genome.fa.s8082.2.7.7.80.10.50.1000.19.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: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6025995

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   

This is table  19  of  28  ( 3312 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)
3805864--3805946	43	1.9	43	82	0	103	27	10	25	36	1.89
3806112--3806156	21	2.1	21	100	0	90	17	35	24	22	1.95
3807774--3807825	19	2.8	18	80	11	52	65	1	5	26	1.26
3809050--3809129	3	27.0	3	76	7	65	68	1	1	28	1.05
3809050--3809131	24	3.5	23	80	9	85	69	1	1	28	1.03
3809477--3810068	113	5.2	113	96	0	1085	27	21	15	35	1.93
3809814--3810370	302	1.8	304	88	4	865	29	19	14	36	1.91
3810114--3810521	112	3.7	110	84	9	513	29	18	13	37	1.90
3809701--3810480	415	1.9	417	87	5	1175	28	19	14	36	1.92
3810114--3810552	225	2.0	223	88	2	666	29	18	14	36	1.91
3810960--3811014	22	2.5	22	93	0	101	40	14	10	34	1.81
3811381--3811536	54	2.9	54	93	0	249	21	23	16	38	1.93
3818048--3818123	14	5.5	13	71	13	55	55	13	14	17	1.70
3818056--3818104	20	2.5	20	82	0	62	57	12	12	18	1.65
3818060--3818129	35	2.0	34	86	2	95	57	11	12	18	1.65
3818592--3818912	167	1.9	167	100	0	642	21	23	15	38	1.92
3818873--3818951	39	2.0	39	100	0	158	25	22	17	34	1.96
3819917--3819955	13	3.0	13	80	0	51	74	0	0	25	0.82
3819917--3819964	21	2.3	21	89	3	71	72	0	2	25	0.95
3822222--3822304	3	28.0	3	79	7	89	66	1	1	31	1.07
3822270--3822316	15	3.1	15	84	6	51	65	0	2	31	1.04
3825042--3825225	84	2.2	84	80	5	212	34	14	11	39	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3825328--3825371	21	2.1	21	86	0	61	52	22	0	25	1.48
3831609--3831965	40	8.9	41	70	7	212	36	16	16	29	1.91
3831662--3831948	82	3.6	80	76	6	242	37	16	16	29	1.91
3835209--3835264	22	2.6	21	83	5	67	35	14	28	21	1.92
3848224--3848284	31	2.0	31	86	0	86	39	19	9	31	1.84
3854307--3854344	16	2.5	15	80	12	51	63	15	7	13	1.51
3855667--3855701	17	2.0	18	88	5	54	31	14	0	54	1.40
3859966--3860025	18	3.3	18	90	0	93	23	31	28	16	1.96
3860440--3860474	17	2.0	18	88	5	54	31	14	0	54	1.40
3862044--3862087	23	1.9	23	90	0	70	59	22	11	6	1.55
3862046--3862095	23	2.2	23	82	7	57	60	26	10	4	1.47
3862344--3862396	14	4.1	14	79	18	69	56	16	13	13	1.67
3862344--3862409	24	2.7	24	90	4	105	54	15	13	16	1.71
3863246--3863551	166	1.8	165	94	2	542	38	8	11	40	1.72
3865540--3865602	27	2.3	27	97	0	117	46	23	6	23	1.75
3866032--3866099	30	2.3	30	92	0	109	36	23	10	29	1.88
3871160--3871188	2	14.5	2	100	0	58	51	0	0	48	1.00
3876530--3876584	27	2.0	27	89	0	83	43	3	3	49	1.37
3877831--3877886	24	2.3	24	90	0	85	28	26	25	19	1.99
3886323--3886390	13	5.2	13	87	0	91	27	20	16	35	1.94
3886547--3886571	2	12.5	2	100	0	50	48	0	0	52	1.00
3892738--3893130	193	2.0	196	98	1	756	26	10	11	50	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3895028--3895053	9	2.9	9	100	0	52	11	57	30	0	1.34
3895201--3895264	10	6.1	10	77	15	58	20	29	28	21	1.98
3905100--3905240	71	2.0	71	87	0	201	36	7	11	43	1.70
3905242--3905303	30	2.1	29	82	8	72	38	11	8	41	1.70
3914592--3914627	17	2.1	17	89	0	54	41	5	16	36	1.72
3918554--3918778	120	1.9	120	84	3	301	35	15	12	36	1.86
3920639--3921034	161	2.5	161	91	0	650	35	18	24	20	1.95
3920910--3920995	44	2.0	44	95	0	154	38	18	25	17	1.92
3922283--3922491	82	2.5	82	89	3	303	32	24	22	20	1.98
3927471--3927682	82	2.6	82	90	1	325	32	25	23	19	1.98
3933395--3933443	22	2.1	24	85	7	66	48	2	0	48	1.12
3938228--3938303	3	25.3	3	100	0	152	32	0	0	67	0.91
3938768--3938798	2	15.5	2	100	0	62	48	0	0	51	1.00
3945259--3945306	24	2.0	24	95	0	87	56	4	27	12	1.54
3945713--3945770	2	29.0	2	100	0	116	50	0	0	50	1.00
3947469--3947507	18	2.1	18	85	9	51	51	0	20	28	1.48
3947470--3947507	19	2.1	19	90	5	60	50	0	21	28	1.49
3947638--3947680	22	2.0	22	100	0	86	46	18	6	27	1.75
3948858--3948885	2	14.0	2	100	0	56	50	0	0	50	1.00
3949252--3949292	21	2.0	21	95	0	73	46	0	9	43	1.36
3949892--3949959	27	2.5	27	92	0	118	23	14	13	48	1.79
3957756--3957785	12	2.5	12	94	0	51	23	0	26	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3969827--3969858	2	16.0	2	100	0	64	50	0	0	50	1.00
3976232--3976284	24	2.2	24	89	0	79	43	5	0	50	1.25
3991002--3991120	20	5.8	20	77	10	116	29	24	13	32	1.93
3991140--3991191	20	2.6	20	93	0	86	32	25	21	21	1.98
3991589--3991633	23	2.0	23	86	0	63	35	11	6	46	1.66
3992913--3992956	22	2.0	22	100	0	88	31	13	36	18	1.90
3998936--3998997	26	2.4	26	83	0	70	29	32	17	20	1.96
4000799--4000854	21	2.7	21	88	2	87	14	32	33	19	1.92
4000799--4000857	20	2.9	20	82	9	75	13	30	35	20	1.91
4001810--4001857	13	3.3	13	75	25	51	16	43	25	14	1.86
4001806--4001851	18	2.6	18	89	0	74	17	47	23	10	1.79
4003111--4003148	18	2.1	18	100	0	76	50	15	5	28	1.66
4004053--4004109	14	4.1	14	90	0	87	24	8	26	40	1.84
4004335--4004422	24	3.7	24	84	0	113	25	18	19	37	1.94
4004461--4004518	19	3.1	19	66	14	57	22	8	31	37	1.84
4004447--4004518	37	1.9	37	97	0	135	23	11	30	34	1.90
4005002--4005338	168	2.0	168	100	0	674	29	10	18	41	1.84
4006737--4006782	18	2.6	18	96	0	83	17	50	21	10	1.77
4006741--4006788	18	3.2	14	76	23	53	16	43	25	14	1.86
4007921--4007958	18	2.1	18	95	0	67	50	13	5	31	1.63
4008758--4008798	14	2.9	14	85	0	64	21	12	21	43	1.85
4009023--4009110	24	3.7	24	85	0	122	25	18	20	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4009023--4009120	24	4.1	24	84	5	108	25	16	20	37	1.93
4009135--4009206	37	1.9	37	94	0	126	25	11	29	34	1.90
4011258--4011308	23	2.2	23	92	0	84	19	54	17	7	1.67
4011262--4011312	13	4.2	13	75	14	63	19	49	19	11	1.79
4013476--4013517	14	3.0	14	85	0	66	21	11	23	42	1.86
4013742--4013829	24	3.7	24	81	3	106	23	13	21	40	1.89
4013742--4013839	24	4.1	24	81	7	74	25	12	20	41	1.87
4014038--4014105	2	34.5	2	97	2	129	48	0	0	51	1.00
4015671--4015888	34	5.8	34	70	21	157	30	26	10	32	1.90
4015705--4015912	45	5.1	44	68	23	177	30	26	11	31	1.91
4015668--4016020	79	4.6	79	88	4	531	31	24	9	33	1.88
4015841--4016020	72	2.4	72	84	6	216	32	23	9	34	1.87
4015672--4016020	151	2.3	155	89	3	517	31	24	10	33	1.88
4016404--4016458	22	2.7	20	81	10	65	25	29	12	32	1.93
4016411--4016455	22	2.0	23	91	4	74	26	24	13	35	1.92
4021142--4021183	21	2.0	21	86	9	59	21	4	26	47	1.70
4023804--4023844	18	2.3	18	86	0	64	48	4	21	24	1.69
4024552--4024604	26	2.0	27	85	3	72	30	7	7	54	1.56
4035367--4035792	214	2.0	214	98	0	825	28	18	11	41	1.85
4036475--4036543	30	2.2	30	85	15	95	34	5	17	42	1.73
4036484--4036543	30	2.0	30	93	6	104	33	6	16	43	1.74
4036641--4036670	13	2.3	13	94	0	51	23	26	23	26	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4036734--4036807	20	3.7	20	80	7	78	20	24	24	31	1.98
4045611--4045666	21	2.5	22	77	13	62	60	7	0	32	1.24
4057994--4058031	2	19.0	2	100	0	76	50	0	0	50	1.00
4058118--4058158	17	2.3	19	87	8	59	31	2	2	63	1.20
4058100--4058155	20	2.5	22	77	16	53	32	3	1	62	1.23
4058552--4058590	18	2.2	18	90	0	60	79	0	0	20	0.73
4065596--4065634	14	2.7	14	84	4	51	30	7	0	61	1.24
4066324--4066348	12	2.1	12	100	0	50	44	0	0	56	0.99
4066860--4066953	47	2.0	47	89	4	145	35	10	20	34	1.87
4066924--4067298	184	2.0	188	96	3	695	27	11	13	48	1.77

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