genome.fa.s1465.2.7.7.80.10.50.1000.26.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  26  of  55  ( 6520 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)
5081535--5081595	32	1.9	32	100	0	122	44	19	1	34	1.61
5082580--5082645	26	2.5	26	92	0	114	31	31	18	18	1.95
5086435--5086463	2	14.5	2	100	0	58	48	0	0	51	1.00
5086979--5087019	18	2.3	18	87	4	57	39	31	9	19	1.84
5086957--5087061	44	2.4	44	93	0	174	38	30	12	19	1.88
5087023--5087058	18	2.0	18	94	0	63	33	30	16	19	1.94
5088888--5088956	31	2.2	31	94	0	120	20	13	17	49	1.79
5089586--5089652	34	1.9	34	82	14	84	23	13	16	46	1.82
5091944--5091976	2	16.5	2	100	0	66	51	0	0	48	1.00
5092137--5092243	24	4.5	24	74	0	97	47	16	14	21	1.82
5092137--5092245	48	2.3	48	77	0	119	47	16	14	21	1.82
5093372--5093407	18	2.0	18	88	0	54	30	16	0	52	1.44
5094718--5094753	7	5.0	7	86	6	54	27	25	30	16	1.97
5094718--5094759	22	1.9	22	100	0	84	23	23	33	19	1.97
5094772--5094808	13	2.8	13	100	0	74	10	24	48	16	1.77
5094748--5094812	31	2.1	31	94	0	112	13	20	47	18	1.82
5094755--5094795	18	2.3	18	95	0	73	12	21	48	17	1.79
5096770--5096878	24	4.5	24	76	0	110	46	16	15	21	1.83
5096770--5096878	48	2.3	48	78	0	128	46	16	15	21	1.83
5098005--5098040	18	2.0	18	88	0	54	30	16	0	52	1.44
5099788--5099843	25	2.2	25	100	0	112	32	28	17	21	1.96
5102164--5102230	34	1.9	34	82	14	84	20	13	19	46	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5104199--5104243	18	2.4	19	88	3	65	64	4	2	28	1.25
5106096--5106129	11	3.1	11	86	0	50	64	2	0	32	1.08
5107357--5107381	6	4.2	6	100	0	50	48	16	36	0	1.46
5107908--5107978	36	2.0	36	82	0	88	22	8	38	30	1.84
5112362--5112401	15	2.8	14	85	7	53	52	5	0	42	1.23
5113564--5113611	24	2.0	23	84	4	60	75	0	4	20	0.97
5113783--5113836	28	2.0	28	85	7	76	66	0	1	31	1.02
5113879--5113916	15	2.6	15	83	4	51	68	2	5	23	1.23
5114329--5114397	34	2.0	34	94	0	120	31	14	11	42	1.82
5114993--5115251	98	2.6	98	83	5	304	19	21	25	33	1.96
5114993--5115385	105	3.8	102	78	7	325	20	20	25	33	1.97
5117951--5117994	19	2.3	19	92	0	70	18	25	9	47	1.77
5118351--5118959	38	15.7	38	79	6	623	26	18	15	39	1.91
5118351--5118959	156	3.9	152	82	3	655	26	18	15	39	1.91
5120103--5120140	18	2.2	18	86	13	53	26	5	0	68	1.11
5128312--5128359	18	2.7	17	81	15	53	29	6	0	64	1.18
5128539--5128841	38	8.0	38	82	2	340	24	14	18	42	1.87
5128820--5129517	45	15.7	45	76	6	499	22	17	19	41	1.91
5129147--5129446	134	2.3	129	81	2	348	20	16	22	41	1.91
5129758--5130079	134	2.4	133	78	5	360	30	18	18	32	1.95
5129741--5130427	341	2.0	341	97	0	1284	31	18	18	32	1.95
5130305--5130549	133	1.8	133	81	7	309	31	19	19	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5131050--5131082	2	16.5	2	93	0	57	51	3	0	45	1.16
5135578--5135617	15	2.8	14	85	7	53	52	5	0	42	1.23
5135953--5135977	11	2.3	11	100	0	50	24	0	0	76	0.80
5136635--5137138	167	3.0	167	98	0	972	33	11	18	36	1.87
5140215--5140258	19	2.3	19	92	0	70	18	25	9	47	1.77
5140615--5141223	38	15.7	38	79	6	607	25	19	15	39	1.91
5140615--5141225	156	3.9	152	80	5	602	25	19	15	39	1.91
5142367--5142404	18	2.2	18	86	13	53	26	5	0	68	1.11
5149373--5149420	18	2.7	17	81	15	53	29	6	0	64	1.18
5149600--5149902	38	8.0	38	82	3	333	24	14	18	42	1.88
5149881--5150514	45	14.2	44	77	6	499	21	17	20	41	1.91
5150253--5150495	134	1.8	129	85	4	333	21	16	22	39	1.92
5150819--5151140	134	2.4	133	78	5	351	30	18	18	32	1.95
5150802--5151488	341	2.0	341	97	0	1284	31	18	18	31	1.95
5151160--5151599	134	3.3	132	79	5	461	29	19	19	32	1.96
5151366--5151610	133	1.8	133	83	7	327	31	18	19	30	1.96
5151832--5151882	2	25.0	2	96	4	93	49	1	0	49	1.12
5152132--5152186	2	27.5	2	96	0	101	50	1	0	47	1.11
5157595--5157630	6	6.2	6	90	6	56	55	0	0	44	0.99
5157588--5157630	17	2.6	17	88	3	70	55	0	0	44	0.99
5157583--5157633	23	2.3	22	90	6	77	58	0	0	41	0.98
5158844--5158893	21	2.4	21	96	0	91	42	28	2	28	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5163187--5163236	20	2.5	21	84	9	61	54	6	10	30	1.58
5163407--5163450	23	1.9	23	85	0	61	27	18	22	31	1.97
5165092--5165166	13	5.8	13	100	0	150	0	45	0	54	0.99
5167361--5167420	12	5.0	12	74	8	50	48	18	13	20	1.81
5167352--5167453	24	4.2	24	82	0	123	51	14	12	20	1.75
5171857--5171928	24	3.0	24	81	0	90	50	16	12	20	1.78
5175095--5175153	23	2.6	23	100	0	118	16	27	23	32	1.96
5176612--5176641	14	2.1	14	93	0	51	43	0	6	50	1.28
5178643--5178875	116	2.0	116	81	8	278	45	7	8	38	1.63
5178906--5178941	18	1.9	18	88	5	54	50	0	0	50	1.00
5180331--5180367	2	18.5	2	100	0	74	51	0	0	48	1.00
5180507--5180942	76	5.7	76	93	1	703	36	21	18	23	1.95
5180890--5180987	45	2.2	45	92	0	160	38	23	16	21	1.92
5180738--5181139	197	2.0	197	97	0	759	35	22	18	22	1.96
5180814--5181063	121	2.1	121	96	0	455	36	23	18	22	1.95
5180662--5181215	273	2.0	273	96	0	1027	35	22	18	22	1.96
5180586--5181291	349	2.0	349	96	0	1286	35	22	18	23	1.96
5180512--5181367	425	2.0	426	94	0	1509	35	22	19	23	1.96
5180935--5181496	76	7.4	76	97	0	1043	34	22	19	22	1.96
5182174--5182228	22	2.5	22	87	0	83	41	16	9	32	1.80
5188745--5188783	14	2.8	14	85	11	53	58	7	17	15	1.59
5191649--5191707	29	2.0	29	83	6	73	50	1	1	45	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5191932--5191967	18	1.9	18	88	5	54	50	0	0	50	1.00
5193368--5193402	2	17.5	2	100	0	70	51	0	0	48	1.00
5195778--5195821	22	2.0	22	86	0	61	29	2	22	45	1.65
5197793--5198123	36	9.2	36	89	3	481	17	25	23	32	1.97
5197792--5198123	179	1.9	179	87	5	492	17	25	23	32	1.97
5203195--5203348	22	7.6	21	87	9	182	14	23	33	29	1.94
5209557--5209606	19	2.6	19	100	0	100	30	18	30	22	1.97
5210177--5210309	22	6.7	19	81	9	119	17	23	31	27	1.97
5210209--5210307	22	4.7	22	83	6	125	17	22	32	28	1.96
5210191--5210303	44	2.7	40	81	10	136	16	23	30	29	1.96
5211828--5211870	19	2.3	19	88	4	61	37	9	0	53	1.33
5212095--5212252	51	3.1	51	77	4	142	17	32	28	22	1.96
5214873--5214977	21	5.0	21	77	4	88	21	38	24	15	1.92
5214873--5214977	42	2.5	41	84	3	129	21	38	24	15	1.92
5215327--5215394	34	2.1	32	88	5	100	32	16	29	22	1.95
5217611--5217652	22	1.9	22	90	0	66	16	38	26	19	1.92
5218380--5218464	35	2.5	33	78	14	91	25	8	10	55	1.62
5222030--5222156	51	2.5	50	74	12	114	24	27	31	16	1.96
5224947--5225010	23	2.8	23	67	9	58	20	7	9	62	1.50
5229677--5229726	23	2.2	23	92	0	82	18	26	24	32	1.97
5232723--5233054	162	2.1	161	90	0	520	28	26	14	30	1.95
5232723--5233112	162	2.4	162	86	2	471	27	27	14	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5243586--5243626	2	20.5	2	100	0	82	51	0	0	48	1.00
5252325--5254123	84	21.5	84	85	2	2138	34	22	19	23	1.97
5253731--5254206	84	5.6	85	81	5	254	36	21	17	25	1.94
5255733--5255764	3	11.0	3	93	6	57	34	0	0	65	0.93
5255733--5255767	11	3.1	11	95	4	61	34	0	0	65	0.93
5256043--5256084	21	2.1	20	83	16	52	16	2	2	78	0.96
5256120--5256182	19	3.4	19	72	22	53	12	3	7	76	1.13
5256120--5256182	18	3.4	19	75	16	60	12	3	7	76	1.13
5258154--5258180	11	2.5	11	100	0	54	55	0	7	37	1.28
5259106--5259357	37	6.7	37	78	11	273	41	2	8	48	1.46

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