genome.fa.s8001.2.7.7.80.10.50.1000.2.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: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3902382

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  2  of  18  ( 2081 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)
222056--222178	39	3.2	39	94	0	210	21	18	29	30	1.97
225502--225610	52	2.1	52	84	0	137	30	19	32	18	1.95
226306--226339	6	5.5	6	96	3	59	17	0	0	82	0.67
226382--226406	13	1.9	13	100	0	50	40	0	12	48	1.40
229458--229518	32	1.9	32	89	0	95	13	16	8	62	1.53
229755--229825	29	2.4	30	85	2	99	46	18	18	16	1.84
229755--229833	30	2.7	29	86	2	104	45	18	18	16	1.86
233791--233888	31	3.2	31	86	5	144	53	10	11	25	1.68
235155--235242	34	2.6	34	96	1	158	21	22	15	39	1.91
241733--241792	31	1.9	31	86	0	84	31	21	25	21	1.98
243281--243327	2	23.5	2	100	0	94	48	0	51	0	1.00
249470--249505	18	2.0	18	100	0	72	33	22	22	22	1.97
253983--254025	21	2.0	21	86	8	61	27	13	41	16	1.86
254532--254589	2	29.0	2	83	13	75	44	3	1	50	1.29
254600--254632	16	2.0	17	88	5	50	57	0	3	39	1.14
269634--269689	4	14.5	4	88	7	89	48	26	1	23	1.61
273259--273340	15	5.5	15	83	2	103	37	7	19	35	1.80
273253--273340	45	2.0	44	88	2	131	39	6	20	32	1.79
273259--273340	30	2.8	30	90	1	121	37	7	19	35	1.80
273323--273372	20	2.5	20	100	0	100	40	10	16	34	1.81
273560--273613	24	2.2	25	78	12	60	48	1	1	48	1.23
273859--273976	41	2.9	42	93	3	204	44	18	20	16	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
276561--276619	2	30.0	2	93	3	102	47	0	1	50	1.11
294674--294707	16	2.1	16	88	0	50	41	0	20	38	1.53
295406--295489	42	2.0	42	100	0	168	38	2	16	42	1.61
295406--295477	23	3.3	23	67	21	73	34	2	16	45	1.62
298355--298403	24	2.0	24	92	0	80	36	12	20	30	1.89
306533--306579	19	2.4	20	96	3	87	34	12	19	34	1.89
309308--309364	23	2.5	23	82	0	69	7	24	14	54	1.64
317091--317220	47	2.7	47	83	1	143	29	21	16	33	1.95
318334--318680	41	8.4	42	75	14	260	24	18	7	49	1.72
318376--318695	84	3.9	80	75	16	228	25	19	6	48	1.73
318376--318663	124	2.3	124	81	9	313	25	19	6	48	1.74
318488--318695	83	2.5	83	78	15	209	25	19	5	48	1.71
322715--322752	20	1.9	20	88	0	58	26	26	5	42	1.76
324222--324263	16	2.5	16	88	7	57	52	2	0	45	1.13
328906--328961	2	28.0	2	100	0	112	50	0	0	50	1.00
329318--329357	21	1.9	21	90	10	64	55	2	12	30	1.50
329758--329788	14	2.2	14	94	0	53	41	25	9	22	1.84
330328--330374	19	2.4	20	75	3	51	59	0	2	38	1.09
346454--346508	2	27.5	2	100	0	110	50	0	0	49	1.00
347114--347171	26	2.2	26	78	6	64	31	5	1	62	1.27
348593--348626	10	3.0	12	83	16	54	50	0	0	50	1.00
349134--349328	99	2.0	99	93	0	336	21	17	26	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
350415--350473	12	4.6	12	73	22	57	0	18	1	79	0.81
350415--350473	20	3.0	19	81	16	75	0	18	1	79	0.81
362496--362528	17	2.0	17	88	5	50	51	9	15	24	1.72
363755--363868	40	2.8	41	70	18	103	28	22	18	30	1.97
363755--363848	20	4.7	20	74	10	75	24	24	18	32	1.97
363838--363889	21	2.5	21	87	3	70	38	17	23	21	1.93
363881--363988	57	1.9	57	88	0	162	34	24	20	21	1.97
365954--366040	20	4.3	20	91	2	131	37	24	20	17	1.93
366076--366113	20	1.9	20	94	0	67	44	18	23	13	1.85
366109--366154	19	2.4	19	85	0	56	17	13	21	47	1.81
366138--366198	14	4.0	14	76	19	59	11	22	19	45	1.82
366126--366198	33	2.2	33	87	4	103	12	20	20	46	1.82
366123--366185	19	3.6	19	70	24	57	14	19	20	46	1.84
366325--366361	14	2.6	14	86	0	56	48	21	0	29	1.50
367782--367842	21	2.9	22	74	18	67	22	11	40	24	1.87
367755--367846	42	2.2	42	86	1	132	21	14	41	22	1.89
368141--368184	20	2.2	20	91	0	70	52	20	13	13	1.74
368171--368239	20	3.5	20	85	0	93	34	24	23	17	1.96
368318--368393	33	2.3	34	81	2	91	11	19	19	48	1.79
368401--368453	20	2.7	20	96	0	97	13	22	26	37	1.91
368401--368478	20	3.9	20	84	0	75	17	17	25	38	1.92
370331--370402	20	3.6	20	82	14	103	41	23	19	15	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
370408--370455	19	2.7	18	81	9	62	37	18	25	18	1.94
370464--370512	14	3.8	12	84	10	53	12	22	24	40	1.88
370504--370550	20	2.3	20	92	0	76	12	21	27	38	1.90
370522--370577	28	2.1	26	83	12	69	14	17	30	37	1.90
370964--371021	22	2.6	22	91	0	98	17	18	44	18	1.87
371214--371301	20	4.3	20	80	8	106	21	18	27	32	1.96
371228--371322	41	2.3	41	85	3	120	21	20	24	34	1.96
371290--371341	20	2.5	21	87	3	70	21	23	17	38	1.93
371331--371383	21	2.5	22	81	6	74	33	18	26	20	1.96
372038--372108	37	1.9	36	88	2	106	56	11	8	23	1.62
378137--378171	15	2.4	14	90	4	52	51	0	2	45	1.16
378434--378503	31	2.2	32	80	19	85	48	14	7	30	1.70
379682--379806	35	3.6	35	74	8	119	31	16	28	24	1.96
380253--380281	6	5.0	6	95	4	51	51	0	17	31	1.45
384932--384978	17	2.8	17	90	3	69	19	10	27	42	1.84
386110--386151	21	2.0	20	86	4	57	45	28	0	26	1.54
389613--389694	22	3.7	22	80	9	105	25	20	21	31	1.98
390652--390682	15	2.1	15	100	0	62	41	6	19	32	1.77
392016--392060	21	2.1	21	95	0	81	31	24	17	26	1.97
392604--392655	19	2.5	21	78	12	63	26	26	17	28	1.97
392678--392728	20	2.5	21	84	6	61	27	23	17	31	1.97
395162--395380	85	2.6	84	80	12	247	41	12	16	29	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
397173--397234	32	1.9	32	96	0	115	25	20	24	29	1.99
401355--401448	31	3.1	31	78	15	106	25	19	23	31	1.98
404435--404506	2	37.5	2	86	8	105	48	1	0	50	1.09
410264--410331	35	2.0	33	83	13	84	54	1	1	42	1.18
410320--410372	21	2.5	22	76	14	58	39	0	3	56	1.17
410331--410394	27	2.4	28	82	12	73	37	0	4	57	1.19
410406--410464	21	2.8	22	76	19	63	45	1	0	52	1.10
410563--410649	22	4.0	22	74	14	83	52	2	1	43	1.21
410557--410651	21	4.7	19	69	17	59	50	2	1	46	1.20
410520--410680	81	2.0	81	81	8	193	47	3	0	47	1.24
410717--410757	23	1.9	22	85	14	59	46	7	2	43	1.44
412181--412210	13	2.3	13	94	0	51	70	0	0	30	0.88
413338--413404	3	22.3	3	76	11	57	61	0	1	37	1.05
414370--414420	20	2.5	21	84	6	61	43	3	1	50	1.31
414481--414530	16	3.4	16	68	21	54	20	10	12	58	1.62
414471--414530	28	2.1	28	100	0	120	21	10	10	58	1.60
418006--418040	2	18.0	2	94	5	63	51	0	0	48	1.00
418502--418526	12	2.1	12	100	0	50	56	16	8	20	1.65
425028--425088	28	2.1	28	88	8	88	26	14	16	42	1.87
425555--425620	20	3.3	20	93	0	105	22	27	13	36	1.92
425556--425612	20	2.8	20	100	0	114	26	26	10	36	1.89
435669--435788	15	8.0	15	90	3	179	50	0	0	48	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
435669--435788	45	2.7	45	93	0	204	50	0	0	48	1.12
435776--435829	22	2.5	22	96	0	99	38	0	11	50	1.38
435787--436718	54	16.7	54	69	22	492	33	0	12	53	1.39
435832--435879	22	2.4	18	73	23	51	33	0	14	52	1.42
435921--435963	22	2.0	22	95	0	77	34	0	11	53	1.37
435952--436005	14	3.6	14	72	18	54	35	0	5	59	1.21
435948--436005	18	3.4	18	65	26	54	34	0	5	60	1.19
435943--436701	32	24.7	32	73	20	524	33	0	12	53	1.38
436091--436133	22	2.0	22	95	0	77	37	0	11	51	1.39
436257--436299	22	2.0	22	95	0	77	34	0	11	53	1.37

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18