Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001874.1 Hibiscus syriacus cultivar Beakdansim tig00003801_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: 81479
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.34
Found at i:1002 original size:9 final size:9
Alignment explanation
Indices: 984--1018 Score: 54
Period size: 9 Copynumber: 4.0 Consensus size: 9
974 GAGCGAGGTC
984 AGAT-GAAG
1 AGATGGAAG
992 AGATGGAAG
1 AGATGGAAG
1001 AGATGGAAG
1 AGATGGAAG
*
1010 AGAGGGAAG
1 AGATGGAAG
1019 TATAGCCAGA
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
8 4 0.16
9 21 0.84
ACGTcount: A:0.46, C:0.00, G:0.46, T:0.09
Consensus pattern (9 bp):
AGATGGAAG
Found at i:8276 original size:27 final size:28
Alignment explanation
Indices: 8235--8291 Score: 98
Period size: 27 Copynumber: 2.1 Consensus size: 28
8225 ATTGCTCAGT
*
8235 CCCTCAATTTTTATATTTATAATTAAGG
1 CCCTCAATTTATATATTTATAATTAAGG
8263 CCCT-AATTTATATATTTATAATTAAGG
1 CCCTCAATTTATATATTTATAATTAAGG
8290 CC
1 CC
8292 TTATTTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
27 24 0.86
28 4 0.14
ACGTcount: A:0.33, C:0.16, G:0.07, T:0.44
Consensus pattern (28 bp):
CCCTCAATTTATATATTTATAATTAAGG
Found at i:12683 original size:28 final size:28
Alignment explanation
Indices: 12626--12702 Score: 81
Period size: 26 Copynumber: 2.8 Consensus size: 28
12616 TGCTGTGAAT
*
12626 TAATAACGGATTA-AAAATTTTATATTAA
1 TAATAAC-GATTATAAAATTTTATATAAA
12654 TAATAACGAATTTATAAAATTTTA-A-AAA
1 TAATAACG-A-TTATAAAATTTTATATAAA
12682 TAAATAA-GATTATAAAATTTT
1 T-AATAACGATTATAAAATTTT
12703 TTAAAAAAGA
Statistics
Matches: 44, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
26 12 0.27
27 2 0.05
28 12 0.27
29 9 0.20
30 9 0.20
ACGTcount: A:0.53, C:0.03, G:0.05, T:0.39
Consensus pattern (28 bp):
TAATAACGATTATAAAATTTTATATAAA
Found at i:18152 original size:5 final size:5
Alignment explanation
Indices: 18142--18170 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
18132 CTTTTTAAAA
18142 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
1 TTTAT TTTAT TTTAT TTTAT TTTAT TTTA
18171 CTAAAATACA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTAT
Found at i:18383 original size:24 final size:24
Alignment explanation
Indices: 18356--18403 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
18346 TGTACTTTAA
18356 CCTCTTTTATATATTTTTCTATTT
1 CCTCTTTTATATATTTTTCTATTT
18380 CCTCTTTTATATATTTTTCTATTT
1 CCTCTTTTATATATTTTTCTATTT
18404 TGTATTCGAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.67
Consensus pattern (24 bp):
CCTCTTTTATATATTTTTCTATTT
Found at i:19301 original size:33 final size:33
Alignment explanation
Indices: 19252--19314 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
19242 GCATGCAAAA
*
19252 AAAAAAAAGTGTTGATGATGATACATTAAATAC
1 AAAAAAAAGTGCTGATGATGATACATTAAATAC
*
19285 AAAAAAATGTGCTGATGATGATACATTAAA
1 AAAAAAAAGTGCTGATGATGATACATTAAA
19315 GCATCCAAGG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.51, C:0.06, G:0.16, T:0.27
Consensus pattern (33 bp):
AAAAAAAAGTGCTGATGATGATACATTAAATAC
Found at i:25556 original size:76 final size:76
Alignment explanation
Indices: 25470--25676 Score: 267
Period size: 76 Copynumber: 2.7 Consensus size: 76
25460 CCGTTGAACA
* * *
25470 GGGGGAATCGGTACCCCCT-TGGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACA
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAAC-
** *
25534 AAAACTGTTTAG
65 AAAACCATTCAG
* * * *
25546 GGGGGAATCGGTTCCTCCTAT-GGGGGAATCGGTTCCCTCCGAGCATTCTGGAAATCTCGGAGCC
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACA
25610 AAACCATTCAG
66 AAACCATTCAG
* *
25621 GGGGGAAACGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA-ATCTGGAATT
1 GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATA-CTGGAATT
25677 TTTGGCTTTA
Statistics
Matches: 114, Mismatches: 14, Indels: 6
0.85 0.10 0.04
Matches are distributed among these distances:
75 28 0.25
76 85 0.75
77 1 0.01
ACGTcount: A:0.21, C:0.24, G:0.31, T:0.23
Consensus pattern (76 bp):
GGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAACA
AAACCATTCAG
Found at i:26278 original size:8 final size:8
Alignment explanation
Indices: 26258--26296 Score: 53
Period size: 8 Copynumber: 4.9 Consensus size: 8
26248 ACTATTCATA
26258 AATCCAA-
1 AATCCAAC
26265 AATCCAAC
1 AATCCAAC
*
26273 AATCCATAA
1 AATCCA-AC
26282 AATCCAAC
1 AATCCAAC
26290 AATCCAA
1 AATCCAA
26297 AATGTTGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
7 7 0.25
8 14 0.50
9 7 0.25
ACGTcount: A:0.54, C:0.31, G:0.00, T:0.15
Consensus pattern (8 bp):
AATCCAAC
Found at i:26285 original size:17 final size:17
Alignment explanation
Indices: 26263--26295 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
26253 TCATAAATCC
26263 AAAATCCAACAATCCAT
1 AAAATCCAACAATCCAT
26280 AAAATCCAACAATCCA
1 AAAATCCAACAATCCA
26296 AAATGTTGAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.55, C:0.30, G:0.00, T:0.15
Consensus pattern (17 bp):
AAAATCCAACAATCCAT
Found at i:28273 original size:24 final size:22
Alignment explanation
Indices: 28220--28302 Score: 82
Period size: 21 Copynumber: 3.8 Consensus size: 22
28210 ACAGAACCCC
* * *
28220 AGGGGGGTATCGATTCCCCT-G
1 AGGGGGGAATCGGTTCCCCTCA
*
28241 TGGGGGGAATCGGTTCCCCTTCAA
1 AGGGGGGAATCGGTTCCCC-TC-A
28265 AGGGGGGAATCGGTT-CCCTCA
1 AGGGGGGAATCGGTTCCCCTCA
*
28286 AGGGGGG-ATCGATTCCC
1 AGGGGGGAATCGGTTCCC
28303 TCTGTACCAA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
20 6 0.12
21 26 0.50
22 3 0.06
23 3 0.06
24 14 0.27
ACGTcount: A:0.17, C:0.24, G:0.37, T:0.22
Consensus pattern (22 bp):
AGGGGGGAATCGGTTCCCCTCA
Found at i:28296 original size:20 final size:22
Alignment explanation
Indices: 28242--28304 Score: 85
Period size: 24 Copynumber: 2.9 Consensus size: 22
28232 ATTCCCCTGT
28242 GGGGGGAATCGGTTCCCCTTCAAA
1 GGGGGGAATCGGTT-CCC-TCAAA
28266 GGGGGGAATCGGTTCCCTC-AA
1 GGGGGGAATCGGTTCCCTCAAA
*
28287 GGGGGG-ATCGATTCCCTC
1 GGGGGGAATCGGTTCCCTC
28305 TGTACCAAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 4
0.88 0.02 0.09
Matches are distributed among these distances:
20 11 0.29
21 8 0.21
22 2 0.05
23 3 0.08
24 14 0.37
ACGTcount: A:0.17, C:0.25, G:0.37, T:0.21
Consensus pattern (22 bp):
GGGGGGAATCGGTTCCCTCAAA
Found at i:34159 original size:76 final size:75
Alignment explanation
Indices: 34072--34281 Score: 253
Period size: 76 Copynumber: 2.8 Consensus size: 75
34062 GACCGTTGAA
* *
34072 CAGGGGGGAATCGGTACCCCCT-TGGGTGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
1 CAGGGGGGAATCGGTTCCTCCTATGGG-GGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGA
**
34136 ACAAAAACTGTT
65 AC-AAAACCATT
* * * * * * *
34148 TAGGGGGGAATCAGTTCCTCCTATGGGGGAATCAGTTCCCTCCGAGCATTCTGGAAATCTCGGAG
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
*
34213 CCAAACCATT
66 CAAAACCATT
*
34223 CAGGGGGGAATCGGTTCCTCCTATGGGGGGAATCGGTTCCCTCTGAGCA-ATCTGGAATT
1 CAGGGGGGAATCGGTTCCTCCTATGGGGGG-ATCGGTTCCCTCCGAGCATA-CTGGAATT
34282 TTTGGCTTTA
Statistics
Matches: 112, Mismatches: 19, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
75 33 0.29
76 75 0.67
77 4 0.04
ACGTcount: A:0.22, C:0.24, G:0.30, T:0.24
Consensus pattern (75 bp):
CAGGGGGGAATCGGTTCCTCCTATGGGGGGATCGGTTCCCTCCGAGCATACTGGAATTCTCGGAA
CAAAACCATT
Found at i:38908 original size:21 final size:21
Alignment explanation
Indices: 38878--38924 Score: 87
Period size: 21 Copynumber: 2.3 Consensus size: 21
38868 CTAGCGACTT
38878 TATT-AAAAAAATATTCCAAC
1 TATTAAAAAAAATATTCCAAC
38898 TATTAAAAAAAATATTCCAAC
1 TATTAAAAAAAATATTCCAAC
38919 TATTAA
1 TATTAA
38925 TGTGAATGCT
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (21 bp):
TATTAAAAAAAATATTCCAAC
Found at i:45036 original size:60 final size:59
Alignment explanation
Indices: 44959--45126 Score: 178
Period size: 60 Copynumber: 2.8 Consensus size: 59
44949 ATTCTTATTT
* * * *
44959 TAAAGTAGTCTCTAAACTTTTTAACATTTTAATTTCATCTTTAAACTATGAC-TATCATTC
1 TAAATTAGTCTC-AAACTTTTAAACATTTCAATTTCATCTTCAAACTATGACAT-TCATTC
* * * *
45019 TAAATTAGTCTTCAAACTTTTGAATATTTCATTTTCATCTTCAAACTATGACATTTATTC
1 TAAATTAGTC-TCAAACTTTTAAACATTTCAATTTCATCTTCAAACTATGACATTCATTC
* * * *
45079 TAAATTGGTCCCCAAAATTTTAAACATTTCAATTTCATC-CCAAACTAT
1 TAAATTAGT-CTCAAACTTTTAAACATTTCAATTTCATCTTCAAACTAT
45127 ACGTATATAC
Statistics
Matches: 91, Mismatches: 14, Indels: 7
0.81 0.12 0.06
Matches are distributed among these distances:
59 8 0.09
60 79 0.87
61 4 0.04
ACGTcount: A:0.34, C:0.18, G:0.05, T:0.43
Consensus pattern (59 bp):
TAAATTAGTCTCAAACTTTTAAACATTTCAATTTCATCTTCAAACTATGACATTCATTC
Found at i:48953 original size:29 final size:29
Alignment explanation
Indices: 48874--48956 Score: 85
Period size: 29 Copynumber: 2.8 Consensus size: 29
48864 GTTTGAAGAT
* *
48874 TATATAAATATTTTACAATTTAAAAATTGA
1 TATA-AAATATTTTAAAATTTAAAAAGTGA
* * ** * *
48904 TTTAAAACATACTATATTTTAAAAAGTGA
1 TATAAAATATTTTAAAATTTAAAAAGTGA
48933 TATAAAATATTTTAAAATTTAAAA
1 TATAAAATATTTTAAAATTTAAAA
48957 TTATTTAAAA
Statistics
Matches: 40, Mismatches: 13, Indels: 1
0.74 0.24 0.02
Matches are distributed among these distances:
29 37 0.93
30 3 0.08
ACGTcount: A:0.52, C:0.04, G:0.04, T:0.41
Consensus pattern (29 bp):
TATAAAATATTTTAAAATTTAAAAAGTGA
Found at i:48955 original size:17 final size:17
Alignment explanation
Indices: 48932--48976 Score: 58
Period size: 17 Copynumber: 2.7 Consensus size: 17
48922 TTAAAAAGTG
48932 ATATAAAATATTTTAAA
1 ATATAAAATATTTTAAA
*
48949 ATTTAAAAT-TATTTAAA
1 ATATAAAATAT-TTTAAA
48966 ATAT-AAATATT
1 ATATAAAATATT
48977 GATTTAAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 5
0.77 0.06 0.16
Matches are distributed among these distances:
16 6 0.25
17 18 0.75
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
ATATAAAATATTTTAAA
Found at i:49451 original size:18 final size:19
Alignment explanation
Indices: 49428--49467 Score: 73
Period size: 18 Copynumber: 2.2 Consensus size: 19
49418 TTCTTAAAAA
49428 TTTAAAATTATA-ATATAT
1 TTTAAAATTATATATATAT
49446 TTTAAAATTATATATATAT
1 TTTAAAATTATATATATAT
49465 TTT
1 TTT
49468 TTATTAAAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 12 0.57
19 9 0.43
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (19 bp):
TTTAAAATTATATATATAT
Found at i:49497 original size:34 final size:33
Alignment explanation
Indices: 49446--49525 Score: 92
Period size: 34 Copynumber: 2.4 Consensus size: 33
49436 TATAATATAT
* *
49446 TTTAAAA-TTATATATATATTTT-TTATTAAAAA
1 TTTAAAATTTATAAATATATTTTATT-CTAAAAA
*
49478 TTTAAAATTTTATAAATATATTTTATTCTAAAAT
1 TTTAAAA-TTTATAAATATATTTTATTCTAAAAA
49512 TTTAAAAGTTTATA
1 TTTAAAA-TTTATA
49526 TTCTAATATA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
32 7 0.17
34 32 0.78
35 2 0.05
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (33 bp):
TTTAAAATTTATAAATATATTTTATTCTAAAAA
Found at i:49502 original size:32 final size:34
Alignment explanation
Indices: 49446--49525 Score: 101
Period size: 32 Copynumber: 2.4 Consensus size: 34
49436 TATAATATAT
* * *
49446 TTTAAAATTATATATATATTTTTTA-T-TAAAAA
1 TTTAAAATTTTATAAATATATTTTATTCTAAAAA
*
49478 TTTAAAATTTTATAAATATATTTTATTCTAAAAT
1 TTTAAAATTTTATAAATATATTTTATTCTAAAAA
*
49512 TTTAAAAGTTTATA
1 TTTAAAATTTTATA
49526 TTCTAATATA
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
32 22 0.54
33 1 0.02
34 18 0.44
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (34 bp):
TTTAAAATTTTATAAATATATTTTATTCTAAAAA
Found at i:51514 original size:16 final size:16
Alignment explanation
Indices: 51493--51525 Score: 66
Period size: 16 Copynumber: 2.1 Consensus size: 16
51483 TAAAAAATAA
51493 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
51509 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
51525 A
1 A
51526 AATTTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.58, C:0.24, G:0.12, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:51606 original size:10 final size:10
Alignment explanation
Indices: 51591--51675 Score: 81
Period size: 10 Copynumber: 8.7 Consensus size: 10
51581 CATTTAATAA
51591 ATAAACGAAC
1 ATAAACGAAC
51601 ATAAACGAAC
1 ATAAACGAAC
51611 ----ACGAAC
1 ATAAACGAAC
51617 ATAAACGAAC
1 ATAAACGAAC
** *
51627 ACGAAC-ATAA
1 ATAAACGA-AC
51637 ATGAACACGAAC
1 AT-AA-ACGAAC
51649 ATAAACGAAC
1 ATAAACGAAC
51659 ATAAACGAAC
1 ATAAACGAAC
51669 ATAAACG
1 ATAAACG
51676 TTGGAGACCC
Statistics
Matches: 61, Mismatches: 6, Indels: 16
0.73 0.07 0.19
Matches are distributed among these distances:
6 6 0.10
9 1 0.02
10 45 0.74
11 3 0.05
12 5 0.08
13 1 0.02
ACGTcount: A:0.58, C:0.21, G:0.12, T:0.09
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:51616 original size:16 final size:16
Alignment explanation
Indices: 51595--51659 Score: 121
Period size: 16 Copynumber: 4.1 Consensus size: 16
51585 TAATAAATAA
51595 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
51611 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
51627 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
51643 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
51659 A
1 A
51660 TAAACGAACA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
16 47 1.00
ACGTcount: A:0.57, C:0.23, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:52437 original size:14 final size:14
Alignment explanation
Indices: 52420--52475 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
52410 AATGAACATA
*
52420 AACGAACATAATCG
1 AACGAACATAACCG
52434 AACGAACAT-A---
1 AACGAACATAACCG
*
52444 AACGAACATAACCA
1 AACGAACATAACCG
52458 AACGAACATAACCG
1 AACGAACATAACCG
52472 AACG
1 AACG
52476 TTCACGAACG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 26 0.70
ACGTcount: A:0.54, C:0.25, G:0.12, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:52440 original size:24 final size:24
Alignment explanation
Indices: 52400--52474 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
52390 GATTGTGTTA
*
52400 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
52424 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
* * *
52448 AACATAACCAAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
52472 AAC
1 AAC
52475 GTTCACGAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 3 0.07
24 43 0.93
ACGTcount: A:0.56, C:0.21, G:0.11, T:0.12
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:61391 original size:23 final size:24
Alignment explanation
Indices: 61343--61395 Score: 65
Period size: 23 Copynumber: 2.2 Consensus size: 24
61333 TGTTAATTTG
61343 TTTTATAACTTTAGCTTCATAAAA
1 TTTTATAACTTTAGCTTCATAAAA
* *
61367 TTTTATCAA-TTTA-CTTCCTAGAA
1 TTTTAT-AACTTTAGCTTCATAAAA
61390 TTTTAT
1 TTTTAT
61396 GTCCGTTTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 14 0.54
24 10 0.38
25 2 0.08
ACGTcount: A:0.32, C:0.13, G:0.04, T:0.51
Consensus pattern (24 bp):
TTTTATAACTTTAGCTTCATAAAA
Found at i:62215 original size:2 final size:2
Alignment explanation
Indices: 62210--62234 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
62200 TAGGGTGAAC
62210 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 A
62235 ATAGAAAATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:66276 original size:36 final size:36
Alignment explanation
Indices: 66229--66301 Score: 146
Period size: 36 Copynumber: 2.0 Consensus size: 36
66219 TGTGGGGTTG
66229 CTTTTCTTCTCAGCCTTACGGTGTTGGTGTCAACTT
1 CTTTTCTTCTCAGCCTTACGGTGTTGGTGTCAACTT
66265 CTTTTCTTCTCAGCCTTACGGTGTTGGTGTCAACTT
1 CTTTTCTTCTCAGCCTTACGGTGTTGGTGTCAACTT
66301 C
1 C
66302 GACTTGACAC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.11, C:0.26, G:0.19, T:0.44
Consensus pattern (36 bp):
CTTTTCTTCTCAGCCTTACGGTGTTGGTGTCAACTT
Found at i:67073 original size:108 final size:106
Alignment explanation
Indices: 66936--67325 Score: 471
Period size: 108 Copynumber: 3.6 Consensus size: 106
66926 AAATTGTAAG
* * * * *
66936 AAAATAAGTAAATTACTTATTTTGTTATTAATATTATCAACAGATTAGGTAGCGCCTAATATATT
1 AAAATAAGTTAATTACTTATTTTGTTATTAATATTATCAACATATTAGGTAGCACCTAAAATGTT
* *
67001 ATGAGAGTTCAAGCTGATGAGACCTTAAAAATCTGACGATAAC
66 AT-AAAGTTAAAGCTGATGAGACCTTAAAAAT-TGACGATAAC
* ** *
67044 AAAATATGTTAATTACTTATTTTGTTATTAATATTATCAACATATTATTTAGCACTTAAAATGTT
1 AAAATAAGTTAATTACTTATTTTGTTATTAATATTATCAACATATTAGGTAGCACCTAAAATGTT
* * * *
67109 ACCAAAGTTTAAGC-GAT-ATGAGCTTAGAAATTTGACGATAAC
66 A-TAAAGTTAAAGCTGATGA-GACCTTA-AAAATTGACGATAAC
*
67151 AAAATATGTTAATTACTTATTTTGTTATTAATATTATCAACATATT-GTGTAGCACCTAAAATGT
1 AAAATAAGTTAATTACTTATTTTGTTATTAATATTATCAACATATTAG-GTAGCACCTAAAATGT
* * * *
67215 TACTAAAGTTAAAGCTTACGGGGCCTTAAAAATTCGACGATAAC
65 TA-TAAAGTTAAAGCTGATGAGACCTTAAAAATT-GACGATAAC
* * **
67259 AAAATAAGTTAATTACTTATTTTGTTATTATTATTATCAGCATATTAGGTAGCGTCTAAAATGTT
1 AAAATAAGTTAATTACTTATTTTGTTATTAATATTATCAACATATTAGGTAGCACCTAAAATGTT
67324 AT
66 AT
67326 CTGTAACACC
Statistics
Matches: 244, Mismatches: 30, Indels: 17
0.84 0.10 0.06
Matches are distributed among these distances:
106 1 0.00
107 98 0.40
108 144 0.59
109 1 0.00
ACGTcount: A:0.38, C:0.11, G:0.13, T:0.38
Consensus pattern (106 bp):
AAAATAAGTTAATTACTTATTTTGTTATTAATATTATCAACATATTAGGTAGCACCTAAAATGTT
ATAAAGTTAAAGCTGATGAGACCTTAAAAATTGACGATAAC
Found at i:67321 original size:215 final size:215
Alignment explanation
Indices: 66936--67324 Score: 552
Period size: 215 Copynumber: 1.8 Consensus size: 215
66926 AAATTGTAAG
* *
66936 AAAATAAGTAAATTACTTATTTTGTTATTAATATTATCAACAGATTAGGTAGCGCCTAATATATT
1 AAAATAAGTAAATTACTTATTTTGTTATTAATATTATCAACAGATTAGGTAGCACCTAAAATATT
* * * *
67001 ATGAGAGTTCAAGCTGATGAGACCTTAAAAATCTGACGATAACAAAATATGTTAATTACTTATTT
66 ATGAAAGTTAAAGCTGACGAGACCTTAAAAATCTGACGATAACAAAATAAGTTAATTACTTATTT
**
67066 TGTTATTAATATTATCAACATATTATTTAGCACTTAAAATGTTACCAAAGTTTAAGCGATATGAG
131 TGTTATTAATATTATCAACATATTAGGTAGCACTTAAAATGTTACCAAAGTTTAAGCGATATGAG
67131 CTTAGAAATTTGACGATAAC
196 CTTAGAAATTTGACGATAAC
* * * *
67151 AAAATATGTTAATTACTTATTTTGTTATTAATATTATCAACATATT-GTGTAGCACCTAAAATGT
1 AAAATAAGTAAATTACTTATTTTGTTATTAATATTATCAACAGATTAG-GTAGCACCTAAAATAT
* * *
67215 TACT-AAAGTTAAAGCTTACGGGGCCTTAAAAAT-TCGACGATAACAAAATAAGTTAATTACTTA
65 TA-TGAAAGTTAAAGCTGACGAGACCTTAAAAATCT-GACGATAACAAAATAAGTTAATTACTTA
* * *
67278 TTTTGTTATTATTATTATCAGCATATTAGGTAGC-GTCTAAAATGTTA
128 TTTTGTTATTAATATTATCAACATATTAGGTAGCACT-TAAAATGTTA
67325 TCTGTAACAC
Statistics
Matches: 152, Mismatches: 18, Indels: 8
0.85 0.10 0.04
Matches are distributed among these distances:
214 3 0.02
215 148 0.97
216 1 0.01
ACGTcount: A:0.39, C:0.11, G:0.13, T:0.38
Consensus pattern (215 bp):
AAAATAAGTAAATTACTTATTTTGTTATTAATATTATCAACAGATTAGGTAGCACCTAAAATATT
ATGAAAGTTAAAGCTGACGAGACCTTAAAAATCTGACGATAACAAAATAAGTTAATTACTTATTT
TGTTATTAATATTATCAACATATTAGGTAGCACTTAAAATGTTACCAAAGTTTAAGCGATATGAG
CTTAGAAATTTGACGATAAC
Found at i:67522 original size:20 final size:20
Alignment explanation
Indices: 67497--67548 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
67487 AAAATGTTTT
67497 TATGAATAGGTAC-TATACTG
1 TATGAATA-GTACATATACTG
67517 TATGAATAGTACATATACTG
1 TATGAATAGTACATATACTG
* *
67537 TGTAAATAGTAC
1 TATGAATAGTAC
67549 CGATACCGTG
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 4 0.14
20 25 0.86
ACGTcount: A:0.38, C:0.10, G:0.17, T:0.35
Consensus pattern (20 bp):
TATGAATAGTACATATACTG
Found at i:67554 original size:20 final size:20
Alignment explanation
Indices: 67511--67567 Score: 60
Period size: 20 Copynumber: 2.9 Consensus size: 20
67501 AATAGGTACT
* * *
67511 ATACTGTATGAATAGTACAT
1 ATACTGTGTAAATAGTACAG
*
67531 ATACTGTGTAAATAGTACCG
1 ATACTGTGTAAATAGTACAG
* *
67551 ATACCGTGTAAACAGTA
1 ATACTGTGTAAATAGTA
67568 ATGAATAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.39, C:0.14, G:0.18, T:0.30
Consensus pattern (20 bp):
ATACTGTGTAAATAGTACAG
Found at i:67631 original size:19 final size:20
Alignment explanation
Indices: 67607--67648 Score: 68
Period size: 21 Copynumber: 2.1 Consensus size: 20
67597 AATGTAAAAT
67607 GTGTATCGAT-ACTGCTACA
1 GTGTATCGATAACTGCTACA
67626 GTGTATCGATACACTGCTACA
1 GTGTATCGATA-ACTGCTACA
67647 GT
1 GT
67649 AATTTCAGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.48
21 11 0.52
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.31
Consensus pattern (20 bp):
GTGTATCGATAACTGCTACA
Found at i:68849 original size:21 final size:21
Alignment explanation
Indices: 68825--68865 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
68815 TTCAGGAGTA
68825 AACCGACACACTCCTGGTGTG
1 AACCGACACACTCCTGGTGTG
68846 AACCGACACACTCCTGGTGT
1 AACCGACACACTCCTGGTGT
68866 ATCGGTACCC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.24, C:0.34, G:0.22, T:0.20
Consensus pattern (21 bp):
AACCGACACACTCCTGGTGTG
Found at i:70687 original size:100 final size:100
Alignment explanation
Indices: 70512--70780 Score: 367
Period size: 100 Copynumber: 2.7 Consensus size: 100
70502 TTAAAAAAAA
* * * *
70512 TATTTCAAGCAGTTAAGTTATAAAAATTTTACTGTTTACATTAATATTATACCTTTAAACAAACC
1 TATTTTAACCAGTTAAGTTATAAATATTTTACCGTTTACATTAATATTATACCTTTAAACAAACC
* * * *
70577 GGCAGGTAGTTTAACGTAATAAGTAGCGCATGTTT
66 GGTAGCTAGTTTAACGTAATAAGTAGCACATATTT
* * * *
70612 TATTTTAACCAGTTAAGTTGTAAATATTTTACCGCTTACATTGATATTATACCTTTAAACAAACT
1 TATTTTAACCAGTTAAGTTATAAATATTTTACCGTTTACATTAATATTATACCTTTAAACAAACC
* * *
70677 GGTAGCTAGTTTAACGTAATAGGTATCACCTATTT
66 GGTAGCTAGTTTAACGTAATAAGTAGCACATATTT
* * * *
70712 TATTTTAACCGGTTAAGTTTTAAATATTTTACCGTTTACTTTAATATTATACATTTAAACAAACC
1 TATTTTAACCAGTTAAGTTATAAATATTTTACCGTTTACATTAATATTATACCTTTAAACAAACC
70777 GGTA
66 GGTA
70781 TCTATTATGA
Statistics
Matches: 147, Mismatches: 22, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
100 147 1.00
ACGTcount: A:0.35, C:0.14, G:0.12, T:0.40
Consensus pattern (100 bp):
TATTTTAACCAGTTAAGTTATAAATATTTTACCGTTTACATTAATATTATACCTTTAAACAAACC
GGTAGCTAGTTTAACGTAATAAGTAGCACATATTT
Found at i:71648 original size:33 final size:33
Alignment explanation
Indices: 71609--71689 Score: 94
Period size: 33 Copynumber: 2.5 Consensus size: 33
71599 ATGAACATTG
71609 GTTAGTTGATTGCT--AGAATTTTTTCGATGAATT
1 GTTAGTTGATTGCTCAAG-ATTTTTT-GATGAATT
** *
71642 GTTAGTTGATTAATCAAGATTTTTTGATGAGTT
1 GTTAGTTGATTGCTCAAGATTTTTTGATGAATT
*
71675 GTTGGTTGATTGCTC
1 GTTAGTTGATTGCTC
71690 CGTATCATTT
Statistics
Matches: 40, Mismatches: 6, Indels: 4
0.80 0.12 0.08
Matches are distributed among these distances:
33 31 0.77
34 7 0.17
35 2 0.05
ACGTcount: A:0.22, C:0.06, G:0.23, T:0.48
Consensus pattern (33 bp):
GTTAGTTGATTGCTCAAGATTTTTTGATGAATT
Found at i:72298 original size:100 final size:100
Alignment explanation
Indices: 72067--72848 Score: 915
Period size: 100 Copynumber: 7.8 Consensus size: 100
72057 TAAAAAAATA
* ** * * *
72067 TTTAAACAAACTGGTAGCTAGTTTAAAATAATAGGTTGCACATATTCTATTTTAACCGGTTAAGT
1 TTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAACTGGTTAAGT
*
72132 TGTAATTATTTTACTCGTTTACATTATTATTATACC
66 TGTAAATATTTTAC-CGTTTACATTATTATTATACC
* *
72168 TTTAAATAAACCGGTAGCTAGTGTAACGTAATAGGTTGCACCTATTTTATTTTAACTGGTTAAGT
1 TTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAACTGGTTAAGT
* *
72233 TGTAAATATTTTACCATTTACATTATTATTATACT
66 TGTAAATATTTTACCGTTTACATTATTATTATACC
* * * * *
72268 TTTAAACAAACCAGTGGCTAGTTTAACGTAATAAGTTGCGCCTATTTTATTTTAA-TCGTTTAAG
1 TTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAACT-GGTTAAG
* *
72332 TTGTAAATATTTTACCGTTTAAATTATTATTTTACC
65 TTGTAAATATTTTACCGTTTACATTATTATTATACC
* * ** * *
72368 TTTAAACAAACAC-GTAGCTAATTTAACGAAATAGGAAGCGCCTATTTTATTTTAACCGGTTAAG
1 TTTAAACAAAC-CGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAACTGGTTAAG
* *
72432 TTGTAAATATTTTACCGTTTACAATATTAATATACC
65 TTGTAAATATTTTACCGTTTACATTATTATTATACC
* * * * * ***
72468 TTTAAACAAACCGGTAACTAGTTAAACTTAATAGGCTGCACATATTTTATTTTAACCCATTAAGT
1 TTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAACTGGTTAAGT
* *
72533 TATAAATATTTTACCGTTTACATTATTATTATGACT
66 TGTAAATATTTTACCGTTTACATTATTATTAT-ACC
** * * * ** *
72569 TTTAAACAAATTGATTGCTATTTTAACGTAATAGGTAACATCTATTTTATTTTAA-TCGGTTAAG
1 TTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAACT-GGTTAAG
* *
72633 TTGTAAATATTTTACCGTTTACATTATTAATATACA
65 TTGTAAATATTTTACCGTTTACATTATTATTATACC
* * *
72669 TTTAAACAAATCGGTAACTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAATTGGTTAAGT
1 TTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAACTGGTTAAGT
* *
72734 TGTAATTATTTTACCGTTTACATTATTATTATACT
66 TGTAAATATTTTACCGTTTACATTATTATTATACC
** * * * * ***
72769 TTTAAACAAATTGATAGTTACTTTAACGTAATATGTTGTGTCTATTTTATTTTAA-TCGGTTAAG
1 TTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAACT-GGTTAAG
* *
72833 TTATAATTATTATTAC
65 TTGTAAATATT-TTAC
72849 ACTATCGATA
Statistics
Matches: 583, Mismatches: 89, Indels: 18
0.84 0.13 0.03
Matches are distributed among these distances:
99 3 0.01
100 424 0.73
101 156 0.27
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (100 bp):
TTTAAACAAACCGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAACTGGTTAAGT
TGTAAATATTTTACCGTTTACATTATTATTATACC
Found at i:72816 original size:401 final size:402
Alignment explanation
Indices: 72067--72848 Score: 1061
Period size: 401 Copynumber: 1.9 Consensus size: 402
72057 TAAAAAAATA
* * * **
72067 TTTAAACAAACTGGTAGCTAGTTTAAAATAATAGGTTGCACATATTCTATTTTAACCGGTTAAGT
1 TTTAAACAAACCGGTAACTAGTTTAAAATAATAGGCTGCACATATTCTATTTTAACCCATTAAGT
* * * *
72132 TGTAATTATTTTACTCGTTTACATTATTATTATACCTTTAAATAAACCGGTAGCTAGTGTAACGT
66 TATAAATATTTTACTCGTTTACATTATTATTATACCTTTAAACAAACCGATAGCTAGTGTAACGT
** *
72197 AATAGGTTGCACCTATTTTATTTTAACTGGTTAAGTTGTAAATATTTTACCATTTACATTATTAT
131 AATAGGTAACACCTATTTTATTTTAACTGGTTAAGTTGTAAATATTTTACCATTTACATTATTAA
* ** * *
72262 TATACTTTTAAACAAACCAGTGGCTAGTTTAACGTAATAAGTTGCGCCTATTTTATTTTAATCGT
196 TATACATTTAAACAAACCAGTAACTAGTTTAACGTAATAAGTTGCACCTATTTTATTTTAATCGG
*
72327 TTAAGTTGTAAATATTTTACCGTTTAAATTATTATTTTACCTTTAAACAAACACGTAGCTAATTT
261 TTAAGTTGTAAATATTTTACCGTTTAAATTATTATTATACCTTTAAACAAACACGTAGCTAATTT
*
72392 AACGAAATAGGAAGCGCCTATTTTATTTTAACCGGTTAAGTTGTAAATATT-TTACCGTTTACAA
326 AACGAAATAGGAAGCGCCTATTTTATTTTAACCGGTTAAGTTATAAATATTATTACCGTTTACAA
72456 TATTAATATACC
391 TATTAATATACC
* *
72468 TTTAAACAAACCGGTAACTAG-TTAAACTTAATAGGCTGCACATATTTTATTTTAACCCATTAAG
1 TTTAAACAAACCGGTAACTAGTTTAAA-ATAATAGGCTGCACATATTCTATTTTAACCCATTAAG
* ** * * *
72532 TTATAAATATTTTAC-CGTTTACATTATTATTATGACTTTTAAACAAATTGATTGCTATTTTAAC
65 TTATAAATATTTTACTCGTTTACATTATTATTAT-ACCTTTAAACAAACCGATAGCTAGTGTAAC
* *
72596 GTAATAGGTAACATCTATTTTATTTTAA-TCGGTTAAGTTGTAAATATTTTACCGTTTACATTAT
129 GTAATAGGTAACACCTATTTTATTTTAACT-GGTTAAGTTGTAAATATTTTACCATTTACATTAT
* * *
72660 TAATATACATTTAAACAAATCGGTAACTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAAT
193 TAATATACATTTAAACAAACCAGTAACTAGTTTAACGTAATAAGTTGCACCTATTTTATTTTAAT
* * * * ** *
72725 TGGTTAAGTTGTAATTATTTTACCGTTTACATTATTATTATACTTTTAAACAAA-TTGATAGTTA
258 CGGTTAAGTTGTAAATATTTTACCGTTTAAATTATTATTATACCTTTAAACAAACACG-TAGCTA
* * * ** * * * *
72789 CTTTAACGTAATATGTTGTGTCTATTTTATTTTAATCGGTTAAGTTATAATTATTATTAC
322 ATTTAACGAAATAGGAAGCGCCTATTTTATTTTAACCGGTTAAGTTATAAATATTATTAC
72849 ACTATCGATA
Statistics
Matches: 328, Mismatches: 48, Indels: 9
0.85 0.12 0.02
Matches are distributed among these distances:
400 25 0.08
401 299 0.91
402 4 0.01
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (402 bp):
TTTAAACAAACCGGTAACTAGTTTAAAATAATAGGCTGCACATATTCTATTTTAACCCATTAAGT
TATAAATATTTTACTCGTTTACATTATTATTATACCTTTAAACAAACCGATAGCTAGTGTAACGT
AATAGGTAACACCTATTTTATTTTAACTGGTTAAGTTGTAAATATTTTACCATTTACATTATTAA
TATACATTTAAACAAACCAGTAACTAGTTTAACGTAATAAGTTGCACCTATTTTATTTTAATCGG
TTAAGTTGTAAATATTTTACCGTTTAAATTATTATTATACCTTTAAACAAACACGTAGCTAATTT
AACGAAATAGGAAGCGCCTATTTTATTTTAACCGGTTAAGTTATAAATATTATTACCGTTTACAA
TATTAATATACC
Found at i:72817 original size:301 final size:299
Alignment explanation
Indices: 72066--72848 Score: 985
Period size: 301 Copynumber: 2.6 Consensus size: 299
72056 ATAAAAAAAT
* ** * *
72066 ATTTAAACAAACTGGTAGCTAGTTTAAAATAATAGGTTGCACATATTCTATTTTAACCGGTTAAG
1 ATTTAAACAAACAGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAACCGGTTAAG
* *
72131 TTGTAATTATTTTACTCGTTTACATTATTATTATACCTTTAAATAAACCGGTAGCTAGTGTAACG
66 TTGTAATTATTTTAC-CGTTTACATTATTATTATACCTTTAAACAAACCGGTAGCTAGTTTAACG
* * *
72196 TAATAGGTTGCACCTATTTTATTTTAACTGGTTAAGTTGTAAATATTTTACCATTTACATTATTA
130 TAATAGGTTG-AACTATTTTATTTTAACCGGTTAAGTTATAAATATTTTACCATTTACATTATTA
** *
72261 TTATACTTTTAAACAAACCAGTGGCTAGTTTAACGTAATAAGTTGCGCCTATTTTATTTTAATCG
194 TTATACTTTTAAACAAACCAGTGGCTAGTTTAACGTAATAAGTAACACCTATTTTATTTTAATCG
* * *
72326 TTTAAGTTGTAAATATTTTACCGTTTAAATTATTATTTTAC
259 GTTAAGTTGTAAATATTTTACCGTTTAAATTATTAATATAC
* * * * ** *
72367 CTTTAAACAAACACGTAGCTAATTTAACGAAATAGGAAGCGCCTATTTTATTTTAACCGGTTAAG
1 ATTTAAACAAACAGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAACCGGTTAAG
* * * * * *
72432 TTGTAAATATTTTACCGTTTACAATATTAATATACCTTTAAACAAACCGGTAACTAGTTAAACTT
66 TTGTAATTATTTTACCGTTTACATTATTATTATACCTTTAAACAAACCGGTAGCTAGTTTAACGT
* * ** *
72497 AATAGGCTGCACATATTTTATTTTAACCCATTAAGTTATAAATATTTTACCGTTTACATTATTAT
131 AATAGGTTGAAC-TATTTTATTTTAACCGGTTAAGTTATAAATATTTTACCATTTACATTATTAT
** * * * *
72562 TATGACTTTTAAACAAA-TTGATTGCTATTTTAACGTAATAGGTAACATCTATTTTATTTTAATC
195 TAT-ACTTTTAAACAAACCAG-TGGCTAGTTTAACGTAATAAGTAACACCTATTTTATTTTAATC
*
72626 GGTTAAGTTGTAAATATTTTACCGTTTACATTATTAATATAC
258 GGTTAAGTTGTAAATATTTTACCGTTTAAATTATTAATATAC
* **
72668 ATTTAAACAAATC-GGTAACTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAATTGGTTAA
1 ATTTAAACAAA-CAGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAACCGGTTAA
* ** * * *
72732 GTTGTAATTATTTTACCGTTTACATTATTATTATACTTTTAAACAAATTGATAGTTACTTTAACG
65 GTTGTAATTATTTTACCGTTTACATTATTATTATACCTTTAAACAAACCGGTAGCTAGTTTAACG
* ** * *
72797 TAATATGTTGTGTCTATTTTATTTTAATCGGTTAAGTTATAATTATTATTAC
130 TAATAGGTTG-AACTATTTTATTTTAACCGGTTAAGTTATAAATATT-TTAC
72849 ACTATCGATA
Statistics
Matches: 405, Mismatches: 71, Indels: 11
0.83 0.15 0.02
Matches are distributed among these distances:
299 1 0.00
300 102 0.25
301 296 0.73
302 6 0.01
ACGTcount: A:0.33, C:0.12, G:0.11, T:0.43
Consensus pattern (299 bp):
ATTTAAACAAACAGGTAGCTAGTTTAACGTAATAGGTTGCACCTATTTTATTTTAACCGGTTAAG
TTGTAATTATTTTACCGTTTACATTATTATTATACCTTTAAACAAACCGGTAGCTAGTTTAACGT
AATAGGTTGAACTATTTTATTTTAACCGGTTAAGTTATAAATATTTTACCATTTACATTATTATT
ATACTTTTAAACAAACCAGTGGCTAGTTTAACGTAATAAGTAACACCTATTTTATTTTAATCGGT
TAAGTTGTAAATATTTTACCGTTTAAATTATTAATATAC
Found at i:76282 original size:34 final size:35
Alignment explanation
Indices: 76239--76326 Score: 99
Period size: 36 Copynumber: 2.5 Consensus size: 35
76229 TAAAAGTTAA
*
76239 TTTCAAAGTTTGA-CAA-CTAACTTTGAAAAATATT
1 TTTCAAAGTTTGATAAAGCTAA-TTTGAAAAATATT
* * *
76273 TTTCAAAGTTTGATAAATGTTTATTTGAAAAATGTT
1 TTTCAAAGTTTGATAAA-GCTAATTTGAAAAATATT
*
76309 TTTCAAAGTTTGGTAAAG
1 TTTCAAAGTTTGATAAAG
76327 TTTGGTAGAT
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
34 13 0.28
35 3 0.07
36 28 0.61
37 2 0.04
ACGTcount: A:0.38, C:0.07, G:0.14, T:0.42
Consensus pattern (35 bp):
TTTCAAAGTTTGATAAAGCTAATTTGAAAAATATT
Found at i:76311 original size:36 final size:35
Alignment explanation
Indices: 76260--76329 Score: 113
Period size: 36 Copynumber: 2.0 Consensus size: 35
76250 GACAACTAAC
76260 TTTGAAAAATATTTTTCAAAGTTTGATAAATGTTTA
1 TTTGAAAAATATTTTTCAAAGTTTGATAAA-GTTTA
* *
76296 TTTGAAAAATGTTTTTCAAAGTTTGGTAAAGTTT
1 TTTGAAAAATATTTTTCAAAGTTTGATAAAGTTT
76330 GGTAGATGTT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 4 0.12
36 28 0.88
ACGTcount: A:0.36, C:0.03, G:0.14, T:0.47
Consensus pattern (35 bp):
TTTGAAAAATATTTTTCAAAGTTTGATAAAGTTTA
Found at i:80905 original size:39 final size:38
Alignment explanation
Indices: 80850--80960 Score: 122
Period size: 39 Copynumber: 2.9 Consensus size: 38
80840 TGGCAACCAA
*
80850 CTTTGAAAAATGTTTTTCAAAGTTTGGTAAATGTTTTTTT
1 CTTTG-AAAATATTTTTCAAAGTTTGGTAAATG-TTTTTT
* *
80890 TTTTGAAAATATTTTTCAAAGTTTAGTAAATG---TTT
1 CTTTGAAAATATTTTTCAAAGTTTGGTAAATGTTTTTT
*
80925 CTTTGAAAA-ATGTTTTACAAAGTTTGGTAGATGTTT
1 CTTTGAAAATAT-TTTT-CAAAGTTTGGTAAATGTTT
80961 GTTGAAAATA
Statistics
Matches: 60, Mismatches: 6, Indels: 11
0.78 0.08 0.14
Matches are distributed among these distances:
34 2 0.03
35 15 0.25
36 14 0.23
39 25 0.42
40 4 0.07
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.50
Consensus pattern (38 bp):
CTTTGAAAATATTTTTCAAAGTTTGGTAAATGTTTTTT
Done.