genome.fa.s8194.2.7.7.80.10.50.1000.3.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: VEPZ01008194.1 Hibiscus syriacus cultivar Beakdansim tig00110813_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2426039

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  3  of  13  ( 1464 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)
392444--392508	10	6.8	9	74	11	58	23	0	0	76	0.78
392447--392560	9	13.0	9	69	17	53	29	0	0	70	0.88
392467--392559	17	5.5	17	74	18	95	30	0	0	69	0.88
392444--392560	25	4.5	25	75	18	96	29	0	0	70	0.88
395924--396005	32	2.6	32	94	1	148	53	15	18	12	1.72
404824--404848	11	2.3	11	100	0	50	40	8	8	44	1.63
404738--405180	37	12.3	37	80	12	410	45	3	6	44	1.45
405090--405136	24	2.0	24	86	0	67	44	4	6	44	1.49
406473--406516	2	24.5	2	78	21	53	45	0	0	54	0.99
409960--410148	95	2.0	95	85	4	256	31	17	17	33	1.94
411306--411881	84	6.9	83	80	4	568	31	23	19	24	1.98
411306--411880	169	3.4	168	82	4	644	31	24	20	24	1.98
411348--411879	165	3.2	164	83	3	616	30	24	19	25	1.98
411306--411880	249	2.3	250	85	2	751	31	24	20	24	1.98
412482--412538	2	28.5	2	85	0	78	42	0	1	56	1.10
412543--412994	37	13.0	35	77	14	318	45	3	6	44	1.47
412608--412698	27	3.1	27	76	15	92	40	2	5	51	1.37
412608--412947	75	5.0	63	79	14	206	45	3	6	45	1.44
412658--412987	37	9.2	37	83	10	377	45	3	6	44	1.44
412680--413001	75	4.6	70	82	12	367	46	3	5	44	1.43
412862--412929	33	2.2	29	82	15	82	45	5	4	44	1.48
412914--412960	24	2.0	24	86	0	67	44	4	6	44	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
413011--413068	5	10.8	5	76	12	53	22	1	3	72	1.09
413256--413285	16	1.9	15	93	6	51	20	40	26	13	1.89
414222--414263	2	22.5	2	86	13	63	45	0	0	54	0.99
420062--420108	20	2.4	19	89	10	76	55	8	19	17	1.67
419850--420322	181	2.6	182	88	1	673	42	13	16	27	1.85
420243--420289	20	2.4	19	82	10	67	53	10	17	19	1.72
420252--420294	20	2.3	19	88	11	63	51	11	16	20	1.75
422516--422568	21	2.5	21	90	0	79	45	9	32	13	1.75
422516--422580	21	3.1	21	88	0	76	43	10	30	15	1.81
422865--422918	15	3.2	17	70	21	51	53	0	42	3	1.18
424481--424522	19	2.2	19	95	0	75	33	0	14	52	1.42
424481--424534	19	2.9	19	86	8	58	35	0	14	50	1.44
424641--425373	200	3.7	200	96	0	1371	37	14	17	30	1.90
426872--426970	6	16.7	6	81	2	74	38	7	32	22	1.81
426888--426971	3	28.0	3	77	0	87	36	5	33	23	1.79
426884--426967	12	7.2	12	84	8	102	36	7	33	22	1.82
428167--429080	182	5.1	181	90	5	1374	36	14	16	32	1.89
429654--430411	381	2.0	376	96	2	1401	29	19	18	32	1.96
431903--431966	25	2.6	25	95	2	112	40	10	12	35	1.78
432242--432286	22	2.0	22	82	0	54	40	8	11	40	1.72
432304--432356	23	2.3	23	93	0	88	35	5	20	37	1.77
432311--432371	23	2.9	22	81	16	76	32	6	22	37	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432786--432858	23	3.2	23	86	0	92	36	5	17	39	1.73
431966--433259	488	2.7	482	96	2	2365	40	7	10	40	1.69
433884--433914	16	1.9	16	100	0	62	32	16	6	45	1.72
446147--446541	59	6.7	59	92	2	632	30	21	14	32	1.94
446147--446540	176	2.2	177	91	2	648	30	21	14	32	1.94
446862--447083	95	2.3	95	81	5	245	32	24	13	29	1.93
448536--448590	22	2.5	23	80	11	62	29	20	23	27	1.99
449379--449422	22	2.0	21	86	4	61	25	22	25	27	2.00
453054--453101	24	1.9	26	87	8	73	31	4	2	62	1.26
462387--462434	3	16.0	3	91	8	80	33	0	0	66	0.92
463988--464045	30	1.9	30	86	6	82	13	17	15	53	1.73
464868--464909	17	2.6	16	81	7	57	28	4	9	57	1.51
465948--466022	30	2.5	30	93	0	132	16	14	13	56	1.69
465948--466040	30	3.1	30	87	7	109	15	15	13	55	1.69
468830--468862	2	16.5	2	93	0	57	51	3	0	45	1.16
469711--469796	37	2.3	38	86	6	122	27	10	34	26	1.89
469917--469954	4	9.5	4	94	0	67	50	23	0	26	1.50
470007--470479	4	118.0	4	84	1	480	44	45	6	4	1.48
470007--470479	14	33.7	14	81	1	480	44	45	6	4	1.48
470007--470586	12	48.4	12	83	3	362	41	45	9	3	1.53
470481--470554	4	20.0	4	78	15	79	18	50	31	0	1.48
470484--470546	10	6.3	10	87	12	94	19	50	30	0	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470552--470587	2	18.0	2	100	0	72	50	50	0	0	1.00
471030--471102	36	2.0	37	86	2	103	30	19	9	41	1.83
471254--471373	36	3.5	35	72	19	101	30	17	10	41	1.83
471608--471685	30	2.5	31	81	6	86	33	12	12	41	1.82
471642--471703	32	2.0	32	84	9	83	37	16	9	37	1.81
471738--471823	29	3.0	29	84	0	118	27	15	11	45	1.80
472220--472254	3	12.0	3	93	6	63	34	0	0	65	0.93
472224--472252	14	2.1	14	100	0	58	34	0	0	65	0.93
472221--472254	17	2.0	17	100	0	68	35	0	0	64	0.94
473973--474004	14	2.3	14	100	0	64	50	0	6	43	1.27
476347--476422	27	2.9	26	80	16	77	50	3	2	43	1.34
476421--476452	2	16.0	2	100	0	64	50	0	0	50	1.00
479649--479673	2	12.5	2	100	0	50	48	0	0	52	1.00
480917--481307	189	2.1	189	94	0	674	26	12	25	36	1.91
481479--481548	36	1.9	36	88	2	104	15	11	34	38	1.84
486718--486787	28	2.5	28	88	0	104	31	12	21	34	1.91
486746--486931	56	3.4	55	73	7	164	33	15	20	29	1.94
486987--487376	198	2.0	197	97	2	739	31	17	27	22	1.97
494964--495010	21	2.2	21	88	3	67	53	4	8	34	1.51
502133--502184	21	2.4	22	81	12	63	26	15	26	30	1.96
505692--505743	21	2.4	22	87	9	72	28	13	26	30	1.94
510480--510652	81	2.1	81	94	0	301	27	21	18	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510516--510644	40	3.2	40	66	6	107	27	20	21	31	1.98
511960--512031	29	2.5	28	86	8	101	44	5	5	44	1.50
512528--512688	61	2.7	61	77	2	173	36	13	14	35	1.85
514269--514302	16	2.1	16	88	0	50	50	0	2	47	1.16
514343--514379	15	2.4	16	86	13	51	32	2	5	59	1.34
514838--515085	130	1.9	130	93	0	424	35	12	15	36	1.86
515475--515550	35	2.2	35	92	0	125	35	1	23	39	1.63
518761--518798	20	2.1	18	85	14	51	21	18	15	44	1.86
519401--519444	4	11.0	4	95	0	79	72	2	0	25	0.96
525968--526004	13	2.8	13	91	0	56	13	18	51	16	1.76
526356--526646	7	39.9	7	72	21	185	52	6	1	39	1.33
526427--526645	2	116.5	2	70	27	153	53	4	0	41	1.25
526427--526643	5	42.0	5	71	23	116	53	4	0	41	1.25
526429--526645	19	11.4	19	79	14	191	53	4	0	41	1.25
530339--530398	21	2.9	21	82	5	68	51	6	11	30	1.64
532809--533038	64	3.6	63	79	5	210	27	16	26	29	1.97
532937--532975	19	2.1	19	100	0	78	28	15	35	20	1.93
532831--533038	65	3.2	65	79	12	214	27	16	25	29	1.97
538134--538173	21	1.9	21	85	10	55	35	10	2	52	1.48
544849--544926	22	3.5	22	92	0	129	32	30	23	14	1.94
545439--545478	21	1.9	21	90	10	64	20	30	32	17	1.95
550615--550649	6	5.8	6	100	0	70	0	65	17	17	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
550961--551268	5	56.6	5	70	24	125	52	6	0	39	1.34
550961--551249	36	7.5	39	72	24	179	53	6	1	39	1.33
551038--551270	2	122.5	2	71	25	170	53	5	0	41	1.27
550961--551270	19	16.8	18	76	17	214	52	6	0	39	1.33
551338--551370	16	2.0	17	88	5	50	63	9	18	9	1.49
551960--552111	78	1.9	79	87	1	225	23	15	26	34	1.95
554930--554988	21	2.9	20	82	9	66	50	6	11	30	1.65
562051--562172	54	2.3	53	95	2	219	22	21	31	23	1.98
562104--562283	73	2.4	76	81	9	230	21	23	30	23	1.99
562862--562905	17	2.6	17	85	7	63	56	29	0	13	1.38

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13