genome.fa.s8747.2.7.7.80.10.50.1000.2.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  2  of  51  ( 6054 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)
247526--247988	59	7.8	59	80	7	478	38	11	20	29	1.88
247526--247873	177	2.0	177	88	1	527	37	11	20	30	1.88
247902--248016	60	1.9	61	85	5	162	33	14	21	29	1.94
248169--248513	44	8.0	44	88	5	481	40	5	19	34	1.76
248337--248414	36	2.2	36	92	0	129	42	3	17	35	1.68
248293--248513	80	2.7	80	84	6	271	39	5	20	34	1.76
248249--248499	124	2.0	117	80	11	259	40	5	20	34	1.75
248384--248534	45	3.4	45	89	0	223	36	4	23	35	1.76
253942--253972	13	2.4	13	100	0	62	22	45	16	16	1.85
253918--253958	21	2.0	21	85	0	55	19	43	17	19	1.88
254797--254830	2	17.0	2	93	0	59	47	0	2	50	1.16
258019--258058	21	1.9	21	89	0	62	25	30	30	15	1.95
263399--263460	2	31.0	2	100	0	124	50	0	0	50	1.00
265022--265087	3	21.7	3	90	3	105	63	0	0	36	0.95
265248--265653	129	3.1	128	77	7	329	29	17	26	25	1.98
265291--265708	129	3.2	128	78	7	369	28	18	26	25	1.98
265846--266018	91	1.9	91	91	2	285	23	20	15	40	1.91
265932--266575	117	5.6	117	90	4	915	24	21	15	38	1.92
266516--267040	136	3.9	135	88	3	708	26	19	18	34	1.95
266516--267021	269	1.9	264	86	4	721	26	19	18	35	1.95
267068--267205	42	3.3	41	83	7	172	34	18	18	28	1.95
267206--267371	90	1.8	90	90	0	269	37	19	15	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
273983--274033	8	6.2	8	76	19	52	39	0	1	58	1.09
273988--274041	3	18.7	3	80	14	60	38	0	1	59	1.08
273987--274058	25	2.9	25	83	4	74	41	1	1	55	1.17
278457--278494	2	19.0	2	100	0	76	50	0	0	50	1.00
280056--280118	3	20.7	3	80	3	72	57	0	0	42	0.99
280077--280131	28	2.0	27	86	6	76	47	1	0	50	1.11
282964--283011	20	2.5	19	81	15	55	37	4	16	41	1.68
283118--283147	2	15.0	2	100	0	60	50	0	0	50	1.00
283512--283589	39	2.0	39	100	0	156	33	12	23	30	1.92
284963--284996	16	2.1	17	88	5	52	52	0	0	47	1.00
284943--285010	20	3.6	18	75	18	59	55	0	0	44	0.99
285880--285940	32	1.9	31	90	3	95	44	11	8	36	1.71
292200--292243	21	2.1	21	95	0	79	20	29	20	29	1.98
292765--292789	2	12.5	2	100	0	50	52	0	0	48	1.00
293912--293955	15	2.9	15	82	3	52	65	2	0	31	1.05
294933--294957	8	3.1	8	100	0	50	88	0	0	12	0.53
294819--294991	70	2.4	68	83	8	188	68	1	6	23	1.20
296055--296115	14	4.6	14	82	15	51	60	0	1	37	1.07
296056--296130	19	4.1	19	81	11	77	58	0	4	37	1.17
296073--296120	14	3.3	15	85	11	64	52	0	4	43	1.20
296056--296120	5	14.0	5	84	10	61	58	0	3	38	1.14
296149--296240	39	2.3	40	85	5	109	51	5	2	41	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
296249--296378	36	3.6	34	80	9	143	43	11	2	42	1.53
296193--296474	38	7.6	37	76	17	264	45	9	2	43	1.48
296260--296542	38	7.2	39	75	17	139	44	9	2	43	1.49
300974--301083	42	2.6	43	79	15	122	37	7	1	53	1.39
301000--301098	43	2.2	45	81	15	109	38	7	3	51	1.45
301030--301082	28	2.0	26	88	7	79	41	5	0	52	1.25
301090--301128	17	2.3	17	81	0	51	53	5	0	41	1.23
301155--301213	22	2.8	20	85	9	82	45	3	1	49	1.28
302753--302822	17	4.1	17	77	3	68	41	8	15	34	1.78
302765--302808	18	2.5	18	85	10	56	43	11	9	36	1.72
305297--305484	97	1.9	97	83	3	245	41	19	10	28	1.84
310628--310668	17	2.4	17	91	0	64	41	7	17	34	1.77
310662--310710	20	2.5	20	87	6	75	42	14	12	30	1.82
311067--311151	31	2.9	30	85	5	102	35	7	4	52	1.49
313485--313708	112	2.0	112	97	0	421	36	14	12	36	1.84
315024--315302	22	12.4	23	70	20	157	39	7	2	50	1.46
315024--315074	2	25.5	2	100	0	102	50	0	0	49	1.00
315061--315294	113	2.1	107	79	12	244	37	8	2	50	1.48
315468--315511	20	2.2	20	91	0	70	40	4	9	45	1.56
315625--315744	8	15.9	8	72	23	84	34	10	0	54	1.41
315631--315834	22	10.2	21	66	23	86	34	11	0	53	1.41
315656--315831	52	3.2	51	72	21	167	35	11	0	52	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
315634--315793	74	2.2	75	87	6	229	33	12	0	53	1.43
315716--315822	39	2.7	39	86	11	139	33	13	0	53	1.40
315640--315834	13	15.5	12	66	27	70	34	11	0	53	1.41
315750--315834	39	2.3	39	87	6	122	37	9	0	52	1.34
317331--317387	17	3.3	17	80	4	60	38	10	14	36	1.80
317360--317408	20	2.5	20	90	6	75	44	14	8	32	1.74
323150--323255	24	4.4	24	73	4	88	47	14	14	24	1.81
323608--323637	12	2.5	12	94	0	51	30	26	16	26	1.97
325451--325483	17	2.0	17	88	5	50	33	6	12	48	1.65
329819--329866	13	3.7	13	85	0	69	31	18	14	35	1.91
329819--329873	13	4.2	13	83	0	65	29	20	14	36	1.92
329814--329866	26	2.0	26	92	0	88	33	18	13	33	1.90
331530--331572	20	2.2	20	100	0	86	30	23	0	46	1.52
335980--336030	17	3.0	17	77	5	50	39	7	17	35	1.79
336024--336072	20	2.5	20	83	6	66	42	12	12	32	1.79
336415--336504	2	43.5	2	69	22	53	44	4	3	47	1.39
336437--336510	16	4.9	15	73	18	64	39	6	2	51	1.43
336421--336518	30	3.2	30	84	9	117	41	7	2	48	1.42
337050--337121	14	5.2	14	76	14	53	40	6	1	51	1.37
337053--337293	23	10.9	22	66	22	89	39	7	2	51	1.44
337151--337215	22	2.9	22	79	4	67	38	7	4	49	1.52
337181--337229	22	2.2	22	82	7	55	36	8	4	51	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
337050--337295	93	2.7	92	75	13	224	39	6	2	50	1.44
337235--337311	40	1.9	39	82	7	93	42	2	2	51	1.29
337322--337366	21	2.2	21	80	7	58	48	2	4	44	1.35
337233--337397	2	87.0	2	64	22	63	46	3	2	48	1.30
338397--338435	17	2.4	16	83	8	51	41	2	17	38	1.64
342534--342574	20	2.0	20	95	0	73	39	14	12	34	1.84
342632--342674	18	2.5	17	81	11	52	41	9	16	32	1.80
342916--343002	2	43.5	2	74	21	76	47	3	2	47	1.32
342931--343004	27	2.8	25	82	13	87	44	5	1	48	1.34
343730--343779	14	3.6	14	73	24	52	24	26	32	18	1.97
346255--346436	70	2.6	69	82	6	190	37	7	3	51	1.46
346291--346622	47	7.3	46	71	19	173	37	8	3	50	1.48
346295--346450	13	11.8	13	64	26	53	35	7	3	53	1.48
346537--346601	32	2.0	33	82	11	71	38	4	6	50	1.48
346478--346580	15	6.9	14	68	29	54	35	6	2	54	1.42
346536--346631	40	2.3	41	82	8	106	42	4	5	47	1.45
346613--346727	15	7.7	15	72	18	53	47	2	7	41	1.46
346691--346724	14	2.4	14	90	5	50	35	2	2	58	1.28
346768--347065	2	144.0	2	73	15	214	42	3	3	50	1.35
346752--346858	18	5.6	20	88	5	98	44	1	4	48	1.34
347047--347107	27	2.2	28	85	5	88	37	9	3	49	1.52
347149--347222	19	3.9	19	73	16	55	54	4	8	33	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347307--347414	2	52.5	2	73	15	87	45	1	3	49	1.30
347352--347931	22	26.9	21	68	22	141	37	7	3	52	1.46
347348--347489	15	9.4	16	72	20	85	38	5	2	53	1.39
347292--347489	81	2.5	81	82	10	212	40	4	3	51	1.40
347350--347475	8	15.8	8	71	19	59	37	5	3	53	1.40
347438--347500	8	8.1	8	74	13	51	36	7	3	52	1.47
347508--347558	24	2.2	23	89	3	75	41	5	0	52	1.25
347612--347692	14	5.9	13	74	17	67	34	3	2	59	1.29
347709--347863	78	1.9	78	88	5	229	34	8	2	54	1.44
347876--347961	2	46.0	2	77	13	94	51	2	0	46	1.13

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   40   41   42   43   44   45   46   47   48   
          49   50   51