genome.fa.s9634.2.7.7.80.10.50.1000.24.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: VEPZ01009634.1 Hibiscus syriacus cultivar Beakdansim tig00117034_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  17174986

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   74   75   76   77   78   

This is table  24  of  78  ( 9351 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)
5021212--5021270	19	2.8	21	78	19	61	49	13	0	37	1.43
5021332--5021428	2	49.0	2	97	2	187	49	0	0	50	1.00
5021799--5022237	218	2.0	218	97	0	833	20	19	20	39	1.93
5028586--5028639	17	3.1	17	76	5	54	66	0	0	33	0.92
5028580--5028630	17	2.9	18	82	5	68	70	1	0	27	0.98
5029404--5029516	60	1.9	60	85	7	158	34	23	2	38	1.69
5029739--5029880	60	2.4	60	82	7	164	40	4	21	33	1.75
5030456--5030510	2	27.5	2	100	0	110	50	0	0	49	1.00
5033611--5033704	3	30.7	3	82	4	98	42	0	0	57	0.98
5039086--5039117	15	2.1	15	94	0	55	25	18	9	46	1.79
5046422--5046482	15	4.0	15	76	18	63	83	0	16	0	0.64
5046422--5046483	20	3.1	21	84	11	85	82	0	17	0	0.67
5046422--5046483	21	2.7	24	76	16	69	82	0	17	0	0.67
5046425--5046472	5	9.8	5	82	13	64	83	0	16	0	0.65
5046810--5046855	19	2.6	18	87	12	69	34	8	4	52	1.52
5047514--5047912	83	4.7	83	92	6	672	27	13	21	37	1.91
5048882--5049406	113	4.7	112	93	1	827	38	15	19	26	1.92
5049364--5049598	117	2.0	115	81	1	272	39	17	18	24	1.92
5049780--5049827	3	15.3	3	82	8	60	39	0	0	60	0.97
5056989--5057061	3	25.0	3	78	15	73	41	0	0	58	0.98
5056976--5057061	22	4.1	22	77	22	96	39	1	0	59	1.05
5056976--5057061	25	3.4	25	78	20	83	39	1	0	59	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5060111--5060154	23	1.9	23	95	0	79	43	4	11	40	1.61
5066403--5066622	114	1.9	114	93	1	379	35	15	19	30	1.93
5069068--5069141	22	3.4	22	98	0	139	35	9	14	40	1.79
5069656--5069982	166	2.0	167	90	2	514	35	13	11	39	1.81
5069985--5070847	76	11.4	76	96	1	1581	22	18	23	34	1.96
5070997--5071078	3	28.0	3	76	14	73	42	0	0	57	0.98
5070997--5071078	21	4.0	22	79	20	106	42	0	0	57	0.98
5072403--5072437	3	11.7	3	100	0	70	31	0	0	68	0.90
5072621--5072662	20	2.2	19	86	4	57	33	0	2	64	1.07
5074159--5074202	23	1.9	23	95	0	79	43	9	11	36	1.72
5074119--5074280	87	1.9	87	90	0	261	43	9	12	35	1.74
5074275--5074786	200	2.6	198	81	4	597	32	14	13	40	1.84
5074931--5074984	21	2.6	20	88	5	72	27	29	20	22	1.98
5074980--5075235	42	6.1	42	81	9	249	21	19	24	35	1.96
5074996--5075193	63	3.1	63	91	0	315	21	19	25	33	1.97
5074974--5075243	105	2.6	104	83	5	327	22	20	23	34	1.97
5074994--5075239	21	11.8	19	73	13	123	20	19	24	34	1.96
5075208--5075248	21	2.0	21	85	0	55	24	21	26	26	2.00
5076079--5076271	21	9.3	21	72	13	157	34	22	19	23	1.97
5076092--5076245	42	3.7	41	86	3	211	36	22	18	22	1.95
5076143--5076224	19	4.1	19	72	17	67	37	20	19	21	1.94
5076084--5076270	42	4.5	40	81	9	198	34	22	19	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5076279--5076331	21	2.5	21	93	0	88	22	20	30	26	1.98
5079338--5079385	19	2.5	19	93	0	78	54	10	4	31	1.53
5081235--5081272	20	1.9	20	89	10	60	28	15	7	47	1.74
5081239--5082120	200	4.4	199	90	1	1333	30	15	14	39	1.88
5086037--5086199	30	5.4	30	97	0	308	33	23	19	23	1.97
5086037--5086224	30	6.2	30	94	0	277	34	24	19	22	1.97
5086037--5086224	90	2.1	91	91	1	306	34	24	19	22	1.97
5086185--5086277	31	3.0	31	80	3	107	35	21	16	26	1.94
5088082--5088106	3	8.3	3	100	0	50	32	0	0	68	0.90
5090459--5090616	59	2.7	60	96	2	300	32	24	20	23	1.98
5090459--5090616	30	5.3	30	97	1	300	32	24	20	23	1.98
5090602--5090693	30	3.0	31	77	6	89	34	21	17	26	1.95
5091023--5091066	2	23.0	2	86	9	65	54	0	0	45	0.99
5091031--5091065	9	4.0	9	92	7	63	54	0	0	45	0.99
5092135--5092190	2	28.0	2	100	0	112	50	0	0	50	1.00
5093197--5093246	15	3.1	15	83	13	64	24	6	40	30	1.79
5093535--5094502	201	4.8	199	86	4	1230	32	14	14	38	1.87
5094951--5094999	19	2.6	19	87	9	73	51	10	2	36	1.48
5096553--5096591	18	2.2	18	90	0	60	10	33	0	56	1.33
5097005--5097039	18	1.9	18	88	0	52	17	42	5	34	1.73
5097275--5097331	24	2.5	22	73	13	62	49	8	1	40	1.44
5099283--5099944	182	3.7	182	88	3	930	27	15	14	42	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5104562--5104605	21	2.1	21	87	4	63	56	0	11	31	1.35
5106688--5106742	28	2.0	28	92	7	94	18	21	16	43	1.88
5107097--5107155	28	2.1	28	93	0	100	20	10	10	59	1.58
5107280--5107404	42	3.0	42	89	4	189	36	17	8	37	1.79
5110433--5110531	20	4.9	20	80	4	119	41	25	15	18	1.89
5110408--5110531	40	3.1	39	83	5	133	42	23	15	18	1.88
5110710--5110777	20	3.4	20	81	0	82	41	25	14	19	1.89
5110488--5110951	246	1.9	246	100	0	928	33	29	10	26	1.89
5111295--5111481	34	5.1	34	91	7	257	9	19	21	49	1.76
5111315--5111382	14	4.4	14	80	20	82	8	20	23	47	1.78
5111287--5111481	20	10.4	20	86	13	290	9	19	21	49	1.77
5113154--5113273	63	1.9	63	81	10	147	22	12	32	32	1.91
5113572--5113665	21	4.5	21	81	7	102	20	32	20	26	1.97
5113566--5113688	42	2.9	42	86	0	156	18	34	21	26	1.96
5113595--5113688	21	4.5	21	80	0	98	19	35	22	23	1.96
5115053--5115210	64	2.5	64	95	1	280	30	1	17	50	1.56
5115376--5115430	20	2.8	20	82	0	74	25	20	18	36	1.94
5117917--5117963	24	2.0	24	95	0	85	34	17	21	27	1.95
5117921--5117972	24	2.2	24	85	0	68	36	19	19	25	1.95
5118700--5118736	16	2.4	15	86	8	56	70	0	2	27	1.01
5118893--5119021	19	6.7	19	87	3	134	31	8	20	38	1.83
5118894--5119009	38	3.1	38	88	2	162	32	8	20	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5119852--5119979	60	2.1	60	76	2	132	37	17	14	31	1.89
5124090--5124138	16	3.1	15	79	5	53	42	6	4	46	1.47
5124448--5124853	169	2.4	169	87	1	591	33	18	19	27	1.96
5129641--5129750	30	3.7	29	77	6	103	37	11	10	40	1.75
5129830--5129899	30	2.4	29	83	4	95	42	5	11	40	1.65
5131172--5131264	21	4.6	20	75	4	87	38	18	23	19	1.93
5131169--5131264	41	2.3	41	96	0	174	39	17	22	19	1.92
5131172--5131264	20	4.6	20	75	4	87	38	18	23	19	1.93
5131253--5131387	20	6.7	20	82	4	137	34	22	17	24	1.96
5131250--5131381	61	2.2	61	88	0	192	37	22	16	23	1.94
5131555--5131598	22	2.0	22	95	0	79	20	45	15	18	1.85
5131862--5131899	20	1.9	20	88	0	58	13	15	21	50	1.78
5133219--5133263	18	2.5	18	85	0	63	26	42	15	15	1.87
5133736--5133802	20	3.4	20	81	2	73	38	23	22	14	1.92
5133791--5133848	14	3.9	14	79	16	71	48	25	17	8	1.75
5133775--5133865	32	2.8	33	94	3	166	47	23	18	10	1.80
5133736--5133870	19	7.6	19	71	19	85	42	23	20	12	1.86
5133882--5133939	14	3.9	14	79	16	71	8	17	25	48	1.75
5133877--5133955	32	2.4	33	95	2	142	10	18	24	46	1.80
5133896--5134013	20	6.4	19	75	11	86	14	20	23	41	1.89
5135860--5135895	14	2.6	14	90	0	54	30	0	22	47	1.52
5136002--5136073	14	4.5	14	70	26	54	48	19	19	12	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5136012--5136078	18	3.8	19	79	18	83	47	17	20	13	1.81
5136104--5136154	20	2.5	20	93	0	84	19	23	23	33	1.97
5137211--5137269	24	2.5	23	78	8	64	30	16	16	35	1.92
5139761--5139854	33	2.8	33	96	0	170	44	19	23	12	1.85
5139761--5139858	19	5.7	19	67	22	81	44	19	23	12	1.84
5139864--5139916	20	2.7	20	91	2	81	11	18	20	49	1.78
5140023--5140059	14	2.6	14	91	0	65	45	24	0	29	1.53
5141457--5141540	42	2.0	42	85	0	114	22	16	39	21	1.92
5143540--5143724	19	10.1	19	74	14	156	43	21	22	13	1.87
5143565--5143663	33	3.0	33	87	1	135	39	25	23	12	1.89

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   74   75   76   77   78