Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 ID=Chr03-JGI_221_v2.0
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: 45765648
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 655849 characters in sequence are not A, C, G, or T
File 104 of 150
Found at i:32588188 original size:9 final size:9
Alignment explanation
Indices: 32588171--32588201 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
32588161 TCGAGTTGAT
32588171 TCGAATAAC
1 TCGAATAAC
*
32588180 TCGATTAAC
1 TCGAATAAC
32588189 TCGAATAAC
1 TCGAATAAC
32588198 TCGA
1 TCGA
32588202 TTCGTTTAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.26
Consensus pattern (9 bp):
TCGAATAAC
Found at i:32589978 original size:7 final size:7
Alignment explanation
Indices: 32589968--32589993 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
32589958 ACAATTATAC
32589968 TTGAATT
1 TTGAATT
32589975 TTGAATT
1 TTGAATT
32589982 TTGAATT
1 TTGAATT
32589989 TTGAA
1 TTGAA
32589994 AAGTAGAGGG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.31, C:0.00, G:0.15, T:0.54
Consensus pattern (7 bp):
TTGAATT
Found at i:32590244 original size:12 final size:12
Alignment explanation
Indices: 32590229--32590255 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
32590219 TTCTAAATGT
32590229 TAATTCTAAGAC
1 TAATTCTAAGAC
32590241 TAATTCTAAGAC
1 TAATTCTAAGAC
32590253 TAA
1 TAA
32590256 GCATATTCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.44, C:0.15, G:0.07, T:0.33
Consensus pattern (12 bp):
TAATTCTAAGAC
Found at i:32592774 original size:23 final size:23
Alignment explanation
Indices: 32592744--32592799 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
32592734 AGACCCAAGA
*
32592744 TGAATTAATTCTGAATCCGTTTT
1 TGAATTAATTCTGAATCCGTTTG
*
32592767 TGAATTAATTTTGAATCCGTTTG
1 TGAATTAATTCTGAATCCGTTTG
32592790 TGAA-TAATTC
1 TGAATTAATTC
32592800 ACTTGTGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
22 5 0.17
23 25 0.83
ACGTcount: A:0.29, C:0.11, G:0.14, T:0.46
Consensus pattern (23 bp):
TGAATTAATTCTGAATCCGTTTG
Found at i:32593626 original size:19 final size:19
Alignment explanation
Indices: 32593604--32593643 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
32593594 ATTAATTTTG
* *
32593604 ATCAAGTAAATTTAAATTA
1 ATCAAATAAATTAAAATTA
*
32593623 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
32593642 AT
1 AT
32593644 ATGATATTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.05, G:0.03, T:0.38
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:32601342 original size:37 final size:36
Alignment explanation
Indices: 32601291--32601398 Score: 100
Period size: 37 Copynumber: 3.0 Consensus size: 36
32601281 ATTTCAAAGA
*
32601291 TAATATTATTTTAATAGTTTAATATTAAATTTAATT
1 TAATATTATCTTAATAGTTTAATATTAAATTTAATT
*
32601327 TAATACTTATCTTAATAGTATT-TTATT-AATTTAATAT
1 TAATA-TTATCTTAATAGT-TTAATATTAAATTTAAT-T
*
32601364 TAAAGTGATTATCTTAATA--TTAA-ATTTAATTTAAT
1 T-AA-T-ATTATCTTAATAGTTTAATATTAAATTTAAT
32601399 ATTTATCTAC
Statistics
Matches: 61, Mismatches: 3, Indels: 15
0.77 0.04 0.19
Matches are distributed among these distances:
36 18 0.30
37 26 0.43
38 4 0.07
39 12 0.20
40 1 0.02
ACGTcount: A:0.41, C:0.03, G:0.04, T:0.53
Consensus pattern (36 bp):
TAATATTATCTTAATAGTTTAATATTAAATTTAATT
Found at i:32601445 original size:61 final size:59
Alignment explanation
Indices: 32601377--32601492 Score: 171
Period size: 61 Copynumber: 1.9 Consensus size: 59
32601367 AGTGATTATC
* *
32601377 TTAATATTAAATTTAATTTAATATTTATCTACAAGATAAATATTATATT-TTTTAATAAGAT
1 TTAATATTAAATTTAATCTAATATTTATCT--AA-ATAAATATTATATTAATTTAATAAGAT
*
32601438 TTAATATTAAATTTAATCTAATATTTATCTTAATAAATATTATATTAATTTAATA
1 TTAATATTAAATTTAATCTAATATTTATCTAAATAAATATTATATTAATTTAATA
32601493 TTAAAGTGAT
Statistics
Matches: 51, Mismatches: 3, Indels: 4
0.88 0.05 0.07
Matches are distributed among these distances:
58 14 0.27
59 8 0.16
61 29 0.57
ACGTcount: A:0.45, C:0.03, G:0.02, T:0.50
Consensus pattern (59 bp):
TTAATATTAAATTTAATCTAATATTTATCTAAATAAATATTATATTAATTTAATAAGAT
Found at i:32603899 original size:20 final size:20
Alignment explanation
Indices: 32603871--32603931 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
32603861 AGTTTAATTA
32603871 AACTT-AATTAATCAAGGTT
1 AACTTAAATTAATCAAGGTT
32603890 AACTTAAATTAATCAAGGTT
1 AACTTAAATTAATCAAGGTT
*
32603910 AACTTAAATTAATCAAGTTT
1 AACTTAAATTAATCAAGGTT
32603930 AA
1 AA
32603932 TTATGATAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
19 5 0.12
20 35 0.88
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (20 bp):
AACTTAAATTAATCAAGGTT
Found at i:32606150 original size:30 final size:30
Alignment explanation
Indices: 32606116--32606211 Score: 79
Period size: 30 Copynumber: 3.2 Consensus size: 30
32606106 ATTTATCTCG
32606116 ATATTAATATGAGATA-TTACATTTAATTCA
1 ATATTAATATGAGATAGTTA-ATTTAATTCA
* * * **
32606146 ATATTTATCT-AGAAAGGTTTTTATTAATTCA
1 ATATTAATATGAGATA-GTTAAT-TTAATTCA
* * *
32606177 ATATTAATTTGAGATATTTAATTTAATTTA
1 ATATTAATATGAGATAGTTAATTTAATTCA
32606207 ATATT
1 ATATT
32606212 TATCTAGATA
Statistics
Matches: 50, Mismatches: 12, Indels: 8
0.71 0.17 0.11
Matches are distributed among these distances:
29 4 0.08
30 21 0.42
31 21 0.42
32 4 0.08
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (30 bp):
ATATTAATATGAGATAGTTAATTTAATTCA
Found at i:32606229 original size:61 final size:60
Alignment explanation
Indices: 32606116--32606233 Score: 168
Period size: 61 Copynumber: 1.9 Consensus size: 60
32606106 ATTTATCTCG
32606116 ATATTAATATGAGATATTACATTTAATTCAATATTTATCTAGAAAGGTTTTTATTAATTCA
1 ATATTAATATGAGATATTACATTTAATTCAATATTTATCTAGAAA-GTTTTTATTAATTCA
* *
32606177 ATATTAATTTGAGATATTTA-ATTTAATTTAATATTTATCTAGATAA-TATTTTATTAA
1 ATATTAATATGAGATA-TTACATTTAATTCAATATTTATCTAGA-AAGT-TTTTATTAA
32606234 ATTAGTATCA
Statistics
Matches: 52, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
60 1 0.02
61 46 0.88
62 5 0.10
ACGTcount: A:0.40, C:0.04, G:0.07, T:0.49
Consensus pattern (60 bp):
ATATTAATATGAGATATTACATTTAATTCAATATTTATCTAGAAAGTTTTTATTAATTCA
Found at i:32606398 original size:26 final size:26
Alignment explanation
Indices: 32606346--32606396 Score: 68
Period size: 25 Copynumber: 2.0 Consensus size: 26
32606336 AGTTGTAGAG
*
32606346 AGAAGATTCTCTACATAAATTATTTT
1 AGAAAATTCTCTACATAAATTATTTT
* *
32606372 AGAAAATT-TCTAGATATATTATTTT
1 AGAAAATTCTCTACATAAATTATTTT
32606397 TATTTACAAC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.39, C:0.08, G:0.08, T:0.45
Consensus pattern (26 bp):
AGAAAATTCTCTACATAAATTATTTT
Found at i:32608656 original size:32 final size:32
Alignment explanation
Indices: 32608615--32608697 Score: 114
Period size: 32 Copynumber: 2.6 Consensus size: 32
32608605 GTCCAGATTA
* *
32608615 GCCTTGCCCGTGTAGCCCATAAGCCCAATCTG
1 GCCTAGCCCGTGTGGCCCATAAGCCCAATCTG
* *
32608647 GCCTAGCCCGTGTGGCCCACACGCCCAATCTG
1 GCCTAGCCCGTGTGGCCCATAAGCCCAATCTG
*
32608679 G-CTAGCTCGTGTGGCCCAT
1 GCCTAGCCCGTGTGGCCCAT
32608698 TACACAGCCG
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
31 16 0.36
32 29 0.64
ACGTcount: A:0.16, C:0.39, G:0.25, T:0.20
Consensus pattern (32 bp):
GCCTAGCCCGTGTGGCCCATAAGCCCAATCTG
Found at i:32612980 original size:45 final size:45
Alignment explanation
Indices: 32612905--32613080 Score: 230
Period size: 45 Copynumber: 3.9 Consensus size: 45
32612895 TACACGGTTG
* * * * *
32612905 ATCAGCAGATAGC-ACCACCCTTATAGTCAATGATACTCGGTGGA
1 ATCAGCACACAGCAACCACCTTTATAATCAATGATACCCGGTGGA
* * * * *
32612949 ATTAGCACATAGCAACCACCTTCATAATCAAT-AGTACCCGATAGA
1 ATCAGCACACAGCAACCACCTTTATAATCAATGA-TACCCGGTGGA
*
32612994 ATCAGCACACAACAACCACCTTTATAATCAATGATACCCGGTGGA
1 ATCAGCACACAGCAACCACCTTTATAATCAATGATACCCGGTGGA
32613039 ATCAGCACACAGCAACCACCTTTATAATCAATGATACCCGGT
1 ATCAGCACACAGCAACCACCTTTATAATCAATGATACCCGGT
32613081 ATACGTAGTA
Statistics
Matches: 114, Mismatches: 15, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
44 12 0.11
45 101 0.89
46 1 0.01
ACGTcount: A:0.36, C:0.28, G:0.14, T:0.22
Consensus pattern (45 bp):
ATCAGCACACAGCAACCACCTTTATAATCAATGATACCCGGTGGA
Found at i:32614880 original size:36 final size:36
Alignment explanation
Indices: 32614833--32614904 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
32614823 TTAGGGATCT
32614833 AAATTTCTTAAACTTCTAAAGTGGCACCATTTTACC
1 AAATTTCTTAAACTTCTAAAGTGGCACCATTTTACC
32614869 AAATTTCTTAAACTTCTAAAGTGGCACCATTTTACC
1 AAATTTCTTAAACTTCTAAAGTGGCACCATTTTACC
32614905 TCTTGGTCTT
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:0.33, C:0.22, G:0.08, T:0.36
Consensus pattern (36 bp):
AAATTTCTTAAACTTCTAAAGTGGCACCATTTTACC
Found at i:32615092 original size:20 final size:20
Alignment explanation
Indices: 32615060--32615097 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
32615050 ATAAGTTTTG
32615060 AATTTCATTCAATTTAGTCT
1 AATTTCATTCAATTTAGTCT
32615080 AATTT-ATTACAATTTAGT
1 AATTTCATT-CAATTTAGT
32615098 TATTGACCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 3 0.18
20 14 0.82
ACGTcount: A:0.34, C:0.11, G:0.05, T:0.50
Consensus pattern (20 bp):
AATTTCATTCAATTTAGTCT
Found at i:32617491 original size:36 final size:36
Alignment explanation
Indices: 32617451--32617534 Score: 98
Period size: 36 Copynumber: 2.3 Consensus size: 36
32617441 AATTTCAAGG
* * *
32617451 TGGCTTTGTGGA-GAGATGTTGTTACAAATGAAATAT
1 TGGCTTTGTAGACG-GATGTTATTACAAATGAAATAA
* **
32617487 TGGCTTTGCAGACGGATGTTATTTGAAATGAAATAA
1 TGGCTTTGTAGACGGATGTTATTACAAATGAAATAA
32617523 TGGCTTTGTAGA
1 TGGCTTTGTAGA
32617535 GGTATGATAT
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 39 0.98
37 1 0.03
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.36
Consensus pattern (36 bp):
TGGCTTTGTAGACGGATGTTATTACAAATGAAATAA
Found at i:32617757 original size:26 final size:26
Alignment explanation
Indices: 32617718--32617798 Score: 74
Period size: 26 Copynumber: 3.1 Consensus size: 26
32617708 GTATAGTATA
* *
32617718 TGTGAACTAACTTTGAAAAGTATTTATG
1 TGTGAACT--CTTTGTAAAGTAATTATG
* * **
32617746 TGTGAGCTCTTTCTATGGTAATTATG
1 TGTGAACTCTTTGTAAAGTAATTATG
*
32617772 TGTGAACTCTTTGTAAA-TAGTTATG
1 TGTGAACTCTTTGTAAAGTAATTATG
32617797 TG
1 TG
32617799 CTTGCCAACT
Statistics
Matches: 42, Mismatches: 11, Indels: 3
0.75 0.20 0.05
Matches are distributed among these distances:
25 9 0.21
26 26 0.62
28 7 0.17
ACGTcount: A:0.27, C:0.09, G:0.21, T:0.43
Consensus pattern (26 bp):
TGTGAACTCTTTGTAAAGTAATTATG
Found at i:32621828 original size:18 final size:18
Alignment explanation
Indices: 32621805--32621841 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
32621795 TAAAGGAAAG
32621805 GTTATGGTTATATGTAAA
1 GTTATGGTTATATGTAAA
32621823 GTTATGGTTATATGTAAA
1 GTTATGGTTATATGTAAA
32621841 G
1 G
32621842 GCACACTTCG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.24, T:0.43
Consensus pattern (18 bp):
GTTATGGTTATATGTAAA
Found at i:32629589 original size:26 final size:27
Alignment explanation
Indices: 32629560--32629614 Score: 76
Period size: 26 Copynumber: 2.1 Consensus size: 27
32629550 CCCAACAAAA
* *
32629560 TTTTGACAATTTTACCCTTGG-TAAAT
1 TTTTAACAATTTTACCCCTGGTTAAAT
*
32629586 TTTTAACGATTTTACCCCTGGTTAAAT
1 TTTTAACAATTTTACCCCTGGTTAAAT
32629613 TT
1 TT
32629615 CGAGAAAATA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
26 18 0.72
27 7 0.28
ACGTcount: A:0.25, C:0.16, G:0.11, T:0.47
Consensus pattern (27 bp):
TTTTAACAATTTTACCCCTGGTTAAAT
Found at i:32629798 original size:12 final size:12
Alignment explanation
Indices: 32629763--32629804 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
32629753 TGCAAATGGA
32629763 TCATTTCCATTT
1 TCATTTCCATTT
*
32629775 TCATTAT-AATTT
1 TCATT-TCCATTT
32629787 TCATTTCCATTT
1 TCATTTCCATTT
*
32629799 CCATTT
1 TCATTT
32629805 TTGGAACCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 4
0.78 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 23 0.92
13 1 0.04
ACGTcount: A:0.21, C:0.21, G:0.00, T:0.57
Consensus pattern (12 bp):
TCATTTCCATTT
Found at i:32650183 original size:5 final size:5
Alignment explanation
Indices: 32650173--32650197 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
32650163 AAATGGGAAA
32650173 AAAAG AAAAG AAAAG AAAAG AAAAG
1 AAAAG AAAAG AAAAG AAAAG AAAAG
32650198 TTAATGAAGC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AAAAG
Found at i:32652208 original size:91 final size:88
Alignment explanation
Indices: 32652053--32652243 Score: 213
Period size: 91 Copynumber: 2.1 Consensus size: 88
32652043 CTCCAGTTTA
* * * * *
32652053 TGGATAAACCACCAGTGTTGCAGGTTAATACGCTGCCAGCAATTGTGAGTACACAACGGATTTGC
1 TGGATAAACCACAAGTGTTGCAAGTTAATACGCTGCCAACAATTGTGAATACACAACGAATTTGC
* * *
32652118 AGATAATAGTTGCCAGTATAAGTTG
66 AAATAAAAGCTGCCAG--TAAGTTG
* * * *
32652143 TGGATAAACCACAAGTTTTTGCAAGTTAATATGCTGCCAATAGTTGTGAATACACAAC-AACTTT
1 TGGATAAACCACAAG-TGTTGCAAGTTAATACGCTGCCAACAATTGTGAATACACAACGAA-TTT
*
32652207 GCAAATAAAAGCTGCCAGTAATTTG
64 GCAAATAAAAGCTGCCAGTAAGTTG
*
32652232 TGAATAAACCAC
1 TGGATAAACCAC
32652244 CAAACTTTGC
Statistics
Matches: 85, Mismatches: 14, Indels: 5
0.82 0.13 0.05
Matches are distributed among these distances:
89 17 0.20
90 15 0.18
91 53 0.62
ACGTcount: A:0.35, C:0.18, G:0.20, T:0.27
Consensus pattern (88 bp):
TGGATAAACCACAAGTGTTGCAAGTTAATACGCTGCCAACAATTGTGAATACACAACGAATTTGC
AAATAAAAGCTGCCAGTAAGTTG
Found at i:32658799 original size:27 final size:28
Alignment explanation
Indices: 32658747--32658818 Score: 112
Period size: 27 Copynumber: 2.6 Consensus size: 28
32658737 TAAAAATAAA
*
32658747 ATTTATCAAAATAT-TATAACTTTTTTTT
1 ATTTACCAAAATATATATAAC-TTTTTTT
32658775 ATTTACCAAAATATATATAA-TTTTTTT
1 ATTTACCAAAATATATATAACTTTTTTT
32658802 ATTTACCAAAATATATA
1 ATTTACCAAAATATATA
32658819 AAAAAATAAA
Statistics
Matches: 42, Mismatches: 1, Indels: 3
0.91 0.02 0.07
Matches are distributed among these distances:
27 24 0.57
28 13 0.31
29 5 0.12
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.50
Consensus pattern (28 bp):
ATTTACCAAAATATATATAACTTTTTTT
Found at i:32658920 original size:27 final size:27
Alignment explanation
Indices: 32658890--32658983 Score: 125
Period size: 27 Copynumber: 3.5 Consensus size: 27
32658880 CGCCATTGGG
* *
32658890 ATTGGCGGCACCAAAGGTGCCAAAACC
1 ATTGGCGGCACCAATGGTGCCAATACC
*
32658917 ATTGGCGGCATCAATGGTGCCAATACC
1 ATTGGCGGCACCAATGGTGCCAATACC
* * *
32658944 ATTAGAGGCATCAATGGTGCCAATACC
1 ATTGGCGGCACCAATGGTGCCAATACC
*
32658971 ATTGGCAGCACCA
1 ATTGGCGGCACCA
32658984 CTTAATAATA
Statistics
Matches: 58, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 58 1.00
ACGTcount: A:0.31, C:0.27, G:0.24, T:0.18
Consensus pattern (27 bp):
ATTGGCGGCACCAATGGTGCCAATACC
Found at i:32665082 original size:22 final size:22
Alignment explanation
Indices: 32665051--32665100 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
32665041 CACAAATCGA
*
32665051 TTTTTTTTTC-TTTTGTTT-AGT
1 TTTTTTTTTCATTTT-TTTCAAT
32665072 TTTTTTGTTTCATTTTTTTCAAT
1 TTTTTT-TTTCATTTTTTTCAAT
32665095 TTTTTT
1 TTTTTT
32665101 ACTATCAGAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 6 0.24
22 7 0.28
23 12 0.48
ACGTcount: A:0.08, C:0.06, G:0.06, T:0.80
Consensus pattern (22 bp):
TTTTTTTTTCATTTTTTTCAAT
Found at i:32665322 original size:9 final size:9
Alignment explanation
Indices: 32665303--32665339 Score: 58
Period size: 9 Copynumber: 4.1 Consensus size: 9
32665293 TGAGTTTTCG
32665303 AATTCGAAT
1 AATTCGAAT
32665312 AACTT-GAAT
1 AA-TTCGAAT
32665321 AATTCGAAT
1 AATTCGAAT
32665330 AATTCGAAT
1 AATTCGAAT
32665339 A
1 A
32665340 TCAAACTATA
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
8 2 0.08
9 22 0.85
10 2 0.08
ACGTcount: A:0.46, C:0.11, G:0.11, T:0.32
Consensus pattern (9 bp):
AATTCGAAT
Found at i:32665537 original size:9 final size:9
Alignment explanation
Indices: 32665523--32665553 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
32665513 GTTAAACGAA
32665523 TCGAGTTAT
1 TCGAGTTAT
*
32665532 TCGAGTTAA
1 TCGAGTTAT
32665541 TCGAGTTAT
1 TCGAGTTAT
32665550 TCGA
1 TCGA
32665554 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Found at i:32665624 original size:9 final size:9
Alignment explanation
Indices: 32665606--32665643 Score: 67
Period size: 9 Copynumber: 4.2 Consensus size: 9
32665596 TTGAGTTTTC
32665606 TAATTCGAA
1 TAATTCGAA
*
32665615 TAACTCGAA
1 TAATTCGAA
32665624 TAATTCGAA
1 TAATTCGAA
32665633 TAATTCGAA
1 TAATTCGAA
32665642 TA
1 TA
32665644 TCAAACTATA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.45, C:0.13, G:0.11, T:0.32
Consensus pattern (9 bp):
TAATTCGAA
Found at i:32665706 original size:304 final size:303
Alignment explanation
Indices: 32665152--32665758 Score: 1031
Period size: 304 Copynumber: 2.0 Consensus size: 303
32665142 GTCATGCGAT
* *
32665152 TAGGCGTGAGCAAAACTCGATTCGACTCGAAAAAATTGAAAAATAATTCGAATTTCAAGTTAAAC
1 TAGGCGTGAGCAAAACTCAATTCGACTCGAAAAAATCGAAAAATAATTCGAATTTCAAGTTAAAC
* *
32665217 GAATCGAGTTGTTCAAGTTAATCGAGTTATTCGAATCGACTCGAATTTTTTTTCGAATTTCGAGT
66 GAATCGAGTTATTCAAGTTAATCGAGTTATTCGAATCAACTCGAATTTTTTTTCGAATTTCGAGT
* *
32665282 TCGAATCGAGTTGAGTTTTCGAATTCGAATAACTTGAATAATTCGAATAATTCGAATATCAAACT
131 TCGAATCAAGTTGAGTTTTCGAATTCGAATAACTCGAATAATTCGAATAATTCGAATATCAAACT
*
32665347 ATAATATTTTACATTTTTACCCCAAACTCCCAAAGCTTTTTACTTTTCCCTCAAAACTTTTACTC
196 ATAATATTTTACATTTTTACCCCAAACTCCCAAACCTTTTTACTTTTCCCTCAAAACTTTTACTC
*
32665412 CTTC-CTACTTTCC-CCTCAAAACTTTTACTCCCCTCCCCTCCCAA
261 ATTCTC-AC-TTCCACC-CAAAACTTTTACTCCCCTCCCCTCCCAA
* *
32665456 TAGGGGTGAGCAAAACTCAATTCGACTCGAAAAAATCGAAAAA-AATTCGAATTTCGAGTTAAAC
1 TAGGCGTGAGCAAAACTCAATTCGACTCGAAAAAATCGAAAAATAATTCGAATTTCAAGTTAAAC
* *
32665520 GAATCGAGTTATTCGAGTTAATCGAGTTATTCGAATCAACTCGAATATTTTTTTTGAATTTCGAG
66 GAATCGAGTTATTCAAGTTAATCGAGTTATTCGAATCAACTCGAAT-TTTTTTTCGAATTTCGAG
*
32665585 TTCGAATCAAGTTGAGTTTTCTAATTCGAATAACTCGAATAATTCGAATAATTCGAATATCAAAC
130 TTCGAATCAAGTTGAGTTTTCGAATTCGAATAACTCGAATAATTCGAATAATTCGAATATCAAAC
32665650 TATAATATTTTACATTTTTACCCCAAACTCCCAAACCTTTTTACTTTTCCCTCAAAACTTTTACT
195 TATAATATTTTACATTTTTACCCCAAACTCCCAAACCTTTTTACTTTTCCCTCAAAACTTTTACT
*
32665715 CATTCTCACTTCCACCCAAAACTTTTACTTCCCTCCCCTCCCAA
260 CATTCTCACTTCCACCCAAAACTTTTACTCCCCTCCCCTCCCAA
32665759 CCCCCCCAAT
Statistics
Matches: 286, Mismatches: 14, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
303 94 0.33
304 191 0.67
305 1 0.00
ACGTcount: A:0.32, C:0.22, G:0.11, T:0.34
Consensus pattern (303 bp):
TAGGCGTGAGCAAAACTCAATTCGACTCGAAAAAATCGAAAAATAATTCGAATTTCAAGTTAAAC
GAATCGAGTTATTCAAGTTAATCGAGTTATTCGAATCAACTCGAATTTTTTTTCGAATTTCGAGT
TCGAATCAAGTTGAGTTTTCGAATTCGAATAACTCGAATAATTCGAATAATTCGAATATCAAACT
ATAATATTTTACATTTTTACCCCAAACTCCCAAACCTTTTTACTTTTCCCTCAAAACTTTTACTC
ATTCTCACTTCCACCCAAAACTTTTACTCCCCTCCCCTCCCAA
Found at i:32666676 original size:5 final size:5
Alignment explanation
Indices: 32666666--32666692 Score: 54
Period size: 5 Copynumber: 5.4 Consensus size: 5
32666656 GAAAATTTTT
32666666 ATTCG ATTCG ATTCG ATTCG ATTCG AT
1 ATTCG ATTCG ATTCG ATTCG ATTCG AT
32666693 CGAATGCTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 22 1.00
ACGTcount: A:0.22, C:0.19, G:0.19, T:0.41
Consensus pattern (5 bp):
ATTCG
Found at i:32670559 original size:16 final size:16
Alignment explanation
Indices: 32670538--32670568 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
32670528 TTGAATTAAA
32670538 ATTTTAAAAAAATAAG
1 ATTTTAAAAAAATAAG
*
32670554 ATTTTATAAAAATAA
1 ATTTTAAAAAAATAA
32670569 CATATCATTT
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:0.61, C:0.00, G:0.03, T:0.35
Consensus pattern (16 bp):
ATTTTAAAAAAATAAG
Found at i:32671111 original size:22 final size:22
Alignment explanation
Indices: 32671081--32671123 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
32671071 ACACCAAAAC
* *
32671081 AGGCTTTTAGCGACGCTTTTTT
1 AGGCCTTTAGAGACGCTTTTTT
*
32671103 AGGCCTTTAGAGGCGCTTTTT
1 AGGCCTTTAGAGACGCTTTTT
32671124 AGCGCCGCTA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.19, G:0.26, T:0.42
Consensus pattern (22 bp):
AGGCCTTTAGAGACGCTTTTTT
Found at i:32671400 original size:86 final size:86
Alignment explanation
Indices: 32671255--32671436 Score: 260
Period size: 86 Copynumber: 2.1 Consensus size: 86
32671245 TAAAGGTCAT
* * * *
32671255 GCCGCTAAAGACCATGACCTTTAGCGGCATTTTTATCACAAACGTCGCTAAAGACCAAGACCTTT
1 GCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTACCACAAACGTCGCTAAAGAACAAGACCTTT
*
32671320 AGCGGCACTTT-TACCACAAAC
66 AGCGGCACTTTCT-CCAAAAAC
* *
32671341 GCCGCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACG-CTGCTAAGGAACAAGACCTT
1 GCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTACCACAAACGTC-GCTAAAGAACAAGACCTT
32671405 TAGCGGCACTTTCTCCAAAAAC
65 TAGCGGCACTTTCTCCAAAAAC
*
32671427 GCCACTAAAG
1 GCCGCTAAAG
32671437 GTCACGAAAA
Statistics
Matches: 86, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
85 1 0.01
86 84 0.98
87 1 0.01
ACGTcount: A:0.32, C:0.30, G:0.18, T:0.21
Consensus pattern (86 bp):
GCCGCTAAAGACCAAGACCTTTAGCGGCACTTTTACCACAAACGTCGCTAAAGAACAAGACCTTT
AGCGGCACTTTCTCCAAAAAC
Found at i:32671428 original size:43 final size:43
Alignment explanation
Indices: 32671258--32671416 Score: 239
Period size: 43 Copynumber: 3.7 Consensus size: 43
32671248 AGGTCATGCC
* * *
32671258 GCTAAAGACCATGACCTTTAGCGGCATTTTTATCACAAACG-T
1 GCTAAAGACCAAGACCTTTAGCGGCACTTTTACCACAAACGCT
*
32671300 CGCTAAAGACCAAGACCTTTAGCGGCACTTTTACCACAAACGCC
1 -GCTAAAGACCAAGACCTTTAGCGGCACTTTTACCACAAACGCT
*
32671344 GCTAAAGACCAAGACCTTTAGCGGCGCTTTTACCACAAACGCT
1 GCTAAAGACCAAGACCTTTAGCGGCACTTTTACCACAAACGCT
* *
32671387 GCTAAGGAACAAGACCTTTAGCGGCACTTT
1 GCTAAAGACCAAGACCTTTAGCGGCACTTT
32671417 CTCCAAAAAC
Statistics
Matches: 106, Mismatches: 9, Indels: 2
0.91 0.08 0.02
Matches are distributed among these distances:
43 106 1.00
ACGTcount: A:0.31, C:0.28, G:0.18, T:0.23
Consensus pattern (43 bp):
GCTAAAGACCAAGACCTTTAGCGGCACTTTTACCACAAACGCT
Found at i:32672501 original size:91 final size:90
Alignment explanation
Indices: 32672346--32673039 Score: 675
Period size: 91 Copynumber: 7.6 Consensus size: 90
32672336 CTTTAACACT
** *
32672346 TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACA-TATCAATTAACAACATTTAT
1 TCAATTTACAGCAACTAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTAACAACATTTAT
*
32672410 ACACCTCAATTACAGTGATAAAACATC
65 ACACCTCAATTACAG-CATAAAACATC
*
32672437 TCAATTTCCAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTATA
1 TCAATTTACAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTATA
32672502 CACCTCAATTACAGCAATAAAACATC
66 CACCTCAATTACAGC-ATAAAACATC
*
32672528 TCAATTT-CTAGCAACTAAACACTTCAATTTGTAGCACTTAAACACTTCAATTAACAACATTTAT
1 TCAATTTAC-AGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTAT
*
32672592 ACACCTCAATTACAACGATAAAACATC
65 ACACCTCAATTACAGC-ATAAAACATC
* * * * *
32672619 TCAATTTCCAGCAACTAAATACTTCAATTTGTAGCACTTAAACACTTCAATTTAA-AGCATTTAA
1 TCAATTTACAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAA-TTAACAACATTTAT
** * * * *
32672683 ACATTTAAATTTGCAGCACTTAAACATA
65 ACACCTCAA-TTACAGCA-TAAAACATC
* ** * * * *
32672711 TCAATTAACAGCATTTATACACTTCAATTTGCAGCACTTAAACACTTCAATTTACAGCATTTAAA
1 TCAATTTACAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTATA
* * * *
32672776 CACTTAAATTTGCAGCACTTAAACA-C
66 CACCTCAA-TTACAGCA-TAAAACATC
* * ** * * * * ** **
32672802 ATCAATTAACAACATTTATACACCTCAA-TTACAGCGA-TAAAACA-TCTCAATTTCCAACAACT
1 -TCAATTTACAGCAACTAAACACTTCAATTTGCAGC-ACTTAAACACT-TCAATTAACAACATTT
* * * * *
32672864 AAATACTTCAATTTGCAGCACTTAAACAGTAC
63 ATACACCTCAA-TTACAGCA-TAAAACA-T-C
** * * *
32672896 TTCAATTTACAGCATTTAAACACTTAAATTTGCAGCACTTAAACA-TATCAAGTAACAGCATTTA
1 -TCAATTTACAGCAACTAAACACTTCAATTTGCAGCACTTAAACACT-TCAATTAACAACATTTA
32672960 TACACCTCAATTACAGCGATAAAACATC
64 TACACCTCAATTACAGC-ATAAAACATC
* *
32672988 TCAATTTCCAACAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATT
1 TCAATTTACAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATT
32673040 TGCAGCACTT
Statistics
Matches: 521, Mismatches: 64, Indels: 36
0.84 0.10 0.06
Matches are distributed among these distances:
90 2 0.00
91 327 0.63
92 123 0.24
93 1 0.00
94 36 0.07
95 32 0.06
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.30
Consensus pattern (90 bp):
TCAATTTACAGCAACTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTAACAACATTTATA
CACCTCAATTACAGCATAAAACATC
Found at i:32672578 original size:137 final size:136
Alignment explanation
Indices: 32672332--32673200 Score: 946
Period size: 137 Copynumber: 6.3 Consensus size: 136
32672322 AATGGAAAGT
* * *
32672332 AGCACTTTAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTTAACATATCAAT
1 AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACATCTCAAT
* * *
32672397 TAACAACATTTATACACCTCAATTACAGTGATAAAACATCTCAATTTCCAGCAACTAAACACTTC
66 T-ACAGCATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAACAACTAAACACTTC
32672462 AATTTGC
130 AATTTGC
* * * * * * *
32672469 AGCACTTAAACACTTCAATTAACAACATTTATACACCTCAA-TTACAGCAATAAAACATCTCAAT
1 AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACATCTCAAT
* ** * * ** * ** ** *
32672533 TTCTAGCAACTAAACACTTCAATTTGTAGC-ACTTAAACA-CTTCAATTAACAACATTTATACAC
66 TAC-AGCATTTATACACCTCAA-TTACAGCGA-TAAAACATC-TCAATTTCCAACAACTAAACAC
* *
32672596 CTCAA-TTAC
127 TTCAATTTGC
* * * ** * *
32672605 AACGA-TAAAACA-TCTCAATTTCCAGCAACTAAATACTTCAATTTGTAGCACTTAAACA-CTTC
1 AGC-ACTTAAACACT-TCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACATC-TC
* * ** * * * * ** * ** *
32672667 AATTTAAAGCATTTAAACATTTAAATTTGCAGC-ACTTAAACATATCAATTAACAGCATTTATAC
63 AA-TTACAGCATTTATACACCTCAA-TTACAGCGA-TAAAACATCTCAATTTCCAACAACTAAAC
32672731 ACTTCAATTTGC
125 ACTTCAATTTGC
*
32672743 AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTAAATTTGCAGCACTTAAACA-CATCAA
1 AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACATC-TCAA
* *
32672807 TTAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAACAACTAAATACTT
65 TT-ACAGCATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAACAACTAAACACTT
32672872 CAATTTGC
129 CAATTTGC
* *
32672880 AGCACTTAAACAGTACTTCAATTTACAGCATTTAAACACTTAAATTTGCAGCACTTAAACATATC
1 AGCACTTAAAC---ACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACATCTC
*
32672945 AAGTAACAGCATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAACAACTAAACAC
63 AA-TTACAGCATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAACAACTAAACAC
32673010 TTCAATTTGC
127 TTCAATTTGC
* * *
32673020 AGCACTTAAACACTTCAATTTGCAGCACTTAAACACTTCAATTTGCAGCACTTAAACATATCAAT
1 AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACATCTCAAT
* * *
32673085 TAACAACATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAGCAACTAAATACTTC
66 T-ACAGCATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAACAACTAAACACTTC
32673150 AATTTGC
130 AATTTGC
* *
32673157 AGCACTTAAACACTTCAATTTACAACATTTAAACACTTAAATTT
1 AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTT
32673201 ACAAATCCAC
Statistics
Matches: 618, Mismatches: 93, Indels: 42
0.82 0.12 0.06
Matches are distributed among these distances:
135 2 0.00
136 66 0.11
137 347 0.56
138 71 0.11
139 1 0.00
140 130 0.21
141 1 0.00
ACGTcount: A:0.41, C:0.23, G:0.06, T:0.30
Consensus pattern (136 bp):
AGCACTTAAACACTTCAATTTACAGCATTTAAACACTTCAATTTGCAGCACTTAAACATCTCAAT
TACAGCATTTATACACCTCAATTACAGCGATAAAACATCTCAATTTCCAACAACTAAACACTTCA
ATTTGC
Found at i:32673204 original size:23 final size:23
Alignment explanation
Indices: 32672332--32673203 Score: 585
Period size: 23 Copynumber: 38.0 Consensus size: 23
32672322 AATGGAAAGT
*
32672332 AGCACTTTAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* *
32672355 AGCATTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
* *
32672378 AGCACTTTAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
32672401 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
32672423 AGTGA-TAAAACA-TCTCAATTTCC
1 AG-CACTTAAACACT-TCAATTTAC
*
32672446 AGCAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
*
32672469 AGCACTTAAACACTTCAATTAAC
1 AGCACTTAAACACTTCAATTTAC
* * * *
32672492 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
32672514 AGCAATAAAACA-TCTCAATTT-C
1 AGCACTTAAACACT-TCAATTTAC
**
32672536 TAGCAAC-TAAACACTTCAATTTGT
1 -AGC-ACTTAAACACTTCAATTTAC
*
32672560 AGCACTTAAACACTTCAATTAAC
1 AGCACTTAAACACTTCAATTTAC
* * * *
32672583 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
32672605 AACGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* **
32672628 AGCAAC-TAAATACTTCAATTTGT
1 AGC-ACTTAAACACTTCAATTTAC
*
32672651 AGCACTTAAACACTTCAATTTAA
1 AGCACTTAAACACTTCAATTTAC
* * * *
32672674 AGCATTTAAACATTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
32672697 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * *
32672720 AGCATTTATACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
32672743 AGCACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
32672766 AGCATTTAAACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
* *
32672789 AGCACTTAAACACATCAATTAAC
1 AGCACTTAAACACTTCAATTTAC
* * * *
32672812 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
32672834 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* * *
32672857 AACAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
32672880 AGCACTTAAACAGTACTTCAATTTAC
1 AGCACTTAAAC---ACTTCAATTTAC
* * *
32672906 AGCATTTAAACACTTAAATTTGC
1 AGCACTTAAACACTTCAATTTAC
* *
32672929 AGCACTTAAACA-TATCAAGTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * *
32672952 AGCATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
32672974 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
32672997 AACAAC-TAAACACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
*
32673020 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
32673043 AGCACTTAAACACTTCAATTTGC
1 AGCACTTAAACACTTCAATTTAC
*
32673066 AGCACTTAAACA-TATCAATTAAC
1 AGCACTTAAACACT-TCAATTTAC
* * * *
32673089 AACATTTATACACCTCAA-TTAC
1 AGCACTTAAACACTTCAATTTAC
* *
32673111 AGCGA-TAAAACA-TCTCAATTTCC
1 AGC-ACTTAAACACT-TCAATTTAC
* *
32673134 AGCAAC-TAAATACTTCAATTTGC
1 AGC-ACTTAAACACTTCAATTTAC
32673157 AGCACTTAAACACTTCAATTTAC
1 AGCACTTAAACACTTCAATTTAC
* * *
32673180 AACATTTAAACACTTAAATTTAC
1 AGCACTTAAACACTTCAATTTAC
32673203 A
1 A
32673204 AATCCACCAT
Statistics
Matches: 658, Mismatches: 142, Indels: 98
0.73 0.16 0.11
Matches are distributed among these distances:
22 103 0.16
23 526 0.80
24 8 0.01
26 21 0.03
ACGTcount: A:0.41, C:0.24, G:0.06, T:0.30
Consensus pattern (23 bp):
AGCACTTAAACACTTCAATTTAC
Found at i:32674713 original size:38 final size:38
Alignment explanation
Indices: 32674671--32674746 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
32674661 TAAACAAAGT
32674671 CTACATCTATATAAATCAATACTATTACATTCCATCCA
1 CTACATCTATATAAATCAATACTATTACATTCCATCCA
32674709 CTACATCTATATAAATCAATACTATTACATTCCATCCA
1 CTACATCTATATAAATCAATACTATTACATTCCATCCA
32674747 TGTAATGGAC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.39, C:0.26, G:0.00, T:0.34
Consensus pattern (38 bp):
CTACATCTATATAAATCAATACTATTACATTCCATCCA
Found at i:32676247 original size:41 final size:41
Alignment explanation
Indices: 32676185--32676420 Score: 359
Period size: 41 Copynumber: 5.8 Consensus size: 41
32676175 TCAATTTTGG
* *
32676185 ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGACATGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACACGAGC
32676226 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGAC-CGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACACGAGC
* *
32676266 ATTAGCGGTGCTTTTTCAAAAACGCCGCTAAAGACATGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACACGAGC
* * *
32676307 ATTAGCGGCGCTTTTTCAAAAATGTCGCTAAAGACCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACACGAGC
* * *
32676348 ATTAGCGGCGTTTTTTC-AAAACGCCACTAAAGACCCGAGC
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACACGAGC
*
32676388 ATTAGCGGCGCTTTTTCAAAAACACCGCTAAAG
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAG
32676421 CCTCGAAAGG
Statistics
Matches: 177, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
40 74 0.42
41 103 0.58
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (41 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACACGAGC
Found at i:32676281 original size:81 final size:82
Alignment explanation
Indices: 32676185--32676420 Score: 377
Period size: 81 Copynumber: 2.9 Consensus size: 82
32676175 TCAATTTTGG
32676185 ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGACATGAGCATTAGCGGCGCTTTTTCAAAAACG
1 ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGACATGAGCATTAGCGGCGCTTTTTCAAAAACG
32676250 CCGCTAAAGA-CCGAGC
66 CCGCTAAAGACCCGAGC
* * *
32676266 ATTAGCGGTGCTTTTTCAAAAACGCCGCTAAAGACATGAGCATTAGCGGCGCTTTTTCAAAAATG
1 ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGACATGAGCATTAGCGGCGCTTTTTCAAAAACG
*
32676331 TCGCTAAAGACCCGAGC
66 CCGCTAAAGACCCGAGC
* * ** *
32676348 ATTAGCGGCG-TTTTTTCAAAACGCCACTAAAGACCCGAGCATTAGCGGCGCTTTTTCAAAAACA
1 ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGACATGAGCATTAGCGGCGCTTTTTCAAAAACG
32676412 CCGCTAAAG
66 CCGCTAAAG
32676421 CCTCGAAAGG
Statistics
Matches: 141, Mismatches: 13, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
81 126 0.89
82 15 0.11
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (82 bp):
ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGACATGAGCATTAGCGGCGCTTTTTCAAAAACG
CCGCTAAAGACCCGAGC
Found at i:32676402 original size:122 final size:122
Alignment explanation
Indices: 32676185--32676420 Score: 375
Period size: 122 Copynumber: 1.9 Consensus size: 122
32676175 TCAATTTTGG
* *
32676185 ATTAGCGGCGCTTTTTTAAAAACGCCGCTAAAGACATGAGCATTAGCGGCGCTTTTTCAAAAACG
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACACGAGCATTAGCGGCGCTTTTTCAAAAACG
* * *
32676250 CCGCTAAAGACCGAGCATTAGCGGTGCTTTTTCAAAAACGCCGCTAAAGACATGAGC
66 CCACTAAAGACCGAGCATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGACATGAGC
* * * *
32676307 ATTAGCGGCGCTTTTTCAAAAATGTCGCTAAAGACCCGAGCATTAGCGGCGTTTTTTC-AAAACG
1 ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACACGAGCATTAGCGGCGCTTTTTCAAAAACG
32676371 CCACTAAAGACCCGAGCATTAGCGGCGCTTTTTCAAAAACACCGCTAAAG
66 CCACTAAAGA-CCGAGCATTAGCGGCGCTTTTTCAAAAACACCGCTAAAG
32676421 CCTCGAAAGG
Statistics
Matches: 104, Mismatches: 9, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
121 15 0.14
122 89 0.86
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.23
Consensus pattern (122 bp):
ATTAGCGGCGCTTTTTCAAAAACGCCGCTAAAGACACGAGCATTAGCGGCGCTTTTTCAAAAACG
CCACTAAAGACCGAGCATTAGCGGCGCTTTTTCAAAAACACCGCTAAAGACATGAGC
Found at i:32676608 original size:40 final size:38
Alignment explanation
Indices: 32676480--32676610 Score: 102
Period size: 40 Copynumber: 3.3 Consensus size: 38
32676470 TTTCTCAAAA
* * *
32676480 AAACGCCGCTAATGCTCATTTTTCA-CGGCGCTTTCCTGG
1 AAACGCCGCTAATGCTCATTTTT-AGCGGCGTTTTACT-T
* * * * *
32676519 AAGCGCCGTTAATGCTCGATCTTTAGCGGCATTTTACGT
1 AAACGCCGCTAATGCTC-ATTTTTAGCGGCGTTTTACTT
* **
32676558 AAAGCACCGCTAATGCTCAATTTTTAGCGGCGTTTTTTTT
1 AAA-CGCCGCTAATGCTC-ATTTTTAGCGGCGTTTTACTT
32676598 CAAACGCCGCTAA
1 -AAACGCCGCTAA
32676611 AAGTCTGTTT
Statistics
Matches: 70, Mismatches: 18, Indels: 7
0.74 0.19 0.07
Matches are distributed among these distances:
39 18 0.26
40 49 0.70
41 3 0.04
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.32
Consensus pattern (38 bp):
AAACGCCGCTAATGCTCATTTTTAGCGGCGTTTTACTT
Found at i:32679464 original size:20 final size:19
Alignment explanation
Indices: 32679409--32679479 Score: 54
Period size: 20 Copynumber: 3.6 Consensus size: 19
32679399 TAAACACAAG
* *
32679409 AAGTATCGATAATTATTCTC
1 AAGTATCGAT-ATTTTTCTA
* * *
32679429 AAGTATCGGTGGTTTTACTA
1 AAGTATCGAT-ATTTTTCTA
32679449 AAGTATCGATATTTTT-TA
1 AAGTATCGATATTTTTCTA
32679467 ACTAGTATCGATA
1 A--AGTATCGATA
32679480 CCAAATTGCA
Statistics
Matches: 40, Mismatches: 9, Indels: 4
0.75 0.17 0.08
Matches are distributed among these distances:
18 3 0.08
19 4 0.10
20 33 0.82
ACGTcount: A:0.32, C:0.11, G:0.15, T:0.41
Consensus pattern (19 bp):
AAGTATCGATATTTTTCTA
Found at i:32681373 original size:15 final size:14
Alignment explanation
Indices: 32681352--32681387 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
32681342 ATAATCTTTA
*
32681352 ATAATTATCTTAAT
1 ATAATTATCCTAAT
32681366 ATTAATTATCCTAAT
1 A-TAATTATCCTAAT
32681381 ATAATTA
1 ATAATTA
32681388 AAATAGAGTC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.47
Consensus pattern (14 bp):
ATAATTATCCTAAT
Found at i:32683000 original size:12 final size:12
Alignment explanation
Indices: 32682983--32683052 Score: 63
Period size: 12 Copynumber: 5.5 Consensus size: 12
32682973 CCAAATAAGT
32682983 AATAAATAATAA
1 AATAAATAATAA
32682995 AATAAAGTAAT-A
1 AATAAA-TAATAA
*
32683007 AATAAAGTAAAGAA
1 AATAAA-T-AATAA
32683021 AATAAAATAAT-A
1 AAT-AAATAATAA
32683033 AATAAATAAATAA
1 AATAAAT-AATAA
32683046 TAATAAA
1 -AATAAA
32683053 ATAAAAATAA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
11 4 0.08
12 22 0.45
13 9 0.18
14 11 0.22
15 3 0.06
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (12 bp):
AATAAATAATAA
Found at i:32683010 original size:4 final size:4
Alignment explanation
Indices: 32682983--32683057 Score: 52
Period size: 4 Copynumber: 18.5 Consensus size: 4
32682973 CCAAATAAGT
*
32682983 AATA AAT- AATAA AATA AAGT- AATA AATA AAGTA AAGAA AATA AA-A
1 AATA AATA AAT-A AATA AA-TA AATA AATA AA-TA AA-TA AATA AATA
32683028 TAATA AATA AATA AAT- AAT- AATAA AATA AA
1 -AATA AATA AATA AATA AATA AAT-A AATA AA
32683058 AATAAAAATT
Statistics
Matches: 60, Mismatches: 2, Indels: 18
0.75 0.03 0.22
Matches are distributed among these distances:
3 11 0.18
4 33 0.55
5 16 0.27
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.23
Consensus pattern (4 bp):
AATA
Found at i:32683025 original size:26 final size:25
Alignment explanation
Indices: 32682975--32683063 Score: 103
Period size: 26 Copynumber: 3.6 Consensus size: 25
32682965 ATTAATATCC
*
32682975 AAATAAGT-AATAAAT-AATAAAATA
1 AAATAA-TAAATAAATAAAGAAAATA
*
32682999 AAGTAATAAATAAAGTAAAGAAAATA
1 AAATAATAAATAAA-TAAAGAAAATA
*
32683025 AAATAATAAATAAATAAATAATAATA
1 AAATAATAAATAAATAAAGAA-AATA
32683051 AAATAA-AAATAAA
1 AAATAATAAATAAA
32683064 AATTGGGTTG
Statistics
Matches: 57, Mismatches: 4, Indels: 7
0.84 0.06 0.10
Matches are distributed among these distances:
23 1 0.02
24 11 0.19
25 14 0.25
26 31 0.54
ACGTcount: A:0.73, C:0.00, G:0.04, T:0.22
Consensus pattern (25 bp):
AAATAATAAATAAATAAAGAAAATA
Found at i:32689458 original size:15 final size:15
Alignment explanation
Indices: 32689438--32689475 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
32689428 AAATAATCAT
*
32689438 TAATAATTATCTTAA
1 TAATAATTATCCTAA
32689453 TAATAATTATCCTAA
1 TAATAATTATCCTAA
32689468 T-ATAATTA
1 TAATAATTA
32689476 AAATAGAGTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
14 7 0.32
15 15 0.68
ACGTcount: A:0.47, C:0.08, G:0.00, T:0.45
Consensus pattern (15 bp):
TAATAATTATCCTAA
Found at i:32700837 original size:260 final size:260
Alignment explanation
Indices: 32700374--32700896 Score: 958
Period size: 260 Copynumber: 2.0 Consensus size: 260
32700364 CAAAAGTTCT
32700374 ACTACAAGCAGTTTAACATAAATATTGATATGGTACATACTAAGCACATCAAGTATGTTTACTAT
1 ACTACAAGCAGTTTAACATAAATATTGATATGGTACATACTAAGCACATCAAGTATGTTTACTAT
* *
32700439 GATCATTTACACGAGTGCATATTTATATTTATTCTGTGCTTTTTGGCATTCCAATAAATGATTAA
66 GATCACTTACACGACTGCATATTTATATTTA-TCTGTGCTTTTTGGCATTCCAATAAATGATTAA
32700504 TGAGCGACTTAAAAACTAATATTTACTTTGAGGTCCATGTTAGTCATCGTCTCTTTGGTTTTTTG
130 TGAGCGACTTAAAAACTAATATTTACTTTGAGGTCCATGTTAGTCATCGTCTCTTTGGTTTTTTG
*
32700569 CTAGCATAAATATTAAAGGACTGGCACCTTTAAGGAAACACAAGTTCCCCACCAGTAGGCTATTA
195 CTAGCATAAATATCAAAGGACTGGCACC-TTAAGGAAACACAAGTTCCCCACCAGTAGGCTATTA
32700634 AA
259 AA
* *
32700636 ACTACAAGCAGTTTAACATAAATATTGATATGGTACATACTAAGCCCATGAAGTATGTTTACTAT
1 ACTACAAGCAGTTTAACATAAATATTGATATGGTACATACTAAGCACATCAAGTATGTTTACTAT
*
32700701 GATCACTTACATGACTGCATATTTATATTTA-CTGTGCTTTTTGGCATTCCAATAAATGATTAAT
66 GATCACTTACACGACTGCATATTTATATTTATCTGTGCTTTTTGGCATTCCAATAAATGATTAAT
*
32700765 GAGCGACTTAAAAACTAATATTTACTTTGAGGTCCATGTTAGTCATTGTCTCTTTGGTTTTTTGC
131 GAGCGACTTAAAAACTAATATTTACTTTGAGGTCCATGTTAGTCATCGTCTCTTTGGTTTTTTGC
32700830 TAGCATAAATATCAAAGGACTGGCACCTTAAGGAAACACAAGTTCCCCACCAGTAGGCTATTAAA
196 TAGCATAAATATCAAAGGACTGGCACCTTAAGGAAACACAAGTTCCCCACCAGTAGGCTATTAAA
32700895 AC
1 AC
32700897 CATCCATCAC
Statistics
Matches: 254, Mismatches: 7, Indels: 3
0.96 0.03 0.01
Matches are distributed among these distances:
259 40 0.16
260 123 0.48
262 91 0.36
ACGTcount: A:0.33, C:0.17, G:0.15, T:0.35
Consensus pattern (260 bp):
ACTACAAGCAGTTTAACATAAATATTGATATGGTACATACTAAGCACATCAAGTATGTTTACTAT
GATCACTTACACGACTGCATATTTATATTTATCTGTGCTTTTTGGCATTCCAATAAATGATTAAT
GAGCGACTTAAAAACTAATATTTACTTTGAGGTCCATGTTAGTCATCGTCTCTTTGGTTTTTTGC
TAGCATAAATATCAAAGGACTGGCACCTTAAGGAAACACAAGTTCCCCACCAGTAGGCTATTAAA
Found at i:32708371 original size:101 final size:101
Alignment explanation
Indices: 32708196--32708397 Score: 404
Period size: 101 Copynumber: 2.0 Consensus size: 101
32708186 GTCTACATAT
32708196 CACTTGAAGAGCTATCTCTTATCTTTGAAACACACTTTGAATCACTCAATTTCGAGTTTGGGAGC
1 CACTTGAAGAGCTATCTCTTATCTTTGAAACACACTTTGAATCACTCAATTTCGAGTTTGGGAGC
32708261 TTCATTAAGTTATAACCATTTTAGTGAAGACTGCAC
66 TTCATTAAGTTATAACCATTTTAGTGAAGACTGCAC
32708297 CACTTGAAGAGCTATCTCTTATCTTTGAAACACACTTTGAATCACTCAATTTCGAGTTTGGGAGC
1 CACTTGAAGAGCTATCTCTTATCTTTGAAACACACTTTGAATCACTCAATTTCGAGTTTGGGAGC
32708362 TTCATTAAGTTATAACCATTTTAGTGAAGACTGCAC
66 TTCATTAAGTTATAACCATTTTAGTGAAGACTGCAC
32708398 GAACATAATT
Statistics
Matches: 101, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
101 101 1.00
ACGTcount: A:0.30, C:0.20, G:0.16, T:0.35
Consensus pattern (101 bp):
CACTTGAAGAGCTATCTCTTATCTTTGAAACACACTTTGAATCACTCAATTTCGAGTTTGGGAGC
TTCATTAAGTTATAACCATTTTAGTGAAGACTGCAC
Found at i:32709182 original size:24 final size:24
Alignment explanation
Indices: 32709119--32709170 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
32709109 TTTCTAGAAG
* * *
32709119 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
32709143 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
32709167 ATTT
1 ATTT
32709171 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:32713549 original size:24 final size:24
Alignment explanation
Indices: 32713486--32713537 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
32713476 TTTCTAGAAG
* * *
32713486 ATTTAGTATTTATGAGTATAATAT
1 ATTTAGCATTTATTAGCATAATAT
32713510 ATTTAGCATTTATTAGCATAATAT
1 ATTTAGCATTTATTAGCATAATAT
32713534 ATTT
1 ATTT
32713538 GACTTTGATT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.37, C:0.04, G:0.10, T:0.50
Consensus pattern (24 bp):
ATTTAGCATTTATTAGCATAATAT
Found at i:32718672 original size:18 final size:18
Alignment explanation
Indices: 32718649--32718690 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
32718639 CTACTAAAAA
32718649 TCACAAGAAAACAATCAT
1 TCACAAGAAAACAATCAT
*
32718667 TCACAAGAAAGCAATCAT
1 TCACAAGAAAACAATCAT
*
32718685 GCACAA
1 TCACAA
32718691 AAGAAACTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.52, C:0.24, G:0.10, T:0.14
Consensus pattern (18 bp):
TCACAAGAAAACAATCAT
Found at i:32721623 original size:12 final size:12
Alignment explanation
Indices: 32721606--32721631 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
32721596 TAAGACATTT
32721606 AGGACCAGCACC
1 AGGACCAGCACC
32721618 AGGACCAGCACC
1 AGGACCAGCACC
32721630 AG
1 AG
32721632 AAACATGAAA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.35, C:0.38, G:0.27, T:0.00
Consensus pattern (12 bp):
AGGACCAGCACC
Found at i:32728820 original size:14 final size:15
Alignment explanation
Indices: 32728791--32728820 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
32728781 TGTGAAGAAA
32728791 TATTTTTCTTCTCCT
1 TATTTTTCTTCTCCT
32728806 TATTTTTCTTC-CCT
1 TATTTTTCTTCTCCT
32728820 T
1 T
32728821 GGTTGAATAC
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 4 0.27
15 11 0.73
ACGTcount: A:0.07, C:0.27, G:0.00, T:0.67
Consensus pattern (15 bp):
TATTTTTCTTCTCCT
Found at i:32729614 original size:48 final size:48
Alignment explanation
Indices: 32729519--32729617 Score: 112
Period size: 48 Copynumber: 2.1 Consensus size: 48
32729509 AAAGTGGAAG
* * *
32729519 TATGTGGCAGTTTATCTGCATTAATGTGACATTGTTCACGATTTTGAT
1 TATGTGGCAGTATATCTGCATTAATGTGACATTGTCCACGATATTGAT
* * *
32729567 TATGTGGCAGTATATCTGCGATT-TTGGTGTC-TTGTCCATGATATTGAT
1 TATGTGGCAGTATATCTGC-ATTAAT-GTGACATTGTCCACGATATTGAT
32729615 TAT
1 TAT
32729618 TAGTAATTTA
Statistics
Matches: 43, Mismatches: 6, Indels: 4
0.81 0.11 0.08
Matches are distributed among these distances:
48 36 0.84
49 7 0.16
ACGTcount: A:0.21, C:0.12, G:0.22, T:0.44
Consensus pattern (48 bp):
TATGTGGCAGTATATCTGCATTAATGTGACATTGTCCACGATATTGAT
Found at i:32730558 original size:21 final size:22
Alignment explanation
Indices: 32730534--32730580 Score: 53
Period size: 21 Copynumber: 2.2 Consensus size: 22
32730524 AAGCCAATAG
32730534 TTTTAAAATATTT-TTT-AAAAA
1 TTTTAAAAT-TTTATTTCAAAAA
* *
32730555 TTTTGAAATTTTATTTCAACAA
1 TTTTAAAATTTTATTTCAAAAA
32730577 TTTT
1 TTTT
32730581 CATGGAAAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
20 3 0.14
21 11 0.50
22 8 0.36
ACGTcount: A:0.38, C:0.04, G:0.02, T:0.55
Consensus pattern (22 bp):
TTTTAAAATTTTATTTCAAAAA
Found at i:32731796 original size:20 final size:20
Alignment explanation
Indices: 32731771--32731825 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
32731761 TTGTACAGGA
32731771 TTGCACTTCGATGCTTCTGT
1 TTGCACTTCGATGCTTCTGT
*
32731791 TTGCACTTC-AGTGCCTCTGT
1 TTGCACTTCGA-TGCTTCTGT
* *
32731811 TAGCATTTCGATGCT
1 TTGCACTTCGATGCT
32731826 CTTTGGTGTG
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
19 1 0.03
20 27 0.93
21 1 0.03
ACGTcount: A:0.13, C:0.25, G:0.20, T:0.42
Consensus pattern (20 bp):
TTGCACTTCGATGCTTCTGT
Found at i:32749444 original size:2 final size:2
Alignment explanation
Indices: 32749437--32749465 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
32749427 GTCTTTACTA
32749437 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
32749466 AGCAAGAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:32749881 original size:12 final size:12
Alignment explanation
Indices: 32749864--32749903 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
32749854 TGTCAAGGAT
*
32749864 AGGGGAAGGGGA
1 AGGGGAAGGGAA
32749876 AGGGGAAGGGAA
1 AGGGGAAGGGAA
* *
32749888 AGGGAAAAGGAA
1 AGGGGAAGGGAA
32749900 AGGG
1 AGGG
32749904 AAGATCGGTG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
12 25 1.00
ACGTcount: A:0.42, C:0.00, G:0.57, T:0.00
Consensus pattern (12 bp):
AGGGGAAGGGAA
Found at i:32749890 original size:18 final size:18
Alignment explanation
Indices: 32749858--32749905 Score: 51
Period size: 18 Copynumber: 2.7 Consensus size: 18
32749848 ATCATGTGTC
* * *
32749858 AAGGATAGGGGAAGGGGA
1 AAGGAAAGGGAAAGGGAA
* *
32749876 AGGGGAAGGGAAAGGGAA
1 AAGGAAAGGGAAAGGGAA
32749894 AAGGAAAGGGAA
1 AAGGAAAGGGAA
32749906 GATCGGTGTC
Statistics
Matches: 23, Mismatches: 7, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.46, C:0.00, G:0.52, T:0.02
Consensus pattern (18 bp):
AAGGAAAGGGAAAGGGAA
Found at i:32755946 original size:67 final size:67
Alignment explanation
Indices: 32755838--32755963 Score: 182
Period size: 67 Copynumber: 1.9 Consensus size: 67
32755828 GAACTCAAAG
*
32755838 ATTTATACACAATAAAATTTGTGAACTCAAAGTTTCCATAAACTTACTCG-TAAATCAAATCCTT
1 ATTTATACACAATAAAATTTGTGAACTAAAAGTTTCCATAAACTTAC-CGTTAAATCAAATCCTT
32755902 ATA
65 ATA
* * * * *
32755905 ATTTATACATAATAAGATTTGTGAACTAAAATTTTTCATAAATTTACCGTTAAATCAAA
1 ATTTATACACAATAAAATTTGTGAACTAAAAGTTTCCATAAACTTACCGTTAAATCAAA
32755964 ACTAAATTAA
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
66 2 0.04
67 50 0.96
ACGTcount: A:0.43, C:0.14, G:0.06, T:0.37
Consensus pattern (67 bp):
ATTTATACACAATAAAATTTGTGAACTAAAAGTTTCCATAAACTTACCGTTAAATCAAATCCTTA
TA
Found at i:32756402 original size:15 final size:13
Alignment explanation
Indices: 32756361--32756403 Score: 50
Period size: 14 Copynumber: 3.0 Consensus size: 13
32756351 TGGTCCTTTA
32756361 GAATAATTTTTTTT
1 GAATAA-TTTTTTT
32756375 GACATAATTTTTTT
1 GA-ATAATTTTTTT
32756389 GAATATATTGTTTTT
1 GAATA-ATT-TTTTT
32756404 CACTTATTAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
13 3 0.12
14 14 0.54
15 9 0.35
ACGTcount: A:0.28, C:0.02, G:0.09, T:0.60
Consensus pattern (13 bp):
GAATAATTTTTTT
Found at i:32756971 original size:26 final size:27
Alignment explanation
Indices: 32756924--32756978 Score: 94
Period size: 26 Copynumber: 2.1 Consensus size: 27
32756914 GTCTGTGTGG
*
32756924 TAGGTGCCACTAGTGACTCCTACCTGA
1 TAGGCGCCACTAGTGACTCCTACCTGA
32756951 TAGGCGCCACT-GTGACTCCTACCTGA
1 TAGGCGCCACTAGTGACTCCTACCTGA
32756977 TA
1 TA
32756979 AGCGGCACCA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 17 0.63
27 10 0.37
ACGTcount: A:0.22, C:0.31, G:0.22, T:0.25
Consensus pattern (27 bp):
TAGGCGCCACTAGTGACTCCTACCTGA
Found at i:32760972 original size:43 final size:41
Alignment explanation
Indices: 32760906--32761105 Score: 177
Period size: 43 Copynumber: 4.7 Consensus size: 41
32760896 TAAATTTAGT
* * *
32760906 GATATGGGGAATCAACACATAGCAACCCCTTTCACAATCAAA
1 GATACGGGGAATCAGCACTTAGCAACCCCTTT-ACAATCAAA
* * * * * **
32760948 GGTACGGTGAAATCAGCACTTAGCAACCATCTTTATATTCAGT
1 GATACGG-GGAATCAGCACTTAGCAACC-CCTTTACAATCAAA
* *
32760991 GATACTGGGAATCAGCACATAGCAACCCCTTTCACAATCAAA
1 GATACGGGGAATCAGCACTTAGCAACCCCTTT-ACAATCAAA
* * *
32761033 TATAAGGTGGAATCAGCACTTAGCAACCACCTTTAGAATCAATA
1 GATACGG-GGAATCAGCACTTAGCAACC-CCTTTACAATCAA-A
* *
32761077 -ATTCGGGGAATCAGCACTCAGCAACCCCT
1 GATACGGGGAATCAGCACTTAGCAACCCCT
32761106 AGGGGAATCT
Statistics
Matches: 125, Mismatches: 27, Indels: 13
0.76 0.16 0.08
Matches are distributed among these distances:
41 7 0.06
42 51 0.41
43 57 0.46
44 10 0.08
ACGTcount: A:0.35, C:0.26, G:0.17, T:0.23
Consensus pattern (41 bp):
GATACGGGGAATCAGCACTTAGCAACCCCTTTACAATCAAA
Found at i:32761007 original size:42 final size:41
Alignment explanation
Indices: 32760880--32761102 Score: 168
Period size: 43 Copynumber: 5.3 Consensus size: 41
32760870 GTGGATTCAA
* * * *
32760880 CACTTAGCAACCACC-TTA-AATTTAGTGATATGGGGAATCAA
1 CACTTAGCAACCACCTTTACAA-TCAAT-ATACGGGGAATCAG
* *
32760921 CACATAGCAACC-CCTTTCACAATCAA-AGGTACGGTGAAATCAG
1 CACTTAGCAACCACCTTT-ACAATCAATA--TACGG-GGAATCAG
* * * * *
32760964 CACTTAGCAACCATCTTTATATTCAGTGATACTGGGAATCAG
1 CACTTAGCAACCACCTTTACAATCAAT-ATACGGGGAATCAG
* *
32761006 CACATAGCAACC-CCTTTCACAATCAAATATAAGGTGGAATCAG
1 CACTTAGCAACCACCTTT-ACAATC-AATATACGG-GGAATCAG
* *
32761049 CACTTAGCAACCACCTTTAGAATCAATAATTCGGGGAATCAG
1 CACTTAGCAACCACCTTTACAATCAAT-ATACGGGGAATCAG
*
32761091 CACTCAGCAACC
1 CACTTAGCAACC
32761103 CCTAGGGGAA
Statistics
Matches: 143, Mismatches: 25, Indels: 27
0.73 0.13 0.14
Matches are distributed among these distances:
40 3 0.02
41 17 0.12
42 55 0.38
43 58 0.41
44 9 0.06
45 1 0.01
ACGTcount: A:0.36, C:0.25, G:0.16, T:0.23
Consensus pattern (41 bp):
CACTTAGCAACCACCTTTACAATCAATATACGGGGAATCAG
Found at i:32761010 original size:85 final size:84
Alignment explanation
Indices: 32760880--32761105 Score: 278
Period size: 85 Copynumber: 2.7 Consensus size: 84
32760870 GTGGATTCAA
* * *
32760880 CACTTAGCAACCACCTTAAATTTAGTGATA-TGGGGAATCAACACATAGCAACCCCTTTCACAAT
1 CACTTAGCAACCACTTTAAATTCAGTGATACT-GGGAATCAGCACATAGCAACCCCTTTCACAAT
* *
32760944 CAAAGGTACGGTGAAATCAG
65 CAAAGATAAGGTGAAATCAG
*
32760964 CACTTAGCAACCATCTTTATATTCAGTGATACTGGGAATCAGCACATAGCAACCCCTTTCACAAT
1 CACTTAGCAACCA-CTTTAAATTCAGTGATACTGGGAATCAGCACATAGCAACCCCTTTCACAAT
* *
32761029 CAAATATAAGGTGGAATCAG
65 CAAAGATAAGGTGAAATCAG
* * * *
32761049 CACTTAGCAACCACCTTTAGAA-TCAATAATTCGGGGAATCAGCAC-TCAGCAACCCCT
1 CACTTAGCAACCA-CTTTA-AATTCAGTGATACTGGGAATCAGCACAT-AGCAACCCCT
32761106 AGGGGAATCT
Statistics
Matches: 124, Mismatches: 14, Indels: 7
0.86 0.10 0.05
Matches are distributed among these distances:
84 14 0.11
85 108 0.87
86 2 0.02
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.23
Consensus pattern (84 bp):
CACTTAGCAACCACTTTAAATTCAGTGATACTGGGAATCAGCACATAGCAACCCCTTTCACAATC
AAAGATAAGGTGAAATCAG
Found at i:32767869 original size:77 final size:75
Alignment explanation
Indices: 32767633--32767862 Score: 311
Period size: 75 Copynumber: 3.1 Consensus size: 75
32767623 TTACGTAAAT
* * * * * * *
32767633 AATAAAAAGTTTATTATTTAAATTGTAAAAAATCC-TAAAATTAATAACTGAAATAG-AGAAAAA
1 AATACAAAGTTGACTATTTAAATTGAAAAAAAACCATAAAATTAATAACTAAAATGGCA-AAAAA
32767696 GTCATTACATA
65 GTCATTACATA
*
32767707 AATACAAAGTTGACTATTTAAATTGAAAAAAAACCATCAAATTAATAACTAAAATGGCAAAAAAG
1 AATACAAAGTTGACTATTTAAATTGAAAAAAAACCATAAAATTAATAACTAAAATGGCAAAAAAG
*
32767772 TCATTACACA
66 TCATTACATA
* *
32767782 AATACAAAGTTGACTATTTAAATTGCAAAAAAAACCCATAAAATTAAGAACTTAAATGGCAAAAA
1 AATACAAAGTTGACTATTTAAATTG-AAAAAAAA-CCATAAAATTAATAACTAAAATGGCAAAAA
*
32767847 AGTCATTATATA
64 AGTCATTACATA
32767859 AATA
1 AATA
32767863 TGAAGTTATT
Statistics
Matches: 138, Mismatches: 14, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
74 30 0.22
75 58 0.42
76 9 0.07
77 41 0.30
ACGTcount: A:0.54, C:0.10, G:0.08, T:0.27
Consensus pattern (75 bp):
AATACAAAGTTGACTATTTAAATTGAAAAAAAACCATAAAATTAATAACTAAAATGGCAAAAAAG
TCATTACATA
Found at i:32768113 original size:33 final size:33
Alignment explanation
Indices: 32768076--32768216 Score: 165
Period size: 33 Copynumber: 4.3 Consensus size: 33
32768066 AGAGTACAGT
* * *
32768076 GGTGGATATGGGCCAGGAAGAGTGGAGTATGGC
1 GGTGGATACGGGCCGGGAGGAGTGGAGTATGGC
*
32768109 GGTGGATACAGGCCGGGAGGAGTGGAGTATGGC
1 GGTGGATACGGGCCGGGAGGAGTGGAGTATGGC
* * *
32768142 AGTGGATACGGGCCGGGAGGAGTGAAGTATGGT
1 GGTGGATACGGGCCGGGAGGAGTGGAGTATGGC
** * * * *
32768175 GGTGGATACGAACTGGAAGGAGTGGAGTATTGA
1 GGTGGATACGGGCCGGGAGGAGTGGAGTATGGC
32768208 GGTGGATAC
1 GGTGGATAC
32768217 AAGACGGGAT
Statistics
Matches: 92, Mismatches: 16, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 92 1.00
ACGTcount: A:0.25, C:0.09, G:0.48, T:0.18
Consensus pattern (33 bp):
GGTGGATACGGGCCGGGAGGAGTGGAGTATGGC
Found at i:32768825 original size:13 final size:13
Alignment explanation
Indices: 32768807--32768834 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
32768797 ACAAAATTGG
32768807 AAAGATGAAAAAT
1 AAAGATGAAAAAT
32768820 AAAGATGAAAAAT
1 AAAGATGAAAAAT
32768833 AA
1 AA
32768835 TAAAATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.71, C:0.00, G:0.14, T:0.14
Consensus pattern (13 bp):
AAAGATGAAAAAT
Found at i:32770022 original size:24 final size:24
Alignment explanation
Indices: 32769989--32770050 Score: 72
Period size: 24 Copynumber: 2.6 Consensus size: 24
32769979 TGGCTCTTTG
*
32769989 GAGCTACCCGTTATTGGCTCGCAT
1 GAGCTTCCCGTTATTGGCTCGCAT
* **
32770013 GAGTTTCCCGATTA-TGGCTCTTAT
1 GAGCTTCCCG-TTATTGGCTCGCAT
32770037 GAGCTTCCCGTTAT
1 GAGCTTCCCGTTAT
32770051 ATTTCCCAGA
Statistics
Matches: 31, Mismatches: 5, Indels: 4
0.77 0.12 0.10
Matches are distributed among these distances:
23 3 0.10
24 25 0.81
25 3 0.10
ACGTcount: A:0.16, C:0.26, G:0.23, T:0.35
Consensus pattern (24 bp):
GAGCTTCCCGTTATTGGCTCGCAT
Found at i:32772467 original size:27 final size:27
Alignment explanation
Indices: 32772437--32772500 Score: 119
Period size: 27 Copynumber: 2.4 Consensus size: 27
32772427 AATAAAAATA
32772437 ACCAAAATATTATAACTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
*
32772464 ACCAAAATATTATAATTTTTTTTATTT
1 ACCAAAATATTATAACTTTTTTTATTT
32772491 ACCAAAATAT
1 ACCAAAATAT
32772501 ACCAAAAAAA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.41, C:0.11, G:0.00, T:0.48
Consensus pattern (27 bp):
ACCAAAATATTATAACTTTTTTTATTT
Found at i:32772588 original size:27 final size:27
Alignment explanation
Indices: 32772550--32772628 Score: 104
Period size: 27 Copynumber: 2.9 Consensus size: 27
32772540 CACCCTAGTC
* *
32772550 GTGCCAAGGTGATTGGCGGCACTAAAG
1 GTGCCAAAGTGATTGGCGGCACCAAAG
*
32772577 GTGCCAAAGTGATTGGCTGCACCAAAG
1 GTGCCAAAGTGATTGGCGGCACCAAAG
** *
32772604 GTGCCAAAGACATTGGCAGCACCAA
1 GTGCCAAAGTGATTGGCGGCACCAA
32772629 TGTTATAATA
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 46 1.00
ACGTcount: A:0.30, C:0.23, G:0.30, T:0.16
Consensus pattern (27 bp):
GTGCCAAAGTGATTGGCGGCACCAAAG
Found at i:32772681 original size:4 final size:4
Alignment explanation
Indices: 32772672--32772731 Score: 52
Period size: 4 Copynumber: 15.0 Consensus size: 4
32772662 GAAGGAGAGG
* * *
32772672 GAAA GAAA GAAA GAAA GAAA GAAAA GAAG GTGAG GAAA GAAA G-AA -AAA
1 GAAA GAAA GAAA GAAA GAAA G-AAA GAAA G-AAA GAAA GAAA GAAA GAAA
*
32772720 GAAG GAAA GAAA
1 GAAA GAAA GAAA
32772732 AGGAATGGAG
Statistics
Matches: 46, Mismatches: 6, Indels: 8
0.77 0.10 0.13
Matches are distributed among these distances:
3 4 0.09
4 35 0.76
5 7 0.15
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.02
Consensus pattern (4 bp):
GAAA
Found at i:32772699 original size:13 final size:13
Alignment explanation
Indices: 32772672--32772815 Score: 53
Period size: 13 Copynumber: 10.3 Consensus size: 13
32772662 GAAGGAGAGG
32772672 GAAAGAAAG-AAA
1 GAAAGAAAGAAAA
32772684 GAAAGAAAGAAAA
1 GAAAGAAAGAAAA
* ** *
32772697 GAAGGTGAGGAAA
1 GAAAGAAAGAAAA
32772710 GAAAG--A-AAAA
1 GAAAGAAAGAAAA
*
32772720 GAAGGAAAGAAAA
1 GAAAGAAAGAAAA
*
32772733 GGAATGGAGAAGGGGAAAA
1 -GAA---AGAA--AGAAAA
*
32772752 AAAAGAAAGAAGAA
1 GAAAGAAAGAA-AA
32772766 GAAGAGGAAATGAGAAGAA
1 GAA-A-G-AA--AGAA-AA
*
32772785 AAAAGAAAGAAAAA
1 GAAAGAAAG-AAAA
*
32772799 GAAGGAAAGAAAA
1 GAAAGAAAGAAAA
32772812 GAAA
1 GAAA
32772816 AGGAGAAGAG
Statistics
Matches: 99, Mismatches: 16, Indels: 33
0.67 0.11 0.22
Matches are distributed among these distances:
10 7 0.07
11 1 0.01
12 10 0.10
13 30 0.30
14 18 0.18
15 7 0.07
16 3 0.03
17 6 0.06
18 3 0.03
19 14 0.14
ACGTcount: A:0.67, C:0.00, G:0.31, T:0.02
Consensus pattern (13 bp):
GAAAGAAAGAAAA
Found at i:32772840 original size:13 final size:14
Alignment explanation
Indices: 32772748--32772837 Score: 63
Period size: 17 Copynumber: 5.8 Consensus size: 14
32772738 GGAGAAGGGG
32772748 AAAAAAAAGAAAGA
1 AAAAAAAAGAAAGA
* *
32772762 AGAAGAAGAGGAAATGA
1 A-AA-AAAAAGAAA-GA
32772779 GAAGAAAAAAGAAAGA
1 -AA-AAAAAAGAAAGA
* *
32772795 AAAAGAAGGAAAGA
1 AAAAAAAAGAAAGA
32772809 AAAGAAAAGGAGAAGAGA
1 AAA-AAAA--AGAA-AGA
32772827 AAAAAAAAGAA
1 AAAAAAAAGAA
32772838 GAAGAGGGAA
Statistics
Matches: 59, Mismatches: 8, Indels: 17
0.70 0.10 0.20
Matches are distributed among these distances:
14 14 0.24
15 11 0.19
16 9 0.15
17 17 0.29
18 8 0.14
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (14 bp):
AAAAAAAAGAAAGA
Found at i:32772840 original size:18 final size:18
Alignment explanation
Indices: 32772761--32772843 Score: 71
Period size: 18 Copynumber: 4.6 Consensus size: 18
32772751 AAAAAGAAAG
** *
32772761 AAGAAGAAGAGGAAATGAG
1 AAGAAGAAGA-GAAAAAAA
* *
32772780 AAGAA-AAAAGAAAGAAA
1 AAGAAGAAGAGAAAAAAA
*
32772797 AAGAAGGAA-AGAAAAGAA
1 AAGAA-GAAGAGAAAAAAA
*
32772815 AAGGAGAAGAGAAAAAAA
1 AAGAAGAAGAGAAAAAAA
32772833 AAGAAGAAGAG
1 AAGAAGAAGAG
32772844 GGAAGGAAGG
Statistics
Matches: 52, Mismatches: 9, Indels: 7
0.76 0.13 0.10
Matches are distributed among these distances:
17 13 0.25
18 32 0.62
19 7 0.13
ACGTcount: A:0.70, C:0.00, G:0.29, T:0.01
Consensus pattern (18 bp):
AAGAAGAAGAGAAAAAAA
Found at i:32772857 original size:26 final size:25
Alignment explanation
Indices: 32772783--32772865 Score: 70
Period size: 26 Copynumber: 3.4 Consensus size: 25
32772773 AAATGAGAAG
*
32772783 AAAAAAG-AAA-GA-AAAAGAAGGA
1 AAAAAAGAAAAGGAGAAGAGAAGGA
32772805 AAGAAAAGAAAAGGAGAAGAGAA--A
1 AA-AAAAGAAAAGGAGAAGAGAAGGA
*
32772829 AAAAAAGAAGAAGAGGGAAG-GAAGGA
1 AAAAAAGAA-AAG-GAGAAGAGAAGGA
*
32772855 AAAAAATAAAA
1 AAAAAAGAAAA
32772866 AAAGGTAATT
Statistics
Matches: 50, Mismatches: 3, Indels: 13
0.76 0.05 0.20
Matches are distributed among these distances:
22 2 0.04
23 12 0.24
24 12 0.24
25 9 0.18
26 15 0.30
ACGTcount: A:0.72, C:0.00, G:0.27, T:0.01
Consensus pattern (25 bp):
AAAAAAGAAAAGGAGAAGAGAAGGA
Found at i:32772857 original size:41 final size:41
Alignment explanation
Indices: 32772738--32772857 Score: 106
Period size: 41 Copynumber: 3.0 Consensus size: 41
32772728 GAAAAGGAAT
* * *
32772738 GGAGAAGGGGAAAAAAAAGAAAGAAGA-AGAA-G-AGG-AAA
1 GGAGAAGAGAAAAAAAAAG-AAGAAGAGGGAAGGAAGGAAAA
* * * * * *
32772776 TGAGAAGA-AAAAAGAAAGAAAAAGAAGGAAAGAAAAGAAAA
1 GGAGAAGAGAAAAAAAAAGAAGAAG-AGGGAAGGAAGGAAAA
32772817 GGAGAAGAGAAAAAAAAAGAAGAAGAGGGAAGGAAGGAAAA
1 GGAGAAGAGAAAAAAAAAGAAGAAGAGGGAAGGAAGGAAAA
32772858 AAATAAAAAA
Statistics
Matches: 61, Mismatches: 15, Indels: 9
0.72 0.18 0.11
Matches are distributed among these distances:
36 5 0.08
37 9 0.15
38 8 0.13
40 2 0.03
41 23 0.38
42 14 0.23
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.01
Consensus pattern (41 bp):
GGAGAAGAGAAAAAAAAAGAAGAAGAGGGAAGGAAGGAAAA
Found at i:32772857 original size:46 final size:46
Alignment explanation
Indices: 32772747--32772837 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 46
32772737 TGGAGAAGGG
* * *
32772747 GAAAAA-AAAGAAAGAAGAAGAAGAGGAAATGAGAAGAAAAAAGAAA
1 GAAAAAGAAGGAAAGAA-AAGAAAAGGAAATGAGAAAAAAAAAGAAA
32772793 GAAAAAGAAGGAAAGAAAAGAAAAGGAGAA-GAGAAAAAAAAAGAA
1 GAAAAAGAAGGAAAGAAAAGAAAAGGA-AATGAGAAAAAAAAAGAA
32772838 GAAGAGGGAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
46 29 0.73
47 11 0.28
ACGTcount: A:0.73, C:0.00, G:0.26, T:0.01
Consensus pattern (46 bp):
GAAAAAGAAGGAAAGAAAAGAAAAGGAAATGAGAAAAAAAAAGAAA
Found at i:32772900 original size:17 final size:19
Alignment explanation
Indices: 32772871--32772907 Score: 60
Period size: 18 Copynumber: 2.1 Consensus size: 19
32772861 TAAAAAAAGG
32772871 TAATTTTTATTATAA-ATT
1 TAATTTTTATTATAATATT
32772889 TAATTTTT-TTATAATATT
1 TAATTTTTATTATAATATT
32772907 T
1 T
32772908 GTGTGTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 6 0.33
18 12 0.67
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (19 bp):
TAATTTTTATTATAATATT
Found at i:32773621 original size:27 final size:27
Alignment explanation
Indices: 32773591--32773646 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
32773581 AAAGAGGGTG
* *
32773591 ATGGAGGGGAATAAAAAGGCGGCACCA
1 ATGGAGAGGAATAAAAAGGCAGCACCA
32773618 ATGGAGAGGAATAAAAAGGCAGCACCA
1 ATGGAGAGGAATAAAAAGGCAGCACCA
32773645 AT
1 AT
32773647 ATGTGGCTAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.45, C:0.14, G:0.32, T:0.09
Consensus pattern (27 bp):
ATGGAGAGGAATAAAAAGGCAGCACCA
Found at i:32776390 original size:11 final size:11
Alignment explanation
Indices: 32776374--32776400 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
32776364 TTTATAACTT
32776374 AATTTGGATAC
1 AATTTGGATAC
32776385 AATTTGGATAC
1 AATTTGGATAC
32776396 AATTT
1 AATTT
32776401 AAGCATAAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.37, C:0.07, G:0.15, T:0.41
Consensus pattern (11 bp):
AATTTGGATAC
Found at i:32778669 original size:18 final size:18
Alignment explanation
Indices: 32778646--32778680 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
32778636 CCCAATGATC
32778646 GCCACCACCTTCTTCTTT
1 GCCACCACCTTCTTCTTT
32778664 GCCACCACCTTCTTCTT
1 GCCACCACCTTCTTCTT
32778681 CACCACCAAC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.11, C:0.46, G:0.06, T:0.37
Consensus pattern (18 bp):
GCCACCACCTTCTTCTTT
Found at i:32778686 original size:18 final size:18
Alignment explanation
Indices: 32778647--32778688 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
32778637 CCAATGATCG
**
32778647 CCACCACCTTCTTCTTTG
1 CCACCACCTTCTTCTTCA
32778665 CCACCACCTTCTTCTTCA
1 CCACCACCTTCTTCTTCA
32778683 CCACCA
1 CCACCA
32778689 ACCATATCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.17, C:0.50, G:0.02, T:0.31
Consensus pattern (18 bp):
CCACCACCTTCTTCTTCA
Found at i:32779552 original size:3 final size:3
Alignment explanation
Indices: 32779544--32779617 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
32779534 TCTTAATACT
32779544 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
1 AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC AAC
32779592 AAC AAC AAC AAC AAC AAC AAC AAC AA
1 AAC AAC AAC AAC AAC AAC AAC AAC AA
32779618 TAATAATAAT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.68, C:0.32, G:0.00, T:0.00
Consensus pattern (3 bp):
AAC
Found at i:32779622 original size:3 final size:3
Alignment explanation
Indices: 32779616--32779655 Score: 80
Period size: 3 Copynumber: 13.3 Consensus size: 3
32779606 CAACAACAAC
32779616 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
32779656 CTACTAACTA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 37 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:32779741 original size:19 final size:21
Alignment explanation
Indices: 32779714--32779752 Score: 55
Period size: 19 Copynumber: 2.0 Consensus size: 21
32779704 ACTAAAACAA
*
32779714 AAAATAAT-ACAA-AATATAC
1 AAAACAATAACAACAATATAC
32779733 AAAACAATAACAACAATATA
1 AAAACAATAACAACAATATA
32779753 ATCAATTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.69, C:0.13, G:0.00, T:0.18
Consensus pattern (21 bp):
AAAACAATAACAACAATATAC
Found at i:32779832 original size:3 final size:3
Alignment explanation
Indices: 32779826--32779880 Score: 101
Period size: 3 Copynumber: 18.3 Consensus size: 3
32779816 CCGCAGCGCC
32779826 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
1 TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT TCT
*
32779874 TTT TCT T
1 TCT TCT T
32779881 ATTTTTCTCC
Statistics
Matches: 50, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TCT
Found at i:32780001 original size:27 final size:27
Alignment explanation
Indices: 32779928--32780002 Score: 96
Period size: 27 Copynumber: 2.8 Consensus size: 27
32779918 AACACGAGTA
*
32779928 GTGCCGCCAATCAGTATGGCACCATTG
1 GTGCCGCCAATCACTATGGCACCATTG
** * *
32779955 GTGCCGCCAATGTCTTTGGCACCTTTG
1 GTGCCGCCAATCACTATGGCACCATTG
*
32779982 GTGCCGCCAATCACCATGGCA
1 GTGCCGCCAATCACTATGGCA
32780003 TGACCAGGGT
Statistics
Matches: 39, Mismatches: 9, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.19, C:0.32, G:0.25, T:0.24
Consensus pattern (27 bp):
GTGCCGCCAATCACTATGGCACCATTG
Found at i:32780106 original size:28 final size:28
Alignment explanation
Indices: 32780052--32780141 Score: 166
Period size: 28 Copynumber: 3.3 Consensus size: 28
32780042 TTTTTTTGGT
32780052 ATATTTTGGTAAAT-AAAAAAA-TTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
32780078 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
32780106 ATATTTTGGTAAATAAAAAAAAGTTATA
1 ATATTTTGGTAAATAAAAAAAAGTTATA
32780134 ATATTTTG
1 ATATTTTG
32780142 ATTATTTTTT
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
26 14 0.23
27 7 0.11
28 41 0.66
ACGTcount: A:0.51, C:0.00, G:0.10, T:0.39
Consensus pattern (28 bp):
ATATTTTGGTAAATAAAAAAAAGTTATA
Found at i:32781322 original size:101 final size:101
Alignment explanation
Indices: 32781188--32781613 Score: 535
Period size: 101 Copynumber: 4.1 Consensus size: 101
32781178 TAAATTAAAT
*
32781188 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACATAATCATAAATTACTAAC
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACCTAATCATAAATTACTAAC
32781253 AAAATAACTAT-AAATTA-TTTTTAAAAAATACATTAC
64 AAAATAACTATAAAATTATTTTTTAAAAAATACATTAC
*
32781289 TAAAAAATCACAAAACACTAAACTAAACCCTAACAATTTATATAACCTAATCATAAATTACTAAC
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACCTAATCATAAATTACTAAC
*
32781354 AAAATAACTATAAAATTATTTTTTTAAAAATTACATTAC
64 AAAATAACTATAAAATTA-TTTTTTAAAAAATACATTAC
* *
32781393 TAAAAAAATCACAAAACCCTAAACTAAACACTAATAATTTATAACCTAATCCCATAAATTACTAA
1 T-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAAT--CATAAATTACTAA
* **
32781458 CAAAATAAATAACTATAACATT-TTTTAAAAAATAAATTACATTAC
63 C---A-AAATAACTATAAAATTATTTT-TTAAA-AAA-TACATTAC
* * *
32781503 TAAAAAATAACAAAAGAC---A--AAACACTAACAATTTATAACCTAATCATAAACTACTAACAA
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTACTAACAA
*
32781563 AATAACTATAAAATTATTTTTTAAAAATTTACATTAC
66 AATAACTATAAAATTATTTTTTAAAAA-ATACATTAC
*
32781600 TAAAAACTCACAAA
1 TAAAAAATCACAAA
32781614 CACAACAATT
Statistics
Matches: 289, Mismatches: 21, Indels: 34
0.84 0.06 0.10
Matches are distributed among these distances:
97 22 0.08
98 18 0.06
99 5 0.02
101 74 0.26
102 19 0.07
103 11 0.04
104 45 0.16
105 46 0.16
106 1 0.00
107 4 0.01
108 4 0.01
109 31 0.11
110 9 0.03
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (101 bp):
TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACCTAATCATAAATTACTAACAA
AATAACTATAAAATTATTTTTTAAAAAATACATTAC
Found at i:32781407 original size:206 final size:201
Alignment explanation
Indices: 32781188--32781613 Score: 569
Period size: 206 Copynumber: 2.1 Consensus size: 201
32781178 TAAATTAAAT
32781188 TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATATAACATAAT-CATAAATTACTAA
1 TAAAAAATCACAAAACACTAAACTAAACACTAACAA-TT-TATAACATAATCCATAAATTACTAA
* *
32781252 C-A-AAATAACTATAA-ATTATTTT-TAAA-AAA-TACATTACTAAAAAATCACAAAACACTAAA
64 CAATAAATAACTATAACATT-TTTTAAAAATAAATTACATTACTAAAAAATAACAAAACAC---A
* *
32781311 CTAAACCCTAACAATTTATATAACCTAATCATAAATTACTAACAAAATAACTATAAAATTATTTT
125 --AAACACTAACAA-TT-TATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTA-TTT
32781376 TTTAAAAATTACATTAC
185 TTTAAAAATTACATTAC
* * *
32781393 TAAAAAAATCACAAAACCCTAAACTAAACACTAATAATTTATAACCTAATCCCATAAATTACTAA
1 T-AAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACATAAT-CCATAAATTACTAA
*
32781458 CAAAATAAATAACTATAACATTTTTTAAAAAATAAATTACATTACTAAAAAATAACAAAAGACAA
64 C--AATAAATAACTATAACATTTTTT-AAAAATAAATTACATTACTAAAAAATAACAAAACACAA
32781523 AACACTAACAATTTATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTATTTTTTAAA
126 AACACTAACAATTTATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTATTTTTTAAA
32781588 AATTTACATTAC
191 AA-TTACATTAC
*
32781600 TAAAAACTCACAAA
1 TAAAAAATCACAAA
32781614 CACAACAATT
Statistics
Matches: 199, Mismatches: 9, Indels: 25
0.85 0.04 0.11
Matches are distributed among these distances:
204 10 0.05
205 3 0.02
206 70 0.35
207 52 0.26
208 2 0.01
209 12 0.06
210 16 0.08
211 4 0.02
212 3 0.02
213 3 0.02
214 24 0.12
ACGTcount: A:0.55, C:0.16, G:0.00, T:0.29
Consensus pattern (201 bp):
TAAAAAATCACAAAACACTAAACTAAACACTAACAATTTATAACATAATCCATAAATTACTAACA
ATAAATAACTATAACATTTTTTAAAAATAAATTACATTACTAAAAAATAACAAAACACAAAACAC
TAACAATTTATAACCTAATCATAAACTACTAACAAAATAACTATAAAATTATTTTTTAAAAATTA
CATTAC
Found at i:32781665 original size:71 final size:72
Alignment explanation
Indices: 32781590--32781753 Score: 303
Period size: 72 Copynumber: 2.3 Consensus size: 72
32781580 TTTTTAAAAA
*
32781590 TTTACATTACTAAAAACTCAC-AAACACAACAATTTATAATAAATTGCTAACAAAATATTTAACA
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
32781654 AAATAAT
66 AAATAAT
32781661 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
1 TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
32781726 AAATAAT
66 AAATAAT
*
32781733 TTTACATTACTAAAAAATCAC
1 TTTACATTACTAAAAACTCAC
32781754 CAAATACTAA
Statistics
Matches: 90, Mismatches: 2, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
71 21 0.23
72 69 0.77
ACGTcount: A:0.54, C:0.16, G:0.01, T:0.30
Consensus pattern (72 bp):
TTTACATTACTAAAAACTCACAAAACACAACAATTTATAATAAATTACTAACAAAATATTTAACA
AAATAAT
Found at i:32781684 original size:41 final size:41
Alignment explanation
Indices: 32781639--32781759 Score: 100
Period size: 41 Copynumber: 3.2 Consensus size: 41
32781629 TAAATTGCTA
32781639 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
1 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
* * * ** *
32781680 ACAAAACA--CAAC--AAT--TTATA-A-TA--AATTACTA
1 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
*
32781711 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAAATC
1 ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
*
32781752 ACCAAATA
1 ACAAAATA
32781760 CTAAACTAAG
Statistics
Matches: 56, Mismatches: 14, Indels: 20
0.62 0.16 0.22
Matches are distributed among these distances:
31 12 0.21
33 5 0.09
34 1 0.02
35 7 0.12
37 7 0.12
38 1 0.02
39 5 0.09
41 18 0.32
ACGTcount: A:0.56, C:0.15, G:0.00, T:0.29
Consensus pattern (41 bp):
ACAAAATATTTAACAAAATAATTTTACATTACTAAAAACTC
Found at i:32781696 original size:34 final size:33
Alignment explanation
Indices: 32781590--32781696 Score: 81
Period size: 34 Copynumber: 3.1 Consensus size: 33
32781580 TTTTTAAAAA
32781590 TTTACATTACTAAAAACTCACAAACACAACAATT
1 TTTACATTACTAAAAACTCACAAACACAACAA-T
* * * ** * *
32781624 TATAATAAATTGCTAACAAAAT-ATTTAACAAAATAAT
1 T-T--TACATTACTAA-AAACTCA-CAAACACAACAAT
32781661 TTTACATTACTAAAAACTCACAAAACACAACAAT
1 TTTACATTACTAAAAACTCAC-AAACACAACAAT
32781695 TT
1 TT
32781697 ATAATAAATT
Statistics
Matches: 52, Mismatches: 14, Indels: 14
0.65 0.17 0.17
Matches are distributed among these distances:
33 4 0.08
34 22 0.42
35 1 0.02
36 1 0.02
37 12 0.23
38 12 0.23
ACGTcount: A:0.52, C:0.18, G:0.01, T:0.29
Consensus pattern (33 bp):
TTTACATTACTAAAAACTCACAAACACAACAAT
Found at i:32781734 original size:38 final size:38
Alignment explanation
Indices: 32781620--32781734 Score: 114
Period size: 38 Copynumber: 3.1 Consensus size: 38
32781610 CAAACACAAC
*
32781620 AATTTATAATAAATTGCTAACAAAATATTTAACAAAAT
1 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
* * *** * *
32781658 AA-TT-T--TACATTACTAA-AAACTCACAAAACACAAC
1 AATTTATAATAAATTACTAACAAAAT-ATTTAACAAAAT
32781692 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
1 AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
32781730 AATTT
1 AATTT
32781735 TACATTACTA
Statistics
Matches: 56, Mismatches: 15, Indels: 12
0.67 0.18 0.14
Matches are distributed among these distances:
33 4 0.07
34 18 0.32
35 2 0.04
36 2 0.04
37 2 0.04
38 24 0.43
39 4 0.07
ACGTcount: A:0.55, C:0.12, G:0.01, T:0.32
Consensus pattern (38 bp):
AATTTATAATAAATTACTAACAAAATATTTAACAAAAT
Found at i:32782022 original size:3 final size:3
Alignment explanation
Indices: 32782014--32782049 Score: 65
Period size: 3 Copynumber: 12.3 Consensus size: 3
32782004 CTTTCTTTCT
32782014 TTC TTC TTC TTC TTC TTC TTC TTC TTC TT- TTC TTC T
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC T
32782050 CATTTCTCTC
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 30 0.94
ACGTcount: A:0.00, C:0.31, G:0.00, T:0.69
Consensus pattern (3 bp):
TTC
Found at i:32782306 original size:27 final size:27
Alignment explanation
Indices: 32782232--32782315 Score: 123
Period size: 27 Copynumber: 3.1 Consensus size: 27
32782222 GTCATTCCAA
* * **
32782232 TGCCGCCTACCTGGCAGGCGCAACCAG
1 TGCCGCCTATCTGACAGGCGTGACCAG
32782259 TGCCGCCTATCTGACAGGCGTGACCAG
1 TGCCGCCTATCTGACAGGCGTGACCAG
*
32782286 TGCCGCCTATCTGACAGGCGTGACTAG
1 TGCCGCCTATCTGACAGGCGTGACCAG
32782313 TGC
1 TGC
32782316 TGCCAGTCCA
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 52 1.00
ACGTcount: A:0.18, C:0.35, G:0.30, T:0.18
Consensus pattern (27 bp):
TGCCGCCTATCTGACAGGCGTGACCAG
Found at i:32782637 original size:194 final size:194
Alignment explanation
Indices: 32782308--32782701 Score: 743
Period size: 194 Copynumber: 2.0 Consensus size: 194
32782298 GACAGGCGTG
* *
32782308 ACTAGTGCTGCCAGTCCATGCGGCGTCACACGCGCGGGTATTTTCAAACCCATATTTTGACCCGT
1 ACTAGTGCTGCCAGTCCATGCGACGTCACACGCGCGGGTATTTTCAAACCCATATTTTAACCCGT
32782373 TGACTGTATTTTGACCCGATATATATATAAATATTTTTTAAAATAAAATAATAATATTTTTTTAA
66 TGACTGTATTTTGACCCGATATATATATAAATATTTTTTAAAATAAAATAATAATATTTTTTTAA
32782438 GTAAAAAAATTCTTATAAAAAAATGTGGTAGCGCCTATGAGAAAGGCTCCACCCAAAAAAACTT
131 GTAAAAAAATTCTTATAAAAAAATGTGGTAGCGCCTATGAGAAAGGCTCCACCCAAAAAAACTT
* *
32782502 ACTAGTGCTGCCAGTCCATGTGACGTCACACGTGCGGGTATTTTCAAACCCATATTTTAACCCGT
1 ACTAGTGCTGCCAGTCCATGCGACGTCACACGCGCGGGTATTTTCAAACCCATATTTTAACCCGT
32782567 TGACTGTATTTTGACCCGATATATATATAAATATTTTTTAAAATAAAATAATAATATTTTTTTAA
66 TGACTGTATTTTGACCCGATATATATATAAATATTTTTTAAAATAAAATAATAATATTTTTTTAA
*
32782632 GTAAAAAAATTCTTATAAAAAAATGTGGTAGCGCCTATGAGAAATGCTCCACCCAAAAAAACTT
131 GTAAAAAAATTCTTATAAAAAAATGTGGTAGCGCCTATGAGAAAGGCTCCACCCAAAAAAACTT
32782696 ACTAGT
1 ACTAGT
32782702 TTAGTAAATA
Statistics
Matches: 195, Mismatches: 5, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
194 195 1.00
ACGTcount: A:0.36, C:0.18, G:0.14, T:0.32
Consensus pattern (194 bp):
ACTAGTGCTGCCAGTCCATGCGACGTCACACGCGCGGGTATTTTCAAACCCATATTTTAACCCGT
TGACTGTATTTTGACCCGATATATATATAAATATTTTTTAAAATAAAATAATAATATTTTTTTAA
GTAAAAAAATTCTTATAAAAAAATGTGGTAGCGCCTATGAGAAAGGCTCCACCCAAAAAAACTT
Found at i:32782812 original size:6 final size:6
Alignment explanation
Indices: 32782797--32782832 Score: 63
Period size: 6 Copynumber: 6.0 Consensus size: 6
32782787 AGAATAATTA
*
32782797 TATTTT TATTTC TATTTC TATTTC TATTTC TATTTC
1 TATTTC TATTTC TATTTC TATTTC TATTTC TATTTC
32782833 AATGTCTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.17, C:0.14, G:0.00, T:0.69
Consensus pattern (6 bp):
TATTTC
Found at i:32783254 original size:5 final size:6
Alignment explanation
Indices: 32783239--32783264 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
32783229 TTCAATGATA
32783239 AAAAAG AAAAAG AAAAAG AAAAAG AA
1 AAAAAG AAAAAG AAAAAG AAAAAG AA
32783265 TGTTTTTTCG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:32784840 original size:20 final size:19
Alignment explanation
Indices: 32784811--32784849 Score: 69
Period size: 20 Copynumber: 2.0 Consensus size: 19
32784801 TAGAAATAAC
32784811 TTTTAAGATTAGATTTGTG
1 TTTTAAGATTAGATTTGTG
32784830 TTTTGAAGATTAGATTTGTG
1 TTTT-AAGATTAGATTTGTG
32784850 CTTAAGTTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.26, C:0.00, G:0.23, T:0.51
Consensus pattern (19 bp):
TTTTAAGATTAGATTTGTG
Found at i:32793111 original size:146 final size:144
Alignment explanation
Indices: 32792847--32793280 Score: 769
Period size: 146 Copynumber: 3.0 Consensus size: 144
32792837 GAATCTCTAC
* *
32792847 TCTTTGCATGTCTGTGGAATTTGTTGGAATCTAAATTGTCTATTAACCAGTGATAGAATATAAAA
1 TCTTTGCATGTC--TGGAATTTGTTGGAATCTAAGTTTTCTATTAACCAGTGATAGAATATAAAA
32792912 ACAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAG
64 ACAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAG
32792977 AAACGGGAAATTGTAT
129 AAACGGGAAATTGTAT
32792993 TCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTTTCTATTAACCAGTGTGATAGAATATAAAA
1 TCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTTTCTATTAACCA--GTGATAGAATATAAAA
* *
32793058 ACACTGCAATTTCTATTAGACATGAAATTTTGTTCATAACCACGAGTATTAAGCTGACCAACAAG
64 ACAATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAG
32793123 AAACGGGAAATTGTAT
129 AAACGGGAAATTGTAT
32793139 TCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTTTCTATTAACCAGTGATAGAATATAAAAAC
1 TCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTTTCTATTAACCAGTGATAGAATATAAAAAC
* *
32793204 AGTGCAATTTCTATTAGACATGGAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAGAA
66 AATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAGAA
*
32793269 ACGGTAAATTGT
131 ACGGGAAATTGT
32793281 GTTTTTGAGC
Statistics
Matches: 278, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
144 124 0.45
146 154 0.55
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.33
Consensus pattern (144 bp):
TCTTTGCATGTCTGGAATTTGTTGGAATCTAAGTTTTCTATTAACCAGTGATAGAATATAAAAAC
AATGCAATTTCTATTAGACATGAAATTTTGTACATAACCACGAGTATTAAGCTGACCAACAAGAA
ACGGGAAATTGTAT
Found at i:32795207 original size:53 final size:53
Alignment explanation
Indices: 32795150--32795257 Score: 207
Period size: 53 Copynumber: 2.0 Consensus size: 53
32795140 ATTTCTCATT
*
32795150 TATCACTCAACCATTTTGAGCATATGATATACCGTTGTAAAGTTCTCATGGAG
1 TATCACTCAACCATTTTGAGCATATGATATACCATTGTAAAGTTCTCATGGAG
32795203 TATCACTCAACCATTTTGAGCATATGATATACCATTGTAAAGTTCTCATGGAG
1 TATCACTCAACCATTTTGAGCATATGATATACCATTGTAAAGTTCTCATGGAG
32795256 TA
1 TA
32795258 GAATATGAAA
Statistics
Matches: 54, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.31, C:0.19, G:0.16, T:0.34
Consensus pattern (53 bp):
TATCACTCAACCATTTTGAGCATATGATATACCATTGTAAAGTTCTCATGGAG
Found at i:32798290 original size:83 final size:83
Alignment explanation
Indices: 32798206--32798428 Score: 242
Period size: 84 Copynumber: 2.7 Consensus size: 83
32798196 AATTATATCA
* * * * *
32798206 AAATAAAATC-TATTAAATGGCGGAAATAAATCTCGAAACAGAATTATTTGA-TTACGTCTTTAT
1 AAATAAAATCTTGTTAAATGGCGGAAATAAATCTCGAAACAAAATTATTTAATTTAAGTC-TAAT
*
32798269 TTGGAAACAAAATAAAATC
65 TTAGAAACAAAATAAAATC
* ** *
32798288 AAATAAAATCTTGTTAAATGGCGTG-AATAAATC-CCAGAACATATTTTATTTAATTTAATTCTA
1 AAATAAAATCTTGTTAAATGGCG-GAAATAAATCTCGA-AACA-AAATTATTTAATTTAAGTCTA
32798351 ATTTAGAAACAAAATAAAATC
63 ATTTAGAAACAAAATAAAATC
32798372 AAATAAAATCTTGTTAAACT-GC-GAGAATAAATCTCGAAACAAAATTTTATTTAATTT
1 AAATAAAATCTTGTTAAA-TGGCGGA-AATAAATCTCGAAACAAAA--TTATTTAATTT
32798429 TAATTTCTCA
Statistics
Matches: 117, Mismatches: 13, Indels: 19
0.79 0.09 0.13
Matches are distributed among these distances:
82 13 0.11
83 24 0.21
84 61 0.52
85 19 0.16
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (83 bp):
AAATAAAATCTTGTTAAATGGCGGAAATAAATCTCGAAACAAAATTATTTAATTTAAGTCTAATT
TAGAAACAAAATAAAATC
Found at i:32798373 original size:84 final size:86
Alignment explanation
Indices: 32798267--32798433 Score: 252
Period size: 84 Copynumber: 2.0 Consensus size: 86
32798257 TTACGTCTTT
* *
32798267 ATTTGGAAACAAAATAAAATCAAATAAAATCTTGTTAAA-TGGCGTGAATAAATCCC-AGAAC-A
1 ATTTAGAAACAAAATAAAATCAAATAAAATCTTGTTAAACT-GCGAGAATAAATCCCGA-AACAA
*
32798329 TATTTTATTTAA-TTTAATTCTA
64 AATTTTATTTAATTTTAATTCTA
*
32798351 ATTTAGAAACAAAATAAAATCAAATAAAATCTTGTTAAACTGCGAGAATAAATCTCGAAACAAAA
1 ATTTAGAAACAAAATAAAATCAAATAAAATCTTGTTAAACTGCGAGAATAAATCCCGAAACAAAA
32798416 TTTTATTTAATTTTAATT
66 TTTTATTTAATTTTAATT
32798434 TCTCATTTTT
Statistics
Matches: 75, Mismatches: 4, Indels: 6
0.88 0.05 0.07
Matches are distributed among these distances:
84 54 0.72
85 14 0.19
86 7 0.09
ACGTcount: A:0.47, C:0.10, G:0.08, T:0.34
Consensus pattern (86 bp):
ATTTAGAAACAAAATAAAATCAAATAAAATCTTGTTAAACTGCGAGAATAAATCCCGAAACAAAA
TTTTATTTAATTTTAATTCTA
Found at i:32798508 original size:89 final size:84
Alignment explanation
Indices: 32798414--32798606 Score: 251
Period size: 85 Copynumber: 2.2 Consensus size: 84
32798404 CTCGAAACAA
* ** * *
32798414 AATTTTATTTAATTTTAATTTCTCATTTTTGGAAATAAAATAAAAATTTGGAATAAAATCGTTGA
1 AATTTTATTTAACTTTAATTTC-CA--GGTGGAAATAAAATAAAAA-ATGGAATAAAATCATTGA
* *
32798479 ATGGAGGGAATCAATCCCGAAAT
62 ACGGAGGGAATCAATCCCAAAAT
*
32798502 GAATTTTATTTACCTTTAATTTCCAGGTGGAAATAAAATAAAAAATGGAATAAAATCATTGAACG
1 -AATTTTATTTAACTTTAATTTCCAGGTGGAAATAAAATAAAAAATGGAATAAAATCATTGAACG
32798567 GAGGGAATCAATCCCAAAAT
65 GAGGGAATCAATCCCAAAAT
*
32798587 AGATTTTATTTACCTTTAAT
1 A-ATTTTATTTAACTTTAAT
32798607 CTCCCGTTTA
Statistics
Matches: 95, Mismatches: 8, Indels: 6
0.87 0.07 0.06
Matches are distributed among these distances:
84 1 0.01
85 55 0.58
86 17 0.18
88 2 0.02
89 20 0.21
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.35
Consensus pattern (84 bp):
AATTTTATTTAACTTTAATTTCCAGGTGGAAATAAAATAAAAAATGGAATAAAATCATTGAACGG
AGGGAATCAATCCCAAAAT
Found at i:32798570 original size:85 final size:86
Alignment explanation
Indices: 32798443--32798606 Score: 269
Period size: 85 Copynumber: 1.9 Consensus size: 86
32798433 TTCTCATTTT
* * * *
32798443 TGGAAATAAAATAAAAATTTGGAATAAAATCGTTGAATGGAGGGAATCAATCCCGAAAT-GAATT
1 TGGAAATAAAATAAAAATATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAATAG-ATT
32798507 TTATTTACCTTTAATTTCCAGG
65 TTATTTACCTTTAATTTCCAGG
32798529 TGGAAATAAAATAAAAA-ATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAATAGATTT
1 TGGAAATAAAATAAAAATATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAATAGATTT
32798593 TATTTACCTTTAAT
66 TATTTACCTTTAAT
32798607 CTCCCGTTTA
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
85 55 0.75
86 18 0.25
ACGTcount: A:0.44, C:0.10, G:0.16, T:0.30
Consensus pattern (86 bp):
TGGAAATAAAATAAAAATATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAATAGATTT
TATTTACCTTTAATTTCCAGG
Found at i:32798626 original size:85 final size:86
Alignment explanation
Indices: 32798445--32798629 Score: 259
Period size: 85 Copynumber: 2.2 Consensus size: 86
32798435 CTCATTTTTG
* * * *
32798445 GAAATAAAATAAAAATTTGGAATAAAATCGTTGAATGGAGGGAATCAATCCCGAAATGAATTTTA
1 GAAATAAAATAAAAATATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAATGAATTTTA
* *
32798510 TTTACCTTTAATTTCCAGGTG
66 TTTACCTTTAATCTCCAGGTA
32798531 GAAATAAAATAAAAA-ATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAAT-AGATTTT
1 GAAATAAAATAAAAATATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAATGA-ATTTT
* *
32798594 ATTTACCTTTAATCTCCCGTTTA
65 ATTTACCTTTAATCTCCAG-GTA
32798617 GAAAT-AAATAAAA
1 GAAATAAAATAAAA
32798630 TAGAGGAAAA
Statistics
Matches: 89, Mismatches: 8, Indels: 5
0.87 0.08 0.05
Matches are distributed among these distances:
84 1 0.01
85 67 0.75
86 21 0.24
ACGTcount: A:0.45, C:0.11, G:0.15, T:0.29
Consensus pattern (86 bp):
GAAATAAAATAAAAATATGGAATAAAATCATTGAACGGAGGGAATCAATCCCAAAATGAATTTTA
TTTACCTTTAATCTCCAGGTA
Found at i:32799799 original size:22 final size:24
Alignment explanation
Indices: 32799772--32799817 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
32799762 TTAGCGAACA
32799772 AAATA-TATAAATAT-AAATAAAC
1 AAATATTATAAATATAAAATAAAC
*
32799794 AAATATTTATATATATAAAATAAA
1 AAATA-TTATAAATATAAAATAAA
32799818 ATACAAATTG
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 5 0.25
24 8 0.40
25 7 0.35
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (24 bp):
AAATATTATAAATATAAAATAAAC
Found at i:32800739 original size:17 final size:16
Alignment explanation
Indices: 32800698--32800741 Score: 54
Period size: 16 Copynumber: 2.7 Consensus size: 16
32800688 AATAAGTGTT
32800698 TTAAAATTTAAAATAA
1 TTAAAATTTAAAATAA
*
32800714 TTAATATTTATAAAT-A
1 TTAAAATTTA-AAATAA
32800730 TTATAAATTTAA
1 TTA-AAATTTAA
32800742 TTTTAACCAC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATTTAAAATAA
Found at i:32803426 original size:24 final size:23
Alignment explanation
Indices: 32803363--32803443 Score: 90
Period size: 24 Copynumber: 3.2 Consensus size: 23
32803353 AATAAACAAA
32803363 TAAATAAATAGGTAATTAATTATT
1 TAAAT-AATAGGTAATTAATTATT
*
32803387 TAAATTAATTTGTAGGTAATTAATTGTT
1 TAAA-TAA----TAGGTAATTAATTATT
32803415 TAAATAGATAGGTAATTAATTATT
1 TAAATA-ATAGGTAATTAATTATT
32803439 TAAAT
1 TAAAT
32803444 GAATGATACA
Statistics
Matches: 49, Mismatches: 2, Indels: 12
0.78 0.03 0.19
Matches are distributed among these distances:
24 26 0.53
25 1 0.02
27 2 0.04
28 20 0.41
ACGTcount: A:0.44, C:0.00, G:0.11, T:0.44
Consensus pattern (23 bp):
TAAATAATAGGTAATTAATTATT
Found at i:32806245 original size:9 final size:9
Alignment explanation
Indices: 32806214--32806477 Score: 253
Period size: 9 Copynumber: 29.0 Consensus size: 9
32806204 AGTAAATTAA
*
32806214 ATAATTTAC
1 ATAACTTAC
*
32806223 ATAAACTTGC
1 AT-AACTTAC
* *
32806233 ATAAATTAA
1 ATAACTTAC
32806242 ATAACTTAC
1 ATAACTTAC
32806251 ATAACTTAC
1 ATAACTTAC
*
32806260 ATAACCTAC
1 ATAACTTAC
* *
32806269 ATAAATTAA
1 ATAACTTAC
32806278 ATAACTTAC
1 ATAACTTAC
*
32806287 ATAACCTAC
1 ATAACTTAC
* *
32806296 ATAAATTAA
1 ATAACTTAC
32806305 ATAACTTAC
1 ATAACTTAC
32806314 ATAACTTAC
1 ATAACTTAC
*
32806323 ATAAATTA-
1 ATAACTTAC
32806331 AGTAACTTAC
1 A-TAACTTAC
32806341 ATAACTTAC
1 ATAACTTAC
*
32806350 ATAAACTTGC
1 AT-AACTTAC
* *
32806360 ATAAATTAA
1 ATAACTTAC
32806369 ATAACTTAC
1 ATAACTTAC
32806378 ATAACTTAC
1 ATAACTTAC
*
32806387 ATAACCTAC
1 ATAACTTAC
* *
32806396 ATAAATTTC
1 ATAACTTAC
***
32806405 AATGGGTTAC
1 -ATAACTTAC
32806415 ATAACTTAC
1 ATAACTTAC
*
32806424 ATAACCTAC
1 ATAACTTAC
* *
32806433 ATAAATTAA
1 ATAACTTAC
32806442 ATAACTTAC
1 ATAACTTAC
32806451 ATAACTTAC
1 ATAACTTAC
*
32806460 ATAAATTA-
1 ATAACTTAC
32806468 AGTAACTTAC
1 A-TAACTTAC
32806478 CCGTGCAAAT
Statistics
Matches: 202, Mismatches: 46, Indels: 13
0.77 0.18 0.05
Matches are distributed among these distances:
8 2 0.01
9 179 0.89
10 21 0.10
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (9 bp):
ATAACTTAC
Found at i:32806272 original size:27 final size:27
Alignment explanation
Indices: 32806214--32806477 Score: 280
Period size: 27 Copynumber: 9.7 Consensus size: 27
32806204 AGTAAATTAA
* * * *
32806214 ATAATTTACATAAACTTGCATAAATTAA
1 ATAAATTACAT-AACTTACATAACTTAC
* *
32806242 ATAACTTACATAACTTACATAACCTAC
1 ATAAATTACATAACTTACATAACTTAC
* *
32806269 ATAAATTAAATAACTTACATAACCTAC
1 ATAAATTACATAACTTACATAACTTAC
*
32806296 ATAAATTAAATAACTTACATAACTTAC
1 ATAAATTACATAACTTACATAACTTAC
32806323 ATAAATTA-AGTAACTTACATAACTTAC
1 ATAAATTACA-TAACTTACATAACTTAC
* * *
32806350 ATAAACTTGCATAAATTAAATAACTTAC
1 ATAAA-TTACATAACTTACATAACTTAC
* * * *
32806378 ATAACTTACATAACCTACATAAATTTC
1 ATAAATTACATAACTTACATAACTTAC
*** *
32806405 AATGGGTTACATAACTTACATAACCTAC
1 -ATAAATTACATAACTTACATAACTTAC
*
32806433 ATAAATTAAATAACTTACATAACTTAC
1 ATAAATTACATAACTTACATAACTTAC
32806460 ATAAATTA-AGTAACTTAC
1 ATAAATTACA-TAACTTAC
32806478 CCGTGCAAAT
Statistics
Matches: 201, Mismatches: 30, Indels: 11
0.83 0.12 0.05
Matches are distributed among these distances:
26 2 0.01
27 147 0.73
28 51 0.25
29 1 0.00
ACGTcount: A:0.48, C:0.17, G:0.03, T:0.32
Consensus pattern (27 bp):
ATAAATTACATAACTTACATAACTTAC
Found at i:32809916 original size:21 final size:21
Alignment explanation
Indices: 32809890--32809935 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
32809880 AACTTAAAGT
*
32809890 AGAGGCGGCAGCGAGGGAAGC
1 AGAGGCCGCAGCGAGGGAAGC
32809911 AGAGGCCGCAGCGAGGGAAGC
1 AGAGGCCGCAGCGAGGGAAGC
32809932 AGAG
1 AGAG
32809936 CAGACCAAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.30, C:0.20, G:0.50, T:0.00
Consensus pattern (21 bp):
AGAGGCCGCAGCGAGGGAAGC
Found at i:32810302 original size:43 final size:42
Alignment explanation
Indices: 32810254--32810364 Score: 105
Period size: 42 Copynumber: 2.6 Consensus size: 42
32810244 GTATAAAAGT
* *
32810254 GCCACTAAAGAACATGTTCTTTAGCGGGGTTTTAAAAAAAAAC
1 GCCACTAAAGAACATGTTCTTTAGCGGCG-CTTAAAAAAAAAC
***** * *
32810297 GCCACTATTTTTCATGTTCTTTAGCGGCGCTTAAGAATAAAC
1 GCCACTAAAGAACATGTTCTTTAGCGGCGCTTAAAAAAAAAC
* * *
32810339 GTCGCGAAAGAACATGTTCTTTAGCG
1 GCCACTAAAGAACATGTTCTTTAGCG
32810365 ACGTTTTTAT
Statistics
Matches: 51, Mismatches: 17, Indels: 1
0.74 0.25 0.01
Matches are distributed among these distances:
42 28 0.55
43 23 0.45
ACGTcount: A:0.32, C:0.19, G:0.20, T:0.30
Consensus pattern (42 bp):
GCCACTAAAGAACATGTTCTTTAGCGGCGCTTAAAAAAAAAC
Found at i:32810383 original size:24 final size:24
Alignment explanation
Indices: 32810351--32810396 Score: 83
Period size: 24 Copynumber: 1.9 Consensus size: 24
32810341 CGCGAAAGAA
32810351 CATGTTCTTTAGCGACGTTTTTAT
1 CATGTTCTTTAGCGACGTTTTTAT
*
32810375 CATGTTCTTTAGCGGCGTTTTT
1 CATGTTCTTTAGCGACGTTTTT
32810397 CTTCTAAGCG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
24 21 1.00
ACGTcount: A:0.13, C:0.17, G:0.20, T:0.50
Consensus pattern (24 bp):
CATGTTCTTTAGCGACGTTTTTAT
Found at i:32810457 original size:42 final size:43
Alignment explanation
Indices: 32810375--32810481 Score: 180
Period size: 42 Copynumber: 2.5 Consensus size: 43
32810365 ACGTTTTTAT
* *
32810375 CATGTTCTTTAGCGGCGTTTTTCTTCTAAGCGCCGCTAAAGAA
1 CATGGTCTTTAGCGGCGTTTTTCTTCTAAGCACCGCTAAAGAA
*
32810418 CATGGTCTTTAGCGGCGTTTTT-TTCTAAGCACTGCTAAAGAA
1 CATGGTCTTTAGCGGCGTTTTTCTTCTAAGCACCGCTAAAGAA
32810460 CATGGTCTTTAGCGGCGTTTTT
1 CATGGTCTTTAGCGGCGTTTTT
32810482 GTTTGTAAAC
Statistics
Matches: 61, Mismatches: 3, Indels: 1
0.94 0.05 0.02
Matches are distributed among these distances:
42 40 0.66
43 21 0.34
ACGTcount: A:0.20, C:0.21, G:0.22, T:0.37
Consensus pattern (43 bp):
CATGGTCTTTAGCGGCGTTTTTCTTCTAAGCACCGCTAAAGAA
Found at i:32813955 original size:9 final size:9
Alignment explanation
Indices: 32813941--32813971 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
32813931 GTTAAACTAA
32813941 TCGAGTTAT
1 TCGAGTTAT
*
32813950 TCGAGTTAA
1 TCGAGTTAT
32813959 TCGAGTTAT
1 TCGAGTTAT
32813968 TCGA
1 TCGA
32813972 ATCAACTCGA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.26, C:0.13, G:0.23, T:0.39
Consensus pattern (9 bp):
TCGAGTTAT
Done.