Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01009297.1 Kokia drynarioides strain JFW-HI SEQ_124003, 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: 4774
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.34
Found at i:1123 original size:312 final size:304
Alignment explanation
Indices: 528--1140 Score: 1021
Period size: 312 Copynumber: 2.0 Consensus size: 304
518 ATTCAGTTTC
528 TGAATATTGTCTAAGTGCTTCTTTCCCCATAGATGAGAATTCAAATCCTCTGATCGACCGCAGGT
1 TGAATATTGTCTAAGTGCTTCTTTCCCCATAGATGAGAATTCAAATCCTCTGATCGACCGCAGGT
* *
593 TATGTCGCATATAGTACACCTAAATTGAGGGATTTTAGTCTTACCATGTTCCTTCCCAACCTGTT
66 TATGTCACATATAGTACACCTAAATTGAGGAATTTTAGTCTTACCATGTTCCTTCCCAACCTGTT
*
658 GCTGCTGCCCATGCACTTGATTTTACATCATTTCCCACCATATTAGTCGTTGGTATCGCCTTCTT
131 GCTGCTGCCCATGCACTTGATTTTACATCATTTCCCACCATATTAGTCGTTGGTATCGCCTTCTC
*
723 CCATTCTTCTTTCGGCAGATTAGATTCACTCGTCTCGGTTTTAGGATTCACTGCTTTGCTGCATG
196 CCATTCTTCTTTCGGCAGATTAGATTCACTCGTCTCGGTTTTAGGATTCACTGCATTGCTGCATG
788 CTGCTGACGAAGCAGATACTTGGCCTTTGGGAGGTTCATGTATT
261 CTGCTGACGAAGCAGATACTTGGCCTTTGGGAGGTTCATGTATT
*
832 TGAATATTAG-CTAAGTGCTTCTTTCCCCATAGATGAGAATTCAAATCCTCTGGTCGACCGCAGG
1 TGAATATT-GTCTAAGTGCTTCTTTCCCCATAGATGAGAATTCAAATCCTCTGATCGACCGCAGG
* *
896 TTATGTTACATATAGTACACCTAAATTGAGGAATTTTAGTCTTACCATGTTCCTTCCCTACCTGT
65 TTATGTCACATATAGTACACCTAAATTGAGGAATTTTAGTCTTACCATGTTCCTTCCCAACCTGT
* * *
961 TGCTGCTTCCCTTGTACCTTTTCACTTGATTTTACATGATTTCCCACCATATTAGTCGTTGGTAT
130 TGCTGCTGCCC----A----TGCACTTGATTTTACATCATTTCCCACCATATTAGTCGTTGGTAT
**
1026 CGCCTTCTCCCATTCTTCTTTCGGCAGATTAGATTTGCTCGTCTCGGTTTTAGGATTCACTGCAT
187 CGCCTTCTCCCATTCTTCTTTCGGCAGATTAGATTCACTCGTCTCGGTTTTAGGATTCACTGCAT
*
1091 TGCTGTATGCTGCTGACGAAGCAGATACTTGGCCTTTGGGAGGTTCATGT
252 TGCTGCATGCTGCTGACGAAGCAGATACTTGGCCTTTGGGAGGTTCATGT
1141 TTCTTTGAAC
Statistics
Matches: 287, Mismatches: 13, Indels: 10
0.93 0.04 0.03
Matches are distributed among these distances:
304 132 0.46
305 1 0.00
308 1 0.00
312 153 0.53
ACGTcount: A:0.21, C:0.24, G:0.19, T:0.37
Consensus pattern (304 bp):
TGAATATTGTCTAAGTGCTTCTTTCCCCATAGATGAGAATTCAAATCCTCTGATCGACCGCAGGT
TATGTCACATATAGTACACCTAAATTGAGGAATTTTAGTCTTACCATGTTCCTTCCCAACCTGTT
GCTGCTGCCCATGCACTTGATTTTACATCATTTCCCACCATATTAGTCGTTGGTATCGCCTTCTC
CCATTCTTCTTTCGGCAGATTAGATTCACTCGTCTCGGTTTTAGGATTCACTGCATTGCTGCATG
CTGCTGACGAAGCAGATACTTGGCCTTTGGGAGGTTCATGTATT
Done.