Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01013528.1 Kokia drynarioides strain JFW-HI SEQ_128554, 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: 68333
ACGTcount: A:0.33, C:0.18, G:0.16, T:0.33
Warning! 134 characters in sequence are not A, C, G, or T
Found at i:154 original size:18 final size:17
Alignment explanation
Indices: 131--169 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
121 TTTTATTTAG
*
131 TTGTCATTGCATTTTCAT
1 TTGTCACTGCA-TTTCAT
*
149 TTGTCACTGTATTTCAT
1 TTGTCACTGCATTTCAT
166 TTGT
1 TTGT
170 TAGTACATCT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.15, C:0.15, G:0.13, T:0.56
Consensus pattern (17 bp):
TTGTCACTGCATTTCAT
Found at i:3196 original size:18 final size:18
Alignment explanation
Indices: 3173--3220 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
3163 ACAAGCTGAA
*
3173 GAAGAAGGAGAAGATCCT
1 GAAGAAGAAGAAGATCCT
* *
3191 GAAGAAGAAGAGGATCTT
1 GAAGAAGAAGAAGATCCT
*
3209 GAGGAAGAAGAA
1 GAAGAAGAAGAA
3221 TATCTTAAGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 25 1.00
ACGTcount: A:0.48, C:0.06, G:0.35, T:0.10
Consensus pattern (18 bp):
GAAGAAGAAGAAGATCCT
Found at i:3225 original size:18 final size:18
Alignment explanation
Indices: 3176--3232 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 18
3166 AGCTGAAGAA
* *
3176 GAAGGAGAAGATCCTGAA-
1 GAAGAAGAAGAT-CTTAAG
* *
3194 GAAGAAGAGGATCTTGAG
1 GAAGAAGAAGATCTTAAG
*
3212 GAAGAAGAATATCTTAAG
1 GAAGAAGAAGATCTTAAG
3230 GAA
1 GAA
3233 TATCCTGTGG
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
17 3 0.10
18 28 0.90
ACGTcount: A:0.46, C:0.07, G:0.32, T:0.16
Consensus pattern (18 bp):
GAAGAAGAAGATCTTAAG
Found at i:6769 original size:13 final size:13
Alignment explanation
Indices: 6737--6775 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 13
6727 TAGTTTCAAC
*
6737 TTAGATTAATTTAGT
1 TTAGATTAA--TACT
6752 TTAGATTAATACT
1 TTAGATTAATACT
6765 TTAGATTAATA
1 TTAGATTAATA
6776 TCATTCACCA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 14 0.61
15 9 0.39
ACGTcount: A:0.38, C:0.03, G:0.10, T:0.49
Consensus pattern (13 bp):
TTAGATTAATACT
Found at i:8374 original size:19 final size:19
Alignment explanation
Indices: 8320--8377 Score: 62
Period size: 19 Copynumber: 2.9 Consensus size: 19
8310 TATTTAGTTG
*
8320 TTTATTTTGACATTTAATTTA
1 TTTATTTT-TCATTT-ATTTA
* **
8341 TTGATTTTTTGTTTATTTA
1 TTTATTTTTCATTTATTTA
8360 TTTATTTTTCATTTATTT
1 TTTATTTTTCATTTATTT
8378 TCATGCCCAA
Statistics
Matches: 30, Mismatches: 7, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
19 20 0.67
20 3 0.10
21 7 0.23
ACGTcount: A:0.21, C:0.03, G:0.05, T:0.71
Consensus pattern (19 bp):
TTTATTTTTCATTTATTTA
Found at i:8456 original size:100 final size:100
Alignment explanation
Indices: 8300--8479 Score: 235
Period size: 100 Copynumber: 1.8 Consensus size: 100
8290 TTCTTTTTTA
*
8300 TTATTATTTATATTTAGTTGTTTATTTTGACATTTAATTTATTGATTTTTTGTTTATTTAT-TTA
1 TTATTATTTATATTTAGTTGTTTATTTTGACATTTAATTTATTAATTTTTTGTTTATTTATCTTA
*
8364 TTTTTCATTTATTTTCATGCCCAATCCAAATTATTT
66 TTGTT-ATTTATTTTCATGCCCAATCCAAATTATTT
* *
8400 TTATTTTTTATATTT-GTTTGTTTATTTT-AGCATTTAA-TT-TTAATTTTAATTTTTTATTTAT
1 TTATTATTTATATTTAG-TTGTTTATTTTGA-CATTTAATTTATTAATTTT--TTGTTTATTTAT
*
8461 CTTGTTGTTATTTATTTTC
62 CTTATTGTTATTTATTTTC
8480 TTGTCATTTT
Statistics
Matches: 70, Mismatches: 5, Indels: 10
0.82 0.06 0.12
Matches are distributed among these distances:
98 7 0.10
99 4 0.06
100 53 0.76
101 6 0.09
ACGTcount: A:0.22, C:0.06, G:0.06, T:0.66
Consensus pattern (100 bp):
TTATTATTTATATTTAGTTGTTTATTTTGACATTTAATTTATTAATTTTTTGTTTATTTATCTTA
TTGTTATTTATTTTCATGCCCAATCCAAATTATTT
Found at i:9751 original size:32 final size:32
Alignment explanation
Indices: 9712--9772 Score: 104
Period size: 32 Copynumber: 1.9 Consensus size: 32
9702 ATCCTTTGCA
* *
9712 TTTTATTTTATATATGTTGCTTTTCATTTTAT
1 TTTTATTTTATATATGTTGCATTTAATTTTAT
9744 TTTTATTTTATATATGTTGCATTTAATTT
1 TTTTATTTTATATATGTTGCATTTAATTT
9773 GTGATGTTTA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
32 27 1.00
ACGTcount: A:0.21, C:0.05, G:0.07, T:0.67
Consensus pattern (32 bp):
TTTTATTTTATATATGTTGCATTTAATTTTAT
Found at i:16106 original size:175 final size:174
Alignment explanation
Indices: 15791--16106 Score: 376
Period size: 175 Copynumber: 1.8 Consensus size: 174
15781 TCACAACAAT
* * * * *
15791 TGTGCAAGCAGACACACGTCGATGCAAGTATAGTTGATAGATTTCTCTATCGGATATCGATCCCA
1 TGTGCAAGCAGACACACGTCAAAGCAAGTATAATTGATAGATATCTCTATCAGATATCGATCCCA
* * **
15856 CGAGGAAAGAGTTCTTGATGTTCACTTGTTAAAGCAACTATGGTTAAAATTAGAGATAATGCTAG
66 CAAGGAAAGAGTTCTTGATGTTCACTTGTCAAAGCAACTATGACTAAAATTAGAGATAATGCTAG
*
15921 TAAGGATGTCAACACAATTCATCCGATCTGTAACATTACAGTAA
131 TAAAGATGTCAACACAATTCATCCGATCTGTAACATTACAGTAA
* *
15965 TGTGCAAGCGGACACACGTCAAAGCAAGTGTAATTGATAGAATAAT-TCTATCAGATATCGATCC
1 TGTGCAAGCAGACACACGTCAAAGCAAGTATAATTGATAG-AT-ATCTCTATCAGATATCGATCC
* *
16029 CACAAGGAATAG-GTTCTTGATG-TCTA-TATGTCGAAGCAATTAAT-ACTAAAATTAGATGA-A
64 CACAAGGAA-AGAGTTCTTGATGTTC-ACT-TGTCAAAGCAACT-ATGACTAAAATTAGA-GATA
*
16089 ATG-TGATTAAAGATGTCA
124 ATGCT-AGTAAAGATGTCA
16107 TTGCAATTAA
Statistics
Matches: 119, Mismatches: 15, Indels: 15
0.80 0.10 0.10
Matches are distributed among these distances:
174 39 0.33
175 73 0.61
176 7 0.06
ACGTcount: A:0.36, C:0.16, G:0.20, T:0.28
Consensus pattern (174 bp):
TGTGCAAGCAGACACACGTCAAAGCAAGTATAATTGATAGATATCTCTATCAGATATCGATCCCA
CAAGGAAAGAGTTCTTGATGTTCACTTGTCAAAGCAACTATGACTAAAATTAGAGATAATGCTAG
TAAAGATGTCAACACAATTCATCCGATCTGTAACATTACAGTAA
Found at i:17854 original size:16 final size:15
Alignment explanation
Indices: 17830--17859 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
17820 AGCATTATAA
17830 TTTTTTTTCTTTTTC
1 TTTTTTTTCTTTTTC
17845 TTTTTCTTTCTTTTT
1 TTTTT-TTTCTTTTT
17860 ATGTGACTGA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.00, C:0.13, G:0.00, T:0.87
Consensus pattern (15 bp):
TTTTTTTTCTTTTTC
Found at i:23730 original size:24 final size:23
Alignment explanation
Indices: 23702--23788 Score: 70
Period size: 24 Copynumber: 3.6 Consensus size: 23
23692 CATTAATGTA
23702 TTTTTCTTCTTTTCTCATTTCCTC
1 TTTTTCTT-TTTTCTCATTTCCTC
** *
23726 TTTTTCTTTTTATAGCAATATAT-AT-
1 TTTTTCTTTTT-TCTC-AT-T-TCCTC
*
23751 TTTTTCTTCTTTTCTTATTTCCTC
1 TTTTTCTT-TTTTCTCATTTCCTC
23775 TTTTTCTTTTTTCT
1 TTTTTCTTTTTTCT
23789 TCTCTTTTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 15
0.69 0.10 0.21
Matches are distributed among these distances:
22 1 0.02
23 11 0.22
24 20 0.41
25 11 0.22
26 5 0.10
27 1 0.02
ACGTcount: A:0.10, C:0.20, G:0.01, T:0.69
Consensus pattern (23 bp):
TTTTTCTTTTTTCTCATTTCCTC
Found at i:23776 original size:15 final size:15
Alignment explanation
Indices: 23753--23801 Score: 55
Period size: 16 Copynumber: 3.2 Consensus size: 15
23743 ATATATATTT
23753 TTTCTTCTTTTCTTA
1 TTTCTTCTTTTCTTA
* *
23768 TTTCCTCTTTTTCTTT
1 TTTCTTC-TTTTCTTA
23784 TTTCTTCTCTTT-TTA
1 TTTCTTCT-TTTCTTA
23799 TTT
1 TTT
23802 TACAAGTGAC
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
15 12 0.43
16 16 0.57
ACGTcount: A:0.04, C:0.20, G:0.00, T:0.76
Consensus pattern (15 bp):
TTTCTTCTTTTCTTA
Found at i:23797 original size:18 final size:16
Alignment explanation
Indices: 23750--23802 Score: 54
Period size: 18 Copynumber: 3.2 Consensus size: 16
23740 GCAATATATA
*
23750 TTTTTTCTTC-TTTTC
1 TTTTTTCCTCTTTTTC
*
23765 TTATTTCCTCTTTTTC
1 TTTTTTCCTCTTTTTC
*
23781 TTTTTTCTTCTCTTTTTA
1 TTTTTTC--CTCTTTTTC
23799 TTTT
1 TTTT
23803 ACAAGTGACT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
15 8 0.26
16 11 0.35
18 12 0.39
ACGTcount: A:0.04, C:0.19, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTTCCTCTTTTTC
Found at i:24391 original size:17 final size:18
Alignment explanation
Indices: 24348--24389 Score: 52
Period size: 17 Copynumber: 2.4 Consensus size: 18
24338 TACATATAAG
24348 AATGAAAATGCAACTACA
1 AATGAAAATGCAACTACA
*
24366 AA-GCAAATGC-ACTAACA
1 AATGAAAATGCAACT-ACA
24383 AATGAAA
1 AATGAAA
24390 TGTAGTGACA
Statistics
Matches: 20, Mismatches: 2, Indels: 4
0.77 0.08 0.15
Matches are distributed among these distances:
16 3 0.15
17 12 0.60
18 5 0.25
ACGTcount: A:0.57, C:0.17, G:0.12, T:0.14
Consensus pattern (18 bp):
AATGAAAATGCAACTACA
Found at i:26997 original size:14 final size:14
Alignment explanation
Indices: 26978--27006 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
26968 GACATGAATT
26978 AAACGAAAGTACTA
1 AAACGAAAGTACTA
26992 AAACGAAAGTACTA
1 AAACGAAAGTACTA
27006 A
1 A
27007 CTGACCAGGA
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:0.59, C:0.14, G:0.14, T:0.14
Consensus pattern (14 bp):
AAACGAAAGTACTA
Found at i:35053 original size:4 final size:4
Alignment explanation
Indices: 35044--35078 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
35034 ACAAATAAGC
* *
35044 GAAT GAAT GAAT AAAT GGAT GAAT GAAT GAAT GAA
1 GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAAT GAA
35079 ATTGGGGCAC
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
4 27 1.00
ACGTcount: A:0.51, C:0.00, G:0.26, T:0.23
Consensus pattern (4 bp):
GAAT
Found at i:38543 original size:3 final size:3
Alignment explanation
Indices: 38535--38575 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
38525 ATTCGATCTT
38535 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
38576 TAAAAGATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:39331 original size:21 final size:20
Alignment explanation
Indices: 39294--39337 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 20
39284 ACATAAATAG
39294 AAATAGAAATGAAAATAAAT
1 AAATAGAAATGAAAATAAAT
39314 AAATATGAAAT-AAGAATAAAT
1 AAATA-GAAATGAA-AATAAAT
39335 AAA
1 AAA
39338 AATTATCCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 7 0.32
21 15 0.68
ACGTcount: A:0.70, C:0.00, G:0.09, T:0.20
Consensus pattern (20 bp):
AAATAGAAATGAAAATAAAT
Found at i:40092 original size:115 final size:114
Alignment explanation
Indices: 39952--40168 Score: 341
Period size: 115 Copynumber: 1.9 Consensus size: 114
39942 GAAATAGTTA
*
39952 AAAAAAAAACAAAATTTTGTTTAAAAATTTAAATTTTTTCCTTTAAAATGACTAAA-AAATAAAT
1 AAAAAAAAACAAAATTTTGTTTAAAAATTTAAACTTTTT-CTTTAAAATGACTAAACAAAT--AT
40016 TTTTATTTTTTAAAAATCTAAACTTTCTTT-GTTAAAAAATACTACTTTTCTT
63 TTTTA-TTTTTAAAAATCTAAACTTTCTTTAGTTAAAAAATACTACTTTTCTT
* *
40068 AAAAAAATA-AAAATTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATGACTAAACACATATTTT
1 AAAAAAAAACAAAATTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATGACTAAACAAATATTTT
*
40132 TATTTTTAAAAATCTAAACTTTCTTTATTTAAAAAAT
66 TATTTTTAAAAATCTAAACTTTCTTTAGTTAAAAAAT
40169 CAAAACTTTT
Statistics
Matches: 95, Mismatches: 4, Indels: 7
0.90 0.04 0.07
Matches are distributed among these distances:
112 24 0.25
113 16 0.17
114 16 0.17
115 31 0.33
116 8 0.08
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (114 bp):
AAAAAAAAACAAAATTTTGTTTAAAAATTTAAACTTTTTCTTTAAAATGACTAAACAAATATTTT
TATTTTTAAAAATCTAAACTTTCTTTAGTTAAAAAATACTACTTTTCTT
Found at i:40099 original size:21 final size:21
Alignment explanation
Indices: 40061--40113 Score: 54
Period size: 21 Copynumber: 2.6 Consensus size: 21
40051 AAAATACTAC
40061 TTTTC-TTAAAAAAATAAAAA
1 TTTTCTTTAAAAAAATAAAAA
* ** **
40081 TTTTGTTTAAAAATTTAAACT
1 TTTTCTTTAAAAAAATAAAAA
40102 TTTTCTTTAAAA
1 TTTTCTTTAAAA
40114 TGACTAAACA
Statistics
Matches: 26, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
20 4 0.15
21 22 0.85
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (21 bp):
TTTTCTTTAAAAAAATAAAAA
Found at i:40180 original size:25 final size:25
Alignment explanation
Indices: 40130--40177 Score: 71
Period size: 24 Copynumber: 2.0 Consensus size: 25
40120 AACACATATT
* *
40130 TTTATTTTTAAAAATCTAAACTTTC
1 TTTATTTTAAAAAATCAAAACTTTC
40155 TTTA-TTTAAAAAATCAAAACTTT
1 TTTATTTTAAAAAATCAAAACTTT
40178 TCTCAAGTTC
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 17 0.81
25 4 0.19
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (25 bp):
TTTATTTTAAAAAATCAAAACTTTC
Found at i:41057 original size:42 final size:41
Alignment explanation
Indices: 41004--41399 Score: 445
Period size: 42 Copynumber: 9.5 Consensus size: 41
40994 TCTACGCTTG
* * *
41004 GGCCTTTAAATGAAATGGAAAGTAAATGGACCTCCACATCT
1 GGCCTCTAAATGAAATGAAAAGTAAATGGACCTCCACACCT
* *
41045 GGACCTCTAAATGCAATGAAAAGTAAATGGACCTCCGCACCT
1 GG-CCTCTAAATGAAATGAAAAGTAAATGGACCTCCACACCT
* * *
41087 GGACGTCTAAATGTAATGAAAAGTAAATTGACCTCCACACCT
1 GG-CCTCTAAATGAAATGAAAAGTAAATGGACCTCCACACCT
** *
41129 GGGCCTCTAAATGCGATGAAAAGTAAATGGACCTCCACACTT
1 -GGCCTCTAAATGAAATGAAAAGTAAATGGACCTCCACACCT
* * *
41171 AGTCCTCTAAATGAAATGAAAAGTATATGGACCTCCACACTT
1 -GGCCTCTAAATGAAATGAAAAGTAAATGGACCTCCACACCT
* *
41213 GGGTCTCTAAATGAAATGAAAAGTAAATGGACCTCCATACCT
1 -GGCCTCTAAATGAAATGAAAAGTAAATGGACCTCCACACCT
*
41255 AGGCCTCTAAATGAAATAAAAAGTAAATGGACCTCCACACCT
1 -GGCCTCTAAATGAAATGAAAAGTAAATGGACCTCCACACCT
* *
41297 AGGCCTCTAAATGCAATGAAAAGTAAATTGG-CCTCCACTCCT
1 -GGCCTCTAAATGAAATGAAAAGTAAA-TGGACCTCCACACCT
* * * * * *
41339 GAGTCTCTTAATGAAATGAAAA-AAAATGGACTTCCAAACAT
1 G-GCCTCTAAATGAAATGAAAAGTAAATGGACCTCCACACCT
* *
41380 CAGCCTCTAAATGCAATGAA
1 -GGCCTCTAAATGAAATGAA
41400 TGCTTTCCTT
Statistics
Matches: 305, Mismatches: 44, Indels: 12
0.84 0.12 0.03
Matches are distributed among these distances:
40 3 0.01
41 28 0.09
42 269 0.88
43 5 0.02
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.23
Consensus pattern (41 bp):
GGCCTCTAAATGAAATGAAAAGTAAATGGACCTCCACACCT
Found at i:41857 original size:21 final size:19
Alignment explanation
Indices: 41813--41852 Score: 64
Period size: 19 Copynumber: 2.2 Consensus size: 19
41803 TCTCTCTCTA
*
41813 TTTCTTTCTTTTTTGTTGT
1 TTTCTCTCTTTTTTGTTGT
41832 TTTCTCTCTTTTTTG-TGT
1 TTTCTCTCTTTTTTGTTGT
41850 TTT
1 TTT
41853 TTTCTTGATT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 6 0.30
19 14 0.70
ACGTcount: A:0.00, C:0.12, G:0.10, T:0.78
Consensus pattern (19 bp):
TTTCTCTCTTTTTTGTTGT
Found at i:43609 original size:16 final size:16
Alignment explanation
Indices: 43566--43611 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
43556 GGGGAATGTG
43566 TAAA-AAACAT-AAATA
1 TAAATAAACATGAAA-A
*
43581 TAAATAGACATGAAAA
1 TAAATAAACATGAAAA
*
43597 TAAATAAAGATGAAA
1 TAAATAAACATGAAA
43612 TAAGAATAAA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
15 4 0.15
16 19 0.73
17 3 0.12
ACGTcount: A:0.67, C:0.04, G:0.09, T:0.20
Consensus pattern (16 bp):
TAAATAAACATGAAAA
Found at i:44331 original size:21 final size:22
Alignment explanation
Indices: 44295--44336 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
44285 CAGATTTTTA
**
44295 TTTTTAAAAATCT-AAACTTTC
1 TTTTTAAAAAAATAAAACTTTC
44316 TTTTTAAAAAAATAAAACTTT
1 TTTTTAAAAAAATAAAACTTT
44337 TCCCAATGTC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 11 0.61
22 7 0.39
ACGTcount: A:0.45, C:0.10, G:0.00, T:0.45
Consensus pattern (22 bp):
TTTTTAAAAAAATAAAACTTTC
Found at i:56003 original size:17 final size:17
Alignment explanation
Indices: 55964--55996 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
55954 AAGAAAATAA
55964 AAATGGAAACAACAAAG
1 AAATGGAAACAACAAAG
55981 AAATGGAAACAACAAA
1 AAATGGAAACAACAAA
55997 ATGATGGCTG
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.67, C:0.12, G:0.15, T:0.06
Consensus pattern (17 bp):
AAATGGAAACAACAAAG
Done.