genome.fa.s8094.2.7.7.80.10.50.1000.26.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: VEPZ01008094.1 Hibiscus syriacus cultivar Beakdansim tig00110610_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9952466

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   

This is table  26  of  43  ( 5090 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)
5284715--5284780	3	22.3	3	87	3	98	36	0	0	63	0.95
5284704--5284768	21	3.2	21	79	18	84	35	0	0	64	0.94
5289331--5289484	84	1.8	84	81	5	195	18	16	8	56	1.65
5293554--5293640	39	2.2	40	87	2	122	33	14	26	25	1.95
5293569--5293649	40	2.1	39	80	2	90	37	17	23	22	1.94
5293627--5294028	75	5.4	75	89	0	563	30	14	24	31	1.95
5293624--5294028	225	1.8	225	91	0	666	30	14	24	30	1.95
5295315--5295372	22	2.6	22	91	0	89	32	15	12	39	1.84
5296113--5296171	21	2.8	21	72	15	59	35	25	22	16	1.95
5296033--5296249	116	1.9	116	92	0	362	29	21	20	29	1.98
5296155--5296327	74	2.3	74	93	2	285	27	19	20	33	1.96
5296288--5296854	89	6.4	89	93	0	933	30	16	17	35	1.93
5296746--5297033	131	2.2	130	92	2	481	31	18	18	31	1.95
5297167--5297242	3	25.7	3	83	2	100	38	0	0	61	0.96
5297185--5297261	26	3.2	26	75	21	76	42	0	0	57	0.99
5297167--5297261	12	8.1	12	82	10	99	41	0	0	58	0.98
5298371--5298413	22	2.0	22	100	0	86	25	18	9	46	1.79
5300057--5300483	142	3.0	142	99	0	845	40	10	17	31	1.84
5312739--5312783	22	2.0	22	83	8	56	51	2	6	40	1.41
5320683--5320727	18	2.6	16	86	13	54	37	2	0	60	1.09
5320844--5320883	3	13.3	3	100	0	80	32	0	0	67	0.91
5322430--5322570	72	2.0	71	90	4	221	55	10	15	18	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5350624--5350661	20	1.9	20	100	0	76	31	31	15	21	1.94
5356516--5356608	23	4.3	21	78	9	91	29	26	20	23	1.99
5356533--5356613	23	3.7	23	80	8	105	27	25	23	23	2.00
5356516--5356608	44	2.2	42	86	7	125	29	26	20	23	1.99
5356532--5356631	43	2.3	42	80	8	112	28	26	24	22	1.99
5364397--5364428	16	2.0	16	93	0	55	31	15	6	46	1.71
5370169--5370201	17	2.0	17	88	5	50	63	21	6	9	1.45
5371383--5371420	20	1.9	20	88	0	58	36	31	10	21	1.87
5371443--5371537	46	2.1	47	84	7	124	30	24	16	28	1.97
5375790--5375857	21	3.2	22	74	16	63	66	0	1	32	1.01
5375849--5375909	28	2.1	28	85	8	79	75	3	6	14	1.13
5375849--5375906	29	2.0	28	83	12	73	75	3	6	13	1.13
5377529--5377623	35	2.9	33	83	11	124	29	11	20	38	1.87
5377577--5377797	65	3.2	65	79	11	176	38	13	19	29	1.89
5377676--5378171	36	14.1	36	74	14	405	39	14	19	26	1.90
5377644--5377987	175	2.0	172	87	6	498	38	14	19	27	1.90
5377709--5378171	65	6.6	68	74	13	331	39	14	19	26	1.90
5377709--5377966	139	1.9	136	86	2	372	38	14	19	27	1.90
5377905--5377969	21	3.4	21	64	24	61	44	12	18	24	1.84
5377676--5378171	210	2.4	210	87	5	700	39	14	19	26	1.90
5378058--5378172	34	3.2	36	79	8	128	38	13	20	28	1.89
5379392--5379652	95	2.7	95	84	4	301	32	16	17	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5383581--5383644	11	5.8	11	74	5	58	71	3	1	23	1.08
5383598--5383680	7	11.0	7	73	19	53	75	3	2	18	1.05
5397065--5397118	21	2.6	21	90	0	81	33	16	18	31	1.93
5397069--5397124	21	2.7	20	83	5	58	33	17	16	32	1.92
5399735--5399807	25	3.0	25	80	13	89	42	4	1	52	1.29
5399736--5399818	24	3.1	26	76	16	80	43	3	1	51	1.26
5399748--5399824	25	3.0	26	81	12	81	41	3	1	53	1.27
5399964--5400038	31	2.4	31	90	0	114	46	13	10	29	1.76
5403713--5403867	31	5.0	31	95	0	274	23	9	18	48	1.77
5404262--5404306	3	15.0	3	81	9	56	31	2	0	66	1.04
5406882--5406916	18	1.9	18	100	0	70	45	0	0	54	0.99
5420188--5420232	19	2.5	17	80	13	54	22	20	28	28	1.98
5420194--5420238	19	2.4	19	96	0	81	20	20	31	28	1.97
5420229--5420391	65	2.5	65	82	1	202	30	14	22	32	1.94
5423024--5423111	23	3.8	23	69	18	67	29	21	22	26	1.99
5423023--5423124	44	2.3	43	79	11	109	28	21	23	26	1.99
5423604--5423643	20	2.0	20	100	0	80	40	30	10	20	1.85
5428748--5428928	65	2.8	65	83	2	231	29	16	23	30	1.96
5430906--5430946	16	2.5	17	80	11	50	39	0	0	60	0.96
5432113--5432169	23	2.4	23	94	2	96	10	19	14	56	1.67
5438681--5438750	34	2.1	32	86	5	95	22	30	15	31	1.95
5439033--5439074	21	2.0	21	95	0	75	26	28	21	23	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5439273--5439363	31	3.0	31	96	3	168	42	17	6	32	1.75
5439522--5439595	24	3.0	24	94	3	130	33	2	8	55	1.44
5442211--5442280	34	2.1	32	86	5	95	22	30	15	31	1.95
5442563--5442604	21	2.0	21	95	0	75	26	28	21	23	1.99
5442710--5442765	19	2.9	19	97	0	103	35	10	12	41	1.78
5442841--5442931	31	3.0	31	96	3	168	42	17	6	32	1.75
5449383--5449463	35	2.3	36	91	2	128	44	27	0	28	1.55
5449396--5449479	36	2.4	35	83	2	105	44	32	1	22	1.61
5450409--5450505	35	2.7	34	81	7	104	27	1	24	46	1.59
5450425--5450505	35	2.3	36	89	2	119	30	0	22	46	1.52
5474373--5474413	22	1.9	21	85	14	57	48	14	4	31	1.65
5482437--5482609	84	2.1	84	93	2	294	47	5	12	34	1.64
5483858--5483894	19	1.9	19	94	0	65	29	13	10	45	1.77
5486425--5486497	21	3.5	21	88	0	101	26	20	13	39	1.90
5487736--5487908	84	2.1	84	91	2	276	49	6	11	32	1.66
5487874--5487928	22	2.6	21	77	8	58	47	3	12	36	1.59
5489139--5489190	19	2.6	20	72	6	52	36	19	7	36	1.80
5490293--5490329	14	2.4	16	78	21	51	67	18	13	0	1.23
5490299--5490329	14	2.2	14	100	0	62	67	19	12	0	1.22
5491262--5491313	19	2.6	20	72	6	52	36	19	7	36	1.80
5492406--5492442	14	2.4	16	78	21	51	67	18	13	0	1.23
5492412--5492442	14	2.2	14	100	0	62	67	19	12	0	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5494650--5494821	83	2.1	84	90	3	267	49	4	13	32	1.62
5495344--5495398	26	2.0	28	80	13	62	25	1	12	60	1.43
5497417--5497460	19	2.3	19	84	7	54	65	4	4	25	1.30
5497310--5497481	84	2.1	83	91	3	274	49	5	11	33	1.62
5497447--5497501	22	2.6	21	77	8	58	47	3	12	36	1.59
5498712--5498763	19	2.6	20	72	6	52	36	19	7	36	1.80
5501584--5501756	84	2.1	84	91	0	274	49	5	12	32	1.65
5502280--5502334	26	2.0	28	80	13	62	25	1	12	60	1.43
5504246--5504417	83	2.1	84	90	5	269	50	5	11	32	1.63
5504382--5504437	22	2.7	20	71	13	51	48	3	12	35	1.58
5505648--5505699	19	2.6	20	72	6	52	36	19	7	36	1.80
5506811--5506868	9	6.0	9	76	13	53	27	31	25	15	1.96
5506808--5506845	19	2.0	19	94	0	67	26	26	28	18	1.98
5506813--5506868	19	2.8	19	89	5	76	28	32	23	16	1.96
5506864--5506921	21	2.8	21	89	2	82	41	25	20	12	1.87
5515640--5515676	14	2.4	16	78	21	51	67	18	13	0	1.23
5515646--5515676	14	2.2	14	100	0	62	67	19	12	0	1.22
5519210--5519263	27	2.0	27	82	10	67	27	1	14	55	1.50
5521192--5521360	83	2.1	81	87	6	243	47	6	12	33	1.67
5528101--5528151	23	2.2	23	82	0	57	19	35	23	21	1.96
5528110--5528155	23	2.0	23	91	0	74	23	28	26	21	1.99
5543072--5543105	16	2.1	17	88	5	52	23	0	26	50	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5547014--5547046	8	4.1	8	92	0	57	45	15	27	12	1.81
5554046--5554076	16	1.9	16	100	0	62	19	19	9	51	1.74
5556365--5556479	24	4.8	24	86	8	153	25	16	20	38	1.93
5556710--5556746	2	18.5	2	100	0	74	0	0	48	51	1.00
5559665--5559691	2	13.5	2	100	0	54	51	0	0	48	1.00
5560959--5561122	59	2.8	60	79	6	165	37	8	20	33	1.83
5571265--5571418	64	2.4	65	85	5	197	28	21	20	29	1.98
5571485--5571529	21	2.1	21	95	0	81	20	24	24	31	1.98
5572506--5572840	169	2.0	168	98	0	643	19	19	21	39	1.92
5582671--5582721	18	2.9	17	91	5	75	78	1	1	17	0.94

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   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43