genome.fa.s8356.2.7.7.80.10.50.1000.52.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   

This is table  52  of  56  ( 6656 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11851693--11851841	31	4.5	31	70	17	95	44	26	9	18	1.80
11855816--11855969	77	2.0	79	81	11	183	44	8	4	42	1.55
11862286--11862343	27	2.1	27	100	0	116	29	36	15	18	1.92
11863722--11863769	20	2.3	21	76	16	55	64	12	8	14	1.49
11870832--11870874	17	2.5	17	96	0	77	48	6	13	30	1.69
11873867--11873927	30	2.0	30	93	0	104	29	9	26	34	1.88
11874404--11874444	21	2.0	21	100	0	82	26	0	24	48	1.51
11875551--11875583	14	2.3	15	89	5	50	36	0	0	63	0.95
11880041--11880084	16	2.7	16	92	3	70	45	0	22	31	1.53
11880698--11880739	21	2.0	22	85	4	59	28	21	7	42	1.79
11881003--11881465	112	4.1	112	89	3	691	46	13	14	26	1.81
11881338--11881770	182	2.4	182	94	0	740	43	13	15	27	1.85
11883639--11883678	18	2.2	18	90	0	62	25	32	20	22	1.98
11884156--11884228	25	3.0	24	68	24	62	26	6	4	63	1.38
11891305--11891359	22	2.5	22	100	0	110	20	18	29	32	1.96
11891432--11891482	19	2.7	18	77	16	57	27	21	17	33	1.96
11893460--11893542	26	3.2	26	89	1	123	27	22	12	37	1.90
11900418--11900561	62	2.2	66	85	10	188	26	16	23	33	1.96
11919623--11919661	19	2.1	19	95	0	69	20	38	15	25	1.92
11919560--11919769	65	3.3	63	83	8	235	30	25	16	27	1.96
11919560--11919789	64	3.6	64	81	6	234	30	26	16	26	1.97
11925538--11925593	22	2.7	21	83	10	62	30	23	17	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11928197--11928235	19	2.1	19	95	0	69	20	38	15	25	1.92
11928134--11928342	65	3.2	64	81	11	221	30	25	16	27	1.96
11928134--11928363	64	3.6	64	80	6	225	30	26	16	26	1.97
11929141--11929213	35	2.2	33	85	5	92	21	30	15	32	1.94
11929494--11929536	21	2.0	22	90	4	70	25	30	20	23	1.99
11929736--11929795	29	2.0	31	90	6	97	41	16	6	35	1.75
11931425--11931461	11	3.5	11	85	14	51	54	2	0	43	1.14
11932344--11932418	20	3.8	20	96	0	123	38	14	12	34	1.83
11935318--11935446	49	2.7	47	90	4	204	29	20	8	41	1.82
11935492--11936132	81	7.9	81	84	1	764	31	22	11	34	1.90
11936293--11936496	57	3.6	57	87	5	304	37	18	9	34	1.83
11936284--11936496	114	1.9	116	91	4	351	38	18	8	34	1.82
11936816--11936865	19	2.5	20	83	6	66	30	28	16	26	1.96
11941024--11941817	81	9.8	81	88	0	1113	32	23	10	33	1.88
11941978--11942181	57	3.6	57	89	0	309	36	17	10	34	1.85
11949161--11949233	19	3.8	19	77	10	85	34	16	16	32	1.91
11949447--11949618	92	1.9	93	87	1	256	27	19	11	41	1.86
11949462--11949635	93	1.9	91	85	3	233	27	20	12	39	1.88
11953155--11953196	22	1.9	22	90	0	66	26	45	21	7	1.77
11953194--11953290	29	3.3	29	79	13	117	34	1	19	45	1.58
11962660--11962709	18	2.7	19	84	6	75	32	18	4	46	1.67
11963862--11963905	19	2.3	19	96	0	79	29	20	15	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11966023--11966060	18	2.1	18	85	9	51	34	13	23	28	1.92
11967587--11967695	39	2.8	39	84	0	155	36	15	1	45	1.57
11968305--11968370	30	2.2	29	94	2	114	42	4	22	30	1.74
11969523--11969568	20	2.3	20	82	17	53	36	0	28	34	1.58
11983609--11983635	14	1.9	14	100	0	54	25	14	7	51	1.68
11984039--11984164	47	2.8	45	85	5	164	39	7	23	29	1.83
11986995--11987115	12	10.1	12	67	26	62	77	2	16	3	1.01
11986992--11987132	15	9.1	15	68	21	78	75	2	17	4	1.06
11986992--11987134	18	7.9	17	73	20	105	76	2	17	4	1.05
11987043--11987105	27	2.4	26	85	15	85	74	3	17	4	1.12
11986992--11987135	74	1.9	74	79	10	161	75	2	17	4	1.08
11990177--11990500	56	5.8	56	90	1	485	33	11	17	36	1.87
11994091--11994158	29	2.3	29	87	0	91	38	2	23	35	1.70
11995190--11995234	20	2.2	20	88	0	63	31	11	20	37	1.87
11998627--11998733	50	2.1	51	87	3	153	30	18	19	30	1.96
12000515--12000768	81	3.1	81	88	2	375	36	11	20	31	1.89
12001840--12001936	50	1.9	50	85	4	133	53	11	10	24	1.67
12008393--12008436	21	2.1	21	91	0	70	43	2	11	43	1.53
12011478--12011524	24	2.0	24	95	0	85	46	10	4	38	1.58
12012738--12012782	20	2.3	20	84	3	56	40	22	0	37	1.54
12015464--12015506	22	1.9	23	85	4	61	53	13	0	32	1.41
12023467--12023515	24	2.0	24	88	0	71	44	12	2	40	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12023477--12023527	24	2.0	24	81	7	57	47	11	5	35	1.65
12033711--12033751	21	2.0	20	86	9	57	26	14	21	36	1.93
12045218--12045267	20	2.5	20	100	0	100	34	16	20	30	1.94
12045686--12045989	54	5.6	54	83	2	263	31	19	18	30	1.96
12045684--12046246	55	10.3	55	81	3	336	33	18	18	29	1.95
12045832--12046246	110	3.8	109	82	2	465	34	17	19	28	1.94
12045883--12046246	165	2.2	164	88	1	532	35	18	18	27	1.94
12046704--12046853	46	3.3	46	88	0	219	48	8	21	22	1.76
12046828--12046948	45	2.7	45	85	1	161	42	11	19	25	1.85
12051140--12051351	54	3.9	54	86	4	302	29	18	18	32	1.96
12051139--12051349	108	1.9	109	91	2	345	29	18	18	32	1.96
12051137--12051699	55	10.3	55	83	4	500	32	19	19	28	1.96
12051300--12051699	166	2.4	164	86	2	561	34	20	19	26	1.96
12051962--12052098	68	2.0	68	90	5	215	28	16	26	29	1.96
12052142--12052305	46	3.6	46	85	1	231	46	8	22	21	1.78
12052278--12052412	45	3.0	44	80	13	150	39	11	21	28	1.87
12055220--12055258	18	2.0	20	90	9	64	35	0	20	43	1.52
12060141--12060165	6	4.2	6	100	0	50	64	16	0	20	1.30
12061140--12061207	34	2.0	34	91	0	109	38	13	23	25	1.91
12061979--12062019	21	2.0	21	95	0	73	31	12	24	31	1.92
12070451--12070528	40	2.0	40	89	0	120	32	24	7	35	1.84
12074228--12074347	2	61.5	2	83	4	147	48	4	1	45	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12074485--12074525	2	20.5	2	100	0	82	51	0	0	48	1.00
12074728--12075519	55	14.3	56	78	6	695	29	22	16	32	1.96
12074728--12075519	166	4.8	168	80	5	775	29	22	16	32	1.96
12075536--12075625	37	2.4	38	87	9	141	25	17	16	40	1.91
12076887--12076987	8	12.0	8	72	16	55	5	18	0	75	1.00
12076932--12076989	25	2.3	25	82	5	73	5	17	0	77	0.94
12076889--12076987	42	2.4	39	80	13	92	6	17	0	76	0.97
12076906--12077002	8	11.1	9	72	15	62	8	16	0	75	1.03
12080552--12080584	12	2.8	12	95	0	57	51	18	0	30	1.46
12089963--12090014	25	2.1	25	96	0	95	15	17	48	19	1.82
12091598--12091626	12	2.3	13	94	5	51	31	3	0	65	1.09
12095461--12095565	51	2.0	51	85	7	138	23	9	24	41	1.84
12096952--12096985	2	17.0	2	93	0	59	47	0	2	50	1.16
12097698--12097832	72	1.9	72	89	3	209	25	14	17	42	1.87
12097698--12097848	72	2.1	72	86	2	205	26	13	17	42	1.87
12098576--12098630	26	2.2	24	84	12	67	54	0	0	45	0.99
12098583--12098630	24	2.1	21	81	11	51	54	0	0	45	0.99
12101187--12101211	13	1.9	13	100	0	50	80	0	4	16	0.87
12102684--12102726	17	2.5	17	92	0	77	13	23	46	16	1.83
12103406--12103571	55	3.1	54	85	3	226	28	30	13	28	1.94
12103406--12103857	53	8.6	55	71	14	260	26	27	16	29	1.97
12108433--12108460	8	3.5	8	100	0	56	50	10	0	39	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12116617--12116641	13	1.9	13	100	0	50	80	0	4	16	0.87
12118116--12118158	17	2.5	17	92	0	77	13	23	46	16	1.83
12121466--12121496	16	1.9	16	93	0	53	48	19	12	19	1.81
12121800--12121837	14	2.5	16	83	12	53	39	0	2	57	1.12
12122195--12122239	17	2.6	18	85	3	65	35	8	26	28	1.87
12122606--12123232	257	2.4	262	86	4	881	40	19	12	27	1.88
12124258--12124844	112	5.2	112	91	1	892	45	13	15	25	1.82
12124258--12124844	225	2.6	224	90	1	901	45	13	15	25	1.82
12124632--12124685	20	2.7	20	76	0	63	59	12	14	12	1.62
12124706--12125340	182	3.5	182	91	2	994	43	12	15	28	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56