genome.fa.s8620.2.7.7.80.10.50.1000.31.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: VEPZ01008620.1 Hibiscus syriacus cultivar Beakdansim tig00111582_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  13158977

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   

This is table  31  of  64  ( 7674 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)
6199241--6199332	25	3.7	25	83	9	118	20	26	21	31	1.98
6203182--6203282	20	5.1	20	86	2	141	13	28	37	19	1.91
6203182--6203281	40	2.5	40	93	3	166	14	29	37	20	1.91
6204682--6204729	19	2.5	20	82	3	62	29	12	6	52	1.63
6205938--6206020	21	4.0	21	90	3	132	14	28	37	19	1.91
6205938--6206020	41	2.0	41	92	0	139	14	28	37	19	1.91
6205964--6206028	21	3.3	19	85	8	60	18	30	27	23	1.97
6209977--6210021	23	2.0	23	82	8	56	53	6	13	26	1.64
6223683--6223714	15	2.0	17	88	11	50	56	0	18	25	1.42
6225250--6225393	39	3.7	38	83	5	164	31	11	7	48	1.68
6225250--6225393	38	3.7	39	81	12	154	31	11	7	48	1.68
6225250--6225406	77	2.0	77	79	7	167	35	12	7	45	1.68
6225632--6225685	27	2.0	27	82	7	65	46	0	7	46	1.31
6226840--6226876	15	2.5	15	86	4	58	27	0	0	72	0.84
6227429--6227541	60	1.9	60	83	1	147	46	5	16	31	1.70
6227981--6228019	16	2.4	16	95	0	69	20	5	12	61	1.50
6231481--6232100	168	3.7	168	81	4	674	27	18	17	36	1.94
6231481--6232147	169	3.9	169	80	3	662	27	18	18	35	1.94
6233568--6233663	31	3.2	30	69	26	87	22	10	22	43	1.84
6233592--6233672	9	8.6	9	71	15	56	23	11	19	45	1.82
6233550--6233675	58	2.2	57	88	7	182	24	10	19	45	1.82
6236368--6236577	104	2.0	106	90	3	336	55	6	2	35	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6240739--6240810	30	2.4	30	86	2	92	31	29	20	18	1.96
6240796--6240865	32	2.2	32	92	2	115	31	27	20	21	1.98
6240796--6240892	31	3.1	31	85	4	115	34	23	19	22	1.97
6244326--6244383	27	2.1	27	81	6	64	17	27	6	48	1.72
6244475--6244567	24	3.9	24	95	0	168	39	7	17	35	1.78
6245101--6245133	16	2.1	16	88	11	50	36	12	0	51	1.39
6245112--6245177	26	2.5	26	82	4	80	42	6	4	46	1.48
6245128--6245203	36	2.1	36	90	0	116	44	3	3	47	1.40
6254241--6254300	29	2.1	29	84	9	79	50	0	1	48	1.11
6254477--6254547	5	14.0	5	70	2	52	47	2	5	43	1.41
6254457--6254542	36	2.4	35	72	12	84	45	2	5	46	1.40
6255999--6256042	2	22.0	2	95	0	79	47	0	0	52	1.00
6256649--6256685	17	2.2	17	86	13	51	54	0	8	37	1.30
6256703--6256745	19	2.2	20	83	4	52	46	0	0	53	1.00
6256981--6257170	88	2.2	88	97	1	355	39	22	6	32	1.79
6265748--6265861	32	3.6	32	83	2	151	39	9	14	35	1.79
6265835--6265885	24	2.1	24	96	0	93	39	7	9	43	1.67
6266474--6266592	7	16.7	7	71	17	68	75	3	3	17	1.08
6266471--6266591	20	6.1	19	70	15	75	76	3	3	17	1.06
6266474--6266591	41	3.1	34	70	28	94	76	3	3	16	1.06
6268111--6268169	26	2.2	26	84	3	73	40	0	0	59	0.97
6268350--6268442	31	2.9	33	85	7	122	20	25	12	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6268540--6268573	15	2.3	15	100	0	68	38	23	26	11	1.89
6268607--6268689	31	2.6	33	82	7	107	54	3	3	38	1.36
6268718--6268779	25	2.5	26	84	10	76	53	3	4	38	1.39
6268718--6268790	25	2.9	27	76	15	66	52	2	5	39	1.39
6269465--6269529	31	2.1	31	94	0	112	53	3	9	33	1.48
6278107--6278147	20	2.0	21	85	4	57	34	0	2	63	1.08
6278624--6278697	12	6.2	12	73	4	60	79	5	0	14	0.90
6278624--6278697	11	6.3	11	76	13	67	79	5	0	14	0.90
6278623--6278706	23	3.6	22	76	19	73	77	5	0	16	0.96
6279679--6279706	14	2.0	14	100	0	56	78	7	7	7	1.09
6280175--6280350	78	2.3	78	92	0	289	28	22	15	32	1.95
6280337--6280818	136	3.6	136	86	2	648	27	22	15	33	1.95
6286806--6286839	6	5.7	6	100	0	68	52	17	14	14	1.74
6288212--6288277	5	12.6	5	77	16	55	77	3	0	19	0.90
6288213--6288277	23	2.8	22	78	21	71	78	3	0	18	0.88
6288212--6288277	17	3.8	17	83	4	87	77	3	0	19	0.90
6298957--6299015	2	29.5	2	96	0	109	50	1	0	47	1.11
6299133--6299167	12	3.2	11	88	11	54	82	0	0	17	0.66
6299139--6299164	6	4.3	6	100	0	52	84	0	0	15	0.62
6299216--6299325	30	3.4	31	75	17	98	73	2	9	14	1.19
6299286--6299327	19	2.2	19	83	8	50	80	0	7	11	0.88
6303813--6303858	21	2.2	21	96	0	83	28	26	23	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6303876--6303970	45	2.2	42	88	9	138	23	18	24	33	1.97
6303908--6303974	21	3.3	19	73	15	71	25	20	20	32	1.97
6304156--6304210	21	2.8	20	77	5	58	32	23	20	23	1.98
6304227--6304277	21	2.4	21	93	0	84	21	19	29	29	1.98
6306573--6306627	3	18.3	3	100	0	110	67	0	0	32	0.91
6307737--6307782	23	2.0	23	95	0	83	23	8	15	52	1.70
6307737--6307778	13	3.5	13	75	18	54	23	9	14	52	1.71
6309065--6309216	65	2.4	65	85	5	193	28	18	21	31	1.97
6309065--6309264	65	3.1	62	80	13	174	28	18	21	32	1.96
6309613--6309663	26	1.9	27	92	4	86	29	33	0	37	1.58
6317779--6317934	65	2.4	65	82	5	174	27	17	22	32	1.96
6319066--6319130	23	2.8	23	83	0	94	18	21	24	35	1.96
6323897--6323955	30	2.0	29	83	3	73	37	6	22	33	1.80
6324186--6324276	23	4.0	23	82	0	110	19	23	27	29	1.98
6324551--6324636	2	43.0	2	100	0	172	50	0	0	50	1.00
6329134--6329179	12	4.1	12	75	16	53	65	0	0	34	0.93
6329127--6329184	21	2.7	22	89	5	91	65	0	0	34	0.93
6329126--6329185	17	3.4	17	77	20	61	65	0	0	35	0.93
6329807--6329831	6	4.2	6	100	0	50	48	0	0	52	1.00
6329827--6329868	20	2.1	20	91	8	68	54	7	0	38	1.28
6329825--6329873	19	2.6	18	84	9	71	53	6	0	40	1.26
6329819--6329874	20	2.5	24	70	27	59	51	5	0	42	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6330059--6330110	8	6.8	8	77	14	56	36	0	0	63	0.95
6330058--6330111	23	2.4	22	87	6	72	37	0	0	62	0.95
6330110--6330177	28	2.5	28	80	2	75	57	10	2	29	1.47
6331027--6331086	21	2.9	21	76	0	75	23	38	28	10	1.87
6331717--6331766	22	2.2	24	82	7	59	44	4	6	46	1.47
6335345--6335471	21	6.0	21	69	9	69	35	23	14	25	1.94
6336128--6336178	19	2.5	22	84	9	72	23	27	15	33	1.95
6336928--6336958	2	15.0	2	93	6	53	48	3	0	48	1.17
6340048--6340077	15	2.0	15	100	0	60	33	6	20	40	1.78
6340133--6340202	21	3.1	21	73	17	61	41	22	15	20	1.90
6340169--6340309	21	6.6	21	68	9	70	37	22	14	24	1.92
6340140--6340230	44	2.1	44	82	0	110	38	23	14	24	1.91
6345449--6345498	23	2.2	23	92	0	82	38	8	22	32	1.83
6345414--6345574	87	1.9	87	97	0	304	40	12	15	31	1.84
6349307--6350923	200	8.1	200	85	4	756	29	14	16	39	1.88
6349307--6349923	201	3.1	200	82	3	659	32	15	16	36	1.89
6349655--6351304	200	8.2	200	89	1	2375	28	14	16	40	1.87
6351496--6351554	24	2.4	24	88	2	91	50	10	1	37	1.46
6351502--6351540	18	2.2	18	85	0	51	53	10	2	33	1.48
6352814--6352863	3	16.7	3	82	0	64	26	32	2	40	1.67
6354031--6354072	15	2.8	15	92	0	75	26	0	54	19	1.44
6354438--6355776	199	6.7	198	92	1	2146	27	14	15	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6354438--6355776	397	3.4	395	92	1	2189	27	14	15	42	1.85
6356150--6356198	19	2.6	19	96	0	89	57	10	0	32	1.32
6358371--6358426	24	2.4	23	83	13	71	48	3	1	46	1.30
6359688--6359838	19	7.6	19	76	9	113	34	15	2	47	1.60
6360263--6361098	179	4.6	179	85	6	1091	27	15	12	43	1.84
6373689--6373791	41	2.5	41	85	0	134	33	17	19	29	1.95
6373736--6373998	82	3.2	84	79	5	261	33	16	16	33	1.92
6374708--6374757	24	2.1	23	88	3	73	40	4	22	34	1.72
6376401--6376444	21	2.1	21	86	0	61	45	0	45	9	1.35
6379134--6379158	12	2.1	12	100	0	50	60	0	24	16	1.36

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