Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01003188.1 Kokia drynarioides strain JFW-HI SEQ_115800, 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: 17647
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Warning! 1 characters in sequence are not A, C, G, or T
Found at i:5102 original size:53 final size:53
Alignment explanation
Indices: 5044--5150 Score: 187
Period size: 53 Copynumber: 2.0 Consensus size: 53
5034 ATGACAAGTG
* *
5044 TGACATTCTTTTCCTAAACTATATGGCATGCTTATCATACATATGCATGAACA
1 TGACATTCTTTTCCTAAACTATATGGCACGCTTATCATACATATGCACGAACA
*
5097 TGACATTCTTTTCCTAACCTATATGGCACGCTTATCATACATATGCACGAACA
1 TGACATTCTTTTCCTAAACTATATGGCACGCTTATCATACATATGCACGAACA
5150 T
1 T
5151 TTATTTCTAG
Statistics
Matches: 51, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
53 51 1.00
ACGTcount: A:0.31, C:0.23, G:0.11, T:0.35
Consensus pattern (53 bp):
TGACATTCTTTTCCTAAACTATATGGCACGCTTATCATACATATGCACGAACA
Found at i:11924 original size:46 final size:46
Alignment explanation
Indices: 11866--11960 Score: 172
Period size: 46 Copynumber: 2.1 Consensus size: 46
11856 ATTGTATCTT
* *
11866 AACCGTCGATGTACTCTAATCTTAACCGTTGGATGTAAGGGGCTTC
1 AACCATCGATGTACTCTAATCTTAACCATTGGATGTAAGGGGCTTC
11912 AACCATCGATGTACTCTAATCTTAACCATTGGATGTAAGGGGCTTC
1 AACCATCGATGTACTCTAATCTTAACCATTGGATGTAAGGGGCTTC
11958 AAC
1 AAC
11961 TATAAATAGA
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.27, C:0.22, G:0.21, T:0.29
Consensus pattern (46 bp):
AACCATCGATGTACTCTAATCTTAACCATTGGATGTAAGGGGCTTC
Done.