Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002160.1 Hibiscus syriacus cultivar Beakdansim tig00004412_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: 89458
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:3478 original size:68 final size:67
Alignment explanation
Indices: 3369--3494 Score: 216
Period size: 68 Copynumber: 1.9 Consensus size: 67
3359 TGTGCTTGGA
* *
3369 ATGCTAACTTCCATCTGGTCAAGTATTTCTATGTGCAAAGGAAATGATTAGTTGAAAGTTTTGGG
1 ATGCTAACTTCCATCTGGTCAAGCATTTCTATGTGCAAAGG-AATGATTAATTGAAAGTTTTGGG
3434 TGG
65 TGG
*
3437 ATGCTAACTTCCATCTGGTCAAGCATTTCTATGTGCAAAGGAATGATTAATTGGAAGT
1 ATGCTAACTTCCATCTGGTCAAGCATTTCTATGTGCAAAGGAATGATTAATTGAAAGT
3495 ACTTGGGAAG
Statistics
Matches: 55, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
67 15 0.27
68 40 0.73
ACGTcount: A:0.29, C:0.13, G:0.23, T:0.34
Consensus pattern (67 bp):
ATGCTAACTTCCATCTGGTCAAGCATTTCTATGTGCAAAGGAATGATTAATTGAAAGTTTTGGGT
GG
Found at i:26936 original size:20 final size:20
Alignment explanation
Indices: 26911--27004 Score: 161
Period size: 20 Copynumber: 4.7 Consensus size: 20
26901 TATTCCTTGG
26911 TAATCTTACATTCCCACTGA
1 TAATCTTACATTCCCACTGA
*
26931 TAATCTTACATTCCCACCGA
1 TAATCTTACATTCCCACTGA
*
26951 TAATCTTACATTCCCACTGG
1 TAATCTTACATTCCCACTGA
*
26971 TAATCTTACATTCTCACTGA
1 TAATCTTACATTCCCACTGA
26991 TAATCTTACATTCC
1 TAATCTTACATTCC
27005 GTGAACCAAA
Statistics
Matches: 68, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 68 1.00
ACGTcount: A:0.29, C:0.30, G:0.05, T:0.36
Consensus pattern (20 bp):
TAATCTTACATTCCCACTGA
Found at i:39465 original size:13 final size:12
Alignment explanation
Indices: 39436--39461 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
39426 TTAATAAAAG
39436 AATTTCATTTTT
1 AATTTCATTTTT
39448 AATTTCATTTTT
1 AATTTCATTTTT
39460 AA
1 AA
39462 ATTTTAGATA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.00, T:0.62
Consensus pattern (12 bp):
AATTTCATTTTT
Found at i:44122 original size:30 final size:30
Alignment explanation
Indices: 44086--44148 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
44076 TGAGATGGAA
44086 AAAGTGTTCCTGAGATGTTTCTGCTTAGAG
1 AAAGTGTTCCTGAGATGTTTCTGCTTAGAG
44116 AAAGTGTTCCTGAGATGTTTCTGCTTAGAG
1 AAAGTGTTCCTGAGATGTTTCTGCTTAGAG
44146 AAA
1 AAA
44149 ACTATCATTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.27, C:0.13, G:0.25, T:0.35
Consensus pattern (30 bp):
AAAGTGTTCCTGAGATGTTTCTGCTTAGAG
Found at i:50243 original size:227 final size:227
Alignment explanation
Indices: 49835--50281 Score: 772
Period size: 227 Copynumber: 2.0 Consensus size: 227
49825 GTAAATTATC
* * *
49835 TATCCTTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAATATATTTATTATTATCTTTAGT
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
**
49900 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTT
66 TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
*
49965 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAATTG
131 TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
50030 AAACATAAATTACATAACTTTCAAAAAAGTATA
196 AAACATAAATTACATAACTTT-AAAAAAGTATA
*
50063 TATCATTTTTAT-AAAGTGTCCATACTTATTTCACTGTTGAAAACATATTTATTATTATATTTGG
1 TATCATTTTTATAAAAGTGTCCATACTTATTTCACTG-TGAAAACATATTTATTATTATATTTAG
*
50127 TTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATC-AATAAAATT
65 TTAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATT
* *
50191 TTGTGTAAATTAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAATAAATT
130 TTGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATT
50256 GAAACATAAATTACATAACTTTAAAA
195 GAAACATAAATTACATAACTTTAAAA
50282 GCAGTTTTAA
Statistics
Matches: 208, Mismatches: 10, Indels: 4
0.94 0.05 0.02
Matches are distributed among these distances:
226 4 0.02
227 115 0.55
228 89 0.43
ACGTcount: A:0.45, C:0.08, G:0.07, T:0.40
Consensus pattern (227 bp):
TATCATTTTTATAAAAGTGTCCATACTTATTTCACTGTGAAAACATATTTATTATTATATTTAGT
TAATATTGTTAAATTTAAAATCTAAATAATATTTTATAAAATATCAAAACAATCAAATAAAATTT
TGTGTAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATAAAACACTATTAAAAAAATTG
AAACATAAATTACATAACTTTAAAAAAGTATA
Found at i:50370 original size:20 final size:20
Alignment explanation
Indices: 50347--50396 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
50337 CGATATACCA
50347 GGTAAAATTATGATAAAACC
1 GGTAAAATTATGATAAAACC
*
50367 GGTAACAA-AATGATAAAACC
1 GGTAA-AATTATGATAAAACC
50387 GGTAAAATTA
1 GGTAAAATTA
50397 AAAGTGTCGA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 2 0.08
20 22 0.85
21 2 0.08
ACGTcount: A:0.52, C:0.10, G:0.16, T:0.22
Consensus pattern (20 bp):
GGTAAAATTATGATAAAACC
Found at i:52890 original size:33 final size:33
Alignment explanation
Indices: 52848--52913 Score: 96
Period size: 33 Copynumber: 2.0 Consensus size: 33
52838 AAAAATATGG
*
52848 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
***
52881 AGTGGTGAAAGAAGTTTCGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
52914 TATTAAGATG
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.29, C:0.02, G:0.45, T:0.24
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:54748 original size:19 final size:19
Alignment explanation
Indices: 54689--54747 Score: 102
Period size: 19 Copynumber: 3.2 Consensus size: 19
54679 GTCGAGTTAA
*
54689 TTTGTATAAGATTTATAAT
1 TTTGTATACGATTTATAAT
54708 TTTGTATACGATTTATAAT
1 TTTGTATACGATTTATAAT
54727 TTTGTATACGATTTAT-AT
1 TTTGTATACGATTTATAAT
54745 TTT
1 TTT
54748 TTTATGTGAA
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
18 5 0.13
19 34 0.87
ACGTcount: A:0.31, C:0.03, G:0.10, T:0.56
Consensus pattern (19 bp):
TTTGTATACGATTTATAAT
Found at i:55748 original size:394 final size:395
Alignment explanation
Indices: 54829--56229 Score: 2447
Period size: 394 Copynumber: 3.6 Consensus size: 395
54819 TTAAGGGTCA
54829 TGTCGATACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
1 TGTCGA-ACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCA
54894 ATAAAGTGTCGATCCATATA-AAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
65 ATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGT
54958 AATA-GTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAG---AAGTCTAAATA
130 AATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATA
55019 ATGTGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATGAATTAAAAAACAAGGTGC
195 A-GTGTCGACACT-ATATAGTTTGTGTCGATATTTTTTCCCAGAATGAATT-AAAAACAAGGTGC
55084 ACCCAT-AAGTGGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
257 ACCCATAAAGT-GTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTA
55148 TAATGTAATATGTAA-TTTTTCAATCTAACCGGTACAATTATACCGGTTTTTATGAGAGAATAAG
321 TAATGTAATATGTAATTTTTTCAATCTAACCGGTACAATTATACCGG-TTTTATGAGAGAATAAG
55212 TCTAAATAATG
385 TCTAAATAATG
55223 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCCATC
1 TGTCGA-ACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTG-CATC
55288 AATAAAGTGTCGATCC--ATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
64 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
55351 TAATATGTAA-TTTTTAATCTAACCGGTACAATTATACCGG-TTTATGAGAGAATAAGTCTAAAT
129 TAATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAAT
55414 AA-TGTCGACACTAATATAGTTTGTGTCGATATTTTTTCCCAGAATG-ATTAAAAACAAGGTGCA
194 AAGTGTCGACACT-ATATAGTTTGTGTCGATATTTTTTCCCAGAATGAATTAAAAACAAGGTGCA
55477 CCCATAAAGTGTCGATCCATATAT-AAAAAGTGTCGATCCCAAAATCATCGAACCC-AAAGTATA
258 CCCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATA
55540 ATGTAATATGTAATTTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
323 ATGTAATATGTAATTTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
55605 AAATAATG
388 AAATAATG
55613 TGTCG-ACTAATATAG-TTGTGTCGATATTTTTTTTCCAGAATGAA-TTTTACAAGGTGCATCAA
1 TGTCGAACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCAA
55675 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
66 TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
*
55740 ATATGTAATTTTTCAATCT-ACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAA
131 ATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAA
55804 TGTGTCGACACTATATAGTTTGTGTCGATATTTTTTTCCCAGAATGAATT-AAAACAAGGTGCAC
196 -GTGTCGACACTATATAGTTTGTGTCGATA-TTTTTTCCCAGAATGAATTAAAAACAAGGTGCAC
55868 CCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCC-AAATCATCGAACCCAAAAGTATAA
259 CCATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAA
55932 TGTAATATGTAATTTTTT-AATCTAAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
324 TGTAATATGTAATTTTTTCAATCT-AACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT
55996 AAATAATG
388 AAATAATG
*
56004 TGTCGACACTAATATAGTTTGTGTCGATATTTTTTTTTCCAGAATGAATTTTTACAAGGTGAATC
1 TGTCGA-ACTAATATAGTTTGTGTCGATA-TTTTTTTTCCAGAATGAATTTTTACAAGGTGCATC
56069 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
64 AATAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
*
56134 TAATATGTAATTTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATATGTCTAAA
129 TAATATGTAA-TTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCT-AA
56199 ATAATGTGTCGACACTATAT--TTTGTG-CGATA
192 ATAA-GTGTCGACACTATATAGTTTGTGTCGATA
56230 CTAATTTAAA
Statistics
Matches: 975, Mismatches: 5, Indels: 52
0.94 0.00 0.05
Matches are distributed among these distances:
385 20 0.02
386 12 0.01
387 105 0.11
388 44 0.05
389 18 0.02
390 135 0.14
391 161 0.17
392 33 0.03
393 30 0.03
394 192 0.20
395 42 0.04
396 107 0.11
397 16 0.02
398 38 0.04
399 22 0.02
ACGTcount: A:0.37, C:0.15, G:0.15, T:0.33
Consensus pattern (395 bp):
TGTCGAACTAATATAGTTTGTGTCGATATTTTTTTTCCAGAATGAATTTTTACAAGGTGCATCAA
TAAAGTGTCGATCCATATATAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATGTA
ATATGTAATTTTTTAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAATAA
GTGTCGACACTATATAGTTTGTGTCGATATTTTTTCCCAGAATGAATTAAAAACAAGGTGCACCC
ATAAAGTGTCGATCCATATATAAAAAAGTGTCGATCCCAAAATCATCGAACCCAAAAGTATAATG
TAATATGTAATTTTTTCAATCTAACCGGTACAATTATACCGGTTTTATGAGAGAATAAGTCTAAA
TAATG
Found at i:57699 original size:3 final size:3
Alignment explanation
Indices: 57691--57732 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
57681 GACGATGTGA
* *
57691 GAT GAT GAT GAT GAT GAT GAC GAT GAT GAT GAA GAT GAT GAT
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT GAT
57733 CCAAACAAGT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.36, C:0.02, G:0.33, T:0.29
Consensus pattern (3 bp):
GAT
Found at i:59376 original size:180 final size:180
Alignment explanation
Indices: 59059--59445 Score: 681
Period size: 180 Copynumber: 2.1 Consensus size: 180
59049 ACTTTCACAT
**
59059 ATTATAATAAAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
59124 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATTGGAAGAAAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATTGGAAGAAAAA
*
59189 TGTGTCGAT-CGATTTAAAAAGTGTCGACATTTTACACATCGGAACCCATA
131 TGTGTCGATACAATTT-AAAAGTGTCGACATTTTACACATCGGAACCCATA
59239 ATTATAATGTAATAGATAATTTTGTAATAT-ACCGGTATAAATATACCGGTCTTATGCGCGAAT-
1 ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
59302 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATTGGAAGAAA
66 GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCC--ATTGGAAGAAA
59367 AATGTGTCGATACAATTTAAAAGTGTCGACATTTTACACATCGGAACCCATA
129 AATGTGTCGATACAATTTAAAAGTGTCGACATTTTACACATCGGAACCCATA
*
59419 ATTATAATGTAATAGATACTTTATGTA
1 ATTATAATGTAATAGATAATTT-TGTA
59446 TATTGGTAAG
Statistics
Matches: 199, Mismatches: 4, Indels: 7
0.95 0.02 0.03
Matches are distributed among these distances:
178 52 0.26
179 33 0.17
180 105 0.53
181 9 0.05
ACGTcount: A:0.35, C:0.15, G:0.16, T:0.35
Consensus pattern (180 bp):
ATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTCTTATGCGCGAATA
GGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATTGGAAGAAAAA
TGTGTCGATACAATTTAAAAGTGTCGACATTTTACACATCGGAACCCATA
Found at i:59506 original size:94 final size:88
Alignment explanation
Indices: 59342--59535 Score: 300
Period size: 94 Copynumber: 2.1 Consensus size: 88
59332 ATTGTGTCGG
59342 TACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACAATTTAAAAGTGTCGACATTTTACACA
1 TACTTTATGT--ATATTGGAAGAAAAATGTGTCGATACAATTTAAAAGTGTCGACATTTTACACA
59407 TCGGAACCCATAATTATAATGTAATAGA
64 TCGGAACCCAT-A-T-TAATGTAATAGA
59435 TACTTTATGTATATTGGTAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACAC
1 TACTTTATGTATATTGG-AAGAAAAATGTGTCGATACAATTT--AAAAGTGTCGACATTTTACAC
59500 ATCGGAACCCATATTAATGTAATAGA
63 ATCGGAACCCATATTAATGTAATAGA
*
59526 TAATTT-TGTA
1 TACTTTATGTA
59536 ATATAACCGG
Statistics
Matches: 97, Mismatches: 1, Indels: 9
0.91 0.01 0.08
Matches are distributed among these distances:
90 4 0.04
91 24 0.25
92 25 0.26
93 11 0.11
94 33 0.34
ACGTcount: A:0.39, C:0.12, G:0.15, T:0.34
Consensus pattern (88 bp):
TACTTTATGTATATTGGAAGAAAAATGTGTCGATACAATTTAAAAGTGTCGACATTTTACACATC
GGAACCCATATTAATGTAATAGA
Found at i:59649 original size:273 final size:272
Alignment explanation
Indices: 59164--59719 Score: 978
Period size: 273 Copynumber: 2.0 Consensus size: 272
59154 ATTGTGTCGG
* *
59164 TACTTTATGTCCATTGGAAGAAAAATGTGTCGATCGATTTAAAAAGTGTCGACATTTTACACATC
1 TACTTTATGTACATTGGAAGAAAAATGTGTCGATCAATTTAAAAAGTGTCGACATTTTACACATC
59229 GGAACCCATAATTATAATGTAATAGATAATTTTGTAATATACCGGTATAAATATACCGGTCTTAT
66 GGAACCCATAATTATAATGTAATAGATAATTTTGTAATATACCGGTATAAATATACCGGTCTTAT
*
59294 GCGCGAATGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATT
131 GCGCGAATGGTATACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATT
59359 GGAAGAAAAATGTGTCGATACAATTT-AAAAGTGTCGACATTTTACACATCGGAACCCATAATTA
196 GGAAGAAAAATGTGTCGATACAATTTAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTA
59423 TAATGTAATAGA
261 TAATGTAATAGA
*
59435 TACTTTATGTATATTGGTAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACAC
1 TACTTTATGTACATTGG-AAGAAAAATGTGTCGAT-CAATTT-AAAAAGTGTCGACATTTTACAC
59500 ATCGGAACCCAT-A-T-TAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGTC
63 ATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATAT-ACCGGTATAAATATACCGGTC
59562 TTATGCGCGAATAGGTATACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCC
127 TTATGCGCGAAT-GGTATACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCC
59627 ATATTGGAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACACATCGGAACCCA
191 ATATTGGAAGAAAAATGTGTCGATACAATTT-AAAAAGTGTCGACATTTTACACATCGGAACCCA
59692 TAATTATAATGTAATAGA
255 TAATTATAATGTAATAGA
*
59710 TAATTT-TGTA
1 TACTTTATGTA
59720 ATATAACCGG
Statistics
Matches: 273, Mismatches: 5, Indels: 11
0.94 0.02 0.04
Matches are distributed among these distances:
271 41 0.15
272 51 0.19
273 88 0.32
274 38 0.14
275 55 0.20
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (272 bp):
TACTTTATGTACATTGGAAGAAAAATGTGTCGATCAATTTAAAAAGTGTCGACATTTTACACATC
GGAACCCATAATTATAATGTAATAGATAATTTTGTAATATACCGGTATAAATATACCGGTCTTAT
GCGCGAATGGTATACAACCTATATCGACACTTTTTAATATTGTGTCGGTACTTTATGTCCATATT
GGAAGAAAAATGTGTCGATACAATTTAAAAAGTGTCGACATTTTACACATCGGAACCCATAATTA
TAATGTAATAGA
Found at i:59797 original size:182 final size:183
Alignment explanation
Indices: 59435--59994 Score: 1026
Period size: 182 Copynumber: 3.1 Consensus size: 183
59425 ATGTAATAGA
59435 TACTTTATGT--ATATTGGTAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTAC
1 TACTTTATGTCCATATTGG-AAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTAC
59498 ACATCGGAACCCAT-A-T-TAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGG
65 ACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGG
*
59560 TCTTATGCGCGAATAGGTATACAACCTATATCGACACTTTTTAATATTGTGTCGG
130 T-TTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGG
59615 TACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACA
1 TACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACA
59680 CATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGT
66 CATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGT
59745 TTATGCGC-AATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGG
131 TTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGG
59797 TACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACA
1 TACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACA
59862 CATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACC-GTATAAATATACCGGT
66 CATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGG-
*
59926 TTTATGAGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGG
130 TTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGG
59980 TACTTTATGTCCATA
1 TACTTTATGTCCATA
59995 CCATTTAAAA
Statistics
Matches: 371, Mismatches: 2, Indels: 11
0.97 0.01 0.03
Matches are distributed among these distances:
180 10 0.03
181 74 0.20
182 172 0.46
183 68 0.18
184 47 0.13
ACGTcount: A:0.36, C:0.14, G:0.15, T:0.35
Consensus pattern (183 bp):
TACTTTATGTCCATATTGGAAGAAAAATGTGTCGATACAATTTAAAAAAGTGTCGACATTTTACA
CATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAACCGGTATAAATATACCGGT
TTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATTGTGTCGG
Found at i:62571 original size:23 final size:23
Alignment explanation
Indices: 62540--62602 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
62530 ATAGGTAAAC
*
62540 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
62563 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
62586 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
62603 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:62610 original size:23 final size:23
Alignment explanation
Indices: 62540--62612 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
62530 ATAGGTAAAC
* * **
62540 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
62563 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
62586 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
62609 ATAT
1 ATAT
62613 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:62640 original size:20 final size:20
Alignment explanation
Indices: 62615--62653 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
62605 GGTTATATTG
* *
62615 TAAAGTGTCTATCCTTTTTA
1 TAAAGTGTCCATACTTTTTA
62635 TAAAGTGTCCATACTTTTT
1 TAAAGTGTCCATACTTTTT
62654 TCACTGTGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.15, G:0.10, T:0.49
Consensus pattern (20 bp):
TAAAGTGTCCATACTTTTTA
Found at i:62995 original size:23 final size:23
Alignment explanation
Indices: 62964--63026 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
62954 ATAGGTAAAC
*
62964 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTAGCCCTT
* **
62987 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCCCTT
63010 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
63027 ATGGTTATAT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCCCTT
Found at i:63034 original size:23 final size:23
Alignment explanation
Indices: 62964--63036 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
62954 ATAGGTAAAC
* * **
62964 ATATGATGTAATAGGTAGCCCTT
1 ATATAATGTAATAGGTATCGGTT
*
62987 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGGTT
63010 ATATAATGTAATAGGTAAT-GGTT
1 ATATAATGTAATAGGT-ATCGGTT
63033 ATAT
1 ATAT
63037 TGTAAAGTGT
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
23 42 0.95
24 2 0.05
ACGTcount: A:0.36, C:0.05, G:0.19, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGGTT
Found at i:63424 original size:23 final size:23
Alignment explanation
Indices: 63398--63448 Score: 75
Period size: 23 Copynumber: 2.2 Consensus size: 23
63388 ATATGATTAA
63398 AGGTAGCCCTTATATAATGTAAT
1 AGGTAGCCCTTATATAATGTAAT
* **
63421 AGGTATCGTTTATATAATGTAAT
1 AGGTAGCCCTTATATAATGTAAT
63444 AGGTA
1 AGGTA
63449 ATGGTTATAT
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (23 bp):
AGGTAGCCCTTATATAATGTAAT
Found at i:63456 original size:23 final size:23
Alignment explanation
Indices: 63407--63458 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
63397 AAGGTAGCCC
*
63407 TTATATAATGTAATAGGTATCGT
1 TTATATAATGTAATAGGTATCGG
63430 TTATATAATGTAATAGGTAAT-GG
1 TTATATAATGTAATAGGT-ATCGG
63453 TTATAT
1 TTATAT
63459 TGTAAAGTGT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
23 25 0.93
24 2 0.07
ACGTcount: A:0.37, C:0.02, G:0.17, T:0.44
Consensus pattern (23 bp):
TTATATAATGTAATAGGTATCGG
Found at i:63845 original size:21 final size:23
Alignment explanation
Indices: 63814--63874 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 23
63804 ATAGGTAAAC
*
63814 ATATGATGTAATAGGTAGC-CCT
1 ATATAATGTAATAGGTAGCGCCT
* **
63836 -TATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCCT
63858 ATATAATGTAATAGGTA
1 ATATAATGTAATAGGTA
63875 ATGGTTATAT
Statistics
Matches: 33, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
21 16 0.48
22 1 0.03
23 16 0.48
ACGTcount: A:0.36, C:0.07, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCCT
Found at i:63882 original size:23 final size:23
Alignment explanation
Indices: 63836--63884 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
63826 AGGTAGCCCT
*
63836 TATAATGTAATAGGTATCGTTTA
1 TATAATGTAATAGGTATCGGTTA
63859 TATAATGTAATAGGTAAT-GGTTA
1 TATAATGTAATAGGT-ATCGGTTA
63882 TAT
1 TAT
63885 TGTAAGTGTC
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 22 0.92
24 2 0.08
ACGTcount: A:0.37, C:0.02, G:0.18, T:0.43
Consensus pattern (23 bp):
TATAATGTAATAGGTATCGGTTA
Found at i:63888 original size:21 final size:21
Alignment explanation
Indices: 63820--63889 Score: 61
Period size: 21 Copynumber: 3.2 Consensus size: 21
63810 AAACATATGA
* ** *
63820 TGTAATAGGTAGCCCTTATAA
1 TGTAATAGGTATCGGTTATAT
*
63841 TGTAATAGGTATCGTTTATAT
1 TGTAATAGGTATCGGTTATAT
63862 AATGTAATAGGTAAT-GGTTATAT
1 --TGTAATAGGT-ATCGGTTATAT
63885 TGTAA
1 TGTAA
63890 GTGTCTATCC
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
21 22 0.54
23 17 0.41
24 2 0.05
ACGTcount: A:0.34, C:0.06, G:0.20, T:0.40
Consensus pattern (21 bp):
TGTAATAGGTATCGGTTATAT
Found at i:63951 original size:425 final size:430
Alignment explanation
Indices: 62442--64152 Score: 3250
Period size: 424 Copynumber: 4.0 Consensus size: 430
62432 AATTCGCAGT
62442 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
62507 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
66 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
62572 AATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT-
131 AATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATA
62636 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
196 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
62701 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
261 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
62766 TTAAATT-AAAATTCT-AATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
326 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
62829 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
391 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
62869 ACAC--TTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
62932 AAAGTATGGACAC-TTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
66 AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
62996 AATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATA
131 AATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATA
63061 AAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
196 AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
63125 AGATATTAATTTAGTAATTATAGGCGTCTAATGA-TTA-TTTTTACGTTACGGTATATATTATTA
261 AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
63188 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
326 TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
63253 ATGAAATTATT-AATCAATATTGTAGGTGGAAAACATGAA
391 ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
63292 ACAC--TT-AAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTAT-
63354 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGAT-TAA-AGGTAGCCCTTATATAATG
65 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
63417 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
130 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
63482 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
195 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
63547 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
260 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
63612 ATTAAATT-AAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGC-
325 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
63675 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
390 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
63716 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
1 ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTAT-
63781 AAAAGTATGGACACTTTCAATAT-ATAGGTAAACATATGATGTAATAGGTAGCCC-T-TATAATG
65 AAAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATG
63843 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGT-AAGTGTCTATCCTTTTTAT
130 TAATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTAT
63907 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAG-TTT
195 AAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTT
63971 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
260 AAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATT
64036 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
325 ATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCA
64101 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
390 AATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
64142 ACACTGTTAAA
1 ACACTGTTAAA
64153 GTATCGATCC
Statistics
Matches: 1268, Mismatches: 0, Indels: 33
0.97 0.00 0.03
Matches are distributed among these distances:
422 186 0.15
423 159 0.13
424 451 0.36
425 253 0.20
426 123 0.10
427 87 0.07
428 9 0.01
ACGTcount: A:0.40, C:0.09, G:0.13, T:0.39
Consensus pattern (430 bp):
ACACTGTTAAAAAAATTGAAACATAAATTACATAAGTTTTAAAAAAAGTATCGATCCTTTTTATA
AAAGTATGGACACTTTCAATATAATAGGTAAACATATGATGTAATAGGTAGCCCTTATATAATGT
AATAGGTATCGTTTATATAATGTAATAGGTAATGGTTATATTGTAAAGTGTCTATCCTTTTTATA
AAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTA
AGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGGTATATATTATTA
TTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAA
ATGAAATTATTAAATCAATATTGTAGGTGGAAAACATGAA
Found at i:64638 original size:32 final size:32
Alignment explanation
Indices: 64602--64662 Score: 79
Period size: 32 Copynumber: 1.9 Consensus size: 32
64592 GCTTCAATCA
* *
64602 AAAATATTAAATA-ATTATTATTTTAGGTTTTG
1 AAAATATTAAA-AGATCAATATTTTAGGTTTTG
*
64634 AAAATGTTAAAAGATCAATATTTTAGGTT
1 AAAATATTAAAAGATCAATATTTTAGGTT
64663 AGGTTCAACC
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 1 0.04
32 24 0.96
ACGTcount: A:0.43, C:0.02, G:0.11, T:0.44
Consensus pattern (32 bp):
AAAATATTAAAAGATCAATATTTTAGGTTTTG
Found at i:65337 original size:58 final size:59
Alignment explanation
Indices: 65266--65385 Score: 145
Period size: 58 Copynumber: 2.1 Consensus size: 59
65256 TACATTGGGT
* * * ** *
65266 AAATTATACAAATGGTCC-TCAACTATAGGATATTGTTTTGTTGAGTTTTTCGACTATTA
1 AAATTATACAAATGATCCTTCAA-TATAGGACATTGCTTTGTTGAGTTTCACAACTATTA
* *
65325 AAATTATA-AAATGATCCTTTAATATAGGACGTTGCTTTGTTGAGTTTCACAACTATTA
1 AAATTATACAAATGATCCTTCAATATAGGACATTGCTTTGTTGAGTTTCACAACTATTA
65383 AAA
1 AAA
65386 AAATTAGAAA
Statistics
Matches: 52, Mismatches: 8, Indels: 3
0.83 0.13 0.05
Matches are distributed among these distances:
58 41 0.79
59 11 0.21
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (59 bp):
AAATTATACAAATGATCCTTCAATATAGGACATTGCTTTGTTGAGTTTCACAACTATTA
Found at i:68534 original size:19 final size:20
Alignment explanation
Indices: 68502--68539 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
68492 GATGTAAAAA
68502 AAATAAATACAAAA-AATTG
1 AAATAAATACAAAATAATTG
68521 AAATAAAGTA-AAAATAATT
1 AAATAAA-TACAAAATAATT
68540 AACAAAAACT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.24
Consensus pattern (20 bp):
AAATAAATACAAAATAATTG
Found at i:73427 original size:60 final size:60
Alignment explanation
Indices: 73334--73451 Score: 175
Period size: 60 Copynumber: 2.0 Consensus size: 60
73324 ACCAGTTTAA
* * *
73334 ATCAATAACAACTTTAATTTAGTAGCACAAGATCACAAGGA-TGACCAAAAGAAAAGCTCC
1 ATCAATAACAACTTTAATCTACTAGCACAAGATCACAA-AATTGACCAAAAGAAAAGCTCC
* *
73394 ATCAATAACAACTTTAGTCTACTAGCACAAGATCACAAAATTGATCAAAAGAAAAGCT
1 ATCAATAACAACTTTAATCTACTAGCACAAGATCACAAAATTGACCAAAAGAAAAGCT
73452 TAAAACAGAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
59 1 0.02
60 51 0.98
ACGTcount: A:0.47, C:0.19, G:0.12, T:0.21
Consensus pattern (60 bp):
ATCAATAACAACTTTAATCTACTAGCACAAGATCACAAAATTGACCAAAAGAAAAGCTCC
Found at i:75830 original size:18 final size:18
Alignment explanation
Indices: 75791--75826 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
75781 TTAAAAAGAA
*
75791 TAATAGTTTATTGAAAAT
1 TAATAATTTATTGAAAAT
75809 TAATAATTTATT-AAAAT
1 TAATAATTTATTGAAAAT
75826 T
1 T
75827 TAATTTTAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (18 bp):
TAATAATTTATTGAAAAT
Found at i:77556 original size:2 final size:2
Alignment explanation
Indices: 77549--77600 Score: 104
Period size: 2 Copynumber: 26.0 Consensus size: 2
77539 AAGCTCAACC
77549 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
77591 TA TA TA TA TA
1 TA TA TA TA TA
77601 CCGAAGCCAT
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 50 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Done.