Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01011402.1 Kokia drynarioides strain JFW-HI SEQ_126384, 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: 3340
ACGTcount: A:0.23, C:0.21, G:0.19, T:0.33
Warning! 133 characters in sequence are not A, C, G, or T
Found at i:862 original size:207 final size:207
Alignment explanation
Indices: 342--998 Score: 834
Period size: 207 Copynumber: 3.2 Consensus size: 207
332 TTGACTTAGC
* * * * *
342 CTTCTTCTCAGTATCTCATCAGGAAAATGACCGCGTCGCTTGTTTCAATCCGCTCCTCTGTATCT
1 CTTCTTCTCAGCATCTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATCTGCTTCTCTGTATCT
* * *
407 CATCAAGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCTGGAAGCTAACCATTTATTGCTTC
66 CATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCTGGAAGCTAACCGTCTATTGCTTC
** * * * * * *
472 CTCCTACTTCTCAGTGTCTCATCAGGAAGCTGGGTTTCGAAG-GTTTCGCTCG-TTT---TG-A-
131 GACCTGCTTCTCGGTATCTCATCAGGAAGCTGGGGTTCGAAGAATTT-GCTCGCTTTGAGCGTAG
*
530 G-CCTCATTTGGGT
195 GCCCTGATTT-GGT
* * * * * *
543 CTTCTTTTCAGCGTCTCATCAGGAAGATGATCACATCG-CTGTTTCAAT-TCGCTTCTCTGTATC
1 CTTCTTCTCAGCATCTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATCT-GCTTCTCTGTATC
* * * * *
606 TCATCAGGAACACGGATTTGGTTCATTTCTCCGTATCTCATCAGGAAGCTAACCGTCTATTGCTT
65 TCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCTGGAAGCTAACCGTCTATTGCTT
*
671 CGACCTGCTTCTCGGTATCTCATCAGGAAGCTGGGGTTCGAAGAATTTGTTCGCTTTGAGCGTAG
130 CGACCTGCTTCTCGGTATCTCATCAGGAAGCTGGGGTTCGAAGAATTTGCTCGCTTTGAGCGTAG
736 GCCCTGATTTGGT
195 GCCCTGATTTGGT
* * * *
749 CTTCTTCTCAGTATCTTA-CTAGGAAGATGACTGCGTCGTTTGTTTCAATCTGCTTCTCTATATC
1 CTTCTTCTCAGCATCTCATC-AGGAAGATGACCGCGTCGTTTGTTTCAATCTGCTTCTCTGTATC
*
813 TCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATTTGGAAGCTAACCGTCTATTGCTT
65 TCATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCTGGAAGCTAACCGTCTATTGCTT
* * *
878 CGACCTGCTTCTCGGTATCTCATCAGGAAGCCGGGGTTTGAAGATTTTGCTCGCTTTGAGCGTAG
130 CGACCTGCTTCTCGGTATCTCATCAGGAAGCTGGGGTTCGAAGAATTTGCTCGCTTTGAGCGTAG
943 GCCCTGATTTGGT
195 GCCCTGATTTGGT
* *
956 CTTCTTCTCAACATCTCA-CTAGGAAGATGACCGCGTTGTTTGT
1 CTTCTTCTCAGCATCTCATC-AGGAAGATGACCGCGTCGTTTGT
999 GGGTATTGCA
Statistics
Matches: 391, Mismatches: 53, Indels: 18
0.85 0.11 0.04
Matches are distributed among these distances:
200 119 0.30
201 37 0.09
204 1 0.00
205 2 0.01
206 32 0.08
207 199 0.51
208 1 0.00
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.35
Consensus pattern (207 bp):
CTTCTTCTCAGCATCTCATCAGGAAGATGACCGCGTCGTTTGTTTCAATCTGCTTCTCTGTATCT
CATCAGGAAGACGAATTTGGTTCACTTCTCAGTATCTCATCTGGAAGCTAACCGTCTATTGCTTC
GACCTGCTTCTCGGTATCTCATCAGGAAGCTGGGGTTCGAAGAATTTGCTCGCTTTGAGCGTAGG
CCCTGATTTGGT
Done.