genome.fa.s7816.2.7.7.80.10.50.1000.12.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: VEPZ01007816.1 Hibiscus syriacus cultivar Beakdansim tig00110151_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3994936

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

This is table  12  of  14  ( 1594 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)
3399273--3399313	9	4.6	9	80	19	50	56	2	0	41	1.13
3399275--3399311	19	2.0	18	89	5	56	54	2	0	43	1.14
3399309--3399664	37	9.8	37	80	9	326	44	7	2	44	1.46
3399309--3399665	146	2.4	146	84	6	440	44	7	2	45	1.46
3399887--3399950	29	2.2	30	97	2	121	17	21	26	34	1.95
3400274--3400535	123	2.1	123	88	2	384	26	13	20	38	1.90
3400678--3400736	22	2.7	22	94	2	102	23	13	15	47	1.81
3410105--3410132	14	2.0	14	100	0	56	35	14	28	21	1.92
3410817--3410883	30	2.2	30	100	0	134	49	2	16	31	1.61
3412583--3412643	31	1.9	32	93	6	106	22	19	29	27	1.98
3412699--3412744	23	2.0	23	82	0	56	19	6	19	54	1.66
3412756--3412936	46	4.1	45	87	6	248	35	6	23	34	1.81
3412756--3412936	89	2.1	86	87	10	244	35	6	23	34	1.81
3415863--3415899	20	2.0	20	89	10	60	70	2	0	27	1.01
3417047--3417087	18	2.3	18	87	8	57	80	2	0	17	0.82
3417030--3417087	7	8.0	7	75	12	55	77	1	3	17	0.99
3417124--3417166	23	2.0	21	86	9	59	51	6	0	41	1.29
3417145--3417421	41	7.4	40	70	18	118	43	6	2	46	1.45
3417145--3417236	41	2.3	42	86	5	127	44	6	1	47	1.36
3417208--3417270	26	2.4	26	94	0	108	44	7	3	44	1.49
3417231--3417416	38	4.8	38	83	10	207	43	6	3	46	1.46
3417126--3417348	105	2.2	101	86	6	306	45	7	1	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3417201--3417333	26	5.1	26	70	21	82	44	9	2	44	1.48
3417336--3417360	12	2.1	12	100	0	50	44	0	0	56	0.99
3417237--3417414	79	2.3	77	87	5	245	43	7	3	46	1.48
3420546--3420626	22	3.7	22	70	6	65	30	18	19	30	1.96
3420766--3420803	20	1.9	20	94	0	67	34	15	13	36	1.87
3426853--3426923	3	23.7	3	100	0	142	66	0	0	33	0.92
3426924--3426971	23	2.1	23	100	0	96	37	12	29	20	1.90
3429283--3429312	9	3.3	9	95	0	51	6	3	30	60	1.39
3429945--3429985	21	2.0	21	95	0	73	46	4	0	48	1.23
3429948--3430002	29	1.9	28	85	3	74	47	3	0	49	1.19
3438307--3438349	14	3.1	14	80	10	52	60	9	6	23	1.51
3439485--3439527	6	7.3	6	94	5	63	81	0	16	2	0.79
3450279--3450335	20	2.8	21	84	10	73	31	15	24	28	1.96
3450298--3450474	95	1.9	96	80	1	212	33	15	22	27	1.95
3450846--3451082	55	4.3	55	90	0	357	29	18	21	30	1.97
3450921--3451006	26	3.1	27	64	15	68	31	18	20	29	1.97
3457205--3457260	20	2.8	20	81	10	60	32	14	25	28	1.94
3457730--3457771	2	21.0	2	100	0	84	50	0	0	50	1.00
3457805--3458037	55	4.3	55	90	2	371	29	18	19	32	1.96
3457805--3458037	109	2.1	110	94	1	414	29	18	19	32	1.96
3457828--3458067	109	2.2	109	90	1	374	30	17	19	32	1.95
3458074--3458104	11	2.9	11	95	4	55	35	19	19	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3460698--3460793	40	2.4	40	87	0	138	21	21	28	28	1.99
3461048--3461089	21	2.0	22	95	4	77	40	9	9	40	1.70
3467489--3467569	40	2.0	40	82	0	99	25	25	22	25	2.00
3472320--3472367	17	2.9	16	87	6	60	33	16	14	35	1.89
3472792--3472870	41	1.9	41	94	0	140	58	20	8	12	1.61
3472792--3472880	41	2.4	37	85	11	110	58	20	7	13	1.60
3476850--3476901	21	2.3	23	77	6	63	36	3	23	36	1.73
3476944--3477038	29	3.3	29	66	21	83	24	21	14	40	1.90
3477213--3477264	2	26.0	2	96	0	95	50	1	0	48	1.12
3477806--3477831	2	13.0	2	100	0	52	50	0	0	50	1.00
3479116--3479264	78	1.9	78	90	2	237	43	5	11	39	1.64
3495560--3495597	20	1.9	20	88	0	58	21	26	10	42	1.85
3498798--3498844	23	2.1	23	92	4	78	46	2	4	46	1.34
3498815--3498874	29	2.0	30	93	3	104	48	0	5	46	1.24
3502994--3503018	2	12.5	2	100	0	50	52	0	0	48	1.00
3503169--3503270	23	4.4	23	85	4	109	32	21	25	20	1.98
3503174--3503280	46	2.3	46	80	0	124	32	20	25	21	1.97
3503444--3503477	14	2.4	14	95	0	59	38	23	2	35	1.70
3504493--3504522	10	3.0	10	100	0	60	20	20	10	50	1.76
3508419--3508496	23	3.5	22	74	10	77	35	25	21	16	1.94
3508933--3508978	16	2.9	16	75	15	51	19	23	17	39	1.92
3513214--3513336	50	2.6	46	80	9	147	41	7	20	30	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3513782--3513834	22	2.4	22	96	0	97	22	35	18	22	1.95
3515448--3515478	6	5.3	6	92	7	55	32	0	0	67	0.91
3520738--3520793	29	2.0	28	89	3	85	57	0	0	42	0.99
3523641--3523669	14	2.1	14	100	0	58	37	20	20	20	1.94
3523990--3524164	86	2.0	89	88	4	268	35	15	18	30	1.92
3529138--3529458	166	1.9	167	84	6	425	47	6	7	37	1.58
3530649--3530701	29	1.9	26	85	11	70	75	0	0	24	0.80
3530649--3530701	6	8.0	6	86	12	52	75	0	0	24	0.80
3534963--3535037	3	24.7	3	81	12	55	64	6	1	28	1.27
3535118--3535157	17	2.4	16	79	4	53	45	7	2	45	1.45
3535125--3535208	43	1.9	43	85	4	114	42	10	2	44	1.52
3551039--3551068	3	9.7	3	92	7	51	66	0	0	33	0.92
3551257--3551911	45	14.7	45	90	3	997	34	20	23	22	1.97
3552775--3552985	22	9.6	22	93	0	341	37	11	16	33	1.85
3553352--3553566	54	4.0	54	78	8	195	26	23	13	36	1.92
3553352--3553557	108	1.9	108	85	4	281	26	23	12	36	1.91
3553871--3553930	26	2.3	26	91	2	93	60	11	10	18	1.58
3554455--3554700	75	3.3	75	91	1	386	29	23	15	32	1.95
3556660--3556705	21	2.2	21	100	0	92	30	8	30	30	1.87
3559000--3559080	42	2.0	41	82	4	101	20	18	14	45	1.85
3559387--3559419	16	2.1	16	88	5	50	63	6	15	15	1.49
3559450--3559479	13	2.2	14	94	5	53	63	6	16	13	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3561414--3561439	2	13.0	2	100	0	52	50	0	0	50	1.00
3563192--3563232	3	13.3	3	89	5	64	65	0	0	34	0.93
3577014--3577046	16	2.1	16	100	0	66	57	0	18	24	1.40
3578099--3578148	20	2.5	20	100	0	100	54	4	10	32	1.52
3580997--3581052	24	2.3	24	100	0	112	17	3	28	50	1.63
3581507--3581677	85	2.0	86	91	1	281	30	16	17	35	1.92
3581635--3581712	21	3.8	20	82	11	79	37	24	12	25	1.91
3581635--3581712	41	1.9	41	86	5	113	37	24	12	25	1.91
3586969--3587146	49	3.6	49	93	0	302	28	20	13	38	1.90
3586949--3587146	98	2.0	99	91	1	317	27	19	14	38	1.90
3595272--3595309	20	2.0	20	89	5	60	23	18	5	52	1.65
3595385--3595528	49	2.9	49	90	1	225	28	20	12	38	1.89
3601176--3601222	8	5.9	8	100	0	94	51	0	36	12	1.40
3601906--3601946	19	2.2	19	90	0	64	36	12	29	21	1.90
3602384--3602658	49	5.6	48	84	4	329	40	14	17	27	1.88
3602385--3602659	147	1.9	147	85	2	383	40	14	17	27	1.88
3609043--3609386	49	7.0	49	87	2	476	39	16	19	25	1.91
3613088--3613138	22	2.3	22	89	0	75	35	13	25	25	1.93
3613529--3613637	45	2.4	45	79	0	110	35	8	19	36	1.82
3614893--3614979	44	2.0	44	88	4	131	36	21	19	21	1.95
3614905--3614979	22	3.4	21	72	7	69	37	21	17	24	1.94
3621910--3621952	22	2.0	22	85	0	59	34	25	13	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3622924--3622971	13	3.4	14	85	5	62	68	0	25	6	1.12
3625101--3625277	90	2.0	90	90	0	282	44	7	9	37	1.66
3626861--3626927	30	2.2	30	89	5	100	44	7	14	32	1.74
3636356--3636411	23	2.3	24	84	9	69	50	0	1	48	1.11
3644106--3644186	30	2.6	30	79	13	85	46	7	16	29	1.73
3651845--3651929	29	2.9	28	81	6	98	35	14	5	44	1.69
3673892--3673919	13	2.2	13	100	0	56	78	0	7	14	0.95
3675752--3675788	16	2.3	16	90	0	56	64	2	2	29	1.21
3681909--3681951	20	2.2	20	86	0	59	32	23	13	30	1.93
3682242--3682299	29	2.0	29	93	0	98	27	13	10	48	1.75

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