genome.fa.s8539.2.7.7.80.10.50.1000.28.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   

This is table  28  of  31  ( 3630 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)
5345037--5345328	94	3.1	93	80	8	297	26	19	21	33	1.97
5345126--5345330	54	3.7	54	87	3	284	25	18	22	33	1.96
5345117--5345327	74	2.9	74	74	5	246	25	18	22	33	1.96
5348340--5348370	15	2.1	15	100	0	62	22	6	38	32	1.80
5348478--5348523	19	2.4	19	85	3	56	23	15	28	32	1.95
5348487--5348525	19	2.1	19	90	0	60	23	12	28	35	1.91
5356760--5356793	17	2.0	17	88	11	52	47	5	5	41	1.52
5360864--5360895	15	2.1	15	94	0	55	28	21	18	31	1.97
5372432--5372494	29	2.2	28	82	2	72	33	6	6	53	1.51
5372522--5372560	20	1.9	20	84	5	51	69	2	0	28	1.02
5373268--5373667	204	1.9	206	91	6	650	40	10	4	45	1.57
5377814--5377936	46	2.7	46	85	6	153	31	18	19	30	1.96
5386432--5386480	19	2.7	17	84	9	53	26	20	28	24	1.99
5386452--5386659	65	3.2	64	79	11	226	26	17	24	31	1.97
5391085--5391126	22	1.9	23	85	9	61	33	0	11	54	1.37
5396053--5396095	18	2.2	18	84	12	50	48	18	2	30	1.60
5406043--5406122	10	8.3	9	75	13	61	15	28	28	27	1.96
5406081--5406120	19	2.1	19	90	0	62	17	30	30	22	1.97
5406071--5406133	28	2.2	28	75	10	65	19	36	26	17	1.94
5406131--5406163	17	1.9	17	100	0	66	18	45	24	12	1.83
5415393--5415456	24	2.8	23	83	9	69	71	6	21	0	1.07
5416296--5416353	18	3.3	18	75	15	59	36	0	1	62	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5417090--5417140	18	2.9	17	72	18	50	25	0	1	72	0.95
5417131--5417167	15	2.7	15	88	12	53	24	5	8	62	1.44
5419212--5419258	16	3.1	15	77	19	53	19	12	2	65	1.35
5421766--5421795	15	2.1	15	93	6	53	76	0	23	0	0.78
5421760--5421793	17	2.1	16	94	5	59	79	0	20	0	0.73
5424051--5424507	92	5.1	92	88	5	621	28	13	21	36	1.91
5427471--5428032	76	7.4	76	96	1	1013	21	20	21	35	1.96
5428174--5428215	16	2.5	17	88	3	59	47	0	0	52	1.00
5428154--5428227	39	2.0	35	87	10	103	47	1	0	51	1.09
5428596--5428659	24	2.8	23	83	9	69	71	6	21	0	1.07
5429496--5429553	18	3.3	18	75	15	59	36	0	1	62	1.06
5439833--5439886	3	18.7	3	85	14	78	66	0	0	33	0.92
5439820--5439886	17	3.9	17	88	3	91	62	0	0	37	0.95
5439820--5439874	14	4.0	14	84	11	69	61	0	0	38	0.96
5440109--5441348	113	11.0	113	86	3	1478	30	19	13	36	1.90
5442037--5442253	114	1.9	114	83	5	287	31	21	13	33	1.92
5442140--5442624	93	5.2	93	95	1	850	34	21	16	27	1.95
5442140--5442624	185	2.6	185	95	0	855	34	21	16	27	1.95
5443589--5443620	9	3.6	9	100	0	64	0	9	0	90	0.45
5454042--5454089	19	2.5	19	82	0	60	64	2	6	27	1.28
5455444--5455482	11	3.7	11	86	13	64	7	38	7	46	1.61
5455448--5455481	9	3.6	9	92	8	50	8	35	8	47	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5456222--5456269	3	15.7	3	91	8	71	68	0	0	31	0.90
5467122--5467173	21	2.3	23	90	6	81	55	0	0	44	0.99
5471216--5471651	83	5.3	81	80	6	394	28	17	19	33	1.95
5471418--5471564	40	3.6	41	75	16	160	26	19	19	34	1.96
5471240--5471555	163	1.9	165	85	5	444	29	16	19	34	1.94
5471291--5471564	40	6.7	40	69	14	157	28	18	19	33	1.95
5471226--5471608	83	4.7	82	81	5	398	29	18	19	32	1.96
5474471--5474511	21	2.0	21	85	0	55	21	2	24	51	1.60
5474680--5474927	43	5.8	43	85	2	266	29	23	20	25	1.99
5476282--5476324	22	2.0	22	85	0	59	53	16	13	16	1.73
5476315--5476411	23	4.2	23	76	2	104	43	17	15	23	1.87
5491335--5491379	21	2.1	21	87	0	63	22	22	15	40	1.91
5491397--5491495	20	4.9	20	93	0	162	47	25	11	16	1.79
5496440--5496478	20	2.0	20	84	0	51	23	7	23	46	1.78
5496636--5496675	21	1.9	21	84	0	53	10	22	40	27	1.86
5496658--5496716	21	2.7	22	82	10	77	22	25	32	20	1.98
5496658--5496707	23	2.3	23	89	6	77	24	22	36	18	1.95
5500519--5500563	21	2.2	21	84	4	56	35	4	2	57	1.31
5503403--5503443	20	2.0	21	85	4	57	21	17	29	31	1.96
5503540--5503589	4	12.5	4	86	0	73	26	0	4	70	1.05
5503756--5503836	21	3.9	21	88	0	117	20	34	19	24	1.96
5503760--5503851	42	2.2	42	90	0	139	22	35	18	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5505150--5505304	64	2.4	64	93	2	256	30	1	17	49	1.57
5505410--5505461	20	2.6	20	93	0	86	42	25	15	17	1.88
5505530--5505568	20	2.0	20	94	0	69	17	15	23	43	1.87
5506284--5506373	19	4.6	19	74	10	76	32	10	22	35	1.87
5506483--5506530	19	2.5	19	86	3	60	22	14	31	31	1.94
5510752--5510831	20	3.7	20	74	21	72	71	0	5	23	1.06
5510783--5510832	25	2.0	25	84	7	66	70	0	8	22	1.13
5512215--5512556	74	4.6	74	77	9	293	45	6	4	44	1.48
5512239--5512338	35	2.8	36	79	11	105	43	6	5	46	1.50
5512325--5512387	29	2.1	31	82	5	76	47	1	1	49	1.20
5512231--5512568	113	3.0	109	76	15	307	45	5	4	44	1.48
5512217--5512568	37	9.4	37	74	13	242	45	6	4	44	1.48
5513173--5514111	250	3.8	246	83	5	1156	23	21	25	29	1.99
5513243--5514111	165	5.2	165	90	2	1253	23	21	25	29	1.99
5518919--5518964	20	2.3	20	77	11	58	69	0	2	28	1.00
5520395--5520720	37	8.7	37	74	10	220	45	6	4	44	1.49
5520403--5520502	35	2.8	36	79	11	105	43	6	5	46	1.50
5520489--5520551	29	2.1	31	82	5	76	47	1	1	49	1.20
5520381--5520729	113	3.1	110	76	14	295	44	6	4	44	1.50
5522609--5522636	4	7.0	4	100	0	56	50	0	0	50	1.00
5529879--5530225	173	2.0	174	95	0	624	24	18	23	34	1.96
5538281--5538469	85	2.2	85	84	1	254	35	19	19	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5540231--5540473	85	2.9	84	91	2	378	34	20	16	27	1.95
5540231--5540534	85	3.6	84	85	3	367	34	20	16	28	1.94
5541630--5542013	85	4.5	85	82	1	394	28	17	18	34	1.94
5543210--5543238	13	2.3	13	94	5	51	6	13	0	79	0.93
5543460--5543513	2	27.0	2	100	0	108	50	0	0	50	1.00
5550714--5550774	23	2.7	23	89	0	95	18	26	27	27	1.98
5552578--5552632	21	2.8	19	79	15	60	72	1	3	21	1.09
5552595--5552642	21	2.3	21	79	17	55	72	2	8	16	1.18
5552746--5552770	2	12.5	2	100	0	50	52	0	0	48	1.00
5552794--5553228	216	2.0	217	94	0	773	56	11	11	20	1.65
5554472--5554520	19	2.6	19	80	3	55	36	4	0	59	1.17
5555884--5555961	30	2.7	28	74	16	70	17	15	8	57	1.63
5556054--5556104	26	2.1	25	85	10	70	13	7	1	76	1.09
5561102--5561150	22	2.2	23	85	10	66	71	0	22	6	1.08
5561118--5561153	13	3.0	12	88	11	56	75	0	16	8	1.04
5565938--5566611	182	3.7	183	90	3	1013	41	14	17	26	1.88
5568954--5568996	21	2.0	21	82	8	52	48	11	27	11	1.74
5568963--5569005	21	2.0	21	95	0	77	41	11	32	13	1.81
5569248--5569304	18	3.2	18	92	0	96	57	0	35	7	1.26
5570858--5570906	19	2.6	19	96	0	89	32	2	10	55	1.45
5571215--5571268	15	3.6	15	87	0	72	40	22	11	25	1.87
5571284--5572441	200	5.8	199	85	3	1423	37	13	16	32	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5571284--5572402	402	2.8	399	86	2	1534	37	14	16	32	1.88
5576647--5577411	199	3.9	198	86	1	989	37	13	16	31	1.89
5576647--5577395	399	1.9	396	85	1	1034	37	14	16	31	1.89
5579535--5579577	21	2.0	21	90	0	68	32	27	23	16	1.96
5580123--5580440	103	3.1	102	95	2	591	25	12	24	36	1.91
5580460--5580522	23	2.7	23	85	4	83	20	25	26	26	1.99
5586558--5586600	21	2.0	21	90	0	68	32	27	23	16	1.96
5587146--5587466	103	3.1	103	97	0	615	25	13	24	37	1.91
5587483--5587545	23	2.7	22	82	4	72	20	23	26	28	1.99
5587842--5587888	19	2.5	19	82	0	67	34	4	8	53	1.51

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