genome.fa.s8274.2.7.7.80.10.50.1000.3.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: VEPZ01008274.1 Hibiscus syriacus cultivar Beakdansim tig00110931_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1661830

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 705 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)
502527--502636	31	3.4	31	69	16	89	20	21	19	39	1.93
504203--504233	11	2.9	11	95	4	55	35	0	6	58	1.24
505204--505396	60	3.2	60	78	10	198	39	4	24	31	1.76
506669--506752	2	42.0	2	100	0	168	50	0	0	50	1.00
508792--508844	26	2.0	28	88	7	83	50	0	9	39	1.35
512726--512761	12	2.6	15	75	25	51	11	36	5	47	1.63
512730--512758	12	2.4	12	100	0	58	13	34	6	44	1.71
514447--514775	165	2.0	162	98	1	631	32	24	16	27	1.96
515118--515229	55	2.0	56	98	1	217	33	17	16	32	1.92
516711--516775	29	2.2	29	83	5	78	40	9	6	44	1.61
516858--516973	57	2.0	57	96	0	214	38	9	8	43	1.68
542205--542249	18	2.3	19	81	14	56	35	20	28	15	1.93
542215--542251	18	2.1	18	94	0	65	37	18	27	16	1.92
545429--545518	45	2.0	45	86	0	126	33	20	17	28	1.95
545875--547306	207	7.0	207	94	3	2514	30	14	24	29	1.95
545875--547306	410	3.5	411	93	3	2504	30	14	24	29	1.95
545875--547306	612	2.3	611	94	3	2553	30	14	24	29	1.95
547221--547437	106	2.0	108	94	4	386	31	18	16	34	1.93
547446--547591	71	2.1	71	100	0	292	26	10	26	36	1.89
563289--563358	18	4.2	18	75	17	87	20	50	17	12	1.78
563294--563354	31	2.0	31	93	0	104	19	49	16	14	1.80
564563--564598	18	2.0	18	88	0	54	52	0	16	30	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565727--565817	24	3.8	24	82	2	112	27	14	18	39	1.89
573212--573245	14	2.5	14	90	4	52	41	0	0	58	0.98
577507--577610	32	3.3	31	82	5	84	53	4	1	39	1.33
577534--577610	31	2.4	32	86	2	102	53	6	1	38	1.35
579822--579851	2	15.0	2	92	0	51	53	0	0	46	1.00
579969--580015	14	3.5	14	77	11	62	63	2	0	34	1.06
579946--580014	26	2.6	27	90	4	104	57	4	1	36	1.27
580473--580516	22	2.0	21	82	4	52	43	2	0	54	1.12
581816--581860	23	2.0	23	86	0	63	26	31	24	17	1.97
581839--582142	149	2.0	149	96	0	563	34	20	17	27	1.95
582869--582894	2	13.0	2	100	0	52	50	0	0	50	1.00
583130--583164	18	1.9	18	88	11	54	22	17	5	54	1.64
583743--583787	21	2.1	21	84	8	56	17	24	26	31	1.97
586905--586949	23	2.0	23	81	0	54	26	26	24	22	2.00
586928--587231	149	2.0	149	96	0	563	33	20	18	27	1.95
588223--588257	18	1.9	18	88	11	54	22	17	5	54	1.64
588836--588880	21	2.1	21	87	0	63	15	24	28	31	1.96
591784--591832	19	2.5	20	80	9	66	59	0	0	40	0.98
599669--599734	16	4.1	16	75	19	50	51	1	1	45	1.19
604693--604777	31	2.7	32	77	17	97	42	3	15	38	1.64
606918--606947	14	2.1	14	100	0	60	0	36	20	43	1.52
618833--618873	14	2.8	15	88	3	57	24	14	0	60	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
619153--619189	18	2.1	18	94	0	65	29	0	0	70	0.88
621231--621284	27	2.0	26	86	10	74	24	14	5	55	1.61
621247--621299	15	3.8	14	80	7	54	22	16	7	52	1.69
623495--623538	2	22.0	2	100	0	88	50	0	0	50	1.00
626483--626527	21	2.1	21	87	0	63	31	28	24	15	1.96
627083--627250	74	2.3	74	84	4	214	32	16	20	29	1.95
628516--628592	21	3.6	22	81	12	88	31	15	12	40	1.85
628991--629443	114	4.0	113	90	3	698	37	15	19	27	1.92
631319--631355	18	2.1	18	94	0	65	29	0	0	70	0.88
637130--637188	17	3.2	19	83	11	68	15	28	37	18	1.91
637156--637195	17	2.4	17	100	0	80	20	32	22	25	1.98
643402--643436	18	1.9	18	88	0	52	54	0	17	28	1.43
648632--648666	18	1.9	18	88	0	52	54	0	17	28	1.43
657928--657952	2	12.5	2	100	0	50	52	0	0	48	1.00
658456--658506	23	2.2	23	100	0	102	35	25	15	23	1.94
672063--672381	165	1.9	168	89	4	495	42	18	13	25	1.87
684209--684307	49	2.0	49	100	0	198	43	22	14	20	1.87
692105--692137	8	4.0	8	96	4	57	48	0	0	51	1.00
692056--692115	24	2.5	24	81	8	68	53	1	0	45	1.10
693669--693696	6	4.7	6	100	0	56	14	14	53	17	1.73
704478--704527	25	2.0	25	100	0	100	28	28	28	16	1.97
708014--708083	34	2.1	32	86	5	95	22	31	14	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
708298--708337	21	1.9	22	90	10	66	12	10	40	37	1.77
708440--708512	20	3.7	20	92	0	110	31	23	27	17	1.97
709961--710008	19	2.5	20	82	3	62	29	12	6	52	1.63
711152--711191	21	1.9	22	90	10	66	12	10	40	37	1.77
711356--711454	21	4.7	21	78	13	114	20	21	36	22	1.95
723633--723703	35	2.0	35	94	0	124	38	19	15	26	1.92
724441--724505	2	32.5	2	96	0	121	49	0	0	50	1.00
759918--760005	31	2.8	31	91	3	142	47	12	20	19	1.81
760598--760631	11	3.2	11	83	8	52	23	11	17	47	1.81
760599--760639	21	2.0	21	85	0	55	24	14	17	43	1.86
763386--763448	2	31.5	2	100	0	126	49	0	0	50	1.00
764720--764760	14	2.9	14	81	0	55	34	9	21	34	1.87
776179--776217	19	2.1	19	90	0	60	43	12	0	43	1.42
776406--776560	79	2.0	78	91	3	249	36	17	9	36	1.81
777577--777970	188	2.1	186	92	2	657	42	3	8	45	1.51
777977--778009	9	3.7	9	100	0	66	24	9	18	48	1.76
778531--778577	23	2.0	24	88	12	71	70	2	0	27	0.99
785103--785231	60	2.2	59	84	1	168	31	7	26	34	1.85
786001--786195	107	1.8	106	87	2	293	29	12	21	35	1.91
792761--792936	92	1.9	93	90	4	286	42	6	2	47	1.44
792971--793013	22	2.0	22	95	0	77	51	6	6	34	1.56
795109--795214	39	2.7	39	86	2	133	39	16	1	42	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
801798--801873	25	3.0	26	73	21	72	42	0	9	48	1.35
811950--812264	160	2.0	159	99	0	621	38	8	12	41	1.72
820643--820689	14	3.4	14	94	5	78	23	6	12	57	1.58
827310--827350	16	2.6	16	92	0	64	2	14	29	53	1.54
827620--827653	17	1.9	18	88	5	52	44	2	2	50	1.32
828281--828328	22	2.2	22	96	0	87	41	8	6	43	1.60
833616--833667	23	2.3	23	93	0	86	34	19	5	40	1.75
833616--833700	23	3.7	23	81	6	73	30	21	8	40	1.82
842535--842568	16	2.1	16	89	10	52	44	14	17	23	1.86
845237--845492	77	3.2	79	81	7	268	39	19	9	31	1.83
847693--847737	15	2.8	17	74	19	51	35	17	0	46	1.49
852865--852896	15	2.1	15	94	0	55	6	25	15	53	1.65
854099--854159	21	3.2	21	65	26	62	47	16	4	31	1.68
854081--854160	36	2.2	36	93	2	135	45	18	5	31	1.71
854942--854972	2	16.0	2	93	6	55	51	0	0	48	1.00
869349--869444	2	54.0	2	73	22	63	57	0	0	42	0.98
869340--869428	36	2.5	36	94	3	155	58	0	0	41	0.98
869340--869445	36	3.1	36	84	10	141	57	0	0	42	0.98
870450--870475	5	5.2	5	100	0	52	23	57	19	0	1.40
873159--873206	2	24.0	2	100	0	96	50	0	0	50	1.00
887359--887390	15	2.1	16	94	5	57	31	28	6	34	1.82
887824--887877	23	2.4	22	87	3	72	46	18	3	31	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
887822--887877	22	2.4	23	82	5	69	46	17	3	32	1.66
890082--890136	19	2.8	19	81	13	67	38	10	0	50	1.37
890505--890540	2	18.0	2	100	0	72	50	0	0	50	1.00
902096--902150	27	2.0	27	100	0	110	18	18	27	36	1.94
902312--902364	24	2.2	24	86	0	70	13	11	22	52	1.71
920561--920683	37	3.3	38	76	13	112	50	4	0	44	1.23
920656--920712	29	2.0	29	85	0	78	43	5	3	47	1.43
920676--921017	37	9.2	36	72	18	141	45	5	3	45	1.44
920789--921020	37	6.3	37	77	9	213	47	4	3	44	1.39
923790--924055	132	2.0	131	89	0	406	23	11	25	39	1.89

Tables:   1   2   3   4   5   6