Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01012967.1 Corchorus olitorius cultivar O-4 contig13000, 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: 11566
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33


Found at i:3669 original size:62 final size:62

Alignment explanation


    Indices: 3587--3712  Score: 252
    Period size: 62  Copynumber: 2.0  Consensus size: 62

       3577 TGATGAATGA

                                                                          
       3587 AGGATAGCAGCCAGACAGCTGACAGAGATGCATTAATGCAATCATCACCAAAAATCTTGCCT
          1 AGGATAGCAGCCAGACAGCTGACAGAGATGCATTAATGCAATCATCACCAAAAATCTTGCCT

                                                                          
       3649 AGGATAGCAGCCAGACAGCTGACAGAGATGCATTAATGCAATCATCACCAAAAATCTTGCCT
          1 AGGATAGCAGCCAGACAGCTGACAGAGATGCATTAATGCAATCATCACCAAAAATCTTGCCT

              
       3711 AG
          1 AG

       3713 CTTACTGAAG


Statistics
Matches: 64,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  62   64  1.00

ACGTcount: A:0.37, C:0.24, G:0.20, T:0.19


Consensus pattern (62 bp):   
AGGATAGCAGCCAGACAGCTGACAGAGATGCATTAATGCAATCATCACCAAAAATCTTGCCT

Found at i:7463 original size:3 final size:3

Alignment explanation


    Indices: 7457--7487  Score: 55
    Period size: 3  Copynumber: 10.7  Consensus size: 3

       7447 CTCCGATTTT

                                                      
       7457 ATA ATA A-A ATA ATA ATA ATA ATA ATA ATA AT
          1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA AT

       7488 CTATACTAAT


Statistics
Matches: 27,  Mismatches: 0, Indels: 2
        0.93            0.00        0.07

Matches are distributed among these distances:
   2    2  0.07
   3   25  0.93

ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32


Consensus pattern (3 bp):   
ATA

Found at i:10473 original size:17 final size:17

Alignment explanation


    Indices: 10429--10476  Score: 62
    Period size: 16  Copynumber: 2.9  Consensus size: 17

      10419 TGGGTCCTTC

                       *     
      10429 CGTGATTCCTGTTGCTG
          1 CGTGATTCCTGCTGCTG

                 *           
      10446 CGT-AATCCTGCTGCTG
          1 CGTGATTCCTGCTGCTG

            *              
      10462 TGTGATTCCTGCTGC
          1 CGTGATTCCTGCTGC

      10477 CGGAATCAAC


Statistics
Matches: 26,  Mismatches: 4, Indels: 2
        0.81            0.12        0.06

Matches are distributed among these distances:
  16   13  0.50
  17   13  0.50

ACGTcount: A:0.08, C:0.27, G:0.27, T:0.38


Consensus pattern (17 bp):   
CGTGATTCCTGCTGCTG
Done.