Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005793.1 Hibiscus syriacus cultivar Beakdansim tig00013581_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: 56548
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Found at i:3276 original size:231 final size:230
Alignment explanation
Indices: 2872--3334 Score: 809
Period size: 231 Copynumber: 2.0 Consensus size: 230
2862 AGTTAAGTTT
*
2872 TAAGGGTTGAAATGACTTAAAGGTATGGAGTTTATATAAGTTTTGATAAATTTTCGGGTTAAAAC
1 TAAGGGTTGAAAGGACTTAAAGGTATGGAGTTTATATAAGTTTTGATAAATTTTCGGGTTAAAAC
*
2937 AAGTAAGTTATGGGCAAGAGGTATCGGTACTGGGTGAACAATACCAACACTTAAAGGCAAAAATA
66 AAGTAAGTTATGGGCAAGAGGTATCGGTACTGGATGAACAATACCAACACTTAAAGGCAAAAATA
* *
3002 AGTGATGTCTTGGTATGGGTATCGATACTGGATGAACAATATCGATACCTTAAGGTAGAAGTGGA
131 AGTGATATCTTGGTATGGGTATCGAAACTGGATGAACAATATCGATACCTTAAGGTAGAAGTGGA
3067 TGAATTCTTCAAAGAGTATCGATACCAAAGTAGTAG
196 TGAATTCTTC-AAGAGTATCGATACCAAAGTAGTAG
* *
3103 TAAGGGTTGAAAGGACTTAAAGGTATGGAGTTTATATAAGTTTTGGTAAATTTTCGGGTTAAAAT
1 TAAGGGTTGAAAGGACTTAAAGGTATGGAGTTTATATAAGTTTTGATAAATTTTCGGGTTAAAAC
* *
3168 GAGTAAGTTATGGGCAAGAGGTATCGGTACTGGATGAACAGTACCAACACTTAAAGGCAAAAATA
66 AAGTAAGTTATGGGCAAGAGGTATCGGTACTGGATGAACAATACCAACACTTAAAGGCAAAAATA
* * *
3233 GGTGATATCTTGGTCTGGGTATCGAAACTGGATGAATAATATCGATACCTTAAGGTAGAAGTGGA
131 AGTGATATCTTGGTATGGGTATCGAAACTGGATGAACAATATCGATACCTTAAGGTAGAAGTGGA
*
3298 TGAATTCTTCAAGAGTATCGATATCAAAGTAGTAG
196 TGAATTCTTCAAGAGTATCGATACCAAAGTAGTAG
3333 TA
1 TA
3335 TCGATACTAA
Statistics
Matches: 220, Mismatches: 12, Indels: 1
0.94 0.05 0.00
Matches are distributed among these distances:
230 26 0.12
231 194 0.88
ACGTcount: A:0.36, C:0.10, G:0.25, T:0.29
Consensus pattern (230 bp):
TAAGGGTTGAAAGGACTTAAAGGTATGGAGTTTATATAAGTTTTGATAAATTTTCGGGTTAAAAC
AAGTAAGTTATGGGCAAGAGGTATCGGTACTGGATGAACAATACCAACACTTAAAGGCAAAAATA
AGTGATATCTTGGTATGGGTATCGAAACTGGATGAACAATATCGATACCTTAAGGTAGAAGTGGA
TGAATTCTTCAAGAGTATCGATACCAAAGTAGTAG
Found at i:4213 original size:23 final size:23
Alignment explanation
Indices: 4187--4270 Score: 87
Period size: 23 Copynumber: 3.7 Consensus size: 23
4177 AAGTAGAGGG
* *
4187 TTCTACGCGGTCATTTGGGGCAA
1 TTCTACGCGGTCCTTTGGGACAA
* * *
4210 TTCTACGTGGTCCTTCGGGACAT
1 TTCTACGCGGTCCTTTGGGACAA
*
4233 TTCTACGCGATCCTTTGGGACAA
1 TTCTACGCGGTCCTTTGGGACAA
* * *
4256 TACTATGAGGTCCTT
1 TTCTACGCGGTCCTT
4271 CAGGACATTT
Statistics
Matches: 48, Mismatches: 13, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.18, C:0.24, G:0.25, T:0.33
Consensus pattern (23 bp):
TTCTACGCGGTCCTTTGGGACAA
Found at i:4268 original size:46 final size:46
Alignment explanation
Indices: 4187--4283 Score: 131
Period size: 46 Copynumber: 2.1 Consensus size: 46
4177 AAGTAGAGGG
* * * * *
4187 TTCTACGCGGTCATTTGGGGCAATTCTACGTGGTCCTTCGGGACAT
1 TTCTACGCGATCATTTGGGACAATACTACGAGGTCCTTCAGGACAT
* *
4233 TTCTACGCGATCCTTTGGGACAATACTATGAGGTCCTTCAGGACAT
1 TTCTACGCGATCATTTGGGACAATACTACGAGGTCCTTCAGGACAT
4279 TTCTA
1 TTCTA
4284 TGTGGCACTT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
46 44 1.00
ACGTcount: A:0.20, C:0.24, G:0.24, T:0.33
Consensus pattern (46 bp):
TTCTACGCGATCATTTGGGACAATACTACGAGGTCCTTCAGGACAT
Found at i:4284 original size:23 final size:23
Alignment explanation
Indices: 4218--4285 Score: 73
Period size: 23 Copynumber: 3.0 Consensus size: 23
4208 AATTCTACGT
* *
4218 GGTCCTTCGGGACATTTCTACGC
1 GGTCCTTCGGGACATTTCTATGA
* * * *
4241 GATCCTTTGGGACAATACTATGA
1 GGTCCTTCGGGACATTTCTATGA
*
4264 GGTCCTTCAGGACATTTCTATG
1 GGTCCTTCGGGACATTTCTATG
4286 TGGCACTTCG
Statistics
Matches: 34, Mismatches: 11, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.21, C:0.24, G:0.24, T:0.32
Consensus pattern (23 bp):
GGTCCTTCGGGACATTTCTATGA
Found at i:4487 original size:31 final size:31
Alignment explanation
Indices: 4452--4511 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
4442 TGTTGATAAT
*
4452 GATGATGAGAACAAATGTTGATAATGATATC
1 GATGATGAGAACAAATATTGATAATGATATC
*
4483 GATGATGAGAACATATATTGATAATGATA
1 GATGATGAGAACAAATATTGATAATGATA
4512 ATGATGTTGA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.43, C:0.05, G:0.22, T:0.30
Consensus pattern (31 bp):
GATGATGAGAACAAATATTGATAATGATATC
Found at i:4515 original size:25 final size:25
Alignment explanation
Indices: 4444--4515 Score: 63
Period size: 31 Copynumber: 2.6 Consensus size: 25
4434 GTGAATGATG
* *
4444 TTGATAATGATGATGAGAACAAATG
1 TTGATAATGATAATGAGAACAAATA
*
4469 TTGATAATGATATCGATGATGAGAACATATA
1 TTGATAATG--AT--A--ATGAGAACAAATA
4500 TTGATAATGATAATGA
1 TTGATAATGATAATGA
4516 TGTTGATACT
Statistics
Matches: 38, Mismatches: 3, Indels: 12
0.72 0.06 0.23
Matches are distributed among these distances:
25 13 0.34
27 3 0.08
29 2 0.05
31 20 0.53
ACGTcount: A:0.43, C:0.04, G:0.21, T:0.32
Consensus pattern (25 bp):
TTGATAATGATAATGAGAACAAATA
Found at i:4523 original size:18 final size:18
Alignment explanation
Indices: 4500--4540 Score: 64
Period size: 18 Copynumber: 2.3 Consensus size: 18
4490 AGAACATATA
4500 TTGATAATGATAATGATG
1 TTGATAATGATAATGATG
*
4518 TTGATACTGATAATGATG
1 TTGATAATGATAATGATG
*
4536 ATGAT
1 TTGAT
4541 GACGTGTGTA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.37, C:0.02, G:0.22, T:0.39
Consensus pattern (18 bp):
TTGATAATGATAATGATG
Found at i:5454 original size:2 final size:2
Alignment explanation
Indices: 5447--5480 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
5437 CAAGAATAAC
5447 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
5481 CAAATACAAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:6555 original size:21 final size:21
Alignment explanation
Indices: 6529--6574 Score: 83
Period size: 21 Copynumber: 2.2 Consensus size: 21
6519 GTTAATTCTG
6529 TCGGCCACCGAATTAGTTCGA
1 TCGGCCACCGAATTAGTTCGA
*
6550 TCGGCCACCGAATTAGTTCGG
1 TCGGCCACCGAATTAGTTCGA
6571 TCGG
1 TCGG
6575 GGAACGGTTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 24 1.00
ACGTcount: A:0.20, C:0.28, G:0.28, T:0.24
Consensus pattern (21 bp):
TCGGCCACCGAATTAGTTCGA
Found at i:6974 original size:186 final size:186
Alignment explanation
Indices: 6660--7017 Score: 644
Period size: 186 Copynumber: 1.9 Consensus size: 186
6650 ATTTTAAATT
*
6660 TTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAATCCAATTAATAATTTAA
1 TTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAA
6725 GATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTACATAAAATTTTTATT
66 GATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTACATAAAATTTTTATT
*
6790 TTATAATTATATATTATTTAAATTAATTGTAAACTGTTTTTTTGAATTAAAAAAAA
131 TTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTGAATTAAAAAAAA
* * *
6846 TTAAATATATTATATATAACTTATGGGCTCATCCCAAATCATTTAAAACCCAATTAATAATTTAA
1 TTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAA
* * *
6911 GATTCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAGTTTATATAAAATTTTTATT
66 GATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTACATAAAATTTTTATT
6976 TTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTT
131 TTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTT
7018 AATTATAAAA
Statistics
Matches: 164, Mismatches: 8, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
186 164 1.00
ACGTcount: A:0.44, C:0.09, G:0.04, T:0.42
Consensus pattern (186 bp):
TTAAATATATTATATATAACATATGGGCTCAGCCCAAACCATTTAAAACCCAATTAATAATTTAA
GATCCAATAACTTTTAAACCTAAATCAATATTAATTAATTAAAAAATTTACATAAAATTTTTATT
TTATAATTATATATTATTTAAATTAATTATAAACTGTTTTTTTGAATTAAAAAAAA
Found at i:8923 original size:132 final size:133
Alignment explanation
Indices: 8754--9073 Score: 389
Period size: 139 Copynumber: 2.4 Consensus size: 133
8744 TGGCCATAAG
* *
8754 ATCAAGAATCTTATGCAATATCTTCTGATACTAGTTAGTAAATGGGTGTTTAGTTAGTT-A-ATT
1 ATCAAGAATCTTATGCAATATCTTCTGATACTAGTTAGT-AATTGGTGTTTAGTTAATTCATATT
* **
8817 TTTC-TTC-AGATTATTGCTATT-TGCAGAAGCACTGAGCATTTTGTATATGTTTAGTCATATAA
65 TTTCTTTCTAGATTATTGCTATTGT-CAGAAGCACCGAGCA-TTTG-ATATGTTTAACCATATAA
*
8879 CCAAAAC
127 CCAAAAA
* *
8886 ATCAAGAATCTTATGCAATATCTTCTGATAGTAGTTAGTAATTGGTGTTTAGTTAATTCATTTTT
1 ATCAAGAATCTTATGCAATATCTTCTGATACTAGTTAGTAATTGGTGTTTAGTTAATTCATATTT
* * *
8951 TTCTTTTTTTCTTTTGATTATTGCTATTGTCCGAAGCACCGAGCATTTGGTATGTTTAACCATAT
66 TTC----TTTC--TAGATTATTGCTATTGTCAGAAGCACCGAGCATTTGATATGTTTAACCATAT
* *
9016 AGCGAAAAA
125 AACCAAAAA
*
9025 ATCAAGAATCTTATGCAATATCTTCTGATACTAGTTGGTAATTGGTGTT
1 ATCAAGAATCTTATGCAATATCTTCTGATACTAGTTAGTAATTGGTGTT
9074 CAGTCAAATT
Statistics
Matches: 162, Mismatches: 15, Indels: 15
0.84 0.08 0.08
Matches are distributed among these distances:
131 17 0.10
132 39 0.24
133 6 0.04
138 3 0.02
139 66 0.41
140 4 0.02
141 26 0.16
142 1 0.01
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.42
Consensus pattern (133 bp):
ATCAAGAATCTTATGCAATATCTTCTGATACTAGTTAGTAATTGGTGTTTAGTTAATTCATATTT
TTCTTTCTAGATTATTGCTATTGTCAGAAGCACCGAGCATTTGATATGTTTAACCATATAACCAA
AAA
Found at i:10734 original size:14 final size:14
Alignment explanation
Indices: 10715--10755 Score: 55
Period size: 15 Copynumber: 2.9 Consensus size: 14
10705 GATAAACAAA
10715 TTAAAATTTAATTT
1 TTAAAATTTAATTT
*
10729 TTAAAATTAAAATTT
1 TTAAAATT-TAATTT
*
10744 TTAAAGTTTAAT
1 TTAAAATTTAAT
10756 AACAAAATTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.51
Consensus pattern (14 bp):
TTAAAATTTAATTT
Found at i:34088 original size:21 final size:21
Alignment explanation
Indices: 34064--34162 Score: 62
Period size: 21 Copynumber: 4.8 Consensus size: 21
34054 TCTCAAACAG
34064 TTATAAAATAATCATTAAATC
1 TTATAAAATAATCATTAAATC
* * * *
34085 TTATCAAATTATTATAAAAGTC
1 TTATAAAATAATCATTAAA-TC
* * * *
34107 AT-TAAAATTATCA--AATTA
1 TTATAAAATAATCATTAAATC
*
34125 TTATAAAATAATCTTTAAAT-
1 TTATAAAATAATCATTAAATC
*
34145 TTATCAAAAAAATCATTA
1 TTAT-AAAATAATCATTA
34163 TTTTATAATA
Statistics
Matches: 58, Mismatches: 15, Indels: 10
0.70 0.18 0.12
Matches are distributed among these distances:
18 2 0.03
19 11 0.19
20 4 0.07
21 38 0.66
22 3 0.05
ACGTcount: A:0.52, C:0.08, G:0.01, T:0.39
Consensus pattern (21 bp):
TTATAAAATAATCATTAAATC
Found at i:34118 original size:29 final size:30
Alignment explanation
Indices: 34075--34132 Score: 100
Period size: 29 Copynumber: 2.0 Consensus size: 30
34065 TATAAAATAA
*
34075 TCATTAAATCTTATCAAATTATTATAAAAG
1 TCATTAAATATTATCAAATTATTATAAAAG
34105 TCATTAAA-ATTATCAAATTATTATAAAA
1 TCATTAAATATTATCAAATTATTATAAAA
34133 TAATCTTTAA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
29 19 0.70
30 8 0.30
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.40
Consensus pattern (30 bp):
TCATTAAATATTATCAAATTATTATAAAAG
Found at i:34149 original size:31 final size:31
Alignment explanation
Indices: 34032--34152 Score: 140
Period size: 31 Copynumber: 3.9 Consensus size: 31
34022 AAACTTTAAA
* * * *
34032 ATTATAAACTAATCATTAAAGTTCTCAAA-C
1 ATTATAAAATAATCATTAAATTTATCAAATT
34062 AGTTATAAAATAATCATTAAATCTTATCAAATT
1 A-TTATAAAATAATCATTAAAT-TTATCAAATT
* *
34095 ATTAT-AAA-AGTCATTAAAATTATCAAATT
1 ATTATAAAATAATCATTAAATTTATCAAATT
*
34124 ATTATAAAATAATCTTTAAATTTATCAAA
1 ATTATAAAATAATCATTAAATTTATCAAA
34153 AAAATCATTA
Statistics
Matches: 77, Mismatches: 9, Indels: 9
0.81 0.09 0.09
Matches are distributed among these distances:
29 15 0.19
30 13 0.17
31 37 0.48
32 11 0.14
33 1 0.01
ACGTcount: A:0.50, C:0.10, G:0.02, T:0.38
Consensus pattern (31 bp):
ATTATAAAATAATCATTAAATTTATCAAATT
Found at i:35990 original size:17 final size:18
Alignment explanation
Indices: 35957--35990 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
35947 CCGTTATTAG
35957 TGAACCGGTCGAAACCGC
1 TGAACCGGTCGAAACCGC
*
35975 TGAACCGTTC-AAACCG
1 TGAACCGGTCGAAACCG
35991 GACCGGCTGA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.29, C:0.32, G:0.24, T:0.15
Consensus pattern (18 bp):
TGAACCGGTCGAAACCGC
Found at i:44848 original size:2 final size:2
Alignment explanation
Indices: 44841--44879 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
44831 GGCACAACGT
44841 TA TA TA TA TA TA 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 TA TA TA TA TA TA T
44880 GTACAATGTC
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:45354 original size:14 final size:14
Alignment explanation
Indices: 45335--45374 Score: 55
Period size: 14 Copynumber: 2.9 Consensus size: 14
45325 AAATTCGACT
*
45335 ATTTATTTTTATTA
1 ATTTATTTTTAATA
*
45349 ATTTATTATTAATA
1 ATTTATTTTTAATA
45363 ATTT-TTTTTAAT
1 ATTTATTTTTAAT
45375 CTTTAAAAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
13 7 0.30
14 16 0.70
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (14 bp):
ATTTATTTTTAATA
Found at i:46049 original size:48 final size:47
Alignment explanation
Indices: 45975--46066 Score: 175
Period size: 48 Copynumber: 1.9 Consensus size: 47
45965 CTTATCTCTC
45975 AGTTTTATTCATTTTTGTCACTGATTTCAAAATACATAAGATATTTT
1 AGTTTTATTCATTTTTGTCACTGATTTCAAAATACATAAGATATTTT
46022 AGTTTTATTCATTTTTTGTCACTGATTTCAAAATACATAAGATAT
1 AGTTTTATTCA-TTTTTGTCACTGATTTCAAAATACATAAGATAT
46067 GGTTACTTAC
Statistics
Matches: 44, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
47 11 0.25
48 33 0.75
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.48
Consensus pattern (47 bp):
AGTTTTATTCATTTTTGTCACTGATTTCAAAATACATAAGATATTTT
Found at i:46589 original size:23 final size:22
Alignment explanation
Indices: 46537--46593 Score: 60
Period size: 23 Copynumber: 2.5 Consensus size: 22
46527 ATTATTTCAC
*
46537 TCTAACATTCTGAAATCATAATT
1 TCTAA-ATTCTGAAATCATAAGT
* *
46560 TCTTAAATTTTGACATCATAACGT
1 TC-TAAATTCTGAAATCATAA-GT
46584 TCTAAATTCT
1 TCTAAATTCT
46594 TAATTTCTTA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 22 0.79
24 6 0.21
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (22 bp):
TCTAAATTCTGAAATCATAAGT
Found at i:46708 original size:24 final size:24
Alignment explanation
Indices: 46664--46709 Score: 58
Period size: 24 Copynumber: 1.9 Consensus size: 24
46654 TTTTAAAAAC
* *
46664 ATTTTAATTTTATTTATATTTTTT
1 ATTTTAATTTTATATAAATTTTTT
46688 ATTTTAAATTTTA-ATAAATTTT
1 ATTTT-AATTTTATATAAATTTT
46710 ATTTCAATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
24 12 0.63
25 7 0.37
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (24 bp):
ATTTTAATTTTATATAAATTTTTT
Found at i:46933 original size:25 final size:24
Alignment explanation
Indices: 46882--46953 Score: 87
Period size: 21 Copynumber: 3.0 Consensus size: 24
46872 TAATCTTCTA
46882 TATATTAACTTA--AAATAT-TTT
1 TATATTAACTTATTAAATATATTT
46903 TATATTAACTTATTAAATATATTT
1 TATATTAACTTATTAAATATATTT
*
46927 TACTATTAACTTAATTTAAAAATATTT
1 TA-TATTAACTT-A-TTAAATATATTT
46954 CATTTTCATT
Statistics
Matches: 44, Mismatches: 1, Indels: 6
0.86 0.02 0.12
Matches are distributed among these distances:
21 12 0.27
23 6 0.14
24 5 0.11
25 9 0.20
26 1 0.02
27 11 0.25
ACGTcount: A:0.43, C:0.06, G:0.00, T:0.51
Consensus pattern (24 bp):
TATATTAACTTATTAAATATATTT
Found at i:48156 original size:3 final size:3
Alignment explanation
Indices: 48150--48181 Score: 55
Period size: 3 Copynumber: 10.3 Consensus size: 3
48140 AATAAATAGC
48150 ATT ATT AATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT -ATT ATT ATT ATT ATT ATT ATT ATT A
48182 ATTACGATAA
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
3 25 0.89
4 3 0.11
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (3 bp):
ATT
Found at i:54490 original size:17 final size:17
Alignment explanation
Indices: 54460--54494 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
54450 ATATGTCGAT
54460 TTAATAATATTTTTTAA
1 TTAATAATATTTTTTAA
54477 TTAA-AATATATTTTTAA
1 TTAATAATAT-TTTTTAA
54494 T
1 T
54495 CATAAGGGTC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (17 bp):
TTAATAATATTTTTTAA
Done.