genome.fa.s1711.2.7.7.80.10.50.1000.12.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: VEPZ01001711.1 Hibiscus syriacus cultivar Beakdansim tig00003454_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4148933

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  12  of  13  ( 1546 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)
3754580--3754654	38	2.0	37	84	5	98	48	4	1	46	1.29
3755084--3755127	23	2.0	23	90	4	72	25	0	13	61	1.32
3757440--3758548	279	4.0	279	98	0	2103	29	13	25	31	1.93
3758711--3758748	18	2.1	18	90	9	60	47	0	0	52	1.00
3758865--3758915	22	2.3	22	90	6	77	39	11	1	47	1.52
3761524--3761607	42	2.0	42	88	4	125	39	9	17	33	1.82
3762801--3762961	82	2.0	79	82	3	196	31	9	11	47	1.71
3763128--3763172	22	2.0	22	87	8	65	60	0	0	40	0.97
3767964--3768076	33	3.3	34	80	10	133	38	4	15	41	1.68
3768086--3768142	22	2.6	22	85	0	78	40	1	8	49	1.44
3768141--3768200	10	5.6	10	80	18	68	28	0	5	66	1.12
3768141--3768216	19	3.7	21	75	24	65	27	0	3	68	1.07
3769234--3769395	73	2.2	73	92	2	263	25	20	24	29	1.99
3769718--3769751	13	2.6	14	86	13	54	41	5	8	44	1.60
3770057--3770088	15	2.1	16	88	11	50	50	21	0	28	1.49
3772022--3772101	23	3.6	23	88	5	112	33	15	23	27	1.94
3772021--3772164	21	6.7	21	78	11	98	31	13	27	27	1.94
3777744--3777884	73	1.9	73	94	0	246	26	21	22	29	1.99
3779327--3779354	2	14.0	2	100	0	56	50	0	0	50	1.00
3781279--3781322	12	3.4	12	79	14	52	59	0	0	40	0.98
3781279--3781324	13	3.5	13	80	11	58	58	0	0	41	0.98
3782178--3782209	15	2.1	15	94	0	55	0	21	0	78	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3782252--3782338	18	4.6	19	79	13	90	0	24	4	71	1.05
3782806--3782909	3	34.7	3	94	0	181	63	0	1	34	1.06
3783232--3783770	113	4.8	113	95	0	927	28	18	14	38	1.90
3784583--3784841	83	3.1	83	97	0	482	35	23	13	28	1.92
3785973--3786009	1	37.0	1	88	0	56	0	5	0	94	0.30
3797325--3797368	12	3.4	12	79	14	52	59	0	0	40	0.98
3797325--3797370	13	3.5	13	80	11	58	58	0	0	41	0.98
3798226--3798275	5	10.2	5	76	20	52	0	22	0	78	0.76
3798226--3798272	15	3.1	15	96	0	85	0	21	0	78	0.75
3798226--3798275	9	5.2	9	79	13	55	0	22	0	78	0.76
3798334--3798396	18	3.5	17	79	16	74	0	23	4	71	1.05
3798333--3798398	20	3.4	19	75	8	53	0	24	4	71	1.05
3798835--3798870	13	2.7	13	86	4	54	41	0	2	55	1.14
3798866--3798978	3	37.7	3	94	0	190	62	0	2	34	1.09
3804268--3804308	19	2.1	20	86	4	57	39	4	17	39	1.71
3805844--3805898	20	2.8	20	91	0	92	32	18	18	30	1.95
3814313--3814436	33	3.6	34	79	10	128	39	4	13	42	1.63
3814435--3814484	22	2.3	22	82	0	64	44	2	8	46	1.44
3814495--3814559	18	3.5	17	75	24	60	23	0	4	72	1.03
3814495--3814525	9	3.4	9	100	0	62	19	0	0	80	0.71
3817060--3817099	18	2.1	18	86	13	53	42	2	2	52	1.28
3819190--3819236	20	2.3	20	96	0	85	36	0	19	44	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3820199--3820235	18	2.1	18	94	0	65	0	29	0	70	0.88
3819661--3821147	723	2.0	725	93	1	2525	26	15	13	43	1.84
3821129--3821164	17	2.1	17	94	0	63	55	8	11	25	1.62
3821345--3821397	17	3.1	17	86	0	70	30	20	20	28	1.98
3821529--3821613	40	2.1	41	84	6	111	29	18	17	34	1.94
3822460--3822487	11	2.5	11	100	0	56	10	7	0	82	0.85
3823303--3823343	21	2.0	21	90	4	66	36	9	24	29	1.87
3824568--3824721	32	4.8	32	75	4	105	33	12	20	33	1.90
3826273--3826299	2	13.5	2	100	0	54	48	0	0	51	1.00
3840204--3840234	12	2.6	12	94	0	53	77	3	0	19	0.90
3841536--3841657	41	3.0	41	90	0	199	41	15	17	25	1.88
3841752--3841786	18	1.9	18	94	0	61	42	11	8	37	1.72
3846502--3846657	64	2.4	65	82	5	174	28	18	23	29	1.98
3846546--3846689	64	2.2	64	81	6	166	29	17	22	31	1.96
3849361--3849434	21	3.4	21	69	7	67	24	21	25	28	1.99
3849333--3849452	44	2.6	46	85	11	165	25	20	26	26	1.99
3850613--3850713	45	2.2	45	87	5	141	28	20	20	29	1.98
3850683--3850731	19	2.6	19	84	9	57	24	28	20	26	1.99
3857751--3857794	21	2.1	21	82	0	52	9	43	15	31	1.79
3858490--3858519	14	2.1	14	100	0	60	26	0	33	40	1.57
3858938--3859120	65	2.8	64	81	8	212	28	24	19	26	1.99
3859076--3859117	19	2.3	19	84	8	52	21	28	21	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3864697--3864850	64	2.4	65	84	5	188	29	18	22	29	1.97
3865269--3865328	13	4.6	13	78	12	61	36	5	15	43	1.68
3865267--3865318	13	4.0	13	82	0	68	34	3	17	44	1.67
3865268--3865318	26	2.0	26	88	7	77	33	3	17	45	1.67
3865984--3866017	2	17.5	2	93	6	61	50	0	0	50	1.00
3866480--3866621	42	3.4	42	89	0	203	26	18	21	34	1.96
3869210--3869250	22	1.9	22	90	5	66	36	4	12	46	1.63
3869395--3869524	60	2.2	59	87	1	179	29	17	25	27	1.98
3869659--3869733	21	3.5	21	65	18	55	36	8	22	33	1.84
3869634--3869752	45	2.6	45	95	0	220	35	10	21	32	1.87
3872585--3872609	11	2.3	11	100	0	50	24	8	20	48	1.76
3872960--3872993	16	2.1	16	89	10	52	55	0	2	41	1.15
3877993--3878041	25	2.0	25	83	0	62	59	14	20	6	1.56
3880152--3880198	18	2.6	18	78	18	53	76	8	0	14	1.01
3880191--3880225	18	1.9	18	100	0	70	80	0	8	11	0.92
3881324--3881359	3	11.7	3	94	5	63	69	0	0	30	0.89
3881438--3881534	30	3.2	30	91	4	151	47	6	3	43	1.44
3881500--3881764	37	7.2	35	83	8	305	45	5	4	44	1.49
3881808--3881840	2	16.5	2	100	0	66	0	0	48	51	1.00
3882427--3883589	84	13.8	84	83	1	1364	24	18	24	33	1.97
3882427--3883587	168	6.9	168	88	1	1551	24	18	24	33	1.97
3884770--3884969	95	2.1	95	89	1	303	30	18	15	36	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3884708--3884969	95	2.7	94	84	4	301	30	17	16	34	1.93
3887523--3887690	16	10.9	15	73	14	94	77	2	5	14	1.06
3887519--3887678	42	4.0	40	74	11	139	76	3	6	13	1.09
3887534--3887688	9	16.6	9	70	18	86	78	2	5	14	1.04
3888917--3888952	18	2.0	18	94	0	63	75	0	2	22	0.94
3888910--3888959	24	2.1	24	92	7	84	76	0	2	22	0.89
3888913--3888964	18	2.6	20	79	17	54	73	0	1	25	0.94
3888964--3889071	41	2.7	40	77	12	114	49	3	1	45	1.30
3889032--3889130	30	3.2	30	90	7	137	50	5	1	43	1.30
3889096--3889368	37	7.5	37	77	14	273	45	6	4	44	1.48
3888976--3889317	141	2.4	142	79	12	368	46	5	2	45	1.41
3889096--3889291	107	1.9	103	87	8	288	46	5	3	44	1.44
3889199--3889354	73	2.1	73	88	5	226	42	7	4	45	1.51
3889381--3889463	2	42.0	2	95	2	150	49	0	1	49	1.08
3890088--3890136	25	2.0	25	95	0	89	42	18	10	28	1.83
3890162--3890263	31	3.4	30	76	6	82	33	11	14	40	1.83
3890348--3890424	31	2.6	29	82	8	91	38	11	10	38	1.76
3893460--3893490	16	1.9	16	100	0	62	41	6	25	25	1.79
3894064--3894138	31	2.4	31	82	4	80	37	24	6	32	1.81
3895503--3895613	55	2.0	56	92	5	190	39	9	10	39	1.74
3897486--3897563	40	2.0	40	86	0	111	42	15	11	30	1.82
3900906--3901053	73	2.1	69	92	5	242	32	20	19	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3901945--3902473	156	3.4	156	85	4	690	27	18	5	49	1.70
3906090--3906116	14	1.9	14	100	0	54	59	7	14	18	1.58
3906101--3906130	10	3.0	10	95	0	51	60	13	10	16	1.59
3906181--3906283	30	3.3	30	65	21	84	35	14	9	39	1.79
3906192--3906294	35	3.1	35	65	18	101	34	15	10	38	1.82
3906179--3906307	65	2.0	67	96	3	244	36	13	10	39	1.79
3908290--3908343	19	2.9	18	77	22	58	70	7	0	22	1.12
3908384--3908464	40	2.0	40	100	0	162	53	7	9	29	1.61
3910431--3910464	17	1.9	18	88	5	52	67	11	8	11	1.42
3910424--3910471	17	2.7	17	77	6	51	72	8	6	12	1.26

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13