Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr8
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: 70076365
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 3341059 characters in sequence are not A, C, G, or T
File 14 of 210
Found at i:4846739 original size:14 final size:14
Alignment explanation
Indices: 4846720--4846746 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
4846710 AAAAATTCAA
4846720 TTAAAATTAAAATT
1 TTAAAATTAAAATT
4846734 TTAAAATTAAAAT
1 TTAAAATTAAAAT
4846747 ATATATAATT
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:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
TTAAAATTAAAATT
Found at i:4852728 original size:11 final size:12
Alignment explanation
Indices: 4852701--4852742 Score: 52
Period size: 11 Copynumber: 3.5 Consensus size: 12
4852691 TTTTCTTCCT
4852701 TAAATTTTTT-A
1 TAAATTTTTTAA
4852712 TAAATTTTTTAA
1 TAAATTTTTTAA
4852724 T-AATTTATTTAA
1 TAAATTT-TTTAA
4852736 TTAAATT
1 -TAAATT
4852743 AAACGAATTG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
11 15 0.56
12 7 0.26
13 1 0.04
14 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (12 bp):
TAAATTTTTTAA
Found at i:4859871 original size:21 final size:22
Alignment explanation
Indices: 4859823--4859872 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 22
4859813 AAATATTTTA
*
4859823 ATTTTCCTTAATTTTCCCTTCT
1 ATTTTCCTCAATTTTCCCTTCT
* *
4859845 -TCTTCCTCAATTTTCTCTT-T
1 ATTTTCCTCAATTTTCCCTTCT
4859865 ATTTTCCT
1 ATTTTCCT
4859873 TGTCATTTCC
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
20 1 0.04
21 22 0.96
ACGTcount: A:0.12, C:0.28, G:0.00, T:0.60
Consensus pattern (22 bp):
ATTTTCCTCAATTTTCCCTTCT
Found at i:4867881 original size:33 final size:33
Alignment explanation
Indices: 4867842--4867907 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
4867832 AAAAACTAAA
4867842 AATAAAAGCACACTCGTAATAATATAATTTACT
1 AATAAAAGCACACTCGTAATAATATAATTTACT
4867875 AATAAAAGCACACTCGTAATAATATAATTTACT
1 AATAAAAGCACACTCGTAATAATATAATTTACT
4867908 TTATAAAAAT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.48, C:0.15, G:0.06, T:0.30
Consensus pattern (33 bp):
AATAAAAGCACACTCGTAATAATATAATTTACT
Found at i:4875374 original size:19 final size:19
Alignment explanation
Indices: 4875337--4875384 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 19
4875327 AATATTTTGC
*
4875337 TCATAAAAATGATTAAAAAG
1 TCAT-AAAATGATTAAAAAA
4875357 TCATAAAAT-ATTATAAAAA
1 TCATAAAATGATTA-AAAAA
4875376 TCATAAAAT
1 TCATAAAAT
4875385 TATCGAATAT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
18 4 0.15
19 18 0.69
20 4 0.15
ACGTcount: A:0.60, C:0.06, G:0.04, T:0.29
Consensus pattern (19 bp):
TCATAAAATGATTAAAAAA
Found at i:4875524 original size:21 final size:20
Alignment explanation
Indices: 4875489--4875546 Score: 62
Period size: 21 Copynumber: 2.8 Consensus size: 20
4875479 TAAAAAATTA
* * *
4875489 ATAAAATATATTTAAAGTTTT
1 ATAAAAAATA-TTAAAATTCT
4875510 ATAAAAACATATTAAAATTCT
1 ATAAAAA-ATATTAAAATTCT
*
4875531 ATAAAAATTATTAAAA
1 ATAAAAAATATTAAAA
4875547 GTATAAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
20 8 0.25
21 21 0.66
22 3 0.09
ACGTcount: A:0.57, C:0.03, G:0.02, T:0.38
Consensus pattern (20 bp):
ATAAAAAATATTAAAATTCT
Found at i:4875542 original size:20 final size:18
Alignment explanation
Indices: 4875530--4875583 Score: 56
Period size: 19 Copynumber: 2.9 Consensus size: 18
4875520 ATTAAAATTC
*
4875530 TATAAAAATTATTAAAA-G
1 TATAAAAATTA-TAAAACT
*
4875548 TATAAAAAATGATATAAACT
1 TAT-AAAAATTATA-AAACT
4875568 TATAAAAATTATAAAA
1 TATAAAAATTATAAAA
4875584 AAATCATAAA
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
18 8 0.27
19 19 0.63
20 3 0.10
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (18 bp):
TATAAAAATTATAAAACT
Found at i:4875555 original size:9 final size:9
Alignment explanation
Indices: 4875530--4875584 Score: 56
Period size: 9 Copynumber: 5.9 Consensus size: 9
4875520 ATTAAAATTC
4875530 TATAAAAAT
1 TATAAAAAT
* *
4875539 TATTAAAAG
1 TATAAAAAT
4875548 TATAAAAAAT
1 TAT-AAAAAT
* *
4875558 GATATAAACT
1 TATA-AAAAT
4875568 TATAAAAAT
1 TATAAAAAT
4875577 TATAAAAA
1 TATAAAAA
4875585 AATCATAAAA
Statistics
Matches: 36, Mismatches: 8, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
9 23 0.64
10 13 0.36
ACGTcount: A:0.64, C:0.02, G:0.04, T:0.31
Consensus pattern (9 bp):
TATAAAAAT
Found at i:4875594 original size:10 final size:10
Alignment explanation
Indices: 4875453--4875595 Score: 55
Period size: 10 Copynumber: 14.2 Consensus size: 10
4875443 TTATAAAAAT
* *
4875453 AAATTTTAAT
1 AAATTATAAA
*
4875463 AAATTCTAAA
1 AAATTATAAA
4875473 AGAATT-TAAA
1 A-AATTATAAA
4875483 AAATTAATAAA
1 AAATT-ATAAA
4875494 ATATATT-TAAA
1 A-A-ATTATAAA
***
4875505 GTTTTATAAA
1 AAATTATAAA
*
4875515 AACA-TAT-TA
1 AA-ATTATAAA
*
4875524 AAATTCTATAA
1 AAATTATA-AA
*
4875535 AAATTAT-TA
1 AAATTATAAA
*
4875544 AAAGTATAAA
1 AAATTATAAA
* *
4875554 AAATGATATA
1 AAATTATAAA
*
4875564 AACTTAT-AA
1 AAATTATAAA
4875573 AAATTATAAAA
1 AAATTAT-AAA
*
4875584 AAATCATAAA
1 AAATTATAAA
4875594 AA
1 AA
4875596 CTTGAATTGG
Statistics
Matches: 97, Mismatches: 23, Indels: 26
0.66 0.16 0.18
Matches are distributed among these distances:
8 1 0.01
9 25 0.26
10 39 0.40
11 28 0.29
12 1 0.01
13 3 0.03
ACGTcount: A:0.60, C:0.03, G:0.03, T:0.34
Consensus pattern (10 bp):
AAATTATAAA
Found at i:4875934 original size:9 final size:9
Alignment explanation
Indices: 4875920--4875977 Score: 64
Period size: 9 Copynumber: 6.4 Consensus size: 9
4875910 GTTTTTTTAA
4875920 TTTAAAATT
1 TTTAAAATT
4875929 TTTAAAATT
1 TTTAAAATT
* *
4875938 TATAATATT
1 TTTAAAATT
4875947 TTT-AAATT
1 TTTAAAATT
*
4875955 TTTATAATT
1 TTTAAAATT
*
4875964 TTAATAAATT
1 TTTA-AAATT
4875974 TTTA
1 TTTA
4875978 TGAAAAAGAT
Statistics
Matches: 39, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
8 7 0.18
9 25 0.64
10 7 0.18
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (9 bp):
TTTAAAATT
Found at i:4875958 original size:19 final size:19
Alignment explanation
Indices: 4875926--4875978 Score: 65
Period size: 19 Copynumber: 2.8 Consensus size: 19
4875916 TTAATTTAAA
*
4875926 ATTTTTAAA-ATTTATAAT
1 ATTTTTAAATTTTTATAAT
4875944 ATTTTTAAATTTTTATAAT
1 ATTTTTAAATTTTTATAAT
*
4875963 -TTTAATAAATTTTTAT
1 ATTT-TTAAATTTTTAT
4875979 GAAAAAGATA
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
18 12 0.39
19 19 0.61
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (19 bp):
ATTTTTAAATTTTTATAAT
Found at i:4875975 original size:26 final size:26
Alignment explanation
Indices: 4875917--4875975 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
4875907 TAAGTTTTTT
*
4875917 TAATTTAAAATTTTTAAAATTTATAA
1 TAATTTTAAATTTTTAAAATTTATAA
* *
4875943 TATTTTTAAATTTTTATAATTT-TAA
1 TAATTTTAAATTTTTAAAATTTATAA
4875968 TAAATTTT
1 T-AATTTT
4875976 TATGAAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
25 4 0.14
26 24 0.86
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (26 bp):
TAATTTTAAATTTTTAAAATTTATAA
Found at i:4877871 original size:20 final size:21
Alignment explanation
Indices: 4877848--4877889 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
4877838 AAAAAAGTTT
4877848 AAAAAAAG-TAAA-AAAACAAA
1 AAAAAAAGTTAAATAAAA-AAA
4877868 AAAAAAAGTTAAATAAAAAAA
1 AAAAAAAGTTAAATAAAAAAA
4877889 A
1 A
4877890 TTTAACAGTG
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
20 8 0.40
21 8 0.40
22 4 0.20
ACGTcount: A:0.83, C:0.02, G:0.05, T:0.10
Consensus pattern (21 bp):
AAAAAAAGTTAAATAAAAAAA
Found at i:4892542 original size:16 final size:16
Alignment explanation
Indices: 4892521--4892555 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
4892511 ACCCTCACAC
*
4892521 TTTTTGGGCTTATATT
1 TTTTTGAGCTTATATT
*
4892537 TTTTTGAGTTTATATT
1 TTTTTGAGCTTATATT
4892553 TTT
1 TTT
4892556 GTCCAAATTC
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:0.14, C:0.03, G:0.14, T:0.69
Consensus pattern (16 bp):
TTTTTGAGCTTATATT
Found at i:4892736 original size:25 final size:25
Alignment explanation
Indices: 4892708--4892792 Score: 62
Period size: 25 Copynumber: 3.2 Consensus size: 25
4892698 GGTTGCCATT
4892708 CAATTTGCTTGGATATTATACCAAA
1 CAATTTGCTTGGATATTATACCAAA
* *** * *
4892733 CAATTCTTCTCCAATTACTATCTCCGAAGA
1 CAATT-TGCTTGGA-TATTAT-ACC-AA-A
*
4892763 CAATTTGCTTGGATATTACACCAAA
1 CAATTTGCTTGGATATTATACCAAA
4892788 CAATT
1 CAATT
4892793 CTTCTCCAAT
Statistics
Matches: 42, Mismatches: 13, Indels: 10
0.65 0.20 0.15
Matches are distributed among these distances:
25 11 0.26
26 6 0.14
27 7 0.17
28 6 0.14
29 6 0.14
30 6 0.14
ACGTcount: A:0.34, C:0.22, G:0.09, T:0.34
Consensus pattern (25 bp):
CAATTTGCTTGGATATTATACCAAA
Found at i:4892774 original size:55 final size:55
Alignment explanation
Indices: 4892708--4892815 Score: 198
Period size: 55 Copynumber: 2.0 Consensus size: 55
4892698 GGTTGCCATT
* *
4892708 CAATTTGCTTGGATATTATACCAAACAATTCTTCTCCAATTACTATCTCCGAAGA
1 CAATTTGCTTGGATATTACACCAAACAATTCTTCTCCAATTACCATCTCCGAAGA
4892763 CAATTTGCTTGGATATTACACCAAACAATTCTTCTCCAATTACCATCTCCGAA
1 CAATTTGCTTGGATATTACACCAAACAATTCTTCTCCAATTACCATCTCCGAA
4892816 AAAGATGAAG
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.32, C:0.26, G:0.08, T:0.33
Consensus pattern (55 bp):
CAATTTGCTTGGATATTACACCAAACAATTCTTCTCCAATTACCATCTCCGAAGA
Found at i:4895396 original size:2 final size:2
Alignment explanation
Indices: 4895383--4895413 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
4895373 AAAACAAGTG
*
4895383 AT AT AC 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 A
4895414 AAAGTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:4899835 original size:31 final size:31
Alignment explanation
Indices: 4899800--4899859 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
4899790 ACAAAATGGT
*
4899800 CATTGAACTATTTGAAAATTTTCATTTAAGC
1 CATTGAACTATTCGAAAATTTTCATTTAAGC
* * *
4899831 CATTGAATTATTCGAAAGTTTTTATTTAA
1 CATTGAACTATTCGAAAATTTTCATTTAA
4899860 ATCACTAAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.45
Consensus pattern (31 bp):
CATTGAACTATTCGAAAATTTTCATTTAAGC
Found at i:4906144 original size:19 final size:19
Alignment explanation
Indices: 4906120--4906157 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
4906110 CCAGGCAGAT
4906120 CAACAAGATTTCACATCTA
1 CAACAAGATTTCACATCTA
4906139 CAACAAGATTTCACATCTA
1 CAACAAGATTTCACATCTA
4906158 ATATTGCAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.42, C:0.26, G:0.05, T:0.26
Consensus pattern (19 bp):
CAACAAGATTTCACATCTA
Found at i:4907126 original size:19 final size:19
Alignment explanation
Indices: 4907104--4907146 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
4907094 TTTTATATTA
*
4907104 TTAAAATATATTATTACCC
1 TTAAAATATATTATTAACC
*
4907123 TTAATATATATTATTAACC
1 TTAAAATATATTATTAACC
4907142 TTAAA
1 TTAAA
4907147 CTTAATTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.44, C:0.12, G:0.00, T:0.44
Consensus pattern (19 bp):
TTAAAATATATTATTAACC
Found at i:4914215 original size:31 final size:30
Alignment explanation
Indices: 4914153--4914211 Score: 75
Period size: 31 Copynumber: 2.0 Consensus size: 30
4914143 TTTGAAGAAA
* * *
4914153 TTTAATTTTGTACTTTTTAAATTTGTCAAT
1 TTTAATTTTATACTTTTAAAATTTGTAAAT
4914183 TTTAATTATTATACTTTTAAAATTT-TAAA
1 TTTAATT-TTATACTTTTAAAATTTGTAAA
4914212 ATTTCAATCT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 10 0.40
31 15 0.60
ACGTcount: A:0.34, C:0.05, G:0.03, T:0.58
Consensus pattern (30 bp):
TTTAATTTTATACTTTTAAAATTTGTAAAT
Found at i:4927323 original size:2 final size:2
Alignment explanation
Indices: 4927316--4927354 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
4927306 AGTAAGCTCC
4927316 AT 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 AT A
4927355 CAATATCTAT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:4927825 original size:24 final size:25
Alignment explanation
Indices: 4927793--4927847 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
4927783 ATAATAAAAA
*
4927793 TATAATTTTATTA-TTTTAATAGTT
1 TATAATTTTATAATTTTTAATAGTT
* *
4927817 TATATTTTTATAATTTTTAATAGAT
1 TATAATTTTATAATTTTTAATAGTT
4927842 TA-AATT
1 TATAATT
4927848 AATTTTTTTA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 14 0.54
25 12 0.46
ACGTcount: A:0.36, C:0.00, G:0.04, T:0.60
Consensus pattern (25 bp):
TATAATTTTATAATTTTTAATAGTT
Found at i:4936070 original size:6 final size:6
Alignment explanation
Indices: 4936059--4936083 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
4936049 GATTATATAA
4936059 TTTATT TTTATT TTTATT TTTATT T
1 TTTATT TTTATT TTTATT TTTATT T
4936084 ATTTGAATGA
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:0.16, C:0.00, G:0.00, T:0.84
Consensus pattern (6 bp):
TTTATT
Found at i:4937257 original size:31 final size:31
Alignment explanation
Indices: 4937220--4937282 Score: 108
Period size: 31 Copynumber: 2.0 Consensus size: 31
4937210 ACCACTTTTA
4937220 TTTTTTAATTTTAAAATACTTTTAAAATAAT
1 TTTTTTAATTTTAAAATACTTTTAAAATAAT
* *
4937251 TTTTTTATTTTTTAAATACTTTTAAAATAAT
1 TTTTTTAATTTTAAAATACTTTTAAAATAAT
4937282 T
1 T
4937283 ATGATATTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.03, G:0.00, T:0.59
Consensus pattern (31 bp):
TTTTTTAATTTTAAAATACTTTTAAAATAAT
Found at i:4937291 original size:31 final size:31
Alignment explanation
Indices: 4937228--4937292 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
4937218 TATTTTTTAA
* **
4937228 TTTTAAAATACTTTTAAAATAATTTTTTTAT
1 TTTTAAAATACTTTTAAAATAATTATGATAT
*
4937259 TTTTTAAATACTTTTAAAATAATTATGATAT
1 TTTTAAAATACTTTTAAAATAATTATGATAT
4937290 TTT
1 TTT
4937293 CCTGGGCCGG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.38, C:0.03, G:0.02, T:0.57
Consensus pattern (31 bp):
TTTTAAAATACTTTTAAAATAATTATGATAT
Found at i:4941127 original size:15 final size:14
Alignment explanation
Indices: 4941107--4941142 Score: 63
Period size: 14 Copynumber: 2.5 Consensus size: 14
4941097 TAATATTTTA
4941107 TTTTTTTCTAGGTTT
1 TTTTTTTCTA-GTTT
4941122 TTTTTTTCTAGTTT
1 TTTTTTTCTAGTTT
4941136 TTTTTTT
1 TTTTTTT
4941143 TTTAATTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 11 0.52
15 10 0.48
ACGTcount: A:0.06, C:0.06, G:0.08, T:0.81
Consensus pattern (14 bp):
TTTTTTTCTAGTTT
Found at i:4941143 original size:15 final size:15
Alignment explanation
Indices: 4941102--4941143 Score: 66
Period size: 15 Copynumber: 2.7 Consensus size: 15
4941092 TGTCTTAATA
4941102 TTTTATTTTTTTCTAG
1 TTTT-TTTTTTTCTAG
*
4941118 GTTTTTTTTTTCTAG
1 TTTTTTTTTTTCTAG
4941133 TTTTTTTTTTT
1 TTTTTTTTTTT
4941144 TTAATTTTGT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 21 0.88
16 3 0.12
ACGTcount: A:0.07, C:0.05, G:0.07, T:0.81
Consensus pattern (15 bp):
TTTTTTTTTTTCTAG
Found at i:4951341 original size:22 final size:23
Alignment explanation
Indices: 4951314--4951360 Score: 78
Period size: 22 Copynumber: 2.1 Consensus size: 23
4951304 TTTAGCGTAG
*
4951314 TTATAATTTTAAAAA-TATGTTT
1 TTATAATTTTAAAAATTATATTT
4951336 TTATAATTTTAAAAATTATATTT
1 TTATAATTTTAAAAATTATATTT
4951359 TT
1 TT
4951361 TTGGATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (23 bp):
TTATAATTTTAAAAATTATATTT
Found at i:4951483 original size:15 final size:16
Alignment explanation
Indices: 4951463--4951499 Score: 58
Period size: 15 Copynumber: 2.4 Consensus size: 16
4951453 AATCATTCAA
4951463 AAATTATAAAAAT-AT
1 AAATTATAAAAATAAT
*
4951478 AAATTATTAAAATAAT
1 AAATTATAAAAATAAT
4951494 AAATTA
1 AAATTA
4951500 CATAAATACT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 12 0.60
16 8 0.40
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (16 bp):
AAATTATAAAAATAAT
Found at i:4954212 original size:5 final size:5
Alignment explanation
Indices: 4954202--4954249 Score: 53
Period size: 5 Copynumber: 9.4 Consensus size: 5
4954192 TTGAAATTTT
* *
4954202 ATCGA ATCGA ATCGA GT-GA GATAGAA ATCGA ATCGA ATCGA ATCGA AT
1 ATCGA ATCGA ATCGA ATCGA -ATCG-A ATCGA ATCGA ATCGA ATCGA AT
4954250 TATTTGTTCG
Statistics
Matches: 37, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
4 2 0.05
5 30 0.81
6 4 0.11
7 1 0.03
ACGTcount: A:0.42, C:0.15, G:0.23, T:0.21
Consensus pattern (5 bp):
ATCGA
Found at i:4957807 original size:22 final size:20
Alignment explanation
Indices: 4957759--4957801 Score: 77
Period size: 20 Copynumber: 2.1 Consensus size: 20
4957749 AAATGTAGTG
*
4957759 TATTTTAAAAATAAAAAATA
1 TATTTTAAAAATAAAAAAAA
4957779 TATTTTAAAAATAAAAAAAA
1 TATTTTAAAAATAAAAAAAA
4957799 TAT
1 TAT
4957802 GGTTTATATT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (20 bp):
TATTTTAAAAATAAAAAAAA
Found at i:4958927 original size:22 final size:22
Alignment explanation
Indices: 4958898--4958946 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 22
4958888 CCTAGGCTGA
4958898 TTTGGGC-TAAGTGTAAT-TAGG
1 TTTGGGCTTAA-TGTAATCTAGG
4958919 TTTGAGGCTTAATGTAATCTAGG
1 TTTG-GGCTTAATGTAATCTAGG
4958942 TTTGG
1 TTTGG
4958947 ATGTAATACT
Statistics
Matches: 25, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
21 4 0.16
22 10 0.40
23 11 0.44
ACGTcount: A:0.22, C:0.06, G:0.31, T:0.41
Consensus pattern (22 bp):
TTTGGGCTTAATGTAATCTAGG
Found at i:4959081 original size:16 final size:16
Alignment explanation
Indices: 4959062--4959092 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
4959052 TATTTTTATT
*
4959062 AATATTTTTGTTAAAA
1 AATATTTTTGGTAAAA
4959078 AATATTTTTGGTAAA
1 AATATTTTTGGTAAA
4959093 TTACACTAAC
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:0.42, C:0.00, G:0.10, T:0.48
Consensus pattern (16 bp):
AATATTTTTGGTAAAA
Found at i:4962194 original size:145 final size:146
Alignment explanation
Indices: 4962021--4962311 Score: 575
Period size: 145 Copynumber: 2.0 Consensus size: 146
4962011 TACTTTAAAT
4962021 ATATATATATATATTATATTATTTAAGATTGAAATTATTGTATCGTGTTTATTATATTATTTTTC
1 ATATATATATATATTATATTATTTAAGATTGAAATTATTGTATCGTGTTTATTATATTATTTTTC
4962086 CCATTTTTTTGTTGAATTACACATATAATTATAATTTTCAGTTGAAACAATATACATCCAAATAA
66 CCATTTTTTTGTTGAATTACACATATAATTATAATTTTCAGTTGAAACAATATACATCCAAATAA
4962151 TTATTACCAAATTAAC
131 TTATTACCAAATTAAC
4962167 ATATATATAT-TATTATATTATTTAAGATTGAAATTATTGTATCGTGTTTATTATATTATTTTTC
1 ATATATATATATATTATATTATTTAAGATTGAAATTATTGTATCGTGTTTATTATATTATTTTTC
4962231 CCATTTTTTTGTTGAATTACACATATAATTATAATTTTCAGTTGAAACAATATACATCCAAATAA
66 CCATTTTTTTGTTGAATTACACATATAATTATAATTTTCAGTTGAAACAATATACATCCAAATAA
4962296 TTATTACCAAATTAAC
131 TTATTACCAAATTAAC
4962312 CATTACAAAA
Statistics
Matches: 145, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
145 135 0.93
146 10 0.07
ACGTcount: A:0.37, C:0.10, G:0.06, T:0.47
Consensus pattern (146 bp):
ATATATATATATATTATATTATTTAAGATTGAAATTATTGTATCGTGTTTATTATATTATTTTTC
CCATTTTTTTGTTGAATTACACATATAATTATAATTTTCAGTTGAAACAATATACATCCAAATAA
TTATTACCAAATTAAC
Found at i:4965007 original size:22 final size:22
Alignment explanation
Indices: 4964981--4965025 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
4964971 CAATGATACC
*
4964981 TACTTTCTTACTGTAGTAATTT
1 TACTTTCTTACTATAGTAATTT
4965003 TACTTTCTTACTATAGTAATTT
1 TACTTTCTTACTATAGTAATTT
4965025 T
1 T
4965026 CGGGGTATTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.24, C:0.13, G:0.07, T:0.56
Consensus pattern (22 bp):
TACTTTCTTACTATAGTAATTT
Found at i:4967810 original size:25 final size:25
Alignment explanation
Indices: 4967781--4967921 Score: 76
Period size: 25 Copynumber: 5.6 Consensus size: 25
4967771 AATAACGGGT
4967781 AGCTCCGAAGAGCCATTAATCAGGA
1 AGCTCCGAAGAGCCATTAATCAGGA
* * * * *
4967806 AGCTCTGGATAGCCA-CATATCGGGA
1 AGCTCCGAAGAGCCATTA-ATCAGGA
* * *
4967831 AG-TTC-AAGCGAGTCA-T-ATCGGGA
1 AGCTCCGAA--GAGCCATTAATCAGGA
* *
4967854 AGCTCCGGAGAGCCATTAATTAGGA
1 AGCTCCGAAGAGCCATTAATCAGGA
* * * *
4967879 AGCTTACAAAGAACCTTTAATCAGGA
1 AGC-TCCGAAGAGCCATTAATCAGGA
4967905 AGCTCACGAAGAGCCAT
1 AGCTC-CGAAGAGCCAT
4967922 ATAACGGGAC
Statistics
Matches: 81, Mismatches: 26, Indels: 17
0.65 0.21 0.14
Matches are distributed among these distances:
23 15 0.19
24 5 0.06
25 34 0.42
26 27 0.33
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (25 bp):
AGCTCCGAAGAGCCATTAATCAGGA
Found at i:4967916 original size:26 final size:26
Alignment explanation
Indices: 4967851--4967921 Score: 72
Period size: 26 Copynumber: 2.8 Consensus size: 26
4967841 AGTCATATCG
* * *
4967851 GGAAGCTC-CGGAGAGCCATTAATTA
1 GGAAGCTCACGAAGAACCATTAATCA
* * *
4967876 GGAAGCTTACAAAGAACCTTTAATCA
1 GGAAGCTCACGAAGAACCATTAATCA
*
4967902 GGAAGCTCACGAAGAGCCAT
1 GGAAGCTCACGAAGAACCAT
4967922 ATAACGGGAC
Statistics
Matches: 35, Mismatches: 10, Indels: 1
0.76 0.22 0.02
Matches are distributed among these distances:
25 7 0.20
26 28 0.80
ACGTcount: A:0.37, C:0.21, G:0.24, T:0.18
Consensus pattern (26 bp):
GGAAGCTCACGAAGAACCATTAATCA
Found at i:4976030 original size:35 final size:35
Alignment explanation
Indices: 4975984--4976080 Score: 158
Period size: 35 Copynumber: 2.8 Consensus size: 35
4975974 CAGACAGTGA
4975984 TAGTTCCAATTGTGCTTCTCTATGATAGATAAAGT
1 TAGTTCCAATTGTGCTTCTCTATGATAGATAAAGT
* * *
4976019 TAGTTTCAATTGTGCTTCTTTTTGATAGATAAAGT
1 TAGTTCCAATTGTGCTTCTCTATGATAGATAAAGT
*
4976054 TAGTTCCAATTGTGCTTCTCTAGGATA
1 TAGTTCCAATTGTGCTTCTCTATGATA
4976081 AACAAATTTA
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
35 55 1.00
ACGTcount: A:0.26, C:0.13, G:0.18, T:0.43
Consensus pattern (35 bp):
TAGTTCCAATTGTGCTTCTCTATGATAGATAAAGT
Found at i:4984550 original size:2 final size:2
Alignment explanation
Indices: 4984543--4984569 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
4984533 CCTTTTTCTT
4984543 TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC T
4984570 TCCCTCCCCA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:5008800 original size:10 final size:10
Alignment explanation
Indices: 5008787--5008811 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
5008777 ACAAAAAAGT
5008787 ATAGAAAATG
1 ATAGAAAATG
5008797 ATAGAAAATG
1 ATAGAAAATG
5008807 ATAGA
1 ATAGA
5008812 TAGATAGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.60, C:0.00, G:0.20, T:0.20
Consensus pattern (10 bp):
ATAGAAAATG
Found at i:5008815 original size:4 final size:4
Alignment explanation
Indices: 5008806--5008835 Score: 60
Period size: 4 Copynumber: 7.5 Consensus size: 4
5008796 GATAGAAAAT
5008806 GATA GATA GATA GATA GATA GATA GATA GA
1 GATA GATA GATA GATA GATA GATA GATA GA
5008836 GACCTACTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.27, T:0.23
Consensus pattern (4 bp):
GATA
Found at i:5009982 original size:41 final size:43
Alignment explanation
Indices: 5009918--5009998 Score: 130
Period size: 41 Copynumber: 1.9 Consensus size: 43
5009908 CACAAAAAAA
*
5009918 TATTTTAAAAATAAAAAAATAAAAAT-AAAAATATTTTTAAAG
1 TATTTTAAAAATAAAAAAATAAAAATAAAAAATATATTTAAAG
*
5009960 TATTTT-AAAATTAAAAAATAAAAATAAAAAATATATTTA
1 TATTTTAAAAATAAAAAAATAAAAATAAAAAATATATTTA
5009999 TTATATTCGG
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
41 18 0.50
42 18 0.50
ACGTcount: A:0.64, C:0.00, G:0.01, T:0.35
Consensus pattern (43 bp):
TATTTTAAAAATAAAAAAATAAAAATAAAAAATATATTTAAAG
Found at i:5010391 original size:20 final size:20
Alignment explanation
Indices: 5010368--5010434 Score: 71
Period size: 20 Copynumber: 3.2 Consensus size: 20
5010358 TTAGGTATCA
5010368 AAATTAAATTATAATTTTTT
1 AAATTAAATTATAATTTTTT
* *
5010388 AAATCAAAGTATAATTTTATTTT
1 AAATTAAATTATAA--TT-TTTT
* *
5010411 ATATTAATTTATAATTTTTT
1 AAATTAAATTATAATTTTTT
5010431 AAAT
1 AAAT
5010435 CAACTTGGAT
Statistics
Matches: 37, Mismatches: 7, Indels: 6
0.74 0.14 0.12
Matches are distributed among these distances:
20 19 0.51
21 2 0.05
22 2 0.05
23 14 0.38
ACGTcount: A:0.43, C:0.01, G:0.01, T:0.54
Consensus pattern (20 bp):
AAATTAAATTATAATTTTTT
Found at i:5011459 original size:18 final size:18
Alignment explanation
Indices: 5011441--5011478 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
5011431 ATATTTTAAT
5011441 TTATTAATTAT-TTAAAA
1 TTATTAATTATATTAAAA
*
5011458 TTATTTATTATATT-AAA
1 TTATTAATTATATTAAAA
5011475 TTAT
1 TTAT
5011479 AAATATAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATTAATTATATTAAAA
Found at i:5011461 original size:17 final size:17
Alignment explanation
Indices: 5011436--5011478 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
5011426 TACAAATATT
*
5011436 TTAATTTATTAATTAT-
1 TTAAATTATTAATTATA
*
5011452 TTAAAATTATTTATTATA
1 TT-AAATTATTAATTATA
5011470 TTAAATTAT
1 TTAAATTAT
5011479 AAATATAATT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 2 0.09
17 19 0.83
18 2 0.09
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTAAATTATTAATTATA
Found at i:5018077 original size:3 final size:3
Alignment explanation
Indices: 5018069--5018125 Score: 107
Period size: 3 Copynumber: 19.3 Consensus size: 3
5018059 TCATAATGCC
5018069 TAA TAA TAA TAA TAA 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 TAA TAA
5018117 TAA T-A TAA T
1 TAA TAA TAA T
5018126 CTTTGCCCCT
Statistics
Matches: 53, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 2 0.04
3 51 0.96
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:5022130 original size:31 final size:31
Alignment explanation
Indices: 5022095--5022169 Score: 98
Period size: 31 Copynumber: 2.4 Consensus size: 31
5022085 ATTTTTTGTT
5022095 TTATTTTTTTCTCATTT-TCCAATGAATGCAG
1 TTATTTTTTTCT-ATTTGTCCAATGAATGCAG
* *
5022126 TTATTTTTTTCTTTTTGTTCAATGAATGCAG
1 TTATTTTTTTCTATTTGTCCAATGAATGCAG
*
5022157 TTGATTTCTTTCT
1 TT-ATTTTTTTCT
5022170 TTGATCAGTG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
30 3 0.08
31 27 0.69
32 9 0.23
ACGTcount: A:0.19, C:0.13, G:0.11, T:0.57
Consensus pattern (31 bp):
TTATTTTTTTCTATTTGTCCAATGAATGCAG
Found at i:5033310 original size:14 final size:15
Alignment explanation
Indices: 5033284--5033317 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
5033274 AAATTCTTTG
*
5033284 TTTTTTCTGATTTTC
1 TTTTTTCTGATTTCC
5033299 TTTTTTCT-ATTTCC
1 TTTTTTCTGATTTCC
5033313 TTTTT
1 TTTTT
5033318 CTAGTTTGAG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 10 0.56
15 8 0.44
ACGTcount: A:0.06, C:0.15, G:0.03, T:0.76
Consensus pattern (15 bp):
TTTTTTCTGATTTCC
Found at i:5033450 original size:7 final size:7
Alignment explanation
Indices: 5033440--5033476 Score: 74
Period size: 7 Copynumber: 5.3 Consensus size: 7
5033430 TATTATTTAG
5033440 AAATATA
1 AAATATA
5033447 AAATATA
1 AAATATA
5033454 AAATATA
1 AAATATA
5033461 AAATATA
1 AAATATA
5033468 AAATATA
1 AAATATA
5033475 AA
1 AA
5033477 TATTAATTTA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 30 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATATA
Found at i:5039847 original size:2 final size:2
Alignment explanation
Indices: 5039840--5039866 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
5039830 TTAGATTGGT
5039840 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
5039867 TAAGATTTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:5049932 original size:2 final size:2
Alignment explanation
Indices: 5049925--5049949 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
5049915 AAAATAGCAA
5049925 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
5049950 ACATCAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:5057841 original size:17 final size:18
Alignment explanation
Indices: 5057810--5057860 Score: 52
Period size: 17 Copynumber: 2.8 Consensus size: 18
5057800 CAGTAAATTA
5057810 AATAATTA-AATTAA-TGT
1 AATAATTATAA-TAATTGT
*
5057827 CATAATTATAATAATTGT
1 AATAATTATAATAATTGT
5057845 AATAAATTTATAATAA
1 AAT-AA-TTATAATAA
5057861 ATAATGAGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 10 0.36
18 7 0.25
19 2 0.07
20 9 0.32
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (18 bp):
AATAATTATAATAATTGT
Found at i:5064070 original size:46 final size:46
Alignment explanation
Indices: 5064020--5064116 Score: 158
Period size: 46 Copynumber: 2.1 Consensus size: 46
5064010 CAACAAAGCA
* * *
5064020 AAAAAAAAAAAAAAAAAAAAATTTTTAATTTTTTATTTGGGGGGTT
1 AAAAAAAAAAAAAAAAAAAAATTTTTAATGTTTGATTTGGGGCGTT
*
5064066 AAAAAAAAAAAAAAAAAAAACTTTTTAATGTTTGATTTGGGGCGTT
1 AAAAAAAAAAAAAAAAAAAAATTTTTAATGTTTGATTTGGGGCGTT
5064112 AAAAA
1 AAAAA
5064117 CTAACCCAAG
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.54, C:0.02, G:0.13, T:0.31
Consensus pattern (46 bp):
AAAAAAAAAAAAAAAAAAAAATTTTTAATGTTTGATTTGGGGCGTT
Found at i:5066316 original size:134 final size:135
Alignment explanation
Indices: 5066054--5066326 Score: 521
Period size: 135 Copynumber: 2.0 Consensus size: 135
5066044 CCGAAGAAGG
5066054 CCATCGTTCGGATGGTTGGGGGGGAGGTGGAGAGTTTTTGTTTTTTTTATTTCTTATTTTTTTAA
1 CCATCGTTCGGATGGTTGGGGGGGAGGTGGAGAGTTTTTGTTTTTTTTATTTCTTATTTTTTTAA
* *
5066119 AGTAGATTAGAATGAGATTTAGGGTTTTTTTTATAGTTTTTATAGCATTTAAAACGGCGTCGTTT
66 AGCAGATTAGAATGAGATTTAGGGTTTTTTTTATAGTTTTTATAGCATTTAAAACGGCATCGTTT
5066184 TAGCC
131 TAGCC
5066189 CCATCGTTCGGATGGTTGGGGGGGAGGTGGAGAGTTTTTGTTTTTTTTATTTCTTATTTTTTTAA
1 CCATCGTTCGGATGGTTGGGGGGGAGGTGGAGAGTTTTTGTTTTTTTTATTTCTTATTTTTTTAA
5066254 AGCAGATTAGAATGAGATTTAGGG-TTTTTTTATAGTTTTTATAGCATTTAAAACGGCATCGTTT
66 AGCAGATTAGAATGAGATTTAGGGTTTTTTTTATAGTTTTTATAGCATTTAAAACGGCATCGTTT
5066318 TAGCC
131 TAGCC
5066323 CCAT
1 CCAT
5066327 AACCCGTGCG
Statistics
Matches: 136, Mismatches: 2, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
134 48 0.35
135 88 0.65
ACGTcount: A:0.21, C:0.09, G:0.25, T:0.45
Consensus pattern (135 bp):
CCATCGTTCGGATGGTTGGGGGGGAGGTGGAGAGTTTTTGTTTTTTTTATTTCTTATTTTTTTAA
AGCAGATTAGAATGAGATTTAGGGTTTTTTTTATAGTTTTTATAGCATTTAAAACGGCATCGTTT
TAGCC
Found at i:5066370 original size:134 final size:135
Alignment explanation
Indices: 5066097--5066370 Score: 288
Period size: 134 Copynumber: 2.0 Consensus size: 135
5066087 GTTTTTGTTT
*
5066097 TTTTTATTTCTTATTTTTTTAAAGTAGATTAGAATGAGATTTAGGGTTTTTTTTATAGTTTTTAT
1 TTTTTATTTCTTATTTTTTTAAAGCAGATTAGAATGAGATTTAGGGTTTTTTTTATAGTTTTTAT
* *** * * **** *** * ** *
5066162 AGCATTTAAAACGGCGTCGTTTTAGCCCCATCGTTCGGATGGTTGGGGGGGAGGTGGAGAGTTTT
66 AGCATTTAAAACGGCATCGTTTTAGCCCCATCAACCCGATGGTTCGACCCGACCCGGACAGGGTC
* **
5066227 TGTTT
131 CGTCG
5066232 TTTTTATTTCTTATTTTTTTAAAGCAGATTAGAATGAGATTTAGGG-TTTTTTTATAGTTTTTAT
1 TTTTTATTTCTTATTTTTTTAAAGCAGATTAGAATGAGATTTAGGGTTTTTTTTATAGTTTTTAT
5066296 AGCATTTAAAACGGCATCGTTTTAGCCCCAT-AACCCG-TGCG-TCGACCCGACCCGCGACCCAG
66 AGCATTTAAAACGGCATCGTTTTAGCCCCATCAACCCGATG-GTTCGACCCGACCCG-GA--CAG
5066358 GGTCCG-CG
127 GGTCCGTCG
5066366 TTTTT
1 TTTTT
5066371 TTGTGCAGGT
Statistics
Matches: 114, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
132 7 0.06
133 5 0.04
134 53 0.46
135 49 0.43
ACGTcount: A:0.22, C:0.14, G:0.22, T:0.42
Consensus pattern (135 bp):
TTTTTATTTCTTATTTTTTTAAAGCAGATTAGAATGAGATTTAGGGTTTTTTTTATAGTTTTTAT
AGCATTTAAAACGGCATCGTTTTAGCCCCATCAACCCGATGGTTCGACCCGACCCGGACAGGGTC
CGTCG
Found at i:5066370 original size:135 final size:135
Alignment explanation
Indices: 5066096--5066371 Score: 299
Period size: 135 Copynumber: 2.0 Consensus size: 135
5066086 AGTTTTTGTT
*
5066096 TTTTTTATTTCTTATTTTTTTAAAGTAGATTAGAATGAGATTTAGGGTTTTTTTTATAGTTTTTA
1 TTTTTTATTTCTTATTTTTTTAAAGCAGATTAGAATGAGATTTAGGGTTTTTTTTATAGTTTTTA
* *** * * **** *** * **
5066161 TAGCATTTAAAACGGCGTCGTTTTAGCCCCATCGTTCGGATGGTTGGGGGGGAGGTGGAGAGTTT
66 TAGCATTTAAAACGGCATCGTTTTAGCCCCATCAACCCGATGGTTCGACCCGACCCGGACAGGGT
** **
5066226 TTGTT
131 CCGCG
5066231 TTTTTTATTTCTTATTTTTTTAAAGCAGATTAGAATGAGATTTAGGG-TTTTTTTATAGTTTTTA
1 TTTTTTATTTCTTATTTTTTTAAAGCAGATTAGAATGAGATTTAGGGTTTTTTTTATAGTTTTTA
5066295 TAGCATTTAAAACGGCATCGTTTTAGCCCCAT-AACCCG-TGCG-TCGACCCGACCCGCGACCCA
66 TAGCATTTAAAACGGCATCGTTTTAGCCCCATCAACCCGATG-GTTCGACCCGACCCG-GA--CA
5066357 GGGTCCGCG
127 GGGTCCGCG
5066366 TTTTTT
1 TTTTTT
5066372 TGTGCAGGTG
Statistics
Matches: 116, Mismatches: 21, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
132 7 0.06
133 5 0.04
134 48 0.41
135 56 0.48
ACGTcount: A:0.21, C:0.14, G:0.22, T:0.43
Consensus pattern (135 bp):
TTTTTTATTTCTTATTTTTTTAAAGCAGATTAGAATGAGATTTAGGGTTTTTTTTATAGTTTTTA
TAGCATTTAAAACGGCATCGTTTTAGCCCCATCAACCCGATGGTTCGACCCGACCCGGACAGGGT
CCGCG
Found at i:5066666 original size:3 final size:3
Alignment explanation
Indices: 5066660--5066726 Score: 125
Period size: 3 Copynumber: 22.3 Consensus size: 3
5066650 TTATTTAAGT
5066660 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
*
5066708 TTA TTA TTA CTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA T
5066727 ACTAATATAA
Statistics
Matches: 62, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
3 62 1.00
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:5070843 original size:6 final size:6
Alignment explanation
Indices: 5070834--5070893 Score: 56
Period size: 6 Copynumber: 10.7 Consensus size: 6
5070824 AAGAAAAAGA
* * *
5070834 AAAATC AAAATC AAAATC AAAGTC AAAATG AAAAT- GAAA-- AAAATC
1 AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC AAAATC
*
5070879 AAAATT AAAAT- AAAA
1 AAAATC AAAATC AAAA
5070894 AAACAAAAAG
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
4 3 0.07
5 7 0.15
6 36 0.78
ACGTcount: A:0.70, C:0.08, G:0.05, T:0.17
Consensus pattern (6 bp):
AAAATC
Found at i:5070882 original size:21 final size:21
Alignment explanation
Indices: 5070856--5070926 Score: 74
Period size: 21 Copynumber: 3.3 Consensus size: 21
5070846 AAAATCAAAG
5070856 TCAAAATGAAAATGAAAAAAA
1 TCAAAATGAAAATGAAAAAAA
*
5070877 TCAAAATTAAAAT-AAAAAAA
1 TCAAAATGAAAATGAAAAAAA
* *
5070897 -CAAAAAGAAGAAAGAAGAAAAAA
1 TCAAAATGAA-AATG-A-AAAAAA
5070920 TCAAAAT
1 TCAAAAT
5070927 CAAGATCAAA
Statistics
Matches: 40, Mismatches: 5, Indels: 7
0.77 0.10 0.13
Matches are distributed among these distances:
19 7 0.17
20 9 0.22
21 12 0.30
22 1 0.03
23 6 0.15
24 5 0.12
ACGTcount: A:0.73, C:0.06, G:0.08, T:0.13
Consensus pattern (21 bp):
TCAAAATGAAAATGAAAAAAA
Found at i:5073307 original size:44 final size:43
Alignment explanation
Indices: 5073151--5073908 Score: 241
Period size: 46 Copynumber: 17.7 Consensus size: 43
5073141 ATTATACAGG
* * * * *
5073151 TCTTATTTCCCTGAGATTACAGTAGAACAGACCGAAGA-ATTTCAGG
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA----AGA
* * * *
5073197 TCTTACCTCCCTGAGATTACAGTAGAGTAGACCGAAGAATTTCAA-A
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG-A---CAAGA
* * *
5073243 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCAGAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA-AGA
* * * **
5073287 TTTTATCTCCCTGAGATTACAGCGGAGTAGATCGAAGACACTA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACAAGA
* * * *
5073330 TCCTATCTCTCTGAGATTACAGTGGAGC-GAAT--TA-A-AGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAG-ATCGAAGACAAGA
* * * ** * * *
5073369 TCTTATCTCTCTGA-AGTTATAGTAGAGTGGATCGTA-TC-AGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGACAAGA
*
5073410 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGA-ATTGCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA----AGA
* ** * *
5073456 TCTTATCTCCCTGATATTACAGCAGAGCAGAT-TAA-AAATAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA-AG--A
* * * *
5073500 TCCTATCTCCCTGAGATTACAGTGGAGCGGAT--TA-A-AGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACAAGA
* * * * * * *
5073539 TCTTATCTCTCT-AAAGTTACAGTAGAGTAGATCGCA-TC-AGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGACAAGA
* ** *
5073580 TCTTATTTCCCTGAGATTACAGTGGAATAGACCGAAGA-ATTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACA----AGA
* * ** *
5073626 TCTTATCTCCCTGAGATTATAGCGGAGCAGATTAAAG-CTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACAAG--A
* * * *
5073670 TCCTATCTCCCTGAGATTACAGTGGAGCGGAT--TA-A-AGGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACAAGA
** * * * * *
5073709 TCTTATCTCTTTGA-AGTTACAGTAGAGTAGATCGTA-TC-AGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGACAAGA
* * * * *
5073750 TCTTATTTCCCTGAGATTACAGTGGAACAGACCAAAGAACTTCAGA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAG-AC--AAGA
* * * * * * *
5073796 TCTTATCTCTCTGA-AGTTACAGTAGAGTAGATCGTA-TC-CGG
1 TCTTATCTCCCTGAGA-TTACAGTGGAGCAGATCGAAGACAAGA
* * * *
5073837 TCTTATCTCCCTGAGATTATAGTAGAGCAGATTGAAG-CTAGTAA
1 TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACAAG--A
* *
5073881 TCCTATCTCCCTGAGATTACAATGGAGC
1 TCTTATCTCCCTGAGATTACAGTGGAGC
5073909 GGATTAAAAT
Statistics
Matches: 524, Mismatches: 134, Indels: 110
0.68 0.17 0.14
Matches are distributed among these distances:
38 4 0.01
39 75 0.14
40 2 0.00
41 120 0.23
42 15 0.03
43 30 0.06
44 118 0.23
45 4 0.01
46 153 0.29
47 2 0.00
51 1 0.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.29
Consensus pattern (43 bp):
TCTTATCTCCCTGAGATTACAGTGGAGCAGATCGAAGACAAGA
Found at i:5073536 original size:170 final size:170
Alignment explanation
Indices: 5073243--5073827 Score: 804
Period size: 170 Copynumber: 3.5 Consensus size: 170
5073233 GAATTTCAAA
* * ** * *
5073243 TCTTATCTCCCTGAGGTTACAGTGGAGCAGATTGAAGCCA--G-AGATTTTATCTCCCTGAGATT
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAG-AATTGCAGATCTTATCTCCCTGAGATT
* * ** * * * *
5073305 ACAGCGGAGTAGATCGAAGACACT-ATCCTATCTCTCTGAGATTACAGTGGAGCGAATTAAAGGA
65 ACAGCAGAGCAGATTAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGA
* *
5073369 TCTTATCTCTCTGAAGTTATAGTAGAGTGGATCGTATCAGG
130 TCTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
* *
5073410 TCTTATCTCCCTGAGATTACAGTGGAGCAGACCGAAGAATTGCAGATCTTATCTCCCTGATATTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATTA
*
5073475 CAGCAGAGCAGATTAAAAATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGAT
66 CAGCAGAGCAGATTAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGAT
* *
5073540 CTTATCTCTCTAAAGTTACAGTAGAGTAGATCGCATCAGG
131 CTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
* * *
5073580 TCTTATTTCCCTGAGATTACAGTGGAATAGACCGAAGAATTTCAGATCTTATCTCCCTGAGATTA
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATTA
* * *
5073645 TAGCGGAGCAGATTAAAGCTAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGAT
66 CAGCAGAGCAGATTAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGAT
*
5073710 CTTATCTCTTTGAAGTTACAGTAGAGTAGATCGTATCAGG
131 CTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
* * *
5073750 TCTTATTTCCCTGAGATTACAGTGGAACAGACCAAAGAACTT-CAGATCTTATCTCTCTGA-AGT
1 TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAA-TTGCAGATCTTATCTCCCTGAGA-T
* *
5073813 TACAGTAGAGTAGAT
64 TACAGCAGAGCAGAT
5073828 CGTATCCGGT
Statistics
Matches: 374, Mismatches: 38, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
166 1 0.00
167 34 0.09
168 1 0.00
169 37 0.10
170 299 0.80
171 2 0.01
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (170 bp):
TCTTATCTCCCTGAGATTACAGTGGAACAGACCGAAGAATTGCAGATCTTATCTCCCTGAGATTA
CAGCAGAGCAGATTAAAGATAGTAATCCTATCTCCCTGAGATTACAGTGGAGCGGATTAAAGGAT
CTTATCTCTCTGAAGTTACAGTAGAGTAGATCGTATCAGG
Found at i:5076116 original size:3 final size:3
Alignment explanation
Indices: 5076110--5076143 Score: 59
Period size: 3 Copynumber: 11.3 Consensus size: 3
5076100 TTATTTAAGT
*
5076110 TTA TTA TTA TTA TTA TTA TTA TTA CTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
5076144 ACTAATATAA
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:0.03, G:0.00, T:0.65
Consensus pattern (3 bp):
TTA
Found at i:5081412 original size:16 final size:16
Alignment explanation
Indices: 5081357--5081412 Score: 51
Period size: 16 Copynumber: 3.5 Consensus size: 16
5081347 AAAAGTTAAC
*
5081357 AACCCATACCCAAAAT
1 AACCCAAACCCAAAAT
** *
5081373 AACCTGAACCTGAAAA-
1 AACCCAAACC-CAAAAT
*
5081389 AACACAAACCCAAAAT
1 AACCCAAACCCAAAAT
5081405 AACCCAAA
1 AACCCAAA
5081413 GAGGTAATCC
Statistics
Matches: 29, Mismatches: 9, Indels: 4
0.69 0.21 0.10
Matches are distributed among these distances:
15 4 0.14
16 21 0.72
17 4 0.14
ACGTcount: A:0.55, C:0.32, G:0.04, T:0.09
Consensus pattern (16 bp):
AACCCAAACCCAAAAT
Found at i:5086997 original size:44 final size:45
Alignment explanation
Indices: 5086925--5087012 Score: 142
Period size: 44 Copynumber: 2.0 Consensus size: 45
5086915 ACCAGCTTAA
*
5086925 AGAACCCCTCCAATGGCGTTTTGACTGATGAGAATGAAGAGAAAC
1 AGAACCCCTCCAATGACGTTTTGACTGATGAGAATGAAGAGAAAC
* *
5086970 AGAACCCCT-CTATGACGTTTTGGCTGATGAGAATGAAGAGAAA
1 AGAACCCCTCCAATGACGTTTTGACTGATGAGAATGAAGAGAAA
5087013 TCACAAGAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
44 31 0.77
45 9 0.22
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.22
Consensus pattern (45 bp):
AGAACCCCTCCAATGACGTTTTGACTGATGAGAATGAAGAGAAAC
Found at i:5088854 original size:21 final size:22
Alignment explanation
Indices: 5088824--5088868 Score: 58
Period size: 20 Copynumber: 2.1 Consensus size: 22
5088814 GAACAAATTG
5088824 TTGATTCTATTTCTTTCTTG-AT
1 TTGATTCTA-TTCTTTCTTGTAT
*
5088846 TTGA-TCTATTCTTTTTTGTAT
1 TTGATTCTATTCTTTCTTGTAT
5088867 TT
1 TT
5088869 CTCTTTTTCT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
20 9 0.43
21 8 0.38
22 4 0.19
ACGTcount: A:0.13, C:0.11, G:0.09, T:0.67
Consensus pattern (22 bp):
TTGATTCTATTCTTTCTTGTAT
Found at i:5095454 original size:34 final size:34
Alignment explanation
Indices: 5095345--5095468 Score: 178
Period size: 34 Copynumber: 3.6 Consensus size: 34
5095335 NNNNNNNNNN
5095345 AACAGGAGAG-TTCCCTGCAAGAAATGATGTGTG
1 AACAGGAGAGATTCCCTGCAAGAAATGATGTGTG
* * *
5095378 AACAGGAGAAGATTCCCTGCAACAAAATAATGCGTG
1 AACAGGAG-AGATTCCCTGCAA-GAAATGATGTGTG
*
5095414 AACATGAGAGATTCCCTGCAAGAAATGATGTGTG
1 AACAGGAGAGATTCCCTGCAAGAAATGATGTGTG
*
5095448 AACATGAGAGATTCCCTGCAA
1 AACAGGAGAGATTCCCTGCAA
5095469 TGCGTGAACA
Statistics
Matches: 81, Mismatches: 7, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
33 8 0.10
34 33 0.41
35 23 0.28
36 17 0.21
ACGTcount: A:0.37, C:0.18, G:0.25, T:0.20
Consensus pattern (34 bp):
AACAGGAGAGATTCCCTGCAAGAAATGATGTGTG
Found at i:5095784 original size:14 final size:13
Alignment explanation
Indices: 5095757--5095794 Score: 67
Period size: 14 Copynumber: 2.8 Consensus size: 13
5095747 AGTTTCCAAA
5095757 TTTTCAAATTAAG
1 TTTTCAAATTAAG
5095770 TTTTCAAACTTAAG
1 TTTTCAAA-TTAAG
5095784 TTTTCAAATTA
1 TTTTCAAATTA
5095795 CAAATATATC
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
13 11 0.46
14 13 0.54
ACGTcount: A:0.37, C:0.11, G:0.05, T:0.47
Consensus pattern (13 bp):
TTTTCAAATTAAG
Found at i:5100393 original size:15 final size:15
Alignment explanation
Indices: 5100375--5100409 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
5100365 AAAATTCAAA
5100375 AAAAAT-AATAAAATC
1 AAAAATCAA-AAAATC
5100390 AAAAATCAAAAAATC
1 AAAAATCAAAAAATC
5100405 AAAAA
1 AAAAA
5100410 ATACATTTTG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 17 0.89
16 2 0.11
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (15 bp):
AAAAATCAAAAAATC
Found at i:5100401 original size:8 final size:8
Alignment explanation
Indices: 5100374--5100411 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
5100364 AAAAATTCAA
5100374 AAAAAAT-
1 AAAAAATC
5100381 AATAAAATC
1 AA-AAAATC
5100390 -AAAAATC
1 AAAAAATC
5100397 AAAAAATC
1 AAAAAATC
5100405 AAAAAAT
1 AAAAAAT
5100412 ACATTTTGAC
Statistics
Matches: 28, Mismatches: 0, Indels: 5
0.85 0.00 0.15
Matches are distributed among these distances:
7 8 0.29
8 20 0.71
ACGTcount: A:0.76, C:0.08, G:0.00, T:0.16
Consensus pattern (8 bp):
AAAAAATC
Found at i:5100449 original size:29 final size:29
Alignment explanation
Indices: 5100414--5100481 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
5100404 CAAAAAATAC
*
5100414 ATTTTGACCC-CTGAACTTTTTGAAATTAA
1 ATTTTGACCCAC-CAACTTTTTGAAATTAA
*
5100443 ATTTTGACCCACCAACTTTTTGAAATTAC
1 ATTTTGACCCACCAACTTTTTGAAATTAA
*
5100472 CTTTTGACCC
1 ATTTTGACCC
5100482 TAAAGTTTCT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
29 34 0.97
30 1 0.03
ACGTcount: A:0.28, C:0.24, G:0.09, T:0.40
Consensus pattern (29 bp):
ATTTTGACCCACCAACTTTTTGAAATTAA
Found at i:5100752 original size:10 final size:10
Alignment explanation
Indices: 5100737--5100780 Score: 54
Period size: 10 Copynumber: 4.5 Consensus size: 10
5100727 TTTTTCGAAA
5100737 AAAAGAGAAG
1 AAAAGAGAAG
*
5100747 AAAAGAGGAG
1 AAAAGAGAAG
5100757 AAAAGAGAA-
1 AAAAGAGAAG
* *
5100766 AGAGGAGAAG
1 AAAAGAGAAG
5100776 AAAAG
1 AAAAG
5100781 GAGTACCGAC
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
9 7 0.26
10 20 0.74
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (10 bp):
AAAAGAGAAG
Found at i:5100769 original size:16 final size:15
Alignment explanation
Indices: 5100744--5100774 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
5100734 AAAAAAAGAG
5100744 AAGAAAAGAGGAGAA
1 AAGAAAAGAGGAGAA
5100759 AAGAGAAAGAGGAGAA
1 AAGA-AAAGAGGAGAA
5100775 GAAAAGGAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.65, C:0.00, G:0.35, T:0.00
Consensus pattern (15 bp):
AAGAAAAGAGGAGAA
Found at i:5100880 original size:12 final size:12
Alignment explanation
Indices: 5100850--5100891 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
5100840 AAGGTTTCGT
5100850 GAAGAGGAAG--
1 GAAGAGGAAGAA
*
5100860 GAGGAGGAAGAA
1 GAAGAGGAAGAA
5100872 GAAGAGGAAGAA
1 GAAGAGGAAGAA
5100884 GAA-AGGAA
1 GAAGAGGAA
5100892 AAAAAAAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
10 9 0.32
11 5 0.18
12 14 0.50
ACGTcount: A:0.55, C:0.00, G:0.45, T:0.00
Consensus pattern (12 bp):
GAAGAGGAAGAA
Found at i:5101181 original size:16 final size:15
Alignment explanation
Indices: 5101162--5101217 Score: 69
Period size: 15 Copynumber: 3.7 Consensus size: 15
5101152 GCAGCAGCCC
5101162 AAAAAAAG-AAGAGAA
1 AAAAAAAGAAAGA-AA
*
5101177 AAAAAGAGAAAGAAA
1 AAAAAAAGAAAGAAA
*
5101192 AAAAAAAGAAAAAAA
1 AAAAAAAGAAAGAAA
5101207 GAAAAAAAGAA
1 -AAAAAAAGAA
5101218 GAAGAGCAAC
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
15 22 0.61
16 14 0.39
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (15 bp):
AAAAAAAGAAAGAAA
Found at i:5101190 original size:19 final size:17
Alignment explanation
Indices: 5101165--5101222 Score: 75
Period size: 16 Copynumber: 3.4 Consensus size: 17
5101155 GCAGCCCAAA
5101165 AAAAGAAGAGAAAAAAAG
1 AAAAGAA-AGAAAAAAAG
5101183 AGAAAGAAA-AAAAAAAG
1 A-AAAGAAAGAAAAAAAG
5101200 AAAA-AAAGAAAAAAAG
1 AAAAGAAAGAAAAAAAG
5101216 AAGAAGA
1 AA-AAGA
5101223 GCAACCCGTT
Statistics
Matches: 36, Mismatches: 0, Indels: 8
0.82 0.00 0.18
Matches are distributed among these distances:
15 3 0.08
16 13 0.36
17 11 0.31
18 3 0.08
19 6 0.17
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (17 bp):
AAAAGAAAGAAAAAAAG
Found at i:5101205 original size:8 final size:8
Alignment explanation
Indices: 5101173--5101217 Score: 65
Period size: 8 Copynumber: 5.5 Consensus size: 8
5101163 AAAAAAGAAG
5101173 AGAAAAAA
1 AGAAAAAA
5101181 AGAGAAAGAA
1 AGA-AAA-AA
5101191 A-AAAAAA
1 AGAAAAAA
5101198 AGAAAAAA
1 AGAAAAAA
5101206 AGAAAAAA
1 AGAAAAAA
5101214 AGAA
1 AGAA
5101218 GAAGAGCAAC
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
7 3 0.09
8 24 0.71
9 4 0.12
10 3 0.09
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (8 bp):
AGAAAAAA
Found at i:5101612 original size:113 final size:114
Alignment explanation
Indices: 5101414--5101644 Score: 419
Period size: 113 Copynumber: 2.0 Consensus size: 114
5101404 TAATTTTAAA
5101414 AAATAAGGCAACGGATCGATTTATCATAAAATCGTTGATTTCATCGCTATGTTGGGTGAATATCA
1 AAATAAGGCAACGGATCGATTTATCATAAAATCGTTGATTTCATCGCTATGTTGGGTGAATATCA
5101479 CCGGTTTGTGTTAAACTCGATACGCCCTTTT-AAAAATAAAAAATATTC
66 CCGGTTTGTGTTAAACTCGATACGCCCTTTTAAAAAATAAAAAATATTC
* *
5101527 AAATAAGGTAACGGATCGATTTATCATAAAATCGTTGATTTCATTGCTATGTTGGGTGAATATCA
1 AAATAAGGCAACGGATCGATTTATCATAAAATCGTTGATTTCATCGCTATGTTGGGTGAATATCA
*
5101592 CCGGTTTGTGTTAAACTCGATACGTCCTTTTAAAAAAATAAAAAATATTC
66 CCGGTTTGTGTTAAACTCGATACGCCCTTTT-AAAAAATAAAAAATATTC
5101642 AAA
1 AAA
5101645 ATATTCATAT
Statistics
Matches: 113, Mismatches: 3, Indels: 2
0.96 0.03 0.02
Matches are distributed among these distances:
113 93 0.82
115 20 0.18
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.33
Consensus pattern (114 bp):
AAATAAGGCAACGGATCGATTTATCATAAAATCGTTGATTTCATCGCTATGTTGGGTGAATATCA
CCGGTTTGTGTTAAACTCGATACGCCCTTTTAAAAAATAAAAAATATTC
Found at i:5101856 original size:18 final size:18
Alignment explanation
Indices: 5101835--5102008 Score: 189
Period size: 18 Copynumber: 9.8 Consensus size: 18
5101825 AGAAAATTTT
5101835 TCGTGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTC
*
5101853 TCGTG-TTTCAAAAATTT
1 TCGTGTTTTCAAAAATTC
*
5101870 TCATGTTTTCAAAAATTC
1 TCGTGTTTTCAAAAATTC
5101888 TCGTGTTTTCAAAAAATTC
1 TCGTGTTTTC-AAAAATTC
** *
5101907 -C-AATTTTCAAAAATTT
1 TCGTGTTTTCAAAAATTC
*
5101923 TCATGTTTTCAGAAAATTC
1 TCGTGTTTTCA-AAAATTC
* *
5101942 CCGTG-TTTCAAAAATCC
1 TCGTGTTTTCAAAAATTC
5101959 TCGTGTTTTCAAAAATT-
1 TCGTGTTTTCAAAAATTC
* *
5101976 TCGGTGTTTT-GAAAATTT
1 TC-GTGTTTTCAAAAATTC
5101994 TCGTGTTTTCAAAAA
1 TCGTGTTTTCAAAAA
5102009 AAAATCTCGT
Statistics
Matches: 130, Mismatches: 17, Indels: 18
0.79 0.10 0.11
Matches are distributed among these distances:
16 7 0.05
17 46 0.35
18 60 0.46
19 17 0.13
ACGTcount: A:0.31, C:0.15, G:0.11, T:0.43
Consensus pattern (18 bp):
TCGTGTTTTCAAAAATTC
Found at i:5101863 original size:17 final size:17
Alignment explanation
Indices: 5101835--5102077 Score: 154
Period size: 17 Copynumber: 13.8 Consensus size: 17
5101825 AGAAAATTTT
5101835 TCGTGTTTTCAAAAATTC
1 TCGTG-TTTCAAAAATTC
*
5101853 TCGTGTTTCAAAAATTT
1 TCGTGTTTCAAAAATTC
*
5101870 TCATGTTTTCAAAAATTC
1 TCGTG-TTTCAAAAATTC
5101888 TCGTGTTTTCAAAAAATTC
1 TCGTG-TTTC-AAAAATTC
* *
5101907 -CAAT-TTTCAAAAATTT
1 TC-GTGTTTCAAAAATTC
*
5101923 TCATGTTTTCAGAAAATTC
1 TCGTG-TTTCA-AAAATTC
* *
5101942 CCGTGTTTCAAAAATCC
1 TCGTGTTTCAAAAATTC
5101959 TCGTGTTTTCAAAAATT-
1 TCGTG-TTTCAAAAATTC
** *
5101976 TCGGTGTTTTGAAAATTT
1 TC-GTGTTTCAAAAATTC
*
5101994 TCGTGTTTTCAAAAAAAAATC
1 TCGTG-TTTC---AAAAATTC
* *
5102015 TCGTGTTTCATAAATTT
1 TCGTGTTTCAAAAATTC
* * ***
5102032 TCATTTTTTTTAAATT-
1 TCGTGTTTCAAAAATTC
*
5102048 T-GTGTTTCCAAAATTC
1 TCGTGTTTCAAAAATTC
*
5102064 TCGTGTTTTAAAAA
1 TCGTGTTTCAAAAA
5102078 AATTTTCTCA
Statistics
Matches: 177, Mismatches: 32, Indels: 33
0.73 0.13 0.14
Matches are distributed among these distances:
15 9 0.05
16 11 0.06
17 71 0.40
18 54 0.31
19 18 0.10
20 4 0.02
21 10 0.06
ACGTcount: A:0.31, C:0.14, G:0.10, T:0.45
Consensus pattern (17 bp):
TCGTGTTTCAAAAATTC
Found at i:5101877 original size:35 final size:36
Alignment explanation
Indices: 5101827--5102008 Score: 194
Period size: 35 Copynumber: 5.1 Consensus size: 36
5101817 AAAAAATCAG
*
5101827 AAAATTTTTCGTGTTTTCAAAAATTCTCGTG-TTTC
1 AAAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTTC
*
5101862 AAAAATTTTCATGTTTTCAAAAATTCTCGTGTTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTTC
* *** * *
5101898 AAAAA-ATTCCAATTTTCAAAAATTTTCATGTTTTC
1 AAAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTTC
** *
5101933 AGAAAATTCCCGTG-TTTCAAAAATCCTCGTGTTTTC
1 A-AAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTTC
* *
5101969 AAAAA-TTTCGGTGTTTT-GAAAATTTTCGTGTTTTC
1 AAAAATTTTC-GTGTTTTCAAAAATTCTCGTGTTTTC
5102004 AAAAA
1 AAAAA
5102009 AAAATCTCGT
Statistics
Matches: 120, Mismatches: 22, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
34 2 0.02
35 81 0.68
36 36 0.30
37 1 0.01
ACGTcount: A:0.32, C:0.14, G:0.10, T:0.43
Consensus pattern (36 bp):
AAAAATTTTCGTGTTTTCAAAAATTCTCGTGTTTTC
Found at i:5102310 original size:13 final size:14
Alignment explanation
Indices: 5102281--5102311 Score: 62
Period size: 14 Copynumber: 2.2 Consensus size: 14
5102271 TTTAGAAAAA
5102281 TTTAAAAATAAGTT
1 TTTAAAAATAAGTT
5102295 TTTAAAAATAAGTT
1 TTTAAAAATAAGTT
5102309 TTT
1 TTT
5102312 CTTCTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.45, C:0.00, G:0.06, T:0.48
Consensus pattern (14 bp):
TTTAAAAATAAGTT
Found at i:5105558 original size:15 final size:15
Alignment explanation
Indices: 5105538--5105589 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
5105528 AACATTCAGT
5105538 ATTCATTAGTCGTTC
1 ATTCATTAGTCGTTC
*
5105553 ATTCATTCATTCAG-T-
1 ATTCATT-AGTC-GTTC
*
5105568 ATTCATTAGTCATTC
1 ATTCATTAGTCGTTC
5105583 ATTCATT
1 ATTCATT
5105590 CATTGTATGT
Statistics
Matches: 30, Mismatches: 3, Indels: 8
0.73 0.07 0.20
Matches are distributed among these distances:
14 4 0.13
15 21 0.70
16 4 0.13
17 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.08, T:0.48
Consensus pattern (15 bp):
ATTCATTAGTCGTTC
Found at i:5105559 original size:4 final size:4
Alignment explanation
Indices: 5105550--5105593 Score: 56
Period size: 4 Copynumber: 11.5 Consensus size: 4
5105540 TCATTAGTCG
* *
5105550 TTCA TTCA TTCA TTCA GT-A TTCA TT-A GTCA TTCA TTCA TTCA TT
1 TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TTCA TT
5105594 GTATGTACAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
3 4 0.12
4 30 0.88
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (4 bp):
TTCA
Found at i:5105566 original size:30 final size:30
Alignment explanation
Indices: 5105530--5105593 Score: 119
Period size: 30 Copynumber: 2.1 Consensus size: 30
5105520 ACATAACTAA
*
5105530 CATTCAGTATTCATTAGTCGTTCATTCATT
1 CATTCAGTATTCATTAGTCATTCATTCATT
5105560 CATTCAGTATTCATTAGTCATTCATTCATT
1 CATTCAGTATTCATTAGTCATTCATTCATT
5105590 CATT
1 CATT
5105594 GTATGTACAT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.25, C:0.20, G:0.08, T:0.47
Consensus pattern (30 bp):
CATTCAGTATTCATTAGTCATTCATTCATT
Found at i:5105571 original size:11 final size:11
Alignment explanation
Indices: 5105530--5105587 Score: 54
Period size: 11 Copynumber: 5.5 Consensus size: 11
5105520 ACATAACTAA
5105530 CATTCAGTATT
1 CATTCAGTATT
*
5105541 CATT-AGTCGTT
1 CATTCAGT-ATT
5105552 CATTC---ATT
1 CATTCAGTATT
5105560 CATTCAGTATT
1 CATTCAGTATT
5105571 CATT-AGTCATT
1 CATTCAGT-ATT
5105582 CATTCA
1 CATTCA
5105588 TTCATTGTAT
Statistics
Matches: 38, Mismatches: 2, Indels: 13
0.72 0.04 0.25
Matches are distributed among these distances:
8 7 0.18
10 6 0.16
11 24 0.63
12 1 0.03
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.45
Consensus pattern (11 bp):
CATTCAGTATT
Found at i:5109393 original size:13 final size:13
Alignment explanation
Indices: 5109375--5109410 Score: 54
Period size: 13 Copynumber: 2.7 Consensus size: 13
5109365 TTTGTAAGAG
5109375 CTTATATTTGCTC
1 CTTATATTTGCTC
5109388 CTTATATTTGCTC
1 CTTATATTTGCTC
*
5109401 TTTATCATTT
1 CTTAT-ATTT
5109411 CAATGATCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
13 17 0.81
14 4 0.19
ACGTcount: A:0.17, C:0.19, G:0.06, T:0.58
Consensus pattern (13 bp):
CTTATATTTGCTC
Found at i:5113073 original size:17 final size:17
Alignment explanation
Indices: 5113054--5113091 Score: 51
Period size: 17 Copynumber: 2.3 Consensus size: 17
5113044 TATGCTTAAA
* *
5113054 AAAAACAAAA-AAACAG
1 AAAAAGAAAAGAAAAAG
5113070 AAAAAGAAAAGAAAAAG
1 AAAAAGAAAAGAAAAAG
5113087 AAAAA
1 AAAAA
5113092 TCAAGATGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
16 9 0.47
17 10 0.53
ACGTcount: A:0.84, C:0.05, G:0.11, T:0.00
Consensus pattern (17 bp):
AAAAAGAAAAGAAAAAG
Found at i:5113999 original size:64 final size:64
Alignment explanation
Indices: 5113931--5114057 Score: 193
Period size: 64 Copynumber: 2.0 Consensus size: 64
5113921 TAATTTCTGT
5113931 TTTTTTCAAAAATCAACTCATAATAC-GAAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTC
1 TTTTTTCAAAAATCAACTCATAATACAG-AGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTC
*** * *
5113995 TTTTTTTTTAAATCAACTCATAATACAGAGGTGAGTTGAGCTTCGGGTCACGTTGAGGTATTT
1 TTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTT
5114058 TTAATTTCGG
Statistics
Matches: 57, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
64 56 0.98
65 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.22, T:0.35
Consensus pattern (64 bp):
TTTTTTCAAAAATCAACTCATAATACAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTC
Found at i:5114249 original size:80 final size:79
Alignment explanation
Indices: 5114154--5114656 Score: 621
Period size: 75 Copynumber: 6.6 Consensus size: 79
5114144 NNNNNNNNNN
*
5114154 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCAGGTCACGCTGAGGTATTTTTTTTAATT
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAATT
*
5114219 TATGTTTTTTTTTCA
66 TCTG-TTTTTTTTCA
* *
5114234 AAAATCAACTCATAATATGAGAGGTGAGTTGAGCCTCGGGTCATGCTGAGGTA---TTTTTAATT
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAATT
* *
5114296 TCTATTGTTTTTCA
66 TCTGTTTTTTTTCA
*
5114310 AAAATTAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTT-ATT
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAATT
*
5114374 TCT-ATTTTTTT--
66 TCTGTTTTTTTTCA
5114385 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTA---TTTTTAATT
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAATT
*
5114447 TTTG-TTTTTTTCA
66 TCTGTTTTTTTTCA
* * * * *
5114460 AAAATCAACTCATAATACGAGAGGTGTGCTGAGTCTCGGGTCACGCTGA-G--CTGTTTTTAATT
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAATT
5114522 TCTG-TTTTTTTCA
66 TCTGTTTTTTTTCA
* * * * * ** * * *
5114535 AAAATCAGCTAATATTGCGAGATGTGAGTTGAGCCT-TAGACACATGCCGAGGTATTTCTTTTAA
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCAC--GCTGAGGTATTT-TTTTTA
5114599 ATTTCTG-TTTTTTT--
63 ATTTCTGTTTTTTTTCA
5114613 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCAC
1 AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCAC
5114657 ATGCCGAGCG
Statistics
Matches: 366, Mismatches: 40, Indels: 35
0.83 0.09 0.08
Matches are distributed among these distances:
72 5 0.01
73 12 0.03
74 5 0.01
75 147 0.40
76 63 0.17
77 18 0.05
78 37 0.10
79 10 0.03
80 69 0.19
ACGTcount: A:0.27, C:0.15, G:0.21, T:0.37
Consensus pattern (79 bp):
AAAATCAACTCATAATACGAGAGGTGAGTTGAGCCTCGGGTCACGCTGAGGTATTTTTTTTAATT
TCTGTTTTTTTTCA
Found at i:5114863 original size:16 final size:14
Alignment explanation
Indices: 5114838--5114879 Score: 50
Period size: 15 Copynumber: 2.9 Consensus size: 14
5114828 ATATATATTT
5114838 AAAA-AAAAAATCAGA
1 AAAATAAAAAATC--A
5114853 AAAATAAAAAATCA
1 AAAATAAAAAATCA
5114867 AAAATCAAAAAAT
1 AAAAT-AAAAAAT
5114880 ACATTTTGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
14 6 0.24
15 11 0.44
16 8 0.32
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (14 bp):
AAAATAAAAAATCA
Found at i:5114917 original size:29 final size:29
Alignment explanation
Indices: 5114879--5114958 Score: 110
Period size: 29 Copynumber: 2.8 Consensus size: 29
5114869 AATCAAAAAA
5114879 TACATTTTGACCCCTAAACTTTTTGAAAT
1 TACATTTTGACCCCTAAACTTTTTGAAAT
*
5114908 TACATTTTGACCCAC-CAACTTTTTGAAAT
1 TACATTTTGACCC-CTAAACTTTTTGAAAT
* *
5114937 TACATTTTAACCCTTAAA-TTTT
1 TACATTTTGACCCCTAAACTTTT
5114959 CTCAAAATTC
Statistics
Matches: 45, Mismatches: 4, Indels: 5
0.83 0.07 0.09
Matches are distributed among these distances:
28 4 0.09
29 40 0.89
30 1 0.02
ACGTcount: A:0.31, C:0.21, G:0.05, T:0.42
Consensus pattern (29 bp):
TACATTTTGACCCCTAAACTTTTTGAAAT
Found at i:5115464 original size:20 final size:20
Alignment explanation
Indices: 5115435--5115485 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 20
5115425 CAGCCCAAAA
* *
5115435 CAAAAACAAAAAGAAAATGG
1 CAAAAACAAAAAAAAAAAGG
*
5115455 CAAAAGCAAAAAAAAAAAGG
1 CAAAAACAAAAAAAAAAAGG
5115475 CAGAAAA-AAAA
1 CA-AAAACAAAA
5115486 CAGCCCATAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
20 23 0.88
21 3 0.12
ACGTcount: A:0.75, C:0.10, G:0.14, T:0.02
Consensus pattern (20 bp):
CAAAAACAAAAAAAAAAAGG
Found at i:5115624 original size:1 final size:1
Alignment explanation
Indices: 5115618--5115712 Score: 64
Period size: 1 Copynumber: 95.0 Consensus size: 1
5115608 GCAGCAGGCC
* * * * * * * * * *
5115618 AAAAAAAAAGAAGAGAAAAAAAGAGAAAGAAAAAAAATAAAAAATAAAAAAATAAAAAAATAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
** * *
5115683 AAAAAGGAAAAAGAAAAAAAAAAGAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
5115713 GGGGTTCAAT
Statistics
Matches: 68, Mismatches: 26, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
1 68 1.00
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (1 bp):
A
Found at i:5115637 original size:16 final size:16
Alignment explanation
Indices: 5115618--5115710 Score: 86
Period size: 16 Copynumber: 5.9 Consensus size: 16
5115608 GCAGCAGGCC
*
5115618 AAAAAAAAAGAAGAG-
1 AAAAAAAAAGAAAAGA
*
5115633 AAAAAAAGAG-AAAGA
1 AAAAAAAAAGAAAAGA
*
5115648 AAAAAAATAA-AAAATA
1 AAAAAAA-AAGAAAAGA
*
5115664 AAAAAATAAA-AAAATA
1 AAAAAA-AAAGAAAAGA
*
5115680 AAAAAAAAGGAAAAAGA
1 AAAAAAAAAG-AAAAGA
5115697 AAAAAAAAAGAAAA
1 AAAAAAAAAGAAAA
5115711 AAGGGGTTCA
Statistics
Matches: 65, Mismatches: 7, Indels: 11
0.78 0.08 0.13
Matches are distributed among these distances:
14 3 0.05
15 18 0.28
16 29 0.45
17 15 0.23
ACGTcount: A:0.85, C:0.00, G:0.11, T:0.04
Consensus pattern (16 bp):
AAAAAAAAAGAAAAGA
Found at i:5116105 original size:21 final size:20
Alignment explanation
Indices: 5116073--5116114 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 20
5116063 TCGGGTTTCG
5116073 AAATTTTCGTGTCTTCAAAA
1 AAATTTTCGTGTCTTCAAAA
*
5116093 AAATTTCTCGTGTTTTCAAAA
1 AAATTT-TCGTGTCTTCAAAA
5116114 A
1 A
5116115 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (20 bp):
AAATTTTCGTGTCTTCAAAA
Found at i:5116115 original size:19 final size:19
Alignment explanation
Indices: 5116073--5116114 Score: 57
Period size: 20 Copynumber: 2.1 Consensus size: 19
5116063 TCGGGTTTCG
5116073 AAATTTTCGTGTCTTCAAAA
1 AAATTTTCGTGTCTTC-AAA
*
5116093 AAATTTCTCGTGTTTTCAAA
1 AAATTT-TCGTGTCTTCAAA
5116113 AA
1 AA
5116115 TAAGGTAACG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 11 0.55
21 9 0.45
ACGTcount: A:0.36, C:0.14, G:0.10, T:0.40
Consensus pattern (19 bp):
AAATTTTCGTGTCTTCAAA
Found at i:5116273 original size:18 final size:18
Alignment explanation
Indices: 5116220--5116348 Score: 113
Period size: 18 Copynumber: 7.3 Consensus size: 18
5116210 AAAAAATCAG
*
5116220 AAAATTTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
* ***
5116238 AAAAA-ATTCCAATTTTC
1 AAAAATTTTCGTGTTTTC
* *
5116255 AAAATTTTTCATGTTTTC
1 AAAAATTTTCGTGTTTTC
*
5116273 AGAAAATTCTCGTG-TTTC
1 A-AAAATTTTCGTGTTTTC
**
5116291 AAAAATCCTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
5116309 AAAAA-TTTCGGTGTTTT-
1 AAAAATTTTC-GTGTTTTC
*
5116326 GAAAATTTTCGTGTTTTC
1 AAAAATTTTCGTGTTTTC
5116344 AAAAA
1 AAAAA
5116349 AACATCTCGT
Statistics
Matches: 87, Mismatches: 18, Indels: 12
0.74 0.15 0.10
Matches are distributed among these distances:
17 36 0.41
18 42 0.48
19 9 0.10
ACGTcount: A:0.32, C:0.13, G:0.11, T:0.44
Consensus pattern (18 bp):
AAAAATTTTCGTGTTTTC
Found at i:5116412 original size:17 final size:17
Alignment explanation
Indices: 5116269--5116418 Score: 90
Period size: 17 Copynumber: 8.5 Consensus size: 17
5116259 TTTTTCATGT
5116269 TTTCAGAAAATTCTCGTG
1 TTTCA-AAAATTCTCGTG
*
5116287 TTTCAAAAATCCTCGTG
1 TTTCAAAAATTCTCGTG
5116304 TTTTCAAAAATT-TCGGTG
1 -TTTCAAAAATTCTC-GTG
** *
5116322 TTTTGAAAATTTTCGTG
1 TTTCAAAAATTCTCGTG
*
5116339 TTTTCAAAAAAACATCTCGTG
1 -TTTC--AAAAA-TTCTCGTG
* * * *
5116360 TTTCATAAATTTTCATTT
1 TTTCAAAAATTCTC-GTG
**
5116378 TTTTTAAAATT-T-GTG
1 TTTCAAAAATTCTCGTG
*
5116393 TTTCCAAAATTCTCGTG
1 TTTCAAAAATTCTCGTG
*
5116410 TTTTAAAAA
1 TTTCAAAAA
5116419 AAAATTTCTC
Statistics
Matches: 100, Mismatches: 22, Indels: 21
0.70 0.15 0.15
Matches are distributed among these distances:
15 10 0.10
16 1 0.01
17 39 0.39
18 36 0.36
20 8 0.08
21 6 0.06
ACGTcount: A:0.30, C:0.13, G:0.11, T:0.45
Consensus pattern (17 bp):
TTTCAAAAATTCTCGTG
Found at i:5117696 original size:3 final size:3
Alignment explanation
Indices: 5117688--5117757 Score: 56
Period size: 3 Copynumber: 23.7 Consensus size: 3
5117678 CGCTACATAG
* * *
5117688 TTA TTA TTA TTA TTA TTA TTA TTG TCT- TTA CTA TTA TT- TTT TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA TTA TTA
* *
5117732 -TA TTCA TTA ATA TTA TTG TTA TTA TT
1 TTA TT-A TTA TTA TTA TTA TTA TTA TT
5117758 GTTAGGTTTT
Statistics
Matches: 54, Mismatches: 8, Indels: 10
0.75 0.11 0.14
Matches are distributed among these distances:
2 5 0.09
3 45 0.83
4 4 0.07
ACGTcount: A:0.27, C:0.04, G:0.03, T:0.66
Consensus pattern (3 bp):
TTA
Found at i:5120482 original size:38 final size:39
Alignment explanation
Indices: 5120429--5120531 Score: 127
Period size: 38 Copynumber: 2.6 Consensus size: 39
5120419 TTTTAAATAC
*
5120429 AATAATTTTAGAAACACGAAACTTTTGTTTAAAAAACACG
1 AATAATTTT-GAAACACGAAATTTTTGTTTAAAAAACACG
* * **
5120469 AA-AATTTTGAAACACGAGATTTTTTTTTTGAAAACACG
1 AATAATTTTGAAACACGAAATTTTTGTTTAAAAAACACG
**
5120507 AATTTTTTTGAAACACGAAATTTTT
1 AATAATTTTGAAACACGAAATTTTT
5120532 TGAAAAGACG
Statistics
Matches: 54, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
38 27 0.50
39 25 0.46
40 2 0.04
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.37
Consensus pattern (39 bp):
AATAATTTTGAAACACGAAATTTTTGTTTAAAAAACACG
Found at i:5120506 original size:22 final size:20
Alignment explanation
Indices: 5120473--5120532 Score: 72
Period size: 18 Copynumber: 3.0 Consensus size: 20
5120463 AACACGAAAA
5120473 TTTTGAAACACGAGATTTTTT
1 TTTTGAAACACGA-ATTTTTT
5120494 TTTTGAAAACACGAA---TTT
1 TTTTG-AAACACGAATTTTTT
5120512 TTTTGAAACACGAAATTTTTT
1 TTTTGAAACACG-AATTTTTT
5120533 GAAAAGACGT
Statistics
Matches: 34, Mismatches: 0, Indels: 10
0.77 0.00 0.23
Matches are distributed among these distances:
17 7 0.21
18 10 0.29
21 9 0.26
22 8 0.24
ACGTcount: A:0.33, C:0.10, G:0.12, T:0.45
Consensus pattern (20 bp):
TTTTGAAACACGAATTTTTT
Found at i:5120512 original size:17 final size:19
Alignment explanation
Indices: 5120491--5120537 Score: 73
Period size: 17 Copynumber: 2.6 Consensus size: 19
5120481 CACGAGATTT
5120491 TTTTTTTGAAAACACG-AA
1 TTTTTTTGAAAACACGAAA
5120509 TTTTTTTG-AAACACGAAA
1 TTTTTTTGAAAACACGAAA
5120527 -TTTTTTGAAAA
1 TTTTTTTGAAAA
5120538 GACGTATCGT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
17 14 0.52
18 13 0.48
ACGTcount: A:0.38, C:0.09, G:0.11, T:0.43
Consensus pattern (19 bp):
TTTTTTTGAAAACACGAAA
Found at i:5120532 original size:39 final size:38
Alignment explanation
Indices: 5120401--5120532 Score: 121
Period size: 38 Copynumber: 3.5 Consensus size: 38
5120391 TTTTTCTTTC
*
5120401 TTTGAAAACACG-AA-TTTTTTTT-AAATACA--ATAATT
1 TTTG-AAACACGAAATTTTTTTTTAAAAAACACGA-AATT
* * * *
5120436 TTAGAAACACGAAACTTTTGTTTAAAAAACACGAAAAT
1 TTTGAAACACGAAATTTTTTTTTAAAAAACACGAAATT
* ** *
5120474 TTTGAAACACGAGATTTTTTTTTTGAAAACACGAATTTT
1 TTTGAAACACGAAATTTTTTTTTAAAAAACACGAA-ATT
5120513 TTTGAAACACGAAATTTTTT
1 TTTGAAACACGAAATTTTTT
5120533 GAAAAGACGT
Statistics
Matches: 78, Mismatches: 13, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
34 7 0.09
35 5 0.06
36 7 0.09
37 6 0.08
38 32 0.41
39 21 0.27
ACGTcount: A:0.41, C:0.11, G:0.10, T:0.39
Consensus pattern (38 bp):
TTTGAAACACGAAATTTTTTTTTAAAAAACACGAAATT
Found at i:5120879 original size:13 final size:14
Alignment explanation
Indices: 5120857--5120891 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
5120847 AATTGAAATT
5120857 AAAT-TAAATA-AA
1 AAATATAAATACAA
5120869 AAATATAAATACAA
1 AAATATAAATACAA
5120883 AAATATAAA
1 AAATATAAA
5120892 AATGCATAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
12 4 0.19
13 6 0.29
14 11 0.52
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.23
Consensus pattern (14 bp):
AAATATAAATACAA
Found at i:5121039 original size:7 final size:7
Alignment explanation
Indices: 5121028--5121065 Score: 51
Period size: 7 Copynumber: 5.6 Consensus size: 7
5121018 TTGAACCTCT
*
5121028 TTTTTTT
1 TTTTTTC
5121035 TTTTTTC
1 TTTTTTC
5121042 TTTTTTC
1 TTTTTTC
*
5121049 TCTTTTC
1 TTTTTTC
5121056 TTTTTT-
1 TTTTTTC
5121062 TTTT
1 TTTT
5121066 GCTGGGTTGC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:5121374 original size:7 final size:7
Alignment explanation
Indices: 5121346--5121431 Score: 59
Period size: 7 Copynumber: 11.9 Consensus size: 7
5121336 TATTTATTTA
5121346 TTTCTTCT
1 TTTCTT-T
5121354 TTT-TTT
1 TTTCTTT
5121360 TTTCCTTT
1 TTT-CTTT
5121368 TTTCTTT
1 TTTCTTT
*
5121375 CCCTTTCTTC
1 ---TTTCTTT
*
5121385 TTTCTTC
1 TTTCTTT
5121392 TTT-TTT
1 TTTCTTT
5121398 TTTCTTT
1 TTTCTTT
*
5121405 TTTCTTC
1 TTTCTTT
*
5121412 CTTCTTT
1 TTTCTTT
*
5121419 CTTCTTT
1 TTTCTTT
*
5121426 CTTCTT
1 TTTCTT
5121432 CCTTCCCTTG
Statistics
Matches: 67, Mismatches: 5, Indels: 13
0.79 0.06 0.15
Matches are distributed among these distances:
6 9 0.13
7 43 0.64
8 9 0.13
10 6 0.09
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (7 bp):
TTTCTTT
Found at i:5121375 original size:4 final size:4
Alignment explanation
Indices: 5121346--5121428 Score: 51
Period size: 3 Copynumber: 22.5 Consensus size: 4
5121336 TATTTATTTA
*
5121346 TTTC -TTC TTT- TTTT TTTCC TTT- TTTC TTTCCC TTTC -TTC TTTC -TTC
1 TTTC TTTC TTTC TTTC TTT-C TTTC TTTC TTT--C TTTC TTTC TTTC TTTC
*
5121392 TTT- TTT- TTTC TTT- TTTC -TTC CTTC TTTC -TTC TTTC TT
1 TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TTTC TT
5121429 CTTCCTTCCC
Statistics
Matches: 65, Mismatches: 2, Indels: 24
0.71 0.02 0.26
Matches are distributed among these distances:
3 30 0.46
4 28 0.43
5 3 0.05
6 4 0.06
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTC
Found at i:5121379 original size:13 final size:13
Alignment explanation
Indices: 5121352--5121410 Score: 54
Period size: 13 Copynumber: 4.8 Consensus size: 13
5121342 TTTATTTCTT
*
5121352 CTTTTTT-TTTTC
1 CTTTTTTCTTTCC
5121364 CTTTTTTCTTTCC
1 CTTTTTTCTTTCC
* *
5121377 CTTTCTTCTTTCTT
1 CTTTTTTCTTTC-C
5121391 CTTTTTT-TTT--
1 CTTTTTTCTTTCC
5121401 CTTTTTTCTT
1 CTTTTTTCTT
5121411 CCTTCTTTCT
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
10 7 0.17
11 2 0.05
12 7 0.17
13 18 0.45
14 6 0.15
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (13 bp):
CTTTTTTCTTTCC
Found at i:5121407 original size:38 final size:37
Alignment explanation
Indices: 5121346--5121431 Score: 129
Period size: 38 Copynumber: 2.2 Consensus size: 37
5121336 TATTTATTTA
5121346 TTTCTTCTTTTTTTTTTCCTTTTTTCTTTCC-CTTTCTTC
1 TTTCTTC-TTTTTTTTT-CTTTTTTC-TTCCTCTTTCTTC
5121385 TTTCTTCTTTTTTTTTCTTTTTTCTTCCTTCTTTCTTC
1 TTTCTTCTTTTTTTTTCTTTTTTCTTCC-TCTTTCTTC
5121423 TTTCTTCTT
1 TTTCTTCTT
5121432 CCTTCCCTTG
Statistics
Matches: 45, Mismatches: 0, Indels: 5
0.90 0.00 0.10
Matches are distributed among these distances:
36 4 0.09
37 8 0.18
38 26 0.58
39 7 0.16
ACGTcount: A:0.00, C:0.24, G:0.00, T:0.76
Consensus pattern (37 bp):
TTTCTTCTTTTTTTTTCTTTTTTCTTCCTCTTTCTTC
Found at i:5121432 original size:10 final size:10
Alignment explanation
Indices: 5121379--5121432 Score: 60
Period size: 10 Copynumber: 5.6 Consensus size: 10
5121369 TTCTTTCCCT
5121379 TTCTTCTTTC
1 TTCTTCTTTC
5121389 TTCTT-TTT-
1 TTCTTCTTTC
*
5121397 TT-TTCTTTT
1 TTCTTCTTTC
*
5121406 TTCTTCCTTC
1 TTCTTCTTTC
5121416 TTTCTTCTTTC
1 -TTCTTCTTTC
5121427 TTCTTC
1 TTCTTC
5121433 CTTCCCTTGG
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
7 2 0.05
8 5 0.14
9 5 0.14
10 16 0.43
11 9 0.24
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (10 bp):
TTCTTCTTTC
Found at i:5121654 original size:20 final size:20
Alignment explanation
Indices: 5121629--5121681 Score: 97
Period size: 20 Copynumber: 2.6 Consensus size: 20
5121619 TTTGATGGTT
*
5121629 ACGGTGGTGGTGGTTGTGCG
1 ACGGTGGTGGTGGTTGCGCG
5121649 ACGGTGGTGGTGGTTGCGCG
1 ACGGTGGTGGTGGTTGCGCG
5121669 ACGGTGGTGGTGG
1 ACGGTGGTGGTGG
5121682 AGGCTTTACT
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.06, C:0.11, G:0.57, T:0.26
Consensus pattern (20 bp):
ACGGTGGTGGTGGTTGCGCG
Found at i:5121982 original size:30 final size:29
Alignment explanation
Indices: 5121948--5122045 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 29
5121938 GGGGCCAAGC
*
5121948 ATAATTTTGAGAAAATTTAGGGGTCAAAAT
1 ATAATTTT-AGAAAGTTTAGGGGTCAAAAT
* * * *
5121978 ATAATTTCA-AGAAGTTGACGGGCCAAAAAT
1 ATAATTTTAGA-AAGTTTAGGGGTC-AAAAT
* *
5122008 GTAATTTTAGGAAAGTTTAGGGGTTAAAAT
1 ATAATTTTA-GAAAGTTTAGGGGTCAAAAT
*
5122038 GTAATTTT
1 ATAATTTT
5122046 TATTTTTGTT
Statistics
Matches: 53, Mismatches: 11, Indels: 8
0.74 0.15 0.11
Matches are distributed among these distances:
28 1 0.02
29 10 0.19
30 32 0.60
31 9 0.17
32 1 0.02
ACGTcount: A:0.40, C:0.05, G:0.21, T:0.34
Consensus pattern (29 bp):
ATAATTTTAGAAAGTTTAGGGGTCAAAAT
Found at i:5125989 original size:89 final size:89
Alignment explanation
Indices: 5125836--5126319 Score: 680
Period size: 89 Copynumber: 5.4 Consensus size: 89
5125826 TATTTGAATT
* *
5125836 AGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGACCCCAGCCTTGCCTCCCTGAGTTT
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTT
* *
5125901 ACAGCGGAGCAGACTAAAAACAGC
66 GCAGCGGAGCAGACTGAAAACAGC
* * *
5125925 AGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTACCTCCCTAAGTTT
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTT
* **
5125990 GTAGCGGAGCAGACTGAAAGTAGC
66 GCAGCGGAGCAGACTGAAAACAGC
* * * *
5126014 AGATCTTGTCTTCCTGTATTGACAGCGAAGTAGATCAAAGACACCAACCTTGCCTCCATGAGTTT
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTT
*
5126079 GCAGCAGAGCAGACTGAAAACAGC
66 GCAGCGGAGCAGACTGAAAACAGC
* *
5126103 AGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTACCTCCCTGAGTTT
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTT
* * ** *
5126168 GTAGCGGACCAGACTGAAAGTAAC
66 GCAGCGGAGCAGACTGAAAACAGC
* * * *
5126192 AGATCTTGTCTTCTTGTATTGACAGCGAAATAGATCGAAGACACCAACCTTGCCTCCCTGAGTTT
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTT
* ** *
5126257 GCAACGGAATAGACTGAAAACAAC
66 GCAGCGGAGCAGACTGAAAACAGC
* *
5126281 AGATCTTGTCTTCCTGTATTGGCAGTGATGTAGATCGAA
1 AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAA
5126320 ATAACAAACC
Statistics
Matches: 345, Mismatches: 50, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
89 345 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (89 bp):
AGATCTTGTCTTCCTGTATTGGCAGCGAAGTAGATCGAAGACACCAGCCTTGCCTCCCTGAGTTT
GCAGCGGAGCAGACTGAAAACAGC
Found at i:5126341 original size:178 final size:178
Alignment explanation
Indices: 5125836--5126319 Score: 788
Period size: 178 Copynumber: 2.7 Consensus size: 178
5125826 TATTTGAATT
* * *
5125836 AGATCTTGTCTTCTTGTATTGGCAGCGAAGTAGATCGAAGACCCCAGCCTTGCCTCCCTGAGTTT
1 AGATCTTGTCTTCTTGTATTGACAGCGAAGTAGATCGAAGACACCAACCTTGCCTCCCTGAGTTT
* *
5125901 ACAGCGGAGCAGACTAAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
66 GCAGCGGAGCAGACTGAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
* * *
5125966 CACCAGCCTTACCTCCCTAAGTTTGTAGCGGAGCAGACTGAAAGTAGC
131 CACCAGCCTTACCTCCCTGAGTTTGTAGCGGACCAGACTGAAAGTAAC
* * *
5126014 AGATCTTGTCTTCCTGTATTGACAGCGAAGTAGATCAAAGACACCAACCTTGCCTCCATGAGTTT
1 AGATCTTGTCTTCTTGTATTGACAGCGAAGTAGATCGAAGACACCAACCTTGCCTCCCTGAGTTT
*
5126079 GCAGCAGAGCAGACTGAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
66 GCAGCGGAGCAGACTGAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
5126144 CACCAGCCTTACCTCCCTGAGTTTGTAGCGGACCAGACTGAAAGTAAC
131 CACCAGCCTTACCTCCCTGAGTTTGTAGCGGACCAGACTGAAAGTAAC
*
5126192 AGATCTTGTCTTCTTGTATTGACAGCGAAATAGATCGAAGACACCAACCTTGCCTCCCTGAGTTT
1 AGATCTTGTCTTCTTGTATTGACAGCGAAGTAGATCGAAGACACCAACCTTGCCTCCCTGAGTTT
* ** * * * *
5126257 GCAACGGAATAGACTGAAAACAACAGATCTTGTCTTCCTGTATTGGCAGTGATGTAGATCGAA
66 GCAGCGGAGCAGACTGAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAA
5126320 ATAACAAACC
Statistics
Matches: 282, Mismatches: 24, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
178 282 1.00
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.25
Consensus pattern (178 bp):
AGATCTTGTCTTCTTGTATTGACAGCGAAGTAGATCGAAGACACCAACCTTGCCTCCCTGAGTTT
GCAGCGGAGCAGACTGAAAACAGCAGATCTTATCTTCCTGTATTGGCAGCGAAGTAGATCGAAGA
CACCAGCCTTACCTCCCTGAGTTTGTAGCGGACCAGACTGAAAGTAAC
Found at i:5126645 original size:21 final size:21
Alignment explanation
Indices: 5126619--5126662 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
5126609 CTGTCGTTGT
*
5126619 AGTGGAATAGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
* *
5126640 AGTGGAGCGGATTAAAGCTGA
1 AGTGGAACAGATTAAAGCTGA
5126661 AG
1 AG
5126663 GCAACAAATC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.39, C:0.07, G:0.34, T:0.20
Consensus pattern (21 bp):
AGTGGAACAGATTAAAGCTGA
Found at i:5127186 original size:349 final size:349
Alignment explanation
Indices: 5126547--5127240 Score: 1262
Period size: 349 Copynumber: 2.0 Consensus size: 349
5126537 GAAGACAGCA
*
5126547 AATTTTATTACCTTGGCGCTATAGTGGAACAGATAAAGCTAAGAGTAGCGAATCTTGTTTCCCTG
1 AATTTTATTACCCTGGCGCTATAGTGGAACAGATAAAGCTAAGAGTAGCGAATCTTGTTTCCCTG
* * *
5126612 TCGTTGTAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAGCTGAAGGCAACAAATCCTAT
66 GCGTTGTAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAACTAAAGGCAACAAATCCTAT
*
5126677 CTCATTGGCGTTGAAGTAGAACAGATTAAAACTAAAGGTAGCAAACCTTGTTTCCCAAGCGTTGT
131 CTCATTGGCGTTGAAGTAGAACAGATTAAAACTAAAGGTAGCAAACCTTATTTCCCAAGCGTTGT
*
5126742 AGCGGAGCAGATTAAAGCTGAAGGCAGTAAATCTTTTCTTCCTAGCGTTAAGACTGAATGCAGCT
196 AGCGGAGCAGATTAAAGCTGAAGGCAGTAAATCTTTTCTTCCTAGCGTTAAGACTGAAGGCAGCT
5126807 AATCTTATTTCTCTGAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCTT
261 AATCTTATTTCTCTGAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCTT
*
5126872 AAAGTTGCAGTGGAGCAGACAACG
326 AAAGTTACAGTGGAGCAGACAACG
*
5126896 AATTTTATTACCCTGGCGCTATAGTGGAACAGATAAAGCTAAGGGTAGCGAATCTTGTTTCCCTG
1 AATTTTATTACCCTGGCGCTATAGTGGAACAGATAAAGCTAAGAGTAGCGAATCTTGTTTCCCTG
* * *
5126961 GCGTTGTAGTGGAATATATTAAAGCTGAAGTGGAGTGGATTAAAACTAAAGGCAGCAAATCCTAT
66 GCGTTGTAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAACTAAAGGCAACAAATCCTAT
*
5127026 CTCATTGGCGTTGCAGTAGAACAGATTAAAACTAAAGGTAGCAAACCTTATTTCCCAAGCGTTGT
131 CTCATTGGCGTTGAAGTAGAACAGATTAAAACTAAAGGTAGCAAACCTTATTTCCCAAGCGTTGT
*
5127091 AGCGGAGCAGATTAAAGCTGAAGGCAGTGAATCTTTTCTTCCTAGCGTTAAGACTGAAGGCAGCT
196 AGCGGAGCAGATTAAAGCTGAAGGCAGTAAATCTTTTCTTCCTAGCGTTAAGACTGAAGGCAGCT
*
5127156 AATCTTATTTCTTTGAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCTT
261 AATCTTATTTCTCTGAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCTT
5127221 AAAGTTACAGTGGAGCAGAC
326 AAAGTTACAGTGGAGCAGAC
5127241 TGAAGATAAA
Statistics
Matches: 331, Mismatches: 14, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
349 331 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.29
Consensus pattern (349 bp):
AATTTTATTACCCTGGCGCTATAGTGGAACAGATAAAGCTAAGAGTAGCGAATCTTGTTTCCCTG
GCGTTGTAGTGGAATAGATTAAAGCTGAAGTGGAGCGGATTAAAACTAAAGGCAACAAATCCTAT
CTCATTGGCGTTGAAGTAGAACAGATTAAAACTAAAGGTAGCAAACCTTATTTCCCAAGCGTTGT
AGCGGAGCAGATTAAAGCTGAAGGCAGTAAATCTTTTCTTCCTAGCGTTAAGACTGAAGGCAGCT
AATCTTATTTCTCTGAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCTT
AAAGTTACAGTGGAGCAGACAACG
Found at i:5127271 original size:45 final size:45
Alignment explanation
Indices: 5127169--5127374 Score: 166
Period size: 44 Copynumber: 4.5 Consensus size: 45
5127159 CTTATTTCTT
* * * *
5127169 TGAAGTTGCAGTAGAACAGATTGAAGCTATAAATTACAAATCTTATCTCCT
1 TGAAGTTGCAGTGGAGCAGATTGAAG--AT-AA--A-AAACCTTATCTCCC
* * *
5127220 TAAAGTTACAGTGGAGCAGACTGAAGATAAAAAACCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAAAAAACCTTATCTCCC
* ** *
5127265 TGAAGTTGCAGTGGAGCAGGTTGAAGAT-ACCAATCTTATCTCCC
1 TGAAGTTGCAGTGGAGCAGATTGAAGATAAAAAACCTTATCTCCC
* * ** * *
5127309 TGAAGTTGC-GATGGAGAAGATTGAAGCTATTAATCC-TATCACCC
1 TGAAGTTGCAG-TGGAGCAGATTGAAGATAAAAAACCTTATCTCCC
*
5127353 TGAAGTTGCAGTGGAACAGATT
1 TGAAGTTGCAGTGGAGCAGATT
5127375 AAAACCACGA
Statistics
Matches: 127, Mismatches: 25, Indels: 13
0.77 0.15 0.08
Matches are distributed among these distances:
43 1 0.01
44 61 0.48
45 39 0.31
46 1 0.01
48 2 0.02
49 2 0.02
51 21 0.17
ACGTcount: A:0.34, C:0.17, G:0.21, T:0.27
Consensus pattern (45 bp):
TGAAGTTGCAGTGGAGCAGATTGAAGATAAAAAACCTTATCTCCC
Found at i:5127317 original size:44 final size:44
Alignment explanation
Indices: 5127206--5127374 Score: 178
Period size: 44 Copynumber: 3.8 Consensus size: 44
5127196 TATAAATTAC
* * * *
5127206 AAATCTTATCTCCTTAAAGTTACAGTGGAGCAGACTGAAGATAAA
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-AA
* * *
5127251 AAACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGAAGATAC
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAA
* * * *
5127295 CAATCTTATCTCCCTGAAGTTGC-GATGGAGAAGATTGAAGCTAT
1 AAATCTTATCTCCCTGAAGTTGCAG-TGGAGCAGATTGAAGATAA
* * * *
5127339 TAATCCTATCACCCTGAAGTTGCAGTGGAACAGATT
1 AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATT
5127375 AAAACCACGA
Statistics
Matches: 104, Mismatches: 18, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
43 1 0.01
44 66 0.63
45 37 0.36
ACGTcount: A:0.33, C:0.19, G:0.21, T:0.27
Consensus pattern (44 bp):
AAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAA
Found at i:5128947 original size:104 final size:105
Alignment explanation
Indices: 5128808--5129017 Score: 413
Period size: 104 Copynumber: 2.0 Consensus size: 105
5128798 AATTTAATCC
5128808 CCAATCTGTTATTTTAGTCACTTTACTATTAAATTAATTTTTTAAATATTATTAATACTATCATC
1 CCAATCTGTTATTTTAGTCACTTTACTATTAAATTAATTTTTTAAATATTATTAATACTATCATC
5128873 ATTAATTTTGTATTAGCATTTATTATTATTATTATTTATT
66 ATTAATTTTGTATTAGCATTTATTATTATTATTATTTATT
5128913 CCAATCTGTTA-TTTAGTCACTTTACTATTAAATTAATTTTTTAAATATTATTAATACTATCATC
1 CCAATCTGTTATTTTAGTCACTTTACTATTAAATTAATTTTTTAAATATTATTAATACTATCATC
5128977 ATTAATTTTGTATTAGCATTTATTATTATTATTATTTATT
66 ATTAATTTTGTATTAGCATTTATTATTATTATTATTTATT
5129017 C
1 C
5129018 GTTTACACCT
Statistics
Matches: 105, Mismatches: 0, Indels: 1
0.99 0.00 0.01
Matches are distributed among these distances:
104 94 0.90
105 11 0.10
ACGTcount: A:0.32, C:0.10, G:0.04, T:0.54
Consensus pattern (105 bp):
CCAATCTGTTATTTTAGTCACTTTACTATTAAATTAATTTTTTAAATATTATTAATACTATCATC
ATTAATTTTGTATTAGCATTTATTATTATTATTATTTATT
Done.