genome.fa.s1709.2.7.7.80.10.50.1000.3.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: VEPZ01001709.1 Hibiscus syriacus cultivar Beakdansim tig00003435_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1326839

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 866 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)
325170--325336	31	5.4	30	81	9	176	29	31	25	13	1.93
325170--325336	62	2.7	62	86	7	207	29	31	25	13	1.93
327762--327812	14	3.6	14	81	5	59	23	21	27	27	1.99
328070--328189	31	3.9	31	86	0	168	29	33	26	10	1.90
328070--328189	62	1.9	62	91	0	195	29	33	26	10	1.90
331383--331520	31	4.5	30	77	11	118	29	31	25	13	1.94
331384--331520	62	2.2	62	82	0	157	29	31	24	13	1.94
332326--332387	23	2.7	23	89	0	88	29	20	24	25	1.99
332381--332434	14	3.9	14	80	7	65	22	20	27	29	1.98
334190--334296	31	3.5	31	80	10	119	30	29	25	14	1.94
334502--334549	14	3.4	14	91	5	71	29	20	22	27	1.99
337234--337276	20	2.1	20	83	12	52	39	0	23	37	1.55
338290--338482	56	3.4	56	78	7	185	23	19	22	34	1.97
338574--338617	3	14.0	3	81	9	52	38	0	0	61	0.96
339838--339885	20	2.4	20	79	6	53	27	4	4	64	1.30
339987--340240	110	2.3	110	93	1	429	42	7	10	39	1.68
340786--340861	30	2.5	30	95	0	134	51	7	18	22	1.72
341881--341954	23	3.3	23	90	3	107	32	25	14	27	1.95
344234--344378	60	2.4	60	80	4	150	33	21	4	40	1.74
344509--344696	60	3.1	60	82	8	222	43	4	20	31	1.71
349566--349622	19	3.1	19	76	2	62	68	0	7	24	1.14
349562--349622	27	2.4	24	82	15	77	68	0	6	24	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
358725--358782	24	2.5	24	76	23	70	77	0	8	13	0.98
363621--363807	63	3.0	63	89	2	279	31	17	18	32	1.94
363623--363810	31	6.0	31	74	9	166	30	17	18	32	1.94
363797--363868	30	2.4	30	90	0	108	22	20	26	30	1.98
368514--368667	63	2.4	63	88	2	229	35	16	14	33	1.89
368514--368667	31	4.9	31	74	12	136	35	16	14	33	1.89
368664--368730	30	2.2	30	94	0	116	22	16	26	34	1.95
370406--370459	14	3.9	14	85	0	81	37	20	24	18	1.94
372886--373089	96	2.1	96	84	3	259	43	17	11	27	1.83
375329--375397	28	2.5	28	97	0	129	27	21	28	21	1.99
375329--375412	14	6.0	14	81	4	98	28	21	27	22	1.99
377826--377859	16	2.1	16	88	0	50	70	0	8	20	1.13
379142--379176	16	2.2	16	94	0	61	45	0	0	54	0.99
379658--379714	23	2.5	23	80	8	62	26	3	10	59	1.46
380035--380098	26	2.5	26	86	0	101	26	42	21	9	1.83
381270--381343	36	2.1	36	100	0	148	29	27	18	24	1.98
387836--387869	17	1.9	17	88	5	50	41	17	0	41	1.50
388265--388308	18	2.5	17	85	10	54	22	2	0	75	0.92
396238--396275	8	4.8	8	81	12	51	76	0	10	13	1.02
400427--400525	30	3.4	28	77	6	90	67	5	7	20	1.34
400474--400521	5	9.6	5	88	0	69	75	0	4	20	0.97
400476--400522	25	1.9	24	95	4	85	72	0	4	23	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
400474--400534	15	4.1	15	76	6	61	70	0	6	22	1.10
400604--400665	21	2.9	19	82	17	70	69	0	1	29	0.98
400620--400665	14	3.5	13	82	8	58	69	0	0	30	0.89
400624--400698	12	6.6	12	73	13	61	64	0	2	33	1.08
400620--400671	13	3.9	14	78	12	56	67	0	0	32	0.91
401433--401534	34	2.8	37	85	8	147	27	14	16	41	1.88
401983--402355	83	4.5	83	80	5	335	24	20	22	32	1.97
402534--403062	105	5.0	106	91	0	819	22	18	23	35	1.96
404488--404523	18	2.0	18	88	0	54	41	30	8	19	1.81
404708--404768	24	2.5	24	94	0	104	40	1	19	37	1.62
405581--405629	19	2.5	20	81	15	59	2	10	6	81	0.94
405595--405639	12	3.8	12	80	13	58	0	8	6	84	0.78
410145--410199	5	11.2	5	77	9	51	72	0	7	20	1.07
410272--410341	29	2.3	29	78	11	79	70	0	2	27	1.02
410272--410324	22	2.4	23	75	12	58	71	0	3	24	1.02
410284--410344	26	2.4	24	81	10	68	72	0	1	26	0.94
410276--410354	24	3.3	24	77	10	72	64	0	5	30	1.15
410637--410663	2	13.5	2	100	0	54	51	0	0	48	1.00
411867--411938	29	2.5	29	81	2	83	54	2	2	40	1.29
411902--411952	23	2.3	23	89	3	77	50	0	3	45	1.20
412756--412788	2	16.5	2	93	0	57	48	0	3	48	1.17
412756--412796	10	3.9	11	81	18	52	48	0	4	46	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415783--415971	74	2.6	74	85	0	236	31	16	9	42	1.81
420374--420448	2	37.5	2	100	0	150	49	0	0	50	1.00
422826--422923	31	3.2	31	85	0	124	34	6	27	31	1.81
425196--425229	2	17.0	2	93	0	59	47	0	2	50	1.16
434815--434854	14	2.9	14	92	0	62	20	27	20	32	1.97
435430--435488	27	2.3	25	82	8	73	50	16	11	20	1.76
436182--436335	72	2.1	72	97	0	290	33	15	11	38	1.84
438183--438283	49	2.1	49	92	0	166	50	5	8	34	1.58
441342--441409	29	2.3	29	87	0	91	42	23	7	26	1.80
441386--441468	29	2.8	29	92	1	139	45	24	9	20	1.80
441365--441468	29	3.6	29	86	2	136	44	25	8	22	1.81
441476--441514	18	2.2	18	86	4	53	15	25	41	17	1.89
448729--448827	29	3.4	29	80	0	90	48	20	6	25	1.72
448752--448854	29	3.6	29	83	0	125	46	22	7	23	1.77
453813--453854	17	2.5	17	92	0	66	23	42	14	19	1.87
458894--458933	3	13.3	3	100	0	80	67	0	0	32	0.91
466743--467161	20	20.9	20	70	7	143	19	20	23	36	1.95
466790--467161	20	18.6	20	71	11	228	16	20	23	38	1.93
466769--467120	61	5.9	61	77	12	370	17	20	23	37	1.94
466810--467164	41	8.9	41	79	9	281	17	20	24	37	1.93
466955--467026	22	3.4	22	67	11	69	20	19	22	37	1.94
466932--467228	157	1.9	156	89	4	463	18	20	22	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
467020--467228	82	2.7	74	80	15	244	18	20	22	37	1.94
467400--467454	6	9.2	6	100	0	110	34	49	16	0	1.46
467451--467482	5	6.6	5	96	3	57	37	21	40	0	1.54
468015--468076	21	3.0	21	90	0	106	32	27	12	27	1.93
469827--469894	3	22.0	3	82	5	82	33	0	2	63	1.10
469821--469867	9	5.2	9	89	0	67	23	0	8	68	1.17
471638--471824	76	2.5	76	81	2	225	32	11	17	39	1.85
471828--472008	76	2.4	76	81	0	200	28	11	19	40	1.86
473369--473512	78	1.8	79	82	8	188	44	6	8	40	1.60
474382--474441	2	29.5	2	96	3	111	48	0	1	50	1.11
482418--482474	3	19.3	3	85	10	82	63	1	1	33	1.15
482637--483484	134	6.3	134	78	5	741	31	14	21	32	1.94
482693--483488	266	3.0	267	80	4	811	31	15	21	32	1.94
492057--492085	2	14.5	2	100	0	58	51	0	0	48	1.00
494852--498320	867	4.0	869	88	2	4899	34	16	19	29	1.93
501249--501344	42	2.3	42	83	1	122	27	20	22	29	1.99
501241--501944	237	3.0	235	88	2	971	32	15	17	34	1.91
502141--502175	6	5.8	6	86	0	52	82	0	14	2	0.77
502143--502183	12	3.2	13	83	13	50	75	0	19	4	0.98
503249--503275	2	13.5	2	100	0	54	48	0	0	51	1.00
507688--507741	19	2.8	20	91	2	83	24	31	20	24	1.98
508410--508449	21	1.9	21	89	0	62	30	10	10	50	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
508672--508719	20	2.4	20	89	0	69	25	33	18	22	1.97
508672--508763	19	4.7	20	85	4	107	22	30	20	26	1.98
521022--521231	58	3.6	57	79	5	172	35	6	13	44	1.69
521022--521231	29	7.2	29	78	6	156	35	6	13	44	1.69
521074--521234	57	2.8	57	80	5	153	36	6	12	45	1.67
521908--521946	21	1.9	20	84	5	51	28	15	17	38	1.91
526669--528400	873	2.0	874	87	2	2525	34	16	18	29	1.94
530762--530873	42	2.7	42	78	8	120	25	18	21	33	1.96
530483--530994	239	2.1	240	84	1	643	33	15	16	34	1.90
530855--531213	174	2.0	176	84	5	478	36	15	14	33	1.87

Tables:   1   2   3   4   5   6   7   8