genome.fa.s74.2.7.7.80.10.50.1000.3.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: VEPZ01000074.1 Hibiscus syriacus cultivar Beakdansim tig00000136_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1055225

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 495 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)
499654--499686	15	2.1	16	88	5	50	66	3	3	27	1.21
499734--499773	20	2.0	20	90	5	62	77	0	7	15	0.98
499918--499955	18	2.1	19	85	9	53	60	0	21	18	1.36
499957--499995	18	2.2	18	85	0	51	71	7	5	15	1.26
501055--501551	85	5.9	85	72	9	352	28	19	17	34	1.95
501489--501573	40	2.2	40	82	6	102	25	22	20	31	1.98
503084--503168	44	1.9	44	92	0	143	28	18	10	42	1.84
503265--503306	21	2.0	21	95	0	75	30	14	21	33	1.93
506639--506674	2	18.5	2	88	5	56	50	0	0	50	1.00
507098--507143	2	23.0	2	95	0	83	52	0	0	47	1.00
508388--508418	16	1.9	16	100	0	62	64	0	0	35	0.94
508394--508418	13	1.9	13	100	0	50	64	0	0	36	0.94
510499--510531	15	2.2	15	89	10	50	60	3	12	24	1.46
510725--510759	18	1.9	18	88	11	54	68	2	11	17	1.31
514086--514138	24	2.2	25	86	10	74	35	5	15	43	1.70
516594--516652	25	2.6	21	73	19	55	18	5	6	69	1.30
526250--526303	3	18.0	3	92	7	92	64	0	0	35	0.94
526588--527206	262	2.4	262	89	1	940	35	17	16	31	1.92
530839--530878	3	13.3	3	84	10	55	62	0	2	35	1.09
530838--530875	17	2.2	17	95	0	67	60	0	2	36	1.11
541785--541821	10	3.7	10	88	0	56	70	0	10	18	1.16
542793--542848	24	2.3	24	93	6	96	41	14	17	26	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
543654--543725	36	2.0	35	83	2	90	33	16	19	30	1.94
544592--544629	20	1.9	20	84	10	51	26	21	26	26	1.99
546913--547139	113	2.0	113	95	0	409	40	14	22	22	1.90
548685--548724	21	1.9	21	94	0	71	57	10	5	27	1.52
550457--550602	54	2.7	53	85	5	195	49	12	8	30	1.69
553030--553069	18	2.3	17	86	4	53	67	2	2	27	1.16
553110--553148	18	2.2	18	85	0	51	69	2	7	20	1.26
553720--553841	64	1.9	63	91	5	201	55	13	0	30	1.39
553755--553893	19	7.2	19	70	12	70	58	12	0	29	1.34
553820--553883	32	2.0	32	85	11	87	65	9	0	25	1.22
555555--555620	5	13.0	5	80	15	55	71	0	7	21	1.11
555551--555613	14	4.6	15	71	16	57	73	0	7	19	1.08
555555--555620	9	6.5	10	75	16	55	71	0	7	21	1.11
557882--557914	12	2.6	13	90	4	50	6	6	36	51	1.51
557924--558015	3	30.0	3	86	4	130	61	0	0	38	0.96
558149--558251	45	2.3	45	98	0	197	35	19	21	23	1.96
558185--558555	76	4.9	76	95	0	647	34	22	19	23	1.97
558345--558752	197	2.1	197	95	0	737	34	22	19	24	1.97
558487--558600	45	2.5	45	90	5	176	32	21	21	24	1.98
558421--558676	121	2.1	122	94	2	446	33	21	19	25	1.97
558269--558828	273	2.1	273	95	0	1005	34	22	19	24	1.97
558542--558881	76	4.5	76	95	1	594	34	22	19	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558149--558881	349	2.1	349	96	0	1349	34	22	19	23	1.97
558822--559191	184	2.0	185	95	0	661	38	14	14	32	1.86
559741--559795	22	2.5	22	90	0	92	40	16	10	32	1.83
562208--562427	114	1.9	114	89	1	343	30	21	14	33	1.93
564573--564615	19	2.3	19	96	4	79	2	13	0	83	0.74
567413--567454	8	5.4	8	78	16	52	64	9	9	16	1.49
569856--569928	28	2.6	28	74	18	71	61	1	5	31	1.27
571835--571923	3	29.0	3	73	13	74	60	0	0	39	0.97
571828--571923	34	2.8	35	80	13	101	59	0	0	40	0.97
571828--571929	28	4.1	25	75	16	97	58	0	0	41	0.98
571884--571933	25	2.0	25	88	7	75	54	0	0	46	1.00
574527--574569	18	2.4	18	88	0	59	72	0	4	23	1.04
575160--575336	69	2.6	69	85	10	233	55	14	0	29	1.39
575237--575336	24	4.3	24	67	16	75	58	14	0	28	1.37
575237--575283	25	1.9	24	82	4	58	61	14	0	23	1.33
575263--575314	25	2.2	23	83	13	61	59	11	0	28	1.32
582989--583038	25	2.0	25	96	0	91	26	36	12	26	1.91
584743--584816	38	1.9	39	91	2	123	21	21	12	44	1.84
584705--584859	84	1.9	83	80	1	184	24	21	11	41	1.86
584778--585108	135	2.4	136	86	5	456	26	22	12	37	1.91
584778--585105	45	7.3	45	84	2	399	26	23	13	37	1.91
585699--585758	21	2.9	21	94	0	102	36	21	10	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
591780--592102	45	7.1	45	84	2	369	25	21	11	41	1.86
591792--592102	90	3.4	90	84	0	406	26	21	11	40	1.87
592489--592691	97	2.1	95	86	1	271	26	23	10	39	1.87
594982--595238	138	1.9	138	81	4	322	28	13	17	40	1.88
600603--600652	3	16.7	3	91	0	82	0	28	0	72	0.86
601534--601845	54	5.8	54	87	3	396	35	15	14	35	1.87
601534--601851	108	2.9	108	87	3	444	34	15	14	35	1.88
608037--608082	22	2.0	23	87	4	67	32	13	23	30	1.93
608037--608089	22	2.5	22	84	6	65	33	15	20	30	1.93
608417--608684	54	5.0	54	85	0	338	34	16	15	33	1.90
608417--608683	108	2.5	108	90	0	399	34	16	15	33	1.90
608669--608708	20	2.0	20	100	0	80	40	20	10	30	1.85
611258--611285	3	9.3	3	100	0	56	0	0	32	67	0.91
611520--611828	43	7.2	43	84	2	372	33	20	21	23	1.97
614443--614489	24	2.0	24	83	8	60	38	21	19	21	1.94
619929--619961	13	2.5	13	100	0	66	54	9	15	21	1.68
620735--620801	33	2.0	33	85	0	89	32	20	25	20	1.97
621073--621310	81	2.9	81	86	6	286	33	18	15	32	1.92
622462--622493	2	16.0	2	100	0	64	50	0	0	50	1.00
625042--625081	20	2.0	21	85	14	57	35	5	12	47	1.63
631257--631317	30	2.0	30	100	0	122	27	9	22	39	1.86
636170--636214	21	2.1	22	95	4	83	40	13	17	28	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
645183--645222	21	1.9	21	100	0	80	57	5	5	32	1.42
649040--649112	23	3.3	22	81	5	85	20	30	24	24	1.99
653266--653390	47	2.8	44	81	9	153	32	20	6	40	1.78
661953--661987	18	1.9	18	94	0	61	17	28	22	31	1.96
662718--662787	34	2.1	32	84	5	86	32	15	30	21	1.94
674263--674308	19	2.4	19	100	0	92	58	0	19	21	1.39
674426--674524	33	3.0	34	81	7	107	35	18	20	26	1.95
679086--679262	90	2.0	89	89	1	273	43	6	11	38	1.67
685860--685903	23	1.9	23	81	9	54	61	13	2	22	1.43
685935--685988	28	1.9	28	92	0	90	12	44	5	37	1.66
688108--688132	12	2.1	12	100	0	50	28	16	24	32	1.96
688222--688246	7	3.6	7	100	0	50	16	32	12	40	1.84
689323--689756	55	8.0	54	78	8	309	29	22	17	29	1.97
689544--689813	51	5.1	51	83	4	231	30	24	16	28	1.96
689543--689813	102	2.6	103	81	8	271	30	24	16	28	1.96
689827--689974	37	4.0	37	90	1	226	23	19	18	38	1.93
691203--691307	7	13.6	8	79	17	91	6	15	0	78	0.95
691215--691262	9	5.6	9	81	18	66	10	10	0	79	0.95
691203--691313	8	14.2	8	77	12	65	6	16	0	77	0.96
691251--691315	14	4.4	14	73	9	58	4	21	0	73	1.00
691241--691339	44	2.2	44	81	10	121	8	17	0	74	1.04
696687--696729	17	2.5	17	88	0	59	39	37	18	4	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
698222--698296	20	3.4	22	70	18	57	48	1	0	50	1.09
698241--698297	22	2.6	21	78	13	62	47	1	0	50	1.11
698839--698879	22	1.9	22	85	5	57	75	2	2	19	1.03
702519--702630	42	2.7	42	75	9	113	29	18	20	31	1.97
702494--703252	295	2.6	293	86	4	1037	34	19	14	30	1.92
705417--705473	25	2.3	26	84	6	73	10	15	1	71	1.21
707742--708035	148	2.0	148	93	1	500	22	23	17	35	1.95
713042--713087	20	2.4	19	82	13	58	67	8	2	21	1.29
731511--731535	13	1.9	13	100	0	50	48	12	0	40	1.40
740726--740763	18	2.1	18	90	0	58	23	13	15	47	1.81

Tables:   1   2   3   4   5