genome.fa.s9634.2.7.7.80.10.50.1000.62.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: 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  62  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)
12402359--12402543	31	5.8	30	70	21	110	41	4	4	49	1.42
12402532--12402614	43	2.0	40	88	9	121	49	1	3	45	1.27
12402358--12402598	131	1.8	131	82	11	307	44	3	4	47	1.40
12402882--12402963	13	5.8	15	67	17	50	52	0	0	47	1.00
12403233--12403257	8	3.1	8	100	0	50	0	40	12	48	1.40
12406298--12406335	13	2.8	13	82	17	51	60	0	2	36	1.11
12406314--12406383	18	3.8	18	80	10	70	58	1	5	34	1.31
12407179--12407211	14	2.4	14	90	5	50	3	21	3	72	1.11
12407179--12407223	13	3.4	14	85	11	51	4	17	6	71	1.25
12409931--12409969	20	1.9	21	89	5	62	87	2	2	7	0.73
12411131--12411173	15	2.7	16	82	7	52	60	0	27	11	1.31
12412468--12412508	21	2.0	21	90	0	64	36	9	14	39	1.79
12412592--12412922	165	2.0	165	100	0	662	40	12	22	25	1.88
12413138--12413403	81	3.3	81	86	1	354	36	10	21	31	1.88
12413730--12413787	26	2.3	26	79	11	66	34	1	12	51	1.49
12419987--12420557	81	7.1	81	90	0	856	35	12	21	30	1.91
12421784--12421828	18	2.6	18	82	10	58	35	11	11	42	1.76
12432472--12432496	13	1.9	13	100	0	50	68	8	0	24	1.16
12433222--12433246	13	1.9	13	100	0	50	56	12	16	16	1.68
12434214--12434349	51	2.7	50	81	12	140	33	13	1	51	1.50
12435778--12435817	18	2.2	18	86	8	55	72	2	17	7	1.19
12438916--12439144	84	2.7	84	80	2	253	38	17	16	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12444389--12444441	24	2.2	24	86	6	72	43	16	3	35	1.67
12444651--12444883	105	2.2	105	90	1	369	43	14	11	31	1.80
12447224--12447340	44	2.7	44	80	0	144	31	15	16	36	1.90
12464926--12464956	9	3.6	9	95	4	55	45	0	32	22	1.53
12467300--12467330	9	3.4	9	95	0	53	9	19	9	61	1.54
12470652--12470676	13	1.9	13	100	0	50	16	8	24	52	1.70
12472019--12472064	14	3.2	14	80	17	58	67	4	4	23	1.27
12472927--12472971	22	2.0	22	100	0	90	33	8	13	44	1.75
12474292--12474710	117	3.7	116	80	10	512	23	21	16	38	1.93
12475726--12475790	8	7.9	8	81	13	69	3	13	0	83	0.77
12475718--12475790	18	4.1	17	81	11	83	2	15	0	82	0.79
12475717--12475790	25	2.9	25	82	11	80	2	16	0	81	0.81
12475733--12475807	25	2.9	25	77	15	73	2	13	1	82	0.84
12487148--12487193	14	3.2	14	80	17	58	67	4	4	23	1.27
12496578--12496808	104	2.2	103	90	3	365	41	12	13	31	1.83
12498492--12498580	6	14.8	6	84	0	97	17	0	43	38	1.50
12498647--12498698	3	17.3	3	79	0	59	25	0	38	36	1.56
12498647--12498698	15	3.5	15	89	0	68	25	0	38	36	1.56
12498771--12498897	3	42.3	3	77	0	56	14	1	49	34	1.53
12498771--12499143	6	62.2	6	85	0	242	18	1	45	34	1.60
12498896--12499163	3	89.3	3	80	4	137	21	1	41	34	1.64
12499180--12499429	127	2.0	126	88	2	367	24	22	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12501283--12501344	28	2.2	28	97	0	115	22	16	20	40	1.91
12501749--12501800	2	26.0	2	80	0	59	42	1	7	48	1.43
12518939--12518981	21	2.1	21	91	4	70	20	23	2	53	1.57
12524574--12524621	24	2.0	24	87	0	69	37	4	18	39	1.70
12528108--12528132	13	1.9	13	100	0	50	80	8	0	12	0.92
12535639--12535726	40	2.3	39	96	4	160	21	22	4	51	1.66
12541442--12541642	106	1.9	105	83	10	257	35	23	10	30	1.89
12541902--12541970	30	2.2	30	82	15	86	36	4	17	42	1.69
12541911--12541970	29	2.0	30	90	6	95	35	5	16	43	1.70
12542050--12542127	21	3.7	21	83	6	95	25	33	17	23	1.96
12542324--12542363	20	1.9	22	90	10	66	37	40	10	12	1.77
12542578--12542646	34	2.1	31	86	7	93	30	15	30	23	1.96
12544657--12544696	21	1.9	21	84	0	53	30	12	10	47	1.74
12544798--12544866	29	2.2	30	82	15	86	36	5	17	40	1.74
12544807--12544866	29	2.0	30	90	6	95	35	6	16	41	1.75
12544946--12545044	21	4.8	20	84	10	128	22	36	20	21	1.95
12544977--12545044	13	4.9	14	73	18	54	22	35	20	22	1.96
12545068--12545119	20	2.6	20	100	0	104	17	30	19	32	1.95
12545104--12545174	21	3.4	21	94	0	124	23	21	26	28	1.99
12545855--12546102	132	1.9	132	82	1	318	35	20	14	28	1.93
12547539--12547586	21	2.3	20	79	10	60	22	27	16	33	1.96
12547578--12547655	20	3.8	20	84	3	102	39	17	20	21	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12548207--12548257	20	2.5	20	90	0	75	50	21	13	13	1.76
12548229--12548321	33	2.8	33	86	1	114	46	24	18	10	1.81
12548364--12548410	20	2.3	21	85	10	71	10	25	14	48	1.76
12550101--12550480	94	4.1	94	94	1	647	21	12	18	47	1.82
12550571--12550628	19	3.3	19	68	22	63	48	22	18	10	1.78
12550624--12550701	33	2.4	33	88	0	120	11	25	20	42	1.86
12551198--12551251	24	2.2	24	93	0	90	40	20	18	20	1.91
12552114--12552178	20	3.2	20	93	4	105	30	20	23	26	1.98
12554803--12554864	25	2.5	26	84	7	83	19	20	29	30	1.97
12557862--12557933	2	36.0	2	100	0	144	50	0	0	50	1.00
12558102--12558138	18	2.1	17	90	5	56	10	5	13	70	1.32
12564428--12564635	44	4.7	44	85	8	264	27	25	16	30	1.97
12564597--12564736	43	3.2	44	80	10	135	32	22	16	28	1.96
12566399--12566442	20	2.2	20	100	0	88	20	22	18	38	1.93
12568512--12568558	23	2.0	23	100	0	94	17	29	21	31	1.96
12570319--12570360	19	2.2	20	86	4	59	52	0	9	38	1.34
12583367--12583426	18	3.3	18	92	0	93	30	23	8	38	1.84
12589691--12589776	8	11.4	8	76	17	51	69	1	13	15	1.25
12589691--12589796	15	7.1	15	76	11	101	70	0	15	13	1.21
12589688--12589780	22	4.2	21	75	16	82	67	1	15	16	1.29
12590148--12590193	3	15.3	3	88	0	65	39	2	0	58	1.10
12591683--12591713	10	3.1	10	100	0	62	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12599654--12599742	45	1.9	45	84	8	117	29	23	7	39	1.83
12599672--12599842	92	1.9	92	82	6	222	25	23	6	44	1.77
12599711--12599856	46	3.2	47	83	5	192	25	22	6	45	1.75
12600095--12600684	55	10.7	55	90	1	833	27	19	18	34	1.95
12600095--12600684	111	5.3	111	88	2	839	27	19	18	34	1.95
12604772--12604913	46	3.1	45	83	6	178	24	21	7	46	1.76
12605152--12605686	56	9.7	55	85	3	646	28	19	17	34	1.94
12605152--12605686	111	4.8	111	86	2	677	28	19	17	34	1.94
12605152--12605686	166	3.2	166	87	3	720	28	19	17	34	1.94
12607023--12607187	2	84.0	2	66	18	71	44	4	3	47	1.37
12607022--12607168	11	13.4	11	70	14	81	44	4	2	48	1.35
12607037--12607162	18	6.4	18	71	21	83	46	4	3	46	1.40
12607014--12607101	13	7.2	13	74	14	64	42	2	5	50	1.38
12607526--12607572	24	2.0	24	100	0	94	38	25	12	23	1.90
12607836--12607979	44	3.2	44	89	1	198	28	22	25	23	1.99
12614671--12614751	39	2.1	39	88	0	117	33	18	28	19	1.96
12614707--12614853	44	3.3	44	82	4	161	30	19	25	24	1.98
12616327--12616368	22	1.9	22	95	0	75	45	2	7	45	1.44
12616329--12616382	22	2.5	22	85	5	67	48	3	5	42	1.44
12616525--12616554	3	10.0	3	100	0	60	33	0	0	66	0.92
12616661--12616712	13	3.8	14	75	12	54	53	0	7	38	1.30
12616723--12616840	17	5.5	22	75	19	74	50	1	9	38	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
12616644--12617441	47	17.6	45	66	23	196	50	2	8	38	1.47
12616748--12617469	19	38.2	19	65	22	117	49	2	8	38	1.47
12617012--12617383	22	17.0	22	65	21	103	50	2	8	38	1.45
12616880--12617256	79	4.5	82	70	17	228	49	2	8	38	1.48
12617114--12617183	9	7.3	9	76	17	70	50	0	11	38	1.39
12616552--12617287	366	2.0	369	88	5	1096	50	2	8	38	1.48
12617289--12617334	14	3.1	15	79	14	51	56	2	6	34	1.37
12617254--12617382	68	2.0	64	80	14	147	52	2	6	37	1.41
12617445--12617932	14	33.7	15	68	23	184	38	7	1	51	1.41
12617464--12617767	8	40.9	8	69	24	108	37	9	1	51	1.43

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