Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D02
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: 70731513
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1900000 characters in sequence are not A, C, G, or T
File 146 of 222
Found at i:47200998 original size:20 final size:19
Alignment explanation
Indices: 47200963--47201001 Score: 60
Period size: 20 Copynumber: 2.0 Consensus size: 19
47200953 GAAAATATTC
*
47200963 AAAAAATTTCGTGTTTTAA
1 AAAAAATTTCGCGTTTTAA
47200982 AAAAAATTCTCGCGTTTTAA
1 AAAAAATT-TCGCGTTTTAA
47201002 TAGAATCACG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.44
20 10 0.56
ACGTcount: A:0.41, C:0.10, G:0.10, T:0.38
Consensus pattern (19 bp):
AAAAAATTTCGCGTTTTAA
Found at i:47201152 original size:18 final size:17
Alignment explanation
Indices: 47201121--47201403 Score: 144
Period size: 17 Copynumber: 16.4 Consensus size: 17
47201111 TTTAAAAAAA
47201121 TCAAAAAA-TTCGTGTT
1 TCAAAAAATTTCGTGTT
47201137 TCAAAAAATTTCCGTG-T
1 TCAAAAAATTT-CGTGTT
47201154 T-AAAAAA-TTCGTGTTT
1 TCAAAAAATTTCGTG-TT
*
47201170 TC-AAAAATTTCATG--
1 TCAAAAAATTTCGTGTT
* *
47201184 TCCAAAAATTCTCGTATT
1 TCAAAAAATT-TCGTGTT
* *
47201202 TCATAAATTTTCGTG-T
1 TCAAAAAATTTCGTGTT
47201218 T-AAAAAATTTTCCGTGTT
1 TCAAAAAA-TTT-CGTGTT
*
47201236 TCCAACAAAATTT-GGGTT
1 T-CAA-AAAATTTCGTGTT
* *
47201254 TC-TAAAATTCTCGTATT
1 TCAAAAAATT-TCGTGTT
47201271 TC-AAAAATTTCCCGTGTT
1 TCAAAAAATTT--CGTGTT
47201289 TCAAAAAATTTCGTGTTT
1 TCAAAAAATTTCGTG-TT
47201307 TCAAAAAAAAATGTTTCGTGTT
1 TC---AAAAAA--TTTCGTGTT
* *
47201329 TTAAAAATTTTCGTGTT
1 TCAAAAAATTTCGTGTT
* * *
47201346 TC-TAAAGTTCTCGTATT
1 TCAAAAAATT-TCGTGTT
* *
47201363 TC-AAAATTTTCTGTATT
1 TCAAAAAATTTC-GTGTT
* *
47201380 TTAAAAAATTATTGTGTT
1 TCAAAAAATT-TCGTGTT
47201398 TCAAAA
1 TCAAAA
47201404 TTCTCGTGCT
Statistics
Matches: 208, Mismatches: 28, Indels: 60
0.70 0.09 0.20
Matches are distributed among these distances:
14 6 0.03
15 19 0.09
16 38 0.18
17 62 0.30
18 44 0.21
19 14 0.07
20 5 0.02
21 10 0.05
22 3 0.01
23 7 0.03
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.42
Consensus pattern (17 bp):
TCAAAAAATTTCGTGTT
Found at i:47201317 original size:21 final size:21
Alignment explanation
Indices: 47201291--47201335 Score: 65
Period size: 23 Copynumber: 2.1 Consensus size: 21
47201281 CCCGTGTTTC
47201291 AAAAAA-TTTCGTGTTTTCAAA
1 AAAAAAGTTTCGTGTTTT-AAA
47201312 AAAAAATGTTTCGTGTTTTAAA
1 AAAAAA-GTTTCGTGTTTTAAA
47201334 AA
1 AA
47201336 TTTTCGTGTT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 5 0.23
23 11 0.50
ACGTcount: A:0.44, C:0.07, G:0.11, T:0.38
Consensus pattern (21 bp):
AAAAAAGTTTCGTGTTTTAAA
Found at i:47201404 original size:35 final size:38
Alignment explanation
Indices: 47201356--47201439 Score: 102
Period size: 35 Copynumber: 2.3 Consensus size: 38
47201346 TCTAAAGTTC
* *
47201356 TCGTATTTCAAAATTTTC-TG-TATTTTAAAAAAT-TA
1 TCGTGTTTCAAAATTCTCGTGCTATTTTAAAAAATATA
* *
47201391 TTGTGTTTCAAAATTCTCGTGCTTTTTTAAAAAATATA
1 TCGTGTTTCAAAATTCTCGTGCTATTTTAAAAAATATA
*
47201429 TCGTGCTTCAA
1 TCGTGTTTCAA
47201440 TCGAATTACG
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
35 15 0.38
36 2 0.05
37 12 0.30
38 11 0.28
ACGTcount: A:0.32, C:0.12, G:0.10, T:0.46
Consensus pattern (38 bp):
TCGTGTTTCAAAATTCTCGTGCTATTTTAAAAAATATA
Found at i:47213476 original size:74 final size:73
Alignment explanation
Indices: 47213275--47213828 Score: 550
Period size: 74 Copynumber: 7.4 Consensus size: 73
47213265 CAAGAAATAT
* * **
47213275 TTTTCAATTTCTGTTTTTTAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTTAGG-CACAT
1 TTTTCAATTTCTGTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACA-
*
47213339 GCC-AAGGTA
65 -CCTGAGGTA
* *
47213348 TTTCTCAATTTCTGTTTTTCAAAAAAATTAACTCATAATGCGAGAGGTGGGTTGAGCCTCGGGTC
1 TTT-TCAATTTCTGTTTTT---AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC
47213413 ACATCCTGAGGTA
62 ACA-CCTGAGGTA
* * *
47213426 TTTTCAATTTCTATTTTTTAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCGGG-C-CAC
1 TTTTCAATTTCTGTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACAC
47213489 GCTGAGGTA
66 -CTGAGGTA
* *
47213498 TTTTCAATTTCTGCTTTTCAAAAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGTCA
1 TTTTCAATTTCTG-TTTT-TAAAA-ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA
47213563 CA-CTGAGGTA
63 CACCTGAGGTA
* * * *
47213573 TTTTCAATTTATGTTTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTC
1 TTTTCAATTTCTGTTTTT----AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTC
*
47213638 ACATGCTGAGGTA
62 ACA-CCTGAGGTA
* * *
47213651 TATTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGCTG
1 T-TTTCAATTTCTGTTTTT--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTC-GGGT-
* *
47213716 CACACC-AATGTA
61 CACACCTGAGGTA
* * * * * *
47213728 TTTTTAATTTCT-TTTTAAAAAAATCAATTCATAATGCGAGAGGTGAGTTGAGCCTTGAGTTATG
1 TTTTCAATTTCTGTTTT-TAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCA--
*
47213792 CGCC-GAGG-A
63 CACCTGAGGTA
*
47213801 TTTTTAATTTCTGTTTTTCAAAAATCAA
1 TTTTCAATTTCTGTTTTT-AAAAATCAA
47213829 TTATATTGCC
Statistics
Matches: 413, Mismatches: 42, Indels: 51
0.82 0.08 0.10
Matches are distributed among these distances:
71 1 0.00
72 23 0.06
73 23 0.06
74 112 0.27
75 59 0.14
76 52 0.13
77 100 0.24
78 24 0.06
79 19 0.05
ACGTcount: A:0.29, C:0.16, G:0.19, T:0.35
Consensus pattern (73 bp):
TTTTCAATTTCTGTTTTTAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCGGGTCACAC
CTGAGGTA
Found at i:47213779 original size:151 final size:148
Alignment explanation
Indices: 47213275--47213842 Score: 630
Period size: 151 Copynumber: 3.8 Consensus size: 148
47213265 CAAGAAATAT
* ** * * * *
47213275 TTTTCAATTTCTGTTTTTTAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTTAGG-CACAT
1 TTTTCAATTTCTATTTTAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCAGGTCACAC
* * * *
47213339 GCCAAGGTATTTCTCAATTTCTGTTTTTCAAAAAAATTAACTCATAATGCGAGAGGTGGGTTGAG
66 GCCGAGGTATTT-TCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTGAG
47213404 CCTCGGGTCACATCCTGAGGTA
129 CCTCGGGTCACA-CC-GAGGTA
** *
47213426 TTTTCAATTTCTATTTTTTAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTC-GGGC-CAC
1 TTTTCAATTTCTATTTTAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCAGGTCACAC
* *
47213489 GCTGAGGTATTTTCAATTTCTGCTTTTCAAAAATATCAACTCATATTGCGAGAGGTGAGTTGAGC
66 GCCGAGGTATTTTCAATTTCTGTTTTTCAAAAA-ATCAACTCATATTGCGAGAGGTGAGTTGAGC
*
47213554 CTCGGGTCACACTGAGGTA
130 CTCGGGTCACACCGAGGTA
* * *
47213573 TTTTCAATTTATGTTTTTCAAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGTC
1 TTTTCAATTTCT-ATTTT---AAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCAGGTC
* * *
47213638 ACATGCTGAGGTATATTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTT
62 ACACGCCGAGGTAT-TTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTT
* * *
47213703 GAGCCTCAGGCTGCACACCAATGTA
126 GAGCCTC-GGGT-CACACCGAGGTA
* * * * * *
47213728 TTTTTAATTTCT-TTTTAAAAAAATCAATTCATAATGCGAGAGGTGAGTTGAGCCT-TGAGTTAT
1 TTTTCAATTTCTATTTT-AAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCAG-GTCAC
* * * *
47213791 GCGCCGAGG-ATTTTTAATTTCTGTTTTTC-AAAAATCAA-TTATATTGCCAGAG
64 ACGCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAG
47213843 TGATGAGCTT
Statistics
Matches: 367, Mismatches: 38, Indels: 28
0.85 0.09 0.06
Matches are distributed among these distances:
147 29 0.08
148 19 0.05
149 72 0.20
150 17 0.05
151 134 0.37
152 3 0.01
153 50 0.14
154 24 0.07
155 19 0.05
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.35
Consensus pattern (148 bp):
TTTTCAATTTCTATTTTAAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTCAGGTCACAC
GCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCC
TCGGGTCACACCGAGGTA
Found at i:47214213 original size:30 final size:30
Alignment explanation
Indices: 47214179--47214290 Score: 135
Period size: 30 Copynumber: 3.9 Consensus size: 30
47214169 CAAAAAATAC
*
47214179 AAATTATATTTTAGCCCCTAAACTTTTTAA
1 AAATTACATTTTAGCCCCTAAACTTTTTAA
*
47214209 AAATTACATTTTAGCCCCTAAACTTTTCAA
1 AAATTACATTTTAGCCCCTAAACTTTTTAA
* *
47214239 AAATTACATTTT-GCCTCTAATAATTTTT--
1 AAATTACATTTTAGCCCCTAA-ACTTTTTAA
*
47214267 AAATTACA-TTTGGCCCC-AAACTTT
1 AAATTACATTTTAGCCCCTAAACTTT
47214291 CTAGAAATNN
Statistics
Matches: 73, Mismatches: 7, Indels: 8
0.83 0.08 0.09
Matches are distributed among these distances:
26 4 0.05
27 5 0.07
28 12 0.16
29 7 0.10
30 45 0.62
ACGTcount: A:0.35, C:0.20, G:0.04, T:0.41
Consensus pattern (30 bp):
AAATTACATTTTAGCCCCTAAACTTTTTAA
Found at i:47230012 original size:226 final size:223
Alignment explanation
Indices: 47229444--47230102 Score: 731
Period size: 226 Copynumber: 2.9 Consensus size: 223
47229434 TCTCAAGAAA
*** * *
47229444 TATTTTTCAATTTCTGTTTTTTTAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTT-AGGC
1 TATTTTT-AATTTCTGTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGAGTC
* * * *
47229508 ACATGCCAAGGTATTTCTCAATTTCTGTTTTTCAAAAAAATTAACTCATAATGCGAGAGGTGGGT
65 AC--GCCGAGGTATTT-TCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGT
* * * *
47229573 TGAGCCTCGGGTCACATCCTGAGGTATTTTCAATTTCTATTTTT-TAAAAATCAACTCATAATGC
126 TGAGCCTCAGGTCACATGCTGAGGTATTTTTAATTTCTATTTTTCAAAAAATCAACTCATAATGC
* * **
47229637 GAGAAGTGAGTTGAGCCTCGGGCCACGCTGAGG
191 GAGAAGTGAGTTGAGCCTCAGGCCACACCAAGG
* * * * *
47229670 TATTTTCAATTTCTGCTTTTCAAAAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTAATTTCTG-TTTT-AAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGAGT
* * * *
47229735 CACACTGAGGTATTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTG
64 CACGCCGAGGTATTTTCAATTTCTGTTTTTC-AAAAAATCAACTCATATTGCGAGAGGTGAGTTG
* *
47229800 AGCCTCAGGTCACATGCTGAGGTATATTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCG
128 AGCCTCAGGTCACATGCTGAGGTAT-TTTTAATTTCTATTTTTCAAAAAATCAACTCATAATGCG
* *
47229865 AGAGGTGAGTTGAGCCTCAGGCTGCACACCAATG
192 AGAAGTGAGTTGAGCCTCAGGC--CACACCAAGG
* *
47229899 TATTTTTAATTTCT-TTTTAAAAAAATCAATTCATAATGCGAGAGGTGAGTTGAGCCTTGAGTTA
1 TATTTTTAATTTCTGTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGAGTCA
* * * *
47229963 TGCGCCGAGGAATTTTTAATTTCTGTTTTTC-AAAAATCAACTTATATTGCCAGAGGTGAGTTGA
66 --CGCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGA
* * ***
47230027 GCCTTAGGTC-CTATG-TCGAGGTGTTTTTCAATTTCTATTTTTC-AATTGTCAACTCATAAT-C
129 GCCTCAGGTCAC-ATGCT-GAGGTATTTTT-AATTTCTATTTTTCAAAAAATCAACTCATAATGC
*
47230088 TGATAAGTGAGTTGA
191 -GAGAAGTGAGTTGA
47230103 ACTTAGGATC
Statistics
Matches: 366, Mismatches: 54, Indels: 27
0.82 0.12 0.06
Matches are distributed among these distances:
224 1 0.00
225 107 0.29
226 135 0.37
227 76 0.21
228 28 0.08
229 19 0.05
ACGTcount: A:0.29, C:0.16, G:0.20, T:0.36
Consensus pattern (223 bp):
TATTTTTAATTTCTGTTTTAAAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTTGAGTCA
CGCCGAGGTATTTTCAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGC
CTCAGGTCACATGCTGAGGTATTTTTAATTTCTATTTTTCAAAAAATCAACTCATAATGCGAGAA
GTGAGTTGAGCCTCAGGCCACACCAAGG
Found at i:47230047 original size:75 final size:75
Alignment explanation
Indices: 47229444--47230086 Score: 633
Period size: 75 Copynumber: 8.5 Consensus size: 75
47229434 TCTCAAGAAA
** * *
47229444 TATTTTTCAATTTCTGTTTTTTTAAAATCAACTCATAATGCAAGAGGTGAGTTGAGCCTTAGG-C
1 TATTTTT-AATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTC
*
47229508 ACATGCCAAGG
65 ACATGCCGAGG
* * * *
47229519 TATTTCTCAATTTCTGTTTTTCAAAAAAATTAACTCATAATGCGAGAGGTGGGTTGAGCCTCGGG
1 TATTT-TTAATTTCTGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGG
47229584 TCACAT-CCTGAGG
63 TCACATGCC-GAGG
* * * * *
47229597 TATTTTCAATTTCTATTTTTTAAAAATCAACTCATAATGCGAGAAGTGAGTTGAGCCTC-GGGC-
1 TATTTTTAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCA
* *
47229660 CACGCTGAGG
66 CATGCCGAGG
* * * *
47229670 TATTTTCAATTTCTGCTTTTCAAAAATATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCGGGT
1 TATTTTTAATTTCTGTTTTTC-AAAA-ATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGT
*
47229735 CACA--CTGAGG
64 CACATGCCGAGG
* * * *
47229745 TATTTTCAATTTATGTTTTTCAAAAAAATCAACTCATATTGCGAGAAGTGAGTTGAGCCTCAGGT
1 TATTTTTAATTTCTGTTTTTC--AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGT
*
47229810 CACATGCTGAGG
64 CACATGCCGAGG
*
47229822 TATATTTTAATTTCTGTTTTTCAAAAAATCAACTCATATTGCGAGAGGTGAGTTGAGCCTCAGGC
1 TAT-TTTTAATTTCTGTTTTTC-AAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGG-
* *
47229887 TGCACA--CCAATG
63 T-CACATGCCGAGG
** * * *
47229899 TATTTTTAATTTCT-TTTTAAAAAAATCAATTCATAATGCGAGAGGTGAGTTGAGCCT-TGAGTT
1 TATTTTTAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAG-GTC
***
47229962 ATGCGCCGAGG
65 ACATGCCGAGG
* * * * *
47229973 AATTTTTAATTTCTGTTTTTCAAAAATCAACTTATATTGCCAGAGGTGAGTTGAGCCTTAGGTC-
1 TATTTTTAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCA
*
47230037 CTATGTCGAGG
66 C-ATGCCGAGG
* * ***
47230048 TGTTTTTCAATTTCTATTTTTCAATTGTCAACTCATAAT
1 TATTTTT-AATTTCTGTTTTTCAAAAATCAACTCATAAT
47230087 CTGATAAGTG
Statistics
Matches: 481, Mismatches: 64, Indels: 45
0.82 0.11 0.08
Matches are distributed among these distances:
72 1 0.00
73 26 0.05
74 61 0.13
75 204 0.42
76 46 0.10
77 109 0.23
78 30 0.06
79 4 0.01
ACGTcount: A:0.28, C:0.16, G:0.19, T:0.36
Consensus pattern (75 bp):
TATTTTTAATTTCTGTTTTTCAAAAATCAACTCATAATGCGAGAGGTGAGTTGAGCCTCAGGTCA
CATGCCGAGG
Found at i:47230452 original size:30 final size:30
Alignment explanation
Indices: 47230418--47230548 Score: 158
Period size: 30 Copynumber: 4.4 Consensus size: 30
47230408 CAAAAAATAC
*
47230418 AAATTATATTTTAGCCCCTAAACTTTTTAA
1 AAATTACATTTTAGCCCCTAAACTTTTTAA
*
47230448 AAATTACATTTTAGCCCCTAAACTTTTCAA
1 AAATTACATTTTAGCCCCTAAACTTTTTAA
* * *
47230478 AAATTACATTTTGGCCTCTAATAATTTTT--
1 AAATTACATTTTAGCCCCTAA-ACTTTTTAA
** * *
47230507 AAATTACATTTGGGCCCCTAAACTTTCTAG
1 AAATTACATTTTAGCCCCTAAACTTTTTAA
47230537 AAATTACATTTT
1 AAATTACATTTT
47230549 GGCCACATAT
Statistics
Matches: 87, Mismatches: 11, Indels: 6
0.84 0.11 0.06
Matches are distributed among these distances:
28 5 0.06
29 19 0.22
30 58 0.67
31 5 0.06
ACGTcount: A:0.34, C:0.18, G:0.06, T:0.41
Consensus pattern (30 bp):
AAATTACATTTTAGCCCCTAAACTTTTTAA
Found at i:47230570 original size:59 final size:59
Alignment explanation
Indices: 47230441--47230555 Score: 153
Period size: 59 Copynumber: 1.9 Consensus size: 59
47230431 GCCCCTAAAC
* *
47230441 TTTTTAAAAATTACATTTTAGCCCCTAAACTTTTCAAAAATTACATTTTGGCCTCTAATAA
1 TTTTT-AAAATTACATTTGAGCCCCTAAACTTTTCAAAAATTACATTTTGGCCAC-AATAA
* *
47230502 TTTTT-AAATTACATTTGGGCCCCTAAAC-TTTCTAGAAATTACATTTTGGCCACA
1 TTTTTAAAATTACATTTGAGCCCCTAAACTTTTC-AAAAATTACATTTTGGCCACA
47230556 TATTTTCCTA
Statistics
Matches: 49, Mismatches: 4, Indels: 5
0.84 0.07 0.09
Matches are distributed among these distances:
58 5 0.10
59 39 0.80
61 5 0.10
ACGTcount: A:0.33, C:0.19, G:0.08, T:0.40
Consensus pattern (59 bp):
TTTTTAAAATTACATTTGAGCCCCTAAACTTTTCAAAAATTACATTTTGGCCACAATAA
Found at i:47231234 original size:15 final size:15
Alignment explanation
Indices: 47231214--47231265 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 15
47231204 CGCTCTGCCC
47231214 AAAGAAGAAAAAAAG
1 AAAGAAGAAAAAAAG
47231229 AAAGAAGAAAAAGAATG
1 AAAGAAGAAAAA-AA-G
*
47231246 AGAGAAAGAAAAAATAG
1 AAAG-AAGAAAAAA-AG
47231263 AAA
1 AAA
47231266 AAAAAGAAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
15 12 0.39
16 2 0.06
17 8 0.26
18 9 0.29
ACGTcount: A:0.75, C:0.00, G:0.21, T:0.04
Consensus pattern (15 bp):
AAAGAAGAAAAAAAG
Found at i:47231243 original size:21 final size:20
Alignment explanation
Indices: 47231218--47231274 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
47231208 CTGCCCAAAG
47231218 AAGAAAAAAAGAAAGAAGAAA
1 AAGAAAAAAAGAAAGAA-AAA
** *
47231239 AAGAATGAGAGAAAGAAAAA
1 AAGAAAAAAAGAAAGAAAAA
47231259 ATAGAAAAAAAAGAAA
1 A-AG-AAAAAAAGAAA
47231275 TAGAAAAGTC
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
20 4 0.14
21 16 0.57
22 8 0.29
ACGTcount: A:0.77, C:0.00, G:0.19, T:0.04
Consensus pattern (20 bp):
AAGAAAAAAAGAAAGAAAAA
Found at i:47231277 original size:15 final size:14
Alignment explanation
Indices: 47231221--47231281 Score: 63
Period size: 15 Copynumber: 4.2 Consensus size: 14
47231211 CCCAAAGAAG
47231221 AAAAAAAGAA-AGA
1 AAAAAAAGAATAGA
*
47231234 AGAAAAAGAATGAGA
1 AAAAAAAGAAT-AGA
47231249 GAAAGAAAA-AATAGA
1 -AAA-AAAAGAATAGA
47231264 AAAAAAAGAAATAGA
1 AAAAAAAG-AATAGA
47231279 AAA
1 AAA
47231282 GTCAGTTGAC
Statistics
Matches: 40, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
13 13 0.32
14 3 0.08
15 15 0.38
16 5 0.12
17 4 0.10
ACGTcount: A:0.77, C:0.00, G:0.18, T:0.05
Consensus pattern (14 bp):
AAAAAAAGAATAGA
Found at i:47231618 original size:13 final size:12
Alignment explanation
Indices: 47231599--47231630 Score: 55
Period size: 13 Copynumber: 2.6 Consensus size: 12
47231589 GCAGCAGGCC
47231599 AAAAAAAAGAAG
1 AAAAAAAAGAAG
47231611 AGAAAAAAAGAAG
1 A-AAAAAAAGAAG
47231624 AAAAAAA
1 AAAAAAA
47231631 TAGCAACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 7 0.37
13 12 0.63
ACGTcount: A:0.84, C:0.00, G:0.16, T:0.00
Consensus pattern (12 bp):
AAAAAAAAGAAG
Found at i:47231672 original size:29 final size:29
Alignment explanation
Indices: 47231599--47231695 Score: 79
Period size: 29 Copynumber: 3.2 Consensus size: 29
47231589 GCAGCAGGCC
*
47231599 AAAAA-AAAGAAGAGAAAAAAAGAAGAAAA
1 AAAAAGAAAAAAGA-AAAAAAAGAAGAAAA
* ** *
47231628 AAATAGCAACCAAAAAGAAAACGAAGAGGAAAA
1 AAAAAG--A--AAAAAGAAAAAAAAGAAGAAAA
* *
47231661 AAAAAGAAAAAATAAAAAAAAGAAGAAAG
1 AAAAAGAAAAAAGAAAAAAAAGAAGAAAA
47231690 AAAAAG
1 AAAAAG
47231696 GGGCCCAAGT
Statistics
Matches: 52, Mismatches: 11, Indels: 10
0.71 0.15 0.14
Matches are distributed among these distances:
29 27 0.52
31 1 0.02
32 1 0.02
33 17 0.33
34 6 0.12
ACGTcount: A:0.77, C:0.04, G:0.16, T:0.02
Consensus pattern (29 bp):
AAAAAGAAAAAAGAAAAAAAAGAAGAAAA
Found at i:47231677 original size:16 final size:16
Alignment explanation
Indices: 47231658--47231694 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
47231648 ACGAAGAGGA
*
47231658 AAAAAAAAGAAAAAAT
1 AAAAAAAAGAAAAAAG
*
47231674 AAAAAAAAGAAGAAAG
1 AAAAAAAAGAAAAAAG
47231690 AAAAA
1 AAAAA
47231695 GGGGCCCAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.86, C:0.00, G:0.11, T:0.03
Consensus pattern (16 bp):
AAAAAAAAGAAAAAAG
Found at i:47232043 original size:20 final size:20
Alignment explanation
Indices: 47232018--47232056 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
47232008 AAAAATATTC
*
47232018 AAAAATTTTCGTGTTTTAAA
1 AAAAATTCTCGTGTTTTAAA
47232038 AAAAATTCTCGTGTTTTAA
1 AAAAATTCTCGTGTTTTAA
47232057 TAGAATCATG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.38, C:0.08, G:0.10, T:0.44
Consensus pattern (20 bp):
AAAAATTCTCGTGTTTTAAA
Found at i:47232339 original size:18 final size:17
Alignment explanation
Indices: 47232307--47232367 Score: 63
Period size: 18 Copynumber: 3.5 Consensus size: 17
47232297 AAAATTTGTG
*
47232307 TTTCTAAAA-TTCTCGT
1 TTTCAAAAATTTCTCGT
47232323 ATTTCAAAAATTTCTCGT
1 -TTTCAAAAATTTCTCGT
47232341 GTTTCAAAAAATTTCGT-GT
1 -TTTC-AAAAATTTC-TCGT
47232360 TTTCAAAA
1 TTTCAAAA
47232368 TAAAAAAGTT
Statistics
Matches: 39, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
17 12 0.31
18 15 0.38
19 11 0.28
20 1 0.03
ACGTcount: A:0.33, C:0.15, G:0.08, T:0.44
Consensus pattern (17 bp):
TTTCAAAAATTTCTCGT
Found at i:47232357 original size:17 final size:17
Alignment explanation
Indices: 47232175--47232367 Score: 114
Period size: 17 Copynumber: 11.2 Consensus size: 17
47232165 TTTTAAAAAT
*
47232175 AAAAAAATTCGTGTTTC
1 AAAAAATTTCGTGTTTC
* *
47232192 AAAAAATTTCCATG-TTG
1 AAAAAATTT-CGTGTTTC
*
47232209 AAAAAAATTCGTGTTTTC
1 AAAAAATTTCGTG-TTTC
*
47232227 -AAAAATTTCATG--TC
1 AAAAAATTTCGTGTTTC
* * *
47232241 CAAAAATTCTTGTATTTC
1 AAAAAATT-TCGTGTTTC
* * *
47232259 ATAAATTTTTGTG-TT-
1 AAAAAATTTCGTGTTTC
47232274 AAAAAATTTTCCGTGTTTTC
1 AAAAAA-TTT-CGTG-TTTC
47232294 AACAAAATTT-GTGTTTC
1 AA-AAAATTTCGTGTTTC
* *
47232311 -TAAAATTCTCGTATTTC
1 AAAAAATT-TCGTGTTTC
*
47232328 AAAAATTTCTCGTGTTTC
1 AAAAAATT-TCGTGTTTC
47232346 AAAAAATTTCGTGTTTTC
1 AAAAAATTTCGTG-TTTC
47232364 AAAA
1 AAAA
47232368 TAAAAAAGTT
Statistics
Matches: 135, Mismatches: 24, Indels: 33
0.70 0.12 0.17
Matches are distributed among these distances:
14 2 0.01
15 17 0.13
16 11 0.08
17 50 0.37
18 44 0.33
19 2 0.01
20 5 0.04
21 4 0.03
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (17 bp):
AAAAAATTTCGTGTTTC
Found at i:47232368 original size:35 final size:34
Alignment explanation
Indices: 47232175--47232367 Score: 132
Period size: 36 Copynumber: 5.6 Consensus size: 34
47232165 TTTTAAAAAT
* * * *
47232175 AAAAAAATTCGTG-TTTCAAAAAATTTCCATGTTG
1 AAAAAATTTCGTGTTTTC-AAAAATTTTCGTGTTC
* *
47232209 AAAAAAATTCGTGTTTTCAAAAA-TTTCATG-TC
1 AAAAAATTTCGTGTTTTCAAAAATTTTCGTGTTC
* * * *
47232241 CAAAAA-TTCTTGTATTTCATAAATTTTTGTGTT-
1 AAAAAATTTCGTGT-TTTCAAAAATTTTCGTGTTC
*
47232274 AAAAAATTTTCCGTGTTTTCAACAAAATTT-GTGTTTC
1 AAAAAA-TTT-CGTGTTTTCAA-AAATTTTCGTG-TTC
* *
47232311 -TAAAATTCTCGT-ATTTCAAAAATTTCTCGTGTTTC
1 AAAAAATT-TCGTGTTTTCAAAAATTT-TCGTG-TTC
47232346 AAAAAATTTCGTGTTTTCAAAA
1 AAAAAATTTCGTGTTTTCAAAA
47232368 TAAAAAAGTT
Statistics
Matches: 128, Mismatches: 16, Indels: 28
0.74 0.09 0.16
Matches are distributed among these distances:
31 6 0.05
32 14 0.11
33 21 0.16
34 26 0.20
35 30 0.23
36 31 0.24
ACGTcount: A:0.36, C:0.12, G:0.10, T:0.42
Consensus pattern (34 bp):
AAAAAATTTCGTGTTTTCAAAAATTTTCGTGTTC
Found at i:47232390 original size:16 final size:16
Alignment explanation
Indices: 47232371--47232440 Score: 54
Period size: 17 Copynumber: 4.2 Consensus size: 16
47232361 TTCAAAATAA
47232371 AAAAGTTTCGTGTTTT
1 AAAAGTTTCGTGTTTT
*
47232387 AAAAATTTCCGTGTTTCT
1 AAAAGTTT-CGTGTTT-T
* *
47232405 -AAAGTTCTCGTATTTC
1 AAAAGTT-TCGTGTTTT
*
47232421 AAAATTTTC-TGTATTT
1 AAAAGTTTCGTGT-TTT
47232437 AAAA
1 AAAA
47232441 AAAATTATTG
Statistics
Matches: 42, Mismatches: 7, Indels: 10
0.71 0.12 0.17
Matches are distributed among these distances:
15 2 0.05
16 15 0.36
17 23 0.55
18 2 0.05
ACGTcount: A:0.31, C:0.11, G:0.11, T:0.46
Consensus pattern (16 bp):
AAAAGTTTCGTGTTTT
Found at i:47232390 original size:23 final size:23
Alignment explanation
Indices: 47232346--47232392 Score: 76
Period size: 24 Copynumber: 2.0 Consensus size: 23
47232336 CTCGTGTTTC
47232346 AAAAAATTTCGTGTTTTCAAAAT
1 AAAAAATTTCGTGTTTTCAAAAT
*
47232369 AAAAAAGTTTCGTGTTTTAAAAAT
1 AAAAAA-TTTCGTGTTTTCAAAAT
47232393 TTCCGTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 6 0.27
24 16 0.73
ACGTcount: A:0.45, C:0.06, G:0.11, T:0.38
Consensus pattern (23 bp):
AAAAAATTTCGTGTTTTCAAAAT
Found at i:47232407 original size:18 final size:18
Alignment explanation
Indices: 47232275--47232407 Score: 75
Period size: 17 Copynumber: 7.2 Consensus size: 18
47232265 TTTTGTGTTA
*
47232275 AAAAATTTTCCGTGTTTTCA
1 AAAAA-TTTCCGTG-TTTCT
47232295 ACAAAATTT--GTGTTTCT
1 A-AAAATTTCCGTGTTTCT
*
47232312 -AAAA-TTCTCGTATTTC-
1 AAAAATTTC-CGTGTTTCT
*
47232328 AAAAATTTCTCGTGTTTCA
1 AAAAATTTC-CGTGTTTCT
47232347 AAAAATTT-CGTGTTTTCAAAAT
1 AAAAATTTCCGTG-TTTC----T
47232369 AAAAAAGTTT-CGTGTTT-T
1 -AAAAA-TTTCCGTGTTTCT
47232387 AAAAATTTCCGTGTTTCT
1 AAAAATTTCCGTGTTTCT
47232405 AAA
1 AAA
47232408 GTTCTCGTAT
Statistics
Matches: 93, Mismatches: 4, Indels: 34
0.71 0.03 0.26
Matches are distributed among these distances:
14 2 0.02
15 4 0.04
16 3 0.03
17 30 0.32
18 23 0.25
19 8 0.09
20 4 0.04
21 4 0.04
23 8 0.09
24 7 0.08
ACGTcount: A:0.34, C:0.13, G:0.11, T:0.43
Consensus pattern (18 bp):
AAAAATTTCCGTGTTTCT
Found at i:47232413 original size:93 final size:94
Alignment explanation
Indices: 47232273--47232461 Score: 244
Period size: 93 Copynumber: 2.0 Consensus size: 94
47232263 ATTTTTGTGT
*
47232273 TAAAAAATTTTCCGTGTTTTCAACAAAATTTGTGTTTCTAAAATTCTCGTATTTCAAAAATTTCT
1 TAAAAAAGTTTCCGTGTTTT-AACAAAATTTGTGTTTCTAAAATTCTCGTATTTCAAAAATTTCT
* *
47232338 CGTGTTT-CAAAAAATT-TCGTGTTTTCAAAA
65 -GTATTTAAAAAAAATTATCGTG-TTTCAAAA
* *
47232368 TAAAAAAGTTT-CGTGTTTT-A-AAAATTTCCGTGTTTCTAAAGTTCTCGTATTTCAAAATTTTC
1 TAAAAAAGTTTCCGTGTTTTAACAAAATTT--GTGTTTCTAAAATTCTCGTATTTCAAAAATTTC
*
47232430 TGTATTTAAAAAAAATTATTGTGTTTCAAAA
64 TGTATTTAAAAAAAATTATCGTGTTTCAAAA
47232461 T
1 T
47232462 TCTCGTGTTT
Statistics
Matches: 84, Mismatches: 6, Indels: 10
0.84 0.06 0.10
Matches are distributed among these distances:
91 7 0.08
92 6 0.07
93 49 0.58
94 12 0.14
95 10 0.12
ACGTcount: A:0.34, C:0.12, G:0.10, T:0.44
Consensus pattern (94 bp):
TAAAAAAGTTTCCGTGTTTTAACAAAATTTGTGTTTCTAAAATTCTCGTATTTCAAAAATTTCTG
TATTTAAAAAAAATTATCGTGTTTCAAAA
Found at i:47239507 original size:23 final size:23
Alignment explanation
Indices: 47239481--47239526 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
47239471 AATAAAGGAG
*
47239481 ATAAACACAAAATTAGGATTTTC
1 ATAAACACAAAATCAGGATTTTC
*
47239504 ATAAACATAAAATCAGGATTTTC
1 ATAAACACAAAATCAGGATTTTC
47239527 GATGATTCTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.48, C:0.13, G:0.09, T:0.30
Consensus pattern (23 bp):
ATAAACACAAAATCAGGATTTTC
Found at i:47240558 original size:21 final size:21
Alignment explanation
Indices: 47240534--47240573 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
47240524 CAAAACAACG
47240534 TAGTTTT-ACCTTTTAACTTGA
1 TAGTTTTGA-CTTTTAACTTGA
47240555 TAGTTTTGACTTTTAACTT
1 TAGTTTTGACTTTTAACTT
47240574 TAGAAAAGGT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.94
22 1 0.06
ACGTcount: A:0.23, C:0.12, G:0.10, T:0.55
Consensus pattern (21 bp):
TAGTTTTGACTTTTAACTTGA
Found at i:47240953 original size:19 final size:20
Alignment explanation
Indices: 47240924--47240979 Score: 62
Period size: 19 Copynumber: 2.8 Consensus size: 20
47240914 AAAATATAAG
*
47240924 TTTTAGAATTTCTATAAA-TA
1 TTTTAGAATTT-TAAAAATTA
47240944 TTTT-GAATTTTAAAAATTA
1 TTTTAGAATTTTAAAAATTA
*
47240963 TTTTCAAAATTTTAAAA
1 TTTT-AGAATTTTAAAA
47240980 TTACTTTAAT
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
18 5 0.16
19 12 0.39
20 4 0.13
21 10 0.32
ACGTcount: A:0.43, C:0.04, G:0.04, T:0.50
Consensus pattern (20 bp):
TTTTAGAATTTTAAAAATTA
Found at i:47240995 original size:20 final size:20
Alignment explanation
Indices: 47240949--47240995 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
47240939 AAATATTTTG
* *
47240949 AATTTTAAAAATTATTTTCA
1 AATTTTTAAAATTACTTTCA
*
47240969 AAATTTTAAAATTACTTT-A
1 AATTTTTAAAATTACTTTCA
47240988 ATATTTTT
1 A-ATTTTT
47240996 TGTAATTTTT
Statistics
Matches: 22, Mismatches: 4, Indels: 2
0.79 0.14 0.07
Matches are distributed among these distances:
19 2 0.09
20 20 0.91
ACGTcount: A:0.43, C:0.04, G:0.00, T:0.53
Consensus pattern (20 bp):
AATTTTTAAAATTACTTTCA
Found at i:47241087 original size:9 final size:9
Alignment explanation
Indices: 47241073--47241098 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
47241063 TACTAATCTA
47241073 TTATTTGAG
1 TTATTTGAG
47241082 TTATTTGAG
1 TTATTTGAG
47241091 TTATTTGA
1 TTATTTGA
47241099 ATTGTAAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.19, T:0.58
Consensus pattern (9 bp):
TTATTTGAG
Found at i:47241183 original size:23 final size:23
Alignment explanation
Indices: 47241152--47241195 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
47241142 CTTATTCGAG
*
47241152 TTGACTCGAATAATTCGAATTAC
1 TTGACTCGAATAACTCGAATTAC
* *
47241175 TTGATTCGATTAACTCGAATT
1 TTGACTCGAATAACTCGAATT
47241196 TAAATTTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.39
Consensus pattern (23 bp):
TTGACTCGAATAACTCGAATTAC
Found at i:47241280 original size:76 final size:77
Alignment explanation
Indices: 47241196--47241350 Score: 285
Period size: 77 Copynumber: 2.0 Consensus size: 77
47241186 AACTCGAATT
*
47241196 TAAA-TTTTTTTCGATTTTTCAAATCGAATCGAATTTTACTCACCCTTATGAGAGGCCCAAAACC
1 TAAATTTTTTTTCGATTTTTCAAATCGAATCGAATTTTACTCACCCTTAGGAGAGGCCCAAAACC
47241260 CCTCATAATACA
66 CCTCATAATACA
*
47241272 TAAATTTTTTTTCGATTTTTCAAATCGAATCGAATTTTGCTCACCCTTAGGAGAGGCCCAAAACC
1 TAAATTTTTTTTCGATTTTTCAAATCGAATCGAATTTTACTCACCCTTAGGAGAGGCCCAAAACC
47241337 CCTCATAATACA
66 CCTCATAATACA
47241349 TA
1 TA
47241351 TAGGGGGCGA
Statistics
Matches: 76, Mismatches: 2, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
76 4 0.05
77 72 0.95
ACGTcount: A:0.32, C:0.23, G:0.10, T:0.34
Consensus pattern (77 bp):
TAAATTTTTTTTCGATTTTTCAAATCGAATCGAATTTTACTCACCCTTAGGAGAGGCCCAAAACC
CCTCATAATACA
Found at i:47243316 original size:53 final size:53
Alignment explanation
Indices: 47243234--47243336 Score: 145
Period size: 53 Copynumber: 1.9 Consensus size: 53
47243224 ATAAAAATGG
* *
47243234 AAATATTTCATTAAAGAACATATGAAAAGTTCTATTATATTCTTTCCAAACGA
1 AAATATTCCATTAAAGAACATAAGAAAAGTTCTATTATATTCTTTCCAAACGA
* * *
47243287 AAATATTCCATTAGAGAACATAA-AGAAAGTTTTATTATATTTTTTCCAAA
1 AAATATTCCATTAAAGAACATAAGA-AAAGTTCTATTATATTCTTTCCAAA
47243337 AGAATATTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
52 1 0.02
53 43 0.98
ACGTcount: A:0.44, C:0.12, G:0.08, T:0.37
Consensus pattern (53 bp):
AAATATTCCATTAAAGAACATAAGAAAAGTTCTATTATATTCTTTCCAAACGA
Found at i:47245612 original size:16 final size:16
Alignment explanation
Indices: 47245588--47245618 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
47245578 GGTATTTGGG
47245588 AAGAAAAAAATAAAAA
1 AAGAAAAAAATAAAAA
*
47245604 AAGATAAAAATAAAA
1 AAGAAAAAAATAAAA
47245619 TTTGATTAAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.84, C:0.00, G:0.06, T:0.10
Consensus pattern (16 bp):
AAGAAAAAAATAAAAA
Found at i:47258244 original size:21 final size:21
Alignment explanation
Indices: 47258220--47258266 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
47258210 GGGTCTACAA
* *
47258220 GCCCATGTGCATGCCACAAAC
1 GCCCATGTGAAGGCCACAAAC
* *
47258241 GCCCGTGTGAAGGCCACACAC
1 GCCCATGTGAAGGCCACAAAC
47258262 GCCCA
1 GCCCA
47258267 CATGGAGGGG
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.26, C:0.40, G:0.23, T:0.11
Consensus pattern (21 bp):
GCCCATGTGAAGGCCACAAAC
Found at i:47261907 original size:47 final size:47
Alignment explanation
Indices: 47261836--47262011 Score: 289
Period size: 47 Copynumber: 3.7 Consensus size: 47
47261826 CCCTTCGGGA
* * *
47261836 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
*
47261883 CCTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
47261930 TTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
47261977 CTTATCACATATATACACTTTCACATTCATCACAT
1 CTTATCACATATATACACTTTCACATTCATCACAT
47262012 GTAACACCCC
Statistics
Matches: 120, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 120 1.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.34
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:47261914 original size:25 final size:25
Alignment explanation
Indices: 47261886--47261964 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
47261876 ACTCGGCCCT
47261886 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
** * * *
47261911 ATCACAT-T-GGC-CATTCGGC-TTT
1 ATCACATATATACACTTTC-ACATTC
47261933 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
47261958 ATCACAT
1 ATCACAT
47261965 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 13 0.33
23 3 0.08
24 3 0.08
25 20 0.51
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:47269349 original size:40 final size:40
Alignment explanation
Indices: 47269251--47269593 Score: 449
Period size: 40 Copynumber: 8.6 Consensus size: 40
47269241 TCCTCGTTCA
* * * * * *
47269251 AATGCCTTCGGGACATAGCCCAGTTTTAGTAACTCACAC-
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* *
47269290 AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
47269330 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
47269370 AATTCCTTCGGGACTTAACCTGGATTTAACAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
47269410 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
47269450 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * *
47269490 AATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCACA
1 AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
* * * * * *
47269530 AAGGCCTTC-GGATCTTAATCCGGATATATTCACTTAGCAC-
1 AATGCCTTCGGGA-CTTAACCCGGATTTAATAAC-TCGCACG
* *
47269570 AAAGCCTTCGGGACTTAGCCCGGA
1 AATGCCTTCGGGACTTAACCCGGA
47269594 CAGCATTCAA
Statistics
Matches: 273, Mismatches: 27, Indels: 7
0.89 0.09 0.02
Matches are distributed among these distances:
39 36 0.13
40 229 0.84
41 8 0.03
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (40 bp):
AATGCCTTCGGGACTTAACCCGGATTTAATAACTCGCACG
Found at i:47271137 original size:47 final size:47
Alignment explanation
Indices: 47271079--47271266 Score: 358
Period size: 47 Copynumber: 4.0 Consensus size: 47
47271069 TGGGCTGTCA
*
47271079 CATCACATCGGCTATTAGGCCTTATCACATATATACACTTTCACATT
1 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
*
47271126 CATCACATCGGCCGTTAGGCCTTATCACATATATACACTTTCACATT
1 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
47271173 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
1 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
47271220 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
1 CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
47271267 TATTCAAATA
Statistics
Matches: 138, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 138 1.00
ACGTcount: A:0.29, C:0.29, G:0.09, T:0.32
Consensus pattern (47 bp):
CATCACATCGGCCATTAGGCCTTATCACATATATACACTTTCACATT
Found at i:47275121 original size:25 final size:25
Alignment explanation
Indices: 47275086--47275135 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
47275076 GGAATTCGCA
47275086 CACACACAGTGC-CTCTAATCATTCG
1 CACACACAGTGCTCT-TAATCATTCG
* *
47275111 CACACATAGTGCTCTTATTCATTCG
1 CACACACAGTGCTCTTAATCATTCG
47275136 TATTTGCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (25 bp):
CACACACAGTGCTCTTAATCATTCG
Found at i:47275355 original size:40 final size:40
Alignment explanation
Indices: 47275311--47275501 Score: 267
Period size: 40 Copynumber: 4.8 Consensus size: 40
47275301 CCAGCATGAT
* * * * *
47275311 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
** * *
47275351 TGCTCTTCGGGGTTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
47275391 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
47275431 TGCTCTTCGAGACTTAGCCC-GATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
47275470 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
47275502 CTCAATTCTC
Statistics
Matches: 133, Mismatches: 17, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
39 38 0.29
40 95 0.71
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:47275485 original size:79 final size:80
Alignment explanation
Indices: 47275311--47275501 Score: 267
Period size: 79 Copynumber: 2.4 Consensus size: 80
47275301 CCAGCATGAT
* * * * * * ** *
47275311 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAATGCTCTTCGGGGTTTAGCACGGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCACCGATA
*
47275376 TATCACTAGCACGAA
66 CATCACTAGCACGAA
* *
47275391 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGC-CCGATA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCACCGATA
47275455 CATCACTAGCACGAA
66 CATCACTAGCACGAA
47275470 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
47275502 CTCAATTCTC
Statistics
Matches: 97, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
79 49 0.51
80 48 0.49
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (80 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCACCGATA
CATCACTAGCACGAA
Found at i:47276975 original size:42 final size:44
Alignment explanation
Indices: 47276890--47277174 Score: 313
Period size: 42 Copynumber: 6.5 Consensus size: 44
47276880 CCTTCGGACG
* * * * * * *
47276890 TATCACATTTATACACTTTCACATCCATCACGTTGCCACTCGCCC
1 TATCACATATA-ACACTTTCACATTCATCACATCGCCATTAGCCT
* * *
47276935 TATCACATATACCAC-TTCACA-TCATCACATTGCCATTCGCCT
1 TATCACATATAACACTTTCACATTCATCACATCGCCATTAGCCT
*
47276977 TATCACATATATCACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATAACACTTTCACATTCATCACATC-GCCATTA-GCCT
*
47277023 TATCACATATAACA--TTCACA--CATCACATCGGC-TTAGCCT
1 TATCACATATAACACTTTCACATTCATCACATCGCCATTAGCCT
47277062 TATCACATATATACACTTTCACATTC-TCAC-TCGCC-TTAGCCT
1 TATCACATATA-ACACTTTCACATTCATCACATCGCCATTAGCCT
47277104 TATCACATATATAC-CTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATA-ACACTTTCACATTCATCACATC-GCCATTA-GCCT
47277150 TATCACATATATACACTTTCACATT
1 TATCACATATA-ACACTTTCACATT
47277175 TATTCAAATA
Statistics
Matches: 213, Mismatches: 12, Indels: 28
0.84 0.05 0.11
Matches are distributed among these distances:
39 15 0.07
40 6 0.03
41 13 0.06
42 75 0.35
43 18 0.08
44 22 0.10
45 19 0.09
46 35 0.16
47 10 0.05
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.33
Consensus pattern (44 bp):
TATCACATATAACACTTTCACATTCATCACATCGCCATTAGCCT
Found at i:47276983 original size:20 final size:20
Alignment explanation
Indices: 47276916--47276984 Score: 57
Period size: 20 Copynumber: 3.4 Consensus size: 20
47276906 TTTCACATCC
* * *
47276916 ATCACGTTGCCACTCGCCCT
1 ATCACATTGCCATTCGCCTT
* * * *
47276936 ATCACATATACCACTTCACATC
1 ATCACAT-TGCCA-TTCGCCTT
47276958 ATCACATTGCCATTCGCCTT
1 ATCACATTGCCATTCGCCTT
47276978 ATCACAT
1 ATCACAT
47276985 ATATCACTTT
Statistics
Matches: 36, Mismatches: 11, Indels: 4
0.71 0.22 0.08
Matches are distributed among these distances:
20 18 0.50
21 8 0.22
22 10 0.28
ACGTcount: A:0.26, C:0.38, G:0.07, T:0.29
Consensus pattern (20 bp):
ATCACATTGCCATTCGCCTT
Found at i:47277158 original size:88 final size:89
Alignment explanation
Indices: 47276890--47277174 Score: 351
Period size: 86 Copynumber: 3.3 Consensus size: 89
47276880 CCTTCGGACG
* * * * * * *
47276890 TATCACATTTATACACTTTCACATCCATCACGTTGCCACTCGCCCTATCAC--ATATACCACTTC
1 TATCACATATATACACTTTCACATTCATCACATCGCCATTAGCCTTATCACATATATACCA-TTC
* *
47276953 ACATCATCACAT-TGCCATTCGCCT
65 ACATCATCACATCGGCCATTAGCCT
47276977 TATCACATATAT-CACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA-A-CATT
1 TATCACATATATACACTTTCACATTCATCACATC-GCCATTA-GCCTTATCACATATATACCATT
47277039 CACA-CATCACATCGG-C-TTAGCCT
64 CACATCATCACATCGGCCATTAGCCT
*
47277062 TATCACATATATACACTTTCACATTC-TCAC-TCGCC-TTAGCCTTATCACATATATACCTTTCA
1 TATCACATATATACACTTTCACATTCATCACATCGCCATTAGCCTTATCACATATATACCATTCA
47277124 CATTCATCACATCGGCCATTAGGCCT
66 CA-TCATCACATCGGCCATTA-GCCT
47277150 TATCACATATATACACTTTCACATT
1 TATCACATATATACACTTTCACATT
47277175 TATTCAAATA
Statistics
Matches: 175, Mismatches: 10, Indels: 25
0.83 0.05 0.12
Matches are distributed among these distances:
81 15 0.09
82 4 0.02
83 10 0.06
84 2 0.01
85 33 0.19
86 41 0.23
87 26 0.15
88 40 0.23
89 1 0.01
90 3 0.02
ACGTcount: A:0.29, C:0.32, G:0.06, T:0.33
Consensus pattern (89 bp):
TATCACATATATACACTTTCACATTCATCACATCGCCATTAGCCTTATCACATATATACCATTCA
CATCATCACATCGGCCATTAGCCT
Found at i:47281009 original size:25 final size:25
Alignment explanation
Indices: 47280974--47281023 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
47280964 GGAATTCGCA
47280974 CACACACAGTGC-CTCTAATCATTCG
1 CACACACAGTGCTCT-TAATCATTCG
* *
47280999 CACACATAGTGCTCTTATTCATTCG
1 CACACACAGTGCTCTTAATCATTCG
47281024 TATTTGCACA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 20 0.91
26 2 0.09
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (25 bp):
CACACACAGTGCTCTTAATCATTCG
Found at i:47281243 original size:40 final size:40
Alignment explanation
Indices: 47281199--47281388 Score: 267
Period size: 40 Copynumber: 4.8 Consensus size: 40
47281189 CCAGCATGAT
* * * * *
47281199 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* * *
47281239 TGCTCTTCGGG-TTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
* *
47281278 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
47281318 TGCTCTTCGAGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
47281358 TGCTCTTC-GGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
47281389 CTCAATTCTC
Statistics
Matches: 134, Mismatches: 15, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
39 54 0.40
40 80 0.60
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:47281320 original size:79 final size:79
Alignment explanation
Indices: 47281199--47281388 Score: 265
Period size: 79 Copynumber: 2.4 Consensus size: 79
47281189 CCAGCATGAT
* * * * * **
47281199 TGCTCTTCGGGACCTAGCCCAGATATAACACCAGCACGAATGCTCTTCG-GGTTTAGCACGGATA
1 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCACGGATA
*
47281263 TATCACTAGCACGAA
65 CATCACTAGCACGAA
* *
47281278 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCCCGGATA
1 TGCTCTTCGG-ACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCACGGATA
47281343 CATCACTAGCACGAA
65 CATCACTAGCACGAA
47281358 TGCTCTTCGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGACTTAGCCCGGATACATCACT
47281389 CTCAATTCTC
Statistics
Matches: 98, Mismatches: 11, Indels: 4
0.87 0.10 0.04
Matches are distributed among these distances:
78 2 0.02
79 60 0.61
80 36 0.37
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.24
Consensus pattern (79 bp):
TGCTCTTCGGACTTAGCCCGGATACATCACTAGCACGAATGCTCTTCGAGACTTAGCACGGATAC
ATCACTAGCACGAA
Found at i:47282864 original size:47 final size:47
Alignment explanation
Indices: 47282795--47283101 Score: 515
Period size: 47 Copynumber: 6.5 Consensus size: 47
47282785 CTTCGGGACG
* * * * * * *
47282795 TATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCC
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
* *
47282842 TATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
47282889 TATCACATATATGCACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
*
47282936 TATCACATATATACACTTTCACATTCATCACATCGGCTATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
47282983 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
47283030 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
1 TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
47283077 TATCACATATATACACTTTCACATT
1 TATCACATATATACACTTTCACATT
47283102 TATTCAATAT
Statistics
Matches: 249, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
47 249 1.00
ACGTcount: A:0.29, C:0.30, G:0.08, T:0.33
Consensus pattern (47 bp):
TATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCT
Found at i:47282871 original size:25 final size:25
Alignment explanation
Indices: 47282843--47282921 Score: 76
Period size: 25 Copynumber: 3.3 Consensus size: 25
47282833 ACTCGGCCCT
*
47282843 ATCACATATATACACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
* * * *
47282868 ATCACAT-T-GGC-CATTCGGCCTT-
1 ATCACATATATGCACTTTC-ACATTC
47282890 ATCACATATATGCACTTTCACATTC
1 ATCACATATATGCACTTTCACATTC
47282915 ATCACAT
1 ATCACAT
47282922 CGGCCATTAG
Statistics
Matches: 40, Mismatches: 9, Indels: 10
0.68 0.15 0.17
Matches are distributed among these distances:
22 11 0.28
23 5 0.12
24 6 0.15
25 18 0.45
ACGTcount: A:0.30, C:0.29, G:0.06, T:0.34
Consensus pattern (25 bp):
ATCACATATATGCACTTTCACATTC
Found at i:47302490 original size:22 final size:22
Alignment explanation
Indices: 47302463--47302505 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
47302453 AACTAAGAAC
47302463 TTGTAGTACTCATAACGAGTCA
1 TTGTAGTACTCATAACGAGTCA
47302485 TTGTAGTACTCATAACGAGTC
1 TTGTAGTACTCATAACGAGTC
47302506 CTAAAAGCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.30, C:0.19, G:0.19, T:0.33
Consensus pattern (22 bp):
TTGTAGTACTCATAACGAGTCA
Found at i:47305598 original size:26 final size:26
Alignment explanation
Indices: 47305567--47305616 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
47305557 ACCTAAGTCC
*
47305567 ATAACAG-TAACAGATATCAGAATCAG
1 ATAACAGATAACACATAT-AGAATCAG
*
47305593 ATAACAGATAAGACATATAGAATC
1 ATAACAGATAACACATATAGAATC
47305617 CTACCCTCAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
26 13 0.62
27 8 0.38
ACGTcount: A:0.52, C:0.14, G:0.14, T:0.20
Consensus pattern (26 bp):
ATAACAGATAACACATATAGAATCAG
Found at i:47307658 original size:9 final size:9
Alignment explanation
Indices: 47307572--47307700 Score: 61
Period size: 9 Copynumber: 14.0 Consensus size: 9
47307562 CAAAATAATT
47307572 TTAAAAATTA
1 TTAAAAA-TA
*
47307582 TTAAAAGTA
1 TTAAAAATA
47307591 --AAAAATA
1 TTAAAAATA
*
47307598 -TAAAAAAA
1 TTAAAAATA
47307606 TTATAAAATTA
1 TTA-AAAA-TA
47307617 TTAAAAAT-
1 TTAAAAATA
*
47307625 TATAAAAA-C
1 T-TAAAAATA
* *
47307634 TTATAAATT
1 TTAAAAATA
47307643 TTAAAAATA
1 TTAAAAATA
*
47307652 TTAAAAATGC
1 TTAAAAAT-A
*
47307662 TTATAAAAAA
1 TTA-AAAATA
**
47307672 TTCTAAATAA
1 TTAAAAAT-A
47307682 TTATAAAATA
1 TTA-AAAATA
*
47307692 ATAAAAATA
1 TTAAAAATA
47307701 AAACATATAT
Statistics
Matches: 91, Mismatches: 17, Indels: 23
0.69 0.13 0.18
Matches are distributed among these distances:
7 6 0.07
8 12 0.13
9 36 0.40
10 25 0.27
11 12 0.13
ACGTcount: A:0.63, C:0.02, G:0.02, T:0.33
Consensus pattern (9 bp):
TTAAAAATA
Found at i:47307664 original size:28 final size:27
Alignment explanation
Indices: 47307589--47307668 Score: 83
Period size: 28 Copynumber: 2.9 Consensus size: 27
47307579 TTATTAAAAG
* *
47307589 TAAAAAATATAAAAAAATTATAAAATTAT
1 TAAAAATTAT-AAAAACTTAT-AAATTAT
47307618 TAAAAATTATAAAAACTTATAAATT-T
1 TAAAAATTATAAAAACTTATAAATTAT
47307644 TAAAAA-TATTAAAAATGCTTATAAA
1 TAAAAATTA-TAAAAA--CTTATAAA
47307669 AAATTCTAAA
Statistics
Matches: 46, Mismatches: 2, Indels: 7
0.84 0.04 0.13
Matches are distributed among these distances:
25 2 0.04
26 13 0.28
27 5 0.11
28 17 0.37
29 9 0.20
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (27 bp):
TAAAAATTATAAAAACTTATAAATTAT
Found at i:47308372 original size:24 final size:24
Alignment explanation
Indices: 47308345--47308404 Score: 68
Period size: 24 Copynumber: 2.5 Consensus size: 24
47308335 TAAATGATTT
* *
47308345 TTTTATAATTTCTAATTTTTTTAG-
1 TTTTATAATTTATAA-TTTATTAGA
47308369 TTTTATAATATTATAATTTATTAGA
1 TTTTATAAT-TTATAATTTATTAGA
*
47308394 TTTTAAAATTT
1 TTTTATAATTT
47308405 TTTATATTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
24 18 0.58
25 13 0.42
ACGTcount: A:0.33, C:0.02, G:0.03, T:0.62
Consensus pattern (24 bp):
TTTTATAATTTATAATTTATTAGA
Found at i:47308825 original size:17 final size:17
Alignment explanation
Indices: 47308803--47308837 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
47308793 TCTTTGGTTG
47308803 ATTGACCTTATCAAATC
1 ATTGACCTTATCAAATC
*
47308820 ATTGACCTTATTAAATC
1 ATTGACCTTATCAAATC
47308837 A
1 A
47308838 ATAATAATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.37, C:0.20, G:0.06, T:0.37
Consensus pattern (17 bp):
ATTGACCTTATCAAATC
Found at i:47315375 original size:22 final size:22
Alignment explanation
Indices: 47315350--47315393 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
47315340 AAAATATAAT
*
47315350 AGATATTAGTTGAATAGTTATG
1 AGATATTAGTTGAATAATTATG
47315372 AGATATTAGTTGAATAATTATG
1 AGATATTAGTTGAATAATTATG
47315394 TCTCTTTTAC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.00, G:0.20, T:0.41
Consensus pattern (22 bp):
AGATATTAGTTGAATAATTATG
Found at i:47317522 original size:27 final size:28
Alignment explanation
Indices: 47317476--47317528 Score: 72
Period size: 27 Copynumber: 1.9 Consensus size: 28
47317466 TTGTTTTAAT
*
47317476 TTTTAAAAAAAATTATTATATAAAATTA
1 TTTTAAAAAAAATTAATATATAAAATTA
* *
47317504 TTTTAAAAAATA-TAATATATCAAAT
1 TTTTAAAAAAAATTAATATATAAAAT
47317529 ACACTAAAGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 11 0.50
28 11 0.50
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (28 bp):
TTTTAAAAAAAATTAATATATAAAATTA
Found at i:47318117 original size:8 final size:9
Alignment explanation
Indices: 47318104--47318135 Score: 55
Period size: 9 Copynumber: 3.4 Consensus size: 9
47318094 ACCAAAAAAG
47318104 GAAAAAGAA
1 GAAAAAGAA
47318113 GAAAAAGAA
1 GAAAAAGAA
47318122 GAAAAAGAGA
1 GAAAAAGA-A
47318132 GAAA
1 GAAA
47318136 TCTATTTTTC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
9 17 0.77
10 5 0.23
ACGTcount: A:0.75, C:0.00, G:0.25, T:0.00
Consensus pattern (9 bp):
GAAAAAGAA
Found at i:47324284 original size:8 final size:8
Alignment explanation
Indices: 47324250--47324293 Score: 52
Period size: 8 Copynumber: 5.4 Consensus size: 8
47324240 GTTTAGATTC
47324250 AATAAAAA
1 AATAAAAA
* *
47324258 AAGAGAAA
1 AATAAAAA
*
47324266 AAGAAAGAA
1 AATAAA-AA
47324275 AATAAAAA
1 AATAAAAA
47324283 AATAAAAA
1 AATAAAAA
47324291 AAT
1 AAT
47324294 CAAAGTAAAA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
8 24 0.77
9 7 0.23
ACGTcount: A:0.82, C:0.00, G:0.09, T:0.09
Consensus pattern (8 bp):
AATAAAAA
Found at i:47326705 original size:88 final size:88
Alignment explanation
Indices: 47326506--47327170 Score: 951
Period size: 88 Copynumber: 7.6 Consensus size: 88
47326496 AACAGATCAG
*
47326506 TGAAGATAGCAGATCTTGCCTTCCTGTA-CTGACAGTGAAGCAGATCGAAGACACAAGCCTT-CC
1 TGAAGATAGCAGATCTTGCCTTCCTGCATC-GACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
*
47326569 TCCCTCGGTTGTAGTGGAGCAAGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
* * * *
47326593 TGAAGGTAGCAGATATTGCCTTCCTGCATCGACAGTGAAGTAGATTGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
47326658 CCCTCGGTTGTAGTGGAGTAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* ** * * *
47326681 TTAAGATAGCAGATCTTATCTTCCTGCATCAACGGCGAAGCAGATCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
47326746 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * *
47326769 TGAAGATAGCA-AGTCTTGCCTTCTTGCATCGACAGTGAAGTAGAACAAAGACACAAGCCTTGCC
1 TGAAGATAGCAGA-TCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
*
47326833 TCCCTCTGTTGTAGTGGAGCAGGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
* * * * *
47326857 TGAAGATAGCAGGTCTTGTCTTCCTACATCAACAGTGAAGCAGATCGAAGACACAAGCCTTACCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
47326922 CCCTCGGTTGTAGTGGAGCAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
* * * *
47326945 TGAAGATAGCAGATCTTGACTT-CTGGTATCGACAGTGAAGTAGATTGAAGACACAAGCCTTGCC
1 TGAAGATAGCAGATCTTGCCTTCCT-GCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCC
* *
47327009 TCTCTCGGTTGTAGTGGAGTAGGT
65 TCCCTCGGTTGTAGTGGAGCAGGT
* * * * *
47327033 TGAAGATAGCAGATCTAGCCTTTCTGCATCGACGGTGAAGTAGACCGAAGACACAAGCCTTGCCT
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
*
47327098 CCCTCGGTTGTAGTGGAGTAGGT
66 CCCTCGGTTGTAGTGGAGCAGGT
*
47327121 TGAAGATAGCAGGTCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAG
1 TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAG
47327171 CCAATGGTCC
Statistics
Matches: 510, Mismatches: 62, Indels: 11
0.87 0.11 0.02
Matches are distributed among these distances:
87 57 0.11
88 451 0.88
89 2 0.00
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.25
Consensus pattern (88 bp):
TGAAGATAGCAGATCTTGCCTTCCTGCATCGACAGTGAAGCAGATCGAAGACACAAGCCTTGCCT
CCCTCGGTTGTAGTGGAGCAGGT
Found at i:47330576 original size:13 final size:14
Alignment explanation
Indices: 47330547--47330576 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
47330537 TTTTTTCATT
47330547 AAAAATAATTTTAA
1 AAAAATAATTTTAA
*
47330561 AAAAATGATTTTAA
1 AAAAATAATTTTAA
47330575 AA
1 AA
47330577 TCTTTTTATC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.33
Consensus pattern (14 bp):
AAAAATAATTTTAA
Found at i:47330957 original size:34 final size:35
Alignment explanation
Indices: 47330917--47330989 Score: 114
Period size: 34 Copynumber: 2.1 Consensus size: 35
47330907 AAAGAAAATG
47330917 CAAACATATATCTTACTTTTT-TATA-AATAATAAA
1 CAAACATATATCTTACTTTTTATATATAA-AATAAA
*
47330951 CAAACATATATCTTACTTTTTATATATAAAATAAT
1 CAAACATATATCTTACTTTTTATATATAAAATAAA
47330986 CAAA
1 CAAA
47330990 TATAGGTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
34 21 0.58
35 13 0.36
36 2 0.06
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (35 bp):
CAAACATATATCTTACTTTTTATATATAAAATAAA
Found at i:47331000 original size:35 final size:34
Alignment explanation
Indices: 47330917--47331000 Score: 98
Period size: 34 Copynumber: 2.4 Consensus size: 34
47330907 AAAGAAAATG
*
47330917 CAAACATATATCTTACTTTTTTATAAATAATAAA
1 CAAACATAGATCTTACTTTTTTATAAATAATAAA
* *
47330951 CAAACATATATCTTACTTTTTATATATAA-AATAAT
1 CAAACATAGATCTTACTTTTT-TATA-AATAATAAA
* *
47330986 CAAATATAGGTCTTA
1 CAAACATAGATCTTA
47331001 ATAATTATAT
Statistics
Matches: 44, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
34 21 0.48
35 21 0.48
36 2 0.05
ACGTcount: A:0.45, C:0.12, G:0.02, T:0.40
Consensus pattern (34 bp):
CAAACATAGATCTTACTTTTTTATAAATAATAAA
Found at i:47331963 original size:19 final size:19
Alignment explanation
Indices: 47331939--47331976 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
47331929 ACTACTGTCA
*
47331939 CCCACCATAATCAAATTTG
1 CCCACCATAATAAAATTTG
*
47331958 CCCACCGTAATAAAATTTG
1 CCCACCATAATAAAATTTG
47331977 TTATTAACTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.37, C:0.29, G:0.08, T:0.26
Consensus pattern (19 bp):
CCCACCATAATAAAATTTG
Found at i:47334195 original size:33 final size:33
Alignment explanation
Indices: 47334057--47334200 Score: 87
Period size: 33 Copynumber: 4.3 Consensus size: 33
47334047 ATAACCCAGT
* * * *
47334057 TATGTTCTTATCATTAGAATGCCATAGCCCAGC
1 TATGGTCTTATCATCAGAATGCCATAGTCCAAC
* * *
47334090 TATGGTCTTAT-AT-ATAAATACTATCATGGTCCAAC
1 TATGGTCTTATCATCA-GAATGC---CATAGTCCAAC
* ** * * * **
47334125 CATGGTCTTATGTTCATAGTGCCATA-ACTCAGT
1 TATGGTCTTATCATCAGAATGCCATAGTC-CAAC
47334158 TATGGTCTTATCATCAGAATGCCATAGTCCAAC
1 TATGGTCTTATCATCAGAATGCCATAGTCCAAC
47334191 TATGGTCTTA
1 TATGGTCTTA
47334201 CAAATAAGCA
Statistics
Matches: 80, Mismatches: 23, Indels: 16
0.67 0.19 0.13
Matches are distributed among these distances:
31 1 0.01
32 7 0.09
33 48 0.60
34 1 0.01
35 18 0.22
36 4 0.05
37 1 0.01
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (33 bp):
TATGGTCTTATCATCAGAATGCCATAGTCCAAC
Found at i:47334219 original size:101 final size:101
Alignment explanation
Indices: 47334031--47334270 Score: 327
Period size: 101 Copynumber: 2.4 Consensus size: 101
47334021 AATTCATCAT
* * * * *
47334031 TTACATTCGTAGTGCCATAACCCAGTTATGTTCTTATCATTAGAATGCCATAGCCCAGCTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGT
* * * * *
47334096 CTTATATATAAATACTATCATGGTCCAACCATGGTC
66 CTTACAAATAAACACTACCATGGTCCAACCATGGTA
* * *
47334132 TTATGTTCATAGTGCCATAACTCAGTTATGGTCTTATCATCAGAATGCCATAGTCCAACTATGGT
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGT
* *
47334197 CTTACAAATAAGCACTGCCATGGTCCAACCATGGTA
66 CTTACAAATAAACACTACCATGGTCCAACCATGGTA
* *
47334233 TTACGTTCATAGTACCATAACCCAATTATGGTCTTATC
1 TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATC
47334271 CGTCAATTCA
Statistics
Matches: 120, Mismatches: 19, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
101 120 1.00
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.33
Consensus pattern (101 bp):
TTACGTTCATAGTGCCATAACCCAGTTATGGTCTTATCATCAGAATGCCATAGCCCAACTATGGT
CTTACAAATAAACACTACCATGGTCCAACCATGGTA
Found at i:47336191 original size:11 final size:11
Alignment explanation
Indices: 47336175--47336224 Score: 55
Period size: 11 Copynumber: 4.4 Consensus size: 11
47336165 TACTAAATAA
47336175 AATAATAAAAT
1 AATAATAAAAT
47336186 AATAATAAAAT
1 AATAATAAAAT
* *
47336197 ATCTCATTAAAAT
1 A-AT-AATAAAAT
*
47336210 ATTAATAAAAT
1 AATAATAAAAT
47336221 AATA
1 AATA
47336225 TTTATCTAAT
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
11 22 0.69
12 2 0.06
13 8 0.25
ACGTcount: A:0.64, C:0.04, G:0.00, T:0.32
Consensus pattern (11 bp):
AATAATAAAAT
Found at i:47336515 original size:30 final size:31
Alignment explanation
Indices: 47336463--47336521 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
47336453 CACCCTAAAA
*
47336463 ATATTTGCACTATTAGTCCTTCAAATTTTTC
1 ATATTTACACTATTAGTCCTTCAAATTTTTC
47336494 ATATTTACACT-TTA-TCCCTTCAAATTTT
1 ATATTTACACTATTAGT-CCTTCAAATTTT
47336522 GAGTATTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
29 1 0.04
30 15 0.58
31 10 0.38
ACGTcount: A:0.27, C:0.20, G:0.03, T:0.49
Consensus pattern (31 bp):
ATATTTACACTATTAGTCCTTCAAATTTTTC
Found at i:47344949 original size:14 final size:15
Alignment explanation
Indices: 47344930--47344958 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47344920 GGAAGGGAAA
47344930 TGAAGAGA-GAGAAG
1 TGAAGAGATGAGAAG
47344944 TGAAGAGATGAGAAG
1 TGAAGAGATGAGAAG
47344959 AGTTGAGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.41, T:0.10
Consensus pattern (15 bp):
TGAAGAGATGAGAAG
Found at i:47345517 original size:10 final size:10
Alignment explanation
Indices: 47345502--47345544 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
47345492 CTGTCGAAAG
47345502 TAATCAAAAT
1 TAATCAAAAT
47345512 TAATCAAAAT
1 TAATCAAAAT
*
47345522 TAATTATAAAAT
1 TAA-T-CAAAAT
*
47345534 TAATTAAAAT
1 TAATCAAAAT
47345544 T
1 T
47345545 CAGCATGTTA
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
10 20 0.67
11 2 0.07
12 8 0.27
ACGTcount: A:0.58, C:0.05, G:0.00, T:0.37
Consensus pattern (10 bp):
TAATCAAAAT
Found at i:47348442 original size:25 final size:24
Alignment explanation
Indices: 47348388--47348447 Score: 61
Period size: 25 Copynumber: 2.4 Consensus size: 24
47348378 TTAATTAGTA
47348388 TAAAATATT-AATAATTTAATAAAT
1 TAAAA-ATTAAATAATTTAATAAAT
47348412 TGAAAAATTAAATAA-TTAATTAAAAT
1 T-AAAAATTAAATAATTTAA-T-AAAT
*
47348438 TAAAATTTAA
1 TAAAAATTAA
47348448 GAGAAAATTT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
24 8 0.26
25 18 0.58
26 5 0.16
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (24 bp):
TAAAAATTAAATAATTTAATAAAT
Found at i:47351362 original size:12 final size:12
Alignment explanation
Indices: 47351317--47351363 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
47351307 TGTATGTATA
*
47351317 ATTGAATTGTAT
1 ATTGAATTGAAT
*
47351329 ATTGATTTGAAT
1 ATTGAATTGAAT
47351341 -TTGAAATTGAAT
1 ATTG-AATTGAAT
*
47351353 ATTGACTTGAA
1 ATTGAATTGAA
47351364 AAAAAAATGG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
11 3 0.10
12 23 0.79
13 3 0.10
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (12 bp):
ATTGAATTGAAT
Found at i:47356086 original size:50 final size:50
Alignment explanation
Indices: 47355985--47356218 Score: 256
Period size: 50 Copynumber: 4.6 Consensus size: 50
47355975 TGTGAGCCAG
*
47355985 TGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATGAGAGGTCCCA
** *
47356041 TGTAAGACCATGTCTGGGACATGGGGTTGGCACCGAGATGAGAGGTGCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* *
47356091 TGTAAGACCATGTCTGGGACATGACGTTGGCACC-AGGATGAGAGGTCCTC-
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGA-GATGAGAGGTCC-CA
* * * **
47356141 CGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATGAGAACTCCCA
1 TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
* * *
47356191 TGTAAGACCATATCTGGGATATGACATT
1 TGTAAGACCATGTCTGGGACATGGCATT
47356219 CGTAGTACAG
Statistics
Matches: 155, Mismatches: 19, Indels: 14
0.82 0.10 0.07
Matches are distributed among these distances:
49 2 0.01
50 117 0.75
51 2 0.01
53 3 0.02
55 1 0.01
56 30 0.19
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.23
Consensus pattern (50 bp):
TGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATGAGAGGTCCCA
Found at i:47356159 original size:100 final size:103
Alignment explanation
Indices: 47355980--47356218 Score: 288
Period size: 100 Copynumber: 2.3 Consensus size: 103
47355970 TGATATGTGA
* * *
47355980 GCCAGTGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATGAGAGGTCCCATGTA
1 GCCA-TGTAAGACCATGTCTGGGACATGACATTGGCACCA-TGAG--TATGAGAGGTCCCACGTA
** * **
47356045 AGACCATGTCTGGGACATGGGGTTGGCACCGAGATGAGAGGT
62 AGACCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACT
*
47356087 GCCATGTAAGACCATGTCTGGGACATGACGTTGGCACCA-G-G-ATGAGAGGTCCTC-CGTAAGA
1 GCCATGTAAGACCATGTCTGGGACATGACATTGGCACCATGAGTATGAGAGGTCC-CACGTAAGA
*
47356148 CCATGTCTGGGACATGGCATGGGCACCGATATGAGAACT
65 CCATGTCTGGGACATGGCATGGGCACCGAGATGAGAACT
* * *
47356187 CCCATGTAAGACCATATCTGGGATATGACATT
1 GCCATGTAAGACCATGTCTGGGACATGACATT
47356219 CGTAGTACAG
Statistics
Matches: 117, Mismatches: 14, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
100 78 0.67
101 1 0.01
103 1 0.01
104 1 0.01
106 32 0.27
107 4 0.03
ACGTcount: A:0.26, C:0.21, G:0.31, T:0.23
Consensus pattern (103 bp):
GCCATGTAAGACCATGTCTGGGACATGACATTGGCACCATGAGTATGAGAGGTCCCACGTAAGAC
CATGTCTGGGACATGGCATGGGCACCGAGATGAGAACT
Found at i:47357789 original size:23 final size:23
Alignment explanation
Indices: 47357751--47357801 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
47357741 GGGGGAGAAA
*
47357751 TGTAATATCCCAAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
47357774 TGTAATACCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
*
47357797 AGTAA
1 TGTAA
47357802 GAAAGTATGT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.43, C:0.22, G:0.08, T:0.27
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:47361689 original size:225 final size:224
Alignment explanation
Indices: 47361299--47361729 Score: 826
Period size: 225 Copynumber: 1.9 Consensus size: 224
47361289 GGTACAGTTA
*
47361299 GTAGATTTGATTGAGCGAGCCAAAATGGTAGAGCAAGTGTTAGGCCTTGACAAAAGACTGAAAGT
1 GTAGATTTGATTAAGCGAGCCAAAATGGTAGAGCAAGTGTTAGGCCTTGACAAAAGACTGAAAGT
*
47361364 GTCAGATTAACCGGGAAACGTGTGGGAACTACCAGCTCAAATCTACAGCCAAAAAGATCAAAGGA
66 GACAGATTAACCGGGAAACGTGTGGGAACTACCAGCTCAAATCTACAGCCAAAAAGATCAAAGGA
47361429 ATCTCAAGGTGGTTGGAGATCCAGTTTTAGATCAGACAGAGGTGGTAGAAGCAGGGGAAAACAGA
131 ATCTCAAGGTGGTTGGAGATCCAGTTTTAGATCAGACAGAGGTGGTAGAAGCAGGGGAAAACAGA
47361494 CGACAGTATCTCACCGGATTACTGAATTC
196 CGACAGTATCTCACCGGATTACTGAATTC
47361523 GTAGATTTGATTAAGCGAGCCAAAATGGTAGAGCAAGTGTTAGGCCTTGACAAAAAGACTGAAAG
1 GTAGATTTGATTAAGCGAGCCAAAATGGTAGAGCAAGTGTTAGGCCTTGAC-AAAAGACTGAAAG
47361588 TGACAGATTAACCGGGAAACGTGTGGGAACTACCAGCTCAAATCTACAGCCAAAAAGATCAAAGG
65 TGACAGATTAACCGGGAAACGTGTGGGAACTACCAGCTCAAATCTACAGCCAAAAAGATCAAAGG
47361653 AATCTCAAGGTGGTTGGAGATCCAGTTTTAGATCAGACAGAGGTGGTAGAAGCAGGGGAAAACAG
130 AATCTCAAGGTGGTTGGAGATCCAGTTTTAGATCAGACAGAGGTGGTAGAAGCAGGGGAAAACAG
*
47361718 ACGACGGTATCT
195 ACGACAGTATCT
47361730 ACTGGCAGTC
Statistics
Matches: 203, Mismatches: 3, Indels: 1
0.98 0.01 0.00
Matches are distributed among these distances:
224 50 0.25
225 153 0.75
ACGTcount: A:0.36, C:0.16, G:0.28, T:0.20
Consensus pattern (224 bp):
GTAGATTTGATTAAGCGAGCCAAAATGGTAGAGCAAGTGTTAGGCCTTGACAAAAGACTGAAAGT
GACAGATTAACCGGGAAACGTGTGGGAACTACCAGCTCAAATCTACAGCCAAAAAGATCAAAGGA
ATCTCAAGGTGGTTGGAGATCCAGTTTTAGATCAGACAGAGGTGGTAGAAGCAGGGGAAAACAGA
CGACAGTATCTCACCGGATTACTGAATTC
Found at i:47364185 original size:26 final size:26
Alignment explanation
Indices: 47364149--47364217 Score: 84
Period size: 26 Copynumber: 2.6 Consensus size: 26
47364139 TTTTTTATAT
* *
47364149 ATATTATTTATTTTAAGATGTTTTAC
1 ATATTATTTATTTAAAGATCTTTTAC
** *
47364175 ATATTATTTATTTAAATTTCTTTTAT
1 ATATTATTTATTTAAAGATCTTTTAC
47364201 ATATTATTTATTGTAAA
1 ATATTATTTATT-TAAA
47364218 CTATTATATA
Statistics
Matches: 37, Mismatches: 5, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
26 33 0.89
27 4 0.11
ACGTcount: A:0.33, C:0.03, G:0.04, T:0.59
Consensus pattern (26 bp):
ATATTATTTATTTAAAGATCTTTTAC
Found at i:47364227 original size:26 final size:24
Alignment explanation
Indices: 47364143--47364228 Score: 73
Period size: 26 Copynumber: 3.3 Consensus size: 24
47364133 TTTAATTTTT
*
47364143 TTATATATATTATTTATTTTAAGATG
1 TTATATATATTATTTA-TTTAA-ATA
* * *
47364169 TTTTACATATTATTTATTTAAATTTC
1 TTATATATATTATTTATTTAAA--TA
*
47364195 TTTTATATATTATTTATTGTAAACTA
1 TTATATATATTATTTATT-TAAA-TA
47364221 TTATATAT
1 TTATATAT
47364229 TCTTTCAAAA
Statistics
Matches: 50, Mismatches: 7, Indels: 6
0.79 0.11 0.10
Matches are distributed among these distances:
24 1 0.02
25 5 0.10
26 40 0.80
27 4 0.08
ACGTcount: A:0.34, C:0.03, G:0.03, T:0.59
Consensus pattern (24 bp):
TTATATATATTATTTATTTAAATA
Found at i:47364268 original size:24 final size:25
Alignment explanation
Indices: 47364222--47364273 Score: 63
Period size: 24 Copynumber: 2.1 Consensus size: 25
47364212 TGTAAACTAT
47364222 TATATATTCTTTCAAAAATTTTT-A
1 TATATATTCTTTCAAAAATTTTTGA
* *
47364246 TATATATT-TTTTAAAACTGTTTTGA
1 TATATATTCTTTCAAAAAT-TTTTGA
47364271 TAT
1 TAT
47364274 GTGTTTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
23 8 0.33
24 12 0.50
25 4 0.17
ACGTcount: A:0.35, C:0.06, G:0.04, T:0.56
Consensus pattern (25 bp):
TATATATTCTTTCAAAAATTTTTGA
Found at i:47365374 original size:19 final size:18
Alignment explanation
Indices: 47365333--47365376 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 18
47365323 TTCGTTGCAT
47365333 TTCATTTTTATAGTTTGC
1 TTCATTTTTATAGTTTGC
*
47365351 GTCATTTTGCTATA-TTTGC
1 TTCATTTT--TATAGTTTGC
47365370 TTCATTT
1 TTCATTT
47365377 GTTCAAGTAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 7 0.32
19 11 0.50
20 4 0.18
ACGTcount: A:0.16, C:0.14, G:0.11, T:0.59
Consensus pattern (18 bp):
TTCATTTTTATAGTTTGC
Found at i:47367626 original size:5 final size:5
Alignment explanation
Indices: 47367618--47367650 Score: 59
Period size: 5 Copynumber: 6.8 Consensus size: 5
47367608 TGAAATGAAA
47367618 AAAAG AAAAG AAAAG AAAAG AAAAG -AAAG AAAA
1 AAAAG AAAAG AAAAG AAAAG AAAAG AAAAG AAAA
47367651 TTAAAAAGGA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 4 0.15
5 23 0.85
ACGTcount: A:0.82, C:0.00, G:0.18, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:47367636 original size:15 final size:14
Alignment explanation
Indices: 47367609--47367650 Score: 59
Period size: 14 Copynumber: 3.0 Consensus size: 14
47367599 AAAAAAAGAT
*
47367609 GAAATGAAA-AAAA
1 GAAAAGAAAGAAAA
47367622 GAAAAGAAAAGAAAA
1 GAAAAG-AAAGAAAA
47367637 GAAAAGAAAGAAAA
1 GAAAAGAAAGAAAA
47367651 TTAAAAAGGA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
13 5 0.19
14 11 0.42
15 10 0.38
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (14 bp):
GAAAAGAAAGAAAA
Found at i:47368573 original size:50 final size:47
Alignment explanation
Indices: 47368498--47368699 Score: 145
Period size: 44 Copynumber: 4.4 Consensus size: 47
47368488 GATTCCATAC
47368498 CCCTGAAGTTGTAGTGG-G-ATGGATTGAAGACATCATGGGGAATCTTATCT
1 CCCTGAAGTTGTAGTGGAGCA--GATTGAAGACATCAT---GAATCTTATCT
** *
47368548 CCCTGAAGTTGTAGTGGAGCAGATTGAATCCA-C-T-AGTCTTATCT
1 CCCTGAAGTTGTAGTGGAGCAGATTGAAGACATCATGAATCTTATCT
* * * * * *
47368592 CCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGC--CAATCTTATCT
1 CCCTGAAGTTGTAGTGGAGCAGATTGAAGACATCATGAATCTTATCT
* * ** *
47368637 CCCTGAAGTTATAGTGGAGTAGATTGAAGGTA-C-T-AATCCTATCT
1 CCCTGAAGTTGTAGTGGAGCAGATTGAAGACATCATGAATCTTATCT
* *
47368681 TCCTGAAGTTGCAGTGGAG
1 CCCTGAAGTTGTAGTGGAG
47368700 TGGATTAAAA
Statistics
Matches: 127, Mismatches: 20, Indels: 16
0.78 0.12 0.10
Matches are distributed among these distances:
44 61 0.48
45 36 0.28
48 1 0.01
49 1 0.01
50 26 0.20
51 1 0.01
52 1 0.01
ACGTcount: A:0.27, C:0.18, G:0.26, T:0.29
Consensus pattern (47 bp):
CCCTGAAGTTGTAGTGGAGCAGATTGAAGACATCATGAATCTTATCT
Found at i:47368608 original size:44 final size:44
Alignment explanation
Indices: 47368538--47369523 Score: 291
Period size: 44 Copynumber: 21.5 Consensus size: 44
47368528 CATCATGGGG
* ***
47368538 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAATCCACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
* * * *
47368582 AGTCTTATCTCCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CT
** * *
47368627 AATCTTATCTCCCTGAAGTTATAGTGGAGTAGATTGAAGGTACT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
* * **
47368671 AATCCTATCTTCCTGAAGTTGCAGTGGAGTGGATT-AA-A-ACGAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAC--T
* * * *
47368714 GAACCTTATAC-CTCTGAAGTTGCAGTAGGTCAGATCAAATCTATTGAAGTTAC-
1 -AATCTTAT-CTCCCTGAAGTTGCAGT-GG--AG--C--A--GATTGAAGATACT
* * * * *
47368767 AAGTCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTAAAGATAGCG
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CT
* * * ** * * *
47368813 GATCTTATTTCTCTGAAGTTTTAGTGGAACAAATTGAAGCTACAAAT
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAC---T
* * * * * *
47368860 AACAGATCTTATCTCTCTGAAGTTGCAGTAGAGTAGA-T-CATAT-CA
1 ---A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
* * ** * * * *
47368905 AACCTTATCTCCCTGAAGTTGTAGTGGAATAGGTTAAAAATAAACC
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT--ACT
* *
47368951 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGACGGGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-----TACT
* * ** * *
47369000 AATCTTATCTCCTTAAAGTTATAGTGGAGCAGATTAAAG-TCACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACT
* * * *
47369044 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAGGTTGCAGATTCAAACAACG
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGA-T------ACT
* * * * * * **
47369095 AATCCTATAC-CTCTGAGGTTGCAGTAGG-TCGGATTAAATCTACCAT
1 AATCTTAT-CTCCCTGAAGTTGCAGT-GGAGCAGATTGAAGATA-C-T
* * * *
47369141 AGCAAGTTTTATCTCCCTGAAGTTGTAGTGGAGCAGACT-AA-A-ACC
1 ---AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
** * * * *** *
47369186 ACAAATTATCCCCCTGAAGTTGCAGTGGGGTAGGCCGAA-ATCACG
1 A-ATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGAT-ACT
* * * * *
47369231 AGTCTTATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATAGCA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CT
* * * * ** * *
47369276 AATATTATTTCCTTGAAATTGCAGTGGAATAGATT-AAGGCTACA
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAA-GATACT
* * * * *
47369320 AATTAGAATTGGATCTCCCTAAAGTTGCAAT-AAGGCAGATTGAAAATAC-
1 AA-T---CTT--ATCTCCCTGAAGTTGCAGTGGA-GCAGATTGAAGATACT
* * * *
47369369 AAGTCTTATCTCCCTGAAGTTGTAGTGGAGCAGACTAAAGATAGCA
1 AA-TCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CT
* * * * * *
47369415 AATCTTATCTCCCTGAAATTGCAGTAGAACATATTAAAGCTA-T
1 AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
* *
47369458 AACCTTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCG
1 AATC-TTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATA-CT
*
47369504 AATCTTATTTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTT
47369524 ATAGAAGAGC
Statistics
Matches: 680, Mismatches: 185, Indels: 153
0.67 0.18 0.15
Matches are distributed among these distances:
41 28 0.04
42 28 0.04
43 14 0.02
44 221 0.32
45 155 0.23
46 44 0.06
47 3 0.00
48 4 0.01
49 50 0.07
50 46 0.07
51 54 0.08
52 8 0.01
53 21 0.03
54 2 0.00
56 2 0.00
ACGTcount: A:0.32, C:0.18, G:0.21, T:0.29
Consensus pattern (44 bp):
AATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATACT
Found at i:47368654 original size:89 final size:89
Alignment explanation
Indices: 47368538--47369075 Score: 297
Period size: 89 Copynumber: 5.9 Consensus size: 89
47368528 CATCATGGGG
* * *
47368538 AATCTTATCTCCCTGAAGTTGTAGTGGAGCAGATTGAA-TCCACTAGTCTTATCTCCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTGAAGT-AACTAATCTTATCTCCCTGAAGTT
47368602 GCAGTGGAGCAGACTAAAGATAGCC
65 GCAGTGGAGCAGACTAAAGATAGCC
* * *
47368627 AATCTTATCTCCCTGAAGTTATAGTGGAGTAGATTGAAGGT-ACTAATCCTATCTTCCTGAAGTT
1 AATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTGAA-GTAACTAATCTTATCTCCCTGAAGTT
** *
47368691 GCAGTGGAGTGGATTAAAACGAT-G--
65 GCAGTGGAGCAGACT-AAA-GATAGCC
* * * * * *
47368715 AACCTTATAC-CTCTGAAGTTGCAGTAGGTCAGATCAAATCTATTGAAGTTAC-AAGTCTTATCT
1 AATCTTAT-CTCCCTGAAGTT--A-TA-GT-GGAGC--A--GATTGAAGTAACTAA-TCTTATCT
* * *
47368778 CCCTAAAGTTGCAGTGGAGTAGACTAAAGATAGCG
55 CCCTGAAGTTGCAGTGGAGCAGACTAAAGATAGCC
* * * * * * * *
47368813 GATCTTATTTCTCTGAAGTTTTAGTGGAACAAATTGAAGCTACAAATAACAGATCTTATCTCTCT
1 AATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTGAAG-T--AACT---A-ATCTTATCTCCCT
* * * * *
47368878 GAAGTTGCAGTAGAGTAGA-T---CATATCA
59 GAAGTTGCAGTGGAGCAGACTAAAGATAGCC
* * ** * * * * *
47368905 AACCTTATCTCCCTGAAGTTGTAGTGGAATAGGTTAAAAATAAACCAATCTTATCTCCTTGAAGT
1 AATCTTATCTCCCTGAAGTTATAGTGGAGCAGATT-GAAGT-AACTAATCTTATCTCCCTGAAGT
* * **
47368970 TGCAGTGGAGCAGATTGAAGACGGGCTAC
64 TGCAGTGGAGCAGACTAAAGA-TAGC--C
* * * * * *
47368999 AAATCTTATCTCCTTAAAGTTATAGTGGAGCAGATTAAAGTCACAAACCTTATCTCCCTGAAGTT
1 -AATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTGAAGTAACTAATCTTATCTCCCTGAAGTT
47369064 GCAGTGGAGCAG
65 GCAGTGGAGCAG
47369076 GTTGCAGATT
Statistics
Matches: 344, Mismatches: 68, Indels: 70
0.71 0.14 0.15
Matches are distributed among these distances:
87 28 0.08
88 18 0.05
89 76 0.22
90 6 0.02
91 10 0.03
92 36 0.10
93 39 0.11
94 6 0.02
95 35 0.10
96 37 0.11
97 37 0.11
98 16 0.05
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.30
Consensus pattern (89 bp):
AATCTTATCTCCCTGAAGTTATAGTGGAGCAGATTGAAGTAACTAATCTTATCTCCCTGAAGTTG
CAGTGGAGCAGACTAAAGATAGCC
Found at i:47369013 original size:49 final size:44
Alignment explanation
Indices: 47368951--47369075 Score: 151
Period size: 49 Copynumber: 2.7 Consensus size: 44
47368941 AAAATAAACC
47368951 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGACGGGCTACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATT-AA-A--GGC-ACA
* ** *
47369000 AATCTTATCTCCTTAAAGTTATAGTGGAGCAGATTAAAGTCACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGGCACA
* *
47369044 AACCTTATCTCCCTGAAGTTGCAGTGGAGCAG
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAG
47369076 GTTGCAGATT
Statistics
Matches: 67, Mismatches: 9, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
44 30 0.45
45 2 0.03
47 1 0.01
48 2 0.03
49 32 0.48
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.28
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTAAAGGCACA
Found at i:47369417 original size:95 final size:95
Alignment explanation
Indices: 47369237--47369417 Score: 204
Period size: 95 Copynumber: 1.9 Consensus size: 95
47369227 CACGAGTCTT
* * * *
47369237 ATCTCCCTAAAGTTGCAGTAGAGCAGACTGAAGATAGCAAATATTATTTCCTTGAAATTGCAGTG
1 ATCTCCCTAAAGTTGCAATAGAGCAGACTGAAAATAGCAAATATTATCTCCCTGAAATTGCAGTG
* * * *
47369302 GAATAGATTAAGGCTACAAATTAGAATTGG
66 GAACAGACTAAAGATACAAATTAGAATTGG
* * * * *
47369332 ATCTCCCTAAAGTTGCAATA-AGGCAGATTGAAAATA-CAAGTCTTATCTCCCTGAAGTTGTAGT
1 ATCTCCCTAAAGTTGCAATAGA-GCAGACTGAAAATAGCAAATATTATCTCCCTGAAATTGCAGT
*
47369395 GGAGCAGACTAAAGATAGCAAAT
65 GGAACAGACTAAAGATA-CAAAT
47369418 CTTATCTCCC
Statistics
Matches: 70, Mismatches: 14, Indels: 4
0.80 0.16 0.05
Matches are distributed among these distances:
94 34 0.49
95 36 0.51
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.27
Consensus pattern (95 bp):
ATCTCCCTAAAGTTGCAATAGAGCAGACTGAAAATAGCAAATATTATCTCCCTGAAATTGCAGTG
GAACAGACTAAAGATACAAATTAGAATTGG
Found at i:47370979 original size:26 final size:26
Alignment explanation
Indices: 47370950--47371052 Score: 111
Period size: 26 Copynumber: 4.0 Consensus size: 26
47370940 TTTTACCATA
*
47370950 ATTTATTTTAAGTTTTTATATATATT
1 ATTTATTTTAAATTTTTATATATATT
* *
47370976 ATTTATTTTAAGTTGTTT-TACATATT
1 ATTTATTTTAAATT-TTTATATATATT
*
47371002 ATTTA-TTTAAATTTCTTTTATATATT
1 ATTTATTTTAAATTT-TTATATATATT
* * *
47371028 ATTTATTGTAAACTATTATATATAT
1 ATTTATTTTAAATTTTTATATATAT
47371053 CTTTCAAATT
Statistics
Matches: 66, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
24 1 0.02
25 9 0.14
26 47 0.71
27 9 0.14
ACGTcount: A:0.32, C:0.03, G:0.04, T:0.61
Consensus pattern (26 bp):
ATTTATTTTAAATTTTTATATATATT
Found at i:47371132 original size:25 final size:24
Alignment explanation
Indices: 47371094--47371155 Score: 79
Period size: 26 Copynumber: 2.5 Consensus size: 24
47371084 TTTTGATATG
47371094 TTTTTTTATATTATTTATTTTAAA
1 TTTTTTTATATTATTTATTTTAAA
* **
47371118 TTTTTTTATTGTTATTTATTTTTAGT
1 TTTTTTTA-TATTATTTA-TTTTAAA
47371144 TTTTTTTATATT
1 TTTTTTTATATT
47371156 TTCTTTATTT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
24 8 0.25
25 11 0.34
26 13 0.41
ACGTcount: A:0.21, C:0.00, G:0.03, T:0.76
Consensus pattern (24 bp):
TTTTTTTATATTATTTATTTTAAA
Found at i:47371140 original size:26 final size:25
Alignment explanation
Indices: 47371094--47371186 Score: 82
Period size: 25 Copynumber: 3.7 Consensus size: 25
47371084 TTTTGATATG
47371094 TTTTTTTA-TATTATTTATTTTAAA
1 TTTTTTTATTATTATTTATTTTAAA
* **
47371118 TTTTTTTATTGTTATTTATTTTTAGT
1 TTTTTTTATTATTATTTA-TTTTAAA
* * *
47371144 TTTTTTTATATTTTCTTTATTTGAAA
1 TTTTTTTAT-TATTATTTATTTTAAA
*
47371170 -CTTTTTATTACTTATTT
1 TTTTTTTATTA-TTATTT
47371187 TGAATCGTTC
Statistics
Matches: 54, Mismatches: 11, Indels: 7
0.75 0.15 0.10
Matches are distributed among these distances:
24 9 0.17
25 20 0.37
26 18 0.33
27 7 0.13
ACGTcount: A:0.22, C:0.03, G:0.03, T:0.72
Consensus pattern (25 bp):
TTTTTTTATTATTATTTATTTTAAA
Found at i:47373484 original size:23 final size:23
Alignment explanation
Indices: 47373458--47373505 Score: 96
Period size: 23 Copynumber: 2.1 Consensus size: 23
47373448 ATATAATTGA
47373458 GTATGTTGGTAAATGTTTGACAT
1 GTATGTTGGTAAATGTTTGACAT
47373481 GTATGTTGGTAAATGTTTGACAT
1 GTATGTTGGTAAATGTTTGACAT
47373504 GT
1 GT
47373506 CAGCGAGTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.25, C:0.04, G:0.27, T:0.44
Consensus pattern (23 bp):
GTATGTTGGTAAATGTTTGACAT
Found at i:47374990 original size:28 final size:30
Alignment explanation
Indices: 47374959--47375014 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
47374949 TATGTTAATT
47374959 AATTATAAAATATATT-ATTAT-TTATTCA
1 AATTATAAAATATATTAATTATATTATTCA
* **
47374987 AATTGTAATTTATATTAATTATATTATT
1 AATTATAAAATATATTAATTATATTATT
47375015 ATATTATGGA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 13 0.57
29 5 0.22
30 5 0.22
ACGTcount: A:0.43, C:0.02, G:0.02, T:0.54
Consensus pattern (30 bp):
AATTATAAAATATATTAATTATATTATTCA
Found at i:47375970 original size:11 final size:11
Alignment explanation
Indices: 47375950--47375978 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
47375940 TCAAATAACT
47375950 TTTTAT-TAAA
1 TTTTATATAAA
47375960 TTTTATATAAA
1 TTTTATATAAA
47375971 TTTTATAT
1 TTTTATAT
47375979 TTAATAAATG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (11 bp):
TTTTATATAAA
Found at i:47383602 original size:14 final size:15
Alignment explanation
Indices: 47383583--47383611 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
47383573 GGAAGGGAAA
47383583 TGAAGAGA-GAGAAG
1 TGAAGAGATGAGAAG
47383597 TGAAGAGATGAGAAG
1 TGAAGAGATGAGAAG
47383612 AGTTGGGATG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.48, C:0.00, G:0.41, T:0.10
Consensus pattern (15 bp):
TGAAGAGATGAGAAG
Found at i:47386694 original size:20 final size:20
Alignment explanation
Indices: 47386669--47386710 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
47386659 ATCAAACAAA
*
47386669 AAAAATCACAAGATTTCAAC
1 AAAAATAACAAGATTTCAAC
*
47386689 AAAAATAACAATATTTCAAC
1 AAAAATAACAAGATTTCAAC
47386709 AA
1 AA
47386711 TGGAAAAACA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.60, C:0.17, G:0.02, T:0.21
Consensus pattern (20 bp):
AAAAATAACAAGATTTCAAC
Found at i:47403595 original size:25 final size:24
Alignment explanation
Indices: 47403558--47403606 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 24
47403548 CAATAAAAAT
47403558 GTATTCTACAAGTGCCTTTTGTGGC
1 GTATTCTACAAGTGCC-TTTGTGGC
**
47403583 GTATTCTGTAAGTGCCTTTGTGGC
1 GTATTCTACAAGTGCCTTTGTGGC
47403607 ATTTTTGGGA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 8 0.36
25 14 0.64
ACGTcount: A:0.14, C:0.18, G:0.27, T:0.41
Consensus pattern (24 bp):
GTATTCTACAAGTGCCTTTGTGGC
Found at i:47404976 original size:24 final size:24
Alignment explanation
Indices: 47404949--47404998 Score: 73
Period size: 24 Copynumber: 2.1 Consensus size: 24
47404939 CAAGACTTAC
47404949 TAAGGGGTCACATACTAAATCACA
1 TAAGGGGTCACATACTAAATCACA
* * *
47404973 TAAGGGTTCGCATATTAAATCACA
1 TAAGGGGTCACATACTAAATCACA
47404997 TA
1 TA
47404999 CTCAATTACA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.40, C:0.18, G:0.16, T:0.26
Consensus pattern (24 bp):
TAAGGGGTCACATACTAAATCACA
Found at i:47405017 original size:36 final size:36
Alignment explanation
Indices: 47404956--47405268 Score: 374
Period size: 36 Copynumber: 8.7 Consensus size: 36
47404946 TACTAAGGGG
* * *
47404956 TCACATACTAAATCACATAAGGGTTCGCATATTAAA
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* * * *
47404992 TCACATACTCAATTACATGATGGTTCACATGCTAAA
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* * * *
47405028 TTATATACTAAATTACATGAAGGTTTGCATACTAAA
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* * * *
47405064 ACACATACTGAATTACATAAAGGTTCGCATACTAAA
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* * *
47405100 TCACATATTAAATTACATGAGGGTTTGCATACTAAG
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* * *
47405136 TCATATACTAAATTACATGAGGGTTTGCATACTAAG
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* *
47405172 TCATATACTAAATTACATGAGGGTTTGCATACTAAA
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* * *
47405208 TCACATACGAAATTACATGAAGGTTCGCATCCTAAA
1 TCACATACTAAATTACATGAGGGTTCGCATACTAAA
* *
47405244 TCATATACTAAATTACTTGAGGGTT
1 TCACATACTAAATTACATGAGGGTT
47405269 TAACATAGTG
Statistics
Matches: 238, Mismatches: 39, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
36 238 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (36 bp):
TCACATACTAAATTACATGAGGGTTCGCATACTAAA
Found at i:47405100 original size:108 final size:108
Alignment explanation
Indices: 47404957--47405269 Score: 428
Period size: 108 Copynumber: 2.9 Consensus size: 108
47404947 ACTAAGGGGT
* * * * *
47404957 CACATACTAAATCACATAAGGGTTCGCATATTAAATCACATACTCAATTACATGATGGTTCACAT
1 CACATACTAAATTACATAAGGGTTCGCATACTAAATCACATACTAAATTACATGAAGGTTCGCAT
* * *
47405022 GCTAAATTATATACTAAATTACATGAAGGTTTGCATACTAAAA
66 ACTAAATCATATACTAAATTACATGAGGGTTTGCATACTAAAA
* * * * *
47405065 CACATACTGAATTACATAAAGGTTCGCATACTAAATCACATATTAAATTACATGAGGGTTTGCAT
1 CACATACTAAATTACATAAGGGTTCGCATACTAAATCACATACTAAATTACATGAAGGTTCGCAT
* **
47405130 ACTAAGTCATATACTAAATTACATGAGGGTTTGCATACTAAGT
66 ACTAAATCATATACTAAATTACATGAGGGTTTGCATACTAAAA
* * * *
47405173 CATATACTAAATTACATGAGGGTTTGCATACTAAATCACATACGAAATTACATGAAGGTTCGCAT
1 CACATACTAAATTACATAAGGGTTCGCATACTAAATCACATACTAAATTACATGAAGGTTCGCAT
* *
47405238 CCTAAATCATATACTAAATTACTTGAGGGTTT
66 ACTAAATCATATACTAAATTACATGAGGGTTT
47405270 AACATAGTGG
Statistics
Matches: 178, Mismatches: 27, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
108 178 1.00
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.31
Consensus pattern (108 bp):
CACATACTAAATTACATAAGGGTTCGCATACTAAATCACATACTAAATTACATGAAGGTTCGCAT
ACTAAATCATATACTAAATTACATGAGGGTTTGCATACTAAAA
Found at i:47405411 original size:24 final size:24
Alignment explanation
Indices: 47405375--47405431 Score: 96
Period size: 24 Copynumber: 2.4 Consensus size: 24
47405365 TATCATTTAC
*
47405375 TAAGGGTTTGCAGTACAGTTAGCA
1 TAAGGGTTCGCAGTACAGTTAGCA
47405399 TAAGGGTTCGCAGTACAGTTAGCA
1 TAAGGGTTCGCAGTACAGTTAGCA
*
47405423 TAAGCGTTC
1 TAAGGGTTC
47405432 ACATAATAGC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 31 1.00
ACGTcount: A:0.28, C:0.16, G:0.28, T:0.28
Consensus pattern (24 bp):
TAAGGGTTCGCAGTACAGTTAGCA
Found at i:47406729 original size:9 final size:10
Alignment explanation
Indices: 47406710--47406757 Score: 50
Period size: 9 Copynumber: 5.1 Consensus size: 10
47406700 TTTTTATTTC
47406710 TATATATATT
1 TATATATATT
47406720 TATA-ATATT
1 TATATATATT
47406729 T-TATAT-TT
1 TATATATATT
47406737 TATATAGTATT
1 TATATA-TATT
*
47406748 TTTATA-ATT
1 TATATATATT
47406757 T
1 T
47406758 TTATTTTATG
Statistics
Matches: 33, Mismatches: 1, Indels: 9
0.77 0.02 0.21
Matches are distributed among these distances:
8 5 0.15
9 16 0.48
10 5 0.15
11 7 0.21
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.62
Consensus pattern (10 bp):
TATATATATT
Found at i:47406730 original size:27 final size:27
Alignment explanation
Indices: 47406700--47406766 Score: 84
Period size: 27 Copynumber: 2.4 Consensus size: 27
47406690 TTTTTACATG
47406700 TTTTTATTTCTATATA-TATTTATAAT-A
1 TTTTTATTT-TATATAGTATTT-TAATAA
*
47406727 TTTTATATTTTATATAGTATTTTTATAA
1 TTTT-TATTTTATATAGTATTTTAATAA
47406755 TTTTTATTTTAT
1 TTTTTATTTTAT
47406767 GTAATTGATT
Statistics
Matches: 36, Mismatches: 1, Indels: 6
0.84 0.02 0.14
Matches are distributed among these distances:
27 21 0.58
28 15 0.42
ACGTcount: A:0.30, C:0.01, G:0.01, T:0.67
Consensus pattern (27 bp):
TTTTTATTTTATATAGTATTTTAATAA
Found at i:47406736 original size:28 final size:28
Alignment explanation
Indices: 47406700--47406873 Score: 80
Period size: 30 Copynumber: 6.2 Consensus size: 28
47406690 TTTTTACATG
*
47406700 TTTTTAT-TTCTATATA-TA-TTTATAA
1 TTTTTATATTTTATATAGTATTTTATAA
47406725 TATTTTATATTTTATATAGTATTTTTATAA
1 T-TTTTATATTTTATATAGTA-TTTTATAA
* * * *
47406755 -TTTT-TATTTTATGTAATTGATTTTTTTTA
1 TTTTTATATTTTATAT-AGT-A-TTTTATAA
* * * * *
47406784 TTTTTTTATTTTAATTTAATAATTTTACAT
1 TTTTTATATTTT-ATATAGT-ATTTTATAA
*
47406814 TTTTTATA-TTTATATAATATTTATATAA
1 TTTTTATATTTTATATAGTATTT-TATAA
47406842 GTTTTTAATATATTT-TATA-TA--TTATAA
1 -TTTTT-ATAT-TTTATATAGTATTTTATAA
47406869 TTTTT
1 TTTTT
47406874 TAAATATTCT
Statistics
Matches: 118, Mismatches: 16, Indels: 29
0.72 0.10 0.18
Matches are distributed among these distances:
25 1 0.01
26 11 0.09
27 26 0.22
28 18 0.15
29 16 0.14
30 27 0.23
31 13 0.11
32 6 0.05
ACGTcount: A:0.31, C:0.01, G:0.02, T:0.66
Consensus pattern (28 bp):
TTTTTATATTTTATATAGTATTTTATAA
Found at i:47406809 original size:31 final size:32
Alignment explanation
Indices: 47406746--47406809 Score: 78
Period size: 31 Copynumber: 2.0 Consensus size: 32
47406736 TTATATAGTA
*
47406746 TTTTTATAATTTTTATTTTATGTAATTGATTT
1 TTTTTATAATTTTTATTTTATGTAATTAATTT
* *
47406778 TTTTTAT-TTTTTTATTTTAATTTAA-TAATTT
1 TTTTTATAATTTTTATTTT-ATGTAATTAATTT
47406809 T
1 T
47406810 ACATTTTTTA
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.25, C:0.00, G:0.03, T:0.72
Consensus pattern (32 bp):
TTTTTATAATTTTTATTTTATGTAATTAATTT
Found at i:47406835 original size:27 final size:27
Alignment explanation
Indices: 47406685--47406835 Score: 80
Period size: 29 Copynumber: 5.4 Consensus size: 27
47406675 AATAAATCTT
47406685 TATAAT-TTTTACATGTTTTTAT-TTCTA
1 TATAATATTTTACAT-TTTTTATATT-TA
*
47406712 TAT-ATATTTATA-ATATTTTATATTTTA
1 TATAATATTT-TACATTTTTTATA-TTTA
* * *
47406739 TATAGTATTTTTATAATTTTTAT-TTTA
1 TATAATA-TTTTACATTTTTTATATTTA
* **
47406766 TGTAATTGATTTTTTTTATTTTTT-TATTTTAA
1 TATAA-T-A--TTTTACATTTTTTATA-TTT-A
*
47406798 TTTAATAATTTTACATTTTTTATATTTA
1 TATAAT-ATTTTACATTTTTTATATTTA
47406826 TATAATATTT
1 TATAATATTT
47406836 ATATAAGTTT
Statistics
Matches: 97, Mismatches: 13, Indels: 28
0.70 0.09 0.20
Matches are distributed among these distances:
26 8 0.08
27 24 0.25
28 15 0.15
29 26 0.27
30 14 0.14
31 5 0.05
32 5 0.05
ACGTcount: A:0.30, C:0.02, G:0.03, T:0.66
Consensus pattern (27 bp):
TATAATATTTTACATTTTTTATATTTA
Found at i:47406853 original size:26 final size:27
Alignment explanation
Indices: 47406824--47406880 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 27
47406814 TTTTTATATT
*
47406824 TATATAATATTTA-TATAAGTTTTTAA
1 TATATAATATATATTATAAGTTTTTAA
** *
47406850 TATATTTTATATATTATAATTTTTTAA
1 TATATAATATATATTATAAGTTTTTAA
47406877 -ATAT
1 TATAT
47406881 TCTTTAATTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
26 14 0.54
27 12 0.46
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.58
Consensus pattern (27 bp):
TATATAATATATATTATAAGTTTTTAA
Found at i:47406895 original size:27 final size:27
Alignment explanation
Indices: 47406812--47406896 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
47406802 ATAATTTTAC
* * *
47406812 ATTTTTTATATTTATATAATATTTATATA
1 ATTTTTTA-ATATATTTTATATTTA-ATA
*
47406841 AGTTTTTAATATATTTTATATATT-ATA
1 ATTTTTTAATATATTTTATAT-TTAATA
47406868 ATTTTTTAA-ATATTCTT-TAATTTAATA
1 ATTTTTTAATATATT-TTAT-ATTTAATA
47406895 AT
1 AT
47406897 ATATAATAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 10
0.76 0.08 0.16
Matches are distributed among these distances:
26 8 0.17
27 20 0.43
28 10 0.21
29 9 0.19
ACGTcount: A:0.38, C:0.01, G:0.01, T:0.60
Consensus pattern (27 bp):
ATTTTTTAATATATTTTATATTTAATA
Found at i:47419287 original size:25 final size:25
Alignment explanation
Indices: 47419259--47419308 Score: 100
Period size: 25 Copynumber: 2.0 Consensus size: 25
47419249 TTGATAAGTT
47419259 AGTTGAATTATACATTTATGAGATC
1 AGTTGAATTATACATTTATGAGATC
47419284 AGTTGAATTATACATTTATGAGATC
1 AGTTGAATTATACATTTATGAGATC
47419309 GTGCCTTTGC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.36, C:0.08, G:0.16, T:0.40
Consensus pattern (25 bp):
AGTTGAATTATACATTTATGAGATC
Found at i:47439057 original size:14 final size:15
Alignment explanation
Indices: 47439040--47439068 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
47439030 GAGTATGGTA
47439040 AAATA-TTAAAAAAT
1 AAATATTTAAAAAAT
47439054 AAATATTTAAAAAAT
1 AAATATTTAAAAAAT
47439069 TACTAATAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 5 0.36
15 9 0.64
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATATTTAAAAAAT
Found at i:47439498 original size:13 final size:13
Alignment explanation
Indices: 47439480--47439504 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
47439470 TCATAATATA
47439480 AAATAAAATAAAT
1 AAATAAAATAAAT
47439493 AAATAAAATAAA
1 AAATAAAATAAA
47439505 AAGTATAACT
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:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (13 bp):
AAATAAAATAAAT
Found at i:47440645 original size:37 final size:37
Alignment explanation
Indices: 47440603--47440713 Score: 118
Period size: 37 Copynumber: 3.0 Consensus size: 37
47440593 TTCAAATAAG
47440603 AAATATTATTTTGAGTTAACTAAACAATTGAAAAAAT
1 AAATATTATTTTGAGTTAACTAAACAATTGAAAAAAT
* * * * * * * * *
47440640 TAATA-TATTTT-AATTGTATTCAATAATTCAAATAAG
1 AAATATTATTTTGAGTT-AACTAAACAATTGAAAAAAT
47440676 AAATATTATTTTGAGTTAACTAAACAATTGAAAAAAT
1 AAATATTATTTTGAGTTAACTAAACAATTGAAAAAAT
47440713 A
1 A
47440714 TTAAACATAA
Statistics
Matches: 53, Mismatches: 18, Indels: 6
0.69 0.23 0.08
Matches are distributed among these distances:
35 3 0.06
36 23 0.43
37 24 0.45
38 3 0.06
ACGTcount: A:0.50, C:0.05, G:0.07, T:0.38
Consensus pattern (37 bp):
AAATATTATTTTGAGTTAACTAAACAATTGAAAAAAT
Found at i:47440650 original size:73 final size:73
Alignment explanation
Indices: 47440563--47440712 Score: 300
Period size: 73 Copynumber: 2.1 Consensus size: 73
47440553 TTGGATTGAT
47440563 AAATTAATATATTTTAATTGTATTCAATAATTCAAATAAGAAATATTATTTTGAGTTAACTAAAC
1 AAATTAATATATTTTAATTGTATTCAATAATTCAAATAAGAAATATTATTTTGAGTTAACTAAAC
47440628 AATTGAAA
66 AATTGAAA
47440636 AAATTAATATATTTTAATTGTATTCAATAATTCAAATAAGAAATATTATTTTGAGTTAACTAAAC
1 AAATTAATATATTTTAATTGTATTCAATAATTCAAATAAGAAATATTATTTTGAGTTAACTAAAC
47440701 AATTGAAA
66 AATTGAAA
47440709 AAAT
1 AAAT
47440713 ATTAAACATA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
73 77 1.00
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (73 bp):
AAATTAATATATTTTAATTGTATTCAATAATTCAAATAAGAAATATTATTTTGAGTTAACTAAAC
AATTGAAA
Found at i:47440681 original size:36 final size:37
Alignment explanation
Indices: 47440568--47440687 Score: 129
Period size: 37 Copynumber: 3.3 Consensus size: 37
47440558 TTGATAAATT
47440568 AATA-TATTTTAATTGTATTCAATAATTCAAATAAGA
1 AATATTATTTTAATTGTATTCAATAATTCAAATAAGA
* * * * * * * **
47440604 AATATTATTTTGAGTT-AACTAAACAATTGAAAAAATT
1 AATATTATTTT-AATTGTATTCAATAATTCAAATAAGA
47440641 AATA-TATTTTAATTGTATTCAATAATTCAAATAAGA
1 AATATTATTTTAATTGTATTCAATAATTCAAATAAGA
47440677 AATATTATTTT
1 AATATTATTTT
47440688 GAGTTAACTA
Statistics
Matches: 62, Mismatches: 18, Indels: 7
0.71 0.21 0.08
Matches are distributed among these distances:
35 3 0.05
36 27 0.44
37 29 0.47
38 3 0.05
ACGTcount: A:0.47, C:0.05, G:0.06, T:0.42
Consensus pattern (37 bp):
AATATTATTTTAATTGTATTCAATAATTCAAATAAGA
Found at i:47440714 original size:33 final size:33
Alignment explanation
Indices: 47440603--47440716 Score: 97
Period size: 33 Copynumber: 3.2 Consensus size: 33
47440593 TTCAAATAAG
47440603 AAATATTATTTTGAGTTAACTAAACAATTGAAA
1 AAATATTATTTTGAGTTAACTAAACAATTGAAA
* * * *
47440636 AAATTAATATATTTTAATTGTATTCAA-TAATTCAAAT-AAG
1 AAA-T-AT-TATTTTGA--G--TT-AACTAA-ACAATTGAAA
47440676 AAATATTATTTTGAGTTAACTAAACAATTGAAA
1 AAATATTATTTTGAGTTAACTAAACAATTGAAA
47440709 AAATATTA
1 AAATATTA
47440717 AACATAAACA
Statistics
Matches: 62, Mismatches: 8, Indels: 22
0.67 0.09 0.24
Matches are distributed among these distances:
32 6 0.10
33 18 0.29
34 1 0.02
35 3 0.05
36 7 0.11
37 7 0.11
38 3 0.05
39 1 0.02
40 10 0.16
41 6 0.10
ACGTcount: A:0.49, C:0.05, G:0.07, T:0.39
Consensus pattern (33 bp):
AAATATTATTTTGAGTTAACTAAACAATTGAAA
Found at i:47446507 original size:30 final size:29
Alignment explanation
Indices: 47446473--47446639 Score: 126
Period size: 29 Copynumber: 5.7 Consensus size: 29
47446463 AACGTCGATC
*
47446473 ATCGACAAATGAAAAGGGATAGCTTCGGCT
1 ATCGA-AAATGAAAAGGGATAGCTTCGACT
* *
47446503 ATCGAATACGAAAAGGGATAGCTTCGACT
1 ATCGAAAATGAAAAGGGATAGCTTCGACT
** * * * *
47446532 ATCGATTATGAAAAGAGAT-GGTGACGACC
1 ATCGAAAATGAAAAGGGATAGCT-TCGACT
* *
47446561 ATC-AACAATGAAAAGGGATGGCTTTGACT
1 ATCGAA-AATGAAAAGGGATAGCTTCGACT
* *
47446590 ATC-AAACTATGAAAAGGGATAGCTTTGGCT
1 ATCGAAA--ATGAAAAGGGATAGCTTCGACT
47446620 ATC-AAATTATGAAAAGGGAT
1 ATCGAAA--ATGAAAAGGGAT
47446640 GGTGACGGCC
Statistics
Matches: 113, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
28 4 0.04
29 63 0.56
30 46 0.41
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.23
Consensus pattern (29 bp):
ATCGAAAATGAAAAGGGATAGCTTCGACT
Found at i:47446519 original size:29 final size:30
Alignment explanation
Indices: 47446481--47446731 Score: 188
Period size: 30 Copynumber: 8.5 Consensus size: 30
47446471 TCATCGACAA
47446481 ATGAAAAGGGATAGCTTCGGCTATCGAA-T
1 ATGAAAAGGGATAGCTTCGGCTATCGAACT
* * *
47446510 ACGAAAAGGGATAGCTTCGACTATCG-ATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAACT
* * * * * *
47446539 ATGAAAAGAGAT-GGTGACGACCATC-AACA
1 ATGAAAAGGGATAGCT-TCGGCTATCGAACT
* * * *
47446568 ATGAAAAGGGATGGCTTTGACTATCAAACT
1 ATGAAAAGGGATAGCTTCGGCTATCGAACT
* * *
47446598 ATGAAAAGGGATAGCTTTGGCTATCAAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAACT
* * * * *
47446628 ATGAAAAGGGAT-GGTGACGGCCATCAAATT
1 ATGAAAAGGGATAGCT-TCGGCTATCGAACT
* * * *
47446658 ATGAAAAGGGATAGCTTCAGTTGTTGAACT
1 ATGAAAAGGGATAGCTTCGGCTATCGAACT
* * *
47446688 ATGAAAAGGGATAACTTCGGTTATCGAATT
1 ATGAAAAGGGATAGCTTCGGCTATCGAACT
*
47446718 ACGAAAAGGGATAG
1 ATGAAAAGGGATAG
47446732 GTCAACCATC
Statistics
Matches: 177, Mismatches: 38, Indels: 13
0.78 0.17 0.06
Matches are distributed among these distances:
28 3 0.02
29 62 0.35
30 110 0.62
31 2 0.01
ACGTcount: A:0.37, C:0.13, G:0.26, T:0.24
Consensus pattern (30 bp):
ATGAAAAGGGATAGCTTCGGCTATCGAACT
Found at i:47452829 original size:9 final size:9
Alignment explanation
Indices: 47452817--47452842 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
47452807 TATATCGGTA
47452817 GATTTTGAT
1 GATTTTGAT
47452826 GATTTTGAT
1 GATTTTGAT
47452835 GATTTTGA
1 GATTTTGA
47452843 GTCATGGTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.00, G:0.23, T:0.54
Consensus pattern (9 bp):
GATTTTGAT
Found at i:47455962 original size:9 final size:9
Alignment explanation
Indices: 47455948--47455973 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
47455938 CAAATCAAGC
47455948 ACAAAACCA
1 ACAAAACCA
47455957 ACAAAACCA
1 ACAAAACCA
47455966 ACAAAACC
1 ACAAAACC
47455974 CTCCTTACCA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.65, C:0.35, G:0.00, T:0.00
Consensus pattern (9 bp):
ACAAAACCA
Found at i:47457136 original size:25 final size:25
Alignment explanation
Indices: 47457108--47457204 Score: 90
Period size: 25 Copynumber: 3.9 Consensus size: 25
47457098 CTACAAACTC
*
47457108 TCTAGATAATATGCCGCAAAGGCTT
1 TCTAGATAATATGCCACAAAGGCTT
* * *
47457133 TCTAGGTAAAACGCCACAAAGGCTCT
1 TCTAGATAATATGCCACAAAGGCT-T
* * *
47457159 TC-AAATAATCTGCCACAAAGGCTC
1 TCTAGATAATATGCCACAAAGGCTT
*
47457183 TCCAGATAAT-TCGCCACAAAGG
1 TCTAGATAATAT-GCCACAAAGG
47457205 TTTAGTTTGG
Statistics
Matches: 58, Mismatches: 11, Indels: 6
0.77 0.15 0.08
Matches are distributed among these distances:
24 3 0.05
25 52 0.90
26 3 0.05
ACGTcount: A:0.35, C:0.26, G:0.18, T:0.22
Consensus pattern (25 bp):
TCTAGATAATATGCCACAAAGGCTT
Done.