genome.fa.s8124.2.7.7.80.10.50.1000.2.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: VEPZ01008124.1 Hibiscus syriacus cultivar Beakdansim tig00110678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3296903

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  2  of  19  ( 2165 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)
140691--141091	198	2.0	201	98	1	781	43	13	18	24	1.86
147513--147545	16	2.0	17	88	5	50	48	3	3	45	1.33
154331--154431	44	2.3	44	93	3	168	27	19	21	30	1.98
156999--157101	43	2.3	44	82	9	129	32	22	23	22	1.98
162911--162966	21	2.7	21	83	5	69	19	19	32	28	1.97
171013--171042	15	2.0	15	100	0	60	40	0	0	60	0.97
183997--184035	16	2.4	16	91	0	60	20	28	12	38	1.89
184235--184281	25	1.9	24	83	12	60	57	2	4	36	1.30
184293--184338	23	2.0	24	95	4	85	45	2	4	47	1.34
184353--184415	25	2.7	22	81	18	74	52	0	3	44	1.17
184404--184467	23	2.8	23	81	13	62	48	0	10	40	1.38
187332--187739	102	4.0	102	88	3	610	50	18	9	22	1.75
188011--188048	6	6.7	6	88	8	53	0	10	52	36	1.36
188011--188048	11	3.3	12	85	10	53	0	10	52	36	1.36
188719--188787	15	4.8	13	81	15	75	47	1	0	50	1.09
188709--188788	29	2.9	27	82	12	99	47	1	0	51	1.08
188835--188881	24	1.9	25	82	4	60	53	6	2	38	1.39
188891--188952	14	4.4	14	76	15	56	45	1	6	46	1.38
188918--189006	15	5.6	15	69	19	56	50	3	3	42	1.35
188731--189006	65	4.3	65	77	16	240	48	2	3	44	1.36
188826--189012	31	5.8	31	72	21	143	49	4	4	41	1.42
188995--189097	22	4.8	22	76	11	88	47	8	5	37	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
189002--189077	21	3.6	21	75	12	66	46	6	6	40	1.56
189123--189213	20	4.5	20	72	22	73	45	5	7	41	1.56
189122--189219	37	2.4	41	80	11	105	44	6	7	41	1.56
189238--189284	21	2.1	21	81	18	51	38	8	10	42	1.70
189304--189373	7	10.0	7	80	0	59	22	0	31	45	1.53
189300--189373	28	2.6	28	86	0	112	24	0	31	44	1.54
189331--189371	21	2.0	21	95	0	73	29	0	26	43	1.55
189483--189556	37	2.1	36	87	5	105	40	10	8	40	1.70
189690--189838	2	76.5	2	69	19	84	44	5	2	47	1.37
189654--189838	68	2.7	68	75	16	179	42	5	2	49	1.41
189795--189846	15	3.3	15	82	15	61	42	7	3	46	1.51
189738--190012	85	3.2	85	82	7	285	44	5	4	46	1.46
189899--190049	13	10.7	13	72	17	72	43	6	5	44	1.55
189943--189995	18	2.9	18	83	10	72	45	1	5	47	1.37
189899--190087	90	2.1	90	96	1	346	43	5	5	44	1.50
190040--190090	18	2.7	19	82	11	61	47	1	5	45	1.38
190056--190114	18	3.3	17	82	15	66	47	1	3	47	1.29
190063--190120	17	3.4	17	80	17	66	46	1	1	50	1.22
194246--194327	29	2.8	29	88	1	119	34	13	9	42	1.77
194722--194759	19	2.0	20	90	10	62	21	26	36	15	1.93
198989--199070	29	2.8	29	92	1	128	32	14	10	41	1.81
210305--210353	23	2.1	24	84	3	64	22	32	20	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
221794--221859	33	2.0	34	90	3	107	28	10	21	39	1.86
226580--226637	20	2.9	20	97	0	107	34	20	20	24	1.97
231552--231700	75	2.0	74	84	8	196	44	11	16	27	1.82
236780--236827	20	2.3	22	82	13	57	66	6	4	22	1.32
239958--240001	22	2.0	22	86	0	61	52	13	11	22	1.72
249656--249737	21	3.9	21	90	1	110	23	28	26	21	1.99
259209--259236	2	14.0	2	100	0	56	50	0	0	50	1.00
262695--262800	11	9.0	11	71	22	58	75	0	12	12	1.05
262703--262816	7	14.6	8	77	19	93	75	0	12	12	1.05
262695--262799	7	15.4	7	80	13	96	75	0	12	12	1.06
262742--262816	31	2.4	32	86	8	102	74	0	16	9	1.06
262704--262800	39	2.6	38	87	9	128	75	0	12	12	1.05
262744--262815	22	3.2	22	70	24	60	75	0	15	9	1.05
262704--262816	38	2.9	38	83	8	133	75	0	12	12	1.06
264096--264237	37	3.8	37	84	1	142	40	16	21	21	1.92
264297--264776	55	8.9	55	86	6	590	27	16	25	30	1.96
270185--270305	31	3.9	30	75	9	100	31	19	18	30	1.96
270185--270304	62	1.9	63	83	8	156	30	20	18	30	1.96
275989--276057	2	36.0	2	88	8	108	50	0	1	47	1.09
276234--276291	29	2.0	29	100	0	116	24	31	20	24	1.98
276691--276758	31	2.2	31	86	5	93	30	7	8	52	1.60
277208--277568	41	8.7	40	79	10	361	27	21	18	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
277230--277568	83	4.1	83	89	3	479	27	22	18	31	1.97
277230--277568	125	2.7	124	85	5	416	27	22	18	31	1.97
280955--281275	43	7.5	42	85	4	403	21	23	22	33	1.98
280955--281276	128	2.5	128	84	6	411	21	22	22	33	1.98
280955--281275	85	3.8	85	88	4	434	21	23	22	33	1.98
287794--287832	18	2.1	19	90	4	62	20	7	0	71	1.10
293658--293709	16	3.2	16	77	22	56	38	15	0	46	1.46
293652--293699	15	3.2	14	76	23	53	39	14	0	45	1.45
294516--294582	18	3.7	18	84	7	91	52	13	4	29	1.60
294513--294582	36	1.9	36	97	0	131	52	14	4	28	1.60
305601--305734	67	2.0	69	92	4	227	36	13	29	20	1.91
309127--309217	45	2.0	46	93	2	157	36	10	14	38	1.81
309297--309352	23	2.5	22	83	13	71	25	25	25	25	2.00
313989--314037	18	2.7	18	81	12	55	4	2	10	83	0.85
314656--314709	3	18.3	3	96	3	101	66	0	0	33	0.92
314950--315239	140	2.1	139	85	4	390	25	15	28	30	1.96
315298--315384	36	2.4	36	81	9	99	42	13	18	25	1.87
315333--315524	66	2.9	66	80	2	208	40	11	20	27	1.87
317913--317950	11	3.5	11	96	0	67	0	13	7	78	0.94
317904--317951	11	4.5	11	89	5	64	0	12	6	81	0.87
319783--320108	164	2.0	162	97	2	618	23	22	15	38	1.92
326270--326294	13	1.9	13	100	0	50	8	24	12	56	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
342363--342418	23	2.3	23	87	6	76	46	0	26	26	1.53
346727--346763	18	2.0	20	89	10	60	32	16	2	48	1.60
347930--347963	16	2.1	16	88	0	50	41	0	0	58	0.98
352913--353290	13	27.2	14	67	21	94	41	8	3	47	1.51
353047--353294	2	129.0	2	68	19	111	42	6	3	47	1.46
352991--353075	39	2.2	39	91	4	136	38	7	3	50	1.47
353987--354013	13	2.1	13	100	0	54	29	25	7	37	1.83
356954--357015	20	3.0	21	74	6	63	69	1	0	29	0.98
357454--357496	4	10.2	4	80	9	50	69	2	0	27	1.00
357455--357550	26	3.5	26	74	10	93	62	6	2	29	1.31
385271--385364	21	4.5	21	77	7	84	25	29	13	30	1.94
387979--388008	9	3.3	9	95	0	51	43	6	10	40	1.64
393259--393287	14	2.1	14	100	0	58	58	6	27	6	1.50
398882--398940	20	3.0	20	80	11	77	33	25	13	27	1.93
398903--398947	19	2.4	19	81	7	56	33	20	13	33	1.91
399696--399729	12	2.8	12	90	0	50	55	29	0	14	1.40
399855--399908	24	2.2	24	93	0	90	20	18	20	40	1.91
402641--402692	25	2.1	25	96	0	95	28	7	21	42	1.80
403077--403113	18	2.1	18	89	0	56	29	8	10	51	1.65
403069--403121	24	2.2	24	89	0	79	33	5	13	47	1.66
403425--403511	39	2.2	39	91	0	138	48	18	14	18	1.82
403812--403951	66	2.2	60	86	7	181	51	17	0	30	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405326--405420	21	4.5	21	72	5	75	21	16	34	27	1.95
405342--405421	42	1.9	42	84	5	108	20	16	36	27	1.93
405371--405428	21	2.6	21	71	17	55	24	13	34	27	1.93
405565--405622	4	14.5	4	85	0	80	68	1	0	29	0.99
406431--406474	16	2.8	17	86	13	67	61	18	0	20	1.35
407643--407683	20	2.1	20	86	4	57	12	9	24	53	1.68
407949--407991	22	2.0	22	85	0	59	20	4	39	34	1.74
408122--408226	20	5.2	20	76	13	108	20	17	21	40	1.91
408175--408262	20	4.3	20	66	11	54	26	18	21	34	1.96
408250--408303	20	2.7	20	77	11	74	29	14	27	27	1.95

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19