Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01011546.1 Corchorus olitorius cultivar O-4 contig11579, 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, 763
Length: 1273
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Found at i:284 original size:154 final size:153
Alignment explanation
Indices: 1--714 Score: 1122
Period size: 154 Copynumber: 4.6 Consensus size: 153
* ** *
1 GCCTATCGAGGCCCATTAGTTCCGTTTTGAATTGTCTTCGATTTGGCAAACCTCAATGCTTTTCT
1 GCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGC-AACCTCAATGCTTTTCT
* *
66 TTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTTGTCCACTGTGAAGTTTTTAGCT
65 TTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAACT
131 CATTTGGAACACTTGTTATTTTGG
130 CATTTGGAACACTTGTTATTTTGG
* * * *
155 GCGTATCGGGGACCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAACCTTCGATGCCTTTCT
1 GCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAACC-TCAATGCTTTTCT
*
220 TTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCT
65 TTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAACT
*
285 CATATGGAACACTTGTTATTTTGG
130 CATTTGGAACACTTGTTATTTTGG
* * * * **
309 GCCTATCGGGGCACATCATTGACGTTTTGAATCTTCTTCGATTTGGCAAACCTCAATTATTTTCT
1 GCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGC-AACCTCAATGCTTTTCT
* *
374 TTCCATTGTTTATAGCCTAACTATAATCACTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAACT
65 TTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAACT
439 CATTTGGAACACTTGTTATTTTGG
130 CATTTGGAACACTTGTTATTTTGG
** * *
463 GCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTTTTCGATTTGGCAACCCTCAATGCTTTTGT
1 GCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAA-CCTCAATGCTTTTCT
*
528 TTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCAATGTGAAGTTTTTAACT
65 TTCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAACT
*
593 CATTTGGAACACTTGTTATTTTGA
130 CATTTGGAACACTTGTTATTTTGG
* *
617 GCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGCTTTGGCAACCCTCAATGCCTTTCT
1 GCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAA-CCTCAATGCTTTTCT
*
682 TTCCATTGTTTATGGACTAACTATAATCATTTT
65 TTCCATTGTTTATGGCCTAACTATAATCATTTT
715 TGATACGAAT
Statistics
Matches: 512, Mismatches: 45, Indels: 6
0.91 0.08 0.01
Matches are distributed among these distances:
153 6 0.01
154 502 0.98
155 4 0.01
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (153 bp):
GCCTATCGGGGCCCATTAGTGACGTTTTGAATCGTCTTCGATTTGGCAACCTCAATGCTTTTCTT
TCCATTGTTTATGGCCTAACTATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAACTC
ATTTGGAACACTTGTTATTTTGG
Done.