Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr01 113035596
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: 113035596
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Warning! 271 characters in sequence are not A, C, G, or T
File 82 of 378
Found at i:22171809 original size:37 final size:37
Alignment explanation
Indices: 22171750--22171820 Score: 115
Period size: 37 Copynumber: 1.9 Consensus size: 37
22171740 AGACATCTTG
* *
22171750 TTTCGATACTAAACTGAAATAATAAGTCTAGATTTCA
1 TTTCAATACTAAACTAAAATAATAAGTCTAGATTTCA
*
22171787 TTTCAATATTAAACTAAAATAATAAGTCTAGATT
1 TTTCAATACTAAACTAAAATAATAAGTCTAGATT
22171821 CCGTTTCGAT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
37 31 1.00
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (37 bp):
TTTCAATACTAAACTAAAATAATAAGTCTAGATTTCA
Found at i:22172027 original size:24 final size:24
Alignment explanation
Indices: 22172000--22172059 Score: 59
Period size: 24 Copynumber: 2.5 Consensus size: 24
22171990 ATCTTCCAAT
* **
22172000 ATATACATATATTAAATTTATTTA
1 ATATACATATATAAAATAAATTTA
* *
22172024 ATATATAAATATAAAATAAATTTA
1 ATATACATATATAAAATAAATTTA
22172048 AT-TAGCATATAT
1 ATATA-CATATAT
22172060 GTATACATAC
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
23 2 0.07
24 26 0.93
ACGTcount: A:0.52, C:0.03, G:0.02, T:0.43
Consensus pattern (24 bp):
ATATACATATATAAAATAAATTTA
Found at i:22172608 original size:21 final size:20
Alignment explanation
Indices: 22172584--22172653 Score: 63
Period size: 21 Copynumber: 3.4 Consensus size: 20
22172574 ATCCTAACCC
22172584 CCAAACCTAGAACCTCAAACT
1 CCAAACCTAGAA-CTCAAACT
*
22172605 CCAAACTCCA-AACTCCAAACT
1 CCAAAC-CTAGAACT-CAAACT
*
22172626 CCAAA-CTTGTAACTCATAACT
1 CCAAACCTAG-AACTCA-AACT
22172647 CCAAACC
1 CCAAACC
22172654 CTTGGATCTC
Statistics
Matches: 40, Mismatches: 3, Indels: 11
0.74 0.06 0.20
Matches are distributed among these distances:
19 1 0.03
20 4 0.10
21 32 0.80
22 3 0.08
ACGTcount: A:0.41, C:0.39, G:0.03, T:0.17
Consensus pattern (20 bp):
CCAAACCTAGAACTCAAACT
Found at i:22172609 original size:7 final size:7
Alignment explanation
Indices: 22172599--22172632 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
22172589 CCTAGAACCT
22172599 CAAACTC
1 CAAACTC
22172606 CAAACTC
1 CAAACTC
22172613 CAAACTC
1 CAAACTC
22172620 CAAACTC
1 CAAACTC
22172627 CAAACT
1 CAAACT
22172633 TGTAACTCAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.44, C:0.41, G:0.00, T:0.15
Consensus pattern (7 bp):
CAAACTC
Found at i:22175377 original size:2 final size:2
Alignment explanation
Indices: 22175370--22175405 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
22175360 ACAGTAAATA
22175370 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
22175406 TGTGAGTGAT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:22178313 original size:13 final size:13
Alignment explanation
Indices: 22178295--22178321 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
22178285 TCATTTCATG
22178295 CCCAAATCTATAT
1 CCCAAATCTATAT
22178308 CCCAAATCTATAT
1 CCCAAATCTATAT
22178321 C
1 C
22178322 TTAGCGCATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.33, G:0.00, T:0.30
Consensus pattern (13 bp):
CCCAAATCTATAT
Found at i:22181250 original size:4 final size:4
Alignment explanation
Indices: 22181241--22181271 Score: 62
Period size: 4 Copynumber: 7.8 Consensus size: 4
22181231 ATCATATAAC
22181241 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTT
22181272 TTACTAAACC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (4 bp):
TTTA
Found at i:22182101 original size:13 final size:13
Alignment explanation
Indices: 22182083--22182121 Score: 53
Period size: 13 Copynumber: 3.0 Consensus size: 13
22182073 AGATATTATT
22182083 TTATTTAGTTTTA
1 TTATTTAGTTTTA
22182096 TTATTTA-TTTTA
1 TTATTTAGTTTTA
*
22182108 TTAATTTAGCTTTA
1 TT-ATTTAGTTTTA
22182122 GTATATTTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
12 7 0.30
13 12 0.52
14 4 0.17
ACGTcount: A:0.26, C:0.03, G:0.05, T:0.67
Consensus pattern (13 bp):
TTATTTAGTTTTA
Found at i:22184823 original size:68 final size:64
Alignment explanation
Indices: 22184751--22184958 Score: 197
Period size: 67 Copynumber: 3.2 Consensus size: 64
22184741 CATCATGTGT
*
22184751 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
1 ACAAGAGAGCTAC--GAGA-TAT-ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATG
22184816 TAG
62 TAG
* * * * * * *
22184819 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGT
22184884 AG
63 AG
* * * * *
22184886 ACAAGAGAGCTACGAGATAAAATG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-G
1 ACAAGAGAGCTACGAGAT-ATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
22184948 TACAAGAGAGC
1 -ACAAGAGAGC
22184959 CGAACTATAT
Statistics
Matches: 116, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
62 1 0.01
63 19 0.16
64 21 0.18
65 11 0.09
66 18 0.16
67 29 0.25
68 17 0.15
ACGTcount: A:0.32, C:0.17, G:0.29, T:0.22
Consensus pattern (64 bp):
ACAAGAGAGCTACGAGATATATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG
Found at i:22186039 original size:2 final size:2
Alignment explanation
Indices: 22186032--22186062 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
22186022 TCATGACATG
22186032 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22186063 GACTAGTCTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22192901 original size:27 final size:27
Alignment explanation
Indices: 22192853--22192957 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
22192843 GCGAGGCTGC
* *
22192853 CAGATATTGTGAC-GAAGTCACCAGATA
1 CAGATATTGTGGCAG-AGCCACCAGATA
*
22192880 CAGATATTGTGGCAGAGCCACCA-AAA
1 CAGATATTGTGGCAGAGCCACCAGATA
22192906 CAGATATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCAGAGCCACCAGATA
*
22192933 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCAGAGCCACCAG
22192958 GACGCTTCCT
Statistics
Matches: 69, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
26 9 0.13
27 56 0.81
28 4 0.06
ACGTcount: A:0.35, C:0.22, G:0.24, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCAGAGCCACCAGATA
Found at i:22197562 original size:40 final size:39
Alignment explanation
Indices: 22197482--22197626 Score: 166
Period size: 40 Copynumber: 3.7 Consensus size: 39
22197472 CCGCACCAAG
* * * * *
22197482 GCCTACGGGACTTAACCCGGATATCACGA-TTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCAC-AAT
*
22197521 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCAC-AAT
* * *
22197561 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAA-T
*
22197601 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
22197627 TTTCCAGCAT
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 25 0.27
40 66 0.73
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAT
Found at i:22197641 original size:40 final size:40
Alignment explanation
Indices: 22197513--22197664 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
22197503 TATCACGATT
* * * **
22197513 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
22197553 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
22197593 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
22197633 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
22197665 CATTCAATTT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 93 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:22205657 original size:40 final size:39
Alignment explanation
Indices: 22205577--22205721 Score: 166
Period size: 40 Copynumber: 3.7 Consensus size: 39
22205567 CCGCACCAAG
* * * * *
22205577 GCCTACGGGACTTAACCCGGATATCACGA-TTGCACAAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCAC-AAT
*
22205616 GCCTTCGGGTCTTAGCCCGGATTTAACAACTTGCACGAAT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCAC-AAT
* * *
22205656 GCCTTCGGGTCTTAGCCCGGATATAGCTACTAGCACAATT
1 GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAA-T
*
22205696 GCCTTCGGGTCTTAACCCGGATATAA
1 GCCTTCGGGTCTTAGCCCGGATATAA
22205722 TTTCCAGCAT
Statistics
Matches: 91, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
39 25 0.27
40 66 0.73
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (39 bp):
GCCTTCGGGTCTTAGCCCGGATATAACAACTTGCACAAT
Found at i:22205736 original size:40 final size:40
Alignment explanation
Indices: 22205608--22205759 Score: 171
Period size: 40 Copynumber: 3.8 Consensus size: 40
22205598 TATCACGATT
* * * **
22205608 GCACAAATGCCTTCGGGTCTTAGCCCGGATTTAACAACTT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* *
22205648 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATATAGCTACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
22205688 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
* * *
22205728 GCATAATTGTCTTCGGGGCTTAGCCCGGATAT
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATAT
22205760 CATTCAATTT
Statistics
Matches: 97, Mismatches: 13, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
39 2 0.02
40 93 0.96
41 2 0.02
ACGTcount: A:0.23, C:0.26, G:0.22, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAACTACCA
Found at i:22210631 original size:46 final size:45
Alignment explanation
Indices: 22210530--22210655 Score: 134
Period size: 46 Copynumber: 2.7 Consensus size: 45
22210520 GATGGTATGT
22210530 GAGCTAGTGTAAGACATGTCTGAGACATGCATCGGCCACATTATGAGA
1 GAGCTAGTGTAAGACATGTCTG-GACATGCATCGG-C-CATTATGAGA
* *
22210578 -A-CCAGTGTAAGACATGTCTAGGACATGCATCTG-CATTGA-GACGA
1 GAGCTAGTGTAAGACATGTCT-GGACATGCATCGGCCATT-ATGA-GA
*
22210622 GAGCTAGTGTAAGACATGTATGGGACATGCATCG
1 GAGCTAGTGTAAGACATGTCT-GGACATGCATCG
22210656 TCCTTGGGAT
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
43 6 0.09
44 3 0.04
45 1 0.01
46 55 0.82
47 2 0.03
ACGTcount: A:0.31, C:0.18, G:0.28, T:0.23
Consensus pattern (45 bp):
GAGCTAGTGTAAGACATGTCTGGACATGCATCGGCCATTATGAGA
Found at i:22212015 original size:21 final size:20
Alignment explanation
Indices: 22211990--22212028 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
22211980 TCGACAGAGG
*
22211990 CACACGGGCGTGTTGCCCTTC
1 CACACAGGCGTG-TGCCCTTC
22212011 CACACAGGCGTGTGCCCT
1 CACACAGGCGTGTGCCCT
22212029 ATTTTAAGTG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 6 0.35
21 11 0.65
ACGTcount: A:0.13, C:0.38, G:0.28, T:0.21
Consensus pattern (20 bp):
CACACAGGCGTGTGCCCTTC
Found at i:22214193 original size:20 final size:20
Alignment explanation
Indices: 22214168--22214216 Score: 55
Period size: 19 Copynumber: 2.5 Consensus size: 20
22214158 TAGGGATCAA
22214168 TTTGAAACAAAATAGAAAAC
1 TTTGAAACAAAATAGAAAAC
* * *
22214188 TTTGAAA-AAACTTGAAAAT
1 TTTGAAACAAAATAGAAAAC
22214207 TTTAGAAACA
1 TTT-GAAACA
22214217 GGGGTCACAG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 12 0.50
20 11 0.46
21 1 0.04
ACGTcount: A:0.55, C:0.08, G:0.10, T:0.27
Consensus pattern (20 bp):
TTTGAAACAAAATAGAAAAC
Found at i:22215826 original size:24 final size:24
Alignment explanation
Indices: 22215793--22215839 Score: 67
Period size: 24 Copynumber: 2.0 Consensus size: 24
22215783 ATTGATATAA
* **
22215793 TGGTATCCTTTTTGACCTTTTCAT
1 TGGTAACCTTTTCAACCTTTTCAT
22215817 TGGTAACCTTTTCAACCTTTTCA
1 TGGTAACCTTTTCAACCTTTTCA
22215840 CTGTTTTGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.17, C:0.23, G:0.11, T:0.49
Consensus pattern (24 bp):
TGGTAACCTTTTCAACCTTTTCAT
Found at i:22216727 original size:13 final size:13
Alignment explanation
Indices: 22216709--22216740 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
22216699 TTGACTCATA
22216709 AATATTAATTAAT
1 AATATTAATTAAT
22216722 AATATTAATTAAT
1 AATATTAATTAAT
22216735 AATATT
1 AATATT
22216741 TATGAACTCA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (13 bp):
AATATTAATTAAT
Found at i:22220441 original size:2 final size:2
Alignment explanation
Indices: 22220434--22220466 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
22220424 TCTAAACATT
22220434 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22220467 CAAATCAAAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:22222003 original size:21 final size:21
Alignment explanation
Indices: 22221973--22222013 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
22221963 GAAATGTTAA
*
22221973 TATGATTTGTATTACTACGCT
1 TATGAGTTGTATTACTACGCT
*
22221994 TATGAGTTGTATTCCTACGC
1 TATGAGTTGTATTACTACGC
22222014 CATTAGTGAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.17, G:0.17, T:0.44
Consensus pattern (21 bp):
TATGAGTTGTATTACTACGCT
Found at i:22225496 original size:30 final size:30
Alignment explanation
Indices: 22225460--22225519 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
22225450 TTATTCATCA
22225460 TTGGAAA-ATTAAGAAAATAAA-AGGATAAAT
1 TTGGAAAGA-TAA-AAAATAAAGAGGATAAAT
*
22225490 TTGGAAAGATAAAAAATAAAGATGATAAAT
1 TTGGAAAGATAAAAAATAAAGAGGATAAAT
22225520 AATAAAATAA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
29 8 0.30
30 18 0.67
31 1 0.04
ACGTcount: A:0.60, C:0.00, G:0.17, T:0.23
Consensus pattern (30 bp):
TTGGAAAGATAAAAAATAAAGAGGATAAAT
Found at i:22225512 original size:13 final size:14
Alignment explanation
Indices: 22225494--22225534 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
22225484 ATAAATTTGG
22225494 AAAGATAAAA-AAT
1 AAAGATAAAATAAT
22225507 AAAGATGATAAATAAT
1 AAAGAT-A-AAATAAT
22225523 AAA-ATAAAATAA
1 AAAGATAAAATAA
22225535 AATATAATCA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 12 0.48
14 2 0.08
15 5 0.20
16 6 0.24
ACGTcount: A:0.73, C:0.00, G:0.07, T:0.20
Consensus pattern (14 bp):
AAAGATAAAATAAT
Found at i:22226474 original size:24 final size:25
Alignment explanation
Indices: 22226422--22226468 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22226412 TAGCTCTCAT
* *
22226422 GAGCTTCCCGTTATATAGTTCTTGC
1 GAGCTTCCCATTATATAGCTCTTGC
22226447 GAGCTTCCCATTA-ATAGCTCTT
1 GAGCTTCCCATTATATAGCTCTT
22226469 CGGAGCATCC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 8 0.40
25 12 0.60
ACGTcount: A:0.19, C:0.26, G:0.17, T:0.38
Consensus pattern (25 bp):
GAGCTTCCCATTATATAGCTCTTGC
Found at i:22227980 original size:42 final size:42
Alignment explanation
Indices: 22227869--22228011 Score: 153
Period size: 44 Copynumber: 3.3 Consensus size: 42
22227859 TTTCGATATG
* * *
22227869 TGATTTCGTGTAAGACTATGTCTGGGAAATTGGCATAG-ATT
1 TGATTTCATGTAAGACCATGTCTGGGACATTGGCATAGTATT
* *
22227910 TGAGATTTGCGTGTAAGACCATGTCTGGGACATTGGCATTGTATT
1 T--GATTT-CATGTAAGACCATGTCTGGGACATTGGCATAGTATT
* * * *
22227955 TGATTTCATGTAAAACCCTGTCTGGGACAGTGGCATCGATATT
1 TGATTTCATGTAAGACCATGTCTGGGACATTGGCATAG-TATT
*
22227998 TGATTACATGTAAG
1 TGATTTCATGTAAG
22228012 GCTACATCTA
Statistics
Matches: 87, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
41 1 0.01
42 27 0.31
43 26 0.30
44 29 0.33
45 4 0.05
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (42 bp):
TGATTTCATGTAAGACCATGTCTGGGACATTGGCATAGTATT
Found at i:22227999 original size:43 final size:43
Alignment explanation
Indices: 22227861--22228011 Score: 162
Period size: 43 Copynumber: 3.5 Consensus size: 43
22227851 ATATAGGATT
* * * *
22227861 TCGATATGTGATTTCGTGTAAGACTATGTCTGGGAAATTGGCA
1 TCGATATTTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
* * *
22227904 TAGAT-TTGAGATTTGCGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATT-TGATTT-CATGTAAGACCATGTCTGGGACATTGGCA
* * * *
22227948 TTG-TATTTGATTTCATGTAAAACCCTGTCTGGGACAGTGGCA
1 TCGATATTTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
*
22227990 TCGATATTTGATTACATGTAAG
1 TCGATATTTGATTTCATGTAAG
22228012 GCTACATCTA
Statistics
Matches: 90, Mismatches: 14, Indels: 8
0.80 0.12 0.07
Matches are distributed among these distances:
42 28 0.31
43 31 0.34
44 31 0.34
ACGTcount: A:0.26, C:0.13, G:0.26, T:0.35
Consensus pattern (43 bp):
TCGATATTTGATTTCATGTAAGACCATGTCTGGGACATTGGCA
Found at i:22235650 original size:43 final size:43
Alignment explanation
Indices: 22235513--22235684 Score: 147
Period size: 43 Copynumber: 4.0 Consensus size: 43
22235503 CATAGGATTC
* *
22235513 CGATATATGATTTCGTGTAAGA-CCAGATCTGGGACGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACCCTG-TCTGGGACGTTGGCAT
* * * * * * *
22235556 CGAT-TTGAGATTTATGTGTAAGGCCATGTCTGGTACATTAGCAT
1 CGATATT-TGATTT-CGTGTAAGACCCTGTCTGGGACGTTGGCAT
22235600 CG-TATTTGATTTCGTGTAAGACCCTGTCTGGGACAG-TGGCAT
1 CGATATTTGATTTCGTGTAAGACCCTGTCTGGGAC-GTTGGCAT
* * * *
22235642 TGATATTTGATTACATGTAAGACCAC-GTTTGGGACGTTGGCAT
1 CGATATTTGATTTCGTGTAAGACC-CTGTCTGGGACGTTGGCAT
22235685 TGTACGAGCG
Statistics
Matches: 101, Mismatches: 20, Indels: 16
0.74 0.15 0.12
Matches are distributed among these distances:
42 26 0.26
43 48 0.48
44 25 0.25
45 2 0.02
ACGTcount: A:0.24, C:0.16, G:0.27, T:0.34
Consensus pattern (43 bp):
CGATATTTGATTTCGTGTAAGACCCTGTCTGGGACGTTGGCAT
Found at i:22237459 original size:58 final size:58
Alignment explanation
Indices: 22237386--22237503 Score: 236
Period size: 58 Copynumber: 2.0 Consensus size: 58
22237376 TACTTGAATG
22237386 TGGAACTTGCTTGATGACCCTGTTCATCCATGATCAATGGCTATTATATGTGATTATA
1 TGGAACTTGCTTGATGACCCTGTTCATCCATGATCAATGGCTATTATATGTGATTATA
22237444 TGGAACTTGCTTGATGACCCTGTTCATCCATGATCAATGGCTATTATATGTGATTATA
1 TGGAACTTGCTTGATGACCCTGTTCATCCATGATCAATGGCTATTATATGTGATTATA
22237502 TG
1 TG
22237504 ACTAACATGA
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 60 1.00
ACGTcount: A:0.25, C:0.17, G:0.19, T:0.38
Consensus pattern (58 bp):
TGGAACTTGCTTGATGACCCTGTTCATCCATGATCAATGGCTATTATATGTGATTATA
Found at i:22244624 original size:24 final size:24
Alignment explanation
Indices: 22244597--22244648 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
22244587 CTCTCCGGAG
* * *
22244597 CTTCTATATATTGGCTCACTTGAA
1 CTTCTAGATACTGGCTCACATGAA
* *
22244621 CTTCTCGATACTGGCTCACATGAG
1 CTTCTAGATACTGGCTCACATGAA
22244645 CTTC
1 CTTC
22244649 CCATTATATG
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.21, C:0.27, G:0.15, T:0.37
Consensus pattern (24 bp):
CTTCTAGATACTGGCTCACATGAA
Found at i:22245316 original size:2 final size:2
Alignment explanation
Indices: 22245309--22245334 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
22245299 GTGCATTTTA
22245309 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
22245335 GTCATTATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22250550 original size:16 final size:16
Alignment explanation
Indices: 22250529--22250559 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
22250519 AAGTGAAAAA
*
22250529 TCCTATTAATTGTTTT
1 TCCTATTAACTGTTTT
22250545 TCCTATTAACTGTTT
1 TCCTATTAACTGTTT
22250560 CAGGCTAAGT
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:0.19, C:0.16, G:0.06, T:0.58
Consensus pattern (16 bp):
TCCTATTAACTGTTTT
Found at i:22264708 original size:21 final size:20
Alignment explanation
Indices: 22264684--22264748 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
22264674 AAGTCTAGCT
22264684 GAAGCACATAAGTGCTAAACG
1 GAAGCACA-AAGTGCTAAACG
* *
22264705 GAAGCCCAAAG-GCT-AACT
1 GAAGCACAAAGTGCTAAACG
*
22264723 AAAGCACACAAGTGCTAAACG
1 GAAGCACA-AAGTGCTAAACG
22264744 GAAGC
1 GAAGC
22264749 CCGAAGGCTA
Statistics
Matches: 35, Mismatches: 6, Indels: 6
0.74 0.13 0.13
Matches are distributed among these distances:
18 9 0.26
19 6 0.17
20 6 0.17
21 14 0.40
ACGTcount: A:0.43, C:0.23, G:0.23, T:0.11
Consensus pattern (20 bp):
GAAGCACAAAGTGCTAAACG
Found at i:22264739 original size:39 final size:39
Alignment explanation
Indices: 22264685--22264766 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
22264675 AGTCTAGCTG
*
22264685 AAGCACATAAGTGCTAAACGGAAGCCCAAAGGCTAACTA
1 AAGCACACAAGTGCTAAACGGAAGCCCAAAGGCTAACTA
* *
22264724 AAGCACACAAGTGCTAAACGGAAGCCCGAAGGCTAACTG
1 AAGCACACAAGTGCTAAACGGAAGCCCAAAGGCTAACTA
22264763 AAGC
1 AAGC
22264767 TCATCAGAGC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.41, C:0.24, G:0.23, T:0.11
Consensus pattern (39 bp):
AAGCACACAAGTGCTAAACGGAAGCCCAAAGGCTAACTA
Found at i:22266978 original size:15 final size:15
Alignment explanation
Indices: 22266940--22266981 Score: 57
Period size: 15 Copynumber: 2.8 Consensus size: 15
22266930 GAAGCCCAGA
22266940 ATAAGGAAATCCAAG
1 ATAAGGAAATCCAAG
* *
22266955 ATAAAGAAATCCATG
1 ATAAGGAAATCCAAG
*
22266970 ATAGGGAAATCC
1 ATAAGGAAATCC
22266982 TATTTACAGC
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
15 23 1.00
ACGTcount: A:0.50, C:0.14, G:0.19, T:0.17
Consensus pattern (15 bp):
ATAAGGAAATCCAAG
Found at i:22270295 original size:19 final size:19
Alignment explanation
Indices: 22270227--22270328 Score: 77
Period size: 18 Copynumber: 5.4 Consensus size: 19
22270217 ACATCGTGAT
* *
22270227 CTGAAGCTCGAAGT-CTAA
1 CTGAAGCCCAAAGTGCTAA
* *
22270245 CTGAAGCACACAAGTTCTAA
1 CTGAAGCCCA-AAGTGCTAA
*
22270265 ATGGAAGCCCAAAG-GCTAA
1 CT-GAAGCCCAAAGTGCTAA
22270284 CTGAAGCACC-AAGTGCTAAA
1 CTGAAGC-CCAAAGTGCT-AA
* *
22270304 CGGAAGCCCGAAG-GCTAA
1 CTGAAGCCCAAAGTGCTAA
22270322 CTGAAGC
1 CTGAAGC
22270329 TCATCAGAGC
Statistics
Matches: 69, Mismatches: 8, Indels: 14
0.76 0.09 0.15
Matches are distributed among these distances:
18 24 0.35
19 19 0.28
20 19 0.28
21 7 0.10
ACGTcount: A:0.37, C:0.25, G:0.24, T:0.15
Consensus pattern (19 bp):
CTGAAGCCCAAAGTGCTAA
Found at i:22270309 original size:38 final size:39
Alignment explanation
Indices: 22270241--22270328 Score: 142
Period size: 38 Copynumber: 2.3 Consensus size: 39
22270231 AGCTCGAAGT
* *
22270241 CTAACTGAAGCACACAAGTTCTAAATGGAAGCCCAAAGG
1 CTAACTGAAGCACACAAGTGCTAAACGGAAGCCCAAAGG
*
22270280 CTAACTGAAGCAC-CAAGTGCTAAACGGAAGCCCGAAGG
1 CTAACTGAAGCACACAAGTGCTAAACGGAAGCCCAAAGG
22270318 CTAACTGAAGC
1 CTAACTGAAGC
22270329 TCATCAGAGC
Statistics
Matches: 46, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
38 33 0.72
39 13 0.28
ACGTcount: A:0.39, C:0.25, G:0.23, T:0.14
Consensus pattern (39 bp):
CTAACTGAAGCACACAAGTGCTAAACGGAAGCCCAAAGG
Found at i:22271793 original size:2 final size:2
Alignment explanation
Indices: 22271786--22271830 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
22271776 CGTTCCTTTC
22271786 AT AT AT AT AT AT 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 AT AT AT AT AT AT
22271828 AT A
1 AT A
22271831 CTAATTATCC
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:22275545 original size:4 final size:4
Alignment explanation
Indices: 22275536--22277037 Score: 3004
Period size: 4 Copynumber: 375.5 Consensus size: 4
22275526 AGGAGTTGCA
22275536 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22275584 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22275632 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22275680 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22275728 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22275776 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22275824 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22275872 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22275920 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22275968 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276016 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276064 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276112 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276160 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276208 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276256 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276304 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276352 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276400 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276448 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276496 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276544 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276592 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276640 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276688 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276736 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276784 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276832 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276880 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276928 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22276976 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
1 GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT GTAT
22277024 GTAT GTAT GTAT GT
1 GTAT GTAT GTAT GT
22277038 GTTTGTGTGA
Statistics
Matches: 1498, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 1498 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
GTAT
Found at i:22282348 original size:15 final size:15
Alignment explanation
Indices: 22282328--22282360 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
22282318 GCATAATAAA
22282328 AATTAACTTGAAAAT
1 AATTAACTTGAAAAT
22282343 AATTAACTTGAAAAT
1 AATTAACTTGAAAAT
22282358 AAT
1 AAT
22282361 ATAATTTATG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.55, C:0.06, G:0.06, T:0.33
Consensus pattern (15 bp):
AATTAACTTGAAAAT
Found at i:22282361 original size:18 final size:16
Alignment explanation
Indices: 22282322--22282360 Score: 55
Period size: 15 Copynumber: 2.6 Consensus size: 16
22282312 CCCATTGCAT
*
22282322 AATAAAAATTAACTTG
1 AATAATAATTAACTTG
22282338 AA-AATAATTAACTTG
1 AATAATAATTAACTTG
22282353 AA-AATAAT
1 AATAATAAT
22282361 ATAATTTATG
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
15 20 0.91
16 2 0.09
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (16 bp):
AATAATAATTAACTTG
Found at i:22282979 original size:16 final size:16
Alignment explanation
Indices: 22282958--22282991 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
22282948 AACCGCCAGA
22282958 GCCAATATAAGAATCT
1 GCCAATATAAGAATCT
* *
22282974 GCCAATATTAGTATCT
1 GCCAATATAAGAATCT
22282990 GC
1 GC
22282992 ATGTATAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.21, G:0.15, T:0.29
Consensus pattern (16 bp):
GCCAATATAAGAATCT
Found at i:22291946 original size:45 final size:45
Alignment explanation
Indices: 22291882--22291971 Score: 162
Period size: 45 Copynumber: 2.0 Consensus size: 45
22291872 CATCAATAAG
22291882 AGGTATGTTGATTTTTACCTTTCAAAAGTTGTCGAGGATCTTCTT
1 AGGTATGTTGATTTTTACCTTTCAAAAGTTGTCGAGGATCTTCTT
* *
22291927 AGGTATGTTGATTTTTACCTTTCGAAAGTTGTCGAGTATCTTCTT
1 AGGTATGTTGATTTTTACCTTTCAAAAGTTGTCGAGGATCTTCTT
22291972 CTCTTTTAAC
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.21, C:0.13, G:0.20, T:0.46
Consensus pattern (45 bp):
AGGTATGTTGATTTTTACCTTTCAAAAGTTGTCGAGGATCTTCTT
Found at i:22293843 original size:12 final size:12
Alignment explanation
Indices: 22293828--22293858 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
22293818 ATAAATAATT
22293828 AATTAAATTAGA
1 AATTAAATTAGA
*
22293840 AATTAAATTGGA
1 AATTAAATTAGA
22293852 AATTAAA
1 AATTAAA
22293859 CTCAAATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.58, C:0.00, G:0.10, T:0.32
Consensus pattern (12 bp):
AATTAAATTAGA
Found at i:22303333 original size:13 final size:13
Alignment explanation
Indices: 22303317--22303371 Score: 65
Period size: 13 Copynumber: 4.1 Consensus size: 13
22303307 ATTTTAAATC
*
22303317 AAAATTTTTTAAA
1 AAAACTTTTTAAA
*
22303330 AAAACTTTTCAAA
1 AAAACTTTTTAAA
22303343 AATATACTTTTTAAA
1 AA-A-ACTTTTTAAA
*
22303358 AATACTTTTTAAA
1 AAAACTTTTTAAA
22303371 A
1 A
22303372 GCATTAACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
13 24 0.67
14 1 0.03
15 11 0.31
ACGTcount: A:0.51, C:0.07, G:0.00, T:0.42
Consensus pattern (13 bp):
AAAACTTTTTAAA
Found at i:22304596 original size:24 final size:26
Alignment explanation
Indices: 22304550--22304602 Score: 74
Period size: 24 Copynumber: 2.1 Consensus size: 26
22304540 TTTATTTTGG
*
22304550 TTAGTGAAAGTCAATTGAGTTTT-TT
1 TTAGTGAAAGACAATTGAGTTTTGTT
*
22304575 TTAGTG-AAGACAATTGATTTTTGTT
1 TTAGTGAAAGACAATTGAGTTTTGTT
22304600 TTA
1 TTA
22304603 CCCTAATGGG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 14 0.56
25 11 0.44
ACGTcount: A:0.28, C:0.04, G:0.19, T:0.49
Consensus pattern (26 bp):
TTAGTGAAAGACAATTGAGTTTTGTT
Found at i:22305945 original size:16 final size:16
Alignment explanation
Indices: 22305924--22305955 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
22305914 GTTCTGTTGA
22305924 GACCCATCTCTTCCAT
1 GACCCATCTCTTCCAT
22305940 GACCCATCTCTTCCAT
1 GACCCATCTCTTCCAT
22305956 TGATGTCCTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.19, C:0.44, G:0.06, T:0.31
Consensus pattern (16 bp):
GACCCATCTCTTCCAT
Found at i:22324456 original size:30 final size:31
Alignment explanation
Indices: 22324422--22324479 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 31
22324412 ATAAATTAAA
22324422 ATTTTAATAGAAAT-AACTAATTTACTCTTT
1 ATTTTAATAGAAATAAACTAATTTACTCTTT
* * *
22324452 ATTTTAATATACATAAATTAATTTACTC
1 ATTTTAATAGAAATAAACTAATTTACTC
22324480 ACTTTTTTAA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
30 12 0.50
31 12 0.50
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (31 bp):
ATTTTAATAGAAATAAACTAATTTACTCTTT
Found at i:22326071 original size:15 final size:15
Alignment explanation
Indices: 22326046--22326080 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
22326036 ATTAGATAGG
22326046 AAAGA-AAAGAAAGA
1 AAAGAGAAAGAAAGA
*
22326060 AAAGAGAAAGAAATA
1 AAAGAGAAAGAAAGA
22326075 AAAGAG
1 AAAGAG
22326081 GAGAAAGACG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 5 0.26
15 14 0.74
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.03
Consensus pattern (15 bp):
AAAGAGAAAGAAAGA
Found at i:22327688 original size:21 final size:21
Alignment explanation
Indices: 22327664--22327703 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
22327654 AAATGTGGTG
22327664 ATGTTTACCTTTTGTGACGAC
1 ATGTTTACCTTTTGTGACGAC
22327685 ATGTTTACCTTTTGTGACG
1 ATGTTTACCTTTTGTGACG
22327704 GCATATACGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.17, C:0.17, G:0.20, T:0.45
Consensus pattern (21 bp):
ATGTTTACCTTTTGTGACGAC
Found at i:22333013 original size:39 final size:39
Alignment explanation
Indices: 22332966--22333097 Score: 210
Period size: 39 Copynumber: 3.4 Consensus size: 39
22332956 TATATAAGAT
22332966 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
*
22333005 TGGAAATATATCCGGACATGAGGTTCGCAGGCTATATGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
* * **
22333044 TGGAAATATATCCGGACTTGAGGTCCACAGGCTACGTGC
1 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
*
22333083 TGGAAAAATATCCGG
1 TGGAAATATATCCGG
22333098 GTTAAAGACC
Statistics
Matches: 86, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 86 1.00
ACGTcount: A:0.29, C:0.20, G:0.28, T:0.23
Consensus pattern (39 bp):
TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGC
Found at i:22333112 original size:78 final size:78
Alignment explanation
Indices: 22332966--22333115 Score: 185
Period size: 78 Copynumber: 1.9 Consensus size: 78
22332956 TATATAAGAT
* * * * ***
22332966 TGGAAATATATCCGGACATGAGGTCCGCAGGCTATATGCTGGAAATATATCCGGACATGAGGTTC
1 TGGAAATATATCCGGACATGAGGTCCACAGGCTACATGCTGGAAAAATATCCGGACATAAGACCC
22333031 GCAGGCTATATGC
66 GCAGGCTATATGC
* * **
22333044 TGGAAATATATCCGGACTTGAGGTCCACAGGCTACGTGCTGGAAAAATATCCGG-GTTAAAGACC
1 TGGAAATATATCCGGACATGAGGTCCACAGGCTACATGCTGGAAAAATATCCGGACAT-AAGACC
22333108 CGCAGGCT
65 CGCAGGCT
22333116 TACGCTAGTA
Statistics
Matches: 60, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
77 1 0.02
78 59 0.98
ACGTcount: A:0.29, C:0.21, G:0.28, T:0.23
Consensus pattern (78 bp):
TGGAAATATATCCGGACATGAGGTCCACAGGCTACATGCTGGAAAAATATCCGGACATAAGACCC
GCAGGCTATATGC
Found at i:22333309 original size:2 final size:2
Alignment explanation
Indices: 22333304--22333333 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22333294 TCAAAAAATG
22333304 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
22333334 GTGTGTGTGT
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:22336799 original size:11 final size:11
Alignment explanation
Indices: 22336783--22336825 Score: 54
Period size: 11 Copynumber: 4.1 Consensus size: 11
22336773 ACCTCGTGAA
22336783 AATATATTAAT
1 AATATATTAAT
*
22336794 AATATATAAAT
1 AATATATTAAT
22336805 -A-ATATTAAT
1 AATATATTAAT
*
22336814 AATATAATAAT
1 AATATATTAAT
22336825 A
1 A
22336826 TAGAAAGAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
9 7 0.26
10 2 0.07
11 18 0.67
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (11 bp):
AATATATTAAT
Found at i:22336825 original size:20 final size:20
Alignment explanation
Indices: 22336782--22336819 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
22336772 AACCTCGTGA
22336782 AAAT-ATATTAATAATATAT
1 AAATAATATTAATAATATAT
22336801 AAATAATATTAATAATATA
1 AAATAATATTAATAATATA
22336820 ATAATATAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.22
20 14 0.78
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (20 bp):
AAATAATATTAATAATATAT
Found at i:22344460 original size:25 final size:25
Alignment explanation
Indices: 22344431--22344478 Score: 87
Period size: 25 Copynumber: 1.9 Consensus size: 25
22344421 AATTAGACCA
*
22344431 AAACCATCTACATTTAAAACTACTG
1 AAACCAACTACATTTAAAACTACTG
22344456 AAACCAACTACATTTAAAACTAC
1 AAACCAACTACATTTAAAACTAC
22344479 CATACCATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.48, C:0.25, G:0.02, T:0.25
Consensus pattern (25 bp):
AAACCAACTACATTTAAAACTACTG
Found at i:22357814 original size:18 final size:18
Alignment explanation
Indices: 22357793--22357830 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
22357783 ACCCATGAAG
22357793 TTTTGCATTTTATTCAAC
1 TTTTGCATTTTATTCAAC
22357811 TTTTGCATTTTATTCAAC
1 TTTTGCATTTTATTCAAC
22357829 TT
1 TT
22357831 AATCCCTAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.16, G:0.05, T:0.58
Consensus pattern (18 bp):
TTTTGCATTTTATTCAAC
Found at i:22366835 original size:15 final size:15
Alignment explanation
Indices: 22366815--22366844 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
22366805 CATTATTAGA
22366815 TCTATTTTTGTTTGG
1 TCTATTTTTGTTTGG
22366830 TCTATTTTTGTTTGG
1 TCTATTTTTGTTTGG
22366845 ACATAGATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.07, C:0.07, G:0.20, T:0.67
Consensus pattern (15 bp):
TCTATTTTTGTTTGG
Found at i:22373189 original size:38 final size:38
Alignment explanation
Indices: 22373134--22373213 Score: 142
Period size: 38 Copynumber: 2.1 Consensus size: 38
22373124 TAGTTACAAA
*
22373134 AAATTTTAAATAATTATATGTAGGATGATAAAAGAAAT
1 AAATTATAAATAATTATATGTAGGATGATAAAAGAAAT
*
22373172 AAATTATAAATAGTTATATGTAGGATGATAAAAGAAAT
1 AAATTATAAATAATTATATGTAGGATGATAAAAGAAAT
22373210 AAAT
1 AAAT
22373214 GATTCAATGT
Statistics
Matches: 40, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.54, C:0.00, G:0.14, T:0.33
Consensus pattern (38 bp):
AAATTATAAATAATTATATGTAGGATGATAAAAGAAAT
Found at i:22377208 original size:2 final size:2
Alignment explanation
Indices: 22377201--22377225 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
22377191 CCAAATAATG
22377201 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
22377226 GTTCTAGAAA
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:22378381 original size:7 final size:7
Alignment explanation
Indices: 22378366--22378397 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
22378356 AAAAATTATA
*
22378366 AAAAAAT
1 AAAATAT
22378373 AAAATAT
1 AAAATAT
22378380 AAAATAT
1 AAAATAT
22378387 AAAATAT
1 AAAATAT
22378394 AAAA
1 AAAA
22378398 AGTTCATAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (7 bp):
AAAATAT
Found at i:22381185 original size:51 final size:51
Alignment explanation
Indices: 22381089--22381185 Score: 115
Period size: 51 Copynumber: 1.9 Consensus size: 51
22381079 CGGTATATGA
* * **
22381089 TGTAAGACCGTAGATGAAAGACGCTATGGCAATCTAGTATGAGGTACGTAG
1 TGTAAGACCATAGATGAAAGACGCGATGGCAATCTAGTACAAGGTACGTAG
* * *
22381140 TGTAAGATCATAGATGAAAGACGCGATGTCAA-CATGGTACAAGGTA
1 TGTAAGACCATAGATGAAAGACGCGATGGCAATC-TAGTACAAGGTA
22381186 TAAGATATAC
Statistics
Matches: 38, Mismatches: 7, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
50 1 0.03
51 37 0.97
ACGTcount: A:0.36, C:0.13, G:0.28, T:0.23
Consensus pattern (51 bp):
TGTAAGACCATAGATGAAAGACGCGATGGCAATCTAGTACAAGGTACGTAG
Found at i:22385087 original size:18 final size:18
Alignment explanation
Indices: 22385064--22385106 Score: 61
Period size: 18 Copynumber: 2.4 Consensus size: 18
22385054 AAATAATTAC
22385064 GTAAGC-AATGAATGCTTA
1 GTAAGCTAA-GAATGCTTA
*
22385082 GTAAGCTCAGAATGCTTA
1 GTAAGCTAAGAATGCTTA
22385100 GTAAGCT
1 GTAAGCT
22385107 CATATAAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 22 0.96
19 1 0.04
ACGTcount: A:0.35, C:0.14, G:0.23, T:0.28
Consensus pattern (18 bp):
GTAAGCTAAGAATGCTTA
Found at i:22385107 original size:18 final size:18
Alignment explanation
Indices: 22385073--22385108 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22385063 CGTAAGCAAT
22385073 GAATGCTTAGTAAGCTCA
1 GAATGCTTAGTAAGCTCA
22385091 GAATGCTTAGTAAGCTCA
1 GAATGCTTAGTAAGCTCA
22385109 TATAAACTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.33, C:0.17, G:0.22, T:0.28
Consensus pattern (18 bp):
GAATGCTTAGTAAGCTCA
Found at i:22385814 original size:35 final size:35
Alignment explanation
Indices: 22385752--22385833 Score: 119
Period size: 35 Copynumber: 2.3 Consensus size: 35
22385742 AATCTAACTG
22385752 AAACACACCAGATGCTCATAAGAGCTAATCCATCCC
1 AAACACACCA-ATGCTCATAAGAGCTAATCCATCCC
* * **
22385788 AAACACACCAATGCTCATAAGGGCTAATCCCTCTG
1 AAACACACCAATGCTCATAAGAGCTAATCCATCCC
22385823 AAACACACCAA
1 AAACACACCAA
22385834 AACATAGAGT
Statistics
Matches: 42, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
35 32 0.76
36 10 0.24
ACGTcount: A:0.40, C:0.33, G:0.11, T:0.16
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCATCCC
Found at i:22387184 original size:28 final size:29
Alignment explanation
Indices: 22387129--22387185 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
22387119 TACAAGGGTT
*
22387129 TTCACATGACCAAGCACACGCCTGTGTCC
1 TTCACACGACCAAGCACACGCCTGTGTCC
*
22387158 TTCACACGACCTAGACACAC-CC-GTGTCC
1 TTCACACGACCAAG-CACACGCCTGTGTCC
22387186 AAAAACCCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 14 0.56
30 5 0.20
ACGTcount: A:0.25, C:0.40, G:0.16, T:0.19
Consensus pattern (29 bp):
TTCACACGACCAAGCACACGCCTGTGTCC
Found at i:22389968 original size:12 final size:12
Alignment explanation
Indices: 22389951--22389982 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
22389941 ATATAACTTT
22389951 AATATTTATTAA
1 AATATTTATTAA
*
22389963 AATATTTATTAC
1 AATATTTATTAA
22389975 AATATTTA
1 AATATTTA
22389983 CAGCTCGGTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.50
Consensus pattern (12 bp):
AATATTTATTAA
Found at i:22392083 original size:20 final size:19
Alignment explanation
Indices: 22392049--22392087 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
22392039 ATGTTTTCAC
*
22392049 ATTTGAATTTTATATTTTG
1 ATTTGAATGTTATATTTTG
22392068 ATTTGTAATGTTATATTTTG
1 ATTTG-AATGTTATATTTTG
22392088 GAATAAAATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.26, C:0.00, G:0.13, T:0.62
Consensus pattern (19 bp):
ATTTGAATGTTATATTTTG
Found at i:22392153 original size:16 final size:16
Alignment explanation
Indices: 22392132--22392202 Score: 97
Period size: 16 Copynumber: 4.4 Consensus size: 16
22392122 GTTTGGTTCA
*
22392132 CTGTAATGGAATAGGG
1 CTGTAATGGAATAGAG
*
22392148 CTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
* *
22392164 TTGTAATTGAATAGAG
1 CTGTAATGGAATAGAG
22392180 CTGTAATGGAATAGAG
1 CTGTAATGGAATAGAG
*
22392196 ATGTAAT
1 CTGTAAT
22392203 AAGTAATTCA
Statistics
Matches: 49, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 49 1.00
ACGTcount: A:0.37, C:0.04, G:0.28, T:0.31
Consensus pattern (16 bp):
CTGTAATGGAATAGAG
Found at i:22392884 original size:18 final size:18
Alignment explanation
Indices: 22392861--22392896 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
22392851 ACGTGGTAGT
22392861 CCAACTAGATTTTAAGTA
1 CCAACTAGATTTTAAGTA
22392879 CCAACTAGATTTTAAGTA
1 CCAACTAGATTTTAAGTA
22392897 TATCTGTTAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.39, C:0.17, G:0.11, T:0.33
Consensus pattern (18 bp):
CCAACTAGATTTTAAGTA
Found at i:22392958 original size:40 final size:40
Alignment explanation
Indices: 22392903--22392980 Score: 138
Period size: 40 Copynumber: 1.9 Consensus size: 40
22392893 AGTATATCTG
* *
22392903 TTAATACATACTTCATCCGGTTAAATTATACAGTTTTCTA
1 TTAATACATACTTCATCCGGCTAAATTATACAATTTTCTA
22392943 TTAATACATACTTCATCCGGCTAAATTATACAATTTTC
1 TTAATACATACTTCATCCGGCTAAATTATACAATTTTC
22392981 ACTCAAATGC
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.33, C:0.19, G:0.06, T:0.41
Consensus pattern (40 bp):
TTAATACATACTTCATCCGGCTAAATTATACAATTTTCTA
Found at i:22394876 original size:17 final size:17
Alignment explanation
Indices: 22394856--22394913 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
22394846 ATATTTAATG
22394856 ATATAATATATAAAAAT
1 ATATAATATATAAAAAT
*
22394873 ATAT--T-TATAAGAAT
1 ATATAATATATAAAAAT
22394887 A-ATAATTATATAAAAAT
1 ATATAA-TATATAAAAAT
*
22394904 ATAAAATATA
1 ATATAATATA
22394914 ATGGTTTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
13 2 0.06
14 9 0.27
15 1 0.03
16 1 0.03
17 17 0.52
18 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
ATATAATATATAAAAAT
Found at i:22395222 original size:18 final size:19
Alignment explanation
Indices: 22395195--22395303 Score: 100
Period size: 20 Copynumber: 5.6 Consensus size: 19
22395185 ATTTAATGAC
22395195 ATAATAATATAAAATAA-AT
1 ATAAT-ATATAAAATAATAT
*
22395214 ATAATATATAATATGAA-AGT
1 ATAATATATAAAAT-AATA-T
* *
22395234 AT-GTATGTGAAAATAATAT
1 ATAATATAT-AAAATAATAT
22395253 ATAATATAT-AAATAATAT
1 ATAATATATAAAATAATAT
22395271 GAGTAATATATAAAATAATCAT
1 -A-TAATATATAAAATAAT-AT
22395293 ATAATATATAA
1 ATAATATATAA
22395304 TTAAAAAAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
18 17 0.23
19 18 0.24
20 30 0.40
21 8 0.11
22 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (19 bp):
ATAATATATAAAATAATAT
Found at i:22395258 original size:7 final size:7
Alignment explanation
Indices: 22395246--22395304 Score: 56
Period size: 7 Copynumber: 8.7 Consensus size: 7
22395236 GTATGTGAAA
22395246 ATAATAT
1 ATAATAT
22395253 ATAATAT
1 ATAATAT
22395260 AT-A-A-
1 ATAATAT
22395264 ATAATAT
1 ATAATAT
22395271 GAGTAATAT
1 -A-TAATAT
22395280 ATAA-A-
1 ATAATAT
22395285 ATAATCAT
1 ATAAT-AT
22395293 ATAATAT
1 ATAATAT
22395300 ATAAT
1 ATAAT
22395305 TAAAAAAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
4 2 0.05
5 6 0.14
6 3 0.07
7 20 0.45
8 7 0.16
9 6 0.14
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (7 bp):
ATAATAT
Found at i:22397278 original size:205 final size:205
Alignment explanation
Indices: 22396899--22398472 Score: 2634
Period size: 205 Copynumber: 7.7 Consensus size: 205
22396889 GCTTCTTTGG
* * * *
22396899 TTTGTTCTCTGACAATACAGAGATGCC-AATCATCTTAGATTTGCTTCGTCGTAAGCACGTGAAA
1 TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
*
22396963 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGAATG-TCAAATCATCTTGGATC
66 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCT-AAATCATCTTGGATC
* * *
22397027 TTGCTTCA--ATGAAATTATCTGAAAGTGAGATCTGCTATGTATCTGCTCCTCGTTGAAGTGGAG
130 -TGCTTCAGCAT-AAA-CATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAG
*
22397090 ATGCCAGACTTTGA
192 ATGCCAGACTTCGA
* * *
22397104 TTTGTTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTTATCGTAAACACGTGAAA
1 TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
*
22397169 GCCATATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
*
22397234 ACTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
131 GCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
22397299 CAGACTTCGA
196 CAGACTTCGA
22397309 TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
1 TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
22397374 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
* * * *
22397439 ACTTCAGCATAAACATCTGAAGGTGAGATTTGCTATGTATCTACTCCCTGTTGAAGTGGAGATGC
131 GCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
22397504 CAGACTTCGA
196 CAGACTTCGA
* *
22397514 TTTGCTCTCTGACAATACAGAGATGTCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
1 TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
* *
22397579 TCCAAATCAACTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
*
22397644 GCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGGGATGC
131 GCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
22397709 CAGACTTCGA
196 CAGACTTCGA
*
22397719 TTTGCTCTCTAACAATGCAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
1 TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
*
22397784 ACCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
* * *
22397849 GCTTCAACATAAACATCTGAATGTGAGATCTGCTATGTATCTGCTCCCTGTTGAAGTGGAGATGC
131 GCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
22397914 CAGACTTCGA
196 CAGACTTCGA
* *
22397924 TTTGCTCTCTGACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGGAAACACGTGAAA
1 TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
*
22397989 GCCAAATCAGCTATGTCTTCGATTTGCTTCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
22398054 GCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
131 GCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
22398119 CAGACTTCGA
196 CAGACTTCGA
*
22398129 TTTGCTCTCTAACTATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
1 TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
* * * *
22398194 GCCATATCAGCTATGTCTTCAATTTGCTCCTTATAAGCACAATGATGCTAAATCATCTTGGATCT
66 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
* * **
22398259 GCTTCAGCATAAACATCTGAAGGTGGGATCTGCTATGTATCTGCTTCCATTTGAAGTGGAGATGC
131 GCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
22398324 CAGACTTCGA
196 CAGACTTCGA
* *
22398334 TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTTCTTCAACGTAAACACGTGAAA
1 TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
* * * * * * *
22398399 GCCAAATCAGCTATGTCTTTGGTTTGTTCCTTGTAAGCACAAGAATGCCAAACCATCTTAGATCT
66 GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATC-
22398464 TGCTTCAGC
130 TGCTTCAGC
22398473 CAGATCTGCC
Statistics
Matches: 1295, Mismatches: 69, Indels: 9
0.94 0.05 0.01
Matches are distributed among these distances:
205 1186 0.92
206 106 0.08
207 3 0.00
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (205 bp):
TTTGCTCTCTAACAATACAGAGATGCCAAATCATCTTAGATTTGCTTCATCGTAAACACGTGAAA
GCCAAATCAGCTATGTCTTCGATTTGCTCCTTGTAAGCACAAGGATGCTAAATCATCTTGGATCT
GCTTCAGCATAAACATCTGAAGGTGAGATCTGCTATGTATCTGCTCCCCGTTGAAGTGGAGATGC
CAGACTTCGA
Found at i:22400394 original size:44 final size:45
Alignment explanation
Indices: 22400341--22400443 Score: 127
Period size: 44 Copynumber: 2.3 Consensus size: 45
22400331 TGTCTTTGAC
* * * *
22400341 ATGGACTTACATTAATTATTCCTGTCTCCAATGCCATA-TATAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
** *
22400385 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATA-TTATAAT
22400431 ATGGACTTACATG
1 ATGGACTTACATG
22400444 GCTCATTTCT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
44 32 0.64
46 18 0.36
ACGTcount: A:0.30, C:0.22, G:0.13, T:0.35
Consensus pattern (45 bp):
ATGGACTTACATGAATCAATCCTGTCTCCAAAGCCATATTATAAT
Found at i:22400445 original size:46 final size:44
Alignment explanation
Indices: 22400360--22400448 Score: 142
Period size: 46 Copynumber: 2.0 Consensus size: 44
22400350 CATTAATTAT
*
22400360 TCCTGTCTCCAATGCCATATATAATATGGACTTACATGGCTCAA
1 TCCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAA
*
22400404 TCCTGTCTCCAAAGCCATATTTCTAATATGGACTTACATGGCTCA
1 TCCTGTCTCCAAAGCCATA--TATAATATGGACTTACATGGCTCA
22400449 TTTCTGTTCT
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
44 18 0.44
46 23 0.56
ACGTcount: A:0.28, C:0.26, G:0.13, T:0.33
Consensus pattern (44 bp):
TCCTGTCTCCAAAGCCATATATAATATGGACTTACATGGCTCAA
Found at i:22409129 original size:14 final size:16
Alignment explanation
Indices: 22409094--22409130 Score: 53
Period size: 15 Copynumber: 2.5 Consensus size: 16
22409084 CAAACGATAC
22409094 GATG-AAATGCTATGA
1 GATGCAAATGCTATGA
22409109 GATGCAAATGC-ATGA
1 GATGCAAATGCTATGA
22409124 -ATGCAAA
1 GATGCAAA
22409131 AGGATATCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
14 7 0.33
15 8 0.38
16 6 0.29
ACGTcount: A:0.43, C:0.11, G:0.24, T:0.22
Consensus pattern (16 bp):
GATGCAAATGCTATGA
Found at i:22412882 original size:17 final size:17
Alignment explanation
Indices: 22412862--22412919 Score: 61
Period size: 17 Copynumber: 3.6 Consensus size: 17
22412852 ATATTTAATG
22412862 ATATAATATATAAAAAT
1 ATATAATATATAAAAAT
*
22412879 ATAT--T-TATAAGAAT
1 ATATAATATATAAAAAT
22412893 A-ATAATTATATAAAAAT
1 ATATAA-TATATAAAAAT
*
22412910 ATAAAATATA
1 ATATAATATA
22412920 ACAGTTTAGA
Statistics
Matches: 33, Mismatches: 3, Indels: 10
0.72 0.07 0.22
Matches are distributed among these distances:
13 2 0.06
14 9 0.27
15 1 0.03
16 1 0.03
17 17 0.52
18 3 0.09
ACGTcount: A:0.62, C:0.00, G:0.02, T:0.36
Consensus pattern (17 bp):
ATATAATATATAAAAAT
Found at i:22413228 original size:18 final size:19
Alignment explanation
Indices: 22413201--22413309 Score: 100
Period size: 20 Copynumber: 5.6 Consensus size: 19
22413191 ATTTAATGAC
22413201 ATAATAATATAAAATAA-AT
1 ATAAT-ATATAAAATAATAT
*
22413220 ATAATATATAATATGAA-AGT
1 ATAATATATAAAAT-AATA-T
* *
22413240 AT-GTATGTGAAAATAATAT
1 ATAATATAT-AAAATAATAT
22413259 ATAATATAT-AAATAATAT
1 ATAATATATAAAATAATAT
22413277 GAGTAATATATAAAATAATCAT
1 -A-TAATATATAAAATAAT-AT
22413299 ATAATATATAA
1 ATAATATATAA
22413310 TTTAAAAAAT
Statistics
Matches: 75, Mismatches: 6, Indels: 17
0.77 0.06 0.17
Matches are distributed among these distances:
18 17 0.23
19 18 0.24
20 30 0.40
21 8 0.11
22 2 0.03
ACGTcount: A:0.58, C:0.01, G:0.06, T:0.35
Consensus pattern (19 bp):
ATAATATATAAAATAATAT
Found at i:22413264 original size:7 final size:7
Alignment explanation
Indices: 22413252--22413310 Score: 56
Period size: 7 Copynumber: 8.7 Consensus size: 7
22413242 GTATGTGAAA
22413252 ATAATAT
1 ATAATAT
22413259 ATAATAT
1 ATAATAT
22413266 AT-A-A-
1 ATAATAT
22413270 ATAATAT
1 ATAATAT
22413277 GAGTAATAT
1 -A-TAATAT
22413286 ATAA-A-
1 ATAATAT
22413291 ATAATCAT
1 ATAAT-AT
22413299 ATAATAT
1 ATAATAT
22413306 ATAAT
1 ATAAT
22413311 TTAAAAAATA
Statistics
Matches: 44, Mismatches: 0, Indels: 16
0.73 0.00 0.27
Matches are distributed among these distances:
4 2 0.05
5 6 0.14
6 3 0.07
7 20 0.45
8 7 0.16
9 6 0.14
ACGTcount: A:0.58, C:0.02, G:0.03, T:0.37
Consensus pattern (7 bp):
ATAATAT
Found at i:22413310 original size:27 final size:27
Alignment explanation
Indices: 22413252--22413327 Score: 77
Period size: 27 Copynumber: 2.9 Consensus size: 27
22413242 GTATGTGAAA
*
22413252 ATAATATATAATAT-ATAAATAATATG
1 ATAATATATAAAATAATAAATAATATG
*
22413278 AGTAATATATAAAATAATCATATAATAT-
1 A-TAATATATAAAATAAT-AAATAATATG
* *
22413306 ATAATTTAAAAAATAA-AAATAA
1 ATAATATATAAAATAATAAATAA
22413328 AGCAAATAAC
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
25 5 0.12
26 1 0.02
27 25 0.60
28 3 0.07
29 8 0.19
ACGTcount: A:0.62, C:0.01, G:0.03, T:0.34
Consensus pattern (27 bp):
ATAATATATAAAATAATAAATAATATG
Found at i:22419773 original size:25 final size:25
Alignment explanation
Indices: 22419744--22419791 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22419734 TTATAATATG
* * *
22419744 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
22419769 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
22419792 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:22419860 original size:20 final size:20
Alignment explanation
Indices: 22419835--22419893 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
22419825 TAAATATGGT
22419835 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
22419855 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
22419875 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
22419894 GGTAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:22420011 original size:25 final size:24
Alignment explanation
Indices: 22419944--22420015 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
22419934 GAGGAAGTGA
*
22419944 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
* *
22419968 GAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
22419992 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTAGGCC-CCAGTTAT
22420016 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 30 0.73
25 11 0.27
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTAGGCCCCAGTTATT
Found at i:22420242 original size:31 final size:31
Alignment explanation
Indices: 22420207--22420308 Score: 123
Period size: 31 Copynumber: 3.1 Consensus size: 31
22420197 CGTTTACAGT
22420207 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
22420238 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
*
22420276 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22420307 AA
1 AA
22420309 TATGAAAAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
31 30 0.49
33 1 0.02
36 1 0.02
38 29 0.48
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:22420276 original size:38 final size:38
Alignment explanation
Indices: 22420224--22420331 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
22420214 TCGGCCCAGT
22420224 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
22420262 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
22420300 AATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
22420332 GCATGATTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 53 0.80
39 13 0.20
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:22426506 original size:25 final size:25
Alignment explanation
Indices: 22426477--22426524 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
22426467 TTATAATATG
* * *
22426477 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
22426502 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
22426525 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:22426593 original size:20 final size:20
Alignment explanation
Indices: 22426568--22426626 Score: 100
Period size: 20 Copynumber: 3.0 Consensus size: 20
22426558 TAAATATGGT
22426568 ATGTATGATATGCACATGAA
1 ATGTATGATATGCACATGAA
* *
22426588 ATGTATGATACGCACATGAT
1 ATGTATGATATGCACATGAA
22426608 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
22426627 GGCAATCATA
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 36 1.00
ACGTcount: A:0.37, C:0.12, G:0.20, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAA
Found at i:22426744 original size:25 final size:24
Alignment explanation
Indices: 22426677--22426748 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
22426667 GAGGAAGTGA
*
22426677 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
* *
22426701 GAAAGGGCTTTGGCCCCAGTTATT
1 AAAAGGGCTTAGGCCCCAGTTATT
22426725 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTAGGCC-CCAGTTAT
22426749 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
24 30 0.73
25 11 0.27
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (24 bp):
AAAAGGGCTTAGGCCCCAGTTATT
Found at i:22426975 original size:31 final size:31
Alignment explanation
Indices: 22426940--22427041 Score: 123
Period size: 31 Copynumber: 3.1 Consensus size: 31
22426930 CGTTTACAGT
22426940 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
*
22426971 AAAGGCTTCGGCCCAGTATTATGAAATATGAAACATGA
1 AAAGGCTTCGGCCCAG-----T--AATATGAAATATGA
*
22427009 AAAGGCTTCGGCCCAGTATTATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
22427040 AA
1 AA
22427042 TATGAAAAGG
Statistics
Matches: 61, Mismatches: 3, Indels: 14
0.78 0.04 0.18
Matches are distributed among these distances:
31 30 0.49
33 1 0.02
36 1 0.02
38 29 0.48
ACGTcount: A:0.39, C:0.16, G:0.22, T:0.24
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:22427009 original size:38 final size:38
Alignment explanation
Indices: 22426957--22427064 Score: 189
Period size: 38 Copynumber: 2.8 Consensus size: 38
22426947 TCGGCCCAGT
22426957 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
22426995 AATATGAAACATGAAAAGGCTTCGGCCCAGTATTATGA
1 AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
*
22427033 AATATGAAATATGAAAAGGGCTACGGCCCAGT
1 AATATGAAATATGAAAA-GGCTTCGGCCCAGT
22427065 GCATGATTGA
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
38 53 0.80
39 13 0.20
ACGTcount: A:0.40, C:0.15, G:0.22, T:0.23
Consensus pattern (38 bp):
AATATGAAATATGAAAAGGCTTCGGCCCAGTATTATGA
Found at i:22430749 original size:17 final size:19
Alignment explanation
Indices: 22430727--22430772 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
22430717 TAATTACAAC
22430727 ATAATTTAATAA-A-TAAA
1 ATAATTTAATAACATTAAA
*
22430744 ATAA-TTACATAACATTAAT
1 ATAATTTA-ATAACATTAAA
22430763 ATAATTTAAT
1 ATAATTTAAT
22430773 GATTTGAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 6
0.77 0.03 0.19
Matches are distributed among these distances:
16 3 0.12
17 8 0.33
18 1 0.04
19 9 0.38
20 3 0.12
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (19 bp):
ATAATTTAATAACATTAAA
Found at i:22432454 original size:2 final size:2
Alignment explanation
Indices: 22432447--22432485 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
22432437 TGATTGCTAT
22432447 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
22432486 TCTATTCTTG
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:22432741 original size:21 final size:20
Alignment explanation
Indices: 22432710--22432769 Score: 77
Period size: 21 Copynumber: 3.0 Consensus size: 20
22432700 TGGGTGGATC
22432710 AGCTTTCACGAGCTTCTGTTT
1 AGCTTT-ACGAGCTTCTGTTT
*
22432731 AGCTCTTACGAGCTTATGTTT
1 AGCT-TTACGAGCTTCTGTTT
*
22432752 AGCTTT-CGAGATTCTGTT
1 AGCTTTACGAGCTTCTGTT
22432770 GGCGTATTCG
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
19 10 0.29
20 2 0.06
21 21 0.60
22 2 0.06
ACGTcount: A:0.17, C:0.20, G:0.20, T:0.43
Consensus pattern (20 bp):
AGCTTTACGAGCTTCTGTTT
Found at i:22433715 original size:13 final size:12
Alignment explanation
Indices: 22433680--22433715 Score: 54
Period size: 12 Copynumber: 2.9 Consensus size: 12
22433670 GTCAAGTTAT
*
22433680 TACACGGCCTAG
1 TACACGGCCTGG
22433692 TACACGGCCTGG
1 TACACGGCCTGG
22433704 TACACAGGCCTG
1 TACAC-GGCCTG
22433716 TGAGATCATT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
12 16 0.73
13 6 0.27
ACGTcount: A:0.22, C:0.33, G:0.28, T:0.17
Consensus pattern (12 bp):
TACACGGCCTGG
Found at i:22449562 original size:19 final size:21
Alignment explanation
Indices: 22449510--22449562 Score: 56
Period size: 21 Copynumber: 2.6 Consensus size: 21
22449500 ATCAGCTCTC
22449510 ATGAGCTTCTGTTCAACTTTT
1 ATGAGCTTCTGTTCAACTTTT
** * *
22449531 ACAAGCTTATGTTCGA-TTTT
1 ATGAGCTTCTGTTCAACTTTT
22449551 -TGAGCTTCTGTT
1 ATGAGCTTCTGTT
22449563 GGCATATTCA
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
19 9 0.36
20 4 0.16
21 12 0.48
ACGTcount: A:0.19, C:0.17, G:0.17, T:0.47
Consensus pattern (21 bp):
ATGAGCTTCTGTTCAACTTTT
Found at i:22450407 original size:13 final size:13
Alignment explanation
Indices: 22450389--22450425 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
22450379 GCCTGAGACA
22450389 CGGGCGTGTGTCT
1 CGGGCGTGTGTCT
22450402 CGGGCGTGTGTCT
1 CGGGCGTGTGTCT
* *
22450415 CAGCCGTGTGT
1 CGGGCGTGTGT
22450426 GACACAAGTC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.03, C:0.24, G:0.43, T:0.30
Consensus pattern (13 bp):
CGGGCGTGTGTCT
Found at i:22450546 original size:30 final size:30
Alignment explanation
Indices: 22450510--22450566 Score: 87
Period size: 30 Copynumber: 1.9 Consensus size: 30
22450500 GCACGTGGTA
*
22450510 GTGTGAGATCATTTCGAAGGGTACACGAGC
1 GTGTGAGATCATTTCGAAAGGTACACGAGC
* *
22450540 GTGTGAGATTATTTTGAAAGGTACACG
1 GTGTGAGATCATTTCGAAAGGTACACG
22450567 GCCTGACACA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.28, C:0.12, G:0.32, T:0.28
Consensus pattern (30 bp):
GTGTGAGATCATTTCGAAAGGTACACGAGC
Found at i:22456986 original size:16 final size:18
Alignment explanation
Indices: 22456960--22456999 Score: 57
Period size: 16 Copynumber: 2.3 Consensus size: 18
22456950 TTTTTTAATT
*
22456960 AAAATAATTAAATTGA-C
1 AAAATAATTAAAATGATC
22456977 AAAA-AATTAAAATGATC
1 AAAATAATTAAAATGATC
22456994 AAAATA
1 AAAATA
22457000 GGAATAACAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
16 10 0.50
17 9 0.45
18 1 0.05
ACGTcount: A:0.65, C:0.05, G:0.05, T:0.25
Consensus pattern (18 bp):
AAAATAATTAAAATGATC
Found at i:22458513 original size:31 final size:31
Alignment explanation
Indices: 22458478--22458565 Score: 83
Period size: 31 Copynumber: 2.8 Consensus size: 31
22458468 AAAGTTTTAG
22458478 TTTCACCCAATAAGTATTTTTGAAAG-TCTGA
1 TTTCA-CCAATAAGTATTTTTGAAAGTTCTGA
* * **
22458509 TTTCA--ACTATGTTCATTTTCAAAAGTTCTGA
1 TTTCACCAATAAG-T-ATTTTTGAAAGTTCTGA
22458540 TTTCACCTAATAAGTATTTTTGAAAG
1 TTTCACC-AATAAGTATTTTTGAAAG
22458566 CTCATCTTCA
Statistics
Matches: 43, Mismatches: 8, Indels: 11
0.69 0.13 0.18
Matches are distributed among these distances:
28 4 0.09
29 1 0.02
30 9 0.21
31 15 0.35
32 9 0.21
33 1 0.02
34 4 0.09
ACGTcount: A:0.32, C:0.15, G:0.11, T:0.42
Consensus pattern (31 bp):
TTTCACCAATAAGTATTTTTGAAAGTTCTGA
Found at i:22458742 original size:60 final size:60
Alignment explanation
Indices: 22458628--22458743 Score: 137
Period size: 60 Copynumber: 1.9 Consensus size: 60
22458618 TTTATCCTGT
* * * ** *
22458628 TTCATTTTCAAAAGTTTTGGTTCAATCCAGTAAGTATTTTTGAAAGTTTGGTTCCGCAAG
1 TTCATTTTCAAAAGTTCTAGTTCAATCCAGTAAGTATTTTAGAAAGACTAGTTCCGCAAG
*
22458688 TTCATTTTCAAAAGTTCTAGTTCCA-CCTAGT-AGATATTTTAGAAAGACTAGTTCCG
1 TTCATTTTCAAAAGTTCTAGTTCAATCC-AGTAAG-TATTTTAGAAAGACTAGTTCCG
22458744 TCTAGGTTTG
Statistics
Matches: 47, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
59 4 0.09
60 43 0.91
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (60 bp):
TTCATTTTCAAAAGTTCTAGTTCAATCCAGTAAGTATTTTAGAAAGACTAGTTCCGCAAG
Found at i:22478003 original size:71 final size:71
Alignment explanation
Indices: 22477884--22478016 Score: 221
Period size: 71 Copynumber: 1.9 Consensus size: 71
22477874 ATATTGGGAG
*
22477884 AATGGATATTATCCAAAAGAGATTAAGCATATCTTACGAGAGTAACTCATTTATAACAAGGTCAG
1 AATGGATATTATCCAAAAGAGATTAAGCATATCCTACGAGAGTAACTCATTTATAACAAGGTCAG
22477949 TGGACA
66 TGGACA
* * * *
22477955 AATGGATATTATCCCAAAGAGATTAAGCTTATCCTATGAGAGTCACTCATTTATAACAAGGT
1 AATGGATATTATCCAAAAGAGATTAAGCATATCCTACGAGAGTAACTCATTTATAACAAGGT
22478017 TATTAGACAA
Statistics
Matches: 57, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
71 57 1.00
ACGTcount: A:0.39, C:0.15, G:0.17, T:0.29
Consensus pattern (71 bp):
AATGGATATTATCCAAAAGAGATTAAGCATATCCTACGAGAGTAACTCATTTATAACAAGGTCAG
TGGACA
Found at i:22478320 original size:6 final size:6
Alignment explanation
Indices: 22478309--22478340 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
22478299 GGTTTTCTCT
22478309 AAAATG AAAATG AAAATG AAAATG AAAATG AA
1 AAAATG AAAATG AAAATG AAAATG AAAATG AA
22478341 GAAATGAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.69, C:0.00, G:0.16, T:0.16
Consensus pattern (6 bp):
AAAATG
Found at i:22478399 original size:12 final size:12
Alignment explanation
Indices: 22478378--22478412 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
22478368 AGTTTTCTCC
*
22478378 AAAATAAAAATA
1 AAAATGAAAATA
22478390 AAAATGAAAATA
1 AAAATGAAAATA
22478402 AAAATGAAAAT
1 AAAATGAAAAT
22478413 GTCCTGAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (12 bp):
AAAATGAAAATA
Found at i:22478401 original size:18 final size:18
Alignment explanation
Indices: 22478378--22478413 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
22478368 AGTTTTCTCC
22478378 AAAATAAAAATAAAAATG
1 AAAATAAAAATAAAAATG
*
22478396 AAAATAAAAATGAAAATG
1 AAAATAAAAATAAAAATG
22478414 TCCTGAAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.75, C:0.00, G:0.08, T:0.17
Consensus pattern (18 bp):
AAAATAAAAATAAAAATG
Found at i:22478413 original size:6 final size:6
Alignment explanation
Indices: 22478378--22478412 Score: 52
Period size: 6 Copynumber: 5.8 Consensus size: 6
22478368 AGTTTTCTCC
* *
22478378 AAAATA AAAATA AAAATG AAAATA AAAATG AAAAT
1 AAAATA AAAATA AAAATA AAAATA AAAATA AAAAT
22478413 GTCCTGAAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.77, C:0.00, G:0.06, T:0.17
Consensus pattern (6 bp):
AAAATA
Found at i:22481748 original size:59 final size:59
Alignment explanation
Indices: 22481672--22481796 Score: 187
Period size: 59 Copynumber: 2.1 Consensus size: 59
22481662 GGTTTGAATT
*
22481672 TTTTTTTTATCCAAGTTACACCTTGAAATTGAAAATTGTTCTCACATTGGAGCCTAAAC
1 TTTTTTTTATCCAAGTTACACCTTGAAATTGAAAATTGTTCCCACATTGGAGCCTAAAC
* * ** * *
22481731 TTTTTTTTGTCTAAGTTAGGCCTTGAACTTGAAAATTGTTCCCACATTGGAGCTTAAAC
1 TTTTTTTTATCCAAGTTACACCTTGAAATTGAAAATTGTTCCCACATTGGAGCCTAAAC
22481790 TTTTTTT
1 TTTTTTT
22481797 CATGTCCAAG
Statistics
Matches: 59, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
59 59 1.00
ACGTcount: A:0.26, C:0.17, G:0.14, T:0.43
Consensus pattern (59 bp):
TTTTTTTTATCCAAGTTACACCTTGAAATTGAAAATTGTTCCCACATTGGAGCCTAAAC
Found at i:22485030 original size:2 final size:2
Alignment explanation
Indices: 22485019--22485061 Score: 52
Period size: 2 Copynumber: 22.0 Consensus size: 2
22485009 ACTTAGACCT
* * *
22485019 TA TA -A TA TA TA TA TA TG TG TA TA TA TA TA TG TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
22485060 TA
1 TA
22485062 AATGCAAGGG
Statistics
Matches: 36, Mismatches: 4, Indels: 2
0.86 0.10 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.44, C:0.00, G:0.07, T:0.49
Consensus pattern (2 bp):
TA
Found at i:22485043 original size:12 final size:12
Alignment explanation
Indices: 22485026--22485060 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
22485016 CCTTATAATA
*
22485026 TATATATATGTG
1 TATATATATATG
22485038 TATATATATATG
1 TATATATATATG
22485050 TATATATATAT
1 TATATATATAT
22485061 AAATGCAAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
12 22 1.00
ACGTcount: A:0.40, C:0.00, G:0.09, T:0.51
Consensus pattern (12 bp):
TATATATATATG
Found at i:22485043 original size:14 final size:14
Alignment explanation
Indices: 22485023--22485061 Score: 69
Period size: 14 Copynumber: 2.8 Consensus size: 14
22485013 AGACCTTATA
22485023 ATATATATATATGT
1 ATATATATATATGT
*
22485037 GTATATATATATGT
1 ATATATATATATGT
22485051 ATATATATATA
1 ATATATATATA
22485062 AATGCAAGGG
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.49
Consensus pattern (14 bp):
ATATATATATATGT
Found at i:22485925 original size:20 final size:21
Alignment explanation
Indices: 22485902--22485945 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
22485892 TTTTTTTCCT
22485902 AAATA-TGAGGTTTTATAGAA
1 AAATATTGAGGTTTTATAGAA
* *
22485922 AAATATTTAGGTTTTTTAGAA
1 AAATATTGAGGTTTTATAGAA
22485943 AAA
1 AAA
22485946 ACTATTTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
20 5 0.24
21 16 0.76
ACGTcount: A:0.45, C:0.00, G:0.16, T:0.39
Consensus pattern (21 bp):
AAATATTGAGGTTTTATAGAA
Found at i:22489223 original size:21 final size:21
Alignment explanation
Indices: 22489197--22489236 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
22489187 CATTTGGGTG
*
22489197 TTCGATGCTTTTGAGAAAACT
1 TTCGATGCTTTTGAAAAAACT
22489218 TTCGATGCTTTTGAAAAAA
1 TTCGATGCTTTTGAAAAAA
22489237 GTCTAATATC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.33, C:0.12, G:0.17, T:0.38
Consensus pattern (21 bp):
TTCGATGCTTTTGAAAAAACT
Found at i:22493915 original size:44 final size:43
Alignment explanation
Indices: 22493828--22493917 Score: 126
Period size: 44 Copynumber: 2.1 Consensus size: 43
22493818 GTAGGTCAAA
* * **
22493828 TAATATTAAATAACCTACACTAATAAGAGTTTAGGTGGGAAAC
1 TAATATTAAATAACCTACACTAATAAAAGTTTAAGTGAAAAAC
*
22493871 TAATATTAAAATAATCTACACTAATAAAAGTTTAAGTGAAAAAC
1 TAATATT-AAATAACCTACACTAATAAAAGTTTAAGTGAAAAAC
22493915 TAA
1 TAA
22493918 AAACAGAGTT
Statistics
Matches: 41, Mismatches: 5, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
43 7 0.17
44 34 0.83
ACGTcount: A:0.50, C:0.10, G:0.11, T:0.29
Consensus pattern (43 bp):
TAATATTAAATAACCTACACTAATAAAAGTTTAAGTGAAAAAC
Found at i:22497498 original size:37 final size:37
Alignment explanation
Indices: 22497455--22497530 Score: 152
Period size: 37 Copynumber: 2.1 Consensus size: 37
22497445 AAAGAACCAT
22497455 TTTACATAGTTTAGAAATACAAAAAAAGGGCCTCTCA
1 TTTACATAGTTTAGAAATACAAAAAAAGGGCCTCTCA
22497492 TTTACATAGTTTAGAAATACAAAAAAAGGGCCTCTCA
1 TTTACATAGTTTAGAAATACAAAAAAAGGGCCTCTCA
22497529 TT
1 TT
22497531 AAATCATTGC
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 39 1.00
ACGTcount: A:0.42, C:0.16, G:0.13, T:0.29
Consensus pattern (37 bp):
TTTACATAGTTTAGAAATACAAAAAAAGGGCCTCTCA
Found at i:22506483 original size:21 final size:21
Alignment explanation
Indices: 22506457--22506501 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
22506447 CTAATGAAAT
22506457 CCATTTTCTTCAGTTTTCTCA
1 CCATTTTCTTCAGTTTTCTCA
*
22506478 CCATTTTCTTTAGTTTTCTCA
1 CCATTTTCTTCAGTTTTCTCA
22506499 CCA
1 CCA
22506502 ACCAAACAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.16, C:0.29, G:0.04, T:0.51
Consensus pattern (21 bp):
CCATTTTCTTCAGTTTTCTCA
Found at i:22506681 original size:26 final size:26
Alignment explanation
Indices: 22506643--22506693 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
22506633 CAGCATTGAG
**
22506643 AAAATCTGGGAAAGCATTGAGAAAAA
1 AAAATCTAAGAAAGCATTGAGAAAAA
22506669 AAAATCTAAGAAAGCATTGAGAAAA
1 AAAATCTAAGAAAGCATTGAGAAAA
22506694 TTTTTTTGGA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.57, C:0.08, G:0.20, T:0.16
Consensus pattern (26 bp):
AAAATCTAAGAAAGCATTGAGAAAAA
Found at i:22506693 original size:21 final size:21
Alignment explanation
Indices: 22506634--22506694 Score: 59
Period size: 26 Copynumber: 2.7 Consensus size: 21
22506624 CTCCAAATTC
**
22506634 AGCATTGAGAAAATCTGGGAA
1 AGCATTGAGAAAATCTAAGAA
22506655 AGCATTGAGAAAAAAAAATCTAAGAA
1 AGCATTGAG-----AAAATCTAAGAA
22506681 AGCATTGAGAAAAT
1 AGCATTGAGAAAAT
22506695 TTTTTTGGAA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
21 14 0.42
26 19 0.58
ACGTcount: A:0.52, C:0.08, G:0.21, T:0.18
Consensus pattern (21 bp):
AGCATTGAGAAAATCTAAGAA
Found at i:22508315 original size:38 final size:38
Alignment explanation
Indices: 22508232--22508338 Score: 110
Period size: 38 Copynumber: 2.8 Consensus size: 38
22508222 TACAATACAT
22508232 AAACAGTAGACATGCTTAACATGTATTCAGTCTAACAG
1 AAACAGTAGACATGCTTAACATGTATTCAGTCTAACAG
** * *
22508270 AGGCAGTAGACATGCTTAATATGTATTCAAT-TCAACA-
1 AAACAGTAGACATGCTTAACATGTATTCAGTCT-AACAG
* * * *
22508307 ATAACAGTAGGCATGCTGAGCATGTAATCAGT
1 A-AACAGTAGACATGCTTAACATGTATTCAGT
22508339 AATACAGTGG
Statistics
Matches: 55, Mismatches: 12, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
37 2 0.04
38 53 0.96
ACGTcount: A:0.37, C:0.17, G:0.19, T:0.27
Consensus pattern (38 bp):
AAACAGTAGACATGCTTAACATGTATTCAGTCTAACAG
Found at i:22512834 original size:26 final size:26
Alignment explanation
Indices: 22512803--22512857 Score: 92
Period size: 26 Copynumber: 2.1 Consensus size: 26
22512793 CTTTCATTTT
* *
22512803 CATGTTGAACATCTCTCTGCCTTCAA
1 CATGTTGAACACCTCTCTACCTTCAA
22512829 CATGTTGAACACCTCTCTACCTTCAA
1 CATGTTGAACACCTCTCTACCTTCAA
22512855 CAT
1 CAT
22512858 CTCTAATCAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.25, C:0.33, G:0.09, T:0.33
Consensus pattern (26 bp):
CATGTTGAACACCTCTCTACCTTCAA
Done.