genome.fa.s8016.2.7.7.80.10.50.1000.10.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

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   

This is table  10  of  25  ( 2971 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)
2136299--2136331	4	8.2	4	100	0	66	75	0	0	24	0.80
2136944--2136995	13	3.6	14	78	17	54	67	0	17	15	1.24
2137143--2137183	20	2.1	20	86	4	57	60	7	0	31	1.24
2144884--2144922	2	19.5	2	100	0	78	51	0	0	48	1.00
2147009--2147053	2	22.5	2	100	0	90	51	0	0	48	1.00
2148599--2148631	2	16.5	2	100	0	66	51	0	0	48	1.00
2153024--2153056	11	3.0	11	95	0	57	54	9	15	21	1.68
2153480--2153542	23	2.8	23	78	2	65	14	14	20	50	1.77
2157055--2157087	16	2.1	16	100	0	66	57	24	12	6	1.57
2157153--2157227	10	7.7	10	69	21	61	57	21	12	9	1.62
2157157--2157221	16	4.1	16	95	0	121	56	23	12	7	1.61
2157975--2158030	14	4.3	14	82	17	75	51	25	14	8	1.70
2157955--2158029	24	3.1	24	90	3	107	54	21	12	12	1.69
2157968--2158015	10	4.4	10	78	19	51	54	22	12	10	1.68
2160348--2160382	17	2.1	17	88	0	52	42	17	22	17	1.88
2160538--2160562	2	12.5	2	100	0	50	48	0	0	52	1.00
2173137--2173184	23	2.1	23	96	0	87	20	12	20	45	1.83
2173371--2173426	22	2.6	23	80	8	55	58	5	1	33	1.31
2176217--2176913	232	3.0	231	92	1	1146	42	12	21	23	1.87
2176217--2176913	231	3.0	231	92	1	1146	42	12	21	23	1.87
2180829--2180859	16	1.9	16	93	0	53	61	0	3	35	1.12
2182211--2182558	157	2.2	156	87	4	495	45	7	17	29	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2183364--2183395	2	16.5	2	93	6	57	50	0	0	50	1.00
2186459--2186488	15	1.9	16	93	6	53	53	0	0	46	1.00
2186564--2186618	27	2.1	25	83	6	65	52	3	3	40	1.36
2186808--2187175	199	1.9	198	85	1	522	43	10	13	32	1.78
2187896--2187957	13	4.7	13	77	14	65	67	1	4	25	1.19
2187865--2187957	28	3.2	28	78	17	93	64	4	4	26	1.31
2187949--2188078	34	3.7	36	70	17	89	63	2	6	28	1.31
2189764--2190539	105	7.4	105	93	1	1231	23	18	26	32	1.97
2201393--2201455	23	2.8	23	83	7	67	61	3	15	19	1.46
2201470--2201544	28	2.8	25	77	20	71	66	1	5	26	1.21
2201448--2201547	15	7.1	14	71	20	75	65	4	4	27	1.29
2207863--2208057	97	2.0	97	100	0	390	30	19	26	23	1.98
2232662--2232695	16	2.1	16	88	0	50	61	11	8	17	1.54
2234386--2234493	51	2.2	49	79	12	114	38	0	1	58	1.15
2238306--2238353	6	8.0	6	100	0	96	33	0	66	0	0.92
2240683--2240754	35	2.1	35	87	7	103	38	8	8	44	1.65
2249836--2249892	5	10.2	5	79	20	60	17	52	21	8	1.71
2249837--2249895	10	5.1	12	81	18	72	18	50	18	11	1.76
2251330--2251387	26	2.2	26	96	0	107	29	17	24	29	1.97
2251330--2251401	26	2.8	26	89	4	92	31	15	25	27	1.95
2252379--2252494	24	4.8	24	84	6	146	25	15	18	39	1.91
2254622--2254665	13	3.4	13	93	0	79	15	43	22	18	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2256127--2256184	26	2.2	26	96	0	107	29	17	24	29	1.97
2256127--2256198	26	2.8	26	89	4	92	31	15	25	27	1.95
2257176--2257291	24	4.8	24	83	6	146	26	13	19	39	1.89
2257503--2257537	2	17.5	2	100	0	70	48	0	0	51	1.00
2261987--2262012	2	13.0	2	100	0	52	50	0	0	50	1.00
2263581--2263631	22	2.3	22	93	0	84	23	5	21	49	1.71
2264929--2264957	2	14.5	2	100	0	58	48	0	0	51	1.00
2265589--2265640	27	1.9	27	88	7	79	50	13	0	36	1.42
2267794--2267827	14	2.4	14	95	0	59	29	14	14	41	1.86
2276092--2276148	19	3.0	19	77	10	71	26	0	5	68	1.11
2280975--2281069	24	4.0	24	87	0	127	23	20	20	36	1.95
2280985--2281083	24	4.1	24	86	0	126	24	17	20	38	1.93
2282020--2282182	69	2.4	69	77	6	159	30	26	19	24	1.98
2283318--2283362	22	2.0	22	100	0	90	42	17	17	22	1.89
2284902--2284952	18	2.9	18	79	5	59	56	3	7	31	1.46
2288414--2288452	2	19.5	2	86	0	51	2	43	0	53	1.14
2288779--2289144	183	2.0	183	97	2	700	19	19	26	33	1.96
2294542--2294592	22	2.3	22	93	0	84	43	5	0	50	1.26
2297802--2297835	16	2.1	16	100	0	68	23	11	20	44	1.84
2299733--2299803	3	23.7	3	82	5	90	36	0	0	63	0.95
2301376--2301408	11	2.8	12	86	9	50	45	0	0	54	0.99
2313043--2313091	16	2.8	17	85	14	73	38	6	4	51	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2313043--2313091	19	2.8	18	90	9	75	38	6	4	51	1.46
2313386--2313609	114	2.0	114	88	1	333	34	14	20	29	1.93
2314302--2315205	113	8.0	112	82	7	1012	37	14	18	29	1.90
2314309--2315205	225	4.0	222	92	2	1382	37	14	18	29	1.90
2315012--2315293	124	2.3	122	84	5	351	42	15	18	23	1.88
2315438--2315509	3	24.7	3	80	8	78	37	0	0	62	0.95
2317107--2317139	11	2.8	12	86	9	50	45	0	0	54	0.99
2318336--2318373	3	12.7	3	100	0	76	65	0	0	34	0.93
2318670--2318719	16	3.0	16	94	5	82	26	12	12	50	1.74
2322299--2322356	21	2.8	21	76	2	64	12	20	37	29	1.89
2329921--2329956	18	2.0	18	89	10	56	33	0	5	61	1.19
2334589--2334683	33	2.9	33	82	3	129	30	21	24	24	1.99
2334985--2335388	60	6.8	60	75	5	302	32	28	18	20	1.96
2335395--2335531	33	4.2	33	80	3	150	32	33	11	21	1.90
2337291--2337320	2	15.0	2	100	0	60	50	0	0	50	1.00
2337534--2337602	2	36.0	2	85	8	99	47	0	2	49	1.16
2337899--2337948	17	3.1	17	68	26	54	20	6	22	52	1.68
2338547--2338593	25	1.9	24	82	4	58	25	8	6	59	1.50
2343465--2343554	20	4.5	19	72	8	63	36	28	11	23	1.89
2343489--2343554	20	3.2	21	72	6	64	34	30	10	24	1.89
2343553--2343603	21	2.4	21	93	0	84	23	23	19	33	1.97
2343553--2343743	42	4.6	42	75	10	140	20	24	21	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2343657--2343743	21	4.1	21	95	0	156	18	27	22	31	1.97
2344143--2344169	2	13.5	2	100	0	54	51	0	0	48	1.00
2344526--2344654	21	6.1	21	95	0	222	31	23	26	19	1.98
2344666--2344758	41	2.3	41	86	0	132	40	22	18	18	1.91
2344753--2344818	21	3.1	21	95	0	114	33	24	24	18	1.97
2344819--2344884	20	3.2	21	74	6	55	24	10	31	33	1.89
2346325--2346349	5	5.0	5	100	0	50	20	0	0	80	0.72
2346410--2346616	36	5.7	35	83	9	218	46	4	4	43	1.46
2347574--2347606	2	16.5	2	93	0	57	0	3	45	51	1.16
2347912--2347948	2	18.5	2	94	0	65	48	2	0	48	1.15
2347940--2348016	41	1.9	40	81	7	93	25	7	2	63	1.34
2353428--2354400	165	5.9	162	84	4	1005	29	24	20	25	1.99
2353406--2354429	249	4.1	248	83	5	1115	29	23	20	25	1.99
2353428--2354408	330	3.0	330	84	4	1223	29	23	20	25	1.99
2354898--2354936	15	2.6	15	84	12	53	48	0	5	46	1.24
2354892--2355203	36	8.7	36	72	21	180	46	5	6	42	1.50
2354890--2355201	108	2.9	106	80	14	313	46	5	6	41	1.51
2354893--2355190	72	4.2	73	78	15	277	46	5	5	42	1.49
2356095--2356172	2	39.0	2	100	0	156	50	0	0	50	1.00
2356631--2356684	4	14.2	4	75	11	51	16	3	1	77	1.00
2356633--2356677	15	3.6	12	81	18	56	15	4	2	77	1.02
2356633--2356687	27	2.1	27	86	3	76	14	3	1	80	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2357443--2357494	25	2.1	24	86	10	70	69	1	9	19	1.26
2357576--2357605	2	15.0	2	100	0	60	50	0	0	50	1.00
2357780--2357861	40	2.0	41	85	2	112	35	18	3	42	1.68
2359368--2360319	84	11.4	84	86	2	1116	23	18	24	33	1.97
2360393--2360917	124	4.2	124	89	0	764	25	17	24	32	1.97
2363689--2363729	22	1.9	21	85	5	55	26	34	4	34	1.78
2364688--2364734	21	2.3	20	89	10	69	70	2	8	19	1.24
2364726--2364780	25	2.3	23	79	14	58	72	3	7	16	1.21
2364752--2364780	14	2.0	15	93	6	51	75	0	6	17	1.01
2364870--2364950	25	3.2	25	78	13	78	75	3	4	16	1.12

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