genome.fa.s9587.2.7.7.80.10.50.1000.22.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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   

This is table  22  of  29  ( 3457 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)
4796125--4796384	82	3.2	82	82	2	238	25	21	17	35	1.95
4796188--4796425	41	5.8	40	88	5	288	23	21	16	37	1.94
4796189--4796430	122	2.0	121	85	10	334	24	21	16	36	1.94
4799857--4799911	19	2.8	20	83	2	67	38	21	21	18	1.94
4799884--4800008	33	3.8	33	91	0	205	45	16	24	14	1.84
4799864--4800008	19	8.4	19	68	21	86	44	17	24	14	1.86
4800015--4800094	33	2.4	33	91	0	124	11	21	21	46	1.82
4800036--4800094	19	3.4	18	71	22	54	13	22	18	45	1.84
4800192--4800228	14	2.6	14	91	0	65	45	21	0	32	1.52
4801618--4801697	42	1.9	42	84	0	106	22	17	38	21	1.93
4802206--4802281	39	2.1	34	86	13	100	9	23	18	48	1.76
4802225--4802281	19	2.9	19	92	5	96	10	22	17	49	1.77
4802218--4802279	20	3.2	20	90	4	108	11	22	16	50	1.76
4802370--4802745	94	4.1	94	95	2	638	47	19	12	21	1.81
4804434--4804496	20	3.2	20	82	8	83	46	17	23	12	1.83
4804432--4804586	33	4.5	33	86	5	193	47	19	21	11	1.81
4810760--4810798	18	2.1	19	86	13	55	28	5	5	61	1.39
4813421--4813502	31	2.7	31	81	3	87	43	6	8	41	1.60
4813429--4813529	31	3.3	31	76	8	84	47	7	5	38	1.57
4815109--4815191	29	2.8	29	90	1	130	42	10	14	32	1.80
4819842--4819924	29	2.8	29	90	1	130	42	10	14	32	1.80
4826583--4826617	12	2.9	12	86	0	52	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4826974--4827005	16	2.0	16	100	0	64	25	18	18	37	1.94
4838890--4838950	22	2.7	23	79	5	70	19	22	31	26	1.98
4838869--4838951	22	3.9	21	69	18	55	19	21	30	28	1.98
4846387--4846442	26	2.1	27	93	3	96	42	10	14	32	1.80
4850325--4850399	2	37.5	2	100	0	150	49	0	0	50	1.00
4860827--4860901	11	6.1	12	79	19	75	77	1	0	21	0.85
4860822--4860907	6	14.3	6	75	17	63	76	1	0	22	0.85
4860853--4860897	4	12.2	4	77	17	53	77	0	0	22	0.76
4860827--4860907	36	2.2	37	85	10	105	76	1	0	22	0.86
4860823--4860903	25	3.2	25	81	15	87	76	1	0	22	0.86
4860839--4860908	6	12.0	6	82	13	67	75	0	0	24	0.80
4866702--4866862	81	2.0	81	91	0	259	26	21	13	38	1.90
4866809--4867061	68	3.7	67	85	2	310	33	24	12	28	1.92
4866808--4867059	136	1.9	136	84	3	346	33	24	12	29	1.92
4867283--4867430	56	2.7	53	85	7	188	35	22	11	31	1.90
4867965--4868037	20	3.7	19	75	15	69	26	23	13	36	1.92
4871716--4871752	19	1.9	19	94	0	65	32	29	16	21	1.95
4872625--4872678	24	2.2	24	90	0	81	20	20	20	38	1.93
4874935--4874969	18	1.9	18	94	0	61	54	25	2	17	1.57
4875140--4875276	20	6.8	20	87	2	195	32	21	18	28	1.96
4875348--4875425	20	3.9	20	91	0	120	14	17	24	43	1.86
4875477--4875655	71	2.6	68	81	13	190	51	17	2	29	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4876941--4877058	21	5.6	21	73	0	83	24	17	33	23	1.96
4876957--4877063	42	2.5	42	78	1	115	26	18	33	21	1.96
4877539--4877582	20	2.2	20	95	0	79	50	22	13	13	1.77
4877569--4877635	20	3.3	20	87	0	98	37	25	20	16	1.93
4877642--4877695	19	2.8	19	85	0	63	50	24	14	11	1.75
4879718--4879829	20	5.7	20	83	1	100	41	22	17	17	1.90
4879798--4879840	19	2.3	19	88	8	61	44	23	18	13	1.86
4880221--4880271	22	2.3	22	96	0	93	19	15	45	19	1.86
4880438--4880549	20	5.6	20	82	4	136	25	17	26	29	1.98
4880536--4880589	20	2.7	21	71	8	58	25	16	29	27	1.97
4885005--4885035	16	2.0	15	93	6	53	22	6	25	45	1.76
4886881--4886922	22	1.9	22	90	0	66	30	26	16	26	1.97
4887954--4888001	20	2.4	19	83	10	60	31	20	18	29	1.97
4887987--4888039	21	2.5	21	75	0	61	33	20	16	28	1.95
4891442--4891503	19	3.3	19	81	0	70	16	30	20	32	1.95
4900798--4900847	22	2.3	22	80	16	52	20	16	4	60	1.52
4902475--4902500	2	13.0	2	100	0	52	50	0	0	50	1.00
4903712--4903798	24	3.7	23	87	4	120	36	18	18	26	1.94
4913842--4913969	10	13.3	9	76	12	103	16	27	27	28	1.97
4913862--4913969	19	5.7	19	78	13	100	15	27	28	27	1.96
4913841--4913944	29	3.6	29	93	5	174	17	26	26	28	1.97
4913966--4914044	5	14.8	5	75	17	70	18	50	22	7	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4913966--4914051	22	4.0	22	96	3	165	18	48	23	9	1.76
4914005--4914059	26	2.0	27	89	6	85	18	45	25	10	1.82
4914041--4914071	7	4.4	7	95	0	53	19	29	25	25	1.99
4921466--4921564	10	10.3	9	75	12	72	17	27	26	29	1.97
4921467--4921564	19	5.1	19	74	16	69	16	27	26	29	1.97
4921465--4921564	29	3.4	30	83	9	118	18	27	26	29	1.98
4921561--4921644	5	15.8	5	76	16	80	19	51	22	7	1.71
4921561--4921651	27	4.0	22	84	16	130	18	49	23	8	1.75
4921641--4921671	7	4.4	7	95	0	53	19	29	25	25	1.99
4924026--4924061	16	2.3	15	90	4	54	44	2	2	50	1.31
4924668--4924703	18	2.0	18	100	0	72	22	16	27	33	1.95
4926832--4926857	11	2.4	11	100	0	52	7	26	7	57	1.54
4935024--4935106	22	3.7	22	87	3	103	22	32	26	18	1.97
4938807--4938876	23	3.0	23	89	2	104	28	21	28	21	1.99
4951299--4951341	20	2.2	20	100	0	86	16	0	27	55	1.41
4954414--4954477	28	2.3	28	97	2	121	12	9	35	42	1.75
4956587--4956643	29	2.0	29	89	6	89	12	33	31	22	1.91
4956702--4956786	29	2.9	29	94	0	143	12	35	28	23	1.92
4956797--4956849	23	2.2	24	80	3	63	15	33	28	22	1.94
4959080--4959146	33	2.0	33	100	0	134	49	11	23	14	1.77
4963190--4963262	27	2.6	29	73	18	73	20	6	4	68	1.30
4963189--4963263	14	5.4	14	70	20	50	21	6	4	68	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4965665--4965757	33	2.9	31	70	17	100	35	9	30	24	1.88
4966267--4966343	38	2.0	38	92	0	127	41	16	10	31	1.82
4977188--4977235	2	24.5	2	95	4	89	50	0	0	50	1.00
4978787--4978820	3	11.0	3	87	6	50	61	2	0	35	1.11
4980440--4980480	16	2.4	18	92	8	68	26	21	12	39	1.89
4983255--4983288	2	17.0	2	100	0	68	50	0	0	50	1.00
4985838--4985935	21	4.8	20	75	10	81	38	21	18	21	1.93
4985902--4986131	20	11.5	20	81	5	232	36	24	18	19	1.94
4986751--4986804	19	3.1	18	77	20	62	48	18	22	11	1.79
4986800--4986928	19	7.3	19	75	17	125	8	17	28	45	1.77
4986800--4986891	33	2.8	33	93	3	150	7	18	28	45	1.76
4986976--4987350	93	4.1	93	98	1	727	46	19	12	21	1.83
4986975--4987346	185	2.0	184	98	0	726	46	19	12	21	1.83
4989046--4989135	14	5.7	14	72	23	72	43	23	24	8	1.82
4989038--4989152	33	3.5	33	97	0	221	46	20	23	9	1.80
4989060--4989157	19	5.7	19	71	22	90	43	22	23	10	1.83
4989169--4989225	14	3.7	14	75	20	60	8	24	22	43	1.81
4989153--4989233	33	2.5	33	93	0	135	8	22	23	45	1.79
4989210--4989285	21	3.7	21	85	3	109	11	25	18	44	1.83
4989209--4989286	41	1.9	41	94	0	138	12	25	17	43	1.85
4989365--4989435	33	2.2	33	89	0	106	47	18	21	12	1.81
4989616--4989670	22	2.5	22	81	0	74	20	16	40	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4989817--4990010	20	9.6	20	82	5	221	19	19	25	35	1.95
4989817--4990010	60	3.2	60	83	0	253	19	19	25	35	1.95
4989997--4990079	21	4.0	21	73	6	78	25	16	24	33	1.96
4989977--4990075	42	2.4	43	77	11	100	21	18	23	37	1.94
4992548--4992616	30	2.3	30	97	0	129	36	30	4	28	1.77
4993698--4993727	13	2.2	14	94	5	53	0	13	33	53	1.40
4996096--4996239	65	2.2	66	82	6	177	31	18	20	29	1.96
4998345--4998388	13	3.3	13	77	3	52	43	9	11	36	1.72
4998857--4998911	20	2.8	20	97	0	101	27	20	23	29	1.99
4998894--4999042	44	3.4	44	86	0	199	26	23	20	28	1.99

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