Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01020174.1 Corchorus olitorius cultivar O-4 contig20207, 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: 17673
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31


Found at i:7081 original size:30 final size:31

Alignment explanation


    Indices: 7045--7121  Score: 120
    Period size: 31  Copynumber: 2.5  Consensus size: 31

       7035 TTTCTTATGT

                                           
       7045 TCTTACAATTCTCTTTTCATC-TGACCATGC
          1 TCTTACAATTCTCTTTTCATCTTGACCATGC

                    *         *    *       
       7075 TCTTACAACTCTCTTTTCTTCTTTACCATGC
          1 TCTTACAATTCTCTTTTCATCTTGACCATGC

                            
       7106 TCTTACAATTCTCTTT
          1 TCTTACAATTCTCTTT

       7122 ACTATAGTAA


Statistics
Matches: 42,  Mismatches: 4, Indels: 1
        0.89            0.09        0.02

Matches are distributed among these distances:
  30   19  0.45
  31   23  0.55

ACGTcount: A:0.18, C:0.30, G:0.04, T:0.48


Consensus pattern (31 bp):   
TCTTACAATTCTCTTTTCATCTTGACCATGC

Found at i:9453 original size:18 final size:18

Alignment explanation


    Indices: 9430--9468  Score: 60
    Period size: 18  Copynumber: 2.2  Consensus size: 18

       9420 TATTCCTTGG

                      *       
       9430 TTTCCAGAAATCAGGTGA
          1 TTTCCAGAAAACAGGTGA

                       *      
       9448 TTTCCAGAAAAGAGGTGA
          1 TTTCCAGAAAACAGGTGA

               
       9466 TTT
          1 TTT

       9469 GTAGTAAGGT


Statistics
Matches: 19,  Mismatches: 2, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  18   19  1.00

ACGTcount: A:0.33, C:0.13, G:0.23, T:0.31


Consensus pattern (18 bp):   
TTTCCAGAAAACAGGTGA

Found at i:9702 original size:15 final size:16

Alignment explanation


    Indices: 9677--9707  Score: 55
    Period size: 15  Copynumber: 2.0  Consensus size: 16

       9667 TGAAATATCT

                            
       9677 ATATAATCATCATTGA
          1 ATATAATCATCATTGA

                            
       9693 ATAT-ATCATCATTGA
          1 ATATAATCATCATTGA

       9708 GTCCGCGGCA


Statistics
Matches: 15,  Mismatches: 0, Indels: 1
        0.94            0.00        0.06

Matches are distributed among these distances:
  15   11  0.73
  16    4  0.27

ACGTcount: A:0.42, C:0.13, G:0.06, T:0.39


Consensus pattern (16 bp):   
ATATAATCATCATTGA
Done.