genome.fa.s7999.2.7.7.80.10.50.1000.28.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   

This is table  28  of  50  ( 5918 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)
6822689--6822725	19	1.9	19	88	0	56	45	2	16	35	1.61
6826849--6826878	16	1.9	15	93	6	51	20	20	20	40	1.92
6833445--6833488	19	2.5	17	85	14	54	68	4	2	25	1.20
6842522--6842578	3	19.0	3	92	0	96	63	0	0	36	0.95
6842974--6843440	113	4.1	113	90	2	706	27	18	15	38	1.91
6843379--6843485	43	2.5	43	95	0	187	17	20	12	49	1.78
6843266--6843601	159	2.1	156	92	2	548	25	19	14	41	1.89
6843422--6843752	116	2.9	116	95	1	585	29	17	15	37	1.91
6844567--6844780	83	2.6	83	97	0	410	38	23	12	25	1.89
6858926--6858979	3	18.0	3	92	0	90	62	0	0	37	0.95
6859453--6859546	35	2.7	35	76	20	113	48	2	2	46	1.25
6860201--6860259	27	2.3	24	88	11	82	49	0	0	50	1.00
6860208--6860267	29	2.1	29	84	12	79	46	1	0	51	1.10
6862611--6862644	17	2.0	17	88	0	50	73	2	20	2	1.09
6864734--6864780	21	2.3	21	78	10	53	42	10	12	34	1.78
6867417--6867464	23	2.1	24	88	7	73	29	12	4	54	1.56
6867728--6867810	37	2.2	37	95	0	148	44	2	19	33	1.64
6869165--6869205	18	2.3	18	95	0	73	53	0	12	34	1.38
6871142--6871167	13	2.0	13	100	0	52	61	7	7	23	1.49
6873635--6873695	28	2.1	30	82	11	74	72	0	8	19	1.10
6874958--6875039	31	2.5	33	86	9	107	42	8	2	46	1.47
6874958--6875039	34	2.5	32	82	9	87	42	8	2	46	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6875047--6875108	27	2.2	29	94	5	110	51	3	3	41	1.34
6875076--6875257	36	4.8	37	84	8	210	46	6	4	43	1.48
6875610--6876517	84	10.8	83	77	7	744	25	18	24	31	1.98
6875601--6876515	248	3.6	248	89	3	1197	25	18	24	30	1.98
6875691--6876517	165	4.9	167	77	7	685	25	18	24	31	1.98
6883107--6883152	15	3.1	15	93	0	74	28	21	0	50	1.49
6883587--6884463	248	3.5	248	87	1	1245	30	24	19	25	1.98
6883587--6884464	165	5.3	164	78	5	694	30	24	19	25	1.98
6883587--6884464	84	10.6	83	77	4	824	30	24	19	25	1.98
6885039--6885079	12	3.7	11	90	9	66	46	0	0	53	1.00
6885039--6885079	2	22.5	2	81	18	54	46	0	0	53	1.00
6885105--6885283	75	2.3	78	83	8	215	45	3	6	44	1.45
6885092--6885302	39	5.5	37	79	12	196	44	4	6	45	1.49
6885393--6885454	13	5.0	13	78	11	67	32	1	1	64	1.13
6885396--6885455	23	2.5	24	83	10	77	30	1	1	66	1.11
6885409--6885477	20	3.7	19	80	16	65	23	4	1	71	1.12
6886687--6886720	5	6.8	5	100	0	68	20	17	0	61	1.34
6886830--6886859	13	2.3	13	94	0	51	30	0	0	70	0.88
6887069--6887094	2	13.0	2	100	0	52	50	0	0	50	1.00
6898148--6898183	16	2.2	16	100	0	72	33	13	30	22	1.93
6901746--6901823	41	1.9	41	86	0	111	41	21	15	21	1.90
6901749--6901843	20	4.7	20	81	2	91	35	24	16	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6902031--6902074	22	2.0	22	95	0	79	20	45	15	18	1.85
6902338--6902375	20	1.9	20	88	0	58	13	15	21	50	1.78
6903695--6903739	18	2.5	18	88	0	63	28	37	15	17	1.91
6904231--6904332	19	5.6	19	70	14	72	43	20	21	14	1.88
6906193--6906372	19	9.8	19	74	16	121	45	22	21	11	1.84
6906218--6906316	33	3.0	33	86	1	135	40	26	22	11	1.87
6906288--6906377	19	4.7	19	93	2	153	46	22	20	11	1.81
6906288--6906377	39	2.3	38	94	1	153	46	22	20	11	1.81
6906970--6907047	41	1.9	41	86	0	111	21	16	21	39	1.92
6906951--6907044	20	4.7	20	80	2	89	23	18	24	34	1.96
6907033--6907128	41	2.3	41	96	0	138	18	22	17	40	1.91
6907033--6907108	21	3.7	21	75	3	82	17	23	18	40	1.91
6907059--6907125	20	3.3	20	79	4	89	19	22	17	40	1.92
6909979--6910061	3	27.7	3	95	0	139	37	0	0	62	0.95
6911484--6911528	22	2.2	20	84	8	54	37	2	4	55	1.32
6922822--6922882	8	7.5	8	81	17	56	86	0	9	3	0.67
6922822--6922891	12	5.7	12	80	15	72	85	0	11	2	0.69
6922822--6922896	19	4.2	18	78	13	75	84	0	13	2	0.74
6922822--6922891	11	5.6	13	83	14	78	85	0	11	2	0.69
6922825--6922864	1	40.0	1	89	0	62	95	0	5	0	0.29
6924148--6924604	183	2.5	183	98	0	896	26	14	21	37	1.92
6924001--6924371	133	2.8	133	99	0	724	27	14	21	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6924281--6924421	50	2.8	50	97	0	273	24	14	22	39	1.91
6924464--6924604	50	2.8	50	97	0	273	24	14	22	39	1.91
6925290--6926038	114	6.5	114	99	0	1444	36	14	19	28	1.92
6926285--6926361	3	25.7	3	94	0	127	37	0	0	62	0.96
6932569--6932614	19	2.4	19	96	0	83	30	26	15	28	1.96
6939118--6939161	2	22.0	2	100	0	88	50	0	0	50	1.00
6947700--6947737	17	2.2	17	86	9	51	60	21	7	10	1.54
6949390--6949457	17	3.9	17	82	1	73	44	7	10	38	1.67
6949387--6949458	34	2.1	35	87	7	103	43	6	12	37	1.70
6955847--6956033	64	2.9	64	81	6	175	30	14	23	31	1.94
6962029--6962068	17	2.4	16	88	12	62	17	20	17	45	1.86
6962037--6962072	17	2.1	17	100	0	72	16	27	16	38	1.90
6965389--6965438	22	2.3	22	85	0	73	36	4	8	52	1.50
6965689--6966140	189	2.4	187	81	5	516	38	13	8	39	1.76
6967509--6967574	17	3.9	17	93	0	114	27	16	18	37	1.92
6971319--6971370	21	2.4	21	87	3	68	26	21	26	25	1.99
6973865--6973916	21	2.4	22	90	3	79	28	21	26	23	1.99
6973955--6974006	27	1.9	27	84	0	68	25	11	15	48	1.78
6982617--6982641	13	1.9	13	100	0	50	24	0	8	68	1.16
6984497--6984562	8	8.9	7	90	9	64	48	0	0	51	1.00
6984502--6984557	2	28.5	2	96	3	105	50	0	0	50	1.00
6984616--6984696	36	2.2	36	86	0	117	16	41	14	27	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6987242--6987307	31	2.1	31	91	0	105	30	19	18	31	1.96
6990401--6990451	20	2.5	21	80	3	68	43	9	3	43	1.56
6991430--6991680	128	2.0	128	91	0	412	21	25	25	27	1.99
6991897--6991921	6	4.2	6	100	0	50	36	48	16	0	1.46
6993236--6993305	15	4.7	15	83	0	86	24	0	14	61	1.33
6996549--6997096	201	2.7	201	80	4	529	35	19	10	34	1.86
6998984--6999043	28	2.1	28	87	0	84	48	10	8	33	1.67
7000449--7000487	20	2.0	20	90	10	62	17	5	2	74	1.12
7006710--7006747	20	1.9	20	100	0	76	26	15	18	39	1.91
7009952--7010011	22	2.7	22	79	5	68	18	20	31	30	1.96
7016059--7016223	74	2.3	73	79	10	160	50	1	3	45	1.25
7016102--7016156	26	2.1	27	89	3	85	50	0	0	49	1.00
7016102--7016158	28	2.1	27	90	3	87	50	0	0	49	1.00
7016104--7016293	21	9.7	20	66	21	84	48	0	2	48	1.17
7016612--7016718	30	3.6	30	83	1	126	43	10	9	36	1.71
7017562--7017687	64	2.0	65	90	1	200	54	3	7	34	1.45
7022671--7022729	3	20.0	3	86	10	86	33	0	0	66	0.92
7029956--7029998	4	11.2	4	85	9	63	51	23	0	25	1.49
7030356--7030497	36	4.0	36	74	11	141	29	21	12	36	1.90
7030356--7030490	71	1.9	72	83	4	175	31	21	13	34	1.92
7030457--7030654	105	1.9	106	87	3	292	29	19	10	39	1.85
7030985--7031141	29	5.5	29	93	2	255	29	9	15	45	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7031152--7031255	52	2.0	54	92	3	176	32	14	17	35	1.90
7031243--7031307	30	2.1	31	91	2	105	36	9	13	40	1.77
7031528--7031624	28	3.4	28	82	15	101	25	15	13	45	1.83
7031543--7031624	28	2.9	27	82	13	103	24	14	14	46	1.82
7031724--7031991	46	6.2	45	70	12	159	26	31	17	24	1.97
7032163--7032218	3	19.0	3	85	10	80	33	0	0	66	0.92
7035636--7035692	30	1.9	30	85	7	80	59	5	1	33	1.30
7039097--7039191	2	47.5	2	97	0	181	50	48	0	1	1.07
7041897--7041975	37	2.2	37	90	6	126	27	20	20	31	1.97
7044704--7044785	23	3.7	21	77	8	74	24	24	26	24	2.00

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50