Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01008549.1 Kokia drynarioides strain JFW-HI SEQ_123226, 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, 938

Length: 1564
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38


Found at i:1113 original size:93 final size:94

Alignment explanation


    Indices: 956--1144  Score: 256
    Period size: 93  Copynumber: 2.0  Consensus size: 94

        946 GACACCCCTA

                                                              *       **     
        956 TTTATCAGATAAAAAAATTTAAAATTTTTCTGATGTTGGCCATTGCATAGTCGACACCTTTTTTT
          1 TTTATCAGATAAAAAAATTTAAAATTTTTCTGATGTTGGCCATTGCATAGCCGACACCCCTTTTT

                           *          *  
       1021 ATCTGAATAAAAAATTAAATTTTTGGGTG
         66 ATCTGAATAAAAAATCAAATTTTTGGATG

                 *              *          ** *                              
       1050 TTTATTAGATAAAAAAATTTCAAATTTTT-TTCTTTTGGCCATTGCAT-GACCGACACCCCTTTT
          1 TTTATCAGATAAAAAAATTTAAAATTTTTCTGATGTTGGCCATTGCATAG-CCGACACCCCTTTT

               *                          
       1113 TATTTGAATAAAAAATCAAATTTTTGGATG
         65 TATCTGAATAAAAAATCAAATTTTTGGATG

              
       1143 TT
          1 TT

       1145 GGCCATAACT


Statistics
Matches: 83,  Mismatches: 11, Indels: 3
        0.86            0.11        0.03

Matches are distributed among these distances:
  92    1  0.01
  93   55  0.66
  94   27  0.33

ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42


Consensus pattern (94 bp):   
TTTATCAGATAAAAAAATTTAAAATTTTTCTGATGTTGGCCATTGCATAGCCGACACCCCTTTTT
ATCTGAATAAAAAATCAAATTTTTGGATG

Found at i:1242 original size:105 final size:104

Alignment explanation


    Indices: 1050--1252  Score: 236
    Period size: 105  Copynumber: 1.9  Consensus size: 104

       1040 TTTTTGGGTG

                 *                           *                               
       1050 TTTATTAGATAAAAAAATTTCAAATTTTTTTCTTTTGGCCATTGCATGACCGACACCCCTTTTTA
          1 TTTATCAGATAAAAAAATTTCAAATTTTTTTCTGTTGGCCATTGCATGACCGACACCCCTTTTTA

             *                                       
       1115 TTTGAATAAAAAATCAAATTTTTGGATGTTGGCCATAACTA
         66 TCTGAATAAAAAATCAAATTTTT-G-TGTTGGCCATAACTA

                            *                      *          *              
       1156 TTTATCAGAT-AAAAATTTTCAAATTTTTTGT-TGTTGGTCA-TGCAATGGCCGACATCCCCTTT
          1 TTTATCAGATAAAAAAATTTCAAATTTTTT-TCTGTTGGCCATTGC-ATGACCGACA-CCCCTTT

                     *        *  *               
       1218 CTTATCT-AGT-AAAAATTAATTTTTTGTGTTGGCCA
         63 -TTATCTGAATAAAAAATCAAATTTTTGTGTTGGCCA

       1253 AGCAATGACC


Statistics
Matches: 84,  Mismatches: 9, Indels: 11
        0.81            0.09        0.11

Matches are distributed among these distances:
 103    9  0.11
 104    4  0.05
 105   47  0.56
 106   19  0.23
 107    5  0.06

ACGTcount: A:0.30, C:0.15, G:0.13, T:0.42


Consensus pattern (104 bp):   
TTTATCAGATAAAAAAATTTCAAATTTTTTTCTGTTGGCCATTGCATGACCGACACCCCTTTTTA
TCTGAATAAAAAATCAAATTTTTGTGTTGGCCATAACTA
Done.