Tandem Repeats Finder Program written by:

                 Gary Benson
      Program in Bioinformatics
          Boston University

Version 4.09

Sequence: NTFQ01003814.1 Kokia drynarioides strain JFW-HI SEQ_116810, 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: 3287
ACGTcount: A:0.33, C:0.16, G:0.18, T:0.33


Found at i:2575 original size:153 final size:152

Alignment explanation


    Indices: 2161--2554  Score: 528
    Period size: 153  Copynumber: 2.6  Consensus size: 152

       2151 ACTAAGGGAC

                *    *                  *               * *              * * 
       2161 TGCAATCTTTGTGAAGGAGATATTCCA-CGTGATATTTCTGGTCGACCCTCTTTGATACGTCTCG
          1 TGCACTCTTGGTGAA-GAGATATT-CATAGTGATATTTCTGGTCTATCCTCTTTGATACGTTTTG

             *                          *  *                                 
       2225 AACTTAGTGGTAACAATTTCATCAGCATGCCCGCATCTCTTACTCGACTCTCCAAGCTTGAAGAT
         64 ATCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCCAAGCTTGAAGAT

                                    
       2290 CTTATATTGTCAAATTGCAAAATG
        129 CTTATATTGTCAAATTGCAAAATG

                                  *                                  *       
       2314 TGCACTCTTGGTGAAGAGGATACTCATAGTGATATTTCTGGTCTATCCTCTTTG-T-GGTGTCTT
          1 TGCACTCTTGGTGAAGA-GATATTCATAGTGATATTTCTGGTCTATCCTCTTTGATACGT-T-TT

                                                                         *   
       2377 GATCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCCAAGCTT-CAGT
         63 GATCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCCAAGCTTGAAG-

            *                      *   
       2441 TTCTT-TACTTGTCAAATTGCAACATG
        127 ATCTTATA-TTGTCAAATTGCAAAATG

                                            *                                
       2467 TGCACTCTTGGTGAAGCAGATATTCATAGTGAAATTTCTGGTCTATCCTCTTTGATACGTTTTGA
          1 TGCACTCTTGGTGAAG-AGATATTCATAGTGATATTTCTGGTCTATCCTCTTTGATACGTTTTGA

                        *          
       2532 TCTTAGTGGTAAGAATTTCATCA
         65 TCTTAGTGGTAACAATTTCATCA

       2555 CCATTCCTTT


Statistics
Matches: 213,  Mismatches: 19, Indels: 18
        0.85            0.08        0.07

Matches are distributed among these distances:
 151    2  0.01
 152    9  0.04
 153  197  0.92
 154    3  0.01
 155    2  0.01

ACGTcount: A:0.24, C:0.21, G:0.18, T:0.37


Consensus pattern (152 bp):   
TGCACTCTTGGTGAAGAGATATTCATAGTGATATTTCTGGTCTATCCTCTTTGATACGTTTTGAT
CTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCCAAGCTTGAAGATCT
TATATTGTCAAATTGCAAAATG

Found at i:2615 original size:153 final size:152

Alignment explanation


    Indices: 2161--2607  Score: 508
    Period size: 153  Copynumber: 2.9  Consensus size: 152

       2151 ACTAAGGGAC

                *    *                  *               * *              * * 
       2161 TGCAATCTTTGTGAAGGAGATATTCCA-CGTGATATTTCTGGTCGACCCTCTTTGATACGTCTCG
          1 TGCACTCTTGGTGAA-GAGATATT-CATAGTGATATTTCTGGTCTATCCTCTTTGATACGTTTTG

             *                          *  *                           *     
       2225 AACTTAGTGGTAACAATTTCATCAGCATGCCCGCATCTCTTACTCGACTCTCCAAGCTTGAAGA-
         64 ATCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCCAAGCTTCAA-AT

                 *                   
       2289 TCTTATATTGTCAAATTGCAAAATG
        128 TCTTAAATTGTCAAATTGCAAAATG

                                  *                                  *       
       2314 TGCACTCTTGGTGAAGAGGATACTCATAGTGATATTTCTGGTCTATCCTCTTTG-T-GGTGTCTT
          1 TGCACTCTTGGTGAAGA-GATATTCATAGTGATATTTCTGGTCTATCCTCTTTGATACGT-T-TT

                                                                          ** 
       2377 GATCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCCAAGCTTCAGTT
         63 GATCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCCAAGCTTCAAAT

                * *              *   
       2442 TCTTTACTTGTCAAATTGCAACATG
        128 TCTTAAATTGTCAAATTGCAAAATG

                                            *                                
       2467 TGCACTCTTGGTGAAGCAGATATTCATAGTGAAATTTCTGGTCTATCCTCTTTGATACGTTTTGA
          1 TGCACTCTTGGTGAAG-AGATATTCATAGTGATATTTCTGGTCTATCCTCTTTGATACGTTTTGA

                        *          *   *   ****         * * *    *           
       2532 TCTTAGTGGTAAGAATTTCATCACCATTCCTTTGGCTCTTACTCAATTTTCCAGGC-TCAAATTG
         65 TCTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCCAAGCTTCAAATT-

                        
       2596 CTTAAATTGTCA
        129 CTTAAATTGTCA

       2608 GGTTGCAAGA


Statistics
Matches: 248,  Mismatches: 37, Indels: 18
        0.82            0.12        0.06

Matches are distributed among these distances:
 151    2  0.01
 152   10  0.04
 153  231  0.93
 154    3  0.01
 155    2  0.01

ACGTcount: A:0.24, C:0.22, G:0.17, T:0.37


Consensus pattern (152 bp):   
TGCACTCTTGGTGAAGAGATATTCATAGTGATATTTCTGGTCTATCCTCTTTGATACGTTTTGAT
CTTAGTGGTAACAATTTCATCAGCATACCTGCATCTCTTACTCGACTCTCCAAGCTTCAAATTCT
TAAATTGTCAAATTGCAAAATG
Done.