genome.fa.s8284.2.7.7.80.10.50.1000.3.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: VEPZ01008284.1 Hibiscus syriacus cultivar Beakdansim tig00110946_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  665325

Tables:   1   2   3   4   

This is table  3  of  4  ( 423 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)
386800--386895	30	3.4	30	83	9	130	26	26	17	30	1.97
387156--387283	44	3.1	43	74	21	139	41	28	8	21	1.83
387229--387361	66	2.0	66	83	7	169	43	28	8	19	1.80
387267--387361	33	2.9	30	70	21	75	44	29	7	18	1.77
391776--391804	2	14.5	2	100	0	58	48	0	0	51	1.00
394594--394694	37	2.8	36	84	6	123	38	14	15	30	1.88
395168--395212	22	2.2	20	84	15	56	35	4	0	60	1.17
395418--395457	17	2.4	16	84	12	53	45	2	0	52	1.14
399313--399402	7	12.7	7	75	14	69	78	7	13	0	0.94
399338--399362	10	2.5	10	100	0	50	84	8	8	0	0.79
400029--400086	22	2.6	22	88	0	98	37	31	8	22	1.84
400937--401039	35	2.9	36	92	1	163	24	24	13	37	1.91
401153--401239	37	2.4	37	86	5	115	25	21	13	39	1.90
401256--401322	35	1.9	35	90	0	107	25	20	13	40	1.89
400955--401339	102	3.9	101	90	4	602	29	20	12	37	1.90
401291--401417	66	1.9	67	91	1	211	29	22	12	35	1.91
402013--402642	109	5.9	107	83	6	581	32	25	20	22	1.98
403103--403203	37	2.8	36	84	6	123	38	14	15	30	1.88
406653--406721	33	2.1	33	100	0	138	31	17	11	39	1.85
407331--407412	32	2.6	32	80	7	103	30	17	14	37	1.89
411312--411366	2	27.5	2	100	0	110	50	0	0	49	1.00
412238--412289	27	1.9	27	84	0	68	51	9	7	30	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412482--412546	20	3.2	20	86	0	94	44	23	15	16	1.86
412676--412727	22	2.4	22	90	0	77	21	38	13	26	1.90
415239--415401	64	2.5	63	79	7	168	32	15	23	28	1.95
415412--415466	20	2.8	20	97	0	101	30	23	20	25	1.98
416429--416510	31	2.6	31	94	0	137	21	20	26	30	1.98
416496--416567	29	2.4	30	81	2	83	20	19	27	31	1.97
417641--417686	21	2.2	21	84	0	56	19	15	28	36	1.92
417897--417946	4	12.5	4	82	0	64	26	2	4	68	1.18
418113--418184	21	3.4	21	75	7	65	23	37	18	20	1.94
419772--419816	20	2.2	20	88	0	72	35	22	22	20	1.96
419824--419886	20	3.2	20	86	0	90	15	17	23	42	1.88
420060--420148	39	2.3	39	96	0	160	16	11	21	50	1.76
420459--420495	18	2.1	18	89	0	56	51	10	5	32	1.60
420881--420930	25	2.0	25	96	0	91	44	22	8	26	1.80
421021--421076	20	2.8	20	86	0	76	42	21	17	17	1.89
421088--421125	20	1.9	20	100	0	76	18	23	26	31	1.97
421085--421134	20	2.5	20	83	0	73	14	20	26	40	1.90
423866--423899	12	2.8	12	90	0	50	14	0	29	55	1.40
424664--424711	20	2.4	20	85	0	69	18	18	25	37	1.94
426513--426547	2	17.5	2	100	0	70	48	0	0	51	1.00
430052--430359	93	3.3	93	84	2	379	25	25	20	29	1.99
436364--436413	2	25.0	2	100	0	100	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
445953--445997	21	2.1	21	87	0	63	31	28	24	15	1.96
447329--447456	31	4.1	31	76	12	127	27	18	19	34	1.95
447415--447511	30	3.2	30	86	1	104	23	20	23	31	1.98
447443--447514	30	2.4	30	92	0	117	26	20	22	30	1.98
450795--450839	21	2.1	21	83	0	54	33	28	22	15	1.95
452173--452296	31	4.0	31	75	5	115	30	18	17	33	1.94
452286--452357	30	2.4	30	92	0	117	26	20	22	30	1.98
457033--457095	2	31.5	2	100	0	126	49	0	0	50	1.00
461022--461082	23	2.7	23	86	0	86	32	19	9	37	1.85
484393--484424	16	1.9	17	93	6	57	37	18	6	37	1.76
494279--494480	100	2.0	100	96	0	368	28	29	9	32	1.89
495195--495262	27	2.6	27	93	4	113	41	16	10	32	1.82
498942--499009	27	2.6	27	88	9	97	44	16	7	32	1.75
503203--503387	91	2.0	91	96	0	343	31	16	16	35	1.91
504687--504910	111	2.0	111	100	0	448	36	27	8	27	1.85
510334--510370	16	2.3	16	95	0	65	16	45	0	37	1.47
510714--510752	14	2.8	14	96	0	69	10	12	20	56	1.65
511015--511101	10	7.7	10	72	22	66	9	9	20	60	1.54
511015--511101	23	3.7	23	90	4	131	9	9	20	60	1.54
511022--511071	13	4.1	13	80	15	70	14	6	16	64	1.48
511007--511098	13	7.7	13	72	24	62	8	7	21	61	1.50
515216--515375	81	2.0	81	91	0	257	37	21	15	25	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519376--519415	2	20.5	2	94	5	73	50	0	0	50	1.00
519723--519751	3	9.7	3	100	0	58	68	0	0	31	0.89
520467--520872	195	2.1	197	85	3	541	35	21	17	25	1.95
526715--526791	23	3.5	23	87	8	108	23	36	18	22	1.95
527550--527588	18	2.2	19	81	13	55	56	2	0	41	1.13
528467--528601	51	2.6	51	81	2	137	17	33	28	20	1.96
530239--530268	10	3.0	10	95	0	51	36	0	30	33	1.58
530390--530514	50	2.5	49	80	1	142	20	28	33	16	1.95
531397--532326	223	4.1	228	96	2	1686	44	7	8	39	1.63
531389--532326	452	2.1	453	95	3	1703	44	7	8	39	1.63
532375--532421	20	2.4	19	89	10	76	55	10	17	17	1.69
532564--532606	20	2.3	19	88	11	63	51	11	16	20	1.75
534815--534858	21	2.1	21	91	0	70	40	11	31	15	1.83
534891--534954	31	2.0	32	87	6	94	28	0	48	23	1.51
536744--536792	19	2.6	19	93	0	80	30	2	10	57	1.43
536911--538074	199	5.9	199	96	1	2137	36	15	17	31	1.91
536911--538074	593	2.0	594	96	1	2165	36	15	17	31	1.91
539532--539614	6	13.3	6	75	7	67	38	8	33	19	1.82
539547--539618	3	24.0	3	73	0	63	37	6	33	22	1.81
539532--539614	39	2.2	39	89	6	136	38	8	33	19	1.82
539532--539614	18	4.4	18	76	8	76	38	8	33	19	1.82
539535--539614	12	6.9	12	81	8	94	37	8	33	20	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541117--541611	183	2.7	182	96	1	891	34	14	17	33	1.90
542523--542595	23	3.2	23	84	0	92	35	4	20	39	1.72
542869--542918	25	2.0	25	96	0	91	26	8	22	44	1.80
543306--543342	18	2.1	18	89	0	56	32	5	10	51	1.60
543298--543344	24	2.0	24	86	0	67	34	4	14	46	1.64
543600--543686	39	2.2	39	95	0	156	48	20	13	17	1.81
544106--544178	23	3.2	23	84	0	92	34	2	20	42	1.67
544539--544611	23	3.2	23	88	0	110	32	6	21	38	1.80
543904--545393	430	3.5	430	97	0	2784	41	8	11	38	1.72
544969--545041	23	3.2	23	90	0	110	34	5	20	39	1.76
545460--545507	23	2.1	23	88	0	69	31	16	12	39	1.86
550460--550602	51	2.8	51	96	0	259	46	1	18	33	1.57
558728--558801	30	2.5	29	75	14	80	50	6	5	37	1.52
565519--565838	130	2.5	128	84	3	383	27	15	24	32	1.96
565519--565838	86	3.7	85	83	6	385	27	15	24	32	1.96
565519--565838	43	7.4	44	79	9	329	27	15	24	32	1.96
565519--565910	86	4.6	87	82	6	365	26	16	24	33	1.96
565513--565910	43	9.2	42	75	12	281	27	16	23	32	1.96
566307--566380	21	3.5	21	88	0	103	1	37	20	40	1.61
574452--574476	13	1.9	13	100	0	50	16	8	4	72	1.24
579818--579859	3	14.0	3	85	9	59	30	0	2	66	1.04
579818--579855	16	2.4	16	86	4	60	28	0	2	68	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
579822--579870	22	2.2	22	82	7	55	34	2	2	61	1.19
586986--587029	4	11.5	4	88	9	65	50	27	0	22	1.50
587666--587798	36	3.7	35	78	7	110	34	19	12	33	1.89
588044--588145	29	3.7	29	84	7	133	28	9	15	46	1.78
588156--588259	52	2.0	53	94	3	183	32	13	17	36	1.89
588229--588287	28	2.2	28	81	6	68	35	6	16	40	1.76
588243--588381	28	4.5	28	71	20	109	32	9	12	45	1.75
588291--588413	37	3.5	36	73	13	130	32	12	10	44	1.76
588258--588473	68	3.3	66	85	7	269	29	12	12	46	1.77
588532--588754	120	1.9	118	79	7	254	30	14	13	40	1.85

Tables:   1   2   3   4