genome.fa.s8719.2.7.7.80.10.50.1000.18.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: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4817204

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

This is table  18  of  18  ( 2140 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)
4651929--4651997	36	2.0	34	91	5	111	33	5	20	40	1.76
4654849--4654896	24	2.0	24	91	0	78	10	12	20	56	1.65
4654850--4654876	10	2.7	10	100	0	54	7	11	22	59	1.56
4655957--4656031	10	7.7	10	72	21	70	10	10	20	58	1.60
4655963--4656035	16	4.7	16	81	6	71	10	9	19	60	1.57
4655962--4656025	32	2.0	32	87	6	94	10	10	20	57	1.62
4656099--4656129	16	1.9	16	100	0	62	9	12	19	58	1.62
4658173--4658249	31	2.5	31	80	2	91	27	31	27	14	1.95
4658126--4658249	63	2.0	63	82	6	153	25	29	28	16	1.97
4659124--4659162	13	3.0	13	100	0	78	23	30	30	15	1.95
4659120--4659162	20	2.2	20	91	8	70	23	30	30	16	1.96
4659152--4659208	17	3.4	17	97	0	105	15	22	43	17	1.87
4659120--4659162	7	6.4	7	89	10	72	23	30	30	16	1.96
4659203--4659262	19	3.2	18	83	9	66	30	26	25	18	1.98
4659203--4659262	9	6.3	9	79	11	66	30	26	25	18	1.98
4660117--4660151	2	17.5	2	100	0	70	51	0	0	48	1.00
4660308--4660340	13	2.5	13	86	13	50	42	15	0	42	1.46
4680573--4680897	161	2.0	165	94	5	583	25	32	8	32	1.87
4693405--4693498	8	11.5	8	68	17	50	65	2	2	29	1.15
4693428--4693473	24	1.9	24	95	0	83	67	4	2	26	1.21
4693427--4693480	24	2.2	24	86	0	81	66	3	1	27	1.19
4693455--4693496	16	2.6	16	85	7	59	66	0	2	30	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4693464--4693508	21	2.2	21	88	11	67	64	0	0	35	0.94
4696248--4696283	12	3.0	12	91	0	63	36	25	5	33	1.79
4696586--4696810	64	3.5	62	81	5	236	27	20	20	32	1.97
4697752--4697801	2	25.0	2	100	0	100	50	0	0	50	1.00
4698087--4698155	23	2.9	25	80	10	90	30	31	20	17	1.95
4698524--4698553	11	2.9	10	90	9	51	60	0	0	40	0.97
4702318--4702342	11	2.3	11	100	0	50	16	0	0	84	0.63
4703344--4703371	2	14.0	2	100	0	56	50	0	0	50	1.00
4705291--4705583	146	2.0	146	96	1	543	26	19	15	38	1.91
4710001--4710074	30	2.4	31	93	2	123	28	13	12	45	1.79
4714311--4714369	25	2.7	20	75	22	64	55	15	8	20	1.65
4714318--4714368	25	2.0	25	96	0	93	54	15	9	19	1.68
4714320--4714380	25	2.4	25	89	5	88	57	13	9	19	1.63
4718098--4718164	30	2.2	30	86	0	98	13	10	22	53	1.69
4720357--4720413	30	1.9	29	82	10	71	56	7	7	29	1.53
4721553--4721597	21	2.2	20	85	11	65	26	13	4	55	1.57
4721809--4721860	20	2.7	20	90	3	79	36	13	17	32	1.89
4726061--4726444	111	3.4	111	80	5	418	33	9	14	42	1.79
4736244--4736281	20	1.9	20	88	0	58	31	23	26	18	1.97
4736266--4736369	44	2.4	44	88	3	156	30	18	21	29	1.97
4738888--4738943	26	2.2	26	93	0	94	28	21	3	46	1.68
4740530--4740616	44	2.0	44	86	4	122	32	18	18	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4741113--4741150	13	3.0	13	88	3	60	34	13	7	44	1.72
4742532--4742580	23	2.1	23	85	7	64	28	2	12	57	1.46
4743060--4743090	11	2.8	11	95	0	53	16	9	9	64	1.48
4749392--4749452	20	3.0	20	76	6	70	13	19	0	67	1.23
4752722--4752770	23	2.1	23	85	7	64	28	2	12	57	1.46
4754701--4754730	13	2.4	13	94	5	53	43	0	6	50	1.28
4755078--4755139	18	3.4	18	97	0	115	30	33	17	17	1.94
4757373--4757437	20	3.2	20	82	0	67	38	15	13	32	1.87
4758409--4758772	130	2.8	129	84	4	461	32	9	17	41	1.80
4758437--4758768	127	2.6	130	85	3	449	33	8	17	40	1.81
4769998--4770340	138	2.5	138	81	3	386	28	16	13	41	1.86
4770272--4770711	123	3.7	123	81	7	473	25	20	15	38	1.92
4770760--4770932	73	2.4	73	96	0	310	30	21	21	26	1.99
4771593--4771650	22	2.6	22	86	0	89	34	12	18	34	1.88
4772899--4773072	75	2.3	75	92	0	285	29	21	16	32	1.95
4776394--4776479	7	11.7	7	90	7	127	0	26	0	73	0.84
4776394--4776479	15	5.9	14	91	6	127	0	26	0	73	0.84
4776395--4776479	22	3.8	22	92	6	120	0	27	0	72	0.84
4779178--4779241	30	2.1	30	91	0	101	18	28	14	39	1.90
4780504--4780578	28	2.9	26	77	12	75	61	1	5	32	1.27
4781264--4781306	11	3.9	11	82	17	54	60	2	0	37	1.10
4782182--4782220	20	1.9	21	84	5	53	17	17	28	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4783921--4783961	21	2.0	21	85	0	55	31	26	19	21	1.97
4783989--4784025	19	1.9	19	88	0	56	24	35	29	10	1.89
4784508--4784822	99	3.1	101	92	2	535	24	13	24	37	1.91
4784839--4784901	23	2.7	23	87	4	92	20	26	26	25	1.99
4786654--4786756	10	10.3	10	76	10	77	80	0	14	4	0.87
4786633--4786734	43	2.3	45	83	8	127	78	0	12	7	1.01
4786641--4786733	44	2.1	45	84	9	120	79	1	11	7	0.98
4786654--4786753	29	3.3	29	75	9	94	80	0	15	5	0.88
4786657--4786756	40	2.5	39	79	9	96	80	0	15	5	0.88
4786653--4786756	45	2.4	42	80	9	111	79	0	15	4	0.89
4786654--4786762	11	9.9	11	74	15	52	78	0	16	4	0.90
4786728--4786762	10	3.4	10	92	4	52	74	0	25	0	0.82
4792837--4792881	23	2.0	21	83	8	54	31	26	26	15	1.96
4792909--4792945	19	1.9	19	88	0	56	24	35	29	10	1.89
4793427--4793743	103	3.1	103	94	0	580	26	12	24	36	1.91
4793771--4793831	23	2.7	23	84	0	77	21	22	26	29	1.99
4795579--4795641	9	6.8	9	75	13	65	80	0	17	1	0.78
4795597--4795646	13	3.8	13	86	5	66	78	0	22	0	0.76
4795579--4795640	14	4.2	15	76	15	58	82	0	16	1	0.75
4795582--4795655	25	3.0	25	82	7	71	78	1	17	2	0.94
4795580--4795655	30	2.7	29	80	13	79	78	1	17	2	0.93
4796848--4797240	134	2.9	133	84	1	507	33	22	14	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4800012--4800037	12	2.2	12	100	0	52	23	7	7	61	1.49
4800625--4800662	16	2.3	16	95	4	67	26	7	28	36	1.84
4810564--4810638	25	3.1	24	81	11	82	73	0	16	10	1.10
4810579--4810638	16	3.8	16	78	12	70	76	0	13	10	1.01
4810579--4810639	32	1.9	32	90	6	97	77	0	13	9	1.00
4810579--4810628	7	6.6	7	86	8	55	78	0	12	10	0.98
4811565--4812157	52	11.2	53	86	6	745	30	14	27	27	1.95
4811565--4812157	105	5.6	106	85	5	745	30	14	27	27	1.95
4815473--4815592	3	38.0	3	77	9	96	38	2	4	55	1.33
4815457--4815591	15	9.0	15	73	14	91	39	2	4	53	1.36
4815482--4815531	19	2.6	19	80	0	55	38	2	6	54	1.37
4815457--4815521	28	2.2	30	86	8	89	40	1	6	52	1.36

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

The End!