genome.fa.s8301.2.7.7.80.10.50.1000.3.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: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3376434

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

This is table  3  of  18  ( 2065 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)
268276--268737	45	10.3	45	88	0	629	23	22	17	35	1.95
269005--269038	3	11.3	3	100	0	68	35	0	0	64	0.94
270498--270592	23	4.1	23	71	14	70	26	1	5	67	1.18
276296--276437	76	1.9	76	94	2	250	40	18	16	24	1.90
276669--276897	98	2.3	97	86	5	334	37	16	18	27	1.92
277254--277300	20	2.3	20	78	7	51	17	12	21	48	1.79
280541--280590	17	2.9	17	93	0	82	40	40	4	16	1.67
282071--282115	13	3.5	13	93	0	72	17	42	24	15	1.88
282049--282094	18	2.6	18	85	0	56	21	47	17	13	1.81
284648--284742	24	4.0	24	80	0	91	21	12	17	48	1.80
284651--284742	48	1.9	48	81	0	112	20	13	17	48	1.80
284675--284740	12	5.5	11	77	15	60	15	13	19	51	1.76
289409--289438	13	2.2	14	94	5	53	6	20	16	56	1.62
289654--289699	21	2.1	22	88	8	67	76	2	6	15	1.09
295154--295191	18	2.1	18	100	0	76	39	21	0	39	1.53
298091--298120	2	15.0	2	100	0	60	50	0	0	50	1.00
298368--298554	64	2.9	64	81	4	173	31	22	16	29	1.96
298396--298575	64	2.8	63	81	9	211	29	24	17	28	1.97
299994--300030	13	2.9	12	92	8	56	78	0	2	18	0.87
299997--300030	17	2.0	17	88	0	50	76	0	2	20	0.92
299997--300029	9	3.8	9	88	8	50	78	0	3	18	0.87
300529--300756	76	3.1	73	81	7	269	55	12	1	30	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
301201--301242	3	14.0	3	94	0	75	30	0	33	35	1.58
301426--301497	25	3.0	23	74	11	72	20	1	8	69	1.22
304867--304891	2	12.5	2	100	0	50	52	0	0	48	1.00
306678--306730	22	2.4	23	78	9	56	64	1	0	33	1.05
306716--306751	14	2.6	14	91	8	56	75	0	2	22	0.94
306687--306740	22	2.6	22	82	8	69	70	1	0	27	0.98
307867--307926	31	2.0	31	96	3	113	40	0	26	33	1.57
308179--308256	23	3.3	23	76	16	97	20	26	25	26	1.99
318428--318734	118	2.6	117	81	6	343	38	14	20	27	1.91
319030--319093	3	20.7	3	87	6	92	37	0	0	62	0.95
325056--325093	19	2.0	19	100	0	76	47	5	10	36	1.61
325255--325293	2	19.5	2	100	0	78	51	0	0	48	1.00
326294--326867	21	27.6	21	74	11	404	21	19	23	35	1.96
326294--326880	187	3.1	188	87	6	811	21	19	22	35	1.96
326567--326804	124	1.9	124	97	0	449	21	20	24	34	1.96
326796--326880	42	2.0	42	97	0	161	22	20	22	35	1.96
326801--326892	42	2.2	42	92	0	148	26	19	20	33	1.96
326814--326902	42	2.1	42	85	0	115	28	21	17	32	1.96
326985--327017	6	5.5	6	92	0	57	33	48	15	3	1.60
327623--327778	21	7.4	21	73	16	135	37	21	19	21	1.94
327619--327838	42	5.3	42	87	4	295	35	23	19	21	1.96
329940--330145	102	2.0	102	86	0	286	36	16	20	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
330379--330521	42	3.3	42	83	8	171	35	18	23	22	1.96
336185--336238	25	2.1	26	89	3	83	61	1	11	25	1.40
336197--336251	25	2.2	23	76	17	56	60	1	10	27	1.41
338293--338343	19	2.7	19	78	0	57	54	15	7	21	1.66
339825--340248	89	4.8	89	86	3	611	19	21	22	36	1.95
339825--340248	45	9.5	45	86	4	574	19	21	22	36	1.95
347048--347461	45	9.2	45	87	4	552	20	21	24	34	1.96
349957--349991	14	2.4	15	95	4	63	25	22	25	25	2.00
352280--352421	61	2.4	58	85	3	185	51	9	14	24	1.72
358708--358776	28	2.4	29	76	9	79	18	18	33	28	1.95
358709--358774	14	4.7	14	79	5	71	19	19	31	28	1.97
361992--362031	20	2.0	20	85	5	53	40	2	2	55	1.27
362820--362865	20	2.3	20	88	7	67	10	2	10	76	1.12
363845--363895	22	2.2	25	82	10	63	52	1	1	43	1.23
365776--365835	31	2.0	31	83	9	79	11	25	8	55	1.63
366188--366220	2	17.0	2	93	6	59	0	0	48	51	1.00
366687--366855	84	2.0	84	100	0	338	21	21	18	38	1.94
367200--367390	93	2.1	93	93	0	328	21	16	17	43	1.87
367469--367518	12	4.4	12	83	11	54	0	12	10	78	0.98
367469--367561	13	7.4	12	68	23	50	1	13	8	76	1.07
367469--367534	24	2.9	23	80	8	64	0	12	9	78	0.95
367465--367560	26	3.8	25	76	17	101	1	14	8	76	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
367465--367561	38	2.6	37	76	13	108	1	15	8	75	1.09
371304--371350	25	1.9	24	86	4	67	68	12	8	10	1.40
371329--371455	58	2.2	59	80	7	134	54	11	17	17	1.71
372388--372475	38	2.3	36	83	9	113	12	11	36	39	1.79
373120--373166	18	2.7	18	90	6	71	29	29	6	34	1.82
373706--373750	22	2.0	22	86	4	63	13	17	11	57	1.64
377220--377307	14	6.2	14	70	19	58	21	17	5	55	1.62
377230--377307	29	2.7	29	76	7	79	21	16	5	56	1.60
381822--382085	144	1.8	140	91	8	438	38	8	7	45	1.63
383876--383910	17	2.1	17	88	0	52	14	0	5	80	0.89
384161--384190	16	1.9	15	93	6	51	50	0	6	43	1.28
386378--386417	21	1.9	21	85	10	55	35	15	12	37	1.85
388582--388778	72	2.7	73	81	8	218	31	15	13	39	1.86
388638--388933	78	3.9	74	78	10	210	32	17	13	36	1.89
388744--389079	39	8.7	39	85	3	405	30	17	15	36	1.91
389097--389472	136	2.8	135	84	1	500	33	17	23	25	1.97
390100--390399	55	5.5	54	79	6	241	31	13	22	32	1.93
390049--390414	109	3.4	108	77	9	325	32	13	21	32	1.93
393944--394252	145	2.1	145	87	0	438	31	22	24	21	1.98
393944--394300	145	2.5	144	84	2	376	32	22	23	21	1.98
397199--397340	55	2.6	55	86	6	198	40	14	23	21	1.89
401489--401562	32	2.3	32	83	0	94	33	10	24	31	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402133--402238	43	2.5	43	88	0	149	29	31	17	21	1.97
402462--402675	42	5.1	42	87	2	304	25	21	20	32	1.97
402743--403282	112	4.8	113	86	5	706	27	22	17	31	1.97
402743--403278	225	2.4	225	86	5	750	28	22	18	31	1.97
403193--403329	46	2.9	46	88	5	186	28	20	18	32	1.96
403081--403483	159	2.5	159	89	3	605	27	21	18	32	1.97
403352--403515	48	3.4	48	86	5	233	26	21	17	34	1.96
403352--403559	96	2.2	96	85	3	285	28	22	16	32	1.96
404149--404427	145	1.9	145	88	0	414	32	20	25	21	1.97
404159--404665	145	3.5	145	77	5	391	32	20	24	22	1.97
405249--405301	2	28.0	2	88	11	85	49	0	0	50	1.00
407708--407769	29	2.1	29	96	0	115	58	1	3	37	1.24
409243--409331	17	5.2	17	86	2	106	39	7	15	37	1.77
409243--409344	34	3.0	34	79	4	107	40	7	16	35	1.78
409810--410042	123	1.9	123	87	0	340	32	10	20	36	1.87
411204--411281	19	4.0	20	85	6	79	37	0	1	61	1.04
411195--411260	22	3.0	22	86	2	87	28	0	3	68	1.05
411205--411260	3	20.0	3	82	14	66	32	0	1	66	1.03
412542--412606	12	5.2	12	75	17	53	29	4	0	66	1.12
412564--412606	3	14.3	3	80	9	52	25	4	0	69	1.07
412569--412606	16	2.5	15	91	4	58	23	5	0	71	1.07
412564--412606	13	3.1	15	77	16	56	25	4	0	69	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
412798--412839	20	2.2	19	86	4	57	33	0	2	64	1.07
412701--412931	120	1.9	120	82	5	288	38	7	7	45	1.62
415079--415117	15	2.7	15	92	4	62	23	12	12	51	1.74
421225--421398	76	2.3	75	84	2	222	30	14	23	31	1.94
422693--422748	23	2.5	23	82	2	69	37	14	12	35	1.84
423184--424829	113	14.6	113	94	1	2821	35	15	21	27	1.93
424618--424820	104	2.0	103	82	1	244	37	13	22	26	1.91
425098--425175	19	4.0	20	85	6	79	37	0	1	61	1.04
425089--425154	22	3.0	22	86	2	87	28	0	3	68	1.05
425099--425154	3	20.0	3	82	14	66	32	0	1	66	1.03

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