Mismatches: 7, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
62 1 0.02
63 43 0.83
64 8 0.15
ACGTcount: A:0.53, C:0.10, G:0.02, T:0.34
Consensus pattern (63 bp):
AAAAACTCCATATAATTTTAAAAAATTAAATAAAAAGTTCTATATCGATTCAAAAAATTAAAT
Found at i:6322250 original size:27 final size:27
Alignment explanation
Indices: 6322218--6322273 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
6322208 TCCAAGGTTT
*
6322218 AAATCCTAATGGTTTTGATCGACATGG
1 AAATCCTAATAGTTTTGATCGACATGG
* *
6322245 AAATCCTAATAGTTTTGATTGACGTGG
1 AAATCCTAATAGTTTTGATCGACATGG
6322272 AA
1 AA
6322274 GTTACAGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.32, C:0.12, G:0.21, T:0.34
Consensus pattern (27 bp):
AAATCCTAATAGTTTTGATCGACATGG
Found at i:6322656 original size:35 final size:35
Alignment explanation
Indices: 6322610--6322683 Score: 103
Period size: 35 Copynumber: 2.1 Consensus size: 35
6322600 TTAGATAATT
**
6322610 TTCTAGCTTATAAATACTAAATGTTTCAAGACACA
1 TTCTAGCTTATAAATACTAAATAATTCAAGACACA
* * *
6322645 TTCTAGCTTATAAGTACTGAATAATTCAAGACATA
1 TTCTAGCTTATAAATACTAAATAATTCAAGACACA
6322680 TTCT
1 TTCT
6322684 TTTTAGCAAC
Statistics
Matches: 34, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
35 34 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.36
Consensus pattern (35 bp):
TTCTAGCTTATAAATACTAAATAATTCAAGACACA
Found at i:6323878 original size:19 final size:19
Alignment explanation
Indices: 6323838--6323925 Score: 74
Period size: 19 Copynumber: 4.6 Consensus size: 19
6323828 TTTTTAAAGA
* *
6323838 TTAATATTATAA-ATAATTT
1 TTAA-ATTATAATAAAATAT
6323857 TTAAATTATAATAAAATAT
1 TTAAATTATAATAAAATAT
*
6323876 TTAATTTGATATATAAAAT-T
1 TTAAATT-ATA-ATAAAATAT
* *
6323896 TAAAATTTTAATATAAA-AT
1 TTAAATTATAATA-AAATAT
6323915 TTAAATTATAA
1 TTAAATTATAA
6323926 ATTAATTAAT
Statistics
Matches: 56, Mismatches: 8, Indels: 10
0.76 0.11 0.14
Matches are distributed among these distances:
18 10 0.18
19 30 0.54
20 9 0.16
21 7 0.12
ACGTcount: A:0.52, C:0.00, G:0.01, T:0.47
Consensus pattern (19 bp):
TTAAATTATAATAAAATAT
Found at i:6326620 original size:28 final size:30
Alignment explanation
Indices: 6326557--6326616 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
6326547 CTTGAACTAT
6326557 TTTATTTTTTAAAAATAAATCTATATATT-
1 TTTATTTTTTAAAAATAAATCTATATATTA
*
6326586 TTTATTTTTT-CAAATAAATC-AT-TATTA
1 TTTATTTTTTAAAAATAAATCTATATATTA
6326613 TTTA
1 TTTA
6326617 ATTTATATTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 4 0.14
27 6 0.21
28 9 0.31
29 10 0.34
ACGTcount: A:0.38, C:0.05, G:0.00, T:0.57
Consensus pattern (30 bp):
TTTATTTTTTAAAAATAAATCTATATATTA
Found at i:6327020 original size:10 final size:9
Alignment explanation
Indices: 6326983--6327018 Score: 56
Period size: 9 Copynumber: 4.0 Consensus size: 9
6326973 ATTAGAAATA
6326983 AATTTTATTT
1 AATTTT-TTT
6326993 -ATTTTTTT
1 AATTTTTTT
6327001 AATTTTTTT
1 AATTTTTTT
6327010 AATTTTTTT
1 AATTTTTTT
6327019 TATACATTAT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
8 3 0.12
9 22 0.88
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (9 bp):
AATTTTTTT
Found at i:6333820 original size:2 final size:2
Alignment explanation
Indices: 6333813--6333840 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
6333803 GATTAATCTT
6333813 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
6333841 CTTTTTTCCA
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:6335551 original size:27 final size:27
Alignment explanation
Indices: 6335510--6335563 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
6335500 ATGTTGTTGG
6335510 AATCTAAAAAACTTTAAATTTTCTAAC
1 AATCTAAAAAACTTTAAATTTTCTAAC
*
6335537 AATCTAAAAAGCTTTAAATTTTCTAAC
1 AATCTAAAAAACTTTAAATTTTCTAAC
6335564 GCCATTGAAG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.46, C:0.15, G:0.02, T:0.37
Consensus pattern (27 bp):
AATCTAAAAAACTTTAAATTTTCTAAC
Found at i:6336166 original size:14 final size:14
Alignment explanation
Indices: 6336147--6336179 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
6336137 CAATATAAAA
*
6336147 AATAAAATTATAAT
1 AATAAAATAATAAT
6336161 AATAAAATAATAAT
1 AATAAAATAATAAT
6336175 AATAA
1 AATAA
6336180 TTGATATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (14 bp):
AATAAAATAATAAT
Found at i:6350423 original size:2 final size:2
Alignment explanation
Indices: 6350411--6350445 Score: 54
Period size: 2 Copynumber: 18.0 Consensus size: 2
6350401 CTTTGTGGTT
*
6350411 TC TC CC TC TC TC TC TC TC TC TC TC TC TC TC T- TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
6350446 ACCCCACATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 29 0.97
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:6360180 original size:14 final size:14
Alignment explanation
Indices: 6360161--6360189 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
6360151 AATAGATCTA
6360161 CGTAGTAAAAGGTG
1 CGTAGTAAAAGGTG
6360175 CGTAGTAAAAGGTG
1 CGTAGTAAAAGGTG
6360189 C
1 C
6360190 ACACACCATC
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:0.34, C:0.10, G:0.34, T:0.21
Consensus pattern (14 bp):
CGTAGTAAAAGGTG
Found at i:6367586 original size:3 final size:3
Alignment explanation
Indices: 6367573--6367644 Score: 126
Period size: 3 Copynumber: 24.0 Consensus size: 3
6367563 TATTATACCA
* *
6367573 TAT TGT TAT TAT TAT TAT TAT GAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
6367621 TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT
6367645 AATATATTTT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
TAT
Found at i:6368108 original size:20 final size:20
Alignment explanation
Indices: 6368083--6368120 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
6368073 ACTATTTGAG
* *
6368083 AATTTTTTTGTATTTTTTCA
1 AATTTTTTAGGATTTTTTCA
6368103 AATTTTTTAGGATTTTTT
1 AATTTTTTAGGATTTTTT
6368121 TGGGCTTTTT
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:0.21, C:0.03, G:0.08, T:0.68
Consensus pattern (20 bp):
AATTTTTTAGGATTTTTTCA
Found at i:6368492 original size:20 final size:19
Alignment explanation
Indices: 6368464--6368530 Score: 55
Period size: 20 Copynumber: 3.2 Consensus size: 19
6368454 CAGGTTTTTT
6368464 TTTTCTTTTTATTTTTTGA
1 TTTTCTTTTTATTTTTTGA
*
6368483 TTTTCATTTTAATTTATTT-A
1 TTTTC-TTTTTATTT-TTTGA
6368503 TTTTAACCGTATTTTATTTTTTGA
1 TTTT---C-T-TTTTATTTTTTGA
6368527 TTTT
1 TTTT
6368531 TTTATTTTTA
Statistics
Matches: 38, Mismatches: 3, Indels: 9
0.76 0.06 0.18
Matches are distributed among these distances:
19 5 0.13
20 13 0.34
21 3 0.08
23 5 0.13
24 12 0.32
ACGTcount: A:0.18, C:0.06, G:0.04, T:0.72
Consensus pattern (19 bp):
TTTTCTTTTTATTTTTTGA
Found at i:6368620 original size:41 final size:41
Alignment explanation
Indices: 6368543--6368624 Score: 110
Period size: 41 Copynumber: 2.0 Consensus size: 41
6368533 TATTTTTAGA
* * *
6368543 AAAAAAGGAAAAAATTATTCTATCTTTTTTCCAAAAAAAAT
1 AAAAAAGAAAAAAATTATTCTATCTTTTCTACAAAAAAAAT
* * *
6368584 AAAAAAGAAAAAAATTATTTTGTCTTTTCTATAAAAAAAAT
1 AAAAAAGAAAAAAATTATTCTATCTTTTCTACAAAAAAAAT
6368625 TCTAAAAACA
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
41 35 1.00
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (41 bp):
AAAAAAGAAAAAAATTATTCTATCTTTTCTACAAAAAAAAT
Found at i:6380038 original size:89 final size:88
Alignment explanation
Indices: 6379783--6380045 Score: 242
Period size: 89 Copynumber: 3.0 Consensus size: 88
6379773 TTTTGTCCCG
* * * * * * * ** *
6379783 ATCACATGATTCATGGTTTCATCTTGGTCATTCATTTTTTACCTCGACCCAAGCCTAATCGCTTT
1 ATCACATGATTCATGGTTTCATCTCGATCATTCATTTTTGACCTCGACTCGATCATGGTAGCTTT
* * *
6379848 ATTTGGACTT-GTGATTTCATTTCG
66 ATTT-GA-TTCGTGGTTTCATTCCA
* * * * * * *
6379872 ATCACATGATTCGTGATTTTATCTCGATCATTTATTCTTGACCTTGACTCGATCTTGGTTA-CTT
1 ATCACATGATTCATGGTTTCATCTCGATCATTCATTTTTGACCTCGACTCGATCATGG-TAGCTT
* *
6379936 TATTTTAACTCGTGGTTTCATTCCA
65 TA-TTTGATTCGTGGTTTCATTCCA
* *
6379961 ATCACATGATTCATGGTTTCATCCCGATCATTCATTTTTGACATCGACTCGATCATGGTAGCTTT
1 ATCACATGATTCATGGTTTCATCTCGATCATTCATTTTTGACCTCGACTCGATCATGGTAGCTTT
*
6380026 CTTATGATTCGTGGTTTCAT
66 ATT-TGATTCGTGGTTTCAT
6380046 CTCGATCATT
Statistics
Matches: 136, Mismatches: 33, Indels: 10
0.76 0.18 0.06
Matches are distributed among these distances:
88 5 0.04
89 127 0.93
90 4 0.03
ACGTcount: A:0.21, C:0.21, G:0.15, T:0.43
Consensus pattern (88 bp):
ATCACATGATTCATGGTTTCATCTCGATCATTCATTTTTGACCTCGACTCGATCATGGTAGCTTT
ATTTGATTCGTGGTTTCATTCCA
Found at i:6380603 original size:3 final size:3
Alignment explanation
Indices: 6380597--6380725 Score: 76
Period size: 3 Copynumber: 44.7 Consensus size: 3
6380587 TAGATTTTTT
* * * *
6380597 TTA TTA -TA TTA TTA TTA TTA TTTA TTA TCA ATA TT- TTT TTC TT-
1 TTA TTA TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * * *
6380640 TGA TTT TTT TTG TTA -TA TTA -TA TTA -TA CTA -TA TTA -TA TTTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TTA
* *
6380681 TTA TTA TTA TTA CTA TTA TTA TTA TTA TTA TTA TATA TTT TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TT
6380726 TTTTTTTCTT
Statistics
Matches: 101, Mismatches: 14, Indels: 22
0.74 0.10 0.16
Matches are distributed among these distances:
2 15 0.15
3 78 0.77
4 8 0.08
ACGTcount: A:0.29, C:0.03, G:0.02, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:6381608 original size:9 final size:9
Alignment explanation
Indices: 6381594--6381623 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
6381584 GATCGTAGGT
6381594 TTTTTTTTA
1 TTTTTTTTA
6381603 TTTTTTTTA
1 TTTTTTTTA
6381612 -TTTTTTTA
1 TTTTTTTTA
6381620 TTTT
1 TTTT
6381624 CATTTTAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 8 0.40
9 12 0.60
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:6381629 original size:20 final size:18
Alignment explanation
Indices: 6381595--6381644 Score: 57
Period size: 17 Copynumber: 2.7 Consensus size: 18
6381585 ATCGTAGGTT
6381595 TTTTTTTATTTTTTTT-A
1 TTTTTTTATTTTTTTTAA
6381612 TTTTTTTATTTTCATTTTAA
1 TTTTTTTATTTT--TTTTAA
**
6381632 TTAATTTATTTTT
1 TTTTTTTATTTTT
6381645 AACCATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 12 0.43
18 1 0.04
19 4 0.14
20 11 0.39
ACGTcount: A:0.18, C:0.02, G:0.00, T:0.80
Consensus pattern (18 bp):
TTTTTTTATTTTTTTTAA
Found at i:6382415 original size:19 final size:19
Alignment explanation
Indices: 6382391--6382441 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
6382381 GCAGATTTCC
* *
6382391 TTTTTTCATTTTCTTTTTAT
1 TTTTTT-ATTTTCATTTTAA
6382411 TTTTTTATTTTCATTTTAA
1 TTTTTTATTTTCATTTTAA
6382430 TTTATTTATTTT
1 TTT-TTTATTTT
6382442 AACCATATTT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 14 0.50
20 14 0.50
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (19 bp):
TTTTTTATTTTCATTTTAA
Found at i:6382416 original size:20 final size:20
Alignment explanation
Indices: 6382391--6382441 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
6382381 GCAGATTTCC
* *
6382391 TTTTTTCATTTTC-TTTTTA
1 TTTTTTTATTTTCATTTTAA
6382410 TTTTTTTATTTTCATTTTAA
1 TTTTTTTATTTTCATTTTAA
*
6382430 TTTATTTATTTT
1 TTTTTTTATTTT
6382442 AACCATATTT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 12 0.43
20 16 0.57
ACGTcount: A:0.16, C:0.06, G:0.00, T:0.78
Consensus pattern (20 bp):
TTTTTTTATTTTCATTTTAA
Found at i:6402185 original size:4 final size:4
Alignment explanation
Indices: 6402178--6402202 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
6402168 TAAAAAAAAA
6402178 AAAG AAAG AAAG AAAG AAAG AAAG A
1 AAAG AAAG AAAG AAAG AAAG AAAG A
6402203 GCTGACTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (4 bp):
AAAG
Found at i:6402872 original size:2 final size:2
Alignment explanation
Indices: 6402865--6402894 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6402855 CACCTATTAC
6402865 AT AT AT AT AT AT AT AT AT AT AT -T AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
6402895 ATAACCACTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6412058 original size:11 final size:11
Alignment explanation
Indices: 6412039--6412069 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
6412029 GCAGACACCA
*
6412039 TTTTATTTTAT
1 TTTTTTTTTAT
6412050 TTTTTTTTTAT
1 TTTTTTTTTAT
6412061 TTTTTTTTT
1 TTTTTTTTT
6412070 CTGGCAGTGG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (11 bp):
TTTTTTTTTAT
Found at i:6412060 original size:16 final size:15
Alignment explanation
Indices: 6412039--6412069 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
6412029 GCAGACACCA
6412039 TTTTATTTTATTTTTT
1 TTTTATTTT-TTTTTT
6412055 TTTTATTTTTTTTTT
1 TTTTATTTTTTTTTT
6412070 CTGGCAGTGG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 6 0.40
16 9 0.60
ACGTcount: A:0.10, C:0.00, G:0.00, T:0.90
Consensus pattern (15 bp):
TTTTATTTTTTTTTT
Found at i:6413070 original size:12 final size:12
Alignment explanation
Indices: 6413039--6413074 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
6413029 TTTTTATTAT
6413039 TTTATAATAATAA
1 TTTATAATAA-AA
*
6413052 TTAATAATAAAA
1 TTTATAATAAAA
6413064 TTTATAATAAA
1 TTTATAATAAA
6413075 GTTTTTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
12 12 0.57
13 9 0.43
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (12 bp):
TTTATAATAAAA
Found at i:6413133 original size:21 final size:21
Alignment explanation
Indices: 6413090--6413134 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
6413080 TTATAATTAT
* *
6413090 AATTAAATAAAAATAATACAA
1 AATTAAAAAAAAATAAGACAA
*
6413111 AATTAATAAAAAAATAAGAAAA
1 AATTAA-AAAAAAATAAGACAA
6413133 AA
1 AA
6413135 ATTTTTATCC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 6 0.30
22 14 0.70
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AATTAAAAAAAAATAAGACAA
Found at i:6413135 original size:11 final size:11
Alignment explanation
Indices: 6413098--6413136 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
6413088 ATAATTAAAT
*
6413098 AAAAATAATAC
1 AAAAATAATAA
*
6413109 AAAATTAATAA
1 AAAAATAATAA
*
6413120 AAAAATAAGAA
1 AAAAATAATAA
6413131 AAAAAT
1 AAAAAT
6413137 TTTTATCCGA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.18
Consensus pattern (11 bp):
AAAAATAATAA
Found at i:6413322 original size:22 final size:22
Alignment explanation
Indices: 6413278--6413322 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6413268 TTTCTTTTCT
* *
6413278 TTAATAAAATAATAAAAATTAA
1 TTAATAAAATAAGAAAAAGTAA
* *
6413300 TTAATAAATTAAGAATAAGTAA
1 TTAATAAAATAAGAAAAAGTAA
6413322 T
1 T
6413323 AAAAATGAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
TTAATAAAATAAGAAAAAGTAA
Found at i:6418351 original size:15 final size:16
Alignment explanation
Indices: 6418331--6418360 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
6418321 GGAGAGACAA
6418331 GTGGAGC-AAAAAAAG
1 GTGGAGCTAAAAAAAG
6418346 GTGGAGCTAAAAAAA
1 GTGGAGCTAAAAAAA
6418361 AATAGAATGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.53, C:0.07, G:0.30, T:0.10
Consensus pattern (16 bp):
GTGGAGCTAAAAAAAG
Found at i:6424773 original size:20 final size:20
Alignment explanation
Indices: 6424748--6424798 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
6424738 ATTACTTAGG
6424748 CACTTTTGTTTCAACTCAAA
1 CACTTTTGTTTCAACTCAAA
6424768 CACTTTTGTTTCAACTCAAA
1 CACTTTTGTTTCAACTCAAA
6424788 CACTTTTGTTT
1 CACTTTTGTTT
6424799 TCATGCACTT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.25, C:0.24, G:0.06, T:0.45
Consensus pattern (20 bp):
CACTTTTGTTTCAACTCAAA
Found at i:6425424 original size:49 final size:49
Alignment explanation
Indices: 6425356--6425978 Score: 655
Period size: 48 Copynumber: 12.9 Consensus size: 49
6425346 ATTTCTAGAA
*
6425356 AAGAT-AAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAAGAGC-TTTTC
1 AAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTC
* *
6425403 AAAGATGAAAATTTTAAAGTTGTTGAGCCTCTG-TTAAGAGGAGCATTTTC
1 -AAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTT-AGAGGAGCTTTTTC
* * * *
6425453 -A-A-G-AATTTTTAAAGTCGTTGAGCCTTTGCTTAGATGAGCTTTTTT
1 AAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTC
* * *
6425498 AAGAT-AAATTTTTAAAGTCGTTGAGCCTCTTCTTAGAAGAGCTTTTTC
1 AAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTC
* *
6425546 AAGATGAGATTTTTAAAGTCGTTGAGCCTCTGCTTAGAGGAGCTTTTTCTC
1 AAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGC-TTTT-TC
* *
6425597 AAGAT--AATATTTTAAAGTTGTTGAGCCTCTACTTAGAAGAGC-TTTTC
1 AAGATGAAAT-TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTC
* *
6425644 TAATATGAGAA-TTTTAAAGTTGTTGAGCCTCAGCTTAGAGGAGCTTTTTC
1 -AAGATGA-AATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTC
* * * *
6425694 AAGATG-AATTTTTAAAGTCGTTGAGCCTCTACTTAGATGAGTTTTTTC
1 AAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTC
* * *
6425742 AAGATGAGA-TTTTAAAGTCGTTGAGCTTCTGCTTAGAGGAGCTTTTTTTC
1 AAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGC--TTTTTC
**
6425792 AAGATGTTA-TTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGC-TTTTC
1 AAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTC
*
6425839 TAAGATGAGAA-TTTTAAAATTGTTGAGCCTCTG-TTGAGAGGAGCATTTTT-
1 -AAGATGA-AATTTTTAAAGTTGTTGAGCCTCTGCTT-AGAGGAGC-TTTTTC
* * *
6425889 -A-A-G-AATTTTTAAAGTTGTGGAGCCTCTGCTTAGAAGAGTTTTTTC
1 AAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTC
* * * * *
6425934 AATAT-AAATTTTTAAAGTTGTTGAGTCTTTGATTAGAGGAACTTT
1 AAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTT
6425979 ATAAATTAAA
Statistics
Matches: 490, Mismatches: 52, Indels: 66
0.81 0.09 0.11
Matches are distributed among these distances:
44 7 0.01
45 59 0.12
46 8 0.02
47 13 0.03
48 168 0.34
49 134 0.27
50 88 0.18
51 13 0.03
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (49 bp):
AAGATGAAATTTTTAAAGTTGTTGAGCCTCTGCTTAGAGGAGCTTTTTC
Found at i:6427005 original size:10 final size:10
Alignment explanation
Indices: 6426990--6427014 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
6426980 AAAAAAAATT
6426990 TTTTATATTA
1 TTTTATATTA
6427000 TTTTATATTA
1 TTTTATATTA
6427010 TTTTA
1 TTTTA
6427015 AAATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (10 bp):
TTTTATATTA
Found at i:6427098 original size:10 final size:10
Alignment explanation
Indices: 6427082--6427113 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
6427072 TTATTGTTTT
6427082 ATAATAATAA
1 ATAATAATAA
*
6427092 TTAATAATAA
1 ATAATAATAA
6427102 ATAATAATAA
1 ATAATAATAA
6427112 AT
1 AT
6427114 TTTATAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
10 20 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
ATAATAATAA
Found at i:6427184 original size:21 final size:21
Alignment explanation
Indices: 6427141--6427184 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
6427131 TGATAAGTAT
* *
6427141 AATTAAATAAAAATAATACAA
1 AATTAAATAAAAATAAGAAAA
6427162 AATT-AATAAAAAATAAGAAAA
1 AATTAAAT-AAAAATAAGAAAA
6427183 AA
1 AA
6427185 AAAATTTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 3 0.15
21 17 0.85
ACGTcount: A:0.75, C:0.02, G:0.02, T:0.20
Consensus pattern (21 bp):
AATTAAATAAAAATAAGAAAA
Found at i:6427376 original size:22 final size:22
Alignment explanation
Indices: 6427332--6427376 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
6427322 TTTCTTTTCT
* *
6427332 TTAATAAAATAATAAAAATTAA
1 TTAATAAAATAAGAAAAAGTAA
* *
6427354 TTAATAAATTAAGAATAAGTAA
1 TTAATAAAATAAGAAAAAGTAA
6427376 T
1 T
6427377 AAAAATGAGA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.62, C:0.00, G:0.04, T:0.33
Consensus pattern (22 bp):
TTAATAAAATAAGAAAAAGTAA
Found at i:6436714 original size:14 final size:14
Alignment explanation
Indices: 6436695--6436721 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6436685 TCAGCATACA
6436695 TTTTTCTTTTTTTC
1 TTTTTCTTTTTTTC
6436709 TTTTTCTTTTTTT
1 TTTTTCTTTTTTT
6436722 TGTTTGATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (14 bp):
TTTTTCTTTTTTTC
Found at i:6444413 original size:14 final size:14
Alignment explanation
Indices: 6444394--6444420 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
6444384 ATCATAACTG
6444394 AGTAAACTGACTAT
1 AGTAAACTGACTAT
6444408 AGTAAACTGACTA
1 AGTAAACTGACTA
6444421 ATGGATGATT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (14 bp):
AGTAAACTGACTAT
Found at i:6446467 original size:6 final size:7
Alignment explanation
Indices: 6446451--6446476 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
6446441 TCATTTTAAG
6446451 TTTTTAT
1 TTTTTAT
6446458 TTTTTAT
1 TTTTTAT
6446465 TTTTTAT
1 TTTTTAT
6446472 TTTTT
1 TTTTT
6446477 TGGGGTATCT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.12, C:0.00, G:0.00, T:0.88
Consensus pattern (7 bp):
TTTTTAT
Found at i:6448701 original size:3 final size:3
Alignment explanation
Indices: 6448693--6448718 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
6448683 GAGTTCACAC
6448693 ATA ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA ATA AT
6448719 TTATTTTAGT
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:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
ATA
Found at i:6451119 original size:11 final size:11
Alignment explanation
Indices: 6451103--6451144 Score: 54
Period size: 10 Copynumber: 4.0 Consensus size: 11
6451093 ATATTAGATC
6451103 ATATTATTTTT
1 ATATTATTTTT
6451114 ATATTA-TTTT
1 ATATTATTTTT
6451124 A-ATTATTTTT
1 ATATTATTTTT
6451134 -TATTATATTTT
1 ATATTAT-TTTT
6451145 CATCTTCTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 4 0.14
10 14 0.50
11 10 0.36
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (11 bp):
ATATTATTTTT
Found at i:6451133 original size:21 final size:20
Alignment explanation
Indices: 6451105--6451144 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
6451095 ATTAGATCAT
6451105 ATTATTTTTA-TATTATTTTA
1 ATTATTTTTATTA-TATTTTA
6451125 ATTATTTTTTATTATATTTT
1 ATTA-TTTTTATTATATTTT
6451145 CATCTTCTGT
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
20 4 0.22
21 12 0.67
22 2 0.11
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (20 bp):
ATTATTTTTATTATATTTTA
Found at i:6451976 original size:2 final size:2
Alignment explanation
Indices: 6451965--6451994 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
6451955 TGATTAATTG
6451965 TA TA TA -A 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 T
6451995 CAGTTATGTA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:6454548 original size:30 final size:31
Alignment explanation
Indices: 6454512--6454584 Score: 105
Period size: 30 Copynumber: 2.4 Consensus size: 31
6454502 TATTTAAAGG
6454512 AATTTAGTCCTTATAATATTA-CTTTTAAAA
1 AATTTAGTCCTTATAATATTATCTTTTAAAA
* *
6454542 AATTTAGT-CTCTATAATATTATTTTTTAAAG
1 AATTTAGTCCT-TATAATATTATCTTTTAAAA
6454573 AATTTAGTCCTT
1 AATTTAGTCCTT
6454585 GTGCATTGTT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
29 2 0.05
30 18 0.47
31 16 0.42
32 2 0.05
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.49
Consensus pattern (31 bp):
AATTTAGTCCTTATAATATTATCTTTTAAAA
Done.