genome.fa.s8523.2.7.7.80.10.50.1000.2.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: VEPZ01008523.1 Hibiscus syriacus cultivar Beakdansim tig00111392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4657139

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

This is table  2  of  18  ( 2060 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)
257519--257562	17	2.5	18	77	7	54	61	6	0	31	1.22
258138--258487	112	3.1	112	95	0	621	44	14	15	26	1.84
258358--258991	182	3.5	182	91	1	1000	43	12	16	27	1.84
260521--260646	38	3.3	38	98	0	243	44	7	2	46	1.44
261094--261145	24	2.2	24	89	0	77	46	19	19	15	1.85
262572--262609	5	7.4	5	94	5	67	21	36	23	18	1.95
262572--262610	16	2.5	16	95	4	71	20	35	25	17	1.95
265971--266055	21	4.2	20	85	7	75	27	11	31	29	1.92
265982--266065	21	4.0	21	92	0	132	22	13	32	32	1.92
267914--267974	20	3.0	20	87	2	77	42	1	1	54	1.20
267914--267960	14	3.3	15	85	11	55	44	2	0	53	1.12
267921--268009	3	30.3	3	72	4	65	40	2	2	55	1.25
270643--270740	51	1.9	51	93	0	169	35	13	20	30	1.91
276879--276923	22	2.1	22	84	12	58	31	4	4	60	1.37
280348--280385	18	2.1	18	85	9	51	36	2	0	60	1.11
280569--280618	24	2.0	26	88	7	77	18	12	16	54	1.72
285101--285155	24	2.3	24	93	0	92	34	27	12	25	1.92
289960--290478	258	2.0	258	99	0	1020	30	21	22	25	1.99
291655--291696	21	2.0	21	85	0	57	50	2	47	0	1.14
292825--292876	20	2.6	20	96	0	95	38	26	13	21	1.90
292866--292964	21	4.8	20	72	6	72	36	23	19	21	1.95
292931--293124	20	9.6	20	81	5	221	35	25	19	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
292931--293124	60	3.2	60	83	0	253	35	25	19	19	1.95
293504--293574	33	2.2	33	92	0	115	11	22	18	47	1.80
293693--293747	14	3.6	14	73	21	56	40	23	27	9	1.85
293758--293874	14	7.1	17	68	24	72	11	24	20	43	1.84
293780--293868	14	5.7	14	73	21	79	10	25	22	41	1.85
293763--293876	33	3.5	33	90	2	194	10	24	20	44	1.82
293943--293996	24	2.2	25	80	12	67	18	9	20	51	1.73
295548--296006	90	5.1	91	93	6	803	22	12	19	45	1.84
296047--296173	18	7.3	19	69	23	82	44	26	18	10	1.81
296081--296173	33	2.9	32	87	6	134	45	25	19	9	1.81
296169--296302	19	7.6	19	73	18	119	11	19	23	45	1.82
296174--296265	33	2.8	33	95	1	168	10	20	21	46	1.81
298077--298148	37	1.9	37	94	2	126	27	1	16	54	1.51
298130--298165	14	2.6	14	95	0	63	33	0	22	44	1.53
298275--298375	19	5.6	19	83	14	142	43	17	23	14	1.87
298372--298707	33	9.8	33	74	18	201	14	19	17	47	1.83
298366--298707	19	19.7	19	76	19	329	15	20	17	46	1.84
298366--298640	52	5.3	51	84	10	255	15	20	17	47	1.83
298403--298640	70	3.4	70	83	12	335	15	19	16	48	1.81
298403--298679	52	5.2	52	84	10	325	15	20	16	47	1.82
299923--299985	33	1.9	33	96	3	119	34	25	17	22	1.95
301174--301218	24	2.0	24	86	8	67	40	22	13	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
301878--302245	20	18.5	20	86	4	458	19	19	26	34	1.96
308659--308726	31	2.2	31	89	0	100	17	22	17	42	1.89
315076--315793	208	3.4	210	94	1	1237	25	11	19	43	1.85
315954--316028	8	9.6	8	91	5	109	0	18	30	50	1.47
315953--316331	24	15.8	24	77	12	210	0	11	43	45	1.40
315994--316331	6	56.3	6	87	0	370	0	10	44	44	1.37
315994--316331	8	42.2	8	85	0	370	0	10	44	44	1.37
320470--320602	60	2.2	60	83	4	178	42	6	19	30	1.77
323243--323290	14	3.4	14	74	5	51	37	4	2	56	1.30
323267--323311	18	2.3	20	92	7	76	37	4	0	57	1.19
323281--323318	18	2.1	18	90	0	58	31	5	5	57	1.43
325792--325833	19	2.2	18	84	16	50	61	0	0	38	0.96
330305--330386	40	2.0	40	97	0	155	29	15	21	32	1.95
330792--331139	172	2.0	173	93	2	603	30	17	9	42	1.81
337567--337740	90	2.0	88	88	2	258	37	9	6	45	1.64
347101--347140	19	2.0	21	90	9	66	45	0	0	55	0.99
347115--347209	27	3.5	26	71	23	81	48	1	2	48	1.20
347183--347254	19	3.7	19	70	21	60	48	1	2	47	1.25
347100--347231	27	4.9	27	66	22	71	46	0	1	51	1.15
347653--347705	20	2.6	20	78	3	61	45	3	5	45	1.45
350061--350113	19	2.6	21	76	11	56	50	5	3	39	1.44
350069--350113	21	2.1	22	84	12	58	51	6	2	40	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
350075--350122	19	2.6	17	77	22	53	56	4	2	37	1.30
356004--356036	15	2.1	17	88	11	52	51	6	9	33	1.58
356077--356119	18	2.3	19	96	4	79	13	4	6	74	1.19
356568--356593	12	2.2	12	100	0	52	30	0	7	61	1.24
358558--358601	12	3.4	13	81	9	54	45	6	0	47	1.29
359667--359709	21	2.0	21	90	0	68	53	9	0	37	1.33
360979--361013	14	2.6	14	86	4	54	62	17	5	14	1.49
361521--361546	2	13.0	2	100	0	52	50	0	0	50	1.00
362890--362919	2	15.5	2	93	6	53	53	0	0	46	1.00
363285--363467	60	3.1	59	80	10	201	39	7	20	32	1.80
367554--367635	40	2.0	41	92	2	139	34	7	12	46	1.69
368204--368250	21	2.2	22	96	3	87	12	4	25	57	1.54
369448--369487	2	20.0	2	100	0	80	50	0	0	50	1.00
371153--371430	139	2.0	139	99	0	547	35	12	18	32	1.89
381931--381978	17	2.8	17	100	0	96	33	29	18	18	1.95
381965--382127	89	1.8	89	94	0	290	29	23	15	31	1.96
383660--383727	35	2.0	34	82	5	84	36	13	22	27	1.91
386397--386436	20	2.0	20	85	0	53	37	0	5	57	1.21
386727--386796	27	2.5	28	83	2	79	45	0	1	52	1.09
386760--386797	16	2.4	16	86	0	58	47	0	0	52	1.00
387313--387389	11	7.3	10	70	20	50	48	0	0	51	1.00
387319--387386	21	3.2	21	89	6	93	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
387314--387380	31	2.1	32	86	8	93	52	0	0	47	1.00
388199--388268	31	2.3	31	79	0	77	54	10	11	24	1.66
388292--388350	28	2.1	29	96	3	111	28	10	3	57	1.48
391490--391526	18	2.1	18	90	10	58	43	0	18	37	1.51
392075--392147	38	1.9	38	94	2	130	39	34	10	15	1.82
400656--400793	71	1.9	72	89	4	217	47	6	5	39	1.53
411419--411487	31	2.2	31	84	0	84	36	13	11	39	1.80
423063--423114	14	3.6	14	80	12	61	44	0	0	55	0.99
423225--423276	12	4.0	12	72	18	50	44	3	0	51	1.19
423229--423270	14	2.9	15	72	13	52	42	4	0	52	1.22
422989--423296	163	1.9	166	85	6	430	40	5	8	45	1.56
427974--428001	2	14.0	2	100	0	56	50	0	0	50	1.00
428350--428380	14	2.2	14	94	0	53	35	0	0	64	0.94
434941--434989	22	2.3	20	77	16	53	77	6	6	10	1.11
439804--439869	26	2.5	26	80	11	80	45	24	0	30	1.53
440018--440118	30	3.4	30	86	2	132	28	8	30	31	1.88
441119--441176	16	3.8	16	68	13	59	29	10	15	44	1.79
441142--441201	24	2.5	24	80	0	75	30	13	13	43	1.82
441188--441278	24	3.8	24	75	7	87	21	20	19	37	1.95
441188--441271	8	10.6	8	74	6	55	21	21	19	38	1.94
442849--442937	29	3.1	29	85	0	124	17	40	28	13	1.88
443216--443271	28	2.0	27	86	10	78	8	35	32	23	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
450701--450742	20	2.1	20	86	0	57	30	14	38	16	1.89
464658--464770	53	2.1	53	98	0	217	15	10	30	43	1.80
469669--469706	14	2.6	15	84	15	53	39	10	0	50	1.37
470120--470175	29	1.9	29	85	0	76	26	19	7	46	1.76
469982--470168	60	3.1	60	79	5	157	32	24	5	37	1.79
470192--470344	60	2.5	60	87	2	209	36	7	23	32	1.82
470192--470369	60	3.0	60	85	3	207	35	6	25	33	1.81
475588--475617	9	3.3	9	95	0	51	76	0	3	20	0.92
475586--475628	18	2.4	17	81	11	50	76	0	6	16	0.99
476106--476148	18	2.5	17	85	7	61	67	2	4	25	1.22

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