genome.fa.s8523.2.7.7.80.10.50.1000.15.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: VEPZ01008523.1 Hibiscus syriacus cultivar Beakdansim tig00111392_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4657139

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

This is table  15  of  18  ( 2060 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)
3712102--3712132	7	4.4	7	91	0	53	25	25	29	19	1.99
3712122--3712181	17	3.4	17	80	8	75	13	23	45	18	1.84
3712129--3712178	19	2.5	19	90	9	73	8	22	50	20	1.74
3712152--3712179	14	2.0	14	100	0	56	7	21	50	21	1.72
3712175--3712253	19	4.2	18	82	7	77	27	29	25	17	1.98
3712175--3712253	9	8.3	9	77	10	77	27	29	25	17	1.98
3712175--3712233	28	2.1	28	96	0	109	25	32	27	15	1.95
3713141--3713189	3	16.7	3	82	4	64	63	0	4	32	1.13
3713141--3713198	15	3.9	15	77	8	50	62	0	5	32	1.18
3725437--3725488	27	1.9	27	92	0	86	34	26	15	23	1.94
3733602--3733639	12	3.2	12	92	0	58	2	36	28	31	1.71
3735325--3735362	20	1.9	20	88	0	58	13	26	34	26	1.93
3739171--3739210	21	1.9	21	85	10	55	35	10	2	52	1.48
3743423--3743465	20	2.2	20	86	0	59	30	11	20	37	1.89
3743698--3743749	27	1.9	27	96	0	95	34	26	15	23	1.94
3749816--3749849	14	2.4	14	95	0	59	47	0	32	20	1.51
3754013--3754092	31	2.6	32	86	4	110	22	18	18	40	1.92
3754013--3754105	31	3.0	32	79	14	104	23	18	19	38	1.93
3754702--3754791	20	4.4	20	78	8	92	31	25	18	24	1.98
3755142--3755248	34	3.0	34	74	15	106	38	23	24	14	1.91
3755161--3755236	40	1.9	40	91	0	125	39	22	22	15	1.92
3755161--3755227	20	3.3	20	97	0	125	37	25	22	14	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3755255--3755357	19	5.7	19	91	7	162	14	20	17	47	1.82
3756942--3757032	42	2.2	42	88	3	141	20	15	41	21	1.89
3756968--3757028	21	2.9	21	73	9	70	21	13	42	22	1.87
3757370--3757408	20	2.0	20	94	0	69	33	28	12	25	1.93
3757376--3757444	20	3.4	20	86	4	84	36	27	18	17	1.94
3757447--3757499	19	2.8	19	97	0	97	47	15	20	16	1.83
3757513--3757569	14	3.7	14	75	20	60	15	15	17	50	1.78
3757525--3757582	19	3.3	18	72	22	61	17	20	15	46	1.84
3757513--3757582	33	2.1	33	97	0	131	15	18	17	48	1.81
3757570--3757624	20	2.8	19	81	8	56	18	23	21	36	1.95
3758167--3758214	18	2.7	18	90	0	78	16	12	43	27	1.84
3759534--3759571	20	1.9	20	94	0	67	52	21	15	10	1.72
3759855--3759898	22	2.0	22	86	0	61	20	13	43	22	1.87
3760071--3760200	41	3.2	41	84	6	183	22	16	26	34	1.95
3760085--3760198	20	5.7	20	84	6	140	22	18	27	31	1.97
3760085--3760220	41	3.3	41	84	5	134	21	19	25	33	1.97
3760229--3760281	21	2.5	22	78	6	65	35	18	24	20	1.95
3772083--3772121	20	2.0	19	85	5	51	30	5	23	41	1.76
3776723--3776753	2	15.5	2	100	0	62	48	0	0	51	1.00
3776817--3776949	23	6.0	23	81	14	154	47	0	29	22	1.57
3776846--3776927	43	1.9	43	87	5	121	46	1	29	23	1.60
3776823--3776950	66	2.0	65	92	1	211	46	0	29	23	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3777811--3777841	14	2.2	14	94	0	53	41	0	9	48	1.36
3781971--3782017	20	2.3	20	85	0	58	40	14	4	40	1.66
3790449--3790781	173	1.9	174	89	0	515	29	9	20	40	1.83
3792265--3792295	4	8.0	4	92	7	55	22	0	0	77	0.77
3806793--3807122	170	2.0	167	96	1	606	41	16	17	24	1.90
3812175--3812219	24	1.9	24	82	13	58	51	4	4	40	1.42
3813009--3813048	2	20.0	2	100	0	80	50	0	0	50	1.00
3813398--3813440	4	10.8	4	100	0	86	25	0	0	74	0.82
3813436--3813474	3	13.0	3	100	0	78	33	0	0	66	0.92
3813400--3813473	24	3.2	24	85	14	95	28	0	0	71	0.86
3818087--3818218	50	2.6	51	79	2	131	19	34	26	19	1.96
3820380--3820712	111	3.0	111	94	0	576	45	9	7	37	1.67
3820839--3820878	10	3.8	11	87	12	50	42	0	25	32	1.55
3821001--3821125	49	2.5	50	81	1	153	18	26	36	18	1.94
3822072--3822115	18	2.4	18	84	0	61	40	2	25	31	1.68
3822685--3822721	20	1.9	19	89	10	58	45	10	24	18	1.81
3830675--3830889	107	2.0	107	96	0	394	26	9	32	31	1.89
3834778--3834815	20	1.9	20	94	0	67	28	15	13	42	1.85
3836356--3836389	9	3.7	9	88	7	50	76	0	0	23	0.79
3836356--3836388	10	3.3	10	91	8	50	78	0	0	21	0.75
3839844--3839875	2	16.5	2	93	6	57	50	0	0	50	1.00
3841275--3841337	2	31.5	2	100	0	126	50	0	0	49	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3844015--3844154	75	1.9	75	90	0	226	36	21	18	23	1.95
3845014--3845068	27	2.1	26	83	6	67	58	1	1	38	1.20
3845010--3845069	26	2.4	25	78	10	68	53	1	1	43	1.20
3856100--3856214	59	1.9	59	100	0	230	47	10	19	22	1.79
3859334--3859393	32	1.9	31	83	6	77	48	11	3	36	1.56
3867852--3867930	27	3.0	27	71	12	74	46	0	5	48	1.24
3876126--3876168	20	2.1	21	83	12	54	25	27	6	39	1.81
3877028--3877088	32	1.9	32	100	0	122	40	11	13	34	1.80
3880763--3880790	12	2.3	12	100	0	56	46	7	0	46	1.30
3881554--3881588	15	2.2	16	90	5	54	60	0	0	40	0.97
3882381--3882426	17	2.7	18	83	6	51	41	0	0	58	0.98
3906456--3906491	17	2.1	17	89	0	54	30	11	27	30	1.91
3909883--3909924	20	2.2	19	87	8	59	38	28	0	33	1.58
3909892--3909931	20	2.0	20	90	0	62	40	27	0	32	1.57
3911303--3911344	20	2.2	19	87	8	59	38	28	0	33	1.58
3912734--3912764	13	2.3	14	94	5	55	61	12	12	12	1.58
3921871--3921961	32	2.8	33	80	5	105	35	15	12	37	1.84
3924142--3924174	16	2.0	17	88	5	50	39	3	0	57	1.14
3928926--3928956	2	15.5	2	100	0	62	48	0	0	51	1.00
3936469--3936499	2	15.5	2	100	0	62	48	0	0	51	1.00
3937035--3937092	25	2.3	24	88	11	89	50	1	8	39	1.43
3939166--3939229	19	3.3	19	76	10	67	21	14	25	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3939288--3939325	19	2.0	19	90	10	60	31	26	10	31	1.90
3940088--3940117	2	15.5	2	93	6	53	50	0	0	50	1.00
3940867--3941024	21	7.8	20	72	7	86	38	25	17	18	1.92
3940991--3941260	20	13.5	20	80	6	260	37	25	17	20	1.94
3941030--3941260	40	5.8	40	91	4	288	35	25	17	21	1.95
3941941--3941987	24	2.0	24	87	8	69	25	14	21	38	1.92
3944417--3944576	33	4.4	34	81	15	180	47	17	20	14	1.82
3944426--3944614	19	10.7	19	77	17	210	46	17	20	15	1.85
3944412--3944614	52	3.9	52	84	10	263	45	17	21	15	1.85
3944623--3944720	19	5.4	19	84	13	143	14	22	17	45	1.84
3944604--3944720	53	2.2	53	96	1	218	13	24	17	43	1.86
3944827--3944863	14	2.6	14	91	0	65	45	21	0	32	1.52
3947078--3947144	22	3.0	22	95	2	116	25	28	26	19	1.99
3948825--3948869	21	2.1	21	87	0	63	15	24	28	31	1.96
3949755--3949793	16	2.4	16	86	0	51	38	25	0	35	1.56
3951993--3952059	22	3.0	22	95	2	116	25	28	26	19	1.99
3952703--3952760	2	29.0	2	100	0	116	50	0	0	50	1.00
3953770--3953814	21	2.1	21	87	0	63	15	24	28	31	1.96
3954888--3954953	19	3.4	20	87	6	91	45	27	16	10	1.80
3954944--3954998	14	3.6	14	76	21	56	47	21	20	10	1.80
3954925--3955017	33	2.8	33	96	0	168	47	20	20	11	1.81
3954904--3955022	19	6.8	19	78	18	123	47	21	20	10	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3955018--3955145	19	7.3	19	74	16	123	8	17	28	45	1.78
3955018--3955109	33	2.8	33	93	3	150	7	18	28	45	1.76
3955193--3955752	93	6.1	93	98	1	1081	46	19	12	21	1.83
3955193--3955752	185	3.0	186	98	1	1081	46	19	12	21	1.83
3957450--3957539	14	5.7	14	69	23	63	44	22	23	10	1.82
3957442--3957556	33	3.5	33	97	0	221	46	20	22	10	1.80
3957464--3957561	19	5.7	19	69	22	90	44	21	22	11	1.83
3957573--3957628	14	3.7	14	73	17	58	10	23	23	42	1.85
3957557--3957636	32	2.5	33	89	4	126	10	21	22	46	1.81
3957612--3957689	41	1.9	41	97	0	147	12	25	16	44	1.83

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