Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01007650.1 Hibiscus syriacus cultivar Beakdansim tig00024896_pilon, 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: 10446
ACGTcount: A:0.25, C:0.30, G:0.28, T:0.17
Found at i:2638 original size:34 final size:35
Alignment explanation
Indices: 1884--7967 Score: 9947
Period size: 35 Copynumber: 175.7 Consensus size: 35
1874 TCCGGGCGGC
1884 GGGG-CAGCCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAG-CCCCCTGAACCCTAAGGAGCCGA-CGCG
*
1920 GGGGTCAACCCCCTGAACCCTAAGGAGCCGGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCC-GACGCG
*
1956 GGGGTCAGCCCCCTAAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
1992 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
2027 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
2063 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
2099 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
2135 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCC-GACGCG
2171 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
*
2207 GGGGTCAGCCCCCTGAACCCTAAGGAGCCACACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCC-GACGCG
2243 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2278 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
2314 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2349 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2384 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
2420 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAC-CG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2454 CGGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 -GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2490 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2525 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2560 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2595 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2629 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2664 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2699 GGGGTCAGCCCCCTGAACCCT-A--AGCCGAC-CG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2730 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2765 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2799 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2834 GGGGTCAGCCCCCTGAACCCTAA-G-GCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2867 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
2903 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2938 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
2973 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3008 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3043 GGGGTCAGCCCCCTGAACCCT-A--AGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3075 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3109 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
3145 GGGGTCAGCCCCCTGAACCCT-A--AGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3177 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3211 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3246 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3281 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3315 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3349 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3383 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3417 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3452 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
3488 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3522 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3556 GGGGTCA-CCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3589 -GGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3622 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3657 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3691 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3726 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3760 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
3796 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3830 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
3866 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
3901 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGAACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
3935 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
3971 GGGGTC--CCCCCTGAACCCTAAGGAGCCGAC-CG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
4003 CGGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 -GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
4040 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAC-CG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
4074 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCC-GACGCG
4110 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
4146 GGGGTCA-------GAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
4174 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
4208 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
4243 GGGGTCAGCCCCCTGAA-CCTAA-GAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
4275 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
4311 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
4347 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCC-GACGCG
4383 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
4419 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
4455 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
4490 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
* *
4524 GGGGTCAGCCCCCTGAACCCTAAGGAGCCAAAGCTG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-G
* *
4560 GGGGTCAGCCCCCTGAACCCTAAGGAGCCAAAGACG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACG-CG
*
4596 GGGGTCAGCCCCCTGAACCCTAAGGAGCCAAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCC-GACGCG
4632 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAC-CG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
*
4666 CGGGGTCAG-CCCCTGAA-CCTAAGGAGCCGACGAG
1 -GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
4700 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
4735 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
4771 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCC-GACGCG
4807 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAC-CG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
*
4841 GGGGTCAGACCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
*
4877 GGGGTCAGCCCCCTGAACCCTATGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
4913 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
4948 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
4983 GGGGT----CCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
5015 GGGGTCAG--CCCTGAACCCT-AGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
5047 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGAACG-G
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
5081 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
5116 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
*
5152 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-ACG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
*
5186 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGCCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
5220 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
5255 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGGACG-G
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCC-GACGCG
*
5290 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGA-ACG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
5323 GGGGTCAGCCCCCTGAA-CCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
5357 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
5391 GGGGTCAG--CCCTGAA-CC--AGGAGCCGAACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
* *
5421 GGGGTCAGCCCCCTGAACCCTAAGGAGCCAAACCCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCC-GACGCG
*
5457 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAAGCCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACG-CG
5493 GGGGTCAGCCCCCTGAACCCTAAGGAG--GACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
5526 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
5562 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
*
5597 GGGGTCAGCCCCCTGAACCCTAAGGAGAC--CGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
5630 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
*
5665 GGGGTCAGCCCCCT-AACCCCAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
5698 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
5733 GGGGTCAGCCCCCTGAACCCT-AGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
5766 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
5800 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
5836 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG--GCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
5869 GGGGTCAG-CCCCTGAACCCTAAGGGAG-C--CGC-
1 GGGGTCAGCCCCCTGAACCCTAA-GGAGCCGACGCG
5900 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
* *
5936 GGGGTCAGCCCCCTGAACCCTAAGAAGCCGAACACG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
*
5972 GGGGTCAG-CCCCTGAACCCTATGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
6007 GGGGTCAGCCCCCTGAACCCTAAGGAG-C--CGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
6039 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGA--C-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
6070 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
6106 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
*
6142 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACG-T
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
6177 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACG-G
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
6212 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGA--CG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
6244 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
6279 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
6314 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
6350 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCC-GACGCG
6386 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
6421 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAC-CG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
6455 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
6490 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
6524 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCC-GACGCG
6560 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
6596 GGGGTCAGCCCCCTGAA-CCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
6629 GGGG---GCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
6661 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
6697 GGGGTCAG--CCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
6731 GGGGTCAG-CCCCTGAACCCTAAGGAGCC--CGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
* * *
6762 GGGGTCCGCCCCCTGAACCCT-AGGAAGCCAAAGACG
1 GGGGTCAGCCCCCTGAACCCTAAGG-AGCCGACG-CG
* *
6798 GGGGTCCGCCCCCTGAACCCTAAGGAGCCGA-ACG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
6832 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
6868 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
6903 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGAACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
6937 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
6971 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
7006 GGGGTCAGCCCCCTGAA-CCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
7041 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
7077 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
* *
7113 GGGGTCAGCCCCCTGAACCCTAAGGAGCCAAAGCCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACG-CG
* *
7149 GGGGTCAGCCCCCTGAACCCTAA-G-GCCAAAGCCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACG-CG
7183 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
7218 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
7253 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
7289 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
7324 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
7359 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
7394 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCC-GACGCG
7429 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
7465 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
7500 GGGGTCA--CCCCTGAACCCTAAGGAGCCGACCGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGA-CGCG
7534 GGGGTCAG-CCCCTGAACCCTAAGGAGCCGAC-CG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
7567 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
7602 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
7636 GGGGTCAGCCCCCTGAA-CCTAAGGAGCCGACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
7670 GGGGTCAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
7706 GGGGT--G-CCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
*
7739 GGGGTGAGCCCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
7775 GGGGTCA--CCCCTGAACCCTAAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
*
7809 GGGGTCA--CCCCTGAA-CC-AAGGATCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
* *
7841 GGGGTCAGCCCCCTGAACCCCAAGGAGCCGAACAC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
*
7876 GGGGTCA-TCCCCTGAACCC-AAGGAGCCGAACGCG
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
*
7910 GGGGTCATCCCCCTGAACCC-AAGGAGCCGAACGC-
1 GGGGTCAGCCCCCTGAACCCTAAGGAGCCG-ACGCG
*
7944 GGGGTCAGCCCCCTG-AGCCTAAGG
1 GGGGTCAGCCCCCTGAACCCTAAGG
7968 TGCTGAGGAG
Statistics
Matches: 5798, Mismatches: 59, Indels: 384
0.93 0.01 0.06
Matches are distributed among these distances:
28 12 0.00
29 16 0.00
30 26 0.00
31 92 0.02
32 278 0.05
33 479 0.08
34 1269 0.22
35 1828 0.32
36 1777 0.31
37 21 0.00
ACGTcount: A:0.21, C:0.37, G:0.33, T:0.09
Consensus pattern (35 bp):
GGGGTCAGCCCCCTGAACCCTAAGGAGCCGACGCG
Found at i:10245 original size:337 final size:333
Alignment explanation
Indices: 9621--10446 Score: 995
Period size: 337 Copynumber: 2.5 Consensus size: 333
9611 ATTCCGCAGG
9621 TTTTTAGCGTCAAAATCGAAAGTTCGCCGATCGAGCCGAAAGCAAGTTATGCCGCTTGGAAATGA
1 TTTTTAGCGTCAAAATCGAAAGTTCGCCGATCGAGCCGAAAGCAAGTTA-GCCGCTTGGAAATGA
* *
9686 CCCGCTGAGTGCGATTTTCCAGTCAGAAAAGCTCCGCGAGTCCCTC-ATTTCGAGCTATCCGCTG
65 CCCGCTGAGTGCGATTTTCCAGTCGGAAAAGCTCCGCGAGTCCCTCGCTTT-GAGCTATCCGCTG
* * * * * *
9750 AACACGCTCCAGAGAAAGAGTCAAAATTGGTCTGAAATGCTCGTGTTTGACCAGTTTTGACTGTT
129 AAAACGCTCCAGAGAAAGAGTCAAAATTGGGCAGAAATACTCGTGTTTGACCAGTTTTAACTGTA
* * *
9815 TCTCGACTCAGGAAGTCTCGCCGAGAAATGGAACCGTGTGGAATCGATTCTACGCCTCCAAAATT
194 TCCCGACTCAGGAAGTCTCGCCGAGAAATGGAACCGTGCGGAATCGATTCTACGCCTCCAAAATA
* * * ** *
9880 CGTAGATGCGACTGCAATCTTGATTTTTTTTTTATCAGTCCAAAATCGAGTAAAATCGAC-AGGC
259 CGAAGATGCGACTGAAATCCTGA----TTTTTTATCAGTCCAAAAAAGAGAAAAATCGACAAGG-
* * *
9944 GTTACATTAACCGAA
319 ATTACATCAACCAAA
*
9959 -TTTTAGCGTCAAAATCGAAAGTTCGCCGATCGAGCCGAAAGCAAGCTTGGCCGCTTGGAAATGA
1 TTTTTAGCGTCAAAATCGAAAGTTCGCCGATCGAGCCGAAAGCAAG-TTAGCCGCTTGGAAATGA
* *
10023 CCCGCTGAGTGCGATTTTCCAGTCGGAAAAGCTCCGCAAGTCCCTCGCTTTGAACTATCCGCTGA
65 CCCGCTGAGTGCGATTTTCCAGTCGGAAAAGCTCCGCGAGTCCCTCGCTTTGAGCTATCCGCTGA
10088 AAACGCTCCAGAGAAAGAGTCAAAATTGGGCAGACAA-ACTCGT-TTTGACCAGTTTATAACT-T
130 AAACGCTCCAGAGAAAGAGTCAAAATTGGGCAGA-AATACTCGTGTTTGACCAGTTT-TAACTGT
* * * *
10150 ATCCCGGCTCAGGATGTCTCGCC-ATG-AGTCGGGACCGTGCGGAATCGATTCTACGCCTCC-AA
193 ATCCCGACTCAGGAAGTCTCGCCGA-GAAAT-GGAACCGTGCGGAATCGATTCTACGCCTCCAAA
*
10212 ATACGAAGGATGCGACTGAAATCCTGAATTTTTTCTCAGTCCAAAAAAGAGAAAAATCGACATAG
256 ATACGAA-GATGCGACTGAAATCCTG-ATTTTTTATCAGTCCAAAAAAGAGAAAAATCGACA-AG
* *
10277 GATTACATCGACTAAA
318 GATTACATCAACCAAA
* * ** * * * * * * ** *
10293 TTTTTCGGGTCAAAGGCGAATGTTCGCGGATTGGGCCGAAACCAGGGAAGCTCGCTTGGAATTGA
1 TTTTTAGCGTCAAAATCGAAAGTTCGCCGATCGAGCCGAAAGCAAGTTAGC-CGCTTGGAAATGA
* * * *
10358 CCCGCTCAGTGCGATTTTCCAGTCGGAAAAGCTCCGCGAGTACCTCGCTTAGAGCTATCCGCTTA
65 CCCGCTGAGTGCGATTTTCCAGTCGGAAAAGCTCCGCGAGTCCCTCGCTTTGAGCTATCCGCTGA
** *
10423 AAACGCTTTAGAGAACGAGTCAAA
130 AAACGCTCCAGAGAAAGAGTCAAA
Statistics
Matches: 423, Mismatches: 53, Indels: 27
0.84 0.11 0.05
Matches are distributed among these distances:
333 29 0.07
334 12 0.03
335 140 0.33
336 77 0.18
337 158 0.37
338 7 0.02
ACGTcount: A:0.28, C:0.24, G:0.23, T:0.25
Consensus pattern (333 bp):
TTTTTAGCGTCAAAATCGAAAGTTCGCCGATCGAGCCGAAAGCAAGTTAGCCGCTTGGAAATGAC
CCGCTGAGTGCGATTTTCCAGTCGGAAAAGCTCCGCGAGTCCCTCGCTTTGAGCTATCCGCTGAA
AACGCTCCAGAGAAAGAGTCAAAATTGGGCAGAAATACTCGTGTTTGACCAGTTTTAACTGTATC
CCGACTCAGGAAGTCTCGCCGAGAAATGGAACCGTGCGGAATCGATTCTACGCCTCCAAAATACG
AAGATGCGACTGAAATCCTGATTTTTTATCAGTCCAAAAAAGAGAAAAATCGACAAGGATTACAT
CAACCAAA
Done.