Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003757.1 Hibiscus syriacus cultivar Beakdansim tig00008049_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: 73942
ACGTcount: A:0.32, C:0.18, G:0.19, T:0.32
Found at i:9710 original size:211 final size:212
Alignment explanation
Indices: 9346--9777 Score: 751
Period size: 211 Copynumber: 2.0 Consensus size: 212
9336 AAGCATTGTG
*
9346 AACTACCACATCAGCACTGTAACGTTCAACAACAAAAACACATTGGCCAAGGGATCACATTAAAT
1 AACTACCACATCAGCACTGTAACGGTCAACAACAAAAACACATTGGCCAAGGGATCACATTAAAT
* * * * *
9411 TTATTTTTTGAGTTGAAAGGCTACAATGAAAGAAAAATAATACGAATGTGACTTTGATTTTTTTT
66 TTATTTTCTAAGTTAAAAGGCTACAATGAAAGAAAAATAATACGAATGTGACGTTGATTTATTTT
9476 CAAAAGTGCATGACCTCTGAA-TTTTTTTTGCCTTCAAACTTTATTTTAATGTCCCCTCGCCTTA
131 CAAAAGTGCATGACCTCTGAATTTTTTTTTGCCTTCAAACTTTATTTTAATGTCCCCTCGCCTTA
9540 TGTAGTAAAAGTTGGGA
196 TGTAGTAAAAGTTGGGA
* *
9557 AACTACCACATCATCACTGTAACGGTCAACAACAAAATA-ACGTTGGCCAAGGGATCACATTAAA
1 AACTACCACATCAGCACTGTAACGGTCAACAACAAAA-ACACATTGGCCAAGGGATCACATTAAA
*
9621 TTTATTTTCTAAGTTAAAAGGCTACAATGAAAGAAAAATAATTCGAATGTGACGTTGATTTATTT
65 TTTATTTTCTAAGTTAAAAGGCTACAATGAAAGAAAAATAATACGAATGTGACGTTGATTTATTT
9686 TCAAAAGTGCATGACCTCTGAATTTTTTTTTTGCCTTCAAACTTTATTTTAATGTCCCCTCGCCT
130 TCAAAAGTGCATGACCTCTGAA-TTTTTTTTTGCCTTCAAACTTTATTTTAATGTCCCCTCGCCT
9751 TATGTAGTAAAAGTTGGGA
194 TATGTAGTAAAAGTTGGGA
9770 AACTACCA
1 AACTACCA
9778 GCAAATGGTC
Statistics
Matches: 209, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
211 140 0.67
212 1 0.00
213 68 0.33
ACGTcount: A:0.34, C:0.18, G:0.15, T:0.33
Consensus pattern (212 bp):
AACTACCACATCAGCACTGTAACGGTCAACAACAAAAACACATTGGCCAAGGGATCACATTAAAT
TTATTTTCTAAGTTAAAAGGCTACAATGAAAGAAAAATAATACGAATGTGACGTTGATTTATTTT
CAAAAGTGCATGACCTCTGAATTTTTTTTTGCCTTCAAACTTTATTTTAATGTCCCCTCGCCTTA
TGTAGTAAAAGTTGGGA
Found at i:21467 original size:13 final size:13
Alignment explanation
Indices: 21449--21478 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
21439 CATATCATTC
*
21449 ATCACGTTAATCT
1 ATCACGTTAAACT
21462 ATCACGTTAAACT
1 ATCACGTTAAACT
21475 ATCA
1 ATCA
21479 TGTGAACTCC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.37, C:0.23, G:0.07, T:0.33
Consensus pattern (13 bp):
ATCACGTTAAACT
Found at i:22773 original size:16 final size:16
Alignment explanation
Indices: 22752--22782 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
22742 TAAAAAATAA
22752 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
22768 ACGAACATAAACGAA
1 ACGAACATAAACGAA
22783 TAAAAAAATT
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:0.58, C:0.23, G:0.13, T:0.06
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:22866 original size:10 final size:10
Alignment explanation
Indices: 22851--22909 Score: 57
Period size: 10 Copynumber: 5.7 Consensus size: 10
22841 CATTTAATAA
22851 ATAAACGAAC
1 ATAAACGAAC
22861 ATAAACGAAC
1 ATAAACGAAC
** *
22871 ACGAAC-ATAA
1 ATAAACGA-AC
22881 ATGAACACGAAC
1 AT-AA-ACGAAC
22893 ATAAACGAAC
1 ATAAACGAAC
22903 ATAAACG
1 ATAAACG
22910 TTGGAGACCC
Statistics
Matches: 39, Mismatches: 6, Indels: 8
0.74 0.11 0.15
Matches are distributed among these distances:
9 1 0.03
10 29 0.74
11 3 0.08
12 5 0.13
13 1 0.03
ACGTcount: A:0.58, C:0.20, G:0.12, T:0.10
Consensus pattern (10 bp):
ATAAACGAAC
Found at i:22876 original size:16 final size:16
Alignment explanation
Indices: 22855--22903 Score: 89
Period size: 16 Copynumber: 3.1 Consensus size: 16
22845 TAATAAATAA
22855 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
*
22871 ACGAACATAAATGAAC
1 ACGAACATAAACGAAC
22887 ACGAACATAAACGAAC
1 ACGAACATAAACGAAC
22903 A
1 A
22904 TAAACGTTGG
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 31 1.00
ACGTcount: A:0.57, C:0.22, G:0.12, T:0.08
Consensus pattern (16 bp):
ACGAACATAAACGAAC
Found at i:23671 original size:14 final size:14
Alignment explanation
Indices: 23654--23709 Score: 66
Period size: 14 Copynumber: 4.3 Consensus size: 14
23644 AATGAACATA
*
23654 AACGAACATAATCG
1 AACGAACATAACCG
23668 AACGAACAT-A---
1 AACGAACATAACCG
*
23678 AACGAACATAACCA
1 AACGAACATAACCG
23692 AACGAACATAACCG
1 AACGAACATAACCG
23706 AACG
1 AACG
23710 TTCACGAACG
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:0.54, C:0.25, G:0.12, T:0.09
Consensus pattern (14 bp):
AACGAACATAACCG
Found at i:23674 original size:24 final size:24
Alignment explanation
Indices: 23634--23708 Score: 98
Period size: 24 Copynumber: 3.1 Consensus size: 24
23624 GATTGTGTTA
*
23634 AACATAAAT-GAATGAACATAAACG
1 AACAT-AATCGAACGAACATAAACG
23658 AACATAATCGAACGAACATAAACG
1 AACATAATCGAACGAACATAAACG
* * *
23682 AACATAACCAAACGAACATAACCG
1 AACATAATCGAACGAACATAAACG
23706 AAC
1 AAC
23709 GTTCACGAAC
Statistics
Matches: 46, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 3 0.07
24 43 0.93
ACGTcount: A:0.56, C:0.21, G:0.11, T:0.12
Consensus pattern (24 bp):
AACATAATCGAACGAACATAAACG
Found at i:25014 original size:42 final size:42
Alignment explanation
Indices: 24959--25060 Score: 134
Period size: 43 Copynumber: 2.4 Consensus size: 42
24949 ATATCAAAAA
* *
24959 AATTAAAATAATATATTTATAATCATGTATTATATTTTAAAT
1 AATTAAAATAATATATTTATAATAATGTACTATATTTTAAAT
* * *
25001 TATTAAAATAATATATTTTATAATAATTTACTATATTTTTAAT
1 AATTAAAATAATATA-TTTATAATAATGTACTATATTTTAAAT
*
25044 AATT-AAATAACATATTT
1 AATTAAAATAATATATTT
25061 TAACATTATA
Statistics
Matches: 52, Mismatches: 7, Indels: 3
0.84 0.11 0.05
Matches are distributed among these distances:
41 3 0.06
42 23 0.44
43 26 0.50
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (42 bp):
AATTAAAATAATATATTTATAATAATGTACTATATTTTAAAT
Found at i:25015 original size:23 final size:22
Alignment explanation
Indices: 24989--25063 Score: 75
Period size: 20 Copynumber: 3.5 Consensus size: 22
24979 AATCATGTAT
*
24989 TATATTTTAAATTATTAAAATAA
1 TATATTTTAAATAATT-AAATAA
*
25012 TATATTTTATAATAATT---TAC
1 TATATTTTA-AATAATTAAATAA
*
25032 TATATTTTTAATAATTAAATAA
1 TATATTTTAAATAATTAAATAA
*
25054 CATATTTTAA
1 TATATTTTAA
25064 CATTATAAAA
Statistics
Matches: 42, Mismatches: 6, Indels: 9
0.74 0.11 0.16
Matches are distributed among these distances:
19 7 0.17
20 10 0.24
22 10 0.24
23 9 0.21
24 6 0.14
ACGTcount: A:0.47, C:0.03, G:0.00, T:0.51
Consensus pattern (22 bp):
TATATTTTAAATAATTAAATAA
Found at i:25036 original size:43 final size:43
Alignment explanation
Indices: 24959--25062 Score: 140
Period size: 42 Copynumber: 2.5 Consensus size: 43
24949 ATATCAAAAA
* *
24959 AATTAAAATAATATA-TTTATAATCATGTATTATATTTTAAAT
1 AATTAAAATAATATATTTTATAATAATGTACTATATTTTAAAT
* * *
25001 TATTAAAATAATATATTTTATAATAATTTACTATATTTTTAAT
1 AATTAAAATAATATATTTTATAATAATGTACTATATTTTAAAT
*
25044 AATT-AAATAACATATTTTA
1 AATTAAAATAATATATTTTA
25063 ACATTATAAA
Statistics
Matches: 54, Mismatches: 7, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
42 28 0.52
43 26 0.48
ACGTcount: A:0.47, C:0.03, G:0.01, T:0.49
Consensus pattern (43 bp):
AATTAAAATAATATATTTTATAATAATGTACTATATTTTAAAT
Found at i:25058 original size:22 final size:22
Alignment explanation
Indices: 24990--25061 Score: 62
Period size: 19 Copynumber: 3.3 Consensus size: 22
24980 ATCATGTATT
* * *
24990 ATATTTTAAATTATTAAAATAAT
1 ATATTTTTAATAATT-AAATAAC
25013 ATATTTTATAATAATT---T-AC
1 ATATTTT-TAATAATTAAATAAC
25032 TATATTTTTAATAATTAAATAAC
1 -ATATTTTTAATAATTAAATAAC
25055 ATATTTT
1 ATATTTT
25062 AACATTATAA
Statistics
Matches: 40, Mismatches: 3, Indels: 13
0.71 0.05 0.23
Matches are distributed among these distances:
19 9 0.22
20 8 0.20
22 8 0.20
23 9 0.22
24 6 0.15
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (22 bp):
ATATTTTTAATAATTAAATAAC
Found at i:25102 original size:2 final size:2
Alignment explanation
Indices: 25095--25119 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
25085 AAAATCTTAA
25095 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 A
25120 ACTGGATCAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:25956 original size:16 final size:16
Alignment explanation
Indices: 25937--25971 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
25927 TGAAATACTC
*
25937 CATGTATGTATGAATG
1 CATGTAGGTATGAATG
*
25953 CATGTAGGTATGTATG
1 CATGTAGGTATGAATG
25969 CAT
1 CAT
25972 ATATATAGAG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.29, C:0.09, G:0.26, T:0.37
Consensus pattern (16 bp):
CATGTAGGTATGAATG
Found at i:36805 original size:14 final size:14
Alignment explanation
Indices: 36764--36805 Score: 54
Period size: 11 Copynumber: 3.1 Consensus size: 14
36754 TTTTATATTT
36764 TTAAAAATTACATTA
1 TTAAAAA-TACATTA
36779 TTAAAAAT--A-TA
1 TTAAAAATACATTA
36790 TTAAAAATACATTA
1 TTAAAAATACATTA
36804 TT
1 TT
36806 GATGAATAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
11 10 0.42
12 1 0.04
13 1 0.04
14 5 0.21
15 7 0.29
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.40
Consensus pattern (14 bp):
TTAAAAATACATTA
Found at i:37147 original size:21 final size:21
Alignment explanation
Indices: 37123--37166 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
37113 GGTTTAAAGT
*
37123 TTAGAGTTTAGGTTTTATATG
1 TTAGAGTTTAGGGTTTATATG
* *
37144 TTAGTGTTTAGGGTTTATGTG
1 TTAGAGTTTAGGGTTTATATG
37165 TT
1 TT
37167 CGATTTAAGT
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:0.18, C:0.00, G:0.27, T:0.55
Consensus pattern (21 bp):
TTAGAGTTTAGGGTTTATATG
Found at i:37500 original size:12 final size:12
Alignment explanation
Indices: 37485--37539 Score: 92
Period size: 12 Copynumber: 4.6 Consensus size: 12
37475 GAGCTTGAAT
37485 CGAGCTCAAAAG
1 CGAGCTCAAAAG
*
37497 CGAGCTCAAAAT
1 CGAGCTCAAAAG
37509 CGAGCTCAAAAG
1 CGAGCTCAAAAG
*
37521 CGAGCTCAAAAT
1 CGAGCTCAAAAG
37533 CGAGCTC
1 CGAGCTC
37540 GAGTCTCGAG
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
12 40 1.00
ACGTcount: A:0.38, C:0.27, G:0.22, T:0.13
Consensus pattern (12 bp):
CGAGCTCAAAAG
Found at i:37511 original size:24 final size:24
Alignment explanation
Indices: 37482--37539 Score: 116
Period size: 24 Copynumber: 2.4 Consensus size: 24
37472 TTCGAGCTTG
37482 AATCGAGCTCAAAAGCGAGCTCAA
1 AATCGAGCTCAAAAGCGAGCTCAA
37506 AATCGAGCTCAAAAGCGAGCTCAA
1 AATCGAGCTCAAAAGCGAGCTCAA
37530 AATCGAGCTC
1 AATCGAGCTC
37540 GAGTCTCGAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 34 1.00
ACGTcount: A:0.40, C:0.26, G:0.21, T:0.14
Consensus pattern (24 bp):
AATCGAGCTCAAAAGCGAGCTCAA
Found at i:38174 original size:21 final size:21
Alignment explanation
Indices: 38133--38175 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
38123 ACCCTAAAAA
*
38133 TAAAAAATATTTTATTGCGAG
1 TAAAAAATATTTTATTACGAG
38154 TAAAAAATA-TTTATTTACGAG
1 TAAAAAATATTTTA-TTACGAG
38175 T
1 T
38176 TATAAATTTT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.44, C:0.05, G:0.12, T:0.40
Consensus pattern (21 bp):
TAAAAAATATTTTATTACGAG
Found at i:38488 original size:22 final size:20
Alignment explanation
Indices: 38454--38501 Score: 60
Period size: 21 Copynumber: 2.3 Consensus size: 20
38444 ATAATTATTT
38454 AAAAAATTAAATAAAAATACC
1 AAAAAATTAAATAAAAA-ACC
* *
38475 AAAAATATTTAATAAAAAATC
1 AAAAA-ATTAAATAAAAAACC
38496 AAAAAA
1 AAAAAA
38502 ATGTAGGTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 1 0.04
21 12 0.50
22 11 0.46
ACGTcount: A:0.73, C:0.06, G:0.00, T:0.21
Consensus pattern (20 bp):
AAAAAATTAAATAAAAAACC
Found at i:38844 original size:7 final size:7
Alignment explanation
Indices: 38832--38858 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
38822 CTACATGAAC
38832 TAGCCAT
1 TAGCCAT
38839 TAGCCAT
1 TAGCCAT
38846 TAGCCAT
1 TAGCCAT
38853 TAGCCA
1 TAGCCA
38859 ATTCATTTAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.26
Consensus pattern (7 bp):
TAGCCAT
Found at i:49418 original size:31 final size:31
Alignment explanation
Indices: 49383--49442 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 31
49373 TAAAAATAAG
*
49383 TGTCTAACGTTTTTTCTATTATACTTTTAGA
1 TGTCTAACGTTTTCTCTATTATACTTTTAGA
* * *
49414 TGTCTTACGTTTTCTCTGTTATATTTTTA
1 TGTCTAACGTTTTCTCTATTATACTTTTA
49443 AGTATTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 25 1.00
ACGTcount: A:0.18, C:0.13, G:0.10, T:0.58
Consensus pattern (31 bp):
TGTCTAACGTTTTCTCTATTATACTTTTAGA
Found at i:49950 original size:29 final size:29
Alignment explanation
Indices: 49908--49977 Score: 122
Period size: 29 Copynumber: 2.4 Consensus size: 29
49898 AACCAAAATG
49908 TAAATTTTGAAACTTTGATGGCTAAAGTA
1 TAAATTTTGAAACTTTGATGGCTAAAGTA
49937 TAAATTTTGAAACTTTGATGGCTAAAGTA
1 TAAATTTTGAAACTTTGATGGCTAAAGTA
* *
49966 TACATTTGGAAA
1 TAAATTTTGAAA
49978 AGTTTAGGGA
Statistics
Matches: 39, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
29 39 1.00
ACGTcount: A:0.39, C:0.07, G:0.17, T:0.37
Consensus pattern (29 bp):
TAAATTTTGAAACTTTGATGGCTAAAGTA
Found at i:51419 original size:20 final size:21
Alignment explanation
Indices: 51390--51430 Score: 57
Period size: 20 Copynumber: 2.0 Consensus size: 21
51380 TTGACGAGGA
51390 AATAAATATTTATG-GAATTT
1 AATAAATATTTATGAGAATTT
* *
51410 AATAAGTATTTGTGAGAATTT
1 AATAAATATTTATGAGAATTT
51431 TAAGTTTATG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 12 0.67
21 6 0.33
ACGTcount: A:0.41, C:0.00, G:0.15, T:0.44
Consensus pattern (21 bp):
AATAAATATTTATGAGAATTT
Found at i:54783 original size:39 final size:39
Alignment explanation
Indices: 54729--54810 Score: 146
Period size: 39 Copynumber: 2.1 Consensus size: 39
54719 TGTTGTATTG
54729 TATACAATCAAGGTAATACAAAACATGATAATATATATA
1 TATACAATCAAGGTAATACAAAACATGATAATATATATA
* *
54768 TATACAATCACGGTAATACAAAACATGATATTATATATA
1 TATACAATCAAGGTAATACAAAACATGATAATATATATA
54807 TATA
1 TATA
54811 TATATACACA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 41 1.00
ACGTcount: A:0.51, C:0.11, G:0.07, T:0.30
Consensus pattern (39 bp):
TATACAATCAAGGTAATACAAAACATGATAATATATATA
Found at i:55807 original size:39 final size:39
Alignment explanation
Indices: 55753--55831 Score: 122
Period size: 39 Copynumber: 2.0 Consensus size: 39
55743 GATTAATGGT
* *
55753 CCAGCTTGATTAATGTCAACTAGTTCTTATATATAAGAA
1 CCAGCATGATTAATGTCAACTACTTCTTATATATAAGAA
* *
55792 CCAGCATGATTAATGTCAAGTTCTTCTTATATATAAGAA
1 CCAGCATGATTAATGTCAACTACTTCTTATATATAAGAA
55831 C
1 C
55832 TAGTGTGTTG
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.35, C:0.16, G:0.13, T:0.35
Consensus pattern (39 bp):
CCAGCATGATTAATGTCAACTACTTCTTATATATAAGAA
Found at i:68554 original size:33 final size:33
Alignment explanation
Indices: 68517--68625 Score: 118
Period size: 32 Copynumber: 3.3 Consensus size: 33
68507 CAAAACAATC
68517 TTCAATTTCATTCTAAACCAAATTCCAAAATAA
1 TTCAATTTCATTCTAAACCAAATTCCAAAATAA
68550 TTCAA-TTCATTCTAAACACTAAATT-C-AAATAA
1 TTCAATTTCATTCTAAAC-C-AAATTCCAAAATAA
* * *
68582 TTCAATTACACTT-TAAAACCCAAATTCTAAAATAC
1 TTCAATTTCA-TTCT-AAA-CCAAATTCCAAAATAA
68617 TTCAATTTC
1 TTCAATTTC
68626 TGTCTTTTTT
Statistics
Matches: 64, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
32 23 0.36
33 16 0.25
34 11 0.17
35 14 0.22
ACGTcount: A:0.44, C:0.21, G:0.00, T:0.35
Consensus pattern (33 bp):
TTCAATTTCATTCTAAACCAAATTCCAAAATAA
Found at i:69695 original size:33 final size:33
Alignment explanation
Indices: 69649--69755 Score: 128
Period size: 33 Copynumber: 3.2 Consensus size: 33
69639 ATTCCTCCTT
*
69649 AAATTGAAATATTTAGAATTTGGGTTTAGAATG
1 AAATTGAATTATTTAGAATTTGGGTTTAGAATG
* * *
69682 TAATTGAATTATTTTGTAATTTAGGTTT--AATG
1 AAATTGAATTATTTAG-AATTTGGGTTTAGAATG
*
69714 AAATTGAATTACTTTGGAATTTGAGGTTTAGAATG
1 AAATTGAATTA-TTTAGAATTTG-GGTTTAGAATG
69749 AAATTGA
1 AAATTGA
69756 TGAATGTTTT
Statistics
Matches: 62, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
32 19 0.31
33 22 0.35
34 10 0.16
35 11 0.18
ACGTcount: A:0.36, C:0.01, G:0.20, T:0.43
Consensus pattern (33 bp):
AAATTGAATTATTTAGAATTTGGGTTTAGAATG
Done.