genome.fa.s7744.2.7.7.80.10.50.1000.15.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: VEPZ01007744.1 Hibiscus syriacus cultivar Beakdansim tig00110007_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4276731

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

This is table  15  of  16  ( 1862 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)
3545653--3545721	20	3.4	21	67	17	65	49	7	1	42	1.39
3545614--3545723	39	2.8	39	88	1	159	47	9	2	40	1.49
3545694--3545750	27	2.1	27	90	0	87	45	5	3	45	1.43
3547170--3547213	18	2.5	18	85	14	65	36	6	11	45	1.67
3547170--3547231	17	3.6	17	82	8	65	38	9	9	41	1.71
3557793--3557831	20	2.0	20	100	0	78	25	10	23	41	1.86
3559250--3559289	21	1.9	21	85	10	55	50	5	25	20	1.68
3560776--3560821	18	2.7	17	80	12	51	39	8	8	43	1.66
3563236--3563273	15	2.4	16	86	8	51	21	21	0	57	1.40
3563469--3563524	25	2.2	24	84	12	69	76	5	14	3	1.09
3572232--3572260	15	2.0	15	93	6	51	0	20	3	75	0.94
3574528--3574552	13	1.9	13	100	0	50	28	40	0	32	1.57
3574709--3574755	15	3.0	16	85	11	62	19	23	0	57	1.41
3575600--3575698	50	2.0	51	83	2	128	17	19	25	38	1.93
3595698--3595752	23	2.3	25	81	6	69	9	16	14	60	1.59
3597929--3597968	10	3.9	10	86	3	53	45	2	5	47	1.38
3598381--3598410	15	1.9	16	93	6	53	6	33	6	53	1.53
3599353--3599670	159	2.0	159	100	0	636	33	9	21	35	1.86
3601433--3601587	75	2.1	76	86	6	217	43	16	16	23	1.86
3613404--3613456	28	1.9	27	84	3	70	67	1	18	11	1.30
3617187--3617270	42	2.0	42	97	2	161	17	19	19	44	1.88
3617329--3617392	32	2.0	31	96	3	119	28	21	20	29	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3618711--3618759	24	2.0	24	84	0	62	65	2	12	20	1.35
3618929--3619000	28	2.6	29	76	8	78	65	2	5	26	1.28
3619061--3619119	2	29.5	2	100	0	118	50	0	0	49	1.00
3619640--3619737	34	2.8	36	84	4	119	31	13	13	41	1.82
3624216--3624255	13	3.2	12	86	10	55	47	0	2	50	1.14
3624309--3624361	20	2.5	20	82	14	54	41	5	3	49	1.44
3625409--3625507	50	2.0	50	90	7	159	56	4	37	2	1.30
3627448--3627515	27	2.5	27	92	2	109	29	22	8	39	1.84
3629552--3629591	15	2.6	16	78	21	50	15	25	0	60	1.35
3632657--3632696	15	2.7	15	81	14	55	17	25	0	57	1.40
3636795--3636853	30	2.0	30	83	6	75	28	8	10	52	1.64
3640826--3640861	15	2.4	15	95	0	63	61	0	30	8	1.26
3648691--3648849	41	3.9	41	92	0	273	22	19	18	39	1.92
3659875--3660121	91	2.7	91	87	1	325	21	25	21	30	1.98
3665986--3666036	26	1.9	27	88	4	77	21	29	21	27	1.99
3678485--3678509	8	3.1	8	100	0	50	0	24	0	76	0.80
3678475--3678543	27	2.7	26	71	22	72	1	20	2	75	1.01
3682088--3682139	21	2.6	21	90	6	81	34	13	5	46	1.67
3687136--3687194	29	2.0	29	100	0	118	32	13	16	37	1.88
3687588--3687661	33	2.2	35	85	4	98	47	6	13	32	1.69
3689682--3689722	20	2.0	21	86	13	59	19	2	0	78	0.87
3690815--3690873	29	2.0	29	96	0	109	33	13	15	37	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3696577--3696631	23	2.3	24	90	3	94	30	10	23	34	1.89
3700143--3700177	5	7.0	5	86	0	52	85	14	0	0	0.59
3700143--3700179	10	3.7	10	92	0	65	86	13	0	0	0.57
3709984--3710151	41	4.1	41	89	1	248	24	20	18	36	1.95
3716876--3716915	19	2.0	20	90	4	64	20	15	0	65	1.28
3717182--3717244	10	6.1	10	72	7	54	79	3	15	1	0.94
3717182--3717247	19	3.4	19	76	21	66	78	3	16	1	0.95
3717182--3717238	22	2.7	20	81	10	60	78	3	15	1	0.96
3720174--3720256	35	2.3	35	83	2	103	27	34	3	33	1.75
3731279--3731387	35	3.1	36	80	5	125	28	35	2	33	1.72
3733906--3733951	19	2.2	20	85	11	58	60	0	10	28	1.30
3742530--3742581	21	2.6	21	90	6	81	34	13	5	46	1.67
3746649--3746700	21	2.6	21	90	6	81	34	13	5	46	1.67
3750019--3750077	18	3.0	20	76	19	61	3	18	1	76	1.02
3752117--3752165	19	2.5	20	78	21	59	22	10	0	67	1.20
3753699--3753741	23	1.9	21	81	13	50	34	13	18	32	1.90
3757981--3758043	2	31.5	2	96	0	117	50	1	0	47	1.10
3765237--3765281	8	5.5	8	87	12	65	0	20	2	77	0.87
3776999--3777026	2	14.0	2	100	0	56	50	0	0	50	1.00
3779927--3779977	20	2.6	20	90	3	77	35	15	5	43	1.71
3781769--3781802	13	2.6	13	95	0	59	0	17	0	82	0.67
3781769--3781819	26	1.9	27	84	11	70	0	17	1	80	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3783828--3783852	9	2.8	9	100	0	50	12	24	0	64	1.27
3785378--3785407	15	2.1	15	93	6	53	0	20	3	76	0.92
3793561--3793586	10	2.6	10	100	0	52	73	0	26	0	0.84
3798127--3798169	13	3.4	13	77	3	52	83	2	11	2	0.83
3798135--3798169	18	1.9	18	88	0	52	82	2	11	2	0.88
3802032--3802071	15	2.7	15	81	14	55	17	25	0	57	1.40
3806755--3806802	15	3.1	15	76	23	55	18	22	0	58	1.39
3807307--3807339	17	1.9	17	93	0	57	30	33	0	36	1.58
3810720--3810989	134	2.0	134	100	0	540	29	17	12	40	1.87
3815061--3815112	21	2.6	21	90	6	81	34	13	5	46	1.67
3815845--3815884	21	1.9	21	90	10	64	75	0	17	7	1.03
3819035--3819080	21	2.3	21	85	7	60	39	13	6	41	1.70
3819812--3819865	21	2.5	22	82	8	67	75	1	16	5	1.07
3822665--3822716	21	2.6	21	90	6	81	34	13	5	46	1.67
3827002--3827046	14	2.9	15	87	12	65	73	8	13	4	1.23
3836577--3836601	10	2.5	10	100	0	50	0	0	8	92	0.40
3838134--3838276	77	1.9	77	80	5	173	23	28	19	27	1.98
3840303--3840345	23	1.9	21	81	13	50	32	18	13	34	1.90
3845745--3845794	8	6.4	8	80	11	50	0	16	2	82	0.77
3845745--3845794	11	4.3	11	78	12	55	0	16	2	82	0.77
3845763--3845795	17	2.0	17	94	5	59	0	18	6	75	1.00
3850137--3850187	20	2.6	20	90	3	77	35	15	5	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3854332--3854382	20	2.6	20	90	3	77	35	15	5	43	1.71
3860924--3860954	14	2.2	14	94	0	53	38	9	12	38	1.77
3868111--3868214	36	2.9	36	91	1	165	27	3	35	32	1.75
3877916--3877967	19	2.6	20	87	6	70	42	5	15	36	1.71
3880385--3880435	19	2.7	19	85	14	70	60	0	15	23	1.35
3880839--3880890	19	2.6	20	87	6	70	42	5	15	36	1.71
3881687--3881746	30	2.0	31	83	3	77	55	10	8	26	1.61
3883084--3883646	293	1.9	292	89	3	884	34	10	28	26	1.89
3888855--3889656	418	1.9	415	88	4	1197	37	11	25	25	1.90
3893078--3893130	23	2.2	24	86	3	72	9	18	11	60	1.57
3898701--3898751	22	2.3	22	87	12	70	21	23	0	54	1.44
3911516--3911583	10	6.7	10	79	12	68	4	2	7	85	0.82
3911525--3911583	31	1.9	31	86	6	84	5	3	5	86	0.78
3914737--3914781	23	1.9	23	81	4	54	35	2	33	28	1.70
3914690--3914800	35	3.2	35	76	2	107	33	2	35	28	1.72
3922420--3922466	18	2.6	17	81	18	60	72	4	14	8	1.24
3922418--3922466	19	2.7	18	81	6	62	73	4	14	8	1.21
3932087--3932153	1	67.0	1	83	0	62	2	2	5	88	0.71
3932087--3932153	20	3.3	19	81	10	71	2	2	5	88	0.71
3932087--3932153	31	2.2	31	83	0	80	2	2	5	88	0.71
3935022--3935131	35	3.1	35	81	2	123	34	3	34	27	1.74
3937970--3938215	123	2.0	123	100	0	492	28	23	15	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3946664--3946711	8	6.1	8	81	13	64	0	20	0	79	0.74
3946664--3946709	16	2.9	16	93	3	76	0	19	0	80	0.71
3946645--3946727	21	3.9	21	80	10	80	4	19	1	74	1.06
3946656--3946704	5	9.6	5	86	4	71	2	20	0	77	0.87
3948294--3948336	21	2.1	20	86	4	59	83	9	4	2	0.87
3954103--3954134	2	16.5	2	93	6	57	50	0	0	50	1.00
3969480--3969522	23	1.9	22	85	4	59	67	4	11	16	1.38
3973524--3973565	2	21.5	2	95	4	77	50	0	0	50	1.00
3977396--3977434	18	2.2	18	90	0	60	2	7	10	79	1.02
3977764--3977806	23	1.9	22	85	4	59	67	4	11	16	1.38

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