genome.fa.s8488.2.7.7.80.10.50.1000.29.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  29  of  54  ( 6450 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)
7054642--7054712	22	3.3	21	81	9	81	35	4	11	49	1.58
7055370--7055506	60	2.3	60	82	12	165	38	5	23	32	1.77
7059598--7059643	13	3.5	13	82	14	58	52	2	0	45	1.13
7059593--7059645	12	4.1	13	80	19	58	50	1	0	47	1.12
7060281--7060359	20	4.0	20	77	12	81	41	21	13	22	1.89
7063572--7063642	30	2.3	31	92	2	117	39	4	23	32	1.74
7064342--7064376	11	3.2	11	87	0	52	28	20	25	25	1.99
7071112--7071157	18	2.6	18	100	0	92	63	0	32	4	1.14
7076792--7076855	18	3.6	17	79	6	56	39	6	25	29	1.80
7077432--7077551	33	3.5	33	80	11	143	40	35	10	14	1.79
7077441--7077557	38	3.2	36	84	9	159	40	35	10	13	1.79
7079376--7079400	12	2.1	12	100	0	50	0	28	0	72	0.86
7079575--7079628	24	2.2	24	90	0	81	40	20	16	22	1.91
7080413--7080464	21	2.5	21	87	3	70	38	17	23	21	1.93
7080449--7080540	20	4.6	20	73	2	76	39	21	18	20	1.93
7080754--7080829	20	3.8	20	94	0	125	39	22	22	15	1.92
7080848--7080950	19	5.4	19	96	0	188	15	15	16	52	1.75
7081020--7081090	36	2.0	36	100	0	142	56	18	5	19	1.61
7082534--7082624	42	2.2	42	84	3	123	23	15	39	21	1.91
7082962--7083034	20	3.7	20	90	0	74	34	27	16	21	1.95
7082988--7083053	20	3.3	20	95	0	114	34	25	24	15	1.94
7083047--7083123	19	4.3	18	73	18	63	49	22	14	14	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7083119--7083215	19	5.6	19	71	22	97	12	19	21	46	1.83
7083141--7083199	14	3.9	14	76	20	64	10	16	23	49	1.77
7083124--7083215	33	2.8	33	98	0	175	11	18	21	47	1.80
7083200--7083254	20	2.8	19	83	8	65	16	23	23	36	1.94
7083795--7083842	18	2.7	18	93	0	87	14	12	45	27	1.81
7085162--7085220	20	3.0	20	87	0	73	44	22	18	15	1.87
7085482--7085523	22	1.9	22	95	0	75	23	19	35	21	1.96
7085713--7085785	20	3.7	20	84	0	101	28	13	27	30	1.94
7085693--7085830	41	3.4	41	78	2	152	24	15	24	35	1.94
7085719--7085824	20	5.2	20	79	6	88	23	16	28	32	1.96
7085760--7085848	41	2.2	41	81	4	99	21	20	23	34	1.96
7085857--7085909	21	2.5	22	81	6	74	33	18	26	20	1.96
7090040--7090355	54	5.8	54	87	1	411	32	13	16	37	1.88
7090034--7090334	109	2.8	109	87	1	435	32	12	16	37	1.87
7090737--7090781	24	2.0	23	82	8	56	44	2	11	42	1.52
7096914--7097258	54	6.4	54	89	2	493	29	15	18	36	1.92
7101481--7101544	29	2.2	29	100	0	128	28	12	23	35	1.91
7102649--7102704	16	3.4	16	95	2	94	39	12	25	23	1.89
7102643--7102704	33	1.9	32	86	3	88	37	12	25	24	1.91
7102764--7102813	23	2.2	23	85	0	64	34	10	24	32	1.88
7102727--7102885	87	1.8	87	94	0	282	39	12	15	32	1.85
7102884--7103595	201	3.5	197	80	7	765	29	14	13	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7107655--7108411	200	3.8	200	93	0	1250	33	15	13	36	1.87
7111798--7111858	20	2.9	21	80	7	61	16	22	36	24	1.94
7117843--7117884	21	2.0	21	100	0	84	23	23	28	23	2.00
7117913--7117952	20	1.9	21	85	10	55	37	37	10	15	1.80
7118167--7118237	34	2.1	34	92	5	119	33	15	29	21	1.94
7121525--7122225	200	3.5	200	89	1	987	31	16	14	36	1.90
7122756--7123061	149	2.1	149	99	0	603	35	26	9	28	1.88
7124354--7124410	18	3.2	18	97	0	105	1	42	0	56	1.10
7124595--7124660	33	2.0	33	93	0	114	22	46	0	30	1.52
7124709--7124773	21	3.1	21	93	0	112	13	32	10	43	1.79
7126953--7127430	182	2.6	182	92	0	778	26	16	14	41	1.88
7130739--7130821	37	2.2	39	79	14	93	62	1	7	28	1.29
7130739--7130828	39	2.4	38	80	14	98	64	1	6	27	1.25
7131941--7131991	17	3.0	17	100	0	102	11	23	29	35	1.90
7132055--7132108	3	19.7	3	75	24	57	64	0	0	35	0.94
7132057--7132109	5	10.4	5	91	6	72	64	0	0	35	0.94
7132213--7132497	36	7.8	36	79	6	281	41	7	5	44	1.57
7132213--7132497	37	7.8	37	81	9	272	41	7	5	44	1.57
7132213--7132497	73	3.9	73	83	7	323	41	7	5	44	1.57
7132951--7133367	205	2.1	201	87	2	593	28	22	17	31	1.97
7133217--7133523	156	2.0	156	92	0	506	28	20	18	32	1.96
7140707--7140734	6	4.7	6	100	0	56	50	14	0	35	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7142537--7142608	3	23.3	3	71	20	51	68	1	1	29	1.07
7142543--7142593	21	2.4	21	87	9	68	68	0	0	31	0.90
7142537--7142593	18	3.3	17	85	9	71	70	0	0	29	0.88
7142617--7142903	38	7.6	37	84	6	282	41	9	5	44	1.59
7142653--7142902	38	6.7	36	86	4	302	40	8	5	45	1.59
7142665--7142938	36	7.5	36	81	7	243	39	9	5	45	1.60
7142956--7143002	24	1.9	25	86	4	69	40	6	6	46	1.55
7152014--7152848	200	4.2	200	87	1	1129	32	13	14	40	1.84
7156478--7156516	19	2.0	20	95	5	71	17	20	25	35	1.95
7156478--7156519	11	4.1	11	82	17	63	19	19	26	35	1.95
7156537--7156587	13	4.2	13	76	19	65	17	45	25	11	1.83
7156525--7156582	23	2.6	23	88	2	82	17	44	25	12	1.83
7163506--7163543	9	4.1	9	86	6	58	13	21	28	36	1.91
7163499--7163543	19	2.4	19	92	0	72	17	22	26	33	1.96
7163548--7163622	17	4.3	18	94	5	136	17	49	22	10	1.77
7163548--7163622	35	2.1	35	100	0	150	17	49	22	10	1.77
7163582--7163627	13	3.2	13	78	21	56	17	45	23	13	1.83
7163741--7163770	10	3.0	10	100	0	60	10	30	30	30	1.90
7168205--7168614	223	1.8	223	89	2	644	37	20	7	35	1.81
7174149--7174395	123	2.0	124	99	0	487	25	25	17	31	1.97
7178174--7178199	13	2.0	13	100	0	52	23	30	0	46	1.53
7178815--7178871	28	2.0	28	100	0	114	45	7	15	31	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7183723--7183767	20	2.2	20	88	7	65	0	6	13	80	0.91
7183730--7183774	10	4.5	10	79	20	58	0	4	8	86	0.69
7187231--7187275	15	3.0	15	83	0	63	33	11	17	37	1.85
7187411--7187514	23	4.4	24	80	9	117	20	24	25	29	1.99
7187456--7187527	24	3.1	22	76	11	65	20	23	23	31	1.98
7187411--7187514	47	2.2	47	88	6	149	20	24	25	29	1.99
7190482--7190509	2	14.0	2	100	0	56	50	0	0	50	1.00
7191496--7191529	16	2.1	16	100	0	68	32	17	11	38	1.86
7192394--7192703	154	2.0	155	98	1	604	34	3	25	36	1.74
7192833--7192884	21	2.5	20	84	9	70	28	11	26	32	1.91
7193666--7193706	15	2.7	15	84	0	55	29	7	17	46	1.74
7196592--7196633	22	2.1	19	86	13	57	40	0	0	59	0.97
7196831--7196868	6	6.7	6	87	6	53	28	0	0	71	0.87
7196831--7196868	11	3.3	12	85	10	53	28	0	0	71	0.87
7196816--7196868	16	3.2	16	77	15	54	28	0	0	71	0.86
7196900--7196988	37	2.3	39	82	3	110	37	19	0	43	1.51
7197277--7197310	16	2.2	16	89	5	52	26	23	17	32	1.97
7200465--7200580	60	1.9	61	86	8	166	50	9	6	33	1.62
7204589--7204665	21	3.5	20	70	20	57	36	27	16	19	1.93
7204615--7204688	23	3.3	23	71	21	75	31	27	18	22	1.98
7204588--7204709	44	2.8	44	89	2	183	35	26	18	20	1.95
7204638--7204710	21	3.4	21	68	20	60	35	27	15	21	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7206359--7206401	21	2.0	21	86	0	59	30	27	25	16	1.97
7207095--7207139	23	2.0	23	86	0	63	20	26	26	26	1.99
7213601--7213671	21	3.2	22	78	7	90	32	26	15	25	1.95
7213604--7213733	44	3.0	44	85	2	172	33	26	16	23	1.95
7218108--7218143	15	2.4	15	90	0	54	75	0	0	25	0.81
7218744--7218897	78	2.0	78	84	1	202	35	9	18	35	1.84
7218825--7219180	186	1.9	186	88	1	543	38	10	17	33	1.83
7221198--7221492	101	2.9	100	80	6	310	40	9	12	37	1.76
7222622--7222730	55	2.0	55	88	0	164	38	22	13	24	1.91
7224106--7224198	42	2.2	41	84	1	114	34	15	23	26	1.94

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