Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006565.1 Hibiscus syriacus cultivar Beakdansim tig00016066_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 1014065
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 1 of 4
Found at i:96 original size:56 final size:55
Alignment explanation
Indices: 3--139 Score: 196
Period size: 56 Copynumber: 2.6 Consensus size: 55
1 GA
3 TGAAGATTG-T-GGGTCTTATACT-TCTG-AGAAATAGGGGGCAGACGCGATCGT
1 TGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
* *
54 TGAAGATTGTTCGAGTCTTATACTCTCTGAAGAAAATAGGGGGCAGACGCGATTGT
1 TGAAGATTGTTCGGGTCTTATACTCTCTGAAG-AAATAGGGGGCAGACGCGATCGT
*
110 TAAAGA-T-TTCGGGTCTTATACTCTCTGAAG
1 TGAAGATTGTTCGGGTCTTATACTCTCTGAAG
140 GACTATGGAG
Statistics
Matches: 77, Mismatches: 4, Indels: 7
0.88 0.05 0.08
Matches are distributed among these distances:
51 9 0.12
52 1 0.01
53 11 0.14
54 26 0.34
55 3 0.04
56 27 0.35
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (55 bp):
TGAAGATTGTTCGGGTCTTATACTCTCTGAAGAAATAGGGGGCAGACGCGATCGT
Found at i:855 original size:17 final size:17
Alignment explanation
Indices: 804--846 Score: 86
Period size: 17 Copynumber: 2.5 Consensus size: 17
794 CTCCCTGAAG
804 CCCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
821 CCCGTGACCAGCTCGCA
1 CCCGTGACCAGCTCGCA
838 CCCGTGACC
1 CCCGTGACC
847 TGCAAGCACA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.16, C:0.49, G:0.23, T:0.12
Consensus pattern (17 bp):
CCCGTGACCAGCTCGCA
Found at i:4226 original size:24 final size:25
Alignment explanation
Indices: 4194--4240 Score: 87
Period size: 24 Copynumber: 1.9 Consensus size: 25
4184 ATGGAACTCG
4194 TACACAACACACT-CTTTCATCTCT
1 TACACAACACACTCCTTTCATCTCT
4218 TACACAACACACTCCTTTCATCT
1 TACACAACACACTCCTTTCATCT
4241 TCAATCTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
24 13 0.59
25 9 0.41
ACGTcount: A:0.30, C:0.38, G:0.00, T:0.32
Consensus pattern (25 bp):
TACACAACACACTCCTTTCATCTCT
Found at i:6901 original size:2 final size:2
Alignment explanation
Indices: 6894--6929 Score: 51
Period size: 2 Copynumber: 19.5 Consensus size: 2
6884 TATTTACGCT
6894 TA TA TA TA TA TA TA TA TA TA TA -A TA -A T- TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
6930 CCACTTATAA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
1 3 0.10
2 28 0.90
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:7236 original size:55 final size:54
Alignment explanation
Indices: 7143--7300 Score: 205
Period size: 55 Copynumber: 2.9 Consensus size: 54
7133 AATATTCGGA
*
7143 AACGAGTTCGCTCCCTCATTT-TTAGGGAGTATAGAACTCGAACAATTTTCTG-C
1 AACGAGTTCGCTCCCTC-TTTCTTAGGGAGTATAGAACTCGAACAATCTTCTGTC
*
7196 GAACGAGTTCACTCCCTCTTTCTTCAGGGAGTATAGAACTCGAACAATCTTCTGTC
1 -AACGAGTTCGCTCCCTCTTTCTT-AGGGAGTATAGAACTCGAACAATCTTCTGTC
* * * * *
7252 AACGGGTTCGTTCCCTCTTTCTTAGGGAGTA-GGAACTTGAAGAATCTTC
1 AACGAGTTCGCTCCCTCTTTCTTAGGGAGTATAGAACTCGAACAATCTTC
7301 ATCAATCGTG
Statistics
Matches: 93, Mismatches: 8, Indels: 7
0.86 0.07 0.06
Matches are distributed among these distances:
53 18 0.19
54 26 0.28
55 48 0.52
56 1 0.01
ACGTcount: A:0.25, C:0.23, G:0.20, T:0.32
Consensus pattern (54 bp):
AACGAGTTCGCTCCCTCTTTCTTAGGGAGTATAGAACTCGAACAATCTTCTGTC
Found at i:7356 original size:55 final size:55
Alignment explanation
Indices: 7207--7795 Score: 735
Period size: 55 Copynumber: 10.7 Consensus size: 55
7197 AACGAGTTCA
* * * *
7207 CTCCCTCTTTCTTCAGGGAGTAT-AGAACTCGAACAATCTTCTGTCAA-CGGGT-TCG
1 CTCCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTC-ATCAATCGTGTCT-G
* * * ** * *
7262 TTCCCTCTTTCTT-AGGGAGTAGGA-ACTTGAAGAATCTTCATCAATCGTGTCTG
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* * * * * *
7315 CTCCCTATTTCCTCAGAGAGTATAAGACCCAAACCATCTTCAACAAATCTTGTCTG
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATC-AATCGTGTCTG
* *
7371 CTCCCTATTTCTTCAGAGAGTATAAGACCCAAACAATCTTCATCAATCGTGTCTG
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* *
7426 CTCCCCA-TTCTTTCAGAGAGTATAAGACTTGAACAATCTTCATCAATCGTGTCTG
1 CTCCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
**
7481 CTCCCTATTTCCGCAGAGAGTATAAGACTCGAACAATCTTCATC-ATCGTGTCTG
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* * * *
7535 CTCCCTATTT-TGCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGCGTCTG
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* *
7589 CTCCCTATTTCTTCAGAGAGTACAAGACTCGAACAATCTTCATCCATCGTGTCTG
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* * * *
7644 CTCCATATTTCTGCAGAGAGTATAAGACTCGAACAATTTTCAACAATCGTGTCTG
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* * *
7699 CTCCCTATTTTTTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTG
1 CTCCCTA-TTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
*
7755 CTCCCTATTTCTTCAGAGAGTATAAGACTCGATCAATCTTC
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
7796 GATTATCGTT
Statistics
Matches: 469, Mismatches: 54, Indels: 22
0.86 0.10 0.04
Matches are distributed among these distances:
52 4 0.01
53 59 0.13
54 58 0.12
55 243 0.52
56 105 0.22
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.31
Consensus pattern (55 bp):
CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
Found at i:7486 original size:166 final size:164
Alignment explanation
Indices: 7294--7795 Score: 758
Period size: 166 Copynumber: 3.0 Consensus size: 164
7284 GAACTTGAAG
* * *
7294 AATCTTCATCAATCGTGTCTGCTCCCTATTTCCTCAGAGAGTATAAGACCCAAACCATCTTCAAC
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCCTCAGAGAGTATAAGACTCGAACAATCTTCAAC
* * * * *
7359 AAATCTTGTCTGCTCCCTATTTCTTCAGAGAGTATAAGACCCAAACAATCTTCATCAATCGTGTC
66 -AATCGTGTCTGCTCCCTATTT-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTC
* *
7424 TGCTCCCCA-TTCTTTCAGAGAGTATAAGACTTGAAC
129 TGCTCCCTATTTC-TTCAGAGAGTATAAGACTCGAAC
* *
7460 AATCTTCATCAATCGTGTCTGCTCCCTATTTCCGCAGAGAGTATAAGACTCGAACAATCTTCATC
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCCTCAGAGAGTATAAGACTCGAACAATCTTCAAC
* *
7525 -ATCGTGTCTGCTCCCTATTTTGCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGCGTCTG
66 AATCGTGTCTGCTCCCTATTTTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTG
*
7589 CTCCCTATTTCTTCAGAGAGTACAAGACTCGAAC
131 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
* * *
7623 AATCTTCATCCATCGTGTCTGCTCCATATTT-CTGCAGAGAGTATAAGACTCGAACAATTTTCAA
1 AATCTTCATCAATCGTGTCTGCTCCCTATTTCCT-CAGAGAGTATAAGACTCGAACAATCTTCAA
7687 CAATCGTGTCTGCTCCCTATTTTTTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGT
65 CAATCGTGTCTGCTCCCTA--TTTTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGT
*
7752 CTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGATC
128 CTGCTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
7789 AATCTTC
1 AATCTTC
7796 GATTATCGTT
Statistics
Matches: 307, Mismatches: 24, Indels: 10
0.90 0.07 0.03
Matches are distributed among these distances:
162 1 0.00
163 123 0.40
164 39 0.13
166 144 0.47
ACGTcount: A:0.28, C:0.26, G:0.14, T:0.31
Consensus pattern (164 bp):
AATCTTCATCAATCGTGTCTGCTCCCTATTTCCTCAGAGAGTATAAGACTCGAACAATCTTCAAC
AATCGTGTCTGCTCCCTATTTTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTG
CTCCCTATTTCTTCAGAGAGTATAAGACTCGAAC
Found at i:7804 original size:111 final size:110
Alignment explanation
Indices: 7207--7795 Score: 744
Period size: 111 Copynumber: 5.4 Consensus size: 110
7197 AACGAGTTCA
* * ** * * *
7207 CTCCCTCTTTCTTCAGGGAGTAT-AGAACTCGAACAATCTTCTGTCAA-CGGGT-TCGTTCCCTC
1 CTCCCTATTTCTTCAGAGAGTATAAG-ACTCGAACAATCTTC-AACAATCGTGTCT-GCTCCCTA
* ** * *
7269 TTTCTT-AGGGAGTAGGA-ACTTGAAGAATCTTCATCAATCGTGTCTG
63 TTTCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* * * * *
7315 CTCCCTATTTCCTCAGAGAGTATAAGACCCAAACCATCTTCAACAAATCTTGTCTGCTCCCTATT
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAAC-AATCGTGTCTGCTCCCTATT
* *
7380 TCTTCAGAGAGTATAAGACCCAAACAATCTTCATCAATCGTGTCTG
65 TCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* * *
7426 CTCCCCA-TTCTTTCAGAGAGTATAAGACTTGAACAATCTTCATCAATCGTGTCTGCTCCCTATT
1 CTCCCTATTTC-TTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATT
**
7490 TCCGCAGAGAGTATAAGACTCGAACAATCTTCATC-ATCGTGTCTG
65 TCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* * *
7535 CTCCCTATTT-TGCAGAGAGTATAAGACTCGAACAATCTTCAACAATTGCGTCTGCTCCCTATTT
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTT
* *
7599 CTTCAGAGAGTACAAGACTCGAACAATCTTCATCCATCGTGTCTG
66 CTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
* * *
7644 CTCCATATTTCTGCAGAGAGTATAAGACTCGAACAATTTTCAACAATCGTGTCTGCTCCCTATTT
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTA-TT
* * *
7709 TTTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGCGTCTG
65 TCTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
*
7755 CTCCCTATTTCTTCAGAGAGTATAAGACTCGATCAATCTTC
1 CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTC
7796 GATTATCGTT
Statistics
Matches: 417, Mismatches: 53, Indels: 19
0.85 0.11 0.04
Matches are distributed among these distances:
107 1 0.00
108 114 0.27
109 52 0.12
110 112 0.27
111 138 0.33
ACGTcount: A:0.27, C:0.26, G:0.15, T:0.31
Consensus pattern (110 bp):
CTCCCTATTTCTTCAGAGAGTATAAGACTCGAACAATCTTCAACAATCGTGTCTGCTCCCTATTT
CTTCAGAGAGTATAAGACTCGAACAATCTTCATCAATCGTGTCTG
Found at i:12371 original size:8 final size:8
Alignment explanation
Indices: 12358--12385 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
12348 GAAAAAGAAG
12358 ATATATAC
1 ATATATAC
12366 ATATATAC
1 ATATATAC
12374 ATATATAC
1 ATATATAC
12382 ATAT
1 ATAT
12386 GGGAGAATCT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.50, C:0.11, G:0.00, T:0.39
Consensus pattern (8 bp):
ATATATAC
Found at i:24259 original size:20 final size:20
Alignment explanation
Indices: 24234--24280 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
24224 CTACCAACCT
24234 TGCTGAATGTATCAACTCAG
1 TGCTGAATGTATCAACTCAG
24254 TGCTGAATGTATCAACTCAG
1 TGCTGAATGTATCAACTCAG
24274 TGCTGAA
1 TGCTGAA
24281 AGGGACTTGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.30, C:0.19, G:0.21, T:0.30
Consensus pattern (20 bp):
TGCTGAATGTATCAACTCAG
Found at i:25946 original size:32 final size:33
Alignment explanation
Indices: 25905--25980 Score: 95
Period size: 32 Copynumber: 2.4 Consensus size: 33
25895 TCAATTTTAA
25905 AAAAATAACATAATT-TTTAAATAC-AAATTTC
1 AAAAATAACATAATTCTTTAAATACAAAATTTC
* * *
25936 AAAAATTAACAT-ATTCTTTAATTCCAAAATTTT
1 AAAAA-TAACATAATTCTTTAAATACAAAATTTC
25969 AAAAATAACATA
1 AAAAATAACATA
25981 TATATATATA
Statistics
Matches: 38, Mismatches: 3, Indels: 6
0.81 0.06 0.13
Matches are distributed among these distances:
31 8 0.21
32 19 0.50
33 11 0.29
ACGTcount: A:0.54, C:0.11, G:0.00, T:0.36
Consensus pattern (33 bp):
AAAAATAACATAATTCTTTAAATACAAAATTTC
Found at i:29196 original size:74 final size:76
Alignment explanation
Indices: 29074--29237 Score: 228
Period size: 74 Copynumber: 2.2 Consensus size: 76
29064 TAAATAAAGA
* *
29074 GGTACTGATACCCCTCACAGGGTGTACCGATACCCCTATGCCAATTTTGGCTCAGAGAAAAATAG
1 GGTACTGATACCCCTCACAGAGTGCACCGATACCCCTATGCCAATTTTGGCTCAGAGAAAAATAG
*
29139 ATTGCCCAATG
66 AATGCCCAATG
* *
29150 GGTACTGATACCCCTCATA-AG-GCACCGATACCCCTATG-CAAGTTTTGGCTCTGAGAAAAATA
1 GGTACTGATACCCCTCACAGAGTGCACCGATACCCCTATGCCAA-TTTTGGCTCAGAGAAAAATA
*
29212 GAATGCCCCATG
65 GAATGCCCAATG
29224 GGTA-TCGATACCCC
1 GGTACT-GATACCCC
29238 CTTAGAGGTA
Statistics
Matches: 80, Mismatches: 6, Indels: 6
0.87 0.07 0.07
Matches are distributed among these distances:
73 4 0.05
74 57 0.71
75 1 0.01
76 18 0.22
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (76 bp):
GGTACTGATACCCCTCACAGAGTGCACCGATACCCCTATGCCAATTTTGGCTCAGAGAAAAATAG
AATGCCCAATG
Found at i:33187 original size:8 final size:8
Alignment explanation
Indices: 33162--33278 Score: 51
Period size: 8 Copynumber: 13.8 Consensus size: 8
33152 GAAAAGGAGG
*
33162 AAAAATAA
1 AAAAAGAA
*
33170 AAAAA-TA
1 AAAAAGAA
33177 AAAAAGAA
1 AAAAAGAA
**
33185 AAATTGAA
1 AAAAAGAA
**
33193 AAATTGAA
1 AAAAAGAA
33201 AAAAA-ATA
1 AAAAAGA-A
33209 AAAAATGAA
1 AAAAA-GAA
*
33218 AAATGAGAA
1 AAA-AAGAA
33227 AAATAAGGAA
1 AAA-AA-GAA
33237 AAAGAA-AA
1 AAA-AAGAA
*
33245 GGAAAAGAA
1 -AAAAAGAA
33254 AAAGAGAGAA
1 AAA-A-AGAA
33264 AAAAAGAA
1 AAAAAGAA
33272 TAAAAAG
1 -AAAAAG
33279 GAGGGTTCAA
Statistics
Matches: 87, Mismatches: 11, Indels: 21
0.73 0.09 0.18
Matches are distributed among these distances:
7 7 0.08
8 39 0.45
9 24 0.28
10 17 0.20
ACGTcount: A:0.76, C:0.00, G:0.15, T:0.09
Consensus pattern (8 bp):
AAAAAGAA
Found at i:33204 original size:25 final size:25
Alignment explanation
Indices: 33176--33244 Score: 79
Period size: 25 Copynumber: 2.8 Consensus size: 25
33166 ATAAAAAAAT
*
33176 AAAAAAGAAAAATTGAAAAATTGA-A
1 AAAAAAGAAAAAATGAAAAA-TGAGA
*
33201 AAAAAATAAAAAATGAAAAATGAGA
1 AAAAAAGAAAAAATGAAAAATGAGA
*
33226 AAAATAAGGAAAAA-GAAAA
1 AAAA-AAGAAAAAATGAAAA
33245 GGAAAAGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
24 3 0.08
25 28 0.74
26 7 0.18
ACGTcount: A:0.75, C:0.00, G:0.13, T:0.12
Consensus pattern (25 bp):
AAAAAAGAAAAAATGAAAAATGAGA
Found at i:33209 original size:32 final size:34
Alignment explanation
Indices: 33168--33230 Score: 103
Period size: 32 Copynumber: 1.9 Consensus size: 34
33158 GAGGAAAAAT
*
33168 AAAAAAATAAAAAA-GAAAAAT-TGAAAAATTGA
1 AAAAAAATAAAAAATGAAAAATGAGAAAAATTGA
33200 AAAAAAATAAAAAATGAAAAATGAGAAAAAT
1 AAAAAAATAAAAAATGAAAAATGAGAAAAAT
33231 AAGGAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 14 0.50
33 7 0.25
34 7 0.25
ACGTcount: A:0.76, C:0.00, G:0.10, T:0.14
Consensus pattern (34 bp):
AAAAAAATAAAAAATGAAAAATGAGAAAAATTGA
Found at i:33267 original size:17 final size:17
Alignment explanation
Indices: 33208--33269 Score: 54
Period size: 18 Copynumber: 3.4 Consensus size: 17
33198 GAAAAAAAAT
*
33208 AAAAAATGAAAAATGAGA
1 AAAAAAGGAAAAA-GAGA
33226 AAAATAAGGAAAAAGA-A
1 AAAA-AAGGAAAAAGAGA
*
33243 AAGGAAAAGAAAAAGAGAGA
1 AA--AAAAGGAAAA-AGAGA
33263 AAAAAAG
1 AAAAAAG
33270 AATAAAAAGG
Statistics
Matches: 37, Mismatches: 2, Indels: 10
0.76 0.04 0.20
Matches are distributed among these distances:
17 3 0.08
18 18 0.49
19 13 0.35
20 3 0.08
ACGTcount: A:0.74, C:0.00, G:0.21, T:0.05
Consensus pattern (17 bp):
AAAAAAGGAAAAAGAGA
Found at i:33837 original size:12 final size:12
Alignment explanation
Indices: 33820--33844 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
33810 CCTTTTGCAA
33820 GCATCTTATTTT
1 GCATCTTATTTT
33832 GCATCTTATTTT
1 GCATCTTATTTT
33844 G
1 G
33845 AAAAGTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.16, G:0.12, T:0.56
Consensus pattern (12 bp):
GCATCTTATTTT
Found at i:34707 original size:55 final size:54
Alignment explanation
Indices: 34623--35371 Score: 582
Period size: 55 Copynumber: 13.6 Consensus size: 54
34613 AGTTTGATTA
* * * * * *
34623 TGAAGATGGTTTGAGTCCTATACTCTCTGAAACAATTGGGAGTATACACATTTTC
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCA-ACACATTTTC
* * * * *
34678 TGAAGATTGTTTGAGTCCTATACTCTCTGAAAGAATA--GAGAAAGGATATGTTTGC
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCAA-CACAT-TTT-C
* * ** *
34733 TGAAGATTGTTCGAGTCCCATACTCTCTGAAAGAATAGATAACAGACACATTTGT-
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCA-ACACATTT-TC
* * * ** * * * *
34788 TAAAGATTGTTCGAGTCCCATACTCTCTGAAAGAATAGATAGCGGATACGTTTAC
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGC-AACACATTTTC
* * *
34843 TGAAGATTGTTCGAGTTCTATACTCCCTAAAAGAATAGGGAGCGAACCCAATTTT-
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGC-AACAC-ATTTTC
* * * * * *
34898 AGAATATTGTTCGAGTTCTATACTCCCTGAAAGAATAGGGAACGAACCCGTTTTC
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGC-AACACATTTTC
* * * * *
34953 AGAAGATTGTTCGAGTTCTATACTCCCTGAGAGAATAGGGAGCGAACCCGTTTT-
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGC-AACACATTTTC
* * *
35007 TAGAAGATTGTTCGAGTTCTATACTCCCTGAGAGAATAGGGAGTAAACACATTTTC
1 T-GAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAG-CAACACATTTTC
* * * ** *
35063 AGAAGATTGTTCGAGTTCTATACTCCCTGAGAGAATAATGAGCGAACCCATTTT-
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGC-AACACATTTTC
* * * *
35117 TAGAAGATTGTTCGAGTTCTATACTCCCTGAAAGAAAAGGGAGCGGAGC-CATTTTTT
1 T-GAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGC--AACACA-TTTTC
* * * *
35174 TGAAGATTATTCGAGTCCTATACTCCCTGAAAGAATAGGGAACATACCCATTTTT
1 TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCA-ACACATTTTC
* * * *
35229 TGAAGATTATTTCAAGTCCTATACTCCCTGAAAGAATAGGGAACAAACCCATTTT-
1 TGAAGATT-GTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGC-AACACATTTTC
* * * * **
35284 TCGAATATTATTTCAAGTCCTATACTCCCTGAAAG-A-AGGGAGCGGACATGTTTTC
1 T-GAAGATT-GTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGC-AACACATTTTC
* * *
35339 AGAAGATTAGTTCAAGTCCTATACTCCTTGAAA
1 TGAAGATT-GTTCGAGTCCTATACTCCCTGAAA
35372 TAAAAGAAAG
Statistics
Matches: 597, Mismatches: 72, Indels: 51
0.83 0.10 0.07
Matches are distributed among these distances:
52 1 0.00
53 7 0.01
54 49 0.08
55 405 0.68
56 126 0.21
57 8 0.01
58 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.30
Consensus pattern (54 bp):
TGAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGGGAGCAACACATTTTC
Found at i:34711 original size:28 final size:28
Alignment explanation
Indices: 34625--34711 Score: 65
Period size: 28 Copynumber: 3.1 Consensus size: 28
34615 TTTGATTATG
*
34625 AAGATGGTTTGAGTCCTATACTCTCTGA
1 AAGATTGTTTGAGTCCTATACTCTCTGA
* * * * *
34653 AACAATTG--GGAGT-ATACACATTTTCTG-
1 AA-GATTGTTTGAGTCCTATAC--TCTCTGA
34680 AAGATTGTTTGAGTCCTATACTCTCTGA
1 AAGATTGTTTGAGTCCTATACTCTCTGA
34708 AAGA
1 AAGA
34712 ATAGAGAAAG
Statistics
Matches: 41, Mismatches: 11, Indels: 14
0.62 0.17 0.21
Matches are distributed among these distances:
26 8 0.20
27 11 0.27
28 15 0.37
29 7 0.17
ACGTcount: A:0.30, C:0.16, G:0.20, T:0.34
Consensus pattern (28 bp):
AAGATTGTTTGAGTCCTATACTCTCTGA
Found at i:34930 original size:165 final size:163
Alignment explanation
Indices: 34734--35371 Score: 649
Period size: 165 Copynumber: 3.9 Consensus size: 163
34724 TATGTTTGCT
* * *
34734 GAAGATTGTTCGAGTCCCATACTCTCTGAAAGAATAGATAAC-AGACACATTTGTTA-AAGATTG
1 GAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGATAACGA-ACCCATTT-TTAGAAGATTG
* * * ** ** *
34797 TTCGAGTCCCATACTCTCTGAAAGAATAGATAGCGGATACGTTTACTGAAGATTGTTCGAGTTCT
64 TTCGAGTTCTATACTCCCTGAAAGAATAGGGAGCGGACCCGTTT-TTGAAGATTGTTCGAGTTCT
*
34862 ATACTCCCTAAAAGAATAGGGAGCGAACCCAATTTTA
128 ATACTCCCTGAAAGAATAGGGAGC-AACCCAATTTTA
* * ** * *
34899 GAATATTGTTCGAGTTCTATACTCCCTGAAAGAATAGGGAACGAACCCGTTTTCAGAAGATTGTT
1 GAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGATAACGAACCCATTTTTAGAAGATTGTT
* *
34964 CGAGTTCTATACTCCCTGAGAGAATAGGGAGCGAACCCGTTTTTAGAAGATTGTTCGAGTTCTAT
66 CGAGTTCTATACTCCCTGAAAGAATAGGGAGCGGACCCGTTTTT-GAAGATTGTTCGAGTTCTAT
* * *
35029 ACTCCCTGAGAGAATAGGGAGTAA-ACACATTTTCA
130 ACTCCCTGAAAGAATAGGGAGCAACCCA-ATTTT-A
* * *
35064 GAAGATTGTTCGAGTTCTATACTCCCTGAGAGAATA-ATGAGCGAACCCATTTTTAGAAGATTGT
1 GAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGAT-AACGAACCCATTTTTAGAAGATTGT
* ** * *
35128 TCGAGTTCTATACTCCCTGAAAGAAAAGGGAGCGGAGCCATTTTTTTGAAGATTATTCGAGTCCT
65 TCGAGTTCTATACTCCCTGAAAGAATAGGGAGCGGA-CC-CGTTTTTGAAGATTGTTCGAGTTCT
* * *
35193 ATACTCCCTGAAAGAATAGGGAACATACCCATTTTTT
128 ATACTCCCTGAAAGAATAGGGAGCA-ACCCAATTTTA
* * ** * * * *
35230 GAAGATTATTTCAAGTCCTATACTCCCTGAAAGAATAGGGAACAAACCCATTTTTCGAATATTAT
1 GAAGATT-GTTCGAGTCCTATACTCCCTGAAAGAATAGATAACGAACCCATTTTTAGAAGATT-G
* * ** * * *
35295 TTCAAGTCCTATACTCCCTGAAAG-A-AGGGAGCGGACATGTTTTCAGAAGATTAGTTCAAGTCC
64 TTCGAGTTCTATACTCCCTGAAAGAATAGGGAGCGGACCCGTTTT-TGAAGATT-GTTCGAGTTC
*
35358 TATACTCCTTGAAA
127 TATACTCCCTGAAA
35372 TAAAAGAAAG
Statistics
Matches: 396, Mismatches: 62, Indels: 29
0.81 0.13 0.06
Matches are distributed among these distances:
163 2 0.01
164 15 0.04
165 221 0.56
166 79 0.20
167 55 0.14
168 24 0.06
ACGTcount: A:0.32, C:0.18, G:0.20, T:0.29
Consensus pattern (163 bp):
GAAGATTGTTCGAGTCCTATACTCCCTGAAAGAATAGATAACGAACCCATTTTTAGAAGATTGTT
CGAGTTCTATACTCCCTGAAAGAATAGGGAGCGGACCCGTTTTTGAAGATTGTTCGAGTTCTATA
CTCCCTGAAAGAATAGGGAGCAACCCAATTTTA
Found at i:36029 original size:3 final size:3
Alignment explanation
Indices: 36023--36047 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
36013 TTTTTTTAGG
36023 TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT T
36048 TACAGTTTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:36339 original size:2 final size:2
Alignment explanation
Indices: 36332--36366 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
36322 TTTATAATAG
36332 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T- TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
36367 ACCAAAACTA
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:38528 original size:22 final size:22
Alignment explanation
Indices: 38503--38551 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
38493 AAAGTTAACG
38503 GTCAACAGTCAGACCAGTCAAA
1 GTCAACAGTCAGACCAGTCAAA
* * *
38525 GTCAACGGTCATACCGGTCAAA
1 GTCAACAGTCAGACCAGTCAAA
38547 GTCAA
1 GTCAA
38552 AGGTCATATC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.37, C:0.27, G:0.20, T:0.16
Consensus pattern (22 bp):
GTCAACAGTCAGACCAGTCAAA
Found at i:38556 original size:22 final size:22
Alignment explanation
Indices: 38510--38567 Score: 80
Period size: 22 Copynumber: 2.6 Consensus size: 22
38500 ACGGTCAACA
* * *
38510 GTCAGACCAGTCAAAGTCAACG
1 GTCATACCGGTCAAAGTCAAAG
38532 GTCATACCGGTCAAAGTCAAAG
1 GTCATACCGGTCAAAGTCAAAG
*
38554 GTCATATCGGTCAA
1 GTCATACCGGTCAA
38568 CGGTCAACGG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.34, C:0.24, G:0.22, T:0.19
Consensus pattern (22 bp):
GTCATACCGGTCAAAGTCAAAG
Found at i:40266 original size:24 final size:20
Alignment explanation
Indices: 40213--40270 Score: 71
Period size: 20 Copynumber: 2.7 Consensus size: 20
40203 TTCCCCTTGA
*
40213 AGTGCATCGATACATTCTAC
1 AGTGCATCGATGCATTCTAC
40233 AGTGCATCGATGCATTCTTTAAC
1 AGTGCATCGATGCATTC--T-AC
40256 ATGTGCATCGATGCA
1 A-GTGCATCGATGCA
40271 CTACCCATGC
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 16 0.48
22 1 0.03
23 3 0.09
24 13 0.39
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.31
Consensus pattern (20 bp):
AGTGCATCGATGCATTCTAC
Found at i:40381 original size:64 final size:63
Alignment explanation
Indices: 40258--40394 Score: 152
Period size: 64 Copynumber: 2.2 Consensus size: 63
40248 TCTTTAACAT
* * *
40258 GTGCATCGATGCACTACCCATGCATCGATACACCAATCACCTTCGATGTTTTCATTTTAAGGGG
1 GTGCATCGATGCACTACCCATGCATCGATACACCAATCACATTCGATGTTTTCATTTTAA-AGA
* * * * * *
40322 GTGCATCGATGCACT-CCTTATGTATCGATGCACTAATTACATTCGATG-TTTCTTCTTTAAAGA
1 GTGCATCGATGCACTACC-CATGCATCGATACACCAATCACATTCGATGTTTTCAT-TTTAAAGA
40385 GTGCATCGAT
1 GTGCATCGAT
40395 ACACATTGAA
Statistics
Matches: 62, Mismatches: 9, Indels: 5
0.82 0.12 0.07
Matches are distributed among these distances:
63 18 0.29
64 44 0.71
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (63 bp):
GTGCATCGATGCACTACCCATGCATCGATACACCAATCACATTCGATGTTTTCATTTTAAAGA
Found at i:44199 original size:23 final size:23
Alignment explanation
Indices: 44173--44223 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
44163 CTAGTTCAAG
*
44173 GGGACAAAGTATAAATAATAATA
1 GGGACAAAGTATAAATAACAATA
*
44196 GGGACAAAGTATAATTAACAATA
1 GGGACAAAGTATAAATAACAATA
44219 GGGAC
1 GGGAC
44224 TAGGGGAGGC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.51, C:0.08, G:0.22, T:0.20
Consensus pattern (23 bp):
GGGACAAAGTATAAATAACAATA
Found at i:46720 original size:19 final size:20
Alignment explanation
Indices: 46682--46721 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
46672 TTCCCCTATC
*
46682 TTTTAACTTTTAATGTTTTT
1 TTTTAACTTTTAATGATTTT
46702 TTTTAACTTTT-ATGATTTT
1 TTTTAACTTTTAATGATTTT
46721 T
1 T
46722 GAAAAGAAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 8 0.42
20 11 0.58
ACGTcount: A:0.20, C:0.05, G:0.05, T:0.70
Consensus pattern (20 bp):
TTTTAACTTTTAATGATTTT
Found at i:46841 original size:25 final size:26
Alignment explanation
Indices: 46799--46848 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 26
46789 TTTTATGATA
*
46799 TTTTTATTATATATATATTAATAATC
1 TTTTTATTATATAAATATTAATAATC
* *
46825 TTTTTATTTTA-AAATATTTATAAT
1 TTTTTATTATATAAATATTAATAAT
46849 TACACATGAC
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.38, C:0.02, G:0.00, T:0.60
Consensus pattern (26 bp):
TTTTTATTATATAAATATTAATAATC
Found at i:49169 original size:32 final size:32
Alignment explanation
Indices: 49128--49210 Score: 130
Period size: 32 Copynumber: 2.6 Consensus size: 32
49118 CGTTTAACAA
49128 TCATTCGTTTATGTTCATTTACCTTAGATAAT
1 TCATTCGTTTATGTTCATTTACCTTAGATAAT
* **
49160 TCATTCGTTTATGTTCGTTTATGTTAGATAAT
1 TCATTCGTTTATGTTCATTTACCTTAGATAAT
*
49192 TCATTTGTTTATGTTCATT
1 TCATTCGTTTATGTTCATT
49211 CATTTAATTA
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
32 46 1.00
ACGTcount: A:0.22, C:0.12, G:0.12, T:0.54
Consensus pattern (32 bp):
TCATTCGTTTATGTTCATTTACCTTAGATAAT
Found at i:50057 original size:4 final size:4
Alignment explanation
Indices: 50048--50074 Score: 54
Period size: 4 Copynumber: 6.8 Consensus size: 4
50038 GATGTTCCTG
50048 TTTA TTTA TTTA TTTA TTTA TTTA TTT
1 TTTA TTTA TTTA TTTA TTTA TTTA TTT
50075 TTGTAACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 23 1.00
ACGTcount: A:0.22, C:0.00, G:0.00, T:0.78
Consensus pattern (4 bp):
TTTA
Found at i:51921 original size:55 final size:55
Alignment explanation
Indices: 51861--52371 Score: 548
Period size: 55 Copynumber: 9.3 Consensus size: 55
51851 ATCCTACGTG
* *
51861 GATGAATAACCGTACAAACACTATGTGTACAAAACCACAGAATTCATCATGAG-T
1 GATGAATAACCGTACAAGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTT
* * * **
51915 GAATGAATAACCGTATAGGCACTATGTGTGCAACACCATGGAATTCATCATGAGTT
1 G-ATGAATAACCGTACAAGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTT
* * * *
51971 GATGAATAATCGTACATGCACTATTTGTGCAAAACCAC-GTAATTCATCACGAGTT
1 GATGAATAACCGTACAAGCACTATGTGTGCAAAACCACAG-AATTCATCATGAGTT
* * * * * *
52026 GAAGAATAACCATACAA-AAGCTATGTGTGCAAAATCACGGAATTCATCAT-ACGTG
1 GATGAATAACCGTACAAGCA-CTATGTGTGCAAAACCACAGAATTCATCATGA-GTT
*
52081 GATGAATAACTGTACAAGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTT
1 GATGAATAACCGTACAAGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTT
* * * * * * * *
52136 GATTAATAGCCGTACATGCACTATGTATGTAAAACAACAAAATTTATCATGAGTT
1 GATGAATAACCGTACAAGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTT
* * * * *
52191 GATGAATAACCATACAGGCATTATGTGTGCAAGACCACATAATTCATCATGAGTT
1 GATGAATAACCGTACAAGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTT
* ** * * *
52246 GCTGAATAACAATACATA-CACTATGTATGCAAAACCACGGAATTCATCATGAGTG
1 GATGAATAACCGTACA-AGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTT
* * * *
52301 GATGAATAACTGTACAGGTACTATGTGTGCAAAACCAC-GAAATTCATCACGAGTT
1 GATGAATAACCGTACAAGCACTATGTGTGCAAAACCACAG-AATTCATCATGAGTT
*
52356 GATGAATAACTGTACA
1 GATGAATAACCGTACA
52372 TGCTGTCGAC
Statistics
Matches: 379, Mismatches: 67, Indels: 21
0.81 0.14 0.04
Matches are distributed among these distances:
54 5 0.01
55 369 0.97
56 5 0.01
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (55 bp):
GATGAATAACCGTACAAGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTT
Found at i:52126 original size:165 final size:164
Alignment explanation
Indices: 51861--52365 Score: 606
Period size: 165 Copynumber: 3.1 Consensus size: 164
51851 ATCCTACGTG
* * *
51861 GATGAATAACCGTACAAACA-CTATGTGTACAAAACCACAGAATTCATCATGAGTGAATGAATAA
1 GATGAATAACCATACAAA-AGCTATGTGTGCAAAACCACAGAATTCATCATGAGTGGATGAATAA
* * * * *
51925 CCGTATAGGCACTATGTGTGCAACACCATGGAATTCATCATGAGTTGATGAATAATCGTACATGC
65 CAGTACAAGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAA-CGTACATGC
* *
51990 ACTATTTGTGCAAAACCACGTAATTCATCACGAGTT
129 ACTATGTGTGCAAAACCACGAAATTCATCACGAGTT
* * *
52026 GAAGAATAACCATACAAAAGCTATGTGTGCAAAATCACGGAATTCATCAT-ACGTGGATGAATAA
1 GATGAATAACCATACAAAAGCTATGTGTGCAAAACCACAGAATTCATCATGA-GTGGATGAATAA
* * * *
52090 CTGTACAAGCACTATGTGTGCAAAACCACAGAATTCATCATGAGTTGATTAATAGCCGTACATGC
65 CAGTACAAGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATA-ACGTACATGC
* * * * * *
52155 ACTATGTATGTAAAACAACAAAATTTATCATGAGTT
129 ACTATGTGTGCAAAACCACGAAATTCATCACGAGTT
* * * * *
52191 GATGAATAACCATAC--AGGCATTATGTGTGCAAGACCACATAATTCATCATGAGTTGCTGAATA
1 GATGAATAACCATACAAAAGC--TATGTGTGCAAAACCACAGAATTCATCATGAGTGGATGAATA
* * * *
52254 ACAATACATA-CACTATGTATGCAAAACCACGGAATTCATCATGAGTGGATGAATAACTGTACAG
64 ACAGTACA-AGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAAC-GTACAT
*
52318 GTACTATGTGTGCAAAACCACGAAATTCATCACGAGTT
127 GCACTATGTGTGCAAAACCACGAAATTCATCACGAGTT
52356 GATGAATAAC
1 GATGAATAAC
52366 TGTACATGCT
Statistics
Matches: 287, Mismatches: 45, Indels: 16
0.82 0.13 0.05
Matches are distributed among these distances:
163 3 0.01
164 3 0.01
165 279 0.97
166 2 0.01
ACGTcount: A:0.38, C:0.18, G:0.18, T:0.26
Consensus pattern (164 bp):
GATGAATAACCATACAAAAGCTATGTGTGCAAAACCACAGAATTCATCATGAGTGGATGAATAAC
AGTACAAGCACTATGTGTGCAAAACCACGGAATTCATCATGAGTTGATGAATAACGTACATGCAC
TATGTGTGCAAAACCACGAAATTCATCACGAGTT
Found at i:58629 original size:11 final size:12
Alignment explanation
Indices: 58615--58653 Score: 53
Period size: 11 Copynumber: 3.2 Consensus size: 12
58605 GGGGAAAAAG
58615 AAAAAAAAGAA-
1 AAAAAAAAGAAT
58626 AAAAAAAAGAAT
1 AAAAAAAAGAAT
58638 AAATAAAAAAGAAT
1 -AA-AAAAAAGAAT
58652 AA
1 AA
58654 GGAAGATTGA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
11 11 0.44
13 4 0.16
14 10 0.40
ACGTcount: A:0.85, C:0.00, G:0.08, T:0.08
Consensus pattern (12 bp):
AAAAAAAAGAAT
Found at i:58645 original size:14 final size:14
Alignment explanation
Indices: 58609--58653 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
58599 AAAAAAGGGG
* *
58609 AAAAAGAAAAAAAAG
1 AAAAA-AAAAAGAAT
58624 AAAAAAAAAAGAAT
1 AAAAAAAAAAGAAT
*
58638 AAATAAAAAAGAAT
1 AAAAAAAAAAGAAT
58652 AA
1 AA
58654 GGAAGATTGA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
14 22 0.81
15 5 0.19
ACGTcount: A:0.84, C:0.00, G:0.09, T:0.07
Consensus pattern (14 bp):
AAAAAAAAAAGAAT
Found at i:61345 original size:42 final size:42
Alignment explanation
Indices: 61286--61466 Score: 227
Period size: 42 Copynumber: 4.3 Consensus size: 42
61276 CCAAAATTTA
* * * *
61286 TAAATCCTTAGGGTCATCAATAAGTCTTCTGAGTATGATGCT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTCCGAGCATGATGCT
* *
61328 TAAATCCTCCGGGTCATCAGTAAGTCTTCCGAGCATAATGCT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTCCGAGCATGATGCT
* *
61370 TAAATCCTTCGGGTCATTAGTGAGTCTTCCGAGCATGATGCT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTCCGAGCATGATGCT
* * * * *
61412 TAAATCCTTTGGGTCATCTGTAAGCCTTTCGAGCATGATGAT
1 TAAATCCTTCGGGTCATCAGTAAGTCTTCCGAGCATGATGCT
* *
61454 TAAGTCCTCCGGG
1 TAAATCCTTCGGG
61467 CAATCTAAAG
Statistics
Matches: 119, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 119 1.00
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (42 bp):
TAAATCCTTCGGGTCATCAGTAAGTCTTCCGAGCATGATGCT
Found at i:61736 original size:111 final size:110
Alignment explanation
Indices: 61542--61938 Score: 600
Period size: 111 Copynumber: 3.6 Consensus size: 110
61532 GAAGCAAATT
* * ** * *
61542 CAGATATGATATTCCCTCAGAGAAAGTAGAACAGATCCCTCTT-TTTCAAGATTTGATATTCCCT
1 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAAATCTCT-TTCTTTCAAGATTTGATATTCCCT
* *
61606 GAGTGACAGCAGAACAAATCTACCTCGATTCAATGGATCAACTCTCA
65 GAGTGACAGCGGAACAAATCTACC-CGATTCAATGGATCAACTCTCC
61653 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAAATCTCTTTCTTTCAAGATTTGATATTCCCTG
1 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAAATCTCTTTCTTTCAAGATTTGATATTCCCTG
*
61718 AGTGACAGCGGAACAAATCTACCCCGATTCAATGGATCAACTTTCC
66 AGTGACAGCGGAACAAATCTA-CCCGATTCAATGGATCAACTCTCC
* * *
61764 CATATCTGATATTCCCTCAGAGGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTG
1 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAAATCTCTTTCTTTCAAGATTTGATATTCCCTG
61829 AGTGACAGCGGAACAAATCTACCCTGATTCAATGGATCAACTCTCC
66 AGTGACAGCGGAACAAATCTACCC-GATTCAATGGATCAACTCTCC
* * *
61875 CAGATCTGATACTCCCTCAGAGGAAGCGGAACAAATC-CTTATTTTTTAAGATTTGATATTCCCT
1 CAGATCTGATATTCCCTCAGAGGAAGCGGAACAAATCTCTT-TCTTTCAAGATTTGATATTCCCT
61939 CAGAGGAAGC
Statistics
Matches: 263, Mismatches: 19, Indels: 8
0.91 0.07 0.03
Matches are distributed among these distances:
110 7 0.03
111 254 0.97
112 2 0.01
ACGTcount: A:0.30, C:0.24, G:0.16, T:0.29
Consensus pattern (110 bp):
CAGATCTGATATTCCCTCAGAGGAAGCGGAACAAATCTCTTTCTTTCAAGATTTGATATTCCCTG
AGTGACAGCGGAACAAATCTACCCGATTCAATGGATCAACTCTCC
Found at i:61981 original size:45 final size:47
Alignment explanation
Indices: 61876--62003 Score: 158
Period size: 45 Copynumber: 2.8 Consensus size: 47
61866 CAACTCTCCC
* * *
61876 AGATCTGATACTCCCTCAGAGGAAGCGGAACAAATCCTTATTTTTTA
1 AGATTTGATATTCCCTCAGAGGAAGCGGAACAAATCCTTATCTTTTA
*
61923 AGATTTGATATTCCCTCAGAGGAAGCGGAA-AAGAT-C-TCTCTTTTA
1 AGATTTGATATTCCCTCAGAGGAAGCGGAACAA-ATCCTTATCTTTTA
61968 AGATTTGATATTCCCT--GAGTGACAGCGGAACAAATC
1 AGATTTGATATTCCCTCAGAG-GA-AGCGGAACAAATC
62004 TACCCCGATT
Statistics
Matches: 72, Mismatches: 4, Indels: 11
0.83 0.05 0.13
Matches are distributed among these distances:
43 3 0.04
44 2 0.03
45 32 0.44
46 5 0.07
47 30 0.42
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.29
Consensus pattern (47 bp):
AGATTTGATATTCCCTCAGAGGAAGCGGAACAAATCCTTATCTTTTA
Found at i:62056 original size:156 final size:160
Alignment explanation
Indices: 61770--62096 Score: 527
Period size: 156 Copynumber: 2.1 Consensus size: 160
61760 TTCCCATATC
*
61770 TGATATTCCCTCAGAGGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTGAGTGAC
1 TGATATTCCCTCAGAGGAAGCGGAAAAGATCTCTCTCTTTCAAGATTTGATATTCCCTGAGTGAC
*
61835 AGCGGAACAAATCTACCCTGATTCAATGGATCAACTCTCCCAGATCTGATACTCCCTCAGAGGAA
66 AGCGGAACAAATCTACCCCGATTCAATGGATCAACTCTCCCAGATCTGATACTCCCTCAGAGGAA
61900 GCGGAACAAATC-CTTATTTTTT-AAGATT
131 GCGGAACAAATCTCTTATTTTTTCAAGATT
61928 TGATATTCCCTCAGAGGAAGCGGAAAAGATCTCTCT-TTT-AAGATTTGATATTCCCTGAGTGAC
1 TGATATTCCCTCAGAGGAAGCGGAAAAGATCTCTCTCTTTCAAGATTTGATATTCCCTGAGTGAC
** * * *
61991 AGCGGAACAAATCTACCCCGATTCAATGGATCAACTCTCTTAGATCTGATATTCTCTTAGAGGAA
66 AGCGGAACAAATCTACCCCGATTCAATGGATCAACTCTCCCAGATCTGATACTCCCTCAGAGGAA
* * * *
62056 GTGGAACAGATCTTTTTTTTTTTCAAGATT
131 GCGGAACAAATCTCTTATTTTTTCAAGATT
62086 TGATATTCCCT
1 TGATATTCCCT
62097 GAGTGACAGC
Statistics
Matches: 156, Mismatches: 11, Indels: 4
0.91 0.06 0.02
Matches are distributed among these distances:
156 93 0.60
157 11 0.07
158 52 0.33
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (160 bp):
TGATATTCCCTCAGAGGAAGCGGAAAAGATCTCTCTCTTTCAAGATTTGATATTCCCTGAGTGAC
AGCGGAACAAATCTACCCCGATTCAATGGATCAACTCTCCCAGATCTGATACTCCCTCAGAGGAA
GCGGAACAAATCTCTTATTTTTTCAAGATT
Found at i:62151 original size:269 final size:268
Alignment explanation
Indices: 61654--62160 Score: 795
Period size: 269 Copynumber: 1.9 Consensus size: 268
61644 CAACTCTCAC
61654 AGATCTGATATTCCCTCAGAGGAAGCGGAACAAATCTCTTTCTTTCAAGATTTGATATTCCCTGA
1 AGATCTGATATTCCCTCAGAGGAAGCGGAACAAATCTC-TTCTTTCAAGATTTGATATTCCCTGA
* *
61719 GTGACAGCGGAACAAATCTACCCCGATTCAATGGATCAACTTTCCCATATCTGATATTCCCTCAG
65 GTGACAGCGGAACAAATCTACCCCGATTCAATGGATCAACTCTCCCAGATCTGATATTCCCTCAG
*
61784 AGGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAATCT
130 AGGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAATAT
*
61849 ACCCTGATTCAATGGATCAACTCTCCCAGATCTGATACTCCCTCAGAGGAAGCGGAACAAATCCT
195 ACCCTGATTCAATGAATCAACTCTCCCAGATCTGATACTCCCTCAGAGGAAGCGGAACAAATCCT
61914 TATTTTTTA
260 TATTTTTTA
* *
61923 AGATTTGATATTCCCTCAGAGGAAGCGGAA-AAGATCTC-TCTTTTAAGATTTGATATTCCCTGA
1 AGATCTGATATTCCCTCAGAGGAAGCGGAACAA-ATCTCTTCTTTCAAGATTTGATATTCCCTGA
** * *
61986 GTGACAGCGGAACAAATCTACCCCGATTCAATGGATCAACTCTCTTAGATCTGATATTCTCTTAG
65 GTGACAGCGGAACAAATCTACCCCGATTCAATGGATCAACTCTCCCAGATCTGATATTCCCTCAG
* * * * *
62051 AGGAAGTGGAACAGATCTTTTTTTTTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGT
130 AGGAAGCGGAACAGATC--TCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAAT
* *
62116 ATACCCTGATTCAATGAATCAACATCT-CTAGATCTGATATTCCCT
193 ATACCCTGATTCAATGAATCAAC-TCTCCCAGATCTGATACTCCCT
62161 GAGTGACAGT
Statistics
Matches: 217, Mismatches: 17, Indels: 8
0.90 0.07 0.03
Matches are distributed among these distances:
267 99 0.46
268 2 0.01
269 113 0.52
270 3 0.01
ACGTcount: A:0.30, C:0.23, G:0.17, T:0.30
Consensus pattern (268 bp):
AGATCTGATATTCCCTCAGAGGAAGCGGAACAAATCTCTTCTTTCAAGATTTGATATTCCCTGAG
TGACAGCGGAACAAATCTACCCCGATTCAATGGATCAACTCTCCCAGATCTGATATTCCCTCAGA
GGAAGCGGAACAGATCTCTCTCTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAATATA
CCCTGATTCAATGAATCAACTCTCCCAGATCTGATACTCCCTCAGAGGAAGCGGAACAAATCCTT
ATTTTTTA
Found at i:62172 original size:113 final size:112
Alignment explanation
Indices: 61963--62176 Score: 326
Period size: 113 Copynumber: 1.9 Consensus size: 112
61953 AAGATCTCTC
* *
61963 TTTTAAGATTTGATATTCCCTGAGTGACAGCGGAACAAATCTACCCCGATTCAATGGATCAACTC
1 TTTTAAGATTTGATATTCCCTGAGTGACAGCGGAACAAATATACCCCGATTCAATGAATCAACTC
*
62028 TCTTAGATCTGATATTCTCTTAGAGGAAGTGGAACAGATCTTTTTTT
66 TCTTAGATCTGATATTCTCCTAGAGGAAGTGGAACAGATCTTTTTTT
* *
62075 TTTTCAAGATTTGATATTCCCTGAGTGACAGCGGAACAAGTATACCCTGATTCAATGAATCAACA
1 TTTT-AAGATTTGATATTCCCTGAGTGACAGCGGAACAAATATACCCCGATTCAATGAATCAAC-
62140 TCTC-TAGATCTGATATTC-CCT-GAGTGACAGTGGAACA
64 TCTCTTAGATCTGATATTCTCCTAGAG-GA-AGTGGAACA
62177 TACCCCTCAT
Statistics
Matches: 93, Mismatches: 5, Indels: 7
0.89 0.05 0.07
Matches are distributed among these distances:
111 3 0.03
112 8 0.09
113 78 0.84
114 4 0.04
ACGTcount: A:0.30, C:0.20, G:0.18, T:0.32
Consensus pattern (112 bp):
TTTTAAGATTTGATATTCCCTGAGTGACAGCGGAACAAATATACCCCGATTCAATGAATCAACTC
TCTTAGATCTGATATTCTCCTAGAGGAAGTGGAACAGATCTTTTTTT
Found at i:62330 original size:3 final size:3
Alignment explanation
Indices: 62318--62380 Score: 119
Period size: 3 Copynumber: 21.3 Consensus size: 3
62308 CGTCTTTTAA
62318 TAT T-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
62365 TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT T
62381 GTATTTTACA
Statistics
Matches: 59, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 57 0.97
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:63067 original size:55 final size:55
Alignment explanation
Indices: 62981--63091 Score: 181
Period size: 55 Copynumber: 2.0 Consensus size: 55
62971 CGGTTACTAC
62981 ACATGCACTATGTGTGCAAAACCATGAAATTCATCATAAGTTGATGAA-TAACCGT
1 ACATGCACTATGTGTGCAAAACCATGAAATTCATCATAAGTTGATGAACT-ACCGT
*
63036 ACATGCACTATGTGTGCAAAACCAT-ATAATTCATCATGAGTTGATGAACTACCGT
1 ACATGCACTATGTGTGCAAAACCATGA-AATTCATCATAAGTTGATGAACTACCGT
63091 A
1 A
63092 TTAATAAATG
Statistics
Matches: 53, Mismatches: 1, Indels: 4
0.91 0.02 0.07
Matches are distributed among these distances:
54 1 0.02
55 51 0.96
56 1 0.02
ACGTcount: A:0.37, C:0.19, G:0.16, T:0.28
Consensus pattern (55 bp):
ACATGCACTATGTGTGCAAAACCATGAAATTCATCATAAGTTGATGAACTACCGT
Found at i:63422 original size:22 final size:22
Alignment explanation
Indices: 63396--63438 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
63386 GCAAGTTAAG
63396 TGAAAAGCTAAATACCTTTGGA
1 TGAAAAGCTAAATACCTTTGGA
63418 TGAAAAGCTAAATACCTTTGG
1 TGAAAAGCTAAATACCTTTGG
63439 GTAAAAGAAT
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:0.40, C:0.14, G:0.19, T:0.28
Consensus pattern (22 bp):
TGAAAAGCTAAATACCTTTGGA
Found at i:63451 original size:22 final size:22
Alignment explanation
Indices: 63396--63451 Score: 69
Period size: 22 Copynumber: 2.5 Consensus size: 22
63386 GCAAGTTAAG
*
63396 TGAAAAGCTAAATACCTTTGGA
1 TGAAAAGATAAATACCTTTGGA
* *
63418 TGAAAAGCTAAATACCTTTGGG
1 TGAAAAGATAAATACCTTTGGA
63440 T-AAAAGAATAAA
1 TGAAAAG-ATAAA
63452 GGAATTTTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
21 5 0.16
22 26 0.84
ACGTcount: A:0.46, C:0.11, G:0.18, T:0.25
Consensus pattern (22 bp):
TGAAAAGATAAATACCTTTGGA
Found at i:67890 original size:33 final size:34
Alignment explanation
Indices: 67838--67903 Score: 91
Period size: 33 Copynumber: 2.0 Consensus size: 34
67828 CATACATGCT
*
67838 AAATCAAGTTGTAGCATGCTTTATAAC-ACAAGTA
1 AAATCAAGGTGTAGCATGCTTTAT-ACTACAAGTA
*
67872 AAAT-AAGGTGTAGTATGCTTTATACTACAAGT
1 AAATCAAGGTGTAGCATGCTTTATACTACAAGT
67904 CAACACATTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
32 2 0.07
33 23 0.79
34 4 0.14
ACGTcount: A:0.39, C:0.12, G:0.17, T:0.32
Consensus pattern (34 bp):
AAATCAAGGTGTAGCATGCTTTATACTACAAGTA
Found at i:70102 original size:10 final size:10
Alignment explanation
Indices: 70087--70115 Score: 58
Period size: 10 Copynumber: 2.9 Consensus size: 10
70077 ACTTATTTGG
70087 GAGAAAATGA
1 GAGAAAATGA
70097 GAGAAAATGA
1 GAGAAAATGA
70107 GAGAAAATG
1 GAGAAAATG
70116 GAGTAAGTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.59, C:0.00, G:0.31, T:0.10
Consensus pattern (10 bp):
GAGAAAATGA
Found at i:74581 original size:20 final size:20
Alignment explanation
Indices: 74509--74580 Score: 110
Period size: 20 Copynumber: 3.6 Consensus size: 20
74499 TATTCAAGTG
74509 GTATCGATACCAAGAGGGGA
1 GTATCGATACCAAGAGGGGA
74529 GTATCGATACCAAGAGGGGA
1 GTATCGATACCAAGAGGGGA
* *
74549 GTATCGATACCATGAGGATG-
1 GTATCGATACCAAGAGG-GGA
74569 GTATCGATACCA
1 GTATCGATACCA
74581 TTGATCATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
20 48 0.98
21 1 0.02
ACGTcount: A:0.33, C:0.17, G:0.31, T:0.19
Consensus pattern (20 bp):
GTATCGATACCAAGAGGGGA
Found at i:75194 original size:109 final size:111
Alignment explanation
Indices: 74976--75194 Score: 336
Period size: 109 Copynumber: 2.0 Consensus size: 111
74966 ATTACCAAAT
* *** *
74976 GGCACTAAGTGTGCAAAAACTTAAGAAATCATACTAAGTGTATGAATTTTGGTATGGGCACTTTG
1 GGCACTAAGTGTGCAAAAACTTAAGAAATCATACCAAGTGTATGAATTTCCATATGGGCACTATG
75041 TGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTCTGTATA
66 TGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTCTGTATA
*
75087 GGCACTATGTGTGC-AAAAC-TAAGAAATTCATACCAAGTGTATGAATTTCCATATGGGCACTAT
1 GGCACTAAGTGTGCAAAAACTTAAGAAA-TCATACCAAGTGTATGAATTTCCATATGGGCACTAT
* *
75150 GTGTGC-AAACTAAGAAATCCATACTAAGTGTATTAATTTTTGTAT
65 GTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTCTGTAT
75195 GGGAAATATA
Statistics
Matches: 99, Mismatches: 8, Indels: 4
0.89 0.07 0.04
Matches are distributed among these distances:
109 44 0.44
110 42 0.42
111 13 0.13
ACGTcount: A:0.36, C:0.14, G:0.19, T:0.32
Consensus pattern (111 bp):
GGCACTAAGTGTGCAAAAACTTAAGAAATCATACCAAGTGTATGAATTTCCATATGGGCACTATG
TGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTCTGTATA
Found at i:75196 original size:54 final size:55
Alignment explanation
Indices: 74976--75197 Score: 315
Period size: 55 Copynumber: 4.0 Consensus size: 55
74966 ATTACCAAAT
*
74976 GGCACTAAGTGTGCAAAAACTTAAGAAAT-CATACTAAGTGTATGAATTT-TGGTATG
1 GGCACTATGTGTGC-AAAAC-TAAGAAATCCATACTAAGTGTATGAATTTCT-GTATG
* *
75032 GGCACTTTGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTCTGTATA
1 GGCACTATGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTCTGTATG
* * **
75087 GGCACTATGTGTGCAAAACTAAGAAATTCATACCAAGTGTATGAATTTCCATATG
1 GGCACTATGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTCTGTATG
* *
75142 GGCACTATGTGTGC-AAACTAAGAAATCCATACTAAGTGTATTAATTTTTGTATG
1 GGCACTATGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTCTGTATG
75196 GG
1 GG
75198 AAATATATGT
Statistics
Matches: 149, Mismatches: 15, Indels: 6
0.88 0.09 0.04
Matches are distributed among these distances:
54 44 0.30
55 92 0.62
56 13 0.09
ACGTcount: A:0.35, C:0.14, G:0.20, T:0.32
Consensus pattern (55 bp):
GGCACTATGTGTGCAAAACTAAGAAATCCATACTAAGTGTATGAATTTCTGTATG
Found at i:75489 original size:68 final size:68
Alignment explanation
Indices: 75415--75712 Score: 497
Period size: 68 Copynumber: 4.4 Consensus size: 68
75405 ACTAGGTCTG
* * * *
75415 ACTGTGCATTTAACATAAAGGTTTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGC
1 ACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
*
75480 TTA
66 CTA
*
75483 ACTGTGCATTTGACATAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
1 ACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
75548 CTA
66 CTA
* *
75551 ACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
1 ACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
75616 CTA
66 CTA
*
75619 ACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGTAAGGCTAAGTGCCTTTGAGGC
1 ACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
75684 CTA
66 CTA
* *
75687 AATGTGCATTTGAAAGAAAGGTGTCA
1 ACTGTGCATTTGACAGAAAGGTGTCA
75713 TGAAAGGTTA
Statistics
Matches: 218, Mismatches: 12, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 218 1.00
ACGTcount: A:0.31, C:0.15, G:0.24, T:0.30
Consensus pattern (68 bp):
ACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
CTA
Found at i:75659 original size:136 final size:136
Alignment explanation
Indices: 75415--76067 Score: 775
Period size: 136 Copynumber: 4.8 Consensus size: 136
75405 ACTAGGTCTG
* * * * *
75415 ACTGTGCATTTAACATAAAGGTTTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGC
1 ACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
* *
75480 TTAACTGTGCATTTGACATAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
66 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
75545 GGCCTA
131 GGCCTA
*
75551 ACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
1 ACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
*
75616 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGTAAGGCTAAGTGCCTTTGA
66 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
75681 GGCCTA
131 GGCCTA
* * *
75687 AATGTGCATTTGAAAGAAA-G-G-------TGTC------ATGAAAGGTTAAGTGCCTTTGAGGC
1 ACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
* * *
75737 CTAACTGTGCATTTGACAGAAATAG-GTCAATTATGCCAATTAGATGAAAGGCT-AGTGCCATTG
66 CTAACTGTGCATTTGACAGAAA-GGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTG
75800 AGGCCTA
130 AGGCCTA
*
75807 ACTATGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
1 ACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
* * *
75872 CTAACTGTGCATTTGACAAAAATGTGTCAATTATGCTAGTTAGATGAAAGGCTAAGTGCCTTTGA
66 CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
*
75937 GGCTTA
131 GGCCTA
* * * * ** * * * *
75943 ATTGTACATTT-ACAAAAATGTGTCAATTATACCAGTTAGATGAACGGTTAAATACCGTTGAGTA
1 ACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCC-TT---T-
*
76007 AAAGATAAATGGTCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
61 ---G----A-GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
76068 CGGTTAAAGA
Statistics
Matches: 445, Mismatches: 41, Indels: 50
0.83 0.08 0.09
Matches are distributed among these distances:
120 32 0.07
121 73 0.16
122 2 0.00
127 4 0.01
129 4 0.01
134 2 0.00
135 109 0.24
136 169 0.38
139 1 0.00
143 1 0.00
147 1 0.00
148 47 0.11
ACGTcount: A:0.32, C:0.14, G:0.24, T:0.30
Consensus pattern (136 bp):
ACTGTGCATTTGACAGAAAGGTGTCAATTATGTCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
CTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGA
GGCCTA
Found at i:75846 original size:188 final size:189
Alignment explanation
Indices: 75523--75900 Score: 636
Period size: 188 Copynumber: 2.0 Consensus size: 189
75513 TGCCAGTTAG
* *
75523 ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGTCAGT
1 ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAAT
* *
75588 TAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCC
66 TAGATGAAAGGCTAAGTGCCATTGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCC
*
75653 AGTTAGATGTAAGGCTAAGTGCCTTTGAGGCCTAAATGTGCATTTGA-AAGAAAGGTGTC
131 AGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAATGTGCATTTGACAA-AAAGGTGTC
*
75712 ATGAAAGGTTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAATAG-GTCAATTATGCCAA
1 ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAT-GTGTCAATTATGCCAA
*
75776 TTAGATGAAAGGCT-AGTGCCATTGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGT
65 TTAGATGAAAGGCTAAGTGCCATTGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGC
* *
75840 CAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAATGTGTC
130 CAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAATGTGCATTTGACAAAAAGGTGTC
75900 A
1 A
75901 ATTATGCTAG
Statistics
Matches: 178, Mismatches: 9, Indels: 5
0.93 0.05 0.03
Matches are distributed among these distances:
188 102 0.57
189 75 0.42
190 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.25, T:0.29
Consensus pattern (189 bp):
ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGCCAAT
TAGATGAAAGGCTAAGTGCCATTGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGCC
AGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAATGTGCATTTGACAAAAAGGTGTC
Found at i:75899 original size:68 final size:68
Alignment explanation
Indices: 75712--75986 Score: 403
Period size: 68 Copynumber: 4.1 Consensus size: 68
75702 GAAAGGTGTC
* * *
75712 ATGAAAGGTTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAATAG-GTCAATTATGCCAA
1 ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAAT-GTGTCAATTATGCCAG
75776 TTAG
65 TTAG
* * * * *
75780 ATGAAAGGCT-AGTGCCATTGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGTCAGT
1 ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAATGTGTCAATTATGCCAGT
75844 TAG
66 TAG
*
75847 ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAATGTGTCAATTATGCTAGT
1 ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAATGTGTCAATTATGCCAGT
75912 TAG
66 TAG
* * * *
75915 ATGAAAGGCTAAGTGCCTTTGAGGCTTAATTGTACATTT-ACAAAAATGTGTCAATTATACCAGT
1 ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAATGTGTCAATTATGCCAGT
75979 TAG
66 TAG
75982 ATGAA
1 ATGAA
75987 CGGTTAAATA
Statistics
Matches: 188, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
66 1 0.01
67 91 0.48
68 96 0.51
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (68 bp):
ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAATGTGTCAATTATGCCAGT
TAG
Found at i:75915 original size:256 final size:257
Alignment explanation
Indices: 75455--75953 Score: 831
Period size: 256 Copynumber: 1.9 Consensus size: 257
75445 TGCCAGTTAG
* * * *
75455 ATGAAAGGCTAAGTGCCTTTAAGGCTTAACTGTGCATTTGACATAAAGGTGTCAATTATGCCAGT
1 ATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTGCATTTGACAGAAAAGTGTCAATTATGCCAAT
* * *
75520 TAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAATGTGTCAATTATGTC
66 TAGATGAAAGGCTAAGTGCCATTGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGTC
*
75585 AGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTAT
131 AGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTAT
* *
75650 GCCAGTTAGATGTAAGGCTAAGTGCCTTTGAGGCCTAAATGTGCATTTGAAAGAAAGGTGTC
196 GCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAATGTACATTTGAAAGAAAGGTGTC
* *
75712 ATGAAAGGTTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAATAG-GTCAATTATGCCAA
1 ATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTGCATTTGACAGAAA-AGTGTCAATTATGCCAA
75776 TTAGATGAAAGGCT-AGTGCCATTGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGT
65 TTAGATGAAAGGCTAAGTGCCATTGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGT
*
75840 CAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAATGTGTCAATTA
130 CAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTA
* * *
75905 TGCTAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCTTAATTGTACATTT
195 TGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAATGTACATTT
75954 ACAAAAATGT
Statistics
Matches: 225, Mismatches: 16, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
256 154 0.68
257 70 0.31
258 1 0.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (257 bp):
ATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTGCATTTGACAGAAAAGTGTCAATTATGCCAAT
TAGATGAAAGGCTAAGTGCCATTGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGTC
AGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAAGGTGTCAATTAT
GCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAATGTACATTTGAAAGAAAGGTGTC
Found at i:76004 original size:135 final size:135
Alignment explanation
Indices: 75712--75993 Score: 406
Period size: 135 Copynumber: 2.1 Consensus size: 135
75702 GAAAGGTGTC
*
75712 ATGAAAGGTTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGAAATAGGTCAATTATGCCAAT
1 ATGAAAGGTTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAATAGGTCAATTATGCCAAT
* * **
75777 TAGATGAAAGGCTAGTGCCATTGAGGCCTAACTATGCATTTGACAGAAAGGTGTCAATTATGTCA
66 TAGATGAAAGGCTAGTGCCATTGAGGCCTAACTATACATTTGACAAAAAGGTGTCAATTATACCA
75842 GTTAG
131 GTTAG
* * *
75847 ATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAAT-GTGTCAATTATGCTAG
1 ATGAAAGGTTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAATAG-GTCAATTATGCCAA
* * * * *
75911 TTAGATGAAAGGCTAAGTGCCTTTGAGGCTTAATTGTACATTT-ACAAAAATGTGTCAATTATAC
65 TTAGATGAAAGGCT-AGTGCCATTGAGGCCTAACTATACATTTGACAAAAAGGTGTCAATTATAC
75975 CAGTTAG
129 CAGTTAG
*
75982 ATGAACGGTTAA
1 ATGAAAGGTTAA
75994 ATACCGTTGA
Statistics
Matches: 130, Mismatches: 15, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
134 1 0.01
135 106 0.82
136 23 0.18
ACGTcount: A:0.33, C:0.14, G:0.23, T:0.30
Consensus pattern (135 bp):
ATGAAAGGTTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAAAAATAGGTCAATTATGCCAAT
TAGATGAAAGGCTAGTGCCATTGAGGCCTAACTATACATTTGACAAAAAGGTGTCAATTATACCA
GTTAG
Found at i:76097 original size:81 final size:80
Alignment explanation
Indices: 75949--76237 Score: 402
Period size: 81 Copynumber: 3.6 Consensus size: 80
75939 CTTAATTGTA
* * *
75949 CATTT-ACAAAAATGTGTCAATTATACCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGAT
1 CATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAA-ACCGTTGAGTAAAAGAT
*
76013 AAATGGTCTAACTGTG
65 AAATGGCCTAACTGTG
76029 CATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGAT
1 CATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAA-ACCGTTGAGTAAAAGAT
*
76094 AAATGGCCTAACTATG
65 AAATGGCCTAACTGTG
* * *
76110 CATTTGACAGAAAGATGTCAATTATGCCAGTTAGATGAATGGTTAAAAGCGATTGAGTAAAAGAT
1 CATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAACCG-TTGAGTAAAAGAT
*
76175 AAATGGCCTAGCTGTG
65 AAATGGCCTAACTGTG
* * * * *
76191 CAATTGGCAGACAA-GTGTCAATCATGCAAGTTAGATGAAAGGTTAAA
1 CATTTGACAGA-AAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAA
76238 TGCCTTTGGG
Statistics
Matches: 189, Mismatches: 17, Indels: 5
0.90 0.08 0.02
Matches are distributed among these distances:
80 8 0.04
81 179 0.95
82 2 0.01
ACGTcount: A:0.38, C:0.12, G:0.22, T:0.27
Consensus pattern (80 bp):
CATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAACCGTTGAGTAAAAGATA
AATGGCCTAACTGTG
Found at i:76275 original size:162 final size:162
Alignment explanation
Indices: 75963--76277 Score: 406
Period size: 162 Copynumber: 1.9 Consensus size: 162
75953 TACAAAAATG
*
75963 TGTCAATTATACCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATAAATGGTCTAACTGT
1 TGTCAATTATACCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATAAATGGCCTAACTGT
* * * * *
76028 GCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAGACCGTTGAGTAAAAGA
66 GCAATTGACAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGGTTAAAGACCGTTGAGTAAAACA
**
76093 TAAATGGCCTAACTATGCATTTGACAGAAAGA
131 TAAATGGAATAACTATGCATTTGACAGAAAGA
* * * *
76125 TGTCAATTATGCCAGTTAGATGAATGGTTAAA-AGCGATTGAGTAAAAGATAAATGGCCTAGCTG
1 TGTCAATTATACCAGTTAGATGAACGGTTAAATACCG-TTGAGTAAAAGATAAATGGCCTAACTG
* * *
76189 TGCAATTGGCAGACAA-GTGTCAATCATGCAAGTTAGATGAAAGGTTAAATG-CCTTTGGGTAAA
65 TGCAATTGACAGA-AAGGTGTCAATCATGCAAGTTAGATGAAAGGTTAAA-GACCGTTGAGTAAA
*
76252 ACACTAAA-GGAATTA-TAATGCATTTG
128 ACA-TAAATGGAATAACT-ATGCATTTG
76278 GATATAAACG
Statistics
Matches: 132, Mismatches: 16, Indels: 10
0.84 0.10 0.06
Matches are distributed among these distances:
161 4 0.03
162 121 0.92
163 7 0.05
ACGTcount: A:0.37, C:0.12, G:0.23, T:0.28
Consensus pattern (162 bp):
TGTCAATTATACCAGTTAGATGAACGGTTAAATACCGTTGAGTAAAAGATAAATGGCCTAACTGT
GCAATTGACAGAAAGGTGTCAATCATGCAAGTTAGATGAAAGGTTAAAGACCGTTGAGTAAAACA
TAAATGGAATAACTATGCATTTGACAGAAAGA
Found at i:79046 original size:229 final size:229
Alignment explanation
Indices: 78589--79046 Score: 589
Period size: 229 Copynumber: 2.0 Consensus size: 229
78579 GTTAAGGCAA
* * * *
78589 TTCATGGTGGCCGAGGAGCTCACGGTAGTGCACGTTGGGAGTTTTCCTCCACCCTTTTTGCTTTA
1 TTCATGGTGGCCGAAGAGCTCACGGCAGTCCACGTTGGGAGTTTTCCTCCACCCTTTTTGCTTCA
*
78654 TTTTTGTTATTCAACGGGTTACATTGAAATGATTATTTTTATGAATGATTTCAACTCAACATGAA
66 TTTTTGTTATTCAACGGGTTACATGGAAATGATTATTTTTATGAATGATTTCAACTCAACATGAA
* * * *
78719 CTAAACCTTATTTAGTGGGGTTTGTGATGGATTATTAAGTGTTTTTATTTAATGAATTGTTGATT
131 CTAAACCTTATTTAGTGGGGTTTATGATGGATGATTAAGTGTTTTTATTTAATGAATGGTTGATG
* *
78784 CTTTTATGTTTATCACTTATTTTGTTCATTGTTT
196 CTTTCATGTTTATCACTTATTTAGTTCATTGTTT
* * *
78818 TTCATGGTGGCCGAAGAGCTCATGGCAGTCCACGTTGGGAGTTTTCCTCCACCTTTTTTTCTTCA
1 TTCATGGTGGCCGAAGAGCTCACGGCAGTCCACGTTGGGAGTTTTCCTCCACCCTTTTTGCTTCA
* ** * ** * * * * * *
78883 TTTATTTTTATTTGATGGGTTGTATGGAACGTG-TTGTTTTTATGGATGGTTTGAACCTCACCAT
66 TTT-TTGTTATTCAACGGGTTACATGGAA-ATGATTATTTTTATGAATGATTTCAA-CTCAACAT
* *
78947 GAACTAAACCTTATTTGGTGGGGTTTATGATGGATGATTAAGTG-TTTTCTTTAATGAATGGTTG
128 GAACTAAACCTTATTTAGTGGGGTTTATGATGGATGATTAAGTGTTTTTATTTAATGAATGGTTG
* * *
79011 ATGC-TTCATGTTTGTCACTTGTTTAGTTTATTGTTT
193 ATGCTTTCATGTTTATCACTTATTTAGTTCATTGTTT
79047 CGAATTACTT
Statistics
Matches: 195, Mismatches: 31, Indels: 6
0.84 0.13 0.03
Matches are distributed among these distances:
229 88 0.45
230 57 0.29
231 50 0.26
ACGTcount: A:0.21, C:0.13, G:0.21, T:0.45
Consensus pattern (229 bp):
TTCATGGTGGCCGAAGAGCTCACGGCAGTCCACGTTGGGAGTTTTCCTCCACCCTTTTTGCTTCA
TTTTTGTTATTCAACGGGTTACATGGAAATGATTATTTTTATGAATGATTTCAACTCAACATGAA
CTAAACCTTATTTAGTGGGGTTTATGATGGATGATTAAGTGTTTTTATTTAATGAATGGTTGATG
CTTTCATGTTTATCACTTATTTAGTTCATTGTTT
Found at i:84146 original size:58 final size:58
Alignment explanation
Indices: 84018--84150 Score: 151
Period size: 58 Copynumber: 2.3 Consensus size: 58
84008 TACCGAATGA
*** *
84018 CATTTTGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATAGAG
1 CATTTTGTGTGCT-AAATGATAAGGAAATCATACTGAAAATATAGATCTCCATATAGAG
* * * * *
84077 CACTGTGTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATCTCC-TGATAGGG
1 CATTTTGTGTGCTAAATGATAAGGAAATCATACTGAAAATATAGATCTCCAT-ATAGAG
*
84135 CATTTTATGTGCTAAA
1 CATTTTGTGTGCTAAA
84151 ATGGTAGGAA
Statistics
Matches: 61, Mismatches: 12, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
57 1 0.02
58 49 0.80
59 11 0.18
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (58 bp):
CATTTTGTGTGCTAAATGATAAGGAAATCATACTGAAAATATAGATCTCCATATAGAG
Found at i:84249 original size:116 final size:116
Alignment explanation
Indices: 84018--84272 Score: 289
Period size: 116 Copynumber: 2.2 Consensus size: 116
84008 TACCGAATGA
* * * * * **
84018 CATTTTGTGTGCTAAAATGATAAGGAAATCATACTGAGTGTATAGATTTCCATATAGAGCACTGT
1 CATTTTATGTGCTAAAATGGT-AGGAAATCATACTGAGTGTATAGATTTCCAGATAAAACACTAA
* * * * **
84083 GTGTGCTAAATGATAAGGAAATCATATTGAAAATATGGATCTCCTGATAGGG
65 GGGTGCTAAAAGATAAGAAAATCATACTGAAAATATGGATCTCCACATAGGG
* *
84135 CATTTTATGTGCTAAAATGGTAGG-AATTATACTGAGTGTATGGATTTCCAGATAAAACACTAAG
1 CATTTTATGTGCTAAAATGGTAGGAAATCATACTGAGTGTATAGATTTCCAGATAAAACACTAAG
** * *
84199 GGTGCTACAAAGATAAGAAAATCATACT-AATGGTATGGATTTTCACATAGGG
66 GGTGCTA-AAAGATAAGAAAATCATACTGAA-AATATGGATCTCCACATAGGG
*
84251 CATTTCATGTGCTAAAATGGTA
1 CATTTTATGTGCTAAAATGGTA
84273 ACAAAATCGT
Statistics
Matches: 116, Mismatches: 20, Indels: 5
0.82 0.14 0.04
Matches are distributed among these distances:
115 41 0.35
116 56 0.48
117 19 0.16
ACGTcount: A:0.36, C:0.11, G:0.22, T:0.31
Consensus pattern (116 bp):
CATTTTATGTGCTAAAATGGTAGGAAATCATACTGAGTGTATAGATTTCCAGATAAAACACTAAG
GGTGCTAAAAGATAAGAAAATCATACTGAAAATATGGATCTCCACATAGGG
Found at i:84308 original size:59 final size:59
Alignment explanation
Indices: 84216--84328 Score: 138
Period size: 59 Copynumber: 1.9 Consensus size: 59
84206 CAAAGATAAG
* * *
84216 AAAATCATACTAATGGTATGGATTTTCACATAGGGCATTTCATGTGCTAAAATGGTAAC
1 AAAATCATACTAATGGTATGAATTTTCACATAGGCCACTTCATGTGCTAAAATGGTAAC
* * * * *
84275 AAAATCGTATTAATGGTATGAATTTTTGA-ATAGGCCACTTCGTGTGTTAAAATG
1 AAAATCATACTAATGGTATGAA-TTTTCACATAGGCCACTTCATGTGCTAAAATG
84329 AAAGGGGAAG
Statistics
Matches: 45, Mismatches: 8, Indels: 2
0.82 0.15 0.04
Matches are distributed among these distances:
59 40 0.89
60 5 0.11
ACGTcount: A:0.35, C:0.12, G:0.19, T:0.35
Consensus pattern (59 bp):
AAAATCATACTAATGGTATGAATTTTCACATAGGCCACTTCATGTGCTAAAATGGTAAC
Found at i:84942 original size:22 final size:22
Alignment explanation
Indices: 84914--84956 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
84904 TACATGCTCA
84914 TCACTGTTCACAGTACTGTTCG
1 TCACTGTTCACAGTACTGTTCG
*
84936 TCACTGTTCACAGTATTGTTC
1 TCACTGTTCACAGTACTGTTC
84957 ATGCCATATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.19, C:0.26, G:0.16, T:0.40
Consensus pattern (22 bp):
TCACTGTTCACAGTACTGTTCG
Found at i:86910 original size:2 final size:2
Alignment explanation
Indices: 86903--86936 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
86893 TAGCATCCAT
86903 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
86937 AATAAATAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:94171 original size:3 final size:3
Alignment explanation
Indices: 94163--94204 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
94153 AAATAAAATG
94163 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
94205 GTTCGGATGA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:95090 original size:123 final size:123
Alignment explanation
Indices: 94811--95110 Score: 338
Period size: 123 Copynumber: 2.4 Consensus size: 123
94801 AACTGGTAAT
* *
94811 TGATCCATTCCACTTGCTGAAGGAAATTGAATCTGGTGACGATCTCACTCTTTTCTCTAAAGGAA
1 TGATCCATTCCTCTTGCTGAAGAAAATTGAATCTGGTGA-GATCTCACTCTTTTCTCTAAA-GAA
* * * * * * *
94876 ACTGAGTCGTGAGACTATCTTACTCCTTCCTCTGAAGTACGTTAAGTCTTAATTGGTAGG
64 ACTGAGTCGTGACACGATCTTACTCCTCCCTCTAAAGGACGCTAAGTCGTAATTGGTAGG
* * ** * *
94936 TAATCCACTCCTCTTGCTGAA-AGAAGCTGAATCTAGTG-GATCTCACTC-TTTCTTTTGAAA-A
1 TGATCCATTCCTCTTGCTGAAGA-AAATTGAATCTGGTGAGATCTCACTCTTTTC-TCT-AAAGA
*
94997 AAGCTGAGTCGTGACACGATCTTACTCCTCCCTCTAAAGGACGCTAAGTCGTATTTGGTAGG
63 AA-CTGAGTCGTGACACGATCTTACTCCTCCCTCTAAAGGACGCTAAGTCGTAATTGGTAGG
* * *
95059 TGATCCATTCCTGTTACTGAAGAAAATTGAATTTGGTGACGATCTCACTCTT
1 TGATCCATTCCTCTTGCTGAAGAAAATTGAATCTGGTGA-GATCTCACTCTT
95111 CGTAATACCC
Statistics
Matches: 143, Mismatches: 24, Indels: 15
0.79 0.13 0.08
Matches are distributed among these distances:
122 7 0.05
123 91 0.64
124 4 0.03
125 40 0.28
126 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (123 bp):
TGATCCATTCCTCTTGCTGAAGAAAATTGAATCTGGTGAGATCTCACTCTTTTCTCTAAAGAAAC
TGAGTCGTGACACGATCTTACTCCTCCCTCTAAAGGACGCTAAGTCGTAATTGGTAGG
Found at i:99957 original size:20 final size:20
Alignment explanation
Indices: 99914--99957 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
99904 GATAAAAAGT
* *
99914 AAAAGTTAAAAATGAAATAG
1 AAAAGTTAAAAATGAAAGAA
99934 AAAAGTTAAAGAA-GAAAGAA
1 AAAAGTTAAA-AATGAAAGAA
99954 AAAA
1 AAAA
99958 AAGAAAAAGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 19 0.90
21 2 0.10
ACGTcount: A:0.70, C:0.00, G:0.16, T:0.14
Consensus pattern (20 bp):
AAAAGTTAAAAATGAAAGAA
Found at i:100505 original size:36 final size:36
Alignment explanation
Indices: 100464--100539 Score: 143
Period size: 36 Copynumber: 2.1 Consensus size: 36
100454 ATTTTCGGGA
*
100464 TTTTGCTATTTTTGGCAAAATTCGAATAAATACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
100500 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
1 TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
100536 TTTT
1 TTTT
100540 TTAGCTATAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.32, C:0.11, G:0.14, T:0.43
Consensus pattern (36 bp):
TTTTGCTATTTTTGGCAAAATTCGAATAAAGACGAT
Found at i:106891 original size:23 final size:23
Alignment explanation
Indices: 106865--106913 Score: 64
Period size: 23 Copynumber: 2.1 Consensus size: 23
106855 ATAAAGAACC
*
106865 AAAATAAACT-TAAATATACCATT
1 AAAATAAACTCTAAACAT-CCATT
*
106888 AAAATAAAGTCTAAACATCCATT
1 AAAATAAACTCTAAACATCCATT
106911 AAA
1 AAA
106914 CCAACCACCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 17 0.74
24 6 0.26
ACGTcount: A:0.57, C:0.14, G:0.02, T:0.27
Consensus pattern (23 bp):
AAAATAAACTCTAAACATCCATT
Found at i:125503 original size:20 final size:20
Alignment explanation
Indices: 125480--125519 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
125470 TATTTCCACC
125480 AATGCAACTATATGATCCTA
1 AATGCAACTATATGATCCTA
*
125500 AATGCATCTATATGATCCTA
1 AATGCAACTATATGATCCTA
125520 TAAAAGCTCT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.38, C:0.20, G:0.10, T:0.33
Consensus pattern (20 bp):
AATGCAACTATATGATCCTA
Found at i:136180 original size:32 final size:32
Alignment explanation
Indices: 136130--136210 Score: 126
Period size: 32 Copynumber: 2.5 Consensus size: 32
136120 TTTTCACCCT
*
136130 AAACCCGAACCCGACCCGAATATCACACTTAAA
1 AAACCCG-ACCCGACCCGAATATCAAACTTAAA
* *
136163 AAACCCGACTCGACCCGAATATCAAACTTAGA
1 AAACCCGACCCGACCCGAATATCAAACTTAAA
136195 AAACCCGACCCGACCC
1 AAACCCGACCCGACCC
136211 AAACCCGAAA
Statistics
Matches: 44, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
32 37 0.84
33 7 0.16
ACGTcount: A:0.40, C:0.38, G:0.11, T:0.11
Consensus pattern (32 bp):
AAACCCGACCCGACCCGAATATCAAACTTAAA
Found at i:136570 original size:18 final size:18
Alignment explanation
Indices: 136547--136611 Score: 105
Period size: 18 Copynumber: 3.7 Consensus size: 18
136537 GTTTATGAGG
136547 GAATTGGAATCTGTGAAT
1 GAATTGGAATCTGTGAAT
136565 GAATTGGAATCTGTGAAT
1 GAATTGGAATCTGTGAAT
* *
136583 GAATTGGAATCTGT-CAG
1 GAATTGGAATCTGTGAAT
136600 GAATTGGAATCT
1 GAATTGGAATCT
136612 AATTTCATAT
Statistics
Matches: 45, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
17 13 0.29
18 32 0.71
ACGTcount: A:0.32, C:0.08, G:0.28, T:0.32
Consensus pattern (18 bp):
GAATTGGAATCTGTGAAT
Found at i:137236 original size:37 final size:38
Alignment explanation
Indices: 137166--137239 Score: 123
Period size: 38 Copynumber: 2.0 Consensus size: 38
137156 AAACCCAACC
*
137166 CGACCCGAATATCACACTTAAAAAAACCTGACCCGACT
1 CGACCCGAATATCACACTTAAAAAAACCCGACCCGACT
*
137204 CGACCTGAATATCACACTT-AAAAAACCCGACCCGAC
1 CGACCCGAATATCACACTTAAAAAAACCCGACCCGAC
137240 CCGAACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
37 16 0.47
38 18 0.53
ACGTcount: A:0.39, C:0.35, G:0.11, T:0.15
Consensus pattern (38 bp):
CGACCCGAATATCACACTTAAAAAAACCCGACCCGACT
Found at i:151565 original size:6 final size:6
Alignment explanation
Indices: 151554--151586 Score: 57
Period size: 6 Copynumber: 5.5 Consensus size: 6
151544 ACTTAAGTGC
*
151554 AGCACG AGCACG AGCACG AGCACG AGCATG AGC
1 AGCACG AGCACG AGCACG AGCACG AGCACG AGC
151587 TGATGAGTTA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.33, C:0.30, G:0.33, T:0.03
Consensus pattern (6 bp):
AGCACG
Found at i:156990 original size:19 final size:20
Alignment explanation
Indices: 156966--157025 Score: 77
Period size: 19 Copynumber: 2.9 Consensus size: 20
156956 ATCAAAAAAA
156966 ATATTATAATTATAAAAAGT
1 ATATTATAATTATAAAAAGT
*
156986 A-ATTATAATTATAAAAATT
1 ATATTATAATTATAAAAAGT
157005 ATTATTAAATAATTATAAAAA
1 A-TATT--ATAATTATAAAAA
157026 TAGTTATATA
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
19 18 0.51
20 1 0.03
21 3 0.09
23 13 0.37
ACGTcount: A:0.58, C:0.00, G:0.02, T:0.40
Consensus pattern (20 bp):
ATATTATAATTATAAAAAGT
Found at i:157026 original size:12 final size:12
Alignment explanation
Indices: 156990--157033 Score: 54
Period size: 12 Copynumber: 3.8 Consensus size: 12
156980 AAAAGTAATT
156990 ATAATTATAAAA
1 ATAATTATAAAA
* *
157002 ATTATTAT-TAA
1 ATAATTATAAAA
157013 ATAATTATAAAA
1 ATAATTATAAAA
*
157025 ATAGTTATA
1 ATAATTATA
157034 TATTCTTATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
11 9 0.35
12 17 0.65
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (12 bp):
ATAATTATAAAA
Found at i:157032 original size:23 final size:21
Alignment explanation
Indices: 156967--157032 Score: 75
Period size: 23 Copynumber: 3.1 Consensus size: 21
156957 TCAAAAAAAA
156967 TATTATAATTAT-AAAA-AGT
1 TATTATAATTATAAAAATAGT
*
156986 AATTATAATTATAAAAATTA-T
1 TATTATAATTATAAAAA-TAGT
157007 TATTAAATAATTATAAAAATAGT
1 TATT--ATAATTATAAAAATAGT
157030 TAT
1 TAT
157033 ATATTCTTAT
Statistics
Matches: 39, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
19 11 0.28
20 4 0.10
21 4 0.10
22 3 0.08
23 17 0.44
ACGTcount: A:0.55, C:0.00, G:0.03, T:0.42
Consensus pattern (21 bp):
TATTATAATTATAAAAATAGT
Found at i:157126 original size:13 final size:13
Alignment explanation
Indices: 157108--157132 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
157098 CAGTATAATG
157108 TTTATTATATTAA
1 TTTATTATATTAA
157121 TTTATTATATTA
1 TTTATTATATTA
157133 GATCTTATCT
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (13 bp):
TTTATTATATTAA
Found at i:161620 original size:20 final size:20
Alignment explanation
Indices: 161591--161637 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
161581 TATTAGAAGC
*
161591 TAAGTCTAACATTATATCCA
1 TAAGTTTAACATTATATCCA
*
161611 TAAGTTTAACATTATGTCCA
1 TAAGTTTAACATTATATCCA
*
161631 TTAGTTT
1 TAAGTTT
161638 TAAGTAATTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.34, C:0.15, G:0.09, T:0.43
Consensus pattern (20 bp):
TAAGTTTAACATTATATCCA
Found at i:164132 original size:9 final size:9
Alignment explanation
Indices: 164120--164144 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
164110 AAAATTCAGT
164120 TTCGAGTTA
1 TTCGAGTTA
164129 TTCGAGTTA
1 TTCGAGTTA
164138 TTCGAGT
1 TTCGAGT
164145 CAACTTGAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.20, C:0.12, G:0.24, T:0.44
Consensus pattern (9 bp):
TTCGAGTTA
Found at i:164561 original size:152 final size:152
Alignment explanation
Indices: 164306--164653 Score: 416
Period size: 152 Copynumber: 2.3 Consensus size: 152
164296 TTTAAATCCA
* * *
164306 TTTTTACCAAATTTGAACTACATGCTCCTAAACCATAGTAGAATACATGTGTACTTTCAATCCAT
1 TTTTTACCAAATTTGAACCACATACTCCTAAACCATAGTAGAATACATGTATACTTTCAATCCAT
* * *
164371 ATTTTTGATAACAAAATTTTCATTTTAGTCCTTCAATTTTTCATAATCTCCTTATTTATTTAATT
66 ATTTTTGATAACAAAATTTTCAATTTAGTCCTTCAATTTTTCATAATCTCCTTATTCATTCAATT
164436 TGACATTTATTTTATGTCCTTT
131 TGACATTTATTTTATGTCCTTT
* * *
164458 TTTTTACCAAATTTGAGCCACATTACTTCTAAACCATAGTAGAATATATGTATACTTTCAATTCC
1 TTTTTACCAAATTTGAACCACA-TACTCCTAAACCATAGTAGAATACATGTATACTTTCAA-TCC
* * * * * *
164523 -TCTTTTTGATTA-TAATTTTTCAATTTAGTCCTTTAATTTTTCATAATCTCCTTATTCCTTCAA
64 ATATTTTTGATAACAAAATTTTCAATTTAGTCCTTCAATTTTTCATAATCTCCTTATTCATTCAA
** * **
164586 TTTGTGATTTATTTTAAGT--TCA
129 TTTGACATTTATTTTATGTCCTTT
* * * * * *
164608 TTTTTATCAAATTTGAACCACATGCTCATATACCACAATAGAATAC
1 TTTTTACCAAATTTGAACCACATACTCCTAAACCATAGTAGAATAC
164654 CTATGTAACT
Statistics
Matches: 165, Mismatches: 29, Indels: 7
0.82 0.14 0.03
Matches are distributed among these distances:
149 17 0.10
150 21 0.13
152 80 0.48
153 44 0.27
154 3 0.02
ACGTcount: A:0.30, C:0.18, G:0.07, T:0.46
Consensus pattern (152 bp):
TTTTTACCAAATTTGAACCACATACTCCTAAACCATAGTAGAATACATGTATACTTTCAATCCAT
ATTTTTGATAACAAAATTTTCAATTTAGTCCTTCAATTTTTCATAATCTCCTTATTCATTCAATT
TGACATTTATTTTATGTCCTTT
Found at i:165811 original size:29 final size:30
Alignment explanation
Indices: 165738--165812 Score: 89
Period size: 29 Copynumber: 2.5 Consensus size: 30
165728 ACGATTTAAC
*
165738 AGTTCAATGGTATAATTGAAACGAAAATCAA
1 AGTTCAATAGTATAATTGAAAC-AAAATCAA
* * * *
165769 AGTTCAATACTATAATTGATA-AAATTGAA
1 AGTTCAATAGTATAATTGAAACAAAATCAA
165798 AGTTCAATAGTATAA
1 AGTTCAATAGTATAA
165813 ACGATACAAC
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
29 20 0.53
31 18 0.47
ACGTcount: A:0.48, C:0.08, G:0.13, T:0.31
Consensus pattern (30 bp):
AGTTCAATAGTATAATTGAAACAAAATCAA
Found at i:168316 original size:18 final size:18
Alignment explanation
Indices: 168290--168324 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
168280 TCGAAAGGAC
168290 TGAAGTAAATAATAAGAT
1 TGAAGTAAATAATAAGAT
*
168308 TGAATTAAATAATAAGA
1 TGAAGTAAATAATAAGA
168325 CCGGATGGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.14, T:0.29
Consensus pattern (18 bp):
TGAAGTAAATAATAAGAT
Found at i:173159 original size:77 final size:79
Alignment explanation
Indices: 173017--173169 Score: 190
Period size: 77 Copynumber: 2.0 Consensus size: 79
173007 ATATAGTAAG
*
173017 TAAACATTAAAAGAATGTAATTTTGATTACAACTCTTTTAGTTGATATTTAATTCAGAATAATTA
1 TAAACATTAAAAGAATGTAATTTTGATTACAACTCTTTAAGTTGATATTTAATTCAGAATAATTA
173082 AATAAGATTTTAAA
66 AATAAGATTTTAAA
* * * *
173096 TAAACATT-AAAGATTGTAATTCTT-ATTATAAGTCTTTAA--TGTATATTTAATT-TGAATTAA
1 TAAACATTAAAAGAATGTAATT-TTGATTACAACTCTTTAAGTTG-ATATTTAATTCAGAA-TAA
*
173156 TTAAATAAGTTTTT
63 TTAAATAAGATTTT
173170 TTTATTAATT
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
76 5 0.08
77 26 0.40
78 24 0.37
79 10 0.15
ACGTcount: A:0.42, C:0.05, G:0.08, T:0.44
Consensus pattern (79 bp):
TAAACATTAAAAGAATGTAATTTTGATTACAACTCTTTAAGTTGATATTTAATTCAGAATAATTA
AATAAGATTTTAAA
Found at i:182171 original size:54 final size:54
Alignment explanation
Indices: 182092--182411 Score: 363
Period size: 54 Copynumber: 5.9 Consensus size: 54
182082 TTATGTGTAC
* * * * *
182092 TATCGGCACTATGTGTGCAATCCACGAAATTCATAATGGGTTTTTGAATTATCG
1 TATCGACACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCG
* * *
182146 TATCGGCAATATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCA
1 TATCGACACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCG
* * *
182200 TATCAACACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTTAATTATCG
1 TATCGACACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCG
* * * * * * * *
182254 TATCGGCAGTATGTGTGCAGCCTA-TAGAGTTCATAATGAGTTTGTGAATTGCCA
1 TATCGACACTATGTGTGCAACCCACGA-AATTCATAATGAGTTTGTGAATTACCG
* * * * *
182308 TAACAACACTATATGTGCAACCCACGAAATTCATAATGACTTTGTGAATTACAG
1 TATCGACACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCG
* * * * *
182362 TATCGACATTATGTGTGCAATCCATGGAATTCATAATAAGTTTGTGAATT
1 TATCGACACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATT
182412 TCCATTTTGG
Statistics
Matches: 219, Mismatches: 45, Indels: 4
0.82 0.17 0.01
Matches are distributed among these distances:
53 1 0.00
54 217 0.99
55 1 0.00
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (54 bp):
TATCGACACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCG
Found at i:182287 original size:108 final size:107
Alignment explanation
Indices: 182098--182416 Score: 419
Period size: 108 Copynumber: 3.0 Consensus size: 107
182088 GTACTATCGG
* *
182098 CACTATGTGTGCAATCCACGAAATTCATAATGGGTTT-TTGAATTATCGTATCGGCAATATGTGT
1 CACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTT-AATTATCGTATCGGCAATATGTGT
* *
182162 GCAACCCA-CGAAATTCATAATGAGTTTGTGAATTACCATATCAA
65 GCAA-CCATAG-AATTCATAATGAGTTTGTGAATTACCATAACAA
*
182206 CACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTTAATTATCGTATCGGCAGTATGTGTG
1 CACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTTAATTATCGTATCGGCAATATGTGTG
* * *
182271 CAGCCTATAGAGTTCATAATGAGTTTGTGAATTGCCATAACAA
66 CAACC-ATAGAATTCATAATGAGTTTGTGAATTACCATAACAA
* * * * *
182314 CACTATATGTGCAACCCACGAAATTCATAATGACTTTGTGAATTA-CAGTATCGACATTATGTGT
1 CACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTTAATTATC-GTATCGGCAATATGTGT
* * *
182378 GCAATCCATGGAATTCATAATAAGTTTGTGAATTTCCAT
65 GCAA-CCATAGAATTCATAATGAGTTTGTGAATTACCAT
182417 TTTGGCACTT
Statistics
Matches: 188, Mismatches: 18, Indels: 10
0.87 0.08 0.05
Matches are distributed among these distances:
107 3 0.02
108 180 0.96
109 5 0.03
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Consensus pattern (107 bp):
CACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTTAATTATCGTATCGGCAATATGTGTG
CAACCATAGAATTCATAATGAGTTTGTGAATTACCATAACAA
Found at i:186978 original size:232 final size:232
Alignment explanation
Indices: 186556--187009 Score: 728
Period size: 232 Copynumber: 2.0 Consensus size: 232
186546 TCTTATATTG
* * *
186556 TTTTAATAACTATAAATGTTAAATTTGTGAATTTGATATTAAAGGCCTATTGTATGTGCATTGAG
1 TTTTAACAACTATAAATGTTAAATCTGCGAATTTGATATTAAAGGCCTATTGTATGTGCATTGAG
* *
186621 AGTCATAGGTACATTTTGTTAAATGCATATGTTGCATTTTTGTATTAATACTATGTGTATTATCG
66 AGTCATAGATACATTTTGTTAAATGCATATGTTGCATTTTTGTATTAATACTATGTGTACTATCG
* * * *
186686 ACACTATGTGTGCAATACAAGGAATTCATAATGAGTTTTTGAATTACTGTGTCGGCACTATGTGT
131 ACACTATGTGTGCAATACAAGAAATTCATAATGAGTTTTTGAATTACCGTATCAGCACTATGTGT
**
186751 GCAACCCATGGAATTCATAATGAGTTTATGAATATAT
196 GCAACCCACAGAATTCATAATGAGTTTATGAATATAT
* *
186788 TTTTAACAACTATAAATGTTAAATCTGCGATTTTGATATTAAAGGCCTATTTTATGTGCATTGAG
1 TTTTAACAACTATAAATGTTAAATCTGCGAATTTGATATTAAAGGCCTATTGTATGTGCATTGAG
* * * *
186853 AGTCATAGATGCATTTTGTTTAATGCATATGTTGCATTTTTGTATTAGTATTATGTGTACTATCG
66 AGTCATAGATACATTTTGTTAAATGCATATGTTGCATTTTTGTATTAATACTATGTGTACTATCG
* * *
186918 ACACTATGTGTGCAATCCACGAAATTCATAATTAGTTTTTGAATTACCGTATCAGCACTATGTGT
131 ACACTATGTGTGCAATACAAGAAATTCATAATGAGTTTTTGAATTACCGTATCAGCACTATGTGT
186983 GCAACCCACAGAATTCATAATGAGTTT
196 GCAACCCACAGAATTCATAATGAGTTT
187010 GTAAATTGCA
Statistics
Matches: 202, Mismatches: 20, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
232 202 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (232 bp):
TTTTAACAACTATAAATGTTAAATCTGCGAATTTGATATTAAAGGCCTATTGTATGTGCATTGAG
AGTCATAGATACATTTTGTTAAATGCATATGTTGCATTTTTGTATTAATACTATGTGTACTATCG
ACACTATGTGTGCAATACAAGAAATTCATAATGAGTTTTTGAATTACCGTATCAGCACTATGTGT
GCAACCCACAGAATTCATAATGAGTTTATGAATATAT
Found at i:186982 original size:54 final size:53
Alignment explanation
Indices: 186913--187230 Score: 383
Period size: 54 Copynumber: 5.9 Consensus size: 53
186903 TTATGTGTAC
* * *
186913 TATCGACACTATGTGTGCAATCCACGAAATTCATAATTAGTTTTTGAATTACCG
1 TATCG-CACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCG
* * *
186967 TATCAGCACTATGTGTGCAACCCAC-AGAATTCATAATGAGTTTGTAAATTGCAG
1 TATC-GCACTATGTGTGCAACCCACGA-AATTCATAATGAGTTTGTGAATTACCG
*
187021 TATCG-AC-ACTGTGTGCAACCCAC-AGAATTCATAATGAGTTTGTGAATTACTG
1 TATCGCACTA-TGTGTGCAACCCACGA-AATTCATAATGAGTTTGTGAATTACCG
* *
187073 TATCGACACTATATGTGCAACCCACGAGATTCATAATGAGTTTGTGAATTACCG
1 TATCG-CACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCG
* *
187127 TATTGGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTGCCG
1 TA-TCGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCG
* * * * * *
187181 TATCGGCACTATGTGTGAAATCCATGGAATTCATAATAAGTTTGTTAATT
1 TATC-GCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATT
187231 TCCATTTTGG
Statistics
Matches: 232, Mismatches: 23, Indels: 18
0.85 0.08 0.07
Matches are distributed among these distances:
51 1 0.00
52 47 0.20
53 3 0.01
54 176 0.76
55 5 0.02
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Consensus pattern (53 bp):
TATCGCACTATGTGTGCAACCCACGAAATTCATAATGAGTTTGTGAATTACCG
Found at i:204575 original size:20 final size:19
Alignment explanation
Indices: 204527--204575 Score: 53
Period size: 19 Copynumber: 2.5 Consensus size: 19
204517 AAGAAAGAGA
* *
204527 AAAGGTAAAAGTTAAAATG
1 AAAGATAAAAATTAAAATG
*
204546 AAAGAGAAAAATTAATAATG
1 AAAGATAAAAATTAA-AATG
*
204566 AAATATAAAA
1 AAAGATAAAA
204576 GAAAAAGTTA
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
19 12 0.50
20 12 0.50
ACGTcount: A:0.65, C:0.00, G:0.14, T:0.20
Consensus pattern (19 bp):
AAAGATAAAAATTAAAATG
Found at i:210550 original size:17 final size:17
Alignment explanation
Indices: 210515--210549 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
210505 CAAGTAAACT
210515 ATACAAAAAAATAAAAA
1 ATACAAAAAAATAAAAA
210532 ATACAAAACAAAATAAAA
1 ATAC-AAA-AAAATAAAA
210550 TGCTCTGGCA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 3 0.19
19 9 0.56
ACGTcount: A:0.80, C:0.09, G:0.00, T:0.11
Consensus pattern (17 bp):
ATACAAAAAAATAAAAA
Found at i:210950 original size:17 final size:16
Alignment explanation
Indices: 210928--210961 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
210918 TAAAAACAGT
210928 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
210945 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
210961 A
1 A
210962 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:213851 original size:3 final size:3
Alignment explanation
Indices: 213843--213951 Score: 166
Period size: 3 Copynumber: 36.7 Consensus size: 3
213833 TTTTTATCCA
* * *
213843 TAT TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT TAA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
213891 TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT TTT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
213939 TAT T-T TAT TAT TA
1 TAT TAT TAT TAT TA
213952 ATATATTAAA
Statistics
Matches: 95, Mismatches: 10, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
2 2 0.02
3 93 0.98
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:214423 original size:6 final size:6
Alignment explanation
Indices: 214414--214446 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
214404 GAAAAAAAAA
214414 AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC AGA
1 AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC AGA
214447 ACCGAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.15, G:0.33, T:0.00
Consensus pattern (6 bp):
AGAGAC
Found at i:215407 original size:24 final size:22
Alignment explanation
Indices: 215359--215407 Score: 53
Period size: 24 Copynumber: 2.1 Consensus size: 22
215349 GTTTTAATAG
* *
215359 TATTTTTATTTTTATGAATAAA
1 TATTTTTATTTTCATAAATAAA
*
215381 TATTTTTATATATTCATAAATATA
1 TATTTTTAT-T-TTCATAAATAAA
215405 TAT
1 TAT
215408 ATAATGGTAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 9 0.41
23 1 0.05
24 12 0.55
ACGTcount: A:0.39, C:0.02, G:0.02, T:0.57
Consensus pattern (22 bp):
TATTTTTATTTTCATAAATAAA
Found at i:226686 original size:6 final size:6
Alignment explanation
Indices: 226662--226753 Score: 62
Period size: 6 Copynumber: 14.5 Consensus size: 6
226652 ATGCTTGAAG
* * *
226662 AAAAGA AAGAAG- AAGAGA AAAAGA AAAAGAA AGAAAAA AAAAGG AAAAGA
1 AAAAGA AA-AAGA AAAAGA AAAAGA AAAAG-A A-AAAGA AAAAGA AAAAGA
* *
226712 AAAAAA AGAAAGA AAAA-A AATAATA ATAATAGA AAAAGA AAA
1 AAAAGA A-AAAGA AAAAGA AA-AAGA A-AA-AGA AAAAGA AAA
226754 GGGTCAAGGT
Statistics
Matches: 68, Mismatches: 9, Indels: 18
0.72 0.09 0.19
Matches are distributed among these distances:
5 5 0.07
6 39 0.57
7 17 0.25
8 7 0.10
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.04
Consensus pattern (6 bp):
AAAAGA
Found at i:226686 original size:14 final size:14
Alignment explanation
Indices: 226658--226731 Score: 55
Period size: 15 Copynumber: 5.0 Consensus size: 14
226648 TATTATGCTT
226658 GAAGA-AAAGAAAGAA
1 GAAGAGAAA-AAA-AA
226673 GAAGAGAAAAAGAAA
1 GAAGAGAAAAA-AAA
226688 -AAGAAAGAAAAAAAAA
1 GAAG--AG-AAAAAAAA
*
226704 GGAAAAGAAAAAAAA
1 -GAAGAGAAAAAAAA
226719 GAA-AGAAAAAAAA
1 GAAGAGAAAAAAAA
226732 TAATAATAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 16
0.75 0.01 0.24
Matches are distributed among these distances:
13 10 0.20
14 6 0.12
15 17 0.33
16 11 0.22
17 5 0.10
18 2 0.04
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (14 bp):
GAAGAGAAAAAAAA
Found at i:226691 original size:29 final size:27
Alignment explanation
Indices: 226660--226729 Score: 83
Period size: 26 Copynumber: 2.6 Consensus size: 27
226650 TTATGCTTGA
*
226660 AGAAAAGAAAGAAGAAGAGAAAAAGAAA
1 AGAAAAGAAAGAA-AAAAGAAAAAGAAA
*
226688 A-AGAAAGAAA-AAAAAAGGAAAAGAAA
1 AGA-AAAGAAAGAAAAAAGAAAAAGAAA
226714 A-AAAAGAAAGAAAAAA
1 AGAAAAGAAAGAAAAAA
226730 AATAATAATA
Statistics
Matches: 38, Mismatches: 2, Indels: 6
0.83 0.04 0.13
Matches are distributed among these distances:
25 7 0.18
26 20 0.53
27 3 0.08
28 8 0.21
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (27 bp):
AGAAAAGAAAGAAAAAAGAAAAAGAAA
Found at i:226692 original size:20 final size:19
Alignment explanation
Indices: 226667--226751 Score: 73
Period size: 20 Copynumber: 4.3 Consensus size: 19
226657 TGAAGAAAAG
*
226667 AAAGAAGAAGAGAAAAAGAA
1 AAAGAAGAA-AAAAAAAGAA
*
226687 AAAGAAAGAAAAAAAAAGGA
1 AAAG-AAGAAAAAAAAAGAA
226707 AAAGAA-AAAAAAGAAAGAA
1 AAAGAAGAAAAAA-AAAGAA
* * * *
226726 AAAAAATAATAATAATAGAA
1 AAAGAAGAA-AAAAAAAGAA
226746 AAAGAA
1 AAAGAA
226752 AAGGGTCAAG
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
18 6 0.11
19 12 0.22
20 28 0.52
21 8 0.15
ACGTcount: A:0.79, C:0.00, G:0.16, T:0.05
Consensus pattern (19 bp):
AAAGAAGAAAAAAAAAGAA
Found at i:226716 original size:28 final size:29
Alignment explanation
Indices: 226663--226731 Score: 88
Period size: 29 Copynumber: 2.4 Consensus size: 29
226653 TGCTTGAAGA
* * *
226663 AAAGAAAGAAGAAGAG-AAAAAGAAAAAG
1 AAAGAAAAAAAAAGAGAAAAAAAAAAAAG
226691 AAAGAAAAAAAAAG-GAAAAGAAAAAAAAG
1 AAAGAAAAAAAAAGAGAAAA-AAAAAAAAG
226720 AAAGAAAAAAAA
1 AAAGAAAAAAAA
226732 TAATAATAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
27 1 0.03
28 15 0.42
29 20 0.56
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (29 bp):
AAAGAAAAAAAAAGAGAAAAAAAAAAAAG
Found at i:227970 original size:50 final size:49
Alignment explanation
Indices: 227895--228030 Score: 226
Period size: 45 Copynumber: 2.8 Consensus size: 49
227885 GAATGTGCTT
227895 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATCTGATCTGATTAGACAGA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTAT-TGATCTGATTAGACAGA
227945 ATAGCATCTTCTGGAAGTGTTCTTTGAG---TT-ATCTGATTAGACAGA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTGATCTGATTAGACAGA
227990 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTTGATCTGA
1 ATAGCATCTTCTGGAAGTGTTCTTTGAGTTA-TTGATCTGA
228031 AGAAGTGTAT
Statistics
Matches: 81, Mismatches: 0, Indels: 10
0.89 0.00 0.11
Matches are distributed among these distances:
45 43 0.53
46 1 0.01
47 1 0.01
49 2 0.02
50 34 0.42
ACGTcount: A:0.25, C:0.13, G:0.22, T:0.40
Consensus pattern (49 bp):
ATAGCATCTTCTGGAAGTGTTCTTTGAGTTATTGATCTGATTAGACAGA
Found at i:228791 original size:114 final size:113
Alignment explanation
Indices: 228591--229357 Score: 1176
Period size: 114 Copynumber: 6.6 Consensus size: 113
228581 ATTTCAAATC
*
228591 CACTTGATGGATCATTCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 CACTTGATGGATCA-TCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
*
228656 AGGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
65 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
*
228705 CACTTGATGGATCATTCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 CACTTGATGGATCA-TCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
* *
228770 AGGAAGTTCATGATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
65 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
*
228819 CACTTGATGGATCATTCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
1 CACTTGATGGATCA-TCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
228884 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
65 AAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
*
228933 CAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 C-ACTTGATGGATCATCATTTCCAGA-GAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
*
228998 GGAAGAAGAAGTTTATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
60 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
*
229052 CAAATTGATGGATCATCATTTCCAGAGGAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAA
1 C-ACTTGATGGATCATCATTTCCAGA-GAA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAA
229117 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
60 GGAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
229171 CACTTGATGGATCATCATTTCCAGAGAAAGAGTTCATAATGAGAAGAACTCGTCATCTGAAGAAG
1 CACTTGATGGATCATCATTTCCAGAG-AA-AGTTCATAATGAGAAGAA--C-TCATCTGAAGAAG
* *
229236 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAATCTTTTGCTTAAATTCAT
61 GAAGAAGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
* * ** * * *
229289 CATTTGATGGAACATCATCCCCAGCAGAAAGTTCGTAATGAGAAGAACTCATCTGGAGAA-AAAG
1 CACTTGATGGATCATCATTTCCAG-AGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAG
229353 AAGAA
65 AAGAA
229358 TTTATTCAAT
Statistics
Matches: 628, Mismatches: 17, Indels: 17
0.95 0.03 0.03
Matches are distributed among these distances:
113 8 0.01
114 247 0.39
115 16 0.03
116 18 0.03
117 18 0.03
118 135 0.21
119 186 0.30
ACGTcount: A:0.37, C:0.15, G:0.20, T:0.28
Consensus pattern (113 bp):
CACTTGATGGATCATCATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGA
AGAAGTTCATAATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCAT
Found at i:229501 original size:3 final size:3
Alignment explanation
Indices: 229493--229598 Score: 160
Period size: 3 Copynumber: 35.7 Consensus size: 3
229483 TTTTTATCCA
* * *
229493 TAT TAT TAT TAT TAT TAT TAT TAA TAT TAT TAT TAT CAT TAT TAA TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
* *
229541 TAT TAT TAT TAT TAT TAT TAT TAT TTT TAT TTT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
229589 T-T TAT TAT TA
1 TAT TAT TAT TA
229599 AATATATTAA
Statistics
Matches: 92, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
2 2 0.02
3 90 0.98
ACGTcount: A:0.33, C:0.01, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:230071 original size:6 final size:6
Alignment explanation
Indices: 230062--230094 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
230052 GAAAAAAAAA
230062 AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC AGA
1 AGAGAC AGAGAC AGAGAC AGAGAC AGAGAC AGA
230095 ACCGAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.52, C:0.15, G:0.33, T:0.00
Consensus pattern (6 bp):
AGAGAC
Found at i:233859 original size:32 final size:32
Alignment explanation
Indices: 233818--233882 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
233808 AACACTTTCT
233818 TTCTTTCCATCTCATTTCATACCCGTTGAAGG
1 TTCTTTCCATCTCATTTCATACCCGTTGAAGG
233850 TTCTTTCCATCTCATTTCATACCCGTTGAAGG
1 TTCTTTCCATCTCATTTCATACCCGTTGAAGG
233882 T
1 T
233883 ACCTAGAACT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.18, C:0.28, G:0.12, T:0.42
Consensus pattern (32 bp):
TTCTTTCCATCTCATTTCATACCCGTTGAAGG
Found at i:250055 original size:12 final size:12
Alignment explanation
Indices: 250028--250098 Score: 63
Period size: 12 Copynumber: 5.8 Consensus size: 12
250018 ACGGAGATAT
* *
250028 CAGAAATCAAAA
1 CAGAATTCAGAA
* *
250040 CAGAATTCATAT
1 CAGAATTCAGAA
250052 CAGATATATCAGAA
1 CAGA-AT-TCAGAA
* *
250066 CAGAATCCAGAT
1 CAGAATTCAGAA
250078 CAGAA-TCAGAA
1 CAGAATTCAGAA
250089 CAGAATTCAG
1 CAGAATTCAG
250099 GTAACGTATC
Statistics
Matches: 47, Mismatches: 9, Indels: 6
0.76 0.15 0.10
Matches are distributed among these distances:
11 9 0.19
12 26 0.55
13 4 0.09
14 8 0.17
ACGTcount: A:0.49, C:0.18, G:0.14, T:0.18
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:250067 original size:26 final size:24
Alignment explanation
Indices: 250024--250097 Score: 96
Period size: 26 Copynumber: 3.0 Consensus size: 24
250014 GTAAACGGAG
*
250024 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
*
250048 ATATCAGATATATCAGAACAGAATCC
1 ATATCAGA-A-ATCAGAACAGAATTC
*
250074 AGATCAG-AATCAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
250097 A
1 A
250098 GGTAACGTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 5
0.83 0.08 0.09
Matches are distributed among these distances:
23 15 0.34
24 9 0.20
25 1 0.02
26 19 0.43
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.20
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATTC
Found at i:250092 original size:11 final size:11
Alignment explanation
Indices: 250059--250094 Score: 54
Period size: 11 Copynumber: 3.2 Consensus size: 11
250049 TATCAGATAT
250059 ATCAGAACAGA
1 ATCAGAACAGA
*
250070 ATCCAGATCAGA
1 AT-CAGAACAGA
250082 ATCAGAACAGA
1 ATCAGAACAGA
250093 AT
1 AT
250095 TCAGGTAACG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
11 12 0.55
12 10 0.45
ACGTcount: A:0.50, C:0.19, G:0.17, T:0.14
Consensus pattern (11 bp):
ATCAGAACAGA
Found at i:251241 original size:18 final size:18
Alignment explanation
Indices: 251220--251254 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
251210 TGCCATCCGG
*
251220 TCTTATTATTTAATTCAA
1 TCTTATCATTTAATTCAA
*
251238 TCTTATCATTTACTTCA
1 TCTTATCATTTAATTCA
251255 GTCCTTTTGA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (18 bp):
TCTTATCATTTAATTCAA
Found at i:252593 original size:13 final size:13
Alignment explanation
Indices: 252571--252641 Score: 106
Period size: 13 Copynumber: 5.5 Consensus size: 13
252561 CAACGGCCAA
252571 CGGGTCAACGGGT
1 CGGGTCAACGGGT
*
252584 CGGATCAACGGGT
1 CGGGTCAACGGGT
*
252597 CGGGTCAACAGGT
1 CGGGTCAACGGGT
252610 CGGGTCAACGGGT
1 CGGGTCAACGGGT
* *
252623 CGGGTAAATGGGT
1 CGGGTCAACGGGT
252636 CGGGTC
1 CGGGTC
252642 GGGTCGGGTT
Statistics
Matches: 51, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 51 1.00
ACGTcount: A:0.18, C:0.21, G:0.44, T:0.17
Consensus pattern (13 bp):
CGGGTCAACGGGT
Found at i:254810 original size:24 final size:24
Alignment explanation
Indices: 254783--254854 Score: 101
Period size: 24 Copynumber: 3.0 Consensus size: 24
254773 GTAAACGGAG
*
254783 ATATCAGAAATCAAAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
* *
254807 ATATCAGATATCAGAACAGAATCC
1 ATATCAGAAATCAGAACAGAATTC
*
254831 AGATCAG-AATCAGAACAGAATTC
1 ATATCAGAAATCAGAACAGAATTC
254854 A
1 A
254855 GGTAACGTAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
23 15 0.36
24 27 0.64
ACGTcount: A:0.50, C:0.18, G:0.12, T:0.19
Consensus pattern (24 bp):
ATATCAGAAATCAGAACAGAATTC
Found at i:254814 original size:12 final size:12
Alignment explanation
Indices: 254787--254855 Score: 61
Period size: 12 Copynumber: 5.8 Consensus size: 12
254777 ACGGAGATAT
* *
254787 CAGAAATCAAAA
1 CAGAATTCAGAA
* *
254799 CAGAATTCATAT
1 CAGAATTCAGAA
254811 CAG-ATATCAGAA
1 CAGAAT-TCAGAA
* *
254823 CAGAATCCAGAT
1 CAGAATTCAGAA
254835 CAGAA-TCAGAA
1 CAGAATTCAGAA
254846 CAGAATTCAG
1 CAGAATTCAG
254856 GTAACGTATC
Statistics
Matches: 45, Mismatches: 9, Indels: 6
0.75 0.15 0.10
Matches are distributed among these distances:
11 11 0.24
12 32 0.71
13 2 0.04
ACGTcount: A:0.49, C:0.19, G:0.14, T:0.17
Consensus pattern (12 bp):
CAGAATTCAGAA
Found at i:254871 original size:24 final size:23
Alignment explanation
Indices: 254792--254878 Score: 84
Period size: 24 Copynumber: 3.7 Consensus size: 23
254782 GATATCAGAA
* * *
254792 ATCAAAACAGAATTCATATCAGAT
1 ATCAGAACAGAATTCAGATAAG-T
* * *
254816 ATCAGAACAGAATCCAGATCAGA
1 ATCAGAACAGAATTCAGATAAGT
*
254839 ATCAGAACAGAATTCAGGTAACGT
1 ATCAGAACAGAATTCAGATAA-GT
*
254863 ATCAGAACATAATTCA
1 ATCAGAACAGAATTCA
254879 ATTTGGAAAT
Statistics
Matches: 53, Mismatches: 9, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
23 18 0.34
24 35 0.66
ACGTcount: A:0.47, C:0.18, G:0.14, T:0.21
Consensus pattern (23 bp):
ATCAGAACAGAATTCAGATAAGT
Found at i:255996 original size:18 final size:18
Alignment explanation
Indices: 255975--256010 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
255965 CTGCCATCCG
*
255975 ATCTTATTATTTAATTCA
1 ATCTTATCATTTAATTCA
*
255993 ATCTTATCATTTACTTCA
1 ATCTTATCATTTAATTCA
256011 GTCCTTTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.31, C:0.17, G:0.00, T:0.53
Consensus pattern (18 bp):
ATCTTATCATTTAATTCA
Found at i:274926 original size:24 final size:23
Alignment explanation
Indices: 274875--274932 Score: 66
Period size: 24 Copynumber: 2.5 Consensus size: 23
274865 TTATCATTTT
*
274875 AAAAAAT-AAAACTTAAAATAAA
1 AAAAAATGAAAACTTAAAAGAAA
274897 ATAAAAATGAAAACTTGAAAAGAGAA
1 A-AAAAATGAAAACTT-AAAAGA-AA
274923 AAAAAA-GAAA
1 AAAAAATGAAA
274933 GAACCTTATA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
22 1 0.03
23 6 0.19
24 11 0.35
25 10 0.32
26 3 0.10
ACGTcount: A:0.74, C:0.03, G:0.09, T:0.14
Consensus pattern (23 bp):
AAAAAATGAAAACTTAAAAGAAA
Found at i:278596 original size:199 final size:199
Alignment explanation
Indices: 277748--278778 Score: 1393
Period size: 199 Copynumber: 5.2 Consensus size: 199
277738 TAATAAGAAA
* * * * * *
277748 CCCAAAATGGTGAACGCATAAAGTGTCAATACATTTATAAAAAGTATCGATCCCAAAAACATTGA
1 CCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGA
* *
277813 AACCCATAATTATAATGTAATAGGTAAATTTACAATGT-ATCGATATAACTATACCGGTTTTATG
66 AACCCATAATTATAATGTAATAGGTAAATTT-CAATGTAACCGATATAAATATACCGGTTTTATG
* * ** * *
277877 AGAGAATAGGTCTACATAATGTATCGACACTTCTGGAATTTCCGTCAATACTATTTGTCCAGAAG
130 AGAGAATAGGTCTACAAAATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAG
277942 GAATG
195 GAATG
* * * * *
277947 CCCAAAAGGGTGCACCCATAAATTGTTGATACATTTTTAAAAAGTTTCGATCCCAGAGACATCGA
1 CCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGA
* * *
278012 AACCCATAATTATAATGTAATAGGTAATTTTGTAATGTAACCGATATAAATATATCGGTTTTATG
66 AACCCATAATTATAATGTAATAGGTAAATTT-CAATGTAACCGATATAAATATACCGGTTTTATG
* * * ** * *
278077 TGAGAATAGGCCTACATAATGTATCGACACTT-TTTAATTTTGTGTCGATACATTTTGTCCAAAA
130 AGAGAATAGGTCTACAAAATGTATCGACACTTGTGGAA-TTTGTGTCGATACTTTTTGTCCAGAA
*
278141 TGAATG
194 GGAATG
* * * * *
278147 CCCAAAAAAATGGTGCACGCAAAAAGTGTCGATACATTTATAAAAAGTATCGATCCCAGAAACAT
1 CCC---AAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACAT
* *
278212 CGAAACCCATAATTATAATGTAATAGGTAATTTTTCAATGTAACCGATATAAATATACCAGTTTT
63 CGAAACCCATAATTATAATGTAATAGGTAA-ATTTCAATGTAACCGATATAAATATACCGGTTTT
* * * *
278277 ATGAGAGAATAGGTCTAGAAAATGTATCCACACTTGTGTATTTTGTGTCGATACTTTTTGTCCAG
127 ATGAGAGAATAGGTCTACAAAATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAG
*
278342 AAGGAATA
192 AAGGAATG
* *
278350 CCCAAAAAGGGTGCACCCATATAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATCG
1 CCC-AAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCG
**
278415 AAACGGATAATTATAATGTAATAGGTAAATTTCAATGTAACCTG-TATAAATATACCGGTTTTAT
65 AAACCCATAATTATAATGTAATAGGTAAATTTCAATGTAACC-GATATAAATATACCGGTTTTAT
* *
278479 GAGAGAATAGGTCTAAAAAATGTATCGACACTTGTGGAATTTGTGTTGATACTTTTTGTCCAGAA
129 GAGAGAATAGGTCTACAAAATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAA
278544 GGAATG
194 GGAATG
* *
278550 CCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAAAGTGTCGATCCCAAAAACATAGA
1 CCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGA
** * * ** * * *
278615 AACGGATAATTATAATGTAATAGGTATATTTCAATGCAATTGGTATAAATATATCGATTTTATGA
66 AACCCATAATTATAATGTAATAGGTAAATTTCAATGTAACCGATATAAATATACCGGTTTTATGA
* * * *
278680 GAGAATATGTCTACAAAATGTATCAACACTTGTTGAATTTGTGTCGATACTTTTTGTCCAGAAAG
131 GAGAATAGGTCTACAAAATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAGG
278745 AATG
196 AATG
278749 CCCAAAAGGGTGCACCCATAAAGTGTCGAT
1 CCCAAAAGGGTGCACCCATAAAGTGTCGAT
278779 CCCAAAAACA
Statistics
Matches: 742, Mismatches: 81, Indels: 18
0.88 0.10 0.02
Matches are distributed among these distances:
198 1 0.00
199 302 0.41
200 181 0.24
201 82 0.11
203 169 0.23
204 7 0.01
ACGTcount: A:0.37, C:0.15, G:0.17, T:0.31
Consensus pattern (199 bp):
CCCAAAAGGGTGCACCCATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCCAAAAACATCGA
AACCCATAATTATAATGTAATAGGTAAATTTCAATGTAACCGATATAAATATACCGGTTTTATGA
GAGAATAGGTCTACAAAATGTATCGACACTTGTGGAATTTGTGTCGATACTTTTTGTCCAGAAGG
AATG
Found at i:279563 original size:2 final size:2
Alignment explanation
Indices: 279556--279611 Score: 112
Period size: 2 Copynumber: 28.0 Consensus size: 2
279546 ATGGGGAAGG
279556 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
279598 AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT
279612 CTCCGGATAC
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 54 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:281779 original size:18 final size:18
Alignment explanation
Indices: 281758--281794 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
281748 GTAATTGGAC
281758 TTTGAATTTAAATTTCAA
1 TTTGAATTTAAATTTCAA
* *
281776 TTTGAGTTTGAATTTCAA
1 TTTGAATTTAAATTTCAA
281794 T
1 T
281795 ATAAATTTCG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.32, C:0.05, G:0.11, T:0.51
Consensus pattern (18 bp):
TTTGAATTTAAATTTCAA
Found at i:282666 original size:200 final size:200
Alignment explanation
Indices: 282030--282798 Score: 1041
Period size: 199 Copynumber: 3.9 Consensus size: 200
282020 TAAAGTTTCT
* * **
282030 CATAAAGTGTCGATACATTTTTAAAAAGTATCGATCCAAAAAACATTGAAACTGAAAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCAAAAATTATAAT
* * * * * *
282095 ATAATAGGTAAATTTACAATGTGACAT-GTATAAATATACCAATTTTATGAGCAAATAGGTCAGC
66 GTAATAGGTAAATTTACAATGTAAC-TGGTATAAATATACCGATTTTATGAGAAAATAGGTTAAC
* * * * ** * * ** *
282159 ATAAAGTATCGACACCTTTTAAATTTGTATCGATACTTTTTGTCCCAGCCT--TTTCTCAACGAG
130 ATAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGT-CCAGAATGAATGCAAAACGGG
* *
282222 CTTCACG
194 ATGCACG
***
282229 CATAAAAGTGTCGATACATTTA-AATTTGTATCGATCCAAAAAACATCGAAACCAAAAATTATAA
1 CAT-AAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCAAAAATTATAA
*
282293 TGTAATAGGTAAATTTACAATGTAA-TCGGTATAAATATACAGATTTTATGAGAAAATAGGTATA
65 TGTAATAGGTAAATTTACAATGTAACT-GGTATAAATATACCGATTTTATGAGAAAATAGGT-TA
* * * *
282357 TATATAATGTATCGACACTGTTTAAATTTGTGTCGATACATTTTGTCCATAATGAATGCCAAACG
128 -ACATAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCAAAACG
282422 GGATGCACG
192 GGATGCACG
* * **
282431 CATAAAGTGTCGATACATTTTTAAAAAGCATCGATCTC-AAAAACATCGAAACTGAAAATTATAA
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATC-CAAAAAACATCGAAACCAAAAATTATAA
* *
282495 TGTAATAGGTAAATTTACAATGTAACTGGTATAAGTATACCGATTTTATGAGAAAATAGGTGAAC
65 TGTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGGTTAAC
* *
282560 ATAATGTATCGACACTTTTTAGATTTGTGTCGATACATTTTGTCCAGAATGAATGCAAAACGGGG
130 ATAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCAAAACGGGA
282625 TGCACG
195 TGCACG
*
282631 CATAAAGTGTCGATACATTTATCAAAAGTATCGATCCAAAAAACATCGAAACCAAAAATTATAAT
1 CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCAAAAATTATAAT
* *
282696 GTAATAGG-AAATTTACAATGTAACCGGTATAAATATACCGGTTTTATGAGAAAATAGGTTAACA
66 GTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGGTTAACA
282760 TAATGTATCGACAC-TTTTAAATTTGTGTCGATACATTTT
131 TAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTT
282799 TAAATTACGC
Statistics
Matches: 503, Mismatches: 56, Indels: 23
0.86 0.10 0.04
Matches are distributed among these distances:
197 1 0.00
198 24 0.05
199 159 0.32
200 155 0.31
201 56 0.11
202 106 0.21
203 2 0.00
ACGTcount: A:0.40, C:0.14, G:0.15, T:0.32
Consensus pattern (200 bp):
CATAAAGTGTCGATACATTTATAAAAAGTATCGATCCAAAAAACATCGAAACCAAAAATTATAAT
GTAATAGGTAAATTTACAATGTAACTGGTATAAATATACCGATTTTATGAGAAAATAGGTTAACA
TAATGTATCGACACTTTTTAAATTTGTGTCGATACATTTTGTCCAGAATGAATGCAAAACGGGAT
GCACG
Found at i:286048 original size:26 final size:26
Alignment explanation
Indices: 286013--286064 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
286003 TCTTTCAATG
*
286013 ATGTTGCCTCATCGATATCATCCTTA
1 ATGTTGCCTCATCGATATCAGCCTTA
286039 ATGTTGCCTCATCGATATCAGCCTTA
1 ATGTTGCCTCATCGATATCAGCCTTA
286065 CTTATAGATC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.23, C:0.27, G:0.13, T:0.37
Consensus pattern (26 bp):
ATGTTGCCTCATCGATATCAGCCTTA
Found at i:287209 original size:200 final size:197
Alignment explanation
Indices: 286851--287374 Score: 608
Period size: 200 Copynumber: 2.6 Consensus size: 197
286841 TGTCCATCAT
* * * *
286851 ATAAAGTGTTGATACATTTATTAAAAGTATCGATCTCAATAATATTGAAACCGATAATTATAATG
1 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAA-AACATCGAAACCGATAATTATAATG
* * * *
286916 TAATAGGTAAATTTACAATGTAACTGGTATAAATATACTGGTTTTATAAGAACATAGGTCAGCAT
65 TAATAGGTAAATTTACAATGT-ACCGGTATAAATATACCGGTTTTATAAGAAAATAGGTCAGAAT
* * * *
286981 AAAGTATCGACACCATTTAAATTTGTGTCGATACTTTTTGTCAATAATGAATGCCAAACGGGGTG
129 AAAGTATCAACACCATTTAAATTTGTGTCAATACTTTTT-TCAAGAATGAATGCCAAACGAGGTG
287046 CACGC
193 CACGC
* * * * *
287051 ATAACGTGTCGATATATTTATTAAAAGTATCGATCCCACAAACATCAAAACCAATAATTACAATG
1 ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCA-AAACATCGAAACCGATAATTATAATG
* * * *
287116 TGATAGGTAAATTTACAATGTACCAGATAGAAATATACCGGTTTTATGAGAAAATAGGTCTA-AA
65 TAATAGGTAAATTTACAATGTACC-GGTATAAATATACCGGTTTTATAAGAAAATAGGTC-AGAA
* ** * * *
287180 TAATGTATCAACACTTTTTAAGTTTGTGTCAATACTTTTTTCCAGAATGAATGCCCAACGAGGTG
128 TAAAGTATCAACACCATTTAAATTTGTGTCAATACTTTTTTCAAGAATGAATGCCAAACGAGGTG
*
287245 CATGC
193 CACGC
* * *
287250 ATAAAGTG-CAGATACATTTA--AAATTGTATCGATCCAAAAAACATCGAAATCGATAATTATAA
1 ATAAAGTGTC-GATACATTTATTAAA-AGTATCGATCC-CAAAACATCGAAACCGATAATTATAA
* * *
287312 TGTAATAGGTAAATTTGCAATGTTACCGGTATAAATATACCTG-TTTACTTAGAAAATAGGTCA
63 TGTAATAGGTAAATTTACAATG-TACCGGTATAAATATACCGGTTTTA-TAAGAAAATAGGTCA
287375 ATATAAGCGC
Statistics
Matches: 274, Mismatches: 42, Indels: 19
0.82 0.13 0.06
Matches are distributed among these distances:
197 8 0.03
198 77 0.28
199 48 0.18
200 139 0.51
201 2 0.01
ACGTcount: A:0.39, C:0.14, G:0.15, T:0.32
Consensus pattern (197 bp):
ATAAAGTGTCGATACATTTATTAAAAGTATCGATCCCAAAACATCGAAACCGATAATTATAATGT
AATAGGTAAATTTACAATGTACCGGTATAAATATACCGGTTTTATAAGAAAATAGGTCAGAATAA
AGTATCAACACCATTTAAATTTGTGTCAATACTTTTTTCAAGAATGAATGCCAAACGAGGTGCAC
GC
Done.