genome.fa.s1711.2.7.7.80.10.50.1000.9.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: VEPZ01001711.1 Hibiscus syriacus cultivar Beakdansim tig00003454_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4148933

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

This is table  9  of  13  ( 1546 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)
2844543--2844627	28	3.0	28	94	0	152	38	10	12	37	1.79
2845196--2845234	20	2.0	20	90	5	62	38	28	0	33	1.57
2852344--2852368	12	2.1	12	100	0	50	60	8	16	16	1.58
2857127--2857179	22	2.4	21	81	6	61	20	28	22	28	1.99
2857883--2858075	32	6.1	32	91	5	290	34	21	18	26	1.96
2861104--2861130	12	2.2	12	100	0	54	44	33	7	14	1.73
2861881--2861913	10	3.2	11	91	8	52	9	21	9	60	1.54
2862179--2862269	45	2.0	46	89	2	139	27	16	26	29	1.97
2862287--2862324	20	1.9	20	94	0	67	15	18	34	31	1.92
2863430--2863473	21	2.1	21	82	0	52	31	15	43	9	1.79
2869802--2869853	20	2.6	20	93	0	86	21	23	38	17	1.93
2871526--2871568	21	2.0	22	86	4	61	34	0	37	27	1.57
2872250--2872330	23	3.7	22	76	12	78	19	24	30	24	1.98
2884668--2884726	21	2.8	21	94	0	100	25	25	23	25	2.00
2885447--2885573	48	2.8	45	83	7	148	32	22	6	39	1.79
2885460--2885573	44	2.5	46	84	5	142	33	21	7	38	1.80
2889448--2889539	6	14.3	6	69	20	53	5	17	1	76	1.04
2889443--2889527	33	2.5	33	84	7	100	5	18	1	74	1.09
2889456--2889528	38	1.9	38	83	10	96	5	17	1	75	1.07
2889453--2889511	21	2.7	22	75	15	59	3	20	1	74	1.05
2889445--2889539	17	5.7	16	75	16	79	6	16	1	75	1.06
2889478--2889541	13	5.0	13	75	17	55	6	15	1	76	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2892265--2892393	48	2.8	45	84	7	154	30	22	6	40	1.80
2892496--2892577	40	2.0	40	100	0	164	32	26	17	23	1.96
2894689--2894741	20	2.7	20	91	2	90	22	16	30	30	1.96
2894769--2894806	20	1.9	20	88	0	58	18	15	31	34	1.92
2897548--2897600	26	2.0	26	88	0	79	24	15	30	30	1.95
2905429--2905462	17	2.0	17	88	0	50	20	23	8	47	1.78
2907760--2907810	26	2.0	26	88	0	75	31	19	23	25	1.98
2908002--2908058	27	2.2	27	81	6	73	14	7	8	70	1.33
2912017--2912487	138	3.4	139	79	5	411	44	14	12	28	1.81
2913043--2913085	2	22.0	2	95	4	79	51	0	0	48	1.00
2918843--2918867	13	1.9	13	100	0	50	24	8	16	52	1.70
2919007--2919147	53	2.7	51	78	8	140	39	4	10	44	1.61
2919754--2919783	7	4.1	7	95	4	51	16	0	0	83	0.65
2919791--2919820	13	2.4	13	94	5	53	6	33	0	60	1.23
2924869--2924945	32	2.4	32	95	0	145	20	27	28	23	1.99
2926406--2926432	2	13.5	2	100	0	54	48	0	0	51	1.00
2936033--2936210	90	2.0	90	93	0	302	44	6	11	37	1.67
2942872--2943049	90	2.0	90	92	0	293	43	7	12	36	1.70
2947401--2947475	20	3.7	19	79	13	71	72	1	5	21	1.13
2947850--2947888	5	7.4	5	83	11	51	76	0	2	20	0.90
2951435--2951477	18	2.4	18	100	0	86	13	16	30	39	1.87
2959039--2959099	27	2.2	28	82	2	70	42	3	0	54	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2959052--2959117	21	3.2	20	81	8	62	34	3	1	60	1.21
2959730--2959771	21	2.0	21	100	0	84	38	19	19	23	1.93
2960013--2960064	21	2.5	21	81	12	63	32	5	17	44	1.72
2960873--2960965	48	1.9	48	86	4	134	19	18	21	40	1.91
2962348--2962387	21	1.9	21	100	0	80	27	20	7	45	1.78
2977198--2977921	362	2.0	362	97	0	1376	21	18	19	41	1.91
2991423--2991746	162	2.0	162	95	3	591	33	17	17	30	1.93
2994427--2994484	27	2.1	27	96	0	107	18	24	8	48	1.76
2994733--2994776	18	2.5	18	81	3	54	38	9	13	38	1.77
2995900--2995974	39	2.0	38	87	12	111	16	29	2	52	1.57
2995901--2995972	21	3.9	19	70	16	55	16	29	2	51	1.59
2997966--2998011	24	1.9	24	90	0	74	43	10	13	32	1.78
2998428--2998462	18	1.9	18	88	0	52	48	8	8	34	1.64
3002747--3003178	54	8.0	54	89	0	614	33	14	16	35	1.90
3003257--3003445	82	2.3	82	93	1	317	39	12	22	26	1.89
3003543--3003667	46	2.7	46	89	0	196	41	12	21	24	1.88
3023103--3023152	2	25.0	2	100	0	100	50	0	0	50	1.00
3024940--3024964	2	12.5	2	100	0	50	48	0	0	52	1.00
3028738--3029018	139	2.0	141	98	1	548	34	11	19	34	1.88
3035723--3035747	11	2.3	11	100	0	50	36	16	0	48	1.46
3041404--3041479	23	3.3	23	75	0	71	31	22	17	28	1.96
3046543--3046660	54	2.2	54	89	0	173	37	20	16	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3048485--3048652	88	1.9	88	95	0	300	28	16	11	43	1.83
3053178--3053512	54	6.2	54	89	1	474	35	20	16	27	1.94
3058367--3058423	27	2.0	29	90	10	91	19	24	0	56	1.42
3063213--3063325	37	3.0	38	76	12	115	41	7	4	46	1.51
3069404--3069536	37	3.5	38	80	11	148	44	3	6	46	1.43
3069426--3069510	38	2.3	36	79	15	93	44	2	7	45	1.43
3076438--3076466	12	2.5	12	94	5	51	24	0	0	75	0.80
3076439--3076499	18	3.2	19	78	19	56	26	3	3	67	1.22
3076455--3076498	20	2.2	19	84	15	54	25	4	4	65	1.30
3076800--3077924	560	2.0	560	95	0	2036	32	15	16	35	1.91
3077909--3077946	20	1.9	20	94	0	67	15	26	26	31	1.96
3078722--3078764	15	2.9	15	89	0	68	27	18	18	34	1.95
3078814--3078852	21	1.9	21	89	5	62	28	30	10	30	1.90
3082218--3082292	20	3.8	20	78	7	89	16	9	16	58	1.62
3086817--3086856	19	2.2	18	86	4	53	12	32	2	52	1.52
3091089--3091113	11	2.3	11	100	0	50	44	0	8	48	1.32
3091273--3091302	8	3.8	8	95	0	51	26	6	0	66	1.16
3091467--3091505	17	2.4	16	95	4	69	28	0	0	71	0.86
3091455--3091505	16	3.1	17	86	13	72	29	0	0	70	0.87
3091467--3091514	17	2.9	17	87	9	64	25	0	4	70	1.04
3092061--3092090	14	2.2	13	94	5	51	40	3	0	56	1.16
3092920--3092950	15	2.1	15	100	0	62	41	6	19	32	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3095875--3095922	19	2.5	20	86	3	62	31	14	6	47	1.69
3097860--3097894	18	1.9	18	94	0	61	20	20	20	40	1.92
3097983--3098039	20	2.8	19	71	10	51	29	17	22	29	1.97
3099178--3099232	25	2.2	25	86	0	74	29	18	20	32	1.96
3120867--3120901	18	1.9	18	88	0	52	25	22	20	31	1.98
3121658--3121684	8	3.4	8	100	0	54	37	14	22	25	1.93
3122043--3122106	32	1.9	32	84	9	83	28	23	18	29	1.98
3129131--3129207	3	25.3	3	76	2	64	55	2	1	40	1.22
3129126--3129161	18	2.1	17	94	5	63	52	0	0	47	1.00
3133126--3133284	79	2.0	79	91	2	257	55	11	8	23	1.62
3134497--3134626	47	2.8	48	81	8	142	29	21	7	41	1.81
3139929--3139959	6	5.2	6	92	0	53	29	35	19	16	1.93
3141624--3141753	47	2.8	48	81	8	142	29	21	6	42	1.79
3150413--3150493	21	3.8	21	82	12	110	43	23	11	22	1.85
3152196--3152237	17	2.5	17	100	0	84	19	33	0	47	1.49
3155951--3155990	12	3.6	12	83	12	50	45	5	0	50	1.23
3155977--3156209	22	10.6	22	85	1	315	41	0	9	48	1.39
3156233--3156291	31	1.9	31	92	0	100	44	8	5	42	1.57
3168847--3168883	17	2.2	17	86	13	51	37	8	0	54	1.30
3170733--3170777	22	2.0	22	95	0	81	33	15	4	46	1.66
3170733--3170790	22	2.7	22	86	2	55	32	17	3	46	1.65
3170987--3171028	21	2.0	21	85	0	57	33	11	4	50	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3175469--3175521	20	2.6	20	82	8	63	28	13	24	33	1.93
3175555--3175604	18	2.6	20	78	6	59	28	22	26	24	1.99
3182607--3182665	26	2.6	22	76	23	68	28	5	13	52	1.61
3182615--3182668	26	2.1	25	90	10	83	25	5	12	55	1.59
3186564--3186596	16	2.1	16	88	11	50	48	0	9	42	1.35
3190548--3190598	22	2.5	20	79	14	59	35	13	17	33	1.89
3190606--3190715	33	3.3	33	96	0	202	39	15	22	22	1.92
3191098--3191584	54	9.0	54	89	0	706	32	11	17	39	1.85
3195974--3196041	29	2.3	29	97	2	127	39	13	11	35	1.81
3201998--3202031	12	2.8	12	95	4	59	0	38	26	35	1.57

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