Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019167893.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_16, 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: 22157061
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 74000 characters in sequence are not A, C, G, or T
File 107 of 113
Found at i:20966988 original size:19 final size:20
Alignment explanation
Indices: 20966948--20966992 Score: 74
Period size: 21 Copynumber: 2.2 Consensus size: 20
20966938 CCCAAAATTA
20966948 ATAAAATATTATTTTTAAAAT
1 ATAAAATATTATTTTT-AAAT
20966969 ATAAAATATTATTTTT-AAT
1 ATAAAATATTATTTTTAAAT
20966988 ATAAA
1 ATAAA
20966993 TATAAAATTA
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 8 0.33
21 16 0.67
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATAAAATATTATTTTTAAAT
Found at i:20967004 original size:12 final size:14
Alignment explanation
Indices: 20966984--20967020 Score: 51
Period size: 14 Copynumber: 2.7 Consensus size: 14
20966974 ATATTATTTT
20966984 TAATATAAATAT-AA
1 TAAT-TAAATATAAA
20966998 -AATTAAATATAAA
1 TAATTAAATATAAA
20967011 TAATTAAATA
1 TAATTAAATA
20967021 AATTAATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 7 0.33
13 5 0.24
14 9 0.43
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (14 bp):
TAATTAAATATAAA
Found at i:20969411 original size:14 final size:15
Alignment explanation
Indices: 20969380--20969422 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
20969370 CATTGATAAT
*
20969380 AAATAAATTATAATC
1 AAATAAATTATAAAC
20969395 AAATAAATT-TAAAC
1 AAATAAATTATAAAC
20969409 AAATAAATATATAA
1 AAATAAAT-TATAA
20969423 TTATAAAATT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
14 12 0.48
15 10 0.40
16 3 0.12
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (15 bp):
AAATAAATTATAAAC
Found at i:20972536 original size:30 final size:30
Alignment explanation
Indices: 20972471--20972548 Score: 95
Period size: 30 Copynumber: 2.6 Consensus size: 30
20972461 ATTGAAAGCC
* *
20972471 TAATTAAATAAAAATAAATTTATAAAGATT
1 TAATTGAATAAAAATAAATTTATAAAAATT
*
20972501 TAATTGAATGAAAATAAATATT-TAAAAATT
1 TAATTGAATAAAAATAAAT-TTATAAAAATT
* *
20972531 TAATTGATTTAAAATAAA
1 TAATTGAATAAAAATAAA
20972549 AGAATCATAA
Statistics
Matches: 42, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
30 40 0.95
31 2 0.05
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (30 bp):
TAATTGAATAAAAATAAATTTATAAAAATT
Found at i:20973804 original size:1 final size:1
Alignment explanation
Indices: 20973798--20973833 Score: 72
Period size: 1 Copynumber: 36.0 Consensus size: 1
20973788 GTATATTGTT
20973798 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
20973834 CCTGTTGTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 35 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:20975713 original size:20 final size:19
Alignment explanation
Indices: 20975688--20975753 Score: 55
Period size: 20 Copynumber: 3.4 Consensus size: 19
20975678 AAATTTTAAA
*
20975688 TTATTTAATATTTATAAATT
1 TTATTTAATATATA-AAATT
*
20975708 TTATTTATTATATAAAATTT
1 TTATTTAATATATAAAA-TT
* *
20975728 GTTAATAAATA-ATAAAA-T
1 -TTATTTAATATATAAAATT
20975746 TTATTTAA
1 TTATTTAA
20975754 ATTATTTTAG
Statistics
Matches: 37, Mismatches: 7, Indels: 7
0.73 0.14 0.14
Matches are distributed among these distances:
17 6 0.16
18 1 0.03
19 3 0.08
20 20 0.54
21 7 0.19
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (19 bp):
TTATTTAATATATAAAATT
Found at i:20979801 original size:15 final size:16
Alignment explanation
Indices: 20979773--20979804 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
20979763 AAGTATAAAT
20979773 TAATTTTGATAAAAAA
1 TAATTTTGATAAAAAA
20979789 TAATTTT-ATAAAAAA
1 TAATTTTGATAAAAAA
20979804 T
1 T
20979805 TATTAAATAA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (16 bp):
TAATTTTGATAAAAAA
Found at i:20982371 original size:22 final size:23
Alignment explanation
Indices: 20982323--20982372 Score: 70
Period size: 22 Copynumber: 2.3 Consensus size: 23
20982313 AGAAAGTTAT
20982323 AGGT-TTCCTCTTCACAACCAGA
1 AGGTGTTCCTCTTCACAACCAGA
*
20982345 A-GTGTTCCTCTTCACAACTA-A
1 AGGTGTTCCTCTTCACAACCAGA
20982366 AGGTGTT
1 AGGTGTT
20982373 AGCCATAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 4 0.16
22 21 0.84
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.32
Consensus pattern (23 bp):
AGGTGTTCCTCTTCACAACCAGA
Found at i:20991934 original size:25 final size:25
Alignment explanation
Indices: 20991906--20991957 Score: 86
Period size: 25 Copynumber: 2.1 Consensus size: 25
20991896 TGGTAAAAAG
*
20991906 GAAAATAGGTATATGGAAGAGATAA
1 GAAAATAGGTATATGGAAAAGATAA
*
20991931 GAAAATAGGTTTATGGAAAAGATAA
1 GAAAATAGGTATATGGAAAAGATAA
20991956 GA
1 GA
20991958 CTTCGAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.27, T:0.21
Consensus pattern (25 bp):
GAAAATAGGTATATGGAAAAGATAA
Found at i:21005653 original size:25 final size:23
Alignment explanation
Indices: 21005616--21005664 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 23
21005606 CTTTTTTTTT
21005616 ATTTTTTTATTGTA-TCTAAATAA
1 ATTTTTTTATTGTACT-TAAATAA
21005639 ATTTTTTTAATTTGTACTTAAATAA
1 ATTTTTTT-A-TTGTACTTAAATAA
21005664 A
1 A
21005665 CTCTTATTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
23 8 0.35
24 1 0.04
25 13 0.57
26 1 0.04
ACGTcount: A:0.37, C:0.04, G:0.04, T:0.55
Consensus pattern (23 bp):
ATTTTTTTATTGTACTTAAATAA
Found at i:21005735 original size:30 final size:29
Alignment explanation
Indices: 21005694--21005798 Score: 113
Period size: 30 Copynumber: 3.5 Consensus size: 29
21005684 TTTGGTTTAT
*
21005694 GTTAAGGGTTTATTTAAATATAAATTATAA
1 GTTAAGGGTTTATTTAGATA-AAATTATAA
* *
21005724 GTTAAGAGTTTATTTGGATAAAATT-TAAA
1 GTTAAGGGTTTATTTAGATAAAATTAT-AA
* *
21005753 GATTAAGGGTTTATTTAGATGCAAATTAAAA
1 G-TTAAGGGTTTATTTAGAT-AAAATTATAA
*
21005784 ATTAAGGGTTTATTT
1 GTTAAGGGTTTATTT
21005799 GGGTGTAAGA
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
28 1 0.02
29 8 0.13
30 47 0.75
31 7 0.11
ACGTcount: A:0.40, C:0.01, G:0.17, T:0.42
Consensus pattern (29 bp):
GTTAAGGGTTTATTTAGATAAAATTATAA
Found at i:21007294 original size:20 final size:21
Alignment explanation
Indices: 21007269--21007310 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
21007259 TTTGAGATTT
*
21007269 TTTTTTAT-TTTTAGAAAATA
1 TTTTTTATATTTTAAAAAATA
21007289 TTTTTTATATTTTAAAAAATA
1 TTTTTTATATTTTAAAAAATA
21007310 T
1 T
21007311 ATTTGATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 8 0.40
21 12 0.60
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TTTTTTATATTTTAAAAAATA
Found at i:21008507 original size:20 final size:19
Alignment explanation
Indices: 21008464--21008509 Score: 51
Period size: 18 Copynumber: 2.5 Consensus size: 19
21008454 AATTAAAATT
* *
21008464 ATTTTTTAATATTTATATA
1 ATTTTTAAATATTAATATA
21008483 A--TTTAAATTATTAATATA
1 ATTTTTAAA-TATTAATATA
21008501 ATTTTTAAA
1 ATTTTTAAA
21008510 AATATAATAA
Statistics
Matches: 22, Mismatches: 2, Indels: 5
0.76 0.07 0.17
Matches are distributed among these distances:
17 5 0.23
18 10 0.45
19 1 0.05
20 6 0.27
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
ATTTTTAAATATTAATATA
Found at i:21013775 original size:2 final size:2
Alignment explanation
Indices: 21013768--21013804 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
21013758 AGCTTTTTGA
21013768 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
21013805 CTTATCACAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21019569 original size:16 final size:16
Alignment explanation
Indices: 21019550--21019587 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
21019540 AATTATTTAA
21019550 TTATAT-ATTTATATAT
1 TTATATAATTT-TATAT
*
21019566 TTATTTAATTTTATAT
1 TTATATAATTTTATAT
21019582 TTATAT
1 TTATAT
21019588 TAAAAAATAA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 15 0.79
17 4 0.21
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (16 bp):
TTATATAATTTTATAT
Found at i:21019569 original size:24 final size:24
Alignment explanation
Indices: 21019542--21019587 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
21019532 TTTTAATTAA
21019542 TTATTTAATTATATATTTATATAT
1 TTATTTAATTATATATTTATATAT
*
21019566 TTATTTAATTTTATATTTATAT
1 TTATTTAATTATATATTTATAT
21019588 TAAAAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (24 bp):
TTATTTAATTATATATTTATATAT
Found at i:21019582 original size:12 final size:12
Alignment explanation
Indices: 21019543--21019584 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
21019533 TTTAATTAAT
*
21019543 TATTTAATTATA
1 TATTTAATTTTA
*
21019555 TATTTATATATT-
1 TATTTA-ATTTTA
21019567 TATTTAATTTTA
1 TATTTAATTTTA
21019579 TATTTA
1 TATTTA
21019585 TATTAAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 4 0.16
12 18 0.72
13 3 0.12
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (12 bp):
TATTTAATTTTA
Found at i:21030545 original size:17 final size:18
Alignment explanation
Indices: 21030523--21030558 Score: 65
Period size: 17 Copynumber: 2.1 Consensus size: 18
21030513 TTTTGTTGTC
21030523 AAATTAATATTTCA-AAA
1 AAATTAATATTTCACAAA
21030540 AAATTAATATTTCACAAA
1 AAATTAATATTTCACAAA
21030558 A
1 A
21030559 TTCTCGAAAT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 14 0.78
18 4 0.22
ACGTcount: A:0.58, C:0.08, G:0.00, T:0.33
Consensus pattern (18 bp):
AAATTAATATTTCACAAA
Found at i:21030755 original size:21 final size:19
Alignment explanation
Indices: 21030722--21030767 Score: 56
Period size: 21 Copynumber: 2.3 Consensus size: 19
21030712 CGAAATTAAT
*
21030722 AAAATATTTTTTTTAAATA
1 AAAATATTTTTTTAAAATA
21030741 AAAATATTATTTTTTAAAATA
1 AAAATA-T-TTTTTTAAAATA
*
21030762 TAAATA
1 AAAATA
21030768 AAAAATTAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 6 0.26
20 1 0.04
21 16 0.70
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AAAATATTTTTTTAAAATA
Found at i:21031226 original size:20 final size:20
Alignment explanation
Indices: 21031201--21031258 Score: 59
Period size: 20 Copynumber: 3.0 Consensus size: 20
21031191 TTTTATTGTG
*
21031201 ATTGTTTTTTGTTATTATTT
1 ATTGTTTATTGTTATTATTT
* *
21031221 ATTGTTTATTGTTTTTATCT
1 ATTGTTTATTGTTATTATTT
*
21031241 -TT-TTTATT-ATATTATTT
1 ATTGTTTATTGTTATTATTT
21031258 A
1 A
21031259 AAAAATTAGA
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
17 6 0.19
18 6 0.19
19 2 0.06
20 17 0.55
ACGTcount: A:0.19, C:0.02, G:0.07, T:0.72
Consensus pattern (20 bp):
ATTGTTTATTGTTATTATTT
Found at i:21031412 original size:22 final size:22
Alignment explanation
Indices: 21031387--21031428 Score: 68
Period size: 22 Copynumber: 1.9 Consensus size: 22
21031377 TATTCAAAAA
21031387 ATTAATTATTATTATT-TTTATT
1 ATTAATTATTA-TATTGTTTATT
21031409 ATTAATTATTATATTGTTTA
1 ATTAATTATTATATTGTTTA
21031429 AATAAACTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 4 0.21
22 15 0.79
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.64
Consensus pattern (22 bp):
ATTAATTATTATATTGTTTATT
Found at i:21031626 original size:22 final size:20
Alignment explanation
Indices: 21031575--21031616 Score: 68
Period size: 20 Copynumber: 2.1 Consensus size: 20
21031565 TATTTAAATA
*
21031575 ATTTATCA-TTTTTTATTTT
1 ATTTATCATTTTTTTATATT
21031594 ATTTATCATTTTTTTATATT
1 ATTTATCATTTTTTTATATT
21031614 ATT
1 ATT
21031617 ATTATTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.71
Consensus pattern (20 bp):
ATTTATCATTTTTTTATATT
Found at i:21031773 original size:18 final size:19
Alignment explanation
Indices: 21031752--21031792 Score: 52
Period size: 18 Copynumber: 2.3 Consensus size: 19
21031742 AAATTATATT
21031752 TTTTAAGTTCATATT-TT-A
1 TTTTAAGTT-ATATTGTTCA
21031770 TTTT-AGTTATATTGTTCA
1 TTTTAAGTTATATTGTTCA
21031788 TTTTA
1 TTTTA
21031793 TTTATTTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 5 0.25
17 6 0.30
18 9 0.45
ACGTcount: A:0.24, C:0.05, G:0.07, T:0.63
Consensus pattern (19 bp):
TTTTAAGTTATATTGTTCA
Found at i:21031826 original size:3 final size:3
Alignment explanation
Indices: 21031820--21031860 Score: 52
Period size: 3 Copynumber: 14.7 Consensus size: 3
21031810 GAATTATTAC
*
21031820 TAA TAA TAA T-A TAA -AA TAA CAA TAA TAA TAA TAA -AA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
21031861 TCATAAAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 6
0.80 0.05 0.15
Matches are distributed among these distances:
2 6 0.18
3 27 0.82
ACGTcount: A:0.68, C:0.02, G:0.00, T:0.29
Consensus pattern (3 bp):
TAA
Found at i:21031848 original size:22 final size:20
Alignment explanation
Indices: 21031824--21031897 Score: 78
Period size: 22 Copynumber: 3.5 Consensus size: 20
21031814 TATTACTAAT
*
21031824 AATAATATAAAATAACAATAAT
1 AATAATA-AAAATAAC-ATAAA
*
21031846 AATAATAAAATAATATCATAAA
1 AATAAT-AAA-AATAACATAAA
21031868 AATAA-AAAAATAACATAAA
1 AATAATAAAAATAACATAAA
*
21031887 AATAAGAAAAA
1 AATAATAAAAA
21031898 AATCAACACA
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
19 15 0.33
20 8 0.17
22 17 0.37
23 6 0.13
ACGTcount: A:0.73, C:0.04, G:0.01, T:0.22
Consensus pattern (20 bp):
AATAATAAAAATAACATAAA
Found at i:21031911 original size:41 final size:42
Alignment explanation
Indices: 21031832--21031913 Score: 98
Period size: 41 Copynumber: 2.0 Consensus size: 42
21031822 ATAATAATAT
* * *
21031832 AAAATAACAATAATAATAATAAAATAATATCATAAAAATAAA
1 AAAATAACAATAAAAATAAGAAAATAATATCACAAAAATAAA
21031874 AAAATAAC-ATAAAAATAAGAAAA-AA-ATCAACACAAAATAA
1 AAAATAACAATAAAAATAAGAAAATAATATC-ACA-AAAATAA
21031914 TTAAGATAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
39 3 0.09
40 4 0.11
41 20 0.57
42 8 0.23
ACGTcount: A:0.73, C:0.07, G:0.01, T:0.18
Consensus pattern (42 bp):
AAAATAACAATAAAAATAAGAAAATAATATCACAAAAATAAA
Found at i:21031913 original size:22 final size:22
Alignment explanation
Indices: 21031832--21031910 Score: 74
Period size: 19 Copynumber: 3.6 Consensus size: 22
21031822 ATAATAATAT
* *
21031832 AAAATAACAATAATAATAATAAA
1 AAAATAAC-ATAAAAATAAGAAA
* *
21031855 ATAATATCATAAAAAT---AAA
1 AAAATAACATAAAAATAAGAAA
21031874 AAAATAACATAAAAATAAGAAA
1 AAAATAACATAAAAATAAGAAA
*
21031896 AAAATCAACACAAAA
1 AAAAT-AACATAAAA
21031911 TAATTAAGAT
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
19 17 0.37
22 15 0.33
23 14 0.30
ACGTcount: A:0.73, C:0.08, G:0.01, T:0.18
Consensus pattern (22 bp):
AAAATAACATAAAAATAAGAAA
Found at i:21032893 original size:3 final size:3
Alignment explanation
Indices: 21032885--21032916 Score: 55
Period size: 3 Copynumber: 10.7 Consensus size: 3
21032875 ATTAATTAAT
*
21032885 TAA TAA TAA TAA TAA TAA TAG TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
21032917 TAAACAAAAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:21033199 original size:40 final size:40
Alignment explanation
Indices: 21033140--21033496 Score: 286
Period size: 40 Copynumber: 9.1 Consensus size: 40
21033130 TGAAAATTTA
* * * *
21033140 AAAAGGCTTCTTTAGCTAGAGGCGATGAAACTTTAAATTC
1 AAAAGGCTTCTCTAACCAGAGGCAATGAAACTTTAAATTC
* * * *
21033180 AAAAGGCTTCTCTAACTAGAGGTAACGAAACTTTAAATGTT
1 AAAAGGCTTCTCTAACCAGAGGCAATGAAACTTTAAAT-TC
* * *
21033221 AAAAGGCTTATCTAACTAGAGGCAA-CAAACTTTAAATTC
1 AAAAGGCTTCTCTAACCAGAGGCAATGAAACTTTAAATTC
* * * **
21033260 AGAAGGC-TCTTCTAACCAAACGCAACAAAACTTTAAATTC
1 AAAAGGCTTC-TCTAACCAGAGGCAATGAAACTTTAAATTC
* * * * *
21033300 AAAAGG-TTCTTTTGACCAAAGGCGATGAAACTTTAAATTT
1 AAAAGGCTTC-TCTAACCAGAGGCAATGAAACTTTAAATTC
* *
21033340 AGAAGGCTTCTCTAACCAGAGACAATGAAACTTTAAATTC
1 AAAAGGCTTCTCTAACCAGAGGCAATGAAACTTTAAATTC
* * * * *
21033380 AGAAGG-TTCTTCTAACCAAAAGCAACGAAACTTTAAATTT
1 AAAAGGCTTC-TCTAACCAGAGGCAATGAAACTTTAAATTC
* * *
21033420 AAAAGGC-TCTTTGACCAGAAGCAATGAAACTTTAAA-T-
1 AAAAGGCTTCTCTAACCAGAGGCAATGAAACTTTAAATTC
* * * *
21033457 AACA--C--CTTTAACCAGAGGCAATGAAACTTTATATTA
1 AAAAGGCTTCTCTAACCAGAGGCAATGAAACTTTAAATTC
21033493 AAAA
1 AAAA
21033497 TCTGATAGGA
Statistics
Matches: 262, Mismatches: 46, Indels: 22
0.79 0.14 0.07
Matches are distributed among these distances:
34 25 0.10
35 2 0.01
36 3 0.01
37 3 0.01
38 2 0.01
39 45 0.17
40 155 0.59
41 27 0.10
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (40 bp):
AAAAGGCTTCTCTAACCAGAGGCAATGAAACTTTAAATTC
Found at i:21033371 original size:120 final size:119
Alignment explanation
Indices: 21033167--21033456 Score: 377
Period size: 120 Copynumber: 2.4 Consensus size: 119
21033157 AGAGGCGATG
* * * * * *
21033167 AAACTTTAAATTCAAAAGGCTTCTCTAACTAGAGGTAACGAAACTTTAAATGTTAAAAGGCTTAT
1 AAACTTTAAATTCAAAAGGC-TCTTTGACCAGAAGCAATGAAACTTTAAATGTTAAAAGGCTTAT
* * *
21033232 CTAACTAGAGGCAACAAACTTTAAATTCAGAAGGCTCTTCTAACCAAACGCAACA
65 CTAACCAGAGACAACAAACTTTAAATTCAGAAGGCTCTTCTAACCAAAAGCAACA
* * * *
21033287 AAACTTTAAATTCAAAAGGTTCTTTTGACCA-AAGGCGATGAAACTTTAAAT-TTAGAAGGCTTC
1 AAACTTTAAATTCAAAAGGCTC-TTTGACCAGAA-GCAATGAAACTTTAAATGTTAAAAGGCTTA
* * *
21033350 TCTAACCAGAGACAATGAAACTTTAAATTCAGAAGGTTCTTCTAACCAAAAGCAACG
64 TCTAACCAGAGACAA-CAAACTTTAAATTCAGAAGGCTCTTCTAACCAAAAGCAACA
*
21033407 AAACTTTAAATTTAAAAGGCTCTTTGACCAGAAGCAATGAAACTTTAAAT
1 AAACTTTAAATTCAAAAGGCTCTTTGACCAGAAGCAATGAAACTTTAAAT
21033457 AACACCTTTA
Statistics
Matches: 147, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
119 50 0.34
120 97 0.66
ACGTcount: A:0.41, C:0.18, G:0.14, T:0.27
Consensus pattern (119 bp):
AAACTTTAAATTCAAAAGGCTCTTTGACCAGAAGCAATGAAACTTTAAATGTTAAAAGGCTTATC
TAACCAGAGACAACAAACTTTAAATTCAGAAGGCTCTTCTAACCAAAAGCAACA
Found at i:21048446 original size:15 final size:16
Alignment explanation
Indices: 21048420--21048449 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
21048410 TATTTATTTT
21048420 AATTTAAAATAAATAA
1 AATTTAAAATAAATAA
21048436 AATTT-AAATAAATA
1 AATTTAAAATAAATA
21048450 TATAAACATC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
AATTTAAAATAAATAA
Found at i:21048941 original size:14 final size:14
Alignment explanation
Indices: 21048893--21048942 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
21048883 AAATAATATA
*
21048893 ATAAAAATTTTTAT
1 ATAAAAATTTTAAT
* *
21048907 A-AAAAATGTAAAT
1 ATAAAAATTTTAAT
21048920 -TAATAAATTTTAAT
1 ATAA-AAATTTTAAT
21048934 ATAAAAATT
1 ATAAAAATT
21048943 AATAATATGT
Statistics
Matches: 28, Mismatches: 5, Indels: 6
0.72 0.13 0.15
Matches are distributed among these distances:
13 11 0.39
14 14 0.50
15 3 0.11
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (14 bp):
ATAAAAATTTTAAT
Found at i:21049142 original size:14 final size:13
Alignment explanation
Indices: 21049110--21049143 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
21049100 TATAACGAAA
21049110 TATTTTAATTTAT
1 TATTTTAATTTAT
21049123 TAATTTTAATTTAAT
1 T-ATTTTAATTT-AT
21049138 TATTTT
1 TATTTT
21049144 TTTACAAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.05
14 15 0.79
15 3 0.16
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
TATTTTAATTTAT
Found at i:21049414 original size:14 final size:15
Alignment explanation
Indices: 21049377--21049415 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
21049367 AAATATTAAA
21049377 AAATATTT--TTATT
1 AAATATTTGATTATT
21049390 AAATATTTGATTATT
1 AAATATTTGATTATT
21049405 AAAT-TTTGATT
1 AAATATTTGATT
21049416 TTTTTTATCG
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
13 8 0.33
14 7 0.29
15 9 0.38
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.56
Consensus pattern (15 bp):
AAATATTTGATTATT
Found at i:21054961 original size:21 final size:22
Alignment explanation
Indices: 21054922--21054963 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
21054912 CTTTCCATTA
* *
21054922 TTGATATATGTGTTGATTTTTG
1 TTGATATATATGTTAATTTTTG
21054944 TTGATATA-ATGTTAATTTTT
1 TTGATATATATGTTAATTTTT
21054964 ATGTTATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 10 0.56
22 8 0.44
ACGTcount: A:0.24, C:0.00, G:0.17, T:0.60
Consensus pattern (22 bp):
TTGATATATATGTTAATTTTTG
Found at i:21057386 original size:18 final size:18
Alignment explanation
Indices: 21057365--21057399 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
21057355 TATTGATTGA
*
21057365 ATATAAATATAAAAAATT
1 ATATAAAAATAAAAAATT
21057383 ATATAAAAATAAAAAAT
1 ATATAAAAATAAAAAAT
21057400 AAAGATGAAG
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (18 bp):
ATATAAAAATAAAAAATT
Found at i:21058789 original size:22 final size:22
Alignment explanation
Indices: 21058764--21058814 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
21058754 TTATATTTTA
21058764 TATAAAAATTATTTATT-AAATT
1 TATAAAAATTA-TTATTAAAATT
*
21058786 TATATATAATTATTATTAAAATT
1 TATA-AAAATTATTATTAAAATT
*
21058809 TTTAAA
1 TATAAA
21058815 TATATCATAT
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
22 10 0.42
23 14 0.58
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (22 bp):
TATAAAAATTATTATTAAAATT
Found at i:21058800 original size:26 final size:25
Alignment explanation
Indices: 21058746--21058802 Score: 71
Period size: 26 Copynumber: 2.3 Consensus size: 25
21058736 AAAATTTATG
*
21058746 TATT-TTTATTATATTTTATATAAA
1 TATTATTTATTAAATTTTATATAAA
* *
21058770 AATTATTTATTAAATTTATATATAAT
1 TATTATTTATTAAATTT-TATATAAA
21058796 TATTATT
1 TATTATT
21058803 AAAATTTTTA
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
24 3 0.11
25 11 0.41
26 13 0.48
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (25 bp):
TATTATTTATTAAATTTTATATAAA
Found at i:21059061 original size:22 final size:22
Alignment explanation
Indices: 21059035--21059077 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
21059025 AATTAATTTT
21059035 TATTAAAAAA-TATATGTAAAAG
1 TATTAAAAAATTA-ATGTAAAAG
*
21059057 TATTAAAATATTAATGTAAAA
1 TATTAAAAAATTAATGTAAAA
21059078 ATCTTTTTAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 17 0.89
23 2 0.11
ACGTcount: A:0.58, C:0.00, G:0.07, T:0.35
Consensus pattern (22 bp):
TATTAAAAAATTAATGTAAAAG
Found at i:21073494 original size:330 final size:330
Alignment explanation
Indices: 21072882--21073510 Score: 972
Period size: 330 Copynumber: 1.9 Consensus size: 330
21072872 ATCATCCTTG
21072882 AGTCCACTTATAAAGCTAGAAACAAAGTACCATTCAGTCAAGTATGGGTTATATTGCAACATATA
1 AGTCCACTTATAAAGCTAGAAACAAAGTACCATTCAGTCAAGTATGGGTTATATTGCAACATATA
** * * * *
21072947 AGGTTTTAACTCTTTGAATCTTTCTTGATATTCATCCATAGGAGTCTTTTGGGCTAGCTTGTTGA
66 AAATCTTAACTCTTCGAATCTTTCTTGATATTCATCCACAGGAGTCTTTTGGGCCAGCTTGTTGA
*
21073012 ACTTCTCTATTATGTCAGAACAGGTTTTGTAACAGAACCTTTGACACAAGTCATTAGAAAACTCT
131 ACTTCTCTATTATGTCAAAACAGGTTTTGTAACAGAACCTTTGACACAAGTCATTAGAAAACTCT
* * *
21073077 GGTCATATCACCCTTTCCTTTTGCATAAGGTATGCATCAAACCACACCTCAACCTTTCTTGCTAA
196 GGTCATATCACCCTTTCCTTTTGCATAAGGTATCCATCAAACCACACCTCAACCTTTCCTACTAA
* *
21073142 GTACATAGCATCTATTTCCAATTTCTGGTGATCATATGGGTTATATTGCAACAAAGTACCCTCAA
261 GTACATAGCAGCTATCTCCAATTTCTGGTGATCATATGGGTTATATTGCAACAAAGTACCCTCAA
21073207 TCTTT
326 TCTTT
* *
21073212 AGTCCACTTATAAAGCTAGAAACAAAGTGCCTTTCAGTCAAGTATGGGTTATATTGCAACATATA
1 AGTCCACTTATAAAGCTAGAAACAAAGTACCATTCAGTCAAGTATGGGTTATATTGCAACATATA
* * ** *
21073277 AAATCTTAACTCTTCGAATCTTTTTTTATATTCATCCACATTAGTCTTTTGGGCCAGTTTGTTGA
66 AAATCTTAACTCTTCGAATCTTTCTTGATATTCATCCACAGGAGTCTTTTGGGCCAGCTTGTTGA
* * *
21073342 AC-TCTTCTATTATGTCAAAACAGGTTTTGTAACAGAATCTTTGACACAAGTCATTTGTAAACTC
131 ACTTC-TCTATTATGTCAAAACAGGTTTTGTAACAGAACCTTTGACACAAGTCATTAGAAAACTC
* * ** *
21073406 TGGTCATGTCACCTTTTCCTTTTGCATAAGGTATCCATCAAACCATGCCTCAATCTTTCCTACTA
195 TGGTCATATCACCCTTTCCTTTTGCATAAGGTATCCATCAAACCACACCTCAACCTTTCCTACTA
* * *
21073471 CGTACATAGCAGCTCTCTCCAATTTTTGGTGATCATATGG
260 AGTACATAGCAGCTATCTCCAATTTCTGGTGATCATATGG
21073511 CAAAGTATTT
Statistics
Matches: 268, Mismatches: 30, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
329 2 0.01
330 266 0.99
ACGTcount: A:0.29, C:0.21, G:0.14, T:0.36
Consensus pattern (330 bp):
AGTCCACTTATAAAGCTAGAAACAAAGTACCATTCAGTCAAGTATGGGTTATATTGCAACATATA
AAATCTTAACTCTTCGAATCTTTCTTGATATTCATCCACAGGAGTCTTTTGGGCCAGCTTGTTGA
ACTTCTCTATTATGTCAAAACAGGTTTTGTAACAGAACCTTTGACACAAGTCATTAGAAAACTCT
GGTCATATCACCCTTTCCTTTTGCATAAGGTATCCATCAAACCACACCTCAACCTTTCCTACTAA
GTACATAGCAGCTATCTCCAATTTCTGGTGATCATATGGGTTATATTGCAACAAAGTACCCTCAA
TCTTT
Found at i:21080594 original size:11 final size:11
Alignment explanation
Indices: 21080578--21080602 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
21080568 AAACCAATAT
21080578 TTTTTATAAAA
1 TTTTTATAAAA
21080589 TTTTTATAAAA
1 TTTTTATAAAA
21080600 TTT
1 TTT
21080603 AATTAAATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTTTATAAAA
Found at i:21085725 original size:12 final size:12
Alignment explanation
Indices: 21085708--21085733 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
21085698 GATTGCAAGA
21085708 TAACCTTCTTGT
1 TAACCTTCTTGT
21085720 TAACCTTCTTGT
1 TAACCTTCTTGT
21085732 TA
1 TA
21085734 CTGTATTTGT
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:0.19, C:0.23, G:0.08, T:0.50
Consensus pattern (12 bp):
TAACCTTCTTGT
Found at i:21093950 original size:1 final size:1
Alignment explanation
Indices: 21093946--21093970 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
21093936 AAAAATGAGG
21093946 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
21093971 AAATCAGGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:21094064 original size:21 final size:22
Alignment explanation
Indices: 21094025--21094084 Score: 63
Period size: 21 Copynumber: 2.8 Consensus size: 22
21094015 CCCAACTCAT
21094025 TTTTAATTATATAATATATTAC
1 TTTTAATTATATAATATATTAC
21094047 TTTTATATT-TAT-ATATATTA-
1 TTTTA-ATTATATAATATATTAC
* * *
21094067 TGTGAATTATATCATATA
1 TTTTAATTATATAATATA
21094085 AAGAATAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 7
0.79 0.05 0.17
Matches are distributed among these distances:
19 3 0.09
20 6 0.18
21 13 0.39
22 8 0.24
23 3 0.09
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.55
Consensus pattern (22 bp):
TTTTAATTATATAATATATTAC
Found at i:21094379 original size:18 final size:17
Alignment explanation
Indices: 21094353--21094403 Score: 68
Period size: 18 Copynumber: 3.0 Consensus size: 17
21094343 TTATATAATA
*
21094353 TATAATATATTTATATT
1 TATATTATATTTATATT
*
21094370 TATACTTATATTTATGTT
1 TATA-TTATATTTATATT
21094388 TATATT-TATTTATATT
1 TATATTATATTTATATT
21094404 ATGTTAATTA
Statistics
Matches: 30, Mismatches: 3, Indels: 3
0.83 0.08 0.08
Matches are distributed among these distances:
16 9 0.30
17 6 0.20
18 15 0.50
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (17 bp):
TATATTATATTTATATT
Found at i:21094403 original size:6 final size:6
Alignment explanation
Indices: 21094358--21094396 Score: 60
Period size: 6 Copynumber: 6.5 Consensus size: 6
21094348 TAATATATAA
* *
21094358 TATATT TATATT TATACT TATATT TATGTT TATATT TAT
1 TATATT TATATT TATATT TATATT TATATT TATATT TAT
21094397 TTATATTATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.31, C:0.03, G:0.03, T:0.64
Consensus pattern (6 bp):
TATATT
Found at i:21094416 original size:24 final size:23
Alignment explanation
Indices: 21094362--21094408 Score: 71
Period size: 24 Copynumber: 2.1 Consensus size: 23
21094352 ATATAATATA
21094362 TTTATATTTATACTTATATTTATG
1 TTTATATTTATA-TTATATTTATG
21094386 TTTATATTTAT-TTATA-TTATG
1 TTTATATTTATATTATATTTATG
21094407 TT
1 TT
21094409 AATTATATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 7 0.30
22 5 0.22
24 11 0.48
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (23 bp):
TTTATATTTATATTATATTTATG
Found at i:21095016 original size:29 final size:30
Alignment explanation
Indices: 21094967--21095025 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
21094957 AATTAACACA
*
21094967 TTTATAATTCAGATATTATATTAAAAATTT
1 TTTATAATTCAGATATCATATTAAAAATTT
* *
21094997 TTTA-AATTCATATATCATATTAAATATTT
1 TTTATAATTCAGATATCATATTAAAAATTT
21095026 CACTATAATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 22 0.85
30 4 0.15
ACGTcount: A:0.42, C:0.05, G:0.02, T:0.51
Consensus pattern (30 bp):
TTTATAATTCAGATATCATATTAAAAATTT
Found at i:21095078 original size:13 final size:13
Alignment explanation
Indices: 21095060--21095084 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21095050 AAATTAATCT
21095060 TAAAAAAAAAAAA
1 TAAAAAAAAAAAA
21095073 TAAAAAAAAAAA
1 TAAAAAAAAAAA
21095085 CCATGTGTCG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.92, C:0.00, G:0.00, T:0.08
Consensus pattern (13 bp):
TAAAAAAAAAAAA
Found at i:21097955 original size:14 final size:14
Alignment explanation
Indices: 21097938--21097973 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
21097928 TATTTTTTAA
21097938 ATATAAATATAAAT
1 ATATAAATATAAAT
*
21097952 ATATAAATATATAT
1 ATATAAATATAAAT
21097966 A-ATAAATA
1 ATATAAATA
21097974 ATTAAATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 7 0.33
14 14 0.67
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
ATATAAATATAAAT
Found at i:21097995 original size:19 final size:21
Alignment explanation
Indices: 21097934--21097997 Score: 66
Period size: 20 Copynumber: 3.2 Consensus size: 21
21097924 ATATTATTTT
*
21097934 TTAAATATAAAT-ATAAAT-A
1 TTAAATATATATAATAAATAA
21097953 TATAAATATATATAATAAATAA
1 T-TAAATATATATAATAAATAA
21097975 TTAAATA-AT-TAATTAAA-AA
1 TTAAATATATATAA-TAAATAA
21097994 TTAA
1 TTAA
21097998 TTTTTATATA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
19 10 0.25
20 16 0.40
21 12 0.30
22 2 0.05
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (21 bp):
TTAAATATATATAATAAATAA
Found at i:21097997 original size:11 final size:12
Alignment explanation
Indices: 21097966--21097999 Score: 52
Period size: 12 Copynumber: 2.9 Consensus size: 12
21097956 AAATATATAT
*
21097966 AATAAATAATTA
1 AATAATTAATTA
21097978 AATAATTAATTA
1 AATAATTAATTA
21097990 AA-AATTAATT
1 AATAATTAATT
21098000 TTTATATAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
11 8 0.38
12 13 0.62
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (12 bp):
AATAATTAATTA
Found at i:21100966 original size:16 final size:16
Alignment explanation
Indices: 21100926--21100974 Score: 66
Period size: 15 Copynumber: 3.2 Consensus size: 16
21100916 TTATACATAT
*
21100926 TAAATATGAAATA-AA
1 TAAATATTAAATATAA
21100941 TAAATA-TAAATATAA
1 TAAATATTAAATATAA
*
21100956 TAAATATTAAATTTAA
1 TAAATATTAAATATAA
21100972 TAA
1 TAA
21100975 TCTTTACTAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
14 5 0.17
15 14 0.47
16 11 0.37
ACGTcount: A:0.63, C:0.00, G:0.02, T:0.35
Consensus pattern (16 bp):
TAAATATTAAATATAA
Found at i:21101642 original size:25 final size:26
Alignment explanation
Indices: 21101594--21101643 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
21101584 TATTCGAATA
*
21101594 TAAAATAATTTGAATTGGTTTTGATT
1 TAAAATAATTTGAATTGGTATTGATT
21101620 TAAAATAATTT-AATTAGG-ATTGAT
1 TAAAATAATTTGAATT-GGTATTGAT
21101644 GCAACACTAA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 9 0.41
26 13 0.59
ACGTcount: A:0.40, C:0.00, G:0.14, T:0.46
Consensus pattern (26 bp):
TAAAATAATTTGAATTGGTATTGATT
Found at i:21102075 original size:2 final size:2
Alignment explanation
Indices: 21102068--21102166 Score: 64
Period size: 2 Copynumber: 51.5 Consensus size: 2
21102058 TAAAATAAAA
* * * *
21102068 AT AT AT AT AT CAT AT TT TT AT AT AA AT AT AA AT -T AT A- AT AT
1 AT AT AT AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
* * * * *
21102109 AT A- AT TT AT AT AT AT AA AT AT AT AT AA AT AT AA AT AT -T TT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
21102149 AT AT -T AT AT AA AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
21102167 AATTATCAAA
Statistics
Matches: 74, Mismatches: 17, Indels: 12
0.72 0.17 0.12
Matches are distributed among these distances:
1 5 0.07
2 67 0.91
3 2 0.03
ACGTcount: A:0.52, C:0.01, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:21102099 original size:33 final size:31
Alignment explanation
Indices: 21102035--21102169 Score: 102
Period size: 32 Copynumber: 4.3 Consensus size: 31
21102025 TAAAATTTTA
**
21102035 ATAAAAAT-T-ATATATAAATTTA-ATAAA-
1 ATAAAAATATAATATATATTTTTATATAAAT
21102062 ATAAAAATATATATATCATATTTTTATATAAAT
1 ATAAAAATATA-ATAT-ATATTTTTATATAAAT
*
21102095 AT-AAATTATAATATATAATTTATATATATAAAT
1 ATAAAAATATAATATAT-ATTT-T-TATATAAAT
*
21102128 ATATATAAATATAA-ATATTTTATATTATATAAAT
1 ATA-A-AAATATAATATATATT-T-TTATATAAAT
*
21102162 ATATAAAT
1 ATAAAAAT
21102170 TATCAAATCT
Statistics
Matches: 89, Mismatches: 6, Indels: 21
0.77 0.05 0.18
Matches are distributed among these distances:
27 8 0.09
28 1 0.01
30 6 0.07
31 15 0.17
32 17 0.19
33 13 0.15
34 14 0.16
35 8 0.09
36 7 0.08
ACGTcount: A:0.56, C:0.01, G:0.00, T:0.44
Consensus pattern (31 bp):
ATAAAAATATAATATATATTTTTATATAAAT
Found at i:21102121 original size:31 final size:29
Alignment explanation
Indices: 21102038--21102122 Score: 95
Period size: 31 Copynumber: 2.9 Consensus size: 29
21102028 AATTTTAATA
21102038 AAAATTATATATA-AATTTA-ATA-AAAT
1 AAAATTATATATATAATTTATATATAAAT
* *
21102064 AAAAATATATATATCATATTTTTATATAAAT
1 AAAATTATATATAT-A-ATTTATATATAAAT
21102095 ATAAATTATAATATATAATTTATATATA
1 A-AAATTAT-ATATATAATTTATATATA
21102123 TAAATATATA
Statistics
Matches: 48, Mismatches: 4, Indels: 9
0.79 0.07 0.15
Matches are distributed among these distances:
26 12 0.25
28 1 0.02
29 4 0.08
30 3 0.06
31 15 0.31
32 7 0.15
33 6 0.12
ACGTcount: A:0.55, C:0.01, G:0.00, T:0.44
Consensus pattern (29 bp):
AAAATTATATATATAATTTATATATAAAT
Found at i:21103392 original size:2 final size:2
Alignment explanation
Indices: 21103385--21103428 Score: 72
Period size: 2 Copynumber: 22.5 Consensus size: 2
21103375 TTTAACTGCT
*
21103385 TA TA TA TA TA TA TA T- TA TA TA TA TA TA TA TA TA CA 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
21103426 TA T
1 TA T
21103429 CCATGAAAAT
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
1 1 0.03
2 38 0.97
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:21106212 original size:104 final size:104
Alignment explanation
Indices: 21106020--21106230 Score: 343
Period size: 104 Copynumber: 2.0 Consensus size: 104
21106010 CTTAAAAGAA
*
21106020 TATGCATGAATCTATAGGAATCTCTTTCTACAATTGTGGGCTAAGTTCATGTCATATCATGACTA
1 TATGCATCAATCTATAGGAATCTCTTTCTACAATTGTGGGCTAAGTTCATGTCATATCATGACTA
* *
21106085 ATAGTTTACTTGGAATTTGTTTTTTTGAAATTCTTAATC
66 ATAGTTTACTTGAAATGTGTTTTTTTGAAATTCTTAATC
* * *
21106124 TATGCATCAATTTATAGGAATCTCTTTCTACAGTTGTGGGCTAAGTTCATGTCATATCATTACTA
1 TATGCATCAATCTATAGGAATCTCTTTCTACAATTGTGGGCTAAGTTCATGTCATATCATGACTA
*
21106189 ATAGTTTACTTTGAAATGT-TTTTTTTGAAATTTTTAATC
66 ATAGTTTAC-TTGAAATGTGTTTTTTTGAAATTCTTAATC
21106228 TAT
1 TAT
21106231 TCTTAAACTT
Statistics
Matches: 99, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
104 92 0.93
105 7 0.07
ACGTcount: A:0.28, C:0.13, G:0.14, T:0.45
Consensus pattern (104 bp):
TATGCATCAATCTATAGGAATCTCTTTCTACAATTGTGGGCTAAGTTCATGTCATATCATGACTA
ATAGTTTACTTGAAATGTGTTTTTTTGAAATTCTTAATC
Found at i:21107077 original size:21 final size:20
Alignment explanation
Indices: 21107051--21107098 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 20
21107041 TGTGTTTTGA
21107051 TTTTTTTCTATGCAT-TATGTT
1 TTTTTTTC-ATGCATGTAT-TT
21107072 TTTTTTTCATGCATGGTATTT
1 TTTTTTTCATGCAT-GTATTT
21107093 TTTTTT
1 TTTTTT
21107099 GTTCAGTTGT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
20 6 0.24
21 16 0.64
22 3 0.12
ACGTcount: A:0.12, C:0.08, G:0.10, T:0.69
Consensus pattern (20 bp):
TTTTTTTCATGCATGTATTT
Found at i:21114339 original size:21 final size:22
Alignment explanation
Indices: 21114295--21114339 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 22
21114285 TCCTTTTTTA
*
21114295 TTTAAACTCTTTATACCAAATG
1 TTTAAACTCTCTATACCAAATG
* *
21114317 TTTAAACTC-CTATATCAATTG
1 TTTAAACTCTCTATACCAAATG
21114338 TT
1 TT
21114340 ATAACTATAC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 11 0.55
22 9 0.45
ACGTcount: A:0.33, C:0.18, G:0.04, T:0.44
Consensus pattern (22 bp):
TTTAAACTCTCTATACCAAATG
Found at i:21117059 original size:7 final size:7
Alignment explanation
Indices: 21117022--21117077 Score: 53
Period size: 7 Copynumber: 8.3 Consensus size: 7
21117012 TGAAAAATTT
21117022 AAAGTC-
1 AAAGTCA
21117028 AAAGTCA
1 AAAGTCA
21117035 AAA-TCA
1 AAAGTCA
**
21117041 AAAGTGT
1 AAAGTCA
*
21117048 TAAGTCA
1 AAAGTCA
21117055 AAAGTCA
1 AAAGTCA
* *
21117062 AATGTTA
1 AAAGTCA
21117069 AAAGTCA
1 AAAGTCA
21117076 AA
1 AA
21117078 GAGGTGTAAC
Statistics
Matches: 38, Mismatches: 10, Indels: 3
0.75 0.20 0.06
Matches are distributed among these distances:
6 12 0.32
7 26 0.68
ACGTcount: A:0.54, C:0.11, G:0.14, T:0.21
Consensus pattern (7 bp):
AAAGTCA
Found at i:21118941 original size:22 final size:22
Alignment explanation
Indices: 21118916--21118964 Score: 98
Period size: 22 Copynumber: 2.2 Consensus size: 22
21118906 CACCAAGTCT
21118916 CTTGTTTCTTTAGAAACTTATA
1 CTTGTTTCTTTAGAAACTTATA
21118938 CTTGTTTCTTTAGAAACTTATA
1 CTTGTTTCTTTAGAAACTTATA
21118960 CTTGT
1 CTTGT
21118965 CTAATTCTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.24, C:0.14, G:0.10, T:0.51
Consensus pattern (22 bp):
CTTGTTTCTTTAGAAACTTATA
Found at i:21122963 original size:25 final size:26
Alignment explanation
Indices: 21122912--21122963 Score: 61
Period size: 25 Copynumber: 2.0 Consensus size: 26
21122902 AATGGTGAAT
* * *
21122912 GAAAAACAATAATATTTTGGATATAA
1 GAAAAACAATAAGATGTTGAATATAA
*
21122938 GAAAAACAA-AAGATGTTGAATTTAA
1 GAAAAACAATAAGATGTTGAATATAA
21122963 G
1 G
21122964 CTCTAAAACT
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
25 13 0.59
26 9 0.41
ACGTcount: A:0.54, C:0.04, G:0.15, T:0.27
Consensus pattern (26 bp):
GAAAAACAATAAGATGTTGAATATAA
Found at i:21129644 original size:11 final size:11
Alignment explanation
Indices: 21129628--21129658 Score: 53
Period size: 11 Copynumber: 2.7 Consensus size: 11
21129618 CTGTTTAGAA
21129628 ATTTTATTAAT
1 ATTTTATTAAT
21129639 ATTTTATTAAT
1 ATTTTATTAAT
21129650 ATTCTTATT
1 ATT-TTATT
21129659 TAAAATTAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
11 14 0.74
12 5 0.26
ACGTcount: A:0.32, C:0.03, G:0.00, T:0.65
Consensus pattern (11 bp):
ATTTTATTAAT
Found at i:21131216 original size:19 final size:19
Alignment explanation
Indices: 21131194--21131239 Score: 65
Period size: 19 Copynumber: 2.4 Consensus size: 19
21131184 TTCTATTCTG
*
21131194 TTTTATTTTTTTTCATATT
1 TTTTATTTTATTTCATATT
* *
21131213 TTTTGTATTATTTCATATT
1 TTTTATTTTATTTCATATT
21131232 TTTTATTT
1 TTTTATTT
21131240 CATATTTTAT
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.17, C:0.04, G:0.02, T:0.76
Consensus pattern (19 bp):
TTTTATTTTATTTCATATT
Found at i:21131239 original size:14 final size:14
Alignment explanation
Indices: 21131220--21131247 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21131210 ATTTTTTGTA
21131220 TTATTTCATATTTT
1 TTATTTCATATTTT
21131234 TTATTTCATATTTT
1 TTATTTCATATTTT
21131248 ATACTTATAC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.21, C:0.07, G:0.00, T:0.71
Consensus pattern (14 bp):
TTATTTCATATTTT
Found at i:21131588 original size:48 final size:48
Alignment explanation
Indices: 21131441--21132104 Score: 792
Period size: 49 Copynumber: 13.8 Consensus size: 48
21131431 TTAAAATCTA
* * * *
21131441 AAAAAGCTCATCTTAGCAAAGGCTCAACAATTTTAAAATCTCAT-TTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
21131488 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAAT-TCAT-TTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG
* *
21131535 AAAAAAGGCTCCTCTCAACAGAGGCTCAATAACTTTAAAATCTCAT-TTG
1 -AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* **
21131584 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATTTCA-AATG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG
*
21131633 AAAATGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCA-CTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
*
21131680 AAAAAGCTCCTCCCAGCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG
* **
21131729 AAAAAGGGCTCTTCTCAATAGAGGCTCAACAACTTT-AAA----ATCTTG
1 AAAAA--GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* *
21131774 AAAAAGGCTCCTCTCAGCAGAGGCTTAACGACTTTAAAATCTCATCTTG
1 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
* * * *
21131823 GAAAAGCTCATTTCAGTAGAGGCTCAACAACTTTAAAATCTCATCTTGG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT-G
* * *
21131872 AAAAAGCTCCTCTCAGCAAAGGTTCAACGACTTTAAAATCTCATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
*
21131920 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTTATCTTG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCATCTTG
* * * *
21131969 GAAAAGCTCCTCTTAGTAGAGGCTCAATAACTTTAAAATCTCATCTTAG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT-G
* * * * *
21132018 AAAAGGCTCCTCTCAGCAAAGGCTCAATAATTTTAAAATTTCATCTTGG
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTT-G
* * * * *
21132067 AAAAGGCTCATCTCAGTAGAGGCTTAATAACTTTAAAA
1 AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAA
21132105 ATCTTTTCTT
Statistics
Matches: 539, Mismatches: 60, Indels: 34
0.85 0.09 0.05
Matches are distributed among these distances:
44 25 0.05
45 14 0.03
47 79 0.15
48 167 0.31
49 229 0.42
51 25 0.05
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (48 bp):
AAAAAGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATCTTG
Found at i:21131618 original size:97 final size:97
Alignment explanation
Indices: 21131440--21132108 Score: 790
Period size: 97 Copynumber: 6.9 Consensus size: 97
21131430 TTTAAAATCT
* * * * *
21131440 AAAAAAGCTCATCTTAGCAAAGGCTCAACAATTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGC
1 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGC
21131505 AGAGGCTCAACAACTTTAAAAAT-TCAT-TTG
66 AGAGGCTCAACAACTTTAAAAATCTCATCTTG
* *
21131535 AAAAAAGGCTCCTCTCAACAGAGGCTCAATAACTTTAAAATCTCATTTGAAAAAGGCTCCTCTCA
1 -AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAA-GCTCCTCTCA
* **
21131600 GCAGAGGCTCAACAACTTTAAAAATTTCA-AATG
64 GCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * *
21131633 -AAAATGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCACTTGAAAAAGCTCCTCCCAGC
1 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGC
21131697 AGAGGCTCAACAACTTTAAAAATCTCATCTTG
66 AGAGGCTCAACAACTTTAAAAATCTCATCTTG
* **
21131729 AAAAAGGGCTCTTCTCAATAGAGGCTCAACAACTTTAAAA--TC--TTGAAAAAGGCTCCTCTCA
1 AAAAA-GGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAA-GCTCCTCTCA
* *
21131790 GCAGAGGCTTAACGACTTT-AAAATCTCATCTTG
64 GCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * * *
21131823 GAAAA-GCTCATTTCAGTAGAGGCTCAACAACTTTAAAATCTCATCTTGGAAAAAGCTCCTCTCA
1 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT-TT-GAAAAAGCTCCTCTCA
* * *
21131887 GCAAAGGTTCAACGACTTT-AAAATCTCATCTTG
64 GCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * *
21131920 AAAAA-GCTCCTCTCAGCAGAGGCTCAACAACTTTAAAAATCTTATCTTGGAAAAGCTCCTCTTA
1 AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTT-AAAATCTCAT-TTGAAAAAGCTCCTCTCA
* *
21131984 GTAGAGGCTCAATAACTTT-AAAATCTCATCTT-
64 GCAGAGGCTCAACAACTTTAAAAATCTCATCTTG
* * * * * *
21132016 AGAAAAGGCTCCTCTCAGCAAAGGCTCAATAATTTTAAAATTTCATCTTGGAAAAGGCTCATCTC
1 A-AAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCAT-TT-GAAAAAGCTCCTCTC
* * *
21132081 AGTAGAGGCTTAATAACTTTAAAAATCT
63 AGCAGAGGCTCAACAACTTTAAAAATCT
21132109 TTTCTTAAAC
Statistics
Matches: 503, Mismatches: 52, Indels: 33
0.86 0.09 0.06
Matches are distributed among these distances:
92 30 0.06
94 28 0.06
95 63 0.13
96 99 0.20
97 167 0.33
98 109 0.22
99 7 0.01
ACGTcount: A:0.37, C:0.23, G:0.14, T:0.27
Consensus pattern (97 bp):
AAAAAGGCTCCTCTCAGCAGAGGCTCAACAACTTTAAAATCTCATTTGAAAAAGCTCCTCTCAGC
AGAGGCTCAACAACTTTAAAAATCTCATCTTG
Found at i:21143151 original size:20 final size:19
Alignment explanation
Indices: 21143125--21143195 Score: 90
Period size: 19 Copynumber: 3.7 Consensus size: 19
21143115 GTTCAATAGG
21143125 GAAAAAAAAGAAAGAAGAA
1 GAAAAAAAAGAAAGAAGAA
* *
21143144 GAAAAAAAAGAAAAGAATAG
1 GAAAAAAAAG-AAAGAAGAA
* *
21143164 GAAAAAAAGGAAAAAAGAA
1 GAAAAAAAAGAAAGAAGAA
21143183 GAAAAAAAA-AAAG
1 GAAAAAAAAGAAAG
21143196 GAACGGTACA
Statistics
Matches: 43, Mismatches: 8, Indels: 3
0.80 0.15 0.06
Matches are distributed among these distances:
18 3 0.07
19 24 0.56
20 16 0.37
ACGTcount: A:0.79, C:0.00, G:0.20, T:0.01
Consensus pattern (19 bp):
GAAAAAAAAGAAAGAAGAA
Found at i:21147240 original size:6 final size:6
Alignment explanation
Indices: 21147221--21147254 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
21147211 TTTCTTTCTT
*
21147221 CCCTCA CCCCCA CCCTCA CCCTCA CCCTCA CCCT
1 CCCTCA CCCTCA CCCTCA CCCTCA CCCTCA CCCT
21147255 TGCGCCCACA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.71, G:0.00, T:0.15
Consensus pattern (6 bp):
CCCTCA
Found at i:21153515 original size:2 final size:2
Alignment explanation
Indices: 21153508--21153537 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
21153498 AAACCAAACC
21153508 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21153538 GTTGAATTAC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:21154455 original size:12 final size:13
Alignment explanation
Indices: 21154432--21154464 Score: 52
Period size: 13 Copynumber: 2.7 Consensus size: 13
21154422 CATTAAAATT
21154432 AAAATA-ATTT-A
1 AAAATATATTTAA
21154443 AAAATATATTTAA
1 AAAATATATTTAA
21154456 AAAATATAT
1 AAAATATAT
21154465 AAACAATTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 6 0.30
12 4 0.20
13 10 0.50
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAATATATTTAA
Found at i:21158427 original size:16 final size:16
Alignment explanation
Indices: 21158414--21158444 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21158404 ATTTTAAATA
21158414 TTAAAATTTATAAAAC
1 TTAAAATTTATAAAAC
*
21158430 TTAAATTTTATAAAA
1 TTAAAATTTATAAAA
21158445 AAGTTTAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (16 bp):
TTAAAATTTATAAAAC
Found at i:21159158 original size:25 final size:23
Alignment explanation
Indices: 21159101--21159158 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 23
21159091 TTTCATATAA
21159101 TTTAATTTGAATTGAATTAAATT
1 TTTAATTTGAATTGAATTAAATT
* *
21159124 TTATAGATTTGATTTGATTTATTAATT
1 TT-TA-ATTTGAATTGAATTA--AATT
21159151 TTTAATTT
1 TTTAATTT
21159159 TTTAATTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
23 2 0.07
24 2 0.07
25 17 0.59
26 2 0.07
27 6 0.21
ACGTcount: A:0.33, C:0.00, G:0.09, T:0.59
Consensus pattern (23 bp):
TTTAATTTGAATTGAATTAAATT
Found at i:21160458 original size:25 final size:26
Alignment explanation
Indices: 21160425--21160483 Score: 79
Period size: 24 Copynumber: 2.4 Consensus size: 26
21160415 TTTTATTTTG
21160425 TATAT-TTAAATAGTTTTTT-ATAAA
1 TATATATTAAATAGTTTTTTAATAAA
*
21160449 TATATATT-AATATTTTTTTAATAAA
1 TATATATTAAATAGTTTTTTAATAAA
*
21160474 AATATATTAA
1 TATATATTAA
21160484 TTTTAATTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
24 15 0.50
25 14 0.47
26 1 0.03
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.53
Consensus pattern (26 bp):
TATATATTAAATAGTTTTTTAATAAA
Found at i:21160484 original size:25 final size:25
Alignment explanation
Indices: 21160444--21160532 Score: 83
Period size: 25 Copynumber: 3.5 Consensus size: 25
21160434 ATAGTTTTTT
* *
21160444 ATAAATATATATTAATATTTTTTTA
1 ATAAAAATATATTAATATTTATTTA
*
21160469 ATAAAAATATATTAAT-TTTAATTA
1 ATAAAAATATATTAATATTTATTTA
* *
21160493 ATCTAAAATAATAATTTATA-TTATTTA
1 AT-AAAAAT-AT-ATTAATATTTATTTA
*
21160520 ATAAAAATTTATT
1 ATAAAAATATATT
21160533 TATTAAATAT
Statistics
Matches: 52, Mismatches: 8, Indels: 9
0.75 0.12 0.13
Matches are distributed among these distances:
24 11 0.21
25 21 0.40
26 7 0.13
27 13 0.25
ACGTcount: A:0.49, C:0.01, G:0.00, T:0.49
Consensus pattern (25 bp):
ATAAAAATATATTAATATTTATTTA
Found at i:21160522 original size:20 final size:19
Alignment explanation
Indices: 21160498--21160541 Score: 61
Period size: 20 Copynumber: 2.3 Consensus size: 19
21160488 AATTAATCTA
*
21160498 AAATAATAATTTATATTATT
1 AAATAAAAATTTAT-TTATT
*
21160518 TAATAAAAATTTATTTATT
1 AAATAAAAATTTATTTATT
21160537 AAATA
1 AAATA
21160542 TATATAAATA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 9 0.43
20 12 0.57
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
AAATAAAAATTTATTTATT
Found at i:21163071 original size:18 final size:18
Alignment explanation
Indices: 21163048--21163082 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
21163038 GGTTTCTTGT
21163048 AATGGGACTGAGAGTAGC
1 AATGGGACTGAGAGTAGC
21163066 AATGGGACTGAGAGTAG
1 AATGGGACTGAGAGTAG
21163083 TGGCAACAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.34, C:0.09, G:0.40, T:0.17
Consensus pattern (18 bp):
AATGGGACTGAGAGTAGC
Found at i:21164752 original size:3 final size:3
Alignment explanation
Indices: 21164744--21164777 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
21164734 ATAGAGAACA
*
21164744 ATT ATT ATT ATT ATT ATT ATT GTT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
21164778 CTACTCAGGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 29 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:21166134 original size:58 final size:58
Alignment explanation
Indices: 21166072--21166202 Score: 196
Period size: 58 Copynumber: 2.3 Consensus size: 58
21166062 TATTTTATTA
* *
21166072 ATTAAAATATATTAAAATATAAAAATTAGATTAAACTTGC-AAGTTACTT-GAGTCAAAT
1 ATTAAAATATATTAAAATATAAAAATTAAATTAAACTCGCGAA-TTA-TTCGAGTCAAAT
21166130 ATTAAAATATATTAAAATATAAAAATTAAATTAAACTCGCGAATTATTCGAGTCAAAT
1 ATTAAAATATATTAAAATATAAAAATTAAATTAAACTCGCGAATTATTCGAGTCAAAT
*
21166188 ATAAAAATAT-TTAAA
1 ATTAAAATATATTAAA
21166203 TTCGGTTCGA
Statistics
Matches: 68, Mismatches: 3, Indels: 5
0.89 0.04 0.07
Matches are distributed among these distances:
57 7 0.10
58 59 0.87
59 2 0.03
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.34
Consensus pattern (58 bp):
ATTAAAATATATTAAAATATAAAAATTAAATTAAACTCGCGAATTATTCGAGTCAAAT
Found at i:21169232 original size:25 final size:25
Alignment explanation
Indices: 21169179--21169226 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
21169169 ACCTAATCAA
21169179 TTTTATTAAAGTAATATTATTTTAT
1 TTTTATTAAAGTAATATTATTTTAT
* *
21169204 TTTTGTTAAA-TATTATT-TTTTAT
1 TTTTATTAAAGTAATATTATTTTAT
21169227 AGTTTTATAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 6 0.29
24 6 0.29
25 9 0.43
ACGTcount: A:0.31, C:0.00, G:0.04, T:0.65
Consensus pattern (25 bp):
TTTTATTAAAGTAATATTATTTTAT
Found at i:21169807 original size:27 final size:28
Alignment explanation
Indices: 21169752--21169813 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
21169742 TCTTGAATCC
*
21169752 TTTTTAAGTTTGTCATATCATAGGCTTT
1 TTTTTAAGTTTGTCACATCATAGGCTTT
* *
21169780 TTTTTAAGTTTGTCACGTGATAGG-TTT
1 TTTTTAAGTTTGTCACATCATAGGCTTT
21169807 TCTTTTA
1 T-TTTTA
21169814 TCTTCATGAA
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 4 0.13
28 26 0.87
ACGTcount: A:0.19, C:0.10, G:0.16, T:0.55
Consensus pattern (28 bp):
TTTTTAAGTTTGTCACATCATAGGCTTT
Found at i:21170413 original size:31 final size:31
Alignment explanation
Indices: 21170377--21170451 Score: 107
Period size: 31 Copynumber: 2.4 Consensus size: 31
21170367 TTTTTTATAT
21170377 ATAAAAAATTAAATATTAAAAT-AAAGAATAA
1 ATAAAAAATTAAATATTAAAATAAAAG-ATAA
*
21170408 ATAAAATATTAAATATTAAAATAAAAGATAA
1 ATAAAAAATTAAATATTAAAATAAAAGATAA
21170439 ATACAAAACATTA
1 ATA-AAAA-ATTA
21170452 TACTTTAAAA
Statistics
Matches: 39, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
31 28 0.72
32 7 0.18
33 4 0.10
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.27
Consensus pattern (31 bp):
ATAAAAAATTAAATATTAAAATAAAAGATAA
Found at i:21171083 original size:3 final size:3
Alignment explanation
Indices: 21171075--21171112 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
21171065 AATTGTCAAG
21171075 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
21171113 TAATAGTTAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:21171738 original size:11 final size:12
Alignment explanation
Indices: 21171716--21171744 Score: 51
Period size: 11 Copynumber: 2.5 Consensus size: 12
21171706 GATAATAATA
21171716 ATTTAATATTAT
1 ATTTAATATTAT
21171728 ATTTAAT-TTAT
1 ATTTAATATTAT
21171739 ATTTAA
1 ATTTAA
21171745 AAAAAGATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 10 0.59
12 7 0.41
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTTAATATTAT
Found at i:21171905 original size:16 final size:17
Alignment explanation
Indices: 21171884--21171918 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
21171874 AAATTATATA
*
21171884 AATTTTGATAAA-AAAT
1 AATTTTAATAAATAAAT
21171900 AATTTTAATAAATAAAT
1 AATTTTAATAAATAAAT
21171917 AA
1 AA
21171919 ATTATCTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 11 0.65
17 6 0.35
ACGTcount: A:0.60, C:0.00, G:0.03, T:0.37
Consensus pattern (17 bp):
AATTTTAATAAATAAAT
Found at i:21174613 original size:23 final size:24
Alignment explanation
Indices: 21174587--21174642 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 24
21174577 TTATATATGT
21174587 TATTTTTAAA-ATA-AATTATTTTA
1 TATTTTTAAATATATAATT-TTTTA
*
21174610 TATTTAATAAATATATAATTTTTTA
1 TATTT-TTAAATATATAATTTTTTA
*
21174635 TAATTTTA
1 TATTTTTA
21174643 TATTCAAGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 5
0.77 0.09 0.14
Matches are distributed among these distances:
23 5 0.19
24 6 0.22
25 12 0.44
26 4 0.15
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (24 bp):
TATTTTTAAATATATAATTTTTTA
Found at i:21177252 original size:22 final size:24
Alignment explanation
Indices: 21177209--21177252 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
21177199 TAATTTAATT
21177209 AAAAAATATCAACAATCTGAATCC
1 AAAAAATATCAACAATCTGAATCC
21177233 AAAACAAT-TCAA-AATC-GAAT
1 AAAA-AATATCAACAATCTGAAT
21177253 TACTTGATTA
Statistics
Matches: 19, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
22 4 0.21
23 4 0.21
24 8 0.42
25 3 0.16
ACGTcount: A:0.57, C:0.18, G:0.05, T:0.20
Consensus pattern (24 bp):
AAAAAATATCAACAATCTGAATCC
Found at i:21178082 original size:4 final size:4
Alignment explanation
Indices: 21178073--21178098 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
21178063 GCATACTGAG
21178073 GTTT GTTT GTTT GTTT GTTT GTTT GT
1 GTTT GTTT GTTT GTTT GTTT GTTT GT
21178099 CAAATATTTA
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:0.00, C:0.00, G:0.27, T:0.73
Consensus pattern (4 bp):
GTTT
Found at i:21178382 original size:24 final size:23
Alignment explanation
Indices: 21178330--21178383 Score: 58
Period size: 22 Copynumber: 2.4 Consensus size: 23
21178320 AAAAAATCTT
*
21178330 GAATAATAATATCATAAAGAATA
1 GAATAATAATATCATAAAAAATA
**
21178353 G-A-AATAATATTTTTAAAAAATA
1 GAATAATAATA-TCATAAAAAATA
21178375 GAATAATAA
1 GAATAATAA
21178384 AACCAACATA
Statistics
Matches: 25, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
21 7 0.28
22 11 0.44
23 2 0.08
24 5 0.20
ACGTcount: A:0.61, C:0.02, G:0.07, T:0.30
Consensus pattern (23 bp):
GAATAATAATATCATAAAAAATA
Found at i:21179143 original size:33 final size:30
Alignment explanation
Indices: 21179068--21179144 Score: 84
Period size: 31 Copynumber: 2.4 Consensus size: 30
21179058 TGGGTTTATC
21179068 TTATGTTATTTTTTTTTATTATCTGTTAATT
1 TTAT-TTATTTTTTTTTATTATCTGTTAATT
*
21179099 TTATTTGATTTTTTTTTGAATTATCTGATATTATT
1 TTATTT-ATTTTTTTTT--ATTATCTG-T-TAATT
21179134 TT-TTTATTTTT
1 TTATTTATTTTT
21179145 ATACTATCAT
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
30 2 0.05
31 14 0.35
33 14 0.35
34 4 0.10
35 6 0.15
ACGTcount: A:0.19, C:0.03, G:0.06, T:0.71
Consensus pattern (30 bp):
TTATTTATTTTTTTTTATTATCTGTTAATT
Found at i:21179556 original size:31 final size:31
Alignment explanation
Indices: 21179521--21179586 Score: 80
Period size: 31 Copynumber: 2.1 Consensus size: 31
21179511 TTCCAGATTT
* * *
21179521 CGGCAAAAATTTCGGCGAA-ATTTGAATTTTC
1 CGGCAAAAATTCCGACGAACA-TTGAAGTTTC
*
21179552 CGGCAACAATTCCGACGAACATTGAAGTTTC
1 CGGCAAAAATTCCGACGAACATTGAAGTTTC
21179583 CGGC
1 CGGC
21179587 GACCAGCCCA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
31 29 0.97
32 1 0.03
ACGTcount: A:0.30, C:0.23, G:0.21, T:0.26
Consensus pattern (31 bp):
CGGCAAAAATTCCGACGAACATTGAAGTTTC
Found at i:21180051 original size:13 final size:13
Alignment explanation
Indices: 21180020--21180066 Score: 60
Period size: 13 Copynumber: 3.6 Consensus size: 13
21180010 TTTTTTTTTT
*
21180020 TTTTATTTCTTT-
1 TTTTATTTGTTTA
*
21180032 GTTTATTTGTTTA
1 TTTTATTTGTTTA
21180045 TTTTATTTGTTTA
1 TTTTATTTGTTTA
21180058 TTTTTATTT
1 -TTTTATTT
21180067 ATTAGATTAG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
12 10 0.33
13 12 0.40
14 8 0.27
ACGTcount: A:0.13, C:0.02, G:0.06, T:0.79
Consensus pattern (13 bp):
TTTTATTTGTTTA
Found at i:21180229 original size:57 final size:57
Alignment explanation
Indices: 21180148--21180897 Score: 1017
Period size: 57 Copynumber: 12.7 Consensus size: 57
21180138 AAAATTCTAA
21180148 AAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* * *
21180206 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC-------C
*
21180270 AAAAAATATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
* * *
21180327 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAA
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC--C
*
21180386 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTGCTTA-AGAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCC
*
21180443 AAAAAATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCC
21180500 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
21180557 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTCC
1 --AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCC
21180616 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC
* *
21180678 AAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTCAAA
1 --AAAAAA-TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTC--C
* *
21180742 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTC
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
**
21180799 AAAAAAGGGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCGAAATTTCC
1 AAAAAA-TATTTTTAG-GGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCC
*
21180859 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
21180898 TCCTAAAAAA
Statistics
Matches: 631, Mismatches: 27, Indels: 67
0.87 0.04 0.09
Matches are distributed among these distances:
57 262 0.42
58 45 0.07
59 141 0.22
60 20 0.03
61 42 0.07
62 25 0.04
63 1 0.00
64 59 0.09
65 36 0.06
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (57 bp):
AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
Found at i:21180266 original size:116 final size:114
Alignment explanation
Indices: 21180146--21180897 Score: 1021
Period size: 116 Copynumber: 6.4 Consensus size: 114
21180136 AAAAAATTCT
21180146 AAAAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
1 AAAAAAA-ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
21180211 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC
65 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAATAAATTTC
*
21180262 AAAAAAAAAAAAAATATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
1 ------AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC
21180327 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTC
60 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT-AGAAATAAATTTC
*
21180383 AAAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTGCTTA-AGAATAAATTTCCAAAA
1 -AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGA-AATAAATTTCCAAAA
* *
21180447 AATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTC
64 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-TAGA-AATAAATTTC
*
21180499 -CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCC--AAAA
*
21180563 AATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTA-AGAATAAATTTC
64 AATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-TAGA-AATAAATTTC
*
21180615 -CAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCCA
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTT---AG--AAATAAATTTCC-
*
21180679 AAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCAAAATTTC
60 -AAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAG-AAAT--AAATTTC
* *
21180739 AAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTTCAAAAA
1 -AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAA
** * *
21180804 AGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTGAAAATCGAAATTTC
65 A-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAG-AAAT--AAATTTC
* *
21180858 -CAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTT
21180898 TCCTAAAAAA
Statistics
Matches: 594, Mismatches: 18, Indels: 41
0.91 0.03 0.06
Matches are distributed among these distances:
114 54 0.09
115 3 0.01
116 205 0.35
117 40 0.07
119 57 0.10
121 139 0.23
122 44 0.07
123 3 0.01
124 7 0.01
126 42 0.07
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (114 bp):
AAAAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAA
TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTAGAAATAAATTTC
Found at i:21180508 original size:173 final size:176
Alignment explanation
Indices: 21180148--21180897 Score: 1060
Period size: 173 Copynumber: 4.2 Consensus size: 176
21180138 AAAATTCTAA
* *
21180148 AAAAATATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTC--CAAAAA
1 AAAAA-ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAAA
* * *
21180211 ATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC-TCAGAAATAAATTTCAAAAAAAAAAAAA
65 ATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTC-------CAAAAA
* *
21180275 ATATTTTTAGGGAAAAATTGAAAGTATCAATTTTCCTT--AGAAATAAATTTCC
123 ATATTTTTAGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAGAAATAAATTTCC
*
21180327 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTCAGAAATAAATTTCAAAAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAAAA
*
21180392 TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTGCTTAAG-AATAAATTTCCAAAAAATATTTTT
66 TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCCAAAAAATATTTTT
21180456 AGAGAAAAGTTGAAAGTATCAATTTTCCTT-AAG-AATAAATTTCC
131 AGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAGAAATAAATTTCC
* *
21180500 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCCAAAAAAAA
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAAAA
21180565 TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAG-AATAAATTTCCAAAAAATATTTTT
66 TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCCAAAAAATATTTTT
*
21180629 AGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAGAAAAATAAATTTCC
131 AGAGAAAAGTTGAAAGTATCAATTTTCCTT-AAAG--AAATAAATTTCC
21180678 AAAAAAAAGTATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-GAAAATCAAAATTTCAAA
1 --AAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAG-AAAT--AAATTTCAAA
* *
21180742 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTT-AGAAATAAATTTTCAAAAAAG
60 AAAAAATATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCCAAAAAA-
** *
21180806 GGTTTTT-GAGGAAAAGTTGAAAGTATCAATTTTCCTT-GA-AAATCGAAATTTCC
124 TATTTTTAGA-GAAAAGTTGAAAGTATCAATTTTCCTTAAAGAAAT--AAATTTCC
21180859 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTT
21180898 TCCTAAAAAA
Statistics
Matches: 529, Mismatches: 22, Indels: 41
0.89 0.04 0.07
Matches are distributed among these distances:
173 206 0.39
174 2 0.00
175 3 0.01
178 93 0.18
179 15 0.03
180 56 0.11
181 51 0.10
182 3 0.01
183 68 0.13
184 32 0.06
ACGTcount: A:0.45, C:0.08, G:0.13, T:0.34
Consensus pattern (176 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAGAAATAAATTTCAAAAAAAAA
TATTTTTAGGGAAAAGTTGAAAGTATCAATTTTCCTTAAGAAATAAATTTCCAAAAAATATTTTT
AGAGAAAAGTTGAAAGTATCAATTTTCCTTAAAGAAATAAATTTCC
Found at i:21180596 original size:27 final size:27
Alignment explanation
Indices: 21180566--21180654 Score: 65
Period size: 27 Copynumber: 3.2 Consensus size: 27
21180556 CAAAAAAAAT
21180566 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
* * * * **
21180593 ATTTTCCTTAAGAATAAATTTCCAAAAAAT--
1 A-TTT--TTAGGGA-AAAGTT-GAAAGTATCA
21180623 ATTTTTAGGGAAAAGTTGAAAGTATCA
1 ATTTTTAGGGAAAAGTTGAAAGTATCA
21180650 ATTTT
1 ATTTT
21180655 CCTTAAAAGA
Statistics
Matches: 43, Mismatches: 12, Indels: 14
0.62 0.17 0.20
Matches are distributed among these distances:
25 5 0.12
26 5 0.12
27 11 0.26
28 3 0.07
29 3 0.07
30 6 0.14
31 5 0.12
32 5 0.12
ACGTcount: A:0.42, C:0.07, G:0.15, T:0.37
Consensus pattern (27 bp):
ATTTTTAGGGAAAAGTTGAAAGTATCA
Found at i:21181871 original size:19 final size:18
Alignment explanation
Indices: 21181810--21181871 Score: 58
Period size: 18 Copynumber: 3.4 Consensus size: 18
21181800 GGCTATTTGT
21181810 TATTATTTTGGTCATATTA
1 TATTATTTTGGT-ATATTA
*
21181829 TA-TAGTTTGAG-ATATTA
1 TATTATTTTG-GTATATTA
21181846 T-TATATTTTGGTATAATTA
1 TAT-TATTTTGGTAT-ATTA
21181865 TATTATT
1 TATTATT
21181872 ATATTATGTT
Statistics
Matches: 35, Mismatches: 2, Indels: 12
0.71 0.04 0.24
Matches are distributed among these distances:
17 8 0.23
18 14 0.40
19 12 0.34
20 1 0.03
ACGTcount: A:0.31, C:0.02, G:0.11, T:0.56
Consensus pattern (18 bp):
TATTATTTTGGTATATTA
Found at i:21181873 original size:3 final size:3
Alignment explanation
Indices: 21181861--21181919 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
21181851 TTTTGGTATA
* *
21181861 ATT A-T ATT ATT A-T ATT A-T GTT ATAT ATT GTT AGCTT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT-T ATT ATT A--TT ATT ATT ATT
21181906 ATT ATT ATT ATT AT
1 ATT ATT ATT ATT AT
21181920 CGTAACGGTT
Statistics
Matches: 46, Mismatches: 4, Indels: 12
0.74 0.06 0.19
Matches are distributed among these distances:
2 5 0.11
3 35 0.76
4 3 0.07
5 3 0.07
ACGTcount: A:0.32, C:0.02, G:0.05, T:0.61
Consensus pattern (3 bp):
ATT
Found at i:21182726 original size:22 final size:22
Alignment explanation
Indices: 21182696--21182740 Score: 72
Period size: 22 Copynumber: 2.0 Consensus size: 22
21182686 TTTTTTTTTT
*
21182696 ATTACTTATTCTTAATTTATTA
1 ATTAATTATTCTTAATTTATTA
*
21182718 ATTAATTATTCTTATTTTATTA
1 ATTAATTATTCTTAATTTATTA
21182740 A
1 A
21182741 AGAAAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.33, C:0.07, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTAATTATTCTTAATTTATTA
Found at i:21182968 original size:13 final size:13
Alignment explanation
Indices: 21182908--21182981 Score: 51
Period size: 13 Copynumber: 5.7 Consensus size: 13
21182898 TAATTTATAC
21182908 TATTTTTATTTAAT
1 TATTTTTA-TTAAT
* * *
21182922 TATATTTATCAAA
1 TATTTTTATTAAT
* *
21182935 AACTTTTATT-AT
1 TATTTTTATTAAT
* * *
21182947 AAATTTTATTATT
1 TATTTTTATTAAT
21182960 TATTTTTATTAAT
1 TATTTTTATTAAT
*
21182973 TATTATTAT
1 TATTTTTAT
21182982 AAAATAATGA
Statistics
Matches: 45, Mismatches: 14, Indels: 3
0.73 0.23 0.05
Matches are distributed among these distances:
12 10 0.22
13 28 0.62
14 7 0.16
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (13 bp):
TATTTTTATTAAT
Found at i:21184077 original size:3 final size:3
Alignment explanation
Indices: 21184069--21184118 Score: 100
Period size: 3 Copynumber: 16.7 Consensus size: 3
21184059 AGTGTTTACA
21184069 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21184117 AT
1 AT
21184119 CTTTTTTTTC
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 47 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:21184930 original size:5 final size:5
Alignment explanation
Indices: 21184922--21184951 Score: 51
Period size: 5 Copynumber: 5.8 Consensus size: 5
21184912 TTCTTTTGTT
21184922 TTTTA TTTTA TTTTA TTTTA TTTTTA TTTT
1 TTTTA TTTTA TTTTA TTTTA -TTTTA TTTT
21184952 CATCTTTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 19 0.79
6 5 0.21
ACGTcount: A:0.17, C:0.00, G:0.00, T:0.83
Consensus pattern (5 bp):
TTTTA
Found at i:21187909 original size:28 final size:27
Alignment explanation
Indices: 21187852--21187924 Score: 67
Period size: 28 Copynumber: 2.6 Consensus size: 27
21187842 AATGAAAATG
*
21187852 AAAATGAAAAAAACAAACAAAAAAATAC
1 AAAATG-AAAAAACAAACAAAAAAAGAC
* *
21187880 AAAAATGAAAAAACAAA-AGCAAAGAGAC
1 -AAAATGAAAAAACAAACA-AAAAAAGAC
*
21187908 AAAAGGAATAAAACAAA
1 AAAATGAA-AAAACAAA
21187925 TGATCGGTGG
Statistics
Matches: 38, Mismatches: 4, Indels: 5
0.81 0.09 0.11
Matches are distributed among these distances:
27 8 0.21
28 24 0.63
29 6 0.16
ACGTcount: A:0.75, C:0.10, G:0.10, T:0.05
Consensus pattern (27 bp):
AAAATGAAAAAACAAACAAAAAAAGAC
Found at i:21189033 original size:27 final size:26
Alignment explanation
Indices: 21188990--21189048 Score: 66
Period size: 28 Copynumber: 2.2 Consensus size: 26
21188980 GTTAATTTTT
21188990 AAAAAACTTTAAAAATA-AAAAATAA
1 AAAAAACTTTAAAAATACAAAAATAA
* * *
21189015 AAAAAACTTAATAATAATACATAATTAA
1 AAAAAACTT--TAAAAATACAAAAATAA
21189043 AAAAAA
1 AAAAAA
21189049 TGTATGAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
25 9 0.32
27 7 0.25
28 12 0.43
ACGTcount: A:0.73, C:0.05, G:0.00, T:0.22
Consensus pattern (26 bp):
AAAAAACTTTAAAAATACAAAAATAA
Found at i:21190685 original size:16 final size:15
Alignment explanation
Indices: 21190655--21190684 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
21190645 AATACAAAAC
21190655 AAAACAAAAAATTTT
1 AAAACAAAAAATTTT
*
21190670 AAAACATAAAATTTT
1 AAAACAAAAAATTTT
21190685 TTTTTCTCAA
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:0.63, C:0.07, G:0.00, T:0.30
Consensus pattern (15 bp):
AAAACAAAAAATTTT
Found at i:21195073 original size:40 final size:41
Alignment explanation
Indices: 21195018--21195098 Score: 146
Period size: 40 Copynumber: 2.0 Consensus size: 41
21195008 AATATGTTAA
21195018 AATCAATAGAACCTCAGCATTACTCT-AAAGCGATTAACCC
1 AATCAATAGAACCTCAGCATTACTCTAAAAGCGATTAACCC
*
21195058 AATCAATAGAACCTCAGCATTACTTTAAAAGCGATTAACCC
1 AATCAATAGAACCTCAGCATTACTCTAAAAGCGATTAACCC
21195099 TAGTGAAAGC
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
40 25 0.64
41 14 0.36
ACGTcount: A:0.41, C:0.26, G:0.10, T:0.23
Consensus pattern (41 bp):
AATCAATAGAACCTCAGCATTACTCTAAAAGCGATTAACCC
Found at i:21200524 original size:18 final size:18
Alignment explanation
Indices: 21200501--21200540 Score: 62
Period size: 18 Copynumber: 2.2 Consensus size: 18
21200491 ATTGTGCTTG
*
21200501 AAAAAATTTAAAAAAAGA
1 AAAAAAGTTAAAAAAAGA
*
21200519 AAAAAAGTTAAAAAATGA
1 AAAAAAGTTAAAAAAAGA
21200537 AAAA
1 AAAA
21200541 TGATGACTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (18 bp):
AAAAAAGTTAAAAAAAGA
Found at i:21201406 original size:49 final size:49
Alignment explanation
Indices: 21201352--21202057 Score: 850
Period size: 48 Copynumber: 14.6 Consensus size: 49
21201342 GTTTTAAAAA
* *
21201352 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGTTGAGATGAGCTTTTTTC
1 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTC
*
21201401 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCTTTTTTC
1 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTC
*
21201450 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTC
1 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTC
* * * *
21201499 AAGA-GAAATTTTAAAGTTATTGAGCTTCTGCTGAGAGGAGCCTTTTTC
1 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTC
* * * *
21201547 AAGAT-GAATTTTAAAGTTATTAAGCCTCTGCTGTGATGAGCC-TTTTC
1 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTC
* ** *
21201594 AAGA-GAAATTTTAAAGTTGTTGAGTTTCTGCTGAGAGGAGCCTTTTTC
1 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTC
* * * *
21201642 AAGGT-GAATTTTAAAGTTGTTGAGCCTTTGATGAGATGAGCCTTTTTC
1 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTC
* * **
21201690 AAGATAAAATTTTAAAATTGTTGAGCCTTTGCTGA-AAAAG-CTTTTTC
1 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTC
* * * * *
21201737 AAGA-GAAATTTTAAAGTTGATGAGCCTCTGTTAAGAAGAGCCTTTTTC
1 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTC
*
21201785 AAGATAGAATTTTAAAGTTGTTGAGCCTCTGCTGAGA-GAAGCCTTTTTC
1 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGATG-AGCCTTTTTC
* * * *
21201834 AAGAGAAAA-TTTAAAGTTGTTGAGCCTCTACTAAGATGAGCTTTTTTC
1 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTC
* *
21201882 AAGATAGAATTTTAAAGTTGTTGTTGAGCCTCTGCTGAGAGGAG-CTTTTTC
1 AAGATAAAATTTTAAA---GTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTC
* *
21201933 AAGAT-GAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAG-TTTTTTC
1 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTC
* * * *
21201980 AAGATAAATTTTTAAAGTTATTGAGCTTCTGTTGAGA-GAAG-C-TTTTC
1 AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGATG-AGCCTTTTTC
*
21202027 AAGATATAATTTTTCAAAGTTGTTGAGCCTC
1 AAGATA-AAATTTT-AAAGTTGTTGAGCCTC
21202058 GAGTAAGAAG
Statistics
Matches: 575, Mismatches: 64, Indels: 36
0.85 0.09 0.05
Matches are distributed among these distances:
46 24 0.04
47 101 0.18
48 217 0.38
49 190 0.33
50 10 0.02
51 11 0.02
52 22 0.04
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (49 bp):
AAGATAAAATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTTC
Found at i:21201623 original size:95 final size:95
Alignment explanation
Indices: 21201359--21202057 Score: 829
Period size: 95 Copynumber: 7.2 Consensus size: 95
21201349 AAAAAGATAA
* *
21201359 AATTTTAAAGTTGTTGAGCCTCTGTTGAGATGAGCTTTTTTCAAGATAAAATTTTAAAGTTGTTG
1 AATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGC-CTTTTCAAGAT-AAATTTTAAAGTTGTTG
* * * *
21201424 AGCCTCTGCTGAGATGAGCTTTTTTCAAGATAA
64 AGCTTCTGCTGAGAGGAGCCTTTTTCAAGAT-G
* * *
21201457 AATTTTAAAGTTGTTGAGCCTCTGCTGAGAGGAGCCTTTTTCAAGAGAAATTTTAAAGTTATTGA
1 AATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCC-TTTTCAAGATAAATTTTAAAGTTGTTGA
21201522 GCTTCTGCTGAGAGGAGCCTTTTTCAAGATG
65 GCTTCTGCTGAGAGGAGCCTTTTTCAAGATG
* * * *
21201553 AATTTTAAAGTTATTAAGCCTCTGCTGTGATGAGCCTTTTCAAGAGAAATTTTAAAGTTGTTGAG
1 AATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTCAAGATAAATTTTAAAGTTGTTGAG
* *
21201618 TTTCTGCTGAGAGGAGCCTTTTTCAAGGTG
66 CTTCTGCTGAGAGGAGCCTTTTTCAAGATG
* * *
21201648 AATTTTAAAGTTGTTGAGCCTTTGATGAGATGAGCCTTTTTCAAGATAAAATTTTAAAATTGTTG
1 AATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCC-TTTTCAAGAT-AAATTTTAAAGTTGTTG
**
21201713 AGCCTT-TGCTGA-AAAAG-CTTTTTCAAGA-G
64 AG-CTTCTGCTGAGAGGAGCCTTTTTCAAGATG
* * * *
21201742 AAATTTTAAAGTTGATGAGCCTCTGTTAAGAAGAGCCTTTTTCAAGATAGAATTTTAAAGTTGTT
1 -AATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCC-TTTTCAAGATA-AATTTTAAAGTTGTT
* *
21201807 GAGCCTCTGCTGAGAGAAGCCTTTTTCAAGA-G
63 GAGCTTCTGCTGAGAGGAGCCTTTTTCAAGATG
* * * *
21201839 AAAATTTAAAGTTGTTGAGCCTCTACTAAGATGAGCTTTTTTCAAGATAGAATTTTAAAGTTGTT
1 -AATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGC-CTTTTCAAGATA-AATTTTAAA---GTT
*
21201904 GTTGAGCCTCTGCTGAGAGGAG-CTTTTTCAAGATG
60 GTTGAGCTTCTGCTGAGAGGAGCCTTTTTCAAGATG
** *
21201939 AATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGTTTTTTCAAGATAAATTTTTAAAGTTATTGA
1 AATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTCAAGATAAA-TTTTAAAGTTGTTGA
* * *
21202004 GCTTCTGTTGAGAGAAG-C-TTTTCAAGATAT
65 GCTTCTGCTGAGAGGAGCCTTTTTCAAGAT-G
21202034 AATTTTTCAAAGTTGTTGAGCCTC
1 AA-TTTT-AAAGTTGTTGAGCCTC
21202058 GAGTAAGAAG
Statistics
Matches: 532, Mismatches: 51, Indels: 37
0.86 0.08 0.06
Matches are distributed among these distances:
94 14 0.03
95 186 0.35
96 52 0.10
97 150 0.28
98 63 0.12
99 42 0.08
100 25 0.05
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (95 bp):
AATTTTAAAGTTGTTGAGCCTCTGCTGAGATGAGCCTTTTCAAGATAAATTTTAAAGTTGTTGAG
CTTCTGCTGAGAGGAGCCTTTTTCAAGATG
Found at i:21202262 original size:22 final size:22
Alignment explanation
Indices: 21202237--21202279 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
21202227 AAGTAAGGGT
*
21202237 GGGTTGAGGCCCAAGTTCAATC
1 GGGTTAAGGCCCAAGTTCAATC
* *
21202259 GGGTTAAGGCTCAATTTCAAT
1 GGGTTAAGGCCCAAGTTCAAT
21202280 TCGATTGGGC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.28
Consensus pattern (22 bp):
GGGTTAAGGCCCAAGTTCAATC
Found at i:21202303 original size:28 final size:28
Alignment explanation
Indices: 21202270--21202332 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
21202260 GGTTAAGGCT
*
21202270 CAATTTCAATTCGATTGGGCTTTAAGCC
1 CAATTTCAATTCGATTGAGCTTTAAGCC
* *
21202298 CAATTTTAATTCGATTGAGTTTTAAGCC
1 CAATTTCAATTCGATTGAGCTTTAAGCC
21202326 CAATTTC
1 CAATTTC
21202333 GATCGGGCCT
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.40
Consensus pattern (28 bp):
CAATTTCAATTCGATTGAGCTTTAAGCC
Found at i:21202472 original size:13 final size:13
Alignment explanation
Indices: 21202456--21202480 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21202446 AATGAAAAAG
21202456 AAAAAACACAAAC
1 AAAAAACACAAAC
21202469 AAAAAACACAAA
1 AAAAAACACAAA
21202481 AATGAAAAAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.80, C:0.20, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAACACAAAC
Found at i:21202494 original size:28 final size:27
Alignment explanation
Indices: 21202450--21202523 Score: 87
Period size: 28 Copynumber: 2.6 Consensus size: 27
21202440 AATGAAAATG
21202450 AAAAAG-AAAAAACACAAACAAAAAACAC
1 AAAAAGAAAAAAACA-AAAC-AAAAACAC
*
21202478 AAAAATGAAAAAAACAAAAGCAAAGACAC
1 AAAAA-GAAAAAAACAAAA-CAAAAACAC
*
21202507 AAAAGGAAAAAAACAAA
1 AAAAAGAAAAAAACAAA
21202524 TGGCAGGTGG
Statistics
Matches: 41, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
28 17 0.41
29 15 0.37
30 9 0.22
ACGTcount: A:0.77, C:0.14, G:0.08, T:0.01
Consensus pattern (27 bp):
AAAAAGAAAAAAACAAAACAAAAACAC
Found at i:21202496 original size:14 final size:13
Alignment explanation
Indices: 21202451--21202523 Score: 58
Period size: 14 Copynumber: 5.2 Consensus size: 13
21202441 ATGAAAATGA
21202451 AAAAGAAAAAACAC
1 AAAAGAAAAAA-AC
*
21202465 AAACA-AAAAACAC
1 AAA-AGAAAAAAAC
21202478 AAAAATGAAAAAAAC
1 -AAAA-GAAAAAAAC
* *
21202493 AAAAGCAAAGACAC
1 AAAAG-AAAAAAAC
21202507 AAAAGGAAAAAAAC
1 AAAA-GAAAAAAAC
21202521 AAA
1 AAA
21202524 TGGCAGGTGG
Statistics
Matches: 47, Mismatches: 6, Indels: 12
0.72 0.09 0.18
Matches are distributed among these distances:
13 4 0.09
14 34 0.72
15 9 0.19
ACGTcount: A:0.77, C:0.14, G:0.08, T:0.01
Consensus pattern (13 bp):
AAAAGAAAAAAAC
Found at i:21206157 original size:20 final size:19
Alignment explanation
Indices: 21206132--21206181 Score: 66
Period size: 18 Copynumber: 2.6 Consensus size: 19
21206122 TTAAAAGAAA
21206132 GGCAAAAAAAAGTAAAAAAG
1 GGCAAAAAAAAGT-AAAAAG
21206152 GGCAAAAAAAA-TAAAAAG
1 GGCAAAAAAAAGTAAAAAG
* *
21206170 TGAAAAAAAAAG
1 GGCAAAAAAAAG
21206182 GAAGGAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 15 0.56
19 1 0.04
20 11 0.41
ACGTcount: A:0.72, C:0.04, G:0.18, T:0.06
Consensus pattern (19 bp):
GGCAAAAAAAAGTAAAAAG
Found at i:21207113 original size:18 final size:19
Alignment explanation
Indices: 21207090--21207136 Score: 55
Period size: 17 Copynumber: 2.6 Consensus size: 19
21207080 ATCTTTCTTT
21207090 CTTGTGAATCTA-AAAATC
1 CTTGTGAATCTATAAAATC
*
21207108 CTTGTGAA-C-ATGAAATC
1 CTTGTGAATCTATAAAATC
*
21207125 TTTGTGAATCTA
1 CTTGTGAATCTA
21207137 GAACTTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 1 0.04
17 13 0.54
18 9 0.38
19 1 0.04
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (19 bp):
CTTGTGAATCTATAAAATC
Found at i:21207312 original size:87 final size:87
Alignment explanation
Indices: 21207062--21207312 Score: 328
Period size: 86 Copynumber: 2.9 Consensus size: 87
21207052 AACCTTTGCA
* * *
21207062 AAACTTGAAATCTTACAAATCTTTCTTTCTTGTGAATCT-AAAAATCCTTGTGAACATGAAATCT
1 AAACTTGAAATCTTGCAAATCTTTCTTTCTTGTGAATCTGAAAAGTCCTTGTGAACCTGAAATCT
** * *
21207126 TTGTGAATCTAGAACTTTTGTG
66 TTGCAAATCTAGAACATTGGTG
* * *
21207148 AAACTTGAAATCTTGCAAATCTTTCTTTCTTATGAATTTG-AAAGTCCTTATGAACCTGAAATCT
1 AAACTTGAAATCTTGCAAATCTTTCTTTCTTGTGAATCTGAAAAGTCCTTGTGAACCTGAAATCT
21207212 TTGCAAATCTAGAACATTGGTG
66 TTGCAAATCTAGAACATTGGTG
** * * * *
21207234 AAACTT-AGAATCTTGTGATTCTTTTTTTCTTGCGAATCTGAAAAGTCCTTGTGAACCTGAGATC
1 AAACTTGA-AATCTTGCAAATCTTTCTTTCTTGTGAATCTGAAAAGTCCTTGTGAACCTGAAATC
21207298 TTTGCAAATCTAGAA
65 TTTGCAAATCTAGAA
21207313 TCTCTGCAAA
Statistics
Matches: 143, Mismatches: 19, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
85 1 0.01
86 106 0.74
87 36 0.25
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.38
Consensus pattern (87 bp):
AAACTTGAAATCTTGCAAATCTTTCTTTCTTGTGAATCTGAAAAGTCCTTGTGAACCTGAAATCT
TTGCAAATCTAGAACATTGGTG
Found at i:21207333 original size:87 final size:86
Alignment explanation
Indices: 21207062--21207342 Score: 302
Period size: 86 Copynumber: 3.3 Consensus size: 86
21207052 AACCTTTGCA
*** * *
21207062 AAACTTGAAATCTTACAAATCTTTCTTTCTTGTGAATCT-AAAAATCCTTGTGAACATGAAATCT
1 AAACTTGAAATCTTGTGAATCTTTCTTTCTTGTGAATCTGAAAAGTCCTTGTGAACCTGAAATCT
** *
21207126 TTGTGAATCTAGAACTTTTGTG
66 TTGCAAATCTAGAAC-ATTGTG
** * * *
21207148 AAACTTGAAATCTTGCAAATCTTTCTTTCTTATGAATTTG-AAAGTCCTTATGAACCTGAAATCT
1 AAACTTGAAATCTTGTGAATCTTTCTTTCTTGTGAATCTGAAAAGTCCTTGTGAACCTGAAATCT
21207212 TTGCAAATCTAGAACATTGGTG
66 TTGCAAATCTAGAACATT-GTG
* * * *
21207234 AAACTT-AGAATCTTGTGATTCTTTTTTTCTTGCGAATCTGAAAAGTCCTTGTGAACCTGAGATC
1 AAACTTGA-AATCTTGTGAATCTTTCTTTCTTGTGAATCTGAAAAGTCCTTGTGAACCTGAAATC
*
21207298 TTTGCAAATCTAGAATC-TCTG-C
65 TTTGCAAATCTAGAA-CAT-TGTG
*
21207320 AAAATATGAAATCTTGTGAATCT
1 AAACT-TGAAATCTTGTGAATCT
21207343 GAAATCCTTT
Statistics
Matches: 166, Mismatches: 21, Indels: 15
0.82 0.10 0.07
Matches are distributed among these distances:
85 3 0.02
86 108 0.65
87 52 0.31
88 3 0.02
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (86 bp):
AAACTTGAAATCTTGTGAATCTTTCTTTCTTGTGAATCTGAAAAGTCCTTGTGAACCTGAAATCT
TTGCAAATCTAGAACATTGTG
Done.