genome.fa.s8323.2.7.7.80.10.50.1000.16.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: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5101972

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  16  of  26  ( 3017 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)
3082352--3082780	216	2.0	214	99	0	840	32	23	14	29	1.94
3082758--3082853	30	3.2	30	94	1	149	31	27	20	20	1.98
3082842--3082939	31	3.2	30	78	13	117	32	18	19	29	1.96
3084079--3084123	21	2.1	21	87	0	63	15	24	28	31	1.96
3089789--3089850	24	2.6	24	97	0	115	24	22	20	32	1.98
3091706--3091751	13	3.3	15	72	27	55	56	0	0	43	0.99
3091706--3091757	14	3.7	14	74	7	52	53	0	0	46	1.00
3091700--3091758	27	2.2	26	90	3	91	52	0	0	47	1.00
3092500--3092539	21	1.9	21	85	10	55	45	5	5	45	1.47
3095892--3095927	15	2.4	15	95	0	63	58	0	0	41	0.98
3112910--3112961	20	2.7	20	87	3	79	48	0	9	42	1.36
3115841--3115939	51	1.9	51	91	0	162	40	7	12	40	1.70
3120977--3121015	20	2.0	20	85	10	53	64	0	2	33	1.08
3123173--3123203	16	2.0	16	93	6	55	41	6	25	25	1.79
3124594--3124674	29	2.8	30	90	3	121	39	7	18	34	1.79
3124594--3124658	15	4.4	15	81	11	80	38	6	18	36	1.76
3124589--3124674	44	2.0	44	90	4	138	41	6	18	32	1.77
3124657--3124726	20	3.5	20	96	0	131	40	10	14	35	1.79
3124892--3124995	28	3.5	28	77	22	99	52	1	0	44	1.18
3124892--3124981	30	3.3	27	75	15	69	53	2	1	43	1.20
3124969--3125049	18	4.7	18	66	23	57	45	1	1	51	1.16
3124980--3125061	31	2.6	30	78	19	87	47	0	1	51	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3125009--3125052	22	2.0	23	86	4	63	54	0	0	45	0.99
3124980--3125069	21	4.2	22	73	16	64	47	0	1	51	1.08
3124949--3125069	52	2.3	52	77	18	135	49	0	0	48	1.12
3125256--3125375	42	2.9	42	98	0	231	44	19	20	15	1.87
3127211--3127375	64	2.6	63	83	12	187	26	21	19	32	1.97
3130207--3130243	16	2.2	18	85	9	51	43	2	0	54	1.14
3145330--3145359	15	2.1	14	93	6	51	46	3	0	50	1.18
3155466--3155517	21	2.5	21	81	3	61	38	19	25	17	1.93
3155506--3155579	20	3.7	20	75	10	69	35	24	18	21	1.96
3155789--3155848	27	2.2	27	84	3	75	45	30	5	20	1.72
3156098--3156153	19	2.9	19	86	2	85	48	23	17	10	1.79
3156123--3156164	19	2.2	19	86	0	57	47	30	16	4	1.67
3156163--3156294	33	4.0	33	93	1	201	12	25	20	40	1.88
3156262--3156319	20	2.9	20	80	10	64	13	24	18	43	1.87
3158412--3158614	42	4.8	42	80	2	203	23	36	17	22	1.95
3158545--3158614	21	3.3	21	68	5	61	24	35	20	20	1.96
3158409--3158580	84	2.0	84	97	0	326	22	37	17	23	1.94
3158409--3158614	84	2.5	84	90	1	270	22	36	17	22	1.95
3159971--3160006	14	2.6	14	95	0	63	30	0	25	44	1.54
3160113--3160171	19	3.4	19	73	22	74	45	18	22	13	1.84
3160113--3160176	33	1.9	33	100	0	128	45	18	23	12	1.84
3160113--3160179	19	3.8	19	69	18	63	46	17	22	13	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3160188--3160310	33	3.8	32	81	11	151	17	21	17	43	1.87
3160181--3160310	66	2.0	66	92	0	215	18	20	17	43	1.89
3160256--3160314	19	3.4	19	71	22	56	16	22	15	45	1.84
3162606--3162642	12	3.1	12	96	0	65	2	24	0	72	0.97
3162817--3162870	24	2.2	24	90	0	81	40	20	16	22	1.91
3163655--3163706	21	2.5	21	87	3	70	38	17	23	21	1.93
3163695--3163762	20	3.4	20	79	0	73	35	22	16	26	1.94
3163975--3164062	20	4.4	20	77	5	106	38	22	21	17	1.93
3164076--3164146	33	2.2	33	81	0	79	21	19	19	39	1.93
3164094--3164147	14	3.5	14	75	22	54	12	20	18	48	1.81
3164274--3164310	14	2.6	14	86	0	56	48	21	0	29	1.50
3166178--3166245	20	3.5	19	82	6	82	38	23	23	14	1.92
3166234--3166284	14	3.4	14	75	19	57	50	21	15	11	1.76
3166218--3166284	32	2.1	33	97	2	127	47	20	17	13	1.81
3166291--3166379	14	5.7	14	73	21	79	11	16	22	49	1.77
3166283--3166395	33	3.5	33	98	1	219	13	18	21	46	1.82
3166380--3166434	20	2.8	19	83	8	65	16	23	23	36	1.94
3166916--3166960	18	2.5	18	88	0	72	13	15	44	26	1.83
3168281--3168334	20	2.7	20	82	5	56	42	18	18	20	1.89
3168595--3168644	22	2.4	21	81	15	59	22	12	42	24	1.87
3168603--3168646	22	2.0	22	91	8	72	18	13	45	22	1.84
3168835--3168886	20	2.6	20	93	0	86	25	21	28	25	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3168814--3168948	20	6.7	20	76	7	76	25	16	23	34	1.95
3168817--3168951	61	2.2	61	81	4	164	24	15	23	36	1.94
3169899--3169941	23	1.9	22	85	4	59	72	4	9	13	1.26
3178345--3178386	15	2.9	14	77	19	50	69	0	0	30	0.89
3178345--3178386	14	2.9	14	77	19	50	69	0	0	30	0.89
3198897--3198923	2	13.5	2	100	0	54	48	0	0	51	1.00
3203599--3203641	17	2.5	17	92	7	70	34	34	23	6	1.82
3204295--3204864	194	2.9	194	74	7	469	24	20	18	36	1.95
3206429--3206576	76	1.9	76	94	0	260	32	17	14	35	1.91
3216965--3217009	23	2.0	23	86	0	63	22	17	24	35	1.95
3217750--3217816	25	2.8	24	82	6	91	32	20	17	28	1.96
3218506--3218545	21	1.9	22	90	10	66	12	10	40	37	1.77
3218736--3218791	21	2.7	21	100	0	112	23	21	35	19	1.96
3218869--3218926	30	2.0	29	90	10	91	44	17	5	32	1.70
3218869--3218927	29	2.0	30	93	6	102	44	16	5	33	1.70
3222169--3222259	20	4.9	19	71	15	57	24	16	29	29	1.96
3222268--3222313	21	2.2	21	96	0	83	26	19	34	19	1.96
3222395--3222452	30	2.0	29	90	10	91	44	17	5	32	1.70
3222395--3222454	29	2.0	30	93	6	104	43	16	6	33	1.74
3226012--3226135	21	5.7	21	86	11	178	41	25	11	21	1.86
3226009--3226136	44	2.9	44	96	2	231	41	25	10	21	1.86
3231536--3231895	43	8.4	42	70	17	231	47	6	20	25	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3231607--3231856	93	2.8	91	81	11	247	48	6	19	26	1.72
3231715--3231898	82	2.2	84	96	3	338	50	5	19	25	1.68
3231895--3231988	43	2.2	43	81	7	111	47	4	24	23	1.69
3231973--3232072	43	2.3	42	79	6	112	62	6	6	26	1.42
3234730--3235032	152	2.0	151	98	0	588	29	16	11	42	1.84
3235242--3235276	2	17.0	2	94	5	61	48	2	0	48	1.16
3235768--3235793	2	13.0	2	100	0	52	50	0	0	50	1.00
3239539--3239576	18	2.1	18	95	0	67	42	5	5	47	1.48
3240295--3240385	47	1.9	47	95	0	164	29	13	0	57	1.37
3242550--3242590	18	2.4	17	84	8	55	58	0	0	41	0.98
3245867--3245917	25	2.0	25	82	14	61	49	1	5	43	1.38
3246882--3246954	35	2.0	37	84	10	98	52	4	0	43	1.20
3253542--3253890	190	1.8	189	96	2	655	37	14	31	16	1.89
3258834--3258862	15	1.9	15	100	0	58	31	34	13	20	1.92
3262855--3262949	30	3.2	30	74	12	106	57	18	7	15	1.61
3268744--3268801	1	58.0	1	82	0	71	0	0	8	91	0.42
3268744--3268801	11	5.5	11	88	12	95	0	0	8	91	0.42
3268727--3268794	30	2.2	30	86	2	91	4	1	11	82	0.88
3268746--3268801	19	2.9	19	94	5	96	0	0	8	91	0.43
3268744--3268801	30	1.9	30	100	0	116	0	0	8	91	0.42
3276925--3276950	13	2.0	13	100	0	52	38	0	0	61	0.96
3277433--3277474	2	21.0	2	100	0	84	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3285154--3285241	45	1.9	45	90	2	140	29	18	25	27	1.98
3303538--3303570	16	2.0	17	88	5	50	33	30	6	30	1.82
3308376--3308418	20	2.1	21	91	4	70	23	30	20	25	1.99
3310686--3310766	40	2.0	40	95	0	144	45	2	29	22	1.65
3310660--3310755	21	4.4	21	70	16	72	43	1	34	20	1.59
3310710--3310766	21	2.8	20	71	23	57	45	3	28	22	1.69
3333767--3333804	20	1.9	20	88	0	58	18	28	26	26	1.98
3336583--3336791	43	4.9	43	94	0	357	17	26	24	30	1.97
3336589--3336815	43	5.3	42	91	3	312	16	26	24	32	1.96
3342960--3343026	23	2.9	23	82	4	73	19	23	23	32	1.97

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