genome.fa.s9448.2.7.7.80.10.50.1000.2.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: VEPZ01009448.1 Hibiscus syriacus cultivar Beakdansim tig00113548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  757038

Tables:   1   2   3   

This is table  2  of  3  ( 318 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)
239418--239485	28	2.4	28	80	11	68	25	2	2	69	1.17
239438--239499	12	5.0	13	75	11	58	27	1	0	70	0.96
239438--239499	24	2.5	25	81	2	72	27	1	0	70	0.96
239673--239714	16	2.6	16	88	3	57	50	0	0	50	1.00
240720--240848	48	2.7	48	88	0	195	27	25	25	20	1.99
241710--241749	14	3.1	13	82	10	55	57	2	0	40	1.12
245895--245966	24	3.0	24	77	4	74	19	18	18	44	1.87
245907--245999	12	7.8	12	72	9	73	18	16	18	47	1.83
245910--246001	48	1.9	48	86	4	132	18	16	17	47	1.82
245907--246001	24	4.0	24	81	2	111	18	15	17	47	1.83
255982--256079	45	2.1	46	86	3	135	35	17	12	34	1.87
258656--258708	27	2.1	27	86	10	76	37	3	0	58	1.16
259145--259190	10	4.3	10	82	15	56	2	10	19	67	1.31
259153--259202	23	2.2	23	82	7	57	2	10	26	62	1.38
281191--281225	17	2.0	17	88	5	52	48	0	2	48	1.16
281471--281640	74	2.3	74	89	2	250	38	16	8	36	1.79
282976--283010	2	18.0	2	94	5	63	48	0	0	51	1.00
283750--283857	53	2.0	53	96	0	198	33	8	14	43	1.76
291610--291657	2	25.5	2	87	12	75	47	0	0	52	1.00
297069--297187	64	1.9	63	84	3	159	34	19	18	27	1.95
297093--297229	64	2.1	64	84	5	170	35	20	16	28	1.94
298068--298162	2	47.5	2	100	0	190	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
301014--301058	23	2.0	23	86	0	63	20	26	26	26	1.99
305856--305898	21	2.0	21	86	0	59	30	27	25	16	1.97
306592--306636	23	2.0	23	86	0	63	20	26	26	26	1.99
307402--307442	6	6.8	6	91	0	64	36	2	48	12	1.54
307402--307446	18	2.5	18	88	0	72	40	2	46	11	1.52
308553--308593	13	3.2	13	93	3	66	29	7	14	48	1.71
311851--311921	18	3.8	18	80	7	79	19	21	28	30	1.97
319053--319077	2	12.5	2	100	0	50	48	0	0	52	1.00
327152--327201	10	4.6	10	79	18	55	64	2	0	34	1.05
327149--327186	19	2.0	19	89	0	58	57	0	0	42	0.98
335897--335958	31	2.0	31	100	0	124	41	9	9	38	1.71
349951--349983	14	2.4	14	94	0	57	21	39	33	6	1.78
350019--350058	21	1.9	21	94	0	71	27	7	57	7	1.53
357771--357804	12	2.8	12	86	0	50	26	38	8	26	1.85
372608--372640	16	2.0	17	88	5	50	24	0	12	63	1.28
379359--379417	20	2.9	21	74	5	66	18	18	27	35	1.94
379364--379468	54	1.9	54	88	7	160	18	18	25	38	1.93
379418--379486	21	3.3	21	69	18	63	15	18	27	37	1.92
379418--379509	41	2.3	40	90	1	148	14	20	25	40	1.90
379476--379541	32	2.1	32	88	2	98	12	21	24	42	1.86
379663--379695	15	2.2	15	94	0	57	6	15	39	39	1.72
379722--379787	32	2.1	32	88	2	98	12	21	24	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
380939--381036	21	4.7	21	73	12	85	35	26	16	21	1.94
380899--381040	62	2.3	62	96	0	257	36	25	18	19	1.94
381182--381250	31	2.2	33	84	5	88	60	1	1	36	1.14
386609--386711	29	3.4	30	76	11	102	44	8	4	41	1.56
404583--404866	21	13.4	21	79	12	278	38	19	19	22	1.94
404576--404906	63	5.2	61	78	11	253	37	20	19	22	1.95
404613--404897	105	2.7	105	96	1	516	37	20	19	22	1.94
404858--404912	21	2.6	21	88	0	83	32	29	20	18	1.96
404583--404912	42	7.8	42	81	8	204	37	20	19	22	1.94
405584--405628	17	2.6	17	82	0	54	40	2	0	57	1.11
411384--411444	23	2.7	22	75	14	61	59	6	0	34	1.24
411384--411457	22	3.3	22	71	14	60	56	6	0	36	1.26
413739--413769	2	15.5	2	100	0	62	48	0	51	0	1.00
416376--416435	25	2.3	26	88	2	86	41	21	13	23	1.88
422333--422741	201	2.0	201	98	0	782	35	13	14	35	1.86
422851--422897	20	2.3	21	75	17	55	38	8	8	44	1.65
423854--423879	7	3.7	7	100	0	52	11	0	0	88	0.52
428183--428245	10	6.4	10	83	10	58	14	1	7	76	1.08
428191--428247	11	5.5	11	74	14	59	12	1	7	78	1.01
428183--428247	21	3.2	21	80	12	73	13	1	7	76	1.06
428202--428245	19	2.3	19	92	0	70	13	2	6	77	1.07
428623--428682	32	2.0	29	83	9	75	33	1	5	60	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
428770--428808	16	2.4	17	86	4	53	41	7	25	25	1.82
431745--431822	30	2.5	31	80	10	97	33	11	3	51	1.56
431752--431822	31	2.3	29	79	13	81	30	11	4	53	1.55
433128--433180	27	2.0	27	84	0	70	50	1	0	47	1.12
433178--433232	24	2.3	24	90	0	83	25	47	14	12	1.80
433178--433232	12	4.6	12	81	0	65	25	47	14	12	1.80
435480--435553	37	2.0	36	89	2	112	48	0	2	48	1.15
439398--439523	60	2.1	60	83	2	155	39	9	9	41	1.70
442246--442334	36	2.5	36	85	5	119	30	23	16	29	1.97
442323--442368	21	2.2	21	88	0	65	21	26	15	36	1.93
442555--442599	22	2.0	22	91	0	72	51	28	2	17	1.58
442512--442642	65	2.0	65	86	8	187	51	23	2	22	1.60
455890--456006	60	2.0	60	82	3	146	43	13	6	35	1.71
464850--465048	66	3.0	65	86	8	251	39	7	13	39	1.72
464906--465015	37	3.2	37	63	24	103	36	9	14	40	1.78
464898--465048	66	2.3	63	94	3	257	37	7	13	41	1.72
464985--465261	79	3.5	78	87	8	314	40	9	15	35	1.79
465120--465246	26	4.8	26	73	10	105	37	11	14	35	1.83
465056--465286	79	2.9	79	92	1	372	40	8	13	36	1.76
465799--465869	30	2.4	30	100	0	142	23	11	29	35	1.90
466815--467067	137	1.8	137	85	10	354	57	5	8	28	1.51
466814--467147	138	2.4	137	79	13	360	58	5	7	28	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
468553--469499	106	9.0	105	93	2	1546	22	17	25	34	1.96
468553--469499	211	4.5	210	93	2	1548	22	17	25	34	1.96
470060--470159	52	1.9	52	82	8	123	14	24	14	48	1.80
471281--471398	59	2.0	58	95	4	211	16	23	22	36	1.94
480402--480487	27	3.2	26	73	6	82	60	1	12	25	1.40
480962--480986	2	12.5	2	100	0	50	52	0	0	48	1.00
487729--487778	24	2.0	26	88	7	77	20	8	16	56	1.65
492817--492992	39	4.5	39	91	1	255	22	30	23	23	1.99
500944--501045	50	2.0	50	96	0	186	26	1	15	55	1.51
501613--501676	30	2.1	30	97	0	119	20	40	18	20	1.91
507000--507045	21	2.2	21	100	0	92	52	17	8	21	1.71
516776--516816	18	2.3	18	91	4	66	63	2	4	29	1.28
517010--517134	50	2.5	50	81	5	128	22	28	33	16	1.95
527578--527633	2	28.5	2	96	3	105	51	0	0	48	1.00
528465--528503	2	19.5	2	100	0	78	51	0	0	48	1.00
529829--529868	20	2.0	20	85	0	53	45	0	2	52	1.14
531805--531847	19	2.5	17	79	17	52	34	13	18	32	1.90
531813--531850	19	2.0	19	94	0	67	34	10	23	31	1.89
531815--531857	19	2.3	19	87	0	59	39	9	18	32	1.83
533904--533937	16	2.1	16	88	0	50	47	2	2	47	1.32
533979--534012	16	2.0	18	88	11	54	26	2	5	64	1.30
534470--534717	130	1.9	130	92	0	415	35	13	15	35	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535115--535190	35	2.2	35	92	0	125	35	1	23	39	1.63
535567--535613	3	15.7	3	79	16	53	36	0	0	63	0.94
535567--535625	10	5.8	10	84	15	77	38	0	0	61	0.96
535743--535840	25	4.0	25	94	4	164	35	20	15	28	1.93
550342--550650	130	2.3	130	85	4	415	26	29	19	24	1.99
550840--550901	12	5.8	10	75	24	56	37	0	0	62	0.95
550840--550889	15	3.1	16	86	13	68	34	0	0	66	0.92
550840--550889	3	16.7	3	80	15	59	34	0	0	66	0.92
551019--551116	25	4.0	25	94	4	164	35	20	15	28	1.93
553765--553841	31	2.5	31	80	0	91	48	14	14	23	1.80

Tables:   1   2   3