Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
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: 12616935
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 32 of 51
Found at i:8204975 original size:17 final size:16
Alignment explanation
Indices: 8204953--8205012 Score: 50
Period size: 17 Copynumber: 3.4 Consensus size: 16
8204943 TTATTATTAC
8204953 ATTTATTATATATTA-TT
1 ATTTATTAT-T-TTATTT
8204970 ATTTATCTATTTTATTT
1 ATTTAT-TATTTTATTT
8204987 ATTTATTTCATTTTTATTT
1 ATTTA-TT-A-TTTTATTT
*
8205006 TTTTATT
1 ATTTATT
8205013 TCGGTCCAGG
Statistics
Matches: 37, Mismatches: 1, Indels: 9
0.79 0.02 0.19
Matches are distributed among these distances:
16 3 0.08
17 15 0.41
18 7 0.19
19 12 0.32
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
ATTTATTATTTTATTT
Found at i:8204984 original size:13 final size:12
Alignment explanation
Indices: 8204941--8205012 Score: 53
Period size: 13 Copynumber: 5.9 Consensus size: 12
8204931 ATTATATAGC
8204941 TTTTA-TTATTA
1 TTTTATTTATTA
*
8204952 CATTTA-TTATATA
1 -TTTTATTTAT-TA
8204965 TTATTATTTATCTA
1 TT-TTATTTAT-TA
8204979 TTTTATTTATTTA
1 TTTTATTTA-TTA
*
8204992 TTTCATTT-TTA
1 TTTTATTTATTA
8205003 TTTT-TTTATT
1 TTTTATTTATT
8205013 TCGGTCCAGG
Statistics
Matches: 50, Mismatches: 5, Indels: 11
0.76 0.08 0.17
Matches are distributed among these distances:
10 3 0.06
11 8 0.16
12 9 0.18
13 21 0.42
14 9 0.18
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.71
Consensus pattern (12 bp):
TTTTATTTATTA
Found at i:8205009 original size:27 final size:30
Alignment explanation
Indices: 8204957--8205013 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 30
8204947 TATTACATTT
8204957 ATTATATATTATTATTTATCTATTTTATTT
1 ATTATATATTATTATTTATCTATTTTATTT
*
8204987 ATT-TAT-TTCATT-TTTAT-TTTTTTATTT
1 ATTATATATT-ATTATTTATCTATTTTATTT
8205014 CGGTCCAGGT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
27 9 0.36
28 7 0.28
29 6 0.24
30 3 0.12
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (30 bp):
ATTATATATTATTATTTATCTATTTTATTT
Found at i:8206323 original size:10 final size:11
Alignment explanation
Indices: 8206304--8206328 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
8206294 AAATTTAATC
8206304 TTTTCTTTTTT
1 TTTTCTTTTTT
8206315 TTTTCTTTTTT
1 TTTTCTTTTTT
8206326 TTT
1 TTT
8206329 ATTTCGTTTC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.00, C:0.08, G:0.00, T:0.92
Consensus pattern (11 bp):
TTTTCTTTTTT
Found at i:8206380 original size:10 final size:10
Alignment explanation
Indices: 8206365--8206414 Score: 52
Period size: 10 Copynumber: 5.3 Consensus size: 10
8206355 ATTTTCTTAA
8206365 TTTATTTCTT
1 TTTATTTCTT
8206375 TTTATTTCTT
1 TTTATTTCTT
*
8206385 TTTA--TATT
1 TTTATTTCTT
*
8206393 TTTCTTTC-T
1 TTTATTTCTT
*
8206402 TTTACTTCTT
1 TTTATTTCTT
8206412 TTT
1 TTT
8206415 TTCTTATTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
8 6 0.19
9 7 0.22
10 19 0.59
ACGTcount: A:0.10, C:0.12, G:0.00, T:0.78
Consensus pattern (10 bp):
TTTATTTCTT
Found at i:8209695 original size:2 final size:2
Alignment explanation
Indices: 8209688--8209713 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
8209678 TGAGCCCCCA
8209688 CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT
8209714 TATCTAACCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:8209737 original size:49 final size:49
Alignment explanation
Indices: 8209665--8209762 Score: 187
Period size: 49 Copynumber: 2.0 Consensus size: 49
8209655 GAATGGTCGC
8209665 TATCTAACCCAAATGAGCCCCCACTCTCTCTCTCTCTCTCTCTCTCTCT
1 TATCTAACCCAAATGAGCCCCCACTCTCTCTCTCTCTCTCTCTCTCTCT
*
8209714 TATCTAACCCATATGAGCCCCCACTCTCTCTCTCTCTCTCTCTCTCTCT
1 TATCTAACCCAAATGAGCCCCCACTCTCTCTCTCTCTCTCTCTCTCTCT
8209763 CTTTCTCCAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 48 1.00
ACGTcount: A:0.15, C:0.45, G:0.04, T:0.36
Consensus pattern (49 bp):
TATCTAACCCAAATGAGCCCCCACTCTCTCTCTCTCTCTCTCTCTCTCT
Found at i:8209744 original size:2 final size:2
Alignment explanation
Indices: 8209737--8209769 Score: 57
Period size: 2 Copynumber: 16.5 Consensus size: 2
8209727 TGAGCCCCCA
*
8209737 CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
8209770 CAACATTTGT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:8211591 original size:60 final size:60
Alignment explanation
Indices: 8211484--8211600 Score: 155
Period size: 60 Copynumber: 1.9 Consensus size: 60
8211474 CATTTGACAC
* * * * *
8211484 GATGCCTTTAAGTTCCAAGGGAAGGTATTCAACTACGAGTTTCTTCGACCTCAATGTTGA
1 GATGCCTTCAAGTTCCAAGGGAAGGAATTCAACTACCAGCTTCTTCGACCTAAATGTTGA
* *
8211544 GATGCCTTCAAGTT-CAAGGGGAAGGAATTCAGCTACCAGCTTGTTCGACCTAAATGT
1 GATGCCTTCAAGTTCCAA-GGGAAGGAATTCAACTACCAGCTTCTTCGACCTAAATGT
8211601 CAACATTGTA
Statistics
Matches: 49, Mismatches: 7, Indels: 2
0.84 0.12 0.03
Matches are distributed among these distances:
59 3 0.06
60 46 0.94
ACGTcount: A:0.27, C:0.21, G:0.23, T:0.29
Consensus pattern (60 bp):
GATGCCTTCAAGTTCCAAGGGAAGGAATTCAACTACCAGCTTCTTCGACCTAAATGTTGA
Found at i:8213203 original size:39 final size:39
Alignment explanation
Indices: 8213120--8213203 Score: 96
Period size: 39 Copynumber: 2.2 Consensus size: 39
8213110 AAGGACATGT
* * *
8213120 GGTAAGGACTTACCCTGAGAAAAAAGTAGAGAAGCTTGC
1 GGTAAGGACTTACCCTGAGAAAAAAGCAGAGAAGCATAC
* * * *
8213159 GGTAAGGACTTACCTTGAGCACAAAGCAGAGGAGCATAC
1 GGTAAGGACTTACCCTGAGAAAAAAGCAGAGAAGCATAC
*
8213198 TGTAAG
1 GGTAAG
8213204 TTCTTACAAG
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.18
Consensus pattern (39 bp):
GGTAAGGACTTACCCTGAGAAAAAAGCAGAGAAGCATAC
Found at i:8216747 original size:15 final size:15
Alignment explanation
Indices: 8216727--8216763 Score: 56
Period size: 15 Copynumber: 2.5 Consensus size: 15
8216717 TAATGCCAAG
*
8216727 TCTGCTAGCTTACGA
1 TCTGCTAGCCTACGA
*
8216742 TCTGCTAGCCTACGG
1 TCTGCTAGCCTACGA
8216757 TCTGCTA
1 TCTGCTA
8216764 CTATCTTAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.16, C:0.30, G:0.22, T:0.32
Consensus pattern (15 bp):
TCTGCTAGCCTACGA
Found at i:8217075 original size:39 final size:39
Alignment explanation
Indices: 8216994--8217082 Score: 99
Period size: 39 Copynumber: 2.3 Consensus size: 39
8216984 AGACTTACGA
*
8216994 TAAGGACTTACCCTGAGAACAAACCAGAAGAACCTGCAG
1 TAAGGACTTACCCTGAGAACAAACCAGAAGAACCTACAG
* * * **
8217033 TAAGGACTTACCTTGAGCACAAAGCAG-AGAAGCCTATGG
1 TAAGGACTTACCCTGAGAACAAACCAGAAGAA-CCTACAG
*
8217072 TAAGGTCTTAC
1 TAAGGACTTAC
8217083 AAGTCATAAA
Statistics
Matches: 42, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
38 4 0.10
39 38 0.90
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.18
Consensus pattern (39 bp):
TAAGGACTTACCCTGAGAACAAACCAGAAGAACCTACAG
Found at i:8220168 original size:16 final size:16
Alignment explanation
Indices: 8220117--8220186 Score: 54
Period size: 16 Copynumber: 4.2 Consensus size: 16
8220107 TTTTATTGCA
*
8220117 TTTTTATATTTATCAT
1 TTTTTATATTTATAAT
* *
8220133 ATTTAATATCTTAATAAT
1 TTTTTATAT-TT-ATAAT
8220151 TTTTTATATATTAT-AT
1 TTTTTATAT-TTATAAT
*
8220167 TTTTAAT-TTTAATAAT
1 TTTTTATATTT-ATAAT
8220183 TTTT
1 TTTT
8220187 CAATTCTTTT
Statistics
Matches: 43, Mismatches: 7, Indels: 8
0.74 0.12 0.14
Matches are distributed among these distances:
14 2 0.05
15 3 0.07
16 21 0.49
17 4 0.09
18 13 0.30
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (16 bp):
TTTTTATATTTATAAT
Found at i:8220179 original size:32 final size:34
Alignment explanation
Indices: 8220117--8220186 Score: 101
Period size: 34 Copynumber: 2.1 Consensus size: 34
8220107 TTTTATTGCA
8220117 TTTTTATATTTATCATATTTAATATCTTAATAAT
1 TTTTTATATTTATCATATTTAATATCTTAATAAT
*
8220151 TTTTTATATATTAT-ATTTTTAAT-T-TTAATAAT
1 TTTTTATAT-TTATCATATTTAATATCTTAATAAT
8220183 TTTT
1 TTTT
8220187 CAATTCTTTT
Statistics
Matches: 34, Mismatches: 1, Indels: 4
0.87 0.03 0.10
Matches are distributed among these distances:
32 12 0.35
33 1 0.03
34 17 0.50
35 4 0.12
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (34 bp):
TTTTTATATTTATCATATTTAATATCTTAATAAT
Found at i:8220186 original size:17 final size:17
Alignment explanation
Indices: 8220143--8220191 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
8220133 ATTTAATATC
*
8220143 TTAATAATTTTTTATATA
1 TTAATAATTTTTTA-ATT
8220161 TT-AT-A-TTTTTAATT
1 TTAATAATTTTTTAATT
*
8220175 TTAATAATTTTTCAATT
1 TTAATAATTTTTTAATT
8220192 CTTTTAAAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
14 4 0.15
15 8 0.31
16 2 0.08
17 10 0.38
18 2 0.08
ACGTcount: A:0.35, C:0.02, G:0.00, T:0.63
Consensus pattern (17 bp):
TTAATAATTTTTTAATT
Found at i:8220314 original size:21 final size:21
Alignment explanation
Indices: 8220270--8220314 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
8220260 TCCATAATGT
* *
8220270 ATTGTTACAATAATATTATGG
1 ATTGTCACAATAATATTATAG
* *
8220291 ATTGTCACATTAATATTGTAG
1 ATTGTCACAATAATATTATAG
8220312 ATT
1 ATT
8220315 TTCATGTATG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.36, C:0.07, G:0.13, T:0.44
Consensus pattern (21 bp):
ATTGTCACAATAATATTATAG
Found at i:8221441 original size:22 final size:22
Alignment explanation
Indices: 8221391--8221443 Score: 79
Period size: 22 Copynumber: 2.4 Consensus size: 22
8221381 TTTGTGTAAG
* *
8221391 GCATGGACAAAAGTGCAGTGGG
1 GCATGGGCAAAAGTGCAGTGGA
*
8221413 GCATGGGCAAAAGTGTAGTGGA
1 GCATGGGCAAAAGTGCAGTGGA
8221435 GCATGGGCA
1 GCATGGGCA
8221444 TAAGATTTTC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.30, C:0.13, G:0.42, T:0.15
Consensus pattern (22 bp):
GCATGGGCAAAAGTGCAGTGGA
Found at i:8222742 original size:22 final size:22
Alignment explanation
Indices: 8222716--8222771 Score: 112
Period size: 22 Copynumber: 2.5 Consensus size: 22
8222706 CAAATAAAGA
8222716 AAATTTGAAAACAAACTCTACC
1 AAATTTGAAAACAAACTCTACC
8222738 AAATTTGAAAACAAACTCTACC
1 AAATTTGAAAACAAACTCTACC
8222760 AAATTTGAAAAC
1 AAATTTGAAAAC
8222772 CACCGTCTTC
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 34 1.00
ACGTcount: A:0.52, C:0.20, G:0.05, T:0.23
Consensus pattern (22 bp):
AAATTTGAAAACAAACTCTACC
Found at i:8222964 original size:15 final size:15
Alignment explanation
Indices: 8222946--8222980 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
8222936 ATATTACAAT
*
8222946 TAAAATATATAAAGA
1 TAAAATAGATAAAGA
*
8222961 TAAAATAGATAACGA
1 TAAAATAGATAAAGA
8222976 TAAAA
1 TAAAA
8222981 AAACAAAACT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.66, C:0.03, G:0.09, T:0.23
Consensus pattern (15 bp):
TAAAATAGATAAAGA
Found at i:8224180 original size:14 final size:14
Alignment explanation
Indices: 8224161--8224190 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
8224151 AAACTTTTTT
8224161 GTCAAAGTCAATGG
1 GTCAAAGTCAATGG
8224175 GTCAAAGTCAATGG
1 GTCAAAGTCAATGG
8224189 GT
1 GT
8224191 TAACTTAGAC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.33, C:0.13, G:0.30, T:0.23
Consensus pattern (14 bp):
GTCAAAGTCAATGG
Found at i:8228617 original size:3 final size:3
Alignment explanation
Indices: 8228592--8228641 Score: 57
Period size: 3 Copynumber: 16.0 Consensus size: 3
8228582 AATGTAACAG
*
8228592 AAT AATT AAT AAT ATAT ACT AAT AAT AAT AAT AAT AAT AATT AA- AAT
1 AAT AA-T AAT AAT A-AT AAT AAT AAT AAT AAT AAT AAT AA-T AAT AAT
8228639 AAT
1 AAT
8228642 GTTTTTGTAG
Statistics
Matches: 41, Mismatches: 2, Indels: 8
0.80 0.04 0.16
Matches are distributed among these distances:
2 2 0.05
3 30 0.73
4 9 0.22
ACGTcount: A:0.62, C:0.02, G:0.00, T:0.36
Consensus pattern (3 bp):
AAT
Found at i:8229276 original size:31 final size:32
Alignment explanation
Indices: 8229240--8229299 Score: 88
Period size: 31 Copynumber: 1.9 Consensus size: 32
8229230 AGAGATTAAA
*
8229240 TTTGTTTCAATG-GAAAC-GACTCAAAGATGGT
1 TTTGTTTCAA-GAGAAACAAACTCAAAGATGGT
8229271 TTTGTTTCAAGAGAAACAAACTCAAAGAT
1 TTTGTTTCAAGAGAAACAAACTCAAAGAT
8229300 TTTGTGTTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 1 0.04
31 15 0.58
32 10 0.38
ACGTcount: A:0.38, C:0.13, G:0.18, T:0.30
Consensus pattern (32 bp):
TTTGTTTCAAGAGAAACAAACTCAAAGATGGT
Found at i:8229317 original size:31 final size:31
Alignment explanation
Indices: 8229240--8229309 Score: 83
Period size: 31 Copynumber: 2.3 Consensus size: 31
8229230 AGAGATTAAA
*
8229240 TTTGTTTCAATG-GAAAC-GACTCAAAGATGGT
1 TTTGTTTCAA-GAGAAACAAACTCAAAGAT-GT
8229271 TTTGTTTCAAGAGAAACAAACTCAAAGAT-T
1 TTTGTTTCAAGAGAAACAAACTCAAAGATGT
8229301 TTGTGTTTC
1 TT-TGTTTC
8229310 CATAGAAATT
Statistics
Matches: 35, Mismatches: 1, Indels: 6
0.83 0.02 0.14
Matches are distributed among these distances:
30 4 0.11
31 21 0.60
32 10 0.29
ACGTcount: A:0.33, C:0.13, G:0.19, T:0.36
Consensus pattern (31 bp):
TTTGTTTCAAGAGAAACAAACTCAAAGATGT
Found at i:8229374 original size:30 final size:30
Alignment explanation
Indices: 8229340--8229396 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
8229330 AGACAAAATT
*
8229340 TGTTTCAATG-GAAACGATCTCAAAGATGGG
1 TGTTTCAA-GAGAAACGAACTCAAAGATGGG
*
8229370 TGTTTCAAGAGAAACTAACTCAAAGAT
1 TGTTTCAAGAGAAACGAACTCAAAGAT
8229397 TATAAATTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 1 0.04
30 23 0.96
ACGTcount: A:0.39, C:0.14, G:0.21, T:0.26
Consensus pattern (30 bp):
TGTTTCAAGAGAAACGAACTCAAAGATGGG
Found at i:8229679 original size:35 final size:35
Alignment explanation
Indices: 8229633--8229701 Score: 106
Period size: 35 Copynumber: 2.0 Consensus size: 35
8229623 ATTTCTCAAG
8229633 AAAATTGTCTCAAG-AGAGA-TACAACTTTGTTTTTA
1 AAAATTGTCTCAAGCA-AGATTAC-ACTTTGTTTTTA
8229668 AAAATTGTCTCAAGCAAGATTACACTTTGTTTTT
1 AAAATTGTCTCAAGCAAGATTACACTTTGTTTTT
8229702 TAGGAAGATA
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
35 28 0.88
36 4 0.12
ACGTcount: A:0.35, C:0.13, G:0.13, T:0.39
Consensus pattern (35 bp):
AAAATTGTCTCAAGCAAGATTACACTTTGTTTTTA
Found at i:8230058 original size:16 final size:16
Alignment explanation
Indices: 8230018--8230059 Score: 66
Period size: 16 Copynumber: 2.6 Consensus size: 16
8230008 TCCATGTATC
* *
8230018 ATGTATGTATGTGTTG
1 ATGTATGTTTGTATTG
8230034 ATGTATGTTTGTATTG
1 ATGTATGTTTGTATTG
8230050 ATGTATGTTT
1 ATGTATGTTT
8230060 TCTCAATCTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 24 1.00
ACGTcount: A:0.19, C:0.00, G:0.26, T:0.55
Consensus pattern (16 bp):
ATGTATGTTTGTATTG
Found at i:8232809 original size:16 final size:16
Alignment explanation
Indices: 8232757--8232810 Score: 58
Period size: 16 Copynumber: 3.4 Consensus size: 16
8232747 ATGCCAAAAA
8232757 AAATAATAAAAAAA-TC
1 AAAT-ATAAAAAAATTC
* *
8232773 AAACATAAAAAAGTGTC
1 AAATATAAAAAAAT-TC
8232790 -AATATAAAAAAATTC
1 AAATATAAAAAAATTC
8232805 AAATAT
1 AAATAT
8232811 CAAGCAAATA
Statistics
Matches: 31, Mismatches: 4, Indels: 6
0.76 0.10 0.15
Matches are distributed among these distances:
15 10 0.32
16 19 0.61
17 2 0.06
ACGTcount: A:0.67, C:0.07, G:0.04, T:0.22
Consensus pattern (16 bp):
AAATATAAAAAAATTC
Found at i:8233976 original size:6 final size:5
Alignment explanation
Indices: 8233944--8233969 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
8233934 TTTTGCAAAG
8233944 ATAAA ATAAA ATAAA ATAAA ATAAA A
1 ATAAA ATAAA ATAAA ATAAA ATAAA A
8233970 ATGAAAACAT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.81, C:0.00, G:0.00, T:0.19
Consensus pattern (5 bp):
ATAAA
Found at i:8234004 original size:27 final size:27
Alignment explanation
Indices: 8233973--8234035 Score: 67
Period size: 27 Copynumber: 2.3 Consensus size: 27
8233963 AATAAAAATG
8233973 AAAACATTGAAAAA-TACTCGAA-ATAA
1 AAAACATTGAAAAATTA-TCGAATATAA
* *
8233999 ATAAACGTGGAAAAATTATCGAATATAA
1 A-AAACATTGAAAAATTATCGAATATAA
8234027 AACAACATT
1 AA-AACATT
8234036 TATGCGAAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 6
0.74 0.10 0.15
Matches are distributed among these distances:
26 1 0.03
27 17 0.59
28 11 0.38
ACGTcount: A:0.57, C:0.11, G:0.10, T:0.22
Consensus pattern (27 bp):
AAAACATTGAAAAATTATCGAATATAA
Found at i:8236455 original size:15 final size:15
Alignment explanation
Indices: 8236396--8236458 Score: 83
Period size: 15 Copynumber: 4.2 Consensus size: 15
8236386 TAATAACGAC
*
8236396 GATGATGATGATGAT
1 GATGATGACGATGAT
8236411 GATGATGACGATGAT
1 GATGATGACGATGAT
*
8236426 GATGATGATGATGAT
1 GATGATGACGATGAT
*
8236441 GATG-TCGACGGTGAT
1 GATGAT-GACGATGAT
8236456 GAT
1 GAT
8236459 AATAATAATA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
14 1 0.02
15 42 0.98
ACGTcount: A:0.30, C:0.05, G:0.35, T:0.30
Consensus pattern (15 bp):
GATGATGACGATGAT
Found at i:8236458 original size:3 final size:3
Alignment explanation
Indices: 8236315--8236444 Score: 125
Period size: 3 Copynumber: 43.3 Consensus size: 3
8236305 TAATAATAAC
* *
8236315 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT AAT AAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
* * * * * * * * * * * *
8236363 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAC GAC GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
*
8236411 GAT GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT G
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT G
8236445 TCGACGGTGA
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 121 1.00
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:8236483 original size:33 final size:33
Alignment explanation
Indices: 8236457--8236542 Score: 109
Period size: 33 Copynumber: 2.6 Consensus size: 33
8236447 GACGGTGATG
8236457 ATAATAATAATAATAATAATGACGACGACGATA
1 ATAATAATAATAATAATAATGACGACGACGATA
* ** ** **
8236490 ATAATAATAATAATAATAATAATAATAATAATA
1 ATAATAATAATAATAATAATGACGACGACGATA
8236523 ATAATAATAATAATAATAAT
1 ATAATAATAATAATAATAAT
8236543 AATAATAATA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.62, C:0.03, G:0.05, T:0.30
Consensus pattern (33 bp):
ATAATAATAATAATAATAATGACGACGACGATA
Found at i:8236493 original size:3 final size:3
Alignment explanation
Indices: 8236487--8236554 Score: 136
Period size: 3 Copynumber: 22.7 Consensus size: 3
8236477 GACGACGACG
8236487 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
8236535 ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA AT
8236555 TGGCAACTTT
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 65 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:8237333 original size:69 final size:69
Alignment explanation
Indices: 8237222--8237358 Score: 274
Period size: 69 Copynumber: 2.0 Consensus size: 69
8237212 ATTCTCATGT
8237222 ATATATAACAATTATAATTACTGTGAACGCCAAGCACACAAGCATTGTGCTGCTTTTGTTTTTAT
1 ATATATAACAATTATAATTACTGTGAACGCCAAGCACACAAGCATTGTGCTGCTTTTGTTTTTAT
8237287 TTTG
66 TTTG
8237291 ATATATAACAATTATAATTACTGTGAACGCCAAGCACACAAGCATTGTGCTGCTTTTGTTTTTAT
1 ATATATAACAATTATAATTACTGTGAACGCCAAGCACACAAGCATTGTGCTGCTTTTGTTTTTAT
8237356 TTT
66 TTT
8237359 CCCTGTGTAA
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
69 68 1.00
ACGTcount: A:0.31, C:0.16, G:0.14, T:0.39
Consensus pattern (69 bp):
ATATATAACAATTATAATTACTGTGAACGCCAAGCACACAAGCATTGTGCTGCTTTTGTTTTTAT
TTTG
Found at i:8245522 original size:17 final size:18
Alignment explanation
Indices: 8245487--8245528 Score: 50
Period size: 17 Copynumber: 2.4 Consensus size: 18
8245477 ATTGTTTTTA
* *
8245487 AAATAAAAGATAAGCATT
1 AAATAAAAGAAAAGAATT
*
8245505 -AATAAAAGAAAATAATT
1 AAATAAAAGAAAAGAATT
8245522 AAATAAA
1 AAATAAA
8245529 TAATTTAAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
17 14 0.70
18 6 0.30
ACGTcount: A:0.69, C:0.02, G:0.07, T:0.21
Consensus pattern (18 bp):
AAATAAAAGAAAAGAATT
Found at i:8249385 original size:81 final size:81
Alignment explanation
Indices: 8249241--8249399 Score: 237
Period size: 81 Copynumber: 2.0 Consensus size: 81
8249231 TATAGTAATG
* * *
8249241 GTCATTGATCTTTTCTAAAGCTTTCATTTAGGTCCCCCAACTTTTAAAACTTGCAATACAGTCCC
1 GTCACTGAACTTTTCTAAAGCTTTCATTTAGGTCCCCCAACTTTTAAAACTTACAATACAGTCCC
*
8249306 CCAACATTTAGTCATA
66 CCAAAATTTAGTCATA
* * * *
8249322 GTCACTGAACTTTTCTAAATCTTTTATTTAGGTCCCCTAACTTTTAAAACTTACAGTACAGTCCC
1 GTCACTGAACTTTTCTAAAGCTTTCATTTAGGTCCCCCAACTTTTAAAACTTACAATACAGTCCC
*
8249387 TCAAAATTTAGTC
66 CCAAAATTTAGTC
8249400 TATTTGCAAT
Statistics
Matches: 69, Mismatches: 9, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 69 1.00
ACGTcount: A:0.29, C:0.25, G:0.09, T:0.37
Consensus pattern (81 bp):
GTCACTGAACTTTTCTAAAGCTTTCATTTAGGTCCCCCAACTTTTAAAACTTACAATACAGTCCC
CCAAAATTTAGTCATA
Found at i:8251097 original size:6 final size:6
Alignment explanation
Indices: 8251086--8251188 Score: 206
Period size: 6 Copynumber: 17.2 Consensus size: 6
8251076 CAAAGGCTAA
8251086 AATATG AATATG AATATG AATATG AATATG AATATG AATATG AATATG
1 AATATG AATATG AATATG AATATG AATATG AATATG AATATG AATATG
8251134 AATATG AATATG AATATG AATATG AATATG AATATG AATATG AATATG
1 AATATG AATATG AATATG AATATG AATATG AATATG AATATG AATATG
8251182 AATATG A
1 AATATG A
8251189 TGAATATATA
Statistics
Matches: 97, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 97 1.00
ACGTcount: A:0.50, C:0.00, G:0.17, T:0.33
Consensus pattern (6 bp):
AATATG
Found at i:8251365 original size:29 final size:29
Alignment explanation
Indices: 8251327--8251392 Score: 123
Period size: 29 Copynumber: 2.3 Consensus size: 29
8251317 CAAGCAACTT
*
8251327 ATTTATATAAATAGATAATAAAGATTATG
1 ATTTAGATAAATAGATAATAAAGATTATG
8251356 ATTTAGATAAATAGATAATAAAGATTATG
1 ATTTAGATAAATAGATAATAAAGATTATG
8251385 ATTTAGAT
1 ATTTAGAT
8251393 GTAAGTTGAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
29 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.12, T:0.38
Consensus pattern (29 bp):
ATTTAGATAAATAGATAATAAAGATTATG
Found at i:8251622 original size:23 final size:23
Alignment explanation
Indices: 8251572--8251618 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
8251562 TATTTTATGT
8251572 AATAAATTACTTTATATTTTTAA
1 AATAAATTACTTTATATTTTTAA
8251595 AATAAATTA-TTTAT-TTATTTAA
1 AATAAATTACTTTATATT-TTTAA
8251617 AA
1 AA
8251619 ATAATAAGAA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
21 2 0.09
22 12 0.52
23 9 0.39
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (23 bp):
AATAAATTACTTTATATTTTTAA
Found at i:8251905 original size:21 final size:21
Alignment explanation
Indices: 8251879--8251923 Score: 90
Period size: 21 Copynumber: 2.1 Consensus size: 21
8251869 CTCAAGTTGG
8251879 ACCTGGAAATTGTGGATTTGA
1 ACCTGGAAATTGTGGATTTGA
8251900 ACCTGGAAATTGTGGATTTGA
1 ACCTGGAAATTGTGGATTTGA
8251921 ACC
1 ACC
8251924 CGACTTGTAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.29, C:0.13, G:0.27, T:0.31
Consensus pattern (21 bp):
ACCTGGAAATTGTGGATTTGA
Found at i:8252425 original size:13 final size:13
Alignment explanation
Indices: 8252381--8252425 Score: 56
Period size: 13 Copynumber: 3.4 Consensus size: 13
8252371 TACTTTCTAT
8252381 ATTAATTATAATC
1 ATTAATTATAATC
*
8252394 CTTATATTATAAATC
1 ATTA-ATTAT-AATC
8252409 -TTAATTATAATC
1 ATTAATTATAATC
8252421 ATTAA
1 ATTAA
8252426 ATTAATTTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 6
0.80 0.03 0.17
Matches are distributed among these distances:
12 4 0.14
13 12 0.43
14 8 0.29
15 4 0.14
ACGTcount: A:0.44, C:0.09, G:0.00, T:0.47
Consensus pattern (13 bp):
ATTAATTATAATC
Found at i:8252500 original size:100 final size:100
Alignment explanation
Indices: 8252381--8252592 Score: 408
Period size: 100 Copynumber: 2.1 Consensus size: 100
8252371 TACTTTCTAT
8252381 ATTAA-TTATAATCCTTATATTATAAATCTTAATTATAATCATTAAATTAATTTCATTAAATAAT
1 ATTAACTTA-AATCCTTATATTATAAATCTTAATTATAATCATTAAATTAATTTCATTAAATAAT
8252445 TTATTTATTGAACATGATTTAATTAGATTATATAAA
65 TTATTTATTGAACATGATTTAATTAGATTATATAAA
8252481 ATTAACTTAAATCCTTATATTATAAATCTTAATTATAATCATTAAATTAATTTCATTAAATAATT
1 ATTAACTTAAATCCTTATATTATAAATCTTAATTATAATCATTAAATTAATTTCATTAAATAATT
8252546 TATTTATTGAACATGATTTAATTAGATTATATAAA
66 TATTTATTGAACATGATTTAATTAGATTATATAAA
8252581 ATTAACTTAAAT
1 ATTAACTTAAAT
8252593 ATTTATAAGT
Statistics
Matches: 111, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
100 108 0.97
101 3 0.03
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (100 bp):
ATTAACTTAAATCCTTATATTATAAATCTTAATTATAATCATTAAATTAATTTCATTAAATAATT
TATTTATTGAACATGATTTAATTAGATTATATAAA
Found at i:8255358 original size:21 final size:21
Alignment explanation
Indices: 8255334--8255384 Score: 84
Period size: 21 Copynumber: 2.4 Consensus size: 21
8255324 AGCTGAAGTT
*
8255334 ACTATAGCAATGCATCGGTAC
1 ACTATAGCAATACATCGGTAC
*
8255355 ACTATAGCAGTACATCGGTAC
1 ACTATAGCAATACATCGGTAC
8255376 ACTATAGCA
1 ACTATAGCA
8255385 CTGTTCATGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.24
Consensus pattern (21 bp):
ACTATAGCAATACATCGGTAC
Found at i:8255770 original size:30 final size:30
Alignment explanation
Indices: 8255734--8255796 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
8255724 AAGTCAACTC
8255734 ACCGAGTCAACCCATTAACCGTTAACTTTG
1 ACCGAGTCAACCCATTAACCGTTAACTTTG
* *
8255764 ACCGAGTCAACCCATTGACCGTTGACTTTG
1 ACCGAGTCAACCCATTAACCGTTAACTTTG
8255794 ACC
1 ACC
8255797 AAAAAATTCA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.27, C:0.32, G:0.16, T:0.25
Consensus pattern (30 bp):
ACCGAGTCAACCCATTAACCGTTAACTTTG
Found at i:8258516 original size:14 final size:12
Alignment explanation
Indices: 8258485--8258509 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8258475 ATATACACAC
8258485 ACTTATGTATAT
1 ACTTATGTATAT
8258497 ACTTATGTATAT
1 ACTTATGTATAT
8258509 A
1 A
8258510 TGTTTATATA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.36, C:0.08, G:0.08, T:0.48
Consensus pattern (12 bp):
ACTTATGTATAT
Found at i:8258576 original size:12 final size:12
Alignment explanation
Indices: 8258547--8258671 Score: 75
Period size: 12 Copynumber: 10.2 Consensus size: 12
8258537 TCATACATAA
8258547 ATACTTA-A-AT
1 ATACTTATATAT
* *
8258557 ATAGTTATGTAT
1 ATACTTATATAT
8258569 ATACTTATATAT
1 ATACTTATATAT
8258581 ACATATGCTTAT-TAT
1 --ATA--CTTATATAT
8258596 ATA-TATATATAT
1 ATACT-TATATAT
8258608 ATA-TATATATAT
1 ATACT-TATATAT
8258620 ATA-TATATATAT
1 ATACT-TATATAT
8258632 ATA-TATATATAT
1 ATACT-TATATAT
* * *
8258644 ATGTCATACATAT
1 AT-ACTTATATAT
8258657 ATACTTATATAT
1 ATACTTATATAT
8258669 ATA
1 ATA
8258672 ATTGTTTCAA
Statistics
Matches: 95, Mismatches: 10, Indels: 18
0.77 0.08 0.15
Matches are distributed among these distances:
10 7 0.07
11 3 0.03
12 63 0.66
13 11 0.12
14 3 0.03
15 3 0.03
16 5 0.05
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (12 bp):
ATACTTATATAT
Found at i:8258598 original size:2 final size:2
Alignment explanation
Indices: 8258593--8258671 Score: 115
Period size: 2 Copynumber: 39.0 Consensus size: 2
8258583 ATATGCTTAT
8258593 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
8258635 TA TA TA TA TA TG TCA TA CA TA TA TA CT- TA TA TA TA TA
1 TA TA TA TA TA TA T-A TA TA TA TA TA -TA TA TA TA TA TA
8258672 ATTGTTTCAA
Statistics
Matches: 70, Mismatches: 4, Indels: 6
0.88 0.05 0.08
Matches are distributed among these distances:
1 1 0.01
2 67 0.96
3 2 0.03
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (2 bp):
TA
Found at i:8259222 original size:290 final size:284
Alignment explanation
Indices: 8258756--8259276 Score: 647
Period size: 290 Copynumber: 1.8 Consensus size: 284
8258746 TAGTCCTTAC
* * * *
8258756 AATTATATCATAATATCCAAAACCTTATAAAATTGTGTTCCCAAGTTTTGAAATGAATGCAATTC
1 AATTAAATCATAATATCCAAAACCCTATAAAATTGTGTTCCAAACTTTTGAAATGAATGCAATTC
* * *
8258821 AGTCCATTTTTATATTAATTTTAGCTTCATATTTTACAATTATTTCGATTTGATCCCTCTGTGTT
66 AGT-CATTTTTATATTAATTTCAACTTCACATTTTACAATTATTTCGATTTGATCCCTCTGTGTT
* * * * *
8258886 GTTTAATTTATTTTAATTGTAATTTGTAATTTCATATTTGTTCAATTTAGTCCTTCAAGGTATAT
130 GTTTAATTTATTTAAATTGTAATTTCTAATTTCATATTTATTCAATTTAGTCCTTAAAAGTATAT
* * *
8258951 TTGTATAT-GAAATTGGCCCATACTTATTTATATTTTTTAATTTACTTCAAATCCTATAAATTAC
195 TT-T-TATCAAAATTGACCCATAATTATTTATATTTTTTAATTTACTTCAAATCCTATAAATTAC
8259015 ATAATAAATTTCATTTCAAATTCTATA
258 ATAATAAATTTCATTTCAAATTCTATA
* * * * *
8259042 AATTAAATCATAATCTCC-AAACCCTATAAACTT-TTTTCACAAACTTTTTAAATGGATGCAATT
1 AATTAAATCATAATATCCAAAACCCTATAAAATTGTGTTC-CAAACTTTTGAAATGAATGCAATT
* *
8259105 TAGT-ATATTTTATATTAATTTCAACTTCACA-TTTATAATTATTTCGATTTGATCCCTCATTCA
65 CAGTCAT-TTTTATATTAATTTCAACTTCACATTTTACAATTATTTCGATTTGAT-CC-C--TC-
* * ** *
8259168 TGCGTGTTTTTTAATTTATTTAAATTTTTGTTTCTAATTTCATGTTTATTCAATTTAGTCCTTAA
124 T--GTGTTGTTTAATTTATTTAAATTGTAATTTCTAATTTCATATTTATTCAATTTAGTCCTTAA
*
8259233 AATTATATTTTTATCAAAATTGACCCATAATTATTTATATTTTT
187 AAGTATATTTTTATCAAAATTGACCCATAATTATTTATATTTTT
8259277 ATGTAATTTA
Statistics
Matches: 197, Mismatches: 28, Indels: 17
0.81 0.12 0.07
Matches are distributed among these distances:
283 23 0.12
284 27 0.14
285 37 0.19
286 16 0.08
287 2 0.01
288 4 0.02
289 27 0.14
290 61 0.31
ACGTcount: A:0.32, C:0.13, G:0.07, T:0.48
Consensus pattern (284 bp):
AATTAAATCATAATATCCAAAACCCTATAAAATTGTGTTCCAAACTTTTGAAATGAATGCAATTC
AGTCATTTTTATATTAATTTCAACTTCACATTTTACAATTATTTCGATTTGATCCCTCTGTGTTG
TTTAATTTATTTAAATTGTAATTTCTAATTTCATATTTATTCAATTTAGTCCTTAAAAGTATATT
TTTATCAAAATTGACCCATAATTATTTATATTTTTTAATTTACTTCAAATCCTATAAATTACATA
ATAAATTTCATTTCAAATTCTATA
Found at i:8263163 original size:2 final size:2
Alignment explanation
Indices: 8263156--8263186 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
8263146 AGTCTGTTGG
8263156 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
8263187 AGAAATAGCT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:8274257 original size:18 final size:18
Alignment explanation
Indices: 8274231--8274273 Score: 77
Period size: 18 Copynumber: 2.4 Consensus size: 18
8274221 ATGTCGAAAC
8274231 GCACATATGACTCTCAAT
1 GCACATATGACTCTCAAT
*
8274249 GCACCTATGACTCTCAAT
1 GCACATATGACTCTCAAT
8274267 GCACATA
1 GCACATA
8274274 CAATATGCAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.26
Consensus pattern (18 bp):
GCACATATGACTCTCAAT
Found at i:8275107 original size:10 final size:10
Alignment explanation
Indices: 8275092--8275128 Score: 65
Period size: 10 Copynumber: 3.7 Consensus size: 10
8275082 AACCCATGGG
8275092 AATTTTCTAC
1 AATTTTCTAC
*
8275102 AATTTTCTAT
1 AATTTTCTAC
8275112 AATTTTCTAC
1 AATTTTCTAC
8275122 AATTTTC
1 AATTTTC
8275129 CAACTTATTT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.30, C:0.16, G:0.00, T:0.54
Consensus pattern (10 bp):
AATTTTCTAC
Found at i:8284830 original size:20 final size:21
Alignment explanation
Indices: 8284805--8284843 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 21
8284795 CTTATGATGG
8284805 CTCGAAAGACTTAC-AAGTTT
1 CTCGAAAGACTTACTAAGTTT
*
8284825 CTCGAAGGACTTACTAAGT
1 CTCGAAAGACTTACTAAGT
8284844 AAGAAACTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.33, C:0.21, G:0.18, T:0.28
Consensus pattern (21 bp):
CTCGAAAGACTTACTAAGTTT
Found at i:8285082 original size:42 final size:41
Alignment explanation
Indices: 8284969--8285082 Score: 113
Period size: 42 Copynumber: 2.7 Consensus size: 41
8284959 GCCCGAAGGT
* * * * *
8284969 CTTATGGATGGCCAGAAGGACTTATCATCTTCCTCGAAAGA
1 CTTATAGATGACCCGAAGGACTTATCATCATACTCGAAAGA
* * *
8285010 CTTATAGATGACCCGAAGGATTTAAGCATCATACTCGAGAGA
1 CTTATAGATGACCCGAAGGACTT-ATCATCATACTCGAAAGA
*
8285052 TTTACT-GATGACCCGAAGGACTTACTCATCA
1 CTTA-TAGATGACCCGAAGGACTTA-TCATCA
8285083 AGAAACCCTT
Statistics
Matches: 59, Mismatches: 11, Indels: 5
0.79 0.15 0.07
Matches are distributed among these distances:
41 20 0.34
42 38 0.64
43 1 0.02
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (41 bp):
CTTATAGATGACCCGAAGGACTTATCATCATACTCGAAAGA
Found at i:8285287 original size:53 final size:52
Alignment explanation
Indices: 8285136--8285921 Score: 435
Period size: 55 Copynumber: 14.8 Consensus size: 52
8285126 TTACAATTAT
* * * * *
8285136 CATCAAGAAACCCCTAAAAATTAGGCATACCTTATTTAAAATTCATTTAAAAA
1 CATCAAGAAA-CCCTAAAAATCAGGCTTAGCTTCTTTAAAATTCATTTGAAAA
* *
8285189 CATCAAGAAACCCTAAAAATCAAGCTTAGCTTCTTTCAAATTCATTTGAAAA
1 CATCAAGAAACCCTAAAAATCAGGCTTAGCTTCTTTAAAATTCATTTGAAAA
* * * *
8285241 CACCAAGAAACCTCTGAAAACCAGACTTAGCTTCATTT-AAATTCATTTGAAAA
1 CATCAAGAAACC-CTAAAAATCAGGCTTAGCTTC-TTTAAAATTCATTTGAAAA
* * *
8285294 CATCAAGAAACCCCTGAAAATCAGGCTTAGCTACTTTCAAATTCATTTGAAAA
1 CATCAAGAAA-CCCTAAAAATCAGGCTTAGCTTCTTTAAAATTCATTTGAAAA
* *
8285347 CATCAAGAAACCCATACAAATTAGGCTTAGCTTCTTTAAAATTCATTTG-AAA
1 CATCAAGAAACCC-TAAAAATCAGGCTTAGCTTCTTTAAAATTCATTTGAAAA
*
8285399 CATCAAGAAGCCCCTAAAAA-CTAGGCTTAGCTTC-------TTCATTTGAAAA
1 CATCAAGAA-ACCCTAAAAATC-AGGCTTAGCTTCTTTAAAATTCATTTGAAAA
* * *
8285445 CATCAAGAAACCCATGAAAATCAGGCTTAACTTCTTTCAAAAATTCATTGGAAAA
1 CATCAAGAAACCC-TAAAAATCAGGCTTAGCTTCTTT--AAAATTCATTTGAAAA
* **
8285500 -ATCATTTAGAAACCCCTGAAAAATCTGGCTTAGCTTCTTTATAAATTCACCATG----
1 CATCA---AGAAA-CCCT-AAAAATCAGGCTTAGCTTCTTTA-AAATTCA-TTTGAAAA
* * * *
8285554 --TCAAGAAACCTCTAAAAATTAGATGC--AGTTTCTTTGAAAACTCATTTAAAAA
1 CATCAAGAAACC-CTAAAAATCAG--GCTTAGCTTCTTT-AAAATTCATTTGAAAA
* * * * * *
8285606 TCATCAAGAAACTTCTGAAAATTAGACTTAGTTTCTTTAAAAACTCATTTGAAAA
1 -CATCAAGAAAC-CCTAAAAATCAGGCTTAGCTTCTTT-AAAATTCATTTGAAAA
* * * ** * * * *
8285661 CCGTCAAGAAACTTCTGAAAATCAAACTTAGTTTCCTTAAAAGCTCATTTAAAAA
1 -CATCAAGAAAC-CCTAAAAATCAGGCTTAGCTTCTTTAAAA-TTCATTTGAAAA
* * * * * *
8285716 TCATCAATAAACTTCTGAAAATCAGGCATAGTTTCTTTAAAATCTCATTT-AAACT
1 -CATCAAGAAAC-CCTAAAAATCAGGCTTAGCTTCTTTAAAAT-TCATTTGAAA-A
* * * * * * ** *
8285771 CGTCAAGATACTTCTGAAAATCAGACTTAGTTTCTTTGAAAGCTCATCTGAAAA
1 CATCAAGAAAC-CCTAAAAATCAGGCTTAGCTTCTTT-AAAATTCATTTGAAAA
* * ** * * * **
8285825 TCGTAAAGAAACTTTTGAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTGAAAA
1 -CATCAAGAAAC-CCTAAAAATCAGGCTTAGCTTCTTT-AAAATTCATTTGAAAA
** * * *
8285880 TTGTCAAGAAACTTCTGAAAAAT-AGACTTAGTTTCTTTAAAA
1 -CATCAAGAAAC-CCT-AAAAATCAGGCTTAGCTTCTTTAAAA
8285922 ACTCATTTTA
Statistics
Matches: 607, Mismatches: 79, Indels: 93
0.78 0.10 0.12
Matches are distributed among these distances:
45 11 0.02
46 28 0.05
47 1 0.00
48 1 0.00
49 23 0.04
50 8 0.01
51 2 0.00
52 81 0.13
53 131 0.22
54 56 0.09
55 223 0.37
56 6 0.01
57 13 0.02
58 23 0.04
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.31
Consensus pattern (52 bp):
CATCAAGAAACCCTAAAAATCAGGCTTAGCTTCTTTAAAATTCATTTGAAAA
Found at i:8285340 original size:106 final size:106
Alignment explanation
Indices: 8285136--8285879 Score: 460
Period size: 109 Copynumber: 7.0 Consensus size: 106
8285126 TTACAATTAT
* * * * * * *
8285136 CATCAAGAAACCCCTAAAAATTAGGCATACCTTATTTAAAATTCATTTAAAAACATCAAGAAA-C
1 CATCAAGAAACCCATGAAAATCAGGCTTAGCTTCTTTAAAATTCATTTGAAAACATCAAGAAACC
* *
8285200 CCTAAAAATCAAGCTTAGCTTCTTTCAAATTCATTTGAAAA
66 CCTGAAAATCAGGCTTAGCTTCTTTCAAATTCATTTGAAAA
* * *
8285241 CACCAAGAAACCTC-TGAAAACCAGACTTAGCTTCATTT-AAATTCATTTGAAAACATCAAGAAA
1 CATCAAGAAACC-CATGAAAATCAGGCTTAGCTTC-TTTAAAATTCATTTGAAAACATCAAGAAA
*
8285304 CCCCTGAAAATCAGGCTTAGCTACTTTCAAATTCATTTGAAAA
64 CCCCTGAAAATCAGGCTTAGCTTCTTTCAAATTCATTTGAAAA
* *
8285347 CATCAAGAAACCCAT-ACAAATTAGGCTTAGCTTCTTTAAAATTCATTTG-AAACATCAAGAAGC
1 CATCAAGAAACCCATGA-AAATCAGGCTTAGCTTCTTTAAAATTCATTTGAAAACATCAAGAAAC
*
8285410 CCCT-AAAAACTAGGCTTAG---C-TTC---TTCATTTGAAAA
65 CCCTGAAAATC-AGGCTTAGCTTCTTTCAAATTCATTTGAAAA
* *
8285445 CATCAAGAAACCCATGAAAATCAGGCTTAACTTCTTTCAAAAATTCATTGGAAAA-ATCATTTAG
1 CATCAAGAAACCCATGAAAATCAGGCTTAGCTTCTTT--AAAATTCATTTGAAAACATCA---AG
* * **
8285509 AAACCCCTGAAAAATCTGGCTTAGCTTCTTTATAAATTCACCATG----
61 AAACCCCTG-AAAATCAGGCTTAGCTTCTTT-CAAATTCA-TTTGAAAA
* * * * *
8285554 --TCAAGAAACCTC-TAAAAATTAGATGC--AGTTTCTTTGAAAACTCATTTAAAAATCATCAAG
1 CATCAAGAAACC-CATGAAAATCAG--GCTTAGCTTCTTT-AAAATTCATTTGAAAA-CATCAAG
** * * * * *
8285614 AAACTTCTGAAAATTAGACTTAGTTTCTTTAAAAACTCATTTGAAAA
61 AAACCCCTGAAAATCAGGCTTAGCTTCTTT-CAAATTCATTTGAAAA
* * ** * * * * *
8285661 CCGTCAAGAAACTTC-TGAAAATCAAACTTAGTTTCCTTAAAAGCTCATTTAAAAATCATCAATA
1 -CATCAAGAAAC-CCATGAAAATCAGGCTTAGCTTCTTTAAAA-TTCATTTGAAAA-CATCAAGA
** * * * *
8285725 AACTTCTGAAAATCAGGCATAGTTTCTTTAAAATCTCATTT-AAACT
62 AACCCCTGAAAATCAGGCTTAGCTTCTTTCAAAT-TCATTTGAAA-A
* * * * * ** * * *
8285771 CGTCAAGATACTTC-TGAAAATCAGACTTAGTTTCTTTGAAAGCTCATCTGAAAATCGTAAAGAA
1 CATCAAGAAAC-CCATGAAAATCAGGCTTAGCTTCTTT-AAAATTCATTTGAAAA-CATCAAGAA
*** * * * *
8285835 ACTTTTGAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTGAAAA
63 ACCCCTGAAAATCAGGCTTAGCTTCTTTCAAA-TTCATTTGAAAA
8285880 TTGTCAAGAA
Statistics
Matches: 521, Mismatches: 72, Indels: 88
0.77 0.11 0.13
Matches are distributed among these distances:
98 45 0.09
99 1 0.00
100 15 0.03
101 6 0.01
102 1 0.00
103 11 0.02
104 36 0.07
105 92 0.18
106 93 0.18
107 26 0.05
108 8 0.02
109 98 0.19
110 83 0.16
112 4 0.01
113 2 0.00
ACGTcount: A:0.40, C:0.19, G:0.10, T:0.30
Consensus pattern (106 bp):
CATCAAGAAACCCATGAAAATCAGGCTTAGCTTCTTTAAAATTCATTTGAAAACATCAAGAAACC
CCTGAAAATCAGGCTTAGCTTCTTTCAAATTCATTTGAAAA
Found at i:8285439 original size:45 final size:46
Alignment explanation
Indices: 8285388--8285480 Score: 127
Period size: 46 Copynumber: 2.0 Consensus size: 46
8285378 TTCTTTAAAA
* * *
8285388 TTCATTTG-AAACATCAAGAAGCCCCTAAAAA-CTAGGCTTAGCTTC
1 TTCATTTGAAAACATCAAGAAACCCATAAAAATC-AGGCTTAACTTC
*
8285433 TTCATTTGAAAACATCAAGAAACCCATGAAAATCAGGCTTAACTTC
1 TTCATTTGAAAACATCAAGAAACCCATAAAAATCAGGCTTAACTTC
8285479 TT
1 TT
8285481 TCAAAAATTC
Statistics
Matches: 42, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
45 8 0.19
46 33 0.79
47 1 0.02
ACGTcount: A:0.38, C:0.23, G:0.12, T:0.28
Consensus pattern (46 bp):
TTCATTTGAAAACATCAAGAAACCCATAAAAATCAGGCTTAACTTC
Found at i:8285639 original size:55 final size:55
Alignment explanation
Indices: 8285553--8286096 Score: 657
Period size: 55 Copynumber: 9.9 Consensus size: 55
8285543 AATTCACCAT
* * * *
8285553 GTCAAGAAACCTCTAAAAATTAGA-TGCAGTTTCTTTGAAAACTCATTTAAAAATC
1 GTCAAGAAACTTCTGAAAATCAGACT-TAGTTTCTTTGAAAACTCATTTAAAAATC
* * * * *
8285608 ATCAAGAAACTTCTGAAAATTAGACTTAGTTTCTTTAAAAACTCATTTGAAAACC
1 GTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATC
* *
8285663 GTCAAGAAACTTCTGAAAATCAAACTTAGTTTCCTT-AAAAGCTCATTTAAAAATC
1 GTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAA-CTCATTTAAAAATC
* * * * *
8285718 ATCAATAAACTTCTGAAAATCAGGCATAGTTTCTTT-AAAATCTCATTT-AAACTC
1 GTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAA-CTCATTTAAAAATC
* * * *
8285772 GTCAAGATACTTCTGAAAATCAGACTTAGTTTCTTTGAAAGCTCATCTGAAAATC
1 GTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATC
* * * * *
8285827 GTAAAGAAACTTTTGAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTGAAAATT
1 GTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATC
* * * *
8285882 GTCAAGAAACTTCTGAAAAAT-AGACTTAGTTTCTTTAAAAACTCATTTTAGATTC
1 GTCAAGAAACTTCTG-AAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATC
* * **
8285937 GTCAAGAAACTTATGAAAATCAGACTTAGTTTCTTTGAAAGCTTTTTTAAAAATC
1 GTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATC
* **
8285992 GTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTGGAAATC
1 GTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATC
* * * *
8286047 GTCACGAAACTTCTGAAAATCAGACCTAGTTTCTTTGAATACTTATTTAA
1 GTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAA
8286097 GAACATAACA
Statistics
Matches: 421, Mismatches: 62, Indels: 12
0.85 0.13 0.02
Matches are distributed among these distances:
54 51 0.12
55 364 0.86
56 6 0.01
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.34
Consensus pattern (55 bp):
GTCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAACTCATTTAAAAATC
Found at i:8288187 original size:12 final size:11
Alignment explanation
Indices: 8288170--8288230 Score: 52
Period size: 12 Copynumber: 5.3 Consensus size: 11
8288160 CTTGATCGAT
8288170 TTTCTTTCTTTC
1 TTTCTTT-TTTC
*
8288182 TTTCTTATTTTT
1 TTTCTT-TTTTC
8288194 TTTCTTTTTTC
1 TTTCTTTTTTC
8288205 TTATTCTTTTTT-
1 -T-TTCTTTTTTC
* *
8288217 TATGTTTTTTC
1 TTTCTTTTTTC
8288228 TTT
1 TTT
8288231 TTGCTTCTAT
Statistics
Matches: 40, Mismatches: 5, Indels: 9
0.74 0.09 0.17
Matches are distributed among these distances:
10 7 0.17
11 7 0.17
12 16 0.40
13 10 0.25
ACGTcount: A:0.05, C:0.13, G:0.02, T:0.80
Consensus pattern (11 bp):
TTTCTTTTTTC
Found at i:8288204 original size:23 final size:23
Alignment explanation
Indices: 8288169--8288230 Score: 72
Period size: 23 Copynumber: 2.7 Consensus size: 23
8288159 ACTTGATCGA
*
8288169 TTTTCTTTCTTTCTTTCTTATTTT
1 TTTTCTTT-TTTCTTTATTATTTT
*
8288193 TTTTCTTTTTTC-TTATTCTTTT
1 TTTTCTTTTTTCTTTATTATTTT
*
8288215 TTTATGTTTTTTCTTT
1 TTT-TCTTTTTTCTTT
8288231 TTGCTTCTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
22 11 0.33
23 12 0.36
24 10 0.30
ACGTcount: A:0.05, C:0.13, G:0.02, T:0.81
Consensus pattern (23 bp):
TTTTCTTTTTTCTTTATTATTTT
Found at i:8288206 original size:19 final size:20
Alignment explanation
Indices: 8288168--8288216 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
8288158 TACTTGATCG
*
8288168 ATTTTCTTTCTTTCTTTCTT
1 ATTTTTTTTCTTTCTTTCTT
8288188 ATTTTTTTTCTTT-TTTCTT
1 ATTTTTTTTCTTTCTTTCTT
8288207 ATTCTTTTTT
1 ATT-TTTTTT
8288217 TATGTTTTTT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
19 9 0.33
20 18 0.67
ACGTcount: A:0.06, C:0.14, G:0.00, T:0.80
Consensus pattern (20 bp):
ATTTTTTTTCTTTCTTTCTT
Found at i:8294316 original size:11 final size:11
Alignment explanation
Indices: 8294300--8294332 Score: 57
Period size: 11 Copynumber: 3.0 Consensus size: 11
8294290 AGTACTATTA
8294300 TTTTCAAATTC
1 TTTTCAAATTC
8294311 TTTTCAAATTC
1 TTTTCAAATTC
*
8294322 TTTTAAAATTC
1 TTTTCAAATTC
8294333 ATCTTAACTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.30, C:0.15, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTCAAATTC
Found at i:8301168 original size:21 final size:21
Alignment explanation
Indices: 8301130--8301187 Score: 80
Period size: 21 Copynumber: 2.7 Consensus size: 21
8301120 CTACTTGCAG
* *
8301130 TATCGATACCCTAGGGTCAAT
1 TATCGATACTCTATGGTCAAT
*
8301151 TATTGATACTCTATGGTCAAT
1 TATCGATACTCTATGGTCAAT
8301172 TATCGATACTCCTATG
1 TATCGATACT-CTATG
8301188 AGTATTGGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
21 27 0.84
22 5 0.16
ACGTcount: A:0.28, C:0.21, G:0.16, T:0.36
Consensus pattern (21 bp):
TATCGATACTCTATGGTCAAT
Found at i:8301296 original size:21 final size:21
Alignment explanation
Indices: 8301270--8301350 Score: 126
Period size: 21 Copynumber: 3.9 Consensus size: 21
8301260 ATACTACAGG
8301270 GGCAGTATGGATACTCCCCTA
1 GGCAGTATGGATACTCCCCTA
8301291 GGCAGTATGGATACTCCCCTA
1 GGCAGTATGGATACTCCCCTA
* *
8301312 GGTAGTATGGATACTCCCCTT
1 GGCAGTATGGATACTCCCCTA
* *
8301333 GGAAGTATCGATACTCCC
1 GGCAGTATGGATACTCCC
8301351 TTATGAAATC
Statistics
Matches: 56, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 56 1.00
ACGTcount: A:0.23, C:0.27, G:0.23, T:0.26
Consensus pattern (21 bp):
GGCAGTATGGATACTCCCCTA
Found at i:8306313 original size:21 final size:23
Alignment explanation
Indices: 8306270--8306315 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 23
8306260 CATACCCGAA
*
8306270 ATATCATTCATGATAAATATCAT
1 ATATCATTCATGATAAACATCAT
*
8306293 ATAT-ATTCATGAT-AACGTCAT
1 ATATCATTCATGATAAACATCAT
8306314 AT
1 AT
8306316 GTAACGAATA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 8 0.38
22 9 0.43
23 4 0.19
ACGTcount: A:0.41, C:0.13, G:0.07, T:0.39
Consensus pattern (23 bp):
ATATCATTCATGATAAACATCAT
Found at i:8306513 original size:24 final size:24
Alignment explanation
Indices: 8306481--8306529 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
8306471 TTATGTGTAA
8306481 CACCTAAAACCCATATAATTATAC
1 CACCTAAAACCCATATAATTATAC
8306505 CACCTAAAACCCATATAATTATAC
1 CACCTAAAACCCATATAATTATAC
8306529 C
1 C
8306530 CATATAAATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.45, C:0.31, G:0.00, T:0.24
Consensus pattern (24 bp):
CACCTAAAACCCATATAATTATAC
Found at i:8306541 original size:15 final size:14
Alignment explanation
Indices: 8306489--8306542 Score: 53
Period size: 14 Copynumber: 4.1 Consensus size: 14
8306479 AACACCTAAA
8306489 ACCCATATAATTAT
1 ACCCATATAATTAT
**
8306503 A-CCACCTAA--A-
1 ACCCATATAATTAT
8306513 ACCCATATAATTAT
1 ACCCATATAATTAT
8306527 ACCCATATAAATTAT
1 ACCCATAT-AATTAT
8306542 A
1 A
8306543 GATGTCACGT
Statistics
Matches: 31, Mismatches: 4, Indels: 9
0.70 0.09 0.20
Matches are distributed among these distances:
10 1 0.03
11 7 0.23
13 7 0.23
14 9 0.29
15 7 0.23
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACCCATATAATTAT
Found at i:8307216 original size:40 final size:40
Alignment explanation
Indices: 8307098--8307216 Score: 134
Period size: 39 Copynumber: 3.0 Consensus size: 40
8307088 ATAGGAGTCA
* * *
8307098 AATATTGCACAGTAGTGCTGAGGTCGAGCTTT-CCTCACCT
1 AATAATGCACAATAGTGCTAAGGTCGAGCTTTGCC-CACCT
* * **
8307138 AATAATGCA-AATACTGCTAAGGTCGAGTTTTGATCACCT
1 AATAATGCACAATAGTGCTAAGGTCGAGCTTTGCCCACCT
* *
8307177 AATAATGCACAATAGTACTAAGGTCGGGCTTTGCCCACCT
1 AATAATGCACAATAGTGCTAAGGTCGAGCTTTGCCCACCT
8307217 GACTTGTACT
Statistics
Matches: 64, Mismatches: 13, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
39 32 0.50
40 32 0.50
ACGTcount: A:0.29, C:0.23, G:0.20, T:0.29
Consensus pattern (40 bp):
AATAATGCACAATAGTGCTAAGGTCGAGCTTTGCCCACCT
Found at i:8307494 original size:24 final size:24
Alignment explanation
Indices: 8307462--8307509 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
8307452 AGTCTTCCTG
8307462 ATGATGTATAAAACATATATGTAC
1 ATGATGTATAAAACATATATGTAC
*
8307486 ATGATGTATAAAACATCTATGTAC
1 ATGATGTATAAAACATATATGTAC
8307510 GATGTCATGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.44, C:0.10, G:0.12, T:0.33
Consensus pattern (24 bp):
ATGATGTATAAAACATATATGTAC
Found at i:8308843 original size:31 final size:31
Alignment explanation
Indices: 8308805--8308929 Score: 241
Period size: 31 Copynumber: 4.0 Consensus size: 31
8308795 AATCACCATT
*
8308805 AAACCAAGACACCTAAACCTTATCATCTTCC
1 AAACCAAGACACCTCAACCTTATCATCTTCC
8308836 AAACCAAGACACCTCAACCTTATCATCTTCC
1 AAACCAAGACACCTCAACCTTATCATCTTCC
8308867 AAACCAAGACACCTCAACCTTATCATCTTCC
1 AAACCAAGACACCTCAACCTTATCATCTTCC
8308898 AAACCAAGACACCTCAACCTTATCATCTTCC
1 AAACCAAGACACCTCAACCTTATCATCTTCC
8308929 A
1 A
8308930 TAAGTCAAAG
Statistics
Matches: 93, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
31 93 1.00
ACGTcount: A:0.37, C:0.38, G:0.03, T:0.22
Consensus pattern (31 bp):
AAACCAAGACACCTCAACCTTATCATCTTCC
Found at i:8310556 original size:197 final size:197
Alignment explanation
Indices: 8310221--8310615 Score: 790
Period size: 197 Copynumber: 2.0 Consensus size: 197
8310211 TTCTTTCATA
8310221 TAAAGCTTCGTATGGAGCTATCCTGATGCTCGACTGATAATTGGCACTCCATGCAGCTGAACTAT
1 TAAAGCTTCGTATGGAGCTATCCTGATGCTCGACTGATAATTGGCACTCCATGCAGCTGAACTAT
8310286 CTCCTTTATGTACAACTTTTCATACTTATCTAATGAATAGTTCATTCGTACTGAAATGAAATATG
66 CTCCTTTATGTACAACTTTTCATACTTATCTAATGAATAGTTCATTCGTACTGAAATGAAATATG
8310351 CCGACTTAATTAACTGGTCAACTATCACCCAAATGGAATCCTTCTTATTTGATGTCAAAGGTAGC
131 CCGACTTAATTAACTGGTCAACTATCACCCAAATGGAATCCTTCTTATTTGATGTCAAAGGTAGC
8310416 CC
196 CC
8310418 TAAAGCTTCGTATGGAGCTATCCTGATGCTCGACTGATAATTGGCACTCCATGCAGCTGAACTAT
1 TAAAGCTTCGTATGGAGCTATCCTGATGCTCGACTGATAATTGGCACTCCATGCAGCTGAACTAT
8310483 CTCCTTTATGTACAACTTTTCATACTTATCTAATGAATAGTTCATTCGTACTGAAATGAAATATG
66 CTCCTTTATGTACAACTTTTCATACTTATCTAATGAATAGTTCATTCGTACTGAAATGAAATATG
8310548 CCGACTTAATTAACTGGTCAACTATCACCCAAATGGAATCCTTCTTATTTGATGTCAAAGGTAGC
131 CCGACTTAATTAACTGGTCAACTATCACCCAAATGGAATCCTTCTTATTTGATGTCAAAGGTAGC
8310613 CC
196 CC
8310615 T
1 T
8310616 GTAACAAAAT
Statistics
Matches: 198, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
197 198 1.00
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (197 bp):
TAAAGCTTCGTATGGAGCTATCCTGATGCTCGACTGATAATTGGCACTCCATGCAGCTGAACTAT
CTCCTTTATGTACAACTTTTCATACTTATCTAATGAATAGTTCATTCGTACTGAAATGAAATATG
CCGACTTAATTAACTGGTCAACTATCACCCAAATGGAATCCTTCTTATTTGATGTCAAAGGTAGC
CC
Found at i:8313356 original size:31 final size:31
Alignment explanation
Indices: 8313318--8313382 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
8313308 AGAGTCGAGG
* *
8313318 GTTTACCTATG-TCTTTCGAGATATATGGACA
1 GTTTACCTAGGTTC-TTCGAGACATATGGACA
*
8313349 GTTTACCTAGGTTCTTCGAGACCTATGGACA
1 GTTTACCTAGGTTCTTCGAGACATATGGACA
8313380 GTT
1 GTT
8313383 GTCGAGGTTC
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
31 28 0.93
32 2 0.07
ACGTcount: A:0.23, C:0.18, G:0.22, T:0.37
Consensus pattern (31 bp):
GTTTACCTAGGTTCTTCGAGACATATGGACA
Found at i:8322231 original size:20 final size:21
Alignment explanation
Indices: 8322206--8322257 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
8322196 TTTTCCCAAT
*
8322206 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
8322226 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
8322247 TCGCAATGCGA
1 TCGCAATGCGA
8322258 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:8322271 original size:20 final size:20
Alignment explanation
Indices: 8322246--8322360 Score: 97
Period size: 20 Copynumber: 5.7 Consensus size: 20
8322236 AATTGGGAAA
8322246 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* * **
8322266 ATCGCAATGCGATAATAAAAA
1 ATCGCAATGCGATACT-GACT
* * *
8322287 ATCGCAACGAGATACTTACT
1 ATCGCAATGCGATACTGACT
*
8322307 TTCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
8322327 TTCGCAACGCGATAAT-ACAT
1 ATCGCAATGCGATACTGAC-T
8322347 AATCGCAATGCGAT
1 -ATCGCAATGCGAT
8322361 TTTCAAAGCG
Statistics
Matches: 74, Mismatches: 18, Indels: 5
0.76 0.19 0.05
Matches are distributed among these distances:
19 2 0.03
20 47 0.64
21 25 0.34
ACGTcount: A:0.36, C:0.23, G:0.17, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:8322288 original size:41 final size:41
Alignment explanation
Indices: 8322243--8322320 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
8322233 GCGAATTGGG
* *
8322243 AAAATCGCAATGCGATACTGACTATCGCAATGCGATAATAA
1 AAAATCGCAACGAGATACTGACTATCGCAATGCGATAATAA
* *
8322284 AAAATCGCAACGAGATACTTACTTTCGCAATGCGATA
1 AAAATCGCAACGAGATACTGACTATCGCAATGCGATA
8322321 CTGACTTTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.40, C:0.21, G:0.17, T:0.23
Consensus pattern (41 bp):
AAAATCGCAACGAGATACTGACTATCGCAATGCGATAATAA
Found at i:8322556 original size:22 final size:22
Alignment explanation
Indices: 8322528--8322571 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
8322518 CACTCTCTCA
8322528 CCCATCTCCGACGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
*
8322550 CCCATCTCCGGCGAAATCCGTC
1 CCCATCTCCGACGAAATCCGTC
8322572 TATCTCCATC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.20, C:0.45, G:0.16, T:0.18
Consensus pattern (22 bp):
CCCATCTCCGACGAAATCCGTC
Found at i:8322849 original size:20 final size:20
Alignment explanation
Indices: 8322824--8322861 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
8322814 CGATTCTCTC
8322824 GTTGCGATAGTCATTTTCGT
1 GTTGCGATAGTCATTTTCGT
**
8322844 GTTGCGATTTTCATTTTC
1 GTTGCGATAGTCATTTTC
8322862 AGAAACTATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.16, G:0.21, T:0.50
Consensus pattern (20 bp):
GTTGCGATAGTCATTTTCGT
Found at i:8324150 original size:18 final size:18
Alignment explanation
Indices: 8324129--8324173 Score: 72
Period size: 18 Copynumber: 2.5 Consensus size: 18
8324119 TCCACTTCGG
*
8324129 GAGCCATCACCTCGCCCA
1 GAGCCATCACCTCACCCA
*
8324147 GAGCTATCACCTCACCCA
1 GAGCCATCACCTCACCCA
8324165 GAGCCATCA
1 GAGCCATCA
8324174 TCTGATCGAC
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 24 1.00
ACGTcount: A:0.27, C:0.44, G:0.16, T:0.13
Consensus pattern (18 bp):
GAGCCATCACCTCACCCA
Found at i:8324706 original size:19 final size:20
Alignment explanation
Indices: 8324652--8324697 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
8324642 TAGTTTACTT
*
8324652 TCGCAACACGAAAATGACTA
1 TCGCAACACGGAAATGACTA
*
8324672 TCGCAACACGGAAATGGCTA
1 TCGCAACACGGAAATGACTA
8324692 TCGCAA
1 TCGCAA
8324698 TGCGAAATGA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.26, G:0.20, T:0.15
Consensus pattern (20 bp):
TCGCAACACGGAAATGACTA
Found at i:8324726 original size:14 final size:14
Alignment explanation
Indices: 8324707--8324764 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
8324697 ATGCGAAATG
8324707 AAAATCGCAACGAC
1 AAAATCGCAACGAC
*
8324721 AAAATCGCAATGCGAA
1 AAAATCGCAA--CGAC
8324737 ATGAAATCGCAACGAC
1 A--AAATCGCAACGAC
8324753 AAAATCGCAACG
1 AAAATCGCAACG
8324765 CGAAATGAAA
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 21 0.55
16 8 0.21
18 9 0.24
ACGTcount: A:0.48, C:0.24, G:0.17, T:0.10
Consensus pattern (14 bp):
AAAATCGCAACGAC
Found at i:8324749 original size:32 final size:33
Alignment explanation
Indices: 8324691--8324781 Score: 166
Period size: 32 Copynumber: 2.8 Consensus size: 33
8324681 GGAAATGGCT
8324691 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
8324724 ATCGCAATGCGAAATG-AAATCGCAACGACAAA
1 ATCGCAATGCGAAATGAAAATCGCAACGACAAA
*
8324756 ATCGCAACGCGAAATGAAAATCGCAA
1 ATCGCAATGCGAAATGAAAATCGCAA
8324782 TGCGATTTGT
Statistics
Matches: 56, Mismatches: 1, Indels: 2
0.95 0.02 0.03
Matches are distributed among these distances:
32 31 0.55
33 25 0.45
ACGTcount: A:0.47, C:0.22, G:0.19, T:0.12
Consensus pattern (33 bp):
ATCGCAATGCGAAATGAAAATCGCAACGACAAA
Found at i:8324817 original size:14 final size:14
Alignment explanation
Indices: 8324798--8324855 Score: 71
Period size: 14 Copynumber: 3.9 Consensus size: 14
8324788 TTGTGTTTCG
8324798 CGTTGCGATTTTGT
1 CGTTGCGATTTTGT
*
8324812 CGTTGCGATTTCATTT
1 CGTTGCGATTT--TGT
8324828 CGCGTTGCGATTTTGT
1 --CGTTGCGATTTTGT
8324844 CGTTGCGATTTT
1 CGTTGCGATTTT
8324856 CATTTCGCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
14 23 0.61
16 4 0.11
18 11 0.29
ACGTcount: A:0.09, C:0.17, G:0.26, T:0.48
Consensus pattern (14 bp):
CGTTGCGATTTTGT
Found at i:8324832 original size:32 final size:33
Alignment explanation
Indices: 8324793--8324871 Score: 142
Period size: 32 Copynumber: 2.4 Consensus size: 33
8324783 GCGATTTGTG
8324793 TTTCGCGTTGCGATTTTGTCGTTGCGA-TTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
8324825 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
1 TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
*
8324858 TTTCGCATTGCGAT
1 TTTCGCGTTGCGAT
8324872 AGCCATTTCC
Statistics
Matches: 45, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
32 27 0.60
33 18 0.40
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (33 bp):
TTTCGCGTTGCGATTTTGTCGTTGCGATTTTCA
Found at i:8324870 original size:19 final size:17
Alignment explanation
Indices: 8324793--8324871 Score: 62
Period size: 14 Copynumber: 4.8 Consensus size: 17
8324783 GCGATTTGTG
8324793 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
8324809 TGTCG-TTGCGATTTCA
1 TTTCGCTTGCGATTTCA
8324825 TTTCGCGTTGCGATTT--
1 TTTCGC-TTGCGATTTCA
*
8324841 TGTCG-TTGCGATTTTCA
1 TTTCGCTTGCGA-TTTCA
8324858 TTTCGCATTGCGAT
1 TTTCGC-TTGCGAT
8324872 AGCCATTTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
14 15 0.30
15 3 0.06
16 12 0.24
17 4 0.08
18 10 0.20
19 6 0.12
ACGTcount: A:0.10, C:0.19, G:0.24, T:0.47
Consensus pattern (17 bp):
TTTCGCTTGCGATTTCA
Found at i:8324878 original size:19 final size:19
Alignment explanation
Indices: 8324856--8324910 Score: 65
Period size: 20 Copynumber: 2.8 Consensus size: 19
8324846 TTGCGATTTT
*
8324856 CATTTCGCATTGCGATAGC
1 CATTTCGCGTTGCGATAGC
* *
8324875 CATTTCCGTGTTGCGATAGT
1 CATTT-CGCGTTGCGATAGC
*
8324895 CATTTTGCGTTGCGAT
1 CATTTCGCGTTGCGAT
8324911 TTTAAGTTTC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
19 14 0.47
20 16 0.53
ACGTcount: A:0.16, C:0.22, G:0.24, T:0.38
Consensus pattern (19 bp):
CATTTCGCGTTGCGATAGC
Found at i:8326795 original size:14 final size:14
Alignment explanation
Indices: 8326776--8326811 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
8326766 ATTGTTTAAT
8326776 TGATTTGTAAAAGA
1 TGATTTGTAAAAGA
* *
8326790 TGATTTGTAAATGT
1 TGATTTGTAAAAGA
8326804 TGATTTGT
1 TGATTTGT
8326812 TTAATTGATG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.31, C:0.00, G:0.22, T:0.47
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:8326950 original size:19 final size:19
Alignment explanation
Indices: 8326928--8326995 Score: 101
Period size: 19 Copynumber: 3.8 Consensus size: 19
8326918 ATCGCAACGA
8326928 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
8326947 GAAAATCGCAATGCGAAAT
1 GAAAATCGCAATGCGAAAT
8326966 GAAAATCGCAA--CG--A-
1 GAAAATCGCAATGCGAAAT
8326980 GAAAATCGCAATGCGA
1 GAAAATCGCAATGCGA
8326996 TTTTCATTTC
Statistics
Matches: 46, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
14 11 0.24
15 1 0.02
16 2 0.04
17 2 0.04
19 30 0.65
ACGTcount: A:0.47, C:0.18, G:0.22, T:0.13
Consensus pattern (19 bp):
GAAAATCGCAATGCGAAAT
Found at i:8327039 original size:20 final size:20
Alignment explanation
Indices: 8327014--8327091 Score: 138
Period size: 20 Copynumber: 3.9 Consensus size: 20
8327004 TCGCATTGCG
*
8327014 ATTTTCTCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
8327034 ATTTTCGCGTTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
*
8327054 ATTTTCGCATTGCGATAGCC
1 ATTTTCGCGTTGCGATAGCC
8327074 ATTTTCGCGTTGCGATAG
1 ATTTTCGCGTTGCGATAG
8327092 TCAAATGAAT
Statistics
Matches: 55, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 55 1.00
ACGTcount: A:0.17, C:0.23, G:0.23, T:0.37
Consensus pattern (20 bp):
ATTTTCGCGTTGCGATAGCC
Found at i:8328180 original size:24 final size:24
Alignment explanation
Indices: 8328153--8328206 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
8328143 GTATTCGAAA
* *
8328153 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATATTGGTCAATACACGGAC
*
8328177 TTTGATATTGGTCAATACACGGAT
1 TTTGATATTGGTCAATACACGGAC
8328201 TTTGAT
1 TTTGAT
8328207 GATGTTTCAG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.24, C:0.17, G:0.20, T:0.39
Consensus pattern (24 bp):
TTTGATATTGGTCAATACACGGAC
Found at i:8328398 original size:12 final size:12
Alignment explanation
Indices: 8328381--8328405 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
8328371 ATATAATCCT
8328381 GAAGAAGAAAAA
1 GAAGAAGAAAAA
8328393 GAAGAAGAAAAA
1 GAAGAAGAAAAA
8328405 G
1 G
8328406 TCCCCGAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (12 bp):
GAAGAAGAAAAA
Found at i:8330717 original size:19 final size:19
Alignment explanation
Indices: 8330695--8330792 Score: 72
Period size: 19 Copynumber: 5.7 Consensus size: 19
8330685 GGAAATTACT
8330695 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
8330714 ATCGCAA--CG--A-GAGA
1 ATCGCAATGCGAAATGAAA
8330728 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
* * *
8330747 ATTGCAA--CG--CT-AAT
1 ATCGCAATGCGAAATGAAA
*
8330761 TTCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATGAAA
*
8330780 ATCGCAACGCGAA
1 ATCGCAATGCGAA
8330793 TTTAATTTCG
Statistics
Matches: 58, Mismatches: 11, Indels: 20
0.65 0.12 0.22
Matches are distributed among these distances:
14 17 0.29
15 2 0.03
16 4 0.07
17 4 0.07
18 2 0.03
19 29 0.50
ACGTcount: A:0.43, C:0.19, G:0.21, T:0.16
Consensus pattern (19 bp):
ATCGCAATGCGAAATGAAA
Found at i:8330795 original size:33 final size:33
Alignment explanation
Indices: 8330696--8330795 Score: 148
Period size: 33 Copynumber: 3.0 Consensus size: 33
8330686 GAAATTACTA
* *
8330696 TCGCAATGCGAAATGAAAATCGCAACGAGAGA-A
1 TCGCAATGCGAAATGAAAATCGCAACGCGA-ATT
* *
8330729 TCGCAATGCGAAATGAAAATTGCAACGCTAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
8330762 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
1 TCGCAATGCGAAATGAAAATCGCAACGCGAATT
8330795 T
1 T
8330796 AATTTCGCGT
Statistics
Matches: 60, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
32 1 0.02
33 59 0.98
ACGTcount: A:0.41, C:0.19, G:0.21, T:0.19
Consensus pattern (33 bp):
TCGCAATGCGAAATGAAAATCGCAACGCGAATT
Found at i:8330810 original size:19 final size:20
Alignment explanation
Indices: 8330788--8330830 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
8330778 AAATCGCAAC
8330788 GCGAATTT-AATTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
* *
8330807 GCGATTTTCATTTTCGCGTT
1 GCGAATTTCAATTTCGCGTT
8330827 GCGA
1 GCGA
8330831 TTCTCTCGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.16, C:0.19, G:0.23, T:0.42
Consensus pattern (20 bp):
GCGAATTTCAATTTCGCGTT
Found at i:8330815 original size:14 final size:14
Alignment explanation
Indices: 8330816--8330849 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
8330806 TGCGATTTTC
8330816 ATTTTCGCGTTGCG
1 ATTTTCGCGTTGCG
* *
8330830 ATTCTCTCGTTGCG
1 ATTTTCGCGTTGCG
8330844 ATTTTC
1 ATTTTC
8330850 ATTTCGCATT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.09, C:0.24, G:0.21, T:0.47
Consensus pattern (14 bp):
ATTTTCGCGTTGCG
Found at i:8330990 original size:14 final size:14
Alignment explanation
Indices: 8330971--8331007 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
8330961 CATCAATTAA
8330971 ACAAATCAACTTTT
1 ACAAATCAACTTTT
*
8330985 ACAAATCACCTTTT
1 ACAAATCAACTTTT
8330999 ACAAATCAA
1 ACAAATCAA
8331008 TTAAACAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.46, C:0.24, G:0.00, T:0.30
Consensus pattern (14 bp):
ACAAATCAACTTTT
Found at i:8332427 original size:21 final size:21
Alignment explanation
Indices: 8332361--8332427 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
8332351 GTGAATCGGG
*
8332361 CTCTTGAATGGTGGGA-GGGA
1 CTCTTGAACGGTGGGAGGGGA
* * ** * *
8332381 CCTCTTTAACGATGACAGTGGC
1 -CTCTTGAACGGTGGGAGGGGA
8332403 CTCTTGAACGGTGGGAGGGGA
1 CTCTTGAACGGTGGGAGGGGA
8332424 CTCT
1 CTCT
8332428 CGAGGAATGA
Statistics
Matches: 32, Mismatches: 13, Indels: 2
0.68 0.28 0.04
Matches are distributed among these distances:
21 30 0.94
22 2 0.06
ACGTcount: A:0.19, C:0.19, G:0.36, T:0.25
Consensus pattern (21 bp):
CTCTTGAACGGTGGGAGGGGA
Found at i:8332446 original size:42 final size:42
Alignment explanation
Indices: 8332400--8332483 Score: 114
Period size: 42 Copynumber: 2.0 Consensus size: 42
8332390 CGATGACAGT
* * *
8332400 GGCCTCTTGAACGGTGGGAGGGGACTCTCGAGGAATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
* * *
8332442 GGCCTCTTCAACGATAGGAGTGGACTCTTGAGGGATGATAGG
1 GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
8332484 CGAGTCGAGC
Statistics
Matches: 36, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
42 36 1.00
ACGTcount: A:0.23, C:0.17, G:0.39, T:0.21
Consensus pattern (42 bp):
GGCCTCTTCAACGATAGGAGGGGACTCTCGAGGAATGATAGG
Found at i:8334533 original size:20 final size:19
Alignment explanation
Indices: 8334488--8334548 Score: 59
Period size: 20 Copynumber: 3.1 Consensus size: 19
8334478 TCTTTTGGTT
8334488 GAAATGAAAATCGCAACGA
1 GAAATGAAAATCGCAACGA
* *
8334507 GATAATGAGAATCGCAACGCG
1 GA-AATGAAAATCGCAACG-A
** *
8334528 GAAATGACTATTGCAACGA
1 GAAATGAAAATCGCAACGA
8334547 GA
1 GA
8334549 GAATCGCAAC
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
19 4 0.12
20 28 0.82
21 2 0.06
ACGTcount: A:0.44, C:0.16, G:0.25, T:0.15
Consensus pattern (19 bp):
GAAATGAAAATCGCAACGA
Found at i:8334570 original size:33 final size:33
Alignment explanation
Indices: 8334513--8334612 Score: 119
Period size: 33 Copynumber: 3.0 Consensus size: 33
8334503 ACGAGATAAT
* *
8334513 GAGAATCGCAACGCGGAAATGACTATTGCAACGA
1 GAGAATCGCAACGC-GAAATGACTATCGCAACCA
* **
8334547 GAGAATCGCAACACGAAATGACTATCGTGACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
* **
8334580 GACAATCGCAACGCGAAATGAAAATCGCAACCA
1 GAGAATCGCAACGCGAAATGACTATCGCAACCA
8334613 CGAAATAAAA
Statistics
Matches: 55, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
33 42 0.76
34 13 0.24
ACGTcount: A:0.41, C:0.24, G:0.22, T:0.13
Consensus pattern (33 bp):
GAGAATCGCAACGCGAAATGACTATCGCAACCA
Found at i:8334607 original size:19 final size:19
Alignment explanation
Indices: 8334583--8334663 Score: 135
Period size: 19 Copynumber: 4.2 Consensus size: 19
8334573 GTGACCAGAC
8334583 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
* *
8334602 AATCGCAACCACGAAATAAA
1 AATCGCAA-CGCGAAATGAA
8334622 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
8334641 AATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAA
8334660 AATC
1 AATC
8334664 ACAATGTGAT
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
19 40 0.70
20 17 0.30
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.11
Consensus pattern (19 bp):
AATCGCAACGCGAAATGAA
Found at i:8334637 original size:39 final size:38
Alignment explanation
Indices: 8334583--8334663 Score: 135
Period size: 39 Copynumber: 2.1 Consensus size: 38
8334573 GTGACCAGAC
8334583 AATCGCAACGCGAAATGAAAATCGCAACCACGAAATAAA
1 AATCGCAACGCGAAATGAAAATCGCAA-CACGAAATAAA
* *
8334622 AATCGCAACGCGAAATGAAAATCGCAACGCGAAATGAA
1 AATCGCAACGCGAAATGAAAATCGCAACACGAAATAAA
8334660 AATC
1 AATC
8334664 ACAATGTGAT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
38 13 0.32
39 27 0.68
ACGTcount: A:0.49, C:0.22, G:0.17, T:0.11
Consensus pattern (38 bp):
AATCGCAACGCGAAATGAAAATCGCAACACGAAATAAA
Found at i:8334728 original size:20 final size:19
Alignment explanation
Indices: 8334679--8334731 Score: 70
Period size: 19 Copynumber: 2.7 Consensus size: 19
8334669 GTGATTTTGG
**
8334679 TTTCGCGTTGCGATTTTTA
1 TTTCGCGTTGCGATAGTTA
*
8334698 TTTCACGTTGCGATAGTTA
1 TTTCGCGTTGCGATAGTTA
8334717 TTTCCGCGTTGCGAT
1 TTT-CGCGTTGCGAT
8334732 TTTCATTCTC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
19 19 0.66
20 10 0.34
ACGTcount: A:0.13, C:0.19, G:0.23, T:0.45
Consensus pattern (19 bp):
TTTCGCGTTGCGATAGTTA
Found at i:8335279 original size:20 final size:20
Alignment explanation
Indices: 8335254--8335306 Score: 88
Period size: 20 Copynumber: 2.6 Consensus size: 20
8335244 GCGCTATGTA
8335254 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
8335274 AATCGCGTTGCGAAAGTCAG
1 AATCGCGTTGCGAAAGTCAG
* *
8335294 TATCTCGTTGCGA
1 AATCGCGTTGCGA
8335307 TTTTGTATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (20 bp):
AATCGCGTTGCGAAAGTCAG
Found at i:8335340 original size:20 final size:20
Alignment explanation
Indices: 8335315--8335368 Score: 99
Period size: 20 Copynumber: 2.7 Consensus size: 20
8335305 GATTTTGTAT
8335315 TATCGCATTGCGATAGTAAG
1 TATCGCATTGCGATAGTAAG
*
8335335 TATCGCATTGCGATAGTCAG
1 TATCGCATTGCGATAGTAAG
8335355 TATCGCATTGCGAT
1 TATCGCATTGCGAT
8335369 TTTCCCAATT
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 33 1.00
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.31
Consensus pattern (20 bp):
TATCGCATTGCGATAGTAAG
Found at i:8335353 original size:61 final size:61
Alignment explanation
Indices: 8335255--8335371 Score: 162
Period size: 61 Copynumber: 1.9 Consensus size: 61
8335245 CGCTATGTAA
* * * * *
8335255 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
* * *
8335316 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTT
1 ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT
8335372 CCCAATTCGC
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
61 48 1.00
ACGTcount: A:0.24, C:0.18, G:0.25, T:0.33
Consensus pattern (61 bp):
ATCGCATTGCGAAAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTGTATT
Found at i:8335387 original size:61 final size:61
Alignment explanation
Indices: 8335255--8335389 Score: 155
Period size: 61 Copynumber: 2.2 Consensus size: 61
8335245 CGCTATGTAA
* * * * * ** *
8335255 ATCGCGTTGCGAAAGTCAGAATCGCGTTGCGAAAGTCAGTATCTCGTTGCGATTTTGTATT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
* * *
8335316 ATCGCATTGCGATAGTAAGTATCGCATTGCGATAGTCAGTATCGCATTGCGATTTTCCCAAT
1 ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTT-CCAAT
8335378 -TCGCGTTGCGAT
1 ATCGCGTTGCGAT
8335390 TTACTTATTC
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
61 59 0.97
62 2 0.03
ACGTcount: A:0.23, C:0.20, G:0.24, T:0.33
Consensus pattern (61 bp):
ATCGCGTTGCGATAGTAAGAATCGCATTGCGAAAGTCAGTATCGCATTGCGATTTTCCAAT
Found at i:8336559 original size:32 final size:32
Alignment explanation
Indices: 8336492--8336597 Score: 115
Period size: 32 Copynumber: 3.3 Consensus size: 32
8336482 ATTGGTTTTA
** * * *
8336492 TGAATGGCGTATCCTACGGAACGCACCTC-CAT
1 TGAATGGCGCGTCCTAGGGAATGCGCCTCTC-T
*
8336524 TGAATGGCGCGTCCTAGGGAATGTGCCTCTCT
1 TGAATGGCGCGTCCTAGGGAATGCGCCTCTCT
* *
8336556 TGAATGACGTGTCCTAGGGAATGCGCCTCTCT
1 TGAATGGCGCGTCCTAGGGAATGCGCCTCTCT
*
8336588 TGGATGGCGC
1 TGAATGGCGC
8336598 ATCGTACAGA
Statistics
Matches: 61, Mismatches: 12, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
32 60 0.98
33 1 0.02
ACGTcount: A:0.19, C:0.26, G:0.29, T:0.25
Consensus pattern (32 bp):
TGAATGGCGCGTCCTAGGGAATGCGCCTCTCT
Found at i:8336692 original size:21 final size:21
Alignment explanation
Indices: 8336654--8336696 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 21
8336644 AGTAACTATA
*
8336654 GGGTTTTGTAATTGGTTTTAGG
1 GGGTTTTGTAAGTGG-TTTAGG
8336676 GGGTTTTGT-AGTGGTTTAGG
1 GGGTTTTGTAAGTGGTTTAGG
8336696 G
1 G
8336697 TGTTATATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 7 0.35
21 4 0.20
22 9 0.45
ACGTcount: A:0.12, C:0.00, G:0.42, T:0.47
Consensus pattern (21 bp):
GGGTTTTGTAAGTGGTTTAGG
Found at i:8339990 original size:83 final size:82
Alignment explanation
Indices: 8339851--8340500 Score: 736
Period size: 83 Copynumber: 7.9 Consensus size: 82
8339841 ATAATGAAAC
*
8339851 ATGCGCCTTTCATTTCGGATGGGATGGAACACTATGAAATGACAGAGATTCTCTGAATAATAATG
1 ATGCGCCTTTCATTTCGGATGGGATGGAACACTATGACATGACAGAGATTCTCTGAATAATAATG
*
8339916 GAAAATGCTTTCCCTGGA
66 GAAAACGC-TTCCCTGGA
* * * **
8339934 ATGCGCCTTTCATTTCAGATTGGATGGAACACTATAACATGGTAGAGATTCTCTGAATAATAATG
1 ATGCGCCTTTCATTTCGGATGGGATGGAACACTATGACATGACAGAGATTCTCTGAATAATAATG
8339999 GAAAACGCTTCCTCTGG-
66 GAAAACGCTTCC-CTGGA
* * * * * *
8340016 ATGTGCCTTTCATTTCAGATGGGATTGAACATTATGACATGACAAATATTCTCTGAATAATAATG
1 ATGCGCCTTTCATTTCGGATGGGATGGAACACTATGACATGACAGAGATTCTCTGAATAATAATG
* *
8340081 GAAAATGCTTCCCCTCGAA
66 GAAAACGCTT-CCCT-GGA
*
8340100 CAT-C-CCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGATTCTCTGAATAATAAT
1 -ATGCGCCTTTCATTTCGGATGGGATGGAACACTATGACATGACAGAGATTCTCTGAATAATAAT
8340163 GGAAAACGCTTCCCATGGA
65 GGAAAACGCTTCCC-TGGA
* * * *
8340182 ATGCGTCTTTCATTTCGGATGGGATGAAACACTATGACATGGCAAAGATTCTCTGAATAAT-ATG
1 ATGCGCCTTTCATTTCGGATGGGATGGAACACTATGACATGACAGAGATTCTCTGAATAATAATG
* * *
8340246 GAAAATGTTTCCCCTAGA
66 GAAAACGCTT-CCCTGGA
* * * * * * * *
8340264 ATGCGCCTTTAATTTTGGAT-GGATAGAACACTAAGATATGATAGAGAATCTCTAAATAATAATG
1 ATGCGCCTTTCATTTCGGATGGGATGGAACACTATGACATGACAGAGATTCTCTGAATAATAATG
*
8340328 GAAAACACTTCCCATGGA
66 GAAAACGCTTCCC-TGGA
* * * *
8340346 ACGTGCCTTTCATTTTGAATGGGATGGAACACTATGACATGACAGAGATTCTCTGAATAATAATG
1 ATGCGCCTTTCATTTCGGATGGGATGGAACACTATGACATGACAGAGATTCTCTGAATAATAATG
*
8340411 GAAAACACTTCCACATGGA
66 GAAAACGCTTCC-C-TGGA
* * * * ** * * *
8340430 ATGTGCGTTTAATTTCTGATGGGATAAAACACTATGATATTGA-AAAGATTCTCTAAATAATAAT
1 ATGCGCCTTTCATTTCGGATGGGATGGAACACTATGACA-TGACAGAGATTCTCTGAATAATAAT
*
8340494 AGAAAAC
65 GGAAAAC
8340501 ACTATGACAT
Statistics
Matches: 482, Mismatches: 71, Indels: 27
0.83 0.12 0.05
Matches are distributed among these distances:
81 36 0.07
82 137 0.28
83 243 0.50
84 61 0.13
85 5 0.01
ACGTcount: A:0.34, C:0.17, G:0.20, T:0.30
Consensus pattern (82 bp):
ATGCGCCTTTCATTTCGGATGGGATGGAACACTATGACATGACAGAGATTCTCTGAATAATAATG
GAAAACGCTTCCCTGGA
Found at i:8340127 original size:165 final size:164
Alignment explanation
Indices: 8339855--8340415 Score: 756
Period size: 165 Copynumber: 3.4 Consensus size: 164
8339845 TGAAACATGC
* *
8339855 GCCTTTCATTTCGGATGGGATGGAACACTATGAAATGACAGAGATTCTCTGAATAATAATGGAAA
1 GCCTTTCATTTCGGATGGGATGGAACACTATGACATGACAAAGATTCTCTGAATAATAATGGAAA
* *
8339920 ATGCTTTCCCTGGAATGCGCCTTTCATTTCAGATTGGATGGAACACTATAACATGGTAGAGATTC
66 ATGCTTCCCCT-GAATGCGCCTTTCATTTCGGA-TGGATGGAACACTATAACATGGTAGAGATTC
8339985 TCTGAATAATAATGGAAAACGCTTCCTC-TGG-ATGT
129 TCTGAATAATAATGGAAAACGCTTCC-CATGGAATGT
* * * *
8340020 GCCTTTCATTTCAGATGGGATTGAACATTATGACATGACAAATATTCTCTGAATAATAATGGAAA
1 GCCTTTCATTTCGGATGGGATGGAACACTATGACATGACAAAGATTCTCTGAATAATAATGGAAA
* *
8340085 ATGCTTCCCCTCGAACAT-C-CCTTTCATTTCGGATGGGATGGAACACTATGACATGGCAGAGAT
66 ATGCTTCCCCT-G-A-ATGCGCCTTTCATTTCGGAT-GGATGGAACACTATAACATGGTAGAGAT
*
8340148 TCTCTGAATAATAATGGAAAACGCTTCCCATGGAATGC
127 TCTCTGAATAATAATGGAAAACGCTTCCCATGGAATGT
* * *
8340186 GTCTTTCATTTCGGATGGGATGAAACACTATGACATGGCAAAGATTCTCTGAATAAT-ATGGAAA
1 GCCTTTCATTTCGGATGGGATGGAACACTATGACATGACAAAGATTCTCTGAATAATAATGGAAA
* * * * * * *
8340250 ATGTTTCCCCTAGAATGCGCCTTTAATTTTGGATGGATAGAACACTA-AGATATGATAGAGAATC
66 ATGCTTCCCCT-GAATGCGCCTTTCATTTCGGATGGATGGAACACTATA-ACATGGTAGAGATTC
* * *
8340314 TCTAAATAATAATGGAAAACACTTCCCATGGAACGT
129 TCTGAATAATAATGGAAAACGCTTCCCATGGAATGT
* * *
8340350 GCCTTTCATTTTGAATGGGATGGAACACTATGACATGACAGAGATTCTCTGAATAATAATGGAAA
1 GCCTTTCATTTCGGATGGGATGGAACACTATGACATGACAAAGATTCTCTGAATAATAATGGAAA
8340415 A
66 A
8340416 CACTTCCACA
Statistics
Matches: 348, Mismatches: 39, Indels: 18
0.86 0.10 0.04
Matches are distributed among these distances:
163 2 0.01
164 110 0.32
165 179 0.51
166 55 0.16
167 2 0.01
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.29
Consensus pattern (164 bp):
GCCTTTCATTTCGGATGGGATGGAACACTATGACATGACAAAGATTCTCTGAATAATAATGGAAA
ATGCTTCCCCTGAATGCGCCTTTCATTTCGGATGGATGGAACACTATAACATGGTAGAGATTCTC
TGAATAATAATGGAAAACGCTTCCCATGGAATGT
Found at i:8341014 original size:33 final size:33
Alignment explanation
Indices: 8340977--8341044 Score: 136
Period size: 33 Copynumber: 2.1 Consensus size: 33
8340967 TATCTTGAAG
8340977 TAAGCCTCTAGCATGGGTGTCAATGAAGCAACT
1 TAAGCCTCTAGCATGGGTGTCAATGAAGCAACT
8341010 TAAGCCTCTAGCATGGGTGTCAATGAAGCAACT
1 TAAGCCTCTAGCATGGGTGTCAATGAAGCAACT
8341043 TA
1 TA
8341045 CGTTTTAGGC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.31, C:0.21, G:0.24, T:0.25
Consensus pattern (33 bp):
TAAGCCTCTAGCATGGGTGTCAATGAAGCAACT
Found at i:8341399 original size:26 final size:27
Alignment explanation
Indices: 8341364--8341415 Score: 79
Period size: 26 Copynumber: 2.0 Consensus size: 27
8341354 TGAACTATAA
*
8341364 AAACAACAAACCA-TAAACATTACATT
1 AAACAACAAACCATTAAACATGACATT
*
8341390 AAACAACAAACTATTAAACATGACAT
1 AAACAACAAACCATTAAACATGACAT
8341416 GAAGCATACC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 12 0.52
27 11 0.48
ACGTcount: A:0.58, C:0.21, G:0.02, T:0.19
Consensus pattern (27 bp):
AAACAACAAACCATTAAACATGACATT
Found at i:8342384 original size:6 final size:6
Alignment explanation
Indices: 8342369--8342436 Score: 57
Period size: 6 Copynumber: 11.3 Consensus size: 6
8342359 TCATCCCCCA
* * * ** * *
8342369 TCATCG TCATCC TCATCC TCATCC TCATCA TCCTTG TCATCA TCGTCC
1 TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC TCATCC
8342417 TCATCC TTC-TCC TCATCC TC
1 TCATCC -TCATCC TCATCC TC
8342437 CTTATTGTCA
Statistics
Matches: 49, Mismatches: 11, Indels: 4
0.77 0.17 0.06
Matches are distributed among these distances:
5 2 0.04
6 45 0.92
7 2 0.04
ACGTcount: A:0.15, C:0.44, G:0.04, T:0.37
Consensus pattern (6 bp):
TCATCC
Found at i:8342438 original size:21 final size:21
Alignment explanation
Indices: 8342375--8342438 Score: 76
Period size: 21 Copynumber: 3.0 Consensus size: 21
8342365 CCCATCATCG
*
8342375 TCATCC-TCATCCTCATCCTCA
1 TCATCCTTC-TCCTCATCCTCC
* * *
8342396 TCATCCTTGTCATCATCGTCC
1 TCATCCTTCTCCTCATCCTCC
8342417 TCATCCTTCTCCTCATCCTCC
1 TCATCCTTCTCCTCATCCTCC
8342438 T
1 T
8342439 TATTGTCATC
Statistics
Matches: 35, Mismatches: 7, Indels: 2
0.80 0.16 0.05
Matches are distributed among these distances:
21 34 0.97
22 1 0.03
ACGTcount: A:0.14, C:0.45, G:0.03, T:0.38
Consensus pattern (21 bp):
TCATCCTTCTCCTCATCCTCC
Found at i:8344060 original size:17 final size:17
Alignment explanation
Indices: 8344040--8344072 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
8344030 ATTCTAGTTG
8344040 CTTGATGTTTCTTGTTT
1 CTTGATGTTTCTTGTTT
8344057 CTTGATGTTTCTTGTT
1 CTTGATGTTTCTTGTT
8344073 ATTGATCAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.06, C:0.12, G:0.18, T:0.64
Consensus pattern (17 bp):
CTTGATGTTTCTTGTTT
Found at i:8346467 original size:20 final size:20
Alignment explanation
Indices: 8346430--8346468 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
8346420 AGATTGAGTG
* * *
8346430 GATTTTGATGTTGTTTGCAC
1 GATTTTAATGATGATTGCAC
8346450 GATTTTAATGATGATTGCA
1 GATTTTAATGATGATTGCA
8346469 AGTTTAGGAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.23, C:0.08, G:0.23, T:0.46
Consensus pattern (20 bp):
GATTTTAATGATGATTGCAC
Found at i:8346691 original size:20 final size:21
Alignment explanation
Indices: 8346645--8346705 Score: 79
Period size: 20 Copynumber: 2.9 Consensus size: 21
8346635 TCCCCTGTGG
8346645 GGGGGAATCGGTTCCCCTTCAAA
1 GGGGGAATCGGTT-CCC-TCAAA
8346668 GGGGGAATCGGTTCCCTC-AA
1 GGGGGAATCGGTTCCCTCAAA
* *
8346688 GGGGGGATCGATTCCCTC
1 GGGGGAATCGGTTCCCTC
8346706 TGCACCAAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
20 18 0.50
21 2 0.06
22 3 0.08
23 13 0.36
ACGTcount: A:0.18, C:0.26, G:0.34, T:0.21
Consensus pattern (21 bp):
GGGGGAATCGGTTCCCTCAAA
Found at i:8357038 original size:30 final size:31
Alignment explanation
Indices: 8356997--8357075 Score: 106
Period size: 30 Copynumber: 2.6 Consensus size: 31
8356987 GTCTTATCTT
* * *
8356997 CATTTAAAAATATATTTTATTTTTGTTTTAA
1 CATTAAAAAATATATTTTATTATTATTTTAA
*
8357028 -ATTAAAAAATAAATTTTATTATTATTTTAA
1 CATTAAAAAATATATTTTATTATTATTTTAA
*
8357058 CTTTAAAAAATATATTTT
1 CATTAAAAAATATATTTT
8357076 TAAAATATTT
Statistics
Matches: 41, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
30 26 0.63
31 15 0.37
ACGTcount: A:0.43, C:0.03, G:0.01, T:0.53
Consensus pattern (31 bp):
CATTAAAAAATATATTTTATTATTATTTTAA
Found at i:8357116 original size:18 final size:18
Alignment explanation
Indices: 8357080--8357116 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
8357070 TATTTTTAAA
* *
8357080 ATATTTTAACTTCATAAT
1 ATATTTTAACTTAAGAAT
8357098 ATATTTTAACTTAAGAAT
1 ATATTTTAACTTAAGAAT
8357116 A
1 A
8357117 AAATATATTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (18 bp):
ATATTTTAACTTAAGAAT
Found at i:8357121 original size:23 final size:23
Alignment explanation
Indices: 8357095--8357140 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
8357085 TTAACTTCAT
8357095 AATATA-TTTTAACTTAAGAATAA
1 AATATATTTTTAACTTAA-AATAA
*
8357118 AATATATTTTTAAGTTAAAATAA
1 AATATATTTTTAACTTAAAATAA
8357141 GATTAAAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 11 0.52
24 10 0.48
ACGTcount: A:0.52, C:0.02, G:0.04, T:0.41
Consensus pattern (23 bp):
AATATATTTTTAACTTAAAATAA
Found at i:8357205 original size:28 final size:30
Alignment explanation
Indices: 8357174--8357243 Score: 83
Period size: 30 Copynumber: 2.4 Consensus size: 30
8357164 GATAATATTA
8357174 AAAATATATTTTAT-A-TTAAA-ATAAAAAT
1 AAAATATATTTTATAAGTTAAATA-AAAAAT
*
8357202 AAAATATATTTAATAAGTTAAATAAAAAAT
1 AAAATATATTTTATAAGTTAAATAAAAAAT
**
8357232 AAAGGATATTTT
1 AAAATATATTTT
8357244 TGCAATTTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
28 13 0.37
29 1 0.03
30 20 0.57
31 1 0.03
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (30 bp):
AAAATATATTTTATAAGTTAAATAAAAAAT
Done.