genome.fa.s8364.2.7.7.80.10.50.1000.19.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

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   

This is table  19  of  27  ( 3136 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)
4313081--4313206	64	2.0	64	96	0	234	44	13	11	30	1.80
4313173--4313224	23	2.3	23	93	0	86	40	9	15	34	1.80
4313109--4313300	87	2.2	87	95	1	341	43	11	15	30	1.81
4316262--4318453	200	10.8	200	92	2	3551	27	14	13	44	1.83
4317236--4317290	20	2.8	20	97	2	103	40	12	0	47	1.42
4316262--4318453	602	3.6	601	91	2	3580	27	14	13	44	1.83
4321710--4321784	35	2.1	35	97	0	141	25	6	13	54	1.63
4321535--4321971	219	2.0	218	87	4	630	28	12	12	45	1.79
4321753--4322172	183	2.3	183	85	2	556	26	13	12	46	1.80
4322008--4322328	165	2.0	164	87	0	471	27	13	12	46	1.79
4324826--4324878	2	26.5	2	92	0	88	45	0	3	50	1.19
4329385--4329951	284	2.0	283	99	0	1125	33	17	21	26	1.96
4330412--4330489	22	3.5	22	91	0	120	15	23	33	28	1.95
4332381--4332410	14	2.2	14	94	5	53	46	0	0	53	1.00
4333302--4333458	64	2.5	63	81	5	172	31	20	23	24	1.98
4337265--4337309	23	2.0	23	86	0	63	20	26	26	26	1.99
4341566--4341616	25	2.0	26	96	3	95	19	23	23	33	1.97
4341720--4341764	23	2.0	23	86	0	63	20	26	26	26	1.99
4342589--4342650	23	2.7	23	87	0	97	19	22	25	32	1.97
4344897--4345035	64	2.2	64	87	3	201	27	18	25	28	1.98
4345675--4345748	11	6.5	11	69	25	55	50	4	0	45	1.20
4345673--4345815	13	10.4	13	71	16	76	47	5	2	44	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4345761--4345932	87	2.0	85	97	2	326	45	4	3	46	1.41
4345684--4345912	18	12.5	18	68	20	113	46	5	2	45	1.39
4345992--4346140	7	21.0	7	71	17	51	46	2	4	46	1.38
4345992--4346138	2	75.5	2	67	19	71	46	2	4	46	1.38
4345985--4346063	32	2.5	32	79	10	90	49	5	2	43	1.38
4345941--4346107	82	2.0	82	84	7	214	46	3	5	44	1.43
4346390--4346473	13	6.2	13	69	27	50	41	7	9	41	1.65
4346590--4346633	14	3.1	14	84	9	54	45	29	0	25	1.54
4346607--4346646	14	2.9	14	88	0	53	42	25	0	32	1.55
4346662--4346696	18	1.9	18	94	0	61	40	11	5	42	1.65
4346770--4347040	13	21.2	13	67	21	75	50	2	4	42	1.36
4346796--4346927	15	9.1	15	70	18	59	51	4	3	40	1.40
4346798--4346850	26	2.0	26	92	7	88	49	9	3	37	1.53
4346871--4346971	15	6.8	15	70	20	61	51	0	1	45	1.19
4346893--4347045	2	81.5	2	66	21	64	49	1	3	44	1.32
4346824--4346971	74	2.0	73	89	3	226	51	2	3	42	1.32
4346866--4346975	58	1.9	57	80	17	129	50	0	2	45	1.22
4346872--4347040	13	13.3	13	67	22	76	49	1	3	44	1.29
4347133--4347165	7	4.7	7	100	0	66	45	39	0	15	1.46
4347271--4347302	12	2.6	13	85	14	50	53	6	0	40	1.26
4347263--4347353	11	8.1	12	69	20	63	47	8	2	41	1.47
4347386--4347438	21	2.5	21	81	0	70	37	7	5	49	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4347514--4347574	29	2.1	29	87	0	86	42	3	1	52	1.27
4347597--4347672	28	2.8	28	97	2	145	47	0	0	52	1.00
4347602--4347668	22	3.0	23	72	21	63	47	0	0	52	1.00
4349184--4349228	20	2.2	20	88	0	63	15	8	15	60	1.59
4349319--4349374	23	2.4	23	81	0	67	26	8	25	39	1.85
4349987--4350058	22	3.2	22	65	18	58	37	9	4	48	1.55
4349999--4350064	15	4.4	15	70	14	64	37	7	3	51	1.46
4350153--4350202	23	2.1	24	92	3	84	50	2	0	48	1.12
4350242--4350268	13	2.1	13	100	0	54	44	0	0	55	0.99
4350454--4350520	16	4.2	16	86	0	89	41	11	25	20	1.87
4354622--4354705	44	1.9	44	90	0	132	28	9	22	39	1.85
4354832--4354880	20	2.5	20	96	0	89	24	4	8	63	1.40
4359134--4359242	34	3.2	34	85	1	128	42	20	16	21	1.89
4359210--4359272	24	2.6	24	97	0	117	36	15	17	30	1.91
4359269--4359339	27	2.9	23	72	22	63	45	15	16	22	1.85
4359281--4359346	27	2.4	27	89	0	96	46	16	16	19	1.84
4360918--4361177	130	2.0	130	100	0	520	30	15	13	40	1.86
4375137--4375199	19	3.3	19	93	0	108	38	20	14	26	1.91
4375409--4375456	25	1.9	25	83	8	62	66	10	4	18	1.37
4375718--4375746	14	2.1	14	93	6	51	55	6	17	20	1.65
4377104--4377162	28	2.1	29	87	9	86	57	3	5	33	1.37
4379751--4379789	15	2.6	15	83	0	51	64	7	2	25	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4379777--4379943	86	1.9	87	97	1	318	50	10	7	31	1.64
4380015--4380048	17	2.1	17	88	5	52	73	2	0	23	0.97
4387156--4387208	26	2.0	26	100	0	106	52	22	7	16	1.69
4391336--4391361	6	4.3	6	100	0	52	15	34	50	0	1.45
4393356--4393413	22	2.6	22	88	2	89	41	32	8	17	1.80
4396552--4396613	32	2.0	32	96	3	117	14	14	9	61	1.57
4398678--4398715	11	3.4	11	89	7	58	71	10	13	5	1.30
4399895--4399928	4	9.0	4	87	12	54	50	26	0	23	1.50
4399890--4399936	22	2.2	21	92	3	76	48	25	2	23	1.62
4400389--4400632	105	2.4	102	82	6	278	31	18	11	38	1.87
4400578--4400697	36	3.4	36	79	6	113	30	20	12	35	1.90
4400948--4401075	29	4.5	29	87	4	172	29	10	15	44	1.79
4400975--4401089	58	2.0	58	81	3	133	30	8	14	46	1.75
4401086--4401188	52	2.0	53	94	1	181	33	13	16	36	1.88
4401168--4401373	30	6.4	30	68	18	121	33	11	12	43	1.78
4401193--4401428	67	3.5	67	98	0	454	30	12	11	44	1.79
4401290--4401410	37	3.5	37	69	23	125	33	13	10	42	1.78
4402269--4402382	36	3.4	35	71	21	109	22	20	14	42	1.89
4402398--4402479	28	2.9	28	83	3	94	24	12	13	50	1.76
4402505--4402739	40	5.6	40	74	14	161	25	32	19	22	1.98
4402761--4402836	40	1.9	39	91	2	125	19	35	18	26	1.95
4402486--4402918	134	3.3	132	87	4	579	24	32	19	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4403317--4403374	22	2.6	22	94	2	98	39	32	10	17	1.83
4410152--4410182	14	2.2	14	100	0	62	29	22	19	29	1.98
4414012--4414086	3	25.0	3	86	0	105	60	0	1	38	1.06
4414347--4415344	113	8.8	113	90	6	1582	26	17	15	39	1.90
4414686--4414747	19	3.2	19	68	19	56	17	20	8	53	1.69
4415744--4415798	22	2.5	22	90	0	92	38	14	12	34	1.84
4416165--4416315	50	2.9	53	79	9	166	25	20	15	39	1.91
4426687--4426755	3	23.0	3	87	0	102	60	0	1	37	1.06
4429271--4429340	32	2.2	32	97	0	131	14	10	38	37	1.79
4430723--4430762	4	10.0	4	89	10	64	0	22	2	75	0.93
4432808--4432848	21	1.9	22	85	5	57	60	4	2	31	1.30
4434729--4434758	15	2.0	15	100	0	60	13	0	13	73	1.10
4435200--4435240	3	13.7	3	100	0	82	31	0	0	68	0.90
4439863--4439908	24	1.9	24	95	0	83	4	39	6	50	1.48
4449893--4449922	2	15.0	2	100	0	60	50	0	0	50	1.00
4450267--4450329	23	2.8	23	80	4	67	58	1	4	34	1.29
4450281--4450329	21	2.2	23	85	7	66	61	0	6	32	1.21
4451711--4451770	13	4.7	13	86	12	88	58	26	0	15	1.37
4451718--4451772	25	2.2	24	90	3	83	54	25	0	20	1.44
4451716--4451772	11	4.7	11	76	19	60	54	26	0	19	1.44
4453987--4454026	21	1.9	21	89	0	62	10	25	40	25	1.86
4454007--4454069	20	2.9	21	79	9	65	15	25	34	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4457878--4457917	21	1.9	21	85	10	55	35	10	2	52	1.48
4467466--4467551	36	2.4	36	94	5	149	31	9	18	40	1.82
4467696--4467733	15	2.5	15	86	0	58	42	18	21	18	1.90
4467724--4467910	102	1.8	102	86	2	268	40	13	18	27	1.88
4467883--4467961	28	2.8	28	100	0	158	43	17	22	16	1.88
4468086--4468347	106	2.5	105	86	5	375	24	17	24	33	1.96
4468999--4469111	32	3.5	32	79	3	120	38	20	11	29	1.87
4470244--4470294	14	3.7	14	82	10	61	1	17	3	76	1.03
4470243--4470296	27	2.0	27	89	7	83	3	16	3	75	1.08
4476593--4476633	21	2.0	21	90	0	64	31	19	14	34	1.92

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