Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: AWUE01009124.1 Corchorus olitorius cultivar O-4 contig09152, 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, 724

Length: 1208
ACGTcount: A:0.33, C:0.17, G:0.13, T:0.37


Found at i:150 original size:12 final size:12

Alignment explanation


    Indices: 133--158  Score: 52
    Period size: 12  Copynumber: 2.2  Consensus size: 12

        123 TAATATCACG

                        
        133 AATATTATATAT
          1 AATATTATATAT

                        
        145 AATATTATATAT
          1 AATATTATATAT

              
        157 AA
          1 AA

        159 ATAACACAAA


Statistics
Matches: 14,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  12   14  1.00

ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46


Consensus pattern (12 bp):   
AATATTATATAT

Found at i:223 original size:17 final size:17

Alignment explanation


    Indices: 201--234  Score: 59
    Period size: 17  Copynumber: 2.0  Consensus size: 17

        191 CCCTGCATCT

                      *      
        201 TCAAATAACTGGATAGA
          1 TCAAATAACTCGATAGA

                             
        218 TCAAATAACTCGATAGA
          1 TCAAATAACTCGATAGA

        235 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:1111 original size:12 final size:12

Alignment explanation


    Indices: 1094--1118  Score: 50
    Period size: 12  Copynumber: 2.1  Consensus size: 12

       1084 GATCAGATAA

                        
       1094 GTCTTACAGTAT
          1 GTCTTACAGTAT

                        
       1106 GTCTTACAGTAT
          1 GTCTTACAGTAT

             
       1118 G
          1 G

       1119 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

Found at i:1155 original size:14 final size:14

Alignment explanation


    Indices: 1138--1168  Score: 62
    Period size: 14  Copynumber: 2.2  Consensus size: 14

       1128 TCAATTCAAA

                          
       1138 GATTGAAATTCTTG
          1 GATTGAAATTCTTG

                          
       1152 GATTGAAATTCTTG
          1 GATTGAAATTCTTG

               
       1166 GAT
          1 GAT

       1169 AGCCCTGATA


Statistics
Matches: 17,  Mismatches: 0, Indels: 0
        1.00            0.00        0.00

Matches are distributed among these distances:
  14   17  1.00

ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42


Consensus pattern (14 bp):   
GATTGAAATTCTTG
Done.