genome.fa.s7849.2.7.7.80.10.50.1000.11.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: VEPZ01007849.1 Hibiscus syriacus cultivar Beakdansim tig00110206_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3141433

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

This is table  11  of  12  ( 1357 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)
2815279--2815319	19	2.2	19	86	8	57	68	2	2	26	1.15
2815290--2815333	3	14.7	3	82	17	56	65	2	2	29	1.16
2829837--2829902	33	2.0	34	96	3	125	22	13	24	39	1.90
2837560--2837611	21	2.5	21	96	0	95	40	3	23	32	1.72
2837581--2838640	558	1.9	558	96	0	1958	35	15	17	31	1.91
2839466--2839525	24	2.4	24	94	5	102	26	36	0	36	1.57
2839658--2839682	13	1.9	13	100	0	50	44	16	0	40	1.47
2847186--2847253	24	2.8	24	86	8	86	22	20	26	30	1.98
2868840--2868910	31	2.3	31	90	2	115	35	11	21	32	1.89
2869270--2869325	2	28.0	2	100	0	112	50	0	0	50	1.00
2875735--2875779	2	23.0	2	95	4	83	48	0	0	51	1.00
2877252--2877285	6	5.7	6	100	0	68	17	0	0	82	0.67
2884286--2884310	3	8.3	3	100	0	50	32	0	0	68	0.90
2885773--2885829	21	2.8	18	80	15	51	10	1	8	78	1.02
2885793--2885838	21	2.2	21	84	3	58	15	2	6	76	1.09
2887813--2887855	2	21.5	2	95	0	77	48	0	0	51	1.00
2888379--2888414	16	2.2	16	95	0	63	58	16	8	16	1.61
2890897--2890961	32	2.0	32	90	0	103	24	15	20	40	1.91
2891313--2891345	14	2.4	14	94	0	57	45	24	9	21	1.80
2904470--2904569	43	2.4	43	76	6	107	24	26	17	33	1.96
2905368--2905421	24	2.2	24	93	0	90	20	18	20	40	1.91
2907682--2907712	12	2.6	12	94	0	53	48	29	6	16	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2907890--2908199	20	16.7	20	70	18	161	35	20	21	22	1.96
2907915--2908051	54	2.5	54	91	0	211	36	20	21	21	1.95
2907989--2908232	34	6.9	34	76	12	186	35	21	21	21	1.96
2907890--2908049	74	2.2	72	77	12	171	36	20	20	23	1.95
2908106--2908232	33	3.6	33	76	14	119	34	21	22	22	1.97
2908038--2908238	73	2.7	73	86	6	246	34	21	21	22	1.97
2908349--2908412	30	2.1	30	97	0	119	53	12	4	29	1.59
2909786--2909908	42	2.9	42	79	4	124	22	17	36	23	1.94
2909843--2909887	21	2.3	18	81	11	54	24	11	42	22	1.86
2910393--2910438	20	2.4	19	85	7	58	41	28	15	15	1.87
2910502--2910549	20	2.4	20	89	6	71	18	22	27	31	1.97
2910697--2910746	18	2.8	18	96	0	91	42	6	18	34	1.74
2912487--2912559	20	3.7	20	81	3	94	41	26	17	15	1.89
2912477--2912570	20	4.8	19	74	11	73	43	24	15	15	1.86
2917333--2917437	29	3.6	29	85	1	129	31	6	17	44	1.74
2918061--2918092	2	16.0	2	93	0	55	50	3	0	46	1.17
2926587--2926629	22	2.0	22	90	0	68	46	18	2	32	1.62
2940230--2940329	52	1.9	52	97	0	191	33	13	8	46	1.72
2948742--2948809	31	2.2	30	82	7	82	26	13	19	41	1.88
2950334--2950376	18	2.4	18	76	0	50	62	9	4	23	1.44
2950628--2950656	2	14.5	2	100	0	58	48	0	0	51	1.00
2957247--2957294	20	2.4	20	96	0	87	37	31	12	18	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2961033--2961315	140	2.0	140	97	1	541	32	20	22	23	1.98
2962228--2962257	15	2.0	15	100	0	60	20	33	13	33	1.91
2964259--2964285	11	2.5	11	100	0	54	29	40	7	22	1.81
2975473--2975526	19	3.0	18	75	17	58	40	1	18	38	1.61
2975532--2975602	28	2.5	30	76	17	80	42	2	0	54	1.14
2975564--2975621	20	3.0	20	80	5	57	44	1	0	53	1.10
2975532--2975613	28	2.9	28	76	7	76	42	2	0	54	1.13
2975581--2975621	18	2.2	20	86	8	59	48	0	0	51	1.00
2977619--2977656	19	2.0	19	100	0	76	26	31	5	36	1.79
2981576--2981618	18	2.5	17	85	7	61	67	2	4	25	1.22
2982009--2982110	34	2.9	36	86	7	154	29	13	12	44	1.81
2983983--2984088	55	1.9	55	92	3	178	23	13	15	48	1.80
2985013--2985041	2	14.5	2	100	0	58	48	0	0	51	1.00
2985997--2986045	24	2.0	24	92	0	80	30	14	26	28	1.95
2987892--2987918	2	13.5	2	100	0	54	51	0	0	48	1.00
2994182--2994233	17	3.2	17	75	10	54	50	13	3	32	1.60
2997463--2997584	36	3.4	36	91	4	196	35	0	6	57	1.30
2998811--2999396	80	7.2	81	82	5	671	31	24	19	24	1.98
2998811--2999396	163	3.6	164	85	3	729	31	24	19	24	1.98
2998810--2999390	247	2.4	245	85	3	769	31	23	19	24	1.98
2999363--2999422	27	2.2	27	93	0	102	38	23	11	26	1.89
2999307--2999503	107	1.8	107	90	0	313	34	26	15	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2999200--2999587	187	2.1	187	85	2	526	32	25	17	24	1.97
2999403--2999825	80	5.2	80	84	2	506	32	24	18	24	1.97
2999133--2999663	267	2.0	267	86	1	740	32	25	17	24	1.97
3001221--3001272	25	2.0	26	85	10	72	13	15	5	65	1.44
3001286--3001331	14	3.1	15	77	20	51	15	8	0	76	1.02
3001408--3001462	24	2.3	25	84	15	80	20	5	3	70	1.22
3001414--3001499	40	2.2	40	81	6	106	18	6	2	72	1.19
3001414--3001506	24	4.3	24	73	25	82	21	6	2	69	1.21
3001346--3001506	64	2.5	64	82	7	184	20	6	3	70	1.23
3001434--3001501	19	3.4	19	76	9	73	20	7	1	70	1.19
3001430--3001518	40	2.2	40	80	2	99	24	5	1	68	1.18
3002326--3002355	2	15.0	2	100	0	60	50	0	0	50	1.00
3009902--3010049	79	1.8	81	82	4	192	52	12	8	27	1.67
3012296--3012404	53	2.0	55	85	3	150	41	3	2	52	1.33
3019296--3019347	22	2.4	22	100	0	104	11	13	44	30	1.79
3020074--3020119	2	23.0	2	100	0	92	50	0	0	50	1.00
3021334--3021405	23	2.8	23	76	17	63	54	1	0	44	1.08
3021479--3021540	23	2.6	23	84	5	70	51	0	1	46	1.10
3021842--3021881	14	2.9	14	96	0	71	52	12	0	35	1.39
3024905--3024984	40	2.0	41	97	2	153	35	17	17	30	1.93
3029455--3029500	22	2.1	22	100	0	92	30	30	4	34	1.77
3029642--3029683	21	1.9	21	85	9	57	52	0	11	35	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3033104--3033143	19	2.1	19	85	0	53	37	0	5	57	1.21
3034224--3034261	17	2.2	17	86	9	51	57	10	7	23	1.58
3044155--3044206	6	8.7	6	95	0	95	0	0	50	50	1.00
3044266--3044299	3	11.0	3	93	6	59	67	0	0	32	0.91
3044739--3044822	34	2.5	34	94	0	141	29	21	3	45	1.69
3047149--3047200	17	3.2	17	75	10	54	32	3	13	50	1.60
3047449--3047522	23	3.0	25	78	13	73	47	1	0	51	1.09
3047467--3047585	63	1.9	63	87	3	177	47	1	2	48	1.25
3047470--3047605	63	2.2	63	82	1	166	45	1	2	50	1.22
3050414--3050535	60	2.0	60	84	4	158	31	16	18	33	1.93
3051905--3051942	18	2.1	18	95	0	67	47	7	0	44	1.32
3052560--3052590	4	7.8	4	100	0	62	25	0	0	74	0.82
3056175--3056216	6	7.0	6	97	0	75	0	64	0	35	0.94
3057522--3057577	21	2.7	21	80	0	76	32	8	19	39	1.83
3057702--3057745	21	2.1	22	91	8	74	65	6	0	27	1.17
3059116--3059531	43	9.7	43	83	5	416	31	17	24	26	1.97
3059116--3059532	129	3.2	129	83	6	515	31	17	24	27	1.97
3060107--3060225	54	2.2	54	90	0	184	26	21	27	24	1.99
3060574--3060668	16	6.3	16	71	11	58	30	1	2	66	1.10
3060589--3060715	16	8.4	14	69	18	51	29	0	2	66	1.09
3060660--3060715	16	3.4	16	76	18	53	30	0	1	67	1.01
3061585--3061671	15	5.5	15	76	15	86	45	0	2	51	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3061650--3061747	32	3.4	32	73	26	126	35	0	11	53	1.37
3061673--3061715	22	2.0	22	100	0	86	34	0	13	51	1.42
3061650--3062131	54	8.8	53	76	16	255	33	0	13	52	1.43
3061650--3061988	134	2.5	132	91	6	525	33	0	12	52	1.42
3061774--3062083	32	10.7	32	76	18	308	33	0	13	52	1.43
3061807--3061849	22	2.0	22	95	0	77	34	2	13	48	1.56
3061861--3061903	22	2.0	22	100	0	86	34	0	13	51	1.42
3061695--3062163	112	4.2	112	83	8	666	32	0	13	53	1.43
3062008--3062061	14	3.6	14	72	18	54	37	0	5	57	1.22
3062060--3062195	54	2.6	54	84	8	160	32	0	13	53	1.41

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