genome.fa.s260.2.7.7.80.10.50.1000.15.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

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   

This is table  15  of  26  ( 3102 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)
2911417--2911448	16	2.0	16	100	0	64	56	25	12	6	1.59
2911524--2911577	16	3.4	16	86	0	81	59	22	9	9	1.57
2913963--2914055	41	2.4	37	81	13	98	70	1	7	20	1.17
2914008--2914055	17	2.8	17	77	3	51	75	0	4	20	0.97
2914062--2914107	21	2.2	21	84	7	58	73	2	6	17	1.14
2914153--2914195	18	2.4	18	92	0	68	72	0	6	20	1.08
2916042--2916365	86	3.8	86	90	0	504	20	23	24	31	1.98
2918847--2918895	3	16.3	3	91	8	82	32	0	0	67	0.91
2919495--2919522	10	2.8	10	100	0	56	92	0	7	0	0.37
2919344--2919659	165	1.9	165	98	0	605	42	10	22	24	1.85
2924059--2924104	21	2.2	21	96	0	83	39	13	26	21	1.90
2924186--2924336	72	2.1	72	92	0	248	37	13	25	23	1.91
2929097--2929362	42	6.3	42	92	0	406	22	21	21	34	1.97
2929369--2929625	37	6.8	37	76	7	194	37	21	19	20	1.94
2929321--2929622	153	2.0	153	87	0	442	35	22	20	22	1.96
2929627--2930210	111	5.3	111	88	2	840	30	23	17	28	1.97
2929627--2930194	220	2.6	221	88	2	892	30	24	16	29	1.96
2930121--2930258	64	2.2	64	89	0	204	28	26	18	27	1.98
2929902--2930476	284	2.0	282	91	1	936	30	23	16	29	1.96
2930010--2930367	175	2.1	175	89	2	551	30	24	17	28	1.97
2929792--2930604	393	2.1	392	94	0	1412	30	23	17	28	1.97
2930185--2930664	109	4.4	110	93	1	793	29	23	17	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2930185--2930664	220	2.2	220	92	1	793	29	23	17	28	1.97
2930878--2930926	3	16.3	3	91	8	82	32	0	0	67	0.91
2931296--2931348	26	2.0	26	100	0	106	50	26	7	15	1.70
2931554--2931579	9	2.9	9	100	0	52	92	0	7	0	0.39
2931401--2931718	165	1.9	166	96	1	586	41	11	23	24	1.86
2937310--2937343	15	2.1	17	89	10	54	32	5	0	61	1.20
2942445--2942476	16	1.9	17	93	6	57	62	0	0	37	0.95
2953360--2953480	17	7.1	17	82	0	125	39	13	8	38	1.74
2953360--2953480	34	3.6	34	85	0	143	39	13	8	38	1.74
2953343--2953480	51	2.7	51	85	1	168	38	13	10	38	1.78
2959828--2959853	2	13.0	2	100	0	52	50	0	0	50	1.00
2960481--2961068	54	11.0	53	86	4	752	26	17	20	35	1.94
2960491--2961063	266	2.1	266	88	2	835	26	17	19	35	1.94
2961099--2961266	84	2.0	84	98	0	327	35	22	10	32	1.88
2966543--2967168	54	11.6	54	85	1	790	26	17	20	35	1.94
2973552--2974216	38	18.1	38	72	9	387	33	16	12	37	1.87
2973523--2974167	111	5.8	112	77	8	552	32	16	12	38	1.86
2973547--2973871	106	3.0	106	85	7	465	32	17	14	35	1.90
2973592--2974298	74	9.6	74	80	6	593	33	16	11	38	1.85
2973653--2974298	149	4.3	147	79	6	509	33	16	11	38	1.85
2973519--2974297	38	21.2	36	70	11	233	33	16	11	38	1.85
2973593--2974298	73	9.6	73	80	7	569	33	16	11	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2974488--2974581	42	2.3	41	85	5	118	24	22	22	30	1.99
2977335--2977374	21	1.9	22	90	10	66	12	10	40	37	1.77
2977487--2977586	34	2.9	34	93	0	164	17	22	39	22	1.93
2977485--2977545	19	3.4	19	66	25	60	14	19	44	21	1.86
2977801--2977868	19	3.5	19	78	11	75	48	7	11	32	1.67
2983046--2983082	18	2.0	19	89	5	58	48	2	0	48	1.15
2983125--2983190	26	2.5	26	95	2	114	28	9	9	53	1.63
2992279--2992521	121	2.0	122	99	0	479	32	20	23	23	1.98
2993210--2993410	99	2.0	100	97	2	379	34	18	10	35	1.86
2996094--2996190	11	8.7	11	76	6	97	51	43	2	3	1.29
2996094--2996189	33	2.9	33	84	1	111	52	42	2	3	1.29
2997370--2997457	12	7.4	12	86	11	128	50	42	1	6	1.36
2997361--2997457	23	4.1	23	88	5	140	50	41	1	7	1.37
2997453--2997507	24	2.3	24	83	0	65	32	41	20	5	1.75
2998025--2998343	109	2.9	108	85	5	396	20	16	14	48	1.80
2999847--2999889	22	1.9	22	81	13	52	72	2	11	13	1.22
3000974--3001010	18	2.0	19	89	5	58	48	2	0	48	1.15
3007635--3007672	20	1.9	20	88	0	58	13	26	34	26	1.93
3011470--3011509	21	1.9	21	85	10	55	35	10	2	52	1.48
3024245--3024281	19	1.9	19	88	0	56	35	18	29	16	1.93
3028046--3028166	11	10.4	12	77	11	119	49	42	2	5	1.40
3028738--3029058	108	3.0	108	83	5	391	22	16	11	49	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3037431--3037468	14	2.8	14	80	4	51	18	21	7	52	1.70
3040937--3041015	11	6.7	11	72	22	54	79	1	13	5	0.95
3042062--3042385	135	2.4	132	79	7	334	37	15	19	27	1.92
3042535--3042631	11	8.3	11	79	14	97	50	42	2	5	1.36
3043634--3043862	109	2.1	109	80	3	264	20	13	15	51	1.76
3046075--3046818	182	4.1	182	88	1	1023	42	13	16	27	1.86
3046784--3047282	200	2.5	198	85	4	677	39	13	15	31	1.86
3048424--3048460	18	2.0	19	89	5	58	48	2	0	48	1.15
3050393--3050440	21	2.3	21	89	7	71	81	0	4	14	0.84
3052348--3053691	712	1.9	712	88	3	2035	40	15	11	32	1.82
3054519--3054555	18	2.0	19	89	5	58	48	2	0	48	1.15
3056558--3056599	21	2.0	21	86	9	59	42	0	2	54	1.13
3057837--3057980	45	3.5	44	71	21	139	27	25	11	36	1.90
3057871--3058052	34	5.2	34	73	20	169	27	24	11	36	1.90
3057826--3058017	79	2.4	79	92	1	305	26	23	12	37	1.91
3057951--3058042	28	3.1	28	81	15	121	29	26	11	32	1.92
3058457--3058495	20	2.0	20	100	0	78	20	35	30	12	1.90
3058459--3058517	20	2.8	20	84	5	64	18	40	27	13	1.88
3063879--3063936	20	2.7	21	82	12	57	25	27	25	20	1.99
3065681--3065715	18	2.1	17	89	10	54	34	0	42	22	1.54
3065907--3065944	19	2.0	19	94	0	67	55	21	0	23	1.44
3067222--3067278	21	2.8	22	79	10	68	28	21	15	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3067303--3067353	20	2.5	21	87	6	70	19	33	13	33	1.91
3073484--3073706	45	5.5	44	68	25	175	27	25	11	35	1.90
3073529--3073661	34	3.6	34	73	20	131	29	23	10	36	1.88
3073475--3073716	79	3.1	79	93	0	412	26	23	11	38	1.89
3077537--3077649	53	2.1	53	83	1	136	31	19	15	33	1.93
3081782--3081828	23	2.0	23	87	0	67	65	0	2	31	1.04
3082211--3082271	23	2.9	22	85	9	83	18	39	19	22	1.92
3082973--3083013	3	13.7	3	85	10	57	63	0	0	36	0.95
3083171--3083466	45	6.6	45	95	0	520	34	19	23	22	1.97
3083291--3083362	20	3.3	20	66	23	56	31	19	29	19	1.96
3083171--3083582	135	3.2	134	87	5	535	33	20	23	22	1.97
3083484--3083587	45	2.3	45	84	0	136	32	20	22	25	1.97
3083363--3083640	121	2.3	121	94	0	493	33	21	21	23	1.97
3084286--3084349	22	2.9	22	92	0	101	31	14	18	35	1.91
3089275--3089369	7	13.4	7	71	15	63	57	11	13	16	1.64
3089307--3089379	22	3.4	21	71	16	60	56	9	15	19	1.66
3091645--3091703	20	2.9	20	75	12	57	61	3	10	25	1.44
3093369--3093413	23	2.0	23	86	0	63	20	35	20	24	1.96
3094150--3094205	3	18.7	3	81	7	69	60	0	0	39	0.97
3094452--3094515	12	5.5	11	75	7	56	50	40	1	7	1.41
3094453--3094515	24	2.7	22	83	11	65	50	39	1	7	1.41
3103975--3104016	13	3.1	14	80	10	52	19	28	7	45	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3108396--3108825	137	3.2	136	83	2	533	36	17	20	26	1.94
3108974--3109059	11	7.5	11	71	11	57	50	38	2	9	1.48
3110502--3110550	20	2.5	20	86	6	64	18	0	8	73	1.07
3110517--3110558	20	2.2	20	87	8	61	19	0	11	69	1.19
3112690--3112724	18	1.9	18	94	0	61	37	14	17	31	1.89
3116243--3116272	5	6.0	5	92	0	51	3	20	56	20	1.56
3117818--3117844	14	1.9	14	100	0	54	59	0	3	37	1.15
3120010--3120061	26	2.0	26	88	7	79	13	15	30	40	1.86
3120306--3121509	134	8.9	135	84	3	1437	31	19	18	29	1.96
3122232--3122423	38	4.8	38	78	5	168	34	17	20	27	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