genome.fa.s9624.2.7.7.80.10.50.1000.12.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   
          33   34   35   36   37   38   

This is table  12  of  38  ( 4514 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)
2246881--2246910	11	2.7	11	94	0	51	10	16	53	20	1.71
2247708--2247906	99	2.0	96	86	6	276	28	21	15	35	1.94
2248152--2248190	14	2.8	14	88	7	53	25	7	5	61	1.44
2251557--2251620	9	7.0	9	76	13	60	76	0	21	1	0.87
2251557--2251599	8	5.1	8	86	8	59	81	0	18	0	0.69
2251559--2251619	19	3.3	18	82	13	70	78	0	19	1	0.83
2251559--2251602	17	2.4	18	85	7	63	81	0	18	0	0.68
2251560--2251618	27	2.2	28	90	6	95	77	0	20	1	0.85
2251560--2251625	26	2.5	26	80	14	80	77	0	19	3	0.90
2251557--2251667	21	5.3	20	69	23	77	73	0	21	3	1.03
2253575--2253740	54	3.1	51	78	13	156	27	9	18	44	1.80
2254661--2254745	37	2.3	36	78	11	91	27	10	15	47	1.78
2255251--2255866	137	4.5	139	82	4	710	37	17	19	25	1.93
2255251--2255866	276	2.2	278	84	3	823	37	17	19	25	1.93
2256626--2256695	30	2.4	30	80	2	79	27	17	8	47	1.76
2259493--2259538	19	2.3	20	88	3	67	52	6	8	32	1.58
2263297--2263343	19	2.4	19	82	3	58	48	8	10	31	1.68
2264241--2264290	20	2.4	21	80	12	68	54	10	8	28	1.62
2270383--2270436	23	2.3	23	93	0	90	22	18	18	40	1.91
2270353--2270420	34	2.0	34	85	0	91	22	14	19	44	1.86
2270469--2270527	22	2.7	22	78	0	64	18	10	13	57	1.64
2273056--2273101	24	1.9	24	86	8	67	32	19	4	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2273065--2273101	12	3.0	13	80	11	51	32	18	5	43	1.73
2273324--2273394	22	3.2	22	95	2	124	49	22	4	23	1.67
2278526--2278564	21	1.9	20	89	5	60	35	23	15	25	1.94
2279360--2279422	31	2.1	30	91	8	101	47	11	17	23	1.79
2279369--2279437	31	2.2	31	87	5	95	46	13	17	23	1.83
2280380--2280449	30	2.4	30	74	11	72	40	7	20	32	1.79
2282211--2282322	40	2.8	40	95	0	197	28	25	24	22	1.99
2285965--2286029	31	2.1	31	94	0	112	43	7	21	27	1.80
2297072--2297112	17	2.4	17	83	0	55	31	4	36	26	1.78
2297565--2297738	86	2.0	87	84	1	224	31	19	10	38	1.86
2303576--2303616	15	2.5	17	76	19	50	14	9	7	68	1.39
2307951--2307991	15	2.5	17	76	19	50	14	9	7	68	1.39
2313999--2314046	20	2.3	21	85	7	62	54	2	0	43	1.12
2318395--2318443	2	25.5	2	83	8	66	48	0	0	51	1.00
2318734--2318766	2	16.0	2	93	6	57	48	3	0	48	1.17
2321028--2321063	3	12.3	3	94	5	65	30	0	0	69	0.89
2324544--2324649	54	2.0	54	86	3	151	17	2	31	48	1.62
2328537--2328634	47	2.1	45	90	3	151	33	18	20	27	1.96
2331670--2331694	2	12.5	2	100	0	50	52	0	0	48	1.00
2334620--2334690	36	2.0	36	85	0	97	40	22	16	19	1.91
2335106--2335792	54	12.9	54	86	4	864	33	19	25	21	1.97
2335106--2335792	160	4.3	158	87	5	843	33	19	25	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2335743--2336014	55	4.9	55	84	7	320	31	15	25	28	1.95
2340760--2340786	12	2.2	12	100	0	54	55	0	7	37	1.28
2342120--2342175	21	2.7	21	88	5	78	67	0	1	30	1.01
2342174--2342278	40	2.8	38	76	15	110	40	7	3	47	1.50
2342268--2342556	37	7.5	36	75	18	262	45	6	1	45	1.40
2342267--2342510	123	2.0	122	85	9	329	45	6	1	45	1.40
2342381--2342548	76	2.2	77	92	2	275	45	4	2	46	1.39
2342522--2342581	23	2.6	23	86	2	84	43	6	3	46	1.46
2342522--2342623	23	4.5	22	71	18	77	43	5	3	47	1.46
2343256--2343572	85	3.7	84	81	3	339	27	17	19	35	1.94
2348954--2348982	12	2.3	13	94	5	51	68	0	0	31	0.89
2349138--2349170	17	1.9	17	93	0	57	81	3	0	15	0.80
2350355--2350423	5	14.0	5	82	14	65	63	0	0	36	0.94
2350353--2350423	13	5.5	13	78	21	62	63	0	0	36	0.95
2350462--2350801	37	9.1	36	74	14	244	43	7	2	46	1.44
2350522--2350608	25	3.3	25	73	10	77	43	10	0	45	1.38
2350522--2350639	27	4.3	26	72	17	87	43	9	0	46	1.41
2350641--2350693	28	1.9	27	88	3	79	43	5	3	47	1.45
2350462--2350756	73	3.9	74	76	12	251	44	7	2	45	1.43
2350706--2350815	37	3.0	37	80	5	107	42	6	2	48	1.43
2351283--2351314	16	2.0	16	100	0	64	43	12	18	25	1.85
2354554--2354619	22	3.0	22	77	0	69	13	7	18	60	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2355251--2355303	3	17.7	3	80	7	63	26	0	0	73	0.83
2357250--2357278	15	1.9	15	100	0	58	34	3	0	62	1.12
2367698--2367879	96	2.0	93	86	6	262	46	7	11	35	1.68
2368585--2368617	17	1.9	17	88	11	50	63	0	3	33	1.10
2371835--2371885	26	2.0	26	84	7	68	35	1	1	60	1.19
2376343--2376391	2	24.5	2	100	0	98	48	0	0	51	1.00
2380659--2380701	19	2.3	19	84	8	52	25	2	6	65	1.30
2386554--2386580	13	2.1	13	100	0	54	37	22	18	22	1.95
2388688--2389047	45	8.0	45	84	2	347	30	21	9	39	1.84
2388709--2389047	90	3.8	89	81	4	385	30	21	9	38	1.86
2388689--2389047	135	2.7	135	84	4	442	30	21	9	38	1.84
2389380--2389435	22	2.7	20	84	10	76	26	28	14	30	1.95
2389474--2389525	20	2.6	20	93	0	95	26	34	13	25	1.93
2389379--2389594	92	2.3	93	80	10	246	29	25	14	31	1.95
2395443--2395783	45	7.6	45	82	4	334	29	21	9	39	1.85
2395446--2395783	90	3.8	89	79	3	374	30	21	9	39	1.85
2395446--2395783	135	2.5	134	85	2	403	30	21	9	39	1.85
2399435--2399901	59	7.9	59	88	3	674	38	11	20	28	1.88
2408871--2409275	200	2.0	202	98	1	778	29	20	19	30	1.97
2411897--2411938	21	2.0	22	90	4	68	28	0	42	28	1.56
2419484--2419519	18	2.0	18	94	0	63	27	11	13	47	1.77
2421680--2421723	2	22.0	2	100	0	88	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)
2426868--2426895	14	2.0	14	100	0	56	35	0	42	21	1.53
2428905--2428950	24	1.9	24	81	0	56	28	26	15	30	1.96
2428912--2428958	24	2.0	24	86	0	67	25	25	14	34	1.94
2430023--2430074	26	2.0	25	82	17	63	69	1	15	13	1.28
2430047--2430094	16	2.9	16	90	3	69	68	0	16	14	1.21
2430711--2430738	14	2.0	14	100	0	56	35	0	42	21	1.53
2439645--2439709	31	2.1	31	97	0	121	16	30	10	41	1.83
2439628--2439700	17	4.5	17	81	10	98	19	31	10	38	1.86
2442752--2442790	20	2.0	20	89	0	60	38	41	12	7	1.72
2446034--2446073	20	2.0	21	90	5	64	32	20	22	25	1.98
2451438--2451462	2	12.5	2	100	0	50	48	0	0	52	1.00
2453653--2453709	24	2.3	25	75	6	62	45	21	14	19	1.85
2459841--2459879	20	2.0	20	90	5	62	30	20	20	28	1.98
2459946--2459985	20	2.0	21	95	5	73	32	20	20	27	1.97
2463419--2463465	18	2.6	18	89	0	67	34	21	27	17	1.95
2465822--2465999	90	2.0	91	87	2	259	45	6	11	37	1.65
2472389--2472567	90	2.0	91	91	1	288	44	7	11	36	1.69
2473299--2473328	11	2.6	11	94	5	51	66	20	0	13	1.24
2478129--2478187	27	2.2	27	100	0	118	35	25	10	28	1.89
2484621--2484778	59	2.7	60	77	2	165	25	24	17	32	1.97
2491847--2491894	3	15.3	3	87	8	69	33	2	2	62	1.18
2498029--2498120	39	2.4	39	90	0	139	16	27	25	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2498920--2498957	20	1.9	20	88	0	58	31	23	15	28	1.96
2498981--2499018	2	19.0	2	100	0	76	50	0	0	50	1.00
2505855--2505885	12	2.6	12	94	0	53	70	9	6	12	1.31
2516362--2516465	31	3.4	31	97	0	190	29	24	3	42	1.72
2516382--2516465	18	5.2	18	61	26	53	30	23	3	41	1.71
2516676--2516734	24	2.5	24	94	0	100	42	18	18	20	1.90
2530399--2530470	24	2.9	24	89	4	108	30	18	12	38	1.87
2531205--2531258	16	3.4	16	75	10	56	35	1	5	57	1.33
2532316--2532353	17	2.3	16	86	13	51	36	2	0	60	1.11
2533320--2533386	24	2.8	24	83	0	89	29	8	7	53	1.59

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   
          33   34   35   36   37   38