genome.fa.s1.2.7.7.80.10.50.1000.2.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: VEPZ01000001.1 Hibiscus syriacus cultivar Beakdansim tig00000002_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2159989

Tables:   1   2   3   4   5   6   7   8   

This is table  2  of  8  ( 891 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)
175979--176052	22	3.2	22	73	19	62	55	12	0	32	1.37
176023--176070	14	3.1	15	72	21	53	56	6	0	37	1.25
176080--176132	22	2.5	21	73	11	54	52	11	0	35	1.37
176154--176228	15	5.0	15	95	0	132	50	0	0	49	1.00
178024--178068	2	22.5	2	86	8	65	46	2	0	51	1.13
180684--180708	2	12.5	2	100	0	50	52	0	0	48	1.00
183577--183618	19	2.2	20	86	4	59	42	4	0	52	1.22
185220--185344	31	4.0	31	90	2	189	37	23	19	20	1.94
186148--186192	21	2.1	21	87	0	63	15	24	28	31	1.96
187931--187976	2	23.0	2	100	0	92	50	0	0	50	1.00
188036--188087	26	2.1	25	92	7	88	61	3	1	32	1.25
188032--188089	26	2.5	21	73	23	62	58	3	1	36	1.25
194733--194762	2	15.0	2	100	0	60	50	0	0	50	1.00
197947--197988	2	21.0	2	100	0	84	50	0	0	50	1.00
200960--201265	151	2.0	149	92	1	513	34	21	16	27	1.95
201366--201393	14	2.0	14	100	0	56	35	28	7	28	1.84
202156--202190	18	1.9	18	88	11	54	22	17	5	54	1.64
202771--202815	21	2.1	21	87	0	63	15	24	28	31	1.96
205006--205071	6	10.5	6	82	9	51	72	1	1	24	1.01
205034--205065	3	10.7	3	100	0	64	68	0	0	31	0.90
205100--205149	21	2.4	22	80	16	61	44	6	2	48	1.39
205136--205169	2	17.0	2	100	0	68	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
205285--205328	22	2.0	22	86	4	61	43	11	2	43	1.53
205212--205357	78	1.9	78	82	5	188	43	7	2	45	1.46
212253--212366	57	2.0	57	94	0	201	28	10	22	37	1.88
212266--212384	57	2.1	57	87	3	168	31	10	21	36	1.88
215513--215625	60	1.9	60	88	3	174	27	22	23	26	1.99
217226--217257	15	2.1	16	94	5	57	28	18	28	25	1.98
218155--218234	42	1.9	42	84	0	106	22	13	23	40	1.90
221536--221562	12	2.2	12	100	0	54	29	25	0	44	1.54
243154--243238	44	1.9	44	95	0	152	25	9	21	43	1.82
249451--249492	15	2.8	15	75	13	50	50	0	4	45	1.23
257355--257389	2	17.5	2	100	0	70	48	0	0	51	1.00
259309--259335	12	2.2	12	100	0	54	55	18	7	18	1.65
263999--264068	32	2.2	30	76	14	70	60	20	20	0	1.37
275037--275071	17	2.1	17	100	0	70	28	11	42	17	1.83
278238--278395	21	7.8	20	72	7	86	38	25	17	18	1.92
278362--278611	20	12.5	20	81	6	220	38	24	17	20	1.93
279294--279348	24	2.3	24	90	6	85	25	14	21	38	1.92
280211--280308	19	5.4	19	84	13	143	14	22	17	45	1.84
280192--280308	53	2.2	53	98	1	227	13	23	17	44	1.85
280367--280515	33	4.3	33	73	18	142	44	18	24	13	1.85
280367--280496	19	7.3	19	79	17	163	45	17	23	13	1.84
280505--280640	19	7.6	19	78	17	166	15	24	16	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
280367--280515	52	2.8	52	98	1	289	44	18	24	13	1.85
280505--280640	33	3.9	33	72	20	125	15	24	16	43	1.87
280505--280640	53	2.6	52	94	2	236	15	24	16	43	1.87
282769--282825	14	3.7	14	77	20	60	45	22	21	10	1.82
282712--282842	33	3.8	33	87	5	172	47	24	19	9	1.78
282694--282847	19	8.6	19	80	14	148	46	24	18	10	1.81
282711--282847	52	2.6	54	76	16	144	46	24	19	9	1.79
282843--282971	19	7.3	19	75	17	125	8	17	28	45	1.77
282843--282934	33	2.8	33	93	3	150	7	18	28	45	1.76
283017--283953	93	10.1	93	98	0	1829	45	19	12	22	1.84
285660--285749	14	5.7	14	74	23	81	42	23	25	8	1.83
285652--285766	33	3.5	33	93	0	203	46	20	23	9	1.80
285659--285771	19	6.8	18	72	23	88	43	22	24	9	1.83
285783--285839	14	3.7	14	75	20	60	8	24	22	43	1.81
285767--285847	33	2.5	33	95	0	144	8	22	22	46	1.78
285823--285900	41	1.9	41	94	0	138	12	24	16	46	1.82
285824--285899	21	3.7	21	80	3	100	11	23	17	47	1.80
285979--286049	33	2.2	33	86	0	97	49	16	22	11	1.78
286230--286284	22	2.5	22	75	0	65	21	16	38	23	1.93
286430--286623	20	9.6	20	80	5	203	20	19	24	35	1.95
286430--286623	60	3.2	60	80	0	226	20	19	24	35	1.95
286610--286692	21	4.0	21	70	6	69	25	15	24	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
295060--295110	23	2.2	23	100	0	102	23	11	25	39	1.89
295159--295765	253	2.4	253	88	7	900	27	11	19	41	1.86
296117--296164	18	2.7	18	90	3	71	31	25	8	35	1.85
297623--297691	24	2.9	24	80	4	77	57	14	5	21	1.58
299573--299691	35	3.3	36	88	5	161	33	5	17	43	1.71
304193--304256	21	3.4	20	66	29	59	31	4	18	45	1.70
304185--304306	35	3.4	36	87	6	176	32	4	18	43	1.72
309965--309992	2	14.0	2	100	0	56	50	0	0	50	1.00
310530--310557	2	14.0	2	100	0	56	50	0	0	50	1.00
311312--311341	2	15.0	2	100	0	60	50	0	0	50	1.00
311531--311573	20	2.3	19	84	11	61	25	30	6	37	1.82
319032--319070	16	2.4	16	100	0	78	20	17	33	28	1.96
322567--322635	35	1.9	35	85	5	93	44	0	2	52	1.16
322777--322860	20	4.6	18	81	13	91	26	23	8	41	1.82
322800--322885	20	4.3	20	86	0	118	29	25	4	40	1.75
322794--322885	40	2.3	40	92	3	152	29	25	4	41	1.74
323696--323790	23	4.3	23	76	6	88	21	27	2	49	1.60
326137--326428	34	8.5	34	67	20	94	40	4	7	47	1.53
326100--326200	36	2.7	36	82	8	114	44	2	5	46	1.43
326138--326265	34	3.8	33	76	11	100	41	4	7	46	1.54
326247--326428	35	5.3	34	72	18	103	39	4	7	48	1.52
326247--326322	36	2.1	37	85	4	102	42	3	5	48	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
327717--327783	20	3.0	22	75	22	68	20	5	0	73	1.04
331005--331061	2	28.5	2	96	0	105	49	0	1	49	1.11
333240--333296	21	2.6	21	86	5	60	31	17	7	43	1.76
333250--333297	21	2.3	21	92	0	78	29	18	10	41	1.84
337909--337956	21	2.3	21	96	0	87	27	18	12	41	1.86
352314--352373	27	2.1	29	84	6	79	63	8	0	28	1.23
354740--354895	71	2.2	71	90	0	249	19	12	19	48	1.80
361940--362249	153	2.0	155	98	1	606	37	13	10	37	1.80
362328--362353	3	8.7	3	100	0	52	34	0	0	65	0.93
367077--367229	77	2.0	77	100	0	306	30	20	10	37	1.87
374215--374334	64	1.9	64	96	0	222	25	17	33	24	1.96
383195--383243	22	2.2	22	85	7	64	55	2	8	34	1.41
391901--391928	9	3.1	9	100	0	56	25	32	21	21	1.98
393310--393353	23	1.9	23	95	0	79	38	22	18	20	1.93
399594--399642	18	2.6	18	87	6	62	40	24	18	16	1.90
400465--400517	22	2.4	22	93	0	88	32	5	20	41	1.76
400477--400525	22	2.2	22	96	0	89	26	12	22	38	1.89
400595--400655	27	2.3	27	94	0	104	36	18	19	26	1.94
409982--410010	13	2.1	14	93	6	51	44	0	31	24	1.54
413194--413286	45	2.1	45	100	0	186	44	18	15	22	1.87
419940--419972	16	2.1	16	100	0	66	15	24	6	54	1.63
423676--423705	14	2.1	15	93	6	53	33	13	20	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425963--425997	15	2.3	15	100	0	70	54	25	8	11	1.64
426008--426450	221	2.0	221	100	0	886	37	23	15	23	1.93
429456--429599	75	1.9	76	94	1	254	45	12	10	31	1.76
432307--432358	2	25.5	2	96	3	95	50	1	0	48	1.12
454026--454090	24	2.8	24	88	2	87	40	4	0	55	1.21
454038--454080	12	3.5	13	78	12	54	44	4	0	51	1.22
471108--471134	2	13.5	2	100	0	54	0	48	0	51	1.00
471848--471930	34	2.5	34	90	5	125	28	9	27	33	1.88
472644--472739	41	2.4	41	84	5	115	18	30	34	16	1.93
476266--476352	35	2.5	34	80	12	97	54	10	8	27	1.62

Tables:   1   2   3   4   5   6   7   8