genome.fa.s8724.2.7.7.80.10.50.1000.16.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: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5289199

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  16  of  23  ( 2733 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)
3606991--3607037	19	2.6	18	83	12	60	65	0	14	19	1.26
3608345--3608404	30	2.0	31	83	3	77	55	10	8	26	1.61
3611221--3611655	238	1.8	238	92	1	746	26	14	19	38	1.91
3611647--3611690	22	2.0	21	91	4	70	18	20	9	52	1.72
3612587--3612740	18	8.6	18	80	0	155	25	12	24	37	1.91
3612586--3612740	6	25.8	6	82	0	139	25	12	24	37	1.91
3614100--3614420	37	9.1	37	70	18	209	31	18	9	40	1.83
3614139--3614519	103	3.7	103	90	1	570	30	18	10	39	1.85
3614583--3614712	66	2.0	65	81	4	154	31	19	6	42	1.77
3614634--3614943	36	8.5	37	65	16	101	28	18	14	38	1.90
3614862--3614948	39	2.2	39	89	0	129	29	14	17	37	1.90
3614950--3615100	52	2.9	52	85	2	203	31	10	17	40	1.83
3614945--3615189	52	4.6	52	77	10	183	31	10	17	41	1.82
3615214--3615282	30	2.2	30	82	15	86	36	5	17	40	1.74
3615223--3615282	29	2.0	31	90	6	97	35	6	16	41	1.75
3615347--3615412	19	3.5	19	85	0	78	37	9	15	37	1.79
3615519--3615560	21	2.0	21	95	0	75	23	21	28	26	1.99
3615588--3615629	21	1.9	23	85	9	61	40	33	9	16	1.81
3616774--3616821	19	2.5	20	82	3	62	52	6	12	29	1.63
3618073--3618138	30	2.2	32	86	8	93	37	6	15	40	1.72
3618208--3618260	19	2.8	19	88	0	70	41	11	11	35	1.77
3618346--3618387	21	2.0	21	95	0	75	23	21	28	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3618417--3618456	20	1.9	21	85	10	55	37	37	10	15	1.80
3619117--3619568	145	3.1	145	85	3	622	27	25	16	31	1.97
3629523--3629570	25	1.9	25	83	8	62	31	18	4	45	1.68
3632390--3632421	16	2.0	16	93	0	55	12	21	25	40	1.88
3632933--3633028	49	2.0	49	100	0	192	27	28	19	25	1.99
3634459--3634513	29	2.0	29	86	13	80	49	9	9	32	1.66
3635341--3635416	3	25.0	3	97	2	143	67	0	0	32	0.91
3638105--3638137	8	4.1	8	96	0	57	36	21	24	18	1.95
3641620--3641692	25	2.9	24	69	16	67	43	8	13	34	1.74
3641620--3641724	51	2.1	51	94	0	183	41	8	14	35	1.76
3643404--3643443	21	1.9	21	85	10	55	30	15	22	32	1.94
3644316--3644450	59	2.5	51	79	18	173	46	15	12	25	1.81
3644345--3644469	59	2.1	59	98	0	241	45	16	10	27	1.80
3647099--3647146	22	2.2	22	92	0	78	25	43	10	20	1.83
3649118--3649167	21	2.4	21	89	0	73	28	14	26	32	1.94
3649575--3649680	21	5.1	20	81	4	104	22	33	17	26	1.96
3649573--3649698	42	3.0	41	81	6	137	21	33	20	24	1.97
3651035--3651081	14	3.4	14	94	5	87	31	0	21	46	1.51
3651038--3651097	27	2.2	27	88	5	86	33	0	21	45	1.52
3651205--3651266	20	3.1	20	90	0	97	37	20	20	20	1.95
3654621--3654659	15	2.5	15	83	4	51	66	0	5	28	1.12
3654818--3654918	20	4.9	20	74	10	80	34	13	23	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3654901--3654950	21	2.4	20	83	9	64	34	10	24	32	1.88
3655388--3655477	3	28.3	3	80	10	90	66	0	32	1	0.99
3655389--3655460	7	11.0	7	91	8	109	72	0	27	0	0.85
3655388--3655460	10	7.5	10	77	19	75	71	0	28	0	0.87
3660730--3660760	2	15.5	2	100	0	62	48	0	0	51	1.00
3661366--3661488	60	2.0	60	81	6	142	36	12	17	33	1.87
3667821--3667998	90	2.0	90	89	0	275	44	6	11	37	1.68
3669461--3669675	45	4.9	45	83	5	260	29	20	9	40	1.84
3669468--3669713	89	2.8	89	79	3	255	30	22	9	37	1.86
3669603--3669791	45	4.5	43	74	15	146	29	25	10	35	1.88
3669650--3669800	79	1.9	79	90	2	241	29	25	9	35	1.88
3670181--3670233	22	2.5	20	88	11	88	26	28	15	30	1.96
3670258--3670329	19	3.5	20	81	10	83	29	25	13	31	1.94
3671988--3672026	21	1.9	20	89	5	60	38	20	12	28	1.89
3685244--3685287	21	2.1	21	95	0	79	40	20	15	22	1.90
3698888--3699066	94	1.9	95	83	5	238	39	13	20	26	1.90
3699362--3699599	45	5.3	45	86	1	343	45	12	21	21	1.84
3699361--3699599	90	2.6	90	91	2	390	45	12	20	21	1.83
3701491--3701860	55	6.7	55	90	1	546	35	10	18	35	1.86
3702235--3702278	24	1.9	24	90	9	74	34	4	9	52	1.54
3707381--3707438	22	2.8	21	75	17	59	36	12	18	32	1.88
3707787--3707874	46	1.9	46	97	0	167	44	12	13	29	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3707851--3708271	55	7.7	55	90	0	610	34	11	18	35	1.86
3708646--3708689	24	1.9	24	90	9	74	34	4	9	52	1.54
3709899--3709938	17	2.4	17	86	0	53	32	15	12	40	1.84
3710863--3711141	139	2.0	135	88	5	409	32	21	11	33	1.90
3711308--3711385	38	2.0	42	87	10	119	44	2	7	44	1.46
3711317--3711388	19	3.8	18	69	26	60	43	2	8	45	1.48
3724737--3724795	21	2.8	20	82	14	75	27	16	23	32	1.96
3724885--3724938	20	2.6	21	79	8	65	22	22	29	25	1.99
3725281--3725331	21	2.4	22	80	9	61	35	13	21	29	1.92
3732064--3732113	21	2.4	21	89	0	73	38	10	24	28	1.87
3732280--3732376	21	4.5	21	69	19	74	25	21	23	28	1.99
3733206--3733258	20	2.7	20	96	0	97	24	15	28	32	1.95
3733281--3733354	20	3.7	20	76	13	71	28	17	25	28	1.98
3733907--3733956	23	2.2	23	92	0	82	24	22	28	26	1.99
3736552--3736590	20	2.0	21	90	10	64	53	25	2	17	1.56
3748611--3748682	20	3.5	20	86	7	83	26	13	26	33	1.94
3748672--3748797	54	2.3	54	86	2	164	31	18	21	28	1.97
3751109--3751142	13	2.6	13	90	9	52	76	0	11	11	1.02
3754168--3754206	20	2.1	19	85	9	53	35	12	28	23	1.91
3754700--3754725	7	3.7	7	100	0	52	42	0	15	42	1.47
3756786--3756832	17	2.8	17	77	3	51	19	6	2	72	1.17
3756826--3756882	22	2.8	21	75	17	57	22	0	5	71	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3763571--3763623	21	2.5	22	84	3	63	26	24	24	24	2.00
3763571--3763647	23	3.5	23	75	8	79	25	24	24	24	2.00
3765195--3765238	21	2.1	21	86	0	61	9	40	15	34	1.79
3765822--3765854	2	16.5	2	100	0	66	48	0	0	51	1.00
3766319--3766525	65	3.2	65	78	14	221	31	23	18	27	1.97
3769473--3769687	114	1.9	114	91	0	349	33	14	20	31	1.93
3771873--3771942	22	3.2	22	91	0	122	31	11	15	41	1.83
3772795--3773753	76	12.6	76	94	0	1659	23	20	21	34	1.96
3773684--3773788	47	2.3	47	86	3	142	21	21	18	38	1.94
3773895--3773968	3	23.7	3	83	8	85	39	0	0	60	0.97
3776002--3776063	27	2.4	25	84	7	81	29	16	14	40	1.88
3776047--3776129	39	2.2	37	86	4	112	42	9	10	37	1.73
3776059--3776124	21	3.3	21	67	28	54	36	9	10	43	1.71
3776059--3776139	38	2.1	38	86	8	112	39	7	9	43	1.66
3776059--3776139	37	2.1	37	84	13	103	39	7	9	43	1.66
3786406--3786446	14	3.2	13	80	20	50	53	7	0	39	1.29
3787740--3787839	7	14.1	7	73	2	74	46	32	1	21	1.58
3788879--3788918	16	2.4	17	87	4	55	62	15	0	22	1.32
3791356--3791430	37	2.1	36	89	2	114	24	8	14	53	1.68
3801439--3801504	23	2.9	23	86	0	96	18	27	24	30	1.98
3805256--3805321	22	3.0	22	79	0	78	30	24	19	25	1.98
3812714--3812814	3	34.0	3	97	2	195	66	0	0	33	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3812812--3812848	6	6.5	6	87	12	60	35	0	16	48	1.46
3812813--3812857	10	4.4	10	86	11	56	33	0	17	48	1.48
3812912--3812968	15	3.4	15	70	25	51	54	12	0	33	1.38
3815960--3815986	14	1.9	14	100	0	54	59	0	3	37	1.15
3819528--3820322	45	17.7	45	92	0	1248	44	12	22	20	1.85
3819798--3819867	21	3.2	21	66	18	52	48	10	22	18	1.78
3826355--3826485	37	3.4	37	71	24	110	40	0	8	51	1.32
3826280--3826427	15	9.5	15	83	10	190	46	0	2	51	1.12
3826407--3826536	32	4.4	32	81	18	190	35	0	11	53	1.37
3826462--3826504	22	2.0	22	100	0	86	34	0	13	51	1.42

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23