genome.fa.s8716.2.7.7.80.10.50.1000.22.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: VEPZ01008716.1 Hibiscus syriacus cultivar Beakdansim tig00111769_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5677467

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   

This is table  22  of  24  ( 2813 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)
5226671--5226749	20	3.9	21	85	5	85	12	18	16	51	1.75
5227307--5227480	20	8.6	20	77	6	188	18	18	24	37	1.93
5227309--5227541	41	5.7	41	83	6	269	18	18	24	38	1.93
5227309--5227541	81	2.9	82	84	3	285	18	18	24	38	1.93
5227489--5227541	20	2.7	20	91	5	81	13	18	24	43	1.86
5227509--5227626	21	5.7	21	74	13	84	20	21	18	39	1.92
5227570--5227626	21	2.8	21	91	2	89	19	22	14	43	1.86
5229202--5229275	32	2.3	32	100	0	148	32	22	16	28	1.96
5230011--5230071	31	2.0	31	86	0	86	52	9	16	21	1.72
5233604--5233739	2	68.0	2	95	0	245	50	2	0	47	1.13
5234427--5234485	2	29.5	2	100	0	118	50	0	0	49	1.00
5242101--5242126	2	13.0	2	100	0	52	50	0	0	50	1.00
5242384--5242447	2	32.5	2	96	3	121	50	0	0	50	1.00
5242728--5242778	21	2.4	21	83	9	59	35	3	3	56	1.36
5254874--5254908	18	2.0	18	94	5	63	51	0	0	48	1.00
5255835--5255881	20	2.4	19	89	10	76	55	10	17	17	1.69
5256002--5256047	20	2.4	18	79	13	56	54	8	17	19	1.68
5258323--5258388	33	2.0	33	87	0	96	28	1	45	24	1.62
5260174--5260235	19	3.4	19	91	6	101	32	3	9	54	1.49
5260317--5261922	197	8.1	199	95	2	2861	36	14	15	33	1.88
5260317--5261922	397	4.1	398	97	1	3012	36	14	15	33	1.88
5263381--5263460	6	13.3	6	83	0	70	40	5	33	21	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5263396--5263464	9	7.7	9	85	0	84	39	2	33	24	1.70
5263396--5263464	15	4.6	15	88	0	93	39	2	33	24	1.70
5263381--5263464	12	7.0	12	84	0	87	39	4	33	22	1.75
5263381--5263460	18	4.4	18	83	0	88	40	5	33	21	1.75
5264824--5265306	182	2.7	181	97	1	896	34	14	15	34	1.89
5267857--5267919	23	2.7	23	90	0	90	36	6	19	38	1.77
5267857--5267929	23	3.2	23	86	3	85	35	5	19	39	1.75
5268278--5268340	23	2.7	23	90	0	90	36	6	19	38	1.77
5268278--5268350	23	3.2	23	86	3	85	35	5	19	39	1.75
5268707--5268771	23	2.8	23	90	0	94	35	7	18	38	1.80
5268975--5269011	18	2.1	18	89	0	56	32	5	10	51	1.60
5271270--5271300	15	2.1	15	93	0	53	54	0	0	45	0.99
5275408--5275439	16	2.1	16	94	5	57	9	12	18	59	1.59
5283875--5283927	21	2.6	20	79	5	61	26	32	26	15	1.95
5283875--5283913	20	1.9	20	89	5	60	20	38	25	15	1.92
5288886--5288950	33	2.0	33	87	0	94	32	13	7	46	1.72
5290575--5291074	137	3.6	136	84	4	619	44	12	14	28	1.81
5293055--5293134	15	5.4	15	84	3	108	38	6	18	36	1.76
5293048--5293133	45	1.9	44	90	2	136	41	4	18	34	1.71
5293055--5293134	30	2.7	30	90	1	126	38	6	18	36	1.76
5293117--5293206	20	4.5	20	92	0	153	41	7	14	36	1.75
5293361--5293464	29	3.5	29	79	19	101	52	1	0	44	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5293449--5293506	17	3.8	16	68	22	52	48	0	1	50	1.11
5293476--5293515	16	2.6	16	84	4	55	55	0	0	45	0.99
5293417--5293522	23	4.2	26	71	20	82	50	0	0	47	1.13
5293490--5293538	22	2.2	22	82	7	55	51	0	0	48	1.00
5293716--5293835	42	2.9	42	98	0	231	44	19	20	15	1.87
5299706--5299777	15	4.9	15	86	1	101	36	6	20	36	1.80
5299706--5299785	30	2.7	30	88	1	117	37	6	20	36	1.78
5299999--5300052	28	2.0	26	89	10	81	50	1	1	46	1.23
5300029--5300067	19	2.0	20	85	5	53	51	0	2	46	1.14
5299997--5300157	29	5.6	28	69	22	86	51	1	1	45	1.20
5300010--5300095	26	3.2	26	74	18	79	52	2	1	44	1.21
5300086--5300156	32	2.1	32	87	12	99	53	0	1	45	1.09
5300111--5300172	21	2.9	21	83	9	72	54	0	0	45	0.99
5300110--5300155	10	4.5	10	78	21	51	58	0	0	41	0.98
5300118--5300182	21	3.0	21	84	8	69	50	0	0	49	1.00
5300353--5300472	42	2.9	42	96	0	213	44	18	20	17	1.87
5301286--5301310	13	1.9	13	100	0	50	64	16	0	20	1.30
5301294--5301967	138	4.9	137	79	4	676	45	12	12	29	1.79
5301294--5301967	276	2.4	274	82	4	764	45	12	12	29	1.79
5304330--5304364	13	2.8	13	91	4	54	57	0	0	42	0.99
5305185--5305264	21	3.9	21	93	3	119	21	23	36	18	1.95
5307019--5307134	17	7.1	18	65	23	51	61	4	0	34	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5307047--5307116	18	4.0	18	75	14	58	62	2	0	34	1.10
5307080--5307129	18	3.1	16	78	18	50	66	6	0	28	1.15
5312482--5312512	15	2.1	15	93	0	53	32	16	22	29	1.95
5312961--5313001	21	2.0	21	90	9	66	31	9	14	43	1.78
5313140--5313257	45	2.6	45	77	10	114	42	7	17	32	1.78
5313181--5313284	45	2.3	45	80	6	113	35	6	22	35	1.80
5313653--5313710	6	9.7	6	75	0	53	41	1	20	36	1.63
5313653--5313730	18	4.2	18	76	12	68	39	2	23	34	1.68
5313733--5313814	2	41.0	2	100	0	164	50	0	0	50	1.00
5315779--5315814	19	1.9	18	88	5	54	13	11	22	52	1.72
5318289--5318548	2	133.0	2	66	20	115	48	2	3	45	1.33
5318543--5318612	36	1.9	37	88	2	106	42	8	4	44	1.54
5318643--5318708	30	2.2	30	84	10	82	45	4	6	43	1.49
5318682--5318791	41	2.6	41	76	12	116	52	7	3	36	1.47
5318749--5318791	9	4.7	9	78	16	52	55	6	0	37	1.27
5318719--5318813	20	4.6	21	73	10	70	48	6	3	42	1.44
5318795--5318884	17	5.2	17	75	17	51	46	2	5	45	1.38
5318768--5318884	26	4.5	26	76	11	107	47	2	5	45	1.38
5319785--5319904	31	3.9	28	71	19	80	14	0	6	78	0.99
5319788--5319894	38	2.9	34	76	15	106	14	0	7	77	0.97
5319815--5319879	30	2.2	30	83	5	80	16	0	6	76	0.97
5319840--5319895	12	4.4	12	76	12	58	16	0	3	80	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5319844--5319895	20	2.7	19	82	5	68	17	0	3	78	0.89
5319833--5319904	19	3.8	18	76	8	63	13	1	4	80	0.92
5319785--5319904	9	14.5	8	69	17	52	14	0	6	78	0.99
5320338--5320387	21	2.5	19	81	9	64	6	4	8	82	0.96
5320414--5320462	12	3.9	12	78	7	53	8	0	10	81	0.87
5320412--5320461	25	2.0	26	88	4	75	8	0	10	82	0.86
5320411--5320452	8	5.1	8	81	16	50	7	0	7	85	0.73
5320449--5320653	85	2.4	86	86	6	281	24	2	19	53	1.57
5320585--5320675	32	2.7	33	70	16	89	23	0	18	58	1.39
5320655--5320704	25	2.0	25	85	11	68	14	2	10	74	1.16
5322549--5322663	57	2.0	57	87	0	167	24	16	11	47	1.79
5322699--5322767	29	2.2	30	85	15	95	37	2	18	40	1.66
5322708--5322767	29	2.0	30	93	6	104	36	3	18	41	1.67
5322847--5322968	22	5.7	22	87	8	148	22	34	20	22	1.97
5322847--5322968	44	2.8	41	86	10	172	22	34	20	22	1.97
5322992--5323062	20	3.5	20	82	3	79	21	23	23	30	1.99
5323620--5323658	18	2.2	18	95	0	69	20	17	12	48	1.80
5324373--5324420	19	2.5	20	82	3	62	52	6	12	29	1.63
5325661--5325729	29	2.2	30	82	15	86	36	4	18	40	1.71
5325671--5325729	29	2.0	30	93	6	102	33	5	18	42	1.72
5325813--5325865	21	2.5	21	87	0	79	24	39	15	20	1.91
5325885--5325959	20	3.7	20	80	7	89	21	25	24	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5325885--5325940	21	2.8	20	88	2	76	21	23	26	28	1.99
5325885--5325964	41	2.0	41	90	5	126	22	23	26	27	2.00
5327573--5327612	20	2.0	20	100	0	80	25	10	25	40	1.86
5327574--5327621	20	2.4	20	92	0	78	27	8	22	41	1.82
5329045--5329091	14	3.4	14	78	0	58	19	2	21	57	1.51
5329113--5329247	45	3.0	45	93	1	227	40	6	21	31	1.79
5329635--5329691	18	3.4	16	76	19	53	43	0	7	49	1.29
5329654--5329691	16	2.2	18	86	9	53	42	0	7	50	1.31
5331863--5331953	8	10.9	8	71	15	51	78	2	13	6	1.04
5331883--5331951	17	4.2	16	72	20	54	76	0	14	8	1.00

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