genome.fa.s7823.2.7.7.80.10.50.1000.29.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

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   

This is table  29  of  33  ( 3920 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)
5336208--5336285	23	3.4	23	96	0	138	16	26	26	29	1.97
5346446--5346491	14	3.2	14	93	3	74	39	19	6	34	1.78
5347684--5347742	31	1.9	30	86	10	84	55	0	5	38	1.22
5352640--5352730	31	3.0	31	96	3	168	32	6	17	42	1.75
5352795--5352861	19	3.5	19	91	0	98	40	10	13	35	1.79
5352967--5353009	21	2.0	22	90	4	70	23	20	30	25	1.99
5353038--5353077	20	1.9	21	85	10	55	37	37	10	15	1.80
5358625--5358687	21	2.9	21	85	4	81	20	36	25	17	1.94
5358627--5358708	21	3.8	21	75	15	69	21	37	24	15	1.93
5361121--5361181	30	2.0	30	90	6	97	40	4	11	42	1.62
5370300--5370693	110	3.5	112	86	2	560	33	25	13	27	1.94
5373083--5373391	132	2.3	133	81	2	347	31	9	13	45	1.75
5380054--5380115	32	1.9	32	83	0	79	22	11	33	32	1.90
5380294--5380333	2	20.0	2	94	0	71	50	2	0	47	1.14
5381361--5381410	15	3.5	15	76	20	54	44	0	0	56	0.99
5381360--5381398	3	13.0	3	88	0	51	41	0	0	58	0.98
5382858--5382919	33	1.9	33	83	6	83	40	0	1	58	1.08
5387721--5387935	84	2.6	84	95	0	387	29	21	15	33	1.94
5389863--5390082	114	1.9	114	93	0	377	34	15	20	29	1.94
5391034--5391211	74	2.4	75	83	3	225	32	19	21	26	1.97
5392075--5392232	54	3.0	54	79	6	164	37	15	19	27	1.92
5392127--5392228	50	2.0	50	84	3	134	39	15	18	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5392595--5392651	22	2.6	22	85	0	87	33	12	15	38	1.85
5393326--5393811	76	6.4	76	97	0	909	22	19	22	34	1.97
5393958--5394028	12	5.6	13	80	13	62	42	0	0	57	0.98
5393977--5394028	15	3.7	14	85	15	72	40	0	0	59	0.97
5393957--5394016	3	20.0	3	89	0	84	40	0	0	60	0.97
5395482--5395543	33	1.9	33	83	6	83	40	0	1	58	1.08
5397289--5397326	13	2.8	13	92	8	58	68	0	2	28	1.03
5397289--5397329	7	5.9	7	83	11	57	65	0	2	31	1.05
5400571--5400605	13	2.5	14	90	9	54	65	0	0	34	0.93
5402080--5402147	3	23.0	3	82	8	86	69	0	0	30	0.89
5403141--5403202	32	2.0	32	87	6	92	41	25	12	19	1.87
5404722--5404792	31	2.3	31	92	0	115	26	12	11	49	1.74
5404767--5404893	67	1.9	67	83	6	168	35	10	14	39	1.81
5405067--5405161	31	3.1	30	81	3	109	26	9	8	55	1.60
5405079--5405164	30	2.8	31	85	1	111	24	10	9	55	1.63
5405581--5405638	24	2.4	25	82	11	75	34	5	5	55	1.45
5405568--5405726	27	6.3	25	75	19	118	38	1	1	57	1.20
5405594--5405726	22	5.4	24	77	17	98	38	1	0	59	1.12
5405637--5405712	22	3.4	22	92	3	125	39	0	0	60	0.97
5405637--5405728	23	3.9	23	76	16	98	39	0	0	60	0.97
5406591--5406642	3	18.0	3	88	7	81	34	0	0	65	0.93
5406591--5406641	23	2.2	23	89	0	84	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5408000--5408804	6	138.8	6	89	9	1227	66	0	0	32	0.93
5410610--5410681	36	2.0	36	100	0	144	38	19	13	27	1.90
5411248--5411306	27	2.2	27	81	0	73	22	16	5	55	1.60
5413488--5413537	11	4.7	11	76	18	52	84	0	14	2	0.72
5413487--5413537	6	8.5	6	79	16	52	84	0	13	1	0.71
5413486--5413537	18	2.8	18	83	13	70	84	0	13	1	0.70
5415166--5415268	39	2.6	39	92	3	172	31	16	25	27	1.97
5415638--5415952	54	5.8	54	86	3	386	36	12	23	26	1.91
5415643--5415952	108	2.9	108	88	2	444	36	12	23	27	1.91
5415638--5415952	162	1.9	162	85	3	438	36	12	23	26	1.91
5416319--5416399	22	3.7	22	80	3	83	35	16	11	37	1.84
5416797--5417484	123	5.6	121	87	2	865	39	14	19	27	1.90
5416792--5417484	369	1.9	368	87	2	1014	39	14	18	27	1.90
5417670--5417734	3	23.0	3	84	12	93	33	0	0	66	0.92
5417670--5417725	11	5.3	11	81	14	73	32	0	0	67	0.91
5417881--5417991	55	2.0	55	89	0	168	27	29	16	27	1.97
5419050--5419105	23	2.5	22	77	13	60	21	10	3	64	1.40
5421231--5421381	70	2.1	73	93	4	263	24	15	25	33	1.95
5425436--5425899	113	4.1	112	94	2	786	46	14	15	24	1.82
5425769--5426213	179	2.5	180	91	2	698	43	13	15	28	1.84
5426655--5426702	23	2.1	23	84	0	60	39	14	8	37	1.76
5429021--5429078	3	19.3	3	78	7	64	31	6	0	62	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5430629--5430763	60	2.2	58	82	10	146	16	9	12	61	1.56
5431210--5431684	132	3.6	132	93	1	785	32	11	17	39	1.85
5444002--5444074	38	1.9	37	86	10	103	53	0	0	46	1.00
5444072--5444137	12	5.6	12	83	3	80	25	46	15	12	1.80
5453878--5453919	17	2.4	18	76	4	50	35	14	9	40	1.78
5457282--5457324	20	2.3	19	84	11	61	25	30	9	34	1.87
5457287--5457324	20	1.9	20	94	0	67	26	28	10	34	1.90
5457845--5457896	2	26.0	2	100	0	104	50	0	0	50	1.00
5458195--5458457	130	2.1	125	79	6	278	37	20	12	29	1.89
5466028--5466091	31	2.0	33	82	11	80	45	0	4	50	1.22
5466028--5466090	32	1.9	33	84	9	85	44	0	4	50	1.23
5477651--5477762	29	3.8	29	74	6	107	54	5	7	33	1.50
5478503--5478581	30	2.6	31	85	4	106	56	1	3	37	1.25
5478650--5478677	13	2.2	13	100	0	56	50	0	0	50	1.00
5478469--5478823	29	11.7	31	69	17	139	54	1	5	37	1.34
5479171--5479275	42	2.4	45	75	16	107	45	0	2	50	1.22
5479497--5479564	35	2.0	32	83	8	82	44	0	4	51	1.21
5479714--5479775	17	3.5	17	75	14	63	46	1	0	51	1.10
5479682--5479794	25	4.8	25	67	24	66	46	2	0	50	1.15
5479735--5479800	20	3.2	20	74	16	71	51	1	0	46	1.10
5483085--5483125	18	2.3	18	91	8	66	17	9	31	41	1.82
5483978--5484025	19	2.5	19	100	0	96	27	35	20	16	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5483908--5484070	84	2.0	83	81	6	195	28	25	20	26	1.99
5492609--5492768	65	2.5	66	85	5	202	29	25	19	26	1.98
5495327--5495371	18	2.5	18	96	0	81	33	22	22	22	1.97
5496615--5496673	23	2.7	22	82	12	77	54	13	5	27	1.60
5496615--5496667	22	2.4	22	84	12	72	52	15	5	26	1.64
5496615--5496674	22	2.7	22	78	14	70	55	13	5	26	1.59
5500709--5500765	27	2.1	27	86	0	78	22	29	17	29	1.97
5500725--5500786	27	2.3	27	86	5	81	24	33	17	24	1.96
5503278--5503748	156	3.0	154	84	8	584	47	6	17	28	1.72
5504385--5504451	35	1.9	35	90	6	109	43	20	1	34	1.61
5504385--5504461	35	2.2	35	86	9	104	42	19	1	36	1.60
5505483--5505607	31	4.0	31	89	2	164	38	21	18	21	1.93
5506480--5506524	21	2.1	21	87	0	63	15	24	28	31	1.96
5510264--5510388	31	4.0	31	91	2	189	38	22	18	20	1.93
5514323--5514417	14	6.9	14	70	12	63	52	0	2	45	1.12
5514330--5514368	19	2.1	18	95	4	69	56	0	0	43	0.99
5514386--5514427	17	2.4	17	84	4	57	59	2	0	38	1.10
5516861--5516895	14	2.5	14	100	0	70	14	22	20	42	1.88
5517188--5517332	64	2.2	64	84	6	177	30	23	16	29	1.96
5517273--5517376	45	2.3	45	85	3	129	28	22	16	32	1.95
5525913--5526036	64	1.9	64	88	3	187	31	20	17	29	1.96
5535485--5535538	3	18.3	3	88	11	85	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5537780--5537844	13	5.0	13	92	0	94	26	21	18	33	1.96
5537986--5538021	2	18.5	2	94	5	65	50	0	0	50	1.00
5539718--5539752	2	17.0	2	94	5	61	48	0	2	48	1.16
5547186--5547383	99	2.0	97	98	1	378	38	19	20	21	1.94
5552015--5552130	41	2.8	42	82	12	141	24	20	22	32	1.98
5552054--5552120	20	3.3	20	72	4	71	20	25	19	34	1.96
5551944--5552368	197	2.2	197	86	1	584	32	17	16	33	1.93
5552653--5552698	3	15.0	3	86	13	67	32	0	0	67	0.91
5552656--5552698	16	2.8	16	96	3	79	32	0	0	67	0.91
5552659--5552707	13	3.5	14	79	17	57	30	0	0	69	0.89

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