genome.fa.s9160.2.7.7.80.10.50.1000.1.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: VEPZ01009160.1 Hibiscus syriacus cultivar Beakdansim tig00112688_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  458650

Tables:   1   2   3   

This is table  1  of  3  ( 307 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)
7468--7499	14	2.3	14	94	0	55	31	0	34	34	1.58
24672--24887	108	2.0	108	100	0	432	41	24	12	22	1.87
26860--26907	18	2.7	18	90	3	71	29	22	6	41	1.78
31567--31609	17	2.4	18	84	7	61	18	2	0	79	0.85
31648--31712	8	8.1	8	71	11	53	18	4	0	76	0.95
31666--31698	17	1.9	17	88	11	50	18	3	0	78	0.87
31670--31717	14	3.4	14	86	13	55	16	6	0	77	0.97
31646--31718	23	3.1	23	86	11	87	20	5	0	73	1.02
31650--31714	31	2.0	33	85	11	91	18	6	0	75	1.00
31797--31854	23	2.6	22	77	20	66	22	3	1	72	1.09
31792--31904	7	15.6	7	76	14	52	20	3	2	73	1.10
31972--32018	15	3.4	14	77	11	51	17	10	0	72	1.12
37268--38111	84	10.2	83	81	4	853	29	25	20	24	1.99
37268--38132	250	3.5	249	85	3	1148	29	24	20	24	1.99
37268--38128	334	2.6	333	81	3	1040	29	24	20	24	1.99
39684--39708	3	8.3	3	100	0	50	32	0	0	68	0.90
39759--39822	29	2.2	30	82	2	76	14	3	0	82	0.78
39761--39822	7	7.8	8	81	15	67	12	3	0	83	0.75
39917--39974	23	2.6	22	77	20	66	22	3	1	72	1.09
40040--40071	15	2.1	16	94	5	57	15	12	0	71	1.14
43773--43859	42	2.1	42	91	0	138	34	19	37	8	1.81
48845--48880	17	2.1	17	100	0	72	36	16	5	41	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
54925--55004	40	2.0	40	97	0	151	45	23	7	23	1.78
57406--57459	27	2.0	27	92	0	90	12	46	9	31	1.74
66748--66778	16	1.9	16	93	0	53	61	0	0	38	0.96
68266--68386	59	2.1	59	81	6	138	37	18	5	38	1.75
69417--69452	2	18.5	2	94	5	65	47	0	0	52	1.00
70772--70838	25	2.6	25	88	2	89	35	4	1	58	1.28
70749--70910	31	5.5	31	74	11	142	39	4	2	53	1.34
73537--73664	60	2.1	60	82	0	148	37	17	14	29	1.90
73867--73909	16	2.6	17	85	7	54	55	0	0	44	0.99
77280--77573	41	7.1	41	77	8	245	25	18	19	36	1.94
77296--77573	84	3.4	81	81	6	310	25	17	18	37	1.93
77297--77539	125	2.0	123	86	7	339	26	17	17	37	1.92
80451--80584	43	3.1	43	85	2	171	23	22	21	32	1.98
85010--85061	2	26.0	2	92	0	86	46	0	0	53	1.00
86590--86624	17	2.1	17	100	0	70	37	22	17	22	1.94
91012--91036	2	12.5	2	100	0	50	48	0	0	52	1.00
91373--91465	20	4.6	20	90	1	132	21	26	20	31	1.98
91373--91485	40	2.8	41	83	2	156	23	28	19	28	1.98
99845--100009	64	2.5	63	82	7	188	36	18	17	27	1.94
100469--100504	17	2.0	19	89	10	58	44	5	11	38	1.63
100638--100745	31	3.5	31	79	3	103	24	18	22	35	1.96
100660--100766	31	3.5	30	79	6	90	24	18	24	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
103096--103155	30	2.0	30	83	6	77	50	20	8	21	1.74
104146--104236	20	4.9	20	69	20	81	35	5	14	45	1.68
104145--104294	53	2.9	53	94	3	252	32	6	12	49	1.65
104251--104290	20	2.0	20	90	0	62	35	5	12	47	1.63
107542--107652	20	5.9	20	74	16	103	34	5	15	45	1.69
107667--107706	20	2.0	20	90	0	62	35	5	12	47	1.63
107542--107706	73	2.3	72	95	1	294	33	5	13	47	1.66
108657--108723	33	2.0	33	100	0	134	52	11	8	26	1.68
114499--114538	19	2.1	19	85	0	53	30	2	0	67	1.04
128941--128977	18	2.1	18	90	5	58	40	5	0	54	1.24
129085--129111	3	9.0	3	100	0	54	33	0	0	66	0.92
146540--146700	64	2.5	63	84	8	191	27	22	17	32	1.96
149513--149570	2	29.0	2	100	0	116	50	0	0	50	1.00
158342--158402	30	2.0	30	90	6	97	60	0	8	31	1.26
163628--163877	42	6.0	43	70	11	107	31	16	22	29	1.96
163678--163875	40	4.8	42	74	12	148	32	18	22	26	1.97
163736--163890	82	1.9	83	91	4	260	36	18	21	24	1.95
163735--164059	41	7.9	41	75	15	171	36	16	19	27	1.93
163859--164061	41	5.0	40	80	7	214	37	15	17	29	1.90
164581--164863	83	3.4	81	83	7	318	26	20	19	32	1.97
164581--164863	41	6.8	41	84	4	309	26	20	19	32	1.97
164834--164918	43	2.0	41	88	4	125	37	10	15	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
173632--173682	21	2.4	21	80	6	59	43	15	39	1	1.58
174100--174452	43	8.2	42	78	7	287	34	23	14	27	1.93
174165--174452	88	3.3	86	83	4	337	34	22	13	29	1.92
174100--174411	131	2.4	129	85	4	398	34	22	14	28	1.93
174647--174683	2	18.5	2	100	0	74	51	0	0	48	1.00
176693--176743	19	2.6	20	90	3	77	43	23	17	15	1.88
176693--176950	20	12.6	20	74	9	94	40	19	22	17	1.91
176712--176806	40	2.4	41	82	10	124	48	20	18	12	1.80
176817--176950	43	3.2	42	82	6	182	36	17	25	20	1.94
177038--177098	6	10.2	6	100	0	122	34	49	16	0	1.46
177777--177967	20	9.4	20	86	5	240	23	24	16	36	1.95
178002--178053	20	2.6	20	93	0	86	11	17	19	51	1.75
182874--183081	7	29.9	7	99	0	409	43	0	0	56	0.99
183080--183438	181	2.0	184	90	6	579	45	8	3	42	1.50
184242--184294	20	2.7	20	88	5	72	41	24	20	13	1.88
184303--184536	20	11.6	20	77	5	220	38	23	18	20	1.94
184303--184536	40	5.8	40	84	3	245	38	23	18	20	1.94
184606--184652	21	2.2	21	80	0	58	21	27	14	36	1.93
184648--184713	20	3.3	20	87	4	98	36	19	19	24	1.95
184663--184723	20	3.0	20	83	4	70	34	18	21	26	1.96
185575--185628	24	2.2	24	93	0	90	20	18	20	40	1.91
188008--188088	20	4.4	19	73	17	73	13	22	22	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
188041--188093	20	2.7	19	91	2	79	15	22	24	37	1.92
189578--189685	42	2.6	42	76	8	105	23	18	37	21	1.95
190177--190242	20	3.3	20	91	0	105	37	18	21	22	1.94
190166--190259	40	2.4	39	80	1	116	41	20	19	19	1.91
190265--190331	19	3.8	19	77	18	90	5	14	31	47	1.69
190419--190798	94	4.1	94	93	1	620	47	18	11	22	1.80
192355--192408	25	2.1	25	83	10	65	59	16	7	16	1.59
192471--192526	20	2.8	20	80	20	80	39	19	25	16	1.91
192559--192668	21	5.5	20	90	3	125	12	16	20	50	1.78
193226--193418	20	9.6	20	81	4	226	19	19	24	36	1.95
193226--193479	40	6.3	40	79	8	230	19	18	24	37	1.94
193223--193479	101	2.5	100	85	6	331	19	18	24	36	1.94
193427--193520	20	4.7	20	77	5	100	18	19	23	39	1.92
193473--193539	21	3.2	21	70	4	73	26	19	23	29	1.98
193453--193564	41	2.7	41	91	6	174	23	19	21	35	1.96
194292--194404	35	3.2	35	82	7	140	43	20	0	36	1.52
195399--195507	35	3.2	33	85	5	139	35	0	22	41	1.60
196612--196696	37	2.2	38	89	4	136	20	20	18	41	1.91
204851--204916	22	3.0	22	88	6	89	30	13	13	42	1.83
212183--212222	19	2.1	19	95	0	71	22	37	0	40	1.54
216437--216490	25	2.2	25	86	6	74	37	3	5	53	1.42
219607--219718	35	3.2	35	84	0	143	42	20	1	34	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
220771--220848	35	2.2	35	86	0	111	35	0	20	43	1.52
221838--221884	12	4.2	12	78	15	64	38	6	48	6	1.54
221846--221886	21	2.0	21	100	0	82	41	4	48	4	1.46
221902--222017	44	2.7	43	85	9	164	39	0	40	19	1.52
227030--227076	12	4.2	12	78	15	64	36	6	51	6	1.53
227037--227079	21	2.0	21	100	0	86	37	4	53	4	1.43
228101--228151	23	2.2	23	85	0	66	37	7	19	35	1.81
228179--228230	23	2.3	23	79	0	59	44	5	13	36	1.68
228276--228320	23	2.0	22	83	8	56	44	6	20	28	1.76
228073--228333	87	3.0	86	86	4	371	43	8	13	34	1.75

Tables:   1   2   3