genome.fa.s1838.2.7.7.80.10.50.1000.2.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: VEPZ01001838.1 Hibiscus syriacus cultivar Beakdansim tig00003721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3924084

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  ( 2134 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)
200723--200765	22	2.0	22	100	0	86	9	23	48	18	1.76
200762--200869	19	5.7	18	78	15	119	27	30	27	13	1.94
200762--200869	10	11.3	9	76	12	74	27	30	27	13	1.94
200813--200890	20	3.9	19	80	12	86	30	25	26	16	1.97
200763--200889	29	4.4	28	76	11	105	29	29	26	14	1.96
200762--200889	39	3.3	37	83	10	134	28	28	27	14	1.96
206964--207006	20	2.2	20	83	8	52	37	4	2	55	1.33
208946--209051	45	2.3	45	87	4	142	29	20	20	29	1.98
208992--209137	65	2.3	63	80	11	154	26	18	22	32	1.97
215395--215435	21	2.0	21	86	13	59	39	7	2	51	1.43
217377--217549	91	1.9	90	81	13	212	28	17	23	30	1.97
218997--219021	6	4.2	6	100	0	50	68	0	16	16	1.22
221562--221606	15	3.0	15	80	0	54	13	15	60	11	1.60
221559--221616	11	5.5	11	74	15	52	10	15	63	10	1.51
223323--223446	54	2.3	55	87	2	171	21	22	32	23	1.98
224093--224136	17	2.6	17	85	7	63	56	29	0	13	1.38
224088--224138	9	6.2	8	78	17	52	58	27	0	13	1.36
226089--226150	20	2.9	21	85	9	72	16	22	38	22	1.92
231910--232107	75	2.6	76	88	2	274	20	24	31	23	1.98
231910--232112	76	2.7	75	88	2	264	20	24	31	24	1.98
233421--233474	20	2.5	22	79	5	67	29	14	27	27	1.95
234053--234382	82	4.0	81	89	2	464	38	10	20	30	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
234442--234748	46	6.6	46	88	1	443	45	9	24	20	1.80
234518--234596	21	3.6	21	72	22	72	43	10	24	22	1.84
234438--234748	139	2.2	140	87	1	455	45	9	23	20	1.80
242371--242549	55	3.3	55	84	1	225	27	17	23	31	1.97
242532--242648	55	2.1	55	83	0	153	32	20	14	32	1.93
242393--242627	110	2.1	109	82	6	280	27	19	20	32	1.97
242541--242695	55	2.8	55	80	3	143	33	20	14	31	1.93
242701--242856	37	4.2	37	79	5	156	25	21	14	39	1.91
246909--246944	8	4.5	8	89	0	54	50	11	0	38	1.38
247499--247684	74	2.5	74	83	3	212	30	27	19	22	1.98
255997--256114	54	2.2	52	84	3	146	32	22	18	27	1.97
265262--265306	3	14.3	3	90	9	72	64	0	0	35	0.94
265256--265311	13	4.4	13	88	4	69	62	3	0	33	1.12
279653--279720	2	33.5	2	94	2	118	48	2	0	48	1.16
284013--284050	2	19.0	2	100	0	76	50	0	0	50	1.00
285753--285789	4	9.2	4	100	0	74	51	0	24	24	1.49
293449--293481	8	4.1	8	92	0	57	15	21	24	39	1.91
295955--295990	18	1.9	19	88	5	56	77	0	8	13	0.98
296810--296839	7	4.3	7	100	0	60	13	0	0	86	0.57
297500--297870	189	2.0	190	96	3	687	41	21	9	27	1.84
298596--298638	3	15.3	3	81	13	56	34	2	0	62	1.08
298596--298638	11	3.9	11	82	17	54	34	2	0	62	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
298596--298638	14	3.1	14	87	12	70	34	2	0	62	1.08
299225--299263	19	2.1	19	90	0	60	82	0	12	5	0.83
321452--321576	62	2.0	62	100	0	250	32	18	17	32	1.94
325055--325094	21	1.9	21	89	0	62	32	32	12	22	1.91
327704--327763	31	1.9	31	93	0	102	31	5	26	36	1.78
329608--329663	23	2.4	23	81	0	67	33	10	23	32	1.89
331001--331047	22	2.1	23	84	4	60	59	21	8	10	1.57
331047--331112	12	5.6	12	69	3	53	40	15	16	27	1.88
331038--331118	23	3.5	23	86	3	108	44	14	14	25	1.84
332124--332180	24	2.4	24	87	0	78	26	8	29	35	1.87
335834--335895	29	2.1	29	84	0	79	33	14	22	29	1.94
337036--337229	96	2.0	96	100	0	388	17	24	24	32	1.97
337748--337780	2	16.5	2	100	0	66	48	0	0	51	1.00
338376--338531	72	2.2	72	84	4	208	23	15	25	35	1.94
343357--343384	2	14.0	2	100	0	56	50	0	0	50	1.00
343384--343408	2	12.5	2	100	0	50	0	0	48	52	1.00
346460--346547	24	3.7	24	89	0	122	28	14	22	34	1.94
349207--349240	12	2.8	12	86	0	50	73	2	2	20	1.09
350337--350389	26	2.0	26	96	0	97	52	3	11	32	1.55
351706--351748	2	21.5	2	100	0	86	48	0	0	51	1.00
351768--351957	38	5.5	36	70	23	106	41	9	3	45	1.54
351769--351871	38	2.8	37	84	11	138	40	8	4	45	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
351836--351893	24	2.5	22	79	15	64	37	10	5	46	1.60
351861--351957	36	2.6	37	85	8	126	41	11	2	45	1.52
351946--352010	26	2.5	27	80	12	73	40	4	3	52	1.38
353491--353522	2	15.5	2	93	6	55	46	3	0	50	1.17
353643--353892	81	3.1	81	89	0	383	30	23	9	37	1.86
354192--354362	20	7.7	20	69	21	108	21	26	9	42	1.83
354179--354373	46	4.2	46	91	0	327	21	24	8	45	1.80
354250--354364	12	9.9	12	63	26	52	20	26	9	43	1.82
356323--356363	21	2.0	21	90	0	64	39	0	0	60	0.96
360217--360244	14	2.0	14	100	0	56	57	7	0	35	1.26
360311--361159	425	2.0	423	97	2	1600	41	16	11	30	1.84
361560--361646	35	2.5	36	84	5	115	43	9	10	36	1.71
361564--361646	17	4.8	17	77	3	85	44	8	10	36	1.70
367565--367641	40	1.9	41	89	2	120	44	18	14	23	1.86
369969--370020	24	2.2	24	82	6	61	15	7	3	73	1.21
375935--376267	55	6.0	54	86	7	427	37	18	10	33	1.85
375935--376267	110	3.0	111	90	2	499	37	18	10	33	1.85
376669--376707	19	2.2	18	86	9	53	17	20	20	41	1.91
377541--377621	40	2.0	40	97	0	153	35	11	32	20	1.88
379872--379979	37	3.0	37	83	10	118	31	6	18	43	1.75
384476--384536	21	3.2	21	63	29	55	32	3	21	42	1.69
384468--384587	35	3.3	36	87	6	172	32	4	20	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384995--385032	15	2.5	15	95	0	67	36	18	10	34	1.85
387450--387475	13	2.0	13	100	0	52	30	38	15	15	1.88
388057--388797	106	7.0	106	92	0	1142	22	17	25	34	1.96
389612--389650	16	2.5	16	87	4	53	43	12	15	28	1.83
389934--389972	20	2.0	20	94	0	69	15	15	23	46	1.83
390352--390412	24	2.5	24	89	0	86	39	3	18	39	1.67
391031--391377	172	2.0	173	93	3	601	24	17	21	36	1.95
391425--391457	17	1.9	18	88	11	52	0	9	9	81	0.87
391424--391481	16	3.7	15	78	17	57	0	12	8	79	0.94
392690--392723	7	4.7	7	92	7	59	55	14	14	14	1.69
396820--396879	27	2.2	27	96	0	111	45	6	35	13	1.70
400911--400951	19	2.2	19	100	0	82	46	0	14	39	1.45
408988--409077	23	3.9	23	85	0	117	18	23	24	33	1.97
413184--413227	2	22.5	2	95	4	81	50	0	0	50	1.00
419329--419435	45	2.4	45	88	0	151	27	18	24	29	1.98
423180--423219	13	2.8	16	78	21	52	7	30	0	62	1.23
423376--423437	21	3.0	21	85	0	79	25	6	27	40	1.80
423811--423868	21	2.8	21	83	0	62	37	22	20	18	1.94
424931--425035	45	2.3	45	90	0	156	20	21	31	25	1.98
431912--431956	17	2.7	18	89	6	60	13	22	4	60	1.51
431958--432028	32	2.3	31	80	7	81	36	7	5	50	1.53
431958--432045	32	2.8	30	78	13	79	35	7	5	51	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432050--432123	32	2.3	33	76	6	80	40	1	12	45	1.50
431983--432392	197	2.1	196	83	2	500	38	4	9	48	1.56
432366--432461	31	3.1	31	98	0	183	35	6	6	52	1.52
433228--433502	78	3.5	78	86	1	388	50	12	24	13	1.76
435071--435136	29	2.3	29	97	0	123	56	4	4	34	1.40
445302--445356	24	2.3	24	93	0	92	38	10	18	32	1.85
450075--450107	14	2.4	14	95	5	59	75	0	12	12	1.04
450117--450161	6	7.1	7	87	12	55	80	0	20	0	0.72
450064--450161	6	16.3	6	74	16	53	77	0	17	5	0.94
454453--454510	20	3.0	20	87	10	93	24	25	29	20	1.99

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