genome.fa.s8003.2.7.7.80.10.50.1000.10.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: VEPZ01008003.1 Hibiscus syriacus cultivar Beakdansim tig00110462_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3297763

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  10  of  14  ( 1618 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)
2198329--2198702	94	4.0	93	93	2	585	22	12	17	47	1.82
2198793--2198869	19	4.3	19	79	18	92	49	25	18	6	1.71
2198799--2198863	33	1.9	34	93	3	114	49	27	16	6	1.70
2198799--2198869	20	4.0	18	79	20	87	49	28	16	5	1.69
2198879--2198971	33	2.8	33	96	0	168	11	19	21	47	1.81
2198911--2198971	19	3.5	19	70	21	69	9	19	22	47	1.79
2199448--2199514	21	3.2	21	66	6	55	23	35	20	19	1.95
2199407--2199514	42	2.6	42	80	5	103	22	35	20	22	1.96
2200982--2201043	19	3.3	19	90	4	90	43	24	17	14	1.86
2201039--2201156	19	6.7	19	69	19	94	12	23	20	43	1.86
2201064--2201118	14	3.6	14	73	21	56	10	23	20	45	1.82
2201043--2201136	33	2.8	33	100	0	188	12	23	19	44	1.85
2201109--2201202	20	4.7	20	72	13	68	21	20	23	35	1.96
2203671--2203724	24	2.2	24	93	0	90	40	20	18	20	1.91
2203671--2203738	24	2.8	24	84	0	64	38	20	17	23	1.93
2204587--2204655	21	3.3	21	83	4	95	36	15	21	26	1.94
2204587--2204656	20	3.4	20	84	5	95	37	15	21	25	1.93
2205066--2205161	30	3.3	30	79	5	81	59	0	1	39	1.04
2210044--2210074	15	2.1	15	93	0	53	54	0	0	45	0.99
2213595--2213655	18	3.3	18	88	2	86	47	13	32	6	1.68
2214140--2214164	2	12.5	2	100	0	50	48	0	0	52	1.00
2215390--2215449	28	2.2	29	82	11	81	36	1	15	46	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2215584--2215638	18	3.4	18	65	31	52	38	0	9	52	1.33
2215666--2215705	21	1.9	21	94	0	71	30	0	12	57	1.36
2215921--2215971	15	3.3	15	73	13	50	41	0	9	49	1.36
2215885--2216011	31	4.4	29	72	21	108	41	0	11	45	1.46
2215958--2215996	11	3.5	11	80	13	53	48	0	12	38	1.42
2215955--2216003	22	2.2	22	100	0	98	46	0	14	38	1.44
2216053--2216083	8	3.9	8	95	0	53	16	0	19	64	1.29
2216929--2217152	64	3.5	64	80	4	213	32	20	19	27	1.97
2217463--2217497	12	2.9	12	100	0	70	34	0	25	40	1.56
2217642--2217674	15	2.2	15	94	0	57	15	21	33	30	1.94
2223732--2223952	64	3.5	64	81	4	218	32	20	19	27	1.97
2224287--2224359	28	2.6	29	91	4	123	41	17	21	19	1.91
2226169--2226221	21	2.5	21	93	3	88	18	11	13	56	1.66
2227006--2227154	59	2.6	58	86	7	200	47	7	4	40	1.50
2227239--2227512	26	11.0	26	78	12	213	45	9	1	43	1.45
2227278--2227368	23	3.8	23	78	8	101	42	5	2	49	1.38
2227239--2227503	49	5.3	49	75	13	213	46	9	1	43	1.44
2227313--2227496	98	1.9	96	89	4	289	47	9	1	41	1.45
2227464--2227534	8	8.0	9	73	25	62	52	12	0	35	1.40
2227486--2227544	19	3.3	18	71	22	52	50	11	0	37	1.39
2227239--2227487	11	20.4	11	69	19	129	45	9	1	43	1.45
2227443--2227524	27	3.1	26	89	8	121	52	12	0	35	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2227290--2227544	124	2.1	120	85	7	336	46	10	1	41	1.45
2228361--2228420	23	2.6	23	89	0	84	28	26	25	20	1.99
2230936--2231145	48	4.3	49	93	4	356	44	14	0	40	1.45
2234375--2234425	26	2.0	25	82	14	61	43	1	7	47	1.43
2234672--2234709	17	2.2	17	86	9	51	47	13	0	39	1.42
2235191--2235252	28	2.2	28	86	13	92	54	14	0	30	1.40
2235226--2235274	21	2.3	21	85	3	71	53	16	0	30	1.43
2235709--2235752	23	1.9	23	85	0	61	27	22	22	27	1.99
2244644--2244705	29	2.1	29	81	0	70	50	12	3	33	1.57
2257254--2257293	19	2.1	19	100	0	80	42	10	10	37	1.72
2264953--2265150	100	2.0	100	88	0	297	43	9	10	36	1.71
2265605--2265670	21	3.5	20	64	23	52	37	16	10	34	1.83
2266045--2266357	108	2.9	107	83	5	400	36	11	12	39	1.79
2267582--2267663	41	2.0	41	97	0	155	50	4	10	34	1.59
2272966--2273006	8	5.2	8	82	5	57	34	0	29	36	1.58
2273079--2274084	128	7.9	128	89	2	1587	22	25	20	31	1.98
2273079--2274084	383	2.6	383	90	2	1589	22	25	20	31	1.98
2273086--2274084	256	3.9	256	96	0	1810	22	25	20	31	1.98
2274482--2274578	32	3.0	34	80	8	121	39	3	3	54	1.32
2275094--2275187	21	4.5	21	92	5	145	20	27	34	18	1.95
2275191--2275238	21	2.3	21	85	0	60	22	12	39	25	1.89
2276977--2277020	19	2.4	19	81	7	56	54	2	0	43	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2276964--2277051	17	5.1	18	70	21	55	59	2	0	38	1.10
2276992--2277063	34	2.1	34	82	10	85	63	5	0	30	1.17
2277803--2278481	338	2.0	338	100	0	1358	24	16	19	39	1.91
2294174--2294237	29	2.5	24	73	22	65	51	4	3	40	1.38
2294324--2294374	23	2.2	24	82	3	59	43	1	3	50	1.31
2294412--2294469	23	2.5	24	86	8	84	46	1	3	48	1.29
2294449--2294482	16	2.1	16	88	0	50	50	0	0	50	1.00
2294465--2294550	11	6.8	12	73	21	61	51	1	1	46	1.16
2294449--2294550	38	2.7	39	76	13	104	50	0	0	48	1.14
2303142--2303259	55	2.1	56	82	4	141	43	12	13	30	1.81
2304500--2304539	2	20.0	2	100	0	80	50	0	0	50	1.00
2311075--2311140	20	3.3	20	65	23	57	37	15	18	28	1.91
2311055--2311148	40	2.3	40	100	0	188	37	11	21	29	1.89
2313180--2313218	19	2.2	18	86	13	55	66	0	5	28	1.12
2315311--2315345	2	17.5	2	100	0	70	51	0	0	48	1.00
2328976--2329025	2	25.5	2	95	4	93	50	0	0	50	1.00
2332420--2332467	24	2.0	25	95	4	89	41	8	12	37	1.73
2345134--2345161	12	2.3	12	100	0	56	14	7	60	17	1.55
2350905--2350957	21	2.4	23	76	20	60	58	5	1	33	1.32
2353850--2353892	11	3.8	11	75	6	50	55	4	0	39	1.20
2353917--2353962	22	2.1	22	88	8	67	45	0	0	54	0.99
2353911--2353989	30	2.5	32	83	10	99	48	1	0	50	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2354226--2354296	33	2.3	29	83	13	81	47	4	0	47	1.21
2354225--2354313	31	2.8	32	80	16	82	49	3	0	47	1.18
2354291--2354330	20	2.0	20	95	0	71	42	0	0	57	0.98
2354279--2354362	22	3.8	21	76	9	78	50	0	1	48	1.08
2354447--2354482	14	2.6	14	90	0	54	55	5	2	36	1.38
2358409--2358461	20	2.7	19	82	8	70	28	3	3	64	1.28
2358596--2358635	19	2.1	19	86	9	55	37	0	7	55	1.29
2363194--2363234	21	2.0	21	95	0	73	39	31	0	29	1.57
2363318--2363373	6	8.8	6	81	11	67	17	44	0	37	1.49
2363318--2363373	21	2.9	18	86	7	67	17	44	0	37	1.49
2363328--2363391	15	4.1	15	73	11	56	18	48	0	32	1.49
2363337--2363386	21	2.4	21	86	6	66	20	46	0	34	1.51
2368675--2368716	2	21.0	2	95	0	75	47	0	2	50	1.14
2368770--2368808	16	2.5	15	87	8	51	48	0	0	51	1.00
2369419--2369509	40	2.2	41	86	1	121	56	15	8	19	1.65
2369573--2369623	2	25.5	2	95	0	93	49	1	0	49	1.12
2372955--2373015	22	2.8	22	75	9	54	52	0	1	45	1.10
2377796--2377854	27	2.1	27	84	6	73	42	5	10	42	1.60
2399369--2399413	23	2.0	23	81	0	54	48	13	8	28	1.72
2404046--2404073	11	2.5	11	100	0	56	92	7	0	0	0.37
2407286--2407360	37	2.0	38	87	7	109	46	1	0	52	1.09
2407797--2407839	11	3.7	11	82	11	59	86	4	9	0	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2407798--2407847	24	2.1	24	88	3	75	84	4	10	2	0.84
2408750--2408799	15	3.3	15	73	15	50	28	6	0	66	1.15
2409742--2409809	18	3.5	18	73	21	57	27	5	4	61	1.38
2416576--2416848	93	2.9	93	95	1	476	29	13	21	35	1.92
2420247--2421162	76	12.0	76	96	1	1613	22	20	21	35	1.96
2421122--2421191	29	2.4	29	97	0	131	20	18	24	37	1.94
2421336--2421396	16	3.9	15	77	14	61	42	0	0	57	0.98
2421358--2421395	14	2.5	15	83	12	51	47	0	0	52	1.00
2421829--2421889	1	61.0	1	83	0	77	91	3	4	0	0.49
2421829--2421889	19	3.2	19	88	6	88	91	3	4	0	0.49

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14