genome.fa.s8160.2.7.7.80.10.50.1000.2.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: VEPZ01008160.1 Hibiscus syriacus cultivar Beakdansim tig00110729_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1466564

Tables:   1   2   3   4   5   6   7   

This is table  2  of  7  ( 773 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)
260231--260279	17	2.9	16	74	11	53	51	4	2	42	1.32
260849--260875	14	1.9	14	100	0	54	37	0	0	62	0.95
263967--263999	16	2.1	16	88	5	50	54	0	3	42	1.15
263980--264037	31	1.9	30	82	3	71	53	3	10	32	1.52
270359--270416	20	2.8	20	81	2	62	24	36	22	17	1.95
272709--272746	15	2.7	14	92	8	60	44	13	5	36	1.66
273925--273970	23	2.0	23	86	0	65	36	19	21	21	1.95
274148--274324	60	2.9	57	77	12	151	41	2	19	36	1.66
274201--274295	29	3.2	29	71	11	84	45	0	16	37	1.48
276084--276125	22	2.0	21	86	9	59	33	7	0	59	1.25
276123--276153	16	1.9	16	100	0	62	41	0	6	51	1.27
281609--281669	28	2.1	30	81	6	72	59	1	11	27	1.42
281978--282040	27	2.3	27	88	0	90	57	0	1	41	1.08
284087--284160	37	2.0	36	82	7	87	47	4	0	48	1.20
284780--285031	131	1.9	129	93	1	432	38	18	18	23	1.93
297139--297188	20	2.5	20	93	6	84	34	18	30	18	1.94
297611--297927	55	5.8	55	86	4	401	33	20	17	28	1.96
297605--297950	165	2.1	163	83	4	446	33	20	18	28	1.96
299406--299648	109	2.2	108	83	3	310	48	19	14	17	1.82
300382--300435	22	2.4	22	84	3	72	5	14	37	42	1.69
300469--300507	3	13.0	3	84	10	53	66	0	2	30	1.05
301273--301315	21	2.0	21	86	0	59	16	0	23	60	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
302034--302093	27	2.2	27	90	0	93	23	20	11	45	1.83
302268--302350	41	2.0	41	80	2	94	30	9	28	31	1.89
305455--305505	19	2.7	19	100	0	102	31	15	25	27	1.96
305573--305627	20	2.8	20	77	0	56	30	21	21	25	1.98
306191--306243	18	2.9	18	72	10	54	28	13	30	28	1.94
310784--310913	63	2.1	63	95	0	233	37	13	20	29	1.90
320346--320384	12	3.6	12	74	25	50	25	17	30	25	1.97
320338--320392	20	2.8	20	97	0	101	23	20	30	25	1.98
331167--331218	22	2.3	22	90	3	77	38	11	11	38	1.78
333897--333940	22	2.0	22	100	0	88	36	18	4	40	1.71
334691--334885	41	4.8	41	85	1	230	24	18	18	38	1.92
337296--337365	21	3.3	21	85	0	95	25	4	14	55	1.57
337711--337861	82	1.9	81	83	4	196	35	19	15	28	1.93
337693--337867	42	4.2	42	77	7	180	34	18	17	28	1.94
338014--338167	69	2.2	69	75	6	159	28	20	21	29	1.98
339415--339484	29	2.4	29	83	6	81	31	4	14	50	1.62
348051--348258	65	3.2	64	78	12	219	31	23	17	27	1.97
351278--351485	65	3.2	64	79	12	228	31	24	17	26	1.97
354174--354254	27	3.2	27	60	22	66	28	8	19	43	1.81
354181--354257	24	3.2	24	62	17	59	29	7	19	42	1.79
354171--354272	49	2.1	49	100	0	204	28	9	18	43	1.82
358107--358156	18	2.8	18	96	0	91	24	34	26	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358950--359001	19	2.7	19	96	0	95	25	30	19	25	1.98
359111--359176	33	2.0	33	87	0	96	42	30	10	16	1.82
362454--362504	23	2.1	24	85	7	68	33	23	17	25	1.96
365750--365875	64	1.9	66	85	6	177	29	23	18	28	1.98
366629--366668	21	1.9	21	85	10	55	27	15	27	30	1.96
370365--370437	20	3.7	20	94	0	128	24	13	26	35	1.93
370635--371294	4	165.5	4	96	0	1162	25	0	24	49	1.57
373771--373822	21	2.4	22	77	6	61	51	7	0	40	1.30
380176--380227	21	2.6	19	80	19	61	55	11	0	32	1.36
381293--381352	28	2.1	30	84	6	79	40	6	5	48	1.51
387254--387286	2	16.5	2	100	0	66	48	0	0	51	1.00
388265--388322	24	2.5	23	86	5	89	55	17	5	22	1.62
393904--393956	9	5.3	10	82	13	65	77	1	16	3	1.01
393902--393969	6	11.5	6	70	14	52	76	2	17	2	1.04
395470--395567	36	2.7	36	91	0	151	22	29	14	33	1.93
395506--395618	51	2.2	51	87	0	163	21	26	17	34	1.95
395542--395582	15	2.7	15	88	0	64	19	31	17	31	1.95
395557--395654	36	2.7	36	87	0	133	23	25	16	34	1.95
395634--395673	15	2.7	14	81	11	53	25	25	22	27	2.00
395416--395674	87	3.0	87	85	2	335	24	25	16	34	1.95
395665--395756	39	2.4	39	90	0	148	29	15	17	38	1.90
395684--395775	39	2.4	39	88	0	130	32	16	15	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
395797--396243	43	10.4	43	74	8	331	28	12	29	29	1.94
395777--396245	171	2.7	172	84	4	583	28	13	28	29	1.94
395797--396243	214	2.1	214	90	0	687	28	12	29	29	1.94
396010--396265	85	3.0	84	76	9	241	27	12	30	30	1.93
396284--396560	127	2.1	130	87	4	400	24	20	21	32	1.98
396453--396678	89	2.5	90	96	1	411	24	20	23	31	1.98
407903--407949	8	5.8	8	82	2	58	40	0	8	51	1.33
407913--407966	24	2.2	24	87	6	74	42	0	9	48	1.35
414443--414501	3	19.7	3	96	0	109	64	0	1	33	1.04
414675--415317	139	4.6	139	87	2	824	26	15	27	30	1.96
416305--416368	8	7.2	8	75	18	56	4	12	0	82	0.81
416305--416365	9	6.7	9	75	17	63	4	11	0	83	0.79
416315--416364	15	3.4	15	78	13	59	6	12	0	82	0.85
416305--416365	11	5.7	10	75	12	50	4	11	0	83	0.79
427593--427619	13	2.1	13	100	0	54	7	29	22	40	1.81
433765--433871	52	2.0	53	87	1	153	37	3	8	50	1.51
433780--433897	52	2.3	52	82	5	132	40	3	6	49	1.46
434502--434533	16	2.0	17	88	11	50	25	0	0	75	0.81
436277--436408	40	3.3	39	77	6	131	33	6	13	46	1.68
436408--436580	41	4.3	41	73	6	138	32	19	14	33	1.92
436907--437078	15	11.3	15	69	22	101	63	3	28	4	1.29
436891--437085	30	6.4	30	87	4	266	64	3	27	4	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
436913--437022	17	7.1	16	65	27	67	64	2	29	3	1.24
442943--442982	20	2.0	20	85	0	53	25	0	40	35	1.56
455086--455149	32	2.0	32	96	0	119	46	26	3	23	1.67
455143--455188	18	2.6	18	85	0	65	21	28	10	39	1.87
455934--456130	108	1.8	108	89	0	313	29	11	27	31	1.91
456511--456594	44	1.9	44	87	0	123	30	17	20	30	1.96
460020--460218	79	2.5	79	92	2	321	45	8	29	16	1.77
460160--460279	61	2.0	60	86	4	170	46	6	26	20	1.75
462256--462298	18	2.4	18	88	0	59	0	20	0	79	0.74
462261--462335	20	3.8	20	77	10	73	2	16	2	78	0.97
462267--462331	28	2.4	26	80	14	78	3	15	3	78	1.00
462989--463046	17	3.4	16	78	19	64	5	17	0	77	0.94
462997--463071	28	2.6	27	83	10	87	2	18	1	77	0.96
463030--463059	13	2.4	12	94	5	51	0	20	3	76	0.92
482066--482105	10	3.8	11	81	18	50	7	12	2	77	1.07
491149--491489	131	2.6	131	80	7	377	23	15	33	28	1.95
491496--491925	66	6.6	66	80	4	426	38	14	20	26	1.91
491502--491854	132	2.7	131	87	3	471	39	14	20	25	1.91
491502--491866	198	1.8	197	84	5	504	38	14	20	25	1.91
491998--492108	35	3.1	34	81	7	123	39	13	18	28	1.88
499300--499347	21	2.2	22	82	10	55	43	0	8	47	1.33
502093--502178	15	5.3	15	68	14	55	74	3	17	4	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502924--503039	43	2.7	43	77	7	110	31	18	19	30	1.96
503979--504018	21	1.9	21	85	10	55	70	5	0	25	1.08
506769--506830	24	2.6	24	86	0	88	12	11	22	53	1.71
510539--510595	18	3.2	18	100	0	114	42	5	24	28	1.76
511483--511537	16	3.4	16	89	0	83	10	10	20	58	1.62
511603--511634	16	2.0	16	100	0	64	6	12	25	56	1.59
520904--520934	16	1.9	16	93	0	53	35	3	9	51	1.51
521688--522213	262	2.0	262	98	0	1025	22	13	15	48	1.79
526899--526958	31	1.9	31	86	6	86	40	5	8	46	1.56
527474--527617	12	11.5	13	68	13	79	56	1	0	42	1.08

Tables:   1   2   3   4   5   6   7