genome.fa.s8364.2.7.7.80.10.50.1000.10.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

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   

This is table  10  of  27  ( 3136 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)
2173365--2173582	72	3.0	72	91	1	330	16	27	26	28	1.97
2176219--2176275	21	2.7	21	91	2	87	29	1	31	36	1.68
2177530--2177573	2	22.0	2	100	0	88	50	0	0	50	1.00
2179000--2179030	12	2.6	12	94	0	53	9	19	48	22	1.78
2179028--2179112	38	2.4	34	81	14	116	48	0	0	51	1.00
2179028--2179121	2	51.0	2	67	16	51	48	0	0	51	1.00
2179577--2179653	40	1.9	41	84	7	104	19	10	14	55	1.67
2184774--2184816	3	14.3	3	90	0	68	72	0	27	0	0.85
2184774--2184822	12	4.0	12	91	2	80	71	2	26	0	0.97
2185186--2185372	73	2.6	72	83	5	207	35	9	29	25	1.87
2186807--2186857	15	3.4	14	84	10	57	7	62	17	11	1.51
2199963--2200007	16	2.9	15	78	18	56	53	0	2	44	1.13
2199978--2200036	30	2.1	28	84	9	75	54	0	3	42	1.17
2202995--2203034	21	2.0	21	95	5	73	52	22	0	25	1.47
2203193--2203312	63	1.9	63	83	8	156	32	18	17	31	1.94
2209319--2209376	2	29.0	2	100	0	116	50	0	50	0	1.00
2210567--2210617	20	2.6	19	81	9	66	49	0	0	50	1.00
2210790--2210840	2	25.5	2	100	0	102	50	0	49	0	1.00
2212581--2212715	46	3.0	45	85	3	182	33	4	17	45	1.68
2212891--2212921	2	15.5	2	100	0	62	48	0	0	51	1.00
2222026--2222079	27	2.0	28	82	10	67	59	3	0	37	1.15
2224286--2224353	30	2.3	30	78	0	73	32	8	13	45	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2226792--2226836	13	3.4	13	84	6	54	37	0	4	57	1.19
2226804--2226834	7	4.4	7	100	0	62	38	0	0	61	0.96
2234750--2234872	42	2.9	42	97	0	228	26	21	26	26	1.99
2237034--2237478	216	2.1	215	94	1	786	24	12	27	36	1.91
2237436--2237522	38	2.3	38	90	3	133	11	12	37	37	1.80
2240255--2240375	42	2.9	42	78	6	138	36	18	20	24	1.95
2240257--2240458	82	2.4	82	83	7	230	36	17	20	26	1.94
2242979--2243233	43	5.9	43	83	3	271	26	24	16	32	1.96
2255257--2255301	23	2.0	23	86	8	65	37	24	8	28	1.86
2257857--2257945	44	2.0	44	80	8	101	47	1	1	50	1.15
2257920--2257990	28	2.6	28	76	14	76	46	0	0	53	1.00
2257959--2258049	27	3.3	27	76	13	87	50	1	1	47	1.15
2258095--2258198	42	2.7	37	80	16	129	46	0	0	51	1.13
2258240--2258284	14	3.1	14	84	12	56	57	2	0	40	1.11
2270566--2270619	27	2.0	27	100	0	108	29	25	11	33	1.91
2281272--2281308	19	1.9	19	88	0	56	40	0	0	59	0.97
2281364--2281465	29	3.5	29	91	0	168	49	18	13	18	1.80
2289516--2289548	6	5.7	6	89	7	50	63	3	0	33	1.10
2294799--2294852	21	2.6	21	96	0	99	25	16	27	29	1.97
2294841--2295138	20	14.9	20	69	15	156	17	21	23	37	1.94
2294820--2295113	41	7.4	41	77	11	267	18	20	24	36	1.95
2294904--2294975	22	3.4	22	73	11	78	18	20	25	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2294925--2294993	19	3.5	19	73	11	75	18	21	21	37	1.94
2295017--2295090	21	3.6	21	70	3	69	22	17	25	33	1.96
2294836--2295154	157	2.0	156	86	5	448	19	20	23	36	1.95
2294992--2295150	82	1.9	81	87	7	232	20	19	24	35	1.96
2295756--2295788	6	5.7	6	96	3	59	0	18	51	30	1.46
2295864--2295971	57	1.9	56	94	1	189	37	23	17	21	1.94
2295921--2296184	41	6.5	41	92	3	419	37	23	18	20	1.94
2297696--2297728	14	2.2	16	89	10	52	0	9	18	72	1.10
2299335--2299953	249	2.5	249	91	0	977	36	16	23	23	1.94
2300764--2300789	2	13.0	2	100	0	52	50	0	0	50	1.00
2302181--2302244	27	2.4	27	91	0	101	35	14	39	10	1.81
2303767--2303807	16	2.4	18	80	15	52	65	0	0	34	0.93
2304786--2304901	21	5.6	21	75	10	94	25	18	27	27	1.98
2304825--2304902	21	3.7	21	84	0	102	26	20	24	28	1.99
2322772--2322803	2	16.0	2	93	0	55	46	0	0	53	1.00
2324067--2324093	3	9.0	3	100	0	54	66	0	0	33	0.92
2328233--2328257	3	8.3	3	100	0	50	68	32	0	0	0.90
2331800--2331829	5	6.0	5	92	0	51	60	0	36	3	1.14
2332560--2332606	14	3.4	14	85	11	69	34	2	2	61	1.20
2335739--2335770	16	2.0	16	100	0	64	43	0	43	12	1.42
2336625--2336697	23	3.2	23	92	0	119	38	21	5	34	1.77
2337112--2337184	23	3.2	23	92	0	119	38	21	5	34	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2336223--2337324	487	2.3	488	95	1	1987	39	10	7	42	1.68
2337424--2337496	23	3.2	23	92	0	119	38	21	5	34	1.77
2340388--2340632	120	2.0	120	95	0	436	38	16	13	32	1.87
2340223--2341028	303	2.7	303	96	0	1468	35	16	13	34	1.88
2340695--2340935	120	2.0	120	90	0	374	38	15	12	33	1.85
2342231--2342288	12	4.8	12	84	0	71	22	32	6	37	1.81
2342231--2342288	6	9.7	6	80	0	53	22	32	6	37	1.81
2343787--2344642	179	4.7	179	85	6	1217	31	18	14	35	1.91
2343895--2344286	200	2.0	200	93	0	676	31	19	14	34	1.92
2346748--2346816	33	2.1	33	88	0	102	23	46	1	28	1.61
2349082--2349553	180	2.6	180	86	2	579	26	16	13	42	1.86
2351251--2351290	21	2.0	20	85	5	53	57	7	15	20	1.61
2351740--2351823	32	2.7	29	80	12	89	51	1	1	46	1.16
2351807--2351866	19	3.0	20	81	16	63	48	0	0	51	1.00
2351849--2351879	15	2.1	15	93	0	53	54	0	0	45	0.99
2352007--2352053	23	2.1	21	84	7	58	59	0	2	38	1.09
2351991--2352059	29	2.4	29	92	4	113	55	0	1	43	1.08
2352642--2352679	15	2.6	15	91	4	60	65	2	0	31	1.06
2356399--2356648	87	2.9	87	82	2	288	44	7	13	35	1.72
2356696--2357166	200	2.4	199	84	5	598	30	14	14	40	1.85
2357495--2357760	125	2.1	125	88	2	392	40	15	14	29	1.86
2362043--2362084	21	2.0	21	81	9	50	40	7	0	52	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2366298--2366341	18	2.4	18	80	0	52	52	11	13	22	1.72
2367054--2367101	25	2.0	24	83	4	60	47	0	0	52	1.00
2367456--2367508	21	2.5	21	79	11	63	22	24	18	33	1.97
2367498--2367624	20	6.3	20	83	3	157	37	19	19	22	1.94
2367498--2367624	61	2.1	60	86	4	175	37	19	19	22	1.94
2367536--2367634	20	4.9	20	90	2	121	36	19	20	24	1.95
2368444--2368497	24	2.2	24	90	0	81	22	18	18	40	1.91
2370943--2370995	14	3.5	14	74	18	52	41	20	24	13	1.88
2371007--2371059	20	2.7	20	96	0	97	15	22	26	35	1.93
2371157--2371193	14	2.6	14	86	0	56	48	21	0	29	1.50
2372569--2372661	42	2.2	42	80	3	107	22	17	39	20	1.92
2373140--2373293	34	4.4	34	74	11	130	42	22	19	14	1.88
2373208--2373276	20	3.5	20	81	0	75	39	24	17	18	1.92
2373325--2373464	20	7.3	20	83	9	166	20	19	20	40	1.92
2375338--2375392	20	2.8	20	91	0	83	49	21	16	12	1.79
2375360--2375432	20	3.7	20	86	0	92	36	23	17	21	1.94
2376018--2376091	20	3.7	20	76	3	85	24	21	18	35	1.96
2376677--2376701	4	6.2	4	100	0	50	24	0	0	76	0.80
2390942--2391017	31	2.5	31	86	4	100	36	11	17	34	1.86
2394867--2395068	109	1.9	109	87	4	300	46	7	14	31	1.73
2395056--2395105	24	2.1	24	100	0	100	56	0	14	30	1.39
2395332--2395372	20	2.0	20	90	0	64	39	7	7	46	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2396221--2396363	64	2.3	62	89	4	207	38	8	6	46	1.61
2396435--2396755	77	4.2	77	82	3	357	38	17	9	35	1.82
2396877--2397039	76	2.1	77	86	2	220	38	17	8	36	1.80
2397612--2397734	50	2.5	50	80	0	147	16	34	27	21	1.94
2397855--2397889	10	3.5	10	85	14	54	34	25	0	40	1.56
2397858--2397896	10	3.6	12	80	19	50	28	25	0	46	1.53
2398027--2398240	111	1.9	111	97	0	401	36	7	11	43	1.70
2400125--2400177	9	5.9	9	79	0	61	33	16	33	15	1.90
2400359--2400443	35	2.5	33	76	14	82	24	8	10	56	1.60
2404024--2404156	50	2.6	51	81	9	141	18	30	30	20	1.96

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