genome.fa.s9579.2.7.7.80.10.50.1000.17.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

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   27   28   29   

This is table  17  of  29  ( 3390 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)
3128955--3129005	25	2.0	25	96	0	93	52	15	1	29	1.54
3130428--3130504	21	3.7	21	74	6	75	20	18	40	20	1.92
3130428--3130508	42	1.9	42	84	0	108	22	17	39	20	1.92
3130991--3131034	20	2.1	21	91	4	72	56	22	9	11	1.62
3131022--3131094	20	3.7	20	83	3	94	39	23	19	17	1.92
3131090--3131126	19	1.9	19	94	0	65	48	27	16	8	1.74
3131131--3131237	20	5.7	20	74	12	100	17	20	23	38	1.93
3131131--3131270	74	1.9	74	94	2	246	18	20	23	37	1.94
3131135--3131270	34	3.8	34	70	14	103	19	19	23	37	1.94
3133271--3133311	20	2.0	20	100	0	82	56	19	14	9	1.66
3133274--3133320	20	2.3	20	92	0	76	48	21	14	14	1.80
3133738--3133807	22	3.2	22	89	0	113	20	11	44	24	1.84
3133971--3134076	20	5.2	20	83	6	133	24	21	26	27	1.99
3133971--3134097	61	2.1	61	93	0	218	23	22	25	28	1.99
3134086--3134132	20	2.3	20	96	0	85	21	21	17	40	1.91
3134201--3134249	19	2.5	19	86	3	71	26	14	26	32	1.94
3138731--3138779	22	2.4	21	83	12	59	59	0	8	32	1.27
3146925--3146984	26	2.3	26	97	0	111	23	18	8	50	1.74
3157160--3157185	2	13.0	2	100	0	52	50	0	0	50	1.00
3161256--3161364	52	2.1	52	93	1	184	44	12	3	39	1.61
3166008--3166056	15	3.3	15	88	11	66	67	0	0	32	0.91
3166008--3166051	11	4.3	11	78	21	51	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3166096--3166271	38	4.6	38	83	9	212	48	6	1	43	1.39
3166104--3166259	75	2.1	77	86	7	221	47	7	1	43	1.41
3166238--3166296	25	2.4	25	97	0	109	47	6	0	45	1.29
3166161--3166379	102	2.2	100	83	8	266	45	7	2	44	1.44
3166263--3166375	38	2.9	39	82	5	129	45	6	2	46	1.42
3182389--3182443	22	2.5	22	93	0	92	41	29	20	9	1.82
3186096--3186126	16	1.9	16	100	0	62	58	22	12	6	1.58
3186198--3186255	16	3.6	16	84	6	82	58	22	8	10	1.58
3186467--3186520	23	2.3	23	90	0	81	22	22	27	27	1.99
3186467--3186520	12	4.7	12	73	13	51	22	22	27	27	1.99
3187390--3187421	14	2.3	14	94	0	55	53	25	15	6	1.65
3188185--3188339	10	14.6	10	65	18	64	13	12	19	54	1.71
3188272--3188338	24	2.8	24	93	0	107	16	13	16	53	1.73
3188283--3188328	14	3.6	14	72	22	55	17	15	15	52	1.76
3188203--3188353	24	6.3	23	70	13	65	13	11	18	55	1.68
3190652--3190691	20	2.0	20	95	0	71	47	15	5	32	1.66
3190525--3191169	194	3.3	194	86	2	873	42	12	13	31	1.82
3191527--3191807	118	2.4	118	86	2	386	29	13	13	42	1.83
3202150--3202196	23	2.0	23	84	8	60	19	19	8	53	1.70
3203197--3203225	14	2.1	14	93	6	51	55	0	13	31	1.39
3204936--3204984	2	24.5	2	95	0	89	48	0	2	48	1.12
3205349--3205386	6	6.8	6	96	3	55	71	0	0	28	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3213298--3213390	30	3.1	30	71	1	89	35	12	4	47	1.62
3213289--3213408	60	2.0	60	88	9	183	35	13	4	47	1.62
3214154--3214205	2	26.0	2	96	0	95	48	0	1	50	1.12
3215140--3215190	17	2.9	18	71	11	52	56	3	15	23	1.56
3221507--3221536	2	15.0	2	100	0	60	50	0	0	50	1.00
3224929--3224981	22	2.4	22	78	6	54	32	1	1	64	1.15
3224909--3224991	16	5.2	16	72	24	61	30	3	1	65	1.17
3225053--3225097	2	23.5	2	91	8	76	48	0	0	51	1.00
3225053--3225097	11	3.9	12	88	11	76	48	0	0	51	1.00
3225053--3225098	13	3.6	13	91	2	76	47	0	0	52	1.00
3225760--3225787	11	2.5	11	100	0	56	64	0	0	35	0.94
3235313--3235356	15	2.9	16	83	10	56	54	4	2	38	1.33
3235314--3235359	18	2.5	19	82	10	60	56	2	2	39	1.24
3238880--3238920	21	2.0	21	85	0	55	29	24	0	46	1.53
3240259--3240305	23	2.0	23	100	0	94	46	10	34	8	1.69
3243573--3243655	21	4.0	21	71	13	55	39	1	2	56	1.20
3247347--3247506	64	2.5	61	82	8	194	29	18	23	29	1.97
3248092--3248142	22	2.3	22	79	3	57	27	17	21	33	1.96
3250129--3250165	14	2.6	14	95	4	65	32	27	8	32	1.86
3260148--3260193	6	7.7	6	85	0	56	32	2	0	65	1.05
3260287--3260343	25	2.2	25	81	12	71	63	1	1	33	1.15
3260404--3260506	51	2.0	51	100	0	206	42	7	15	33	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3260971--3261063	3	31.0	3	100	0	186	0	33	0	66	0.92
3261797--3261846	20	2.5	20	77	6	57	34	32	18	16	1.92
3261835--3261888	21	2.6	21	93	0	90	38	14	24	22	1.91
3261921--3262195	20	13.6	20	72	11	141	38	23	18	19	1.93
3261982--3262192	40	5.2	41	88	2	295	37	23	18	19	1.94
3262245--3262289	21	2.1	21	87	0	63	17	26	17	37	1.93
3262302--3262354	20	2.7	20	90	0	88	35	22	18	22	1.95
3262622--3262836	94	2.3	93	91	1	349	47	18	11	22	1.81
3264534--3264589	20	2.8	20	80	20	80	39	19	25	16	1.91
3264645--3264693	18	2.6	18	87	6	62	14	12	20	53	1.73
3265246--3265373	20	6.4	20	76	7	118	21	17	23	37	1.94
3265267--3265373	40	2.7	40	89	1	162	20	18	22	38	1.94
3265245--3265358	60	1.9	60	83	0	147	21	19	21	37	1.94
3265402--3265459	21	2.8	21	89	0	89	20	22	17	39	1.92
3265426--3265495	20	3.5	20	69	13	54	18	20	28	32	1.96
3284609--3284783	58	3.0	58	95	0	305	15	22	11	50	1.75
3288973--3289011	21	1.9	20	84	5	51	35	5	2	56	1.35
3289018--3289130	45	2.5	43	83	13	140	40	9	15	33	1.81
3289518--3289570	20	2.7	19	75	11	54	66	3	3	26	1.26
3294724--3294765	19	2.2	19	91	0	66	50	0	4	45	1.23
3299243--3299301	27	2.3	27	85	5	77	47	5	6	40	1.52
3303267--3303317	2	25.5	2	91	0	84	49	1	0	49	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3303471--3303584	27	4.5	25	70	19	85	50	0	1	46	1.17
3303472--3303517	21	2.2	20	92	3	74	56	0	0	43	0.99
3303477--3303520	11	4.1	11	80	16	56	52	0	0	47	1.00
3303544--3303597	27	1.9	29	82	14	69	51	0	3	44	1.19
3303595--3303667	23	3.1	24	80	9	80	53	2	0	43	1.15
3303586--3303673	23	4.0	21	69	22	65	53	2	0	44	1.13
3304074--3304112	16	2.4	16	86	0	60	41	12	2	43	1.56
3304143--3304277	2	67.5	2	70	16	75	48	2	7	41	1.43
3304143--3304277	63	2.1	63	84	2	173	48	2	7	41	1.43
3305465--3305509	2	22.5	2	100	0	90	51	0	0	48	1.00
3315560--3315629	30	2.3	30	85	4	88	25	8	27	38	1.85
3315620--3315667	20	2.4	20	89	0	69	29	6	37	27	1.81
3324746--3324804	29	2.0	29	93	0	100	38	10	10	40	1.73
3326012--3326041	16	1.9	15	93	6	51	46	0	0	53	1.00
3338134--3338162	15	1.9	15	100	0	58	51	13	20	13	1.75
3338513--3338541	15	1.9	15	100	0	58	51	13	20	13	1.75
3341188--3341213	2	13.0	2	100	0	52	50	0	0	50	1.00
3345237--3345271	17	2.1	17	100	0	70	14	40	5	40	1.69
3350661--3350714	3	18.3	3	96	3	101	66	0	0	33	0.92
3350851--3350901	26	2.1	25	82	17	63	45	0	3	50	1.20
3358725--3358768	23	1.9	23	85	0	61	29	9	56	4	1.50
3364192--3364232	21	2.0	21	90	0	64	12	26	21	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3364216--3364275	18	3.2	18	77	13	75	11	35	21	31	1.90
3364203--3364281	21	3.9	21	78	9	92	11	32	21	34	1.89
3364630--3364664	18	1.9	18	94	0	61	25	20	22	31	1.98
3366155--3366435	99	2.8	102	78	17	304	45	12	7	33	1.70
3367359--3367600	27	8.8	28	66	19	118	26	21	26	25	2.00
3367359--3367603	55	4.5	54	81	9	280	26	22	26	25	2.00
3367392--3367600	110	1.9	113	90	4	343	25	22	25	25	2.00
3367359--3367603	110	2.2	107	85	6	321	26	22	26	25	2.00
3380513--3380540	2	14.0	2	100	0	56	50	0	0	50	1.00
3381548--3381585	15	2.6	15	91	4	60	65	10	0	23	1.23

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   27   28   29