genome.fa.s9592.2.7.7.80.10.50.1000.28.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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   

This is table  28  of  39  ( 4673 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)
5450892--5450991	26	3.9	26	76	12	100	78	0	12	10	0.98
5450897--5450995	13	7.8	12	77	11	83	78	0	11	10	0.96
5451989--5452492	55	9.1	55	91	2	755	30	16	24	28	1.96
5451989--5452492	111	4.6	111	91	2	759	30	16	24	28	1.96
5451989--5452492	166	3.0	165	90	4	759	30	16	24	28	1.96
5453866--5453913	25	2.0	23	84	8	60	6	14	39	39	1.71
5458118--5458213	35	2.7	35	85	0	120	40	26	1	32	1.63
5458696--5458987	148	2.0	148	94	0	512	45	8	7	37	1.64
5459817--5459847	2	15.5	2	100	0	62	51	0	0	48	1.00
5473054--5473257	23	8.9	23	91	2	277	46	1	30	21	1.62
5481922--5482019	51	1.9	51	95	0	178	32	18	14	34	1.91
5482008--5482205	23	8.4	23	82	6	209	47	1	29	21	1.57
5482008--5482156	72	2.1	72	87	2	210	47	0	30	21	1.56
5482008--5482205	72	2.8	67	78	11	200	47	1	29	21	1.57
5491966--5492016	15	3.1	16	73	21	52	62	1	0	35	1.06
5492762--5492852	20	4.6	20	91	0	146	48	24	10	16	1.78
5492762--5492852	40	2.3	40	94	0	164	48	24	10	16	1.78
5493185--5493252	20	3.4	20	89	0	109	51	22	19	7	1.71
5493249--5493309	20	3.0	20	92	0	104	11	18	22	47	1.80
5493249--5493323	20	3.8	20	87	0	96	14	16	21	48	1.81
5495590--5495643	24	2.2	24	93	0	90	40	20	18	20	1.91
5495590--5495657	24	2.8	24	84	0	64	38	20	17	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5496577--5496726	19	7.7	20	84	5	155	29	10	22	37	1.88
5496577--5496693	58	2.0	58	85	4	157	32	11	21	34	1.90
5496673--5496756	20	4.2	20	87	1	114	19	8	25	47	1.76
5496635--5496756	40	3.1	41	84	6	146	22	9	23	44	1.81
5496758--5496841	20	4.2	20	84	3	114	25	19	19	36	1.94
5500916--5500965	18	2.7	18	96	3	91	62	24	10	4	1.44
5509396--5509462	30	2.2	31	86	2	91	26	23	13	35	1.92
5509409--5509477	31	2.3	31	87	7	97	27	24	11	36	1.90
5509384--5509607	113	2.0	112	84	0	295	30	18	12	38	1.87
5515897--5515982	43	2.0	43	88	0	127	38	4	3	53	1.39
5519877--5519924	16	2.9	17	84	9	64	50	0	2	47	1.12
5520178--5520210	17	2.0	17	88	5	50	54	0	3	42	1.15
5524010--5524035	3	8.7	3	100	0	52	0	34	0	65	0.93
5529416--5529442	5	5.4	5	100	0	54	62	0	0	37	0.95
5529960--5530001	20	2.2	19	86	4	57	64	2	0	33	1.07
5529869--5530105	120	2.0	120	84	4	313	46	8	7	37	1.62
5530738--5530770	11	3.0	11	90	0	57	0	33	0	66	0.92
5531552--5531617	3	21.0	3	85	14	89	68	0	0	31	0.90
5531954--5532631	113	6.0	113	89	0	1016	27	18	16	37	1.92
5541517--5541548	15	2.1	15	94	0	55	46	9	18	25	1.79
5545463--5545504	20	2.2	19	86	4	57	64	2	0	33	1.07
5545372--5545608	120	2.0	120	82	4	295	47	8	7	37	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5545601--5545640	19	2.0	20	85	9	55	60	2	7	30	1.38
5546246--5546288	13	3.2	13	83	9	52	2	37	0	60	1.10
5547073--5547125	3	17.0	3	85	14	72	67	0	0	32	0.91
5547073--5547125	13	4.2	13	90	7	83	67	0	0	32	0.91
5550901--5551013	60	1.9	60	87	3	165	52	2	10	34	1.50
5551598--5551640	16	2.6	16	85	3	50	48	9	0	41	1.35
5552119--5552163	23	2.0	23	90	0	72	48	13	26	11	1.75
5552120--5552188	23	3.0	23	83	8	70	49	14	21	14	1.79
5552327--5552363	19	2.0	19	94	5	67	43	5	37	13	1.67
5552992--5553025	16	2.1	16	88	0	50	52	0	0	47	1.00
5555120--5555145	5	5.2	5	100	0	52	61	0	0	38	0.96
5556358--5556425	35	1.9	35	84	0	91	25	23	17	33	1.96
5558549--5558686	42	3.3	42	66	11	95	36	13	15	34	1.87
5558509--5558864	83	4.3	83	82	1	390	33	16	16	33	1.91
5558667--5558803	41	3.3	41	64	13	100	29	16	17	37	1.91
5559108--5559329	62	3.6	62	98	0	426	49	10	13	26	1.74
5560367--5560420	28	1.9	28	88	7	83	35	27	11	25	1.90
5565238--5565270	2	17.0	2	93	6	59	48	0	0	51	1.00
5565404--5565440	18	2.1	17	90	5	56	32	35	13	18	1.90
5565444--5565479	18	2.0	18	94	0	63	30	33	19	16	1.94
5565788--5565864	2	39.0	2	94	2	138	49	1	0	49	1.09
5565963--5566012	17	2.8	18	81	6	57	36	10	0	54	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5565968--5566012	18	2.5	17	82	7	54	37	8	0	53	1.32
5567061--5567113	21	2.5	22	87	9	74	28	26	16	28	1.97
5568771--5568808	19	2.0	20	94	5	69	28	21	28	21	1.98
5568796--5568937	63	2.2	64	80	5	153	33	22	17	26	1.96
5569535--5569599	18	3.4	18	74	15	67	13	16	35	33	1.89
5569469--5569649	40	4.4	40	87	2	218	17	20	30	30	1.96
5569446--5569590	62	2.3	63	86	7	195	16	24	29	29	1.96
5569446--5569613	62	2.7	64	76	16	172	16	23	29	30	1.96
5569446--5569621	22	8.4	22	79	9	197	17	23	29	30	1.97
5569537--5569647	18	5.7	18	67	15	60	16	17	32	34	1.92
5575778--5575937	61	2.6	62	81	5	162	30	23	20	25	1.98
5576474--5576534	22	2.8	22	82	0	77	18	24	27	29	1.98
5576497--5576633	40	3.4	40	83	4	134	20	18	29	31	1.97
5576548--5576614	22	3.2	22	69	26	65	22	14	31	31	1.94
5580457--5580791	166	2.0	168	97	2	640	32	9	13	43	1.77
5581530--5581587	26	2.2	26	100	0	116	17	43	0	39	1.49
5587843--5588057	110	2.0	105	95	4	385	33	21	23	21	1.97
5591961--5592006	23	2.0	24	82	4	58	58	0	0	41	0.98
5599826--5599859	12	2.9	12	86	4	52	50	8	11	29	1.69
5607517--5607541	10	2.5	10	100	0	50	20	12	12	56	1.67
5607899--5607930	16	2.0	16	100	0	64	6	12	25	56	1.59
5609305--5609347	16	2.7	16	96	0	77	30	18	11	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5609635--5611292	6	278.3	6	87	5	591	33	0	16	49	1.49
5609719--5611291	12	135.4	12	88	9	2375	32	0	16	50	1.48
5609719--5611291	18	90.3	18	88	10	2375	32	0	16	50	1.48
5621257--5621325	28	2.4	29	84	11	90	40	2	4	52	1.36
5623486--5623532	5	9.2	5	95	4	85	38	0	0	61	0.96
5631794--5631935	26	5.5	26	81	13	186	45	4	7	42	1.52
5631821--5631854	11	3.1	11	100	0	68	44	8	8	38	1.67
5631795--5632171	36	10.5	37	76	15	330	46	3	7	42	1.49
5632060--5632173	33	3.3	33	80	13	115	43	2	7	45	1.47
5631941--5632178	76	3.1	75	73	14	204	47	2	7	42	1.44
5632225--5632272	4	12.0	4	81	16	55	20	2	2	75	1.02
5632230--5632279	25	2.1	24	89	10	77	16	2	4	78	1.00
5633476--5633509	14	2.4	14	90	5	50	20	0	0	79	0.73
5633480--5633519	21	1.9	21	85	10	55	22	2	2	72	1.09
5635214--5635276	31	2.0	31	87	0	90	23	23	14	38	1.92
5637506--5637553	24	2.0	24	95	0	87	50	12	18	18	1.78
5639485--5639516	15	2.1	16	94	5	57	21	28	37	12	1.90
5648243--5648268	2	13.0	2	100	0	52	50	0	0	50	1.00
5650502--5650538	2	18.5	2	100	0	74	48	0	0	51	1.00
5650598--5650628	2	15.5	2	100	0	62	48	0	0	51	1.00
5650653--5650715	16	4.1	16	71	21	62	31	1	1	65	1.12
5650718--5650749	15	2.1	15	94	0	55	12	9	0	78	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5650719--5650772	21	2.6	20	80	13	56	14	5	5	74	1.19
5661362--5661400	16	2.4	17	91	4	62	82	5	12	0	0.83
5662418--5662624	110	1.9	110	89	0	324	35	23	18	22	1.95
5664136--5664190	19	2.8	19	75	8	56	29	7	0	63	1.21
5664257--5664336	32	2.5	31	77	16	83	22	2	6	68	1.24
5667623--5667684	20	3.2	20	71	15	58	56	1	1	40	1.19
5669576--5669608	2	16.5	2	100	0	66	48	0	0	51	1.00
5669728--5669866	3	46.7	3	98	1	271	33	0	0	66	0.92
5672748--5672777	2	15.0	2	100	0	60	50	0	0	50	1.00
5678838--5679548	260	2.7	258	84	2	904	34	15	15	34	1.89

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