genome.fa.s6655.2.7.7.80.10.50.1000.2.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: VEPZ01006655.1 Hibiscus syriacus cultivar Beakdansim tig00016430_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  456786

Tables:   1   2   3   

This is table  2  of  3  ( 283 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)
167682--167725	22	2.0	22	100	0	88	36	0	13	50	1.42
167749--167807	31	1.9	31	96	0	109	42	8	6	42	1.61
183816--183911	30	3.2	29	92	7	165	19	12	25	42	1.86
187323--187373	19	2.7	19	100	0	102	29	17	29	23	1.97
187258--187437	83	2.2	83	86	7	240	33	17	23	25	1.96
188912--189225	149	2.1	150	87	1	461	26	15	21	35	1.94
189193--189237	23	2.0	23	95	0	81	20	28	26	24	1.99
189880--189915	17	2.1	17	100	0	72	16	25	36	22	1.94
192506--192648	64	2.2	64	86	8	193	34	16	21	27	1.95
192524--192648	64	1.9	65	90	6	200	35	16	20	27	1.94
194123--194436	149	2.1	148	89	2	479	26	16	21	35	1.95
194404--194448	23	2.0	23	95	0	81	20	28	26	24	1.99
197737--197897	64	2.5	63	84	7	191	34	18	21	26	1.96
199368--199673	149	2.1	148	89	0	468	26	16	21	35	1.94
199649--199693	23	2.0	23	90	0	72	20	31	24	24	1.98
202284--202331	25	1.9	25	95	0	87	47	41	10	0	1.37
209615--209744	42	3.1	42	90	0	206	13	25	25	35	1.93
210058--210157	30	3.4	30	71	17	100	43	25	12	20	1.86
211491--211569	39	2.0	39	95	0	140	35	5	29	30	1.79
213130--213156	14	1.9	14	100	0	54	48	0	0	51	1.00
213261--213532	135	2.0	135	97	0	508	44	9	4	42	1.56
221063--221095	14	2.2	15	89	10	50	69	0	0	30	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
221164--221203	19	2.1	19	100	0	80	32	40	5	22	1.76
225333--225388	26	2.2	26	84	12	71	16	0	5	78	0.92
225328--225416	36	2.4	36	83	10	110	14	3	5	76	1.10
232293--232649	151	2.4	151	88	0	509	36	17	9	36	1.83
243804--243846	16	2.7	16	96	0	77	41	4	13	39	1.66
244304--244340	3	12.7	3	94	5	67	35	0	0	64	0.94
245191--245216	11	2.4	11	100	0	52	26	0	53	19	1.45
252070--252131	4	16.2	4	86	9	94	51	22	0	25	1.48
252474--252608	71	1.9	72	84	4	184	32	19	13	34	1.90
252474--252608	36	3.8	34	81	6	135	32	19	13	34	1.90
252694--252775	36	2.3	36	78	4	94	36	19	12	31	1.89
253004--253090	29	3.1	27	82	15	113	29	8	13	48	1.71
252973--253258	120	2.4	121	83	3	344	30	13	11	44	1.79
253495--253555	31	1.9	31	84	15	81	32	14	9	42	1.79
254107--254170	28	2.3	28	86	10	87	26	14	14	45	1.82
254118--254188	28	2.5	28	84	4	90	28	15	12	43	1.83
254620--254668	3	16.7	3	95	4	91	34	0	0	65	0.93
258398--258430	14	2.3	15	94	5	59	9	39	15	36	1.79
263120--263170	23	2.2	24	96	3	95	11	21	5	60	1.52
263120--263180	23	2.7	23	89	5	70	11	24	4	59	1.52
267912--267971	31	1.9	31	93	0	102	40	6	10	43	1.64
268553--268650	38	2.6	38	79	6	94	62	1	1	35	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
268576--268629	18	2.8	20	80	8	67	66	0	0	33	0.92
268660--268744	14	6.5	14	69	20	67	55	1	1	42	1.15
268698--268785	24	3.4	27	79	16	105	55	2	0	42	1.12
268698--268785	28	3.4	28	80	15	116	55	2	0	42	1.12
268639--268790	64	2.4	64	90	5	236	55	1	0	41	1.16
277412--277537	58	2.1	60	80	8	143	33	23	3	38	1.74
277675--277811	60	2.3	60	79	0	148	47	4	16	31	1.66
277721--277833	60	1.9	60	83	3	147	47	5	14	32	1.66
277927--277970	20	2.3	18	84	7	52	52	4	2	40	1.34
278053--278096	23	1.9	23	85	0	61	63	0	2	34	1.07
278426--278461	19	1.9	19	88	5	56	52	2	2	41	1.30
278426--278473	19	2.5	19	83	10	53	56	2	2	39	1.23
279393--279576	60	3.1	60	75	16	150	40	4	20	34	1.74
280208--280670	238	1.9	238	85	3	624	25	20	20	33	1.97
282037--282171	44	3.1	44	80	6	175	21	15	14	48	1.81
285646--285719	38	1.9	38	83	0	94	40	13	8	37	1.74
286496--286535	21	1.9	21	84	0	53	27	22	7	42	1.80
287975--288051	30	2.5	31	91	4	120	38	3	22	35	1.72
288299--288367	23	3.2	23	65	23	67	46	18	11	23	1.82
288273--288415	42	3.5	42	92	6	242	48	20	8	23	1.76
288280--288344	19	3.2	19	65	23	51	52	20	6	21	1.68
290874--290927	24	2.3	23	90	3	81	50	9	7	33	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
291626--291671	23	2.0	23	86	0	65	23	23	10	41	1.86
295517--295600	28	2.9	29	72	11	75	36	9	5	47	1.61
296376--296400	13	1.9	13	100	0	50	76	0	24	0	0.80
301149--301198	24	2.1	24	88	0	73	36	12	30	22	1.90
303030--303104	37	2.1	36	92	2	123	34	14	24	26	1.94
305960--306011	18	2.8	18	82	2	59	30	0	3	65	1.10
307033--307077	20	2.2	20	88	0	63	44	20	20	15	1.87
306958--307057	49	2.0	49	84	0	128	38	12	20	30	1.88
307109--307152	20	2.2	20	84	15	65	43	22	22	11	1.85
307117--307247	20	6.4	21	76	10	98	39	21	16	22	1.92
307007--307159	75	2.0	76	93	1	263	39	16	19	24	1.91
307137--307233	40	2.4	41	89	5	162	41	18	17	22	1.90
307528--307603	20	3.8	20	77	6	73	21	15	22	40	1.90
307569--307644	20	3.8	21	77	8	77	19	15	31	32	1.94
308018--308069	20	2.6	20	84	6	70	19	15	21	44	1.87
311057--311095	18	2.2	18	85	0	51	35	2	0	61	1.10
311676--311712	18	2.1	18	95	5	67	43	16	0	40	1.48
314914--314987	30	2.5	29	84	4	94	27	12	20	40	1.87
315180--315218	17	2.4	17	95	4	71	43	0	5	51	1.24
316394--316458	19	3.3	20	83	8	80	10	3	9	76	1.11
316393--316459	20	3.3	20	77	18	77	10	2	8	77	1.09
316327--316574	136	1.8	136	84	1	336	34	4	9	51	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
316529--316574	20	2.2	21	88	3	67	10	4	8	76	1.15
320602--320626	6	4.2	6	100	0	50	68	16	0	16	1.22
322664--322706	22	2.0	22	81	9	52	58	9	6	25	1.54
322822--322891	36	1.9	36	88	5	106	51	20	4	24	1.65
327374--327560	60	3.2	60	83	4	238	33	25	3	37	1.74
327380--327473	31	3.1	31	67	14	88	36	22	4	37	1.74
333834--333925	31	2.9	32	85	3	114	19	17	6	56	1.62
335608--335645	18	2.2	18	90	9	62	68	2	2	26	1.16
341606--341681	35	2.2	35	90	0	116	43	17	19	19	1.88
343290--343375	30	2.7	32	85	8	115	15	18	11	54	1.70
344617--344648	13	2.5	13	94	0	55	25	25	15	34	1.95
348870--348945	35	2.2	35	90	0	116	43	17	19	19	1.88
352422--352741	153	2.1	156	91	7	528	45	5	19	30	1.74
353444--353512	23	3.2	23	63	23	58	47	17	11	23	1.80
353413--353523	42	2.6	42	94	1	195	49	18	8	23	1.74
353425--353489	19	3.2	19	65	23	51	52	20	6	21	1.68
356023--356077	24	2.3	24	100	0	110	47	3	7	41	1.49
358934--359055	60	2.0	60	96	0	226	26	27	16	29	1.97
364713--364799	31	2.7	32	82	10	108	16	19	11	52	1.73
368050--368086	13	2.8	13	91	0	65	16	48	21	13	1.80
368089--368120	7	4.4	7	92	7	55	12	34	28	25	1.92
368086--368119	15	2.3	15	100	0	68	14	35	26	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
369429--369464	18	2.0	18	88	0	54	52	0	16	30	1.44
370573--370687	24	4.8	24	87	6	153	23	16	19	40	1.90
370569--370696	24	5.3	24	87	7	111	23	15	18	42	1.89
372871--372913	13	3.3	13	90	0	59	18	46	18	16	1.84
372889--372935	8	6.5	8	77	22	59	14	38	25	21	1.92
372905--372936	7	4.4	7	92	7	55	12	34	28	25	1.92
372889--372935	15	3.3	15	91	5	71	14	38	25	21	1.92
374244--374279	18	2.0	18	88	0	54	52	0	16	30	1.44
375387--375501	24	4.8	24	87	6	153	23	16	19	40	1.90
375383--375510	24	5.3	24	87	7	111	23	15	18	42	1.89

Tables:   1   2   3