genome.fa.s1465.2.7.7.80.10.50.1000.36.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  36  of  55  ( 6520 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)
7179745--7180103	83	4.3	81	82	7	386	28	20	17	33	1.96
7179744--7180091	124	2.8	122	82	5	423	27	20	18	34	1.95
7183916--7184044	43	3.0	42	84	4	152	24	21	18	34	1.96
7183932--7184058	43	3.0	43	86	6	161	25	19	17	37	1.93
7186108--7186174	18	3.6	18	69	15	55	49	16	7	26	1.72
7186090--7186164	39	1.9	39	97	0	141	52	16	6	25	1.68
7186090--7186154	21	3.2	20	70	12	62	52	16	6	24	1.67
7186265--7186336	18	3.9	18	79	3	72	34	19	8	37	1.82
7186266--7186336	37	1.9	37	82	5	90	35	19	8	36	1.82
7186281--7186354	18	4.1	19	82	3	64	33	16	8	41	1.77
7189224--7189281	30	1.9	30	89	6	91	32	17	6	43	1.75
7190402--7190439	14	2.8	13	84	7	58	42	5	0	52	1.24
7190402--7190445	13	3.3	12	82	17	52	43	6	0	50	1.29
7190723--7190774	17	2.8	18	83	11	61	44	0	28	26	1.55
7190736--7190773	20	1.9	19	89	5	58	47	0	26	26	1.52
7190694--7190787	46	2.0	45	80	11	102	45	1	25	27	1.60
7192004--7192039	16	2.2	16	100	0	72	5	25	16	52	1.65
7192873--7192913	20	2.0	20	100	0	82	36	9	19	34	1.85
7198151--7198212	20	3.1	20	97	0	115	35	9	17	37	1.83
7205330--7205369	20	2.0	20	90	0	62	37	17	22	22	1.94
7216980--7217029	21	2.4	21	96	0	91	60	18	22	0	1.37
7218042--7218118	38	2.0	38	92	0	127	42	18	7	31	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7218474--7218542	24	2.9	24	66	21	63	57	5	1	34	1.31
7218529--7218579	17	2.8	17	80	11	57	68	1	0	29	1.00
7218778--7218822	20	2.2	20	92	0	72	46	26	6	20	1.75
7218986--7219049	22	2.9	22	88	0	92	23	42	12	21	1.87
7218991--7219060	22	3.3	21	84	4	70	22	38	12	25	1.90
7219368--7219419	19	2.7	19	80	14	61	17	15	21	46	1.84
7221153--7221202	21	2.4	21	80	6	57	20	12	38	30	1.88
7221359--7221400	12	3.5	12	83	6	50	23	0	7	69	1.13
7221540--7221620	21	3.9	21	80	6	101	22	34	19	23	1.96
7222985--7223018	13	2.5	14	90	4	52	29	0	17	52	1.45
7223000--7223147	64	2.3	64	91	1	235	28	1	17	52	1.53
7223208--7223290	20	4.2	20	79	0	103	36	22	21	19	1.95
7223340--7223392	20	2.7	20	100	0	106	16	15	22	45	1.85
7226034--7226067	12	2.8	12	90	0	50	14	0	29	55	1.40
7226854--7226963	40	2.8	40	76	8	109	35	15	22	26	1.94
7226866--7227044	20	8.9	20	74	7	103	31	16	24	27	1.96
7231161--7231194	17	2.0	17	94	0	59	38	11	11	38	1.79
7231608--7231662	13	4.2	13	75	13	58	49	12	3	34	1.59
7231648--7231746	33	3.0	33	94	1	164	45	15	7	32	1.73
7231741--7231780	21	1.9	21	94	0	71	47	7	15	30	1.72
7234073--7234118	12	3.6	12	81	16	56	17	19	17	45	1.85
7234072--7234111	15	2.9	14	85	14	57	20	17	15	47	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7237390--7237426	20	1.9	19	89	10	58	45	10	24	18	1.81
7246596--7246705	51	2.2	51	86	3	150	50	20	7	20	1.72
7253482--7253542	30	2.0	30	100	0	122	31	13	22	32	1.92
7258506--7258531	2	13.0	2	100	0	52	50	0	0	50	1.00
7259296--7259359	32	2.0	31	82	8	76	54	7	0	37	1.29
7260014--7260043	16	1.9	15	93	6	51	33	20	0	46	1.51
7260269--7260311	13	3.4	13	83	6	61	32	0	0	67	0.91
7263111--7263139	2	14.5	2	100	0	58	51	0	0	48	1.00
7264476--7264552	29	2.7	29	85	0	100	19	31	24	24	1.98
7265143--7265186	21	2.1	21	91	0	70	29	0	15	54	1.42
7265163--7265225	28	2.2	30	94	5	112	30	0	12	57	1.36
7265709--7265769	17	3.4	17	70	16	50	39	0	11	49	1.39
7265730--7265773	23	2.0	23	81	4	54	40	0	9	50	1.34
7270347--7270388	23	1.9	21	85	9	57	40	0	4	54	1.21
7273969--7274011	6	7.2	6	79	10	52	18	13	13	53	1.73
7273972--7273996	13	1.9	13	100	0	50	20	16	16	48	1.82
7279092--7279286	37	5.3	37	79	6	209	34	21	19	24	1.96
7279105--7279240	73	1.9	73	93	3	238	36	19	19	24	1.95
7279101--7279286	73	2.5	73	83	6	227	34	20	19	25	1.96
7279636--7280798	55	21.1	56	82	8	388	32	15	23	28	1.95
7279905--7280778	55	15.9	55	85	6	878	31	15	23	28	1.95
7279742--7280778	110	9.4	110	83	8	925	31	15	23	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7279691--7280778	165	6.6	165	82	9	954	31	15	23	28	1.95
7283354--7283387	13	2.5	14	95	4	61	23	0	2	73	0.97
7284192--7284240	14	3.9	13	76	15	50	63	16	8	12	1.51
7284192--7284232	13	3.1	13	89	3	55	63	14	7	14	1.50
7284203--7284247	23	2.0	23	86	8	65	62	17	6	13	1.52
7285225--7285252	14	2.0	14	100	0	56	57	7	7	28	1.52
7285922--7286191	137	2.0	137	100	0	540	27	21	19	31	1.98
7302658--7302709	18	2.9	18	91	0	77	21	21	30	26	1.98
7310305--7310354	16	3.1	16	97	0	91	30	10	6	54	1.58
7310617--7310646	12	2.4	13	94	5	53	40	3	0	56	1.16
7311470--7311519	16	3.1	16	97	0	91	30	10	6	54	1.58
7314677--7314726	16	3.3	15	84	15	68	80	6	14	0	0.90
7314677--7314726	15	3.4	14	83	10	64	80	6	14	0	0.90
7314668--7314733	19	3.7	18	69	18	57	77	9	10	3	1.10
7314668--7314740	26	2.8	25	71	21	60	76	8	12	2	1.10
7315351--7315401	22	2.3	22	96	0	93	35	27	11	25	1.91
7316176--7316526	64	5.5	64	91	2	519	33	25	19	21	1.97
7316176--7316526	129	2.7	129	89	2	539	33	25	19	21	1.97
7316441--7317686	106	11.9	106	90	3	1897	33	25	19	22	1.97
7317144--7317299	43	3.4	43	69	17	136	33	26	19	20	1.97
7317896--7318131	81	2.9	80	78	6	274	29	24	21	24	1.99
7317866--7318135	84	3.3	83	79	5	330	31	24	20	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7319433--7319482	16	3.1	16	97	0	91	30	10	6	54	1.58
7320599--7320637	16	2.5	16	87	4	53	33	20	7	38	1.81
7321378--7321442	2	32.5	2	100	0	130	50	0	0	49	1.00
7322281--7322307	13	2.1	13	100	0	54	40	7	7	44	1.60
7322492--7322566	36	2.1	36	94	0	132	54	2	0	42	1.14
7325039--7325078	18	2.2	18	86	0	53	62	2	0	35	1.09
7325195--7325231	20	1.9	19	89	10	58	45	10	24	18	1.81
7338365--7338712	174	2.0	174	96	3	639	26	23	20	29	1.99
7338832--7338875	20	2.2	20	84	4	63	65	0	15	18	1.27
7348225--7348271	24	2.0	24	83	8	60	57	12	2	27	1.47
7352520--7352553	18	1.9	18	88	5	52	26	29	26	17	1.98
7355642--7355667	9	2.9	9	100	0	52	0	23	7	69	1.14
7356664--7356726	31	2.0	31	100	0	126	38	6	6	49	1.54
7356671--7356737	31	2.2	31	89	5	100	43	5	5	44	1.53
7356787--7356840	26	2.1	26	85	0	72	33	7	16	42	1.76
7356913--7356963	17	2.9	17	78	16	52	33	7	7	50	1.60
7362012--7362049	18	2.1	18	90	0	58	34	7	31	26	1.85
7362332--7362441	57	1.9	57	88	0	166	36	15	27	20	1.93
7362977--7363034	26	2.2	26	100	0	116	34	0	24	41	1.55
7366832--7366857	2	13.0	2	100	0	52	50	0	0	50	1.00
7367550--7367740	41	4.6	41	94	0	292	23	18	26	31	1.98
7367629--7367843	103	2.1	102	90	1	288	22	20	28	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7367670--7367802	62	2.1	62	91	0	212	23	19	29	27	1.98
7367589--7367854	144	1.8	144	94	0	469	22	20	26	29	1.99
7367732--7367860	41	3.1	41	94	1	222	20	23	26	29	1.99
7367794--7367860	21	3.2	21	66	17	59	19	23	23	32	1.97
7368650--7368825	41	4.2	42	88	3	275	32	25	21	21	1.97
7368696--7368765	20	3.5	20	72	18	72	34	22	24	18	1.96
7368675--7368745	21	3.4	21	70	18	67	30	29	22	16	1.96
7370075--7370103	2	14.5	2	100	0	58	48	0	0	51	1.00
7371036--7371069	17	2.0	18	88	11	54	38	0	23	38	1.55
7373505--7373541	3	12.3	3	100	0	74	32	0	0	67	0.91

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