genome.fa.s851.2.7.7.80.10.50.1000.25.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: VEPZ01000851.1 Hibiscus syriacus cultivar Beakdansim tig00001644_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7304151

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  25  of  31  ( 3618 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)
5849184--5849238	24	2.3	24	78	9	67	38	20	21	20	1.94
5849238--5849286	24	2.0	24	96	0	89	26	22	28	22	1.99
5855075--5855123	24	2.0	24	92	0	80	30	26	22	20	1.98
5855228--5855293	15	4.4	15	78	3	71	42	24	10	22	1.85
5860026--5860192	83	2.0	83	100	0	334	31	11	14	42	1.82
5864209--5864263	20	2.8	20	91	2	85	20	10	9	60	1.57
5865249--5865301	22	2.5	21	79	14	56	30	20	24	24	1.99
5865851--5866093	79	3.1	78	89	5	353	36	11	25	27	1.90
5866055--5866273	91	2.4	90	90	2	341	40	9	21	29	1.84
5866018--5866273	45	5.7	45	87	3	336	38	9	22	29	1.86
5869287--5869335	19	2.5	20	83	12	66	71	0	6	22	1.08
5876195--5876233	17	2.2	18	95	4	71	43	5	10	41	1.61
5877754--5877792	17	2.3	17	86	0	51	58	7	10	23	1.56
5888095--5888140	18	2.6	18	96	0	83	43	13	19	23	1.86
5892997--5893287	144	2.0	145	96	0	539	18	20	12	48	1.81
5894641--5894726	39	2.4	36	84	11	106	36	9	30	24	1.87
5894660--5894737	21	3.9	20	75	14	72	34	10	28	26	1.89
5894657--5894738	39	2.1	39	93	0	137	34	9	30	25	1.88
5894657--5894718	18	3.3	17	75	20	61	33	8	30	27	1.86
5894669--5894738	21	3.5	21	75	18	76	32	11	30	25	1.91
5896302--5896346	24	1.9	23	90	4	72	28	11	13	46	1.77
5896606--5896693	38	2.3	38	98	0	167	40	11	22	25	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5896919--5896999	40	2.0	40	97	0	153	32	24	13	29	1.94
5900667--5900752	31	2.8	31	83	0	100	65	3	8	23	1.36
5905320--5905435	57	2.0	57	96	0	214	31	37	7	22	1.83
5911459--5911588	41	3.2	40	74	10	131	40	19	14	25	1.89
5911435--5911612	79	2.3	79	88	2	259	37	15	17	29	1.91
5911590--5911681	41	2.2	42	80	1	105	34	17	14	33	1.90
5911777--5911888	41	2.7	41	83	5	138	32	17	20	29	1.96
5911778--5911856	42	1.9	41	92	2	131	27	18	21	31	1.97
5915708--5915970	43	6.2	42	83	5	296	27	24	16	31	1.96
5915708--5915970	85	3.1	85	83	2	341	27	24	16	31	1.96
5915708--5916001	86	3.4	85	82	2	331	27	24	17	31	1.97
5915708--5916001	43	6.9	43	81	3	265	27	24	17	31	1.97
5920312--5920365	22	2.5	22	77	14	58	25	1	1	70	1.07
5927163--5927192	13	2.3	13	94	0	51	23	23	16	36	1.94
5928683--5928708	13	2.0	13	100	0	52	46	0	38	15	1.46
5933430--5933506	28	2.8	28	85	0	109	40	32	2	24	1.69
5934821--5934981	60	2.7	59	82	3	187	30	11	15	42	1.83
5935221--5935332	42	2.7	42	77	5	120	25	22	20	31	1.98
5935139--5935714	241	2.4	240	86	3	775	31	16	15	36	1.90
5936994--5937644	336	1.9	336	98	0	1266	36	15	18	30	1.91
5937615--5937751	39	3.5	39	89	4	204	41	10	26	21	1.85
5937616--5937678	20	3.2	20	64	20	51	36	12	23	26	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5937655--5937757	17	5.3	19	63	21	52	40	10	26	22	1.86
5937695--5938252	204	2.7	202	85	0	722	35	17	19	27	1.95
5938220--5938333	42	2.7	42	88	0	165	28	21	18	31	1.97
5952722--5953131	112	3.7	112	84	9	493	28	20	13	37	1.91
5953033--5953272	130	1.9	129	92	6	409	28	19	17	35	1.94
5954002--5954632	83	7.7	83	89	3	953	36	22	13	27	1.92
5954002--5954632	246	2.6	248	89	4	949	36	22	13	27	1.92
5955765--5955825	8	7.6	8	87	10	81	0	14	0	85	0.60
5955765--5955825	15	3.9	15	85	8	77	0	14	0	85	0.60
5955764--5955825	20	3.0	21	73	23	60	0	16	0	83	0.64
5955779--5955830	11	4.8	11	80	4	70	0	13	0	86	0.57
5966540--5966580	20	2.0	21	85	4	57	53	2	2	41	1.27
5967993--5968026	15	2.3	15	90	5	52	38	0	2	58	1.13
5968025--5968053	3	9.7	3	100	0	58	65	0	0	34	0.93
5969406--5969488	29	2.9	29	89	1	123	31	13	4	50	1.62
5969414--5969497	29	2.9	29	89	5	118	30	13	4	51	1.61
5970882--5970921	19	2.1	19	86	9	55	42	15	2	40	1.60
5973997--5974076	15	5.2	15	75	10	65	73	6	17	2	1.15
5974011--5974077	14	4.7	13	74	18	53	71	5	19	2	1.20
5974078--5974323	120	2.0	120	100	0	492	43	20	16	18	1.88
5978435--5978463	12	2.4	12	100	0	58	0	41	31	27	1.56
5980076--5980155	21	3.8	21	75	15	65	17	25	32	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5980120--5980157	20	1.9	20	94	0	67	15	26	31	26	1.96
5983960--5983999	21	1.9	21	85	10	55	35	10	2	52	1.48
5986407--5986554	37	4.0	37	77	6	149	31	17	12	37	1.88
5986390--5986541	73	2.1	73	85	4	200	30	17	13	39	1.87
5986602--5986952	99	3.5	97	76	10	311	33	16	10	39	1.84
5986724--5986906	94	1.9	95	85	1	251	33	15	9	41	1.79
5986929--5987053	36	3.6	36	67	18	113	27	14	19	39	1.90
5986865--5987184	66	4.8	66	86	3	392	27	15	16	40	1.89
5986865--5987184	133	2.4	132	84	4	392	27	15	16	40	1.89
6000144--6000252	39	2.8	39	74	13	107	48	0	16	33	1.53
6002375--6002423	19	2.6	19	90	0	80	65	4	2	28	1.22
6010781--6010810	3	10.0	3	100	0	60	33	0	0	66	0.92
6014841--6014910	15	4.7	15	94	3	115	67	1	25	5	1.21
6014857--6014925	30	2.3	29	87	9	95	66	0	27	5	1.14
6023239--6023285	20	2.4	20	86	10	62	46	4	17	31	1.67
6025547--6025622	3	25.3	3	94	0	134	65	1	1	31	1.09
6026102--6026168	3	22.7	3	93	3	118	64	0	0	35	0.94
6027126--6027160	18	1.9	18	94	0	61	42	20	14	22	1.88
6030602--6030721	50	2.4	50	84	5	136	43	13	10	33	1.77
6032902--6032956	3	19.0	3	85	7	60	27	0	5	67	1.12
6032923--6032956	17	2.0	17	100	0	68	35	0	0	64	0.94
6032923--6032949	14	1.9	14	100	0	54	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)
6033984--6034060	34	2.3	34	82	8	95	48	0	0	51	1.00
6034049--6034075	2	13.5	2	100	0	54	51	0	0	48	1.00
6034709--6034770	32	2.0	31	84	9	81	25	9	3	61	1.42
6035255--6035296	22	1.9	22	95	0	75	30	14	4	50	1.63
6037624--6037661	18	2.1	18	100	0	76	55	15	5	23	1.61
6038317--6038730	209	2.0	210	92	0	695	45	17	12	24	1.83
6038853--6038879	14	1.9	14	100	0	54	22	3	29	44	1.70
6039699--6040083	151	2.6	149	80	8	408	28	18	7	46	1.75
6040344--6040378	2	18.0	2	94	5	63	48	0	0	51	1.00
6042350--6042422	21	3.5	20	71	12	67	26	13	24	35	1.93
6047522--6047580	2	29.5	2	100	0	118	50	0	0	49	1.00
6047747--6047771	13	1.9	13	100	0	50	56	12	16	16	1.68
6051019--6051055	18	2.0	19	94	5	67	32	16	5	45	1.70
6054708--6054776	35	2.0	35	97	0	129	39	20	7	33	1.80
6054794--6054916	62	2.0	62	96	0	228	33	21	16	29	1.95
6055340--6055374	16	2.2	16	90	10	54	51	0	0	48	1.00
6057513--6057538	8	3.2	8	100	0	52	38	11	15	34	1.83
6059118--6059181	23	2.7	23	90	2	101	25	18	23	32	1.97
6063475--6063523	21	2.3	21	85	0	62	26	16	16	40	1.89
6063590--6063640	23	2.2	24	82	3	59	23	19	23	33	1.97
6064634--6064710	29	2.6	29	93	4	127	49	3	1	45	1.28
6069379--6069419	18	2.3	18	91	4	66	29	4	2	63	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6069489--6069701	110	1.9	111	97	0	401	37	7	10	44	1.68
6071366--6071404	9	4.3	9	86	0	60	33	23	33	10	1.88
6071360--6071403	21	2.1	21	95	0	79	34	20	34	11	1.88
6078474--6078514	10	4.1	10	83	0	55	29	29	0	41	1.56
6078552--6078592	18	2.3	18	91	4	66	29	4	2	63	1.28
6080251--6080291	18	2.3	18	82	0	55	29	31	17	21	1.96
6080606--6080630	12	2.1	12	100	0	50	32	24	36	8	1.84
6084880--6084920	19	2.1	19	86	9	55	48	4	4	41	1.46
6091631--6091686	29	1.9	29	96	0	103	39	28	3	28	1.73
6104378--6104478	46	2.2	46	89	3	150	25	5	17	50	1.69

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