genome.fa.s2616.2.7.7.80.10.50.1000.4.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: VEPZ01002616.1 Hibiscus syriacus cultivar Beakdansim tig00005294_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1287628

Tables:   1   2   3   4   5   6   7   

This is table  4  of  7  ( 819 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)
542355--543243	201	4.4	200	81	7	930	30	15	13	40	1.86
542332--543242	402	2.3	399	83	7	1110	30	15	13	40	1.86
547271--547743	200	2.4	201	88	2	666	32	17	12	37	1.87
547495--547999	252	2.0	251	92	1	850	32	15	12	39	1.85
547754--548288	201	2.7	198	82	4	644	32	14	12	39	1.84
548285--548327	15	2.8	15	82	3	50	34	6	16	41	1.75
548593--548652	11	5.2	11	80	11	75	48	10	6	35	1.63
548579--548652	36	2.1	36	97	0	139	50	9	5	35	1.58
548593--548653	25	2.6	25	74	25	69	47	11	6	34	1.66
549635--549687	6	8.8	6	89	0	52	26	30	1	41	1.66
549648--549687	12	3.3	12	89	0	62	20	32	2	45	1.64
549648--549687	18	2.2	18	95	0	71	20	32	2	45	1.64
550466--551821	200	6.8	197	84	4	1507	32	17	13	36	1.89
550488--551821	600	2.2	595	83	5	1708	32	17	13	36	1.89
552172--552220	19	2.6	19	96	0	89	55	10	2	32	1.45
553774--553812	18	2.2	18	95	0	69	2	41	0	56	1.13
554078--554138	21	2.9	21	92	0	95	16	31	13	39	1.87
554224--554255	15	2.1	15	94	0	55	9	62	6	21	1.47
554534--554592	24	2.6	23	79	10	68	49	3	1	45	1.28
556552--556942	182	2.2	181	89	0	593	28	16	13	41	1.86
556801--557102	160	1.9	160	95	0	541	30	16	13	40	1.86
557572--557808	115	2.1	115	99	0	467	39	12	3	44	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560528--560597	20	3.5	20	90	0	113	35	7	12	44	1.70
561393--561435	10	4.4	10	82	5	61	86	9	4	0	0.71
561392--561435	19	2.3	19	92	0	70	84	11	4	0	0.77
561401--561443	19	2.3	19	91	0	68	76	13	6	2	1.08
570030--570073	19	2.3	19	96	0	79	36	20	27	15	1.93
571092--571143	20	2.6	20	96	0	95	38	26	13	21	1.90
571199--571392	20	9.6	20	76	8	76	35	25	19	19	1.95
571195--571392	40	5.0	39	81	4	200	35	26	19	19	1.95
571199--571391	60	3.2	60	83	0	251	35	25	19	19	1.95
571773--571843	33	2.2	33	92	0	115	11	22	18	47	1.80
571964--572018	14	3.6	14	73	21	56	41	23	25	9	1.83
571964--572034	33	2.2	33	94	0	124	43	25	22	8	1.81
573782--574248	185	2.5	186	98	0	909	22	12	19	46	1.83
573782--574248	93	5.0	93	98	0	909	22	12	19	46	1.83
574280--574408	19	7.3	19	75	17	125	45	28	17	8	1.77
574316--574408	33	2.8	32	91	4	150	46	27	18	7	1.76
574280--574408	52	2.5	52	74	14	140	45	28	17	8	1.77
574404--574521	19	6.7	19	75	18	121	10	20	22	46	1.80
574426--574482	14	3.7	14	77	20	60	10	21	22	45	1.82
574409--574501	33	2.8	33	95	0	168	10	20	21	47	1.80
574473--574537	19	3.4	19	85	4	78	10	16	27	44	1.81
576463--576498	14	2.6	14	95	0	63	33	0	22	44	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576605--576706	19	5.6	19	84	13	151	44	17	23	14	1.86
576713--576964	33	7.5	33	81	15	183	13	20	18	47	1.82
576735--577050	19	18.4	19	78	18	333	13	20	18	47	1.82
576713--577022	52	6.0	51	83	11	352	13	21	17	47	1.82
576773--576874	14	6.6	14	79	20	114	10	20	19	49	1.78
576754--577050	33	8.8	33	84	13	303	13	20	18	47	1.82
579333--579357	12	2.1	12	100	0	50	0	28	0	72	0.86
579532--579578	24	2.0	24	87	8	69	38	21	14	25	1.92
580261--580629	20	18.5	20	85	4	440	20	18	25	34	1.96
580685--580736	20	2.6	20	96	0	95	21	13	26	38	1.90
583426--583538	18	5.8	18	83	12	118	20	20	30	29	1.97
583426--583520	40	2.4	40	92	0	154	18	21	30	29	1.97
584240--584288	20	2.5	20	93	0	89	24	8	12	55	1.64
584296--584335	21	1.9	21	94	0	71	25	20	30	25	1.99
585111--585166	23	2.7	19	75	17	58	55	0	0	44	0.99
585125--585169	23	2.0	23	95	0	81	55	0	0	44	0.99
586154--586189	18	1.9	19	88	5	56	41	16	13	27	1.87
590571--590649	30	2.6	31	95	4	151	50	11	0	37	1.38
594015--594059	22	2.1	21	84	15	58	40	0	2	57	1.11
594212--594262	22	2.3	22	93	0	84	54	9	7	27	1.60
595943--596798	112	7.3	121	83	9	536	26	17	16	39	1.91
596190--596797	112	5.3	110	78	12	620	26	18	16	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
596428--596455	14	2.0	14	100	0	56	28	21	7	42	1.79
596206--596798	237	2.6	234	89	5	902	26	19	16	38	1.92
596987--597151	75	2.2	74	87	1	240	36	19	17	26	1.94
597811--597861	22	2.3	22	100	0	102	33	13	13	39	1.84
598233--598336	54	1.9	54	84	0	136	29	20	13	36	1.91
600361--600468	54	2.0	54	98	1	209	41	11	25	22	1.86
605832--605903	36	2.0	36	88	0	108	27	11	19	41	1.85
606728--606779	25	2.0	26	85	3	70	61	3	1	32	1.25
606743--606829	28	3.1	29	75	17	76	62	1	5	31	1.26
606736--606787	26	2.0	25	85	3	68	63	1	1	32	1.16
606732--606829	29	3.5	28	74	9	74	61	1	5	32	1.25
607292--607338	23	2.0	23	84	8	60	48	2	2	46	1.25
607293--607690	146	2.8	144	76	9	371	46	8	5	39	1.57
607782--607832	22	2.3	22	96	0	93	54	7	7	29	1.57
608535--608583	23	2.2	22	82	10	55	65	8	0	26	1.20
611237--611281	24	1.9	23	90	4	72	57	11	6	24	1.57
618006--618152	59	2.5	58	79	12	165	43	6	17	32	1.74
620972--621125	20	7.6	20	75	8	114	37	22	24	16	1.93
621114--621152	20	2.0	20	89	0	60	51	17	15	15	1.77
621233--621335	6	17.2	6	100	0	206	33	49	16	0	1.46
622030--622152	6	20.5	6	100	0	246	0	16	50	33	1.45
622262--622412	20	7.4	20	81	4	140	21	25	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
622260--622433	40	4.2	40	76	6	159	20	25	18	35	1.95
622449--622500	20	2.6	20	93	0	86	11	17	17	53	1.72
622649--622691	22	2.0	22	85	0	59	48	6	0	44	1.29
627866--627969	33	3.4	33	62	17	87	42	25	12	20	1.87
627887--627987	32	3.3	32	70	23	108	40	23	11	23	1.88
627976--628019	16	2.8	16	92	0	70	40	34	9	15	1.79
628210--628290	23	3.3	23	65	15	63	60	2	6	30	1.34
628635--628663	2	14.5	2	100	0	58	48	0	0	51	1.00
628729--628791	16	4.0	15	72	11	54	38	26	9	25	1.87
637587--637660	20	3.7	20	66	20	55	31	24	10	33	1.90
637614--637670	30	1.9	30	89	7	89	33	22	8	35	1.85
637586--637673	40	2.2	40	83	4	106	32	21	11	34	1.89
646732--646762	12	2.6	12	94	0	53	19	0	0	80	0.71
651360--651407	16	3.0	16	78	6	53	33	0	2	64	1.05
652799--652829	15	2.1	15	100	0	62	35	19	32	12	1.90
652956--653015	26	2.3	25	80	8	75	18	3	15	63	1.44
653560--653596	16	2.3	16	100	0	74	32	18	27	21	1.97
659251--659327	26	3.2	26	61	30	60	41	2	7	48	1.46
659594--659627	18	1.9	17	88	5	50	32	2	0	64	1.08
662954--662986	17	1.9	17	93	0	57	27	39	18	15	1.90
662973--663079	45	2.4	45	82	7	119	30	20	18	29	1.97
663291--663324	17	2.1	16	88	5	50	52	23	8	14	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
670477--670528	21	2.5	21	84	3	61	5	46	13	34	1.67
671646--671804	64	2.5	63	84	9	182	30	25	19	24	1.98
672018--672051	17	2.1	16	88	5	50	52	23	8	14	1.69
679109--679170	26	2.4	26	94	0	106	32	14	1	51	1.52
680526--680566	21	2.0	21	100	0	82	24	36	9	29	1.87
681194--681235	19	2.4	19	84	11	54	35	9	0	54	1.33
683868--683906	10	3.9	10	79	0	51	17	15	10	56	1.66
683868--683905	20	1.9	20	88	0	58	18	15	10	55	1.68
690828--690862	18	1.9	18	88	0	52	71	5	5	17	1.25
691048--691205	22	7.1	21	67	22	67	65	3	3	26	1.26

Tables:   1   2   3   4   5   6   7