genome.fa.s8180.2.7.7.80.10.50.1000.13.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: VEPZ01008180.1 Hibiscus syriacus cultivar Beakdansim tig00110777_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2670214

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

This is table  13  of  14  ( 1585 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)
2281302--2281328	13	2.1	13	100	0	54	22	25	14	37	1.93
2284837--2284982	78	1.9	78	81	5	179	43	10	8	36	1.70
2290830--2290873	23	1.9	23	95	0	79	40	9	11	38	1.73
2293273--2293332	23	2.6	23	94	0	102	20	28	28	23	1.99
2296566--2296624	22	2.7	22	91	0	100	32	22	27	18	1.97
2297702--2297916	115	1.9	115	89	0	331	39	16	8	35	1.80
2300387--2300475	44	2.0	45	88	6	135	34	0	5	59	1.21
2309703--2309740	17	2.3	17	86	4	51	47	2	2	47	1.30
2309703--2309746	16	2.6	17	82	3	54	45	2	2	50	1.27
2309911--2310387	139	3.6	125	82	9	483	36	10	10	42	1.74
2310019--2310076	29	2.0	30	93	3	100	32	3	15	48	1.62
2310021--2310084	29	2.2	29	88	2	92	34	4	12	48	1.62
2310020--2310387	139	2.7	138	87	3	535	37	10	10	42	1.73
2310145--2310208	29	2.2	28	91	2	101	39	9	7	43	1.66
2310298--2310359	29	2.1	30	84	3	81	35	4	9	50	1.57
2311191--2311249	30	2.0	29	86	3	82	27	8	27	37	1.85
2311193--2311258	29	2.2	30	83	2	80	28	9	24	37	1.86
2312737--2312787	19	2.8	18	77	8	59	49	3	0	47	1.20
2313286--2313336	25	2.0	25	85	7	68	39	17	11	31	1.86
2317545--2317580	17	2.1	18	89	5	56	69	5	2	22	1.22
2317652--2317677	6	4.3	6	100	0	52	0	19	15	65	1.27
2322285--2322924	320	2.0	320	99	0	1262	30	21	13	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2329198--2329260	32	2.0	32	81	12	76	50	1	3	44	1.27
2329309--2329339	15	2.1	15	93	0	53	45	0	0	54	0.99
2331369--2331396	14	2.0	14	100	0	56	21	7	7	64	1.43
2338187--2338221	16	2.4	14	90	9	52	62	14	8	14	1.53
2338284--2338344	16	3.8	16	93	0	104	57	19	11	11	1.64
2339252--2339326	24	3.1	24	84	0	96	57	21	9	12	1.62
2341313--2341359	21	2.2	21	88	0	67	14	10	12	61	1.56
2343046--2343102	20	2.6	21	83	13	71	29	26	22	21	1.99
2343066--2343103	20	1.9	20	100	0	76	31	26	23	18	1.97
2343181--2343206	2	13.0	2	100	0	52	50	0	0	50	1.00
2349789--2349819	15	2.1	15	93	0	53	29	19	29	22	1.98
2351501--2351541	18	2.3	18	87	4	57	65	0	7	26	1.18
2358694--2358729	2	17.5	2	94	5	63	50	0	2	47	1.15
2360455--2360488	18	1.9	18	88	5	52	61	2	5	29	1.34
2377747--2377799	2	26.5	2	100	0	106	49	0	0	50	1.00
2382261--2382299	18	2.0	20	85	9	55	56	7	2	33	1.41
2382304--2382354	23	2.2	24	82	10	70	54	0	0	45	0.99
2382537--2382637	32	3.2	32	64	16	82	40	3	6	48	1.49
2387406--2387453	2	24.5	2	91	4	80	47	0	2	50	1.12
2388517--2388555	5	8.2	5	83	11	55	17	0	2	79	0.84
2388519--2388555	14	2.7	13	91	8	56	16	0	2	81	0.81
2388520--2388559	9	4.4	9	84	9	55	17	0	2	80	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2388517--2388555	19	2.1	19	95	0	69	17	0	2	79	0.84
2388626--2388701	23	3.1	22	74	17	62	18	5	1	75	1.07
2388628--2388702	31	2.6	28	74	15	71	17	5	1	76	1.05
2388904--2388936	2	16.5	2	100	0	66	51	48	0	0	1.00
2388936--2388963	2	14.0	2	100	0	56	50	0	0	50	1.00
2390361--2390520	65	2.5	63	86	6	214	30	24	19	26	1.98
2397863--2397906	21	2.1	21	82	0	52	9	34	15	40	1.79
2398944--2399085	65	2.2	64	87	6	198	30	23	19	26	1.98
2402814--2402916	47	2.2	47	94	1	181	33	18	9	38	1.83
2418680--2418911	31	7.6	31	79	8	235	47	7	4	40	1.51
2418669--2418818	45	3.3	45	72	7	124	46	6	4	42	1.48
2418673--2418888	14	14.4	14	66	22	84	47	7	4	40	1.52
2418711--2418887	62	2.9	62	93	4	290	46	8	5	39	1.56
2418680--2418911	62	3.8	61	83	11	278	47	7	4	40	1.51
2421712--2421818	44	2.4	44	92	0	178	42	21	10	25	1.84
2422237--2422272	17	2.0	19	89	10	58	5	11	11	72	1.28
2422538--2422614	40	2.0	38	89	5	118	28	27	18	25	1.98
2427398--2427444	22	2.1	22	92	0	76	44	8	12	34	1.73
2430697--2430755	22	2.5	23	81	18	68	20	6	1	71	1.18
2430988--2431043	25	2.2	25	100	0	112	25	10	10	53	1.67
2442130--2442902	105	7.4	105	97	0	1431	33	25	18	22	1.97
2447154--2447212	23	2.5	23	97	2	109	44	16	35	3	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2453672--2453777	44	2.4	44	83	0	131	33	28	12	26	1.92
2453663--2453798	44	3.1	44	80	3	114	29	25	14	30	1.95
2453848--2453885	18	2.1	18	100	0	76	34	39	10	15	1.82
2456817--2456920	40	2.7	38	79	10	113	44	18	4	32	1.71
2466216--2466259	23	1.9	23	85	0	61	25	20	13	40	1.89
2468359--2468453	44	2.2	44	100	0	190	40	22	12	25	1.89
2472748--2472856	35	3.0	36	86	5	157	44	19	5	31	1.73
2477374--2477476	35	2.9	36	86	4	145	40	19	4	34	1.73
2480538--2480576	19	2.1	19	90	4	62	48	0	0	51	1.00
2485210--2485296	2	44.5	2	93	4	151	49	0	1	49	1.08
2486142--2486193	24	2.2	24	82	0	59	48	21	11	19	1.80
2486158--2486242	12	7.0	13	66	15	65	37	22	18	21	1.94
2486158--2486245	24	3.7	24	89	8	135	37	21	18	22	1.94
2486158--2486255	24	4.1	25	85	7	116	39	19	17	23	1.92
2491487--2491536	24	2.1	24	88	0	73	44	20	12	24	1.85
2508167--2508214	24	2.0	24	95	0	87	20	16	14	47	1.82
2514920--2514954	14	2.5	14	90	0	52	34	14	11	40	1.82
2515109--2515178	31	2.2	29	77	20	70	47	0	4	48	1.21
2515207--2515257	23	2.2	23	82	0	57	49	1	0	49	1.12
2515245--2515325	19	4.3	19	72	20	64	48	1	2	48	1.23
2515391--2515439	18	2.7	19	84	9	66	44	0	2	53	1.12
2515389--2515439	23	2.2	23	86	6	68	47	0	1	50	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2515424--2515472	22	2.2	22	88	0	71	46	0	2	51	1.12
2516947--2516995	23	2.1	24	81	11	57	46	4	4	44	1.41
2517694--2517720	12	2.2	12	100	0	54	55	0	0	44	0.99
2517704--2517748	23	1.9	24	82	13	58	60	2	2	35	1.22
2518746--2518800	13	3.4	17	76	21	64	34	25	3	36	1.74
2536501--2536870	185	2.0	185	97	0	695	32	12	14	40	1.84
2537716--2537757	13	3.2	13	81	18	50	66	0	16	16	1.25
2537743--2537813	29	2.3	31	77	15	76	70	1	11	16	1.23
2537754--2537809	17	3.2	17	79	18	62	71	1	8	17	1.21
2537796--2537913	4	27.5	4	75	16	78	71	0	5	22	1.13
2537897--2537954	19	2.8	20	78	21	66	65	0	5	29	1.14
2538201--2538304	38	2.8	38	77	16	119	72	0	5	21	1.12
2540117--2541077	80	11.8	81	83	6	1036	27	18	21	32	1.96
2540056--2541077	164	6.3	165	82	5	1159	27	18	20	33	1.96
2540162--2541059	244	3.7	244	85	4	1163	27	18	21	33	1.96
2542169--2542429	95	2.7	95	85	5	332	31	19	18	31	1.96
2547928--2548049	63	1.9	63	83	3	154	36	23	20	18	1.95
2553031--2553118	44	2.0	45	82	8	108	68	2	13	15	1.31
2553092--2553139	15	3.0	16	81	9	62	72	2	8	16	1.18
2553141--2553193	22	2.4	22	84	6	63	67	3	5	22	1.28
2553165--2553260	9	10.3	9	69	17	54	71	1	10	16	1.18
2553685--2553779	18	5.9	16	70	18	63	74	3	3	18	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2553747--2553780	11	3.0	11	91	4	50	73	0	5	20	1.04
2553689--2553777	13	6.8	13	74	15	60	74	2	3	20	1.07
2560247--2560280	6	5.7	6	100	0	68	0	0	85	14	0.60
2563712--2563790	40	2.0	40	92	0	131	27	16	16	39	1.90
2563716--2563800	40	2.1	40	86	0	116	30	16	12	40	1.86
2565968--2566055	44	2.0	44	100	0	176	38	36	9	15	1.80
2568253--2568290	18	2.1	19	95	5	69	44	10	39	5	1.61
2568672--2568698	3	9.0	3	100	0	54	66	0	33	0	0.92
2569601--2569658	24	2.5	24	91	2	91	41	15	15	27	1.87
2576262--2576430	84	2.0	84	94	0	293	29	11	24	34	1.90

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