genome.fa.s8014.2.7.7.80.10.50.1000.3.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: VEPZ01008014.1 Hibiscus syriacus cultivar Beakdansim tig00110480_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  624021

Tables:   1   2   3   4   

This is table  3  of  4  ( 375 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)
467683--467791	30	3.6	30	81	7	114	39	12	3	44	1.61
467711--467800	32	2.9	31	85	8	96	37	14	3	44	1.62
472015--472068	26	2.1	26	96	0	99	37	14	24	24	1.93
475085--475254	57	3.0	57	81	13	190	20	24	10	44	1.83
476091--476138	23	2.1	23	88	0	69	35	12	18	33	1.89
476518--476590	23	3.2	23	84	7	94	39	20	5	34	1.76
476495--476590	46	2.1	45	81	7	106	41	18	6	33	1.76
476994--477080	39	2.2	39	95	0	156	17	13	20	48	1.81
477340--477376	18	2.1	18	89	0	56	51	10	5	32	1.60
477671--477721	25	2.0	25	92	0	84	39	19	7	33	1.81
477956--478007	23	2.3	22	90	6	77	44	19	1	34	1.62
477966--478028	23	2.7	23	90	0	90	38	19	6	36	1.77
479508--479594	3	29.0	3	77	0	84	24	34	5	35	1.79
479508--479609	18	5.7	18	79	0	87	22	34	6	36	1.81
479516--479606	42	2.2	42	91	0	146	21	35	7	35	1.83
481447--481495	19	2.6	19	93	0	80	57	10	2	30	1.43
483285--483350	33	2.0	33	90	0	105	22	48	0	28	1.51
483400--483448	21	2.3	22	82	10	66	18	30	12	38	1.87
485675--485717	20	2.3	18	82	17	61	18	16	11	53	1.72
485680--485725	20	2.3	19	89	10	74	17	15	10	56	1.67
485848--485893	20	2.3	20	89	10	76	17	17	10	54	1.70
485959--486404	228	2.0	225	93	2	768	39	7	7	45	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490886--490925	13	2.9	14	85	7	55	45	7	12	35	1.70
491412--491468	23	2.5	22	88	2	87	29	24	24	21	1.99
491847--491880	15	2.3	15	89	0	50	38	11	14	35	1.83
492822--492846	13	1.9	13	100	0	50	44	8	8	40	1.63
498939--499156	103	2.1	103	97	0	409	25	13	23	36	1.92
504791--505008	103	2.1	103	95	0	391	26	13	23	37	1.91
505015--505092	23	3.3	23	80	1	84	25	20	21	32	1.98
506910--506954	21	2.1	21	83	0	54	31	26	24	17	1.97
507534--507568	18	1.9	18	88	11	54	54	5	17	22	1.64
507625--507668	22	2.0	22	86	4	63	45	0	22	31	1.53
507894--507919	2	13.0	2	100	0	52	50	0	0	50	1.00
508454--508757	149	2.0	149	98	0	590	27	17	20	34	1.95
508736--508780	23	2.0	23	86	0	63	20	24	28	26	1.99
509473--509552	20	3.8	21	72	18	67	25	33	25	16	1.95
509473--509552	21	3.8	21	70	16	58	25	33	25	16	1.95
511203--511237	17	2.1	17	100	0	70	28	28	5	37	1.80
514190--514247	20	2.6	22	89	10	84	31	20	22	25	1.98
520281--520350	30	2.2	30	82	14	88	34	8	15	41	1.78
520291--520350	30	2.0	30	90	6	95	33	8	15	43	1.76
520713--520786	20	3.6	21	78	3	71	32	21	25	20	1.97
520807--520860	20	2.6	21	82	11	67	22	20	33	24	1.97
520972--521030	29	2.0	31	93	6	104	44	16	5	33	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522280--522327	19	2.5	20	82	3	62	29	12	6	52	1.63
534465--534663	21	9.8	20	72	6	114	38	24	17	20	1.93
534465--534682	20	10.8	20	69	10	113	38	25	16	19	1.92
534546--534657	41	2.7	41	91	6	174	38	21	16	23	1.93
534630--534823	20	9.6	20	81	5	221	35	25	19	19	1.95
534630--534823	60	3.2	60	83	0	253	35	25	19	19	1.95
535319--535426	21	5.7	20	71	15	95	46	18	25	10	1.80
535320--535437	33	3.2	37	81	13	131	44	19	25	10	1.82
535384--535437	14	3.5	14	73	22	54	42	24	25	7	1.80
535379--535453	33	2.3	33	92	0	123	46	24	22	6	1.75
535454--535567	33	3.5	33	91	1	185	10	23	21	44	1.83
535449--535545	19	5.7	18	70	21	75	11	23	22	42	1.86
535503--535559	14	3.7	14	79	20	69	8	26	24	40	1.84
537258--538179	182	5.0	183	97	2	1707	22	13	18	45	1.84
538223--538351	19	7.3	19	75	17	125	45	28	17	8	1.77
538259--538351	33	2.8	32	91	4	150	46	27	18	7	1.76
538223--538351	52	2.5	52	74	14	140	45	28	17	8	1.77
538347--538481	19	7.6	19	75	16	128	11	19	23	45	1.82
538369--538425	14	3.7	14	77	20	60	10	21	22	45	1.82
538352--538444	33	2.8	33	95	0	168	10	20	21	47	1.80
539394--539429	14	2.6	14	95	0	63	33	0	22	44	1.53
539536--539632	19	5.4	18	84	13	121	45	17	22	14	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539536--539650	51	2.2	53	95	3	207	43	19	24	13	1.86
539657--539809	33	4.5	33	74	16	159	13	22	18	45	1.84
539679--539894	19	12.4	19	77	18	247	13	20	18	46	1.83
539657--539866	52	4.0	52	98	0	411	13	22	17	46	1.83
539698--539894	33	5.8	33	77	13	195	13	20	19	46	1.83
542357--542403	24	2.0	24	87	8	69	38	21	14	25	1.92
543079--543328	20	12.5	20	86	1	268	20	17	24	37	1.93
543315--543397	21	4.0	21	73	6	78	25	16	24	33	1.96
543295--543393	42	2.4	43	77	11	100	21	18	23	37	1.94
552082--552114	8	4.2	8	84	7	50	36	0	27	36	1.57
552210--552801	128	4.6	128	95	0	1040	21	23	20	33	1.97
553118--553225	34	3.1	34	86	2	153	36	3	4	55	1.38
553149--553226	35	2.5	28	70	27	68	35	2	3	57	1.30
553749--553860	21	5.3	20	86	7	143	20	25	34	18	1.96
553746--553854	42	2.6	42	95	0	191	22	25	33	18	1.97
553864--553911	21	2.3	21	88	0	69	20	12	41	25	1.87
555634--555692	19	3.3	19	70	18	63	59	0	0	40	0.97
555672--555709	15	2.5	15	83	12	51	60	0	0	39	0.97
555634--555740	34	3.2	33	82	11	103	60	1	0	37	1.07
564636--564683	16	3.0	16	87	0	60	14	8	22	54	1.67
564658--564694	16	2.3	16	95	0	65	16	16	27	40	1.89
570995--571043	18	2.6	19	77	3	55	14	8	20	57	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574690--575200	266	1.9	265	97	0	961	45	6	5	42	1.53
577695--577740	18	2.5	19	79	10	60	39	4	0	56	1.19
582715--583107	184	2.0	183	85	10	457	30	7	4	57	1.48
583261--583292	13	2.4	14	90	10	50	15	6	0	78	0.95
594656--595246	105	5.6	105	99	0	1146	33	26	17	22	1.96
596803--596844	2	21.5	2	90	4	68	45	0	2	52	1.13
597062--597099	13	2.9	14	88	11	55	18	5	0	76	0.97
602945--603045	24	4.2	24	75	15	77	30	3	0	65	1.11
602935--603035	46	2.2	43	79	11	105	31	3	0	64	1.12
602980--603035	23	2.4	23	77	13	62	32	3	0	64	1.11
603184--603288	30	3.3	30	73	19	113	40	7	7	44	1.61
603213--603324	36	3.3	36	75	19	139	41	6	7	44	1.57
603184--603329	66	2.2	66	98	0	283	40	7	7	44	1.61
603475--603554	33	2.3	34	81	14	85	52	3	2	41	1.33
603879--603928	26	1.9	26	87	0	73	48	0	2	50	1.12
609291--609320	14	2.1	14	93	0	51	50	6	0	43	1.28
609504--609536	17	1.9	17	88	11	50	57	18	12	12	1.64
610644--610719	11	6.6	11	70	8	53	27	22	23	26	1.99
610653--610720	23	2.9	23	78	4	82	29	23	22	25	1.99
611434--611526	21	4.5	21	78	4	100	39	18	24	17	1.91
611434--611526	41	2.3	41	100	0	186	39	18	24	17	1.91
611453--611587	41	3.3	41	82	6	132	37	21	21	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
611515--611629	20	5.7	20	82	6	115	31	26	18	24	1.97
611512--611649	41	3.4	41	79	6	154	34	24	17	23	1.96
611817--611858	20	2.0	21	90	4	68	19	45	16	19	1.86
612120--612178	20	3.0	20	85	5	66	15	18	23	42	1.88
613492--613536	18	2.5	18	88	0	72	26	44	15	13	1.83
614029--614073	20	2.3	19	80	3	54	40	20	22	17	1.92
614029--614087	19	3.1	19	82	2	64	40	20	22	16	1.91
614099--614156	14	3.9	14	79	16	71	8	17	25	48	1.75
614094--614172	32	2.4	33	95	2	142	10	18	24	46	1.80
614113--614230	20	6.4	19	77	11	95	13	20	24	41	1.88

Tables:   1   2   3   4