Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002974.1 Corchorus capsularis cultivar CVL-1 contig02982, 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: 8639
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34

Warning! 1 characters in sequence are not A, C, G, or T


Found at i:954 original size:3 final size:3

Alignment explanation


    Indices: 946--979  Score: 68
    Period size: 3  Copynumber: 11.3  Consensus size: 3

        936 TTTTTTGCTT

                                                         
        946 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T
          1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T

        980 ATATACTATA


Statistics
Matches: 31,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   3   31  1.00

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


Consensus pattern (3 bp):   
TTA

Found at i:3104 original size:17 final size:17

Alignment explanation


    Indices: 3084--3118  Score: 61
    Period size: 17  Copynumber: 2.1  Consensus size: 17

       3074 TTAACATGAT

                   *         
       3084 TGATACATTGACATTTA
          1 TGATACAGTGACATTTA

                             
       3101 TGATACAGTGACATTTA
          1 TGATACAGTGACATTTA

             
       3118 T
          1 T

       3119 TTTAAATAAC


Statistics
Matches: 17,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   17  1.00

ACGTcount: A:0.34, C:0.11, G:0.14, T:0.40


Consensus pattern (17 bp):   
TGATACAGTGACATTTA

Found at i:5474 original size:40 final size:40

Alignment explanation


    Indices: 5430--5510  Score: 126
    Period size: 40  Copynumber: 2.0  Consensus size: 40

       5420 CAGATTGAGA

                 *            *                *    
       5430 AAATATATCAACCTTATGGAATGATAAAACAGAGCCATCT
          1 AAATAAATCAACCTTATGAAATGATAAAACAGAGCAATCT

                    *                               
       5470 AAATAAATTAACCTTATGAAATGATAAAACAGAGCAATCT
          1 AAATAAATCAACCTTATGAAATGATAAAACAGAGCAATCT

             
       5510 A
          1 A

       5511 CCACGAAGTT


Statistics
Matches: 37,  Mismatches: 4, Indels: 0
        0.90            0.10        0.00

Matches are distributed among these distances:
  40   37  1.00

ACGTcount: A:0.49, C:0.15, G:0.11, T:0.25


Consensus pattern (40 bp):   
AAATAAATCAACCTTATGAAATGATAAAACAGAGCAATCT

Found at i:6904 original size:9 final size:9

Alignment explanation


    Indices: 6890--6914  Score: 50
    Period size: 9  Copynumber: 2.8  Consensus size: 9

       6880 GGTATATCAC

                     
       6890 CTTATAGCA
          1 CTTATAGCA

                     
       6899 CTTATAGCA
          1 CTTATAGCA

                   
       6908 CTTATAG
          1 CTTATAG

       6915 TTTCAGTATA


Statistics
Matches: 16,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
   9   16  1.00

ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36


Consensus pattern (9 bp):   
CTTATAGCA
Done.