Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002211.1 Hibiscus syriacus cultivar Beakdansim tig00004504_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: 55802
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Found at i:486 original size:43 final size:43
Alignment explanation
Indices: 427--538 Score: 124
Period size: 43 Copynumber: 2.6 Consensus size: 43
417 GCTTGTGTGT
* * *
427 ACGATTTCCTTCGTCGTGAAGTTGAAAAACGTGGAT-GTGTGAGC
1 ACGATATCCTCCGTCGTGGAGTTGAAAAACGTGGATCGT-TG-GC
* *
471 ACG-TATCCTCCGTCGTGGAGTTG-AAATCGTGGATCCGTTGGT
1 ACGATATCCTCCGTCGTGGAGTTGAAAAACGTGGAT-CGTTGGC
513 ACGATATCCTCCG-CGTGGAGTTGAAA
1 ACGATATCCTCCGTCGTGGAGTTGAAA
539 TTGTGGATGG
Statistics
Matches: 59, Mismatches: 5, Indels: 9
0.81 0.07 0.12
Matches are distributed among these distances:
42 24 0.41
43 30 0.51
44 5 0.08
ACGTcount: A:0.22, C:0.20, G:0.29, T:0.29
Consensus pattern (43 bp):
ACGATATCCTCCGTCGTGGAGTTGAAAAACGTGGATCGTTGGC
Found at i:502 original size:42 final size:41
Alignment explanation
Indices: 427--547 Score: 129
Period size: 42 Copynumber: 2.9 Consensus size: 41
417 GCTTGTGTGT
* * * *
427 ACGATTTCCTTCGTCGTGAAGTTGAAAAACGTGGATGTGTGAGC
1 ACGATATCCTCCGTCGTGGAGTTG-AAATCGTGGATGT-TG-GC
*
471 ACG-TATCCTCCGTCGTGGAGTTGAAATCGTGGATCCGTTGGT
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGAT--GTTGGC
*
513 ACGATATCCTCCG-CGTGGAGTTGAAATTGTGGATG
1 ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATG
548 GCCCCTTCGT
Statistics
Matches: 68, Mismatches: 6, Indels: 10
0.81 0.07 0.12
Matches are distributed among these distances:
40 1 0.01
42 34 0.50
43 28 0.41
44 5 0.07
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.30
Consensus pattern (41 bp):
ACGATATCCTCCGTCGTGGAGTTGAAATCGTGGATGTTGGC
Found at i:892 original size:33 final size:31
Alignment explanation
Indices: 818--879 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
808 TTGCATCAGG
* * *
818 ATGTTGAATCCCCAAATATACCCCAATATTC
1 ATGTTGAATCTCCAAATATACCCAAACATTC
849 ATGTTGAATCTCCAAATATTACCCAAACATT
1 ATGTTGAATCTCCAAATA-TACCCAAACATT
880 TGTTGTTGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
31 17 0.63
32 10 0.37
ACGTcount: A:0.37, C:0.26, G:0.06, T:0.31
Consensus pattern (31 bp):
ATGTTGAATCTCCAAATATACCCAAACATTC
Found at i:1933 original size:10 final size:10
Alignment explanation
Indices: 1915--1953 Score: 62
Period size: 10 Copynumber: 4.0 Consensus size: 10
1905 TTATCGTCCC
1915 CTTTTTTTCT
1 CTTTTTTTCT
*
1925 CTTTGTTTCT
1 CTTTTTTTCT
1935 CTTTTTTT-T
1 CTTTTTTTCT
1944 CTTTTTTTCT
1 CTTTTTTTCT
1954 TTCTTTAATT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.00, C:0.18, G:0.03, T:0.79
Consensus pattern (10 bp):
CTTTTTTTCT
Found at i:1941 original size:19 final size:19
Alignment explanation
Indices: 1917--1953 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
1907 ATCGTCCCCT
1917 TTTTTTCTCTTTGTTTCTC
1 TTTTTTCTCTTTGTTTCTC
* *
1936 TTTTTTTTCTTTTTTTCT
1 TTTTTTCTCTTTGTTTCT
1954 TTCTTTAATT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.00, C:0.16, G:0.03, T:0.81
Consensus pattern (19 bp):
TTTTTTCTCTTTGTTTCTC
Found at i:1958 original size:21 final size:21
Alignment explanation
Indices: 1915--2017 Score: 63
Period size: 21 Copynumber: 4.9 Consensus size: 21
1905 TTATCGTCCC
*
1915 CTTTTTTTCTCTTTGTTTC--T
1 CTTTTTTT-TCTTTTTTTCTTT
1935 CTTTTTTTTCTTTTTTTCTTT
1 CTTTTTTTTCTTTTTTTCTTT
* *
1956 CTTTAATTTT-TTTTATTCTTT
1 CTTT-TTTTTCTTTTTTTCTTT
** *
1977 -TATTCTTTTT-TTTTGCTCTGT
1 CT-TT-TTTTTCTTTTTTTCTTT
*
1998 GTTTTTTTTCTTTTTGTTCT
1 CTTTTTTTTCTTTTT-TTCT
2018 GATTGGATCT
Statistics
Matches: 66, Mismatches: 10, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
19 9 0.14
20 14 0.21
21 35 0.53
22 8 0.12
ACGTcount: A:0.04, C:0.14, G:0.05, T:0.78
Consensus pattern (21 bp):
CTTTTTTTTCTTTTTTTCTTT
Found at i:1968 original size:18 final size:17
Alignment explanation
Indices: 1945--1987 Score: 52
Period size: 17 Copynumber: 2.5 Consensus size: 17
1935 CTTTTTTTTC
1945 TTTTTTTCT-TTCTTTAA
1 TTTTTTT-TATTCTTTAA
*
1962 TTTTTTTTATTCTTTTA
1 TTTTTTTTATTCTTTAA
1979 TTCTTTTTT
1 TT-TTTTTT
1988 TTTGCTCTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
16 1 0.04
17 16 0.70
18 6 0.26
ACGTcount: A:0.09, C:0.09, G:0.00, T:0.81
Consensus pattern (17 bp):
TTTTTTTTATTCTTTAA
Found at i:8898 original size:2 final size:2
Alignment explanation
Indices: 8891--8922 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
8881 GAAGCAAACC
8891 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
8923 TACCATAAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:9395 original size:16 final size:16
Alignment explanation
Indices: 9376--9406 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9366 TTCTCTTCAC
9376 TCATTCTCTTTCTTTT
1 TCATTCTCTTTCTTTT
*
9392 TCATTTTCTTTCTTT
1 TCATTCTCTTTCTTT
9407 CATATAACAT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.06, C:0.23, G:0.00, T:0.71
Consensus pattern (16 bp):
TCATTCTCTTTCTTTT
Found at i:16944 original size:48 final size:47
Alignment explanation
Indices: 16869--16963 Score: 172
Period size: 48 Copynumber: 2.0 Consensus size: 47
16859 ATTACTCTCC
16869 ATAGAGGATTCAAATTCAAGCCCATGTGTGTTGTAGGGTGTATGTGCA
1 ATAGAGGATTCAAATTCAAGCCCATGTGT-TTGTAGGGTGTATGTGCA
*
16917 ATAGAGGATTCAAATTCAAGCCTATGTGTTTGTAGGGTGTATGTGCA
1 ATAGAGGATTCAAATTCAAGCCCATGTGTTTGTAGGGTGTATGTGCA
16964 TATTATCAAT
Statistics
Matches: 46, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
47 18 0.39
48 28 0.61
ACGTcount: A:0.27, C:0.12, G:0.28, T:0.33
Consensus pattern (47 bp):
ATAGAGGATTCAAATTCAAGCCCATGTGTTTGTAGGGTGTATGTGCA
Found at i:22709 original size:43 final size:42
Alignment explanation
Indices: 22620--22731 Score: 188
Period size: 43 Copynumber: 2.6 Consensus size: 42
22610 CCGAATTCTC
* *
22620 GTGTTTGTTTCACGTAATTCATTTTCCGAAAAATATTTTCCC
1 GTGTTTGTTTCACGTAATTCGTTTTCCGAAAAATATTTTCCA
22662 GTGTTTGTTTCACGTAATTCGTTTTCCGAAAAAATATTTTCCA
1 GTGTTTGTTTCACGTAATTCGTTTTCCG-AAAAATATTTTCCA
*
22705 GTGTTTGTTTCACGTAATTGGTTTTCC
1 GTGTTTGTTTCACGTAATTCGTTTTCC
22732 ATAACGTAAT
Statistics
Matches: 66, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
42 27 0.41
43 39 0.59
ACGTcount: A:0.21, C:0.17, G:0.15, T:0.46
Consensus pattern (42 bp):
GTGTTTGTTTCACGTAATTCGTTTTCCGAAAAATATTTTCCA
Found at i:23050 original size:59 final size:57
Alignment explanation
Indices: 22935--23092 Score: 149
Period size: 59 Copynumber: 2.7 Consensus size: 57
22925 TTATTAATAT
*
22935 TTATAATAATATAATATAATATTATATTTTTAATATTATATAAAATAATCAATTATA
1 TTATAATAATATAATATAATATTATATTTTTAATAATATATAAAATAATCAATTATA
* * * ***
22992 TTATAATAATATAAGATATTATATT-TTTATTTTAATAATATATAATATAATTTTTTATA
1 TTATAATAATAT-A-ATATAATATTATAT-TTTTAATAATATATAAAATAATCAATTATA
* * *
23051 TATTTAATAATGAATAATATTAT-TTATATATTTAAATAATAT
1 T-TATAATAAT--ATAATATAATATTATAT-TTTTAATAATAT
23093 TTTAATAAAG
Statistics
Matches: 84, Mismatches: 10, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
57 12 0.14
58 3 0.04
59 37 0.44
60 29 0.35
61 1 0.01
62 2 0.02
ACGTcount: A:0.47, C:0.01, G:0.01, T:0.51
Consensus pattern (57 bp):
TTATAATAATATAATATAATATTATATTTTTAATAATATATAAAATAATCAATTATA
Found at i:23058 original size:28 final size:28
Alignment explanation
Indices: 23038--23090 Score: 83
Period size: 28 Copynumber: 1.9 Consensus size: 28
23028 AATATATAAT
23038 ATAAT-TT-TTTATATATTTAATAATGA
1 ATAATATTATTTATATATTTAATAATGA
23064 ATAATATTATTTATATATTTAAATAAT
1 ATAATATTATTTATATATTT-AATAAT
23091 ATTTTAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 5 0.21
27 2 0.08
28 11 0.46
29 6 0.25
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (28 bp):
ATAATATTATTTATATATTTAATAATGA
Found at i:23070 original size:19 final size:19
Alignment explanation
Indices: 23048--23100 Score: 54
Period size: 20 Copynumber: 2.7 Consensus size: 19
23038 ATAATTTTTT
*
23048 ATATATTTAATAATGAATA
1 ATATATTTAATAATAAATA
*
23067 ATATTATTTATATATTTAAATA
1 ATA-TATTTA-ATA-ATAAATA
23089 ATAT-TTTAATAA
1 ATATATTTAATAA
23101 AGATATTTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
19 6 0.21
20 10 0.36
21 4 0.14
22 8 0.29
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (19 bp):
ATATATTTAATAATAAATA
Found at i:23256 original size:90 final size:88
Alignment explanation
Indices: 23108--23273 Score: 192
Period size: 89 Copynumber: 1.9 Consensus size: 88
23098 TAAAGATATT
* * * * * * *
23108 TAAAATATACTAATTAATATTTTTAAAATAGAATATAACACTATTACTTTAATAAATAATTAATA
1 TAAAATATACAAATTAATATTTTCAAAATAAAATATAAAAATACTACTTTAATAAATAAATAA-A
23173 TAATTTATAATATTTTTGTTTCAC
65 TAATTTATAATATTTTTGTTTCAC
*
23197 TAAAATATACAAAATTAATATTTTCATTAATAAAATTATAAAAATACTA-TTTAAT-AATAAATA
1 TAAAATATAC-AAATTAATATTTTCA-AAATAAAA-TATAAAAATACTACTTTAATAAATAAATA
* *
23260 AATTATTTTTAATA
63 AATAATTTATAATA
23274 ATAAATAAGT
Statistics
Matches: 64, Mismatches: 10, Indels: 6
0.80 0.12 0.08
Matches are distributed among these distances:
89 21 0.33
90 21 0.33
91 12 0.19
92 10 0.16
ACGTcount: A:0.50, C:0.05, G:0.01, T:0.43
Consensus pattern (88 bp):
TAAAATATACAAATTAATATTTTCAAAATAAAATATAAAAATACTACTTTAATAAATAAATAAAT
AATTTATAATATTTTTGTTTCAC
Found at i:23457 original size:14 final size:14
Alignment explanation
Indices: 23434--23473 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
23424 AATGTAATTC
*
23434 ATTTTACGGAAAAT
1 ATTTTCCGGAAAAT
23448 ATTTTCCGGAAAAT
1 ATTTTCCGGAAAAT
* *
23462 GTTTTCCAGAAA
1 ATTTTCCGGAAA
23474 TATAATTCAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
14 23 1.00
ACGTcount: A:0.38, C:0.12, G:0.15, T:0.35
Consensus pattern (14 bp):
ATTTTCCGGAAAAT
Found at i:23496 original size:14 final size:15
Alignment explanation
Indices: 23476--23577 Score: 89
Period size: 15 Copynumber: 6.9 Consensus size: 15
23466 TCCAGAAATA
23476 TAATTCATTTTCCAG
1 TAATTCATTTTCCAG
**
23491 -AATTCAAATTCCAG
1 TAATTCATTTTCCAG
*
23505 TAATTCATTTTTCAG
1 TAATTCATTTTCCAG
**
23520 TAATTCAAATTCCAG
1 TAATTCATTTTCCAG
* **
23535 TAGTTCAAATTCCAG
1 TAATTCATTTTCCAG
* * **
23550 TAGTTTAAATTCCAG
1 TAATTCATTTTCCAG
23565 TAATTCATTTTCC
1 TAATTCATTTTCC
23578 GAAAAATCAA
Statistics
Matches: 72, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
14 12 0.17
15 60 0.83
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (15 bp):
TAATTCATTTTCCAG
Found at i:23525 original size:30 final size:30
Alignment explanation
Indices: 23476--23577 Score: 143
Period size: 30 Copynumber: 3.4 Consensus size: 30
23466 TCCAGAAATA
23476 TAATTCATTTTCCAG-AATTCAAATTCCAG
1 TAATTCATTTTCCAGTAATTCAAATTCCAG
*
23505 TAATTCATTTTTCAGTAATTCAAATTCCAG
1 TAATTCATTTTCCAGTAATTCAAATTCCAG
* ** * *
23535 TAGTTCAAATTCCAGTAGTTTAAATTCCAG
1 TAATTCATTTTCCAGTAATTCAAATTCCAG
23565 TAATTCATTTTCC
1 TAATTCATTTTCC
23578 GAAAAATCAA
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
29 14 0.23
30 48 0.77
ACGTcount: A:0.32, C:0.19, G:0.08, T:0.41
Consensus pattern (30 bp):
TAATTCATTTTCCAGTAATTCAAATTCCAG
Found at i:23577 original size:15 final size:15
Alignment explanation
Indices: 23485--23571 Score: 113
Period size: 15 Copynumber: 5.9 Consensus size: 15
23475 ATAATTCATT
23485 TTCCAG-AATTCAAA
1 TTCCAGTAATTCAAA
**
23499 TTCCAGTAATTCATT
1 TTCCAGTAATTCAAA
*
23514 TTTCAGTAATTCAAA
1 TTCCAGTAATTCAAA
*
23529 TTCCAGTAGTTCAAA
1 TTCCAGTAATTCAAA
* *
23544 TTCCAGTAGTTTAAA
1 TTCCAGTAATTCAAA
23559 TTCCAGTAATTCA
1 TTCCAGTAATTCA
23572 TTTTCCGAAA
Statistics
Matches: 62, Mismatches: 10, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
14 6 0.10
15 56 0.90
ACGTcount: A:0.34, C:0.18, G:0.09, T:0.38
Consensus pattern (15 bp):
TTCCAGTAATTCAAA
Found at i:34214 original size:32 final size:31
Alignment explanation
Indices: 34125--34218 Score: 91
Period size: 31 Copynumber: 3.0 Consensus size: 31
34115 GAACGATTGT
* * *
34125 AAAATGGTCATTAAATTTATCAAAATATTGC
1 AAAATGATCATTAAATTTATCAAAATTTTAC
* * * *
34156 AGAATAATCATTAGATTTTAT-TAAATTGTTAC
1 AAAATGATCATTA-AATTTATCAAAATT-TTAC
*
34188 AAAATGATAATTAAATTTATCAAAATTTTAC
1 AAAATGATCATTAAATTTATCAAAATTTTAC
34219 GATTATTATA
Statistics
Matches: 48, Mismatches: 12, Indels: 6
0.73 0.18 0.09
Matches are distributed among these distances:
31 24 0.50
32 24 0.50
ACGTcount: A:0.46, C:0.07, G:0.07, T:0.39
Consensus pattern (31 bp):
AAAATGATCATTAAATTTATCAAAATTTTAC
Found at i:34276 original size:22 final size:22
Alignment explanation
Indices: 34251--34294 Score: 88
Period size: 22 Copynumber: 2.0 Consensus size: 22
34241 TCGTTTTGTA
34251 ATGATTTGATAAATTTAATGAT
1 ATGATTTGATAAATTTAATGAT
34273 ATGATTTGATAAATTTAATGAT
1 ATGATTTGATAAATTTAATGAT
34295 CATTTTATAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (22 bp):
ATGATTTGATAAATTTAATGAT
Found at i:34959 original size:21 final size:21
Alignment explanation
Indices: 34929--34978 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
34919 AACAGAAACA
* *
34929 TTATTATTTCTATCGGTTTTG
1 TTATTATTTCTACCGATTTTG
*
34950 TTATTTTTTCTACCGATTTTG
1 TTATTATTTCTACCGATTTTG
34971 TTATTATT
1 TTATTATT
34979 GGGAACTTTA
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 25 1.00
ACGTcount: A:0.16, C:0.10, G:0.10, T:0.64
Consensus pattern (21 bp):
TTATTATTTCTACCGATTTTG
Found at i:39700 original size:2 final size:2
Alignment explanation
Indices: 39693--39719 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
39683 GCAACGTTAG
39693 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
39720 TTTTTTTCTT
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:40490 original size:20 final size:20
Alignment explanation
Indices: 40467--40520 Score: 72
Period size: 20 Copynumber: 2.7 Consensus size: 20
40457 ACTTAGGGGT
* * *
40467 CAATATCGATATTGAAGGGC
1 CAATATCAATACTAAAGGGC
*
40487 CAATATCAATACTAAAGGGT
1 CAATATCAATACTAAAGGGC
40507 CAATATCAATACTA
1 CAATATCAATACTA
40521 GCGAACAATT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.43, C:0.17, G:0.15, T:0.26
Consensus pattern (20 bp):
CAATATCAATACTAAAGGGC
Found at i:44147 original size:14 final size:14
Alignment explanation
Indices: 44113--44157 Score: 56
Period size: 15 Copynumber: 3.1 Consensus size: 14
44103 GGGAAAATAG
*
44113 TTAATTA-AATTAT
1 TTAATTATATTTAT
44126 TTACATTATATTTAT
1 TTA-ATTATATTTAT
44141 TTAATTATATTGTAT
1 TTAATTATATT-TAT
44156 TT
1 TT
44158 TTTACATTAG
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
13 3 0.11
14 12 0.43
15 13 0.46
ACGTcount: A:0.36, C:0.02, G:0.02, T:0.60
Consensus pattern (14 bp):
TTAATTATATTTAT
Found at i:52667 original size:21 final size:21
Alignment explanation
Indices: 52642--52682 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
52632 ATTTAAAATG
52642 TGTATCGATGCACTGCTACAA
1 TGTATCGATGCACTGCTACAA
52663 TGTATCGATGCACTGCTACA
1 TGTATCGATGCACTGCTACA
52683 GTGATTTCAA
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:0.27, C:0.24, G:0.20, T:0.29
Consensus pattern (21 bp):
TGTATCGATGCACTGCTACAA
Found at i:55165 original size:46 final size:46
Alignment explanation
Indices: 55098--55189 Score: 168
Period size: 46 Copynumber: 2.0 Consensus size: 46
55088 AACATACAAT
55098 ATCATATACCCCTAATATGCACTCACCTGG-CTCACTAGTCAATAC
1 ATCATATACCCCTAATATGCACTCACCTGGCCTCACTAGTCAATAC
55143 ATCATATACCCACTAATATGCACTCACCTGGCCTCACTAGTCAATAC
1 ATCATATACCC-CTAATATGCACTCACCTGGCCTCACTAGTCAATAC
55190 CTGTAACACC
Statistics
Matches: 45, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
45 11 0.24
46 19 0.42
47 15 0.33
ACGTcount: A:0.32, C:0.34, G:0.09, T:0.26
Consensus pattern (46 bp):
ATCATATACCCCTAATATGCACTCACCTGGCCTCACTAGTCAATAC
Done.