Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168015.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_27, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 15675301
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 118000 characters in sequence are not A, C, G, or T
File 71 of 93
Found at i:10190485 original size:21 final size:20
Alignment explanation
Indices: 10190433--10190494 Score: 79
Period size: 20 Copynumber: 3.0 Consensus size: 20
10190423 AAAATAATAT
10190433 AAATCTAAAATTTTTAAAAA
1 AAATCTAAAATTTTTAAAAA
*
10190453 AAATCTAAAATTTTTGAAAA
1 AAATCTAAAATTTTTAAAAA
* *
10190473 AATTGTAACAATTTTTTAAAAA
1 AAATCTAA-AA-TTTTTAAAAA
10190495 TTATGAAAAA
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
20 25 0.69
21 2 0.06
22 9 0.25
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.37
Consensus pattern (20 bp):
AAATCTAAAATTTTTAAAAA
Found at i:10190563 original size:20 final size:19
Alignment explanation
Indices: 10190537--10190581 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 19
10190527 ACAATTTTAA
*
10190537 ATTTTTATATATTTTATGAAT
1 ATTTTTA-AAATTTT-TGAAT
10190558 -TTTTTAAAATTTTTGAAT
1 ATTTTTAAAATTTTTGAAT
10190576 ATTTTT
1 ATTTTT
10190582 GGATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
18 5 0.23
19 11 0.50
20 6 0.27
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.64
Consensus pattern (19 bp):
ATTTTTAAAATTTTTGAAT
Found at i:10190577 original size:29 final size:28
Alignment explanation
Indices: 10190531--10190608 Score: 83
Period size: 28 Copynumber: 2.8 Consensus size: 28
10190521 AATGTTACAA
10190531 TTTT-AAATTTTTATATATTTTATGAATT
1 TTTTAAAATTTTTATATATTTT-TGAATT
*
10190559 TTTTAAAATTTTTGA-ATATTTTTGGATT
1 TTTTAAAATTTTT-ATATATTTTTGAATT
10190587 TTTTATTAAATTTTT-TA-ATTTT
1 TTTTA--AAATTTTTATATATTTT
10190609 GAAAATTTTA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
28 19 0.43
29 16 0.36
30 9 0.20
ACGTcount: A:0.29, C:0.00, G:0.05, T:0.65
Consensus pattern (28 bp):
TTTTAAAATTTTTATATATTTTTGAATT
Found at i:10190623 original size:15 final size:15
Alignment explanation
Indices: 10190599--10190632 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
10190589 TTATTAAATT
10190599 TTTTAATTTTGAAAA
1 TTTTAATTTTGAAAA
*
10190614 TTTTATTTTTGAAAA
1 TTTTAATTTTGAAAA
10190629 TTTT
1 TTTT
10190633 TTAAATTTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (15 bp):
TTTTAATTTTGAAAA
Found at i:10190866 original size:26 final size:26
Alignment explanation
Indices: 10190837--10190900 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
10190827 AATTTTTTTA
*
10190837 ATTTTTATAATTTCTAAAAATATTTC
1 ATTTTTAAAATTTCTAAAAATATTTC
* * *
10190863 ATTTTTAAAATTTTTTAAAATGTTTC
1 ATTTTTAAAATTTCTAAAAATATTTC
10190889 ATGTTTTTAAAA
1 A--TTTTTAAAA
10190901 AAAATTTTGA
Statistics
Matches: 32, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
26 23 0.72
28 9 0.28
ACGTcount: A:0.38, C:0.05, G:0.03, T:0.55
Consensus pattern (26 bp):
ATTTTTAAAATTTCTAAAAATATTTC
Found at i:10193886 original size:15 final size:15
Alignment explanation
Indices: 10193846--10193878 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
10193836 ATGAGTTATC
*
10193846 ATTTGTGTTATATTT
1 ATTTGTTTTATATTT
10193861 ATTTGTTTTATATTT
1 ATTTGTTTTATATTT
10193876 ATT
1 ATT
10193879 ATTTTTATTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.21, C:0.00, G:0.09, T:0.70
Consensus pattern (15 bp):
ATTTGTTTTATATTT
Found at i:10218553 original size:14 final size:14
Alignment explanation
Indices: 10218534--10218565 Score: 50
Period size: 12 Copynumber: 2.4 Consensus size: 14
10218524 TCAATTCAAG
10218534 GCTTGAGACAAAAT
1 GCTTGAGACAAAAT
10218548 GCTT--GACAAAAT
1 GCTTGAGACAAAAT
10218560 GCTTGA
1 GCTTGA
10218566 TACCAATAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 4
0.80 0.00 0.20
Matches are distributed among these distances:
12 12 0.75
14 4 0.25
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.25
Consensus pattern (14 bp):
GCTTGAGACAAAAT
Found at i:10218557 original size:12 final size:12
Alignment explanation
Indices: 10218540--10218565 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
10218530 CAAGGCTTGA
10218540 GACAAAATGCTT
1 GACAAAATGCTT
10218552 GACAAAATGCTT
1 GACAAAATGCTT
10218564 GA
1 GA
10218566 TACCAATAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.42, C:0.15, G:0.19, T:0.23
Consensus pattern (12 bp):
GACAAAATGCTT
Found at i:10218869 original size:16 final size:16
Alignment explanation
Indices: 10218835--10218869 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
10218825 ATACAAGCTC
**
10218835 ATACCAATTGTTATGG
1 ATACCAATTGTTAAAG
10218851 ATACCAATTGTTAAAG
1 ATACCAATTGTTAAAG
10218867 ATA
1 ATA
10218870 TGTTATCATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.11, G:0.14, T:0.34
Consensus pattern (16 bp):
ATACCAATTGTTAAAG
Found at i:10220808 original size:13 final size:14
Alignment explanation
Indices: 10220785--10220814 Score: 53
Period size: 13 Copynumber: 2.2 Consensus size: 14
10220775 TTAGCCAAAA
10220785 AAAACATATTTCAC
1 AAAACATATTTCAC
10220799 AAAA-ATATTTCAC
1 AAAACATATTTCAC
10220812 AAA
1 AAA
10220815 TTAAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 12 0.75
14 4 0.25
ACGTcount: A:0.57, C:0.17, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAACATATTTCAC
Found at i:10225024 original size:55 final size:55
Alignment explanation
Indices: 10224936--10225041 Score: 160
Period size: 55 Copynumber: 1.9 Consensus size: 55
10224926 TTTTTTTTTT
*
10224936 AATCTTGTTTGAAAATGGCTCCCTCTAAACAGAGGCTTTGAAACTTTAAAAAAAA
1 AATCTTGTTTGAAAATGGCTCCCTCTAAACAGAGGCTTTAAAACTTTAAAAAAAA
* * *
10224991 AATCTTGTTTGAAAATGG-TTCATCTCAAGCAGAGGCTTTAAAACTTTAAAA
1 AATCTTGTTTGAAAATGGCTCCCTCT-AAACAGAGGCTTTAAAACTTTAAAA
10225042 TCTTATTTGA
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
54 5 0.11
55 41 0.89
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.31
Consensus pattern (55 bp):
AATCTTGTTTGAAAATGGCTCCCTCTAAACAGAGGCTTTAAAACTTTAAAAAAAA
Found at i:10225051 original size:49 final size:49
Alignment explanation
Indices: 10224989--10225083 Score: 136
Period size: 49 Copynumber: 1.9 Consensus size: 49
10224979 CTTTAAAAAA
* * *
10224989 AAAATCTTGTTTGAAAATGGTTCATCTCAAGCAGAGGCTTTAAAACTTT
1 AAAATCTTATTTGAAAATGGTTCATCTCAAACAGAAGCTTTAAAACTTT
* * *
10225038 AAAATCTTATTTGAAAATGGTTCCTCTTAAACAGAAGCTTTGAAAC
1 AAAATCTTATTTGAAAATGGTTCATCTCAAACAGAAGCTTTAAAAC
10225084 ATAAATTTTT
Statistics
Matches: 40, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.34
Consensus pattern (49 bp):
AAAATCTTATTTGAAAATGGTTCATCTCAAACAGAAGCTTTAAAACTTT
Found at i:10226149 original size:14 final size:14
Alignment explanation
Indices: 10226130--10226216 Score: 54
Period size: 14 Copynumber: 6.1 Consensus size: 14
10226120 TTGTGATTCA
10226130 TCTTCTTTTTTTTT
1 TCTTCTTTTTTTTT
10226144 TCTTCTTTGTTATTTT
1 TCTTCTTT-TT-TTTT
* *
10226160 TGTT-TTATTTTGTT
1 TCTTCTT-TTTTTTT
* *
10226174 T-TTATTTTATTTAT
1 TCTTCTTTT-TTTTT
* *
10226188 T-TTATTTTTTTTG
1 TCTTCTTTTTTTTT
10226201 TCTCTCTTTTTTTTT
1 TCT-TCTTTTTTTTT
10226216 T
1 T
10226217 GTCTCATTCT
Statistics
Matches: 58, Mismatches: 8, Indels: 13
0.73 0.10 0.16
Matches are distributed among these distances:
13 8 0.14
14 26 0.45
15 16 0.28
16 8 0.14
ACGTcount: A:0.07, C:0.08, G:0.05, T:0.80
Consensus pattern (14 bp):
TCTTCTTTTTTTTT
Found at i:10236881 original size:3 final size:3
Alignment explanation
Indices: 10236866--10236907 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
10236856 TTACCGCTAT
*
10236866 TAA TAA GAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10236908 ATTATTATTA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (3 bp):
TAA
Found at i:10242287 original size:13 final size:13
Alignment explanation
Indices: 10242271--10242300 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
10242261 TTTCTCTACT
10242271 TTTCCTTTTCCTC
1 TTTCCTTTTCCTC
*
10242284 TTTCTTTTTCCTC
1 TTTCCTTTTCCTC
10242297 TTTC
1 TTTC
10242301 ATCTTCCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (13 bp):
TTTCCTTTTCCTC
Found at i:10242312 original size:20 final size:19
Alignment explanation
Indices: 10242270--10242313 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 19
10242260 CTTTCTCTAC
* * *
10242270 TTTTCCTTTTCCTCTTTCT
1 TTTTCCTTTTCATCTTCCA
10242289 TTTTCCTCTTTCATCTTCCA
1 TTTTCCT-TTTCATCTTCCA
10242309 TTTTC
1 TTTTC
10242314 TTATATTTAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.05, C:0.32, G:0.00, T:0.64
Consensus pattern (19 bp):
TTTTCCTTTTCATCTTCCA
Found at i:10242395 original size:14 final size:14
Alignment explanation
Indices: 10242376--10242402 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
10242366 ATGCAACATA
10242376 ATTTTTAAAAATTT
1 ATTTTTAAAAATTT
10242390 ATTTTTAAAAATT
1 ATTTTTAAAAATT
10242403 ATAATATATT
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:0.00, G:0.00, T:0.56
Consensus pattern (14 bp):
ATTTTTAAAAATTT
Found at i:10242538 original size:34 final size:34
Alignment explanation
Indices: 10242459--10242538 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 34
10242449 CTGAAATGAA
* * *
10242459 ATTTCTCAAAAATAGATTTCTAGAACCTTAAATG
1 ATTTCTCAAAAATAAATTTCAAAAACCTTAAATG
*
10242493 -TTTTTCAAAAATAAATTTTCAAAAACCTTAAA-G
1 ATTTCTCAAAAATAAA-TTTCAAAAACCTTAAATG
*
10242526 ATTTCTCGAAAAT
1 ATTTCTCAAAAAT
10242539 GCATTTGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
33 14 0.37
34 24 0.63
ACGTcount: A:0.44, C:0.14, G:0.06, T:0.36
Consensus pattern (34 bp):
ATTTCTCAAAAATAAATTTCAAAAACCTTAAATG
Found at i:10244515 original size:16 final size:15
Alignment explanation
Indices: 10244492--10244532 Score: 52
Period size: 16 Copynumber: 2.9 Consensus size: 15
10244482 TAATATTATC
10244492 ATTT-ATATTAATTA
1 ATTTAATATTAATTA
10244506 ATTATAATATTAA-TA
1 ATT-TAATATTAATTA
10244521 ATTTAA-ATTAAT
1 ATTTAATATTAAT
10244533 ATATCAAAAT
Statistics
Matches: 24, Mismatches: 0, Indels: 6
0.80 0.00 0.20
Matches are distributed among these distances:
13 5 0.21
14 6 0.25
15 6 0.25
16 7 0.29
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTAATATTAATTA
Found at i:10244553 original size:29 final size:25
Alignment explanation
Indices: 10244501--10244559 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 25
10244491 CATTTATATT
*
10244501 AATTAATTATAATATTAATAATTTA
1 AATTAATTATAAAATTAATAATTTA
10244526 AATTAATATATCAAAATTAATATTATTTA
1 AATTAAT-TAT-AAAATTAATA--ATTTA
10244555 AATTA
1 AATTA
10244560 GTACAAATAT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
25 7 0.24
26 3 0.10
27 9 0.31
29 10 0.34
ACGTcount: A:0.53, C:0.02, G:0.00, T:0.46
Consensus pattern (25 bp):
AATTAATTATAAAATTAATAATTTA
Found at i:10244715 original size:20 final size:19
Alignment explanation
Indices: 10244680--10244731 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 19
10244670 ATAACATGAA
*
10244680 ATTAATATAATAAAAATAT
1 ATTAAAATAATAAAAATAT
*
10244699 ATTAAAATAAGTAAAAATTT
1 ATTAAAATAA-TAAAAATAT
10244719 ATTAAAAATAATA
1 ATT-AAAATAATA
10244732 TAACTAAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
19 9 0.31
20 13 0.45
21 7 0.24
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (19 bp):
ATTAAAATAATAAAAATAT
Found at i:10245349 original size:20 final size:21
Alignment explanation
Indices: 10245324--10245366 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
10245314 ATTATATTAT
10245324 TTTTAATAAATTTTTACT-TA
1 TTTTAATAAATTTTTACTATA
*
10245344 TTTTAATATATTTTTACTATA
1 TTTTAATAAATTTTTACTATA
10245365 TT
1 TT
10245367 AATTTTATGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
20 17 0.81
21 4 0.19
ACGTcount: A:0.33, C:0.05, G:0.00, T:0.63
Consensus pattern (21 bp):
TTTTAATAAATTTTTACTATA
Found at i:10245358 original size:11 final size:11
Alignment explanation
Indices: 10245321--10245366 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 11
10245311 ATAATTATAT
10245321 TATTTTTAATA
1 TATTTTTAATA
* *
10245332 AATTTTTACT-
1 TATTTTTAATA
10245342 TA-TTTTAATA
1 TATTTTTAATA
*
10245352 TATTTTTACTA
1 TATTTTTAATA
10245363 TATT
1 TATT
10245367 AATTTTATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 4
0.76 0.14 0.11
Matches are distributed among these distances:
9 6 0.21
10 3 0.11
11 19 0.68
ACGTcount: A:0.33, C:0.04, G:0.00, T:0.63
Consensus pattern (11 bp):
TATTTTTAATA
Found at i:10245583 original size:14 final size:14
Alignment explanation
Indices: 10245511--10245584 Score: 50
Period size: 14 Copynumber: 5.4 Consensus size: 14
10245501 TATTAATTTA
*
10245511 AATTATTAATATTAT
1 AATTATTAATAAT-T
*
10245526 AATTAATTAAT-ATA
1 AATT-ATTAATAATT
*
10245540 AATGA-TAATAA-T
1 AATTATTAATAATT
*
10245552 -ATTATTAAT-ATG
1 AATTATTAATAATT
10245564 ATATTATTAATAATT
1 A-ATTATTAATAATT
10245579 AATTAT
1 AATTAT
10245585 ATATAATAAA
Statistics
Matches: 45, Mismatches: 7, Indels: 15
0.67 0.10 0.22
Matches are distributed among these distances:
11 4 0.09
12 8 0.18
13 2 0.04
14 17 0.38
15 8 0.18
16 6 0.13
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (14 bp):
AATTATTAATAATT
Found at i:10249884 original size:12 final size:13
Alignment explanation
Indices: 10249867--10249895 Score: 51
Period size: 12 Copynumber: 2.3 Consensus size: 13
10249857 TGTTTTATGG
10249867 ATAAGATAATA-A
1 ATAAGATAATATA
10249879 ATAAGATAATATA
1 ATAAGATAATATA
10249892 ATAA
1 ATAA
10249896 TTATTTTATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 11 0.69
13 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.07, T:0.28
Consensus pattern (13 bp):
ATAAGATAATATA
Found at i:10249959 original size:13 final size:13
Alignment explanation
Indices: 10249920--10249964 Score: 54
Period size: 13 Copynumber: 3.3 Consensus size: 13
10249910 AGTTCTGTTC
*
10249920 ATTTCTTAAAAAGT
1 ATTT-TTAAAAATT
*
10249934 ACTTTTAAAAAATT
1 A-TTTTTAAAAATT
10249948 ATTTTTAAAAATT
1 ATTTTTAAAAATT
10249961 ATTT
1 ATTT
10249965 GTATTTTCTG
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
13 15 0.56
14 9 0.33
15 3 0.11
ACGTcount: A:0.44, C:0.04, G:0.02, T:0.49
Consensus pattern (13 bp):
ATTTTTAAAAATT
Found at i:10250169 original size:53 final size:51
Alignment explanation
Indices: 10250075--10250193 Score: 130
Period size: 53 Copynumber: 2.3 Consensus size: 51
10250065 TATTAATATA
** *
10250075 ACTATTAAAATATTAAAATTTATTTATTATTAAAGTATAATAAAAATTATTT
1 ACTATTAAAATATTAAAATTTAAATATAATTAAAGTATAATAAAAA-TATTT
** * * * * *
10250127 GTTATTAAAATTATTAATATTTAAATATAATTATATTTTAATAATAATATTT
1 ACTATTAAAA-TATTAAAATTTAAATATAATTAAAGTATAATAAAAATATTT
10250179 ACTATTAAAATATTA
1 ACTATTAAAATATTA
10250194 TGTTGATATA
Statistics
Matches: 54, Mismatches: 12, Indels: 3
0.78 0.17 0.04
Matches are distributed among these distances:
51 5 0.09
52 21 0.39
53 28 0.52
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.48
Consensus pattern (51 bp):
ACTATTAAAATATTAAAATTTAAATATAATTAAAGTATAATAAAAATATTT
Found at i:10250266 original size:35 final size:35
Alignment explanation
Indices: 10250226--10250403 Score: 118
Period size: 35 Copynumber: 5.1 Consensus size: 35
10250216 TAAAACTATT
*
10250226 TATTATTTTTATATTAT-TTTATTAATATATTAATA
1 TATTATTTTTATATAATATTTATTAATATATT-ATA
** *
10250261 TATTATTTATTA-ATAATGCTTATTAATACATTATA
1 TATTATTT-TTATATAATATTTATTAATATATTATA
*
10250296 -A-TATTTTTATTAATAATATTTATTAATATATT-TT
1 TATTATTTTTA-T-ATAATATTTATTAATATATTATA
* * * * *
10250330 TACTAATATAATATAATCTATTTATTAATATAATAT-
1 TATTATTTTTATATAA--TATTTATTAATATATTATA
** *
10250366 TATT-TTATAAATAATATTATTTATTAATATATTATA
1 TATTATT-TTTAT-ATAATATTTATTAATATATTATA
10250402 TA
1 TA
10250404 AGTAGTATAT
Statistics
Matches: 113, Mismatches: 17, Indels: 25
0.73 0.11 0.16
Matches are distributed among these distances:
32 3 0.03
33 5 0.04
34 6 0.05
35 52 0.46
36 43 0.38
37 4 0.04
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.56
Consensus pattern (35 bp):
TATTATTTTTATATAATATTTATTAATATATTATA
Found at i:10250346 original size:24 final size:24
Alignment explanation
Indices: 10250292--10250359 Score: 66
Period size: 24 Copynumber: 2.8 Consensus size: 24
10250282 ATTAATACAT
* *
10250292 TATAATATTTTTATTAATAATAT-T
1 TATAATATATTT-TTAATAATATAA
*
10250316 TATTAATATATTTTTACTAATATAA
1 TA-TAATATATTTTTAATAATATAA
*
10250341 TATAATCTATTTATTAATA
1 TATAATATATTT-TTAATA
10250360 TAATATTATT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 20 0.56
25 16 0.44
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (24 bp):
TATAATATATTTTTAATAATATAA
Found at i:10250354 original size:49 final size:50
Alignment explanation
Indices: 10250253--10250366 Score: 133
Period size: 49 Copynumber: 2.3 Consensus size: 50
10250243 TTTATTAATA
* * *
10250253 TATTAATATATTATTTATTAATAATGCTTATTAATACATTATAATATTTT
1 TATTAATATATTATTTATTAATAATGCTTACTAATACAATATAATATATT
** * *
10250303 TATTAATA-A-TATTTATTAATATATTTTTACTAATATAATATAATCTATT
1 TATTAATATATTATTTATTAATA-ATGCTTACTAATACAATATAATATATT
*
10250352 TATTAATATAATATT
1 TATTAATATATTATT
10250367 ATTTTATAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 5
0.82 0.11 0.08
Matches are distributed among these distances:
48 12 0.22
49 29 0.54
50 9 0.17
51 4 0.07
ACGTcount: A:0.42, C:0.04, G:0.01, T:0.54
Consensus pattern (50 bp):
TATTAATATATTATTTATTAATAATGCTTACTAATACAATATAATATATT
Found at i:10250439 original size:27 final size:27
Alignment explanation
Indices: 10250253--10250439 Score: 106
Period size: 31 Copynumber: 6.8 Consensus size: 27
10250243 TTTATTAATA
* *
10250253 TATTAATATATTATTTATTA-ATAATGCT
1 TATTAATATATTATTAATTATATTAT--T
*
10250281 TATTAATACATTA-T-A--ATATT-TT
1 TATTAATATATTATTAATTATATTATT
10250303 TATTAATAATATTTATTAA-TATATT-TT
1 TATTAAT-ATA-TTATTAATTATATTATT
* *
10250330 TACTAATATAATA-TAATCTAT-TTATT
1 TATTAATATATTATTAAT-TATATTATT
* * *
10250356 AATATAATATTATTTTATAAATAATATTATT
1 TAT-TAATA-TA--TTATTAATTATATTATT
10250387 TATTAATATATTATATAAGTAGTATATTATT
1 TATTAATATATTAT-TAA-T--TATATTATT
*
10250418 TATTAATATAATATTAATTATA
1 TATTAATATATTATTAATTATA
10250440 AATAAAATTA
Statistics
Matches: 126, Mismatches: 14, Indels: 39
0.70 0.08 0.22
Matches are distributed among these distances:
22 8 0.06
23 2 0.02
24 8 0.06
25 7 0.06
26 11 0.09
27 27 0.21
28 16 0.13
29 4 0.03
30 12 0.10
31 31 0.25
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.53
Consensus pattern (27 bp):
TATTAATATATTATTAATTATATTATT
Found at i:10252360 original size:2 final size:2
Alignment explanation
Indices: 10252355--10252387 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
10252345 AAATGAAAAA
10252355 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10252388 AAAGCTAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:10258452 original size:17 final size:17
Alignment explanation
Indices: 10258430--10258463 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
10258420 AAATATTAAT
10258430 AAAAGAAAAAAAAAAAG
1 AAAAGAAAAAAAAAAAG
*
10258447 AAAAGAATAAAAAAAAG
1 AAAAGAAAAAAAAAAAG
10258464 TTTTTTAAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.12, T:0.03
Consensus pattern (17 bp):
AAAAGAAAAAAAAAAAG
Found at i:10258462 original size:12 final size:13
Alignment explanation
Indices: 10258427--10258463 Score: 51
Period size: 12 Copynumber: 3.0 Consensus size: 13
10258417 AATAAATATT
10258427 AATAAAAGAAAA-
1 AATAAAAGAAAAG
*
10258439 AAAAAAAGAAAAG
1 AATAAAAGAAAAG
10258452 AATAAAA-AAAAG
1 AATAAAAGAAAAG
10258464 TTTTTTAAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.84, C:0.00, G:0.11, T:0.05
Consensus pattern (13 bp):
AATAAAAGAAAAG
Found at i:10259585 original size:6 final size:6
Alignment explanation
Indices: 10259574--10259617 Score: 88
Period size: 6 Copynumber: 7.3 Consensus size: 6
10259564 AAGATGGATG
10259574 CAGATA CAGATA CAGATA CAGATA CAGATA CAGATA CAGATA CA
1 CAGATA CAGATA CAGATA CAGATA CAGATA CAGATA CAGATA CA
10259618 TTACTGAAAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 38 1.00
ACGTcount: A:0.50, C:0.18, G:0.16, T:0.16
Consensus pattern (6 bp):
CAGATA
Found at i:10262198 original size:68 final size:67
Alignment explanation
Indices: 10262085--10262221 Score: 229
Period size: 68 Copynumber: 2.0 Consensus size: 67
10262075 GTGTACGACG
*
10262085 CTCTTGTCCTCCCCTTTTTTACTTCTCTTATGAAAGTTACACACTGTGAATTTTATGGTCAACAA
1 CTCTTGTCCTCCCCTTTTTTACTTCTCCTATGAAAGTTACACACTGTGAATTTTATGGTCAACAA
10262150 CA
66 CA
* * *
10262152 CTCTTGTCCTCCTCCTTTTTTCCTTCTCCTATGAAAGTTACTCACTGTGAGTTTTATGGTCAACA
1 CTCTTGTCCTCC-CCTTTTTTACTTCTCCTATGAAAGTTACACACTGTGAATTTTATGGTCAACA
10262217 ACA
65 ACA
10262220 CT
1 CT
10262222 GCCATGCTGC
Statistics
Matches: 65, Mismatches: 4, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
67 12 0.18
68 53 0.82
ACGTcount: A:0.21, C:0.27, G:0.11, T:0.41
Consensus pattern (67 bp):
CTCTTGTCCTCCCCTTTTTTACTTCTCCTATGAAAGTTACACACTGTGAATTTTATGGTCAACAA
CA
Found at i:10262472 original size:21 final size:21
Alignment explanation
Indices: 10262446--10262488 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
10262436 TATTCAATAA
10262446 ATTACCAAGATACATGGTGAC
1 ATTACCAAGATACATGGTGAC
10262467 ATTACCAAGATACATGGTGAC
1 ATTACCAAGATACATGGTGAC
10262488 A
1 A
10262489 CGTACATGTC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.40, C:0.19, G:0.19, T:0.23
Consensus pattern (21 bp):
ATTACCAAGATACATGGTGAC
Found at i:10266361 original size:23 final size:22
Alignment explanation
Indices: 10266318--10266366 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
10266308 ATAATTATTT
* *
10266318 TTAATTAATAAAAATTTTAAAAA
1 TTAATTAATAAAAAATAT-AAAA
10266341 TTAA-TAATTAAAAAATATAAAA
1 TTAATTAA-TAAAAAATATAAAA
10266363 TTAA
1 TTAA
10266367 AGCAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (22 bp):
TTAATTAATAAAAAATATAAAA
Found at i:10266453 original size:13 final size:13
Alignment explanation
Indices: 10266435--10266473 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
10266425 TTTTCAATAT
10266435 TTTTATTAAAAAA
1 TTTTATTAAAAAA
*
10266448 TTTTATTAAAAGA
1 TTTTATTAAAAAA
10266461 TTTT-TTACAAAAA
1 TTTTATTA-AAAAA
10266474 AAAATTCACC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
12 3 0.13
13 20 0.87
ACGTcount: A:0.49, C:0.03, G:0.03, T:0.46
Consensus pattern (13 bp):
TTTTATTAAAAAA
Found at i:10271824 original size:2 final size:2
Alignment explanation
Indices: 10271819--10271859 Score: 66
Period size: 2 Copynumber: 21.0 Consensus size: 2
10271809 CAGAGCGCGC
*
10271819 AT AT AT AT AT AT AT AT AT AT AT AT -T AT AT TT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10271860 GGAGAAAGAA
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (2 bp):
AT
Found at i:10272012 original size:16 final size:15
Alignment explanation
Indices: 10271991--10272044 Score: 56
Period size: 16 Copynumber: 3.5 Consensus size: 15
10271981 AATTCTGTTT
10271991 ATTAATATTAAAATTA
1 ATTAATATTAAAA-TA
10272007 ATTAATAATT-AAATA
1 ATTAAT-ATTAAAATA
* *
10272022 TATTAATAATATAATA
1 -ATTAATATTAAAATA
10272038 ATTAATA
1 ATTAATA
10272045 AAAACAAAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
15 11 0.33
16 19 0.58
17 3 0.09
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (15 bp):
ATTAATATTAAAATA
Found at i:10272018 original size:11 final size:12
Alignment explanation
Indices: 10271991--10272044 Score: 60
Period size: 12 Copynumber: 4.6 Consensus size: 12
10271981 AATTCTGTTT
10271991 ATTAATATTAA-A
1 ATTAATA-TAATA
10272003 ATTAAT-TAATA
1 ATTAATATAATA
*
10272014 ATTAAATATATTA
1 ATT-AATATAATA
10272027 A-TAATATAATA
1 ATTAATATAATA
10272038 ATTAATA
1 ATTAATA
10272045 AAAACAAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 8
0.78 0.04 0.17
Matches are distributed among these distances:
10 3 0.08
11 13 0.36
12 15 0.42
13 5 0.14
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTAATATAATA
Found at i:10272029 original size:8 final size:7
Alignment explanation
Indices: 10272005--10272045 Score: 55
Period size: 8 Copynumber: 5.4 Consensus size: 7
10271995 ATATTAAAAT
10272005 TAATTAA
1 TAATTAA
10272012 TAATTAAA
1 TAATT-AA
10272020 TATATTAA
1 TA-ATTAA
10272028 TAATATAA
1 TAAT-TAA
10272036 TAATTAA
1 TAATTAA
10272043 TAA
1 TAA
10272046 AAACAAAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
7 13 0.42
8 15 0.48
9 3 0.10
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (7 bp):
TAATTAA
Found at i:10273971 original size:3 final size:3
Alignment explanation
Indices: 10273963--10274037 Score: 64
Period size: 3 Copynumber: 24.7 Consensus size: 3
10273953 TTGATTATTT
* * *
10273963 TAA TAA TAA TAA TAA TAA TGCA -AA CAA TAA AAA GTAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA -TAA TAA TAA TAA
* *
10274009 TAAA TAA TGA TAA TAA GAA TAA -AA TAA TA
1 T-AA TAA TAA TAA TAA TAA TAA TAA TAA TA
10274038 TTTTTTATTT
Statistics
Matches: 58, Mismatches: 9, Indels: 10
0.75 0.12 0.13
Matches are distributed among these distances:
2 3 0.05
3 49 0.84
4 6 0.10
ACGTcount: A:0.65, C:0.03, G:0.05, T:0.27
Consensus pattern (3 bp):
TAA
Found at i:10274010 original size:19 final size:18
Alignment explanation
Indices: 10273988--10274037 Score: 57
Period size: 19 Copynumber: 2.7 Consensus size: 18
10273978 TAATGCAAAC
*
10273988 AATAAAAAGTAATAATAAT
1 AATAAAAA-TAATAATAAG
*
10274007 AATAAATAATGATAATAAG
1 AATAAA-AATAATAATAAG
10274026 AAT-AAAATAATA
1 AATAAAAATAATA
10274038 TTTTTTATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 6 0.22
18 2 0.07
19 17 0.63
20 2 0.07
ACGTcount: A:0.68, C:0.00, G:0.06, T:0.26
Consensus pattern (18 bp):
AATAAAAATAATAATAAG
Found at i:10274330 original size:14 final size:14
Alignment explanation
Indices: 10274313--10274386 Score: 67
Period size: 14 Copynumber: 5.2 Consensus size: 14
10274303 TAAAAAATTA
*
10274313 AAAATCAAAACCGT
1 AAAATCAAAACCCT
**
10274327 AAAATCCAAAACTTT
1 AAAAT-CAAAACCCT
* *
10274342 AAAATCCAAATCCT
1 AAAATCAAAACCCT
**
10274356 AACTTCAAAACCCT
1 AAAATCAAAACCCT
*
10274370 AAAATTAAAACCCT
1 AAAATCAAAACCCT
10274384 AAA
1 AAA
10274387 CCTTCCAAAC
Statistics
Matches: 46, Mismatches: 13, Indels: 2
0.75 0.21 0.03
Matches are distributed among these distances:
14 34 0.74
15 12 0.26
ACGTcount: A:0.54, C:0.24, G:0.01, T:0.20
Consensus pattern (14 bp):
AAAATCAAAACCCT
Found at i:10274336 original size:15 final size:15
Alignment explanation
Indices: 10274313--10274351 Score: 53
Period size: 15 Copynumber: 2.7 Consensus size: 15
10274303 TAAAAAATTA
10274313 AAAAT-CAAAACCGT
1 AAAATCCAAAACCGT
**
10274327 AAAATCCAAAACTTT
1 AAAATCCAAAACCGT
10274342 AAAATCCAAA
1 AAAATCCAAA
10274352 TCCTAACTTC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 5 0.23
15 17 0.77
ACGTcount: A:0.59, C:0.21, G:0.03, T:0.18
Consensus pattern (15 bp):
AAAATCCAAAACCGT
Found at i:10278312 original size:25 final size:25
Alignment explanation
Indices: 10278274--10278321 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
10278264 TTATATTTTT
*
10278274 ATTTTTACAAAAATTATGATATATA
1 ATTTTTACAAAAATTATAATATATA
* *
10278299 ATTTTTATATAAATTATAATATA
1 ATTTTTACAAAAATTATAATATA
10278322 AAAATATAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (25 bp):
ATTTTTACAAAAATTATAATATATA
Found at i:10279064 original size:17 final size:16
Alignment explanation
Indices: 10279037--10279068 Score: 55
Period size: 17 Copynumber: 1.9 Consensus size: 16
10279027 GATTTTAAAT
10279037 TAAATATAAAAATAAG
1 TAAATATAAAAATAAG
10279053 TAAATAATAAAAATAA
1 TAAAT-ATAAAAATAA
10279069 TTTAAACAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.72, C:0.00, G:0.03, T:0.25
Consensus pattern (16 bp):
TAAATATAAAAATAAG
Found at i:10280832 original size:28 final size:30
Alignment explanation
Indices: 10280801--10280872 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 30
10280791 ATATTGGTTT
**
10280801 AATTAAAATAAAAAATT-AATTAAT-TAAA
1 AATTAAAATAAAAAATTGAAAAAATATAAA
**
10280829 AATT-ATTTAAAAAATTGAAAAAATATAAA
1 AATTAAAATAAAAAATTGAAAAAATATAAA
10280858 AATATAAAA-AAAAAA
1 AAT-TAAAATAAAAAA
10280873 CAAAAAAAAG
Statistics
Matches: 34, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
27 10 0.29
28 9 0.26
29 7 0.21
30 7 0.21
31 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.01, T:0.28
Consensus pattern (30 bp):
AATTAAAATAAAAAATTGAAAAAATATAAA
Found at i:10281983 original size:3 final size:3
Alignment explanation
Indices: 10281975--10282065 Score: 60
Period size: 3 Copynumber: 29.3 Consensus size: 3
10281965 TAATTATTTT
* * * *
10281975 TAA TAA TAA TAA AAA TAA -AA TAGGA TAA TAA CTAA AAA AAA TAC TAA
1 TAA TAA TAA TAA TAA TAA TAA TA--A TAA TAA -TAA TAA TAA TAA TAA
* **
10282022 AAA TGCT TAA ATAA TAA TAA TAA TAA TAA T-A TAA TAA TAA TAA T
1 TAA T-AA TAA -TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T
10282066 CTAAAAAAAT
Statistics
Matches: 69, Mismatches: 12, Indels: 14
0.73 0.13 0.15
Matches are distributed among these distances:
2 4 0.06
3 55 0.80
4 7 0.10
5 3 0.04
ACGTcount: A:0.65, C:0.03, G:0.03, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:10282281 original size:3 final size:3
Alignment explanation
Indices: 10282231--10282261 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
10282221 TACAAAAAGG
10282231 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10282262 ATTGATCTTT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10282515 original size:15 final size:15
Alignment explanation
Indices: 10282408--10282520 Score: 79
Period size: 15 Copynumber: 7.6 Consensus size: 15
10282398 TTTAAACCTT
*
10282408 AAATCCAAAATCCTA
1 AAATCCAAAACCCTA
**
10282423 AAAT-TGAAACTCCTA
1 AAATCCAAAAC-CCTA
* *
10282438 AAATCTAAAACCCTT
1 AAATCCAAAACCCTA
*
10282453 AAA-CCCAAACCCTTA
1 AAATCCAAAACCC-TA
* *
10282468 GAATCCTAAACCCTA
1 AAATCCAAAACCCTA
* * *
10282483 AAATTC-AAACCTTT
1 AAATCCAAAACCCTA
*
10282497 AAATTCAAAACCCTA
1 AAATCCAAAACCCTA
10282512 AAATCCAAA
1 AAATCCAAA
10282521 CCCCAAAACT
Statistics
Matches: 76, Mismatches: 17, Indels: 10
0.74 0.17 0.10
Matches are distributed among these distances:
14 22 0.29
15 41 0.54
16 13 0.17
ACGTcount: A:0.49, C:0.27, G:0.02, T:0.22
Consensus pattern (15 bp):
AAATCCAAAACCCTA
Found at i:10282550 original size:44 final size:44
Alignment explanation
Indices: 10282401--10282550 Score: 107
Period size: 44 Copynumber: 3.4 Consensus size: 44
10282391 CGTTTTCTTT
* * * *
10282401 AAACCTTAAATCCAAAATCC-TAAAAT--TGAAACTCCTAAAATCTA
1 AAACCTTAAACCCAAAACCCTTAAAATCCT-AAAC-CCCAAAAT-TC
* *
10282445 AAACCCTTAAACCC-AAACCCTTAGAATCCTAAACCCTAAAATTC
1 AAA-CCTTAAACCCAAAACCCTTAAAATCCTAAACCCCAAAATTC
**
10282489 AAACCTTTAAATTCAAAACCC-TAAAATCC-AAACCCCAAAACTTTC
1 AAACC-TTAAACCCAAAACCCTTAAAATCCTAAACCCCAAAA--TTC
10282534 GAAACC-TAAACCCAAAA
1 -AAACCTTAAACCCAAAA
10282551 TTTATAAATC
Statistics
Matches: 87, Mismatches: 10, Indels: 18
0.76 0.09 0.16
Matches are distributed among these distances:
43 12 0.14
44 34 0.39
45 31 0.36
46 9 0.10
47 1 0.01
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (44 bp):
AAACCTTAAACCCAAAACCCTTAAAATCCTAAACCCCAAAATTC
Found at i:10282563 original size:22 final size:24
Alignment explanation
Indices: 10282512--10282565 Score: 62
Period size: 22 Copynumber: 2.4 Consensus size: 24
10282502 CAAAACCCTA
*
10282512 AAATCC-AAACCCCAAAACTTTCG
1 AAATCCTAAACCCCAAAACTTTAG
*
10282535 AAA-CCTAAA-CCCAAAA-TTTAT
1 AAATCCTAAACCCCAAAACTTTAG
10282556 AAATCCTAAA
1 AAATCCTAAA
10282566 ATCAAAACTC
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 6 0.22
22 15 0.56
23 6 0.22
ACGTcount: A:0.50, C:0.28, G:0.02, T:0.20
Consensus pattern (24 bp):
AAATCCTAAACCCCAAAACTTTAG
Found at i:10282680 original size:15 final size:14
Alignment explanation
Indices: 10282645--10282695 Score: 59
Period size: 14 Copynumber: 3.6 Consensus size: 14
10282635 AACTTTCTAT
*
10282645 ACCCTAAAATTCAA
1 ACCCTAAAATCCAA
*
10282659 GCCCTAAAATCCAA
1 ACCCTAAAATCCAA
*
10282673 ACCCCT-AAAGCCAA
1 A-CCCTAAAATCCAA
10282687 ACCCTAAAA
1 ACCCTAAAA
10282696 CATTTAAAAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
13 4 0.13
14 23 0.74
15 4 0.13
ACGTcount: A:0.47, C:0.35, G:0.04, T:0.14
Consensus pattern (14 bp):
ACCCTAAAATCCAA
Found at i:10289712 original size:11 final size:11
Alignment explanation
Indices: 10289698--10289723 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
10289688 AAAACAAAAC
10289698 AAAAAAAGAGA
1 AAAAAAAGAGA
10289709 AAAAAAAGAGA
1 AAAAAAAGAGA
10289720 AAAA
1 AAAA
10289724 TATGTACCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (11 bp):
AAAAAAAGAGA
Found at i:10290819 original size:15 final size:15
Alignment explanation
Indices: 10290796--10290825 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10290786 ATAAGAAAGA
10290796 CATTCGCATTTGCAT
1 CATTCGCATTTGCAT
*
10290811 CATTTGCATTTGCAT
1 CATTCGCATTTGCAT
10290826 TTGCATTTGT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.20, C:0.23, G:0.13, T:0.43
Consensus pattern (15 bp):
CATTCGCATTTGCAT
Found at i:10291225 original size:41 final size:40
Alignment explanation
Indices: 10291147--10291231 Score: 95
Period size: 41 Copynumber: 2.1 Consensus size: 40
10291137 GCAAGTTTTT
*
10291147 AAGATTTCAAAGCCTTGTTTAAGAGGAACCAATTTCAATC
1 AAGATTTCAAAGCCTTGTTTAAGAGGAACCAATTTCAAAC
*
10291187 AAGATTTCAAAGTCAC-TGTTT-AGAAGGAACC-TTATTCAAAC
1 AAGATTTCAAAG-C-CTTGTTTAAG-AGGAACCAAT-TTCAAAC
10291228 AAGA
1 AAGA
10291232 CCTTTAGAGT
Statistics
Matches: 39, Mismatches: 2, Indels: 7
0.81 0.04 0.15
Matches are distributed among these distances:
40 15 0.38
41 23 0.59
42 1 0.03
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.28
Consensus pattern (40 bp):
AAGATTTCAAAGCCTTGTTTAAGAGGAACCAATTTCAAAC
Found at i:10291770 original size:115 final size:115
Alignment explanation
Indices: 10291421--10291780 Score: 377
Period size: 128 Copynumber: 3.0 Consensus size: 115
10291411 TTTTTCAAAA
* * * *
10291421 TTTAAAGTTTCATTGCCTCTGATTAAGAGGAGCATTCAAAGATTTTGAA-ATTTGTAAGACTTTC
1 TTTAAAGTTTCATTACCTCTGATTAGGAGGAGCATTCAAAGATTTT-AAGATTTGTAAAAC-CTC
* * * ** * *
10291485 -GGGCGTAATCTCTAAAACCTCCAGACACAACTTCTAAGATTTTTGGGCAAAAGGTTTTTAAATT
64 AGGACATAATCTCTAAGACCTCC-G-GGCAA-----AAGATTTTT----AAAA-TTTT-TAAAGT
* * *
10291549 TTTAAAGTTTCATTGCCTCTGATTAGGAGGATCATTCAAAGATTTTAAGATTTGTAAAACCTCTG
1 TTTAAAGTTTCATTACCTCTGATTAGGAGGAGCATTCAAAGATTTTAAGATTTGTAAAACCTCAG
* *
10291614 GACATAATTTCTAAGACCTCCGGGTAAAAGATTTTTAAAATTTTTAAAGT
66 GACATAATCTCTAAGACCTCCGGGCAAAAGATTTTTAAAATTTTTAAAGT
*
10291664 TTTAAAGTTTCATTACCTCTGATTAGGAGGAGCATTCAAAGATTTTTGAGATTTGTAAAACCTCC
1 TTTAAAGTTTCATTACCTCTGATTAGGAGGAGCATTCAAAGA-TTTTAAGATTTGTAAAACCT-C
*
10291729 AGG-CATAATCTCTAAGACCTTCGGGCAAAAGATTTTT-AAATTTTTAAAGT
64 AGGACATAATCTCTAAGACCTCCGGGCAAAAGATTTTTAAAATTTTTAAAGT
10291779 TT
1 TT
10291781 CATTACCTCT
Statistics
Matches: 208, Mismatches: 20, Indels: 21
0.84 0.08 0.08
Matches are distributed among these distances:
115 60 0.29
116 53 0.25
117 7 0.03
121 9 0.04
126 2 0.01
127 5 0.02
128 72 0.35
ACGTcount: A:0.33, C:0.14, G:0.16, T:0.36
Consensus pattern (115 bp):
TTTAAAGTTTCATTACCTCTGATTAGGAGGAGCATTCAAAGATTTTAAGATTTGTAAAACCTCAG
GACATAATCTCTAAGACCTCCGGGCAAAAGATTTTTAAAATTTTTAAAGT
Found at i:10291855 original size:105 final size:107
Alignment explanation
Indices: 10291653--10291848 Score: 297
Period size: 105 Copynumber: 1.9 Consensus size: 107
10291643 GATTTTTAAA
* * ** *
10291653 ATTTTTAAAGTTTTAAAGTTTCATTACCTCTGATTAGGAGGAGCATTCAAAGATTTTTGAGATTT
1 ATTTTTAAAGTTTTAAAGTTTCATTACCTCTAATTAGAAAAAACATTCAAAGATTTTTGAGATTT
10291718 GTAAAACCTCCAGGCATAATCTCTAAGACCTTCGGGCAAAAG
66 GTAAAACCTCCAGGCATAATCTCTAAGACCTTCGGGCAAAAG
*
10291760 ATTTTTAAATTTTTAAAGTTTCATTACCTCTAATTA-AAAAAACATTCAAAGA-TTTTGAGATTT
1 ATTTTTAAAGTTTTAAAGTTTCATTACCTCTAATTAGAAAAAACATTCAAAGATTTTTGAGATTT
* * *
10291823 GTAAGACCTCCGGGCATAATTTCTAA
66 GTAAAACCTCCAGGCATAATCTCTAA
10291849 AGCCTTCAAG
Statistics
Matches: 80, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
105 34 0.43
106 12 0.15
107 34 0.43
ACGTcount: A:0.35, C:0.15, G:0.14, T:0.36
Consensus pattern (107 bp):
ATTTTTAAAGTTTTAAAGTTTCATTACCTCTAATTAGAAAAAACATTCAAAGATTTTTGAGATTT
GTAAAACCTCCAGGCATAATCTCTAAGACCTTCGGGCAAAAG
Found at i:10292100 original size:22 final size:22
Alignment explanation
Indices: 10292058--10292132 Score: 57
Period size: 22 Copynumber: 3.5 Consensus size: 22
10292048 GTCGATTCTG
* *
10292058 TAAGATCTCTGCACATAATTTT
1 TAAGATCTTTGCACATAATTTC
*
10292080 TAAGATCTTTG-AGCATGATTTC
1 TAAGATCTTTGCA-CATAATTTC
** *
10292102 TAAGA-CTTTTGGGCATAATCTC
1 TAAGATC-TTTGCACATAATTTC
10292124 TAAGA-CTTT
1 TAAGATCTTT
10292133 CGGGCATAAT
Statistics
Matches: 44, Mismatches: 6, Indels: 7
0.77 0.11 0.12
Matches are distributed among these distances:
21 5 0.11
22 39 0.89
ACGTcount: A:0.29, C:0.16, G:0.15, T:0.40
Consensus pattern (22 bp):
TAAGATCTTTGCACATAATTTC
Found at i:10292159 original size:22 final size:22
Alignment explanation
Indices: 10292071--10292163 Score: 91
Period size: 22 Copynumber: 4.2 Consensus size: 22
10292061 GATCTCTGCA
* * *
10292071 CATAATTTTTAAGATCTTTGAG
1 CATAATCTTTAAGACCTTTGGG
* *
10292093 CATGAT-TTCTAAGACTTTTGGG
1 CATAATCTT-TAAGACCTTTGGG
*
10292115 CATAATCTCTAAGA-CTTTCGGG
1 CATAATCTTTAAGACCTTT-GGG
*
10292137 CATAATCTTTAAGACCTCTGGG
1 CATAATCTTTAAGACCTTTGGG
10292159 CATAA
1 CATAA
10292164 ATTTGATTCG
Statistics
Matches: 58, Mismatches: 9, Indels: 8
0.77 0.12 0.11
Matches are distributed among these distances:
21 5 0.09
22 49 0.84
23 4 0.07
ACGTcount: A:0.29, C:0.17, G:0.17, T:0.37
Consensus pattern (22 bp):
CATAATCTTTAAGACCTTTGGG
Found at i:10292393 original size:132 final size:131
Alignment explanation
Indices: 10292122--10292579 Score: 441
Period size: 132 Copynumber: 3.5 Consensus size: 131
10292112 GGGCATAATC
* ** * ** * * *
10292122 TCTAAGACTTTCGGGCATAATCTTTAAGACCTCTGGGCATAAATTTGATTCGCGGTATTGTCCCG
1 TCTAAGACCTTCGAACATAATCTTTAAGACCTCCGGGCATAAATTCAATTCACGATGTTGTCCCG
* * * ** ** *
10292187 ATCGATTCTTTTATTTTTTGACTTGTGATGTTATCCCGGTCGATTCTATAAGACCTCTAAATATT
66 ATCGA-TCTTTTA-TTTTTGACTTATGATGTTATCCCGATCAATTCTATAAGACCTCCGAGCATG
10292252 ATT
129 ATT
* * * * * *
10292255 TTTAAGACCTTCGAACATAATCTTTAAGATCTCCAGGCATAAATTCGATTCGCGATGTTGTTCCG
1 TCTAAGACCTTCGAACATAATCTTTAAGACCTCCGGGCATAAATTCAATTCACGATGTTGTCCCG
* *
10292320 ATCGATCTTTTATTTGTTGACTTACGATGTTATCCCGATCAATTCTGTAAGACCTCCGAGCATGA
66 ATCGATCTTTTATTT-TTGACTTATGATGTTATCCCGATCAATTCTATAAGACCTCCGAGCATGA
10292385 TT
130 TT
* * * * * * *
10292387 TCTAAGACCTCCGGACATAATCTTTAAGACCTCTGGGCATAATTTTAATTCACGGTGTTATCCCG
1 TCTAAGACCTTCGAACATAATCTTTAAGACCTCCGGGCATAAATTCAATTCACGATGTTGTCCCG
* * * * ** * * * *
10292452 ATCGAT-TCTTCATTATTCGACTTATGGTATTATCCTAACCAATTCTATAAGACCTTCGGGCACG
66 ATCGATCT-TTTATT-TTTGACTTATGATGTTATCCCGATCAATTCTATAAGACCTCCGAGCATG
10292516 ATT
129 ATT
* * * * *
10292519 TCTAAGACCTTCGAGCATCATCTTTAAGACCTACGGGCATAATTTCAATTTACGATGTTGT
1 TCTAAGACCTTCGAACATAATCTTTAAGACCTCCGGGCATAAATTCAATTCACGATGTTGT
10292580 TTCAATTGAT
Statistics
Matches: 266, Mismatches: 56, Indels: 7
0.81 0.17 0.02
Matches are distributed among these distances:
131 4 0.02
132 202 0.76
133 60 0.23
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.37
Consensus pattern (131 bp):
TCTAAGACCTTCGAACATAATCTTTAAGACCTCCGGGCATAAATTCAATTCACGATGTTGTCCCG
ATCGATCTTTTATTTTTGACTTATGATGTTATCCCGATCAATTCTATAAGACCTCCGAGCATGAT
T
Found at i:10292414 original size:22 final size:21
Alignment explanation
Indices: 10292367--10292434 Score: 75
Period size: 22 Copynumber: 3.1 Consensus size: 21
10292357 ATCAATTCTG
*
10292367 TAAGACCTCC-GAGCATGATTT
1 TAAGACCTCCGGA-CATAATTT
10292388 CTAAGACCTCCGGACATAATCTT
1 -TAAGACCTCCGGACATAAT-TT
* *
10292411 TAAGACCTCTGGGCATAATTT
1 TAAGACCTCCGGACATAATTT
10292432 TAA
1 TAA
10292435 TTCACGGTGT
Statistics
Matches: 41, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
21 5 0.12
22 32 0.78
23 4 0.10
ACGTcount: A:0.31, C:0.24, G:0.16, T:0.29
Consensus pattern (21 bp):
TAAGACCTCCGGACATAATTT
Found at i:10292525 original size:22 final size:22
Alignment explanation
Indices: 10292499--10292558 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 22
10292489 ACCAATTCTA
10292499 TAAGACCTTCGGGCA-CGAT-TT
1 TAAGACCTTCGGGCATC-ATCTT
*
10292520 CTAAGACCTTCGAGCATCATCTT
1 -TAAGACCTTCGGGCATCATCTT
*
10292543 TAAGACCTACGGGCAT
1 TAAGACCTTCGGGCAT
10292559 AATTTCAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 30 0.91
23 3 0.09
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.27
Consensus pattern (22 bp):
TAAGACCTTCGGGCATCATCTT
Found at i:10292679 original size:37 final size:36
Alignment explanation
Indices: 10292584--10292679 Score: 86
Period size: 37 Copynumber: 2.6 Consensus size: 36
10292574 TGTTGTTTCA
* * *
10292584 ATTGATTCTTTA-ATTTTGACTCGCGGTGTTATCCC
1 ATTGATTCTTTATTTTTTGACTTGCAGTGTTATCCC
* * * * * *
10292619 AGTCGATTTTTTATTTCTCGACTTGTAGTGTTATCTCG
1 A-TTGATTCTTTATTTTTTGACTTGCAGTGTTATC-CC
10292657 ATTGATTCTTTATTTTTTGACTT
1 ATTGATTCTTTATTTTTTGACTT
10292680 ACGGTGTCAT
Statistics
Matches: 45, Mismatches: 13, Indels: 4
0.73 0.21 0.06
Matches are distributed among these distances:
35 1 0.02
36 9 0.20
37 33 0.73
38 2 0.04
ACGTcount: A:0.17, C:0.16, G:0.16, T:0.52
Consensus pattern (36 bp):
ATTGATTCTTTATTTTTTGACTTGCAGTGTTATCCC
Found at i:10292953 original size:17 final size:17
Alignment explanation
Indices: 10292933--10292975 Score: 77
Period size: 17 Copynumber: 2.5 Consensus size: 17
10292923 AAAATTAATT
10292933 AATTAAAAATATAAAAA
1 AATTAAAAATATAAAAA
10292950 AATTAAAAATATAAAAA
1 AATTAAAAATATAAAAA
*
10292967 AAATAAAAA
1 AATTAAAAA
10292976 AGACAAACAA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 25 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (17 bp):
AATTAAAAATATAAAAA
Found at i:10292953 original size:21 final size:20
Alignment explanation
Indices: 10292910--10292970 Score: 65
Period size: 21 Copynumber: 3.0 Consensus size: 20
10292900 TAATATTGGT
10292910 TTAATT-AAAATAAAAAATTAA
1 TTAATTAAAAATAAAAAA--AA
10292931 TTAATTAAAAATATAAAAAAA
1 TTAATTAAAAATA-AAAAAAA
*
10292952 TTAA--AAATATAAAAAAAA
1 TTAATTAAAAATAAAAAAAA
10292970 T
1 T
10292971 AAAAAAGACA
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
18 8 0.22
19 6 0.16
21 12 0.32
22 6 0.16
23 5 0.14
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (20 bp):
TTAATTAAAAATAAAAAAAA
Found at i:10292964 original size:25 final size:26
Alignment explanation
Indices: 10292916--10292976 Score: 74
Period size: 26 Copynumber: 2.4 Consensus size: 26
10292906 TGGTTTAATT
*
10292916 AAAAT-AAAAAATTAATTAATT-AAA
1 AAAATAAAAAAATTAATAAATTAAAA
*
10292940 AATATAAAAAAATTAA-AAATATAAAA
1 AAAATAAAAAAATTAATAAAT-TAAAA
10292966 AAAATAAAAAA
1 AAAATAAAAAA
10292977 GACAAACAAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 7 0.23
25 11 0.35
26 13 0.42
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (26 bp):
AAAATAAAAAAATTAATAAATTAAAA
Found at i:10292974 original size:8 final size:8
Alignment explanation
Indices: 10292916--10292976 Score: 50
Period size: 8 Copynumber: 7.4 Consensus size: 8
10292906 TGGTTTAATT
10292916 AAAATAAA
1 AAAATAAA
* *
10292924 AAATTAAT
1 AAAATAAA
* *
10292932 TAATTAAA
1 AAAATAAA
*
10292940 AATATAAA
1 AAAATAAA
10292948 AAAATTAAA
1 AAAA-TAAA
*
10292957 AATATAAAA
1 AAAAT-AAA
10292966 AAAATAAA
1 AAAATAAA
10292974 AAA
1 AAA
10292977 GACAAACAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
8 27 0.66
9 14 0.34
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (8 bp):
AAAATAAA
Found at i:10292998 original size:21 final size:20
Alignment explanation
Indices: 10292963--10293002 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
10292953 TAAAAATATA
10292963 AAAAAAATAAAAAAGACAAAC
1 AAAAAAATAAAAAAG-CAAAC
* *
10292984 AAAAAAATGAGAAAGCAAA
1 AAAAAAATAAAAAAGCAAA
10293003 GGGAGCTATG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.78, C:0.07, G:0.10, T:0.05
Consensus pattern (20 bp):
AAAAAAATAAAAAAGCAAAC
Found at i:10294435 original size:3 final size:3
Alignment explanation
Indices: 10294378--10294416 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
10294368 TATAAAAAGG
* *
10294378 ATA ATA ATA ATA ATA ATA AT- TTG ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
10294417 ATTATCTTTT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
2 1 0.03
3 31 0.97
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.36
Consensus pattern (3 bp):
ATA
Found at i:10294582 original size:15 final size:15
Alignment explanation
Indices: 10294560--10294675 Score: 96
Period size: 15 Copynumber: 7.9 Consensus size: 15
10294550 TTCTTTAAAC
10294560 CCTT-AAATCCAAAA
1 CCTTAAAATCCAAAA
** *
10294574 CCTTAAAATTGAAAC
1 CCTTAAAATCCAAAA
*
10294589 CCCTAAAATCCAAAA
1 CCTTAAAATCCAAAA
*
10294604 CCTT-AAATCCAAAT
1 CCTTAAAATCCAAAA
* *
10294618 CCCTAGAATCCAAAA
1 CCTTAAAATCCAAAA
* *
10294633 CCCTAAAATTC-AAA
1 CCTTAAAATCCAAAA
* *
10294647 CCTTTAAATTCAAAA
1 CCTTAAAATCCAAAA
10294662 -CTCTAAAATCCAAA
1 CCT-TAAAATCCAAA
10294676 CCCCAAAACT
Statistics
Matches: 80, Mismatches: 18, Indels: 7
0.76 0.17 0.07
Matches are distributed among these distances:
14 30 0.38
15 50 0.62
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (15 bp):
CCTTAAAATCCAAAA
Found at i:10294637 original size:44 final size:43
Alignment explanation
Indices: 10294560--10294683 Score: 133
Period size: 44 Copynumber: 2.9 Consensus size: 43
10294550 TTCTTTAAAC
* ** *
10294560 CCTTAAATCCAAAACCTTAAAATTGAAACCCCTAAAATCCAAAA
1 CCTTAAATCCAAAACCCTAAAATCCAAAACCCTAAAATCC-AAA
* * *
10294604 CCTTAAATCCAAATCCCTAGAATCCAAAACCCTAAAATTCAAA
1 CCTTAAATCCAAAACCCTAAAATCCAAAACCCTAAAATCCAAA
* * *
10294647 CCTTTAAATTCAAAACTCTAAAATCC-AAACCCCAAAA
1 CC-TTAAATCCAAAACCCTAAAATCCAAAACCCTAAAA
10294684 CTTTCGAAAC
Statistics
Matches: 67, Mismatches: 12, Indels: 3
0.82 0.15 0.04
Matches are distributed among these distances:
43 15 0.22
44 52 0.78
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (43 bp):
CCTTAAATCCAAAACCCTAAAATCCAAAACCCTAAAATCCAAA
Found at i:10294660 original size:29 final size:29
Alignment explanation
Indices: 10294556--10294678 Score: 124
Period size: 29 Copynumber: 4.2 Consensus size: 29
10294546 CGTTTTCTTT
* **
10294556 AAACCCTTAAATCCAAAACCTTAAAATTG
1 AAACCCTTAAATCCAAAACCCTAAAATCC
* *
10294585 AAACCCCTAAAATCCAAAA-CCTTAAATCC
1 AAA-CCCTTAAATCCAAAACCCTAAAATCC
*
10294614 AAATCCC-TAGAATCCAAAACCCTAAAATTC
1 AAA-CCCTTA-AATCCAAAACCCTAAAATCC
* * *
10294644 AAACCTTTAAATTCAAAACTCTAAAATCC
1 AAACCCTTAAATCCAAAACCCTAAAATCC
10294673 AAACCC
1 AAACCC
10294679 CAAAACTTTC
Statistics
Matches: 76, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
28 1 0.01
29 48 0.63
30 27 0.36
ACGTcount: A:0.48, C:0.29, G:0.02, T:0.21
Consensus pattern (29 bp):
AAACCCTTAAATCCAAAACCCTAAAATCC
Found at i:10294785 original size:30 final size:28
Alignment explanation
Indices: 10294717--10294786 Score: 79
Period size: 30 Copynumber: 2.4 Consensus size: 28
10294707 TTCTAAACCC
* *
10294717 TAAAATCAAAACTCCAAACTTCAAACTT
1 TAAAATCAAAACTCAAAACTCCAAACTT
*
10294745 TAAAACCAAAACTCAAAAATCTCCAAA-TCT
1 TAAAATCAAAACTC-AAAA-CTCCAAACT-T
10294775 TAAAATCAAAAC
1 TAAAATCAAAAC
10294787 CTTAAACCTT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 13 0.37
29 4 0.11
30 18 0.51
ACGTcount: A:0.54, C:0.24, G:0.00, T:0.21
Consensus pattern (28 bp):
TAAAATCAAAACTCAAAACTCCAAACTT
Found at i:10296181 original size:17 final size:17
Alignment explanation
Indices: 10296159--10296192 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
10296149 GTCAACTTAA
10296159 ATTTTTCAAAAAAAAAT
1 ATTTTTCAAAAAAAAAT
* *
10296176 ATTTTTTATAAAAAAAT
1 ATTTTTCAAAAAAAAAT
10296193 TTCTAATCTT
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:0.56, C:0.03, G:0.00, T:0.41
Consensus pattern (17 bp):
ATTTTTCAAAAAAAAAT
Found at i:10308214 original size:17 final size:19
Alignment explanation
Indices: 10308188--10308228 Score: 59
Period size: 19 Copynumber: 2.3 Consensus size: 19
10308178 ATGCATAAAT
10308188 ATATAATTAT-A-ATATAG
1 ATATAATTATCATATATAG
*
10308205 ATATATTTATCATATATAG
1 ATATAATTATCATATATAG
10308224 ATATA
1 ATATA
10308229 GAAGATAGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
17 9 0.43
18 1 0.05
19 11 0.52
ACGTcount: A:0.49, C:0.02, G:0.05, T:0.44
Consensus pattern (19 bp):
ATATAATTATCATATATAG
Found at i:10312463 original size:12 final size:12
Alignment explanation
Indices: 10312446--10312470 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
10312436 GCAAGTGAAC
10312446 TATCTGGTTCTT
1 TATCTGGTTCTT
10312458 TATCTGGTTCTT
1 TATCTGGTTCTT
10312470 T
1 T
10312471 GTTGCTTTGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.16, G:0.16, T:0.60
Consensus pattern (12 bp):
TATCTGGTTCTT
Found at i:10313722 original size:2 final size:2
Alignment explanation
Indices: 10313715--10313747 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
10313705 AGCATTTGTT
*
10313715 AG AG AG AG AG AG AG AG AG AG AG AG AG AG TG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
10313748 TGCAGCAAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.48, T:0.03
Consensus pattern (2 bp):
AG
Found at i:10314798 original size:17 final size:18
Alignment explanation
Indices: 10314768--10314802 Score: 63
Period size: 17 Copynumber: 2.0 Consensus size: 18
10314758 AATTGACATT
10314768 TATAAAATTTATTTATTA
1 TATAAAATTTATTTATTA
10314786 TATAAAA-TTATTTATTA
1 TATAAAATTTATTTATTA
10314803 GTATTAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 10 0.59
18 7 0.41
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (18 bp):
TATAAAATTTATTTATTA
Found at i:10314800 original size:21 final size:22
Alignment explanation
Indices: 10314774--10314831 Score: 59
Period size: 23 Copynumber: 2.7 Consensus size: 22
10314764 CATTTATAAA
10314774 ATTTATTTATTATATAA-AATT
1 ATTTATTTATTATATAATAATT
*
10314795 ATTTATTAGTATTAAATAATAATT
1 ATTTATT--TATTATATAATAATT
*
10314819 -TTTTTTTA-TATAT
1 ATTTATTTATTATAT
10314832 TGGTATAATA
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
20 4 0.13
21 9 0.29
23 14 0.45
24 4 0.13
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.59
Consensus pattern (22 bp):
ATTTATTTATTATATAATAATT
Found at i:10317508 original size:16 final size:18
Alignment explanation
Indices: 10317476--10317510 Score: 56
Period size: 16 Copynumber: 2.1 Consensus size: 18
10317466 TGATATATTT
10317476 AAATATAATACAATAATA
1 AAATATAATACAATAATA
10317494 AAATATAA-A-AATAATA
1 AAATATAATACAATAATA
10317510 A
1 A
10317511 GAAAAAAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
17 1 0.06
18 8 0.47
ACGTcount: A:0.71, C:0.03, G:0.00, T:0.26
Consensus pattern (18 bp):
AAATATAATACAATAATA
Found at i:10318660 original size:20 final size:20
Alignment explanation
Indices: 10318637--10318691 Score: 57
Period size: 20 Copynumber: 3.0 Consensus size: 20
10318627 AATACATCTC
10318637 ATTATATTATAATTTTAAAA
1 ATTATATTATAATTTTAAAA
*
10318657 ATTATATCAATAA-TTT--AA
1 ATTATAT-TATAATTTTAAAA
10318675 ATTATA-TA-AATTTTAAA
1 ATTATATTATAATTTTAAA
10318692 TAAAAATAAT
Statistics
Matches: 29, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
15 2 0.07
16 4 0.14
18 9 0.31
20 10 0.34
21 4 0.14
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTATATTATAATTTTAAAA
Found at i:10318715 original size:17 final size:17
Alignment explanation
Indices: 10318665--10318717 Score: 58
Period size: 16 Copynumber: 3.3 Consensus size: 17
10318655 AAATTATATC
*
10318665 AATAATTTAAATT-ATA
1 AATAATTTTAATTAATA
* *
10318681 TA-AATTTTAAATAA-A
1 AATAATTTTAATTAATA
10318696 AATAATTTTAATTAATA
1 AATAATTTTAATTAATA
10318713 AATAA
1 AATAA
10318718 ATTATTCTAC
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
15 10 0.34
16 13 0.45
17 6 0.21
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (17 bp):
AATAATTTTAATTAATA
Found at i:10328066 original size:56 final size:56
Alignment explanation
Indices: 10327997--10328320 Score: 344
Period size: 56 Copynumber: 5.6 Consensus size: 56
10327987 TTGTGCAGAG
**
10327997 AAAATTGATACTTTCAACTTTTCCTCAAAAACCGTTTTAAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTAAAAATTTATTTTTAAGA
* * * * * **
10328053 AAAATTGGTACTTTCAACTTTTTCC-CAAAAATATTTTTTGGAAACTTTAATTTCGAGA
1 AAAATTGATACTTTCAAC-TTTTCCTCAAAAA-CTTTTTT-AAAAATTTATTTTTAAGA
* ***
10328111 AAAATTGATACTTTCAACTTTTCCTAAAAAAAATCTTTTTTTTTTAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCT--CAAAAA-C-TTTTTTAAAAATTTATTTTTAAGA
* * *
10328171 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTGAAAGTTTATTTTTAAGG
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTAAAAATTTATTTTTAAGA
*
10328227 AAAATTGATACTTTCAACTTTTTCTCAAAAAAAAAAACTTTTTTTAAAAATTTATTTTTAAGA
1 AAAATTGATACTTTCAACTTTTCCTC------AAAAAC-TTTTTTAAAAATTTATTTTTAAGA
* *
10328290 AAAATTGATACCTTCAATTTTTCCTCAAAAA
1 AAAATTGATACTTTCAACTTTTCCTCAAAAA
10328321 TATTTTTTTT
Statistics
Matches: 222, Mismatches: 32, Indels: 27
0.79 0.11 0.10
Matches are distributed among these distances:
56 67 0.30
57 22 0.10
58 35 0.16
60 42 0.19
61 6 0.03
62 6 0.03
63 44 0.20
ACGTcount: A:0.38, C:0.13, G:0.06, T:0.43
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTAAAAATTTATTTTTAAGA
Found at i:10328306 original size:119 final size:118
Alignment explanation
Indices: 10327997--10328328 Score: 417
Period size: 119 Copynumber: 2.8 Consensus size: 118
10327987 TTGTGCAGAG
** **
10327997 AAAATTGATACTTTCAACTTTTCC---TCAAAAAC-CGTTTTAAAAATTTATTTTTAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTCCAAAAAAAAAACTTTTTTTAAAAATTTATTTTTAAGAAAAAT
* *
10328058 TGGTACTTTCAACTTTTTCC-CAAAAATATTTTTTGGAAACTTTAATTTCGAGA
66 TGATACTTTCAAC-TTTTCCTCAAAAATATTTTTTGGAAACTTTAATTTCAAGA
* * ***
10328111 AAAATTGATACTTTCAACTTTTCCTAAAAAAAATCTTTTTTTTTTAATTTATTTTTAAGAAAAAT
1 AAAATTGATACTTTCAACTTTTCCAAAAAAAAAACTTTTTTTAAAAATTTATTTTTAAGAAAAAT
* * * * *
10328176 TGATACTTTCAACTTTTCCTCAAAAA-CTTTTTT-GAAAGTTTATTTTTAAGG
66 TGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTAATTTCAAGA
10328227 AAAATTGATACTTTCAACTTTTTCTCAAAAAAAAAAACTTTTTTTAAAAATTTATTTTTAAGAAA
1 AAAATTGATACTTTCAAC-TTTTC-C-AAAAAAAAAACTTTTTTTAAAAATTTATTTTTAAGAAA
* *
10328292 AATTGATACCTTCAATTTTTCCTCAAAAATATTTTTT
63 AATTGATACTTTCAACTTTTCCTCAAAAATATTTTTT
10328329 TTTATTTTAT
Statistics
Matches: 186, Mismatches: 23, Indels: 12
0.84 0.10 0.05
Matches are distributed among these distances:
114 24 0.13
116 31 0.17
117 22 0.12
118 43 0.23
119 60 0.32
120 6 0.03
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.44
Consensus pattern (118 bp):
AAAATTGATACTTTCAACTTTTCCAAAAAAAAAACTTTTTTTAAAAATTTATTTTTAAGAAAAAT
TGATACTTTCAACTTTTCCTCAAAAATATTTTTTGGAAACTTTAATTTCAAGA
Found at i:10328329 original size:174 final size:171
Alignment explanation
Indices: 10327997--10328348 Score: 429
Period size: 174 Copynumber: 2.0 Consensus size: 171
10327987 TTGTGCAGAG
*
10327997 AAAATTGATACTTTCAACTTTTCCTCAAAAACCGTTTTAAAAATTTATTTTTAAGAAAAATTGGT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCGTTTTAAAAATTTATTTTTAAGAAAAATTGAT
* * * * * *
10328062 ACTTTCAACTTTTTCCCAAAAATATTTTTTGGAAACTTTAATTTCGAGAAAAATTGATACTTTCA
66 ACTTTCAACTTTTTCCAAAAAAAATTTTTTGAAAAATTTAATTTCAAGAAAAATTGATACCTTCA
*
10328127 ACTTTTCCTAAAAAAAATCTTTTTTTTTTAATTTATTTTTAAGA
131 ACTTTTCCT-AAAAAAA--TTATTTTTTTAATTTATTTTTAAGA
** * * *
10328171 AAAATTGATACTTTCAACTTTTCCTCAAAAACTTTTTTGAAAGTTTATTTTTAAGGAAAATTGAT
1 AAAATTGATACTTTCAACTTTTCCTCAAAAACCGTTTTAAAAATTTATTTTTAAGAAAAATTGAT
* * *
10328236 ACTTTCAACTTTTTCTCAAAAAAAAAAACTTTTTTTAAAAATTTATTTTTAAGAAAAATTGATAC
66 ACTTTCAACTTTTTC-C---AAAAAAAA-TTTTTTGAAAAATTTAATTTCAAGAAAAATTGATAC
* * * *
10328301 CTTCAATTTTTCCTCAAAAATATT-TTTTTTTATTTTA-TTTAAAGA
126 CTTCAACTTTTCCT-AAAAAAATTATTTTTTTAATTTATTTTTAAGA
10328346 AAA
1 AAA
10328349 TAAAATATAA
Statistics
Matches: 153, Mismatches: 20, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
174 74 0.48
175 11 0.07
176 12 0.08
177 2 0.01
178 6 0.04
179 48 0.31
ACGTcount: A:0.38, C:0.12, G:0.06, T:0.45
Consensus pattern (171 bp):
AAAATTGATACTTTCAACTTTTCCTCAAAAACCGTTTTAAAAATTTATTTTTAAGAAAAATTGAT
ACTTTCAACTTTTTCCAAAAAAAATTTTTTGAAAAATTTAATTTCAAGAAAAATTGATACCTTCA
ACTTTTCCTAAAAAAATTATTTTTTTAATTTATTTTTAAGA
Found at i:10328410 original size:17 final size:17
Alignment explanation
Indices: 10328388--10328432 Score: 63
Period size: 17 Copynumber: 2.6 Consensus size: 17
10328378 TAAAAAATAA
10328388 AAAAATAAAAGTAAAAC
1 AAAAATAAAAGTAAAAC
* *
10328405 AAAAATAAAAATAAAAT
1 AAAAATAAAAGTAAAAC
*
10328422 AAAGATAAAAG
1 AAAAATAAAAG
10328433 AATATTAAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.78, C:0.02, G:0.07, T:0.13
Consensus pattern (17 bp):
AAAAATAAAAGTAAAAC
Found at i:10328429 original size:11 final size:11
Alignment explanation
Indices: 10328345--10328431 Score: 72
Period size: 12 Copynumber: 7.8 Consensus size: 11
10328335 TTATTTAAAG
10328345 AAAATAAAATA
1 AAAATAAAATA
* *
10328356 TAAAACAAGATA
1 -AAAATAAAATA
*
10328368 AAAGTGAAAATA
1 AAAAT-AAAATA
*
10328380 AAAA-ATAA-A
1 AAAATAAAATA
10328389 AAAATAAAAGTA
1 AAAATAAAA-TA
10328401 AAACA-AAAATA
1 AAA-ATAAAATA
10328412 AAAATAAAATA
1 AAAATAAAATA
*
10328423 AAGATAAAA
1 AAAATAAAA
10328432 GAATATTAAA
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
9 5 0.08
10 7 0.12
11 22 0.37
12 25 0.42
13 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.06, T:0.15
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:10329238 original size:8 final size:9
Alignment explanation
Indices: 10329220--10329253 Score: 50
Period size: 9 Copynumber: 3.6 Consensus size: 9
10329210 TCAACCGGAT
10329220 AAATAAAAA
1 AAATAAAAA
10329229 AAATAAAAA
1 AAATAAAAA
10329238 AAATCAAATAA
1 AAAT-AAA-AA
10329249 AAATA
1 AAATA
10329254 TTAATGAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 13 0.57
10 4 0.17
11 6 0.26
ACGTcount: A:0.82, C:0.03, G:0.00, T:0.15
Consensus pattern (9 bp):
AAATAAAAA
Found at i:10329312 original size:22 final size:22
Alignment explanation
Indices: 10329270--10329322 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
10329260 AAAATAAATT
10329270 AGATAAA-TAAAAAAAATTAAC
1 AGATAAATTAAAAAAAATTAAC
*
10329291 AGATAAATTAAAATTAAA-TAAC
1 AGATAAATTAAAA-AAAATTAAC
*
10329313 AAATAAATTA
1 AGATAAATTA
10329323 TAACATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 7 0.25
22 18 0.64
23 3 0.11
ACGTcount: A:0.68, C:0.04, G:0.04, T:0.25
Consensus pattern (22 bp):
AGATAAATTAAAAAAAATTAAC
Found at i:10329494 original size:70 final size:72
Alignment explanation
Indices: 10329360--10329516 Score: 162
Period size: 70 Copynumber: 2.2 Consensus size: 72
10329350 TATTAACAAA
* * * * * *
10329360 AAAAGAAAAAAAAAGGAAAAAAAATAAAGATATATATATTAATAAATAGTAGTAATGAATAAATA
1 AAAAGAAAAAAAAAGGAAAAAAAATAAAGAAACATATAATAATAAATAGAAATAATAAATAAATA
10329425 AAAACAT
66 AAAACAT
10329432 AAAAGAAAAAAAAA-GAAAAAAATATATAA-AAACA-ATAATAAT-AATAGAAATAA-AAATAAA
1 AAAAGAAAAAAAAAGGAAAAAAA-ATA-AAGAAACATATAATAATAAATAGAAATAATAAAT-AA
**
10329492 ATAAAAATGT
63 ATAAAAACAT
*
10329502 AAAATACAAAAAAAA
1 AAAAGA-AAAAAAAA
10329517 AAGACTTACC
Statistics
Matches: 72, Mismatches: 9, Indels: 9
0.80 0.10 0.10
Matches are distributed among these distances:
69 3 0.04
70 24 0.33
71 23 0.32
72 20 0.28
73 2 0.03
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.18
Consensus pattern (72 bp):
AAAAGAAAAAAAAAGGAAAAAAAATAAAGAAACATATAATAATAAATAGAAATAATAAATAAATA
AAAACAT
Found at i:10329812 original size:41 final size:41
Alignment explanation
Indices: 10329684--10329854 Score: 180
Period size: 42 Copynumber: 4.1 Consensus size: 41
10329674 CTGATCAAAA
* * * * * *
10329684 CTCCTCTAAGCAGAGGCTCAACAACTTTGGAAAAATAAATGG
1 CTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTG
* * ** * * *
10329726 CTTCTCTAATCAGAGGTTCAACGACTTTGGAAAAATAAATGG
1 CTCCTCTAAACAGAGGCACCACGACTTT-GAAAAGTAAATTG
* *
10329768 CTCCTCTAAATAGAGGCACCATGACTTTGAAAAGTAAATTG
1 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTG
*
10329809 CTCCTCTAAACAGAGGCACCACGACTTTGGAAAGTAAATTG
1 CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTG
10329850 CTCCT
1 CTCCT
10329855 TGACAATCAT
Statistics
Matches: 113, Mismatches: 16, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
41 54 0.48
42 59 0.52
ACGTcount: A:0.35, C:0.22, G:0.18, T:0.25
Consensus pattern (41 bp):
CTCCTCTAAACAGAGGCACCACGACTTTGAAAAGTAAATTG
Found at i:10330881 original size:16 final size:16
Alignment explanation
Indices: 10330871--10330932 Score: 97
Period size: 16 Copynumber: 3.8 Consensus size: 16
10330861 TTTTTTTTCC
*
10330871 TTTTTCATTTTTTTAA
1 TTTTTTATTTTTTTAA
10330887 TTTTTTATTTTTTTAA
1 TTTTTTATTTTTTTAA
*
10330903 TTTTTTATTTTTTTAT
1 TTTTTTATTTTTTTAA
10330919 TTTTTTAATTTTTT
1 TTTTTT-ATTTTTT
10330933 CAAGCATAGT
Statistics
Matches: 43, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
16 36 0.84
17 7 0.16
ACGTcount: A:0.16, C:0.02, G:0.00, T:0.82
Consensus pattern (16 bp):
TTTTTTATTTTTTTAA
Found at i:10330882 original size:8 final size:8
Alignment explanation
Indices: 10330879--10330932 Score: 81
Period size: 8 Copynumber: 6.8 Consensus size: 8
10330869 CCTTTTTCAT
10330879 TTTTTTAA
1 TTTTTTAA
*
10330887 TTTTTTAT
1 TTTTTTAA
10330895 TTTTTTAA
1 TTTTTTAA
*
10330903 TTTTTTAT
1 TTTTTTAA
*
10330911 TTTTTTAT
1 TTTTTTAA
10330919 TTTTTTAA
1 TTTTTTAA
10330927 TTTTTT
1 TTTTTT
10330933 CAAGCATAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 42 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (8 bp):
TTTTTTAA
Found at i:10330898 original size:24 final size:24
Alignment explanation
Indices: 10330879--10330932 Score: 99
Period size: 24 Copynumber: 2.2 Consensus size: 24
10330869 CCTTTTTCAT
10330879 TTTTTTAATTTTTTATTTTTTTAA
1 TTTTTTAATTTTTTATTTTTTTAA
*
10330903 TTTTTTATTTTTTTATTTTTTTAA
1 TTTTTTAATTTTTTATTTTTTTAA
10330927 TTTTTT
1 TTTTTT
10330933 CAAGCATAGT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (24 bp):
TTTTTTAATTTTTTATTTTTTTAA
Found at i:10341437 original size:58 final size:56
Alignment explanation
Indices: 10341310--10341643 Score: 355
Period size: 61 Copynumber: 5.7 Consensus size: 56
10341300 TTGTGCAGGA
* *
10341310 AAAATTGATACTTTCAACTTTTCCTCAAAAACCT-TTTTTTGAAAATTTATTTTTAGG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAA--TATTTTTTGAAAATTTATTTTTAAG
* ** *
10341367 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAATCTTAGTTTCGAAT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAAT-TTA-TTTTTAAG
* * *
10341425 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGGAAACTTTAATTTTGAG
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT-GAAAATTTATTTTTAAG
* ** * *
10341482 AAAAATTAATACTTTCAACTTTTCCTAAAAAAAAACCTTTTTTTAAAATTTTATTTTTAAG
1 -AAAATTGATACTTTCAACTTTTCC-CCAAAAATA--TTTTTTGAAAA-TTTATTTTTAAG
* * *
10341543 AAAAATTGATACTTTCAACTTTTTCTCAAAAACCCTTTCTTTTTGAAAATTTATTTTTAAGG
1 -AAAATTGATACTTTCAACTTTTCCCCAAAAA---TAT-TTTTTGAAAATTTATTTTTAA-G
*
10341605 AAAATTGATACTTTCAACTTTTCTCCAAAAATATTTTTT
1 AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTT
10341644 TATTTAAAGA
Statistics
Matches: 231, Mismatches: 32, Indels: 28
0.79 0.11 0.10
Matches are distributed among these distances:
55 1 0.00
56 11 0.05
57 41 0.18
58 71 0.31
59 10 0.04
60 8 0.03
61 79 0.34
62 10 0.04
ACGTcount: A:0.36, C:0.14, G:0.06, T:0.44
Consensus pattern (56 bp):
AAAATTGATACTTTCAACTTTTCCCCAAAAATATTTTTTGAAAATTTATTTTTAAG
Found at i:10341663 original size:5 final size:5
Alignment explanation
Indices: 10341653--10341753 Score: 57
Period size: 5 Copynumber: 19.6 Consensus size: 5
10341643 TTATTTAAAG
* *
10341653 AAAAT AAAAT --AAT AAAAC AAAAT AAAAGT GAAAAT AAAA- AATAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AA-AAT
* * *
10341698 AAAAG AAAAGT AAACA- AAAAT AAAAAT AAAAT AAAGAT AAAAG AATAT
1 AAAAT AAAA-T AAA-AT AAAAT -AAAAT AAAAT AAA-AT AAAAT AAAAT
*
10341746 TAAAT AAA
1 AAAAT AAA
10341754 CCTAATCTAA
Statistics
Matches: 75, Mismatches: 10, Indels: 22
0.70 0.09 0.21
Matches are distributed among these distances:
3 3 0.04
4 3 0.04
5 47 0.63
6 17 0.23
7 5 0.07
ACGTcount: A:0.76, C:0.02, G:0.06, T:0.16
Consensus pattern (5 bp):
AAAAT
Found at i:10341790 original size:4 final size:4
Alignment explanation
Indices: 10341781--10341806 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
10341771 AAAATAAAAA
10341781 AATT AATT AATT AATT AATT AATT AA
1 AATT AATT AATT AATT AATT AATT AA
10341807 AAAAAAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (4 bp):
AATT
Found at i:10342579 original size:12 final size:11
Alignment explanation
Indices: 10342547--10342646 Score: 83
Period size: 12 Copynumber: 8.3 Consensus size: 11
10342537 AGTAATGAAT
10342547 AAATAAATACATA
1 AAATAAA-A-ATA
*
10342560 AAAGAAAAATA
1 AAATAAAAATA
* *
10342571 TATATAAAAACA
1 -AAATAAAAATA
*
10342583 ATAATAATAATA
1 A-AATAAAAATA
10342595 GAAATAAAAATA
1 -AAATAAAAATA
10342607 AAATAAAAATA
1 AAATAAAAATA
10342618 AAATAAAAATGTA
1 AAATAAAAA--TA
10342631 AAATACAAAAATA
1 AAAT--AAAAATA
10342644 AAA
1 AAA
10342647 AAAGAAAATA
Statistics
Matches: 72, Mismatches: 8, Indels: 14
0.77 0.09 0.15
Matches are distributed among these distances:
11 24 0.33
12 25 0.35
13 18 0.25
15 5 0.07
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.20
Consensus pattern (11 bp):
AAATAAAAATA
Found at i:10342640 original size:7 final size:6
Alignment explanation
Indices: 10342559--10342647 Score: 65
Period size: 6 Copynumber: 14.7 Consensus size: 6
10342549 ATAAATACAT
* * * * * * *
10342559 AAAAGA AAAATA TATATA AAAACA ATAATA ATAATA GAAATA AAAAT-
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA AAAATA
*
10342606 AAAATA AAAAT- AAAATA AAAATGTA AAATACA AAAATA AAAA
1 AAAATA AAAATA AAAATA AAAA--TA AAA-ATA AAAATA AAAA
10342648 AAGAAAATAG
Statistics
Matches: 65, Mismatches: 13, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
5 10 0.15
6 45 0.69
7 4 0.06
8 5 0.08
9 1 0.02
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.19
Consensus pattern (6 bp):
AAAATA
Found at i:10342654 original size:21 final size:21
Alignment explanation
Indices: 10342617--10342656 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
10342607 AAATAAAAAT
*
10342617 AAAATAAAAATGTAAAATACA
1 AAAATAAAAAAGTAAAATACA
10342638 AAAATAAAAAAAG-AAAATA
1 AAAAT-AAAAAAGTAAAATA
10342657 GACTTACCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 11 0.65
22 6 0.35
ACGTcount: A:0.78, C:0.03, G:0.05, T:0.15
Consensus pattern (21 bp):
AAAATAAAAAAGTAAAATACA
Found at i:10346173 original size:12 final size:12
Alignment explanation
Indices: 10346156--10346203 Score: 62
Period size: 12 Copynumber: 4.1 Consensus size: 12
10346146 TCGCAAACCA
*
10346156 AGAAAAAAAAAT
1 AGAAAAAAAAAG
10346168 AG-AAAAAAAAG
1 AGAAAAAAAAAG
**
10346179 CCAAAAAAAAAG
1 AGAAAAAAAAAG
10346191 AGAAAAAAAAAG
1 AGAAAAAAAAAG
10346203 A
1 A
10346204 AGAGTTGGTT
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
11 8 0.27
12 22 0.73
ACGTcount: A:0.81, C:0.04, G:0.12, T:0.02
Consensus pattern (12 bp):
AGAAAAAAAAAG
Found at i:10355448 original size:2 final size:2
Alignment explanation
Indices: 10355443--10355498 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
10355433 ATATATGGTG
10355443 TA 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 TA
10355485 TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA
10355499 CAAACATGTA
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10366362 original size:120 final size:120
Alignment explanation
Indices: 10366149--10366391 Score: 441
Period size: 120 Copynumber: 2.0 Consensus size: 120
10366139 TCGCAACACG
*
10366149 ACAGGAGAAGATAAGAACCCTAACATTGGGTGGTAAGGTTGTGCTTGAAAACGCCTGTAAATCAA
1 ACAGGAGAAGATAAGAACCCTAACATTGGGTGGTAAGGTTGCGCTTGAAAACGCCTGTAAATCAA
* *
10366214 TAAAACAAGCAATAACAATCCTAGAAACAGTGTAGTACTAGTATGAATTAGTTTC
66 TAAAACAAGCAATAACAATCCTAGAAACAGTATAGTACTAGCATGAATTAGTTTC
*
10366269 ACAGGAGAAGATAAGAACCCTAACATTGGGTGGTAAGGTTGCGCTTGAAACCGCCTGTAAATCAA
1 ACAGGAGAAGATAAGAACCCTAACATTGGGTGGTAAGGTTGCGCTTGAAAACGCCTGTAAATCAA
*
10366334 TAAAACAAGCAATAACAATCCTAGAAACAGTATATTACTAGCATGAATTAGTTTC
66 TAAAACAAGCAATAACAATCCTAGAAACAGTATAGTACTAGCATGAATTAGTTTC
10366389 ACA
1 ACA
10366392 AGCCCAGAAA
Statistics
Matches: 118, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 118 1.00
ACGTcount: A:0.40, C:0.16, G:0.20, T:0.23
Consensus pattern (120 bp):
ACAGGAGAAGATAAGAACCCTAACATTGGGTGGTAAGGTTGCGCTTGAAAACGCCTGTAAATCAA
TAAAACAAGCAATAACAATCCTAGAAACAGTATAGTACTAGCATGAATTAGTTTC
Found at i:10371871 original size:5 final size:6
Alignment explanation
Indices: 10371854--10371878 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
10371844 TTTTCAATTC
10371854 TCTTTT TCTTTT TCTTTT TCTTTT T
1 TCTTTT TCTTTT TCTTTT TCTTTT T
10371879 GGATTCCACT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (6 bp):
TCTTTT
Found at i:10387385 original size:15 final size:15
Alignment explanation
Indices: 10387362--10387391 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
10387352 TTGTTTGTAA
*
10387362 ACAATCTTAATTATT
1 ACAACCTTAATTATT
10387377 ACAACCTTAATTATT
1 ACAACCTTAATTATT
10387392 TATTCATATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.17, G:0.00, T:0.43
Consensus pattern (15 bp):
ACAACCTTAATTATT
Found at i:10387871 original size:16 final size:16
Alignment explanation
Indices: 10387831--10387879 Score: 53
Period size: 16 Copynumber: 2.9 Consensus size: 16
10387821 TTTATTTTTT
*
10387831 TATTTTGTATATTTAAG
1 TATTTT-TATATATAAG
*
10387848 TAATTTTTATATATATG
1 T-ATTTTTATATATAAG
*
10387865 TATTTTTAAATATAA
1 TATTTTTATATATAA
10387880 AATATTAGTC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 12 0.44
17 10 0.37
18 5 0.19
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (16 bp):
TATTTTTATATATAAG
Found at i:10389457 original size:29 final size:30
Alignment explanation
Indices: 10389421--10389489 Score: 88
Period size: 29 Copynumber: 2.3 Consensus size: 30
10389411 ATATTAAGAA
*
10389421 ATTTAATTTCTTTAGTATTA-TTTAAAAAT
1 ATTTAATTTCTATAGTATTATTTTAAAAAT
*
10389450 ATTTAATTTGTATAGTATTATTTTTTAAAAAT
1 ATTTAATTTCTATAGTATTA--TTTTAAAAAT
10389482 -TTTAATTT
1 ATTTAATTT
10389490 AATCATTAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
29 18 0.51
31 8 0.23
32 9 0.26
ACGTcount: A:0.36, C:0.01, G:0.04, T:0.58
Consensus pattern (30 bp):
ATTTAATTTCTATAGTATTATTTTAAAAAT
Found at i:10391619 original size:12 final size:12
Alignment explanation
Indices: 10391599--10391632 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
10391589 GGGATTTTTC
*
10391599 AAATAGAGAAAA
1 AAATGGAGAAAA
10391611 AAATGGAGAAAA
1 AAATGGAGAAAA
*
10391623 AAGTGGAGAA
1 AAATGGAGAA
10391633 GAATATACAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.26, T:0.09
Consensus pattern (12 bp):
AAATGGAGAAAA
Found at i:10397962 original size:203 final size:201
Alignment explanation
Indices: 10397582--10398378 Score: 816
Period size: 203 Copynumber: 4.0 Consensus size: 201
10397572 TAATTAATTA
* * * * ** *
10397582 AAGAACATCGACCCAGATAATGATTTTGACTTATTATTT-TTCAATTCTGTCATCGACCCAGATA
1 AAGAACATCAACCCAGATAATGATTTTGCCTTATTATTTCCT-GATTCTACCATCGACCCAGATC
* * * * ** *
10397646 AAAAAAGCTCATAAATCAACAAGCAAATTTAATTTTTTTTCTTTTTTTTCTTTTACAAAGTAAAA
65 AGAAAAGCTCACAAATCAACAAGAAAATTCAA--ACTTTT-TTTTTCTTCTTTTACAAAG-AAAA
* *
10397711 TTCAAGATTTTGACAAATGGCTATGTGTTTTTGTT-GAGGT-TT-TTGTTGTTAATGATGATGAT
126 TTCAAGATTTTGACAAATGGGTATGTGTTTTTGTTGGAGTTCTTATTGTTGTTAATGATGATGAT
*
10397773 GACGATTGATCG
191 GAC-ATTGATTG
* * * **
10397785 AAGAACATCAACCCAGACAATGATTTCT-CCTTGTTATTTACCT-ATTCTGCCATCGACTTAGAT
1 AAGAACATCAACCCAGATAATGATTT-TGCCTTATTATTT-CCTGATTCTACCATCGACCCAGAT
*
10397848 CAGAAAAGCTCACAAATCAACAAGAAAATTCAAACTTTTTTTTTCTTATTTTACAAAGAAAATTT
64 CAGAAAAGCTCACAAATCAACAAGAAAATTCAAACTTTTTTTTTCTTCTTTTACAAAGAAAA-TT
**
10397913 CAAGATTTTGACAAATGGGTATGTGTTTTTGTTGGAGTT-TCTATTGTTGTGGATGATGATGAT-
128 CAAGATTTTGACAAATGGGTATGTGTTTTTGTTGGAGTTCT-TATTGTTGTTAATGATGATGATG
* *
10397976 -TATTGATTA
192 ACATTGATTG
* * * * * * *
10397985 AAGAATATCAATCCAAAT-GTGATTTTGCTTTATTATTTCTTGATTCTACCATCGACCCATATCA
1 AAGAACATCAACCCAGATAATGATTTTGCCTTATTATTTCCTGATTCTACCATCGACCCAGATCA
* *
10398049 GAAAAGCTCACAAATCAATAAGAAAATTCAAACTTTTTTTTTCTATTTTTTTTTACAAAGAAAAA
66 GAAAAGCTCACAAATCAACAAGAAAATTCAAACTTTTTTTTTC----TTCTTTTACAAAG-AAAA
* *
10398114 TTCAAGTTTTTGACAAATGGGTATGTGTTTTTGTTTGGA-TTCTTATTATTGTTAATGATGATGA
126 TTCAAGATTTTGACAAATGGGTATGTGTTTTTG-TTGGAGTTCTTATTGTTGTTAATGATGATGA
10398178 TGATCATTGATTG
190 TGA-CATTGATTG
* * * ** * * * *
10398191 AAGAACATCGATCCAGATGATGATTTTATCTTATTATTTTCTGATTAC-ACCAT-AACCCAAATT
1 AAGAACATCAACCCAGATAATGATTTTGCCTTATTATTTCCTGATT-CTACCATCGACCCAGATC
* * * *
10398254 AGAAAAACTCACAAATCAATAAGAAAATTCAAAC-TTTTTTTT-TTCTTTTATAAA-AAAATACA
65 AGAAAAGCTCACAAATCAACAAGAAAATTCAAACTTTTTTTTTCTTCTTTTACAAAGAAAATTCA
* * * * *
10398316 AGATTTTGACAAATGGATATATGTTTTTGTTGGAGTTCTTGTTGTTGTTGATGATGATAATGA
130 AGATTTTGACAAATGGGTATGTGTTTTTGTTGGAGTTCTTATTGTTGTTAATGATGATGATGA
10398379 TTATTGTTGC
Statistics
Matches: 505, Mismatches: 67, Indels: 49
0.81 0.11 0.08
Matches are distributed among these distances:
197 5 0.01
198 60 0.12
199 79 0.16
200 81 0.16
201 9 0.02
202 1 0.00
203 161 0.32
204 11 0.02
205 9 0.02
206 62 0.12
207 26 0.05
208 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.14, T:0.40
Consensus pattern (201 bp):
AAGAACATCAACCCAGATAATGATTTTGCCTTATTATTTCCTGATTCTACCATCGACCCAGATCA
GAAAAGCTCACAAATCAACAAGAAAATTCAAACTTTTTTTTTCTTCTTTTACAAAGAAAATTCAA
GATTTTGACAAATGGGTATGTGTTTTTGTTGGAGTTCTTATTGTTGTTAATGATGATGATGACAT
TGATTG
Found at i:10398089 original size:200 final size:196
Alignment explanation
Indices: 10397612--10398352 Score: 739
Period size: 200 Copynumber: 3.7 Consensus size: 196
10397602 TGATTTTGAC
* ** * * * * *
10397612 TTATTATTTTTCAATTCTGTCATCGACCCAGATAAAAAAAGCTCATAAATCAACAAGCAAATTTA
1 TTATTATTTTT-GATTCTACCATCGACCCAGATCAGAAAAGCTCACAAATCAACAAGAAAATTCA
** * *
10397677 ATTTTTTTTCTTTTTTTTCTTTTACAAAGTAAAATTCAAGATTTTGACAAATGGCTATGTGTTTT
65 A-ACTTTTT-TTTTTCTT-TTTTACAAAG-AAAATTCAAGATTTTGACAAATGGGTATGTGTTTT
* * * *
10397742 TGTT-GAGGTTTTTGTTGTTAATGATGATGATGA-CGATTGATCGAAGAACATCAACCCAGACA-
126 TGTTGGA-GTTTCTATTGTTAATGATGATGATGATC-ATTGATTGAAGAACATCAATCCA-A-AT
* *
10397804 ATGATTTCTCC
187 GTGATTT-TCT
* * * **
10397815 TTGTTATTTACCT-ATTCTGCCATCGACTTAGATCAGAAAAGCTCACAAATCAACAAGAAAATTC
1 TTATTATTT--TTGATTCTACCATCGACCCAGATCAGAAAAGCTCACAAATCAACAAGAAAATTC
10397879 AAAC-TTTTTTTTTCTTATTTTACAAAGAAAATTTCAAGATTTTGACAAATGGGTATGTGTTTTT
64 AAACTTTTTTTTTTCTT-TTTTACAAAGAAAA-TTCAAGATTTTGACAAATGGGTATGTGTTTTT
* * * *
10397943 GTTGGAGTTTCTATTGTT-GTGGATGATGATGATTATTGATTAAAGAATATCAATCCAAATGTGA
127 GTTGGAGTTTCTATTGTTAAT-GATGATGATGATCATTGATTGAAGAACATCAATCCAAATGTGA
10398007 TTTTGCT
191 TTTT-CT
* *
10398014 TTATTATTTCTTGATTCTACCATCGACCCATATCAGAAAAGCTCACAAATCAATAAGAAAATTCA
1 TTATTATTT-TTGATTCTACCATCGACCCAGATCAGAAAAGCTCACAAATCAACAAGAAAATTCA
* *
10398079 AACTTTTTTTTTCTATTTTTTTTTACAAAGAAAAATTCAAGTTTTTGACAAATGGGTATGTGTTT
65 AAC--TTTTTTT-T-TTCTTTTTTACAAAG-AAAATTCAAGATTTTGACAAATGGGTATGTGTTT
* * * *
10398144 TTGTTTGGATTCTTATTATTGTTAATGATGATGATGATCATTGATTGAAGAACATCGATCCAGAT
125 TTG-TTGGAGT-TT-CTATTGTTAATGATGATGATGATCATTGATTGAAGAACATCAATCCAAAT
*
10398209 GATGATTTTAT
187 G-TGATTTTCT
* * * * *
10398220 CTTATTATTTTCTGATTAC-ACCAT-AACCCAAATTAGAAAAACTCACAAATCAATAAGAAAATT
1 -TTATTATTTT-TGATT-CTACCATCGACCCAGATCAGAAAAGCTCACAAATCAACAAGAAAATT
* * * *
10398283 CAAACTTTTTTTTTTC--TTTTATAAA-AAAATACAAGATTTTGACAAATGGATATATGTTTTTG
63 CAAACTTTTTTTTTTCTTTTTTACAAAGAAAATTCAAGATTTTGACAAATGGGTATGTGTTTTTG
10398345 TTGGAGTT
128 TTGGAGTT
10398353 CTTGTTGTTG
Statistics
Matches: 461, Mismatches: 54, Indels: 53
0.81 0.10 0.09
Matches are distributed among these distances:
196 1 0.00
197 6 0.01
198 37 0.08
199 71 0.15
200 99 0.21
201 6 0.01
202 8 0.02
203 97 0.21
204 21 0.05
205 3 0.01
206 84 0.18
207 27 0.06
208 1 0.00
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.40
Consensus pattern (196 bp):
TTATTATTTTTGATTCTACCATCGACCCAGATCAGAAAAGCTCACAAATCAACAAGAAAATTCAA
ACTTTTTTTTTTCTTTTTTACAAAGAAAATTCAAGATTTTGACAAATGGGTATGTGTTTTTGTTG
GAGTTTCTATTGTTAATGATGATGATGATCATTGATTGAAGAACATCAATCCAAATGTGATTTTC
T
Found at i:10399576 original size:67 final size:67
Alignment explanation
Indices: 10399505--10399650 Score: 181
Period size: 67 Copynumber: 2.2 Consensus size: 67
10399495 AAATTAGAGA
* * * *
10399505 TATTTTCTCTTTTGAATTTTTAAAATTTTCACCATTTGTGTCTATGTAGAAATTCTCTTTATTTA
1 TATTTTCTCTTTTGAATTTCTAAAATTTTCACCATTTATGTCAATGTAGAAATTCCCTTT-TTTA
10399570 -TT
65 GTT
* * *
10399572 TATTTAT-TTTTTTGAATTTCTAAATTTTTCACCATTTATGTCAATTTAGAAATTCCCTTTTTTA
1 TATTT-TCTCTTTTGAATTTCTAAAATTTTCACCATTTATGTCAATGTAGAAATTCCCTTTTTTA
10399636 GTT
65 GTT
*
10399639 T-TCTTCTCTTTT
1 TATTTTCTCTTTT
10399651 TTTTTTTTAT
Statistics
Matches: 67, Mismatches: 9, Indels: 7
0.81 0.11 0.08
Matches are distributed among these distances:
65 1 0.01
66 11 0.16
67 54 0.81
68 1 0.01
ACGTcount: A:0.23, C:0.13, G:0.06, T:0.58
Consensus pattern (67 bp):
TATTTTCTCTTTTGAATTTCTAAAATTTTCACCATTTATGTCAATGTAGAAATTCCCTTTTTTAG
TT
Found at i:10400098 original size:172 final size:168
Alignment explanation
Indices: 10399682--10400153 Score: 638
Period size: 170 Copynumber: 2.8 Consensus size: 168
10399672 AAATAATATG
* * * * * *
10399682 ACAATTATTTTTTTTGAAGTTTCATTTAAATTCTTTCACAATTTGGAATAAATTTAGAGAAATTT
1 ACAATTACTTTTATTGAAATTTCATCTAAATTATTCCACAATTTGG-ATAAATTTAGAGAAATTT
* * * * *
10399747 CTCATCTAGAGATTTTTTAGAAAATTTAGCATTTGAAATTTTTAAAAATATCATCCTTAGATAAT
65 CTCACCTAGAGATTTATTA-AAAATTTACCATTTGAAATTTTTAAAATTCTCATCCTTAGATAAT
* * *
10399812 TGTCACATATTTTCAATCAAAATTTTATTTGCAAAAGAAT
129 TGTCAAATATTTTCAACCAAAATTTTATTTGAAAAAGAAT
* * * * *
10399852 ATAATTACTTTTATTGAAATTACATCTAAATTATTCAACCATTTGGGACAAATTTAGAGAAATTT
1 ACAATTACTTTTATTGAAATTTCATCTAAATTATTCCACAATTT-GGATAAATTTAGAGAAATTT
* * * * * *
10399917 CTGACCTAGAGATTTCTTAATAAATTTACCATTTGAAATTTCTAAGATTCTCATCCTTATATGAT
65 CTCACCTAGAGATTTATTAA-AAATTTACCATTTGAAATTTTTAAAATTCTCATCCTTAGATAAT
10399982 TGTCAAATATTTTCAACCAAAATTTTTTATTTGAAAAAGAAT
129 TGTCAAATATTTTCAACCAAAA--TTTTATTTGAAAAAGAAT
*
10400024 ACAATTACTTTTATTAAAATTTCATCTAAATTATTCCACAATTTAGGATAAATTTAGAGAAATTT
1 ACAATTACTTTTATTGAAATTTCATCTAAATTATTCCACAATTT-GGATAAATTTAGAGAAATTT
*
10400089 CTCACCTAGAGATTTATTAAAAATTTACCATTTGAAATTTTTAAAATTCTCATCCTTAGGTAATT
65 CTCACCTAGAGATTTATTAAAAATTTACCATTTGAAATTTTTAAAATTCTCATCCTTAGATAATT
10400154 AGTATTTTTT
Statistics
Matches: 260, Mismatches: 38, Indels: 7
0.85 0.12 0.02
Matches are distributed among these distances:
169 1 0.00
170 124 0.48
171 42 0.16
172 93 0.36
ACGTcount: A:0.38, C:0.12, G:0.08, T:0.42
Consensus pattern (168 bp):
ACAATTACTTTTATTGAAATTTCATCTAAATTATTCCACAATTTGGATAAATTTAGAGAAATTTC
TCACCTAGAGATTTATTAAAAATTTACCATTTGAAATTTTTAAAATTCTCATCCTTAGATAATTG
TCAAATATTTTCAACCAAAATTTTATTTGAAAAAGAAT
Found at i:10400193 original size:7 final size:7
Alignment explanation
Indices: 10400180--10400213 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
10400170 TTTATTAATA
10400180 TTTTTAT
1 TTTTTAT
*
10400187 CTTTTAT
1 TTTTTAT
10400194 TTTTTAT
1 TTTTTAT
10400201 TTTTTAT
1 TTTTTAT
10400208 ATTTTT
1 -TTTTT
10400214 TTGTTTGAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
7 19 0.79
8 5 0.21
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (7 bp):
TTTTTAT
Found at i:10400199 original size:14 final size:15
Alignment explanation
Indices: 10400177--10400213 Score: 58
Period size: 14 Copynumber: 2.5 Consensus size: 15
10400167 AAATTTATTA
10400177 ATATTTTTATCTTTT
1 ATATTTTTATCTTTT
*
10400192 AT-TTTTTATTTTTT
1 ATATTTTTATCTTTT
10400206 ATATTTTT
1 ATATTTTT
10400214 TTGTTTGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 13 0.65
15 7 0.35
ACGTcount: A:0.19, C:0.03, G:0.00, T:0.78
Consensus pattern (15 bp):
ATATTTTTATCTTTT
Found at i:10401299 original size:7 final size:8
Alignment explanation
Indices: 10401270--10401298 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
10401260 TTTTTCTTTT
10401270 TTTTTTAA
1 TTTTTTAA
10401278 TTTTTTAA
1 TTTTTTAA
10401286 TTTTTTAA
1 TTTTTTAA
10401294 TTTTT
1 TTTTT
10401299 ATTAGCAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (8 bp):
TTTTTTAA
Found at i:10401585 original size:43 final size:42
Alignment explanation
Indices: 10401453--10402345 Score: 635
Period size: 43 Copynumber: 21.3 Consensus size: 42
10401443 CTCAGACTTC
* * *
10401453 TTGAATAACATAAAAAAACTCCTTTAAACAGAGGCTCAACAACT
1 TTGAA-AA-ATAAATAAGCTCCTCTAAACAGAGGCTCAACAACT
*** *
10401497 AAAAAAAAT-AA-AAGCTCCTCTAAACAGAGGCTTAACAACTT
1 TTGAAAAATAAATAAGCTCCTCTAAACAGAGGCTCAACAAC-T
* * *
10401538 TTGAAAAATAAATAAGACTCTTCTAATCAGAGACTCAACAACT
1 TTGAAAAATAAATAAG-CTCCTCTAAACAGAGGCTCAACAACT
* * ** **
10401581 TTGAAAAATAAATAAGGGTTCCTCTAAACAAAAACTCAATTACT
1 TTGAAAAATAAATAA--GCTCCTCTAAACAGAGGCTCAACAACT
* * * **
10401625 TTG-AAAAT-AA-AGGCTTCTCTAAACAGAGGCTTAATGACT
1 TTGAAAAATAAATAAGCTCCTCTAAACAGAGGCTCAACAACT
* * *
10401664 TTGAAAAATAAATAATGCTCATCTAATCAGAGGCTCCACAACTT
1 TTGAAAAATAAATAA-GCTCCTCTAAACAGAGGCTCAACAAC-T
* * * * *
10401708 TTGAAAAATAAA-AA-TTCTTCTAAACAGAGACTCAATAGCT
1 TTGAAAAATAAATAAGCTCCTCTAAACAGAGGCTCAACAACT
*
10401748 TTGAAAAATAAATAAAAGCTCCTCTAAACAGAGGCTCAACGACT
1 TTGAAAAATAAAT--AAGCTCCTCTAAACAGAGGCTCAACAACT
* * * * * * ** *
10401792 TCGAAAAGTAAAT--GCTCTTTTAAACAGAGGTTTAATTATT
1 TTGAAAAATAAATAAGCTCCTCTAAACAGAGGCTCAACAACT
* * * **
10401832 TTGGAAAATAAATAATGCTCCTCTAAACATAGGCTTAATGACT
1 TTGAAAAATAAATAA-GCTCCTCTAAACAGAGGCTCAACAACT
* *
10401875 TTGAAAAATAAATAATGCTCCTCTAATCAGAGGCTCCACAACT
1 TTGAAAAATAAATAA-GCTCCTCTAAACAGAGGCTCAACAACT
* * * * * **
10401918 TTGAAAAATAAATAATGCTCTTTTAAACAAAGTCTTAATGACT
1 TTGAAAAATAAATAA-GCTCCTCTAAACAGAGGCTCAACAACT
* * *
10401961 TTGAAAAATAAATAATGCTCTTCTAATCAGAGGTTTC-ACAACT
1 TTGAAAAATAAATAA-GCTCCTCTAAACAGAGG-CTCAACAACT
* * * *
10402004 TTAAAAAAT-AA-AAGCTCATCTAAATAAAGGCTCAACAACT
1 TTGAAAAATAAATAAGCTCCTCTAAACAGAGGCTCAACAACT
* * * *
10402044 TTAAAAAAT-AA-AGGCTCCTCTGAACAGAGGCTAAACAACTT
1 TTGAAAAATAAATAAGCTCCTCTAAACAGAGGCTCAACAAC-T
* ** * *
10402085 TTGAAAAAT-AA-AGGCTTTTCTAAACAGAAGCTCAACGACT
1 TTGAAAAATAAATAAGCTCCTCTAAACAGAGGCTCAACAACT
* * * * *
10402125 TTGAAAAATAAATAATACTCCTCTAATCATAAGCTCCACAACT
1 TTGAAAAATAAATAA-GCTCCTCTAAACAGAGGCTCAACAACT
* *
10402168 TTGAAAAATAAATAATGCTTCTCTAATCAGAGGCTTC-ACAACT
1 TTGAAAAATAAATAA-GCTCCTCTAAACAGAGGC-TCAACAACT
* * *
10402211 TTGAAGAAT-AA-AAGCTCCTCTAAACAGAGGATTAACAACT
1 TTGAAAAATAAATAAGCTCCTCTAAACAGAGGCTCAACAACT
* * * * *
10402251 TTAAAAAAT-AA-AGGCTCTTCTAAATAGAGGCTTAACAACTT
1 TTGAAAAATAAATAAGCTCCTCTAAACAGAGGCTCAACAAC-T
* * ***
10402292 TTGAAAAAT-AA-AGGCTCCTCTAAACAGAGACTCCGTAACTT
1 TTGAAAAATAAATAAGCTCCTCTAAACAGAGGCTCAACAAC-T
10402333 TTGAAAAATAAAT
1 TTGAAAAATAAAT
10402346 CTCCTCAACA
Statistics
Matches: 679, Mismatches: 141, Indels: 59
0.77 0.16 0.07
Matches are distributed among these distances:
39 26 0.04
40 189 0.28
41 112 0.16
42 14 0.02
43 245 0.36
44 92 0.14
45 1 0.00
ACGTcount: A:0.44, C:0.18, G:0.12, T:0.27
Consensus pattern (42 bp):
TTGAAAAATAAATAAGCTCCTCTAAACAGAGGCTCAACAACT
Done.