genome.fa.s8242.2.7.7.80.10.50.1000.62.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  62  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)
14307093--14307137	17	2.6	17	85	0	63	24	15	46	13	1.82
14307519--14307554	13	2.8	13	91	0	54	25	13	16	44	1.85
14320606--14320686	20	3.8	20	74	16	65	19	23	30	25	1.98
14326829--14326868	19	2.0	20	85	9	55	25	30	10	35	1.88
14330821--14330873	22	2.5	22	87	9	74	37	13	15	33	1.86
14342877--14342923	23	2.0	23	100	0	94	61	0	12	25	1.31
14342860--14342930	23	2.7	27	75	24	80	66	1	12	19	1.32
14344753--14344820	31	2.2	31	92	5	111	25	17	14	42	1.87
14346747--14346823	31	2.5	31	91	0	127	37	15	23	23	1.93
14349196--14349235	2	20.0	2	85	10	55	50	2	2	45	1.28
14354562--14354586	9	2.8	9	100	0	50	0	12	12	76	1.04
14357038--14357218	64	2.8	63	82	3	209	27	17	27	28	1.97
14357166--14357216	19	2.7	19	85	8	70	25	15	35	23	1.94
14357059--14357218	65	2.5	65	85	3	207	27	16	26	29	1.97
14363654--14363693	21	1.9	21	85	10	55	35	10	2	52	1.48
14365620--14365849	64	3.6	63	80	5	210	26	17	26	28	1.98
14365748--14365798	19	2.7	19	85	8	70	25	15	35	23	1.94
14365642--14365849	65	3.2	64	81	11	210	27	17	25	29	1.97
14372396--14372463	34	1.9	35	88	5	102	57	1	2	38	1.23
14373712--14373766	28	2.0	28	88	0	83	29	16	21	32	1.95
14374032--14374104	25	3.2	25	62	28	63	30	15	12	42	1.83
14374005--14374131	42	3.0	42	94	0	218	32	14	10	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14380435--14380475	8	5.2	8	82	5	57	34	0	29	36	1.58
14380556--14381033	128	3.7	128	94	0	850	20	24	21	33	1.97
14380556--14381030	255	1.9	255	95	0	860	20	24	22	33	1.97
14381436--14381505	34	2.1	34	86	0	95	38	4	1	55	1.28
14381469--14381530	28	2.2	28	82	0	70	37	3	3	56	1.32
14382043--14382154	21	5.3	20	81	11	118	21	25	33	20	1.97
14382057--14382148	42	2.2	42	94	0	157	25	22	31	20	1.98
14383660--14383724	27	2.4	27	82	5	69	58	4	0	36	1.19
14383676--14383729	17	3.2	17	78	2	56	59	3	0	37	1.15
14383872--14383930	19	3.3	19	70	18	63	59	0	0	40	0.97
14383910--14383947	15	2.5	15	83	12	51	60	0	0	39	0.97
14386782--14386870	31	2.8	31	72	16	83	41	2	5	50	1.38
14386780--14387045	71	3.9	67	76	14	244	41	5	5	47	1.49
14386864--14387044	35	5.2	34	69	15	111	43	6	4	45	1.52
14390007--14390044	17	2.2	17	95	0	67	42	5	31	21	1.75
14394375--14394414	18	2.2	18	90	0	62	42	17	15	25	1.88
14401487--14401552	20	3.2	20	82	2	78	33	16	22	27	1.96
14403586--14403656	32	2.2	33	90	5	110	22	4	2	70	1.18
14405860--14405946	32	2.8	31	79	6	95	31	5	4	58	1.42
14409696--14409721	12	2.2	12	100	0	52	76	23	0	0	0.78
14411123--14411200	2	40.0	2	94	5	142	50	0	0	50	1.00
14411183--14411489	36	8.2	37	78	16	239	46	3	4	45	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14411224--14411489	39	7.2	37	85	8	294	46	3	4	45	1.40
14419305--14419364	18	3.0	20	80	11	79	23	16	30	30	1.96
14419752--14419791	21	1.9	21	85	10	55	55	0	17	27	1.43
14424626--14424660	18	1.9	18	100	0	70	17	22	34	25	1.96
14425052--14425091	21	1.9	21	85	10	55	55	0	17	27	1.43
14425980--14426175	95	2.1	94	84	3	259	32	15	18	33	1.92
14427368--14428278	84	10.9	83	79	3	916	30	24	20	25	1.98
14427350--14428278	165	5.6	164	79	5	690	30	24	20	25	1.99
14427368--14428278	250	3.6	248	84	3	1051	30	24	20	25	1.98
14428877--14429152	37	7.3	38	79	12	264	44	4	6	44	1.48
14429131--14429233	33	3.4	31	85	11	133	43	4	5	45	1.49
14429142--14429256	32	3.6	31	75	13	110	43	3	5	47	1.42
14429139--14429255	33	3.7	31	76	17	107	44	4	5	46	1.45
14429289--14429342	3	17.7	3	84	3	72	29	5	0	64	1.16
14429766--14429824	31	1.9	31	86	6	84	55	22	11	10	1.65
14430516--14430562	16	2.9	16	100	0	94	19	4	6	70	1.26
14435260--14435524	41	6.5	41	91	1	399	15	19	24	40	1.90
14435285--14435439	20	7.6	20	64	20	70	12	21	25	40	1.89
14435607--14435676	6	12.2	6	95	4	119	32	50	17	0	1.46
14436391--14436421	6	5.2	6	100	0	62	0	16	48	35	1.46
14436541--14436611	21	3.4	21	70	18	76	36	26	21	15	1.93
14436517--14436614	41	2.4	41	98	0	187	38	25	21	14	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14436521--14436590	20	3.5	20	70	18	63	41	24	21	12	1.88
14436600--14436676	21	3.7	21	75	3	93	33	28	18	19	1.95
14437671--14437727	25	2.3	25	78	6	62	35	3	0	61	1.13
14438350--14438397	18	2.7	18	100	0	96	29	4	0	66	1.10
14441650--14441774	18	6.7	18	70	20	87	52	24	0	23	1.48
14445539--14445625	40	2.2	40	93	0	147	16	13	34	35	1.88
14448352--14448651	43	7.0	43	86	0	395	20	17	23	40	1.92
14450589--14450625	2	18.5	2	100	0	74	51	0	0	48	1.00
14452768--14452799	15	2.1	15	94	0	55	59	0	6	34	1.23
14453233--14453421	61	3.1	61	89	0	288	38	16	17	26	1.91
14453715--14453777	16	4.3	16	71	19	57	60	1	0	38	1.07
14453714--14453777	19	3.2	19	67	16	56	60	1	0	37	1.06
14453705--14453794	42	2.2	42	88	9	134	53	3	1	42	1.24
14453706--14453779	15	5.3	15	73	15	61	56	1	0	41	1.07
14453838--14453908	36	2.1	32	85	12	90	52	4	0	43	1.20
14459661--14459725	29	2.2	30	97	2	123	69	6	10	13	1.36
14462682--14462706	13	1.9	13	100	0	50	8	28	0	64	1.22
14463490--14463581	2	46.5	2	95	2	168	50	0	1	48	1.08
14466732--14466850	32	3.8	31	88	1	157	31	19	15	33	1.93
14466698--14466850	32	4.8	32	82	1	146	30	17	16	35	1.92
14468546--14468582	19	1.9	20	94	5	67	62	0	21	16	1.33
14472578--14472694	32	3.7	32	80	0	117	34	19	12	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14472991--14473113	47	2.6	47	85	0	156	31	29	22	16	1.96
14473478--14473649	85	2.0	85	88	0	254	32	20	15	31	1.93
14478288--14478325	20	1.9	20	94	0	67	28	18	13	39	1.88
14485767--14485791	12	2.1	12	100	0	50	60	24	8	8	1.52
14486426--14486474	22	2.2	22	100	0	98	28	28	8	34	1.86
14490098--14490127	14	2.1	15	93	6	53	43	6	0	50	1.28
14495383--14495754	185	2.0	187	98	1	730	29	17	16	36	1.92
14498343--14498547	103	2.0	105	98	1	396	34	12	7	45	1.69
14505114--14505155	20	2.1	20	90	0	66	35	21	9	33	1.86
14508654--14508690	14	2.6	14	95	4	65	40	18	16	24	1.90
14508995--14509100	53	2.0	53	100	0	212	30	26	16	26	1.97
14514094--14514153	26	2.3	26	97	0	111	20	0	21	58	1.40
14514430--14514463	12	2.7	13	90	9	61	47	8	5	38	1.59
14514953--14515008	20	2.7	20	94	5	94	32	21	23	23	1.98
14521361--14521400	17	2.4	17	95	0	71	60	5	10	25	1.49
14527111--14527196	29	3.0	29	68	18	72	46	12	2	38	1.55
14527073--14527344	57	4.8	57	89	1	422	48	11	2	37	1.54
14531753--14531777	9	2.8	9	100	0	50	20	0	0	80	0.72
14532165--14532230	7	9.6	7	96	1	116	40	0	59	0	0.98
14535677--14535713	15	2.5	15	95	0	65	32	29	32	5	1.80
14536474--14536543	32	2.2	32	87	5	97	41	0	31	27	1.56
14543715--14543773	29	2.0	29	93	0	100	27	13	11	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14545175--14545480	41	7.4	41	70	10	167	29	18	16	35	1.93
14545724--14545749	12	2.2	12	100	0	52	26	23	34	15	1.94
14550040--14550078	20	2.0	20	89	0	60	35	10	0	53	1.35
14553019--14553185	31	5.5	31	72	9	112	47	7	13	30	1.71
14557451--14557499	23	2.1	23	85	7	64	57	14	2	26	1.48
14566700--14566744	19	2.4	19	92	0	72	33	2	6	57	1.37
14567194--14568159	201	4.8	200	90	1	1441	36	15	15	33	1.89
14567194--14568159	401	2.4	402	90	1	1508	36	15	15	33	1.89
14568369--14568414	22	2.1	22	95	0	83	8	6	19	65	1.43
14568482--14568554	15	4.9	15	93	0	119	27	35	5	31	1.80

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