genome.fa.s7716.2.7.7.80.10.50.1000.15.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: VEPZ01007716.1 Hibiscus syriacus cultivar Beakdansim tig00109945_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4364108

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

This is table  15  of  17  ( 1966 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)
3788136--3788352	104	2.1	105	87	5	314	44	16	15	23	1.85
3788239--3788492	128	2.0	130	88	3	379	48	12	14	24	1.78
3799664--3799732	23	3.2	23	67	23	58	40	8	10	40	1.70
3801707--3801733	2	13.5	2	100	0	54	0	51	0	48	1.00
3802386--3802542	29	5.4	29	74	3	138	30	5	12	51	1.62
3802366--3802531	58	2.9	59	75	3	158	33	6	11	48	1.65
3802546--3802617	29	2.5	29	86	0	99	38	8	8	44	1.65
3804622--3804692	23	3.1	23	79	4	81	21	19	25	33	1.97
3804680--3804735	24	2.4	24	84	3	78	26	21	19	32	1.97
3804690--3804742	24	2.2	24	82	0	61	24	22	22	30	1.99
3806201--3806295	32	3.0	32	80	6	102	36	17	18	26	1.94
3808134--3808188	17	3.3	17	70	14	51	32	18	16	32	1.93
3808134--3808218	18	4.9	17	75	4	64	30	17	15	36	1.91
3809803--3809989	61	3.1	61	92	0	320	27	24	17	29	1.97
3812082--3812119	11	3.5	11	88	0	58	34	7	7	50	1.61
3818129--3818194	20	3.5	20	68	19	68	43	25	1	28	1.63
3822392--3822831	74	5.9	74	81	3	456	32	8	16	42	1.78
3822395--3822961	148	3.9	145	79	6	591	32	8	16	41	1.80
3822392--3822831	222	2.0	222	82	5	532	32	8	16	42	1.78
3822754--3822895	65	2.2	65	86	6	189	30	8	18	42	1.80
3822680--3822961	139	2.0	140	82	7	342	31	8	17	41	1.80
3823150--3823215	32	2.1	32	97	0	123	24	13	19	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3823190--3823241	21	2.4	21	78	12	52	26	11	17	44	1.83
3830039--3830093	23	2.4	23	96	0	101	25	12	23	38	1.90
3837725--3837761	15	2.4	16	82	8	51	62	0	5	32	1.18
3838416--3838515	35	2.8	36	86	6	130	31	16	15	38	1.89
3838976--3839477	106	4.9	102	80	6	539	21	20	24	33	1.97
3839300--3839637	160	2.1	160	93	2	590	20	21	25	33	1.97
3839496--3839685	105	1.8	105	85	0	272	20	21	24	33	1.97
3840004--3840232	103	2.2	103	81	3	257	41	13	19	25	1.89
3840139--3840298	65	2.5	65	92	0	275	35	12	20	31	1.90
3840204--3840661	102	4.5	103	92	1	753	36	12	20	30	1.90
3840104--3840421	167	1.9	169	90	2	516	37	12	19	30	1.89
3840371--3840679	37	8.9	37	69	17	223	36	13	20	28	1.91
3840575--3840679	36	2.9	36	92	1	165	38	13	23	24	1.91
3841476--3841526	22	2.3	22	93	0	84	27	11	25	35	1.91
3842136--3842187	20	2.6	20	81	6	61	5	9	5	78	1.07
3845231--3845274	22	2.0	22	86	4	63	77	0	11	11	1.00
3845553--3845590	16	2.4	16	82	4	51	63	0	5	31	1.17
3845762--3845804	15	2.7	15	85	7	59	62	0	0	37	0.95
3846241--3846322	35	2.3	35	87	4	110	31	17	12	39	1.86
3846241--3846340	37	2.8	36	84	9	123	31	16	14	39	1.87
3854391--3854431	21	1.9	22	85	5	57	21	14	19	43	1.87
3854745--3854845	44	2.2	45	82	5	132	42	11	4	40	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3855236--3855329	46	2.0	46	95	0	170	31	15	6	45	1.72
3855248--3855345	46	2.1	46	86	3	135	31	15	9	43	1.78
3856500--3857279	392	2.0	391	95	0	1418	37	13	13	35	1.84
3859181--3859227	23	2.0	24	87	4	69	53	2	34	10	1.48
3860150--3860182	2	17.0	2	93	6	59	51	0	0	48	1.00
3860214--3860253	14	2.7	15	80	7	55	45	0	10	45	1.37
3860460--3860501	21	2.0	22	85	4	59	23	19	16	40	1.91
3860477--3860558	41	2.0	41	83	4	103	36	20	18	24	1.95
3860491--3860558	20	3.3	20	89	2	91	38	22	19	20	1.94
3860483--3860637	20	7.7	20	71	16	90	38	20	15	25	1.92
3860587--3860637	21	2.5	21	90	6	79	39	23	9	27	1.86
3863890--3863923	12	2.8	12	100	0	68	52	17	5	23	1.66
3863888--3863929	12	3.5	12	90	0	57	54	16	7	21	1.65
3863902--3863936	18	1.9	18	88	0	52	54	22	2	20	1.58
3864249--3864284	14	2.6	15	83	16	51	47	27	19	5	1.72
3864272--3864391	40	3.0	40	76	0	132	27	20	20	31	1.97
3864322--3864391	20	3.5	20	96	0	122	28	21	20	30	1.98
3864280--3864391	20	5.6	20	86	0	116	26	19	20	33	1.97
3864301--3864404	40	2.6	40	78	0	127	27	20	20	31	1.97
3864459--3864614	64	2.5	64	94	3	271	50	17	1	29	1.57
3866007--3866105	21	4.7	21	84	0	126	24	20	33	22	1.97
3865987--3866080	42	2.2	42	90	0	143	22	20	36	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3866007--3866109	42	2.5	42	86	0	143	24	20	33	21	1.97
3868240--3868270	14	2.2	14	94	0	53	6	19	25	48	1.72
3868253--3868296	20	2.2	20	87	0	61	13	13	20	52	1.74
3868619--3868661	22	2.0	22	90	0	68	23	11	39	25	1.88
3868819--3868861	20	2.2	20	91	0	68	18	18	20	41	1.90
3879762--3879810	25	2.0	24	84	11	64	42	6	4	46	1.47
3879942--3880030	21	3.9	21	76	18	79	30	1	24	43	1.61
3879950--3880063	28	4.1	28	70	18	85	28	0	28	42	1.61
3883142--3883201	17	3.5	17	88	0	93	26	18	30	25	1.98
3883174--3883222	24	2.1	23	88	3	71	22	26	22	28	1.99
3884289--3884328	20	2.0	20	100	0	80	25	10	20	45	1.81
3890188--3890221	16	2.1	16	100	0	68	17	29	5	47	1.71
3892317--3892372	23	2.4	25	80	14	66	39	0	5	55	1.23
3892317--3892372	11	4.8	12	75	14	55	39	0	5	55	1.23
3892855--3892959	52	2.0	52	94	0	183	29	13	19	38	1.89
3894756--3894845	44	2.1	44	83	6	114	47	2	3	46	1.31
3898863--3898913	19	2.7	19	93	0	84	17	17	25	39	1.92
3903807--3903862	21	2.7	21	80	0	67	26	39	10	23	1.87
3907392--3907444	20	2.7	20	87	0	70	20	24	22	32	1.98
3910787--3910834	19	2.5	20	82	3	62	52	6	12	29	1.63
3912636--3912700	34	2.0	32	82	14	80	29	15	23	32	1.95
3915402--3915649	134	1.8	133	85	5	347	41	13	17	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3917459--3917508	17	2.9	17	81	0	64	36	16	6	42	1.72
3925584--3925645	2	31.5	2	80	9	56	51	1	3	43	1.27
3928163--3928244	29	2.8	29	92	1	137	31	13	13	41	1.83
3932267--3932821	54	10.5	54	79	9	304	31	19	16	33	1.94
3932269--3932840	108	5.4	107	81	6	646	31	19	16	33	1.94
3932325--3933544	108	11.7	102	72	13	516	30	18	16	34	1.93
3932328--3932787	155	2.9	157	85	7	553	30	19	16	33	1.94
3932865--3933563	54	13.1	54	83	7	847	30	18	15	34	1.92
3932705--3932976	137	2.0	136	92	0	454	29	16	17	36	1.92
3933588--3933862	54	5.1	54	88	5	407	30	17	16	36	1.92
3932263--3933864	723	2.2	720	94	1	2814	30	18	16	34	1.93
3933428--3933699	137	2.0	136	91	0	445	29	16	16	36	1.91
3933588--3933863	107	2.6	107	91	2	430	30	17	16	35	1.92
3934312--3934368	20	2.8	20	91	0	69	19	31	14	35	1.91
3948743--3949570	54	15.5	53	80	5	764	32	17	14	35	1.91
3953898--3953942	13	3.8	13	77	22	62	42	0	0	57	0.98
3953889--3953941	22	2.4	22	96	3	97	43	0	0	56	0.99
3969759--3970024	91	2.9	91	85	3	331	37	16	22	23	1.93
3969959--3970022	17	3.3	19	67	20	51	37	12	26	23	1.90
3970485--3970521	18	2.1	18	94	0	65	27	43	21	8	1.80
3974007--3974045	21	1.9	20	84	5	51	51	7	12	28	1.67
3978288--3978354	28	2.4	28	92	0	116	49	19	11	19	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3979880--3979925	22	2.1	22	91	0	74	50	10	2	36	1.50
3988138--3988196	30	2.0	30	83	12	77	33	22	6	37	1.80
3999413--3999897	4	122.2	4	97	1	924	49	24	0	25	1.53
4009515--4009552	20	1.9	20	88	0	58	13	26	36	23	1.91
4022383--4022799	45	9.3	45	85	3	448	29	22	12	35	1.91
4022400--4022798	90	4.4	90	86	1	539	29	22	12	35	1.91
4022400--4022801	135	3.0	134	84	2	536	29	22	12	35	1.91
4022774--4022945	45	3.8	45	80	6	213	24	19	8	48	1.76
4022404--4022935	90	5.9	89	78	6	392	27	21	11	39	1.88
4022978--4023590	68	9.0	68	83	4	743	30	26	14	29	1.95

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