genome.fa.s9175.2.7.7.80.10.50.1000.35.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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   

This is table  35  of  51  ( 6037 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)
7119541--7119586	21	2.0	23	84	12	60	50	6	0	43	1.28
7123747--7123772	8	3.2	8	100	0	52	34	0	11	53	1.37
7124091--7124140	19	2.7	18	79	17	57	72	2	10	16	1.21
7124248--7124298	6	8.5	6	91	0	84	80	0	1	17	0.81
7132810--7132870	17	3.8	17	74	12	65	54	1	0	44	1.10
7132806--7132839	17	1.9	18	88	5	52	52	2	0	44	1.16
7132813--7132880	31	2.2	31	91	0	109	50	1	0	48	1.10
7142182--7142246	17	3.7	17	75	19	55	30	4	1	63	1.24
7143951--7144046	38	2.5	38	89	0	147	26	23	26	23	2.00
7144200--7144297	20	5.2	20	71	23	77	42	6	13	37	1.69
7144211--7144324	54	2.1	54	98	0	219	42	6	14	35	1.71
7146087--7146151	2	32.5	2	100	0	130	50	0	0	49	1.00
7146705--7146743	2	19.5	2	100	0	78	48	0	0	51	1.00
7150468--7150554	20	4.7	20	70	25	73	43	6	13	35	1.71
7150468--7150581	54	2.1	54	98	0	219	42	6	14	35	1.71
7153344--7153371	14	2.0	14	100	0	56	42	0	0	57	0.99
7158996--7159203	74	2.8	75	85	4	258	24	30	24	20	1.98
7164973--7165033	23	2.9	21	80	7	52	22	32	24	19	1.97
7166995--7167045	9	6.2	8	76	19	52	13	0	27	58	1.36
7166997--7167040	17	2.6	17	85	7	63	13	0	29	56	1.38
7167645--7167850	74	2.7	73	85	5	252	23	31	24	20	1.98
7175953--7176024	24	3.0	24	73	18	87	43	2	11	43	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7176300--7176361	22	2.9	22	88	7	83	45	1	4	48	1.33
7176296--7176640	11	30.1	11	63	20	68	49	2	4	42	1.39
7176328--7176503	29	5.9	29	69	19	78	49	1	4	44	1.33
7176301--7176424	20	5.9	22	73	14	75	45	2	4	48	1.34
7176344--7176404	21	2.9	22	78	11	65	44	3	3	49	1.35
7176595--7176690	23	4.0	24	71	16	63	44	5	4	45	1.45
7176714--7176770	2	30.0	2	73	16	50	54	1	1	42	1.21
7176328--7176825	248	2.0	244	81	13	569	50	2	5	40	1.40
7176816--7177235	2	212.0	2	65	22	122	51	3	4	40	1.39
7176679--7177168	22	23.2	21	71	20	257	54	2	5	37	1.37
7176679--7177175	43	11.3	43	72	20	252	54	2	5	37	1.37
7176920--7177119	87	2.3	88	81	9	234	57	2	5	35	1.34
7176964--7177168	65	3.2	65	80	15	228	56	1	3	37	1.29
7177180--7177216	19	1.9	19	88	0	56	37	10	0	51	1.37
7177155--7177628	32	14.5	31	66	23	121	37	8	2	51	1.44
7177153--7177622	59	7.8	58	67	22	170	37	8	2	51	1.45
7177252--7177381	23	5.6	24	71	21	75	34	7	4	53	1.50
7177318--7177636	13	23.4	14	68	23	132	38	8	1	51	1.41
7177359--7177427	28	2.5	27	81	13	79	37	5	4	52	1.46
7177389--7177603	29	7.8	30	72	20	109	38	8	0	52	1.38
7177308--7177569	8	34.5	8	68	23	110	37	8	1	52	1.41
7177306--7177603	136	2.2	138	80	11	319	37	8	1	52	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7177547--7177674	2	64.0	2	67	22	56	46	4	3	45	1.39
7177543--7177630	34	2.7	32	78	15	99	42	7	1	48	1.39
7177619--7177678	19	3.1	19	88	9	77	53	0	6	40	1.27
7177749--7177805	23	2.5	22	80	5	60	38	8	3	49	1.51
7179781--7179875	21	4.7	21	90	2	124	17	23	33	25	1.96
7189101--7189143	22	2.0	21	90	9	68	60	0	4	34	1.17
7189073--7189307	7	32.6	7	70	20	89	53	2	8	36	1.44
7189064--7189145	29	2.9	28	75	12	78	54	2	7	35	1.41
7189152--7189296	22	6.6	22	73	17	56	54	2	7	35	1.43
7189192--7189234	16	2.8	15	83	13	52	53	4	11	30	1.57
7189168--7189302	73	1.9	72	83	10	177	55	2	6	34	1.41
7189167--7189300	57	2.3	60	83	13	167	55	2	6	35	1.42
7189167--7189307	22	6.7	20	75	17	87	55	2	6	35	1.40
7189168--7189328	73	2.2	72	80	13	170	54	2	5	37	1.38
7192162--7192215	16	3.4	15	79	5	54	46	25	14	12	1.81
7192156--7192279	32	3.9	32	76	2	115	47	25	12	13	1.79
7192229--7192275	16	2.9	16	81	12	60	48	27	8	14	1.73
7192156--7192284	64	2.0	64	80	3	143	49	24	12	13	1.76
7192288--7192383	16	6.0	16	70	18	65	45	23	15	14	1.83
7192358--7192391	16	2.1	16	88	0	50	47	20	17	14	1.83
7195070--7195113	20	2.2	20	88	4	63	38	0	20	40	1.53
7206059--7206143	43	2.0	43	95	0	152	31	28	16	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7209697--7209919	120	1.8	122	90	3	362	30	12	14	42	1.83
7228093--7228197	37	2.8	37	88	0	156	40	16	14	28	1.87
7228737--7228769	2	16.5	2	93	0	57	51	0	0	48	1.00
7233529--7233579	21	2.3	20	81	15	57	78	5	11	3	1.06
7233510--7233564	27	2.0	27	86	6	76	78	7	12	1	1.04
7234196--7234250	22	2.5	22	96	0	101	38	27	10	23	1.88
7234973--7237505	106	23.9	106	92	0	4037	33	24	18	23	1.96
7238230--7238333	37	2.8	37	86	0	136	41	14	13	30	1.84
7243263--7243297	15	2.3	15	100	0	70	28	0	22	48	1.51
7248068--7248111	21	2.1	21	82	0	52	9	38	15	36	1.80
7249245--7249286	20	2.1	20	90	0	66	30	28	14	26	1.95
7249329--7249394	26	2.5	26	100	0	132	24	24	22	28	1.99
7268196--7268241	18	2.5	18	82	10	58	78	2	10	8	1.05
7268195--7268241	19	2.5	19	83	13	62	78	2	10	8	1.04
7268364--7268404	16	2.5	17	88	4	57	80	2	2	14	0.92
7268511--7268544	16	2.1	16	89	10	52	55	8	2	32	1.45
7280433--7280497	10	6.4	10	71	16	53	76	0	6	16	0.97
7280426--7280513	8	11.4	7	74	21	54	76	1	5	17	1.04
7280433--7280502	25	2.8	24	75	16	61	77	0	5	17	0.96
7280616--7280652	18	2.1	18	94	0	65	54	5	0	40	1.24
7280616--7280661	16	2.8	16	87	12	58	54	6	2	36	1.39
7281782--7281816	2	18.5	2	88	11	56	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7297303--7297342	21	1.9	21	94	0	71	30	15	7	47	1.72
7297337--7297435	33	3.0	33	94	1	164	32	7	15	45	1.73
7297421--7297475	13	4.2	13	75	13	58	34	3	12	49	1.59
7297671--7297727	21	2.7	21	91	0	96	19	26	26	28	1.99
7299374--7299586	112	1.9	113	87	5	313	35	18	13	32	1.90
7316769--7316811	13	3.4	13	84	12	54	76	9	13	0	1.01
7318894--7319061	37	4.6	37	73	7	137	30	17	11	40	1.85
7319354--7319539	67	2.7	67	90	3	282	34	17	12	34	1.88
7319373--7319571	67	3.0	67	88	3	251	32	17	12	38	1.86
7319575--7319945	137	2.7	136	86	3	521	26	27	18	26	1.98
7324977--7325030	20	2.7	20	91	2	81	38	12	20	27	1.89
7325019--7325172	20	7.7	20	86	0	164	27	25	20	25	1.99
7325019--7325172	40	3.8	40	84	0	182	27	25	20	25	1.99
7325019--7325171	60	2.5	60	89	0	207	28	26	20	25	1.99
7325340--7325391	22	2.4	21	78	9	59	26	36	15	21	1.93
7325776--7325849	19	3.8	20	75	5	71	14	14	21	48	1.80
7327732--7327784	20	2.7	20	81	0	70	37	22	18	20	1.94
7327808--7327894	20	4.4	20	86	2	115	20	19	24	35	1.96
7329854--7329892	14	2.8	14	96	0	69	35	0	17	46	1.49
7329856--7329910	29	1.9	28	81	3	65	36	0	16	47	1.47
7330110--7330294	20	9.9	20	72	13	115	25	17	21	34	1.96
7330171--7330262	34	2.7	34	89	0	139	21	15	23	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7332778--7332829	24	2.2	24	82	0	59	36	17	19	26	1.94
7333651--7333748	20	4.9	20	92	0	106	29	19	22	28	1.98
7333651--7333748	40	2.5	40	86	0	124	29	19	22	28	1.98
7333715--7333792	20	3.9	20	88	3	95	26	17	16	38	1.92
7333800--7333875	21	3.6	21	87	1	107	40	19	22	17	1.91
7338024--7338068	21	2.1	21	84	8	56	46	4	6	42	1.50
7346675--7346752	3	26.0	3	89	0	111	60	0	0	39	0.97
7347084--7347139	17	3.2	17	69	18	51	19	21	8	50	1.75
7347067--7347822	200	3.5	221	78	12	740	29	18	14	37	1.91
7347066--7347822	113	7.0	110	74	15	634	29	18	14	37	1.91

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