genome.fa.s8242.2.7.7.80.10.50.1000.2.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  2  of  73  ( 8740 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)
176436--176483	21	2.3	21	85	0	60	25	39	12	22	1.89
176487--176580	21	4.5	21	90	5	145	18	34	25	22	1.96
177101--177195	33	2.9	33	84	10	122	55	4	3	36	1.35
177591--178844	128	9.9	128	94	2	2151	31	19	25	23	1.98
186075--186148	36	2.1	36	100	0	148	33	16	22	27	1.95
192297--192331	15	2.3	15	100	0	70	54	8	25	11	1.64
194281--194339	23	2.7	21	89	5	73	25	28	27	18	1.98
194296--194339	23	1.9	23	100	0	88	25	27	27	20	1.99
194299--194350	23	2.4	22	87	6	70	28	25	28	17	1.97
195936--195973	18	2.1	18	90	0	58	42	28	26	2	1.69
200345--200392	21	2.3	21	85	7	62	43	2	2	52	1.24
200464--200511	25	2.0	25	87	4	71	39	20	2	37	1.65
200459--200512	25	2.2	26	80	10	67	35	18	3	42	1.68
200961--201004	15	2.8	16	75	10	54	43	0	0	56	0.99
201824--201868	20	2.2	20	92	0	72	64	2	31	2	1.18
201833--201891	20	3.0	20	82	7	68	64	1	30	3	1.20
205473--205515	14	3.0	14	89	3	50	60	0	4	34	1.17
205473--205515	5	9.0	5	82	7	54	60	0	4	34	1.17
206495--206534	20	2.0	20	95	0	71	52	5	0	42	1.23
206773--206820	20	2.4	20	89	6	71	12	22	0	64	1.27
210392--210465	37	2.0	37	100	0	148	21	21	27	29	1.99
216964--217027	23	3.0	21	81	6	76	23	34	25	17	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
218655--218686	12	2.6	13	85	14	50	31	28	40	0	1.57
219288--219328	17	2.4	17	95	0	73	36	0	9	53	1.34
222311--222443	23	5.7	23	78	11	146	41	9	6	42	1.62
222334--222454	24	5.1	24	78	11	151	43	9	4	42	1.57
222310--222454	47	3.1	47	97	0	272	42	9	5	42	1.61
222387--222459	20	3.3	20	72	24	58	43	9	2	43	1.51
222310--222513	94	2.2	93	81	7	234	43	8	6	40	1.62
222555--222647	34	2.7	34	77	6	98	68	9	3	18	1.31
225517--225541	6	4.2	6	100	0	50	20	32	0	48	1.50
228287--228329	20	2.2	20	84	8	63	23	11	9	55	1.64
233068--233129	24	2.5	24	84	12	72	30	11	12	45	1.78
233917--233957	16	2.6	15	85	11	55	68	0	0	31	0.90
235099--235169	36	2.0	36	91	0	115	36	12	33	16	1.87
235247--235360	4	30.5	4	72	13	91	50	0	0	49	1.06
235247--235360	6	20.3	6	78	13	91	50	0	0	49	1.06
235247--235360	58	2.0	56	91	3	183	50	0	0	49	1.06
237691--237816	64	2.0	64	96	0	234	23	19	29	27	1.98
238162--238224	25	2.5	24	82	5	72	41	1	3	53	1.26
243373--243422	20	2.5	20	96	0	91	38	0	20	42	1.52
243373--243434	20	3.1	19	86	9	79	35	1	20	41	1.62
245566--245764	21	8.1	24	72	19	94	44	2	7	45	1.45
245570--245743	24	6.9	26	70	22	88	45	2	6	45	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
245570--245646	22	3.5	23	75	8	70	44	1	6	48	1.37
245612--245706	29	3.2	31	79	8	92	48	1	4	46	1.28
245610--245680	26	2.7	27	80	8	76	49	0	4	46	1.21
245636--245708	28	2.5	31	84	10	91	47	1	5	45	1.34
245685--245762	24	3.4	24	82	10	83	43	3	8	43	1.54
245765--245826	22	2.6	25	82	10	67	43	4	6	45	1.51
248847--248924	23	3.3	23	85	1	102	33	23	19	24	1.97
248931--249148	103	2.1	103	93	0	373	36	23	12	27	1.91
255073--255138	23	2.9	22	82	6	69	16	15	18	50	1.79
255091--255143	22	2.3	23	87	3	72	13	13	15	58	1.64
256187--256219	14	2.4	14	94	0	57	33	6	30	30	1.82
257288--257332	22	2.0	22	82	0	54	46	17	13	22	1.83
258253--258291	20	2.0	19	85	14	53	17	5	0	76	0.96
259986--260021	17	2.1	17	100	0	72	41	13	0	44	1.44
261060--261107	20	2.4	20	82	6	53	39	2	10	47	1.49
261785--261862	31	2.5	31	95	0	138	52	16	10	20	1.72
265112--265147	19	1.9	18	88	5	54	22	8	22	47	1.77
266730--266850	65	1.9	64	94	5	217	33	19	23	22	1.97
277728--277801	22	3.3	23	88	9	100	31	27	24	17	1.97
277736--277803	22	3.0	22	95	2	118	27	27	25	19	1.98
278014--278072	30	2.0	30	93	0	100	33	23	3	38	1.72
278436--278472	19	1.9	19	88	0	56	10	29	35	24	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
278437--278608	68	2.6	66	85	6	220	17	26	27	27	1.98
284536--284601	21	3.0	22	91	8	109	27	27	27	18	1.98
285234--285379	65	2.3	66	85	5	192	17	27	28	27	1.97
285234--285401	66	2.6	64	83	9	189	17	27	27	27	1.97
292296--292330	16	2.1	16	89	10	52	45	0	0	54	0.99
292415--292493	33	2.4	33	97	0	149	60	5	0	34	1.18
292432--292488	19	3.3	19	62	23	52	57	7	0	35	1.26
292659--292693	16	2.1	17	89	5	54	74	0	2	22	0.95
292991--293015	13	1.9	13	100	0	50	72	12	0	16	1.13
294011--294065	3	18.7	3	81	3	67	58	0	0	41	0.98
294011--294074	12	5.4	12	83	10	60	56	0	0	43	0.99
294411--294740	122	2.7	121	92	3	545	24	19	16	39	1.91
294761--294978	73	3.0	71	86	5	305	35	13	17	33	1.89
294761--294933	36	4.8	36	71	2	130	34	14	17	33	1.91
295684--295734	22	2.3	22	100	0	102	39	13	13	33	1.84
297315--297466	77	2.0	77	84	2	198	32	23	14	30	1.94
301619--301712	36	2.7	36	81	6	113	58	9	13	18	1.62
305061--305101	15	2.8	16	78	14	52	75	2	0	21	0.92
305709--305790	44	1.9	41	87	7	119	31	6	29	32	1.82
305704--305801	19	4.8	20	71	20	85	32	6	28	32	1.82
306214--306321	21	5.3	21	69	8	80	35	23	19	22	1.96
306222--306331	19	5.6	19	71	8	76	35	20	20	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
306206--306331	40	3.2	40	94	0	207	35	19	20	23	1.96
306349--306519	21	8.3	21	75	8	154	19	16	23	39	1.92
306371--306444	20	3.7	20	75	10	87	21	17	28	32	1.96
306349--306463	41	2.8	41	97	0	221	19	16	26	37	1.93
306474--306564	41	2.2	41	69	7	51	29	18	20	30	1.97
306350--306519	62	2.7	62	74	10	168	19	17	23	40	1.91
306502--306548	21	2.2	21	80	0	58	34	19	21	25	1.96
306822--306857	17	2.1	18	89	5	56	44	0	0	55	0.99
307166--307198	4	8.2	4	100	0	66	75	0	0	24	0.80
308588--308644	3	19.7	3	75	7	55	61	0	0	38	0.96
308590--308647	11	5.4	11	76	12	57	62	0	0	37	0.96
308588--308630	14	3.1	14	83	6	52	60	0	0	39	0.97
310692--310842	42	3.6	41	75	8	151	21	18	37	22	1.95
310692--310842	21	7.2	21	64	10	67	21	18	37	22	1.95
310842--310893	20	2.6	20	96	0	95	25	19	25	30	1.98
313307--313436	37	3.5	37	91	3	199	48	2	3	45	1.33
313313--313405	15	5.3	15	67	30	51	47	2	3	47	1.30
313307--313460	74	2.1	75	84	6	197	48	2	5	44	1.39
313314--313466	37	4.1	37	84	7	161	47	3	4	45	1.39
313802--313861	17	3.4	17	70	20	59	43	3	3	50	1.35
313793--313922	37	3.5	37	89	3	190	47	3	3	44	1.39
314283--314412	37	3.5	37	91	3	199	47	3	3	45	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
314289--314381	15	5.3	15	67	30	51	47	2	3	47	1.30
314290--314442	37	4.1	37	86	7	123	47	4	3	44	1.42
314283--314442	74	2.2	74	83	6	191	48	4	4	43	1.43
313238--314710	491	3.0	491	96	0	2706	39	10	11	39	1.75
315806--315852	19	2.5	19	96	0	85	34	12	31	21	1.91
315851--315925	30	2.5	30	89	2	116	17	29	22	30	1.97
316232--316258	2	13.5	2	100	0	54	48	0	0	51	1.00
339105--339145	21	2.0	21	95	0	73	36	41	7	14	1.74
347065--347094	3	10.0	3	100	0	60	33	0	0	66	0.92
348609--348653	21	2.2	20	84	4	54	40	2	2	55	1.24

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   63   64   
          65   66   67   68   69   70   71   72   73