Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr8
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: 78745976
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 2640508 characters in sequence are not A, C, G, or T
File 88 of 235
Found at i:30740952 original size:33 final size:33
Alignment explanation
Indices: 30740915--30741077 Score: 177
Period size: 33 Copynumber: 5.0 Consensus size: 33
30740905 CTATTCAATG
* *
30740915 TGAAAAGGTTAGGTATACTTTGTGTATATCACA
1 TGAAAAGGTTATGTATACTTTGTGTATACCACA
* * * *
30740948 TGAAAAAGTTATGTACACTTTTTGTATA-CACT
1 TGAAAAGGTTATGTATACTTTGTGTATACCACA
* *
30740980 TGAAAAGGTTATGTATACTTTGAGTATACCATA
1 TGAAAAGGTTATGTATACTTTGTGTATACCACA
** *
30741013 TGAAAAGGAAATGTATACTTTGTGTATACCATA
1 TGAAAAGGTTATGTATACTTTGTGTATACCACA
** *
30741046 TGAAAA-GAAATGGTATACTTTGTGTGTACCAC
1 TGAAAAGGTTAT-GTATACTTTGTGTATACCAC
30741078 TTAGAAAGAA
Statistics
Matches: 112, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
32 32 0.29
33 80 0.71
ACGTcount: A:0.36, C:0.10, G:0.18, T:0.36
Consensus pattern (33 bp):
TGAAAAGGTTATGTATACTTTGTGTATACCACA
Found at i:30740989 original size:65 final size:65
Alignment explanation
Indices: 30740915--30741041 Score: 173
Period size: 65 Copynumber: 2.0 Consensus size: 65
30740905 CTATTCAATG
* * ** *
30740915 TGAAAAGGTTAGGTATACTTTGTGTATATCACATGAAAAAGTTATGTACACTTTTTGTATACACT
1 TGAAAAGGTTAGGTATACTTTGAGTATACCACATGAAAAAGAAATGTACACTTTGTGTATACACT
* * * *
30740980 TGAAAAGGTTATGTATACTTTGAGTATACCATATGAAAAGGAAATGTATACTTTGTGTATAC
1 TGAAAAGGTTAGGTATACTTTGAGTATACCACATGAAAAAGAAATGTACACTTTGTGTATAC
30741042 CATATGAAAA
Statistics
Matches: 53, Mismatches: 9, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
65 53 1.00
ACGTcount: A:0.35, C:0.09, G:0.18, T:0.37
Consensus pattern (65 bp):
TGAAAAGGTTAGGTATACTTTGAGTATACCACATGAAAAAGAAATGTACACTTTGTGTATACACT
Found at i:30759065 original size:139 final size:139
Alignment explanation
Indices: 30758815--30759095 Score: 535
Period size: 139 Copynumber: 2.0 Consensus size: 139
30758805 TGTACGTACC
30758815 TATATTGCTTATTCTGATCATACTTTTATTCTCGTCTTGAATATGCCCGTTGAACCATTCAGAAT
1 TATATTGCTTATTCTGATCATACTTTTATTCTCGTCTTGAATATGCCCGTTGAACCATTCAGAAT
* *
30758880 CATTACGAATACTTGATAATCACATATAGCTTGTACAATGTCATATCCTAGATATGGTCTTACAT
66 CATTACGAATACTTGATAATCACATATAGCTCGTACAATGCCATATCCTAGATATGGTCTTACAT
30758945 ATTATCAGA
131 ATTATCAGA
30758954 TATATTGCTTATTCTGATCATACTTTTATTCTCGTCTTGAATATGCCCGTTGAACCATTCAGAAT
1 TATATTGCTTATTCTGATCATACTTTTATTCTCGTCTTGAATATGCCCGTTGAACCATTCAGAAT
30759019 CATTACGAATACTTGATAATCACATATAGCTCGTACAATGCCATATCCTAGATATGGTCTTACAT
66 CATTACGAATACTTGATAATCACATATAGCTCGTACAATGCCATATCCTAGATATGGTCTTACAT
*
30759084 CTTATCAGA
131 ATTATCAGA
30759093 TAT
1 TAT
30759096 CGATGCCATG
Statistics
Matches: 139, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
139 139 1.00
ACGTcount: A:0.30, C:0.20, G:0.12, T:0.38
Consensus pattern (139 bp):
TATATTGCTTATTCTGATCATACTTTTATTCTCGTCTTGAATATGCCCGTTGAACCATTCAGAAT
CATTACGAATACTTGATAATCACATATAGCTCGTACAATGCCATATCCTAGATATGGTCTTACAT
ATTATCAGA
Found at i:30759160 original size:50 final size:50
Alignment explanation
Indices: 30759096--30759267 Score: 223
Period size: 50 Copynumber: 3.5 Consensus size: 50
30759086 TATCAGATAT
30759096 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTTATATCAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTTATATCAAGGC
* * * *
30759146 TGATGCCATATCCCAGACATGGTCTTACACTGGCTCTCCTT-TATC-CGTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCT-CTTATATCAAG-GC
*
30759196 CGATGCCATGTCCCAGACATGGTCTTACACTGA--CAC--ATATCAA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTTATATCAAGGC
*
30759241 CAATGCCATGTCCCAGACATGGTCTTA
1 CGATGCCATGTCCCAGACATGGTCTTA
30759268 GACTAGCTCA
Statistics
Matches: 108, Mismatches: 10, Indels: 13
0.82 0.08 0.10
Matches are distributed among these distances:
45 28 0.26
46 4 0.04
47 1 0.01
48 1 0.01
49 1 0.01
50 70 0.65
51 3 0.03
ACGTcount: A:0.24, C:0.31, G:0.18, T:0.27
Consensus pattern (50 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCTCTTATATCAAGGC
Found at i:30761980 original size:28 final size:28
Alignment explanation
Indices: 30761887--30761988 Score: 89
Period size: 28 Copynumber: 3.6 Consensus size: 28
30761877 CTTCGATGTC
* * *
30761887 TTGCACACTATGTACCATACTCGATACC
1 TTGCACACTAAGTGCCATACTCGATACT
* * * * * *
30761915 TCGCACGCTAAGTGCTATTCTGGAT-GT
1 TTGCACACTAAGTGCCATACTCGATACT
* *
30761942 TTCGCATACTAAGTGCCATCCTCGATACT
1 TT-GCACACTAAGTGCCATACTCGATACT
30761971 TTGCACACTAAGTGCCAT
1 TTGCACACTAAGTGCCAT
30761989 TTATATATAT
Statistics
Matches: 55, Mismatches: 17, Indels: 4
0.72 0.22 0.05
Matches are distributed among these distances:
27 1 0.02
28 51 0.93
29 3 0.05
ACGTcount: A:0.25, C:0.28, G:0.17, T:0.30
Consensus pattern (28 bp):
TTGCACACTAAGTGCCATACTCGATACT
Found at i:30763439 original size:34 final size:34
Alignment explanation
Indices: 30763389--30763456 Score: 109
Period size: 34 Copynumber: 2.0 Consensus size: 34
30763379 ACCCAAACCG
30763389 ACCATACCCCCCATTTCCACAATTTTATTCTTTT
1 ACCATACCCCCCATTTCCACAATTTTATTCTTTT
* * *
30763423 ACCATAGCCCCTATTTCCACCATTTTATTCTTTT
1 ACCATACCCCCCATTTCCACAATTTTATTCTTTT
30763457 TCTTTCTCCT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
34 31 1.00
ACGTcount: A:0.22, C:0.34, G:0.01, T:0.43
Consensus pattern (34 bp):
ACCATACCCCCCATTTCCACAATTTTATTCTTTT
Found at i:30765962 original size:39 final size:39
Alignment explanation
Indices: 30765878--30766006 Score: 107
Period size: 39 Copynumber: 3.3 Consensus size: 39
30765868 GGTTTTTAAC
* * ** ** * *
30765878 CCGGATATTTTTCCAGCACGTAGCCTGCAAACCTCAAGT
1 CCGGATATATTTCCACCATATAGCCTGCGGACTTCATGT
* * * *
30765917 CTGGATATATTTCTAGCATATAGCCTTCGGA-TCTCATGT
1 CCGGATATATTTCCACCATATAGCCTGCGGACT-TCATGT
* * *
30765956 TCGGATATTTTTCCACCATATAGCGTGCGGACTTCATGT
1 CCGGATATATTTCCACCATATAGCCTGCGGACTTCATGT
30765995 CCGGATATATTT
1 CCGGATATATTT
30766007 TCAATCTCAT
Statistics
Matches: 69, Mismatches: 19, Indels: 4
0.75 0.21 0.04
Matches are distributed among these distances:
39 68 0.99
40 1 0.01
ACGTcount: A:0.23, C:0.24, G:0.19, T:0.34
Consensus pattern (39 bp):
CCGGATATATTTCCACCATATAGCCTGCGGACTTCATGT
Found at i:30775642 original size:40 final size:40
Alignment explanation
Indices: 30775597--30775712 Score: 205
Period size: 40 Copynumber: 2.9 Consensus size: 40
30775587 AGAATTGAGA
30775597 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
30775637 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
* * *
30775677 GTTACATCCGGGCTAAGTCCTGAAGGGCATTCGTGC
1 GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGC
30775713 CTGTGATGTG
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
40 73 1.00
ACGTcount: A:0.20, C:0.23, G:0.30, T:0.27
Consensus pattern (40 bp):
GTTATATCCGGGCTAAGTCCCGAAGAGCATTCGTGCTGGT
Found at i:30775955 original size:23 final size:23
Alignment explanation
Indices: 30775925--30775969 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
30775915 GTGTAATAAC
30775925 GAATGAATAT-AGGCACTGTGTGA
1 GAATGAAT-TGAGGCACTGTGTGA
30775948 GAATGAATTGAGGCACTGTGTG
1 GAATGAATTGAGGCACTGTGTG
30775970 TGCGAATTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 1 0.05
23 20 0.95
ACGTcount: A:0.31, C:0.09, G:0.33, T:0.27
Consensus pattern (23 bp):
GAATGAATTGAGGCACTGTGTGA
Found at i:30775997 original size:28 final size:28
Alignment explanation
Indices: 30775960--30776060 Score: 87
Period size: 28 Copynumber: 3.5 Consensus size: 28
30775950 ATGAATTGAG
*
30775960 GCACTGTGTGTGCGAATTCTTTAACCGA
1 GCACTATGTGTGCGAATTCTTTAACCGA
* ** * ** *
30775988 GCACTATGTGTGCGAGA-CCGGTCAGTGG
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
*
30776016 GCACTATGTGTGTGCGAATTCTTTAACCAA
1 GCACTA--TGTGTGCGAATTCTTTAACCGA
30776046 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
30776061 GATCGGTCAG
Statistics
Matches: 53, Mismatches: 16, Indels: 8
0.69 0.21 0.10
Matches are distributed among these distances:
28 33 0.62
29 2 0.04
30 18 0.34
ACGTcount: A:0.22, C:0.21, G:0.29, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:30776033 original size:58 final size:58
Alignment explanation
Indices: 30775964--30776085 Score: 217
Period size: 58 Copynumber: 2.1 Consensus size: 58
30775954 ATTGAGGCAC
*
30775964 TGTGTGTGCGAATTCTTTAACCGAGCACTATGTGTGCGAGACCGGTCAGTGGGCACTA
1 TGTGTGTGCGAATTCTTTAACCAAGCACTATGTGTGCGAGACCGGTCAGTGGGCACTA
* *
30776022 TGTGTGTGCGAATTCTTTAACCAAGCACTATGTGTGCGAGATCGGTCAGTGGGCACTG
1 TGTGTGTGCGAATTCTTTAACCAAGCACTATGTGTGCGAGACCGGTCAGTGGGCACTA
30776080 TGTGTG
1 TGTGTG
30776086 CGGATTTCGT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
58 61 1.00
ACGTcount: A:0.20, C:0.19, G:0.32, T:0.30
Consensus pattern (58 bp):
TGTGTGTGCGAATTCTTTAACCAAGCACTATGTGTGCGAGACCGGTCAGTGGGCACTA
Found at i:30776077 original size:28 final size:28
Alignment explanation
Indices: 30775988--30776087 Score: 85
Period size: 28 Copynumber: 3.5 Consensus size: 28
30775978 CTTTAACCGA
*
30775988 GCACTATGTGTGCGAGACCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCAGTGG
** * ****
30776016 GCACTATGTGTGTGCGA-ATTCTTTAACCAA
1 GCACTA--TGTGTGCGAGA-TCGGTCAGTGG
30776046 GCACTATGTGTGCGAGATCGGTCAGTGG
1 GCACTATGTGTGCGAGATCGGTCAGTGG
*
30776074 GCACTGTGTGTGCG
1 GCACTATGTGTGCG
30776088 GATTTCGTTT
Statistics
Matches: 52, Mismatches: 16, Indels: 8
0.68 0.21 0.11
Matches are distributed among these distances:
28 32 0.62
29 2 0.04
30 18 0.35
ACGTcount: A:0.19, C:0.20, G:0.34, T:0.27
Consensus pattern (28 bp):
GCACTATGTGTGCGAGATCGGTCAGTGG
Found at i:30778253 original size:27 final size:28
Alignment explanation
Indices: 30778172--30778266 Score: 129
Period size: 27 Copynumber: 3.4 Consensus size: 28
30778162 GAGATTGGCG
* * * *
30778172 CTAAGTGTGCGGGTTTAAATTGTACAGCA
1 CTAAGTGTGCGAGTTT-GATTATATAGCA
30778201 CTAAGTGTGCGAGTTTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
30778229 CTAAGTGTGCGAG-TTGATTATATAGCA
1 CTAAGTGTGCGAGTTTGATTATATAGCA
*
30778256 CTGAGTGTGCG
1 CTAAGTGTGCG
30778267 GACTTAATAT
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
27 24 0.39
28 22 0.36
29 15 0.25
ACGTcount: A:0.26, C:0.13, G:0.28, T:0.33
Consensus pattern (28 bp):
CTAAGTGTGCGAGTTTGATTATATAGCA
Found at i:30778277 original size:27 final size:27
Alignment explanation
Indices: 30778197--30778279 Score: 96
Period size: 27 Copynumber: 3.0 Consensus size: 27
30778187 TAAATTGTAC
* *
30778197 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
30778225 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
30778252 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
30778279 A
1 A
30778280 CTTTTGAATC
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
27 30 0.60
28 20 0.40
ACGTcount: A:0.30, C:0.12, G:0.25, T:0.33
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:30778791 original size:7 final size:7
Alignment explanation
Indices: 30778779--30778868 Score: 171
Period size: 7 Copynumber: 12.7 Consensus size: 7
30778769 GCGTGATCTT
30778779 TTTAGGG
1 TTTAGGG
30778786 TTTAGGG
1 TTTAGGG
30778793 TTTAGGG
1 TTTAGGG
30778800 TTTTAGGG
1 -TTTAGGG
30778808 TTTAGGG
1 TTTAGGG
30778815 TTTAGGG
1 TTTAGGG
30778822 TTTAGGG
1 TTTAGGG
30778829 TTTAGGG
1 TTTAGGG
30778836 TTTAGGG
1 TTTAGGG
30778843 TTTAGGG
1 TTTAGGG
30778850 TTTAGGG
1 TTTAGGG
30778857 TTTAGGG
1 TTTAGGG
30778864 TTTAG
1 TTTAG
30778869 NNNNNNNNNN
Statistics
Matches: 82, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
7 75 0.91
8 7 0.09
ACGTcount: A:0.14, C:0.00, G:0.41, T:0.44
Consensus pattern (7 bp):
TTTAGGG
Found at i:30803771 original size:68 final size:67
Alignment explanation
Indices: 30803699--30803848 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
30803689 CATCATGTGT
* * * *
30803699 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
30803761 ATGTAG
62 ATGTAG
** * *
30803767 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
30803832 AG
66 AG
30803834 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
30803849 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:30803804 original size:64 final size:64
Alignment explanation
Indices: 30803723--30803906 Score: 185
Period size: 67 Copynumber: 2.8 Consensus size: 64
30803713 AGACATTATG
* * *
30803723 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGAGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * *
30803787 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-AGTACACCATGTAGACAAGAGAGCTACGAGAT
30803852 AA
63 AA
* * * * *
30803854 ACTG--GCTAGGTCACATGGGTGGTACTAAGCGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGAGTACACCATGTAG-ACAAGAGAGC
30803907 CGAACTAAAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.18, G:0.30, T:0.22
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGAGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:30806182 original size:22 final size:22
Alignment explanation
Indices: 30806154--30806198 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
30806144 AATTATGTGT
30806154 AAACAATTTGAAGATGGGTTAA
1 AAACAATTTGAAGATGGGTTAA
30806176 AAACAATTTGAAGATGGGTTAA
1 AAACAATTTGAAGATGGGTTAA
30806198 A
1 A
30806199 CGAAGACATC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.47, C:0.04, G:0.22, T:0.27
Consensus pattern (22 bp):
AAACAATTTGAAGATGGGTTAA
Found at i:30809569 original size:47 final size:47
Alignment explanation
Indices: 30809436--30809644 Score: 181
Period size: 47 Copynumber: 4.3 Consensus size: 47
30809426 ATAGTAAAAC
** * *
30809436 TATGGTCTTGCACA-TAGTCACATATCACATACCGAGGCCATAGCCCAGC
1 TATGGTCTTATACAGTAG-CACATATCAC--ACCGATGCCATAGCCCAGA
* * * * * *
30809485 CATGGTCTTACAC-GGATCACATATCACACTGATGCCATATCCCAGA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
*
30809531 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATATCCC-GAA
1 TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAG-A
* * * *
30809578 TATGGTCTTATACGGAAGCACATATCACATTTCTCCGAAGCCATAGCCCAGC
1 TATGGTCTTATACAGTAGCACATATCACA-----CCGATGCCATAGCCCAGA
30809630 TATGGTCTTATACAG
1 TATGGTCTTATACAG
30809645 AAATCACATT
Statistics
Matches: 132, Mismatches: 19, Indels: 15
0.80 0.11 0.09
Matches are distributed among these distances:
46 27 0.20
47 55 0.42
48 10 0.08
49 12 0.09
52 27 0.20
53 1 0.01
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (47 bp):
TATGGTCTTATACAGTAGCACATATCACACCGATGCCATAGCCCAGA
Found at i:30812153 original size:30 final size:30
Alignment explanation
Indices: 30812109--30812197 Score: 119
Period size: 30 Copynumber: 3.0 Consensus size: 30
30812099 CAAAGATAAC
30812109 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
30812138 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* *
30812168 AAGAAATCCAGAATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
30812198 CGATACTATG
Statistics
Matches: 52, Mismatches: 5, Indels: 5
0.84 0.08 0.08
Matches are distributed among these distances:
29 9 0.17
30 41 0.79
31 2 0.04
ACGTcount: A:0.60, C:0.16, G:0.15, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:30812157 original size:15 final size:15
Alignment explanation
Indices: 30812109--30812188 Score: 110
Period size: 15 Copynumber: 5.4 Consensus size: 15
30812099 CAAAGATAAC
*
30812109 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
30812123 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
30812138 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
30812153 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
30812168 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
30812183 AAGAAA
1 AAGAAA
30812189 CCCAAGATAC
Statistics
Matches: 58, Mismatches: 5, Indels: 5
0.85 0.07 0.07
Matches are distributed among these distances:
14 9 0.16
15 48 0.83
16 1 0.02
ACGTcount: A:0.61, C:0.14, G:0.15, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:30815840 original size:46 final size:46
Alignment explanation
Indices: 30815757--30815968 Score: 163
Period size: 52 Copynumber: 4.3 Consensus size: 46
30815747 TTGCACATAG
* * *
30815757 TCACATATCACATACCGAGGCCATAGCCCAGCCATGGTCTTATACGGA
1 TCACATATCAC--ACTGAAGCCATAGCCCAGCTATGGTCTTATACGGA
* * * *
30815805 TCACATATCACACTGATGCCATATCCCAGATATGGTCTTATACAGTA
1 TCACATATCACACTGAAGCCATAGCCCAGCTATGGTCTTATAC-GGA
*
30815852 GCACATATCACATTTCTCCGAAGCCATAGCCCAGCTATGGTCTTATACGGAA
1 TCACATATCACA---CT--GAAGCCATAGCCCAGCTATGGTCTTATACGG-A
* * * *
30815904 GCACAAATCACATTTCTCCGAAGCCATAGCCCAACTATGGCCTTATACGGAAA
1 TCACATATCACA---CT--GAAGCCATAGCCCAGCTATGGTCTTATACGG--A
*
30815957 TCACATTTCACA
1 TCACATATCACA
30815969 TGCTGCCATG
Statistics
Matches: 139, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
46 27 0.19
47 13 0.09
48 11 0.08
50 2 0.01
51 1 0.01
52 74 0.53
53 11 0.08
ACGTcount: A:0.31, C:0.29, G:0.15, T:0.25
Consensus pattern (46 bp):
TCACATATCACACTGAAGCCATAGCCCAGCTATGGTCTTATACGGA
Found at i:30815885 original size:52 final size:51
Alignment explanation
Indices: 30815771--30815952 Score: 196
Period size: 52 Copynumber: 3.6 Consensus size: 51
30815761 ATATCACATA
* ** * *
30815771 CCGAGGCCATAGCCCAGCCATGGTCTTATACGGATCACATATCACA---CT
1 CCGAAGCCATAGCCCAGATATGGTCTTATACGAAGCACATATCACATTTCT
* * *
30815819 --GATGCCATATCCCAGATATGGTCTTATACAGTAGCACATATCACATTTCT
1 CCGAAGCCATAGCCCAGATATGGTCTTATAC-GAAGCACATATCACATTTCT
* *
30815869 CCGAAGCCATAGCCCAGCTATGGTCTTATACGGAAGCACAAATCACATTTCT
1 CCGAAGCCATAGCCCAGATATGGTCTTATAC-GAAGCACATATCACATTTCT
*
30815921 CCGAAGCCATAGCCCA-ACTATGGCCTTATACG
1 CCGAAGCCATAGCCCAGA-TATGGTCTTATACG
30815953 GAAATCACAT
Statistics
Matches: 113, Mismatches: 14, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
46 25 0.22
47 13 0.12
50 2 0.02
51 1 0.01
52 72 0.64
ACGTcount: A:0.29, C:0.30, G:0.17, T:0.24
Consensus pattern (51 bp):
CCGAAGCCATAGCCCAGATATGGTCTTATACGAAGCACATATCACATTTCT
Found at i:30815953 original size:52 final size:52
Alignment explanation
Indices: 30815822--30815955 Score: 198
Period size: 52 Copynumber: 2.6 Consensus size: 52
30815812 TCACACTGAT
* * * *
30815822 GCCATATCCCAGA-TATGGTCTTATACAGTAGCACATATCACATTTCTCCGAA
1 GCCATAGCCCA-ACTATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAA
*
30815874 GCCATAGCCCAGCTATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAA
1 GCCATAGCCCAACTATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAA
*
30815926 GCCATAGCCCAACTATGGCCTTATACGGAA
1 GCCATAGCCCAACTATGGTCTTATACGGAA
30815956 ATCACATTTC
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
52 74 1.00
ACGTcount: A:0.31, C:0.28, G:0.16, T:0.25
Consensus pattern (52 bp):
GCCATAGCCCAACTATGGTCTTATACGGAAGCACAAATCACATTTCTCCGAA
Found at i:30819339 original size:77 final size:77
Alignment explanation
Indices: 30819212--30819365 Score: 308
Period size: 77 Copynumber: 2.0 Consensus size: 77
30819202 GGGCTAAATT
30819212 CTGAAATTTGTAAATTGAAAGACTAAAAGGTGAAATAAATGAAATGTGTGGGCTTGTATGAAAGC
1 CTGAAATTTGTAAATTGAAAGACTAAAAGGTGAAATAAATGAAATGTGTGGGCTTGTATGAAAGC
30819277 TATGAAAATTCG
66 TATGAAAATTCG
30819289 CTGAAATTTGTAAATTGAAAGACTAAAAGGTGAAATAAATGAAATGTGTGGGCTTGTATGAAAGC
1 CTGAAATTTGTAAATTGAAAGACTAAAAGGTGAAATAAATGAAATGTGTGGGCTTGTATGAAAGC
30819354 TATGAAAATTCG
66 TATGAAAATTCG
30819366 GCTAAGCTTG
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
77 77 1.00
ACGTcount: A:0.42, C:0.06, G:0.23, T:0.29
Consensus pattern (77 bp):
CTGAAATTTGTAAATTGAAAGACTAAAAGGTGAAATAAATGAAATGTGTGGGCTTGTATGAAAGC
TATGAAAATTCG
Found at i:30821783 original size:28 final size:27
Alignment explanation
Indices: 30821725--30821834 Score: 141
Period size: 27 Copynumber: 4.0 Consensus size: 27
30821715 TAAATTGTGC
* * * *
30821725 AGCACTAAGTGTGTGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGATTATAT
30821752 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAG-TTGATTATAT
30821780 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAGTTGATTATAT
* *
30821807 AGCACTGAGTGTGCGGACTT-ATTATAT
1 AGCACTAAGTGTGC-GAGTTGATTATAT
30821834 A
1 A
30821835 TTTTTGAAAC
Statistics
Matches: 75, Mismatches: 6, Indels: 4
0.88 0.07 0.05
Matches are distributed among these distances:
27 46 0.61
28 29 0.39
ACGTcount: A:0.29, C:0.12, G:0.25, T:0.34
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGATTATAT
Found at i:30821861 original size:71 final size:71
Alignment explanation
Indices: 30821782--30822007 Score: 234
Period size: 71 Copynumber: 3.2 Consensus size: 71
30821772 GATTATATAG
30821782 CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTATTATATATTTTTGAAACAT
1 CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTATTATATATTTTTGAAACAT
30821847 TATGGA
66 TATGGA
** * *** * *
30821853 CACTAAGTGTGCGACGTT-ATTGAGTCGATCAC-G-GACAGCGGA-TCGAGTA-AGTACCTTTTT
1 CACTAAGTGTGCGA-GTTGATT-A-TATAGCACTGAGTGTGCGGACT-TATTATA-TA--TTTTT
** *
30821913 G-ATTA-TATAG-
59 GAAACATTATGGA
30821923 CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTATTATATATTTTTGAAACAT
1 CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTATTATATATTTTTGAAACAT
30821988 TATGGA
66 TATGGA
30821994 CACTAAGTGTGCGA
1 CACTAAGTGTGCGA
30822008 CGTTATTGAG
Statistics
Matches: 118, Mismatches: 22, Indels: 30
0.69 0.13 0.18
Matches are distributed among these distances:
68 11 0.09
69 7 0.06
70 34 0.29
71 48 0.41
72 7 0.06
73 11 0.09
ACGTcount: A:0.29, C:0.14, G:0.24, T:0.34
Consensus pattern (71 bp):
CACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTATTATATATTTTTGAAACAT
TATGGA
Found at i:30821942 original size:27 final size:28
Alignment explanation
Indices: 30821911--30821975 Score: 98
Period size: 27 Copynumber: 2.4 Consensus size: 28
30821901 AAGTACCTTT
*
30821911 TTGATTATATAGCACTAAGTGTGC-GAG
1 TTGATTATATAGCACTAAGTGTGCGGAC
*
30821938 TTGATTATATAGCACTGAGTGTGCGGAC
1 TTGATTATATAGCACTAAGTGTGCGGAC
30821966 TT-ATTATATA
1 TTGATTATATA
30821976 TTTTTGAAAC
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
27 31 0.89
28 4 0.11
ACGTcount: A:0.29, C:0.11, G:0.23, T:0.37
Consensus pattern (28 bp):
TTGATTATATAGCACTAAGTGTGCGGAC
Found at i:30822023 original size:141 final size:141
Alignment explanation
Indices: 30821769--30822050 Score: 564
Period size: 141 Copynumber: 2.0 Consensus size: 141
30821759 AGTGTGCGAG
30821769 TTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTATTATAT
1 TTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTATTATAT
30821834 ATTTTTGAAACATTATGGACACTAAGTGTGCGACGTTATTGAGTCGATCACGGACAGCGGATCGA
66 ATTTTTGAAACATTATGGACACTAAGTGTGCGACGTTATTGAGTCGATCACGGACAGCGGATCGA
30821899 GTAAGTACCTT
131 GTAAGTACCTT
30821910 TTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTATTATAT
1 TTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTATTATAT
30821975 ATTTTTGAAACATTATGGACACTAAGTGTGCGACGTTATTGAGTCGATCACGGACAGCGGATCGA
66 ATTTTTGAAACATTATGGACACTAAGTGTGCGACGTTATTGAGTCGATCACGGACAGCGGATCGA
30822040 GTAAGTACCTT
131 GTAAGTACCTT
30822051 GAGTTCATGG
Statistics
Matches: 141, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
141 141 1.00
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.33
Consensus pattern (141 bp):
TTTGATTATATAGCACTAAGTGTGCGAGTTGATTATATAGCACTGAGTGTGCGGACTTATTATAT
ATTTTTGAAACATTATGGACACTAAGTGTGCGACGTTATTGAGTCGATCACGGACAGCGGATCGA
GTAAGTACCTT
Found at i:30822035 original size:71 final size:71
Alignment explanation
Indices: 30821819--30822035 Score: 216
Period size: 71 Copynumber: 3.1 Consensus size: 71
30821809 CACTGAGTGT
30821819 GCGGACTTATTATATATTTTTGAAACATTATGGACACTAAGTGTGCGACGTTATTGAGTCGATCA
1 GCGGACTTATTATATATTTTTGAAACATTATGGACACTAAGTGTGCGACGTTATTGAGTCGATCA
30821884 CGGACA
66 CGGACA
* * ** * *
30821890 GCGGA-TCGAGTA-AGTACCTTTTTG-ATTA-TATAG-CACTAAGTGTGCGA-GTTGATT-A-TA
1 GCGGACT-TATTATA-TA--TTTTTGAAACATTATGGACACTAAGTGTGCGACGTT-ATTGAGTC
* * ***
30821947 TAGCACTGAGTGT
61 GATCAC-G-GACA
30821960 GCGGACTTATTATATATTTTTGAAACATTATGGACACTAAGTGTGCGACGTTATTGAGTCGATCA
1 GCGGACTTATTATATATTTTTGAAACATTATGGACACTAAGTGTGCGACGTTATTGAGTCGATCA
30822025 CGGACA
66 CGGACA
30822031 GCGGA
1 GCGGA
30822036 TCGAGTAAGT
Statistics
Matches: 109, Mismatches: 22, Indels: 30
0.68 0.14 0.19
Matches are distributed among these distances:
68 11 0.10
69 7 0.06
70 34 0.31
71 39 0.36
72 7 0.06
73 11 0.10
ACGTcount: A:0.29, C:0.15, G:0.24, T:0.32
Consensus pattern (71 bp):
GCGGACTTATTATATATTTTTGAAACATTATGGACACTAAGTGTGCGACGTTATTGAGTCGATCA
CGGACA
Found at i:30823469 original size:128 final size:128
Alignment explanation
Indices: 30823241--30823495 Score: 438
Period size: 128 Copynumber: 2.0 Consensus size: 128
30823231 ATATATGTAT
* * *
30823241 AGATTCCTATATGAGTCTAGTTTCTATAGAAATAAACGGCATCAGTATTTAAGCTCTGTGCAGGG
1 AGATTCCTATATGAGTCTAGTTTCTATAGAAACAAACGACATCAGTATTGAAGCTCTGTGCAGGG
*
30823306 AGATATCCAGGTCGTAATGCGCAAAGGTCAGTGTAGTCGATCCCTGTAACATGGGAGACTTTC
66 AGATATCCAAGTCGTAATGCGCAAAGGTCAGTGTAGTCGATCCCTGTAACATGGGAGACTTTC
* *
30823369 AGATTCCTCTCTGAGTCTAGTTTCTATAGAAACAAACGACATCAGTATTGAAGCTCTGTGCAGGG
1 AGATTCCTATATGAGTCTAGTTTCTATAGAAACAAACGACATCAGTATTGAAGCTCTGTGCAGGG
* *
30823434 AGATATCCAATTCGTAATGCGCAAGGGTCAGTGTAGTCGATCCCTGTAACATGGGAGACTTT
66 AGATATCCAAGTCGTAATGCGCAAAGGTCAGTGTAGTCGATCCCTGTAACATGGGAGACTTT
30823496 GACTAATAAA
Statistics
Matches: 119, Mismatches: 8, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
128 119 1.00
ACGTcount: A:0.29, C:0.19, G:0.24, T:0.29
Consensus pattern (128 bp):
AGATTCCTATATGAGTCTAGTTTCTATAGAAACAAACGACATCAGTATTGAAGCTCTGTGCAGGG
AGATATCCAAGTCGTAATGCGCAAAGGTCAGTGTAGTCGATCCCTGTAACATGGGAGACTTTC
Found at i:30829936 original size:44 final size:44
Alignment explanation
Indices: 30829831--30829937 Score: 178
Period size: 44 Copynumber: 2.4 Consensus size: 44
30829821 GTTAATTGAG
*
30829831 AAAGCACTAAGTGTGCGGAATTGTTATAGCTTCGGATAATCTTT
1 AAAGCACTAAGTGTGCAGAATTGTTATAGCTTCGGATAATCTTT
* *
30829875 AAAGCACTAAGTATGCAGAATTGTTATAGCTTCGGCTAATCTTT
1 AAAGCACTAAGTGTGCAGAATTGTTATAGCTTCGGATAATCTTT
*
30829919 AAAGCACTAAGGGTGCAGA
1 AAAGCACTAAGTGTGCAGA
30829938 TGTTTAAAGC
Statistics
Matches: 58, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
44 58 1.00
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.30
Consensus pattern (44 bp):
AAAGCACTAAGTGTGCAGAATTGTTATAGCTTCGGATAATCTTT
Found at i:30831441 original size:43 final size:43
Alignment explanation
Indices: 30831380--30831538 Score: 169
Period size: 43 Copynumber: 3.7 Consensus size: 43
30831370 AAATTTCATA
* * *
30831380 TCCCAGATATGGTCTTACATGTTATCACATATCGATGCCATTG
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCATTG
** * * *
30831423 TCCCAGACATGGTCTTACACAAAATCATATAACAATGCCAATT-
1 TCCCAGACATGGTCTTACACGTAATCACATATCGATGCC-ATTG
* * * *
30831466 TTCTAGACATGGTCTTACACGTAATCACA-ATAGAATGCCAATG
1 TCCCAGACATGGTCTTACACGTAATCACATATCG-ATGCCATTG
*
30831509 TCCCAGACATGGTCTTACATGTAATCACAT
1 TCCCAGACATGGTCTTACACGTAATCACAT
30831539 TCCGGTAATC
Statistics
Matches: 92, Mismatches: 20, Indels: 7
0.77 0.17 0.06
Matches are distributed among these distances:
42 3 0.03
43 86 0.93
44 3 0.03
ACGTcount: A:0.33, C:0.24, G:0.14, T:0.30
Consensus pattern (43 bp):
TCCCAGACATGGTCTTACACGTAATCACATATCGATGCCATTG
Found at i:30837791 original size:55 final size:53
Alignment explanation
Indices: 30837649--30837809 Score: 137
Period size: 55 Copynumber: 3.0 Consensus size: 53
30837639 TTACCATTAA
* * * * *
30837649 CATGTCTTGACACGGTCTTACGTGGTATCCTTGCCTTATGAACTCACCATTTC
1 CATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGC
* * ** * *
30837702 CATGCCTTGGCATGGTCTTACATGGGATAT--TTGCCTTATAGTAGTTTATCAATGC
1 CATGTCTTGACATGGTCTTACAT--GATATCCTTGCCTTAT-G-AACTCACCAATGC
* * *
30837757 CATGTCTTGACATGGTCTTACATGATTTCCTTGCCTTGTAGAACTTACCAATG
1 CATGTCTTGACATGGTCTTACATGATATCCTTGCCTTAT-GAACTCACCAATG
30837810 TCAAGCCATA
Statistics
Matches: 84, Mismatches: 18, Indels: 11
0.74 0.16 0.10
Matches are distributed among these distances:
53 32 0.38
54 10 0.12
55 42 0.50
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.37
Consensus pattern (53 bp):
CATGTCTTGACATGGTCTTACATGATATCCTTGCCTTATGAACTCACCAATGC
Found at i:30838323 original size:23 final size:23
Alignment explanation
Indices: 30838281--30838325 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 23
30838271 ATAAAAAACT
30838281 TTTAAAAATAAAAATTCAAATACA
1 TTTAAAAATAAAAA-TCAAATACA
30838305 TTTAAAACATAAAAA-CAAATA
1 TTTAAAA-ATAAAAATCAAATA
30838326 TTAAAACAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
23 6 0.30
24 7 0.35
25 7 0.35
ACGTcount: A:0.64, C:0.09, G:0.00, T:0.27
Consensus pattern (23 bp):
TTTAAAAATAAAAATCAAATACA
Found at i:30838636 original size:11 final size:11
Alignment explanation
Indices: 30838539--30838635 Score: 122
Period size: 11 Copynumber: 8.8 Consensus size: 11
30838529 AACATGACAA
* *
30838539 AAAATAGCAGC
1 AAAACAGCACC
*
30838550 AAAATAGCACC
1 AAAACAGCACC
30838561 AAAACAGCACC
1 AAAACAGCACC
*
30838572 CAAACAGCACC
1 AAAACAGCACC
30838583 AAAACAGCACC
1 AAAACAGCACC
*
30838594 CAAACAGCACC
1 AAAACAGCACC
30838605 AAAACAGCACC
1 AAAACAGCACC
* * *
30838616 CAAACTGCAGC
1 AAAACAGCACC
30838627 AAAACAGCA
1 AAAACAGCA
30838636 GTGAGCTAGG
Statistics
Matches: 75, Mismatches: 11, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
11 75 1.00
ACGTcount: A:0.52, C:0.34, G:0.11, T:0.03
Consensus pattern (11 bp):
AAAACAGCACC
Found at i:30848227 original size:46 final size:47
Alignment explanation
Indices: 30848160--30848326 Score: 166
Period size: 46 Copynumber: 3.6 Consensus size: 47
30848150 TGTAAGCCGC
*
30848160 CCATAAGCGAACTCGGACTCAACTCAACGAGCTCGAG-CGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCGCAT
* * * *
30848206 CCATAAGTGAACTCGAACTCAACTCAACAAGCTCGGATGCCTAGTT-AC-T
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTC-GA-GAC--GTTCGCAT
* * *
30848255 TC-TCA-TGAACTCGGACTCAACTCAACGAGTTCG-GACGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCGCAT
* *
30848299 CCAAAAGTGAACTCGGACCCAACTCAAC
1 CCATAAGTGAACTCGGACTCAACTCAAC
30848327 CAGTTCAGAT
Statistics
Matches: 97, Mismatches: 15, Indels: 18
0.75 0.12 0.14
Matches are distributed among these distances:
42 3 0.03
43 1 0.01
44 4 0.04
45 1 0.01
46 52 0.54
47 26 0.27
48 3 0.03
49 3 0.03
50 1 0.01
51 3 0.03
ACGTcount: A:0.31, C:0.31, G:0.19, T:0.20
Consensus pattern (47 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGACGTTCGCAT
Found at i:30848338 original size:93 final size:93
Alignment explanation
Indices: 30848168--30848339 Score: 265
Period size: 93 Copynumber: 1.8 Consensus size: 93
30848158 GCCCATAAGC
* *
30848168 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCATAAGTGAACTCGAACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCAAAAGTGAACTCGAACCCAACTCAA
*
30848233 CAAGCTCGGATGCCTAGTTACTTCTCAT
66 CAAGCTCAGATGCCTAGTTACTTCTCAT
* *
30848261 GAACTCGGACTCAACTCAACGAGTTCG-GACGTTCGCATCCAAAAGTGAACTCGGACCCAACTCA
1 GAACTCGGACTCAACTCAACGAGCTCGAG-CGTTCGCATCCAAAAGTGAACTCGAACCCAACTCA
* *
30848325 ACCAGTTCAGATGCC
65 ACAAGCTCAGATGCC
30848340 CAAATATACG
Statistics
Matches: 71, Mismatches: 7, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
92 1 0.01
93 70 0.99
ACGTcount: A:0.30, C:0.31, G:0.19, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCATCCAAAAGTGAACTCGAACCCAACTCAA
CAAGCTCAGATGCCTAGTTACTTCTCAT
Found at i:30848469 original size:46 final size:45
Alignment explanation
Indices: 30848412--30848679 Score: 188
Period size: 46 Copynumber: 5.8 Consensus size: 45
30848402 TCTCCCCGCC
*
30848412 CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCACAT
* *
30848457 CTATAAGTGAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT
1 C-ATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * * *
30848507 C-TCA-CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCACAT
1 CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCACAT
* * * * *
30848550 CCATAAGTGTACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTT-ACA-
1 -CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA---C-A-TTCACAT
* * * * * *
30848599 CCTCA-CGAACTCAGACTCAACTTAACGAGTTCAGACGTTCGCAT
1 CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCACAT
* * *
30848643 CCATAAGTGAACTCGGACTCAACTCAATGAGTTCGGA
1 -CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGA
30848680 TGCCCAAATA
Statistics
Matches: 170, Mismatches: 34, Indels: 37
0.71 0.14 0.15
Matches are distributed among these distances:
42 4 0.02
43 6 0.04
44 3 0.02
45 6 0.04
46 83 0.49
47 49 0.29
48 5 0.03
49 2 0.01
50 8 0.05
51 4 0.02
ACGTcount: A:0.31, C:0.29, G:0.18, T:0.22
Consensus pattern (45 bp):
CATAAGCGAACTCAGACTCAACTCAACGAGTTCGGACATTCACAT
Found at i:30848533 original size:47 final size:47
Alignment explanation
Indices: 30848465--30848627 Score: 165
Period size: 47 Copynumber: 3.5 Consensus size: 47
30848455 ATCTATAAGT
30848465 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
1 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
* * * * *
30848512 GAACTCGGACTCAACTCAACGAGTTC--A-GAC--GTTCACATCCATAAGT
1 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTT-ACAT-C-TCA-C
* * * *
30848558 GTACTCGGACTCAACTCAACAAGCTCGGATGCCTAGTTACACCTCAC
1 GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
*
30848605 GAACTCAGACTCAACTTAACGAG
1 GAACTCAGACTCAACTCAACGAG
30848628 TTCAGACGTT
Statistics
Matches: 91, Mismatches: 16, Indels: 18
0.73 0.13 0.14
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
44 3 0.03
45 3 0.03
46 23 0.25
47 43 0.47
48 3 0.03
49 3 0.03
50 3 0.03
51 3 0.03
ACGTcount: A:0.31, C:0.31, G:0.17, T:0.21
Consensus pattern (47 bp):
GAACTCAGACTCAACTCAACGAGCTCGGATGCCTAGTTACATCTCAC
Found at i:30848537 original size:93 final size:93
Alignment explanation
Indices: 30848418--30848683 Score: 424
Period size: 93 Copynumber: 2.9 Consensus size: 93
30848408 CGCCCATAAG
* * * *
30848418 CGAACTCAGACTCAACTCAACGAGTTCGGACATTCGCATCTATAAGTGAACTCAGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
30848483 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACACCTCA
* * *
30848511 CGAACTCGGACTCAACTCAACGAGTTCAGACGTTCACATCCATAAGTGTACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
*
30848576 ACAAGCTCGGATGCCTAGTTACACCTCA
66 ACGAGCTCGGATGCCTAGTTACACCTCA
*
30848604 CGAACTCAGACTCAACTTAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
* *
30848669 ATGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
30848684 CAAATATCTT
Statistics
Matches: 157, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 157 1.00
ACGTcount: A:0.30, C:0.29, G:0.18, T:0.22
Consensus pattern (93 bp):
CGAACTCAGACTCAACTCAACGAGTTCAGACGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACACCTCA
Found at i:30858715 original size:48 final size:48
Alignment explanation
Indices: 30858644--30858819 Score: 253
Period size: 48 Copynumber: 3.7 Consensus size: 48
30858634 ATAAGGTCCC
30858644 ATGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
1 ATGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* * * *
30858692 ATGTAAGATCATGCCTGGGACATGCCATCGGCGTGGATATGTGAGCCA
1 ATGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* * * * *
30858740 GTGTAAGACCATGTCTGGGACATGGCATCGGTGCTGATATGTGTGCTA
1 ATGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
* *
30858788 GTGTAAGATCATGTCTGGGACATGGCATCGGC
1 ATGTAAGACCATGTCTGGGACATGGCATCGGC
30858820 ACTAACATGA
Statistics
Matches: 113, Mismatches: 15, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
48 113 1.00
ACGTcount: A:0.23, C:0.19, G:0.32, T:0.26
Consensus pattern (48 bp):
ATGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCA
Found at i:30858809 original size:96 final size:96
Alignment explanation
Indices: 30858645--30858819 Score: 287
Period size: 96 Copynumber: 1.8 Consensus size: 96
30858635 TAAGGTCCCA
*
30858645 TGTAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCAATGTAAGATCATGCCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGCTGATATGTGAGCCAATGTAAGATCATGCCTGG
30858710 GACATGCCATCGGCGTGGATATGTGAGCCAG
66 GACATGCCATCGGCGTGGATATGTGAGCCAG
* * * * *
30858741 TGTAAGACCATGTCTGGGACATGGCATCGGTGCTGATATGTGTGCTAGTGTAAGATCATGTCTGG
1 TGTAAGACCATGTCTGGGACATGGCATCGGCGCTGATATGTGAGCCAATGTAAGATCATGCCTGG
*
30858806 GACATGGCATCGGC
66 GACATGCCATCGGC
30858820 ACTAACATGA
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
96 72 1.00
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.26
Consensus pattern (96 bp):
TGTAAGACCATGTCTGGGACATGGCATCGGCGCTGATATGTGAGCCAATGTAAGATCATGCCTGG
GACATGCCATCGGCGTGGATATGTGAGCCAG
Found at i:30858843 original size:96 final size:96
Alignment explanation
Indices: 30858647--30858865 Score: 251
Period size: 96 Copynumber: 2.3 Consensus size: 96
30858637 AGGTCCCATG
*
30858647 TAAGACCATGTCTGGGACATGGCATCGGCGTTGATATGTGAGCCAATGTAAGATCATGCCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCGCTGATATGTGAGCCAATGTAAGATCATGCCTGGGA
* * * * *
30858712 CATGCCATCGGCGTGGATATGTGAGCCAGTG
66 CATGCCATCGGCCTGAACATGAGAGCCAGTA
* * * * *
30858743 TAAGACCATGTCTGGGACATGGCATCGGTGCTGATATGTGTGCTAGTGTAAGATCATGTCTGGGA
1 TAAGACCATGTCTGGGACATGGCATCGGCGCTGATATGTGAGCCAATGTAAGATCATGCCTGGGA
* ****
30858808 CATGGCATCGGCACT-AACATGAGATTTTGTA
66 CATGCCATCGGC-CTGAACATGAGAGCCAGTA
* * *
30858839 TAAGACCATATCCGGGATATGGCATCG
1 TAAGACCATGTCTGGGACATGGCATCG
30858866 ATATGTGGAT
Statistics
Matches: 103, Mismatches: 19, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
96 102 0.99
97 1 0.01
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.26
Consensus pattern (96 bp):
TAAGACCATGTCTGGGACATGGCATCGGCGCTGATATGTGAGCCAATGTAAGATCATGCCTGGGA
CATGCCATCGGCCTGAACATGAGAGCCAGTA
Found at i:30861729 original size:35 final size:35
Alignment explanation
Indices: 30861690--30861762 Score: 137
Period size: 35 Copynumber: 2.1 Consensus size: 35
30861680 CAGGTATGTG
30861690 ATATATATTATTTATGTGAGATTAATCTGACGAGA
1 ATATATATTATTTATGTGAGATTAATCTGACGAGA
*
30861725 ATATATATTATTTATGTGAGATTGATCTGACGAGA
1 ATATATATTATTTATGTGAGATTAATCTGACGAGA
30861760 ATA
1 ATA
30861763 AAGAATGTGT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.37, C:0.05, G:0.18, T:0.40
Consensus pattern (35 bp):
ATATATATTATTTATGTGAGATTAATCTGACGAGA
Found at i:30863209 original size:43 final size:43
Alignment explanation
Indices: 30863161--30863382 Score: 408
Period size: 43 Copynumber: 5.2 Consensus size: 43
30863151 GCATGAAACT
30863161 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
*
30863204 CGGTGATGTGTATTCGGGCCTTTGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
30863247 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
30863290 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
* **
30863333 CGGTGATGTGTATTCGGGTCTTCGTGCCTAGCAGGCTTAATGC
1 CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
30863376 CGGTGAT
1 CGGTGAT
30863383 TCGAGCAAGG
Statistics
Matches: 174, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
43 174 1.00
ACGTcount: A:0.10, C:0.24, G:0.35, T:0.31
Consensus pattern (43 bp):
CGGTGATGTGTATTCGGGCCTTCGTGCCTAGCAGGCTTCGTGC
Found at i:30863639 original size:29 final size:28
Alignment explanation
Indices: 30863539--30863697 Score: 124
Period size: 29 Copynumber: 5.5 Consensus size: 28
30863529 ATGATTAGAG
* *
30863539 GCACTGTGTGTGCAAATTCCTTTAACCGA
1 GCACTATGTGTGCGAATT-CTTTAACCGA
** **
30863568 GCACTATGTGTGCGAGA-TCGGTAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
*
30863596 GGCACTGTGTGTGCGAATTCCTTTAACCGA
1 -GCACTATGTGTGCGAATT-CTTTAACCGA
** **
30863626 GCACTATGTGTGCGAGA-TCGGTAATTGA
1 GCACTATGTGTGCGA-ATTCTTTAACCGA
* * *
30863654 GGCACTGTGTGTGCGAGTTCTTCAACCGA
1 -GCACTATGTGTGCGAATTCTTTAACCGA
30863683 GCACTATGTGTGCGA
1 GCACTATGTGTGCGA
30863698 GATCGGTCAG
Statistics
Matches: 99, Mismatches: 24, Indels: 15
0.72 0.17 0.11
Matches are distributed among these distances:
28 27 0.27
29 64 0.65
30 8 0.08
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (28 bp):
GCACTATGTGTGCGAATTCTTTAACCGA
Found at i:30863724 original size:58 final size:58
Alignment explanation
Indices: 30863536--30863704 Score: 304
Period size: 58 Copynumber: 2.9 Consensus size: 58
30863526 CGAATGATTA
*
30863536 GAGGCACTGTGTGTGCAAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
30863594 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
* *
30863652 GAGGCACTGTGTGTGCGAGTT-CTTCAACCGAGCACTATGTGTGCGAGATCGGT
1 GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGT
30863705 CAGTGGGCAC
Statistics
Matches: 108, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
57 31 0.29
58 77 0.71
ACGTcount: A:0.22, C:0.20, G:0.30, T:0.28
Consensus pattern (58 bp):
GAGGCACTGTGTGTGCGAATTCCTTTAACCGAGCACTATGTGTGCGAGATCGGTAATT
Found at i:30865575 original size:30 final size:30
Alignment explanation
Indices: 30865523--30865579 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
30865513 TACGAGCATT
*
30865523 GGGGCAAAAGTGCAAATATGTAAAAGTTTA
1 GGGGCAAAAGTGAAAATATGTAAAAGTTTA
*
30865553 GGGGTCAAAA-TGAAAATTTGTAAAAGT
1 GGGG-CAAAAGTGAAAATATGTAAAAGT
30865580 ATGATTTTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 19 0.79
31 5 0.21
ACGTcount: A:0.44, C:0.05, G:0.26, T:0.25
Consensus pattern (30 bp):
GGGGCAAAAGTGAAAATATGTAAAAGTTTA
Found at i:30874973 original size:12 final size:13
Alignment explanation
Indices: 30874957--30874994 Score: 51
Period size: 12 Copynumber: 2.9 Consensus size: 13
30874947 AAGTAATGTA
30874957 AGGTATAATATAT
1 AGGTATAATATAT
*
30874970 -GGTAAAATATAT
1 AGGTATAATATAT
30874982 AGTGTATAATATA
1 AG-GTATAATATA
30874995 ATTTGTAAAC
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
12 11 0.52
13 1 0.05
14 9 0.43
ACGTcount: A:0.47, C:0.00, G:0.16, T:0.37
Consensus pattern (13 bp):
AGGTATAATATAT
Found at i:30875094 original size:52 final size:49
Alignment explanation
Indices: 30875007--30875150 Score: 121
Period size: 52 Copynumber: 2.8 Consensus size: 49
30874997 TTGTAAACAA
* ** *
30875007 AATATATAAT-AATATAAACCATATGATAAGTAATAAAAAAATATATAATAT
1 AATATATAATAAAAATAAAAAATAT-ATAAGAAATAAAAAAATA-A-AATAT
* *
30875058 AATATATAATAAAAATAAAAAATACTATAAGGAATAATATATAATAAAATAT
1 AATATATAATAAAAATAAAAAATA-TATAAGAAATAA-A-AAAATAAAATAT
* *
30875110 GATATGTAATAAAATATAAATAAA-ATATAATGAAATAAAAA
1 AATATATAATAAAA-ATAAA-AAATATATAA-GAAATAAAAA
30875151 TGCTATCATA
Statistics
Matches: 77, Mismatches: 9, Indels: 14
0.77 0.09 0.14
Matches are distributed among these distances:
51 11 0.14
52 43 0.56
53 15 0.19
54 8 0.10
ACGTcount: A:0.64, C:0.02, G:0.05, T:0.29
Consensus pattern (49 bp):
AATATATAATAAAAATAAAAAATATATAAGAAATAAAAAAATAAAATAT
Found at i:30875108 original size:12 final size:12
Alignment explanation
Indices: 30875039--30875138 Score: 66
Period size: 12 Copynumber: 8.1 Consensus size: 12
30875029 ATGATAAGTA
*
30875039 ATAAAAAAATAT
1 ATAATAAAATAT
*
30875051 ATAATATAATAT
1 ATAATAAAATAT
30875063 ATAAT-AAA-A-
1 ATAATAAAATAT
30875072 ATAA-AAAATACT
1 ATAATAAAATA-T
*
30875084 ATAAGGAATAATAT
1 ATAA-TAA-AATAT
30875098 ATAATAAAATATGAT
1 ATAAT-AAA-AT-AT
30875113 ATGTAATAAAATAT
1 A--TAATAAAATAT
30875127 A-AATAAAATAT
1 ATAATAAAATAT
30875138 A
1 A
30875139 ATGAAATAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 25
0.71 0.04 0.25
Matches are distributed among these distances:
9 7 0.10
10 2 0.03
11 13 0.18
12 19 0.26
13 1 0.01
14 14 0.19
15 9 0.12
16 3 0.04
17 4 0.06
ACGTcount: A:0.65, C:0.01, G:0.04, T:0.30
Consensus pattern (12 bp):
ATAATAAAATAT
Found at i:30875114 original size:17 final size:17
Alignment explanation
Indices: 30875094--30875126 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
30875084 ATAAGGAATA
30875094 ATATATAATAAAATATG
1 ATATATAATAAAATATG
*
30875111 ATATGTAATAAAATAT
1 ATATATAATAAAATAT
30875127 AAATAAAATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.06, T:0.36
Consensus pattern (17 bp):
ATATATAATAAAATATG
Found at i:30886468 original size:40 final size:39
Alignment explanation
Indices: 30886431--30886522 Score: 132
Period size: 39 Copynumber: 2.3 Consensus size: 39
30886421 GCTACTCGTT
*
30886431 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGG-CATAGCCCGGAAT-TAGTAACTCGCA
* *
30886471 CAAATGCCTTCGGGCTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
30886510 CAAATGCCTTCGG
1 CAAATGCCTTCGG
30886523 ATCTTAGTCC
Statistics
Matches: 48, Mismatches: 3, Indels: 3
0.89 0.06 0.06
Matches are distributed among these distances:
39 33 0.69
40 15 0.31
ACGTcount: A:0.25, C:0.28, G:0.23, T:0.24
Consensus pattern (39 bp):
CAAATGCCTTCGGGCATAGCCCGGAATTAGTAACTCGCA
Found at i:30886502 original size:39 final size:40
Alignment explanation
Indices: 30886412--30886575 Score: 176
Period size: 40 Copynumber: 4.1 Consensus size: 40
30886402 CGGAATTTAA
** *
30886412 CCGGATATAGCT-ACTCGTTCAAATGCCTTCGGGACATAGC
1 CCGGATATAG-TAACTCGCACAAATGCCTTCGGGACTTAGC
*
30886452 CCGGTTATAGTAACTCGCACAAATGCCTTCGGG-CTTAGC
1 CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
* *
30886491 CCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGT
1 CCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAGC
* * *
30886531 CCGGATATGGTCACTTAGCACAAA-GCCTTCGGGACTTAGC
1 CCGGATATAGTAAC-TCGCACAAATGCCTTCGGGACTTAGC
30886571 CCGGA
1 CCGGA
30886576 CATCATTCAA
Statistics
Matches: 105, Mismatches: 12, Indels: 14
0.80 0.09 0.11
Matches are distributed among these distances:
38 3 0.03
39 32 0.30
40 58 0.55
41 12 0.11
ACGTcount: A:0.24, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAGC
Found at i:30904408 original size:26 final size:25
Alignment explanation
Indices: 30904369--30904417 Score: 62
Period size: 26 Copynumber: 1.9 Consensus size: 25
30904359 ACCTGGGTTG
*
30904369 TATGAATTGCTACATGGTTGTACTT
1 TATGAATTGCTACAAGGTTGTACTT
* *
30904394 TATGAGATTTCTACAAGTTTGTAC
1 TATGA-ATTGCTACAAGGTTGTAC
30904418 GTAAATAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 5 0.25
26 15 0.75
ACGTcount: A:0.27, C:0.12, G:0.18, T:0.43
Consensus pattern (25 bp):
TATGAATTGCTACAAGGTTGTACTT
Found at i:30910646 original size:49 final size:49
Alignment explanation
Indices: 30910567--30910794 Score: 285
Period size: 49 Copynumber: 4.6 Consensus size: 49
30910557 TCTAATGTGA
*
30910567 GGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
* * * * *
30910616 GGTCGCATGTGTAGTACTAAGTGCAAGCTACTATGCGTACCTGATAACTTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA--TT
* * * * * **
30910667 GATCACGTGTGCAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
*
30910716 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
**
30910766 GGTTGCATGTGTAGTACTAAGTGCAGGCT
1 GGTCACATGTGTAGTACTAAGTGCAGGCT
30910795 GCTATGCATA
Statistics
Matches: 150, Mismatches: 26, Indels: 6
0.82 0.14 0.03
Matches are distributed among these distances:
49 69 0.46
50 43 0.29
51 38 0.25
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
Found at i:30910703 original size:28 final size:28
Alignment explanation
Indices: 30910671--30910754 Score: 74
Period size: 28 Copynumber: 3.2 Consensus size: 28
30910661 AACTTTGATC
30910671 ACGTGTGCAGTACTAAGTGCAGGCTACT
1 ACGTGTGCAGTACTAAGTGCAGGCTACT
* * *
30910699 ACGTGTATCAG-A-T-GGT-TAGG-T-C-
1 ACGTGT-GCAGTACTAAGTGCAGGCTACT
*
30910721 ACGTGTGTAGTACTAAGTGCAGGCTACT
1 ACGTGTGCAGTACTAAGTGCAGGCTACT
30910749 ACGTGT
1 ACGTGT
30910755 ACCGGATAAT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
21 2 0.05
22 7 0.17
23 2 0.05
24 3 0.07
25 6 0.15
26 3 0.07
27 2 0.05
28 13 0.32
29 3 0.07
ACGTcount: A:0.24, C:0.18, G:0.30, T:0.29
Consensus pattern (28 bp):
ACGTGTGCAGTACTAAGTGCAGGCTACT
Found at i:30912554 original size:48 final size:48
Alignment explanation
Indices: 30912479--30912759 Score: 242
Period size: 48 Copynumber: 5.8 Consensus size: 48
30912469 GTTATGTGAA
* *
30912479 CTAGTGTAAGACCACGTTTGGAACATGGCATCGACATTGATATGAGAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGACATTGATATGAGAG
* * * * * * *
30912527 CTAATGTAAGACCCTGTCTGGGACATGGCATCAACCTCGATATGTGAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGACATTGATATGAGAG
* * * * *
30912575 CTAGTGTAAAACCATGTTTGAAACATGGCATCGGCATTTATATATGAGAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGACA-TT-GATATGAGAG
* * * * * ** * *
30912625 CTAGTGTAAGACCATGTCTGGGACATGGTATTGGCCTCAACATGTGAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATCGACATTGATATGAGAG
* *
30912673 CTAGTGTAAGACCATGTTTGGAACATGGCATCAGCACCAAT-ATATGAGAG
1 CTAGTGTAAGACCATGTCTGGAACATGGCATC-G-A-CATTGATATGAGAG
* * *
30912723 CCAGTGTAAGACCATGTCTAGG-ACATGACATCAACAT
1 CTAGTGTAAGACCATGTCT-GGAACATGGCATCGACAT
30912760 CTTACCCTTT
Statistics
Matches: 180, Mismatches: 47, Indels: 13
0.75 0.20 0.05
Matches are distributed among these distances:
47 2 0.01
48 102 0.57
49 3 0.02
50 70 0.39
51 3 0.02
ACGTcount: A:0.31, C:0.19, G:0.25, T:0.26
Consensus pattern (48 bp):
CTAGTGTAAGACCATGTCTGGAACATGGCATCGACATTGATATGAGAG
Found at i:30912650 original size:98 final size:97
Alignment explanation
Indices: 30912471--30912757 Score: 369
Period size: 98 Copynumber: 2.9 Consensus size: 97
30912461 ATACCAGGGT
* * * * *
30912471 TATGTGAACTAGTGTAAGACCACGTTTGGAACATGGCATCGACATT-GATATGAGAGCTAATGTA
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATATATGAGAGCTAGTGTA
* *
30912535 AGACCCTGTCTGGGACATGGCATCAACCTCGA
66 AGACCATGTCTGGGACATGGCATCAACCTCAA
* *
30912567 TATGTGAGCTAGTGTAAAACCATGTTTGAAACATGGCATCGGCATTTATATATGAGAGCTAGTGT
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-TTATATATGAGAGCTAGTGT
* ***
30912632 AAGACCATGTCTGGGACATGGTATTGGCCTCAA
65 AAGACCATGTCTGGGACATGGCATCAACCTCAA
* * ** *
30912665 CATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCAGCACCAATATATGAGAGCCAGTGT
1 TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCA-TTATATATGAGAGCTAGTGT
* *
30912730 AAGACCATGTCTAGGACATGACATCAAC
65 AAGACCATGTCTGGGACATGGCATCAAC
30912758 ATCTTACCCT
Statistics
Matches: 162, Mismatches: 27, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
96 39 0.24
97 2 0.01
98 121 0.75
ACGTcount: A:0.31, C:0.18, G:0.25, T:0.26
Consensus pattern (97 bp):
TATGTGAGCTAGTGTAAGACCATGTTTGGAACATGGCATCGGCATTATATATGAGAGCTAGTGTA
AGACCATGTCTGGGACATGGCATCAACCTCAA
Found at i:30914368 original size:28 final size:27
Alignment explanation
Indices: 30914272--30914373 Score: 89
Period size: 28 Copynumber: 3.7 Consensus size: 27
30914262 TAAATATCGC
* *
30914272 CCACTAGGCCCAATCTCTTTCATATGG
1 CCACTAGGCCCAATCACATTCATATGG
* * * * *
30914299 CC-CATTGGCCCATTCATATTTATGTGG
1 CCAC-TAGGCCCAATCACATTCATATGG
*
30914326 CCTATTAGGCCCAAATCACATTCATATGG
1 CC-ACTAGGCCC-AATCACATTCATATGG
30914355 CCACTAGGCCCAAATCACA
1 CCACTAGGCCC-AATCACA
30914374 CTTACAATTA
Statistics
Matches: 57, Mismatches: 14, Indels: 7
0.73 0.18 0.09
Matches are distributed among these distances:
26 1 0.02
27 20 0.35
28 22 0.39
29 14 0.25
ACGTcount: A:0.26, C:0.31, G:0.15, T:0.27
Consensus pattern (27 bp):
CCACTAGGCCCAATCACATTCATATGG
Found at i:30914624 original size:16 final size:16
Alignment explanation
Indices: 30914590--30914624 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
30914580 GTAGCCAAAC
*
30914590 TTTCAACTTTTCGGCA
1 TTTCAACTTTGCGGCA
*
30914606 TTTCAACTTTGCGGGA
1 TTTCAACTTTGCGGCA
30914622 TTT
1 TTT
30914625 GCCGATCTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.17, C:0.20, G:0.17, T:0.46
Consensus pattern (16 bp):
TTTCAACTTTGCGGCA
Found at i:30918063 original size:43 final size:42
Alignment explanation
Indices: 30917977--30918100 Score: 133
Period size: 43 Copynumber: 2.9 Consensus size: 42
30917967 TTTTTATCCT
* *
30917977 AAAATAATAATTTAAAAA-TGATAAGATAATCTTGGGTTGTTG
1 AAAA-AATAATTTAAAAAGAGATAAGATAAACTTGGGTTGTTG
* * * *
30918019 AAAAAATAATTTAAAAAGAGAAGAAGATAACCTTAGGTTTTTG
1 AAAAAATAATTTAAAAAGAG-ATAAGATAAACTTGGGTTGTTG
* * *
30918062 AAAGAAGAATTTAAAAGGAGGATAAGATAAACTTGGGTT
1 AAAAAATAATTTAAAAAGA-GATAAGATAAACTTGGGTT
30918101 CTTAGATTTA
Statistics
Matches: 68, Mismatches: 11, Indels: 5
0.81 0.13 0.06
Matches are distributed among these distances:
41 13 0.19
42 5 0.07
43 49 0.72
44 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.19, T:0.29
Consensus pattern (42 bp):
AAAAAATAATTTAAAAAGAGATAAGATAAACTTGGGTTGTTG
Found at i:30921784 original size:134 final size:133
Alignment explanation
Indices: 30921545--30921794 Score: 351
Period size: 134 Copynumber: 1.9 Consensus size: 133
30921535 TAAATGGGTA
* ** *
30921545 TGCTCACACAAGTTGATAGTCCGAATGTAATTACACGATACCGCTCACACAAGCTGGTGAGTATC
1 TGCTCACACAAGTAGATAGTAAGAATGTAATTACACGATACCGCTCACACAAGCTGATGAGTATC
* * *
30921610 TATAACAAATGTCAAAACCCAACCATCGGTAGGACATTCAAGACCAGCACCTTGAACATAGTAAC
66 TACAACAAATGTCAAAACCCAACCATCGATAGGACATTCAAGACAAGCACCTTGAACATAGTAAC
30921675 CTC
131 CTC
* * *
30921678 TGCTCACACAAGTAGATGGTAAGAATGTAAGTTACACGAT-GCGACTCATACAAGCTGATGAGTA
1 TGCTCACACAAGTAGATAGTAAGAATGTAA-TTACACGATACCG-CTCACACAAGCTGATGAGTA
* *
30921742 TCTGCAACAAATGTC-GAACCTCAACCATCGATAGGACATTCAAGACAAGCACC
64 TCTACAACAAATGTCAAAACC-CAACCATCGATAGGACATTCAAGACAAGCACC
30921795 CGAAGCGTGG
Statistics
Matches: 102, Mismatches: 12, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
133 32 0.31
134 70 0.69
ACGTcount: A:0.36, C:0.25, G:0.18, T:0.21
Consensus pattern (133 bp):
TGCTCACACAAGTAGATAGTAAGAATGTAATTACACGATACCGCTCACACAAGCTGATGAGTATC
TACAACAAATGTCAAAACCCAACCATCGATAGGACATTCAAGACAAGCACCTTGAACATAGTAAC
CTC
Found at i:30923139 original size:33 final size:34
Alignment explanation
Indices: 30923079--30923147 Score: 122
Period size: 33 Copynumber: 2.1 Consensus size: 34
30923069 CTTTTAGAGA
30923079 GAAAGAAATGAGAAAAAGGCAAGATGAAAGTTGG
1 GAAAGAAATGAGAAAAAGGCAAGATGAAAGTTGG
*
30923113 GAAAGAAATGAG-AAAATGCAAGATGAAAGTTGG
1 GAAAGAAATGAGAAAAAGGCAAGATGAAAGTTGG
30923146 GA
1 GA
30923148 CACTATAATG
Statistics
Matches: 34, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
33 22 0.65
34 12 0.35
ACGTcount: A:0.52, C:0.03, G:0.32, T:0.13
Consensus pattern (34 bp):
GAAAGAAATGAGAAAAAGGCAAGATGAAAGTTGG
Found at i:30924346 original size:11 final size:11
Alignment explanation
Indices: 30924330--30924354 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
30924320 CATCAATAGC
30924330 CTATGGAACTA
1 CTATGGAACTA
30924341 CTATGGAACTA
1 CTATGGAACTA
30924352 CTA
1 CTA
30924355 CGATCAATCG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.36, C:0.20, G:0.16, T:0.28
Consensus pattern (11 bp):
CTATGGAACTA
Found at i:30926601 original size:48 final size:48
Alignment explanation
Indices: 30926530--30926856 Score: 381
Period size: 48 Copynumber: 6.8 Consensus size: 48
30926520 TTTGGGTGAT
*
30926530 ATGAGAGCTAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACAAC
1 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACAAC
* * * ***
30926578 ATGAGAGCCAATGTAAGACCATGTTTGGGATATGGCATCGGCCACCTT
1 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACAAC
30926626 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACAAC
1 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACAAC
* * * ** *
30926674 ATGAGAGCTAGTGTAAG-CTCATGTTTGGGACATGGCA-TCGACATTGAT
1 ATGAGAGCCAGTGTAAGAC-CATGTTTGGGACATGGCATTGGCCA-CAAC
* * * ***
30926722 AT-ATGTGCTAGTGTAAGACCATGTTTGGGACATGGCATCGGCCACCTT
1 ATGA-GAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACAAC
* *
30926770 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATTTGGCCTCAAC
1 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCA-TTGGCCACAAC
* **
30926819 ATGTGAGCCAGTGTAAGACCATGTTTGAAACATGGCAT
1 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCAT
30926857 CGAGAATTCA
Statistics
Matches: 234, Mismatches: 38, Indels: 14
0.82 0.13 0.05
Matches are distributed among these distances:
47 6 0.03
48 184 0.79
49 44 0.19
ACGTcount: A:0.28, C:0.19, G:0.28, T:0.25
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCACAAC
Found at i:30926790 original size:144 final size:145
Alignment explanation
Indices: 30926589--30926859 Score: 456
Period size: 144 Copynumber: 1.9 Consensus size: 145
30926579 TGAGAGCCAA
* *
30926589 TGTAAGACCATGTTTGGGATATGGCATCGGCCACCTTATGAGAGCCAGTGTAAGACCATGTTTGG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCCACCTTATGAGAGCCAGTGTAAGACCATGTCTGG
* **
30926654 GACATGGCA-TTGGCCACAACATGAGAGCTAGTGTAAG-CTCATGTTTGGGACATGGCATCGACA
66 GACATGGCATTTGGCCACAACATGAGAGCCAGTGTAAGAC-CATGTTTGAAACATGGCATCGACA
30926717 TTGATATATGTGCTAG
130 TTGATATATGTGCTAG
30926733 TGTAAGACCATGTTTGGGACATGGCATCGGCCACCTTATGAGAGCCAGTGTAAGACCATGTCTGG
1 TGTAAGACCATGTTTGGGACATGGCATCGGCCACCTTATGAGAGCCAGTGTAAGACCATGTCTGG
* *
30926798 GACATGGCATTTGGCCTCAACATGTGAGCCAGTGTAAGACCATGTTTGAAACATGGCATCGA
66 GACATGGCATTTGGCCACAACATGAGAGCCAGTGTAAGACCATGTTTGAAACATGGCATCGA
30926860 GAATTCACTC
Statistics
Matches: 118, Mismatches: 7, Indels: 3
0.92 0.05 0.02
Matches are distributed among these distances:
144 72 0.61
145 45 0.38
146 1 0.01
ACGTcount: A:0.27, C:0.20, G:0.28, T:0.26
Consensus pattern (145 bp):
TGTAAGACCATGTTTGGGACATGGCATCGGCCACCTTATGAGAGCCAGTGTAAGACCATGTCTGG
GACATGGCATTTGGCCACAACATGAGAGCCAGTGTAAGACCATGTTTGAAACATGGCATCGACAT
TGATATATGTGCTAG
Found at i:30936910 original size:68 final size:68
Alignment explanation
Indices: 30936760--30936917 Score: 160
Period size: 68 Copynumber: 2.3 Consensus size: 68
30936750 CTAGCCAATT
* * *
30936760 TATCTCGTAGCTCTCTTGTCTACATGGTGTCCTTCACTTGGAATCACACATGCGACCTAGCTACA
1 TATCTCGTAGCTCTCTTGTCTACATGGTGTACAT-ACTTCGAATCACACATGCGACCTAGCTACA
**
30936825 TTTA
65 CATA
* * *
30936829 TCTCTCCCGTAGCTCTCTTGTCTACATGG-GATACAT-C-TCGTATCACACATGTGACCTAGCTA
1 TATCT--CGTAGCTCTCTTGTCTACATGGTG-TACATACTTCGAATCACACATGCGACCTAGCTA
30936891 CTACATA
63 C-ACATA
*
30936898 GTATCTCGTAGCTTTCTTGT
1 -TATCTCGTAGCTCTCTTGT
30936918 ACACATGATG
Statistics
Matches: 74, Mismatches: 10, Indels: 11
0.78 0.11 0.12
Matches are distributed among these distances:
68 36 0.49
69 8 0.11
70 5 0.07
71 25 0.34
ACGTcount: A:0.21, C:0.28, G:0.16, T:0.35
Consensus pattern (68 bp):
TATCTCGTAGCTCTCTTGTCTACATGGTGTACATACTTCGAATCACACATGCGACCTAGCTACAC
ATA
Found at i:30943673 original size:48 final size:48
Alignment explanation
Indices: 30943564--30943796 Score: 211
Period size: 48 Copynumber: 4.9 Consensus size: 48
30943554 TTTGGGTGAT
* * **
30943564 ATGAGAGCCAATGTAAGACCATGTCTGGGACATGGAATC-A--ACATTG
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACA-AC
* * * *
30943610 ATGTGTGCGCTAGTGTAAGACTATGGCTGGGACATGGCATCGACCACAAC
1 ATGAGAGC-C-AGTGTAAGACCATGTCTGGGACATGGCATCGACCACAAC
* * * ***
30943660 ATAAGAGCCAGTGTAAGACCATGTCTGGGACATGTCATCGGCCACCTT
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACAAC
* * * * *
30943708 ATGAGAGCCAGTGTAAGACCATGTTTGGGACATGGCATTGGCCTCGAC
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACAAC
* * * *
30943756 ATGTGAGCCAGTGCAAGACCATGTTTGGAACATGGCATCGA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGA
30943797 TAATCCAGCC
Statistics
Matches: 151, Mismatches: 31, Indels: 8
0.79 0.16 0.04
Matches are distributed among these distances:
46 6 0.04
47 1 0.01
48 134 0.89
49 2 0.01
50 5 0.03
51 3 0.02
ACGTcount: A:0.28, C:0.21, G:0.28, T:0.22
Consensus pattern (48 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACCACAAC
Found at i:30943737 original size:96 final size:96
Alignment explanation
Indices: 30943621--30943795 Score: 233
Period size: 96 Copynumber: 1.8 Consensus size: 96
30943611 TGTGTGCGCT
* *
30943621 AGTGTAAGACTATGGCTGGGACATGGCATCGACCACAACATAAGAGCCAGTGTAAGACCATGTCT
1 AGTGTAAGACCATGGCTGGGACATGGCATCGACCACAACATAAGAGCCAGTGCAAGACCATGTCT
* *
30943686 GGGACATGTCATCGGCCACCTTATGAGAGCC
66 GGAACATGGCATCGGCCACCTTATGAGAGCC
** * * * * ** *
30943717 AGTGTAAGACCATGTTTGGGACATGGCATTGGCCTCGACATGTGAGCCAGTGCAAGACCATGTTT
1 AGTGTAAGACCATGGCTGGGACATGGCATCGACCACAACATAAGAGCCAGTGCAAGACCATGTCT
30943782 GGAACATGGCATCG
66 GGAACATGGCATCG
30943796 ATAATCCAGC
Statistics
Matches: 66, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
96 66 1.00
ACGTcount: A:0.27, C:0.22, G:0.29, T:0.22
Consensus pattern (96 bp):
AGTGTAAGACCATGGCTGGGACATGGCATCGACCACAACATAAGAGCCAGTGCAAGACCATGTCT
GGAACATGGCATCGGCCACCTTATGAGAGCC
Found at i:30951941 original size:40 final size:39
Alignment explanation
Indices: 30951850--30952000 Score: 196
Period size: 40 Copynumber: 3.8 Consensus size: 39
30951840 TGGATGAAAA
* ** * *
30951850 CCGGGCTAAGTCCCGAAGGCATCTGCACTAGTGACTAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
30951889 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AAT
*
30951929 CCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTACTCTAA-
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA--CTAAT
* *
30951969 CCGGGCTATGTCCCGAAGGCATTTGAGCGAGT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGT
30952001 AGTTATATCC
Statistics
Matches: 100, Mismatches: 9, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
39 31 0.31
40 65 0.65
41 2 0.02
42 2 0.02
ACGTcount: A:0.24, C:0.25, G:0.28, T:0.23
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAT
Found at i:30953590 original size:22 final size:22
Alignment explanation
Indices: 30953556--30953604 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
30953546 TACTAACATG
*
30953556 TATATATACTATATATTTTTAT
1 TATATATACTATACATTTTTAT
*
30953578 TATAT-TACGTATACGTTTTTAT
1 TATATATAC-TATACATTTTTAT
30953600 T-TATA
1 TATATA
30953605 CGCCATGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
21 6 0.26
22 17 0.74
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (22 bp):
TATATATACTATACATTTTTAT
Found at i:30960752 original size:48 final size:48
Alignment explanation
Indices: 30960694--30960964 Score: 221
Period size: 48 Copynumber: 5.6 Consensus size: 48
30960684 CATACGGTGT
* * *
30960694 CGATGCCATGTCCTAGACATGGTCTTACACTGACACGTATAACAAAGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCGTATAACAAGGC
* * * ** * *
30960742 CGATGCCATGTTCCAAAAATGGTCTTACACTGGGTCGCATATTC-AGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCGTATA-ACAAGGC
* * * ***
30960790 CGATGCCATGTGCTAGACATGGTCTTACCCTGGA-TC-TCATAATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-GACTCGT-ATAACAAGGC
* * *
30960838 CGATGCCATGTCCCAGACATGGTCTTACACTAGTAC-AG-ATATCAACGC
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACTCGTATAACAAGGC
* * ****
30960886 CGGTGCCATGTCCCAGACATGGTCTTACACTGGCTC-TCATAATGTTGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACTCGT-ATAACAAGGC
30960934 CGATGCCATGTCCCAGACATGGTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
30960965 AGTACACATA
Statistics
Matches: 174, Mismatches: 39, Indels: 20
0.75 0.17 0.09
Matches are distributed among these distances:
46 1 0.01
47 1 0.01
48 169 0.97
49 3 0.02
ACGTcount: A:0.25, C:0.28, G:0.21, T:0.26
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACTCGTATAACAAGGC
Found at i:30960840 original size:96 final size:96
Alignment explanation
Indices: 30960694--30960975 Score: 322
Period size: 96 Copynumber: 2.9 Consensus size: 96
30960684 CATACGGTGT
* * **** *
30960694 CGATGCCATGTCCTAGACATGGTCTTACACT-GA-CACGTATAACAAAGCCGATGCCATGTTCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGATCTC--ATAATGTGGCCGATGCCATGTCCCA
* * * *
30960757 AAAATGGTCTTACACTGGGT-C-GCATATTC-AGGC
64 GACATGGTCTTACACT-AGTACAG-ATA-TCAACGC
* * *
30960790 CGATGCCATGTGCTAGACATGGTCTTACCCTGGATCTCATAATGTGGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATAATGTGGCCGATGCCATGTCCCAGA
30960855 CATGGTCTTACACTAGTACAGATATCAACGC
66 CATGGTCTTACACTAGTACAGATATCAACGC
* * *
30960886 CGGTGCCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTTGCCGATGCCATGTCCCAGA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATAATGTGGCCGATGCCATGTCCCAGA
*
30960951 CATGGTCTTACACTAGTACACATAT
66 CATGGTCTTACACTAGTACAGATAT
30960976 GAACCAAATG
Statistics
Matches: 162, Mismatches: 19, Indels: 10
0.85 0.10 0.05
Matches are distributed among these distances:
95 4 0.02
96 153 0.94
97 3 0.02
98 2 0.01
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (96 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGATCTCATAATGTGGCCGATGCCATGTCCCAGA
CATGGTCTTACACTAGTACAGATATCAACGC
Found at i:30960908 original size:144 final size:144
Alignment explanation
Indices: 30960694--30960961 Score: 369
Period size: 144 Copynumber: 1.9 Consensus size: 144
30960684 CATACGGTGT
* *
30960694 CGATGCCATGTCCTAGACATGGTCTTACACTGACACGTATAACAAAGCCGATGCCATGTTCCAAA
1 CGATGCCATGTCCCAGACATGGTCTTACACTGACACGTATAACAAAGCCGATGCCATGTCCCAAA
* * * *
30960759 AATGGTCTTACACTGGGTCGCATATTCAGGCCGATGCCATGTGCTAGACATGGTCTTACCCTGGA
66 AATGGTCTTACACTGGCTCGCATAATCAGGCCGATGCCATGTCCCAGACATGGTCTTACCCTGGA
30960824 TCTCATAATGTGGC
131 TCTCATAATGTGGC
* * *
30960838 CGATGCCATGTCCCAGACATGGTCTTACACTAGTACA-G-ATATCAACGCCGGTGCCATGTCCCA
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-ACACGTATAACAAAGCCGATGCCATGTCCCA
* * * ***
30960901 GACATGGTCTTACACTGGCTCTCATAATGTTGCCGATGCCATGTCCCAGACATGGTCTTAC
64 AAAATGGTCTTACACTGGCTCGCATAATCAGGCCGATGCCATGTCCCAGACATGGTCTTAC
30960962 ACTAGTACAC
Statistics
Matches: 107, Mismatches: 15, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
144 102 0.95
145 2 0.02
146 3 0.03
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.26
Consensus pattern (144 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGACACGTATAACAAAGCCGATGCCATGTCCCAAA
AATGGTCTTACACTGGCTCGCATAATCAGGCCGATGCCATGTCCCAGACATGGTCTTACCCTGGA
TCTCATAATGTGGC
Found at i:30962918 original size:40 final size:40
Alignment explanation
Indices: 30962834--30962925 Score: 109
Period size: 40 Copynumber: 2.3 Consensus size: 40
30962824 GTTTGAATAG
*
30962834 AAAACGCCACTAAAGATTGAGCATTAGCAGCGATTCCCTC
1 AAAACGCCACTAAAGATCGAGCATTAGCAGCGATTCCCTC
* *
30962874 AAAACGCC-GTAATAGATCGAGCATTAGC-GACGCTT-CCTC
1 AAAACGCCACTAA-AGATCGAGCATTAGCAG-CGATTCCCTC
30962913 AAAAACGCCACTA
1 -AAAACGCCACTA
30962926 TATGTCGACC
Statistics
Matches: 44, Mismatches: 4, Indels: 7
0.80 0.07 0.13
Matches are distributed among these distances:
39 8 0.18
40 34 0.77
41 2 0.05
ACGTcount: A:0.36, C:0.28, G:0.17, T:0.18
Consensus pattern (40 bp):
AAAACGCCACTAAAGATCGAGCATTAGCAGCGATTCCCTC
Found at i:30963878 original size:120 final size:120
Alignment explanation
Indices: 30963720--30964067 Score: 669
Period size: 120 Copynumber: 2.9 Consensus size: 120
30963710 GGTAACTATC
30963720 TATTTTGGATAGGACCAAATTATAACAAATTAAATAAGGTCTTATTTTTATTTTGAATTTGATTG
1 TATTTTGGATAGGACCAAATTATAACAAATTAAATAAGGTCTTATTTTTATTTTGAATTTGATTG
30963785 TATTTCGAACATATCTGAAACTGACTTTATAAACAATATAAATTAACTACACCAT
66 TATTTCGAACATATCTGAAACTGACTTTATAAACAATATAAATTAACTACACCAT
30963840 TATTTTGGATAGGACCAAATTATAACAAATTAAATAAGGTCTTATTTTTATTTTGAATTTGATTG
1 TATTTTGGATAGGACCAAATTATAACAAATTAAATAAGGTCTTATTTTTATTTTGAATTTGATTG
30963905 TATTTCGAACATATCTGAAACTGACTTTATAAACAATATAAATTAACTACACCAT
66 TATTTCGAACATATCTGAAACTGACTTTATAAACAATATAAATTAACTACACCAT
*
30963960 TATTTTGGATAGGACCAAATTATAACAAATTAAATAAGGTCTTATTTTTATTTTGAATTTGATTT
1 TATTTTGGATAGGACCAAATTATAACAAATTAAATAAGGTCTTATTTTTATTTTGAATTTGATTG
* *
30964025 TATTTCGAGCATATCTGAAACCGACTTTATAAACAATATAAAT
66 TATTTCGAACATATCTGAAACTGACTTTATAAACAATATAAAT
30964068 CTTTATAAAC
Statistics
Matches: 225, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
120 225 1.00
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (120 bp):
TATTTTGGATAGGACCAAATTATAACAAATTAAATAAGGTCTTATTTTTATTTTGAATTTGATTG
TATTTCGAACATATCTGAAACTGACTTTATAAACAATATAAATTAACTACACCAT
Found at i:30964073 original size:19 final size:19
Alignment explanation
Indices: 30964049--30964086 Score: 76
Period size: 19 Copynumber: 2.0 Consensus size: 19
30964039 CTGAAACCGA
30964049 CTTTATAAACAATATAAAT
1 CTTTATAAACAATATAAAT
30964068 CTTTATAAACAATATAAAT
1 CTTTATAAACAATATAAAT
30964087 TAACTACACC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.53, C:0.11, G:0.00, T:0.37
Consensus pattern (19 bp):
CTTTATAAACAATATAAAT
Found at i:30964434 original size:68 final size:66
Alignment explanation
Indices: 30964271--30964487 Score: 194
Period size: 66 Copynumber: 3.3 Consensus size: 66
30964261 AATAACCCTT
* * ** *
30964271 TAAA-CCCAAAGCCCTAAATCTCTAATCATAAACCCATAAAACTATAAACACTAACAA--ATAA-
1 TAAACCCCAAA-CCCTAAATCTCAAATCATAAACCCTTAAAACTCCAAACAC-AA-AACCCTAAC
30964332 CCCA
63 CCCA
* * * ** *
30964336 TTCAACACCAGACCCTAAATCTCAAATCATAAACTTTTAAAATTACTCTAAACA-ATAAACCCTA
1 -TAAACCCCAAACCCTAAATCTCAAATCATAAACCCTT-AAA--ACTCCAAACACA-AAACCCTA
30964400 A-CCCA
61 ACCCCA
* *
30964405 TACACCCTAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCCAAACACAAAACCCTAACCCC
1 TAAACCCCAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCCAAACACAAAACCCTAACCCC
*
30964470 T
66 A
30964471 TAAACCCCAAACCCTAA
1 TAAACCCCAAACCCTAA
30964488 CACTAACCTC
Statistics
Matches: 122, Mismatches: 20, Indels: 18
0.76 0.12 0.11
Matches are distributed among these distances:
65 18 0.15
66 44 0.36
67 13 0.11
68 31 0.25
69 16 0.13
ACGTcount: A:0.47, C:0.33, G:0.01, T:0.20
Consensus pattern (66 bp):
TAAACCCCAAACCCTAAATCTCAAATCATAAACCCTTAAAACTCCAAACACAAAACCCTAACCCC
A
Found at i:30964580 original size:22 final size:22
Alignment explanation
Indices: 30964528--30964580 Score: 65
Period size: 22 Copynumber: 2.5 Consensus size: 22
30964518 CTTAAATTCC
30964528 AAACCCT-AAACTATAAACCAT
1 AAACCCTAAAACTATAAACCAT
* *
30964549 AAATCATAAAATCT-TAAACCAT
1 AAACCCTAAAA-CTATAAACCAT
30964571 AAACCCTAAA
1 AAACCCTAAA
30964581 TTCTAAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
21 5 0.19
22 19 0.73
23 2 0.08
ACGTcount: A:0.55, C:0.25, G:0.00, T:0.21
Consensus pattern (22 bp):
AAACCCTAAAACTATAAACCAT
Found at i:30967796 original size:27 final size:27
Alignment explanation
Indices: 30967766--30967819 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
30967756 TTTATGTTAG
30967766 ATATATATCATATAATAACTTACATAA
1 ATATATATCATATAATAACTTACATAA
30967793 ATATATATCATATAATAACTTACATAA
1 ATATATATCATATAATAACTTACATAA
30967820 CTTACATAAC
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:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (27 bp):
ATATATATCATATAATAACTTACATAA
Found at i:30967818 original size:14 final size:14
Alignment explanation
Indices: 30967774--30967818 Score: 51
Period size: 14 Copynumber: 3.3 Consensus size: 14
30967764 AGATATATAT
30967774 CATATAATAACTTA
1 CATATAATAACTTA
30967788 CATA-AAT-A-TATA
1 CATATAATAACT-TA
30967800 TCATATAATAACTTA
1 -CATATAATAACTTA
30967815 CATA
1 CATA
30967819 ACTTACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 10
0.72 0.00 0.28
Matches are distributed among these distances:
11 1 0.04
12 3 0.12
13 7 0.27
14 11 0.42
15 3 0.12
16 1 0.04
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (14 bp):
CATATAATAACTTA
Found at i:30967819 original size:9 final size:9
Alignment explanation
Indices: 30967807--30967856 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
30967797 ATATCATATA
30967807 ATAACTTAC
1 ATAACTTAC
30967816 ATAACTTAC
1 ATAACTTAC
30967825 ATAACTTAC
1 ATAACTTAC
30967834 -TAAACTTAC
1 AT-AACTTAC
*
30967843 TTAACTTAC
1 ATAACTTAC
*
30967852 GTAAC
1 ATAAC
30967857 ACATAAATAT
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
8 1 0.03
9 36 0.95
10 1 0.03
ACGTcount: A:0.42, C:0.22, G:0.02, T:0.34
Consensus pattern (9 bp):
ATAACTTAC
Found at i:30968784 original size:31 final size:31
Alignment explanation
Indices: 30968746--30968886 Score: 237
Period size: 31 Copynumber: 4.5 Consensus size: 31
30968736 TTTAACGGTT
30968746 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
30968777 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
30968808 ACTGGGCCGAAGCCTTATCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
30968839 ACTAGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
30968870 ATTAGGCCGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
30968887 ACTGTAAACG
Statistics
Matches: 106, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 106 1.00
ACGTcount: A:0.30, C:0.26, G:0.16, T:0.28
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:30969164 original size:25 final size:25
Alignment explanation
Indices: 30969106--30969199 Score: 136
Period size: 25 Copynumber: 3.8 Consensus size: 25
30969096 CTCTTTTAAT
* *
30969106 AACTGGGGAAAAGCCCTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
30969130 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
30969155 AACTGAGGCAAAGCCCTTCTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
*
30969180 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
30969200 AGCACTTCCT
Statistics
Matches: 62, Mismatches: 7, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
24 19 0.31
25 43 0.69
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:30970037 original size:27 final size:27
Alignment explanation
Indices: 30970007--30970108 Score: 100
Period size: 27 Copynumber: 3.8 Consensus size: 27
30969997 GGGCATATTC
* *
30970007 GTCATTTTACCATACAAGGGTATTATG
1 GTCATTTTACCCTACAAGGGTATTATA
* *
30970034 GTCACTTTACCCTACAGGGGCT-TTATA
1 GTCATTTTACCCTACAAGGG-TATTATA
* * *
30970061 GTCTTTTTA-CCTAATAAGGGTATTTTA
1 GTCATTTTACCCT-ACAAGGGTATTATA
*
30970088 GTCATTTCACCCTACAAGGGT
1 GTCATTTTACCCTACAAGGGT
30970109 GTTTTGGTAA
Statistics
Matches: 59, Mismatches: 12, Indels: 8
0.75 0.15 0.10
Matches are distributed among these distances:
26 4 0.07
27 51 0.86
28 4 0.07
ACGTcount: A:0.25, C:0.20, G:0.18, T:0.37
Consensus pattern (27 bp):
GTCATTTTACCCTACAAGGGTATTATA
Found at i:30970155 original size:27 final size:27
Alignment explanation
Indices: 30970102--30970488 Score: 210
Period size: 27 Copynumber: 14.3 Consensus size: 27
30970092 TTTCACCCTA
* * * * *
30970102 CAAGGGTGTTTTGGTAAATCTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
30970129 CAAGGGTATTTCAGTAATTTTGTAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
*
30970156 CAATGGTATTTTTA-TAATTTT-TAGGAAC
1 CAAGGGTA-TTTTAGTAATTTTATA--AAC
* *
30970184 TCAAGGGTATTTCTA-TAATTTTGTAAAT
1 -CAAGGGTATTT-TAGTAATTTTATAAAC
* * * *
30970212 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
** ** * *
30970239 TGAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
30970265 CTAGTGGTATTTTGGTAATTTTACAAAC
1 CAAG-GGTATTTTAGTAATTTTATAAAC
* * * *
30970293 TAGGGGTATTTTGGTAATTTTACAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * *
30970320 CAGGGGTATTTTAGTAATTTTACAGA-
1 CAAGGGTATTTTAGTAATTTTATAAAC
* * * *
30970346 CTAGGGTATTTTGGTAATTTTACT-GAT
1 CAAGGGTATTTTAGTAATTTTA-TAAAC
* *
30970373 CGAGGGTATTTTGGTAATTTTATAAAC
1 CAAGGGTATTTTAGTAATTTTATAAAC
* *
30970400 CAAGGGTATTTTAGTAATTTTGTAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
* **** * *
30970427 CGAGGGTAAAACAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
*** * *
30970454 CAAGGGTAAAATAGTAATTCTATAAAT
1 CAAGGGTATTTTAGTAATTTTATAAAC
*
30970481 CGAGGGTA
1 CAAGGGTA
30970489 AAATGGTAAT
Statistics
Matches: 297, Mismatches: 51, Indels: 24
0.80 0.14 0.06
Matches are distributed among these distances:
26 27 0.09
27 239 0.80
28 13 0.04
29 16 0.05
30 2 0.01
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.39
Consensus pattern (27 bp):
CAAGGGTATTTTAGTAATTTTATAAAC
Found at i:30970400 original size:80 final size:81
Alignment explanation
Indices: 30970213--30970420 Score: 278
Period size: 80 Copynumber: 2.6 Consensus size: 81
30970203 TTTGTAAATC
** ** *
30970213 AGGGGTATTTTGGTAATTTTACAAA-TTGAGGGTATTTCGGTAATTTCACAAACTAGTGGTATTT
1 AGGGGTATTTTGGTAATTTTACAAACCAG-GGGTATTTTAGTAATTTTACAAACTAGTGGTATTT
*
30970277 TGGTAATTTTACAAACT
65 TGGTAATTTTACAAACG
*
30970294 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAGACTAG-GGTATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACTAGTGGTATTTT
* *
30970358 GGTAATTTTACTGATCG
66 GGTAATTTTAC-AAACG
* *
30970375 A-GGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTT
1 AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTT
30970421 GTAAATCGAG
Statistics
Matches: 114, Mismatches: 11, Indels: 5
0.88 0.08 0.04
Matches are distributed among these distances:
80 62 0.54
81 51 0.45
82 1 0.01
ACGTcount: A:0.29, C:0.08, G:0.22, T:0.42
Consensus pattern (81 bp):
AGGGGTATTTTGGTAATTTTACAAACCAGGGGTATTTTAGTAATTTTACAAACTAGTGGTATTTT
GGTAATTTTACAAACG
Found at i:30970429 original size:54 final size:54
Alignment explanation
Indices: 30970104--30970559 Score: 276
Period size: 54 Copynumber: 8.4 Consensus size: 54
30970094 TCACCCTACA
* * * * * * *
30970104 AGGGTGTTTTGGTAAATCTACAAACCAAGGGTATTTCAGTAATTTTGTAAACCA
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
* ** ** *
30970158 ATGGTATTTTTATAATTTTTAGGAACTCAAGGGTATTTCTA-TAATTTTGTAAATC-
1 AGGGTATTTTGGTAA-TTTTACAAAC-CAAGGGTATTT-TAGTAATTTTATAAATCG
*** ** * * *
30970213 AGGGGTATTTTGGTAATTTTACAAATTGAGGGTATTTCGGTAATTTCACAAA-CT
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
* * * * *
30970267 AGTGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTGGTAATTTTACAAA-CC
1 AG-GGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
* * * * *
30970321 AGGGGTATTTTAGTAATTTTACAGA-CTAGGGTATTTTGGTAATTTTACT-GATCG
1 A-GGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTA-TAAATCG
* *
30970375 AGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTGTAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
***** * * * *** *
30970429 AGGGTAAAACAGTAATTCTATAAATCAAGGGTAAAATAGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
*** * ** * * *** * *
30970483 AGGGTAAAATGGTAATTCTGTAAATCGAGGGTAAAATGGTAATTCTATAAATCG
1 AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
*
30970537 AGGGTACTTTGGTAATTTTACAA
1 AGGGTATTTTGGTAATTTTACAA
30970560 GTCGAGGGTA
Statistics
Matches: 323, Mismatches: 67, Indels: 24
0.78 0.16 0.06
Matches are distributed among these distances:
53 43 0.13
54 229 0.71
55 15 0.05
56 35 0.11
57 1 0.00
ACGTcount: A:0.33, C:0.09, G:0.20, T:0.38
Consensus pattern (54 bp):
AGGGTATTTTGGTAATTTTACAAACCAAGGGTATTTTAGTAATTTTATAAATCG
Found at i:30970489 original size:27 final size:27
Alignment explanation
Indices: 30970411--30970542 Score: 201
Period size: 27 Copynumber: 4.9 Consensus size: 27
30970401 AAGGGTATTT
* *
30970411 TAGTAATTTTGTAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
* *
30970438 CAGTAATTCTATAAATCAAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
30970465 TAGTAATTCTATAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
* *
30970492 TGGTAATTCTGTAAATCGAGGGTAAAA
1 TAGTAATTCTATAAATCGAGGGTAAAA
*
30970519 TGGTAATTCTATAAATCGAGGGTA
1 TAGTAATTCTATAAATCGAGGGTA
30970543 CTTTGGTAAT
Statistics
Matches: 96, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 96 1.00
ACGTcount: A:0.41, C:0.08, G:0.21, T:0.30
Consensus pattern (27 bp):
TAGTAATTCTATAAATCGAGGGTAAAA
Found at i:30970549 original size:27 final size:27
Alignment explanation
Indices: 30970413--30970569 Score: 197
Period size: 27 Copynumber: 5.8 Consensus size: 27
30970403 GGGTATTTTA
* * **
30970413 GTAATTTTGTAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTAAAATG
* *
30970440 GTAATTCTATAAATCAAGGGTAAAATA
1 GTAATTCTATAAATCGAGGGTAAAATG
30970467 GTAATTCTATAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
*
30970494 GTAATTCTGTAAATCGAGGGTAAAATG
1 GTAATTCTATAAATCGAGGGTAAAATG
***
30970521 GTAATTCTATAAATCGAGGGTACTTTG
1 GTAATTCTATAAATCGAGGGTAAAATG
* * *
30970548 GTAATTTTACAAGTCGAGGGTA
1 GTAATTCTATAAATCGAGGGTA
30970570 TTTCAAAATA
Statistics
Matches: 116, Mismatches: 14, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 116 1.00
ACGTcount: A:0.38, C:0.08, G:0.22, T:0.31
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTAAAATG
Found at i:30970552 original size:81 final size:81
Alignment explanation
Indices: 30970371--30970569 Score: 236
Period size: 81 Copynumber: 2.5 Consensus size: 81
30970361 AATTTTACTG
* * * *** *
30970371 ATCGAGGGTATTTTGGTAATTTTATAAACCAAGGGTATTTTAGTAATTTTGTAAATCGAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAA
30970436 AACAGTAATTCTATAA
66 AACAGTAATTCTATAA
* ** * * *
30970452 ATCAAGGGTAAAATAGTAATTCTATAAATCGAGGGTAAAATGGTAATTCTGTAAATCGAGGGTAA
1 ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAA
**
30970517 AATGGTAATTCTATAA
66 AACAGTAATTCTATAA
* * *
30970533 ATCGAGGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTA
30970570 TTTCAAAATA
Statistics
Matches: 95, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 95 1.00
ACGTcount: A:0.37, C:0.08, G:0.22, T:0.33
Consensus pattern (81 bp):
ATCGAGGGTAATTTGGTAATTTTATAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGGGTAA
AACAGTAATTCTATAA
Found at i:30976576 original size:13 final size:14
Alignment explanation
Indices: 30976560--30976588 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
30976550 TTATAAATAT
30976560 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
30976573 TTATAATGGTTTAA
1 TTATAATGGTTTAA
30976587 TT
1 TT
30976589 CGTCGTTAGT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 7 0.47
14 8 0.53
ACGTcount: A:0.34, C:0.00, G:0.10, T:0.55
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:30977005 original size:21 final size:21
Alignment explanation
Indices: 30976981--30977032 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
30976971 TAGAGCGGAT
* *
30976981 GCAGCAGTGAGGGTGGCA-ACG
1 GCAGCAGCGAGGGAGGCAGA-G
30977002 GCAGCAGCGAGGGAGGCAGAG
1 GCAGCAGCGAGGGAGGCAGAG
30977023 GCAGCAGCGA
1 GCAGCAGCGA
30977033 TGGCAGTGGA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
21 27 0.96
22 1 0.04
ACGTcount: A:0.27, C:0.21, G:0.48, T:0.04
Consensus pattern (21 bp):
GCAGCAGCGAGGGAGGCAGAG
Found at i:30977306 original size:33 final size:33
Alignment explanation
Indices: 30977267--30977345 Score: 108
Period size: 31 Copynumber: 2.5 Consensus size: 33
30977257 AGATTTAATT
* * *
30977267 TTTTTGGTTGTATTTTTTATGCTACATTTGCTG
1 TTTTTGGTTGGATTTTTCACGCTACATTTGCTG
*
30977300 TTTTTGGTTGGA--TTTCACGCTATATTTGCTG
1 TTTTTGGTTGGATTTTTCACGCTACATTTGCTG
30977331 TTTTTGGTTGGATTT
1 TTTTTGGTTGGATTT
30977346 AATGCAGGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 4
0.83 0.08 0.08
Matches are distributed among these distances:
31 28 0.70
33 12 0.30
ACGTcount: A:0.11, C:0.09, G:0.22, T:0.58
Consensus pattern (33 bp):
TTTTTGGTTGGATTTTTCACGCTACATTTGCTG
Found at i:30977330 original size:31 final size:31
Alignment explanation
Indices: 30977287--30977345 Score: 109
Period size: 31 Copynumber: 1.9 Consensus size: 31
30977277 TATTTTTTAT
30977287 GCTACATTTGCTGTTTTTGGTTGGATTTCAC
1 GCTACATTTGCTGTTTTTGGTTGGATTTCAC
*
30977318 GCTATATTTGCTGTTTTTGGTTGGATTT
1 GCTACATTTGCTGTTTTTGGTTGGATTT
30977346 AATGCAGGAA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.12, C:0.12, G:0.24, T:0.53
Consensus pattern (31 bp):
GCTACATTTGCTGTTTTTGGTTGGATTTCAC
Found at i:30977536 original size:43 final size:43
Alignment explanation
Indices: 30977427--30977536 Score: 152
Period size: 43 Copynumber: 2.6 Consensus size: 43
30977417 AAAAGCGTCA
*
30977427 CTAAAAGTCATGACTTTTAGCGGCGCTTCCTCCACAAACGCCG
1 CTAAAAGTCATGACTTTTAGTGGCGCTTCCTCCACAAACGCCG
* * *
30977470 CTAAAAGCCATGACTTTTAGTGGCGCTT-TTCCAGCAGACGCCG
1 CTAAAAGTCATGACTTTTAGTGGCGCTTCCTCCA-CAAACGCCG
30977513 CTAAAAGTCATGATCTTTT-GTGGC
1 CTAAAAGTCATGA-CTTTTAGTGGC
30977537 ATTTTTTCTA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
42 4 0.07
43 51 0.85
44 5 0.08
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (43 bp):
CTAAAAGTCATGACTTTTAGTGGCGCTTCCTCCACAAACGCCG
Found at i:30980421 original size:20 final size:20
Alignment explanation
Indices: 30980371--30980422 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
30980361 ATCTGATCGT
30980371 ACACGCTCGTGTGGCTCAAG
1 ACACGCTCGTGTGGCTCAAG
* * * *
30980391 ACTCACCCGTGTGGCTCAGG
1 ACACGCTCGTGTGGCTCAAG
30980411 ACACGCTCGTGT
1 ACACGCTCGTGT
30980423 CCTCCACCTA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.17, C:0.33, G:0.29, T:0.21
Consensus pattern (20 bp):
ACACGCTCGTGTGGCTCAAG
Found at i:30982298 original size:48 final size:48
Alignment explanation
Indices: 30982145--30982412 Score: 209
Period size: 48 Copynumber: 5.5 Consensus size: 48
30982135 AGGGTAAAAT
* * * * * * **
30982145 GCCGATGCCATGTCTCGGACATGGTCTTACACTGGCTCTCATACATTGGT
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGACTCACAT--ATCGAC
* * * * * * * *
30982195 GCCGGTGCCATGTCCTAGACATGGTCTTACACTGACACATATAACAAT
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGACTCACATATCGAC
* * *
30982243 GCCGATGCCATG-CTCCAAACATGGTCTTATACTGACTCACATATTGAG
1 GCCGATGCCATGTC-CCAGACATGGTCTTATACTGACTCACATATCGAC
* * * *
30982291 GCTGATGCCATGTCCCAGACATGGTTTTACACT-AGCACACATATCGAC
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGA-CTCACATATCGAC
* * * **
30982339 GCCGGTGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAAT-GTT
1 GCCGATGCCATGTCCCAGACATGGTCTTATACTGACTCACAT-ATCGAC
*
30982387 GCCGATGTCATGTCCCAGACATGGTC
1 GCCGATGCCATGTCCCAGACATGGTC
30982413 CTACACTAGC
Statistics
Matches: 173, Mismatches: 40, Indels: 12
0.77 0.18 0.05
Matches are distributed among these distances:
47 2 0.01
48 134 0.77
49 3 0.02
50 34 0.20
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (48 bp):
GCCGATGCCATGTCCCAGACATGGTCTTATACTGACTCACATATCGAC
Found at i:30982323 original size:96 final size:94
Alignment explanation
Indices: 30982142--30982433 Score: 327
Period size: 96 Copynumber: 3.0 Consensus size: 94
30982132 AAAAGGGTAA
* * *
30982142 AATGCCGATGCCATGTCTCGGACATGGTCTTACACTGGCTCTCATACATTGGTGCCGGTGCCATG
1 AATGCCGATGCCATGTC-CAGACATGGTCTTATACTGGCTCTCAT--ATTGG-GCCGATGCCATG
*
30982207 TCCTAGACATGGTCTTACACT-G-ACACATATAAC
62 TCCCAGACATGGTCTTACACTAGCACACATAT--C
* * * *
30982240 AATGCCGATGCCATGCTCCAAACATGGTCTTATACTGACTCACATATTGAGGCTGATGCCATGTC
1 AATGCCGATGCCATG-TCCAGACATGGTCTTATACTGGCTCTCATATTG-GGCCGATGCCATGTC
*
30982305 CCAGACATGGTTTTACACTAGCACACATATC
64 CCAGACATGGTCTTACACTAGCACACATATC
* * * * * *
30982336 GACGCCGGTGCCATGTCCCAGACATGGTCTTATACTGGCTCTCATAATGTTGCCGATGTCATGTC
1 AATGCCGATGCCATGT-CCAGACATGGTCTTATACTGGCTCTCATATTG-GGCCGATGCCATGTC
* *
30982401 CCAGACATGGTCCTACACTAGCACACGTATC
64 CCAGACATGGTCTTACACTAGCACACATATC
30982432 AA
1 AA
30982434 CCAAATGTCT
Statistics
Matches: 165, Mismatches: 24, Indels: 12
0.82 0.12 0.06
Matches are distributed among these distances:
95 1 0.01
96 115 0.70
97 2 0.01
98 45 0.27
99 2 0.01
ACGTcount: A:0.25, C:0.28, G:0.20, T:0.27
Consensus pattern (94 bp):
AATGCCGATGCCATGTCCAGACATGGTCTTATACTGGCTCTCATATTGGGCCGATGCCATGTCCC
AGACATGGTCTTACACTAGCACACATATC
Found at i:30991329 original size:26 final size:26
Alignment explanation
Indices: 30991268--30991318 Score: 86
Period size: 26 Copynumber: 2.0 Consensus size: 26
30991258 ACCAAAATCA
*
30991268 CATTTCC-TTTGAACACTTACCCTTT
1 CATTTCCTTTTGAACACTTACCATTT
30991293 CATTTCCTTTTGAACACTTACCATTT
1 CATTTCCTTTTGAACACTTACCATTT
30991319 TGTTTCTTTT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.22, C:0.29, G:0.04, T:0.45
Consensus pattern (26 bp):
CATTTCCTTTTGAACACTTACCATTT
Found at i:30997598 original size:40 final size:40
Alignment explanation
Indices: 30997543--30997639 Score: 144
Period size: 40 Copynumber: 2.5 Consensus size: 40
30997533 GGATGATAAT
*
30997543 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATC
30997583 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATC
* *
30997623 C-GGCTAAATCCCAAAGG
1 CGGGCTAAGTCCCGAAGG
30997640 TACTTGGTTT
Statistics
Matches: 53, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
39 16 0.30
40 37 0.70
ACGTcount: A:0.26, C:0.24, G:0.28, T:0.23
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATC
Found at i:31001527 original size:22 final size:22
Alignment explanation
Indices: 31001497--31001548 Score: 88
Period size: 22 Copynumber: 2.4 Consensus size: 22
31001487 ATAAGAAAAT
*
31001497 AAATAAATTGCGTAAAAGAATA
1 AAATGAATTGCGTAAAAGAATA
31001519 AAATGAATTGCGTAAAAGAATA
1 AAATGAATTGCGTAAAAGAATA
31001541 AAA-GAATT
1 AAATGAATT
31001549 TGTTGATTCA
Statistics
Matches: 29, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
21 5 0.17
22 24 0.83
ACGTcount: A:0.58, C:0.04, G:0.15, T:0.23
Consensus pattern (22 bp):
AAATGAATTGCGTAAAAGAATA
Found at i:31004961 original size:48 final size:46
Alignment explanation
Indices: 31004908--31005011 Score: 120
Period size: 47 Copynumber: 2.2 Consensus size: 46
31004898 CTTCTTCCCT
* * * *
31004908 CTTTCTCAATCAATTTTTCTTTGGCCGATTGCTT-CTAGTTCTTTTTCC
1 CTTTCTCAATC-AGTTTCCCTTGACCGATTGCTTCCTA-TT-TTTTTCC
*
31004956 CTTTCTCAATCGGTTTCCCTTGACCGATTGCTTCCTATTTTTTTCC
1 CTTTCTCAATCAGTTTCCCTTGACCGATTGCTTCCTATTTTTTTCC
*
31005002 CTCTCTCAAT
1 CTTTCTCAAT
31005012 AGGTTCTTGA
Statistics
Matches: 49, Mismatches: 6, Indels: 4
0.83 0.10 0.07
Matches are distributed among these distances:
46 16 0.33
47 19 0.39
48 14 0.29
ACGTcount: A:0.12, C:0.29, G:0.10, T:0.49
Consensus pattern (46 bp):
CTTTCTCAATCAGTTTCCCTTGACCGATTGCTTCCTATTTTTTTCC
Found at i:31012186 original size:48 final size:47
Alignment explanation
Indices: 31012132--31012238 Score: 146
Period size: 47 Copynumber: 2.3 Consensus size: 47
31012122 CTTCTTCCCT
* *
31012132 CTTTCTCAATCAG-TTTCCCTGTGATTGATTGCTTC-TAGTTCTTTTTCC
1 CTTTCTCAATC-GTTTTCCCT-TGATCGATTACTTCTTA-TTCTTTTTCC
31012180 CTTTCTCAATCGTTTTCCCTTGATCGATTACTTCTTATTCTTTTTCC
1 CTTTCTCAATCGTTTTCCCTTGATCGATTACTTCTTATTCTTTTTCC
*
31012227 CTCTCTCAATCG
1 CTTTCTCAATCG
31012239 GTTCTTAGCA
Statistics
Matches: 54, Mismatches: 3, Indels: 5
0.87 0.05 0.08
Matches are distributed among these distances:
47 34 0.63
48 20 0.37
ACGTcount: A:0.13, C:0.28, G:0.09, T:0.50
Consensus pattern (47 bp):
CTTTCTCAATCGTTTTCCCTTGATCGATTACTTCTTATTCTTTTTCC
Found at i:31012537 original size:21 final size:21
Alignment explanation
Indices: 31012511--31012553 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
31012501 ATCCTCTCTT
31012511 GTGTCGAATGTTGATTTGACA
1 GTGTCGAATGTTGATTTGACA
31012532 GTGTCGAATGTTGATTTGACA
1 GTGTCGAATGTTGATTTGACA
31012553 G
1 G
31012554 CATCAAATCG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.23, C:0.09, G:0.30, T:0.37
Consensus pattern (21 bp):
GTGTCGAATGTTGATTTGACA
Found at i:31018194 original size:29 final size:29
Alignment explanation
Indices: 31018131--31018198 Score: 93
Period size: 29 Copynumber: 2.3 Consensus size: 29
31018121 TAATCAACCG
31018131 CGCACACTTAGTGCCATGCACTTTAAACT
1 CGCACACTTAGTGCCATGCACTTTAAACT
* **
31018160 CACACACTTAGTGCCATGCA-TTTCAAGTT
1 CGCACACTTAGTGCCATGCACTTT-AAACT
31018189 CGCACACTTA
1 CGCACACTTA
31018199 CCTTTTCCGC
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
28 3 0.09
29 31 0.91
ACGTcount: A:0.28, C:0.31, G:0.13, T:0.28
Consensus pattern (29 bp):
CGCACACTTAGTGCCATGCACTTTAAACT
Found at i:31018311 original size:174 final size:174
Alignment explanation
Indices: 31018020--31018347 Score: 593
Period size: 174 Copynumber: 1.9 Consensus size: 174
31018010 AACTCAAGGT
* *
31018020 ACTTACCTTTTCCGCTGTCCAAAATTGACTCGGTAAAGTCGCACCCTTCATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
* *
31018085 GAAAATATATATTGGGTTCGCATACATAGTGCTTAATAATCAACCGCGCACACTTAGTGCCATGC
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
31018150 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
131 ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
*
31018194 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAGGTCGCACCCTTAATGTAAATAATTTATA
1 ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
*
31018259 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGT
66 GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
*
31018324 ACTTTAAACTCGCACACTTAGTGC
131 ACTTTAAACTCACACACTTAGTGC
31018348 TGTACAATTT
Statistics
Matches: 147, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
174 147 1.00
ACGTcount: A:0.31, C:0.24, G:0.15, T:0.30
Consensus pattern (174 bp):
ACTTACCTTTTCCGCTGTCCAAAATCGACTCGGTAAAGTCGCACCCTTAATGTAAATAATTTATA
GAAAATATATATTGGGTTCGCACACATAGTGCTTAATAATCAACCACGCACACTTAGTGCCATGC
ACTTTAAACTCACACACTTAGTGCCATGCATTTCAAGTTCGCAC
Found at i:31018339 original size:29 final size:30
Alignment explanation
Indices: 31018300--31018378 Score: 110
Period size: 29 Copynumber: 2.7 Consensus size: 30
31018290 CTTAATAATC
31018300 AACCACGCACACTTAGTGCCATGTAC-TTTA
1 AACC-CGCACACTTAGTGCCATGTACATTTA
*
31018330 AACTCGCACACTTAGTG-C-TGTACAATTTA
1 AACCCGCACACTTAGTGCCATGTAC-ATTTA
31018359 AACCCGCACACTTAGTGCCA
1 AACCCGCACACTTAGTGCCA
31018379 ATCTCATGAC
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 1 0.02
29 33 0.77
30 4 0.09
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.25
Consensus pattern (30 bp):
AACCCGCACACTTAGTGCCATGTACATTTA
Found at i:31020271 original size:24 final size:25
Alignment explanation
Indices: 31020214--31020274 Score: 79
Period size: 25 Copynumber: 2.5 Consensus size: 25
31020204 ATGAATTATG
* *
31020214 AATCGGTATGCTCTTACAAGCTGTA
1 AATCGGTAAGCTCTCACAAGCTGTA
*
31020239 AATTGGTAAGCTCTCACAAGCTG-A
1 AATCGGTAAGCTCTCACAAGCTGTA
*
31020263 AATCAGTAAGCT
1 AATCGGTAAGCT
31020275 TATACGAGCT
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
24 11 0.35
25 20 0.65
ACGTcount: A:0.33, C:0.20, G:0.20, T:0.28
Consensus pattern (25 bp):
AATCGGTAAGCTCTCACAAGCTGTA
Found at i:31022539 original size:39 final size:39
Alignment explanation
Indices: 31022494--31022676 Score: 276
Period size: 39 Copynumber: 4.7 Consensus size: 39
31022484 GTACGTGGCT
* * *
31022494 TGCGGACTTCAAGTCCAGATATATTTCCAGCATATAGCC
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
* *
31022533 TACGGACCTCATGTCCGGATATATTCCCAGCATATAGCC
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
* * **
31022572 TGCGGACTTCACGTCCGGATATATTTCCATAATATAGCC
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
31022611 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
1 TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
*
31022650 TGCGGACCTCATGTCCGGATGTATTTC
1 TGCGGACCTCATGTCCGGATATATTTC
31022677 AAATACCATG
Statistics
Matches: 128, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 128 1.00
ACGTcount: A:0.24, C:0.27, G:0.20, T:0.29
Consensus pattern (39 bp):
TGCGGACCTCATGTCCGGATATATTTCCAGCATATAGCC
Found at i:31030370 original size:39 final size:39
Alignment explanation
Indices: 31030354--31030561 Score: 317
Period size: 39 Copynumber: 5.3 Consensus size: 39
31030344 CGGACTTTAA
* *
31030354 GTCCGGATATATTTCCAGCATATAGCCTGCGGACCGCAT
1 GTCCGGATATATTCCCAGCATATAGCCTGCGGACCTCAT
31030393 GTCCGGATATATTCCCAGCATATAGCCTGCGGACCTCAT
1 GTCCGGATATATTCCCAGCATATAGCCTGCGGACCTCAT
* *
31030432 GTCCGGATATATTCCCAGCATATAGCCTGCGGACTTCGT
1 GTCCGGATATATTCCCAGCATATAGCCTGCGGACCTCAT
* ** *
31030471 GTCCGAATATATTCCCAGCATATAGCCTGTAGACCACAT
1 GTCCGGATATATTCCCAGCATATAGCCTGCGGACCTCAT
* *
31030510 GTCCGAATATATTCCCAGCATATAGCTTGCGGACCTCAT
1 GTCCGGATATATTCCCAGCATATAGCCTGCGGACCTCAT
*
31030549 GTCCGGATGTATT
1 GTCCGGATATATT
31030562 TCAAATACCA
Statistics
Matches: 153, Mismatches: 16, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
39 153 1.00
ACGTcount: A:0.24, C:0.28, G:0.21, T:0.27
Consensus pattern (39 bp):
GTCCGGATATATTCCCAGCATATAGCCTGCGGACCTCAT
Found at i:31032807 original size:42 final size:44
Alignment explanation
Indices: 31032748--31032870 Score: 151
Period size: 42 Copynumber: 2.8 Consensus size: 44
31032738 ATGTAATTCA
* *
31032748 ATATCGATGCCTCTGTCCCAGACAAGGTCTTACAC-AAAATCAG
1 ATATCGATGCCTATGTCCCAGACAAGGTCTTACACGAAAATCAC
* * *
31032791 ATAT-GATGCCTATGTCCCAGACATGGTCTTACACGTAAATCTC
1 ATATCGATGCCTATGTCCCAGACAAGGTCTTACACGAAAATCAC
* * * *
31032834 AAATCGAGGCCTGTGTCCCAGACACGGTCTTACACGA
1 ATATCGATGCCTATGTCCCAGACAAGGTCTTACACGA
31032871 TATCTTAGAT
Statistics
Matches: 68, Mismatches: 10, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
42 28 0.41
43 12 0.18
44 28 0.41
ACGTcount: A:0.29, C:0.28, G:0.19, T:0.24
Consensus pattern (44 bp):
ATATCGATGCCTATGTCCCAGACAAGGTCTTACACGAAAATCAC
Found at i:31032856 original size:44 final size:44
Alignment explanation
Indices: 31032728--31032869 Score: 148
Period size: 44 Copynumber: 3.3 Consensus size: 44
31032718 CGTCCCGAAT
* * *
31032728 ATGGTCTTGCATGT-AAT-TCAATATCGATGCCTCTGTCCCAGAC
1 ATGGTCTTACACGTAAATCTCAA-ATCGATGCCTATGTCCCAGAC
* * ** *
31032771 AAGGTCTTACAC-AAAATCAGATAT-GATGCCTATGTCCCAGAC
1 ATGGTCTTACACGTAAATCTCAAATCGATGCCTATGTCCCAGAC
* *
31032813 ATGGTCTTACACGTAAATCTCAAATCGAGGCCTGTGTCCCAGAC
1 ATGGTCTTACACGTAAATCTCAAATCGATGCCTATGTCCCAGAC
*
31032857 ACGGTCTTACACG
1 ATGGTCTTACACG
31032870 ATATCTTAGA
Statistics
Matches: 79, Mismatches: 16, Indels: 7
0.77 0.16 0.07
Matches are distributed among these distances:
42 28 0.35
43 22 0.28
44 29 0.37
ACGTcount: A:0.28, C:0.26, G:0.19, T:0.27
Consensus pattern (44 bp):
ATGGTCTTACACGTAAATCTCAAATCGATGCCTATGTCCCAGAC
Found at i:31038902 original size:43 final size:43
Alignment explanation
Indices: 31038841--31038943 Score: 206
Period size: 43 Copynumber: 2.4 Consensus size: 43
31038831 GCTGGTTTTC
31038841 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTCATGAGATT
1 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTCATGAGATT
31038884 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTCATGAGATT
1 GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTCATGAGATT
31038927 GGCACTAAGTGTGCGGG
1 GGCACTAAGTGTGCGGG
31038944 TTTAAATTGT
Statistics
Matches: 60, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 60 1.00
ACGTcount: A:0.24, C:0.17, G:0.35, T:0.24
Consensus pattern (43 bp):
GGCACTAAGTGTGCGGGCAATAAGTGTTCACGGTCATGAGATT
Found at i:31038965 original size:29 final size:29
Alignment explanation
Indices: 31038926--31039004 Score: 108
Period size: 29 Copynumber: 2.7 Consensus size: 29
31038916 GTCATGAGAT
31038926 TGGCACTAAGTGTGCGGGTTTAAATTGTACA
1 TGGCACTAAGTGTGCGGGTTTAAA--GTACA
*
31038957 -GG-ACTAAGTGTGCGAGTTTAAAGTACA
1 TGGCACTAAGTGTGCGGGTTTAAAGTACA
31038984 TGGCACTAAGTGTGCGTGGTT
1 TGGCACTAAGTGTGCG-GGTT
31039005 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
27 5 0.12
28 2 0.05
29 31 0.72
30 5 0.12
ACGTcount: A:0.25, C:0.13, G:0.32, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:31039157 original size:29 final size:29
Alignment explanation
Indices: 31039125--31039200 Score: 152
Period size: 29 Copynumber: 2.6 Consensus size: 29
31039115 GAACTTGAAA
31039125 TGCATGGCACTAAGTGTGTGAGTTTAAAG
1 TGCATGGCACTAAGTGTGTGAGTTTAAAG
31039154 TGCATGGCACTAAGTGTGTGAGTTTAAAG
1 TGCATGGCACTAAGTGTGTGAGTTTAAAG
31039183 TGCATGGCACTAAGTGTG
1 TGCATGGCACTAAGTGTG
31039201 CGTGGTTGAT
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 47 1.00
ACGTcount: A:0.26, C:0.12, G:0.32, T:0.30
Consensus pattern (29 bp):
TGCATGGCACTAAGTGTGTGAGTTTAAAG
Found at i:31039284 original size:203 final size:202
Alignment explanation
Indices: 31038926--31039313 Score: 652
Period size: 203 Copynumber: 1.9 Consensus size: 202
31038916 GTCATGAGAT
*
31038926 TGGCACTAAGTGTGCGGGTTTAAATTGTACAGGACTAAGTGTGCGAGTTTAAAGTACATGGCACT
1 TGGCACTAAGTGTGCGAGTTTAAA-TGTACAGGACTAAGTGTGCGAGTTTAAAGTACATGGCACT
31038991 AAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCTATAAATTAT
65 AAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCTATAAATTAT
* *
31039056 TTACATTAAGGGTGCGACCTTACCGAGTCGATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTT
130 TTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTT
31039121 GAAATGCA
195 GAAATGCA
* * * *
31039129 TGGCACTAAGTGTGTGAGTTTAAA-GTGCATGGCACTAAGTGTGTGAGTTTAAAGTGCATGGCAC
1 TGGCACTAAGTGTGCGAGTTTAAATGTACA-GG-ACTAAGTGTGCGAGTTTAAAGTACATGGCAC
*
31039193 TAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACTCAATATATATTTTCTATAAATTA
64 TAAGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCTATAAATTA
* *
31039258 TTTACATGAAGGGTGTGACTTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
129 TTTACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGT
31039314 ACCTTGAGTT
Statistics
Matches: 173, Mismatches: 10, Indels: 4
0.93 0.05 0.02
Matches are distributed among these distances:
201 4 0.02
202 2 0.01
203 167 0.97
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (202 bp):
TGGCACTAAGTGTGCGAGTTTAAATGTACAGGACTAAGTGTGCGAGTTTAAAGTACATGGCACTA
AGTGTGCGTGGTTGATTATTAAGCACTATGTGTGCGAACCCAATATATATTTTCTATAAATTATT
TACATGAAGGGTGCGACCTTACCGAGTCAATTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTG
AAATGCA
Found at i:31047139 original size:29 final size:28
Alignment explanation
Indices: 31047103--31047180 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
31047093 TCATGAGATT
31047103 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
31047133 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
31047160 TGGCACTAAGTGTGCGCGGTT
1 -GGCACTAAGTGTGCG-GGTT
31047181 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Done.