genome.fa.s8856.2.7.7.80.10.50.1000.3.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: VEPZ01008856.1 Hibiscus syriacus cultivar Beakdansim tig00112075_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  559779

Tables:   1   2   3   

This is table  3  of  3  ( 350 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)
393246--393337	3	29.7	3	78	6	94	38	0	2	59	1.09
401630--401851	114	1.9	114	96	0	408	33	13	20	32	1.92
402704--402769	35	1.9	34	90	3	105	33	9	21	36	1.85
403858--403952	50	1.9	50	86	4	138	36	13	21	28	1.91
404322--404398	22	3.7	21	81	10	86	32	12	15	38	1.86
404914--405243	166	2.0	167	88	4	493	36	13	12	38	1.82
405246--405883	76	8.4	76	96	0	1161	22	19	21	35	1.96
406014--406104	3	29.7	3	80	4	92	39	1	1	58	1.13
406072--406116	20	2.1	22	88	8	67	44	2	0	53	1.13
407427--407489	3	22.0	3	77	18	55	26	1	1	69	1.06
414579--414623	18	2.6	17	82	10	56	15	26	4	53	1.61
415456--415520	31	2.1	31	94	0	112	52	7	13	26	1.67
416012--416066	24	2.3	24	93	0	101	34	34	7	23	1.83
418449--418605	58	2.7	58	88	3	226	28	4	19	47	1.69
418449--418606	29	5.4	29	86	3	201	27	5	19	47	1.70
419311--419383	24	3.0	24	81	0	92	27	12	20	39	1.88
420052--420081	15	2.0	15	100	0	60	26	6	26	40	1.81
423629--423653	10	2.5	10	100	0	50	40	20	12	28	1.87
427111--427147	10	3.5	10	86	13	56	75	2	0	21	0.92
427101--427149	20	2.5	20	78	18	57	71	6	0	22	1.08
432824--432862	18	2.2	18	90	0	60	41	0	12	46	1.42
433197--433267	16	4.4	16	94	0	124	18	28	14	39	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
433197--433267	32	2.2	32	100	0	142	18	28	14	39	1.89
433725--433795	14	5.1	14	77	3	63	22	0	28	49	1.50
433719--433795	41	1.9	40	86	7	111	24	0	25	49	1.51
433870--433899	13	2.3	13	100	0	60	40	0	6	53	1.27
433880--433930	20	2.4	21	74	9	59	41	7	5	45	1.57
433647--435898	546	4.1	549	93	2	3820	35	9	12	42	1.74
434416--434445	13	2.3	13	100	0	60	40	0	6	53	1.27
434426--434476	20	2.4	21	74	9	59	41	7	5	45	1.57
434817--434867	14	3.7	14	76	5	59	25	0	27	47	1.53
434946--434979	9	3.9	9	84	7	52	38	0	5	55	1.24
434948--434986	17	2.2	18	95	4	71	41	2	5	51	1.38
435343--435415	21	3.5	20	78	10	67	23	0	21	54	1.45
435418--435512	49	2.0	49	87	2	138	34	7	7	50	1.58
435494--435527	9	3.9	9	84	7	52	38	0	5	55	1.24
435496--435534	17	2.2	18	95	4	71	41	2	5	51	1.38
434844--435898	551	1.9	548	93	0	1799	36	8	11	43	1.72
439597--439818	120	1.9	120	87	0	327	28	13	8	50	1.69
439583--439860	120	2.3	120	81	3	326	29	11	9	49	1.71
440768--440809	21	2.0	22	86	13	61	33	14	21	30	1.93
442642--442680	18	2.2	18	100	0	78	17	10	28	43	1.82
444537--444604	28	2.4	28	83	7	84	66	2	2	27	1.21
444547--444585	20	2.0	20	85	10	53	64	2	0	33	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444987--445052	34	1.9	34	100	0	132	31	12	13	42	1.81
449402--449445	18	2.4	18	85	7	63	22	36	18	22	1.95
456535--456586	18	2.9	17	77	8	59	21	32	23	23	1.98
457880--457951	29	2.5	29	97	0	135	34	6	11	47	1.66
460125--460176	14	3.7	14	92	5	79	23	30	21	25	1.99
464835--465036	101	2.0	100	88	0	296	29	25	18	26	1.98
469874--470074	102	2.0	102	92	0	339	28	26	18	25	1.98
477961--478003	21	2.0	22	90	9	70	23	20	23	32	1.98
480248--480272	5	5.0	5	100	0	50	60	0	0	40	0.97
480368--480411	23	1.9	23	95	0	79	38	9	13	38	1.77
480387--480434	18	2.6	18	83	12	62	41	6	10	41	1.64
480387--480436	19	2.7	19	85	11	68	42	6	10	42	1.63
488471--488506	11	3.3	11	92	0	63	2	8	0	88	0.59
488458--488506	22	2.3	22	85	3	64	2	14	0	83	0.73
509471--509542	2	38.5	2	70	22	50	48	2	0	48	1.16
509470--509536	23	2.9	23	77	2	71	49	2	0	47	1.16
509745--509800	28	2.0	29	85	3	78	57	3	1	37	1.27
512543--512581	13	2.9	14	85	14	55	76	0	2	20	0.90
514606--514667	29	2.1	29	82	11	74	54	0	11	33	1.36
515611--515836	116	2.0	115	84	2	301	25	22	13	38	1.91
515741--516003	91	2.9	91	86	3	361	26	22	14	36	1.92
517345--517417	20	3.5	20	70	14	67	32	21	24	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
517499--517602	52	2.0	52	84	3	138	43	19	11	25	1.84
519533--519666	9	13.8	9	70	20	67	3	17	1	77	0.99
519566--519637	33	2.1	35	84	7	94	1	16	2	79	0.93
519533--519660	39	3.5	35	76	20	106	3	17	1	77	1.00
519533--519661	45	2.8	45	76	11	127	3	17	1	76	1.01
519586--519663	35	2.2	36	81	4	88	1	17	2	78	0.94
519535--519671	15	8.8	15	67	27	56	3	16	2	77	1.01
520973--521010	20	1.9	20	100	0	76	50	18	15	15	1.79
521144--521204	23	2.7	23	92	0	95	29	29	4	36	1.78
523364--523450	12	7.3	12	71	15	56	72	6	2	18	1.18
523399--523444	22	2.1	22	83	0	56	76	6	4	13	1.14
523364--523458	35	2.7	33	78	16	95	71	7	2	18	1.19
523486--523756	132	2.2	120	73	16	276	49	15	14	21	1.79
523504--523746	132	1.8	134	87	1	364	47	16	16	20	1.83
523741--523765	4	6.2	4	100	0	50	76	0	0	24	0.80
523783--523846	29	2.2	29	88	5	94	56	0	12	31	1.37
524565--524609	12	3.8	12	88	11	67	20	17	26	35	1.95
524566--524618	12	4.6	12	86	4	56	22	20	24	32	1.98
524917--525010	21	4.5	21	77	5	109	45	30	0	23	1.53
524917--525020	7	14.9	7	70	11	61	45	32	0	22	1.53
524917--525031	35	3.1	34	71	20	95	45	31	0	23	1.53
526649--527116	65	7.2	65	90	0	695	30	14	22	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540509--540547	20	2.0	20	89	0	60	17	17	25	38	1.92
540788--540884	51	1.9	51	97	0	185	38	18	11	31	1.86
541039--541108	3	23.7	3	78	16	58	32	1	0	65	1.01
541043--541105	14	4.8	13	75	16	58	33	1	0	65	1.03
543303--543356	28	2.0	27	85	10	74	35	5	1	57	1.33
543340--543377	15	2.3	16	82	17	51	31	0	0	68	0.90
543347--543376	15	1.9	16	93	6	53	33	0	0	66	0.92
548556--548659	47	2.2	48	83	8	124	18	17	16	48	1.82
548600--548661	12	5.2	12	77	14	56	14	14	17	53	1.74
548556--548663	24	4.5	24	76	13	107	18	16	16	48	1.82
552110--552139	9	3.4	9	95	4	53	23	20	0	56	1.42
555658--555696	10	4.0	10	83	6	53	71	0	12	15	1.14
555658--555691	9	3.7	9	88	4	50	76	0	11	11	1.02
555658--555695	19	2.0	19	89	0	58	73	0	13	13	1.09
555658--555721	28	2.2	28	86	8	85	68	0	15	15	1.21
557255--557717	235	2.0	230	89	5	700	38	14	18	28	1.90
557276--557803	235	2.2	235	80	13	634	39	14	18	27	1.89
557780--557824	19	2.4	19	88	0	63	55	11	20	13	1.68
557276--557838	120	4.7	118	79	13	582	40	14	17	27	1.89
558059--558130	3	24.7	3	77	16	53	33	2	0	63	1.08
558077--558132	22	2.5	23	85	5	71	37	0	0	62	0.95
558115--558312	98	2.0	98	99	0	387	40	25	9	24	1.85

Tables:   1   2   3

The End!