genome.fa.s8013.2.7.7.80.10.50.1000.2.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: VEPZ01008013.1 Hibiscus syriacus cultivar Beakdansim tig00110478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1461402

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 699 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)
192650--192715	14	4.7	14	74	22	59	77	6	16	0	0.96
192663--192715	11	4.5	11	81	9	52	81	5	13	0	0.86
192663--192727	23	2.8	23	75	13	62	80	6	12	1	0.97
192665--192729	26	2.4	27	80	10	71	78	6	13	1	1.01
193331--193385	22	2.5	22	96	0	101	38	25	12	23	1.90
194308--195159	106	8.0	106	91	0	1276	34	25	18	22	1.96
195911--196003	37	2.5	37	87	0	123	43	12	12	31	1.81
196625--196732	21	5.3	20	68	14	69	33	2	0	62	1.15
196605--196693	23	4.2	21	72	21	62	34	2	2	60	1.21
196624--196695	10	6.8	10	75	21	60	37	1	1	59	1.15
196691--196772	23	3.7	23	76	15	73	26	4	0	68	1.10
196703--196772	25	3.2	21	73	21	63	24	2	0	72	0.98
196654--196772	51	2.5	45	77	13	105	29	4	0	65	1.17
196708--196770	28	2.3	27	78	8	65	26	3	0	69	1.03
196705--196773	22	3.3	21	75	16	63	26	2	0	71	1.00
196748--196799	26	2.0	27	81	11	63	23	7	0	69	1.14
196856--196911	19	2.9	19	75	19	62	23	8	1	66	1.30
202460--202546	36	2.5	35	83	7	104	31	8	17	43	1.78
202982--203015	16	2.1	16	94	0	59	32	8	26	32	1.87
207038--207124	36	2.5	35	83	7	104	31	8	17	43	1.78
207959--208002	22	2.0	22	90	0	70	36	27	9	27	1.87
219317--219349	16	2.1	16	100	0	66	57	24	12	6	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
219415--219488	10	7.6	10	66	22	50	59	21	9	9	1.57
219422--219490	16	4.3	16	90	0	102	59	21	8	10	1.57
220143--220243	24	4.2	24	92	2	150	56	18	9	14	1.66
220167--220242	14	6.0	14	71	22	69	56	21	9	13	1.64
220167--220242	38	2.0	38	87	10	111	56	21	9	13	1.64
224425--224634	86	2.5	86	96	1	379	27	27	23	21	1.99
225060--225107	24	2.0	23	96	4	87	29	8	22	39	1.83
229257--229298	20	2.1	20	90	0	66	14	21	33	30	1.93
245470--245545	24	3.2	23	67	17	57	60	6	6	26	1.46
245478--245547	23	2.9	25	75	16	92	62	5	5	25	1.40
248537--248563	3	9.0	3	100	0	54	0	33	0	66	0.92
248500--248634	69	1.9	70	96	3	254	14	28	0	57	1.37
248587--248639	23	2.3	22	78	15	54	3	32	0	64	1.12
248605--248632	14	2.0	14	100	0	56	0	42	0	57	0.99
257079--257111	6	5.5	6	100	0	66	30	18	0	51	1.46
260166--260195	2	15.0	2	92	0	51	46	3	0	50	1.18
261576--261662	44	2.0	45	86	2	122	45	18	16	19	1.85
261944--261984	2	21.0	2	95	5	75	51	0	0	48	1.00
277204--277280	15	5.1	15	71	14	50	33	2	18	45	1.63
277610--277643	2	17.0	2	100	0	68	50	0	0	50	1.00
278217--278249	16	2.1	16	94	0	57	42	12	21	24	1.86
278271--278306	16	2.2	16	100	0	72	30	19	19	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
278574--278614	22	2.0	21	85	9	57	17	14	24	43	1.86
279224--279258	16	2.2	16	94	0	61	37	2	5	54	1.39
288102--288320	114	1.9	114	94	0	384	28	13	23	34	1.93
297141--297210	2	35.5	2	97	2	133	50	0	0	50	1.00
302155--302228	3	24.7	3	94	0	130	63	0	2	33	1.09
302550--302985	113	3.9	113	94	0	739	29	19	13	37	1.90
303724--304184	83	5.5	83	94	2	784	36	22	14	27	1.92
305355--305379	11	2.3	11	100	0	50	0	8	0	92	0.40
312706--312737	15	2.1	15	94	0	55	40	6	21	31	1.78
315956--315992	15	2.7	15	88	12	53	62	8	5	24	1.44
316684--316723	14	3.1	13	82	10	55	60	0	0	40	0.97
318147--318259	3	37.7	3	91	3	183	63	0	1	34	1.05
335104--335171	27	2.5	27	100	0	136	55	11	4	27	1.55
337481--337515	18	1.9	18	94	0	61	40	14	2	42	1.60
343319--343849	263	2.0	252	84	10	689	40	19	12	27	1.87
367883--367908	2	13.0	2	100	0	52	50	0	0	50	1.00
372781--372845	2	32.5	2	100	0	130	49	0	0	50	1.00
392913--392963	24	2.1	24	88	0	75	54	23	11	9	1.66
396812--397009	53	3.7	53	75	11	213	26	25	17	31	1.97
396891--396978	28	3.1	28	96	0	158	19	22	21	36	1.95
396975--397044	35	2.0	35	88	0	104	32	24	11	31	1.91
397642--397671	2	15.0	2	100	0	60	50	50	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399243--399289	22	2.1	23	88	4	69	25	10	25	38	1.88
400726--400994	141	1.9	141	89	1	414	24	21	19	34	1.96
404104--404265	60	2.7	59	80	3	155	45	3	17	33	1.66
405894--406011	60	2.0	60	85	6	159	45	5	16	32	1.71
410268--410296	7	4.1	7	100	0	58	0	86	0	13	0.58
412922--412964	4	10.8	4	100	0	86	25	0	23	51	1.49
415389--415458	34	2.1	32	86	5	95	24	28	14	32	1.94
415742--415783	21	2.0	21	95	0	75	26	28	21	23	1.99
415889--415955	19	3.5	19	91	0	89	35	13	10	40	1.79
416020--416079	29	2.0	31	90	6	97	41	16	6	35	1.75
420374--420402	2	14.5	2	100	0	58	48	0	0	51	1.00
420770--420845	36	2.1	36	85	7	100	47	1	2	48	1.24
420991--421028	20	1.9	20	88	0	58	21	26	10	42	1.85
421185--421218	2	17.0	2	100	0	68	50	0	0	50	1.00
422323--422384	29	2.1	29	93	0	106	16	30	33	19	1.94
422989--423059	28	2.4	30	86	11	103	33	0	11	54	1.36
423861--423919	26	2.3	25	75	18	66	47	8	3	40	1.51
426806--426940	26	5.3	26	81	11	147	45	2	8	42	1.50
426748--427065	161	2.0	161	99	0	627	44	2	9	43	1.50
426852--427175	26	13.1	25	75	15	164	43	1	8	45	1.46
426854--427178	124	2.6	122	89	4	476	44	1	8	45	1.46
427098--427140	12	3.3	13	81	12	52	44	2	2	51	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426806--427210	37	10.8	37	71	17	128	43	2	8	45	1.48
426806--427194	14	29.1	14	70	17	149	43	2	8	44	1.48
426748--427135	161	2.4	159	89	5	523	43	2	9	44	1.49
427147--427220	38	1.9	38	83	5	96	45	4	5	44	1.45
427402--427434	17	1.9	17	93	0	57	36	6	12	45	1.66
428357--428387	15	2.1	14	94	5	53	54	6	0	38	1.26
428441--428522	34	2.5	34	83	13	93	48	13	0	37	1.42
428562--428694	45	3.0	45	80	14	136	48	12	0	39	1.40
428634--428722	41	2.2	40	78	8	90	46	10	1	42	1.45
428890--428935	23	2.0	23	95	0	83	10	36	4	47	1.58
429082--429137	27	2.1	27	100	0	112	25	21	25	28	1.99
429213--429292	29	2.8	29	86	3	108	21	28	31	18	1.97
429311--429367	28	2.0	28	93	0	96	17	36	21	24	1.94
429370--429409	9	4.2	9	81	12	53	12	17	32	37	1.87
429370--429408	20	2.0	20	94	0	69	12	17	30	38	1.88
434794--434833	10	4.0	10	84	12	55	22	30	25	22	1.99
434787--434832	20	2.5	17	78	18	56	19	30	26	23	1.98
437267--437358	24	3.8	24	88	5	132	25	16	20	38	1.93
438709--438749	21	2.0	21	90	0	64	53	2	2	41	1.27
438825--438890	32	2.1	30	89	10	98	48	6	12	33	1.65
438825--438890	30	2.1	32	89	10	102	48	6	12	33	1.65
441755--441793	16	2.4	16	100	0	78	12	25	25	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444956--445695	370	2.0	370	97	0	1381	21	22	18	37	1.95
452135--452174	17	2.4	17	95	0	71	42	5	20	32	1.73
453860--453900	2	20.5	2	100	0	82	51	0	0	48	1.00
454245--454284	18	2.2	19	86	4	55	50	0	0	50	1.00
455323--455347	12	2.1	12	100	0	50	20	16	24	40	1.91
459944--459968	12	2.1	12	100	0	50	20	16	24	40	1.91
465318--465347	2	14.5	2	93	6	51	46	3	0	50	1.18
474632--475024	188	2.1	185	91	2	637	43	2	7	46	1.47
480717--480842	62	2.0	62	100	0	252	26	19	19	34	1.95
482406--482435	2	15.0	2	100	0	60	50	0	0	50	1.00

Tables:   1   2   3   4   5   6