Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004233.1 Hibiscus syriacus cultivar Beakdansim tig00009275_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: 122221
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:6465 original size:17 final size:18
Alignment explanation
Indices: 6432--6465 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
6422 CGATTGTTGT
*
6432 AAAGAAATAAGACTAAGG
1 AAAGAAAGAAGACTAAGG
6450 AAAGAAAGAA-ACTAAG
1 AAAGAAAGAAGACTAAG
6466 ATGTTGAAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.65, C:0.06, G:0.21, T:0.09
Consensus pattern (18 bp):
AAAGAAAGAAGACTAAGG
Found at i:9840 original size:11 final size:11
Alignment explanation
Indices: 9824--9853 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
9814 ATACATGCTT
9824 GAATCAAGTGA
1 GAATCAAGTGA
9835 GAATCAAGTGA
1 GAATCAAGTGA
*
9846 AAATCAAG
1 GAATCAAG
9854 AACCCTAACC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.50, C:0.10, G:0.23, T:0.17
Consensus pattern (11 bp):
GAATCAAGTGA
Found at i:10415 original size:293 final size:292
Alignment explanation
Indices: 9831--10415 Score: 1161
Period size: 293 Copynumber: 2.0 Consensus size: 292
9821 CTTGAATCAA
9831 GTGAGAATCAAGTGAAAATCAAGAACCCTAACCACTATGATATTCAACACTAAGGAATTAATTGG
1 GTGAGAATCAAGTGAAAATCAAGAACCCTAACCACTATGATATTCAACACTAAGGAATTAATTGG
9896 GGGAAAATTGTGAAAATTTTTCCTAGGCTTAGAAATGATGTTTGAAAGGTTCTACCCGCTTTAGA
66 GGGAAAATTGTGAAAATTTTTCCTAGGCTTAGAAATGATGTTTGAAAGGTTCTACCCGCTTTAGA
9961 AAGTTATTTGGGCCTTTTGTAATTTTATGAAAGTTAAGGGATATATTCGACAATTATGGAAAATT
131 AAGTTATTTGGGCCTTTTGTAATTTTATGAAAGTTAAGGGATATATTCGACAATTATGGAAAATT
10026 ATGGGATTTACGTGCAAATGCTAAAAAGATGATGAACTATGCTAGAATTGAAAGTTAGAATATTG
196 ATGGGATTTACGTGCAAATGCTAAAAAGATGATGAACTATGCTAGAATTGAAAGTTAGAATATTG
10091 AATTTGATGTTAGAATGTGAAATTTGACTATT
261 AATTTGATGTTAGAATGTGAAATTTGACTATT
10123 GTGAGAATCAAGTGAAAATCAAGAACCCTAACCACTATGATATTCAACACTAAGGAATTAATTGG
1 GTGAGAATCAAGTGAAAATCAAGAACCCTAACCACTATGATATTCAACACTAAGGAATTAATTGG
10188 GGGAAAATTGTGAAAATTTTTCCTAGGCTTAGAAATGATGTTTGAAAGGTTCTACCCGCTTTAGA
66 GGGAAAATTGTGAAAATTTTTCCTAGGCTTAGAAATGATGTTTGAAAGGTTCTACCCGCTTTAGA
10253 AAGTTATTTGGGCCTTTTTGTAATTTTATGAAAGTTAAGGGATATATTCGACAATTATGGAAAAT
131 AAGTTATTTGGGCC-TTTTGTAATTTTATGAAAGTTAAGGGATATATTCGACAATTATGGAAAAT
10318 TATGGGATTTACGTGCAAATGCTAAAAAGATGATGAACTATGCTAGAATTGAAAGTTAGAATATT
195 TATGGGATTTACGTGCAAATGCTAAAAAGATGATGAACTATGCTAGAATTGAAAGTTAGAATATT
10383 GAATTTGATGTTAGAATGTGAAATTTGACTATT
260 GAATTTGATGTTAGAATGTGAAATTTGACTATT
10416 TTTAAAAGTT
Statistics
Matches: 292, Mismatches: 0, Indels: 1
1.00 0.00 0.00
Matches are distributed among these distances:
292 144 0.49
293 148 0.51
ACGTcount: A:0.37, C:0.10, G:0.21, T:0.33
Consensus pattern (292 bp):
GTGAGAATCAAGTGAAAATCAAGAACCCTAACCACTATGATATTCAACACTAAGGAATTAATTGG
GGGAAAATTGTGAAAATTTTTCCTAGGCTTAGAAATGATGTTTGAAAGGTTCTACCCGCTTTAGA
AAGTTATTTGGGCCTTTTGTAATTTTATGAAAGTTAAGGGATATATTCGACAATTATGGAAAATT
ATGGGATTTACGTGCAAATGCTAAAAAGATGATGAACTATGCTAGAATTGAAAGTTAGAATATTG
AATTTGATGTTAGAATGTGAAATTTGACTATT
Found at i:11998 original size:19 final size:19
Alignment explanation
Indices: 11920--11996 Score: 91
Period size: 19 Copynumber: 4.1 Consensus size: 19
11910 TATGTATTGG
*
11920 GCTATGAATTTGAAAATAA
1 GCTATGAATCTGAAAATAA
* *
11939 GCTATGAATCTGACAGTAA
1 GCTATGAATCTGAAAATAA
* *
11958 GCTATGAGTTTGAAAATAA
1 GCTATGAATCTGAAAATAA
* *
11977 GTTATGAATCTGGAAATAA
1 GCTATGAATCTGAAAATAA
11996 G
1 G
11997 TTCTGATTCA
Statistics
Matches: 47, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 47 1.00
ACGTcount: A:0.42, C:0.08, G:0.21, T:0.30
Consensus pattern (19 bp):
GCTATGAATCTGAAAATAA
Found at i:15584 original size:418 final size:416
Alignment explanation
Indices: 14793--15627 Score: 1327
Period size: 418 Copynumber: 2.0 Consensus size: 416
14783 CACCCAATCG
* *
14793 TATTTTGAGATATAATTTAGGCACTAAAATGTGTATTAAACCTATAAAAATATATAAATAATTAT
1 TATTTTGAGATATAATTTAGGCACTAAAAAGTGTATTAAACCAATAAAAATATATAAATAATTAT
*
14858 TTAATATGTGATAAAAAAACTTTTATAAATTACTTGAACTAAGTGATCTTGGTGGTAAAGGAAAT
66 TTAATATGTGATAAAAAAACTTTTATAAATTACATGAACTAAGTGATCTTGGTGGTAAAGGAAAT
* * ** * *
14923 GTTGTTATTCCTTGAGTCTCGGATTCGAGAACCGGGAATATCATAGGTGTGAGCGTTCAATGTTA
131 ATTGTTATTCCTTAAGTCTCGGATTCGAGAACCGAAAATATCATAGGTGTGAGCATTCAAAGTTA
* * *
14988 AATGATTGAGAGTTATCTTTTAACAGATATTGTCTAGTACCTACTTCAGATTAATTAAAAGAGAA
196 AATGATTGAGAGTTATCTTTTAACAGATATTGCCTAGTACATACTTCAGATTAATCAAAAGAGAA
* *
15053 AAAGAAATCTTTTATAAATTCTTTTTTTCTTAAGATTTATGTCTTTCTTTATAGATTAGAAAAAA
261 AAAGAAATATTTTATAAATTCTTTTTTCCTTAAGATTTATGTCTTTCTTTATAGATTAGAAAAAA
* * *
15118 TGATTTTTTTATTTTGTTTAGCTGACAGGGCACCGATCTTGATGTTGATTGTCGATCATTGGTTC
326 TGATTTTTTTATTTTGTTTAGCTAACAGGGCACCGATCTTGATGTTGATTATCGATCATTGGTTA
15183 TCTTTTTCCTTTGGTTCTTTTTTTAGTTT
391 TCTTTTTCCTTT-G-T-TTTTTTTAGTTT
* *
15212 TATTTTGAGATATAATTTAGGCATTAAAAAGTGTATTAAACCAATATAAATATATAAATAATTA-
1 TATTTTGAGATATAATTTAGGCACTAAAAAGTGTATTAAACCAATAAAAATATATAAATAATTAT
* *
15276 TT-ATATGTGATCAAACAACTTTTATAAATTACATGAACTAAGTGA-CATTGGTGGTAAAGGAAA
66 TTAATATGTGATAAAAAAACTTTTATAAATTACATGAACTAAGTGATC-TTGGTGGTAAAGGAAA
* * *
15339 TATTGTTATTCCTTAAGGTCTCGGATTCGAGCATCGAAAATATCATAGGTGTGATCATTCAAAGT
130 TATTGTTATTCCTTAA-GTCTCGGATTCGAGAACCGAAAATATCATAGGTGTGAGCATTCAAAGT
15404 TAAATGATTGAGAGTTATCTTTTAACAGATATTGCCTAGTACATACTTCAGATTAATCAAAAGAG
194 TAAATGATTGAGAGTTATCTTTTAACAGATATTGCCTAGTACATACTTCAGATTAATCAAAAGAG
*
15469 AAAAATAAATATTTTATAAATTCTTTTTTCCTTAAGATTTATGTCTTTCTTTATAGATTAGAAAA
259 AAAAAGAAATATTTTATAAATTCTTTTTTCCTTAAGATTTATGTCTTTCTTTATAGATTAGAAAA
* * * *
15534 TATGATTTTTTTATTTTG-TTAGCTAACAGGGACACCGGTCTTGCTGTTGATTATCGATCGTTGG
324 AATGATTTTTTTATTTTGTTTAGCTAACAGGG-CACCGATCTTGATGTTGATTATCGATCATTGG
15598 TTATCTTTTTCCTTTGTTTTTTTTAGTTT
388 TTATCTTTTTCCTTTGTTTTTTTTAGTTT
15627 T
1 T
15628 TTAATAAGAA
Statistics
Matches: 384, Mismatches: 29, Indels: 10
0.91 0.07 0.02
Matches are distributed among these distances:
415 13 0.03
416 2 0.01
417 83 0.22
418 226 0.59
419 60 0.16
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.41
Consensus pattern (416 bp):
TATTTTGAGATATAATTTAGGCACTAAAAAGTGTATTAAACCAATAAAAATATATAAATAATTAT
TTAATATGTGATAAAAAAACTTTTATAAATTACATGAACTAAGTGATCTTGGTGGTAAAGGAAAT
ATTGTTATTCCTTAAGTCTCGGATTCGAGAACCGAAAATATCATAGGTGTGAGCATTCAAAGTTA
AATGATTGAGAGTTATCTTTTAACAGATATTGCCTAGTACATACTTCAGATTAATCAAAAGAGAA
AAAGAAATATTTTATAAATTCTTTTTTCCTTAAGATTTATGTCTTTCTTTATAGATTAGAAAAAA
TGATTTTTTTATTTTGTTTAGCTAACAGGGCACCGATCTTGATGTTGATTATCGATCATTGGTTA
TCTTTTTCCTTTGTTTTTTTTAGTTT
Found at i:18686 original size:19 final size:20
Alignment explanation
Indices: 18662--18708 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
18652 AACGATTTTC
* *
18662 TTTTGAAAATACAATTG-GA
1 TTTTGAAAATACAAATGAAA
18681 TTTTG-AAATACAAATGAAA
1 TTTTGAAAATACAAATGAAA
18700 TTTTGAAAA
1 TTTTGAAAA
18709 ATAATTTAGA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 10 0.42
19 11 0.46
20 3 0.12
ACGTcount: A:0.47, C:0.04, G:0.13, T:0.36
Consensus pattern (20 bp):
TTTTGAAAATACAAATGAAA
Found at i:20120 original size:15 final size:16
Alignment explanation
Indices: 20093--20127 Score: 54
Period size: 15 Copynumber: 2.2 Consensus size: 16
20083 CTCATGGGAG
*
20093 AGAGAGACACACGGAC
1 AGAGAGACACACGCAC
20109 AGAGAG-CACACGCAC
1 AGAGAGACACACGCAC
20124 AGAG
1 AGAG
20128 CAGAAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 12 0.67
16 6 0.33
ACGTcount: A:0.43, C:0.26, G:0.31, T:0.00
Consensus pattern (16 bp):
AGAGAGACACACGCAC
Found at i:20973 original size:17 final size:16
Alignment explanation
Indices: 20942--20975 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
20932 CACGTGAGGA
20942 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
20958 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
20975 T
1 T
20976 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:31228 original size:17 final size:16
Alignment explanation
Indices: 31197--31230 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
31187 CACGTGAGGA
31197 TTATTTTCTTCTTATT
1 TTATTTTCTTCTTATT
*
31213 TTATTTATCTTTTTATT
1 TTATTT-TCTTCTTATT
31230 T
1 T
31231 ACTGTTTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.15, C:0.09, G:0.00, T:0.76
Consensus pattern (16 bp):
TTATTTTCTTCTTATT
Found at i:32292 original size:21 final size:22
Alignment explanation
Indices: 32256--32296 Score: 66
Period size: 21 Copynumber: 1.9 Consensus size: 22
32246 TTAAATATTA
32256 TAAAGGTAGTACCGATACTCAT
1 TAAAGGTAGTACCGATACTCAT
*
32278 TAAAGG-AGTATCGATACTC
1 TAAAGGTAGTACCGATACTC
32297 CCTGTTATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.27
Consensus pattern (22 bp):
TAAAGGTAGTACCGATACTCAT
Found at i:37843 original size:23 final size:21
Alignment explanation
Indices: 37791--37852 Score: 81
Period size: 23 Copynumber: 2.9 Consensus size: 21
37781 TTTTGGTGCA
*
37791 GAGGGAATCGA-TCCCCCCTT
1 GAGGGAACCGATTCCCCCCTT
*
37811 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGATTCCCCCCTT
37832 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGATTCCCCCC
37853 ACAGGGGAAT
Statistics
Matches: 36, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
20 10 0.28
21 9 0.25
22 1 0.03
23 16 0.44
ACGTcount: A:0.21, C:0.35, G:0.26, T:0.18
Consensus pattern (21 bp):
GAGGGAACCGATTCCCCCCTT
Found at i:45706 original size:26 final size:27
Alignment explanation
Indices: 45677--45729 Score: 65
Period size: 27 Copynumber: 2.0 Consensus size: 27
45667 GTTTTCCATT
*
45677 TTTTTCTTTCA-TGTCT-TTTTTTTTTC
1 TTTTTCTTTAACTG-CTATTTTTTTTTC
*
45703 TTTTTTTTTAACTGCTATTTTTTTTTC
1 TTTTTCTTTAACTGCTATTTTTTTTTC
45730 AACATTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
26 11 0.48
27 12 0.52
ACGTcount: A:0.08, C:0.13, G:0.04, T:0.75
Consensus pattern (27 bp):
TTTTTCTTTAACTGCTATTTTTTTTTC
Found at i:50177 original size:36 final size:36
Alignment explanation
Indices: 50137--50208 Score: 144
Period size: 36 Copynumber: 2.0 Consensus size: 36
50127 GAAACAGAAA
50137 ACTTTTATAAAAACTAGAGAGAAAAGAAGAATGTAT
1 ACTTTTATAAAAACTAGAGAGAAAAGAAGAATGTAT
50173 ACTTTTATAAAAACTAGAGAGAAAAGAAGAATGTAT
1 ACTTTTATAAAAACTAGAGAGAAAAGAAGAATGTAT
50209 TCTGAATGAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.53, C:0.06, G:0.17, T:0.25
Consensus pattern (36 bp):
ACTTTTATAAAAACTAGAGAGAAAAGAAGAATGTAT
Found at i:54268 original size:24 final size:24
Alignment explanation
Indices: 54248--54338 Score: 94
Period size: 24 Copynumber: 3.8 Consensus size: 24
54238 TTTATCTGAT
54248 TTCTGTTATGATTTCTGATCTGGA
1 TTCTGTTATGATTTCTGATCTGGA
* * * * *
54272 TTCTATTATGATATATTATATGGA
1 TTCTGTTATGATTTCTGATCTGGA
* *
54296 TTCTGTTCTGATATT-TGATCTGAA
1 TTCTGTTATGAT-TTCTGATCTGGA
*
54320 TTTTGTTATGATTTCTGAT
1 TTCTGTTATGATTTCTGAT
54339 TTCTGTTTAC
Statistics
Matches: 52, Mismatches: 13, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
23 2 0.04
24 49 0.94
25 1 0.02
ACGTcount: A:0.22, C:0.09, G:0.16, T:0.53
Consensus pattern (24 bp):
TTCTGTTATGATTTCTGATCTGGA
Found at i:54560 original size:31 final size:29
Alignment explanation
Indices: 54478--54560 Score: 103
Period size: 31 Copynumber: 2.7 Consensus size: 29
54468 TAAGGTGACC
54478 CTTGGGTAGGCTCTGCGGCCCTGAGATTTT
1 CTTGGGTAGGCTC-GCGGCCCTGAGATTTT
* *
54508 CTTGGGTAAGCCTCCGTGGCCCTGAGAATTTT
1 CTTGGGT-AGGCT-CGCGGCCCTGAG-ATTTT
54540 CTTGGGTAGGCTCGCAGGCCC
1 CTTGGGTAGGCTCGC-GGCCC
54561 CAAGGTACTC
Statistics
Matches: 45, Mismatches: 4, Indels: 7
0.80 0.07 0.12
Matches are distributed among these distances:
30 9 0.20
31 23 0.51
32 13 0.29
ACGTcount: A:0.12, C:0.27, G:0.33, T:0.29
Consensus pattern (29 bp):
CTTGGGTAGGCTCGCGGCCCTGAGATTTT
Found at i:55627 original size:57 final size:58
Alignment explanation
Indices: 55506--55761 Score: 304
Period size: 58 Copynumber: 4.4 Consensus size: 58
55496 TTGCGTTAAC
* *
55506 TCTAACTTTATAAGGAAAATAGATTGTTGAATTTATTTCCTTGAGAATCTTAAATGAT
1 TCTAACTTTTTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTTAAATGAT
* * * * *
55564 GT-TAACTTTTTAAGGAAAATATATTGTTTAA-TTGTTTCCTTGATAATCTTTAATGAT
1 -TCTAACTTTTTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTTAAATGAT
* * *
55621 TCTAACTTTTTAAGGAAAATAGATTGTTTAATTTATTTCCTTTAGAATCTTAAATGAT
1 TCTAACTTTTTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTTAAATGAT
* * ** ** *
55679 TCTAACTTTATAATGAGCATAAATTGTTGAATTTATTTCCTTG-GAAAATTGAATGAT
1 TCTAACTTTTTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTTAAATGAT
*
55736 T-TGAACTTTTTAAGAAAAATAAATTG
1 TCT-AACTTTTTAAGGAAAATAAATTG
55762 CAATACCCCA
Statistics
Matches: 168, Mismatches: 26, Indels: 8
0.83 0.13 0.04
Matches are distributed among these distances:
56 2 0.01
57 81 0.48
58 84 0.50
59 1 0.01
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (58 bp):
TCTAACTTTTTAAGGAAAATAAATTGTTGAATTTATTTCCTTGAGAATCTTAAATGAT
Found at i:55734 original size:115 final size:115
Alignment explanation
Indices: 55506--55761 Score: 322
Period size: 115 Copynumber: 2.2 Consensus size: 115
55496 TTGCGTTAAC
*
55506 TCTAACTTTATAAGGAAAATAGATTGTTGAATTTATTTCCTTGAGAATCTTAAATGATGTTAACT
1 TCTAACTTTTTAAGGAAAATAGATTGTTGAATTTATTTCCTTGAGAATCTTAAATGATGTTAACT
* * * * * *
55571 TTTTAAGGAAAATATATTGTTTAATTGTTTCCTTGATAATCTTTAATGAT
66 TTATAAGGAAAATAAATTGTTGAATTATTTCCTTGATAATATTGAATGAT
* *
55621 TCTAACTTTTTAAGGAAAATAGATTGTTTAATTTATTTCCTTTAGAATCTTAAATGAT-TCTAAC
1 TCTAACTTTTTAAGGAAAATAGATTGTTGAATTTATTTCCTTGAGAATCTTAAATGATGT-TAAC
* **
55685 TTTATAATGAGCATAAATTGTTGAATTTATTTCCTTGGA-AA-ATTGAATGAT
65 TTTATAAGGAAAATAAATTGTTGAA-TTATTTCCTT-GATAATATTGAATGAT
* *
55736 T-TGAACTTTTTAAGAAAAATAAATTG
1 TCT-AACTTTTTAAGGAAAATAGATTG
55762 CAATACCCCA
Statistics
Matches: 123, Mismatches: 14, Indels: 8
0.85 0.10 0.06
Matches are distributed among these distances:
114 2 0.02
115 108 0.88
116 11 0.09
117 2 0.02
ACGTcount: A:0.36, C:0.08, G:0.12, T:0.44
Consensus pattern (115 bp):
TCTAACTTTTTAAGGAAAATAGATTGTTGAATTTATTTCCTTGAGAATCTTAAATGATGTTAACT
TTATAAGGAAAATAAATTGTTGAATTATTTCCTTGATAATATTGAATGAT
Found at i:56290 original size:30 final size:30
Alignment explanation
Indices: 56222--56330 Score: 101
Period size: 30 Copynumber: 3.5 Consensus size: 30
56212 TAGCACTATG
* * *
56222 GTGTGTAAGGACACTTAGTTCATATGGTACTATA
1 GTGTGTAAGGACACTTAG-T-ACAT--CACTGTA
56256 GTGTGTAAGGACACTTAGTACATCACTGTA
1 GTGTGTAAGGACACTTAGTACATCACTGTA
* * * * *
56286 GTGTGTAAGGACGCTCAGTGCAACACTGTG
1 GTGTGTAAGGACACTTAGTACATCACTGTA
*
56316 GTGTGTAATGACACT
1 GTGTGTAAGGACACT
56331 CTGTGCATAT
Statistics
Matches: 65, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
30 43 0.66
32 3 0.05
33 1 0.02
34 18 0.28
ACGTcount: A:0.28, C:0.16, G:0.27, T:0.30
Consensus pattern (30 bp):
GTGTGTAAGGACACTTAGTACATCACTGTA
Found at i:57735 original size:39 final size:39
Alignment explanation
Indices: 57600--57822 Score: 198
Period size: 39 Copynumber: 5.5 Consensus size: 39
57590 GATTCTGATA
* *
57600 TGTAAAAGGAAATAAGTCGTTGGATTTATTTTCCTATTT
1 TGTAAAAGGAAATAAATCGTTGGATTTATTTTCTTATTT
* * * * * *
57639 TGAAAAAGAAAATAAATCATAGAATTTAGTTTCCTTA-TT
1 TGTAAAAGGAAATAAATCGTTGGATTTA-TTTTCTTATTT
* *
57678 TGTAAAAAGAAATAAATCGTTGGATTTAGTTTCTTATTT
1 TGTAAAAGGAAATAAATCGTTGGATTTATTTTCTTATTT
** *
57717 TGTAAAAGGAAATAAATCGAAACAAATCGTTTAATTTATTTTCATATTT
1 TGTAAAAGG----AAAT------AAATCGTTGGATTTATTTTCTTATTT
57766 TGTAGAAA-GAAATAAATCGTTGGATTTATTTTCTTATTT
1 TGTA-AAAGGAAATAAATCGTTGGATTTATTTTCTTATTT
*
57805 TTTAAAAGGAAATAAATC
1 TGTAAAAGGAAATAAATC
57823 ATTTGGATAT
Statistics
Matches: 145, Mismatches: 25, Indels: 28
0.73 0.13 0.14
Matches are distributed among these distances:
38 9 0.06
39 92 0.63
40 6 0.04
43 4 0.03
45 4 0.03
49 27 0.19
50 3 0.02
ACGTcount: A:0.39, C:0.07, G:0.13, T:0.40
Consensus pattern (39 bp):
TGTAAAAGGAAATAAATCGTTGGATTTATTTTCTTATTT
Found at i:57765 original size:49 final size:49
Alignment explanation
Indices: 57686--57784 Score: 137
Period size: 49 Copynumber: 2.0 Consensus size: 49
57676 TTTGTAAAAA
* * *
57686 GAAATAAATCGTTGGATTTAGTTTCTTATTTTGTA-AAAGGAAATAAATC
1 GAAACAAATCGTTGAATTTAGTTTCATATTTTGTAGAAA-GAAATAAATC
* *
57735 GAAACAAATCGTTTAATTTATTTTCATATTTTGTAGAAAGAAATAAATC
1 GAAACAAATCGTTGAATTTAGTTTCATATTTTGTAGAAAGAAATAAATC
57784 G
1 G
57785 TTGGATTTAT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
49 41 0.93
50 3 0.07
ACGTcount: A:0.40, C:0.07, G:0.14, T:0.38
Consensus pattern (49 bp):
GAAACAAATCGTTGAATTTAGTTTCATATTTTGTAGAAAGAAATAAATC
Found at i:61189 original size:17 final size:18
Alignment explanation
Indices: 61162--61207 Score: 51
Period size: 17 Copynumber: 2.6 Consensus size: 18
61152 TAAAAAAATC
61162 TATAGATAAAATTATA-AT
1 TATA-ATAAAATTATAGAT
*
61180 TATAATAAAAATATAGAT
1 TATAATAAAATTATAGAT
*
61198 T-TAAAAAAAT
1 TATAATAAAAT
61208 GAGATTTCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 17 0.71
18 7 0.29
ACGTcount: A:0.61, C:0.00, G:0.04, T:0.35
Consensus pattern (18 bp):
TATAATAAAATTATAGAT
Found at i:61456 original size:2 final size:2
Alignment explanation
Indices: 61449--61482 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
61439 AAAATATTTA
61449 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
61483 CTTTTCTGTA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:63094 original size:20 final size:19
Alignment explanation
Indices: 63071--63122 Score: 50
Period size: 20 Copynumber: 2.6 Consensus size: 19
63061 GAAAGCCAAT
63071 TTCGCAACACAGTTTCCGAA
1 TTCGCAACACAGTTT-CGAA
* * * *
63091 TTCGCTACTCGAATTTGGAA
1 TTCGCAACAC-AGTTTCGAA
63111 TTCGCAACACAG
1 TTCGCAACACAG
63123 AAGTAGAATT
Statistics
Matches: 24, Mismatches: 7, Indels: 3
0.71 0.21 0.09
Matches are distributed among these distances:
19 1 0.04
20 19 0.79
21 4 0.17
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (19 bp):
TTCGCAACACAGTTTCGAA
Found at i:63178 original size:20 final size:19
Alignment explanation
Indices: 63153--63193 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
63143 ATTTGACATT
* *
63153 TTCGCAACTCGATTTTCTAA
1 TTCGCAACGCGAGTTTC-AA
63173 TTCGCAACGCGAGTTTCAA
1 TTCGCAACGCGAGTTTCAA
63192 TT
1 TT
63194 TTGCAACGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 4 0.21
20 15 0.79
ACGTcount: A:0.24, C:0.24, G:0.15, T:0.37
Consensus pattern (19 bp):
TTCGCAACGCGAGTTTCAA
Found at i:63199 original size:20 final size:19
Alignment explanation
Indices: 63176--63240 Score: 58
Period size: 20 Copynumber: 3.3 Consensus size: 19
63166 TTTCTAATTC
*
63176 GCAACGCGAGTTTCAATTTT
1 GCAACGC-AGTTTAAATTTT
* *
63196 GCAACGCAAATTTAAATTTC
1 GCAACGC-AGTTTAAATTTT
* *
63216 GCAACTCAGCTTTTAATTTT
1 GCAACGCAG-TTTAAATTTT
63236 GCAAC
1 GCAAC
63241 ACAAATGTTT
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
19 1 0.03
20 35 0.97
ACGTcount: A:0.31, C:0.22, G:0.14, T:0.34
Consensus pattern (19 bp):
GCAACGCAGTTTAAATTTT
Found at i:64011 original size:12 final size:12
Alignment explanation
Indices: 63990--64023 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
63980 ACCACATTTC
*
63990 CAATACCAAACA
1 CAATATCAAACA
64002 CAATATCAAACA
1 CAATATCAAACA
*
64014 CAATCTCAAA
1 CAATATCAAA
64024 ATCCACAACT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.56, C:0.29, G:0.00, T:0.15
Consensus pattern (12 bp):
CAATATCAAACA
Found at i:64162 original size:24 final size:24
Alignment explanation
Indices: 64143--64192 Score: 82
Period size: 24 Copynumber: 2.1 Consensus size: 24
64133 TAGTCAGTAT
64143 TCGAAATTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
* *
64167 TCGGACTTTGATCTTGGTCAATAC
1 TCGAAATTTGATCTTGGTCAATAC
64191 TC
1 TC
64193 AGATTTTGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.24, C:0.20, G:0.18, T:0.38
Consensus pattern (24 bp):
TCGAAATTTGATCTTGGTCAATAC
Found at i:64200 original size:24 final size:24
Alignment explanation
Indices: 64149--64202 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
64139 GTATTCGAAA
*
64149 TTTGATCTTGGTCAATACTCGGAC
1 TTTGATCTTGGTCAATACTCAGAC
*
64173 TTTGATCTTGGTCAATACTCAGAT
1 TTTGATCTTGGTCAATACTCAGAC
64197 TTTGAT
1 TTTGAT
64203 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.22, C:0.17, G:0.19, T:0.43
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACTCAGAC
Found at i:64454 original size:3 final size:3
Alignment explanation
Indices: 64446--64482 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
64436 ATATAACCCT
* *
64446 GAA GAA GAA AAA GAA GAA GAA GAA TAA GAA GAA GAA G
1 GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA GAA G
64483 TCCCCGAAGA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (3 bp):
GAA
Found at i:64466 original size:15 final size:15
Alignment explanation
Indices: 64446--64482 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
64436 ATATAACCCT
64446 GAAGAAGAAAAAGAA
1 GAAGAAGAAAAAGAA
*
64461 GAAGAAGAATAAGAA
1 GAAGAAGAAAAAGAA
64476 GAAGAAG
1 GAAGAAG
64483 TCCCCGAAGA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.68, C:0.00, G:0.30, T:0.03
Consensus pattern (15 bp):
GAAGAAGAAAAAGAA
Found at i:65984 original size:21 final size:21
Alignment explanation
Indices: 65958--66120 Score: 141
Period size: 21 Copynumber: 7.8 Consensus size: 21
65948 TGAAATAATC
* *
65958 TCACGTAGAGCACCTATCTCA
1 TCACGTAAAGCACCTACCTCA
* **
65979 TCACGTAAAACACC-ATTGTCA
1 TCACGTAAAGCACCTA-CCTCA
* *
66000 TCACGTAAACCACCTACCTCG
1 TCACGTAAAGCACCTACCTCA
* * ** *
66021 TCACGTAAAGAAAC-ATTGTCT
1 TCACGTAAAGCACCTA-CCTCA
*
66042 TCACATAAAGCACCTACCTCA
1 TCACGTAAAGCACCTACCTCA
* *
66063 TCACGTAAAGCACCTACTTTA
1 TCACGTAAAGCACCTACCTCA
*
66084 TCACGTAAAGCACCGACCTCA
1 TCACGTAAAGCACCTACCTCA
*
66105 TCACGTAAAACACCTA
1 TCACGTAAAGCACCTA
66121 ACTTATCCCG
Statistics
Matches: 111, Mismatches: 27, Indels: 8
0.76 0.18 0.05
Matches are distributed among these distances:
20 2 0.02
21 107 0.96
22 2 0.02
ACGTcount: A:0.35, C:0.33, G:0.10, T:0.22
Consensus pattern (21 bp):
TCACGTAAAGCACCTACCTCA
Found at i:66004 original size:42 final size:42
Alignment explanation
Indices: 65958--66118 Score: 193
Period size: 42 Copynumber: 3.8 Consensus size: 42
65948 TGAAATAATC
* *
65958 TCACGTAGAGCACCTATCTCATCACGTAAAACACCATTGTCA
1 TCACGTAAAGCACCTACCTCATCACGTAAAACACCATTGTCA
* * * *
66000 TCACGTAAACCACCTACCTCGTCACGTAAAGA-AACATTGTCT
1 TCACGTAAAGCACCTACCTCATCACGTAAA-ACACCATTGTCA
* *
66042 TCACATAAAGCACCTACCTCATCACGTAAAGCACCTACTT-T-A
1 TCACGTAAAGCACCTACCTCATCACGTAAAACACC-A-TTGTCA
*
66084 TCACGTAAAGCACCGACCTCATCACGTAAAACACC
1 TCACGTAAAGCACCTACCTCATCACGTAAAACACC
66119 TAACTTATCC
Statistics
Matches: 100, Mismatches: 15, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
42 95 0.95
43 3 0.03
44 2 0.02
ACGTcount: A:0.35, C:0.33, G:0.11, T:0.22
Consensus pattern (42 bp):
TCACGTAAAGCACCTACCTCATCACGTAAAACACCATTGTCA
Found at i:66119 original size:63 final size:63
Alignment explanation
Indices: 65958--66120 Score: 159
Period size: 63 Copynumber: 2.6 Consensus size: 63
65948 TGAAATAATC
* ** *
65958 TCACGTAGAGCACCTATCTCATCACGTAAAACACC-ATTGTCATCACGTAAACCACCTACCTCG
1 TCACGTAAAGCACC-ATCTCATCACGTAAAACACCTATCCTCATCACGTAAACCACCTACCTCA
* * * * * * * * *
66021 TCACGTAAAGAAACATTGTCTTCACATAAAGCACCTA-CCTCATCACGTAAAGCACCTACTTTA
1 TCACGTAAAGCACCA-TCTCATCACGTAAAACACCTATCCTCATCACGTAAACCACCTACCTCA
*
66084 TCACGTAAAGCACCGACCTCATCACGTAAAACACCTA
1 TCACGTAAAGCACC-ATCTCATCACGTAAAACACCTA
66121 ACTTATCCCG
Statistics
Matches: 77, Mismatches: 20, Indels: 6
0.75 0.19 0.06
Matches are distributed among these distances:
62 1 0.01
63 74 0.96
64 2 0.03
ACGTcount: A:0.35, C:0.33, G:0.10, T:0.22
Consensus pattern (63 bp):
TCACGTAAAGCACCATCTCATCACGTAAAACACCTATCCTCATCACGTAAACCACCTACCTCA
Found at i:66329 original size:42 final size:42
Alignment explanation
Indices: 66281--66411 Score: 217
Period size: 42 Copynumber: 3.1 Consensus size: 42
66271 GAATCGGCTT
*
66281 GATGAGGTGATGGATCTCGGTGTCAAAGTGGAGAATCAACTC
1 GATGAGGTGATGGATCTCGGTGTCGAAGTGGAGAATCAACTC
**
66323 GATGAGGTGATGGATCTCGGTGTCGAAGTGGAGAATCGGCTC
1 GATGAGGTGATGGATCTCGGTGTCGAAGTGGAGAATCAACTC
* *
66365 GATGAGGTGATGGATCTCAGTGTCGAAGTAGAGAATCAACTC
1 GATGAGGTGATGGATCTCGGTGTCGAAGTGGAGAATCAACTC
66407 GATGA
1 GATGA
66412 AAAAGTGGGG
Statistics
Matches: 82, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
42 82 1.00
ACGTcount: A:0.27, C:0.14, G:0.35, T:0.24
Consensus pattern (42 bp):
GATGAGGTGATGGATCTCGGTGTCGAAGTGGAGAATCAACTC
Found at i:69143 original size:21 final size:20
Alignment explanation
Indices: 69092--69151 Score: 59
Period size: 21 Copynumber: 3.0 Consensus size: 20
69082 AGCTGAGTTG
* * *
69092 CGAAATTTAAATTGGCGTTG
1 CGAAATTGAAATTCGCGTTA
69112 C-AAATTCGAAAATTCGCGTTA
1 CGAAATT-G-AAATTCGCGTTA
*
69133 CGAAATTGAAACTCGCGTT
1 CGAAATTGAAATTCGCGTT
69152 GTGAATTAGA
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
19 5 0.15
20 11 0.33
21 12 0.36
22 5 0.15
ACGTcount: A:0.33, C:0.17, G:0.20, T:0.30
Consensus pattern (20 bp):
CGAAATTGAAATTCGCGTTA
Found at i:69150 original size:20 final size:20
Alignment explanation
Indices: 69125--69196 Score: 56
Period size: 20 Copynumber: 3.6 Consensus size: 20
69115 ATTCGAAAAT
69125 TCGCGTTACGAAATTGAAAC
1 TCGCGTTACGAAATTGAAAC
** *
69145 TCGCGTTGTG-AATTAGAAAA
1 TCGCGTTACGAAATT-GAAAC
* * **
69165 TCGAGTTGCGAAAACGAAAC
1 TCGCGTTACGAAATTGAAAC
*
69185 TCGTGTTACGAA
1 TCGCGTTACGAA
69197 TTTAAAAATT
Statistics
Matches: 40, Mismatches: 10, Indels: 4
0.74 0.19 0.07
Matches are distributed among these distances:
19 4 0.10
20 34 0.85
21 2 0.05
ACGTcount: A:0.35, C:0.17, G:0.24, T:0.25
Consensus pattern (20 bp):
TCGCGTTACGAAATTGAAAC
Found at i:69151 original size:41 final size:40
Alignment explanation
Indices: 69086--69187 Score: 96
Period size: 41 Copynumber: 2.5 Consensus size: 40
69076 ATTAAAAGCT
* * * * *
69086 GAGTTGCGAAATTTAAATTGGCGTTGCAAATTCGAAAATTC
1 GAGTTACGAAATTGAAACTCGCGTTGCAAATTAGAAAA-TC
* **
69127 GCGTTACGAAATTGAAACTCGCGTTGTGAATTAGAAAATC
1 GAGTTACGAAATTGAAACTCGCGTTGCAAATTAGAAAATC
* **
69167 GAGTTGCGAAAACGAAACTCG
1 GAGTTACGAAATTGAAACTCG
69188 TGTTACGAAT
Statistics
Matches: 49, Mismatches: 12, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
40 19 0.39
41 30 0.61
ACGTcount: A:0.35, C:0.15, G:0.24, T:0.26
Consensus pattern (40 bp):
GAGTTACGAAATTGAAACTCGCGTTGCAAATTAGAAAATC
Found at i:69186 original size:40 final size:40
Alignment explanation
Indices: 69140--69217 Score: 104
Period size: 40 Copynumber: 1.9 Consensus size: 40
69130 TTACGAAATT
**
69140 GAAACTCGCGTTGTGAA-TTAGAAAATCGAGTTGCGAAAAC
1 GAAACTCGCGTTACGAATTTA-AAAATCGAGTTGCGAAAAC
* *
69180 GAAACTCGTGTTACGAATTTAAAAATTGAGTTGCGAAA
1 GAAACTCGCGTTACGAATTTAAAAATCGAGTTGCGAAA
69218 CAGAAATTCG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
40 30 0.91
41 3 0.09
ACGTcount: A:0.38, C:0.13, G:0.23, T:0.26
Consensus pattern (40 bp):
GAAACTCGCGTTACGAATTTAAAAATCGAGTTGCGAAAAC
Found at i:69229 original size:40 final size:40
Alignment explanation
Indices: 69161--69236 Score: 109
Period size: 40 Copynumber: 1.9 Consensus size: 40
69151 TGTGAATTAG
69161 AAAATCGAGTTGCGAAAACGAAACTCGTGTTACGAATTTA
1 AAAATCGAGTTGCGAAAACGAAACTCGTGTTACGAATTTA
* * *
69201 AAAATTGAGTTGCG-AAACAGAAATTCGTGTTGCGAA
1 AAAATCGAGTTGCGAAAAC-GAAACTCGTGTTACGAA
69237 AATGTCAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
39 4 0.12
40 28 0.88
ACGTcount: A:0.39, C:0.13, G:0.22, T:0.25
Consensus pattern (40 bp):
AAAATCGAGTTGCGAAAACGAAACTCGTGTTACGAATTTA
Found at i:69831 original size:2 final size:2
Alignment explanation
Indices: 69824--69866 Score: 77
Period size: 2 Copynumber: 21.5 Consensus size: 2
69814 AAAGGATAGA
*
69824 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT TT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
69866 A
1 A
69867 GAAAGTGGCT
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:72560 original size:2 final size:2
Alignment explanation
Indices: 72553--72603 Score: 102
Period size: 2 Copynumber: 25.5 Consensus size: 2
72543 TGAAATATTA
72553 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
72595 AT AT AT AT A
1 AT AT AT AT A
72604 GTAAAATAGA
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 49 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:72671 original size:19 final size:19
Alignment explanation
Indices: 72635--72670 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
72625 CATAACAATA
*
72635 ATAATAGTAATATGAAAAT
1 ATAATAGTAATATAAAAAT
72654 ATAATA-TAATATAAAAA
1 ATAATAGTAATATAAAAA
72671 AACCAAAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 10 0.62
19 6 0.38
ACGTcount: A:0.64, C:0.00, G:0.06, T:0.31
Consensus pattern (19 bp):
ATAATAGTAATATAAAAAT
Found at i:72679 original size:27 final size:27
Alignment explanation
Indices: 72649--72721 Score: 69
Period size: 25 Copynumber: 2.7 Consensus size: 27
72639 TAGTAATATG
72649 AAAATATAATATAATATAAAAAAACCA
1 AAAATATAATATAATATAAAAAAACCA
* * *
72676 AAAAAATAA-ATAA-ATATATAAACCA
1 AAAATATAATATAATATAAAAAAACCA
* *
72701 AATATAAAAGTATACATATAA
1 AAAATATAA-TATA-ATATAA
72722 TGATAATTGG
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
25 16 0.46
26 4 0.11
27 11 0.31
28 1 0.03
29 3 0.09
ACGTcount: A:0.68, C:0.07, G:0.01, T:0.23
Consensus pattern (27 bp):
AAAATATAATATAATATAAAAAAACCA
Found at i:72872 original size:2 final size:2
Alignment explanation
Indices: 72867--72904 Score: 67
Period size: 2 Copynumber: 19.0 Consensus size: 2
72857 TAAAAAAAAG
*
72867 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA AA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
72905 GTATTAAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (2 bp):
TA
Found at i:73134 original size:37 final size:37
Alignment explanation
Indices: 73093--73197 Score: 147
Period size: 37 Copynumber: 2.8 Consensus size: 37
73083 GTTCTTGTGG
* * *
73093 ATCCTATATTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
73130 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
*
73167 ATCCTATTTTTAGGATTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
73198 GATGAAAAGG
Statistics
Matches: 59, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
37 59 1.00
ACGTcount: A:0.30, C:0.14, G:0.14, T:0.41
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:74199 original size:106 final size:106
Alignment explanation
Indices: 73881--74408 Score: 702
Period size: 106 Copynumber: 5.0 Consensus size: 106
73871 GCATTGTTCC
* ** *
73881 GAGTCCAATATCC-TC-CATCGTGAAGTTGAAATTAGCTCT-AGAACCGGGAAATTGTTTGTTGA
1 GAGTCCAATATCCTTCGC-T-GTGAAGTTGAAATTGGCTCTGA-AATTGGGAAGTTGTTTGTTGA
* * * *
73943 CAACCAGCTGTCCCTTCATTGTGAAGTTGAACTTGTGTTGTCTC
63 CAACCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
* *
73987 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTG-AA-T--GAA-AT-TTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* * **
74046 TCAGCCG-CCTCTTCGTCGTGAAGTTGGGCTTGTGTTGTCTTG
66 CCAGCGGTCC-CTTCGTCGTGAAGTTGAACTTGTGTTGTC-TG
* * *
74088 G-GTCCAAGATCCTTCGCTGAGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
74152 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
*
74193 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTATTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
*
74258 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGCGTTGTCTG
66 CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
**
74299 GAGTCCAATATCCTTAACTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
1 GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
* *
74364 CCAGTC-ATCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTC
66 CCAG-CGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
74405 GAGT
1 GAGT
74409 GGCACGATAT
Statistics
Matches: 379, Mismatches: 29, Indels: 28
0.87 0.07 0.06
Matches are distributed among these distances:
99 2 0.01
100 76 0.20
101 5 0.01
102 4 0.01
104 3 0.01
105 6 0.02
106 276 0.73
107 6 0.02
108 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (106 bp):
GAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAGTTGTTTGTTGACAA
CCAGCGGTCCCTTCGTCGTGAAGTTGAACTTGTGTTGTCTG
Found at i:75993 original size:23 final size:21
Alignment explanation
Indices: 75967--76008 Score: 57
Period size: 23 Copynumber: 1.9 Consensus size: 21
75957 TTGCATGTGC
75967 TTTTTGTCCCTTTTTCTTTTTGA
1 TTTTTGT-CCTTTTT-TTTTTGA
*
75990 TTTTTGTTCTTTTTTTTTT
1 TTTTTGTCCTTTTTTTTTT
76009 CTTTTGTTTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 5 0.28
22 6 0.33
23 7 0.39
ACGTcount: A:0.02, C:0.12, G:0.07, T:0.79
Consensus pattern (21 bp):
TTTTTGTCCTTTTTTTTTTGA
Found at i:76013 original size:9 final size:9
Alignment explanation
Indices: 76001--76063 Score: 56
Period size: 9 Copynumber: 6.9 Consensus size: 9
75991 TTTTGTTCTT
76001 TTTTTTTTC
1 TTTTTTTTC
*
76010 TTTTGTTTC
1 TTTTTTTTC
*
76019 TCTTTTTTC
1 TTTTTTTTC
76028 TTTGTTTTT-
1 TTT-TTTTTC
*
76037 TTTTTCTTC
1 TTTTTTTTC
**
76046 TTTTGCTTC
1 TTTTTTTTC
76055 TTTTCTTTT
1 TTTT-TTTT
76064 TTGTTCTTGA
Statistics
Matches: 43, Mismatches: 8, Indels: 5
0.77 0.14 0.09
Matches are distributed among these distances:
8 4 0.09
9 32 0.74
10 7 0.16
ACGTcount: A:0.00, C:0.14, G:0.05, T:0.81
Consensus pattern (9 bp):
TTTTTTTTC
Found at i:76019 original size:36 final size:35
Alignment explanation
Indices: 75979--76071 Score: 118
Period size: 36 Copynumber: 2.6 Consensus size: 35
75969 TTTGTCCCTT
75979 TTTCTTTTTGATTTTTGTTCTTTTTTTT-TTCTTTTG
1 TTTCTTTTT--TTTTTGTTCTTTTTTTTCTTCTTTTG
76015 TTTCTCTTTTTTCTTTGTT-TTTTTTTTCTTCTTTTG
1 TTTCT-TTTTTT-TTTGTTCTTTTTTTTCTTCTTTTG
*
76051 CTTCTTTTCTTTTTTGTTCTT
1 TTTCTTTT-TTTTTTGTTCTT
76072 GATTGGATCT
Statistics
Matches: 51, Mismatches: 1, Indels: 10
0.82 0.02 0.16
Matches are distributed among these distances:
35 19 0.37
36 28 0.55
37 4 0.08
ACGTcount: A:0.01, C:0.13, G:0.06, T:0.80
Consensus pattern (35 bp):
TTTCTTTTTTTTTTGTTCTTTTTTTTCTTCTTTTG
Found at i:76022 original size:22 final size:24
Alignment explanation
Indices: 75996--76063 Score: 77
Period size: 24 Copynumber: 2.8 Consensus size: 24
75986 TTGATTTTTG
75996 TTCTTTTTT-TTTTCTTTTGTTTC
1 TTCTTTTTTCTTTTCTTTTGTTTC
* *
76019 -TCTTTTTTCTTTGTTTTTTTTTTC
1 TTCTTTTTTCTTT-TCTTTTGTTTC
76043 TTCTTTTGCTTCTTTTCTTTT
1 TTCTTTT--TTCTTTTCTTTT
76064 TTGTTCTTGA
Statistics
Matches: 37, Mismatches: 3, Indels: 7
0.79 0.06 0.15
Matches are distributed among these distances:
22 8 0.22
23 3 0.08
24 9 0.24
25 6 0.16
26 5 0.14
27 6 0.16
ACGTcount: A:0.00, C:0.15, G:0.04, T:0.81
Consensus pattern (24 bp):
TTCTTTTTTCTTTTCTTTTGTTTC
Found at i:76070 original size:15 final size:15
Alignment explanation
Indices: 76023--76071 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 15
76013 TGTTTCTCTT
*
76023 TTTTCTTTGTTT-TTT
1 TTTTCTTT-TTTGTTC
76038 TTTTCTTCTTTTGCTTC
1 TTTTCTT-TTTTG-TTC
76055 TTTTCTTTTTTGTTC
1 TTTTCTTTTTTGTTC
76070 TT
1 TT
76072 GATTGGATCT
Statistics
Matches: 30, Mismatches: 1, Indels: 6
0.81 0.03 0.16
Matches are distributed among these distances:
15 15 0.50
16 6 0.20
17 9 0.30
ACGTcount: A:0.00, C:0.14, G:0.06, T:0.80
Consensus pattern (15 bp):
TTTTCTTTTTTGTTC
Found at i:77229 original size:8 final size:8
Alignment explanation
Indices: 77216--77251 Score: 56
Period size: 8 Copynumber: 4.6 Consensus size: 8
77206 GTAGATGAAG
77216 ATGCAAAA
1 ATGCAAAA
77224 ATGCAAAA
1 ATGCAAAA
77232 ATGC-AAA
1 ATGCAAAA
*
77239 ATGCAAGA
1 ATGCAAAA
77247 ATGCA
1 ATGCA
77252 TGAAATGTTC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
7 7 0.27
8 19 0.73
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (8 bp):
ATGCAAAA
Found at i:77241 original size:15 final size:15
Alignment explanation
Indices: 77216--77251 Score: 54
Period size: 15 Copynumber: 2.3 Consensus size: 15
77206 GTAGATGAAG
77216 ATGCAAAAATGCAAAA
1 ATGC-AAAATGCAAAA
*
77232 ATGCAAAATGCAAGA
1 ATGCAAAATGCAAAA
77247 ATGCA
1 ATGCA
77252 TGAAATGTTC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 15 0.79
16 4 0.21
ACGTcount: A:0.56, C:0.14, G:0.17, T:0.14
Consensus pattern (15 bp):
ATGCAAAATGCAAAA
Found at i:80576 original size:12 final size:13
Alignment explanation
Indices: 80545--80586 Score: 52
Period size: 12 Copynumber: 3.4 Consensus size: 13
80535 AAAATAAGTA
*
80545 AAATAAATAAAAG
1 AAATAAATAAATG
*
80558 GAA-AAATAAAT-
1 AAATAAATAAATG
80569 AAATAAATAAATG
1 AAATAAATAAATG
80582 AAATA
1 AAATA
80587 TTAAAATATA
Statistics
Matches: 24, Mismatches: 3, Indels: 4
0.77 0.10 0.13
Matches are distributed among these distances:
11 2 0.08
12 15 0.62
13 7 0.29
ACGTcount: A:0.74, C:0.00, G:0.07, T:0.19
Consensus pattern (13 bp):
AAATAAATAAATG
Found at i:80599 original size:2 final size:2
Alignment explanation
Indices: 80592--80628 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
80582 AAATATTAAA
80592 AT AT AT 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 AT AT AT A
80629 AATGAGTAAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:80703 original size:19 final size:19
Alignment explanation
Indices: 80646--80703 Score: 55
Period size: 19 Copynumber: 2.9 Consensus size: 19
80636 AAGATAGAAA
* *
80646 AATAATAATCATAACAATAAT
1 AATAGTAAT-ATAAAAAT-AT
*
80667 AATAGTAATATGAAAATAT
1 AATAGTAATATAAAAATAT
80686 AATA-TAATATAAATAATA
1 AATAGTAATATAAA-AATA
80704 AAAACCAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
18 8 0.25
19 10 0.31
20 6 0.19
21 8 0.25
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.31
Consensus pattern (19 bp):
AATAGTAATATAAAAATAT
Found at i:81510 original size:37 final size:37
Alignment explanation
Indices: 81469--81573 Score: 156
Period size: 37 Copynumber: 2.8 Consensus size: 37
81459 GTGATTGTGG
* * *
81469 ATCCTATCTTTAGGAGTTTAAATCATAGTAGAACTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
* * *
81506 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTCT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
81543 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
81574 GACGAAAAGG
Statistics
Matches: 60, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 60 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.40
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTCT
Found at i:84257 original size:21 final size:20
Alignment explanation
Indices: 84232--84297 Score: 71
Period size: 21 Copynumber: 3.2 Consensus size: 20
84222 TGCGAAATTT
*
84232 AAATTGGCGTTGCAAATTCGA
1 AAATTCGCGTTGCAAATT-GA
84253 AAATTCGCGTTGCGAAATTG-
1 AAATTCGCGTTGC-AAATTGA
* *
84273 AAACTCGCGTTGTAAATTAGA
1 AAATTCGCGTTGCAAATT-GA
84294 AAAT
1 AAAT
84298 CGAGTTGCGA
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
19 5 0.13
20 12 0.32
21 16 0.42
22 5 0.13
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.29
Consensus pattern (20 bp):
AAATTCGCGTTGCAAATTGA
Found at i:84265 original size:41 final size:40
Alignment explanation
Indices: 84218--84349 Score: 131
Period size: 40 Copynumber: 3.3 Consensus size: 40
84208 ATTAAAAGCT
* * * *
84218 GAGTTGCGAAATTTAAATTGGCGTTGCAAATTCGAAAATTC
1 GAGTTGCGAAATTGAAACTCGCGTTGCAAATTAGAAAA-TC
* *
84259 GCGTTGCGAAATTGAAACTCGCGTTGTAAATTAGAAAATC
1 GAGTTGCGAAATTGAAACTCGCGTTGCAAATTAGAAAATC
** * * * *
84299 GAGTTGCGAAAACGAAACTCGTGTTACGAATTTA-AAAATT
1 GAGTTGCGAAATTGAAACTCGCGTTGC-AAATTAGAAAATC
84339 GAGTTGCGAAA
1 GAGTTGCGAAA
84350 CAGAAATTCG
Statistics
Matches: 76, Mismatches: 14, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
40 39 0.51
41 37 0.49
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (40 bp):
GAGTTGCGAAATTGAAACTCGCGTTGCAAATTAGAAAATC
Found at i:84282 original size:20 final size:20
Alignment explanation
Indices: 84200--84319 Score: 84
Period size: 20 Copynumber: 6.0 Consensus size: 20
84190 AAAACATTTG
* *
84200 GTTGCGAAATTAAAAGCT-GA
1 GTTGCGAAATTGAAA-CTCGC
* * *
84220 GTTGCGAAATTTAAATTGGC
1 GTTGCGAAATTGAAACTCGC
*
84240 GTTGC-AAATTCGAAAATTCGC
1 GTTGCGAAATT-G-AAACTCGC
84261 GTTGCGAAATTGAAACTCGC
1 GTTGCGAAATTGAAACTCGC
* * *
84281 GTTG-TAAATTAGAAAATCGA
1 GTTGCGAAATT-GAAACTCGC
**
84301 GTTGCGAAAACGAAACTCG
1 GTTGCGAAATTGAAACTCG
84320 TGTTACGAAT
Statistics
Matches: 81, Mismatches: 13, Indels: 12
0.76 0.12 0.11
Matches are distributed among these distances:
19 11 0.14
20 49 0.60
21 16 0.20
22 5 0.06
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.27
Consensus pattern (20 bp):
GTTGCGAAATTGAAACTCGC
Found at i:84361 original size:40 final size:40
Alignment explanation
Indices: 84293--84368 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
84283 TGTAAATTAG
84293 AAAATCGAGTTGCGAAAACGAAACTCGTGTTACGAATTTA
1 AAAATCGAGTTGCGAAAACGAAACTCGTGTTACGAATTTA
* *
84333 AAAATTGAGTTGCG-AAACAGAAATTCGTGTTACGAA
1 AAAATCGAGTTGCGAAAAC-GAAACTCGTGTTACGAA
84369 AATGTCAAAT
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
39 4 0.12
40 29 0.88
ACGTcount: A:0.41, C:0.13, G:0.21, T:0.25
Consensus pattern (40 bp):
AAAATCGAGTTGCGAAAACGAAACTCGTGTTACGAATTTA
Found at i:85480 original size:23 final size:23
Alignment explanation
Indices: 85454--85498 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
85444 ACCAAAATGT
*
85454 AGAGATAAACGTGC-CACAAAGAC
1 AGAGACAAACGT-CTCACAAAGAC
*
85477 AGAGACAAATGTCTCACAAAGA
1 AGAGACAAACGTCTCACAAAGA
85499 AAAAATTATT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 1 0.05
23 18 0.95
ACGTcount: A:0.49, C:0.20, G:0.20, T:0.11
Consensus pattern (23 bp):
AGAGACAAACGTCTCACAAAGAC
Found at i:87635 original size:25 final size:24
Alignment explanation
Indices: 87607--87675 Score: 61
Period size: 25 Copynumber: 2.8 Consensus size: 24
87597 GGGAAAAATG
*
87607 AATAAATGAAAAAATGAAGAA-TAAA
1 AATAAAT-AAAAAATGAA-AAGGAAA
*
87632 AATAAGTAAAAAAAAT-AAAAGGAAA
1 AATAA--ATAAAAAATGAAAAGGAAA
87657 AATAAATAAATAAATGAAA
1 AATAAATAAA-AAATGAAA
87676 TATTAATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 10
0.73 0.06 0.20
Matches are distributed among these distances:
23 4 0.11
24 6 0.17
25 18 0.50
26 7 0.19
27 1 0.03
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (24 bp):
AATAAATAAAAAATGAAAAGGAAA
Found at i:87663 original size:16 final size:16
Alignment explanation
Indices: 87626--87666 Score: 50
Period size: 15 Copynumber: 2.6 Consensus size: 16
87616 AAAAATGAAG
*
87626 AATAAA-AATAAGTAAA
1 AATAAATAA-AAGGAAA
87642 AA-AAATAAAAGGAAA
1 AATAAATAAAAGGAAA
87657 AATAAATAAA
1 AATAAATAAA
87667 TAAATGAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 11 0.50
16 11 0.50
ACGTcount: A:0.78, C:0.00, G:0.07, T:0.15
Consensus pattern (16 bp):
AATAAATAAAAGGAAA
Found at i:87766 original size:18 final size:18
Alignment explanation
Indices: 87717--87770 Score: 56
Period size: 21 Copynumber: 2.8 Consensus size: 18
87707 AAAATAGAAA
*
87717 AATAATAATCATAACAATAAT
1 AATAGTAAT-ATAA-AAT-AT
87738 AATAGTAATATGAAAATAT
1 AATAGTAATAT-AAAATAT
87757 AATA-TAATATAAAA
1 AATAGTAATATAAAA
87771 AAAAAAAACA
Statistics
Matches: 31, Mismatches: 1, Indels: 6
0.82 0.03 0.16
Matches are distributed among these distances:
17 4 0.13
18 6 0.19
19 6 0.19
20 5 0.16
21 10 0.32
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.30
Consensus pattern (18 bp):
AATAGTAATATAAAATAT
Found at i:87771 original size:18 final size:19
Alignment explanation
Indices: 87721--87771 Score: 59
Period size: 18 Copynumber: 2.6 Consensus size: 19
87711 TAGAAAAATA
*
87721 ATAATCATAACAATAATAAT
1 ATAAT-ATAAAAATAATAAT
*
87741 AGTAATATGAAAAT-ATAAT
1 A-TAATATAAAAATAATAAT
87760 ATAATATAAAAA
1 ATAATATAAAAA
87772 AAAAAAACAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
18 10 0.37
19 6 0.22
20 7 0.26
21 4 0.15
ACGTcount: A:0.63, C:0.04, G:0.04, T:0.29
Consensus pattern (19 bp):
ATAATATAAAAATAATAAT
Found at i:88566 original size:37 final size:37
Alignment explanation
Indices: 88525--88629 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
88515 GTGCTTGTGG
* * * *
88525 ATCCTATCTTTAGAAGTTTAAATCATAGTAGAACTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTTT
* * *
88562 ATCCTATTTTTAGGAGTTTGAATCCTAGCAAAATTTT
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTTT
*
88599 ATCATATTTTTAGGAGTTTGAATCCTAGTAG
1 ATCCTATTTTTAGGAGTTTGAATCCTAGTAG
88630 GACGAAAAGG
Statistics
Matches: 58, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
37 58 1.00
ACGTcount: A:0.31, C:0.12, G:0.14, T:0.42
Consensus pattern (37 bp):
ATCCTATTTTTAGGAGTTTGAATCCTAGTAGAACTTT
Found at i:89672 original size:31 final size:30
Alignment explanation
Indices: 89633--89751 Score: 143
Period size: 30 Copynumber: 3.9 Consensus size: 30
89623 AGAGTCGAGG
* * *
89633 GTTACCTATGTCTTTCGAGACATATGGATA
1 GTTACCTATGTCCTTCGGGACATATGGACA
89663 GTTTACCTATGTCCTTCGGGACATATGGACA
1 G-TTACCTATGTCCTTCGGGACATATGGACA
*
89694 GGATTACC--TGTCCTTCGGGACATATGGGCA
1 -G-TTACCTATGTCCTTCGGGACATATGGACA
* *
89724 GTTACCTATGTTCTTCGGAACATATGGA
1 GTTACCTATGTCCTTCGGGACATATGGA
89752 TAGGTCCTTC
Statistics
Matches: 77, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
28 5 0.06
29 1 0.01
30 39 0.51
31 26 0.34
32 6 0.08
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.33
Consensus pattern (30 bp):
GTTACCTATGTCCTTCGGGACATATGGACA
Found at i:91041 original size:71 final size:71
Alignment explanation
Indices: 90911--91042 Score: 203
Period size: 71 Copynumber: 1.9 Consensus size: 71
90901 GCATCAAATC
* * *
90911 AAAATATAAATAAGTATGAATCATTTTCATATACAAATATAATTTTAATGACTAGATTGAAGTAA
1 AAAATATAAATAAGTATGAACCATTTTCATATACAAATATAATTTTAAGGACTAAATTGAAGTAA
90976 ATCACA
66 ATCACA
* *
90982 AAAATATAAATAAGTATGTACCGA-TTTCATATACAAATATAATTTTAAGGATTAAATTGAA
1 AAAATATAAATAAGTATGAACC-ATTTTCATATACAAATATAATTTTAAGGACTAAATTGAA
91043 AAAATATGAA
Statistics
Matches: 55, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
71 54 0.98
72 1 0.02
ACGTcount: A:0.49, C:0.08, G:0.09, T:0.34
Consensus pattern (71 bp):
AAAATATAAATAAGTATGAACCATTTTCATATACAAATATAATTTTAAGGACTAAATTGAAGTAA
ATCACA
Found at i:91394 original size:16 final size:16
Alignment explanation
Indices: 91375--91416 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
91365 ACTAATAAGT
91375 ATATATATATTTATAC
1 ATATATATATTTATAC
* *
91391 ATATGTATACTTATAC
1 ATATATATATTTATAC
*
91407 CTATATATAT
1 ATATATATAT
91417 AATTACACAC
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.40, C:0.10, G:0.02, T:0.48
Consensus pattern (16 bp):
ATATATATATTTATAC
Found at i:91469 original size:10 final size:10
Alignment explanation
Indices: 91456--91524 Score: 59
Period size: 10 Copynumber: 6.5 Consensus size: 10
91446 TATAGGTATG
*
91456 TATATAAATA
1 TATATAAGTA
91466 TATATAAGTA
1 TATATAAGTA
91476 TAAAGTATAA-TA
1 T--A-TATAAGTA
*
91488 TATAAGTATGTA
1 TAT-A-TAAGTA
91500 TATATAAGTA
1 TATATAAGTA
*
91510 TATATAATTA
1 TATATAAGTA
91520 TATAT
1 TATAT
91525 GTATGATGTA
Statistics
Matches: 49, Mismatches: 4, Indels: 12
0.75 0.06 0.18
Matches are distributed among these distances:
9 1 0.02
10 31 0.63
11 3 0.06
12 9 0.18
13 5 0.10
ACGTcount: A:0.51, C:0.00, G:0.07, T:0.42
Consensus pattern (10 bp):
TATATAAGTA
Found at i:91502 original size:14 final size:14
Alignment explanation
Indices: 91429--91564 Score: 75
Period size: 14 Copynumber: 9.5 Consensus size: 14
91419 TTACACACAC
* **
91429 ATATAAAAGTATCC
1 ATATATAAGTATGT
*
91443 ATATATAGGTATGT
1 ATATATAAGTATGT
*
91457 ATATA-AA-TATAT
1 ATATATAAGTATGT
*
91469 ATAAGTATAAAGTAT-A
1 AT-A-TAT-AAGTATGT
91485 ATATATAAGTATGT
1 ATATATAAGTATGT
*
91499 ATATATAAGTATAT
1 ATATATAAGTATGT
91513 ATAATTATATATGTATGAT
1 AT-A-TATA-A-GTATG-T
*
91532 GTATATAAGTA--T
1 ATATATAAGTATGT
* *
91544 ATACATAAGTGTGT
1 ATATATAAGTATGT
91558 ATATATA
1 ATATATA
91565 TATATATCAT
Statistics
Matches: 94, Mismatches: 15, Indels: 26
0.70 0.11 0.19
Matches are distributed among these distances:
12 15 0.16
13 8 0.09
14 42 0.45
15 5 0.05
16 9 0.10
17 8 0.09
18 5 0.05
19 2 0.02
ACGTcount: A:0.46, C:0.02, G:0.12, T:0.40
Consensus pattern (14 bp):
ATATATAAGTATGT
Found at i:91502 original size:42 final size:45
Alignment explanation
Indices: 91434--91521 Score: 128
Period size: 42 Copynumber: 2.0 Consensus size: 45
91424 CACACATATA
* *
91434 AAAGTATCCATATATAGGTATGTATATA-AA-TATATATAAGTAT
1 AAAGTATCAATATATAAGTATGTATATATAAGTATATATAAGTAT
*
91477 AAAGTAT-AATATATAAGTATGTATATATAAGTATATATAATTAT
1 AAAGTATCAATATATAAGTATGTATATATAAGTATATATAAGTAT
91521 A
1 A
91522 TATGTATGAT
Statistics
Matches: 40, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
42 18 0.45
43 9 0.22
44 13 0.32
ACGTcount: A:0.49, C:0.02, G:0.10, T:0.39
Consensus pattern (45 bp):
AAAGTATCAATATATAAGTATGTATATATAAGTATATATAAGTAT
Found at i:91936 original size:40 final size:42
Alignment explanation
Indices: 91881--91966 Score: 106
Period size: 41 Copynumber: 2.1 Consensus size: 42
91871 AACATTTGTC
*
91881 AAAAAAAATAAAATTTCCTTCT-TTCC-TTTTCTAAATTCCCA
1 AAAAAAAATAAAATTTCC-TCTATTCCGTCTTCTAAATTCCCA
* * *
91922 AAAAAAAAT-CAATTTTCTCTATTCCGTCTTCTAAATTCTCA
1 AAAAAAAATAAAATTTCCTCTATTCCGTCTTCTAAATTCCCA
91963 AAAA
1 AAAA
91967 GTCAAAATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
39 3 0.08
40 10 0.26
41 26 0.67
ACGTcount: A:0.41, C:0.21, G:0.01, T:0.37
Consensus pattern (42 bp):
AAAAAAAATAAAATTTCCTCTATTCCGTCTTCTAAATTCCCA
Found at i:92363 original size:14 final size:13
Alignment explanation
Indices: 92337--92374 Score: 51
Period size: 14 Copynumber: 2.8 Consensus size: 13
92327 TTAATTTACT
92337 GATTATAATTAA-
1 GATTATAATTAAG
92349 GATTTATAATATAAG
1 GA-TTATAAT-TAAG
92364 GATTATAATTA
1 GATTATAATTA
92375 TTATAGAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
12 2 0.09
13 9 0.39
14 10 0.43
15 2 0.09
ACGTcount: A:0.47, C:0.00, G:0.11, T:0.42
Consensus pattern (13 bp):
GATTATAATTAAG
Found at i:92515 original size:37 final size:37
Alignment explanation
Indices: 92400--92525 Score: 96
Period size: 37 Copynumber: 3.3 Consensus size: 37
92390 TTATTATTTT
* *
92400 AATTATCCTAACTAACAATTTATATTAACTTTTAAAGA
1 AATTATCATAACTAACAATTTATTTTAACTTTTAAA-A
* * * *
92438 GTAATTAT-ATTAATTATC-ATTGTTTATTTAA-TTGTCAAAA
1 --AATTATCA-TAACTAACAATT-TAT-TTTAACTT-TTAAAA
*
92478 AATTATCATAACTAACAATTTGTTTTAACTTTTAAAA
1 AATTATCATAACTAACAATTTATTTTAACTTTTAAAA
*
92515 AATAATCATAA
1 AATTATCATAA
92526 TTAATTATCA
Statistics
Matches: 68, Mismatches: 11, Indels: 17
0.71 0.11 0.18
Matches are distributed among these distances:
37 20 0.29
38 16 0.24
39 7 0.10
40 17 0.25
41 8 0.12
ACGTcount: A:0.44, C:0.10, G:0.04, T:0.43
Consensus pattern (37 bp):
AATTATCATAACTAACAATTTATTTTAACTTTTAAAA
Found at i:92542 original size:78 final size:78
Alignment explanation
Indices: 92400--92543 Score: 209
Period size: 78 Copynumber: 1.8 Consensus size: 78
92390 TTATTATTTT
* * * * *
92400 AATTATCCTAACTAACAATTTATATTAACTTTTAAAGAGTAATTATATTAATTATCATTGTTTAT
1 AATTATCATAACTAACAATTTATATTAACTTTTAAAAAATAATCATATTAATTATCATTATTTAT
92465 TTAATTGTCAAAA
66 TTAATTGTCAAAA
* *
92478 AATTATCATAACTAACAATTTGTTTTAACTTTTAAAAAATAATCATAATTAATTATCA-TATTTA
1 AATTATCATAACTAACAATTTATATTAACTTTTAAAAAATAATCAT-ATTAATTATCATTATTTA
92542 TT
65 TT
92544 ATAAATTCAA
Statistics
Matches: 58, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
78 47 0.81
79 11 0.19
ACGTcount: A:0.42, C:0.09, G:0.03, T:0.45
Consensus pattern (78 bp):
AATTATCATAACTAACAATTTATATTAACTTTTAAAAAATAATCATATTAATTATCATTATTTAT
TTAATTGTCAAAA
Found at i:100075 original size:2 final size:2
Alignment explanation
Indices: 100068--100102 Score: 63
Period size: 2 Copynumber: 18.0 Consensus size: 2
100058 GGCAATATCA
100068 AT AT AT AT AT AT AT A- AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
100103 CGCCTGTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:111980 original size:16 final size:16
Alignment explanation
Indices: 111959--111990 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
111949 TAATAAATAA
111959 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
111975 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
111991 CAATTTTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.56, C:0.25, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:112391 original size:10 final size:10
Alignment explanation
Indices: 112373--112406 Score: 50
Period size: 10 Copynumber: 3.4 Consensus size: 10
112363 CCCTCTGTTC
112373 GAACATAAAT
1 GAACATAAAT
*
112383 GAGCATAAAT
1 GAACATAAAT
*
112393 GAACAAAAAT
1 GAACATAAAT
112403 GAAC
1 GAAC
112407 GAACATAAGC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.59, C:0.12, G:0.15, T:0.15
Consensus pattern (10 bp):
GAACATAAAT
Found at i:113164 original size:21 final size:21
Alignment explanation
Indices: 113140--113191 Score: 68
Period size: 21 Copynumber: 2.5 Consensus size: 21
113130 AATTATGATG
**
113140 TTAATGTGATTGTTCACAATA
1 TTAATGTGATAATTCACAATA
* *
113161 TTAAAGTGATAATTCACGATA
1 TTAATGTGATAATTCACAATA
113182 TTAATGTGAT
1 TTAATGTGAT
113192 CCATGATGAG
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.37, C:0.08, G:0.15, T:0.40
Consensus pattern (21 bp):
TTAATGTGATAATTCACAATA
Found at i:120652 original size:23 final size:23
Alignment explanation
Indices: 120625--120675 Score: 84
Period size: 23 Copynumber: 2.2 Consensus size: 23
120615 TGCATCTTTG
*
120625 GCAAACAAAAGAAAGTCGGTTTT
1 GCAAACAAAAGAAAGTCAGTTTT
*
120648 GCAAACAAAATAAAGTCAGTTTT
1 GCAAACAAAAGAAAGTCAGTTTT
120671 GCAAA
1 GCAAA
120676 GATTGGCAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.47, C:0.14, G:0.18, T:0.22
Consensus pattern (23 bp):
GCAAACAAAAGAAAGTCAGTTTT
Done.