genome.fa.s8548.2.7.7.80.10.50.1000.2.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: VEPZ01008548.1 Hibiscus syriacus cultivar Beakdansim tig00111440_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1170587

Tables:   1   2   3   4   5   6   7   

This is table  2  of  7  ( 723 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)
254361--254444	33	2.5	33	92	0	141	20	34	29	15	1.93
258194--258228	18	1.9	18	88	0	52	28	17	0	54	1.43
259383--259451	19	3.6	19	88	0	102	15	34	31	17	1.92
259407--259458	14	3.4	14	74	23	50	17	34	32	15	1.91
261594--261634	21	1.9	22	90	5	66	51	7	0	41	1.30
265036--265091	2	28.0	2	100	0	112	50	0	0	50	1.00
265360--265423	23	2.8	23	90	0	101	26	26	28	18	1.98
266304--266460	64	2.5	64	84	6	185	28	19	19	33	1.96
270894--270957	23	2.8	23	87	0	92	26	25	29	18	1.98
274024--274062	19	2.0	20	95	5	71	69	0	15	15	1.20
274202--274230	14	2.0	15	93	6	51	68	3	0	27	1.05
284398--284476	20	4.0	20	91	0	122	25	26	20	27	1.99
284383--284472	40	2.2	40	82	0	117	26	27	20	25	1.99
285109--285161	20	2.7	20	90	0	79	16	18	26	37	1.93
285129--285184	20	2.8	20	88	0	76	10	14	23	51	1.73
286909--286958	18	2.8	18	100	0	100	32	20	6	42	1.76
287103--287170	20	3.4	20	93	0	109	35	25	20	19	1.96
287751--287792	21	2.2	19	87	12	59	21	35	19	23	1.96
289255--289316	14	4.3	14	77	6	61	38	0	14	46	1.45
289477--289610	34	3.8	34	77	13	144	23	19	22	35	1.96
289462--289749	20	15.6	20	69	17	178	24	17	22	35	1.95
289531--289737	54	3.8	54	87	3	283	23	15	23	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
289471--289633	74	2.2	74	89	0	245	23	19	22	34	1.96
289720--289988	139	1.9	140	96	0	504	43	15	13	28	1.84
290048--290082	18	1.9	18	94	0	61	17	2	25	54	1.57
292345--292398	24	2.2	24	93	0	90	40	20	18	20	1.91
293122--293285	84	2.0	84	97	0	310	26	13	22	37	1.91
293303--293389	20	4.3	20	92	0	129	25	21	27	25	2.00
293618--293651	15	2.3	15	100	0	68	38	11	5	44	1.65
296088--296199	3	37.7	3	89	1	172	33	0	0	66	0.98
298174--298228	21	2.6	21	82	2	65	27	1	0	70	0.97
308854--308946	11	8.2	11	75	17	84	79	0	17	3	0.86
308854--308947	12	7.8	12	76	16	88	78	0	18	3	0.88
308858--308946	17	5.1	17	78	16	76	79	0	16	3	0.86
309277--309318	19	2.2	20	91	4	68	30	4	11	52	1.59
310099--310562	52	8.9	52	94	1	797	25	15	22	37	1.93
311199--312541	118	11.4	118	95	1	2364	36	14	20	28	1.92
311196--312541	471	2.9	471	96	1	2445	36	15	20	28	1.92
312696--312819	3	41.7	3	88	1	187	33	0	0	65	0.99
313273--313303	13	2.4	13	94	0	53	67	9	22	0	1.19
313295--313345	24	2.2	24	89	3	77	72	11	15	0	1.12
317389--317422	2	17.0	2	100	0	68	50	0	0	50	1.00
333247--333280	5	6.6	5	96	3	59	76	20	0	2	0.92
334336--334373	20	1.9	20	88	0	58	26	7	2	63	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
337850--337892	15	2.7	16	82	10	52	13	23	11	51	1.74
338675--338707	14	2.4	14	100	0	66	42	15	6	36	1.71
339020--339109	28	3.2	29	79	14	91	82	4	13	0	0.82
339020--339096	32	2.5	31	83	8	93	81	3	14	0	0.82
339020--339109	14	6.2	13	76	22	74	82	4	13	0	0.82
339702--339778	22	3.5	22	90	0	118	38	27	14	19	1.90
340195--340230	18	2.0	18	88	0	54	19	8	27	44	1.79
340371--341151	106	7.4	106	93	0	1276	33	25	19	22	1.97
342409--342439	8	3.9	8	95	0	53	38	0	0	61	0.96
342500--342537	20	1.9	20	88	0	58	26	7	2	63	1.35
342480--342569	37	2.4	38	76	14	105	21	10	1	67	1.26
345451--345503	21	2.5	21	75	0	61	47	22	1	28	1.62
351153--351332	42	4.3	42	76	9	188	33	18	17	30	1.94
351153--351412	125	2.1	124	83	1	324	33	18	18	30	1.95
351757--351802	3	14.7	3	82	17	58	32	2	2	63	1.19
351755--351799	23	2.0	23	86	8	65	33	2	2	62	1.20
353285--353535	30	8.5	30	76	7	174	20	12	9	57	1.63
353257--353556	30	10.1	29	71	13	157	19	12	10	58	1.62
353285--353556	60	4.6	60	71	8	198	19	12	9	58	1.61
356787--356889	15	7.2	14	70	24	65	74	8	14	1	1.14
356794--356841	8	5.9	8	79	20	55	77	8	14	0	0.99
356792--356844	17	3.2	16	85	12	72	79	7	13	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
356785--356881	26	3.9	26	74	17	75	75	8	14	2	1.12
358784--358824	17	2.4	17	87	0	55	14	21	31	31	1.94
361259--361316	12	4.8	12	77	8	55	15	13	18	51	1.76
361476--361506	2	15.5	2	100	0	62	48	0	0	51	1.00
363166--363252	41	2.1	41	91	0	138	35	13	20	29	1.92
363698--363735	19	2.0	19	100	0	76	21	10	15	52	1.72
364333--364425	30	3.1	30	92	1	143	32	26	20	20	1.97
364414--364511	31	3.2	30	75	13	108	31	18	20	29	1.96
364417--364512	32	3.0	32	77	18	119	33	18	18	29	1.95
365344--365388	21	2.1	21	87	0	63	15	24	28	31	1.96
368399--368491	30	3.1	30	92	1	143	32	26	20	20	1.97
368480--368577	31	3.2	30	76	13	108	32	17	19	30	1.95
368483--368578	32	3.0	32	78	13	117	34	17	17	30	1.94
369411--369455	21	2.1	21	87	0	63	15	24	28	31	1.96
370222--370267	20	2.3	20	100	0	92	21	17	15	45	1.85
371132--371179	25	1.9	25	100	0	96	54	4	12	29	1.56
371132--371187	25	2.2	25	93	0	94	55	7	10	26	1.60
371989--372071	12	6.9	12	66	10	53	19	14	18	48	1.81
372242--372274	2	16.5	2	100	0	66	48	0	0	51	1.00
372913--373087	64	2.7	63	80	13	214	32	14	13	40	1.84
373170--373235	30	2.2	29	81	13	71	34	21	10	33	1.88
373326--373511	40	4.4	41	72	15	137	25	32	17	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
373326--373650	134	2.5	130	83	7	374	26	31	16	25	1.97
373851--373904	3	17.7	3	75	24	51	31	1	3	62	1.23
374179--374298	59	2.0	59	95	0	213	25	22	7	45	1.78
374779--374829	20	2.5	20	100	0	102	37	15	15	31	1.89
375495--375539	20	2.4	19	82	17	58	60	4	6	28	1.42
376400--376447	18	2.7	18	96	0	87	25	25	10	39	1.87
379666--379931	30	9.2	28	76	13	188	18	13	9	58	1.61
379666--379906	58	4.2	55	75	12	191	19	13	9	58	1.62
379666--379931	87	3.1	85	77	11	270	18	13	9	58	1.61
383105--383474	187	2.0	188	99	0	733	33	19	20	27	1.96
384576--384630	28	1.9	29	85	3	76	50	21	14	12	1.76
389023--389286	135	2.0	134	83	6	336	27	20	19	32	1.97
397414--397444	2	15.5	2	100	0	62	51	0	0	48	1.00
400990--401027	2	19.0	2	89	10	60	50	2	0	47	1.15
401992--402304	84	3.7	84	73	11	217	51	6	17	24	1.69
401992--402304	43	7.3	43	71	15	195	51	6	17	24	1.69
402402--402485	42	2.0	42	97	0	159	45	16	5	32	1.72
402467--402503	2	18.5	2	94	0	65	54	0	0	45	1.00
404022--404095	25	3.3	23	77	11	64	67	4	8	20	1.33
405222--405268	21	2.2	22	85	11	71	74	0	0	25	0.82
405216--405268	5	10.6	5	78	15	56	73	0	0	26	0.83
405284--405336	22	2.4	22	77	0	61	56	3	3	35	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405413--405451	18	2.1	18	85	9	51	48	0	0	51	1.00
406203--406249	2	23.0	2	95	4	85	48	2	0	48	1.13
408962--408996	2	17.5	2	100	0	70	51	0	0	48	1.00
413906--413931	2	13.0	2	100	0	52	50	0	0	50	1.00
414438--414480	22	2.0	22	100	0	86	51	13	0	34	1.42
414440--414488	22	2.2	22	88	3	71	53	14	2	30	1.52
414428--414904	54	8.5	55	75	17	340	52	11	0	35	1.41
414460--414904	32	15.5	32	72	24	329	52	11	0	35	1.42
414492--414534	22	2.0	22	100	0	86	51	13	0	34	1.42
414494--414542	22	2.2	22	85	3	62	57	14	0	28	1.38

Tables:   1   2   3   4   5   6   7