Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01014515.1 Corchorus olitorius cultivar O-4 contig14548, 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: 36232
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.33
Found at i:19 original size:13 final size:13
Alignment explanation
Indices: 2--26 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1 A
2 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
15 AAAAAAAAAAAA
1 AAAAAAAAAAAA
27 ACATTTTGGC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.96, C:0.04, G:0.00, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:19 original size:14 final size:14
Alignment explanation
Indices: 1--29 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
1 AAAAAAAAAAAAAC
1 AAAAAAAAAAAAAC
15 AAAAAAAAAAAAAC
1 AAAAAAAAAAAAAC
29 A
1 A
30 TTTTGGCCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAAAAC
Found at i:358 original size:27 final size:26
Alignment explanation
Indices: 328--390 Score: 72
Period size: 27 Copynumber: 2.3 Consensus size: 26
318 TTACTATTTT
* *
328 ACCCTTGGATGGGTAAATTACTAAATC
1 ACCCTTGGAT-GCTAAATTACAAAATC
* *
355 ACCCTTGAGATTCTAAATTACAAAATT
1 ACCCTTG-GATGCTAAATTACAAAATC
382 ACCCTTGGA
1 ACCCTTGGA
391 AGAATAATTT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
26 2 0.06
27 26 0.84
28 3 0.10
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.30
Consensus pattern (26 bp):
ACCCTTGGATGCTAAATTACAAAATC
Found at i:1211 original size:19 final size:20
Alignment explanation
Indices: 1181--1218 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
1171 TGTGTTCTTG
*
1181 TGATTTTATTTTGTTTTATC
1 TGATTTTATTTTGGTTTATC
1201 TGATTTT-TTTTGGTTTAT
1 TGATTTTATTTTGGTTTAT
1219 GACTTTAATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 10 0.59
20 7 0.41
ACGTcount: A:0.13, C:0.03, G:0.13, T:0.71
Consensus pattern (20 bp):
TGATTTTATTTTGGTTTATC
Found at i:4396 original size:23 final size:23
Alignment explanation
Indices: 4363--4415 Score: 72
Period size: 23 Copynumber: 2.3 Consensus size: 23
4353 CGGTTTGTTT
*
4363 ATGTTCACGAA-CATGCTTGATTA
1 ATGTTCACGAATC-TGCTCGATTA
*
4386 ATGTTCGCGAATCTGCTCGATTA
1 ATGTTCACGAATCTGCTCGATTA
4409 ATGTTCA
1 ATGTTCA
4416 TTTAATAGCT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
23 25 0.96
24 1 0.04
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (23 bp):
ATGTTCACGAATCTGCTCGATTA
Found at i:5780 original size:11 final size:11
Alignment explanation
Indices: 5750--5792 Score: 50
Period size: 11 Copynumber: 3.9 Consensus size: 11
5740 TGTTACTAAC
* *
5750 CTATGGTCAAG
1 CTATGGTTAAT
*
5761 CTATAGTTAAT
1 CTATGGTTAAT
*
5772 CTATGGTTAGT
1 CTATGGTTAAT
5783 CTATGGTTAA
1 CTATGGTTAA
5793 GTAATAATTA
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
11 26 1.00
ACGTcount: A:0.28, C:0.12, G:0.21, T:0.40
Consensus pattern (11 bp):
CTATGGTTAAT
Found at i:10917 original size:2 final size:2
Alignment explanation
Indices: 10910--10985 Score: 72
Period size: 2 Copynumber: 40.0 Consensus size: 2
10900 CGAACTTGAC
* * *
10910 AT AT AT AT AT AT AG AT A- AT AT -T TT A- AT TT A- AT AT AT A-
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
*
10947 AT AT GAT GT AT AT 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 AT AT AT AT AT AT
10986 GTACCGAGTA
Statistics
Matches: 61, Mismatches: 7, Indels: 12
0.76 0.09 0.15
Matches are distributed among these distances:
1 5 0.08
2 54 0.89
3 2 0.03
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (2 bp):
AT
Found at i:18611 original size:15 final size:15
Alignment explanation
Indices: 18588--18636 Score: 64
Period size: 15 Copynumber: 3.3 Consensus size: 15
18578 AAGAAATACT
*
18588 TTTCCTTCCTTCCCC
1 TTTCTTTCCTTCCCC
18603 TTTCTTTCC-TCCCC
1 TTTCTTTCCTTCCCC
*
18617 TCTTCTTTCCTTCCCA
1 T-TTCTTTCCTTCCCC
18633 TTTC
1 TTTC
18637 CTTCGTACTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
14 6 0.20
15 19 0.63
16 5 0.17
ACGTcount: A:0.02, C:0.47, G:0.00, T:0.51
Consensus pattern (15 bp):
TTTCTTTCCTTCCCC
Found at i:19868 original size:14 final size:14
Alignment explanation
Indices: 19849--19887 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
19839 TTTGACCTTT
19849 AATTATAAAAAAAA
1 AATTATAAAAAAAA
*
19863 AATTAT-ATAAAAA
1 AATTATAAAAAAAA
*
19876 AATTTTAAAAAA
1 AATTATAAAAAA
19888 TTATGTTTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (14 bp):
AATTATAAAAAAAA
Found at i:20807 original size:27 final size:28
Alignment explanation
Indices: 20657--20816 Score: 87
Period size: 26 Copynumber: 5.6 Consensus size: 28
20647 TGATCACCTT
*
20657 TTTCTTACTCTTTTTTACTGATTACCATTGT
1 TTTCTTACTCTTTTTTACTGATTACCA---A
* * *
20688 TTTCTCT-CTTTTTTTTTACTGATT-TCAT
1 TTTCT-TAC-TCTTTTTTACTGATTACCAA
* * ***
20716 TTTC-TACTCTTTTTAACTAAGTTATTGA
1 TTTCTTACTCTTTTTTACTGA-TTACCAA
*
20744 TTACCCTTACTCTTTTTTACTGATTACCAA
1 TT--TCTTACTCTTTTTTACTGATTACCAA
* *
20774 TTT-TTACTC-TTTTTACTTATTACCAT
1 TTTCTTACTCTTTTTTACTGATTACCAA
*
20800 TTTCTTACCTATTTTTT
1 TTTCTTA-CTCTTTTTT
20817 TTTACTGGTT
Statistics
Matches: 100, Mismatches: 18, Indels: 24
0.70 0.13 0.17
Matches are distributed among these distances:
26 29 0.29
27 12 0.12
28 10 0.10
29 5 0.05
30 7 0.07
31 22 0.22
32 15 0.15
ACGTcount: A:0.18, C:0.19, G:0.04, T:0.59
Consensus pattern (28 bp):
TTTCTTACTCTTTTTTACTGATTACCAA
Found at i:20999 original size:21 final size:21
Alignment explanation
Indices: 20929--21360 Score: 274
Period size: 21 Copynumber: 20.8 Consensus size: 21
20919 TCACTGCCAT
20929 TTACTC-TTTACTGATTACTA
1 TTACTCTTTTACTGATTACTA
* *
20949 TTA-TAATTTTACTG-TTCACTGT
1 TTACT-CTTTTACTGATT-ACT-A
20971 TTACTCTTTTACTGATTACTA
1 TTACTCTTTTACTGATTACTA
* * *
20992 TGACTC--TTCCTTGATTACTCT
1 TTACTCTTTTAC-TGATTACT-A
* ** *
21013 TTACTC-TTTATTGACCATTA
1 TTACTCTTTTACTGATTACTA
* * ** *
21033 CTACTCCTTTACTCTTTACTCTT
1 TTACTCTTTTACTGATTA--CTA
** ** *
21056 TTACT-GATTACTCTTTACTCT
1 TTACTCTTTTACTGATTACT-A
*
21077 TTACTC-TTTACTAATTACTA
1 TTACTCTTTTACTGATTACTA
21097 TTACTCTTTTACTGATTATTCT-
1 TTACTCTTTTACTGATTA--CTA
*
21119 TTACTCTTTCACTGATTACTA
1 TTACTCTTTTACTGATTACTA
* *
21140 TTACTCTTTCACTGATTACTC
1 TTACTCTTTTACTGATTACTA
* ** * *
21161 TTAC-CATTTGTTCATTACTCT
1 TTACTCTTTTACTGATTACT-A
21182 TTACTC-TTTACTGATTACTA
1 TTACTCTTTTACTGATTACTA
*
21202 TTACTCTTTTACTGATTATTCTT
1 TTACTCTTTTACTGATTA--CTA
*
21225 TTACTATTTTACTGATTACTA
1 TTACTCTTTTACTGATTACTA
*
21246 TTACCCTTTTACTGATTACTA
1 TTACTCTTTTACTGATTACTA
* *
21267 TTACTCTTTTACTGATTATTC
1 TTACTCTTTTACTGATTACTA
*
21288 TTAC-CATTT-C---TT-C-A
1 TTACTCTTTTACTGATTACTA
21302 TTACTC-TTTACTGATTACTA
1 TTACTCTTTTACTGATTACTA
21322 TTACTCTTTTACTGATTATTCT-
1 TTACTCTTTTACTGATTA--CTA
*
21344 TTACTTTTTTACTGATT
1 TTACTCTTTTACTGATT
21361 GACCCCATTT
Statistics
Matches: 325, Mismatches: 54, Indels: 64
0.73 0.12 0.14
Matches are distributed among these distances:
14 7 0.02
15 2 0.01
16 2 0.01
18 2 0.01
19 6 0.02
20 55 0.17
21 160 0.49
22 60 0.18
23 31 0.10
ACGTcount: A:0.21, C:0.21, G:0.05, T:0.53
Consensus pattern (21 bp):
TTACTCTTTTACTGATTACTA
Found at i:21051 original size:7 final size:7
Alignment explanation
Indices: 21034--21193 Score: 94
Period size: 7 Copynumber: 22.6 Consensus size: 7
21024 TGACCATTAC
21034 TACTCCTT
1 TACT-CTT
21042 TACTCTT
1 TACTCTT
21049 TACTCTTT
1 TACTC-TT
**
21057 TACTGAT
1 TACTCTT
21064 TACTCTT
1 TACTCTT
21071 TACTCTT
1 TACTCTT
21078 TACTCTT
1 TACTCTT
**
21085 TACTAAT
1 TACTCTT
*
21092 TACT-AT
1 TACTCTT
21098 TACTCTTT
1 TACTC-TT
**
21106 TACTGAT
1 TACTCTT
*
21113 TATTCTT
1 TACTCTT
21120 TACTCTT
1 TACTCTT
**
21127 TCACTGAT
1 T-ACTCTT
*
21135 TACT-AT
1 TACTCTT
21141 TACTCTT
1 TACTCTT
**
21148 TCACTGAT
1 T-ACTCTT
21156 TACTC-T
1 TACTCTT
21162 TAC-CATT
1 TACTC-TT
** *
21169 TGTTCAT
1 TACTCTT
21176 TACTCTT
1 TACTCTT
21183 TACTCTT
1 TACTCTT
21190 TACT
1 TACT
21194 GATTACTATT
Statistics
Matches: 118, Mismatches: 25, Indels: 19
0.73 0.15 0.12
Matches are distributed among these distances:
5 1 0.01
6 16 0.14
7 75 0.64
8 26 0.22
ACGTcount: A:0.20, C:0.24, G:0.03, T:0.53
Consensus pattern (7 bp):
TACTCTT
Found at i:21058 original size:15 final size:15
Alignment explanation
Indices: 21034--21085 Score: 70
Period size: 15 Copynumber: 3.5 Consensus size: 15
21024 TGACCATTAC
*
21034 TACTCCTTTACTCTT
1 TACTCTTTTACTCTT
**
21049 TACTCTTTTACTGAT
1 TACTCTTTTACTCTT
21064 TACTC-TTTACTCTT
1 TACTCTTTTACTCTT
21078 TACTCTTT
1 TACTCTTT
21086 ACTAATTACT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
14 12 0.39
15 19 0.61
ACGTcount: A:0.15, C:0.27, G:0.02, T:0.56
Consensus pattern (15 bp):
TACTCTTTTACTCTT
Found at i:21102 original size:64 final size:62
Alignment explanation
Indices: 21005--21275 Score: 170
Period size: 64 Copynumber: 4.2 Consensus size: 62
20995 CTCTTCCTTG
* ** * *
21005 ATTACTCTTTACTCTTTATTGACCATTACTACTCCTTTACTCTTTACTCTTTTACTGATTACT
1 ATTACTCTTTACTCTTTACT-ATTACTATTACTCCTTTACTCTTTACTCTTTTACTGATTACT
* * *
21068 CTTTACTCTTTACTCTTTACTAATTACTATTACTCTTTTACTGATTATTCTTTACTCTTTCACTG
1 -ATTACTCTTTACTCTTTACT-ATTACTATTACTC-----CT--TTACTCTTTACTCTTTTACTG
21133 ATTACT
57 ATTACT
** * * ** * *
21139 ATTACTCTTTCACTGATTACTCTTACCATTTGTTCATTACTCTTTACTC-TTTACTGATTACT
1 ATTACTCTTT-ACTCTTTACTATTACTATTACTCCTTTACTCTTTACTCTTTTACTGATTACT
* * * ** * *
21201 ATTACTCTTTTACTGATTATTCTTTTACTATTTTACT-GATTACT-ATTACCCTTTTACTGATTA
1 ATTACTC-TTTACT-CTT-TACTATTACTA--TTACTCCTTTACTCTTTACTCTTTTACTGATTA
21264 CT
61 CT
21266 ATTACTCTTT
1 ATTACTCTTT
21276 TACTGATTAT
Statistics
Matches: 163, Mismatches: 30, Indels: 28
0.74 0.14 0.13
Matches are distributed among these distances:
62 22 0.13
63 16 0.10
64 43 0.26
65 27 0.17
66 3 0.02
69 2 0.01
70 17 0.10
71 33 0.20
ACGTcount: A:0.21, C:0.23, G:0.04, T:0.52
Consensus pattern (62 bp):
ATTACTCTTTACTCTTTACTATTACTATTACTCCTTTACTCTTTACTCTTTTACTGATTACT
Found at i:21119 original size:15 final size:14
Alignment explanation
Indices: 21091--21265 Score: 61
Period size: 15 Copynumber: 11.8 Consensus size: 14
21081 TCTTTACTAA
21091 TTACTATTACTCTT
1 TTACTATTACTCTT
*
21105 TTACTGATTATTC-T
1 TTACT-ATTACTCTT
* * * *
21119 TTACTCTTTCACTGA
1 TTACTATTACTCT-T
21134 TTACTATTACTCTT
1 TTACTATTACTCTT
*
21148 TCACTGATTACTCTTACCAT
1 TTACT-ATTACTC-T----T
**
21168 TTGTTCATTACTC-T
1 TTACT-ATTACTCTT
* **
21182 TTACTCTTTACTGAT
1 TTACT-ATTACTCTT
21197 -TACTATTACTCTT
1 TTACTATTACTCTT
*
21210 TTACTGATTATTCTT
1 TTACT-ATTACTCTT
**
21225 TTACTATTTTACT-GA
1 TTACTA--TTACTCTT
*
21240 TTACTATTACCCTT
1 TTACTATTACTCTT
21254 TTACTGATTACT
1 TTACT-ATTACT
21266 ATTACTCTTT
Statistics
Matches: 115, Mismatches: 30, Indels: 31
0.65 0.17 0.18
Matches are distributed among these distances:
13 13 0.11
14 39 0.34
15 48 0.42
16 5 0.04
20 10 0.09
ACGTcount: A:0.22, C:0.21, G:0.05, T:0.53
Consensus pattern (14 bp):
TTACTATTACTCTT
Found at i:21182 original size:105 final size:106
Alignment explanation
Indices: 21070--21270 Score: 341
Period size: 105 Copynumber: 1.9 Consensus size: 106
21060 TGATTACTCT
*
21070 TTACTCTTTACTCTTTACTAATTACTATTACTCTTTTACTGATTATTC-TTTACTCTTTCACTGA
1 TTACTCTTTACTCTTTACTAATTACTATTACTCTTTTACTGATTATTCTTTTACTATTTCACTGA
* *
21134 TTACTATTACTCTTTCACTGATTACTCTTACCATTTGTTCA
66 TTACTATTACCCTTTCACTGATTACTATTACCATTTGTTCA
* *
21175 TTACTCTTTACTCTTTACTGATTACTATTACTCTTTTACTGATTATTCTTTTACTATTTTACTGA
1 TTACTCTTTACTCTTTACTAATTACTATTACTCTTTTACTGATTATTCTTTTACTATTTCACTGA
*
21240 TTACTATTACCCTTTTACTGATTACTATTAC
66 TTACTATTACCCTTTCACTGATTACTATTAC
21271 TCTTTTACTG
Statistics
Matches: 89, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
105 47 0.53
106 42 0.47
ACGTcount: A:0.22, C:0.21, G:0.04, T:0.52
Consensus pattern (106 bp):
TTACTCTTTACTCTTTACTAATTACTATTACTCTTTTACTGATTATTCTTTTACTATTTCACTGA
TTACTATTACCCTTTCACTGATTACTATTACCATTTGTTCA
Found at i:21281 original size:127 final size:123
Alignment explanation
Indices: 21041--21360 Score: 382
Period size: 127 Copynumber: 2.5 Consensus size: 123
21031 TACTACTCCT
* * * * *
21041 TTACTCTTTACTCTTTTACTGATTACTCTTTACTC-TTTACTCTTTACTAATTACTATTACTCTT
1 TTACTCTTTACTC-TTTACTGATTACT-ATTACTCTTTTA--C-TGA-TTATT-CTTTTACTATT
*
21105 TTACTGATTATTCTTTACTCTTTCACTGATTACTATTACTCTTTCACTGATTACTCTTACCATTT
59 TTACTGATTA-TCTTTACCCTTTCACTGATTACTATTACTCTTTCACTGATTACTCTTACCA--T
21170 GTTC
121 -TTC
21174 ATTACTCTTTACTCTTTACTGATTACTATTACTCTTTTACTGATTATTCTTTTACTATTTTACTG
1 -TTACTCTTTACTCTTTACTGATTACTATTACTCTTTTACTGATTATTCTTTTACTATTTTACTG
* * *
21239 ATTA-CTATTACCCTTTTACTGATTACTATTACTCTTTTACTGATTATTCTTACCATTTC
65 ATTATCT-TTACCCTTTCACTGATTACTATTACTCTTTCACTGATTACTCTTACCATTTC
* *
21298 -T--TCATTACTCTTTACTGATTACTATTACTCTTTTACTGATTATTC-TTTACTTTTTTACTGA
1 TTACTCTTTACTCTTTACTGATTACTATTACTCTTTTACTGATTATTCTTTTACTATTTTACTGA
21359 TT
66 TT
21361 GACCCCATTT
Statistics
Matches: 173, Mismatches: 11, Indels: 19
0.85 0.05 0.09
Matches are distributed among these distances:
119 17 0.10
120 43 0.25
122 1 0.01
124 3 0.02
125 1 0.01
126 2 0.01
127 44 0.25
128 19 0.11
129 4 0.02
130 2 0.01
131 1 0.01
132 6 0.03
133 17 0.10
134 13 0.08
ACGTcount: A:0.21, C:0.21, G:0.04, T:0.54
Consensus pattern (123 bp):
TTACTCTTTACTCTTTACTGATTACTATTACTCTTTTACTGATTATTCTTTTACTATTTTACTGA
TTATCTTTACCCTTTCACTGATTACTATTACTCTTTCACTGATTACTCTTACCATTTC
Found at i:21353 original size:22 final size:21
Alignment explanation
Indices: 21301--21360 Score: 79
Period size: 22 Copynumber: 2.9 Consensus size: 21
21291 CCATTTCTTC
21301 ATTACTC-TTTACTGATTACT
1 ATTACTCTTTTACTGATTACT
21321 ATTACTCTTTTACTGATTATTCT
1 ATTACTCTTTTACTGATTA--CT
*
21344 -TTACTTTTTTACTGATT
1 ATTACTCTTTTACTGATT
21361 GACCCCATTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
20 7 0.19
21 11 0.31
22 16 0.44
23 2 0.06
ACGTcount: A:0.22, C:0.17, G:0.05, T:0.57
Consensus pattern (21 bp):
ATTACTCTTTTACTGATTACT
Found at i:25483 original size:33 final size:33
Alignment explanation
Indices: 25446--25514 Score: 138
Period size: 33 Copynumber: 2.1 Consensus size: 33
25436 CCAATTTAAA
25446 GAAAAGCCCAAAAGAAAATCAACTTGGGTTGTT
1 GAAAAGCCCAAAAGAAAATCAACTTGGGTTGTT
25479 GAAAAGCCCAAAAGAAAATCAACTTGGGTTGTT
1 GAAAAGCCCAAAAGAAAATCAACTTGGGTTGTT
25512 GAA
1 GAA
25515 GAAACAAAAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.43, C:0.14, G:0.22, T:0.20
Consensus pattern (33 bp):
GAAAAGCCCAAAAGAAAATCAACTTGGGTTGTT
Found at i:26520 original size:12 final size:13
Alignment explanation
Indices: 26498--26527 Score: 53
Period size: 12 Copynumber: 2.4 Consensus size: 13
26488 ACTAGCAATT
26498 AAAATCAATCAAG
1 AAAATCAATCAAG
26511 AAAA-CAATCAAG
1 AAAATCAATCAAG
26523 AAAAT
1 AAAAT
26528 TAAAGAAATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 12 0.75
13 4 0.25
ACGTcount: A:0.67, C:0.13, G:0.07, T:0.13
Consensus pattern (13 bp):
AAAATCAATCAAG
Found at i:30819 original size:32 final size:34
Alignment explanation
Indices: 30740--30821 Score: 98
Period size: 32 Copynumber: 2.5 Consensus size: 34
30730 TGGTGCTGCA
*
30740 TGCTGATGCGCGGGATGGCTTCGACATGGCCTGG
1 TGCTGATGCGCGGCATGGCTTCGACATGGCCTGG
* * *
30774 TGCT-AAGCGGCGGCATGGC-TCGACGTGG-TTGG
1 TGCTGATGC-GCGGCATGGCTTCGACATGGCCTGG
30806 TGCTGATGCGCGGCAT
1 TGCTGATGCGCGGCAT
30822 CGGCATGGCT
Statistics
Matches: 41, Mismatches: 5, Indels: 6
0.79 0.10 0.12
Matches are distributed among these distances:
32 14 0.34
33 14 0.34
34 13 0.32
ACGTcount: A:0.12, C:0.23, G:0.41, T:0.23
Consensus pattern (34 bp):
TGCTGATGCGCGGCATGGCTTCGACATGGCCTGG
Done.