genome.fa.s8539.2.7.7.80.10.50.1000.27.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   

This is table  27  of  31  ( 3630 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)
5170251--5170314	26	2.4	26	84	7	76	53	1	10	34	1.46
5173273--5173305	18	1.9	17	88	11	50	45	0	6	48	1.27
5173515--5173566	14	3.6	14	80	10	50	7	17	23	51	1.70
5173535--5173586	24	2.2	24	85	0	68	13	11	17	57	1.64
5174483--5174545	16	4.1	16	87	4	85	9	11	22	57	1.62
5174483--5174545	31	2.0	31	84	6	83	9	11	22	57	1.62
5177484--5177510	14	1.9	14	100	0	54	66	0	0	33	0.92
5177505--5177542	19	2.1	19	95	5	69	68	5	15	10	1.36
5177505--5177548	19	2.5	17	79	13	54	68	4	13	13	1.36
5177520--5177581	29	2.1	30	96	3	117	74	3	9	12	1.19
5177505--5177576	18	4.4	18	70	25	70	70	4	12	12	1.29
5177612--5177671	19	3.0	20	80	7	68	76	5	3	15	1.08
5178797--5178856	9	6.9	9	81	14	72	70	0	0	30	0.88
5178797--5178855	3	19.3	3	77	16	59	71	0	0	28	0.87
5178783--5178856	19	4.1	19	80	16	86	68	1	1	28	1.05
5178803--5178853	15	3.3	15	83	5	66	72	0	0	27	0.85
5178869--5179140	37	7.3	38	80	14	277	43	8	2	45	1.48
5178853--5179067	65	3.1	65	77	18	204	41	7	2	47	1.46
5178968--5179022	28	2.0	28	100	0	110	43	7	3	45	1.49
5178893--5179102	104	2.0	104	90	3	334	42	8	3	45	1.50
5178970--5179033	28	2.4	27	92	5	103	43	7	4	43	1.54
5178932--5179072	65	2.1	66	96	2	257	42	7	3	46	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5179010--5179140	39	3.2	43	82	15	145	45	7	3	44	1.48
5179962--5180167	85	2.4	85	87	4	274	24	17	20	37	1.94
5183882--5183915	17	2.1	16	88	5	50	14	8	0	76	1.01
5190265--5190307	20	2.1	21	87	8	63	18	13	0	67	1.23
5194136--5194169	17	2.1	16	88	5	50	14	8	0	76	1.01
5197664--5197706	22	2.0	22	90	9	70	72	4	13	9	1.26
5197686--5197771	44	1.9	43	83	9	102	68	2	5	23	1.23
5198954--5199018	33	2.0	33	87	6	96	69	1	1	27	1.07
5198966--5199026	18	3.0	21	79	18	67	67	1	1	29	1.10
5198980--5199032	22	2.3	23	81	12	65	66	0	0	33	0.92
5199029--5199255	36	6.5	35	81	12	197	46	8	0	44	1.39
5199085--5199141	30	1.9	30	100	0	114	45	7	1	45	1.40
5199177--5199234	13	4.7	13	70	8	50	50	8	0	41	1.33
5207976--5208006	16	1.9	16	93	0	53	19	16	19	45	1.86
5216638--5216938	117	2.6	116	85	4	381	45	16	15	22	1.85
5216981--5217056	29	2.6	29	87	4	100	50	5	15	28	1.66
5217388--5217419	16	2.0	16	100	0	64	12	25	6	56	1.59
5218670--5218728	28	2.1	28	87	0	82	59	10	11	18	1.60
5219606--5219669	31	2.1	31	90	0	101	32	18	12	35	1.89
5221623--5221664	2	21.0	2	100	0	84	50	0	0	50	1.00
5224339--5224389	25	2.0	25	100	0	102	35	25	7	31	1.85
5232485--5232522	14	2.7	14	95	0	67	42	23	18	15	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5237412--5237440	2	14.5	2	100	0	58	51	0	0	48	1.00
5237598--5237632	13	2.7	13	90	0	52	37	17	17	28	1.92
5241905--5242635	219	3.3	219	92	1	1209	37	16	20	25	1.93
5244030--5244070	8	5.0	9	80	19	54	48	0	0	51	1.00
5244031--5244070	16	2.5	16	100	0	80	50	0	0	50	1.00
5247940--5248244	155	2.0	155	98	0	583	37	12	19	31	1.88
5255948--5256031	28	3.0	27	75	5	62	30	5	1	61	1.27
5255960--5256027	28	2.5	27	83	4	75	32	4	1	61	1.24
5259315--5259346	15	2.1	15	94	0	55	25	18	9	46	1.79
5261260--5261293	13	2.6	13	100	0	68	64	11	23	0	1.26
5268241--5268650	113	3.6	113	92	1	680	40	15	17	27	1.89
5268723--5268780	20	3.0	20	70	12	57	51	8	18	20	1.72
5269018--5269065	23	2.1	23	84	7	62	29	0	0	70	0.87
5275547--5275669	33	3.8	33	83	6	148	43	1	6	48	1.38
5282610--5282694	33	2.5	34	81	7	102	58	3	11	25	1.49
5288127--5288165	18	2.2	18	85	0	51	7	25	30	35	1.84
5295758--5295782	13	1.9	13	100	0	50	40	8	8	44	1.63
5295980--5296037	20	2.6	23	84	10	77	25	22	20	31	1.98
5296092--5296128	19	1.9	19	100	0	74	24	32	10	32	1.90
5297445--5297523	20	4.1	19	80	4	95	18	37	26	16	1.92
5297445--5297523	39	2.0	39	90	0	122	18	37	26	16	1.92
5297621--5297675	20	2.7	20	91	2	83	36	43	7	12	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5297856--5297895	21	1.9	21	94	0	71	20	7	7	65	1.43
5300969--5301026	20	2.7	20	81	10	62	25	24	20	29	1.99
5302025--5302218	65	3.0	65	81	5	241	41	13	17	27	1.87
5302162--5302207	21	2.2	20	84	3	56	54	13	10	21	1.69
5302468--5302596	37	3.5	37	75	5	109	47	12	15	24	1.80
5306416--5306454	15	2.6	15	79	0	51	69	5	2	23	1.21
5306542--5306622	33	2.4	34	86	11	107	56	4	12	25	1.56
5310247--5310351	37	2.8	37	82	0	129	40	15	12	32	1.84
5310776--5310900	30	4.1	29	73	17	101	24	5	1	68	1.21
5310806--5310851	23	2.0	23	87	8	67	26	4	2	67	1.21
5310880--5310905	13	2.0	13	100	0	52	23	7	0	69	1.14
5311051--5311116	17	4.1	16	77	16	66	25	1	0	72	0.93
5311066--5311107	13	3.2	14	87	12	63	26	0	0	73	0.83
5311054--5311107	13	4.4	13	78	19	62	25	0	0	74	0.83
5311053--5311105	26	2.1	26	86	6	74	24	0	0	75	0.80
5311201--5311244	19	2.4	19	82	14	56	18	9	0	72	1.10
5312409--5312445	19	1.9	19	89	10	58	8	24	0	67	1.17
5317485--5318654	106	11.0	106	93	0	1851	33	25	18	22	1.97
5319403--5319507	37	2.8	37	85	0	138	40	15	13	31	1.85
5319922--5319969	23	2.0	24	84	11	64	27	2	0	70	0.98
5320048--5320073	13	2.0	13	100	0	52	23	7	0	69	1.14
5320134--5320217	33	2.7	29	73	19	73	29	2	2	65	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5320158--5320263	18	6.1	17	76	20	78	28	3	0	67	1.07
5320177--5320263	8	9.8	8	73	24	52	28	3	0	67	1.06
5320223--5320260	15	2.3	16	86	13	51	23	0	0	76	0.79
5320173--5320279	13	7.6	14	66	24	57	28	3	0	67	1.08
5323982--5324046	21	3.1	21	93	0	103	41	10	30	16	1.83
5324080--5324143	33	1.9	33	93	0	110	31	0	45	23	1.53
5324332--5324416	33	2.7	33	89	8	124	50	0	45	3	1.18
5325370--5325398	4	7.2	4	100	0	58	24	0	27	48	1.51
5325796--5326513	184	3.9	184	95	0	1294	36	13	16	33	1.87
5330026--5330192	87	1.9	86	88	1	253	35	11	9	43	1.73
5330110--5330154	23	2.0	23	90	0	72	37	13	8	40	1.76
5333423--5333459	16	2.4	16	95	4	67	43	5	0	51	1.24
5333432--5333487	19	3.2	18	85	9	71	51	5	1	41	1.35
5339569--5339605	19	1.9	19	88	0	56	29	29	18	21	1.97
5339679--5339787	21	5.3	21	72	4	78	36	21	18	23	1.95
5339691--5339785	41	2.3	41	87	3	138	37	23	17	21	1.94
5339919--5339971	22	2.5	21	81	3	70	20	43	16	18	1.88
5340205--5340257	21	2.5	22	81	3	72	20	41	18	18	1.91
5340641--5340789	40	3.9	39	72	12	139	15	16	22	45	1.85
5340656--5340789	20	7.1	20	79	10	120	14	16	21	47	1.83
5342710--5342775	20	3.3	20	91	0	105	34	25	22	16	1.95
5342767--5342840	33	2.2	34	90	2	114	47	18	20	13	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5342780--5342842	20	3.5	19	75	22	73	49	17	19	14	1.80
5342847--5342884	19	2.0	20	89	5	60	13	15	21	50	1.78
5343451--5343512	21	2.9	22	73	9	65	20	40	16	22	1.91
5343449--5343542	42	2.2	42	85	7	120	23	36	18	22	1.95
5344771--5344896	36	3.4	35	71	14	108	27	2	15	53	1.54
5344815--5344851	14	2.6	14	100	0	74	29	0	21	48	1.50
5344752--5344918	77	2.1	78	92	4	273	29	1	17	51	1.55
5344971--5345047	20	3.9	20	81	8	86	42	25	18	12	1.86
5344987--5345047	20	3.0	20	92	0	104	45	22	19	11	1.82
5345086--5345330	20	12.9	20	80	10	262	26	18	21	33	1.96

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