genome.fa.s8527.2.7.7.80.10.50.1000.29.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  29  of  37  ( 4336 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)
7131118--7131152	18	1.9	18	88	11	54	88	2	8	0	0.61
7131282--7131307	6	4.3	6	100	0	52	34	50	15	0	1.45
7139544--7139622	29	2.7	28	90	3	113	31	25	11	31	1.91
7143329--7143415	35	2.5	34	78	12	88	55	10	6	27	1.59
7148075--7148104	15	1.9	16	93	6	53	26	50	0	23	1.50
7158144--7158168	10	2.5	10	100	0	50	0	8	0	92	0.40
7162498--7162540	20	2.2	20	86	0	59	34	20	13	30	1.92
7163581--7163671	3	30.3	3	100	0	182	0	32	0	67	0.91
7167771--7167824	24	2.2	24	86	3	72	27	11	18	42	1.84
7177125--7177166	2	21.0	2	100	0	84	50	0	0	50	1.00
7181877--7181917	19	2.2	19	86	0	55	46	9	19	24	1.80
7183398--7183445	2	24.0	2	100	0	96	50	0	50	0	1.00
7185053--7185092	7	5.7	7	93	0	62	20	52	0	27	1.46
7189491--7189603	20	5.6	20	82	3	136	40	17	23	17	1.91
7189589--7189720	41	3.2	41	78	2	122	35	24	16	23	1.95
7189592--7189706	20	5.7	20	82	2	113	32	25	18	24	1.97
7189894--7189937	22	2.0	22	100	0	88	22	45	13	18	1.84
7190171--7190244	20	3.8	20	78	8	80	13	17	22	45	1.83
7191564--7191608	18	2.5	18	88	0	72	26	44	15	13	1.83
7192090--7192156	20	3.4	20	81	2	73	38	23	22	14	1.92
7192159--7192208	18	2.7	19	90	6	84	48	18	18	16	1.82
7192129--7192210	19	4.6	19	76	17	104	46	19	19	14	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7192217--7192339	20	6.7	19	75	10	87	13	20	24	41	1.88
7194191--7194226	14	2.6	14	90	0	54	30	0	22	47	1.52
7194343--7194405	19	3.6	17	89	10	69	49	17	20	12	1.79
7194343--7194391	19	2.6	19	100	0	98	48	16	20	14	1.80
7195441--7195487	24	2.0	24	91	0	76	25	19	21	34	1.96
7197974--7198100	33	3.8	33	85	4	184	43	20	21	14	1.88
7197975--7198107	66	2.0	66	94	0	230	42	20	21	16	1.90
7198100--7198142	20	2.2	20	87	4	61	16	18	23	41	1.89
7198128--7198161	14	2.4	14	85	0	50	8	23	20	47	1.78
7198283--7198319	14	2.6	14	91	0	65	45	24	0	29	1.53
7199677--7199743	21	3.2	21	68	4	55	19	20	35	23	1.95
7199677--7199799	42	2.9	41	80	7	113	22	17	36	22	1.95
7201826--7201924	33	3.0	33	89	1	144	39	26	23	11	1.88
7201801--7201966	19	9.1	19	74	16	118	43	21	21	12	1.85
7201962--7202028	19	3.5	19	83	2	89	8	16	23	50	1.73
7202544--7202596	20	2.7	20	93	0	88	26	20	28	24	1.99
7202565--7202659	41	2.3	41	80	3	102	21	20	23	35	1.96
7212962--7213003	17	2.5	17	80	7	50	69	0	2	28	1.01
7217408--7217435	6	4.7	6	100	0	56	46	0	53	0	1.00
7220283--7220317	15	2.3	15	90	0	52	11	34	17	37	1.85
7221007--7222609	804	2.0	800	99	0	3143	27	23	20	28	1.99
7235738--7235800	31	2.0	31	93	0	108	34	17	19	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7238141--7238202	31	2.0	31	96	0	115	25	14	29	30	1.95
7261594--7261652	29	2.0	29	90	6	93	54	11	6	27	1.62
7267960--7268464	139	3.6	139	90	0	778	22	21	23	33	1.97
7268605--7268649	22	2.0	23	91	4	74	46	0	15	37	1.46
7268602--7268726	63	2.0	63	87	3	180	40	0	20	38	1.58
7268795--7268825	14	2.2	14	100	0	62	25	0	16	58	1.38
7268933--7269005	34	2.1	34	89	0	110	36	6	5	50	1.52
7271577--7271721	60	2.4	61	80	5	170	18	35	26	19	1.95
7272234--7272391	21	7.8	20	70	7	77	37	25	17	18	1.93
7272359--7272552	20	9.6	20	84	5	221	35	26	19	18	1.95
7272359--7272552	60	3.2	60	83	5	248	35	26	19	18	1.95
7272931--7273001	33	2.2	33	94	0	124	11	23	16	47	1.79
7273075--7273183	21	5.7	20	73	17	88	46	19	21	12	1.82
7273087--7273194	19	5.7	19	71	15	82	48	20	19	12	1.80
7273212--7273268	14	3.7	14	75	20	60	8	24	22	43	1.81
7273195--7273317	33	3.5	33	88	10	165	10	23	18	47	1.80
7273253--7273317	21	3.1	21	86	4	105	10	24	15	49	1.76
7275002--7275317	93	3.4	93	99	0	614	22	13	18	45	1.85
7275415--7275538	33	3.7	33	89	1	176	45	27	18	8	1.79
7275464--7275522	14	3.9	14	76	20	64	47	28	16	6	1.72
7275480--7275538	19	3.4	19	77	22	83	47	30	15	6	1.71
7275534--7275706	19	9.6	19	74	15	152	11	20	22	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7275556--7275612	14	3.7	14	75	20	51	10	22	22	43	1.84
7275539--7275631	33	2.8	33	95	0	168	10	21	21	46	1.81
7277559--7277594	14	2.6	14	95	0	63	33	0	22	44	1.53
7277685--7277772	19	4.8	19	82	14	123	48	15	21	13	1.80
7277685--7277791	53	2.0	53	96	1	198	46	16	23	13	1.82
7277825--7277879	14	3.6	14	73	21	56	10	23	20	45	1.82
7277839--7278004	53	3.2	53	96	0	298	13	21	18	46	1.82
7277787--7278018	86	2.7	90	90	7	358	12	22	18	46	1.83
7277805--7278018	33	6.2	33	77	13	227	12	22	18	46	1.83
7277839--7278037	53	3.8	53	87	5	196	13	21	19	46	1.83
7280500--7280546	24	2.0	24	87	8	69	38	21	14	25	1.92
7281239--7281467	20	11.4	20	85	1	235	19	17	25	37	1.94
7281435--7281532	21	4.8	20	75	10	81	21	19	20	38	1.93
7281435--7281533	42	2.4	43	77	11	100	21	19	21	38	1.94
7281957--7282061	3	33.0	3	76	11	93	2	35	0	61	1.11
7281973--7282026	23	2.3	23	96	0	99	3	40	0	55	1.17
7284893--7284917	7	3.6	7	100	0	50	52	0	0	48	1.00
7286185--7286246	2	34.5	2	76	20	57	45	0	0	54	0.99
7286185--7286273	16	5.4	17	70	16	71	42	0	0	57	0.98
7286199--7286282	33	2.5	34	96	1	152	41	0	0	58	0.98
7286915--7286960	23	2.0	23	95	0	83	41	13	13	32	1.82
7287035--7287077	21	2.0	23	82	17	56	55	9	2	32	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7287432--7287504	26	2.9	25	82	8	76	47	8	0	43	1.33
7287476--7287543	30	2.2	31	87	7	95	51	4	0	44	1.21
7287650--7287692	16	2.6	18	78	17	56	67	0	2	30	1.03
7287650--7287691	11	3.8	11	84	9	59	69	0	2	28	1.01
7291168--7291214	15	3.1	15	100	0	94	19	27	21	31	1.97
7291709--7291840	40	3.3	40	84	5	142	42	25	13	18	1.87
7291732--7291836	20	5.2	20	87	1	138	43	25	11	19	1.84
7292325--7292375	20	2.5	20	93	0	93	49	23	17	9	1.77
7292382--7292427	14	3.3	14	82	8	58	6	15	23	54	1.64
7292414--7292453	20	2.0	20	85	0	53	15	12	22	50	1.77
7294592--7294689	21	4.7	21	71	12	85	23	33	20	22	1.97
7294592--7294688	41	2.3	41	79	8	106	23	34	19	22	1.97
7296597--7296632	18	2.0	18	88	0	54	19	2	22	55	1.56
7299689--7299726	16	2.5	15	84	12	51	65	0	5	28	1.14
7299883--7299955	19	3.7	20	85	5	85	28	12	23	35	1.91
7299943--7300049	20	5.3	20	80	0	133	18	14	24	42	1.88
7299922--7300049	40	3.2	40	89	3	195	19	15	24	40	1.90
7299922--7300075	40	3.8	40	86	5	188	21	14	23	40	1.90
7299884--7300109	80	2.8	79	76	6	199	24	14	23	37	1.92
7301458--7301532	2	37.5	2	100	0	150	50	0	0	49	1.00
7303962--7304034	24	3.0	24	84	4	58	10	13	24	50	1.74
7303972--7304028	14	4.4	14	76	17	59	8	12	24	54	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7303973--7304047	24	3.1	24	88	3	89	12	10	21	56	1.66
7305112--7305154	16	2.7	16	96	0	77	9	11	20	58	1.61
7308041--7308081	20	2.0	21	85	4	57	48	4	4	41	1.46
7308593--7308625	4	8.2	4	100	0	66	75	0	24	0	0.80
7318407--7318431	13	1.9	13	100	0	50	24	16	16	44	1.86
7321775--7321843	23	3.0	23	76	4	75	33	14	10	42	1.79
7322079--7322127	12	3.8	12	75	19	53	48	16	16	18	1.81
7322063--7322128	28	2.4	28	97	0	123	50	16	15	18	1.79
7322063--7322115	16	3.6	16	73	19	60	52	15	15	16	1.74
7322546--7322609	32	2.0	32	93	0	110	42	4	14	39	1.66

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