genome.fa.s1.2.7.7.80.10.50.1000.3.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: VEPZ01000001.1 Hibiscus syriacus cultivar Beakdansim tig00000002_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2159989

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 891 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)
476901--476971	27	2.6	27	88	4	90	35	18	30	15	1.92
478654--478694	18	2.3	18	91	4	66	63	2	4	29	1.28
478737--478776	10	4.0	10	90	0	62	40	0	27	32	1.57
479055--479159	38	2.8	37	82	2	120	41	13	12	32	1.81
479522--479574	25	2.1	26	85	3	72	26	1	3	67	1.17
479632--479734	22	4.8	21	74	18	79	33	3	0	61	1.21
479632--479722	19	4.6	19	71	17	69	32	4	1	61	1.23
480014--480092	12	6.4	13	70	14	51	17	10	0	72	1.12
489703--489756	27	2.0	27	82	10	65	53	16	1	27	1.53
496171--496223	22	2.5	22	84	3	72	41	0	0	58	0.98
496429--496460	9	3.6	9	91	0	55	53	31	0	15	1.43
498527--498594	12	5.5	13	77	10	79	42	4	0	52	1.21
498515--498604	24	3.8	24	89	4	128	40	4	0	55	1.20
499938--500385	226	2.0	221	97	2	851	35	20	10	33	1.87
512783--512836	28	1.9	28	85	14	76	46	0	12	40	1.42
512790--512867	34	2.3	33	87	10	113	48	1	10	39	1.45
529069--529138	28	2.5	28	83	0	86	32	22	17	27	1.96
535179--535225	21	2.2	20	82	14	51	46	2	6	44	1.40
538031--538057	8	3.4	8	100	0	54	48	11	0	40	1.39
538403--538431	2	14.5	2	100	0	58	48	0	0	51	1.00
540204--540652	229	2.0	227	92	2	758	45	7	7	39	1.60
540718--540763	20	2.3	19	89	10	74	54	10	17	17	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540882--540928	20	2.4	19	79	10	58	55	8	17	19	1.67
543204--543264	32	1.9	32	86	0	86	29	1	44	24	1.63
545051--545094	19	2.4	19	92	3	72	31	2	9	56	1.43
545175--546789	199	8.1	199	97	0	2992	37	15	15	31	1.89
547506--547573	21	3.4	18	69	21	55	36	8	35	19	1.83
547506--547603	6	16.3	6	80	0	70	36	7	34	21	1.81
547521--547607	3	29.0	3	77	0	84	35	5	34	24	1.79
547509--547599	42	2.2	42	91	0	146	35	7	35	21	1.83
547506--547603	18	5.4	18	78	0	88	36	7	34	21	1.81
549077--549727	181	3.6	183	94	3	1158	35	14	15	34	1.89
551097--551141	23	2.0	23	86	8	65	33	2	22	42	1.66
551144--551182	20	2.0	20	89	0	60	25	15	10	48	1.76
551490--551552	23	2.7	23	82	0	72	39	6	17	36	1.75
557533--557623	42	2.2	42	93	0	155	49	21	6	21	1.72
560892--560959	20	3.2	21	79	8	66	39	19	4	36	1.71
560151--561151	408	2.5	406	90	6	1593	38	11	7	41	1.71
561362--561441	39	2.1	39	92	0	133	17	15	18	48	1.81
561701--561735	18	1.9	18	88	0	52	51	11	5	31	1.61
561698--561754	24	2.4	25	79	8	73	49	14	5	31	1.65
561764--562114	176	2.0	172	95	4	625	35	10	19	35	1.86
562339--562406	23	3.0	23	78	8	84	39	20	5	33	1.77
562746--562811	25	2.6	25	80	0	87	42	13	9	34	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564368--564860	183	2.7	183	92	0	817	33	16	14	34	1.90
566062--566104	3	15.0	3	83	9	54	25	34	2	37	1.69
566086--566136	12	4.1	12	82	5	57	17	35	11	35	1.87
566086--566136	24	2.0	24	88	7	75	17	35	11	35	1.87
567565--569496	199	9.7	200	95	1	3450	31	17	14	36	1.90
569634--569682	19	2.6	19	93	0	80	57	10	2	30	1.43
571460--571524	32	2.0	33	90	3	105	23	49	0	27	1.50
571558--571601	21	2.1	21	91	0	70	15	31	11	40	1.83
573796--573838	20	2.3	18	85	14	61	20	16	11	51	1.75
573801--573847	20	2.4	19	82	10	67	19	17	10	53	1.72
574074--574788	228	3.1	228	95	2	1305	39	7	7	45	1.62
578000--578044	21	2.1	22	87	4	65	46	6	8	37	1.61
588466--588519	28	1.9	28	96	0	99	24	29	14	31	1.95
595284--595607	161	2.0	164	98	1	627	28	14	23	33	1.94
598143--598674	267	2.0	271	97	1	1018	26	12	14	46	1.80
598765--598876	20	5.5	20	88	4	161	34	4	0	59	1.23
598765--598876	41	2.8	40	87	4	161	34	4	0	59	1.23
598817--598875	10	5.9	10	77	15	68	35	3	0	61	1.13
599016--599074	21	2.9	21	89	2	93	35	3	5	55	1.38
598822--599207	198	2.0	197	94	1	675	24	13	14	47	1.80
599212--599270	21	2.8	21	86	0	91	33	6	3	55	1.43
600982--601023	19	2.1	21	91	8	70	33	4	4	57	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
606661--606836	91	2.0	87	90	6	273	26	21	12	39	1.89
607042--607119	27	2.9	27	94	1	140	25	10	12	51	1.71
608472--608529	28	2.1	28	93	0	98	18	12	18	50	1.78
609675--609865	94	2.0	92	91	6	303	23	13	19	43	1.86
611953--612011	6	10.5	6	98	1	90	0	16	54	28	1.43
612114--612441	20	15.8	20	83	13	341	17	18	27	36	1.93
612107--612500	42	9.6	41	83	9	391	16	18	26	38	1.92
612116--612501	104	3.7	103	87	6	514	16	18	26	38	1.92
612107--612501	20	19.2	20	79	9	332	16	18	26	38	1.92
634656--634781	63	2.0	63	96	3	236	30	14	15	39	1.87
636317--636622	161	1.9	157	93	5	526	22	12	16	47	1.81
637641--637839	54	3.7	53	76	6	159	40	19	14	25	1.89
639473--639501	2	15.0	2	92	7	51	48	0	0	51	1.00
642539--642604	27	2.4	27	100	0	132	30	21	21	27	1.98
642586--642622	18	2.1	18	100	0	74	32	21	18	27	1.97
643359--643385	2	13.5	2	100	0	54	51	0	48	0	1.00
643716--643760	20	2.2	21	92	4	74	35	4	2	57	1.31
643929--643986	20	2.9	20	86	0	80	36	5	5	53	1.46
644123--644172	21	2.4	21	89	0	73	34	6	4	56	1.43
644114--644181	11	6.4	11	74	6	68	29	7	2	60	1.39
644181--644219	21	1.9	20	89	5	60	46	0	5	48	1.24
645882--645932	21	2.5	21	93	3	86	33	3	3	58	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
656421--656812	196	2.0	196	100	0	784	37	19	15	26	1.92
661321--661503	92	2.0	91	94	1	321	26	20	12	39	1.88
661719--661797	27	2.9	27	100	0	158	26	10	11	51	1.69
663355--663410	28	2.1	27	90	6	87	19	12	19	48	1.80
668211--668247	18	2.1	18	100	0	74	43	16	16	24	1.87
673877--673916	21	1.9	21	94	0	71	12	25	37	25	1.91
688122--688369	107	2.3	108	79	10	242	41	18	12	27	1.87
688340--688507	56	3.1	53	73	10	142	41	19	11	27	1.86
698275--698538	56	4.8	54	73	8	221	41	19	14	24	1.89
698258--698603	110	3.2	110	83	6	425	42	18	13	25	1.87
698384--698585	57	3.6	56	73	8	180	39	19	14	26	1.90
698642--698819	54	3.2	53	69	19	121	41	17	12	28	1.86
702561--702621	27	2.3	27	80	5	70	55	8	3	32	1.45
702575--702632	27	2.2	26	84	9	73	60	6	1	31	1.33
702841--702888	25	2.0	24	84	12	62	54	4	2	39	1.32
702978--703006	13	2.2	13	100	0	58	20	6	6	65	1.40
703381--703488	26	3.7	27	83	16	128	31	21	19	27	1.97
703427--703481	18	3.1	18	100	0	110	32	21	18	27	1.96
704577--704669	21	4.5	21	89	1	134	34	4	1	60	1.24
704809--704867	21	2.9	21	89	2	93	35	3	5	55	1.38
704618--705000	198	1.9	198	91	3	628	24	13	14	47	1.80
705700--705792	21	4.5	21	86	1	125	35	3	1	60	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
705931--706010	21	3.9	21	91	1	126	36	3	5	55	1.40
705724--706226	218	2.3	215	87	4	715	28	10	11	48	1.73
706150--706289	21	6.7	21	86	1	192	36	5	1	57	1.30
706147--706289	62	2.3	63	86	1	198	37	4	1	55	1.30
707997--708052	21	2.8	19	80	17	60	33	3	7	55	1.45
708003--708052	21	2.4	21	93	3	84	34	4	4	58	1.36
724384--725215	427	1.9	422	85	7	1128	28	17	19	34	1.95
726334--726374	15	2.9	15	78	10	50	53	39	0	7	1.29
744021--744238	107	2.1	105	98	1	418	39	11	11	38	1.76
745012--745108	39	2.4	39	87	3	140	42	12	12	32	1.80

Tables:   1   2   3   4   5   6   7   8