genome.fa.s3694.2.7.7.80.10.50.1000.2.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: VEPZ01003694.1 Hibiscus syriacus cultivar Beakdansim tig00007895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  787758

Tables:   1   2   3   

This is table  2  of  3  ( 323 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)
282283--282325	22	2.0	21	86	4	59	37	2	2	58	1.24
293665--293758	27	3.2	28	79	10	91	78	0	17	4	0.90
293673--293736	23	2.7	23	83	9	85	79	0	14	6	0.91
293697--293756	13	4.4	13	78	12	50	80	0	18	1	0.80
293665--293759	31	3.0	32	83	6	95	77	0	17	4	0.92
293669--293759	14	6.3	14	75	17	71	78	0	17	4	0.92
293663--293758	28	3.5	27	75	12	90	77	0	17	5	0.95
294084--294129	19	2.6	17	81	15	58	30	8	8	52	1.62
294688--295335	84	7.7	84	98	0	1226	27	15	22	34	1.94
295946--296791	113	7.5	113	94	1	1495	38	14	18	29	1.90
295946--296791	225	3.8	226	94	1	1495	38	14	18	29	1.90
295946--296791	338	2.5	338	99	0	1649	38	14	18	29	1.90
297040--297119	3	26.7	3	92	0	133	33	3	0	62	1.13
297118--297162	20	2.3	19	84	3	54	62	2	0	35	1.08
298534--298576	22	2.0	21	86	4	59	37	2	2	58	1.24
300147--300346	100	2.0	100	93	2	341	39	13	10	37	1.77
300694--300736	2	22.0	2	80	4	52	46	6	0	46	1.30
300863--300952	32	2.8	33	79	12	98	46	7	6	38	1.59
301038--301092	8	6.6	8	84	14	58	16	1	1	80	0.90
301038--301092	17	3.3	17	80	16	62	16	1	1	80	0.90
301054--301101	21	2.2	21	85	10	62	16	2	4	77	1.03
301030--301103	29	2.6	28	77	12	71	14	2	5	77	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
302127--302159	4	8.2	4	93	0	57	24	3	0	72	0.98
306195--307396	106	11.4	105	86	5	1604	33	24	18	23	1.97
306228--307396	206	5.6	208	88	5	1583	33	24	18	23	1.96
306195--307345	312	3.7	312	92	2	1761	34	24	17	23	1.96
307983--308052	2	35.0	2	91	0	113	48	4	0	47	1.21
308183--308272	32	2.8	33	79	12	98	46	7	6	38	1.59
308358--308391	9	3.8	9	92	7	52	14	5	0	79	0.91
309463--309487	2	12.5	2	100	0	50	48	0	0	52	1.00
327995--328054	21	2.9	21	87	0	93	30	25	21	23	1.99
328153--328228	21	3.6	21	83	10	93	31	25	21	22	1.98
328243--328296	21	2.6	21	93	0	90	20	22	27	29	1.98
331694--331727	17	2.0	17	88	0	50	26	5	26	41	1.78
332935--332998	2	32.0	2	100	0	128	50	0	0	50	1.00
334665--334738	39	2.0	36	84	7	94	28	14	4	52	1.60
334873--334917	21	2.1	21	87	0	63	48	4	13	33	1.62
334969--334997	15	2.0	15	93	6	51	68	0	0	31	0.89
336423--336469	23	2.0	23	84	8	60	63	0	4	31	1.13
336803--336828	2	13.0	2	100	0	52	0	50	0	50	1.00
336913--336942	2	15.0	2	100	0	60	50	0	0	50	1.00
341213--341276	18	3.6	18	80	0	74	15	40	15	28	1.88
352994--353088	40	2.4	40	82	7	113	37	4	0	57	1.18
353058--353100	22	2.0	22	90	0	68	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
359347--359456	54	2.0	55	84	5	143	40	6	7	46	1.57
377478--377521	23	1.9	23	85	0	61	29	15	13	40	1.86
378219--378307	19	4.7	19	69	12	67	44	0	1	53	1.07
380376--380449	39	1.9	38	91	5	123	27	8	18	45	1.77
392411--392452	15	2.8	15	78	7	50	35	2	11	50	1.52
392503--392540	20	1.9	20	84	10	51	44	0	5	50	1.24
408106--408158	24	2.2	23	80	9	61	43	13	16	26	1.85
408120--408166	24	2.0	24	100	0	94	36	17	17	29	1.92
417368--417444	36	2.1	36	100	0	154	55	10	10	23	1.64
421961--422018	27	2.1	27	100	0	116	17	34	29	18	1.94
422186--422230	23	2.0	22	83	12	56	31	0	4	64	1.13
422200--422238	18	2.2	18	95	4	71	33	0	2	64	1.08
424653--424704	25	2.1	25	96	0	95	36	11	26	25	1.90
425532--425570	14	2.6	15	88	8	53	69	2	2	25	1.14
425770--425922	51	3.0	51	94	1	256	28	24	21	25	1.99
435830--435911	42	2.0	42	100	0	164	34	7	10	47	1.67
437160--437185	3	8.7	3	100	0	52	65	0	0	34	0.93
439248--439323	14	5.0	14	76	17	80	22	38	28	10	1.87
439311--439362	23	2.3	23	86	0	68	26	26	36	9	1.87
439318--439370	23	2.3	24	83	9	74	30	24	33	11	1.90
439388--439443	29	1.9	29	92	7	96	21	30	35	12	1.90
439502--439558	29	2.0	29	92	0	96	21	29	33	15	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441424--441459	15	2.5	14	82	8	54	44	0	5	50	1.25
441783--441807	11	2.3	11	100	0	50	40	24	8	28	1.83
441805--441831	11	2.5	11	100	0	54	25	29	18	25	1.98
443196--443242	21	2.2	21	92	0	76	48	23	0	27	1.51
443216--443283	14	4.9	14	77	12	59	44	27	1	26	1.63
443230--443290	7	8.7	7	75	7	52	42	32	1	22	1.64
443209--443294	35	2.5	35	81	7	95	43	29	1	26	1.63
444090--444157	11	6.3	11	72	14	52	41	2	0	55	1.15
450096--450145	21	2.4	21	100	0	100	32	22	26	20	1.98
450509--450552	21	2.1	21	100	0	88	34	22	25	18	1.96
450102--450918	407	2.0	407	98	1	1577	37	16	13	32	1.87
462785--462810	2	13.0	2	100	0	52	50	0	0	50	1.00
474482--474586	54	1.9	54	100	0	210	39	24	12	23	1.89
488956--489010	16	3.4	16	100	0	110	56	23	0	20	1.42
489172--489198	6	4.5	6	100	0	54	0	0	14	85	0.61
494056--494084	2	14.5	2	100	0	58	51	0	0	48	1.00
494761--495200	216	2.0	214	93	3	758	25	13	22	37	1.91
495444--495614	60	2.8	60	79	1	173	43	4	19	31	1.72
504219--504285	29	2.3	30	80	19	79	52	1	11	34	1.48
512163--512230	34	2.0	34	83	8	86	50	1	0	48	1.10
512898--512946	26	1.9	26	87	4	73	63	4	2	30	1.24
520347--520439	18	5.5	18	71	14	63	8	35	8	47	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520348--520410	30	2.1	30	82	5	74	7	39	6	46	1.59
523832--523874	22	1.9	22	86	13	61	4	9	4	81	0.97
532880--532934	21	2.6	22	85	5	78	21	23	18	36	1.95
532918--533095	20	8.9	20	84	3	198	32	19	19	29	1.96
532880--533098	20	10.8	21	81	8	107	29	20	18	31	1.97
533628--533699	20	3.6	19	83	5	81	51	19	15	13	1.76
533643--533706	21	3.1	21	84	6	87	51	17	20	10	1.75
534330--534796	94	5.1	94	91	2	725	21	12	18	47	1.82
534888--534949	20	3.2	20	81	4	90	50	16	22	11	1.76
534886--534945	19	3.1	19	83	4	84	50	16	23	10	1.75
534973--535058	19	4.8	19	81	13	110	13	23	16	46	1.83
535547--535613	21	3.2	21	66	6	55	23	35	19	20	1.95
535495--535613	42	2.8	42	82	5	116	21	36	18	23	1.95
536960--536996	14	2.6	14	86	0	56	35	0	18	45	1.50
537105--537194	19	5.3	19	67	24	83	47	16	21	14	1.82
537107--537215	33	3.3	33	90	0	155	48	18	20	12	1.80
537151--537215	14	4.3	14	75	17	58	49	20	20	10	1.78
537223--537332	33	3.3	33	94	0	184	12	23	20	43	1.86
537241--537352	19	6.4	19	67	20	73	13	23	20	42	1.87
537326--537398	20	3.6	20	71	10	67	24	19	23	32	1.97
539861--539914	24	2.2	24	90	0	81	42	20	16	20	1.89
540773--540839	20	3.3	20	78	12	73	32	19	22	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
540719--540860	41	3.5	41	71	13	105	32	17	22	27	1.96
548672--548777	52	2.0	53	94	5	189	34	7	12	45	1.70
564223--564769	289	1.9	289	85	3	753	37	11	11	39	1.78
565913--565948	2	18.0	2	94	0	63	52	0	47	0	1.00
566071--566098	14	2.0	14	100	0	56	28	35	0	35	1.58
574898--574942	18	2.5	19	85	7	67	71	4	6	17	1.25
575798--575860	26	2.4	26	97	0	117	26	26	19	26	1.99
583703--583745	20	2.2	20	86	0	59	34	20	13	30	1.92
591900--591947	18	2.6	18	75	15	53	66	2	10	20	1.32
597507--597583	32	2.4	32	86	2	111	28	11	16	42	1.84

Tables:   1   2   3