genome.fa.s8539.2.7.7.80.10.50.1000.17.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   

This is table  17  of  31  ( 3630 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)
3030991--3031055	16	4.2	16	78	18	59	32	0	0	67	0.91
3031003--3031062	19	3.2	20	84	15	83	31	0	0	68	0.90
3030991--3031058	10	7.3	9	78	16	68	32	0	0	67	0.91
3030998--3031058	4	14.2	4	74	19	52	31	0	0	68	0.89
3031002--3031068	5	13.8	5	72	9	50	29	0	0	70	0.88
3030991--3031068	29	2.5	31	78	13	90	30	0	0	69	0.89
3034575--3034627	22	2.4	22	78	12	56	52	15	15	16	1.74
3045355--3045379	7	3.6	7	100	0	50	40	28	0	32	1.57
3050877--3050910	12	2.8	12	95	4	59	41	11	0	47	1.40
3052572--3052605	12	2.7	13	86	9	52	44	8	5	41	1.60
3055335--3055386	3	17.3	3	100	0	104	67	0	0	32	0.91
3055779--3055875	21	4.5	22	73	18	64	32	16	12	38	1.86
3056328--3056393	32	2.1	30	89	10	98	19	21	13	45	1.85
3062271--3062326	23	2.4	25	77	20	66	16	17	8	57	1.64
3068806--3068834	11	2.7	11	94	5	51	27	0	0	72	0.85
3073961--3074777	36	21.9	38	83	7	842	27	18	14	38	1.91
3073961--3074756	75	10.7	75	84	7	844	27	18	15	38	1.91
3074780--3075199	94	4.3	98	82	5	478	30	11	20	37	1.87
3074779--3075199	191	2.2	196	83	3	548	31	11	19	37	1.87
3075319--3075399	37	2.2	37	91	2	128	29	19	16	34	1.94
3075355--3075527	66	2.6	65	82	3	204	27	23	13	35	1.93
3075478--3075565	36	2.4	36	90	0	140	26	25	14	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3075545--3075732	73	2.5	74	87	6	263	29	21	13	35	1.91
3075509--3075712	36	5.5	37	71	6	128	27	22	15	35	1.94
3076012--3076458	136	3.3	136	82	2	524	36	17	19	26	1.94
3076513--3076625	40	2.8	40	85	6	138	28	25	17	28	1.98
3076913--3076949	18	2.1	18	100	0	74	21	45	5	27	1.73
3082830--3082856	12	2.2	12	100	0	54	7	0	14	77	0.97
3082839--3082880	18	2.3	19	83	4	59	11	2	7	78	1.04
3082899--3082937	9	4.4	9	83	3	53	76	0	12	10	1.01
3085917--3085961	23	2.0	23	86	0	63	26	20	22	31	1.98
3092207--3092310	45	2.3	47	81	6	124	39	22	19	19	1.93
3092938--3092995	23	2.5	23	88	0	89	17	25	29	27	1.97
3095299--3095323	10	2.5	10	100	0	50	52	20	8	20	1.71
3096586--3096677	46	2.0	46	86	0	130	15	13	39	32	1.85
3105450--3105484	10	3.5	10	88	0	52	60	17	2	20	1.49
3118914--3118960	2	24.0	2	84	4	60	46	2	0	51	1.13
3118916--3118959	23	1.9	23	90	0	70	47	2	0	50	1.13
3120072--3120107	2	18.0	2	100	0	72	50	0	0	50	1.00
3120105--3120135	14	2.1	15	94	5	55	22	3	6	67	1.28
3120497--3120532	12	2.8	13	87	8	56	8	0	13	77	0.98
3130231--3130370	75	1.9	76	84	4	185	56	9	22	12	1.64
3130358--3130393	11	3.4	11	88	3	56	86	2	11	0	0.68
3130936--3131241	101	3.0	102	78	11	360	35	24	18	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3132033--3132068	2	18.5	2	88	5	56	50	0	0	50	1.00
3132027--3132068	21	2.0	21	90	0	66	47	0	0	52	1.00
3132033--3132079	17	2.8	17	87	3	60	48	0	2	48	1.13
3132034--3132068	15	2.3	15	90	5	52	51	0	0	48	1.00
3133251--3133286	16	2.2	16	90	0	54	19	2	2	75	1.06
3133295--3133326	2	16.0	2	93	0	55	46	0	0	53	1.00
3134585--3134621	19	2.0	20	89	10	60	43	0	18	37	1.51
3134745--3134793	25	2.0	25	91	0	80	26	10	10	53	1.66
3135558--3135629	30	2.4	30	81	4	92	15	26	31	26	1.95
3135603--3135679	31	2.5	31	72	15	79	19	29	25	24	1.98
3137666--3137714	13	3.8	13	91	0	80	18	46	18	16	1.84
3137717--3137754	7	5.3	7	87	6	58	13	34	23	28	1.92
3137714--3137763	22	2.2	24	89	7	77	16	34	24	26	1.95
3137717--3137763	15	3.1	15	90	6	69	14	34	23	27	1.94
3139040--3139074	18	1.9	18	88	0	52	54	0	17	28	1.43
3140586--3140659	31	2.4	30	79	4	85	14	25	32	27	1.95
3142758--3142811	18	3.3	18	73	24	64	18	48	20	12	1.81
3142798--3142840	8	5.6	8	89	10	72	13	37	25	23	1.92
3142762--3142798	13	2.8	13	83	0	56	18	45	21	13	1.84
3142801--3142839	7	5.3	7	90	9	60	12	35	25	25	1.92
3142801--3142840	15	2.7	15	100	0	80	12	37	25	25	1.91
3144129--3144163	18	1.9	18	88	0	52	54	0	17	28	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3145669--3145742	31	2.4	30	79	4	85	14	25	32	27	1.95
3146568--3146606	11	3.7	10	86	10	51	43	0	2	53	1.14
3146585--3146617	11	2.8	12	86	9	50	42	0	6	51	1.26
3147818--3147853	15	2.4	15	90	0	54	22	2	2	72	1.11
3147970--3147997	10	2.8	10	100	0	56	17	0	10	71	1.14
3150014--3150099	3	25.7	3	74	17	55	38	1	3	56	1.24
3150012--3150081	7	10.0	7	74	22	67	37	1	2	58	1.22
3150012--3150081	14	5.0	14	83	14	76	37	1	2	58	1.22
3150069--3150109	19	2.3	19	88	12	61	48	0	2	48	1.14
3151493--3151535	15	3.1	14	83	6	52	44	0	4	51	1.22
3152036--3152067	11	2.9	11	95	0	55	31	0	0	68	0.90
3158602--3158691	41	2.2	41	85	0	117	24	16	21	37	1.93
3158856--3158919	20	3.2	20	68	12	58	17	20	21	40	1.91
3158849--3158947	41	2.4	41	89	0	144	24	19	21	35	1.96
3158849--3158912	21	3.1	21	71	10	69	21	20	20	37	1.94
3158565--3159221	247	2.7	248	89	1	980	29	17	16	36	1.92
3159386--3159459	3	21.7	3	75	20	58	36	1	2	59	1.20
3181924--3181963	21	1.9	21	84	0	53	20	40	27	12	1.88
3190769--3190802	16	2.0	17	88	11	52	82	11	5	0	0.83
3196991--3197192	98	2.1	99	91	2	327	34	15	16	33	1.91
3199694--3202693	250	12.0	250	84	5	3744	32	16	17	33	1.92
3200898--3200944	20	2.3	20	92	0	85	19	29	25	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3200412--3202666	521	4.5	509	83	7	2629	32	16	17	33	1.92
3201333--3201435	42	2.5	41	77	1	107	23	21	22	33	1.98
3201824--3201915	42	2.2	41	86	1	121	26	20	19	33	1.96
3202330--3202411	41	2.0	42	92	2	139	21	20	23	34	1.97
3202335--3202430	41	2.3	42	85	5	124	25	20	23	30	1.99
3202570--3202666	42	2.3	41	78	5	106	21	25	20	31	1.98
3202707--3202960	62	4.1	62	85	3	296	29	20	14	35	1.92
3202882--3203051	91	1.9	91	86	0	241	24	21	17	37	1.94
3203100--3203296	89	2.2	89	79	3	200	34	18	19	27	1.95
3203564--3203623	3	20.0	3	89	6	95	33	0	1	65	1.03
3206338--3206379	3	14.0	3	100	0	84	66	0	0	33	0.92
3206378--3206411	3	11.3	3	93	0	50	32	5	0	61	1.20
3208514--3208547	17	2.1	17	88	5	52	67	2	0	29	1.05
3209352--3209389	19	2.0	19	100	0	76	36	15	15	31	1.90
3213798--3214194	54	7.4	54	90	1	537	35	19	18	26	1.95
3215062--3215134	31	2.4	31	92	0	128	24	31	30	13	1.94
3215155--3215282	66	1.9	66	85	0	175	39	21	19	19	1.93
3217087--3217129	22	2.0	22	85	0	59	27	27	25	18	1.98
3218420--3218476	23	2.5	23	85	0	78	31	22	26	19	1.98
3220031--3220068	20	1.9	20	94	0	67	26	23	18	31	1.97
3223500--3223576	23	3.3	23	96	0	136	32	24	24	18	1.97
3226750--3226831	21	3.9	21	76	10	69	23	21	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3235814--3235958	64	2.3	64	85	8	197	17	20	8	52	1.72
3236495--3236540	4	11.8	4	80	13	51	76	2	2	19	1.00
3236483--3236541	11	5.9	10	75	15	52	76	1	1	20	0.96
3238721--3238766	5	8.3	6	88	9	55	10	0	50	39	1.38
3238721--3238766	16	2.8	17	80	12	60	10	0	50	39	1.38
3238843--3238899	27	2.1	28	86	3	80	52	0	1	45	1.11
3238862--3238899	13	2.7	15	88	12	62	55	0	0	44	0.99
3240350--3240537	103	1.8	101	85	4	261	27	17	16	38	1.91
3247340--3247587	76	3.3	75	80	6	279	31	23	13	31	1.93
3247340--3247528	74	2.5	75	83	6	224	33	25	13	27	1.93

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