genome.fa.s8082.2.7.7.80.10.50.1000.14.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: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6025995

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   

This is table  14  of  28  ( 3312 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)
2433702--2433735	15	2.2	16	94	5	61	55	5	0	38	1.24
2433997--2434032	17	2.1	17	100	0	72	41	41	0	16	1.48
2434340--2434393	22	2.5	22	90	3	92	22	20	51	5	1.67
2434421--2434520	29	3.4	29	87	2	121	14	34	32	20	1.92
2434543--2434573	15	2.1	15	93	0	53	29	22	16	32	1.95
2435838--2435868	14	2.1	15	94	5	55	74	0	0	25	0.82
2438007--2438080	27	2.7	27	89	0	103	32	16	21	29	1.95
2438262--2438322	31	2.0	30	90	3	95	54	22	11	11	1.68
2438911--2438957	17	2.8	17	83	3	60	36	14	10	38	1.81
2439058--2439118	31	2.0	30	81	12	72	40	16	3	39	1.65
2441910--2441948	20	2.0	20	89	0	60	33	20	25	20	1.97
2443574--2443615	18	2.3	18	84	8	50	11	19	7	61	1.52
2443909--2444019	23	4.7	24	72	10	95	31	16	23	28	1.96
2443889--2444008	47	2.6	47	80	5	111	34	15	22	27	1.95
2443909--2444010	24	4.4	22	70	23	66	32	16	21	29	1.95
2444003--2444074	24	3.0	24	76	8	74	37	19	27	15	1.92
2449241--2449298	17	3.4	17	82	2	62	36	6	17	39	1.76
2450517--2450576	27	2.2	27	93	0	102	18	23	25	33	1.97
2459937--2459980	18	2.4	18	88	0	70	18	11	15	54	1.70
2461090--2461139	25	1.9	27	88	8	77	46	4	6	44	1.47
2474584--2474625	20	2.1	20	90	0	66	35	21	9	33	1.86
2487881--2487918	4	9.5	4	83	11	51	26	0	0	73	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2487884--2487921	12	3.2	12	88	3	60	23	0	0	76	0.79
2488535--2488564	14	2.1	14	93	0	51	30	0	0	70	0.88
2501514--2501601	43	2.0	43	97	0	167	40	14	4	39	1.67
2520528--2520709	21	8.6	21	70	14	90	22	19	23	34	1.96
2520596--2520727	42	3.1	42	91	2	192	21	18	21	38	1.93
2520608--2520751	44	3.4	44	88	3	188	22	18	18	39	1.92
2520615--2520751	21	6.4	21	79	9	152	21	18	18	40	1.92
2521621--2521773	21	7.3	20	71	14	80	36	23	18	20	1.95
2521678--2521740	23	2.9	22	79	13	76	39	23	19	17	1.92
2521617--2521773	42	3.7	42	85	5	201	36	23	19	21	1.95
2521769--2521821	21	2.5	21	90	0	79	18	20	32	28	1.97
2522812--2522845	2	17.0	2	100	0	68	0	50	0	50	1.00
2537263--2537887	43	14.5	44	79	9	268	26	18	5	49	1.69
2537278--2537887	86	7.1	85	78	6	563	26	18	5	49	1.68
2537300--2537873	214	2.7	215	82	5	619	26	18	5	49	1.68
2542432--2542456	9	2.8	9	100	0	50	48	0	0	52	1.00
2543765--2543806	16	2.6	16	88	0	66	40	7	11	40	1.69
2548470--2548502	14	2.4	14	94	0	57	33	6	30	30	1.82
2549546--2549596	22	2.3	23	86	3	68	41	5	3	49	1.45
2550414--2550500	24	3.6	24	98	0	165	33	14	20	31	1.93
2550887--2550970	41	2.0	41	90	0	132	33	9	11	45	1.73
2552051--2552098	3	16.3	3	86	4	71	37	0	2	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2553160--2553196	2	19.0	2	94	5	67	48	0	0	51	1.00
2553511--2553550	2	20.0	2	100	0	80	50	0	0	50	1.00
2561005--2561147	76	1.9	74	88	2	214	27	19	20	32	1.97
2561081--2561184	45	2.3	45	93	0	172	29	21	18	30	1.97
2560987--2561500	121	4.3	121	92	1	852	27	20	19	32	1.97
2561326--2561434	45	2.4	45	85	3	137	25	22	21	30	1.99
2560987--2561500	240	2.1	242	91	0	852	27	20	19	32	1.97
2561369--2561582	76	2.9	76	88	2	319	26	20	21	31	1.98
2561526--2561629	45	2.3	47	89	5	167	27	23	22	26	1.99
2561442--2561686	119	2.0	121	91	1	395	26	20	21	31	1.98
2561245--2561686	195	2.3	197	92	2	730	26	20	20	31	1.98
2561687--2561736	20	2.5	20	96	0	91	38	32	14	16	1.88
2562006--2562056	3	17.3	3	83	4	68	35	0	1	62	1.06
2563232--2563256	13	1.9	13	100	0	50	32	8	4	56	1.47
2566954--2567001	25	2.0	23	84	8	60	35	0	12	52	1.40
2568816--2568847	3	10.7	3	100	0	64	68	0	31	0	0.90
2572995--2573033	2	19.5	2	100	0	78	48	0	0	51	1.00
2583293--2583360	27	2.5	27	82	0	91	26	19	20	33	1.96
2602448--2602515	25	2.8	25	95	2	120	29	20	41	8	1.82
2621157--2621187	2	16.0	2	93	6	55	51	0	0	48	1.00
2622785--2622927	73	2.0	73	91	2	234	32	11	11	44	1.76
2625268--2625309	2	21.0	2	90	0	57	52	2	45	0	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2628285--2628325	14	3.0	14	96	3	75	58	0	34	7	1.26
2636976--2637012	11	3.4	11	88	0	56	67	0	0	32	0.91
2642714--2642758	21	2.1	22	91	4	74	37	13	13	35	1.84
2643827--2643852	2	13.0	2	100	0	52	50	0	0	50	1.00
2645437--2645479	20	2.2	20	91	0	68	46	16	11	25	1.80
2647538--2647588	25	2.0	25	100	0	102	35	23	7	33	1.84
2649574--2649644	26	2.8	26	68	22	62	52	1	0	46	1.09
2652823--2654093	137	9.3	137	85	1	1573	23	20	22	33	1.97
2654237--2654289	23	2.3	23	90	6	81	50	0	16	32	1.46
2654471--2654901	219	2.0	219	94	0	765	45	8	7	38	1.63
2655328--2655415	42	2.1	42	80	4	97	28	20	29	21	1.98
2655348--2655435	42	2.1	42	83	8	108	26	25	28	20	1.99
2656971--2657040	22	3.2	22	76	15	65	60	2	1	35	1.21
2657442--2657554	60	1.9	60	90	3	183	22	39	24	13	1.90
2658227--2658266	12	3.3	12	89	0	53	32	0	17	50	1.47
2658625--2658677	2	26.5	2	100	0	106	49	0	0	50	1.00
2663001--2663046	24	1.9	24	90	0	74	60	4	0	34	1.16
2663053--2663104	22	2.3	22	86	6	68	48	0	7	44	1.31
2663597--2663624	2	14.0	2	100	0	56	50	0	0	50	1.00
2670177--2670217	15	2.7	15	96	0	73	41	19	7	31	1.79
2680948--2680993	18	2.6	18	92	0	74	26	6	13	54	1.62
2682388--2682427	14	2.9	14	88	3	64	40	17	22	20	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2682388--2682423	13	2.7	13	91	4	54	38	13	25	22	1.91
2684785--2684817	14	2.4	14	94	0	57	57	0	3	39	1.14
2690212--2690258	17	2.7	18	74	12	53	65	0	4	29	1.11
2690435--2690504	30	2.4	29	81	9	81	35	4	0	60	1.17
2690524--2690548	10	2.5	10	100	0	50	36	0	0	64	0.94
2695111--2695305	94	2.1	94	98	0	372	27	8	26	37	1.85
2696190--2696229	20	2.0	20	100	0	80	50	15	15	20	1.79
2698581--2698657	40	1.9	40	89	0	118	19	9	18	53	1.71
2702239--2702265	4	6.8	4	100	0	54	25	0	0	74	0.83
2704012--2704070	8	7.9	7	80	17	66	79	1	15	3	0.94
2704870--2705029	43	3.8	41	84	5	160	31	27	15	25	1.96
2705858--2705957	12	8.5	12	68	27	72	43	4	1	52	1.27
2705874--2705980	50	2.1	50	100	0	214	39	5	1	53	1.35
2706998--2707035	19	2.0	19	89	0	58	31	18	2	47	1.62
2707103--2707185	45	1.9	45	83	13	113	25	4	0	69	1.07
2707150--2707239	3	31.7	3	69	24	54	28	3	0	67	1.06
2707132--2707246	52	2.1	55	83	12	150	26	3	0	69	1.04
2707134--2707236	20	5.1	20	72	18	79	28	3	0	67	1.08
2707202--2707251	25	2.1	25	88	7	77	22	0	0	78	0.76
2707349--2707436	9	9.9	9	76	16	78	20	2	2	75	1.03
2707349--2707415	4	15.8	4	86	10	89	22	1	0	76	0.87
2707349--2707436	13	6.6	13	85	7	99	20	2	2	75	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2707349--2707415	17	3.9	18	86	9	104	22	1	0	76	0.87
2707878--2707916	20	2.0	20	85	10	53	20	10	2	66	1.33
2712240--2712270	13	2.4	13	94	0	53	32	19	6	41	1.77
2726590--2726640	7	7.4	7	95	4	95	25	29	29	15	1.96
2726637--2726669	5	6.8	5	93	6	59	0	21	57	21	1.41
2726637--2726669	14	2.3	15	94	5	59	0	21	57	21	1.41
2726636--2726666	9	3.3	9	91	8	53	0	22	58	19	1.40
2726636--2726678	19	2.3	19	87	0	59	4	25	51	18	1.66
2726668--2726746	19	4.1	19	79	11	88	31	29	22	16	1.96
2726666--2726745	9	8.3	9	73	13	61	31	28	25	15	1.95

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