genome.fa.s9639.2.7.7.80.10.50.1000.2.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  2  of  62  ( 7398 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)
198795--198855	19	3.5	19	72	21	69	11	22	21	44	1.84
198781--198837	14	3.7	14	72	20	51	8	26	22	42	1.83
198962--198998	14	2.6	14	91	0	65	45	21	0	32	1.52
200870--200926	19	2.8	21	73	10	64	49	21	17	12	1.79
200894--200944	19	2.6	20	87	3	68	47	27	17	7	1.75
200970--201025	19	2.9	19	100	0	112	10	21	19	48	1.79
201114--201391	94	3.1	92	83	7	354	47	18	12	21	1.81
203126--203178	14	3.4	14	72	22	52	45	22	22	9	1.81
203195--203250	14	3.6	14	74	21	58	12	21	23	42	1.86
203179--203271	33	2.8	33	91	1	141	11	20	24	43	1.85
203209--203277	20	3.8	19	70	20	67	13	21	21	43	1.86
203822--203913	20	4.6	20	80	2	112	21	19	17	41	1.90
203802--203915	41	2.8	40	78	2	120	24	19	18	37	1.94
203905--203977	21	3.5	21	81	3	85	39	19	20	20	1.92
203905--203999	41	2.3	41	82	7	113	36	18	22	22	1.95
204555--204993	182	2.4	182	89	2	650	42	14	15	28	1.86
204950--205013	20	3.2	20	93	4	94	50	12	17	20	1.78
207257--207321	21	3.1	21	95	0	112	41	10	32	15	1.81
207355--207418	33	1.9	33	93	0	110	29	0	46	23	1.52
209118--209166	19	2.6	19	93	0	80	32	2	12	53	1.50
209408--209964	200	2.8	198	89	3	843	38	14	15	32	1.87
212602--213076	201	2.4	199	87	3	668	39	15	16	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
212897--213253	178	2.0	177	90	1	554	37	14	16	31	1.89
215788--216351	200	2.8	198	81	9	592	38	14	16	31	1.88
216453--216497	23	2.0	23	95	0	81	37	20	8	33	1.83
217400--217517	61	1.9	61	82	3	148	35	11	15	38	1.83
217927--218023	32	3.0	32	80	0	104	45	9	4	41	1.55
225493--225530	17	2.2	18	90	4	60	18	18	15	47	1.83
227154--227186	16	2.1	16	100	0	66	36	6	0	57	1.23
227418--227461	17	2.5	17	85	7	52	38	6	15	38	1.75
228207--228315	55	2.0	55	87	0	155	29	6	17	46	1.73
236566--236590	2	12.5	2	100	0	50	48	0	0	52	1.00
240350--240591	32	7.7	32	77	9	192	42	9	6	41	1.62
240384--240588	94	2.2	93	85	4	270	40	9	7	41	1.66
241554--241581	2	14.0	2	100	0	56	50	0	0	50	1.00
242022--242061	21	1.9	21	94	0	71	42	0	0	57	0.98
243834--243881	21	2.2	22	85	3	62	45	39	0	14	1.45
243835--243866	14	2.4	14	94	5	57	46	40	0	12	1.42
248238--248359	31	3.9	31	79	5	129	28	18	20	32	1.96
248681--248719	20	2.0	20	89	0	60	28	0	15	56	1.40
253545--253590	19	2.4	19	100	0	92	10	10	10	67	1.43
256615--257536	84	11.1	84	80	5	1039	29	25	21	24	1.99
256615--257487	165	5.3	163	80	5	926	28	25	21	24	1.99
256615--257536	249	3.7	249	95	0	1603	29	25	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
261971--262004	17	1.9	18	88	5	52	26	0	11	61	1.30
264437--264470	17	2.0	17	94	0	59	26	23	26	23	2.00
276549--276619	6	11.8	6	100	0	142	33	16	49	0	1.47
277344--277670	74	4.4	74	80	4	349	42	10	12	33	1.77
277371--277647	149	1.9	146	87	2	401	43	10	12	33	1.76
278071--278346	107	2.6	108	81	7	298	34	12	14	38	1.84
281969--282007	20	2.0	20	84	0	51	20	7	23	48	1.75
282162--282201	21	1.9	21	89	0	62	10	25	40	25	1.86
282184--282241	23	2.8	21	79	12	66	20	25	32	20	1.97
290793--290861	19	3.8	19	74	18	74	26	15	28	28	1.96
290684--290840	65	2.4	65	88	9	234	29	17	22	29	1.97
290845--290882	20	1.9	20	88	0	58	26	21	28	23	1.99
293368--293449	23	3.6	23	76	14	89	26	21	24	26	2.00
293372--293468	44	2.2	44	83	7	117	27	19	22	29	1.98
296175--296243	23	3.0	23	82	0	84	27	24	26	21	1.99
296262--296468	100	2.0	102	92	2	346	35	24	13	27	1.92
297712--297749	20	1.9	20	88	0	58	21	23	31	23	1.98
301101--301167	21	3.0	23	82	8	84	29	25	23	20	1.99
307186--307237	21	2.5	21	90	0	86	23	19	30	26	1.98
307302--307458	64	2.5	63	88	8	230	30	17	22	28	1.97
310060--310141	29	2.8	29	94	1	137	32	14	9	42	1.79
314813--314894	29	2.8	29	94	1	137	32	14	9	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
315782--315810	15	1.9	15	100	0	58	48	6	10	34	1.64
317518--317867	33	9.9	34	72	13	199	47	4	6	42	1.48
317800--317913	36	3.2	35	81	13	135	41	3	8	46	1.52
320486--320870	213	1.8	213	86	3	560	31	14	14	39	1.86
320343--320859	108	4.8	106	75	7	427	34	13	13	39	1.83
325753--325802	23	2.2	23	88	0	73	38	12	20	30	1.88
325753--325809	23	2.5	23	82	0	60	42	10	17	29	1.83
326246--326282	2	18.5	2	100	0	74	51	0	0	48	1.00
328250--328658	202	2.0	201	90	2	646	34	13	12	39	1.82
330279--330326	6	8.0	6	90	0	60	50	12	6	31	1.65
330275--330326	18	2.9	18	82	0	68	48	11	7	32	1.68
332984--333315	158	2.1	160	86	5	460	27	14	14	43	1.84
333227--333571	183	1.9	181	85	4	480	27	15	13	44	1.83
333926--334124	38	5.5	36	87	10	282	45	5	6	43	1.51
333926--334124	37	5.5	37	87	10	281	45	5	6	43	1.51
334087--334150	25	2.5	26	92	5	112	43	4	7	43	1.54
334113--334317	69	3.0	67	77	13	186	45	1	8	43	1.46
334171--334293	33	3.6	34	85	6	160	43	0	9	46	1.42
335721--335757	13	2.8	13	91	4	56	27	10	0	62	1.28
335757--335809	26	2.0	26	85	7	72	28	1	1	67	1.11
335878--335906	12	2.3	13	94	5	51	31	0	0	68	0.89
338822--338899	23	3.4	23	83	1	95	37	21	20	20	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
341741--342048	103	3.0	103	96	0	571	28	13	22	35	1.92
342073--342140	23	3.0	23	88	0	91	20	27	25	26	1.99
347114--347431	103	3.2	102	92	5	542	27	13	22	35	1.92
347437--347504	23	3.0	23	84	0	82	20	26	25	27	1.99
347669--347725	16	3.4	16	73	4	51	28	1	26	43	1.65
349318--349375	20	2.7	20	81	10	62	27	22	18	31	1.97
352796--352850	23	2.4	23	90	0	92	34	27	21	16	1.95
356977--357029	25	2.1	25	100	0	106	33	11	32	22	1.90
358151--358387	79	3.0	77	79	11	253	35	17	20	26	1.94
359140--359338	37	5.3	37	91	6	296	48	4	5	41	1.45
359131--359349	75	3.0	74	85	10	308	47	3	6	42	1.46
359247--359442	92	2.1	96	85	11	264	45	2	7	44	1.44
359340--359486	35	4.1	34	84	7	170	44	2	7	45	1.43
359340--359468	35	3.6	36	89	2	181	44	2	7	44	1.45
359484--359564	6	12.8	6	74	14	56	24	1	1	72	0.99
359484--359564	20	4.3	18	69	17	56	24	1	1	72	0.99
361218--361291	2	36.5	2	97	2	139	50	0	1	48	1.09
361623--361748	31	4.0	31	79	5	137	27	18	21	32	1.96
362453--362496	22	2.0	22	90	0	70	15	22	22	38	1.92
363715--363755	20	2.0	22	85	9	59	26	2	0	70	0.99
366458--366498	20	2.1	19	90	4	64	9	36	2	51	1.48
370013--370037	13	1.9	13	100	0	50	40	20	16	24	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
370677--370714	19	2.0	20	84	5	51	26	2	5	65	1.27
370677--370715	20	2.0	20	85	10	53	25	2	5	66	1.25
382550--382582	16	2.0	17	88	5	50	51	0	9	39	1.34
385618--385724	52	2.1	51	86	6	146	45	17	4	31	1.69
391263--391296	14	2.4	14	95	0	59	58	2	17	20	1.51
392883--392919	18	2.1	17	90	5	56	67	0	2	29	1.04
395535--395912	190	2.0	188	95	4	690	29	25	12	31	1.93
397848--397890	18	2.4	18	88	0	59	27	2	0	69	1.00
397847--397892	23	2.0	23	87	4	67	30	2	0	67	1.03
399810--399871	32	2.0	32	93	3	108	41	11	9	37	1.74

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62