Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr12
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: 101062743
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 4026412 characters in sequence are not A, C, G, or T
File 42 of 297
Found at i:14952153 original size:26 final size:26
Alignment explanation
Indices: 14952117--14952352 Score: 170
Period size: 26 Copynumber: 9.1 Consensus size: 26
14952107 TGTACTTGAA
* *
14952117 TAGCAGGCCTTGAACTGGTGTTTATT
1 TAGCAAGCCTTGAGCTGGTGTTTATT
* * * *
14952143 TAGCAGGCCTTGGGCTAGTGTTTCTT
1 TAGCAAGCCTTGAGCTGGTGTTTATT
* * * *
14952169 TAGTAGGCCATGAGATGGTGTTTATT
1 TAGCAAGCCTTGAGCTGGTGTTTATT
* * * * * *
14952195 TAGTAGGCCTTGGGCCGATGTTTCTT
1 TAGCAAGCCTTGAGCTGGTGTTTATT
* *
14952221 TAGCAAACCTTGAGCCGGTGTTTATT
1 TAGCAAGCCTTGAGCTGGTGTTTATT
* * *
14952247 TAACAAGCCTTTG-GCAGGTGTTTCTT
1 TAGCAAGCC-TTGAGCTGGTGTTTATT
* * *
14952273 TAGCAAGCTTTAAGCCGGTGTTTATT
1 TAGCAAGCCTTGAGCTGGTGTTTATT
* * * *
14952299 TAGCACGCCTTGTA-CTAGTGGTTATG
1 TAGCAAGCCTTG-AGCTGGTGTTTATT
* *
14952325 GAGCAAGCTTTGAGCTGGTGTTTATT
1 TAGCAAGCCTTGAGCTGGTGTTTATT
14952351 TA
1 TA
14952353 TATGGCTTTG
Statistics
Matches: 161, Mismatches: 45, Indels: 8
0.75 0.21 0.04
Matches are distributed among these distances:
25 3 0.02
26 154 0.96
27 4 0.02
ACGTcount: A:0.19, C:0.16, G:0.27, T:0.38
Consensus pattern (26 bp):
TAGCAAGCCTTGAGCTGGTGTTTATT
Found at i:14952241 original size:52 final size:52
Alignment explanation
Indices: 14952117--14952310 Score: 201
Period size: 52 Copynumber: 3.7 Consensus size: 52
14952107 TGTACTTGAA
* * * *
14952117 TAGCAGGCCTTGAACTGGTGTTTATTTAGCAGGCCTTGGG-CTAGTGTTTCTT
1 TAGCAAGCCTTGAGCCGGTGTTTATTTAGCAGGCCTTGGGCCGA-TGTTTCTT
* * * ** *
14952169 TAGTAGGCCATGAGATGGTGTTTATTTAGTAGGCCTTGGGCCGATGTTTCTT
1 TAGCAAGCCTTGAGCCGGTGTTTATTTAGCAGGCCTTGGGCCGATGTTTCTT
* * * * * *
14952221 TAGCAAACCTTGAGCCGGTGTTTATTTAACAAGCCTTTGGCAGGTGTTTCTT
1 TAGCAAGCCTTGAGCCGGTGTTTATTTAGCAGGCCTTGGGCCGATGTTTCTT
* * *
14952273 TAGCAAGCTTTAAGCCGGTGTTTATTTAGCACGCCTTG
1 TAGCAAGCCTTGAGCCGGTGTTTATTTAGCAGGCCTTG
14952311 TACTAGTGGT
Statistics
Matches: 117, Mismatches: 24, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
52 115 0.98
53 2 0.02
ACGTcount: A:0.19, C:0.18, G:0.27, T:0.37
Consensus pattern (52 bp):
TAGCAAGCCTTGAGCCGGTGTTTATTTAGCAGGCCTTGGGCCGATGTTTCTT
Found at i:14952968 original size:26 final size:28
Alignment explanation
Indices: 14952939--14953003 Score: 68
Period size: 27 Copynumber: 2.4 Consensus size: 28
14952929 CTTATGTGAT
14952939 AAATGGTTT-TAT-GAAAT-GACTATACG
1 AAATGGTTTATATAGAAATAGA-TATACG
*
14952965 AAAT-GTTTATATAGAAATAGATATATG
1 AAATGGTTTATATAGAAATAGATATACG
14952992 -AATGGTTGTATA
1 AAATGGTT-TATA
14953004 AAGAGTTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
25 4 0.12
26 10 0.30
27 13 0.39
28 6 0.18
ACGTcount: A:0.42, C:0.03, G:0.18, T:0.37
Consensus pattern (28 bp):
AAATGGTTTATATAGAAATAGATATACG
Found at i:14954553 original size:9 final size:9
Alignment explanation
Indices: 14954539--14954563 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
14954529 TACATGCATA
14954539 TGGCCCATT
1 TGGCCCATT
14954548 TGGCCCATT
1 TGGCCCATT
14954557 TGGCCCA
1 TGGCCCA
14954564 ATTCACATCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.12, C:0.36, G:0.24, T:0.28
Consensus pattern (9 bp):
TGGCCCATT
Found at i:14954630 original size:28 final size:28
Alignment explanation
Indices: 14954548--14954632 Score: 91
Period size: 28 Copynumber: 3.0 Consensus size: 28
14954538 ATGGCCCATT
* * * * *
14954548 TGGCCCATTTGGCCCAATTCACATCATA
1 TGGCCCACTAGGCCCAAATCACCTTATA
*
14954576 TGGCCCATTAGG-CCAAATCACCTTTATA
1 TGGCCCACTAGGCCCAAATCACC-TTATA
*
14954604 TGGCCCGCTAGGCCCAAATCACCTTATA
1 TGGCCCACTAGGCCCAAATCACCTTATA
14954632 T
1 T
14954633 TCATGCTCAC
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
27 8 0.16
28 31 0.63
29 10 0.20
ACGTcount: A:0.26, C:0.32, G:0.15, T:0.27
Consensus pattern (28 bp):
TGGCCCACTAGGCCCAAATCACCTTATA
Found at i:14954717 original size:40 final size:40
Alignment explanation
Indices: 14954673--14954752 Score: 124
Period size: 40 Copynumber: 2.0 Consensus size: 40
14954663 AGCATCAATT
* *
14954673 ATCAAATTTTGCAGATTTTGGGCCCAACAGCCCATCGGGC
1 ATCAAATTTTGCAGATTATGAGCCCAACAGCCCATCGGGC
**
14954713 ATCAAATTTTGCCTATTATGAGCCCAACAGCCCATCGGGC
1 ATCAAATTTTGCAGATTATGAGCCCAACAGCCCATCGGGC
14954753 CCATAAGCCT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
40 36 1.00
ACGTcount: A:0.26, C:0.29, G:0.20, T:0.25
Consensus pattern (40 bp):
ATCAAATTTTGCAGATTATGAGCCCAACAGCCCATCGGGC
Found at i:14967540 original size:9 final size:9
Alignment explanation
Indices: 14967526--14967551 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
14967516 CGTCAACTTA
14967526 AGACTCATG
1 AGACTCATG
14967535 AGACTCATG
1 AGACTCATG
14967544 AGACTCAT
1 AGACTCAT
14967552 AAGAGCCTTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.35, C:0.23, G:0.19, T:0.23
Consensus pattern (9 bp):
AGACTCATG
Found at i:14972752 original size:40 final size:40
Alignment explanation
Indices: 14972551--14972744 Score: 327
Period size: 40 Copynumber: 4.9 Consensus size: 40
14972541 ATTCGGATTG
14972551 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
14972590 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
14972630 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
*
14972670 ATAACCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACT
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
* *
14972710 ATAACCGGGCTAAGTTCCGAAGGCATTTGAGCGAG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAG
14972745 AAGCTATATC
Statistics
Matches: 146, Mismatches: 8, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
39 13 0.09
40 133 0.91
ACGTcount: A:0.26, C:0.23, G:0.28, T:0.23
Consensus pattern (40 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT
Found at i:14972752 original size:80 final size:80
Alignment explanation
Indices: 14972551--14972771 Score: 331
Period size: 80 Copynumber: 2.8 Consensus size: 80
14972541 ATTCGGATTG
14972551 ATAACCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
*
14972615 TTTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * *
14972630 ATAACCGGGCCAAGTCCCGAAGGCAATTGTGCGAGTTACTATAACCGGGCTAAGTCCCGAAGGCA
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
14972695 ATTGTGCGAGTTACT
66 ATTGTGCGAGTTACT
* * * **
14972710 ATAACCGGGCTAAGTTCCGAAGGCATTTGAGCGAG-AAGCTATATCC-GGCTAAACCCCGAAGG
1 ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGCTAAGTCCCGAAGG
14972772 TACTTGGTTT
Statistics
Matches: 128, Mismatches: 12, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
79 28 0.22
80 100 0.78
ACGTcount: A:0.27, C:0.24, G:0.28, T:0.22
Consensus pattern (80 bp):
ATAACCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGCTAAGTCCCGAAGGCA
ATTGTGCGAGTTACT
Found at i:14974208 original size:29 final size:29
Alignment explanation
Indices: 14974166--14974241 Score: 143
Period size: 29 Copynumber: 2.6 Consensus size: 29
14974156 TCTTGGCTAT
*
14974166 GTGGGCCCACATGGGCTGCAATATGGGCC
1 GTGGGCCCACATGGGCCGCAATATGGGCC
14974195 GTGGGCCCACATGGGCCGCAATATGGGCC
1 GTGGGCCCACATGGGCCGCAATATGGGCC
14974224 GTGGGCCCACATGGGCCG
1 GTGGGCCCACATGGGCCG
14974242 TGGGCCCATT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 46 1.00
ACGTcount: A:0.16, C:0.30, G:0.39, T:0.14
Consensus pattern (29 bp):
GTGGGCCCACATGGGCCGCAATATGGGCC
Found at i:14974210 original size:17 final size:17
Alignment explanation
Indices: 14974188--14974249 Score: 71
Period size: 17 Copynumber: 3.9 Consensus size: 17
14974178 GGGCTGCAAT
14974188 ATGGGCCGTGGGCCCAC
1 ATGGGCCGTGGGCCCAC
* *
14974205 ATGGGCC----G-CAAT
1 ATGGGCCGTGGGCCCAC
14974217 ATGGGCCGTGGGCCCAC
1 ATGGGCCGTGGGCCCAC
14974234 ATGGGCCGTGGGCCCA
1 ATGGGCCGTGGGCCCA
14974250 TTTTCACTGT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
12 9 0.25
13 1 0.03
16 1 0.03
17 25 0.69
ACGTcount: A:0.15, C:0.32, G:0.40, T:0.13
Consensus pattern (17 bp):
ATGGGCCGTGGGCCCAC
Found at i:14976167 original size:40 final size:40
Alignment explanation
Indices: 14976112--14976329 Score: 253
Period size: 40 Copynumber: 5.5 Consensus size: 40
14976102 CGGATGATAA
* * *
14976112 CCGGGCTAAGTCCCGAAGGCATTTGCACTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTA-TAT
14976152 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* * **
14976192 CCGGGTTAAGTCCCAAAGGCATTTTTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* *
14976232 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
* * * *
14976272 TCGGGCTATGTCCCGAAGGCATTCGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTA-CTATAT
* * *
14976312 -CTGGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
14976330 TACCTGGCTT
Statistics
Matches: 156, Mismatches: 20, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
39 17 0.11
40 139 0.89
ACGTcount: A:0.23, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGCGCGAGTTACTATAT
Found at i:14983533 original size:43 final size:43
Alignment explanation
Indices: 14983485--14983583 Score: 189
Period size: 43 Copynumber: 2.3 Consensus size: 43
14983475 TTGGTTTTCA
14983485 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
*
14983528 GCACTAAGTGTGCGGGCAATAAGTGTTCACGGTTGTGAGATTG
1 GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
14983571 GCACTAAGTGTGC
1 GCACTAAGTGTGC
14983584 AGGCTTGAAA
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 55 1.00
ACGTcount: A:0.23, C:0.15, G:0.35, T:0.26
Consensus pattern (43 bp):
GCACTAAGTGTGCGGGCAAGAAGTGTTCACGGTTGTGAGATTG
Found at i:14983604 original size:29 final size:29
Alignment explanation
Indices: 14983569--14983642 Score: 98
Period size: 29 Copynumber: 2.6 Consensus size: 29
14983559 GTTGTGAGAT
*
14983569 TGGCACTAAGTGTGC-AGGCTTGAAA-TGCA
1 TGGCACTAAGTGTGCGA-G-TTGAAAGTACA
*
14983598 TGGCACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGAGTTGAAAGTACA
14983627 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
14983643 TGGTTGATTA
Statistics
Matches: 41, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
28 5 0.12
29 35 0.85
30 1 0.02
ACGTcount: A:0.27, C:0.16, G:0.31, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGTTGAAAGTACA
Found at i:14984077 original size:40 final size:40
Alignment explanation
Indices: 14983954--14984269 Score: 318
Period size: 40 Copynumber: 7.9 Consensus size: 40
14983944 TCGAATGATG
** *
14983954 TCCGGGCTAAGTCCCGAA-AGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCT-AGTGA-TATA
* ** * * *
14983994 TCCGGACTAAGAT-CCGAAG-GCATTGGTGCGAGTTACTAAA
1 TCCGGGCTAAG-TCCCGAAGAGCATTCATGCTAGTGA-TATA
*
14984034 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
*
14984074 TCCGGGCTAAGTTCCGAAGAGCATTCATGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* * *
14984114 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* *
14984154 TCCGGGCTAAGTTCCGAAGAGCATTCGTGCTAGTGATATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
* ** * * *
14984194 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTG-TCATA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGAT-ATA
* * * *
14984234 TCCGGGCTAGGTCCCGAAGAGTAATCATGCTGGTGA
1 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGA
14984270 CGTGTATTCG
Statistics
Matches: 233, Mismatches: 36, Indels: 13
0.83 0.13 0.05
Matches are distributed among these distances:
39 2 0.01
40 212 0.91
41 19 0.08
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATATA
Found at i:14984090 original size:80 final size:80
Alignment explanation
Indices: 14983954--14984254 Score: 358
Period size: 80 Copynumber: 3.8 Consensus size: 80
14983944 TCGAATGATG
* * * *
14983954 TCCGGGCTAAGTCCCGAA-AGC-TTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAG-GCA
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCT-AGTGA-TATATCCGGGCTAAGTTCCGAAGAGCA
* * * *
14984016 TTGGTGCGAGTTACTAAA
64 TTCGTGCTAGTGA-TATA
* *
14984034 TCCGGGCTAAGTCCCGAAGAGCATTCATGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATT
*
14984099 CATGCTAGTGATATA
66 CGTGCTAGTGATATA
* *
14984114 TCCGGGCTAAGTCCCGAGGAGCATTCGTGCTAGTGATGTATCCGGGCTAAGTTCCGAAGAGCATT
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATT
14984179 CGTGCTAGTGATATA
66 CGTGCTAGTGATATA
* ** * * * *
14984194 TCCGTGCTAAACCCCAAAGAGCATTCGTGCTGGTG-TCATATCCGGGCTAGGTCCCGAAGAG
1 TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGAT-ATATCCGGGCTAAGTTCCGAAGAG
14984255 TAATCATGCT
Statistics
Matches: 194, Mismatches: 23, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
79 1 0.01
80 167 0.86
81 20 0.10
82 6 0.03
ACGTcount: A:0.25, C:0.23, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGCTAAGTCCCGAAGAGCATTCGTGCTAGTGATATATCCGGGCTAAGTTCCGAAGAGCATT
CGTGCTAGTGATATA
Found at i:14988051 original size:39 final size:39
Alignment explanation
Indices: 14987959--14988114 Score: 161
Period size: 39 Copynumber: 4.0 Consensus size: 39
14987949 AGACGTTTTG
**
14987959 AGTATTGTGATATATGCTTAAATGTTATAAGATT-TATA
1 AGTATTGTGATATATGCTTAAATGTTATGTGATTATATA
* * * *
14987997 TGTATATTATGATATATGCTTGAGTGTTATGTGATTATATA
1 AG--TATTGTGATATATGCTTAAATGTTATGTGATTATATA
* * *
14988038 AGTATTGTTATATATGCTTAAATGTTATGTGATTGTATG
1 AGTATTGTGATATATGCTTAAATGTTATGTGATTATATA
* * ** *
14988077 AGTATTATGATACATGCTTGGATGTTAGGTGATTATAT
1 AGTATTGTGATATATGCTTAAATGTTATGTGATTATAT
14988115 GTGTAACATT
Statistics
Matches: 95, Mismatches: 20, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
38 1 0.01
39 62 0.65
40 27 0.28
41 5 0.05
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (39 bp):
AGTATTGTGATATATGCTTAAATGTTATGTGATTATATA
Found at i:14988109 original size:78 final size:79
Alignment explanation
Indices: 14987959--14988114 Score: 219
Period size: 78 Copynumber: 2.0 Consensus size: 79
14987949 AGACGTTTTG
*
14987959 AGTATTGTGATATATGCTTAAATGTTATAAGATTTATATGTATATTATGATATATGCTTGAGTGT
1 AGTATTGTGATATATGCTTAAATGTTATAAGATTTATATGTATATTATGATACATGCTTGAGTGT
*
14988024 TATGTGATTATATA
66 TAGGTGATTATATA
* ** *
14988038 AGTATTGTTATATATGCTTAAATGTTATGTGA-TTGTATG-AGTATTATGATACATGCTTG-GAT
1 AGTATTGTGATATATGCTTAAATGTTATAAGATTTATATGTA-TATTATGATACATGCTTGAG-T
14988100 GTTAGGTGATTATAT
64 GTTAGGTGATTATAT
14988115 GTGTAACATT
Statistics
Matches: 69, Mismatches: 6, Indels: 5
0.86 0.08 0.06
Matches are distributed among these distances:
77 2 0.03
78 38 0.55
79 29 0.42
ACGTcount: A:0.31, C:0.03, G:0.20, T:0.46
Consensus pattern (79 bp):
AGTATTGTGATATATGCTTAAATGTTATAAGATTTATATGTATATTATGATACATGCTTGAGTGT
TAGGTGATTATATA
Found at i:14988127 original size:78 final size:79
Alignment explanation
Indices: 14987968--14988137 Score: 202
Period size: 78 Copynumber: 2.2 Consensus size: 79
14987958 GAGTATTGTG
* *
14987968 ATATATGCTTAAATGTTATAAGATTTATATGTATATTATGATATATGCTTGAGTGTTATGTGATT
1 ATATATGCTTAAATGTTATAAGATTTATATGTATATTATGATACATGCTTGAGTGTTAGGTGATT
***
14988033 ATATAAGTATTGTT
66 ATATAAGTAACATT
** *
14988047 ATATATGCTTAAATGTTATGTGA-TTGTATG-AGTATTATGATACATGCTTG-GATGTTAGGTGA
1 ATATATGCTTAAATGTTATAAGATTTATATGTA-TATTATGATACATGCTTGAG-TGTTAGGTGA
**
14988109 TTATATGTGTAACATT
64 TTATATAAGTAACATT
*
14988125 ATATATGCCTAAA
1 ATATATGCTTAAA
14988138 AGTGAATATG
Statistics
Matches: 78, Mismatches: 11, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
77 2 0.03
78 55 0.71
79 21 0.27
ACGTcount: A:0.32, C:0.05, G:0.18, T:0.45
Consensus pattern (79 bp):
ATATATGCTTAAATGTTATAAGATTTATATGTATATTATGATACATGCTTGAGTGTTAGGTGATT
ATATAAGTAACATT
Found at i:14988816 original size:19 final size:20
Alignment explanation
Indices: 14988783--14988832 Score: 84
Period size: 19 Copynumber: 2.5 Consensus size: 20
14988773 ATAGAGATTT
*
14988783 AGTATCGATACCTTTGCTTG
1 AGTATCGATACCTTTGCTCG
14988803 AGTATCGA-ACCTTTGCTCG
1 AGTATCGATACCTTTGCTCG
14988822 AGTATCGATAC
1 AGTATCGATAC
14988833 TCAGGGTAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
19 18 0.64
20 10 0.36
ACGTcount: A:0.24, C:0.22, G:0.20, T:0.34
Consensus pattern (20 bp):
AGTATCGATACCTTTGCTCG
Found at i:14990405 original size:21 final size:21
Alignment explanation
Indices: 14990381--14990422 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
14990371 TCGCTATTTA
*
14990381 CATTAAAAATTATTTTTTATC
1 CATTAAAAATTAATTTTTATC
*
14990402 CATTAACAATTAATTTTTATC
1 CATTAAAAATTAATTTTTATC
14990423 TCATGTTGGC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.38, C:0.12, G:0.00, T:0.50
Consensus pattern (21 bp):
CATTAAAAATTAATTTTTATC
Found at i:14990565 original size:94 final size:94
Alignment explanation
Indices: 14990451--14990626 Score: 246
Period size: 94 Copynumber: 1.9 Consensus size: 94
14990441 CCTTCCATGC
* ** **
14990451 TCACACTTACCCTATAAATAAATGTCAATCTTTTTATATATTTTAATT-AAAAGTTAATTTTAAT
1 TCACACTTACCATATAAATAAATGAAAATCTTTAAAT-TATTTTAATTAAAAAGTTAATTTTAAT
*
14990515 CTCACATTGACTTGAGAACAGCCCCATATT
65 CTCACATTGACTAGAGAACAGCCCCATATT
* * * *
14990545 TCACATTTACCATATAAATAAGTGAAAATCTTTAAATTGTTTTCATTAAAAAGTTAATTTTAATC
1 TCACACTTACCATATAAATAAATGAAAATCTTTAAATTATTTTAATTAAAAAGTTAATTTTAATC
14990610 TCACATTGACTAGAGAA
66 TCACATTGACTAGAGAA
14990627 TACTCTCATA
Statistics
Matches: 71, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
93 8 0.11
94 63 0.89
ACGTcount: A:0.39, C:0.15, G:0.07, T:0.39
Consensus pattern (94 bp):
TCACACTTACCATATAAATAAATGAAAATCTTTAAATTATTTTAATTAAAAAGTTAATTTTAATC
TCACATTGACTAGAGAACAGCCCCATATT
Found at i:14990643 original size:94 final size:90
Alignment explanation
Indices: 14990308--14990644 Score: 235
Period size: 94 Copynumber: 3.7 Consensus size: 90
14990298 ACTTCTACTA
* * *
14990308 TTTTCATTAAAAAGTTAATTTTAATCACACATTCACTAGAGAATACTCTCATAGCTCACATTTTC
1 TTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAGCTCACATTTAC
* * *
14990373 GCTAT--TTACATTAAAAAT-TATT-TT
66 -CTATAAATA-AATGAAAATCT-TTATT
* * * ** * * * *
14990397 TTATCCATTAACAA-TTAATTTTTATCTCATGTTGGCT-G-TAATACCCTTCCAT-GCTCACACT
1 TT-TTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTC-T-CATAGCTCACATT
**
14990458 TACCCTATAAATAAATGTCAATCTTTTTATAT
63 TA-CCTATAAATAAATGAAAATC--TTTAT-T
* * * * **
14990490 ATTTTAATT-AAAAGTTAATTTTAATCTCACATTGACTTGAGAACAGC-CCCATATTTCACATTT
1 -TTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATA-CTCTCATAGCTCACATTT
*
14990553 ACCATATAAATAAGTGAAAATCTTTAAATT
64 ACC-TATAAATAAATGAAAATCTTT--ATT
*
14990583 GTTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAACTCACAT
1 -TTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAGCTCACAT
14990645 ATCATTATTT
Statistics
Matches: 186, Mismatches: 40, Indels: 39
0.70 0.15 0.15
Matches are distributed among these distances:
87 6 0.03
88 15 0.08
89 28 0.15
90 11 0.06
91 2 0.01
92 8 0.04
93 38 0.20
94 73 0.39
95 4 0.02
96 1 0.01
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.40
Consensus pattern (90 bp):
TTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAGCTCACATTTAC
CTATAAATAAATGAAAATCTTTATT
Found at i:14990669 original size:69 final size:69
Alignment explanation
Indices: 14990584--14990773 Score: 242
Period size: 69 Copynumber: 2.8 Consensus size: 69
14990574 CTTTAAATTG
14990584 TTTTCATT-AAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAACTCACATA-T
1 TTTTCATTAAAAAAGTTAATTTTAATC-CACATTGACTAGAGAATACTCTCATAACTCACATATT
*
14990647 CATTA
65 CACTA
* * * * *
14990652 TTTTAATTAAAAAAGTTAGTTTTAATCCCACATTGACTAGAGAATACTATAATAACTCACTTATT
1 TTTTCATTAAAAAAGTTAATTTTAAT-CCACATTGACTAGAGAATACTCTCATAACTCACATATT
*
14990717 TACTA
65 CACTA
* * *
14990722 TTTTCATTAAAAAA-TTAATTTGAATCCTACATTGGCTAGAGAACACTCTCAT
1 TTTTCATTAAAAAAGTTAATTTTAATCC-ACATTGACTAGAGAATACTCTCAT
14990774 GCTTATACTT
Statistics
Matches: 104, Mismatches: 14, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
68 9 0.09
69 77 0.74
70 18 0.17
ACGTcount: A:0.38, C:0.16, G:0.07, T:0.38
Consensus pattern (69 bp):
TTTTCATTAAAAAAGTTAATTTTAATCCACATTGACTAGAGAATACTCTCATAACTCACATATTC
ACTA
Found at i:14991163 original size:69 final size:70
Alignment explanation
Indices: 14990994--14991305 Score: 343
Period size: 69 Copynumber: 4.5 Consensus size: 70
14990984 TGTTTTTACG
* * * * *
14990994 ATTTT-AT-CCTACATTGATTAAAGAATACTCTCATAGCTCATTTTTTCACTATTTTTATTAAAA
1 ATTTTAATCCCTACATTGACTAGAGAATACTCTCATAACTCA-CTTTTCACTATTTTCATT-AAA
14991057 AAAGTTA
64 AAAGTTA
* * * *
14991064 ATTGTAA-CCCTACATTGACTAGAAAATACTCTCATAGCTCACTTCTTCAATATTTTCATT-AAA
1 ATTTTAATCCCTACATTGACTAGAGAATACTCTCATAACTCACTT-TTCACTATTTTCATTAAAA
14991127 AAGTTA
65 AAGTTA
* * * * *
14991133 ATTTTAATCTC-ACATTGACTAGAGAATACTCTCATAACTCACATATCATTATTTTAATTAAAAA
1 ATTTTAATCCCTACATTGACTAGAGAATACTCTCATAACTCACTTTTCACTATTTTCATTAAAAA
14991197 AGTTA
66 AGTTA
* * * *
14991202 GTTTTAATCCC-ACATTGACTAGAGAATACTATAATAACTCACTTATTTACTATTTTCATTAAAA
1 ATTTTAATCCCTACATTGACTAGAGAATACTCTCATAACTCACTT-TTCACTATTTTCATTAAAA
14991266 AA-TTA
65 AAGTTA
* * *
14991271 ATTTGAAT-CCTACATTGGCTAGAGAACACTCTCAT
1 ATTTTAATCCCTACATTGACTAGAGAATACTCTCAT
14991306 GCTTATACTT
Statistics
Matches: 205, Mismatches: 30, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
68 14 0.07
69 122 0.60
70 25 0.12
71 44 0.21
ACGTcount: A:0.37, C:0.17, G:0.07, T:0.38
Consensus pattern (70 bp):
ATTTTAATCCCTACATTGACTAGAGAATACTCTCATAACTCACTTTTCACTATTTTCATTAAAAA
AGTTA
Found at i:14991243 original size:138 final size:140
Alignment explanation
Indices: 14990999--14991305 Score: 379
Period size: 138 Copynumber: 2.2 Consensus size: 140
14990989 TTACGATTTT
* * * ** * *
14990999 ATCCTACATTGATTAAAGAATACTCTCATAGCTCATTTTTTCACTATTTTTATTAAAAAAAGTTA
1 ATCCTACATTGACTAGAGAATACTCTCATAACTCATCATATCACTATTTTAATTAAAAAAAGTTA
* * * *
14991064 ATTGTAACCCTACATTGACTAGAAAATACTCTCATAGCTCACTTCTTCAATATTTTCATTAAAAA
66 ATTGTAACCCTACATTGACTAGAAAATACTATAATAACTCACTTATTCAATATTTTCATTAAAAA
* *
14991129 GTTAATTTTA
131 ATTAATTTGA
*
14991139 AT-CTCACATTGACTAGAGAATACTCTCATAACTCA-CATATCATTATTTTAATT-AAAAAAGTT
1 ATCCT-ACATTGACTAGAGAATACTCTCATAACTCATCATATCACTATTTTAATTAAAAAAAGTT
* * * * *
14991201 AGTTTTAATCCC-ACATTGACTAGAGAATACTATAATAACTCACTTATTTACTATTTTCATTAAA
65 AATTGTAA-CCCTACATTGACTAGAAAATACTATAATAACTCACTTATTCAATATTTTCATTAAA
14991265 AAATTAATTTGA
129 AAATTAATTTGA
* *
14991277 ATCCTACATTGGCTAGAGAACACTCTCAT
1 ATCCTACATTGACTAGAGAATACTCTCAT
14991306 GCTTATACTT
Statistics
Matches: 143, Mismatches: 21, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
138 94 0.66
139 20 0.14
140 29 0.20
ACGTcount: A:0.37, C:0.18, G:0.07, T:0.38
Consensus pattern (140 bp):
ATCCTACATTGACTAGAGAATACTCTCATAACTCATCATATCACTATTTTAATTAAAAAAAGTTA
ATTGTAACCCTACATTGACTAGAAAATACTATAATAACTCACTTATTCAATATTTTCATTAAAAA
ATTAATTTGA
Found at i:14991588 original size:532 final size:532
Alignment explanation
Indices: 14990584--14991743 Score: 2207
Period size: 532 Copynumber: 2.2 Consensus size: 532
14990574 CTTTAAATTG
14990584 TTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAACTCACATATCA
1 TTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAACTCACATATCA
14990649 TTATTTTAATTAAAAAAGTTAGTTTTAATCCCACATTGACTAGAGAATACTATAATAACTCACTT
66 TTATTTTAATTAAAAAAGTTAGTTTTAATCCCACATTGACTAGAGAATACTATAATAACTCACTT
14990714 ATTTACTATTTTCATTAAAAAATTAATTTGAATCCTACATTGGCTAGAGAACACTCTCATGCTTA
131 ATTTACTATTTTCATTAAAAAATTAATTTGAATCCTACATTGGCTAGAGAACACTCTCATGCTTA
14990779 TACTTACCTATAAACAAATGTAAATTTCTTTACTGTTTTCATTAAAAATTAATTTTAATCTCATA
196 TACTTACCTATAAACAAATGTAAATTTCTTTACTGTTTTCATTAAAAATTAATTTTAATCTCATA
14990844 TTGATTAGAGAACAGTCTCATATATCAAATTGACAATTTCTTCACTACTTTCATTAAAAAGTTCA
261 TTGATTAGAGAACAGTCTCATATATCAAATTGACAATTTCTTCACTACTTTCATTAAAAAGTTCA
14990909 TTTTAATCCCACATTGACTTGAGTAACGCTCCCACATCTTACATTTACCTTATAAATAAGTGATA
326 TTTTAATCCCACATTGACTTGAGTAACGCTCCCACATCTTACATTTACCTTATAAATAAGTGATA
14990974 ATTTATTCACTGTTTTTACGATTTTATCCTACATTGATTAAAGAATACTCTCATAGCTCATTTTT
391 ATTTATTCACTGTTTTTACGATTTTATCCTACATTGATTAAAGAATACTCTCATAGCTCATTTTT
14991039 TCACTATTTTTATTAAAAAAAGTTAATTGTAACCCTACATTGACTAGAAAATACTCTCATAGCTC
456 TCACTATTTTTATTAAAAAAAGTTAATTGTAACCCTACATTGACTAGAAAATACTCTCATAGCTC
14991104 ACTTCTTCAATA
521 ACTTCTTCAATA
14991116 TTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAACTCACATATCA
1 TTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAACTCACATATCA
14991181 TTATTTTAATTAAAAAAGTTAGTTTTAATCCCACATTGACTAGAGAATACTATAATAACTCACTT
66 TTATTTTAATTAAAAAAGTTAGTTTTAATCCCACATTGACTAGAGAATACTATAATAACTCACTT
14991246 ATTTACTATTTTCATTAAAAAATTAATTTGAATCCTACATTGGCTAGAGAACACTCTCATGCTTA
131 ATTTACTATTTTCATTAAAAAATTAATTTGAATCCTACATTGGCTAGAGAACACTCTCATGCTTA
14991311 TACTTACCTATAAACAAATGTAAATTTCTTTACTGTTTTCATTAAAAATTAATTTTAATCTCATA
196 TACTTACCTATAAACAAATGTAAATTTCTTTACTGTTTTCATTAAAAATTAATTTTAATCTCATA
14991376 TTGATTAGAGAACAGTCTCATATATCAAATTGACAATTTCTTCACTACTTTCATTAAAAAGTTCA
261 TTGATTAGAGAACAGTCTCATATATCAAATTGACAATTTCTTCACTACTTTCATTAAAAAGTTCA
14991441 TTTTAATCCCACATTGACTTGAGTAACGCTCCCACATCTTACATTTACCTTATAAATAAGTGATA
326 TTTTAATCCCACATTGACTTGAGTAACGCTCCCACATCTTACATTTACCTTATAAATAAGTGATA
14991506 ATTTATTCACTGTTTTTACGATTTTATCCTACATTGATTAAAGAATACTCTCATAGCTCATTTTT
391 ATTTATTCACTGTTTTTACGATTTTATCCTACATTGATTAAAGAATACTCTCATAGCTCATTTTT
14991571 TCACTATTTTTATTAAAAAAAGTTAATTGTAACCCTACATTGACTAGAAAATACTCTCATAGCTC
456 TCACTATTTTTATTAAAAAAAGTTAATTGTAACCCTACATTGACTAGAAAATACTCTCATAGCTC
14991636 ACTTCTTCAATA
521 ACTTCTTCAATA
* * * * * * *
14991648 TTTTCATTAAAAAGTTAATTTTAATCCCACATTTACTAGAGAATATTCCCATAGCTCACTTCTTC
1 TTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAACTCACAT-ATC
* * *
14991713 ACTATTTTCATT-AAAAA-TTAATTTTAATCCC
65 ATTATTTTAATTAAAAAAGTTAGTTTTAATCCC
14991744 TTAAAAAGTT
Statistics
Matches: 617, Mismatches: 10, Indels: 3
0.98 0.02 0.00
Matches are distributed among these distances:
531 13 0.02
532 592 0.96
533 12 0.02
ACGTcount: A:0.36, C:0.18, G:0.07, T:0.39
Consensus pattern (532 bp):
TTTTCATTAAAAAGTTAATTTTAATCTCACATTGACTAGAGAATACTCTCATAACTCACATATCA
TTATTTTAATTAAAAAAGTTAGTTTTAATCCCACATTGACTAGAGAATACTATAATAACTCACTT
ATTTACTATTTTCATTAAAAAATTAATTTGAATCCTACATTGGCTAGAGAACACTCTCATGCTTA
TACTTACCTATAAACAAATGTAAATTTCTTTACTGTTTTCATTAAAAATTAATTTTAATCTCATA
TTGATTAGAGAACAGTCTCATATATCAAATTGACAATTTCTTCACTACTTTCATTAAAAAGTTCA
TTTTAATCCCACATTGACTTGAGTAACGCTCCCACATCTTACATTTACCTTATAAATAAGTGATA
ATTTATTCACTGTTTTTACGATTTTATCCTACATTGATTAAAGAATACTCTCATAGCTCATTTTT
TCACTATTTTTATTAAAAAAAGTTAATTGTAACCCTACATTGACTAGAAAATACTCTCATAGCTC
ACTTCTTCAATA
Found at i:14991701 original size:69 final size:70
Alignment explanation
Indices: 14991526--14991744 Score: 286
Period size: 69 Copynumber: 3.2 Consensus size: 70
14991516 TGTTTTTACG
* * * * *
14991526 ATTTT-AT-CCTACATTGATTAAAGAATACTCTCATAGCTCATTTTTTCACTATTTTTATTAAAA
1 ATTTTAATCCCTACATTGACTAGAGAATACTCTCATAGCTCACTTCTTCACTATTTTCATT--AA
14991589 AAAGTTA
64 AAAGTTA
* * *
14991596 ATTGTAA-CCCTACATTGACTAGAAAATACTCTCATAGCTCACTTCTTCAATATTTTCATTAAAA
1 ATTTTAATCCCTACATTGACTAGAGAATACTCTCATAGCTCACTTCTTCACTATTTTCATTAAAA
14991660 AGTTA
66 AGTTA
* * *
14991665 ATTTTAATCCC-ACATTTACTAGAGAATATTCCCATAGCTCACTTCTTCACTATTTTCATTAAAA
1 ATTTTAATCCCTACATTGACTAGAGAATACTCTCATAGCTCACTTCTTCACTATTTTCATTAAAA
14991729 A-TTA
66 AGTTA
14991733 ATTTTAATCCCT
1 ATTTTAATCCCT
14991745 TAAAAAGTTA
Statistics
Matches: 131, Mismatches: 14, Indels: 9
0.85 0.09 0.06
Matches are distributed among these distances:
68 14 0.11
69 64 0.49
70 7 0.05
71 46 0.35
ACGTcount: A:0.35, C:0.19, G:0.05, T:0.41
Consensus pattern (70 bp):
ATTTTAATCCCTACATTGACTAGAGAATACTCTCATAGCTCACTTCTTCACTATTTTCATTAAAA
AGTTA
Found at i:14991854 original size:93 final size:93
Alignment explanation
Indices: 14991744--14991955 Score: 313
Period size: 93 Copynumber: 2.3 Consensus size: 93
14991734 TTTTAATCCC
*
14991744 TTAAAAAGTTAATTTTTATTCCACATTGGCTAGAATACAATCCCATG-TTCACAAATACCCTATA
1 TTAAAAAGTTAATTTTTATCCCACATTGGCTAGAATACAATCCCATGCTT-ACAAATACCCTATA
* * *
14991808 AATACGTGTCAATTTCTTCTCTATTTTTA
65 AATACGTATCAACTTCTTCTCTATTGTTA
* *
14991837 TTAAAAAGTTAATTTTTATCCCACATTGGCTAGAATACACTCCCATGCTTACACATACCCTATAA
1 TTAAAAAGTTAATTTTTATCCCACATTGGCTAGAATACAATCCCATGCTTACAAATACCCTATAA
* *
14991902 ATACGTATCAGCTTCTTTTCTATTGTTA
66 ATACGTATCAACTTCTTCTCTATTGTTA
14991930 TTAAAAA-TTAA-TTTTAGTCCCACATT
1 TTAAAAAGTTAATTTTTA-TCCCACATT
14991956 AATTACAAAA
Statistics
Matches: 109, Mismatches: 8, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
91 5 0.05
92 13 0.12
93 89 0.82
94 2 0.02
ACGTcount: A:0.33, C:0.20, G:0.08, T:0.39
Consensus pattern (93 bp):
TTAAAAAGTTAATTTTTATCCCACATTGGCTAGAATACAATCCCATGCTTACAAATACCCTATAA
ATACGTATCAACTTCTTCTCTATTGTTA
Found at i:14996029 original size:1 final size:1
Alignment explanation
Indices: 14996019--14996049 Score: 53
Period size: 1 Copynumber: 31.0 Consensus size: 1
14996009 CTTATATTCT
*
14996019 CCCCCACCCCCCCCCCCCCCCCCCCCCCCCC
1 CCCCCCCCCCCCCCCCCCCCCCCCCCCCCCC
14996050 ACCAATGCCT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
1 28 1.00
ACGTcount: A:0.03, C:0.97, G:0.00, T:0.00
Consensus pattern (1 bp):
C
Found at i:14998396 original size:29 final size:28
Alignment explanation
Indices: 14998363--14998418 Score: 69
Period size: 29 Copynumber: 2.0 Consensus size: 28
14998353 ATTTTTAGTG
*
14998363 AAAAAATTAA-TTTCTCTCTACAGGAAAAC
1 AAAAAATTAAGTTT-TCTCT-CAAGAAAAC
*
14998392 AAAAACTTAAGTTTTCTCTCAAGAAAA
1 AAAAAATTAAGTTTTCTCTCAAGAAAA
14998419 AAGAAGAATT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 7 0.29
29 14 0.58
30 3 0.12
ACGTcount: A:0.48, C:0.16, G:0.07, T:0.29
Consensus pattern (28 bp):
AAAAAATTAAGTTTTCTCTCAAGAAAAC
Found at i:15001738 original size:11 final size:11
Alignment explanation
Indices: 15001702--15001757 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
15001692 CATGGTATGT
15001702 ATGATATGCAC
1 ATGATATGCAC
* *
15001713 ATGACATG--T
1 ATGATATGCAC
15001722 ATGATATGCAC
1 ATGATATGCAC
*
15001733 ATGATATG--T
1 ATGATATGCAC
15001742 ATGATATGCAC
1 ATGATATGCAC
15001753 ATGAT
1 ATGAT
15001758 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:15001757 original size:20 final size:20
Alignment explanation
Indices: 15001691--15001757 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
15001681 ATTTTGATAA
*
15001691 ACATGGTATGTATGATATGC
1 ACATGATATGTATGATATGC
*
15001711 ACATGACATGTATGATATGC
1 ACATGATATGTATGATATGC
15001731 ACATGATATGTATGATATGC
1 ACATGATATGTATGATATGC
15001751 ACATGAT
1 ACATGAT
15001758 GTATTCATAA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (20 bp):
ACATGATATGTATGATATGC
Found at i:15001834 original size:24 final size:24
Alignment explanation
Indices: 15001807--15001902 Score: 131
Period size: 24 Copynumber: 4.0 Consensus size: 24
15001797 GAGGAAGTGA
15001807 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
15001831 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* * *
15001855 AAAAGGGCTTTTACCCCAGTAATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
15001879 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
15001903 ATGATAAAGC
Statistics
Matches: 63, Mismatches: 7, Indels: 3
0.86 0.10 0.04
Matches are distributed among these distances:
24 53 0.84
25 10 0.16
ACGTcount: A:0.31, C:0.21, G:0.21, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:15002220 original size:36 final size:36
Alignment explanation
Indices: 15002179--15002250 Score: 126
Period size: 36 Copynumber: 2.0 Consensus size: 36
15002169 TTGGACTTGG
*
15002179 GCTAAGGCCCAGCAGGCTGATATTGTGTTGGGCTCT
1 GCTAAGGCCCAACAGGCTGATATTGTGTTGGGCTCT
*
15002215 GCTAAGGCCCAACAGGTTGATATTGTGTTGGGCTCT
1 GCTAAGGCCCAACAGGCTGATATTGTGTTGGGCTCT
15002251 AAAAGGGGCT
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:0.18, C:0.21, G:0.32, T:0.29
Consensus pattern (36 bp):
GCTAAGGCCCAACAGGCTGATATTGTGTTGGGCTCT
Found at i:15010015 original size:11 final size:11
Alignment explanation
Indices: 15009979--15010034 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
15009969 CATGGTATGT
15009979 ATGATATGCAC
1 ATGATATGCAC
* *
15009990 ATGAAATG--T
1 ATGATATGCAC
15009999 ATGATATGCAC
1 ATGATATGCAC
*
15010010 ATGATATG--T
1 ATGATATGCAC
15010019 ATGATATGCAC
1 ATGATATGCAC
15010030 ATGAT
1 ATGAT
15010035 GTATTCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:15010034 original size:20 final size:20
Alignment explanation
Indices: 15009969--15010034 Score: 114
Period size: 20 Copynumber: 3.3 Consensus size: 20
15009959 TTTTGATAAG
*
15009969 CATGGTATGTATGATATGCA
1 CATGATATGTATGATATGCA
*
15009989 CATGAAATGTATGATATGCA
1 CATGATATGTATGATATGCA
15010009 CATGATATGTATGATATGCA
1 CATGATATGTATGATATGCA
15010029 CATGAT
1 CATGAT
15010035 GTATTCATAA
Statistics
Matches: 43, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.35, C:0.11, G:0.21, T:0.33
Consensus pattern (20 bp):
CATGATATGTATGATATGCA
Found at i:15010116 original size:24 final size:24
Alignment explanation
Indices: 15010084--15010237 Score: 218
Period size: 24 Copynumber: 6.4 Consensus size: 24
15010074 GAGGAAGTGA
* * *
15010084 AAAAGGGCTTTTGCCCCAATTATC
1 AAAAGGGCTTATGCCCCAGTTATT
*
15010108 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
15010132 AAAAGGGCTTATGCCCTAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
15010156 AAAAGGGCTTATGCCGCAGTTATG
1 AAAAGGGCTTATGCCCCAGTTATT
15010180 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
15010204 AAAAGGGCTTTTGCCCCAGTTACT
1 AAAAGGGCTTATGCCCCAGTTATT
15010228 AAAAGAGGCT
1 AAAAG-GGCT
15010238 AGGTCTCCAG
Statistics
Matches: 118, Mismatches: 11, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
24 114 0.97
25 4 0.03
ACGTcount: A:0.30, C:0.19, G:0.22, T:0.29
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:15011379 original size:27 final size:27
Alignment explanation
Indices: 15011327--15011382 Score: 78
Period size: 27 Copynumber: 2.1 Consensus size: 27
15011317 CAGAAACAGT
* *
15011327 ATCAGGTGGCCTTAGCCCATTAATAGA
1 ATCAGGTGGCCTAAGCCCAATAATAGA
15011354 ATCAGGTGGGCCTAAGCCCAAT-ATAGA
1 ATCAGGT-GGCCTAAGCCCAATAATAGA
15011381 AT
1 AT
15011383 TAGTATGAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 14 0.54
28 12 0.46
ACGTcount: A:0.32, C:0.21, G:0.23, T:0.23
Consensus pattern (27 bp):
ATCAGGTGGCCTAAGCCCAATAATAGA
Found at i:15027556 original size:22 final size:22
Alignment explanation
Indices: 15027530--15027574 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
15027520 TTCTTCTGAG
15027530 ATGTTTTCCTTCTTAGTTATGA
1 ATGTTTTCCTTCTTAGTTATGA
*
15027552 ATGTTTTCCTTTTTAGTTATGA
1 ATGTTTTCCTTCTTAGTTATGA
15027574 A
1 A
15027575 CTAAATCCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.20, C:0.11, G:0.13, T:0.56
Consensus pattern (22 bp):
ATGTTTTCCTTCTTAGTTATGA
Found at i:15039505 original size:18 final size:18
Alignment explanation
Indices: 15039484--15039532 Score: 62
Period size: 18 Copynumber: 2.7 Consensus size: 18
15039474 TTTACATAAA
15039484 TAACACAATTCACCAAAT
1 TAACACAATTCACCAAAT
* * * *
15039502 TAACATAGTTCGCGAAAT
1 TAACACAATTCACCAAAT
15039520 TAACACAATTCAC
1 TAACACAATTCAC
15039533 ATTATTATAA
Statistics
Matches: 24, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.45, C:0.24, G:0.06, T:0.24
Consensus pattern (18 bp):
TAACACAATTCACCAAAT
Found at i:15045265 original size:43 final size:43
Alignment explanation
Indices: 15045205--15045290 Score: 172
Period size: 43 Copynumber: 2.0 Consensus size: 43
15045195 ATGCCAAGAA
15045205 TCTTCTTAGCTTCACCTAGATCTTTCATCTCAAACTCAAGGTT
1 TCTTCTTAGCTTCACCTAGATCTTTCATCTCAAACTCAAGGTT
15045248 TCTTCTTAGCTTCACCTAGATCTTTCATCTCAAACTCAAGGTT
1 TCTTCTTAGCTTCACCTAGATCTTTCATCTCAAACTCAAGGTT
15045291 GAGTTGAGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 43 1.00
ACGTcount: A:0.23, C:0.28, G:0.09, T:0.40
Consensus pattern (43 bp):
TCTTCTTAGCTTCACCTAGATCTTTCATCTCAAACTCAAGGTT
Found at i:15052111 original size:130 final size:130
Alignment explanation
Indices: 15051161--15052071 Score: 1822
Period size: 130 Copynumber: 7.0 Consensus size: 130
15051151 CATTTTGGTA
15051161 AAAACCACATTTCATTTCCAAATGTTTCTCATTTTTCCATTTCATTTTCATTGATCAATGTTTGT
1 AAAACCACATTTCATTTCCAAATGTTTCTCATTTTTCCATTTCATTTTCATTGATCAATGTTTGT
15051226 CCAATGACCTTTTCATAAGTGTGTTAACCTCGTAGGATATCCTTAATCTCTCTTGGCTAATATTC
66 CCAATGACCTTTTCATAAGTGTGTTAACCTCGTAGGATATCCTTAATCTCTCTTGGCTAATATTC
15051291 AAAACCACATTTCATTTCCAAATGTTTCTCATTTTTCCATTTCATTTTCATTGATCAATGTTTGT
1 AAAACCACATTTCATTTCCAAATGTTTCTCATTTTTCCATTTCATTTTCATTGATCAATGTTTGT
15051356 CCAATGACCTTTTCATAAGTGTGTTAACCTCGTAGGATATCCTTAATCTCTCTTGGCTAATATTC
66 CCAATGACCTTTTCATAAGTGTGTTAACCTCGTAGGATATCCTTAATCTCTCTTGGCTAATATTC
15051421 AAAACCACATTTCATTTCCAAATGTTTCTCATTTTTCCATTTCATTTTCATTGATCAATGTTTGT
1 AAAACCACATTTCATTTCCAAATGTTTCTCATTTTTCCATTTCATTTTCATTGATCAATGTTTGT
15051486 CCAATGACCTTTTCATAAGTGTGTTAACCTCGTAGGATATCCTTAATCTCTCTTGGCTAATATTC
66 CCAATGACCTTTTCATAAGTGTGTTAACCTCGTAGGATATCCTTAATCTCTCTTGGCTAATATTC
15051551 AAAACCACATTTCATTTCCAAATGTTTCTCATTTTTCCATTTCATTTTCATTGATCAATGTTTGT
1 AAAACCACATTTCATTTCCAAATGTTTCTCATTTTTCCATTTCATTTTCATTGATCAATGTTTGT
15051616 CCAATGACCTTTTCATAAGTGTGTTAACCTCGTAGGATATCCTTAATCTCTCTTGGCTAATATTC
66 CCAATGACCTTTTCATAAGTGTGTTAACCTCGTAGGATATCCTTAATCTCTCTTGGCTAATATTC
15051681 AAAACCACATTTCATTTCCAAATGTTTCTCATTTTTCCATTTCATTTTCATTGATCAATGTTTGT
1 AAAACCACATTTCATTTCCAAATGTTTCTCATTTTTCCATTTCATTTTCATTGATCAATGTTTGT
15051746 CCAATGACCTTTTCATAAGTGTGTTAACCTCGTAGGATATCCTTAATCTCTCTTGGCTAATATTC
66 CCAATGACCTTTTCATAAGTGTGTTAACCTCGTAGGATATCCTTAATCTCTCTTGGCTAATATTC
15051811 AAAACCACATTTCATTTCCAAATGTTTCTCATTTTTCCATTTCATTTTCATTGATCAATGTTTGT
1 AAAACCACATTTCATTTCCAAATGTTTCTCATTTTTCCATTTCATTTTCATTGATCAATGTTTGT
15051876 CCAATGACCTTTTCATAAGTGTGTTAACCTCGTAGGATATCCTTAATCTCTCTTGGCTAATATTC
66 CCAATGACCTTTTCATAAGTGTGTTAACCTCGTAGGATATCCTTAATCTCTCTTGGCTAATATTC
15051941 AAAACCACATTTCATTTCCAAATGTTTCTCATTTTTCCATTTCATTTTCATTGATCAATGTTTGT
1 AAAACCACATTTCATTTCCAAATGTTTCTCATTTTTCCATTTCATTTTCATTGATCAATGTTTGT
15052006 CCAATGACCTTTTCATAAGTGTGTTAACCTCGTAGGATATCCTTAATCTCTCTTGGCTAATATTC
66 CCAATGACCTTTTCATAAGTGTGTTAACCTCGTAGGATATCCTTAATCTCTCTTGGCTAATATTC
15052071 A
1 A
15052072 TTCTCCCACT
Statistics
Matches: 781, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
130 781 1.00
ACGTcount: A:0.25, C:0.22, G:0.10, T:0.43
Consensus pattern (130 bp):
AAAACCACATTTCATTTCCAAATGTTTCTCATTTTTCCATTTCATTTTCATTGATCAATGTTTGT
CCAATGACCTTTTCATAAGTGTGTTAACCTCGTAGGATATCCTTAATCTCTCTTGGCTAATATTC
Found at i:15055196 original size:80 final size:79
Alignment explanation
Indices: 15055112--15055283 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
15055102 GGACTAAGAT
*
15055112 CCGAAGGCATTTGTGCGAGAT-ACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATGACAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
15055176 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * ** * * * *
15055192 CCGAAGGCATTCGTGCGAGTTGTTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
15055257 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
15055271 CCGAAGGCATTTG
1 CCGAAGGCATTTG
15055284 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATGACAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:15055263 original size:39 final size:39
Alignment explanation
Indices: 15055059--15055281 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
15055049 TTGAATGCTG
* * * * *
15055059 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
15055099 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
15055138 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* **
15055179 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
15055219 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
15055258 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
15055282 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 39 0.25
40 102 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:15055301 original size:79 final size:80
Alignment explanation
Indices: 15055139--15055316 Score: 198
Period size: 79 Copynumber: 2.2 Consensus size: 80
15055129 AGATACAAAT
* * * *
15055139 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** ** *
15055204 GTGCGAGTTGTTAAA
66 GAACGAGGAGCTAAA
* * * * *
15055219 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
15055283 GAACGAGGAGCTATA
66 GAACGAGGAGCTAAA
*
15055298 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
15055317 TACGTGATTT
Statistics
Matches: 81, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
78 14 0.17
79 49 0.60
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.29, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGGAGCTAAA
Found at i:15068702 original size:28 final size:27
Alignment explanation
Indices: 15068671--15068737 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 27
15068661 CCGATTTCGT
*
15068671 ACACTTAGTGCTCGGAAATCCAAATTAC
1 ACACTTAGTGCTC-GAAAACCAAATTAC
* * * *
15068699 ACACTTAATGCT-TAAAACCAAGTTGC
1 ACACTTAGTGCTCGAAAACCAAATTAC
15068725 ACACTTAGTGCTC
1 ACACTTAGTGCTC
15068738 AATGACCGAT
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
26 21 0.66
28 11 0.34
ACGTcount: A:0.34, C:0.25, G:0.13, T:0.27
Consensus pattern (27 bp):
ACACTTAGTGCTCGAAAACCAAATTAC
Found at i:15068755 original size:28 final size:27
Alignment explanation
Indices: 15068639--15068765 Score: 105
Period size: 28 Copynumber: 4.6 Consensus size: 27
15068629 AAAAATTTTC
* *
15068639 TCGCACACTTAGTGTTCAATAACCGATT
1 TCGCACACTTAGTGCTCAA-AACCAATT
* * *
15068667 TCGTACACTTAGTGCTCGGAAATCCAAAT
1 TCGCACACTTAGTGCTC--AAAACCAATT
* * * *
15068696 T-ACACACTTAATGCTTAAAACCAAGT
1 TCGCACACTTAGTGCTCAAAACCAATT
* *
15068722 T-GCACACTTAGTGCTCAATGACCGATT
1 TCGCACACTTAGTGCTCAA-AACCAATT
15068749 TCGCACACTTAGTGCTC
1 TCGCACACTTAGTGCTC
15068766 GGTATCAAAT
Statistics
Matches: 78, Mismatches: 17, Indels: 8
0.76 0.17 0.08
Matches are distributed among these distances:
26 23 0.29
27 6 0.08
28 41 0.53
29 6 0.08
30 2 0.03
ACGTcount: A:0.30, C:0.26, G:0.15, T:0.29
Consensus pattern (27 bp):
TCGCACACTTAGTGCTCAAAACCAATT
Found at i:15072874 original size:15 final size:16
Alignment explanation
Indices: 15072854--15072885 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
15072844 AACTGCATAT
15072854 TTTAAAAAA-TAATAA
1 TTTAAAAAATTAATAA
15072869 TTTAAAAAATTAATAA
1 TTTAAAAAATTAATAA
15072885 T
1 T
15072886 AATAATAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 9 0.56
16 7 0.44
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
TTTAAAAAATTAATAA
Found at i:15072876 original size:16 final size:16
Alignment explanation
Indices: 15072852--15072885 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
15072842 TGAACTGCAT
*
15072852 ATTTTAAAAAATAATA
1 ATTTAAAAAAATAATA
*
15072868 ATTTAAAAAATTAATA
1 ATTTAAAAAAATAATA
15072884 AT
1 AT
15072886 AATAATAATA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (16 bp):
ATTTAAAAAAATAATA
Found at i:15082976 original size:79 final size:79
Alignment explanation
Indices: 15082845--15083003 Score: 300
Period size: 79 Copynumber: 2.0 Consensus size: 79
15082835 CATTGCAAGA
15082845 ATGAAGTAATGAATGAAAACTGAACACCAGGTAGGGTTGTAAAGAAAGTGAGGTAAGTCATTAAG
1 ATGAAGTAATGAATGAAAACTGAACACCAGGTAGGGTTGTAAAGAAAGTGAGGTAAGTCATTAAG
15082910 ACTGCTTAAATACC
66 ACTGCTTAAATACC
* *
15082924 ATGAAGTAATGAATGAAAATTGAACACCAGGTAGGGTTGTAAAGAAAGTGAGGTGAGTCATTAAG
1 ATGAAGTAATGAATGAAAACTGAACACCAGGTAGGGTTGTAAAGAAAGTGAGGTAAGTCATTAAG
15082989 ACTGCTTAAATACC
66 ACTGCTTAAATACC
15083003 A
1 A
15083004 AGTCTTTCCT
Statistics
Matches: 78, Mismatches: 2, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
79 78 1.00
ACGTcount: A:0.42, C:0.11, G:0.25, T:0.23
Consensus pattern (79 bp):
ATGAAGTAATGAATGAAAACTGAACACCAGGTAGGGTTGTAAAGAAAGTGAGGTAAGTCATTAAG
ACTGCTTAAATACC
Found at i:15086125 original size:50 final size:50
Alignment explanation
Indices: 15086007--15086299 Score: 300
Period size: 50 Copynumber: 5.8 Consensus size: 50
15085997 TTGTGAGAAT
* * * ***
15086007 ACATGTGTAGTACTATGTGCAGGCTATTATGTGTTTAAGATGGTTGTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGG-T-TAGGTC
* *
15086059 ACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATGGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTC
* * * *** * *
15086109 GCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAAACCTTCGATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAG-ATGGTTAGGTC
* * * **
15086160 ACATGTGTAATACTAAGTGCAGGCTATTACATGTATTAGATGGTTAGGTC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTC
* * *
15086210 ACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATTGTT-GATC
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTC
* * * *
15086259 GCATGTGTAGTACTAAGTGCAGCCTACTATGCGTACCAGAT
1 ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGAT
15086300 AGCTTCAGTT
Statistics
Matches: 196, Mismatches: 44, Indels: 5
0.80 0.18 0.02
Matches are distributed among these distances:
49 39 0.20
50 84 0.43
51 38 0.19
52 35 0.18
ACGTcount: A:0.27, C:0.17, G:0.25, T:0.31
Consensus pattern (50 bp):
ACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGTTAGGTC
Found at i:15086206 original size:101 final size:99
Alignment explanation
Indices: 15086057--15086287 Score: 300
Period size: 101 Copynumber: 2.3 Consensus size: 99
15086047 TGGTTGTAGG
* * * *
15086057 TCACGTGTGTAGTACTAAGTACAGGCTACTACGTGTACCAGATGGTTAGGTCGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGTCACATGTGTAGTAC
* * *
15086122 TAAGTGCAGGCTACTATGTGTACCCGAAACCTTCGA
66 TAAATGCAGGCTACTACGTGTACCAG-AACCTT-GA
* * **
15086158 TCACATGTGTAATACTAAGTGCAGGCTATTACATGTATTAGATGGTTAGGTCACATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGTCACATGTGTAGTAC
***
15086223 TAAATGCAGGCTACTACGTGTACCAGATTGTTGA
66 TAAATGCAGGCTACTACGTGTACCAGAACCTTGA
* *
15086257 TCGCATGTGTAGTACTAAGTGCAGCCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
15086288 TGCGTACCAG
Statistics
Matches: 112, Mismatches: 18, Indels: 2
0.85 0.14 0.02
Matches are distributed among these distances:
99 29 0.26
100 3 0.03
101 80 0.71
ACGTcount: A:0.27, C:0.19, G:0.24, T:0.30
Consensus pattern (99 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATGGTTAGGTCACATGTGTAGTAC
TAAATGCAGGCTACTACGTGTACCAGAACCTTGA
Found at i:15086331 original size:150 final size:153
Alignment explanation
Indices: 15086020--15086333 Score: 404
Period size: 150 Copynumber: 2.1 Consensus size: 153
15086010 TGTGTAGTAC
** * *
15086020 TATGTGCAGGCTATTATGTGTTTAAGATGGTTGTAGGTCACGTGTGTAGTACTAAGTACAGGCTA
1 TATGTGCAGGCTATTACATGTTTAAGATGGTTGTAGGTCACATGTGTAGTACTAAATACAGGCTA
* * * *
15086085 CTACGTGTACCAGATGGTTAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCCGAA
66 CTACGTGTACCAGATGGTTAGATCGCATGTGTAGTACTAAGTGCAGCCTACTATGCGTACCAGAA
* * *
15086150 ACCTTCGATCACATGTGTAATAC
131 ACCTTCGATCACAAGGGTAATAA
* *
15086173 TAAGTGCAGGCTATTACATGTATT-AGATGG-T-TAGGTCACATGTGTAGTACTAAATGCAGGCT
1 TATGTGCAGGCTATTACATGT-TTAAGATGGTTGTAGGTCACATGTGTAGTACTAAATACAGGCT
*
15086235 ACTACGTGTACCAGATTGTT-GATCGCATGTGTAGTACTAAGTGCAGCCTACTATGCGTACCAGA
65 ACTACGTGTACCAGATGGTTAGATCGCATGTGTAGTACTAAGTGCAGCCTACTATGCGTACCAGA
* * * **
15086299 TAGCTTC-AGTTACAAGGGTGGTAA
130 AACCTTCGA-TCACAAGGGTAATAA
15086323 TATGTGCAGGC
1 TATGTGCAGGC
15086334 AACCGTGTAT
Statistics
Matches: 139, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
149 1 0.01
150 64 0.46
151 47 0.34
152 1 0.01
153 24 0.17
154 2 0.01
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (153 bp):
TATGTGCAGGCTATTACATGTTTAAGATGGTTGTAGGTCACATGTGTAGTACTAAATACAGGCTA
CTACGTGTACCAGATGGTTAGATCGCATGTGTAGTACTAAGTGCAGCCTACTATGCGTACCAGAA
ACCTTCGATCACAAGGGTAATAA
Found at i:15090458 original size:49 final size:48
Alignment explanation
Indices: 15090305--15090461 Score: 158
Period size: 48 Copynumber: 3.2 Consensus size: 48
15090295 TCAAATGCCG
* * *
15090305 ATGCCATGTCCCAGACATGGTCTTACACTGGTTAGCATATTA--AAGTCA
1 ATGCCATGTCCCAGACA-GGTCTTACACTGGCTATCAT-TTATCAGGTCA
* * * * *
15090353 ATGTCGTGTCCCAGACAGGTCTTACACT-ACTTTCATTTATCGAGGCCA
1 ATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATTTATC-AGGTCA
* *
15090401 ATGCCATGTCCCAGACAGGTCTTACACTGGCTCTCATTTATCAGTGTCG
1 ATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATTTATCAG-GTCA
*
15090450 ATGTCATGTCCC
1 ATGCCATGTCCC
15090462 GGATAATTCT
Statistics
Matches: 89, Mismatches: 15, Indels: 9
0.79 0.13 0.08
Matches are distributed among these distances:
45 3 0.03
46 4 0.04
47 11 0.12
48 47 0.53
49 24 0.27
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.31
Consensus pattern (48 bp):
ATGCCATGTCCCAGACAGGTCTTACACTGGCTATCATTTATCAGGTCA
Found at i:15105996 original size:33 final size:33
Alignment explanation
Indices: 15105959--15106024 Score: 132
Period size: 33 Copynumber: 2.0 Consensus size: 33
15105949 CCTTGTCCAC
15105959 TCCTAATTTGATGTTGGTTCCCCATATAGTACA
1 TCCTAATTTGATGTTGGTTCCCCATATAGTACA
15105992 TCCTAATTTGATGTTGGTTCCCCATATAGTACA
1 TCCTAATTTGATGTTGGTTCCCCATATAGTACA
15106025 CTGACTCGGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 33 1.00
ACGTcount: A:0.24, C:0.21, G:0.15, T:0.39
Consensus pattern (33 bp):
TCCTAATTTGATGTTGGTTCCCCATATAGTACA
Found at i:15110721 original size:25 final size:25
Alignment explanation
Indices: 15110693--15110740 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
15110683 TCATGTAGTC
15110693 CACACG-GTCTACATGATTTCACATG
1 CACACGAG-CTACATGATTTCACATG
* *
15110718 CACACGAGCTGCATTATTTCACA
1 CACACGAGCTACATGATTTCACA
15110741 CGGCCGTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.27
Consensus pattern (25 bp):
CACACGAGCTACATGATTTCACATG
Found at i:15111705 original size:17 final size:17
Alignment explanation
Indices: 15111683--15111750 Score: 57
Period size: 17 Copynumber: 3.8 Consensus size: 17
15111673 TCTGTAAGTA
15111683 ATATCAAACAATTTCAT
1 ATATCAAACAATTTCAT
*
15111700 ATATCAATCAA-TTCAAT
1 ATATCAAACAATTTC-AT
* *
15111717 ACAATGACAAACAATTTCAC
1 A-TAT--CAAACAATTTCAT
*
15111737 ATATCAATCAATTT
1 ATATCAAACAATTT
15111751 AACATAACAA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
16 3 0.08
17 22 0.55
18 2 0.05
19 2 0.05
20 8 0.20
21 3 0.08
ACGTcount: A:0.47, C:0.19, G:0.01, T:0.32
Consensus pattern (17 bp):
ATATCAAACAATTTCAT
Found at i:15111755 original size:17 final size:17
Alignment explanation
Indices: 15111683--15111761 Score: 52
Period size: 17 Copynumber: 4.5 Consensus size: 17
15111673 TCTGTAAGTA
* *
15111683 ATATCAAACAATTTCAT
1 ATATCAAACAATTTAAC
* *
15111700 ATATCAATCAATTCAATAC
1 ATATCAAACAATT-TA-AC
*
15111719 A-ATGACAAACAATTTCAC
1 ATAT--CAAACAATTTAAC
*
15111737 ATATCAATCAATTTAAC
1 ATATCAAACAATTTAAC
*
15111754 ATAACAAA
1 ATATCAAA
15111762 TAGTCTTGCA
Statistics
Matches: 46, Mismatches: 11, Indels: 10
0.69 0.16 0.15
Matches are distributed among these distances:
17 29 0.63
18 5 0.11
19 4 0.09
20 8 0.17
ACGTcount: A:0.51, C:0.19, G:0.01, T:0.29
Consensus pattern (17 bp):
ATATCAAACAATTTAAC
Found at i:15112393 original size:15 final size:15
Alignment explanation
Indices: 15112373--15112401 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
15112363 ATGCAAATAC
15112373 AATGCAATCAATCAT
1 AATGCAATCAATCAT
15112388 AATGCAATCAATCA
1 AATGCAATCAATCA
15112402 ATATCATTAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.48, C:0.21, G:0.07, T:0.24
Consensus pattern (15 bp):
AATGCAATCAATCAT
Found at i:15112788 original size:28 final size:28
Alignment explanation
Indices: 15112748--15112906 Score: 126
Period size: 28 Copynumber: 5.6 Consensus size: 28
15112738 AATTTTTGTG
*
15112748 AAAAATAGTGGCAAAATTGTACAATCTT
1 AAAAATAGTGGCAAAATTGTAAAATCTT
* *
15112776 AAAAATAGTGGCAAAATTGTAAAATATA
1 AAAAATAGTGGCAAAATTGTAAAATCTT
* *** *
15112804 AAAAAAAGTGGTTGAATTG-AAAACTCTGG
1 AAAAATAGTGGCAAAATTGTAAAA-TCT-T
* *
15112833 AAAACTAGTGGCAAAACTGTAAAAT-TT
1 AAAAATAGTGGCAAAATTGTAAAATCTT
* *
15112860 AGAAAAATAGTGGCATAATTGAAAAATC-T
1 --AAAAATAGTGGCAAAATTGTAAAATCTT
*
15112889 AGAAATATAGGGGCAAAA
1 A-AAA-ATAGTGGCAAAA
15112907 CTATAAATTT
Statistics
Matches: 101, Mismatches: 22, Indels: 15
0.73 0.16 0.11
Matches are distributed among these distances:
27 5 0.05
28 46 0.46
29 46 0.46
30 4 0.04
ACGTcount: A:0.50, C:0.08, G:0.18, T:0.24
Consensus pattern (28 bp):
AAAAATAGTGGCAAAATTGTAAAATCTT
Found at i:15112864 original size:29 final size:28
Alignment explanation
Indices: 15112749--15112942 Score: 131
Period size: 29 Copynumber: 6.8 Consensus size: 28
15112739 ATTTTTGTGA
*
15112749 AAAATAGTGGCAAAATTGTACAATCTTA-
1 AAAATAGTGGCAAAATTGTAAAAT-TTAG
* *
15112777 AAAATAGTGGCAAAATTGTAAAATATAA
1 AAAATAGTGGCAAAATTGTAAAATTTAG
* *** * *
15112805 AAAAAAGTGGTTGAATTG-AAAACTCTGG
1 AAAATAGTGGCAAAATTGTAAAA-TTTAG
*
15112833 AAAACTAGTGGCAAAACTGTAAAATTTAG
1 AAAA-TAGTGGCAAAATTGTAAAATTTAG
* * *
15112862 AAAAATAGTGGCATAATTGAAAAATCTAG
1 -AAAATAGTGGCAAAATTGTAAAATTTAG
* * * * *
15112891 AAATATAGGGGCAAAACTATAAATTTCTGG
1 AAA-ATAGTGGCAAAATTGTAAAATT-TAG
* * *
15112921 AAAATAATGGCAGAACTGTAAA
1 AAAATAGTGGCAAAATTGTAAA
15112943 GCCTAGAAAA
Statistics
Matches: 127, Mismatches: 32, Indels: 13
0.74 0.19 0.08
Matches are distributed among these distances:
27 6 0.05
28 46 0.36
29 62 0.49
30 13 0.10
ACGTcount: A:0.49, C:0.08, G:0.18, T:0.25
Consensus pattern (28 bp):
AAAATAGTGGCAAAATTGTAAAATTTAG
Found at i:15112904 original size:58 final size:57
Alignment explanation
Indices: 15112747--15112913 Score: 178
Period size: 58 Copynumber: 2.9 Consensus size: 57
15112737 TAATTTTTGT
* * * *
15112747 GAAAAATAGTGGCAAAATTGTACAATCTTA-AAAATAGTGGCAAAATTGTAAAATATA
1 GAAAAATAGTGGCATAATTGAAAAATC-TAGAAAATAGTGGCAAAACTGTAAAATATA
* * * * *
15112804 -AAAAAAAGTGG-TTGAATTGAAAACTCTGGAAAACTAGTGGCAAAACTGTAAAATTTA
1 GAAAAATAGTGGCAT-AATTGAAAAATCTAGAAAA-TAGTGGCAAAACTGTAAAATATA
* *
15112861 GAAAAATAGTGGCATAATTGAAAAATCTAGAAATATAGGGGCAAAACTATAAA
1 GAAAAATAGTGGCATAATTGAAAAATCTAGAAA-ATAGTGGCAAAACTGTAAA
15112914 TTTCTGGAAA
Statistics
Matches: 89, Mismatches: 15, Indels: 11
0.77 0.13 0.10
Matches are distributed among these distances:
55 1 0.01
56 23 0.26
57 21 0.24
58 42 0.47
59 2 0.02
ACGTcount: A:0.50, C:0.08, G:0.18, T:0.24
Consensus pattern (57 bp):
GAAAAATAGTGGCATAATTGAAAAATCTAGAAAATAGTGGCAAAACTGTAAAATATA
Found at i:15118176 original size:20 final size:22
Alignment explanation
Indices: 15118131--15118181 Score: 56
Period size: 20 Copynumber: 2.5 Consensus size: 22
15118121 AAACAGCCCT
15118131 TGGTATCGATATTTCTATAAAA
1 TGGTATCGATATTTCTATAAAA
*
15118153 --GTATCGATGTTT-T-TAAAA
1 TGGTATCGATATTTCTATAAAA
*
15118171 TGGTATTGATA
1 TGGTATCGATA
15118182 CCAATTTGTG
Statistics
Matches: 24, Mismatches: 3, Indels: 6
0.73 0.09 0.18
Matches are distributed among these distances:
18 5 0.21
19 1 0.04
20 18 0.75
ACGTcount: A:0.33, C:0.06, G:0.18, T:0.43
Consensus pattern (22 bp):
TGGTATCGATATTTCTATAAAA
Found at i:15124311 original size:20 final size:20
Alignment explanation
Indices: 15124257--15124326 Score: 54
Period size: 20 Copynumber: 3.5 Consensus size: 20
15124247 GACTTGTTTG
*
15124257 AAAATCATTTTGA-TGT-CTT
1 AAAATCATTTTGACT-TAATT
* * *
15124276 AAAATGAATTTAACTTAATT
1 AAAATCATTTTGACTTAATT
* **
15124296 GAAATCATTTTGACTTGGTT
1 AAAATCATTTTGACTTAATT
15124316 AAAATCATTTT
1 AAAATCATTTT
15124327 CACTCGATTT
Statistics
Matches: 38, Mismatches: 11, Indels: 3
0.73 0.21 0.06
Matches are distributed among these distances:
19 11 0.29
20 27 0.71
ACGTcount: A:0.37, C:0.09, G:0.10, T:0.44
Consensus pattern (20 bp):
AAAATCATTTTGACTTAATT
Found at i:15126486 original size:13 final size:13
Alignment explanation
Indices: 15126468--15126495 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15126458 GTAATGGTTT
15126468 AGACATTAATTAG
1 AGACATTAATTAG
15126481 AGACATTAATTAG
1 AGACATTAATTAG
15126494 AG
1 AG
15126496 GAATAATTTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.46, C:0.07, G:0.18, T:0.29
Consensus pattern (13 bp):
AGACATTAATTAG
Found at i:15128092 original size:13 final size:13
Alignment explanation
Indices: 15128074--15128100 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
15128064 TGCAGAGCAC
15128074 ACACGGCCGAATA
1 ACACGGCCGAATA
15128087 ACACGGCCGAATA
1 ACACGGCCGAATA
15128100 A
1 A
15128101 TAGCTCGTAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.41, C:0.30, G:0.22, T:0.07
Consensus pattern (13 bp):
ACACGGCCGAATA
Found at i:15128967 original size:49 final size:49
Alignment explanation
Indices: 15128914--15129023 Score: 150
Period size: 49 Copynumber: 2.2 Consensus size: 49
15128904 TCTCAAACAT
* *
15128914 GGTCTTACACTGGCTTTCATATAGTGAG-GCCGATGCCATGTCCCAGACA
1 GGTCTTACACTGGCTCTCATATA-TCAGTGCCGATGCCATGTCCCAGACA
* * *
15128963 GGTCTTACACTAGCTCTCATCTATCAGTGTCGATGCCATGTCCCAGACA
1 GGTCTTACACTGGCTCTCATATATCAGTGCCGATGCCATGTCCCAGACA
*
15129012 AGTCTTACACTG
1 GGTCTTACACTG
15129024 ACACACAACA
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
48 3 0.06
49 50 0.94
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.28
Consensus pattern (49 bp):
GGTCTTACACTGGCTCTCATATATCAGTGCCGATGCCATGTCCCAGACA
Found at i:15129118 original size:48 final size:46
Alignment explanation
Indices: 15129043--15129163 Score: 143
Period size: 46 Copynumber: 2.6 Consensus size: 46
15129033 AAGCTGACGC
* * *
15129043 CATGTCCCAGACAAGTCTTACACTAGCTTGTCTATCTCGAGGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGC-TCT-TATCTCAAGGCCAATG
* * * *
15129091 CATGTCCCAGACATGCCTTACATTAGCTCTTGTCTCAATGCCAATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTTATCTCAAGGCCAATG
* *
15129137 CATGTCCTAGACATGTCTTATACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
15129164 ACACATATCT
Statistics
Matches: 62, Mismatches: 11, Indels: 2
0.83 0.15 0.03
Matches are distributed among these distances:
46 36 0.58
47 2 0.03
48 24 0.39
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.30
Consensus pattern (46 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTTATCTCAAGGCCAATG
Found at i:15134383 original size:31 final size:31
Alignment explanation
Indices: 15134348--15134410 Score: 117
Period size: 31 Copynumber: 2.0 Consensus size: 31
15134338 AATAATGTTT
15134348 CACATGACATTGATAACATAGGTTATCTTTA
1 CACATGACATTGATAACATAGGTTATCTTTA
*
15134379 CACATGACATTGATAATATAGGTTATCTTTA
1 CACATGACATTGATAACATAGGTTATCTTTA
15134410 C
1 C
15134411 CCTTTAAAGA
Statistics
Matches: 31, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 31 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.37
Consensus pattern (31 bp):
CACATGACATTGATAACATAGGTTATCTTTA
Found at i:15135492 original size:13 final size:13
Alignment explanation
Indices: 15135474--15135510 Score: 56
Period size: 13 Copynumber: 2.8 Consensus size: 13
15135464 CTCTGCCAAT
15135474 AATAATTTTTTAA
1 AATAATTTTTTAA
*
15135487 AATAATTTTATAA
1 AATAATTTTTTAA
15135500 ATATAATTTTT
1 A-ATAATTTTT
15135511 AATAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (13 bp):
AATAATTTTTTAA
Found at i:15135646 original size:3 final size:3
Alignment explanation
Indices: 15135638--15135670 Score: 66
Period size: 3 Copynumber: 11.0 Consensus size: 3
15135628 AATCGGACAT
15135638 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
15135671 ATTCTATATA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:15136796 original size:20 final size:21
Alignment explanation
Indices: 15136766--15136807 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 21
15136756 AAAATTCAAA
*
15136766 AAAATTATAAAAACTATTTTT
1 AAAATTATAAAAAATATTTTT
15136787 AAAATT-TAAAAAATATTTTT
1 AAAATTATAAAAAATATTTTT
15136807 A
1 A
15136808 TAAGTTTAGG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
20 14 0.70
21 6 0.30
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
AAAATTATAAAAAATATTTTT
Found at i:15137824 original size:270 final size:272
Alignment explanation
Indices: 15137334--15137877 Score: 959
Period size: 270 Copynumber: 2.0 Consensus size: 272
15137324 TGCCAGGGAA
*
15137334 GTAGTTGTTTGAGGTATATCATCGTTTATACAAACGATAGAACAGTTCAAAGACATAACATCTAC
1 GTAGTTGTTTGAGGTATATCATCGTTTATACAAACGACAGAACAGTTCAAAGACATAACATCTAC
15137399 TAGTCAGCTAGTAAAGTAAATATATTTTCACAAAGGGAAGGTTCAAGGGTGGATGCTTAACTATT
66 TAGTCAGCTAGTAAAGTAAATATATTTTCACAAAGGGAAGGTTCAAGGGTGGATGCTTAACTATT
* *
15137464 CTATATAACTATCGATCATAGATTCTATCACCACATCGAGTTAATGTTTTTCCGTTAAAACTATC
131 CTATACAACTATCGATCATAGATTCTATCACCACATCAAGTTAATGTTTTTCCGTTAAAACTATC
*
15137529 AATTTTCATTCATGCGAGAGATTGTTGGAAAAATTGTAATTTTTGGAAACTTTAAGGCATATTCT
196 AATTTTCATTCATGAGAGAGATTGTTGGAAAAATTGTAATTTTTGGAAACTTTAAGGCATATTCT
*
15137594 CGATTGGTAAAG
261 CGATTAGTAAAG
*
15137606 GTAGTTGTTTGAGGTATATCATCGTTTATACAAACGACAGAACAG-TCAAAGACATCACATCTAC
1 GTAGTTGTTTGAGGTATATCATCGTTTATACAAACGACAGAACAGTTCAAAGACATAACATCTAC
* * *
15137670 TAGTTAGCTAGTAAAGTAAATATTTTTTCAC-AATGGAAGGTTCAAGGGTGGATGCTTAACTATT
66 TAGTCAGCTAGTAAAGTAAATATATTTTCACAAAGGGAAGGTTCAAGGGTGGATGCTTAACTATT
*
15137734 CTATACAACTATCGATCATAGATTCTATCACCACATCAAGTTAATGTTTTTTCGTTAAAACTATC
131 CTATACAACTATCGATCATAGATTCTATCACCACATCAAGTTAATGTTTTTCCGTTAAAACTATC
*
15137799 AATTTTCATTCATGTAG-GGGATTGTTGGAAAAATTGTAATTTTTGGAAACTTTAAGGCATATTC
196 AATTTTCATTCATG-AGAGAGATTGTTGGAAAAATTGTAATTTTTGGAAACTTTAAGGCATATTC
15137863 TCGATTAGTAAAG
260 TCGATTAGTAAAG
15137876 GT
1 GT
15137878 GGAGAGTTGA
Statistics
Matches: 260, Mismatches: 11, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
270 168 0.65
271 48 0.18
272 44 0.17
ACGTcount: A:0.34, C:0.14, G:0.17, T:0.35
Consensus pattern (272 bp):
GTAGTTGTTTGAGGTATATCATCGTTTATACAAACGACAGAACAGTTCAAAGACATAACATCTAC
TAGTCAGCTAGTAAAGTAAATATATTTTCACAAAGGGAAGGTTCAAGGGTGGATGCTTAACTATT
CTATACAACTATCGATCATAGATTCTATCACCACATCAAGTTAATGTTTTTCCGTTAAAACTATC
AATTTTCATTCATGAGAGAGATTGTTGGAAAAATTGTAATTTTTGGAAACTTTAAGGCATATTCT
CGATTAGTAAAG
Found at i:15139613 original size:41 final size:41
Alignment explanation
Indices: 15139556--15139634 Score: 158
Period size: 41 Copynumber: 1.9 Consensus size: 41
15139546 TGGAGGTTTG
15139556 GTCCTTGAGAATGGAGTACATCTTAAGGTCAGTTGTTTTTT
1 GTCCTTGAGAATGGAGTACATCTTAAGGTCAGTTGTTTTTT
15139597 GTCCTTGAGAATGGAGTACATCTTAAGGTCAGTTGTTT
1 GTCCTTGAGAATGGAGTACATCTTAAGGTCAGTTGTTT
15139635 CCCTTTTTAG
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.23, C:0.13, G:0.25, T:0.39
Consensus pattern (41 bp):
GTCCTTGAGAATGGAGTACATCTTAAGGTCAGTTGTTTTTT
Found at i:15150432 original size:17 final size:18
Alignment explanation
Indices: 15150399--15150432 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15150389 TTTATGAAAT
15150399 TATAGGTTGTCCGGTTAC
1 TATAGGTTGTCCGGTTAC
*
15150417 TATATGTTGT-CGGTTA
1 TATAGGTTGTCCGGTTA
15150433 GTTTAGGTTC
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.18, C:0.12, G:0.26, T:0.44
Consensus pattern (18 bp):
TATAGGTTGTCCGGTTAC
Found at i:15155073 original size:25 final size:25
Alignment explanation
Indices: 15155030--15155090 Score: 86
Period size: 25 Copynumber: 2.4 Consensus size: 25
15155020 AATATTAAAT
*
15155030 TATAATAAAATTATAATTTAAAAGAA
1 TATAAT-AAGTTATAATTTAAAAGAA
* *
15155056 TATAATAAGTTATAATTTAGAAGAT
1 TATAATAAGTTATAATTTAAAAGAA
15155081 TATAATAAGT
1 TATAATAAGT
15155091 ATTATATCAT
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
25 26 0.81
26 6 0.19
ACGTcount: A:0.54, C:0.00, G:0.08, T:0.38
Consensus pattern (25 bp):
TATAATAAGTTATAATTTAAAAGAA
Found at i:15163926 original size:27 final size:27
Alignment explanation
Indices: 15163888--15163941 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
15163878 GAAAGAAAAG
15163888 TATCTTTGTTTGGGTATTTCATTCTAA
1 TATCTTTGTTTGGGTATTTCATTCTAA
15163915 TATCTTTGTTTGGGTATTTCATTCTAA
1 TATCTTTGTTTGGGTATTTCATTCTAA
15163942 CTTCTAGTAC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.19, C:0.11, G:0.15, T:0.56
Consensus pattern (27 bp):
TATCTTTGTTTGGGTATTTCATTCTAA
Found at i:15166746 original size:24 final size:22
Alignment explanation
Indices: 15166687--15166730 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
15166677 CCCTTTTTAA
*
15166687 AAACCCTAAACCTAAAAATATT
1 AAACCCTAAATCTAAAAATATT
15166709 AAACCCTAAATCTAAAAATATT
1 AAACCCTAAATCTAAAAATATT
15166731 TAAAATCCTA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.55, C:0.20, G:0.00, T:0.25
Consensus pattern (22 bp):
AAACCCTAAATCTAAAAATATT
Found at i:15170691 original size:25 final size:25
Alignment explanation
Indices: 15170663--15170724 Score: 63
Period size: 26 Copynumber: 2.4 Consensus size: 25
15170653 TTTTCAAAAT
*
15170663 AAAATTATAATTTAAAATAT-TTATA
1 AAAATTATAATTTAAAAT-TGTTAAA
* * *
15170688 AAAATTCTAAATTTTATATTGTTAAA
1 AAAATTAT-AATTTAAAATTGTTAAA
15170714 AAAATTATAAT
1 AAAATTATAAT
15170725 AATTTTATAA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
25 11 0.37
26 19 0.63
ACGTcount: A:0.53, C:0.02, G:0.02, T:0.44
Consensus pattern (25 bp):
AAAATTATAATTTAAAATTGTTAAA
Found at i:15170979 original size:14 final size:14
Alignment explanation
Indices: 15170960--15170986 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
15170950 ACTTTTTTTT
15170960 TAATTTTACTCGAA
1 TAATTTTACTCGAA
15170974 TAATTTTACTCGA
1 TAATTTTACTCGA
15170987 TTAGATTAGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.44
Consensus pattern (14 bp):
TAATTTTACTCGAA
Found at i:15171342 original size:55 final size:55
Alignment explanation
Indices: 15171281--15171404 Score: 135
Period size: 54 Copynumber: 2.3 Consensus size: 55
15171271 ATTAACACTT
* *
15171281 TAATGTTTTTAATAATTATCATATATTACGAATTACTCAAATTTTT-AAAAAATTTC
1 TAATGTTTTAAATAATT-TCATATATTACAAATTACT-AAATTTTTCAAAAAATTTC
* * * * * *
15171337 -AATGTTTTGAGTAATTTTATGTATTATAAATTACTAAATTTTTCAAAACATTTC
1 TAATGTTTTAAATAATTTCATATATTACAAATTACTAAATTTTTCAAAAAATTTC
*
15171391 TCATGTTTTAAATA
1 TAATGTTTTAAATA
15171405 TTGATTTCAT
Statistics
Matches: 56, Mismatches: 10, Indels: 5
0.79 0.14 0.07
Matches are distributed among these distances:
53 8 0.14
54 24 0.43
55 24 0.43
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.48
Consensus pattern (55 bp):
TAATGTTTTAAATAATTTCATATATTACAAATTACTAAATTTTTCAAAAAATTTC
Found at i:15171500 original size:137 final size:137
Alignment explanation
Indices: 15171322--15171598 Score: 482
Period size: 137 Copynumber: 2.0 Consensus size: 137
15171312 ATTACTCAAA
* * *
15171322 TTTTTAAAAAATTTCAATGTTTTGAGTAATTTTATGTATTATAAATTACTAAATTTTTCAAAACA
1 TTTTTAAAAAATTTCAATGTTTTGAGTAAATTTATGCATTATAAATTACTAAATTTTTCAAAAAA
* *
15171387 TTTCTCATGTTTTAAATATTGATTTCATTGTTGACTGAATCTTAGCTCAGCCAGTATAAACATTA
66 TTTCTCATGTTTTAAATATTGATTTCATTGTTGACTCAATCTTAACTCAGCCAGTATAAACATTA
15171452 TTGCTAG
131 TTGCTAG
*
15171459 TTTTTTAAAAATTTCAATGTTTTGAGTAAATTTATGCATTATAAATTACTAAATTTTTCAAAAAA
1 TTTTTAAAAAATTTCAATGTTTTGAGTAAATTTATGCATTATAAATTACTAAATTTTTCAAAAAA
* *
15171524 TTTCTCATGTTTTAAATATTGATTTCATTGTTGACTCAATCTTAACTTAGCCGGTATAAACATTA
66 TTTCTCATGTTTTAAATATTGATTTCATTGTTGACTCAATCTTAACTCAGCCAGTATAAACATTA
15171589 TTGCTAG
131 TTGCTAG
15171596 TTT
1 TTT
15171599 AACATTTTTT
Statistics
Matches: 132, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
137 132 1.00
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.46
Consensus pattern (137 bp):
TTTTTAAAAAATTTCAATGTTTTGAGTAAATTTATGCATTATAAATTACTAAATTTTTCAAAAAA
TTTCTCATGTTTTAAATATTGATTTCATTGTTGACTCAATCTTAACTCAGCCAGTATAAACATTA
TTGCTAG
Found at i:15178417 original size:42 final size:43
Alignment explanation
Indices: 15178370--15178476 Score: 144
Period size: 43 Copynumber: 2.5 Consensus size: 43
15178360 GATTAACGAG
*
15178370 ATGTGACTATGTGTAAGACCATG-TCAGGACATTGGCATCATT
1 ATGTGATTATGTGTAAGACCATGTTCAGGACATTGGCATCATT
* ** *
15178412 ATGTGATTACGTGTAAGACCATGTTTGGGACATTGGCATCGTT
1 ATGTGATTATGTGTAAGACCATGTTCAGGACATTGGCATCATT
* *
15178455 ATTTGATTTTGTGTAAGACCAT
1 ATGTGATTATGTGTAAGACCAT
15178477 AGCTGGGCTA
Statistics
Matches: 56, Mismatches: 8, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 21 0.38
43 35 0.62
ACGTcount: A:0.26, C:0.14, G:0.24, T:0.36
Consensus pattern (43 bp):
ATGTGATTATGTGTAAGACCATGTTCAGGACATTGGCATCATT
Found at i:15178493 original size:43 final size:43
Alignment explanation
Indices: 15178380--15178524 Score: 125
Period size: 43 Copynumber: 3.4 Consensus size: 43
15178370 ATGTGACTAT
* * * *
15178380 GTGTAAGACCATGTC-AGGACATTGGCATCATTATGTGATTAC
1 GTGTAAGACCATGTCTGGGACATCGGCATCGTTATATGATTAC
* * * **
15178422 GTGTAAGACCATGTTTGGGACATTGGCATCGTTATTTGATTTT
1 GTGTAAGACCATGTCTGGGACATCGGCATCGTTATATGATTAC
* *
15178465 GTGTAAGACCATAG-CTGGG-CTATCGGCATCGATATATGATAAC
1 GTGTAAGACCAT-GTCTGGGAC-ATCGGCATCGTTATATGATTAC
* * *
15178508 ATGTAATACCATATCTG
1 GTGTAAGACCATGTCTG
15178525 AGATATGACA
Statistics
Matches: 83, Mismatches: 16, Indels: 7
0.78 0.15 0.07
Matches are distributed among these distances:
42 15 0.18
43 67 0.81
44 1 0.01
ACGTcount: A:0.28, C:0.16, G:0.23, T:0.33
Consensus pattern (43 bp):
GTGTAAGACCATGTCTGGGACATCGGCATCGTTATATGATTAC
Found at i:15187017 original size:47 final size:47
Alignment explanation
Indices: 15186898--15187075 Score: 164
Period size: 47 Copynumber: 3.8 Consensus size: 47
15186888 ATAATCTCAC
* * ** * *
15186898 CCATAATAAACTCGGAATGCAACTCAACGAGCTCGGGTG-TTCGCAT
1 CCATAATGAACTCGAAACACAACTCAACGAGTTCGGATGCTTCGCAT
*
15186944 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTC-CAT
1 CCATAATGAACTCGAAACACAACTCAACGAGTTCGGATGCTTCGCAT
* * * **
15186990 CCATAGGTGAACTCGAAACACAACTCAACGAGTTCGAATGCCTCATAAT
1 CCATA-ATGAACTCGAAACACAACTCAACGAGTTCGGATGCTTC-GCAT
* * * * *
15187039 TC-TCACGAACTCGGACCACAACTCAACGAGTTCGGAT
1 CCATAATGAACTCGAAACACAACTCAACGAGTTCGGAT
15187076 CTCAATTTCC
Statistics
Matches: 111, Mismatches: 17, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
46 42 0.38
47 65 0.59
48 1 0.01
49 3 0.03
ACGTcount: A:0.33, C:0.28, G:0.19, T:0.21
Consensus pattern (47 bp):
CCATAATGAACTCGAAACACAACTCAACGAGTTCGGATGCTTCGCAT
Found at i:15202794 original size:17 final size:16
Alignment explanation
Indices: 15202755--15202787 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
15202745 TTAGACACAC
15202755 AATTTAAAAAAATAAA
1 AATTTAAAAAAATAAA
15202771 AATTTAAAAAAATAAA
1 AATTTAAAAAAATAAA
15202787 A
1 A
15202788 GTATTAACTA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (16 bp):
AATTTAAAAAAATAAA
Found at i:15204806 original size:5 final size:5
Alignment explanation
Indices: 15204796--15204830 Score: 70
Period size: 5 Copynumber: 7.0 Consensus size: 5
15204786 AATAATTAAG
15204796 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT
15204831 ATAAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 30 1.00
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (5 bp):
TATAT
Found at i:15205656 original size:40 final size:40
Alignment explanation
Indices: 15205609--15205689 Score: 108
Period size: 40 Copynumber: 2.0 Consensus size: 40
15205599 AATTATGGGA
* ** *
15205609 TACTGAATATTGTTTTGAATACTGAATTGAACTGTGAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
* *
15205649 TACTGAATAATGTTACGTATACTGCATTGAACTGTAAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
15205689 T
1 T
15205690 TCTAATGAAG
Statistics
Matches: 35, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.36, C:0.10, G:0.16, T:0.38
Consensus pattern (40 bp):
TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
Found at i:15205952 original size:45 final size:45
Alignment explanation
Indices: 15205902--15206008 Score: 162
Period size: 45 Copynumber: 2.4 Consensus size: 45
15205892 CGACTACTGT
* *
15205902 TACTGTTACCGTTACTGTTATC-GATTCGACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTA-CAAATTCAACACTTTGTGTGTCGAA
*
15205947 TACTGTTACCGTTACTGTTACAAATTCAACACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAAATTCAACACTTTGTGTGTCGAA
*
15205992 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
15206009 CTACTGCAAC
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
44 1 0.02
45 56 0.98
ACGTcount: A:0.22, C:0.19, G:0.18, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAAATTCAACACTTTGTGTGTCGAA
Found at i:15205954 original size:51 final size:51
Alignment explanation
Indices: 15205879--15206006 Score: 137
Period size: 45 Copynumber: 2.6 Consensus size: 51
15205869 TTACTGATCA
* * * *
15205879 GACAC-TTATGTGCCGACTACTGTTACTGTTACCGTTACTGTTATC-GATTC
1 GACACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTA-CAAATTC
15205929 GACACTTTGTGTGTCG-A-A----TACTGTTACCGTTACTGTTACAAATTC
1 GACACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTACAAATTC
* *
15205974 AACACTTTGTGTGTTGAATACTGTTACTGTTAC
1 GACACTTTGTGTGTCGAATACTGTTACTGTTAC
15206007 TGCTACTGCA
Statistics
Matches: 64, Mismatches: 6, Indels: 15
0.75 0.07 0.18
Matches are distributed among these distances:
44 1 0.02
45 38 0.59
46 1 0.02
47 1 0.02
49 1 0.02
50 5 0.08
51 17 0.27
ACGTcount: A:0.23, C:0.20, G:0.18, T:0.39
Consensus pattern (51 bp):
GACACTTTGTGTGTCGAATACTGTTACTGTTACCGTTACTGTTACAAATTC
Found at i:15210270 original size:46 final size:46
Alignment explanation
Indices: 15210220--15210395 Score: 216
Period size: 46 Copynumber: 3.8 Consensus size: 46
15210210 TGATTGAGCA
15210220 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
15210266 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--G
*
15210311 CATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
* * *
15210359 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
15210396 GCGGGTTACA
Statistics
Matches: 111, Mismatches: 10, Indels: 18
0.80 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 5 0.05
45 3 0.03
46 63 0.57
47 29 0.26
48 3 0.03
50 4 0.04
51 2 0.02
ACGTcount: A:0.20, C:0.21, G:0.30, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
Found at i:15210376 original size:93 final size:93
Alignment explanation
Indices: 15210217--15210388 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
15210207 GGATGATTGA
* *
15210217 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
15210282 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
*
15210310 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
15210375 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
15210389 CTTATGGGCG
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.21, C:0.22, G:0.30, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:15211975 original size:16 final size:16
Alignment explanation
Indices: 15211954--15211987 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
15211944 CCATGTATTG
15211954 ATGATTTATTTGATCA
1 ATGATTTATTTGATCA
15211970 ATGATTTATTTGATCA
1 ATGATTTATTTGATCA
15211986 AT
1 AT
15211988 TGAAATGAGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.32, C:0.06, G:0.12, T:0.50
Consensus pattern (16 bp):
ATGATTTATTTGATCA
Found at i:15214343 original size:5 final size:5
Alignment explanation
Indices: 15214333--15214388 Score: 112
Period size: 5 Copynumber: 11.2 Consensus size: 5
15214323 TTAAGTATAT
15214333 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA TATTA
15214383 TATTA T
1 TATTA T
15214389 TATATATAAA
Statistics
Matches: 51, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 51 1.00
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (5 bp):
TATTA
Found at i:15214473 original size:41 final size:41
Alignment explanation
Indices: 15214416--15214503 Score: 167
Period size: 41 Copynumber: 2.1 Consensus size: 41
15214406 AATGAGTTAA
15214416 AAGAAACATAAATGAAAACGAAAACAGAGAAGAAACAAGGG
1 AAGAAACATAAATGAAAACGAAAACAGAGAAGAAACAAGGG
15214457 AAGAAACATAAATGAAAACGAAAACAGAGAAGAAACAAGGG
1 AAGAAACATAAATGAAAACGAAAACAGAGAAGAAACAAGGG
*
15214498 GAGAAA
1 AAGAAA
15214504 GAAGAAAGGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 46 1.00
ACGTcount: A:0.64, C:0.09, G:0.23, T:0.05
Consensus pattern (41 bp):
AAGAAACATAAATGAAAACGAAAACAGAGAAGAAACAAGGG
Found at i:15215274 original size:40 final size:40
Alignment explanation
Indices: 15215212--15215300 Score: 108
Period size: 40 Copynumber: 2.2 Consensus size: 40
15215202 AATTATGGGA
* ** *
15215212 TACTGAATATTGTTTTGAATACTGAATTGAACTGTGAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
* *
15215252 TACTGAATAATGTTACGTATACTGTATTGAACTGTAAAAT
1 TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
*
15215292 TTCT-AATAA
1 TACTGAATAA
15215301 AGTGAATTAC
Statistics
Matches: 42, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
39 5 0.12
40 37 0.88
ACGTcount: A:0.37, C:0.09, G:0.15, T:0.39
Consensus pattern (40 bp):
TACTGAATAATGTTACGAATACTGAATTGAACTGTAAAAT
Found at i:15215520 original size:12 final size:12
Alignment explanation
Indices: 15215503--15215527 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
15215493 GCCGACTCCT
15215503 GTTACTGTTACC
1 GTTACTGTTACC
15215515 GTTACTGTTACC
1 GTTACTGTTACC
15215527 G
1 G
15215528 ATTTGACACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.16, C:0.24, G:0.20, T:0.40
Consensus pattern (12 bp):
GTTACTGTTACC
Found at i:15215555 original size:45 final size:45
Alignment explanation
Indices: 15215505--15215611 Score: 153
Period size: 45 Copynumber: 2.4 Consensus size: 45
15215495 CGACTCCTGT
* *
15215505 TACTGTTACCGTTACTGTTACCGATT-TGACACTTTGTGTGTCGAA
1 TACTGTTACCGTTACTGTTACAGATTCAG-CACTTTGTGTGTCGAA
* *
15215550 TACTGTTACCGTTACTATTACAGATTCAGCACTTTGTGTGTTGAA
1 TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
*
15215595 TACTGTTACTGTTACTG
1 TACTGTTACCGTTACTG
15215612 CTACTGCTAC
Statistics
Matches: 55, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
45 54 0.98
46 1 0.02
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (45 bp):
TACTGTTACCGTTACTGTTACAGATTCAGCACTTTGTGTGTCGAA
Found at i:15215626 original size:18 final size:18
Alignment explanation
Indices: 15215595--15215629 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
15215585 GTGTGTTGAA
* *
15215595 TACTGTTACTGTTACTGC
1 TACTGCTACCGTTACTGC
15215613 TACTGCTACCGTTACTG
1 TACTGCTACCGTTACTG
15215630 ATTGCTGATT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.17, C:0.26, G:0.17, T:0.40
Consensus pattern (18 bp):
TACTGCTACCGTTACTGC
Found at i:15224759 original size:12 final size:13
Alignment explanation
Indices: 15224742--15224783 Score: 52
Period size: 12 Copynumber: 3.3 Consensus size: 13
15224732 AGTATACTCA
15224742 TTTTTACATTTT-
1 TTTTTACATTTTC
*
15224754 TTTTTAAATTTTC
1 TTTTTACATTTTC
15224767 TTTTTAC-TTTTAC
1 TTTTTACATTTT-C
15224780 TTTT
1 TTTT
15224784 ACTTAAAAGT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 15 0.58
13 11 0.42
ACGTcount: A:0.17, C:0.10, G:0.00, T:0.74
Consensus pattern (13 bp):
TTTTTACATTTTC
Found at i:15226050 original size:20 final size:22
Alignment explanation
Indices: 15226025--15226067 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
15226015 TCAATGCCTC
*
15226025 AAAAAGA-GT-ATTTGAGGAAG
1 AAAAAGATGTCATTCGAGGAAG
15226045 AAAAAGATGTCATTCGAGGAAG
1 AAAAAGATGTCATTCGAGGAAG
15226067 A
1 A
15226068 GGTTGGGATA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 2 0.10
22 11 0.55
ACGTcount: A:0.49, C:0.05, G:0.28, T:0.19
Consensus pattern (22 bp):
AAAAAGATGTCATTCGAGGAAG
Found at i:15232236 original size:3 final size:3
Alignment explanation
Indices: 15232228--15232265 Score: 67
Period size: 3 Copynumber: 12.7 Consensus size: 3
15232218 ACGAATCATT
*
15232228 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC CTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
15232266 GTAGAAAGCA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (3 bp):
TTC
Found at i:15241443 original size:20 final size:20
Alignment explanation
Indices: 15241398--15241446 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 20
15241388 GGCATCATAG
*
15241398 ATGCATAACAGGGGCACCGAA
1 ATGCA-AACAGGGGCACCAAA
*
15241419 GTGCAAACAGGGGCA-CAAA
1 ATGCAAACAGGGGCACCAAA
15241438 TATGCAAAC
1 -ATGCAAAC
15241447 GAAGACACCG
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
19 3 0.12
20 17 0.71
21 4 0.17
ACGTcount: A:0.41, C:0.22, G:0.27, T:0.10
Consensus pattern (20 bp):
ATGCAAACAGGGGCACCAAA
Found at i:15245160 original size:12 final size:12
Alignment explanation
Indices: 15245143--15245168 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
15245133 TGGCTATCCC
15245143 TAATATAATTGA
1 TAATATAATTGA
15245155 TAATATAATTGA
1 TAATATAATTGA
15245167 TA
1 TA
15245169 GAAGGAAAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (12 bp):
TAATATAATTGA
Found at i:15249942 original size:17 final size:17
Alignment explanation
Indices: 15249920--15249952 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
15249910 CTTTGGTGTC
15249920 TTTTTACTTCAACTAAA
1 TTTTTACTTCAACTAAA
15249937 TTTTTACTTCAACTAA
1 TTTTTACTTCAACTAA
15249953 TCTATTTAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.18, G:0.00, T:0.48
Consensus pattern (17 bp):
TTTTTACTTCAACTAAA
Found at i:15252993 original size:108 final size:110
Alignment explanation
Indices: 15252836--15253055 Score: 358
Period size: 108 Copynumber: 2.0 Consensus size: 110
15252826 CGTAATATGA
*
15252836 CAATTTTGATAAAGGGAAAAAATATATAAATTTAGTAAACATTACATTAAAAAAATATAAATATT
1 CAATTTTGATAAAGGG-AAAAATATATAAATTTA-TAAACATTAAATTAAAAAAATATAAATA-T
15252901 TTTTC-AAAAAATAAAAAAATAAAATGGGTAGACTT-AAATGGGTTTG
63 TTTTCAAAAAAATAAAAAAATAAAATGGGTAGACTTAAAATGGGTTTG
15252947 CAATTTTGATAAAAGGG-AAAATATATAAATTT-TAAACATTAAATTAAAAAAATATAAATATTT
1 CAATTTTGAT-AAAGGGAAAAATATATAAATTTATAAACATTAAATTAAAAAAATATAAATATTT
*
15253010 TTCAAAAAAATGAAAAAATAAAATGGGTAGACTTAAAATGGGTTTG
65 TTCAAAAAAATAAAAAAATAAAATGGGTAGACTTAAAATGGGTTTG
15253056 GGCTAAACAT
Statistics
Matches: 104, Mismatches: 2, Indels: 8
0.91 0.02 0.07
Matches are distributed among these distances:
107 6 0.06
108 56 0.54
109 11 0.11
110 15 0.14
111 10 0.10
112 6 0.06
ACGTcount: A:0.53, C:0.04, G:0.12, T:0.31
Consensus pattern (110 bp):
CAATTTTGATAAAGGGAAAAATATATAAATTTATAAACATTAAATTAAAAAAATATAAATATTTT
TCAAAAAAATAAAAAAATAAAATGGGTAGACTTAAAATGGGTTTG
Found at i:15254328 original size:14 final size:15
Alignment explanation
Indices: 15254300--15254329 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
15254290 ATACTAAAAT
15254300 CGAGTATAGACACTC
1 CGAGTATAGACACTC
15254315 CGAGTATA-ACACTC
1 CGAGTATAGACACTC
15254329 C
1 C
15254330 AAACCCGACC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.33, C:0.30, G:0.17, T:0.20
Consensus pattern (15 bp):
CGAGTATAGACACTC
Found at i:15259682 original size:15 final size:15
Alignment explanation
Indices: 15259662--15259691 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
15259652 TTTTCTCTAT
15259662 TTTTCTTCTTCTTCG
1 TTTTCTTCTTCTTCG
*
15259677 TTTTCTTCTTTTTCG
1 TTTTCTTCTTCTTCG
15259692 ATTAGTTGTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.00, C:0.23, G:0.07, T:0.70
Consensus pattern (15 bp):
TTTTCTTCTTCTTCG
Found at i:15260702 original size:40 final size:40
Alignment explanation
Indices: 15260637--15260716 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
15260627 GACGCAGTAC
* * *
15260637 TTTATGGTGTGTAGGGTTGGATGGGTCTATTATATCCCCA
1 TTTATGGTGTGCAGGGATGGATGGGTCGATTATATCCCCA
* *
15260677 TTTATGGTGTGCAGGGATGGGTGGGTCGATTTTATCCCCA
1 TTTATGGTGTGCAGGGATGGATGGGTCGATTATATCCCCA
15260717 CATGGTGTGT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 35 1.00
ACGTcount: A:0.16, C:0.14, G:0.33, T:0.38
Consensus pattern (40 bp):
TTTATGGTGTGCAGGGATGGATGGGTCGATTATATCCCCA
Found at i:15267396 original size:27 final size:27
Alignment explanation
Indices: 15267348--15267452 Score: 126
Period size: 27 Copynumber: 3.9 Consensus size: 27
15267338 GCGAGGCTGC
* *
15267348 CAGATATTGTGACGA-AGTCACCAGATA
1 CAGATATTGTGGC-ATAGCCACCAGATA
15267375 CAGATATTGTGGCATAGCCACCAGA-A
1 CAGATATTGTGGCATAGCCACCAGATA
* *
15267401 CAGAGATATGTGGCAGAGCCACCAGAT-
1 CAGATAT-TGTGGCATAGCCACCAGATA
15267428 CAGATAATTGTGGCATAGCCACCAG
1 CAGAT-ATTGTGGCATAGCCACCAG
15267453 GAAGCTTCCT
Statistics
Matches: 68, Mismatches: 6, Indels: 8
0.83 0.07 0.10
Matches are distributed among these distances:
26 8 0.12
27 58 0.85
28 2 0.03
ACGTcount: A:0.34, C:0.22, G:0.25, T:0.19
Consensus pattern (27 bp):
CAGATATTGTGGCATAGCCACCAGATA
Found at i:15267584 original size:27 final size:26
Alignment explanation
Indices: 15267558--15267631 Score: 85
Period size: 26 Copynumber: 2.8 Consensus size: 26
15267548 AAATTAACCT
*
15267558 TAGGGGTATAACGGTAATTTTGCACC
1 TAGGGGTATAACAGTAATTTTGCACC
* *
15267584 TAGGGGTATAACAGTAATTTTCCATACA
1 TAGGGGTATAACAGTAATTTTGC--ACC
* *
15267612 TAGGGGTATTATAGTAATTT
1 TAGGGGTATAACAGTAATTT
15267632 AGATGCTTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
26 21 0.51
28 20 0.49
ACGTcount: A:0.31, C:0.11, G:0.23, T:0.35
Consensus pattern (26 bp):
TAGGGGTATAACAGTAATTTTGCACC
Found at i:15269104 original size:26 final size:26
Alignment explanation
Indices: 15269074--15269155 Score: 146
Period size: 26 Copynumber: 3.2 Consensus size: 26
15269064 TGAAATGCCC
15269074 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
15269100 ATCATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
15269126 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
15269152 ATCA
1 ATCA
15269156 ATTTGTACCA
Statistics
Matches: 54, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 54 1.00
ACGTcount: A:0.35, C:0.24, G:0.07, T:0.33
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:15269558 original size:28 final size:28
Alignment explanation
Indices: 15269518--15269577 Score: 120
Period size: 28 Copynumber: 2.1 Consensus size: 28
15269508 AAGGAATTGA
15269518 TGGTAAAAACCTAACAAAATGGGCCTGC
1 TGGTAAAAACCTAACAAAATGGGCCTGC
15269546 TGGTAAAAACCTAACAAAATGGGCCTGC
1 TGGTAAAAACCTAACAAAATGGGCCTGC
15269574 TGGT
1 TGGT
15269578 CTAGTGGTCA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.37, C:0.20, G:0.23, T:0.20
Consensus pattern (28 bp):
TGGTAAAAACCTAACAAAATGGGCCTGC
Found at i:15272509 original size:22 final size:22
Alignment explanation
Indices: 15272484--15272555 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
15272474 TTGCAAACTT
15272484 TTTATCTAAAAATTAATGGTGG
1 TTTATCTAAAAATTAATGGTGG
* * ** * *
15272506 TTTACCCACAATTTTTACTGGTAG
1 TTTATCTA-AA-AATTAATGGTGG
**
15272530 TTTATCTGCAAATTAATGGTGG
1 TTTATCTAAAAATTAATGGTGG
15272552 TTTA
1 TTTA
15272556 CCTACAATGC
Statistics
Matches: 34, Mismatches: 14, Indels: 4
0.65 0.27 0.08
Matches are distributed among these distances:
22 18 0.53
23 3 0.09
24 13 0.38
ACGTcount: A:0.29, C:0.11, G:0.17, T:0.43
Consensus pattern (22 bp):
TTTATCTAAAAATTAATGGTGG
Found at i:15276681 original size:22 final size:22
Alignment explanation
Indices: 15276656--15276716 Score: 58
Period size: 18 Copynumber: 2.9 Consensus size: 22
15276646 GAATTATATA
15276656 TTAATATATATTTTTTATTTTT
1 TTAATATATATTTTTTATTTTT
**
15276678 TTAA-AT-TA--TTTTAAATTT
1 TTAATATATATTTTTTATTTTT
15276696 TTAATATAACTATTTTTTATT
1 TTAATAT-A-TATTTTTTATT
15276717 ATATTGTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 10
0.67 0.09 0.23
Matches are distributed among these distances:
18 12 0.41
19 2 0.07
20 2 0.07
21 2 0.07
22 6 0.21
24 5 0.17
ACGTcount: A:0.33, C:0.02, G:0.00, T:0.66
Consensus pattern (22 bp):
TTAATATATATTTTTTATTTTT
Found at i:15276786 original size:22 final size:22
Alignment explanation
Indices: 15276747--15276805 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
15276737 GTTTTAAGAA
*
15276747 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
15276768 TTGTTTTAATATTTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
15276790 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
15276806 GATTTATTAT
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
20 7 0.21
21 16 0.47
22 11 0.32
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:15276822 original size:26 final size:24
Alignment explanation
Indices: 15276776--15276835 Score: 75
Period size: 26 Copynumber: 2.4 Consensus size: 24
15276766 ATTTGTTTTA
*
15276776 ATATTTATTTTTATGTTTTTAAAT
1 ATATTTATTTTTATATTTTTAAAT
15276800 ATATTTGATTTATTATATTTTTAAAT
1 ATATTT-ATTT-TTATATTTTTAAAT
* *
15276826 TTTTTTATTT
1 ATATTTATTT
15276836 AATAAAATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
24 6 0.19
25 8 0.26
26 17 0.55
ACGTcount: A:0.28, C:0.00, G:0.03, T:0.68
Consensus pattern (24 bp):
ATATTTATTTTTATATTTTTAAAT
Found at i:15282086 original size:41 final size:41
Alignment explanation
Indices: 15282029--15282110 Score: 146
Period size: 41 Copynumber: 2.0 Consensus size: 41
15282019 TCTCTAGTGA
15282029 ATGGTCAGGGTGGTTCGAGGAGTTTATACTCCTCATTCCTG
1 ATGGTCAGGGTGGTTCGAGGAGTTTATACTCCTCATTCCTG
**
15282070 ATGGTCATTGTGGTTCGAGGAGTTTATACTCCTCATTCCTG
1 ATGGTCAGGGTGGTTCGAGGAGTTTATACTCCTCATTCCTG
15282111 CTATCAATCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.17, C:0.20, G:0.27, T:0.37
Consensus pattern (41 bp):
ATGGTCAGGGTGGTTCGAGGAGTTTATACTCCTCATTCCTG
Found at i:15287206 original size:69 final size:69
Alignment explanation
Indices: 15287091--15287252 Score: 243
Period size: 69 Copynumber: 2.3 Consensus size: 69
15287081 CATAAAAATG
* * * * * **
15287091 TGCAAGACCATGGTTGGACTATGGTAATGTTTATGTAAGACTATAGCGAGGCTATTGTAGTTTTT
1 TGCAAGACCATGGTTGGACCATGGAAATGTTTAAGTAAGACCATAGCGAGACTACGGTAGTTTTT
15287156 CAGA
66 CAGA
15287160 TGCAAGACCATGGTTGGACCATGGAAATGTTTAAGTAAGACCATAGCGAGACTACGGTAGTTTTT
1 TGCAAGACCATGGTTGGACCATGGAAATGTTTAAGTAAGACCATAGCGAGACTACGGTAGTTTTT
15287225 CAGA
66 CAGA
* *
15287229 CGTAAGACCATGGTTGGACCATGG
1 TGCAAGACCATGGTTGGACCATGG
15287253 CAGTGTATAT
Statistics
Matches: 84, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
69 84 1.00
ACGTcount: A:0.29, C:0.15, G:0.27, T:0.29
Consensus pattern (69 bp):
TGCAAGACCATGGTTGGACCATGGAAATGTTTAAGTAAGACCATAGCGAGACTACGGTAGTTTTT
CAGA
Done.