genome.fa.s9462.2.7.7.80.10.50.1000.63.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  63  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)
14356214--14356395	76	2.4	77	88	5	266	45	7	2	45	1.45
14356204--14356426	76	2.9	74	81	9	254	44	8	3	44	1.49
14357018--14358547	84	18.3	84	82	1	1748	24	19	24	32	1.98
14357018--14358547	251	6.1	251	82	2	1746	24	19	24	32	1.98
14357044--14358513	334	4.4	335	85	2	1804	24	18	24	31	1.98
14359649--14359911	95	2.7	95	84	3	339	32	18	16	32	1.93
14362502--14362679	9	20.1	9	67	9	80	76	3	3	16	1.07
14362503--14362678	10	15.7	10	69	23	86	77	3	3	15	1.05
14362530--14362569	5	7.8	5	97	2	71	82	0	0	17	0.67
14362752--14362838	26	3.3	26	79	10	88	66	1	1	31	1.06
14362769--14362842	3	25.7	3	83	8	100	67	0	0	32	0.91
14369344--14369373	14	2.1	14	100	0	60	63	10	6	20	1.47
14369690--14369760	20	3.5	20	76	14	72	26	16	25	30	1.97
14369690--14369784	42	2.2	43	86	3	129	29	15	23	31	1.95
14369709--14369799	42	2.2	41	79	13	96	29	17	21	30	1.96
14370132--14370165	18	1.9	18	88	5	52	52	5	2	38	1.41
14370527--14370602	31	2.5	31	91	0	125	31	10	14	43	1.79
14374137--14375272	216	5.3	216	87	4	1646	50	8	11	30	1.67
14374137--14375290	422	2.7	423	90	1	1796	50	8	11	29	1.67
14375553--14375596	21	2.1	21	95	0	79	29	15	27	27	1.96
14375609--14375640	6	5.5	6	96	3	57	31	53	15	0	1.43
14376133--14376187	6	9.5	6	92	7	96	0	16	49	34	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14376304--14376351	19	2.5	19	93	0	87	43	18	18	18	1.88
14376384--14376463	34	2.4	33	87	4	108	43	25	17	13	1.86
14376636--14376686	20	2.6	20	90	3	86	45	5	3	45	1.46
14376636--14376823	22	8.8	22	69	20	80	44	4	4	45	1.46
14376735--14376788	17	3.1	17	81	2	63	46	0	3	50	1.19
14376883--14376936	11	5.2	11	72	20	53	50	11	1	37	1.49
14376890--14376993	20	5.2	20	69	17	63	46	9	4	39	1.58
14376980--14377018	18	2.2	17	86	4	51	46	5	2	46	1.38
14376958--14377073	20	5.9	20	72	15	55	42	6	4	47	1.48
14377002--14377156	27	5.7	27	74	13	88	41	6	3	48	1.47
14377045--14377117	20	3.4	20	75	17	83	38	5	2	53	1.39
14377029--14377118	13	7.4	13	67	25	54	37	6	2	53	1.40
14377069--14377158	33	2.8	33	83	8	107	41	6	4	47	1.50
14377217--14377399	92	2.0	92	88	2	269	37	27	5	29	1.79
14377300--14377517	102	2.1	102	83	5	271	33	29	5	31	1.81
14377703--14377766	6	10.7	6	74	0	56	42	46	6	4	1.49
14377709--14377766	18	3.2	18	85	0	71	43	46	5	5	1.48
14379258--14379359	6	17.3	6	79	4	100	44	46	4	4	1.46
14379258--14379359	35	2.9	34	85	4	123	44	46	4	4	1.46
14379571--14379607	2	18.5	2	100	0	74	51	0	0	48	1.00
14379620--14379744	63	2.0	63	91	0	205	32	8	16	43	1.77
14379623--14379782	63	2.5	63	86	2	194	35	8	16	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14381346--14381387	17	2.5	17	80	7	50	21	4	2	71	1.16
14382006--14382073	20	3.4	20	73	4	57	14	11	13	60	1.60
14382166--14382222	23	2.5	23	85	5	71	22	15	24	36	1.94
14383610--14383719	30	3.7	30	80	2	123	45	8	10	36	1.68
14383964--14384033	30	2.6	27	82	15	74	48	2	1	47	1.25
14383986--14384028	19	2.3	19	84	8	52	53	2	0	44	1.13
14386563--14386752	65	2.9	64	88	4	240	32	16	20	30	1.95
14387073--14387110	13	2.7	14	84	12	51	50	5	7	36	1.54
14395141--14395330	65	2.9	64	85	4	238	31	15	21	32	1.94
14395718--14395760	2	21.5	2	100	0	86	48	0	0	51	1.00
14395746--14395818	35	2.0	37	84	5	96	21	4	4	69	1.22
14395874--14395941	15	4.5	15	74	17	52	16	5	2	75	1.13
14395904--14395941	15	2.4	16	87	12	53	21	2	0	76	0.91
14396443--14396522	40	2.0	40	100	0	160	27	10	37	25	1.88
14403009--14403049	22	1.9	21	95	5	73	70	4	9	14	1.30
14406404--14406458	14	3.9	14	76	21	53	74	0	3	21	0.97
14406404--14406457	28	2.0	28	82	10	67	74	0	3	22	0.98
14410028--14410090	7	8.7	7	85	15	76	80	0	17	1	0.78
14410037--14410095	6	10.5	6	78	10	63	83	0	16	0	0.66
14410030--14410095	22	2.9	22	84	15	89	81	0	16	1	0.76
14412759--14412791	2	16.5	2	100	0	66	48	0	0	51	1.00
14412925--14412966	3	14.0	3	100	0	84	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14413022--14413059	14	2.7	14	88	8	51	23	0	2	73	0.95
14417923--14417980	23	2.6	21	78	10	62	29	20	20	29	1.98
14420445--14420570	55	2.3	55	90	0	198	38	9	17	34	1.82
14420830--14421130	45	6.7	45	91	0	476	43	11	22	22	1.85
14420948--14421019	19	3.4	19	70	23	63	41	9	22	26	1.84
14421012--14421090	26	3.3	26	68	23	82	44	12	21	21	1.85
14421944--14422012	12	5.2	13	73	15	52	63	4	0	31	1.14
14421949--14422073	12	11.2	12	66	21	51	55	4	3	36	1.37
14421965--14422071	17	6.1	17	71	19	51	53	4	3	38	1.40
14422069--14422175	19	5.7	19	68	22	66	44	4	0	49	1.29
14422046--14422181	56	2.3	60	83	9	165	46	4	0	48	1.27
14422106--14422200	44	2.2	44	83	11	115	45	4	0	50	1.21
14422148--14422185	13	2.9	13	84	7	51	42	5	0	52	1.24
14422120--14422201	44	1.9	42	87	9	121	43	4	0	51	1.23
14422091--14422208	44	3.0	39	79	13	109	43	4	0	51	1.27
14424309--14425325	4	255.8	4	98	1	1992	24	0	25	49	1.50
14430120--14430184	30	2.2	30	81	10	71	32	6	20	41	1.77
14438699--14438740	16	2.6	16	84	0	57	66	9	9	14	1.44
14440610--14440662	2	26.5	2	100	0	106	50	0	0	49	1.00
14441746--14441792	15	3.1	15	78	0	58	12	68	0	19	1.21
14441749--14441807	21	2.7	21	84	7	64	15	66	0	18	1.26
14441864--14441909	24	1.9	24	86	0	65	17	60	0	21	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14442059--14442095	18	2.1	18	94	0	65	21	64	0	13	1.27
14444217--14444281	29	2.3	29	86	2	87	44	16	16	21	1.86
14445538--14445572	12	2.9	12	91	0	52	51	17	14	17	1.77
14449488--14449518	6	5.2	6	96	0	53	19	0	67	12	1.22
14449586--14449642	30	1.9	30	88	0	87	59	7	0	33	1.24
14449828--14449866	15	2.6	16	88	12	64	23	5	5	66	1.32
14449848--14449904	28	2.1	27	90	6	89	31	3	17	47	1.65
14450062--14450103	13	3.2	13	83	10	50	78	0	2	19	0.86
14450216--14450285	28	2.5	26	75	11	68	65	4	2	27	1.25
14451148--14451429	54	5.2	53	87	3	350	29	19	18	32	1.96
14451290--14451373	27	3.1	27	63	24	68	28	17	21	32	1.96
14451970--14452016	18	2.6	18	96	0	85	34	25	12	27	1.92
14457932--14458320	54	7.2	54	83	4	443	28	19	19	32	1.96
14457932--14458320	162	2.4	160	86	2	503	28	19	19	32	1.96
14461897--14461940	20	2.2	20	87	0	61	31	13	25	29	1.94
14468599--14469015	207	2.0	206	95	1	755	37	14	19	27	1.92
14469691--14469739	24	2.0	26	84	8	66	40	10	22	26	1.86
14470175--14470207	14	2.3	15	89	5	50	12	12	12	63	1.52
14481859--14481981	29	4.2	29	78	4	77	43	16	17	21	1.87
14481878--14482014	29	4.7	29	79	5	134	43	16	17	22	1.87
14484828--14484874	14	3.5	14	77	11	62	46	4	4	44	1.42
14484826--14484879	26	2.1	26	100	0	108	44	3	3	48	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14487324--14487427	51	2.0	51	98	0	199	23	16	22	38	1.93
14488687--14488729	21	2.0	22	86	13	63	44	16	13	25	1.85
14490545--14490587	20	2.2	20	87	8	61	58	0	16	25	1.38
14491719--14492055	178	1.9	178	94	0	593	37	9	14	38	1.78
14494380--14494408	2	14.5	2	100	0	58	51	0	0	48	1.00
14496982--14497032	20	2.5	20	100	0	102	19	25	35	19	1.95
14499847--14499907	20	2.9	21	87	7	79	19	24	34	21	1.96
14506589--14506832	54	4.5	54	81	2	247	33	18	16	31	1.94
14506633--14506832	108	1.9	108	88	4	305	34	17	17	31	1.93
14506750--14506916	84	2.0	84	85	2	228	36	17	17	28	1.93

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