Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008219.1 Hibiscus syriacus cultivar Beakdansim tig00110851_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: 50794
ACGTcount: A:0.31, C:0.17, G:0.18, T:0.34
Found at i:7637 original size:44 final size:44
Alignment explanation
Indices: 7582--7700 Score: 229
Period size: 44 Copynumber: 2.7 Consensus size: 44
7572 ATGATATTTG
*
7582 GTGTAATTGATTTAATTTGTATGGTGTTGAAATCTATCGTGAAT
1 GTGTAAATGATTTAATTTGTATGGTGTTGAAATCTATCGTGAAT
7626 GTGTAAATGATTTAATTTGTATGGTGTTGAAATCTATCGTGAAT
1 GTGTAAATGATTTAATTTGTATGGTGTTGAAATCTATCGTGAAT
7670 GTGTAAATGATTTAATTTGTATGGTGTTGAA
1 GTGTAAATGATTTAATTTGTATGGTGTTGAA
7701 TATATTGAGT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
44 74 1.00
ACGTcount: A:0.29, C:0.03, G:0.24, T:0.45
Consensus pattern (44 bp):
GTGTAAATGATTTAATTTGTATGGTGTTGAAATCTATCGTGAAT
Found at i:7886 original size:31 final size:31
Alignment explanation
Indices: 7851--7928 Score: 156
Period size: 31 Copynumber: 2.5 Consensus size: 31
7841 AATTATTTTC
7851 TTACTTCTATTTTGGTTATTAAAATTTTAAA
1 TTACTTCTATTTTGGTTATTAAAATTTTAAA
7882 TTACTTCTATTTTGGTTATTAAAATTTTAAA
1 TTACTTCTATTTTGGTTATTAAAATTTTAAA
7913 TTACTTCTATTTTGGT
1 TTACTTCTATTTTGGT
7929 CACTATAAGA
Statistics
Matches: 47, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.28, C:0.08, G:0.08, T:0.56
Consensus pattern (31 bp):
TTACTTCTATTTTGGTTATTAAAATTTTAAA
Found at i:10015 original size:39 final size:39
Alignment explanation
Indices: 9961--10051 Score: 119
Period size: 39 Copynumber: 2.3 Consensus size: 39
9951 AAGGACCTGT
*
9961 GGTAAGGACTAACCCTGAGCACAAAGCAGAGGAGTCTGC
1 GGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGTCTGC
* * * *
10000 GGTAAGGACTTACCCTGATCATAAAGTATAGGAGTCTGC
1 GGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGTCTGC
* *
10039 AGTAAGGTCTTAC
1 GGTAAGGACTTAC
10052 AAGTCATAGA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
39 45 1.00
ACGTcount: A:0.32, C:0.20, G:0.27, T:0.21
Consensus pattern (39 bp):
GGTAAGGACTTACCCTGAGCACAAAGCAGAGGAGTCTGC
Found at i:12555 original size:12 final size:12
Alignment explanation
Indices: 12534--12567 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
12524 ACGGCGGTAA
12534 CGATGGCAGTGG
1 CGATGGCAGTGG
*
12546 CGATGACAGTGG
1 CGATGGCAGTGG
*
12558 TGATGGCAGT
1 CGATGGCAGT
12568 AACGATAGCG
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.21, C:0.15, G:0.44, T:0.21
Consensus pattern (12 bp):
CGATGGCAGTGG
Found at i:12731 original size:16 final size:17
Alignment explanation
Indices: 12698--12733 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
12688 TAAAATAAAA
12698 TTATAAAAATTAATATT
1 TTATAAAAATTAATATT
*
12715 TTATAAATATT-ATATT
1 TTATAAAAATTAATATT
12731 TTA
1 TTA
12734 AGTAAATTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 8 0.44
17 10 0.56
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (17 bp):
TTATAAAAATTAATATT
Found at i:12794 original size:15 final size:15
Alignment explanation
Indices: 12759--12811 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
12749 GATTTGCAAT
12759 TAATTT-ATAC-TTA
1 TAATTTAATACTTTA
*
12772 TACGTTTAATACTTTA
1 TA-ATTTAATACTTTA
*
12788 TAATTTAATATTTTA
1 TAATTTAATACTTTA
*
12803 TAAATTAAT
1 TAATTTAAT
12812 TTAATAGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
13 2 0.06
14 3 0.09
15 23 0.70
16 5 0.15
ACGTcount: A:0.40, C:0.06, G:0.02, T:0.53
Consensus pattern (15 bp):
TAATTTAATACTTTA
Found at i:13061 original size:15 final size:16
Alignment explanation
Indices: 13035--13088 Score: 56
Period size: 16 Copynumber: 3.2 Consensus size: 16
13025 TATAGATAAA
*
13035 TTTTAATTTAATTATT
1 TTTTAATATAATTATT
13051 TTTTAA-ATAATTAATT
1 TTTTAATATAATT-ATT
*
13067 TATTAATATAAAATTATT
1 TTTTAATAT--AATTATT
13085 TTTT
1 TTTT
13089 TAGTTTTATT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 5 0.16
16 14 0.45
17 2 0.06
18 6 0.19
19 4 0.13
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (16 bp):
TTTTAATATAATTATT
Found at i:21932 original size:10 final size:10
Alignment explanation
Indices: 21933--21980 Score: 51
Period size: 10 Copynumber: 4.4 Consensus size: 10
21923 GATTATGTTC
*
21933 GTTCGGTTAT
1 GTTCGTTTAT
21943 GTTCGTTTAT
1 GTTCGTTTAT
21953 GTTCGTTCGATTAT
1 GTTCG-T---TTAT
21967 GTTCGTTTAT
1 GTTCGTTTAT
21977 GTTC
1 GTTC
21981 ATTCATTTAT
Statistics
Matches: 33, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
10 22 0.67
11 1 0.03
13 1 0.03
14 9 0.27
ACGTcount: A:0.10, C:0.12, G:0.23, T:0.54
Consensus pattern (10 bp):
GTTCGTTTAT
Found at i:21935 original size:24 final size:24
Alignment explanation
Indices: 21908--21980 Score: 67
Period size: 24 Copynumber: 3.0 Consensus size: 24
21898 CGTTCATTTA
21908 CGTTC-GTGAACGTTCGATTATGTT
1 CGTTCGGT-AACGTTCGATTATGTT
* * *
21932 CGTTCGGTTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGATTATGTT
* * * *
21956 CGTTCGATTATGTTCGTTTATGTT
1 CGTTCGGTAACGTTCGATTATGTT
21980 C
1 C
21981 ATTCATTTAT
Statistics
Matches: 44, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
24 42 0.95
25 2 0.05
ACGTcount: A:0.12, C:0.15, G:0.23, T:0.49
Consensus pattern (24 bp):
CGTTCGGTAACGTTCGATTATGTT
Found at i:21937 original size:14 final size:14
Alignment explanation
Indices: 21918--21973 Score: 75
Period size: 14 Copynumber: 4.3 Consensus size: 14
21908 CGTTCGTGAA
21918 CGTTCGATTATGTT
1 CGTTCGATTATGTT
*
21932 CGTTCGGTTATGTT
1 CGTTCGATTATGTT
21946 CG-T---TTATGTT
1 CGTTCGATTATGTT
21956 CGTTCGATTATGTT
1 CGTTCGATTATGTT
21970 CGTT
1 CGTT
21974 TATGTTCATT
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
10 9 0.24
11 1 0.03
13 1 0.03
14 26 0.70
ACGTcount: A:0.11, C:0.14, G:0.23, T:0.52
Consensus pattern (14 bp):
CGTTCGATTATGTT
Found at i:21990 original size:24 final size:23
Alignment explanation
Indices: 21919--21993 Score: 96
Period size: 24 Copynumber: 3.1 Consensus size: 23
21909 GTTCGTGAAC
* *
21919 GTTCGATTATGTTCGTTCGGTTAT
1 GTTCGTTTATGTTCGTTC-ATTAT
21943 GTTCGTTTATGTTCGTTCGATTAT
1 GTTCGTTTATGTTCGTTC-ATTAT
*
21967 GTTCGTTTATGTTCATTCATTTAT
1 GTTCGTTTATGTTCGTTCA-TTAT
21991 GTT
1 GTT
21994 TAACTCAATC
Statistics
Matches: 47, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
23 1 0.02
24 46 0.98
ACGTcount: A:0.13, C:0.12, G:0.20, T:0.55
Consensus pattern (23 bp):
GTTCGTTTATGTTCGTTCATTAT
Found at i:22725 original size:16 final size:16
Alignment explanation
Indices: 22702--22756 Score: 92
Period size: 16 Copynumber: 3.4 Consensus size: 16
22692 GGGTCTCCAA
22702 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
* *
22718 CATTTATGTTCGTATT
1 CGTTTATGTTCGTGTT
22734 CGTTTATGTTCGTGTT
1 CGTTTATGTTCGTGTT
22750 CGTTTAT
1 CGTTTAT
22757 TTATTAAATG
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.11, C:0.13, G:0.20, T:0.56
Consensus pattern (16 bp):
CGTTTATGTTCGTGTT
Found at i:22842 original size:16 final size:16
Alignment explanation
Indices: 22821--22851 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22811 CAAAAAAAAA
22821 TTCGTTTATGTTCGTG
1 TTCGTTTATGTTCGTG
22837 TTCGTTTATGTTCGT
1 TTCGTTTATGTTCGT
22852 CTATTTATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.06, C:0.13, G:0.23, T:0.58
Consensus pattern (16 bp):
TTCGTTTATGTTCGTG
Found at i:25109 original size:135 final size:134
Alignment explanation
Indices: 24924--25377 Score: 635
Period size: 134 Copynumber: 3.4 Consensus size: 134
24914 ACTGTCACTC
* *
24924 AGGGAATATTAGATGT-GAGGATGTTGATCCATTCCGCTGTCACTCAGGGAATATTGAATCGGGG
1 AGGGAATATCAGATCTGGAGGA-GTTGATCCATTCCGCTGTCACTCAGGGAATATTGAATCGGGG
** * * *
24988 CAGACTTGTTTTGTTGTCACTCAGGGAATATCAAATCAT-GAAAGAAAGAGATC-TGTTCCGCTT
65 CAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAA-AAAGGGA-CATGTTCCGCTT
25051 CTTCTGA
128 CTTCTGA
* * * *
25058 AGGGAGTATCAGATCTAGGGGGAGTTGATCCATTCCGTTATCACTCAGGGAATATTGAATCGGGG
1 AGGGAATATCAGATCT-GGAGGAGTTGATCCATTCCGCTGTCACTCAGGGAATATTGAATCGGGG
* * *
25123 CAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAGAGGGACATGTTTCGTTTCT
65 CAGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAAAGGGACATGTTCCGCTTCT
*
25188 TTTGA
130 TCTGA
* * * *
25193 AGGGAATATCATATTTGGAGGAGTTGATCCATTCCACTGTCACTCAGGGAAGATTGAATCGGGGC
1 AGGGAATATCAGATCTGGAGGAGTTGATCCATTCCGCTGTCACTCAGGGAATATTGAATCGGGGC
* *
25258 AGACTTGTTCCGCTGCCACTCAGGAAATATCAAATCTTGGAAAAAAGGGACATGTTCCGCTTCTT
66 AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAAAGGGACATGTTCCGCTTCTT
25323 CTGA
131 CTGA
* * *
25327 AGGGAATATCAGATCTGGAGGAGTTGATACATTCTGCTGTCACTAAGGGAA
1 AGGGAATATCAGATCTGGAGGAGTTGATCCATTCCGCTGTCACTCAGGGAA
25378 GATTTCACTG
Statistics
Matches: 281, Mismatches: 35, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
134 166 0.59
135 107 0.38
136 8 0.03
ACGTcount: A:0.28, C:0.17, G:0.26, T:0.29
Consensus pattern (134 bp):
AGGGAATATCAGATCTGGAGGAGTTGATCCATTCCGCTGTCACTCAGGGAATATTGAATCGGGGC
AGACTTGTTCCGCTGTCACTCAGGGAATATCAAATCTTGGAAAAAAGGGACATGTTCCGCTTCTT
CTGA
Found at i:28134 original size:3 final size:3
Alignment explanation
Indices: 28116--28150 Score: 54
Period size: 3 Copynumber: 12.0 Consensus size: 3
28106 TTGTTGGATC
*
28116 ATA AAA ATA A-A ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
28151 TCGAATGAGA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
2 2 0.07
3 27 0.93
ACGTcount: A:0.71, C:0.00, G:0.00, T:0.29
Consensus pattern (3 bp):
ATA
Found at i:28966 original size:23 final size:23
Alignment explanation
Indices: 28931--28974 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
28921 AGTCAACTAA
*
28931 TATCGATAAATTATAACTAATCT
1 TATCGATAAATTATAAATAATCT
28954 TATC-ATAATATTATAAATAAT
1 TATCGATAA-ATTATAAATAAT
28975 TACAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 4 0.21
23 15 0.79
ACGTcount: A:0.48, C:0.09, G:0.02, T:0.41
Consensus pattern (23 bp):
TATCGATAAATTATAAATAATCT
Found at i:37344 original size:18 final size:17
Alignment explanation
Indices: 37321--37444 Score: 62
Period size: 17 Copynumber: 7.2 Consensus size: 17
37311 TTTTAGACAT
37321 TATATTATAATTAAAAAA
1 TATATTA-AATTAAAAAA
* *
37339 TATATT-AA-TATAAAT
1 TATATTAAATTAAAAAA
* * **
37354 TATTTTAAATTTATTAA
1 TATATTAAATTAAAAAA
*
37371 TATTTTAATATATAAAAAA
1 TATATTAA-AT-TAAAAAA
*
37390 TAAATTAAATTATAAAAA
1 TATATTAAATTA-AAAAA
*
37408 -A-ATTAGAAATAAAAAA
1 TATATTA-AATTAAAAAA
37424 TATAATTATAA-T-AAAAA
1 TAT-ATTA-AATTAAAAAA
37441 TATA
1 TATA
37445 AAACGTAAGT
Statistics
Matches: 82, Mismatches: 15, Indels: 20
0.70 0.13 0.17
Matches are distributed among these distances:
15 10 0.12
16 14 0.17
17 26 0.32
18 16 0.20
19 16 0.20
ACGTcount: A:0.60, C:0.00, G:0.01, T:0.40
Consensus pattern (17 bp):
TATATTAAATTAAAAAA
Found at i:37397 original size:19 final size:17
Alignment explanation
Indices: 37382--37446 Score: 69
Period size: 17 Copynumber: 3.7 Consensus size: 17
37372 ATTTTAATAT
37382 ATAAAAAATAAATTAAA
1 ATAAAAAATAAATTAAA
* *
37399 TTATAAAA-AAATTAGAA
1 ATAAAAAATAAATTA-AA
*
37416 ATAAAAAATATAATTATA
1 ATAAAAAATA-AATTAAA
37434 ATAAAAATATAAA
1 ATAAAAA-ATAAA
37447 ACGTAAGTAA
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
16 6 0.15
17 14 0.36
18 11 0.28
19 8 0.21
ACGTcount: A:0.71, C:0.00, G:0.02, T:0.28
Consensus pattern (17 bp):
ATAAAAAATAAATTAAA
Found at i:40205 original size:11 final size:11
Alignment explanation
Indices: 40166--40221 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
40156 ATAAGAAAGA
40166 AAGAAAGGAAG
1 AAGAAAGGAAG
40177 AAG--A-GAA-
1 AAGAAAGGAAG
* *
40184 AGGAAATGAAG
1 AAGAAAGGAAG
40195 AAGAAAGGAAG
1 AAGAAAGGAAG
*
40206 AAGAAAGGGAG
1 AAGAAAGGAAG
40217 AAGAA
1 AAGAA
40222 GAGATCGGGG
Statistics
Matches: 37, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
7 2 0.05
8 3 0.08
9 2 0.05
10 3 0.08
11 27 0.73
ACGTcount: A:0.62, C:0.00, G:0.36, T:0.02
Consensus pattern (11 bp):
AAGAAAGGAAG
Found at i:40391 original size:51 final size:55
Alignment explanation
Indices: 40282--40395 Score: 139
Period size: 58 Copynumber: 2.1 Consensus size: 55
40272 TTACATTATA
*
40282 TTAGTTTGTTAGTTTAAGTTATATATTATATTATATAAAAAATTAGTTCATTAATTTG
1 TTAGTTTCTTAGTTTAAGTTATATATTATATTATATAAAAAATTA--T-ATTAATTTG
*
40340 TTAGTTTCTTAGTTTAAG-T-TATATTATATGTA-A-AAAAAATTA-ATTAGTTTG
1 TTAGTTTCTTAGTTTAAGTTATATATTATAT-TATATAAAAAATTATATTAATTTG
40391 TTAGT
1 TTAGT
40396 GTGTTTAAAC
Statistics
Matches: 53, Mismatches: 2, Indels: 9
0.83 0.03 0.14
Matches are distributed among these distances:
51 13 0.25
55 9 0.17
56 11 0.21
57 3 0.06
58 17 0.32
ACGTcount: A:0.36, C:0.02, G:0.11, T:0.51
Consensus pattern (55 bp):
TTAGTTTCTTAGTTTAAGTTATATATTATATTATATAAAAAATTATATTAATTTG
Found at i:41028 original size:21 final size:21
Alignment explanation
Indices: 40939--41028 Score: 51
Period size: 21 Copynumber: 4.2 Consensus size: 21
40929 ATTATTAGTA
*
40939 ATCATTACTAAATGATT-AAT
1 ATCATTACTAAATCATTAAAT
* *
40959 ATCA-AATCCAAATCATTAAAT
1 ATCATTA-CTAAATCATTAAAT
* * * *
40980 AT-TTATAATAAATAATTATTAGT
1 ATCAT-TACTAAATCATTA--AAT
41003 AATCATTACTAAATCATTAAAT
1 -ATCATTACTAAATCATTAAAT
41025 ATCA
1 ATCA
41029 AATCATTAAA
Statistics
Matches: 49, Mismatches: 13, Indels: 15
0.64 0.17 0.19
Matches are distributed among these distances:
19 1 0.02
20 12 0.24
21 17 0.35
22 3 0.06
23 2 0.04
24 13 0.27
25 1 0.02
ACGTcount: A:0.49, C:0.11, G:0.02, T:0.38
Consensus pattern (21 bp):
ATCATTACTAAATCATTAAAT
Found at i:41042 original size:65 final size:61
Alignment explanation
Indices: 40929--41067 Score: 174
Period size: 65 Copynumber: 2.2 Consensus size: 61
40919 ACTAATCATT
* *
40929 ATTATTAGTAATCATTACTAAATGATTAATATCAAATCCAAATCATTAAATATTTATAATAAATA
1 ATTATTAGTAATCATTACTAAATCATTAATATCAAATCCAAA-CATT-AATAATTAT--TAAATA
*
40994 ATTATTAGTAATCATTACTAAATCATTAAATATCAAAT-CATTAA-ATTAATAATTATTAAATC
1 ATTATTAGTAATCATTACTAAATCATT-AATATCAAATCCA--AACATTAATAATTATTAAATA
41056 ATTATTAGTAAT
1 ATTATTAGTAAT
41068 GTTAATAATC
Statistics
Matches: 68, Mismatches: 3, Indels: 9
0.85 0.04 0.11
Matches are distributed among these distances:
62 17 0.25
64 8 0.12
65 31 0.46
66 10 0.15
67 2 0.03
ACGTcount: A:0.48, C:0.09, G:0.03, T:0.40
Consensus pattern (61 bp):
ATTATTAGTAATCATTACTAAATCATTAATATCAAATCCAAACATTAATAATTATTAAATA
Found at i:48214 original size:19 final size:19
Alignment explanation
Indices: 48190--48250 Score: 59
Period size: 23 Copynumber: 2.9 Consensus size: 19
48180 TTTTGGTGCA
*
48190 GAGGGAATCGATCCCCCCT
1 GAGGGAACCGATCCCCCCT
*
48209 GAGGGAACCGATTCCCCCTTT
1 GAGGGAACCGA-TCCCCC-CT
48230 GAAGGGGAACCGATTCCCCCC
1 G-A-GGGAACCGA-TCCCCCC
48251 ACAGGGGAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 5
0.81 0.07 0.12
Matches are distributed among these distances:
19 10 0.29
20 6 0.17
21 2 0.06
22 1 0.03
23 16 0.46
ACGTcount: A:0.21, C:0.36, G:0.26, T:0.16
Consensus pattern (19 bp):
GAGGGAACCGATCCCCCCT
Found at i:48258 original size:21 final size:21
Alignment explanation
Indices: 48232--48271 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
48222 CCCCCTTTGA
*
48232 AGGGGAACCGATTCCCCCCAC
1 AGGGGAACCGATACCCCCCAC
*
48253 AGGGGAATCGATACCCCCC
1 AGGGGAACCGATACCCCCC
48272 CTGGGGTTCT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.25, C:0.40, G:0.25, T:0.10
Consensus pattern (21 bp):
AGGGGAACCGATACCCCCCAC
Found at i:50755 original size:12 final size:12
Alignment explanation
Indices: 50740--50764 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
50730 AATTTACTCC
50740 AAATATTTCAAA
1 AAATATTTCAAA
50752 AAATATTTCAAA
1 AAATATTTCAAA
50764 A
1 A
50765 TCCTTTTTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.08, G:0.00, T:0.32
Consensus pattern (12 bp):
AAATATTTCAAA
Done.