Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006548.1 Hibiscus syriacus cultivar Beakdansim tig00015992_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: 107771
ACGTcount: A:0.31, C:0.18, G:0.19, T:0.32
Found at i:10573 original size:21 final size:22
Alignment explanation
Indices: 10549--10599 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
10539 TTGGAGTGCA
10549 AAAAGAAAAGACA-AAAAGAAG
1 AAAAGAAAAGACAGAAAAGAAG
**
10570 AAAA-AAAATTCAGAAAAGAAG
1 AAAAGAAAAGACAGAAAAGAAG
10591 AAAAGAAAA
1 AAAAGAAAA
10600 AGAAGTTCAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
20 6 0.23
21 16 0.62
22 4 0.15
ACGTcount: A:0.76, C:0.04, G:0.16, T:0.04
Consensus pattern (22 bp):
AAAAGAAAAGACAGAAAAGAAG
Found at i:10599 original size:25 final size:25
Alignment explanation
Indices: 10567--10618 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 25
10557 AGACAAAAAG
*
10567 AAGAAAAA-AAATTCAGAAAAGAAGAA
1 AAGAAAAAGAAGTTCA-AAAAG-AGAA
10593 AAGAAAAAGAAGTTCAAAAAGAGAA
1 AAGAAAAAGAAGTTCAAAAAGAGAA
10618 A
1 A
10619 GCAAGCCAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
25 5 0.21
26 13 0.54
27 6 0.25
ACGTcount: A:0.71, C:0.04, G:0.17, T:0.08
Consensus pattern (25 bp):
AAGAAAAAGAAGTTCAAAAAGAGAA
Found at i:13141 original size:19 final size:20
Alignment explanation
Indices: 13100--13149 Score: 75
Period size: 19 Copynumber: 2.5 Consensus size: 20
13090 GAAATCCCTT
*
13100 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTTAA
13120 TGAAAATACATGA-TTTTAA
1 TGAAAATACATGATTTTTAA
*
13139 TGAAGATACAT
1 TGAAAATACAT
13150 TCTCTTGGCC
Statistics
Matches: 28, Mismatches: 2, Indels: 1
0.90 0.06 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.44, C:0.06, G:0.14, T:0.36
Consensus pattern (20 bp):
TGAAAATACATGATTTTTAA
Found at i:14083 original size:30 final size:31
Alignment explanation
Indices: 14044--14105 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
14034 ACATGCTGCC
**
14044 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
*
14075 ATGA-ATCTAAAACATATGTAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
14105 A
1 A
14106 GCTAAGTAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 24 0.86
31 4 0.14
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:19301 original size:30 final size:31
Alignment explanation
Indices: 19262--19321 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
19252 ACATGCTGCC
**
19262 ATGATATCTAAATGATATGCAAACATAATAA
1 ATGATATCTAAAACATATGCAAACATAATAA
*
19293 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACATATGCAAACATAATA
19322 TAAGCTAAGT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.53, C:0.10, G:0.08, T:0.28
Consensus pattern (31 bp):
ATGATATCTAAAACATATGCAAACATAATAA
Found at i:40541 original size:19 final size:21
Alignment explanation
Indices: 40498--40549 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
40488 GAAACCCCTT
40498 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
40519 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
40538 TGAAGATACATG
1 TGAAAATACATG
40550 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:41497 original size:30 final size:31
Alignment explanation
Indices: 41457--41516 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
41447 ACATGCTGCC
**
41457 ATGATATCTAAATGAAATGCAAACATAATAA
1 ATGATATCTAAAACAAATGCAAACATAATAA
* *
41488 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACAAATGCAAACATAATA
41517 TAAGCTAAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (31 bp):
ATGATATCTAAAACAAATGCAAACATAATAA
Found at i:45012 original size:33 final size:33
Alignment explanation
Indices: 44948--45048 Score: 82
Period size: 33 Copynumber: 3.0 Consensus size: 33
44938 CTTGTTGATG
* * *
44948 AATG-AAGGATGAT-TTAATGGTGATGAAATGGT
1 AATGAAAGGATGATGTTATTGGCG-TGATATGGT
44980 AATGAAAGGATGATGTTATTGGCGTGATATGGT
1 AATGAAAGGATGATGTTATTGGCGTGATATGGT
* * *
45013 GATGGAATATGG-TGATGATATAGGCGTGATAATGGT
1 AAT-GAA-A-GGATGATGTTATTGGCGTGAT-ATGGT
45049 GATGGACAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
32 4 0.07
33 19 0.33
34 10 0.18
35 17 0.30
36 7 0.12
ACGTcount: A:0.33, C:0.02, G:0.34, T:0.32
Consensus pattern (33 bp):
AATGAAAGGATGATGTTATTGGCGTGATATGGT
Found at i:48838 original size:38 final size:37
Alignment explanation
Indices: 48766--48840 Score: 89
Period size: 38 Copynumber: 2.0 Consensus size: 37
48756 AGAAAAAGTT
*
48766 AAGAAAAAGGATAAAGTAATGAAATAAGAAAAGATGA
1 AAGAAAAAGGATAAAGAAATGAAATAAGAAAAGATGA
* **
48803 AAGAAAAAGGA-AATGAAATAGTAAATAAGTGAAGATGA
1 AAGAAAAAGGATAAAGAAAT-G-AAATAAGAAAAGATGA
48841 CTTACAACTC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
36 6 0.19
37 12 0.38
38 14 0.44
ACGTcount: A:0.63, C:0.00, G:0.23, T:0.15
Consensus pattern (37 bp):
AAGAAAAAGGATAAAGAAATGAAATAAGAAAAGATGA
Found at i:49050 original size:17 final size:17
Alignment explanation
Indices: 49028--49063 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
49018 TGTAGGAGTC
49028 TTTTCTTTTCTCTTTTG
1 TTTTCTTTTCTCTTTTG
* *
49045 TTTTCTTTTTTTTTTTG
1 TTTTCTTTTCTCTTTTG
49062 TT
1 TT
49064 GCTTTTTGTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.00, C:0.11, G:0.06, T:0.83
Consensus pattern (17 bp):
TTTTCTTTTCTCTTTTG
Found at i:49472 original size:33 final size:33
Alignment explanation
Indices: 49408--49508 Score: 82
Period size: 33 Copynumber: 3.0 Consensus size: 33
49398 CTTGTTGATG
* * *
49408 AATG-AAGGATGAT-TTAATGGTGATGAAATGGT
1 AATGAAAGGATGATGTTATTGGCG-TGATATGGT
49440 AATGAAAGGATGATGTTATTGGCGTGATATGGT
1 AATGAAAGGATGATGTTATTGGCGTGATATGGT
* * *
49473 GATGGAATATGG-TGATGATATAGGCGTGATAATGGT
1 AAT-GAA-A-GGATGATGTTATTGGCGTGAT-ATGGT
49509 GATGGACAGA
Statistics
Matches: 57, Mismatches: 6, Indels: 8
0.80 0.08 0.11
Matches are distributed among these distances:
32 4 0.07
33 19 0.33
34 10 0.18
35 17 0.30
36 7 0.12
ACGTcount: A:0.33, C:0.02, G:0.34, T:0.32
Consensus pattern (33 bp):
AATGAAAGGATGATGTTATTGGCGTGATATGGT
Found at i:50927 original size:19 final size:21
Alignment explanation
Indices: 50884--50935 Score: 81
Period size: 19 Copynumber: 2.6 Consensus size: 21
50874 GAAACCCCTT
50884 TGAAAATACATGATTTTTAAA
1 TGAAAATACATGATTTTTAAA
50905 TGAAAATACATGA-TTTT-AA
1 TGAAAATACATGATTTTTAAA
*
50924 TGAAGATACATG
1 TGAAAATACATG
50936 CTCTTGGCCG
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 13 0.43
20 4 0.13
21 13 0.43
ACGTcount: A:0.46, C:0.06, G:0.13, T:0.35
Consensus pattern (21 bp):
TGAAAATACATGATTTTTAAA
Found at i:51884 original size:30 final size:31
Alignment explanation
Indices: 51844--51903 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
51834 ACATGCTGCC
**
51844 ATGATATCTAAATGAAATGCAAACATAATAA
1 ATGATATCTAAAACAAATGCAAACATAATAA
* *
51875 ATGA-ATCTAAAACATATGTAAACATAATA
1 ATGATATCTAAAACAAATGCAAACATAATA
51904 TAAAGCTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.55, C:0.10, G:0.08, T:0.27
Consensus pattern (31 bp):
ATGATATCTAAAACAAATGCAAACATAATAA
Found at i:52817 original size:11 final size:13
Alignment explanation
Indices: 52785--52814 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
52775 TGGCCAAAGA
52785 TGAAAAGGTATGT
1 TGAAAAGGTATGT
52798 TGAAAAGGTATG-
1 TGAAAAGGTATGT
52810 TGAAA
1 TGAAA
52815 GGTGTTTAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.43, C:0.00, G:0.30, T:0.27
Consensus pattern (13 bp):
TGAAAAGGTATGT
Found at i:54719 original size:35 final size:37
Alignment explanation
Indices: 54650--54729 Score: 128
Period size: 35 Copynumber: 2.2 Consensus size: 37
54640 ATACTATTTC
*
54650 CATCACCATAATCCATCTTCCATTATCACGCCTATAT
1 CATCACCATAATCCATCTACCATTATCACGCCTATAT
*
54687 CATCACCATAGTCCATC-ACCA-TATCACGCCTATAT
1 CATCACCATAATCCATCTACCATTATCACGCCTATAT
54722 CATCACCA
1 CATCACCA
54730 AATTCTCAAA
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
35 22 0.54
36 3 0.07
37 16 0.39
ACGTcount: A:0.31, C:0.38, G:0.04, T:0.28
Consensus pattern (37 bp):
CATCACCATAATCCATCTACCATTATCACGCCTATAT
Found at i:56645 original size:90 final size:91
Alignment explanation
Indices: 56491--56672 Score: 276
Period size: 90 Copynumber: 2.0 Consensus size: 91
56481 CCTAGAACAC
*
56491 CCATGTGCCTTGCATATGACCAGCCCCCATGTGCCTTGCATGAGGATCATTTAGGCGCCAAGATG
1 CCATGTGCCTTGCATATGAACAGCCCCCATGTGCCTTGCATGAGGATCATTTAGGCGCCAAGATG
*
56556 AAGAGTTCTCTCCCTATTCGGCCAAG
66 AAGAGCTCTCTCCCTATTCGGCCAAG
** * * * *
56582 CCATGTGTTTTGCATGTGAACAG-CCCCATGTGCCTTGCATGTGGTTTATTTAGGCGCCAAGATG
1 CCATGTGCCTTGCATATGAACAGCCCCCATGTGCCTTGCATGAGGATCATTTAGGCGCCAAGATG
*
56646 AAGAGCTCTCTCCCTATTGGGCCAAG
66 AAGAGCTCTCTCCCTATTCGGCCAAG
56672 C
1 C
56673 ATCATTTCCC
Statistics
Matches: 82, Mismatches: 9, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
90 63 0.77
91 19 0.23
ACGTcount: A:0.21, C:0.27, G:0.24, T:0.27
Consensus pattern (91 bp):
CCATGTGCCTTGCATATGAACAGCCCCCATGTGCCTTGCATGAGGATCATTTAGGCGCCAAGATG
AAGAGCTCTCTCCCTATTCGGCCAAG
Found at i:57418 original size:46 final size:46
Alignment explanation
Indices: 57340--57447 Score: 116
Period size: 43 Copynumber: 2.3 Consensus size: 46
57330 ATAACTAATG
57340 AATAAAATAATAATAAACTAAACATATCTTAA-C-TC-TAATTCCT
1 AATAAAATAATAATAAACTAAACATATCTTAACCATCTTAATTCCT
*
57383 AATAAAATAATAAT-AACTAAAGATAATACTTTTAACCCAATCTTAATTCCT
1 AATAAAATAATAATAAACTAAACAT-AT-C--TTAA-CC-ATCTTAATTCCT
57434 AATAAAAATAATAA
1 AAT-AAAATAATAA
57448 ATCTAATCCT
Statistics
Matches: 54, Mismatches: 1, Indels: 11
0.82 0.02 0.17
Matches are distributed among these distances:
42 9 0.17
43 16 0.30
44 1 0.02
46 4 0.07
48 1 0.02
50 2 0.04
51 11 0.20
52 10 0.19
ACGTcount: A:0.54, C:0.14, G:0.01, T:0.31
Consensus pattern (46 bp):
AATAAAATAATAATAAACTAAACATATCTTAACCATCTTAATTCCT
Found at i:61227 original size:19 final size:19
Alignment explanation
Indices: 61175--61216 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
61165 TATTTTGAAA
* *
61175 TTTTGGCTTTTTTTTGTTT
1 TTTTGCCTTTTTTTGGTTT
61194 TTTTGCCTTTTTTTGGTTT
1 TTTTGCCTTTTTTTGGTTT
61213 TTTT
1 TTTT
61217 TTGTTTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.00, C:0.07, G:0.14, T:0.79
Consensus pattern (19 bp):
TTTTGCCTTTTTTTGGTTT
Found at i:62103 original size:25 final size:22
Alignment explanation
Indices: 62074--62119 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
62064 CTTTTAACCC
62074 AATCTTAATTCCTAATAAAATAATA
1 AATC-TAA-TCCTAA-AAAATAATA
*
62099 AATCTAATCCTAAAATATAAT
1 AATCTAATCCTAAAAAATAAT
62120 GCATCATCCT
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
22 7 0.35
23 6 0.30
24 3 0.15
25 4 0.20
ACGTcount: A:0.52, C:0.13, G:0.00, T:0.35
Consensus pattern (22 bp):
AATCTAATCCTAAAAAATAATA
Found at i:68682 original size:24 final size:21
Alignment explanation
Indices: 68647--68689 Score: 50
Period size: 23 Copynumber: 1.9 Consensus size: 21
68637 GGCTCATTCT
*
68647 TTTGAATTTCAAGAGGTACATCC
1 TTTGAATGTCAA-AGG-ACATCC
68670 TTTGAAATGTCAAAGGACAT
1 TTTG-AATGTCAAAGGACAT
68690 ATCTTGTGCA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
22 4 0.22
23 7 0.39
24 7 0.39
ACGTcount: A:0.35, C:0.14, G:0.19, T:0.33
Consensus pattern (21 bp):
TTTGAATGTCAAAGGACATCC
Found at i:72492 original size:14 final size:14
Alignment explanation
Indices: 72473--72515 Score: 52
Period size: 14 Copynumber: 3.1 Consensus size: 14
72463 ATAAGATACT
* *
72473 ATCTATTCATCATC
1 ATCTATCCATCACC
72487 ATCTATCCATCACC
1 ATCTATCCATCACC
*
72501 ATC-CTCCATCACC
1 ATCTATCCATCACC
72514 AT
1 AT
72516 TCACGCCTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
13 11 0.42
14 15 0.58
ACGTcount: A:0.28, C:0.40, G:0.00, T:0.33
Consensus pattern (14 bp):
ATCTATCCATCACC
Found at i:75914 original size:30 final size:31
Alignment explanation
Indices: 75862--75921 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 31
75852 CTTAGCTTTA
**
75862 TATTATGTTTACATATGTTTTAGAT-TCATT
1 TATTATGTTTACATATCATTTAGATATCATT
* *
75892 TATTATGTTTGCATTTCATTTAGATATCAT
1 TATTATGTTTACATATCATTTAGATATCAT
75922 GGCAGCATGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
30 21 0.84
31 4 0.16
ACGTcount: A:0.27, C:0.08, G:0.10, T:0.55
Consensus pattern (31 bp):
TATTATGTTTACATATCATTTAGATATCATT
Found at i:76855 original size:19 final size:21
Alignment explanation
Indices: 76831--76881 Score: 79
Period size: 21 Copynumber: 2.5 Consensus size: 21
76821 GGCCAAGAGA
*
76831 ATGTATCTTCA-TT-AAAATC
1 ATGTATTTTCATTTAAAAATC
76850 ATGTATTTTCATTTAAAAATC
1 ATGTATTTTCATTTAAAAATC
76871 ATGTATTTTCA
1 ATGTATTTTCA
76882 AAGGGGTTTC
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 10 0.34
20 2 0.07
21 17 0.59
ACGTcount: A:0.35, C:0.12, G:0.06, T:0.47
Consensus pattern (21 bp):
ATGTATTTTCATTTAAAAATC
Found at i:86603 original size:14 final size:13
Alignment explanation
Indices: 86586--86635 Score: 52
Period size: 14 Copynumber: 3.9 Consensus size: 13
86576 GTGCAAAAAG
86586 AAAGAAAAAGACAA
1 AAAGAAAAAGA-AA
*
86600 AAAGAAGAAGAAA
1 AAAGAAAAAGAAA
86613 AGAAG-AAAAG--A
1 A-AAGAAAAAGAAA
86624 AAAGAAAAAGAA
1 AAAGAAAAAGAA
86636 TTCAAAAAGA
Statistics
Matches: 30, Mismatches: 2, Indels: 9
0.73 0.05 0.22
Matches are distributed among these distances:
10 3 0.10
11 7 0.23
13 7 0.23
14 13 0.43
ACGTcount: A:0.78, C:0.02, G:0.20, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:86632 original size:19 final size:18
Alignment explanation
Indices: 86580--86635 Score: 71
Period size: 19 Copynumber: 3.1 Consensus size: 18
86570 ATTGGAGTGC
86580 AAAAAG-AAAGAAAAAGA
1 AAAAAGAAAAGAAAAAGA
86597 CAAAAAGAAGAAG-AAAAGA
1 -AAAAAGAA-AAGAAAAAGA
86616 AGAAAAGAAAAGAAAAAGA
1 A-AAAAGAAAAGAAAAAGA
86635 A
1 A
86636 TTCAAAAAGA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
18 10 0.29
19 21 0.62
20 3 0.09
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (18 bp):
AAAAAGAAAAGAAAAAGA
Found at i:86633 original size:11 final size:11
Alignment explanation
Indices: 86580--86635 Score: 51
Period size: 11 Copynumber: 4.7 Consensus size: 11
86570 ATTGGAGTGC
86580 AAAAAG-AAAG
1 AAAAAGAAAAG
86590 AAAAAGACAAAAAG
1 AAAAAG---AAAAG
*
86604 AAGAAGAAAAG
1 AAAAAGAAAAG
86615 AAGAAAAGAAAAG
1 -A-AAAAGAAAAG
86628 AAAAAGAA
1 AAAAAGAA
86636 TTCAAAAAGA
Statistics
Matches: 38, Mismatches: 2, Indels: 11
0.75 0.04 0.22
Matches are distributed among these distances:
10 6 0.16
11 12 0.32
12 2 0.05
13 9 0.24
14 9 0.24
ACGTcount: A:0.79, C:0.02, G:0.20, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAG
Found at i:94459 original size:5 final size:5
Alignment explanation
Indices: 94445--94474 Score: 53
Period size: 5 Copynumber: 6.2 Consensus size: 5
94435 GTGCTTCAAC
94445 TTTC- TTTCT TTTCT TTTCT TTTCT TTTCT T
1 TTTCT TTTCT TTTCT TTTCT TTTCT TTTCT T
94475 CTTTTTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.16
5 21 0.84
ACGTcount: A:0.00, C:0.20, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTCT
Found at i:94481 original size:15 final size:15
Alignment explanation
Indices: 94444--94481 Score: 51
Period size: 15 Copynumber: 2.5 Consensus size: 15
94434 AGTGCTTCAA
94444 CTTTCTTTCTTTTCTT
1 CTTT-TTTCTTTTCTT
94460 -TTCTTTTCTTTTCTT
1 CTT-TTTTCTTTTCTT
94475 CTTTTTT
1 CTTTTTT
94482 TAAGTGCTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
15 17 0.85
16 3 0.15
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (15 bp):
CTTTTTTCTTTTCTT
Found at i:103539 original size:24 final size:25
Alignment explanation
Indices: 103504--103558 Score: 60
Period size: 24 Copynumber: 2.3 Consensus size: 25
103494 ACTTGGAGCC
*
103504 TCAA-TGATCACAACTTGTGGCACT
1 TCAAGTGATCACAACTTGTGGAACT
* * *
103528 TCAAGTGA-CACATCTTTTTGAACT
1 TCAAGTGATCACAACTTGTGGAACT
103552 TCAAGTG
1 TCAAGTG
103559 GCATAACTAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
24 23 0.88
25 3 0.12
ACGTcount: A:0.29, C:0.22, G:0.16, T:0.33
Consensus pattern (25 bp):
TCAAGTGATCACAACTTGTGGAACT
Done.