genome.fa.s9462.2.7.7.80.10.50.1000.47.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  47  of  91  ( 10815 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)
9859561--9859647	17	5.3	16	70	21	56	51	2	1	44	1.21
9861923--9862116	60	3.3	60	80	7	218	35	21	4	39	1.73
9863209--9863253	20	2.3	19	85	11	63	37	24	17	20	1.93
9863291--9863383	21	4.5	20	78	8	89	36	25	17	20	1.94
9863274--9863370	42	2.3	42	85	1	133	31	28	18	20	1.96
9863292--9863370	41	1.9	41	89	5	124	34	27	17	20	1.95
9866743--9866794	20	2.6	20	100	0	104	34	13	26	25	1.93
9866744--9866947	75	2.7	73	78	10	198	33	15	24	26	1.95
9866911--9866964	22	2.5	21	83	13	74	29	14	29	25	1.95
9867358--9867508	79	1.9	79	91	5	252	34	9	26	29	1.89
9867446--9867712	45	6.0	46	81	6	280	38	9	21	30	1.85
9867446--9867701	90	2.8	90	86	1	343	38	9	21	30	1.86
9867483--9867744	90	2.9	90	81	5	298	41	8	19	30	1.81
9867486--9867740	135	1.9	135	83	3	334	40	8	19	30	1.82
9867941--9867977	19	2.0	19	89	5	58	35	29	8	27	1.85
9875067--9875266	94	2.1	95	87	4	298	39	13	22	25	1.90
9875539--9875583	22	2.0	22	83	8	56	35	0	6	57	1.25
9875635--9876208	81	7.1	81	90	0	815	36	11	20	31	1.88
9877611--9877643	7	4.7	7	100	0	66	42	0	0	57	0.98
9877693--9877770	30	2.8	27	76	14	77	38	2	0	58	1.12
9877728--9877814	16	5.3	16	74	17	72	39	1	0	59	1.05
9877738--9877808	10	7.2	10	74	16	51	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9877745--9877817	18	3.6	18	75	24	65	38	0	0	61	0.96
9877745--9877823	13	6.2	13	73	20	53	37	1	0	60	1.05
9879122--9879999	104	8.4	104	74	6	580	35	9	19	35	1.84
9879633--9879708	38	2.0	38	89	2	118	36	9	21	32	1.85
9879645--9879773	67	2.0	65	81	6	152	36	11	15	36	1.84
9879822--9879919	37	2.6	37	81	1	115	35	13	22	28	1.92
9879859--9879984	67	1.9	67	85	6	177	38	12	17	30	1.87
9879165--9879999	211	4.0	211	84	2	973	34	9	19	36	1.85
9879975--9880212	118	2.0	120	92	1	399	32	14	13	39	1.85
9892379--9892411	15	2.3	15	90	10	52	39	21	12	27	1.88
9903916--9903955	15	2.6	16	88	4	55	65	10	5	20	1.42
9904024--9904155	65	2.0	65	100	0	264	35	13	12	38	1.82
9911008--9911062	17	3.2	17	79	5	56	41	10	10	36	1.75
9911013--9911061	17	2.8	18	84	9	57	44	10	8	36	1.68
9912371--9912490	39	3.1	38	83	5	143	29	12	13	45	1.80
9928012--9928036	12	2.1	12	100	0	50	72	0	28	0	0.86
9928040--9928079	8	4.8	8	84	9	53	85	0	0	15	0.61
9928027--9928101	28	2.6	28	83	8	98	76	0	9	14	1.03
9928039--9928100	20	3.1	19	86	6	70	80	0	4	14	0.87
9928039--9928101	17	3.4	18	86	10	83	79	0	4	15	0.90
9929087--9929835	55	13.7	55	87	1	1015	28	14	28	28	1.95
9933412--9933523	3	34.7	3	69	13	62	34	2	6	56	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9933413--9933531	16	7.5	16	73	14	77	35	3	5	55	1.41
9933419--9933531	13	8.6	13	73	5	75	35	3	6	54	1.42
9946379--9946480	30	3.4	30	83	5	125	21	5	21	50	1.69
9948162--9948237	31	2.5	31	89	4	100	31	27	28	11	1.92
9952228--9952276	23	2.1	23	96	0	89	40	10	12	36	1.77
9953950--9953998	2	24.5	2	100	0	98	48	0	0	51	1.00
9960864--9960902	20	2.0	20	89	0	60	33	23	10	33	1.88
9962501--9962540	21	1.9	21	94	0	71	32	30	15	22	1.94
9962554--9962621	19	3.6	19	90	5	104	23	35	16	25	1.95
9962577--9962729	64	2.4	63	82	6	182	28	26	15	28	1.96
9962701--9962749	19	2.6	19	84	9	57	24	30	18	26	1.98
9968551--9968630	24	3.5	22	78	14	92	22	26	23	27	2.00
9972554--9972720	90	1.9	90	92	0	280	35	10	5	47	1.63
9979441--9979606	90	1.8	90	93	0	287	35	10	7	46	1.67
9980775--9980872	35	2.8	35	73	6	90	37	16	16	29	1.90
10013670--10014480	134	6.1	135	79	7	761	32	15	20	31	1.94
10013656--10014459	269	3.0	267	79	7	770	32	15	20	31	1.94
10013748--10014488	258	2.8	260	79	6	764	32	15	20	31	1.94
10015616--10015667	11	4.7	11	81	11	54	0	17	0	82	0.66
10015608--10015664	5	11.0	5	79	20	64	1	17	0	80	0.79
10015715--10015771	23	2.5	23	85	0	78	1	15	3	78	0.96
10015694--10015771	27	2.8	27	76	21	81	2	14	3	79	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10022689--10022723	17	2.1	16	89	5	52	48	5	20	25	1.71
10046253--10046282	7	4.3	7	95	0	51	70	0	0	30	0.88
10064669--10064714	23	2.0	23	84	16	60	19	17	6	56	1.62
10066137--10066175	21	1.9	20	84	5	51	64	12	2	20	1.40
10067419--10067469	23	2.2	23	82	6	59	56	0	11	31	1.35
10067947--10068041	50	1.9	50	86	4	138	30	13	21	34	1.92
10084677--10084885	104	2.0	104	98	0	400	42	6	2	47	1.44
10084872--10084907	2	18.0	2	100	0	72	50	0	0	50	1.00
10085379--10085408	15	2.0	15	93	0	51	13	63	13	10	1.52
10094473--10094590	57	2.1	57	90	3	184	28	16	22	33	1.95
10094582--10094615	13	2.6	13	95	0	59	41	17	11	29	1.85
10095608--10095655	21	2.5	19	81	18	64	50	0	2	47	1.12
10097624--10097665	15	2.8	16	78	7	52	38	0	7	54	1.28
10098283--10098316	16	2.1	16	88	0	50	23	26	11	38	1.89
10098612--10098665	23	2.3	24	90	3	83	46	0	9	44	1.35
10101930--10102208	114	2.4	115	93	1	481	35	18	11	33	1.88
10101915--10102212	58	5.2	58	90	2	467	35	19	11	33	1.88
10102546--10102613	19	3.4	19	76	23	68	27	25	16	30	1.96
10108584--10108928	173	2.0	173	93	0	591	33	20	12	33	1.90
10108580--10108932	58	6.1	58	92	0	591	33	19	13	33	1.90
10109322--10109359	20	1.9	20	88	0	58	15	31	18	34	1.92
10111296--10111368	28	2.6	29	77	20	82	49	1	0	49	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10111322--10111385	6	11.3	6	72	24	59	48	1	0	50	1.10
10111318--10111441	16	7.8	16	68	25	59	50	2	0	45	1.20
10111294--10111433	24	5.2	28	71	22	95	50	2	0	46	1.21
10111375--10111549	65	2.7	63	78	12	174	49	4	5	41	1.44
10111539--10111641	22	4.8	22	75	11	88	48	8	5	36	1.58
10111568--10111620	21	2.5	21	87	0	79	47	5	7	39	1.56
10111566--10111656	21	4.3	20	72	14	76	47	7	6	38	1.58
10111710--10111742	17	1.9	17	93	0	57	39	0	9	51	1.34
10111663--10111785	59	2.0	61	81	6	144	43	6	8	42	1.60
10111968--10112005	15	2.5	15	91	4	58	39	7	2	50	1.46
10111944--10112004	24	2.4	26	74	15	65	39	6	1	52	1.37
10112124--10112154	16	1.9	16	100	0	62	45	6	0	48	1.28
10112220--10112246	14	1.9	14	100	0	54	22	0	29	48	1.51
10112307--10112699	2	201.0	2	67	19	181	45	3	3	48	1.35
10112737--10112776	21	1.9	21	84	0	53	20	10	2	67	1.31
10115505--10115538	17	2.0	17	88	11	52	58	5	0	35	1.22
10116199--10116253	20	2.8	19	83	8	74	32	1	1	63	1.15
10116199--10116262	20	3.1	21	77	6	69	31	3	1	64	1.19
10118065--10118125	31	2.0	31	90	3	97	26	19	14	39	1.90
10118851--10118895	17	2.6	17	78	3	54	75	0	0	24	0.80
10118933--10118977	22	2.1	21	84	8	56	73	2	6	17	1.15
10120432--10120545	36	3.2	35	74	9	97	26	23	14	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
10130292--10130431	63	2.2	63	87	2	192	42	7	11	39	1.68
10135345--10135396	26	2.0	26	85	7	70	38	5	0	55	1.24
10135353--10135405	25	2.1	25	86	6	72	33	3	0	62	1.13
10135526--10135561	13	2.6	15	79	20	51	52	0	0	47	1.00
10142703--10142900	29	7.0	29	78	7	156	50	15	4	30	1.62
10142710--10142900	57	3.4	52	72	17	134	50	15	4	29	1.63
10142709--10142895	84	2.2	85	79	10	195	51	13	4	30	1.61
10142909--10142959	17	3.0	17	82	8	59	17	17	41	23	1.90
10149962--10150036	29	2.6	29	89	4	107	46	14	2	36	1.59
10149962--10150053	29	3.2	29	83	7	100	47	14	4	33	1.63

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   79   80   
          81   82   83   84   85   86   87   88   89   90   91