genome.fa.s9579.2.7.7.80.10.50.1000.2.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

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   

This is table  2  of  29  ( 3390 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)
197274--197313	20	2.0	21	90	5	64	40	0	0	60	0.97
197279--197354	21	3.9	19	71	22	52	43	0	0	56	0.99
197272--197331	21	2.9	21	78	11	54	43	0	0	56	0.99
197263--197350	27	3.2	27	73	9	79	42	0	0	57	0.98
197262--197361	27	3.6	27	72	10	69	47	0	0	53	1.00
197455--197520	27	2.4	27	82	5	80	65	4	0	30	1.13
197735--197798	26	2.4	28	80	17	73	26	3	6	64	1.33
197787--197827	20	2.2	19	86	8	57	31	0	0	68	0.90
198038--198078	14	3.0	14	92	3	66	12	14	17	56	1.68
200310--200351	22	1.9	22	85	9	59	54	26	0	19	1.44
207531--207590	31	2.0	29	81	18	70	33	11	10	45	1.74
207773--207833	23	2.7	23	81	0	68	32	13	8	45	1.72
211359--211401	19	2.4	18	80	7	52	51	0	2	46	1.13
214450--214484	18	1.9	18	88	0	52	5	20	37	37	1.76
223613--223741	44	2.9	44	97	0	240	43	17	14	24	1.86
223613--223741	22	5.9	22	90	0	204	43	17	14	24	1.86
224269--224333	35	1.9	33	84	12	87	32	16	0	50	1.46
224650--224695	22	2.1	22	87	0	65	23	23	15	36	1.93
225428--225461	9	3.7	9	88	7	50	14	23	29	32	1.94
225465--225517	13	4.3	13	83	13	76	18	49	18	13	1.80
225576--226482	453	2.0	453	97	0	1697	28	19	16	35	1.93
233115--233164	9	5.3	9	86	9	73	28	20	14	38	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
233115--233175	29	2.1	29	100	0	122	26	19	16	37	1.93
233115--233164	20	2.7	18	84	9	73	28	20	14	38	1.91
233185--233230	18	2.6	18	85	0	56	19	47	17	15	1.82
236525--236615	30	3.1	30	81	7	105	32	15	6	45	1.72
238722--238761	13	3.1	13	85	0	53	47	0	0	52	1.00
238725--238785	19	3.1	19	77	9	68	47	0	0	52	1.00
239377--239427	23	2.2	23	92	0	84	25	27	21	25	1.99
246364--246508	64	2.2	64	81	6	159	26	15	25	32	1.96
249001--249097	44	2.2	44	83	7	126	25	18	27	27	1.98
254793--254841	21	2.3	21	100	0	98	26	20	24	28	1.99
254880--254918	19	2.1	19	85	0	51	30	20	25	23	1.98
255290--255383	49	2.0	49	83	8	124	41	0	9	48	1.36
255743--255803	17	3.4	17	77	16	68	40	0	9	49	1.36
256582--256678	26	3.7	26	71	20	76	46	6	3	44	1.44
259225--259347	44	3.0	40	76	17	135	47	11	0	39	1.45
259240--259347	39	2.6	43	82	12	136	48	11	0	39	1.45
259357--259396	21	1.9	21	100	0	80	57	15	0	27	1.38
259667--259753	23	3.7	23	87	3	120	36	17	27	18	1.93
264655--264709	28	2.0	26	89	6	83	25	14	7	52	1.67
282567--282712	59	2.5	59	84	4	177	34	21	4	39	1.74
283799--283835	20	1.9	19	89	10	58	45	10	24	18	1.81
291809--291886	29	2.7	28	82	7	93	32	17	8	41	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
294117--294147	3	10.3	3	100	0	62	64	0	0	35	0.94
295334--295467	44	3.1	43	82	7	137	26	17	19	37	1.93
295352--295466	42	2.7	42	85	5	133	29	16	17	36	1.92
295740--295798	21	2.8	20	84	5	64	52	18	3	25	1.61
297084--297143	22	2.8	22	80	12	70	48	21	5	25	1.70
299713--299751	20	2.0	21	90	10	64	53	23	17	5	1.63
300186--300614	41	10.4	41	83	6	397	32	19	19	28	1.96
306277--306375	21	4.8	20	76	6	81	37	22	18	22	1.94
306342--306535	20	9.6	20	80	5	212	35	25	19	19	1.95
306342--306535	60	3.2	60	82	0	244	35	25	19	19	1.95
306918--306988	33	2.2	33	92	0	115	11	22	18	47	1.80
307068--307177	21	5.8	20	74	17	108	45	18	24	11	1.83
307061--307177	41	3.1	38	81	14	145	46	17	25	11	1.81
307128--307184	14	3.7	14	75	20	60	43	22	24	8	1.81
307120--307200	33	2.5	33	95	0	144	46	22	22	8	1.78
307196--307293	19	5.7	19	70	22	90	10	23	22	43	1.83
307218--307307	14	5.7	14	72	23	72	8	24	23	43	1.82
307201--307315	33	3.5	33	97	0	221	9	23	20	46	1.80
309014--309389	93	4.1	93	99	0	736	22	12	19	46	1.83
309437--309551	19	6.3	19	79	10	132	46	27	16	9	1.78
309547--309681	19	7.6	19	76	16	137	10	19	24	45	1.81
309569--309625	14	3.7	14	77	20	60	8	21	24	45	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
309552--309644	33	2.8	33	98	0	177	9	20	22	47	1.79
311735--311832	19	5.4	19	84	13	143	44	18	22	14	1.85
311735--311850	53	2.2	53	96	1	216	43	18	24	13	1.87
311857--312009	33	4.5	33	74	16	159	13	22	17	45	1.84
311879--312095	19	12.4	19	77	19	249	13	21	17	46	1.83
311857--312067	52	4.0	52	99	0	413	13	23	17	45	1.83
311898--312128	33	6.8	33	77	13	236	13	22	19	45	1.84
314592--314638	24	2.0	24	87	8	69	38	21	14	25	1.92
315321--315550	20	11.5	20	85	3	230	20	18	24	36	1.94
315517--315614	21	4.8	20	75	15	83	22	17	22	37	1.94
315517--315615	42	2.4	43	78	8	107	22	17	23	37	1.94
316141--316233	27	3.5	27	81	7	82	41	24	10	22	1.85
316184--316237	27	2.0	27	89	7	83	42	27	9	20	1.82
316185--316259	27	2.8	27	80	8	80	40	25	10	24	1.87
317396--317440	22	2.0	23	82	4	56	22	24	22	31	1.99
319707--319868	81	2.0	81	92	0	270	40	13	3	42	1.62
319806--319858	15	3.3	15	75	14	52	35	11	0	52	1.37
319806--319863	20	3.3	18	79	11	59	36	10	0	53	1.35
323186--323425	108	2.2	108	80	4	261	39	9	10	40	1.73
324857--324886	14	2.1	14	93	0	51	16	0	23	60	1.36
328944--329038	40	2.4	40	96	0	172	33	21	22	23	1.97
328944--329034	20	4.6	20	77	10	105	35	19	20	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
329185--329226	22	1.9	22	95	0	75	23	38	16	21	1.93
329613--329680	20	3.5	20	81	2	84	13	14	22	50	1.77
331593--331660	20	3.4	19	83	4	82	35	25	20	19	1.96
332241--332282	21	2.2	19	87	12	59	21	35	19	23	1.96
333718--333783	30	2.2	30	97	0	123	30	3	12	54	1.52
333933--334210	20	14.9	20	75	13	243	22	20	21	35	1.96
333953--334054	53	1.9	54	91	2	170	21	19	24	34	1.96
334026--334182	54	2.9	54	91	1	253	21	21	21	35	1.96
333921--334205	74	3.9	73	84	5	333	21	20	21	36	1.96
334385--334419	18	1.9	18	94	0	61	17	2	25	54	1.57
336666--336719	24	2.2	24	93	0	90	40	20	18	20	1.91
337538--337728	20	9.4	20	77	11	147	27	21	23	27	1.99
337533--337671	60	2.3	60	89	1	215	25	22	20	31	1.98
337656--337738	40	2.0	41	83	4	105	32	19	25	22	1.97
340367--340392	13	2.0	13	100	0	52	38	15	23	23	1.92
344851--344980	61	2.2	59	83	6	158	60	16	10	13	1.59
345448--345487	21	1.9	21	89	0	62	52	5	5	37	1.45
350826--350879	19	2.8	19	83	10	74	51	12	1	33	1.51
352092--352180	23	3.8	24	70	15	69	33	25	21	19	1.97
352294--352362	24	2.9	24	93	0	111	27	26	26	20	1.99
354838--354876	18	2.2	18	100	0	78	10	33	0	56	1.33
361414--361452	19	2.1	19	86	13	55	30	5	5	58	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
361772--361799	2	14.0	2	100	0	56	50	0	0	50	1.00
384496--384559	31	2.1	31	96	0	119	23	17	12	46	1.81
386225--386262	19	2.0	19	85	10	51	52	7	0	39	1.31
386647--386706	23	2.7	23	82	15	72	55	13	15	16	1.70
386662--386709	23	2.1	23	92	7	80	54	14	12	18	1.71
387978--388015	6	6.3	6	96	0	58	60	0	0	39	0.97
389618--389648	16	1.9	16	93	0	53	54	0	3	41	1.16
390792--390823	2	16.0	2	100	0	64	50	0	0	50	1.00
393289--393339	23	2.2	24	80	16	63	17	0	31	50	1.46
397204--397235	11	2.8	12	86	13	50	28	3	25	43	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