Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01024102.1 Corchorus olitorius cultivar O-4 contig24135, 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: 16604
ACGTcount: A:0.33, C:0.18, G:0.19, T:0.30
Found at i:3349 original size:26 final size:27
Alignment explanation
Indices: 3320--3430 Score: 147
Period size: 26 Copynumber: 4.2 Consensus size: 27
3310 GTAATGAAAA
3320 AAATGACCAAAATGCCCCTGAA-GTAC
1 AAATGACCAAAATGCCCCTGAACGTAC
* *
3346 AAATGACCAAAATGCCCCTGAATGTAAA
1 AAATGACCAAAATGCCCCTGAACGT-AC
* * *
3374 AAATG-CTAAAATGCCCCTGAACATGC
1 AAATGACCAAAATGCCCCTGAACGTAC
3400 AAATGACCAAAATGCCCCTGAA-GTAC
1 AAATGACCAAAATGCCCCTGAACGTAC
3426 AAATG
1 AAATG
3431 CTAATCAAGG
Statistics
Matches: 73, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
26 34 0.47
27 33 0.45
28 6 0.08
ACGTcount: A:0.43, C:0.24, G:0.15, T:0.17
Consensus pattern (27 bp):
AAATGACCAAAATGCCCCTGAACGTAC
Found at i:3376 original size:54 final size:54
Alignment explanation
Indices: 3312--3421 Score: 168
Period size: 54 Copynumber: 2.0 Consensus size: 54
3302 TTAAGCTAGT
*
3312 AATGAAAAAAATGACCAAAATGCCCCTGAA-GTACAAATGACCAAAATGCCCCTG
1 AATGAAAAAAATG-CCAAAATGCCCCTGAACATACAAATGACCAAAATGCCCCTG
* * *
3366 AATGTAAAAAATGCTAAAATGCCCCTGAACATGCAAATGACCAAAATGCCCCTG
1 AATGAAAAAAATGCCAAAATGCCCCTGAACATACAAATGACCAAAATGCCCCTG
3420 AA
1 AA
3422 GTACAAATGC
Statistics
Matches: 51, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
53 15 0.29
54 36 0.71
ACGTcount: A:0.45, C:0.24, G:0.15, T:0.16
Consensus pattern (54 bp):
AATGAAAAAAATGCCAAAATGCCCCTGAACATACAAATGACCAAAATGCCCCTG
Found at i:3392 original size:27 final size:28
Alignment explanation
Indices: 3312--3421 Score: 129
Period size: 27 Copynumber: 4.1 Consensus size: 28
3302 TTAAGCTAGT
*
3312 AATGAAAAAAATGACCAAAATGCCCCTG
1 AATGTAAAAAATGACCAAAATGCCCCTG
*
3340 AA-GT-ACAAATGACCAAAATGCCCCTG
1 AATGTAAAAAATGACCAAAATGCCCCTG
*
3366 AATGTAAAAAATG-CTAAAATGCCCCTG
1 AATGTAAAAAATGACCAAAATGCCCCTG
** **
3393 AACAT-GCAAATGACCAAAATGCCCCTG
1 AATGTAAAAAATGACCAAAATGCCCCTG
3420 AA
1 AA
3422 GTACAAATGC
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
26 28 0.40
27 34 0.49
28 8 0.11
ACGTcount: A:0.45, C:0.24, G:0.15, T:0.16
Consensus pattern (28 bp):
AATGTAAAAAATGACCAAAATGCCCCTG
Found at i:4169 original size:31 final size:30
Alignment explanation
Indices: 3918--4657 Score: 1008
Period size: 30 Copynumber: 24.4 Consensus size: 30
3908 GGATTAACTG
3918 ATGAAGCAATGATCCT-AAACCAGGATTAAA
1 ATGAAGCAATGATCCTCAAA-CAGGATTAAA
** *
3948 ACAAAGCAATGATCCT-AGACCAGGATTAAA
1 ATGAAGCAATGATCCTCA-AACAGGATTAAA
* * *
3978 ATAAAGCAACGATCCTCAACCAGGATTAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAA
* * * * * *
4008 ATAAACCAACGATCCTCGACCAGGATAAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAA
* * *
4038 ATAAAGCAACGATCCTCAACCAGGATTAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAA
* * *
4068 AT-AAACAATGATCCTCAACCAGGATTGAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAA
4097 ATGAAGCAATGATCCTCAAACAGGATTAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAA
4127 ATGAAGCAATGATCCTCAAACAGGATTAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAA
*
4157 GATGAAGTAATGATCCTCAAACAGGATTAAA
1 -ATGAAGCAATGATCCTCAAACAGGATTAAA
* *
4188 ATAAAGCAATGATCCTCAACCAGGATTAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAA
*
4218 ATGAAGCAATGATCCTCAAACATGATTAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAA
* * *
4248 ATAAAACAATGATCCTCAAACATGATTAAAA
1 ATGAAGCAATGATCCTCAAACAGGATT-AAA
4279 ATGAAGCAATGATCCTCAAACAGGATTAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAA
4309 ATGAAGCAATGATCCTCAAACAGGATTAAAA
1 ATGAAGCAATGATCCTCAAACAGGATT-AAA
4340 ATGAA-CTAATGATCCTCAAACAGGATTAAAA
1 ATGAAGC-AATGATCCTCAAACAGGATT-AAA
*
4371 ATGAAGCAATGATCCTCAAACATGATTAAAA
1 ATGAAGCAATGATCCTCAAACAGGATT-AAA
4402 ATGAAGCAATGATCCTCAAACAGGATTAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAA
4432 ATGAAGCAATGATCCTCAAACAGGATTAAAA
1 ATGAAGCAATGATCCTCAAACAGGATT-AAA
4463 ATGAA-CTAATGATCCTCAAACAGGATTAAAA
1 ATGAAGC-AATGATCCTCAAACAGGATT-AAA
*
4494 ATGAA-CTAATGATCCTCAACCAGGATTAAA
1 ATGAAGC-AATGATCCTCAAACAGGATTAAA
4524 ATGAAGCAATGATCCTCAAACAGGATTAAAA
1 ATGAAGCAATGATCCTCAAACAGGATT-AAA
*
4555 ATGAA-CTAATGATCCTCAACCAGGATTAAA
1 ATGAAGC-AATGATCCTCAAACAGGATTAAA
* *
4585 ATGAAGCAATGATCCTCAACCAGGATTAAT
1 ATGAAGCAATGATCCTCAAACAGGATTAAA
*
4615 ATAAAGCAATGATCCTCAAACAGGATTAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAA
**
4645 ACAAAGCAATGAT
1 ATGAAGCAATGAT
4658 AAAGTAGAAT
Statistics
Matches: 657, Mismatches: 39, Indels: 28
0.91 0.05 0.04
Matches are distributed among these distances:
29 26 0.04
30 399 0.61
31 231 0.35
32 1 0.00
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.20
Consensus pattern (30 bp):
ATGAAGCAATGATCCTCAAACAGGATTAAA
Found at i:4178 original size:61 final size:60
Alignment explanation
Indices: 3918--4657 Score: 1008
Period size: 61 Copynumber: 12.2 Consensus size: 60
3908 GGATTAACTG
** *
3918 ATGAAGCAATGATCCT-AAACCAGGATTAAAACAAAGCAATGATCCT-AGACCAGGATTAAA
1 ATGAAGCAATGATCCTCAAA-CAGGATTAAAATGAAGCAATGATCCTCA-AACAGGATTAAA
* * * * * * * * *
3978 ATAAAGCAACGATCCTCAACCAGGATTAAAATAAACCAACGATCCTCGACCAGGATAAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAAATGAAGCAATGATCCTCAAACAGGATTAAA
* * * * * *
4038 ATAAAGCAACGATCCTCAACCAGGATTAAAAT-AAACAATGATCCTCAACCAGGATTGAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAAATGAAGCAATGATCCTCAAACAGGATTAAA
4097 ATGAAGCAATGATCCTCAAACAGGATTAAAATGAAGCAATGATCCTCAAACAGGATTAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAAATGAAGCAATGATCCTCAAACAGGATTAAA
* * *
4157 GATGAAGTAATGATCCTCAAACAGGATTAAAATAAAGCAATGATCCTCAACCAGGATTAAA
1 -ATGAAGCAATGATCCTCAAACAGGATTAAAATGAAGCAATGATCCTCAAACAGGATTAAA
* * * *
4218 ATGAAGCAATGATCCTCAAACATGATTAAAATAAAACAATGATCCTCAAACATGATTAAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAAATGAAGCAATGATCCTCAAACAGGATT-AAA
4279 ATGAAGCAATGATCCTCAAACAGGATTAAAATGAAGCAATGATCCTCAAACAGGATTAAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAAATGAAGCAATGATCCTCAAACAGGATT-AAA
*
4340 ATGAA-CTAATGATCCTCAAACAGGATTAAAAATGAAGCAATGATCCTCAAACATGATTAAAA
1 ATGAAGC-AATGATCCTCAAACAGGATT-AAAATGAAGCAATGATCCTCAAACAGGATT-AAA
4402 ATGAAGCAATGATCCTCAAACAGGATTAAAATGAAGCAATGATCCTCAAACAGGATTAAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAAATGAAGCAATGATCCTCAAACAGGATT-AAA
*
4463 ATGAA-CTAATGATCCTCAAACAGGATTAAAAATGAA-CTAATGATCCTCAACCAGGATTAAA
1 ATGAAGC-AATGATCCTCAAACAGGATT-AAAATGAAGC-AATGATCCTCAAACAGGATTAAA
*
4524 ATGAAGCAATGATCCTCAAACAGGATTAAAAATGAA-CTAATGATCCTCAACCAGGATTAAA
1 ATGAAGCAATGATCCTCAAACAGGATT-AAAATGAAGC-AATGATCCTCAAACAGGATTAAA
* * *
4585 ATGAAGCAATGATCCTCAACCAGGATTAATATAAAGCAATGATCCTCAAACAGGATTAAA
1 ATGAAGCAATGATCCTCAAACAGGATTAAAATGAAGCAATGATCCTCAAACAGGATTAAA
**
4645 ACAAAGCAATGAT
1 ATGAAGCAATGAT
4658 AAAGTAGAAT
Statistics
Matches: 627, Mismatches: 40, Indels: 26
0.90 0.06 0.04
Matches are distributed among these distances:
59 51 0.08
60 197 0.31
61 292 0.47
62 86 0.14
63 1 0.00
ACGTcount: A:0.47, C:0.18, G:0.15, T:0.20
Consensus pattern (60 bp):
ATGAAGCAATGATCCTCAAACAGGATTAAAATGAAGCAATGATCCTCAAACAGGATTAAA
Found at i:5257 original size:36 final size:35
Alignment explanation
Indices: 5210--5626 Score: 460
Period size: 36 Copynumber: 11.7 Consensus size: 35
5200 CTGAAATAAA
*
5210 CCTGGATCAACTGAAATAATATTGAAGTAAGATCGC
1 CCTGGATCAACTGAAATAA-ATTGAAGAAAGATCGC
* *
5246 CCTGGATCAACTAAAATAAACTGAAGAAAAGATCGC
1 CCTGGATCAACTGAAATAAATTGAAG-AAAGATCGC
* **
5282 CCTGGATCAACTGATATAAACCGAAGAAAAGATCGC
1 CCTGGATCAACTGAAATAAATTGAAG-AAAGATCGC
* *
5318 CCTGGATCAACTGAATTAAATTGAAGAAAGACCGC
1 CCTGGATCAACTGAAATAAATTGAAGAAAGATCGC
* * *
5353 CCT-AAGTCAATTGAAATAAATTGAAGAAAGATCTC
1 CCTGGA-TCAACTGAAATAAATTGAAGAAAGATCGC
* *
5388 CCTGGATCAACTGAATTAAATTGAAGAAAGACCGC
1 CCTGGATCAACTGAAATAAATTGAAGAAAGATCGC
* *
5423 CCTGGGTCAATTGAAATAAATTGAAGAAAGGATCGC
1 CCTGGATCAACTGAAATAAATTGAAGAAA-GATCGC
* * *
5459 CCTGGATCAATTGAAATGAACTGAAGAAAAGATCGC
1 CCTGGATCAACTGAAATAAATTGAAG-AAAGATCGC
* * *
5495 CCTGGATCAACTGAATTAAATTGAAAAAAGACCGC
1 CCTGGATCAACTGAAATAAATTGAAGAAAGATCGC
* * *
5530 CCTGGGTCAATTGGAATAAATTGAAGAAAGGATCGC
1 CCTGGATCAACTGAAATAAATTGAAGAAA-GATCGC
* * * *
5566 CCTGGATCAATTGAAATGAACTT-AAGAAAGACCAC
1 CCTGGATCAACTGAAAT-AAATTGAAGAAAGATCGC
* * * *
5601 CCTGGGTCAGCTGGAATAAACTGAAG
1 CCTGGATCAACTGAAATAAATTGAAG
5627 CATCTGAAAT
Statistics
Matches: 322, Mismatches: 51, Indels: 17
0.83 0.13 0.04
Matches are distributed among these distances:
34 4 0.01
35 148 0.46
36 163 0.51
37 7 0.02
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (35 bp):
CCTGGATCAACTGAAATAAATTGAAGAAAGATCGC
Found at i:5518 original size:107 final size:106
Alignment explanation
Indices: 5210--5594 Score: 515
Period size: 107 Copynumber: 3.6 Consensus size: 106
5200 CTGAAATAAA
* * *
5210 CCTGGATCAACTGAAATAATATTGAAGTAAGATCGCCCTGGATCAACTAAAATAAACTGAAGAAA
1 CCTGGATCAACTGAAATAA-ATTGAAGAAAGATCGCCCTGGATCAATTGAAATAAACTGAAGAAA
** *
5275 AGATCGCCCTGGATCAACTG-ATATAAACCGAAGAAAAGATCGC
65 AGATCGCCCTGGATCAACTGAAT-TAAATTGAAG-AAAGACCGC
* * * *
5318 CCTGGATCAACTGAATTAAATTGAAGAAAGACCGCCCT-AAGTCAATTGAAATAAATTGAAG-AA
1 CCTGGATCAACTGAAATAAATTGAAGAAAGATCGCCCTGGA-TCAATTGAAATAAACTGAAGAAA
*
5381 AGATCTCCCTGGATCAACTGAATTAAATTGAAGAAAGACCGC
65 AGATCGCCCTGGATCAACTGAATTAAATTGAAGAAAGACCGC
* * *
5423 CCTGGGTCAATTGAAATAAATTGAAGAAAGGATCGCCCTGGATCAATTGAAATGAACTGAAGAAA
1 CCTGGATCAACTGAAATAAATTGAAGAAA-GATCGCCCTGGATCAATTGAAATAAACTGAAGAAA
*
5488 AGATCGCCCTGGATCAACTGAATTAAATTGAAAAAAGACCGC
65 AGATCGCCCTGGATCAACTGAATTAAATTGAAGAAAGACCGC
* * * * *
5530 CCTGGGTCAATTGGAATAAATTGAAGAAAGGATCGCCCTGGATCAATTGAAATGAACTTAAGAAA
1 CCTGGATCAACTGAAATAAATTGAAGAAA-GATCGCCCTGGATCAATTGAAATAAACTGAAGAAA
5595 GACCACCCTG
Statistics
Matches: 250, Mismatches: 22, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
105 34 0.14
106 56 0.22
107 142 0.57
108 18 0.07
ACGTcount: A:0.42, C:0.17, G:0.20, T:0.21
Consensus pattern (106 bp):
CCTGGATCAACTGAAATAAATTGAAGAAAGATCGCCCTGGATCAATTGAAATAAACTGAAGAAAA
GATCGCCCTGGATCAACTGAATTAAATTGAAGAAAGACCGC
Found at i:5527 original size:177 final size:178
Alignment explanation
Indices: 5210--5626 Score: 586
Period size: 177 Copynumber: 2.3 Consensus size: 178
5200 CTGAAATAAA
* * * *
5210 CCTGGATCAACTGAAATAATATTGAAGTAAGATCGCCCTGGATCAACTAAAATAAACTGAAGAAA
1 CCTGGATCAACTGAATTAA-ATTGAAGAAAGACCGCCCTGGGTCAACTAAAATAAACTGAAGAAA
*
5275 AGATCGCCCTGGATCAACTGATATAAACCGAAGAAAAGATCGCCCTGGATCAACTGAATTAAATT
65 AGATCGCCCTGGATCAACTGAAATAAACCGAAGAAAAGATCGCCCTGGATCAACTGAATTAAATT
* *
5340 GAAGAAAGACCGCCCTAAGTCAATTGAAATAAATTGAAGAAA-GATCTC
130 GAAAAAAGACCGCCCTAAGTCAATTGAAATAAATTGAAGAAAGGATCGC
* * * *
5388 CCTGGATCAACTGAATTAAATTGAAGAAAGACCGCCCTGGGTCAATTGAAATAAATTGAAGAAAG
1 CCTGGATCAACTGAATTAAATTGAAGAAAGACCGCCCTGGGTCAACTAAAATAAACTGAAGAAAA
* * *
5453 GATCGCCCTGGATCAATTGAAATGAACTGAAGAAAAGATCGCCCTGGATCAACTGAATTAAATTG
66 GATCGCCCTGGATCAACTGAAATAAACCGAAGAAAAGATCGCCCTGGATCAACTGAATTAAATTG
** *
5518 AAAAAAGACCGCCCTGGGTCAATTGGAATAAATTGAAGAAAGGATCGC
131 AAAAAAGACCGCCCTAAGTCAATTGAAATAAATTGAAGAAAGGATCGC
* * * * * **
5566 CCTGGATCAATTGAAATGAACTT-AAGAAAGACCACCCTGGGTCAGCTGGAATAAACTGAAG
1 CCTGGATCAACTG-AATTAAATTGAAGAAAGACCGCCCTGGGTCAACTAAAATAAACTGAAG
5627 CATCTGAAAT
Statistics
Matches: 212, Mismatches: 25, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
177 137 0.65
178 68 0.32
179 7 0.03
ACGTcount: A:0.41, C:0.18, G:0.21, T:0.21
Consensus pattern (178 bp):
CCTGGATCAACTGAATTAAATTGAAGAAAGACCGCCCTGGGTCAACTAAAATAAACTGAAGAAAA
GATCGCCCTGGATCAACTGAAATAAACCGAAGAAAAGATCGCCCTGGATCAACTGAATTAAATTG
AAAAAAGACCGCCCTAAGTCAATTGAAATAAATTGAAGAAAGGATCGC
Found at i:7114 original size:13 final size:14
Alignment explanation
Indices: 7098--7128 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
7088 TAAAAACAAA
7098 TTTTG-AAAACCAT
1 TTTTGAAAAACCAT
7111 TTTTGAAAAACCAT
1 TTTTGAAAAACCAT
7125 TTTT
1 TTTT
7129 TTTGAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 5 0.29
14 12 0.71
ACGTcount: A:0.35, C:0.13, G:0.06, T:0.45
Consensus pattern (14 bp):
TTTTGAAAAACCAT
Found at i:7132 original size:17 final size:17
Alignment explanation
Indices: 7110--7146 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
7100 TTGAAAACCA
7110 TTTTTGAAAAA-CCATTT
1 TTTTTGAAAAATCC-TTT
7127 TTTTTGAAAAATCCTTT
1 TTTTTGAAAAATCCTTT
7144 TTT
1 TTT
7147 GAAAGCATGT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 17 0.89
18 2 0.11
ACGTcount: A:0.30, C:0.11, G:0.05, T:0.54
Consensus pattern (17 bp):
TTTTTGAAAAATCCTTT
Found at i:7566 original size:2 final size:2
Alignment explanation
Indices: 7559--7589 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
7549 GAACAATAGA
*
7559 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
7590 ATGGAAAGCA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:9878 original size:22 final size:22
Alignment explanation
Indices: 9853--9899 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
9843 TATCCAACCT
*
9853 ATTATGCCATCTAAATAAAAGC
1 ATTATGCCATCTAAATAAAAAC
9875 ATTATGCCATCTAAATAAAAAC
1 ATTATGCCATCTAAATAAAAAC
9897 ATT
1 ATT
9900 GGGCTTGAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.47, C:0.17, G:0.06, T:0.30
Consensus pattern (22 bp):
ATTATGCCATCTAAATAAAAAC
Found at i:10289 original size:22 final size:22
Alignment explanation
Indices: 10261--10307 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
10251 TAAAAGGATG
10261 AATGCAAAAGATGCCATGCAAA
1 AATGCAAAAGATGCCATGCAAA
*
10283 AATGCAAAAGGTGCCATGCAAA
1 AATGCAAAAGATGCCATGCAAA
10305 AAT
1 AAT
10308 TCAACTACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.49, C:0.17, G:0.19, T:0.15
Consensus pattern (22 bp):
AATGCAAAAGATGCCATGCAAA
Found at i:10760 original size:2 final size:2
Alignment explanation
Indices: 10755--10796 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
10745 GGTGTTTAAC
* * *
10755 AT AT AT AT GT GT AT TT 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 AT AT
10797 CTGCAAACAA
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.43, C:0.00, G:0.05, T:0.52
Consensus pattern (2 bp):
AT
Found at i:10955 original size:26 final size:26
Alignment explanation
Indices: 10899--10966 Score: 66
Period size: 26 Copynumber: 2.6 Consensus size: 26
10889 ACAAAATGCC
* **
10899 ACAAA-GCTAAAATGCCCCTGAATGT
1 ACAAATGCTAAAATGCCACTGAACAT
*
10924 AAAAATGCTAAAATGCCACTGAACAT
1 ACAAATGCTAAAATGCCACTGAACAT
* *
10950 GCAAATGACCAAAATGC
1 ACAAATG-CTAAAATGC
10967 GCCTGAAGGA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
25 4 0.12
26 22 0.65
27 8 0.24
ACGTcount: A:0.46, C:0.22, G:0.15, T:0.18
Consensus pattern (26 bp):
ACAAATGCTAAAATGCCACTGAACAT
Found at i:16218 original size:21 final size:23
Alignment explanation
Indices: 16174--16218 Score: 58
Period size: 24 Copynumber: 2.0 Consensus size: 23
16164 GTGTTTTCTC
16174 TTCTCTTAGAGTTGTTAGTTGATT
1 TTCTCTTAGAGTTG-TAGTTGATT
*
16198 TTCTCTTAGCGTTG-A-TTGATT
1 TTCTCTTAGAGTTGTAGTTGATT
16219 GCCATTTCGA
Statistics
Matches: 20, Mismatches: 1, Indels: 3
0.83 0.04 0.12
Matches are distributed among these distances:
21 6 0.30
22 1 0.05
24 13 0.65
ACGTcount: A:0.16, C:0.11, G:0.20, T:0.53
Consensus pattern (23 bp):
TTCTCTTAGAGTTGTAGTTGATT
Done.