Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01014817.1 Corchorus olitorius cultivar O-4 contig14850, 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: 7709
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34


Found at i:3618 original size:51 final size:50

Alignment explanation


    Indices: 3517--3619  Score: 116
    Period size: 51  Copynumber: 2.0  Consensus size: 50

       3507 GTTCTTCATA

                                    *     ***         *       
       3517 TTTTTCTTGTTTAAATCCTGTCTCGGGACATTCAAACACTCTTTTAGTGT
          1 TTTTTCTTGTTTAAATCCTGTCTCCGGACACAAAAACACTCTATTAGTGT

                         *    *                      *    *    
       3567 TTTTCTCTTGTTTCAATCTTGTCTCCGGACACAAAAACACTGTATTCGTGT
          1 TTTT-TCTTGTTTAAATCCTGTCTCCGGACACAAAAACACTCTATTAGTGT

              
       3618 TT
          1 TT

       3620 CTCTTTCATC


Statistics
Matches: 43,  Mismatches: 9, Indels: 1
        0.81            0.17        0.02

Matches are distributed among these distances:
  50    4  0.09
  51   39  0.91

ACGTcount: A:0.20, C:0.21, G:0.14, T:0.45


Consensus pattern (50 bp):   
TTTTTCTTGTTTAAATCCTGTCTCCGGACACAAAAACACTCTATTAGTGT

Found at i:4340 original size:22 final size:22

Alignment explanation


    Indices: 4298--4340  Score: 61
    Period size: 22  Copynumber: 2.0  Consensus size: 22

       4288 TCCCAATTTC

                          *       
       4298 TTTTCTTCTATTTTTCTCTAAA
          1 TTTTCTTCTATTTTGCTCTAAA

                                  
       4320 TTTTCTTCTAGTTTTGC-CTAA
          1 TTTTCTTCTA-TTTTGCTCTAA

       4341 GGGTGTCGAC


Statistics
Matches: 19,  Mismatches: 1, Indels: 2
        0.86            0.05        0.09

Matches are distributed among these distances:
  22   14  0.74
  23    5  0.26

ACGTcount: A:0.16, C:0.19, G:0.05, T:0.60


Consensus pattern (22 bp):   
TTTTCTTCTATTTTGCTCTAAA
Done.