genome.fa.s8488.2.7.7.80.10.50.1000.2.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   

This is table  2  of  54  ( 6450 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)
280670--280738	30	2.3	31	85	9	97	68	5	7	18	1.34
280967--281022	29	1.9	29	82	7	69	66	1	12	19	1.33
281065--281132	30	2.3	30	84	5	84	54	4	13	27	1.58
282919--283050	39	3.4	38	83	7	151	31	23	24	20	1.98
282981--283112	39	3.4	38	76	8	104	35	25	24	15	1.94
284454--284513	29	2.0	30	87	3	86	36	16	8	38	1.79
286306--286666	82	4.3	83	81	7	378	37	9	19	33	1.85
286356--286666	82	3.8	82	82	5	392	36	10	19	33	1.86
286306--286666	167	2.2	167	88	2	537	37	9	19	33	1.85
290800--290887	46	1.9	46	90	2	142	31	14	12	40	1.84
290897--290952	22	2.6	22	77	2	60	41	7	16	35	1.75
291364--291401	16	2.4	16	82	8	51	18	0	0	81	0.69
292022--292145	62	2.0	62	98	0	239	50	8	19	21	1.75
293153--293202	23	2.1	24	85	10	68	60	28	0	12	1.32
294574--294614	20	2.0	21	90	9	66	60	7	0	31	1.24
298719--298775	28	2.0	28	100	0	114	31	14	10	43	1.79
301684--301723	21	1.9	21	85	10	55	65	0	15	20	1.28
305660--305699	21	1.9	21	85	10	55	62	0	17	20	1.33
305722--305762	22	1.9	21	90	5	64	26	2	36	34	1.70
307791--307861	16	4.4	16	85	0	79	14	15	23	46	1.82
307828--307901	38	1.9	39	83	2	96	17	10	24	47	1.79
318635--318700	21	3.0	22	81	16	59	65	0	21	13	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
320795--320858	19	3.4	19	97	0	119	23	20	15	40	1.90
321513--321550	17	2.3	17	86	13	53	57	0	31	10	1.32
326027--326169	64	2.2	65	83	6	175	27	17	23	31	1.97
328378--328459	23	3.6	23	73	17	82	26	21	25	25	2.00
328382--328478	44	2.2	44	83	10	119	27	19	24	27	1.99
334254--334305	19	2.7	19	96	0	95	26	21	30	21	1.98
334336--334423	45	2.0	45	88	4	133	29	19	25	26	1.98
334445--334532	45	2.0	45	88	4	133	29	19	25	26	1.98
334293--334541	109	2.3	109	100	0	498	30	18	22	28	1.98
336565--336598	17	2.0	17	88	11	52	32	8	0	58	1.29
336772--336841	38	1.9	36	88	8	106	41	8	8	41	1.66
337818--337902	17	4.5	17	67	27	55	34	4	11	49	1.60
337806--337922	60	2.0	60	91	3	191	34	6	11	47	1.66
351264--351293	13	2.3	13	100	0	60	6	36	23	33	1.81
351686--351724	17	2.2	18	95	4	71	17	48	23	10	1.78
353009--353048	19	2.1	19	85	0	53	20	20	10	50	1.76
356673--356828	65	2.4	65	80	4	163	27	19	19	33	1.96
365339--365493	65	2.4	64	83	5	179	29	19	19	32	1.96
365370--365494	64	1.9	65	87	4	182	30	21	17	30	1.96
365479--365532	19	2.8	19	88	0	90	22	25	22	29	1.99
366847--366913	3	22.3	3	100	0	134	0	32	0	67	0.91
372537--372562	11	2.4	11	100	0	52	0	15	0	84	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372548--372603	24	2.4	23	80	11	60	7	12	5	75	1.18
377103--377199	42	2.3	42	85	0	122	22	10	18	48	1.78
380236--380271	9	3.9	9	96	3	63	63	0	0	36	0.94
382271--382324	23	2.3	23	83	0	63	38	1	5	53	1.35
384823--384881	21	2.8	21	94	0	100	32	18	23	25	1.97
384823--384901	21	3.8	20	86	6	88	30	20	24	25	1.98
392176--392227	19	2.6	20	82	14	63	67	5	11	15	1.40
394490--394540	14	3.7	14	81	5	68	23	21	17	37	1.94
394502--394541	13	3.0	13	78	7	53	20	22	15	42	1.88
394490--394541	27	1.9	27	92	0	86	23	21	17	38	1.93
396996--397102	45	2.4	45	85	4	135	29	20	20	28	1.98
404999--405036	18	2.1	18	100	0	76	28	5	15	50	1.66
405680--405836	65	2.4	64	81	7	167	31	17	19	30	1.95
406856--406974	31	3.9	30	83	4	139	15	29	29	26	1.96
406858--406974	62	1.9	62	83	3	155	15	29	28	26	1.96
418694--418751	27	2.1	27	84	6	73	44	17	12	25	1.83
418694--418767	27	2.7	25	78	15	67	43	18	10	27	1.83
424080--424137	29	2.0	30	86	3	82	25	32	13	27	1.94
424094--424150	29	2.0	29	82	6	71	28	28	12	31	1.93
424752--424805	19	2.9	18	83	5	81	75	0	11	12	1.04
424752--424828	37	2.1	37	83	9	95	74	0	12	12	1.09
425720--425768	25	2.0	25	95	0	89	32	18	4	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426895--426991	3	32.3	3	100	0	194	32	0	0	67	0.91
440633--440717	36	2.4	36	95	0	152	18	29	20	31	1.96
440626--440727	18	5.6	18	73	14	93	19	30	19	30	1.97
448795--448829	2	17.5	2	100	0	70	48	0	0	51	1.00
449819--449843	13	1.9	13	100	0	50	16	20	32	32	1.94
452550--452641	24	3.8	24	81	2	105	26	11	18	43	1.84
453395--453423	14	2.1	14	100	0	58	27	6	37	27	1.82
454907--454941	16	2.3	15	90	5	52	17	34	25	22	1.96
457233--457327	24	4.0	24	77	8	95	26	9	20	44	1.81
459035--459128	39	2.4	39	85	3	136	31	13	29	24	1.94
460516--460570	22	2.5	22	79	8	58	18	7	5	69	1.32
465544--465600	27	2.1	27	100	0	114	42	14	14	29	1.84
465765--465828	25	2.6	24	78	9	67	51	23	0	25	1.48
469142--469180	21	1.9	20	89	5	60	35	23	15	25	1.94
479095--479659	6	95.5	6	97	2	1074	33	0	16	50	1.46
484952--485215	75	3.5	76	85	5	342	32	15	12	40	1.84
485196--485651	39	11.7	39	87	2	594	32	16	15	36	1.90
485472--485534	20	3.2	20	63	4	56	26	15	14	42	1.86
485693--485949	135	1.9	135	87	0	379	32	18	22	26	1.97
487388--487426	14	2.6	14	88	8	51	12	2	5	79	1.00
501190--502078	132	6.7	131	91	0	1382	31	21	21	25	1.98
501790--501855	20	3.2	20	73	23	57	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)
501970--502168	90	2.2	90	89	0	308	30	22	21	26	1.98
502250--502397	43	3.4	43	86	0	197	28	30	14	27	1.95
503653--503715	27	2.3	27	80	2	72	22	4	34	38	1.75
504346--504431	25	3.5	24	75	12	77	2	19	1	76	0.96
504346--504447	8	12.2	8	71	14	73	2	19	0	76	0.97
504346--504439	32	2.8	33	78	10	86	3	20	1	75	1.00
504387--504441	14	4.2	14	73	21	57	3	20	1	74	1.06
504346--504447	24	4.2	24	76	18	95	2	19	0	76	0.97
504354--504467	57	2.0	57	81	10	135	5	18	2	73	1.14
509176--509211	14	2.7	13	87	8	54	55	0	8	36	1.30
511814--511862	13	3.5	13	86	8	53	69	4	2	24	1.17
513992--514032	19	2.2	19	91	8	66	14	4	0	80	0.87
514044--514117	31	2.4	31	82	6	89	12	2	9	75	1.14
524884--524940	6	9.3	6	79	11	53	75	1	21	1	0.98
525541--525593	21	2.5	21	93	0	88	47	11	18	22	1.81
528441--528494	12	4.6	12	77	15	51	12	3	1	81	0.91
528439--528582	23	6.0	23	67	22	75	13	8	4	74	1.19
528458--528494	18	1.9	19	89	10	58	13	5	0	81	0.86
528594--528631	20	1.9	20	84	10	51	13	2	10	73	1.19
530529--530561	3	11.7	3	87	12	52	72	0	0	27	0.85
531740--531780	19	2.2	19	86	8	57	63	0	14	21	1.30
537449--537570	40	3.0	40	97	0	235	23	17	26	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539511--539535	6	4.2	6	100	0	50	16	16	36	32	1.90
539849--539908	31	1.9	31	96	0	111	33	11	13	41	1.80
540656--540717	16	3.7	17	83	8	65	77	1	14	6	1.04
540658--540775	6	18.3	6	71	19	53	74	2	16	5	1.13
540665--540729	15	4.3	15	75	13	53	76	1	12	9	1.07
540658--540701	18	2.4	18	88	3	61	79	2	13	4	0.98
540693--540780	33	2.7	33	79	13	101	72	2	18	6	1.17
540720--540762	21	2.0	22	91	8	72	72	4	18	4	1.20
540663--540768	28	3.9	27	75	17	85	74	2	16	6	1.14
540655--540770	16	6.9	16	70	17	60	74	2	17	6	1.14

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54