genome.fa.s8082.2.7.7.80.10.50.1000.24.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  24  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)
4874622--4875082	68	6.8	68	86	0	618	31	13	23	30	1.94
4875032--4875406	81	4.6	81	85	3	448	39	11	21	27	1.87
4875052--4875406	162	2.2	162	87	3	516	39	10	21	27	1.87
4875486--4875530	2	22.5	2	100	0	90	51	0	0	48	1.00
4878501--4879083	284	2.1	279	80	6	633	46	5	13	34	1.67
4879330--4879384	23	2.4	22	78	6	56	56	5	5	32	1.45
4881180--4881236	2	29.0	2	96	3	107	50	0	0	49	1.00
4882670--4883106	106	4.1	106	90	0	658	21	17	24	36	1.95
4883725--4883796	37	1.9	37	82	0	90	41	11	20	26	1.86
4883968--4884044	36	2.1	38	90	4	122	36	14	23	25	1.93
4884532--4884567	18	2.0	18	94	0	63	41	33	8	16	1.78
4885625--4885688	15	4.3	15	75	13	53	3	14	3	79	0.97
4885632--4885694	8	7.0	9	79	13	60	1	14	3	80	0.90
4885632--4885694	18	3.6	18	81	10	85	1	14	3	80	0.90
4885632--4885688	15	3.9	15	75	13	57	1	14	1	82	0.83
4888295--4888601	153	2.0	153	100	0	614	26	25	24	23	2.00
4890235--4890281	17	2.6	19	80	16	55	65	0	14	19	1.26
4892321--4892358	20	1.9	19	89	5	58	65	5	26	2	1.27
4893885--4894683	59	13.5	59	81	7	758	36	11	21	29	1.89
4893885--4894683	177	4.5	176	82	8	844	36	11	21	29	1.89
4894465--4894607	60	2.4	60	95	0	250	32	13	25	27	1.94
4894760--4894978	44	5.0	44	92	2	359	41	6	18	34	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4897539--4897604	20	3.3	20	68	16	64	39	25	7	27	1.83
4897528--4897622	40	2.4	40	98	0	181	34	24	10	30	1.89
4897559--4897622	20	3.2	20	66	16	60	32	23	10	32	1.89
4898662--4898686	12	2.1	12	100	0	50	40	8	0	52	1.31
4898699--4898768	25	3.2	21	83	16	81	41	1	4	52	1.30
4902184--4902295	50	2.2	50	96	0	215	15	25	19	40	1.90
4911534--4911572	17	2.3	17	95	0	69	17	35	7	38	1.79
4914022--4914079	28	2.1	28	100	0	116	37	22	10	29	1.87
4926355--4926401	22	2.1	21	81	14	51	72	8	10	8	1.29
4936382--4936430	24	2.1	23	81	11	55	26	8	12	53	1.66
4938022--4938064	17	2.5	17	96	0	77	44	27	6	20	1.77
4938521--4938577	28	2.0	28	96	0	105	40	15	14	29	1.87
4960827--4961015	18	10.6	18	71	15	110	44	18	8	28	1.80
4960827--4961015	36	5.3	35	72	9	123	44	18	8	28	1.80
4968163--4968230	3	23.3	3	88	5	104	32	0	0	67	0.91
4968376--4968400	11	2.3	11	100	0	50	32	20	24	24	1.98
4968515--4970452	182	10.6	183	94	1	3218	43	12	16	27	1.84
4972305--4972360	24	2.5	22	78	16	62	41	0	8	50	1.34
4973365--4973400	17	2.1	17	94	0	63	50	8	8	33	1.63
4974486--4974535	19	2.6	19	90	0	73	28	2	10	60	1.40
4974677--4976692	198	10.0	197	84	6	2036	38	16	14	30	1.89
4975846--4975889	21	2.0	21	86	4	61	29	13	11	45	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4974721--4976619	406	4.7	402	87	4	2227	38	16	14	30	1.88
4976252--4976297	21	2.1	21	84	4	56	30	15	10	43	1.81
4976450--4976495	21	2.1	21	84	4	56	30	15	10	43	1.81
4979840--4980322	198	2.4	196	82	5	546	37	14	16	31	1.89
4980356--4980518	87	1.9	87	94	0	290	31	14	11	41	1.82
4980440--4980484	23	2.0	23	86	0	63	40	17	6	35	1.76
4982019--4982066	24	2.0	24	91	0	78	12	20	18	47	1.81
4984436--4984471	17	2.0	18	89	10	56	55	5	13	25	1.60
4984419--4984844	138	3.1	135	84	3	496	47	11	11	29	1.75
4985749--4985865	2	58.0	2	75	18	93	42	2	5	49	1.38
4985773--4985898	30	4.3	28	77	13	112	42	2	6	49	1.41
4985773--4985875	15	6.2	18	76	17	75	42	1	6	48	1.40
4994311--4994371	27	2.3	27	94	0	104	42	8	6	42	1.60
4996513--4996556	22	2.0	23	86	4	63	77	0	6	15	0.97
4996737--4996767	3	10.3	3	92	0	53	70	0	0	29	0.87
4996924--4996957	14	2.4	14	85	0	50	52	0	2	44	1.16
4996952--4997017	28	2.4	27	78	14	73	53	6	1	39	1.35
4997059--4997312	37	6.8	37	79	9	234	45	7	3	44	1.47
4997059--4997311	73	3.4	73	84	4	294	45	7	3	44	1.47
4997223--4997328	41	2.5	44	80	9	114	42	7	3	46	1.50
4997950--4998664	84	8.6	83	77	7	646	25	20	24	29	1.99
4997926--4998664	165	4.5	164	83	4	840	25	20	24	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4997948--4998664	249	2.9	247	79	6	671	25	20	24	29	1.99
4997950--4998664	330	2.2	330	85	4	958	25	20	24	29	1.99
5005353--5005677	37	9.5	31	76	18	110	45	7	2	44	1.45
5005393--5005750	37	9.9	37	80	10	348	44	7	3	44	1.48
5005382--5005764	73	5.2	73	79	8	354	44	7	3	44	1.49
5005397--5005750	110	3.3	108	80	8	330	44	7	3	44	1.48
5010060--5010131	21	3.5	21	81	9	78	26	20	16	36	1.94
5013426--5013532	32	3.4	32	97	1	198	35	23	5	35	1.78
5018280--5018331	20	2.6	20	93	0	86	46	15	17	21	1.84
5026421--5026552	71	1.9	70	84	4	176	36	18	16	28	1.93
5027987--5028096	7	14.0	7	71	23	53	73	2	4	19	1.13
5028021--5028056	17	2.1	17	89	0	54	75	2	0	22	0.94
5028028--5028085	21	2.7	22	77	20	68	70	1	1	25	1.06
5028028--5028073	9	4.6	10	77	17	51	71	0	0	28	0.86
5028028--5028071	21	2.2	21	92	8	74	70	0	0	29	0.88
5028184--5028235	22	2.4	22	80	6	61	67	3	1	26	1.18
5028183--5028238	23	2.6	21	76	15	60	66	3	1	28	1.19
5029963--5030128	83	2.0	82	84	7	217	27	18	21	31	1.97
5029957--5030423	84	5.5	84	84	1	495	24	18	23	33	1.97
5030412--5030449	19	2.0	19	100	0	76	21	26	26	26	1.99
5030328--5030519	103	1.9	103	91	2	314	21	20	27	31	1.98
5030260--5030610	187	1.9	187	91	0	576	22	19	26	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5030166--5030694	271	2.0	271	90	0	835	22	19	26	31	1.98
5030431--5031130	164	4.2	165	82	3	735	24	19	24	32	1.98
5030431--5031111	84	8.2	83	80	3	678	24	19	24	32	1.98
5032242--5032447	101	2.0	101	86	3	290	33	14	15	36	1.87
5035791--5035926	4	33.0	4	71	19	50	69	1	4	24	1.15
5035903--5035988	13	7.0	12	71	17	52	75	2	6	15	1.11
5036027--5036082	12	4.4	12	78	10	58	71	3	0	25	1.02
5036027--5036090	20	3.4	18	77	14	58	68	3	1	26	1.13
5036027--5036082	26	2.2	25	81	9	60	71	3	0	25	1.02
5037205--5037232	2	14.0	2	100	0	56	50	0	0	50	1.00
5037386--5037414	2	14.5	2	100	0	58	51	0	0	48	1.00
5040869--5040896	2	14.0	2	100	0	56	50	0	0	50	1.00
5043293--5043331	20	2.0	20	84	0	51	28	10	2	58	1.44
5049109--5049328	53	4.2	53	86	2	307	35	18	16	29	1.93
5055350--5055622	53	5.2	53	93	1	458	34	18	17	29	1.94
5057254--5057373	35	3.3	36	87	5	172	43	20	4	32	1.71
5057305--5057365	21	3.2	21	65	29	64	42	21	3	32	1.69
5061756--5061874	35	3.3	36	89	5	179	43	18	5	32	1.72
5061806--5061866	21	3.2	21	63	29	55	42	19	4	32	1.73
5062635--5062663	14	2.1	14	100	0	58	44	27	0	27	1.54
5066567--5066621	26	2.1	26	96	0	101	38	7	38	16	1.76
5068223--5068278	25	2.2	24	84	6	67	39	14	1	44	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5068535--5069148	304	2.0	304	95	0	1104	40	11	13	35	1.80
5074226--5074255	14	2.1	14	100	0	60	26	0	26	46	1.53
5074230--5074264	14	2.5	14	90	0	52	37	0	17	45	1.48
5084496--5084639	47	3.0	49	78	4	157	33	13	20	32	1.91
5085215--5085455	63	3.9	62	79	5	247	35	10	25	28	1.89
5085215--5085455	62	3.9	62	79	5	186	35	10	25	28	1.89
5088314--5088457	72	2.0	72	98	0	279	35	15	20	28	1.93
5100680--5101193	254	2.0	254	87	0	742	33	17	14	34	1.90
5103343--5103694	56	6.3	56	92	2	586	34	19	11	34	1.88
5103343--5103692	166	2.1	166	92	3	587	34	19	11	34	1.88

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