genome.fa.s8721.2.7.7.80.10.50.1000.3.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: VEPZ01008721.1 Hibiscus syriacus cultivar Beakdansim tig00111779_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2464137

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  3  of  12  ( 1342 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)
398343--398485	18	7.6	19	67	15	66	48	2	0	48	1.18
398480--398523	22	2.0	22	81	4	52	52	2	2	43	1.26
398562--398633	30	2.3	34	81	11	91	48	2	0	48	1.16
398828--398866	14	2.8	14	92	0	60	33	17	17	30	1.94
398870--398928	14	4.1	14	78	4	64	37	16	6	38	1.76
399727--399782	6	9.3	6	73	7	51	42	0	37	19	1.52
399727--399788	18	3.3	19	80	11	65	43	0	37	19	1.51
399663--400568	460	2.0	461	94	2	1593	28	14	24	32	1.95
404735--404855	64	1.9	63	87	1	179	34	22	18	24	1.96
406164--406325	85	1.9	84	88	1	243	31	17	19	31	1.95
408705--409204	210	2.4	208	83	6	633	30	15	15	39	1.87
414606--414659	20	2.6	21	88	2	83	27	27	29	14	1.95
414909--414958	20	2.5	20	100	0	100	20	18	40	22	1.92
415372--415495	47	2.7	46	84	6	146	30	23	8	37	1.84
415602--415763	40	4.1	40	95	0	297	33	25	16	24	1.96
420390--420470	22	3.6	22	96	1	144	24	29	27	18	1.98
420404--420466	10	5.5	13	65	27	52	26	26	26	19	1.99
421121--421174	2	27.0	2	100	0	108	50	0	0	50	1.00
422191--422235	21	2.1	21	91	0	72	15	22	28	33	1.95
423151--423196	18	2.5	19	89	3	67	41	4	2	52	1.33
434836--434936	2	57.0	2	71	23	75	48	1	0	49	1.12
434831--434921	29	3.0	31	91	6	159	48	2	0	49	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434828--434930	31	3.4	30	90	6	145	47	1	0	50	1.12
434827--434948	29	4.5	28	75	17	82	46	1	0	51	1.10
435548--435620	34	2.1	35	97	2	139	35	10	13	39	1.80
435986--436124	53	2.7	50	73	4	134	35	12	13	37	1.84
436747--436774	14	2.0	14	100	0	56	42	21	7	28	1.79
439611--440006	197	2.0	197	100	0	792	38	11	16	33	1.85
441995--442101	31	3.4	32	75	8	94	31	18	15	33	1.93
442028--442119	31	3.0	31	73	9	89	29	19	19	31	1.97
441996--442119	62	2.0	62	84	7	162	31	19	17	31	1.95
444614--444732	63	1.9	61	84	3	157	34	21	14	30	1.93
444615--444737	31	3.9	32	73	5	108	34	20	15	30	1.93
445036--445082	24	1.9	25	86	4	69	42	12	0	44	1.42
445578--445716	64	2.2	65	81	5	167	24	20	19	35	1.96
451715--451769	20	2.8	20	88	0	83	43	1	21	32	1.63
457854--457934	32	2.5	33	85	2	101	29	28	23	18	1.98
458976--459030	26	2.1	26	82	0	65	23	16	21	38	1.93
459024--459086	27	2.3	27	79	15	67	23	11	19	46	1.82
459927--459981	26	2.1	26	86	0	74	21	16	21	40	1.91
459975--460037	27	2.3	27	82	15	76	23	12	19	44	1.85
458681--460583	951	2.0	951	98	0	3689	33	15	14	37	1.88
461921--462008	31	2.9	31	86	5	117	32	17	20	29	1.95
464064--464162	18	5.9	18	73	17	97	27	32	20	20	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
464021--464162	64	2.3	63	90	2	214	26	30	21	21	1.98
464081--464282	46	4.4	46	88	1	298	29	29	20	21	1.98
464064--464203	64	2.2	64	82	5	158	28	30	19	21	1.97
464219--464253	18	1.9	18	100	0	70	22	28	22	25	1.99
467652--467717	3	22.0	3	76	11	64	37	0	3	59	1.13
467653--467696	13	3.3	13	90	9	63	43	0	0	56	0.99
469058--469122	34	1.9	34	87	6	96	43	6	4	46	1.49
471783--471841	8	7.4	8	90	0	64	49	10	1	38	1.47
471807--471842	2	18.0	2	94	0	63	50	2	0	47	1.15
471783--471842	12	5.0	12	87	0	66	48	10	1	40	1.47
471985--472015	14	2.2	14	94	0	53	48	12	3	35	1.58
472539--472600	4	16.0	4	78	6	65	48	20	1	29	1.59
473977--474024	13	3.7	13	81	8	62	43	0	10	45	1.38
474794--474841	23	2.1	23	88	0	69	35	12	18	33	1.89
475278--475350	23	3.2	23	92	0	119	38	21	5	34	1.77
475768--475840	23	3.2	23	92	0	119	38	21	5	34	1.77
476186--476250	25	2.6	25	97	0	121	36	12	10	40	1.78
478712--480019	183	7.1	183	96	0	2280	33	16	14	35	1.89
480303--481279	200	4.9	200	97	0	1830	30	17	14	36	1.90
481386--481446	19	3.3	18	88	2	59	52	11	1	34	1.47
481398--481446	19	2.6	19	96	0	89	55	10	2	32	1.45
483238--483303	33	2.0	33	90	0	105	22	48	0	28	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
483337--483401	21	3.1	21	90	0	103	18	29	10	41	1.84
485616--485658	20	2.3	18	85	14	61	20	16	11	51	1.75
485621--485667	20	2.4	19	82	10	67	19	17	10	53	1.72
485801--485847	20	2.4	19	79	10	58	21	17	8	53	1.70
485588--486059	180	2.6	180	90	1	721	26	16	13	42	1.86
488042--488110	31	2.3	31	89	2	113	30	24	27	17	1.97
493703--493757	3	18.0	3	78	14	51	61	0	3	34	1.13
493723--493781	21	3.0	21	82	7	61	71	0	6	22	1.09
493703--493757	24	2.2	25	83	3	67	61	0	3	34	1.13
494281--494690	195	2.1	193	96	0	757	30	17	15	36	1.91
494657--495071	112	3.6	112	81	10	534	28	18	14	37	1.91
494474--495070	232	2.6	232	96	1	1088	28	18	15	37	1.91
496886--496998	33	3.2	33	66	22	84	34	22	15	28	1.94
499560--499621	32	1.9	32	86	0	88	19	16	19	45	1.86
503440--503475	7	5.1	7	87	12	56	58	11	16	13	1.63
503557--503638	43	1.9	43	87	0	119	35	21	9	32	1.87
504959--505042	28	3.0	28	79	11	91	59	0	3	36	1.15
505775--505805	14	2.3	14	94	5	55	58	0	0	41	0.98
505916--505978	24	2.7	24	72	20	60	65	4	3	26	1.28
506924--506982	22	2.7	22	97	0	109	23	20	30	25	1.98
507233--507276	15	2.9	15	82	3	52	70	0	4	25	1.06
507217--507261	21	2.3	21	85	11	60	60	0	2	37	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
516347--516394	20	2.5	19	83	6	53	47	0	2	50	1.12
530583--530674	47	2.0	47	86	4	132	38	13	5	43	1.66
543278--543325	3	15.7	3	82	4	60	60	4	0	35	1.16
543678--543737	17	3.6	16	72	18	59	21	21	8	48	1.76
543680--543775	40	2.6	38	87	12	139	18	21	9	50	1.75
543714--544259	113	4.8	112	96	1	1002	25	19	15	39	1.91
545027--545468	115	3.9	115	96	0	778	31	20	14	33	1.92
545423--545808	83	4.7	83	95	0	637	38	22	12	26	1.89
546954--547016	22	2.8	22	81	13	76	0	17	0	82	0.67
546962--547016	15	3.6	14	80	11	56	0	20	0	80	0.72
559743--559814	3	23.7	3	85	2	99	61	1	0	37	1.05
562110--562664	148	3.6	154	80	10	524	48	7	6	38	1.56
562689--562744	2	28.0	2	96	0	103	48	0	0	51	1.00
564186--564233	3	16.0	3	82	8	62	60	0	0	39	0.97
564186--564233	21	2.3	21	89	7	71	60	0	0	39	0.97
564484--564580	45	2.2	45	90	3	151	29	17	22	29	1.97
564484--565016	120	4.5	120	88	4	740	29	20	21	28	1.98
564894--565558	76	8.7	76	84	6	797	33	20	19	25	1.97
566183--566239	22	2.6	22	100	0	114	35	14	17	33	1.90
566609--566713	54	1.9	54	86	0	147	28	20	16	35	1.94
568520--568662	45	3.2	45	94	0	250	32	25	6	35	1.81
568593--568729	68	2.0	68	88	2	204	32	26	5	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572532--572735	65	3.1	64	86	6	277	26	17	23	32	1.96
574268--574307	20	2.0	21	85	14	57	42	5	7	45	1.54
574562--574764	65	3.1	63	87	6	282	27	16	23	32	1.96
582058--582615	148	3.6	153	79	11	485	46	7	5	40	1.55
582071--582615	158	3.6	153	78	14	465	46	7	5	40	1.55
582484--582515	15	2.0	17	88	11	50	68	0	0	31	0.90
582628--582659	2	16.0	2	100	0	64	50	0	0	50	1.00
584061--584117	3	19.0	3	85	7	80	61	0	0	38	0.96
587056--587087	16	1.9	17	93	6	57	62	0	0	37	0.95
589513--589585	34	2.1	34	92	0	119	36	9	4	49	1.55

Tables:   1   2   3   4   5   6   7   8   9   10   11   12