genome.fa.s8082.2.7.7.80.10.50.1000.27.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: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6025995

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   

This is table  27  of  28  ( 3312 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)
5557851--5557911	30	2.1	28	84	6	77	8	8	3	80	1.01
5564612--5564673	13	4.8	13	91	0	97	33	20	11	33	1.89
5564603--5564673	26	2.7	26	88	0	115	32	21	14	32	1.93
5564630--5564817	85	2.2	85	82	5	213	32	20	16	30	1.94
5583990--5584027	17	2.2	18	85	4	51	60	2	0	36	1.11
5584332--5584384	20	2.8	19	83	8	72	33	16	11	37	1.85
5586394--5586451	18	3.1	18	79	13	71	25	12	12	50	1.74
5586394--5586451	21	3.0	19	80	11	73	25	12	12	50	1.74
5586663--5586725	22	2.9	22	87	0	90	28	25	19	26	1.98
5588833--5588865	16	2.1	16	94	0	57	30	3	0	66	1.06
5590544--5590698	76	2.0	76	100	0	310	46	1	23	29	1.60
5591145--5591470	170	1.9	170	91	1	537	28	16	18	36	1.92
5591661--5591710	24	2.1	24	96	0	91	22	22	8	48	1.76
5597643--5597966	160	2.0	162	98	1	634	38	12	17	32	1.87
5598370--5598426	16	3.6	16	88	2	80	35	8	21	35	1.84
5598876--5598942	32	2.1	33	91	2	109	46	14	7	31	1.73
5602424--5602607	73	2.5	72	87	3	253	33	25	15	25	1.95
5603324--5603378	28	2.0	28	81	0	65	43	3	10	41	1.57
5603352--5603644	36	8.1	35	79	9	234	43	2	9	43	1.52
5603382--5603635	72	3.5	71	83	4	303	43	3	9	43	1.53
5603352--5603609	107	2.4	109	84	3	317	44	2	9	43	1.51
5603352--5603650	72	4.1	71	80	8	268	42	2	10	44	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5603626--5603665	21	1.9	21	89	0	62	42	2	12	42	1.56
5605198--5605445	134	1.9	134	80	11	303	40	7	5	46	1.55
5609713--5609886	89	2.0	88	88	4	260	44	6	11	37	1.66
5616483--5616649	90	1.9	90	97	0	316	46	6	11	35	1.67
5617717--5617773	18	2.9	20	75	12	64	28	10	10	50	1.69
5618458--5618528	34	2.1	33	84	2	88	32	14	28	25	1.94
5620887--5620923	2	18.5	2	94	0	65	48	0	0	51	1.00
5635032--5635086	7	7.8	8	77	22	61	74	0	10	14	1.07
5635032--5635086	20	2.6	22	81	18	73	74	0	10	14	1.07
5635978--5636356	55	6.9	55	92	3	577	31	16	25	27	1.96
5636282--5636575	53	5.6	53	75	15	146	32	20	25	21	1.98
5635987--5636629	55	11.9	52	85	6	319	31	18	25	24	1.98
5636262--5636597	157	2.1	160	80	10	359	31	20	24	23	1.98
5637448--5637484	16	2.3	16	100	0	74	48	29	16	5	1.68
5640380--5640404	12	2.1	12	100	0	50	60	0	0	40	0.97
5640475--5640615	35	4.0	35	76	2	149	45	3	9	41	1.53
5640430--5640610	69	2.6	71	83	4	240	45	4	10	39	1.59
5640729--5640785	28	2.0	29	86	10	82	28	1	1	68	1.09
5640729--5640786	16	4.0	15	73	22	61	27	1	1	68	1.08
5643172--5643229	30	1.9	30	96	0	107	37	3	22	36	1.71
5644423--5644569	73	2.0	73	100	0	294	34	17	16	31	1.92
5647394--5647436	18	2.4	18	100	0	86	30	32	11	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5649238--5649281	22	2.0	22	100	0	88	45	18	18	18	1.86
5649896--5650019	31	4.0	31	83	6	153	38	21	18	20	1.93
5653345--5653567	110	2.0	110	100	0	446	26	18	12	42	1.86
5654821--5654901	24	3.4	24	94	0	144	27	22	23	27	1.99
5655452--5655576	31	4.0	31	79	10	105	39	22	17	20	1.93
5659490--5659555	28	2.4	28	95	5	118	46	0	10	42	1.38
5659516--5659625	38	2.8	38	83	12	116	50	0	7	42	1.30
5661585--5661637	21	2.5	21	87	0	79	20	24	18	35	1.95
5661646--5661720	20	3.7	20	73	21	75	34	21	17	26	1.95
5662547--5662605	24	2.5	24	77	0	64	25	18	22	33	1.96
5665013--5665099	20	4.4	19	85	8	120	37	24	19	18	1.94
5665073--5665168	33	2.9	34	87	3	131	44	18	21	14	1.86
5665183--5665274	33	2.7	34	91	3	150	13	22	19	44	1.85
5665384--5665420	14	2.6	14	86	0	56	48	21	0	29	1.50
5667069--5667173	20	5.2	20	88	0	120	37	20	19	22	1.95
5667073--5667173	40	2.5	40	86	0	148	36	19	19	23	1.95
5667218--5667394	20	9.5	20	74	16	139	18	18	20	42	1.89
5669194--5669260	20	3.3	20	89	0	89	43	23	16	16	1.87
5669193--5669306	40	3.2	34	73	13	88	43	22	19	14	1.86
5669631--5669696	22	3.0	22	88	0	96	21	13	39	25	1.90
5669893--5669985	20	4.7	20	95	0	168	20	20	20	38	1.93
5669982--5670048	21	3.2	21	95	0	116	38	17	25	17	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5673711--5673779	20	3.0	25	70	24	78	28	20	21	28	1.98
5673700--5673798	44	2.2	44	83	0	126	33	20	17	29	1.95
5678743--5678785	20	2.2	20	86	0	59	30	13	20	34	1.92
5686353--5686387	13	2.7	13	86	0	52	11	25	0	62	1.28
5688833--5688875	20	2.2	20	86	0	59	30	13	20	34	1.92
5702511--5703062	54	10.2	54	89	0	780	29	17	19	34	1.95
5703447--5703489	22	2.0	22	95	0	77	27	4	11	55	1.55
5709348--5709379	15	2.1	15	100	0	64	6	31	0	62	1.20
5711985--5712047	18	3.6	18	72	12	67	23	26	26	22	2.00
5712003--5712061	17	3.4	17	73	13	66	25	32	22	20	1.98
5711984--5712102	35	3.4	35	91	0	184	27	27	21	23	1.99
5712038--5712096	17	3.4	17	71	13	57	32	32	15	20	1.93
5712500--5712541	17	2.4	17	84	15	59	47	11	4	35	1.61
5714153--5715742	530	3.0	528	96	0	2905	37	6	19	36	1.78
5716737--5716817	40	2.0	40	97	2	155	35	4	29	29	1.78
5716813--5716890	39	2.0	39	95	5	140	35	10	23	30	1.88
5739084--5739134	26	2.0	26	100	0	102	41	3	31	23	1.73
5740822--5740869	20	2.4	20	78	0	51	35	35	12	16	1.87
5742771--5742813	22	2.0	22	85	0	59	34	25	23	16	1.95
5756290--5756419	64	2.0	64	100	0	260	16	26	4	51	1.64
5759628--5759664	19	2.0	19	85	15	51	45	0	0	54	1.00
5759818--5760122	101	3.0	101	84	1	416	41	6	15	36	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5760630--5760676	16	2.9	17	84	6	62	74	0	12	12	1.07
5760674--5760706	5	6.6	5	92	0	57	63	0	0	36	0.95
5762319--5762392	5	14.4	5	75	20	64	62	0	1	36	1.04
5762303--5762406	23	4.4	23	72	23	83	64	0	1	33	1.05
5762319--5762406	3	30.7	3	70	21	64	63	0	1	35	1.02
5762323--5762407	17	5.4	16	75	25	76	63	0	1	35	1.02
5762320--5762403	27	2.9	30	76	18	97	64	0	1	34	1.02
5762325--5762404	36	2.1	38	86	11	112	65	0	1	33	1.01
5762469--5762495	13	2.1	13	100	0	54	40	7	7	44	1.60
5762429--5762593	75	2.3	68	85	7	204	41	7	6	43	1.60
5762429--5762816	36	11.1	35	70	17	182	41	9	5	43	1.60
5762542--5762653	58	1.9	59	83	8	149	42	8	8	40	1.66
5762482--5762693	96	2.2	98	80	11	247	41	8	6	43	1.61
5762619--5762816	35	5.4	35	81	8	198	41	10	4	43	1.59
5762753--5762847	47	2.0	48	89	4	147	42	10	3	44	1.55
5763381--5763413	17	1.9	17	100	0	66	30	6	39	24	1.79
5763681--5763730	20	2.5	19	81	15	57	38	12	24	26	1.90
5763772--5763826	22	2.6	21	86	8	76	34	16	23	25	1.95
5764142--5764308	57	2.9	57	92	0	273	37	10	17	35	1.84
5780560--5780628	24	2.9	23	78	16	61	69	0	4	26	1.07
5780560--5780627	10	6.7	10	73	14	50	70	0	4	25	1.05
5780765--5780817	16	3.1	17	81	8	54	71	0	5	22	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5782218--5782281	8	8.1	8	94	1	112	64	0	0	35	0.94
5782224--5782330	16	6.5	16	80	11	83	64	0	0	34	1.00
5782389--5782415	13	2.1	13	100	0	54	40	7	7	44	1.60
5782326--5782514	75	2.5	75	82	11	228	42	7	5	44	1.56
5782343--5782844	110	4.6	107	73	15	348	42	9	4	43	1.59
5782343--5782843	35	13.6	37	75	12	367	42	9	4	43	1.58
5783266--5783300	16	2.1	18	89	10	56	17	8	5	68	1.35
5783737--5783775	18	2.2	18	85	0	51	10	10	0	79	0.94
5783663--5783771	49	2.3	45	75	17	105	20	10	0	68	1.23
5788101--5788159	31	1.9	30	83	16	77	28	20	13	37	1.91

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