genome.fa.s8356.2.7.7.80.10.50.1000.2.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: VEPZ01008356.1 Hibiscus syriacus cultivar Beakdansim tig00111095_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12862612

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   

This is table  2  of  56  ( 6656 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)
201597--201643	23	2.0	24	83	4	60	53	0	0	46	1.00
201467--201648	24	7.3	24	68	16	77	46	1	1	50	1.18
201607--201657	15	3.5	14	76	13	50	56	1	0	41	1.10
201905--201981	30	2.6	30	85	2	111	36	14	7	41	1.75
209469--209561	21	4.5	21	78	4	100	39	18	24	17	1.91
209469--209561	41	2.3	41	100	0	186	39	18	24	17	1.91
209488--209622	41	3.3	41	82	6	132	38	20	21	19	1.94
209547--209644	20	4.8	20	70	3	61	39	21	16	22	1.92
209547--209638	41	2.2	41	86	0	121	41	21	15	21	1.90
209814--209865	22	2.4	22	86	0	68	21	44	11	23	1.84
210115--210152	20	1.9	20	88	0	58	13	15	21	50	1.78
211974--212019	20	2.3	20	88	0	65	36	26	21	15	1.93
212029--212086	14	3.9	14	79	16	71	50	24	15	10	1.75
212013--212103	32	2.8	33	94	3	157	49	21	16	12	1.78
212120--212177	14	3.9	14	79	16	71	8	17	25	48	1.75
212115--212193	32	2.4	33	95	2	142	10	18	24	46	1.80
212134--212251	20	6.4	19	77	11	95	13	20	24	41	1.88
214237--214290	14	3.5	14	75	22	54	46	20	20	12	1.83
214218--214293	33	2.3	33	88	0	107	40	21	22	15	1.90
214247--214283	19	1.9	19	88	0	56	48	16	21	13	1.80
214313--214370	20	2.9	20	94	0	98	17	22	22	37	1.93
214505--214558	14	3.5	14	77	22	63	48	20	20	11	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
214486--214563	33	2.4	33	91	0	120	42	20	23	14	1.88
214582--214639	20	2.9	20	86	0	80	17	18	22	41	1.90
215695--215748	24	2.2	24	90	0	81	24	16	20	38	1.92
215919--215943	13	1.9	13	100	0	50	76	0	24	0	0.80
218211--218258	19	2.5	19	82	3	60	39	22	18	18	1.92
218231--218355	19	7.4	19	64	24	73	42	20	20	17	1.89
218231--218356	33	3.8	33	87	4	173	42	20	19	17	1.90
218232--218356	66	1.9	66	93	0	214	41	20	20	17	1.90
218365--218418	20	2.8	19	91	5	90	12	20	20	46	1.83
218525--218561	14	2.6	14	91	0	65	45	24	0	29	1.53
219918--219984	21	3.2	21	68	4	55	19	20	35	23	1.95
219918--220040	42	2.9	41	80	7	113	22	17	36	22	1.95
221930--222062	20	7.0	20	77	14	113	39	23	24	13	1.90
222063--222117	19	2.8	19	86	2	83	10	18	23	47	1.80
222634--222686	20	2.7	20	87	0	79	28	20	26	24	1.99
222695--222748	20	2.7	20	97	0	99	25	18	24	31	1.97
222635--222751	61	1.9	61	83	0	153	24	17	23	33	1.97
222635--222769	61	2.2	61	80	2	146	23	20	23	32	1.98
222819--222859	21	2.0	21	85	0	55	34	31	17	17	1.93
227430--227464	2	18.0	2	94	5	63	48	0	0	51	1.00
227421--227481	25	2.4	26	82	17	83	49	3	0	47	1.18
227433--227462	15	2.0	15	100	0	60	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
227431--227464	17	2.0	17	100	0	68	47	0	0	52	1.00
239278--239612	171	2.0	168	97	1	625	32	16	13	37	1.87
243648--243677	15	2.0	15	93	0	51	43	13	16	26	1.85
243842--243883	21	2.0	21	95	0	75	28	16	9	45	1.79
252585--252632	18	2.8	17	90	9	80	35	6	29	29	1.82
253000--253222	33	6.2	38	79	12	149	39	37	9	13	1.76
253037--253223	33	5.5	33	82	10	234	39	37	9	12	1.76
253039--253223	64	2.7	68	83	8	234	39	37	9	12	1.77
256250--256294	10	4.6	10	80	5	56	66	0	2	31	1.04
256475--256538	31	2.1	30	91	2	101	56	9	6	28	1.55
257680--257729	19	2.5	20	72	18	50	28	24	8	40	1.83
260557--260587	16	1.9	16	93	0	53	19	9	22	48	1.78
278254--278287	16	2.1	16	89	10	52	11	29	0	58	1.33
280952--281173	64	3.3	68	77	12	217	42	4	7	44	1.54
281925--281971	21	2.2	21	96	0	85	31	25	0	42	1.55
285306--285350	23	1.9	24	86	4	65	51	2	0	46	1.13
285674--285722	21	2.4	19	86	10	62	53	2	2	42	1.24
285679--285770	21	4.6	20	71	16	66	50	0	4	45	1.21
286173--286244	2	35.5	2	97	2	135	50	1	0	48	1.09
288717--288787	28	2.5	29	93	2	117	43	14	7	35	1.72
288884--288941	30	1.9	31	92	3	100	31	27	10	31	1.90
289335--289503	88	1.9	91	85	8	238	28	21	17	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
295195--295263	21	3.3	20	78	9	59	30	26	20	23	1.98
295211--295289	21	3.6	22	79	5	97	25	22	25	26	2.00
295195--295286	44	2.1	42	86	7	123	28	23	21	26	1.99
295210--295312	43	2.4	42	78	9	118	26	25	24	24	2.00
297062--297111	24	2.1	24	88	7	75	58	14	2	26	1.47
302559--302607	23	2.1	23	88	7	73	57	14	2	26	1.48
304248--304276	14	2.0	15	93	6	51	6	3	27	62	1.37
304981--305066	45	1.9	45	95	0	154	31	27	13	26	1.94
308215--308245	2	15.5	2	100	0	62	51	0	0	48	1.00
308293--308329	18	2.1	18	100	0	74	43	18	0	37	1.51
310317--310349	16	2.1	16	88	5	50	66	3	0	30	1.06
319344--319582	81	3.0	81	98	0	469	23	4	23	48	1.68
319552--319628	36	2.2	35	86	4	102	27	0	27	45	1.54
320186--320536	43	8.2	42	79	3	317	32	17	22	27	1.97
324218--324532	42	7.6	41	85	6	349	32	17	22	27	1.96
324218--324581	41	8.8	41	82	8	355	32	18	21	28	1.96
324218--324581	83	4.4	83	83	6	402	32	18	21	28	1.96
324218--324581	125	2.9	124	88	3	502	32	18	21	28	1.96
324998--325106	34	3.2	33	87	6	148	50	23	7	18	1.72
325066--325091	12	2.2	12	100	0	52	61	23	0	15	1.33
325096--325204	46	2.4	46	90	0	173	47	14	10	27	1.76
327096--327138	18	2.4	19	80	11	54	23	30	13	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
327787--327818	13	2.5	13	94	0	55	50	9	0	40	1.35
329890--329969	42	1.9	42	81	0	97	22	15	10	52	1.71
330344--330383	18	2.2	19	86	4	55	22	20	22	35	1.96
330473--330511	20	2.0	20	89	0	60	41	10	20	28	1.85
332295--332340	3	15.0	3	95	4	83	34	0	0	65	0.93
332295--332347	6	8.3	7	93	6	55	35	0	0	64	0.94
334381--334435	26	2.1	26	83	6	67	69	5	0	25	1.10
337534--337569	8	4.5	8	85	0	54	41	0	11	47	1.39
338068--338164	24	4.3	22	73	13	63	56	1	3	39	1.22
338035--338164	68	1.9	66	83	7	163	52	0	2	44	1.19
338217--338252	2	18.0	2	100	0	72	50	0	0	50	1.00
340770--340794	13	1.9	13	100	0	50	0	28	8	64	1.22
340773--340814	19	2.1	21	86	8	61	0	38	9	52	1.34
340998--341050	16	3.4	16	86	2	72	18	16	52	11	1.73
341136--341174	9	3.8	10	84	15	53	41	0	2	56	1.13
341170--341249	3	26.7	3	87	0	115	60	0	2	37	1.11
341170--341248	18	4.4	18	91	0	131	59	0	2	37	1.11
341161--341248	9	9.8	9	83	2	97	57	0	2	39	1.11
341578--342479	113	8.0	113	95	1	1458	29	19	13	37	1.91
343208--343839	83	7.6	83	94	1	1006	36	23	14	25	1.93
344891--344956	1	66.0	1	75	0	51	0	13	0	86	0.57
344897--344956	10	6.3	10	77	11	72	0	13	0	86	0.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
344890--344956	23	3.0	23	84	4	93	0	14	0	85	0.61
344889--344945	28	2.0	29	93	3	98	0	17	0	82	0.67
344891--344947	7	7.7	7	81	11	69	0	14	0	85	0.59
352281--352318	17	2.3	17	86	4	51	47	13	15	23	1.81
356019--356062	19	2.4	17	82	17	52	36	4	6	52	1.49
357249--357273	13	1.9	13	100	0	50	0	28	8	64	1.22
357252--357293	19	2.1	21	86	8	61	0	38	9	52	1.34
357476--357512	16	2.4	16	95	4	67	16	18	56	8	1.64
357628--357710	3	27.7	3	90	4	132	62	0	2	34	1.08
357806--357854	25	2.0	25	87	0	71	30	16	10	42	1.81

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