genome.fa.s8396.2.7.7.80.10.50.1000.1.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: VEPZ01008396.1 Hibiscus syriacus cultivar Beakdansim tig00111164_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  416257

Tables:   1   2   

This is table  1  of  2  ( 185 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)
3848--3877	15	2.0	15	100	0	60	13	46	26	13	1.80
4297--4372	36	2.1	36	97	0	143	43	14	10	31	1.79
11787--12117	164	2.0	164	88	2	497	46	15	16	22	1.84
20326--20359	16	2.1	16	100	0	68	29	5	23	41	1.78
31933--32044	6	18.7	6	88	0	125	5	39	33	21	1.76
31933--32044	18	6.2	18	88	0	152	5	39	33	21	1.76
33208--33295	41	2.2	41	90	7	139	40	18	15	25	1.90
34458--34520	32	1.9	33	81	15	78	38	1	1	58	1.17
34967--35028	26	2.3	26	89	8	90	33	1	0	64	1.03
39282--39334	21	2.5	20	79	8	61	67	5	0	26	1.12
42243--42392	78	1.9	78	90	1	239	21	22	16	40	1.91
44030--44078	23	2.1	22	82	14	55	38	0	10	51	1.36
64389--64449	28	2.2	28	96	0	113	19	39	19	21	1.93
64680--64725	4	11.5	4	86	9	67	26	0	2	71	0.97
64665--64748	8	10.5	8	80	10	55	22	1	1	75	0.95
70204--72244	212	9.8	211	87	5	2685	33	24	18	23	1.97
70230--71817	106	15.0	106	92	0	2407	33	24	18	24	1.97
71616--72199	194	3.0	193	77	13	681	34	24	19	21	1.96
71720--71869	43	3.4	43	68	18	130	35	24	20	20	1.96
71721--72093	88	4.0	90	78	11	383	34	24	19	21	1.96
71897--72245	106	3.3	104	86	4	456	33	24	20	21	1.97
72911--72981	12	5.4	13	72	21	51	22	1	1	74	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
83928--83974	3	16.0	3	87	12	71	31	0	0	68	0.90
84056--84132	25	3.1	25	94	0	136	37	19	14	28	1.91
87614--87675	32	2.0	32	96	3	117	14	14	9	61	1.57
87852--88266	210	2.0	209	85	1	562	31	21	22	24	1.98
90106--90183	26	3.2	25	67	22	76	24	23	10	42	1.85
90121--90195	20	3.5	20	70	20	62	26	25	10	37	1.89
92701--92785	36	2.4	36	84	4	109	30	21	11	36	1.89
92719--92820	36	2.9	36	78	7	95	34	20	10	34	1.87
93066--93159	29	3.3	29	87	1	127	30	9	14	44	1.78
93179--93281	50	2.0	52	88	9	156	33	12	17	35	1.88
93267--93401	28	4.5	28	73	18	119	31	9	12	45	1.74
93313--93434	37	3.5	36	72	17	123	31	12	10	45	1.76
93280--93504	66	3.4	65	86	5	276	28	12	12	46	1.78
93286--93521	131	1.8	129	81	9	291	29	12	11	46	1.77
93792--93858	28	2.4	28	87	2	89	37	10	11	40	1.77
93909--93983	35	2.1	36	85	7	100	36	18	10	34	1.86
94411--94662	43	5.8	43	71	10	172	26	30	19	23	1.98
94320--94662	129	2.7	129	94	1	607	25	30	20	24	1.99
94372--94572	40	4.8	40	73	13	163	24	32	18	23	1.97
94358--94704	43	8.0	44	71	12	163	25	30	19	24	1.98
94861--94900	3	14.0	3	89	10	66	32	0	0	67	0.91
94867--94904	9	4.3	9	90	6	51	36	0	0	63	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94982--95058	25	3.1	25	94	0	136	37	19	14	28	1.91
99266--99319	23	2.2	25	83	9	67	66	9	14	9	1.43
132903--132964	30	2.1	30	87	0	88	37	14	6	41	1.72
134023--134050	14	2.0	14	100	0	56	7	28	7	57	1.52
160528--160554	2	13.5	2	100	0	54	51	0	0	48	1.00
175913--175937	2	12.5	2	100	0	50	48	0	0	52	1.00
176933--177025	21	4.5	21	81	4	109	39	17	24	18	1.91
176933--177061	20	6.3	20	74	9	109	41	17	21	19	1.91
176933--177025	41	2.3	41	98	0	177	39	17	24	18	1.91
176952--177086	41	3.3	41	81	6	123	38	20	21	20	1.94
177014--177108	20	4.7	20	80	2	91	34	24	17	23	1.96
177296--177339	22	2.0	22	90	0	70	20	43	15	20	1.88
177603--177640	20	1.9	20	88	0	58	13	15	21	50	1.78
178957--179001	18	2.5	18	88	0	72	26	44	15	13	1.83
179483--179549	20	3.4	20	81	2	73	38	23	22	14	1.92
179483--179585	19	5.6	19	75	14	81	40	23	21	14	1.90
179611--179692	19	4.3	19	84	4	94	13	23	23	40	1.89
181534--181569	14	2.6	14	90	0	54	30	0	22	47	1.52
181676--181729	14	3.5	14	77	22	63	48	20	20	11	1.80
181657--181734	33	2.4	33	91	0	120	42	21	23	12	1.87
181753--181810	20	2.9	20	92	0	89	17	20	22	39	1.92
182870--182923	24	2.2	24	90	0	81	24	16	20	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
183098--183122	12	2.1	12	100	0	50	72	0	28	0	0.86
185395--185545	19	8.7	19	67	21	89	42	19	21	15	1.89
185415--185541	33	3.8	33	87	4	193	43	19	22	14	1.88
185416--185548	66	2.0	66	95	0	239	42	19	21	16	1.89
185704--185740	14	2.6	14	91	0	65	45	24	0	29	1.53
187098--187164	21	3.2	21	68	4	55	19	20	35	23	1.95
187098--187220	42	2.9	41	80	7	113	22	17	36	22	1.95
189229--189281	20	2.7	20	84	0	70	43	20	22	13	1.86
189246--189343	33	3.0	32	86	5	133	40	24	22	12	1.88
189316--189405	19	4.7	19	93	2	153	46	22	20	11	1.81
189316--189405	39	2.3	38	94	1	153	46	22	20	11	1.81
189975--190027	20	2.7	20	93	0	88	26	20	28	24	1.99
190036--190089	20	2.7	20	94	5	92	27	18	22	31	1.97
189976--190092	61	1.9	61	83	0	153	24	17	23	33	1.97
189976--190110	61	2.2	61	80	2	146	23	20	23	32	1.98
190160--190200	21	2.0	21	85	0	55	34	31	17	17	1.93
193972--194005	2	17.0	2	100	0	68	50	0	0	50	1.00
200887--200925	3	13.0	3	100	0	78	33	0	0	66	0.92
201847--201887	21	2.0	21	95	0	73	24	24	14	36	1.93
201760--202008	19	12.6	20	76	11	149	33	24	13	27	1.93
202126--202173	22	2.2	22	96	0	87	31	33	8	27	1.86
205218--205253	18	2.0	18	88	0	54	55	22	2	19	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
205668--205717	25	2.0	25	92	0	82	26	10	22	42	1.84
205659--205717	25	2.4	24	85	2	64	30	10	18	40	1.84
206094--206146	24	2.2	24	89	0	79	37	1	13	47	1.54
206407--206495	39	2.3	39	92	0	142	47	19	14	19	1.83
206836--206973	61	2.2	63	83	8	165	50	16	1	31	1.55
208331--208426	21	4.6	21	75	8	79	22	18	32	26	1.97
208331--208430	42	2.4	42	80	9	114	23	18	33	26	1.97
210888--211005	22	5.4	22	84	0	155	29	13	36	20	1.91
210888--211004	44	2.7	44	95	0	207	29	13	36	19	1.91
211133--211198	20	3.2	20	93	4	114	21	16	25	36	1.94
211121--211198	41	1.9	41	81	5	95	24	16	24	34	1.95
211140--211207	21	3.3	21	93	2	111	23	17	26	32	1.97
211168--211235	21	3.2	21	85	0	82	35	16	23	25	1.95
211999--212045	19	2.4	19	79	13	51	59	0	8	31	1.27
212233--212278	20	2.4	20	89	7	69	41	2	6	50	1.40
229480--229546	2	33.5	2	100	0	134	50	0	0	49	1.00
231541--231710	74	2.4	72	79	5	184	38	7	12	40	1.72
231683--231733	26	1.9	27	84	11	70	39	11	9	39	1.75
231710--231867	66	2.4	66	84	5	185	38	7	13	40	1.73
231541--231908	160	2.2	167	87	6	527	39	7	13	39	1.74
231829--231999	82	2.1	80	91	2	279	40	9	14	35	1.78
236964--237020	29	2.0	29	86	6	80	50	0	1	47	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
237396--237434	2	19.5	2	100	0	78	51	0	0	48	1.00
237447--237555	11	9.3	12	72	18	88	66	2	1	28	1.15
237447--237534	23	3.8	22	79	13	97	65	2	2	29	1.16
237564--237761	97	2.0	98	95	2	355	54	6	7	31	1.54
239340--239641	102	2.9	101	77	10	342	27	16	16	38	1.91
239643--239740	40	2.5	40	100	0	196	18	24	9	47	1.77
239682--240111	113	3.8	113	84	6	588	27	20	14	37	1.92
240515--240591	22	3.5	22	87	0	118	35	14	16	33	1.89
240951--241116	54	3.1	54	92	0	269	21	24	16	37	1.93
243180--243405	114	2.0	114	92	0	380	29	19	16	33	1.94

Tables:   1   2