genome.fa.s7957.2.7.7.80.10.50.1000.27.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: VEPZ01007957.1 Hibiscus syriacus cultivar Beakdansim tig00110384_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8646418

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   

This is table  27  of  43  ( 5063 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)
5498047--5498085	20	1.9	21	85	15	55	38	0	25	35	1.56
5498129--5498166	20	2.0	20	89	5	60	36	2	34	26	1.71
5498249--5498371	63	2.0	63	86	0	174	36	18	21	23	1.95
5498940--5498992	18	2.9	18	77	0	61	18	16	32	32	1.94
5501080--5501132	3	18.0	3	84	3	72	32	3	1	62	1.24
5508523--5508568	4	12.2	4	82	13	62	52	21	0	26	1.47
5508531--5508566	18	2.1	17	94	5	63	52	22	0	25	1.47
5508972--5509162	103	1.9	102	83	8	255	30	18	11	39	1.86
5509213--5509390	27	6.5	28	83	11	228	29	10	12	48	1.73
5509213--5509390	55	3.3	56	83	11	237	29	10	12	48	1.73
5509489--5509617	29	4.3	28	74	13	107	36	9	12	41	1.75
5509509--5509710	63	3.2	62	81	8	239	33	11	11	43	1.77
5509863--5509905	14	2.9	15	89	3	61	32	20	4	41	1.73
5510330--5510519	43	4.6	43	68	18	123	25	32	19	22	1.98
5510771--5510811	3	13.7	3	85	10	57	34	2	0	63	1.08
5510768--5510804	18	2.1	18	94	0	65	32	2	0	64	1.07
5515152--5515512	54	6.8	54	85	4	443	33	17	18	31	1.94
5515797--5515864	20	3.5	20	74	13	70	25	27	13	33	1.93
5515797--5515844	19	2.5	20	86	3	62	22	31	12	33	1.91
5517156--5517331	41	4.2	42	76	13	118	25	15	4	53	1.61
5517136--5517317	41	4.4	39	75	13	116	26	14	4	53	1.60
5517240--5517617	41	9.0	41	74	15	231	25	19	7	46	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5517339--5517632	83	3.6	84	75	13	254	26	20	7	45	1.78
5517339--5517640	42	7.3	42	76	12	245	26	20	8	44	1.79
5517411--5517640	125	1.8	125	83	10	310	26	21	7	45	1.78
5518163--5518260	21	4.7	19	76	16	88	21	19	23	35	1.96
5518172--5518253	21	3.8	21	78	15	96	18	19	24	37	1.94
5518163--5518260	42	2.3	42	92	0	169	21	19	23	35	1.96
5518408--5518474	21	3.2	21	95	0	116	22	22	28	26	1.99
5519624--5519680	2	29.5	2	92	7	100	49	0	0	50	1.00
5520115--5520143	6	4.8	6	100	0	58	31	34	0	34	1.58
5521370--5521437	8	8.5	8	73	12	50	76	1	4	17	1.03
5521368--5521434	26	2.6	27	77	13	77	76	1	4	17	1.04
5521440--5521466	2	13.5	2	100	0	54	51	0	0	48	1.00
5521783--5521816	3	12.0	3	87	12	54	70	0	0	29	0.87
5523046--5523772	105	6.9	105	93	2	1207	22	18	25	33	1.96
5524376--5524529	78	2.0	75	96	3	281	14	28	19	37	1.92
5524523--5524567	22	2.0	22	87	8	65	0	17	2	80	0.82
5524530--5524568	19	2.0	20	85	5	53	0	17	2	79	0.84
5524491--5524653	85	1.9	87	80	12	194	6	20	12	60	1.55
5524621--5524663	15	2.8	15	85	3	50	0	6	11	81	0.87
5524604--5524662	7	8.0	7	79	7	64	0	8	11	79	0.93
5524614--5524663	8	6.5	8	86	2	59	0	6	12	82	0.85
5531153--5531230	39	2.0	39	87	0	111	17	21	29	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5531573--5531615	22	1.9	21	90	9	59	74	4	9	11	1.20
5534861--5534904	8	5.4	8	86	5	52	65	0	0	34	0.93
5535107--5535177	2	37.5	2	82	16	62	59	0	1	39	1.06
5535146--5535277	12	11.2	12	67	23	59	64	1	3	31	1.18
5542610--5542674	27	2.5	26	85	9	87	44	1	0	53	1.09
5542604--5542706	31	3.5	30	75	15	90	43	2	0	53	1.15
5542625--5542680	26	2.1	27	93	3	96	42	0	0	57	0.99
5542625--5542686	27	2.4	27	89	5	83	43	1	0	54	1.09
5542978--5543054	30	2.5	31	83	10	97	41	3	0	54	1.19
5543075--5543145	27	2.6	25	77	18	63	60	0	2	36	1.11
5543073--5543143	28	2.5	28	76	19	76	59	0	2	38	1.12
5543122--5543186	26	2.4	25	75	25	62	58	1	3	36	1.23
5543659--5543725	31	2.2	31	97	0	125	53	19	7	19	1.68
5544569--5544703	65	2.1	64	84	4	173	34	15	21	28	1.94
5544973--5545089	54	2.4	47	75	23	125	40	17	3	39	1.66
5544986--5545099	54	2.1	55	96	3	214	36	17	3	42	1.67
5545423--5545456	14	2.4	15	90	9	54	50	26	0	23	1.50
5547355--5547452	44	2.2	44	87	3	135	27	20	22	29	1.98
5547802--5547834	17	1.9	17	100	0	66	48	18	6	27	1.71
5559345--5559389	16	2.5	19	86	13	60	35	17	22	24	1.95
5560186--5560231	24	1.9	24	90	0	74	17	21	23	36	1.94
5559892--5560563	348	1.9	349	95	4	1214	29	14	23	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5560533--5560656	24	5.0	24	70	14	83	17	20	25	36	1.94
5560866--5560891	11	2.4	11	100	0	52	42	0	7	50	1.31
5574569--5574830	76	3.4	76	94	0	425	35	22	19	22	1.96
5575674--5575750	22	3.5	22	94	0	136	40	14	10	35	1.80
5577228--5577253	13	2.0	13	100	0	52	15	23	15	46	1.83
5578195--5578257	31	2.0	31	96	0	117	33	15	17	33	1.92
5580695--5580765	4	17.8	4	74	21	60	1	18	4	76	1.03
5580711--5580772	30	2.0	31	96	3	117	3	17	9	69	1.29
5588363--5588433	2	36.0	2	97	2	135	50	0	0	49	1.00
5591476--5591523	10	4.8	10	80	14	55	25	33	29	12	1.92
5591477--5591523	20	2.3	20	96	0	85	25	34	27	12	1.92
5591510--5591542	14	2.4	14	94	0	57	24	39	30	6	1.79
5591488--5591523	10	3.6	10	85	14	56	25	36	27	11	1.90
5591524--5591596	33	2.2	33	87	0	101	26	27	36	9	1.87
5591539--5591608	33	2.1	33	86	5	97	28	24	38	8	1.85
5591697--5591753	29	2.0	29	89	0	87	24	31	29	14	1.94
5592821--5592845	3	8.3	3	100	0	50	32	0	0	68	0.90
5593950--5594057	15	7.3	15	88	2	157	52	0	0	46	1.06
5594082--5594209	22	4.6	31	66	31	103	37	0	9	53	1.34
5594084--5594209	54	2.3	54	94	2	218	38	0	9	52	1.34
5597565--5597610	21	2.2	21	85	14	60	34	6	4	54	1.46
5597673--5597717	21	2.1	22	87	4	65	24	17	22	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5597700--5597732	17	2.0	17	94	5	59	24	18	18	39	1.92
5599086--5599173	19	4.8	18	77	13	83	22	34	20	22	1.97
5600992--5601050	29	2.0	29	83	0	73	25	20	6	47	1.74
5601119--5601286	68	2.5	68	88	0	230	31	25	13	29	1.93
5601092--5601506	225	1.8	225	91	2	690	30	23	13	31	1.94
5601344--5601536	68	2.8	68	83	4	255	32	22	13	31	1.93
5601825--5601986	59	2.7	59	89	0	234	35	20	11	32	1.88
5602275--5602497	94	2.4	96	81	4	265	26	21	16	36	1.93
5606207--5606241	2	17.5	2	100	0	70	48	0	0	51	1.00
5606322--5606521	110	1.8	110	82	0	256	27	22	8	42	1.82
5606409--5606565	81	1.9	81	85	0	215	28	24	10	36	1.88
5606497--5606623	68	1.9	68	83	0	164	29	25	14	31	1.94
5606933--5607093	59	2.7	60	83	3	202	36	18	10	34	1.85
5607382--5607604	94	2.4	96	80	4	256	25	21	16	36	1.94
5607671--5607716	20	2.3	20	88	3	67	26	17	17	39	1.91
5608192--5608226	3	11.7	3	100	0	70	65	0	34	0	0.93
5608853--5608911	31	1.9	31	86	6	84	22	8	3	66	1.34
5612888--5613031	63	2.3	63	80	6	157	33	22	18	25	1.97
5613602--5613654	18	2.8	20	80	5	65	20	16	32	30	1.95
5619822--5619965	63	2.3	63	80	6	157	34	22	18	25	1.96
5620534--5620607	18	4.0	18	77	6	76	22	18	28	29	1.98
5623693--5623756	29	2.1	31	94	5	114	43	14	12	29	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5629985--5630021	19	1.9	19	94	0	65	43	18	18	18	1.89
5642353--5642393	18	2.3	18	91	4	66	63	2	4	29	1.28
5642435--5642485	10	5.1	10	95	0	93	41	0	31	27	1.56
5651320--5651423	32	3.2	32	63	12	86	29	14	19	36	1.91
5651321--5651459	65	2.1	65	100	0	278	31	12	17	38	1.88
5651353--5651456	33	3.2	33	63	13	88	34	12	12	40	1.81
5654534--5654595	31	2.0	32	84	9	83	25	33	22	17	1.96
5656509--5656570	30	2.1	30	93	0	106	32	25	3	38	1.72
5662771--5662813	20	2.2	20	83	8	52	37	4	2	55	1.33
5665205--5665281	3	25.7	3	94	5	138	66	0	0	33	0.92

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