genome.fa.s9625.2.7.7.80.10.50.1000.7.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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  7  of  25  ( 2922 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)
2330960--2331061	52	1.9	53	92	2	170	45	16	22	15	1.85
2331078--2331162	33	2.5	33	88	1	116	16	22	17	43	1.88
2331275--2331311	14	2.6	14	86	0	56	48	21	0	29	1.50
2332681--2332773	42	2.2	42	80	3	107	22	17	39	20	1.92
2333253--2333339	20	4.3	20	95	0	147	37	21	19	20	1.94
2333383--2333436	19	2.8	19	94	0	99	5	12	31	50	1.64
2333554--2333933	94	4.1	94	93	1	629	47	18	12	21	1.81
2335658--2335783	33	3.8	33	88	1	180	44	19	22	13	1.86
2335691--2335788	19	5.7	18	67	22	68	44	19	22	13	1.85
2335800--2335856	14	3.7	14	72	20	51	10	22	22	43	1.84
2335784--2335864	33	2.5	33	93	0	135	9	20	22	46	1.80
2335848--2335919	20	3.5	20	84	5	92	12	16	19	51	1.76
2336478--2336732	20	12.6	20	78	8	264	20	18	24	36	1.94
2336480--2336732	41	6.2	41	91	0	366	20	18	24	37	1.94
2336741--2336793	20	2.7	20	91	5	81	13	18	24	43	1.86
2336843--2336896	20	2.7	19	75	8	63	16	18	31	33	1.93
2343488--2343524	3	12.0	3	94	5	65	35	0	0	64	0.94
2348757--2348790	12	2.8	12	86	4	50	73	11	8	5	1.24
2350137--2350450	66	4.8	64	83	3	322	27	17	13	42	1.87
2350124--2350450	131	2.5	132	82	6	369	28	17	13	41	1.87
2350507--2350701	40	4.6	40	70	14	124	26	33	17	22	1.96
2350488--2350817	130	2.5	130	85	1	417	27	34	16	21	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2351791--2351819	7	4.1	7	100	0	58	58	0	41	0	0.98
2358134--2358199	34	1.9	34	90	0	105	50	21	19	9	1.75
2365457--2365495	21	1.9	20	84	5	51	35	15	15	33	1.89
2382607--2382646	21	1.9	21	84	0	53	20	10	17	52	1.72
2385104--2385149	21	2.1	22	84	4	58	26	4	4	65	1.30
2385154--2385243	32	2.8	32	86	0	126	38	10	1	50	1.43
2389027--2389060	13	2.6	13	95	0	59	52	0	2	44	1.16
2389821--2389864	21	2.1	21	91	0	70	45	13	18	22	1.84
2396008--2396036	13	2.3	13	94	5	51	48	0	31	20	1.50
2401053--2401102	23	2.2	22	79	10	55	56	16	20	8	1.65
2401063--2401113	23	2.2	23	92	0	84	50	15	23	9	1.73
2401951--2401985	17	2.1	17	89	5	54	51	0	0	48	1.00
2410897--2410939	13	3.0	14	86	10	52	48	0	2	48	1.14
2415910--2415947	20	1.9	20	94	0	67	21	21	15	42	1.89
2415921--2415949	14	2.1	14	100	0	58	20	20	13	44	1.85
2417265--2417355	21	4.5	20	74	21	91	80	1	17	1	0.84
2417265--2417356	30	3.1	30	80	16	111	80	1	17	1	0.83
2417266--2417363	37	2.6	35	82	7	106	79	1	17	2	0.88
2417277--2417368	38	2.4	38	83	7	114	79	1	16	3	0.92
2417264--2417368	48	2.2	48	85	10	135	79	1	16	2	0.95
2418053--2418157	53	2.0	53	90	0	165	31	14	7	46	1.72
2419221--2419322	54	1.9	53	87	2	150	28	6	14	50	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2419367--2419569	53	3.8	53	83	3	246	31	8	17	42	1.79
2419592--2420134	274	2.0	273	86	3	761	28	15	19	36	1.93
2421297--2421596	105	2.9	105	84	2	379	40	15	20	24	1.91
2424752--2424818	30	2.3	30	84	7	84	23	8	11	55	1.64
2424783--2425019	118	2.0	117	81	9	280	25	10	4	59	1.49
2424783--2425006	123	1.8	123	79	7	258	24	10	4	60	1.48
2427554--2427614	30	2.0	30	100	0	122	27	19	32	19	1.96
2429024--2429048	2	12.5	2	100	0	50	52	0	0	48	1.00
2429778--2429802	13	1.9	13	100	0	50	40	16	24	20	1.91
2431358--2431399	19	2.2	19	100	0	84	30	19	11	38	1.88
2436618--2436729	40	2.8	41	74	17	108	29	16	21	33	1.95
2437291--2437340	23	2.2	22	86	10	66	66	0	8	26	1.19
2441571--2441626	13	4.7	11	74	21	51	0	19	1	78	0.84
2441571--2441626	18	3.1	18	82	17	71	0	19	1	78	0.84
2441874--2441923	23	2.2	22	86	10	66	66	0	8	26	1.19
2456670--2456774	54	1.9	54	84	0	138	26	17	20	36	1.94
2466973--2467048	32	2.5	31	80	6	91	15	26	28	28	1.96
2475206--2475249	2	23.5	2	86	13	67	52	0	0	47	1.00
2475196--2475247	24	2.2	24	89	0	77	51	0	0	48	1.00
2475208--2475249	22	1.9	22	95	0	75	52	0	0	47	1.00
2475204--2475249	24	1.9	24	95	0	83	52	0	0	47	1.00
2477843--2477886	22	2.0	22	86	13	63	31	6	15	45	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2482517--2482576	31	1.9	31	96	0	111	35	11	26	26	1.91
2483360--2483404	22	2.0	22	87	12	65	28	8	17	44	1.79
2486383--2486417	18	1.9	18	88	0	52	25	20	22	31	1.98
2489970--2490074	50	2.1	50	90	0	165	40	14	13	31	1.84
2494457--2494526	22	3.2	22	81	0	68	44	22	12	20	1.85
2494584--2494638	20	2.8	20	82	0	65	14	18	32	34	1.91
2507560--2507789	44	5.2	44	82	0	255	29	14	23	32	1.95
2511475--2511517	21	2.0	21	95	0	77	30	34	6	27	1.83
2515812--2515841	13	2.3	13	94	0	51	20	43	20	16	1.88
2515789--2515834	23	2.0	24	86	4	67	17	45	19	17	1.85
2518586--2518707	31	3.9	31	70	10	88	21	26	25	27	1.99
2521171--2521279	42	2.6	41	82	5	121	41	21	16	21	1.90
2521278--2521363	40	2.1	41	89	4	129	34	16	12	36	1.87
2523189--2523460	83	3.3	81	75	10	235	32	20	16	30	1.95
2531511--2531889	55	6.9	55	91	0	555	33	18	18	29	1.95
2532300--2532380	20	4.0	20	81	7	92	27	29	13	29	1.94
2532314--2532388	20	3.5	22	75	10	66	28	33	10	28	1.90
2541708--2541970	55	4.8	55	88	0	366	33	20	18	28	1.96
2551605--2551652	19	2.6	18	81	12	62	27	18	27	27	1.98
2551557--2551717	64	2.5	63	79	9	177	31	19	22	26	1.98
2552054--2552402	58	6.0	59	69	14	211	36	11	22	29	1.89
2552055--2552331	117	2.4	117	85	2	378	37	10	21	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2552055--2552364	117	2.6	116	79	7	349	37	10	21	29	1.88
2552874--2552913	21	1.9	21	94	0	71	27	22	25	25	2.00
2552874--2552920	21	2.2	21	88	0	67	29	21	23	25	1.99
2552916--2552958	21	2.0	21	86	0	59	27	25	6	39	1.81
2552929--2552958	7	4.3	7	91	0	51	26	30	3	40	1.72
2561776--2561867	41	2.2	41	84	0	112	32	7	19	40	1.80
2563043--2563089	2	23.5	2	100	0	94	51	0	0	48	1.00
2569516--2569545	6	4.8	6	92	8	51	13	3	0	83	0.77
2571174--2571216	21	2.0	21	86	9	59	62	9	13	13	1.53
2575646--2575724	21	3.7	21	74	16	72	48	2	8	40	1.48
2575652--2575744	41	2.2	41	83	5	107	46	2	11	39	1.53
2581626--2581689	21	3.0	21	84	4	85	31	7	28	32	1.85
2595976--2596015	18	2.2	18	90	0	62	50	20	7	22	1.73
2611382--2611452	35	2.0	35	97	0	133	47	15	15	21	1.82
2614546--2614615	18	3.9	18	84	0	95	24	41	11	22	1.87
2616740--2616914	90	2.0	89	90	1	278	36	10	6	45	1.66
2623175--2623352	90	2.0	90	93	0	302	36	11	7	44	1.69
2637425--2637538	55	2.1	55	94	0	201	44	11	21	22	1.84
2640047--2640109	28	2.3	27	76	13	67	77	0	12	9	0.98
2640265--2640317	22	2.5	20	80	11	61	24	30	15	30	1.95
2640265--2640483	94	2.3	95	83	7	277	27	24	15	31	1.96
2641912--2641961	25	2.0	25	84	0	64	40	0	22	38	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2642316--2642369	20	2.7	20	82	5	65	33	14	31	20	1.93
2642777--2643046	54	5.0	54	85	1	364	31	19	16	32	1.94
2642777--2643023	107	2.3	108	87	1	363	30	20	16	32	1.94
2645151--2645358	104	2.0	104	100	0	416	29	11	23	35	1.90
2648581--2648637	15	3.7	15	70	9	51	24	33	26	15	1.95
2648581--2648648	32	2.1	32	86	0	91	25	32	26	16	1.96
2649221--2649261	2	20.5	2	100	0	82	51	0	0	48	1.00
2659792--2659852	6	10.2	6	89	0	95	31	0	16	52	1.44
2663329--2663408	1	80.0	1	69	0	52	85	0	13	1	0.67
2663332--2663408	18	4.4	17	78	21	88	84	0	14	1	0.69

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