genome.fa.s8323.2.7.7.80.10.50.1000.19.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: VEPZ01008323.1 Hibiscus syriacus cultivar Beakdansim tig00111027_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5101972

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   

This is table  19  of  26  ( 3017 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)
3772733--3772767	16	2.3	15	90	5	52	22	8	31	37	1.85
3775791--3775832	6	7.0	6	86	13	52	66	0	28	4	1.12
3775981--3776010	13	2.3	13	100	0	60	63	6	0	30	1.20
3780672--3780706	16	2.2	16	89	0	52	28	22	17	31	1.96
3780872--3780960	39	2.3	39	86	7	126	34	3	2	59	1.26
3781550--3781614	23	2.8	23	93	4	105	36	26	13	23	1.92
3784293--3784370	24	3.3	23	78	8	84	6	8	43	41	1.62
3784310--3784431	6	20.7	6	72	3	86	5	5	43	45	1.51
3784310--3784385	12	6.3	12	84	0	98	3	6	47	42	1.48
3784941--3784997	18	3.3	18	78	14	75	21	22	24	31	1.98
3784935--3784999	33	2.0	33	96	0	121	20	24	23	32	1.98
3784968--3785016	26	1.9	26	91	4	82	20	24	20	34	1.96
3791085--3791120	14	2.6	14	100	0	72	36	25	5	33	1.79
3793457--3793545	46	2.0	46	93	2	153	26	24	20	28	1.99
3793576--3793626	19	2.7	19	96	0	93	21	31	25	21	1.98
3795002--3795131	51	2.6	51	91	3	183	43	6	5	43	1.54
3794966--3795097	69	1.9	69	93	0	228	43	6	5	43	1.53
3795110--3795152	13	3.2	13	83	6	50	37	2	6	53	1.41
3794905--3795131	2	114.5	2	64	26	67	45	4	4	45	1.44
3794991--3795192	18	11.8	18	73	18	78	42	5	6	45	1.55
3795265--3795614	2	171.0	2	65	24	110	45	3	5	45	1.43
3795267--3795387	27	4.5	27	93	0	188	50	4	3	41	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3795265--3795385	7	17.6	7	72	17	60	51	4	2	41	1.37
3795279--3795616	54	6.5	54	70	19	188	45	3	5	45	1.45
3795375--3795617	13	19.0	13	68	17	84	42	2	6	48	1.43
3795286--3795423	27	5.2	25	89	5	93	47	5	5	42	1.47
3795420--3795483	33	1.9	33	96	0	119	37	3	9	50	1.51
3796769--3796801	9	3.8	9	84	8	50	54	0	0	45	0.99
3798464--3798534	3	23.7	3	80	8	74	59	0	2	38	1.12
3798466--3798542	9	7.8	10	74	23	58	59	0	2	37	1.11
3798627--3798676	25	2.0	25	84	7	66	44	10	6	40	1.63
3798674--3798768	50	1.9	49	89	2	145	44	7	6	42	1.57
3798707--3798759	20	2.5	23	76	14	60	45	7	3	43	1.50
3798732--3798800	29	2.4	29	92	0	120	44	5	5	43	1.52
3798897--3798953	24	2.5	22	83	11	62	49	8	1	40	1.44
3798915--3799353	20	22.4	20	67	21	157	45	4	4	45	1.44
3799119--3799400	2	141.0	2	67	19	126	45	3	3	47	1.38
3798903--3799400	11	46.1	11	63	19	88	45	4	4	45	1.42
3799145--3799320	59	3.1	54	79	12	169	44	4	4	46	1.44
3802931--3802967	17	2.2	17	95	0	65	24	16	10	48	1.77
3803826--3803983	21	7.8	20	72	7	86	38	25	17	18	1.92
3803950--3804199	20	12.5	20	87	1	268	37	24	18	19	1.94
3804884--3804930	24	2.0	24	87	8	69	25	14	21	38	1.92
3805105--3805129	12	2.1	12	100	0	50	72	0	28	0	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3807454--3807551	19	5.4	19	84	13	143	14	22	17	45	1.84
3807435--3807551	53	2.2	53	98	1	227	13	23	17	44	1.85
3807628--3807682	14	3.6	14	73	21	56	45	20	23	10	1.82
3807610--3807701	33	2.8	33	98	1	175	44	18	23	13	1.85
3807642--3807758	52	2.2	52	95	0	207	44	17	21	16	1.87
3807765--3807864	19	5.5	19	84	12	147	15	23	17	45	1.85
3807748--3807864	53	2.2	53	95	1	209	14	24	17	43	1.86
3807970--3808007	14	2.7	14	91	0	67	44	21	0	34	1.52
3809911--3809974	18	3.3	20	80	10	80	48	26	14	10	1.76
3809911--3810038	19	7.3	19	73	17	98	46	28	16	9	1.78
3809964--3810038	33	2.3	33	90	4	125	45	29	17	8	1.77
3810034--3810168	19	7.6	19	75	16	128	11	18	23	45	1.82
3810056--3810112	14	3.7	14	75	20	51	12	19	22	45	1.83
3810039--3810131	33	2.8	33	93	0	159	11	19	21	47	1.81
3810212--3810676	93	5.1	93	94	4	817	45	18	12	22	1.83
3812353--3812435	19	4.7	18	78	14	84	43	22	22	10	1.84
3812332--3812435	51	2.0	51	88	3	156	44	21	24	10	1.83
3812431--3812516	39	2.4	37	84	11	108	10	22	22	45	1.82
3812454--3812507	19	2.8	20	80	5	65	12	25	20	40	1.88
3812454--3812528	20	3.8	20	78	5	89	13	24	18	44	1.85
3812602--3812672	33	2.2	33	94	0	124	47	16	23	11	1.79
3812849--3812903	22	2.5	22	81	0	74	20	16	40	23	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3813049--3813236	20	9.6	20	77	11	176	19	19	26	35	1.95
3813049--3813197	61	2.6	58	83	6	194	20	19	26	33	1.97
3813051--3813198	37	3.8	38	81	7	147	21	18	25	33	1.96
3813040--3813236	57	3.4	59	75	7	190	20	18	24	36	1.95
3813223--3813305	21	4.0	21	73	6	78	25	16	24	33	1.96
3820013--3820209	97	2.0	95	91	8	317	36	12	17	34	1.87
3822903--3823039	68	2.0	69	98	1	267	28	20	16	35	1.94
3822998--3823562	192	2.9	192	90	4	882	30	15	15	37	1.89
3823895--3823944	19	2.6	19	93	0	82	58	10	2	30	1.42
3825035--3825069	17	2.1	17	89	5	54	31	11	11	45	1.76
3827931--3828579	182	3.6	180	82	3	748	27	16	13	43	1.84
3829890--3829922	4	8.5	4	86	6	50	3	69	0	27	1.03
3830228--3830281	28	1.9	28	92	0	90	46	3	27	22	1.69
3830524--3830559	6	5.7	6	93	6	54	66	0	0	33	0.92
3830524--3830559	12	2.8	13	91	8	65	66	0	0	33	0.92
3836485--3836535	24	2.1	25	85	10	70	49	7	1	41	1.43
3836521--3836654	65	2.1	63	83	10	166	44	5	4	45	1.48
3836582--3836845	36	7.2	36	75	15	213	42	5	4	46	1.49
3836620--3836826	70	2.8	72	80	11	226	42	5	5	47	1.49
3836584--3836858	37	7.4	39	76	15	212	42	5	4	46	1.48
3837052--3837208	56	2.8	56	86	0	197	29	15	12	42	1.83
3837354--3837406	2	27.0	2	92	3	90	49	0	1	49	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3839591--3839645	15	3.4	16	80	7	58	27	30	29	12	1.93
3839601--3839643	15	2.8	16	82	7	61	25	32	27	13	1.94
3839761--3839890	60	2.2	60	79	8	147	49	5	12	33	1.63
3844725--3844813	43	2.1	43	100	0	178	20	15	25	38	1.92
3846931--3847024	17	5.5	17	98	0	179	39	13	18	28	1.89
3855733--3855767	2	17.5	2	100	0	70	48	0	0	51	1.00
3856795--3856828	16	2.1	16	94	0	59	14	5	44	35	1.70
3857334--3857372	16	2.6	14	84	8	51	28	0	0	71	0.86
3857348--3857378	12	2.7	11	95	5	53	19	0	0	80	0.71
3858991--3859150	36	4.4	36	93	0	284	53	6	11	28	1.63
3869504--3869725	31	7.2	31	92	0	381	32	15	13	39	1.85
3872324--3872371	23	2.1	23	84	0	60	35	14	16	33	1.89
3872798--3872860	23	2.7	23	87	0	90	38	19	4	38	1.73
3872438--3873923	430	3.5	430	97	0	2778	39	12	7	41	1.70
3873232--3873290	23	2.6	23	91	0	91	38	18	5	37	1.73
3873648--3873720	23	3.2	22	90	3	92	41	20	4	34	1.72
3873658--3873720	23	2.7	23	95	0	108	39	19	4	36	1.72
3874140--3874205	34	1.9	34	100	0	132	16	15	18	50	1.79
3874478--3874514	18	2.1	18	89	0	56	51	10	5	32	1.60
3874947--3875009	23	2.7	24	90	4	94	39	20	4	34	1.74
3877889--3878561	183	3.7	183	96	0	1197	34	16	15	34	1.90
3880027--3880107	3	27.0	3	75	0	72	23	34	6	35	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3880031--3880119	12	7.4	12	84	0	88	21	34	7	35	1.82
3880031--3880122	18	5.1	18	77	0	76	20	34	7	36	1.81
3880043--3880119	36	2.1	36	90	0	118	20	35	9	35	1.85
3880031--3880122	6	15.3	6	79	0	67	20	34	7	36	1.81
3881584--3882949	199	6.9	198	97	0	2538	31	15	15	37	1.89
3881584--3882949	397	3.4	397	97	0	2540	31	15	15	37	1.89
3883068--3883116	19	2.6	19	93	0	80	57	10	2	30	1.43
3885007--3885071	21	3.1	21	79	0	76	16	30	13	38	1.88
3887301--3887343	20	2.3	18	85	14	61	20	16	11	51	1.75
3887306--3887352	20	2.4	19	82	10	67	19	17	10	53	1.72

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