genome.fa.s7926.2.7.7.80.10.50.1000.25.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  25  of  42  ( 5024 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)
5288496--5288547	3	17.3	3	100	0	104	65	0	0	34	0.93
5291117--5291168	19	2.7	19	88	11	79	50	5	5	38	1.51
5295871--5295910	21	1.9	21	100	0	80	30	25	35	10	1.88
5299123--5299156	16	2.1	16	94	0	59	32	8	26	32	1.87
5305203--5305246	8	5.5	8	81	10	54	40	2	2	54	1.25
5308164--5308208	20	2.2	20	100	0	90	33	28	17	20	1.95
5310227--5310272	18	2.6	17	82	3	56	28	30	4	36	1.76
5316146--5316188	19	2.1	20	83	12	52	55	4	11	27	1.55
5317658--5318075	83	5.1	81	74	6	322	30	18	17	33	1.95
5317700--5318075	82	4.6	83	78	4	406	30	19	17	32	1.95
5317690--5318075	163	2.3	164	86	4	528	30	19	17	32	1.95
5321563--5321587	2	12.5	2	100	0	50	52	0	0	48	1.00
5326971--5327000	16	1.9	15	93	6	51	16	26	36	20	1.93
5327197--5327237	9	4.4	10	76	17	52	70	0	2	26	0.99
5327244--5327290	23	2.0	23	83	4	58	53	4	2	40	1.32
5327275--5327603	35	9.0	35	80	13	321	43	6	3	46	1.46
5327283--5327603	111	2.9	109	84	10	388	43	6	3	46	1.47
5327728--5327760	2	16.5	2	100	0	66	48	0	0	51	1.00
5329862--5330404	256	2.1	255	88	5	808	26	12	19	41	1.86
5344711--5344824	59	1.9	59	91	3	185	34	13	23	28	1.92
5352611--5352654	3	14.7	3	100	0	88	68	0	0	31	0.90
5352610--5352666	6	8.9	7	92	7	63	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5354429--5354470	17	2.6	16	78	14	50	35	2	0	61	1.09
5354485--5354521	17	2.2	17	86	13	51	54	0	8	37	1.30
5354540--5354571	17	1.9	17	93	6	57	34	0	0	65	0.93
5356454--5356486	2	16.5	2	100	0	66	51	0	0	48	1.00
5356563--5356610	20	2.3	21	82	13	55	31	2	4	62	1.26
5359729--5359777	24	2.0	24	96	0	89	24	10	12	53	1.69
5384717--5384761	18	2.4	19	88	3	65	64	4	2	28	1.25
5392247--5392301	22	2.6	21	81	13	60	54	0	9	36	1.32
5392856--5392885	2	15.0	2	100	0	60	50	0	0	50	1.00
5393541--5393580	3	13.0	3	89	5	62	65	0	2	32	1.06
5405755--5405850	38	2.5	38	89	0	138	28	26	19	26	1.99
5411651--5411680	13	2.3	13	94	0	51	63	0	3	33	1.11
5411829--5411870	5	8.4	5	79	10	50	76	2	0	21	0.90
5413039--5413083	21	2.2	20	88	4	63	77	4	2	15	1.02
5413019--5413088	21	3.0	23	74	16	56	74	7	1	17	1.11
5413165--5413344	36	4.9	36	78	8	168	45	5	4	45	1.45
5413199--5413354	75	2.0	77	85	4	208	45	5	3	45	1.43
5413419--5413473	2	28.0	2	81	3	67	45	3	3	47	1.38
5413965--5415432	84	17.8	83	79	5	1410	23	20	25	30	1.99
5413992--5415431	328	4.4	328	85	4	1510	23	20	25	30	1.99
5413981--5415453	743	2.0	742	90	2	2337	23	20	25	30	1.99
5418846--5418888	17	2.5	17	88	11	61	67	9	11	11	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5418846--5418888	18	2.4	18	88	11	63	67	9	11	11	1.42
5418880--5419130	125	2.0	124	98	0	484	40	10	15	32	1.82
5420675--5420704	13	2.3	13	100	0	60	66	0	0	33	0.92
5420852--5420895	19	2.4	19	80	3	54	77	2	0	20	0.88
5422136--5422293	68	2.3	68	80	7	169	46	5	3	44	1.43
5422213--5422366	37	4.1	38	75	12	124	46	4	2	46	1.37
5422211--5422338	38	3.4	37	77	8	134	44	3	2	49	1.33
5422213--5422366	73	2.1	77	85	7	210	46	4	2	46	1.37
5422187--5422380	73	2.7	72	79	11	195	45	5	2	45	1.40
5422427--5422495	2	34.5	2	100	0	138	50	0	0	49	1.00
5423078--5423223	38	3.7	40	82	9	167	45	4	2	47	1.33
5423274--5423349	35	2.1	35	87	7	107	52	10	10	26	1.68
5428238--5428290	26	2.0	27	92	3	90	58	7	13	20	1.59
5428314--5428350	18	2.1	18	100	0	74	29	21	5	43	1.75
5430040--5430235	36	5.5	35	84	6	252	29	25	25	20	1.99
5430040--5430235	71	2.8	72	85	4	265	29	25	25	20	1.99
5430994--5431055	25	2.4	26	89	5	99	48	8	22	20	1.76
5433507--5433544	20	1.9	20	84	10	51	28	39	18	13	1.88
5433591--5433648	16	3.5	17	79	6	57	32	17	12	37	1.86
5435643--5435740	32	3.1	32	77	5	101	19	25	23	31	1.98
5436406--5436438	14	2.4	14	90	10	50	33	21	6	39	1.78
5436514--5436582	23	3.0	23	84	0	93	27	26	26	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5436798--5436859	30	2.1	30	93	0	106	35	20	3	40	1.69
5443322--5443354	14	2.4	14	90	10	50	33	21	6	39	1.78
5443435--5443499	23	2.8	23	83	0	85	27	24	26	21	1.99
5443706--5443774	30	2.3	30	92	0	111	33	23	4	39	1.74
5444115--5444175	20	2.8	22	82	14	81	24	24	21	29	1.99
5444231--5444366	63	2.2	63	91	0	218	27	22	19	30	1.98
5460605--5460663	31	1.9	31	92	0	100	40	6	10	42	1.65
5460688--5460730	22	2.0	22	95	0	77	51	11	0	37	1.39
5460693--5460843	80	1.9	80	92	0	257	52	13	0	32	1.46
5460790--5461120	32	10.4	32	77	12	308	54	9	0	35	1.37
5460790--5461120	64	5.7	64	91	5	350	54	9	0	35	1.37
5460790--5461120	96	3.8	95	76	21	368	54	9	0	35	1.37
5461004--5461051	22	2.2	22	85	7	62	56	12	0	31	1.37
5460918--5461120	105	1.9	108	95	3	376	53	9	0	37	1.33
5461055--5461097	22	2.0	22	95	0	77	51	11	0	37	1.39
5461057--5461105	22	2.2	22	85	3	62	55	12	0	32	1.37
5461100--5461234	13	9.8	13	71	20	71	51	1	0	47	1.10
5461078--5461167	45	2.0	46	85	10	123	52	5	0	42	1.25
5460790--5461166	32	11.4	33	74	13	237	53	9	0	36	1.35
5461142--5461216	24	3.1	24	83	12	91	48	0	0	52	1.00
5461100--5461306	32	7.2	28	70	20	94	51	0	0	47	1.07
5461273--5461306	13	2.5	14	90	9	61	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5461115--5461328	103	2.2	95	81	12	236	50	1	0	48	1.12
5466176--5466220	22	2.0	22	82	4	54	24	26	2	46	1.64
5472551--5472595	23	2.0	23	86	8	65	64	6	6	22	1.41
5472585--5472648	34	1.9	32	87	12	94	70	1	3	25	1.11
5481912--5481936	2	12.5	2	100	0	50	52	0	0	48	1.00
5482387--5482423	15	2.4	15	90	4	56	40	0	2	56	1.13
5483010--5483042	16	2.0	17	88	5	50	45	3	0	51	1.16
5483925--5484015	11	8.9	10	73	14	62	53	4	0	41	1.21
5483950--5484018	31	2.2	32	94	2	122	49	4	0	46	1.21
5490912--5490973	31	1.9	32	83	6	81	56	1	3	38	1.25
5491267--5491364	44	2.3	42	76	13	108	25	17	7	50	1.71
5501348--5501457	58	1.9	58	90	3	177	26	16	27	30	1.97
5508333--5508401	35	1.9	37	85	11	99	28	4	7	59	1.44
5512291--5512356	29	2.3	29	97	0	123	30	6	30	33	1.82
5513359--5513399	12	3.5	12	78	18	50	75	12	2	9	1.13
5514928--5515002	36	2.1	37	84	2	98	26	21	22	29	1.99
5515657--5515776	59	2.0	59	95	0	213	37	10	22	29	1.88
5517880--5517910	14	2.2	14	94	0	53	6	16	22	54	1.64
5518086--5518129	10	4.4	10	85	0	61	20	9	9	61	1.53
5537803--5537835	17	1.9	17	93	0	57	72	0	15	12	1.12
5547607--5547651	22	2.0	22	83	8	56	60	6	0	33	1.23
5549425--5549468	17	2.8	16	83	10	63	40	18	20	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5550342--5550454	55	2.0	57	84	3	149	38	22	7	30	1.83
5558102--5558133	12	2.6	12	95	5	55	81	3	0	15	0.82
5558489--5558565	36	2.1	36	85	7	102	48	1	3	46	1.28
5558541--5558588	18	2.7	18	80	9	62	54	4	0	41	1.20
5558787--5558826	16	2.6	16	88	4	55	42	10	17	30	1.82
5560147--5560207	29	2.1	29	100	0	122	39	3	18	39	1.67
5568619--5568645	13	2.1	13	100	0	54	14	7	33	44	1.73
5578096--5578186	20	4.9	20	68	20	72	34	5	15	45	1.69
5578095--5578244	53	2.9	52	96	3	275	32	6	13	48	1.67
5578201--5578240	20	2.0	20	95	0	71	37	5	12	45	1.64

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