genome.fa.s8772.2.7.7.80.10.50.1000.15.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: VEPZ01008772.1 Hibiscus syriacus cultivar Beakdansim tig00111877_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3098974

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

This is table  15  of  16  ( 1817 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)
2885511--2885666	83	2.0	80	83	10	203	39	4	7	48	1.52
2885588--2885649	21	3.0	21	69	7	54	41	0	3	54	1.16
2892579--2892660	32	2.6	32	84	0	92	29	19	15	35	1.93
2892579--2892702	32	3.9	32	76	8	90	30	19	12	37	1.89
2893797--2893834	20	1.9	20	94	0	67	28	15	18	36	1.92
2893799--2893855	20	2.8	20	81	5	60	31	19	12	36	1.89
2901945--2901995	23	2.3	22	83	6	68	21	41	17	19	1.91
2906076--2906153	31	2.5	31	91	0	129	56	15	8	19	1.65
2916387--2916482	25	3.8	25	90	4	147	36	16	0	46	1.47
2916387--2916482	26	3.8	25	91	1	129	36	16	0	46	1.47
2916849--2916881	12	2.8	12	95	0	57	12	30	0	57	1.35
2919006--2919258	101	2.5	101	84	5	327	28	22	13	36	1.92
2919386--2919488	38	2.7	38	78	3	109	26	23	8	41	1.83
2920092--2920179	3	29.3	3	100	0	176	32	0	0	67	0.91
2923595--2923634	20	2.0	20	95	4	73	40	17	0	42	1.49
2927801--2927846	21	2.1	23	88	8	69	28	4	4	63	1.33
2929621--2929681	3	19.3	3	80	6	59	32	0	0	67	0.91
2929621--2929682	32	1.9	32	83	0	79	32	0	0	67	0.91
2930856--2930911	20	2.7	21	83	5	60	21	7	0	71	1.09
2932116--2932145	15	2.0	15	93	0	51	36	13	3	46	1.60
2937382--2937429	24	2.0	24	95	0	87	37	16	18	27	1.92
2938609--2938801	20	9.6	20	82	7	230	34	26	19	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2939189--2939245	14	3.7	14	70	20	51	8	24	21	45	1.80
2939179--2939249	33	2.2	33	97	0	133	9	23	18	47	1.78
2939177--2939227	14	3.0	18	70	24	56	9	23	21	45	1.82
2939420--2939548	19	7.1	19	70	21	80	11	24	18	44	1.83
2939442--2939498	14	3.7	14	75	20	60	8	24	22	43	1.81
2939425--2939548	33	3.5	33	86	12	158	11	24	18	45	1.82
2939449--2939546	20	5.2	20	70	20	93	12	24	17	45	1.82
2940115--2940158	20	2.2	20	100	0	88	18	22	11	47	1.80
2940115--2940167	20	2.7	20	93	0	79	22	22	9	45	1.81
2940478--2940504	2	13.5	2	100	0	54	51	0	0	48	1.00
2942212--2942275	21	3.1	20	77	4	65	73	1	1	23	1.01
2942212--2942264	20	2.6	21	81	6	63	73	1	1	22	1.03
2942468--2942496	14	2.1	14	100	0	58	37	27	20	13	1.91
2943956--2944026	32	2.2	32	94	0	124	35	14	4	46	1.64
2946246--2946272	14	1.9	14	100	0	54	55	0	0	44	0.99
2946409--2946440	14	2.3	14	94	0	55	40	18	15	25	1.90
2946642--2946668	4	6.8	4	100	0	54	25	0	22	51	1.48
2946617--2946718	52	2.0	52	94	0	177	41	5	11	41	1.66
2947372--2947400	10	2.7	11	89	10	51	48	0	0	51	1.00
2949256--2949284	11	2.5	12	88	11	51	17	10	0	72	1.11
2949786--2949838	27	2.0	27	85	7	72	37	11	11	39	1.77
2953553--2953587	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2953941--2954004	31	2.1	31	85	11	87	15	15	18	50	1.79
2955848--2955885	2	19.0	2	94	0	67	47	0	2	50	1.15
2956066--2956090	13	1.9	13	100	0	50	20	0	40	40	1.52
2957506--2957532	2	13.5	2	100	0	54	48	0	0	51	1.00
2959092--2959142	25	1.9	28	84	11	72	1	66	0	31	1.03
2960965--2960997	16	1.9	18	88	11	52	48	0	9	42	1.35
2961643--2961714	27	2.6	28	80	10	87	58	2	0	38	1.13
2961712--2961739	14	2.0	14	100	0	56	50	7	0	42	1.30
2961788--2961838	26	2.0	26	84	7	68	54	3	9	31	1.51
2961993--2962025	15	2.2	15	94	0	57	54	3	9	33	1.47
2962745--2962799	21	2.6	21	91	0	83	25	25	29	20	1.99
2963725--2964041	113	2.8	112	86	3	460	28	19	14	37	1.91
2964410--2964463	22	2.6	21	88	8	67	35	9	16	38	1.81
2964420--2964463	22	2.0	22	95	0	79	38	6	18	36	1.77
2965287--2965462	75	2.3	75	86	3	230	30	22	17	30	1.96
2970825--2970888	8	9.0	7	79	17	53	59	9	15	15	1.60
2970825--2970888	14	4.5	14	79	11	67	59	9	15	15	1.60
2970810--2970882	36	2.0	36	81	5	85	61	6	12	19	1.52
2970953--2970993	6	6.0	7	83	16	59	56	12	17	14	1.68
2972480--2972513	16	2.2	15	89	5	50	55	0	8	35	1.31
2973268--2973300	2	17.5	2	87	12	52	51	0	0	48	1.00
2973265--2973301	12	3.4	11	89	10	58	54	0	0	45	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2973375--2973436	28	2.2	28	81	10	74	61	1	0	37	1.06
2973429--2973456	14	2.0	14	100	0	56	50	7	0	42	1.30
2973504--2973554	26	2.0	26	84	7	68	54	3	9	31	1.51
2974342--2974416	34	2.2	34	100	0	150	2	20	29	48	1.63
2974969--2975037	3	23.3	3	91	8	115	68	0	0	31	0.90
2981372--2981417	22	2.1	22	83	0	56	58	4	6	30	1.43
2984522--2984842	160	2.0	161	99	0	635	45	14	18	20	1.85
2989014--2989053	21	1.9	22	90	10	66	12	10	40	37	1.77
2989172--2989238	20	3.3	20	89	0	107	31	23	26	17	1.97
2990432--2990691	47	5.8	44	87	4	349	65	8	4	21	1.37
2990427--2990691	89	2.9	90	88	3	372	65	8	4	21	1.37
2992756--2992809	26	2.1	26	82	0	63	62	1	0	35	1.06
2993662--2993769	14	7.5	14	70	16	62	42	2	0	53	1.21
2993871--2993914	20	2.1	22	91	8	74	38	0	0	61	0.96
2993899--2993973	22	3.5	22	68	14	57	46	4	1	48	1.29
2993887--2993979	42	2.2	42	80	0	105	46	3	1	49	1.25
3000331--3000379	17	2.8	17	84	6	53	48	0	0	51	1.00
3007620--3007657	20	1.9	20	94	0	67	31	18	23	26	1.97
3011763--3011888	63	2.0	62	95	1	225	42	6	22	28	1.78
3012794--3012869	20	3.9	20	71	13	77	21	23	28	26	1.99
3012795--3012885	38	2.4	38	83	3	121	20	20	30	27	1.98
3012795--3012885	18	4.8	19	76	12	89	20	20	30	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3013723--3013753	9	3.4	9	95	0	53	87	0	12	0	0.55
3013723--3013754	8	3.8	9	88	12	50	84	0	15	0	0.63
3021001--3021173	86	2.0	87	98	1	339	37	16	10	35	1.83
3021565--3021597	17	2.0	17	94	5	59	36	0	6	57	1.23
3021963--3022007	23	2.0	23	86	0	63	62	0	2	35	1.08
3023792--3023837	24	2.0	23	84	16	60	60	10	8	19	1.55
3024732--3024823	23	4.0	23	85	0	121	34	22	23	18	1.96
3024822--3024871	22	2.3	22	86	6	66	46	14	10	30	1.77
3024822--3024878	22	2.6	22	83	5	62	43	15	8	31	1.78
3025673--3025995	159	2.0	163	96	3	609	32	19	6	41	1.76
3029944--3030000	29	2.0	29	86	6	80	36	17	15	29	1.91
3037530--3037650	60	2.0	60	100	0	242	29	18	26	25	1.98
3040748--3040797	19	2.7	19	78	12	50	74	2	6	18	1.12
3058576--3058944	20	18.5	20	84	5	451	34	26	18	20	1.96
3059626--3059672	24	2.0	24	87	8	69	25	14	21	38	1.92
3059847--3059871	12	2.1	12	100	0	50	72	0	28	0	0.86
3062150--3062441	19	16.4	19	82	14	383	46	18	20	14	1.83
3062150--3062463	52	5.9	52	86	11	321	46	18	20	14	1.84
3062470--3062571	19	5.6	19	85	12	151	14	23	17	44	1.86
3062678--3062714	14	2.6	14	91	0	65	45	21	0	32	1.52
3064671--3064727	14	3.7	14	77	20	60	45	22	21	10	1.82
3064652--3064744	33	2.8	33	95	0	168	47	21	20	10	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3064615--3064749	19	7.6	19	76	16	128	45	23	19	11	1.82
3064745--3064873	19	7.3	19	75	17	125	8	17	28	45	1.77
3064745--3064836	33	2.8	33	93	3	150	7	18	28	45	1.76
3064917--3065387	93	5.1	93	97	1	903	46	18	12	22	1.83
3064917--3065387	184	2.6	185	98	0	917	46	18	12	22	1.83
3067085--3067198	33	3.5	33	92	2	203	44	21	24	9	1.82
3067092--3067203	14	6.8	18	73	22	95	42	22	25	9	1.84
3067215--3067269	14	3.6	14	73	21	56	9	25	23	41	1.83
3067199--3067269	33	2.2	33	94	0	124	8	22	25	43	1.81
3067210--3067291	33	2.5	33	89	2	119	9	25	21	42	1.84

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