Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 119 of 444
Found at i:30537752 original size:11 final size:11
Alignment explanation
Indices: 30537720--30537760 Score: 55
Period size: 11 Copynumber: 3.5 Consensus size: 11
30537710 AATGATGAAA
30537720 TTTTATTAAAC
1 TTTTATTAAAC
30537731 TAATCTTATTAAAC
1 T--T-TTATTAAAC
30537745 TTTTATTAAAC
1 TTTTATTAAAC
30537756 TTTTA
1 TTTTA
30537761 GGTTCTGGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 15 0.56
12 1 0.04
13 1 0.04
14 10 0.37
ACGTcount: A:0.37, C:0.10, G:0.00, T:0.54
Consensus pattern (11 bp):
TTTTATTAAAC
Found at i:30540315 original size:75 final size:75
Alignment explanation
Indices: 30540236--30540378 Score: 189
Period size: 75 Copynumber: 1.9 Consensus size: 75
30540226 TTTTAGAGAA
* * * *
30540236 AGTTCGCCATAAAGGCTTCACA-TAGAGTTTGCCACAGAGGCTTTATAGAGAGTTCACCATAAAG
1 AGTTCGCCATAAAGGCTGCACAGT-GAGTTCGCCACAAAGGCTTCATAGAGAGTTCACCATAAAG
30540300 GCTTTACAAAG
65 GCTTTACAAAG
* * ** *
30540311 AGTTCGCCATAAAGGCTGCACAGTGAGTTCGCTACAAAGGCTTCATAGATAGTTTGCCATTAAGG
1 AGTTCGCCATAAAGGCTGCACAGTGAGTTCGCCACAAAGGCTTCATAGAGAGTTCACCATAAAGG
30540376 CTT
66 CTT
30540379 CACAGAATAT
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
75 57 0.98
76 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (75 bp):
AGTTCGCCATAAAGGCTGCACAGTGAGTTCGCCACAAAGGCTTCATAGAGAGTTCACCATAAAGG
CTTTACAAAG
Found at i:30540326 original size:25 final size:25
Alignment explanation
Indices: 30540196--30540327 Score: 124
Period size: 25 Copynumber: 5.3 Consensus size: 25
30540186 GAGTTCACAC
*
30540196 AAAGG-TTTCACAAAGAGTTCGCCAC
1 AAAGGCTTT-ACAAAGAGTTCGCCAT
* * *
30540221 AAAAGTTTTAGAGAA-AGTTCGCCAT
1 AAAGGCTTTACA-AAGAGTTCGCCAT
* * * *
30540246 AAAGGCTTCACATAGAGTTTGCCAC
1 AAAGGCTTTACAAAGAGTTCGCCAT
* * * *
30540271 AGAGGCTTTATAGAGAGTTCACCAT
1 AAAGGCTTTACAAAGAGTTCGCCAT
30540296 AAAGGCTTTACAAAGAGTTCGCCAT
1 AAAGGCTTTACAAAGAGTTCGCCAT
30540321 AAAGGCT
1 AAAGGCT
30540328 GCACAGTGAG
Statistics
Matches: 83, Mismatches: 21, Indels: 6
0.75 0.19 0.05
Matches are distributed among these distances:
24 1 0.01
25 77 0.93
26 5 0.06
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (25 bp):
AAAGGCTTTACAAAGAGTTCGCCAT
Found at i:30540327 original size:50 final size:50
Alignment explanation
Indices: 30540178--30540327 Score: 178
Period size: 50 Copynumber: 3.0 Consensus size: 50
30540168 CCAAGAAGAT
* * *
30540178 TTTATAGAGAGTTCA-CACAAAGG-TTTCACAAAGAGTTCGCCACAAAAGT
1 TTTATAGAGAGTTCACCATAAAGGCTTT-ACAAAGAGTTCGCCACAAAGGC
* * * * * * *
30540227 TTTAGAGAAAGTTCGCCATAAAGGCTTCACATAGAGTTTGCCACAGAGGC
1 TTTATAGAGAGTTCACCATAAAGGCTTTACAAAGAGTTCGCCACAAAGGC
*
30540277 TTTATAGAGAGTTCACCATAAAGGCTTTACAAAGAGTTCGCCATAAAGGC
1 TTTATAGAGAGTTCACCATAAAGGCTTTACAAAGAGTTCGCCACAAAGGC
30540327 T
1 T
30540328 GCACAGTGAG
Statistics
Matches: 81, Mismatches: 18, Indels: 3
0.79 0.18 0.03
Matches are distributed among these distances:
49 12 0.15
50 67 0.83
51 2 0.02
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (50 bp):
TTTATAGAGAGTTCACCATAAAGGCTTTACAAAGAGTTCGCCACAAAGGC
Found at i:30540338 original size:25 final size:25
Alignment explanation
Indices: 30540236--30540383 Score: 120
Period size: 25 Copynumber: 5.9 Consensus size: 25
30540226 TTTTAGAGAA
30540236 AGTTCGCCATAAAGGCTTCACA-TAG
1 AGTTCGCCATAAAGGCTTCACAGT-G
* * * * * *
30540261 AGTTTGCCACAGAGGCTTTATAGAG
1 AGTTCGCCATAAAGGCTTCACAGTG
* * **
30540286 AGTTCACCATAAAGGCTTTACAAAG
1 AGTTCGCCATAAAGGCTTCACAGTG
*
30540311 AGTTCGCCATAAAGGCTGCACAGTG
1 AGTTCGCCATAAAGGCTTCACAGTG
* * *
30540336 AGTTCGCTACAAAGGCTTCATAGAT-
1 AGTTCGCCATAAAGGCTTCACAG-TG
* *
30540361 AGTTTGCCATTAAGGCTTCACAG
1 AGTTCGCCATAAAGGCTTCACAG
30540384 AATATGCCAT
Statistics
Matches: 95, Mismatches: 26, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
25 94 0.99
26 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.22, T:0.26
Consensus pattern (25 bp):
AGTTCGCCATAAAGGCTTCACAGTG
Found at i:30540339 original size:50 final size:50
Alignment explanation
Indices: 30540183--30540355 Score: 150
Period size: 50 Copynumber: 3.5 Consensus size: 50
30540173 AAGATTTTAT
* * * * ** *
30540183 AGAGAGTTCA-CACAAAGGTTTCACAAAGAGTTCGCCACAAAAGTTTTAG
1 AGAGAGTTCACCATAAAGGCTTCACAAAGAGTTCGCCACAAAGGCTGCAC
* * * * * ** *
30540232 AGAAAGTTCGCCATAAAGGCTTCACATAGAGTTTGCCACAGAGGCTTTAT
1 AGAGAGTTCACCATAAAGGCTTCACAAAGAGTTCGCCACAAAGGCTGCAC
* *
30540282 AGAGAGTTCACCATAAAGGCTTTACAAAGAGTTCGCCATAAAGGCTGCAC
1 AGAGAGTTCACCATAAAGGCTTCACAAAGAGTTCGCCACAAAGGCTGCAC
* * * *
30540332 AGTGAGTTCGCTACAAAGGCTTCA
1 AGAGAGTTCACCATAAAGGCTTCA
30540356 TAGATAGTTT
Statistics
Matches: 98, Mismatches: 25, Indels: 1
0.79 0.20 0.01
Matches are distributed among these distances:
49 8 0.08
50 90 0.92
ACGTcount: A:0.35, C:0.20, G:0.22, T:0.23
Consensus pattern (50 bp):
AGAGAGTTCACCATAAAGGCTTCACAAAGAGTTCGCCACAAAGGCTGCAC
Found at i:30542899 original size:19 final size:19
Alignment explanation
Indices: 30542875--30542915 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
30542865 TAAATTAGCA
30542875 AGTTGGTTTTCTAGTTTTC
1 AGTTGGTTTTCTAGTTTTC
30542894 AGTTGGTTTTCTAGTTTTC
1 AGTTGGTTTTCTAGTTTTC
30542913 AGT
1 AGT
30542916 ATTGGTGGAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.12, C:0.10, G:0.22, T:0.56
Consensus pattern (19 bp):
AGTTGGTTTTCTAGTTTTC
Found at i:30570761 original size:3 final size:3
Alignment explanation
Indices: 30570753--30570780 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
30570743 TATATTCTTG
30570753 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA T
30570781 GTACTAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (3 bp):
TAA
Found at i:30572658 original size:37 final size:37
Alignment explanation
Indices: 30572605--30572719 Score: 194
Period size: 37 Copynumber: 3.1 Consensus size: 37
30572595 CATCATGCAG
*
30572605 CTTGTATACTTTTTCATTCACTAATGCCTCTTTATTAC
1 CTTGTATA-TTTTTCATTCACTAATGCCTTTTTATTAC
30572643 CTTGTATATTTTTCATTCACTAATGCCTTTTTATTAC
1 CTTGTATATTTTTCATTCACTAATGCCTTTTTATTAC
* *
30572680 CTTGTATATTTTTCATTCACTAATGCGTTTTTATTTC
1 CTTGTATATTTTTCATTCACTAATGCCTTTTTATTAC
30572717 CTT
1 CTT
30572720 TAACTTTCTT
Statistics
Matches: 74, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
37 66 0.89
38 8 0.11
ACGTcount: A:0.20, C:0.20, G:0.06, T:0.54
Consensus pattern (37 bp):
CTTGTATATTTTTCATTCACTAATGCCTTTTTATTAC
Found at i:30578586 original size:2 final size:2
Alignment explanation
Indices: 30578579--30578606 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
30578569 ACCCATATTT
30578579 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
30578607 AAAGTATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:30579472 original size:5 final size:5
Alignment explanation
Indices: 30579464--30579491 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
30579454 TTTAATTTTT
30579464 AATAA AATAA AATAA AATAA AATAA AAT
1 AATAA AATAA AATAA AATAA AATAA AAT
30579492 CAATCTAATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:30585905 original size:25 final size:24
Alignment explanation
Indices: 30585851--30585905 Score: 56
Period size: 25 Copynumber: 2.2 Consensus size: 24
30585841 CATTCCCAGA
* * *
30585851 ATAACGTCAAATTCATAAAATGAC
1 ATAACATCAAATTAATAAAAAGAC
*
30585875 AGTAACATCAAATTAATAGAAAAGTC
1 A-TAACATCAAATTAATA-AAAAGAC
30585901 ATAAC
1 ATAAC
30585906 CTTGAATTTT
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
24 1 0.04
25 18 0.72
26 6 0.24
ACGTcount: A:0.53, C:0.15, G:0.09, T:0.24
Consensus pattern (24 bp):
ATAACATCAAATTAATAAAAAGAC
Found at i:30590082 original size:25 final size:25
Alignment explanation
Indices: 30590054--30590105 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
30590044 TTTGGCTTGA
**
30590054 CATTTACTAAGCAATATCGGATATT
1 CATTTACTAAGCAATATCAAATATT
* *
30590079 CATTTATTAGGCAATATCAAATATT
1 CATTTACTAAGCAATATCAAATATT
30590104 CA
1 CA
30590106 AATTATTCTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.38, C:0.15, G:0.10, T:0.37
Consensus pattern (25 bp):
CATTTACTAAGCAATATCAAATATT
Found at i:30591374 original size:11 final size:11
Alignment explanation
Indices: 30591358--30591382 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30591348 TCCAGTTAAT
30591358 GAAAATGAAGA
1 GAAAATGAAGA
30591369 GAAAATGAAGA
1 GAAAATGAAGA
30591380 GAA
1 GAA
30591383 TTCTAGATAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.64, C:0.00, G:0.28, T:0.08
Consensus pattern (11 bp):
GAAAATGAAGA
Found at i:30596375 original size:40 final size:39
Alignment explanation
Indices: 30596287--30596382 Score: 115
Period size: 40 Copynumber: 2.4 Consensus size: 39
30596277 GACTATGTTC
30596287 GGCACTAAGTGTGCGATTCAAACAGCTTCGGCTATAAATA
1 GGCACTAAGTGTGCGATTCAAACAGCTTCGGCTAT-AATA
* * * *
30596327 -GCATTAAGTGTGCGAGTTGAAATAGCTTTGGCTAT-ATGA
1 GGCACTAAGTGTGCGA-TTCAAACAGCTTCGGCTATAAT-A
30596366 GGCACTAAGTGTGCGAT
1 GGCACTAAGTGTGCGAT
30596383 ACCGAGATAA
Statistics
Matches: 48, Mismatches: 5, Indels: 7
0.80 0.08 0.12
Matches are distributed among these distances:
38 2 0.04
39 16 0.33
40 30 0.62
ACGTcount: A:0.29, C:0.16, G:0.27, T:0.28
Consensus pattern (39 bp):
GGCACTAAGTGTGCGATTCAAACAGCTTCGGCTATAATA
Found at i:30599200 original size:14 final size:14
Alignment explanation
Indices: 30599181--30599207 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
30599171 CACAACTAAC
30599181 TTCGTAAATATTTT
1 TTCGTAAATATTTT
30599195 TTCGTAAATATTT
1 TTCGTAAATATTT
30599208 ATTAAAAATA
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:0.30, C:0.07, G:0.07, T:0.56
Consensus pattern (14 bp):
TTCGTAAATATTTT
Found at i:30601783 original size:23 final size:22
Alignment explanation
Indices: 30601751--30601798 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 22
30601741 TAATTTAATT
*
30601751 AATTTAAAAATTCCAATTATTTAA
1 AATTTAAAAATT-CAAAT-TTTAA
30601775 AATTT-AAAATTCAAATTTTAA
1 AATTTAAAAATTCAAATTTTAA
30601796 AAT
1 AAT
30601799 ACTTATATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
21 8 0.35
22 4 0.17
23 6 0.26
24 5 0.22
ACGTcount: A:0.52, C:0.06, G:0.00, T:0.42
Consensus pattern (22 bp):
AATTTAAAAATTCAAATTTTAA
Found at i:30606457 original size:20 final size:20
Alignment explanation
Indices: 30606403--30606464 Score: 72
Period size: 20 Copynumber: 3.1 Consensus size: 20
30606393 GTAAATCTAA
30606403 ATTTTAAATAGTTAATATATT
1 ATTTTAAATAGTTAATATA-T
* * *
30606424 AATTTAAAT-TTTAAAATAT
1 ATTTTAAATAGTTAATATAT
*
30606443 ATTTTAAGTAGTTAATATAT
1 ATTTTAAATAGTTAATATAT
30606463 AT
1 AT
30606465 AAATATTTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
19 8 0.24
20 17 0.52
21 8 0.24
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.50
Consensus pattern (20 bp):
ATTTTAAATAGTTAATATAT
Found at i:30606464 original size:22 final size:22
Alignment explanation
Indices: 30606403--30606465 Score: 71
Period size: 19 Copynumber: 3.0 Consensus size: 22
30606393 GTAAATCTAA
30606403 ATTTTAAATAGTTAATATAT-T
1 ATTTTAAATAGTTAATATATAT
* *
30606424 AATTTAAAT-TTTAA-A-ATAT
1 ATTTTAAATAGTTAATATATAT
*
30606443 ATTTTAAGTAGTTAATATATAT
1 ATTTTAAATAGTTAATATATAT
30606465 A
1 A
30606466 AATATTTTGA
Statistics
Matches: 33, Mismatches: 5, Indels: 7
0.73 0.11 0.16
Matches are distributed among these distances:
18 2 0.06
19 9 0.27
20 8 0.24
21 9 0.27
22 5 0.15
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (22 bp):
ATTTTAAATAGTTAATATATAT
Found at i:30612913 original size:46 final size:46
Alignment explanation
Indices: 30612863--30613038 Score: 189
Period size: 46 Copynumber: 3.8 Consensus size: 46
30612853 TGGTTGAGCA
30612863 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * *
30612909 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
30612954 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * * * *
30613002 CCCGAGCTTGTTGAGTTGAGTCTGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
30613039 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 14, Indels: 18
0.77 0.10 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 3 0.03
46 61 0.57
47 29 0.27
48 3 0.03
50 3 0.03
51 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.29, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:30613019 original size:93 final size:93
Alignment explanation
Indices: 30612860--30613031 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
30612850 GGATGGTTGA
* *
30612860 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
30612925 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* *
30612953 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTTGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
*
30613018 TGAGTCTGAGTTCG
66 TGAGTCCGAGTTCG
30613032 CTTATGGGCG
Statistics
Matches: 74, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:30620965 original size:39 final size:40
Alignment explanation
Indices: 30620921--30621085 Score: 183
Period size: 39 Copynumber: 4.2 Consensus size: 40
30620911 CGGAATATAA
*
30620921 CCGGATATAATCAGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * * *
30620960 CCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
30621000 CCGGATAT-ACCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
30621039 CCGGATATAATTTCCAGCATAATTGTCTTCGGG-CTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
30621078 CCGGATAT
1 CCGGATAT
30621086 CATTCAATTT
Statistics
Matches: 106, Mismatches: 18, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
39 58 0.55
40 48 0.45
ACGTcount: A:0.25, C:0.27, G:0.22, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:30621069 original size:79 final size:78
Alignment explanation
Indices: 30620936--30621085 Score: 196
Period size: 79 Copynumber: 1.9 Consensus size: 78
30620926 TATAATCAGT
*
30620936 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGTCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
30621001 CGGATATACCACTA
65 CGGATATACCACTA
* * ** * *
30621015 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
30621078 CCGGATAT
64 CCGGATAT
30621086 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 17 0.27
79 45 0.73
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (78 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATACCACTA
Found at i:30621926 original size:17 final size:19
Alignment explanation
Indices: 30621903--30621948 Score: 53
Period size: 17 Copynumber: 2.5 Consensus size: 19
30621893 AAGAAGCATG
30621903 AATCATGCTCAAGAATG-C
1 AATCATGCTCAAGAATGAC
*
30621921 -ATCATGGC-CAAGTATGAC
1 AATCAT-GCTCAAGAATGAC
30621939 AATCATGCTC
1 AATCATGCTC
30621949 CTTTTCAACT
Statistics
Matches: 23, Mismatches: 1, Indels: 7
0.74 0.03 0.23
Matches are distributed among these distances:
17 12 0.52
18 5 0.22
19 6 0.26
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (19 bp):
AATCATGCTCAAGAATGAC
Found at i:30627523 original size:40 final size:39
Alignment explanation
Indices: 30627412--30627562 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
30627402 TTAATCACGT
* * *
30627412 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
30627452 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
30627492 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
30627532 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
30627563 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:30627546 original size:80 final size:79
Alignment explanation
Indices: 30627412--30627562 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
30627402 TTAATCACGT
*
30627412 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
30627477 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
30627492 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
30627555 CCGGATAT
64 CCGGATAT
30627563 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:30635441 original size:40 final size:39
Alignment explanation
Indices: 30635330--30635480 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
30635320 TTAATCACGT
* * *
30635330 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
30635370 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
30635410 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
30635450 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
30635481 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:30635464 original size:80 final size:79
Alignment explanation
Indices: 30635330--30635480 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
30635320 TTAATCACGT
*
30635330 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
30635395 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
30635410 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
30635473 CCGGATAT
64 CCGGATAT
30635481 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:30639033 original size:24 final size:24
Alignment explanation
Indices: 30638981--30639146 Score: 239
Period size: 24 Copynumber: 7.0 Consensus size: 24
30638971 GCTTTATCAT
*
30638981 ATAACTGGAGGCCT-AGCCTCTTTTA
1 ATAACTGG-GGCATAAGCC-CTTTTA
* *
30639006 ATAACTGGGGCAAAAGCCCTTTTT
1 ATAACTGGGGCATAAGCCCTTTTA
30639030 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
* *
30639053 ATAACTGGGGCGTAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
*
30639077 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTA
30639101 ATAACTGGGGCATAAGCCC-TTTA
1 ATAACTGGGGCATAAGCCCTTTTA
30639124 ATAACTGGGGCATAAGCCCTTTT
1 ATAACTGGGGCATAAGCCCTTTT
30639147 GCACTTCCTC
Statistics
Matches: 129, Mismatches: 9, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
23 43 0.33
24 74 0.57
25 12 0.09
ACGTcount: A:0.27, C:0.22, G:0.23, T:0.29
Consensus pattern (24 bp):
ATAACTGGGGCATAAGCCCTTTTA
Found at i:30639057 original size:47 final size:48
Alignment explanation
Indices: 30638980--30639146 Score: 241
Period size: 47 Copynumber: 3.5 Consensus size: 48
30638970 TGCTTTATCA
* *
30638980 TATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTT
1 TATAACTGG-GGCATAAGCC-CTTTTAATAACTGGGGCATAAGCCCTTTT
*
30639029 TATAACTGGGGCATAAGCCC-TTTAATAACTGGGGCGTAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
* *
30639076 GATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGCCC-TTT
1 TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
*
30639123 AATAACTGGGGCATAAGCCCTTTT
1 TATAACTGGGGCATAAGCCCTTTT
30639147 GCACTTCCTC
Statistics
Matches: 109, Mismatches: 7, Indels: 6
0.89 0.06 0.05
Matches are distributed among these distances:
47 70 0.64
48 26 0.24
49 13 0.12
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (48 bp):
TATAACTGGGGCATAAGCCCTTTTAATAACTGGGGCATAAGCCCTTTT
Found at i:30639081 original size:71 final size:71
Alignment explanation
Indices: 30638981--30639147 Score: 264
Period size: 71 Copynumber: 2.3 Consensus size: 71
30638971 GCTTTATCAT
* * *
30638981 ATAACTGGAGGCCT-AGCCTCTTTTAATAACTGGGGCAAAAGCCCTTTTTATAACTGGGGCATAA
1 ATAACTGG-GGCATAAGCC-CTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAA
30639045 GCCCTTTA
64 GCCCTTTA
* *
30639053 ATAACTGGGGCGTAAGCCCTTTTGATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCATAAGC
1 ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
30639118 CCTTTA
66 CCTTTA
30639124 ATAACTGGGGCATAAGCCCTTTTG
1 ATAACTGGGGCATAAGCCCTTTTG
30639148 CACTTCCTCC
Statistics
Matches: 89, Mismatches: 5, Indels: 3
0.92 0.05 0.03
Matches are distributed among these distances:
71 77 0.87
72 12 0.13
ACGTcount: A:0.26, C:0.22, G:0.23, T:0.29
Consensus pattern (71 bp):
ATAACTGGGGCATAAGCCCTTTTGATAACTGGGGCAAAAGCCCTTTTGATAACTGGGGCATAAGC
CCTTTA
Found at i:30639218 original size:9 final size:9
Alignment explanation
Indices: 30639204--30639260 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 9
30639194 ATCTCATGTG
30639204 CATATCATA
1 CATATCATA
*
30639213 CATATCATGTG
1 CATATCA--TA
30639224 CATATCATA
1 CATATCATA
* *
30639233 CATGTCATGTG
1 CATATCA--TA
30639244 CATATCATA
1 CATATCATA
30639253 CATATCAT
1 CATATCAT
30639261 GTTTATCAAA
Statistics
Matches: 38, Mismatches: 6, Indels: 8
0.73 0.12 0.15
Matches are distributed among these distances:
9 23 0.61
11 15 0.39
ACGTcount: A:0.35, C:0.21, G:0.09, T:0.35
Consensus pattern (9 bp):
CATATCATA
Found at i:30639220 original size:20 final size:20
Alignment explanation
Indices: 30639192--30639262 Score: 124
Period size: 20 Copynumber: 3.5 Consensus size: 20
30639182 GCATTTATGA
*
30639192 ACATCTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
30639212 ACATATCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
*
30639232 ACATGTCATGTGCATATCAT
1 ACATATCATGTGCATATCAT
30639252 ACATATCATGT
1 ACATATCATGT
30639263 TTATCAAAAT
Statistics
Matches: 48, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 48 1.00
ACGTcount: A:0.32, C:0.21, G:0.11, T:0.35
Consensus pattern (20 bp):
ACATATCATGTGCATATCAT
Found at i:30639227 original size:11 final size:11
Alignment explanation
Indices: 30639197--30639251 Score: 55
Period size: 11 Copynumber: 5.4 Consensus size: 11
30639187 TATGAACATC
30639197 TCATGTGCATA
1 TCATGTGCATA
*
30639208 TCA--TACATA
1 TCATGTGCATA
30639217 TCATGTGCATA
1 TCATGTGCATA
* *
30639228 TCA--TACATG
1 TCATGTGCATA
30639237 TCATGTGCATA
1 TCATGTGCATA
30639248 TCAT
1 TCAT
30639252 ACATATCATG
Statistics
Matches: 34, Mismatches: 6, Indels: 8
0.71 0.12 0.17
Matches are distributed among these distances:
9 15 0.44
11 19 0.56
ACGTcount: A:0.31, C:0.20, G:0.13, T:0.36
Consensus pattern (11 bp):
TCATGTGCATA
Found at i:30639341 original size:25 final size:24
Alignment explanation
Indices: 30639299--30639346 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
30639289 ATATATAAAC
* * *
30639299 CCTAGGGGTATAATGGTCACTTTTA
1 CCTAGGGGCAAAACGGTCA-TTTTA
30639324 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
30639347 CATGTTATAG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.31
Consensus pattern (24 bp):
CCTAGGGGCAAAACGGTCATTTTA
Found at i:30640615 original size:27 final size:27
Alignment explanation
Indices: 30640586--30640923 Score: 439
Period size: 27 Copynumber: 12.6 Consensus size: 27
30640576 GGTTATTTTA
* *
30640586 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
30640613 GTAATTCTGTAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
30640640 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
*
30640667 GTAATTCTATAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
30640694 GTAATTCTGTAAATCGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
30640721 ATAATTATGTAAATCG-GGGTAAAATG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* *
30640747 GTAATTATGTAAATTG-GGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
**
30640773 GTAATTCTGTAAATCGAGGGTAAAATA
1 GTAATTCTGTAAATCGAGGGTAAAACG
30640800 GTAATTCTGTAAA-CTGAGGGTAAAACG
1 GTAATTCTGTAAATC-GAGGGTAAAACG
*
30640827 GTAATTCTGTAAATCAAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
* ** * *
30640854 GTAATTTTACAAATCAAGGGTAAAACA
1 GTAATTCTGTAAATCGAGGGTAAAACG
* * *
30640881 GTAATTCTATAACTTGAGGGTAAAACG
1 GTAATTCTGTAAATCGAGGGTAAAACG
30640908 GTAATTCTGTAAATCG
1 GTAATTCTGTAAATCG
30640924 GGAGTACTTT
Statistics
Matches: 274, Mismatches: 34, Indels: 6
0.87 0.11 0.02
Matches are distributed among these distances:
26 47 0.17
27 226 0.82
28 1 0.00
ACGTcount: A:0.40, C:0.09, G:0.22, T:0.28
Consensus pattern (27 bp):
GTAATTCTGTAAATCGAGGGTAAAACG
Found at i:30640921 original size:187 final size:187
Alignment explanation
Indices: 30640586--30640925 Score: 520
Period size: 187 Copynumber: 1.8 Consensus size: 187
30640576 GGTTATTTTA
*
30640586 GTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
* * * * * *
30640651 AATCGAGGGTAAAATGGTAATTCTATAAATCGAGGGTAAAACGGTAATTCTGTAAATCGAGGGTA
66 AATCAAGGGTAAAACGGTAATTCTACAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTA
30640716 AAACGATAATTATGTAAATCGGGGTAAAATGGTAATTATGTAAATTGGGGTAAAACG
131 AAACGATAATTATGTAAATCGGGGTAAAATGGTAATTATGTAAATTGGGGTAAAACG
* * * *
30640773 GTAATTCTGTAAATCGAGGGTAAAATAGTAATTCTGTAAA-CTGAGGGTAAAACGGTAATTCTGT
1 GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATC-AAGGGTAAAACAGTAATTCTAT
* * *
30640837 AAATCAAGGGTAAAACGGTAATTTTACAAATCAAGGGTAAAACAGTAATTCTATAACTTGAGGGT
65 AAATCAAGGGTAAAACGGTAATTCTACAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGT
* *
30640902 AAAACGGTAATTCTGTAAATCGGG
130 AAAACGATAATTATGTAAATCGGG
30640926 AGTACTTTGG
Statistics
Matches: 136, Mismatches: 16, Indels: 2
0.88 0.10 0.01
Matches are distributed among these distances:
186 1 0.01
187 135 0.99
ACGTcount: A:0.40, C:0.09, G:0.23, T:0.28
Consensus pattern (187 bp):
GTAATTCTGTAAATCGAGGGTAAAACAGTAATTCTGTAAATCAAGGGTAAAACAGTAATTCTATA
AATCAAGGGTAAAACGGTAATTCTACAAATCAAGGGTAAAACAGTAATTCTATAAATCGAGGGTA
AAACGATAATTATGTAAATCGGGGTAAAATGGTAATTATGTAAATTGGGGTAAAACG
Found at i:30642758 original size:39 final size:39
Alignment explanation
Indices: 30642715--30642791 Score: 154
Period size: 39 Copynumber: 2.0 Consensus size: 39
30642705 TTGAAATTTG
30642715 AAACTTAAAAGCCCTTAGGCCATGTGTCTTTCTCTTTTT
1 AAACTTAAAAGCCCTTAGGCCATGTGTCTTTCTCTTTTT
30642754 AAACTTAAAAGCCCTTAGGCCATGTGTCTTTCTCTTTT
1 AAACTTAAAAGCCCTTAGGCCATGTGTCTTTCTCTTTT
30642792 CTTTTTTCTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.40
Consensus pattern (39 bp):
AAACTTAAAAGCCCTTAGGCCATGTGTCTTTCTCTTTTT
Found at i:30655726 original size:46 final size:43
Alignment explanation
Indices: 30655640--30655759 Score: 123
Period size: 46 Copynumber: 2.7 Consensus size: 43
30655630 GTGTGCCAGT
*
30655640 GTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAAC
1 GTAAGACATGTCTGGGACATGCATCGG---CATTACGAGAGCCAAC
* * **
30655686 GTAAGACATGTCTAGGACATGCATCGGCATTGAAGCGAGAGTCAGT
1 GTAAGACATGTCTGGGACATGCATCGGCATT--A-CGAGAGCCAAC
* *
30655732 GTAAGACATATCTGGGACATACATCGGC
1 GTAAGACATGTCTGGGACATGCATCGGC
30655760 CTCGAGATAT
Statistics
Matches: 63, Mismatches: 8, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
43 4 0.06
45 1 0.02
46 58 0.92
ACGTcount: A:0.31, C:0.21, G:0.28, T:0.21
Consensus pattern (43 bp):
GTAAGACATGTCTGGGACATGCATCGGCATTACGAGAGCCAAC
Found at i:30655822 original size:92 final size:93
Alignment explanation
Indices: 30655631--30655830 Score: 214
Period size: 92 Copynumber: 2.2 Consensus size: 93
30655621 GGGTGATATG
* * * *
30655631 TGTGCCAGTGTAAGACATGTCTGGGACATGCATCGGCCACATTATGAGAGCCAACGTAAGACATG
1 TGTGTCAGTGTAAGACATATCTGGGACATACATCGGCCACAATATGAGAGCCAACGTAAGACATG
*
30655696 TCTAGGACATGCATCGGCATTGAAGCGA
66 TCTAGGACATGCATCGACATTGAAGCGA
* * **
30655724 -GAGTCAGTGTAAGACATATCTGGGACATACATCGGCCTCGAGATATGCA-AGCCAGTGTAAGAC
1 TGTGTCAGTGTAAGACATATCTGGGACATACATCGGCCAC-A-ATATG-AGAGCCAACGTAAGAC
* * *
30655787 CTGTTTGGGACATGGCATCGAC-TTG-A-C-A
63 ATGTCTAGGACAT-GCATCGACATTGAAGCGA
30655815 TGTGTCAGTGTAAGAC
1 TGTGTCAGTGTAAGAC
30655831 CTGTCTAGGA
Statistics
Matches: 89, Mismatches: 13, Indels: 11
0.79 0.12 0.10
Matches are distributed among these distances:
91 1 0.01
92 49 0.55
93 2 0.02
94 29 0.33
95 8 0.09
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.23
Consensus pattern (93 bp):
TGTGTCAGTGTAAGACATATCTGGGACATACATCGGCCACAATATGAGAGCCAACGTAAGACATG
TCTAGGACATGCATCGACATTGAAGCGA
Found at i:30659402 original size:34 final size:34
Alignment explanation
Indices: 30659364--30659431 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
30659354 TCCTAACATG
30659364 CAACTATATGAATGAAATAGATTTTAGCAGAACT
1 CAACTATATGAATGAAATAGATTTTAGCAGAACT
30659398 CAACTATATGAATGAAATAGATTTTAGCAGAACT
1 CAACTATATGAATGAAATAGATTTTAGCAGAACT
30659432 AACGCAATAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.44, C:0.12, G:0.15, T:0.29
Consensus pattern (34 bp):
CAACTATATGAATGAAATAGATTTTAGCAGAACT
Found at i:30659854 original size:7 final size:7
Alignment explanation
Indices: 30659842--30659872 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
30659832 GATGAATTAG
30659842 TGAGGGA
1 TGAGGGA
30659849 TGAGGGA
1 TGAGGGA
*
30659856 TGATGGA
1 TGAGGGA
30659863 TGAGGGA
1 TGAGGGA
30659870 TGA
1 TGA
30659873 TTAGAAAAGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.29, C:0.00, G:0.52, T:0.19
Consensus pattern (7 bp):
TGAGGGA
Found at i:30668337 original size:19 final size:18
Alignment explanation
Indices: 30668284--30668395 Score: 50
Period size: 17 Copynumber: 6.1 Consensus size: 18
30668274 TTATTAAATT
*
30668284 TTAATAAAAAT-TAAAATA
1 TTAA-AAAAATATAAAAAA
** *
30668302 TTAAAAATGTATTAAAAA
1 TTAAAAAAATATAAAAAA
30668320 TTAGAAAAAATAT-AAAAA
1 TTA-AAAAAATATAAAAAA
* *
30668338 TCGTAAAAACTATATAAAAAT
1 T--TAAAAA-AATATAAAAAA
* * *
30668359 TGTAACAAATTATAAAATA
1 T-TAAAAAAATATAAAAAA
* *
30668378 -TATAAAATTATAAAAAA
1 TTAAAAAAATATAAAAAA
30668395 T
1 T
30668396 ATTATAAAAA
Statistics
Matches: 71, Mismatches: 16, Indels: 14
0.70 0.16 0.14
Matches are distributed among these distances:
17 18 0.25
18 18 0.25
19 18 0.25
20 12 0.17
21 5 0.07
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (18 bp):
TTAAAAAAATATAAAAAA
Found at i:30668354 original size:20 final size:20
Alignment explanation
Indices: 30668329--30668375 Score: 62
Period size: 20 Copynumber: 2.4 Consensus size: 20
30668319 ATTAGAAAAA
30668329 ATATAAAAATCGTAA-AAACT
1 ATATAAAAATCGTAACAAA-T
*
30668349 ATATAAAAATTGTAACAAAT
1 ATATAAAAATCGTAACAAAT
30668369 -TATAAAA
1 ATATAAAA
30668376 TATATAAAAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
19 7 0.28
20 15 0.60
21 3 0.12
ACGTcount: A:0.62, C:0.06, G:0.04, T:0.28
Consensus pattern (20 bp):
ATATAAAAATCGTAACAAAT
Found at i:30668356 original size:10 final size:10
Alignment explanation
Indices: 30668296--30668413 Score: 81
Period size: 9 Copynumber: 12.2 Consensus size: 10
30668286 AATAAAAATT
30668296 AAAATAT-TA
1 AAAATATATA
*
30668305 AAAATGTATTA
1 AAAATATA-TA
*
30668316 AAAAT-TAGA
1 AAAATATATA
30668325 AAAA-ATATA
1 AAAATATATA
*
30668334 AAAATCGTA-A
1 AAAAT-ATATA
*
30668344 AAACTATATA
1 AAAATATATA
*
30668354 AAAAT-TGTA
1 AAAATATATA
30668363 ACAAAT-TAT-
1 A-AAATATATA
30668372 AAAATATATA
1 AAAATATATA
*
30668382 AAATTATA-A
1 AAAATATATA
30668391 AAAATATTATA
1 AAAATA-TATA
*
30668402 AAAATTTATA
1 AAAATATATA
30668412 AA
1 AA
30668414 GTCATAAGAA
Statistics
Matches: 86, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
8 4 0.05
9 34 0.40
10 33 0.38
11 15 0.17
ACGTcount: A:0.64, C:0.03, G:0.03, T:0.31
Consensus pattern (10 bp):
AAAATATATA
Found at i:30668397 original size:17 final size:17
Alignment explanation
Indices: 30668365--30668397 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30668355 AAATTGTAAC
*
30668365 AAATTATAAAATATATA
1 AAATTATAAAAAATATA
30668382 AAATTATAAAAAATAT
1 AAATTATAAAAAATAT
30668398 TATAAAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (17 bp):
AAATTATAAAAAATATA
Found at i:30668412 original size:30 final size:29
Alignment explanation
Indices: 30668365--30668436 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 29
30668355 AAATTGTAAC
*
30668365 AAATTAT-AAAATATATAAAATTATAAAA
1 AAATTATAAAAATATATAAAATCATAAAA
* * *
30668393 AATATTATAAAAATTTATAAAGTCATAAGA
1 AA-ATTATAAAAATATATAAAATCATAAAA
30668423 AAATTATACAAAAT
1 AAATTATA-AAAAT
30668437 GTAAAGAAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
28 2 0.05
29 11 0.30
30 24 0.65
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (29 bp):
AAATTATAAAAATATATAAAATCATAAAA
Found at i:30668683 original size:37 final size:38
Alignment explanation
Indices: 30668612--30668693 Score: 98
Period size: 37 Copynumber: 2.2 Consensus size: 38
30668602 TCATTAAATT
** *
30668612 TTTTTATGATTTTTATAAAATTTTGCAATTTTTTTA-A
1 TTTTTATGATTTTTATAAAAAATTGCAATATTTTTATA
30668649 TTTTTATGATTTTTATAAAAAAATT-CTAA-ATTTTTATA
1 TTTTTATGATTTTTAT-AAAAAATTGC-AATATTTTTATA
30668687 TTTTTAT
1 TTTTTAT
30668694 TAAAATTTAA
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
37 23 0.59
38 16 0.41
ACGTcount: A:0.33, C:0.02, G:0.04, T:0.61
Consensus pattern (38 bp):
TTTTTATGATTTTTATAAAAAATTGCAATATTTTTATA
Found at i:30668731 original size:19 final size:17
Alignment explanation
Indices: 30668681--30668733 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 17
30668671 ATTCTAAATT
30668681 TTTATATTTTTATTAAAA
1 TTTATATTTTTA-TAAAA
*
30668699 TTTAATAATTTTATAAAA
1 TTT-ATATTTTTATAAAA
30668717 TTTATTATTTATTATAA
1 TTTA-TATTT-TTATAA
30668734 TTTTTAGTAA
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
17 1 0.03
18 15 0.50
19 14 0.47
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TTTATATTTTTATAAAA
Found at i:30671675 original size:30 final size:30
Alignment explanation
Indices: 30671641--30671703 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
30671631 ACTTATTTTA
*
30671641 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTCTAAAGACAT
*
30671671 TTGTTAATTTTGTTATTATTCTAAAGGCAT
1 TTGTTAATTTTGTTATTATTCTAAAGACAT
30671701 TTG
1 TTG
30671704 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.05, G:0.13, T:0.56
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTCTAAAGACAT
Found at i:30673259 original size:57 final size:57
Alignment explanation
Indices: 30673171--30673284 Score: 201
Period size: 57 Copynumber: 2.0 Consensus size: 57
30673161 ATTGCCTCGT
* *
30673171 TAAAAATCTTACTAAGAAACCTAGAGGACAAAACCTCGGTTAAGGGAAAAAGTGTAC
1 TAAAAATCTTACTAAGAAACCTAGAGAACAAAACCTCGGTTAAGGGAAAAAGAGTAC
*
30673228 TAAAAATCTTACTAAGAAACCTAGCGAACAAAACCTCGGTTAAGGGAAAAAGAGTAC
1 TAAAAATCTTACTAAGAAACCTAGAGAACAAAACCTCGGTTAAGGGAAAAAGAGTAC
30673285 AACATATATT
Statistics
Matches: 54, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
57 54 1.00
ACGTcount: A:0.46, C:0.17, G:0.18, T:0.18
Consensus pattern (57 bp):
TAAAAATCTTACTAAGAAACCTAGAGAACAAAACCTCGGTTAAGGGAAAAAGAGTAC
Found at i:30676736 original size:27 final size:27
Alignment explanation
Indices: 30676677--30676727 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
30676667 TCTAATATGT
30676677 TATATGTTCTGAAAATATGATAAATGA
1 TATATGTTCTGAAAATATGATAAATGA
* *
30676704 TATATGTTTTGAAAATCTGA-AAAT
1 TATATGTTCTGAAAATATGATAAAT
30676728 TCTGATATGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 4 0.18
27 18 0.82
ACGTcount: A:0.43, C:0.04, G:0.14, T:0.39
Consensus pattern (27 bp):
TATATGTTCTGAAAATATGATAAATGA
Found at i:30680502 original size:13 final size:13
Alignment explanation
Indices: 30680486--30680514 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
30680476 TTTAAATTAA
30680486 TTAGTTAATTAGT
1 TTAGTTAATTAGT
30680499 TTAGTTAATTAGT
1 TTAGTTAATTAGT
30680512 TTA
1 TTA
30680515 ATAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:30685986 original size:6 final size:6
Alignment explanation
Indices: 30685975--30686007 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
30685965 TCCTCCTATC
*
30685975 TTTTTA TTTTTA TTTTTA TTTTTA TTTTCA TTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT
30686008 CAATTTTATT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.15, C:0.03, G:0.00, T:0.82
Consensus pattern (6 bp):
TTTTTA
Found at i:30686013 original size:18 final size:18
Alignment explanation
Indices: 30685975--30686014 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
30685965 TCCTCCTATC
* **
30685975 TTTTTATTTTTATTTTTA
1 TTTTTATTTTCATTTCAA
30685993 TTTTTATTTTCATTTCAA
1 TTTTTATTTTCATTTCAA
30686011 TTTT
1 TTTT
30686015 ATTATTTTCT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.05, G:0.00, T:0.78
Consensus pattern (18 bp):
TTTTTATTTTCATTTCAA
Found at i:30688815 original size:13 final size:13
Alignment explanation
Indices: 30688797--30688825 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
30688787 TTTAGTTTAA
30688797 TTAGTTAATTAGT
1 TTAGTTAATTAGT
30688810 TTAGTTAATTAGT
1 TTAGTTAATTAGT
30688823 TTA
1 TTA
30688826 AGAAACAACC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.14, T:0.55
Consensus pattern (13 bp):
TTAGTTAATTAGT
Found at i:30691940 original size:20 final size:21
Alignment explanation
Indices: 30691915--30691954 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
30691905 TAATGGTCAG
30691915 TTTGAAAGA-ATGATTCAGAT
1 TTTGAAAGATATGATTCAGAT
*
30691935 TTTGAAAGATATGCTTCAGA
1 TTTGAAAGATATGATTCAGA
30691955 GCTGTGTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 9 0.50
21 9 0.50
ACGTcount: A:0.38, C:0.07, G:0.20, T:0.35
Consensus pattern (21 bp):
TTTGAAAGATATGATTCAGAT
Found at i:30693164 original size:15 final size:16
Alignment explanation
Indices: 30693146--30693175 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
30693136 TTTTCACGTT
30693146 CTTC-TTTTTCTTTTC
1 CTTCTTTTTTCTTTTC
30693161 CTTCTTTTTTCTTTT
1 CTTCTTTTTTCTTTT
30693176 TATGAAGTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.23, G:0.00, T:0.77
Consensus pattern (16 bp):
CTTCTTTTTTCTTTTC
Found at i:30700052 original size:30 final size:30
Alignment explanation
Indices: 30700000--30700091 Score: 98
Period size: 30 Copynumber: 3.1 Consensus size: 30
30699990 TACACGGGTG
** *
30700000 ATTAA-GTTGCTCATGCAGGCTGACATTAT
1 ATTAAGGTTGCTCACACAAGCTGACATTAT
* *
30700029 ATTAGGGTTTCTCACACAAGCTGACATTAT
1 ATTAAGGTTGCTCACACAAGCTGACATTAT
* * *
30700059 ATCAAGGTTGCTCACAGAAGCTTAC-TTAT
1 ATTAAGGTTGCTCACACAAGCTGACATTAT
30700088 ATTA
1 ATTA
30700092 CGTTACCCAT
Statistics
Matches: 51, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
29 11 0.22
30 40 0.78
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (30 bp):
ATTAAGGTTGCTCACACAAGCTGACATTAT
Found at i:30704339 original size:28 final size:29
Alignment explanation
Indices: 30704268--30704340 Score: 94
Period size: 29 Copynumber: 2.6 Consensus size: 29
30704258 CATGACCAGT
* *
30704268 AAAACGCATCCAAGTCAGCACGCTAAAGA
1 AAAACGCATCCAGGTCAGCACACTAAAGA
* *
30704297 AAAACGCGTCCAGGTCAGCGCACTAAA-A
1 AAAACGCATCCAGGTCAGCACACTAAAGA
*
30704325 AAAACGCATCTAGGTC
1 AAAACGCATCCAGGTC
30704341 TACATTTTTC
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
28 15 0.39
29 23 0.61
ACGTcount: A:0.41, C:0.27, G:0.19, T:0.12
Consensus pattern (29 bp):
AAAACGCATCCAGGTCAGCACACTAAAGA
Found at i:30704434 original size:42 final size:42
Alignment explanation
Indices: 30704362--30704457 Score: 106
Period size: 42 Copynumber: 2.3 Consensus size: 42
30704352 CTGTATTTTT
*
30704362 TTAGGGTTTTAATTGTTTAATTAGGGTTTAAA-ATTTATTAAA
1 TTAGGGTTTTAATTGTTTAATTAAGGTTTAAATATTTATT-AA
* ** *
30704404 TTAGGGTTTTAATAT-TTTATTTAATTTTTAAATTTTTATTAA
1 TTAGGGTTTTAAT-TGTTTAATTAAGGTTTAAATATTTATTAA
*
30704446 TTAGTGTTTTAA
1 TTAGGGTTTTAA
30704458 GGTTTTAGGA
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
42 39 0.85
43 7 0.15
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (42 bp):
TTAGGGTTTTAATTGTTTAATTAAGGTTTAAATATTTATTAA
Found at i:30708971 original size:4 final size:5
Alignment explanation
Indices: 30708917--30708973 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
30708907 TTTTAGAAGC
*
30708917 ATTTT TTTTT ATTTT -TTTT AATCTTT AAATTTT ATTTT ATTTT ATTTT
1 ATTTT ATTTT ATTTT ATTTT -AT-TTT --ATTTT ATTTT ATTTT ATTTT
30708965 A-TTT ATTTT
1 ATTTT ATTTT
30708974 TCTATTGTCA
Statistics
Matches: 45, Mismatches: 2, Indels: 10
0.79 0.04 0.18
Matches are distributed among these distances:
4 8 0.18
5 27 0.60
6 1 0.02
7 6 0.13
8 3 0.07
ACGTcount: A:0.21, C:0.02, G:0.00, T:0.77
Consensus pattern (5 bp):
ATTTT
Found at i:30709533 original size:16 final size:15
Alignment explanation
Indices: 30709508--30709549 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
30709498 TTTTTAATAT
*
30709508 AAATTCAACACTTATA
1 AAATTTAACA-TTATA
*
30709524 AAATTTAACAATA-A
1 AAATTTAACATTATA
30709538 AAATTTAACATT
1 AAATTTAACATT
30709550 TATTTTTTCA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 12 0.52
15 2 0.09
16 9 0.39
ACGTcount: A:0.55, C:0.12, G:0.00, T:0.33
Consensus pattern (15 bp):
AAATTTAACATTATA
Found at i:30710571 original size:30 final size:32
Alignment explanation
Indices: 30710531--30710600 Score: 92
Period size: 30 Copynumber: 2.3 Consensus size: 32
30710521 AGATTATATC
30710531 TTTATAATTTTTAAAAG-ATTAAA-TAAAATT
1 TTTATAATTTTTAAAAGAATTAAAGTAAAATT
* * *
30710561 TTTATTATTTTTAAGAGAATTAAAGTACAA-T
1 TTTATAATTTTTAAAAGAATTAAAGTAAAATT
30710592 TTTATAATT
1 TTTATAATT
30710601 ACTAATTTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
30 15 0.44
31 15 0.44
32 4 0.12
ACGTcount: A:0.44, C:0.01, G:0.06, T:0.49
Consensus pattern (32 bp):
TTTATAATTTTTAAAAGAATTAAAGTAAAATT
Found at i:30716790 original size:10 final size:10
Alignment explanation
Indices: 30716775--30716799 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
30716765 ATTCAAAATA
30716775 TCACAGAGTT
1 TCACAGAGTT
30716785 TCACAGAGTT
1 TCACAGAGTT
30716795 TCACA
1 TCACA
30716800 TCCTCACTAA
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:0.32, C:0.24, G:0.16, T:0.28
Consensus pattern (10 bp):
TCACAGAGTT
Found at i:30718302 original size:23 final size:24
Alignment explanation
Indices: 30718276--30718330 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 24
30718266 GTTAAAGGTG
* *
30718276 AAATTAATAAA-AACATAAAATAA
1 AAATTAAAAAAGAAAATAAAATAA
*
30718299 AAA-TAAAAAAGAAAATAAAATTA
1 AAATTAAAAAAGAAAATAAAATAA
30718322 AAATTAAAA
1 AAATTAAAA
30718331 TAAAATTAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
22 6 0.22
23 16 0.59
24 5 0.19
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (24 bp):
AAATTAAAAAAGAAAATAAAATAA
Found at i:30718303 original size:6 final size:6
Alignment explanation
Indices: 30718281--30718340 Score: 52
Period size: 6 Copynumber: 10.0 Consensus size: 6
30718271 AGGTGAAATT
* * *
30718281 AATAAA AACATAA AATAAA AATAAA AA-AGAA AAT-AA AATTAA AATTAA
1 AATAAA AATA-AA AATAAA AATAAA AATA-AA AATAAA AATAAA AATAAA
*
30718329 AATAAA ATTAAA
1 AATAAA AATAAA
30718341 CATCATCATC
Statistics
Matches: 46, Mismatches: 4, Indels: 8
0.79 0.07 0.14
Matches are distributed among these distances:
5 6 0.13
6 35 0.76
7 5 0.11
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (6 bp):
AATAAA
Found at i:30718306 original size:11 final size:11
Alignment explanation
Indices: 30718285--30718340 Score: 58
Period size: 12 Copynumber: 4.8 Consensus size: 11
30718275 GAAATTAATA
30718285 AAAACATAAAAT
1 AAAA-ATAAAAT
*
30718297 AAAAATAAAAA
1 AAAAATAAAAT
30718308 AGAAAATAAAATT
1 A-AAAATAAAA-T
*
30718321 AAAATTAAAAT
1 AAAAATAAAAT
*
30718332 AAAATTAAA
1 AAAAATAAA
30718341 CATCATCATC
Statistics
Matches: 39, Mismatches: 3, Indels: 5
0.83 0.06 0.11
Matches are distributed among these distances:
11 17 0.44
12 21 0.54
13 1 0.03
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:30718313 original size:18 final size:19
Alignment explanation
Indices: 30718281--30718324 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 19
30718271 AGGTGAAATT
*
30718281 AATAAAAACATAAAATAAA
1 AATAAAAACAGAAAATAAA
30718300 AATAAAAA-AGAAAATAAA
1 AATAAAAACAGAAAATAAA
*
30718318 ATTAAAA
1 AATAAAA
30718325 TTAAAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 15 0.65
19 8 0.35
ACGTcount: A:0.80, C:0.02, G:0.02, T:0.16
Consensus pattern (19 bp):
AATAAAAACAGAAAATAAA
Found at i:30718324 original size:17 final size:17
Alignment explanation
Indices: 30718292--30718340 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
30718282 ATAAAAACAT
*
30718292 AAAATAAAAATAAAAAAG
1 AAAAT-AAAATTAAAAAG
**
30718310 AAAATAAAATTAAAATT
1 AAAATAAAATTAAAAAG
30718327 AAAATAAAATTAAA
1 AAAATAAAATTAAA
30718341 CATCATCATC
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
17 23 0.82
18 5 0.18
ACGTcount: A:0.78, C:0.00, G:0.02, T:0.20
Consensus pattern (17 bp):
AAAATAAAATTAAAAAG
Found at i:30726642 original size:40 final size:40
Alignment explanation
Indices: 30726559--30726779 Score: 259
Period size: 40 Copynumber: 5.5 Consensus size: 40
30726549 ACCCAAGTAT
** * *
30726559 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
30726597 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
30726637 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * * *
30726677 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
30726717 CTTCGGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCAC-TAGCACAAATGC
*
30726758 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
30726780 CATTCGAATA
Statistics
Matches: 153, Mismatches: 26, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 15 0.10
40 97 0.63
41 29 0.19
ACGTcount: A:0.24, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:30734714 original size:40 final size:40
Alignment explanation
Indices: 30734620--30734839 Score: 250
Period size: 40 Copynumber: 5.5 Consensus size: 40
30734610 ACCCAAGTAT
* ** * *
30734620 CTTCGGGATTTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
30734658 CTTCGGG-TTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
*
30734697 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
** * * *
30734737 CTTCGGGTTTTGGCCCGGATATAGTAACTCGCACAAATGC
1 CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
30734777 CTTC-GGATCTTAGTCCGGATATAGTCACTTAGCACAAAAGC
1 CTTCGGGA-CTTAGCCCGGATATAGTCAC-TAGCACAAATGC
30734818 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
30734840 CATTCGAATA
Statistics
Matches: 152, Mismatches: 24, Indels: 9
0.82 0.13 0.05
Matches are distributed among these distances:
37 5 0.03
38 22 0.14
39 13 0.09
40 82 0.54
41 27 0.18
42 3 0.02
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:30738132 original size:2 final size:2
Alignment explanation
Indices: 30738125--30738159 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
30738115 TCATACGTAT
30738125 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
30738160 TATATATATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:30738164 original size:2 final size:2
Alignment explanation
Indices: 30738159--30738188 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30738149 ACACACACAC
30738159 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
30738189 CAGTAATCAT
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:30746712 original size:44 final size:46
Alignment explanation
Indices: 30746652--30746818 Score: 157
Period size: 47 Copynumber: 3.6 Consensus size: 46
30746642 TATGCGTGCT
*
30746652 GATGCATGTCCTAGACATGTCTTACACTAGCACAACTCT-T-A-GCC
1 GATGCATGTCCCAGACATGTCTTACACTAGC-CAACTCTGTCAGGCC
* * * * *
30746696 GATGCATATCCCAGACACGTCTTACACTGGCTATCTCTGTCGAGGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGTC-AGGCC
30746743 GATGCATGTCCCAGACATGTCTTACACTAGCC--CTC-GTCTAGATGCC
1 GATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGTC-AG--GCC
* *
30746789 AATTCCATGTCCCAGACATGGTCTTACACT
1 GA-TGCATGTCCCAGACAT-GTCTTACACT
30746819 GGCTCTCATA
Statistics
Matches: 102, Mismatches: 13, Indels: 12
0.80 0.10 0.09
Matches are distributed among these distances:
43 5 0.05
44 33 0.32
45 3 0.03
46 5 0.05
47 46 0.45
48 10 0.10
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (46 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCCAACTCTGTCAGGCC
Found at i:30746849 original size:94 final size:91
Alignment explanation
Indices: 30746606--30746870 Score: 268
Period size: 94 Copynumber: 2.9 Consensus size: 91
30746596 ATTGTCGAAG
* * * *
30746606 CCATGTCTCAGACATGGTCTTACATTGGCTCTCATATATGCGTGCTGATGCATGTCCTAGACATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGAG-GC-GATGCATGTCCCAGACATG
* *
30746671 TCTTACACTAGCACAACTCTTAGCCGAT
64 TCTTACACTAGCACAACTCTGAGCCAAT
* * * * * *
30746699 GCATATCCCAGACA-CGTCTTACACTGGCTATC-TCTGTCGAGGCCGATGCATGTCCCAGACATG
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATATAT-GAGG-CGATGCATGTCCCAGACATG
**
30746762 TCTTACACTAGC-CCTCGTCTAGATGCCAATT
64 TCTTACACTAGCACAAC-TCT-GA-GCCAA-T
* *
30746793 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATATG-GGCAAAGCATGTCCCAGACATGT
1 CCATGTCCCAGACATGGTCTTACACTGGCTCTCAT-ATATGAGGCGATGCATGTCCCAGACATGT
*
30746857 CTTACACTGGCACA
65 CTTACACTAGCACA
30746871 CGAATCACCC
Statistics
Matches: 138, Mismatches: 24, Indels: 18
0.77 0.13 0.10
Matches are distributed among these distances:
90 2 0.01
91 37 0.27
92 19 0.14
93 15 0.11
94 42 0.30
95 19 0.14
96 2 0.01
97 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (91 bp):
CCATGTCCCAGACATGGTCTTACACTGGCTCTCATATATGAGGCGATGCATGTCCCAGACATGTC
TTACACTAGCACAACTCTGAGCCAAT
Found at i:30752208 original size:26 final size:26
Alignment explanation
Indices: 30752178--30752283 Score: 198
Period size: 26 Copynumber: 4.2 Consensus size: 26
30752168 TGAAATTCCC
30752178 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30752204 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30752230 ATCAT-GAACATTTACCTAA-CCATT
1 ATCATGGAACATTTACCTAACCCATT
30752254 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30752280 ATCA
1 ATCA
30752284 ATTTGTATCA
Statistics
Matches: 78, Mismatches: 0, Indels: 4
0.95 0.00 0.05
Matches are distributed among these distances:
24 10 0.13
25 28 0.36
26 40 0.51
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30752264 original size:50 final size:52
Alignment explanation
Indices: 30752178--30752283 Score: 198
Period size: 50 Copynumber: 2.1 Consensus size: 52
30752168 TGAAATTCCC
30752178 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
30752230 ATCAT-GAACATTTACCTAA-CCATTATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
30752280 ATCA
1 ATCA
30752284 ATTTGTATCA
Statistics
Matches: 54, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
50 35 0.65
51 14 0.26
52 5 0.09
ACGTcount: A:0.36, C:0.26, G:0.07, T:0.31
Consensus pattern (52 bp):
ATCATGGAACATTTACCTAACCCATTATCATGGAACATTTACCTAACCCATT
Found at i:30759242 original size:26 final size:26
Alignment explanation
Indices: 30759212--30759267 Score: 112
Period size: 26 Copynumber: 2.2 Consensus size: 26
30759202 TGAAATTCCC
30759212 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30759238 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
30759264 ATCA
1 ATCA
30759268 ATTTGTATCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.36, C:0.27, G:0.07, T:0.30
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:30760752 original size:12 final size:12
Alignment explanation
Indices: 30760735--30760759 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
30760725 ATTAAGATAA
30760735 TCACTTTAATAT
1 TCACTTTAATAT
30760747 TCACTTTAATAT
1 TCACTTTAATAT
30760759 T
1 T
30760760 AAATTAATAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.32, C:0.16, G:0.00, T:0.52
Consensus pattern (12 bp):
TCACTTTAATAT
Found at i:30770902 original size:15 final size:17
Alignment explanation
Indices: 30770882--30770915 Score: 54
Period size: 15 Copynumber: 2.1 Consensus size: 17
30770872 TAAAGCTTAG
30770882 TAAACTCG-TATAA-AA
1 TAAACTCGATATAATAA
30770897 TAAACTCGATATAATAA
1 TAAACTCGATATAATAA
30770914 TA
1 TA
30770916 TCCTCATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.47
16 5 0.29
17 4 0.24
ACGTcount: A:0.53, C:0.12, G:0.06, T:0.29
Consensus pattern (17 bp):
TAAACTCGATATAATAA
Found at i:30780813 original size:35 final size:35
Alignment explanation
Indices: 30780763--30780835 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
30780753 CAATACATGA
*
30780763 CATGCTATGGCAATTTTATAACATTCACATTCATT
1 CATGCTATGGAAATTTTATAACATTCACATTCATT
30780798 CATGCTATGGAAATTTTATAACATTCACATTCATT
1 CATGCTATGGAAATTTTATAACATTCACATTCATT
30780833 CAT
1 CAT
30780836 TCACAAGAAT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (35 bp):
CATGCTATGGAAATTTTATAACATTCACATTCATT
Found at i:30782464 original size:20 final size:20
Alignment explanation
Indices: 30782426--30782473 Score: 62
Period size: 20 Copynumber: 2.5 Consensus size: 20
30782416 TAAATTCTAA
* **
30782426 AAAGATAAATACATTTAATT
1 AAAGATAAATAAAGATAATT
30782446 AAAGATAAATAAAGATAATT
1 AAAGATAAATAAAGATAATT
30782466 AAA-ATAAA
1 AAAGATAAA
30782474 ATCCTAAATT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
19 5 0.20
20 20 0.80
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (20 bp):
AAAGATAAATAAAGATAATT
Found at i:30782517 original size:15 final size:15
Alignment explanation
Indices: 30782497--30782526 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30782487 ATAATCTTAA
*
30782497 TAATTATCTTAATAT
1 TAATTATCCTAATAT
30782512 TAATTATCCTAATAT
1 TAATTATCCTAATAT
30782527 AAATAAAATG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.40, C:0.10, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTATCCTAATAT
Found at i:30783382 original size:14 final size:14
Alignment explanation
Indices: 30783363--30783391 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
30783353 TTACTTTAAT
30783363 ATTAAATTAATATA
1 ATTAAATTAATATA
30783377 ATTAAATTAATATA
1 ATTAAATTAATATA
30783391 A
1 A
30783392 ATTCCCAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (14 bp):
ATTAAATTAATATA
Found at i:30786351 original size:13 final size:13
Alignment explanation
Indices: 30786333--30786358 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
30786323 GTGGTGCTTG
30786333 TGTAAAATAAACT
1 TGTAAAATAAACT
30786346 TGTAAAATAAACT
1 TGTAAAATAAACT
30786359 GGTGCTGAAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
TGTAAAATAAACT
Found at i:30788246 original size:21 final size:21
Alignment explanation
Indices: 30788222--30788270 Score: 80
Period size: 21 Copynumber: 2.3 Consensus size: 21
30788212 TTAAAAAAAT
30788222 AATTGAGGATTGAAAATTGGA
1 AATTGAGGATTGAAAATTGGA
*
30788243 AATTGAGGATTGAAGATTGGA
1 AATTGAGGATTGAAAATTGGA
*
30788264 AGTTGAG
1 AATTGAG
30788271 AATTTAGGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.33, T:0.29
Consensus pattern (21 bp):
AATTGAGGATTGAAAATTGGA
Found at i:30792193 original size:19 final size:21
Alignment explanation
Indices: 30792156--30792195 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
30792146 TTAATAAGAA
*
30792156 TATATATTTAATTTAATAATT
1 TATATATTTAATATAATAATT
30792177 TATAT-TTTAATAT-ATAATT
1 TATATATTTAATATAATAATT
30792196 AAATATTCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 7 0.39
21 5 0.28
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.57
Consensus pattern (21 bp):
TATATATTTAATATAATAATT
Found at i:30792652 original size:2 final size:2
Alignment explanation
Indices: 30792645--30792674 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
30792635 TATTTTAAAA
30792645 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
30792675 TAATTTTAAA
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:30792817 original size:116 final size:118
Alignment explanation
Indices: 30792665--30792883 Score: 354
Period size: 118 Copynumber: 1.9 Consensus size: 118
30792655 ATATATATAT
* * *
30792665 ATATATATATTAATTTTAAATTAATATCTAAATA-TTTTATTTTTTTATTTAT-AAAAAAGTTTT
1 ATATATATATTAATTTTAAATTAATATCTAAATATTTTTATATTTTTATTTATAAAAAAAATTAT
30792728 ATTTAGTCATC-TTAACATTTTTTAATGTTTACATTATACATATTATTTTTAAA
66 ATTTAGTCATCTTTAACA-TTTTTAATGTTTACATTATACATATTATTTTTAAA
* * *
30792781 ATATTTATATTAATTTTAATTTAATATCTAACTATTTTTATATTTTTATTTATAAAAAAAATTAT
1 ATATATATATTAATTTTAAATTAATATCTAAATATTTTTATATTTTTATTTATAAAAAAAATTAT
30792846 ATTTAGTCATCTTTAACATTTTTAATGTTTACATTATA
66 ATTTAGTCATCTTTAACATTTTTAATGTTTACATTATA
30792884 GTAGTATATA
Statistics
Matches: 94, Mismatches: 6, Indels: 4
0.90 0.06 0.04
Matches are distributed among these distances:
116 31 0.33
117 17 0.18
118 40 0.43
119 6 0.06
ACGTcount: A:0.38, C:0.05, G:0.02, T:0.54
Consensus pattern (118 bp):
ATATATATATTAATTTTAAATTAATATCTAAATATTTTTATATTTTTATTTATAAAAAAAATTAT
ATTTAGTCATCTTTAACATTTTTAATGTTTACATTATACATATTATTTTTAAA
Found at i:30792899 original size:118 final size:116
Alignment explanation
Indices: 30792665--30792915 Score: 337
Period size: 118 Copynumber: 2.1 Consensus size: 116
30792655 ATATATATAT
* * *
30792665 ATATATATATTAATTTTAAATTAATATCTAAATATTTTATTTTTTTATTTATAAAAAAGTTTTAT
1 ATATATATATTAATTTTAAATTAATATCTAAATATTTTATATTTTTATTTATAAAAAAATTATAT
* **
30792730 TTAGTCATCTTAACATTTTTTAATGTTTACATTATACATATTATTTTTAAA
66 TTAGTCATCTTAACATTTTTTAATGTTTACATTATACATAGTATTAATAAA
* * *
30792781 ATATTTATATTAATTTTAATTTAATATCTAACTATTTTTATATTTTTATTTATAAAAAAAATTAT
1 ATATATATATTAATTTTAAATTAATATCTAAATA-TTTTATATTTTTATTTAT-AAAAAAATTAT
*
30792846 ATTTAGTCATCTTTAACA-TTTTTAATGTTTACATTATA-GTAGTATATAATAAA
64 ATTTAGTCATC-TTAACATTTTTTAATGTTTACATTATACATAGTAT-TAATAAA
*
30792899 AT-TATAAATTTAATTTT
1 ATATATATA-TTAATTTT
30792916 TAAGTGTTAT
Statistics
Matches: 118, Mismatches: 12, Indels: 8
0.86 0.09 0.06
Matches are distributed among these distances:
116 31 0.26
117 26 0.22
118 55 0.47
119 6 0.05
ACGTcount: A:0.39, C:0.05, G:0.03, T:0.53
Consensus pattern (116 bp):
ATATATATATTAATTTTAAATTAATATCTAAATATTTTATATTTTTATTTATAAAAAAATTATAT
TTAGTCATCTTAACATTTTTTAATGTTTACATTATACATAGTATTAATAAA
Found at i:30793852 original size:3 final size:3
Alignment explanation
Indices: 30793844--30793916 Score: 146
Period size: 3 Copynumber: 24.3 Consensus size: 3
30793834 TAAGAAGTGT
30793844 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
30793892 TTA TTA TTA TTA TTA TTA TTA TTA T
1 TTA TTA TTA TTA TTA TTA TTA TTA T
30793917 CTAAGCTTAC
Statistics
Matches: 70, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 70 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:30795917 original size:3 final size:3
Alignment explanation
Indices: 30795909--30795949 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
30795899 GAAATGCCAT
30795909 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
1 ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG ATG AT
30795950 TGCCTTAGGT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.32, T:0.34
Consensus pattern (3 bp):
ATG
Found at i:30800556 original size:140 final size:140
Alignment explanation
Indices: 30800310--30800582 Score: 302
Period size: 140 Copynumber: 1.9 Consensus size: 140
30800300 TTTTGATGTT
* * * * * * *
30800310 AAATCTTTTATGTAACAGTAATAATATTGGTTGCCAAATATCATTTTGTAATAGTATTTTAATTG
1 AAATCATTTATATAACAATAATAACATTGATTGCCAAATATCATTTTGCAATAGTATTTTAATCG
* * * * * *
30800375 GTTGTGTATTACATTGCACATCGATAATATGCCATTATCAAAAATTTATT-TGAACTATCATGAA
66 GATATGTATAACATTGCACATCGATAATATGCCATCATCAAAAATTTATTCT-AACAATCATAAA
30800439 ATGTAGTTACC
130 ATGTAGTTACC
* *
30800450 AAATCATTTATATAACAATAATACCATTGATTG-CAAATATTATTTTGCAA-AGATATTTTAATC
1 AAATCATTTATATAACAATAATAACATTGATTGCCAAATATCATTTTGCAATAG-TATTTTAATC
** * * *
30800513 GGATATGTATAACATTTGCACAAT-GATTTTATGTCATCGTCAAATATTTATTCTAACAATCATA
65 GGATATGTATAACA-TTGCAC-ATCGATAATATGCCATCATCAAAAATTTATTCTAACAATCATA
30800577 AAATGT
128 AAATGT
30800583 GGTTGCCATG
Statistics
Matches: 109, Mismatches: 20, Indels: 8
0.80 0.15 0.06
Matches are distributed among these distances:
138 2 0.02
139 35 0.32
140 69 0.63
141 3 0.03
ACGTcount: A:0.37, C:0.12, G:0.11, T:0.40
Consensus pattern (140 bp):
AAATCATTTATATAACAATAATAACATTGATTGCCAAATATCATTTTGCAATAGTATTTTAATCG
GATATGTATAACATTGCACATCGATAATATGCCATCATCAAAAATTTATTCTAACAATCATAAAA
TGTAGTTACC
Found at i:30800978 original size:15 final size:15
Alignment explanation
Indices: 30800958--30800987 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30800948 CATTTTATTT
*
30800958 ATATTAGGATAATTA
1 ATATTAAGATAATTA
30800973 ATATTAAGATAATTA
1 ATATTAAGATAATTA
30800988 TTAGGATTAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.10, T:0.40
Consensus pattern (15 bp):
ATATTAAGATAATTA
Found at i:30807401 original size:3 final size:3
Alignment explanation
Indices: 30807393--30807491 Score: 111
Period size: 3 Copynumber: 34.0 Consensus size: 3
30807383 ATTTTAAATT
30807393 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA -TA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
* *
30807440 TT- TTA TTA TT- TTA TTTC TTA TT- TTA TTTA TTT TTAA TTA TT- TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA -TTA TTA TT-A TTA TTA TTA
30807484 TTA -TA TTA
1 TTA TTA TTA
30807492 ATAAAATTCT
Statistics
Matches: 83, Mismatches: 4, Indels: 18
0.79 0.04 0.17
Matches are distributed among these distances:
2 12 0.14
3 64 0.77
4 7 0.08
ACGTcount: A:0.29, C:0.01, G:0.00, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:30807510 original size:58 final size:57
Alignment explanation
Indices: 30807390--30807510 Score: 129
Period size: 58 Copynumber: 2.1 Consensus size: 57
30807380 TTAATTTTAA
* ** *
30807390 ATTTTATTATTATTATTATTATTATTATTATTATTATTATATTATTATTATTTTATT
1 ATTTTATTATTATTATTATTATTATTATTATTATTATTATATTAATAAAATTCTATT
* * *
30807447 ATTTTATTTCTTATT-TTATTTATTTTTAATTATT-TTATTATATTAATAAAATTCTCTT
1 ATTTTA-TTATTATTATTA-TTATTATT-ATTATTATTATTATATTAATAAAATTCTATT
*
30807505 CTTTTA
1 ATTTTA
30807511 AATAGGTAAA
Statistics
Matches: 53, Mismatches: 8, Indels: 5
0.80 0.12 0.08
Matches are distributed among these distances:
57 9 0.17
58 38 0.72
59 6 0.11
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (57 bp):
ATTTTATTATTATTATTATTATTATTATTATTATTATTATATTAATAAAATTCTATT
Found at i:30812941 original size:29 final size:28
Alignment explanation
Indices: 30812907--30813009 Score: 116
Period size: 29 Copynumber: 3.6 Consensus size: 28
30812897 TACTCAATCA
*
30812907 CGCACACTTAGTGCCATATGATTCAAGCC
1 CGCACACTTAGTGCCATAT-ATTCAAGCT
* * *
30812936 CGCACACATAGTGCCATATAGTCCAAACT
1 CGCACACTTAGTGCCATATA-TTCAAGCT
* *
30812965 CGCACACTTAGTGCCGTACATTACAAGCT
1 CGCACACTTAGTGCCATATATT-CAAGCT
*
30812994 CGCACACTCAGTGCCA
1 CGCACACTTAGTGCCA
30813010 ATCTCGTCAC
Statistics
Matches: 61, Mismatches: 11, Indels: 4
0.80 0.14 0.05
Matches are distributed among these distances:
28 2 0.03
29 59 0.97
ACGTcount: A:0.29, C:0.33, G:0.17, T:0.21
Consensus pattern (28 bp):
CGCACACTTAGTGCCATATATTCAAGCT
Found at i:30818902 original size:43 final size:42
Alignment explanation
Indices: 30818789--30818916 Score: 177
Period size: 43 Copynumber: 3.0 Consensus size: 42
30818779 GATTACCGAG
* *
30818789 ATGTGATTACATGTAAGACCATGTCTGAGACATTAGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
*
30818831 ATTGTGATTACGTGTAAGACCATGTCTGGGACATTGGCATTGAT
1 A-TGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTG-T
* * *
30818875 ATGTGATAACATGTAAGACCATATCTGGGATA-TGGCATTGT
1 ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
30818916 A
1 A
30818917 CAAGCTATAT
Statistics
Matches: 77, Mismatches: 7, Indels: 5
0.87 0.08 0.06
Matches are distributed among these distances:
41 2 0.03
42 9 0.12
43 64 0.83
44 2 0.03
ACGTcount: A:0.30, C:0.13, G:0.24, T:0.33
Consensus pattern (42 bp):
ATGTGATTACATGTAAGACCATGTCTGGGACATTGGCATTGT
Found at i:30823039 original size:28 final size:28
Alignment explanation
Indices: 30822986--30823053 Score: 113
Period size: 27 Copynumber: 2.5 Consensus size: 28
30822976 GCGTAGATCA
30822986 CGAAATTACCCCT-AAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
30823013 CGAAATTACCCCTAAAGAGCAAAATTAC
1 CGAAATTACCCCTAAAGAGCAAAATTAC
*
30823041 CGATA-TACCCCTA
1 CGAAATTACCCCTA
30823054 GGGTTTTAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
27 21 0.54
28 18 0.46
ACGTcount: A:0.43, C:0.28, G:0.10, T:0.19
Consensus pattern (28 bp):
CGAAATTACCCCTAAAGAGCAAAATTAC
Found at i:30825842 original size:22 final size:22
Alignment explanation
Indices: 30825808--30825852 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
30825798 TGGCACGTAT
*
30825808 ATATTTGGTCTTAAAATGGTTG
1 ATATTTGGTCTTAAAATGCTTG
*
30825830 ATATCTTGG-CTTATAATGCTTG
1 ATAT-TTGGTCTTAAAATGCTTG
30825852 A
1 A
30825853 ATGATTGAAG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.27, C:0.09, G:0.20, T:0.44
Consensus pattern (22 bp):
ATATTTGGTCTTAAAATGCTTG
Found at i:30829785 original size:37 final size:37
Alignment explanation
Indices: 30829737--30829820 Score: 134
Period size: 37 Copynumber: 2.3 Consensus size: 37
30829727 TAAACATAAG
*
30829737 TTAGCCCATACATATCCAAGATCA-GAAAAAATACATA
1 TTAGCCTATACATATCCAAGAT-AGGAAAAAATACATA
*
30829774 TTAGCCTATACATATCCAAGATAGGACAAAATACATA
1 TTAGCCTATACATATCCAAGATAGGAAAAAATACATA
30829811 TTAGCCTATA
1 TTAGCCTATA
30829821 TATGCCATAA
Statistics
Matches: 44, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
36 1 0.02
37 43 0.98
ACGTcount: A:0.45, C:0.20, G:0.10, T:0.25
Consensus pattern (37 bp):
TTAGCCTATACATATCCAAGATAGGAAAAAATACATA
Found at i:30830517 original size:42 final size:41
Alignment explanation
Indices: 30830404--30830526 Score: 160
Period size: 41 Copynumber: 3.0 Consensus size: 41
30830394 AGCCTAGTAT
* * * *
30830404 AATACACCGGCA-CAGAGCCTGCTAGGTAATAAACCTGATTT
1 AATACACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGA-TA
*
30830445 AATACACCGGCAT-AAAGCCTGCTAGGCAATAAGCTTGATA
1 AATACACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGATA
*
30830485 ACATACACCGGCATCAAATCCTGCTAGGCAATAAGCCTGATA
1 A-ATACACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGATA
30830527 TATCACTGTA
Statistics
Matches: 72, Mismatches: 7, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
40 2 0.03
41 45 0.62
42 25 0.35
ACGTcount: A:0.36, C:0.25, G:0.19, T:0.20
Consensus pattern (41 bp):
AATACACCGGCATCAAAGCCTGCTAGGCAATAAGCCTGATA
Found at i:30847883 original size:16 final size:18
Alignment explanation
Indices: 30847858--30847896 Score: 55
Period size: 17 Copynumber: 2.3 Consensus size: 18
30847848 AAATCCCAAA
*
30847858 AAAAATGTAA-AGAGAAG
1 AAAAATGTAAGAAAGAAG
30847875 AAAAA-GTAAGAAAGAAG
1 AAAAATGTAAGAAAGAAG
30847892 AAAAA
1 AAAAA
30847897 AATAAAACTG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 4 0.20
17 16 0.80
ACGTcount: A:0.72, C:0.00, G:0.21, T:0.08
Consensus pattern (18 bp):
AAAAATGTAAGAAAGAAG
Found at i:30849910 original size:29 final size:29
Alignment explanation
Indices: 30849877--30850008 Score: 140
Period size: 29 Copynumber: 4.6 Consensus size: 29
30849867 GTGACGAGAT
*
30849877 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* *
30849906 TGGCACTAAGTGTGCATGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * ***
30849935 TGGCACTAAGTGTGCGAGCTCGAAGGGCA
1 TGGCACTAAGTGTGCGTGCTGGAAATACA
* * * *
30849964 TGGCACTATGTGTGCGGGCT-TAAATCGCA
1 TGGCACTAAGTGTGCGTGCTGGAAAT-ACA
30849993 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30850009 AAATCGAGTA
Statistics
Matches: 88, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
28 2 0.02
29 86 0.98
ACGTcount: A:0.25, C:0.17, G:0.33, T:0.25
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATACA
Found at i:30855017 original size:40 final size:39
Alignment explanation
Indices: 30854750--30855006 Score: 390
Period size: 39 Copynumber: 6.5 Consensus size: 39
30854740 TAATGGAGAA
30854750 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
30854789 TTATATCCGGGCTAAGTCCCGAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
30854828 TTATATCCGGGCTAAGCCCCAAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
30854867 TTATATTCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
30854906 TTATATCCAGGCTAAGCCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* * *
30854945 TTATATCCGGGCTAAAGTCCCGTAGGC-TTTGTGCTGGTA
1 TTATATCCGGGCT-AAGTCCCGAAGGCATTCGTGCTGGTG
*
30854984 TTATATTCGGGCTTAAAGTCCCG
1 TTATATCCGGGC-T-AAGTCCCG
30855007 CATGCTTTGT
Statistics
Matches: 200, Mismatches: 16, Indels: 3
0.91 0.07 0.01
Matches are distributed among these distances:
39 179 0.89
40 21 0.10
ACGTcount: A:0.19, C:0.23, G:0.28, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:30858724 original size:16 final size:15
Alignment explanation
Indices: 30858699--30858732 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
30858689 AAAGTTGATA
*
30858699 ATAATCAATATACATT
1 ATAATAAATATA-ATT
30858715 ATAATAAATATAATT
1 ATAATAAATATAATT
30858730 ATA
1 ATA
30858733 TACTAGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.06, G:0.00, T:0.38
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:30866506 original size:39 final size:39
Alignment explanation
Indices: 30866442--30866635 Score: 316
Period size: 39 Copynumber: 4.9 Consensus size: 39
30866432 CCCGCTCAAA
*
30866442 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAACTCGCACAAT
* *
30866482 TGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
* *
30866521 TGCCTTCGGGCTTAGCCCGGATATCATAGCTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
*
30866560 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
*
30866599 TGCCTTCGGGCTTAGCCCGGATATCACAATTCGCACA
1 TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACA
30866636 TTCATTCACA
Statistics
Matches: 148, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
39 138 0.93
40 10 0.07
ACGTcount: A:0.23, C:0.31, G:0.21, T:0.25
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAACTCGCACAAT
Found at i:30873119 original size:26 final size:26
Alignment explanation
Indices: 30873088--30873285 Score: 236
Period size: 26 Copynumber: 7.6 Consensus size: 26
30873078 TGTACTTGAT
*
30873088 TTTAGCAGGCTTTGAGCCAGTGATTA
1 TTTAGCAGGCTTTGAGCCAGTGTTTA
* *
30873114 GTTAGCAGGCTTTGAGCCGGTGTTTA
1 TTTAGCAGGCTTTGAGCCAGTGTTTA
* *
30873140 TTTAGCAAGCTTTGTGCCAGTGTTTA
1 TTTAGCAGGCTTTGAGCCAGTGTTTA
*** * *
30873166 TTTAGCAAAATTTGAGCCATTGATTA
1 TTTAGCAGGCTTTGAGCCAGTGTTTA
*
30873192 TTTAGCAGGCTTTGAGCTAGTGTTTA
1 TTTAGCAGGCTTTGAGCCAGTGTTTA
* * * *
30873218 TATAGCAGGCTTTGAGGCAGTGATTG
1 TTTAGCAGGCTTTGAGCCAGTGTTTA
*
30873244 TTTAGCAAGCTTTGAGCC-GATGTTTA
1 TTTAGCAGGCTTTGAGCCAG-TGTTTA
30873270 TTTAGCAGGCTTTGAG
1 TTTAGCAGGCTTTGAG
30873286 TGGATGAATA
Statistics
Matches: 142, Mismatches: 29, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
25 1 0.01
26 141 0.99
ACGTcount: A:0.22, C:0.14, G:0.27, T:0.37
Consensus pattern (26 bp):
TTTAGCAGGCTTTGAGCCAGTGTTTA
Found at i:30876205 original size:42 final size:42
Alignment explanation
Indices: 30876124--30876278 Score: 177
Period size: 42 Copynumber: 3.7 Consensus size: 42
30876114 TTAAGTTTAT
*
30876124 GTGTAAGACCATATCTGGGATATGGCATC-AGCATGAGATTTC
1 GTGTAAGACCATATCTGGGATATGGCATCGA-TATGAGATTTC
* * * *
30876166 GTGTAAGTCCATATGTGGGATATGGCATCGATATTAGATTTT
1 GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
* * * * * *
30876208 GTATAATACCATAGCTGAGCTATTGGCATCGATATGAGATTAC
1 GTGTAAGACCATATCTGGGATA-TGGCATCGATATGAGATTTC
*
30876251 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATATCTGGGATATGGCAT
30876279 TGGTATGGTA
Statistics
Matches: 90, Mismatches: 21, Indels: 4
0.78 0.18 0.03
Matches are distributed among these distances:
42 56 0.62
43 34 0.38
ACGTcount: A:0.30, C:0.14, G:0.25, T:0.32
Consensus pattern (42 bp):
GTGTAAGACCATATCTGGGATATGGCATCGATATGAGATTTC
Found at i:30876470 original size:16 final size:16
Alignment explanation
Indices: 30876451--30876494 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 16
30876441 TAAACCCTCG
30876451 GTAAGATTTTGATTGA
1 GTAAGATTTTGATTGA
*
30876467 GTAAG-TTATGATT-A
1 GTAAGATTTTGATTGA
30876481 -TAAGATTTT-ATTGA
1 GTAAGATTTTGATTGA
30876495 TATTCATGCT
Statistics
Matches: 24, Mismatches: 2, Indels: 6
0.75 0.06 0.19
Matches are distributed among these distances:
13 7 0.29
14 5 0.21
15 7 0.29
16 5 0.21
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.45
Consensus pattern (16 bp):
GTAAGATTTTGATTGA
Found at i:30879144 original size:27 final size:27
Alignment explanation
Indices: 30879106--30879163 Score: 107
Period size: 27 Copynumber: 2.1 Consensus size: 27
30879096 ACCGTCTAAT
30879106 TGATAAAATGACTGTTATGCCCCTATG
1 TGATAAAATGACTGTTATGCCCCTATG
*
30879133 TGATAAAATGACTGTTTTGCCCCTATG
1 TGATAAAATGACTGTTATGCCCCTATG
30879160 TGAT
1 TGAT
30879164 GTATGATTGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.28, C:0.17, G:0.19, T:0.36
Consensus pattern (27 bp):
TGATAAAATGACTGTTATGCCCCTATG
Found at i:30892444 original size:37 final size:35
Alignment explanation
Indices: 30892374--30892445 Score: 83
Period size: 37 Copynumber: 2.0 Consensus size: 35
30892364 TCAGCTAACA
* * *
30892374 TGTTTTGGGCTAAATTGTGATAAATGTATAAGTTT
1 TGTTTTGGGCTAAATTGTAATAAAGGTAAAAGTTT
30892409 TGTTTTAGGGACTAAATTG-AATAAAAGGTAAAAGTTT
1 TGTTTT-GGG-CTAAATTGTAAT-AAAGGTAAAAGTTT
30892446 AGGGTAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
35 6 0.19
36 5 0.16
37 20 0.65
ACGTcount: A:0.35, C:0.03, G:0.22, T:0.40
Consensus pattern (35 bp):
TGTTTTGGGCTAAATTGTAATAAAGGTAAAAGTTT
Found at i:30900476 original size:38 final size:38
Alignment explanation
Indices: 30900418--30900494 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
30900408 CAGCAAGCTC
* *
30900418 ATTCTGATATAATTTTACTAGCAATATAACATAAGCCT
1 ATTCTGATATAACTTGACTAGCAATATAACATAAGCCT
30900456 ATTCTGATATAACTTGACTAGCAATATAACATAAGCCT
1 ATTCTGATATAACTTGACTAGCAATATAACATAAGCCT
30900494 A
1 A
30900495 CTCAGCAGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.40, C:0.17, G:0.09, T:0.34
Consensus pattern (38 bp):
ATTCTGATATAACTTGACTAGCAATATAACATAAGCCT
Found at i:30910609 original size:46 final size:46
Alignment explanation
Indices: 30910542--30910713 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
30910532 AACCCGCCCC
*
30910542 TAAGTGAACTCGGACTCAACTCAACGAGCTCAGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCATCCA
* * *
30910588 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGTTC--A-GGC--GTTCGCATCCA
* * *
30910636 TCA-CGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAGG-CGTTCGCATCCA
30910681 TAAGTGAACTCGGACTCAACTCAACGAGTTCAG
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCAG
30910714 ATGCTCAACC
Statistics
Matches: 103, Mismatches: 12, Indels: 21
0.76 0.09 0.15
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 1 0.01
45 2 0.02
46 56 0.54
47 27 0.26
48 3 0.03
49 2 0.02
50 3 0.03
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.20, T:0.22
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCAGGCGTTCGCATCCA
Found at i:30910659 original size:93 final size:93
Alignment explanation
Indices: 30910547--30910717 Score: 299
Period size: 93 Copynumber: 1.8 Consensus size: 93
30910537 GCCCCTAAGT
*
30910547 GAACTCGGACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
30910611 ACGAGTTCGGATGCCTAGTTACATTTCAC
65 ACGAGTTCAGATGCCTAGTTACATTTCAC
*
30910640 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30910705 CGAGTTCAGATGC
66 CGAGTTCAGATGC
30910718 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
92 2 0.03
93 72 0.97
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCAGATGCCTAGTTACATTTCAC
Found at i:30916400 original size:48 final size:48
Alignment explanation
Indices: 30916324--30916556 Score: 259
Period size: 48 Copynumber: 4.8 Consensus size: 48
30916314 ATACTAGAGT
* *
30916324 TATGAGAGCTAGTGTAAGACAATGTCTGGGACATGGTATCGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA
* * * * *
30916372 TATGTGAGCTAGTGTAAGACCATGTCTGGGACATGACATCAGCATTGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA
*
30916420 TATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA
** * * * * * * **
30916468 CGTGTGGGCTAGTGCAAGACCATGTTTAGAACATGGCATCGGCACCTATA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGG--CCTCGA
* * *
30916518 TATGAGAGCTAATGTAAAACCATGTTTGGGACATGGCAT
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
30916557 TGGCATCTTA
Statistics
Matches: 150, Mismatches: 33, Indels: 2
0.81 0.18 0.01
Matches are distributed among these distances:
48 116 0.77
50 34 0.23
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (48 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGA
Found at i:30916488 original size:96 final size:97
Alignment explanation
Indices: 30916324--30916556 Score: 299
Period size: 96 Copynumber: 2.4 Consensus size: 97
30916314 ATACTAGAGT
* * * *
30916324 TATGAGAGCTAGTGTAAGACAATGTCTGGGACATGGTATCGGCCTCGATATGTGAGCTAGTGTAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCTAGTGCAA
* *
30916389 GACCATGTCTGGGACATGACATCAGCA-T-TGA
66 GACCATGTCTAGAACATGACATCAGCACTAT-A
* * *
30916420 TATGAAAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACGTGTGGGCTAGTGCAA
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCTAGTGCAA
* * *
30916485 GACCATGTTTAGAACATGGCATCGGCACCTATA
66 GACCATGTCTAGAACATGACATCAGCA-CTATA
* * *
30916518 TATGAGAGCTAATGTAAAACCATGTTTGGGACATGGCAT
1 TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCAT
30916557 TGGCATCTTA
Statistics
Matches: 118, Mismatches: 16, Indels: 4
0.86 0.12 0.03
Matches are distributed among these distances:
96 80 0.68
98 37 0.31
99 1 0.01
ACGTcount: A:0.28, C:0.18, G:0.28, T:0.25
Consensus pattern (97 bp):
TATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGACATGTGAGCTAGTGCAA
GACCATGTCTAGAACATGACATCAGCACTATA
Found at i:30917716 original size:21 final size:20
Alignment explanation
Indices: 30917692--30917751 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 20
30917682 GTTAAGAGGA
30917692 CACACGGGCGTGTCGCCCTCC
1 CACACGGGCGTGT-GCCCTCC
30917713 CACACGGGCGTGTGGCCCTCC
1 CACACGGGCGTGT-GCCCTCC
30917734 CACACGGGCGTGTGCCCT
1 CACACGGGCGTGTGCCCT
30917752 TGTTTGGATT
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 5 0.13
21 33 0.87
ACGTcount: A:0.10, C:0.43, G:0.32, T:0.15
Consensus pattern (20 bp):
CACACGGGCGTGTGCCCTCC
Found at i:30924778 original size:27 final size:27
Alignment explanation
Indices: 30924756--30924826 Score: 124
Period size: 27 Copynumber: 2.6 Consensus size: 27
30924746 TTAGTTTACC
30924756 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
30924783 AAATTACCAAAATACCTCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
30924810 AAATTACCGAAATACCC
1 AAATTACCAAAATACCC
30924827 TTGTAGGGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 41 1.00
ACGTcount: A:0.42, C:0.23, G:0.07, T:0.28
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Done.