genome.fa.s8052.2.7.7.80.10.50.1000.2.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: VEPZ01008052.1 Hibiscus syriacus cultivar Beakdansim tig00110547_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  532719

Tables:   1   2   3   

This is table  2  of  3  ( 278 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)
260263--260307	22	2.0	22	100	0	90	35	8	17	37	1.81
265768--265803	2	18.5	2	88	5	56	55	44	0	0	0.99
266250--266275	7	3.7	7	100	0	52	15	0	0	84	0.62
266520--266545	10	2.6	10	100	0	52	76	0	0	23	0.78
266988--267045	25	2.3	25	84	3	71	50	3	5	41	1.42
267002--267059	25	2.3	25	82	11	66	53	6	5	34	1.50
266988--267059	25	2.9	24	81	8	65	50	5	5	38	1.49
267808--267844	2	18.5	2	100	0	74	51	0	0	48	1.00
270152--270221	27	2.6	27	90	0	104	28	15	31	24	1.96
270162--270227	27	2.4	27	92	0	105	31	15	25	27	1.95
278711--278750	21	1.9	21	84	0	53	40	32	12	15	1.84
279223--279289	22	3.1	23	78	19	74	43	0	1	55	1.09
279249--279289	8	5.2	8	85	14	59	46	0	0	53	1.00
279249--279319	15	4.7	15	77	13	65	50	1	0	47	1.09
279277--279364	29	3.0	28	79	9	79	47	1	1	50	1.16
279334--279375	21	2.0	22	85	4	59	47	0	0	52	1.00
279348--279406	28	2.2	27	83	16	79	49	0	1	49	1.11
279363--279415	20	2.7	19	73	18	54	49	0	1	49	1.12
279526--279635	48	2.3	47	77	13	114	49	0	0	50	1.07
279569--279627	22	2.7	22	81	7	66	50	0	1	47	1.11
279595--279643	22	2.2	22	79	13	57	44	0	2	53	1.12
279797--279842	15	3.1	15	78	6	58	30	17	8	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
279821--279861	21	2.0	21	90	0	64	29	19	7	43	1.78
282381--282446	34	1.9	34	100	0	132	48	12	3	36	1.56
286386--286557	90	1.9	89	90	2	274	44	5	11	37	1.65
287675--287714	20	1.9	22	85	10	57	35	0	7	57	1.27
288539--288597	30	2.0	30	93	0	100	37	15	13	33	1.86
289867--289919	21	2.5	21	78	6	54	73	0	13	13	1.10
290006--290040	17	2.0	18	88	5	54	31	8	0	60	1.27
292757--292790	16	2.1	16	89	10	52	35	20	11	32	1.89
294218--294267	12	4.2	12	77	12	50	46	0	0	54	1.00
303912--304002	20	4.3	20	78	9	92	41	0	7	50	1.31
303935--303995	7	8.6	7	71	10	52	47	0	3	49	1.18
303921--304002	43	1.9	42	85	7	112	42	0	6	51	1.26
303914--304002	21	4.2	21	78	14	94	41	0	7	50	1.31
311157--311238	41	2.0	41	97	0	155	39	12	18	30	1.87
317018--317048	2	15.5	2	100	0	62	51	0	0	48	1.00
318610--318684	37	2.0	37	82	10	91	50	4	0	45	1.20
324364--324390	14	1.9	14	100	0	54	29	18	7	44	1.77
333065--333095	16	1.9	16	100	0	62	38	19	25	16	1.92
339429--339845	208	2.0	208	100	0	834	22	27	24	24	2.00
340909--341040	59	2.2	59	77	5	133	35	15	13	34	1.87
344630--344769	26	5.3	26	72	10	122	40	15	10	35	1.80
344609--344770	80	2.0	80	97	0	306	37	14	9	38	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347738--347777	2	20.5	2	94	5	73	50	0	0	50	1.00
351224--351399	88	2.0	88	100	0	352	31	22	18	27	1.97
359428--359631	100	2.0	100	100	0	408	37	15	11	35	1.84
369925--369964	2	20.0	2	100	0	80	50	0	0	50	1.00
370228--370254	2	13.5	2	100	0	54	48	0	0	51	1.00
371001--371044	20	2.2	20	83	0	52	47	4	0	47	1.22
371059--371125	24	2.8	24	77	4	64	56	2	0	40	1.14
377330--377487	21	7.8	20	72	7	86	38	25	17	18	1.92
377454--377647	20	9.6	20	81	5	221	35	25	19	19	1.95
377454--377647	60	3.2	60	83	0	253	35	25	19	19	1.95
378055--378102	19	2.5	19	96	0	87	10	20	25	43	1.83
378200--378309	21	5.8	20	74	17	108	45	18	24	11	1.83
378193--378309	41	3.1	38	81	14	145	46	17	25	11	1.81
378260--378316	14	3.7	14	75	20	60	43	22	24	8	1.81
378252--378332	33	2.5	33	95	0	144	46	22	22	8	1.78
378328--378447	19	7.1	18	68	24	84	10	24	20	45	1.83
378350--378439	14	5.7	14	72	23	72	10	24	22	43	1.83
378333--378447	33	3.5	33	95	0	212	10	23	20	46	1.81
380144--380426	93	3.1	93	96	0	532	22	12	18	46	1.82
380474--380569	19	5.3	19	79	13	112	45	30	14	9	1.76
380565--380684	19	6.6	19	79	11	126	11	19	24	45	1.83
382746--382843	19	5.4	19	84	13	143	45	17	22	14	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
382746--382861	53	2.2	53	98	1	225	43	18	24	13	1.86
382868--383020	33	4.5	33	74	16	159	13	22	17	45	1.84
382890--383106	19	12.4	19	77	19	249	13	21	17	46	1.83
382868--383078	52	4.0	52	99	0	413	13	23	17	45	1.83
382909--383120	33	6.2	33	77	14	234	13	22	18	46	1.83
385403--385427	12	2.1	12	100	0	50	0	28	0	72	0.86
385599--385645	24	2.0	24	87	8	69	38	21	14	25	1.92
386326--386535	20	10.5	20	84	5	228	20	18	25	36	1.95
386503--386556	20	2.7	19	85	5	63	11	18	24	46	1.81
396022--396286	132	2.0	132	95	4	482	48	12	5	34	1.63
403409--403444	6	6.0	6	100	0	72	33	50	16	0	1.46
404115--404193	6	14.4	5	93	6	95	0	18	55	25	1.43
404115--404193	16	4.8	16	92	6	106	0	18	55	25	1.43
404300--404494	20	9.6	20	74	9	117	15	22	21	41	1.90
404444--404494	19	2.6	20	90	3	77	15	17	23	43	1.88
405583--405736	36	4.2	36	85	6	179	50	4	2	42	1.36
405662--405780	29	3.9	28	71	21	80	49	3	4	42	1.38
405698--405756	28	2.1	29	84	9	77	55	3	3	37	1.33
407866--407911	20	2.4	19	82	13	58	60	6	2	30	1.34
411279--411333	16	3.4	16	89	0	83	54	21	12	10	1.68
412259--412308	24	2.1	24	96	0	91	58	24	10	8	1.57
412260--412309	14	3.9	14	75	20	63	56	26	10	8	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412627--412664	20	2.0	20	94	5	69	71	2	0	26	1.00
417160--417229	31	2.3	31	87	5	97	35	2	24	37	1.70
417410--417449	14	2.7	15	88	7	55	27	10	2	60	1.42
417567--417621	21	2.6	21	91	0	92	30	16	21	30	1.95
421828--421866	16	2.4	16	95	0	69	51	17	5	25	1.66
423434--423471	19	2.0	19	89	0	58	47	10	0	42	1.38
430607--430662	15	3.7	15	87	0	67	12	14	60	12	1.59
438799--438840	6	7.2	6	97	2	77	50	16	16	16	1.79
442313--442346	6	6.0	6	96	3	54	0	17	52	29	1.45
443744--443793	21	2.4	21	89	0	73	24	22	26	28	1.99
447691--447824	59	2.3	59	84	5	164	32	10	8	48	1.67
447830--447878	23	2.1	24	78	17	59	32	12	6	48	1.65
463738--463779	16	2.6	17	85	7	52	30	2	0	66	1.04
465861--465905	20	2.4	19	85	7	56	48	8	22	20	1.76
466059--466089	15	2.1	15	93	0	53	54	0	0	45	0.99
467198--467225	12	2.3	12	100	0	56	25	32	25	17	1.97
467274--467312	19	2.1	19	95	0	69	20	38	15	25	1.92
467211--467439	64	3.5	62	81	11	205	28	25	17	28	1.97
467260--467418	65	2.5	65	87	1	212	30	25	16	28	1.97
473918--473997	31	2.6	31	91	0	124	31	2	35	31	1.71
474381--474419	19	2.1	19	90	0	60	20	35	15	28	1.93
474367--474525	65	2.5	65	85	3	196	30	25	16	28	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482468--482514	20	2.4	19	82	6	58	55	4	12	27	1.56
484185--484229	21	2.1	21	84	8	56	33	26	24	15	1.95
484256--484293	20	1.9	20	88	0	58	23	34	31	10	1.89
485008--485135	31	4.1	30	83	7	107	28	19	20	31	1.97
492012--492043	2	16.0	2	100	0	64	50	0	0	50	1.00
492898--492929	8	4.0	8	95	0	55	46	0	0	53	1.00
493660--493714	19	2.9	19	83	5	67	52	1	0	45	1.11
493668--493713	6	7.5	6	80	4	56	56	2	0	41	1.11
500933--501056	57	2.2	57	86	0	167	22	20	27	29	1.98
513182--513254	29	2.5	29	88	4	103	13	36	24	24	1.92

Tables:   1   2   3