Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 43 of 425
Found at i:11344905 original size:43 final size:43
Alignment explanation
Indices: 11344844--11345021 Score: 302
Period size: 43 Copynumber: 4.1 Consensus size: 43
11344834 CCTTGCTCGA
** * *
11344844 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
11344887 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
11344930 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
11344973 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
11345016 ATCACC
1 ATCACC
11345022 AGCATGACTG
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 129 1.00
ACGTcount: A:0.32, C:0.33, G:0.21, T:0.14
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:11345195 original size:42 final size:42
Alignment explanation
Indices: 11345004--11345215 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 42
11344994 AGGCACGAAG
* * * * * * *
11345004 GCCCGAATACATATCACCAGCATGACTGCTCTTCGGAACCTG
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * * * *
11345046 GTCCGG--ATACATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * *
11345086 GCCCGG--ATATATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
11345126 GCCCGGATGTA-A-CACCAGCACGAATGCTCTACGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
11345166 ACCCGGATATATATCGCCAGCACGAATGCTCTTCGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
11345208 GCCCGGAT
1 GCCCGGAT
11345216 CATCGTCGAG
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
40 103 0.72
41 2 0.01
42 39 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (42 bp):
GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
Found at i:11347268 original size:25 final size:25
Alignment explanation
Indices: 11347194--11347271 Score: 76
Period size: 25 Copynumber: 3.2 Consensus size: 25
11347184 CTCGGCCCTG
11347194 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
** *
11347219 TCACAT-T-GGCTA--TTCAGCCTT-A
1 TCACATATATAC-ACCTTCA-CATTCA
11347241 TCACATATATACACCTTCACATTCA
1 TCACATATATACACCTTCACATTCA
11347266 TCACAT
1 TCACAT
11347272 CTGCCATTAG
Statistics
Matches: 40, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 11 0.28
23 6 0.15
24 6 0.15
25 17 0.43
ACGTcount: A:0.32, C:0.31, G:0.04, T:0.33
Consensus pattern (25 bp):
TCACATATATACACCTTCACATTCA
Found at i:11347317 original size:49 final size:47
Alignment explanation
Indices: 11347143--11347459 Score: 440
Period size: 47 Copynumber: 6.7 Consensus size: 47
11347133 CCCTTCGGGA
* * * * * *
11347143 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* * *
11347190 CCTGTCACATATATACACCTTCACATTCATCACATTGGCTATTCA-GC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATT-AGGC
11347237 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
11347284 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
11347333 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTAGGC
*
11347382 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
11347429 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
11347460 GCGTAAAATC
Statistics
Matches: 242, Mismatches: 20, Indels: 16
0.87 0.07 0.06
Matches are distributed among these distances:
46 1 0.00
47 151 0.62
48 2 0.01
49 88 0.36
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:11347340 original size:96 final size:94
Alignment explanation
Indices: 11347143--11347459 Score: 458
Period size: 96 Copynumber: 3.3 Consensus size: 94
11347133 CCCTTCGGGA
* * * * * * *
11347143 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACAC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
* *
11347208 CTTCACATTCATCACATTGGCTATTCA-GC
66 CTTCACATTCATCACATCGGCCATT-AGGC
*
11347237 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGCCTTATCACATATATATA
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTCGGCCTTATCAC--ATATATA
*
11347301 CACTTTCACATTCATCACATCGGCCATTAGGC
63 CACCTTCACATTCATCACATCGGCCATTAGGC
11347333 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATAC
11347398 ACCTTCACATTCATCACATCGGCCATTAGGC
64 ACCTTCACATTCATCACATCGGCCATTAGGC
*
11347429 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
11347460 GCGTAAAATC
Statistics
Matches: 202, Mismatches: 14, Indels: 14
0.88 0.06 0.06
Matches are distributed among these distances:
94 57 0.28
95 2 0.01
96 108 0.53
97 2 0.01
98 33 0.16
ACGTcount: A:0.29, C:0.31, G:0.08, T:0.32
Consensus pattern (94 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTCGGCCTTATCACATATATACAC
CTTCACATTCATCACATCGGCCATTAGGC
Found at i:11351471 original size:47 final size:47
Alignment explanation
Indices: 11351393--11351708 Score: 433
Period size: 47 Copynumber: 6.7 Consensus size: 47
11351383 CCCTTCGGGA
* * * * * *
11351393 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* *
11351440 CCTGTCACATATATACACCTTCACATTCATCACATTGG-CATTCA-GC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATT-AGGC
11351486 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
11351533 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
11351582 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGC
*
11351631 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
11351678 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
11351709 GCGTAAAATC
Statistics
Matches: 242, Mismatches: 16, Indels: 22
0.86 0.06 0.08
Matches are distributed among these distances:
46 41 0.17
47 112 0.46
48 1 0.00
49 87 0.36
50 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:11351656 original size:96 final size:95
Alignment explanation
Indices: 11351393--11351708 Score: 439
Period size: 96 Copynumber: 3.3 Consensus size: 95
11351383 CCCTTCGGGA
* * * * * * * *
11351393 CTTATCACATTTATACAC-TTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACATATATACACACTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACA
*
11351457 CCTTCACATTCATCACATTGG-CATTCA-GC
66 CCTTCACATTCATCACATCGGCCATT-AGGC
11351486 CTTATCACATATATACAC-CTTCACATTCATCACATCT-GCCATT-AGGCCTTATCACATATATA
1 CTTATCACATATATACACACTTCACATTCATCACAT-TGGCCATTCA-GCCTTATCAC--ATATA
*
11351548 TACACTTTCACATTCATCACATCGGCCATTAGGC
62 TACACCTTCACATTCATCACATCGGCCATTAGGC
11351582 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
1 CTTATCACATATATACACAC-TTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
11351647 ACCTTCACATTCATCACATCGGCCATTAGGC
65 ACCTTCACATTCATCACATCGGCCATTAGGC
11351678 CTTATCACATATATACACA-TTCACATTCATC
1 CTTATCACATATATACACACTTCACATTCATC
11351709 GCGTAAAATC
Statistics
Matches: 202, Mismatches: 11, Indels: 19
0.87 0.05 0.08
Matches are distributed among these distances:
93 44 0.22
94 13 0.06
95 29 0.14
96 81 0.40
97 2 0.01
98 32 0.16
99 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (95 bp):
CTTATCACATATATACACACTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACA
CCTTCACATTCATCACATCGGCCATTAGGC
Found at i:11353405 original size:43 final size:43
Alignment explanation
Indices: 11353344--11353521 Score: 311
Period size: 43 Copynumber: 4.1 Consensus size: 43
11353334 CCTTGCTCGA
** * *
11353344 ATCACCGGCATTAAGCCTGCTAAGCACGAAGACCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
*
11353387 ATCACCGGCACAAAGCCTGCTAGGCTCGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
11353430 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
11353473 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
1 ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
11353516 ATCACC
1 ATCACC
11353522 AGCATGACTG
Statistics
Matches: 129, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
43 129 1.00
ACGTcount: A:0.33, C:0.33, G:0.21, T:0.13
Consensus pattern (43 bp):
ATCACCGGCACAAAGCCTGCTAGGCACGAAGGCCCGAATACAT
Found at i:11353695 original size:42 final size:42
Alignment explanation
Indices: 11353504--11353715 Score: 211
Period size: 40 Copynumber: 5.2 Consensus size: 42
11353494 AGGCACGAAG
* * * * * * *
11353504 GCCCGAATACATATCACCAGCATGACTGCTCTTCGGAACCTG
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * * * *
11353546 GTCCGG--ATACATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* * *
11353586 GCCCGG--ATATATCACTAGCATGAATGCTCTTCGGGATTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
11353626 GCCCGGATGTA-A-CACCAGCACGAATGCTCTACGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
* *
11353666 ACCCGGATATATATCGCCAGCACGAATGCTCTTCGGGACTTA
1 GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
11353708 GCCCGGAT
1 GCCCGGAT
11353716 CATCGTCGAG
Statistics
Matches: 144, Mismatches: 22, Indels: 8
0.83 0.13 0.05
Matches are distributed among these distances:
40 103 0.72
41 2 0.01
42 39 0.27
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (42 bp):
GCCCGGATATATATCACCAGCACGAATGCTCTTCGGGACTTA
Found at i:11355719 original size:47 final size:47
Alignment explanation
Indices: 11355641--11355956 Score: 433
Period size: 47 Copynumber: 6.7 Consensus size: 47
11355631 CCCTTCGGGA
* * * * * *
11355641 CTTATCACATTTATACACTTTCACATCCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
* *
11355688 CCTGTCACATATATACACCTTCACATTCATCACATTGG-CATTCA-GC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATT-AGGC
11355734 CTTATCACATATATACACCTTCACATTCATCACATCT-GCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACAT-TGGCCATTAGGC
* *
11355781 CTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCAC--ATATATACACCTTCACATTCATCACATTGGCCATTAGGC
11355830 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCA-GC
1 CTTATCACATATATACAC-C-TTCACATTCATCACATTGGCCATT-AGGC
*
11355879 CTTATCACATATATACACCTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
*
11355926 CTTATCACATATATACACATTCACATTCATC
1 CTTATCACATATATACACCTTCACATTCATC
11355957 GCGTAAAATC
Statistics
Matches: 242, Mismatches: 16, Indels: 22
0.86 0.06 0.08
Matches are distributed among these distances:
46 41 0.17
47 112 0.46
48 1 0.00
49 87 0.36
50 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (47 bp):
CTTATCACATATATACACCTTCACATTCATCACATTGGCCATTAGGC
Found at i:11355904 original size:96 final size:95
Alignment explanation
Indices: 11355641--11355956 Score: 439
Period size: 96 Copynumber: 3.3 Consensus size: 95
11355631 CCCTTCGGGA
* * * * * * * *
11355641 CTTATCACATTTATACAC-TTTCACATCCATCACGTTGGCCACTCGGCCCTGTCACATATATACA
1 CTTATCACATATATACACACTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACA
*
11355705 CCTTCACATTCATCACATTGG-CATTCA-GC
66 CCTTCACATTCATCACATCGGCCATT-AGGC
11355734 CTTATCACATATATACAC-CTTCACATTCATCACATCT-GCCATT-AGGCCTTATCACATATATA
1 CTTATCACATATATACACACTTCACATTCATCACAT-TGGCCATTCA-GCCTTATCAC--ATATA
*
11355796 TACACTTTCACATTCATCACATCGGCCATTAGGC
62 TACACCTTCACATTCATCACATCGGCCATTAGGC
11355830 CTTATCACATATATACACACTTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
1 CTTATCACATATATACACAC-TTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATAC
11355895 ACCTTCACATTCATCACATCGGCCATTAGGC
65 ACCTTCACATTCATCACATCGGCCATTAGGC
11355926 CTTATCACATATATACACA-TTCACATTCATC
1 CTTATCACATATATACACACTTCACATTCATC
11355957 GCGTAAAATC
Statistics
Matches: 202, Mismatches: 11, Indels: 19
0.87 0.05 0.08
Matches are distributed among these distances:
93 44 0.22
94 13 0.06
95 29 0.14
96 81 0.40
97 2 0.01
98 32 0.16
99 1 0.00
ACGTcount: A:0.29, C:0.31, G:0.07, T:0.32
Consensus pattern (95 bp):
CTTATCACATATATACACACTTCACATTCATCACATTGGCCATTCAGCCTTATCACATATATACA
CCTTCACATTCATCACATCGGCCATTAGGC
Found at i:11359258 original size:13 final size:13
Alignment explanation
Indices: 11359240--11359265 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11359230 ATTGGCCAAA
11359240 ATGTTTTGGATGC
1 ATGTTTTGGATGC
11359253 ATGTTTTGGATGC
1 ATGTTTTGGATGC
11359266 TTACTTTAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.08, G:0.31, T:0.46
Consensus pattern (13 bp):
ATGTTTTGGATGC
Found at i:11363722 original size:17 final size:18
Alignment explanation
Indices: 11363702--11363737 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
11363692 AAAATCATTA
11363702 ATTA-AATTCTTGAAAAT
1 ATTATAATTCTTGAAAAT
*
11363719 ATTATAATTTTTGAAAAT
1 ATTATAATTCTTGAAAAT
11363737 A
1 A
11363738 AAAAATTCAG
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 4 0.24
18 13 0.76
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (18 bp):
ATTATAATTCTTGAAAAT
Found at i:11366001 original size:89 final size:90
Alignment explanation
Indices: 11365831--11366027 Score: 222
Period size: 89 Copynumber: 2.2 Consensus size: 90
11365821 TTTCTAAAAC
* *
11365831 TTTACCAATATTTTTAAGGCTCTACCAAAGGTTTCCTTAGTGTCCCAAATCCAACTAACTCAACA
1 TTTACCAATATTTTTAAGGCTCTACCAAA-GTTTCCTTAATGTCCCAAACCCAACTAACTCAACA
* * * *
11365896 TTTTGCCATTTCAAAATTTATATGGA
65 TTATGACATTACAAAATTTATAAGGA
* * *
11365922 TTTACCAATATTTTTAAGAG-TTTATCAAA-TTTCCTTAATGTGCCAAACCCAA-TCAACTCAAC
1 TTTACCAATATTTTTAAG-GCTCTACCAAAGTTTCCTTAATGTCCCAAACCCAACT-AACTCAAC
*
11365984 ATTATGACA-TACAAAAATTTCTAAGGA
64 ATTATGACATTAC-AAAATTTATAAGGA
* *
11366011 TTTATCAAAATTTTTAA
1 TTTACCAATATTTTTAA
11366028 AGATTTACAA
Statistics
Matches: 91, Mismatches: 12, Indels: 8
0.82 0.11 0.07
Matches are distributed among these distances:
88 3 0.03
89 62 0.68
91 25 0.27
92 1 0.01
ACGTcount: A:0.36, C:0.19, G:0.08, T:0.37
Consensus pattern (90 bp):
TTTACCAATATTTTTAAGGCTCTACCAAAGTTTCCTTAATGTCCCAAACCCAACTAACTCAACAT
TATGACATTACAAAATTTATAAGGA
Found at i:11366022 original size:20 final size:20
Alignment explanation
Indices: 11365997--11366258 Score: 129
Period size: 20 Copynumber: 13.5 Consensus size: 20
11365987 ATGACATACA
*
11365997 AAAATTTCTAAGGATTTATC
1 AAAATTTCTAAGGATTTACC
* * *
11366017 AAAATTTTTAAAGATTTACA
1 AAAATTTCTAAGGATTTACC
*
11366037 AAAATATT-TGAGGATTT-CTC
1 AAAAT-TTCTAAGGATTTAC-C
* *
11366057 AAAATTTCT-ATGTTTATACC
1 AAAATTTCTAAGGATT-TACC
*
11366077 AAAATATCTAAGGATTTACC
1 AAAATTTCTAAGGATTTACC
* * * *
11366097 ATAATTTGTAAAGATTCACC
1 AAAATTTCTAAGGATTTACC
*
11366117 AAAATTTATAAGGATTTACC
1 AAAATTTCTAAGGATTTACC
* * * *
11366137 AAAACTTATTAGG-TTATACT
1 AAAATTTCTAAGGATT-TACC
** *
11366157 AAAATAACTAAAGATTTA-C
1 AAAATTTCTAAGGATTTACC
* *
11366176 ------TATAA-GATTATACT
1 AAAATTTCTAAGGATT-TACC
* *
11366190 AAAATATCTAAGGATTTACT
1 AAAATTTCTAAGGATTTACC
** *
11366210 TGAATCTT-TAAGGATATACC
1 AAAAT-TTCTAAGGATTTACC
11366230 AAAATTTCTAAGGATTTACC
1 AAAATTTCTAAGGATTTACC
11366250 -AAATTTCTA
1 AAAATTTCTA
11366259 GAGTATACTA
Statistics
Matches: 180, Mismatches: 43, Indels: 39
0.69 0.16 0.15
Matches are distributed among these distances:
12 4 0.02
13 5 0.03
19 20 0.11
20 137 0.76
21 14 0.08
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.37
Consensus pattern (20 bp):
AAAATTTCTAAGGATTTACC
Found at i:11366131 original size:80 final size:80
Alignment explanation
Indices: 11365992--11366180 Score: 197
Period size: 80 Copynumber: 2.4 Consensus size: 80
11365982 ACATTATGAC
* * * * * *
11365992 ATACAAAAATTTCTAAGGATTTATCAAAATTTTTAAAGATTTACAAAAATATTTGAGGATTT-CT
1 ATACAAAAATATCTAAGGATTTACCATAATTTGTAAAGATTCACAAAAATATTTAAGGATTTAC-
*
11366056 CAAAA-TT-TCTATGTTT
65 CAAAACTTAT-TA-GGTT
* *
11366072 ATACCAAAATATCTAAGGATTTACCATAATTTGTAAAGATTCACCAAAAT-TTATAAGGATTTAC
1 ATACAAAAATATCTAAGGATTTACCATAATTTGTAAAGATTCACAAAAATATT-TAAGGATTTAC
11366136 CAAAACTTATTAGGTT
65 CAAAACTTATTAGGTT
* * * *
11366152 ATACTAAAATAACTAAAGATTTACTATAA
1 ATACAAAAATATCTAAGGATTTACCATAA
11366181 GATTATACTA
Statistics
Matches: 92, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
79 2 0.02
80 84 0.91
81 5 0.05
82 1 0.01
ACGTcount: A:0.44, C:0.11, G:0.08, T:0.37
Consensus pattern (80 bp):
ATACAAAAATATCTAAGGATTTACCATAATTTGTAAAGATTCACAAAAATATTTAAGGATTTACC
AAAACTTATTAGGTT
Found at i:11366364 original size:21 final size:18
Alignment explanation
Indices: 11366334--11366506 Score: 109
Period size: 20 Copynumber: 8.9 Consensus size: 18
11366324 ACTAATCTTG
*
11366334 TTAAGGTTTAACCAAAATT
1 TTAAGATTT-ACCAAAATT
11366353 TGTAAGATTTTACCAAAAATT
1 T-TAAGA-TTTACC-AAAATT
11366374 TTAAAGATTTACCAAAATT
1 TT-AAGATTTACCAAAATT
* *
11366393 TATAAGGTTATACCAACATT
1 T-TAAGATT-TACCAAAATT
* * **
11366413 TT-GGA--TACTAATCTT
1 TTAAGATTTACCAAAATT
*
11366428 GTTAAGGTTTGACCAAAATT
1 -TTAAGATTT-ACCAAAATT
11366448 TGTAAGATTTTACCAAAAATT
1 T-TAAGA-TTTACC-AAAATT
11366469 TTAAAGATTTACCAAAATT
1 TT-AAGATTTACCAAAATT
*
11366488 TATAAGGTTATACCAAAAT
1 T-TAAGATT-TACCAAAAT
11366507 ATCTAAGAGT
Statistics
Matches: 122, Mismatches: 15, Indels: 33
0.72 0.09 0.19
Matches are distributed among these distances:
15 7 0.06
16 2 0.02
17 1 0.01
18 1 0.01
19 28 0.23
20 55 0.45
21 28 0.23
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.37
Consensus pattern (18 bp):
TTAAGATTTACCAAAATT
Found at i:11366419 original size:95 final size:95
Alignment explanation
Indices: 11366311--11366503 Score: 377
Period size: 95 Copynumber: 2.0 Consensus size: 95
11366301 TCGTTCAACT
11366311 CAACATTTTGGATACTAATCTTGTTAAGGTTTAACCAAAATTTGTAAGATTTTACCAAAAATTTT
1 CAACATTTTGGATACTAATCTTGTTAAGGTTTAACCAAAATTTGTAAGATTTTACCAAAAATTTT
11366376 AAAGATTTACCAAAATTTATAAGGTTATAC
66 AAAGATTTACCAAAATTTATAAGGTTATAC
*
11366406 CAACATTTTGGATACTAATCTTGTTAAGGTTTGACCAAAATTTGTAAGATTTTACCAAAAATTTT
1 CAACATTTTGGATACTAATCTTGTTAAGGTTTAACCAAAATTTGTAAGATTTTACCAAAAATTTT
11366471 AAAGATTTACCAAAATTTATAAGGTTATAC
66 AAAGATTTACCAAAATTTATAAGGTTATAC
11366501 CAA
1 CAA
11366504 AATATCTAAG
Statistics
Matches: 97, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 97 1.00
ACGTcount: A:0.40, C:0.12, G:0.11, T:0.37
Consensus pattern (95 bp):
CAACATTTTGGATACTAATCTTGTTAAGGTTTAACCAAAATTTGTAAGATTTTACCAAAAATTTT
AAAGATTTACCAAAATTTATAAGGTTATAC
Found at i:11366544 original size:20 final size:21
Alignment explanation
Indices: 11366519--11366571 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
11366509 CTAAGAGTAT
11366519 CAAAATTTCTAAA-GCCTTAC
1 CAAAATTTCTAAAGGCCTTAC
* ** *
11366539 CAAAATCTC-AAAGGGTTTGC
1 CAAAATTTCTAAAGGCCTTAC
11366559 CAAAATTTCTAAA
1 CAAAATTTCTAAA
11366572 AATTTCCTTA
Statistics
Matches: 26, Mismatches: 5, Indels: 3
0.76 0.15 0.09
Matches are distributed among these distances:
19 3 0.12
20 20 0.77
21 3 0.12
ACGTcount: A:0.42, C:0.21, G:0.09, T:0.28
Consensus pattern (21 bp):
CAAAATTTCTAAAGGCCTTAC
Found at i:11366736 original size:20 final size:20
Alignment explanation
Indices: 11366713--11366840 Score: 102
Period size: 20 Copynumber: 6.5 Consensus size: 20
11366703 CAAAAAAGTT
*
11366713 TAAGGATGTACCAAAATTTC
1 TAAGGATTTACCAAAATTTC
* * *
11366733 TAAGGTTTTA-C-TAATATC
1 TAAGGATTTACCAAAATTTC
*
11366751 TAAGGATTTACAAAAATTTC
1 TAAGGATTTACCAAAATTTC
* *
11366771 TAA-GATTATAACAAAATATC
1 TAAGGATT-TACCAAAATTTC
* * *
11366791 TAAGTATTTATCAATATTTC
1 TAAGGATTTACCAAAATTTC
* *
11366811 GAAGGCA-TTACAAAAATTTC
1 TAAGG-ATTTACCAAAATTTC
11366831 TAAGGATTTA
1 TAAGGATTTA
11366841 ACAGTATTTC
Statistics
Matches: 81, Mismatches: 21, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
18 14 0.17
19 6 0.07
20 57 0.70
21 4 0.05
ACGTcount: A:0.42, C:0.11, G:0.11, T:0.36
Consensus pattern (20 bp):
TAAGGATTTACCAAAATTTC
Found at i:11366810 original size:40 final size:39
Alignment explanation
Indices: 11366745--11366853 Score: 105
Period size: 40 Copynumber: 2.7 Consensus size: 39
11366735 AGGTTTTACT
*
11366745 AATATCTAAGGATTTACAAAAATTTCTAA-G-ATTATAACAA
1 AATATCTAAGGATTTAC-AATATTTCTAAGGCATTA-AA-AA
* * *
11366785 AATATCTAAGTATTTATCAATATTTCGAAGGCATTACAAA
1 AATATCTAAGGATTTA-CAATATTTCTAAGGCATTAAAAA
* *
11366825 AATTTCTAAGGATTTAACAGTATTTCTAA
1 AATATCTAAGGATTT-ACAATATTTCTAA
11366854 AAATTTACCG
Statistics
Matches: 57, Mismatches: 8, Indels: 8
0.78 0.11 0.11
Matches are distributed among these distances:
40 49 0.86
41 4 0.07
42 4 0.07
ACGTcount: A:0.44, C:0.11, G:0.09, T:0.36
Consensus pattern (39 bp):
AATATCTAAGGATTTACAATATTTCTAAGGCATTAAAAA
Found at i:11367072 original size:41 final size:42
Alignment explanation
Indices: 11367011--11367104 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 42
11367001 ACAAAAATGC
* **
11367011 CCTTAG-AA-TTTTTGGCAAATCCCTAGATATTTTGATTCAA
1 CCTTAGAAATTTTTTGGCAAATCCCTAGAAATTTTGATAAAA
* * *
11367051 CCTTAGAAATTTTTTGG-AAATCCTTATAAATTTTGGTAAAA
1 CCTTAGAAATTTTTTGGCAAATCCCTAGAAATTTTGATAAAA
11367092 CCTTAGAAATTTT
1 CCTTAGAAATTTT
11367105 GGTAAACCTT
Statistics
Matches: 46, Mismatches: 6, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
40 6 0.13
41 33 0.72
42 7 0.15
ACGTcount: A:0.33, C:0.14, G:0.12, T:0.41
Consensus pattern (42 bp):
CCTTAGAAATTTTTTGGCAAATCCCTAGAAATTTTGATAAAA
Found at i:11367075 original size:21 final size:22
Alignment explanation
Indices: 11367049--11367104 Score: 73
Period size: 20 Copynumber: 2.7 Consensus size: 22
11367039 ATTTTGATTC
11367049 AACCTTAGAAATTTTTTGG-AA
1 AACCTTAGAAATTTTTTGGTAA
* *
11367070 ATCCTTATAAA--TTTTGGTAA
1 AACCTTAGAAATTTTTTGGTAA
11367090 AACCTTAGAAATTTT
1 AACCTTAGAAATTTT
11367105 GGTAAACCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 5
0.76 0.11 0.14
Matches are distributed among these distances:
19 6 0.21
20 11 0.39
21 9 0.32
22 2 0.07
ACGTcount: A:0.38, C:0.11, G:0.11, T:0.41
Consensus pattern (22 bp):
AACCTTAGAAATTTTTTGGTAA
Found at i:11367095 original size:20 final size:20
Alignment explanation
Indices: 11367062--11367118 Score: 75
Period size: 20 Copynumber: 3.0 Consensus size: 20
11367052 CTTAGAAATT
*
11367062 TTTTGG-AAATCCTTATAAA
1 TTTTGGTAAAACCTTATAAA
*
11367081 TTTTGGTAAAACCTTAGAAA
1 TTTTGGTAAAACCTTATAAA
11367101 TTTTGGT-AAACCTT-TAAA
1 TTTTGGTAAAACCTTATAAA
11367119 AATATCGCTA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
18 3 0.09
19 13 0.38
20 18 0.53
ACGTcount: A:0.37, C:0.11, G:0.12, T:0.40
Consensus pattern (20 bp):
TTTTGGTAAAACCTTATAAA
Found at i:11367121 original size:20 final size:20
Alignment explanation
Indices: 11367078--11367148 Score: 72
Period size: 20 Copynumber: 3.5 Consensus size: 20
11367068 AAATCCTTAT
*
11367078 AAATTTTGGTAAAACC-TTAG
1 AAATTTTGGT-AAACCTTTAA
11367098 AAATTTTGGTAAACCTTTAA
1 AAATTTTGGTAAACCTTTAA
* * * **
11367118 AAATATCGCTAAATATTTAA
1 AAATTTTGGTAAACCTTTAA
11367138 AAATTTTGGTA
1 AAATTTTGGTA
11367149 TGCCAAAATG
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
19 5 0.12
20 36 0.88
ACGTcount: A:0.42, C:0.08, G:0.11, T:0.38
Consensus pattern (20 bp):
AAATTTTGGTAAACCTTTAA
Found at i:11370525 original size:46 final size:46
Alignment explanation
Indices: 11370458--11370635 Score: 178
Period size: 46 Copynumber: 3.8 Consensus size: 46
11370448 TGTAACCCGC
* * *
11370458 CCATAAGCGAACTTGGACTCAACTCAACGAGCTCGGGTGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * *
11370504 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGCCTAG-TT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG-TTCGCAT
* *** * * **
11370550 ACATCTCTCGAACTCGGACTCAACTCAACGAGTTCCGACATTCGCAT
1 CCATAAGT-GAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
* * *
11370597 TCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGATG
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATG
11370636 CCCAAATATC
Statistics
Matches: 104, Mismatches: 25, Indels: 6
0.77 0.19 0.04
Matches are distributed among these distances:
46 70 0.67
47 34 0.33
ACGTcount: A:0.28, C:0.28, G:0.21, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGATGTTCGCAT
Found at i:11370578 original size:93 final size:93
Alignment explanation
Indices: 11370465--11370637 Score: 265
Period size: 93 Copynumber: 1.9 Consensus size: 93
11370455 CGCCCATAAG
* * ***
11370465 CGAACTTGGACTCAACTCAACGAGCTCGGGTGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
11370530 ACGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
11370558 CGAACTCGGACTCAACTCAACGAGTTCCGACATTCGCATTCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCTCCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
11370623 ATGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
11370638 CAAATATCCT
Statistics
Matches: 71, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.23
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCTCCGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:11375380 original size:3 final size:3
Alignment explanation
Indices: 11375372--11375427 Score: 112
Period size: 3 Copynumber: 18.7 Consensus size: 3
11375362 TACCAACCTG
11375372 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
11375420 AAT AAT AA
1 AAT AAT AA
11375428 AACCCATACC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:11375892 original size:5 final size:5
Alignment explanation
Indices: 11375882--11375912 Score: 62
Period size: 5 Copynumber: 6.2 Consensus size: 5
11375872 ACTATACACC
11375882 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA ATAAA A
11375913 ACACTCAGGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 26 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:11376487 original size:2 final size:2
Alignment explanation
Indices: 11376480--11376508 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
11376470 GAAGAAAATA
11376480 AG AG AG AG AG AG AG AG AG AG AG AG A- AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
11376509 GGGGGGGGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 25 0.96
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:11379119 original size:11 final size:10
Alignment explanation
Indices: 11379040--11379115 Score: 50
Period size: 11 Copynumber: 7.3 Consensus size: 10
11379030 ATACCAACAT
*
11379040 AATTGTTAAA
1 AATTATTAAA
11379050 TAATTATTAAA
1 -AATTATTAAA
11379061 AATTA-TAAA
1 AATTATTAAA
*
11379070 AGTATT-GTAGAA
1 A--ATTATTA-AA
*
11379082 AATTATTTGAA
1 AATTA-TTAAA
11379093 AATTA-TAAA
1 AATTATTAAA
11379102 AATATATTAAA
1 AAT-TATTAAA
11379113 AAT
1 AAT
11379116 ATATAGCTAT
Statistics
Matches: 53, Mismatches: 4, Indels: 16
0.73 0.05 0.22
Matches are distributed among these distances:
9 11 0.21
10 10 0.19
11 28 0.53
12 4 0.08
ACGTcount: A:0.55, C:0.00, G:0.07, T:0.38
Consensus pattern (10 bp):
AATTATTAAA
Found at i:11379772 original size:22 final size:24
Alignment explanation
Indices: 11379720--11379773 Score: 60
Period size: 22 Copynumber: 2.3 Consensus size: 24
11379710 TTTTTTATGA
11379720 TTAAATTATTGTTATTAAATATGCT
1 TTAAATTATTGTTATT-AATATGCT
*
11379745 TGAAATTATTG-TATT-ATAT-CTT
1 TTAAATTATTGTTATTAATATGC-T
11379767 TTAAATT
1 TTAAATT
11379774 GAATTTATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 1 0.04
22 11 0.42
24 4 0.15
25 10 0.38
ACGTcount: A:0.35, C:0.04, G:0.07, T:0.54
Consensus pattern (24 bp):
TTAAATTATTGTTATTAATATGCT
Found at i:11384671 original size:48 final size:48
Alignment explanation
Indices: 11384615--11384883 Score: 213
Period size: 48 Copynumber: 5.6 Consensus size: 48
11384605 TATGTGTGCT
* * *
11384615 AATGTAAGACCATGTCTAGAACATGGCATTGGCCACATTATGAGAGCC
1 AATGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *** * *
11384663 AATGTAAGACCATGTTTGGGACATGGCATCGGCGTTGA-TATGTGTA-CT
1 AATGTAAGACCATGTCTGGGACATGGCATCGGC-CACATTATGAG-AGCC
* * * *
11384711 AGTGTAAGACTATGTCTGGGATATGGCATCGGCCACATTATGAGAGTC
1 AATGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
* *** * * *
11384759 AGTGTAAGACCATGTCTGGGACATGGCATCGG-CGTTTATATGTGTGCT
1 AATGTAAGACCATGTCTGGGACATGGCATCGGCCACAT-TATGAGAGCC
* * * * * ** *
11384807 AGTGTAAGACCATGTCCGGGATATGACATCGG-TATTGTTATGAGAGCT
1 AATGTAAGACCATGTCTGGGACATGGCATCGGCCA-CATTATGAGAGCC
*
11384855 ACTGTAAGACCATGTCTGGGACATGGCAT
1 AATGTAAGACCATGTCTGGGACATGGCAT
11384884 TGGCAACTTA
Statistics
Matches: 175, Mismatches: 40, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
47 4 0.02
48 167 0.95
49 4 0.02
ACGTcount: A:0.27, C:0.17, G:0.28, T:0.28
Consensus pattern (48 bp):
AATGTAAGACCATGTCTGGGACATGGCATCGGCCACATTATGAGAGCC
Found at i:11384765 original size:96 final size:95
Alignment explanation
Indices: 11384600--11384883 Score: 381
Period size: 96 Copynumber: 3.0 Consensus size: 95
11384590 ATGGCATTTA
* * * * *
11384600 GTTGATATGTGTGCTAATGTAAGACCATGTCTAGAACATGGCATTGGCCACATTATGAGAGCCAA
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCACATTATGAGAG-CAA
*
11384665 TGTAAGACCATGTTTGGGACATGGCATCGGC
65 TGTAAGACCATGTCTGGGACATGGCATCGGC
* * *
11384696 GTTGATATGTGTACTAGTGTAAGACTATGTCTGGGATATGGCATCGGCCACATTATGAGAGTCAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCACATTATGAGAG-CAA
11384761 TGTAAGACCATGTCTGGGACATGGCATCGGC
65 TGTAAGACCATGTCTGGGACATGGCATCGGC
* * * * **
11384792 GTTTATATGTGTGCTAGTGTAAGACCATGTCCGGGATATGACATCGG-TATTGTTATGAGAGCTA
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCA-CATTATGAGAGC-A
*
11384856 CTGTAAGACCATGTCTGGGACATGGCAT
64 ATGTAAGACCATGTCTGGGACATGGCAT
11384884 TGGCAACTTA
Statistics
Matches: 167, Mismatches: 19, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
95 2 0.01
96 165 0.99
ACGTcount: A:0.26, C:0.17, G:0.29, T:0.29
Consensus pattern (95 bp):
GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGATATGGCATCGGCCACATTATGAGAGCAAT
GTAAGACCATGTCTGGGACATGGCATCGGC
Found at i:11391800 original size:48 final size:48
Alignment explanation
Indices: 11391727--11391947 Score: 261
Period size: 48 Copynumber: 4.6 Consensus size: 48
11391717 TGATATGTGT
* *
11391727 GCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCATATTATGAGA
* ** * *
11391775 GCTAGTGTAAAACCATGTCTAGGACATGGCATCAGCGTTGA-TATGTGT
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCAT-ATTATGAGA
* *
11391823 GCTAGTGTAAGATCATGTCTAGGACATGGCATCGGCCATATTAT-AGGA
1 GCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCATATTATGA-GA
* ** *
11391871 G-TCAGTGTAAGTCCATGTCTAGGACATGGCATC-GGTATTGTTATGAGA
1 GCT-AGTGTAAGACCATGTCTAGGACATGGCATCAGCCA-TATTATGAGA
11391919 GCTAGTGTAAGACCATGTCTAGGACATGG
1 GCTAGTGTAAGACCATGTCTAGGACATGG
11391948 TATCTGCCTC
Statistics
Matches: 146, Mismatches: 20, Indels: 14
0.81 0.11 0.08
Matches are distributed among these distances:
47 4 0.03
48 139 0.95
49 3 0.02
ACGTcount: A:0.28, C:0.17, G:0.28, T:0.27
Consensus pattern (48 bp):
GCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCATATTATGAGA
Found at i:11391879 original size:96 final size:96
Alignment explanation
Indices: 11391715--11391947 Score: 326
Period size: 96 Copynumber: 2.4 Consensus size: 96
11391705 ATGACATTTG
*
11391715 GTTGATATGTGTGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCACATTATGAGAGCTAG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACATTATGAGAGCTAG
11391780 TGTAAAACCATGTCTAGGACATGGCATCAGC
66 TGTAAAACCATGTCTAGGACATGGCATCAGC
* * *
11391811 GTTGATATGTGTGCTAGTGTAAGATCATGTCTAGGACATGGCATCGGCCATATTAT-AGGAG-TC
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACATTATGA-GAGCT-
** * *
11391874 AGTGTAAGTCCATGTCTAGGACATGGCATCGGT
64 AGTGTAAAACCATGTCTAGGACATGGCATCAGC
* * * *
11391907 ATTGTTATGAGAGCTAGTGTAAGACCATGTCTAGGACATGG
1 GTTGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGG
11391948 TATCTGCCTC
Statistics
Matches: 122, Mismatches: 13, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
95 2 0.02
96 120 0.98
ACGTcount: A:0.27, C:0.16, G:0.28, T:0.28
Consensus pattern (96 bp):
GTTGATATGTGTGCTAGTGTAAGACCATGTCTAGGACATGGCATCAGCCACATTATGAGAGCTAG
TGTAAAACCATGTCTAGGACATGGCATCAGC
Found at i:11395758 original size:9 final size:8
Alignment explanation
Indices: 11395737--11395779 Score: 50
Period size: 8 Copynumber: 5.1 Consensus size: 8
11395727 GCATAATTTA
11395737 AAAAAAAT
1 AAAAAAAT
* *
11395745 GAAAATAT
1 AAAAAAAT
11395753 AAAAAAAT
1 AAAAAAAT
11395761 AATAAAAAT
1 AA-AAAAAT
11395770 AAAAATAAT
1 AAAAA-AAT
11395779 A
1 A
11395780 TAATGACGAC
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
8 17 0.59
9 12 0.41
ACGTcount: A:0.79, C:0.00, G:0.02, T:0.19
Consensus pattern (8 bp):
AAAAAAAT
Found at i:11395782 original size:17 final size:18
Alignment explanation
Indices: 11395736--11395779 Score: 56
Period size: 18 Copynumber: 2.4 Consensus size: 18
11395726 TGCATAATTT
11395736 AAAAAA-AATGAAAATATA
1 AAAAAATAAT-AAAATATA
11395754 AAAAAATAATAAAA-ATA
1 AAAAAATAATAAAATATA
11395771 AAAATAATA
1 AAAA-AATA
11395780 TAATGACGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.29
18 14 0.58
19 3 0.12
ACGTcount: A:0.80, C:0.00, G:0.02, T:0.18
Consensus pattern (18 bp):
AAAAAATAATAAAATATA
Found at i:11396873 original size:13 final size:13
Alignment explanation
Indices: 11396855--11396915 Score: 63
Period size: 13 Copynumber: 4.8 Consensus size: 13
11396845 TTCTTCATTA
*
11396855 CTTTTGAAAAATG
1 CTTTTGAAAAGTG
11396868 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* *
11396881 CTATGGAAAAGTG
1 CTTTTGAAAAGTG
*
11396894 CTTTT-AAGAAGTA
1 CTTTTGAA-AAGTG
11396907 C-TTTGAAAA
1 CTTTTGAAAA
11396916 AATTTAAGTG
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
12 7 0.17
13 33 0.82
ACGTcount: A:0.38, C:0.08, G:0.20, T:0.34
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:11405626 original size:21 final size:20
Alignment explanation
Indices: 11405588--11405626 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
11405578 ATTTATTTAA
* *
11405588 TATTTTTATATTTTTAAATT
1 TATTTTTATATATGTAAATT
11405608 TATTTTTATTATATGTAAA
1 TATTTTTA-TATATGTAAA
11405627 CTTGTCAAAC
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 8 0.50
21 8 0.50
ACGTcount: A:0.33, C:0.00, G:0.03, T:0.64
Consensus pattern (20 bp):
TATTTTTATATATGTAAATT
Found at i:11406506 original size:31 final size:31
Alignment explanation
Indices: 11406471--11406567 Score: 97
Period size: 31 Copynumber: 3.1 Consensus size: 31
11406461 TTATATTTAA
11406471 TTTTAATATTTAATTTGGTATTTAAGTTTTT
1 TTTTAATATTTAATTTGGTATTTAAGTTTTT
* * **
11406502 TTTT-ATGTTTTAATTTGGTATTTGAGTTTGA
1 TTTTAAT-ATTTAATTTGGTATTTAAGTTTTT
* * * * *
11406533 CTTCAATGTTTAATTTGATAATTAAGTTTTT
1 TTTTAATATTTAATTTGGTATTTAAGTTTTT
11406564 TTTT
1 TTTT
11406568 TGTCCTATAC
Statistics
Matches: 50, Mismatches: 14, Indels: 4
0.74 0.21 0.06
Matches are distributed among these distances:
30 2 0.04
31 46 0.92
32 2 0.04
ACGTcount: A:0.24, C:0.02, G:0.12, T:0.62
Consensus pattern (31 bp):
TTTTAATATTTAATTTGGTATTTAAGTTTTT
Found at i:11406919 original size:21 final size:20
Alignment explanation
Indices: 11406889--11406928 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
11406879 GAATGATGAG
*
11406889 TAAGAACTCTTATAAAATAAA
1 TAAGAACTCTT-CAAAATAAA
*
11406910 TAAGATCTCTTCAAAATAA
1 TAAGAACTCTTCAAAATAA
11406929 TAATAAAAAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 7 0.41
21 10 0.59
ACGTcount: A:0.53, C:0.12, G:0.05, T:0.30
Consensus pattern (20 bp):
TAAGAACTCTTCAAAATAAA
Found at i:11410967 original size:33 final size:34
Alignment explanation
Indices: 11410905--11411033 Score: 116
Period size: 35 Copynumber: 3.7 Consensus size: 34
11410895 ATCCAACCAA
* * * * *
11410905 AACACACTAGATGCTCACAAGAGCCAATCCGTCTG
1 AACACAC-AAATGCTCATAAGAGCTAATCCCTCAG
*
11410940 -ACACACAAATGCTCATAAGAGTTAATCCCTCAG
1 AACACACAAATGCTCATAAGAGCTAATCCCTCAG
* * * **
11410973 AAACACACTAATGTTTATAAGAGCTAATCTTTTCAG
1 -AACACACAAATGCTCATAAGAGCTAATC-CCTCAG
*
11411009 AACACACCAATGCTCATAAGAGCTA
1 AACACACAAATGCTCATAAGAGCTA
11411034 GTCCAATCGA
Statistics
Matches: 76, Mismatches: 15, Indels: 6
0.78 0.15 0.06
Matches are distributed among these distances:
33 21 0.28
34 6 0.08
35 45 0.59
36 4 0.05
ACGTcount: A:0.39, C:0.26, G:0.13, T:0.22
Consensus pattern (34 bp):
AACACACAAATGCTCATAAGAGCTAATCCCTCAG
Found at i:11418286 original size:35 final size:35
Alignment explanation
Indices: 11418119--11418282 Score: 181
Period size: 35 Copynumber: 4.7 Consensus size: 35
11418109 AATCTAACCA
* * *
11418119 AAACACACCAGATGCTCACAAGAGCCAATCCAT-CG
1 AAACACACCA-ATGCTCATAAGAGCTAATCCCTCCG
* * * *
11418154 --ACACACAAATGCTTATAAGAGTTAATCCCTCTG
1 AAACACACCAATGCTCATAAGAGCTAATCCCTCCG
* **
11418187 AAACACACTAATGCTTGTAAGAGCTAATCCCTCCG
1 AAACACACCAATGCTCATAAGAGCTAATCCCTCCG
* *
11418222 AAACACACCAATGCTCATAAGAGCTAGTCCCTCCA
1 AAACACACCAATGCTCATAAGAGCTAATCCCTCCG
*
11418257 AAACACACCAATACTCATAAGAGCTA
1 AAACACACCAATGCTCATAAGAGCTA
11418283 GTCCAACCGA
Statistics
Matches: 109, Mismatches: 17, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
32 17 0.16
33 8 0.07
35 84 0.77
ACGTcount: A:0.39, C:0.30, G:0.12, T:0.19
Consensus pattern (35 bp):
AAACACACCAATGCTCATAAGAGCTAATCCCTCCG
Found at i:11419991 original size:10 final size:10
Alignment explanation
Indices: 11419961--11419994 Score: 52
Period size: 9 Copynumber: 3.4 Consensus size: 10
11419951 TTCCAACCGC
11419961 AAGAAAGTAAA
1 AAGAAAG-AAA
11419972 AAGAAA-AAA
1 AAGAAAGAAA
11419981 AAGAAAGAAA
1 AAGAAAGAAA
11419991 AAGA
1 AAGA
11419995 GACGTAGGGA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 9 0.41
10 7 0.32
11 6 0.27
ACGTcount: A:0.79, C:0.00, G:0.18, T:0.03
Consensus pattern (10 bp):
AAGAAAGAAA
Found at i:11437561 original size:6 final size:6
Alignment explanation
Indices: 11437552--11437584 Score: 66
Period size: 6 Copynumber: 5.5 Consensus size: 6
11437542 ATGTTGGAGT
11437552 AGGTGA AGGTGA AGGTGA AGGTGA AGGTGA AGG
1 AGGTGA AGGTGA AGGTGA AGGTGA AGGTGA AGG
11437585 CGTGATTCGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 27 1.00
ACGTcount: A:0.33, C:0.00, G:0.52, T:0.15
Consensus pattern (6 bp):
AGGTGA
Found at i:11449443 original size:31 final size:31
Alignment explanation
Indices: 11449390--11449452 Score: 76
Period size: 31 Copynumber: 2.0 Consensus size: 31
11449380 TAAACTGTGA
11449390 AAACCATCATTGCTGGACAATCCAAGG-TGGT
1 AAACCATCATTGCTGGACAATCC-AGGATGGT
* *
11449421 AAACCATCGTT-CTTGGATAATCCAGGATGGT
1 AAACCATCATTGC-TGGACAATCCAGGATGGT
11449452 A
1 A
11449453 GGTCATCGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
30 4 0.14
31 24 0.86
ACGTcount: A:0.32, C:0.21, G:0.22, T:0.25
Consensus pattern (31 bp):
AAACCATCATTGCTGGACAATCCAGGATGGT
Found at i:11449642 original size:111 final size:111
Alignment explanation
Indices: 11449356--11449644 Score: 271
Period size: 111 Copynumber: 2.6 Consensus size: 111
11449346 ATCATTTCCG
* * * * * *
11449356 AGCAA-CTCGAGATGACAGATTCGTTAAACTGTGAAAACCATCATTG-CTGGACAATCCAAGGTG
1 AGCAACCT-GAGATGACAGATTCATTGAACTATGAAAATCATCATCGTCAGG-CAATCCAAGGTG
* * * ** ** *
11449419 GTAAACCATCGTTCTTGGATAATCCAGGATGGTAGGTCATCGTTATCG
64 GTAAACCATCATTGTCGGGCAATCTGGGATGGTAGGTCATCGTTATCA
* ** * * * * * *
11449467 GGCAACCTGAGATGACAGATTTTTTGAATTGTGAAAATCATCGTCGTTAGGTAATCCAATGTGGT
1 AGCAACCTGAGATGACAGATTCATTGAACTATGAAAATCATCATCGTCAGGCAATCCAAGGTGGT
*
11449532 AAACCATCATTGTCGGGCAATCTGGGATGGTAGGTCATCGTTTTCA
66 AAACCATCATTGTCGGGCAATCTGGGATGGTAGGTCATCGTTATCA
* * *
11449578 AGCAACCTGGGATGAC-GAATTCATTGAACTATGAAAATCATCATTGTCAGGCAA-CCTAGGGTG
1 AGCAACCTGAGATGACAG-ATTCATTGAACTATGAAAATCATCATCGTCAGGCAATCC-AAGGTG
11449641 GTAA
64 GTAA
11449645 GTTATCGTTG
Statistics
Matches: 141, Mismatches: 33, Indels: 8
0.77 0.18 0.04
Matches are distributed among these distances:
110 3 0.02
111 134 0.95
112 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (111 bp):
AGCAACCTGAGATGACAGATTCATTGAACTATGAAAATCATCATCGTCAGGCAATCCAAGGTGGT
AAACCATCATTGTCGGGCAATCTGGGATGGTAGGTCATCGTTATCA
Found at i:11450720 original size:21 final size:21
Alignment explanation
Indices: 11450691--11450730 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11450681 ATAAGAAAAT
*
11450691 TTTTTTGTTAGTATTATGTAG
1 TTTTGTGTTAGTATTATGTAG
* *
11450712 TTTTGTGTTATTTTTATGT
1 TTTTGTGTTAGTATTATGT
11450731 TTTGTTTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.17, T:0.68
Consensus pattern (21 bp):
TTTTGTGTTAGTATTATGTAG
Found at i:11450851 original size:27 final size:27
Alignment explanation
Indices: 11450816--11450868 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
11450806 AAATTTTTTT
*
11450816 AATATATTTGATATTGTTAGAAATGGC
1 AATAAATTTGATATTGTTAGAAATGGC
11450843 AATAAATTTGATATTGTTAGAAATGG
1 AATAAATTTGATATTGTTAGAAATGG
11450869 ACTATTATCA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.40, C:0.02, G:0.19, T:0.40
Consensus pattern (27 bp):
AATAAATTTGATATTGTTAGAAATGGC
Found at i:11454992 original size:7 final size:7
Alignment explanation
Indices: 11454980--11455030 Score: 102
Period size: 7 Copynumber: 7.3 Consensus size: 7
11454970 TTTAATCTTA
11454980 CATTCAC
1 CATTCAC
11454987 CATTCAC
1 CATTCAC
11454994 CATTCAC
1 CATTCAC
11455001 CATTCAC
1 CATTCAC
11455008 CATTCAC
1 CATTCAC
11455015 CATTCAC
1 CATTCAC
11455022 CATTCAC
1 CATTCAC
11455029 CA
1 CA
11455031 ATACCATTAA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 44 1.00
ACGTcount: A:0.29, C:0.43, G:0.00, T:0.27
Consensus pattern (7 bp):
CATTCAC
Found at i:11455006 original size:21 final size:21
Alignment explanation
Indices: 11454980--11455038 Score: 102
Period size: 21 Copynumber: 2.9 Consensus size: 21
11454970 TTTAATCTTA
11454980 CATTCACCATTCACCATTCAC
1 CATTCACCATTCACCATTCAC
11455001 CATTCACCATTCACCATTCAC
1 CATTCACCATTCACCATTCAC
*
11455022 CATTCACCAAT-ACCATT
1 CATTCACCATTCACCATT
11455039 AACACACTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
20 6 0.16
21 31 0.84
ACGTcount: A:0.31, C:0.41, G:0.00, T:0.29
Consensus pattern (21 bp):
CATTCACCATTCACCATTCAC
Found at i:11457969 original size:33 final size:33
Alignment explanation
Indices: 11457882--11457996 Score: 95
Period size: 33 Copynumber: 3.5 Consensus size: 33
11457872 TTCAGCCGAA
* * * * *
11457882 AGGAGTGCTATACTGCAGTGGATATGACCCAAG
1 AGGAGTGTTGTACTGCAGTGGATACGGCCCAGG
* ** * ** *
11457915 AAGAGTGGAGTATTGTGGTGGATACGGCCCAGT
1 AGGAGTGTTGTACTGCAGTGGATACGGCCCAGG
* **
11457948 AGGAGTGTTGTACTGCAGTGGATACGGGCTGGG
1 AGGAGTGTTGTACTGCAGTGGATACGGCCCAGG
11457981 AGGAGTGTTGTACTGC
1 AGGAGTGTTGTACTGC
11457997 GATGAATATA
Statistics
Matches: 61, Mismatches: 21, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
33 61 1.00
ACGTcount: A:0.23, C:0.14, G:0.38, T:0.24
Consensus pattern (33 bp):
AGGAGTGTTGTACTGCAGTGGATACGGCCCAGG
Found at i:11468018 original size:18 final size:18
Alignment explanation
Indices: 11467987--11468022 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
11467977 AAAAATTACT
*
11467987 AAATAGTATGAAAATAAA
1 AAATAATATGAAAATAAA
*
11468005 AAATAATATTAAAATAAA
1 AAATAATATGAAAATAAA
11468023 TATTACAAAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.69, C:0.00, G:0.06, T:0.25
Consensus pattern (18 bp):
AAATAATATGAAAATAAA
Found at i:11481397 original size:75 final size:75
Alignment explanation
Indices: 11481267--11481416 Score: 221
Period size: 75 Copynumber: 2.0 Consensus size: 75
11481257 AAGGAAAACC
* * *
11481267 AGGATTATTCCCTTATTAATAGAGAAGGCAAAAGGAAAGCTAGAAAAATGAATTATATTCTTTCT
1 AGGATTATTCCCTTATTAATAGAGAAGGCAAAAGGAAAGCTAAAAAAACGAATTATATTCTTTCC
*
11481332 AAATGAATAT
66 AAAAGAATAT
* * *
11481342 AGGATTATTCCCTTATTAATAGAGAAGGCAAATGGAAAGTTACAAAAAACG-ATTATATTTTTTC
1 AGGATTATTCCCTTATTAATAGAGAAGGCAAAAGGAAAGCTA-AAAAAACGAATTATATTCTTTC
11481406 CAAAAGAATAT
65 CAAAAGAATAT
11481417 TAATTTCCAT
Statistics
Matches: 67, Mismatches: 7, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
75 61 0.91
76 6 0.09
ACGTcount: A:0.44, C:0.10, G:0.15, T:0.31
Consensus pattern (75 bp):
AGGATTATTCCCTTATTAATAGAGAAGGCAAAAGGAAAGCTAAAAAAACGAATTATATTCTTTCC
AAAAGAATAT
Found at i:11481760 original size:140 final size:140
Alignment explanation
Indices: 11481393--11481811 Score: 659
Period size: 140 Copynumber: 3.0 Consensus size: 140
11481383 ACAAAAAACG
*
11481393 ATTATATTTTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAAT
1 ATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAAT
* *
11481458 ATAA-TTTTTATATTAATAAATTCGGTAAAATA--TATACAATTAATATTTTGTATGAACCAAAT
66 ATAACTATTTATATTAATAAATTCGGTAAAATATTTATACAATTAATATTTTGTATGAATCAAAT
11481520 TCATATATTA
131 TCATATATTA
* * * ** *
11481530 ATTATATTCTTT-GAAAAGAATATTGATTTCCATATCTTTTATATTTTGACGGAAGTTAATTAAT
1 ATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAAT
* *
11481594 ATAACTGTTTATATTAATAAAATCGGTAAAATATTTATACAATTAATATTTTGTATGAATCAAAT
66 ATAACTATTTATATTAATAAATTCGGTAAAATATTTATACAATTAATATTTTGTATGAATCAAAT
11481659 TCATATATTA
131 TCATATATTA
* *
11481669 ATTATATTCTTTCCAAAAGAATATTAATTTTCATGTCTTTTAT-TTTCTGACTAAAATTAATTAA
1 ATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTT-TGACCAAAATTAATTAA
* *
11481733 TATAACTATTTATATTAATAAATTCGGTAAATTTTTTATACAATTAATATTTTGTATGAATCAAA
65 TATAACTATTTATATTAATAAATTCGGTAAAATATTTATACAATTAATATTTTGTATGAATCAAA
11481798 TTCATATATTA
130 TTCATATATTA
11481809 ATT
1 ATT
11481812 TTATCTATAT
Statistics
Matches: 256, Mismatches: 21, Indels: 7
0.90 0.07 0.02
Matches are distributed among these distances:
136 50 0.20
137 37 0.14
139 54 0.21
140 115 0.45
ACGTcount: A:0.40, C:0.08, G:0.06, T:0.46
Consensus pattern (140 bp):
ATTATATTCTTTCCAAAAGAATATTAATTTCCATGTCTTTTATATTTTGACCAAAATTAATTAAT
ATAACTATTTATATTAATAAATTCGGTAAAATATTTATACAATTAATATTTTGTATGAATCAAAT
TCATATATTA
Found at i:11482491 original size:26 final size:26
Alignment explanation
Indices: 11482454--11482561 Score: 166
Period size: 26 Copynumber: 4.2 Consensus size: 26
11482444 TGATACAAAT
11482454 TGATAA-AGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11482479 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11482505 TGATAAT-GGGTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
11482530 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
11482556 TGATAA
1 TGATAA
11482562 GAATTTCATG
Statistics
Matches: 78, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
25 29 0.37
26 49 0.63
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:11482509 original size:51 final size:51
Alignment explanation
Indices: 11482454--11482561 Score: 171
Period size: 51 Copynumber: 2.1 Consensus size: 51
11482444 TGATACAAAT
*
11482454 TGATAAAGGTTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
1 TGATAAAGGGTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
* * * *
11482505 TGATAATGGGTAGGTAAATGTTTCATGATAATGGGTTAGGTAAATGTTTCA
1 TGATAAAGGGTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
11482556 TGATAA
1 TGATAA
11482562 GAATTTCATG
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.34, C:0.06, G:0.25, T:0.35
Consensus pattern (51 bp):
TGATAAAGGGTAGGTAAATGTTCCATGATAATAGGTTAGGTAAATGTTCCA
Found at i:11488310 original size:26 final size:26
Alignment explanation
Indices: 11488256--11488356 Score: 177
Period size: 26 Copynumber: 3.9 Consensus size: 26
11488246 AATTGATAAA
*
11488256 GGTTAGGTAAATG-TTCATGATAATA
1 GGTTAGGTAAATGTTTCATGATAATG
*
11488281 GGTTAGGTAAATGTTCCATGATAATG
1 GGTTAGGTAAATGTTTCATGATAATG
11488307 GGTTAGGTAAATGTTTCATGATAATG
1 GGTTAGGTAAATGTTTCATGATAATG
11488333 GGTTAGGTAAATGTTTCATGATAA
1 GGTTAGGTAAATGTTTCATGATAA
11488357 GAATTTCATG
Statistics
Matches: 72, Mismatches: 3, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
25 13 0.18
26 59 0.82
ACGTcount: A:0.33, C:0.05, G:0.26, T:0.37
Consensus pattern (26 bp):
GGTTAGGTAAATGTTTCATGATAATG
Found at i:11491761 original size:158 final size:158
Alignment explanation
Indices: 11491473--11491792 Score: 640
Period size: 158 Copynumber: 2.0 Consensus size: 158
11491463 CATGCTCGTG
11491473 TATTGATTTTGACATCTCTATGTCAATGACAACTCTTTGTCATCAATCAACTACACATTAGTCTC
1 TATTGATTTTGACATCTCTATGTCAATGACAACTCTTTGTCATCAATCAACTACACATTAGTCTC
11491538 AATGCATTATTGTTGTACAAGCCCACAATAATACTTGACTAAGGACCTTTTAAGAATAATCATAT
66 AATGCATTATTGTTGTACAAGCCCACAATAATACTTGACTAAGGACCTTTTAAGAATAATCATAT
11491603 TTTCTTAGGAATTTATTACAATTCAGTT
131 TTTCTTAGGAATTTATTACAATTCAGTT
11491631 TATTGATTTTGACATCTCTATGTCAATGACAACTCTTTGTCATCAATCAACTACACATTAGTCTC
1 TATTGATTTTGACATCTCTATGTCAATGACAACTCTTTGTCATCAATCAACTACACATTAGTCTC
11491696 AATGCATTATTGTTGTACAAGCCCACAATAATACTTGACTAAGGACCTTTTAAGAATAATCATAT
66 AATGCATTATTGTTGTACAAGCCCACAATAATACTTGACTAAGGACCTTTTAAGAATAATCATAT
11491761 TTTCTTAGGAATTTATTACAATTCAGTT
131 TTTCTTAGGAATTTATTACAATTCAGTT
11491789 TATT
1 TATT
11491793 TATATACATA
Statistics
Matches: 162, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
158 162 1.00
ACGTcount: A:0.33, C:0.18, G:0.11, T:0.38
Consensus pattern (158 bp):
TATTGATTTTGACATCTCTATGTCAATGACAACTCTTTGTCATCAATCAACTACACATTAGTCTC
AATGCATTATTGTTGTACAAGCCCACAATAATACTTGACTAAGGACCTTTTAAGAATAATCATAT
TTTCTTAGGAATTTATTACAATTCAGTT
Found at i:11493160 original size:37 final size:37
Alignment explanation
Indices: 11493110--11493183 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
11493100 ACAAGGTAAG
*
11493110 TTAAGTTAATTTATTTTGAACTTACTGAGCATTCAAT
1 TTAAGTTAATTTATTTTGAACTTACTAAGCATTCAAT
*
11493147 TTAAGTTAATTTATTTTGAACTTAGTAAGCATTCAAT
1 TTAAGTTAATTTATTTTGAACTTACTAAGCATTCAAT
11493184 ATGCTTACTC
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (37 bp):
TTAAGTTAATTTATTTTGAACTTACTAAGCATTCAAT
Found at i:11498056 original size:23 final size:22
Alignment explanation
Indices: 11498014--11498067 Score: 58
Period size: 22 Copynumber: 2.5 Consensus size: 22
11498004 TGTTAAAGTT
*
11498014 AAAAA-TTTAAATTTGCTAAATA
1 AAAAATTTTAAATTAGCTAAA-A
11498036 AAAAATTTTAAAGTTAG-TAAAA
1 AAAAATTTTAAA-TTAGCTAAAA
*
11498058 AATAATTTTA
1 AAAAATTTTA
11498068 TCTATTTTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
22 15 0.54
23 10 0.36
24 3 0.11
ACGTcount: A:0.56, C:0.02, G:0.06, T:0.37
Consensus pattern (22 bp):
AAAAATTTTAAATTAGCTAAAA
Found at i:11502567 original size:25 final size:25
Alignment explanation
Indices: 11502510--11502567 Score: 62
Period size: 25 Copynumber: 2.3 Consensus size: 25
11502500 AACTCATGTG
* * **
11502510 AGCCATATAACGAGAAGCTTATCCA
1 AGCCATATAACAAGAAGCTCATAAA
* *
11502535 GGCTATATAACAAGAAGCTCATAAA
1 AGCCATATAACAAGAAGCTCATAAA
11502560 AGCCATAT
1 AGCCATAT
11502568 TTGTGAAGCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.43, C:0.21, G:0.16, T:0.21
Consensus pattern (25 bp):
AGCCATATAACAAGAAGCTCATAAA
Found at i:11502670 original size:23 final size:23
Alignment explanation
Indices: 11502640--11502686 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
11502630 GATAACTATG
*
11502640 TATCGGGAAG-TTCAAGCGAGCCA
1 TATCGGGAAGCTTC-AGAGAGCCA
11502663 TATCGGGAAGCTTCAGAGAGCCA
1 TATCGGGAAGCTTCAGAGAGCCA
11502686 T
1 T
11502687 TAACAGGAAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 19 0.86
24 3 0.14
ACGTcount: A:0.30, C:0.21, G:0.30, T:0.19
Consensus pattern (23 bp):
TATCGGGAAGCTTCAGAGAGCCA
Found at i:11513863 original size:45 final size:45
Alignment explanation
Indices: 11513810--11513898 Score: 169
Period size: 45 Copynumber: 2.0 Consensus size: 45
11513800 TTGATGCTTT
*
11513810 GTAAGTTCGTATAACGGGAAATTACCTTACCATTTATTTACATTA
1 GTAAGTTCGTATAACGGGAAATTAACTTACCATTTATTTACATTA
11513855 GTAAGTTCGTATAACGGGAAATTAACTTACCATTTATTTACATT
1 GTAAGTTCGTATAACGGGAAATTAACTTACCATTTATTTACATT
11513899 TAAAATAAGC
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 43 1.00
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (45 bp):
GTAAGTTCGTATAACGGGAAATTAACTTACCATTTATTTACATTA
Found at i:11514305 original size:25 final size:26
Alignment explanation
Indices: 11514277--11514336 Score: 70
Period size: 25 Copynumber: 2.4 Consensus size: 26
11514267 AAACTCATGT
*
11514277 GAGCCATATAA-CGGGAAGCTCCGAA
1 GAGCCATATAATCGGAAAGCTCCGAA
* *
11514302 GAGCCAT-TAATCGGAAAGCTCTGGA
1 GAGCCATATAATCGGAAAGCTCCGAA
*
11514327 TAGCCATATA
1 GAGCCATATA
11514337 TCAAAAAGTT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
24 3 0.10
25 24 0.83
26 2 0.07
ACGTcount: A:0.35, C:0.22, G:0.25, T:0.18
Consensus pattern (26 bp):
GAGCCATATAATCGGAAAGCTCCGAA
Found at i:11514446 original size:26 final size:25
Alignment explanation
Indices: 11514362--11514447 Score: 84
Period size: 26 Copynumber: 3.4 Consensus size: 25
11514352 GAGCCATATC
*
11514362 AGGAAGCTC-CAGAGAGCCATTAAT
1 AGGAAGCTCACAAAGAGCCATTAAT
* **
11514386 ATGAAGCTCACAAAGAGCTTTTAATT
1 AGGAAGCTCACAAAGAGCCATTAA-T
* *
11514412 GGGAAGCTCACGAAGAGCCATATAAT
1 AGGAAGCTCACAAAGAGCCAT-TAAT
*
11514438 AGGACGCTCA
1 AGGAAGCTCA
11514448 TAAGAGCTGC
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
24 8 0.17
25 11 0.23
26 26 0.54
27 3 0.06
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (25 bp):
AGGAAGCTCACAAAGAGCCATTAAT
Found at i:11516781 original size:15 final size:15
Alignment explanation
Indices: 11516757--11516792 Score: 54
Period size: 15 Copynumber: 2.4 Consensus size: 15
11516747 ATTTTAACTT
*
11516757 ATTTATTTAATTAAA
1 ATTTAATTAATTAAA
*
11516772 ATTTAATTAATTATA
1 ATTTAATTAATTAAA
11516787 ATTTAA
1 ATTTAA
11516793 AACTTATTTA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (15 bp):
ATTTAATTAATTAAA
Found at i:11519471 original size:2 final size:2
Alignment explanation
Indices: 11519464--11519489 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
11519454 TATAAAATTC
11519464 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
11519490 TAGATAATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11519739 original size:16 final size:15
Alignment explanation
Indices: 11519697--11519744 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
11519687 ACTCTATCCA
*
11519697 AATCTAAGAAAATTT
1 AATCTAAAAAAATTT
* *
11519712 AAGCTTAAAAAATTT
1 AATCTAAAAAAATTT
*
11519727 GAATCTAAAAAAACTT
1 -AATCTAAAAAAATTT
11519743 AA
1 AA
11519745 AACCCAAAAA
Statistics
Matches: 26, Mismatches: 6, Indels: 2
0.76 0.18 0.06
Matches are distributed among these distances:
15 14 0.54
16 12 0.46
ACGTcount: A:0.56, C:0.08, G:0.06, T:0.29
Consensus pattern (15 bp):
AATCTAAAAAAATTT
Found at i:11527569 original size:7 final size:7
Alignment explanation
Indices: 11527559--11527591 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
11527549 TAAAACATTC
11527559 GCCACTA
1 GCCACTA
11527566 GCCACTA
1 GCCACTA
11527573 GCCACTA
1 GCCACTA
11527580 GCCACTA
1 GCCACTA
11527587 GCCAC
1 GCCAC
11527592 CGCCAGCCGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.27, C:0.45, G:0.15, T:0.12
Consensus pattern (7 bp):
GCCACTA
Found at i:11530064 original size:36 final size:37
Alignment explanation
Indices: 11529985--11530064 Score: 85
Period size: 36 Copynumber: 2.2 Consensus size: 37
11529975 CATCTAAAAT
* *
11529985 AAATAATATACAAAGAAATATAAATACTTTAGTATAAG
1 AAAT-ATATACAAAGAAATATAAATACTTTAATATAAC
*
11530023 TAATATATACAAA-AAATATATAATA-TTTGAAT-TAAC
1 AAATATATACAAAGAAATATA-AATACTTT-AATATAAC
11530059 AAATAT
1 AAATAT
11530065 TTAAAAAGGA
Statistics
Matches: 36, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
36 18 0.50
37 15 0.42
38 3 0.08
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (37 bp):
AAATATATACAAAGAAATATAAATACTTTAATATAAC
Found at i:11530834 original size:15 final size:15
Alignment explanation
Indices: 11530814--11530844 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11530804 TATGTCTATT
11530814 TATGGAATTAGAATG
1 TATGGAATTAGAATG
*
11530829 TATGGAATTAGCATG
1 TATGGAATTAGAATG
11530844 T
1 T
11530845 CTCTTCATCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.35, C:0.03, G:0.26, T:0.35
Consensus pattern (15 bp):
TATGGAATTAGAATG
Found at i:11532310 original size:177 final size:177
Alignment explanation
Indices: 11532015--11532610 Score: 867
Period size: 177 Copynumber: 3.4 Consensus size: 177
11532005 CACTGCAACG
* * * *
11532015 TTAGGGAGATAAG-GCTGCAATTTTTAGTCTACTTCCTTGCTACCTTAGGAAGATAAGGCTTGTA
1 TTAGGGAGATAAGATCTGCAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTA
* * * * *
11532079 ACTTCAACCTGCTCTCTTGCTACCTCGGAGAGATATGGTTGGTGGCTGAAATCTACTCCATTGCC
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCATTGCC
* *
11532144 GATACATGGAGATAAGATTCGCCATCTTTGATCTTCTCCACTACTGT
131 GATACATGGAGATAAGATTCGCCGTCTTTGATCTTCTCCACTACTGC
* *
11532191 TTAGGGAGATAAGATCTGTAATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTA
1 TTAGGGAGATAAGATCTGCAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTA
* *
11532256 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGTTAAAATCTACTCTATTGCC
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCATTGCC
* * *
11532321 GATACATGGAGATAAGATCCGCTGTCTTCGAT-TTGCTCCACTACTGC
131 GATACATGGAGATAAGATTCGCCGTCTTTGATCTT-CTCCACTACTGC
* * *
11532368 TTAGGGAGATAAGATCTACAATTTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTTGTA
1 TTAGGGAGATAAGATCTGCAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTA
* *
11532433 TCTTCAACCTGCTCTCTTGCAACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCC
66 TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCATTGCC
* *
11532498 GATACATGGAGATAAGATTCACCGT-TTTCGATCTACTCCACTACTGC
131 GATACATGGAGATAAGATTCGCCGTCTTT-GATCTTCTCCACTACTGC
* * * * *
11532545 TTAAGGAGATAAGATCTGTAATTTTCAGTCTACTTCAC-TGCAAGCTCAGGGAGATAAGACTTGT
1 TTAGGGAGATAAGATCTGCAATTTTCAGTCTACTTC-CTTGCTACCTCAGGAAGATAAGACTTGT
11532609 AT
65 AT
11532611 ATTGAGCCTG
Statistics
Matches: 377, Mismatches: 38, Indels: 9
0.89 0.09 0.02
Matches are distributed among these distances:
176 17 0.05
177 358 0.95
178 2 0.01
ACGTcount: A:0.26, C:0.22, G:0.20, T:0.32
Consensus pattern (177 bp):
TTAGGGAGATAAGATCTGCAATTTTCAGTCTACTTCCTTGCTACCTCAGGAAGATAAGACTTGTA
TCTTCAACCTGCTCTCTTGCTACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCATTGCC
GATACATGGAGATAAGATTCGCCGTCTTTGATCTTCTCCACTACTGC
Found at i:11532638 original size:44 final size:44
Alignment explanation
Indices: 11532580--11532690 Score: 127
Period size: 44 Copynumber: 2.5 Consensus size: 44
11532570 CAGTCTACTT
* * *
11532580 CACTGCAAGC-TCAGGGAGATAAGACTTGT-ATATTGAGCCTGCTC
1 CACTGCAA-CTTCAGGGAGATAAGACTTCTCA-ATTCAACCTGCTC
* * *
11532624 CACTGCAACTTCAGGGAGATAAGGCTTCTCACTTCAACCTGTTC
1 CACTGCAACTTCAGGGAGATAAGACTTCTCAATTCAACCTGCTC
*
11532668 TACTGCAACTTCAGGGAGATAAG
1 CACTGCAACTTCAGGGAGATAAG
11532691 GTCTGCTATG
Statistics
Matches: 58, Mismatches: 7, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
43 1 0.02
44 56 0.97
45 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (44 bp):
CACTGCAACTTCAGGGAGATAAGACTTCTCAATTCAACCTGCTC
Found at i:11532688 original size:354 final size:353
Alignment explanation
Indices: 11532015--11532690 Score: 885
Period size: 354 Copynumber: 1.9 Consensus size: 353
11532005 CACTGCAACG
* * * * *
11532015 TTAGGGAGATAAGGCTGCAATTTTTAGTCTACTTCCTTGCTACCTTAGGAAGATAAGGCTTGTAA
1 TTAGGGAGATAAGGCTACAATTTTCAGTCTACTTCCTTGCTACCTCAAGAAGATAAGACTTGTAA
* * * * *
11532080 CTTCAACCTGCTCTCTTGCTACCTCGGAGAGATATGGTTGGTGGCTGAAATCTACTCCATTGCCG
66 CTTCAACCTGCTCTCTTGCAACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCATTGCCG
* * * *
11532145 ATACATGGAGATAAGATTCGCCATCTTTGATCTTCTCCACTACTGTTTAGGGAGATAAGATCTGT
131 ATACATGGAGATAAGATTCACCATCTTTGATCTACTCCACTACTGCTTAAGGAGATAAGATCTGT
* * * *
11532210 AATTTTCAGTCTGCTTCCTTGCTACCTCAGGAAGATAAGACTTGTATCTTCAACCTGCTCTCTTG
196 AATTTTCAGTCTACTTCCTTGCAACCTCAGGAAGATAAGACTTGTATATTCAACCTGCTCTCCTG
* * ** * * * *
11532275 CTACCTCAGAGAGATAAGGCTGGTGGTTAAAATCTACTCTATTGCCGATACATGGAGATAAGATC
261 CAACCTCAGAGAGATAAGGCTGCTACTTAAAACCTACTCTACTGCCAATACAGGGAGATAAGATC
11532340 CGCTGTCTTCGATTTGCTCCACTACTGC
326 CGCTGTCTTCGATTTGCTCCACTACTGC
* *
11532368 TTAGGGAGATAAGATCTACAATTTTCAGTCTGCTTCCTTGCTACCTCAAGAAGATAAGACTTGTA
1 TTAGGGAGATAAG-GCTACAATTTTCAGTCTACTTCCTTGCTACCTCAAGAAGATAAGACTTGTA
* *
11532433 TCTTCAACCTGCTCTCTTGCAACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTGCTCCATTGCC
65 ACTTCAACCTGCTCTCTTGCAACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCATTGCC
*
11532498 GATACATGGAGATAAGATTCACCGT-TTTCGATCTACTCCACTACTGCTTAAGGAGATAAGATCT
130 GATACATGGAGATAAGATTCACCATCTTT-GATCTACTCCACTACTGCTTAAGGAGATAAGATCT
* * * *
11532562 GTAATTTTCAGTCTACTTCAC-TGCAAGCTCAGGGAGATAAGACTTGTATATTGAGCCTGCTC-C
194 GTAATTTTCAGTCTACTTC-CTTGCAACCTCAGGAAGATAAGACTTGTATATTCAACCTGCTCTC
* * * * ** *
11532625 ACTGCAACTTCAGGGAGATAAGGCTTCTCACTT-CAACCTGTTCTACTG-CAACTTCAGGGAGAT
258 -CTGCAACCTCAGAGAGATAAGGCTGCT-ACTTAAAACCTACTCTACTGCCAA-TACAGGGAGAT
11532688 AAG
320 AAG
11532691 GTCTGCTATG
Statistics
Matches: 275, Mismatches: 42, Indels: 11
0.84 0.13 0.03
Matches are distributed among these distances:
353 19 0.07
354 253 0.92
355 3 0.01
ACGTcount: A:0.26, C:0.23, G:0.20, T:0.31
Consensus pattern (353 bp):
TTAGGGAGATAAGGCTACAATTTTCAGTCTACTTCCTTGCTACCTCAAGAAGATAAGACTTGTAA
CTTCAACCTGCTCTCTTGCAACCTCAGAGAGATAAGGCTGGTGGCTAAAATCTACTCCATTGCCG
ATACATGGAGATAAGATTCACCATCTTTGATCTACTCCACTACTGCTTAAGGAGATAAGATCTGT
AATTTTCAGTCTACTTCCTTGCAACCTCAGGAAGATAAGACTTGTATATTCAACCTGCTCTCCTG
CAACCTCAGAGAGATAAGGCTGCTACTTAAAACCTACTCTACTGCCAATACAGGGAGATAAGATC
CGCTGTCTTCGATTTGCTCCACTACTGC
Found at i:11533086 original size:64 final size:64
Alignment explanation
Indices: 11532965--11533092 Score: 202
Period size: 64 Copynumber: 2.0 Consensus size: 64
11532955 TCATGTATCT
*
11532965 ATGCTTATGGCAAATAATTAGGATGATATGATCAAAATGAATCAAATGCTCCCAACTAGGTGTG
1 ATGCTTATGGCAAATAATTAGGATGATATGATCAAAATGAATCAAATGCTCCCAACTAGATGTG
* * * **
11533029 ATGCTTATGTCAAATAATTAGGATGCTATGATCGAAATGAATCAAATGCTCTTAACTAGATGTG
1 ATGCTTATGGCAAATAATTAGGATGATATGATCAAAATGAATCAAATGCTCCCAACTAGATGTG
11533093 TTATGAATGA
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
64 58 1.00
ACGTcount: A:0.37, C:0.13, G:0.20, T:0.30
Consensus pattern (64 bp):
ATGCTTATGGCAAATAATTAGGATGATATGATCAAAATGAATCAAATGCTCCCAACTAGATGTG
Found at i:11545530 original size:15 final size:15
Alignment explanation
Indices: 11545510--11545540 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
11545500 TTGCTTGTGC
*
11545510 ATGAAAAACTAAAAA
1 ATGAAAAAATAAAAA
11545525 ATGAAAAAATAAAAA
1 ATGAAAAAATAAAAA
11545540 A
1 A
11545541 ATTGTAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.77, C:0.03, G:0.06, T:0.13
Consensus pattern (15 bp):
ATGAAAAAATAAAAA
Found at i:11545539 original size:16 final size:16
Alignment explanation
Indices: 11545510--11545556 Score: 51
Period size: 15 Copynumber: 2.8 Consensus size: 16
11545500 TTGCTTGTGC
*
11545510 ATGAAAAACT-AAAAA
1 ATGAAAAAATAAAAAA
11545525 ATGAAAAAATAAAAAA
1 ATGAAAAAATAAAAAA
11545541 ATTGTAAATAAATAAA
1 A-TG-AAA-AAATAAA
11545557 GGCTCAAGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
15 9 0.33
16 6 0.22
17 2 0.07
18 3 0.11
19 7 0.26
ACGTcount: A:0.72, C:0.02, G:0.06, T:0.19
Consensus pattern (16 bp):
ATGAAAAAATAAAAAA
Found at i:11549822 original size:35 final size:38
Alignment explanation
Indices: 11549734--11549822 Score: 103
Period size: 38 Copynumber: 2.4 Consensus size: 38
11549724 AAAAGAAAGT
* * *
11549734 TAAAGTAAATAATATACAAAGCAATATATAGATCCATC
1 TAAAATAAATAATATACAAAGCAATATATAAATACATC
*
11549772 TAAAATAAATAATATACAAAG-AA-ATATAAATAC-TT
1 TAAAATAAATAATATACAAAGCAATATATAAATACATC
**
11549807 TAGTATAAATAATATA
1 TAAAATAAATAATATA
11549823 TACAAAAAAA
Statistics
Matches: 45, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
35 15 0.33
36 8 0.18
37 2 0.04
38 20 0.44
ACGTcount: A:0.57, C:0.08, G:0.06, T:0.29
Consensus pattern (38 bp):
TAAAATAAATAATATACAAAGCAATATATAAATACATC
Found at i:11552245 original size:2 final size:2
Alignment explanation
Indices: 11552238--11552270 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
11552228 CAATAACACT
*
11552238 TA TA TA TA TA TA TA TA TA TA TA TA TA TA CA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
11552271 TGATAAATCT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.03, G:0.00, T:0.48
Consensus pattern (2 bp):
TA
Found at i:11552473 original size:2 final size:2
Alignment explanation
Indices: 11552468--11552498 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
11552458 ATTTCATTAA
11552468 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11552499 GTTGAATCAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:11553229 original size:24 final size:24
Alignment explanation
Indices: 11553197--11553244 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
11553187 TACAATTATT
11553197 TCTATGTACAAGTTCATGATCTCC
1 TCTATGTACAAGTTCATGATCTCC
11553221 TCTATGTACAAGTTCATGATCTCC
1 TCTATGTACAAGTTCATGATCTCC
11553245 CACCAGGATT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.38
Consensus pattern (24 bp):
TCTATGTACAAGTTCATGATCTCC
Found at i:11562330 original size:35 final size:35
Alignment explanation
Indices: 11562290--11562370 Score: 90
Period size: 35 Copynumber: 2.3 Consensus size: 35
11562280 TACCTTTTGA
* *
11562290 AGTGTCACCCCCAAGGACCTCTATAGCGTTTACAT
1 AGTGTCACCCCCAAGGACCTCTATACCGTTTACAC
* * ** * *
11562325 AGTGTCGCCTCGTAGGACTTGTATACCGTTTACAC
1 AGTGTCACCCCCAAGGACCTCTATACCGTTTACAC
11562360 AGTGTCACCCC
1 AGTGTCACCCC
11562371 ATAGGTCTAT
Statistics
Matches: 36, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.22, C:0.31, G:0.20, T:0.27
Consensus pattern (35 bp):
AGTGTCACCCCCAAGGACCTCTATACCGTTTACAC
Found at i:11563986 original size:2 final size:2
Alignment explanation
Indices: 11563979--11564022 Score: 88
Period size: 2 Copynumber: 22.0 Consensus size: 2
11563969 TAAGCAAATT
11563979 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
1 CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA CA
11564021 CA
1 CA
11564023 TATATATATA
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 42 1.00
ACGTcount: A:0.50, C:0.50, G:0.00, T:0.00
Consensus pattern (2 bp):
CA
Found at i:11573210 original size:53 final size:53
Alignment explanation
Indices: 11573148--11573250 Score: 188
Period size: 53 Copynumber: 1.9 Consensus size: 53
11573138 GTATTGAGAG
*
11573148 CAAAGGGCTCGAGTAAAGTAGTTGAAATTAGGGGACAAAAATACAAATTTGAA
1 CAAAGGGCTCGAGTAAACTAGTTGAAATTAGGGGACAAAAATACAAATTTGAA
*
11573201 CAAAGGGCTCGAGTAAACTAGTTGAAATTAGGGGACAAAAATATAAATTT
1 CAAAGGGCTCGAGTAAACTAGTTGAAATTAGGGGACAAAAATACAAATTT
11573251 ATTTCATAAT
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 48 1.00
ACGTcount: A:0.45, C:0.10, G:0.23, T:0.22
Consensus pattern (53 bp):
CAAAGGGCTCGAGTAAACTAGTTGAAATTAGGGGACAAAAATACAAATTTGAA
Found at i:11580251 original size:6 final size:6
Alignment explanation
Indices: 11580240--11580265 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
11580230 AATTAATGTT
11580240 TTTATA TTTATA TTTATA TTTATA TT
1 TTTATA TTTATA TTTATA TTTATA TT
11580266 CCTTTAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (6 bp):
TTTATA
Found at i:11583370 original size:30 final size:32
Alignment explanation
Indices: 11583334--11583392 Score: 104
Period size: 30 Copynumber: 1.9 Consensus size: 32
11583324 TATCGACGTG
11583334 GAGGGCTTAATT-ATTTTTT-AATTATTTTAC
1 GAGGGCTTAATTGATTTTTTAAATTATTTTAC
11583364 GAGGGCTTAATTGATTTTTTAAATTATTT
1 GAGGGCTTAATTGATTTTTTAAATTATTT
11583393 AAGCCTAACA
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
30 12 0.44
31 7 0.26
32 8 0.30
ACGTcount: A:0.27, C:0.05, G:0.15, T:0.53
Consensus pattern (32 bp):
GAGGGCTTAATTGATTTTTTAAATTATTTTAC
Found at i:11583438 original size:18 final size:20
Alignment explanation
Indices: 11583410--11583462 Score: 74
Period size: 19 Copynumber: 2.7 Consensus size: 20
11583400 ACAATTATCA
11583410 AAATATTATAAAAAAT-TAG
1 AAATATTATAAAAAATCTAG
*
11583429 AAAT-TTATAAAAAAATCTAT
1 AAATATTAT-AAAAAATCTAG
11583449 AAATATTATAAAAA
1 AAATATTATAAAAA
11583463 CAAAAATCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
18 4 0.13
19 11 0.37
20 11 0.37
21 4 0.13
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (20 bp):
AAATATTATAAAAAATCTAG
Found at i:11583441 original size:19 final size:21
Alignment explanation
Indices: 11583410--11583487 Score: 81
Period size: 25 Copynumber: 3.7 Consensus size: 21
11583400 ACAATTATCA
11583410 AAATATTAT-AAAAAAT-TAG
1 AAATATTATAAAAAAATCTAG
*
11583429 AAAT-TTATAAAAAAATCTAT
1 AAATATTATAAAAAAATCTAG
*
11583449 AAATATTATAAAAACAAAAATCTAT
1 AAATATTAT---AA-AAAAATCTAG
11583474 AAATATTATAAAAA
1 AAATATTATAAAAA
11583488 CAAAAAAAAT
Statistics
Matches: 51, Mismatches: 1, Indels: 12
0.80 0.02 0.19
Matches are distributed among these distances:
18 4 0.08
19 11 0.22
20 6 0.12
21 7 0.14
22 2 0.04
24 2 0.04
25 19 0.37
ACGTcount: A:0.64, C:0.04, G:0.01, T:0.31
Consensus pattern (21 bp):
AAATATTATAAAAAAATCTAG
Found at i:11583467 original size:25 final size:25
Alignment explanation
Indices: 11583439--11583493 Score: 110
Period size: 25 Copynumber: 2.2 Consensus size: 25
11583429 AAATTTATAA
11583439 AAAAATCTATAAATATTATAAAAAC
1 AAAAATCTATAAATATTATAAAAAC
11583464 AAAAATCTATAAATATTATAAAAAC
1 AAAAATCTATAAATATTATAAAAAC
11583489 AAAAA
1 AAAAA
11583494 AAATATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 30 1.00
ACGTcount: A:0.67, C:0.07, G:0.00, T:0.25
Consensus pattern (25 bp):
AAAAATCTATAAATATTATAAAAAC
Found at i:11583503 original size:8 final size:8
Alignment explanation
Indices: 11583492--11583545 Score: 54
Period size: 8 Copynumber: 6.1 Consensus size: 8
11583482 TAAAAACAAA
11583492 AAAAATAT
1 AAAAATAT
11583500 AAAAATAT
1 AAAAATAT
*
11583508 AAAATTTAT
1 AAAA-ATAT
11583517 AAAACAATTAT
1 -AAA-AA-TAT
11583528 AAAAATAT
1 AAAAATAT
11583536 ATAAAATAT
1 A-AAAATAT
11583545 A
1 A
11583546 GAGAAATTAA
Statistics
Matches: 39, Mismatches: 2, Indels: 9
0.78 0.04 0.18
Matches are distributed among these distances:
8 16 0.41
9 13 0.33
10 6 0.15
11 4 0.10
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.30
Consensus pattern (8 bp):
AAAAATAT
Found at i:11583503 original size:9 final size:9
Alignment explanation
Indices: 11583491--11583545 Score: 51
Period size: 9 Copynumber: 6.1 Consensus size: 9
11583481 ATAAAAACAA
11583491 AAAAAATAT
1 AAAAAATAT
11583500 -AAAAATAT
1 AAAAAATAT
**
11583508 AAAATTTAT
1 AAAAAATAT
11583517 AAAACAAT-T
1 AAAA-AATAT
11583526 ATAAAAATAT
1 A-AAAAATAT
*
11583536 ATAAAATAT
1 AAAAAATAT
11583545 A
1 A
11583546 GAGAAATTAA
Statistics
Matches: 37, Mismatches: 5, Indels: 8
0.74 0.10 0.16
Matches are distributed among these distances:
8 8 0.22
9 23 0.62
10 6 0.16
ACGTcount: A:0.69, C:0.02, G:0.00, T:0.29
Consensus pattern (9 bp):
AAAAAATAT
Found at i:11583508 original size:25 final size:26
Alignment explanation
Indices: 11583437--11583511 Score: 100
Period size: 25 Copynumber: 2.9 Consensus size: 26
11583427 AGAAATTTAT
11583437 AAAAAAATCTATAAATATTATAAAAAC
1 AAAAAAA-CTATAAATATTATAAAAAC
*
11583464 -AAAAATCTATAAATATTATAAAAAC
1 AAAAAAACTATAAATATTATAAAAAC
* *
11583489 AAAAAAAATATAAA-AATATAAAA
1 AAAAAAACTATAAATATTATAAAA
11583512 TTTATAAAAC
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
25 27 0.63
26 16 0.37
ACGTcount: A:0.71, C:0.05, G:0.00, T:0.24
Consensus pattern (26 bp):
AAAAAAACTATAAATATTATAAAAAC
Found at i:11583620 original size:20 final size:20
Alignment explanation
Indices: 11583585--11583629 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 20
11583575 AGAATAATGA
11583585 AAAATATTATAAAAATT-TT
1 AAAATATTATAAAAATTATT
11583604 AAAA-ATTATAGAGAAATTATT
1 AAAATATTATA-A-AAATTATT
11583625 AAAAT
1 AAAAT
11583630 GGTAAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
18 6 0.27
19 5 0.23
20 5 0.23
21 6 0.27
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (20 bp):
AAAATATTATAAAAATTATT
Found at i:11588562 original size:6 final size:6
Alignment explanation
Indices: 11588551--11588591 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
11588541 TATTTTACTA
*
11588551 TTATTT TTATTT TTATTT TTATTT TTATTT CTA-TT TTATTT
1 TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT TTATTT
11588592 AAAATTCCAT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
5 4 0.12
6 28 0.88
ACGTcount: A:0.17, C:0.02, G:0.00, T:0.80
Consensus pattern (6 bp):
TTATTT
Found at i:11591577 original size:24 final size:24
Alignment explanation
Indices: 11591550--11591597 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 24
11591540 TAAGAGAAAA
*
11591550 TAAAAA-TAATTAGTAGATTATTAT
1 TAAAAAGTAATTA-TAAATTATTAT
*
11591574 TAAAAAGTTATTATAAATTATTAT
1 TAAAAAGTAATTATAAATTATTAT
11591598 AAATAAAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 16 0.76
25 5 0.24
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (24 bp):
TAAAAAGTAATTATAAATTATTAT
Found at i:11596218 original size:21 final size:19
Alignment explanation
Indices: 11596181--11596233 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
11596171 ATTTTCTCAT
*
11596181 TATTTTGTTGCTGTTTCCCAC
1 TATTTTGTTGCTATTT--CAC
11596202 TATTTTGTTG-TCATTTCAC
1 TATTTTGTTGCT-ATTTCAC
*
11596221 TATTGTGTTGCTA
1 TATTTTGTTGCTA
11596234 CTATTTTGTT
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
19 13 0.46
20 2 0.07
21 13 0.46
ACGTcount: A:0.13, C:0.17, G:0.15, T:0.55
Consensus pattern (19 bp):
TATTTTGTTGCTATTTCAC
Found at i:11598620 original size:33 final size:33
Alignment explanation
Indices: 11598583--11598656 Score: 103
Period size: 33 Copynumber: 2.2 Consensus size: 33
11598573 CTCTGTTTAG
*
11598583 TGTGTTGGTTAGATTAGCTCTTATGAACATTAA
1 TGTGTTGGTTAGATTAACTCTTATGAACATTAA
* * **
11598616 TGTGTTGGTTGGATTAACTCTTATGAGCATTGG
1 TGTGTTGGTTAGATTAACTCTTATGAACATTAA
11598649 TGTGTTGG
1 TGTGTTGG
11598657 AGGGATTGGC
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.20, C:0.08, G:0.28, T:0.43
Consensus pattern (33 bp):
TGTGTTGGTTAGATTAACTCTTATGAACATTAA
Found at i:11603179 original size:25 final size:26
Alignment explanation
Indices: 11603137--11603185 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
11603127 ATTTTATATA
* *
11603137 AATATTATAATTATAACTTATAATTT
1 AATATAATAATTAAAACTTATAATTT
11603163 AATATAAT-ATTAAAACTTATAAT
1 AATATAATAATTAAAACTTATAAT
11603186 CATTAATAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 14 0.67
26 7 0.33
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.45
Consensus pattern (26 bp):
AATATAATAATTAAAACTTATAATTT
Found at i:11604935 original size:21 final size:22
Alignment explanation
Indices: 11604911--11604963 Score: 65
Period size: 21 Copynumber: 2.5 Consensus size: 22
11604901 TACCATTGTT
11604911 TCTAATCTCACT-GCTACAATA
1 TCTAATCTCACTCGCTACAATA
* *
11604932 TCTAATCTCA-TCGTTACAGTA
1 TCTAATCTCACTCGCTACAATA
*
11604953 ACTAATCTCAC
1 TCTAATCTCAC
11604964 CGCCGCTGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.04
21 26 0.96
ACGTcount: A:0.32, C:0.28, G:0.06, T:0.34
Consensus pattern (22 bp):
TCTAATCTCACTCGCTACAATA
Found at i:11609901 original size:25 final size:26
Alignment explanation
Indices: 11609809--11609901 Score: 68
Period size: 25 Copynumber: 3.7 Consensus size: 26
11609799 AAAACAAGGA
* * *
11609809 AAGCCTTTGTGACGAGTTATTTA-AG
1 AAGCCTTTGTGGCAAGTTATCTAGAG
* * *
11609834 AAGCCTATGTGGCGTA-TTA-CTTGAG
1 AAGCCTTTGTGGC-AAGTTATCTAGAG
* *
11609859 AAGCCTTGGTGGAGAAGTTATCTAGA-
1 AAGCCTTTGTGG-CAAGTTATCTAGAG
11609885 AAGCCTTTGTGGCAAGT
1 AAGCCTTTGTGGCAAGT
11609902 CATTTGGAAA
Statistics
Matches: 51, Mismatches: 12, Indels: 10
0.70 0.16 0.14
Matches are distributed among these distances:
24 1 0.02
25 31 0.61
26 15 0.29
27 4 0.08
ACGTcount: A:0.27, C:0.14, G:0.28, T:0.31
Consensus pattern (26 bp):
AAGCCTTTGTGGCAAGTTATCTAGAG
Found at i:11613695 original size:42 final size:42
Alignment explanation
Indices: 11613597--11613742 Score: 143
Period size: 44 Copynumber: 3.4 Consensus size: 42
11613587 ATTCCAATAC
* *
11613597 TTGATTACGTGTAAGACCA-CATCTGGGACGTTGGCATCGATT
1 TTGATTTCGTGTAAGACCATC-TCTGGGACATTGGCATCGATT
* * *
11613639 TGAGATTTACGTGTAAGGCCATCTCTGGGACATTGGCATTG-TGT
1 T-TGATTT-CGTGTAAGACCATCTCTGGGACATTGGCATCGAT-T
* * *
11613683 TTGATTTCGTGTAAGACCCTGTCTGGGACAGTGGCATCGATAT
1 TTGATTTCGTGTAAGACCATCTCTGGGACATTGGCATCGAT-T
* *
11613726 TTGATTACATGTAAGAC
1 TTGATTTCGTGTAAGAC
11613743 AACGTCTGGG
Statistics
Matches: 85, Mismatches: 14, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
42 28 0.33
43 27 0.32
44 29 0.34
45 1 0.01
ACGTcount: A:0.23, C:0.17, G:0.27, T:0.33
Consensus pattern (42 bp):
TTGATTTCGTGTAAGACCATCTCTGGGACATTGGCATCGATT
Found at i:11613761 original size:43 final size:42
Alignment explanation
Indices: 11613597--11613762 Score: 142
Period size: 43 Copynumber: 3.9 Consensus size: 42
11613587 ATTCCAATAC
* *
11613597 TTGATTACGTGTAAGACCACATCTGGGACGTTGGCATCGATT
1 TTGATTACGTGTAAGACAACGTCTGGGACGTTGGCATCGATT
* * * * *
11613639 TGAGATTTACGTGTAAGGCCATC-TCTGGGACATTGGCATTG-TGT
1 T-TGA-TTACGTGTAA-GACAACGTCTGGGACGTTGGCATCGAT-T
* *
11613683 TTGATTTCGTGTAAGAC-CCTGTCTGGGACAG-TGGCATCGATAT
1 TTGATTACGTGTAAGACAAC-GTCTGGGAC-GTTGGCATCGAT-T
* *
11613726 TTGATTACATGTAAGACAACGTCTGGGATGTTGGCAT
1 TTGATTACGTGTAAGACAACGTCTGGGACGTTGGCAT
11613763 TGTACGAGCT
Statistics
Matches: 97, Mismatches: 17, Indels: 19
0.73 0.13 0.14
Matches are distributed among these distances:
40 1 0.01
41 2 0.02
42 26 0.27
43 36 0.37
44 29 0.30
45 3 0.03
ACGTcount: A:0.23, C:0.17, G:0.28, T:0.33
Consensus pattern (42 bp):
TTGATTACGTGTAAGACAACGTCTGGGACGTTGGCATCGATT
Found at i:11618470 original size:40 final size:41
Alignment explanation
Indices: 11618384--11618480 Score: 110
Period size: 40 Copynumber: 2.4 Consensus size: 41
11618374 CTACAATGTT
*
11618384 TGGCACTTAGTGTGCG-TTTGAAAATAGCTTTGGCTATAAA
1 TGGCACTTAGTGTGCGAATTGAAAATAGCTTTGGCTATAAA
* * **
11618424 TAGCACTTAGTGTGCGAATTG-AAATAG-TTTCGGCTTTATG
1 TGGCACTTAGTGTGCGAATTGAAAATAGCTTT-GGCTATAAA
*
11618464 TGGCACTAAGTGTGCGA
1 TGGCACTTAGTGTGCGA
11618481 TACCGAGATA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
39 3 0.06
40 42 0.88
41 3 0.06
ACGTcount: A:0.26, C:0.13, G:0.27, T:0.34
Consensus pattern (41 bp):
TGGCACTTAGTGTGCGAATTGAAAATAGCTTTGGCTATAAA
Found at i:11619896 original size:21 final size:20
Alignment explanation
Indices: 11619871--11619925 Score: 74
Period size: 21 Copynumber: 2.6 Consensus size: 20
11619861 GACCTAGGGG
11619871 ACACGCCTGTGTGCCCTTCTT
1 ACACGCC-GTGTGCCCTTCTT
*
11619892 ACACGCCCGTGTACCCTTCTT
1 ACACG-CCGTGTGCCCTTCTT
11619913 ACACGTCCGTGTG
1 ACACG-CCGTGTG
11619926 GGAACACCGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
21 28 0.93
22 2 0.07
ACGTcount: A:0.13, C:0.38, G:0.20, T:0.29
Consensus pattern (20 bp):
ACACGCCGTGTGCCCTTCTT
Found at i:11621075 original size:6 final size:6
Alignment explanation
Indices: 11621064--11621099 Score: 63
Period size: 6 Copynumber: 5.8 Consensus size: 6
11621054 CACAGTATTG
11621064 GTAACA GTAACA GTAACGA GTAACA GTAACA GTAAC
1 GTAACA GTAACA GTAAC-A GTAACA GTAACA GTAAC
11621100 GGTACACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
6 23 0.79
7 6 0.21
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (6 bp):
GTAACA
Found at i:11621087 original size:13 final size:12
Alignment explanation
Indices: 11621064--11621099 Score: 63
Period size: 13 Copynumber: 2.9 Consensus size: 12
11621054 CACAGTATTG
11621064 GTAACAGTAACA
1 GTAACAGTAACA
11621076 GTAACGAGTAACA
1 GTAAC-AGTAACA
11621089 GTAACAGTAAC
1 GTAACAGTAAC
11621100 GGTACACAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
12 11 0.48
13 12 0.52
ACGTcount: A:0.47, C:0.17, G:0.19, T:0.17
Consensus pattern (12 bp):
GTAACAGTAACA
Found at i:11621088 original size:19 final size:19
Alignment explanation
Indices: 11621064--11621100 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
11621054 CACAGTATTG
11621064 GTAACAGTAACAGTAACGA
1 GTAACAGTAACAGTAACGA
11621083 GTAACAGTAACAGTAACG
1 GTAACAGTAACAGTAACG
11621101 GTACACAAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.46, C:0.16, G:0.22, T:0.16
Consensus pattern (19 bp):
GTAACAGTAACAGTAACGA
Found at i:11621505 original size:3 final size:3
Alignment explanation
Indices: 11621497--11621544 Score: 96
Period size: 3 Copynumber: 16.0 Consensus size: 3
11621487 ATTCAATACC
11621497 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
11621545 CTTACCATTC
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 45 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:11625424 original size:12 final size:13
Alignment explanation
Indices: 11625396--11625428 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
11625386 TTTATTTCTT
11625396 TTCTCCATCTACC
1 TTCTCCATCTACC
*
11625409 TTCTCC-TCTTCC
1 TTCTCCATCTACC
11625421 TTCTCCAT
1 TTCTCCAT
11625429 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:11626524 original size:28 final size:28
Alignment explanation
Indices: 11626492--11626556 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
11626482 ATTTACTAGA
*
11626492 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
11626520 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
11626548 ATACCCCTA
1 ATACCCCTA
11626557 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:11626762 original size:29 final size:28
Alignment explanation
Indices: 11626662--11626751 Score: 130
Period size: 27 Copynumber: 3.2 Consensus size: 28
11626652 AGGAAGCGTC
11626662 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
11626690 CTGGTGGCCCTGCCAC-AATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
11626717 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
11626746 CTGGTG
1 CTGGTG
11626752 ACTCTGTCAC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
27 26 0.46
28 23 0.41
29 7 0.12
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:11626770 original size:55 final size:56
Alignment explanation
Indices: 11626662--11626776 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
11626652 AGGAAGCGTC
* *
11626662 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTAT
* * *
11626717 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGTAT
11626773 CTGG
1 CTGG
11626777 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 32 0.62
56 19 0.37
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTAT
Found at i:11627862 original size:11 final size:10
Alignment explanation
Indices: 11627834--11627867 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
11627824 AGCCTGTAAG
11627834 TATTCTGAAT
1 TATTCTGAAT
*
11627844 TTTTCTGAAT
1 TATTCTGAAT
11627854 ATATTCTGAAT
1 -TATTCTGAAT
11627865 TAT
1 TAT
11627868 CTGTCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:11633265 original size:12 final size:13
Alignment explanation
Indices: 11633237--11633269 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
11633227 TTATTTCTTT
11633237 TTCTCCATCTACC
1 TTCTCCATCTACC
*
11633250 TTCTCC-TCTTCC
1 TTCTCCATCTACC
11633262 TTCTCCAT
1 TTCTCCAT
11633270 AGCCGAACCC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
12 11 0.61
13 7 0.39
ACGTcount: A:0.09, C:0.45, G:0.00, T:0.45
Consensus pattern (13 bp):
TTCTCCATCTACC
Found at i:11634368 original size:28 final size:28
Alignment explanation
Indices: 11634336--11634400 Score: 112
Period size: 28 Copynumber: 2.3 Consensus size: 28
11634326 ATTTACTAGA
*
11634336 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
*
11634364 ATACCCCTATGTATGCAAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
11634392 ATACCCCTA
1 ATACCCCTA
11634401 GGGTTAATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.34, C:0.28, G:0.08, T:0.31
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:11634606 original size:29 final size:28
Alignment explanation
Indices: 11634506--11634595 Score: 130
Period size: 27 Copynumber: 3.2 Consensus size: 28
11634496 AGGAAGCGTC
11634506 CTGGTGGCTA-TGCCACAAATTATCTGTT
1 CTGGTGGC-ACTGCCACAAATTATCTGTT
*
11634534 CTGGTGGCCCTGCCAC-AATTATCTGTT
1 CTGGTGGCACTGCCACAAATTATCTGTT
*
11634561 CTGGTGGCACTGCCACAAAATATCTGTAT
1 CTGGTGGCACTGCCACAAATTATCTGT-T
11634590 CTGGTG
1 CTGGTG
11634596 ACTCTGTCAC
Statistics
Matches: 56, Mismatches: 3, Indels: 5
0.88 0.05 0.08
Matches are distributed among these distances:
27 26 0.46
28 23 0.41
29 7 0.12
ACGTcount: A:0.20, C:0.24, G:0.23, T:0.32
Consensus pattern (28 bp):
CTGGTGGCACTGCCACAAATTATCTGTT
Found at i:11634614 original size:55 final size:56
Alignment explanation
Indices: 11634506--11634620 Score: 146
Period size: 55 Copynumber: 2.1 Consensus size: 56
11634496 AGGAAGCGTC
* *
11634506 CTGGTGGCTATGCCACAAATTATCTGTTCTGGTGGCCCTGCCACAATTATCTGT-T
1 CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTAT
* * *
11634561 CTGGTGGC-ACTGCCACAAAATATCTGTATCTGGTGACTCTGTCAC-ATTTTCTGTAT
1 CTGGTGGCTA-TGCCACAAAATATCTGT-TCTGGTGACCCTGCCACAATTATCTGTAT
11634617 CTGG
1 CTGG
11634621 CAGCCATGCT
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
54 1 0.02
55 32 0.62
56 19 0.37
ACGTcount: A:0.19, C:0.24, G:0.22, T:0.35
Consensus pattern (56 bp):
CTGGTGGCTATGCCACAAAATATCTGTTCTGGTGACCCTGCCACAATTATCTGTAT
Found at i:11645839 original size:12 final size:12
Alignment explanation
Indices: 11645822--11645851 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
11645812 TAAAACACAC
11645822 TTTTATGACAAA
1 TTTTATGACAAA
11645834 TTTTATGACAAA
1 TTTTATGACAAA
11645846 TTTTAT
1 TTTTAT
11645852 AACTTTTACA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.50
Consensus pattern (12 bp):
TTTTATGACAAA
Done.