Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr07 ID=Chr07-JGI_221_v2.0
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: 60982465
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 868082 characters in sequence are not A, C, G, or T
File 32 of 204
Found at i:11719007 original size:8 final size:8
Alignment explanation
Indices: 11718996--11719029 Score: 52
Period size: 8 Copynumber: 4.4 Consensus size: 8
11718986 TTTTTTTAGT
11718996 TTTAATTA
1 TTTAATTA
11719004 TTTAATTA
1 TTTAATTA
11719012 TTTAATT-
1 TTTAATTA
*
11719019 TTTTATTA
1 TTTAATTA
11719027 TTT
1 TTT
11719030 GTTTATTATT
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
7 6 0.25
8 18 0.75
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (8 bp):
TTTAATTA
Found at i:11719017 original size:16 final size:15
Alignment explanation
Indices: 11718996--11719029 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
11718986 TTTTTTTAGT
11718996 TTTAATTATTTAATTA
1 TTTAATT-TTTAATTA
*
11719012 TTTAATTTTTTATTA
1 TTTAATTTTTAATTA
11719027 TTT
1 TTT
11719030 GTTTATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 10 0.59
16 7 0.41
ACGTcount: A:0.29, C:0.00, G:0.00, T:0.71
Consensus pattern (15 bp):
TTTAATTTTTAATTA
Found at i:11719036 original size:11 final size:10
Alignment explanation
Indices: 11718985--11719093 Score: 60
Period size: 10 Copynumber: 10.5 Consensus size: 10
11718975 TATCCATTCC
11718985 TTTTTT-TTA
1 TTTTTTATTA
* *
11718994 GTTTTAATTA
1 TTTTTTATTA
*
11719004 TTTAATTATTTAA
1 TTT-TTTA-TT-A
11719017 TTTTTTATTA
1 TTTTTTATTA
11719027 TTTGTTTATTA
1 TTT-TTTATTA
*
11719038 TTTCTTA-TA
1 TTTTTTATTA
* *
11719047 ATTATTATTA
1 TTTTTTATTA
11719057 TTTTTCTAGTTA
1 TTTTT-TA-TTA
* *
11719069 TTATTAATTA
1 TTTTTTATTA
**
11719079 TTAATTATTA
1 TTTTTTATTA
11719089 TTTTT
1 TTTTT
11719094 AAGTTTCTTA
Statistics
Matches: 75, Mismatches: 17, Indels: 15
0.70 0.16 0.14
Matches are distributed among these distances:
9 11 0.15
10 31 0.41
11 17 0.23
12 12 0.16
13 4 0.05
ACGTcount: A:0.27, C:0.02, G:0.03, T:0.69
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:11719071 original size:18 final size:19
Alignment explanation
Indices: 11719032--11719074 Score: 61
Period size: 18 Copynumber: 2.3 Consensus size: 19
11719022 TATTATTTGT
11719032 TTATTATTTCTTATAATTA
1 TTATTATTTCTTATAATTA
* *
11719051 TTATTATTT-TTCTAGTTA
1 TTATTATTTCTTATAATTA
11719069 TTATTA
1 TTATTA
11719075 ATTATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 13 0.59
19 9 0.41
ACGTcount: A:0.28, C:0.05, G:0.02, T:0.65
Consensus pattern (19 bp):
TTATTATTTCTTATAATTA
Found at i:11719105 original size:32 final size:29
Alignment explanation
Indices: 11719038--11719106 Score: 79
Period size: 28 Copynumber: 2.3 Consensus size: 29
11719028 TTGTTTATTA
11719038 TTTCTTA-TAATTATTATTATTTTTCTAG
1 TTTCTTATTAATTATTATTATTTTTCTAG
* *
11719066 -TTATTATTAATTATTAATTATTATTTTTAAG
1 TTTCTTATTAATTATT-ATTATT-TTTCT-AG
11719097 TTTCTTATTA
1 TTTCTTATTA
11719107 TTCTTAGTTT
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
27 5 0.15
28 8 0.24
29 6 0.18
30 4 0.12
31 2 0.06
32 8 0.24
ACGTcount: A:0.29, C:0.04, G:0.03, T:0.64
Consensus pattern (29 bp):
TTTCTTATTAATTATTATTATTTTTCTAG
Found at i:11719106 original size:18 final size:18
Alignment explanation
Indices: 11719082--11719122 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11719072 TTAATTATTA
*
11719082 ATTATTATTTTTAAGTTTC
1 ATTATTATTCTT-AGTTTC
11719101 -TTATTATTCTTAGTTTC
1 ATTATTATTCTTAGTTTC
11719118 ATTAT
1 ATTAT
11719123 CATCAGTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 6 0.30
18 14 0.70
ACGTcount: A:0.24, C:0.07, G:0.05, T:0.63
Consensus pattern (18 bp):
ATTATTATTCTTAGTTTC
Found at i:11719440 original size:16 final size:15
Alignment explanation
Indices: 11719409--11719442 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
11719399 TTCCATTTCG
*
11719409 TTTCTTATTTTTATT
1 TTTCTTATTATTATT
11719424 TTTCTTCATTATTATT
1 TTTCTT-ATTATTATT
11719440 TTT
1 TTT
11719443 TGTACTTCTG
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:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCTTATTATTATT
Found at i:11723543 original size:13 final size:13
Alignment explanation
Indices: 11723524--11723555 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
11723514 ATCAGAGAAG
11723524 ATCGAAGAAAACC
1 ATCGAAGAAAACC
*
11723537 CTCGAAGAAAACC
1 ATCGAAGAAAACC
11723550 ATCGAA
1 ATCGAA
11723556 ATCAACTCGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.50, C:0.25, G:0.16, T:0.09
Consensus pattern (13 bp):
ATCGAAGAAAACC
Found at i:11737854 original size:2 final size:2
Alignment explanation
Indices: 11737847--11737873 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
11737837 TTAACACATG
11737847 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
11737874 TCAATAACTG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11740068 original size:9 final size:9
Alignment explanation
Indices: 11740031--11740075 Score: 54
Period size: 9 Copynumber: 5.0 Consensus size: 9
11740021 GGTTGCAAAA
11740031 AGGACGATG
1 AGGACGATG
* *
11740040 ACGACCATG
1 AGGACGATG
*
11740049 ATGACGATG
1 AGGACGATG
11740058 AGGACGATG
1 AGGACGATG
*
11740067 AGGATGATG
1 AGGACGATG
11740076 TTTCTTCGGT
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.38, T:0.16
Consensus pattern (9 bp):
AGGACGATG
Found at i:11740718 original size:37 final size:37
Alignment explanation
Indices: 11740668--11740739 Score: 135
Period size: 37 Copynumber: 1.9 Consensus size: 37
11740658 TAAACTCATA
*
11740668 ATTAATTAAATAGTTAGTGAATTCTAATTTAATGGTG
1 ATTAATTAAATAGTTAGTGAATTCTAATCTAATGGTG
11740705 ATTAATTAAATAGTTAGTGAATTCTAATCTAATGG
1 ATTAATTAAATAGTTAGTGAATTCTAATCTAATGG
11740740 AAAAAATAAG
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (37 bp):
ATTAATTAAATAGTTAGTGAATTCTAATCTAATGGTG
Found at i:11742088 original size:5 final size:5
Alignment explanation
Indices: 11742078--11742120 Score: 77
Period size: 5 Copynumber: 8.4 Consensus size: 5
11742068 AAAACTCATA
11742078 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAATAT AA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AA
11742121 CTAGTCATAG
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
5 33 0.89
6 4 0.11
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AAAAT
Found at i:11746247 original size:49 final size:49
Alignment explanation
Indices: 11746190--11746292 Score: 154
Period size: 49 Copynumber: 2.1 Consensus size: 49
11746180 CATGTGTTAC
* * *
11746190 AATTTTATACAA-TGTTGAGCTTCTGATTCATGATATTTAACTTAATTTT
1 AATTTTATA-AAGTGTTCACCTTCTGATTCATGATATTAAACTTAATTTT
*
11746239 AATTTTATAAAGTGTTCACCTTTTGATTCATGATATTAAACTTAATTTT
1 AATTTTATAAAGTGTTCACCTTCTGATTCATGATATTAAACTTAATTTT
11746288 AATTT
1 AATTT
11746293 GTTTTTTTCT
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
48 2 0.04
49 47 0.96
ACGTcount: A:0.32, C:0.10, G:0.09, T:0.50
Consensus pattern (49 bp):
AATTTTATAAAGTGTTCACCTTCTGATTCATGATATTAAACTTAATTTT
Found at i:11747819 original size:120 final size:120
Alignment explanation
Indices: 11747682--11748360 Score: 1113
Period size: 120 Copynumber: 5.7 Consensus size: 120
11747672 TAGATTATAC
* *
11747682 ATTAT-TTTTATAGCATTACATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
11747746 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
*
11747801 ATTATATTTTATAGCATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
11747866 AATTTTATTAAATTATATATATTTT-TTAAATTATATTTAATAATAATTATGTTAA
66 AATTTTATTAAATTATATAT-TTTTATTAAATTATATTTAATAATAATTATGTTAA
11747921 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
11747986 AATTTTATTAAATTAT-T-TTTTTATTAAATTATATTTAAAAATAATTAAT-TTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATT-ATGTTAA
* *
11748039 ATTATATTTTATAGTATTATATAATATGATTTTAGTAAATTC---TAAGAATATTTAATATTAAT
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
* *
11748101 AATTTTATTAAATTATATATTTTTACTAAATTATATTTTTAATAATAATTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATA--TTTAATAATAATTATGTTAA
* * * *
11748158 AGTATATTTTATAGTATTATATATTGTGATTTCAGTAAATTCATTTAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
* *
11748223 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAACTATTTTAA
66 AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
* *
11748278 ATTATATTTTAGAGTATTATATATTATGATTTTATTAAATTCATATAAGAATATTTAATATTAAG
1 ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
*
11748343 ACTTTTATTAAATTATAT
66 AATTTTATTAAATTATAT
11748361 TTAATAATAA
Statistics
Matches: 527, Mismatches: 21, Indels: 23
0.92 0.04 0.04
Matches are distributed among these distances:
115 35 0.07
116 1 0.00
117 19 0.04
118 70 0.13
119 62 0.12
120 283 0.54
121 4 0.01
122 53 0.10
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
ATTATATTTTATAGTATTATATATTATGATTTTAGTAAATTCATATAAGAATATTTAATATTAAG
AATTTTATTAAATTATATATTTTTATTAAATTATATTTAATAATAATTATGTTAA
Found at i:11748124 original size:18 final size:18
Alignment explanation
Indices: 11748090--11748140 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
11748080 CTAAGAATAT
*
11748090 TTAATATTA-ATAATTTTA
1 TTAA-ATTATATATTTTTA
11748108 TTAAATTATATATTTTTA
1 TTAAATTATATATTTTTA
*
11748126 CTAAATTATAT-TTTT
1 TTAAATTATATATTTT
11748141 AATAATAATT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 8 0.27
18 22 0.73
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (18 bp):
TTAAATTATATATTTTTA
Found at i:11748357 original size:102 final size:102
Alignment explanation
Indices: 11748243--11748482 Score: 417
Period size: 102 Copynumber: 2.4 Consensus size: 102
11748233 AATTATATAT
* * *
11748243 TTTTATTAAATTATATTTAATAATAACTATTTTAAATTATATTTTAGAGTATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTAGAGCATTATATATTATGAT
** *
11748308 TTTATTAAATTCATATAAGAATATTTAATATTAAGAC
66 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAA
*
11748345 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTATAGCATTATATATTATGAT
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTAGAGCATTATATATTATGAT
11748410 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAA
66 TTTAGAAAATTCATATAAGAATATTTAATATTAAGAA
11748447 TTTTATTAAATTATATTTAATAATAATTATGTTAAA
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAA
11748483 ATATGATTAA
Statistics
Matches: 131, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
102 131 1.00
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (102 bp):
TTTTATTAAATTATATTTAATAATAATTATGTTAAATTATATTTTAGAGCATTATATATTATGAT
TTTAGAAAATTCATATAAGAATATTTAATATTAAGAA
Found at i:11748712 original size:45 final size:44
Alignment explanation
Indices: 11748623--11748718 Score: 140
Period size: 45 Copynumber: 2.2 Consensus size: 44
11748613 ATTACAACAT
11748623 CATTACATTCAACCAAACACAAGAATACTAGTACGCCTCTATTC
1 CATTACATTCAACCAAACACAAGAATACTAGTACGCCTCTATTC
* * *
11748667 CATTACATTCAACCAAACA-ATTGAATTACTATTACGCTTCTATTC
1 CATTACATTCAACCAAACACA-AGAA-TACTAGTACGCCTCTATTC
11748712 CATTACA
1 CATTACA
11748719 GCGAACCAAA
Statistics
Matches: 47, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
43 1 0.02
44 22 0.47
45 24 0.51
ACGTcount: A:0.38, C:0.27, G:0.05, T:0.30
Consensus pattern (44 bp):
CATTACATTCAACCAAACACAAGAATACTAGTACGCCTCTATTC
Found at i:11754423 original size:3 final size:3
Alignment explanation
Indices: 11754415--11754444 Score: 60
Period size: 3 Copynumber: 10.0 Consensus size: 3
11754405 ATGTTGAAAA
11754415 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CAT
11754445 GCGCTGTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 27 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:11758548 original size:2 final size:2
Alignment explanation
Indices: 11758541--11758565 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11758531 TAATTAAGTA
11758541 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
11758566 AAATTTCTTA
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:11769042 original size:41 final size:41
Alignment explanation
Indices: 11769026--11769220 Score: 363
Period size: 41 Copynumber: 4.8 Consensus size: 41
11769016 CTTATAGCTT
* *
11769026 GATTCAGATCACCGGCACGTAGCCTGCTAGGTTTATAACCT
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
11769067 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
11769108 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
*
11769149 GATTCAAATCACCGGCACATAGCCTGCTAGGTTTATAACCC
1 GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
11769190 GATTCAAATCACCGGCACGTAGCCTGCTAGG
1 GATTCAAATCACCGGCACGTAGCCTGCTAGG
11769221 CGCTTAGCCT
Statistics
Matches: 150, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
41 150 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.24
Consensus pattern (41 bp):
GATTCAAATCACCGGCACGTAGCCTGCTAGGTTTATAACCC
Found at i:11769741 original size:2 final size:2
Alignment explanation
Indices: 11769736--11769818 Score: 107
Period size: 2 Copynumber: 41.5 Consensus size: 2
11769726 ATATGCCTAC
11769736 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
** *
11769778 AT AT AT AT -T CGC ACC AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT -AT A-T AT AT AT AT AT AT AT AT AT AT AT AT AT A
11769819 CAATTTCTTT
Statistics
Matches: 74, Mismatches: 3, Indels: 8
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.03
2 70 0.95
3 2 0.03
ACGTcount: A:0.47, C:0.05, G:0.01, T:0.47
Consensus pattern (2 bp):
AT
Found at i:11769899 original size:2 final size:2
Alignment explanation
Indices: 11769892--11769916 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
11769882 AATAACTTTT
11769892 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 T
11769917 CTTATTCGAA
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:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:11773404 original size:2 final size:2
Alignment explanation
Indices: 11773397--11773457 Score: 122
Period size: 2 Copynumber: 30.5 Consensus size: 2
11773387 TAATTAAGTA
11773397 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
11773439 AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT A
11773458 GTGTGAAATA
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 59 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:11774376 original size:22 final size:22
Alignment explanation
Indices: 11774349--11774391 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
11774339 CTCCGATTAT
11774349 TAGCACATTAGTGCTCTCTGTA
1 TAGCACATTAGTGCTCTCTGTA
* *
11774371 TAGCACTTTAGTGCTTTCTGT
1 TAGCACATTAGTGCTCTCTGT
11774392 TTAATAGTGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.19, C:0.21, G:0.19, T:0.42
Consensus pattern (22 bp):
TAGCACATTAGTGCTCTCTGTA
Found at i:11779493 original size:14 final size:13
Alignment explanation
Indices: 11779474--11779513 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 13
11779464 GCTTGGGGAA
11779474 GAAAAAATAAAAGG
1 GAAAAAA-AAAAGG
11779488 GAAAAAAAGAAAGG
1 GAAAAAAA-AAAGG
11779502 GAGAAAAAAAAA
1 GA-AAAAAAAAA
11779514 AGAAAAGGCA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
13 1 0.04
14 17 0.71
15 6 0.25
ACGTcount: A:0.75, C:0.00, G:0.23, T:0.03
Consensus pattern (13 bp):
GAAAAAAAAAAGG
Found at i:11779495 original size:15 final size:15
Alignment explanation
Indices: 11779473--11779515 Score: 61
Period size: 15 Copynumber: 2.9 Consensus size: 15
11779463 AGCTTGGGGA
11779473 AGAAAAAATAAAAGGG
1 AGAAAAAA-AAAAGGG
*
11779489 A-AAAAAAGAAAGGG
1 AGAAAAAAAAAAGGG
11779503 AGAAAAAAAAAAG
1 AGAAAAAAAAAAG
11779516 AAAAGGCAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
14 7 0.29
15 16 0.67
16 1 0.04
ACGTcount: A:0.74, C:0.00, G:0.23, T:0.02
Consensus pattern (15 bp):
AGAAAAAAAAAAGGG
Found at i:11781218 original size:15 final size:15
Alignment explanation
Indices: 11781198--11781231 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
11781188 GCCATATGTA
*
11781198 ACACACGGCTGTGAC
1 ACACACGGCTGAGAC
11781213 ACACACGGCTGAGAC
1 ACACACGGCTGAGAC
11781228 ACAC
1 ACAC
11781232 GCTCATGTCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.32, C:0.35, G:0.24, T:0.09
Consensus pattern (15 bp):
ACACACGGCTGAGAC
Found at i:11782368 original size:25 final size:25
Alignment explanation
Indices: 11782335--11782401 Score: 89
Period size: 25 Copynumber: 2.7 Consensus size: 25
11782325 GCCTTTAGTT
* *
11782335 GGGAAGCTCCGAAGAGCCATATATC
1 GGGATGCTCAGAAGAGCCATATATC
* *
11782360 GGTATGCTCATAAGAGCCATATATC
1 GGGATGCTCAGAAGAGCCATATATC
*
11782385 GGGATGCTCATAAGAGC
1 GGGATGCTCAGAAGAGC
11782402 TGCGGTGTGT
Statistics
Matches: 37, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.31, C:0.21, G:0.27, T:0.21
Consensus pattern (25 bp):
GGGATGCTCAGAAGAGCCATATATC
Found at i:11786686 original size:28 final size:28
Alignment explanation
Indices: 11786655--11786708 Score: 81
Period size: 28 Copynumber: 1.9 Consensus size: 28
11786645 GTATTGATTA
11786655 TAATTAGATTATTTGGTAAGAATAAAAT
1 TAATTAGATTATTTGGTAAGAATAAAAT
* * *
11786683 TAATTATATTGTTTGGTAGGAATAAA
1 TAATTAGATTATTTGGTAAGAATAAA
11786709 TTTTAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.43, C:0.00, G:0.17, T:0.41
Consensus pattern (28 bp):
TAATTAGATTATTTGGTAAGAATAAAAT
Found at i:11797503 original size:4 final size:4
Alignment explanation
Indices: 11797494--11797599 Score: 65
Period size: 4 Copynumber: 26.8 Consensus size: 4
11797484 AAAGGAATTA
* * * * *
11797494 AAAT AAAT AAGT AAAT GAAT GAAT -AAT ATAT AAAT AAAT AAGT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
* * * * * **
11797541 AAGT AAGT AAAT GAAT AAAAT CAAAG GAAT -AAT AAAT AAAT ATGT AAAT
1 AAAT AAAT AAAT AAAT -AAAT -AAAT AAAT AAAT AAAT AAAT AAAT AAAT
11797590 AAA- AAAT AAA
1 AAAT AAAT AAA
11797600 AGGAAACATT
Statistics
Matches: 79, Mismatches: 19, Indels: 8
0.75 0.18 0.08
Matches are distributed among these distances:
3 9 0.11
4 64 0.81
5 6 0.08
ACGTcount: A:0.65, C:0.01, G:0.09, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:11798592 original size:23 final size:24
Alignment explanation
Indices: 11798562--11798612 Score: 79
Period size: 23 Copynumber: 2.2 Consensus size: 24
11798552 AACTCTTTAC
11798562 TTTTTTTGTAT-TCTATTTT-TCTT
1 TTTTTTTGTATATCT-TTTTGTCTT
11798585 TTTTTTTGTATATCTTTTTGTCTT
1 TTTTTTTGTATATCTTTTTGTCTT
11798609 TTTT
1 TTTT
11798613 ACGTTCGATT
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
23 15 0.58
24 11 0.42
ACGTcount: A:0.08, C:0.08, G:0.06, T:0.78
Consensus pattern (24 bp):
TTTTTTTGTATATCTTTTTGTCTT
Found at i:11800356 original size:27 final size:27
Alignment explanation
Indices: 11800326--11800377 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
11800316 AATGCCATAA
* *
11800326 AGGATTTTAAAATAGAAATTGAAACAC
1 AGGATTTGAAAATAAAAATTGAAACAC
*
11800353 AGGATTTGCAAATAAAAATTGAAAC
1 AGGATTTGAAAATAAAAATTGAAAC
11800378 GCAACAATGA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.52, C:0.08, G:0.15, T:0.25
Consensus pattern (27 bp):
AGGATTTGAAAATAAAAATTGAAACAC
Found at i:11809705 original size:30 final size:28
Alignment explanation
Indices: 11809671--11809733 Score: 81
Period size: 29 Copynumber: 2.2 Consensus size: 28
11809661 AAAAAGCTAT
11809671 TTTTTTTCAAAATTTACCGAAATGGGCCGA
1 TTTTTTT-AAAATTTACCGAAATGGGCC-A
** *
11809701 TTTTTTTATTATTTACCGGAATGGGCCA
1 TTTTTTTAAAATTTACCGAAATGGGCCA
11809729 TTTTT
1 TTTTT
11809734 CGCGAAATTG
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
28 6 0.20
29 17 0.57
30 7 0.23
ACGTcount: A:0.24, C:0.14, G:0.16, T:0.46
Consensus pattern (28 bp):
TTTTTTTAAAATTTACCGAAATGGGCCA
Found at i:11811186 original size:16 final size:17
Alignment explanation
Indices: 11811167--11811200 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
11811157 TTCAGAGAAG
*
11811167 AAAAAGACAAA-AAAAA
1 AAAAAAACAAACAAAAA
11811183 AAAAAAACAAACAAAAA
1 AAAAAAACAAACAAAAA
11811200 A
1 A
11811201 TATGAAAATG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 10 0.62
17 6 0.38
ACGTcount: A:0.88, C:0.09, G:0.03, T:0.00
Consensus pattern (17 bp):
AAAAAAACAAACAAAAA
Found at i:11813447 original size:7 final size:7
Alignment explanation
Indices: 11813435--11813466 Score: 55
Period size: 7 Copynumber: 4.6 Consensus size: 7
11813425 AATCATATGC
*
11813435 ATATTTT
1 ATATTTA
11813442 ATATTTA
1 ATATTTA
11813449 ATATTTA
1 ATATTTA
11813456 ATATTTA
1 ATATTTA
11813463 ATAT
1 ATAT
11813467 AAACGAGAGA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (7 bp):
ATATTTA
Found at i:11821282 original size:31 final size:31
Alignment explanation
Indices: 11821246--11821313 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
11821236 TTCGTTTTGC
11821246 TCACTAAATTATTAAAAAATTTTAATTTAAG
1 TCACTAAATTATTAAAAAATTTTAATTTAAG
* * * ** *
11821277 TCACTACATTATTTAAAAGTTTTTGTTTGAG
1 TCACTAAATTATTAAAAAATTTTAATTTAAG
11821308 TCACTA
1 TCACTA
11821314 GGTTATTAGT
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.44
Consensus pattern (31 bp):
TCACTAAATTATTAAAAAATTTTAATTTAAG
Found at i:11823864 original size:30 final size:32
Alignment explanation
Indices: 11823798--11823856 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 32
11823788 CTAGTTTAAT
*
11823798 AAAATCCATATAATGAATCACAATTATAAAAA
1 AAAATCCATATAATGAATCACAATTACAAAAA
*
11823830 AAAAT-CATATAATG-ATCATAATTACAA
1 AAAATCCATATAATGAATCACAATTACAA
11823857 TACAAAATTC
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 11 0.44
31 9 0.36
32 5 0.20
ACGTcount: A:0.58, C:0.12, G:0.03, T:0.27
Consensus pattern (32 bp):
AAAATCCATATAATGAATCACAATTACAAAAA
Found at i:11824219 original size:2 final size:2
Alignment explanation
Indices: 11824212--11824246 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
11824202 TAAAATATGT
11824212 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 T
11824247 GTGTGTTAAG
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:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:11826963 original size:40 final size:39
Alignment explanation
Indices: 11826919--11827026 Score: 117
Period size: 40 Copynumber: 2.7 Consensus size: 39
11826909 TATTGCTTGG
*
11826919 ATGCATATGCGTGTCCTTGTTTGTACTTCAGTACCCCTAA
1 ATGCACATGCGTG-CCTTGTTTGTACTTCAGTACCCCTAA
* * * * *
11826959 ATGCACATACATGCCCCTGTTTGTATTTCGGTACCCCTAA
1 ATGCACATGCGTG-CCTTGTTTGTACTTCAGTACCCCTAA
* *
11826999 ATGCACATGTGTGCCTCTGTTTATACTT
1 ATGCACATGCGTGCCT-TGTTTGTACTT
11827027 TGGTAACCCA
Statistics
Matches: 54, Mismatches: 13, Indels: 2
0.78 0.19 0.03
Matches are distributed among these distances:
39 2 0.04
40 52 0.96
ACGTcount: A:0.20, C:0.26, G:0.17, T:0.37
Consensus pattern (39 bp):
ATGCACATGCGTGCCTTGTTTGTACTTCAGTACCCCTAA
Found at i:11828715 original size:2 final size:2
Alignment explanation
Indices: 11828708--11828744 Score: 56
Period size: 2 Copynumber: 17.5 Consensus size: 2
11828698 TTCCTTACTT
11828708 TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TGA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA T-A TA T
11828745 GAAAAGACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
2 29 0.88
3 4 0.12
ACGTcount: A:0.46, C:0.00, G:0.05, T:0.49
Consensus pattern (2 bp):
TA
Found at i:11830974 original size:19 final size:21
Alignment explanation
Indices: 11830950--11830991 Score: 70
Period size: 20 Copynumber: 2.1 Consensus size: 21
11830940 TTTTTCCTTT
11830950 AATTC-AAAGCCAC-AAAGCC
1 AATTCAAAAGCCACAAAAGCC
11830969 AATTCAAAAGCCACAAAAGCC
1 AATTCAAAAGCCACAAAAGCC
11830990 AA
1 AA
11830992 AGCCTAGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 5 0.24
20 8 0.38
21 8 0.38
ACGTcount: A:0.52, C:0.29, G:0.10, T:0.10
Consensus pattern (21 bp):
AATTCAAAAGCCACAAAAGCC
Found at i:11848929 original size:14 final size:15
Alignment explanation
Indices: 11848910--11848943 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
11848900 AGAAGTTCGT
11848910 TGAAAAG-AAAATAA
1 TGAAAAGTAAAATAA
11848924 TGAAAAGTAAAATAA
1 TGAAAAGTAAAATAA
11848939 TGAAA
1 TGAAA
11848944 CTTGGGACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 7 0.37
15 12 0.63
ACGTcount: A:0.68, C:0.00, G:0.15, T:0.18
Consensus pattern (15 bp):
TGAAAAGTAAAATAA
Found at i:11874568 original size:2 final size:2
Alignment explanation
Indices: 11874561--11874597 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
11874551 TAAATAAACA
11874561 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
11874598 CTCTAGGTTC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11884342 original size:16 final size:15
Alignment explanation
Indices: 11884321--11884351 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
11884311 TGATTTCCTA
11884321 TTCTTTTTTTTCTTTT
1 TTCTTTTTTTT-TTTT
11884337 TTCTTTTTTTTTTTT
1 TTCTTTTTTTTTTTT
11884352 CTGTTTCTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.00, C:0.10, G:0.00, T:0.90
Consensus pattern (15 bp):
TTCTTTTTTTTTTTT
Found at i:11884358 original size:19 final size:20
Alignment explanation
Indices: 11884324--11884361 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
11884314 TTTCCTATTC
*
11884324 TTTTTTTTCTTTTTTCTTTT
1 TTTTTTTTCTTGTTTCTTTT
11884344 TTTTTTTTC-TGTTTCTTT
1 TTTTTTTTCTTGTTTCTTT
11884362 ATTGTTTCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 8 0.47
20 9 0.53
ACGTcount: A:0.00, C:0.11, G:0.03, T:0.87
Consensus pattern (20 bp):
TTTTTTTTCTTGTTTCTTTT
Found at i:11888249 original size:22 final size:23
Alignment explanation
Indices: 11888224--11888266 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
11888214 TCAAAATAGA
* *
11888224 ATGATATTTTTAA-ATTTTTTTC
1 ATGATAATATTAATATTTTTTTC
11888246 ATGATAATATTAATATTTTTT
1 ATGATAATATTAATATTTTTT
11888267 AGATGTAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.33, C:0.02, G:0.05, T:0.60
Consensus pattern (23 bp):
ATGATAATATTAATATTTTTTTC
Found at i:11888275 original size:22 final size:22
Alignment explanation
Indices: 11888224--11888275 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 22
11888214 TCAAAATAGA
* * *
11888224 ATGATATTTTTAAATTTTTTTC
1 ATGATAATATTAAATTTTTTAC
*
11888246 ATGATAATATTAATATTTTTTAG
1 ATGATAATATTAA-ATTTTTTAC
11888269 ATG-TAAT
1 ATGATAAT
11888276 TATGTTAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
22 15 0.60
23 10 0.40
ACGTcount: A:0.35, C:0.02, G:0.08, T:0.56
Consensus pattern (22 bp):
ATGATAATATTAAATTTTTTAC
Found at i:11895037 original size:18 final size:18
Alignment explanation
Indices: 11895014--11895057 Score: 63
Period size: 18 Copynumber: 2.4 Consensus size: 18
11895004 AGAATAGATT
11895014 TTTAATTAAATAAATTT-A
1 TTTAATTAAA-AAATTTAA
*
11895032 TTTAATTAAAAATTTTAA
1 TTTAATTAAAAAATTTAA
11895050 TTTAATTA
1 TTTAATTA
11895058 CACCTTGAAC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (18 bp):
TTTAATTAAAAAATTTAA
Found at i:11900955 original size:28 final size:28
Alignment explanation
Indices: 11900923--11900979 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
11900913 AGATGGAATG
11900923 TATATTACCTTTACTTCAAAATTCTCTA
1 TATATTACCTTTACTTCAAAATTCTCTA
*
11900951 TATATTACTTTTACTTCAAAATTCTCTA
1 TATATTACCTTTACTTCAAAATTCTCTA
11900979 T
1 T
11900980 CTTCTCTACA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.32, C:0.19, G:0.00, T:0.49
Consensus pattern (28 bp):
TATATTACCTTTACTTCAAAATTCTCTA
Found at i:11910018 original size:18 final size:18
Alignment explanation
Indices: 11909971--11910018 Score: 53
Period size: 18 Copynumber: 2.7 Consensus size: 18
11909961 AAAAAATTAT
*
11909971 AAAAAAATATAAAAAACG
1 AAAAAAATATGAAAAACG
* *
11909989 TAAAAAAGATGAAAAAC-
1 AAAAAAATATGAAAAACG
11910006 AAAAAGAATATGA
1 AAAAA-AATATGA
11910019 TTTCCAATCC
Statistics
Matches: 24, Mismatches: 5, Indels: 2
0.77 0.16 0.06
Matches are distributed among these distances:
17 4 0.17
18 20 0.83
ACGTcount: A:0.73, C:0.04, G:0.10, T:0.12
Consensus pattern (18 bp):
AAAAAAATATGAAAAACG
Found at i:11920960 original size:22 final size:21
Alignment explanation
Indices: 11920916--11920960 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 21
11920906 TTTTTTTACA
** *
11920916 TTTTTTAAAAACTTACCTTTT
1 TTTTTTAAAAACTTAAATATT
11920937 TTTTTTACAAAACTTAAATATT
1 TTTTTTA-AAAACTTAAATATT
11920959 TT
1 TT
11920961 AAAATATTTT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
21 7 0.35
22 13 0.65
ACGTcount: A:0.33, C:0.11, G:0.00, T:0.56
Consensus pattern (21 bp):
TTTTTTAAAAACTTAAATATT
Found at i:11920967 original size:10 final size:10
Alignment explanation
Indices: 11920952--11920984 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11920942 TACAAAACTT
11920952 AAATATTTTA
1 AAATATTTTA
11920962 AAATATTTTA
1 AAATATTTTA
11920972 AAACT-TTTTA
1 AAA-TATTTTA
11920982 AAA
1 AAA
11920985 CTTTTATATT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 21 0.95
11 1 0.05
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (10 bp):
AAATATTTTA
Found at i:11920985 original size:10 final size:10
Alignment explanation
Indices: 11920957--11920989 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11920947 AACTTAAATA
11920957 TTTTAAAA-T
1 TTTTAAAACT
11920966 ATTTTAAAACT
1 -TTTTAAAACT
11920977 TTTTAAAACT
1 TTTTAAAACT
11920987 TTT
1 TTT
11920990 ATATTCTTTA
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
10 21 0.95
11 1 0.05
ACGTcount: A:0.39, C:0.06, G:0.00, T:0.55
Consensus pattern (10 bp):
TTTTAAAACT
Found at i:11921045 original size:28 final size:29
Alignment explanation
Indices: 11921014--11921068 Score: 85
Period size: 29 Copynumber: 1.9 Consensus size: 29
11921004 AATTTAAAAA
* *
11921014 ATTTT-AACTAATTTTTATAATTTTTTTC
1 ATTTTAAAATAATTTTAATAATTTTTTTC
11921042 ATTTTAAAATAATTTTAATAATTTTTT
1 ATTTTAAAATAATTTTAATAATTTTTT
11921069 AATCAGTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 5 0.21
29 19 0.79
ACGTcount: A:0.35, C:0.04, G:0.00, T:0.62
Consensus pattern (29 bp):
ATTTTAAAATAATTTTAATAATTTTTTTC
Found at i:11921065 original size:20 final size:20
Alignment explanation
Indices: 11921000--11921066 Score: 59
Period size: 20 Copynumber: 3.5 Consensus size: 20
11920990 ATATTCTTTA
*
11921000 AATAAATTTAAAA-AATTTT
1 AATAATTTTAAAATAATTTT
*
11921019 AACTAATTTT--TATAATTTT
1 AA-TAATTTTAAAATAATTTT
** *
11921038 TTTCATTTTAAAATAATTTT
1 AATAATTTTAAAATAATTTT
11921058 AATAATTTT
1 AATAATTTT
11921067 TTAATCAGTC
Statistics
Matches: 35, Mismatches: 9, Indels: 7
0.69 0.18 0.14
Matches are distributed among these distances:
18 7 0.20
19 8 0.23
20 20 0.57
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (20 bp):
AATAATTTTAAAATAATTTT
Found at i:11930040 original size:34 final size:34
Alignment explanation
Indices: 11929997--11930065 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
11929987 AAATTAACAT
11929997 TAGATCTTCCTTATCATACTGAACCTCCATGGCC
1 TAGATCTTCCTTATCATACTGAACCTCCATGGCC
11930031 TAGATCTTCCTTATCATACTGAACCTCCATGGCC
1 TAGATCTTCCTTATCATACTGAACCTCCATGGCC
11930065 T
1 T
11930066 CCAAGTTTGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.23, C:0.32, G:0.12, T:0.33
Consensus pattern (34 bp):
TAGATCTTCCTTATCATACTGAACCTCCATGGCC
Found at i:11930728 original size:24 final size:24
Alignment explanation
Indices: 11930680--11930729 Score: 64
Period size: 24 Copynumber: 2.1 Consensus size: 24
11930670 TTAAAGTCGC
* **
11930680 ATATATTATGCTAATAAATGTTAA
1 ATATATTATACTAATAAATAATAA
*
11930704 ATATATTATACTCATAAATAATAA
1 ATATATTATACTAATAAATAATAA
11930728 AT
1 AT
11930730 CTTCTAGAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.50, C:0.06, G:0.04, T:0.40
Consensus pattern (24 bp):
ATATATTATACTAATAAATAATAA
Found at i:11932620 original size:42 final size:42
Alignment explanation
Indices: 11932565--11932720 Score: 170
Period size: 42 Copynumber: 3.7 Consensus size: 42
11932555 AGTGCTAAAT
* * *
11932565 GAAAACCAGTAAGGGTTAAACGGAAGCTC-ATAGAAGCTGAACG
1 GAAACCCA-TAAGGGTTAAACTGAAGCTCAAAAG-AGCTGAACG
* * *
11932608 GAAACCCATAAGGGTTAATCTGAAGCTTAAAAGAGCTAAACG
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
* * * *
11932650 GAAACCAATTAGGGTTAAATTGAAGCTCAAAAGAGCTGAACT
1 GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
* * *
11932692 GAAACCCAGAAGGGTTAATCTGAAACTCA
1 GAAACCCATAAGGGTTAAACTGAAGCTCA
11932721 TATGAGTTGA
Statistics
Matches: 93, Mismatches: 19, Indels: 3
0.81 0.17 0.03
Matches are distributed among these distances:
42 83 0.89
43 10 0.11
ACGTcount: A:0.42, C:0.17, G:0.23, T:0.18
Consensus pattern (42 bp):
GAAACCCATAAGGGTTAAACTGAAGCTCAAAAGAGCTGAACG
Found at i:11932687 original size:84 final size:84
Alignment explanation
Indices: 11932558--11932715 Score: 219
Period size: 84 Copynumber: 1.9 Consensus size: 84
11932548 GCACATAAGT
* * * *
11932558 GCTAAATGAAAACCAGTAAGGGTTAAACGGAAGCTCATAGAAGCTGAACGGAAACCCATAAGGGT
1 GCTAAACGAAAACCAATAAGGGTTAAACGGAAGCTCAAAGAAGCTGAACGGAAACCCAGAAGGGT
11932623 TAATCTGAAGCTTAAAAGA
66 TAATCTGAAGCTTAAAAGA
* * ** *
11932642 GCTAAACGGAAACCAATTAGGGTTAAATTGAAGCTCAAA-AGAGCTGAACTGAAACCCAGAAGGG
1 GCTAAACGAAAACCAATAAGGGTTAAACGGAAGCTCAAAGA-AGCTGAACGGAAACCCAGAAGGG
11932706 TTAATCTGAA
65 TTAATCTGAA
11932716 ACTCATATGA
Statistics
Matches: 64, Mismatches: 9, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
83 1 0.02
84 63 0.98
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.18
Consensus pattern (84 bp):
GCTAAACGAAAACCAATAAGGGTTAAACGGAAGCTCAAAGAAGCTGAACGGAAACCCAGAAGGGT
TAATCTGAAGCTTAAAAGA
Found at i:11945318 original size:20 final size:22
Alignment explanation
Indices: 11945295--11945335 Score: 59
Period size: 20 Copynumber: 2.0 Consensus size: 22
11945285 ATAATTTTCA
*
11945295 AAAATAGTTTT-T-AGTTTTTT
1 AAAATAATTTTATGAGTTTTTT
11945315 AAAATAATTTTATGAGTTTTT
1 AAAATAATTTTATGAGTTTTT
11945336 AGAATTTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 10 0.56
21 1 0.06
22 7 0.39
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.56
Consensus pattern (22 bp):
AAAATAATTTTATGAGTTTTTT
Found at i:11948292 original size:42 final size:42
Alignment explanation
Indices: 11948240--11948324 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
11948230 GGGCATTTTT
*
11948240 ATAATTTTTCTAACCGAGCATTTGGGACATCAACTCAGTCAA
1 ATAAGTTTTCTAACCGAGCATTTGGGACATCAACTCAGTCAA
11948282 ATAAGTTTTCTAACCGAGCATTTGGGACATCAACTCAGTCAA
1 ATAAGTTTTCTAACCGAGCATTTGGGACATCAACTCAGTCAA
11948324 A
1 A
11948325 ACAATTTTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.34, C:0.21, G:0.15, T:0.29
Consensus pattern (42 bp):
ATAAGTTTTCTAACCGAGCATTTGGGACATCAACTCAGTCAA
Found at i:11955046 original size:90 final size:89
Alignment explanation
Indices: 11954945--11955150 Score: 252
Period size: 90 Copynumber: 2.3 Consensus size: 89
11954935 AACTTAAAAA
* *
11954945 AAAAAGAGCAATTAAGCCCCT-CTTTTTTTTTTACACTCAATTGAGCACCGGAACTTTAAAAATG
1 AAAAA-AGCAATTAAGCCCCTACTCTTTTTTTT-CACTCAATTGAGCACCGGAACTTTAAAAATA
*
11955009 CATAAAAAAGACCCTCAAACTTCTTC
64 CATAAAAAAGACCCTCAAAATTCTTC
* * * * * ** *
11955035 AAAAAATGCAATTAAACTCTTACTCTTTTTTTTCACTCAATTGGGTACTTGAACTTTCAAAATAC
1 AAAAAA-GCAATTAAGCCCCTACTCTTTTTTTTCACTCAATTGAGCACCGGAACTTTAAAAATAC
* *
11955100 ATCAAAAAGACCCTCAAAATTTTTC
65 ATAAAAAAGACCCTCAAAATTCTTC
*
11955125 AAAAAAGCAATTAAGCCCCTGCTCTT
1 AAAAAAGCAATTAAGCCCCTACTCTT
11955151 ATTAAAAATT
Statistics
Matches: 97, Mismatches: 17, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
89 17 0.18
90 70 0.72
91 10 0.10
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (89 bp):
AAAAAAGCAATTAAGCCCCTACTCTTTTTTTTCACTCAATTGAGCACCGGAACTTTAAAAATACA
TAAAAAAGACCCTCAAAATTCTTC
Found at i:11955277 original size:45 final size:44
Alignment explanation
Indices: 11955149--11955293 Score: 125
Period size: 44 Copynumber: 3.2 Consensus size: 44
11955139 GCCCCTGCTC
* *
11955149 TTATTAAAAATTAGAATTTTTTTTATAAAAA-ATAAAAAAATAAATT
1 TTATT-AAAATTAGAA--TTTTTTATAAAAACATAAAAAATTAAAAT
** * * * *
11955195 TTAGAAAAATTATTAAATTTTAATAGAAACAT-AAAAATTAAAAT
1 TTATTAAAATTA-GAATTTTTTATAAAAACATAAAAAATTAAAAT
* * *
11955239 TTATTAAAATTAGAATTTTTTATAAAAATCGTAAAAAATAAAAAA
1 TTATTAAAATTAGAATTTTTTATAAAAA-CATAAAAAATTAAAAT
11955284 TTA-TAAAATT
1 TTATTAAAATT
11955294 TTATAAATAT
Statistics
Matches: 78, Mismatches: 17, Indels: 10
0.74 0.16 0.10
Matches are distributed among these distances:
43 12 0.15
44 39 0.50
45 22 0.28
46 5 0.06
ACGTcount: A:0.57, C:0.01, G:0.03, T:0.38
Consensus pattern (44 bp):
TTATTAAAATTAGAATTTTTTATAAAAACATAAAAAATTAAAAT
Found at i:11955284 original size:36 final size:37
Alignment explanation
Indices: 11955244--11955314 Score: 90
Period size: 36 Copynumber: 1.9 Consensus size: 37
11955234 AAAATTTATT
**
11955244 AAAATTAGAATTTTTTATAAAAATC-GTAAAAAATAA
1 AAAATTAGAAAATTTTATAAAAATCAGTAAAAAATAA
* * *
11955280 AAAATTATAAAATTTTATAAATATCATTAAAAAAT
1 AAAATTAGAAAATTTTATAAAAATCAGTAAAAAAT
11955315 TAACGACCCC
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
36 21 0.72
37 8 0.28
ACGTcount: A:0.59, C:0.03, G:0.03, T:0.35
Consensus pattern (37 bp):
AAAATTAGAAAATTTTATAAAAATCAGTAAAAAATAA
Found at i:11955508 original size:20 final size:21
Alignment explanation
Indices: 11955485--11955524 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
11955475 TTATATTTCT
* *
11955485 TTAC-ATTTTTTATAATTTAC
1 TTACAATTTTATAAAATTTAC
11955505 TTACAATTTTATAAAATTTA
1 TTACAATTTTATAAAATTTA
11955525 TATTTCTATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.38, C:0.07, G:0.00, T:0.55
Consensus pattern (21 bp):
TTACAATTTTATAAAATTTAC
Found at i:11955601 original size:21 final size:21
Alignment explanation
Indices: 11955576--11955631 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 21
11955566 AAATTTTACA
11955576 AATTTTTTATATTTTTTTTAT
1 AATTTTTTATATTTTTTTTAT
* * *
11955597 GA-TTTTTAGATATATTTTTAT
1 AATTTTTTATAT-TTTTTTTAT
*
11955618 AATTTTTAATATTT
1 AATTTTTTATATTT
11955632 AATTTTTTAT
Statistics
Matches: 26, Mismatches: 7, Indels: 4
0.70 0.19 0.11
Matches are distributed among these distances:
20 8 0.31
21 11 0.42
22 7 0.27
ACGTcount: A:0.29, C:0.00, G:0.04, T:0.68
Consensus pattern (21 bp):
AATTTTTTATATTTTTTTTAT
Found at i:11955637 original size:22 final size:22
Alignment explanation
Indices: 11955567--11955637 Score: 58
Period size: 21 Copynumber: 3.3 Consensus size: 22
11955557 TTTTTTATAA
* *
11955567 AATTTTACAAATTTTTTATATTT
1 AATTTTA-TAATTTTTAATATTT
* *
11955590 -TTTTTATGATTTTTAGATA--T
1 AATTTTATAATTTTTA-ATATTT
*
11955610 ATTTTTATAATTTTTAATATTT
1 AATTTTATAATTTTTAATATTT
11955632 AATTTT
1 AATTTT
11955638 TTATTAAAAT
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
20 4 0.11
21 20 0.53
22 14 0.37
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (22 bp):
AATTTTATAATTTTTAATATTT
Found at i:11957614 original size:24 final size:24
Alignment explanation
Indices: 11957551--11957602 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
11957541 TTTTTAAAAG
* * *
11957551 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11957575 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
11957599 ATTT
1 ATTT
11957603 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:11961673 original size:38 final size:38
Alignment explanation
Indices: 11961622--11961697 Score: 143
Period size: 38 Copynumber: 2.0 Consensus size: 38
11961612 CTTACAAAAG
11961622 ATCAAATGTTTCATGAGAGAACAAAACACATTGATGTT
1 ATCAAATGTTTCATGAGAGAACAAAACACATTGATGTT
*
11961660 ATCAAATGTTTCATGAGAGATCAAAACACATTGATGTT
1 ATCAAATGTTTCATGAGAGAACAAAACACATTGATGTT
11961698 CAGTATCATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.41, C:0.13, G:0.16, T:0.30
Consensus pattern (38 bp):
ATCAAATGTTTCATGAGAGAACAAAACACATTGATGTT
Found at i:11964227 original size:3 final size:3
Alignment explanation
Indices: 11964187--11964286 Score: 141
Period size: 3 Copynumber: 33.7 Consensus size: 3
11964177 TGCTATACCC
* * **
11964187 TTA TT- TTA TT- TTA TTTA TTG TTA TTA TTG TTA ACA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11964231 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
11964279 TTA TTA TT
1 TTA TTA TT
11964287 CCATTCACAC
Statistics
Matches: 86, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
2 4 0.05
3 79 0.92
4 3 0.03
ACGTcount: A:0.30, C:0.01, G:0.02, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11964518 original size:24 final size:24
Alignment explanation
Indices: 11964486--11964554 Score: 68
Period size: 26 Copynumber: 2.8 Consensus size: 24
11964476 TACAAATATA
11964486 TATATATATATACACATTTACATTT
1 TATA-ATATATACACATTTACATTT
* * *
11964511 TATAATATGTATACATTCTTCCATTT
1 TATAATATATACACA-T-TTACATTT
11964537 TATAAT-TCATACACATTT
1 TATAATAT-ATACACATTT
11964555 TCATATACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
24 11 0.31
25 7 0.19
26 18 0.50
ACGTcount: A:0.36, C:0.14, G:0.01, T:0.48
Consensus pattern (24 bp):
TATAATATATACACATTTACATTT
Found at i:11964755 original size:43 final size:43
Alignment explanation
Indices: 11964708--11964793 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
11964698 TGTTGTTTTG
11964708 TTTTATATATTTCATTCATTTCTTATTTTTTGTATACTTATAT
1 TTTTATATATTTCATTCATTTCTTATTTTTTGTATACTTATAT
11964751 TTTTATATATTTCATTCATTTCTTATTTTTTGTATACTTATAT
1 TTTTATATATTTCATTCATTTCTTATTTTTTGTATACTTATAT
11964794 GTACTTGTTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.23, C:0.09, G:0.02, T:0.65
Consensus pattern (43 bp):
TTTTATATATTTCATTCATTTCTTATTTTTTGTATACTTATAT
Found at i:11969251 original size:47 final size:47
Alignment explanation
Indices: 11969194--11969284 Score: 146
Period size: 47 Copynumber: 1.9 Consensus size: 47
11969184 TAAAAGGTGG
* * *
11969194 GACCAAGGTGAAAGCCTACAAAGGGCGCTTTGAGTAAAAAAAAAAAA
1 GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAAAAAA
*
11969241 GACCAGGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAAA
1 GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAAA
11969285 TGGAGAGGCT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 40 1.00
ACGTcount: A:0.47, C:0.16, G:0.24, T:0.12
Consensus pattern (47 bp):
GACCAAGGTGAAACCCTACAAAGGGAGCCTTGAGTAAAAAAAAAAAA
Found at i:11970637 original size:50 final size:50
Alignment explanation
Indices: 11970500--11970649 Score: 158
Period size: 50 Copynumber: 3.0 Consensus size: 50
11970490 GTGAAACCAT
*
11970500 AGATTTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGC
1 AGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGC
*** * * * * ** * *
11970550 AGATCTGGTTTCCCT-GATATTGCAATTTAAAAGATTGAAGCCACGACGGC
1 AGATCTTACTTCCTTAG-CAGTGCAGTGGAACAGATTGAAGCTACGACGGC
* *
11970600 GGATCTTACTTCCTTAGCAGTGCAGTGGAACATATTGAAGCTACGACGGC
1 AGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGC
11970650 NNNNNNNNNN
Statistics
Matches: 73, Mismatches: 25, Indels: 4
0.72 0.25 0.04
Matches are distributed among these distances:
49 1 0.01
50 71 0.97
51 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.27
Consensus pattern (50 bp):
AGATCTTACTTCCTTAGCAGTGCAGTGGAACAGATTGAAGCTACGACGGC
Found at i:11971718 original size:3 final size:3
Alignment explanation
Indices: 11971710--11971769 Score: 52
Period size: 3 Copynumber: 19.7 Consensus size: 3
11971700 TGCGGTAAGT
* * *
11971710 ATA ATA ATA AAA ATA TATA AT- ATA ATG ATA ATA A-A CTA ATA ATA
1 ATA ATA ATA ATA ATA -ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11971754 ATA CAGTA ATA ATA AT
1 ATA -A-TA ATA ATA AT
11971770 GTAATATATA
Statistics
Matches: 46, Mismatches: 6, Indels: 10
0.74 0.10 0.16
Matches are distributed among these distances:
2 3 0.07
3 36 0.78
4 5 0.11
5 2 0.04
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:11973077 original size:3 final size:3
Alignment explanation
Indices: 11973037--11973091 Score: 51
Period size: 3 Copynumber: 18.7 Consensus size: 3
11973027 TGCTATACCC
* * **
11973037 TTA TT- TTA TT- TTA TTTA TTG TTA TTA TTG TTA ACA TTA TTA TTA
1 TTA TTA TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
11973081 TTA TTA TTA TT
1 TTA TTA TTA TT
11973092 CCATTCACAC
Statistics
Matches: 41, Mismatches: 8, Indels: 6
0.75 0.15 0.11
Matches are distributed among these distances:
2 4 0.10
3 34 0.83
4 3 0.07
ACGTcount: A:0.27, C:0.02, G:0.04, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:11973319 original size:24 final size:24
Alignment explanation
Indices: 11973287--11973355 Score: 68
Period size: 26 Copynumber: 2.8 Consensus size: 24
11973277 TATATACAAA
11973287 TATATATATATACACATTTACATTT
1 TATA-ATATATACACATTTACATTT
* * *
11973312 TATAATATGTATACATTCTTCCATTT
1 TATAATATATACACA-T-TTACATTT
11973338 TATAAT-TCATACACATTT
1 TATAATAT-ATACACATTT
11973356 TCATATACAT
Statistics
Matches: 36, Mismatches: 5, Indels: 7
0.75 0.10 0.15
Matches are distributed among these distances:
24 11 0.31
25 7 0.19
26 18 0.50
ACGTcount: A:0.36, C:0.14, G:0.01, T:0.48
Consensus pattern (24 bp):
TATAATATATACACATTTACATTT
Found at i:11974638 original size:20 final size:19
Alignment explanation
Indices: 11974615--11974658 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
11974605 AATTTAAATG
*
11974615 TTTTTTATAATATTTTTAAC
1 TTTTATATAATA-TTTTAAC
*
11974635 TTTTATATATTATTTTAAC
1 TTTTATATAATATTTTAAC
11974654 TTTTA
1 TTTTA
11974659 AAATTTATAT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 12 0.55
20 10 0.45
ACGTcount: A:0.30, C:0.05, G:0.00, T:0.66
Consensus pattern (19 bp):
TTTTATATAATATTTTAAC
Found at i:11974691 original size:8 final size:8
Alignment explanation
Indices: 11974617--11974692 Score: 50
Period size: 9 Copynumber: 9.1 Consensus size: 8
11974607 TTTAAATGTT
11974617 TTTTATAA
1 TTTTATAA
*
11974625 TATTTTTAA
1 T-TTTATAA
11974634 CTTTTATATA
1 -TTTTATA-A
*
11974644 TTATTTTAA
1 TT-TTATAA
11974653 CTTTTA-AA
1 -TTTTATAA
*
11974661 ATTTAT-A
1 TTTTATAA
11974668 -TTTATATA
1 TTTTATA-A
11974676 TTTTATAA
1 TTTTATAA
11974684 TTTTATAA
1 TTTTATAA
11974692 T
1 T
11974693 AAAATTTTGA
Statistics
Matches: 54, Mismatches: 5, Indels: 18
0.70 0.06 0.23
Matches are distributed among these distances:
6 5 0.09
7 5 0.09
8 14 0.26
9 22 0.41
10 8 0.15
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.62
Consensus pattern (8 bp):
TTTTATAA
Found at i:11979361 original size:25 final size:25
Alignment explanation
Indices: 11979332--11979379 Score: 96
Period size: 25 Copynumber: 1.9 Consensus size: 25
11979322 AACTACAACC
11979332 TATCAGAACATTCAGTTTTGATCTG
1 TATCAGAACATTCAGTTTTGATCTG
11979357 TATCAGAACATTCAGTTTTGATC
1 TATCAGAACATTCAGTTTTGATC
11979380 CCATGAATTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.17, G:0.15, T:0.40
Consensus pattern (25 bp):
TATCAGAACATTCAGTTTTGATCTG
Found at i:11985427 original size:26 final size:26
Alignment explanation
Indices: 11985368--11985437 Score: 70
Period size: 26 Copynumber: 2.7 Consensus size: 26
11985358 ATATAAATAT
* *
11985368 AAAATGTTTTAAATATTTTAATATAA
1 AAAATATTTTTAATATTTTAATATAA
*
11985394 AAAATA-TTTTAATATTTTATATTTAA
1 AAAATATTTTTAATATTTTA-ATATAA
* *
11985420 ATATTATTCTTTAATATT
1 AAAATATT-TTTAATATT
11985438 AAATTGATTT
Statistics
Matches: 36, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
25 12 0.33
26 14 0.39
27 1 0.03
28 9 0.25
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (26 bp):
AAAATATTTTTAATATTTTAATATAA
Found at i:11995134 original size:21 final size:20
Alignment explanation
Indices: 11995110--11995149 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 20
11995100 GATTAATGAT
*
11995110 TCAATTTAATAAAAATAAATA
1 TCAAATTAATAAAAA-AAATA
11995131 TCAAATTAATAAAAAAAAT
1 TCAAATTAATAAAAAAAAT
11995150 TATAAACATT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.65, C:0.05, G:0.00, T:0.30
Consensus pattern (20 bp):
TCAAATTAATAAAAAAAATA
Found at i:11996909 original size:125 final size:125
Alignment explanation
Indices: 11996677--11996930 Score: 420
Period size: 125 Copynumber: 2.0 Consensus size: 125
11996667 ACAGTTTTTC
** *
11996677 GTAG-AGAGTGAGGATAAAACTTTAATACATGAATAATACCTTCAATTGTTGACCGTTTAAGTTG
1 GTAGTAGAGTGAGGATAAAACTCCAATACATGAATAATACCTTCAATTGTTGACAGTTTAAGTTG
*
11996741 GCTATTCAAAAAACAACACTTTAAAGACTTCTTACAGAAGAGTTGATTCTATTGTTAATA
66 GCTATTCAAAAAACAACACTTTAAAGACTTCTTACAGAAGAGTTGATCCTATTGTTAATA
11996801 GTAGTAGAGTGAGGATAAAACTCCAATACATGAATAATACCTTCAATTGTTGACAGTTTAAGTTG
1 GTAGTAGAGTGAGGATAAAACTCCAATACATGAATAATACCTTCAATTGTTGACAGTTTAAGTTG
* * * * *
11996866 GCTATTCAAAGAACGACACTTTGAAGACTTCTTATAGAGGAGTTGATCCTATTGTTAATA
66 GCTATTCAAAAAACAACACTTTAAAGACTTCTTACAGAAGAGTTGATCCTATTGTTAATA
11996926 GTAGT
1 GTAGT
11996931 CATCAAAGTT
Statistics
Matches: 120, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
124 4 0.03
125 116 0.97
ACGTcount: A:0.36, C:0.13, G:0.18, T:0.33
Consensus pattern (125 bp):
GTAGTAGAGTGAGGATAAAACTCCAATACATGAATAATACCTTCAATTGTTGACAGTTTAAGTTG
GCTATTCAAAAAACAACACTTTAAAGACTTCTTACAGAAGAGTTGATCCTATTGTTAATA
Found at i:12004611 original size:9 final size:9
Alignment explanation
Indices: 12004597--12004681 Score: 118
Period size: 9 Copynumber: 9.4 Consensus size: 9
12004587 ATAGTGATTC
12004597 AATTCGGTT
1 AATTCGGTT
12004606 AATTCGGTT
1 AATTCGGTT
*
12004615 AATTCGGGT
1 AATTCGGTT
*
12004624 AATTCGGGT
1 AATTCGGTT
12004633 AA-TCTGGTT
1 AATTC-GGTT
*
12004642 AATTCAGTT
1 AATTCGGTT
*
12004651 AATTCGGGT
1 AATTCGGTT
12004660 AATTCGGTT
1 AATTCGGTT
12004669 AATTCGGTT
1 AATTCGGTT
12004678 AATT
1 AATT
12004682 TTTAACCAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
8 2 0.03
9 64 0.94
10 2 0.03
ACGTcount: A:0.25, C:0.11, G:0.24, T:0.41
Consensus pattern (9 bp):
AATTCGGTT
Found at i:12009827 original size:6 final size:6
Alignment explanation
Indices: 12009783--12009820 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
12009773 ATTGATAATC
12009783 ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT AT
1 ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT ATCTAT AT
12009821 ACCTATATAG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.34, C:0.16, G:0.00, T:0.50
Consensus pattern (6 bp):
ATCTAT
Found at i:12011701 original size:200 final size:199
Alignment explanation
Indices: 12011481--12011843 Score: 507
Period size: 200 Copynumber: 1.8 Consensus size: 199
12011471 AGATGCATGA
* * *
12011481 GGGAGGCTTACGGAAAGTAAAAATTATAACAT-TGCTCCTAGACATAT-GGAGAGAACTTACGAA
1 GGGAGGCTTACAGAAAGTAAAAATTATAAC-TCTACTCCTAGACACATGGGA-AGAACTTACGAA
* * * *
12011544 AAGTAGA-AATAATGGCCCTGCTCTCAGATTCATGAAGGAGGCTTATGGAAAGTAGTAATAATGG
64 AAGTA-ATAATAATGGCCCTGCTCCCAGATGCATGAA-GAGGCTTACGAAAAGTAGTAATAATGG
* *
12011608 CCCTACTCCCAGACGCGTAGGGGGAGGCTTACAAAAATTAAAAAAAATTATAACCCTACTTCCAA
127 CCCTACTCCCAGACGCATAGAGGGAGGCTTACAAAAATTAAAAAAAATTATAACCCTACTTCCAA
12011673 ACGCATAG
192 ACGCATAG
* * * *
12011681 GGGAGGCTTATAGAAAGTAAAAATTATAACTCTACTCCTAGACGCATGGGAAGAATTTACTAAAA
1 GGGAGGCTTACAGAAAGTAAAAATTATAACTCTACTCCTAGACACATGGGAAGAACTTACGAAAA
* *
12011746 GTAATAATAATGGCCTTGCTCCCAGATGCATGGAGAGGCTTACGAAAAGTAGTAATAATGGCCCT
66 GTAATAATAATGGCCCTGCTCCCAGATGCATGAAGAGGCTTACGAAAAGTAGTAATAATGGCCCT
* * *
12011811 AGTCCCAGATGCATTGAGGGAGGCTTACAAAAA
131 ACTCCCAGACGCATAGAGGGAGGCTTACAAAAA
12011844 GTAGTAATAA
Statistics
Matches: 142, Mismatches: 18, Indels: 7
0.85 0.11 0.04
Matches are distributed among these distances:
199 59 0.42
200 80 0.56
201 3 0.02
ACGTcount: A:0.37, C:0.17, G:0.23, T:0.23
Consensus pattern (199 bp):
GGGAGGCTTACAGAAAGTAAAAATTATAACTCTACTCCTAGACACATGGGAAGAACTTACGAAAA
GTAATAATAATGGCCCTGCTCCCAGATGCATGAAGAGGCTTACGAAAAGTAGTAATAATGGCCCT
ACTCCCAGACGCATAGAGGGAGGCTTACAAAAATTAAAAAAAATTATAACCCTACTTCCAAACGC
ATAG
Found at i:12011897 original size:49 final size:49
Alignment explanation
Indices: 12011737--12011941 Score: 245
Period size: 48 Copynumber: 4.2 Consensus size: 49
12011727 TGGGAAGAAT
* * * *
12011737 TTACTAAAAGTAATAATAATGGCCTTGCTCCCAGATGCAT-GGAGAGGC
1 TTACGAAAAGTAGTAATAATGGCCTTGCTCCCAAATGCATGGGGGAGGC
* * *
12011785 TTACGAAAAGTAGTAATAATGGCCCTAG-TCCCAGATGCATTGAGGGAGGC
1 TTACGAAAAGTAGTAATAATGG-CCTTGCTCCCAAATGCA-TGGGGGAGGC
* ** *
12011835 TTACAAAAAGTAGTAATAATGGCCTTGCTCTTAAACGCATGGGGGAGGC
1 TTACGAAAAGTAGTAATAATGGCCTTGCTCCCAAATGCATGGGGGAGGC
* * *
12011884 TTATGAAAAGTAGTAATAATGGCCCTGCT-CCAAATGCATGGGGGAAGC
1 TTACGAAAAGTAGTAATAATGGCCTTGCTCCCAAATGCATGGGGGAGGC
12011932 TTACGAAAAG
1 TTACGAAAAG
12011942 CAAAAAAAAA
Statistics
Matches: 133, Mismatches: 20, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
48 55 0.41
49 44 0.33
50 34 0.26
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (49 bp):
TTACGAAAAGTAGTAATAATGGCCTTGCTCCCAAATGCATGGGGGAGGC
Found at i:12011921 original size:98 final size:97
Alignment explanation
Indices: 12011737--12011941 Score: 261
Period size: 98 Copynumber: 2.1 Consensus size: 97
12011727 TGGGAAGAAT
* * *
12011737 TTACTAAAAGTAATAATAATGGCCTTGCTCCCAGATGCATGGAGAGGCTTACGAAAAGTAGTAAT
1 TTACAAAAAGTAATAATAATGGCCTTGCTCCCAAACGCATGGAGAGGCTTACGAAAAGTAGTAAT
* *
12011802 AATGGCCCTAGTCCCAGATGCATTGAGGGAGGC
66 AATGGCCCTAGTCCCAAATGCA-TGAGGGAAGC
* ** * *
12011835 TTACAAAAAGTAGTAATAATGGCCTTGCTCTTAAACGCATGGGGGAGGCTTATGAAAAGTAGTAA
1 TTACAAAAAGTAATAATAATGGCCTTGCTCCCAAACGCAT-GGAGAGGCTTACGAAAAGTAGTAA
*
12011900 TAATGGCCCT-G-CTCCAAATGCATGGGGGAAGC
65 TAATGGCCCTAGTC-CCAAATGCATGAGGGAAGC
*
12011932 TTACGAAAAG
1 TTACAAAAAG
12011942 CAAAAAAAAA
Statistics
Matches: 93, Mismatches: 12, Indels: 5
0.85 0.11 0.05
Matches are distributed among these distances:
97 18 0.19
98 43 0.46
99 32 0.34
ACGTcount: A:0.34, C:0.17, G:0.26, T:0.23
Consensus pattern (97 bp):
TTACAAAAAGTAATAATAATGGCCTTGCTCCCAAACGCATGGAGAGGCTTACGAAAAGTAGTAAT
AATGGCCCTAGTCCCAAATGCATGAGGGAAGC
Found at i:12013825 original size:20 final size:19
Alignment explanation
Indices: 12013800--12013849 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
12013790 GAATTGTTAG
12013800 AAATCAAAGCAT-TTAACTTC
1 AAATCAAAG-ATATTAAC-TC
*
12013820 AAATCAGAGATATTAACTC
1 AAATCAAAGATATTAACTC
*
12013839 AAATCATAGAT
1 AAATCAAAGAT
12013850 TCATGTCTAC
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
19 14 0.52
20 13 0.48
ACGTcount: A:0.48, C:0.16, G:0.08, T:0.28
Consensus pattern (19 bp):
AAATCAAAGATATTAACTC
Found at i:12013842 original size:19 final size:20
Alignment explanation
Indices: 12013812--12013849 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
12013802 ATCAAAGCAT
12013812 TTAACTTCAAATCAGAGATA
1 TTAACTTCAAATCAGAGATA
*
12013832 TTAAC-TCAAATCATAGAT
1 TTAACTTCAAATCAGAGAT
12013850 TCATGTCTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.45, C:0.16, G:0.08, T:0.32
Consensus pattern (20 bp):
TTAACTTCAAATCAGAGATA
Found at i:12015532 original size:13 final size:13
Alignment explanation
Indices: 12015514--12015540 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
12015504 AGTTCTTCAT
12015514 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
12015527 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
12015540 T
1 T
12015541 TTAGTTTAAA
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:0.30, C:0.07, G:0.22, T:0.41
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:12016986 original size:11 final size:11
Alignment explanation
Indices: 12016970--12016995 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
12016960 TGGGTTGGGC
12016970 AGTAAATTATT
1 AGTAAATTATT
12016981 AGTAAATTATT
1 AGTAAATTATT
12016992 AGTA
1 AGTA
12016996 TCAGCTTTGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.46, C:0.00, G:0.12, T:0.42
Consensus pattern (11 bp):
AGTAAATTATT
Found at i:12018266 original size:20 final size:20
Alignment explanation
Indices: 12018219--12018267 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
12018209 TGGTGTCTTG
*
12018219 TAAATAAATATTAATAATTT
1 TAAATAAATATTAATAATTA
**
12018239 TATTTAAATA-TAATTAATTA
1 TAAATAAATATTAA-TAATTA
12018259 TAAATAAAT
1 TAAATAAAT
12018268 GCTAACACCC
Statistics
Matches: 23, Mismatches: 5, Indels: 2
0.77 0.17 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (20 bp):
TAAATAAATATTAATAATTA
Found at i:12023374 original size:18 final size:18
Alignment explanation
Indices: 12023351--12023396 Score: 83
Period size: 18 Copynumber: 2.5 Consensus size: 18
12023341 ATGCGGTCGT
12023351 TGCCTTGTTCTAAATTCA
1 TGCCTTGTTCTAAATTCA
12023369 TGCCTTGTTCTAAATTCA
1 TGCCTTGTTCTAAATTCA
12023387 TGCCGTTGTT
1 TGCC-TTGTT
12023397 TGATTTTGAA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 22 0.81
19 5 0.19
ACGTcount: A:0.17, C:0.22, G:0.15, T:0.46
Consensus pattern (18 bp):
TGCCTTGTTCTAAATTCA
Found at i:12040218 original size:46 final size:46
Alignment explanation
Indices: 12040140--12040266 Score: 193
Period size: 46 Copynumber: 2.8 Consensus size: 46
12040130 ACATTGCTAT
*
12040140 AACTCAATATGGTTTTCTTTACTGAAACACCATACCTACTCTTCAC
1 AACTCAATATGGTTTTCTTTACTGAAATACCATACCTACTCTTCAC
* * *
12040186 AACTCAGTATGGTTTTCTTTA-TCGAAATACCATAACTACTTTTCAC
1 AACTCAATATGGTTTTCTTTACT-GAAATACCATACCTACTCTTCAC
*
12040232 AACTCAATATGGTTTTCTTCACTGAAATACCATAC
1 AACTCAATATGGTTTTCTTTACTGAAATACCATAC
12040267 ATACGTTTCA
Statistics
Matches: 72, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
45 1 0.01
46 70 0.97
47 1 0.01
ACGTcount: A:0.31, C:0.24, G:0.08, T:0.36
Consensus pattern (46 bp):
AACTCAATATGGTTTTCTTTACTGAAATACCATACCTACTCTTCAC
Found at i:12061204 original size:18 final size:17
Alignment explanation
Indices: 12061170--12061204 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
12061160 CTATATAATC
*
12061170 AAATACCATACATATAT
1 AAATACCATAAATATAT
12061187 AAATACCATGAAATATAT
1 AAATACCAT-AAATATAT
12061205 TTTCATAATA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 9 0.56
18 7 0.44
ACGTcount: A:0.54, C:0.14, G:0.03, T:0.29
Consensus pattern (17 bp):
AAATACCATAAATATAT
Found at i:12061829 original size:43 final size:42
Alignment explanation
Indices: 12061762--12061874 Score: 120
Period size: 42 Copynumber: 2.7 Consensus size: 42
12061752 CTCGTACAAT
* * * *
12061762 GCCAACGTCCCAAAC-GTGGTCTTACATGTAATCAAACAACGAT
1 GCCAATGTCCCAGACAG-GGTCTTACACGTAATCAAA-AACGAC
* * * *
12061805 TCCACTGTCCCAGACAGGGTCTTACACGTAATCATATACGAC
1 GCCAATGTCCCAGACAGGGTCTTACACGTAATCAAAAACGAC
*
12061847 GCCAATGTCCCAGACATGGTCTTACACG
1 GCCAATGTCCCAGACAGGGTCTTACACG
12061875 AAAATCTCAA
Statistics
Matches: 58, Mismatches: 11, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
42 29 0.50
43 28 0.48
44 1 0.02
ACGTcount: A:0.30, C:0.30, G:0.18, T:0.22
Consensus pattern (42 bp):
GCCAATGTCCCAGACAGGGTCTTACACGTAATCAAAAACGAC
Found at i:12061868 original size:42 final size:42
Alignment explanation
Indices: 12061762--12061918 Score: 138
Period size: 43 Copynumber: 3.7 Consensus size: 42
12061752 CTCGTACAAT
* * * * *
12061762 GCCAACGTCCCAAACGTGGTCTTACATGTAATCAAACAACGAT
1 GCCAACGTCCCAGACATGGTCTTACACGTAATCATA-AACGAC
* * *
12061805 TCC-ACTGTCCCAGACAGGGTCTTACACGTAATCATATACGAC
1 GCCAAC-GTCCCAGACATGGTCTTACACGTAATCATAAACGAC
* * *
12061847 GCCAATGTCCCAGACATGGTCTTACACGAAAATC-TCAAATCGAG
1 GCCAACGTCCCAGACATGGTCTTACACG-TAATCAT-AAA-CGAC
* *
12061891 GCTAACGTTCCAGACATGGTCTTACACG
1 GCCAACGTCCCAGACATGGTCTTACACG
12061919 ATGTCACATT
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
42 30 0.33
43 34 0.37
44 28 0.30
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (42 bp):
GCCAACGTCCCAGACATGGTCTTACACGTAATCATAAACGAC
Found at i:12066267 original size:21 final size:23
Alignment explanation
Indices: 12066244--12066287 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
12066234 ATTTTAATTT
**
12066244 AAAT-TTAATTATGAAATATATA
1 AAATGTTAATTAAAAAATATATA
12066266 AAATGTTAATTAAAAAATATAT
1 AAATGTTAATTAAAAAATATAT
12066288 TTAATATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.57, C:0.00, G:0.05, T:0.39
Consensus pattern (23 bp):
AAATGTTAATTAAAAAATATATA
Found at i:12067066 original size:22 final size:22
Alignment explanation
Indices: 12067032--12067073 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
12067022 TATACAAGTA
* *
12067032 ATATTACTTGAATAGTTATGAG
1 ATATTACTAGAATAATTATGAG
*
12067054 ATATTAGTAGAATAATTATG
1 ATATTACTAGAATAATTATG
12067074 TCTCTTTTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.40, C:0.02, G:0.17, T:0.40
Consensus pattern (22 bp):
ATATTACTAGAATAATTATGAG
Found at i:12070914 original size:28 final size:28
Alignment explanation
Indices: 12070874--12070999 Score: 164
Period size: 28 Copynumber: 4.5 Consensus size: 28
12070864 TGACTTTCGA
* *
12070874 CACTAAGTGTGCGAATTTAATTGTAAAT
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
12070902 CACTAAGTGTGCGAGTTTAATTGTAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * *
12070930 CACTAAGTGTGTGAGTTTAATGGCAAAG
1 CACTAAGTGTGCGAGTTTAATTGTAAAG
* * *
12070958 CACTAAGTGTGCGAGTTTGATTATTGAA-
1 CACTAAGTGTGCGAGTTTAATT-GTAAAG
12070986 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
12071000 ACTTATTAAA
Statistics
Matches: 86, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 84 0.98
29 2 0.02
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.32
Consensus pattern (28 bp):
CACTAAGTGTGCGAGTTTAATTGTAAAG
Found at i:12071769 original size:23 final size:23
Alignment explanation
Indices: 12071710--12071871 Score: 125
Period size: 23 Copynumber: 7.0 Consensus size: 23
12071700 TGCTACATAT
* *
12071710 ATGCTGCCAAATTTTGGTGA-ATAA
1 ATGCTGTCAAATTTT-GT-ATATAC
*
12071734 ATGCTGTCCAATTTTGTATATAC
1 ATGCTGTCAAATTTTGTATATAC
* *
12071757 ATGTTGTCAAATTTTGTGTATA-
1 ATGCTGTCAAATTTTGTATATAC
* *
12071779 AGTGCTGTCCAAA-TTGGTATATAT
1 A-TGCTGT-CAAATTTTGTATATAC
* * *
12071803 ATGCTGCCCAATTTTGGTGA-ATAA
1 ATGCTGTCAAATTTT-GT-ATATAC
*
12071827 ATGCTGTCCAATTTTGTATATAC
1 ATGCTGTCAAATTTTGTATATAC
* *
12071850 ACGCTGTCAAATTTTGTGTATA
1 ATGCTGTCAAATTTTGTATATA
12071872 AGTACTATCC
Statistics
Matches: 112, Mismatches: 18, Indels: 17
0.76 0.12 0.12
Matches are distributed among these distances:
22 6 0.05
23 68 0.61
24 37 0.33
25 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.18, T:0.40
Consensus pattern (23 bp):
ATGCTGTCAAATTTTGTATATAC
Found at i:12071789 original size:46 final size:47
Alignment explanation
Indices: 12071696--12071924 Score: 246
Period size: 46 Copynumber: 4.9 Consensus size: 47
12071686 TAATGGTCTA
* * * *
12071696 AAATTGCTACATATATGCTGCCAAATTTTGGTGAATAAATGCTGTCC
1 AAATTGGTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCC
* * * * *
12071743 AATTTTGTATATACATGTTGTCAAATTTT-GTGTATAAGTGCTGTCC
1 AAATTGGTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCC
* * *
12071789 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCC
1 AAATTGGTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCC
* * * * * * *
12071836 AATTTTGTATATACACGCTGTCAAATTTT-GTGTATAAGTACTATCC
1 AAATTGGTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCC
* * *
12071882 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCT
1 AAATTGGTATATACATGCTGTCAAATTTTGGTGAATAAATGCT
12071925 TGGATAAATG
Statistics
Matches: 144, Mismatches: 36, Indels: 4
0.78 0.20 0.02
Matches are distributed among these distances:
46 74 0.51
47 70 0.49
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (47 bp):
AAATTGGTATATACATGCTGTCAAATTTTGGTGAATAAATGCTGTCC
Found at i:12071803 original size:93 final size:93
Alignment explanation
Indices: 12071696--12071924 Score: 395
Period size: 93 Copynumber: 2.5 Consensus size: 93
12071686 TAATGGTCTA
* * * * *
12071696 AAATTGCTACATATATGCTGCCAAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACATGT
1 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACACGC
* *
12071761 TGTCAAATTTTGTGTATAAGTGCTGTCC
66 TGTCAAATTTTGTGTATAAGTACTATCC
12071789 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACACGC
1 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACACGC
12071854 TGTCAAATTTTGTGTATAAGTACTATCC
66 TGTCAAATTTTGTGTATAAGTACTATCC
12071882 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCT
1 AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCT
12071925 TGGATAAATG
Statistics
Matches: 129, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 129 1.00
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.39
Consensus pattern (93 bp):
AAATTGGTATATATATGCTGCCCAATTTTGGTGAATAAATGCTGTCCAATTTTGTATATACACGC
TGTCAAATTTTGTGTATAAGTACTATCC
Found at i:12071906 original size:23 final size:23
Alignment explanation
Indices: 12071696--12071906 Score: 103
Period size: 23 Copynumber: 9.1 Consensus size: 23
12071686 TAATGGTCTA
* *
12071696 AAATTGCTACATATATGCTG-CC
1 AAATTGGTATATATATGCTGTCC
*
12071718 AAATTTTGGTGA-ATAAATGCTGTCC
1 AAA--TTGGT-ATATATATGCTGTCC
* * * *
12071743 AATTTTGTATATACATGTTGT-C
1 AAATTGGTATATATATGCTGTCC
* *
12071765 AAATTTTGTGTATA-AGTGCTGTCC
1 AAA-TTGGTATATATA-TGCTGTCC
*
12071789 AAATTGGTATATATATGCTGCCC
1 AAATTGGTATATATATGCTGTCC
* *
12071812 AATTTTGGTGA-ATAAATGCTGTCC
1 AA-ATTGGT-ATATATATGCTGTCC
* * * *
12071836 AATTTTGTATATACACGCTGT-C
1 AAATTGGTATATATATGCTGTCC
* * * *
12071858 AAATTTTGTGTATA-AGTACTATCC
1 AAA-TTGGTATATATA-TGCTGTCC
*
12071882 AAATTGGTATATATATGCTGCCC
1 AAATTGGTATATATATGCTGTCC
12071905 AA
1 AA
12071907 TTTTGGTGAA
Statistics
Matches: 145, Mismatches: 28, Indels: 31
0.71 0.14 0.15
Matches are distributed among these distances:
22 13 0.09
23 85 0.59
24 41 0.28
25 6 0.04
ACGTcount: A:0.30, C:0.15, G:0.17, T:0.38
Consensus pattern (23 bp):
AAATTGGTATATATATGCTGTCC
Found at i:12072085 original size:2 final size:2
Alignment explanation
Indices: 12072078--12072104 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
12072068 AAATAAATAA
12072078 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
12072105 GAATGAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:12073299 original size:25 final size:25
Alignment explanation
Indices: 12073242--12073349 Score: 97
Period size: 25 Copynumber: 4.6 Consensus size: 25
12073232 ACTTTTATCA
* * *
12073242 TCAATTCATCCTTTGCA-TATACTG
1 TCAATTCATCATTTGCATTTTACCG
* *
12073266 CCAATTCATCATTTTCATTTTACCG
1 TCAATTCATCATTTGCATTTTACCG
12073291 TCAATTCATCATTTGCA----A---
1 TCAATTCATCATTTGCATTTTACCG
*
12073309 TCAATTCATCCTTTGCATTTTACCG
1 TCAATTCATCATTTGCATTTTACCG
*
12073334 TTAATTCATCATTTGC
1 TCAATTCATCATTTGC
12073350 CACAAAATAA
Statistics
Matches: 66, Mismatches: 10, Indels: 15
0.73 0.11 0.16
Matches are distributed among these distances:
18 16 0.24
21 1 0.02
22 1 0.02
24 14 0.21
25 34 0.52
ACGTcount: A:0.25, C:0.25, G:0.06, T:0.44
Consensus pattern (25 bp):
TCAATTCATCATTTGCATTTTACCG
Found at i:12073314 original size:18 final size:18
Alignment explanation
Indices: 12073291--12073325 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
12073281 CATTTTACCG
12073291 TCAATTCATCATTTGCAA
1 TCAATTCATCATTTGCAA
*
12073309 TCAATTCATCCTTTGCA
1 TCAATTCATCATTTGCA
12073326 TTTTACCGTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.26, G:0.06, T:0.40
Consensus pattern (18 bp):
TCAATTCATCATTTGCAA
Found at i:12073328 original size:43 final size:43
Alignment explanation
Indices: 12073267--12073349 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
12073257 CATATACTGC
*
12073267 CAATTCATCATTTTCATTTTACCGTCAATTCATCATTTGCAAT
1 CAATTCATCATTTGCATTTTACCGTCAATTCATCATTTGCAAT
* *
12073310 CAATTCATCCTTTGCATTTTACCGTTAATTCATCATTTGC
1 CAATTCATCATTTGCATTTTACCGTCAATTCATCATTTGC
12073350 CACAAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
43 37 1.00
ACGTcount: A:0.25, C:0.24, G:0.06, T:0.45
Consensus pattern (43 bp):
CAATTCATCATTTGCATTTTACCGTCAATTCATCATTTGCAAT
Found at i:12081405 original size:18 final size:18
Alignment explanation
Indices: 12081378--12081423 Score: 53
Period size: 17 Copynumber: 2.7 Consensus size: 18
12081368 TTAAAACTAT
*
12081378 TAAATATATTAATACA-A
1 TAAATTTATTAATACATA
12081395 TAATATTTATT-ATACATA
1 TAA-ATTTATTAATACATA
12081413 TAAATTT-TTAA
1 TAAATTTATTAA
12081424 ATCGATATGA
Statistics
Matches: 25, Mismatches: 1, Indels: 6
0.78 0.03 0.19
Matches are distributed among these distances:
16 2 0.08
17 13 0.52
18 10 0.40
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (18 bp):
TAAATTTATTAATACATA
Found at i:12086881 original size:30 final size:32
Alignment explanation
Indices: 12086842--12086927 Score: 97
Period size: 30 Copynumber: 2.8 Consensus size: 32
12086832 GTCAATATTT
12086842 AATTAATTTTTAAATTTTAAAAA-A-ATATAG
1 AATTAATTTTTAAATTTTAAAAATATATATAG
* * ** *
12086872 AATTTATTTTAAAAAATTAAAAATATTATATAT
1 AATTAATTTTTAAATTTTAAAAATA-TATATAG
12086905 AA-TAATTTTTAAATTTTAAAAAT
1 AATTAATTTTTAAATTTTAAAAAT
12086928 TAATTAAATA
Statistics
Matches: 44, Mismatches: 9, Indels: 4
0.77 0.16 0.07
Matches are distributed among these distances:
30 19 0.43
31 1 0.02
32 17 0.39
33 7 0.16
ACGTcount: A:0.53, C:0.00, G:0.01, T:0.45
Consensus pattern (32 bp):
AATTAATTTTTAAATTTTAAAAATATATATAG
Found at i:12086900 original size:22 final size:22
Alignment explanation
Indices: 12086855--12086900 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 22
12086845 TAATTTTTAA
*
12086855 ATTTTAAAAAAATATAGAATTT
1 ATTTTAAAAAAATATAAAATTT
*
12086877 ATTTTAAAAAATTA-AAAATATT
1 ATTTTAAAAAAATATAAAAT-TT
12086899 AT
1 AT
12086901 ATATAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 4 0.19
22 17 0.81
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (22 bp):
ATTTTAAAAAAATATAAAATTT
Found at i:12087584 original size:117 final size:116
Alignment explanation
Indices: 12087436--12087924 Score: 676
Period size: 117 Copynumber: 4.2 Consensus size: 116
12087426 ATACGAAAAA
12087436 GAAAAAAA-ACAAAAAAAAA---TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAG
1 GAAAAAAATA-AAAAAAAAATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAG
**** *
12087497 TACACG-AATTTTTTTTATTTTTATTTCGTGTCAGAATCAGATAAAAAAATAC
65 TACACGAAAAAAATTTTATTTTTTTTTCGTGTCAGAATCAGAT-AAAAAATAC
*
12087549 -AAAAAAATAAATAAAAAAATTTTTTTTGGGTGCTGGCCTGTCAATGGTCGGCACCCAGTACACA
1 GAAAAAAATAAA-AAAAAAA-TTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACA
** * *
12087613 GTACACGAAAAAAAAATTA-TTTTTTTTCATGTCAGAATCAGATAAAAAATAT
64 GTACACGAAAAAAATTTTATTTTTTTTTCGTGTCAGAATCAGATAAAAAATAC
12087665 GAAAAAAATAAAAAAAAAA---TTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGT
1 GAAAAAAATAAAAAAAAAATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGT
*
12087727 ACATGAAAAAAAATTTTATTTTTTTTTCGTGTCAGAATCAGATAAAAAATAC
66 ACACG-AAAAAAATTTTATTTTTTTTTCGTGTCAGAATCAGATAAAAAATAC
12087779 GAAAAAAAT-AAAAAAAAATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGT
1 GAAAAAAATAAAAAAAAAATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGT
* *
12087843 AGAAAGAAAAAAAATTTTAATTTTTTTTTCGTGTCAGAATCAGATAAAAAAAATAC
66 A-CACG-AAAAAAATTTT-ATTTTTTTTTCGTGTCAGAATCAGAT--AAAAAATAC
* *
12087899 GAAAAAAATTAAAAAAAATTTTTTTT
1 GAAAAAAATAAAAAAAAAATTTTTTT
12087925 TTTTNNNNNN
Statistics
Matches: 339, Mismatches: 19, Indels: 28
0.88 0.05 0.07
Matches are distributed among these distances:
112 55 0.16
113 27 0.08
114 40 0.12
116 59 0.17
117 94 0.28
118 31 0.09
120 18 0.05
121 15 0.04
ACGTcount: A:0.42, C:0.14, G:0.16, T:0.29
Consensus pattern (116 bp):
GAAAAAAATAAAAAAAAAATTTTTTTGGGTGCTGGCCTGTCAATGGCCGGCACCCAGTACACAGT
ACACGAAAAAAATTTTATTTTTTTTTCGTGTCAGAATCAGATAAAAAATAC
Found at i:12092202 original size:18 final size:19
Alignment explanation
Indices: 12092181--12092217 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
12092171 TTTGTCATTG
*
12092181 TATTATTATTAT-ATTATT
1 TATTATCATTATAATTATT
12092199 TATTATCATTATAATTATT
1 TATTATCATTATAATTATT
12092218 ATTTCTATAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (19 bp):
TATTATCATTATAATTATT
Found at i:12092848 original size:43 final size:40
Alignment explanation
Indices: 12092793--12092934 Score: 117
Period size: 43 Copynumber: 3.3 Consensus size: 40
12092783 AGATCAGGGG
12092793 TCTTTAGCGGCGCCTCGACAGCAAACGCCACTAAAGAACCTAA
1 TCTTTAGCGGCGCCTC-ACA-CAAACGCC-CTAAAGAACCTAA
* * *
12092836 TCTTTAGCGGCGCTTTCATTACAAACGCCGCTAAAG-ACCATGA
1 TCTTTAGCGGCGC-CTCA-CACAAACGCC-CTAAAGAACC-TAA
* * *
12092879 TCTTTAGTGGCGCCTTTTC-CACAAACGCCGTAAAAGACCCTAA
1 TCTTTAGCGGCGCC---TCACACAAACGCCCT-AAAGAACCTAA
12092922 TCTTTAGCGGCGC
1 TCTTTAGCGGCGC
12092935 TTTGACCAAA
Statistics
Matches: 80, Mismatches: 11, Indels: 16
0.75 0.10 0.15
Matches are distributed among these distances:
42 4 0.05
43 69 0.86
44 5 0.06
45 2 0.03
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.23
Consensus pattern (40 bp):
TCTTTAGCGGCGCCTCACACAAACGCCCTAAAGAACCTAA
Found at i:12092948 original size:43 final size:42
Alignment explanation
Indices: 12092814--12092957 Score: 146
Period size: 43 Copynumber: 3.4 Consensus size: 42
12092804 GCCTCGACAG
* * **
12092814 CAAACGCCACTAAAGAACCTAATCTTTAGCGGCGCTTTCATTA
1 CAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTT-ACCA
* * * *
12092857 CAAACGCCGCTAAAGACCATGATCTTTAGTGGCGCCTTTTCCA
1 CAAACGCCGCTAAAGACCCTAATCTTTAGCGGCG-CTTTACCA
12092900 CAAACGCCG-TAAAAGACCCTAATCTTTAGCGGCGCTTTGACCA
1 CAAACGCCGCT-AAAGACCCTAATCTTTAGCGGCGCTTT-ACCA
* * *
12092943 AAAACGTCACTAAAG
1 CAAACGCCGCTAAAG
12092958 GCAAAACACC
Statistics
Matches: 82, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
42 5 0.06
43 72 0.88
44 5 0.06
ACGTcount: A:0.32, C:0.28, G:0.17, T:0.23
Consensus pattern (42 bp):
CAAACGCCGCTAAAGACCCTAATCTTTAGCGGCGCTTTACCA
Found at i:12097730 original size:9 final size:9
Alignment explanation
Indices: 12097694--12098074 Score: 198
Period size: 9 Copynumber: 45.6 Consensus size: 9
12097684 AATTGCACGG
12097694 GTAAGTTAT
1 GTAAGTTAT
*
12097703 GT-A-TTGT
1 GTAAGTTAT
*
12097710 GTAAGCTAT
1 GTAAGTTAT
*
12097719 GTAAGTTGT
1 GTAAGTTAT
12097728 GT-A-TTAT
1 GTAAGTTAT
12097735 GTAAGTTAT
1 GTAAGTTAT
12097744 -T-A-TTAT
1 GTAAGTTAT
12097750 GCTTTAAGTTAT
1 G---TAAGTTAT
*
12097762 GTAAGTAAT
1 GTAAGTTAT
12097771 GT-A-TTAT
1 GTAAGTTAT
*
12097778 GTAAGTTGT
1 GTAAGTTAT
*
12097787 GT-A-TAAT
1 GTAAGTTAT
*
12097794 GTTAGTTA-
1 GTAAGTTAT
*
12097802 GCAAAGTTAT
1 G-TAAGTTAT
12097812 GT-A-TTAT
1 GTAAGTTAT
12097819 GTAAGTTAT
1 GTAAGTTAT
*
12097828 TTAAGTTAT
1 GTAAGTTAT
*
12097837 GTAA--CAT
1 GTAAGTTAT
*
12097844 GTAAATTAT
1 GTAAGTTAT
*
12097853 GTAAGTTGT
1 GTAAGTTAT
* *
12097862 GTAGGCTAT
1 GTAAGTTAT
* *
12097871 GTATGTTAA
1 GTAAGTTAT
12097880 GTAAGTTAT
1 GTAAGTTAT
12097889 GT-A-TTAT
1 GTAAGTTAT
*
12097896 GTAAGTTGT
1 GTAAGTTAT
*
12097905 GT-A-TAAT
1 GTAAGTTAT
*
12097912 GTTAGTTAT
1 GTAAGTTAT
**
12097921 CAAAGTTAT
1 GTAAGTTAT
12097930 GT-A-TTAT
1 GTAAGTTAT
12097937 GTAAGTTAT
1 GTAAGTTAT
*
12097946 TTAAGTTAT
1 GTAAGTTAT
12097955 GT-A-TTAT
1 GTAAGTTAT
12097962 GTAAGTTAT
1 GTAAGTTAT
* *
12097971 TTAAGTTAA
1 GTAAGTTAT
*
12097980 GT--GGT-T
1 GTAAGTTAT
*
12097986 GTAAATTAT
1 GTAAGTTAT
* *
12097995 GTAAGATGT
1 GTAAGTTAT
12098004 GT-A-TTAT
1 GTAAGTTAT
12098011 GTAAGTTAT
1 GTAAGTTAT
**
12098020 CAAAGTTAT
1 GTAAGTTAT
12098029 GT-A-TTAT
1 GTAAGTTAT
12098036 GTAAGTTAT
1 GTAAGTTAT
*
12098045 TTAAGTTAT
1 GTAAGTTAT
*
12098054 GTAA--CAT
1 GTAAGTTAT
*
12098061 GTAAATTAT
1 GTAAGTTAT
12098070 GTAAG
1 GTAAG
12098075 ATGTGTATAA
Statistics
Matches: 274, Mismatches: 61, Indels: 74
0.67 0.15 0.18
Matches are distributed among these distances:
6 6 0.02
7 72 0.26
8 25 0.09
9 163 0.59
10 2 0.01
11 1 0.00
12 5 0.02
ACGTcount: A:0.33, C:0.02, G:0.20, T:0.45
Consensus pattern (9 bp):
GTAAGTTAT
Found at i:12097735 original size:16 final size:16
Alignment explanation
Indices: 12097716--12098072 Score: 121
Period size: 16 Copynumber: 21.9 Consensus size: 16
12097706 TTGTGTAAGC
*
12097716 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
12097732 TATGTAAGTTAT-TAT
1 TATGTAAGTTATGTAT
*
12097747 TATGCT---TTAAG--T
1 TATG-TAAGTTATGTAT
*
12097759 TATGTAAGTAATGTAT
1 TATGTAAGTTATGTAT
*
12097775 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * *
12097791 AATGTTAGTTA-GCAAAGT
1 TATGTAAGTTATG--TA-T
12097809 TATGT-A-TTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
12097825 TATTTAAGTTATGTAA
1 TATGTAAGTTATGTAT
* *
12097841 CATGTAAATTATGTAAGT
1 TATGTAAGTTATGT-A-T
* * *
12097859 TGTGTAGGCTATGTATGT
1 TATGTAAGTTATGTA--T
*
12097877 TAAGTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
12097893 TATGTAAGTTGTGTAT
1 TATGTAAGTTATGTAT
* * **
12097909 AATGTTAGTTATCAAAGT
1 TATGTAAGTTAT-GTA-T
12097927 TATGT-A-TTATGTAAGT
1 TATGTAAGTTATGT-A-T
*
12097943 TATTTAAGTTATGTAT
1 TATGTAAGTTATGTAT
*
12097959 TATGTAAGTTATTTAAGT
1 TATGTAAGTTATGT-A-T
* * * **
12097977 TAAGT-GGTTGTAAAT
1 TATGTAAGTTATGTAT
* *
12097992 TATGTAAGATGTGTAT
1 TATGTAAGTTATGTAT
**
12098008 TATGTAAGTTATCAAAGT
1 TATGTAAGTTAT-GTA-T
12098026 TATGT-A-TTATGTAAGT
1 TATGTAAGTTATGT-A-T
* *
12098042 TATTTAAGTTATGTAA
1 TATGTAAGTTATGTAT
* *
12098058 CATGTAAATTATGTA
1 TATGTAAGTTATGTA
12098073 AGATGTGTAT
Statistics
Matches: 250, Mismatches: 61, Indels: 60
0.67 0.16 0.16
Matches are distributed among these distances:
11 1 0.00
12 5 0.02
13 3 0.01
14 3 0.01
15 13 0.05
16 144 0.58
17 20 0.08
18 61 0.24
ACGTcount: A:0.33, C:0.02, G:0.19, T:0.46
Consensus pattern (16 bp):
TATGTAAGTTATGTAT
Found at i:12097833 original size:25 final size:25
Alignment explanation
Indices: 12097774--12097978 Score: 118
Period size: 25 Copynumber: 8.1 Consensus size: 25
12097764 AAGTAATGTA
* * *
12097774 TTATGTAAGTTGTGTATAATGTTAG
1 TTATGTAAGTTATGTATTATGTAAG
*
12097799 TTA-GCAAAGTTATGTATTATGTAAG
1 TTATG-TAAGTTATGTATTATGTAAG
* ** *
12097824 TTATTTAAGTTATGTAACATGTAAA
1 TTATGTAAGTTATGTATTATGTAAG
* * *
12097849 TTATGTAAGTTGTGTAGGCTATGTATG
1 TTATGTAAGTTATGTA--TTATGTAAG
*
12097876 TTAAGTAAGTTATGTATTATGTAAG
1 TTATGTAAGTTATGTATTATGTAAG
* * **
12097901 TTGTGT-A-TAATGTTAGTTATCAAAG
1 TTATGTAAGTTATG-TA-TTATGTAAG
*
12097926 TTATGT-A-TTATGTAAGTTATTTAAG
1 TTATGTAAGTTATGT-A-TTATGTAAG
*
12097951 TTATGT-A-TTATGTAAGTTATTTAAG
1 TTATGTAAGTTATGT-A-TTATGTAAG
12097976 TTA
1 TTA
12097979 AGTGGTTGTA
Statistics
Matches: 145, Mismatches: 28, Indels: 14
0.78 0.15 0.07
Matches are distributed among these distances:
23 4 0.03
24 5 0.03
25 117 0.81
27 19 0.13
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (25 bp):
TTATGTAAGTTATGTATTATGTAAG
Found at i:12097909 original size:118 final size:118
Alignment explanation
Indices: 12097757--12097977 Score: 379
Period size: 118 Copynumber: 1.9 Consensus size: 118
12097747 TATGCTTTAA
*
12097757 GTTATGTAAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTAGCAAAGTTATGTATTATGTA
1 GTTAAGTAAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTAGCAAAGTTATGTATTATGTA
12097822 AGTTATTTAAGTTATGTAACATGTAAATTATGTAAGTTGTGTAGGCTATGTAT
66 AGTTATTTAAGTTATGTAACATGTAAATTATGTAAGTTGTGTAGGCTATGTAT
* *
12097875 GTTAAGTAAGTTATGTATTATGTAAGTTGTGTATAATGTTAGTTATCAAAGTTATGTATTATGTA
1 GTTAAGTAAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTAGCAAAGTTATGTATTATGTA
** * *
12097940 AGTTATTTAAGTTATGTATTATGTAAGTTATTTAAGTT
66 AGTTATTTAAGTTATGTAACATGTAAATTATGTAAGTT
12097978 AAGTGGTTGT
Statistics
Matches: 96, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
118 96 1.00
ACGTcount: A:0.32, C:0.02, G:0.20, T:0.46
Consensus pattern (118 bp):
GTTAAGTAAGTAATGTATTATGTAAGTTGTGTATAATGTTAGTTAGCAAAGTTATGTATTATGTA
AGTTATTTAAGTTATGTAACATGTAAATTATGTAAGTTGTGTAGGCTATGTAT
Done.