Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003468.1 Hibiscus syriacus cultivar Beakdansim tig00007337_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: 65418
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.33
Found at i:15136 original size:82 final size:82
Alignment explanation
Indices: 14917--15141 Score: 245
Period size: 82 Copynumber: 2.7 Consensus size: 82
14907 TTTCTTTAAC
* * * * *
14917 AAACGCCGCGATAGAATAGTAATTTAGTGGCATTTTTAGTATAAACATCGTAATAGGGTTCGTTT
1 AAACGCCGCGATA-AAGAGTACTTTAGCGGCATTTTTAG-ACAAACATCATAATAGGGTTCGTTT
**
14982 ATAGTGGTGTTTTTTCAAT
64 ATAGTGGTGTTTTCCCAAT
* * * * * * * *
15001 AAATGTCGCGATAAAGAGTACTTTAGCGGCGTTTTTACACAAACACCACAATAGGTTTTGTTTAT
1 AAACGCCGCGATAAAGAGTACTTTAGCGGCATTTTTAGACAAACATCATAATAGGGTTCGTTTAT
15066 AGTGGTGTTTTCCCAA-
66 AGTGGTGTTTTCCCAAT
* * * *
15082 AAAGCGCCGCTATAAAGAGTACTTTAGCGGCATTTTTAGACAAATATTATAATAGAGTTC
1 AAA-CGCCGCGATAAAGAGTACTTTAGCGGCATTTTTAGACAAACATCATAATAGGGTTC
15142 ATCAATAGTG
Statistics
Matches: 113, Mismatches: 27, Indels: 4
0.78 0.19 0.03
Matches are distributed among these distances:
81 3 0.03
82 79 0.70
83 20 0.18
84 11 0.10
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (82 bp):
AAACGCCGCGATAAAGAGTACTTTAGCGGCATTTTTAGACAAACATCATAATAGGGTTCGTTTAT
AGTGGTGTTTTCCCAAT
Found at i:15535 original size:20 final size:20
Alignment explanation
Indices: 15510--15548 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15500 CAGATTGCTC
15510 AGAGGGAACCGATTCCCCCA
1 AGAGGGAACCGATTCCCCCA
* *
15530 AGAGGGTATCGATTCCCCC
1 AGAGGGAACCGATTCCCCC
15549 TGAATAGTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.26, C:0.33, G:0.26, T:0.15
Consensus pattern (20 bp):
AGAGGGAACCGATTCCCCCA
Found at i:23048 original size:18 final size:18
Alignment explanation
Indices: 23013--23050 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
23003 AGAACAACAT
*
23013 GAGGAACAAGCTCCACCA
1 GAGGAACAAGCACCACCA
*
23031 GAGGAACAAGCACGACCA
1 GAGGAACAAGCACCACCA
23049 GA
1 GA
23051 AGATCAAATG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.26, T:0.03
Consensus pattern (18 bp):
GAGGAACAAGCACCACCA
Found at i:24001 original size:22 final size:21
Alignment explanation
Indices: 23976--24017 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
23966 AAGATTGCTT
23976 AGAGGGAACCGATTCGCCCCCA
1 AGAGGGAACCGATTC-CCCCCA
* *
23998 AGAGGGTATCGATTCCCCCC
1 AGAGGGAACCGATTCCCCCC
24018 TGAATGGTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.24, C:0.36, G:0.26, T:0.14
Consensus pattern (21 bp):
AGAGGGAACCGATTCCCCCCA
Found at i:26729 original size:21 final size:22
Alignment explanation
Indices: 26699--26745 Score: 69
Period size: 22 Copynumber: 2.2 Consensus size: 22
26689 TGTTTTACTT
26699 CTTTCAAATA-GAAAATAATAG
1 CTTTCAAATAGGAAAATAATAG
* *
26720 CTTTCGAATAGGAAATTAATAG
1 CTTTCAAATAGGAAAATAATAG
26742 CTTT
1 CTTT
26746 TGAAAATGTG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 9 0.39
22 14 0.61
ACGTcount: A:0.43, C:0.11, G:0.13, T:0.34
Consensus pattern (22 bp):
CTTTCAAATAGGAAAATAATAG
Found at i:27932 original size:20 final size:20
Alignment explanation
Indices: 27907--27953 Score: 94
Period size: 20 Copynumber: 2.4 Consensus size: 20
27897 AAAATACTAA
27907 AGTGTATTGATACACTCTGT
1 AGTGTATTGATACACTCTGT
27927 AGTGTATTGATACACTCTGT
1 AGTGTATTGATACACTCTGT
27947 AGTGTAT
1 AGTGTAT
27954 CCATACACTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.26, C:0.13, G:0.21, T:0.40
Consensus pattern (20 bp):
AGTGTATTGATACACTCTGT
Found at i:27959 original size:20 final size:19
Alignment explanation
Indices: 27916--28019 Score: 99
Period size: 20 Copynumber: 5.4 Consensus size: 19
27906 AAGTGTATTG
**
27916 ATACACTCTGTAGTGTATTG
1 ATACAC-CTGTAGTGTATCC
27936 ATACACTCTGTAGTGTATCC
1 ATACAC-CTGTAGTGTATCC
27956 ATACA-CTG--GTGTA-CC
1 ATACACCTGTAGTGTATCC
* *
27971 GATACACCTATAGGTGTATCG
1 -ATACACCTGTA-GTGTATCC
27992 ATACACCTGTAGGTGTATCC
1 ATACACCTGTA-GTGTATCC
28012 ATACACCT
1 ATACACCT
28020 ATGACTGCTC
Statistics
Matches: 72, Mismatches: 6, Indels: 12
0.80 0.07 0.13
Matches are distributed among these distances:
15 2 0.03
16 10 0.14
17 2 0.03
18 3 0.04
20 54 0.75
21 1 0.01
ACGTcount: A:0.27, C:0.23, G:0.18, T:0.32
Consensus pattern (19 bp):
ATACACCTGTAGTGTATCC
Found at i:31219 original size:18 final size:21
Alignment explanation
Indices: 31196--31244 Score: 77
Period size: 18 Copynumber: 2.5 Consensus size: 21
31186 CAACAATTGG
31196 TAACAATTGGTAT-C-TTT-T
1 TAACAATTGGTATCCTTTTAT
31214 TAACAATTGGTATCCTTTTAT
1 TAACAATTGGTATCCTTTTAT
31235 TAACAATTGG
1 TAACAATTGG
31245 AATATTTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
18 13 0.46
19 1 0.04
20 3 0.11
21 11 0.39
ACGTcount: A:0.31, C:0.12, G:0.12, T:0.45
Consensus pattern (21 bp):
TAACAATTGGTATCCTTTTAT
Found at i:31253 original size:21 final size:20
Alignment explanation
Indices: 31196--31259 Score: 62
Period size: 21 Copynumber: 3.1 Consensus size: 20
31186 CAACAATTGG
*
31196 TAACAATTGG-TATCTTT-T
1 TAACAATTGGATATTTTTAT
31214 TAACAATTGG-TATCCTTTTAT
1 TAACAATTGGATAT--TTTTAT
31235 TAACAATTGGAATATTTTTCAT
1 TAACAATTGG-ATATTTTT-AT
31257 TAA
1 TAA
31260 ACATTTTATT
Statistics
Matches: 39, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
18 13 0.33
20 3 0.08
21 15 0.38
22 5 0.13
23 3 0.08
ACGTcount: A:0.33, C:0.11, G:0.09, T:0.47
Consensus pattern (20 bp):
TAACAATTGGATATTTTTAT
Found at i:31598 original size:20 final size:20
Alignment explanation
Indices: 31554--31611 Score: 66
Period size: 20 Copynumber: 3.0 Consensus size: 20
31544 GAATACAGTT
* **
31554 AGTGTACCGATGCA-CCTAT
1 AGTGTACCGATACACCCTGC
31573 AGTGTACCGATACACCCTGC
1 AGTGTACCGATACACCCTGC
31593 AGTGTATCC-ATACACCCTG
1 AGTGTA-CCGATACACCCTG
31612 GCTGCAACGA
Statistics
Matches: 34, Mismatches: 3, Indels: 3
0.85 0.08 0.08
Matches are distributed among these distances:
19 13 0.38
20 19 0.56
21 2 0.06
ACGTcount: A:0.26, C:0.31, G:0.19, T:0.24
Consensus pattern (20 bp):
AGTGTACCGATACACCCTGC
Found at i:32000 original size:34 final size:34
Alignment explanation
Indices: 31961--32043 Score: 121
Period size: 34 Copynumber: 2.4 Consensus size: 34
31951 CTTTTGTAAA
*
31961 GGGGAAAAGTTCTAGCTAAGCCCGTGTAAAAGCT
1 GGGGAAAAGTTCTAGCTAAGCCCGTGCAAAAGCT
* *
31995 GGGGAAATGTTCTAACTAAGCCCGTGCAAAAGCT
1 GGGGAAAAGTTCTAGCTAAGCCCGTGCAAAAGCT
* *
32029 AGGGAAAGGTTCTAG
1 GGGGAAAAGTTCTAG
32044 TTTATGTTGA
Statistics
Matches: 43, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
34 43 1.00
ACGTcount: A:0.33, C:0.17, G:0.30, T:0.20
Consensus pattern (34 bp):
GGGGAAAAGTTCTAGCTAAGCCCGTGCAAAAGCT
Found at i:34616 original size:23 final size:24
Alignment explanation
Indices: 34589--34640 Score: 88
Period size: 23 Copynumber: 2.2 Consensus size: 24
34579 GGCTTCCCCC
34589 AAAAATAGTTAGGAACATTTCT-G
1 AAAAATAGTTAGGAACATTTCTGG
*
34612 AAAAATAGTTAGGAACATTTTTGG
1 AAAAATAGTTAGGAACATTTCTGG
34636 AAAAA
1 AAAAA
34641 AGTAGAGACC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
23 21 0.78
24 6 0.22
ACGTcount: A:0.48, C:0.06, G:0.17, T:0.29
Consensus pattern (24 bp):
AAAAATAGTTAGGAACATTTCTGG
Found at i:37840 original size:41 final size:42
Alignment explanation
Indices: 37721--37861 Score: 126
Period size: 41 Copynumber: 3.4 Consensus size: 42
37711 GCTTTCATAC
* * * *
37721 AAACACCGCTATAGAGTTGGATAGTAGTGGCATTTTTTTAGT
1 AAACACCGCTATAGAGTTGGACAATAGTGGCATTTTTGTAGA
* * * * * *
37763 AAACACCGCGATAGAGTAGCACTATAGAGGCGTTTTTGTA-A
1 AAACACCGCTATAGAGTTGGACAATAGTGGCATTTTTGTAGA
** *
37804 AAATGCCGCTATAGAGTTGGACAATAGTGGCATTTTT-TAGT
1 AAACACCGCTATAGAGTTGGACAATAGTGGCATTTTTGTAGA
*
37845 AAAGACCG-TGATAGAGT
1 AAACACCGCT-ATAGAGT
37862 AGCATTATAT
Statistics
Matches: 76, Mismatches: 21, Indels: 5
0.75 0.21 0.05
Matches are distributed among these distances:
40 3 0.04
41 42 0.55
42 31 0.41
ACGTcount: A:0.32, C:0.13, G:0.25, T:0.30
Consensus pattern (42 bp):
AAACACCGCTATAGAGTTGGACAATAGTGGCATTTTTGTAGA
Found at i:37877 original size:82 final size:83
Alignment explanation
Indices: 37726--37879 Score: 247
Period size: 82 Copynumber: 1.9 Consensus size: 83
37716 CATACAAACA
* *
37726 CCGCTATAGAGTTGGATAGTAGTGGCATTTTTTTAGTAAACACCGCGATAGAGTAGCACTATAGA
1 CCGCTATAGAGTTGGACAATAGTGGCATTTTTTTAGTAAACACCGCGATAGAGTAGCACTATAGA
37791 GGCGTTTTTGTAAAAATG
66 GGCGTTTTTGTAAAAATG
* * * *
37809 CCGCTATAGAGTTGGACAATAGTGGCA-TTTTTTAGTAAAGACCGTGATAGAGTAGCATTATATA
1 CCGCTATAGAGTTGGACAATAGTGGCATTTTTTTAGTAAACACCGCGATAGAGTAGCACTATAGA
37873 GGCGTTT
66 GGCGTTT
37880 GGTTTACAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
82 40 0.62
83 25 0.38
ACGTcount: A:0.30, C:0.13, G:0.25, T:0.32
Consensus pattern (83 bp):
CCGCTATAGAGTTGGACAATAGTGGCATTTTTTTAGTAAACACCGCGATAGAGTAGCACTATAGA
GGCGTTTTTGTAAAAATG
Found at i:41393 original size:28 final size:28
Alignment explanation
Indices: 41353--41409 Score: 105
Period size: 28 Copynumber: 2.0 Consensus size: 28
41343 ATGTCGCTAT
*
41353 ATACTAGATCTTTTACGGCGTTTTTATC
1 ATACTAGATCTTTTACAGCGTTTTTATC
41381 ATACTAGATCTTTTACAGCGTTTTTATC
1 ATACTAGATCTTTTACAGCGTTTTTATC
41409 A
1 A
41410 AAAAAACACC
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.25, C:0.18, G:0.12, T:0.46
Consensus pattern (28 bp):
ATACTAGATCTTTTACAGCGTTTTTATC
Found at i:43315 original size:2 final size:2
Alignment explanation
Indices: 43308--43339 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
43298 TGTTGATTAA
43308 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
43340 CAAGATTCTT
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:48940 original size:2 final size:2
Alignment explanation
Indices: 48933--48965 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
48923 TTTCATGATC
48933 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
48966 AAATCCCTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49091 original size:2 final size:2
Alignment explanation
Indices: 49086--49121 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
49076 TCAACACACC
49086 TA TA TA TA TA TA 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
49122 AATTCTTTAA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:58572 original size:21 final size:19
Alignment explanation
Indices: 58548--58591 Score: 52
Period size: 19 Copynumber: 2.2 Consensus size: 19
58538 ATTAAATATT
58548 AATATCTAAATAACCTTTCAA
1 AATATC-AAATAA-CTTTCAA
* *
58569 AATATCAAATTATTTTCAA
1 AATATCAAATAACTTTCAA
58588 AATA
1 AATA
58592 AGTTAAAGGC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
19 10 0.48
20 5 0.24
21 6 0.29
ACGTcount: A:0.50, C:0.14, G:0.00, T:0.36
Consensus pattern (19 bp):
AATATCAAATAACTTTCAA
Found at i:59083 original size:18 final size:18
Alignment explanation
Indices: 59062--59114 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
59052 TTATATGAAA
59062 TATATTTTTTATTATAAT
1 TATATTTTTTATTATAAT
*
59080 TATATTTTATT-TGTAT-CT
1 TATATTTT-TTAT-TATAAT
59098 TATATATTTTTATTATA
1 TATAT-TTTTTATTATA
59115 TTTAAATTGA
Statistics
Matches: 29, Mismatches: 1, Indels: 9
0.74 0.03 0.23
Matches are distributed among these distances:
18 20 0.69
19 9 0.31
ACGTcount: A:0.30, C:0.02, G:0.02, T:0.66
Consensus pattern (18 bp):
TATATTTTTTATTATAAT
Found at i:61019 original size:23 final size:23
Alignment explanation
Indices: 60962--61019 Score: 55
Period size: 23 Copynumber: 2.6 Consensus size: 23
60952 AAACAACCAA
*
60962 AAAACATGCCA-AAAAGTATAAG
1 AAAACATGCCATAAAAGCATAAG
** * * *
60984 AAAATGTGTCATAAAGGCATATG
1 AAAACATGCCATAAAAGCATAAG
61007 AAAACATGCCATA
1 AAAACATGCCATA
61020 CAAGTAGACT
Statistics
Matches: 26, Mismatches: 9, Indels: 1
0.72 0.25 0.03
Matches are distributed among these distances:
22 8 0.31
23 18 0.69
ACGTcount: A:0.52, C:0.14, G:0.16, T:0.19
Consensus pattern (23 bp):
AAAACATGCCATAAAAGCATAAG
Found at i:62933 original size:36 final size:36
Alignment explanation
Indices: 62886--62954 Score: 129
Period size: 36 Copynumber: 1.9 Consensus size: 36
62876 AAGAATCGCT
*
62886 GGTAGCAAGTTCGACTTCATGTGAACAAACTTAGCG
1 GGTAGCAAGTTCGACTTCATGTAAACAAACTTAGCG
62922 GGTAGCAAGTTCGACTTCATGTAAACAAACTTA
1 GGTAGCAAGTTCGACTTCATGTAAACAAACTTA
62955 CCGGTGGTCG
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.26
Consensus pattern (36 bp):
GGTAGCAAGTTCGACTTCATGTAAACAAACTTAGCG
Found at i:63307 original size:15 final size:16
Alignment explanation
Indices: 63287--63330 Score: 56
Period size: 15 Copynumber: 2.8 Consensus size: 16
63277 ATTTAATTAA
63287 TTATTTATTTTATT-C
1 TTATTTATTTTATTGC
*
63302 TTATTT-TCTTTATTGT
1 TTATTTAT-TTTATTGC
63318 TTATTTATTTTAT
1 TTATTTATTTTAT
63331 CTTTATCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
14 1 0.04
15 12 0.48
16 11 0.44
17 1 0.04
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (16 bp):
TTATTTATTTTATTGC
Found at i:63333 original size:22 final size:20
Alignment explanation
Indices: 63308--63360 Score: 61
Period size: 22 Copynumber: 2.5 Consensus size: 20
63298 ATTCTTATTT
* *
63308 TCTTTATTGTTTATTTATTTTA
1 TCTTTATT-TTTATTT-TCTAA
63330 TCTTTATCTTTTATTTTCTAA
1 TCTTTAT-TTTTATTTTCTAA
63351 TCTTTATTTT
1 TCTTTATTTT
63361 AAAAACAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
20 3 0.11
21 10 0.36
22 14 0.50
23 1 0.04
ACGTcount: A:0.17, C:0.09, G:0.02, T:0.72
Consensus pattern (20 bp):
TCTTTATTTTTATTTTCTAA
Found at i:64264 original size:28 final size:30
Alignment explanation
Indices: 64214--64270 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 30
64204 ATTTAATGCA
* *
64214 AAATGGTTTTTGGGCTTGAATTGATTTTAC
1 AAATGGTTTTTGGACTTGAATTGAATTTAC
64244 AAAT-GTTTTTGGACTT-AATTGAATTTA
1 AAATGGTTTTTGGACTTGAATTGAATTTA
64271 TTCAAAGTTT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 10 0.40
29 11 0.44
30 4 0.16
ACGTcount: A:0.28, C:0.05, G:0.19, T:0.47
Consensus pattern (30 bp):
AAATGGTTTTTGGACTTGAATTGAATTTAC
Found at i:64378 original size:21 final size:21
Alignment explanation
Indices: 64352--64392 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
64342 GGTGTCAAAA
64352 TGCATCCATGCA-CCTCTGCAG
1 TGCATCCATGCATCC-CTGCAG
64373 TGCATCCATGCATCCCTGCA
1 TGCATCCATGCATCCCTGCA
64393 CCTACACTAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
21 17 0.89
22 2 0.11
ACGTcount: A:0.20, C:0.39, G:0.17, T:0.24
Consensus pattern (21 bp):
TGCATCCATGCATCCCTGCAG
Found at i:64384 original size:29 final size:30
Alignment explanation
Indices: 64351--64421 Score: 85
Period size: 29 Copynumber: 2.4 Consensus size: 30
64341 GGGTGTCAAA
*
64351 ATGCATCCATGCACCT-CTGC-AGTGCATCC
1 ATGCATCCATGCACCTAC-ACTAGTGCATCC
* *
64380 ATGCATCCCTGCACCTACACTAGTGCATCG
1 ATGCATCCATGCACCTACACTAGTGCATCC
64410 ATGCAT-CATGCA
1 ATGCATCCATGCA
64422 ATGCATTCAT
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
29 21 0.58
30 15 0.42
ACGTcount: A:0.24, C:0.35, G:0.17, T:0.24
Consensus pattern (30 bp):
ATGCATCCATGCACCTACACTAGTGCATCC
Found at i:64481 original size:20 final size:20
Alignment explanation
Indices: 64456--64502 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 20
64446 AATGCAATTA
64456 GTGCATCGATACATCAGGTT
1 GTGCATCGATACATCAGGTT
* **
64476 GTGCATCGATGCATCCTGTT
1 GTGCATCGATACATCAGGTT
64496 GTGCATC
1 GTGCATC
64503 CATGCATGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.19, C:0.23, G:0.26, T:0.32
Consensus pattern (20 bp):
GTGCATCGATACATCAGGTT
Done.