Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003459.1 Hibiscus syriacus cultivar Beakdansim tig00007309_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: 58921
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:813 original size:30 final size:31
Alignment explanation
Indices: 779--840 Score: 117
Period size: 30 Copynumber: 2.0 Consensus size: 31
769 ATAATTTTAT
779 TATCACCCCTGAAATTTAAATA-AATATCAA
1 TATCACCCCTGAAATTTAAATAGAATATCAA
809 TATCACCCCTGAAATTTAAATAGAATATCAA
1 TATCACCCCTGAAATTTAAATAGAATATCAA
840 T
1 T
841 TTGATTAGAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
30 22 0.71
31 9 0.29
ACGTcount: A:0.45, C:0.19, G:0.05, T:0.31
Consensus pattern (31 bp):
TATCACCCCTGAAATTTAAATAGAATATCAA
Found at i:1292 original size:23 final size:22
Alignment explanation
Indices: 1239--1303 Score: 67
Period size: 23 Copynumber: 2.9 Consensus size: 22
1229 GAACTTTTAG
* *
1239 ATATATTATTAAAATTAAAATA
1 ATATTTTATTAAAATAAAAATA
* *
1261 ATTTATTTAATAAAATAAAAATA
1 ATAT-TTTATTAAAATAAAAATA
*
1284 CATATTTTATTTAAATAAAA
1 -ATATTTTATTAAAATAAAA
1304 TAGATAAATT
Statistics
Matches: 34, Mismatches: 7, Indels: 3
0.77 0.16 0.07
Matches are distributed among these distances:
22 3 0.09
23 28 0.82
24 3 0.09
ACGTcount: A:0.57, C:0.02, G:0.00, T:0.42
Consensus pattern (22 bp):
ATATTTTATTAAAATAAAAATA
Found at i:1402 original size:2 final size:2
Alignment explanation
Indices: 1395--1446 Score: 88
Period size: 2 Copynumber: 26.5 Consensus size: 2
1385 ATCAATTCAT
*
1395 TA TA TA TA TA TA -A TA TA TA TA TA GA 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
1436 TA TA TA TA TA T
1 TA TA TA TA TA T
1447 GGATTAATCA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
1 1 0.02
2 46 0.98
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
TA
Found at i:3825 original size:29 final size:28
Alignment explanation
Indices: 3788--3936 Score: 142
Period size: 29 Copynumber: 5.2 Consensus size: 28
3778 CTGTTGACCG
* * *
3788 GGTGGTATTTTTGTAATTATTTTGAAAA
1 GGTGATATTTTCGTAATTATTTTTAAAA
* *
3816 TGGTGCTATTTTTGTAA-T-TTTTTAAAA
1 -GGTGATATTTTCGTAATTATTTTTAAAA
*
3843 -GTGATAATTTCGTAATTATTTTTTAAAA
1 GGTGATATTTTCGTAATTA-TTTTTAAAA
**
3871 AATGATATTTTCGTAATTATTTTTAAAA
1 GGTGATATTTTCGTAATTATTTTTAAAA
* *
3899 GGGTGACATTTTCGTAAATATTTCTTAAAA
1 -GGTGATATTTTCGTAATTATTT-TTAAAA
3929 GGGTGATA
1 -GGTGATA
3937 ATTGTGTAAA
Statistics
Matches: 102, Mismatches: 12, Indels: 11
0.82 0.10 0.09
Matches are distributed among these distances:
25 12 0.12
26 1 0.01
27 8 0.08
28 19 0.19
29 49 0.48
30 13 0.13
ACGTcount: A:0.32, C:0.04, G:0.16, T:0.48
Consensus pattern (28 bp):
GGTGATATTTTCGTAATTATTTTTAAAA
Found at i:4600 original size:2 final size:2
Alignment explanation
Indices: 4595--4622 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
4585 TACTTTTTTA
4595 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
4623 GAATACTATG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11088 original size:29 final size:28
Alignment explanation
Indices: 11029--11111 Score: 87
Period size: 29 Copynumber: 2.9 Consensus size: 28
11019 CGGGTGGTAT
* * *
11029 TTTTTGTAATTATTTTGAAATTGGTTGTA
1 TTTTCGTAATTATTTTGAAAAT-GATGTA
*
11058 TTTTGGTAATTATTTTGAAAATGATGCTA
1 TTTTCGTAATTATTTTGAAAATGATG-TA
*
11087 TTTTCGTAATT-TTTTTAAAAGTGAT
1 TTTTCGTAATTATTTTGAAAA-TGAT
11112 AATTTATTAA
Statistics
Matches: 47, Mismatches: 5, Indels: 4
0.84 0.09 0.07
Matches are distributed among these distances:
28 11 0.23
29 36 0.77
ACGTcount: A:0.28, C:0.02, G:0.16, T:0.54
Consensus pattern (28 bp):
TTTTCGTAATTATTTTGAAAATGATGTA
Found at i:11122 original size:26 final size:26
Alignment explanation
Indices: 11092--11163 Score: 67
Period size: 26 Copynumber: 2.6 Consensus size: 26
11082 TGCTATTTTC
11092 GTAATTTTTTTAAAAGTGATAATTTAT
1 GTAATTTTTTTAAAAGTGAT-ATTTAT
*
11119 -TAATTATTTTTTTTAAAA-TGATATTTTT
1 GT-A--A-TTTTTTTAAAAGTGATATTTAT
11147 GTAATTATTTTTAAAAG
1 GTAATT-TTTTTAAAAG
11164 GGTGACATTT
Statistics
Matches: 37, Mismatches: 1, Indels: 14
0.71 0.02 0.27
Matches are distributed among these distances:
25 2 0.05
26 11 0.30
27 1 0.03
28 6 0.16
29 6 0.16
30 11 0.30
ACGTcount: A:0.36, C:0.00, G:0.08, T:0.56
Consensus pattern (26 bp):
GTAATTTTTTTAAAAGTGATATTTAT
Found at i:11132 original size:30 final size:29
Alignment explanation
Indices: 11096--11158 Score: 92
Period size: 29 Copynumber: 2.1 Consensus size: 29
11086 ATTTTCGTAA
11096 TTTTTTTAAAAGTGATAATTTAT-TAATTAT
1 TTTTTTTAAAA-TGAT-ATTTATGTAATTAT
*
11126 TTTTTTTAAAATGATATTTTTGTAATTAT
1 TTTTTTTAAAATGATATTTATGTAATTAT
11155 TTTT
1 TTTT
11159 AAAAGGGTGA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
28 5 0.16
29 15 0.48
30 11 0.35
ACGTcount: A:0.32, C:0.00, G:0.06, T:0.62
Consensus pattern (29 bp):
TTTTTTTAAAATGATATTTATGTAATTAT
Found at i:11210 original size:30 final size:28
Alignment explanation
Indices: 11146--11210 Score: 67
Period size: 30 Copynumber: 2.2 Consensus size: 28
11136 ATGATATTTT
* * * *
11146 TGTAATTATTTTTAAAAGGGTGACATTT
1 TGTAAATATTTTTAAAAGGGTAAAATTG
11174 TCGTAAATATTTCTTAAAAGGGTAATAATTG
1 T-GTAAATATTT-TTAAAAGGGTAA-AATTG
11205 TGTAAA
1 TGTAAA
11211 ATGGTTGATC
Statistics
Matches: 30, Mismatches: 4, Indels: 4
0.79 0.11 0.11
Matches are distributed among these distances:
28 1 0.03
29 9 0.30
30 16 0.53
31 4 0.13
ACGTcount: A:0.37, C:0.05, G:0.17, T:0.42
Consensus pattern (28 bp):
TGTAAATATTTTTAAAAGGGTAAAATTG
Found at i:14238 original size:3 final size:3
Alignment explanation
Indices: 14230--14263 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
14220 ATGTAAACTC
14230 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
14264 TTAATTTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:15752 original size:32 final size:33
Alignment explanation
Indices: 15687--15755 Score: 113
Period size: 33 Copynumber: 2.1 Consensus size: 33
15677 GGCAATGTTT
*
15687 CCGACCCGAATATGACACTTAAAAAAACTCGAC
1 CCGACCCGAATATCACACTTAAAAAAACTCGAC
*
15720 CCGACCCGAATATCACACTTAAAAAATC-CGAC
1 CCGACCCGAATATCACACTTAAAAAAACTCGAC
15752 CCGA
1 CCGA
15756 ACAAAATAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
32 8 0.24
33 26 0.76
ACGTcount: A:0.41, C:0.33, G:0.12, T:0.14
Consensus pattern (33 bp):
CCGACCCGAATATCACACTTAAAAAAACTCGAC
Found at i:17532 original size:280 final size:277
Alignment explanation
Indices: 16989--17509 Score: 610
Period size: 280 Copynumber: 1.9 Consensus size: 277
16979 GAAATTGTGA
* * *
16989 TTGTTATTTCATGTAAGCAACATATTATCCAAATTTATTAATAAAAATTTCAATTACGGAACATG
1 TTGTTATTTCATGTAAACAACATACTATCCAAATTTATTAATAAAAATTTCAATTACAGAACATG
* * * *
17054 TTTTGTTGTCATTTTAAATATCAATTTAGATGTTAAATTTATTAAAATGAATTTTAATTTATATT
66 TTTTGTTGACATTTTAAATATCAATTTAGATGTCAAATTTATTAAAATGAATTTGAATATATATT
** * * *
17119 CATAATAACTATTTGATCGAATTTATATAATCTATTAATTAAACATAATCTTTAATTTAAAAATA
131 CATAATAAAAATTTGATCGAA-TTATACAATCTATTAATTAAACATAATCATTAA-TGAAAAATA
* * * * *
17184 TAAAAATTTAAATTCAAATAATAATATAATATGAGAAAAAAAAATTCAAACTTAGATAATAATAA
194 TAAAAAATCAAATTCAAATAATAACATAATACGAAAAAAAAAAATTCAAAC-TAGATAATAATAA
17249 ATGATGCTATTCATGGGTGT
258 ATGATGCTATTCATGGGTGT
* *
17269 TTGTTATTTCATGTAAACAACATACTATCCAAATTTATTAATAAAAATTTCAGTTATAGAACATG
1 TTGTTATTTCATGTAAACAACATACTATCCAAATTTATTAATAAAAATTTCAATTACAGAACATG
* * *
17334 TTTTGTTGAC-TTTTAAAATAT-AATTTACG-TGTCGAATTTATTAAAATGAATTTGGATATATG
66 TTTTGTTGACATTTT-AAATATCAATTTA-GATGTCAAATTTATTAAAATGAATTTGAATATATA
** * *
17396 TTTGTAATAAAAATTTGATTGAGA-TAT-CACT-TATTAATTAAACACCT-ATACAATTAA-GAA
129 TTCATAATAAAAATTTGATCGA-ATTATACAATCTATTAATTAAACA--TAAT-C-ATTAATGAA
*
17456 AAATGTAAAAAAATCAAATTCAAATAATTATACATAA-ACGAAAAAAATAAAATT
189 AAATAT-AAAAAATCAAATTCAAATAA-TA-ACATAATACGAAAAAAA-AAAATT
17510 TGGATAATAA
Statistics
Matches: 203, Mismatches: 27, Indels: 22
0.81 0.11 0.09
Matches are distributed among these distances:
276 13 0.06
277 11 0.05
278 23 0.11
279 68 0.33
280 88 0.43
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.39
Consensus pattern (277 bp):
TTGTTATTTCATGTAAACAACATACTATCCAAATTTATTAATAAAAATTTCAATTACAGAACATG
TTTTGTTGACATTTTAAATATCAATTTAGATGTCAAATTTATTAAAATGAATTTGAATATATATT
CATAATAAAAATTTGATCGAATTATACAATCTATTAATTAAACATAATCATTAATGAAAAATATA
AAAAATCAAATTCAAATAATAACATAATACGAAAAAAAAAAATTCAAACTAGATAATAATAAATG
ATGCTATTCATGGGTGT
Found at i:21489 original size:14 final size:14
Alignment explanation
Indices: 21470--21497 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
21460 AATTATATTT
21470 AAGGTTAAGGTTTA
1 AAGGTTAAGGTTTA
21484 AAGGTTAAGGTTTA
1 AAGGTTAAGGTTTA
21498 GTAGAGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.36, C:0.00, G:0.29, T:0.36
Consensus pattern (14 bp):
AAGGTTAAGGTTTA
Found at i:22303 original size:21 final size:21
Alignment explanation
Indices: 22268--22326 Score: 100
Period size: 21 Copynumber: 2.7 Consensus size: 21
22258 AATAAGAAAA
22268 TGACACCTTTTTCAAAAAAGTTT
1 TGACACC--TTTCAAAAAAGTTT
22291 TGACACCTTTCAAAAAAGTTT
1 TGACACCTTTCAAAAAAGTTT
22312 TGACACCTTTCAAAA
1 TGACACCTTTCAAAA
22327 TGACACCTTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
21 29 0.81
23 7 0.19
ACGTcount: A:0.37, C:0.20, G:0.08, T:0.34
Consensus pattern (21 bp):
TGACACCTTTCAAAAAAGTTT
Found at i:22543 original size:24 final size:24
Alignment explanation
Indices: 22511--22558 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
22501 TAACCATCCT
22511 TTGTTTTTACCTACAGGCCTGCAA
1 TTGTTTTTACCTACAGGCCTGCAA
22535 TTGTTTTTACCTACAGGCCTGCAA
1 TTGTTTTTACCTACAGGCCTGCAA
22559 CTTCATTATC
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:0.21, C:0.25, G:0.17, T:0.38
Consensus pattern (24 bp):
TTGTTTTTACCTACAGGCCTGCAA
Found at i:33710 original size:39 final size:38
Alignment explanation
Indices: 33636--33754 Score: 134
Period size: 39 Copynumber: 3.1 Consensus size: 38
33626 TTTAAAAAAT
* *
33636 AATTTATAAGGTTAAGATGAAATAATTTAAGAAATTAAG
1 AATTTAGAATGTT-AGATGAAATAATTTAAGAAATTAAG
* *
33675 AGTTTAGAATGTTATGATGGAATAATTTAAGAAATT-AG
1 AATTTAGAATGTTA-GATGAAATAATTTAAGAAATTAAG
* *
33713 TAATTTATAATGTTAGACTGAAATAATTTGAG-AATTAAG
1 -AATTTAGAATGTTAGA-TGAAATAATTTAAGAAATTAAG
33752 AAT
1 AAT
33755 ACAAATTTTA
Statistics
Matches: 68, Mismatches: 8, Indels: 9
0.80 0.09 0.11
Matches are distributed among these distances:
38 12 0.18
39 56 0.82
ACGTcount: A:0.46, C:0.01, G:0.17, T:0.36
Consensus pattern (38 bp):
AATTTAGAATGTTAGATGAAATAATTTAAGAAATTAAG
Found at i:36245 original size:23 final size:23
Alignment explanation
Indices: 36219--36287 Score: 84
Period size: 23 Copynumber: 3.0 Consensus size: 23
36209 CACCATAGCT
*
36219 CGTATAAATGCACCGAAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
* * *
36242 CGTAGAATTGTACCGAAGTGCCG
1 CGTAGAAATGCACCGAAGTGCCA
* *
36265 CGTAGAAATGCATCGTAGTGCCA
1 CGTAGAAATGCACCGAAGTGCCA
36288 TATAAGATGT
Statistics
Matches: 37, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCA
Found at i:36996 original size:22 final size:22
Alignment explanation
Indices: 36955--37020 Score: 109
Period size: 20 Copynumber: 3.0 Consensus size: 22
36945 CTCGTATAAA
36955 TGCACCGAAGTGCCCCGTAGAAT
1 TGCACCGAAGTG-CCCGTAGAAT
36978 TGCACCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
37000 TG--CCGAAGTGCCCGTAGAAT
1 TGCACCGAAGTGCCCGTAGAAT
37020 T
1 T
37021 AGTCCATAAG
Statistics
Matches: 43, Mismatches: 0, Indels: 3
0.93 0.00 0.07
Matches are distributed among these distances:
20 19 0.44
22 12 0.28
23 12 0.28
ACGTcount: A:0.26, C:0.27, G:0.27, T:0.20
Consensus pattern (22 bp):
TGCACCGAAGTGCCCGTAGAAT
Found at i:37338 original size:29 final size:29
Alignment explanation
Indices: 37296--37364 Score: 111
Period size: 29 Copynumber: 2.4 Consensus size: 29
37286 TTTTCTGCAT
**
37296 ATTCATGTCATGTAATACATATAATATGA
1 ATTCATGTCATGTAATACATATAATACAA
*
37325 ATTCATGTCATGTAATACATTTAATACAA
1 ATTCATGTCATGTAATACATATAATACAA
37354 ATTCATGTCAT
1 ATTCATGTCAT
37365 CATAATATGG
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
29 37 1.00
ACGTcount: A:0.39, C:0.13, G:0.09, T:0.39
Consensus pattern (29 bp):
ATTCATGTCATGTAATACATATAATACAA
Found at i:37815 original size:63 final size:64
Alignment explanation
Indices: 37657--37824 Score: 189
Period size: 63 Copynumber: 2.6 Consensus size: 64
37647 CTTTTCTCAT
* * * * *
37657 GGGGGAATCGGTTCCCCCCTGGGGGTATCGATTCTCTCAAGCAATCTGGAATTTCATATACGATG
1 GGGGGTATCGGTT-CCCCCTGGGGGTACCGATTC-CCCTAGCAATCTGGAAATTCATATACGATG
37722 A
64 A
* *
37723 GGGGGTATCGGTTCCCCCCTGGGGGTACCGATTCCCCTAGCATTCTGGAAATTCAT-T-CGTTGA
1 GGGGGTATCGGTT-CCCCCTGGGGGTACCGATTCCCCTAGCAATCTGGAAATTCATATACGATGA
* *
37786 GGGGGTATCGGTT-CCCTTGAATGGGTACCGATTCCCCTA
1 GGGGGTATCGGTTCCCCCTG--GGGGTACCGATTCCCCTA
37825 ACCAGAAATC
Statistics
Matches: 91, Mismatches: 9, Indels: 7
0.85 0.08 0.07
Matches are distributed among these distances:
61 5 0.05
63 35 0.38
64 1 0.01
65 18 0.20
66 32 0.35
ACGTcount: A:0.18, C:0.25, G:0.29, T:0.28
Consensus pattern (64 bp):
GGGGGTATCGGTTCCCCCTGGGGGTACCGATTCCCCTAGCAATCTGGAAATTCATATACGATGA
Found at i:41366 original size:23 final size:23
Alignment explanation
Indices: 41340--41402 Score: 90
Period size: 23 Copynumber: 2.7 Consensus size: 23
41330 GACATTATAT
41340 GGCACTTCGGTGCATTTCTACGC
1 GGCACTTCGGTGCATTTCTACGC
** * *
41363 GGCACTAAGGTGCAATTCTACGT
1 GGCACTTCGGTGCATTTCTACGC
41386 GGCACTTCGGTGCATTT
1 GGCACTTCGGTGCATTT
41403 ATATGAGTTG
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.17, C:0.25, G:0.27, T:0.30
Consensus pattern (23 bp):
GGCACTTCGGTGCATTTCTACGC
Found at i:46264 original size:38 final size:38
Alignment explanation
Indices: 46212--46286 Score: 114
Period size: 38 Copynumber: 2.0 Consensus size: 38
46202 AGCAGCAGTT
* *
46212 ACATCACATTAGTAACATGGAAAACTACTAGATCTGTA
1 ACATCACATGAGTAACATGGAAAACTACTAAATCTGTA
* *
46250 ACATCACATGAGTAACATGGACAACTATTAAATCTGT
1 ACATCACATGAGTAACATGGAAAACTACTAAATCTGT
46287 GCCATCCTAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
38 33 1.00
ACGTcount: A:0.41, C:0.19, G:0.13, T:0.27
Consensus pattern (38 bp):
ACATCACATGAGTAACATGGAAAACTACTAAATCTGTA
Found at i:51608 original size:21 final size:23
Alignment explanation
Indices: 51557--51608 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 23
51547 CATCATTCAA
*
51557 TAAATTTTTATATCGTATATTATT
1 TAAATTTTTAAATC-TATATTATT
**
51581 TCTATTTTTAAAT-TA-ATTATT
1 TAAATTTTTAAATCTATATTATT
51602 TAAATTT
1 TAAATTT
51609 AATTTATTAA
Statistics
Matches: 23, Mismatches: 5, Indels: 3
0.74 0.16 0.10
Matches are distributed among these distances:
21 11 0.48
22 2 0.09
24 10 0.43
ACGTcount: A:0.35, C:0.04, G:0.02, T:0.60
Consensus pattern (23 bp):
TAAATTTTTAAATCTATATTATT
Found at i:51797 original size:15 final size:15
Alignment explanation
Indices: 51753--51803 Score: 61
Period size: 15 Copynumber: 3.5 Consensus size: 15
51743 TAATTTGAGA
51753 TTATAAATAATAAAT
1 TTATAAATAATAAAT
* *
51768 ATTA-AGAT-TTAAAT
1 -TTATAAATAATAAAT
51782 TTATAAATAATAAAT
1 TTATAAATAATAAAT
51797 TTATAAA
1 TTATAAA
51804 AATGAACAAA
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
13 3 0.10
14 8 0.28
15 15 0.52
16 3 0.10
ACGTcount: A:0.57, C:0.00, G:0.02, T:0.41
Consensus pattern (15 bp):
TTATAAATAATAAAT
Found at i:53387 original size:2 final size:2
Alignment explanation
Indices: 53380--53410 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
53370 ACAGTGTATT
53380 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
53411 CTTTTATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Done.