Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: AWUE01024913.1 Corchorus olitorius cultivar O-4 contig24946, 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, 687
Length: 1146
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Found at i:282 original size:154 final size:154
Alignment explanation
Indices: 1--1143 Score: 1818
Period size: 154 Copynumber: 7.4 Consensus size: 154
*
1 ATAATCATTTTGGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGCAACACTTGTTATTTT
1 ATAATCATTTTGGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTT
**
66 GGGATTATCGGGGCCCATT-GGTGCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTT
66 GGGCCTATCGGGGCCCATTAGGT-CCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTT
*
130 TCATTCCATTGTTTATGGCCTAACT
130 TCTTTCCATTGTTTATGGCCTAACT
*
155 ATAATCATTTTGGTGAGATTAGTCCACTT-TGAAGTTTTTAGCTCATTTGGAACCCTTGTTATTT
1 ATAATCATTTTGGTGAGATTAGTCCA-TTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTT
*
219 TGGGCCTATCGGGGCCCATTAGGTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCATTGCTTT
65 TGGGCCTATCGGGGCCCATTAGGTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTT
*
284 TCGTTCCATTGTTTATGGCCTAACT
130 TCTTTCCATTGTTTATGGCCTAACT
*
309 ATAATCATTTTGGTGAGATTAGTCCATTGTGAAGTTTTTAACTCATTTGGAACACTTGTTATTTT
1 ATAATCATTTTGGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTT
* * *
374 GGGACTATCGGAGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATG-TCTT
66 GGGCCTATCGGGGCCCATTAGGTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCT-TT
438 T-TTTCCATTGTTTATGGCCTAACT
130 TCTTTCCATTGTTTATGGCCTAACT
* * *
462 ATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGAAACACTTTTTATTTT
1 ATAATCATTTTGGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTT
*
527 GGGCCTATCGGGGCCCATTA-GTGACGTTTTGAATCGTCTTCGATTT-GCAACCCTCAATGCTTT
66 GGGCCTATCGGGGCCCATTAGGT-CCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTT
590 TCTTTCCATTGTTTATGGCCTAACT
130 TCTTTCCATTGTTTATGGCCTAACT
*
615 ATAATCATTTTGGTGAGATTAGTCCACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTT
1 ATAATCATTTTGGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTT
*
680 GGGCCTATCGGGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTT
66 GGGCCTATCGGGGCCCATTAGGTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTT
745 CTTTCCATTGTTTATGGCCTAACT
131 CTTTCCATTGTTTATGGCCTAACT
* ** * * * *
769 ATAATCACTTAAGTAAGATTAGTACACTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTCT
1 ATAATCATTTTGGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTT
* *
834 GGGCCTATCGAGGCCCATTAGTTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTT
66 GGGCCTATCGGGGCCCATTAGGTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTT
* *
899 CTTTCCAATGTTTATGGCCTTACT
131 CTTTCCATTGTTTATGGCCTAACT
* *
923 ATAATCATTTTGGTGAGATTAGTCCATTGTTAAGTTTTTAGCTCATTTGGAACACTTGGTATTTT
1 ATAATCATTTTGGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTT
* *** * *
988 AGGCCTATCAACGACCATTAGTGT-CGTTTTGAATAGTCTTCGATTT-GCAACCCTCAATGCTTT
66 GGGCCTATCGGGGCCCATTAG-GTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTT
*
1051 ACTTTCCATTGTTTATGGCCTAACT
130 TCTTTCCATTGTTTATGGCCTAACT
* *
1076 ATAATCATTTTGGTGAGATTAGTCCATTATGAAGTTTTTAACTCATTTGGAA-ACCTTGTTATTT
1 ATAATCATTTTGGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGGAACA-CTTGTTATTT
1140 TGGG
65 TGGG
1144 ACT
Statistics
Matches: 921, Mismatches: 57, Indels: 23
0.92 0.06 0.02
Matches are distributed among these distances:
152 18 0.02
153 355 0.39
154 542 0.59
155 6 0.01
ACGTcount: A:0.21, C:0.19, G:0.19, T:0.41
Consensus pattern (154 bp):
ATAATCATTTTGGTGAGATTAGTCCATTGTGAAGTTTTTAGCTCATTTGGAACACTTGTTATTTT
GGGCCTATCGGGGCCCATTAGGTCCGTTTTGAATCGTCTTCGATTTGGCAACCCTCAATGCTTTT
CTTTCCATTGTTTATGGCCTAACT
Done.