Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002051.1 Hibiscus syriacus cultivar Beakdansim tig00004177_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: 79524
ACGTcount: A:0.32, C:0.17, G:0.18, T:0.33
Found at i:2296 original size:15 final size:15
Alignment explanation
Indices: 2276--2305 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
2266 TGTTTTTGTT
*
2276 TTCATTCATCTTTTC
1 TTCATTCATCATTTC
2291 TTCATTCATCATTTC
1 TTCATTCATCATTTC
2306 ATCTTTACCA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.27, G:0.00, T:0.57
Consensus pattern (15 bp):
TTCATTCATCATTTC
Found at i:6902 original size:17 final size:17
Alignment explanation
Indices: 6875--6913 Score: 71
Period size: 17 Copynumber: 2.4 Consensus size: 17
6865 AATTTACAAT
6875 TAATT-TAAATAATATC
1 TAATTATAAATAATATC
6891 TAATTATAAATAATATC
1 TAATTATAAATAATATC
6908 TAATTA
1 TAATTA
6914 ATTTGATTCA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 5 0.23
17 17 0.77
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATTATAAATAATATC
Found at i:7437 original size:30 final size:30
Alignment explanation
Indices: 7383--7492 Score: 143
Period size: 30 Copynumber: 3.6 Consensus size: 30
7373 AAATGATATG
7383 CTCTCAACCC-ATAAACATTCACACATCAATC
1 CTCTCAACCCGA-AAACA-TCACACATCAATC
*
7414 CTCTCAACCCGAAAACATCACACAACAATC
1 CTCTCAACCCGAAAACATCACACATCAATC
*
7444 CTCTCAACCCAAAAACATCACACAAT-AATC
1 CTCTCAACCCGAAAACATCACAC-ATCAATC
* *
7474 CTCTCAACTCGTAAACATC
1 CTCTCAACCCGAAAACATC
7493 GCCCGACAAT
Statistics
Matches: 71, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
30 54 0.76
31 16 0.23
32 1 0.01
ACGTcount: A:0.41, C:0.38, G:0.02, T:0.19
Consensus pattern (30 bp):
CTCTCAACCCGAAAACATCACACATCAATC
Found at i:15410 original size:20 final size:20
Alignment explanation
Indices: 15385--15422 Score: 67
Period size: 20 Copynumber: 1.9 Consensus size: 20
15375 AGATTATACA
15385 GGGGGTATAGATTCCCCCTG
1 GGGGGTATAGATTCCCCCTG
*
15405 GGGGGTATCGATTCCCCC
1 GGGGGTATAGATTCCCCC
15423 CTAAAGGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.29, G:0.34, T:0.24
Consensus pattern (20 bp):
GGGGGTATAGATTCCCCCTG
Found at i:16238 original size:22 final size:22
Alignment explanation
Indices: 16208--16268 Score: 79
Period size: 22 Copynumber: 2.8 Consensus size: 22
16198 GGGTGTACGC
* * *
16208 GGTCTTTCGGGACATATTCAGT-
1 GGTCCTTCGGGACAAATACA-TA
16230 GGTCCTTCGGGACAAATACATA
1 GGTCCTTCGGGACAAATACATA
16252 GGTCCTTCGGGACAAAT
1 GGTCCTTCGGGACAAAT
16269 TTCATATGCC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
21 1 0.03
22 34 0.97
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.28
Consensus pattern (22 bp):
GGTCCTTCGGGACAAATACATA
Found at i:17177 original size:14 final size:14
Alignment explanation
Indices: 17158--17189 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
17148 TACTGTTCAT
*
17158 TATTGTTCATACGG
1 TATTGTTCATACCG
17172 TATTGTTCATACCG
1 TATTGTTCATACCG
17186 TATT
1 TATT
17190 TTACTGTTCA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.22, C:0.16, G:0.16, T:0.47
Consensus pattern (14 bp):
TATTGTTCATACCG
Found at i:21750 original size:27 final size:28
Alignment explanation
Indices: 21698--21751 Score: 76
Period size: 27 Copynumber: 2.0 Consensus size: 28
21688 CTAAAAATAT
*
21698 TAATAATTACAAAAATTAATATATAAAC
1 TAATAATTACAAAAATTAATAAATAAAC
21726 TAATAA-TA-AAAAATTAAATAAATAAA
1 TAATAATTACAAAAATT-AATAAATAAA
21752 TTATTACTAA
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
26 7 0.29
27 11 0.46
28 6 0.25
ACGTcount: A:0.67, C:0.04, G:0.00, T:0.30
Consensus pattern (28 bp):
TAATAATTACAAAAATTAATAAATAAAC
Found at i:22072 original size:25 final size:26
Alignment explanation
Indices: 22017--22086 Score: 103
Period size: 26 Copynumber: 2.8 Consensus size: 26
22007 GGGGATTTAT
22017 AGGATGGGATGGGGAGTGTGAACGGG
1 AGGATGGGATGGGGAGTGTGAACGGG
22043 AGGATGGGATGGGGAGTGT-AACGGG
1 AGGATGGGATGGGGAGTGTGAACGGG
*
22068 CGGAT--GA-GGGGAGTGTGAA
1 AGGATGGGATGGGGAGTGTGAA
22087 TGGTTCATAT
Statistics
Matches: 42, Mismatches: 1, Indels: 5
0.88 0.02 0.10
Matches are distributed among these distances:
22 9 0.21
23 4 0.10
25 10 0.24
26 19 0.45
ACGTcount: A:0.24, C:0.04, G:0.56, T:0.16
Consensus pattern (26 bp):
AGGATGGGATGGGGAGTGTGAACGGG
Found at i:22281 original size:51 final size:51
Alignment explanation
Indices: 22226--22324 Score: 144
Period size: 51 Copynumber: 1.9 Consensus size: 51
22216 TGCACCGTGC
* * *
22226 CTTACCCCACGTGGCACCACATCAGCGTAAGGCGCAATGCATGGGTCACGT
1 CTTACCCCACATAGCACCACATCAACGTAAGGCGCAATGCATGGGTCACGT
* **
22277 CTTACCCCACATAGCGCCACATCAACGTAAGGCGCGGTGCATGGGTCA
1 CTTACCCCACATAGCACCACATCAACGTAAGGCGCAATGCATGGGTCA
22325 AGCCTTTCTG
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
51 42 1.00
ACGTcount: A:0.24, C:0.33, G:0.25, T:0.17
Consensus pattern (51 bp):
CTTACCCCACATAGCACCACATCAACGTAAGGCGCAATGCATGGGTCACGT
Found at i:23217 original size:2 final size:2
Alignment explanation
Indices: 23210--23236 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
23200 GAATTAGAAT
23210 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
23237 TATTTTAAAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:25408 original size:6 final size:7
Alignment explanation
Indices: 25386--25415 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
25376 GTCAAAGGAA
25386 GTCAACG
1 GTCAACG
25393 GTCAACG
1 GTCAACG
25400 GTC-ACG
1 GTCAACG
25406 GTCAACG
1 GTCAACG
25413 GTC
1 GTC
25416 GGGTCAGTCG
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
6 6 0.27
7 16 0.73
ACGTcount: A:0.23, C:0.30, G:0.30, T:0.17
Consensus pattern (7 bp):
GTCAACG
Found at i:25408 original size:13 final size:13
Alignment explanation
Indices: 25390--25415 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
25380 AAGGAAGTCA
25390 ACGGTCAACGGTC
1 ACGGTCAACGGTC
25403 ACGGTCAACGGTC
1 ACGGTCAACGGTC
25416 GGGTCAGTCG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (13 bp):
ACGGTCAACGGTC
Found at i:25427 original size:9 final size:10
Alignment explanation
Indices: 25413--25458 Score: 53
Period size: 9 Copynumber: 4.9 Consensus size: 10
25403 ACGGTCAACG
25413 GTCGGGTC-A
1 GTCGGGTCGA
*
25422 GTCGGGTCGG
1 GTCGGGTCGA
*
25432 GTC-AGTCGA
1 GTCGGGTCGA
25441 GTCGGGTC-A
1 GTCGGGTCGA
25450 GTCGGGTCG
1 GTCGGGTCG
25459 GGTCAGACCG
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
9 24 0.80
10 6 0.20
ACGTcount: A:0.09, C:0.22, G:0.48, T:0.22
Consensus pattern (10 bp):
GTCGGGTCGA
Found at i:25431 original size:14 final size:14
Alignment explanation
Indices: 25412--25464 Score: 97
Period size: 14 Copynumber: 3.8 Consensus size: 14
25402 CACGGTCAAC
25412 GGTCGGGTCAGTCG
1 GGTCGGGTCAGTCG
25426 GGTCGGGTCAGTCG
1 GGTCGGGTCAGTCG
*
25440 AGTCGGGTCAGTCG
1 GGTCGGGTCAGTCG
25454 GGTCGGGTCAG
1 GGTCGGGTCAG
25465 ACCGGTCGGA
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 37 1.00
ACGTcount: A:0.09, C:0.21, G:0.49, T:0.21
Consensus pattern (14 bp):
GGTCGGGTCAGTCG
Found at i:25471 original size:14 final size:14
Alignment explanation
Indices: 25411--25473 Score: 83
Period size: 14 Copynumber: 4.5 Consensus size: 14
25401 TCACGGTCAA
25411 CGGTCGGGTCAGTC
1 CGGTCGGGTCAGTC
*
25425 GGGTCGGGTCAGT-
1 CGGTCGGGTCAGTC
25438 CGAGTCGGGTCAGTC
1 CG-GTCGGGTCAGTC
* *
25453 GGGTCGGGTCAGAC
1 CGGTCGGGTCAGTC
25467 CGGTCGG
1 CGGTCGG
25474 AACCGTTCAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
13 1 0.02
14 40 0.95
15 1 0.02
ACGTcount: A:0.10, C:0.24, G:0.48, T:0.19
Consensus pattern (14 bp):
CGGTCGGGTCAGTC
Found at i:25472 original size:28 final size:27
Alignment explanation
Indices: 25411--25473 Score: 99
Period size: 28 Copynumber: 2.3 Consensus size: 27
25401 TCACGGTCAA
*
25411 CGGTCGGGTCAGTCGGGTCGGGTCAGT
1 CGGTCGGGTCAGTCGGGTCGGGTCAGC
25438 CGAGTCGGGTCAGTCGGGTCGGGTCAGAC
1 CG-GTCGGGTCAGTCGGGTCGGGTCAG-C
25467 CGGTCGG
1 CGGTCGG
25474 AACCGTTCAA
Statistics
Matches: 33, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
27 2 0.06
28 29 0.88
29 2 0.06
ACGTcount: A:0.10, C:0.24, G:0.48, T:0.19
Consensus pattern (27 bp):
CGGTCGGGTCAGTCGGGTCGGGTCAGC
Found at i:26345 original size:18 final size:18
Alignment explanation
Indices: 26324--26387 Score: 67
Period size: 18 Copynumber: 3.6 Consensus size: 18
26314 TAAATCACTT
*
26324 AAAAATTCTAAGTTACTA
1 AAAAACTCTAAGTTACTA
* * *
26342 AAAAA-TCCTAACTCACTT
1 AAAAACT-CTAAGTTACTA
*
26360 AAAAACTCTAAGTTACTG
1 AAAAACTCTAAGTTACTA
26378 AAAAACTCTA
1 AAAAACTCTA
26388 TCTCACGTAA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
17 1 0.03
18 36 0.95
19 1 0.03
ACGTcount: A:0.48, C:0.19, G:0.05, T:0.28
Consensus pattern (18 bp):
AAAAACTCTAAGTTACTA
Found at i:26359 original size:36 final size:35
Alignment explanation
Indices: 26312--26446 Score: 130
Period size: 36 Copynumber: 3.7 Consensus size: 35
26302 GTGAAAGAAC
*
26312 CCTAAATCACTTAAAAATTCTAAGTTACTAAAAAAT
1 CCTAACTCACTTAAAAA-TCTAAGTTACTAAAAAAT
*
26348 CCTAACTCACTTAAAAACTCTAAGTTACTGAAAAA-
1 CCTAACTCACTTAAAAA-TCTAAGTTACTAAAAAAT
* * * * *
26383 CTCTATCTCACGTAAATACCTTAAGTTACTCAAAAAT
1 C-CTAACTCACTTAAAAATC-TAAGTTACTAAAAAAT
*
26420 CCTAACTCACATAACAACAT-TAAGTTA
1 CCTAACTCACTTAA-AA-ATCTAAGTTA
26447 GTTAAAGAAA
Statistics
Matches: 82, Mismatches: 12, Indels: 10
0.79 0.12 0.10
Matches are distributed among these distances:
35 2 0.02
36 77 0.94
37 2 0.02
38 1 0.01
ACGTcount: A:0.44, C:0.22, G:0.04, T:0.29
Consensus pattern (35 bp):
CCTAACTCACTTAAAAATCTAAGTTACTAAAAAAT
Found at i:26505 original size:23 final size:23
Alignment explanation
Indices: 26479--26527 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
26469 GTAAAAATTC
26479 TCTGTTATTTGAAATTAATATTA
1 TCTGTTATTTGAAATTAATATTA
26502 TCTGTTATTTGAAATTAATATTA
1 TCTGTTATTTGAAATTAATATTA
26525 TCT
1 TCT
26528 TAGATTTGAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.33, C:0.06, G:0.08, T:0.53
Consensus pattern (23 bp):
TCTGTTATTTGAAATTAATATTA
Found at i:26534 original size:23 final size:23
Alignment explanation
Indices: 26479--26536 Score: 82
Period size: 23 Copynumber: 2.5 Consensus size: 23
26469 GTAAAAATTC
*
26479 TCTGTTATTTGAAATTAATATTA
1 TCTGTGATTTGAAATTAATATTA
*
26502 TCTGTTATTTGAAATTAATATTA
1 TCTGTGATTTGAAATTAATATTA
26525 TCT-TAGATTTGA
1 TCTGT-GATTTGA
26537 TTTTTCTTTC
Statistics
Matches: 33, Mismatches: 1, Indels: 2
0.92 0.03 0.06
Matches are distributed among these distances:
22 1 0.03
23 32 0.97
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.52
Consensus pattern (23 bp):
TCTGTGATTTGAAATTAATATTA
Found at i:28389 original size:34 final size:34
Alignment explanation
Indices: 28346--28411 Score: 132
Period size: 34 Copynumber: 1.9 Consensus size: 34
28336 GAAAATTCTT
28346 ATTTCAGGTATGGAGTCATAAAATCATTACAAGA
1 ATTTCAGGTATGGAGTCATAAAATCATTACAAGA
28380 ATTTCAGGTATGGAGTCATAAAATCATTACAA
1 ATTTCAGGTATGGAGTCATAAAATCATTACAA
28412 TACAAAACAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 32 1.00
ACGTcount: A:0.41, C:0.12, G:0.17, T:0.30
Consensus pattern (34 bp):
ATTTCAGGTATGGAGTCATAAAATCATTACAAGA
Found at i:43051 original size:38 final size:38
Alignment explanation
Indices: 43000--43080 Score: 153
Period size: 38 Copynumber: 2.1 Consensus size: 38
42990 ATAGGGTCCT
*
43000 GTTATATTCATAGTTGAATCGATTAGACTCTTAAACCG
1 GTTATATTCATAGTTGAATCAATTAGACTCTTAAACCG
43038 GTTATATTCATAGTTGAATCAATTAGACTCTTAAACCG
1 GTTATATTCATAGTTGAATCAATTAGACTCTTAAACCG
43076 GTTAT
1 GTTAT
43081 CTTCTCCCCT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 42 1.00
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (38 bp):
GTTATATTCATAGTTGAATCAATTAGACTCTTAAACCG
Found at i:47132 original size:15 final size:15
Alignment explanation
Indices: 47112--47142 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
47102 CAACAAATAG
47112 AATTTTTATATAAAT
1 AATTTTTATATAAAT
*
47127 AATTTTTATTTAAAT
1 AATTTTTATATAAAT
47142 A
1 A
47143 TTTAGAATTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (15 bp):
AATTTTTATATAAAT
Found at i:47701 original size:23 final size:23
Alignment explanation
Indices: 47675--47719 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
47665 TTCGCGTACA
47675 TATTCATCAACATATTTATTTAG
1 TATTCATCAACATATTTATTTAG
* * *
47698 TATTTATCAATATGTTTATTTA
1 TATTCATCAACATATTTATTTA
47720 ACATTCGCTG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.33, C:0.09, G:0.04, T:0.53
Consensus pattern (23 bp):
TATTCATCAACATATTTATTTAG
Found at i:49124 original size:22 final size:22
Alignment explanation
Indices: 49075--49138 Score: 71
Period size: 22 Copynumber: 3.0 Consensus size: 22
49065 AAAATTTGAT
* *
49075 TAATTTAATGATTGTTTTATAA
1 TAATTTAATAATTATTTTATAA
*
49097 -AA--TAATTATTATTTTATAA
1 TAATTTAATAATTATTTTATAA
*
49116 TAATTTAATAAATATTTTATAA
1 TAATTTAATAATTATTTTATAA
49138 T
1 T
49139 TGCTTGGTAA
Statistics
Matches: 35, Mismatches: 4, Indels: 6
0.78 0.09 0.13
Matches are distributed among these distances:
19 15 0.43
20 2 0.06
21 2 0.06
22 16 0.46
ACGTcount: A:0.44, C:0.00, G:0.03, T:0.53
Consensus pattern (22 bp):
TAATTTAATAATTATTTTATAA
Found at i:57682 original size:25 final size:25
Alignment explanation
Indices: 57648--57698 Score: 102
Period size: 25 Copynumber: 2.0 Consensus size: 25
57638 GACATTATTG
57648 TATAGCCTGCTAAATAGTCACTTTC
1 TATAGCCTGCTAAATAGTCACTTTC
57673 TATAGCCTGCTAAATAGTCACTTTC
1 TATAGCCTGCTAAATAGTCACTTTC
57698 T
1 T
57699 TTAGTTGGAG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.27, C:0.24, G:0.12, T:0.37
Consensus pattern (25 bp):
TATAGCCTGCTAAATAGTCACTTTC
Found at i:65690 original size:68 final size:68
Alignment explanation
Indices: 65549--65680 Score: 237
Period size: 68 Copynumber: 1.9 Consensus size: 68
65539 AATTTTGAAC
* *
65549 AAAAATTAATTTATAATCATCCCATTAAAATATTTTTATAAATATTTCATCATGTTGTTAAATTA
1 AAAAATTATTTTATAATCATCCCATTAAAATATTTTTATAAATATTTCATCATGTCGTTAAATTA
65614 AAA
66 AAA
*
65617 AAAAATTATTTTATAATCATCTCATTAAAATATTTTTATAAATATTTCATCATGTCGTTAAATT
1 AAAAATTATTTTATAATCATCCCATTAAAATATTTTTATAAATATTTCATCATGTCGTTAAATT
65681 TATATAAAAT
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
68 61 1.00
ACGTcount: A:0.43, C:0.09, G:0.03, T:0.45
Consensus pattern (68 bp):
AAAAATTATTTTATAATCATCCCATTAAAATATTTTTATAAATATTTCATCATGTCGTTAAATTA
AAA
Found at i:65696 original size:68 final size:68
Alignment explanation
Indices: 65549--65697 Score: 228
Period size: 68 Copynumber: 2.2 Consensus size: 68
65539 AATTTTGAAC
* *
65549 AAAAATTAA-TTTATAATCATCCCATTAAAATATTTTTATAAATATTTCATCATGTTGTTAAATT
1 AAAAAATAATTTTATAATCATCCCATTAAAATATTTTTATAAATATTTCATCATGTCGTTAAATT
65613 AAA
66 AAA
* *
65616 AAAAAATTATTTTATAATCATCTCATTAAAATATTTTTATAAATATTTCATCATGTCGTTAAATT
1 AAAAAATAATTTTATAATCATCCCATTAAAATATTTTTATAAATATTTCATCATGTCGTTAAATT
* *
65681 TAT
66 AAA
*
65684 ATAAAATAATTTTA
1 AAAAAATAATTTTA
65698 AGGGTTAATT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
67 7 0.10
68 66 0.90
ACGTcount: A:0.44, C:0.08, G:0.03, T:0.45
Consensus pattern (68 bp):
AAAAAATAATTTTATAATCATCCCATTAAAATATTTTTATAAATATTTCATCATGTCGTTAAATT
AAA
Found at i:75337 original size:5 final size:6
Alignment explanation
Indices: 75322--75347 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
75312 TGATTAAGCT
75322 TTTTTC TTTTTC TTTTTC TTTTTC TT
1 TTTTTC TTTTTC TTTTTC TTTTTC TT
75348 CTGAAATTAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.00, C:0.15, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTC
Done.