genome.fa.s7915.2.7.7.80.10.50.1000.2.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: VEPZ01007915.1 Hibiscus syriacus cultivar Beakdansim tig00110318_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1667290

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  2  of  10  ( 1148 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)
229157--229207	24	2.2	24	85	3	68	39	5	3	50	1.45
231751--231949	25	8.0	25	97	1	373	31	16	19	32	1.94
232257--232328	32	2.2	32	97	2	135	34	15	12	37	1.85
238050--238090	19	2.1	20	90	4	66	56	0	2	41	1.13
245535--245570	19	1.9	18	88	5	54	38	0	0	61	0.96
249768--249814	19	2.6	18	80	6	58	72	0	6	21	1.07
249762--249832	29	2.3	31	79	13	76	71	0	9	18	1.12
249750--249918	82	2.1	80	80	14	195	71	0	8	19	1.12
249847--249959	44	2.5	44	74	7	102	71	0	2	25	0.99
249876--250037	38	4.4	37	75	16	140	66	1	1	30	1.10
249882--250033	42	3.8	40	75	14	132	65	1	1	30	1.11
249853--249959	14	7.8	14	72	17	64	71	0	2	26	1.00
251169--251259	39	2.4	36	85	5	119	27	7	24	40	1.82
251245--251478	36	6.6	36	78	13	227	38	13	20	27	1.90
251279--251465	102	1.8	102	85	6	263	38	12	20	28	1.89
251543--251615	37	2.0	37	91	0	119	42	13	19	24	1.87
251545--251629	37	2.3	37	82	6	102	45	12	17	23	1.83
251516--251755	102	2.4	102	89	1	365	38	11	18	31	1.87
252001--252319	106	3.0	106	86	1	417	23	19	22	34	1.96
252917--253002	32	2.7	32	81	1	84	40	19	8	31	1.81
252934--253007	32	2.3	32	85	2	103	44	17	6	31	1.75
253942--254072	69	1.9	69	93	0	226	25	14	22	36	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
254145--254196	13	3.9	13	78	11	52	3	15	1	78	0.98
258488--258737	4	61.8	4	69	17	54	70	0	5	24	1.13
258488--258582	26	3.7	25	76	15	72	70	1	8	20	1.19
258516--258585	27	2.6	27	80	10	74	72	1	10	15	1.17
258540--258634	42	2.2	42	80	16	106	73	1	8	16	1.13
258574--258730	49	3.2	47	80	12	149	70	0	3	25	1.06
258615--258693	38	2.1	38	80	4	88	73	1	1	24	0.98
258635--258713	39	2.1	37	88	4	113	67	0	2	30	1.04
258701--258776	2	39.5	2	74	17	54	57	1	1	39	1.15
259128--259170	17	2.5	17	88	0	68	46	16	4	32	1.67
263828--263875	18	2.7	18	81	9	62	31	10	0	58	1.32
265275--265343	34	2.0	33	83	10	86	21	8	8	60	1.53
265668--265705	2	19.0	2	94	0	67	50	2	0	47	1.15
269941--269965	3	8.3	3	100	0	50	0	0	32	68	0.90
270132--270305	90	2.0	88	90	2	276	44	6	12	36	1.69
274117--274164	17	2.8	17	84	12	55	29	14	18	37	1.91
276975--277148	90	2.0	88	90	4	278	44	5	12	37	1.65
284796--284832	16	2.3	16	100	0	74	59	0	5	35	1.20
287048--287091	21	2.1	21	87	4	63	6	22	43	27	1.78
287722--287752	16	1.9	16	93	0	53	51	25	0	22	1.48
295212--295254	21	2.1	21	82	4	52	9	23	39	27	1.85
297895--297939	23	2.0	23	100	0	90	31	0	33	35	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
299701--299976	67	4.2	67	82	4	285	28	20	14	36	1.92
299706--299925	67	3.3	67	86	2	293	29	20	14	36	1.91
301053--301191	65	2.2	66	77	13	146	28	15	23	33	1.94
303747--303810	24	2.9	21	76	17	67	26	20	21	31	1.98
303752--303798	24	2.0	24	91	0	76	27	21	23	27	1.99
303715--303810	45	2.2	44	85	9	124	26	20	23	29	1.99
309567--309726	65	2.5	65	83	7	175	28	15	23	32	1.95
309609--309771	65	2.5	65	83	8	199	29	14	23	33	1.94
312930--313041	40	2.7	41	79	6	120	30	18	18	32	1.95
322191--322349	86	1.8	86	83	2	212	35	22	20	22	1.96
322149--322357	43	4.8	43	78	5	167	36	22	19	21	1.95
329307--329358	21	2.6	20	82	8	61	44	13	19	23	1.86
330067--330504	31	13.9	31	75	10	284	32	18	18	30	1.95
330065--330503	63	7.0	63	93	0	702	32	18	18	30	1.95
332779--333136	136	2.6	136	80	2	396	24	15	24	35	1.94
337849--337898	13	3.8	13	80	19	50	62	2	0	36	1.07
337860--337914	28	2.0	28	85	7	76	61	1	0	36	1.06
337866--338216	2	189.5	2	67	25	161	52	5	0	41	1.27
342123--342179	9	6.6	9	84	8	73	40	0	0	59	0.97
342125--342175	3	16.7	3	91	4	84	37	0	0	62	0.95
342196--342234	13	3.1	13	77	7	53	28	33	25	12	1.93
344194--344238	2	23.0	2	95	4	83	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
344645--344685	20	2.0	20	86	9	57	36	9	9	43	1.71
349811--349835	6	4.2	6	100	0	50	16	52	0	32	1.44
351374--351414	20	2.0	20	86	9	57	39	9	7	43	1.65
353143--353174	2	16.0	2	100	0	64	50	0	0	50	1.00
355035--355131	37	2.6	37	81	0	122	40	16	10	32	1.82
355466--355539	22	3.1	22	82	17	103	29	8	0	62	1.24
355508--355616	56	1.9	56	100	0	218	30	8	2	58	1.41
355481--355602	27	4.4	27	73	10	122	29	7	1	61	1.33
355526--355633	29	3.8	29	70	6	94	27	7	3	61	1.40
355532--355620	27	3.2	27	66	12	81	28	7	3	60	1.41
355715--355758	13	3.4	14	81	15	58	27	0	0	72	0.85
355684--355773	22	4.1	22	77	12	78	27	3	0	68	1.05
355707--355772	33	2.0	34	82	14	84	25	1	0	72	0.93
355857--355913	20	2.9	19	75	14	62	22	8	1	66	1.29
360224--360277	20	2.8	18	86	11	63	81	5	11	1	0.93
360229--360279	15	3.3	15	82	15	52	82	3	11	1	0.89
361779--361823	23	2.0	22	83	8	56	37	20	17	24	1.93
361867--362706	106	8.0	106	88	4	1186	34	25	17	22	1.96
363456--363560	37	2.8	37	83	0	138	39	14	14	32	1.86
364033--364082	24	2.1	24	85	7	66	34	6	0	60	1.21
364226--364319	27	3.5	27	73	22	72	30	3	1	64	1.16
364277--364343	14	4.7	14	71	22	59	29	0	0	70	0.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
364272--364342	21	3.3	20	80	11	79	28	0	0	71	0.86
364275--364336	17	3.6	17	77	10	63	29	0	0	70	0.87
364222--364340	28	4.2	29	73	15	99	30	2	0	66	1.11
364299--364343	17	2.6	16	86	13	63	28	0	0	71	0.87
364202--364343	22	6.8	21	70	22	79	29	2	1	66	1.15
364432--364487	19	2.9	19	75	19	62	23	8	1	66	1.30
367179--367204	6	4.3	6	100	0	52	15	46	19	19	1.85
367679--367719	15	2.7	15	92	0	64	36	26	17	19	1.94
367917--367952	2	18.0	2	94	0	63	50	2	0	47	1.15
371572--371608	19	1.9	19	88	0	56	35	29	13	21	1.92
371607--371651	20	2.2	20	100	0	90	28	26	15	28	1.96
371713--371767	20	2.8	19	83	5	56	38	20	20	21	1.94
371627--371909	142	2.0	142	91	1	460	29	21	18	30	1.97
371897--372033	21	6.6	21	76	9	138	40	24	16	19	1.91
371875--371992	62	1.9	62	98	0	227	39	26	16	17	1.90
371918--372034	41	2.9	41	94	0	198	38	23	16	21	1.93
372421--372515	19	4.7	19	79	14	91	31	29	5	33	1.80
373462--373540	31	2.5	31	76	8	88	36	3	11	48	1.57
375907--375937	14	2.3	14	94	5	55	54	0	9	35	1.33
377358--377412	21	2.6	21	91	0	83	9	29	38	23	1.85
378597--378636	21	1.9	21	85	10	55	20	25	47	7	1.75
378740--378780	21	2.0	21	85	9	57	51	0	46	2	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
382149--382200	22	2.4	22	90	6	79	51	19	7	21	1.71
383774--383836	26	2.6	23	78	12	63	15	11	6	66	1.42
399290--399332	16	2.7	16	81	0	50	9	13	27	48	1.73
401748--401838	30	3.0	30	95	3	157	58	8	13	19	1.61
402314--402338	2	12.5	2	100	0	50	48	0	52	0	1.00
403554--403616	21	3.0	21	83	0	81	26	28	19	25	1.98
411695--411750	21	2.7	21	85	0	85	28	26	17	26	1.98
413559--413605	3	15.7	3	82	8	60	59	0	2	38	1.09
413774--413918	43	3.5	40	77	10	139	20	16	35	27	1.94
413769--413957	40	4.6	39	75	10	128	21	16	34	26	1.95

Tables:   1   2   3   4   5   6   7   8   9   10