genome.fa.s8138.2.7.7.80.10.50.1000.17.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: VEPZ01008138.1 Hibiscus syriacus cultivar Beakdansim tig00110694_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3838456

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  17  of  18  ( 2117 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)
3467990--3468170	39	4.7	38	75	8	145	33	24	24	17	1.96
3469046--3469088	17	2.5	17	96	0	77	39	9	6	44	1.64
3471124--3471164	22	1.9	22	85	5	57	7	21	4	65	1.37
3475746--3475806	3	19.3	3	76	18	54	65	1	0	32	1.02
3475746--3475805	13	4.7	13	80	10	70	65	1	0	33	1.03
3476109--3476572	132	3.5	131	80	3	452	31	17	20	29	1.96
3476462--3476493	15	2.1	15	94	0	55	40	9	15	34	1.80
3477121--3477227	42	2.6	41	81	10	119	32	19	17	29	1.95
3477049--3477419	179	2.1	177	84	3	476	35	18	15	30	1.92
3485559--3485583	7	3.6	7	100	0	50	16	0	0	84	0.63
3487599--3487647	20	2.5	20	86	0	71	34	26	16	22	1.95
3488211--3488254	20	2.2	20	84	4	54	13	13	13	59	1.62
3491847--3491948	41	2.5	40	82	6	107	32	11	20	35	1.89
3491887--3491947	20	3.0	20	75	15	63	29	8	26	36	1.85
3491888--3492028	40	3.5	40	72	18	98	29	12	20	37	1.90
3491962--3492020	20	3.0	20	87	0	91	27	20	15	37	1.92
3492010--3492123	21	5.5	21	92	1	151	34	18	23	23	1.96
3493830--3493881	20	2.6	20	81	6	61	28	15	28	26	1.96
3494346--3494400	15	3.7	15	78	9	58	29	3	23	43	1.71
3494555--3494602	24	2.0	24	91	0	78	25	25	20	29	1.99
3501137--3501218	15	5.5	15	85	0	101	32	6	19	41	1.76
3501369--3501420	24	2.2	24	89	0	77	19	25	21	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3503037--3503084	19	2.5	19	96	0	87	39	16	14	29	1.88
3503800--3503875	23	3.5	22	87	5	91	14	22	27	35	1.93
3503808--3503875	21	3.1	22	87	6	93	14	20	29	35	1.93
3507528--3507566	19	2.0	20	85	5	53	33	20	0	46	1.51
3512119--3512225	57	1.9	56	82	1	133	29	17	24	28	1.97
3514702--3514812	56	2.0	57	87	5	163	28	21	19	29	1.98
3520883--3520949	33	2.0	33	94	0	116	28	17	23	29	1.97
3521009--3521051	20	2.2	20	91	0	68	18	4	20	55	1.60
3521057--3521155	46	2.2	45	90	1	153	38	7	23	31	1.81
3523216--3523285	23	3.1	22	83	6	86	14	22	30	32	1.94
3533989--3534022	14	2.4	14	90	0	59	23	0	26	50	1.50
3535066--3535187	48	2.6	46	80	10	138	41	7	20	30	1.79
3535542--3535594	22	2.4	22	87	0	79	20	32	18	28	1.97
3540445--3540483	13	3.0	13	100	0	78	23	30	30	15	1.95
3540441--3540483	20	2.2	20	91	8	70	23	30	30	16	1.96
3540473--3540547	17	4.4	17	98	0	132	16	24	42	17	1.88
3540441--3540483	7	6.4	7	89	10	72	23	30	30	16	1.96
3542897--3542930	14	2.4	14	100	0	68	23	0	29	47	1.52
3552086--3552269	96	1.9	96	85	2	253	40	19	12	28	1.87
3559128--3559160	14	2.4	14	94	0	57	30	18	24	27	1.98
3561343--3561407	34	1.9	34	81	12	80	29	16	26	27	1.97
3564225--3564289	34	1.9	34	84	6	87	32	15	23	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3571226--3571260	15	2.4	15	95	4	63	68	0	0	31	0.90
3571252--3571351	29	3.6	29	77	15	86	52	7	0	41	1.29
3571284--3571351	26	2.4	29	79	13	81	52	8	0	38	1.33
3572844--3573022	64	2.8	64	85	1	225	30	16	24	29	1.97
3573430--3573471	20	2.1	20	100	0	84	33	21	0	45	1.52
3581402--3581580	64	2.8	63	81	8	200	29	17	24	29	1.97
3583608--3583642	16	2.2	16	89	0	52	34	2	0	62	1.10
3583655--3583693	20	1.9	21	89	5	62	43	0	5	51	1.24
3583679--3583735	30	1.9	30	85	0	78	33	0	10	56	1.34
3585911--3585947	13	2.7	14	87	4	58	35	10	13	40	1.80
3586109--3586154	24	1.9	23	83	16	58	47	2	0	50	1.13
3586139--3586201	23	2.6	24	78	19	60	50	1	0	47	1.10
3586173--3586219	22	2.1	23	88	4	69	44	2	0	53	1.12
3586167--3586246	32	2.5	32	80	14	92	46	2	0	51	1.14
3586210--3586244	18	1.9	18	88	0	52	51	2	0	45	1.16
3586209--3586257	23	2.1	23	88	0	71	53	2	2	42	1.24
3586300--3586380	27	3.0	27	71	16	69	45	2	2	49	1.28
3587334--3587383	14	3.6	14	86	5	57	26	16	28	30	1.96
3589805--3589838	15	2.3	15	100	0	68	35	8	11	44	1.72
3592226--3592340	60	1.9	60	80	7	135	32	19	5	43	1.73
3595993--3596114	32	3.8	31	75	4	91	18	27	28	25	1.98
3596052--3596134	32	2.6	32	80	3	87	18	26	26	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3600858--3600887	15	2.0	15	93	0	51	16	46	23	13	1.82
3604330--3604381	15	3.5	15	100	0	104	5	69	19	5	1.30
3604918--3604994	32	2.4	32	95	0	136	22	11	36	29	1.89
3605208--3605867	181	3.6	181	85	3	855	42	12	16	27	1.85
3608164--3608292	66	2.0	66	81	3	152	33	2	39	24	1.68
3608257--3608576	158	2.0	158	92	1	534	43	3	32	20	1.68
3611381--3611425	21	2.1	21	95	0	81	22	33	11	33	1.89
3612871--3613212	171	2.0	171	91	0	558	39	13	14	32	1.85
3613042--3614097	199	5.3	198	88	3	1548	39	13	14	33	1.84
3616859--3616911	24	2.2	23	90	6	79	30	3	13	52	1.57
3616870--3616922	24	2.2	24	86	0	70	35	1	13	49	1.53
3618364--3619723	199	6.8	199	88	4	1892	38	14	14	31	1.87
3622067--3622117	23	2.2	23	89	0	75	31	21	9	37	1.86
3622077--3622126	23	2.2	23	92	0	82	32	18	12	38	1.87
3621922--3622455	158	3.4	158	92	0	825	32	13	12	40	1.83
3622235--3622284	23	2.2	23	88	0	73	32	16	12	40	1.84
3622392--3622436	23	2.0	23	86	0	63	37	17	6	37	1.76
3625819--3625862	21	2.0	22	86	4	63	15	6	6	70	1.31
3633358--3633432	10	8.7	10	68	31	66	57	22	12	8	1.60
3633362--3633426	16	4.1	16	100	0	130	56	24	12	6	1.58
3634228--3634302	24	3.1	24	86	0	105	54	20	12	13	1.70
3634248--3634303	14	4.3	14	78	17	66	51	23	14	10	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3635533--3636128	322	1.8	327	85	5	839	32	19	16	31	1.94
3636295--3636335	21	1.9	22	85	5	57	41	0	0	58	0.98
3637594--3637662	26	2.7	26	97	0	129	34	11	4	49	1.59
3637654--3637733	40	2.0	40	100	0	160	32	20	7	40	1.80
3639497--3639613	59	2.0	58	83	11	150	31	19	5	43	1.73
3644081--3644111	2	15.5	2	100	0	62	51	0	0	48	1.00
3644151--3644178	2	14.0	2	100	0	56	50	0	0	50	1.00
3645144--3645200	3	19.0	3	82	13	73	33	1	0	64	1.04
3645142--3645200	24	2.5	23	88	5	82	32	1	0	66	1.02
3646892--3646937	2	23.0	2	100	0	92	50	0	0	50	1.00
3649771--3649869	47	2.2	44	90	5	153	16	17	9	57	1.63
3651583--3651621	8	4.8	8	87	6	60	76	0	23	0	0.78
3652075--3652136	32	1.9	32	90	0	97	43	16	17	22	1.87
3656119--3656173	22	2.5	22	100	0	110	34	12	14	38	1.84
3656879--3656976	50	2.0	50	97	0	187	25	21	20	32	1.97
3656927--3657191	73	3.6	73	95	0	485	26	19	21	32	1.97
3657372--3657428	3	19.0	3	100	0	114	33	0	0	66	0.92
3658727--3658752	11	2.4	11	100	0	52	34	0	0	65	0.93
3666523--3666603	23	3.6	22	78	8	92	24	25	24	24	2.00
3675152--3675233	23	3.6	23	74	11	80	26	26	21	24	2.00
3677913--3678072	65	2.5	65	81	9	159	32	22	16	28	1.96
3689160--3689198	20	2.0	20	89	0	60	33	23	10	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3697604--3697753	29	5.3	29	76	5	137	40	22	6	30	1.79
3697621--3697753	58	2.3	58	84	2	169	39	23	6	30	1.80
3697789--3697832	17	2.5	17	96	3	79	13	22	47	15	1.81
3697847--3697882	11	3.6	10	89	10	56	33	30	22	13	1.93
3703756--3703894	29	4.9	28	70	13	95	41	17	5	35	1.73
3703867--3703931	28	2.3	29	78	2	78	41	26	7	24	1.82
3703967--3703992	12	2.2	12	100	0	52	15	23	46	15	1.83
3703948--3703987	17	2.4	17	100	0	80	10	25	47	17	1.78
3706112--3706150	20	2.0	20	89	0	60	33	23	10	33	1.88
3715981--3716033	21	2.5	20	84	3	70	22	15	32	30	1.94

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18