genome.fa.s1547.2.7.7.80.10.50.1000.27.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   

This is table  27  of  51  ( 6083 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)
5380071--5380558	182	2.7	181	88	3	707	27	16	13	42	1.87
5384311--5384343	6	5.5	6	96	0	57	33	48	18	0	1.48
5384832--5384906	6	12.5	6	98	0	132	0	16	53	30	1.43
5384998--5385140	21	6.9	21	73	15	109	35	25	20	18	1.95
5385029--5385098	20	3.5	20	69	18	63	38	24	24	12	1.90
5385008--5385181	41	4.2	41	80	10	194	36	25	20	18	1.95
5385153--5385242	20	4.4	20	77	13	103	42	22	23	12	1.87
5385173--5385270	41	2.4	41	98	0	187	39	23	22	14	1.90
5385193--5385263	21	3.4	21	67	18	67	38	25	21	15	1.92
5385466--5385533	29	2.3	31	82	5	86	52	4	4	38	1.41
5393063--5393096	11	2.9	12	91	4	52	50	0	2	47	1.16
5404044--5404089	2	23.0	2	100	0	92	50	0	0	50	1.00
5419134--5419200	22	3.0	22	82	0	71	32	23	16	26	1.96
5422368--5422406	18	2.0	20	85	9	55	25	12	12	48	1.77
5422368--5422427	20	3.1	19	81	15	61	28	11	11	48	1.75
5422648--5422701	22	2.5	22	93	0	90	29	27	16	25	1.97
5426856--5426940	26	3.2	26	78	9	75	65	0	16	17	1.27
5431450--5431491	21	2.0	21	81	9	50	28	11	23	35	1.91
5434600--5434664	33	2.0	33	90	0	103	24	32	21	21	1.98
5434632--5434666	18	1.9	18	88	0	52	22	31	20	25	1.98
5435536--5435589	24	2.3	24	80	3	65	29	25	22	22	1.99
5435554--5435601	24	2.0	24	83	4	60	35	20	18	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5435794--5435833	15	2.7	15	84	0	53	32	25	10	32	1.89
5438389--5438458	36	1.9	36	82	5	88	24	22	17	35	1.95
5438775--5438823	26	1.9	25	83	4	62	32	24	2	40	1.67
5443432--5443474	15	2.9	15	82	0	50	30	23	11	34	1.90
5446911--5446953	14	3.1	14	96	0	77	11	13	18	55	1.68
5448045--5448082	20	1.9	20	84	10	51	55	5	15	23	1.61
5447833--5448304	180	2.6	180	87	1	667	42	13	16	27	1.86
5448225--5448271	20	2.4	19	79	10	58	53	8	17	21	1.70
5450473--5450537	21	3.1	21	93	0	103	41	10	30	16	1.83
5450573--5450636	33	1.9	33	87	0	92	29	0	46	23	1.52
5452429--5452477	19	2.6	19	96	0	89	32	2	10	55	1.45
5458676--5458738	21	2.9	21	83	4	63	20	38	25	15	1.92
5458720--5458759	21	1.9	21	89	0	62	25	40	25	10	1.86
5460689--5460730	17	2.7	15	82	13	57	14	0	28	57	1.38
5460693--5460726	17	2.0	17	94	0	59	11	0	32	55	1.36
5462308--5464866	200	12.8	200	96	0	4680	36	14	18	31	1.91
5463925--5463967	21	2.0	23	90	9	72	41	13	13	30	1.84
5466364--5466421	6	9.7	6	84	0	62	39	6	32	20	1.79
5466381--5466425	3	15.0	3	80	0	54	37	4	33	24	1.76
5466364--5466421	12	4.8	12	89	0	80	39	6	32	20	1.79
5467732--5467769	20	2.0	19	85	10	51	50	0	5	44	1.24
5467734--5467972	118	2.0	120	89	3	369	33	13	14	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5468029--5468275	120	2.1	120	92	0	413	34	13	14	37	1.85
5467634--5469046	303	4.7	303	95	0	2487	34	14	15	35	1.88
5468332--5468578	120	2.1	120	96	0	458	33	13	15	37	1.87
5468639--5468877	120	2.0	120	94	0	424	33	13	14	38	1.85
5471758--5471817	20	2.8	22	85	10	79	33	5	25	36	1.78
5471917--5471960	22	2.0	22	86	8	63	38	11	11	38	1.77
5471602--5472032	216	2.0	219	90	6	691	44	8	13	33	1.73
5471979--5472028	22	2.2	22	89	3	73	36	6	18	40	1.75
5472448--5472497	23	2.2	23	100	0	100	36	8	20	36	1.82
5471997--5472873	456	2.0	442	90	5	1404	40	8	10	40	1.69
5480510--5480536	4	6.8	4	100	0	54	74	0	0	25	0.83
5484117--5484164	24	2.0	25	84	12	64	39	18	16	25	1.91
5485415--5485466	21	2.5	21	96	0	95	25	23	23	28	1.99
5486040--5486104	23	2.8	23	85	0	94	27	23	26	23	2.00
5486039--5486112	23	3.2	23	82	0	85	32	20	22	24	1.98
5486217--5486260	23	1.9	23	90	0	70	27	25	29	18	1.98
5495407--5495512	53	2.0	53	90	0	167	42	6	14	36	1.71
5499217--5499259	21	2.0	21	81	0	50	30	30	25	13	1.94
5499288--5499332	22	2.0	22	82	4	54	33	33	26	6	1.83
5500887--5500955	23	3.0	23	76	0	75	23	26	23	27	2.00
5501110--5501134	13	1.9	13	100	0	50	36	0	24	40	1.55
5503137--5503166	15	2.0	15	93	0	51	6	16	66	10	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5509106--5509277	58	2.9	58	79	7	179	33	20	5	41	1.75
5509388--5509424	2	18.5	2	100	0	74	51	0	0	48	1.00
5510949--5511000	24	2.2	24	92	0	86	25	17	5	51	1.67
5511188--5511230	15	2.8	15	85	3	50	53	4	2	39	1.34
5511226--5511282	23	2.5	22	68	15	53	56	0	3	40	1.17
5511838--5511863	8	3.2	8	100	0	52	50	0	11	38	1.39
5513773--5513887	57	2.0	57	100	0	230	42	12	13	31	1.81
5516705--5516742	20	1.9	20	88	0	58	23	21	31	23	1.98
5516726--5516798	18	3.9	18	68	7	56	21	17	27	32	1.96
5517164--5517206	4	10.5	4	95	5	77	25	0	25	48	1.51
5518835--5518933	47	2.1	47	100	0	198	30	6	12	51	1.63
5520428--5520462	18	1.9	18	88	11	54	37	5	0	57	1.23
5525986--5526036	22	2.3	23	86	3	68	35	5	19	39	1.76
5531836--5531889	22	2.4	23	90	3	83	35	9	20	35	1.85
5538420--5538449	15	2.0	15	93	0	51	16	46	23	13	1.82
5540445--5540494	21	2.4	21	100	0	100	42	4	0	54	1.19
5540968--5540999	16	2.0	16	93	0	55	25	0	3	71	1.00
5541658--5541687	2	15.0	2	92	0	51	46	0	3	50	1.18
5548906--5549472	293	1.9	293	85	1	778	28	11	18	40	1.87
5552673--5552723	2	25.5	2	100	0	102	50	0	0	49	1.00
5552732--5552835	52	2.0	52	96	0	190	23	14	10	51	1.72
5557895--5557970	13	5.5	13	75	14	71	19	43	19	17	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5557890--5557959	31	2.3	31	89	0	104	21	45	18	14	1.84
5559319--5559394	36	2.1	37	92	2	127	48	5	25	21	1.70
5560528--5560588	12	5.3	11	73	11	50	18	11	18	52	1.74
5560501--5560596	24	4.0	24	77	8	90	20	13	16	48	1.80
5562733--5562779	18	2.6	18	89	0	67	21	48	19	10	1.78
5562756--5562800	13	3.5	13	78	0	54	22	40	20	17	1.92
5562792--5562838	15	3.0	15	90	6	67	14	29	27	27	1.96
5564168--5564242	36	2.1	36	90	5	116	48	5	25	21	1.71
5565357--5565446	12	7.6	12	70	16	53	18	15	16	48	1.81
5565358--5565448	47	1.9	48	82	10	116	18	15	16	49	1.80
5565379--5565450	24	3.0	23	82	9	83	19	12	16	51	1.76
5565632--5565675	2	22.0	2	100	0	88	50	0	0	50	1.00
5567907--5567995	4	22.2	4	90	0	142	51	21	0	26	1.48
5570115--5570167	3	17.0	3	78	21	56	66	1	0	32	1.03
5570116--5570168	22	2.4	22	79	14	65	67	1	0	30	1.01
5570323--5570369	23	2.1	22	84	11	60	61	10	8	19	1.53
5570575--5570695	11	10.5	11	67	10	71	14	0	39	46	1.44
5570622--5570700	6	14.2	6	69	13	53	12	0	37	49	1.41
5570616--5570703	22	4.0	22	92	2	142	12	0	39	47	1.41
5571558--5571597	9	4.3	10	81	15	50	65	0	0	35	0.93
5571753--5571799	23	2.1	22	84	11	60	59	10	8	21	1.57
5571995--5572111	22	5.2	22	89	8	182	12	0	38	48	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5571995--5572121	69	1.9	67	96	3	236	12	0	39	48	1.41
5573670--5573714	2	22.5	2	95	0	81	0	46	0	53	1.00
5576215--5576271	24	2.4	24	80	11	64	73	7	1	17	1.14
5577943--5577971	5	6.0	5	92	8	51	20	0	0	79	0.74
5583936--5583996	6	10.2	6	89	0	77	29	45	16	8	1.76
5583994--5584067	5	14.8	5	84	0	94	25	37	35	1	1.65
5592449--5592484	14	2.6	14	100	0	72	55	22	13	8	1.65
5607639--5607718	2	40.0	2	100	0	160	50	0	0	50	1.00
5608250--5608312	26	2.4	26	94	5	110	42	22	7	26	1.81
5608451--5608487	2	18.5	2	100	0	74	48	0	0	51	1.00

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