genome.fa.s8242.2.7.7.80.10.50.1000.22.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  22  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)
4911909--4911954	22	2.1	22	84	8	58	21	8	4	65	1.38
4911987--4912040	9	6.4	8	79	10	54	18	1	1	77	0.95
4911987--4912050	17	3.8	18	76	17	59	18	1	3	76	1.00
4915516--4915805	38	7.5	36	78	14	199	46	4	7	41	1.51
4915510--4915946	76	5.5	73	73	20	242	47	3	7	42	1.47
4915696--4915759	15	4.3	15	71	15	51	51	0	3	45	1.17
4915717--4915762	17	2.7	18	96	3	78	52	0	4	43	1.21
4915754--4915857	51	2.1	50	89	5	156	45	3	6	44	1.48
4915775--4915880	51	2.1	52	80	8	119	48	4	5	41	1.48
4915519--4915961	39	10.9	39	76	16	322	46	3	7	42	1.48
4915805--4916062	73	3.4	73	79	14	194	44	2	7	44	1.45
4917484--4917594	39	2.8	38	72	20	95	21	5	0	72	1.11
4917489--4917541	19	2.9	18	78	8	63	15	5	1	77	1.04
4917563--4917614	9	6.0	9	84	13	65	34	0	0	65	0.93
4917563--4917614	26	2.0	26	85	14	72	34	0	0	65	0.93
4917564--4917617	17	3.1	18	86	5	76	35	0	0	64	0.94
4921633--4921661	3	9.7	3	100	0	58	65	0	34	0	0.93
4928308--4928349	5	8.6	5	84	5	59	2	16	2	78	0.96
4928308--4928346	14	2.7	15	88	4	53	2	17	2	76	1.01
4928317--4928366	19	2.7	19	87	6	68	2	16	4	78	1.00
4928317--4928368	18	2.9	17	78	18	52	1	15	5	76	1.05
4932338--4932518	91	2.0	91	92	0	299	30	20	28	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4933518--4933563	19	2.3	21	85	11	69	58	6	8	26	1.52
4934021--4934048	10	2.8	10	100	0	56	21	42	10	25	1.85
4945968--4946020	19	2.6	20	88	8	72	43	5	13	37	1.67
4946386--4946434	20	2.5	20	89	0	71	22	40	8	28	1.82
4946484--4946566	30	2.8	30	94	0	139	26	30	12	31	1.92
4954692--4954743	24	2.2	24	83	16	65	69	3	15	11	1.32
4969236--4969283	17	2.8	17	83	0	69	43	16	8	31	1.78
4973934--4974011	21	3.6	21	80	13	95	24	11	21	42	1.86
4981070--4981158	44	2.0	44	87	8	128	21	12	23	42	1.86
4981073--4981152	21	3.7	21	72	18	65	18	12	22	46	1.83
4981698--4981732	2	18.0	2	94	5	63	48	0	0	51	1.00
4986555--4986596	17	2.5	17	80	3	50	30	21	19	28	1.97
4988601--4988630	2	15.0	2	100	0	60	50	0	0	50	1.00
4999370--4999429	30	2.0	30	100	0	120	26	6	20	46	1.75
5001992--5002044	17	3.1	17	81	10	63	37	20	9	32	1.85
5008972--5008996	12	2.1	12	100	0	50	52	8	0	40	1.31
5017321--5017432	30	3.8	30	89	7	167	31	18	23	26	1.98
5017728--5017770	13	3.2	12	84	12	50	76	0	2	20	0.89
5017728--5017769	23	1.9	21	85	9	57	78	0	2	19	0.86
5022075--5022126	15	3.5	15	78	5	52	50	0	3	46	1.20
5022099--5022153	23	2.6	21	75	13	58	56	0	1	41	1.10
5022347--5022386	18	2.2	18	95	0	71	47	22	5	25	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5022919--5022981	16	3.9	16	79	6	65	57	9	1	31	1.40
5030678--5030807	61	2.1	61	84	0	170	25	16	29	29	1.96
5035741--5036248	134	3.8	133	84	2	610	32	22	14	30	1.94
5035741--5036243	268	1.9	268	86	3	717	32	22	14	30	1.94
5039033--5039102	31	2.3	31	90	5	106	14	28	30	27	1.95
5039087--5039164	31	2.4	32	87	4	104	17	24	25	32	1.97
5039896--5040313	134	3.1	132	83	3	507	34	21	14	29	1.93
5040511--5040543	17	1.9	17	100	0	66	21	12	0	66	1.23
5042653--5043019	131	2.8	132	81	1	450	32	10	16	40	1.83
5044122--5044153	14	2.3	14	94	0	55	18	3	0	78	0.89
5044682--5044729	24	2.0	24	84	8	62	39	4	6	50	1.47
5045381--5045513	70	1.9	70	96	0	248	52	18	17	12	1.74
5052925--5052957	17	1.9	17	88	11	50	54	0	9	36	1.32
5053647--5053686	16	2.5	16	84	8	55	62	0	0	37	0.95
5053903--5055367	405	3.6	405	82	2	1666	29	15	23	31	1.95
5053903--5055370	135	10.8	135	80	3	1450	29	15	23	31	1.95
5056548--5056589	14	3.3	13	80	12	52	11	9	0	78	0.96
5056565--5056658	18	5.1	19	67	24	58	9	13	0	76	1.01
5056579--5056629	19	2.7	20	79	17	63	11	13	0	74	1.07
5056588--5056637	23	2.2	23	85	7	66	12	14	0	74	1.09
5066464--5066506	21	2.0	22	86	13	63	65	11	9	13	1.48
5067328--5067377	26	1.9	26	83	0	64	28	22	22	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5075457--5075510	24	2.2	25	80	9	67	35	12	20	31	1.90
5078519--5078579	32	2.0	30	84	12	79	77	3	14	4	1.07
5078519--5078568	19	2.7	20	75	12	61	80	2	16	2	0.91
5085616--5085658	14	3.1	14	86	3	52	27	39	0	32	1.57
5086041--5086090	6	8.2	6	84	10	57	80	0	16	4	0.87
5086112--5086159	18	2.7	18	77	9	53	77	4	14	4	1.08
5097534--5097576	14	3.1	14	86	3	52	27	39	0	32	1.57
5100147--5100187	20	2.1	20	90	4	66	36	7	4	51	1.51
5100527--5100579	14	3.9	13	85	7	63	22	35	0	41	1.54
5105454--5105500	11	4.1	11	81	13	51	2	17	2	78	0.94
5105878--5105957	35	2.2	37	88	4	119	27	3	38	30	1.74
5122588--5122635	24	2.0	25	83	4	62	12	25	12	50	1.75
5130650--5130677	8	3.5	8	100	0	56	0	21	0	78	0.75
5130646--5130694	25	2.0	25	84	8	64	4	18	0	77	0.92
5130643--5130695	16	3.3	15	82	12	61	3	16	0	79	0.88
5133197--5133249	18	2.8	19	85	8	72	37	11	7	43	1.69
5134811--5134870	30	2.0	31	90	3	95	30	8	8	53	1.60
5135793--5135848	20	2.8	20	97	0	103	41	12	5	41	1.66
5136376--5136405	2	15.5	2	93	6	53	50	0	0	50	1.00
5138009--5138047	19	2.1	18	90	4	60	74	5	17	2	1.12
5146559--5146618	30	2.0	31	90	3	95	30	8	8	53	1.60
5149044--5149099	24	2.3	24	79	11	62	66	12	12	8	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5149059--5149114	22	2.4	24	85	5	80	53	16	17	12	1.73
5161510--5161557	24	2.0	25	83	4	62	50	16	25	8	1.73
5164197--5164255	25	2.3	26	82	5	68	66	11	13	8	1.45
5164249--5164278	5	6.0	5	92	0	51	76	3	20	0	0.92
5168557--5168586	5	6.0	5	92	0	51	76	3	20	0	0.92
5180640--5180674	18	1.9	18	94	0	61	34	14	5	45	1.68
5192852--5192888	20	1.9	19	89	10	58	45	10	24	18	1.81
5194806--5194851	20	2.3	21	85	7	60	4	6	4	84	0.85
5202499--5202544	19	2.2	21	81	14	51	15	36	10	36	1.82
5202525--5202554	10	3.0	10	95	0	51	20	33	10	36	1.86
5205184--5205234	19	2.6	20	90	3	77	43	5	15	35	1.71
5209378--5209428	19	2.6	20	90	3	77	43	5	15	35	1.71
5213278--5213461	46	4.0	46	90	2	307	18	21	4	54	1.62
5214869--5214899	16	1.9	16	93	0	53	22	41	3	32	1.70
5216651--5216693	21	2.0	21	100	0	86	39	13	0	46	1.44
5218119--5218149	16	1.9	16	100	0	62	22	38	6	32	1.80
5228223--5228309	30	2.9	30	91	0	147	29	11	31	27	1.92
5233379--5233403	8	3.1	8	100	0	50	76	0	24	0	0.80
5233347--5233417	13	5.6	12	73	15	54	74	2	21	1	1.02
5240991--5241022	16	2.0	16	100	0	64	31	18	6	43	1.75
5244620--5244667	24	2.0	24	84	8	62	66	0	20	12	1.24
5244895--5244939	22	2.2	20	84	8	54	0	13	6	80	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5247057--5247111	17	3.3	16	75	7	56	76	1	16	5	1.06
5247954--5248033	35	2.2	37	91	4	128	27	3	37	31	1.74
5249124--5249174	19	2.6	20	90	3	77	43	5	15	35	1.71
5252533--5252590	29	2.0	29	83	10	73	5	15	3	75	1.11
5253310--5253360	19	2.6	20	90	3	77	43	5	15	35	1.71
5265314--5265365	21	2.6	21	90	6	81	32	13	7	46	1.72
5266073--5266104	17	1.9	17	93	6	57	78	6	15	0	0.95
5266083--5266144	23	2.5	24	82	17	67	69	4	17	8	1.31
5269440--5269491	21	2.6	21	90	6	81	34	11	7	46	1.69
5272688--5272730	6	7.2	6	79	10	52	79	4	16	0	0.90

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