Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr05 97880472
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: 97880472
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 192 characters in sequence are not A, C, G, or T
File 305 of 335
Found at i:90627732 original size:33 final size:36
Alignment explanation
Indices: 90627668--90627741 Score: 91
Period size: 33 Copynumber: 2.1 Consensus size: 36
90627658 TGAACTAATG
* *
90627668 AATGAATAGGATTTAAATAAAAAAGTGGGATTTAAAGT
1 AATGAATAGGAATTAAATAAAAAA--GGGATTAAAAGT
90627706 AATGAATAGGAATT-AA-AAAAAA-GGATTAAAAGT
1 AATGAATAGGAATTAAATAAAAAAGGGATTAAAAGT
90627739 AAT
1 AAT
90627742 TTGAAGTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
33 13 0.38
36 6 0.18
37 2 0.06
38 13 0.38
ACGTcount: A:0.55, C:0.00, G:0.19, T:0.26
Consensus pattern (36 bp):
AATGAATAGGAATTAAATAAAAAAGGGATTAAAAGT
Found at i:90631948 original size:26 final size:25
Alignment explanation
Indices: 90631908--90631969 Score: 81
Period size: 26 Copynumber: 2.5 Consensus size: 25
90631898 AAAAGACTTC
**
90631908 AAAATAAATAA-TATATAGTATTTT
1 AAAATAAATAATTATATAAAATTTT
90631932 AAAATAAATAATGTATATAAAATTTT
1 AAAATAAATAAT-TATATAAAATTTT
*
90631958 AAAATGAATAAT
1 AAAATAAATAAT
90631970 AATTTAAATT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
24 11 0.33
26 22 0.67
ACGTcount: A:0.58, C:0.00, G:0.05, T:0.37
Consensus pattern (25 bp):
AAAATAAATAATTATATAAAATTTT
Found at i:90634019 original size:49 final size:47
Alignment explanation
Indices: 90633959--90634110 Score: 202
Period size: 48 Copynumber: 3.2 Consensus size: 47
90633949 TGGAATACAT
*
90633959 AATTAAATTTACATGGAAAAAAGACAATTTAAATGAAATAAGAAAAAAA
1 AATTAAATTTACATGGAAAAAAGATAATTTAAATGAAAT--GAAAAAAA
90634008 AATTAAATTTACATGGAAAAAA-ATAATTTAAATGAAATG-AAAAAA
1 AATTAAATTTACATGGAAAAAAGATAATTTAAATGAAATGAAAAAAA
* * * * *
90634053 AA-TAAATTAAAATGGGAAGATAGATAATTTAAATGAAATGATAAAAA
1 AATTAAATTTACAT-GGAAAAAAGATAATTTAAATGAAATGAAAAAAA
90634100 AATTAAATTTA
1 AATTAAATTTA
90634111 AATGAAATAA
Statistics
Matches: 92, Mismatches: 7, Indels: 9
0.85 0.06 0.08
Matches are distributed among these distances:
44 9 0.10
45 14 0.15
46 18 0.20
47 7 0.08
48 22 0.24
49 22 0.24
ACGTcount: A:0.61, C:0.02, G:0.11, T:0.26
Consensus pattern (47 bp):
AATTAAATTTACATGGAAAAAAGATAATTTAAATGAAATGAAAAAAA
Found at i:90634026 original size:23 final size:23
Alignment explanation
Indices: 90633931--90634040 Score: 87
Period size: 23 Copynumber: 4.5 Consensus size: 23
90633921 AATTAATATG
* *
90633931 AAAAAATGTAAAGTTACATGGAAT
1 AAAAAAT-TAAATTTACATGGAAA
* *
90633955 ACATAATTAAATTTACATGGAAA
1 AAAAAATTAAATTTACATGGAAA
* * *
90633978 AAAGACAATTTAAA-TGAAATAAGAAA
1 AAA-A-AA-TTAAATTTACAT-GGAAA
90634004 AAAAAATTAAATTTACATGGAAA
1 AAAAAATTAAATTTACATGGAAA
90634027 AAAATAATTTAAAT
1 AAAA-AA-TTAAAT
90634041 GAAATGAAAA
Statistics
Matches: 67, Mismatches: 12, Indels: 13
0.73 0.13 0.14
Matches are distributed among these distances:
23 29 0.43
24 13 0.19
25 13 0.19
26 12 0.18
ACGTcount: A:0.59, C:0.05, G:0.10, T:0.26
Consensus pattern (23 bp):
AAAAAATTAAATTTACATGGAAA
Found at i:90634050 original size:21 final size:21
Alignment explanation
Indices: 90634026--90634117 Score: 55
Period size: 21 Copynumber: 4.1 Consensus size: 21
90634016 TTACATGGAA
90634026 AAAAATAATTTAAA-TGAAATG
1 AAAAA-AATTTAAATTGAAATG
* *
90634047 AAAAAAA-ATAAATTAAAATGGG
1 AAAAAAATTTAAATTGAAAT--G
90634069 AAGATAGATAATTTAAA-TGAAATG
1 AA-A-A-A-AATTTAAATTGAAATG
* *
90634093 ATAAAAAAATTAAATTTAAATG
1 A-AAAAAATTTAAATTGAAATG
90634115 AAA
1 AAA
90634118 TAAGGAAAAA
Statistics
Matches: 55, Mismatches: 6, Indels: 20
0.68 0.07 0.25
Matches are distributed among these distances:
19 4 0.07
20 7 0.13
21 14 0.25
22 11 0.20
23 2 0.04
24 4 0.07
25 2 0.04
26 7 0.13
27 4 0.07
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (21 bp):
AAAAAAATTTAAATTGAAATG
Found at i:90634053 original size:48 final size:48
Alignment explanation
Indices: 90633959--90634110 Score: 167
Period size: 49 Copynumber: 3.2 Consensus size: 48
90633949 TGGAATACAT
*
90633959 AATTAAATTTACATGGAAAAAAGACAATTTAAATGAAAT-AAGAAAAAAA
1 AATTAAATTTACATGGAAAAAA-ATAATTTAAATGAAATGAA-AAAAAAA
90634008 AATTAAATTTACATGGAAAAAAATAATTTAAATGAAATGAAAAAAAATA
1 AATTAAATTTACATGGAAAAAAATAATTTAAATGAAATGAAAAAAAA-A
* * *
90634057 AATT-AA---A-ATGGGAAGATAGATAATTTAAATGAAATG--ATAAAAA
1 AATTAAATTTACAT-GGAA-AAAAATAATTTAAATGAAATGAAAAAAAAA
90634100 AATTAAATTTA
1 AATTAAATTTA
90634111 AATGAAATAA
Statistics
Matches: 91, Mismatches: 4, Indels: 18
0.81 0.04 0.16
Matches are distributed among these distances:
43 5 0.05
44 9 0.10
45 5 0.05
46 19 0.21
47 1 0.01
48 23 0.25
49 29 0.32
ACGTcount: A:0.61, C:0.02, G:0.11, T:0.26
Consensus pattern (48 bp):
AATTAAATTTACATGGAAAAAAATAATTTAAATGAAATGAAAAAAAAA
Found at i:90634108 original size:27 final size:27
Alignment explanation
Indices: 90634078--90634133 Score: 85
Period size: 27 Copynumber: 2.1 Consensus size: 27
90634068 GAAGATAGAT
* *
90634078 AATTTAAATGAAATGATAAAAAAATTA
1 AATTTAAATGAAATAAGAAAAAAATTA
*
90634105 AATTTAAATGAAATAAGGAAAAAATTA
1 AATTTAAATGAAATAAGAAAAAAATTA
90634132 AA
1 AA
90634134 ATAAAATGGA
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (27 bp):
AATTTAAATGAAATAAGAAAAAAATTA
Found at i:90634244 original size:21 final size:20
Alignment explanation
Indices: 90634204--90634244 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
90634194 GTATATTAGG
* *
90634204 AAAAAATAATAAATTTAAAT
1 AAAAAATAATAAAATGAAAT
90634224 AAAAAATTAATAAAATGAAAT
1 AAAAAA-TAATAAAATGAAAT
90634245 GTTAAATGAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 6 0.33
21 12 0.67
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.27
Consensus pattern (20 bp):
AAAAAATAATAAAATGAAAT
Found at i:90634272 original size:23 final size:23
Alignment explanation
Indices: 90634246--90634316 Score: 63
Period size: 23 Copynumber: 3.0 Consensus size: 23
90634236 AAATGAAATG
90634246 TTAAATGAAATATGAATATTAAA
1 TTAAATGAAATATGAATATTAAA
* * * *
90634269 TTAAATGTAATTTGTA-ATGAATA
1 TTAAATGAAATATGAATATTAA-A
* *
90634292 TGAAATGAAATGATGATTATTAAA
1 TTAAATGAAAT-ATGAATATTAAA
90634316 T
1 T
90634317 AGAATAAAAG
Statistics
Matches: 35, Mismatches: 10, Indels: 5
0.70 0.20 0.10
Matches are distributed among these distances:
22 4 0.11
23 23 0.66
24 4 0.11
25 4 0.11
ACGTcount: A:0.49, C:0.00, G:0.13, T:0.38
Consensus pattern (23 bp):
TTAAATGAAATATGAATATTAAA
Found at i:90634362 original size:6 final size:6
Alignment explanation
Indices: 90634353--90634397 Score: 56
Period size: 6 Copynumber: 7.5 Consensus size: 6
90634343 TTATAAATTT
* *
90634353 AAATGA AAATGA AAATGA AAATAA AAATAA AAATTG- AAATGA AAA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAA-TGA AAATGA AAA
90634398 AAATTGAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
5 2 0.06
6 32 0.91
7 1 0.03
ACGTcount: A:0.71, C:0.00, G:0.11, T:0.18
Consensus pattern (6 bp):
AAATGA
Found at i:90634374 original size:24 final size:23
Alignment explanation
Indices: 90634322--90634489 Score: 73
Period size: 24 Copynumber: 7.2 Consensus size: 23
90634312 TAAATAGAAT
*
90634322 AAAAGTTTAAATGAAAA-GAAATT
1 AAAA-TTTAAATGAAAATGAAATG
90634345 ATAAATTTAAATGAAAATGAAAATG
1 A-AAATTTAAATGAAAATG-AAATG
** *
90634370 AAAATAAAAATAAAAATTGAAATG
1 AAAATTTAAATGAAAA-TGAAATG
*
90634394 AAAA---AAATTGAAACAAT-AAATAA
1 AAAATTTAAA-TG-AA-AATGAAAT-G
* * *
90634417 ATAAATTTCAATG-AAATGAAGTT
1 A-AAATTTAAATGAAAATGAAATG
* *
90634440 AAAA-TGAAATG-AAATAAAAATG
1 AAAATTTAAATGAAAAT-GAAATG
* *
90634462 AAAATTAAAATTAAAATGGAAATG
1 AAAATTTAAATGAAAAT-GAAATG
90634486 AAAA
1 AAAA
90634490 AAAAAAGTTA
Statistics
Matches: 111, Mismatches: 18, Indels: 31
0.69 0.11 0.19
Matches are distributed among these distances:
21 12 0.11
22 15 0.14
23 26 0.23
24 47 0.42
25 7 0.06
26 2 0.02
27 2 0.02
ACGTcount: A:0.64, C:0.01, G:0.11, T:0.24
Consensus pattern (23 bp):
AAAATTTAAATGAAAATGAAATG
Found at i:90634447 original size:16 final size:16
Alignment explanation
Indices: 90634330--90634488 Score: 73
Period size: 18 Copynumber: 9.8 Consensus size: 16
90634320 ATAAAAGTTT
*
90634330 AAATGAAAAGAAATTA
1 AAATGAAATGAAATTA
* *
90634346 TAAATTTAAATGAAAATGA
1 -AAA-TGAAATG-AAATTA
* *
90634365 AAATGAAAATAAAAATAA
1 AAATG-AAAT-GAAATTA
90634383 AAATTGAAATGAAA--A
1 AAA-TGAAATGAAATTA
*
90634398 AAATTGAAA--CAA-T-
1 AAA-TGAAATGAAATTA
*
90634411 AAAT-AAAT-AAATTT
1 AAATGAAATGAAATTA
* *
90634425 CAATGAAATGAAGTTA
1 AAATGAAATGAAATTA
*
90634441 AAATGAAATGAAATAA
1 AAATGAAATGAAATTA
*
90634457 AAATGAAAATTAAAATTA
1 AAATG-AAA-TGAAATTA
90634475 AAATGGAAATGAAA
1 AAAT-GAAATGAAA
90634489 AAAAAAAGTT
Statistics
Matches: 110, Mismatches: 18, Indels: 28
0.71 0.12 0.18
Matches are distributed among these distances:
11 3 0.03
12 3 0.03
13 6 0.05
14 3 0.03
15 14 0.13
16 22 0.20
17 14 0.13
18 37 0.34
19 8 0.07
ACGTcount: A:0.65, C:0.01, G:0.11, T:0.23
Consensus pattern (16 bp):
AAATGAAATGAAATTA
Found at i:90634465 original size:6 final size:6
Alignment explanation
Indices: 90634440--90634489 Score: 50
Period size: 6 Copynumber: 8.7 Consensus size: 6
90634430 AAATGAAGTT
* * * *
90634440 AAAATG -AAATG -AAATA AAAATG AAAATT AAAATT AAAATG GAAATG
1 AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG AAAATG
90634486 AAAA
1 AAAA
90634490 AAAAAAGTTA
Statistics
Matches: 37, Mismatches: 6, Indels: 2
0.82 0.13 0.04
Matches are distributed among these distances:
5 9 0.24
6 28 0.76
ACGTcount: A:0.68, C:0.00, G:0.12, T:0.20
Consensus pattern (6 bp):
AAAATG
Found at i:90634500 original size:25 final size:24
Alignment explanation
Indices: 90634457--90634504 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
90634447 AATGAAATAA
**
90634457 AAATGAAAATTAAAATTAAAATGG
1 AAATGAAAAAAAAAATTAAAATGG
90634481 AAATGAAAAAAAAAAGTTAAAATG
1 AAATGAAAAAAAAAA-TTAAAATG
90634505 ATAGGGCTTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 13 0.62
25 8 0.38
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.21
Consensus pattern (24 bp):
AAATGAAAAAAAAAATTAAAATGG
Found at i:90634813 original size:50 final size:51
Alignment explanation
Indices: 90634737--90634874 Score: 163
Period size: 53 Copynumber: 2.7 Consensus size: 51
90634727 GAAAAAAAAA
* *
90634737 TTTTTTACATCTCTAGTGCCGGCTATTACATGGCTAGCA-AAAAATTATTT
1 TTTTTTACATCTCTGGTGCCGCCTATTACATGGCTAGCACAAAAATTATTT
* * * ** *
90634787 TTTTTTACATCTCTGGTACTGCCTATTACATGACTAGCACCTAAATTTTTTTT
1 TTTTTTACATCTCTGGTGCCGCCTATTACATGGCTAGCA-C-AAAAATTATTT
90634840 TTTTTTACATCTCTGGTGCCGACC-ATTACATGGCT
1 TTTTTTACATCTCTGGTGCCG-CCTATTACATGGCT
90634875 TGTACCCAAA
Statistics
Matches: 73, Mismatches: 11, Indels: 5
0.82 0.12 0.06
Matches are distributed among these distances:
50 34 0.47
53 37 0.51
54 2 0.03
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (51 bp):
TTTTTTACATCTCTGGTGCCGCCTATTACATGGCTAGCACAAAAATTATTT
Found at i:90635165 original size:159 final size:156
Alignment explanation
Indices: 90634895--90635222 Score: 351
Period size: 159 Copynumber: 2.1 Consensus size: 156
90634885 AATATATATA
* * * *
90634895 TTTTTTAAAATTTTAACTGGTGCATGTCATCAGTGTACCAAAGTAAAAAAATACATTGAGACACG
1 TTTTTTTAAA-TTTAACTGGTGCATGCCATCAATGTACCAAAATAAAAAAATACATTGAGACACG
* * *
90634960 AAAAAAGTATCTAGTGCCGGCCATGTACTGGCCAGTATCCAATTTTTCTTTTTTACATCTCTGAT
65 AAAAAAGTACCTAGTGCCGGCCATCTACTGGCCA-TATCCAATTTTT-TATTTTACATCTCTGAT
* * ** *
90635025 G-CAGGTCATTACATGGGCAGCA-CAAATT
128 GTC-GGCCATTACATGGCCAAAATCAAAGT
*
90635053 TTTTTTTAAATTTAACTGGTGCCA-GCCATCAATGTACCAAAATAAAAAAAATTACATTGGGACA
1 TTTTTTTAAATTTAACTGGTG-CATGCCATCAATGTACCAAAAT-AAAAAAA-TACATTGAGACA
* * * * * *
90635117 CGAAAAAGGTCCCTGGTGCCTGCTATCTATTGGCC-TA-CACAAATTTTTTTATTTTACATCTCT
63 CGAAAAAAGTACCTAGTGCCGGCCATCTACTGGCCATATC-C-AA-TTTTTTATTTTACATCTCT
*
90635180 GGTGTCGGCCATTACATGGCCAAAATCAAAGT
125 GATGTCGGCCATTACATGGCCAAAATCAAAGT
90635212 TTTTTTTAAAT
1 TTTTTTTAAAT
90635223 ACTGGTATTT
Statistics
Matches: 142, Mismatches: 20, Indels: 15
0.80 0.11 0.08
Matches are distributed among these distances:
156 1 0.01
157 30 0.21
158 51 0.36
159 60 0.42
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Consensus pattern (156 bp):
TTTTTTTAAATTTAACTGGTGCATGCCATCAATGTACCAAAATAAAAAAATACATTGAGACACGA
AAAAAGTACCTAGTGCCGGCCATCTACTGGCCATATCCAATTTTTTATTTTACATCTCTGATGTC
GGCCATTACATGGCCAAAATCAAAGT
Found at i:90635193 original size:158 final size:157
Alignment explanation
Indices: 90634895--90635222 Score: 362
Period size: 158 Copynumber: 2.1 Consensus size: 157
90634885 AATATATATA
* * * *
90634895 TTTTTTAAAATTTTAACTGGTGCATGTCATCAGTGTACCAAAGTAAAAAAATACATTGAGACACG
1 TTTTTTTAAA-TTTAACTGGTGCATGCCATCAATGTACCAAAATAAAAAAATACATTGAGACACG
* *
90634960 AAAAAAGTATCTAGTGCCGGCCATGTACTGGCCAGTATCCAATTTTTCTTTTTTACATCTCTGAT
65 AAAAAAGTACCTAGTGCCGGCCATCTACTGGCCA-TATCCAATTTTTCTTTTTTACATCTCTGAT
* * ** *
90635025 GCAGGTCATTACATGGGCAGCA-CAAATT
129 GCAGGCCATTACATGGCCAAAATCAAAGT
*
90635053 TTTTTTTAAATTTAACTGGTGCCA-GCCATCAATGTACCAAAATAAAAAAAATTACATTGGGACA
1 TTTTTTTAAATTTAACTGGTG-CATGCCATCAATGTACCAAAAT-AAAAAAA-TACATTGAGACA
* * * * * *
90635117 CGAAAAAGGTCCCTGGTGCCTGCTATCTATTGGCC-TA-CACAAATTTTT-TTATTTTACATCTC
63 CGAAAAAAGTACCTAGTGCCGGCCATCTACTGGCCATATC-C-AATTTTTCTT-TTTTACATCTC
*
90635179 TGGTGTC-GGCCATTACATGGCCAAAATCAAAGT
125 TGATG-CAGGCCATTACATGGCCAAAATCAAAGT
90635212 TTTTTTTAAAT
1 TTTTTTTAAAT
90635223 ACTGGTATTT
Statistics
Matches: 143, Mismatches: 19, Indels: 15
0.81 0.11 0.08
Matches are distributed among these distances:
156 1 0.01
157 32 0.22
158 55 0.38
159 55 0.38
ACGTcount: A:0.32, C:0.19, G:0.16, T:0.34
Consensus pattern (157 bp):
TTTTTTTAAATTTAACTGGTGCATGCCATCAATGTACCAAAATAAAAAAATACATTGAGACACGA
AAAAAGTACCTAGTGCCGGCCATCTACTGGCCATATCCAATTTTTCTTTTTTACATCTCTGATGC
AGGCCATTACATGGCCAAAATCAAAGT
Found at i:90636305 original size:22 final size:22
Alignment explanation
Indices: 90636256--90636315 Score: 57
Period size: 22 Copynumber: 2.7 Consensus size: 22
90636246 CATGTCTTTT
* *
90636256 CATTTTTTTTTAATTTCTATTTT
1 CATTTTATTTT-ATTTCTATTTC
* *
90636279 TATTTTATTTTATTTGTATTTC
1 CATTTTATTTTATTTCTATTTC
* *
90636301 CATTTCATTTCATTT
1 CATTTTATTTTATTT
90636316 AAATTATCTT
Statistics
Matches: 30, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 21 0.70
23 9 0.30
ACGTcount: A:0.18, C:0.10, G:0.02, T:0.70
Consensus pattern (22 bp):
CATTTTATTTTATTTCTATTTC
Found at i:90636332 original size:21 final size:20
Alignment explanation
Indices: 90636308--90636479 Score: 76
Period size: 23 Copynumber: 7.7 Consensus size: 20
90636298 TTCCATTTCA
90636308 TTTCATTTAAATTATCTTTTT
1 TTTCATTTAAATTAT-TTTTT
* *
90636329 TTTCATTTTAATTTAAAATTTTCTCA
1 TTTCA-TTTAAATT---ATTTT-T-T
90636355 TTTCATTTAAATTATCTTTTT
1 TTTCATTTAAATTAT-TTTTT
* *
90636376 TCTCATTTTAATTTAATTTTTTT
1 TTTCA-TTTAAATT-A-TTTTTT
*
90636399 CCTATTCCATTTAAATTA-ATTTT
1 --T-TT-CATTTAAATTATTTTTT
*
90636422 TTCCATTTAAATTTATTTTTT
1 TTTCATTTAAA-TTATTTTTT
* *
90636443 TTCTCATTTCATTTAAATTATTTT
1 TT-TCATTTAAATT--ATT-TTTT
*
90636467 TTTCATTTTAATT
1 TTTCATTTAAATT
90636480 TAAGTTTTTT
Statistics
Matches: 115, Mismatches: 16, Indels: 38
0.68 0.09 0.22
Matches are distributed among these distances:
19 8 0.07
20 4 0.03
21 18 0.16
22 23 0.20
23 25 0.22
24 10 0.09
25 12 0.10
26 13 0.11
27 2 0.02
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (20 bp):
TTTCATTTAAATTATTTTTT
Found at i:90636332 original size:26 final size:25
Alignment explanation
Indices: 90636303--90636567 Score: 114
Period size: 24 Copynumber: 11.3 Consensus size: 25
90636293 TGTATTTCCA
90636303 TTTCATTTCATTTAAATTATCTTTTT
1 TTTCATTTCATTTAAATTAT-TTTTT
*
90636329 TTTCATTTTAATTTAAA--A---TTT
1 TTTCA-TTTCATTTAAATTATTTTTT
* *
90636350 TCTCATTTCATTTAAATTA-TCTTT
1 TTTCATTTCATTTAAATTATTTTTT
* *
90636374 TTTC---TCATTTTAATTTAATTTTT
1 TTTCATTTCA-TTTAAATTATTTTTT
* * *
90636397 TTCCTATTCCATTTAAATTA--ATTT
1 TTTC-ATTTCATTTAAATTATTTTTT
90636421 TTTC----CATTTAAATTTATTTTTT
1 TTTCATTTCATTTAAA-TTATTTTTT
90636443 TTCTCATTTCATTTAAATTA--TTTT
1 TT-TCATTTCATTTAAATTATTTTTT
* *
90636467 TTTCATTTTAATTT-AA--GTTTTTT
1 TTTCA-TTTCATTTAAATTATTTTTT
* * *
90636490 TCTCATATCATTTAAATTA-TTTAT
1 TTTCATTTCATTTAAATTATTTTTT
* *
90636514 TTT-A--T--TTTAATTTAATTTTT
1 TTTCATTTCATTTAAATTATTTTTT
* *
90636534 TCTCATTTCATTTAAATTATCTTTCT
1 TTTCATTTCATTTAAATTAT-TTTTT
*
90636560 TTCCATTT
1 TTTCATTT
90636568 TAATTTTCAT
Statistics
Matches: 179, Mismatches: 28, Indels: 64
0.66 0.10 0.24
Matches are distributed among these distances:
19 16 0.09
20 19 0.11
21 12 0.07
22 20 0.11
23 26 0.15
24 31 0.17
25 9 0.05
26 26 0.15
27 20 0.11
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.63
Consensus pattern (25 bp):
TTTCATTTCATTTAAATTATTTTTT
Found at i:90636361 original size:47 final size:45
Alignment explanation
Indices: 90636305--90636586 Score: 329
Period size: 46 Copynumber: 6.1 Consensus size: 45
90636295 TATTTCCATT
**
90636305 TCATTTCATTTAAATTATCTTTTTTTTCATTTTAATTTAAAATTTTC
1 TCATTTCATTTAAATTA--TTTTTTTTCATTTTAATTTAATTTTTTC
90636352 TCATTTCATTTAAATTATCTTTTTTCTCATTTTAATTTAATTTTTT-
1 TCATTTCATTTAAATTAT-TTTTTT-TCATTTTAATTTAATTTTTTC
* * * * *
90636398 TCCTATTCCATTTAAATTAATTTTTTCCATTTAAATTTATTTTTTTTC
1 T-C-ATTTCATTTAAATTATTTTTTTTCATTTTAATTTA-ATTTTTTC
90636446 TCATTTCATTTAAATTA-TTTTTTTCATTTTAATTTAAGTTTTTTTC
1 TCATTTCATTTAAATTATTTTTTTTCATTTTAATTTAA--TTTTTTC
* *
90636492 TCATATCATTTAAATTATTTATTTT-ATTTTAATTTAATTTTTTC
1 TCATTTCATTTAAATTATTTTTTTTCATTTTAATTTAATTTTTTC
* *
90636536 TCATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTTCATTTTTT-
1 TCATTTCATTTAAATTAT-TTT-TTTTCATTTTAA-TTTAATTTTTTC
90636583 TCAT
1 TCAT
90636587 AATAATTTTC
Statistics
Matches: 205, Mismatches: 17, Indels: 26
0.83 0.07 0.10
Matches are distributed among these distances:
44 24 0.12
45 20 0.10
46 70 0.34
47 66 0.32
48 25 0.12
ACGTcount: A:0.25, C:0.11, G:0.00, T:0.63
Consensus pattern (45 bp):
TCATTTCATTTAAATTATTTTTTTTCATTTTAATTTAATTTTTTC
Found at i:90636443 original size:20 final size:19
Alignment explanation
Indices: 90636403--90636442 Score: 71
Period size: 19 Copynumber: 2.1 Consensus size: 19
90636393 TTTTTTCCTA
90636403 TTCCATTTAAATTAATTTT
1 TTCCATTTAAATTAATTTT
*
90636422 TTCCATTTAAATTTATTTT
1 TTCCATTTAAATTAATTTT
90636441 TT
1 TT
90636443 TTCTCATTTC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.28, C:0.10, G:0.00, T:0.62
Consensus pattern (19 bp):
TTCCATTTAAATTAATTTT
Found at i:90636502 original size:73 final size:68
Alignment explanation
Indices: 90636305--90636516 Score: 193
Period size: 68 Copynumber: 3.0 Consensus size: 68
90636295 TATTTCCATT
*
90636305 TCATTTCATTTAAATTATCTTTTTTTTCATTTTAATTTAAAATTTTCTCATTTCATTTAAATTAT
1 TCATTTCATTTAAATTA---TTTTTTTCATTTTAATTT-AATTTTTCTCA-TTCATTTAAATTAT
*
90636370 CTTTTTTC
61 TTTTTTTC
* * *
90636378 TCATTTTAATTT-AATTTTTTTCCTATTCCA-TTTAAATTAATTTTT-TC---CATTTAAATTTA
1 TCA-TTTCATTTAAATTATTTT--T-TT-CATTTTAATTTAATTTTTCTCATTCATTTAAA-TTA
90636437 TTTTTTTTC
60 TTTTTTTTC
90636446 TCATTTCATTTAAATTATTTTTTTCATTTTAATTTAAGTTTTTTTCTCATATCATTTAAATTATT
1 TCATTTCATTTAAATTATTTTTTTCATTTTAATTTAA---TTTTTCTCAT-TCATTTAAATTATT
*
90636511 TATTTT
62 TTTTTT
90636517 ATTTTAATTT
Statistics
Matches: 114, Mismatches: 9, Indels: 33
0.73 0.06 0.21
Matches are distributed among these distances:
64 2 0.02
65 11 0.10
66 1 0.01
67 15 0.13
68 27 0.24
69 2 0.02
70 4 0.04
71 2 0.02
72 17 0.15
73 24 0.21
74 9 0.08
ACGTcount: A:0.26, C:0.11, G:0.00, T:0.63
Consensus pattern (68 bp):
TCATTTCATTTAAATTATTTTTTTCATTTTAATTTAATTTTTCTCATTCATTTAAATTATTTTTT
TTC
Found at i:90636676 original size:44 final size:44
Alignment explanation
Indices: 90636622--90636767 Score: 229
Period size: 44 Copynumber: 3.3 Consensus size: 44
90636612 ATTTCATTAT
*
90636622 TGTGTTTTAAATTAAATATGTATGTATATTGTATTATAATTTAA
1 TGTGCTTTAAATTAAATATGTATGTATATTGTATTATAATTTAA
*
90636666 TGTGCTTTAAAATAAATATGTATGTATATTGTATTATAATTTAA
1 TGTGCTTTAAATTAAATATGTATGTATATTGTATTATAATTTAA
* *
90636710 TGTGCTTTAAATTAAATATGCATGTGTATTGTATTATAATTTAA
1 TGTGCTTTAAATTAAATATGTATGTATATTGTATTATAATTTAA
** *
90636754 CATGTTTTAAATTA
1 TGTGCTTTAAATTA
90636768 GGAATAAGAA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 94 1.00
ACGTcount: A:0.36, C:0.03, G:0.12, T:0.49
Consensus pattern (44 bp):
TGTGCTTTAAATTAAATATGTATGTATATTGTATTATAATTTAA
Found at i:90636723 original size:22 final size:22
Alignment explanation
Indices: 90636654--90636723 Score: 56
Period size: 22 Copynumber: 3.2 Consensus size: 22
90636644 TGTATATTGT
90636654 ATTATAATTTAATGTGCTTTAA
1 ATTATAATTTAATGTGCTTTAA
* * **
90636676 AATA-AATATGT-ATGT-ATATTGT
1 ATTATAAT-T-TAATGTGCT-TTAA
90636698 ATTATAATTTAATGTGCTTTAA
1 ATTATAATTTAATGTGCTTTAA
90636720 ATTA
1 ATTA
90636724 AATATGCATG
Statistics
Matches: 34, Mismatches: 8, Indels: 12
0.63 0.15 0.22
Matches are distributed among these distances:
21 5 0.15
22 24 0.71
23 5 0.15
ACGTcount: A:0.39, C:0.03, G:0.10, T:0.49
Consensus pattern (22 bp):
ATTATAATTTAATGTGCTTTAA
Found at i:90637630 original size:17 final size:17
Alignment explanation
Indices: 90637604--90637643 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
90637594 ATTCAAAACA
* *
90637604 TAAAATATAACTTTGAT
1 TAAAAAATAACTTTAAT
*
90637621 TAAAAAATAATTTTAAT
1 TAAAAAATAACTTTAAT
90637638 TAAAAA
1 TAAAAA
90637644 TTTGAAATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.57, C:0.03, G:0.03, T:0.38
Consensus pattern (17 bp):
TAAAAAATAACTTTAAT
Found at i:90637818 original size:51 final size:50
Alignment explanation
Indices: 90637759--90637889 Score: 130
Period size: 45 Copynumber: 2.6 Consensus size: 50
90637749 TGAACTAATG
*
90637759 AATGAATAGGATCTAAATAAAAAAAAAGTGGGATTTAAAGTAATTTAAAGT
1 AATGAATAGGAT-TAAATAAAAAAAAAGTGGGATTAAAAGTAATTTAAAGT
*
90637810 AATGAATAGGAATT--A-AAAAAAAAA---GGATTAAAAGTAATTTGAAGT
1 AATGAATAGG-ATTAAATAAAAAAAAAGTGGGATTAAAAGTAATTTAAAGT
*
90637855 AATAGAATAGGCTTTAAATTAAACAAAAAATGTGG
1 AAT-GAATAGG-ATTAAA-TAAA-AAAAAA-GTGG
90637890 CTTCGGTCTT
Statistics
Matches: 65, Mismatches: 4, Indels: 18
0.75 0.05 0.21
Matches are distributed among these distances:
45 22 0.34
46 9 0.14
48 10 0.15
49 1 0.02
50 3 0.05
51 17 0.26
52 2 0.03
55 1 0.02
ACGTcount: A:0.54, C:0.02, G:0.18, T:0.26
Consensus pattern (50 bp):
AATGAATAGGATTAAATAAAAAAAAAGTGGGATTAAAAGTAATTTAAAGT
Found at i:90639559 original size:21 final size:20
Alignment explanation
Indices: 90639519--90639585 Score: 73
Period size: 21 Copynumber: 3.2 Consensus size: 20
90639509 CCTTTTTTAG
*
90639519 TTATTTTACTATT-TCAATTAA
1 TTATTTTACTATTAT-TATT-A
90639540 TTATTTTACTATTATTATTA
1 TTATTTTACTATTATTATTA
* *
90639560 TTATTGTATCTATTATTAATA
1 TTATTTTA-CTATTATTATTA
90639581 TTATT
1 TTATT
90639586 AGTACTAGTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
20 8 0.20
21 32 0.78
22 1 0.02
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.61
Consensus pattern (20 bp):
TTATTTTACTATTATTATTA
Found at i:90639597 original size:21 final size:20
Alignment explanation
Indices: 90639539--90639597 Score: 73
Period size: 21 Copynumber: 2.9 Consensus size: 20
90639529 ATTTCAATTA
* *
90639539 ATTATTTTACTATTATTATT
1 ATTATTGTACTATTATTAAT
90639559 ATTATTGTATCTATTATTAAT
1 ATTATTGTA-CTATTATTAAT
*
90639580 ATTATTAGTACTAGTATT
1 ATTATT-GTACTATTATT
90639598 GATTTTCACT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 8 0.24
21 23 0.68
22 3 0.09
ACGTcount: A:0.32, C:0.05, G:0.05, T:0.58
Consensus pattern (20 bp):
ATTATTGTACTATTATTAAT
Found at i:90639707 original size:19 final size:19
Alignment explanation
Indices: 90639685--90639724 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
90639675 ATTATTTCTA
* *
90639685 ATATATGTATATATTATAT
1 ATATATATATATATCATAT
*
90639704 ATATTTATATATATCATAT
1 ATATATATATATATCATAT
90639723 AT
1 AT
90639725 TTTTAATGTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.53
Consensus pattern (19 bp):
ATATATATATATATCATAT
Found at i:90639725 original size:17 final size:17
Alignment explanation
Indices: 90639685--90639726 Score: 59
Period size: 17 Copynumber: 2.5 Consensus size: 17
90639675 ATTATTTCTA
*
90639685 ATATATGTATATATTAT
1 ATATATTTATATATTAT
90639702 ATATATTTATATA-TAT
1 ATATATTTATATATTAT
90639718 CATATATTT
1 -ATATATTT
90639727 TTAATGTTAT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 3 0.13
17 20 0.87
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.55
Consensus pattern (17 bp):
ATATATTTATATATTAT
Found at i:90639729 original size:19 final size:19
Alignment explanation
Indices: 90639692--90639729 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
90639682 CTAATATATG
*
90639692 TATATATTATATATATTTA
1 TATATATCATATATATTTA
*
90639711 TATATATCATATATTTTTA
1 TATATATCATATATATTTA
90639730 ATGTTATTTA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (19 bp):
TATATATCATATATATTTA
Found at i:90639886 original size:24 final size:24
Alignment explanation
Indices: 90639849--90639977 Score: 88
Period size: 24 Copynumber: 5.2 Consensus size: 24
90639839 GTATATATTG
90639849 TATATGTTTTATA-TATGTTATGTA
1 TATAT-TTTTATACTATGTTATGTA
*
90639873 TATATTTTTAATATTACTAGTTA--TA
1 TATATTTTT-ATACTA-T-GTTATGTA
90639898 TATATTTCTTATAC-AT-TTCCATGTA
1 TATATTT-TTATACTATGTT--ATGTA
* * *
90639923 CATATTTTTATACCATCTTATGTA
1 TATATTTTTATACTATGTTATGTA
* *
90639947 TATATTTTTAAATACTATATTATATA
1 TATATTTTT--ATACTATGTTATGTA
90639973 TATAT
1 TATAT
90639978 ATATATATAT
Statistics
Matches: 86, Mismatches: 6, Indels: 24
0.74 0.05 0.21
Matches are distributed among these distances:
21 2 0.02
23 6 0.07
24 28 0.33
25 24 0.28
26 22 0.26
27 4 0.05
ACGTcount: A:0.33, C:0.08, G:0.05, T:0.54
Consensus pattern (24 bp):
TATATTTTTATACTATGTTATGTA
Found at i:90639985 original size:36 final size:36
Alignment explanation
Indices: 90639945--90640021 Score: 93
Period size: 36 Copynumber: 2.1 Consensus size: 36
90639935 CCATCTTATG
* *
90639945 TATATATTTTTAAATACTATATTATATATAT-ATATA
1 TATATATTCTT-AATACCATATTATATATATCATATA
* * *
90639981 TATATATTCTTAGTACCATATTATGTATATCATGTA
1 TATATATTCTTAATACCATATTATATATATCATATA
90640017 TATAT
1 TATAT
90640022 TTTAATATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
35 16 0.46
36 19 0.54
ACGTcount: A:0.39, C:0.06, G:0.04, T:0.51
Consensus pattern (36 bp):
TATATATTCTTAATACCATATTATATATATCATATA
Found at i:90640194 original size:22 final size:22
Alignment explanation
Indices: 90640144--90640201 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
90640134 ATTTTACATT
*
90640144 ATTATATTTATTA-TTTATTTTT
1 ATTATA-TTATTATTTTATTTTC
**
90640166 AACATATTATTATTTTATTTTC
1 ATTATATTATTATTTTATTTTC
*
90640188 ATTATATCATTATT
1 ATTATATTATTATT
90640202 ATACCTAGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
21 6 0.21
22 23 0.79
ACGTcount: A:0.31, C:0.05, G:0.00, T:0.64
Consensus pattern (22 bp):
ATTATATTATTATTTTATTTTC
Found at i:90641504 original size:5 final size:6
Alignment explanation
Indices: 90641479--90641604 Score: 52
Period size: 6 Copynumber: 21.5 Consensus size: 6
90641469 TTATAAATTT
* *
90641479 AAATGA AAATGA AAATAA AAATAA AAATTG- AAATGA AAA--A AAATTG-
1 AAATGA AAATGA AAATGA AAATGA AAA-TGA AAATGA AAATGA AAA-TGA
* * ** * *
90641525 TAATGA TAAATAAA TAAATTT AAATG- AAATG- AAGTTA AAATG- AAATG-
1 AAATGA -AAAT-GA -AAATGA AAATGA AAATGA AAATGA AAATGA AAATGA
* * *
90641572 AAATGA AAATTA AAATTA AAATGG AAATGA AAA
1 AAATGA AAATGA AAATGA AAATGA AAATGA AAA
90641605 AAAAAGTTAA
Statistics
Matches: 94, Mismatches: 16, Indels: 20
0.72 0.12 0.15
Matches are distributed among these distances:
4 4 0.04
5 22 0.23
6 58 0.62
7 4 0.04
8 6 0.06
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (6 bp):
AAATGA
Found at i:90641580 original size:16 final size:16
Alignment explanation
Indices: 90641479--90641581 Score: 59
Period size: 16 Copynumber: 6.2 Consensus size: 16
90641469 TTATAAATTT
*
90641479 AAATGAAAATGAAAATAA
1 AAATG-AAATG-AAATGA
*
90641497 AAATAAAAATTGAAATGA
1 AAAT-GAAA-TGAAATGA
* *
90641515 AAA-AAAATTGTAATGA
1 AAATGAAA-TGAAATGA
**
90641531 TAAAT-AAAT-AAATTT
1 -AAATGAAATGAAATGA
* *
90641546 AAATGAAATGAAGTTA
1 AAATGAAATGAAATGA
90641562 AAATGAAATGAAATGA
1 AAATGAAATGAAATGA
90641578 AAAT
1 AAAT
90641582 TAAAATTAAA
Statistics
Matches: 69, Mismatches: 10, Indels: 14
0.74 0.11 0.15
Matches are distributed among these distances:
14 4 0.06
15 7 0.10
16 35 0.51
17 6 0.09
18 15 0.22
19 2 0.03
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (16 bp):
AAATGAAATGAAATGA
Found at i:90641616 original size:24 final size:24
Alignment explanation
Indices: 90641567--90641618 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
90641557 AGTTAAAATG
*
90641567 AAAT-GAAATGAAAATTAAAATTA
1 AAATGGAAATGAAAATAAAAATTA
90641590 AAATGGAAATGAAAA-AAAAAGTTA
1 AAATGGAAATGAAAATAAAAA-TTA
90641614 AAATG
1 AAATG
90641619 ATAGGGCTTG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.65, C:0.00, G:0.13, T:0.21
Consensus pattern (24 bp):
AAATGGAAATGAAAATAAAAATTA
Found at i:90643393 original size:17 final size:17
Alignment explanation
Indices: 90643371--90643446 Score: 75
Period size: 17 Copynumber: 4.5 Consensus size: 17
90643361 TGATATGTCC
*
90643371 TTTCATTTTTTTTTTCA
1 TTTCATTTTTATTTTCA
*
90643388 TTTCATTTCTA-TTTCTA
1 TTTCATTTTTATTTTC-A
*
90643405 TTTCTATTTCTATTTT-A
1 TTTC-ATTTTTATTTTCA
* *
90643422 TTTCATTTGTATTTCCA
1 TTTCATTTTTATTTTCA
90643439 TTTCATTT
1 TTTCATTT
90643447 CATTTAAATT
Statistics
Matches: 51, Mismatches: 4, Indels: 8
0.81 0.06 0.13
Matches are distributed among these distances:
16 13 0.25
17 28 0.55
18 7 0.14
19 3 0.06
ACGTcount: A:0.16, C:0.14, G:0.01, T:0.68
Consensus pattern (17 bp):
TTTCATTTTTATTTTCA
Found at i:90643401 original size:6 final size:6
Alignment explanation
Indices: 90643383--90643451 Score: 78
Period size: 6 Copynumber: 12.5 Consensus size: 6
90643373 TCATTTTTTT
90643383 TTTC-A TTTC-A TTTCTA TTTCTA TTTCTA TTTCTA TTT-TA TTTC-A
1 TTTCTA TTTCTA TTTCTA TTTCTA TTTCTA TTTCTA TTTCTA TTTCTA
* *
90643427 TTTGTA TTTCCA TTTC-A TTTC-A TTT
1 TTTCTA TTTCTA TTTCTA TTTCTA TTT
90643452 AAATTATCTT
Statistics
Matches: 58, Mismatches: 3, Indels: 6
0.87 0.04 0.09
Matches are distributed among these distances:
5 27 0.47
6 31 0.53
ACGTcount: A:0.17, C:0.16, G:0.01, T:0.65
Consensus pattern (6 bp):
TTTCTA
Found at i:90643474 original size:21 final size:22
Alignment explanation
Indices: 90643449--90643522 Score: 57
Period size: 22 Copynumber: 3.4 Consensus size: 22
90643439 TTTCATTTCA
90643449 TTTAAATT-ATCTTTTTCCCAT
1 TTTAAATTAATCTTTTTCCCAT
* * *
90643470 TTTAATTTAATTTTTTTCTCAT
1 TTTAAATTAATCTTTTTCCCAT
90643492 TCCACTTAAATTAAT-TTTTT-CCA-
1 T----TTAAATTAATCTTTTTCCCAT
90643515 TTTAAATT
1 TTTAAATT
90643523 TTTTTTTCTC
Statistics
Matches: 43, Mismatches: 5, Indels: 12
0.72 0.08 0.20
Matches are distributed among these distances:
19 7 0.16
21 7 0.16
22 12 0.28
23 1 0.02
24 2 0.05
25 5 0.12
26 9 0.21
ACGTcount: A:0.27, C:0.15, G:0.00, T:0.58
Consensus pattern (22 bp):
TTTAAATTAATCTTTTTCCCAT
Found at i:90643529 original size:18 final size:19
Alignment explanation
Indices: 90643491--90643536 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
90643481 TTTTTTCTCA
*
90643491 TTCCACTTAAATTAATTTT
1 TTCCATTTAAATTAATTTT
*
90643510 TTCCATTTAAATT-TTTTT
1 TTCCATTTAAATTAATTTT
90643528 TTCTCATTT
1 TTC-CATTT
90643537 CATTTAAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 7 0.29
19 17 0.71
ACGTcount: A:0.24, C:0.15, G:0.00, T:0.61
Consensus pattern (19 bp):
TTCCATTTAAATTAATTTT
Found at i:90643556 original size:46 final size:45
Alignment explanation
Indices: 90643441--90643663 Score: 206
Period size: 45 Copynumber: 4.9 Consensus size: 45
90643431 TATTTCCATT
* *
90643441 TCATTTCATTTAAATTATC-TTTTTCCCATTTTAATTTAATTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTTCCA-TTTAAATT--TTTTTTTC
* * *
90643488 TCATTCCACTTAAATTA--ATTTTTTCCATTTAAATTTTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTTTTTTTC
* *
90643531 TCATTTCATTTAAATTATCTTTTTTTTCATTTTAATTTAAGTTTCTTTC
1 TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTT---TTT-TTTC
* * *
90643580 TAATATCATTTAAATTA--TTTTTTT-CATTTTAATTTAATTTTTTTC
1 TCATTTCATTTAAATTATCTTTTTTTCCA-TTTAAATT--TTTTTTTC
* *
90643625 TCATTTCATTTAAATTATCTTTCTTTCCATTTTAATTTT
1 TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTT
90643664 CGTTTTTTTC
Statistics
Matches: 145, Mismatches: 18, Indels: 28
0.76 0.09 0.15
Matches are distributed among these distances:
43 23 0.16
45 44 0.30
46 13 0.09
47 40 0.28
48 5 0.03
49 20 0.14
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (45 bp):
TCATTTCATTTAAATTATCTTTTTTTCCATTTAAATTTTTTTTTC
Found at i:90643568 original size:27 final size:26
Alignment explanation
Indices: 90643514--90643662 Score: 101
Period size: 24 Copynumber: 6.2 Consensus size: 26
90643504 AATTTTTTCC
*
90643514 ATTTAAATT-TTTTTTTCTCA-TTTC
1 ATTTAAATTATTTTTTTCTCATTTTA
*
90643538 ATTTAAATTATCTTTTTTTTCATTTTA
1 ATTTAAATTAT-TTTTTTCTCATTTTA
* * * * *
90643565 ATTT-AA--GTTTCTTTCT-AATATC
1 ATTTAAATTATTTTTTTCTCATTTTA
90643587 ATTTAAATTA-TTTTTT-TCATTTTA
1 ATTTAAATTATTTTTTTCTCATTTTA
*
90643611 ATTT--A--ATTTTTTTCTCA-TTTC
1 ATTTAAATTATTTTTTTCTCATTTTA
90643632 ATTTAAATTATCTTTCTTTC-CATTTTA
1 ATTTAAATTAT-TTT-TTTCTCATTTTA
90643659 ATTT
1 ATTT
90643663 TCGTTTTTTT
Statistics
Matches: 94, Mismatches: 15, Indels: 29
0.68 0.11 0.21
Matches are distributed among these distances:
20 1 0.01
21 13 0.14
22 11 0.12
23 10 0.11
24 22 0.23
25 3 0.03
26 16 0.17
27 18 0.19
ACGTcount: A:0.25, C:0.11, G:0.01, T:0.64
Consensus pattern (26 bp):
ATTTAAATTATTTTTTTCTCATTTTA
Found at i:90643608 original size:18 final size:20
Alignment explanation
Indices: 90643588--90643624 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
90643578 TCTAATATCA
90643588 TTTAAATT-ATTTTTTTCAT
1 TTTAAATTAATTTTTTTCAT
*
90643607 TTTAATTTAATTTTTTTC
1 TTTAAATTAATTTTTTTC
90643625 TCATTTCATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
19 7 0.44
20 9 0.56
ACGTcount: A:0.24, C:0.05, G:0.00, T:0.70
Consensus pattern (20 bp):
TTTAAATTAATTTTTTTCAT
Found at i:90643656 original size:94 final size:90
Alignment explanation
Indices: 90643441--90643662 Score: 304
Period size: 94 Copynumber: 2.4 Consensus size: 90
90643431 TATTTCCATT
* * *
90643441 TCATTTCATTTAAATTATCTTTTTCCCATTTTAATTTAATTTTTTTCTCATTCCACTTAAATTAA
1 TCATTTCATTTAAATTATCTTTTTTCCATTTTAATTTAATTTCTTTCTAATTCCACTTAAATTAA
90643506 TTTTTTCCATTTAAATTTTTTTTTC
66 TTTTTTCCATTTAAATTTTTTTTTC
* *
90643531 TCATTTCATTTAAATTATCTTTTTTTTCATTTTAATTTAAGTTTCTTTCTAATAT-CATTTAAAT
1 TCATTTCATTTAAATTATC-TTTTTTCCATTTTAATTTAA-TTTCTTTCTAAT-TCCACTTAAAT
* *
90643595 T-ATTTTTTTCATTTTAATTTAATTTTTTTC
63 TAATTTTTTCCA-TTTAAATT--TTTTTTTC
90643625 TCATTTCATTTAAATTATCTTTCTTTCCATTTTAATTT
1 TCATTTCATTTAAATTATCTTT-TTTCCATTTTAATTT
90643663 TCGTTTTTTT
Statistics
Matches: 117, Mismatches: 8, Indels: 10
0.87 0.06 0.07
Matches are distributed among these distances:
90 19 0.16
91 27 0.23
92 26 0.22
93 4 0.03
94 41 0.35
ACGTcount: A:0.25, C:0.13, G:0.00, T:0.62
Consensus pattern (90 bp):
TCATTTCATTTAAATTATCTTTTTTCCATTTTAATTTAATTTCTTTCTAATTCCACTTAAATTAA
TTTTTTCCATTTAAATTTTTTTTTC
Found at i:90643746 original size:22 final size:21
Alignment explanation
Indices: 90643721--90643834 Score: 59
Period size: 22 Copynumber: 5.2 Consensus size: 21
90643711 TGTGTTTTAA
90643721 ATTAAATATATATGTATATTGT
1 ATTAAATATA-ATGTATATTGT
* * * **
90643743 ATTATAATTTAATGTGTTTTAA
1 ATTA-AATATAATGTATATTGT
* *
90643765 AATAAATATGTATGTATATTGT
1 ATTAAATAT-AATGTATATTGT
* * **
90643787 ATTATAATTTAATGTGCT-TTAA
1 ATTA-AATATAATGT-ATATTGT
*
90643809 ATTAAATATGCATGTATATTGT
1 ATTAAATAT-AATGTATATTGT
90643831 ATTA
1 ATTA
90643835 TAATTTAACA
Statistics
Matches: 63, Mismatches: 23, Indels: 12
0.64 0.23 0.12
Matches are distributed among these distances:
21 9 0.14
22 44 0.70
23 10 0.16
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.49
Consensus pattern (21 bp):
ATTAAATATAATGTATATTGT
Found at i:90643760 original size:44 final size:44
Alignment explanation
Indices: 90643711--90643856 Score: 238
Period size: 44 Copynumber: 3.3 Consensus size: 44
90643701 ATTTCATTAT
*
90643711 TGTGTTTTAAATTAAATATATATGTATATTGTATTATAATTTAA
1 TGTGTTTTAAATTAAATATGTATGTATATTGTATTATAATTTAA
*
90643755 TGTGTTTTAAAATAAATATGTATGTATATTGTATTATAATTTAA
1 TGTGTTTTAAATTAAATATGTATGTATATTGTATTATAATTTAA
* *
90643799 TGTGCTTTAAATTAAATATGCATGTATATTGTATTATAATTTAA
1 TGTGTTTTAAATTAAATATGTATGTATATTGTATTATAATTTAA
**
90643843 CATGTTTTAAATTA
1 TGTGTTTTAAATTA
90643857 GGAATAAGAA
Statistics
Matches: 94, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 94 1.00
ACGTcount: A:0.38, C:0.02, G:0.10, T:0.50
Consensus pattern (44 bp):
TGTGTTTTAAATTAAATATGTATGTATATTGTATTATAATTTAA
Found at i:90651014 original size:12 final size:12
Alignment explanation
Indices: 90650993--90651023 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
90650983 AATACTAATA
*
90650993 AATAAAAACAAT
1 AATAATAACAAT
90651005 AATAATAACAAT
1 AATAATAACAAT
90651017 AATAATA
1 AATAATA
90651024 GATAAATAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.71, C:0.06, G:0.00, T:0.23
Consensus pattern (12 bp):
AATAATAACAAT
Found at i:90651029 original size:31 final size:30
Alignment explanation
Indices: 90650965--90651029 Score: 76
Period size: 30 Copynumber: 2.1 Consensus size: 30
90650955 ATATACATAT
* * * *
90650965 TAAAAATAATTATAATGAAATACTAATAAA
1 TAAAAACAATAATAATAAAATAATAATAAA
*
90650995 TAAAAACAATAATAATAACAATAATAATAGA
1 TAAAAACAATAATAATAA-AATAATAATAAA
90651026 TAAA
1 TAAA
90651030 TAATATTAAA
Statistics
Matches: 29, Mismatches: 5, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
30 15 0.52
31 14 0.48
ACGTcount: A:0.66, C:0.05, G:0.03, T:0.26
Consensus pattern (30 bp):
TAAAAACAATAATAATAAAATAATAATAAA
Found at i:90652865 original size:55 final size:55
Alignment explanation
Indices: 90652778--90652889 Score: 172
Period size: 55 Copynumber: 2.0 Consensus size: 55
90652768 CATGTGAGCC
* *
90652778 AAGGCTCAACTCACCTCTCGCGATATGGGTTGATTTTTGAAAAAACAGAAATT-AA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTG-AAAAACAGAAATTGAA
* *
90652833 AAGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACATAAATTGAA
1 AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
90652888 AA
1 AA
90652890 CAGAAATTGA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
54 12 0.23
55 40 0.77
ACGTcount: A:0.38, C:0.17, G:0.16, T:0.29
Consensus pattern (55 bp):
AAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAACAGAAATTGAA
Found at i:90652888 original size:14 final size:14
Alignment explanation
Indices: 90652869--90652901 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
90652859 GAGTTGATTT
*
90652869 TTGAAAAACATAAA
1 TTGAAAAACAGAAA
90652883 TTG-AAAACAGAAA
1 TTGAAAAACAGAAA
90652896 TTGAAA
1 TTGAAA
90652902 TTACCTCAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
13 12 0.71
14 5 0.29
ACGTcount: A:0.61, C:0.06, G:0.12, T:0.21
Consensus pattern (14 bp):
TTGAAAAACAGAAA
Found at i:90653011 original size:89 final size:87
Alignment explanation
Indices: 90652834--90653485 Score: 677
Period size: 89 Copynumber: 7.5 Consensus size: 87
90652824 AGAAATTAAA
* ** *
90652834 AGGCTCAACTCACCTCTCGTAATATGAGTTGA-TTTTTGAAAAACATAAATTGAAAACAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGTAGAAATTGAAAACAGAAATT
*
90652898 GAAATTACCTCAGCGTGTCTTG
66 GAAATTACCTCAGCGTGTCCTG
90652920 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAAGTAGAAATTGGAAAACAGAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTT-TTGAAAAGTAGAAATT-GAAAACAGAAA
90652985 TTGAAATTACCTCAGCGTGTCCTG
64 TTGAAATTACCTCAGCGTGTCCTG
* *
90653009 AGGCTCAACTCACTTCTCGCAATATGAGTTGATTTTCTTTGAAAAGTAGAAATTGATAAACAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTT-TTTGAAAAGTAGAAATTGA-AAACAGAA
*
90653074 ATTAAAATTACCTCAGCGTGTCCTG
63 ATTGAAATTACCTCAGCGTGTCCTG
* * * * * *
90653099 AGGCTCAACTCACTTTTCGCAATATGAGTTG-GTTTTTGAAAAGTAGAAATTAAAAATAGAATTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGTAGAAATTGAAAACAGAAATT
* * * *
90653163 GAAAATACCTCGGCATGTGGCCCG
66 GAAATTACCTCAGC--GTGTCCTG
* * * * *
90653187 AGACTCAACTTACCTCTCGCCATATGAGTTGA-TTTTTGAAAAGTATAAA-T----A-A-AAACT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGTAGAAATTGAAAACAGAAATT
* * ** *
90653244 GAAAATACCTCAGCATGTGAGTCA
66 GAAATTACCTCAGCGTGT-CCT-G
* * *
90653268 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTTGAAAAGCAGAGATTGAAAAGCA-AA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTTGAAAAGTAGAAATTGAAAA-CAGAA
* *
90653332 AATGAAAATT-CCTTAGCGTG-CCTTG
63 ATTG-AAATTACCTCAGCGTGTCC-TG
* * *
90653357 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTGAAAAATATAAATTGAAAAATAGAAAT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGTAGAAATTG-AAAACAGAAAT
* *
90653421 TGAAAATACCTCAGCGTATCCTG
65 TGAAATTACCTCAGCGTGTCCTG
* ** * *
90653444 AGGTTCAACTCATTTCTTGCAATATGAGTTGA-ATTTTGAAAA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAA
90653486 ATAAAAACAT
Statistics
Matches: 476, Mismatches: 63, Indels: 53
0.80 0.11 0.09
Matches are distributed among these distances:
79 2 0.00
81 44 0.09
82 1 0.00
83 1 0.00
84 14 0.03
85 1 0.00
86 71 0.15
87 78 0.16
88 65 0.14
89 99 0.21
90 81 0.17
91 15 0.03
92 4 0.01
ACGTcount: A:0.36, C:0.17, G:0.17, T:0.30
Consensus pattern (87 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTGAAAAGTAGAAATTGAAAACAGAAATT
GAAATTACCTCAGCGTGTCCTG
Found at i:90653334 original size:259 final size:260
Alignment explanation
Indices: 90652834--90653480 Score: 761
Period size: 259 Copynumber: 2.5 Consensus size: 260
90652824 AGAAATTAAA
* * * *
90652834 AGGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTGAAAAACATAAATTGAAAACAGAAATTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTAAAAATAGAAATTG
* * ** *
90652899 AAATTACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAA
66 AAAATACCTCAGCGTGGCCCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAA
* * * * * *
90652964 GTAGAAATTGGAAAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGCTCAACTCACTTCTCGC
131 GTAGAAATT----AACAGAAACTGAAAATACCTCAGCATGTACTAAGGCTCAACTCACCTCTCGC
* *
90653029 AATATGAGTTGATTTTCTTTGAAAAGTAGAAATTGATAAACAAAAATTAAAATTACCTCAGCGTG
192 AATATGAGTTGATTTTCTTTGAAAAGCAGAAATTGATAAACAAAAATGAAAATT-CCTCAGCGTG
90653094 TCC-TG
256 -CCTTG
* * * * * *
90653099 AGGCTCAACTCACTTTTCGCAATATGAGTTGGTTTTTGAAAAGTAGAAATTAAAAATAGAATTTG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTAAAAATAGAAATTG
* * *
90653164 AAAATACCTCGGCATGTGGCCCGAGACTCAACTTACCTCTCGCCATATGAGTTGA-TTT-TTGAA
66 AAAATACCTCAGC--GTGGCCCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAA
* * *
90653227 AAGTATAAA-T-A-A-AAACTGAAAATACCTCAGCATGTGAGTCAAGGCTCAACTCACCTCTCGT
129 AAGTAGAAATTAACAGAAACTGAAAATACCTCAGCATGT-ACT-AAGGCTCAACTCACCTCTCGC
* * *
90653288 AATATGAGTTGATTTTTTTTGAAAAGCAGAGATTGA-AAAGCAAAAATGAAAATTCCTTAGCGTG
192 AATATGAGTTGATTTTCTTTGAAAAGCAGAAATTGATAAA-CAAAAATGAAAATTCCTCAGCGTG
90653352 CCTTG
256 CCTTG
90653357 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTGAAAAATAGAAATT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATT-AAAAATAGAAATT
** * ** ** *
90653422 GAAAATACCTCAGCGTATCCTGAGGTTCAACTCATTTCTTGCAATATGAGTTGAATTTT
65 GAAAATACCTCAGCGTGGCCCGAGACTCAACTCACCTCTCGCAATATGAGTTG-ATTTT
90653481 GAAAAATAAA
Statistics
Matches: 324, Mismatches: 49, Indels: 24
0.82 0.12 0.06
Matches are distributed among these distances:
257 51 0.16
258 63 0.19
259 93 0.29
264 1 0.00
265 79 0.24
266 3 0.01
267 34 0.10
ACGTcount: A:0.35, C:0.17, G:0.17, T:0.30
Consensus pattern (260 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAAATATAAATTAAAAATAGAAATTG
AAAATACCTCAGCGTGGCCCGAGACTCAACTCACCTCTCGCAATATGAGTTGATTTTCTTGAAAA
GTAGAAATTAACAGAAACTGAAAATACCTCAGCATGTACTAAGGCTCAACTCACCTCTCGCAATA
TGAGTTGATTTTCTTTGAAAAGCAGAAATTGATAAACAAAAATGAAAATTCCTCAGCGTGCCTTG
Found at i:90653428 original size:13 final size:14
Alignment explanation
Indices: 90653392--90653426 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
90653382 GAGTTGATTT
*
90653392 TTGAAAAATATAAA
1 TTGAAAAATAGAAA
90653406 TTGAAAAATAGAAA
1 TTGAAAAATAGAAA
90653420 TTGAAAA
1 TTGAAAA
90653427 TACCTCAGCG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.63, C:0.00, G:0.11, T:0.26
Consensus pattern (14 bp):
TTGAAAAATAGAAA
Found at i:90667094 original size:34 final size:35
Alignment explanation
Indices: 90667029--90667097 Score: 113
Period size: 35 Copynumber: 2.0 Consensus size: 35
90667019 CCACCGTGCG
* *
90667029 CGGTGGCCGGAGAAGGTAATTTTTTTTAATATATT
1 CGGTGGCCGAAGAAGGTAATTTTTTTAAATATATT
90667064 CGGTGGCCGAAGAAGGTAA-TTTTTTAAATATATT
1 CGGTGGCCGAAGAAGGTAATTTTTTTAAATATATT
90667098 TTTATGTGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
34 14 0.44
35 18 0.56
ACGTcount: A:0.29, C:0.09, G:0.25, T:0.38
Consensus pattern (35 bp):
CGGTGGCCGAAGAAGGTAATTTTTTTAAATATATT
Found at i:90668513 original size:13 final size:14
Alignment explanation
Indices: 90668489--90668517 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
90668479 CATAAATCAA
90668489 TTTAATTAAAAAAT
1 TTTAATTAAAAAAT
90668503 TTTAATTAAAAAAT
1 TTTAATTAAAAAAT
90668517 T
1 T
90668518 GAAATAAATT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
TTTAATTAAAAAAT
Found at i:90668578 original size:18 final size:19
Alignment explanation
Indices: 90668557--90668597 Score: 52
Period size: 16 Copynumber: 2.3 Consensus size: 19
90668547 CGATTTTAAT
90668557 TAAAATATAATTT-AA-GGA
1 TAAAAT-TAATTTAAAGGGA
90668575 T-AAATTAATTTAAAGGGA
1 TAAAATTAATTTAAAGGGA
90668593 TAAAA
1 TAAAA
90668598 ATAGGAATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
16 6 0.30
17 6 0.30
18 5 0.25
19 3 0.15
ACGTcount: A:0.56, C:0.00, G:0.12, T:0.32
Consensus pattern (19 bp):
TAAAATTAATTTAAAGGGA
Found at i:90668590 original size:17 final size:18
Alignment explanation
Indices: 90668559--90668596 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
90668549 ATTTTAATTA
90668559 AAATATAATTTAA-GGAT
1 AAATATAATTTAAGGGAT
90668576 AAAT-TAATTTAAAGGGAT
1 AAATATAATTT-AAGGGAT
90668594 AAA
1 AAA
90668597 AATAGGAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 6 0.32
17 6 0.32
18 7 0.37
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (18 bp):
AAATATAATTTAAGGGAT
Found at i:90670180 original size:59 final size:59
Alignment explanation
Indices: 90670049--90670198 Score: 142
Period size: 60 Copynumber: 2.5 Consensus size: 59
90670039 ACCCTAGTAC
* * *
90670049 TAGATTTAAAAAAACAATATTTTTTTAGTGTTGTGACATTAATTGCTGACATCTCAATA
1 TAGATTTAAAAAAACAATATTTTTTTAGTATTGGGACATTAATTGCTAACATCTCAATA
* * * * ** *
90670108 TCATATTTTAAAAAA-AATATTTTTTTGGTTATTGGGATATTAATTTTTAATATC-CAATA
1 T-AGATTTAAAAAAACAATATTTTTTTAG-TATTGGGACATTAATTGCTAACATCTCAATA
*
90670167 GTAGATTTAAAAAAATATATATATTTTTTAGT
1 -TAGATTTAAAAAAACA-ATAT-TTTTTTAGT
90670199 TGTTAAGATA
Statistics
Matches: 72, Mismatches: 13, Indels: 10
0.76 0.14 0.11
Matches are distributed among these distances:
59 29 0.40
60 31 0.43
61 5 0.07
62 7 0.10
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.45
Consensus pattern (59 bp):
TAGATTTAAAAAAACAATATTTTTTTAGTATTGGGACATTAATTGCTAACATCTCAATA
Found at i:90673765 original size:104 final size:105
Alignment explanation
Indices: 90673498--90673780 Score: 300
Period size: 104 Copynumber: 2.7 Consensus size: 105
90673488 CTAGTCTGTT
** * *
90673498 AATGGCCGGCATTAGAGTACGAGTTTAAAAAAAAACAATTGGTGCTGGCCTGTCAATGGCCAGCA
1 AATGGCCGGCACCAGAGTACGAGTTT-TAAAAAAA-AATTGGTGCTGGCCTGTCAATGGCCGGCA
*
90673563 CTAAGTACAAAAAAAATCAAATTTTTTTGGTACTGGCCCATC
64 CTAAGTACAAAAAAAATCAAATTTTTTTGGTACTGACCCATC
* ******* * * * *
90673605 AATGGCCGGCACCAAAGTACGAGTTTTAATTTTTTTTTGGTGCTGGCATATCAATGGTCGGTACT
1 AATGGCCGGCACCAGAGTACGAGTTTTAAAAAAAAATTGGTGCTGGCCTGTCAATGGCCGGCACT
* *
90673670 AAGTAC-AAAAAAATCAAAATTTTTTT-GTGCTGACCTATC
66 AAGTACAAAAAAAATC-AAATTTTTTTGGTACTGACCCATC
* *** *
90673709 AATGGCCGGTACCAGAGTACGAGTTTTAAAAAAAAATTGGTGCCAACCTGTAAATGGCCGGCACT
1 AATGGCCGGCACCAGAGTACGAGTTTTAAAAAAAAATTGGTGCTGGCCTGTCAATGGCCGGCACT
90673774 AGAGTAC
66 A-AGTAC
90673781 CAGTATTTAA
Statistics
Matches: 138, Mismatches: 36, Indels: 6
0.77 0.20 0.03
Matches are distributed among these distances:
104 68 0.49
105 45 0.33
106 2 0.01
107 23 0.17
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (105 bp):
AATGGCCGGCACCAGAGTACGAGTTTTAAAAAAAAATTGGTGCTGGCCTGTCAATGGCCGGCACT
AAGTACAAAAAAAATCAAATTTTTTTGGTACTGACCCATC
Found at i:90674317 original size:44 final size:41
Alignment explanation
Indices: 90674234--90674317 Score: 107
Period size: 44 Copynumber: 2.0 Consensus size: 41
90674224 GAAAAAGGAA
90674234 TAAATGAAAAAAAATAAATAAAATATAAAATTTTATAAATT
1 TAAATGAAAAAAAATAAATAAAATATAAAATTTTATAAATT
* *
90674275 TAAATGAAAAGAAATACTAAAATGAAA-ATAAAATTTTTTAAAT
1 TAAATGAAAA-AAA-A-T-AAATAAAATATAAAATTTTATAAAT
90674318 GAATTTTTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 5
0.84 0.05 0.11
Matches are distributed among these distances:
41 10 0.27
42 3 0.08
43 1 0.03
44 16 0.43
45 7 0.19
ACGTcount: A:0.63, C:0.01, G:0.05, T:0.31
Consensus pattern (41 bp):
TAAATGAAAAAAAATAAATAAAATATAAAATTTTATAAATT
Found at i:90674350 original size:23 final size:24
Alignment explanation
Indices: 90674314--90674408 Score: 115
Period size: 23 Copynumber: 4.0 Consensus size: 24
90674304 AAAATTTTTT
*
90674314 AAATGA-ATTTTTTTAA-AAATCG
1 AAATGAGATTTTTTTAACAAATTG
*
90674336 AAATGAGATTTTTTTTAGACAAATTTT
1 AAATGAGA-TTTTTTTA-ACAAA-TTG
*
90674363 AAATGAGATTTTTTTTA-AAATTG
1 AAATGAGATTTTTTTAACAAATTG
90674386 AAATGAGATTTTTTTAACAAATT
1 AAATGAGATTTTTTTAACAAATT
90674409 TTAAATTTAA
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
22 6 0.10
23 19 0.31
24 16 0.26
25 2 0.03
26 10 0.16
27 9 0.15
ACGTcount: A:0.41, C:0.03, G:0.11, T:0.45
Consensus pattern (24 bp):
AAATGAGATTTTTTTAACAAATTG
Found at i:90674365 original size:49 final size:48
Alignment explanation
Indices: 90674310--90674414 Score: 167
Period size: 50 Copynumber: 2.2 Consensus size: 48
90674300 AAATAAAATT
90674310 TTTTAAATGA-ATTTTTTTAAAAATCGAAATGAGATTTTTTTTAGACAAA
1 TTTTAAATGAGATTTTTTTAAAAATCGAAATGAGA-TTTTTTTA-ACAAA
* *
90674359 TTTTAAATGAGATTTTTTTTAAAATTGAAATGAGATTTTTTTAACAAA
1 TTTTAAATGAGATTTTTTTAAAAATCGAAATGAGATTTTTTTAACAAA
90674407 TTTTAAAT
1 TTTTAAAT
90674415 TTAAATTGAA
Statistics
Matches: 53, Mismatches: 2, Indels: 3
0.91 0.03 0.05
Matches are distributed among these distances:
48 13 0.25
49 18 0.34
50 22 0.42
ACGTcount: A:0.40, C:0.03, G:0.10, T:0.48
Consensus pattern (48 bp):
TTTTAAATGAGATTTTTTTAAAAATCGAAATGAGATTTTTTTAACAAA
Found at i:90674537 original size:25 final size:27
Alignment explanation
Indices: 90674509--90674584 Score: 86
Period size: 26 Copynumber: 2.9 Consensus size: 27
90674499 TTAATTTGAT
*
90674509 AAAATATGAAATA-AAT-TGAAAAAAA
1 AAAATATGAAAAATAATATGAAAAAAA
90674534 AAAATATGAAAAATAATATG-AAAAAA
1 AAAATATGAAAAATAATATGAAAAAAA
**
90674560 TTAATATGAGAAAAATAATATGAAA
1 AAAATAT--GAAAAATAATATGAAA
90674585 TGAATTGAAA
Statistics
Matches: 43, Mismatches: 3, Indels: 6
0.83 0.06 0.12
Matches are distributed among these distances:
25 12 0.28
26 14 0.33
27 2 0.05
28 13 0.30
29 2 0.05
ACGTcount: A:0.68, C:0.00, G:0.09, T:0.22
Consensus pattern (27 bp):
AAAATATGAAAAATAATATGAAAAAAA
Found at i:90674545 original size:14 final size:14
Alignment explanation
Indices: 90674528--90674648 Score: 102
Period size: 14 Copynumber: 9.2 Consensus size: 14
90674518 AATAAATTGA
*
90674528 AAAAAAAAAATATG
1 AAAAAAATAATATG
90674542 --AAAAATAATATG
1 AAAAAAATAATATG
*
90674554 AAAAAATTAATATG
1 AAAAAAATAATATG
*
90674568 AGAAAAATAATATG
1 AAAAAAATAATATG
90674582 ----AAATGAAT-TG
1 AAAAAAAT-AATATG
90674592 AAAAAAAATAATATG
1 -AAAAAAATAATATG
*
90674607 ---AAAAGAA-ATG
1 AAAAAAATAATATG
90674617 AAAAATAATAATATG
1 AAAAA-AATAATATG
90674632 AAAAAAATAATATG
1 AAAAAAATAATATG
90674646 AAA
1 AAA
90674649 TGAATTGAAA
Statistics
Matches: 87, Mismatches: 6, Indels: 28
0.72 0.05 0.23
Matches are distributed among these distances:
10 9 0.10
11 9 0.10
12 11 0.13
13 2 0.02
14 42 0.48
15 14 0.16
ACGTcount: A:0.69, C:0.00, G:0.10, T:0.21
Consensus pattern (14 bp):
AAAAAAATAATATG
Found at i:90674557 original size:11 final size:12
Alignment explanation
Indices: 90674530--90674669 Score: 69
Period size: 14 Copynumber: 11.2 Consensus size: 12
90674520 TAAATTGAAA
90674530 AAAAAAAATATG
1 AAAAAAAATATG
*
90674542 AAAAATAATATG
1 AAAAAAAATATG
90674554 AAAAAATTAATATG
1 AAAAAA--AATATG
90674568 AGAAAAATAATATG
1 A-AAAAA-AATATG
**
90674582 -AAATGAAT-TG
1 AAAAAAAATATG
90674592 AAAAAAAATAAT-
1 AAAAAAAAT-ATG
*
90674604 ATGAAAAGAA-ATG
1 A--AAAAAAATATG
90674617 AAAAATAATAATATG
1 -AAAA-AA-AATATG
90674632 AAAAAAATAATATG
1 -AAAAAA-AATATG
**
90674646 -AAATGAAT-TG
1 AAAAAAAATATG
90674656 AAAAAAAAT-TG
1 AAAAAAAATATG
90674667 AAA
1 AAA
90674670 TGAAATAACT
Statistics
Matches: 102, Mismatches: 12, Indels: 29
0.71 0.08 0.20
Matches are distributed among these distances:
10 4 0.04
11 23 0.23
12 28 0.27
13 2 0.02
14 32 0.31
15 13 0.13
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.22
Consensus pattern (12 bp):
AAAAAAAATATG
Found at i:90674585 original size:25 final size:25
Alignment explanation
Indices: 90674542--90674634 Score: 100
Period size: 25 Copynumber: 3.6 Consensus size: 25
90674532 AAAAAATATG
* *
90674542 AAAAATAATATGAAAAAATTAATATGAG
1 AAAAATAATATG---AAATGAATATGAA
90674570 AAAAATAATATGAAATGAAT-TGAAA
1 AAAAATAATATGAAATGAATATG-AA
*
90674595 AAAAATAATATGAAAAGAA-ATGAA
1 AAAAATAATATGAAATGAATATGAA
90674619 AAATAATAATATGAAA
1 AAA-AATAATATGAAA
90674635 AAAATAATAT
Statistics
Matches: 59, Mismatches: 3, Indels: 9
0.83 0.04 0.13
Matches are distributed among these distances:
24 7 0.12
25 40 0.68
28 12 0.20
ACGTcount: A:0.67, C:0.00, G:0.11, T:0.23
Consensus pattern (25 bp):
AAAAATAATATGAAATGAATATGAA
Found at i:90674636 original size:39 final size:40
Alignment explanation
Indices: 90674544--90674664 Score: 128
Period size: 39 Copynumber: 3.1 Consensus size: 40
90674534 AAAATATGAA
* * *
90674544 AAATAATATGAAAAAATTAATATGAGAA-AAAT--AATAT
1 AAATAATATGAAAAAAATAATATGAAAAGAAATGAAAAAT
90674581 GAAATGAAT-TGAAAAAAAATAATATGAAAAGAAATGAAAAAT
1 -AAAT-AATATG-AAAAAAATAATATGAAAAGAAATGAAAAAT
* *
90674623 -AATAATATGAAAAAAATAATATGAAATGAATTGAAAAA-
1 AAATAATATGAAAAAAATAATATGAAAAGAAATGAAAAAT
90674661 AAAT
1 AAAT
90674665 TGAAATGAAA
Statistics
Matches: 71, Mismatches: 5, Indels: 13
0.80 0.06 0.15
Matches are distributed among these distances:
38 6 0.08
39 52 0.73
40 9 0.13
42 4 0.06
ACGTcount: A:0.66, C:0.00, G:0.11, T:0.23
Consensus pattern (40 bp):
AAATAATATGAAAAAAATAATATGAAAAGAAATGAAAAAT
Found at i:90674638 original size:64 final size:65
Alignment explanation
Indices: 90674511--90674664 Score: 240
Period size: 64 Copynumber: 2.4 Consensus size: 65
90674501 AATTTGATAA
* * * * *
90674511 AATATGAAATAAATTGAAAAAAAAAAATATGAAAAATAATATGAAAAAATTAATATGAGAAAAAT
1 AATATGAAATGAATTGAAAAAAAATAATATGAAAAAGAATATGAAAAAAATAATATGAAAAAAAT
90674576 AATATGAAATGAATTGAAAAAAAATAATATG-AAAAGAA-ATGAAAAATAATAATATGAAAAAAA
1 AATATGAAATGAATTGAAAAAAAATAATATGAAAAAGAATATGAAAAA-AATAATATGAAAAAAA
90674639 T
65 T
90674640 AATATGAAATGAATTGAAAAAAAAT
1 AATATGAAATGAATTGAAAAAAAAT
90674665 TGAAATGAAA
Statistics
Matches: 83, Mismatches: 5, Indels: 3
0.91 0.05 0.03
Matches are distributed among these distances:
63 8 0.10
64 46 0.55
65 29 0.35
ACGTcount: A:0.67, C:0.00, G:0.10, T:0.23
Consensus pattern (65 bp):
AATATGAAATGAATTGAAAAAAAATAATATGAAAAAGAATATGAAAAAAATAATATGAAAAAAAT
Found at i:90674673 original size:16 final size:16
Alignment explanation
Indices: 90674649--90674709 Score: 54
Period size: 16 Copynumber: 3.9 Consensus size: 16
90674639 TAATATGAAA
*
90674649 TGAATTGAAAAAAAAT
1 TGAAATGAAAAAAAAT
* *
90674665 TGAAATG--AAATAAC
1 TGAAATGAAAAAAAAT
**
90674679 TGAAATGAAATTAAAT
1 TGAAATGAAAAAAAAT
*
90674695 TAAAATGAAAAAAAA
1 TGAAATGAAAAAAAA
90674710 AAGGATTGAA
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
14 12 0.36
16 21 0.64
ACGTcount: A:0.64, C:0.02, G:0.11, T:0.23
Consensus pattern (16 bp):
TGAAATGAAAAAAAAT
Found at i:90677223 original size:33 final size:30
Alignment explanation
Indices: 90677185--90677276 Score: 88
Period size: 26 Copynumber: 3.1 Consensus size: 30
90677175 ATTTTAATTA
90677185 TTTTTTTTCAATTCATTTCATATTATTTTT
1 TTTTTTTTCAATTCATTTCATATTATTTTT
*
90677215 TCCATTTTTT--ATATCATTTTTCATATTA----T
1 T--TTTTTTTCAAT-TCA--TTTCATATTATTTTT
90677244 TTTTTTTTCAATTCATTTCATATTATTTTT
1 TTTTTTTTCAATTCATTTCATATTATTTTT
90677274 TTT
1 TTT
90677277 CAATTCATGT
Statistics
Matches: 49, Mismatches: 2, Indels: 22
0.67 0.03 0.30
Matches are distributed among these distances:
26 10 0.20
27 6 0.12
28 3 0.06
29 4 0.08
30 7 0.14
31 3 0.06
32 6 0.12
33 10 0.20
ACGTcount: A:0.21, C:0.11, G:0.00, T:0.68
Consensus pattern (30 bp):
TTTTTTTTCAATTCATTTCATATTATTTTT
Found at i:90677272 original size:25 final size:26
Alignment explanation
Indices: 90677233--90677292 Score: 104
Period size: 25 Copynumber: 2.3 Consensus size: 26
90677223 TTATATCATT
90677233 TTTCATATTATTTTTTTTTCAATTCA
1 TTTCATATTATTTTTTTTTCAATTCA
90677259 TTTCATATTA-TTTTTTTTCAATTCA
1 TTTCATATTATTTTTTTTTCAATTCA
*
90677284 TGTCATATT
1 TTTCATATT
90677293 TTATCAAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
25 23 0.70
26 10 0.30
ACGTcount: A:0.23, C:0.12, G:0.02, T:0.63
Consensus pattern (26 bp):
TTTCATATTATTTTTTTTTCAATTCA
Found at i:90677754 original size:6 final size:6
Alignment explanation
Indices: 90677741--90677835 Score: 55
Period size: 6 Copynumber: 17.3 Consensus size: 6
90677731 TCTTTTTTTA
* * *
90677741 TTTC-T TTTCAT TTTCA- TTTCAT TTTAAT TTT-A- TTTCA- TTCCAA
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
* * * * *
90677784 TTTCA- TTTCAT TCT-AA TTTCAT TTCCAT TTCCAT TTCCA- TTTCA-
1 TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT TTTCAT
90677828 TTTCAT TT
1 TTTCAT TT
90677836 AAATTATATA
Statistics
Matches: 74, Mismatches: 9, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
4 3 0.04
5 32 0.43
6 39 0.53
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (6 bp):
TTTCAT
Found at i:90677755 original size:11 final size:11
Alignment explanation
Indices: 90677741--90677835 Score: 86
Period size: 11 Copynumber: 8.7 Consensus size: 11
90677731 TCTTTTTTTA
*
90677741 TTTCTTTTCAT
1 TTTCATTTCAT
90677752 TTTCATTTCAT
1 TTTCATTTCAT
* *
90677763 TTTAATTTTA-
1 TTTCATTTCAT
* *
90677773 TTTCATTCCAA
1 TTTCATTTCAT
90677784 TTTCATTTCAT
1 TTTCATTTCAT
* *
90677795 TCTAATTTCAT
1 TTTCATTTCAT
*
90677806 TTCCATTTCCAT
1 TTTCATTT-CAT
*
90677818 TTCCATTTCA-
1 TTTCATTTCAT
90677828 TTTCATTT
1 TTTCATTT
90677836 AAATTATATA
Statistics
Matches: 68, Mismatches: 14, Indels: 5
0.78 0.16 0.06
Matches are distributed among these distances:
10 14 0.21
11 43 0.63
12 11 0.16
ACGTcount: A:0.20, C:0.20, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTCATTTCAT
Found at i:90677759 original size:16 final size:16
Alignment explanation
Indices: 90677735--90677835 Score: 62
Period size: 16 Copynumber: 6.2 Consensus size: 16
90677725 CTTTTTTCTT
*
90677735 TTTTTATTTCTTTTCA
1 TTTTCATTTCTTTTCA
*
90677751 TTTTCATTTCATTTTAA
1 TTTTCATTTC-TTTTCA
* *
90677768 TTTT-ATTTCATTCCA
1 TTTTCATTTCTTTTCA
* *
90677783 ATTTCATTTC-ATTCTA
1 TTTTCATTTCTTTTC-A
* *
90677799 ATTTCATTTCCATTTCCA
1 TTTTCATTT-C-TTTTCA
* *
90677817 TTTCCATTTCATTTCA
1 TTTTCATTTCTTTTCA
90677833 TTT
1 TTT
90677836 AAATTATATA
Statistics
Matches: 65, Mismatches: 14, Indels: 12
0.71 0.15 0.13
Matches are distributed among these distances:
15 8 0.12
16 36 0.55
17 11 0.17
18 8 0.12
19 2 0.03
ACGTcount: A:0.20, C:0.19, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTCATTTCTTTTCA
Found at i:90677872 original size:23 final size:22
Alignment explanation
Indices: 90677828--90677872 Score: 67
Period size: 23 Copynumber: 2.1 Consensus size: 22
90677818 TTCCATTTCA
90677828 TTTCATTTAAATTATATATTTT
1 TTTCATTTAAATTATATATTTT
90677850 TTTCAATTTAAATT-TAT-TTTT
1 TTTC-ATTTAAATTATATATTTT
90677871 TT
1 TT
90677873 CTCAATTCAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 6 0.27
22 7 0.32
23 9 0.41
ACGTcount: A:0.29, C:0.04, G:0.00, T:0.67
Consensus pattern (22 bp):
TTTCATTTAAATTATATATTTT
Found at i:90677889 original size:22 final size:22
Alignment explanation
Indices: 90677828--90677935 Score: 73
Period size: 22 Copynumber: 5.0 Consensus size: 22
90677818 TTCCATTTCA
*
90677828 TTTC-ATTTAAATTATATATTTT
1 TTTCAATTTAATTTATAT-TTTT
90677850 TTTCAATTTAAATTTAT-TTTTT
1 TTTCAATTT-AATTTATATTTTT
* * **
90677872 TCTCAA-TTCATTTATATTACT
1 TTTCAATTTAATTTATATTTTT
*
90677893 TTTAAATTTAATTT-TAATTTTT
1 TTTCAATTTAATTTAT-ATTTTT
* *
90677915 TTCTC-ATTTCATTTAAATTTT
1 TT-TCAATTTAATTTATATTTT
90677936 CTATTTTCAA
Statistics
Matches: 66, Mismatches: 13, Indels: 14
0.71 0.14 0.15
Matches are distributed among these distances:
20 6 0.09
21 10 0.15
22 38 0.58
23 6 0.09
24 6 0.09
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.63
Consensus pattern (22 bp):
TTTCAATTTAATTTATATTTTT
Found at i:90678003 original size:49 final size:46
Alignment explanation
Indices: 90677825--90678025 Score: 159
Period size: 49 Copynumber: 4.4 Consensus size: 46
90677815 CATTTCCATT
*
90677825 TCATTTCATTTAAATTATATATTTTTTTCAATTTAAATTT-ATTTTTTTC
1 TCATTTCATTTAAATTATCTA---TTTTCAATTT-AATTTAATTTTTTTC
* * *
90677874 TCAATTCATTTATATTA-C--TTTTAAATTTAATTTTAATTTTTTTC
1 TCATTTCATTTAAATTATCTATTTTCAATTTAA-TTTAATTTTTTTC
* ** *
90677918 TCATTTCATTTAAATTTTCTATTTTCAATGCAAATTTAATTTTTTTTTG
1 TCATTTCATTTAAATTATCTATTTTCAAT-TTAATTTAA--TTTTTTTC
* *
90677967 TCATTTCTTTTAAATTATCTATCTTTC----T-ATTTAATTTTTTGC
1 TCATTTCATTTAAATTATCTAT-TTTCAATTTAATTTAATTTTTTTC
*
90678009 TCATTTTATTTAAATTA
1 TCATTTCATTTAAATTA
90678026 AAAGTTTCCC
Statistics
Matches: 125, Mismatches: 18, Indels: 25
0.74 0.11 0.15
Matches are distributed among these distances:
42 23 0.18
43 12 0.10
44 29 0.23
45 1 0.01
47 12 0.10
48 2 0.02
49 42 0.34
50 4 0.03
ACGTcount: A:0.27, C:0.10, G:0.01, T:0.61
Consensus pattern (46 bp):
TCATTTCATTTAAATTATCTATTTTCAATTTAATTTAATTTTTTTC
Found at i:90678088 original size:76 final size:75
Alignment explanation
Indices: 90677995--90678204 Score: 244
Period size: 76 Copynumber: 2.7 Consensus size: 75
90677985 CTATCTTTCT
* * *
90677995 ATTTAATTTTTTGCTCATTTTATTTAAATTAAAAGTTTCCCTCATTTCATTTAAATTTATCTTTC
1 ATTTAATTTTTTACTCATTTCATTTAAATCAAAAGTTT-CCTCATTTCATTTAAATTTATCTTTC
90678060 TTTCAAATTTA
65 TTTCAAATTTA
* * * **
90678071 ATTTAATTTTTTTCTCATTTCATTTCAATGAAATTTTTTCCTCATTTCATTTAAATTTATCTTTC
1 ATTTAATTTTTTACTCATTTCATTTAAATCAAA-AGTTTCCTCATTTCATTTAAATTTATCTTTC
* *
90678136 TTTCAATTTTC
65 TTTCAAATTTA
* *
90678147 ATTTAAATTTTGTAC-CATTTCATTTCAAA-CAAAATTGTTTTCTCATTTCATTTAAATT
1 ATTT-AATTTTTTACTCATTTCATTT-AAATCAAAA--GTTTCCTCATTTCATTTAAATT
90678205 ATCAACCTTT
Statistics
Matches: 114, Mismatches: 15, Indels: 9
0.83 0.11 0.07
Matches are distributed among these distances:
76 81 0.71
77 33 0.29
ACGTcount: A:0.28, C:0.14, G:0.02, T:0.55
Consensus pattern (75 bp):
ATTTAATTTTTTACTCATTTCATTTAAATCAAAAGTTTCCTCATTTCATTTAAATTTATCTTTCT
TTCAAATTTA
Found at i:90678144 original size:27 final size:25
Alignment explanation
Indices: 90678036--90678157 Score: 99
Period size: 28 Copynumber: 4.7 Consensus size: 25
90678026 AAAGTTTCCC
90678036 TCATTTCATTTAAATTTATCTTTCTT
1 TCATTTCATTTAAATTT-TCTTTCTT
* *
90678062 TCAAATTTAATTT-AATTTTTTTCTCATT
1 TC--ATTTCATTTAAATTTTCTT-TC-TT
* * *
90678090 TCATTTCAATGAAA-TTT-TTTC-C
1 TCATTTCATTTAAATTTTCTTTCTT
90678112 TCATTTCATTTAAATTTATCTTTCTT
1 TCATTTCATTTAAATTT-TCTTTCTT
90678138 TCAATTTTCATTTAAATTTT
1 TC-A-TTTCATTTAAATTTT
90678158 GTACCATTTC
Statistics
Matches: 76, Mismatches: 9, Indels: 21
0.72 0.08 0.20
Matches are distributed among these distances:
22 12 0.16
23 2 0.03
24 3 0.04
25 6 0.08
26 16 0.21
27 11 0.14
28 26 0.34
ACGTcount: A:0.26, C:0.14, G:0.01, T:0.59
Consensus pattern (25 bp):
TCATTTCATTTAAATTTTCTTTCTT
Found at i:90678215 original size:76 final size:76
Alignment explanation
Indices: 90678034--90678204 Score: 247
Period size: 76 Copynumber: 2.2 Consensus size: 76
90678024 TAAAAGTTTC
* *
90678034 CCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTTTTCTCATTTCATTTCAA
1 CCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTGTACTCATTTCATTTCAA
**
90678099 TGAAATTTTTT
66 CAAAATTTTTT
* *
90678110 CCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTCATTTAAATTTTGTAC-CATTTCATTTCA
1 CCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTT-AATTTTGTACTCATTTCATTTC-
90678174 AACAAAATTGTTTT
64 AACAAAATT-TTTT
90678188 -CTCATTTCATTTAAATT
1 CCTCATTTCATTTAAATT
90678205 ATCAACCTTT
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
76 50 0.58
77 32 0.37
78 4 0.05
ACGTcount: A:0.27, C:0.16, G:0.02, T:0.55
Consensus pattern (76 bp):
CCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTAATTTAATTTTGTACTCATTTCATTTCAA
CAAAATTTTTT
Found at i:90678232 original size:76 final size:76
Alignment explanation
Indices: 90678034--90678233 Score: 185
Period size: 76 Copynumber: 2.6 Consensus size: 76
90678024 TAAAAGTTTC
*** * * *
90678034 CCTCATTTCATTTAAATTTATCTTTCTTTCAAATTTA-ATTT-AATTTTTTTCTCATTTCATTTC
1 CCTCATTTCATTTAAATTTATCAACCTTTC-AATTAACATTTAAATTTTGTAC-CATTTCATTTC
**
90678097 AATGAAATTTTTT
64 AACAAAATTTTTT
*** **
90678110 CCTCATTTCATTTAAATTTATCTTTCTTTCAATTTTCATTTAAATTTTGTACCATTTCATTTCAA
1 CCTCATTTCATTTAAATTTATCAACCTTTCAATTAACATTTAAATTTTGTACCATTTCATTTC-A
90678175 ACAAAATTGTTTT
65 ACAAAATT-TTTT
* *
90678188 -CTCATTTCATTTAAA-TTATCAACCTTTCCATGTAAC-TTTCAATTTT
1 CCTCATTTCATTTAAATTTATCAACCTTTCAAT-TAACATTTAAATTTT
90678234 TTCTCATACA
Statistics
Matches: 107, Mismatches: 12, Indels: 10
0.83 0.09 0.08
Matches are distributed among these distances:
75 5 0.05
76 66 0.62
77 32 0.30
78 4 0.04
ACGTcount: A:0.28, C:0.17, G:0.02, T:0.54
Consensus pattern (76 bp):
CCTCATTTCATTTAAATTTATCAACCTTTCAATTAACATTTAAATTTTGTACCATTTCATTTCAA
CAAAATTTTTT
Found at i:90681440 original size:104 final size:105
Alignment explanation
Indices: 90681219--90681467 Score: 303
Period size: 105 Copynumber: 2.4 Consensus size: 105
90681209 TAAGTCTGAA
* * *
90681219 GCCGGCCATTGACAAGCCAGC-TCTAATTTTTTTTAAAATACTGGTACTCTGGTGCCATCCATTA
1 GCCGGCCATTGACAGGCCAGCAACTAATTTTTTTTAAAATAC-GGTACTCTGGCGCCATCCATTA
*
90681283 ACAGACCAACACAAAAAAAATGATTTTTTTTTGTACTTGGT
65 ACAGACCAACACAAAAAAAATGATTTTTTTTCGTACTTGGT
* * *
90681324 GCCGGCCATTGACAGGCCAGCACCAAATTTTTTTTTAAAATAC-GTACTCTGGCGTCGA-CCATT
1 GCCGGCCATTGACAGGCCAGCAACTAA-TTTTTTTTAAAATACGGTACTCTGGCG-CCATCCATT
* * * * *
90681387 GACAGGCCAGCACAAAAAAATTTA-TTTTTTTCGTACTTGGT
64 AACAGACCAACACAAAAAAAATGATTTTTTTTCGTACTTGGT
**
90681428 GCTTGCCATTGACAGGCCAG-AACTAA-TTTTTTTAAAATAC
1 GCCGGCCATTGACAGGCCAGCAACTAATTTTTTTTAAAATAC
90681468 TAATATTTTT
Statistics
Matches: 126, Mismatches: 15, Indels: 10
0.83 0.10 0.07
Matches are distributed among these distances:
101 14 0.11
103 4 0.03
104 34 0.27
105 54 0.43
106 5 0.04
107 15 0.12
ACGTcount: A:0.30, C:0.22, G:0.16, T:0.32
Consensus pattern (105 bp):
GCCGGCCATTGACAGGCCAGCAACTAATTTTTTTTAAAATACGGTACTCTGGCGCCATCCATTAA
CAGACCAACACAAAAAAAATGATTTTTTTTCGTACTTGGT
Found at i:90690792 original size:17 final size:17
Alignment explanation
Indices: 90690772--90690821 Score: 57
Period size: 18 Copynumber: 2.8 Consensus size: 17
90690762 TTATATAGCA
90690772 TTTATTATATTTTTACT
1 TTTATTATATTTTTACT
*
90690789 TTTATTATATATATTACT
1 TTTATTATAT-TTTTACT
90690807 TATTA-TATTATTTTT
1 T-TTATTA-TATTTTT
90690822 TTATCATATA
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
17 10 0.36
18 12 0.43
19 6 0.21
ACGTcount: A:0.28, C:0.04, G:0.00, T:0.68
Consensus pattern (17 bp):
TTTATTATATTTTTACT
Found at i:90690811 original size:16 final size:15
Alignment explanation
Indices: 90690790--90690885 Score: 69
Period size: 16 Copynumber: 6.3 Consensus size: 15
90690780 ATTTTTACTT
90690790 TTATTATATATATTA
1 TTATTATATATATTA
90690805 CTTATTATAT-TATT-
1 -TTATTATATATATTA
*
90690819 TTTTTATCATATATTA
1 TTATTAT-ATATATTA
90690835 TGTA-TATCATATATTA
1 T-TATTAT-ATATATTA
90690851 TTTATTATAT-TATTTA
1 -TTATTATATATA-TTA
90690867 TGT-TTATAT-TATTCA
1 T-TATTATATATATT-A
90690882 TTAT
1 TTAT
90690886 ATTATTTATA
Statistics
Matches: 68, Mismatches: 2, Indels: 21
0.75 0.02 0.23
Matches are distributed among these distances:
13 6 0.09
14 5 0.07
15 22 0.32
16 30 0.44
17 5 0.07
ACGTcount: A:0.32, C:0.04, G:0.02, T:0.61
Consensus pattern (15 bp):
TTATTATATATATTA
Found at i:90690861 original size:12 final size:12
Alignment explanation
Indices: 90690771--90690894 Score: 82
Period size: 12 Copynumber: 10.5 Consensus size: 12
90690761 ATTATATAGC
90690771 ATTTATTATATT
1 ATTTATTATATT
*
90690783 -TTTACT-T-TT
1 ATTTATTATATT
90690792 A-TTATATATATT
1 ATTTAT-TATATT
*
90690804 ACTTATTATATT
1 ATTTATTATATT
* *
90690816 ATTT-TTTTATC
1 ATTTATTATATT
* *
90690827 ATATATTAT-GT
1 ATTTATTATATT
*
90690838 ATATCA-TATATT
1 AT-TTATTATATT
90690850 ATTTATTATATT
1 ATTTATTATATT
90690862 ATTTATGTTTATATT
1 ATTTA---TTATATT
*
90690877 ATTCATTATATT
1 ATTTATTATATT
90690889 ATTTAT
1 ATTTAT
90690895 AATTTTAAGA
Statistics
Matches: 85, Mismatches: 15, Indels: 24
0.69 0.12 0.19
Matches are distributed among these distances:
9 5 0.06
10 2 0.02
11 21 0.25
12 42 0.49
13 4 0.05
15 11 0.13
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.63
Consensus pattern (12 bp):
ATTTATTATATT
Found at i:90694623 original size:38 final size:38
Alignment explanation
Indices: 90694526--90694628 Score: 152
Period size: 38 Copynumber: 2.7 Consensus size: 38
90694516 GGCTTAAAGA
** * *
90694526 CCCGCAGGCTTCGTGCTGGTAAAATATCCGGGTTAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
90694564 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
1 CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
* *
90694602 CCCGCAGGCCTAGTGCTGGTATTATAT
1 CCCGCAGGCTTCGTGCTGGTATTATAT
90694629 TCGGGCCTTC
Statistics
Matches: 59, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
38 59 1.00
ACGTcount: A:0.22, C:0.23, G:0.26, T:0.28
Consensus pattern (38 bp):
CCCGCAGGCTTCGTGCTGGTATTATATCAGGGATAAAT
Found at i:90694965 original size:43 final size:43
Alignment explanation
Indices: 90694626--90694952 Score: 600
Period size: 43 Copynumber: 7.6 Consensus size: 43
90694616 GCTGGTATTA
90694626 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
90694669 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGTCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
90694712 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
90694755 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
90694798 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTA
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
90694841 TATTCGGGCCTTCGTGCCTAGCAGGCTTCTTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
* *
90694884 TATTTGAGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
1 TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
*
90694927 TATTCGGGCCTTCATGCCTAGCAGGC
1 TATTCGGGCCTTCGTGCCTAGCAGGC
90694953 GTAATGCCGG
Statistics
Matches: 273, Mismatches: 11, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 273 1.00
ACGTcount: A:0.10, C:0.25, G:0.33, T:0.31
Consensus pattern (43 bp):
TATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGCCGGTGATGTG
Found at i:90704389 original size:26 final size:26
Alignment explanation
Indices: 90704353--90704488 Score: 236
Period size: 26 Copynumber: 5.2 Consensus size: 26
90704343 CATGATATTC
90704353 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
90704379 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
90704405 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
90704431 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
90704457 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
90704483 TTATCA
1 TTATCA
90704489 ATTTGTATCA
Statistics
Matches: 104, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
26 104 1.00
ACGTcount: A:0.37, C:0.25, G:0.05, T:0.33
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:90720359 original size:52 final size:53
Alignment explanation
Indices: 90720297--90720401 Score: 203
Period size: 53 Copynumber: 2.0 Consensus size: 53
90720287 ACATGTTGTT
90720297 AGTGCCTTTC-TTTTTTATATAAATTATATTTTTATTAAAAATATGATTCACA
1 AGTGCCTTTCTTTTTTTATATAAATTATATTTTTATTAAAAATATGATTCACA
90720349 AGTGCCTTTCTTTTTTTATATAAATTATATTTTTATTAAAAATATGATTCACA
1 AGTGCCTTTCTTTTTTTATATAAATTATATTTTTATTAAAAATATGATTCACA
90720402 TGCTTTTATT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
52 10 0.19
53 42 0.81
ACGTcount: A:0.34, C:0.10, G:0.06, T:0.50
Consensus pattern (53 bp):
AGTGCCTTTCTTTTTTTATATAAATTATATTTTTATTAAAAATATGATTCACA
Found at i:90727581 original size:75 final size:73
Alignment explanation
Indices: 90727493--90727664 Score: 217
Period size: 75 Copynumber: 2.4 Consensus size: 73
90727483 GGTTTTCCTC
*** * * **
90727493 ATTGAAATACCATACCTACATTTTTTAACTCGGTATGGGA-AATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACATTTCACAACTCAGTAT-GGATAATACCATACCTACATTTCACAAC
90727557 TCAGTATGG
65 TCAGTATGG
*
90727566 ATTTGATAATACCATACCTACATTTCACAGCTCAGTATGGATAATACCATACCTACATTTCACAA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAA
90727631 CTCAGTATGG
64 CTCAGTATGG
90727641 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
90727665 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 9
0.84 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 3 0.03
74 7 0.08
75 57 0.65
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGATAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:90727662 original size:35 final size:35
Alignment explanation
Indices: 90727498--90727664 Score: 192
Period size: 35 Copynumber: 4.6 Consensus size: 35
90727488 TCCTCATTGA
*** *
90727498 AATACCATACCTACATTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACATTTCACAACTCAGTAT-GGAT
* **
90727533 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
90727573 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
90727608 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
90727643 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
90727665 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
35 88 0.75
39 3 0.03
40 27 0.23
ACGTcount: A:0.34, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:90735060 original size:35 final size:35
Alignment explanation
Indices: 90734993--90735160 Score: 185
Period size: 35 Copynumber: 4.6 Consensus size: 35
90734983 TCCTCATTGA
*** *
90734993 AATACCATACCTACATTTTTTTAACTCGGTATGGGA-
1 AATACCATACCTACA-TTTCACAACTCAGTAT-GGAT
* **
90735029 AATGCCATACCTACATTTCTTAACTCAGTATGGATTTGAT
1 AATACCATACCTACATTTCACAACTCAGTAT-G----GAT
*
90735069 AATACCATACCTACATTTCACAGCTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
90735104 AATACCATACCTACATTTCACAACTCAGTATGGAT
1 AATACCATACCTACATTTCACAACTCAGTATGGAT
*
90735139 GATACCATACCTACATTTCACA
1 AATACCATACCTACATTTCACA
90735161 CTTTGCCATG
Statistics
Matches: 118, Mismatches: 9, Indels: 11
0.86 0.07 0.08
Matches are distributed among these distances:
35 74 0.63
36 14 0.12
39 3 0.03
40 27 0.23
ACGTcount: A:0.33, C:0.24, G:0.11, T:0.32
Consensus pattern (35 bp):
AATACCATACCTACATTTCACAACTCAGTATGGAT
Found at i:90735119 original size:75 final size:73
Alignment explanation
Indices: 90734988--90735160 Score: 210
Period size: 75 Copynumber: 2.4 Consensus size: 73
90734978 GGTTTTCCTC
*** * * **
90734988 ATTGAAATACCATACCTACATTTTTTTAACTCGGTATGGGAAATGCCATACCTACATTTCTTAAC
1 ATTGAAATACCATACCTACA-TTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAAC
90735053 TCAGTATGG
65 TCAGTATGG
*
90735062 ATTTGATAATACCATACCTACATTTCACAGCTCAGTAT-GGATAATACCATACCTACATTTCACA
1 A-TTGA-AATACCATACCTACATTTCACAACTCAGTATGGGA-AATACCATACCTACATTTCACA
90735126 ACTCAGTATGG
63 ACTCAGTATGG
90735137 A-TG--ATACCATACCTACATTTCACA
1 ATTGAAATACCATACCTACATTTCACA
90735161 CTTTGCCATG
Statistics
Matches: 88, Mismatches: 8, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
70 21 0.24
73 2 0.02
74 4 0.05
75 46 0.52
76 15 0.17
ACGTcount: A:0.34, C:0.23, G:0.11, T:0.32
Consensus pattern (73 bp):
ATTGAAATACCATACCTACATTTCACAACTCAGTATGGGAAATACCATACCTACATTTCACAACT
CAGTATGG
Found at i:90737735 original size:36 final size:36
Alignment explanation
Indices: 90737688--90737759 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
90737678 ACACCATGTT
*
90737688 AGTTTTTATCTTTAGTTGAAATATTCTCACTTCTAA
1 AGTTTTTATCTTCAGTTGAAATATTCTCACTTCTAA
*
90737724 AGTTTTTATCTTCAGTTGAAGTATTCTCACTTCTAA
1 AGTTTTTATCTTCAGTTGAAATATTCTCACTTCTAA
90737760 CATTAGTATG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 34 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (36 bp):
AGTTTTTATCTTCAGTTGAAATATTCTCACTTCTAA
Found at i:90743420 original size:183 final size:183
Alignment explanation
Indices: 90743112--90743477 Score: 678
Period size: 183 Copynumber: 2.0 Consensus size: 183
90743102 ATACTAAAAT
*
90743112 TAGTTATGTTAATGGTTGATTTAGGTGTGGCAGTACTAGATTCTTGATTTTACGCTGGAAAACCT
1 TAGTTATGTTAATAGTTGATTTAGGTGTGGCAGTACTAGATTCTTGATTTTACGCTGGAAAACCT
90743177 CCATGTATGTAATGAAATAGAGAAAATAGCGAATGATGAAAGCCAAAAATTAGGGCTATTAACAC
66 CCATGTATGTAATGAAATAGAGAAAATAGCGAATGATGAAAGCCAAAAATTAGGGCTATTAACAC
*
90743242 CACACAGTCGTGTGCTAAGCCGTATGGTAGGCCATGTGCTGGACCATGTGAGA
131 CACACAGTCGTGTGCTAAGCCATATGGTAGGCCATGTGCTGGACCATGTGAGA
90743295 TAGTTATGTTAATAGTTGATTTAGGTGTGGCAGTACTAGATTCTTGATTTTACGCTGGAAAACCT
1 TAGTTATGTTAATAGTTGATTTAGGTGTGGCAGTACTAGATTCTTGATTTTACGCTGGAAAACCT
* *
90743360 CCATGTATGTAATGAAATAGAGAAAATAGTGAATGATGAAAGCCAAAAATTAGGGCTATTAACGC
66 CCATGTATGTAATGAAATAGAGAAAATAGCGAATGATGAAAGCCAAAAATTAGGGCTATTAACAC
* *
90743425 CACACAGTCGTGTGCTAAGCCATATGGTAGGCCGTGTGCTGGACCGTGTGAGA
131 CACACAGTCGTGTGCTAAGCCATATGGTAGGCCATGTGCTGGACCATGTGAGA
90743478 CACACGGTCT
Statistics
Matches: 177, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
183 177 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.29
Consensus pattern (183 bp):
TAGTTATGTTAATAGTTGATTTAGGTGTGGCAGTACTAGATTCTTGATTTTACGCTGGAAAACCT
CCATGTATGTAATGAAATAGAGAAAATAGCGAATGATGAAAGCCAAAAATTAGGGCTATTAACAC
CACACAGTCGTGTGCTAAGCCATATGGTAGGCCATGTGCTGGACCATGTGAGA
Found at i:90747987 original size:34 final size:33
Alignment explanation
Indices: 90747921--90747992 Score: 92
Period size: 34 Copynumber: 2.2 Consensus size: 33
90747911 TGTTACCGAC
* * *
90747921 ACTGAAATGGGCTAAGGCCCACATTGATACTGA
1 ACTGTAATGGGCTAAGGCCCACACTGAAACTGA
90747954 TACTGTAATGGGCTAAGGCCCTA-ACTGAAACTGA
1 -ACTGTAATGGGCTAAGGCCC-ACACTGAAACTGA
90747988 ACTGT
1 ACTGT
90747993 TACTGATACG
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
33 5 0.15
34 28 0.82
35 1 0.03
ACGTcount: A:0.32, C:0.21, G:0.24, T:0.24
Consensus pattern (33 bp):
ACTGTAATGGGCTAAGGCCCACACTGAAACTGA
Found at i:90748766 original size:25 final size:25
Alignment explanation
Indices: 90748736--90748792 Score: 87
Period size: 25 Copynumber: 2.3 Consensus size: 25
90748726 GACAGTTTAT
90748736 TCTGAAAATACTATAGATAGCATAC
1 TCTGAAAATACTATAGATAGCATAC
* * *
90748761 TTTGAAAATACTATAGTTAGCATCC
1 TCTGAAAATACTATAGATAGCATAC
90748786 TCTGAAA
1 TCTGAAA
90748793 CTATAGTGAA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 28 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (25 bp):
TCTGAAAATACTATAGATAGCATAC
Found at i:90751570 original size:42 final size:42
Alignment explanation
Indices: 90751509--90751634 Score: 155
Period size: 42 Copynumber: 3.0 Consensus size: 42
90751499 TCGTTTTCTT
** * *
90751509 GATGCCATAGTTCAACTATGGTCTTACACATCTTCACATAAT-
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACAT-ATC
* *
90751551 GATGTCATAGCCCAGCTATGGTCTTACACATATTCATATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATC
** *
90751593 GATGCCATAGCCCAGCTATGGTCTTACATGTAATCACATATC
1 GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATC
90751635 ACATATCGAT
Statistics
Matches: 72, Mismatches: 11, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 2 0.03
42 70 0.97
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (42 bp):
GATGCCATAGCCCAGCTATGGTCTTACACATATTCACATATC
Found at i:90751864 original size:31 final size:31
Alignment explanation
Indices: 90751688--90751864 Score: 257
Period size: 31 Copynumber: 5.7 Consensus size: 31
90751678 CTTGTCACTT
* *
90751688 GTAGACGAAGCTACCACTATTT-ACTGATTAG
1 GTAGCCGAAGCTACCACT-TTTCACTGATCAG
* *
90751719 GTAGCCGGAGCTACCACTTTTTACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
* *
90751750 GTAGCCGGAGCTACCACTTTTTACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
90751781 GTAGCCGAAGCTACCAATTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
90751812 GTAGCCGGAGCTACCACTTTTCACTGATCAG
1 GTAGCCGAAGCTACCACTTTTCACTGATCAG
*
90751843 GTAGCCGAAGCTATCACTTTTC
1 GTAGCCGAAGCTACCACTTTTC
90751865 TCTTGTCATT
Statistics
Matches: 135, Mismatches: 10, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
30 3 0.02
31 132 0.98
ACGTcount: A:0.25, C:0.25, G:0.21, T:0.28
Consensus pattern (31 bp):
GTAGCCGAAGCTACCACTTTTCACTGATCAG
Found at i:90751955 original size:56 final size:55
Alignment explanation
Indices: 90751881--90752024 Score: 226
Period size: 56 Copynumber: 2.7 Consensus size: 55
90751871 CATTTGTCCT
*
90751881 TGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTGTCCTTGATC
1 TGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATC
*
90751936 ATGATCAGATAAGTGTAGCCGAAGCTATTACTTATCACTTTCACTTATCCTTGATC
1 -TGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATC
90751992 --A--A-ATAAGTGTAGCCGAAGCTATCACTTATCACT
1 TGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACT
90752025 GGTTGCCATA
Statistics
Matches: 85, Mismatches: 3, Indels: 6
0.90 0.03 0.06
Matches are distributed among these distances:
50 30 0.35
51 1 0.01
53 1 0.01
56 53 0.62
ACGTcount: A:0.29, C:0.22, G:0.15, T:0.33
Consensus pattern (55 bp):
TGATCAGATAAGTGTAGCCGAAGCTATCACTTATCACTTTCACTTATCCTTGATC
Found at i:90751974 original size:50 final size:50
Alignment explanation
Indices: 90751912--90752024 Score: 160
Period size: 50 Copynumber: 2.3 Consensus size: 50
90751902 AGCTATCACT
*
90751912 TATCACTT-TCACTTGTC-CTTGAT-CATGATCAGATAAGTGTAGCCGAAGC
1 TATCACTTATCACTT-TCACTT-ATCCATGATCAAATAAGTGTAGCCGAAGC
* *
90751961 TATTACTTATCACTTTCACTTATCCTTGATCAAATAAGTGTAGCCGAAGC
1 TATCACTTATCACTTTCACTTATCCATGATCAAATAAGTGTAGCCGAAGC
90752011 TATCACTTATCACT
1 TATCACTTATCACT
90752025 GGTTGCCATA
Statistics
Matches: 57, Mismatches: 4, Indels: 5
0.86 0.06 0.08
Matches are distributed among these distances:
49 11 0.19
50 46 0.81
ACGTcount: A:0.28, C:0.23, G:0.13, T:0.35
Consensus pattern (50 bp):
TATCACTTATCACTTTCACTTATCCATGATCAAATAAGTGTAGCCGAAGC
Found at i:90762407 original size:173 final size:171
Alignment explanation
Indices: 90762048--90762375 Score: 457
Period size: 173 Copynumber: 1.9 Consensus size: 171
90762038 TATGGATTTT
* *
90762048 CTAATTTC-AGAAAAAAAATATTGATAATTGTGAATAATAATACTTTGAGTAGTCAAATTTGAAT
1 CTAATTTCAAGAAAAAAAATATGGATAATTGTGAATAATAATACTTTGAATAGTCAAATTTGAAT
*
90762112 ATTTCAAGTAGCGTTGGGAGTGGGAACCCTTTGATATTTGCTTTGACATTTGTCCAAGTTGGAAG
66 ATTTCAAGTAGCGTTGGGAGTGGGAACCCTTTGATATTTACTTTGACATTTGTCCAAGTTGGAAG
** * * *
90762177 CACGCGAGGGGATTAGTCATATTGCTACCAACAATAGACATC
131 CAAACGAAGGAATTAATCA-ATTGCTACCAACAATAGACATC
* *
90762219 CTAATTTCAAGAAAAAAAGATATGGATAATTGTGAATAATGATACTTTGAATAGTCATATTTGAA
1 CTAATTTCAAGAAAAAAA-ATATGGATAATTGTGAATAATAATACTTTGAATAGTCAAATTTGAA
* * * * *
90762284 TATTTTAGGTAGTGTTGGGAGTGGG-ACCCTTTGATTTTTACTTCTG-CATTTGTCCAATTTGGA
65 TATTTCAAGTAGCGTTGGGAGTGGGAACCCTTTGATATTTACTT-TGACATTTGTCCAAGTTGGA
*
90762347 GGCAAACGAAGGAATTAATC-ATTGCTACC
129 AGCAAACGAAGGAATTAATCAATTGCTACC
90762376 GATAGTGAAC
Statistics
Matches: 138, Mismatches: 16, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
170 9 0.07
171 8 0.06
172 55 0.40
173 66 0.48
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.34
Consensus pattern (171 bp):
CTAATTTCAAGAAAAAAAATATGGATAATTGTGAATAATAATACTTTGAATAGTCAAATTTGAAT
ATTTCAAGTAGCGTTGGGAGTGGGAACCCTTTGATATTTACTTTGACATTTGTCCAAGTTGGAAG
CAAACGAAGGAATTAATCAATTGCTACCAACAATAGACATC
Found at i:90762427 original size:3 final size:3
Alignment explanation
Indices: 90762419--90762464 Score: 92
Period size: 3 Copynumber: 15.3 Consensus size: 3
90762409 GATAATTGTG
90762419 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
90762465 GAAGTCAAAT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 43 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:90782266 original size:46 final size:46
Alignment explanation
Indices: 90782166--90782350 Score: 162
Period size: 46 Copynumber: 3.8 Consensus size: 46
90782156 CATAGTAAAA
* * *
90782166 CTATGGTCTTGCACATAGTCACATATCACACACG-TAGCCATAGCCCAG
1 CTATGGTCTTACACAGA-TCACATATCACAC-TGAT-GCCATAGCCCAG
* *
90782214 CCATGGTCTTACAC-GAATCACATATCACACTGATGCCATATCCCAG
1 CTATGGTCTTACACAG-ATCACATATCACACTGATGCCATAGCCCAG
* *
90782260 ATATGGTCTTATACGAAGCACGTAATCACATAT--CTCTGATGCCATAGCCCAG
1 CTATGGTC-T-TAC--A-CA-G--ATCACATATCACACTGATGCCATAGCCCAG
*
90782312 CTATGGTCTTACACAGATCACATATCACATTGATGCCAT
1 CTATGGTCTTACACAGATCACATATCACACTGATGCCAT
90782351 GGTCCAACCA
Statistics
Matches: 113, Mismatches: 12, Indels: 26
0.75 0.08 0.17
Matches are distributed among these distances:
44 9 0.08
46 29 0.26
47 17 0.15
48 17 0.15
50 4 0.04
51 2 0.02
52 24 0.21
53 1 0.01
54 10 0.09
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (46 bp):
CTATGGTCTTACACAGATCACATATCACACTGATGCCATAGCCCAG
Found at i:90783498 original size:23 final size:22
Alignment explanation
Indices: 90783431--90783516 Score: 97
Period size: 21 Copynumber: 4.0 Consensus size: 22
90783421 CCTGATCAGT
*
90783431 ATACGACACATAA-GTGCCTGA
1 ATACGACACACAAGGTGCCTGA
*
90783452 A-ACGACACACGAGGTGCCTG-
1 ATACGACACACAAGGTGCCTGA
90783472 ATACGACACACAAGGTGCCTGAA
1 ATACGACACACAAGGTGCCTG-A
* * *
90783495 ATACGCCACATAAAGTGCCTGA
1 ATACGACACACAAGGTGCCTGA
90783517 TCAGTATAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 10 0.18
21 26 0.47
22 1 0.02
23 18 0.33
ACGTcount: A:0.36, C:0.27, G:0.22, T:0.15
Consensus pattern (22 bp):
ATACGACACACAAGGTGCCTGA
Found at i:90783752 original size:28 final size:28
Alignment explanation
Indices: 90783720--90783802 Score: 123
Period size: 28 Copynumber: 3.0 Consensus size: 28
90783710 AACACACCAG
* *
90783720 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
90783748 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
90783776 TATAATCCATCCAAAACACA-CAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
90783803 GCACAAAGTG
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
28 40 0.80
29 10 0.20
ACGTcount: A:0.47, C:0.30, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:90783775 original size:23 final size:23
Alignment explanation
Indices: 90783706--90783776 Score: 79
Period size: 28 Copynumber: 2.9 Consensus size: 23
90783696 AAATGTCCAA
*
90783706 CCAAAACACACCAGTATAATCCT
1 CCAAAACACACCAGAATAATCCT
90783729 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----A-ATAATCCT
*
90783757 CCCAAACACACCAGAATAAT
1 CCAAAACACACCAGAATAAT
90783777 ATAATCCATC
Statistics
Matches: 41, Mismatches: 2, Indels: 10
0.77 0.04 0.19
Matches are distributed among these distances:
23 19 0.46
24 1 0.02
28 21 0.51
ACGTcount: A:0.45, C:0.34, G:0.04, T:0.17
Consensus pattern (23 bp):
CCAAAACACACCAGAATAATCCT
Found at i:90787033 original size:110 final size:110
Alignment explanation
Indices: 90786840--90787059 Score: 413
Period size: 110 Copynumber: 2.0 Consensus size: 110
90786830 CTACTAACTC
* *
90786840 CTCTTAGTGGTCTATTTTCCATATAAGGATCTCAAATTTTGAATTCCATATCTGTTTGATACCTA
1 CTCTTAGTGGTCTATTTTCCATATAAGGATCTCAAATTTTGAATTCCATATCTATTTGATACATA
90786905 TAGCTACTAGAACTCAACTTTTATATTTTATGCAATTTGGTCCTT
66 TAGCTACTAGAACTCAACTTTTATATTTTATGCAATTTGGTCCTT
*
90786950 CTCTTAGTGGTCTATTTTCCATATAAGGATCTCAAATTTTGAATTCCATATCTATTTGATATATA
1 CTCTTAGTGGTCTATTTTCCATATAAGGATCTCAAATTTTGAATTCCATATCTATTTGATACATA
90787015 TAGCTACTAGAACTCAACTTTTATATTTTATGCAATTTGGTCCTT
66 TAGCTACTAGAACTCAACTTTTATATTTTATGCAATTTGGTCCTT
90787060 TCCATCTAAT
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.27, C:0.17, G:0.11, T:0.44
Consensus pattern (110 bp):
CTCTTAGTGGTCTATTTTCCATATAAGGATCTCAAATTTTGAATTCCATATCTATTTGATACATA
TAGCTACTAGAACTCAACTTTTATATTTTATGCAATTTGGTCCTT
Found at i:90791216 original size:12 final size:12
Alignment explanation
Indices: 90791197--90791227 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
90791187 TAGGTACAGC
90791197 CATTGGATATGG
1 CATTGGATATGG
*
90791209 CGTTGGATATGG
1 CATTGGATATGG
90791221 CATTGGA
1 CATTGGA
90791228 GAAGGGAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.10, G:0.35, T:0.32
Consensus pattern (12 bp):
CATTGGATATGG
Found at i:90791235 original size:54 final size:54
Alignment explanation
Indices: 90791159--90791263 Score: 165
Period size: 54 Copynumber: 1.9 Consensus size: 54
90791149 AAATGGCATG
* * *
90791159 GGATATGGCATTGAAGATGGGAACCAGTTAGGTACAGCCATTGGATATGGCGTT
1 GGATATGGCATTGAAGAAGGGAACCAGGTAGGTACAGCCATTGGACATGGCGTT
* *
90791213 GGATATGGCATTGGAGAAGGGAACCAGGTAGGTACAGGCATTGGACATGGC
1 GGATATGGCATTGAAGAAGGGAACCAGGTAGGTACAGCCATTGGACATGGC
90791264 ATGGGAAGTG
Statistics
Matches: 46, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
54 46 1.00
ACGTcount: A:0.29, C:0.13, G:0.36, T:0.22
Consensus pattern (54 bp):
GGATATGGCATTGAAGAAGGGAACCAGGTAGGTACAGCCATTGGACATGGCGTT
Found at i:90791295 original size:42 final size:42
Alignment explanation
Indices: 90791211--90791317 Score: 108
Period size: 42 Copynumber: 2.5 Consensus size: 42
90791201 GGATATGGCG
* * *
90791211 TTGGATATGGCATTGGAGAA-GGGAACCAGGTAGGTACAGGCA
1 TTGGACATGGCATGGGA-AATGGGAACCAGGTAGGGACAGGCA
* * **
90791253 TTGGACATGGCATGGGAAGTGGGAACCAGTTAGGGATGGGCA
1 TTGGACATGGCATGGGAAATGGGAACCAGGTAGGGACAGGCA
** *
90791295 TTGGGTATGGCATTGGAAATGGG
1 TTGGACATGGCATGGGAAATGGG
90791318 GATCAATCAG
Statistics
Matches: 53, Mismatches: 11, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 1 0.02
42 52 0.98
ACGTcount: A:0.27, C:0.10, G:0.41, T:0.21
Consensus pattern (42 bp):
TTGGACATGGCATGGGAAATGGGAACCAGGTAGGGACAGGCA
Found at i:90791376 original size:84 final size:84
Alignment explanation
Indices: 90791260--90791426 Score: 228
Period size: 84 Copynumber: 2.0 Consensus size: 84
90791250 GCATTGGACA
* * * * * *
90791260 TGGCATGGGAAGTGGGAACCAGTTAGGGATGGGCATTGGGTATGGCATTGGAAATGGGGATCAAT
1 TGGCATCGGAAATGCGAACCAGATAGGGATGGGCATCGGGTATGGCATTGGAAATGGGGATCAAG
90791325 CAGGAAATAACATGGGATT
66 CAGGAAATAACATGGGATT
* * *
90791344 TGGCATCGGAAATGCGAACCAGAT-GGGAATGGGTATCGGGTATGGCATTGGAAATGGGGGTCAG
1 TGGCATCGGAAATGCGAACCAGATAGGG-ATGGGCATCGGGTATGGCATTGGAAATGGGGATCAA
*
90791408 GCCGGAAATAACATGGGAT
65 GCAGGAAATAACATGGGAT
90791427 ATGCCATTGG
Statistics
Matches: 72, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
83 3 0.04
84 69 0.96
ACGTcount: A:0.29, C:0.11, G:0.38, T:0.21
Consensus pattern (84 bp):
TGGCATCGGAAATGCGAACCAGATAGGGATGGGCATCGGGTATGGCATTGGAAATGGGGATCAAG
CAGGAAATAACATGGGATT
Found at i:90791552 original size:42 final size:42
Alignment explanation
Indices: 90791432--90791538 Score: 171
Period size: 42 Copynumber: 2.5 Consensus size: 42
90791422 GGGATATGCC
* *
90791432 ATTGGATATGGCACTGGAAATGGGAACCAGTTAGGAACGGGT
1 ATTGGATATGGTACTGGAAATGGGAACCAGTTAGGAACCGGT
90791474 ATTGGATATGGTACTGGAAATGGGAACCAGTTAGGAACCGGT
1 ATTGGATATGGTACTGGAAATGGGAACCAGTTAGGAACCGGT
*
90791516 ATTGGATTTGGTA-TCGGAAATGG
1 ATTGGATATGGTACT-GGAAATGG
90791539 AGGTCAGTCA
Statistics
Matches: 61, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
41 1 0.02
42 60 0.98
ACGTcount: A:0.30, C:0.10, G:0.35, T:0.25
Consensus pattern (42 bp):
ATTGGATATGGTACTGGAAATGGGAACCAGTTAGGAACCGGT
Found at i:90799214 original size:6 final size:6
Alignment explanation
Indices: 90799203--90799251 Score: 98
Period size: 6 Copynumber: 8.2 Consensus size: 6
90799193 AATCTTCCCC
90799203 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
1 ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT ATTTTT
90799251 A
1 A
90799252 AAGCTTAAGA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 43 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (6 bp):
ATTTTT
Found at i:90801818 original size:27 final size:27
Alignment explanation
Indices: 90801788--90801861 Score: 96
Period size: 27 Copynumber: 2.7 Consensus size: 27
90801778 AGGCGATCCA
90801788 TTCAGAGTT-CGCCACAAAGGCTTTTCT
1 TTCAGA-TTACGCCACAAAGGCTTTTCT
*
90801815 TTCATATTACGCCACAAAGGCTTTTCT
1 TTCAGATTACGCCACAAAGGCTTTTCT
* * *
90801842 TTCATATTACACCATAAAGG
1 TTCAGATTACGCCACAAAGG
90801862 TGTTCCTTTC
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 2 0.05
27 41 0.95
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (27 bp):
TTCAGATTACGCCACAAAGGCTTTTCT
Found at i:90801870 original size:27 final size:27
Alignment explanation
Indices: 90801799--90801876 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
90801789 TCAGAGTTCG
* *
90801799 CCACAAAGGCTTTTCTTTCATATTACG
1 CCACAAAGGCTTTCCTTTCATATTACA
*
90801826 CCACAAAGGCTTTTCTTTCATATTACA
1 CCACAAAGGCTTTCCTTTCATATTACA
*
90801853 CCATAAAGG-TGTTCCTTTCATATT
1 CCACAAAGGCT-TTCCTTTCATATT
90801877 GCCTAAGTTA
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
26 1 0.02
27 46 0.98
ACGTcount: A:0.27, C:0.24, G:0.10, T:0.38
Consensus pattern (27 bp):
CCACAAAGGCTTTCCTTTCATATTACA
Found at i:90805468 original size:17 final size:17
Alignment explanation
Indices: 90805446--90805481 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
90805436 ATGGAACACC
90805446 TCTACGTCATCCAAGAA
1 TCTACGTCATCCAAGAA
*
90805463 TCTACGTTATCCAAGAA
1 TCTACGTCATCCAAGAA
90805480 TC
1 TC
90805482 CTTAGCTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.33, C:0.28, G:0.11, T:0.28
Consensus pattern (17 bp):
TCTACGTCATCCAAGAA
Found at i:90805988 original size:26 final size:26
Alignment explanation
Indices: 90805952--90806005 Score: 108
Period size: 26 Copynumber: 2.1 Consensus size: 26
90805942 CCAAAATATT
90805952 AATTTGCCAAAAGCTATAATTTGGTG
1 AATTTGCCAAAAGCTATAATTTGGTG
90805978 AATTTGCCAAAAGCTATAATTTGGTG
1 AATTTGCCAAAAGCTATAATTTGGTG
90806004 AA
1 AA
90806006 CTAACTTCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.37, C:0.11, G:0.19, T:0.33
Consensus pattern (26 bp):
AATTTGCCAAAAGCTATAATTTGGTG
Done.