genome.fa.s426.2.7.7.80.10.50.1000.12.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: VEPZ01000426.1 Hibiscus syriacus cultivar Beakdansim tig00000778_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3165331

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

This is table  12  of  15  ( 1749 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)
2577985--2578132	75	2.0	74	84	9	194	27	12	11	47	1.76
2578225--2578276	20	2.6	20	90	0	77	40	7	11	40	1.70
2578351--2578494	77	1.9	76	83	1	189	36	13	9	40	1.78
2578582--2578728	77	2.0	73	81	8	170	36	15	8	38	1.79
2583126--2583176	19	2.7	18	79	8	57	64	7	25	1	1.31
2601065--2601099	17	2.1	17	94	0	61	48	5	5	40	1.51
2603630--2603665	17	2.2	17	90	5	56	63	2	11	22	1.39
2606347--2606398	20	2.6	21	72	6	54	61	0	3	34	1.14
2606385--2606422	15	2.4	17	86	8	53	68	2	0	28	1.03
2607249--2607407	42	3.8	42	92	3	250	48	22	8	20	1.77
2607249--2607407	82	1.9	82	92	0	264	48	22	8	20	1.77
2612980--2613189	103	2.0	103	96	0	384	26	13	23	36	1.92
2613211--2613271	23	2.7	23	89	0	95	19	26	27	26	1.99
2615175--2615241	33	2.0	33	100	0	134	25	17	26	29	1.98
2615320--2615412	44	2.1	44	91	0	150	35	6	23	34	1.81
2615909--2615957	20	2.5	20	82	0	62	20	22	18	38	1.93
2622548--2622614	33	2.0	33	97	0	125	25	16	26	31	1.96
2622693--2622791	44	2.2	43	87	7	144	37	6	24	32	1.80
2624211--2624267	18	3.3	18	83	13	75	12	17	21	49	1.79
2625667--2625722	29	1.9	29	85	7	78	58	3	1	35	1.26
2625655--2625732	29	2.6	29	71	17	70	55	2	1	41	1.22
2626306--2626345	21	1.9	21	89	0	62	42	15	12	30	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2627439--2627496	19	3.0	20	76	5	73	44	1	0	53	1.10
2627439--2627488	20	2.6	19	83	3	55	42	0	0	58	0.98
2632309--2632390	21	3.8	21	73	12	67	50	0	1	48	1.08
2632297--2632383	47	1.9	46	90	6	142	50	0	2	47	1.13
2635632--2635700	34	2.0	35	85	2	95	33	13	11	42	1.80
2637129--2637177	24	2.1	24	88	3	73	12	16	20	51	1.76
2638339--2638379	20	2.0	20	86	9	57	36	0	0	63	0.95
2641982--2642026	21	2.1	21	88	8	65	55	0	6	37	1.26
2642474--2642498	7	3.6	7	100	0	50	88	0	0	12	0.53
2644315--2644366	20	2.6	20	93	6	88	30	5	21	42	1.76
2646825--2646866	20	2.1	20	86	0	57	33	14	23	28	1.94
2648118--2648441	160	2.0	160	91	2	526	39	9	21	29	1.84
2658721--2658769	23	2.1	24	84	3	64	34	12	20	32	1.90
2659246--2659318	23	3.2	23	90	0	110	38	20	5	35	1.76
2659736--2659808	23	3.2	23	90	0	110	39	20	4	35	1.72
2658843--2661128	490	4.7	489	95	0	4051	40	10	7	42	1.67
2660226--2660290	23	2.8	23	90	0	103	40	20	4	35	1.73
2660712--2660784	23	3.2	23	90	0	110	38	20	5	35	1.76
2661130--2661219	25	3.6	25	100	0	180	36	13	11	38	1.80
2661700--2662437	368	2.0	368	99	0	1449	34	16	21	27	1.95
2662459--2663757	183	7.1	183	96	1	2355	33	17	14	34	1.90
2664969--2665025	3	19.0	3	85	0	78	26	33	3	36	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2664973--2665042	12	5.8	12	91	0	86	22	32	5	38	1.78
2666519--2667445	200	4.6	200	96	0	1703	30	18	14	36	1.91
2669384--2669446	33	1.9	33	90	0	99	22	49	0	28	1.50
2669483--2669547	21	3.1	21	93	0	103	16	30	10	41	1.83
2671773--2671815	20	2.3	18	85	14	61	20	16	11	51	1.75
2671778--2671824	20	2.4	19	82	10	67	19	17	10	53	1.72
2671959--2672005	20	2.3	20	86	10	69	17	14	10	57	1.65
2671745--2672217	181	2.6	182	89	0	705	27	16	13	42	1.86
2674456--2674493	20	1.9	20	100	0	76	36	10	28	23	1.88
2678757--2678820	32	2.0	32	96	0	119	42	20	3	34	1.68
2680580--2680632	21	2.5	21	78	6	63	20	24	18	35	1.95
2680622--2680673	21	2.5	21	81	3	61	38	19	25	17	1.93
2680659--2680756	41	2.4	41	87	0	133	39	23	16	20	1.91
2680661--2680756	20	4.7	21	71	12	74	38	23	16	20	1.93
2680925--2680973	22	2.3	21	89	6	73	20	40	14	24	1.89
2681215--2681272	20	2.9	20	89	0	80	15	15	22	46	1.83
2683142--2683222	20	4.1	20	88	0	72	34	25	18	20	1.96
2683168--2683240	20	3.7	20	92	0	119	35	24	24	15	1.94
2683227--2683281	19	3.2	19	73	24	66	47	16	18	18	1.83
2683168--2683254	40	2.2	40	87	2	122	36	24	24	14	1.93
2683227--2683306	33	2.4	33	89	0	124	48	20	17	13	1.80
2683313--2683409	19	5.6	19	69	22	88	14	18	19	47	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2683318--2683409	33	2.8	33	89	0	148	14	17	19	48	1.80
2683396--2683448	20	2.7	20	90	0	79	15	20	24	39	1.91
2683787--2683854	21	3.3	20	74	8	66	25	39	16	19	1.91
2683777--2683866	42	2.2	42	88	4	139	22	41	15	21	1.90
2683780--2683866	40	2.1	40	89	4	129	22	41	14	20	1.89
2685256--2685294	14	2.8	14	84	0	51	35	0	17	46	1.49
2685498--2685553	20	2.8	20	94	0	94	14	21	23	41	1.89
2687166--2687190	12	2.1	12	100	0	50	0	28	0	72	0.86
2688091--2688217	20	6.3	20	89	0	173	26	18	28	26	1.98
2688248--2688300	21	2.5	20	79	8	70	33	18	26	20	1.96
2688764--2688818	19	2.8	19	83	2	65	38	21	21	18	1.94
2688725--2688818	20	4.7	20	71	13	68	35	23	20	21	1.96
2688771--2688854	19	4.6	19	71	15	61	41	21	25	11	1.87
2688851--2688936	19	4.8	19	80	13	103	11	18	22	47	1.80
2688880--2688936	19	3.0	19	97	0	105	12	21	19	47	1.81
2688891--2688953	19	3.3	19	88	0	54	15	19	17	47	1.83
2688880--2688953	38	1.9	38	86	0	103	14	18	18	47	1.83
2690472--2690551	42	1.9	42	84	0	106	22	17	38	21	1.93
2690923--2690992	20	3.5	20	69	11	54	42	18	21	17	1.89
2690932--2690976	20	2.3	20	80	3	56	42	20	20	17	1.90
2690960--2691005	19	2.4	19	81	0	65	47	19	17	15	1.82
2690976--2691058	33	2.5	33	92	0	130	49	19	16	14	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2690969--2691037	19	3.9	19	72	18	76	49	17	17	15	1.80
2690995--2691053	14	3.9	14	76	20	55	49	22	15	13	1.79
2690976--2691069	33	2.8	33	88	3	109	48	21	15	13	1.80
2691065--2691167	19	5.6	19	78	12	108	14	20	20	44	1.86
2691141--2691184	20	2.2	20	91	0	70	15	22	22	38	1.92
2691174--2691212	20	2.0	20	89	0	60	28	12	25	33	1.93
2693583--2693657	21	3.6	21	75	10	82	20	17	24	38	1.93
2693603--2693669	20	3.3	20	76	12	73	19	19	25	35	1.95
2693583--2693680	41	2.4	41	89	0	151	20	16	23	39	1.91
2693583--2693698	41	2.8	41	84	2	99	21	18	22	37	1.94
2693707--2693759	21	2.5	22	72	6	56	35	16	24	22	1.95
2695322--2695359	19	2.0	19	89	0	58	44	10	0	44	1.38
2696344--2696382	16	2.4	16	91	0	60	20	28	15	35	1.93
2697364--2697407	21	2.2	20	87	4	61	31	27	25	15	1.96
2698417--2698465	2	25.0	2	95	4	91	48	0	0	51	1.00
2698927--2699231	149	2.0	149	98	0	592	27	16	21	34	1.95
2699210--2699254	23	2.0	23	81	0	54	22	24	26	26	2.00
2700254--2700291	17	2.2	17	95	0	67	50	0	5	44	1.24
2703138--2703213	40	1.9	39	82	12	93	50	2	0	47	1.15
2703163--2703262	6	16.3	6	71	19	57	51	3	1	45	1.23
2703158--2703231	28	3.0	24	84	13	82	48	2	0	48	1.15
2703197--2703334	52	2.7	51	75	14	133	49	2	4	43	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2703280--2703341	14	4.4	14	74	11	54	43	1	8	46	1.42
2703458--2703527	22	3.4	22	69	26	71	40	5	5	48	1.51
2703460--2703525	20	3.3	20	68	16	64	39	6	6	48	1.53
2703462--2703529	18	3.6	18	72	14	64	39	5	5	48	1.52
2703458--2703549	40	2.3	39	96	1	166	39	6	6	47	1.55
2703480--2703553	20	3.7	19	69	15	60	36	5	8	50	1.55
2703522--2703561	20	2.0	20	85	0	53	37	10	7	45	1.66
2703547--2703620	37	2.1	36	84	5	96	39	10	9	40	1.73
2703885--2703977	15	6.0	14	73	18	51	48	1	3	47	1.25
2703941--2704005	15	4.3	15	80	5	78	52	1	4	41	1.31

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