Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008659.1 Hibiscus syriacus cultivar Beakdansim tig00111655_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 244888
ACGTcount: A:0.34, C:0.17, G:0.17, T:0.33
File 1 of 2
Found at i:423 original size:20 final size:21
Alignment explanation
Indices: 379--423 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
369 TTTGGTGCAG
* *
379 AGGGAATCGATCCCCCCCATG
1 AGGGAACCGATCCCCCCCATC
*
400 AGGGAACCGATTCCCCCCA-C
1 AGGGAACCGATCCCCCCCATC
420 AGGG
1 AGGG
424 GAATCGCCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
20 4 0.19
21 17 0.81
ACGTcount: A:0.24, C:0.38, G:0.27, T:0.11
Consensus pattern (21 bp):
AGGGAACCGATCCCCCCCATC
Found at i:426 original size:21 final size:21
Alignment explanation
Indices: 378--418 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
368 TTTTGGTGCA
*
378 GAGGGAATCGATCCCCCCCAT
1 GAGGGAACCGATCCCCCCCAT
*
399 GAGGGAACCGATTCCCCCCA
1 GAGGGAACCGATCCCCCCCA
419 CAGGGGAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.24, C:0.39, G:0.24, T:0.12
Consensus pattern (21 bp):
GAGGGAACCGATCCCCCCCAT
Found at i:8249 original size:53 final size:53
Alignment explanation
Indices: 8165--8270 Score: 194
Period size: 53 Copynumber: 2.0 Consensus size: 53
8155 TGAGTTGAAA
8165 ACCAAACCATACAGTCATGCTGTGGTCGAGATGAAATCGAGAAGACAAGTATT
1 ACCAAACCATACAGTCATGCTGTGGTCGAGATGAAATCGAGAAGACAAGTATT
* *
8218 ACCAAACCGTACAGTCATGCTGTGGTTGAGATGAAATCGAGAAGACAAGTATT
1 ACCAAACCATACAGTCATGCTGTGGTCGAGATGAAATCGAGAAGACAAGTATT
8271 TATTTTTGAC
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.37, C:0.18, G:0.24, T:0.22
Consensus pattern (53 bp):
ACCAAACCATACAGTCATGCTGTGGTCGAGATGAAATCGAGAAGACAAGTATT
Found at i:13687 original size:20 final size:20
Alignment explanation
Indices: 13658--13695 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
13648 TTTCAAAGGG
13658 ATGCACCGATGCACCAATCC
1 ATGCACCGATGCACCAATCC
*
13678 ATGCATCGATGCACCAAT
1 ATGCACCGATGCACCAAT
13696 GAATATATTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.32, C:0.34, G:0.16, T:0.18
Consensus pattern (20 bp):
ATGCACCGATGCACCAATCC
Found at i:13778 original size:65 final size:63
Alignment explanation
Indices: 13658--13864 Score: 213
Period size: 65 Copynumber: 3.2 Consensus size: 63
13648 TTTCAAAGGG
* * *
13658 ATGCACCGATGCACCAATCCATGCATCGATGCAC-CAATGAATATATTGAAA-ATCGAATGCAGT
1 ATGCATCGATGCA-CAATCCATGCATCGATGCACTCAA-GATTTTA-TGAAACATCGAATGCA-T
13721 TT
62 TT
* * *
13723 ATGCATCGATGCACTATCCATGCATCGATGCACTCAGGGTTTTATGAAAACATCGAATGCATTT
1 ATGCATCGATGCACAATCCATGCATCGATGCACTCAAGATTTTATG-AAACATCGAATGCATTT
* * * * *
13787 GATGCATCGATGCACAAGCCATGCATCGATGCGCTCAAGCTATTT-TGAAACATCGTATGTACTT
1 -ATGCATCGATGCACAATCCATGCATCGATGCACTCAAGAT-TTTATGAAACATCGAATGCA-TT
*
13851 C
63 T
13852 ATGCATCGATGCA
1 ATGCATCGATGCA
13865 ATCTTAGTGC
Statistics
Matches: 122, Mismatches: 14, Indels: 13
0.82 0.09 0.09
Matches are distributed among these distances:
63 2 0.02
64 54 0.44
65 63 0.52
66 3 0.02
ACGTcount: A:0.31, C:0.23, G:0.19, T:0.27
Consensus pattern (63 bp):
ATGCATCGATGCACAATCCATGCATCGATGCACTCAAGATTTTATGAAACATCGAATGCATTT
Found at i:13881 original size:129 final size:129
Alignment explanation
Indices: 13657--13891 Score: 289
Period size: 129 Copynumber: 1.8 Consensus size: 129
13647 TTTTCAAAGG
* *
13657 GATGCACCGATGCACCAATCCATGCATCGATGCACCAATGAATATATTGAAAATCGAATGCAGTT
1 GATGCACCGATGCACCAAGCCATGCATCGATGCACCAATGAATATATTGAAAATCGAATGCACTT
* * *
13722 TATGCATCGATGCACTATCCATGCATCGATGCACTCAGGGTTTTATGAAAACATCGAATGCATTT
66 CATGCATCGATGCAC-ATCCATGCACCGATGCACTAAGGGTTTTATGAAAACATCGAATGCATTT
* * * * * *
13787 GATGCATCGATGCA-CAAGCCATGCATCGATGCGCTCAA-G-CTATTTTGAAACATCGTATGTAC
1 GATGCACCGATGCACCAAGCCATGCATCGATGCAC-CAATGAATATATTGAAA-ATCGAATGCAC
*
13849 TTCATGCATCGATGCA-ATCTTAGTGCACCGATGCACTAAGGGT
64 TTCATGCATCGATGCACATC-CA-TGCACCGATGCACTAAGGGT
13892 CCAACTGTCG
Statistics
Matches: 89, Mismatches: 12, Indels: 9
0.81 0.11 0.08
Matches are distributed among these distances:
127 3 0.03
128 10 0.11
129 60 0.67
130 16 0.18
ACGTcount: A:0.30, C:0.23, G:0.20, T:0.27
Consensus pattern (129 bp):
GATGCACCGATGCACCAAGCCATGCATCGATGCACCAATGAATATATTGAAAATCGAATGCACTT
CATGCATCGATGCACATCCATGCACCGATGCACTAAGGGTTTTATGAAAACATCGAATGCATTT
Found at i:21325 original size:21 final size:21
Alignment explanation
Indices: 21283--21326 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
21273 ACTCCGGGAG
* *
21283 CTAGTTCTTCACGGGCTGCTC
1 CTAGCTCTTCACGGGCTCCTC
* *
21304 CTAGCTCTTCTCGTGCTCCTC
1 CTAGCTCTTCACGGGCTCCTC
21325 CT
1 CT
21327 CCGACACCGG
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.07, C:0.39, G:0.18, T:0.36
Consensus pattern (21 bp):
CTAGCTCTTCACGGGCTCCTC
Found at i:22081 original size:18 final size:18
Alignment explanation
Indices: 22048--22082 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
22038 AAGGGAAGTA
*
22048 ATTTCAAACTTGATTTTG
1 ATTTCAAAATTGATTTTG
*
22066 ATTTCAAAATTTATTTT
1 ATTTCAAAATTGATTTT
22083 CAAAGAAAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.31, C:0.09, G:0.06, T:0.54
Consensus pattern (18 bp):
ATTTCAAAATTGATTTTG
Found at i:22557 original size:64 final size:65
Alignment explanation
Indices: 22443--22565 Score: 187
Period size: 64 Copynumber: 1.9 Consensus size: 65
22433 AATGCAGTTT
* * *
22443 ATGCATCGATGCACTCAGGGTTTTATGAAAACATCGAATGCATTTGATGCATCGATGCACAAGCC
1 ATGCATCGATGCACTCAGGCTTTTATGAAAACATCGAATGCACTTCATGCATCGATGCACAAGCC
*
22508 ATGCATCGATGCACTCAGGCTATTT-TG-AAACATCGTATGCACTTCATGCATCGATGCA
1 ATGCATCGATGCACTCAGGCT-TTTATGAAAACATCGAATGCACTTCATGCATCGATGCA
22566 TTCTTAGTGC
Statistics
Matches: 53, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
64 28 0.53
65 22 0.42
66 3 0.06
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.28
Consensus pattern (65 bp):
ATGCATCGATGCACTCAGGCTTTTATGAAAACATCGAATGCACTTCATGCATCGATGCACAAGCC
Found at i:26130 original size:25 final size:25
Alignment explanation
Indices: 26077--26132 Score: 69
Period size: 25 Copynumber: 2.2 Consensus size: 25
26067 CCCATATGGT
* *
26077 GCAAATCTACAAGGCACATTTGAGT
1 GCAAATCTACAAGGAACATTTGAGG
*
26102 GCAATTCTACAAGGAAC-TTTCGAGG
1 GCAAATCTACAAGGAACATTT-GAGG
26127 GCAAAT
1 GCAAAT
26133 ATATTTACAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.36, C:0.20, G:0.21, T:0.23
Consensus pattern (25 bp):
GCAAATCTACAAGGAACATTTGAGG
Found at i:33948 original size:60 final size:60
Alignment explanation
Indices: 33786--33962 Score: 184
Period size: 60 Copynumber: 3.0 Consensus size: 60
33776 TTATATATTT
* * * * *
33786 GGATGAAATTGGAATATTCAAAAGTTTAAGGACCAATTT-AGA-AAGATGTTCGTTGTTTAG
1 GGATGAAATTTGAATATTCAAAAGTTTAAGGACTAATTTAAAATAAGA-G-TCATAGTTTAG
* * *
33846 GGATGAAA-TTGAAATATTCAAAATTTTAAAGACTAATTTAAAATAAGAGTCATAGTTTGG
1 GGATGAAATTTG-AATATTCAAAAGTTTAAGGACTAATTTAAAATAAGAGTCATAGTTTAG
* *
33906 GGATTAAATTTGAATATTCAATAA-TTTAAGGACTAATTTAAAATGAAG-GTTATAGTT
1 GGATGAAATTTGAATATTCAA-AAGTTTAAGGACTAATTTAAAAT-AAGAGTCATAGTT
33963 GAGGACGTAT
Statistics
Matches: 100, Mismatches: 11, Indels: 12
0.81 0.09 0.10
Matches are distributed among these distances:
59 2 0.02
60 83 0.83
61 11 0.11
62 4 0.04
ACGTcount: A:0.41, C:0.05, G:0.19, T:0.35
Consensus pattern (60 bp):
GGATGAAATTTGAATATTCAAAAGTTTAAGGACTAATTTAAAATAAGAGTCATAGTTTAG
Found at i:36673 original size:18 final size:19
Alignment explanation
Indices: 36635--36675 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
36625 GGCTAAAATT
*
36635 AAATTGAATTAAAACATAA
1 AAATTGAATGAAAACATAA
*
36654 AAATTGAATGAATA-ATAA
1 AAATTGAATGAAAACATAA
36672 AAAT
1 AAAT
36676 AGTAACTTGA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
18 8 0.40
19 12 0.60
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.27
Consensus pattern (19 bp):
AAATTGAATGAAAACATAA
Found at i:36937 original size:14 final size:14
Alignment explanation
Indices: 36920--36960 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
36910 ATAAACGCAT
36920 AAAAGTAAATAATG
1 AAAAGTAAATAATG
* *
36934 AAAAATAAAATACTG
1 AAAAGT-AAATAATG
36949 AAAAGTAAATAA
1 AAAAGTAAATAA
36961 AAAAAATAAA
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.68, C:0.02, G:0.10, T:0.20
Consensus pattern (14 bp):
AAAAGTAAATAATG
Found at i:46446 original size:36 final size:36
Alignment explanation
Indices: 46307--46438 Score: 153
Period size: 36 Copynumber: 3.8 Consensus size: 36
46297 CAATTTTATT
* * * *
46307 TAAAATTCAAATTTCAGCTTTATCTTTAGTA---AA
1 TAAAATTCAAATTCCAACCTTATCTTTAGCAGCTAA
* *
46340 TAAAATTCAAATTCCAACCTTATCTTCAGCGGCTAA
1 TAAAATTCAAATTCCAACCTTATCTTTAGCAGCTAA
* *
46376 TAAAAATCAAATTACAACCTTATCTTTAGCAGCTAA
1 TAAAATTCAAATTCCAACCTTATCTTTAGCAGCTAA
* *
46412 TCAAATTCAAATTCCAGCCTTATCTTT
1 TAAAATTCAAATTCCAACCTTATCTTT
46439 TATAGCTATC
Statistics
Matches: 82, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
33 25 0.30
36 57 0.70
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (36 bp):
TAAAATTCAAATTCCAACCTTATCTTTAGCAGCTAA
Found at i:57899 original size:54 final size:54
Alignment explanation
Indices: 57817--58263 Score: 569
Period size: 54 Copynumber: 8.3 Consensus size: 54
57807 TTCGTTGAGA
*
57817 TGCACACTTAGTGCCGAAACAGTTGTTCATGAACATATGATGAATTCTGTGAAT
1 TGCACACTTAGTGCCGAAACAGTTGTTCATCAACATATGATGAATTCTGTGAAT
* * *
57871 TGCACACTTAGTGCCCAAACAGTTGTTCATCAACCTATGATGAATTCCGTGAAT
1 TGCACACTTAGTGCCGAAACAGTTGTTCATCAACATATGATGAATTCTGTGAAT
* * * * *
57925 TGTATACTTAGTTCCGAAACGGTTGTTCATCAACATATGATTAATT-TCGTGAAT
1 TGCACACTTAGTGCCGAAACAGTTGTTCATCAACATATGATGAATTCT-GTGAAT
* ** *
57979 TGCACACTTAGTGCCAAAACTA-TTGTTCATCAACATATGACAAATTCCGTGAAT
1 TGCACACTTAGTGCCGAAAC-AGTTGTTCATCAACATATGATGAATTCTGTGAAT
* * * * *
58033 TGCATACTTAGTTCCGAAACGGTTGTTCATCAACATATAATTAATT-TCGTGAAT
1 TGCACACTTAGTGCCGAAACAGTTGTTCATCAACATATGATGAATTCT-GTGAAT
* * **
58087 TGCACACTTAGTGCCAAAACTGTTGTTCATCAACATATGACAAATTCTGTGAAT
1 TGCACACTTAGTGCCGAAACAGTTGTTCATCAACATATGATGAATTCTGTGAAT
* * *
58141 TGCACACTTAGTGCCAAAACGGTTGTTCAACAACATATGATGAATTCTGTGAAT
1 TGCACACTTAGTGCCGAAACAGTTGTTCATCAACATATGATGAATTCTGTGAAT
* * * *
58195 TACACACTTAGGGCCGAAA-AGGTTGTTCTTCAACATATGATGAATTCCGTGAAT
1 TGCACACTTAGTGCCGAAACA-GTTGTTCATCAACATATGATGAATTCTGTGAAT
58249 TGCACACTTAGTGCC
1 TGCACACTTAGTGCC
58264 TATTTGGTAA
Statistics
Matches: 338, Mismatches: 48, Indels: 14
0.85 0.12 0.04
Matches are distributed among these distances:
54 337 1.00
55 1 0.00
ACGTcount: A:0.32, C:0.19, G:0.17, T:0.32
Consensus pattern (54 bp):
TGCACACTTAGTGCCGAAACAGTTGTTCATCAACATATGATGAATTCTGTGAAT
Found at i:68882 original size:21 final size:23
Alignment explanation
Indices: 68834--68884 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
68824 ATTCCCCTGT
68834 GGGGGGAATCGGTTCCCCTTCAA
1 GGGGGGAATCGGTTCCCCTTCAA
*
68857 AGGGGGAATCGGTT-CCC-TCAA
1 GGGGGGAATCGGTTCCCCTTCAA
68878 GGGGGGA
1 GGGGGGA
68885 TTGATTCCCT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 10 0.38
22 3 0.12
23 13 0.50
ACGTcount: A:0.20, C:0.22, G:0.41, T:0.18
Consensus pattern (23 bp):
GGGGGGAATCGGTTCCCCTTCAA
Found at i:77699 original size:45 final size:45
Alignment explanation
Indices: 77577--77713 Score: 195
Period size: 45 Copynumber: 3.1 Consensus size: 45
77567 TCTTATCAAT
* * *
77577 ATATATTTACTATTTATCCCATAAGCTCATAAGCTTATTTTACCA
1 ATATAATTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCA
* *
77622 ATATAATTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTTCCA
1 ATATAATTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCA
* * *
77666 ATATACTTATCATTTATTCCATAAGCTCTTAAGCTTATTTTACCA
1 ATATAATTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCA
77711 ATA
1 ATA
77714 AACCCAGAAA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
44 39 0.48
45 43 0.52
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (45 bp):
ATATAATTACCATTTATTCCATAAGCTCATAAGCTTATTTTACCA
Found at i:77861 original size:40 final size:40
Alignment explanation
Indices: 77806--77927 Score: 226
Period size: 40 Copynumber: 3.0 Consensus size: 40
77796 ACCATAGTGC
77806 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
77846 TACACATAAGGTCGTGCCTACCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
*
77886 TACACATAAGGTCGTGCCCATCATATACACCGAAGTGTAT
1 TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
77926 TA
1 TA
77928 TAAACATACA
Statistics
Matches: 79, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 79 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (40 bp):
TACACATAAGGTCGTGCCCACCATATACACCGAAGTGTAT
Found at i:87276 original size:23 final size:24
Alignment explanation
Indices: 87214--87278 Score: 75
Period size: 23 Copynumber: 2.8 Consensus size: 24
87204 TAATTAAATA
87214 ATTTAT-ATATTTTATAAAAGTTAT
1 ATTTATAATATTTTA-AAAAGTTAT
*
87238 A-TTA-AATCATTCTAAAAA-TTAT
1 ATTTATAAT-ATTTTAAAAAGTTAT
87260 ATTTATAATATTTTAAAAA
1 ATTTATAATATTTTAAAAA
87279 CATTTAAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
22 5 0.14
23 21 0.60
24 9 0.26
ACGTcount: A:0.48, C:0.03, G:0.02, T:0.48
Consensus pattern (24 bp):
ATTTATAATATTTTAAAAAGTTAT
Found at i:88405 original size:22 final size:22
Alignment explanation
Indices: 88380--88448 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
88370 GCTCGGATTT
88380 ATTCTAAAAGGATGTCCTTTTA
1 ATTCTAAAAGGATGTCCTTTTA
* ** **
88402 ATTCGAAATA--AACTCGGATTT-
1 ATTCTAAA-AGGATGTC-CTTTTA
88423 ATTCTAAAAGGATGTCCTTTTA
1 ATTCTAAAAGGATGTCCTTTTA
88445 ATTC
1 ATTC
88449 GAAATAATCA
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
20 1 0.03
21 13 0.41
22 17 0.53
23 1 0.03
ACGTcount: A:0.33, C:0.14, G:0.13, T:0.39
Consensus pattern (22 bp):
ATTCTAAAAGGATGTCCTTTTA
Found at i:88432 original size:43 final size:43
Alignment explanation
Indices: 88371--88455 Score: 170
Period size: 43 Copynumber: 2.0 Consensus size: 43
88361 GATCGGTTAG
88371 CTCGGATTTATTCTAAAAGGATGTCCTTTTAATTCGAAATAAA
1 CTCGGATTTATTCTAAAAGGATGTCCTTTTAATTCGAAATAAA
88414 CTCGGATTTATTCTAAAAGGATGTCCTTTTAATTCGAAATAA
1 CTCGGATTTATTCTAAAAGGATGTCCTTTTAATTCGAAATAA
88456 TCAACGAAGG
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.34, C:0.14, G:0.14, T:0.38
Consensus pattern (43 bp):
CTCGGATTTATTCTAAAAGGATGTCCTTTTAATTCGAAATAAA
Found at i:88444 original size:21 final size:21
Alignment explanation
Indices: 88377--88444 Score: 50
Period size: 21 Copynumber: 3.2 Consensus size: 21
88367 TTAGCTCGGA
88377 TTTATTCTAAAAGGATGTCCT
1 TTTATTCTAAAAGGATGTCCT
* ** **
88398 TTTAATTCGAAATA--AACTCGGA
1 TTT-ATTCTAAA-AGGATGTC-CT
88420 TTTATTCTAAAAGGATGTCCT
1 TTTATTCTAAAAGGATGTCCT
88441 TTTA
1 TTTA
88445 ATTCGAAATA
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
20 1 0.03
21 17 0.53
22 13 0.41
23 1 0.03
ACGTcount: A:0.32, C:0.13, G:0.13, T:0.41
Consensus pattern (21 bp):
TTTATTCTAAAAGGATGTCCT
Found at i:89740 original size:32 final size:32
Alignment explanation
Indices: 89695--89808 Score: 165
Period size: 32 Copynumber: 3.6 Consensus size: 32
89685 AGTGAATAGA
* * *
89695 GAACAATGTACCGATGCACTACAACAGTACAT
1 GAACAGTGTACCGATGCACTACTACAGTACGT
* * *
89727 GAACAGTGCACCGATGCACTGCTACAGTATGT
1 GAACAGTGTACCGATGCACTACTACAGTACGT
*
89759 AAACAGTGTACCGATGCACTACTACAGTACGT
1 GAACAGTGTACCGATGCACTACTACAGTACGT
89791 GAACAGTGTACCGATGCA
1 GAACAGTGTACCGATGCA
89809 TAAAAAAATT
Statistics
Matches: 71, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
32 71 1.00
ACGTcount: A:0.34, C:0.25, G:0.21, T:0.20
Consensus pattern (32 bp):
GAACAGTGTACCGATGCACTACTACAGTACGT
Found at i:90317 original size:45 final size:45
Alignment explanation
Indices: 90247--90440 Score: 286
Period size: 44 Copynumber: 4.4 Consensus size: 45
90237 CATTTCTTAT
* * *
90247 CAATAAACTTACCATTTA-TCACATAAGTTCATAAGCTTATTTTAC
1 CAATATACTTACCATTTATTC-CATAAGCTCGTAAGCTTATTTTAC
**
90292 CAGCATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
90337 CAATATACTTACCA-TTATTCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
**
90381 CAATATACTTGTCA-TTATTCCATAAGCTCGTAAGCTTATTTTAC
1 CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
*
90425 CAATATACTTGCCATT
1 CAATATACTTACCATT
90441 AACCTCATTT
Statistics
Matches: 137, Mismatches: 10, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
44 85 0.62
45 50 0.36
46 2 0.01
ACGTcount: A:0.32, C:0.22, G:0.07, T:0.39
Consensus pattern (45 bp):
CAATATACTTACCATTTATTCCATAAGCTCGTAAGCTTATTTTAC
Found at i:90376 original size:21 final size:21
Alignment explanation
Indices: 90351--90420 Score: 56
Period size: 21 Copynumber: 3.2 Consensus size: 21
90341 ATACTTACCA
90351 TTATTCCATAAGCTCGTAAGC
1 TTATTCCATAAGCTCGTAAGC
* *
90372 TTATTTTACCAATATA-CTTGTCA--
1 TTA--TT-CC-ATA-AGCTCGTAAGC
90395 TTATTCCATAAGCTCGTAAGC
1 TTATTCCATAAGCTCGTAAGC
90416 TTATT
1 TTATT
90421 TTACCAATAT
Statistics
Matches: 37, Mismatches: 4, Indels: 16
0.65 0.07 0.28
Matches are distributed among these distances:
18 1 0.03
19 8 0.22
20 2 0.05
21 10 0.27
23 5 0.14
24 2 0.05
25 8 0.22
26 1 0.03
ACGTcount: A:0.29, C:0.20, G:0.10, T:0.41
Consensus pattern (21 bp):
TTATTCCATAAGCTCGTAAGC
Found at i:90640 original size:59 final size:59
Alignment explanation
Indices: 90574--90685 Score: 152
Period size: 59 Copynumber: 1.9 Consensus size: 59
90564 CTTCCCCTTT
* * * *
90574 CATTTTAGCACACGAAGTACCCTATTTAAAAATTCATACCGTTAGTATGATTTTGTTAC
1 CATTTTAGCACACGAAATACCCTATGTAAAAATCCATACCATTAGTATGATTTTGTTAC
* * * *
90633 CATTTTAGCACATGAAATGCCCTATGTGAAAATCCATACCATTATTATGATTT
1 CATTTTAGCACACGAAATACCCTATGTAAAAATCCATACCATTAGTATGATTT
90686 CCTTATCTTT
Statistics
Matches: 45, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
59 45 1.00
ACGTcount: A:0.33, C:0.19, G:0.12, T:0.37
Consensus pattern (59 bp):
CATTTTAGCACACGAAATACCCTATGTAAAAATCCATACCATTAGTATGATTTTGTTAC
Found at i:90777 original size:59 final size:59
Alignment explanation
Indices: 90545--91054 Score: 415
Period size: 58 Copynumber: 8.7 Consensus size: 59
90535 TCTATCTGGA
* * ** * * *
90545 AAAT-CATACACTTAGTATGCTTCCCCTT-TCATTTTAGCACACGAAGTACCCTATTTAA
1 AAATCCATACACTTAGTATGATT-TCCTTATCATTTTAGCACACTCAGTGCCCTATATAG
* ** * * * *
90603 AAATTCATAC-CGTTAGTATGATTTTGTTACCATTTTAGCACA-TGAAATGCCCTATGT-G
1 AAATCCATACAC-TTAGTATGATTTCCTTATCATTTTAGCACACT-CAGTGCCCTATATAG
* * * * ** *
90661 AAAATCCATAC-CATTATTATGATTTCCTTATC-TTTGTAGAACCCTTAGTGCTTTATCTAG
1 -AAATCCATACAC-TTAGTATGATTTCCTTATCATTT-TAGCACACTCAGTGCCCTATATAG
* * * * * *
90721 AAATCCATACACTTAGTATGATTCCCTTACCATTTTAGCACA-TAAAATGCCCTATCTGG
1 AAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACACT-CAGTGCCCTATATAG
** * *
90780 AAATCCATA-TTTTCAATATGATTTCCTTATCA-TTTAGCACACTCAGTGCTCC-ATATGG
1 AAATCCATACACTT-AGTATGATTTCCTTATCATTTTAGCACACTCAGTGC-CCTATATAG
* *
90838 AAATCTATACACTCAGTATGATTTCCTTATCA-TTTAGCACACTCAGTGCTCC-ATATAG
1 AAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTCAGTGC-CCTATATAG
* * * *
90896 AAATCTATACACTCAGTATGATTTCCTTATCA-TTTAGCACACTCAGTGTGCC-ATATGG
1 AAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTCAGTG-CCCTATATAG
* * *
90954 AAATCTATATACTCAGTATGATTTCCTTATCA-TTTAGCACACTCAGTGCTCC-ATATAG
1 AAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTCAGTGC-CCTATATAG
* *
91012 AAATCTATACACTCAGTATGATTTCCTTATCATTTTAGCACAC
1 AAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACAC
91055 AAAGTGTCAT
Statistics
Matches: 381, Mismatches: 53, Indels: 35
0.81 0.11 0.07
Matches are distributed among these distances:
58 221 0.58
59 154 0.40
60 6 0.02
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.36
Consensus pattern (59 bp):
AAATCCATACACTTAGTATGATTTCCTTATCATTTTAGCACACTCAGTGCCCTATATAG
Found at i:90858 original size:58 final size:58
Alignment explanation
Indices: 90678--91054 Score: 472
Period size: 58 Copynumber: 6.4 Consensus size: 58
90668 ATACCATTAT
* * * * ** * * *
90678 TATGATTTCCTTATCTTTGTAGAACCCTTAGTGCTTTATCTAGAAATCCATACACTTAG
1 TATGATTTCCTTATCATT-TAGCACACTCAGTGCTCCATATAGAAATCTATACACTCAG
* * * * * * * *** *
90737 TATGATTCCCTTACCATTTTAGCACA-TAAAATGC-CCTATCTGGAAATCCATATTTTCAA
1 TATGATTTCCTTATCA-TTTAGCACACT-CAGTGCTCC-ATATAGAAATCTATACACTCAG
*
90796 TATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATGGAAATCTATACACTCAG
1 TATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATAGAAATCTATACACTCAG
90854 TATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATAGAAATCTATACACTCAG
1 TATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATAGAAATCTATACACTCAG
* *
90912 TATGATTTCCTTATCATTTAGCACACTCAGTG-TGCCATATGGAAATCTATATACTCAG
1 TATGATTTCCTTATCATTTAGCACACTCAGTGCT-CCATATAGAAATCTATACACTCAG
90970 TATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATAGAAATCTATACACTCAG
1 TATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATAGAAATCTATACACTCAG
91028 TATGATTTCCTTATCATTTTAGCACAC
1 TATGATTTCCTTATCA-TTTAGCACAC
91055 AAAGTGTCAT
Statistics
Matches: 280, Mismatches: 30, Indels: 16
0.86 0.09 0.05
Matches are distributed among these distances:
57 1 0.00
58 211 0.75
59 66 0.24
60 2 0.01
ACGTcount: A:0.30, C:0.23, G:0.11, T:0.37
Consensus pattern (58 bp):
TATGATTTCCTTATCATTTAGCACACTCAGTGCTCCATATAGAAATCTATACACTCAG
Found at i:90882 original size:30 final size:30
Alignment explanation
Indices: 90846--91000 Score: 87
Period size: 30 Copynumber: 5.3 Consensus size: 30
90836 GGAAATCTAT
90846 ACACTCAGTATGATTTCCTTATCATTTAGC
1 ACACTCAGTATGATTTCCTTATCATTTAGC
* ** * *
90876 ACACTCAG--TG--CTCCATATAGAAATCTA-T
1 ACACTCAGTATGATTTCC-T-TA-TCATTTAGC
90904 ACACTCAGTATGATTTCCTTATCATTTAGC
1 ACACTCAGTATGATTTCCTTATCATTTAGC
* * * * *
90934 ACACTCAG--TG--TGCCATATGGAAATCTA-T
1 ACACTCAGTATGATTTCCTTAT---CATTTAGC
*
90962 ATACTCAGTATGATTTCCTTATCATTTAGC
1 ACACTCAGTATGATTTCCTTATCATTTAGC
90992 ACACTCAGT
1 ACACTCAGT
91001 GCTCCATATA
Statistics
Matches: 87, Mismatches: 22, Indels: 32
0.62 0.16 0.23
Matches are distributed among these distances:
26 9 0.10
27 1 0.01
28 21 0.24
29 16 0.18
30 30 0.34
31 1 0.01
32 9 0.10
ACGTcount: A:0.30, C:0.23, G:0.12, T:0.35
Consensus pattern (30 bp):
ACACTCAGTATGATTTCCTTATCATTTAGC
Found at i:92857 original size:65 final size:65
Alignment explanation
Indices: 92753--92909 Score: 217
Period size: 65 Copynumber: 2.4 Consensus size: 65
92743 CACACCCATT
* * *
92753 TCGAATGCATTTTGTGTATCGATGCACAAGCCATGCATCGATGTACTCTTGAATATTTTGAAACA
1 TCGAATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCCTGAATATTTTGAAACA
** *
92818 TCGAATGCATTTTGTGTACCGATGCAC-AGACCATGCATCGATGCACTCCTGGCTCTTTTGAAAC
1 TCGAATGCATTTTGTGTACCGATGCACAAG-CCATGCATCGATGCACTCCTGAATATTTTGAAAC
92882 A
65 A
* * *
92883 TCGAATGTAATTAGTGTACCGATGCAC
1 TCGAATGCATTTTGTGTACCGATGCAC
92910 CCCTAGTGTA
Statistics
Matches: 82, Mismatches: 9, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
64 2 0.02
65 80 0.98
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (65 bp):
TCGAATGCATTTTGTGTACCGATGCACAAGCCATGCATCGATGCACTCCTGAATATTTTGAAACA
Found at i:98777 original size:23 final size:22
Alignment explanation
Indices: 98696--98774 Score: 79
Period size: 23 Copynumber: 3.5 Consensus size: 22
98686 CACTAAACAA
*
98696 TGCATCGATTCATCCCTTGAATG
1 TGCATCGATGCAT-CCTTGAATG
* * * *
98719 TGCATCGATACAT-CATAAAGG
1 TGCATCGATGCATCCTTGAATG
*
98740 TGCACCGATGCACTCCTTGAATG
1 TGCATCGATGCA-TCCTTGAATG
98763 TGCATCGATGCA
1 TGCATCGATGCA
98775 CTCTAATGTG
Statistics
Matches: 44, Mismatches: 10, Indels: 4
0.76 0.17 0.07
Matches are distributed among these distances:
21 15 0.34
22 1 0.02
23 28 0.64
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCATCCTTGAATG
Found at i:99699 original size:179 final size:181
Alignment explanation
Indices: 99399--99758 Score: 706
Period size: 179 Copynumber: 2.0 Consensus size: 181
99389 TGTTTTATAT
99399 TTGCAGGTTATTTATCTCATTCTGATTCTTGAACCATGTCTAATCCTAAACGTCCTAGGACATCA
1 TTGCAGGTTATTTATCTCATTCTGATTCTTGAACCATGTCTAATCCTAAACGTCCTAGGACATCA
99464 TCAAGTCCTTCGAGTCAAAACCGACCTCCCATTCCTCCTCCACCACAAAATCCAAATCCAAATGA
66 TCAAGTCCTTCGAGTCAAAACCGACCTCCCATTCCTCCTCCACCACAAAATCCAAATCCAAATGA
99529 CCCAAA-AT-ACTATTTTTAACTCTTGTTTCAATGTACCTGGTCGTAGACA
131 CCCAAATATGACTATTTTTAACTCTTGTTTCAATGTACCTGGTCGTAGACA
99578 TTGCAGGTTATTTATCTCATTCTGATTCTTGAACCATGTCTAATCCTAAACGTCCTAGGACATCA
1 TTGCAGGTTATTTATCTCATTCTGATTCTTGAACCATGTCTAATCCTAAACGTCCTAGGACATCA
99643 TCAAGTCCTTCGAGTCAAAACCGACCTCCCATTCCTCCTCCACCACAAAATCCAAATCCAAATGA
66 TCAAGTCCTTCGAGTCAAAACCGACCTCCCATTCCTCCTCCACCACAAAATCCAAATCCAAATGA
99708 CCCAAATATGACTATTTTTAACTCTTGTTTCAATGTACCTGGTCGTAGACA
131 CCCAAATATGACTATTTTTAACTCTTGTTTCAATGTACCTGGTCGTAGACA
99759 AGATCTCTAC
Statistics
Matches: 179, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
179 136 0.76
180 2 0.01
181 41 0.23
ACGTcount: A:0.29, C:0.28, G:0.11, T:0.31
Consensus pattern (181 bp):
TTGCAGGTTATTTATCTCATTCTGATTCTTGAACCATGTCTAATCCTAAACGTCCTAGGACATCA
TCAAGTCCTTCGAGTCAAAACCGACCTCCCATTCCTCCTCCACCACAAAATCCAAATCCAAATGA
CCCAAATATGACTATTTTTAACTCTTGTTTCAATGTACCTGGTCGTAGACA
Found at i:101640 original size:65 final size:66
Alignment explanation
Indices: 101570--101714 Score: 231
Period size: 65 Copynumber: 2.2 Consensus size: 66
101560 GAATGTGTTT
* * * *
101570 TGTGTACTGATGCACAAGCCATGCATCGATGCACTCTTGAATATTTTGAAACATCGAATG-CATT
1 TGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGAATATTTTGAAACATCGAATGTAATT
101634 A
66 A
*
101635 TGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGACTATTTTGAAACATCGAATGTAATT
1 TGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGAATATTTTGAAACATCGAATGTAATT
101700 A
66 A
101701 -GTGTACCGATGCAC
1 TGTGTACCGATGCAC
101715 CCCTATTGTA
Statistics
Matches: 74, Mismatches: 5, Indels: 2
0.91 0.06 0.02
Matches are distributed among these distances:
65 70 0.95
66 4 0.05
ACGTcount: A:0.30, C:0.22, G:0.19, T:0.29
Consensus pattern (66 bp):
TGTGTACCGATGCACAAACCATGCATCGATGCACTCCTGAATATTTTGAAACATCGAATGTAATT
A
Found at i:102387 original size:23 final size:23
Alignment explanation
Indices: 102360--102410 Score: 102
Period size: 23 Copynumber: 2.2 Consensus size: 23
102350 TACAAAAGCT
102360 TTCACTAAATATTTTATTGCCAA
1 TTCACTAAATATTTTATTGCCAA
102383 TTCACTAAATATTTTATTGCCAA
1 TTCACTAAATATTTTATTGCCAA
102406 TTCAC
1 TTCAC
102411 CCCCCTCTTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.33, C:0.20, G:0.04, T:0.43
Consensus pattern (23 bp):
TTCACTAAATATTTTATTGCCAA
Found at i:103130 original size:36 final size:36
Alignment explanation
Indices: 103059--103131 Score: 96
Period size: 36 Copynumber: 2.0 Consensus size: 36
103049 ACTATAAGAT
* *
103059 ATTTATATATTTTCTTTAAAAATTTAAATTCATAAA
1 ATTTATATATTTTCTTTAAAAATTGAAAATCATAAA
103095 ATTTATATAATTTT-TTTACAAAATTGAAAAT-ATAAA
1 ATTTATAT-ATTTTCTTTA-AAAATTGAAAATCATAAA
103131 A
1 A
103132 AGGTTTAATG
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
36 18 0.55
37 15 0.45
ACGTcount: A:0.48, C:0.04, G:0.01, T:0.47
Consensus pattern (36 bp):
ATTTATATATTTTCTTTAAAAATTGAAAATCATAAA
Found at i:108009 original size:24 final size:24
Alignment explanation
Indices: 107977--108022 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
107967 TCTTCCAAAT
107977 GATGTATAAAACATCTATGTACAC
1 GATGTATAAAACATCTATGTACAC
108001 GATGTATAAAACATCTATGTAC
1 GATGTATAAAACATCTATGTAC
108023 CATATCATGC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.41, C:0.15, G:0.13, T:0.30
Consensus pattern (24 bp):
GATGTATAAAACATCTATGTACAC
Found at i:113883 original size:14 final size:13
Alignment explanation
Indices: 113864--113923 Score: 52
Period size: 14 Copynumber: 4.5 Consensus size: 13
113854 ATGATTTTGA
113864 TTAAAAAAATGTAT
1 TTAAAAAAAT-TAT
113878 TTAAAAAAATTA-
1 TTAAAAAAATTAT
** *
113890 TTATCAATATTAT
1 TTAAAAAAATTAT
113903 TTAAGAAAATATTA-
1 TTAA-AAAA-ATTAT
113917 TTAAAAA
1 TTAAAAA
113924 TGGTATCTTT
Statistics
Matches: 37, Mismatches: 6, Indels: 7
0.74 0.12 0.14
Matches are distributed among these distances:
12 9 0.24
13 8 0.22
14 16 0.43
15 4 0.11
ACGTcount: A:0.57, C:0.02, G:0.03, T:0.38
Consensus pattern (13 bp):
TTAAAAAAATTAT
Found at i:118770 original size:18 final size:19
Alignment explanation
Indices: 118739--118775 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
118729 CAGAAATGAA
118739 AAATATTTAATTAAAAAAT
1 AAATATTTAATTAAAAAAT
*
118758 AAAT-TTTAGTTAAAAAAT
1 AAATATTTAATTAAAAAAT
118776 TTAATTAAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.59, C:0.00, G:0.03, T:0.38
Consensus pattern (19 bp):
AAATATTTAATTAAAAAAT
Found at i:118955 original size:31 final size:32
Alignment explanation
Indices: 118920--118983 Score: 76
Period size: 32 Copynumber: 2.0 Consensus size: 32
118910 TTTAGTGTAG
118920 TATA-TAAAATTTAAAATTTGGAATTAAAAAA
1 TATATTAAAATTTAAAATTTGGAATTAAAAAA
** * * *
118951 TATATTAATTTTTGAAATTTGTATTTAAAAAA
1 TATATTAAAATTTAAAATTTGGAATTAAAAAA
118983 T
1 T
118984 GTTATTTTTT
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
31 4 0.15
32 23 0.85
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (32 bp):
TATATTAAAATTTAAAATTTGGAATTAAAAAA
Found at i:119000 original size:31 final size:33
Alignment explanation
Indices: 118932--119001 Score: 83
Period size: 31 Copynumber: 2.2 Consensus size: 33
118922 TATAAAATTT
118932 AAAATTTGGAATTAAAAAATATATTAATTTTTG
1 AAAATTTGGAATTAAAAAATATATTAATTTTTG
* * * *
118965 -AAATTT-GTATTTAAAAA-ATGTTATTTTTTG
1 AAAATTTGGAATTAAAAAATATATTAATTTTTG
118995 AAAATTT
1 AAAATTT
119002 TAAAAAGAGA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
30 11 0.34
31 15 0.47
32 6 0.19
ACGTcount: A:0.44, C:0.00, G:0.09, T:0.47
Consensus pattern (33 bp):
AAAATTTGGAATTAAAAAATATATTAATTTTTG
Found at i:119225 original size:21 final size:19
Alignment explanation
Indices: 119199--119483 Score: 228
Period size: 21 Copynumber: 13.7 Consensus size: 19
119189 CATATTCACA
119199 TTGCGATAGTCCAAGTTTGCG
1 TTGCGATAGTCCAAG-TT-CG
*
119220 TTGCGATAGTCGAAGTTCGCG
1 TTGCGATAGTCCAAGTT--CG
** * *
119241 TTGCGATTTTCTAAATTCG
1 TTGCGATAGTCCAAGTTCG
*
119260 TTGCGATAGTCCAATTTTGCG
1 TTGCGATAGTCCAA-GTT-CG
* *
119281 TTGCGATTTATTCCAAATTCG
1 TTGCGA--TAGTCCAAGTTCG
119302 TTGCGATAGTCCAAGTTCGCG
1 TTGCGATAGTCCAAGTT--CG
* * *
119323 TTGCGATTTATTACAAATTCG
1 TTGCGA--TAGTCCAAGTTCG
119344 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAG--TCCAAGTTCG
*
119365 TTGCGATAGTCTCCAAATTCG
1 TTGCGATAG--TCCAAGTTCG
119386 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAG--TCCAAGTTCG
119407 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAG--TCCAAGTTCG
119428 TTGCGATAGTCTCCAAGTTCG
1 TTGCGATAG--TCCAAGTTCG
* *
119449 TTGCGATAGTCTCCAAATTCA
1 TTGCGATAG--TCCAAGTTCG
119470 TTGCGATAGTCCAA
1 TTGCGATAGTCCAA
119484 AATCGCAACG
Statistics
Matches: 230, Mismatches: 23, Indels: 24
0.83 0.08 0.09
Matches are distributed among these distances:
19 29 0.13
20 4 0.02
21 180 0.78
22 2 0.01
23 15 0.07
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (19 bp):
TTGCGATAGTCCAAGTTCG
Found at i:119247 original size:42 final size:39
Alignment explanation
Indices: 119199--119483 Score: 254
Period size: 42 Copynumber: 6.9 Consensus size: 39
119189 CATATTCACA
* *
119199 TTGCGATAGTCCAAGTTTGCGTTGCGATAG-TCGAAGTTCGCG
1 TTGCGATAGTCCAA-ATT-CGTTGCGATAGCTCCAAGTT--CG
** * *
119241 TTGCGATTTTCTAAATTCGTTGCGATAG-TCCAATTTTGCG
1 TTGCGATAGTCCAAATTCGTTGCGATAGCTCCAA-GTT-CG
*
119281 TTGCGATTTATTCCAAATTCGTTGCGATAG-TCCAAGTTCGCG
1 TTGCGA--TAGTCCAAATTCGTTGCGATAGCTCCAAGTT--CG
* *
119323 TTGCGATTTATTACAAATTCGTTGCGATAGTCTCCAAGTTCG
1 TTGCGA--TAGTCCAAATTCGTTGCGATAG-CTCCAAGTTCG
119365 TTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAGTTCG
1 TTGCGATAG--TCCAAATTCGTTGCGATAG-CTCCAAGTTCG
*
119407 TTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAGTTCG
1 TTGCGATAG--TCCAAATTCGTTGCGATAG-CTCCAAGTTCG
*
119449 TTGCGATAGTCTCCAAATTCATTGCGATAG-TCCAA
1 TTGCGATAG--TCCAAATTCGTTGCGATAGCTCCAA
119484 AATCGCAACG
Statistics
Matches: 220, Mismatches: 15, Indels: 18
0.87 0.06 0.07
Matches are distributed among these distances:
40 31 0.14
41 6 0.03
42 175 0.80
44 8 0.04
ACGTcount: A:0.22, C:0.21, G:0.22, T:0.35
Consensus pattern (39 bp):
TTGCGATAGTCCAAATTCGTTGCGATAGCTCCAAGTTCG
Found at i:119388 original size:63 final size:63
Alignment explanation
Indices: 119292--119480 Score: 269
Period size: 63 Copynumber: 3.0 Consensus size: 63
119282 TGCGATTTAT
* *
119292 TCCAAATTCGTTGCGATAG--TCCAAGTTCGCGTTGCGATTTA-T-TACAAATTCGTTGCGATAG
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTT--CGTTGCGA--TAGTCTCCAAATTCGTTGCGATAG
119353 TC
62 TC
* *
119355 TCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTC
*
119418 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCATTGCGATAGTC
1 TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTC
119481 CAAAATCGCA
Statistics
Matches: 115, Mismatches: 7, Indels: 8
0.88 0.05 0.06
Matches are distributed among these distances:
61 2 0.02
62 1 0.01
63 105 0.91
65 7 0.06
ACGTcount: A:0.22, C:0.23, G:0.21, T:0.34
Consensus pattern (63 bp):
TCCAAGTTCGTTGCGATAGTCTCCAAGTTCGTTGCGATAGTCTCCAAATTCGTTGCGATAGTC
Found at i:119584 original size:6 final size:6
Alignment explanation
Indices: 119573--119622 Score: 93
Period size: 6 Copynumber: 8.5 Consensus size: 6
119563 GACACGTATT
119573 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACC-CG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
119620 ACC
1 ACC
119623 CGAGACCGAC
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
5 5 0.11
6 39 0.89
ACGTcount: A:0.32, C:0.52, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:120668 original size:21 final size:21
Alignment explanation
Indices: 120643--120741 Score: 153
Period size: 21 Copynumber: 4.7 Consensus size: 21
120633 TGCGATTTTG
*
120643 GACTATCTCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
120664 GACTATCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
* *
120685 GACTACCGCAACGAATTTGGA
1 GACTATCGCAACGAACTTGGA
120706 GACTATCGCAACGAACTTGGA
1 GACTATCGCAACGAACTTGGA
*
120727 GACTATCGTAACGAA
1 GACTATCGCAACGAA
120742 TTTGTAATAA
Statistics
Matches: 72, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 72 1.00
ACGTcount: A:0.34, C:0.22, G:0.22, T:0.21
Consensus pattern (21 bp):
GACTATCGCAACGAACTTGGA
Found at i:120772 original size:41 final size:43
Alignment explanation
Indices: 120685--120820 Score: 117
Period size: 42 Copynumber: 3.3 Consensus size: 43
120675 CGAATTTGGA
*
120685 GACTACCGCAACGAATTTGGAGACT--ATCGCAA--C-GAACTTGG
1 GACTATCGCAACGAATTTGGA-A-TAAATCGCAACGCAGAACTT-G
* * *
120726 AGACTATCGTAACGAATTTGTAAT-AATCGTAACG-AGAACTTG
1 -GACTATCGCAACGAATTTGGAATAAATCGCAACGCAGAACTTG
* *
120768 GACTATTGCAGCGAATTTGGAATAAATCGCAACGCA-AACTTG
1 GACTATCGCAACGAATTTGGAATAAATCGCAACGCAGAACTTG
*
120810 GACTATAGCAA
1 GACTATCGCAA
120821 TGCGAATATG
Statistics
Matches: 77, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
40 1 0.01
41 26 0.34
42 43 0.56
43 7 0.09
ACGTcount: A:0.36, C:0.19, G:0.21, T:0.24
Consensus pattern (43 bp):
GACTATCGCAACGAATTTGGAATAAATCGCAACGCAGAACTTG
Found at i:121711 original size:11 final size:11
Alignment explanation
Indices: 121695--121726 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
121685 TTGATAAAAT
121695 CATTAGTTTAC
1 CATTAGTTTAC
121706 CATTAGTTTAC
1 CATTAGTTTAC
121717 CATTA-TTTAC
1 CATTAGTTTAC
121727 TAATAGTTTG
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 5 0.24
11 16 0.76
ACGTcount: A:0.28, C:0.19, G:0.06, T:0.47
Consensus pattern (11 bp):
CATTAGTTTAC
Found at i:121726 original size:21 final size:22
Alignment explanation
Indices: 121695--121735 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
121685 TTGATAAAAT
*
121695 CATTAGTTTACCATTAGTTTAC
1 CATTAGTTTACCAATAGTTTAC
*
121717 CATTA-TTTACTAATAGTTT
1 CATTAGTTTACCAATAGTTT
121736 GCAATTATAT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.29, C:0.15, G:0.07, T:0.49
Consensus pattern (22 bp):
CATTAGTTTACCAATAGTTTAC
Found at i:122492 original size:13 final size:13
Alignment explanation
Indices: 122474--122498 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
122464 TGAGTCTCTT
122474 TCAACAATGTGTC
1 TCAACAATGTGTC
122487 TCAACAATGTGT
1 TCAACAATGTGT
122499 TGATACATTC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TCAACAATGTGTC
Found at i:126006 original size:18 final size:18
Alignment explanation
Indices: 125983--126040 Score: 73
Period size: 18 Copynumber: 3.2 Consensus size: 18
125973 ATTATATTTC
125983 AAAGTAAAAGCAAAAAGA
1 AAAGTAAAAGCAAAAAGA
*
126001 AAAGTAAAAGCATAAAGAAA
1 AAAGTAAAAGCA-AAA-AGA
*
126021 AAAGCAAAAG-AAAAAGA
1 AAAGTAAAAGCAAAAAGA
126038 AAA
1 AAA
126041 AAAAACACAA
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
17 5 0.14
18 15 0.43
19 4 0.11
20 11 0.31
ACGTcount: A:0.74, C:0.05, G:0.16, T:0.05
Consensus pattern (18 bp):
AAAGTAAAAGCAAAAAGA
Found at i:126025 original size:14 final size:13
Alignment explanation
Indices: 125983--126035 Score: 56
Period size: 13 Copynumber: 4.2 Consensus size: 13
125973 ATTATATTTC
* *
125983 AAAGTAAAAGCAA
1 AAAGCAAAAGAAA
*
125996 AAAG-AAAAG-TA
1 AAAGCAAAAGAAA
126007 AAAGCATAAAGAAA
1 AAAGCA-AAAGAAA
126021 AAAGCAAAAGAAA
1 AAAGCAAAAGAAA
126034 AA
1 AA
126036 GAAAAAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
11 5 0.14
12 6 0.17
13 17 0.49
14 7 0.20
ACGTcount: A:0.74, C:0.06, G:0.15, T:0.06
Consensus pattern (13 bp):
AAAGCAAAAGAAA
Found at i:130862 original size:23 final size:23
Alignment explanation
Indices: 130818--130877 Score: 68
Period size: 23 Copynumber: 2.5 Consensus size: 23
130808 AGGAGAGGGT
*
130818 AAAAGCAAAGAAAGATAGCAAAGAAA
1 AAAAG-AAA-AAA-ATAACAAAGAAA
130844 AAAAGAAAAAAATAACAAAGAAA
1 AAAAGAAAAAAATAACAAAGAAA
*
130867 AACA-AAAAAAA
1 AAAAGAAAAAAA
130878 GGACAAGAAG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
22 7 0.22
23 14 0.44
24 3 0.09
25 3 0.09
26 5 0.16
ACGTcount: A:0.78, C:0.07, G:0.12, T:0.03
Consensus pattern (23 bp):
AAAAGAAAAAAATAACAAAGAAA
Found at i:130886 original size:21 final size:23
Alignment explanation
Indices: 130818--130883 Score: 62
Period size: 22 Copynumber: 2.8 Consensus size: 23
130808 AGGAGAGGGT
*
130818 AAAAGCAAAGAAAGATAGCAAAGAAA
1 AAAAG-AAAAAAAGA-A-CAAAGAAA
*
130844 AAAAGAAAAAAATAACAAAGAAA
1 AAAAGAAAAAAAGAACAAAGAAA
* *
130867 AACA-AAAAAAAGGACAA
1 AAAAGAAAAAAAGAACAA
130884 GAAGCACATG
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
22 11 0.31
23 11 0.31
24 1 0.03
25 7 0.20
26 5 0.14
ACGTcount: A:0.76, C:0.08, G:0.14, T:0.03
Consensus pattern (23 bp):
AAAAGAAAAAAAGAACAAAGAAA
Found at i:131872 original size:37 final size:35
Alignment explanation
Indices: 131822--131923 Score: 120
Period size: 33 Copynumber: 2.9 Consensus size: 35
131812 ACAAAGGGTC
*
131822 GTCTCGCTTGAGATGAGTTTTCTTAAAAACAAATTTT
1 GTCTCGCTCGAGATGAGTTTTCTT-AAAACAAA-TTT
*
131859 TTCTCGCTCGAGAT-AGTTTTCTTAAAA-AAATTT
1 GTCTCGCTCGAGATGAGTTTTCTTAAAACAAATTT
* *
131892 GTCTCGCTGGAGA-GAATTTTCCTTAAAACAAA
1 GTCTCGCTCGAGATGAGTTTT-CTTAAAACAAA
131924 ATTAATCTCA
Statistics
Matches: 57, Mismatches: 5, Indels: 8
0.81 0.07 0.11
Matches are distributed among these distances:
33 19 0.33
34 10 0.18
35 7 0.12
36 9 0.16
37 12 0.21
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.37
Consensus pattern (35 bp):
GTCTCGCTCGAGATGAGTTTTCTTAAAACAAATTT
Found at i:131884 original size:36 final size:35
Alignment explanation
Indices: 131823--131955 Score: 126
Period size: 36 Copynumber: 3.7 Consensus size: 35
131813 CAAAGGGTCG
*
131823 TCTCGCTTGAGATGAGTTTTCTTAAAAACAAATTTTT
1 TCTCGCTTGAGAT-AGTTTTCTT-AAAACAAATTTTA
* *
131860 TCTCGCTCGAGATAGTTTTCTTAAAA-AAA-TTTG
1 TCTCGCTTGAGATAGTTTTCTTAAAACAAATTTTA
* * * * *
131893 TCTCGCTGGAGAGAATTTTCCTTAAAACAAAATTAA
1 TCTCGCTTGAGATAGTTTT-CTTAAAACAAATTTTA
* *
131929 TCTCACTTGAGATTGTTTTCTCTAAAA
1 TCTCGCTTGAGATAGTTTTCT-TAAAA
131956 AAACAAATTT
Statistics
Matches: 80, Mismatches: 12, Indels: 9
0.79 0.12 0.09
Matches are distributed among these distances:
33 19 0.24
34 10 0.12
35 9 0.11
36 30 0.38
37 12 0.15
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (35 bp):
TCTCGCTTGAGATAGTTTTCTTAAAACAAATTTTA
Found at i:131947 original size:69 final size:71
Alignment explanation
Indices: 131822--131958 Score: 172
Period size: 69 Copynumber: 2.0 Consensus size: 71
131812 ACAAAGGGTC
* * * ** *
131822 GTCTCGCTTGAGATGAGTTTTCTTAAAAACAAATTTTTTCTCGCTCGAGATAGTTTTCT-TAAAA
1 GTCTCGCTGGAGATGAATTTTCTTAAAAACAAAATTAATCTCACTCGAGATAGTTTTCTCTAAAA
131886 AAATTT
66 AAATTT
* *
131892 GTCTCGCTGGAGA-GAATTTTCCTT-AAAACAAAATTAATCTCACTTGAGATTGTTTTCTCTAAA
1 GTCTCGCTGGAGATGAATTTT-CTTAAAAACAAAATTAATCTCACTCGAGATAGTTTTCTCTAAA
131955 AAAA
65 AAAA
131959 CAAATTTTGT
Statistics
Matches: 57, Mismatches: 8, Indels: 4
0.83 0.12 0.06
Matches are distributed among these distances:
69 34 0.60
70 23 0.40
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (71 bp):
GTCTCGCTGGAGATGAATTTTCTTAAAAACAAAATTAATCTCACTCGAGATAGTTTTCTCTAAAA
AAATTT
Found at i:132259 original size:76 final size:75
Alignment explanation
Indices: 132081--132426 Score: 274
Period size: 76 Copynumber: 4.6 Consensus size: 75
132071 ATAAGCTTTG
* * * * ** * * * *
132081 AGATTGTTTCTCTTGAAACATGTTTTATCTCGTTTGAGATAGTTTCATTCGAAAC-AGAAGATTT
1 AGATTGTTTTTCTTAAAACAT-ATTTGTCTCCCTTGAGACAGTTTTACTCGAAACAAG-ACATTT
* **
132145 T-ATCTCACTTG
64 TCATTTCACTCA
* * * * * *
132156 AGATTGTGTTTCTTAAAACAGACTTTGTCTCGCATGAGACAGTTTTACTCGAAAGAACACATTTT
1 AGATTGTTTTTCTTAAAACATA-TTTGTCTCCCTTGAGACAGTTTTACTCGAAACAAGACATTTT
*
132221 CTTTTCACTCA
65 CATTTCACTCA
*
132232 AGATTGTTTTTCTTAAAACATATTTTGTCTCCCTTGAGACAGTTTTTACTCAAAACAAGACA-TT
1 AGATTGTTTTTCTTAAAACATA-TTTGTCTCCCTTGAGACAG-TTTTACTCGAAACAAGACATTT
*
132296 TCATTTCA-TAA
64 TCATTTCACTCA
* * * * * *
132307 CAGATTGGTTTTCTTAAAACTAGATTTGTCTCTCTTGATACACTTTTTAC-CTGAAACAAGAAAT
1 -AGATTGTTTTTCTTAAAAC-ATATTTGTCTCCCTTGAGACA-GTTTTACTC-GAAACAAGACAT
* *
132371 TTT-ATCTCACTCG
62 TTTCATTTCACTCA
* *
132384 AGATGGTTTTTCTTAAAACA-AATTGTCTCCCTTGAGACAGTTT
1 AGATTGTTTTTCTTAAAACATATTTGTCTCCCTTGAGACAGTTT
132427 CCCTTGAAAC
Statistics
Matches: 217, Mismatches: 44, Indels: 22
0.77 0.16 0.08
Matches are distributed among these distances:
73 3 0.01
74 16 0.07
75 52 0.24
76 124 0.57
77 22 0.10
ACGTcount: A:0.29, C:0.18, G:0.13, T:0.40
Consensus pattern (75 bp):
AGATTGTTTTTCTTAAAACATATTTGTCTCCCTTGAGACAGTTTTACTCGAAACAAGACATTTTC
ATTTCACTCA
Found at i:132431 original size:15 final size:15
Alignment explanation
Indices: 132411--132452 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
132401 ACAAATTGTC
*
132411 TCCCTTGAGACAGTT
1 TCCCTTGAAACAGTT
132426 TCCCTTGAAACAGTT
1 TCCCTTGAAACAGTT
132441 TCCCTTGAAACA
1 TCCCTTGAAACA
132453 CTAATCTTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.26, C:0.29, G:0.14, T:0.31
Consensus pattern (15 bp):
TCCCTTGAAACAGTT
Found at i:132472 original size:30 final size:30
Alignment explanation
Indices: 132438--132546 Score: 101
Period size: 30 Copynumber: 3.4 Consensus size: 30
132428 CCTTGAAACA
*
132438 GTTTCCCTTGAAACACTAATCTTTGAGATC
1 GTTTCCATTGAAACACTAATCTTTGAGATC
* * ** *
132468 GTTTCTATTGAAACGAGTTTTGTCTCTCTTGAGATA
1 GTTTCCATTGAAAC-A---CT-AATCT-TTGAGATC
*
132504 GTTTCCCTTGAAACACTAATCTTTGAGATC
1 GTTTCCATTGAAACACTAATCTTTGAGATC
132534 GTTTCCATTGAAA
1 GTTTCCATTGAAA
132547 TGAGTTTTGT
Statistics
Matches: 60, Mismatches: 13, Indels: 12
0.71 0.15 0.14
Matches are distributed among these distances:
30 31 0.52
31 4 0.07
32 1 0.02
34 1 0.02
35 4 0.07
36 19 0.32
ACGTcount: A:0.26, C:0.19, G:0.16, T:0.39
Consensus pattern (30 bp):
GTTTCCATTGAAACACTAATCTTTGAGATC
Found at i:132508 original size:36 final size:36
Alignment explanation
Indices: 132460--132809 Score: 342
Period size: 36 Copynumber: 9.8 Consensus size: 36
132450 ACACTAATCT
* ** * *
132460 TTGAGATCGTTTCTATTGAAACGAGTTTTGTCTCTC
1 TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTC
* **
132496 TTGAGATAGTTTCCCTTGAAAC--A--CT-AATCT-
1 TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTC
* * ** *
132526 TTGAGATCGTTTCCATTGAAATGAGTTTTGTCTCTC
1 TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTC
*
132562 TTGAG-TCAGTTTCCCTTGAAACAAATTTTGTCTTTC
1 TTGAGAT-AGTTTCCCTTGAAACAAATTTTGTCTCTC
*
132598 TTGAGATAGTTTCTCTAT-AAACAAATTTTGTCTCTC
1 TTGAGATAGTTTCCCT-TGAAACAAATTTTGTCTCTC
132634 TTGAGA-ATGTTTCCCTTGAAACAAATTTTGTCTCTC
1 TTGAGATA-GTTTCCCTTGAAACAAATTTTGTCTCTC
* *
132670 TTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCC
1 TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTC
* * * *
132706 TTGAGACAGTTTCCCTTTAAACAAGTTTTGTATC-C
1 TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTC
* * * * *
132741 TTTCAGACAATTTCCCTTGAAATAAGTTTTGTCTCTC
1 -TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTC
132778 TTGAGATAGTTTCCCTTGAAACATAAATTTTG
1 TTGAGATAGTTTCCCTTGAAAC--AAATTTTG
132810 AAAATGTTTC
Statistics
Matches: 261, Mismatches: 37, Indels: 30
0.80 0.11 0.09
Matches are distributed among these distances:
30 19 0.07
31 3 0.01
32 1 0.00
34 1 0.00
35 7 0.03
36 219 0.84
37 4 0.02
38 7 0.03
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.42
Consensus pattern (36 bp):
TTGAGATAGTTTCCCTTGAAACAAATTTTGTCTCTC
Found at i:132535 original size:66 final size:66
Alignment explanation
Indices: 132436--132584 Score: 264
Period size: 66 Copynumber: 2.3 Consensus size: 66
132426 TCCCTTGAAA
*
132436 CAGTTTCCCTTGAAACACTAATCTTTGAGATCGTTTCTATTGAAACGAGTTTTGTCTCTCTTGAG
1 CAGTTTCCCTTGAAACACTAATCTTTGAGATCGTTTCCATTGAAACGAGTTTTGTCTCTCTTGAG
132501 AT
66 -T
*
132503 -AGTTTCCCTTGAAACACTAATCTTTGAGATCGTTTCCATTGAAATGAGTTTTGTCTCTCTTGAG
1 CAGTTTCCCTTGAAACACTAATCTTTGAGATCGTTTCCATTGAAACGAGTTTTGTCTCTCTTGAG
132567 T
66 T
132568 CAGTTTCCCTTGAAACA
1 CAGTTTCCCTTGAAACA
132585 AATTTTGTCT
Statistics
Matches: 79, Mismatches: 2, Indels: 3
0.94 0.02 0.04
Matches are distributed among these distances:
65 1 0.01
66 78 0.99
ACGTcount: A:0.24, C:0.20, G:0.16, T:0.40
Consensus pattern (66 bp):
CAGTTTCCCTTGAAACACTAATCTTTGAGATCGTTTCCATTGAAACGAGTTTTGTCTCTCTTGAG
T
Found at i:132707 original size:21 final size:21
Alignment explanation
Indices: 132645--132709 Score: 61
Period size: 21 Copynumber: 3.4 Consensus size: 21
132635 TGAGAATGTT
132645 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
* * *
132666 TCTCTTGAGAC--A----GTT
1 TCCCTTGAAACAAATTTTGTC
132681 TCCCTTGAAACAAATTTTGTC
1 TCCCTTGAAACAAATTTTGTC
132702 TCCCTTGA
1 TCCCTTGA
132710 GACAGTTTCC
Statistics
Matches: 32, Mismatches: 6, Indels: 12
0.64 0.12 0.24
Matches are distributed among these distances:
15 11 0.34
17 1 0.03
19 1 0.03
21 19 0.59
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (21 bp):
TCCCTTGAAACAAATTTTGTC
Found at i:132919 original size:36 final size:36
Alignment explanation
Indices: 132872--133065 Score: 147
Period size: 36 Copynumber: 5.3 Consensus size: 36
132862 ACAAAATGAA
*
132872 TCTCACTTGAGATGGTTTCTCTTAAAACCAACTTCG
1 TCTCACTTGAGATGGTTTTTCTTAAAACCAACTTCG
* ** * * * **
132908 TCTCGCTTGAGACAGTTTTTCCTTGAAACAAAATTTA
1 TCTCACTTGAGATGGTTTTT-CTTAAAACCAACTTCG
*
132945 TCT-AATTCGAGATGGTTTTTCTTAAAACCAACTTCG
1 TCTCACTT-GAGATGGTTTTTCTTAAAACCAACTTCG
* ** * ** * **
132981 TCTCGCTTGAGACAGTTTTCTCTTGAAATAAAATTTA
1 TCTCACTTGAGATGGTTTT-TCTTAAAACCAACTTCG
* * *
133018 TCTAATTTGAGATGGTTTTTGTTAAAACCAACTTCG
1 TCTCACTTGAGATGGTTTTTCTTAAAACCAACTTCG
*
133054 TCTCGCTTGAGA
1 TCTCACTTGAGA
133066 CAGTTTTCCC
Statistics
Matches: 111, Mismatches: 43, Indels: 8
0.69 0.27 0.05
Matches are distributed among these distances:
36 60 0.54
37 51 0.46
ACGTcount: A:0.27, C:0.19, G:0.15, T:0.39
Consensus pattern (36 bp):
TCTCACTTGAGATGGTTTTTCTTAAAACCAACTTCG
Found at i:132957 original size:73 final size:72
Alignment explanation
Indices: 132852--133095 Score: 355
Period size: 73 Copynumber: 3.3 Consensus size: 72
132842 CTTGAGATAG
* ** * *
132852 TTTCTTTGAAACAAAATGAATCTCACTTGAGATGGTTTCTCTTAAAACCAACTTCGTCTCGCTTG
1 TTTCCTTGAAACAAAATTTATCT-AATTGAGATGGTTTTTCTTAAAACCAACTTCGTCTCGCTTG
132917 AGACAGTT
65 AGACAGTT
132925 TTTCCTTGAAACAAAATTTATCTAATTCGAGATGGTTTTTCTTAAAACCAACTTCGTCTCGCTTG
1 TTTCCTTGAAACAAAATTTATCTAATT-GAGATGGTTTTTCTTAAAACCAACTTCGTCTCGCTTG
132990 AGACAG-T
65 AGACAGTT
* *
132997 TTTCTCTTGAAATAAAATTTATCTAATTTGAGATGGTTTTTGTTAAAACCAACTTCGTCTCGCTT
1 TTTC-CTTGAAACAAAATTTATCTAA-TTGAGATGGTTTTTCTTAAAACCAACTTCGTCTCGCTT
133062 GAGACAGTT
64 GAGACAGTT
*
133071 TTCCCTTGAAACAAGAAATTTATCT
1 TTTCCTTGAAAC-A-AAATTTATCT
133096 CACTCAAGAG
Statistics
Matches: 156, Mismatches: 9, Indels: 10
0.89 0.05 0.06
Matches are distributed among these distances:
72 8 0.05
73 131 0.84
74 7 0.04
75 10 0.06
ACGTcount: A:0.30, C:0.18, G:0.14, T:0.38
Consensus pattern (72 bp):
TTTCCTTGAAACAAAATTTATCTAATTGAGATGGTTTTTCTTAAAACCAACTTCGTCTCGCTTGA
GACAGTT
Found at i:133029 original size:37 final size:36
Alignment explanation
Indices: 132914--133029 Score: 106
Period size: 37 Copynumber: 3.2 Consensus size: 36
132904 TTCGTCTCGC
132914 TTGAGACAGTTTTTCCTTGAAACAAAATTTATCTAAT
1 TTGAGACAGTTTTT-CTTGAAACAAAATTTATCTAAT
* ** * * * ** ***
132951 TCGAGATGGTTTTTCTTAAAACCAACTTCGTCTCGC
1 TTGAGACAGTTTTTCTTGAAACAAAATTTATCTAAT
*
132987 TTGAGACAGTTTTCTCTTGAAATAAAATTTATCTAAT
1 TTGAGACAGTTTT-TCTTGAAACAAAATTTATCTAAT
133024 TTGAGA
1 TTGAGA
133030 TGGTTTTTGT
Statistics
Matches: 55, Mismatches: 23, Indels: 2
0.69 0.29 0.03
Matches are distributed among these distances:
36 24 0.44
37 31 0.56
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.40
Consensus pattern (36 bp):
TTGAGACAGTTTTTCTTGAAACAAAATTTATCTAAT
Found at i:133536 original size:91 final size:90
Alignment explanation
Indices: 133382--133930 Score: 783
Period size: 91 Copynumber: 6.0 Consensus size: 90
133372 GATAAATCGA
* ** * *
133382 TCAAAATTTCCAGAAGAGAGTTCATAATGAGAAGAACTCATCCAACAAGGGAAAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
133447 ATGAGAAGAACTTGTTCAACCTTGC
66 ATGAGAAGAACTTGTTCAACCTTGC
133472 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCAT
1 -TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCAT
133537 AATGAGAAGAACTTGTTCAACCTTGGC
65 AATGAGAAGAACTTGTTCAACCTT-GC
* * * *
133564 TCAACAATTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCAAACGAGGAAGAAGAAGTTCACA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
* *
133629 ATGAGGAGAACTTGTTCAACCCTGGC
66 ATGAGAAGAACTTGTTCAA-CCTTGC
* * * * * *
133655 TCAACATTTCGATTGGAGAGTTCATAATGAGAATAACTCATCCAATGGGGGAAAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
133720 ATGAGAAGAACTTGTTCAACCTTAGC
66 ATGAGAAGAACTTGTTCAACCTT-GC
* * *
133746 TCAACAATTCAAGTGTAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
1 TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
* * *
133811 ATGACAAGAACATGTTCAACCTTTC
66 ATGAGAAGAACTTGTTCAACCTTGC
** *
133836 ATCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGACAGAGGGAGAAAAAGTTCA
1 -TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAAC-GAGGGAGAAGAAGTTCA
* *
133901 TAATAAGAAGAACTTGTTTAACCTTAGC
64 TAATGAGAAGAACTTGTTCAACCTT-GC
133929 TC
1 TC
133931 GATACATCAC
Statistics
Matches: 407, Mismatches: 45, Indels: 11
0.88 0.10 0.02
Matches are distributed among these distances:
90 4 0.01
91 358 0.88
92 44 0.11
93 1 0.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (90 bp):
TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCATA
ATGAGAAGAACTTGTTCAACCTTGC
Found at i:134652 original size:383 final size:384
Alignment explanation
Indices: 133927--134657 Score: 1045
Period size: 383 Copynumber: 1.9 Consensus size: 384
133917 TTTAACCTTA
133927 GCTCGATACATCACATATGGAGTTGAATCAGCAACACCTCACTCAAGAGATCAACATTTCCAGTA
1 GCTCGATACATCACATATGGAGTTGAATCAGCAACACCTCACTCAAGAGATCAACATTTCCAGTA
* * *
133992 GAGAGTTCCTAATGAGAAGAACTTATCTGATGAATGAGAAAAAGTTCATAAGGAGAAGAACTTGT
66 GAGAGTTCCTAATGAGAAGAACTTATCTAATGAAGGAGAAAAAGTTCAT---------AACTTGA
* * *
134057 TCAACTTTTTGCTTGATTTTATCATAGAAGGAGGTAGATCAGCACCAACAACTTGTTCGATTCCA
122 TCAACTTTTTGCTCGATTCTATCATAGAAGGAGGTAGATCAGCACCAACAACTCGTTCGATTCCA
* *
134122 TCACAGAAGGAGGTGGATCGACATTTTCATCCAGCACATAAGGAGTTGGATCAACATTAATTTTT
187 TCACAGAAGGAGGTGGATCGACATTTTCATCCAGCACATAAGGAGTTGGATCAACATCAACTTTT
* * * *
134187 TGCTCGATTCTATCACAAAATGAGGTAGATCAACACTAACATCTCATTCGATTCCATCACAGAAT
252 TGCTCAATTCTATCACAAAAGGAGGTAGATCAACACCAACATCTCATTCGATTCCATCACAGAAA
*
134252 GAGGTGGAACGACATTTTTATTTCACTCAAATCCATCACAGAAGGGGTTGGAACAACTCCAACAT
317 GAGGTGGAACAACATTTTTATTTCACTCAAATCCATCACAGAAGGGGTTGGAACAACTCCAACAT
134317 CTT
382 CTT
* * * *
134320 GCTCGATTA-ATCACATATGGTGTTGAATCAGTAACACCTCACTCGATG-GGTCAACATTTCCAG
1 GCTCGA-TACATCACATATGGAGTTGAATCAGCAACACCTCACTC-AAGAGATCAACATTTCCAG
* *
134383 TGGAGAGTTCCTAATGAGAAGAACTTATCTAATGAAGGAGAAGAAGTTCAT-ACTTGATCAACTT
64 TAGAGAGTTCCTAATGAGAAGAACTTATCTAATGAAGGAGAAAAAGTTCATAACTTGATCAACTT
* * *
134447 TTTGCTCGATTCTATCATAGAAGGAGGTAGATCAGTACCAACATCTCGTTCGATTCCATCACATA
129 TTTGCTCGATTCTATCATAGAAGGAGGTAGATCAGCACCAACAACTCGTTCGATTCCATCACAGA
* * * * *
134512 AGGATGTGGATCGATATTTTTATCCAGCGCATATGGAGTTGGATCAACATCAACTTTTTGCTCAA
194 AGGAGGTGGATCGACATTTTCATCCAGCACATAAGGAGTTGGATCAACATCAACTTTTTGCTCAA
* * * * *
134577 TTCTATCATAGAAGGAGGTAGATCAGCACCGACATCTCGTTCGATTCCATCACAGAAAGAGGTGG
259 TTCTATCACAAAAGGAGGTAGATCAACACCAACATCTCATTCGATTCCATCACAGAAAGAGGTGG
*
134642 ATCAACATTTTTATTT
324 AACAACATTTTTATTT
134658 GGCCCATCCA
Statistics
Matches: 303, Mismatches: 33, Indels: 14
0.87 0.09 0.04
Matches are distributed among these distances:
383 199 0.66
393 100 0.33
394 4 0.01
ACGTcount: A:0.33, C:0.20, G:0.19, T:0.29
Consensus pattern (384 bp):
GCTCGATACATCACATATGGAGTTGAATCAGCAACACCTCACTCAAGAGATCAACATTTCCAGTA
GAGAGTTCCTAATGAGAAGAACTTATCTAATGAAGGAGAAAAAGTTCATAACTTGATCAACTTTT
TGCTCGATTCTATCATAGAAGGAGGTAGATCAGCACCAACAACTCGTTCGATTCCATCACAGAAG
GAGGTGGATCGACATTTTCATCCAGCACATAAGGAGTTGGATCAACATCAACTTTTTGCTCAATT
CTATCACAAAAGGAGGTAGATCAACACCAACATCTCATTCGATTCCATCACAGAAAGAGGTGGAA
CAACATTTTTATTTCACTCAAATCCATCACAGAAGGGGTTGGAACAACTCCAACATCTT
Found at i:135083 original size:18 final size:18
Alignment explanation
Indices: 135060--135116 Score: 71
Period size: 19 Copynumber: 3.2 Consensus size: 18
135050 ATTATATTTC
135060 AAAGTAAAAGAAAAAAGA
1 AAAGTAAAAGAAAAAAGA
**
135078 AAAGTAAAAGCAAAAATCA
1 AAAGTAAAAG-AAAAAAGA
*
135097 AAAGAAAAAG-AAAAAGA
1 AAAGTAAAAGAAAAAAGA
135114 AAA
1 AAA
135117 AAAACAATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
17 8 0.24
18 10 0.30
19 15 0.45
ACGTcount: A:0.77, C:0.04, G:0.14, T:0.05
Consensus pattern (18 bp):
AAAGTAAAAGAAAAAAGA
Found at i:135093 original size:7 final size:6
Alignment explanation
Indices: 135060--135117 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
135050 ATTATATTTC
* * **
135060 AAAGTA AAAGAA AAA-AGA AAAGTA AAAGCAA AAATCA AAAGAA AAAGAA
1 AAAGAA AAAGAA AAAGA-A AAAGAA AAAG-AA AAAGAA AAAGAA AAAGAA
135109 AAAGAA AAA
1 AAAGAA AAA
135118 AAACAATGAT
Statistics
Matches: 42, Mismatches: 7, Indels: 6
0.76 0.13 0.11
Matches are distributed among these distances:
5 1 0.02
6 37 0.88
7 4 0.10
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.05
Consensus pattern (6 bp):
AAAGAA
Found at i:135099 original size:25 final size:25
Alignment explanation
Indices: 135072--135118 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
135062 AGTAAAAGAA
* *
135072 AAAAG-AAAAGTAAAAGCAAAAATC
1 AAAAGAAAAAGAAAAAGAAAAAATC
135096 AAAAGAAAAAGAAAAAGAAAAAA
1 AAAAGAAAAAGAAAAAGAAAAAA
135119 AACAATGATT
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
24 5 0.25
25 15 0.75
ACGTcount: A:0.79, C:0.04, G:0.13, T:0.04
Consensus pattern (25 bp):
AAAAGAAAAAGAAAAAGAAAAAATC
Found at i:135117 original size:18 final size:17
Alignment explanation
Indices: 135060--135117 Score: 62
Period size: 18 Copynumber: 3.2 Consensus size: 17
135050 ATTATATTTC
135060 AAAGTAAAAGAAAAAAGA
1 AAAGTAAAAGAAAAAA-A
*
135078 AAAGTAAAAGCAAAAATCA
1 AAAGTAAAAG-AAAAA-AA
*
135097 AAAGAAAAAGAAAAAGAA
1 AAAGTAAAAGAAAAA-AA
135115 AAA
1 AAA
135118 AAACAATGAT
Statistics
Matches: 34, Mismatches: 4, Indels: 4
0.81 0.10 0.10
Matches are distributed among these distances:
18 19 0.56
19 15 0.44
ACGTcount: A:0.78, C:0.03, G:0.14, T:0.05
Consensus pattern (17 bp):
AAAGTAAAAGAAAAAAA
Found at i:136366 original size:21 final size:21
Alignment explanation
Indices: 136327--136376 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
136317 CTGTTTTGTT
*
136327 TTATTTT-AACTTAGTTACTA
1 TTATTTTAAACTTAGCTACTA
* *
136347 TTATTTTAAATTTAGCTACTG
1 TTATTTTAAACTTAGCTACTA
136368 TTATTTTAA
1 TTATTTTAA
136377 TTATTGCATT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
20 7 0.27
21 19 0.73
ACGTcount: A:0.30, C:0.08, G:0.06, T:0.56
Consensus pattern (21 bp):
TTATTTTAAACTTAGCTACTA
Found at i:139848 original size:14 final size:13
Alignment explanation
Indices: 139825--139866 Score: 59
Period size: 13 Copynumber: 3.2 Consensus size: 13
139815 GAGAGCAAAG
139825 AAAA-AAAGAAAA
1 AAAACAAAGAAAA
139837 AATAACAAAGAAAA
1 AA-AACAAAGAAAA
*
139851 AAAATAAAGAAAA
1 AAAACAAAGAAAA
139864 AAA
1 AAA
139867 GAGGACAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 2 0.07
13 15 0.56
14 10 0.37
ACGTcount: A:0.86, C:0.02, G:0.07, T:0.05
Consensus pattern (13 bp):
AAAACAAAGAAAA
Found at i:141196 original size:37 final size:36
Alignment explanation
Indices: 141080--141215 Score: 118
Period size: 36 Copynumber: 3.8 Consensus size: 36
141070 TGTCTTGCTC
141080 GAGACAGTTTTCT-T-AAAAAAAATTCGTCTCGA-TG
1 GAGACAGTTTTCTCTAAAAAAAAATTCGTCTC-ACTG
* * ** *
141114 GAGACAATTTTC-CTTAAAACAAAATTAATCTCACTT
1 GAGACAGTTTTCTC-TAAAAAAAAATTCGTCTCACTG
* *
141150 GAGATAGTTTTCTCTAAAAAAAAATTTCGTCTCACCG
1 GAGACAGTTTTCTCTAAAAAAAAA-TTCGTCTCACTG
* *
141187 GAGACAGTTTTTCTTTAAAATACAAATTC
1 GAGACAG-TTTTCTCTAAAA-AAAAATTC
141216 TAAAATTGTT
Statistics
Matches: 79, Mismatches: 15, Indels: 12
0.75 0.14 0.11
Matches are distributed among these distances:
34 11 0.14
35 2 0.03
36 33 0.42
37 15 0.19
38 14 0.18
39 4 0.05
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.34
Consensus pattern (36 bp):
GAGACAGTTTTCTCTAAAAAAAAATTCGTCTCACTG
Found at i:141291 original size:36 final size:37
Alignment explanation
Indices: 141251--141859 Score: 161
Period size: 36 Copynumber: 16.6 Consensus size: 37
141241 TTGATAAACT
* *
141251 TTGAGATTGTTTCTCTTGAAACATG-TTTTATCTCGC
1 TTGAGATTGTTTCTCTTGAAACAAGATTTTATCTCAC
* *
141287 TTGAGATAGTTTCAT-TCGAAACAGAAGATTTTATCTCAC
1 TTGAGATTGTTTC-TCTTGAAAC--AAGATTTTATCTCAC
* * * * *
141326 TTGATATTGTTTTTCTTAAAAC-AGACTTTGTCTCAC
1 TTGAGATTGTTTCTCTTGAAACAAGATTTTATCTCAC
* ** * * * *
141362 TTGAAACAGTTT-TACTCGAAAAAAGACATTTCATTTCAC
1 TTGAGATTGTTTCT-CTTGAAACAAG--ATTTTATCTCAC
** * * ** * *
141401 TCAAGATTGTTTTTCTTAAAACATATTTTTTGTCTCGC
1 TTGAGATTGTTTCTCTTGAAACA-AGATTTTATCTCAC
* * ** * *
141439 TTGAGATAGTTTTTACTCAAAACAAGACATTTCATTTCAC
1 TTGAGATTGTTTCT-CTTGAAACAAG--ATTTTATCTCAC
*** * *
141479 AACAGATTGGTTT-TCTTAAAACTAGATTTGTATCT--C
1 TTGAGATT-GTTTCTCTTGAAACAAGATTT-TATCTCAC
*** * *
141515 TTGAGACAATTTTTACCTGAAACAAGAAATTTTATCTCAC
1 TTGAGATTGTTTCT-CTTGAAACAAG--ATTTTATCTCAC
* * * * * *
141555 TCGAGATGGTTTTTCTTAAAACAA-ATTTTGTTTC-C
1 TTGAGATTGTTTCTCTTGAAACAAGATTTTATCTCAC
** * *
141590 TTTGAGACAGTTTCCCTTGAAA-AACCA----ATCT---
1 -TTGAGATTGTTTCTCTTGAAACAA-GATTTTATCTCAC
* * * *
141621 TTGAG-TTCGTTTCCCTTGAAACTAG-TTTTGTCTCTC
1 TTGAGATT-GTTTCTCTTGAAACAAGATTTTATCTCAC
** * * *
141657 TTGAGACAGTTTCCCTTGAAACAA-ATTTTGTCTCTC
1 TTGAGATTGTTTCTCTTGAAACAAGATTTTATCTCAC
* * *
141693 TTGAGATAGTTTCTCTTGAAACAA-ATTTTGTCTCTC
1 TTGAGATTGTTTCTCTTGAAACAAGATTTTATCTCAC
* * * *
141729 TTGAGAATGTTTCCCTTGAAACAA-ATTTTGTCTCTC
1 TTGAGATTGTTTCTCTTGAAACAAGATTTTATCTCAC
** * * * *
141765 TTGAGACAGTTTCCCTTTAAACAAG-TTTTGTCTCCC
1 TTGAGATTGTTTCTCTTGAAACAAGATTTTATCTCAC
** * * *
141801 TTGAGACAGTTTC-CTTTGAAATAAG-TTTTGTCTCTC
1 TTGAGATTGTTTCTC-TTGAAACAAGATTTTATCTCAC
* *
141837 TTGAGATAGTTTCCCTTGAAACA
1 TTGAGATTGTTTCTCTTGAAACA
141860 TAAACTTTGA
Statistics
Matches: 434, Mismatches: 100, Indels: 78
0.71 0.16 0.13
Matches are distributed among these distances:
30 18 0.04
31 1 0.00
33 5 0.01
35 8 0.02
36 251 0.58
37 17 0.04
38 30 0.07
39 75 0.17
40 25 0.06
41 4 0.01
ACGTcount: A:0.27, C:0.18, G:0.13, T:0.41
Consensus pattern (37 bp):
TTGAGATTGTTTCTCTTGAAACAAGATTTTATCTCAC
Found at i:141348 original size:75 final size:74
Alignment explanation
Indices: 141251--141613 Score: 225
Period size: 75 Copynumber: 4.8 Consensus size: 74
141241 TTGATAAACT
* * * *
141251 TTGAGATTGTTTCTCTTGAAACATGTTTTATCTCGCTTGAGATAGTTTCATTCGAAACAGAAG-A
1 TTGAGATTGTTTTTCTTAAAACATGTTTTGTCTCGCTTGAGATAGTTTCACTCGAAA-A-AAGAA
*
141315 TTTTATCTCAC
64 TTTCATCTCAC
* * * * * *
141326 TTGATATTGTTTTTCTTAAAACA-GACTTTGTCTCACTTGAAACAGTTTTACTCGAAAAAAGACA
1 TTGAGATTGTTTTTCTTAAAACATG-TTTTGTCTCGCTTGAGATAGTTTCACTCGAAAAAAGA-A
*
141390 TTTCATTTCAC
64 TTTCATCTCAC
** * *
141401 TCAAGATTGTTTTTCTTAAAACATATTTTTTGTCTCGCTTGAGATAGTTTTTACTC-AAAACAAG
1 TTGAGATTGTTTTTCTTAAAAC--ATGTTTTGTCTCGCTTGAGATAG-TTTCACTCGAAAA-AAG
*
141465 ACATTTCATTTCAC
62 A-ATTTCATCTCAC
*** * * * * * * * *
141479 AACAGATTGGTTTTCTTAAAAC-TAGATTTGTATCTCTTGAGACAATTTTTAC-CTGAAACAAGA
1 TTGAGATTGTTTTTCTTAAAACAT-GTTTTGTCTCGCTTGAGA-TAGTTTCACTC-GAAAAAAG-
*
141542 AATTTTATCTCAC
62 AATTTCATCTCAC
* * ** * * * *
141555 TCGAGATGGTTTTTCTTAAAACAAATTTTGTTTC-CTTTGAGACAGTTTCCCTTGAAAAA
1 TTGAGATTGTTTTTCTTAAAACATGTTTTGTCTCGC-TTGAGATAGTTTCACTCGAAAAA
141614 CCAATCTTTG
Statistics
Matches: 224, Mismatches: 48, Indels: 32
0.74 0.16 0.11
Matches are distributed among these distances:
73 3 0.01
74 2 0.01
75 87 0.39
76 63 0.28
77 26 0.12
78 43 0.19
ACGTcount: A:0.30, C:0.16, G:0.13, T:0.41
Consensus pattern (74 bp):
TTGAGATTGTTTTTCTTAAAACATGTTTTGTCTCGCTTGAGATAGTTTCACTCGAAAAAAGAATT
TCATCTCAC
Found at i:141569 original size:76 final size:76
Alignment explanation
Indices: 141302--141576 Score: 238
Period size: 76 Copynumber: 3.6 Consensus size: 76
141292 ATAGTTTCAT
* * * *
141302 TCGAAAC-AGAAGATTTTATCTCACTTGATATTGTTTTTCTTAAAAC-AGACTTTGTCTCACTTG
1 TCGAAACAAGAA-ATTTCATCTCACTCGAGATGGTTTTTCTTAAAACTAGA-TTTGTCTCACTTG
* *
141365 AAAC-AGTTTTAC
64 AGACAATTTTTAC
* * * * * ** *
141377 TCGAAAAAAGACATTTCATTTCACTCAAGATTGTTTTTCTTAAAACATATTTTTTGTCTCGCTTG
1 TCGAAACAAGAAATTTCATCTCACTCGAGATGGTTTTTCTTAAAAC-TA-GATTTGTCTCACTTG
* *
141442 AGATAGTTTTTAC
64 AGACAATTTTTAC
* * * * * *
141455 TCAAAACAAGACATTTCATTTCACAAC-AGATTGG-TTTTCTTAAAACTAGATTTGTATCTCTTG
1 TCGAAACAAGAAATTTCATCTCAC-TCGAGA-TGGTTTTTCTTAAAACTAGATTTGTCTCACTTG
141518 AGACAATTTTTAC
64 AGACAATTTTTAC
*
141531 -CTGAAACAAGAAATTTTATCTCACTCGAGATGGTTTTTCTTAAAAC
1 TC-GAAACAAGAAATTTCATCTCACTCGAGATGGTTTTTCTTAAAAC
141577 AAATTTTGTT
Statistics
Matches: 161, Mismatches: 29, Indels: 19
0.77 0.14 0.09
Matches are distributed among these distances:
75 40 0.25
76 58 0.36
77 17 0.11
78 43 0.27
79 3 0.02
ACGTcount: A:0.32, C:0.17, G:0.12, T:0.40
Consensus pattern (76 bp):
TCGAAACAAGAAATTTCATCTCACTCGAGATGGTTTTTCTTAAAACTAGATTTGTCTCACTTGAG
ACAATTTTTAC
Found at i:141659 original size:21 final size:21
Alignment explanation
Indices: 141635--141840 Score: 76
Period size: 21 Copynumber: 11.2 Consensus size: 21
141625 GTTCGTTTCC
*
141635 CTTGAAACTAGTTTTGTCTCT
1 CTTGAAACAAGTTTTGTCTCT
*
141656 CTTGAGAC-AG--TT-TC-C-
1 CTTGAAACAAGTTTTGTCTCT
*
141671 CTTGAAACAAATTTTGTCTCT
1 CTTGAAACAAGTTTTGTCTCT
* *
141692 CTTGAGA-TAG---T-T-TCT
1 CTTGAAACAAGTTTTGTCTCT
*
141707 CTTGAAACAAATTTTGTCTCT
1 CTTGAAACAAGTTTTGTCTCT
* *
141728 CTTG--AGAA-TGTT-TC-C-
1 CTTGAAACAAGTTTTGTCTCT
*
141743 CTTGAAACAAATTTTGTCTCT
1 CTTGAAACAAGTTTTGTCTCT
*
141764 CTTGAGAC-AG--TT-TC-C-
1 CTTGAAACAAGTTTTGTCTCT
* *
141779 CTTTAAACAAGTTTTGTCTCC
1 CTTGAAACAAGTTTTGTCTCT
*
141800 CTTGAGAC-AG--TT-TC-CT
1 CTTGAAACAAGTTTTGTCTCT
*
141816 -TTGAAATAAGTTTTGTCTCT
1 CTTGAAACAAGTTTTGTCTCT
141836 CTTGA
1 CTTGA
141841 GATAGTTTCC
Statistics
Matches: 133, Mismatches: 22, Indels: 60
0.62 0.10 0.28
Matches are distributed among these distances:
15 31 0.23
16 11 0.08
17 12 0.09
18 18 0.14
19 12 0.09
20 12 0.09
21 37 0.28
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (21 bp):
CTTGAAACAAGTTTTGTCTCT
Found at i:141741 original size:72 final size:72
Alignment explanation
Indices: 141629--141859 Score: 365
Period size: 72 Copynumber: 3.2 Consensus size: 72
141619 CTTTGAGTTC
*
141629 GTTTCCCTTGAAACTAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCT
1 GTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCT
141694 TGAGATA
66 TGAGATA
* *
141701 GTTTCTCTTGAAACAAATTTTGTCTCTCTTGAGA-ATGTTTCCCTTGAAACAAATTTTGTCTCTC
1 GTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACA-GTTTCCCTTGAAACAAATTTTGTCTCTC
*
141765 TTGAGACA
65 TTGAGATA
* * * * *
141773 GTTTCCCTTTAAACAAGTTTTGTCTCCCTTGAGACAGTTTCCTTTGAAATAAGTTTTGTCTCTCT
1 GTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCT
141838 TGAGATA
66 TGAGATA
141845 GTTTCCCTTGAAACA
1 GTTTCCCTTGAAACA
141860 TAAACTTTGA
Statistics
Matches: 144, Mismatches: 13, Indels: 4
0.89 0.08 0.02
Matches are distributed among these distances:
71 1 0.01
72 142 0.99
73 1 0.01
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (72 bp):
GTTTCCCTTGAAACAAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCT
TGAGATA
Found at i:141766 original size:108 final size:108
Alignment explanation
Indices: 141629--141859 Score: 358
Period size: 108 Copynumber: 2.1 Consensus size: 108
141619 CTTTGAGTTC
* * *
141629 GTTTCCCTTGAAACTAGTTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCTCT
1 GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCT
*
141694 TGAGATAGTTT-CTCTTGAAACAAATTTTGTCTCTCTTGAGA-A
66 TGAGACAGTTTCCT-TTGAAACAAATTTTGTCTCTCTTGAGATA
* *
141736 TGTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTTAAACAAGTTTTGTCTCCC
1 -GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCC
* *
141801 TTGAGACAGTTTCCTTTGAAATAAGTTTTGTCTCTCTTGAGATA
65 TTGAGACAGTTTCCTTTGAAACAAATTTTGTCTCTCTTGAGATA
141845 GTTTCCCTTGAAACA
1 GTTTCCCTTGAAACA
141860 TAAACTTTGA
Statistics
Matches: 113, Mismatches: 8, Indels: 4
0.90 0.06 0.03
Matches are distributed among these distances:
108 110 0.97
109 3 0.03
ACGTcount: A:0.23, C:0.20, G:0.15, T:0.42
Consensus pattern (108 bp):
GTTTCCCTTGAAACAAATTTTGTCTCTCTTGAGACAGTTTCCCTTGAAACAAATTTTGTCTCCCT
TGAGACAGTTTCCTTTGAAACAAATTTTGTCTCTCTTGAGATA
Found at i:141976 original size:36 final size:36
Alignment explanation
Indices: 141930--142132 Score: 149
Period size: 37 Copynumber: 5.6 Consensus size: 36
141920 AACAAAATGT
*
141930 ATCTCACTTGAGATGGTTTTTCTTAAAACCAACTTC
1 ATCTCACTTGAGATAGTTTTTCTTAAAACCAACTTC
* * * * * * *
141966 ATCTCGCTTGAGACAGTTTTCCCTTGAAACAAAATTT
1 ATCTCACTTGAGATAGTTTT-TCTTAAAACCAACTTC
*
142003 ATCT-AATTCGAGATAGTTTTTCTTAAAACCAACTTC
1 ATCTCACTT-GAGATAGTTTTTCTTAAAACCAACTTC
* ** * * * * *
142039 GTCTTGCTTGAGACAGTTTTCCCTTAAAACAAAATTT
1 ATCTCACTTGAGATAGTTTT-TCTTAAAACCAACTTC
* *
142076 ATCT-AATTAGAGATGGTTTTTTCTTAAAACCAACTTC
1 ATCTCACTT-GAGATAG-TTTTTCTTAAAACCAACTTC
* * *
142113 GTCTCGCTTGAGACAGTTTT
1 ATCTCACTTGAGATAGTTTT
142133 CCCTTGAAAG
Statistics
Matches: 122, Mismatches: 38, Indels: 14
0.70 0.22 0.08
Matches are distributed among these distances:
36 49 0.40
37 67 0.55
38 6 0.05
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (36 bp):
ATCTCACTTGAGATAGTTTTTCTTAAAACCAACTTC
Found at i:141994 original size:73 final size:73
Alignment explanation
Indices: 141895--142141 Score: 383
Period size: 73 Copynumber: 3.4 Consensus size: 73
141885 GACGAATTTT
* * *
141895 GTCTCTCTTGAGACAG-TTT-CCTTGAAACAAAATGTATCTCACTT-GAGATGGTTTTTCTTAAA
1 GTCTCGCTTGAGACAGTTTTCCCTTGAAACAAAATTTATCT-AATTAGAGATGGTTTTTCTTAAA
141957 ACCAACTTC
65 ACCAACTTC
* * *
141966 ATCTCGCTTGAGACAGTTTTCCCTTGAAACAAAATTTATCTAATTCGAGATAGTTTTTCTTAAAA
1 GTCTCGCTTGAGACAGTTTTCCCTTGAAACAAAATTTATCTAATTAGAGATGGTTTTTCTTAAAA
142031 CCAACTTC
66 CCAACTTC
* *
142039 GTCTTGCTTGAGACAGTTTTCCCTTAAAACAAAATTTATCTAATTAGAGATGGTTTTTTCTTAAA
1 GTCTCGCTTGAGACAGTTTTCCCTTGAAACAAAATTTATCTAATTAGAGATGG-TTTTTCTTAAA
142104 ACCAACTTC
65 ACCAACTTC
142113 GTCTCGCTTGAGACAGTTTTCCCTTGAAA
1 GTCTCGCTTGAGACAGTTTTCCCTTGAAA
142142 GAAGAAATTT
Statistics
Matches: 160, Mismatches: 12, Indels: 5
0.90 0.07 0.03
Matches are distributed among these distances:
71 14 0.09
72 6 0.04
73 93 0.58
74 47 0.29
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.37
Consensus pattern (73 bp):
GTCTCGCTTGAGACAGTTTTCCCTTGAAACAAAATTTATCTAATTAGAGATGGTTTTTCTTAAAA
CCAACTTC
Found at i:142525 original size:20 final size:20
Alignment explanation
Indices: 142463--142525 Score: 51
Period size: 20 Copynumber: 3.2 Consensus size: 20
142453 CATTAGAGAG
142463 TTCATAATGAGAAGAACTTA
1 TTCATAATGAGAAGAACTTA
* * * *
142483 -TC-CAACGAGGGAGAA-TAA
1 TTCATAATGA-GAAGAACTTA
142501 GTTCATAATGAGAAGAACTTA
1 -TTCATAATGAGAAGAACTTA
142522 TTCA
1 TTCA
142526 ACCTTGCATC
Statistics
Matches: 30, Mismatches: 8, Indels: 10
0.62 0.17 0.21
Matches are distributed among these distances:
18 6 0.20
19 7 0.23
20 11 0.37
21 6 0.20
ACGTcount: A:0.43, C:0.13, G:0.19, T:0.25
Consensus pattern (20 bp):
TTCATAATGAGAAGAACTTA
Found at i:142700 original size:91 final size:92
Alignment explanation
Indices: 142442--142980 Score: 688
Period size: 91 Copynumber: 6.0 Consensus size: 92
142432 AGATAAACCG
* * * * *
142442 ATCAATATTTCCATTAGAGAGTTCATAATGAGAAGAACTTATCCAACGAGGGAGAATAAGTTCAT
1 ATCAAAATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCAT
*
142507 AATGAGAAGAACTTATTCAACCTT-GC
66 AATGAGAAGAACTTGTTCAACCTTGGC
* * *
142533 ATCAACATTTCCAGTGGAGAGTTCATAATG-GAAGAACTCATCCAAAGAGGGAGACGAAGTTCAT
1 ATCAAAATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCAT
*
142597 AATGAGAAGAACTTGTTCAACCTT-TC
66 AATGAGAAGAACTTGTTCAACCTTGGC
*
142623 ATCAAAATTTCCAGTGGAGAGTTCATAATGAGAAGCACTCATCCAACGAGGGAGAAGAAGTTCAT
1 ATCAAAATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCAT
142688 AATGAGAAGAACTTGTTCAACCTTGGC
66 AATGAGAAGAACTTGTTCAACCTTGGC
*
142715 -TCAACAA-TTCCAGTGGAGAGTTCATATTGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCA
1 ATCAA-AATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCA
* *
142778 TAATGAGGAGAACTTTTTCAACCTTGGC
65 TAATGAGAAGAACTTGTTCAACCTTGGC
* ** *** ***
142806 -TCAACATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCTGACGAATCA-TCTAA---CA-
1 ATCAAAATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCAT
**
142865 AGGGAGAAGAACTTGTTCAACCTT-GC
66 AATGAGAAGAACTTGTTCAACCTTGGC
* * * ** *
142891 ATCAACATTTCCAGTGGAGAGTTAATAATGAGAAGAACTCATCTGAAAAAGGGTGAAGAAGTTCA
1 ATCAAAATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATC-CAACGAGGGAGAAGAAGTTCA
*
142956 TAATGAGAAGAACTTGATCAACCTT
65 TAATGAGAAGAACTTGTTCAACCTT
142981 AGCTCGATTA
Statistics
Matches: 390, Mismatches: 47, Indels: 21
0.85 0.10 0.05
Matches are distributed among these distances:
85 2 0.01
86 61 0.16
87 4 0.01
88 2 0.01
90 86 0.22
91 211 0.54
92 24 0.06
ACGTcount: A:0.37, C:0.17, G:0.21, T:0.25
Consensus pattern (92 bp):
ATCAAAATTTCCAGTGGAGAGTTCATAATGAGAAGAACTCATCCAACGAGGGAGAAGAAGTTCAT
AATGAGAAGAACTTGTTCAACCTTGGC
Found at i:144161 original size:18 final size:18
Alignment explanation
Indices: 144118--144172 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
144108 TTATGTTTCT
*
144118 AAGTAAAAGAAAAAAGAA
1 AAGTAAAAGAAAAAACAA
*
144136 ATGTAAAAGAAAAAATCAA
1 AAGTAAAAGAAAAAA-CAA
*
144155 AAGAAAAAGTAAAAAACA
1 AAGTAAAAG-AAAAAACA
144173 CAATGATTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 14 0.45
19 11 0.35
20 6 0.19
ACGTcount: A:0.75, C:0.04, G:0.13, T:0.09
Consensus pattern (18 bp):
AAGTAAAAGAAAAAACAA
Found at i:147940 original size:20 final size:20
Alignment explanation
Indices: 147915--147966 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 20
147905 TTGTTTTGTT
147915 TTATTTTAATTTAG-TCACTG
1 TTATTTTAATTTAGAT-ACTG
*
147935 TTATTTTAAATTTAGATATTG
1 TTATTTT-AATTTAGATACTG
147956 TTATTTTAATT
1 TTATTTTAATT
147967 ATTGAATTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
20 11 0.38
21 17 0.59
22 1 0.03
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.60
Consensus pattern (20 bp):
TTATTTTAATTTAGATACTG
Found at i:151305 original size:17 final size:17
Alignment explanation
Indices: 151283--151316 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
151273 AGCGATTGTT
*
151283 CTCACCAGGGCCGGGGG
1 CTCACCAGGGACGGGGG
*
151300 CTCACCGGGGACGGGGG
1 CTCACCAGGGACGGGGG
151317 AAAAAGCAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.12, C:0.32, G:0.50, T:0.06
Consensus pattern (17 bp):
CTCACCAGGGACGGGGG
Found at i:152619 original size:20 final size:20
Alignment explanation
Indices: 152594--152730 Score: 73
Period size: 20 Copynumber: 6.8 Consensus size: 20
152584 AATTTAACAA
152594 TTTCGCAACACGAATTTCTT
1 TTTCGCAACACGAATTTCTT
*
152614 TTTCGCAACTCG-ATTT-TT
1 TTTCGCAACACGAATTTCTT
* * * *
152632 AAATTCACAACACGAGTTTCGT
1 --TTTCGCAACACGAATTTCTT
* * *
152654 TTTCGCAACTCGATTTTCTA
1 TTTCGCAACACGAATTTCTT
* * * **
152674 ATTCACAA-AGCGAGTTTCAA
1 TTTCGCAACA-CGAATTTCTT
* * *
152694 TTTCGCAACGCAAATTTCAT
1 TTTCGCAACACGAATTTCTT
*
152714 TTTCGCAACGCGAATTT
1 TTTCGCAACACGAATTT
152731 AAATTTCAAA
Statistics
Matches: 87, Mismatches: 24, Indels: 12
0.71 0.20 0.10
Matches are distributed among these distances:
18 2 0.02
19 4 0.05
20 77 0.89
21 3 0.03
22 1 0.01
ACGTcount: A:0.28, C:0.23, G:0.12, T:0.36
Consensus pattern (20 bp):
TTTCGCAACACGAATTTCTT
Found at i:152657 original size:40 final size:40
Alignment explanation
Indices: 152599--152702 Score: 140
Period size: 40 Copynumber: 2.6 Consensus size: 40
152589 AACAATTTCG
* *
152599 CAACACGAATTTCTTTTTCGCAACTCGATTTT-TAAATTCA
1 CAACACGAGTTTCATTTTCGCAACTCGATTTTCT-AATTCA
*
152639 CAACACGAGTTTCGTTTTCGCAACTCGATTTTCTAATTCA
1 CAACACGAGTTTCATTTTCGCAACTCGATTTTCTAATTCA
*
152679 CAA-AGCGAGTTTCAATTTCGCAAC
1 CAACA-CGAGTTTCATTTTCGCAAC
152703 GCAAATTTCA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
39 1 0.02
40 56 0.97
41 1 0.02
ACGTcount: A:0.29, C:0.24, G:0.12, T:0.36
Consensus pattern (40 bp):
CAACACGAGTTTCATTTTCGCAACTCGATTTTCTAATTCA
Found at i:152737 original size:20 final size:20
Alignment explanation
Indices: 152692--152737 Score: 65
Period size: 20 Copynumber: 2.3 Consensus size: 20
152682 AGCGAGTTTC
*
152692 AATTTCGCAACGCAAATTTC
1 AATTTCGCAACGCAAATTTA
* *
152712 ATTTTCGCAACGCGAATTTA
1 AATTTCGCAACGCAAATTTA
152732 AATTTC
1 AATTTC
152738 AAAAAACAGC
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.33, C:0.22, G:0.11, T:0.35
Consensus pattern (20 bp):
AATTTCGCAACGCAAATTTA
Found at i:153296 original size:20 final size:20
Alignment explanation
Indices: 153273--153325 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
153263 TTGAAACTTG
153273 AAAATGAAATTCGCAACTCA
1 AAAATGAAATTCGCAACTCA
* *
153293 AAAACGAAAATCGCAACTCA
1 AAAATGAAATTCGCAACTCA
153313 AAAATGAAATTCG
1 AAAATGAAATTCG
153326 AGTTGCGATT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.53, C:0.19, G:0.11, T:0.17
Consensus pattern (20 bp):
AAAATGAAATTCGCAACTCA
Found at i:154970 original size:20 final size:20
Alignment explanation
Indices: 154945--154982 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
154935 CCAAAACATT
154945 TGTGTTGCGAAATTAAAAGC
1 TGTGTTGCGAAATTAAAAGC
154965 TGTGTTGCGAAATTAAAA
1 TGTGTTGCGAAATTAAAA
154983 TTCACGTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.08, G:0.24, T:0.32
Consensus pattern (20 bp):
TGTGTTGCGAAATTAAAAGC
Found at i:154991 original size:20 final size:21
Alignment explanation
Indices: 154968--155016 Score: 59
Period size: 20 Copynumber: 2.4 Consensus size: 21
154958 TAAAAGCTGT
*
154968 GTTGCGAAATT-AAAATTC-A
1 GTTGCGAAATTCAAAAATCGA
154987 CGTTGC-AAATTCAAAAATCGA
1 -GTTGCGAAATTCAAAAATCGA
155008 GTTGCGAAA
1 GTTGCGAAA
155017 ACGAAATTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 5 0.20
20 16 0.64
21 4 0.16
ACGTcount: A:0.41, C:0.14, G:0.18, T:0.27
Consensus pattern (21 bp):
GTTGCGAAATTCAAAAATCGA
Found at i:155197 original size:20 final size:20
Alignment explanation
Indices: 155143--155220 Score: 95
Period size: 20 Copynumber: 3.9 Consensus size: 20
155133 GAAATTGTCT
*
155143 AATTCGAGTTGCGAATT-CG
1 AATTCGAGTTGCGAATTCCA
* * * *
155162 ACTTATGTGTTACGAATTCCA
1 AATT-CGAGTTGCGAATTCCA
155183 AATTCGAGTTGCGAATTCCA
1 AATTCGAGTTGCGAATTCCA
155203 AATTCGAGTTGCGAATTC
1 AATTCGAGTTGCGAATTC
155221 GTTGGTTAAT
Statistics
Matches: 48, Mismatches: 9, Indels: 3
0.80 0.15 0.05
Matches are distributed among these distances:
19 3 0.06
20 41 0.85
21 4 0.08
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.33
Consensus pattern (20 bp):
AATTCGAGTTGCGAATTCCA
Found at i:163212 original size:22 final size:24
Alignment explanation
Indices: 163150--163217 Score: 77
Period size: 22 Copynumber: 2.8 Consensus size: 24
163140 ATAATAGGAC
**
163150 TAGTAATATTTATGTTTAATATTATT
1 TAGTAATATTTA-AATTAA-ATTATT
163176 TAGTAATTATTTAAATTAAATTATT
1 TAGTAA-TATTTAAATTAAATTATT
163201 T-GTAA-ATTTAAATTAAA
1 TAGTAATATTTAAATTAAA
163218 AGAGCAAATC
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
22 12 0.31
24 4 0.10
25 7 0.18
26 10 0.26
27 6 0.15
ACGTcount: A:0.43, C:0.00, G:0.06, T:0.51
Consensus pattern (24 bp):
TAGTAATATTTAAATTAAATTATT
Found at i:170328 original size:20 final size:20
Alignment explanation
Indices: 170249--170320 Score: 74
Period size: 20 Copynumber: 3.6 Consensus size: 20
170239 ATTTCTCATG
170249 AATTTGTAAATCCTTCGGGT
1 AATTTGTAAATCCTTCGGGT
* * *
170269 AATGTGTAAAGCTTTCGGG-
1 AATTTGTAAATCCTTCGGGT
* * *
170288 ACTTTTGTAAAACCTTTGGGT
1 A-ATTTGTAAATCCTTCGGGT
170309 AATTTGTAAATC
1 AATTTGTAAATC
170321 TTTTGGGTCA
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 1 0.03
20 38 0.95
21 1 0.03
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.39
Consensus pattern (20 bp):
AATTTGTAAATCCTTCGGGT
Found at i:170760 original size:51 final size:47
Alignment explanation
Indices: 170703--170818 Score: 135
Period size: 51 Copynumber: 2.4 Consensus size: 47
170693 TTTAGTTGTG
* * *
170703 TCACAGAAGAGTAATGAAACAGATTATGTT-CAAGTCATGCAAATTCAGCCT
1 TCACAGAAGAGTAGTGAAACAAATCAT-TTGCAAGTCAT-C--ATT-AGCCT
* *
170754 TCACAGAAGAGTAGTGAATCAAATCATTTGCAAGTCATCCTTAGCCT
1 TCACAGAAGAGTAGTGAAACAAATCATTTGCAAGTCATCATTAGCCT
170801 TCACAGAAGAGTAGTGAA
1 TCACAGAAGAGTAGTGAA
170819 GTATGAGCAA
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
47 23 0.39
48 2 0.03
50 3 0.05
51 31 0.53
ACGTcount: A:0.38, C:0.18, G:0.19, T:0.25
Consensus pattern (47 bp):
TCACAGAAGAGTAGTGAAACAAATCATTTGCAAGTCATCATTAGCCT
Found at i:172225 original size:15 final size:15
Alignment explanation
Indices: 172198--172239 Score: 57
Period size: 15 Copynumber: 2.7 Consensus size: 15
172188 TAAGGTAAAA
172198 TTATATATTTAGTCCT
1 TTATAT-TTTAGTCCT
**
172214 TTATATTTTAGTTGT
1 TTATATTTTAGTCCT
172229 TTATATTTTAG
1 TTATATTTTAG
172240 CCCCATTCAT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
15 18 0.75
16 6 0.25
ACGTcount: A:0.24, C:0.05, G:0.10, T:0.62
Consensus pattern (15 bp):
TTATATTTTAGTCCT
Found at i:172501 original size:22 final size:24
Alignment explanation
Indices: 172450--172502 Score: 65
Period size: 22 Copynumber: 2.2 Consensus size: 24
172440 ATATTTATGT
*
172450 TTAATATTATTTAGTAATTATTTAAA
1 TTAA-ATTATTTAGTAA-TATTAAAA
172476 TTAAATTATTT-GTAA-ATTAAAA
1 TTAAATTATTTAGTAATATTAAAA
172498 TTAAA
1 TTAAA
172503 AGAGCAAATC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
22 11 0.42
24 4 0.15
25 7 0.27
26 4 0.15
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (24 bp):
TTAAATTATTTAGTAATATTAAAA
Found at i:185730 original size:19 final size:20
Alignment explanation
Indices: 185681--185731 Score: 54
Period size: 19 Copynumber: 2.6 Consensus size: 20
185671 TATCTTTTTT
185681 TTTTTTGTTGTT-GTTTGAG
1 TTTTTTGTTGTTGGTTTGAG
* *
185700 TATTTTT-ATGTTGGTTT-CG
1 T-TTTTTGTTGTTGGTTTGAG
185719 TTTTTTGTTGTTG
1 TTTTTTGTTGTTG
185732 TTCGAAAGTG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
18 5 0.19
19 12 0.46
20 9 0.35
ACGTcount: A:0.06, C:0.02, G:0.24, T:0.69
Consensus pattern (20 bp):
TTTTTTGTTGTTGGTTTGAG
Found at i:188190 original size:28 final size:30
Alignment explanation
Indices: 188136--188204 Score: 97
Period size: 28 Copynumber: 2.4 Consensus size: 30
188126 TTTGAAAACA
* * *
188136 TTTTGAATATATATATATATATAATATAGT
1 TTTTGAAAACATATATATATATAATATAGC
188166 TTTTGAAAACATATATATA-AT-ATATAGC
1 TTTTGAAAACATATATATATATAATATAGC
188194 TTTTGAAAACA
1 TTTTGAAAACA
188205 GTTTGAATAT
Statistics
Matches: 36, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
28 17 0.47
29 2 0.06
30 17 0.47
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.43
Consensus pattern (30 bp):
TTTTGAAAACATATATATATATAATATAGC
Found at i:188192 original size:69 final size:68
Alignment explanation
Indices: 188099--188233 Score: 227
Period size: 69 Copynumber: 2.0 Consensus size: 68
188089 TTTGAAAACA
* *
188099 TTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTGAATATATATATATATATA-ATAT
1 TTTTGAAAATATATATAATATATAGCTTTTGAAAACAGTTTGAATATATATATATATATATATAT
188163 AGT
66 AGT
188166 TTTTGAAAACATATATATAATATATAGCTTTTGAAAACAGTTTGAATATATATATATATATATAT
1 TTTTG-AAA-ATATATATAATATATAGCTTTTGAAAACAGTTTGAATATATATATATATATATAT
188231 ATA
64 ATA
188234 TATAATATAG
Statistics
Matches: 63, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
67 5 0.08
68 3 0.05
69 50 0.79
70 5 0.08
ACGTcount: A:0.45, C:0.03, G:0.07, T:0.44
Consensus pattern (68 bp):
TTTTGAAAATATATATAATATATAGCTTTTGAAAACAGTTTGAATATATATATATATATATATAT
AGT
Found at i:188218 original size:2 final size:2
Alignment explanation
Indices: 188211--188242 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
188201 AACAGTTTGA
188211 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
188243 GTTTTGAAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 28 0.97
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:188235 original size:51 final size:51
Alignment explanation
Indices: 188176--188278 Score: 149
Period size: 50 Copynumber: 2.1 Consensus size: 51
188166 TTTTGAAAAC
*
188176 ATATATATA-AT-ATATAGCTTTTGAAAACAGTTTGAATATATATATA-TAT
1 ATATATATATATAATATAG-TTTTGAAAACAGTTTGAAAATATATATAGTAT
* *
188225 ATATATATATATAATATAGTTTTGAAAATATTTTGAAAATATATATAGTAT
1 ATATATATATATAATATAGTTTTGAAAACAGTTTGAAAATATATATAGTAT
188276 ATA
1 ATA
188279 GTTTTTGAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 4
0.87 0.05 0.07
Matches are distributed among these distances:
49 9 0.19
50 27 0.56
51 12 0.25
ACGTcount: A:0.47, C:0.02, G:0.08, T:0.44
Consensus pattern (51 bp):
ATATATATATATAATATAGTTTTGAAAACAGTTTGAAAATATATATAGTAT
Found at i:188267 original size:34 final size:35
Alignment explanation
Indices: 188227--188346 Score: 120
Period size: 36 Copynumber: 3.3 Consensus size: 35
188217 ATATATATAT
188227 ATATATATATAATATAGTTTTGAAAATATTTTGAAA
1 ATATATATAT-ATATAGTTTTGAAAATATTTTGAAA
* *
188263 ATATATATAGTATATAGTTTTTGAAAACATTTTTGAAC
1 ATATATATA-TATATAG-TTTTGAAAATA-TTTTGAAA
* *
188301 ATACATA-ATATATTGTTTTGAAAGCAT-TTTTCGAAA
1 ATATATATATATATAGTTTTGAAA--ATATTTT-GAAA
188337 A-ATATATATA
1 ATATATATATA
188347 ATAATATCAT
Statistics
Matches: 70, Mismatches: 7, Indels: 14
0.77 0.08 0.15
Matches are distributed among these distances:
35 16 0.23
36 28 0.40
37 13 0.19
38 13 0.19
ACGTcount: A:0.43, C:0.04, G:0.09, T:0.43
Consensus pattern (35 bp):
ATATATATATATATAGTTTTGAAAATATTTTGAAA
Found at i:188295 original size:37 final size:37
Alignment explanation
Indices: 187968--188349 Score: 315
Period size: 39 Copynumber: 10.0 Consensus size: 37
187958 ATTAATATAG
* *
187968 TATAGTTTTTCAAAACATTTTCAAAACATATATATAATA
1 TATAGTTTTTGAAAACATTTT-GAAA-ATATATATAATA
188007 TATAGTTTTTG-AAACATTTTGAAAATATATATAATA
1 TATAGTTTTTGAAAACATTTTGAAAATATATATAATA
* *
188043 TATAGTTTTTTAAAACATTTTAAAAATATATATATAATA
1 TATAGTTTTTGAAAACATTTT-GAAA-ATATATATAATA
188082 TATAGTTTTTGAAAACATTTTGAAAATATATATAATA
1 TATAGTTTTTGAAAACATTTTGAAAATATATATAATA
188119 TATAGTTTTTGAAAACATTTTGAATATATATATATATATAA
1 TATAGTTTTTGAAAACATTTTGAA-A-ATATATATA-AT-A
188160 TATAGTTTTTGAAAAC---------ATATATATAATA
1 TATAGTTTTTGAAAACATTTTGAAAATATATATAATA
* *
188188 TATAGCTTTTGAAAACAGTTTGAATATATATATATATATA
1 TATAGTTTTTGAAAACATTTTGAA-A-ATATATATA-ATA
* * *
188228 TATA-TATATAATATAGTTTTGAAAATATTTTGAAAATATATATAGTA
1 TATAGT-T-T--T-T-G---A--AAACATTTTGAAAATATATATAATA
* *
188275 TATAGTTTTTGAAAACATTTTTG--AACATACATAATA
1 TATAGTTTTTGAAAACA-TTTTGAAAATATATATAATA
* *
188311 TATTG-TTTTGAAAGCATTTTTCGAAAAATATATATAATA
1 TATAGTTTTTGAAAACA-TTTT-G-AAAATATATATAATA
188350 ATATCATTTT
Statistics
Matches: 286, Mismatches: 21, Indels: 72
0.75 0.06 0.19
Matches are distributed among these distances:
28 16 0.06
29 2 0.01
30 9 0.03
35 15 0.05
36 37 0.13
37 52 0.18
38 21 0.07
39 71 0.25
40 10 0.03
41 18 0.06
42 1 0.00
43 2 0.01
44 2 0.01
45 1 0.00
46 1 0.00
47 7 0.02
48 10 0.03
49 1 0.00
50 10 0.03
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.44
Consensus pattern (37 bp):
TATAGTTTTTGAAAACATTTTGAAAATATATATAATA
Found at i:188313 original size:36 final size:37
Alignment explanation
Indices: 187968--188177 Score: 140
Period size: 37 Copynumber: 5.5 Consensus size: 37
187958 ATTAATATAG
* ** * *
187968 TATAGTTTTTCAAAACATTTTCAAAACATATATATAATA
1 TATAG-TTTTGAAAACATTTTTGAAA-ATACATATAGTA
* *
188007 TATAGTTTTTG-AAACA-TTTTGAAAATATATATAATA
1 TATAG-TTTTGAAAACATTTTTGAAAATACATATAGTA
* ** * *
188043 TATAGTTTTTTAAAACATTTTAAAAATATATATATAATA
1 TATAG-TTTTGAAAACATTTTTGAAA-ATACATATAGTA
* *
188082 TATAGTTTTTGAAAACA-TTTTGAAAATATATATAATA
1 TATAG-TTTTGAAAACATTTTTGAAAATACATATAGTA
* *
188119 TATAGTTTTTGAAAACA-TTTTGAATATATATATATATATAA
1 TATAG-TTTTGAAAACATTTTTGAA-A-ATACATATA-GT-A
188160 TATAGTTTTTGAAAACAT
1 TATAG-TTTTGAAAACAT
188178 ATATATAATA
Statistics
Matches: 154, Mismatches: 9, Indels: 13
0.88 0.05 0.07
Matches are distributed among these distances:
36 22 0.14
37 47 0.31
38 18 0.12
39 47 0.31
40 2 0.01
41 18 0.12
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.44
Consensus pattern (37 bp):
TATAGTTTTGAAAACATTTTTGAAAATACATATAGTA
Found at i:189732 original size:5 final size:5
Alignment explanation
Indices: 189722--189755 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
189712 TTTAACACTC
*
189722 TTTAT TTTAT TTTAT TTTGT TTTATT TTTAT TTT
1 TTTAT TTTAT TTTAT TTTAT TTTA-T TTTAT TTT
189756 CCCAGTTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
5 21 0.81
6 5 0.19
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (5 bp):
TTTAT
Found at i:190213 original size:16 final size:18
Alignment explanation
Indices: 190192--190225 Score: 54
Period size: 16 Copynumber: 2.0 Consensus size: 18
190182 TTAAAATTAG
190192 CATGCA-GGGT-AGAATT
1 CATGCATGGGTAAGAATT
190208 CATGCATGGGTAAGAATT
1 CATGCATGGGTAAGAATT
190226 AAAGCATGCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 4 0.25
18 6 0.38
ACGTcount: A:0.32, C:0.12, G:0.29, T:0.26
Consensus pattern (18 bp):
CATGCATGGGTAAGAATT
Found at i:192004 original size:24 final size:24
Alignment explanation
Indices: 191972--192020 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
191962 ATTCTGTCTG
*
191972 ATTCAACCATTTAGTGGTACAACC
1 ATTCAACCATTCAGTGGTACAACC
191996 ATTCAACCATTCAGTGGTACAACC
1 ATTCAACCATTCAGTGGTACAACC
192020 A
1 A
192021 GCTGAACCAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.35, C:0.27, G:0.12, T:0.27
Consensus pattern (24 bp):
ATTCAACCATTCAGTGGTACAACC
Found at i:196664 original size:39 final size:37
Alignment explanation
Indices: 196618--196924 Score: 412
Period size: 39 Copynumber: 8.2 Consensus size: 37
196608 TTAATATAGC
196618 ATAGTTTTTGAAAACATTTTGAAAACATATATATAATAT
1 ATAGTTTTTGAAAACATTTTG-AAA-ATATATATAATAT
196657 ATAGTTTTTGAAAACATTTTG--AATATATATAATAT
1 ATAGTTTTTGAAAACATTTTGAAAATATATATAATAT
196692 ATAGTTTTTGAAAACATTTTGAAAAAATATATATAATAT
1 ATAGTTTTTGAAAACATTTTG--AAAATATATATAATAT
*
196731 ATAATTTTTGAAAACATTTTGAAAACATATATATAATAT
1 ATAGTTTTTGAAAACATTTTG-AAA-ATATATATAATAT
* *
196770 ATAGTTTTTGAAATCAGTTTG--AATATATATAATAT
1 ATAGTTTTTGAAAACATTTTGAAAATATATATAATAT
196805 ATAG-TTTTGAAAACATTTTGAAAATATATATAATAT
1 ATAGTTTTTGAAAACATTTTGAAAATATATATAATAT
* *
196841 ATAGTTTTTGAAAACATTTTTGAACATATATATAATTT
1 ATAGTTTTTGAAAACA-TTTTGAAAATATATATAATAT
* *
196879 AT-GGTTTTGAAAGCATTTTTCGAAAATATATATAATAT
1 ATAGTTTTTGAAAACA-TTTT-GAAAATATATATAATAT
*
196917 -TATTTTTT
1 ATAGTTTTT
196925 AAATCATATA
Statistics
Matches: 243, Mismatches: 14, Indels: 23
0.87 0.05 0.08
Matches are distributed among these distances:
34 14 0.06
35 51 0.21
36 20 0.08
37 28 0.12
38 44 0.18
39 86 0.35
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (37 bp):
ATAGTTTTTGAAAACATTTTGAAAATATATATAATAT
Found at i:196665 original size:28 final size:28
Alignment explanation
Indices: 196634--196708 Score: 87
Period size: 35 Copynumber: 2.4 Consensus size: 28
196624 TTTGAAAACA
196634 TTTTGAAAACATATATATAATATATAGT
1 TTTTGAAAACATATATATAATATATAGT
196662 TTTTGAAAACATTTTGAATATATATAATATATAGT
1 TTTTGAAAAC-------ATATATATAATATATAGT
196697 TTTTGAAAACAT
1 TTTTGAAAACAT
196709 TTTGAAAAAA
Statistics
Matches: 40, Mismatches: 0, Indels: 14
0.74 0.00 0.26
Matches are distributed among these distances:
28 12 0.30
35 28 0.70
ACGTcount: A:0.44, C:0.04, G:0.08, T:0.44
Consensus pattern (28 bp):
TTTTGAAAACATATATATAATATATAGT
Found at i:196726 original size:74 final size:73
Alignment explanation
Indices: 196618--196924 Score: 392
Period size: 74 Copynumber: 4.1 Consensus size: 73
196608 TTAATATAGC
196618 ATAGTTTTTGAAAACATTTTGAAAACATATATATAATATATAGTTTTTGAAAACATTTTG-AATA
1 ATAGTTTTTGAAAACATTTTG-AAA-ATATATATAATATATAGTTTTTGAAAACATTTTGAAATA
196682 TATATAATAT
64 TATATAATAT
*
196692 ATAGTTTTTGAAAACATTTTGAAAAAATATATATAATATATAATTTTTGAAAACATTTTGAAAAC
1 ATAGTTTTTGAAAACATTTTG--AAAATATATATAATATATAGTTTTTGAAAACATTTTG--AA-
196757 ATATATATAATAT
61 ATATATATAATAT
* *
196770 ATAGTTTTTGAAATCAGTTTG--AATATATATAATATATAG-TTTTGAAAACATTTTGAAAATAT
1 ATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTG-AAATAT
196832 ATATAATAT
65 ATATAATAT
* * * *
196841 ATAGTTTTTGAAAACATTTTTGAACATATATATAATTTAT-GGTTTTGAAAGCATTTTTCGAAAA
1 ATAGTTTTTGAAAACA-TTTTGAAAATATATATAATATATAGTTTTTGAAAACA-TTTT-G-AAA
196905 TATATATAATAT
62 TATATATAATAT
*
196917 -TATTTTTT
1 ATAGTTTTT
196925 AAATCATATA
Statistics
Matches: 212, Mismatches: 10, Indels: 21
0.87 0.04 0.09
Matches are distributed among these distances:
71 28 0.13
72 7 0.03
73 17 0.08
74 95 0.45
75 15 0.07
76 17 0.08
77 1 0.00
78 32 0.15
ACGTcount: A:0.43, C:0.04, G:0.08, T:0.44
Consensus pattern (73 bp):
ATAGTTTTTGAAAACATTTTGAAAATATATATAATATATAGTTTTTGAAAACATTTTGAAATATA
TATAATAT
Found at i:196803 original size:113 final size:110
Alignment explanation
Indices: 196622--196890 Score: 436
Period size: 113 Copynumber: 2.4 Consensus size: 110
196612 TATAGCATAG
*
196622 TTTTTGAAAACATTTTGAAAACATATATATAATATATAGTTTTTGAAAACATTTTGAATATATAT
1 TTTTTGAAAACATTTTGAAAACATATATATAATATATAGTTTTTGAAAACAGTTTGAATATATAT
196687 AATATATAGTTTTTGAAAACATTTTGAAAAAATATATATAATATATAA
66 AATATATAG-TTTTGAAAACATTTTG--AAAATATATATAATATATAA
*
196735 TTTTTGAAAACATTTTGAAAACATATATATAATATATAGTTTTTGAAATCAGTTTGAATATATAT
1 TTTTTGAAAACATTTTGAAAACATATATATAATATATAGTTTTTGAAAACAGTTTGAATATATAT
*
196800 AATATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAG
66 AATATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAA
* *
196845 TTTTTGAAAACATTTTTG--AACATATATATAATTTAT-GGTTTTGAAA
1 TTTTTGAAAACA-TTTTGAAAACATATATATAATATATAGTTTTTGAAA
196891 GCATTTTTCG
Statistics
Matches: 150, Mismatches: 5, Indels: 7
0.93 0.03 0.04
Matches are distributed among these distances:
108 9 0.06
109 17 0.11
110 31 0.21
111 5 0.03
112 16 0.11
113 72 0.48
ACGTcount: A:0.44, C:0.04, G:0.09, T:0.43
Consensus pattern (110 bp):
TTTTTGAAAACATTTTGAAAACATATATATAATATATAGTTTTTGAAAACAGTTTGAATATATAT
AATATATAGTTTTGAAAACATTTTGAAAATATATATAATATATAA
Found at i:196990 original size:16 final size:16
Alignment explanation
Indices: 196946--196982 Score: 56
Period size: 18 Copynumber: 2.2 Consensus size: 16
196936 ATAATGCCAT
196946 TTTATTTATTTCATTTCA
1 TTTATTTATTT-A-TTCA
196964 TTTATTTATTTATTCA
1 TTTATTTATTTATTCA
196980 TTT
1 TTT
196983 TGTTATTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 7 0.37
17 1 0.05
18 11 0.58
ACGTcount: A:0.22, C:0.08, G:0.00, T:0.70
Consensus pattern (16 bp):
TTTATTTATTTATTCA
Found at i:198332 original size:26 final size:27
Alignment explanation
Indices: 198303--198369 Score: 75
Period size: 26 Copynumber: 2.5 Consensus size: 27
198293 TTCCCGCTTC
* *
198303 TTTATTTTATTTT-ATATTGTTTTATT
1 TTTATTTTATTTTAACATTGTTTTATA
*
198329 TTTATTTTATCTTTTAACATTTTTTTATA
1 TTTATTTTA--TTTTAACATTGTTTTATA
198358 TTT-TTTTATTTT
1 TTTATTTTATTTT
198370 TCTTTTCTGA
Statistics
Matches: 35, Mismatches: 3, Indels: 6
0.80 0.07 0.14
Matches are distributed among these distances:
26 13 0.37
28 9 0.26
29 13 0.37
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (27 bp):
TTTATTTTATTTTAACATTGTTTTATA
Found at i:198360 original size:10 final size:10
Alignment explanation
Indices: 198303--198370 Score: 54
Period size: 10 Copynumber: 7.0 Consensus size: 10
198293 TTCCCGCTTC
198303 TTTAT-TTTAT
1 TTTATATTT-T
*
198313 TTTATATTGT
1 TTTATATTTT
198323 TTTAT-TTTT
1 TTTATATTTT
*
198332 ATTT-TATCTT
1 -TTTATATTTT
* *
198342 TTAACATTTT
1 TTTATATTTT
198352 TTTATATTTT
1 TTTATATTTT
198362 TTTAT-TTTT
1 TTTATATTTT
198371 CTTTTCTGAA
Statistics
Matches: 46, Mismatches: 8, Indels: 9
0.73 0.13 0.14
Matches are distributed among these distances:
9 10 0.22
10 34 0.74
11 2 0.04
ACGTcount: A:0.19, C:0.03, G:0.01, T:0.76
Consensus pattern (10 bp):
TTTATATTTT
Found at i:198368 original size:18 final size:18
Alignment explanation
Indices: 198312--198370 Score: 55
Period size: 19 Copynumber: 3.1 Consensus size: 18
198302 CTTTATTTTA
*
198312 TTTTATATTGTTTTATTT
1 TTTTATATTTTTTTATTT
* **
198330 TTATTTTATCTTTTAACATTT
1 TT-TTATAT-TTTT-TTATTT
198351 TTTTATATTTTTTTATTT
1 TTTTATATTTTTTTATTT
198369 TT
1 TT
198371 CTTTTCTGAA
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
18 8 0.26
19 9 0.29
20 8 0.26
21 6 0.19
ACGTcount: A:0.19, C:0.03, G:0.02, T:0.76
Consensus pattern (18 bp):
TTTTATATTTTTTTATTT
Found at i:198375 original size:21 final size:20
Alignment explanation
Indices: 198303--198375 Score: 67
Period size: 20 Copynumber: 3.6 Consensus size: 20
198293 TTCCCGCTTC
* *
198303 TTTATTTTATTTTATATTGT
1 TTTATTTTTTTTTATATTTT
* *
198323 TTTATTTTTATTT-TATCTT
1 TTTATTTTTTTTTATATTTT
* **
198342 TTAACATTTTTTTATATTTT
1 TTTATTTTTTTTTATATTTT
198362 TTTATTTTTCTTTT
1 TTTATTTTT-TTTT
198376 CTGAAATTTA
Statistics
Matches: 39, Mismatches: 12, Indels: 3
0.72 0.22 0.06
Matches are distributed among these distances:
19 13 0.33
20 22 0.56
21 4 0.10
ACGTcount: A:0.18, C:0.04, G:0.01, T:0.77
Consensus pattern (20 bp):
TTTATTTTTTTTTATATTTT
Found at i:200560 original size:25 final size:25
Alignment explanation
Indices: 200517--200586 Score: 65
Period size: 24 Copynumber: 2.8 Consensus size: 25
200507 TGGTTGCTAG
200517 AATTATTTTGTTAATTAT-ATATCTTAAA
1 AATTA-TTT-TTAATTATAAT-TC-TAAA
*
200545 TATTATTTTTAA-TATAATTCTAAA
1 AATTATTTTTAATTATAATTCTAAA
*
200569 AATTATTTTAAATT-TAAT
1 AATTATTTTTAATTATAAT
200587 GTTAAAATAA
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
24 18 0.49
25 6 0.16
26 6 0.16
27 3 0.08
28 4 0.11
ACGTcount: A:0.41, C:0.03, G:0.01, T:0.54
Consensus pattern (25 bp):
AATTATTTTTAATTATAATTCTAAA
Done.