Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_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: 12876159
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 35 of 54
Found at i:8505291 original size:117 final size:117
Alignment explanation
Indices: 8505085--8505320 Score: 472
Period size: 117 Copynumber: 2.0 Consensus size: 117
8505075 CGTGTATATC
8505085 TTTGGTGGGAGTGGATGCGTGTTGAAAGATGGTGTATTGGGGTTTTCATGGTTTGTGTGATATCA
1 TTTGGTGGGAGTGGATGCGTGTTGAAAGATGGTGTATTGGGGTTTTCATGGTTTGTGTGATATCA
8505150 AATTGTTAGTCATACAGTTATGTCGGGATTTATCACAGTGAGAGGGTTGTTT
66 AATTGTTAGTCATACAGTTATGTCGGGATTTATCACAGTGAGAGGGTTGTTT
8505202 TTTGGTGGGAGTGGATGCGTGTTGAAAGATGGTGTATTGGGGTTTTCATGGTTTGTGTGATATCA
1 TTTGGTGGGAGTGGATGCGTGTTGAAAGATGGTGTATTGGGGTTTTCATGGTTTGTGTGATATCA
8505267 AATTGTTAGTCATACAGTTATGTCGGGATTTATCACAGTGAGAGGGTTGTTT
66 AATTGTTAGTCATACAGTTATGTCGGGATTTATCACAGTGAGAGGGTTGTTT
8505319 TT
1 TT
8505321 ATGTGTGGTT
Statistics
Matches: 119, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
117 119 1.00
ACGTcount: A:0.20, C:0.07, G:0.33, T:0.40
Consensus pattern (117 bp):
TTTGGTGGGAGTGGATGCGTGTTGAAAGATGGTGTATTGGGGTTTTCATGGTTTGTGTGATATCA
AATTGTTAGTCATACAGTTATGTCGGGATTTATCACAGTGAGAGGGTTGTTT
Found at i:8507385 original size:29 final size:28
Alignment explanation
Indices: 8507344--8507444 Score: 80
Period size: 29 Copynumber: 3.5 Consensus size: 28
8507334 ATAAAAGTAA
*
8507344 TTTTTTAATATTACAATAAATACCAAAAC
1 TTTTATAA-ATTACAATAAATACCAAAAC
* * *
8507373 TATTTATAAATTAAAATCAAAGA-AAAAAC
1 T-TTTATAAATTACAAT-AAATACCAAAAC
* * *
8507402 TTCTCATAAATTACAAT-AATACCTATAAT
1 TT-TTATAAATTACAATAAATACC-AAAAC
8507431 TTTTATAAATTACA
1 TTTTATAAATTACA
8507445 TGAAAAGGTC
Statistics
Matches: 56, Mismatches: 11, Indels: 11
0.72 0.14 0.14
Matches are distributed among these distances:
27 3 0.05
28 12 0.21
29 31 0.55
30 10 0.18
ACGTcount: A:0.50, C:0.12, G:0.01, T:0.37
Consensus pattern (28 bp):
TTTTATAAATTACAATAAATACCAAAAC
Found at i:8507442 original size:28 final size:28
Alignment explanation
Indices: 8507407--8507492 Score: 77
Period size: 28 Copynumber: 3.0 Consensus size: 28
8507397 AAAACTTCTC
8507407 ATAAATTACAATAATACCTATAATTTTT
1 ATAAATTACAATAATACCTATAATTTTT
* ** *
8507435 ATAAATTAC-ATGAAAAGGTCTACATTTTT
1 ATAAATTACAAT-AATACCTATA-ATTTTT
* *
8507464 -CAAATTACAATAATATCCTATATTTTTT
1 ATAAATTACAATAATA-CCTATAATTTTT
8507492 A
1 A
8507493 CCAATTAAAA
Statistics
Matches: 43, Mismatches: 10, Indels: 9
0.69 0.16 0.15
Matches are distributed among these distances:
27 2 0.05
28 30 0.70
29 11 0.26
ACGTcount: A:0.43, C:0.12, G:0.03, T:0.42
Consensus pattern (28 bp):
ATAAATTACAATAATACCTATAATTTTT
Found at i:8507777 original size:129 final size:129
Alignment explanation
Indices: 8507547--8507801 Score: 510
Period size: 129 Copynumber: 2.0 Consensus size: 129
8507537 AGAGCTCTTG
8507547 CATGAGTTACATCTTCTCCCACACCTTGGCAGCCTTGAATCTATCTGTGTTCTCAATCTTGCCTT
1 CATGAGTTACATCTTCTCCCACACCTTGGCAGCCTTGAATCTATCTGTGTTCTCAATCTTGCCTT
8507612 CTCTTCATTCACCGCCTAGCCAAAGTATAAAAAGGAGAAAAACCTCAAATTTCATTATATTATA
66 CTCTTCATTCACCGCCTAGCCAAAGTATAAAAAGGAGAAAAACCTCAAATTTCATTATATTATA
8507676 CATGAGTTACATCTTCTCCCACACCTTGGCAGCCTTGAATCTATCTGTGTTCTCAATCTTGCCTT
1 CATGAGTTACATCTTCTCCCACACCTTGGCAGCCTTGAATCTATCTGTGTTCTCAATCTTGCCTT
8507741 CTCTTCATTCACCGCCTAGCCAAAGTATAAAAAGGAGAAAAACCTCAAATTTCATTATATT
66 CTCTTCATTCACCGCCTAGCCAAAGTATAAAAAGGAGAAAAACCTCAAATTTCATTATATT
8507802 TATTTATAAT
Statistics
Matches: 126, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
129 126 1.00
ACGTcount: A:0.29, C:0.27, G:0.12, T:0.33
Consensus pattern (129 bp):
CATGAGTTACATCTTCTCCCACACCTTGGCAGCCTTGAATCTATCTGTGTTCTCAATCTTGCCTT
CTCTTCATTCACCGCCTAGCCAAAGTATAAAAAGGAGAAAAACCTCAAATTTCATTATATTATA
Found at i:8510155 original size:21 final size:20
Alignment explanation
Indices: 8510091--8510172 Score: 87
Period size: 20 Copynumber: 4.0 Consensus size: 20
8510081 CTTTAAAAAT
*
8510091 TAATAATTTTTTATATTTTA
1 TAATAATTTTTAATATTTTA
**
8510111 T-ATTGTTTTTAAATATTTTA
1 TAATAATTTTT-AATATTTTA
8510131 -AATAATTATTTAATATTTTA
1 TAATAATT-TTTAATATTTTA
*
8510151 TAATAATTTTTTATTATTTTA
1 TAATAA-TTTTTAATATTTTA
8510172 T
1 T
8510173 GATTTTTAAA
Statistics
Matches: 51, Mismatches: 6, Indels: 9
0.77 0.09 0.14
Matches are distributed among these distances:
19 7 0.14
20 22 0.43
21 20 0.39
22 2 0.04
ACGTcount: A:0.35, C:0.00, G:0.01, T:0.63
Consensus pattern (20 bp):
TAATAATTTTTAATATTTTA
Found at i:8510159 original size:18 final size:19
Alignment explanation
Indices: 8510122--8510159 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
8510112 ATTGTTTTTA
*
8510122 AATATTTTAAATAATTATTT
1 AATATTTT-AATAATAATTT
8510142 AATATTTT-ATAATAATTT
1 AATATTTTAATAATAATTT
8510160 TTTATTATTT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
20 8 0.47
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
AATATTTTAATAATAATTT
Found at i:8510186 original size:30 final size:29
Alignment explanation
Indices: 8510092--8510200 Score: 89
Period size: 30 Copynumber: 3.7 Consensus size: 29
8510082 TTTAAAAATT
*
8510092 AATAATTTTTTA-TATTTTATATTGTTTTTA
1 AATAATTTTTTATTATTTTATA-T-TTTTAA
* * *
8510122 AAT-ATTTTAAATAATTATTTAATA-TTTTAT
1 AATAATTTT---TTATTATTTTATATTTTTAA
8510152 AATAATTTTTTATTATTTTATGATTTTTAA
1 AATAATTTTTTATTATTTTAT-ATTTTTAA
* *
8510182 AATAATTTTGTAATATTTT
1 AATAATTTTTTATTATTTT
8510201 TAGTTAAAAA
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
28 10 0.16
29 6 0.10
30 32 0.51
31 5 0.08
32 2 0.03
33 8 0.13
ACGTcount: A:0.36, C:0.00, G:0.03, T:0.61
Consensus pattern (29 bp):
AATAATTTTTTATTATTTTATATTTTTAA
Found at i:8511297 original size:13 final size:13
Alignment explanation
Indices: 8511279--8511304 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
8511269 AAAACACTTG
8511279 AAAATTATTTATA
1 AAAATTATTTATA
8511292 AAAATTATTTATA
1 AAAATTATTTATA
8511305 GAATCATAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (13 bp):
AAAATTATTTATA
Found at i:8515859 original size:47 final size:47
Alignment explanation
Indices: 8515802--8515922 Score: 179
Period size: 47 Copynumber: 2.6 Consensus size: 47
8515792 ATATTAGTGG
* * *
8515802 CTAGAACCAGTTTTGGGCACCTTTAGTAATTCTTGAATGTGTAACAA
1 CTAGAACCAGTTTCGGGCACCTCTAGTAATTCTCGAATGTGTAACAA
*
8515849 CTAGATCCAGTTTCGGGCACCTCTAGTAATTCTCGAATGTGTAACAA
1 CTAGAACCAGTTTCGGGCACCTCTAGTAATTCTCGAATGTGTAACAA
* **
8515896 CTAGAGCCAGTTTCTAGCACCTCTAGT
1 CTAGAACCAGTTTCGGGCACCTCTAGT
8515923 GAGATACTAT
Statistics
Matches: 67, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
47 67 1.00
ACGTcount: A:0.27, C:0.22, G:0.19, T:0.31
Consensus pattern (47 bp):
CTAGAACCAGTTTCGGGCACCTCTAGTAATTCTCGAATGTGTAACAA
Found at i:8516203 original size:16 final size:17
Alignment explanation
Indices: 8516178--8516211 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
8516168 CTGAGGTGTC
8516178 ACATTGACTTTT-CAAA
1 ACATTGACTTTTACAAA
*
8516194 ACATTTACTTTTACAAA
1 ACATTGACTTTTACAAA
8516211 A
1 A
8516212 GACTGAAAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.41, C:0.18, G:0.03, T:0.38
Consensus pattern (17 bp):
ACATTGACTTTTACAAA
Found at i:8516914 original size:21 final size:21
Alignment explanation
Indices: 8516876--8516946 Score: 97
Period size: 21 Copynumber: 3.3 Consensus size: 21
8516866 TATCCCAAAA
*
8516876 GACCACATAGAAATGTCCTGAAG
1 GACCACATAG--ATGTCCCGAAG
*
8516899 GACCACATATATGTCCCGAAG
1 GACCACATAGATGTCCCGAAG
*
8516920 GACCATATAGATGTCCCGAAG
1 GACCACATAGATGTCCCGAAG
8516941 GACCAC
1 GACCAC
8516947 TCCTTAAGGA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
21 34 0.79
23 9 0.21
ACGTcount: A:0.35, C:0.27, G:0.21, T:0.17
Consensus pattern (21 bp):
GACCACATAGATGTCCCGAAG
Found at i:8516990 original size:56 final size:56
Alignment explanation
Indices: 8516891--8516996 Score: 140
Period size: 56 Copynumber: 1.9 Consensus size: 56
8516881 CATAGAAATG
* * *
8516891 TCCTGAAGGACCACATATATGTCCCGAAGGACCATATAGATGTCCCGAAGGACCAC
1 TCCTGAAGGACCACATATATATCCCAAAGGACCAAATAGATGTCCCGAAGGACCAC
* * * * *
8516947 TCCTTAAGGATCACATATATATTCCAAATGACCAAATATATGTCCCGAAG
1 TCCTGAAGGACCACATATATATCCCAAAGGACCAAATAGATGTCCCGAAG
8516997 AACCGCATAT
Statistics
Matches: 42, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
56 42 1.00
ACGTcount: A:0.35, C:0.25, G:0.17, T:0.23
Consensus pattern (56 bp):
TCCTGAAGGACCACATATATATCCCAAAGGACCAAATAGATGTCCCGAAGGACCAC
Found at i:8519114 original size:27 final size:24
Alignment explanation
Indices: 8519073--8519124 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 24
8519063 CCGAAATTTT
8519073 TTAAAATTTTCTAATTTATATAAAAA
1 TTAAAATTTTCTAATTTA-A-AAAAA
*
8519099 TTAAATATTTTTTAATTTAAAAAAA
1 TTAAA-ATTTTCTAATTTAAAAAAA
8519124 T
1 T
8519125 AGTTTACAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 6 0.25
26 6 0.25
27 12 0.50
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (24 bp):
TTAAAATTTTCTAATTTAAAAAAA
Found at i:8522105 original size:21 final size:21
Alignment explanation
Indices: 8522066--8522133 Score: 100
Period size: 21 Copynumber: 3.1 Consensus size: 21
8522056 CCACTAGGGG
8522066 CACATAGAATTGTCCCGAAGGAC
1 CACATAG-A-TGTCCCGAAGGAC
* *
8522089 CACATATATGTCTCGAAGGAC
1 CACATAGATGTCCCGAAGGAC
8522110 CACATAGATGTCCCGAAGGAC
1 CACATAGATGTCCCGAAGGAC
8522131 CAC
1 CAC
8522134 TCCTTAAGGA
Statistics
Matches: 41, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
21 34 0.83
22 1 0.02
23 6 0.15
ACGTcount: A:0.34, C:0.28, G:0.21, T:0.18
Consensus pattern (21 bp):
CACATAGATGTCCCGAAGGAC
Found at i:8522227 original size:42 final size:42
Alignment explanation
Indices: 8522148--8522229 Score: 101
Period size: 42 Copynumber: 2.0 Consensus size: 42
8522138 TAAGGATCAC
* * *
8522148 ATATATATTCCAAAGGACCAAATATGTGTCCCGAAGAACCGT
1 ATATATATTCCAAAGGACCAAATATATATCCCAAAGAACCGT
* ** *
8522190 ATATATGTTCCAAAGGATTACATATATATCCCAAAGAACC
1 ATATATATTCCAAAGGACCAAATATATATCCCAAAGAACC
8522230 ACATAGAACC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
42 33 1.00
ACGTcount: A:0.40, C:0.21, G:0.13, T:0.26
Consensus pattern (42 bp):
ATATATATTCCAAAGGACCAAATATATATCCCAAAGAACCGT
Found at i:8522233 original size:21 final size:21
Alignment explanation
Indices: 8522145--8522234 Score: 63
Period size: 21 Copynumber: 4.3 Consensus size: 21
8522135 CCTTAAGGAT
* *
8522145 CACATATATATTCCAAAGGAC
1 CACATATATATCCCAAAGAAC
* * * *
8522166 CAAATATGTGTCCCGAAGAAC
1 CACATATATATCCCAAAGAAC
** * * * *
8522187 CGTATATATGTTCCAAAGGAT
1 CACATATATATCCCAAAGAAC
*
8522208 TACATATATATCCCAAAGAAC
1 CACATATATATCCCAAAGAAC
8522229 CACATA
1 CACATA
8522235 GAACCCTCGA
Statistics
Matches: 48, Mismatches: 21, Indels: 0
0.70 0.30 0.00
Matches are distributed among these distances:
21 48 1.00
ACGTcount: A:0.41, C:0.22, G:0.12, T:0.24
Consensus pattern (21 bp):
CACATATATATCCCAAAGAAC
Found at i:8523370 original size:20 final size:21
Alignment explanation
Indices: 8523323--8523375 Score: 56
Period size: 20 Copynumber: 2.6 Consensus size: 21
8523313 CTTATCTATG
* * *
8523323 CATCCATAGCCCATCATATTT
1 CATCAATAGCTCATCATATAT
8523344 CAT-AATAGCTCATCA-ATAT
1 CATCAATAGCTCATCATATAT
*
8523363 CATCAATATCTCA
1 CATCAATAGCTCA
8523376 CCTTAACTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 6 0.22
20 18 0.67
21 3 0.11
ACGTcount: A:0.36, C:0.28, G:0.04, T:0.32
Consensus pattern (21 bp):
CATCAATAGCTCATCATATAT
Found at i:8525943 original size:23 final size:22
Alignment explanation
Indices: 8525917--8525970 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
8525907 AGAATACAAT
8525917 AATAAAAATAAAAAAAT-TGAATA
1 AATAAAAATAAAAAAATCT--ATA
*
8525940 AATAAAGAT-AAAAAATCTATA
1 AATAAAAATAAAAAAATCTATA
8525961 AATAAAAATA
1 AATAAAAATA
8525971 TCAAAGGAGA
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
21 11 0.41
22 7 0.26
23 9 0.33
ACGTcount: A:0.72, C:0.02, G:0.04, T:0.22
Consensus pattern (22 bp):
AATAAAAATAAAAAAATCTATA
Found at i:8529588 original size:29 final size:30
Alignment explanation
Indices: 8529540--8529597 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 30
8529530 AAACCCGAGT
* * * *
8529540 ATTTTTATTTATTTTTATTT-GGCCATGTA
1 ATTTTAATTTATTATAATTTAGCCCATGTA
8529569 ATTTTAATTTATTATAATTTAGCCCATGT
1 ATTTTAATTTATTATAATTTAGCCCATGT
8529598 TTTATTTATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
29 17 0.71
30 7 0.29
ACGTcount: A:0.26, C:0.09, G:0.09, T:0.57
Consensus pattern (30 bp):
ATTTTAATTTATTATAATTTAGCCCATGTA
Found at i:8531720 original size:46 final size:47
Alignment explanation
Indices: 8531630--8531720 Score: 105
Period size: 46 Copynumber: 2.0 Consensus size: 47
8531620 GTAGTGTAAT
* * **
8531630 TTTAATTTCTGAATAAATGCATGCGGACTAGAGATCATGCGGTTAGG
1 TTTAATTTCTGAATAAATGCATGCGAACTAGAGAACATAAGGTTAGG
* *
8531677 TTTAATTTTTCGAAT-AA-GCATGCGAACTAGATAACATAAGGTTA
1 TTTAATTTCT-GAATAAATGCATGCGAACTAGAGAACATAAGGTTA
8531721 AGATTTCAAT
Statistics
Matches: 37, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
46 22 0.59
47 11 0.30
48 4 0.11
ACGTcount: A:0.34, C:0.12, G:0.21, T:0.33
Consensus pattern (47 bp):
TTTAATTTCTGAATAAATGCATGCGAACTAGAGAACATAAGGTTAGG
Found at i:8534107 original size:52 final size:52
Alignment explanation
Indices: 8534029--8534181 Score: 227
Period size: 52 Copynumber: 2.9 Consensus size: 52
8534019 TAAGAATCGA
*
8534029 TGTTTCATCTAGA-CCTCAGGCAATCTCTCAAAGCTCTTACAGTGTCAAGACG
1 TGTTTCATCTAGACCCT-AGGCAATCTCTCGAAGCTCTTACAGTGTCAAGACG
* * * *
8534081 TGTTTCACCTAGACCCTAGGCAATCTCTTGAAGCTCTTATAGTGTTAAGACG
1 TGTTTCATCTAGACCCTAGGCAATCTCTCGAAGCTCTTACAGTGTCAAGACG
* *
8534133 TGTTTCGTCTAGACCCTAGGAAATCTCTCGAAGCTCTTACAGTGTCAAG
1 TGTTTCATCTAGACCCTAGGCAATCTCTCGAAGCTCTTACAGTGTCAAG
8534182 GAAAAATATT
Statistics
Matches: 89, Mismatches: 11, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
52 86 0.97
53 3 0.03
ACGTcount: A:0.25, C:0.25, G:0.19, T:0.31
Consensus pattern (52 bp):
TGTTTCATCTAGACCCTAGGCAATCTCTCGAAGCTCTTACAGTGTCAAGACG
Found at i:8542019 original size:6 final size:6
Alignment explanation
Indices: 8542003--8542044 Score: 66
Period size: 6 Copynumber: 7.0 Consensus size: 6
8541993 TATGCTAAAT
* *
8542003 GGGGAC AGGGAC GGGGAC GGGGAC AGGGAC GGGGAC GGGGAC
1 GGGGAC GGGGAC GGGGAC GGGGAC GGGGAC GGGGAC GGGGAC
8542045 AGGTTTAGTA
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.21, C:0.17, G:0.62, T:0.00
Consensus pattern (6 bp):
GGGGAC
Found at i:8542026 original size:18 final size:18
Alignment explanation
Indices: 8542003--8542047 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
8541993 TATGCTAAAT
8542003 GGGGACAGGGACGGGGAC
1 GGGGACAGGGACGGGGAC
8542021 GGGGACAGGGACGGGGAC
1 GGGGACAGGGACGGGGAC
8542039 GGGGACAGG
1 GGGGACAGG
8542048 TTTAGTAATC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.22, C:0.16, G:0.62, T:0.00
Consensus pattern (18 bp):
GGGGACAGGGACGGGGAC
Found at i:8552753 original size:20 final size:20
Alignment explanation
Indices: 8552728--8552823 Score: 183
Period size: 20 Copynumber: 4.8 Consensus size: 20
8552718 TTTGGTTCAC
8552728 GGAATAAAAGATTACCGGTG
1 GGAATAAAAGATTACCGGTG
8552748 GGAATAAAAGATTACCGGTG
1 GGAATAAAAGATTACCGGTG
8552768 GGAATAAAAGATTACCGGTG
1 GGAATAAAAGATTACCGGTG
*
8552788 GGAATAAAAGATTACCGGTT
1 GGAATAAAAGATTACCGGTG
8552808 GGAATAAAAGATTACC
1 GGAATAAAAGATTACC
8552824 AGGGAATAGG
Statistics
Matches: 75, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
20 75 1.00
ACGTcount: A:0.42, C:0.10, G:0.27, T:0.21
Consensus pattern (20 bp):
GGAATAAAAGATTACCGGTG
Found at i:8552998 original size:15 final size:15
Alignment explanation
Indices: 8552980--8553010 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
8552970 AAATTCTAAA
8552980 TATTTAAATAAAAAT
1 TATTTAAATAAAAAT
*
8552995 TATTTATATAAAAAT
1 TATTTAAATAAAAAT
8553010 T
1 T
8553011 CTATATGTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TATTTAAATAAAAAT
Found at i:8557381 original size:65 final size:66
Alignment explanation
Indices: 8557310--8557439 Score: 190
Period size: 66 Copynumber: 2.0 Consensus size: 66
8557300 GAACAGAAAA
* * **
8557310 TTTGATTCAATGTGAAGTTCC-CTCAAGTCTAGGTGAGGATGGTTTGTTGTTTCTGATTGATGCA
1 TTTGATTCAATGTGAAGATCCTCTCAAGTCTAGATGAGGATGGTTTACTGTTTCTGATTGATGCA
8557374 C
66 C
* * *
8557375 TTTGATTCAATGTGAAGATCCTTTCATGTCTAGATGAGGATGGTTTACTGTTTCTGATTGTTGCA
1 TTTGATTCAATGTGAAGATCCTCTCAAGTCTAGATGAGGATGGTTTACTGTTTCTGATTGATGCA
8557440 TTTAGCTTGG
Statistics
Matches: 57, Mismatches: 7, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
65 20 0.35
66 37 0.65
ACGTcount: A:0.21, C:0.13, G:0.25, T:0.42
Consensus pattern (66 bp):
TTTGATTCAATGTGAAGATCCTCTCAAGTCTAGATGAGGATGGTTTACTGTTTCTGATTGATGCA
C
Found at i:8559174 original size:21 final size:21
Alignment explanation
Indices: 8559148--8559199 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
8559138 TTTTGATTTG
8559148 TTACGGTGCTGATGTGACAGT
1 TTACGGTGCTGATGTGACAGT
*
8559169 TTACGGTACTGATGTGACAGT
1 TTACGGTGCTGATGTGACAGT
*
8559190 TCACGGTGCT
1 TTACGGTGCT
8559200 AACATGACAG
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.19, C:0.17, G:0.31, T:0.33
Consensus pattern (21 bp):
TTACGGTGCTGATGTGACAGT
Found at i:8559207 original size:21 final size:21
Alignment explanation
Indices: 8559183--8559228 Score: 65
Period size: 21 Copynumber: 2.2 Consensus size: 21
8559173 GGTACTGATG
* *
8559183 TGACAGTTCACGGTGCTAACA
1 TGACAGTCCACGATGCTAACA
*
8559204 TGACAGTCCACGATGCTGACA
1 TGACAGTCCACGATGCTAACA
8559225 TGAC
1 TGAC
8559229 TGTCTACAAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.28, C:0.26, G:0.24, T:0.22
Consensus pattern (21 bp):
TGACAGTCCACGATGCTAACA
Found at i:8559432 original size:23 final size:21
Alignment explanation
Indices: 8559400--8559448 Score: 62
Period size: 21 Copynumber: 2.2 Consensus size: 21
8559390 AAATATTTAA
*
8559400 AAAAATTAAATATAAAATATACT
1 AAAAAGTAAA-ATAAAAT-TACT
*
8559423 AAAAAGTAAAATTAAATTACT
1 AAAAAGTAAAATAAAATTACT
8559444 AAAAA
1 AAAAA
8559449 ATTGAATATA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
21 9 0.38
22 6 0.25
23 9 0.38
ACGTcount: A:0.67, C:0.04, G:0.02, T:0.27
Consensus pattern (21 bp):
AAAAAGTAAAATAAAATTACT
Found at i:8559569 original size:14 final size:14
Alignment explanation
Indices: 8559550--8559576 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
8559540 TATTAAAAAA
8559550 TTAAAAAAAATATT
1 TTAAAAAAAATATT
8559564 TTAAAAAAAATAT
1 TTAAAAAAAATAT
8559577 ATATTATACA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (14 bp):
TTAAAAAAAATATT
Found at i:8559684 original size:81 final size:81
Alignment explanation
Indices: 8559503--8559685 Score: 205
Period size: 81 Copynumber: 2.2 Consensus size: 81
8559493 TATTTTTTTA
*
8559503 ATATATGTCATAATTTATAAAATAATAACTTATAAATTATTAAAAAATTAAAAAAAATATTTTAA
1 ATATATGTAAT-A-TTATAAAATAATAACTTATAAATTATTAAAAAATT--AAAAAATATTTTAA
*
8559568 AAAAAATATATATTATACAT
62 AAAAAATATATAATATACAT
* * * *
8559588 ATATAT-CAA-GTTATAAAATGATAACTTATAAATTATT-AAAAATT-TAAAATATTTTAAAAAA
1 ATATATGTAATATTATAAAATAATAACTTATAAATTATTAAAAAATTAAAAAATATTTTAAAAAA
*
8559649 TATATTATACATA-ACAT
66 AATA-TATA-ATATACAT
8559666 ATATATGTAATATATATAAA
1 ATATATGTAATAT-TATAAA
8559686 TATATCATCA
Statistics
Matches: 84, Mismatches: 9, Indels: 14
0.79 0.08 0.13
Matches are distributed among these distances:
77 19 0.23
78 14 0.17
79 4 0.05
80 8 0.10
81 32 0.38
84 1 0.01
85 6 0.07
ACGTcount: A:0.56, C:0.04, G:0.02, T:0.38
Consensus pattern (81 bp):
ATATATGTAATATTATAAAATAATAACTTATAAATTATTAAAAAATTAAAAAATATTTTAAAAAA
AATATATAATATACAT
Found at i:8560612 original size:10 final size:10
Alignment explanation
Indices: 8560597--8560648 Score: 50
Period size: 10 Copynumber: 5.2 Consensus size: 10
8560587 ATTTTATATA
8560597 TTTTGAATTT
1 TTTTGAATTT
**
8560607 TTTTGAAAAT
1 TTTTGAATTT
*
8560617 GTTTGAATTT
1 TTTTGAATTT
**
8560627 TTTTGAAAAT
1 TTTTGAATTT
*
8560637 GTTTGAATTT
1 TTTTGAATTT
8560647 TT
1 TT
8560649 AAATTATTAT
Statistics
Matches: 30, Mismatches: 12, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
10 30 1.00
ACGTcount: A:0.27, C:0.00, G:0.13, T:0.60
Consensus pattern (10 bp):
TTTTGAATTT
Found at i:8560623 original size:20 final size:20
Alignment explanation
Indices: 8560598--8560648 Score: 102
Period size: 20 Copynumber: 2.5 Consensus size: 20
8560588 TTTTATATAT
8560598 TTTGAATTTTTTTGAAAATG
1 TTTGAATTTTTTTGAAAATG
8560618 TTTGAATTTTTTTGAAAATG
1 TTTGAATTTTTTTGAAAATG
8560638 TTTGAATTTTT
1 TTTGAATTTTT
8560649 AAATTATTAT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.27, C:0.00, G:0.14, T:0.59
Consensus pattern (20 bp):
TTTGAATTTTTTTGAAAATG
Found at i:8566711 original size:21 final size:21
Alignment explanation
Indices: 8566686--8566728 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
8566676 TCGAAATTAT
*
8566686 TAAAAATATTAATATTTTAAA
1 TAAAAATAATAATATTTTAAA
8566707 TAAAAATAATAATATTTTAAA
1 TAAAAATAATAATATTTTAAA
8566728 T
1 T
8566729 TATTTTTTAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (21 bp):
TAAAAATAATAATATTTTAAA
Found at i:8567105 original size:3 final size:3
Alignment explanation
Indices: 8567097--8567135 Score: 53
Period size: 3 Copynumber: 13.3 Consensus size: 3
8567087 TATATAATAG
* *
8567097 ATT ATT ATT AAT AAT ATT ATT ATT ATT A-T ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A
8567136 ATACTATTAA
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
2 2 0.06
3 31 0.94
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (3 bp):
ATT
Found at i:8567143 original size:9 final size:9
Alignment explanation
Indices: 8567099--8567146 Score: 51
Period size: 9 Copynumber: 5.1 Consensus size: 9
8567089 TATAATAGAT
8567099 TATTATTAA
1 TATTATTAA
* *
8567108 TAATATTAT
1 TATTATTAA
8567117 TATTATTATA
1 TATTATTA-A
8567127 TTATTATTAA
1 -TATTATTAA
*
8567137 TACTATTAA
1 TATTATTAA
8567146 T
1 T
8567147 TTTGTTTTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
9 23 0.72
10 1 0.03
11 8 0.25
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (9 bp):
TATTATTAA
Found at i:8567511 original size:22 final size:21
Alignment explanation
Indices: 8567465--8567508 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
8567455 GGCCTTATGG
8567465 AAGGGGGGAAATGATTTTTTA
1 AAGGGGGGAAATGATTTTTTA
8567486 AAGGGGGGAAATGATTTTTTA
1 AAGGGGGGAAATGATTTTTTA
8567507 AA
1 AA
8567509 AGGCAGAGTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.32, T:0.32
Consensus pattern (21 bp):
AAGGGGGGAAATGATTTTTTA
Found at i:8568823 original size:39 final size:39
Alignment explanation
Indices: 8568769--8568848 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
8568759 GTCACAGCCA
8568769 ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
1 ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
8568808 ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
1 ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
8568847 AT
1 AT
8568849 GTGATACATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.41
Consensus pattern (39 bp):
ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
Found at i:8570191 original size:16 final size:17
Alignment explanation
Indices: 8570170--8570202 Score: 59
Period size: 16 Copynumber: 2.0 Consensus size: 17
8570160 TGAATTAAAG
8570170 CATGTGGGGTA-GATAT
1 CATGTGGGGTAGGATAT
8570186 CATGTGGGGTAGGATAT
1 CATGTGGGGTAGGATAT
8570203 TTTCATTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 11 0.69
17 5 0.31
ACGTcount: A:0.24, C:0.06, G:0.39, T:0.30
Consensus pattern (17 bp):
CATGTGGGGTAGGATAT
Found at i:8570988 original size:19 final size:19
Alignment explanation
Indices: 8570964--8571009 Score: 74
Period size: 19 Copynumber: 2.4 Consensus size: 19
8570954 ATTTAGACAT
8570964 TTTGCATTTTATTATTTGC
1 TTTGCATTTTATTATTTGC
* *
8570983 TTTGCATTTTGTTATTTTC
1 TTTGCATTTTATTATTTGC
8571002 TTTGCATT
1 TTTGCATT
8571010 CACATTAACT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 25 1.00
ACGTcount: A:0.13, C:0.11, G:0.11, T:0.65
Consensus pattern (19 bp):
TTTGCATTTTATTATTTGC
Found at i:8574210 original size:106 final size:106
Alignment explanation
Indices: 8574025--8574905 Score: 1495
Period size: 106 Copynumber: 8.4 Consensus size: 106
8574015 TACAGCCTTT
* * *
8574025 AGAGCCAATTTTAACTTCACAACGAATGATATTGGACTCCAAACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
8574090 CGAAGGGACCGCTGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
8574131 AGAGCCAATTTCAACTTCACAATGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
8574196 CGAAGGGACCGCTGGTTGTC-ATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
8574236 AGAGCCAATTTC-ACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
8574300 CGAA-GG---GCTGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
8574337 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* *
8574402 CGAAGGGACCACTGGTTGTCAATAACCAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
8574443 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTTAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
8574508 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
8574549 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGTAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
8574614 CGAAGGGACTGCTGGTTGTCAATAAACAACTTCTCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
8574655 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
*
8574720 CGAAGGGACCGCTGGTTGTCAATAAACAACTTATCAATTTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
*
8574761 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCTAGACAACGCAAGTTCAACTTCACGA
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
* ** * *
8574826 TGAAGGGACCGCTGGTTGTCAATAAACAGTTTCCCAATCTC
66 CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
* * * *
8574867 AGGGCCGATTTCAACTTCACGACGGAGGATATTGGACTC
1 AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTC
8574906 GAAACAATGC
Statistics
Matches: 741, Mismatches: 28, Indels: 12
0.95 0.04 0.02
Matches are distributed among these distances:
100 10 0.01
101 32 0.04
102 56 0.08
103 4 0.01
104 54 0.07
105 32 0.04
106 553 0.75
ACGTcount: A:0.33, C:0.25, G:0.18, T:0.24
Consensus pattern (106 bp):
AGAGCCAATTTCAACTTCACAACGAAGGATATTGGACTCCAGACAACGCAAGTTCAACTTCACGA
CGAAGGGACCGCTGGTTGTCAATAAACAACTTCTCAATTTC
Found at i:8575439 original size:84 final size:85
Alignment explanation
Indices: 8575110--8575436 Score: 406
Period size: 85 Copynumber: 3.8 Consensus size: 85
8575100 AAGACCCCCG
* * * * * *
8575110 AGTTCGATTACACTCAGCTTCGAGGGCACATCATTTGCAGCATAACTTAAGTCGAGAAGGGTTAT
1 AGTTCGATTCCACTCAGC-TCCAAGGCGCATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTAT
*
8575175 CTGCCAACCAAAGAGCCTTCG
65 CTGCCAACCAAAGAGCCTTCA
* * * * *
8575196 AGTTCGATTTCATTCAGCTCCAAGGCGCATCATTTACAGCATAACTTAAGTCGAGAAGGGTTATC
1 AGTTCGATTCCACTCAGCTCCAAGGCGCATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATC
8575261 TGCCAACCAAAGAGCCTTCA
66 TGCCAACCAAAGAGCCTTCA
* * * *
8575281 AGTTCGATTCCATTCAGCTCCAATGCGCATCATTTGCAGCATAACTCAAGGCTAGAAGAGTTATC
1 AGTTCGATTCCACTCAGCTCCAAGGCGCATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATC
* *
8575346 TGTCAA-CAAATA-CCTTCA
66 TGCCAACCAAAGAGCCTTCA
* * * * *
8575364 AGTTTGATTCCACTCAGCTCAAAGGCACCATCATTTGCAGCATAGCTCAAGGCAAGAAGGGTTAT
1 AGTTCGATTCCACTCAGCTCCAAGGC-GCATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTAT
*
8575429 CTGTCAAC
65 CTGCCAAC
8575437 AAAATTATCG
Statistics
Matches: 215, Mismatches: 24, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
83 28 0.13
84 46 0.21
85 125 0.58
86 16 0.07
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (85 bp):
AGTTCGATTCCACTCAGCTCCAAGGCGCATCATTTGCAGCATAACTCAAGGCGAGAAGGGTTATC
TGCCAACCAAAGAGCCTTCA
Found at i:8575956 original size:2 final size:2
Alignment explanation
Indices: 8575951--8575993 Score: 54
Period size: 2 Copynumber: 22.0 Consensus size: 2
8575941 ATGTTTTTTC
*
8575951 TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA GTA -A TA TA -A TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA -TA TA TA TA TA TA
8575992 TA
1 TA
8575994 ATTTTTTTTG
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
1 2 0.06
2 32 0.89
3 2 0.06
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
TA
Found at i:8576039 original size:3 final size:3
Alignment explanation
Indices: 8576022--8576069 Score: 71
Period size: 3 Copynumber: 16.3 Consensus size: 3
8576012 TATATAATAG
* *
8576022 ATT ATT ATG AAT ATT ATT ATT ATT ATT ATT ATT A-T ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
8576069 A
1 A
8576070 ATACTATTAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
2 2 0.05
3 38 0.95
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (3 bp):
ATT
Found at i:8577688 original size:39 final size:39
Alignment explanation
Indices: 8577634--8577713 Score: 160
Period size: 39 Copynumber: 2.1 Consensus size: 39
8577624 GTCAGAGCCA
8577634 ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
1 ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
8577673 ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
1 ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
8577712 AT
1 AT
8577714 GTGATACATG
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.31, C:0.15, G:0.12, T:0.41
Consensus pattern (39 bp):
ATAACTCTAGCTTTAGTTCAACTCTTAAGGATATTTATG
Found at i:8578550 original size:21 final size:21
Alignment explanation
Indices: 8578524--8578611 Score: 101
Period size: 21 Copynumber: 4.2 Consensus size: 21
8578514 GATTCGTAAC
* *
8578524 GCGAACTTCTACTATCGCATT
1 GCGAACTTCGACTATCGCAAT
*
8578545 GCGAACTTGGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
*
8578566 GCGAA-TAT-GTA-AATCGCAAT
1 GCGAACT-TCG-ACTATCGCAAT
8578586 GCGAACTTCGACTATCGCAAT
1 GCGAACTTCGACTATCGCAAT
8578607 GCGAA
1 GCGAA
8578612 TATGTAAATC
Statistics
Matches: 57, Mismatches: 5, Indels: 10
0.79 0.07 0.14
Matches are distributed among these distances:
20 17 0.30
21 40 0.70
ACGTcount: A:0.31, C:0.24, G:0.20, T:0.25
Consensus pattern (21 bp):
GCGAACTTCGACTATCGCAAT
Found at i:8578582 original size:41 final size:41
Alignment explanation
Indices: 8578537--8578627 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
8578527 AACTTCTACT
* *
8578537 ATCGCATTGCGAACTTGGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAA
8578578 ATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAA
8578619 ATCGCAATG
1 ATCGCAATG
8578628 TGATAGTCGA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (41 bp):
ATCGCAATGCGAACTTCGACTATCGCAATGCGAATATGTAA
Found at i:8578583 original size:20 final size:20
Alignment explanation
Indices: 8578558--8578627 Score: 90
Period size: 20 Copynumber: 3.5 Consensus size: 20
8578548 AACTTGGACT
8578558 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
*
8578578 ATCGCAATGCGAACT-TCG-ACT
1 ATCGCAATGCGAA-TAT-GTA-A
8578599 ATCGCAATGCGAATATGTAA
1 ATCGCAATGCGAATATGTAA
8578619 ATCGCAATG
1 ATCGCAATG
8578628 TGATAGTCGA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
20 26 0.60
21 17 0.40
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (20 bp):
ATCGCAATGCGAATATGTAA
Found at i:8578653 original size:21 final size:21
Alignment explanation
Indices: 8578620--8578734 Score: 144
Period size: 21 Copynumber: 5.6 Consensus size: 21
8578610 AATATGTAAA
* * *
8578620 TCGCAATGTGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
*
8578641 TCGCATTGCGATAGTCGAAGT
1 TCGCATTGCGATAGTCCAAGT
8578662 TCGCATTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
* ** *
8578683 TCGCGTTGCGATTTTCCAAAT
1 TCGCATTGCGATAGTCCAAGT
8578704 TCG--TTGCGATAGTCCAAGT
1 TCGCATTGCGATAGTCCAAGT
8578723 TCGCATTGCGAT
1 TCGCATTGCGAT
8578735 TTATTCCAAA
Statistics
Matches: 82, Mismatches: 10, Indels: 4
0.85 0.10 0.04
Matches are distributed among these distances:
19 16 0.20
21 66 0.80
ACGTcount: A:0.23, C:0.21, G:0.25, T:0.31
Consensus pattern (21 bp):
TCGCATTGCGATAGTCCAAGT
Found at i:8578710 original size:19 final size:19
Alignment explanation
Indices: 8578686--8578746 Score: 59
Period size: 19 Copynumber: 3.0 Consensus size: 19
8578676 TCCAAGTTCG
8578686 CGTTGCGATTTTCCAAATT
1 CGTTGCGATTTTCCAAATT
** *
8578705 CGTTGCGATAGTCCAAGTT
1 CGTTGCGATTTTCCAAATT
8578724 CGCATTGCGATTTATTCCAAATT
1 CG--TTGCGA-TT-TTCCAAATT
8578747 TTCTCTAAAA
Statistics
Matches: 32, Mismatches: 6, Indels: 4
0.76 0.14 0.10
Matches are distributed among these distances:
19 18 0.56
21 6 0.19
22 1 0.03
23 7 0.22
ACGTcount: A:0.23, C:0.21, G:0.18, T:0.38
Consensus pattern (19 bp):
CGTTGCGATTTTCCAAATT
Found at i:8578721 original size:40 final size:41
Alignment explanation
Indices: 8578629--8578746 Score: 148
Period size: 42 Copynumber: 2.8 Consensus size: 41
8578619 ATCGCAATGT
* ** * *
8578629 GATAGTCGAAGTTCGCATTGCGATAGTCGAAGTTCGCATTGC
1 GATAGTCCAAGTTCGCATTGCGATTTTCCAAATTCG-ATTGC
*
8578671 GATAGTCCAAGTTCGCGTTGCGATTTTCCAAATTCG-TTGC
1 GATAGTCCAAGTTCGCATTGCGATTTTCCAAATTCGATTGC
8578711 GATAGTCCAAGTTCGCATTGCGATTTATTCCAAATT
1 GATAGTCCAAGTTCGCATTGCGA-TT-TTCCAAATT
8578747 TTCTCTAAAA
Statistics
Matches: 67, Mismatches: 7, Indels: 4
0.86 0.09 0.05
Matches are distributed among these distances:
40 26 0.39
41 2 0.03
42 39 0.58
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (41 bp):
GATAGTCCAAGTTCGCATTGCGATTTTCCAAATTCGATTGC
Found at i:8579456 original size:40 final size:41
Alignment explanation
Indices: 8579401--8579527 Score: 143
Period size: 41 Copynumber: 3.0 Consensus size: 41
8579391 TTTTAGAGAA
8579401 AATTTGGAATAAATTGCAATGCGAACTTCGACTATCGCAA-CG
1 AATTT-GAA-AAATTGCAATGCGAACTTCGACTATCGCAAGCG
*
8579443 AATTTGAAAAATTGCAACGCGAACTTCGACTATCGCAATGCG
1 AATTTGAAAAATTGCAATGCGAACTTCGACTATCGCAA-GCG
* * * *
8579485 AATATG-TAAATCGCAATGCGATA-GTCGACTATCGCAATGCG
1 AATTTGAAAAATTGCAATGCGA-ACTTCGACTATCGCAA-GCG
8579526 AA
1 AA
8579528 CTTCGACTAT
Statistics
Matches: 76, Mismatches: 6, Indels: 7
0.85 0.07 0.08
Matches are distributed among these distances:
40 29 0.38
41 34 0.45
42 13 0.17
ACGTcount: A:0.36, C:0.20, G:0.20, T:0.24
Consensus pattern (41 bp):
AATTTGAAAAATTGCAATGCGAACTTCGACTATCGCAAGCG
Found at i:8579480 original size:21 final size:20
Alignment explanation
Indices: 8579416--8579588 Score: 106
Period size: 21 Copynumber: 8.4 Consensus size: 20
8579406 GGAATAAATT
8579416 GCAATGCGAACTTCGACTATC
1 GCAATGCGAA-TTCGACTATC
* ** *
8579437 GCAA--CGAATTTGAAAAATT
1 GCAATGCGAATTCG-ACTATC
*
8579456 GCAACGCGAACTTCGACTATC
1 GCAATGCGAA-TTCGACTATC
*
8579477 GCAATGCGAATAT-GTA-AATC
1 GCAATGCGAAT-TCG-ACTATC
*
8579497 GCAATGCGATAGTCGACTATC
1 GCAATGCGA-ATTCGACTATC
8579518 GCAATGCGAACTTCGACTATC
1 GCAATGCGAA-TTCGACTATC
* *
8579539 GCATTGCG-ATT-TACATATTC
1 GCAATGCGAATTCGAC-TA-TC
* *
8579559 GCATTGCGATAGTCGACTATC
1 GCAATGCGA-ATTCGACTATC
*
8579580 GCATTGCGA
1 GCAATGCGA
8579589 TTTACATATT
Statistics
Matches: 120, Mismatches: 17, Indels: 30
0.72 0.10 0.18
Matches are distributed among these distances:
18 5 0.04
19 15 0.12
20 28 0.23
21 63 0.52
22 7 0.06
23 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (20 bp):
GCAATGCGAATTCGACTATC
Found at i:8579561 original size:41 final size:41
Alignment explanation
Indices: 8579530--8579613 Score: 168
Period size: 41 Copynumber: 2.0 Consensus size: 41
8579520 AATGCGAACT
8579530 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
8579571 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
1 TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
8579612 TC
1 TC
8579614 CAAGTTCGCA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 43 1.00
ACGTcount: A:0.24, C:0.23, G:0.19, T:0.35
Consensus pattern (41 bp):
TCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAG
Found at i:8579562 original size:20 final size:20
Alignment explanation
Indices: 8579537--8579609 Score: 96
Period size: 20 Copynumber: 3.6 Consensus size: 20
8579527 ACTTCGACTA
8579537 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
*
8579557 TCGCATTGCGATAGT-CGACTA-
1 TCGCATTGCGAT-TTAC-A-TAT
8579578 TCGCATTGCGATTTACATAT
1 TCGCATTGCGATTTACATAT
8579598 TCGCATTGCGAT
1 TCGCATTGCGAT
8579610 AGTCCAAGTT
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
19 2 0.04
20 27 0.59
21 15 0.33
22 2 0.04
ACGTcount: A:0.23, C:0.22, G:0.19, T:0.36
Consensus pattern (20 bp):
TCGCATTGCGATTTACATAT
Found at i:8579589 original size:21 final size:21
Alignment explanation
Indices: 8579494--8579636 Score: 104
Period size: 21 Copynumber: 6.9 Consensus size: 21
8579484 GAATATGTAA
*
8579494 ATCGCAATGCGATAGTCGACT
1 ATCGCATTGCGATAGTCGACT
* *
8579515 ATCGCAATGCGA-ACTTCGACT
1 ATCGCATTGCGATA-GTCGACT
*
8579536 ATCGCATTGCGAT--T-TACAT
1 ATCGCATTGCGATAGTCGAC-T
8579555 ATTCGCATTGCGATAGTCGACT
1 A-TCGCATTGCGATAGTCGACT
*
8579577 ATCGCATTGCGAT--T-TACAT
1 ATCGCATTGCGATAGTCGAC-T
* *
8579596 ATTCGCATTGCGATAGTCCAAGT
1 A-TCGCATTGCGATAGT-CGACT
*
8579619 -TCGCAATGCGATAGTCGA
1 ATCGCATTGCGATAGTCGA
8579637 AGTTCGCGTT
Statistics
Matches: 100, Mismatches: 9, Indels: 27
0.74 0.07 0.20
Matches are distributed among these distances:
18 4 0.04
19 6 0.06
20 27 0.27
21 55 0.55
22 4 0.04
23 3 0.03
24 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.21, T:0.29
Consensus pattern (21 bp):
ATCGCATTGCGATAGTCGACT
Found at i:8579622 original size:62 final size:62
Alignment explanation
Indices: 8579456--8579636 Score: 187
Period size: 62 Copynumber: 2.9 Consensus size: 62
8579446 TTGAAAAATT
* *
8579456 GCAACGCGAACTTCGACTATCGCAATGCGAATATGTA-A-A-TCGCAATGCGATAGTCGACTATC
1 GCAATGCGAACTTCGACTATCGCATTGCG---ATGTACATATTCGCAATGCGATAGTCGACTATC
* *
8579518 GCAATGCGAACTTCGACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCGACTATC
1 GCAATGCGAACTTCGACTATCGCATTGCGATGTACATATTCGCAATGCGATAGTCGACTATC
* * *
8579580 GCATTGCG-A-TT-TACATATTCGCATTGCGATAGTCCA-AGTTCGCAATGCGATAGTCGA
1 GCAATGCGAACTTCGAC-TA-TCGCATTGCGAT-GTACATA-TTCGCAATGCGATAGTCGA
8579637 AGTTCGCGTT
Statistics
Matches: 103, Mismatches: 9, Indels: 14
0.82 0.07 0.11
Matches are distributed among these distances:
59 6 0.06
60 5 0.05
61 15 0.15
62 77 0.75
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.28
Consensus pattern (62 bp):
GCAATGCGAACTTCGACTATCGCATTGCGATGTACATATTCGCAATGCGATAGTCGACTATC
Found at i:8579623 original size:41 final size:41
Alignment explanation
Indices: 8579533--8579630 Score: 153
Period size: 41 Copynumber: 2.4 Consensus size: 41
8579523 GCGAACTTCG
*
8579533 ACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCG
1 ACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCA
8579574 ACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCCA
1 ACTATCGCATTGCGATTTACATATTCGCATTGCGATAGT-CA
* *
8579616 AGT-TCGCAATGCGAT
1 ACTATCGCATTGCGAT
8579631 AGTCGAAGTT
Statistics
Matches: 53, Mismatches: 3, Indels: 2
0.91 0.05 0.03
Matches are distributed among these distances:
41 50 0.94
42 3 0.06
ACGTcount: A:0.26, C:0.22, G:0.19, T:0.33
Consensus pattern (41 bp):
ACTATCGCATTGCGATTTACATATTCGCATTGCGATAGTCA
Found at i:8579639 original size:21 final size:21
Alignment explanation
Indices: 8579597--8579643 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
8579587 GATTTACATA
*
8579597 TTCGCATTGCGATAGTCCAAG
1 TTCGCAATGCGATAGTCCAAG
*
8579618 TTCGCAATGCGATAGTCGAAG
1 TTCGCAATGCGATAGTCCAAG
8579639 TTCGC
1 TTCGC
8579644 GTTACGAATC
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.23, C:0.23, G:0.26, T:0.28
Consensus pattern (21 bp):
TTCGCAATGCGATAGTCCAAG
Found at i:8580804 original size:28 final size:28
Alignment explanation
Indices: 8580764--8580824 Score: 104
Period size: 28 Copynumber: 2.2 Consensus size: 28
8580754 CCTGTTTAGA
* *
8580764 TTGAACCGGACTAAGCATCGGTTCCCGG
1 TTGAACCGGACTAAGCAACAGTTCCCGG
8580792 TTGAACCGGACTAAGCAACAGTTCCCGG
1 TTGAACCGGACTAAGCAACAGTTCCCGG
8580820 TTGAA
1 TTGAA
8580825 TCGGTTGAAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 31 1.00
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.21
Consensus pattern (28 bp):
TTGAACCGGACTAAGCAACAGTTCCCGG
Found at i:8583028 original size:3 final size:3
Alignment explanation
Indices: 8583020--8583073 Score: 67
Period size: 3 Copynumber: 18.7 Consensus size: 3
8583010 TCGAGTTCTG
* * *
8583020 TAA TAA TAA TAA TAA TAA TAG T-A TTA TAA TAA T-A TAG TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
8583066 TAA TAA TA
1 TAA TAA TA
8583074 TAAATGCATA
Statistics
Matches: 44, Mismatches: 5, Indels: 4
0.83 0.09 0.08
Matches are distributed among these distances:
2 3 0.07
3 41 0.93
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:8583050 original size:14 final size:14
Alignment explanation
Indices: 8583020--8583067 Score: 57
Period size: 14 Copynumber: 3.6 Consensus size: 14
8583010 TCGAGTTCTG
8583020 TAATAATA-A-TAA
1 TAATAATATAGTAA
*
8583032 TAATAATAGTA-TTA
1 TAATAATA-TAGTAA
8583046 TAATAATATAGTAA
1 TAATAATATAGTAA
8583060 TAATAATA
1 TAATAATA
8583068 ATAATATAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
12 8 0.26
13 2 0.06
14 21 0.68
ACGTcount: A:0.58, C:0.00, G:0.04, T:0.38
Consensus pattern (14 bp):
TAATAATATAGTAA
Found at i:8583050 original size:17 final size:18
Alignment explanation
Indices: 8583023--8583073 Score: 79
Period size: 17 Copynumber: 2.9 Consensus size: 18
8583013 AGTTCTGTAA
8583023 TAATAATAATAATAATAG
1 TAATAATAATAATAATAG
*
8583041 T-ATTATAATAAT-ATAG
1 TAATAATAATAATAATAG
8583057 TAATAATAATAATAATA
1 TAATAATAATAATAATA
8583074 TAAATGCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 5 0.17
17 20 0.69
18 4 0.14
ACGTcount: A:0.59, C:0.00, G:0.04, T:0.37
Consensus pattern (18 bp):
TAATAATAATAATAATAG
Found at i:8583264 original size:42 final size:38
Alignment explanation
Indices: 8583217--8583307 Score: 96
Period size: 37 Copynumber: 2.3 Consensus size: 38
8583207 TACGTTCTAT
8583217 TACTCTTCCGTGGAGATCGAACTTGATCTT-ATCTTGCTTCAC
1 TACTCTTCCGTGGA-A--G-ACTTGATCTTGAT-TTGCTTCAC
* * *
8583259 TACTCTTCTGT-GAAGGCTTGATTTTGATTTGCTTCAC
1 TACTCTTCCGTGGAAGACTTGATCTTGATTTGCTTCAC
8583296 TACTCTTCCGTG
1 TACTCTTCCGTG
8583308 AAGCCTTTGA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
37 27 0.63
38 3 0.07
40 1 0.02
41 2 0.05
42 10 0.23
ACGTcount: A:0.16, C:0.24, G:0.18, T:0.42
Consensus pattern (38 bp):
TACTCTTCCGTGGAAGACTTGATCTTGATTTGCTTCAC
Found at i:8583388 original size:35 final size:35
Alignment explanation
Indices: 8583254--8583497 Score: 224
Period size: 35 Copynumber: 6.8 Consensus size: 35
8583244 CTTATCTTGC
* *
8583254 TTCACTACTCTTCTGTGAAGGCTTGATTTTG-ATTTGC
1 TTCACTACTCTTCTGTGAAGGCTGGA--TTGCA-TTGT
* * * *
8583291 TTCACTACTCTTCCGTGAAGCCTTTGATTGCTTTGT
1 TTCACTACTCTTCTGTGAAGGC-TGGATTGCATTGT
* *
8583327 TTCAATACT-TTTTGTGAAGGCTGGATTGCATTGT
1 TTCACTACTCTTCTGTGAAGGCTGGATTGCATTGT
* *
8583361 TTCACTACTCTTCTATGAAGGCCGGATTGCATTGCT
1 TTCACTACTCTTCTGTGAAGGCTGGATTGCATTG-T
* * * * *
8583397 TTTACTACTCATCTGTAAAGGCTAAGATTGCATTGC
1 TTCACTACTCTTCTGTGAAGGCT-GGATTGCATTGT
* *
8583433 TTCACTACTCTTTTATGAAGGCTGGATTGCATTGCT
1 TTCACTACTCTTCTGTGAAGGCTGGATTGCATTG-T
* *
8583469 TT-ATTACTCTTTTGTGAAGGCTGAGATTG
1 TTCACTACTCTTCTGTGAAGGCTG-GATTG
8583498 AAATAAGAAG
Statistics
Matches: 170, Mismatches: 30, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
34 19 0.11
35 59 0.35
36 58 0.34
37 30 0.18
38 4 0.02
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.42
Consensus pattern (35 bp):
TTCACTACTCTTCTGTGAAGGCTGGATTGCATTGT
Found at i:8583440 original size:72 final size:71
Alignment explanation
Indices: 8583350--8583497 Score: 215
Period size: 72 Copynumber: 2.1 Consensus size: 71
8583340 GTGAAGGCTG
*
8583350 GATTGCATTGTTTCACTACTCTTCTATGAAGGCCGGATTGCATTGCTTTTACTACTCATCTGTAA
1 GATTGCATTGCTTCACTACTCTTCTATGAAGGCCGGATTGCATTGC-TTTACTACTCATCTGTAA
8583415 AGGCTAA
65 AGGCTAA
* * * * * *
8583422 GATTGCATTGCTTCACTACTCTTTTATGAAGGCTGGATTGCATTGCTTTATTACTCTTTTGTGAA
1 GATTGCATTGCTTCACTACTCTTCTATGAAGGCCGGATTGCATTGCTTTACTACTCATCTGTAAA
*
8583487 GGCTGA
66 GGCTAA
8583493 GATTG
1 GATTG
8583498 AAATAAGAAG
Statistics
Matches: 68, Mismatches: 8, Indels: 1
0.88 0.10 0.01
Matches are distributed among these distances:
71 25 0.37
72 43 0.63
ACGTcount: A:0.22, C:0.18, G:0.20, T:0.40
Consensus pattern (71 bp):
GATTGCATTGCTTCACTACTCTTCTATGAAGGCCGGATTGCATTGCTTTACTACTCATCTGTAAA
GGCTAA
Found at i:8583780 original size:62 final size:62
Alignment explanation
Indices: 8583683--8584471 Score: 684
Period size: 62 Copynumber: 12.6 Consensus size: 62
8583673 ATCTGCAATA
* * * *
8583683 TTGACTTCTTTTCACGAGGAAA-TC-AAGAATTGACTCTACTGGGGAGTAAAAAATAACAAATG
1 TTGACTTCTCTTCACGA-GAAAGTCAAAG-ATTGACTCTACTGAGGAGTAAGAAATAACAAAAG
* * * * * * * **
8583745 TTGACTTCTCTTCACGAGGAAGTCAAATATTGACTCTATTAAGAAGTCAGAAAATAA-TAGGG
1 TTGACTTCTCTTCACGAGAAAGTCAAAGATTGACTCTACTGAGGAGTAAG-AAATAACAAAAG
* * * * * * * *
8583807 TTGACTTTTCTTCACGATG-AGGTCAATGATTGACTATACTGAGGAGTCAGGAATAATAGAAG
1 TTGACTTCTCTTCACGA-GAAAGTCAAAGATTGACTCTACTGAGGAGTAAGAAATAACAAAAG
* * * * * * * *
8583869 TTGACTTCTCTTCATGAGGAAGTCAATGATTGATTCTACTGAGGTGTCAGGAATAATAAAAG
1 TTGACTTCTCTTCACGAGAAAGTCAAAGATTGACTCTACTGAGGAGTAAGAAATAACAAAAG
* * * * ** *
8583931 TTGATTTCTCTTCACGAGGAAGTCAAGAATATTGACTCTATTGAGGAGTCGGGGAAATAATAAAA
1 TTGACTTCTCTTCACGAGAAAGTC-A-AAGATTGACTCTACTGAGGAGT--AAGAAATAACAAAA
8583996 G
62 G
* * *
8583997 TTGACTTCTCTTCAAGAGGAAGTC-AAGAATTGACTCTAATGAGGAGTCAA-AGAATAAC-AAAG
1 TTGACTTCTCTTCACGAGAAAGTCAAAG-ATTGACTCTACTGAGGAGT-AAGA-AATAACAAAAG
* * * ** *
8584059 TTGACTTATCTTCACGATAAAGTCAAAGATTGACTCTATTGAGGAGTCGGGAAATAATAAAAG
1 TTGACTTCTCTTCACGAGAAAGTCAAAGATTGACTCTACTGAGGAGT-AAGAAATAACAAAAG
* * *
8584122 TTGATTTCTCTTCACGAGAAAGTC-AAGAATTGACTCTACTGAGGAGTCAGTGAATAACAAAA-
1 TTGACTTCTCTTCACGAGAAAGTCAAAG-ATTGACTCTACTGAGGAGTAAG-AAATAACAAAAG
* * * * * *
8584184 TAGACTTGTCTTCACGATAAAGTCAAAGATTGACTCTACTGAAGAGTAGGGAAATAATAAAAG
1 TTGACTTCTCTTCACGAGAAAGTCAAAGATTGACTCTACTGAGGAGTA-AGAAATAACAAAAG
* * *
8584247 ATTGACTTCTCTTCACGAGAAAATCAAAGATTGACTCTACTGAGAAGTCAAG-GATAACAAAAG
1 -TTGACTTCTCTTCACGAGAAAGTCAAAGATTGACTCTACTGAGGAGT-AAGAAATAACAAAAG
* * * * * *
8584310 TTGACTTCTCTTTATGATAAAGTCAAAGATTGACTCTACCGGGGAGTCAGAAATAAC-AAAG
1 TTGACTTCTCTTCACGAGAAAGTCAAAGATTGACTCTACTGAGGAGTAAGAAATAACAAAAG
* * * **
8584371 ATTGACTTCTCTTCACGAGAAAGTTAAAGATTGACTCTACTGAAGAGTCAGGGATAA-AAAAG
1 -TTGACTTCTCTTCACGAGAAAGTCAAAGATTGACTCTACTGAGGAGTAAGAAATAACAAAAG
* * *
8584433 ATTAACTTCTCTTCACGAGAAAGTTAAAGATTGATTCTA
1 -TTGACTTCTCTTCACGAGAAAGTCAAAGATTGACTCTA
8584472 GGAAACAATA
Statistics
Matches: 598, Mismatches: 104, Indels: 50
0.80 0.14 0.07
Matches are distributed among these distances:
61 15 0.03
62 385 0.64
63 86 0.14
64 77 0.13
65 1 0.00
66 34 0.06
ACGTcount: A:0.37, C:0.14, G:0.20, T:0.28
Consensus pattern (62 bp):
TTGACTTCTCTTCACGAGAAAGTCAAAGATTGACTCTACTGAGGAGTAAGAAATAACAAAAG
Found at i:8590011 original size:45 final size:48
Alignment explanation
Indices: 8589943--8590040 Score: 130
Period size: 45 Copynumber: 2.1 Consensus size: 48
8589933 TATAATATAT
* * *
8589943 ATAAATCCTAACCTCATGTTTTCTAGTTC-CATGC-TTTGTTTGGAAA
1 ATAAATCCTAACCGCATGATTTCTAGTTCGCATACATTTGTTTGGAAA
* *
8589989 ATAAA-CCTAATCGCATGATTTCTAGTTCGTATACATTTGTTTGGAAA
1 ATAAATCCTAACCGCATGATTTCTAGTTCGCATACATTTGTTTGGAAA
8590036 ATAAA
1 ATAAA
8590041 GTACTACTAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
45 20 0.44
46 8 0.18
47 17 0.38
ACGTcount: A:0.32, C:0.16, G:0.13, T:0.39
Consensus pattern (48 bp):
ATAAATCCTAACCGCATGATTTCTAGTTCGCATACATTTGTTTGGAAA
Found at i:8591939 original size:16 final size:17
Alignment explanation
Indices: 8591920--8591952 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
8591910 TTTTTATTTA
8591920 CTTTC-TTTCTCTCTGC
1 CTTTCGTTTCTCTCTGC
8591936 CTTTCGTTTTCTCTCTG
1 CTTTCG-TTTCTCTCTG
8591953 TTTCCCGTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
18 10 0.67
ACGTcount: A:0.00, C:0.33, G:0.09, T:0.58
Consensus pattern (17 bp):
CTTTCGTTTCTCTCTGC
Found at i:8593919 original size:20 final size:19
Alignment explanation
Indices: 8593896--8593942 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
8593886 CGATATACCA
8593896 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
8593916 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
8593936 GGTAAAA
1 GGTAAAA
8593943 CGTTACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:8594020 original size:181 final size:182
Alignment explanation
Indices: 8593684--8594156 Score: 741
Period size: 181 Copynumber: 2.6 Consensus size: 182
8593674 GATCCAAATT
* * * **
8593684 AAAAATGTGTCGATCCAAAACGATATAACAGGTAAAACTATGACAAAACCGGTATTGAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* * * * * *
8593749 AAACCGGTAAAGCGCTACCGAATACATTTAAAGTGTCGGTACTTTAATATAAGGATCGACACTTC
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* *
8593814 GTGAATTTAAAAAAGAAGCAGTTTTAAATCCTATAAAGTGTCGATACTTTTA
131 GTGAATTTAAAAAAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
*
8593866 AAAAATGTATCGATCCAAAACGATATACCAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
* *
8593931 AAACCGGTAAAACGTTACCGGATATATTGAAAGTGTCGATACTTT-ATATAAGGATCGACACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
* ** *
8593995 GTGAATTTAAAAGAGAAGCAGTTTTAGCGCCTATAATGTGTCGATACTTTAA
131 GTGAATTTAAAAAAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
* *
8594047 AAAAATATATCGATCCACAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
1 AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
8594112 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
66 AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTT
8594157 CGTAAGTACG
Statistics
Matches: 268, Mismatches: 23, Indels: 1
0.92 0.08 0.00
Matches are distributed among these distances:
181 170 0.63
182 98 0.37
ACGTcount: A:0.42, C:0.14, G:0.17, T:0.26
Consensus pattern (182 bp):
AAAAATGTATCGATCCAAAACGATATAACAGGTAAAAATATGATAAAACCGGTATCAAAATGATA
AAACCGGTAAAACGATACCGGATATATTGAAAGTGTCGATACTTTAATATAAGGATCGACACTTC
GTGAATTTAAAAAAGAAGCAGTTTTAAAGCCTATAAAGTGTCGATACTTTAA
Found at i:8594100 original size:20 final size:19
Alignment explanation
Indices: 8594077--8594123 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
8594067 CGATATAACA
8594077 GGTAAAAATATGATAAAACC
1 GGTAAAAA-ATGATAAAACC
*
8594097 GGTATCAAAATGATAAAACC
1 GGTA-AAAAATGATAAAACC
8594117 GGTAAAA
1 GGTAAAA
8594124 CGATACCGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
19 2 0.08
20 19 0.79
21 3 0.12
ACGTcount: A:0.53, C:0.11, G:0.17, T:0.19
Consensus pattern (19 bp):
GGTAAAAAATGATAAAACC
Found at i:8594128 original size:17 final size:19
Alignment explanation
Indices: 8594088--8594128 Score: 50
Period size: 20 Copynumber: 2.2 Consensus size: 19
8594078 GTAAAAATAT
*
8594088 GATAAAACCGGTATCAAAAT
1 GATAAAACCGG-ATCAAAAC
8594108 GATAAAACCGG-T-AAAAC
1 GATAAAACCGGATCAAAAC
8594125 GATA
1 GATA
8594129 CCGGATATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
17 8 0.40
18 1 0.05
20 11 0.55
ACGTcount: A:0.51, C:0.15, G:0.17, T:0.17
Consensus pattern (19 bp):
GATAAAACCGGATCAAAAC
Found at i:8596379 original size:21 final size:21
Alignment explanation
Indices: 8596353--8596417 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
8596343 AAGACAATCA
*
8596353 AGAGTCGAAGAGAAACTTGAT
1 AGAGTCGAAGAGAAACTTGAG
8596374 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
8596395 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
8596416 AG
1 AG
8596418 GCATAAGGGG
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.42, C:0.11, G:0.31, T:0.17
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:8596493 original size:33 final size:33
Alignment explanation
Indices: 8596451--8596516 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
8596441 AAATAGATGG
*
8596451 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
8596484 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
8596517 TATTAAGATA
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:8598369 original size:18 final size:19
Alignment explanation
Indices: 8598309--8598358 Score: 91
Period size: 19 Copynumber: 2.6 Consensus size: 19
8598299 AATGTAGGGT
8598309 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
8598328 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
8598347 TAATTTTGTATA
1 TAATTTTGTATA
8598359 TGAATATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 30 1.00
ACGTcount: A:0.34, C:0.02, G:0.10, T:0.54
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:8598982 original size:200 final size:200
Alignment explanation
Indices: 8598591--8599353 Score: 1350
Period size: 200 Copynumber: 3.8 Consensus size: 200
8598581 AATTTACAAT
*
8598591 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
8598656 CGAAACCCAAAAGTATAATGTAATAGGTAA-TTTTCAATCTAATCGGTACAAGTATATCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
8598720 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAC
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
8598785 AATGA
196 AATGA
* *
8598790 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATCTATAAAAAGTGTCGATCCGATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
*
8598855 CGAAACCCATAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
8598920 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
8598985 AATGA
196 AATGA
8598990 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* * *
8599055 CGAAACCCATAAGTATAATGTAATATGTAATTTTTCAATCTAACCGATACAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
*
8599120 ATGAGAGAATAGGTCTAAATAATGTGTCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
131 ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
8599185 AATGA
196 AATGA
*
8599190 ATGGCAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
1 ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
* *
8599255 CGAAACCCAAAAGTATAATGTATTAGGTAATTTTTCAATCTAACCGGTATAAGTATACCGGTTTT
66 CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
* * *
8599320 ATGGGAGAATTGGTATATAAT-ATGTATCGACACT
131 ATGAGAGAATAGGTCTA-AATAATGTATCGACACT
8599354 GTTTAATGTT
Statistics
Matches: 540, Mismatches: 22, Indels: 3
0.96 0.04 0.01
Matches are distributed among these distances:
199 91 0.17
200 446 0.83
201 3 0.01
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (200 bp):
ATGGCAAACAGGGTGCAACAATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCATAAACAT
CGAAACCCAAAAGTATAATGTAATAGGTAATTTTTCAATCTAACCGGTACAAGTATACCGGTTTT
ATGAGAGAATAGGTCTAAATAATGTATCGACACTTTTGTAGTTTGTGTCGATATTTTTGGTCCAG
AATGA
Found at i:8600832 original size:6 final size:6
Alignment explanation
Indices: 8600821--8600884 Score: 65
Period size: 6 Copynumber: 10.7 Consensus size: 6
8600811 CAAGCGGTCA
* * * * *
8600821 ATGAAG ATGAAG CTGACG ATGAAG ATGACG ATGAAG ATGACG ATGATG
1 ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG ATGAAG
* *
8600869 ATGATG ATGATG ATGA
1 ATGAAG ATGAAG ATGA
8600885 TGATCCAAAT
Statistics
Matches: 50, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
6 50 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (6 bp):
ATGAAG
Found at i:8600870 original size:3 final size:3
Alignment explanation
Indices: 8600838--8600888 Score: 66
Period size: 3 Copynumber: 17.0 Consensus size: 3
8600828 TGAAGCTGAC
* * * *
8600838 GAT GAA GAT GAC GAT GAA GAT GAC GAT GAT GAT GAT GAT GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
8600886 GAT
1 GAT
8600889 CCAAATAAGT
Statistics
Matches: 40, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
3 40 1.00
ACGTcount: A:0.37, C:0.04, G:0.33, T:0.25
Consensus pattern (3 bp):
GAT
Found at i:8600888 original size:12 final size:12
Alignment explanation
Indices: 8600821--8600884 Score: 83
Period size: 12 Copynumber: 5.3 Consensus size: 12
8600811 CAAGCGGTCA
*
8600821 ATGAAGATGAAG
1 ATGACGATGAAG
*
8600833 CTGACGATGAAG
1 ATGACGATGAAG
8600845 ATGACGATGAAG
1 ATGACGATGAAG
*
8600857 ATGACGATGATG
1 ATGACGATGAAG
* *
8600869 ATGATGATGATG
1 ATGACGATGAAG
8600881 ATGA
1 ATGA
8600885 TGATCCAAAT
Statistics
Matches: 47, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 47 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.22
Consensus pattern (12 bp):
ATGACGATGAAG
Found at i:8602407 original size:184 final size:184
Alignment explanation
Indices: 8602098--8602687 Score: 1060
Period size: 184 Copynumber: 3.2 Consensus size: 184
8602088 CAAAGTTTTC
* *
8602098 ACACTTTTTAATATTGTGTCGGTACTTTATGTTCAGAATGGAAGAAAAATGTGTCGATACCTTTT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
8602163 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
*
8602228 TAACCGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCG
131 TAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
*
8602282 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATAGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
*
8602347 CAAAAAGTGTCGATTGAAAAAATATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
66 CAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
8602412 TAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
131 TAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
8602466 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
* * *
8602531 CAAAAAGTGTCGACATT---TACACATCGGAACCCAGAATTATAATGTAATAGATAATTTTGTAA
66 CAAAAAGTGTCG--ATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAA
8602593 TATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
129 TATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
*
8602649 ACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAGAAT
1 ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAAT
8602688 TATAATGTAC
Statistics
Matches: 393, Mismatches: 11, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
183 135 0.34
184 255 0.65
186 3 0.01
ACGTcount: A:0.36, C:0.14, G:0.17, T:0.34
Consensus pattern (184 bp):
ACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAAAAATGTGTCGATACCTTGT
CAAAAAGTGTCGATTGAAAAAACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATA
TAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACCTATATCG
Found at i:8602774 original size:120 final size:120
Alignment explanation
Indices: 8602561--8602807 Score: 440
Period size: 120 Copynumber: 2.1 Consensus size: 120
8602551 ACATCGGAAC
8602561 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
*
8602626 GAATAGGTCTACAACCTATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
* * * *
8602681 CCAGAATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGC
1 CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
*
8602746 GAATAGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGT
66 GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
8602801 CCAGAAT
1 CCAGAAT
8602808 GGAAGAAAAA
Statistics
Matches: 121, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
120 121 1.00
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (120 bp):
CCAGAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGC
GAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGT
Found at i:8602929 original size:303 final size:303
Alignment explanation
Indices: 8602382--8602939 Score: 1044
Period size: 303 Copynumber: 1.8 Consensus size: 303
8602372 CGGAACCCAT
8602382 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
8602447 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
8602512 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
131 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
*
8602577 ATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACC
196 ATAGATAATTTTATAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACC
8602642 TATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAG
261 TATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAG
* * * *
8602685 AATTATAATGTACTAGATAATTTTGTAATATAACCGGTATAAGTATACCGGTTTTATTAGCGAAT
1 AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
*
8602750 AGGTCTACAACCTATGTCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
66 AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
8602815 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
131 AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
* *
8602880 ATAGATAATTTTATAATATAACCGGTATAAATATATCGGTTTTATGAGCGAATAGGTCTA
196 ATAGATAATTTTATAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTA
8602940 AAAAATTCTG
Statistics
Matches: 247, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
303 247 1.00
ACGTcount: A:0.35, C:0.14, G:0.17, T:0.34
Consensus pattern (303 bp):
AATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGATTTTATGAGCGAAT
AGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCAGAATGGAAGAA
AAATGTGTCGATACCTTGTCAAAAAGTGTCGACATTTACACATCGGAACCCAGAATTATAATGTA
ATAGATAATTTTATAATATAACCGGTATAAATATACCGATTTTATGAGCGAATAGGTCTACAACC
TATATCGACACTTTTTAATTTTGTGTCGGTACTTTATGTCCAG
Found at i:8605022 original size:87 final size:87
Alignment explanation
Indices: 8604918--8605167 Score: 455
Period size: 87 Copynumber: 2.9 Consensus size: 87
8604908 AAATAGGTCA
* * *
8604918 ATATAAGCGCTACCTATTACATTATAAAAGCGCTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
8604983 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
8605005 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
8605070 CCCGTTAAATACCTATTTTATT
66 CCCGTTAAATACCTATTTTATT
*
8605092 ATATAAGCGTTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
1 ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
*
8605157 CCGGTTAAATA
66 CCCGTTAAATA
8605168 ATATAACATA
Statistics
Matches: 158, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
87 158 1.00
ACGTcount: A:0.33, C:0.15, G:0.10, T:0.42
Consensus pattern (87 bp):
ATATAAGCGCTATCTATTACATTATATAAGCGTTACCTAATATGTTATTGTACTTGATAATATTT
CCCGTTAAATACCTATTTTATT
Found at i:8605052 original size:23 final size:23
Alignment explanation
Indices: 8605002--8605046 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
8604992 TACCTATTTT
* *
8605002 ATTATATAAGCGCTATCTATTAC
1 ATTATATAAGCGCTACCTAATAC
*
8605025 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGCTACCTAATA
8605047 TGTTATTGTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.38, C:0.16, G:0.09, T:0.38
Consensus pattern (23 bp):
ATTATATAAGCGCTACCTAATAC
Found at i:8605139 original size:23 final size:23
Alignment explanation
Indices: 8605089--8605133 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
8605079 TACCTATTTT
* *
8605089 ATTATATAAGCGTTATCTATTAC
1 ATTATATAAGCGTTACCTAATAC
8605112 ATTATATAAGCGTTACCTAATA
1 ATTATATAAGCGTTACCTAATA
8605134 TGTTATTGTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.38, C:0.13, G:0.09, T:0.40
Consensus pattern (23 bp):
ATTATATAAGCGTTACCTAATAC
Found at i:8617061 original size:38 final size:38
Alignment explanation
Indices: 8617010--8617085 Score: 152
Period size: 38 Copynumber: 2.0 Consensus size: 38
8617000 TTTTGTAGAG
8617010 GTTTAATCCCTCTTTTCTTAATTTAATAAAAAATCTCA
1 GTTTAATCCCTCTTTTCTTAATTTAATAAAAAATCTCA
8617048 GTTTAATCCCTCTTTTCTTAATTTAATAAAAAATCTCA
1 GTTTAATCCCTCTTTTCTTAATTTAATAAAAAATCTCA
8617086 TATGCCACGT
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:0.34, C:0.18, G:0.03, T:0.45
Consensus pattern (38 bp):
GTTTAATCCCTCTTTTCTTAATTTAATAAAAAATCTCA
Found at i:8619210 original size:16 final size:16
Alignment explanation
Indices: 8619189--8619225 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
8619179 TATTACCCGG
*
8619189 CCTGTTTTCAACCTGA
1 CCTGTTATCAACCTGA
*
8619205 CCTGTTATGAACCTGA
1 CCTGTTATCAACCTGA
8619221 CCTGT
1 CCTGT
8619226 AATTTGACTC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.19, C:0.30, G:0.16, T:0.35
Consensus pattern (16 bp):
CCTGTTATCAACCTGA
Found at i:8620075 original size:23 final size:23
Alignment explanation
Indices: 8620049--8620109 Score: 104
Period size: 23 Copynumber: 2.7 Consensus size: 23
8620039 ATCAATGTAC
8620049 CAATTCATCAAGCATTATTGCAT
1 CAATTCATCAAGCATTATTGCAT
*
8620072 CAATTCATCAAACATTATTGCAT
1 CAATTCATCAAGCATTATTGCAT
*
8620095 CAATTCAGCAAGCAT
1 CAATTCATCAAGCAT
8620110 CCTGCATTAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 35 1.00
ACGTcount: A:0.38, C:0.23, G:0.08, T:0.31
Consensus pattern (23 bp):
CAATTCATCAAGCATTATTGCAT
Found at i:8622566 original size:23 final size:23
Alignment explanation
Indices: 8622540--8622589 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
8622530 GAATGGCGAT
8622540 GAACGGAGTGGATTCTTCGATTA
1 GAACGGAGTGGATTCTTCGATTA
8622563 GAACGGAGTGGATTCTTCGATTA
1 GAACGGAGTGGATTCTTCGATTA
8622586 GAAC
1 GAAC
8622590 CGGGTAACAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.28, C:0.14, G:0.30, T:0.28
Consensus pattern (23 bp):
GAACGGAGTGGATTCTTCGATTA
Found at i:8623129 original size:9 final size:9
Alignment explanation
Indices: 8623115--8623140 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
8623105 ATTATATATT
8623115 TTTCAATTC
1 TTTCAATTC
8623124 TTTCAATTC
1 TTTCAATTC
8623133 TTTCAATT
1 TTTCAATT
8623141 AATATATATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.23, C:0.19, G:0.00, T:0.58
Consensus pattern (9 bp):
TTTCAATTC
Found at i:8623190 original size:18 final size:18
Alignment explanation
Indices: 8623169--8623370 Score: 98
Period size: 18 Copynumber: 11.3 Consensus size: 18
8623159 AATAAATTAA
8623169 TATATAGTTTATATATAC
1 TATATAGTTTATATATAC
*
8623187 TATATGGTTTATATATAC
1 TATATAGTTTATATATAC
***
8623205 TA-ATAAACTATATA-A-
1 TATATAGTTTATATATAC
*
8623220 TATATAGTTTGTATATAC
1 TATATAGTTTATATATAC
* * *
8623238 CATATACTATATAGGTTATA-
1 TATATAGTTTATA---TATAC
* ** *
8623258 TATACTAATGAACTATATAG
1 TATA-TAGTTTA-TATATAC
*
8623278 TATATAGCTTATATATAC
1 TATATAGTTTATATATAC
** *
8623296 TA-AT-GAACTATATATAA
1 TATATAG-TTTATATATAC
* *
8623313 TGTATAGTTTATGTATAC
1 TATATAGTTTATATATAC
* *
8623331 CATATAGTCTATATATA-
1 TATATAGTTTATATATAC
8623348 TCATATAGTTTATAT-TA-
1 T-ATATAGTTTATATATAC
8623365 TATATA
1 TATATA
8623371 CTAATAAACT
Statistics
Matches: 135, Mismatches: 36, Indels: 28
0.68 0.18 0.14
Matches are distributed among these distances:
15 2 0.01
16 15 0.11
17 23 0.17
18 70 0.52
19 8 0.06
20 7 0.05
21 8 0.06
22 2 0.01
ACGTcount: A:0.41, C:0.07, G:0.08, T:0.44
Consensus pattern (18 bp):
TATATAGTTTATATATAC
Found at i:8623221 original size:51 final size:51
Alignment explanation
Indices: 8623166--8623297 Score: 158
Period size: 58 Copynumber: 2.5 Consensus size: 51
8623156 ATTAATAAAT
8623166 TAATATATAGTTTATATATACTATAT-GGTTTATATATACTAATAAACTATA
1 TAATATATAGTTTATATATACTATATAGG-TTATATATACTAATAAACTATA
*
8623217 TAATATATAGTTTGTATATACCATATACTATATAGGTTATATATACTAATGAACTATA
1 TAATATATAG--T-T-TAT---ATATACTATATAGGTTATATATACTAATAAACTATA
* *
8623275 TAGTATATAGCTTATATATACTA
1 TAATATATAGTTTATATATACTA
8623298 ATGAACTATA
Statistics
Matches: 70, Mismatches: 3, Indels: 16
0.79 0.03 0.18
Matches are distributed among these distances:
51 18 0.26
53 1 0.01
54 4 0.06
55 4 0.06
58 41 0.59
59 2 0.03
ACGTcount: A:0.42, C:0.08, G:0.08, T:0.43
Consensus pattern (51 bp):
TAATATATAGTTTATATATACTATATAGGTTATATATACTAATAAACTATA
Found at i:8623224 original size:33 final size:33
Alignment explanation
Indices: 8623180--8623397 Score: 155
Period size: 33 Copynumber: 6.5 Consensus size: 33
8623170 ATATAGTTTA
* *
8623180 TATATACTATATGGTTTATATATACTAATAAAC
1 TATATAATATATAGTTTATATATACTAATAAAC
*
8623213 TATATAATATATAGTTTGTATATAC-------C
1 TATATAATATATAGTTTATATATACTAATAAAC
* * *
8623239 -ATATACTATATAGGTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATAAAC
* * *
8623271 TATATAGTATATAGCTTATATATACTAATGAAC
1 TATATAATATATAGTTTATATATACTAATAAAC
* * * **
8623304 TATATATAATGTATAGTTTATGTATACCATATAGTC
1 --TATATAATATATAGTTTATATATACTA-ATAAAC
8623340 TATATATATCATATAGTTTATATTATATATACTAATAAAC
1 TATATA-AT-ATATAG----T-TTATATATACTAATAAAC
*
8623380 TATATAATGTATAGTTTA
1 TATATAATATATAGTTTA
8623398 GGGTTTAGGG
Statistics
Matches: 145, Mismatches: 22, Indels: 36
0.71 0.11 0.18
Matches are distributed among these distances:
25 21 0.14
26 1 0.01
32 1 0.01
33 55 0.38
34 7 0.05
35 24 0.17
36 8 0.06
38 5 0.03
39 2 0.01
40 11 0.08
41 10 0.07
ACGTcount: A:0.41, C:0.08, G:0.08, T:0.43
Consensus pattern (33 bp):
TATATAATATATAGTTTATATATACTAATAAAC
Found at i:8623257 original size:58 final size:58
Alignment explanation
Indices: 8623181--8623295 Score: 178
Period size: 58 Copynumber: 2.0 Consensus size: 58
8623171 TATAGTTTAT
* *
8623181 ATATACTATATGGTTTATATATACTAATAAACTATATAATATATAGTTTGTATATACC
1 ATATACTATATGGTTTATATATACTAATAAACTATATAATATATAGCTTATATATACC
* *
8623239 ATATACTATATAGG-TTATATATACTAATGAACTATATAGTATATAGCTTATATATAC
1 ATATACTATAT-GGTTTATATATACTAATAAACTATATAATATATAGCTTATATATAC
8623296 TAATGAACTA
Statistics
Matches: 52, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
58 50 0.96
59 2 0.04
ACGTcount: A:0.42, C:0.09, G:0.08, T:0.42
Consensus pattern (58 bp):
ATATACTATATGGTTTATATATACTAATAAACTATATAATATATAGCTTATATATACC
Found at i:8623276 original size:15 final size:15
Alignment explanation
Indices: 8623256--8623314 Score: 50
Period size: 15 Copynumber: 3.8 Consensus size: 15
8623246 ATATAGGTTA
8623256 TATATACTAATGAAC
1 TATATACTAATGAAC
* *
8623271 TATATAGTATAT-AGC
1 TATATACTA-ATGAAC
8623286 TTATATATACTAATGAAC
1 ---TATATACTAATGAAC
8623304 TATATA-TAATG
1 TATATACTAATG
8623315 TATAGTTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 11
0.70 0.08 0.22
Matches are distributed among these distances:
14 5 0.14
15 16 0.46
16 2 0.06
17 2 0.06
18 10 0.29
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.39
Consensus pattern (15 bp):
TATATACTAATGAAC
Found at i:8623276 original size:17 final size:17
Alignment explanation
Indices: 8623254--8623311 Score: 68
Period size: 17 Copynumber: 3.5 Consensus size: 17
8623244 CTATATAGGT
8623254 TATATATACTAATGAAC
1 TATATATACTAATGAAC
*
8623271 TATATAGTA-T-AT-AGC
1 TATATA-TACTAATGAAC
8623286 TTATATATACTAATGAAC
1 -TATATATACTAATGAAC
8623304 TATATATA
1 TATATATA
8623312 ATGTATAGTT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
15 4 0.12
16 9 0.26
17 17 0.50
18 4 0.12
ACGTcount: A:0.45, C:0.09, G:0.07, T:0.40
Consensus pattern (17 bp):
TATATATACTAATGAAC
Found at i:8623456 original size:7 final size:6
Alignment explanation
Indices: 8623441--8623547 Score: 58
Period size: 7 Copynumber: 17.0 Consensus size: 6
8623431 ATATGTAAAT
* * *
8623441 TATACTA TATAGTA TATATA GTTTATA TATATA -ATATA TAAATA TAAACTA
1 TATA-TA TATA-TA TATATA -TATATA TATATA TATATA TATATA TATA-TA
* * * *
8623492 TAGTATG TAGTATA TAAATA TAAACTA TA-ATT TATATA TATAGTA TATAT-
1 TA-TATA TA-TATA TATATA TATA-TA TATATA TATATA TATA-TA TATATA
8623542 TATATA
1 TATATA
8623548 AATAGTGTAT
Statistics
Matches: 82, Mismatches: 10, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
5 13 0.16
6 30 0.37
7 38 0.46
8 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.44
Consensus pattern (6 bp):
TATATA
Found at i:8623538 original size:18 final size:18
Alignment explanation
Indices: 8623499--8623559 Score: 58
Period size: 18 Copynumber: 3.6 Consensus size: 18
8623489 CTATAGTATG
*
8623499 TAGTATATA-AATATAAA
1 TAGTATATATTATATAAA
*
8623516 CTA-TA-AT-TTATATATA
1 -TAGTATATATTATATAAA
8623532 TAGTATATATTATATAAA
1 TAGTATATATTATATAAA
*
8623550 TAGTGTATAT
1 TAGTATATAT
8623560 AGTTCACTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
15 2 0.06
16 10 0.29
17 4 0.11
18 19 0.54
ACGTcount: A:0.48, C:0.02, G:0.07, T:0.44
Consensus pattern (18 bp):
TAGTATATATTATATAAA
Found at i:8623540 original size:27 final size:27
Alignment explanation
Indices: 8623467--8623533 Score: 82
Period size: 27 Copynumber: 2.5 Consensus size: 27
8623457 TATAGTTTAT
*
8623467 ATATATAATATATAAATATAAACTATA
1 ATATATACTATATAAATATAAACTATA
* * *
8623494 GTATGTAGTATATAAATATAAACTATA
1 ATATATACTATATAAATATAAACTATA
*
8623521 ATTTATA-TATATA
1 ATATATACTATATA
8623534 GTATATATTA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 6 0.18
27 28 0.82
ACGTcount: A:0.52, C:0.03, G:0.04, T:0.40
Consensus pattern (27 bp):
ATATATACTATATAAATATAAACTATA
Found at i:8623560 original size:2 final size:2
Alignment explanation
Indices: 8623441--8623547 Score: 58
Period size: 2 Copynumber: 51.0 Consensus size: 2
8623431 ATATGTAAAT
* *
8623441 TA TA CTA TA TA GTA TA TA TA GTT TA TA TA TA TA -A TA TA TA AA
1 TA TA -TA TA TA -TA TA TA TA -TA TA TA TA TA TA TA TA TA TA TA
* * * * *
8623483 TA TA AA CTA TA GTA TG TA GTA TA TA AA TA TA AA CTA TA -A TT TA
1 TA TA TA -TA TA -TA TA TA -TA TA TA TA TA TA TA -TA TA TA TA TA
8623526 TA TA TA TA GTA TA TA T- TA TA TA
1 TA TA TA TA -TA TA TA TA TA TA TA
8623548 AATAGTGTAT
Statistics
Matches: 80, Mismatches: 14, Indels: 22
0.69 0.12 0.19
Matches are distributed among these distances:
1 3 0.04
2 64 0.80
3 13 0.16
ACGTcount: A:0.48, C:0.03, G:0.06, T:0.44
Consensus pattern (2 bp):
TA
Found at i:8623580 original size:22 final size:23
Alignment explanation
Indices: 8623555--8623604 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
8623545 ATAAATAGTG
8623555 TATATA-GTTCACTA-ATAAACTA
1 TATATATGTTCA-TATATAAACTA
*
8623577 TATATATTGTTCATATGTAAACTA
1 TATATA-TGTTCATATATAAACTA
8623601 TATA
1 TATA
8623605 GTTTATATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
22 6 0.25
23 2 0.08
24 16 0.67
ACGTcount: A:0.42, C:0.10, G:0.06, T:0.42
Consensus pattern (23 bp):
TATATATGTTCATATATAAACTA
Found at i:8623582 original size:24 final size:24
Alignment explanation
Indices: 8623524--8623659 Score: 78
Period size: 26 Copynumber: 5.2 Consensus size: 24
8623514 AACTATAATT
*
8623524 TATATATATAGTAT-ATATTATATAAA
1 TATATATATAGT-TCATA-TATA-AAC
*
8623550 TAGTGTATATAGTTCACTA-ATAAAC
1 TA-TATATATAGTTCA-TATATAAAC
* *
8623575 TATATATATTGTTCATATGTAAAC
1 TATATATATAGTTCATATATAAAC
*
8623599 TATATAGTTTATATATAGTTCATATGTAAAC
1 ----TA---TATATATAGTTCATATATAAAC
*
8623630 TATAGTACTATAGTTCATATGTAAAC
1 TATA-TA-TATAGTTCATATATAAAC
8623656 TATA
1 TATA
8623660 GTTCATATAT
Statistics
Matches: 91, Mismatches: 6, Indels: 26
0.74 0.05 0.21
Matches are distributed among these distances:
23 2 0.02
24 18 0.20
25 6 0.07
26 28 0.31
27 12 0.13
28 4 0.04
31 21 0.23
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (24 bp):
TATATATATAGTTCATATATAAAC
Found at i:8623643 original size:26 final size:25
Alignment explanation
Indices: 8623554--8623661 Score: 112
Period size: 26 Copynumber: 4.1 Consensus size: 25
8623544 TATAAATAGT
*
8623554 GTATATAGTTCACTA-ATAAACTATA
1 GTATATAGTTCA-TATGTAAACTATA
*
8623579 -TATATTGTTCATATGTAAACTATATA
1 GTATATAGTTCATATGTAAAC--TATA
8623605 GTTTATATATAGTTCATATGTAAACTATA
1 G----TATATAGTTCATATGTAAACTATA
8623634 GTACTATAGTTCATATGTAAACTATA
1 GTA-TATAGTTCATATGTAAACTATA
8623660 GT
1 GT
8623662 TCATATATAT
Statistics
Matches: 71, Mismatches: 3, Indels: 17
0.78 0.03 0.19
Matches are distributed among these distances:
23 2 0.03
24 15 0.21
25 2 0.03
26 28 0.39
29 5 0.07
31 19 0.27
ACGTcount: A:0.39, C:0.09, G:0.10, T:0.42
Consensus pattern (25 bp):
GTATATAGTTCATATGTAAACTATA
Found at i:8623673 original size:31 final size:30
Alignment explanation
Indices: 8623575--8623707 Score: 125
Period size: 31 Copynumber: 4.4 Consensus size: 30
8623565 ACTAATAAAC
*
8623575 TATATATATTGTTCATATGTAAACTATATAGT
1 TATATATATAGTTCATATGTAAAC--TATAGT
8623607 T-TATATATAGTTCATATGTAAACTATAG-
1 TATATATATAGTTCATATGTAAACTATAGT
*
8623635 --TA-CTATAGTTCATATGTAAACTATAGT
1 TATATATATAGTTCATATGTAAACTATAGT
*
8623662 TCATATATATAGTAT-ATAAATATAAACTATAGTT
1 T-ATATATATAGT-TCAT--ATGTAAACTATAG-T
*
8623696 TATATAAATAGT
1 TATATATATAGT
8623708 ATAAAATATA
Statistics
Matches: 87, Mismatches: 5, Indels: 17
0.80 0.05 0.16
Matches are distributed among these distances:
26 23 0.26
27 2 0.02
29 5 0.06
30 2 0.02
31 29 0.33
32 2 0.02
33 22 0.25
34 2 0.02
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.43
Consensus pattern (30 bp):
TATATATATAGTTCATATGTAAACTATAGT
Found at i:8623674 original size:57 final size:54
Alignment explanation
Indices: 8623555--8623670 Score: 155
Period size: 55 Copynumber: 2.1 Consensus size: 54
8623545 ATAAATAGTG
*
8623555 TATATAGTTCACTAATAAACTATATATATTGTTCATATGTAAACTATATAGTTTA
1 TATATAGTTCACTAATAAACTATATATATAGTTCATATGTAAAC-ATATAGTTTA
* *
8623610 TATATAGTTCA-TATGTAAACTATAGTACTATAGTTCATATGTAAAC-TATAGTTCA
1 TATATAGTTCACTA-ATAAACTATA-TA-TATAGTTCATATGTAAACATATAGTTTA
8623665 TATATA
1 TATATA
8623671 TAGTATATAA
Statistics
Matches: 55, Mismatches: 3, Indels: 6
0.86 0.05 0.09
Matches are distributed among these distances:
54 2 0.04
55 34 0.62
56 2 0.04
57 17 0.31
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.42
Consensus pattern (54 bp):
TATATAGTTCACTAATAAACTATATATATAGTTCATATGTAAACATATAGTTTA
Found at i:8623677 original size:18 final size:18
Alignment explanation
Indices: 8623636--8623701 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
8623626 AAACTATAGT
*
8623636 ACTATAGTTCATATGTAA
1 ACTATAGTTCATATATAA
*
8623654 ACTATAGTTCATATATAT
1 ACTATAGTTCATATATAA
* *
8623672 AGTATA--T-AAATATAA
1 ACTATAGTTCATATATAA
*
8623687 ACTATAGTTTATATA
1 ACTATAGTTCATATA
8623702 AATAGTATAA
Statistics
Matches: 38, Mismatches: 7, Indels: 6
0.75 0.14 0.12
Matches are distributed among these distances:
15 11 0.29
16 1 0.03
17 1 0.03
18 25 0.66
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.41
Consensus pattern (18 bp):
ACTATAGTTCATATATAA
Found at i:8623691 original size:33 final size:32
Alignment explanation
Indices: 8623651--8623717 Score: 107
Period size: 33 Copynumber: 2.1 Consensus size: 32
8623641 AGTTCATATG
*
8623651 TAAACTATAGTTCATATATATAGTATATAAATA
1 TAAACTATAGTTCATATAAATAGTATA-AAATA
*
8623684 TAAACTATAGTTTATATAAATAGTATAAAATA
1 TAAACTATAGTTCATATAAATAGTATAAAATA
8623716 TA
1 TA
8623718 GTATATAAAT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 7 0.22
33 25 0.78
ACGTcount: A:0.51, C:0.04, G:0.06, T:0.39
Consensus pattern (32 bp):
TAAACTATAGTTCATATAAATAGTATAAAATA
Found at i:8623692 original size:20 final size:20
Alignment explanation
Indices: 8623668--8623741 Score: 85
Period size: 20 Copynumber: 3.5 Consensus size: 20
8623658 TAGTTCATAT
8623668 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
8623688 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATAT-AA-A-TATAAA
8623713 ATATAGTATATAAATATAAA
1 ATATAGTATATAAATATAAA
*
8623733 TTATAGTAT
1 ATATAGTAT
8623742 GTAGCTTATA
Statistics
Matches: 46, Mismatches: 3, Indels: 10
0.78 0.05 0.17
Matches are distributed among these distances:
20 19 0.41
21 1 0.02
22 7 0.15
23 7 0.15
24 1 0.02
25 11 0.24
ACGTcount: A:0.53, C:0.01, G:0.07, T:0.39
Consensus pattern (20 bp):
ATATAGTATATAAATATAAA
Found at i:8623717 original size:25 final size:23
Alignment explanation
Indices: 8623668--8623728 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
8623658 TAGTTCATAT
8623668 ATATAGTATAT-AA-A-TATAAA
1 ATATAGTATATAAATAGTATAAA
*
8623688 CTATAGTTTATATAAATAGTATAAA
1 ATATAG--TATATAAATAGTATAAA
8623713 ATATAGTATATAAATA
1 ATATAGTATATAAATA
8623729 TAAATTATAG
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
20 5 0.15
22 5 0.15
23 12 0.35
24 1 0.03
25 11 0.32
ACGTcount: A:0.54, C:0.02, G:0.07, T:0.38
Consensus pattern (23 bp):
ATATAGTATATAAATAGTATAAA
Found at i:8623720 original size:12 final size:13
Alignment explanation
Indices: 8623681--8623730 Score: 59
Period size: 13 Copynumber: 3.8 Consensus size: 13
8623671 TAGTATATAA
8623681 ATATAAACTATAGT
1 ATATAAA-TATAGT
*
8623695 TTATATAA-ATAGT
1 ATATA-AATATAGT
8623708 ATA-AAATATAGT
1 ATATAAATATAGT
8623720 ATATAAATATA
1 ATATAAATATA
8623731 AATTATAGTA
Statistics
Matches: 31, Mismatches: 2, Indels: 7
0.77 0.05 0.17
Matches are distributed among these distances:
11 2 0.06
12 9 0.29
13 14 0.45
14 4 0.13
15 2 0.06
ACGTcount: A:0.54, C:0.02, G:0.06, T:0.38
Consensus pattern (13 bp):
ATATAAATATAGT
Found at i:8623812 original size:22 final size:22
Alignment explanation
Indices: 8623785--8623834 Score: 64
Period size: 22 Copynumber: 2.2 Consensus size: 22
8623775 CCATATATAC
*
8623785 TATATATATATAAACTATATAGTT
1 TATAT-TA-ATAAACTATATAATT
*
8623809 TATATTAATAAATTATATAATT
1 TATATTAATAAACTATATAATT
8623831 TATA
1 TATA
8623835 CAATATATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 17 0.71
23 2 0.08
24 5 0.21
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (22 bp):
TATATTAATAAACTATATAATT
Found at i:8623906 original size:22 final size:21
Alignment explanation
Indices: 8623881--8624117 Score: 140
Period size: 20 Copynumber: 11.2 Consensus size: 21
8623871 ATATAAATTG
*
8623881 TATAGTTTATATATAATTCATA
1 TATAGTTTATATATAATAC-TA
*
8623903 TATAATTTATATATAA-ACTA
1 TATAGTTTATATATAATACTA
* * * *
8623923 TGTAGTTTCTATATAGTTC-A
1 TATAGTTTATATATAATACTA
*
8623943 -ATAGTTCATATATAA-ACTA
1 TATAGTTTATATATAATACTA
8623962 TATAGTATTATAGTTTATACATGGTA-TA
1 TATAGT-TTATA---TATA-A---TACTA
*
8623990 TATAGTTTATACT-TTATAC-A
1 TATAGTTTATA-TATAATACTA
*
8624010 TA-A-TATATATATAA-ACTA
1 TATAGTTTATATATAATACTA
*
8624028 TATAGTTTTTATATATATAAACTA
1 TATAG--TTTATATATA-ATACTA
8624052 TATAGTTTATATATATAATAC-A
1 TATAG-TT-TATATATAATACTA
*
8624074 TATACTTTATATATAA-ACTA
1 TATAGTTTATATATAATACTA
*
8624094 TATAGTTTATATATTATA-TA
1 TATAGTTTATATATAATACTA
8624114 TATA
1 TATA
8624118 CCTATATTAG
Statistics
Matches: 169, Mismatches: 22, Indels: 50
0.70 0.09 0.21
Matches are distributed among these distances:
17 3 0.02
18 11 0.07
19 16 0.09
20 55 0.33
21 9 0.05
22 29 0.17
23 8 0.05
24 22 0.13
25 2 0.01
27 5 0.03
28 8 0.05
29 1 0.01
ACGTcount: A:0.42, C:0.06, G:0.05, T:0.47
Consensus pattern (21 bp):
TATAGTTTATATATAATACTA
Found at i:8623916 original size:13 final size:11
Alignment explanation
Indices: 8623881--8623918 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
8623871 ATATAAATTG
*
8623881 TATAGTTTATA
1 TATAATTTATA
*
8623892 TATAATTCATA
1 TATAATTTATA
8623903 TATAATTTATA
1 TATAATTTATA
8623914 TATAA
1 TATAA
8623919 ACTATGTAGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.45, C:0.03, G:0.03, T:0.50
Consensus pattern (11 bp):
TATAATTTATA
Found at i:8624006 original size:27 final size:28
Alignment explanation
Indices: 8623960--8624020 Score: 88
Period size: 27 Copynumber: 2.2 Consensus size: 28
8623950 ATATATAAAC
* **
8623960 TATATAGTATTATAGTTTATACATGGTA
1 TATATAGTATTATACTTTATACATAATA
8623988 TATATAGT-TTATACTTTATACATAATA
1 TATATAGTATTATACTTTATACATAATA
8624015 TATATA
1 TATATA
8624021 TAAACTATAT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
27 22 0.73
28 8 0.27
ACGTcount: A:0.39, C:0.05, G:0.08, T:0.48
Consensus pattern (28 bp):
TATATAGTATTATACTTTATACATAATA
Found at i:8624019 original size:2 final size:2
Alignment explanation
Indices: 8624012--8624117 Score: 54
Period size: 2 Copynumber: 50.5 Consensus size: 2
8624002 TTTATACATA
* * * *
8624012 AT AT AT AT AT AA ACT AT AT AGT TT TT AT AT AT AT AA ACT AT AT
1 AT AT AT AT AT AT A-T AT AT A-T AT AT AT AT AT AT AT A-T AT AT
* * * *
8624055 AGT TT AT AT AT AT A- AT AC AT AT ACT TT AT AT AT AA ACT AT AT
1 A-T AT AT AT AT AT AT AT AT AT AT A-T AT AT AT AT AT A-T AT AT
*
8624097 AGT TT AT AT AT -T AT AT AT AT A
1 A-T AT AT AT AT AT AT AT AT AT A
8624118 CCTATATTAG
Statistics
Matches: 79, Mismatches: 16, Indels: 18
0.70 0.14 0.16
Matches are distributed among these distances:
1 2 0.03
2 70 0.89
3 7 0.09
ACGTcount: A:0.45, C:0.05, G:0.03, T:0.47
Consensus pattern (2 bp):
AT
Found at i:8624040 original size:24 final size:22
Alignment explanation
Indices: 8624013--8624107 Score: 133
Period size: 22 Copynumber: 4.3 Consensus size: 22
8624003 TTATACATAA
8624013 TATATATATAAACTATATAGTTTT
1 TATATATATAAACTATATAG--TT
8624037 TATATATATAAACTATATAGTT
1 TATATATATAAACTATATAGTT
*
8624059 TATATATATAATAC-ATATA-CT
1 TATATATATAA-ACTATATAGTT
8624080 T-TATATATAAACTATATAGTT
1 TATATATATAAACTATATAGTT
8624101 TATATAT
1 TATATAT
8624108 TATATATATA
Statistics
Matches: 65, Mismatches: 2, Indels: 10
0.84 0.03 0.13
Matches are distributed among these distances:
19 2 0.03
20 14 0.22
21 4 0.06
22 23 0.35
23 2 0.03
24 20 0.31
ACGTcount: A:0.44, C:0.05, G:0.03, T:0.47
Consensus pattern (22 bp):
TATATATATAAACTATATAGTT
Found at i:8625375 original size:3 final size:3
Alignment explanation
Indices: 8625367--8625397 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
8625357 GAATTGGGTT
8625367 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
1 TTG TTG TTG TTG TTG TTG TTG TTG TTG TTG T
8625398 ATATTTTTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.00, C:0.00, G:0.32, T:0.68
Consensus pattern (3 bp):
TTG
Found at i:8625774 original size:215 final size:215
Alignment explanation
Indices: 8625397--8625993 Score: 982
Period size: 215 Copynumber: 2.8 Consensus size: 215
8625387 GTTGTTGTTG
*
8625397 TATATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTTATATTAATTT
1 TATATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTAC-TTTTTGTATTAATTT
* * *
8625462 CAACATCACAATTTAAAATCATTTCGATTTGATCCCTCATCAATGTGTGTTGTTTAATATATTTA
65 CAACATCACAATTTAAAATTATTTTGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTA
* * *
8625527 AATTTTTATTTGTAATTTCATATTTATTCAATTTAGTCCTCCAAATTTTATTTGCATCTGAAATT
130 AATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTACTCCAAATTTTATTTGCATATGAAATT
*
8625592 GA-CCTATACTTATTACTTATT
195 GATCC-ATACTTATTACTTAAT
8625613 TATATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTC
1 TATATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTC
* *
8625678 AACATCACAATTTAAAATTATTTTGATTTGATCCCTCGTCAATGTGTGTTGTATAATTTATTTAA
66 AACATCACAATTTAAAATTATTTTGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAA
8625743 ATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTACTCCAAATTTTATTTGCATATGAAATTG
131 ATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTACTCCAAATTTTATTTGCATATGAAATTG
8625808 ATCCATACTTATTACTTAAT
196 ATCCATACTTATTACTTAAT
* * * * *
8625828 TCTATTTTTTAATTGGCCCATAACTTTTTAAATAGATATAATTTAGTATTTTTTTGTATTAATTT
1 TATATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTA-CTTTTTGTATTAATTT
* *
8625893 CAATC-TCACAATTTAAAATTATTTTGATTTGATCCCTAATCAATGTGTGTTGTTTAATTTTTTT
65 CAA-CATCACAATTTAAAATTATTTTGATTTGATCCCTCATCAATGTGTGTTGTTTAA-TTTATT
8625957 TAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
128 TAAATTTTTATTTGTAATTTCATATTTGTTCAATTTA
8625994 ATTCTTAAAT
Statistics
Matches: 358, Mismatches: 19, Indels: 7
0.93 0.05 0.02
Matches are distributed among these distances:
215 197 0.55
216 118 0.33
217 43 0.12
ACGTcount: A:0.30, C:0.11, G:0.08, T:0.50
Consensus pattern (215 bp):
TATATTTTTAAATTGGCCCATAACTTTTTAAATGGGTATAATTTAGTACTTTTTGTATTAATTTC
AACATCACAATTTAAAATTATTTTGATTTGATCCCTCATCAATGTGTGTTGTTTAATTTATTTAA
ATTTTTATTTGTAATTTCATATTTGTTCAATTTAGTACTCCAAATTTTATTTGCATATGAAATTG
ATCCATACTTATTACTTAAT
Found at i:8626396 original size:25 final size:26
Alignment explanation
Indices: 8626349--8626398 Score: 66
Period size: 26 Copynumber: 2.0 Consensus size: 26
8626339 TGGTGTCAAA
* * *
8626349 TTTACCTGACTTGACCTGTATCCGAT
1 TTTACCCGACTTGACCAGGATCCGAT
8626375 TTTACCCGACTTG-CCAGGATCCGA
1 TTTACCCGACTTGACCAGGATCCGA
8626399 CTGAAACCTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 9 0.43
26 12 0.57
ACGTcount: A:0.20, C:0.30, G:0.18, T:0.32
Consensus pattern (26 bp):
TTTACCCGACTTGACCAGGATCCGAT
Done.