genome.fa.s8495.2.7.7.80.10.50.1000.21.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: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5120959

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  21  of  21  ( 2505 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)
4971446--4971923	198	2.4	199	82	3	577	34	22	12	31	1.91
4973047--4973099	16	3.4	16	78	5	72	47	1	0	50	1.12
4973048--4973116	31	2.2	31	100	0	138	50	2	0	46	1.16
4973056--4973107	16	3.3	16	78	5	70	51	3	0	44	1.19
4974247--4974286	3	13.3	3	100	0	80	67	0	0	32	0.91
4974664--4974739	21	3.6	21	75	7	73	32	17	15	34	1.91
4977817--4977902	21	4.1	21	77	5	75	34	13	15	36	1.87
4980897--4980951	26	2.2	26	90	3	85	29	20	38	12	1.89
4989288--4989326	20	2.0	20	84	0	51	30	10	23	35	1.88
4991187--4991244	2	32.0	2	75	25	58	50	0	1	48	1.11
4991175--4991240	32	2.1	32	86	11	91	50	1	1	46	1.20
4991184--4991264	36	2.2	36	82	8	103	48	0	3	48	1.19
4997296--4997504	40	5.2	40	72	11	124	24	24	20	30	1.99
4997387--4997500	20	5.7	20	90	0	156	24	26	23	25	2.00
4997816--4997864	22	2.2	22	100	0	98	26	4	8	61	1.42
4997809--4997865	22	2.4	25	80	17	84	28	3	7	61	1.39
4998123--4998236	20	5.8	20	83	3	106	14	16	22	46	1.83
4999957--5000006	18	2.8	18	90	0	82	32	16	6	46	1.71
5000151--5000220	20	3.5	20	82	0	86	40	24	17	18	1.91
5000263--5000375	20	5.8	20	87	8	162	17	18	24	38	1.92
5000263--5000370	36	2.9	36	88	5	144	17	18	25	37	1.93
5000875--5000978	21	4.9	20	72	10	73	23	31	18	26	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5002381--5002442	14	4.3	14	77	6	61	38	0	14	46	1.45
5002641--5002811	20	9.1	20	73	14	150	24	19	22	33	1.97
5002674--5002811	54	2.6	54	90	0	213	21	18	24	34	1.96
5002597--5002811	74	2.9	72	70	11	186	23	19	22	34	1.96
5002750--5002833	34	2.5	34	90	0	123	22	15	25	36	1.93
5002813--5003073	140	1.9	140	98	0	504	42	14	12	30	1.82
5005201--5005237	14	2.6	14	91	4	56	5	21	21	51	1.68
5005427--5005480	24	2.2	24	90	0	81	40	18	18	22	1.91
5006301--5006367	20	3.3	20	89	0	98	25	23	28	22	1.99
5006352--5006428	20	3.8	20	98	0	145	25	20	15	37	1.92
5006337--5006432	40	2.4	39	82	6	129	23	21	18	35	1.96
5006424--5006479	21	2.6	22	77	5	60	41	16	23	19	1.90
5007403--5007473	35	2.0	35	97	0	133	40	9	16	32	1.82
5013116--5013268	64	2.3	65	81	5	175	23	19	16	39	1.92
5013539--5013579	16	2.6	16	92	0	73	21	24	31	21	1.98
5015879--5015938	28	2.1	28	100	0	120	46	8	0	45	1.33
5019000--5019042	20	2.2	20	86	0	59	32	11	16	39	1.84
5022912--5022959	3	15.7	3	79	12	53	27	2	0	70	0.98
5022912--5022959	10	4.8	10	82	12	55	27	2	0	70	0.98
5022916--5022959	13	3.7	12	88	11	63	27	2	0	70	0.99
5022912--5022965	17	2.9	18	83	8	56	27	3	0	68	1.06
5024242--5024318	22	3.4	21	73	18	57	25	3	1	68	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5031202--5031239	20	1.9	20	88	0	58	23	28	15	31	1.96
5031201--5031251	20	2.5	20	77	0	57	25	25	17	31	1.97
5034763--5034810	22	2.2	22	88	0	69	33	25	31	10	1.89
5035925--5035966	22	2.0	21	90	9	68	14	9	2	73	1.18
5040203--5040479	64	4.3	64	88	1	385	37	19	11	31	1.88
5040511--5041788	114	10.9	114	84	4	1451	32	23	16	27	1.96
5040511--5041788	341	3.6	342	85	4	1543	32	23	16	27	1.96
5042318--5042343	3	8.7	3	100	0	52	30	0	0	69	0.89
5042317--5042355	9	4.3	9	90	0	51	25	2	0	71	0.98
5042315--5042357	12	3.6	12	84	6	52	25	2	0	72	0.97
5056092--5056435	48	7.1	48	83	4	415	29	18	15	37	1.91
5056380--5056498	63	1.9	63	91	0	193	29	19	15	36	1.92
5056442--5056635	48	4.1	48	86	6	270	29	17	12	41	1.85
5056331--5056546	111	1.9	111	88	0	324	28	18	15	37	1.91
5056280--5056597	159	2.0	157	85	4	424	29	16	14	38	1.89
5056440--5056626	93	2.0	95	88	5	281	29	16	13	40	1.87
5059400--5059450	24	2.2	24	85	3	68	15	25	9	49	1.75
5061832--5061863	16	2.0	16	93	0	55	71	0	0	28	0.86
5062747--5062780	18	1.9	17	88	5	50	0	32	17	50	1.47
5063254--5063312	3	19.0	3	86	6	82	62	0	0	37	0.95
5063441--5064079	76	8.4	76	97	0	1174	34	22	21	21	1.96
5063441--5064079	151	4.2	152	97	0	1192	34	22	21	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5063441--5064079	227	2.8	228	97	0	1192	34	22	21	21	1.96
5064761--5064816	23	2.5	22	80	5	67	41	12	10	35	1.78
5065171--5065282	54	2.1	54	93	0	188	22	23	16	38	1.93
5067431--5068231	115	7.0	115	95	0	1383	32	18	14	33	1.92
5070405--5070441	18	2.1	18	89	0	56	0	21	0	78	0.75
5075922--5075953	16	2.0	16	93	0	55	71	0	0	28	0.86
5076519--5076547	13	2.2	13	100	0	58	6	55	37	0	1.27
5076834--5076867	18	1.9	17	94	5	59	0	32	14	52	1.42
5077340--5077404	3	21.0	3	84	6	85	61	0	0	38	0.96
5077333--5077404	24	3.0	23	88	11	101	59	0	0	40	0.97
5090685--5090741	9	5.9	9	77	22	62	0	3	10	85	0.70
5090674--5090740	31	2.2	31	89	5	100	0	5	10	83	0.80
5090686--5090741	29	1.9	29	92	7	96	0	3	10	85	0.71
5090685--5090741	20	2.8	20	89	0	96	0	3	10	85	0.70
5092828--5092925	3	32.7	3	85	4	117	40	0	0	59	0.98
5092834--5092929	21	4.6	21	88	5	133	41	0	0	58	0.98
5095560--5095584	9	2.8	9	100	0	50	48	0	0	52	1.00
5098334--5098366	15	2.1	16	88	5	50	30	24	6	39	1.79
5105714--5105769	17	3.2	17	87	12	78	82	0	17	0	0.68
5105719--5105767	16	2.9	16	82	17	64	83	0	16	0	0.64
5105720--5105769	24	2.0	26	92	7	86	82	0	18	0	0.68
5105713--5105769	9	6.1	10	82	12	68	80	0	19	0	0.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5106916--5107908	84	11.8	84	92	2	1589	28	11	22	38	1.88
5106916--5107898	251	3.9	252	94	1	1641	27	11	22	38	1.88
5108275--5108375	52	1.9	52	100	0	202	35	13	16	33	1.89
5108677--5109195	113	4.6	113	98	0	995	36	16	20	26	1.94
5109437--5109516	3	26.7	3	84	5	90	41	0	0	58	0.98
5111965--5112075	12	9.3	12	64	23	56	45	11	25	18	1.83
5111962--5112184	71	3.2	70	89	3	319	46	9	24	19	1.79
5112031--5112138	46	2.4	46	90	1	164	47	8	25	19	1.77
5111962--5112184	20	9.6	25	72	20	166	46	9	24	19	1.79
5112128--5112217	46	2.0	46	93	0	153	46	8	22	22	1.79
5112580--5112834	68	3.8	68	86	2	343	30	16	24	28	1.96
5112840--5112915	29	2.6	29	91	0	116	46	9	21	23	1.80
5117157--5117321	26	7.0	26	65	25	107	48	10	21	19	1.78
5117156--5117321	46	3.6	46	90	3	262	48	10	22	19	1.78
5117183--5117308	20	5.7	20	66	23	65	46	10	24	18	1.80
5117687--5117940	68	3.8	68	81	5	300	33	14	25	25	1.94
5117946--5118023	29	2.7	29	93	0	129	46	10	21	21	1.81

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21

The End!