genome.fa.s7850.2.7.7.80.10.50.1000.3.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: VEPZ01007850.1 Hibiscus syriacus cultivar Beakdansim tig00110209_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1775394

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1055 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)
410001--410078	40	1.9	42	92	5	133	38	0	2	58	1.12
409996--410063	14	5.2	13	77	13	59	38	0	2	58	1.13
410720--410779	31	1.9	31	86	0	84	41	8	8	41	1.65
411464--411502	2	19.5	2	100	0	78	48	0	0	51	1.00
411918--411942	2	12.5	2	100	0	50	0	52	0	48	1.00
413654--413684	2	15.5	2	100	0	62	51	0	0	48	1.00
416092--416123	16	2.1	15	94	5	55	0	56	34	9	1.32
416101--416137	13	2.8	13	91	4	56	2	54	32	10	1.49
416093--416139	20	2.4	19	82	3	58	2	57	29	10	1.44
424563--424805	51	4.6	54	87	6	236	26	26	16	30	1.97
424613--424815	51	3.9	51	94	2	316	26	27	14	31	1.95
424559--424820	102	2.5	104	83	8	327	27	27	16	29	1.97
426168--426375	10	19.1	10	64	21	55	7	16	0	75	1.09
426189--426298	44	2.5	43	81	15	109	6	19	1	72	1.15
426227--426279	24	2.2	25	86	3	72	7	16	0	75	1.02
426252--426361	16	6.6	16	75	16	84	9	15	0	75	1.04
444885--444922	19	2.0	19	94	0	67	39	42	7	10	1.69
450680--450742	30	2.1	31	85	11	87	55	14	6	23	1.62
451725--451764	20	2.0	20	90	0	62	60	0	0	40	0.97
457321--457385	25	2.6	24	80	20	71	40	0	3	56	1.15
458164--458216	19	2.8	19	97	0	97	50	18	16	13	1.77
458166--458250	19	4.3	20	84	3	66	42	22	18	16	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458276--458528	20	12.5	20	74	9	147	38	24	17	18	1.93
458294--458528	61	3.9	61	75	10	187	38	24	17	19	1.92
458337--458507	20	8.4	21	79	4	167	36	24	18	19	1.94
458276--458528	40	6.2	40	82	5	267	38	24	17	18	1.93
458337--458528	40	4.7	41	89	1	280	38	24	17	19	1.93
459088--459167	20	4.0	20	83	6	92	53	17	16	12	1.72
459091--459167	41	1.9	40	84	12	104	51	18	16	12	1.75
459191--459244	14	3.5	14	73	22	54	9	24	22	44	1.81
459186--459293	33	3.1	33	82	10	126	12	24	20	43	1.85
459229--459284	20	2.8	20	88	0	94	14	23	21	41	1.89
460989--461368	94	4.1	94	94	1	638	22	11	18	47	1.81
461416--461533	19	6.2	19	74	14	84	43	24	19	12	1.86
461530--461617	19	4.8	19	74	16	87	11	20	21	46	1.82
462070--462136	21	3.2	21	66	6	55	23	35	20	19	1.95
462018--462136	42	2.8	42	81	5	107	22	36	18	22	1.95
463486--463522	14	2.6	14	82	0	56	35	0	21	43	1.53
463628--463668	19	2.2	19	95	0	73	48	14	19	17	1.81
463644--463740	33	2.9	33	84	3	115	49	19	17	13	1.79
463710--463755	19	2.4	19	92	0	74	45	23	15	15	1.84
463751--463921	19	9.7	19	66	20	93	15	22	18	43	1.87
463756--463921	33	4.8	33	73	12	154	15	21	18	43	1.87
463798--463860	20	3.2	20	84	2	74	19	23	17	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
466423--466482	24	2.5	24	83	0	84	38	18	18	25	1.93
467339--467550	20	10.5	20	80	8	178	18	18	25	37	1.93
467339--467512	61	2.9	60	81	5	181	20	18	25	36	1.95
467600--467653	20	2.7	19	75	8	63	16	18	31	33	1.93
470008--470055	20	2.4	20	100	0	96	10	22	22	43	1.84
470027--470184	41	3.9	41	90	4	232	20	19	21	38	1.93
470047--470158	19	5.4	21	70	11	72	20	18	23	37	1.94
470257--470307	6	8.7	6	97	2	95	31	50	17	0	1.46
470820--470871	6	9.0	6	97	2	90	0	17	51	30	1.45
470949--471156	19	10.4	19	74	10	141	39	19	20	20	1.92
470942--471097	60	2.6	60	91	1	269	39	18	19	23	1.93
471037--471137	41	2.5	41	88	6	143	39	19	20	19	1.93
471109--471156	20	2.4	20	100	0	96	43	22	22	10	1.84
470968--471156	101	1.9	101	84	7	258	39	20	20	20	1.93
473591--473676	43	2.0	43	84	13	115	45	1	18	34	1.57
473635--473685	25	2.0	25	92	0	84	45	0	17	37	1.49
480182--480242	24	2.6	24	87	7	81	36	3	1	59	1.24
481715--482030	159	2.0	159	99	0	623	29	24	20	26	1.99
491160--491202	16	2.5	18	81	7	54	41	23	4	30	1.74
491160--491213	20	2.6	22	72	24	55	42	22	3	31	1.71
491497--491534	20	1.9	20	88	0	58	28	18	18	34	1.95
493790--493834	21	2.1	21	87	0	63	31	28	24	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
494638--494762	31	4.0	31	92	2	198	20	20	23	36	1.95
497914--497958	21	2.1	21	87	0	63	31	28	24	15	1.96
498762--498871	31	3.5	31	93	0	184	19	20	21	39	1.93
498762--498886	31	4.0	31	89	2	164	20	19	22	37	1.94
502011--502068	20	2.9	20	92	0	89	29	15	17	37	1.90
503415--503445	2	16.0	2	93	6	55	51	0	0	48	1.00
509994--510046	21	2.5	21	78	6	63	20	24	18	35	1.95
510036--510126	21	4.4	21	94	1	148	38	15	23	23	1.92
510021--510170	62	2.4	62	75	4	142	32	18	21	27	1.97
510139--510279	41	3.5	41	72	13	103	28	21	18	31	1.97
510139--510211	21	3.5	21	81	3	85	21	21	19	36	1.95
510201--510271	20	3.5	20	81	11	83	35	22	19	22	1.96
510624--510677	24	2.2	24	90	0	81	40	20	16	22	1.91
511463--511514	21	2.5	20	81	3	59	40	17	21	21	1.91
511503--511576	20	3.7	20	71	10	60	37	22	17	21	1.94
511500--511591	41	2.3	40	80	1	112	41	21	15	21	1.90
511523--511590	20	3.3	20	72	2	64	42	22	14	20	1.88
511903--511956	14	3.5	14	77	22	63	11	20	20	48	1.80
511885--511955	33	2.2	33	84	0	88	19	19	21	39	1.93
513512--513609	21	4.8	20	70	10	72	21	18	38	21	1.93
513982--514037	20	2.8	20	86	2	69	37	23	23	16	1.93
514022--514145	14	7.4	18	70	24	110	46	21	18	12	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514039--514161	14	7.8	14	71	22	84	47	23	17	11	1.79
514022--514166	33	4.4	33	96	0	256	46	23	17	11	1.81
514173--514269	19	5.6	19	71	22	97	12	19	21	46	1.83
514195--514253	14	3.9	14	76	20	64	10	16	23	49	1.77
514178--514269	33	2.8	33	98	0	175	11	18	21	47	1.80
514254--514297	20	2.2	20	88	4	63	18	25	20	36	1.95
514790--514834	18	2.5	18	88	0	72	13	15	44	26	1.83
516154--516212	20	3.0	20	87	0	73	44	22	18	15	1.87
516707--516758	20	2.6	20	90	0	77	26	21	26	25	1.99
516727--516821	41	2.3	41	80	3	102	21	20	23	35	1.96
516871--516911	21	2.0	21	90	0	64	36	29	17	17	1.92
517743--517787	20	2.2	20	100	0	90	26	26	13	33	1.93
518481--518514	12	2.8	12	90	4	50	76	0	0	23	0.79
521678--521722	23	2.0	23	86	0	63	26	26	26	20	1.99
521690--522005	150	2.1	149	95	1	562	34	21	17	26	1.95
522481--522518	20	1.9	20	88	0	58	10	31	34	23	1.89
528635--528679	23	2.0	23	86	0	63	26	26	26	20	1.99
528647--528961	150	2.1	148	94	2	542	34	21	17	26	1.96
533758--533913	40	3.9	41	77	9	117	33	21	14	30	1.93
533799--533912	20	5.7	20	80	6	104	30	23	13	32	1.93
533802--533932	20	6.7	18	76	15	84	30	22	12	33	1.92
534069--534106	16	2.5	15	84	12	51	28	5	0	65	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
534843--534889	24	2.0	24	91	0	76	27	19	17	36	1.93
537437--537484	20	2.4	20	92	0	78	41	20	22	14	1.89
538953--539025	21	3.5	19	77	15	74	20	21	35	21	1.96
538953--539033	42	1.9	42	90	5	128	23	20	34	20	1.97
539172--539217	4	11.5	4	80	0	56	67	4	2	26	1.21
539327--539448	63	1.9	62	81	6	147	33	33	11	21	1.89
539349--539423	21	3.6	20	68	20	55	33	36	10	20	1.87
539440--539489	21	2.4	21	79	0	55	36	32	12	20	1.89
539374--539489	42	2.8	42	70	19	107	32	35	11	20	1.88
540964--541017	20	2.7	19	83	8	72	46	22	16	14	1.84

Tables:   1   2   3   4   5   6   7   8   9