genome.fa.s7984.2.7.7.80.10.50.1000.58.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   

This is table  58  of  65  ( 7696 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)
11468040--11468168	42	3.1	42	79	2	161	28	17	20	33	1.95
11468705--11469144	218	2.0	217	96	0	817	35	15	17	31	1.91
11469055--11469178	41	3.0	42	79	2	169	29	20	19	31	1.97
11469043--11469196	83	1.9	83	91	0	254	27	20	20	31	1.97
11469064--11469192	42	3.1	42	79	2	161	28	17	20	33	1.95
11469729--11470168	218	2.0	217	96	0	817	35	15	17	31	1.92
11470076--11470205	42	3.1	42	78	2	172	26	20	22	30	1.98
11470067--11470220	83	1.9	83	92	0	263	27	20	20	31	1.97
11476162--11476271	36	3.2	35	80	5	125	44	16	26	12	1.83
11490313--11490359	2	23.5	2	100	0	94	0	48	0	51	1.00
11490578--11490695	60	2.0	60	86	3	166	32	17	7	42	1.78
11491267--11491319	21	2.6	20	80	13	63	39	3	0	56	1.17
11491267--11491319	22	2.6	21	82	11	65	39	3	0	56	1.17
11491644--11491831	61	3.1	61	62	13	143	30	16	8	44	1.77
11491580--11491882	122	2.5	122	92	2	497	32	14	7	45	1.73
11491669--11491860	61	3.1	61	63	14	160	29	17	9	43	1.80
11494621--11494669	24	2.0	25	92	4	82	53	0	8	38	1.31
11494874--11495606	364	2.0	364	98	0	1430	34	6	13	44	1.71
11499658--11499698	21	1.9	21	90	5	64	7	19	51	21	1.71
11499694--11499740	19	2.5	19	83	16	71	29	31	27	10	1.90
11499694--11499763	9	7.3	9	80	12	68	30	27	27	15	1.96
11506933--11506998	22	3.0	21	93	2	105	12	22	46	18	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11507004--11507149	19	8.1	19	72	20	98	30	28	23	17	1.97
11507027--11507148	29	4.2	28	80	13	115	31	27	23	16	1.96
11507008--11507122	48	2.4	48	91	1	178	30	29	24	15	1.96
11508706--11508831	43	2.9	43	79	2	119	25	19	22	32	1.97
11508900--11509012	44	2.6	43	77	4	118	30	16	20	32	1.95
11509333--11509469	21	6.5	21	86	0	157	2	34	19	43	1.66
11509437--11509483	21	2.2	22	81	11	62	2	38	14	44	1.58
11517841--11517924	41	2.1	40	82	6	98	32	25	13	29	1.93
11519355--11519403	22	2.2	22	81	0	62	28	14	10	46	1.77
11519821--11520054	83	2.8	83	83	5	260	30	24	15	29	1.96
11521152--11521198	24	2.0	24	95	0	85	70	0	2	27	0.99
11521153--11521198	15	3.1	15	79	17	51	69	0	2	28	1.00
11522525--11522603	3	26.0	3	97	2	149	32	0	0	67	0.91
11523611--11523654	21	2.0	22	91	4	72	25	34	25	15	1.95
11524365--11524463	21	5.0	21	80	10	120	23	28	23	25	2.00
11524365--11524463	39	2.5	39	82	9	105	23	28	23	25	2.00
11524946--11525001	2	28.0	2	100	0	112	50	0	0	50	1.00
11526051--11526120	19	3.9	19	68	24	62	17	28	32	21	1.96
11527072--11527213	31	4.6	31	92	0	230	20	18	21	40	1.92
11527707--11527749	21	2.0	21	86	8	61	32	2	13	51	1.54
11529317--11529342	2	13.0	2	100	0	52	50	0	0	50	1.00
11530265--11530334	19	3.9	19	71	17	69	17	27	32	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11531283--11531361	31	2.5	31	93	0	131	18	18	21	40	1.92
11531285--11531376	31	3.0	31	90	0	103	21	18	21	38	1.94
11531857--11531899	21	2.0	21	82	8	52	32	4	13	48	1.63
11539693--11539745	21	2.5	21	93	0	97	22	32	26	18	1.97
11540808--11540858	21	2.4	21	96	0	93	23	27	27	21	1.99
11544973--11545016	22	2.0	22	95	0	79	50	13	11	25	1.75
11544974--11545024	22	2.3	22	89	0	75	49	15	13	21	1.79
11545827--11545861	18	1.9	18	88	0	52	25	34	14	25	1.94
11545826--11545903	21	3.9	21	73	6	72	25	26	16	30	1.97
11546408--11546435	2	14.0	2	100	0	56	50	50	0	0	1.00
11546793--11546852	20	2.9	22	83	14	83	20	33	28	18	1.96
11547320--11547350	14	2.2	14	94	0	53	61	0	38	0	0.96
11547960--11547984	5	5.0	5	100	0	50	60	0	0	40	0.97
11548211--11548236	3	8.7	3	100	0	52	34	0	0	65	0.93
11552687--11552737	20	2.5	21	84	9	70	29	25	27	17	1.98
11557864--11557909	5	9.2	5	97	0	83	0	41	36	21	1.54
11557911--11558078	6	28.0	6	100	0	336	0	16	50	33	1.46
11558355--11558409	22	2.5	22	75	0	56	29	9	23	38	1.85
11559693--11559725	14	2.4	14	100	0	66	36	21	15	27	1.93
11560234--11560321	19	4.6	19	83	8	90	36	20	12	30	1.90
11561214--11561291	24	3.2	24	90	0	129	21	19	19	39	1.92
11564010--11564056	18	2.6	18	79	0	58	36	6	8	48	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11564002--11564054	24	2.2	24	89	0	79	33	5	13	47	1.66
11564011--11564062	24	2.2	24	82	0	59	34	9	9	46	1.69
11564079--11564121	20	2.2	20	86	0	59	46	23	13	16	1.83
11564224--11564363	66	2.2	65	86	7	191	51	17	1	30	1.54
11565740--11565835	21	4.6	21	75	8	88	23	17	35	22	1.95
11565747--11565835	42	2.1	42	85	0	115	23	16	37	22	1.94
11565979--11566028	4	12.5	4	82	0	64	68	4	2	26	1.18
11568312--11568362	22	2.3	22	93	0	84	23	13	39	23	1.91
11569849--11569912	31	2.1	31	85	11	87	39	14	23	23	1.91
11571071--11571116	22	2.0	23	91	4	76	47	10	2	39	1.51
11571738--11571777	19	2.1	19	90	0	62	32	7	25	35	1.84
11572371--11572402	15	2.1	15	100	0	64	50	0	18	31	1.48
11572698--11572738	21	2.0	21	95	0	73	26	19	19	34	1.96
11574399--11574458	23	2.6	23	94	0	102	16	26	28	28	1.97
11577476--11577507	12	2.7	12	95	0	55	40	6	25	28	1.79
11579375--11579431	23	2.5	23	88	0	87	17	24	26	31	1.97
11582977--11583017	21	2.0	21	95	0	73	26	19	19	34	1.96
11590427--11590511	30	2.9	30	77	10	88	44	4	14	36	1.66
11590427--11590498	29	2.4	29	79	9	83	45	5	16	31	1.70
11594262--11594382	29	4.1	30	86	8	169	23	19	12	44	1.84
11596439--11596715	20	13.8	20	83	3	106	24	21	18	35	1.95
11596478--11596727	20	12.5	20	87	4	149	26	20	18	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11596439--11596726	40	7.2	40	84	4	314	25	21	18	35	1.96
11596439--11596716	101	2.8	100	85	3	335	24	21	18	35	1.95
11596532--11596767	101	2.3	101	81	7	239	24	20	17	36	1.94
11597587--11597640	24	2.2	24	93	0	90	20	18	20	40	1.91
11600121--11600164	20	2.2	20	88	4	63	36	20	22	20	1.95
11600148--11600241	33	2.8	33	91	0	152	45	18	23	12	1.83
11600128--11600239	19	6.4	19	64	20	55	44	18	23	13	1.85
11600251--11600281	14	2.3	13	94	5	53	6	12	25	54	1.62
11600270--11600316	19	2.5	19	92	0	76	12	19	21	46	1.82
11600281--11600325	19	2.4	19	84	0	54	15	17	17	48	1.81
11600423--11600459	14	2.6	14	82	0	56	45	18	2	32	1.64
11601829--11601904	21	3.6	21	66	7	55	22	23	30	23	1.99
11601809--11601929	42	2.9	41	80	7	118	23	19	34	23	1.96
11602352--11602440	19	4.6	19	88	2	142	47	21	22	8	1.78
11602352--11602440	39	2.3	38	96	1	160	47	21	22	8	1.78
11602447--11602541	38	2.4	39	82	5	120	8	17	21	52	1.71
11602447--11602547	19	5.2	19	83	3	103	8	18	19	52	1.72
11602642--11602943	94	3.2	93	92	0	505	48	18	11	21	1.80
11602853--11603005	78	1.9	79	92	5	254	43	18	13	24	1.86
11604692--11604771	20	4.1	19	84	6	106	45	18	23	12	1.84
11604761--11604800	19	2.1	19	85	0	53	10	20	25	45	1.81
11604767--11604839	19	3.8	19	83	3	83	9	19	19	52	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11604930--11605231	94	3.2	93	93	0	505	48	18	11	20	1.79
11605141--11605293	78	1.9	79	92	5	254	43	18	13	24	1.86
11606987--11607082	20	5.2	20	72	21	91	45	18	23	11	1.82
11607034--11607089	14	3.6	14	74	21	58	42	23	25	8	1.82
11606985--11607106	33	3.5	33	87	7	163	45	19	23	10	1.81
11607118--11607195	20	3.8	20	78	9	86	10	17	20	51	1.74
11607747--11607941	20	9.6	20	87	4	293	20	20	19	40	1.92
11607747--11607941	61	3.2	60	91	3	293	20	20	19	40	1.92
11607747--11607941	81	2.4	81	92	1	311	20	20	19	40	1.92
11607747--11607941	101	1.9	101	95	0	354	20	20	19	40	1.92

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