genome.fa.s761.2.7.7.80.10.50.1000.21.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: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5609167

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  21  of  23  ( 2686 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)
5049699--5049888	81	2.3	81	89	1	292	37	12	22	27	1.90
5049780--5049992	104	2.0	104	90	0	336	38	11	22	28	1.88
5049865--5049911	23	2.0	23	100	0	94	42	6	25	25	1.78
5049869--5049935	23	3.0	22	86	2	80	38	8	23	28	1.85
5050114--5050207	46	2.0	46	91	0	152	47	11	18	22	1.80
5054678--5054726	20	2.5	20	89	0	80	44	8	22	24	1.79
5055202--5055507	81	3.8	81	93	0	495	35	13	23	27	1.92
5055563--5055694	46	2.9	46	88	2	194	46	11	18	24	1.81
5057929--5057972	13	3.4	13	78	12	54	18	11	0	70	1.16
5064643--5064684	21	2.0	21	100	0	84	38	19	9	33	1.84
5064736--5064774	20	2.0	20	94	0	69	38	15	25	20	1.92
5064721--5064765	22	2.0	22	86	8	63	37	13	26	22	1.91
5065297--5065346	22	2.3	22	76	13	59	46	2	26	26	1.64
5067009--5067273	127	2.1	127	99	0	521	32	15	27	25	1.96
5072290--5072339	22	2.3	22	76	13	59	46	2	26	26	1.64
5074881--5074933	24	2.3	23	90	6	81	16	9	0	73	1.08
5078144--5078192	19	2.6	19	81	15	66	40	6	0	53	1.26
5085121--5085184	25	2.7	23	72	9	56	46	0	1	51	1.10
5085144--5085172	13	2.1	14	93	6	51	34	0	0	65	0.93
5085117--5085193	24	3.2	25	69	12	72	46	0	1	51	1.09
5085628--5085678	25	2.0	25	100	0	102	19	3	29	47	1.68
5090848--5091154	54	5.7	54	84	1	341	33	20	16	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5090848--5091155	107	2.9	108	81	1	343	33	20	16	29	1.95
5090848--5091155	161	1.9	161	82	2	368	33	20	16	29	1.95
5091340--5091435	46	2.1	46	88	0	138	46	8	16	28	1.76
5095870--5096009	27	5.2	27	61	24	71	32	22	17	28	1.96
5095701--5096095	54	7.3	54	89	1	524	31	21	18	28	1.96
5096256--5096351	46	2.1	46	90	0	147	44	11	18	25	1.83
5097083--5097126	22	2.0	23	86	4	63	27	18	20	34	1.96
5097989--5098044	17	3.3	17	85	9	78	58	28	0	12	1.34
5104288--5104312	13	1.9	13	100	0	50	72	12	0	16	1.13
5104739--5104816	21	3.7	21	75	16	72	26	15	30	26	1.96
5109031--5109074	18	2.4	18	81	7	54	0	31	6	61	1.22
5109563--5109602	21	1.9	21	100	0	80	20	35	10	35	1.86
5116201--5116238	18	2.1	18	95	0	67	50	2	10	36	1.51
5117739--5117882	2	73.0	2	83	10	181	50	0	2	46	1.15
5118413--5118467	20	2.8	19	78	8	65	45	14	14	25	1.83
5120026--5120072	21	2.2	21	100	0	94	34	14	6	44	1.71
5124185--5124233	24	2.1	23	84	3	62	51	6	8	34	1.57
5130729--5130795	2	33.5	2	88	5	100	47	2	1	47	1.26
5133028--5133295	37	7.6	36	71	10	205	37	10	21	30	1.87
5133039--5133283	71	3.4	71	88	3	348	38	10	22	28	1.87
5133028--5133322	71	4.1	70	84	4	331	36	10	22	30	1.88
5137676--5137717	17	2.5	17	92	0	66	64	19	4	11	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5138330--5138408	7	11.4	7	78	10	74	68	2	1	27	1.10
5140493--5140541	23	2.3	23	82	10	68	55	0	2	42	1.11
5142208--5142285	24	3.2	24	85	0	93	25	41	16	16	1.89
5142470--5142605	45	3.0	45	76	2	157	30	30	21	17	1.96
5142869--5143168	36	8.3	36	75	12	229	26	41	11	20	1.87
5142872--5143174	33	8.5	33	73	16	169	25	41	12	20	1.87
5143056--5143165	39	2.8	39	86	5	125	29	41	10	18	1.84
5144912--5145280	20	18.5	20	84	5	442	34	25	18	20	1.96
5145963--5146009	24	2.0	24	87	8	69	25	14	21	38	1.92
5148489--5148781	19	16.4	19	82	14	383	47	18	19	14	1.83
5148517--5148803	52	5.4	55	89	9	347	47	17	20	15	1.83
5148810--5148911	19	5.6	19	85	12	151	14	23	17	44	1.86
5149018--5149054	14	2.6	14	91	0	65	45	21	0	32	1.52
5151013--5151069	14	3.7	14	72	20	51	45	21	21	12	1.83
5150994--5151086	33	2.8	33	95	0	168	47	20	20	11	1.81
5150957--5151091	19	7.6	19	76	16	128	45	22	19	11	1.83
5151087--5151215	19	7.3	19	75	17	125	8	17	28	45	1.77
5151087--5151178	33	2.8	33	93	3	150	7	18	28	45	1.76
5151259--5151729	92	5.1	93	97	1	894	46	18	12	22	1.82
5151259--5151729	185	2.6	185	98	0	908	46	18	12	22	1.82
5153436--5153525	14	5.7	14	74	23	81	42	23	25	8	1.83
5153428--5153542	33	3.5	33	95	0	212	45	20	24	9	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5153435--5153547	19	6.8	18	72	23	88	43	22	24	9	1.83
5153559--5153613	14	3.6	14	73	21	56	9	25	23	41	1.83
5153543--5153613	33	2.2	33	94	0	124	8	22	25	43	1.81
5153554--5153635	33	2.5	33	89	2	119	9	25	21	42	1.84
5153566--5153654	20	4.8	20	72	19	75	12	24	19	43	1.85
5153734--5153804	33	2.2	33	92	0	115	47	18	22	11	1.80
5153986--5154040	22	2.5	22	81	0	74	20	16	40	23	1.91
5154186--5154378	20	9.6	20	82	5	219	19	19	25	35	1.95
5154186--5154378	60	3.2	60	83	0	251	19	19	25	35	1.95
5154434--5154485	20	2.6	20	96	0	95	21	13	26	38	1.90
5154898--5154939	21	2.0	21	90	0	66	50	2	7	40	1.43
5159484--5159526	21	2.0	21	86	0	59	9	30	23	37	1.86
5161418--5161639	111	2.0	111	95	0	399	45	11	8	35	1.70
5161765--5161806	20	2.2	19	91	4	66	40	0	26	33	1.56
5168579--5168633	28	1.9	29	92	3	94	60	1	1	36	1.18
5168589--5168665	28	2.9	26	82	9	84	62	2	3	31	1.27
5169021--5169165	59	2.5	60	88	2	204	35	13	16	34	1.88
5172305--5172349	22	2.0	23	86	4	65	51	33	4	11	1.58
5185273--5185318	5	9.0	5	81	13	58	80	0	19	0	0.71
5185267--5185316	25	2.0	26	96	4	93	82	0	18	0	0.68
5199970--5200510	81	6.7	80	80	4	410	41	20	16	21	1.90
5200062--5200511	161	2.8	159	82	4	519	40	21	16	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5200052--5200522	81	5.8	80	81	5	459	40	20	17	21	1.91
5200646--5200671	3	8.7	3	100	0	52	34	0	0	65	0.93
5202458--5202513	23	2.8	19	73	21	60	25	19	25	30	1.98
5202745--5202788	20	2.2	20	84	8	54	59	6	11	22	1.55
5202732--5202788	21	2.7	21	83	8	62	56	5	12	26	1.57
5202765--5202800	17	2.0	19	89	10	58	47	11	13	27	1.77
5205513--5205582	33	2.1	33	86	0	95	21	30	15	32	1.94
5205938--5206013	40	1.9	40	86	0	107	22	21	32	23	1.98
5205938--5206004	20	3.3	20	93	0	107	22	17	34	25	1.96
5206069--5206112	22	2.0	22	90	0	70	29	20	25	25	1.99
5206096--5206144	15	3.1	15	75	13	53	28	20	28	22	1.98
5206128--5206213	23	3.8	23	86	4	113	27	18	24	29	1.98
5207696--5208125	77	5.6	77	81	4	419	37	9	16	36	1.81
5207708--5208110	153	2.6	153	84	3	508	36	8	17	37	1.81
5208346--5208480	60	2.3	59	85	5	184	38	10	6	44	1.65
5208765--5208880	59	2.0	58	81	10	137	35	11	5	48	1.61
5212327--5212379	21	2.5	21	93	0	88	15	18	32	33	1.92
5213554--5213660	10	10.9	9	69	22	56	76	3	5	14	1.10
5213543--5213636	37	2.5	38	87	5	129	76	5	2	15	1.06
5213673--5213740	2	34.5	2	86	8	86	54	0	2	42	1.15
5213821--5213864	2	22.0	2	100	0	88	50	0	0	50	1.00
5213669--5213836	48	3.4	48	80	10	155	59	2	4	33	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5214979--5215162	65	2.8	65	94	0	314	26	14	21	38	1.91
5215950--5216108	61	2.5	65	86	5	209	13	25	12	48	1.77
5229550--5229594	17	2.6	17	92	0	72	0	40	4	55	1.20
5238088--5238208	22	5.8	20	71	18	63	76	5	4	13	1.14
5238066--5238137	26	2.8	25	81	12	67	76	4	5	13	1.12
5238092--5238216	5	24.4	5	70	15	53	76	5	4	14	1.12
5238153--5238216	28	2.3	28	86	5	85	79	6	3	10	1.02
5238169--5238235	28	2.4	27	80	11	75	79	2	7	10	1.04
5238241--5238335	46	2.0	47	82	9	115	63	4	7	25	1.39
5238374--5238408	12	2.9	12	91	8	54	77	5	2	14	1.07

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23