genome.fa.s9604.2.7.7.80.10.50.1000.15.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: VEPZ01009604.1 Hibiscus syriacus cultivar Beakdansim tig00116984_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3548142

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  15  of  17  ( 1985 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)
2860568--2860885	141	2.3	141	94	1	566	32	19	27	19	1.96
2863439--2863513	34	2.2	35	83	9	93	2	13	5	78	1.02
2863455--2863518	16	4.1	15	88	4	83	0	14	6	79	0.91
2863456--2863517	31	2.0	32	87	3	90	0	14	6	79	0.93
2867797--2867851	19	2.9	19	74	15	60	65	1	9	23	1.31
2867936--2868023	22	4.1	21	79	16	74	67	0	4	28	1.11
2867953--2868025	24	2.9	24	78	12	67	65	0	4	30	1.11
2868267--2868323	8	6.6	9	82	15	50	59	3	0	36	1.14
2868716--2868808	37	2.5	37	85	0	114	31	12	13	41	1.83
2869063--2869141	37	2.2	34	86	8	113	25	10	15	49	1.75
2869201--2869576	102	3.7	101	92	2	619	36	13	20	30	1.90
2869302--2869570	37	7.8	37	65	19	134	35	13	20	30	1.91
2869201--2869576	101	3.7	102	93	1	632	36	13	20	30	1.90
2869201--2869576	203	1.9	203	93	2	648	36	13	20	30	1.90
2874960--2875039	33	2.4	32	79	8	81	75	2	8	13	1.15
2875085--2875176	19	4.6	20	70	18	68	70	0	4	25	1.05
2875135--2875193	25	2.3	26	77	13	70	69	0	6	23	1.12
2875202--2875279	2	38.5	2	83	7	86	55	0	3	41	1.18
2875584--2875624	20	2.3	18	84	16	50	63	4	4	26	1.35
2878558--2878612	12	4.6	12	76	0	56	34	34	1	29	1.68
2878552--2878612	6	10.2	6	80	0	50	34	34	3	27	1.73
2879700--2879808	38	2.8	39	80	16	138	46	1	18	33	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2882549--2882608	2	30.0	2	100	0	120	50	0	0	50	1.00
2889647--2889691	3	15.0	3	95	0	72	62	0	4	33	1.15
2901512--2901561	26	1.9	26	95	0	91	42	4	18	36	1.69
2905454--2905579	63	2.0	63	98	0	243	31	18	21	28	1.97
2906647--2906697	17	3.0	17	82	0	66	41	7	15	35	1.76
2906772--2906835	17	3.6	18	72	18	53	45	10	10	32	1.74
2910748--2910781	17	2.0	17	88	0	50	41	5	17	35	1.74
2911483--2911528	20	2.3	20	82	17	53	36	0	28	34	1.58
2919071--2919254	93	2.0	91	97	2	350	24	17	22	35	1.95
2927900--2927970	35	2.0	35	100	0	142	52	19	8	19	1.72
2930862--2930903	18	2.3	18	91	0	66	7	23	40	28	1.81
2930986--2931025	3	13.0	3	94	5	71	65	0	0	35	0.93
2931160--2931832	82	8.2	81	80	7	653	24	17	20	37	1.94
2931148--2931832	164	4.2	165	83	4	780	24	17	20	37	1.94
2931167--2931838	245	2.7	245	84	5	811	25	17	20	36	1.94
2931863--2932764	89	10.1	89	82	1	988	29	20	19	30	1.97
2931865--2932764	444	2.0	445	83	2	1128	30	20	19	30	1.97
2932800--2933075	62	4.3	64	76	8	258	34	15	21	27	1.94
2932850--2932910	29	2.1	29	84	0	77	29	21	21	27	1.98
2935245--2935287	15	2.8	15	92	3	68	11	11	0	76	1.02
2935264--2935336	21	3.4	21	88	11	105	5	17	0	76	0.97
2935280--2935338	16	3.7	15	72	28	50	3	18	0	77	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2942724--2942757	3	11.0	3	87	6	50	61	0	0	38	0.96
2943194--2943219	2	13.0	2	100	0	52	50	0	0	50	1.00
2955648--2955681	16	2.1	16	94	0	59	20	32	20	26	1.97
2957355--2957676	45	7.2	45	83	2	389	26	20	12	40	1.88
2957355--2957676	134	2.4	133	83	3	396	26	20	12	40	1.88
2957355--2957676	89	3.6	90	82	3	384	26	20	12	40	1.88
2958125--2958169	20	2.3	20	88	3	65	22	20	11	46	1.81
2962377--2962435	22	2.9	21	87	7	77	18	23	33	23	1.97
2964585--2964902	163	2.0	158	94	5	559	32	15	11	40	1.83
2983018--2983051	16	2.1	16	94	0	59	20	32	20	26	1.97
2987766--2987823	20	2.7	22	86	7	75	18	24	36	20	1.95
3016897--3016940	21	2.1	21	83	8	54	72	4	9	13	1.24
3021554--3021590	17	2.1	18	90	10	58	51	2	5	40	1.39
3022379--3022426	22	2.1	23	92	3	80	43	22	2	31	1.65
3022596--3022632	17	2.2	17	90	0	56	13	37	18	29	1.90
3034956--3034998	23	1.9	22	90	4	68	60	9	0	30	1.28
3037796--3037844	24	2.0	24	88	0	71	34	4	8	53	1.50
3038692--3038752	26	2.3	26	80	5	70	27	0	21	50	1.49
3055793--3055840	24	2.0	24	100	0	96	41	8	16	33	1.78
3055855--3055921	10	6.0	10	73	21	53	26	4	2	65	1.26
3055852--3055921	25	3.0	22	78	15	79	27	4	2	65	1.25
3061896--3061944	24	2.0	24	100	0	98	42	12	12	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3062353--3062418	21	3.1	21	91	0	96	19	37	25	16	1.93
3065129--3065195	19	3.4	19	85	4	89	20	35	32	10	1.87
3065129--3065207	21	4.0	20	85	8	99	20	37	29	12	1.89
3067041--3067080	6	6.5	6	88	5	62	0	15	2	82	0.77
3067041--3067080	19	2.2	18	90	4	62	0	15	2	82	0.77
3067255--3067289	13	2.7	13	91	8	54	65	0	17	17	1.27
3068544--3068582	20	1.9	21	84	5	53	48	7	17	25	1.74
3071762--3072251	54	9.2	54	84	4	631	36	16	14	32	1.89
3071922--3072224	99	3.0	99	85	8	444	36	15	13	33	1.88
3071836--3072224	207	1.9	207	93	0	679	37	14	13	34	1.85
3073710--3073771	31	1.9	34	87	9	94	41	0	17	40	1.50
3077503--3077561	23	2.6	23	97	0	109	30	22	25	22	1.99
3077477--3077561	42	1.9	44	86	9	120	28	22	28	21	1.99
3084547--3084607	30	2.0	30	100	0	122	47	6	13	32	1.68
3091629--3091696	31	2.2	30	84	7	100	33	8	8	48	1.65
3091858--3091924	24	2.9	22	81	18	82	53	0	4	41	1.21
3092162--3092261	39	2.6	40	75	12	93	45	3	15	37	1.61
3092548--3092614	30	2.2	31	80	12	77	50	4	10	34	1.57
3096775--3096822	15	3.4	14	86	8	71	85	0	14	0	0.60
3096778--3096824	6	8.2	6	86	13	64	85	0	14	0	0.61
3096784--3096816	8	4.2	8	84	7	50	87	0	12	0	0.53
3096775--3096822	22	2.3	20	86	10	69	85	0	14	0	0.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3096776--3096822	21	2.2	21	92	3	76	87	0	12	0	0.55
3120822--3121909	559	1.9	548	98	1	1554	29	16	20	32	1.95
3128702--3128741	21	1.9	21	84	0	53	52	7	7	32	1.58
3140497--3140534	20	2.0	20	89	5	60	34	13	5	47	1.65
3143417--3143570	82	1.9	82	87	2	229	42	9	11	37	1.73
3144129--3144166	20	1.9	20	88	0	58	36	36	5	21	1.76
3146955--3147097	73	2.0	73	90	0	223	38	11	10	39	1.75
3152016--3152110	19	4.4	21	82	14	106	50	2	1	46	1.20
3152019--3152106	22	4.3	21	81	9	85	51	2	1	45	1.21
3152073--3152139	27	2.4	28	82	5	73	46	8	0	44	1.35
3164879--3164916	2	19.0	2	84	10	51	50	2	0	47	1.15
3168963--3169000	17	2.4	16	91	8	60	34	26	13	26	1.93
3169652--3169694	23	2.0	22	86	9	61	65	0	20	13	1.27
3172782--3172845	27	2.4	27	94	0	110	21	10	21	45	1.83
3173286--3173435	40	3.8	40	94	0	264	22	16	27	33	1.96
3184030--3184136	46	2.4	45	77	1	115	28	27	18	25	1.98
3200736--3200799	23	2.8	23	75	0	74	29	28	26	15	1.96
3206220--3206275	23	2.4	23	75	0	58	33	25	23	17	1.96
3210613--3210853	122	2.0	122	91	0	392	32	20	9	37	1.85
3226380--3226418	20	2.0	20	100	0	78	15	28	10	46	1.78
3234480--3234511	2	16.5	2	93	6	57	46	0	0	53	1.00
3235782--3235812	7	4.3	7	92	8	53	12	0	12	74	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3235782--3235812	15	2.1	14	94	5	53	12	0	12	74	1.08
3235724--3235822	50	2.0	50	80	11	114	14	8	6	71	1.28
3235918--3235958	6	6.7	6	85	2	55	31	0	2	65	1.05
3236021--3236072	26	2.0	26	100	0	104	23	42	15	19	1.89
3239741--3240790	84	12.5	84	83	1	1163	32	25	19	23	1.98
3242597--3242631	9	3.9	9	92	7	54	20	2	0	77	0.90
3242597--3242625	13	2.1	14	93	6	51	20	0	0	79	0.74
3242765--3242793	12	2.3	13	94	5	51	31	0	0	68	0.89
3243973--3244229	4	65.5	4	85	3	272	0	59	0	40	0.97
3243973--3244229	6	43.7	6	89	3	272	0	59	0	40	0.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17