Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr06 132263754
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: 132263754
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 372 characters in sequence are not A, C, G, or T
File 98 of 433
Found at i:29818074 original size:13 final size:13
Alignment explanation
Indices: 29818056--29818080 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
29818046 ATTCTCACAC
29818056 ACCTGTGTGGACT
1 ACCTGTGTGGACT
29818069 ACCTGTGTGGAC
1 ACCTGTGTGGAC
29818081 CCACACACCC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.16, C:0.24, G:0.32, T:0.28
Consensus pattern (13 bp):
ACCTGTGTGGACT
Found at i:29818655 original size:16 final size:17
Alignment explanation
Indices: 29818623--29818657 Score: 54
Period size: 18 Copynumber: 2.1 Consensus size: 17
29818613 AATCTCATTT
29818623 ACCAAAATAGTACGAGAC
1 ACCAAAATAG-ACGAGAC
29818641 ACCAAAATA-ACGAGAC
1 ACCAAAATAGACGAGAC
29818657 A
1 A
29818658 AAAGACTACG
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 8 0.47
18 9 0.53
ACGTcount: A:0.54, C:0.23, G:0.14, T:0.09
Consensus pattern (17 bp):
ACCAAAATAGACGAGAC
Found at i:29827636 original size:21 final size:21
Alignment explanation
Indices: 29827603--29827653 Score: 66
Period size: 21 Copynumber: 2.4 Consensus size: 21
29827593 TGGATATAAC
* *
29827603 AACAATGTCAACTGGTGGGTT
1 AACAATGTTAACTGGCGGGTT
*
29827624 AACACTGTTAACTGGCGGGTT
1 AACAATGTTAACTGGCGGGTT
*
29827645 AACATTGTT
1 AACAATGTT
29827654 TGGTCTGAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.27, C:0.16, G:0.25, T:0.31
Consensus pattern (21 bp):
AACAATGTTAACTGGCGGGTT
Found at i:29837718 original size:30 final size:30
Alignment explanation
Indices: 29837684--29837744 Score: 113
Period size: 30 Copynumber: 2.0 Consensus size: 30
29837674 GGATCAAAGT
*
29837684 ATAATTTCACCTATATAAATTATAAAAGAA
1 ATAATTTAACCTATATAAATTATAAAAGAA
29837714 ATAATTTAACCTATATAAATTATAAAAGAA
1 ATAATTTAACCTATATAAATTATAAAAGAA
29837744 A
1 A
29837745 CACGAAAGGT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.56, C:0.08, G:0.03, T:0.33
Consensus pattern (30 bp):
ATAATTTAACCTATATAAATTATAAAAGAA
Found at i:29849701 original size:36 final size:36
Alignment explanation
Indices: 29849654--29849725 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
29849644 TTGGTAAGTT
29849654 TAGTTCCCGTTACACGAACTTACTAAGCATGTAATG
1 TAGTTCCCGTTACACGAACTTACTAAGCATGTAATG
29849690 TAGTTCCCGTTACACGAACTTACTAAGCATGTAATG
1 TAGTTCCCGTTACACGAACTTACTAAGCATGTAATG
29849726 CTTACTCCGT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.31, C:0.22, G:0.17, T:0.31
Consensus pattern (36 bp):
TAGTTCCCGTTACACGAACTTACTAAGCATGTAATG
Found at i:29852287 original size:48 final size:46
Alignment explanation
Indices: 29852233--29852325 Score: 107
Period size: 46 Copynumber: 2.0 Consensus size: 46
29852223 CTAGTTTAAC
29852233 CACATTTCTGTAAGGCAGA-TTGTCTGCAATTATAGTGGCTTGACCACT
1 CACATTTCT-TAAGGCAGATTTG-CTGCAA-TATAGTGGCTTGACCACT
* ** * *
29852281 CACATTTGTTCTGGCAGCTTTGCTGCAATATAGTGGCTTGTCCAC
1 CACATTTCTTAAGGCAGATTTGCTGCAATATAGTGGCTTGACCAC
29852326 ATATATTATG
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
46 16 0.41
47 12 0.31
48 11 0.28
ACGTcount: A:0.22, C:0.23, G:0.22, T:0.34
Consensus pattern (46 bp):
CACATTTCTTAAGGCAGATTTGCTGCAATATAGTGGCTTGACCACT
Found at i:29854519 original size:2 final size:2
Alignment explanation
Indices: 29854512--29854536 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
29854502 AGTTAAATGC
29854512 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
29854537 GCTGTATGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:29855995 original size:19 final size:17
Alignment explanation
Indices: 29855957--29855998 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 17
29855947 CTTTAGTATG
29855957 TTTTTGTATTTAGCATA
1 TTTTTGTATTTAGCATA
29855974 TTTTATGTATTGTAGC-TGA
1 TTTT-TGTATT-TAGCAT-A
29855993 TTTTTG
1 TTTTTG
29855999 AATCATAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
17 4 0.18
18 9 0.41
19 9 0.41
ACGTcount: A:0.19, C:0.05, G:0.17, T:0.60
Consensus pattern (17 bp):
TTTTTGTATTTAGCATA
Found at i:29856208 original size:68 final size:64
Alignment explanation
Indices: 29856091--29856343 Score: 199
Period size: 68 Copynumber: 3.9 Consensus size: 64
29856081 ATACAGATGG
* ** ** * * *
29856091 TATGTAGCTAGGTCACATGTATGGTGTTGAGTGCACATCATGT-GTACAAGAGAGCTACGAGACA
1 TATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGCTACGAG--A
29856155 TTA
63 -TA
* * *
29856158 TGATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATA
1 T-ATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATA
* * * * * * *
29856223 TATATAGCTAGGTCGCATGCGTGGTTCCAGGTAAAGGACACCATGTAGATAAGAGAGCTACGAGA
1 TATGTAGCTAGGTCGCATGGGTGGTACTAAGT---GTACACCATGTAGACAAGAGAGCTACGAGA
29856288 TA
63 TA
* * *
29856290 AACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 TA-TGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAG-ACAAGAGAGC
29856344 CAAAATTATG
Statistics
Matches: 149, Mismatches: 30, Indels: 18
0.76 0.15 0.09
Matches are distributed among these distances:
62 1 0.01
63 18 0.12
64 25 0.17
65 3 0.02
66 22 0.15
67 31 0.21
68 48 0.32
69 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.29, T:0.25
Consensus pattern (64 bp):
TATGTAGCTAGGTCGCATGGGTGGTACTAAGTGTACACCATGTAGACAAGAGAGCTACGAGATA
Found at i:29864661 original size:31 final size:32
Alignment explanation
Indices: 29864620--29864682 Score: 85
Period size: 31 Copynumber: 2.0 Consensus size: 32
29864610 TTATTTATAA
*
29864620 AAGATATTTAT-TAATTAAATA-ATTATATTAT
1 AAGATATTTATGTAA-TAAATATATTAAATTAT
*
29864651 AAGATTTTTATGTAATAAATATATTAAATTAT
1 AAGATATTTATGTAATAAATATATTAAATTAT
29864683 GACAAGTGTG
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
31 16 0.57
32 12 0.43
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (32 bp):
AAGATATTTATGTAATAAATATATTAAATTAT
Found at i:29866235 original size:40 final size:39
Alignment explanation
Indices: 29866190--29866319 Score: 136
Period size: 40 Copynumber: 3.3 Consensus size: 39
29866180 CGGAATATAA
29866190 CCGGATATAACCATGTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAACCAT-TGCACAAATGCCTTCGGGTCTTAGC
* * * *
29866230 CCGGATAGAATGTC-TCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAA--CCATTGCACAAATGCCTTCGGGTCTTAGC
* * * * *
29866270 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAACCA-TTGCACAAATGCCTTCGGGTCTTAGC
29866310 CCGGATATAA
1 CCGGATATAA
29866320 TTTCCAGCAT
Statistics
Matches: 72, Mismatches: 14, Indels: 8
0.77 0.15 0.09
Matches are distributed among these distances:
38 1 0.01
40 69 0.96
41 1 0.01
42 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.24, T:0.25
Consensus pattern (39 bp):
CCGGATATAACCATTGCACAAATGCCTTCGGGTCTTAGC
Found at i:29866334 original size:40 final size:40
Alignment explanation
Indices: 29866206--29866357 Score: 148
Period size: 40 Copynumber: 3.8 Consensus size: 40
29866196 ATAACCATGT
* * *
29866206 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTC-
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTC-CA
* ** * *
29866246 GCACGAA-TGCCTTCGGGTCTTAGCCCGGATGTAGCCACTA
1 GCAC-AATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
29866286 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
* *
29866326 GCATAATTGTCTTCGGGAT-TTAGCCCGGATAT
1 GCACAATTGCCTTCGGG-TCTTAGCCCGGATAT
29866358 CATTCAATTT
Statistics
Matches: 91, Mismatches: 17, Indels: 8
0.78 0.15 0.07
Matches are distributed among these distances:
39 2 0.02
40 86 0.95
41 3 0.03
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
GCACAATTGCCTTCGGGTCTTAGCCCGGATATAATCTCCA
Found at i:29866340 original size:80 final size:80
Alignment explanation
Indices: 29866206--29866355 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
29866196 ATAACCATGT
*
29866206 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
29866270 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
29866286 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
29866349 CCCGGAT
64 CCCGGAT
29866356 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:29868982 original size:18 final size:18
Alignment explanation
Indices: 29868961--29869133 Score: 129
Period size: 18 Copynumber: 9.6 Consensus size: 18
29868951 TAACTGATTA
29868961 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
* *
29868979 TTACCGGATAATTGACTG
1 TTACTGAATAATTGACTG
* * * *
29868997 TTACTGAATAACTAAATA
1 TTACTGAATAATTGACTG
*
29869015 TTACTGAATAATTGA-TCA
1 TTACTGAATAATTGACT-G
* * *
29869033 TTACTGAAAAACTGATTG
1 TTACTGAATAATTGACTG
* *
29869051 TCACTGAATGAA-TAACTG
1 TTACTGAAT-AATTGACTG
* * *
29869069 TTACTGGATAACTTAATTG
1 TTACTGAATAA-TTGACTG
*
29869088 TTACTGAAT-ATCTGA-TT
1 TTACTGAATAAT-TGACTG
29869105 TTACTGAATAATTGACTG
1 TTACTGAATAATTGACTG
*
29869123 TTACTGGATAA
1 TTACTGAATAA
29869134 CCGATCAATT
Statistics
Matches: 122, Mismatches: 25, Indels: 16
0.75 0.15 0.10
Matches are distributed among these distances:
17 17 0.14
18 89 0.73
19 16 0.13
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.37
Consensus pattern (18 bp):
TTACTGAATAATTGACTG
Found at i:29869040 original size:72 final size:71
Alignment explanation
Indices: 29868949--29869133 Score: 203
Period size: 72 Copynumber: 2.6 Consensus size: 71
29868939 AAAGGTATAA
* * *
29868949 AATAACTGATTATTACTGAATAATTGACTGTTACCGGATAATTGACTGTTACTGAATAAC-TAAA
1 AATAATTGA-TATTACTGAATAATTGACTGTTACTGGATAA-TAACTGTTACTGAATAACTTAAA
29869013 TATTACTG
64 TATTACTG
* * * * * * *
29869021 AATAATTGATCATTACTGAAAAACTGATTGTCACTGAATGAATAACTGTTACTGGATAACTTAAT
1 AATAATTGAT-ATTACTGAATAATTGACTGTTACTGGAT-AATAACTGTTACTGAATAACTTAAA
*
29869086 TGTTACTG
64 TATTACTG
*
29869094 AAT-ATCTGATTTTACTGAATAATTGACTGTTACTGGATAA
1 AATAAT-TGATATTACTGAATAATTGACTGTTACTGGATAA
29869134 CCGATCAATT
Statistics
Matches: 92, Mismatches: 17, Indels: 9
0.78 0.14 0.08
Matches are distributed among these distances:
71 3 0.03
72 70 0.76
73 19 0.21
ACGTcount: A:0.37, C:0.12, G:0.15, T:0.37
Consensus pattern (71 bp):
AATAATTGATATTACTGAATAATTGACTGTTACTGGATAATAACTGTTACTGAATAACTTAAATA
TTACTG
Found at i:29869091 original size:19 final size:19
Alignment explanation
Indices: 29868949--29869213 Score: 126
Period size: 18 Copynumber: 14.3 Consensus size: 19
29868939 AAAGGTATAA
*
29868949 AATAAC-TGATTATTACTG
1 AATAACTTGATTGTTACTG
* *
29868967 AATAA-TTGACTGTTACCG
1 AATAACTTGATTGTTACTG
* *
29868985 GATAA-TTGACTGTTACTG
1 AATAACTTGATTGTTACTG
* * *
29869003 AATAAC-TAAATATTACTG
1 AATAACTTGATTGTTACTG
**
29869021 AATAA-TTGATCATTACTG
1 AATAACTTGATTGTTACTG
* *
29869039 AAAAAC-TGATTGTCACTG
1 AATAACTTGATTGTTACTG
* *
29869057 AATGAA--TAACTGTTACTG
1 AAT-AACTTGATTGTTACTG
* *
29869075 GATAACTTAATTGTTACTG
1 AATAACTTGATTGTTACTG
*
29869094 AATATC-TGATT-TTACTG
1 AATAACTTGATTGTTACTG
*
29869111 AATAA-TTGACTGTTACTG
1 AATAACTTGATTGTTACTG
* * *
29869129 GATAACCGATCAATTGATCGATACTG
1 AAT-A---A-C--TTGATTGTTACTG
* * *
29869155 AATAAC-TGGTTATTATTG
1 AATAACTTGATTGTTACTG
*
29869173 AATAA-TTGATTGTTACCG
1 AATAACTTGATTGTTACTG
*
29869191 AATAAC-TGACTGTTACTG
1 AATAACTTGATTGTTACTG
29869209 AATAA
1 AATAA
29869214 ATAATTGTTC
Statistics
Matches: 185, Mismatches: 43, Indels: 38
0.70 0.16 0.14
Matches are distributed among these distances:
17 16 0.09
18 135 0.73
19 18 0.10
21 1 0.01
22 2 0.01
25 1 0.01
26 12 0.06
ACGTcount: A:0.36, C:0.12, G:0.15, T:0.36
Consensus pattern (19 bp):
AATAACTTGATTGTTACTG
Found at i:29869838 original size:36 final size:36
Alignment explanation
Indices: 29869791--29869863 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
29869781 ACTGTACTGG
29869791 TTGGTAATGTCTCGTAACCTTGTTTCGACGACGGTA
1 TTGGTAATGTCTCGTAACCTTGTTTCGACGACGGTA
29869827 TTGGTAATGTCTCGTAACCTTGTTTCGACGACGGTA
1 TTGGTAATGTCTCGTAACCTTGTTTCGACGACGGTA
29869863 T
1 T
29869864 AGGGTTAGTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.19, C:0.19, G:0.25, T:0.37
Consensus pattern (36 bp):
TTGGTAATGTCTCGTAACCTTGTTTCGACGACGGTA
Found at i:29881374 original size:40 final size:40
Alignment explanation
Indices: 29881273--29881519 Score: 381
Period size: 40 Copynumber: 6.2 Consensus size: 40
29881263 GCCCGAATAC
* * * * * *
29881273 ACATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
* *
29881313 ATATCA-TAGCACGAATGCTCTTCGGGACTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
29881352 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
29881392 ACATCACTAGCACGAATGCTCTTCGGAA-TTAGTCCGGAT
1 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
**
29881431 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTATGGAT
1 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
29881471 ACATCACTAGCACGAATGCTCTTTCGGAACTTAGTCCGGAT
1 ACATCACTAGCACGAATGCTC-TTCGGAACTTAGTCCGGAT
29881512 ACATCACT
1 ACATCACT
29881520 CTCATTTCTC
Statistics
Matches: 192, Mismatches: 12, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
39 72 0.38
40 95 0.49
41 25 0.13
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGAT
Found at i:29881376 original size:79 final size:80
Alignment explanation
Indices: 29881273--29881519 Score: 372
Period size: 79 Copynumber: 3.1 Consensus size: 80
29881263 GCCCGAATAC
* * * * * * *
29881273 ACATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATATCA-TAGCACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCG
29881337 GGACTTAGTCCGGAT
66 GGACTTAGTCCGGAT
29881352 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTC-
1 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCG
*
29881416 GGAATTAGTCCGGAT
66 GGACTTAGTCCGGAT
**
29881431 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTATGGATACATCACTAGCACGAATGCTCTTTC
1 ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTC-TTC
*
29881496 GGAACTTAGTCCGGAT
65 GGGACTTAGTCCGGAT
29881512 ACATCACT
1 ACATCACT
29881520 CTCATTTCTC
Statistics
Matches: 153, Mismatches: 12, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
79 112 0.73
80 20 0.13
81 21 0.14
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (80 bp):
ACATCACTAGCACGAATGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAATGCTCTTCG
GGACTTAGTCCGGAT
Found at i:29881453 original size:119 final size:120
Alignment explanation
Indices: 29881273--29881519 Score: 381
Period size: 119 Copynumber: 2.1 Consensus size: 120
29881263 GCCCGAATAC
* * * * *
29881273 ACATCACCAGCATGATTGCTCTTCGGGACCTAGCCCGGATATATCATAGCACGAATGCTCTTCGG
1 ACATCACTAGCACGAATGCTCTTCGGGAACTAGCCCGGATACATCATAGCACGAATGCTCTTCGG
* *
29881338 GACTTAGTCCGGATACATCACTAGCACGAATGCTC-TTCGGAACTTAGTCCGGAT
66 AACTTAGTACGGATACATCACTAGCACGAATGCTCTTTCGGAACTTAGTCCGGAT
* *
29881392 ACATCACTAGCACGAATGCTCTTC-GGAATTAGTCCGGATACATCACTAGCACGAATGCTCTTCG
1 ACATCACTAGCACGAATGCTCTTCGGGAACTAGCCCGGATACATCA-TAGCACGAATGCTCTTCG
*
29881456 GAACTTAGTATGGATACATCACTAGCACGAATGCTCTTTCGGAACTTAGTCCGGAT
65 GAACTTAGTACGGATACATCACTAGCACGAATGCTCTTTCGGAACTTAGTCCGGAT
29881512 ACATCACT
1 ACATCACT
29881520 CTCATTTCTC
Statistics
Matches: 116, Mismatches: 10, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
118 17 0.15
119 72 0.62
120 27 0.23
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (120 bp):
ACATCACTAGCACGAATGCTCTTCGGGAACTAGCCCGGATACATCATAGCACGAATGCTCTTCGG
AACTTAGTACGGATACATCACTAGCACGAATGCTCTTTCGGAACTTAGTCCGGAT
Found at i:29882872 original size:48 final size:48
Alignment explanation
Indices: 29882788--29882962 Score: 253
Period size: 48 Copynumber: 3.7 Consensus size: 48
29882778 TGTTACAACA
* * * *
29882788 TTCAGATTAGCCATACGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
29882836 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
29882884 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
29882932 TTCACATTAGCCATT-GGCTTTATCACATATA
1 TTCACATTAGCCATTCGGCTTTACCACATATA
29882963 TACACTTTCA
Statistics
Matches: 116, Mismatches: 11, Indels: 1
0.91 0.09 0.01
Matches are distributed among these distances:
47 15 0.13
48 101 0.87
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:29883012 original size:49 final size:49
Alignment explanation
Indices: 29882941--29883221 Score: 486
Period size: 49 Copynumber: 5.9 Consensus size: 49
29882931 TTTCACATTA
*
29882941 GCCATT-GGCTTTATCAC--ATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
29882987 GCCATTAGGCCTTATCATATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
29883036 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
29883085 GCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACACCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
29883132 GCCATT-GGCCTTATCACATATATATACACTTTCACATTCATCACA-CG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
29883179 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
29883222 GCATAAAATC
Statistics
Matches: 225, Mismatches: 4, Indels: 10
0.94 0.02 0.04
Matches are distributed among these distances:
46 17 0.08
47 51 0.23
48 62 0.28
49 95 0.42
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
Found at i:29883204 original size:96 final size:97
Alignment explanation
Indices: 29882941--29883221 Score: 491
Period size: 96 Copynumber: 2.9 Consensus size: 97
29882931 TTTCACATTA
*
29882941 GCCATTGGCTTTATCAC--ATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
1 GCCATTGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
* *
29883004 TATATATATACACTTTCACATTCATCACATCG
66 CATATATATACACTTTCACATTCATCACACCG
29883036 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
1 GCCATT-GGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATC
29883101 AC--ATATATACACTTTCACATTCATCACACCG
65 ACATATATATACACTTTCACATTCATCACACCG
29883132 GCCATTGGCCTTATCACATATATATACACTTTCACATTCATCACA-CGGCCATTAGGCCTTATCA
1 GCCATTGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
29883196 CATATATATACACTTTCACATTCATC
66 CATATATATACACTTTCACATTCATC
29883222 GCATAAAATC
Statistics
Matches: 178, Mismatches: 3, Indels: 9
0.94 0.02 0.05
Matches are distributed among these distances:
94 20 0.11
95 45 0.25
96 67 0.38
98 46 0.26
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (97 bp):
GCCATTGGCCTTATCACATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCA
CATATATATACACTTTCACATTCATCACACCG
Found at i:29887302 original size:40 final size:40
Alignment explanation
Indices: 29887258--29887489 Score: 401
Period size: 40 Copynumber: 5.8 Consensus size: 40
29887248 CCATCATGAT
* * * *
29887258 TGCTCTTCGGGACCTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
29887298 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
29887338 TGCTTTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
29887378 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
29887418 TGCTCTTCGGAACTTAGTCCGGATACATCATTAGCACGAA
1 TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
*
29887458 TGCTCTTCGGAACTTAGTCCGAATACATCACT
1 TGCTCTTCGGAACTTAGTCCGGATACATCACT
29887490 CTCAATTCTC
Statistics
Matches: 183, Mismatches: 9, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
40 183 1.00
ACGTcount: A:0.27, C:0.27, G:0.20, T:0.26
Consensus pattern (40 bp):
TGCTCTTCGGAACTTAGTCCGGATACATCACTAGCACGAA
Found at i:29888844 original size:48 final size:48
Alignment explanation
Indices: 29888760--29888935 Score: 262
Period size: 48 Copynumber: 3.7 Consensus size: 48
29888750 TGTTACAACA
* * * *
29888760 TTCAGATTAGCCATACGGCTTTACCACATATTCATATCTCATACATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* *
29888808 TTCACATTCGCCATTCGGCTTTACGACATATACATATCTCATATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
* * *
29888856 TTCACATTCGCCATTCGGCTTTACCACATATACATATCACACATATAT
1 TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
*
29888904 TTCACATTAGCCATTCGGCTTTATCACATATA
1 TTCACATTAGCCATTCGGCTTTACCACATATA
29888936 TACACTTTCA
Statistics
Matches: 117, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
48 117 1.00
ACGTcount: A:0.30, C:0.26, G:0.08, T:0.36
Consensus pattern (48 bp):
TTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATATAT
Found at i:29888988 original size:49 final size:49
Alignment explanation
Indices: 29888913--29889242 Score: 575
Period size: 49 Copynumber: 6.9 Consensus size: 49
29888903 TTTCACATTA
* *
29888913 GCCATTCGGCTTTATCAC--ATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
29888960 GCCATTAGGCCTTATCATATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
29889009 GCCATTAGGCCTTATCACATATA-A-ACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
29889056 GCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
*
29889103 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACACCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
29889152 GCCATTAGG-CTTATCACATATATATACACTTTCACATTCATCACATCG
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
29889200 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
1 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
29889243 GCATAAAATC
Statistics
Matches: 270, Mismatches: 6, Indels: 12
0.94 0.02 0.04
Matches are distributed among these distances:
45 3 0.01
46 1 0.00
47 97 0.36
48 48 0.18
49 121 0.45
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (49 bp):
GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATCACATCG
Found at i:29889071 original size:143 final size:144
Alignment explanation
Indices: 29888913--29889242 Score: 583
Period size: 143 Copynumber: 2.3 Consensus size: 144
29888903 TTTCACATTA
* * *
29888913 GCCATTCGGCTTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAT
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
*
29888978 ATATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACATATA-A-ACACTTTC
66 ATATATATACACTTTCACATTCATCACACCGGCCATTAGG-CTTATCACATATATATACACTTTC
29889041 ACATTCATCACATCG
130 ACATTCATCACATCG
29889056 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
1 GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
29889121 ATATATATACACTTTCACATTCATCACACCGGCCATTAGGCTTATCACATATATATACACTTTCA
66 ATATATATACACTTTCACATTCATCACACCGGCCATTAGGCTTATCACATATATATACACTTTCA
29889186 CATTCATCACATCG
131 CATTCATCACATCG
29889200 GCCATTAGGCCTTATCACATATATATACACTTTCACATTCATC
1 GCCATTAGGCCTTATCAC--ATATATACACTTTCACATTCATC
29889243 GCATAAAATC
Statistics
Matches: 179, Mismatches: 4, Indels: 5
0.95 0.02 0.03
Matches are distributed among these distances:
142 13 0.07
143 102 0.57
144 41 0.23
146 23 0.13
ACGTcount: A:0.30, C:0.29, G:0.08, T:0.33
Consensus pattern (144 bp):
GCCATTAGGCCTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCAC
ATATATATACACTTTCACATTCATCACACCGGCCATTAGGCTTATCACATATATATACACTTTCA
CATTCATCACATCG
Found at i:29900270 original size:18 final size:18
Alignment explanation
Indices: 29900234--29900272 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
29900224 GTGGTAAGTC
* *
29900234 AATTATTCATCATGTTAA
1 AATTATTCATCAAGATAA
*
29900252 AATTATTCATTAAGATAA
1 AATTATTCATCAAGATAA
29900270 AAT
1 AAT
29900273 GCCTAATCAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.46, C:0.08, G:0.05, T:0.41
Consensus pattern (18 bp):
AATTATTCATCAAGATAA
Found at i:29901145 original size:15 final size:14
Alignment explanation
Indices: 29901106--29901148 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
29901096 TTTACTTTTG
*
29901106 AATTA-AATTTTAA
1 AATTATAATATTAA
*
29901119 AGTTATAATATTAA
1 AATTATAATATTAA
29901133 AATTATGAATATTAA
1 AATTAT-AATATTAA
29901148 A
1 A
29901149 TTGTTAAGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
13 4 0.16
14 12 0.48
15 9 0.36
ACGTcount: A:0.53, C:0.00, G:0.05, T:0.42
Consensus pattern (14 bp):
AATTATAATATTAA
Found at i:29901424 original size:16 final size:16
Alignment explanation
Indices: 29901403--29901433 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29901393 TTTTATATTA
*
29901403 TTTTAATATTAAATAT
1 TTTTAAAATTAAATAT
29901419 TTTTAAAATTAAATA
1 TTTTAAAATTAAATA
29901434 AATTAATATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
TTTTAAAATTAAATAT
Found at i:29902016 original size:208 final size:207
Alignment explanation
Indices: 29901646--29902064 Score: 660
Period size: 208 Copynumber: 2.0 Consensus size: 207
29901636 ACTTAGTTTA
* *
29901646 TTTAAAAACTTTTGTCTCGATCAAACTCATAGTGCGCTTCGAAAACATAAAACTTGAAAAAACTT
1 TTTAAAAACTTTCGTCTCGATCAAACTCAAAGTGCGCTTCGAAAACATAAAACTTGAAAAAACTT
* *
29901711 CACACATGTTTAGGAAAGCTTAAACTCGAAAACACTTATTCCAAACCCAAAAATTTAATTCAGTT
66 CACACATGTTTAGGAAAACTTAAACCCGAAAACACTTATTCCAAACCCAAAAATTTAATTCAGTT
* *
29901776 TCATTTGTTTCGAAATTAGCAATTTCGGATAAATCTTTTTCGGTTAAGTTTAACGTATTTTGAAA
131 TCATTTGTTTCGAAATTAGCAATTTCGGATAAATCTTTTTCGGTTAAGGTTAACGTATTTTCAAA
29901841 AAAAATTATTTG
196 AAAAATTATTTG
* *
29901853 TTTAAAAACTTTCGTCTCGATCAAACTCAAAGTGCGTTTCGAAAACATAATAA-TTGACAAAACT
1 TTTAAAAACTTTCGTCTCGATCAAACTCAAAGTGCGCTTCGAAAACATAA-AACTTGAAAAAAC-
* * * *
29901917 TTCACACATGTTTAGGAAAACTTAAACCCGAAAACACTTATTTCAAGCCTAGAAATTTAATTCAG
64 TTCACACATGTTTAGGAAAACTTAAACCCGAAAACACTTATTCCAAACCCAAAAATTTAATTCAG
* * * *
29901982 TTTCGTTTGTTTTGAAATTATCAATTTTGGATAAATCTTTTTCGGTTAAGGTTAACGTATTTTCA
129 TTTCATTTGTTTCGAAATTAGCAATTTCGGATAAATCTTTTTCGGTTAAGGTTAACGTATTTTCA
*
29902047 AAATAAATTATTTG
194 AAAAAAATTATTTG
29902061 TTTA
1 TTTA
29902065 CAGAAAAACA
Statistics
Matches: 193, Mismatches: 17, Indels: 3
0.91 0.08 0.01
Matches are distributed among these distances:
207 56 0.29
208 137 0.71
ACGTcount: A:0.37, C:0.15, G:0.12, T:0.36
Consensus pattern (207 bp):
TTTAAAAACTTTCGTCTCGATCAAACTCAAAGTGCGCTTCGAAAACATAAAACTTGAAAAAACTT
CACACATGTTTAGGAAAACTTAAACCCGAAAACACTTATTCCAAACCCAAAAATTTAATTCAGTT
TCATTTGTTTCGAAATTAGCAATTTCGGATAAATCTTTTTCGGTTAAGGTTAACGTATTTTCAAA
AAAAATTATTTG
Found at i:29908489 original size:116 final size:116
Alignment explanation
Indices: 29908265--29908492 Score: 257
Period size: 115 Copynumber: 2.0 Consensus size: 116
29908255 CACACACCCA
* * * * *
29908265 TGTCCTTGGCCTTGTGGCTTACATGCTCTGGGCATATGCCTATGTCCTCTGTCCGCGTGGTTCTA
1 TGTCCTTGGCCTTGTGACTTACACGCTCTGGGCACATGCCGATGTCCTCTGTCCGCGTGGTCCTA
* * * * *
29908330 AAACATAAACAGTGAGTTACACGGCTTGGAAACACTCCATGTCCTTGTTCG
66 AAACACAAACAGGGAGTTACACGGCCTAGAAACACGCCATGTCCTTGTTCG
*
29908381 TGTCCTT-GCCTGTGTGACTTACACGAC-CTGGGCACATGCCGATGTCC-CTGGT-CGTGTGGTC
1 TGTCCTTGGCCT-TGTGACTTACACG-CTCTGGGCACATGCCGATGTCCTCT-GTCCGCGTGGTC
** * *
29908442 CTAAGTCACAAACAGGGAGTTACACGGCCTAGACACACGCCTGTGTCCTTG
63 CTAAAACACAAACAGGGAGTTACACGGCCTAGAAACACGCC-ATGTCCTTG
29908493 CCTGTGTGAA
Statistics
Matches: 93, Mismatches: 15, Indels: 8
0.80 0.13 0.07
Matches are distributed among these distances:
115 46 0.49
116 46 0.49
117 1 0.01
ACGTcount: A:0.19, C:0.28, G:0.25, T:0.29
Consensus pattern (116 bp):
TGTCCTTGGCCTTGTGACTTACACGCTCTGGGCACATGCCGATGTCCTCTGTCCGCGTGGTCCTA
AAACACAAACAGGGAGTTACACGGCCTAGAAACACGCCATGTCCTTGTTCG
Found at i:29909169 original size:21 final size:20
Alignment explanation
Indices: 29909127--29909179 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 20
29909117 GAAACAAGCA
* *
29909127 AAAAGATAAAAAAGAAGAAG
1 AAAAGAAAAAAAAGAACAAG
*
29909147 AAGAAGAAAAAAAAGAACTAG
1 AA-AAGAAAAAAAAGAACAAG
29909168 AAAAGGAAAAAA
1 AAAA-GAAAAAA
29909180 CGATATAACT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
20 4 0.14
21 24 0.86
ACGTcount: A:0.75, C:0.02, G:0.19, T:0.04
Consensus pattern (20 bp):
AAAAGAAAAAAAAGAACAAG
Found at i:29918446 original size:62 final size:62
Alignment explanation
Indices: 29918315--29918446 Score: 140
Period size: 62 Copynumber: 2.1 Consensus size: 62
29918305 GGCACACACT
* * * * * * * *
29918315 CATGTCCTCT-GCTCGTGTGGTTCTAAAACATAAACAGTGAGTTACACGGCTTGGATACATGCC
1 CATGTCC-CTGGC-CGTGTGGTCCTAAAACACAAACAGAGAGTTACACAGCCTAGACACACGCC
**
29918378 CATGTCCCTGGCCGTGTGGTCCTAAGTCACAAACAGAGAGTTACACAGCCTAGACACACGCC
1 CATGTCCCTGGCCGTGTGGTCCTAAAACACAAACAGAGAGTTACACAGCCTAGACACACGCC
*
29918440 CGTGTCC
1 CATGTCC
29918447 TTGCCCATGT
Statistics
Matches: 57, Mismatches: 11, Indels: 3
0.80 0.15 0.04
Matches are distributed among these distances:
62 48 0.84
63 9 0.16
ACGTcount: A:0.25, C:0.29, G:0.23, T:0.23
Consensus pattern (62 bp):
CATGTCCCTGGCCGTGTGGTCCTAAAACACAAACAGAGAGTTACACAGCCTAGACACACGCC
Found at i:29922848 original size:98 final size:97
Alignment explanation
Indices: 29922597--29922906 Score: 273
Period size: 97 Copynumber: 3.2 Consensus size: 97
29922587 GGTATTTCCA
*
29922597 AAACACGTGTAATATTAAGAACTACATAAGAATAAATGAAGA-TGATGGTTTGTATTTGAACTCT
1 AAACACGTGTAATATTAAGAACTATATAAGAATAAATGAAGACT-ATGGTTTGTATTTGAACTCT
* * *
29922661 AAAAATCAAATCAATTATACGATCGATTTTCAC
65 AAAAATCAAATAAATTATAAGATCGATCTTCAC
* * * * * * ** * * * *
29922694 AAACATGTGTAATATTGAGAACTATATATGAATAAAGGACGACAATAATTTATATTTGAATTTTG
1 AAACACGTGTAATATTAAGAACTATATAAGAATAAATGAAGACTATGGTTTGTATTTGAACTCTA
* * * *
29922759 TAGATTAAATAAATTATAATATTC-ATCTTCAC
66 AAAATCAAATAAATTATAAGA-TCGATCTTCAC
* * * * * *
29922791 TAAACACGTGTAATATTAATAACTGTATAAGAACAAATGAAGACTATGGTATGTATTTTAACACT
1 -AAACACGTGTAATATTAAGAACTATATAAGAATAAATGAAGACTATGGTTTGTATTTGAACTCT
* * * * *
29922856 AAAAATCAAATCAATTATAGGAACAATCTTAAC
65 AAAAATCAAATAAATTATAAGATCGATCTTCAC
* * *
29922889 AAATATGTGTAACATTAA
1 AAACACGTGTAATATTAA
29922907 AACATGCATG
Statistics
Matches: 160, Mismatches: 49, Indels: 8
0.74 0.23 0.04
Matches are distributed among these distances:
97 89 0.56
98 71 0.44
ACGTcount: A:0.45, C:0.11, G:0.12, T:0.33
Consensus pattern (97 bp):
AAACACGTGTAATATTAAGAACTATATAAGAATAAATGAAGACTATGGTTTGTATTTGAACTCTA
AAAATCAAATAAATTATAAGATCGATCTTCAC
Found at i:29923654 original size:17 final size:17
Alignment explanation
Indices: 29923632--29923667 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
29923622 TGTTCTTTGC
*
29923632 AAAACACGTGCAATATT
1 AAAACACATGCAATATT
*
29923649 AAAACACATGTAATATT
1 AAAACACATGCAATATT
29923666 AA
1 AA
29923668 GATTGTTCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.53, C:0.14, G:0.08, T:0.25
Consensus pattern (17 bp):
AAAACACATGCAATATT
Found at i:29924163 original size:27 final size:27
Alignment explanation
Indices: 29924133--29924186 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
29924123 TCCCAAGAAG
29924133 ATAACTCAAAATTCAAATAATGGAGAC
1 ATAACTCAAAATTCAAATAATGGAGAC
29924160 ATAACTCAAAATTCAAATAATGGAGAC
1 ATAACTCAAAATTCAAATAATGGAGAC
29924187 GGTATTATGA
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:0.15, G:0.11, T:0.22
Consensus pattern (27 bp):
ATAACTCAAAATTCAAATAATGGAGAC
Found at i:29927775 original size:98 final size:98
Alignment explanation
Indices: 29927673--29927954 Score: 266
Period size: 97 Copynumber: 2.9 Consensus size: 98
29927663 ATTGATGTTG
* *
29927673 ACAAAACCCATGAAATATTGAGAACTGCATAAGAATAAATGAAGACGATGGTTTGTATTTGAACT
1 ACAAAACCCATGTAATATTGAGAACTGCATAAGAATAAATGAAGACAATGGTTTGTATTTGAACT
* * *
29927738 CTAAATATCAAATCAGTTATACGATCGATCTTC
66 CTAAATATCAAATCAATTATAAGATCCATCTTC
* ** * * * * * ** *
29927771 AC-AAACACGA-GTAATATTGATTACTACATATGAATACATGATGATAATAATTTATATTTGAAT
1 ACAAAAC-CCATGTAATATTGAGAACTGCATAAGAATAAATGAAGACAATGGTTTGTATTTGAA-
* *
29927834 CTCGTAAAT-T-AAATAAATTATAATATCCATCTTC
64 CTC-TAAATATCAAATCAATTATAAGATCCATCTTC
* * * * * * * *
29927868 GCAAAACACGTGTAATAATAAGAACTGCATAAGAATAAATGAAGACTATGGTTTGTATTTTAACA
1 ACAAAACCCATGTAATATTGAGAACTGCATAAGAATAAATGAAGACAATGGTTTGTATTTGAACT
*
29927933 CTAAAAATCAAATCAATTATAA
66 CTAAATATCAAATCAATTATAA
29927955 TACTCTTTGA
Statistics
Matches: 138, Mismatches: 39, Indels: 14
0.72 0.20 0.07
Matches are distributed among these distances:
96 4 0.03
97 67 0.49
98 62 0.45
99 5 0.04
ACGTcount: A:0.44, C:0.13, G:0.12, T:0.31
Consensus pattern (98 bp):
ACAAAACCCATGTAATATTGAGAACTGCATAAGAATAAATGAAGACAATGGTTTGTATTTGAACT
CTAAATATCAAATCAATTATAAGATCCATCTTC
Found at i:29927894 original size:195 final size:195
Alignment explanation
Indices: 29927598--29927953 Score: 477
Period size: 195 Copynumber: 1.8 Consensus size: 195
29927588 AATTTAAAGA
*
29927598 ACTACATATGAATGAATGACGACAATAATTTCTATTTGAATACTATAAATTAAATAAACGATATG
1 ACTACATATGAATGAATGACGACAATAATTTATATTTGAATACTATAAATTAAATAAACGATATG
** * * * *
29927663 ATTGATGTTGACAAAACCCATGAAATATTGAGAACTGCATAAGAATAAATGAAGACGATGGTTTG
66 ATCCATCTTGACAAAACACATGAAATAATAAGAACTGCATAAGAATAAATGAAGACGATGGTTTG
* * *
29927728 TATTTGAACTCTAAATATCAAATCAGTTATACGATCGATCTTCACAAACACGAGTAATATTGATT
131 TATTTGAACACTAAAAATCAAATCAATTATACGATCGATCTTCACAAACACGAGTAATATTGATT
* * * **
29927793 ACTACATATGAAT-ACATGATGATAATAATTTATATTTGAAT-CTCGTAAATTAAATAAATTATA
1 ACTACATATGAATGA-ATGACGACAATAATTTATATTTGAATACT-ATAAATTAAATAAACGAT-
* * *
29927856 AT-ATCCATCTTCG-CAAAACACGTGTAATAATAAGAACTGCATAAGAATAAATGAAGACTATGG
63 ATGATCCATCTT-GACAAAACACATGAAATAATAAGAACTGCATAAGAATAAATGAAGACGATGG
*
29927919 TTTGTATTTTAACACTAAAAATCAAATCAATTATA
127 TTTGTATTTGAACACTAAAAATCAAATCAATTATA
29927954 ATACTCTTTG
Statistics
Matches: 138, Mismatches: 19, Indels: 8
0.84 0.12 0.05
Matches are distributed among these distances:
194 3 0.02
195 132 0.96
196 3 0.02
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (195 bp):
ACTACATATGAATGAATGACGACAATAATTTATATTTGAATACTATAAATTAAATAAACGATATG
ATCCATCTTGACAAAACACATGAAATAATAAGAACTGCATAAGAATAAATGAAGACGATGGTTTG
TATTTGAACACTAAAAATCAAATCAATTATACGATCGATCTTCACAAACACGAGTAATATTGATT
Found at i:29927955 original size:98 final size:97
Alignment explanation
Indices: 29927693--29927956 Score: 264
Period size: 98 Copynumber: 2.7 Consensus size: 97
29927683 TGAAATATTG
* * *
29927693 AGAACTGCATAAGAATAAATGAAGACGATGGTTTGTATTTGAACTCTAAATATCAAATCAGTTAT
1 AGAACTGCATAAGAATAAATGAAGACTATGGTTTGTATTTGAACTCTAAAAATCAAATCAATTAT
** * * *
29927758 ACGATCGATCTTCACAAACACGAGTAATATTG
66 AATATCCATCTTCACAAACACGAGTAATAATA
** * * * * ** * * *
29927790 ATTACTACATATGAATACATGATGA-TAATAATTTATATTTGAATCTCGT--AAATTAAATAAAT
1 AGAACTGCATAAGAATAAATGAAGACT-ATGGTTTGTATTTGAA-CTC-TAAAAATCAAATCAAT
* *
29927852 TATAATATCCATCTTCGCAAAACACGTGTAATAATA
63 TATAATATCCATCTTCAC-AAACACGAGTAATAATA
* *
29927888 AGAACTGCATAAGAATAAATGAAGACTATGGTTTGTATTTTAACACTAAAAATCAAATCAATTAT
1 AGAACTGCATAAGAATAAATGAAGACTATGGTTTGTATTTGAACTCTAAAAATCAAATCAATTAT
29927953 AATA
66 AATA
29927957 CTCTTTGAAG
Statistics
Matches: 126, Mismatches: 34, Indels: 13
0.73 0.20 0.08
Matches are distributed among these distances:
96 1 0.01
97 57 0.45
98 66 0.52
99 2 0.02
ACGTcount: A:0.44, C:0.12, G:0.12, T:0.32
Consensus pattern (97 bp):
AGAACTGCATAAGAATAAATGAAGACTATGGTTTGTATTTGAACTCTAAAAATCAAATCAATTAT
AATATCCATCTTCACAAACACGAGTAATAATA
Found at i:29928847 original size:26 final size:26
Alignment explanation
Indices: 29928811--29928863 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
29928801 TTTTAGACAT
*
29928811 ATTCATTACCATATATGTAATTTTGG
1 ATTCATAACCATATATGTAATTTTGG
*
29928837 ATTCATAACCATATATGTGATTTTGG
1 ATTCATAACCATATATGTAATTTTGG
29928863 A
1 A
29928864 CAACACAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.13, T:0.43
Consensus pattern (26 bp):
ATTCATAACCATATATGTAATTTTGG
Found at i:29929671 original size:26 final size:26
Alignment explanation
Indices: 29929642--29929694 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 26
29929632 TTTTGGACAT
* *
29929642 ATTCATAATTAAATATGTGATTTTGG
1 ATTCATAATCAAATATATGATTTTGG
*
29929668 ATTCATAATCATATATATGATTTTGG
1 ATTCATAATCAAATATATGATTTTGG
29929694 A
1 A
29929695 CAACTCAGTT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.36, C:0.06, G:0.13, T:0.45
Consensus pattern (26 bp):
ATTCATAATCAAATATATGATTTTGG
Found at i:29930313 original size:16 final size:17
Alignment explanation
Indices: 29930282--29930314 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
29930272 ATATTATTAG
*
29930282 GTTTAATTTTTTTATTT
1 GTTTAATTTTTGTATTT
29930299 GTTTAA-TTTTGTATTT
1 GTTTAATTTTTGTATTT
29930315 AATTTGTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 9 0.60
17 6 0.40
ACGTcount: A:0.18, C:0.00, G:0.09, T:0.73
Consensus pattern (17 bp):
GTTTAATTTTTGTATTT
Found at i:29942553 original size:2 final size:2
Alignment explanation
Indices: 29942548--29942587 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
29942538 AAAGGGACAA
29942548 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
29942588 GTATGAAAAA
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:29942686 original size:3 final size:3
Alignment explanation
Indices: 29942678--29942713 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
29942668 TTCAAGCATA
*
29942678 AAT AAT AAT AAT AAT AAT AAT ACT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
29942714 TAGGATTTGA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.64, C:0.03, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:29958034 original size:47 final size:47
Alignment explanation
Indices: 29957964--29958495 Score: 762
Period size: 47 Copynumber: 11.3 Consensus size: 47
29957954 ATGATATACA
* *
29957964 TATATGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTG
1 TATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
29958011 TATATATGTGATAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* * *
29958058 CATATGTGCGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* * * *
29958105 TATATATGTGATGAGGCCTAATGGCCTATGTGGTGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
29958152 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
29958199 CATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* * * *
29958246 TATACGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAACGTG
1 TATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
29958293 TATATATGTGATAAGGCCTAATGGCCCATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* *
29958340 CATATGTGCGATAAGG-CTGAATGGCCAATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCT-AATGGCCAATGTGATGAATGTGAAAGTG
* * *
29958387 TATATATGTGATGAGGCCTAATGGCCTATGTGATGAATGTGAAAGTG
1 TATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
* * * *
29958434 CATAAGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTG
1 TATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
29958481 CT-TATGTGTGATAAG
1 -TATATGTGTGATAAG
29958496 TCCCGAAGGG
Statistics
Matches: 433, Mismatches: 49, Indels: 6
0.89 0.10 0.01
Matches are distributed among these distances:
46 2 0.00
47 429 0.99
48 2 0.00
ACGTcount: A:0.30, C:0.10, G:0.31, T:0.28
Consensus pattern (47 bp):
TATATGTGTGATAAGGCCTAATGGCCAATGTGATGAATGTGAAAGTG
Found at i:29958126 original size:94 final size:94
Alignment explanation
Indices: 29957965--29958495 Score: 848
Period size: 94 Copynumber: 5.6 Consensus size: 94
29957955 TGATATACAT
*
29957965 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAAAGTGTATATATGTGATAAGGCCT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
29958030 AATGGCCCATGTGATGAATGTGAAAGTGC
66 AATGGCCCATGTGATGAATGTGAAAGTGC
* *
29958059 ATATGTGCGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
* *
29958124 AATGGCCTATGTGGTGAATGTGAAAGTGC
66 AATGGCCCATGTGATGAATGTGAAAGTGC
* * *
29958153 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGCATATGTGTGATAAGGCCG
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
* *
29958218 AATGGCCAATGTGATGAATGTGAAAGTGT
66 AATGGCCCATGTGATGAATGTGAAAGTGC
* * *
29958247 ATACGTGTGATAAGGCCGAATGGCCAATGTGATGGATGTGAACGTGTATATATGTGATAAGGCCT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
29958312 AATGGCCCATGTGATGAATGTGAAAGTGC
66 AATGGCCCATGTGATGAATGTGAAAGTGC
* * *
29958341 ATATGTGCGATAAGGCTGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATGAGGCCT
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
*
29958406 AATGGCCTATGTGATGAATGTGAAAGTGC
66 AATGGCCCATGTGATGAATGTGAAAGTGC
* * * * *
29958435 ATAAGTGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAGAGTGCT-TATGTGTGATAAG
1 ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTG-TATATATGTGATAAG
29958496 TCCCGAAGGG
Statistics
Matches: 400, Mismatches: 36, Indels: 2
0.91 0.08 0.00
Matches are distributed among these distances:
94 399 1.00
95 1 0.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.28
Consensus pattern (94 bp):
ATATGTGTGATAAGGCCGAATGGCCAATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCT
AATGGCCCATGTGATGAATGTGAAAGTGC
Found at i:29958158 original size:23 final size:23
Alignment explanation
Indices: 29958131--29958206 Score: 59
Period size: 23 Copynumber: 3.3 Consensus size: 23
29958121 CCTAATGGCC
29958131 TATGTGGTGAATGTGAAAGTGCA
1 TATGTGGTGAATGTGAAAGTGCA
* * *
29958154 TATGT-GTGATAAGGCCGAATG-GCCA
1 TATGTGGTG--AATG-TGAAAGTG-CA
*
29958179 -ATGTGATGAATGTGAAAGTGCA
1 TATGTGGTGAATGTGAAAGTGCA
29958201 TATGTG
1 TATGTG
29958207 TGATAAGGCC
Statistics
Matches: 39, Mismatches: 7, Indels: 14
0.65 0.12 0.23
Matches are distributed among these distances:
22 9 0.23
23 14 0.36
24 8 0.21
25 8 0.21
ACGTcount: A:0.30, C:0.08, G:0.33, T:0.29
Consensus pattern (23 bp):
TATGTGGTGAATGTGAAAGTGCA
Found at i:29958182 original size:24 final size:24
Alignment explanation
Indices: 29958155--29958230 Score: 70
Period size: 22 Copynumber: 3.2 Consensus size: 24
29958145 GAAAGTGCAT
29958155 ATGTGTGATAAGGCCGAATGGCCA
1 ATGTGTGATAAGGCCGAATGGCCA
* * *
29958179 A--TGTGATGAATG-TGAAAGTG-CA
1 ATGTGTGAT-AAGGCCGAATG-GCCA
29958201 TATGTGTGATAAGGCCGAATGGCCA
1 -ATGTGTGATAAGGCCGAATGGCCA
29958226 ATGTG
1 ATGTG
29958231 ATGAATGTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 14
0.66 0.10 0.24
Matches are distributed among these distances:
22 12 0.31
23 5 0.13
24 10 0.26
25 12 0.31
ACGTcount: A:0.30, C:0.12, G:0.33, T:0.25
Consensus pattern (24 bp):
ATGTGTGATAAGGCCGAATGGCCA
Found at i:29970644 original size:46 final size:46
Alignment explanation
Indices: 29970594--29970767 Score: 190
Period size: 46 Copynumber: 3.8 Consensus size: 46
29970584 TTTGGGCATC
* *
29970594 CGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTT
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTT
*** * * * *
29970640 CGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTA-AC-TAGGTAT
1 CGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATGGATGCGAACGT-T
* **
29970686 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCC
1 -CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTT
*
29970733 CGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29970768 GCGGGTTACA
Statistics
Matches: 105, Mismatches: 18, Indels: 10
0.79 0.14 0.08
Matches are distributed among these distances:
45 3 0.03
46 68 0.65
47 32 0.30
48 2 0.02
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (46 bp):
CGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTT
Found at i:29970750 original size:93 final size:93
Alignment explanation
Indices: 29970591--29970759 Score: 284
Period size: 93 Copynumber: 1.8 Consensus size: 93
29970581 ATGTTTGGGC
* * **
29970591 ATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTTCGAACTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
29970656 AGTCCGAGTTCGAGAGATGTAACTAGGT
66 AGTCCGAGTTCGAGAGATGTAACTAGGT
* *
29970684 ATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGTTG
1 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
29970749 AGTCCGAGTTC
66 AGTCCGAGTTC
29970760 ACTTATGGGC
Statistics
Matches: 70, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (93 bp):
ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAGTTG
AGTCCGAGTTCGAGAGATGTAACTAGGT
Found at i:29973725 original size:15 final size:15
Alignment explanation
Indices: 29973705--29973773 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
29973695 GTATCTTGGG
29973705 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
29973720 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
29973735 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
29973750 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
29973765 TTTCTTTAT
1 TTTCTTTAT
29973774 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:29973774 original size:30 final size:30
Alignment explanation
Indices: 29973696--29973783 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
29973686 CATAGTATCG
* * * *
29973696 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
29973726 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
29973756 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
29973784 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:29975753 original size:46 final size:45
Alignment explanation
Indices: 29975700--29975875 Score: 194
Period size: 46 Copynumber: 3.8 Consensus size: 45
29975690 TGTTTGGGCA
*
29975700 TCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *** * *
29975746 TCTGAACTCGTTGAGTTGAGTCCGAGTTCGAGAGATGTAACTAG-GCA-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-ACTTATG-GA-T-GCGAAG
*
29975793 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G
* *
29975839 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
29975876 GCGGGTTACA
Statistics
Matches: 108, Mismatches: 15, Indels: 14
0.79 0.11 0.10
Matches are distributed among these distances:
43 1 0.01
44 3 0.03
45 1 0.01
46 67 0.62
47 31 0.29
48 1 0.01
49 3 0.03
50 1 0.01
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.30
Consensus pattern (45 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAG
Found at i:29975855 original size:93 final size:93
Alignment explanation
Indices: 29975696--29975867 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
29975686 AGGATGTTTG
* * * *
29975696 GGCATCCGAACTCGTTGAGTTGAGTCTGAGTTCACTTATGGATGCGAATGTCTGAACTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
29975761 TTGAGTCCGAGTTCGAGAGATGTAACTA
66 TTGAGTCCGAGTTCGAGAGATGTAACTA
* *
29975789 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
29975854 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
29975868 ACTTATGGGC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
93 73 1.00
ACGTcount: A:0.21, C:0.20, G:0.30, T:0.28
Consensus pattern (93 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAACTCGTTGAG
TTGAGTCCGAGTTCGAGAGATGTAACTA
Found at i:29981513 original size:40 final size:39
Alignment explanation
Indices: 29981363--29981548 Score: 182
Period size: 40 Copynumber: 4.6 Consensus size: 39
29981353 TCGAATGATG
* * * *
29981363 TCCGGGCTAAGTTCCGAAGGC-TTTGTGCTAAGTGACTATA
1 TCCGGGATAAG-TCCGAAGGCATTTGTGC-GAGTTACTAAA
29981403 TCC-GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
29981443 TCC-GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGA-TAAG-TCCGAAGGCATTTGTGCGAGTTACTAAA
* *
29981483 TCCGGGATAAGTCCCGAAGGCATTTATGCGAGCTACTATAA
1 TCCGGGATAAGT-CCGAAGGCATTTGTGCGAGTTACTA-AA
* * *
29981524 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGATAAGT-CCGAAGGCATTTG
29981549 AACGAGTAGC
Statistics
Matches: 130, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
39 3 0.02
40 115 0.88
41 12 0.09
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
TCCGGGATAAGTCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:29981540 original size:80 final size:80
Alignment explanation
Indices: 29981363--29981548 Score: 211
Period size: 80 Copynumber: 2.3 Consensus size: 80
29981353 TCGAATGATG
*
29981363 TCCGGGCTAAGTTCCGAAGGC-TTTGTGCTAAGTGACTATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATT
* *
29981427 TGTGCGAGTTACTAAA
65 TATGCGAGCTACTAAA
* * *
29981443 TCCGGACTAAGATCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGA-TAAG-TCCCGAAGGCA
1 TCCGGGCTAAG-TCCGAAGGCATTTGTGCTAAGTGACTAAATCC-GGACTAAGAT-CCGAAGGCA
29981505 TTTATGCGAGCTACTATAA
63 TTTATGCGAGCTACTA-AA
* *
29981524 -CCGGGCTATGTCCCGAAGGTATTTG
1 TCCGGGCTAAGT-CCGAAGGCATTTG
29981549 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
79 2 0.02
80 77 0.85
81 12 0.13
ACGTcount: A:0.26, C:0.21, G:0.26, T:0.26
Consensus pattern (80 bp):
TCCGGGCTAAGTCCGAAGGCATTTGTGCTAAGTGACTAAATCCGGACTAAGATCCGAAGGCATTT
ATGCGAGCTACTAAA
Found at i:29981566 original size:80 final size:81
Alignment explanation
Indices: 29981397--29981567 Score: 192
Period size: 80 Copynumber: 2.1 Consensus size: 81
29981387 GTGCTAAGTG
* *
29981397 ACTATATCC-GGACTAAGATCCGAAGGCATTTGTGCGAGTTACTAAATCCGGACTAAGATCCGAA
1 ACTATATCCGGGACTAAGATCCGAAGGCATTTATGCGAGCTACTAAATCCGGACTAAGATCCGAA
**
29981461 GGCATTTGTGCGAGTT
66 GGCATTTGAACGAGTT
* * *
29981477 ACTAAATCCGGGA-TAAG-TCCCGAAGGCATTTATGCGAGCTACTATAA-CCGGGCTATG-TCCC
1 ACTATATCCGGGACTAAGAT-CCGAAGGCATTTATGCGAGCTACTA-AATCCGGACTAAGAT-CC
*
29981538 GAAGGTATTTGAACGAG-T
63 GAAGGCATTTGAACGAGTT
29981556 AGCTATATCCGG
1 A-CTATATCCGG
29981568 TTAAACTCCA
Statistics
Matches: 77, Mismatches: 9, Indels: 10
0.80 0.09 0.10
Matches are distributed among these distances:
79 4 0.05
80 68 0.88
81 5 0.06
ACGTcount: A:0.29, C:0.21, G:0.25, T:0.25
Consensus pattern (81 bp):
ACTATATCCGGGACTAAGATCCGAAGGCATTTATGCGAGCTACTAAATCCGGACTAAGATCCGAA
GGCATTTGAACGAGTT
Found at i:29988454 original size:43 final size:43
Alignment explanation
Indices: 29988387--29988470 Score: 123
Period size: 43 Copynumber: 2.0 Consensus size: 43
29988377 GAGATATGTG
* * * *
29988387 GCATCCGAGCTCTTTGAGAGGTCTGAGTTCATTATGGATGCAA
1 GCATCCGAGCTCGTCGAGAAGTCTGAGTTCATAATGGATGCAA
*
29988430 GCATTCGAGCTCGTCGAGAAGTCTGAGTTCATAATGGATGC
1 GCATCCGAGCTCGTCGAGAAGTCTGAGTTCATAATGGATGC
29988471 GATTCATGTA
Statistics
Matches: 36, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 36 1.00
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.29
Consensus pattern (43 bp):
GCATCCGAGCTCGTCGAGAAGTCTGAGTTCATAATGGATGCAA
Found at i:29994625 original size:27 final size:27
Alignment explanation
Indices: 29994044--29994624 Score: 690
Period size: 27 Copynumber: 21.6 Consensus size: 27
29994034 AAAGTACTCC
29994044 CGATTTACAGAATTACCGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* *
29994070 C-AGTTTATAGAATTACTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
** *
29994097 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
29994124 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
** *
29994151 CGATTTGTAAAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
29994178 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
29994205 C-AGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
*
29994232 CGATTTACAGAATTACCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
**
29994259 C-AGTTTACAGAATTATTGTTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
29994286 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
29994313 CAATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* ***
29994340 TGATTTGTTGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
29994367 CGATTTATAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* **
29994394 -TAGTTTACAGAATTACTATTTTACCCT
1 CGA-TTTACAGAATTACCGTTTTACCCT
* *
29994421 CGATTTATAGAATTACTGTTTTACCC-
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
29994447 CTAATTTACATAATTACCATTTTACCC-
1 C-GATTTACAGAATTACCGTTTTACCCT
* *
29994474 CGATTTACATAATTATCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
29994501 CGATTTACAGAATTACCGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* * *
29994528 CGATTTACAGTATTTCCATTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
29994555 CGATTTATAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
* *
29994582 TGATTTACAGAATTACTGTTTTACCCT
1 CGATTTACAGAATTACCGTTTTACCCT
*
29994609 CGATTTACAAAATTAC
1 CGATTTACAGAATTAC
29994625 TAAAATACCC
Statistics
Matches: 484, Mismatches: 60, Indels: 21
0.86 0.11 0.04
Matches are distributed among these distances:
25 1 0.00
26 48 0.10
27 431 0.89
28 4 0.01
ACGTcount: A:0.27, C:0.22, G:0.10, T:0.42
Consensus pattern (27 bp):
CGATTTACAGAATTACCGTTTTACCCT
Found at i:29995893 original size:25 final size:25
Alignment explanation
Indices: 29995865--29995912 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
29995855 TTATACCATG
* * *
29995865 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
29995890 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
29995913 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:29995996 original size:11 final size:11
Alignment explanation
Indices: 29995960--29996015 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
29995950 TATGGTATGT
29995960 ATGATATGCAC
1 ATGATATGCAC
* *
29995971 ATGAAATG--T
1 ATGATATGCAC
29995980 ATGATATGCAC
1 ATGATATGCAC
*
29995991 ATGATATG--T
1 ATGATATGCAC
29996000 ATGATATGCAC
1 ATGATATGCAC
29996011 ATGAT
1 ATGAT
29996016 GTAATCATAA
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.38, C:0.11, G:0.20, T:0.32
Consensus pattern (11 bp):
ATGATATGCAC
Found at i:29996015 original size:20 final size:20
Alignment explanation
Indices: 29995955--29996015 Score: 113
Period size: 20 Copynumber: 3.0 Consensus size: 20
29995945 ATAAATATGG
29995955 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
*
29995975 AATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
29995995 TATGTATGATATGCACATGA
1 TATGTATGATATGCACATGA
29996015 T
1 T
29996016 GTAATCATAA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 39 1.00
ACGTcount: A:0.36, C:0.10, G:0.20, T:0.34
Consensus pattern (20 bp):
TATGTATGATATGCACATGA
Found at i:29996092 original size:24 final size:24
Alignment explanation
Indices: 29996065--29996183 Score: 170
Period size: 24 Copynumber: 5.0 Consensus size: 24
29996055 GAGGAAGTGA
*
29996065 AAAAGGGCTTATGCCCCAGTTATC
1 AAAAGGGCTTATGCCCCAGTTATT
29996089 AAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATT
29996112 AAAAGGGCTTATGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
* *
29996136 GAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATT
*
29996160 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
29996184 ATGATAAAGC
Statistics
Matches: 86, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
23 22 0.26
24 53 0.62
25 11 0.13
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (24 bp):
AAAAGGGCTTATGCCCCAGTTATT
Found at i:29996134 original size:47 final size:48
Alignment explanation
Indices: 29996065--29996183 Score: 170
Period size: 47 Copynumber: 2.5 Consensus size: 48
29996055 GAGGAAGTGA
29996065 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTA-T
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
** *
29996112 AAAAGGGCTTATGCCCCAGTTATTGAAAGGGCTTTTGCCCCAGTTATT
1 AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
*
29996160 AAAAGAGGC-TAGGCCTCCAGTTAT
1 AAAAG-GGCTTATGCC-CCAGTTAT
29996184 ATGATAAAGC
Statistics
Matches: 65, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
47 43 0.66
48 11 0.17
49 11 0.17
ACGTcount: A:0.29, C:0.22, G:0.23, T:0.27
Consensus pattern (48 bp):
AAAAGGGCTTATGCCCCAGTTATCAAAAGGGCTTATGCCCCAGTTATT
Found at i:29996410 original size:31 final size:31
Alignment explanation
Indices: 29996375--29996438 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
29996365 CGTTTACAGT
29996375 AAAGGCTTCGGCCCAGTAATATGAAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
** *
29996406 AAAGGCTTCGGCCCAGTGTTATGGAATATGA
1 AAAGGCTTCGGCCCAGTAATATGAAATATGA
29996437 AA
1 AA
29996439 CATGCAAAGG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.36, C:0.16, G:0.25, T:0.23
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTAATATGAAATATGA
Found at i:30002027 original size:23 final size:23
Alignment explanation
Indices: 30001968--30002027 Score: 75
Period size: 23 Copynumber: 2.6 Consensus size: 23
30001958 TGTCCTAATG
30001968 CACACGGGCGTGTGCATTGCCTC
1 CACACGGGCGTGTGCATTGCCTC
* * * *
30001991 CATATGGGCATGTGCGTTGCCTC
1 CACACGGGCGTGTGCATTGCCTC
*
30002014 CACACGGCCGTGTG
1 CACACGGGCGTGTG
30002028 AGGCTTAAAC
Statistics
Matches: 29, Mismatches: 8, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.13, C:0.32, G:0.32, T:0.23
Consensus pattern (23 bp):
CACACGGGCGTGTGCATTGCCTC
Found at i:30004352 original size:33 final size:33
Alignment explanation
Indices: 30004288--30004353 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
30004278 GAATGTAGAA
*
30004288 AACTAATAACACAAACTTAATCAAACTTTTTAT
1 AACTAATAACACAAACTTAATCAAACATTTTAT
* * ** *
30004321 AACTGATAACATAAACTTGGTCCAACATTTTAT
1 AACTAATAACACAAACTTAATCAAACATTTTAT
30004354 TATTACAAGT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.44, C:0.18, G:0.05, T:0.33
Consensus pattern (33 bp):
AACTAATAACACAAACTTAATCAAACATTTTAT
Found at i:30011123 original size:48 final size:48
Alignment explanation
Indices: 30011052--30011148 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
30011042 CCCCACACTT
*
30011052 AAGCATTTTCTTGTCCTCAAGCAAAATCCTCATCTCACATCAAAATTA
1 AAGCATTTTCTTATCCTCAAGCAAAATCCTCATCTCACATCAAAATTA
*
30011100 AAGCATTTTCTTATCCTCAAGCAAAATCCTCATCTCACATTAAAATTA
1 AAGCATTTTCTTATCCTCAAGCAAAATCCTCATCTCACATCAAAATTA
30011148 A
1 A
30011149 TATTTCTCAA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.37, C:0.26, G:0.05, T:0.32
Consensus pattern (48 bp):
AAGCATTTTCTTATCCTCAAGCAAAATCCTCATCTCACATCAAAATTA
Found at i:30025866 original size:55 final size:55
Alignment explanation
Indices: 30025832--30025949 Score: 186
Period size: 55 Copynumber: 2.2 Consensus size: 55
30025822 TATAAATAAG
*
30025832 AAGAA-AATAAACAGATAGTACTAAAATAAGAATAAAAGTAATAATAAGATTAAA
1 AAGAATAATAAACACATAGTACTAAAATAAGAATAAAAGTAATAATAAGATTAAA
* *
30025886 AATAATAATAGACACATAGTACTAAAATAAGAATAAAAGTAATAATAAGATT-AA
1 AAGAATAATAAACACATAGTACTAAAATAAGAATAAAAGTAATAATAAGATTAAA
*
30025940 AATAATAATA
1 AAGAATAATA
30025950 GACGCAATAT
Statistics
Matches: 60, Mismatches: 3, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
54 16 0.27
55 44 0.73
ACGTcount: A:0.64, C:0.04, G:0.09, T:0.23
Consensus pattern (55 bp):
AAGAATAATAAACACATAGTACTAAAATAAGAATAAAAGTAATAATAAGATTAAA
Found at i:30025879 original size:18 final size:18
Alignment explanation
Indices: 30025856--30025949 Score: 93
Period size: 18 Copynumber: 5.2 Consensus size: 18
30025846 ATAGTACTAA
30025856 AATAAGAATAAAAGTAAT
1 AATAAGAATAAAAGTAAT
* *
30025874 AATAAGATTAAAAATAAT
1 AATAAGAATAAAAGTAAT
* ** *
30025892 AATAGACACATAGTACTAA-
1 AATA-AGA-ATAAAAGTAAT
30025911 AATAAGAATAAAAGTAAT
1 AATAAGAATAAAAGTAAT
*
30025929 AATAAGATTAAAA-TAAT
1 AATAAGAATAAAAGTAAT
30025946 AATA
1 AATA
30025950 GACGCAATAT
Statistics
Matches: 61, Mismatches: 12, Indels: 7
0.76 0.15 0.09
Matches are distributed among these distances:
17 15 0.25
18 34 0.56
19 6 0.10
20 6 0.10
ACGTcount: A:0.64, C:0.03, G:0.09, T:0.24
Consensus pattern (18 bp):
AATAAGAATAAAAGTAAT
Found at i:30026481 original size:17 final size:17
Alignment explanation
Indices: 30026459--30026497 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
30026449 GAGTGGAGGG
30026459 CGACGGGCGTGGGTGCT
1 CGACGGGCGTGGGTGCT
30026476 CGACGGGCGTGGGTGCT
1 CGACGGGCGTGGGTGCT
30026493 CGACG
1 CGACG
30026498 AGGGAGGAAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.08, C:0.26, G:0.51, T:0.15
Consensus pattern (17 bp):
CGACGGGCGTGGGTGCT
Found at i:30033837 original size:6 final size:6
Alignment explanation
Indices: 30033826--30033853 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
30033816 TTGACACATT
30033826 AATTAA AATTAA AATTAA AATTAA AATT
1 AATTAA AATTAA AATTAA AATTAA AATT
30033854 TTACAAAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (6 bp):
AATTAA
Found at i:30042393 original size:29 final size:29
Alignment explanation
Indices: 30042353--30042455 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
30042343 GTTGAGAGAT
*
30042353 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
30042382 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
30042411 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
30042440 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30042456 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:30050468 original size:29 final size:29
Alignment explanation
Indices: 30050428--30050530 Score: 154
Period size: 29 Copynumber: 3.6 Consensus size: 29
30050418 GTTGAGAGAT
*
30050428 TGGCACTGAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
30050457 TGGCACTAAGTGTGCGAGCTTGAAATGCA
1 TGGCACTAAGTGTGCGAGCTTGAAATGCA
* **
30050486 TGGCACTAAGTGTGCGAG-TTTAAAGTATA
1 TGGCACTAAGTGTGCGAGCTTGAAA-TGCA
30050515 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
30050531 CGGCTGATTA
Statistics
Matches: 69, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
28 5 0.07
29 64 0.93
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGAAATGCA
Found at i:30057497 original size:44 final size:44
Alignment explanation
Indices: 30057414--30057498 Score: 100
Period size: 44 Copynumber: 1.9 Consensus size: 44
30057404 ATTGATATCA
* * *
30057414 AAAAGTCCATGGTTGTACCATGGAAATTAAGGAATAATTGATAG
1 AAAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGATAG
* * *
30057458 AAAAGTCCAT-GTTCATAACATGGCATTTAAGGAGGAATTGA
1 AAAAGTCCATGGTT-ATAACATGGAAATTAAGGAAGAATTGA
30057499 CTGTTAAGGA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
43 3 0.09
44 31 0.91
ACGTcount: A:0.40, C:0.11, G:0.22, T:0.27
Consensus pattern (44 bp):
AAAAGTCCATGGTTATAACATGGAAATTAAGGAAGAATTGATAG
Found at i:30057697 original size:46 final size:47
Alignment explanation
Indices: 30057638--30057758 Score: 174
Period size: 46 Copynumber: 2.6 Consensus size: 47
30057628 GCATTGGCAC
30057638 TAAGACAAGGATACCATGTAAGACCATGTTTGG-ACATGGA-ATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACAT-GACATTTGG
* *
30057684 TAAGACAATGATACCATGTATGACCATGTTTGGAACATGACATTTGG
1 TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
* **
30057731 TAAGATAAGGATTTCATGTAAGACCATG
1 TAAGACAAGGATACCATGTAAGACCATG
30057759 CCAAGGCATG
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
46 33 0.50
47 33 0.50
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (47 bp):
TAAGACAAGGATACCATGTAAGACCATGTTTGGAACATGACATTTGG
Found at i:30057864 original size:55 final size:54
Alignment explanation
Indices: 30057745--30058040 Score: 368
Period size: 55 Copynumber: 5.5 Consensus size: 54
30057735 ATAAGGATTT
* * * * *
30057745 CATGTAAGACCATGCCAAGGCATGACATTGATAAGTTCTATAAGGCAAGGAAAT
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATAC
* *
30057799 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGG-TCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGGC-AAGGATAC
* *
30057854 CATGTAAGACCATGCCAAGGCATGGCATCGATGAGTT-TATAAGGCAAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATAC
* * *
30057907 CATGTAAGACCATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGG-TCC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTT-CTATAAGG-CAAGGATAC
* *
30057962 CATGTAAGACCATGCCAAGGCAT-GCATTGGTGAGTTC-ATAAGGCAAGGATAC
1 CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATAC
** *
30058014 CACATAAGACCATGTCAAGACATGGCA
1 CATGTAAGACCATGCCAAGACATGGCA
30058041 ATGGTAAGTT
Statistics
Matches: 209, Mismatches: 25, Indels: 17
0.83 0.10 0.07
Matches are distributed among these distances:
51 4 0.02
52 31 0.15
53 48 0.23
54 45 0.22
55 73 0.35
56 8 0.04
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.22
Consensus pattern (54 bp):
CATGTAAGACCATGCCAAGACATGGCATTGATGAGTTCTATAAGGCAAGGATAC
Found at i:30057935 original size:108 final size:108
Alignment explanation
Indices: 30057745--30058040 Score: 486
Period size: 108 Copynumber: 2.7 Consensus size: 108
30057735 ATAAGGATTT
* * * *
30057745 CATGTAAGACCATGCCAAGGCATGACATTGATAAGTTCTATAAGGCAAGGAAATCATGTAAGACC
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTT-TATAAGGCAAGGATACCATGTAAGACC
*
30057810 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGCAAAGGTCC
65 ATGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
*
30057854 CATGTAAGACCATGCCAAGGCATGGCATCGATGAGTTTATAAGGCAAGGATACCATGTAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTTATAAGGCAAGGATACCATGTAAGACCA
30057919 TGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
66 TGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
* * **
30057962 CATGTAAGACCATGCCAAGGCAT-GCATTGGTGAGTTCATAAGGCAAGGATACCACATAAGACCA
1 CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTTATAAGGCAAGGATACCATGTAAGACCA
30058026 TGTCAAGACATGGCA
66 TGTCAAGACATGGCA
30058041 ATGGTAAGTT
Statistics
Matches: 176, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
107 51 0.29
108 91 0.52
109 34 0.19
ACGTcount: A:0.36, C:0.19, G:0.24, T:0.22
Consensus pattern (108 bp):
CATGTAAGACCATGCCAAGGCATGGCATTGATGAGTTTATAAGGCAAGGATACCATGTAAGACCA
TGTCAAGACATGGCATTGATGAGTTACTATAAGGAAAAGGTCC
Found at i:30059812 original size:48 final size:49
Alignment explanation
Indices: 30059735--30060065 Score: 352
Period size: 48 Copynumber: 6.9 Consensus size: 49
30059725 GGTTATGTGT
* *
30059735 GAGCCAGTGTAAGATCATGT-TTGGAACATGGCATCGGTATTGATATGA
1 GAGCCAGTGTAAGACCATGTCTTGGAACATGGCATCGGCATTGATATGA
* * * ** *
30059783 GAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCCTCAATATGC
1 GAGCCAGTGTAAGACCATGTCTTGGAACATGGCATCGGCATTGATATGA
** *
30059831 GAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCAACATTGTTATGA
1 GAGCCAGTGTAAGACCATGTCTTGGAACATGGCATCGGCATTGATATGA
* * * ** *
30059879 GAGCTAGTGTAAGACCATGTCTAGG-ACATGGCATCGGCCTCAATATGC
1 GAGCCAGTGTAAGACCATGTCTTGGAACATGGCATCGGCATTGATATGA
** * *
30059927 GAGCCAGTGTAAGACCATGT-TTGGAACATGGCATCAACATTGTTATGT
1 GAGCCAGTGTAAGACCATGTCTTGGAACATGGCATCGGCATTGATATGA
* * *
30059975 GAGCCAGTGTAAGACCATGTC-TGGGACATGGCATTGGCACTGATGTATGA
1 GAGCCAGTGTAAGACCATGTCTTGGAACATGGCATCGGCATTGA--TATGA
* * *
30060025 GAGCCAGTGTAAGACCATGTC-CGTAACATGGCATCGACATT
1 GAGCCAGTGTAAGACCATGTCTTGGAACATGGCATCGGCATT
30060066 TTACCCTTTT
Statistics
Matches: 228, Mismatches: 48, Indels: 12
0.79 0.17 0.04
Matches are distributed among these distances:
47 6 0.03
48 177 0.78
49 6 0.03
50 39 0.17
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (49 bp):
GAGCCAGTGTAAGACCATGTCTTGGAACATGGCATCGGCATTGATATGA
Found at i:30059899 original size:96 final size:96
Alignment explanation
Indices: 30059735--30060065 Score: 500
Period size: 96 Copynumber: 3.4 Consensus size: 96
30059725 GGTTATGTGT
* *** *
30059735 GAGCCAGTGTAAGATCATGTTTGGAACATGGCATCGGTATTGATATGAGAGCTAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGTTATGAGAGCTAGTGTAAGACCA
30059800 TGTCTAGGACATGGCATCGGCCTCAATATGC
66 TGTCTAGGACATGGCATCGGCCTCAATATGC
30059831 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGTTATGAGAGCTAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGTTATGAGAGCTAGTGTAAGACCA
30059896 TGTCTAGGACATGGCATCGGCCTCAATATGC
66 TGTCTAGGACATGGCATCGGCCTCAATATGC
* *
30059927 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGTTATGTGAGCCAGTGTAAGACCA
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGTTATGAGAGCTAGTGTAAGACCA
* * * * *
30059992 TGTCTGGGACATGGCATTGGCACTGATGTATGA
66 TGTCTAGGACATGGCATCGGC-CTCA-ATATGC
** * *
30060025 GAGCCAGTGTAAGACCATGTCCGTAACATGGCATCGACATT
1 GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATT
30060066 TTACCCTTTT
Statistics
Matches: 217, Mismatches: 16, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
96 173 0.80
97 3 0.01
98 41 0.19
ACGTcount: A:0.28, C:0.19, G:0.27, T:0.25
Consensus pattern (96 bp):
GAGCCAGTGTAAGACCATGTTTGGAACATGGCATCAACATTGTTATGAGAGCTAGTGTAAGACCA
TGTCTAGGACATGGCATCGGCCTCAATATGC
Found at i:30063519 original size:22 final size:22
Alignment explanation
Indices: 30063489--30063539 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
30063479 TCCATTTACA
*
30063489 TCATATTAGAGAGCTATAAATT
1 TCATTTTAGAGAGCTATAAATT
30063511 TCATTTTAGAGAGCTATAAATT
1 TCATTTTAGAGAGCTATAAATT
30063533 TCATTTT
1 TCATTTT
30063540 CTTTGCATGG
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.43
Consensus pattern (22 bp):
TCATTTTAGAGAGCTATAAATT
Found at i:30086598 original size:25 final size:23
Alignment explanation
Indices: 30086569--30086633 Score: 66
Period size: 25 Copynumber: 2.9 Consensus size: 23
30086559 AATAAAAAAT
*
30086569 TTTAAAATATAATAAATCAAATACA
1 TTTAAAACATAA-AAA-CAAATACA
30086594 TTTAAAACATAAAAACAAAT--A
1 TTTAAAACATAAAAACAAATACA
*
30086615 -TTAAAACA-AAAAATAAATA
1 TTTAAAACATAAAAACAAATA
30086634 AATAATGGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 7
0.80 0.04 0.15
Matches are distributed among these distances:
19 9 0.24
20 8 0.22
21 1 0.03
23 5 0.14
24 3 0.08
25 11 0.30
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (23 bp):
TTTAAAACATAAAAACAAATACA
Found at i:30086632 original size:19 final size:20
Alignment explanation
Indices: 30086595--30086633 Score: 62
Period size: 19 Copynumber: 2.0 Consensus size: 20
30086585 TCAAATACAT
30086595 TTAAAACATAAAAACAAATA
1 TTAAAACATAAAAACAAATA
*
30086615 TTAAAACA-AAAAATAAATA
1 TTAAAACATAAAAACAAATA
30086634 AATAATGGGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 10 0.56
20 8 0.44
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.21
Consensus pattern (20 bp):
TTAAAACATAAAAACAAATA
Found at i:30091727 original size:38 final size:38
Alignment explanation
Indices: 30091381--30091703 Score: 538
Period size: 38 Copynumber: 8.4 Consensus size: 38
30091371 ATTTGATGTG
* *
30091381 TATCCGGGCTTAAAGACCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGG-TTAAA-TCCCGCAGGCTTCGTGCTGGTAATA
* *
30091421 TATCCGGGTTAAATCTCGCAGGCTTCGTGCTAGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
30091459 TATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
30091497 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
30091535 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
30091573 TATCCGGGTTAAATCCTGCAGGCTTCGTGCTGGTAATA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
*
30091611 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
* * *
30091649 TATCCGGGTTAAATCCGGTAGGCTTCGTGCTGGTATTA
1 TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
30091687 TATCCGGGTTAAATCCC
1 TATCCGGGTTAAATCCC
30091704 ATAGGCCTAG
Statistics
Matches: 269, Mismatches: 14, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
38 256 0.95
39 5 0.02
40 8 0.03
ACGTcount: A:0.21, C:0.23, G:0.26, T:0.31
Consensus pattern (38 bp):
TATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA
Found at i:30095660 original size:40 final size:39
Alignment explanation
Indices: 30095601--30095745 Score: 112
Period size: 40 Copynumber: 3.6 Consensus size: 39
30095591 AAATTGAATG
* * *
30095601 ATATCCGGGCTAAGCCCCGAGGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAGG-CAATTATGCTAGAAACT
* * ***
30095641 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCG-AGGCAATTATGCTAGAAACT
* * ** *
30095681 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCGAGTTATT
1 ATATCCGGGCTAAGACCCG-AGGCAATT-ATGCTAGAAACT
*
30095721 CTATCCGGGCTAAGACCCGAAGGCA
1 ATATCCGGGCTAAGACCCG-AGGCA
30095746 TTTGTGCACG
Statistics
Matches: 88, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
39 3 0.03
40 82 0.93
41 3 0.03
ACGTcount: A:0.27, C:0.23, G:0.28, T:0.22
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAGGCAATTATGCTAGAAACT
Found at i:30095746 original size:40 final size:39
Alignment explanation
Indices: 30095640--30095768 Score: 152
Period size: 40 Copynumber: 3.2 Consensus size: 39
30095630 TGCTGGAAAT
* * *
30095640 TATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGC
1 TATATCCGGGCTAAGACCCGAAGGC-ATTGTGCGAGTGAC
* *
30095680 TATATCCGGGCTAAGACCCGAAGGCATTCGTGCGAGTTAT
1 TATATCCGGGCTAAGACCCGAAGGCATT-GTGCGAGTGAC
* *
30095720 TCTATCCGGGCTAAGACCCGAAGGCATTTGTGC-ACGTGAT
1 TATATCCGGGCTAAGACCCGAAGGCA-TTGTGCGA-GTGAC
30095760 TATATCCGG
1 TATATCCGG
30095769 TTATATTCTG
Statistics
Matches: 78, Mismatches: 8, Indels: 6
0.85 0.09 0.07
Matches are distributed among these distances:
39 4 0.05
40 72 0.92
41 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (39 bp):
TATATCCGGGCTAAGACCCGAAGGCATTGTGCGAGTGAC
Found at i:30102174 original size:15 final size:15
Alignment explanation
Indices: 30102151--30102198 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
30102141 ATGATTCAAG
30102151 TATGCGAATTTGGTT
1 TATGCGAATTTGGTT
*
30102166 TATGTGAATTTGGTT
1 TATGCGAATTTGGTT
* * *
30102181 TGTGCGAGTTTGATT
1 TATGCGAATTTGGTT
30102196 TAT
1 TAT
30102199 ATGATTGAGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.19, C:0.04, G:0.27, T:0.50
Consensus pattern (15 bp):
TATGCGAATTTGGTT
Found at i:30109388 original size:15 final size:15
Alignment explanation
Indices: 30109365--30109412 Score: 60
Period size: 15 Copynumber: 3.2 Consensus size: 15
30109355 ATGATTCAAG
30109365 TATGCGAATTTGGTT
1 TATGCGAATTTGGTT
*
30109380 TATGTGAATTTGGTT
1 TATGCGAATTTGGTT
* * *
30109395 TGTGCGAGTTTGATT
1 TATGCGAATTTGGTT
30109410 TAT
1 TAT
30109413 ATGATTGAGC
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.19, C:0.04, G:0.27, T:0.50
Consensus pattern (15 bp):
TATGCGAATTTGGTT
Found at i:30115968 original size:56 final size:58
Alignment explanation
Indices: 30115902--30116012 Score: 172
Period size: 56 Copynumber: 1.9 Consensus size: 58
30115892 GACCATGGTA
* *
30115902 TCGATATATGTGTGCGAGTAAGACCACGTTTAATACGTTGGCATC-A-ATATGTGATT
1 TCGATATATGTGTGCGAGTAAGACCACGTCTAATACGTTAGCATCGATATATGTGATT
* *
30115958 TCGATATATGTGTGTGAGTAAGACCACGTCTAGTACGTTAGCATCGATATATGTG
1 TCGATATATGTGTGCGAGTAAGACCACGTCTAATACGTTAGCATCGATATATGTG
30116013 GTTACGAGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
56 41 0.84
57 1 0.02
58 7 0.14
ACGTcount: A:0.28, C:0.14, G:0.24, T:0.33
Consensus pattern (58 bp):
TCGATATATGTGTGCGAGTAAGACCACGTCTAATACGTTAGCATCGATATATGTGATT
Found at i:30116121 original size:43 final size:40
Alignment explanation
Indices: 30116021--30116121 Score: 96
Period size: 41 Copynumber: 2.4 Consensus size: 40
30116011 TGGTTACGAG
* * * *
30116021 TAAGACCAAGTCTGGGACATCGGCATCATATTTGTTTCATG
1 TAAGA-CACGTCTGGGACATCGGCATCATATGTGTTACATA
*
30116062 TAAGACCCTGTCTGGGACAGT-GGCATCGATATGTGATTACATA
1 TAAGACAC-GTCTGGGACA-TCGGCATC-ATATGTG-TTACATA
30116105 TAAGACTACGTCTGGGA
1 TAAGAC-ACGTCTGGGA
30116122 TGTTGGCATT
Statistics
Matches: 49, Mismatches: 6, Indels: 8
0.78 0.10 0.13
Matches are distributed among these distances:
40 1 0.02
41 21 0.43
42 7 0.14
43 19 0.39
44 1 0.02
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.29
Consensus pattern (40 bp):
TAAGACACGTCTGGGACATCGGCATCATATGTGTTACATA
Found at i:30116567 original size:15 final size:15
Alignment explanation
Indices: 30116544--30116574 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30116534 ATGATTCAAG
30116544 TATGCGAATTTGGTT
1 TATGCGAATTTGGTT
*
30116559 TATGTGAATTTGGTT
1 TATGCGAATTTGGTT
30116574 T
1 T
30116575 GTACGAGTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.19, C:0.03, G:0.26, T:0.52
Consensus pattern (15 bp):
TATGCGAATTTGGTT
Found at i:30131519 original size:37 final size:37
Alignment explanation
Indices: 30131456--30131601 Score: 238
Period size: 37 Copynumber: 3.9 Consensus size: 37
30131446 AGCTCAGACG
* * *
30131456 AAATCTCCACACGAAGTTATCAGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
30131493 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
*
30131530 TAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
* *
30131567 TAATCTCCACACGTAGTCATCGGGCCTTACCCGGA
1 AAATCTCCACACGTAGTCATCGGGTCTTACCCGGA
30131602 ATATATTTCC
Statistics
Matches: 104, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 104 1.00
ACGTcount: A:0.27, C:0.32, G:0.18, T:0.23
Consensus pattern (37 bp):
AAATCTCCACACGTAGTCATCGGGTCTTACCCGGACA
Found at i:30131846 original size:50 final size:50
Alignment explanation
Indices: 30131751--30131935 Score: 336
Period size: 50 Copynumber: 3.7 Consensus size: 50
30131741 CATCGCCTAC
* *
30131751 ATATTTCACACTAGCCATTTGGC-TTACCACATATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
30131800 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
30131850 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
*
30131900 ATATTTCACATTGGCCATTCGGCTTTACCACATATA
1 ATATTTCACATTAGCCATTCGGCTTTACCACATATA
30131936 TGCATGTTCA
Statistics
Matches: 132, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
49 21 0.16
50 111 0.84
ACGTcount: A:0.31, C:0.24, G:0.07, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCATATAT
Found at i:30131981 original size:47 final size:47
Alignment explanation
Indices: 30131905--30132004 Score: 155
Period size: 47 Copynumber: 2.1 Consensus size: 47
30131895 TATATATATT
* *
30131905 TCACATTGGCCATTCGGCTTTACCACATATATGCATGTTCACAATCA
1 TCACATTGGCCATTCGGCCTTACCACATATATACATGTTCACAATCA
* * *
30131952 TCACATTGGCCATTCGGCCTTATCTCATATATACATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTACCACATATATACATGTTCACAATCA
30131999 TCACAT
1 TCACAT
30132005 AAAATCCTAA
Statistics
Matches: 48, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 48 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTACCACATATATACATGTTCACAATCA
Found at i:30137975 original size:23 final size:20
Alignment explanation
Indices: 30137927--30137970 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
30137917 GAAACCCAAA
30137927 TAATTT-TAAAAAAATCATT
1 TAATTTATAAAAAAATCATT
*
30137946 TCATTTATAAAAAAATC--T
1 TAATTTATAAAAAAATCATT
30137964 TAATTTA
1 TAATTTA
30137971 ATTTAGGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 7 0.32
19 5 0.23
20 10 0.45
ACGTcount: A:0.50, C:0.07, G:0.00, T:0.43
Consensus pattern (20 bp):
TAATTTATAAAAAAATCATT
Found at i:30142063 original size:30 final size:30
Alignment explanation
Indices: 30142015--30142072 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
30142005 CATGGGCTAG
* * * *
30142015 CACATGGTCGTGTATCCAGGCCGTGTGGCT
1 CACATGGGCATGTATCCAGCCCATGTGGCT
*
30142045 CACATGGGCATGTGTCCAGCCCATGTGG
1 CACATGGGCATGTATCCAGCCCATGTGG
30142073 GAAGGCCTAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.16, C:0.28, G:0.33, T:0.24
Consensus pattern (30 bp):
CACATGGGCATGTATCCAGCCCATGTGGCT
Found at i:30144201 original size:28 final size:28
Alignment explanation
Indices: 30144169--30144314 Score: 193
Period size: 28 Copynumber: 5.2 Consensus size: 28
30144159 CAGTAGGGCC
* *
30144169 GACCATATATCATTCAGGTGACAAAGCT
1 GACCATATATCATTCAGGCGACAGAGCT
30144197 GACCATATATCATTCAGGCGACAGAGCT
1 GACCATATATCATTCAGGCGACAGAGCT
* * * *
30144225 AACGATATATCATTCAGGTGACAGAGCC
1 GACCATATATCATTCAGGCGACAGAGCT
* * *
30144253 GAACATATATCATTCAGGCAATAGAGCT
1 GACCATATATCATTCAGGCGACAGAGCT
* *
30144281 GACTATATATCATTCAGGCGACAGAGCC
1 GACCATATATCATTCAGGCGACAGAGCT
30144309 GACCAT
1 GACCAT
30144315 CTATAAAAGC
Statistics
Matches: 99, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 99 1.00
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (28 bp):
GACCATATATCATTCAGGCGACAGAGCT
Found at i:30145660 original size:77 final size:77
Alignment explanation
Indices: 30145528--30145681 Score: 272
Period size: 77 Copynumber: 2.0 Consensus size: 77
30145518 CATACCAAAG
* * *
30145528 ATCAGTCGTTTCATTCTTCTGGGTCTTGTCCACATATGCTGACTCTATAGATTACACATAAACTG
1 ATCAATCGTTTCATTCTTCTGGGTCTCGTCCACATATGCTAACTCTATAGATTACACATAAACTG
30145593 ACTCTATTTTTC
66 ACTCTATTTTTC
*
30145605 ATCAATCGTTTCATTCTTCTGGGTCTCGTCCACATATGCTAACTGTATAGATTACACATAAACTG
1 ATCAATCGTTTCATTCTTCTGGGTCTCGTCCACATATGCTAACTCTATAGATTACACATAAACTG
30145670 ACTCTATTTTTC
66 ACTCTATTTTTC
30145682 TTCCTTTCAT
Statistics
Matches: 73, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
77 73 1.00
ACGTcount: A:0.25, C:0.23, G:0.12, T:0.40
Consensus pattern (77 bp):
ATCAATCGTTTCATTCTTCTGGGTCTCGTCCACATATGCTAACTCTATAGATTACACATAAACTG
ACTCTATTTTTC
Found at i:30148008 original size:40 final size:40
Alignment explanation
Indices: 30147953--30148176 Score: 315
Period size: 40 Copynumber: 5.5 Consensus size: 40
30147943 TATTCGGATG
30147953 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
30147993 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGC-A--AGTTACT
* * *
30148036 ATACCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
30148076 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
* * *
30148116 ATATCCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTGCT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
*
30148156 ATATCC-GGCTAAATCCCGAAG
1 ATATCCGGGCTAAGTCCCGAAG
30148177 ATACTTGGGT
Statistics
Matches: 167, Mismatches: 14, Indels: 7
0.89 0.07 0.04
Matches are distributed among these distances:
39 13 0.08
40 116 0.69
41 1 0.01
43 37 0.22
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACT
Found at i:30148096 original size:83 final size:80
Alignment explanation
Indices: 30147957--30148176 Score: 311
Period size: 83 Copynumber: 2.7 Consensus size: 80
30147947 CGGATGATAT
* *
30147957 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTTACTATATCCGGGCTAAGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTA
30148022 TGCGAGTAGTTG-CTATAC
66 TGC---TAG-TGACTATAC
*
30148040 CCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTA
*
30148105 TGCTAGTGACTATAT
66 TGCTAGTGACTATAC
* * *
30148120 CCGGGCTAAGACCCGAAGGCATTTGTGCGAGTTG-CTATATCC-GGCTAAATCCCGAAG
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCAAG-TGACTATATCCGGGCTAAGTCCCGAAG
30148177 ATACTTGGGT
Statistics
Matches: 128, Mismatches: 7, Indels: 8
0.90 0.05 0.06
Matches are distributed among these distances:
79 16 0.12
80 45 0.35
81 2 0.02
83 65 0.51
ACGTcount: A:0.24, C:0.24, G:0.27, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCAAGTGACTATATCCGGGCTAAGTCCCGAAGGCATTTA
TGCTAGTGACTATAC
Found at i:30158180 original size:40 final size:39
Alignment explanation
Indices: 30158094--30158277 Score: 156
Period size: 40 Copynumber: 4.6 Consensus size: 39
30158084 AAATTGAATG
* * * * *
30158094 ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA-AATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGC--AAGTAGT
* * *
30158134 ACATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAG-T
*
30158174 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGCAAGTTGTT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCAAGTAG-T
* * * *
30158214 AAATCCGGGCTAAGACCCGAAGGCATTTGTGCAAATCGT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
* * *
30158253 GATATCCGGGTTAAGTCCCGTAGGC
1 -ATATCCGGGCTAAGACCCGAAGGC
30158278 CTTGGTGCGG
Statistics
Matches: 118, Mismatches: 21, Indels: 10
0.79 0.14 0.07
Matches are distributed among these distances:
38 1 0.01
39 5 0.04
40 110 0.93
41 2 0.02
ACGTcount: A:0.28, C:0.23, G:0.26, T:0.23
Consensus pattern (39 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCAAGTAGT
Found at i:30166277 original size:40 final size:40
Alignment explanation
Indices: 30166166--30166278 Score: 163
Period size: 40 Copynumber: 2.8 Consensus size: 40
30166156 GCTGAAAATT
* * *
30166166 AATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTAGCTA
1 AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGCTA
* * * *
30166206 TATCCGGGCTAAGACCCGAAGGCATTCGTGCAAGTTGTTA
1 AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGCTA
30166246 AATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
1 AATCCGGGCTAAGACCCGAAGGCATTTGTGCAA
30166279 ATCGTGATAT
Statistics
Matches: 64, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
40 64 1.00
ACGTcount: A:0.28, C:0.22, G:0.27, T:0.22
Consensus pattern (40 bp):
AATCCGGGCTAAGACCCGAAGGCATTTGTGCAAGTAGCTA
Found at i:30166291 original size:40 final size:38
Alignment explanation
Indices: 30166122--30166308 Score: 155
Period size: 40 Copynumber: 4.8 Consensus size: 38
30166112 TGAGAAATTG
* * *
30166122 AATG-ATATCCGGGCTAAGCCCCGAAGACAATTATGCTGAA
1 AATGTATATCCGGGCTAAGACCCGAAGGC-ATT-TG-TGCA
* * *
30166162 AAT-TA-ATCCGGGTTAAGACCCGAAGGCAATTGTGCT
1 AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
30166198 AGTAGCTATATCCGGGCTAAGACCCGAAGGCATTCGTGCA
1 AAT-G-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* *
30166238 AGTTGTTAAATCCGGGCTAAGACCCGAAGGCATTTGTGCA
1 A-ATG-TATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
* * *
30166278 AATCGTGATATCCGGGTTAAGTCCCGTAGGC
1 AAT-GT-ATATCCGGGCTAAGACCCGAAGGC
30166309 CTTGGTGCGG
Statistics
Matches: 119, Mismatches: 20, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
36 4 0.03
37 2 0.02
38 2 0.02
39 23 0.19
40 87 0.73
41 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (38 bp):
AATGTATATCCGGGCTAAGACCCGAAGGCATTTGTGCA
Found at i:30168919 original size:39 final size:39
Alignment explanation
Indices: 30168854--30168999 Score: 186
Period size: 40 Copynumber: 3.7 Consensus size: 39
30168844 ACCCGCAAAA
* *
30168854 TGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAAT
1 TGCCTTCGGG-CTTAGCCCGGATATCACAGCTCGCACAAT
* * *
30168894 TGCCTTTGGGCTTAGCCCGGGTATCATAGCTCGCAACAAT
1 TGCCTTCGGGCTTAGCCCGGATATCACAGCTCGC-ACAAT
* * *
30168934 TGCCTTCGAGCTTAGCCCGGATATCATAGCTTGCACAA-
1 TGCCTTCGGGCTTAGCCCGGATATCACAGCTCGCACAAT
30168972 TGCCTTCGGGCTTTAGCCCGGATATCAC
1 TGCCTTCGGGC-TTAGCCCGGATATCAC
30169000 TCGAACATTC
Statistics
Matches: 93, Mismatches: 11, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
38 10 0.11
39 39 0.42
40 44 0.47
ACGTcount: A:0.22, C:0.30, G:0.22, T:0.26
Consensus pattern (39 bp):
TGCCTTCGGGCTTAGCCCGGATATCACAGCTCGCACAAT
Found at i:30168933 original size:40 final size:38
Alignment explanation
Indices: 30168847--30168998 Score: 187
Period size: 39 Copynumber: 3.9 Consensus size: 38
30168837 TATGGTAACC
* * * *
30168847 CGCAAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATGCCTTCGGG-CTTAGCCCGGATATCATAGCT
* *
30168886 CGCACAATTGCCTTTGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAA-TGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
30168925 CGCAACAATTGCCTTCGAGCTTAGCCCGGATATCATAGCT
1 CGC-ACAA-TGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
30168965 TGCACAATGCCTTCGGGCTTTAGCCCGGATATCA
1 CGCACAATGCCTTCGGGC-TTAGCCCGGATATCA
30168999 CTCGAACATT
Statistics
Matches: 99, Mismatches: 11, Indels: 6
0.85 0.09 0.05
Matches are distributed among these distances:
38 10 0.10
39 45 0.45
40 44 0.44
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (38 bp):
CGCACAATGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:30168953 original size:79 final size:78
Alignment explanation
Indices: 30168847--30168998 Score: 200
Period size: 79 Copynumber: 1.9 Consensus size: 78
30168837 TATGGTAACC
* *
30168847 CGCAAAATGCCTTCGGGACTTAACCCGGATATCACAACTCGCACAATTGCCTTTGGGC-TTAGCC
1 CGCAAAATGCCTTCGAGACTTAACCCGGATATCACAACTCGCACAA-TGCCTTCGGGCTTTAGCC
*
30168911 CGGGTATCATAGCT
65 CGGATATCATAGCT
* * * *
30168925 CGCAACAATTGCCTTCGAG-CTTAGCCCGGATATCATAGCTTGCACAATGCCTTCGGGCTTTAGC
1 CGCAA-AA-TGCCTTCGAGACTTAACCCGGATATCACAACTCGCACAATGCCTTCGGGCTTTAGC
30168989 CCGGATATCA
64 CCGGATATCA
30168999 CTCGAACATT
Statistics
Matches: 64, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 15 0.23
79 40 0.62
80 9 0.14
ACGTcount: A:0.24, C:0.30, G:0.22, T:0.25
Consensus pattern (78 bp):
CGCAAAATGCCTTCGAGACTTAACCCGGATATCACAACTCGCACAATGCCTTCGGGCTTTAGCCC
GGATATCATAGCT
Found at i:30170976 original size:93 final size:93
Alignment explanation
Indices: 30170864--30171035 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
30170854 GCCCATAAGT
* *
30170864 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30170929 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
30170957 GAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
30171022 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
30171036 CAAATATCCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.27, C:0.30, G:0.22, T:0.20
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACGCTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:30171031 original size:46 final size:46
Alignment explanation
Indices: 30170856--30171031 Score: 232
Period size: 46 Copynumber: 3.8 Consensus size: 46
30170846 TGTAACCCGC
* * *
30170856 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
* *
30170902 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACG-CTCG---CAT
* *
30170952 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
30170995 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
30171032 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 11, Indels: 14
0.82 0.08 0.10
Matches are distributed among these distances:
43 3 0.03
44 1 0.01
45 2 0.02
46 68 0.61
47 32 0.29
48 2 0.02
49 1 0.01
50 3 0.03
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:30173471 original size:30 final size:30
Alignment explanation
Indices: 30173427--30173515 Score: 101
Period size: 30 Copynumber: 3.0 Consensus size: 30
30173417 CAAAGATAAC
30173427 AAGAAAACC-GAATAAAGAAATCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
* *
30173456 GAGAAACCCAGAATAAAGAAATCC-AGAATA
1 AAGAAAACCAGAATAAAGAAATCCAAG-ATA
* * * *
30173486 AAGAGATCCAGGATAAAGAAACCCAAGATA
1 AAGAAAACCAGAATAAAGAAATCCAAGATA
30173516 CGATACTATG
Statistics
Matches: 50, Mismatches: 7, Indels: 5
0.81 0.11 0.08
Matches are distributed among these distances:
29 9 0.18
30 39 0.78
31 2 0.04
ACGTcount: A:0.57, C:0.16, G:0.17, T:0.10
Consensus pattern (30 bp):
AAGAAAACCAGAATAAAGAAATCCAAGATA
Found at i:30173475 original size:15 final size:15
Alignment explanation
Indices: 30173427--30173506 Score: 92
Period size: 15 Copynumber: 5.4 Consensus size: 15
30173417 CAAAGATAAC
*
30173427 AAGAAAACC-GAATA
1 AAGAAATCCAGAATA
30173441 AAGAAATCCA-AGATA
1 AAGAAATCCAGA-ATA
* *
30173456 GAGAAACCCAGAATA
1 AAGAAATCCAGAATA
30173471 AAGAAATCCAGAATA
1 AAGAAATCCAGAATA
* *
30173486 AAGAGATCCAGGATA
1 AAGAAATCCAGAATA
30173501 AAGAAA
1 AAGAAA
30173507 CCCAAGATAC
Statistics
Matches: 55, Mismatches: 8, Indels: 5
0.81 0.12 0.07
Matches are distributed among these distances:
14 9 0.16
15 45 0.82
16 1 0.02
ACGTcount: A:0.59, C:0.14, G:0.17, T:0.10
Consensus pattern (15 bp):
AAGAAATCCAGAATA
Found at i:30173515 original size:15 final size:15
Alignment explanation
Indices: 30173438--30173515 Score: 79
Period size: 15 Copynumber: 5.2 Consensus size: 15
30173428 AGAAAACCGA
30173438 ATAAAGAAATCCAAG
1 ATAAAGAAATCCAAG
* *
30173453 ATAGAGAAA-CCCAG
1 ATAAAGAAATCCAAG
30173467 AATAAAGAAATCC-AG
1 -ATAAAGAAATCCAAG
* *
30173482 AATAAAGAGATCCAGG
1 -ATAAAGAAATCCAAG
*
30173498 ATAAAGAAACCCAAG
1 ATAAAGAAATCCAAG
30173513 ATA
1 ATA
30173516 CGATACTATG
Statistics
Matches: 52, Mismatches: 8, Indels: 6
0.79 0.12 0.09
Matches are distributed among these distances:
14 4 0.08
15 45 0.87
16 3 0.06
ACGTcount: A:0.56, C:0.15, G:0.17, T:0.12
Consensus pattern (15 bp):
ATAAAGAAATCCAAG
Found at i:30176520 original size:46 final size:46
Alignment explanation
Indices: 30176453--30176581 Score: 231
Period size: 46 Copynumber: 2.8 Consensus size: 46
30176443 TGTAACCCGC
* * *
30176453 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
30176499 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
30176545 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
30176582 TGCCCAAATA
Statistics
Matches: 80, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 80 1.00
ACGTcount: A:0.29, C:0.29, G:0.22, T:0.19
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACGCTCGCAT
Found at i:30179357 original size:16 final size:15
Alignment explanation
Indices: 30179324--30179365 Score: 57
Period size: 16 Copynumber: 2.7 Consensus size: 15
30179314 AGATGATAAT
30179324 TATTAATATATAATTA
1 TATTAAT-TATAATTA
*
30179340 TATTCATTATAATATA
1 TATTAATTATAAT-TA
30179356 TATTAATTAT
1 TATTAATTAT
30179366 TATAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 6 0.26
16 17 0.74
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTAATTATAATTA
Found at i:30179369 original size:19 final size:22
Alignment explanation
Indices: 30179322--30179370 Score: 68
Period size: 22 Copynumber: 2.3 Consensus size: 22
30179312 AAAGATGATA
30179322 ATTATTAATATATAATTATATTC
1 ATTA-TAATATATAATTATATTC
30179345 ATTATAATATAT-ATTA-ATT-
1 ATTATAATATATAATTATATTC
30179364 ATTATAA
1 ATTATAA
30179371 ATTTTATATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 7 0.27
20 3 0.12
21 4 0.15
22 8 0.31
23 4 0.15
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (22 bp):
ATTATAATATATAATTATATTC
Found at i:30181803 original size:36 final size:36
Alignment explanation
Indices: 30181756--30181831 Score: 145
Period size: 36 Copynumber: 2.1 Consensus size: 36
30181746 GTTAAGTATG
30181756 CTAAACTTCAGTATAAATAAAGTTCTATTATTTCAA
1 CTAAACTTCAGTATAAATAAAGTTCTATTATTTCAA
30181792 CTAAACTTCAGTATAAATAAAGTTCTATTATTTCAA
1 CTAAACTTCAGTATAAATAAAGTTCTATTATTTCAA
30181828 -TAAA
1 CTAAA
30181832 TTATTATGTT
Statistics
Matches: 40, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
35 4 0.10
36 36 0.90
ACGTcount: A:0.43, C:0.13, G:0.05, T:0.38
Consensus pattern (36 bp):
CTAAACTTCAGTATAAATAAAGTTCTATTATTTCAA
Found at i:30181831 original size:19 final size:19
Alignment explanation
Indices: 30181771--30181831 Score: 65
Period size: 19 Copynumber: 3.3 Consensus size: 19
30181761 CTTCAGTATA
30181771 AATAAAGTTCTATTATTTC
1 AATAAAGTTCTATTATTTC
* * *
30181790 AACTAAACTTC-AGTA--TA
1 AA-TAAAGTTCTATTATTTC
30181807 AATAAAGTTCTATTATTTC
1 AATAAAGTTCTATTATTTC
30181826 AATAAA
1 AATAAA
30181832 TTATTATGTT
Statistics
Matches: 32, Mismatches: 6, Indels: 8
0.70 0.13 0.17
Matches are distributed among these distances:
16 7 0.22
17 6 0.19
19 12 0.38
20 7 0.22
ACGTcount: A:0.44, C:0.11, G:0.05, T:0.39
Consensus pattern (19 bp):
AATAAAGTTCTATTATTTC
Found at i:30190321 original size:20 final size:20
Alignment explanation
Indices: 30190296--30190386 Score: 86
Period size: 20 Copynumber: 4.8 Consensus size: 20
30190286 TTCTTAAAAG
30190296 ATAAAATAAAATTAATAACT
1 ATAAAATAAAATTAATAACT
30190316 ATAAAATAAAATT-A-AACT
1 ATAAAATAAAATTAATAACT
* * *
30190334 ATAAACT----TTAAAACACA
1 ATAAAATAAAATTAATA-ACT
*
30190351 ATAAAAACAAAATTAATAACT
1 AT-AAAATAAAATTAATAACT
30190372 ATAAAATAAAATTAA
1 ATAAAATAAAATTAA
30190387 ACTCTAAACT
Statistics
Matches: 56, Mismatches: 7, Indels: 16
0.71 0.09 0.20
Matches are distributed among these distances:
14 2 0.04
15 1 0.02
16 1 0.02
17 4 0.07
18 13 0.23
19 1 0.02
20 25 0.45
21 4 0.07
22 5 0.09
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (20 bp):
ATAAAATAAAATTAATAACT
Found at i:30190324 original size:25 final size:25
Alignment explanation
Indices: 30190296--30190383 Score: 70
Period size: 25 Copynumber: 3.3 Consensus size: 25
30190286 TTCTTAAAAG
30190296 ATAAAATAAAATTAATAACTATAAA
1 ATAAAATAAAATTAATAACTATAAA
* * *
30190321 ATAAAATTAAACT-ATAAACTTTAAAACACA
1 ATAAAATAAAATTAAT-AAC--T-ATA-A-A
*
30190351 ATAAAAACAAAATTAATAACTATAAA
1 AT-AAAATAAAATTAATAACTATAAA
30190377 ATAAAAT
1 ATAAAAT
30190384 TAAACTCTAA
Statistics
Matches: 47, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
24 2 0.04
25 18 0.38
26 3 0.06
27 2 0.04
28 4 0.09
29 2 0.04
30 3 0.06
31 11 0.23
32 2 0.04
ACGTcount: A:0.66, C:0.08, G:0.00, T:0.26
Consensus pattern (25 bp):
ATAAAATAAAATTAATAACTATAAA
Found at i:30190369 original size:56 final size:56
Alignment explanation
Indices: 30190298--30190416 Score: 220
Period size: 56 Copynumber: 2.1 Consensus size: 56
30190288 CTTAAAAGAT
*
30190298 AAAATAAAATTAATAACTATAAAATAAAATTAAACTATAAACTTTAAAACACAATA
1 AAAACAAAATTAATAACTATAAAATAAAATTAAACTATAAACTTTAAAACACAATA
*
30190354 AAAACAAAATTAATAACTATAAAATAAAATTAAACTCTAAACTTTAAAACACAATA
1 AAAACAAAATTAATAACTATAAAATAAAATTAAACTATAAACTTTAAAACACAATA
30190410 AAAACAA
1 AAAACAA
30190417 TTGTAAAACT
Statistics
Matches: 61, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
56 61 1.00
ACGTcount: A:0.65, C:0.11, G:0.00, T:0.24
Consensus pattern (56 bp):
AAAACAAAATTAATAACTATAAAATAAAATTAAACTATAAACTTTAAAACACAATA
Done.