genome.fa.s8716.2.7.7.80.10.50.1000.23.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: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5677467

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   

This is table  23  of  24  ( 2813 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)
5331901--5331927	14	1.9	14	100	0	54	81	0	7	11	0.87
5333483--5333557	30	2.5	30	82	4	89	40	8	20	32	1.81
5335572--5335618	14	3.4	14	73	8	51	19	6	19	55	1.64
5335640--5335819	45	4.0	45	90	0	281	39	6	21	32	1.79
5336390--5336459	22	3.2	22	81	4	61	27	11	25	35	1.90
5336407--5336467	22	2.8	22	87	0	86	26	8	26	39	1.84
5337054--5337090	19	1.9	19	94	0	65	45	2	10	40	1.53
5337317--5337347	16	1.9	16	100	0	62	48	12	12	25	1.77
5351696--5351734	21	1.9	20	89	5	60	28	12	20	38	1.89
5361316--5361377	23	2.9	21	85	7	81	20	35	25	17	1.95
5361359--5361398	21	1.9	21	84	0	53	25	37	27	10	1.88
5368438--5368511	2	37.0	2	100	0	148	50	0	0	50	1.00
5369105--5369164	31	2.0	31	83	3	77	56	8	10	25	1.60
5370840--5370870	3	10.3	3	100	0	62	67	32	0	0	0.91
5377806--5377839	2	17.0	2	100	0	68	50	0	0	50	1.00
5380011--5380040	2	15.0	2	100	0	60	50	0	0	50	1.00
5383054--5383125	16	4.5	16	94	0	117	25	23	16	34	1.95
5383042--5383127	32	2.7	32	87	0	136	23	23	16	37	1.94
5383344--5383376	14	2.4	14	94	0	57	27	6	9	57	1.53
5384244--5384273	9	3.3	9	100	0	60	66	0	0	33	0.92
5386881--5387078	53	3.8	52	77	1	189	43	5	27	23	1.76
5386910--5387118	106	2.0	106	83	3	269	41	4	28	25	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5386881--5387112	53	4.4	53	77	1	187	41	4	28	25	1.75
5392045--5392077	15	2.2	15	100	0	66	63	6	18	12	1.48
5392311--5392405	37	2.6	36	80	12	106	64	1	8	26	1.29
5392390--5392427	4	10.0	4	88	11	62	76	0	0	23	0.79
5392487--5392577	2	47.0	2	78	10	91	51	0	4	43	1.21
5392573--5392615	19	2.3	19	92	4	70	72	2	0	25	0.97
5402263--5402302	21	1.9	21	84	0	53	20	30	5	45	1.72
5406135--5406197	13	4.5	13	75	13	54	73	4	6	15	1.21
5408377--5408417	14	2.8	14	88	7	55	19	14	12	53	1.72
5408718--5408758	20	2.0	20	85	0	55	7	14	24	53	1.66
5412109--5412178	30	2.4	30	83	7	81	41	4	17	37	1.69
5419467--5419555	29	3.0	29	79	8	90	41	4	16	37	1.69
5419533--5419564	15	2.0	17	88	11	50	43	0	3	53	1.16
5419467--5419555	30	3.0	30	73	16	80	41	4	16	37	1.69
5422444--5422507	24	2.6	24	85	7	76	37	17	18	26	1.93
5422491--5422539	25	2.0	25	83	0	62	28	18	28	24	1.98
5430536--5430567	11	2.8	12	90	9	57	50	15	0	34	1.45
5431411--5431471	31	2.0	31	84	9	81	34	24	9	31	1.88
5444541--5444616	31	2.6	29	78	13	93	36	22	3	36	1.73
5451420--5452049	253	2.5	252	81	9	652	32	15	17	34	1.91
5452040--5452084	15	2.9	15	78	21	56	75	0	11	13	1.05
5454718--5454815	23	4.3	23	78	6	110	20	24	21	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5454718--5454810	46	2.0	46	91	0	150	20	24	21	33	1.97
5457653--5457700	16	3.1	17	75	25	52	60	2	0	37	1.09
5463156--5463306	74	2.0	74	96	0	275	37	11	5	46	1.62
5463727--5463796	25	2.9	24	78	8	79	54	1	1	42	1.18
5463770--5463830	21	3.0	20	78	4	77	54	1	1	42	1.20
5463775--5463839	21	3.2	20	75	12	69	52	1	1	44	1.19
5467662--5467728	23	2.9	23	97	0	125	29	26	23	19	1.98
5471952--5471997	20	2.3	20	81	7	58	32	13	17	36	1.88
5480481--5480534	19	2.8	19	94	0	81	25	24	14	35	1.94
5484155--5484214	32	2.0	29	87	9	84	36	21	6	35	1.80
5487719--5487793	18	3.9	18	78	13	87	25	30	21	22	1.99
5487735--5487799	22	3.1	21	74	17	73	27	26	20	26	1.99
5487719--5487799	40	2.0	40	92	0	135	25	28	20	24	1.99
5492195--5492261	22	3.0	22	97	0	125	26	26	20	25	1.99
5493950--5494043	27	3.3	27	75	15	75	74	3	4	18	1.12
5493973--5494079	9	11.3	9	70	20	51	71	2	3	21	1.14
5494164--5494209	2	23.0	2	100	0	92	50	0	0	50	1.00
5494365--5494399	2	17.5	2	100	0	70	51	0	0	48	1.00
5494597--5494621	2	12.5	2	100	0	50	52	0	0	48	1.00
5494617--5494645	14	2.0	15	93	6	51	68	3	0	27	1.05
5494628--5494668	11	3.6	11	87	6	55	65	4	4	24	1.32
5494619--5494669	12	4.1	13	75	17	54	66	5	3	23	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5494750--5494794	12	3.7	12	81	3	54	66	0	4	28	1.11
5494688--5494794	24	4.3	24	71	24	80	66	0	4	28	1.18
5495343--5495447	37	2.8	36	84	5	138	31	15	14	39	1.87
5496175--5497641	106	13.9	106	90	2	2159	23	17	24	33	1.96
5498479--5498555	22	3.5	22	90	0	127	20	14	28	36	1.92
5499159--5499235	16	5.0	14	76	18	57	1	14	6	77	1.02
5499162--5499233	33	2.3	32	81	13	87	1	15	6	76	1.06
5502461--5502498	19	2.0	20	89	5	60	68	0	23	7	1.16
5503628--5503776	27	5.6	27	69	18	75	72	3	4	20	1.15
5503688--5503790	4	24.0	4	68	23	50	69	3	0	25	1.11
5503731--5503785	18	3.2	18	76	7	60	69	0	0	30	0.89
5503655--5503784	27	4.6	27	72	18	77	72	3	3	21	1.12
5503849--5503887	2	19.5	2	100	0	78	51	0	0	48	1.00
5504389--5504433	12	3.7	12	81	3	54	66	0	4	28	1.11
5504458--5504519	20	3.3	20	66	25	62	45	3	16	35	1.63
5504455--5504527	36	2.0	36	100	0	146	47	2	16	32	1.61
5505028--5505132	37	2.8	37	89	0	156	31	13	14	40	1.84
5512127--5512164	14	2.7	14	100	0	76	21	13	13	52	1.73
5513532--5513569	19	2.0	20	85	15	53	21	15	21	42	1.89
5514181--5514210	3	10.0	3	100	0	60	33	0	0	66	0.92
5515399--5515448	15	3.4	16	78	13	54	24	6	0	70	1.10
5520764--5520838	32	2.4	31	91	4	123	10	25	33	30	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5523697--5523735	14	2.7	15	84	8	53	20	2	2	74	1.06
5544502--5544574	23	3.2	23	84	3	94	39	19	5	35	1.75
5544989--5545061	23	3.2	23	90	0	110	39	20	5	34	1.76
5544105--5545362	487	2.6	489	94	1	2172	40	10	7	42	1.66
5548496--5548738	120	2.0	120	95	0	432	38	16	13	32	1.87
5548331--5550050	303	5.7	303	96	0	3156	35	16	14	33	1.89
5548799--5549045	120	2.1	120	94	0	431	37	15	14	32	1.87
5549102--5549348	120	2.1	120	93	0	422	37	15	14	32	1.88
5549405--5549647	120	2.0	120	92	0	405	38	15	13	32	1.86
5549708--5549955	120	2.1	120	93	0	424	39	15	13	31	1.86
5551260--5551310	3	17.0	3	87	0	75	27	33	1	37	1.68
5551260--5551327	12	5.7	12	91	0	82	25	32	4	38	1.76
5552778--5553939	200	5.8	200	94	0	1975	30	18	14	36	1.91
5555994--5556059	33	2.0	33	90	0	105	22	48	0	28	1.51
5556093--5556157	21	3.1	21	88	0	94	18	30	9	41	1.82
5558563--5558600	20	1.9	20	100	0	76	23	15	13	47	1.81
5558346--5558818	181	2.6	181	89	1	687	27	16	13	42	1.86
5559712--5559744	16	1.9	17	88	11	50	36	0	3	60	1.12
5559705--5559746	17	2.4	19	80	15	54	33	0	2	64	1.07
5561213--5561248	18	1.9	19	88	5	56	19	13	16	50	1.79
5562841--5562879	18	2.2	18	95	0	69	38	17	5	38	1.72
5566118--5566143	7	3.7	7	100	0	52	15	15	26	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5566166--5566206	15	2.6	16	88	7	66	65	2	0	31	1.05
5566179--5566236	22	2.5	24	83	5	75	63	8	0	27	1.23
5568327--5568660	43	7.8	42	80	4	337	32	18	23	24	1.97
5568321--5568659	86	4.0	86	80	3	389	33	18	24	24	1.97
5568321--5568658	128	2.6	128	81	3	392	33	18	23	24	1.97
5571491--5572033	41	13.2	40	79	5	444	31	17	21	29	1.96
5571487--5572033	164	3.3	163	82	4	566	31	17	21	29	1.96
5571897--5572050	41	3.8	40	79	4	119	37	17	17	27	1.92
5574007--5575281	106	12.0	106	91	0	1933	34	25	17	22	1.96
5575997--5576101	37	2.8	37	89	0	156	40	15	13	30	1.85

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