genome.fa.s8804.2.7.7.80.10.50.1000.2.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: VEPZ01008804.1 Hibiscus syriacus cultivar Beakdansim tig00111957_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  529415

Tables:   1   2   3   

This is table  2  of  3  ( 290 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)
231502--231763	45	5.8	45	91	0	400	45	7	21	25	1.78
231595--231666	22	3.2	22	65	18	58	48	8	20	22	1.76
231640--231711	22	3.2	22	65	18	58	48	6	22	22	1.74
231502--231815	135	2.3	135	86	2	416	44	8	21	26	1.80
231510--231841	45	7.4	45	88	2	364	43	8	22	25	1.81
231502--231841	90	3.8	90	86	3	407	43	8	22	26	1.81
238337--238370	16	2.2	15	89	5	50	47	0	2	50	1.16
248407--248446	20	2.0	20	100	0	80	35	30	5	30	1.79
256101--256151	12	3.9	13	77	10	59	70	0	7	21	1.12
262937--262978	22	1.9	22	85	0	57	35	33	4	26	1.77
268446--268481	2	18.0	2	100	0	72	50	0	0	50	1.00
268775--268926	30	5.2	30	74	6	125	39	18	25	17	1.91
275447--275595	30	5.0	31	81	4	148	33	20	32	13	1.91
275452--275597	60	2.5	59	81	3	168	34	19	32	13	1.91
282493--282575	41	2.0	41	100	0	166	33	12	28	25	1.92
284766--284812	5	9.8	5	95	2	71	0	23	0	76	0.78
284869--285368	249	2.0	251	98	0	959	34	5	18	42	1.72
291956--292024	34	2.0	34	94	0	120	39	15	23	21	1.92
292293--292351	29	2.0	29	100	0	118	23	25	6	44	1.78
293763--293831	14	4.9	13	74	13	57	44	1	8	44	1.43
293764--293834	21	3.4	21	73	21	76	43	1	9	45	1.46
294854--294905	21	2.5	21	81	3	61	38	19	25	17	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
294894--295028	20	6.7	20	77	7	103	34	22	17	25	1.96
294891--295028	61	2.3	61	83	2	179	35	22	17	24	1.95
295671--295725	25	2.2	24	78	15	58	20	9	18	52	1.71
296848--296889	17	2.4	18	84	4	59	26	45	14	14	1.83
297374--297440	20	3.4	20	81	2	73	38	23	22	14	1.92
297429--297486	14	3.9	14	77	16	62	48	22	17	12	1.80
297413--297503	32	2.8	33	93	3	157	47	20	18	13	1.82
297513--297568	20	2.8	19	84	7	67	16	23	23	37	1.93
299422--299457	14	2.6	14	90	0	54	30	0	22	47	1.52
299540--299579	20	2.0	20	95	0	71	47	30	10	12	1.74
299584--299648	19	3.7	19	84	15	95	46	18	21	13	1.84
299674--299763	20	4.6	20	91	1	146	14	24	27	33	1.94
303242--303372	19	7.7	19	64	23	85	42	19	22	15	1.88
303242--303368	33	3.8	33	87	4	193	42	18	22	15	1.89
303243--303375	66	2.0	66	95	0	239	41	18	22	17	1.90
303368--303409	19	2.2	19	91	0	66	16	19	23	40	1.91
303377--303421	19	2.4	19	96	0	81	11	24	20	44	1.83
303536--303572	14	2.6	14	91	0	65	45	24	0	29	1.53
304913--305118	42	4.9	41	73	9	164	22	17	36	22	1.94
304913--304979	21	3.2	21	68	4	55	19	20	35	23	1.95
304943--305118	84	2.1	84	97	0	334	23	16	38	22	1.93
305329--305513	89	2.0	90	88	8	277	46	18	12	22	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
305679--305804	62	2.0	63	96	1	236	24	36	18	20	1.95
307229--307267	20	2.0	20	94	0	69	48	15	23	12	1.79
307252--307278	14	1.9	14	100	0	54	40	22	29	7	1.81
307309--307354	19	2.3	20	85	7	67	6	15	26	52	1.67
307877--307927	20	2.5	20	93	0	84	25	21	27	25	1.99
307938--307991	20	2.7	20	97	0	99	25	18	24	31	1.97
307878--307994	61	1.9	61	83	0	153	24	17	23	33	1.97
307878--308012	61	2.2	61	80	2	146	23	20	23	32	1.98
314072--314213	64	2.2	63	82	8	164	67	0	7	24	1.20
314200--314263	5	12.4	5	75	11	58	75	1	4	18	1.06
314193--314267	23	3.0	25	74	16	66	74	1	6	17	1.10
314200--314270	26	2.7	25	82	8	70	74	1	4	19	1.06
314202--314273	31	2.4	29	86	9	99	73	1	4	20	1.07
314171--314270	15	7.0	14	71	18	66	74	1	5	20	1.07
314314--314352	18	2.2	18	85	0	51	69	0	7	23	1.14
318138--318216	31	2.5	31	87	0	113	40	0	8	50	1.34
324345--324438	44	2.1	44	90	3	145	45	27	6	20	1.75
325594--325637	20	2.2	20	95	0	79	43	9	29	18	1.80
331814--331853	18	2.2	18	100	0	80	22	40	17	20	1.92
332948--333031	32	2.7	32	83	5	100	44	9	5	40	1.61
334502--334586	43	2.0	43	92	0	143	22	18	21	37	1.94
340877--340942	20	3.2	20	81	12	71	74	9	0	16	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
342671--343546	39	22.6	39	87	1	1116	36	16	17	29	1.92
343672--343758	37	2.4	37	84	3	113	41	13	14	29	1.85
344888--344981	13	7.7	12	78	11	75	2	15	5	76	1.06
344893--344997	25	4.5	24	77	19	82	1	14	5	78	1.02
344906--344966	32	1.9	32	82	0	77	3	14	3	78	1.00
344941--344973	7	4.9	7	88	7	50	0	21	0	78	0.75
348628--348685	28	2.1	28	83	6	73	74	6	0	18	1.04
348656--348700	21	2.2	21	88	4	65	73	8	0	17	1.08
348832--348928	51	1.9	51	85	6	135	57	12	11	18	1.64
351721--351769	22	2.3	22	86	10	66	73	6	6	14	1.22
351729--351800	11	6.8	10	72	21	58	75	4	2	18	1.09
351763--351797	15	2.3	15	90	0	52	80	2	0	17	0.84
351729--351818	31	2.8	31	83	10	92	72	3	3	21	1.14
353112--353193	2	42.0	2	95	4	150	50	0	0	50	1.00
353627--353911	65	4.3	65	78	7	227	38	10	19	31	1.86
353886--354002	36	3.4	36	86	5	145	44	11	17	26	1.82
353909--354019	36	3.1	36	90	0	159	40	9	18	31	1.82
357836--357888	23	2.4	23	78	6	56	24	24	26	24	2.00
363642--363849	65	3.2	64	78	13	221	26	18	24	30	1.98
371230--371303	2	39.0	2	82	15	95	51	0	1	47	1.09
372552--372606	25	2.3	23	79	14	58	18	7	1	72	1.16
372596--372652	25	2.3	24	80	14	62	26	1	3	68	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372621--372651	16	1.9	16	93	0	53	22	0	6	70	1.09
376505--376685	94	1.9	94	89	3	283	30	18	19	30	1.96
377967--378025	19	3.4	19	68	22	56	45	16	20	16	1.85
377967--378046	33	2.4	33	89	0	115	46	20	20	13	1.84
378056--378202	33	4.3	33	77	11	161	16	23	17	42	1.88
378052--378192	19	7.9	19	69	16	95	16	23	17	43	1.87
378135--378223	20	4.9	18	71	19	60	17	22	20	39	1.92
378083--378223	72	1.9	74	88	2	214	17	22	18	41	1.90
378056--378222	33	4.8	33	77	10	147	16	22	18	41	1.89
378195--378268	20	3.7	20	69	16	62	24	17	25	32	1.97
380500--380530	13	2.5	13	94	5	55	6	12	25	54	1.62
380729--380775	24	2.0	24	95	0	85	36	21	21	21	1.96
380729--380789	24	2.5	24	83	0	59	34	21	19	24	1.96
380750--381081	167	2.0	165	98	1	646	26	13	25	34	1.94
381796--381908	20	5.7	19	88	6	136	23	20	18	38	1.94
381798--382067	40	6.7	39	78	9	181	20	17	22	39	1.93
381798--382006	20	10.4	20	83	12	123	20	17	22	39	1.93
381798--382006	60	3.5	59	82	3	220	20	17	22	39	1.93
381858--382028	41	4.2	41	79	10	117	19	16	24	38	1.93
382015--382067	20	2.7	20	88	5	72	15	18	22	43	1.87
382158--382210	19	2.8	19	97	0	97	11	16	20	50	1.76
384896--384940	20	2.2	20	80	0	54	48	4	6	40	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389121--389170	20	2.6	19	90	9	75	34	12	30	24	1.91
389594--390352	56	13.7	56	87	2	1025	35	10	18	35	1.85
389594--390352	111	6.9	111	87	3	1028	35	10	18	35	1.85
395734--396262	111	4.8	111	90	1	805	35	11	18	35	1.86
395734--396262	55	9.6	56	89	2	775	35	11	18	35	1.86
395782--396338	111	5.0	108	86	5	464	34	11	18	34	1.88
399175--399213	12	3.2	12	85	10	53	25	0	2	71	0.98
409134--409194	14	4.5	14	80	15	67	83	1	11	3	0.83
409131--409189	8	7.0	8	80	5	64	83	1	11	3	0.85
409157--409194	6	6.2	6	82	17	51	86	0	13	0	0.56

Tables:   1   2   3