genome.fa.s9175.2.7.7.80.10.50.1000.24.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   44   45   46   47   48   
          49   50   51   

This is table  24  of  51  ( 6037 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)
4745654--4745756	52	2.0	52	98	0	197	21	23	13	41	1.88
4747524--4747594	31	2.3	31	87	0	97	40	7	15	36	1.74
4749783--4749841	27	2.2	27	100	0	118	42	3	20	33	1.69
4751744--4751826	26	3.2	26	67	16	82	32	9	3	54	1.50
4751738--4751848	51	2.2	51	100	0	222	29	10	3	55	1.51
4751973--4752006	16	2.1	16	88	0	50	32	5	0	61	1.20
4755359--4755437	22	3.5	22	77	11	70	77	5	15	2	1.05
4756040--4756083	22	2.0	22	91	8	72	38	22	11	27	1.88
4756502--4756537	18	2.0	18	88	0	54	19	8	30	41	1.81
4757031--4757155	36	3.4	36	83	2	169	26	20	13	39	1.90
4757113--4757287	65	2.6	65	84	4	224	33	21	9	36	1.85
4757891--4758340	105	4.3	104	90	3	674	32	27	17	22	1.96
4759646--4759762	50	2.2	54	80	17	163	29	11	3	55	1.51
4759658--4759762	50	2.1	50	96	3	196	29	11	3	55	1.53
4759889--4759922	16	2.1	16	88	0	50	32	5	0	61	1.20
4759903--4759949	21	2.2	21	84	0	58	27	4	2	65	1.22
4771679--4772047	20	18.5	20	85	4	458	34	26	18	20	1.96
4772721--4772767	24	2.0	24	87	8	69	25	14	21	38	1.92
4772942--4772966	12	2.1	12	100	0	50	72	0	28	0	0.86
4775273--4775578	19	17.4	19	79	16	356	47	18	19	14	1.82
4775273--4775600	33	9.5	34	76	16	198	46	18	20	14	1.83
4775273--4775526	52	4.8	52	87	6	255	47	18	19	14	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4775339--4775578	71	3.4	71	83	11	355	47	17	20	15	1.83
4775339--4775600	52	4.9	53	82	14	287	46	17	20	15	1.83
4775607--4775708	19	5.6	19	85	12	151	14	23	17	44	1.86
4775815--4775851	14	2.6	14	91	0	65	45	21	0	32	1.52
4777810--4777866	14	3.7	14	77	20	60	45	22	21	10	1.82
4777791--4777882	33	2.8	33	94	0	166	46	21	20	10	1.81
4777754--4777882	19	7.3	19	76	17	125	46	24	18	10	1.81
4777878--4777996	19	6.8	18	69	23	85	9	19	26	45	1.80
4777883--4777975	33	2.8	33	88	3	143	9	19	25	45	1.81
4777947--4778012	19	3.4	20	83	10	84	12	16	27	43	1.83
4778056--4778528	93	5.1	93	98	0	930	46	19	12	21	1.83
4778056--4778528	185	2.5	186	99	0	930	46	19	12	21	1.83
4780227--4780339	33	3.4	33	95	0	208	44	21	24	9	1.82
4780234--4780339	14	6.4	18	71	25	83	43	22	24	9	1.83
4780339--4780393	14	3.6	14	73	21	56	9	27	23	40	1.85
4780514--4780584	33	2.2	33	89	0	106	47	16	22	12	1.80
4780766--4780820	22	2.5	22	81	0	74	20	16	40	23	1.91
4780966--4781159	20	9.6	20	82	5	221	19	19	25	35	1.95
4780966--4781159	60	3.2	60	83	0	253	19	19	25	35	1.95
4781152--4781228	21	3.7	20	70	13	57	27	16	23	32	1.96
4781214--4781265	20	2.6	20	96	0	95	21	13	26	38	1.90
4799233--4799262	15	2.0	15	93	0	51	43	13	16	26	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4804283--4804354	25	3.0	25	89	4	112	19	38	0	41	1.52
4823236--4823279	21	2.0	22	82	4	54	29	6	22	40	1.80
4831067--4831097	15	2.1	15	93	0	53	54	0	0	45	0.99
4834967--4835008	20	2.1	20	86	8	59	33	7	21	38	1.81
4839344--4839382	9	3.8	10	84	15	53	41	0	2	56	1.13
4839378--4839463	3	28.7	3	90	0	136	61	0	2	36	1.09
4839369--4839472	18	5.9	18	79	15	103	58	0	1	39	1.09
4839793--4840579	113	7.0	113	95	0	1317	29	18	13	37	1.90
4841306--4841522	83	2.6	83	97	0	407	39	23	12	24	1.89
4842299--4842346	19	2.7	18	87	9	64	54	6	8	31	1.55
4854995--4855059	16	4.1	16	98	2	123	18	18	56	6	1.61
4855134--4855172	9	3.8	10	84	15	53	41	0	2	56	1.13
4855168--4855253	3	28.7	3	90	0	136	61	0	2	36	1.09
4855159--4855262	18	5.9	18	79	15	103	58	0	1	39	1.09
4858598--4858646	22	2.2	22	100	0	98	46	16	12	24	1.81
4861879--4861959	42	1.9	42	82	0	99	28	23	32	16	1.96
4865010--4865052	18	2.6	15	82	17	50	44	6	16	32	1.74
4881449--4881480	11	2.9	11	95	0	55	81	6	3	9	0.97
4881417--4881481	28	2.3	27	84	10	78	75	6	4	13	1.15
4881803--4881853	2	25.5	2	100	0	102	50	0	0	49	1.00
4881973--4882044	5	14.4	5	77	13	53	62	0	2	34	1.10
4881969--4882033	33	1.9	33	87	9	96	64	0	3	32	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4882004--4882062	21	2.8	22	80	15	70	64	0	1	33	1.04
4883562--4884634	84	12.9	83	79	4	944	25	19	23	32	1.97
4885765--4886027	95	2.7	94	89	3	382	33	19	16	31	1.94
4888535--4888597	17	3.6	16	72	27	56	74	6	3	15	1.15
4888605--4888697	19	4.8	19	72	18	57	72	1	5	21	1.11
4888649--4888712	3	20.3	3	74	17	51	67	1	3	28	1.15
4888620--4888696	26	3.2	26	79	15	85	74	1	3	20	1.06
4889227--4889289	17	3.6	16	73	21	54	73	6	3	17	1.18
4888033--4889411	693	2.0	684	94	2	2449	44	13	14	27	1.82
4889312--4889383	9	7.9	9	76	13	51	77	4	1	16	0.99
4889330--4889383	26	2.0	26	89	3	81	77	1	1	18	0.95
4889675--4889727	15	3.4	15	76	19	54	60	0	3	35	1.15
4889827--4889897	5	14.4	5	77	14	60	61	0	2	35	1.10
4889825--4889914	8	9.9	9	70	22	64	64	0	2	33	1.06
4889822--4889915	21	4.5	19	75	21	82	64	0	2	32	1.05
4891003--4891047	12	3.8	12	80	13	58	44	0	4	51	1.21
4892459--4892539	35	2.3	35	100	0	162	30	4	7	56	1.48
4896583--4896654	31	2.3	31	85	0	99	27	20	12	38	1.89
4898643--4898708	31	2.1	31	86	5	89	30	9	25	34	1.87
4899285--4899334	21	2.4	21	82	0	64	24	4	0	72	1.02
4899865--4899905	22	1.9	22	85	5	57	39	2	4	53	1.35
4914568--4914619	9	5.9	9	97	2	97	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4915026--4915069	23	2.0	22	90	4	70	43	11	0	45	1.40
4915806--4915857	9	5.9	9	97	2	97	67	0	0	32	0.91
4916266--4916309	23	2.0	22	90	4	70	43	11	0	45	1.40
4917046--4917124	9	8.9	9	98	1	151	67	0	0	32	0.91
4919954--4919983	2	15.0	2	92	0	51	53	0	0	46	1.00
4919998--4920192	75	2.6	75	85	1	266	50	16	6	25	1.69
4924442--4924513	30	2.4	30	79	2	83	40	4	26	29	1.75
4924568--4924688	45	2.7	44	82	6	136	38	9	17	34	1.83
4924870--4925040	58	3.0	58	88	4	240	38	6	14	40	1.72
4925063--4925246	38	4.8	38	74	12	137	39	6	9	44	1.64
4925106--4925246	39	3.6	40	75	11	123	39	6	8	45	1.60
4925055--4925247	77	2.5	75	74	13	180	38	6	9	45	1.64
4925272--4925347	40	1.9	39	86	2	107	42	6	10	40	1.65
4925177--4925425	98	2.6	96	88	5	349	42	5	10	41	1.61
4925372--4925484	39	2.9	39	79	10	140	38	3	10	47	1.55
4925274--4925617	137	2.5	137	88	2	505	38	5	11	44	1.64
4925272--4926002	176	4.2	174	72	8	579	37	6	12	43	1.69
4925506--4925719	39	5.5	38	82	3	230	37	7	12	43	1.69
4925535--4925719	39	4.7	39	86	0	253	36	7	11	44	1.69
4925272--4926085	136	6.1	136	73	12	523	37	6	12	43	1.69
4925506--4925719	78	2.7	78	86	0	275	37	7	12	43	1.69
4925665--4925773	55	2.0	55	85	3	148	42	8	14	34	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4925720--4925868	39	3.8	39	85	2	174	37	6	13	42	1.71
4925548--4925868	172	1.9	173	88	2	493	38	7	12	42	1.70
4925626--4925813	94	2.0	94	88	0	277	40	7	13	38	1.72
4925587--4925843	133	1.9	133	85	7	351	38	7	13	41	1.71
4925741--4925868	39	3.2	40	86	3	188	35	6	12	45	1.67
4925892--4926002	39	2.8	38	84	10	127	37	6	13	42	1.70
4926752--4927538	261	3.0	262	95	0	1405	33	18	16	32	1.93
4930974--4931295	159	2.0	159	89	1	484	30	14	23	31	1.94
4934464--4934570	3	36.7	3	86	9	150	34	0	0	65	0.93
4935349--4935377	13	2.2	13	100	0	58	0	31	62	6	1.22

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   44   45   46   47   48   
          49   50   51