genome.fa.s8017.2.7.7.80.10.50.1000.11.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: VEPZ01008017.1 Hibiscus syriacus cultivar Beakdansim tig00110483_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3132588

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  11  of  15  ( 1748 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)
2194300--2194331	15	2.1	15	94	0	55	50	9	9	31	1.66
2195484--2195604	16	7.5	17	75	9	94	9	12	29	47	1.73
2195484--2195563	32	2.5	32	87	4	108	10	13	31	45	1.77
2195484--2195610	48	2.6	48	82	4	132	10	12	28	48	1.73
2195512--2195609	32	3.1	31	81	7	106	9	11	27	52	1.67
2195580--2195614	16	2.2	16	89	0	52	17	11	20	51	1.75
2195711--2195742	14	2.3	14	100	0	64	43	15	12	28	1.83
2197626--2197673	23	2.1	23	96	0	87	25	25	12	37	1.91
2201201--2201996	86	9.3	86	85	1	990	35	20	18	25	1.95
2201201--2202377	171	7.0	171	84	4	1413	35	20	18	25	1.95
2201929--2202060	70	1.9	70	91	0	219	37	22	16	22	1.93
2201999--2202426	86	5.0	86	83	2	490	35	19	18	26	1.95
2203197--2203229	16	2.0	17	94	5	59	45	6	0	48	1.27
2204472--2204496	2	12.5	2	100	0	50	48	0	0	52	1.00
2204657--2204707	23	2.2	23	82	6	59	23	7	1	66	1.28
2208578--2208627	21	2.5	20	83	6	64	54	0	10	36	1.34
2219193--2219221	11	2.6	11	100	0	58	10	13	0	75	1.04
2222456--2222485	4	7.5	4	100	0	60	53	23	0	23	1.46
2223427--2223465	20	2.0	20	89	0	60	23	28	25	23	1.99
2228332--2228373	23	1.9	23	85	9	61	40	0	0	59	0.97
2229228--2229266	19	2.1	18	85	9	51	35	7	35	20	1.81
2243899--2244123	33	7.1	31	72	17	158	42	4	8	44	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2243899--2244090	66	2.9	64	78	13	194	42	2	9	45	1.50
2244067--2244126	28	2.1	28	81	6	68	45	6	6	41	1.57
2244182--2244232	5	9.8	5	80	16	59	19	3	0	76	0.94
2244182--2244232	21	2.4	22	81	15	63	19	3	0	76	0.94
2244189--2244255	26	2.5	26	85	7	82	20	5	0	73	1.04
2245422--2245501	15	5.5	15	68	18	53	22	7	0	70	1.12
2245465--2245540	16	5.0	15	69	18	50	21	3	0	75	0.97
2245437--2245533	29	3.6	27	72	16	67	22	6	0	71	1.08
2245515--2245540	13	2.0	13	100	0	52	23	0	0	76	0.78
2247657--2247708	23	2.4	22	90	9	81	48	5	34	11	1.63
2248008--2248561	281	2.0	274	92	4	934	35	18	23	23	1.96
2249862--2250486	81	7.6	84	75	8	489	30	24	20	24	1.98
2250045--2250517	165	2.9	165	84	3	596	31	23	19	26	1.98
2249881--2250429	250	2.2	245	87	1	765	30	24	20	24	1.98
2249840--2250559	165	4.3	161	77	8	554	30	23	20	25	1.99
2250933--2251065	39	3.5	36	74	12	106	45	3	6	44	1.46
2250961--2251125	37	4.5	37	80	6	165	46	3	7	43	1.47
2251140--2251230	25	3.5	25	80	8	101	42	5	7	43	1.56
2251050--2251198	67	2.3	65	73	18	152	45	3	8	42	1.50
2251158--2251239	29	3.0	29	84	7	100	42	6	7	43	1.57
2251075--2251253	90	2.0	88	80	14	197	45	4	7	42	1.52
2251334--2251380	12	3.8	12	81	13	60	17	6	0	76	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2258385--2258433	25	2.0	24	92	4	80	38	0	2	59	1.09
2259097--2259189	42	2.2	41	84	3	132	33	21	20	24	1.97
2259021--2259395	176	2.1	176	91	0	615	32	20	17	29	1.95
2259259--2259365	42	2.6	41	83	2	142	31	22	19	26	1.98
2259197--2259838	237	2.7	237	88	0	944	33	18	15	31	1.92
2261891--2261938	3	16.0	3	100	0	96	33	0	0	66	0.92
2270274--2270309	16	2.2	17	90	5	56	69	0	0	30	0.89
2274667--2274730	24	2.7	23	83	4	83	50	18	10	20	1.77
2274687--2274727	12	3.5	11	83	9	55	48	19	17	14	1.81
2274693--2274731	12	3.3	12	78	7	53	46	20	17	15	1.84
2274668--2274754	24	3.7	23	81	3	75	48	18	12	20	1.80
2277191--2277220	13	2.3	13	88	0	51	16	23	43	16	1.87
2277197--2277242	18	2.6	18	96	0	83	10	21	50	17	1.77
2279357--2279428	24	3.0	24	79	2	83	52	18	8	20	1.70
2281867--2281936	18	4.2	18	71	17	69	15	17	48	18	1.81
2281878--2281914	13	2.8	13	87	0	56	18	18	45	16	1.85
2283784--2283826	2	21.5	2	100	0	86	51	0	0	48	1.00
2284017--2284057	12	3.5	11	83	9	55	48	17	17	17	1.81
2286528--2286565	13	2.9	13	92	0	58	21	18	44	15	1.86
2291263--2291354	45	2.1	44	87	2	130	34	19	19	26	1.96
2291384--2291421	20	1.9	20	94	0	67	34	15	21	28	1.94
2292941--2293005	23	2.8	23	83	0	94	24	24	20	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2294704--2294769	34	2.0	34	94	5	118	43	3	24	28	1.69
2296357--2296479	64	1.9	63	85	1	165	35	19	19	25	1.95
2296508--2296548	3	14.0	3	80	14	50	36	0	0	63	0.95
2302878--2302935	2	29.0	2	100	0	116	50	0	0	50	1.00
2306239--2306331	35	2.5	35	79	10	105	31	15	23	30	1.95
2306397--2306559	74	2.2	74	82	5	186	33	17	20	28	1.95
2307427--2307596	54	3.1	54	93	0	286	40	16	20	22	1.91
2307960--2308014	22	2.5	22	90	0	92	34	12	14	38	1.84
2308415--2309085	112	6.0	111	90	3	945	37	13	18	29	1.90
2309490--2310502	76	13.4	76	94	2	1765	22	19	21	36	1.95
2314325--2314370	23	2.0	23	91	0	74	17	23	26	32	1.97
2324722--2324903	60	3.0	60	77	7	154	43	4	18	32	1.72
2324802--2324895	29	3.2	29	69	16	75	51	3	10	35	1.53
2330197--2330325	43	3.0	42	85	2	168	53	21	4	20	1.63
2334267--2334339	24	3.0	24	86	4	76	8	16	27	47	1.74
2334277--2334330	14	4.1	14	81	18	80	5	14	29	50	1.66
2334278--2334352	24	3.1	24	86	3	98	9	13	24	53	1.68
2335427--2335493	16	4.3	16	90	3	93	11	10	17	59	1.60
2335425--2335485	32	1.9	32	93	0	104	9	13	21	55	1.66
2335555--2335587	16	2.1	16	94	0	57	9	12	21	57	1.62
2335924--2335959	5	7.2	5	100	0	72	22	0	38	38	1.54
2336926--2336997	20	3.6	20	74	20	69	27	23	19	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2336967--2337117	20	7.4	20	75	14	130	33	23	18	24	1.97
2336967--2337117	41	3.7	41	89	2	216	33	23	18	24	1.97
2340228--2340262	18	1.9	18	94	0	61	54	25	2	17	1.57
2340320--2340602	140	2.0	140	95	0	512	27	13	16	42	1.85
2340580--2340703	20	6.5	20	75	10	116	34	22	17	25	1.96
2340581--2340683	54	1.9	54	85	0	143	35	23	16	24	1.95
2340580--2340747	74	2.3	74	79	7	200	35	22	17	24	1.95
2340875--2340982	36	3.2	36	66	22	99	50	15	3	29	1.61
2340851--2341004	63	2.4	63	91	4	236	49	17	3	29	1.62
2340982--2341018	14	2.6	14	100	0	74	48	21	0	29	1.50
2342427--2342527	42	2.4	42	72	0	103	22	19	35	21	1.96
2342426--2342523	21	4.7	20	74	8	79	21	20	35	22	1.96
2343003--2343040	20	1.9	20	100	0	76	50	23	10	15	1.75
2343033--2343081	20	2.5	20	90	6	73	32	26	22	18	1.97
2343086--2343124	19	2.0	20	90	5	62	51	20	15	12	1.76
2343125--2343162	20	1.9	20	88	0	58	13	18	21	47	1.82
2343129--2343204	33	2.3	33	86	6	100	14	18	21	46	1.84
2343197--2343241	20	2.2	20	88	0	63	17	17	26	37	1.93
2345159--2345214	20	2.8	20	83	0	76	41	23	17	17	1.90
2345241--2345286	19	2.3	21	81	11	60	10	19	21	47	1.80
2345629--2345671	22	2.0	22	95	0	77	20	16	41	20	1.90
2345855--2346021	20	8.2	20	78	11	169	23	16	27	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2345825--2345940	61	1.9	61	87	3	171	24	16	26	32	1.96
2345887--2346002	21	5.6	21	79	11	141	20	16	26	36	1.94
2345867--2346021	41	3.8	41	94	1	258	23	16	27	33	1.95
2345855--2346021	61	2.7	61	79	12	173	23	16	27	32	1.96
2349506--2349569	2	32.5	2	96	3	121	50	0	0	50	1.00
2350750--2350881	38	3.6	38	68	16	114	44	4	2	48	1.35
2350738--2350888	73	2.1	74	94	3	270	43	5	1	49	1.36
2350933--2350962	15	1.9	16	93	6	53	66	0	0	33	0.92
2352746--2352872	61	2.1	61	96	0	236	40	16	8	34	1.79
2353935--2353973	17	2.3	17	95	0	69	35	7	15	41	1.76

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15