Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01014073.1 Kokia drynarioides strain JFW-HI SEQ_129104, 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: 47510
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Warning! 50 characters in sequence are not A, C, G, or T
Found at i:112 original size:36 final size:36
Alignment explanation
Indices: 68--137 Score: 122
Period size: 36 Copynumber: 1.9 Consensus size: 36
58 ACCAAAATGG
*
68 TTATTTTGTACCATTTTGGTAAATAATGGTGTGTAT
1 TTATTTTGTACCATTTTAGTAAATAATGGTGTGTAT
*
104 TTATTTTGTACTATTTTAGTAAATAATGGTGTGT
1 TTATTTTGTACCATTTTAGTAAATAATGGTGTGT
138 GGATACTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
36 32 1.00
ACGTcount: A:0.26, C:0.04, G:0.19, T:0.51
Consensus pattern (36 bp):
TTATTTTGTACCATTTTAGTAAATAATGGTGTGTAT
Found at i:1441 original size:43 final size:43
Alignment explanation
Indices: 1359--1443 Score: 118
Period size: 43 Copynumber: 2.0 Consensus size: 43
1349 ATTAACATGT
* *
1359 TAAATTATATTACTTGACTCGTGTTAATATGGTTGCATGTTAC
1 TAAATTATATTACTTGACTCGTATTAATATGCTTGCATGTTAC
* *
1402 TAAATTATATTACTTTACTCTTATTAATAT-CTTGACATGTTA
1 TAAATTATATTACTTGACTCGTATTAATATGCTTG-CATGTTA
1444 TTAATTGTGC
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
42 3 0.08
43 34 0.92
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.47
Consensus pattern (43 bp):
TAAATTATATTACTTGACTCGTATTAATATGCTTGCATGTTAC
Found at i:2074 original size:45 final size:45
Alignment explanation
Indices: 2010--2145 Score: 202
Period size: 45 Copynumber: 3.0 Consensus size: 45
2000 GCATAGCTCA
* *
2010 TCAAGCCAAGGATATCAGCCTTAGTTTGATGAGCCACCGCAATAC
1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC
*
2055 TCAAGCCAAGGATATCAGCCTCAATTTGACGAGCCACCGCAATAC
1 TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC
** *
2100 TCAAGGGAAGGATATCAAG-CTGAGTTTGACGAGCCACCGCAATAC
1 TCAAGCCAAGGATATC-AGCCTCAGTTTGACGAGCCACCGCAATAC
2145 T
1 T
2146 TTATTCCTCC
Statistics
Matches: 83, Mismatches: 7, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
45 81 0.98
46 2 0.02
ACGTcount: A:0.32, C:0.26, G:0.21, T:0.20
Consensus pattern (45 bp):
TCAAGCCAAGGATATCAGCCTCAGTTTGACGAGCCACCGCAATAC
Found at i:2174 original size:21 final size:21
Alignment explanation
Indices: 2138--2183 Score: 56
Period size: 21 Copynumber: 2.2 Consensus size: 21
2128 ACGAGCCACC
* *
2138 GCAATACTTTATTCCTCCCGG
1 GCAATACTCTACTCCTCCCGG
* *
2159 GCAATACTCTACTCCTTCGGG
1 GCAATACTCTACTCCTCCCGG
2180 GCAA
1 GCAA
2184 ATTGACCCTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.22, C:0.33, G:0.17, T:0.28
Consensus pattern (21 bp):
GCAATACTCTACTCCTCCCGG
Found at i:2351 original size:28 final size:27
Alignment explanation
Indices: 2319--2378 Score: 86
Period size: 28 Copynumber: 2.2 Consensus size: 27
2309 AAATTTGACT
*
2319 ATTGAAA-TCCTAAACTGTAAACACTAG
1 ATTGAAACT-CTAAACCGTAAACACTAG
2346 ACTTGAAACTCTAAACCGTAAACACTAG
1 A-TTGAAACTCTAAACCGTAAACACTAG
2374 ATTGA
1 ATTGA
2379 TTAAAGAGGG
Statistics
Matches: 30, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
27 5 0.17
28 24 0.80
29 1 0.03
ACGTcount: A:0.43, C:0.20, G:0.12, T:0.25
Consensus pattern (27 bp):
ATTGAAACTCTAAACCGTAAACACTAG
Found at i:5668 original size:4 final size:4
Alignment explanation
Indices: 5648--5713 Score: 71
Period size: 4 Copynumber: 16.2 Consensus size: 4
5638 AACATATTAC
* * * *
5648 CTTT CTTT CATT C-TT CTTT CTTT CCTCT CCTT CTTC CTTT CTTT CTTT
1 CTTT CTTT CTTT CTTT CTTT CTTT -CTTT CTTT CTTT CTTT CTTT CTTT
5696 CTTTT CTTT CTTT CTTT C
1 C-TTT CTTT CTTT CTTT C
5714 CCGTTTATTT
Statistics
Matches: 52, Mismatches: 7, Indels: 6
0.80 0.11 0.09
Matches are distributed among these distances:
3 3 0.06
4 42 0.81
5 7 0.13
ACGTcount: A:0.02, C:0.32, G:0.00, T:0.67
Consensus pattern (4 bp):
CTTT
Found at i:5706 original size:25 final size:24
Alignment explanation
Indices: 5647--5713 Score: 73
Period size: 25 Copynumber: 2.7 Consensus size: 24
5637 AAACATATTA
5647 CCTTTCTTTCATTC-TTCTTTCTTT
1 CCTTTCTTTC-TTCTTTCTTTCTTT
* *
5671 CCTCTCCTTCTTCCTTTCTTTCTTT
1 CCTTTCTTTCTT-CTTTCTTTCTTT
*
5696 CTTTTCTTTCTTTCTTTC
1 CCTTTCTTTC-TTCTTTC
5714 CCGTTTATTT
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
23 2 0.06
24 9 0.26
25 22 0.63
26 2 0.06
ACGTcount: A:0.01, C:0.33, G:0.00, T:0.66
Consensus pattern (24 bp):
CCTTTCTTTCTTCTTTCTTTCTTT
Found at i:13072 original size:18 final size:18
Alignment explanation
Indices: 13051--13110 Score: 63
Period size: 18 Copynumber: 3.3 Consensus size: 18
13041 TTGACGACCA
*
13051 TGATGATGAGCTTGTATC
1 TGATGATGAGTTTGTATC
13069 TGATGA--A-TTTGATGATC
1 TGATGATGAGTTTG-T-ATC
13086 TGGATGATGAGTTTGTATC
1 T-GATGATGAGTTTGTATC
13105 TGATGA
1 TGATGA
13111 ATTTGATGAC
Statistics
Matches: 35, Mismatches: 1, Indels: 12
0.73 0.02 0.25
Matches are distributed among these distances:
15 3 0.09
16 2 0.06
17 4 0.11
18 16 0.46
19 4 0.11
20 2 0.06
21 4 0.11
ACGTcount: A:0.25, C:0.07, G:0.28, T:0.40
Consensus pattern (18 bp):
TGATGATGAGTTTGTATC
Found at i:13093 original size:21 final size:20
Alignment explanation
Indices: 13069--13140 Score: 64
Period size: 21 Copynumber: 3.8 Consensus size: 20
13059 AGCTTGTATC
13069 TGATGAATTTGATGATCTGGA
1 TGATGAATTTGATGATC-GGA
*
13090 TGATGAGTTTG-T-ATC---
1 TGATGAATTTGATGATCGGA
*
13105 TGATGAATTTGATGACCAGGA
1 TGATGAATTTGATGATC-GGA
*
13126 TGATGAGTTTGATGA
1 TGATGAATTTGATGA
13141 AGTAGAAGTA
Statistics
Matches: 41, Mismatches: 4, Indels: 12
0.72 0.07 0.21
Matches are distributed among these distances:
15 10 0.24
16 1 0.02
17 2 0.05
19 3 0.07
20 1 0.02
21 24 0.59
ACGTcount: A:0.28, C:0.06, G:0.29, T:0.38
Consensus pattern (20 bp):
TGATGAATTTGATGATCGGA
Found at i:13133 original size:36 final size:36
Alignment explanation
Indices: 13027--13136 Score: 166
Period size: 36 Copynumber: 3.1 Consensus size: 36
13017 TGTTGGAAAG
* * * *
13027 TGTATCTGATGAAGTTGACGACCATGATGATGAGCT
1 TGTATCTGATGAATTTGATGACCAGGATGATGAGTT
* *
13063 TGTATCTGATGAATTTGATGATCTGGATGATGAGTT
1 TGTATCTGATGAATTTGATGACCAGGATGATGAGTT
13099 TGTATCTGATGAATTTGATGACCAGGATGATGAGTT
1 TGTATCTGATGAATTTGATGACCAGGATGATGAGTT
13135 TG
1 TG
13137 ATGAAGTAGA
Statistics
Matches: 66, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 66 1.00
ACGTcount: A:0.26, C:0.09, G:0.28, T:0.36
Consensus pattern (36 bp):
TGTATCTGATGAATTTGATGACCAGGATGATGAGTT
Found at i:13150 original size:6 final size:6
Alignment explanation
Indices: 13139--13169 Score: 62
Period size: 6 Copynumber: 5.2 Consensus size: 6
13129 TGAGTTTGAT
13139 GAAGTA GAAGTA GAAGTA GAAGTA GAAGTA G
1 GAAGTA GAAGTA GAAGTA GAAGTA GAAGTA G
13170 GAGAAGGTAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.35, T:0.16
Consensus pattern (6 bp):
GAAGTA
Found at i:18445 original size:24 final size:24
Alignment explanation
Indices: 18388--18446 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 24
18378 AGAAATAATC
* **
18388 TTTCAGTTAAACTTTGTTTATTTG
1 TTTCAGTTAAACTCTGTTTAGCTG
*
18412 TTTCAATTAAACTCTGTTTAGCTG
1 TTTCAGTTAAACTCTGTTTAGCTG
*
18436 TTTGAGTTAAA
1 TTTCAGTTAAA
18447 TTCTTATTAG
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 29 1.00
ACGTcount: A:0.25, C:0.10, G:0.14, T:0.51
Consensus pattern (24 bp):
TTTCAGTTAAACTCTGTTTAGCTG
Found at i:19271 original size:15 final size:15
Alignment explanation
Indices: 19251--19279 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
19241 TAAACTTTTT
19251 GAAAACAAAATAATA
1 GAAAACAAAATAATA
19266 GAAAACAAAATAAT
1 GAAAACAAAATAAT
19280 TTAGTATGAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.72, C:0.07, G:0.07, T:0.14
Consensus pattern (15 bp):
GAAAACAAAATAATA
Found at i:23268 original size:16 final size:16
Alignment explanation
Indices: 23247--23277 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
23237 AGTTTTACGA
23247 AAACATTTTCAATTGG
1 AAACATTTTCAATTGG
23263 AAACATTTTCAATTG
1 AAACATTTTCAATTG
23278 ATTTACAAAA
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:0.39, C:0.13, G:0.10, T:0.39
Consensus pattern (16 bp):
AAACATTTTCAATTGG
Found at i:24196 original size:28 final size:28
Alignment explanation
Indices: 24165--24219 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
24155 TACAACTACA
24165 AATAATATTCATTCGAATAACAAAAAAT
1 AATAATATTCATTCGAATAACAAAAAAT
24193 AATAATATTCATTCGAATAACAAAAAA
1 AATAATATTCATTCGAATAACAAAAAA
24220 GAGAAAAAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.58, C:0.11, G:0.04, T:0.27
Consensus pattern (28 bp):
AATAATATTCATTCGAATAACAAAAAAT
Found at i:29147 original size:24 final size:24
Alignment explanation
Indices: 29119--29169 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
29109 AGAAATAATC
* * *
29119 TTTCAGTTAAATTCTGTTTAATTG
1 TTTCAATTAAACTATGTTTAATTG
*
29143 TTTCAATTAAACTATGTTTATTTG
1 TTTCAATTAAACTATGTTTAATTG
29167 TTT
1 TTT
29170 GAGTCAAACT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.25, C:0.08, G:0.10, T:0.57
Consensus pattern (24 bp):
TTTCAATTAAACTATGTTTAATTG
Found at i:29178 original size:24 final size:24
Alignment explanation
Indices: 29133--29179 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 24
29123 AGTTAAATTC
*
29133 TGTTTAATTGTTTCAATTAAACTA
1 TGTTTAATTGTTTCAATCAAACTA
* * *
29157 TGTTTATTTGTTTGAGTCAAACT
1 TGTTTAATTGTTTCAATCAAACT
29180 CTTATTAGTC
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.28, C:0.09, G:0.13, T:0.51
Consensus pattern (24 bp):
TGTTTAATTGTTTCAATCAAACTA
Found at i:31165 original size:24 final size:24
Alignment explanation
Indices: 31114--31168 Score: 85
Period size: 24 Copynumber: 2.3 Consensus size: 24
31104 TCTTTTAGTT
*
31114 AAACTCTGTTTATTTGTTTCAATT
1 AAACTCTGTTTATTTGTTTCAATC
31138 AAACTCTGTTTATTTGTTT-AAGTC
1 AAACTCTGTTTATTTGTTTCAA-TC
31162 AAACTCT
1 AAACTCT
31169 TATTAGTCTA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
23 2 0.07
24 27 0.93
ACGTcount: A:0.27, C:0.15, G:0.09, T:0.49
Consensus pattern (24 bp):
AAACTCTGTTTATTTGTTTCAATC
Found at i:31873 original size:2 final size:2
Alignment explanation
Indices: 31817--31858 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
31807 TCAATCATTT
*
31817 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TG TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
31859 CACACACACA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (2 bp):
TA
Found at i:32519 original size:22 final size:23
Alignment explanation
Indices: 32480--32528 Score: 57
Period size: 22 Copynumber: 2.1 Consensus size: 23
32470 ATTTAATTTT
*
32480 AAAAAATTAAATGATAAA-ATAA
1 AAAAAATTAAATAATAAAGATAA
32502 AAAAAATT-AATAATTAAATGATAA
1 AAAAAATTAAATAA-TAAA-GATAA
32526 AAA
1 AAA
32529 TAGAACCCGA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
21 4 0.17
22 12 0.52
24 7 0.30
ACGTcount: A:0.71, C:0.00, G:0.04, T:0.24
Consensus pattern (23 bp):
AAAAAATTAAATAATAAAGATAA
Found at i:32520 original size:21 final size:22
Alignment explanation
Indices: 32480--32529 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
32470 ATTTAATTTT
*
32480 AAAAAATTAAATGATAAAATAA
1 AAAAAATTAAATAATAAAATAA
* *
32502 AAAAAATT-AATAATTAAATGA
1 AAAAAATTAAATAATAAAATAA
*
32523 TAAAAAT
1 AAAAAAT
32530 AGAACCCGAA
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 16 0.67
22 8 0.33
ACGTcount: A:0.70, C:0.00, G:0.04, T:0.26
Consensus pattern (22 bp):
AAAAAATTAAATAATAAAATAA
Found at i:37298 original size:31 final size:31
Alignment explanation
Indices: 37263--37322 Score: 111
Period size: 31 Copynumber: 1.9 Consensus size: 31
37253 ATTTATAGGG
37263 AAGATATATAATATATTCCTAAATATATGGA
1 AAGATATATAATATATTCCTAAATATATGGA
*
37294 AAGATATATAATATATTCCTATATATATG
1 AAGATATATAATATATTCCTAAATATATG
37323 CCTAAAAGAT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.47, C:0.07, G:0.08, T:0.38
Consensus pattern (31 bp):
AAGATATATAATATATTCCTAAATATATGGA
Found at i:37415 original size:27 final size:27
Alignment explanation
Indices: 37364--37415 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
37354 CTAACAGATA
* *
37364 ATATCTCATAATAATATTTTACTAAAG
1 ATATCTCATAATAATAATATACTAAAG
* *
37391 ATATCTCGTAATAATAATATCCTAA
1 ATATCTCATAATAATAATATACTAA
37416 CAGAGCTCAA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 21 1.00
ACGTcount: A:0.44, C:0.13, G:0.04, T:0.38
Consensus pattern (27 bp):
ATATCTCATAATAATAATATACTAAAG
Found at i:42820 original size:7 final size:7
Alignment explanation
Indices: 42808--42833 Score: 52
Period size: 7 Copynumber: 3.7 Consensus size: 7
42798 AAAGAGAGAA
42808 AAATAAT
1 AAATAAT
42815 AAATAAT
1 AAATAAT
42822 AAATAAT
1 AAATAAT
42829 AAATA
1 AAATA
42834 TAATATGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 19 1.00
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (7 bp):
AAATAAT
Found at i:43822 original size:17 final size:17
Alignment explanation
Indices: 43768--43822 Score: 51
Period size: 19 Copynumber: 3.1 Consensus size: 17
43758 AATTAAAGCA
43768 ATATTTATATTAAATAAT
1 ATATTTATATTAAA-AAT
43786 A-A-TTATGAATTATTAAAAT
1 ATATTTAT--ATTA--AAAAT
43805 ATATTTATATTAAAAAT
1 ATATTTATATTAAAAAT
43822 A
1 A
43823 AGCGTTCATT
Statistics
Matches: 31, Mismatches: 0, Indels: 13
0.70 0.00 0.30
Matches are distributed among these distances:
16 4 0.13
17 7 0.23
18 5 0.16
19 8 0.26
20 3 0.10
21 4 0.13
ACGTcount: A:0.53, C:0.00, G:0.02, T:0.45
Consensus pattern (17 bp):
ATATTTATATTAAAAAT
Found at i:44277 original size:43 final size:43
Alignment explanation
Indices: 44207--44376 Score: 220
Period size: 43 Copynumber: 4.0 Consensus size: 43
44197 AGGCCACTAT
*
44207 AGAACAGGATC-TTAGC-GACGCTTTTCCCACAAACGCCGCTAA
1 AGAACAGGATCTTTAGCAG-CACTTTTCCCACAAACGCCGCTAA
* *
44249 AGAACAGGATCTTTAGCAGCACTTTTCCCACAAATGCCACTAA
1 AGAACAGGATCTTTAGCAGCACTTTTCCCACAAACGCCGCTAA
* * *
44292 AGAACATGATCTTTAGCAGCGCTTTTTCCACAAACGCCGCTAA
1 AGAACAGGATCTTTAGCAGCACTTTTCCCACAAACGCCGCTAA
* * * *
44335 AG-ACATGTTCTTTAGCGGCACTTTTTCCACAAACGCCGCTAA
1 AGAACAGGATCTTTAGCAGCACTTTTCCCACAAACGCCGCTAA
44377 CATTAACAGT
Statistics
Matches: 115, Mismatches: 11, Indels: 4
0.88 0.08 0.03
Matches are distributed among these distances:
42 48 0.42
43 66 0.57
44 1 0.01
ACGTcount: A:0.31, C:0.29, G:0.16, T:0.24
Consensus pattern (43 bp):
AGAACAGGATCTTTAGCAGCACTTTTCCCACAAACGCCGCTAA
Found at i:44356 original size:85 final size:85
Alignment explanation
Indices: 44199--44376 Score: 243
Period size: 85 Copynumber: 2.1 Consensus size: 85
44189 CCTAAAAAAG
*
44199 GCCACTATAGAACAGGATCTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGAACAGGATCTTTA
1 GCCACTAAAGAACAGGATCTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGAACAGGATCTTTA
*
44264 GCAGCACTTTTCCCACAAAT
66 GCAGCACTTTTCCCACAAAC
* * * *
44284 GCCACTAAAGAACATGATCTTTAGC-AGCGCTTTTTCCACAAACGCCGCTAAAG-ACATGTTCTT
1 GCCACTAAAGAACAGGATC-TTAGCGA-CGCTTTTCCCACAAACGCCGCTAAAGAACAGGATCTT
* *
44347 TAGCGGCACTTTTTCCACAAAC
64 TAGCAGCACTTTTCCCACAAAC
*
44369 GCCGCTAA
1 GCCACTAA
44377 CATTAACAGT
Statistics
Matches: 82, Mismatches: 9, Indels: 4
0.86 0.09 0.04
Matches are distributed among these distances:
85 52 0.63
86 30 0.37
ACGTcount: A:0.30, C:0.29, G:0.16, T:0.24
Consensus pattern (85 bp):
GCCACTAAAGAACAGGATCTTAGCGACGCTTTTCCCACAAACGCCGCTAAAGAACAGGATCTTTA
GCAGCACTTTTCCCACAAAC
Found at i:44359 original size:42 final size:43
Alignment explanation
Indices: 44227--44376 Score: 221
Period size: 43 Copynumber: 3.5 Consensus size: 43
44217 CTTAGCGACG
*
44227 CTTTTCCCACAAACGCCGCTAAAGAACAGGATCTTTAGCAGCA
1 CTTTTCCCACAAACGCCGCTAAAGAACATGATCTTTAGCAGCA
* * *
44270 CTTTTCCCACAAATGCCACTAAAGAACATGATCTTTAGCAGCG
1 CTTTTCCCACAAACGCCGCTAAAGAACATGATCTTTAGCAGCA
* * *
44313 CTTTTTCCACAAACGCCGCTAAAG-ACATGTTCTTTAGCGGCA
1 CTTTTCCCACAAACGCCGCTAAAGAACATGATCTTTAGCAGCA
*
44355 CTTTTTCCACAAACGCCGCTAA
1 CTTTTCCCACAAACGCCGCTAA
44377 CATTAACAGT
Statistics
Matches: 97, Mismatches: 10, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
42 37 0.38
43 60 0.62
ACGTcount: A:0.30, C:0.30, G:0.15, T:0.25
Consensus pattern (43 bp):
CTTTTCCCACAAACGCCGCTAAAGAACATGATCTTTAGCAGCA
Done.