genome.fa.s8053.2.7.7.80.10.50.1000.11.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   28   29   30   31   32   

This is table  11  of  32  ( 3749 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)
2210383--2210479	3	33.7	3	79	10	87	36	1	1	61	1.10
2211850--2211915	3	22.3	3	93	3	116	33	1	0	65	1.02
2212770--2212800	2	16.0	2	93	6	55	48	0	0	51	1.00
2214322--2214709	196	2.0	197	99	0	769	24	17	25	32	1.97
2225369--2225394	13	2.0	13	100	0	52	46	0	7	46	1.31
2229692--2229719	14	2.0	14	100	0	56	42	0	7	50	1.30
2230608--2230665	21	2.8	21	64	10	55	53	5	13	27	1.61
2234016--2234084	31	2.2	31	84	5	86	23	21	23	31	1.98
2235071--2235140	34	2.1	34	91	5	115	32	14	11	41	1.81
2236182--2236210	3	9.7	3	100	0	58	0	31	0	68	0.89
2237020--2237087	2	34.0	2	96	0	127	48	0	1	50	1.10
2239809--2239860	2	27.0	2	92	7	90	48	0	0	51	1.00
2242497--2242564	33	2.0	34	91	2	111	27	13	14	44	1.83
2244443--2244505	11	5.9	11	69	14	51	38	1	3	57	1.24
2244898--2245001	37	2.8	35	77	11	100	38	13	14	33	1.85
2245420--2245462	21	2.0	21	86	8	61	25	0	0	74	0.82
2245428--2245487	24	2.5	25	75	8	70	21	1	0	76	0.87
2245467--2245569	16	6.6	15	72	24	63	32	0	1	66	1.03
2245397--2245575	31	6.0	29	72	16	91	29	0	2	67	1.07
2245422--2245543	48	2.7	46	76	14	128	27	0	0	70	0.98
2245726--2245761	18	1.9	19	88	5	56	16	5	11	66	1.40
2250310--2250356	15	3.1	15	82	11	51	80	6	12	0	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2250316--2250390	8	9.7	7	73	21	53	78	8	12	1	1.01
2251166--2251286	22	5.5	22	93	0	206	38	26	13	21	1.90
2252091--2253784	106	16.0	106	90	1	2524	34	24	18	23	1.96
2254509--2254612	37	2.8	37	86	0	145	39	12	16	31	1.86
2255264--2255301	17	2.2	17	86	9	51	31	2	0	65	1.06
2255290--2255377	41	2.1	42	83	6	108	29	4	0	65	1.12
2255262--2255377	21	5.8	20	72	18	64	30	4	0	65	1.12
2259542--2260854	106	12.4	106	92	0	2105	34	24	17	22	1.96
2260823--2260889	35	1.9	35	93	0	116	31	28	25	14	1.95
2260609--2261090	247	2.0	235	85	6	635	34	24	19	21	1.96
2260714--2260987	141	1.9	141	91	1	442	34	25	18	21	1.96
2261850--2261953	37	2.8	37	86	0	145	39	12	16	31	1.86
2262640--2262695	22	2.5	22	80	13	69	30	3	0	66	1.09
2262640--2262718	23	3.4	21	77	16	59	29	3	0	67	1.08
2262661--2262730	23	3.1	21	76	21	63	25	2	0	71	1.00
2262640--2262730	45	2.0	44	81	10	105	28	4	0	67	1.10
2262671--2262728	28	2.1	27	81	9	64	27	3	0	68	1.05
2262917--2262956	19	2.2	19	86	4	55	25	7	0	67	1.16
2270744--2270862	59	2.0	60	98	1	231	40	28	6	24	1.80
2272742--2272907	76	2.2	76	87	2	244	30	2	10	56	1.46
2272865--2272927	19	3.2	19	75	4	54	31	0	12	55	1.37
2273557--2273597	21	1.9	22	90	5	66	19	4	0	75	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2279277--2279323	19	2.3	20	92	7	78	10	0	4	85	0.74
2279274--2279325	21	2.5	22	87	9	81	11	0	3	84	0.74
2279285--2279325	9	4.4	9	82	17	57	9	0	2	87	0.62
2279499--2279568	30	2.3	30	97	0	131	52	20	12	14	1.73
2280843--2281017	87	2.0	87	100	0	350	35	6	24	33	1.82
2281202--2281349	76	2.0	75	87	4	217	29	3	9	57	1.47
2282012--2282061	23	2.2	23	92	0	82	26	2	0	72	0.96
2286004--2286122	37	3.3	37	84	8	156	44	17	5	32	1.71
2286004--2286121	35	3.3	36	87	8	152	44	17	4	33	1.68
2290615--2290734	37	3.3	36	85	10	154	45	16	2	35	1.61
2291366--2291466	20	5.0	20	80	7	105	32	24	17	24	1.97
2291363--2291479	61	1.9	61	83	0	153	33	23	17	24	1.97
2291428--2291480	20	2.7	20	90	0	79	24	26	20	28	1.99
2292054--2292251	19	11.1	19	72	17	147	13	23	18	44	1.85
2292059--2292226	33	4.9	33	85	7	201	13	23	19	44	1.86
2292054--2292226	71	2.5	66	85	5	202	13	23	19	43	1.86
2294324--2294521	42	4.7	42	77	2	175	22	35	18	23	1.95
2294455--2294521	21	3.2	21	66	6	55	23	35	20	19	1.95
2294316--2294491	84	2.1	84	95	0	316	21	36	17	25	1.94
2295790--2295846	19	3.3	19	72	23	70	12	22	19	45	1.83
2298033--2298068	3	12.0	3	87	0	54	0	27	0	72	0.85
2298033--2298068	15	2.4	15	100	0	72	0	27	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2298243--2298296	24	2.2	24	90	0	81	40	20	16	22	1.91
2299077--2299125	21	2.4	21	86	3	64	40	16	22	20	1.91
2299110--2299201	20	4.6	20	73	2	76	39	21	18	20	1.93
2299417--2299501	20	4.2	20	79	5	93	38	23	22	15	1.92
2299528--2299595	19	3.9	18	83	12	81	13	20	17	48	1.80
2299532--2299605	19	4.5	16	83	16	66	13	20	18	47	1.82
2299731--2299767	14	2.6	14	86	0	56	48	21	0	29	1.50
2301616--2301683	20	3.5	19	82	6	82	38	23	23	14	1.92
2301672--2301762	14	5.9	14	70	20	65	48	20	17	13	1.81
2301656--2301767	33	3.4	33	95	1	190	47	20	18	13	1.82
2301656--2301778	65	1.9	66	88	5	187	47	21	17	13	1.82
2301774--2301891	18	6.7	18	83	10	154	12	21	21	44	1.85
2301774--2301891	36	3.3	36	89	6	172	12	21	21	44	1.85
2301876--2301919	20	2.2	20	92	4	72	20	25	18	36	1.95
2302410--2302453	18	2.5	18	85	3	63	13	15	43	27	1.85
2303744--2303802	20	3.0	20	87	0	73	42	22	18	16	1.89
2304058--2304101	22	2.0	22	90	0	70	20	15	43	20	1.88
2304269--2304403	20	6.7	20	80	7	121	24	17	24	33	1.96
2304269--2304406	61	2.3	61	85	0	195	23	17	23	34	1.96
2304269--2304424	61	2.6	61	82	2	161	23	19	23	33	1.97
2310400--2310759	179	2.0	181	98	1	706	41	18	16	23	1.90
2316611--2316650	2	20.0	2	100	0	80	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2323226--2323298	36	2.0	37	86	5	105	47	4	1	46	1.30
2323415--2323854	226	2.0	224	95	4	798	41	15	14	28	1.87
2323871--2323903	16	2.1	16	100	0	66	30	48	6	15	1.69
2333410--2333479	14	5.3	14	71	13	58	14	14	17	54	1.72
2333440--2333489	24	2.1	24	92	0	82	16	14	14	56	1.69
2333464--2333497	10	3.4	10	87	0	50	20	11	8	58	1.59
2334350--2334395	24	2.0	23	82	4	56	15	28	21	34	1.94
2336729--2336843	57	2.0	57	89	0	176	12	19	33	35	1.88
2337562--2337730	83	2.0	83	93	0	284	41	8	10	39	1.71
2339284--2339351	27	2.5	27	100	0	136	33	33	14	17	1.91
2342601--2342671	31	2.3	30	83	4	88	14	15	19	50	1.77
2344712--2344764	2	26.5	2	100	0	106	0	49	0	50	1.00
2346954--2347004	22	2.2	23	82	6	59	54	5	5	33	1.48
2347890--2348081	30	6.4	30	82	7	203	61	8	11	17	1.54
2347909--2348081	90	1.9	89	84	4	224	61	8	12	17	1.54
2349554--2349588	12	2.9	12	95	0	61	62	0	5	31	1.18
2352823--2352882	30	2.0	30	90	6	95	31	6	18	43	1.76
2352962--2353060	21	4.8	20	81	10	119	23	35	20	21	1.96
2353081--2353175	21	4.6	21	81	2	95	21	25	24	29	1.99
2353289--2353328	20	1.9	22	90	10	66	37	40	10	12	1.77
2354214--2354246	15	2.2	15	100	0	66	48	6	12	33	1.65
2354997--2355146	33	4.6	32	87	4	192	14	9	34	42	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2355132--2355172	21	2.0	21	90	4	66	4	9	53	31	1.55
2367208--2367258	17	3.0	17	97	0	93	52	27	0	19	1.46
2368459--2368492	13	2.5	14	90	4	52	32	11	0	55	1.36
2373064--2373100	20	1.9	19	89	10	58	45	10	24	18	1.81
2373248--2373316	36	1.9	36	88	5	104	47	4	0	47	1.21
2373790--2373821	3	11.0	3	93	6	57	0	31	0	68	0.90
2376429--2376749	161	2.0	163	98	1	619	31	14	18	34	1.92
2382633--2382663	15	2.1	15	100	0	62	35	12	25	25	1.92
2383484--2383935	223	2.0	222	96	3	838	40	17	11	29	1.86
2384645--2384698	27	2.0	27	96	0	99	46	14	9	29	1.76

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   28   29   30   31   32