Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003732.1 Hibiscus syriacus cultivar Beakdansim tig00007980_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: 92367
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:7912 original size:2 final size:2
Alignment explanation
Indices: 7905--7941 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
7895 TTTACAGACC
7905 AT AT 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 AT AT A
7942 GGGTCTTATA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:8683 original size:15 final size:15
Alignment explanation
Indices: 8659--8688 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
8649 ATAATAATGA
8659 TTTATCTTTTATTTT
1 TTTATCTTTTATTTT
*
8674 TTTATTTTTTATTTT
1 TTTATCTTTTATTTT
8689 CAATTATTCT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (15 bp):
TTTATCTTTTATTTT
Found at i:9763 original size:2 final size:2
Alignment explanation
Indices: 9758--9824 Score: 134
Period size: 2 Copynumber: 33.5 Consensus size: 2
9748 TCTCTCTCGC
9758 TA TA TA 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 TA TA TA
9800 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 T
9825 GTTATACTTA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 65 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:17919 original size:9 final size:9
Alignment explanation
Indices: 17901--17932 Score: 55
Period size: 9 Copynumber: 3.6 Consensus size: 9
17891 GATGTTAGTA
*
17901 TTTTCGCAG
1 TTTTCACAG
17910 TTTTCACAG
1 TTTTCACAG
17919 TTTTCACAG
1 TTTTCACAG
17928 TTTTC
1 TTTTC
17933 TATGAGCGGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.16, C:0.22, G:0.12, T:0.50
Consensus pattern (9 bp):
TTTTCACAG
Found at i:21054 original size:21 final size:21
Alignment explanation
Indices: 21016--21056 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21006 AAAATTATTC
*
21016 AAATAATCATATATAAAATAA
1 AAATAATCATATAAAAAATAA
21037 AAATAAT-ATAATAAAAAATA
1 AAATAATCAT-ATAAAAAATA
21057 GTTTTACCTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AAATAATCATATAAAAAATAA
Found at i:21367 original size:29 final size:30
Alignment explanation
Indices: 21329--21387 Score: 77
Period size: 29 Copynumber: 2.0 Consensus size: 30
21319 GTGTTTTGTC
* *
21329 AGAAATGGTG-CTAGATCGGTAA-TATTAAG
1 AGAAAGGGTGACT-GATAGGTAATTATTAAG
21358 AGAAAGGGTGACTGATAGGTAATTATTAAG
1 AGAAAGGGTGACTGATAGGTAATTATTAAG
21388 TGTACGGGTG
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
29 17 0.65
30 9 0.35
ACGTcount: A:0.39, C:0.05, G:0.29, T:0.27
Consensus pattern (30 bp):
AGAAAGGGTGACTGATAGGTAATTATTAAG
Found at i:24921 original size:2 final size:2
Alignment explanation
Indices: 24916--24941 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
24906 ACACACACAC
24916 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
24942 TTATGTGGTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:27051 original size:31 final size:31
Alignment explanation
Indices: 27013--27090 Score: 102
Period size: 31 Copynumber: 2.5 Consensus size: 31
27003 AAGTTACATC
*
27013 AGGGATCATATTGCAAACGGATTAAATATTG
1 AGGGATCATATTGCAAACGGACTAAATATTG
* *
27044 AGGGATCATATTACAAACGGACTAAATGTTG
1 AGGGATCATATTGCAAACGGACTAAATATTG
* **
27075 GGGGATTGTATTGCAA
1 AGGGATCATATTGCAA
27091 GTTTTAAAAG
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
31 40 1.00
ACGTcount: A:0.36, C:0.10, G:0.26, T:0.28
Consensus pattern (31 bp):
AGGGATCATATTGCAAACGGACTAAATATTG
Found at i:27700 original size:21 final size:21
Alignment explanation
Indices: 27658--27701 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
27648 GATAAAAAAA
* *
27658 TTATCTGAAACATTATTATTT
1 TTATCTAAAACATTAATATTT
*
27679 TTATCTAAAACATTAATGTTT
1 TTATCTAAAACATTAATATTT
27700 TT
1 TT
27702 TAAAATTTTC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.34, C:0.09, G:0.05, T:0.52
Consensus pattern (21 bp):
TTATCTAAAACATTAATATTT
Found at i:27753 original size:21 final size:21
Alignment explanation
Indices: 27727--27792 Score: 64
Period size: 21 Copynumber: 3.2 Consensus size: 21
27717 AGTGTCCAAC
*
27727 AATAACAAAATCGGTAGAAAA
1 AATAACAAAATCGGTAGAAAT
* * **
27748 AATAACTAAAGC-GT-CTAAT
1 AATAACAAAATCGGTAGAAAT
*
27767 AATAACAAAATCGATAGAAAT
1 AATAACAAAATCGGTAGAAAT
27788 AATAA
1 AATAA
27793 TGTTTACGGT
Statistics
Matches: 33, Mismatches: 10, Indels: 4
0.70 0.21 0.09
Matches are distributed among these distances:
19 12 0.36
20 3 0.09
21 18 0.55
ACGTcount: A:0.59, C:0.11, G:0.11, T:0.20
Consensus pattern (21 bp):
AATAACAAAATCGGTAGAAAT
Found at i:28387 original size:31 final size:31
Alignment explanation
Indices: 28352--28410 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
28342 ACAATCCCCT
**
28352 AACATTTAGTTTGTTTGCAATATGGTCCTTC
1 AACATTTAGTCCGTTTGCAATATGGTCCTTC
28383 AACATTTAGTCCGTTTGCAATATGGTCC
1 AACATTTAGTCCGTTTGCAATATGGTCC
28411 CCCAACAGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.24, C:0.19, G:0.17, T:0.41
Consensus pattern (31 bp):
AACATTTAGTCCGTTTGCAATATGGTCCTTC
Found at i:28417 original size:31 final size:31
Alignment explanation
Indices: 28346--28417 Score: 99
Period size: 31 Copynumber: 2.3 Consensus size: 31
28336 TGTAATACAA
* **
28346 TCCCCTAACATTTAGTTTGTTTGCAATATGG
1 TCCCCCAACATTTAGTCCGTTTGCAATATGG
**
28377 TCCTTCAACATTTAGTCCGTTTGCAATATGG
1 TCCCCCAACATTTAGTCCGTTTGCAATATGG
28408 TCCCCCAACA
1 TCCCCCAACA
28418 GTTACATCGG
Statistics
Matches: 34, Mismatches: 7, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 34 1.00
ACGTcount: A:0.24, C:0.26, G:0.14, T:0.36
Consensus pattern (31 bp):
TCCCCCAACATTTAGTCCGTTTGCAATATGG
Found at i:29433 original size:19 final size:19
Alignment explanation
Indices: 29409--29450 Score: 84
Period size: 19 Copynumber: 2.2 Consensus size: 19
29399 AATCATTTAC
29409 ATACTGTAATACAAGATAT
1 ATACTGTAATACAAGATAT
29428 ATACTGTAATACAAGATAT
1 ATACTGTAATACAAGATAT
29447 ATAC
1 ATAC
29451 ATTTGTTGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.48, C:0.12, G:0.10, T:0.31
Consensus pattern (19 bp):
ATACTGTAATACAAGATAT
Found at i:32639 original size:38 final size:38
Alignment explanation
Indices: 32597--32672 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
32587 ATTATTCTAA
32597 AAAAATGAATAAGAGTCC-AAATAACTCAAGTATTAAAG
1 AAAAATGAATAAGAG-CCAAAATAACTCAAGTATTAAAG
*
32635 AAAAATGAATAAGAGCCAAAATGACTCAAGTATTAAAG
1 AAAAATGAATAAGAGCCAAAATAACTCAAGTATTAAAG
32673 GTATTTACAA
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
37 2 0.06
38 34 0.94
ACGTcount: A:0.55, C:0.11, G:0.14, T:0.20
Consensus pattern (38 bp):
AAAAATGAATAAGAGCCAAAATAACTCAAGTATTAAAG
Found at i:32922 original size:13 final size:13
Alignment explanation
Indices: 32904--32944 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
32894 TAAATTTTAA
*
32904 ATAATAAAAATAT
1 ATAATAAAATTAT
32917 ATAATAAAATTAAT
1 ATAATAAAATT-AT
*
32931 ATACTAAAATTAT
1 ATAATAAAATTAT
32944 A
1 A
32945 ACAATCCAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
13 13 0.52
14 12 0.48
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAATAAAATTAT
Found at i:32938 original size:14 final size:14
Alignment explanation
Indices: 32900--32942 Score: 54
Period size: 14 Copynumber: 3.2 Consensus size: 14
32890 CATATAAATT
32900 TTAA-ATAATAAAA
1 TTAATATAATAAAA
*
32913 AT-ATATAATAAAA
1 TTAATATAATAAAA
*
32926 TTAATATACTAAAA
1 TTAATATAATAAAA
32940 TTA
1 TTA
32943 TAACAATCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
12 1 0.04
13 11 0.44
14 13 0.52
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (14 bp):
TTAATATAATAAAA
Found at i:44980 original size:18 final size:17
Alignment explanation
Indices: 44957--45007 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 17
44947 AAAAATTAGT
44957 ATAATAAAATATAATAAA
1 ATAAT-AAATATAATAAA
*
44975 ATAAT-AATAT-ATTAA
1 ATAATAAATATAATAAA
44990 ATGAATATAATATAATAA
1 AT-AATA-AATATAATAA
45008 GAAAAGTTTT
Statistics
Matches: 27, Mismatches: 2, Indels: 7
0.75 0.06 0.19
Matches are distributed among these distances:
15 6 0.22
16 8 0.30
18 10 0.37
19 3 0.11
ACGTcount: A:0.65, C:0.00, G:0.02, T:0.33
Consensus pattern (17 bp):
ATAATAAATATAATAAA
Found at i:46179 original size:19 final size:19
Alignment explanation
Indices: 46155--46201 Score: 85
Period size: 19 Copynumber: 2.5 Consensus size: 19
46145 CCTCACCCAA
46155 AGCTAATGACTAATTAATT
1 AGCTAATGACTAATTAATT
46174 AGCTAATGACTAATTAATT
1 AGCTAATGACTAATTAATT
*
46193 AGCAAATGA
1 AGCTAATGA
46202 TGAACTTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 27 1.00
ACGTcount: A:0.45, C:0.11, G:0.13, T:0.32
Consensus pattern (19 bp):
AGCTAATGACTAATTAATT
Found at i:50233 original size:9 final size:9
Alignment explanation
Indices: 50219--50262 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
50209 ATTTGATCGG
50219 ACTAGTCCA
1 ACTAGTCCA
50228 ACTAGTCCTA
1 ACTAGTCC-A
* *
50238 GCTA-TCGA
1 ACTAGTCCA
50246 ACTAGTCCA
1 ACTAGTCCA
50255 ACTAGTCC
1 ACTAGTCC
50263 TAGCTATCGA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 4 0.14
9 21 0.72
10 4 0.14
ACGTcount: A:0.30, C:0.32, G:0.14, T:0.25
Consensus pattern (9 bp):
ACTAGTCCA
Found at i:50249 original size:27 final size:27
Alignment explanation
Indices: 50214--50274 Score: 113
Period size: 27 Copynumber: 2.3 Consensus size: 27
50204 TTCCAATTTG
*
50214 ATCGGACTAGTCCAACTAGTCCTAGCT
1 ATCGAACTAGTCCAACTAGTCCTAGCT
50241 ATCGAACTAGTCCAACTAGTCCTAGCT
1 ATCGAACTAGTCCAACTAGTCCTAGCT
50268 ATCGAAC
1 ATCGAAC
50275 AATTATGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 33 1.00
ACGTcount: A:0.30, C:0.30, G:0.16, T:0.25
Consensus pattern (27 bp):
ATCGAACTAGTCCAACTAGTCCTAGCT
Found at i:53522 original size:26 final size:29
Alignment explanation
Indices: 53464--53522 Score: 79
Period size: 26 Copynumber: 2.1 Consensus size: 29
53454 AATCAACAAC
*
53464 TTTATTATTTTTTCCAACTAAAAAAATAC
1 TTTATTATTTTTTCCAACTAAAAAAATAA
*
53493 TTTATTA-TTTTTCTAA-T-AAAAAATAA
1 TTTATTATTTTTTCCAACTAAAAAAATAA
53519 TTTA
1 TTTA
53523 AATTTGACGA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
26 12 0.43
27 1 0.04
28 8 0.29
29 7 0.25
ACGTcount: A:0.42, C:0.08, G:0.00, T:0.49
Consensus pattern (29 bp):
TTTATTATTTTTTCCAACTAAAAAAATAA
Found at i:59041 original size:20 final size:19
Alignment explanation
Indices: 59009--59046 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 19
58999 CCCTTTCGGC
59009 CCTTCTTCTTCTTCAGCTTG
1 CCTTCTTCTTCTT-AGCTTG
59029 CCTTCTT-TATCTTAGCTT
1 CCTTCTTCT-TCTTAGCTT
59047 CTTCATCATC
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
19 6 0.35
20 11 0.65
ACGTcount: A:0.08, C:0.32, G:0.08, T:0.53
Consensus pattern (19 bp):
CCTTCTTCTTCTTAGCTTG
Found at i:64013 original size:14 final size:14
Alignment explanation
Indices: 63971--64020 Score: 64
Period size: 14 Copynumber: 3.6 Consensus size: 14
63961 GGTGTTCTGG
63971 TTTAAGTGTTATGT
1 TTTAAGTGTTATGT
** *
63985 AATCAGTGTTATGT
1 TTTAAGTGTTATGT
63999 TTTAAGTGTTATGT
1 TTTAAGTGTTATGT
*
64013 TGTAAGTG
1 TTTAAGTG
64021 GTTAGTGGTT
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.24, C:0.02, G:0.24, T:0.50
Consensus pattern (14 bp):
TTTAAGTGTTATGT
Found at i:64020 original size:28 final size:28
Alignment explanation
Indices: 63962--64030 Score: 75
Period size: 28 Copynumber: 2.4 Consensus size: 28
63952 TTTCTGAAGG
* *
63962 GTGTTCTGGTTTAAGTGTTATGTAATCA
1 GTGTTATGGTTTAAGTGTTATGTAATAA
* **
63990 GTGTTATGTTTTAAGTGTTATGTTGTAA
1 GTGTTATGGTTTAAGTGTTATGTAATAA
64018 GTGGTTAGTGGTT
1 GT-GTTA-TGGTT
64031 AGGGACTGGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
28 25 0.76
29 4 0.12
30 4 0.12
ACGTcount: A:0.19, C:0.03, G:0.29, T:0.49
Consensus pattern (28 bp):
GTGTTATGGTTTAAGTGTTATGTAATAA
Found at i:70021 original size:21 final size:21
Alignment explanation
Indices: 69995--70034 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
69985 TGATGTCAAT
* *
69995 TCGACTCGTTGTTCGTTAATC
1 TCGACTCATTATTCGTTAATC
70016 TCGACTCATTATTCGTTAA
1 TCGACTCATTATTCGTTAA
70035 GTTCACTAAA
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:0.20, C:0.23, G:0.15, T:0.42
Consensus pattern (21 bp):
TCGACTCATTATTCGTTAATC
Found at i:71019 original size:16 final size:17
Alignment explanation
Indices: 71000--71034 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
70990 AAGTAATTAG
71000 TTATTTTAATA-TTATT
1 TTATTTTAATATTTATT
*
71016 TTATTTTAGTATTTATT
1 TTATTTTAATATTTATT
71033 TT
1 TT
71035 TATTCATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 10 0.59
17 7 0.41
ACGTcount: A:0.26, C:0.00, G:0.03, T:0.71
Consensus pattern (17 bp):
TTATTTTAATATTTATT
Found at i:75336 original size:166 final size:163
Alignment explanation
Indices: 75074--75382 Score: 399
Period size: 166 Copynumber: 1.9 Consensus size: 163
75064 GTGATGTCAT
* *
75074 AGTGTTTTCTATTATTATTCAGAGAATCTCTTATATCATAATGTTCATCACATCTAAAATGAAAT
1 AGTGTTTTCTATTATTATTCAGAAAATATCTTATATCATAATGTTCATCACATCTAAAATGAAAT
* * * * * *
75139 GTGCATTCCAGGGGAAGCGTTTTTAATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCA
66 GCGCATTCCAAGGGAAGCGTTTTTAATTATTATTCAGAGAATCTATGACATGTCATAATGTTCAA
*
75204 TCCCATTTGAAATAAAATACGCATTCTAGGGTA
131 TCCCATTCGAAATAAAATACGCATTCTAGGGTA
* * * *
75237 AGTGTTTTAC-ATTATTGTTCAGAAAATATCTATCATGTCATAATGTTCAATCCCATCTGAAATG
1 AGTGTTTT-CTATTATTATTCAGAAAATATCT-T-ATATCATAATGTTC-ATCACATCTAAAATG
* * *
75301 AAA-GACGCGTTTCAAGGGAAGTGTTTTCT-ATTATTATTCAGAGAATCTATGACATGTCATAAT
62 AAATG-CGCATTCCAAGGGAAGCGTTTT-TAATTATTATTCAGAGAATCTATGACATGTCATAAT
75364 GTTCAATCCCATTCGAAAT
125 GTTCAATCCCATTCGAAAT
75383 GAAGGCACGT
Statistics
Matches: 124, Mismatches: 16, Indels: 9
0.83 0.11 0.06
Matches are distributed among these distances:
163 26 0.21
164 2 0.02
165 14 0.11
166 81 0.65
167 1 0.01
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.37
Consensus pattern (163 bp):
AGTGTTTTCTATTATTATTCAGAAAATATCTTATATCATAATGTTCATCACATCTAAAATGAAAT
GCGCATTCCAAGGGAAGCGTTTTTAATTATTATTCAGAGAATCTATGACATGTCATAATGTTCAA
TCCCATTCGAAATAAAATACGCATTCTAGGGTA
Found at i:75383 original size:83 final size:80
Alignment explanation
Indices: 75074--75385 Score: 301
Period size: 83 Copynumber: 3.8 Consensus size: 80
75064 GTGATGTCAT
* * * * *
75074 AGTGTTTTCTATTATTATTCAGAGAATCTCTTATATCATAATGTTC-ATCACATCTAAAATGAAA
1 AGTGTTTTCTATTATTATTCAGAGAATCTATCATGTCATAATGTTCAATCCCATCTGAAATGAAA
* * *
75138 TG-TGCATTCCAGGGGA
66 -GACGC-TTTCAAGGGA
* * * * * *
75154 AGCGTTTT-TAATTATTATTCAGAGAATCTCTGCCATGTCATAGTGTTCCATCCCATTTGAAATA
1 AGTGTTTTCT-ATTATTATTCAGAGAATCTAT--CATGTCATAATGTTCAATCCCATCTGAAATG
* * *
75218 AAATACGCATTCTAGGGTA
63 AAAGACGCTTTCAAGGG-A
* *
75237 AGTGTTTTAC-ATTATTGTTCAGAAAATATCTATCATGTCATAATGTTCAATCCCATCTGAAATG
1 AGTGTTTT-CTATTATTATTCAG-AGA-ATCTATCATGTCATAATGTTCAATCCCATCTGAAATG
75301 AAAGACGCGTTTCAAGGGA
63 AAAGACGC-TTTCAAGGGA
75320 AGTGTTTTCTATTATTATTCAGAGAATCTATGACATGTCATAATGTTCAATCCCAT-TCGAAATG
1 AGTGTTTTCTATTATTATTCAGAGAATCTAT--CATGTCATAATGTTCAATCCCATCT-GAAATG
75384 AA
63 AA
75386 GGCACGTTCC
Statistics
Matches: 190, Mismatches: 27, Indels: 27
0.78 0.11 0.11
Matches are distributed among these distances:
79 1 0.01
80 28 0.15
81 6 0.03
82 21 0.11
83 120 0.63
84 9 0.05
85 5 0.03
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (80 bp):
AGTGTTTTCTATTATTATTCAGAGAATCTATCATGTCATAATGTTCAATCCCATCTGAAATGAAA
GACGCTTTCAAGGGA
Found at i:75604 original size:16 final size:16
Alignment explanation
Indices: 75585--75632 Score: 55
Period size: 16 Copynumber: 3.0 Consensus size: 16
75575 ACTTCGTATC
75585 TTTAAAATCTCAAACT
1 TTTAAAATCTCAAACT
*
75601 TTTAAACGT-TCAAAC-
1 TTTAAA-ATCTCAAACT
75616 TTTAAAACTCTCAAACT
1 TTTAAAA-TCTCAAACT
75633 AAGAAAATGA
Statistics
Matches: 26, Mismatches: 2, Indels: 7
0.74 0.06 0.20
Matches are distributed among these distances:
15 7 0.27
16 18 0.69
17 1 0.04
ACGTcount: A:0.42, C:0.21, G:0.02, T:0.35
Consensus pattern (16 bp):
TTTAAAATCTCAAACT
Done.