genome.fa.s8428.2.7.7.80.10.50.1000.10.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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   

This is table  10  of  30  ( 3508 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)
2560831--2561853	510	2.0	510	90	0	1609	28	14	20	36	1.92
2564719--2564788	21	3.3	21	95	0	122	32	20	12	34	1.90
2566200--2566237	20	2.0	20	89	5	60	47	13	13	26	1.79
2566248--2566291	20	2.2	20	87	0	61	25	11	20	43	1.85
2569580--2569626	22	2.1	22	100	0	94	36	14	14	34	1.88
2570605--2570685	2	40.5	2	100	0	162	50	0	0	49	1.00
2571444--2571532	6	14.8	6	92	0	115	35	1	58	4	1.26
2571756--2571804	25	2.0	25	84	4	64	46	8	0	44	1.33
2573768--2573798	9	3.4	9	95	0	53	58	0	12	29	1.35
2574566--2574651	30	2.8	30	82	3	100	40	10	10	38	1.74
2575784--2575823	3	13.3	3	100	0	80	32	0	0	67	0.91
2583385--2583424	17	2.4	16	91	4	62	22	7	15	55	1.65
2583385--2583428	16	2.6	17	92	3	72	22	6	15	54	1.65
2584196--2584228	13	2.5	13	95	0	57	9	15	0	75	1.03
2590792--2590843	26	1.9	28	92	7	90	48	9	5	36	1.60
2590818--2590853	19	1.9	19	94	5	65	52	8	5	33	1.55
2590848--2590939	39	2.3	40	77	5	107	47	0	15	36	1.45
2591729--2591776	13	3.6	13	83	10	62	0	64	0	35	0.94
2592143--2592197	22	2.5	22	100	0	110	50	16	7	25	1.70
2596152--2596227	29	2.6	29	82	0	80	39	22	17	21	1.92
2621623--2621892	54	5.0	54	88	1	380	28	18	21	31	1.97
2628733--2628795	25	2.5	25	82	5	74	57	9	6	26	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2629249--2629318	29	2.4	29	80	4	88	40	20	14	25	1.90
2629302--2629345	24	1.9	24	86	9	65	47	20	9	22	1.78
2632567--2632609	19	2.3	19	100	0	86	32	27	20	18	1.96
2639098--2639187	32	2.8	32	84	3	108	52	8	18	20	1.72
2642867--2642984	44	2.7	44	82	12	122	23	15	4	56	1.56
2642890--2642984	42	2.2	44	88	7	142	25	14	5	54	1.61
2642975--2643006	14	2.2	15	94	5	57	25	25	15	34	1.95
2642989--2643228	42	5.6	42	76	8	209	23	17	8	50	1.74
2643017--2643228	86	2.5	86	81	3	239	23	17	7	51	1.71
2644339--2644388	17	2.9	17	75	3	55	72	6	4	18	1.22
2645211--2645271	21	3.0	22	69	30	62	36	3	0	60	1.13
2645796--2645827	3	10.7	3	100	0	64	34	0	0	65	0.93
2647406--2647481	30	2.5	30	82	0	89	26	10	10	52	1.68
2652880--2652918	16	2.4	16	91	0	60	48	25	2	23	1.63
2653450--2653525	31	2.5	31	84	0	98	32	17	13	36	1.88
2653482--2653725	66	3.7	65	79	8	233	27	22	12	37	1.90
2653774--2654026	131	1.9	133	85	4	350	27	30	16	25	1.97
2653774--2654065	131	2.2	131	82	3	343	26	31	17	25	1.97
2654270--2654295	3	8.7	3	100	0	52	34	0	0	65	0.93
2656194--2656238	13	3.5	13	81	0	54	20	42	20	17	1.90
2656171--2656217	18	2.6	18	86	0	76	23	51	17	8	1.72
2656225--2656279	8	6.5	8	83	12	58	16	32	25	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2656225--2656259	15	2.2	16	95	5	63	14	34	25	25	1.94
2656230--2656280	10	5.9	9	86	13	56	17	31	25	25	1.97
2656230--2656280	15	2.9	18	86	13	63	17	31	25	25	1.97
2657537--2657572	18	2.0	18	88	0	54	52	0	16	30	1.44
2658736--2658792	12	4.8	12	78	8	62	17	17	17	47	1.83
2658713--2658807	24	4.0	24	84	2	111	20	15	15	48	1.81
2658716--2658807	48	1.9	48	86	4	132	19	16	15	48	1.81
2660940--2660996	18	3.2	18	92	0	96	19	49	19	12	1.79
2663483--2663539	12	4.8	12	78	8	62	17	17	17	47	1.83
2663446--2663554	24	4.5	24	79	6	114	19	16	14	49	1.80
2663446--2663554	48	2.3	49	84	6	134	19	16	14	49	1.80
2665200--2665250	20	2.6	20	84	3	68	31	13	7	47	1.72
2666642--2666764	30	4.1	30	86	0	165	23	10	6	59	1.54
2668167--2668195	2	14.5	2	100	0	58	48	0	0	51	1.00
2668836--2669379	26	23.5	25	69	22	327	21	23	10	45	1.82
2668895--2669274	46	8.3	46	89	1	600	21	24	10	44	1.83
2668848--2669380	92	5.8	90	69	23	353	21	23	10	44	1.83
2668984--2669071	12	7.3	12	67	23	60	18	26	11	44	1.83
2668836--2669380	112	4.7	113	71	14	267	21	23	10	44	1.82
2669268--2669367	46	2.2	46	90	0	155	22	22	10	46	1.81
2668848--2669321	138	3.4	138	82	10	535	21	23	10	44	1.83
2670735--2670789	8	6.9	8	100	0	110	38	25	10	25	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2680971--2681018	20	2.4	19	76	13	51	35	4	2	58	1.29
2683135--2683183	19	2.6	19	100	0	98	28	18	10	42	1.83
2686625--2686733	42	2.6	42	89	4	139	33	24	17	24	1.96
2686636--2686733	42	2.3	42	92	3	162	33	26	17	22	1.96
2687254--2687415	42	3.9	42	95	0	288	16	19	19	45	1.86
2687575--2687640	31	2.2	31	82	17	86	48	0	0	51	1.00
2687590--2687633	22	2.0	23	86	4	63	45	0	0	54	0.99
2687582--2687751	29	5.9	31	69	27	87	45	0	1	52	1.12
2687710--2687752	22	2.0	20	86	8	59	46	0	0	53	1.00
2687754--2687798	23	2.0	23	86	0	63	53	2	2	42	1.25
2687926--2687998	21	3.5	20	80	12	76	45	0	4	50	1.20
2688026--2688068	22	2.0	20	86	8	59	46	0	0	53	1.00
2687990--2688083	28	3.2	29	77	15	97	48	0	1	50	1.07
2688182--2688252	21	3.4	21	100	0	142	45	0	0	54	0.99
2688272--2688330	22	2.7	22	81	7	66	52	0	1	45	1.10
2687704--2688346	315	2.0	309	86	8	818	49	2	1	47	1.20
2688525--2688567	21	2.0	21	81	0	50	27	18	9	44	1.80
2688502--2688546	14	3.1	15	77	6	56	31	17	6	44	1.75
2689889--2689964	36	2.1	36	85	7	100	47	1	3	47	1.29
2689950--2689988	18	2.2	18	86	4	53	46	5	5	43	1.48
2690974--2691019	5	8.8	5	83	9	56	36	2	0	60	1.09
2691887--2691920	18	1.9	18	88	5	52	44	0	2	52	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2692818--2692866	24	2.0	24	88	7	73	46	0	10	42	1.37
2692872--2693138	75	3.7	72	74	16	210	40	4	11	43	1.63
2692872--2693138	37	7.4	36	79	10	219	40	4	11	43	1.63
2693166--2693215	23	2.1	24	82	10	59	26	2	2	70	1.09
2699531--2699588	29	2.0	29	100	0	116	17	13	13	55	1.70
2699536--2699597	29	2.1	29	88	5	90	20	17	9	51	1.73
2704713--2704771	29	2.0	30	93	3	102	15	13	15	55	1.69
2705590--2705737	77	1.9	77	85	8	203	31	11	21	35	1.89
2706060--2706112	21	2.5	21	81	6	72	20	26	18	33	1.96
2706102--2706153	21	2.5	21	87	3	70	38	17	23	21	1.93
2706142--2706269	20	6.3	20	85	5	132	28	27	17	25	1.98
2706139--2706255	41	2.9	42	84	3	132	30	26	17	24	1.97
2706183--2706269	40	2.2	40	93	0	156	24	29	19	26	1.98
2706822--2706868	20	2.3	20	88	0	76	38	23	21	17	1.93
2706896--2706998	19	5.7	19	92	7	171	14	21	17	46	1.83
2708555--2708676	42	2.9	41	85	2	145	19	17	40	22	1.91
2708612--2708672	21	2.9	21	73	9	70	21	13	42	22	1.87
2709020--2709105	40	2.2	40	85	4	111	34	26	20	17	1.95
2709020--2709105	20	4.3	20	85	2	93	34	26	20	17	1.95
2709099--2709157	19	3.4	19	73	22	74	47	20	18	13	1.82
2709099--2709178	33	2.4	33	93	0	133	48	20	18	12	1.80
2709115--2709173	14	3.9	14	76	20	55	50	20	16	11	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2709107--2709189	33	2.5	33	88	3	105	49	21	18	10	1.77
2709185--2709281	19	5.6	19	71	22	97	12	19	21	46	1.83
2709207--2709265	14	3.9	14	76	20	64	10	16	23	49	1.77
2709190--2709281	33	2.8	33	98	0	175	11	18	21	47	1.80
2709266--2709320	20	2.8	19	83	8	65	16	23	23	36	1.94
2709850--2709897	18	2.7	18	93	0	87	14	12	45	27	1.81
2711217--2711275	20	3.0	20	87	0	73	44	22	18	15	1.87
2711537--2711580	22	2.0	22	95	0	79	18	15	45	20	1.85
2711767--2711880	20	5.7	20	80	6	122	22	18	27	31	1.97
2711747--2711882	41	3.3	41	79	6	159	23	17	25	33	1.96

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