Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01003785.1 Hibiscus syriacus cultivar Beakdansim tig00008103_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: 48890
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33
Found at i:3660 original size:7 final size:7
Alignment explanation
Indices: 3648--3682 Score: 70
Period size: 7 Copynumber: 5.0 Consensus size: 7
3638 CAAAGATTTT
3648 CCACATG
1 CCACATG
3655 CCACATG
1 CCACATG
3662 CCACATG
1 CCACATG
3669 CCACATG
1 CCACATG
3676 CCACATG
1 CCACATG
3683 TATGATGTAA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 28 1.00
ACGTcount: A:0.29, C:0.43, G:0.14, T:0.14
Consensus pattern (7 bp):
CCACATG
Found at i:13255 original size:72 final size:71
Alignment explanation
Indices: 13128--13277 Score: 255
Period size: 72 Copynumber: 2.1 Consensus size: 71
13118 TTAATATATT
* * *
13128 AAACTGTGATTAACTTTTAAGATTGTTTTTAATCAACAATTAATATGCATAAGTGATACTAATTA
1 AAACTGTGATTAACATTTAAGATTGTTATTAATCAACAATTAATATGCATAAGTGATACTAAGTA
13193 TAACGA
66 TAACGA
*
13199 AAACTGTGATTAACATTTAAGATTGGTTATTAGTCAACAATTAATATGCATAAGTGATACTAAGT
1 AAACTGTGATTAACATTTAAGATT-GTTATTAATCAACAATTAATATGCATAAGTGATACTAAGT
13264 ATAACGA
65 ATAACGA
13271 AAACTGT
1 AAACTGT
13278 TAAACAAAAT
Statistics
Matches: 74, Mismatches: 4, Indels: 1
0.94 0.05 0.01
Matches are distributed among these distances:
71 23 0.31
72 51 0.69
ACGTcount: A:0.41, C:0.10, G:0.13, T:0.35
Consensus pattern (71 bp):
AAACTGTGATTAACATTTAAGATTGTTATTAATCAACAATTAATATGCATAAGTGATACTAAGTA
TAACGA
Found at i:14876 original size:23 final size:23
Alignment explanation
Indices: 14856--14902 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
14846 CAATAAACTG
14856 CTACAGTACAAG-CATCAAAACAA
1 CTACAGTAC-AGTCATCAAAACAA
*
14879 CTACAGTACAGTCATCAAAGCAA
1 CTACAGTACAGTCATCAAAACAA
14902 C
1 C
14903 CAACGTGGAG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 2 0.09
23 20 0.91
ACGTcount: A:0.47, C:0.28, G:0.11, T:0.15
Consensus pattern (23 bp):
CTACAGTACAGTCATCAAAACAA
Found at i:17168 original size:6 final size:6
Alignment explanation
Indices: 17159--17195 Score: 74
Period size: 6 Copynumber: 6.2 Consensus size: 6
17149 AATAAACAAG
17159 GGGAAA GGGAAA GGGAAA GGGAAA GGGAAA GGGAAA G
1 GGGAAA GGGAAA GGGAAA GGGAAA GGGAAA GGGAAA G
17196 AAAGGCTTAA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 31 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (6 bp):
GGGAAA
Found at i:17267 original size:32 final size:32
Alignment explanation
Indices: 17224--17289 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
17214 GCACCCTTAA
***
17224 TTTCGGATCCTATTTGCAGCTAGTCCGTTCCG
1 TTTCGGATCCTATCCACAGCTAGTCCGTTCCG
* *
17256 TTTCGGGTCCTATCCACAGGTAGTCCGTTCCG
1 TTTCGGATCCTATCCACAGCTAGTCCGTTCCG
17288 TT
1 TT
17290 ATGCTCAAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.12, C:0.29, G:0.23, T:0.36
Consensus pattern (32 bp):
TTTCGGATCCTATCCACAGCTAGTCCGTTCCG
Found at i:23617 original size:21 final size:21
Alignment explanation
Indices: 23591--23635 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
23581 GATTTCTGGG
* *
23591 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
23612 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
23633 CAA
1 CAA
23636 ACGACAAAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:23705 original size:23 final size:22
Alignment explanation
Indices: 23661--23705 Score: 54
Period size: 22 Copynumber: 2.0 Consensus size: 22
23651 AATGCCAGAG
*
23661 GGGAACCGATACCCCCACAGGA
1 GGGAACCGATACCCCCAAAGGA
* *
23683 GGGAATCGATTCCCCCTAAAGGA
1 GGGAACCGATACCCCC-AAAGGA
23706 AAATGTTAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
22 14 0.74
23 5 0.26
ACGTcount: A:0.31, C:0.31, G:0.27, T:0.11
Consensus pattern (22 bp):
GGGAACCGATACCCCCAAAGGA
Found at i:24348 original size:31 final size:31
Alignment explanation
Indices: 24310--24494 Score: 327
Period size: 31 Copynumber: 6.0 Consensus size: 31
24300 GGGTCGAGGG
24310 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
24341 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
24372 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
24403 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
*
24434 TTACCTATGTTCTTCGGGACATATGGACTAT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
24465 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
24495 GTCCTTCGGG
Statistics
Matches: 149, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
31 148 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:27962 original size:21 final size:21
Alignment explanation
Indices: 27936--27980 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
27926 GATTTCTGGG
* *
27936 CAAGGGGAATCGGTACCCATT
1 CAAGGGGAACCGATACCCATT
*
27957 CAAGGGGAACCGATACCCCTT
1 CAAGGGGAACCGATACCCATT
27978 CAA
1 CAA
27981 ACGACAGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.31, C:0.29, G:0.24, T:0.16
Consensus pattern (21 bp):
CAAGGGGAACCGATACCCATT
Found at i:28694 original size:31 final size:31
Alignment explanation
Indices: 28656--28871 Score: 398
Period size: 31 Copynumber: 7.0 Consensus size: 31
28646 GGGTCGAGGG
28656 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
28687 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
28718 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
28749 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
28780 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
28811 TTACCTATGTTCTTCGGGACATATGGACTGT
1 TTACCTATGTTCTTCGGGACATATGGACTGT
* *
28842 TTACCTAGGTTCTTCGGAATC-TATGGACTG
1 TTACCTATGTTCTTCGGGA-CATATGGACTG
28872 GTCCTTCGGG
Statistics
Matches: 182, Mismatches: 2, Indels: 2
0.98 0.01 0.01
Matches are distributed among these distances:
31 181 0.99
32 1 0.01
ACGTcount: A:0.19, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
TTACCTATGTTCTTCGGGACATATGGACTGT
Found at i:35851 original size:19 final size:19
Alignment explanation
Indices: 35824--35868 Score: 72
Period size: 19 Copynumber: 2.4 Consensus size: 19
35814 CTTCAATCAA
* *
35824 TGCAATCCCAATTACTGTC
1 TGCAGTCCCAATCACTGTC
35843 TGCAGTCCCAATCACTGTC
1 TGCAGTCCCAATCACTGTC
35862 TGCAGTC
1 TGCAGTC
35869 GACCAGAGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 24 1.00
ACGTcount: A:0.22, C:0.33, G:0.16, T:0.29
Consensus pattern (19 bp):
TGCAGTCCCAATCACTGTC
Found at i:36070 original size:21 final size:21
Alignment explanation
Indices: 36044--36087 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
36034 AAAGCCATAC
*
36044 GATAATGGTGCATGAATATAT
1 GATAATGATGCATGAATATAT
*
36065 GATAATGATGCATGAATGTAT
1 GATAATGATGCATGAATATAT
36086 GA
1 GA
36088 GGTCTTCGAG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.39, C:0.05, G:0.25, T:0.32
Consensus pattern (21 bp):
GATAATGATGCATGAATATAT
Found at i:38094 original size:12 final size:12
Alignment explanation
Indices: 38056--38098 Score: 54
Period size: 12 Copynumber: 3.7 Consensus size: 12
38046 GCATTAGAAT
38056 TTAATTTAATTC
1 TTAATTTAATTC
*
38068 TT--TTTTATTC
1 TTAATTTAATTC
38078 TTTAATTTAATTC
1 -TTAATTTAATTC
38091 TTAATTTA
1 TTAATTTA
38099 GATAGTAAAG
Statistics
Matches: 26, Mismatches: 2, Indels: 6
0.76 0.06 0.18
Matches are distributed among these distances:
10 7 0.27
11 2 0.08
12 10 0.38
13 7 0.27
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (12 bp):
TTAATTTAATTC
Found at i:40061 original size:21 final size:23
Alignment explanation
Indices: 40016--40062 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
40006 GTGTCACCAA
40016 TAACATATATCATGATCATGTGT
1 TAACATATATCATGATCATGTGT
* *
40039 TAACATATGTCA-GATCCTG-GT
1 TAACATATATCATGATCATGTGT
40060 TAA
1 TAA
40063 ATGATTAATT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 5 0.23
22 6 0.27
23 11 0.50
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.36
Consensus pattern (23 bp):
TAACATATATCATGATCATGTGT
Found at i:40193 original size:130 final size:130
Alignment explanation
Indices: 39989--40236 Score: 415
Period size: 130 Copynumber: 1.9 Consensus size: 130
39979 AATTTTCTTC
* * *
39989 TAATTAGGTGGTGACATGTGTCACCAATAACATATATCATGATCATGTGTTAACATATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
** *
40054 CCTGGTTAAATGATTAATTTATTAAATTTTATTTAATTTAGGACCAAATTGATAGCATATATAAA
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
* * *
40119 TAATTAGGTGGTGACATGTGTCACCAATGACACGTGTCATGATCATGTGCTAACACATGTCAGAT
1 TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
40184 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
66 CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGAT
40237 TATATAAATA
Statistics
Matches: 109, Mismatches: 9, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
130 109 1.00
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.37
Consensus pattern (130 bp):
TAATTAGGTGGTGACATGTGTCACCAATAACACATATCATGATCATGTGCTAACACATGTCAGAT
CCTAATTAAATGATTAATTTATTAAATTCTATTTAATTTAGGACCAAATTGATAGCATATATAAA
Found at i:40679 original size:35 final size:35
Alignment explanation
Indices: 40629--40704 Score: 116
Period size: 35 Copynumber: 2.2 Consensus size: 35
40619 AATTGAATTT
* *
40629 AATTGAATTATTTTGGAATTTAGGGTTGAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTGAGAATGA
* *
40664 AATTGAATTACTTTGGAAATTGGGGTTTAGAATGA
1 AATTGAATTACTTTGGAAATTAGGGTTGAGAATGA
40699 AATTGA
1 AATTGA
40705 GGACTGTTTT
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.36, C:0.01, G:0.25, T:0.38
Consensus pattern (35 bp):
AATTGAATTACTTTGGAAATTAGGGTTGAGAATGA
Found at i:41985 original size:25 final size:25
Alignment explanation
Indices: 41957--42009 Score: 72
Period size: 25 Copynumber: 2.1 Consensus size: 25
41947 AGTGACATAT
* *
41957 GAAATTTGTCCCGAA-TGACCGCGTA
1 GAAATTTGCCCCGAAGT-ACCACGTA
41982 GAAATTTGCCCCGAAGTACCACGTA
1 GAAATTTGCCCCGAAGTACCACGTA
42007 GAA
1 GAA
42010 TTGCACTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 24 0.96
26 1 0.04
ACGTcount: A:0.32, C:0.25, G:0.23, T:0.21
Consensus pattern (25 bp):
GAAATTTGCCCCGAAGTACCACGTA
Found at i:42171 original size:24 final size:24
Alignment explanation
Indices: 42135--42180 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
42125 AAGAATACAT
* *
42135 ATATGTCCTGAAGGACCGCGTATG
1 ATATGTCCCGAAGAACCGCGTATG
42159 ATATGTCCCGAAGAACCGCGTA
1 ATATGTCCCGAAGAACCGCGTA
42181 GACCCTCTAT
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
24 20 1.00
ACGTcount: A:0.28, C:0.24, G:0.26, T:0.22
Consensus pattern (24 bp):
ATATGTCCCGAAGAACCGCGTATG
Found at i:42497 original size:19 final size:20
Alignment explanation
Indices: 42473--42516 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
42463 AATTAGTCAC
42473 TCATATTCACAT-ATCACAT
1 TCATATTCACATGATCACAT
* *
42492 TCATA-TCACATGGTCATAT
1 TCATATTCACATGATCACAT
42511 TCATAT
1 TCATAT
42517 AACACTTATA
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
18 6 0.29
19 15 0.71
ACGTcount: A:0.34, C:0.23, G:0.05, T:0.39
Consensus pattern (20 bp):
TCATATTCACATGATCACAT
Found at i:43171 original size:216 final size:215
Alignment explanation
Indices: 42786--43210 Score: 719
Period size: 216 Copynumber: 2.0 Consensus size: 215
42776 CAAGAGTCAC
* *
42786 TTCTTACCGTAGTAACTCCTTCATTAACTCATTGCAAGCCAATGTTTGATCAATAATATAAGTAC
1 TTCTTACCGTAGTAACTCCTTCACTAACTCATCGCAAGCCAATGTTTGATCAATAATATAAGTAC
**
42851 AATTAAATTGCACTCGTCTTAGCCTGCTTTGATTTGATCATAATTCTTTGATTGTTCCGAAACTT
66 AATTAAATTGCACTCACCTTAGCCTGCTTTGATTTGATCATAATTCTTTGATTGTTCCGAAACTT
42916 GTTTAGGCTCAATATCTACATAAACATAATTTCCGAGATGAATATCAGAAGCCTAAACCTTATAA
131 GTTTAGGCTCAATATCTACATAAACATAATTTCCGAGATGAATATCAGAAGCCTAAACCTTATAA
42981 CTTGATGTTAATAACTTCAT
196 CTTGATGTTAATAACTTCAT
* * *
43001 TTCTTACCGTAGTAACTCTTTCACTGACTCATCGCAAGTCAATGTTTGATCAATAATATAAGTAC
1 TTCTTACCGTAGTAACTCCTTCACTAACTCATCGCAAGCCAATGTTTGATCAATAATATAAGTAC
* * *
43066 AATTAAATTGCACTCACCTTAGCCTTGCTTTGATTTGATCCTAACTT-TTTGATTGTTCTGGAAC
66 AATTAAATTGCACTCACCTTAGCC-TGCTTTGATTTGATCATAA-TTCTTTGATTGTTCCGAAAC
43130 TTGTTTAGGCTCAATATCTACATAAACATAACTTT-CGAGATGAATATCAGAAGCCTAAACCTTA
129 TTGTTTAGGCTCAATATCTACATAAACATAA-TTTCCGAGATGAATATCAGAAGCCTAAACCTTA
43194 TAACTTGATGTTAATAA
193 TAACTTGATGTTAATAA
43211 ATTAAGCTAG
Statistics
Matches: 197, Mismatches: 10, Indels: 5
0.93 0.05 0.02
Matches are distributed among these distances:
215 82 0.42
216 110 0.56
217 5 0.03
ACGTcount: A:0.32, C:0.19, G:0.12, T:0.37
Consensus pattern (215 bp):
TTCTTACCGTAGTAACTCCTTCACTAACTCATCGCAAGCCAATGTTTGATCAATAATATAAGTAC
AATTAAATTGCACTCACCTTAGCCTGCTTTGATTTGATCATAATTCTTTGATTGTTCCGAAACTT
GTTTAGGCTCAATATCTACATAAACATAATTTCCGAGATGAATATCAGAAGCCTAAACCTTATAA
CTTGATGTTAATAACTTCAT
Found at i:45960 original size:23 final size:22
Alignment explanation
Indices: 45928--45979 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
45918 CCATTTTTGA
*
45928 TATTTTTAAATAAATAAA-TATT
1 TATTTATAAAT-AATAAATTATT
*
45950 CTATTTATAAATTATAAATTATT
1 -TATTTATAAATAATAAATTATT
45973 TATTTAT
1 TATTTAT
45980 TTTTTAATAT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 12 0.46
23 14 0.54
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.54
Consensus pattern (22 bp):
TATTTATAAATAATAAATTATT
Found at i:45975 original size:104 final size:106
Alignment explanation
Indices: 45865--46060 Score: 245
Period size: 106 Copynumber: 1.9 Consensus size: 106
45855 ATGTTTTTAA
* * * * * *
45865 TATTTATTTATTTTTCAATAT-TAA-GAAAGGGCAGTCTTAAAATAACTGGATGTCCATTTT-TG
1 TATTTATTTATTTTTCAATATAAAATAAAAGAGCAGTCTTAAAACAACTAGAAGTCC-TTTTCTG
*
45927 ATATTTTTAAATAAATAAATATTCTATTTATAAATTATAAAT
65 ATATTTCTAAATAAATAAATATTCTATTTATAAATTATAAAT
* * ** *
45969 TATTTATTTATTTTTTAATATAAAATAAAAGAGCTGTCTTAAGGCACCTAGAAGTCCTTTTCTGA
1 TATTTATTTATTTTTCAATATAAAATAAAAGAGCAGTCTTAAAACAACTAGAAGTCCTTTTCTGA
*
46034 TATTTCTAAATAAATAAATATTTTATT
66 TATTTCTAAATAAATAAATATTCTATT
46061 ATTTATATAT
Statistics
Matches: 76, Mismatches: 13, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
104 20 0.26
105 6 0.08
106 50 0.66
ACGTcount: A:0.38, C:0.08, G:0.09, T:0.45
Consensus pattern (106 bp):
TATTTATTTATTTTTCAATATAAAATAAAAGAGCAGTCTTAAAACAACTAGAAGTCCTTTTCTGA
TATTTCTAAATAAATAAATATTCTATTTATAAATTATAAAT
Found at i:46749 original size:17 final size:17
Alignment explanation
Indices: 46727--46760 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
46717 ATGTTATTAA
46727 AATGACAAAACGTTTTG
1 AATGACAAAACGTTTTG
46744 AATGACAAAACGTTTTG
1 AATGACAAAACGTTTTG
46761 GGTTCCTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.29
Consensus pattern (17 bp):
AATGACAAAACGTTTTG
Found at i:47767 original size:23 final size:21
Alignment explanation
Indices: 47722--47761 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
47712 AACTTTATCC
*
47722 TTATGACATATTTTTTTGTCT
1 TTATGACATATTTTTTTCTCT
47743 TTATGACATATTTTTTTCT
1 TTATGACATATTTTTTTCT
47762 ACCTTTTGGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.10, G:0.07, T:0.62
Consensus pattern (21 bp):
TTATGACATATTTTTTTCTCT
Found at i:48736 original size:19 final size:19
Alignment explanation
Indices: 48712--48752 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
48702 GACAAATCGA
48712 ATTTACATAGTATAAATAG
1 ATTTACATAGTATAAATAG
* *
48731 ATTTACATTGTATAGATAG
1 ATTTACATAGTATAAATAG
48750 ATT
1 ATT
48753 GTAACCTTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.41, C:0.05, G:0.12, T:0.41
Consensus pattern (19 bp):
ATTTACATAGTATAAATAG
Done.