genome.fa.s9643.2.7.7.80.10.50.1000.24.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  24  of  41  ( 4862 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)
5045657--5045838	99	1.8	99	82	4	233	42	9	12	36	1.74
5046298--5046340	20	2.2	20	86	0	59	30	13	23	32	1.93
5048252--5048444	100	1.9	100	91	2	316	31	12	12	43	1.80
5048362--5048596	76	3.1	76	88	1	346	31	15	9	42	1.79
5049726--5049770	23	2.0	23	82	8	56	28	2	2	66	1.15
5052426--5052466	19	2.2	19	90	0	64	48	2	12	36	1.54
5053924--5053992	36	1.9	36	90	0	111	27	28	14	28	1.95
5055997--5056034	20	1.9	20	88	0	58	15	7	50	26	1.72
5056023--5056060	20	1.9	20	88	0	58	15	10	50	23	1.75
5056079--5056148	30	2.3	30	95	0	122	15	22	38	22	1.92
5056230--5056257	14	2.0	14	100	0	56	21	14	35	28	1.92
5056244--5056334	44	2.1	44	95	0	164	18	24	27	29	1.98
5056244--5056316	23	3.3	23	70	14	80	17	26	28	27	1.98
5056259--5056330	21	3.3	21	70	21	58	16	26	26	30	1.97
5056704--5056747	21	2.1	21	91	0	70	29	0	15	54	1.42
5056724--5056786	28	2.2	30	91	5	103	31	0	11	57	1.34
5056914--5057061	33	4.5	33	80	18	191	31	0	10	56	1.38
5056917--5057064	38	4.3	37	74	21	160	32	0	10	56	1.39
5056926--5057043	8	15.4	8	67	24	51	29	0	12	56	1.42
5056954--5057060	28	3.5	30	81	13	128	31	0	11	56	1.41
5056914--5057085	71	2.4	71	83	9	174	34	0	10	54	1.39
5056913--5057124	38	5.7	38	69	20	144	33	1	9	55	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5057335--5057378	21	2.1	21	91	0	70	29	0	15	54	1.42
5057355--5057417	28	2.2	30	91	5	103	31	0	11	57	1.34
5057923--5057967	21	2.2	21	84	4	56	35	0	8	55	1.31
5058228--5058286	26	2.3	25	75	18	66	47	8	3	40	1.51
5061181--5061434	26	10.2	26	77	11	226	43	2	8	45	1.47
5061123--5061374	124	2.0	124	97	1	479	44	2	9	44	1.49
5061181--5061418	35	6.4	37	71	13	80	43	2	8	45	1.47
5061181--5061434	14	19.1	14	72	17	125	43	2	8	45	1.47
5061387--5061460	38	1.9	38	83	5	96	45	4	5	44	1.45
5061643--5061675	17	1.9	17	93	0	57	36	6	12	45	1.66
5061589--5061668	24	3.3	23	71	21	67	38	3	8	48	1.52
5063825--5063855	15	2.1	14	94	5	53	54	6	0	38	1.26
5063830--5063876	16	3.0	16	84	9	53	59	10	0	29	1.31
5064038--5064170	45	3.0	45	80	14	136	48	12	0	39	1.40
5064110--5064198	41	2.2	40	78	8	90	46	10	1	42	1.45
5064727--5064831	29	3.6	29	90	0	156	21	30	30	17	1.96
5064838--5064899	20	3.0	20	80	2	70	14	22	27	35	1.93
5064864--5064910	21	2.2	21	96	0	85	17	29	23	29	1.97
5064838--5064877	9	4.2	9	81	12	53	12	17	32	37	1.87
5072248--5072293	23	1.9	25	86	8	69	21	19	13	45	1.84
5080401--5080463	27	2.3	27	100	0	126	30	20	22	26	1.98
5080401--5080485	27	3.1	27	88	6	93	30	24	22	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5082958--5082998	2	21.0	2	95	5	75	51	0	0	48	1.00
5090262--5090347	34	2.6	31	74	16	84	73	2	5	18	1.15
5090286--5090341	17	3.2	17	84	5	67	78	0	7	14	0.95
5090366--5090404	9	4.1	9	81	12	51	84	0	5	10	0.76
5090486--5090516	11	2.7	12	90	10	55	77	0	12	9	0.99
5092042--5092462	36	12.1	36	75	13	357	40	13	19	25	1.89
5092045--5092461	102	4.0	100	73	15	300	41	13	19	25	1.89
5092042--5092462	174	2.4	173	89	2	632	40	13	19	25	1.89
5092211--5092370	73	2.2	71	84	6	205	42	11	20	25	1.86
5093865--5093918	17	3.3	16	79	10	56	22	33	27	16	1.95
5096179--5096251	26	2.6	29	76	17	80	72	0	10	16	1.11
5096156--5096249	26	3.2	29	76	18	72	71	1	10	17	1.20
5096229--5096273	20	2.1	22	88	12	67	73	0	11	15	1.10
5097370--5097414	13	3.4	13	93	3	72	57	8	0	33	1.30
5097361--5097414	27	2.0	27	82	7	65	61	9	0	29	1.27
5097377--5097417	14	3.0	14	92	3	66	53	7	0	39	1.29
5097279--5097905	307	2.0	310	92	4	1057	38	9	10	41	1.72
5108663--5109441	111	7.0	111	90	2	1113	30	16	22	30	1.96
5108663--5109441	220	3.5	220	90	1	1114	30	16	22	30	1.96
5108663--5109441	331	2.3	330	88	2	1132	30	16	22	30	1.96
5110556--5110607	17	3.2	16	84	12	63	7	11	1	78	1.02
5114126--5114168	21	1.9	24	86	13	65	67	2	4	25	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5114142--5114178	17	2.2	18	86	13	53	75	0	0	24	0.80
5117777--5117806	11	2.7	11	89	0	51	46	10	20	23	1.80
5128855--5128899	21	2.1	21	84	8	56	66	4	2	26	1.22
5133998--5134035	16	2.4	16	95	0	67	50	18	7	23	1.73
5134294--5134326	12	2.8	12	100	0	66	57	15	0	27	1.38
5146244--5146616	129	2.9	127	78	11	395	42	10	11	35	1.77
5146472--5146534	29	2.1	29	88	2	90	50	7	9	31	1.64
5148320--5148387	28	2.4	28	97	0	127	16	17	27	38	1.91
5148370--5148421	18	2.9	18	94	0	86	17	19	34	28	1.94
5151650--5151680	14	2.1	15	94	5	55	70	9	0	19	1.14
5152131--5152164	17	2.1	16	88	5	50	76	0	8	14	1.01
5153090--5153115	9	2.9	9	100	0	52	23	53	0	23	1.46
5153671--5153704	18	1.9	17	88	5	50	64	5	0	29	1.17
5161691--5161721	14	2.1	15	94	5	55	70	9	0	19	1.14
5161981--5162014	18	1.9	17	88	5	50	64	5	0	29	1.17
5167157--5167184	2	14.0	2	100	0	56	50	0	0	50	1.00
5167359--5167392	6	5.7	6	100	0	68	35	0	14	50	1.44
5169030--5169152	64	1.9	64	86	0	174	32	23	19	24	1.97
5169032--5169193	64	2.5	64	80	2	164	32	23	19	25	1.98
5169833--5169893	23	2.7	23	89	0	95	18	22	27	31	1.97
5173121--5173176	18	3.1	18	89	0	76	26	21	23	28	1.99
5173127--5173189	18	3.5	18	88	0	81	30	22	20	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5173624--5173764	65	2.2	65	89	2	212	29	24	17	29	1.97
5176148--5176365	103	2.1	103	94	0	382	25	13	23	37	1.92
5176372--5176449	23	3.3	23	80	1	84	23	20	24	32	1.98
5179464--5179517	23	2.3	23	83	0	72	24	16	20	38	1.92
5198000--5198038	20	2.0	20	100	0	78	35	20	15	28	1.93
5199615--5199652	16	2.5	16	83	8	53	18	0	23	57	1.40
5204095--5204151	4	14.2	4	96	0	105	26	1	24	47	1.62
5209069--5209109	20	2.1	19	95	4	73	19	4	4	70	1.24
5213316--5213357	21	2.0	21	85	0	57	50	0	0	50	1.00
5213742--5213773	16	2.0	16	100	0	64	18	37	6	37	1.76
5217777--5217810	18	1.9	18	94	5	61	70	5	5	17	1.28
5218791--5218866	35	2.2	33	82	11	91	2	25	1	71	1.07
5219451--5219490	3	12.7	3	84	10	53	62	0	2	35	1.09
5219451--5219488	10	3.9	10	89	3	60	60	0	2	36	1.11
5219451--5219490	13	3.2	12	82	10	53	62	0	2	35	1.09
5219649--5219764	43	2.8	40	77	7	126	26	17	31	24	1.97
5219688--5219990	135	2.3	133	84	7	368	26	17	28	28	1.98
5230767--5230806	5	8.2	5	91	5	64	82	17	0	0	0.67
5232778--5232811	18	1.9	18	94	5	61	70	5	5	17	1.28
5233794--5233869	35	2.2	33	80	11	82	3	23	1	71	1.11
5234447--5234477	16	1.9	16	93	0	53	67	0	0	32	0.91
5237859--5237888	14	2.1	15	93	6	53	43	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5246529--5246595	24	2.8	24	79	2	73	26	16	14	41	1.87
5246779--5246817	2	19.5	2	100	0	78	48	0	0	51	1.00
5247652--5247712	24	2.6	22	80	16	70	42	0	4	52	1.23
5257510--5257541	2	16.0	2	100	0	64	50	0	0	50	1.00
5257712--5257745	12	2.8	12	100	0	68	5	26	26	41	1.78
5257802--5257848	19	2.5	19	100	0	94	19	21	19	40	1.92
5257932--5257956	6	4.2	6	100	0	50	32	52	16	0	1.44
5258818--5258850	6	5.5	6	100	0	66	0	15	51	33	1.43
5258980--5259094	20	5.7	20	74	4	113	36	23	20	20	1.95
5258978--5259116	41	3.4	41	95	0	251	35	24	18	20	1.95

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