Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWWV01002498.1 Corchorus capsularis cultivar CVL-1 contig02505, 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, 920

Length: 1534
ACGTcount: A:0.32, C:0.17, G:0.13, T:0.37

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


Found at i:77 original size:19 final size:19

Alignment explanation


    Indices: 53--90  Score: 76
    Period size: 19  Copynumber: 2.0  Consensus size: 19

         43 TGTAGACTTC

                               
         53 TTCTTTCTATTCTATATAA
          1 TTCTTTCTATTCTATATAA

                               
         72 TTCTTTCTATTCTATATAA
          1 TTCTTTCTATTCTATATAA

         91 AAAAATAGAT


Statistics
Matches: 19,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  19   19  1.00

ACGTcount: A:0.26, C:0.16, G:0.00, T:0.58


Consensus pattern (19 bp):   
TTCTTTCTATTCTATATAA

Found at i:222 original size:13 final size:13

Alignment explanation


    Indices: 204--231  Score: 56
    Period size: 13  Copynumber: 2.2  Consensus size: 13

        194 TTTTTATATT

                         
        204 ATATTATATTCTA
          1 ATATTATATTCTA

                         
        217 ATATTATATTCTA
          1 ATATTATATTCTA

              
        230 AT
          1 AT

        232 TACACTTTTT


Statistics
Matches: 15,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  13   15  1.00

ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54


Consensus pattern (13 bp):   
ATATTATATTCTA

Found at i:369 original size:17 final size:17

Alignment explanation


    Indices: 347--380  Score: 59
    Period size: 17  Copynumber: 2.0  Consensus size: 17

        337 CCCTGCATCT

                      *      
        347 TCAAATAACTGGATAGA
          1 TCAAATAACTCGATAGA

                             
        364 TCAAATAACTCGATAGA
          1 TCAAATAACTCGATAGA

        381 ATAGATTCGC


Statistics
Matches: 16,  Mismatches: 1, Indels: 0
        0.94            0.06        0.00

Matches are distributed among these distances:
  17   16  1.00

ACGTcount: A:0.47, C:0.15, G:0.15, T:0.24


Consensus pattern (17 bp):   
TCAAATAACTCGATAGA

Found at i:1276 original size:12 final size:12

Alignment explanation


    Indices: 1259--1283  Score: 50
    Period size: 12  Copynumber: 2.1  Consensus size: 12

       1249 GATCAGATAA

                        
       1259 GTCTTACAGTAT
          1 GTCTTACAGTAT

                        
       1271 GTCTTACAGTAT
          1 GTCTTACAGTAT

             
       1283 G
          1 G

       1284 AACGAACCCT


Statistics
Matches: 13,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   13  1.00

ACGTcount: A:0.24, C:0.16, G:0.20, T:0.40


Consensus pattern (12 bp):   
GTCTTACAGTAT
Done.