Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01010560.1 Corchorus olitorius cultivar O-4 contig10592, 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: 10095
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.33


Found at i:3413 original size:2 final size:2

Alignment explanation


    Indices: 3406--3432  Score: 54
    Period size: 2  Copynumber: 13.5  Consensus size: 2

       3396 CCTATAAACA

                                                    
       3406 AT AT AT AT AT AT AT AT AT AT AT AT AT A
          1 AT AT AT AT AT AT AT AT AT AT AT AT AT A

       3433 AGCTTTTTGT


Statistics
Matches: 25,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   2   25  1.00

ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48


Consensus pattern (2 bp):   
AT

Found at i:10057 original size:201 final size:200

Alignment explanation


    Indices: 9671--10071  Score: 759
    Period size: 202  Copynumber: 2.0  Consensus size: 200

       9661 AATTGAGGAG

                                                                *            
       9671 AAATTTCTTGGAGTCAATTTTTGCAAAATTTTTAGCTGAAATCATGTACTAATTATCACGGTTTT
          1 AAATTTCTTGGAGTCAATTTTTGCAAAATTTTTAGCTGAAATCATGTACTAACTATCACGGTTTT

                                                                             
       9736 TACTAAAAATGCGTTCCGGAGCCCCGGCTCTGTTTTACATGATTTTTGGCGCCAAGTCTCATTGA
         66 TACTAAAAATGCGTTCCGGAGCCCCGGCTCTGTTTTACATGATTTTTGGCGCCAAGTCTCATTGA

                                                                             
       9801 AATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTTTTACCAACAT
        131 AATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTG-TTTTACCAACAT

                  
       9866 ATGAAT
        195 ATGAAT

                                                            *                
       9872 AAATTTCTTGGAGTCAATTTTTGCAAAATTTTTAGCTGAAATCATGTATTAACTATCACGGTTTT
          1 AAATTTCTTGGAGTCAATTTTTGCAAAATTTTTAGCTGAAATCATGTACTAACTATCACGG-TTT

                                                                             
       9937 TTACTAAAAATGCGTTCCGGAGCCCCGGCTCTGTTTTACATGATTTTTGGCGCCAAGTCTCATTG
         65 TTACTAAAAATGCGTTCCGGAGCCCCGGCTCTGTTTTACATGATTTTTGGCGCCAAGTCTCATTG

                                                                             
      10002 AAATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGA-TTGTTTTACCAACAT
        130 AAATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTTTACCAACAT

                  
      10066 ATGAAT
        195 ATGAAT

      10072 CATGTTTCAA


Statistics
Matches: 197,  Mismatches: 2, Indels: 3
        0.98            0.01        0.01

Matches are distributed among these distances:
 200   18  0.09
 201   62  0.31
 202  117  0.59

ACGTcount: A:0.29, C:0.19, G:0.14, T:0.37


Consensus pattern (200 bp):   
AAATTTCTTGGAGTCAATTTTTGCAAAATTTTTAGCTGAAATCATGTACTAACTATCACGGTTTT
TACTAAAAATGCGTTCCGGAGCCCCGGCTCTGTTTTACATGATTTTTGGCGCCAAGTCTCATTGA
AATATCTATATCCATCTAACCAAATCTTACCCACATTGGATTTAAGGATTTGTTTTACCAACATA
TGAAT
Done.