genome.fa.s2340.2.7.7.80.10.50.1000.2.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: VEPZ01002340.1 Hibiscus syriacus cultivar Beakdansim tig00004777_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  583550

Tables:   1   2   3   

This is table  2  of  3  ( 337 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)
229334--229396	3	21.0	3	83	6	83	60	0	0	39	0.97
229336--229396	18	3.4	19	86	11	92	60	0	0	39	0.97
230846--231252	196	2.1	185	82	6	467	30	17	11	40	1.85
231241--231299	20	3.0	20	84	0	73	28	10	10	50	1.68
231846--231872	2	13.5	2	100	0	54	51	0	0	48	1.00
238433--238508	23	3.3	23	88	0	116	31	25	21	22	1.98
242642--242766	31	4.0	31	93	0	205	37	22	18	21	1.94
246024--246148	31	4.0	30	86	4	153	39	20	18	21	1.93
249615--249643	3	10.0	3	92	7	51	34	0	0	65	0.93
249599--249643	14	3.3	14	84	12	58	37	0	2	60	1.09
251992--252025	17	2.0	17	88	0	50	41	11	11	35	1.78
252775--252821	21	2.2	21	81	7	60	51	8	10	29	1.66
256733--256775	18	2.4	18	84	7	52	23	9	2	65	1.34
261184--261224	16	2.7	16	81	7	50	70	2	24	2	1.11
262839--262881	18	2.4	18	84	7	52	23	9	2	65	1.34
271307--271353	12	3.9	12	80	0	58	44	23	14	17	1.85
272147--272256	31	3.5	31	92	0	175	40	20	19	20	1.92
275703--275994	83	3.5	83	84	1	379	24	20	23	31	1.98
276172--277552	106	13.0	106	90	0	2145	22	17	24	34	1.96
278498--278552	22	2.5	22	96	0	101	23	10	27	38	1.88
279195--279250	13	4.4	12	80	15	60	0	12	7	80	0.90
279217--279252	17	2.2	17	90	5	56	0	11	5	83	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
279196--279252	25	2.2	26	84	9	73	0	12	7	80	0.89
279208--279258	25	2.1	24	85	7	68	1	9	5	82	0.91
282738--282783	24	1.9	24	82	8	58	67	0	6	26	1.15
283250--283351	34	2.8	36	80	16	122	27	12	16	43	1.84
285072--285097	13	2.0	13	100	0	52	0	15	23	61	1.33
285996--286125	60	2.2	60	86	6	174	33	19	16	30	1.94
293826--293920	45	2.1	44	96	1	172	18	6	30	44	1.75
297571--297610	20	2.0	20	85	0	53	10	2	22	65	1.35
309142--309444	156	1.9	157	95	0	554	31	16	20	31	1.95
309443--309502	4	15.0	4	82	0	75	41	25	8	25	1.83
309443--309502	8	7.5	8	98	0	102	41	25	8	25	1.83
319668--319759	20	5.0	20	68	20	83	43	15	5	35	1.69
319662--319775	52	2.2	52	95	1	203	48	14	6	30	1.69
325116--325207	20	5.0	20	67	20	74	43	16	6	33	1.73
325109--325223	52	2.2	52	96	1	214	48	15	6	28	1.71
329100--329169	32	2.2	31	80	14	81	52	4	5	37	1.45
331954--332048	22	4.7	22	80	11	98	28	28	22	21	1.99
332014--332048	18	1.9	18	94	0	61	31	31	20	17	1.95
341331--341386	23	2.4	24	85	8	80	28	28	25	17	1.98
345936--345981	18	2.5	18	92	3	74	13	28	15	43	1.83
347700--347748	20	2.5	20	81	15	57	40	24	28	6	1.79
347982--348037	24	2.3	24	100	0	112	37	16	17	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
348445--348484	19	2.1	19	100	0	80	20	60	5	15	1.53
348967--349027	10	6.1	10	76	14	63	19	22	29	27	1.98
349023--349063	17	2.4	17	95	0	73	19	41	24	14	1.89
349053--349082	7	4.4	7	91	8	53	16	30	30	23	1.96
349053--349082	13	2.2	14	94	5	53	16	30	30	23	1.96
349953--350076	63	2.0	63	84	6	162	16	27	29	26	1.97
349953--350076	31	4.0	32	71	12	80	16	27	29	26	1.97
354973--355067	5	20.4	5	70	18	53	16	2	5	75	1.08
354986--355064	18	4.7	18	70	19	71	17	2	3	75	1.06
354990--355066	27	2.8	27	82	9	77	18	2	3	75	1.07
354975--355064	32	2.8	33	88	9	132	15	2	5	76	1.07
356084--356133	26	1.9	26	84	8	66	18	6	2	74	1.12
358376--358480	37	2.8	37	83	0	129	42	14	12	30	1.82
358916--358998	22	3.6	22	67	14	60	38	4	1	55	1.29
359132--359186	20	2.8	19	75	8	65	20	1	1	76	0.97
359371--359418	2	24.0	2	86	0	69	43	0	0	56	0.99
359452--359497	21	2.2	21	85	11	60	21	8	0	69	1.15
361892--361928	12	3.1	12	92	0	56	32	16	16	35	1.91
363573--364110	183	2.9	183	95	0	943	27	20	21	30	1.98
365288--365404	36	3.1	36	67	9	83	27	18	14	39	1.90
365247--365421	72	2.4	75	83	8	209	26	18	12	42	1.86
365263--365458	72	2.7	72	81	8	168	26	17	14	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365476--365550	39	1.9	39	83	5	98	26	22	13	37	1.91
365455--365771	105	3.1	104	92	4	500	30	20	12	36	1.89
365671--365746	36	2.1	36	90	0	116	22	21	15	40	1.90
365946--366368	105	4.1	104	85	5	568	34	26	17	21	1.96
365946--366365	205	2.0	211	86	4	595	34	26	17	21	1.96
366908--367012	37	2.8	37	85	0	138	41	14	14	29	1.85
367369--367408	18	2.3	18	83	8	57	25	5	2	67	1.23
367452--367532	22	3.6	22	67	11	65	38	4	1	55	1.29
372035--372084	21	2.4	21	100	0	100	22	36	4	38	1.73
375608--375658	25	2.0	25	84	0	66	88	1	5	3	0.69
376258--376284	14	1.9	14	100	0	54	40	22	14	22	1.90
378850--378880	2	15.5	2	100	0	62	48	0	0	51	1.00
378940--379018	1	79.0	1	76	0	77	10	0	1	88	0.57
378946--379078	8	16.5	8	81	6	144	15	1	1	81	0.83
380642--380687	24	2.0	23	82	4	56	21	17	10	50	1.77
382963--383173	102	2.1	102	91	0	341	43	18	18	19	1.89
385408--385458	11	4.6	11	80	7	59	86	1	11	0	0.66
385405--385461	20	2.8	21	85	15	68	82	1	15	0	0.75
386528--386573	12	3.9	12	80	2	58	26	15	13	45	1.82
386528--386573	24	2.0	23	91	4	74	26	15	13	45	1.82
388965--389254	96	3.0	96	84	4	361	36	20	17	25	1.94
390966--391083	32	3.8	32	82	7	161	32	16	18	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
390946--391100	63	2.5	63	98	0	301	32	16	19	31	1.94
390946--391139	31	6.2	31	77	8	189	31	18	19	31	1.95
392128--392920	411	1.9	414	97	2	1499	33	10	23	32	1.88
394889--395042	63	2.4	63	95	0	281	33	16	17	32	1.93
394889--395042	32	4.9	31	75	14	154	33	16	17	32	1.93
394891--395075	31	5.9	31	74	8	151	32	17	17	31	1.94
404073--404164	41	2.2	41	86	3	123	23	19	20	35	1.95
404095--404179	41	2.0	42	86	2	118	27	18	21	32	1.97
404242--404564	83	3.9	83	86	1	360	33	14	15	36	1.88
404378--404515	42	3.3	42	70	13	122	30	15	16	36	1.91
404414--404556	41	3.5	41	69	14	105	32	16	13	37	1.88
406845--407034	85	2.2	85	85	3	256	25	20	18	35	1.96
406825--407059	43	5.5	43	78	6	217	25	21	18	34	1.96
407071--407107	15	2.5	15	100	0	74	18	29	32	18	1.96
407775--407819	21	2.1	21	87	0	63	15	20	2	62	1.43
413204--413241	20	1.9	20	94	0	67	34	28	15	21	1.94
413379--413417	19	2.1	19	85	0	51	23	25	23	28	1.99
420794--420837	21	2.1	21	86	0	61	9	40	15	34	1.79
422034--422124	46	2.0	46	91	2	148	28	26	18	26	1.98
425461--425629	81	2.0	84	88	5	256	38	14	9	37	1.78
427887--428112	103	2.2	103	92	3	366	26	14	22	36	1.92
428121--428183	23	2.7	23	90	0	90	19	26	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
430461--430531	20	3.5	20	72	12	54	16	22	19	40	1.91
435678--435759	30	2.7	30	88	0	119	30	19	9	40	1.84
435772--436254	54	8.9	54	77	7	388	43	18	14	24	1.87
435766--436257	214	2.3	213	82	4	583	43	18	14	24	1.87
435771--436253	103	4.5	104	81	8	411	43	18	14	24	1.87
436660--436686	3	9.0	3	100	0	54	33	0	0	66	0.92
438033--438127	7	13.6	7	100	0	190	27	29	13	29	1.94
438803--438949	60	2.4	62	75	17	164	34	19	17	28	1.94
439344--439405	30	2.1	30	100	0	124	48	12	16	22	1.80
441878--441916	17	2.4	17	95	4	71	51	5	0	43	1.24

Tables:   1   2   3