genome.fa.s8797.2.7.7.80.10.50.1000.2.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: VEPZ01008797.1 Hibiscus syriacus cultivar Beakdansim tig00111942_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1112200

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 589 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)
132260--132938	243	2.8	243	94	1	1159	27	28	15	28	1.96
132260--132900	81	7.9	81	93	0	1032	26	28	15	29	1.96
136407--136458	16	3.2	16	69	0	50	32	5	9	51	1.58
159278--159348	2	35.5	2	97	0	133	47	0	1	50	1.09
165107--165151	14	3.3	14	79	14	58	48	24	0	26	1.51
168240--168268	14	2.1	14	100	0	58	37	13	13	34	1.85
168195--168369	89	2.0	89	97	0	332	42	13	8	36	1.73
169901--169984	35	2.6	31	73	26	84	50	0	2	47	1.14
169897--169981	36	2.3	37	79	18	106	47	0	2	50	1.14
169956--170004	18	2.8	17	78	6	53	55	2	0	42	1.11
170107--170136	16	1.9	15	93	6	51	20	26	10	43	1.83
172075--172116	16	2.6	16	78	14	50	61	0	2	35	1.09
173188--173233	24	1.9	24	90	0	74	56	2	2	39	1.24
176268--176309	17	2.5	17	88	0	57	45	0	2	52	1.13
176317--176475	33	4.6	34	70	20	91	47	1	0	50	1.13
176350--176399	19	2.7	19	72	25	52	50	4	0	46	1.20
176364--176462	42	2.3	42	82	6	119	44	2	1	52	1.19
176401--176463	20	3.2	20	66	20	53	44	0	0	55	0.99
187275--187301	13	2.1	13	100	0	54	22	40	14	22	1.90
188348--188392	23	2.0	23	90	0	72	24	26	26	22	2.00
188360--188673	149	2.1	148	89	1	477	35	21	15	27	1.94
190093--190253	64	2.5	63	85	8	200	26	21	18	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
195714--195781	3	22.0	3	73	11	57	57	2	0	39	1.14
195752--195787	18	2.0	18	94	0	63	58	0	0	41	0.98
198709--198799	31	3.0	31	96	3	168	32	6	17	42	1.75
198864--198930	19	3.5	19	93	0	107	41	10	11	35	1.76
199036--199077	21	2.0	21	95	0	75	23	21	28	26	1.99
210915--210962	22	2.2	22	88	7	71	43	6	0	50	1.27
212645--212688	2	22.0	2	100	0	88	50	0	0	50	1.00
215524--215594	33	2.1	35	89	5	110	54	1	9	33	1.42
219932--220336	201	2.0	203	87	3	593	31	12	16	39	1.86
220244--220659	213	1.9	216	98	1	811	21	13	25	38	1.91
222837--222900	29	2.2	30	75	8	71	42	6	6	45	1.54
223101--223147	14	2.9	17	71	28	57	23	17	23	36	1.95
226958--227046	33	2.8	33	89	3	119	25	28	37	8	1.86
227116--227182	34	2.0	34	90	0	107	13	26	34	25	1.93
228504--228593	31	2.9	31	89	0	126	45	8	5	40	1.59
228707--228797	29	3.1	28	78	10	85	42	2	8	46	1.47
231038--231135	3	32.7	3	91	0	133	60	0	2	37	1.09
231095--231142	15	3.2	15	84	0	69	58	0	8	33	1.28
231302--231510	113	1.8	113	89	4	332	26	21	12	38	1.90
232124--232631	82	6.2	82	96	1	858	35	20	13	30	1.91
233386--233440	16	3.2	16	84	7	65	52	7	7	32	1.56
233762--233825	6	11.0	6	72	11	53	3	15	0	81	0.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
233756--233825	10	6.8	10	70	16	54	2	15	0	81	0.81
233756--233811	17	3.5	16	80	7	60	3	14	0	82	0.81
233754--233826	29	2.5	29	80	12	96	2	19	0	78	0.88
233756--233826	15	4.6	15	81	12	65	2	16	0	80	0.83
246125--246166	18	2.3	18	84	8	50	0	14	7	78	0.95
246687--246766	3	26.7	3	89	0	124	62	0	2	35	1.09
248737--248782	18	2.6	17	86	10	65	32	4	2	60	1.28
248856--249287	111	3.9	111	97	0	801	36	7	10	45	1.67
251264--251363	53	2.0	49	80	11	112	24	6	7	63	1.43
262635--262667	14	2.4	14	94	0	57	33	6	30	30	1.82
263598--263627	2	15.0	2	100	0	60	50	0	0	50	1.00
265269--265299	6	5.2	6	100	0	62	16	0	51	32	1.44
265557--265584	2	14.0	2	100	0	56	50	0	0	50	1.00
271810--271856	20	2.4	20	75	10	53	42	2	0	55	1.12
277275--277328	23	2.3	25	72	18	62	64	1	0	33	1.04
278039--278094	24	2.3	24	96	0	103	23	25	23	28	1.99
290396--290460	31	2.1	31	100	0	130	27	16	21	33	1.95
294464--294502	17	2.4	16	83	8	51	38	7	12	41	1.72
295986--296045	2	32.5	2	80	15	76	48	0	0	51	1.00
295996--296081	33	2.5	34	88	5	120	44	0	0	55	0.99
297776--297838	23	2.7	23	92	0	99	38	20	4	36	1.74
298259--298321	23	2.7	23	90	0	90	38	19	4	38	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
298741--298803	23	2.7	23	92	0	99	38	20	4	36	1.74
297371--299994	482	5.5	482	97	0	4922	40	10	7	41	1.68
299221--299283	23	2.7	23	92	0	99	38	20	4	36	1.74
299700--299763	23	2.8	23	85	0	83	37	18	6	37	1.76
299792--300498	227	3.1	227	95	1	1267	39	8	7	44	1.63
301638--301704	18	3.5	19	76	19	59	44	1	0	53	1.09
301653--301694	21	2.0	22	85	4	59	40	0	0	59	0.97
301707--301795	46	2.0	45	88	6	135	49	0	0	50	1.00
302400--302458	22	2.5	23	83	8	66	49	0	8	42	1.33
307716--307741	6	4.3	6	100	0	52	19	34	0	46	1.50
311687--311840	60	2.6	61	82	6	190	37	5	22	33	1.78
311687--311862	60	2.9	60	78	6	187	38	6	22	32	1.79
314535--314638	39	2.7	38	79	11	113	35	16	2	45	1.62
314905--314968	32	2.0	33	84	3	85	29	23	21	25	1.99
317675--317713	17	2.4	17	95	4	71	51	5	0	43	1.24
319088--319117	2	15.5	2	93	6	53	53	0	0	46	1.00
319088--319120	13	2.6	13	95	4	59	54	0	0	45	0.99
327270--327315	22	2.0	23	83	4	58	36	10	13	39	1.79
327292--327344	21	2.5	21	78	6	63	41	13	13	32	1.82
332197--332319	53	2.3	53	87	0	165	25	14	13	47	1.80
332960--332997	15	2.7	14	80	11	51	23	0	2	73	0.95
333120--333154	18	1.9	18	88	0	52	28	2	2	65	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
334784--334842	22	2.7	22	97	0	109	18	18	23	38	1.93
335771--335853	25	3.6	25	65	25	74	20	2	8	68	1.27
336524--336578	15	3.9	14	75	15	60	61	9	0	29	1.26
342833--342890	2	29.5	2	89	3	91	44	0	0	55	0.99
343178--343229	21	2.5	21	82	14	63	25	0	7	67	1.17
343574--343661	43	2.0	43	97	0	167	32	29	4	32	1.78
347692--347739	25	2.0	24	83	4	60	27	2	6	64	1.28
350368--350402	18	1.9	18	100	0	70	25	17	28	28	1.97
353736--353827	14	6.6	14	72	17	75	43	3	2	51	1.30
353799--354610	8	105.8	8	77	15	736	40	2	7	49	1.45
353737--354430	23	31.3	22	72	18	202	40	2	7	49	1.45
353799--354568	245	3.2	244	89	8	1144	40	2	8	49	1.45
353873--354596	23	31.3	22	76	16	443	40	2	8	49	1.45
354492--354610	28	4.1	28	73	12	87	39	1	6	52	1.38
353737--354655	237	3.9	242	73	20	480	40	2	7	49	1.45
356853--357210	171	2.1	173	89	3	562	36	18	4	40	1.71
357661--357704	23	1.9	23	100	0	88	25	40	25	9	1.84
357721--357774	22	2.5	22	87	0	90	16	35	18	29	1.93
360847--360897	20	2.5	21	93	6	95	50	17	17	13	1.77
365902--366012	3	36.7	3	83	8	136	61	0	1	36	1.07
366261--367160	113	7.9	113	96	1	1610	29	20	12	37	1.90
366980--367341	181	2.0	181	94	1	636	29	19	15	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
367093--367228	68	2.0	68	100	0	272	29	17	19	33	1.95
366867--367738	294	3.0	294	95	0	1550	29	18	14	37	1.91
367161--367454	113	2.6	113	94	1	536	28	18	14	37	1.91
367274--367635	181	2.0	181	96	0	661	29	18	16	36	1.92
367387--367522	68	2.0	68	100	0	272	29	17	19	33	1.95
367455--367738	113	2.5	113	95	0	496	28	18	15	38	1.91
368136--368187	22	2.4	22	90	0	77	36	17	11	34	1.86
370756--371020	83	3.2	83	95	1	451	36	21	13	27	1.91
373568--373593	2	13.0	2	100	0	52	50	0	0	50	1.00
379896--380001	3	34.7	3	82	7	124	60	0	1	37	1.08

Tables:   1   2   3   4   5