Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005612.1 Hibiscus syriacus cultivar Beakdansim tig00013049_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: 40050
ACGTcount: A:0.31, C:0.20, G:0.17, T:0.32
Found at i:563 original size:87 final size:90
Alignment explanation
Indices: 368--579 Score: 276
Period size: 86 Copynumber: 2.4 Consensus size: 90
358 TGGTCGTAAG
* * * *
368 GTGACACGGCTCCTACGTGATGAGGAAATCTGGTCATCTTTAGGAAGGGTGATAACTCGTTTCCT
1 GTGACACGGCTCTTACGTGATGAAG-AATCTGGCCATC-TTA-GAAGGGTGATAACTCGGTTCCT
433 ACGTGATGAGGACGGCTGTTATCCTAAT
63 ACGTGATGAGGACGGCTGTTATCCTAAT
461 GTGACACGGCTCTTACGTGATGAAGAATCTGGCCATC-TA-AA-GGTGAT-ACAT-GGTTCCTAC
1 GTGACACGGCTCTTACGTGATGAAGAATCTGGCCATCTTAGAAGGGTGATAAC-TCGGTTCCTAC
521 -TGATGAGGACGGCTGGTTATCCTAAT
65 GTGATGAGGACGGCT-GTTATCCTAAT
547 GTTGACACGGCTCTTAC-TGATGAAGAGATCTGG
1 G-TGACACGGCTCTTACGTGATGAAGA-ATCTGG
580 TCCAGGGGAT
Statistics
Matches: 111, Mismatches: 4, Indels: 14
0.86 0.03 0.11
Matches are distributed among these distances:
85 14 0.13
86 31 0.28
87 28 0.25
88 2 0.02
90 2 0.02
92 11 0.10
93 23 0.21
ACGTcount: A:0.25, C:0.19, G:0.28, T:0.28
Consensus pattern (90 bp):
GTGACACGGCTCTTACGTGATGAAGAATCTGGCCATCTTAGAAGGGTGATAACTCGGTTCCTACG
TGATGAGGACGGCTGTTATCCTAAT
Found at i:565 original size:43 final size:42
Alignment explanation
Indices: 436--569 Score: 121
Period size: 43 Copynumber: 3.1 Consensus size: 42
426 GTTTCCTACG
436 TGATGAGGACGGCT-GTTATCCTAATGTGACACGGCTCTTAC
1 TGATGAGGACGGCTGGTTATCCTAATGTGACACGGCTCTTAC
* ** ** * * * *
477 GTGATGAAGA-ATCTGGCCAT-CTAAAGGTGATACATGGTTCCTAC
1 -TGATGAGGACGGCTGGTTATCCT-AATGTG--ACACGGCTCTTAC
521 TGATGAGGACGGCTGGTTATCCTAATGTTGACACGGCTCTTAC
1 TGATGAGGACGGCTGGTTATCCTAATG-TGACACGGCTCTTAC
564 TGATGA
1 TGATGA
570 AGAGATCTGG
Statistics
Matches: 67, Mismatches: 18, Indels: 13
0.68 0.18 0.13
Matches are distributed among these distances:
41 4 0.06
42 16 0.24
43 24 0.36
44 19 0.28
45 4 0.06
ACGTcount: A:0.25, C:0.19, G:0.27, T:0.29
Consensus pattern (42 bp):
TGATGAGGACGGCTGGTTATCCTAATGTGACACGGCTCTTAC
Found at i:12274 original size:13 final size:14
Alignment explanation
Indices: 12241--12278 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
12231 AAAATGTTAG
12241 TACATAAAAATAAA
1 TACATAAAAATAAA
* *
12255 GAAATAAAAAT-AA
1 TACATAAAAATAAA
12268 TACATAAAAAT
1 TACATAAAAAT
12279 TCAATAAATA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.71, C:0.05, G:0.03, T:0.21
Consensus pattern (14 bp):
TACATAAAAATAAA
Found at i:19125 original size:37 final size:37
Alignment explanation
Indices: 19035--19136 Score: 123
Period size: 37 Copynumber: 2.8 Consensus size: 37
19025 CCTTTTCGTC
*
19035 CTACTATGATTCAAACTCCTAAAAATAGGATAGAATT
1 CTACTATGATTCAAACTCCTAAAAATAGAATAGAATT
* * * *
19072 TTGCTAGGATTCAAACTCCTAAAAATAGAATAGAGTT
1 CTACTATGATTCAAACTCCTAAAAATAGAATAGAATT
* * * *
19109 CTACTATTATTTAAACTCATAAAGATAG
1 CTACTATGATTCAAACTCCTAAAAATAG
19137 GATCTACAAG
Statistics
Matches: 53, Mismatches: 12, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
37 53 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (37 bp):
CTACTATGATTCAAACTCCTAAAAATAGAATAGAATT
Found at i:19601 original size:20 final size:21
Alignment explanation
Indices: 19557--19601 Score: 58
Period size: 20 Copynumber: 2.2 Consensus size: 21
19547 TATTGTATAT
*
19557 ATTTAATTATATTTTTTATTT
1 ATTTAATTATATTTTTTATTC
19578 ATTT-ATTATAATTTTTT-TTC
1 ATTTAATTAT-ATTTTTTATTC
19598 ATTT
1 ATTT
19602 TTCTTTGCGT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
20 11 0.50
21 11 0.50
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (21 bp):
ATTTAATTATATTTTTTATTC
Found at i:19656 original size:24 final size:24
Alignment explanation
Indices: 19611--19667 Score: 62
Period size: 24 Copynumber: 2.4 Consensus size: 24
19601 TTTCTTTGCG
* *
19611 TTATATTATATTATTTTCTTATTA
1 TTATATTATATTATTATATTATTA
*
19635 TTATA-TATATATATTATATTATTT
1 TTATATTATAT-TATTATATTATTA
*
19659 TTATTTTAT
1 TTATATTAT
19668 CTATGTTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
23 5 0.19
24 19 0.70
25 3 0.11
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.67
Consensus pattern (24 bp):
TTATATTATATTATTATATTATTA
Found at i:19864 original size:2 final size:2
Alignment explanation
Indices: 19842--19885 Score: 63
Period size: 2 Copynumber: 22.5 Consensus size: 2
19832 AGTATTTTAT
* *
19842 TA TA T- TA TA CA TA TA TT 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
19883 TA T
1 TA T
19886 TTTATTATTT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
1 1 0.03
2 36 0.97
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:24380 original size:14 final size:15
Alignment explanation
Indices: 24354--24401 Score: 57
Period size: 14 Copynumber: 3.3 Consensus size: 15
24344 GGGCAAAAAT
24354 AAAAAAGAAAAGAAGC
1 AAAAAAG-AAAGAAGC
*
24370 AAAAAAG-AAG-AGA
1 AAAAAAGAAAGAAGC
24383 AAAAAAGAAAGAA-C
1 AAAAAAGAAAGAAGC
24397 AAAAA
1 AAAAA
24402 TCAAAAGAAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
13 9 0.32
14 11 0.39
15 1 0.04
16 7 0.25
ACGTcount: A:0.79, C:0.04, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAAAGAAAGAAGC
Found at i:24409 original size:29 final size:28
Alignment explanation
Indices: 24354--24413 Score: 70
Period size: 29 Copynumber: 2.1 Consensus size: 28
24344 GGGCAAAAAT
*
24354 AAAAAAGAAAAGAAGCAAAAAAGAAGAGA
1 AAAAAAGAAAAGAAGCAAAAAAAAAGA-A
24383 AAAAAAG-AAAGAA-CAAAAATCAAAAGAA
1 AAAAAAGAAAAGAAGCAAAAA--AAAAGAA
24411 AAA
1 AAA
24414 GGACAAAAAG
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
27 6 0.21
28 10 0.36
29 12 0.43
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (28 bp):
AAAAAAGAAAAGAAGCAAAAAAAAAGAA
Found at i:24410 original size:27 final size:29
Alignment explanation
Indices: 24354--24413 Score: 79
Period size: 27 Copynumber: 2.1 Consensus size: 29
24344 GGGCAAAAAT
* *
24354 AAAAAAGAAAAGAAGCAAAAAAGAAGAGA
1 AAAAAAGAAAAGAAGCAAAAAACAAAAGA
*
24383 AAAAAAG-AAAGAA-CAAAAATCAAAAGA
1 AAAAAAGAAAAGAAGCAAAAAACAAAAGA
24410 AAAA
1 AAAA
24414 GGACAAAAAG
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 15 0.54
28 6 0.21
29 7 0.25
ACGTcount: A:0.78, C:0.05, G:0.15, T:0.02
Consensus pattern (29 bp):
AAAAAAGAAAAGAAGCAAAAAACAAAAGA
Found at i:25043 original size:22 final size:22
Alignment explanation
Indices: 25015--25069 Score: 101
Period size: 22 Copynumber: 2.5 Consensus size: 22
25005 GCTACCCCAT
*
25015 CAAACCTTTGAGCATCAAATGC
1 CAAACCTTTGAGCATCAAATAC
25037 CAAACCTTTGAGCATCAAATAC
1 CAAACCTTTGAGCATCAAATAC
25059 CAAACCTTTGA
1 CAAACCTTTGA
25070 CCAAACACAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 32 1.00
ACGTcount: A:0.38, C:0.27, G:0.11, T:0.24
Consensus pattern (22 bp):
CAAACCTTTGAGCATCAAATAC
Found at i:25506 original size:18 final size:19
Alignment explanation
Indices: 25483--25520 Score: 69
Period size: 18 Copynumber: 2.1 Consensus size: 19
25473 TCAACATCAA
25483 ATATTGGGGCATT-TTTGG
1 ATATTGGGGCATTATTTGG
25501 ATATTGGGGCATTATTTGG
1 ATATTGGGGCATTATTTGG
25520 A
1 A
25521 GATTCAACAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.21, C:0.05, G:0.32, T:0.42
Consensus pattern (19 bp):
ATATTGGGGCATTATTTGG
Found at i:27305 original size:106 final size:106
Alignment explanation
Indices: 26030--27304 Score: 1942
Period size: 106 Copynumber: 12.0 Consensus size: 106
26020 ATATCGTGCC
* * * * *
26030 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACAGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
26095 AAATTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
** * *
26136 ACAACAGACAACACAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
26201 AATTTCAGACCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
26242 ACTCCAGACAACGCAAGTTCAACTTCACGATGAAGGGACCGCTGGTTGTCAATAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* *
26307 AATTTCAGAGCCAATTTTAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * * * * * *
26348 ACTCAAGACAACGCAAGTTCAACTTTATGACGAAAGGACCGTTGGTTGTCAATAAATAACTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
26413 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
26454 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAATAAACAACTTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
26519 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
26560 ACTCCAGATAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCA
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
26625 AATTTCAGAGCCAATTTCAACTTCACAACGAAGAATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
26666 ACTCGAGACAACGCAAGTTCAACTTCACGACGAA-GGACCGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
** * *
26730 AATTTTGGAGCCAATTTCAACTTCACAGCGAAAGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
26771 ACTCCAGACAACGCAAGTTCAACTTCATGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
26836 AATTTC-GAAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAG-AGCCAATTTCAACTTCACAACGAAGGATATTGG
* * *
26877 ACTCCAAACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAAATTCTC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
*
26942 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATGTTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
*
26983 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCT
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
27048 AATTTCAGAGTCAATTTCAACTTCACAGCGAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* *
27089 ACTCGAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * *
27154 AATTTCGGAGCCAATTTCAACTTCACAACAAAGGATATTAG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
* ** * * * * * *
27195 ACTCGAGACAACATAAGTTCAACTTTACAACGAAGAGACGGCTGGTTGTCAACAAATAATTTCCC
1 ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
* * * *
27260 GATTCCAGAGCCAATTTCAACTTCACGACGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
27301 ACTC
1 ACTC
27305 GGAACAATGC
Statistics
Matches: 1076, Mismatches: 90, Indels: 6
0.92 0.08 0.01
Matches are distributed among these distances:
105 96 0.09
106 979 0.91
107 1 0.00
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCCAGACAACGCAAGTTCAACTTCACGACGAAGGGACCGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
Found at i:28110 original size:37 final size:37
Alignment explanation
Indices: 28020--28124 Score: 138
Period size: 37 Copynumber: 2.8 Consensus size: 37
28010 CCTTTTCGTC
*
28020 CTACTAGGATTTAAACTCCTAAAAATAGGATAGAATT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
* * * *
28057 TTGCTAGGATTCAAACTCCTAAAAATATGATAGAGTT
1 CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
** *
28094 CTACTATTATTTAAACTCCTAAAGATATGAT
1 CTACTAGGATTTAAACTCCTAAAAATATGAT
28125 CCACAAGCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.40, C:0.14, G:0.12, T:0.33
Consensus pattern (37 bp):
CTACTAGGATTTAAACTCCTAAAAATATGATAGAATT
Found at i:28559 original size:15 final size:14
Alignment explanation
Indices: 28539--28585 Score: 53
Period size: 15 Copynumber: 3.4 Consensus size: 14
28529 TATATGTATA
28539 TATTTAATTATATTT
1 TATTTAATT-TATTT
28554 TATTT-ATTTA-TT
1 TATTTAATTTATTT
*
28566 TATTATAATTTTTTT
1 TATT-TAATTTATTT
28581 TATTT
1 TATTT
28586 TTCTTTGCAT
Statistics
Matches: 28, Mismatches: 1, Indels: 7
0.78 0.03 0.19
Matches are distributed among these distances:
12 6 0.21
13 3 0.11
14 8 0.29
15 11 0.39
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (14 bp):
TATTTAATTTATTT
Found at i:28567 original size:23 final size:23
Alignment explanation
Indices: 28539--28585 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
28529 TATATGTATA
28539 TATTTAATTAT-ATTTTATTTATT
1 TATTT-ATTATAATTTTATTTATT
*
28562 TATTTATTATAATTTTTTTTATT
1 TATTTATTATAATTTTATTTATT
28585 T
1 T
28586 TTCTTTGCAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (23 bp):
TATTTATTATAATTTTATTTATT
Found at i:28679 original size:14 final size:14
Alignment explanation
Indices: 28640--28689 Score: 55
Period size: 14 Copynumber: 3.3 Consensus size: 14
28630 CATTATATTA
28640 TTTTTTTATCTATGT
1 TTTTTTTA-CTATGT
28655 TTACTTATTTACTATGT
1 TT--TT-TTTACTATGT
*
28672 TTTTTTTACTATAT
1 TTTTTTTACTATGT
28686 TTTT
1 TTTT
28690 CTAACGTTAT
Statistics
Matches: 31, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
14 13 0.42
15 4 0.13
17 10 0.32
18 4 0.13
ACGTcount: A:0.18, C:0.08, G:0.04, T:0.70
Consensus pattern (14 bp):
TTTTTTTACTATGT
Found at i:28869 original size:22 final size:23
Alignment explanation
Indices: 28790--28890 Score: 86
Period size: 22 Copynumber: 4.5 Consensus size: 23
28780 CATTTATTTA
* *
28790 TTTATTATTATTACTATTTAGTA-T
1 TTTATTATT-TTA-TATATACTATT
* *
28814 TTTATTATATTATACATAC-ATT
1 TTTATTATTTTATATATACTATT
28836 TTTA-TATTTTTATATATA-TATT
1 TTTATTA-TTTTATATATACTATT
*
28858 TTTATTATTTTATTTATACTATT
1 TTTATTATTTTATATATACTATT
*
28881 TAT-TTATTTT
1 TTTATTATTTT
28891 CACTATATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 12
0.76 0.10 0.14
Matches are distributed among these distances:
21 3 0.05
22 42 0.66
23 11 0.17
24 8 0.12
ACGTcount: A:0.30, C:0.04, G:0.01, T:0.65
Consensus pattern (23 bp):
TTTATTATTTTATATATACTATT
Found at i:29011 original size:20 final size:19
Alignment explanation
Indices: 28987--29042 Score: 62
Period size: 20 Copynumber: 2.9 Consensus size: 19
28977 TTTTATCTTC
28987 ATTTATTTTATTTTATTCA
1 ATTTATTTTATTTTATTCA
*
29006 ATTTTATTTT-TTTTCATCCA
1 A-TTTATTTTATTTT-ATTCA
29026 A-TTATTTTATGTTTATT
1 ATTTATTTTAT-TTTATT
29043 ATTATTAGTT
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
18 7 0.23
19 8 0.26
20 16 0.52
ACGTcount: A:0.23, C:0.07, G:0.02, T:0.68
Consensus pattern (19 bp):
ATTTATTTTATTTTATTCA
Found at i:29969 original size:22 final size:22
Alignment explanation
Indices: 29944--29986 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
29934 ATGACGTCGT
29944 CCGGTTCTTCTGACCAATCGGA
1 CCGGTTCTTCTGACCAATCGGA
*
29966 CCGGTTCTTCTGACCGATCGG
1 CCGGTTCTTCTGACCAATCGG
29987 GCCAGTTCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.33, G:0.26, T:0.28
Consensus pattern (22 bp):
CCGGTTCTTCTGACCAATCGGA
Found at i:29994 original size:22 final size:22
Alignment explanation
Indices: 29947--29994 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
29937 ACGTCGTCCG
*
29947 GTTCTTCTGACCAATCGGACCG
1 GTTCTTCTGACCAATCGGACCA
* *
29969 GTTCTTCTGACCGATCGGGCCA
1 GTTCTTCTGACCAATCGGACCA
29991 GTTC
1 GTTC
29995 GACCGGTTGA
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.15, C:0.31, G:0.25, T:0.29
Consensus pattern (22 bp):
GTTCTTCTGACCAATCGGACCA
Found at i:34681 original size:2 final size:2
Alignment explanation
Indices: 34674--34707 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
34664 CATAAATCCA
34674 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
34708 TGTAAAAGTA
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
Done.