genome.fa.s8242.2.7.7.80.10.50.1000.23.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  23  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)
5272752--5272800	22	2.2	22	82	7	64	67	8	20	4	1.34
5279196--5279237	22	1.9	22	85	9	59	40	19	0	40	1.51
5288321--5288362	22	1.9	22	85	9	59	40	19	0	40	1.51
5288896--5288929	17	1.9	18	88	5	52	29	38	0	32	1.58
5289168--5289261	30	3.1	30	86	8	138	32	13	28	24	1.94
5289254--5289278	11	2.3	11	100	0	50	52	32	8	8	1.60
5299675--5299733	23	2.4	26	73	21	72	64	10	16	8	1.48
5314298--5314474	90	2.0	89	93	1	300	38	10	6	44	1.64
5314444--5314506	22	2.8	21	70	13	54	49	3	4	42	1.39
5318308--5318359	21	2.6	21	87	6	72	32	13	5	48	1.66
5319086--5319135	18	2.8	17	82	11	55	76	6	14	4	1.13
5327282--5327397	35	3.3	35	93	1	196	33	3	37	25	1.73
5327339--5327396	13	4.7	13	73	16	52	31	1	41	25	1.66
5327734--5327784	19	2.6	20	84	3	68	47	5	11	35	1.65
5331329--5331370	22	1.9	23	85	9	61	50	14	11	23	1.76
5335650--5335711	23	2.5	24	82	17	67	69	4	17	8	1.31
5345276--5345329	19	2.7	20	91	5	83	46	5	12	35	1.66
5349880--5349920	9	4.9	8	82	11	55	80	2	17	0	0.82
5349878--5349920	17	2.5	18	85	11	63	79	4	16	0	0.90
5354798--5354849	19	2.6	21	90	6	81	46	5	13	34	1.67
5361860--5361906	16	2.8	16	81	12	51	68	0	17	14	1.22
5363101--5363151	19	2.6	20	84	3	68	43	5	13	37	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5368505--5368573	33	2.1	33	83	5	86	31	1	36	30	1.67
5368560--5368657	13	8.1	12	68	23	55	30	3	34	31	1.73
5368544--5368656	36	3.2	36	91	1	165	27	3	35	33	1.74
5373041--5373080	20	1.9	22	85	10	57	40	12	30	17	1.86
5376746--5376785	20	1.9	22	85	10	57	40	12	30	17	1.86
5378572--5378711	36	4.1	33	83	8	88	30	2	36	30	1.72
5378611--5378723	36	3.2	36	91	1	165	26	3	36	33	1.74
5380416--5380462	16	2.8	16	81	12	51	68	0	17	14	1.22
5382743--5382799	29	2.0	29	83	13	73	75	3	15	5	1.12
5387262--5387341	35	2.2	37	86	4	110	31	3	35	30	1.75
5396767--5396814	20	2.5	20	90	9	75	43	8	12	35	1.73
5399812--5399866	12	4.7	12	84	4	76	81	10	7	0	0.86
5399814--5399866	23	2.3	23	90	0	79	83	9	7	0	0.83
5407033--5407094	27	2.2	28	78	13	74	59	14	16	9	1.60
5408257--5408307	24	2.1	24	82	7	59	39	11	15	33	1.84
5415318--5415374	10	5.5	10	76	15	62	84	12	3	0	0.75
5415317--5415372	5	11.0	5	78	17	53	82	14	3	0	0.81
5419708--5419814	50	2.1	50	79	6	119	19	20	22	37	1.94
5420200--5420242	19	2.2	20	87	4	61	48	6	9	34	1.62
5425188--5425234	23	2.1	22	92	7	78	10	17	12	59	1.60
5429397--5429453	23	2.4	24	86	11	82	8	21	10	59	1.57
5434402--5434452	23	2.2	23	85	0	66	0	11	9	78	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5434402--5434462	12	5.5	11	82	5	61	1	9	9	78	1.03
5434448--5434477	15	1.9	16	93	6	53	3	0	10	86	0.67
5442693--5442741	16	2.9	16	84	6	53	61	0	22	16	1.34
5443033--5443188	78	2.0	78	98	0	303	28	20	23	26	1.99
5448410--5448453	6	7.2	6	82	12	54	0	18	2	79	0.83
5448410--5448453	13	3.6	12	82	11	54	0	18	2	79	0.83
5450594--5450949	177	2.0	179	98	1	698	39	13	16	30	1.87
5454155--5454180	10	2.6	10	100	0	52	0	26	0	73	0.84
5454894--5454944	19	2.6	20	90	3	77	43	5	15	35	1.71
5457827--5457884	29	2.0	29	83	10	73	75	3	15	5	1.11
5465656--5465711	19	3.3	18	74	23	59	0	10	10	78	0.96
5465656--5465712	13	3.4	18	72	25	61	0	10	10	78	0.95
5465667--5465714	21	2.3	20	86	13	62	0	8	8	83	0.82
5474091--5474141	19	2.6	20	90	3	77	43	5	15	35	1.71
5481455--5481511	8	6.9	8	78	21	64	0	15	1	82	0.75
5481460--5481508	19	2.5	20	87	9	75	0	16	2	81	0.78
5481455--5481511	14	3.4	16	82	17	64	0	15	1	82	0.75
5481457--5481511	19	3.2	17	83	16	62	0	14	1	83	0.73
5494702--5494759	29	2.0	29	83	10	73	5	15	3	75	1.11
5495103--5495141	20	1.9	21	84	5	53	33	0	38	28	1.57
5501719--5501771	23	2.3	23	84	15	65	69	3	16	9	1.30
5507904--5507942	20	1.9	21	84	5	53	33	0	38	28	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5515524--5515564	16	2.6	16	96	3	75	17	39	0	43	1.49
5517344--5517395	19	2.6	21	90	6	81	44	7	15	32	1.75
5519704--5519744	20	2.1	20	86	4	57	46	7	9	36	1.65
5524476--5524501	11	2.4	11	100	0	52	76	7	15	0	0.99
5528137--5528231	40	2.2	43	83	14	117	34	2	12	50	1.52
5529424--5529528	50	2.3	47	82	14	121	33	1	13	51	1.52
5532574--5532662	11	7.5	11	73	21	74	31	37	3	28	1.74
5532571--5532678	36	2.9	36	94	2	180	30	36	4	28	1.78
5533123--5533169	14	3.1	15	75	12	51	72	6	19	2	1.17
5538374--5538415	21	2.0	21	100	0	84	38	14	9	38	1.78
5548026--5548110	11	7.2	11	72	22	66	31	36	3	28	1.74
5548023--5548127	36	2.9	36	95	1	185	30	36	4	28	1.78
5551531--5551580	19	2.5	19	90	6	73	32	12	8	48	1.69
5552282--5552312	16	1.9	16	93	0	53	87	0	12	0	0.55
5554630--5554663	17	2.0	17	88	0	50	41	17	0	41	1.50
5555466--5555512	19	2.3	21	89	7	71	34	12	8	44	1.73
5556583--5556691	35	3.1	35	86	2	148	31	4	37	26	1.77
5561037--5561063	14	1.9	14	100	0	54	40	0	29	29	1.57
5561101--5561209	35	3.1	35	88	2	157	31	3	37	27	1.74
5570880--5570923	22	2.0	23	86	4	63	36	6	29	27	1.83
5576618--5576657	14	2.9	14	96	0	71	35	27	5	32	1.79
5579003--5579039	19	1.9	19	94	0	65	43	5	13	37	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5579907--5579958	19	2.6	21	90	6	81	46	7	13	32	1.72
5581778--5581827	24	2.0	24	84	3	64	26	20	14	40	1.90
5583083--5583162	18	4.6	17	70	27	62	3	17	5	73	1.16
5583097--5583155	13	4.7	12	78	15	57	1	18	3	76	1.02
5583099--5583155	19	2.9	19	71	23	55	1	19	3	75	1.04
5583863--5583906	21	2.2	21	92	8	74	47	6	11	34	1.66
5588397--5588447	20	2.6	20	90	3	77	35	15	5	43	1.71
5592578--5592628	20	2.6	20	90	3	77	35	15	5	43	1.71
5602382--5602439	29	2.0	29	83	10	73	5	15	3	75	1.11
5605664--5605695	12	2.7	12	100	0	64	37	21	9	31	1.85
5608468--5608519	21	2.6	21	90	6	81	32	13	7	46	1.72
5611167--5611201	17	2.1	16	89	5	52	82	5	11	0	0.82
5616560--5616611	19	2.6	21	87	6	72	48	7	13	30	1.71
5618033--5618071	16	2.4	16	95	0	69	56	23	12	7	1.62
5618029--5618109	10	8.7	10	69	24	52	58	18	12	11	1.63
5618041--5618093	22	2.4	22	87	0	79	58	20	13	7	1.59
5619197--5619244	10	4.4	10	78	19	51	50	27	14	8	1.71
5619206--5619234	14	2.1	14	100	0	58	48	31	13	6	1.69
5619197--5619245	24	2.0	24	96	0	89	48	26	16	8	1.73
5621069--5621108	21	2.0	21	95	5	73	47	7	10	35	1.65
5621071--5621120	19	2.5	21	87	6	68	48	10	10	32	1.70
5622161--5622223	24	2.7	23	73	7	63	33	19	17	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5630463--5630514	18	2.8	18	83	16	54	3	13	5	76	1.10
5630615--5631027	220	1.9	222	87	5	622	41	8	22	27	1.82
5631067--5631105	20	1.9	21	84	5	53	30	0	41	28	1.57
5635241--5635320	40	2.0	40	100	0	160	30	32	12	25	1.92
5637593--5637631	20	1.9	21	84	5	53	30	0	41	28	1.57
5640129--5640191	24	2.7	23	73	7	63	33	19	17	30	1.95
5641485--5641544	30	2.0	31	83	3	77	26	8	10	55	1.61
5644477--5644506	13	2.4	12	89	10	51	23	30	0	46	1.52
5650025--5650054	13	2.4	12	89	10	51	23	30	0	46	1.52
5655563--5655592	13	2.4	12	89	10	51	23	30	0	46	1.52

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