genome.fa.s7851.2.7.7.80.10.50.1000.3.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: VEPZ01007851.1 Hibiscus syriacus cultivar Beakdansim tig00110210_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1608033

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 962 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)
479923--480255	109	3.0	112	86	4	458	28	19	14	36	1.91
479564--480216	345	1.9	354	85	6	934	27	18	14	38	1.90
481042--482166	93	12.2	93	92	2	1747	35	20	15	28	1.93
481042--482170	278	4.1	277	92	1	1798	35	20	15	29	1.93
481042--482166	369	3.0	369	97	0	2090	35	20	15	28	1.93
493804--493850	18	2.5	20	76	16	55	65	2	4	27	1.22
495936--496043	3	36.0	3	86	0	153	60	0	1	37	1.08
495936--496043	30	3.6	30	94	0	180	60	0	1	37	1.08
498512--498557	4	11.8	4	95	4	85	23	0	0	76	0.79
498693--498732	19	2.2	19	90	4	64	40	10	2	47	1.50
498821--498850	13	2.3	13	100	0	60	40	6	0	53	1.27
498997--499022	2	13.0	2	100	0	52	50	0	0	50	1.00
499353--499398	23	2.0	23	86	4	65	60	2	0	36	1.09
511918--511942	2	12.5	2	100	0	50	52	0	0	48	1.00
515258--515307	19	2.7	18	81	12	57	12	4	10	74	1.21
515413--515444	15	2.0	17	88	11	50	46	3	18	31	1.65
526572--526891	124	2.6	122	83	2	338	36	17	18	28	1.93
535818--535912	31	3.1	31	63	19	74	35	15	10	37	1.82
536511--536578	33	2.0	33	91	2	109	41	20	10	27	1.85
536511--536595	34	2.5	34	84	9	111	38	20	12	28	1.89
536935--536990	26	2.2	26	81	12	62	30	5	0	64	1.16
536971--537004	14	2.5	13	90	9	59	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540769--541419	110	6.0	110	90	1	987	34	23	17	24	1.96
541494--542091	84	7.2	83	75	5	483	31	24	18	25	1.97
541527--542077	169	3.3	167	81	2	615	32	23	18	25	1.97
542549--542644	33	2.9	33	93	0	165	39	19	12	28	1.88
543857--543914	22	2.6	22	77	17	57	34	1	1	62	1.16
544230--544297	29	2.4	28	76	11	68	39	7	4	48	1.51
545788--545880	25	3.7	25	83	15	104	43	3	0	53	1.16
545791--545901	27	4.2	27	78	15	99	42	3	0	54	1.18
548476--548900	55	7.7	55	85	6	483	30	23	17	27	1.97
548476--548900	110	3.9	110	88	1	586	30	23	17	27	1.97
548476--548900	165	2.6	165	87	5	576	30	23	17	27	1.97
550272--550457	14	13.3	14	70	18	63	6	16	1	75	1.08
550263--550326	33	1.9	33	81	12	78	6	14	1	78	1.02
550296--550443	49	3.2	42	73	17	107	7	16	0	75	1.07
550323--550380	23	2.6	22	74	15	57	5	18	1	74	1.10
555992--556029	17	2.2	17	100	0	76	23	31	21	23	1.98
560105--560208	45	2.3	46	93	3	174	39	21	9	29	1.85
570957--571064	46	2.3	46	85	3	137	24	16	34	25	1.95
570957--571201	46	5.3	46	68	12	128	25	17	33	24	1.96
571010--571327	138	2.3	137	82	2	379	26	16	32	24	1.96
571284--571385	46	2.2	46	87	0	150	25	13	36	24	1.92
574359--574389	15	2.1	15	93	0	53	25	22	25	25	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574688--574759	34	2.1	34	82	2	83	23	27	13	34	1.93
575109--575147	20	2.0	20	85	10	53	20	23	35	20	1.96
575235--575285	20	2.5	20	84	6	68	31	15	25	27	1.96
577194--577252	24	2.4	25	80	8	77	27	27	23	22	1.99
577434--577513	31	2.6	31	84	4	99	35	22	3	38	1.72
583820--583848	3	9.7	3	100	0	58	65	0	0	34	0.93
584065--584149	25	3.5	25	79	9	79	25	20	27	27	1.99
584086--584161	25	3.1	24	81	12	84	23	25	26	25	2.00
584360--584430	30	2.3	31	87	2	99	33	25	2	38	1.71
584776--584883	55	2.0	55	80	10	123	23	17	19	39	1.92
586407--586442	4	9.0	4	93	0	63	72	0	27	0	0.85
596621--596752	59	2.2	59	82	5	158	35	22	16	25	1.95
596687--596736	20	2.5	20	86	0	73	30	28	18	24	1.97
596924--596967	22	2.0	22	90	0	70	20	43	15	20	1.88
597215--597268	20	2.7	20	82	0	63	16	20	24	38	1.92
598573--598615	17	2.5	17	88	0	68	27	41	16	13	1.86
598717--598770	27	2.0	27	100	0	108	22	29	18	29	1.97
599116--599182	20	3.4	20	81	2	73	38	23	22	14	1.92
599171--599229	14	3.9	14	76	20	64	49	23	16	10	1.77
599155--599246	33	2.8	33	91	6	159	47	21	18	11	1.80
599258--599334	33	2.5	30	89	6	109	11	16	23	48	1.79
601321--601359	20	2.0	20	94	0	69	46	30	10	12	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
601365--601429	19	3.7	19	82	15	86	46	16	21	15	1.84
601455--601524	20	3.5	20	98	1	133	15	24	27	32	1.95
602911--602970	24	2.5	23	78	7	66	26	15	18	40	1.90
603145--603169	12	2.1	12	100	0	50	72	0	28	0	0.86
605440--605603	19	9.7	19	64	24	98	43	18	23	15	1.87
605458--605512	14	3.6	14	73	21	56	45	20	23	10	1.82
605440--605599	33	4.8	33	89	3	250	43	18	23	15	1.88
605764--605798	14	2.5	14	90	0	61	45	22	0	31	1.53
607144--607349	42	4.9	41	72	9	155	23	17	36	21	1.95
607144--607294	21	7.2	21	62	10	58	22	18	36	22	1.95
607174--607349	84	2.1	84	97	0	334	24	17	37	21	1.94
607568--607749	92	2.0	89	91	3	292	46	19	10	23	1.81
608538--608580	21	2.0	22	82	13	54	48	0	6	44	1.29
609416--609475	21	3.0	19	78	7	66	48	16	21	13	1.80
609511--609575	19	3.7	19	70	19	68	43	21	24	10	1.84
609439--609568	33	3.8	33	91	4	179	41	22	25	10	1.86
610187--610240	20	2.7	20	97	0	99	25	18	24	31	1.97
610312--610352	21	2.0	21	85	0	55	34	31	17	17	1.93
610842--610882	22	1.9	21	90	5	64	70	4	0	24	1.06
611333--611367	16	2.2	16	100	0	70	17	5	17	60	1.55
612117--612354	124	1.9	124	84	1	316	35	11	10	42	1.77
612641--613105	199	2.3	198	83	3	567	40	14	15	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
613100--613310	88	2.4	87	87	2	316	33	14	10	42	1.79
613272--613333	23	2.7	23	89	0	88	38	16	8	37	1.78
613272--613345	23	3.2	23	86	0	76	40	13	6	39	1.71
616776--616813	15	2.5	15	80	16	51	68	2	23	5	1.23
621939--622034	31	3.1	31	90	3	122	20	20	25	33	1.97
622020--622091	29	2.4	30	86	2	92	18	20	29	31	1.96
626108--626234	31	4.1	31	92	4	195	20	20	25	33	1.97
626131--626272	62	2.3	62	85	4	173	19	20	27	32	1.97
626220--626291	29	2.4	30	88	2	101	19	20	27	31	1.97
628062--628086	13	1.9	13	100	0	50	24	28	24	24	2.00
637839--637929	47	1.9	47	93	0	155	37	24	9	28	1.87
653524--654088	105	5.4	105	96	0	1022	33	24	17	23	1.96
656874--656930	26	2.1	26	87	9	78	47	3	22	26	1.67
657989--658049	26	2.3	27	78	13	65	29	0	1	68	0.99
659603--659637	18	1.9	18	100	0	70	25	34	22	17	1.96
661133--661208	21	3.4	24	77	14	72	47	5	6	40	1.52
661123--661181	21	2.7	21	76	5	64	47	5	8	38	1.56
661120--661208	24	4.1	21	71	13	65	46	5	7	40	1.57
661234--661276	22	2.0	22	86	4	61	41	6	9	41	1.64
661582--661631	21	2.3	21	82	3	55	24	36	6	34	1.80
662292--662425	24	5.5	24	73	15	105	47	8	2	41	1.47
662278--662444	13	13.5	12	70	20	80	45	10	2	41	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
662354--662498	59	2.4	61	82	9	172	49	9	0	40	1.41
662292--662462	24	6.9	24	71	20	86	46	10	1	41	1.49
662265--662462	99	2.0	101	87	5	285	45	12	2	39	1.53
662429--662460	16	2.0	16	100	0	64	43	18	0	37	1.51
663016--663048	17	1.9	17	93	0	57	27	18	30	24	1.98
663873--663907	18	1.9	18	88	0	52	8	25	34	31	1.86
665492--665592	50	2.0	50	100	0	202	20	21	13	43	1.87
669943--669980	20	1.9	20	84	10	51	55	5	5	34	1.45
682837--682919	41	2.0	42	88	6	125	25	31	13	30	1.93
687649--687763	57	2.0	57	100	0	230	26	19	6	47	1.74

Tables:   1   2   3   4   5   6   7   8   9