genome.fa.s8824.2.7.7.80.10.50.1000.17.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: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4603428

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  17  of  19  ( 2203 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)
3791551--3791630	24	3.6	22	81	17	78	42	5	1	51	1.31
3801381--3801648	134	2.0	134	100	0	536	26	27	23	22	2.00
3806972--3807029	27	2.1	27	87	0	80	29	12	12	46	1.77
3814415--3814452	18	2.1	18	90	0	58	36	7	2	52	1.45
3815687--3815716	3	10.0	3	100	0	60	33	0	0	66	0.92
3815780--3815851	2	36.5	2	97	2	137	50	0	0	50	1.00
3818759--3818798	15	2.7	15	88	0	62	65	7	7	20	1.43
3819132--3819197	30	2.2	30	86	7	98	59	9	15	16	1.61
3819143--3819211	30	2.3	30	85	5	86	60	10	13	15	1.58
3820001--3820040	15	2.7	15	96	0	71	67	5	7	20	1.34
3820396--3820452	30	1.9	30	88	0	87	64	7	8	19	1.44
3822154--3822186	17	1.9	17	93	0	57	36	21	3	39	1.69
3829221--3829614	108	3.7	108	87	2	517	35	21	17	25	1.95
3829244--3829615	162	2.3	161	85	3	507	34	21	18	25	1.96
3829220--3829627	54	7.6	54	83	3	448	36	21	17	25	1.95
3836132--3836586	54	8.4	54	84	2	567	35	20	16	26	1.94
3841558--3841681	65	1.9	64	93	1	212	29	21	18	30	1.97
3841560--3841706	65	2.3	65	88	3	208	28	21	19	30	1.97
3841560--3841726	65	2.6	65	83	10	184	29	20	19	30	1.97
3844109--3844144	2	18.0	2	100	0	72	50	0	0	50	1.00
3846897--3847073	90	2.0	89	89	1	273	43	6	10	38	1.66
3850858--3850883	2	13.0	2	100	0	52	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3851800--3851894	20	4.9	20	69	10	81	24	21	27	27	1.99
3851799--3851892	18	5.0	18	75	7	89	22	21	27	28	1.99
3851799--3851886	38	2.3	38	84	0	113	21	21	26	30	1.98
3852166--3852221	23	2.3	24	80	20	64	41	3	19	35	1.69
3853295--3853341	2	23.5	2	95	0	85	48	0	2	48	1.13
3861158--3861480	161	2.0	162	99	0	639	30	17	23	28	1.97
3862028--3862062	18	2.0	17	94	5	61	80	2	0	17	0.84
3862031--3862084	17	3.5	15	78	14	58	77	3	1	16	1.00
3863637--3863922	39	7.4	39	86	1	387	35	13	17	33	1.90
3864236--3864351	42	2.8	41	79	6	126	29	20	22	27	1.99
3865951--3866072	53	2.3	54	87	4	167	29	17	27	26	1.97
3866249--3866295	19	2.6	18	83	12	60	53	2	4	40	1.32
3866256--3866303	19	2.5	20	89	3	71	54	4	4	37	1.39
3873912--3874031	55	2.2	55	86	4	172	28	14	25	31	1.94
3874222--3874265	20	2.2	20	88	4	63	54	4	4	36	1.41
3876920--3876948	13	2.2	13	100	0	58	13	48	13	24	1.79
3877336--3877388	24	2.2	24	100	0	106	47	16	15	20	1.83
3880225--3880265	2	21.5	2	90	9	68	48	0	0	51	1.00
3883563--3883644	31	2.6	31	94	0	146	32	19	13	34	1.91
3883625--3883710	32	2.7	32	96	0	163	26	20	17	34	1.95
3883701--3883743	19	2.3	19	95	0	77	39	30	9	20	1.84
3885525--3885570	21	2.2	20	84	3	56	32	23	6	36	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3885626--3885685	20	3.1	19	76	11	59	36	20	23	20	1.95
3885738--3885842	41	2.6	41	90	0	165	37	14	19	29	1.91
3890962--3890993	16	2.1	16	88	11	50	34	3	0	62	1.11
3896536--3896570	16	2.2	16	90	10	54	34	2	0	62	1.10
3898140--3898178	19	2.2	18	86	9	53	66	0	12	20	1.24
3899619--3899724	36	2.9	37	94	2	196	19	17	25	36	1.94
3899826--3900033	76	2.8	76	78	7	201	23	16	17	42	1.89
3901484--3901548	31	2.1	31	100	0	130	38	3	12	46	1.57
3915847--3915930	35	2.5	34	84	13	111	55	8	8	27	1.58
3915926--3915950	13	1.9	13	100	0	50	64	8	0	28	1.22
3918036--3918074	14	2.8	14	84	0	51	41	33	0	25	1.56
3920484--3920661	29	6.2	29	81	5	166	38	23	6	32	1.79
3927739--3927924	29	6.3	29	84	4	203	39	22	4	33	1.75
3927739--3927924	88	2.1	87	83	5	223	39	22	4	33	1.75
3934009--3934310	138	2.2	138	80	7	337	28	14	12	45	1.80
3935465--3935493	12	2.4	12	100	0	58	24	6	13	55	1.63
3936343--3936519	26	7.5	26	74	14	138	20	22	12	44	1.85
3936396--3936531	20	6.2	20	72	18	110	20	23	11	44	1.84
3936311--3936552	46	5.3	46	79	11	271	21	19	12	45	1.83
3936311--3936519	66	3.0	70	82	8	264	21	21	12	44	1.84
3942451--3942489	20	2.0	20	94	0	69	20	23	12	43	1.86
3942398--3942561	46	3.6	46	89	0	247	21	20	12	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3942471--3942771	72	4.3	72	75	13	300	21	19	11	46	1.82
3942430--3942679	118	2.1	118	92	0	410	21	20	12	46	1.83
3942548--3942850	46	6.6	46	90	1	455	22	19	11	46	1.82
3942398--3942791	210	1.9	207	88	3	587	22	20	11	45	1.83
3949384--3949429	21	2.2	21	84	0	56	32	15	28	23	1.95
3951258--3951930	340	2.0	337	88	3	994	37	15	20	27	1.92
3953610--3953641	2	16.0	2	100	0	64	50	0	0	50	1.00
3956268--3956661	138	2.9	137	75	11	347	47	12	12	26	1.78
3956857--3956898	15	2.9	15	86	10	52	33	0	23	42	1.55
3959222--3959490	116	2.3	116	79	5	301	28	21	11	37	1.89
3959981--3960041	25	2.3	26	83	10	72	11	13	0	75	1.05
3982141--3982389	125	2.0	124	89	2	383	28	6	20	44	1.76
3991411--3991696	143	2.0	143	100	0	572	34	11	25	27	1.91
3993705--3993746	21	1.9	23	85	9	61	30	4	4	59	1.39
3995817--3995874	5	10.8	5	78	14	62	6	22	51	18	1.70
3995810--3995875	17	4.3	17	75	25	83	10	22	48	18	1.78
3995817--3995874	27	2.1	27	100	0	116	6	22	51	18	1.70
3995871--3995939	9	7.3	9	86	4	75	27	30	27	14	1.95
3995885--3995939	10	5.8	9	87	6	65	27	30	27	14	1.95
3995882--3995960	19	4.1	19	77	11	79	29	26	25	18	1.98
3995885--3995940	29	1.9	29	92	7	96	26	30	26	16	1.96
4000928--4001021	47	2.0	47	95	4	172	29	37	6	26	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4003036--4003066	7	4.4	7	91	0	53	29	29	25	16	1.96
4003860--4003885	2	13.0	2	100	0	52	50	0	0	50	1.00
4009760--4009890	21	6.0	22	73	11	92	22	9	25	42	1.83
4009758--4009890	44	3.0	44	85	4	153	21	9	26	42	1.82
4010018--4010045	13	2.2	13	100	0	56	35	0	17	46	1.49
4010683--4010821	67	2.1	67	98	0	269	13	14	17	54	1.71
4021043--4021121	23	3.4	23	73	23	76	78	3	15	2	1.00
4021042--4021124	8	10.6	8	72	14	57	79	3	14	2	0.97
4021041--4021132	46	2.0	46	87	10	134	77	5	13	4	1.10
4026292--4026332	22	1.9	21	85	5	55	41	36	0	21	1.54
4031769--4032074	153	2.0	153	100	0	612	26	22	18	32	1.97
4034726--4034773	21	2.2	22	78	14	55	4	16	4	75	1.12
4034727--4034774	22	2.2	22	85	7	62	2	16	4	77	1.03
4038325--4038361	19	1.9	19	88	0	56	35	10	8	45	1.69
4059517--4059859	82	4.2	82	78	1	364	36	19	10	33	1.86
4059517--4059860	164	2.1	163	83	3	422	36	19	10	34	1.86
4059507--4059901	41	9.6	41	71	6	190	35	19	10	33	1.87
4059728--4059959	123	1.9	123	81	1	286	35	18	10	34	1.86
4065464--4065640	90	2.0	89	94	1	309	36	11	6	44	1.68
4069893--4069941	18	2.8	18	90	3	73	20	4	40	34	1.71
4070080--4070127	25	1.9	25	100	0	96	47	8	27	16	1.75
4070082--4070135	25	2.2	25	93	0	90	53	7	24	14	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4081667--4081699	17	1.9	17	93	0	57	30	30	0	39	1.57
4082645--4082683	17	2.3	17	100	0	78	46	7	30	15	1.74
4086474--4086530	27	2.4	21	71	28	60	43	10	19	26	1.83
4090766--4090860	50	1.9	50	84	4	129	17	22	23	36	1.95
4095866--4095937	17	4.2	17	76	3	63	38	8	15	37	1.77
4095893--4095936	18	2.5	18	85	10	56	43	11	9	36	1.72
4102144--4102241	17	5.8	16	72	14	56	40	7	12	39	1.70
4106401--4106529	17	7.5	17	76	10	100	41	8	13	36	1.74
4106451--4106529	34	2.3	34	88	0	113	41	7	16	34	1.77
4108924--4108968	23	2.0	23	82	8	56	40	4	2	53	1.33

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19