Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NTFQ01010725.1 Kokia drynarioides strain JFW-HI SEQ_125677, 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, 781
Length: 1302
ACGTcount: A:0.26, C:0.16, G:0.13, T:0.37
Warning! 100 characters in sequence are not A, C, G, or T
Found at i:630 original size:216 final size:216
Alignment explanation
Indices: 256--843 Score: 878
Period size: 216 Copynumber: 2.7 Consensus size: 216
246 NNNNNNTTCG
256 AGCAATTTTTCGAACATTCCATGCTCGAGAAATCAAATCATTCCGTCTAAATAGTTTGTCATTTT
1 AGCAATTTTTCGAACATTCCATGCTCGAGAAATCAAATCATTCCGTCTAAATAGTTTGTCATTTT
321 GTGAAAAAGTTTTGGTGTTTAAATCAAAAACTTATTTACGTGGGAATTGTTTCTCTCTTGGTTCT
66 GTGAAAAAGTTTTGGTGTTTAAATCAAAAACTTATTTACGTGGGAATTGTTTCTCTCTTGGTTCT
* *
386 TGGACGAACTTCCAAACTTGTCAAACTTTTACGGGTTCTTTTATAACTTCTG-TTCGTTAAAGTA
131 TGGACGAACTTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACTT-TGATTCCTTAAAGTA
*
450 TTCAAGACGATCCATTCCTTCC
195 ATCAAGACGATCCATTCCTTCC
* * * ** * *
472 AGCAATTTTT-TAATCATTCCATGCTCGTGAAATCACATCATTTGGTATAAATAGGTTGTCATTT
1 AGCAATTTTTCGAA-CATTCCATGCTCGAGAAATCAAATCATTCCGTCTAAATAGTTTGTCATTT
* * * * * * * * * * *
536 TGT-AAACAACTTTTTGTCTTTGAATTAAAATCTTATTTACATGAGAATTATTTCTCACATGGTT
65 TGTGAAA-AAGTTTTGGTGTTTAAATCAAAAACTTATTTACGTGGGAATTGTTTCTCTCTTGGTT
* * * *
600 TTTGGAC-AATCTTTCGATCTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGATTCCTTAAAG
129 CTTGGACGAA-CTTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGATTCCTTAAAG
*
664 TAATCAAGACGATCCATTCCTTCG
193 TAATCAAGACGATCCATTCCTTCC
688 AGCAATTTTTCGAACATTCCATGCTCGAGAAATCAAATCATTCCGTCTAAATAGTTTGTCATTTT
1 AGCAATTTTTCGAACATTCCATGCTCGAGAAATCAAATCATTCCGTCTAAATAGTTTGTCATTTT
753 GTGAAAAAGTTTTGGTGTTTAAATCAAAAACTTATTTACGTGGGAATTGTTTCTCTCTTGGTTCT
66 GTGAAAAAGTTTTGGTGTTTAAATCAAAAACTTATTTACGTGGGAATTGTTTCTCTCTTGGTTCT
818 TGGACGAACTTCCAAACTTGTCAAAC
131 TGGACGAACTTCCAAACTTGTCAAAC
844 NNNNNNNNNN
Statistics
Matches: 317, Mismatches: 48, Indels: 14
0.84 0.13 0.04
Matches are distributed among these distances:
215 9 0.03
216 301 0.95
217 7 0.02
ACGTcount: A:0.28, C:0.18, G:0.14, T:0.40
Consensus pattern (216 bp):
AGCAATTTTTCGAACATTCCATGCTCGAGAAATCAAATCATTCCGTCTAAATAGTTTGTCATTTT
GTGAAAAAGTTTTGGTGTTTAAATCAAAAACTTATTTACGTGGGAATTGTTTCTCTCTTGGTTCT
TGGACGAACTTCCAAACTTGTCAAACTTTTACGAGTTCTTTTATAACTTTGATTCCTTAAAGTAA
TCAAGACGATCCATTCCTTCC
Done.