genome.fa.s9344.2.7.7.80.10.50.1000.21.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: VEPZ01009344.1 Hibiscus syriacus cultivar Beakdansim tig00113124_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4287485

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   

This is table  21  of  24  ( 2784 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)
3769652--3769704	20	2.7	20	96	0	97	30	26	3	39	1.74
3771129--3771175	22	2.1	22	100	0	94	57	4	8	29	1.48
3773664--3773851	45	4.2	45	86	4	229	36	8	15	39	1.78
3773664--3773851	89	2.1	90	83	6	240	36	8	15	39	1.78
3774018--3774308	58	5.1	57	79	7	265	37	6	10	44	1.66
3774018--3774298	115	2.5	112	79	10	286	37	6	11	44	1.65
3774090--3774345	115	2.2	115	81	7	279	37	5	10	45	1.63
3774090--3774355	58	4.6	57	79	8	252	37	6	10	45	1.64
3774601--3774793	39	5.1	38	78	12	175	33	6	11	48	1.64
3774601--3774793	78	2.6	75	81	9	207	33	6	11	48	1.64
3781004--3781061	23	2.5	24	88	2	82	58	20	12	8	1.59
3781004--3781074	23	3.0	23	83	6	81	60	22	9	7	1.52
3781311--3781356	24	1.9	24	90	0	74	60	17	10	10	1.57
3781330--3781366	14	2.5	15	91	8	58	59	16	8	16	1.59
3792374--3792421	24	2.0	25	95	4	89	25	22	31	20	1.98
3793614--3793655	2	21.0	2	90	9	68	50	0	2	47	1.14
3802191--3802238	24	2.0	25	83	4	62	27	18	27	27	1.98
3802437--3802504	29	2.3	28	80	9	66	35	25	2	36	1.71
3803860--3803922	2	32.0	2	96	3	119	49	0	0	50	1.00
3809990--3810014	2	12.5	2	100	0	50	52	0	0	48	1.00
3819596--3819628	3	11.0	3	100	0	66	33	0	0	66	0.92
3821484--3821617	64	2.1	64	98	0	259	26	20	12	41	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3822378--3822446	26	2.9	23	86	6	93	18	40	0	40	1.51
3822378--3822434	26	2.2	26	93	0	96	15	40	0	43	1.47
3823838--3824188	173	2.0	173	88	2	517	26	24	20	28	1.99
3828279--3828321	21	2.0	21	86	0	59	30	30	23	16	1.96
3828867--3829084	103	2.1	103	96	0	409	25	13	24	37	1.92
3829101--3829163	23	2.7	23	87	4	92	20	26	26	25	1.99
3835203--3835245	21	2.0	21	81	0	50	27	30	25	16	1.97
3835273--3835310	20	1.9	20	88	0	58	23	34	31	10	1.89
3835782--3835999	103	2.1	103	96	0	400	24	12	24	38	1.91
3836016--3836078	23	2.7	23	87	4	92	20	26	26	25	1.99
3838037--3838079	2	21.5	2	100	0	86	48	0	0	51	1.00
3838790--3838847	21	2.8	21	89	5	82	44	17	12	25	1.83
3842894--3842936	17	2.4	18	88	7	61	46	0	27	25	1.53
3842894--3842977	19	4.5	19	80	11	93	45	0	28	26	1.54
3842907--3842975	19	3.5	20	84	5	97	46	0	30	23	1.53
3843431--3843475	2	23.0	2	90	4	74	53	0	0	46	1.00
3844061--3844091	16	1.9	16	100	0	62	38	12	25	22	1.90
3847698--3847773	34	2.3	33	84	8	93	40	5	10	43	1.62
3850847--3850896	20	2.6	20	81	12	61	24	14	4	58	1.53
3853435--3853478	15	2.9	15	82	3	52	31	2	0	65	1.05
3857601--3857793	76	2.5	77	90	4	286	19	24	33	23	1.97
3865849--3866048	76	2.6	77	87	4	282	19	23	33	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3869253--3869337	39	2.2	39	100	0	170	20	24	35	20	1.96
3875983--3876285	151	2.0	151	99	0	597	27	12	23	35	1.91
3877023--3877049	2	13.5	2	100	0	54	48	0	0	51	1.00
3877152--3877207	21	2.7	20	83	8	67	28	3	0	67	1.07
3877191--3877240	4	12.2	4	84	16	59	22	0	0	78	0.76
3877173--3877241	19	3.7	18	79	13	68	24	0	0	75	0.81
3877197--3877259	17	3.9	16	77	20	53	20	3	3	73	1.12
3877176--3877254	34	2.3	34	77	14	81	24	1	1	73	0.98
3881998--3882038	7	5.7	7	83	16	57	85	2	12	0	0.70
3881992--3882038	17	2.7	18	80	9	53	82	4	12	0	0.80
3882832--3882908	22	3.5	22	94	0	136	37	27	14	20	1.91
3883712--3884775	106	10.0	106	91	0	1646	33	25	18	22	1.96
3885524--3885628	37	2.8	37	86	0	147	40	15	14	30	1.87
3886208--3886335	36	3.6	34	72	18	84	27	4	3	64	1.31
3886348--3886408	30	2.2	29	78	18	69	26	1	0	72	0.94
3886354--3886385	16	1.9	17	93	6	57	25	0	0	75	0.81
3886351--3886417	17	4.1	16	72	20	59	25	1	1	71	1.03
3886490--3886534	18	2.5	17	79	10	54	22	6	0	71	1.09
3890810--3891794	492	2.0	492	98	0	1898	29	26	15	28	1.96
3895924--3895963	2	20.0	2	100	0	80	50	0	0	50	1.00
3902576--3902625	19	2.7	20	77	22	56	58	8	0	34	1.28
3906298--3906324	14	1.9	14	100	0	54	14	29	18	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3907522--3907558	17	2.2	17	86	13	51	37	8	0	54	1.30
3908419--3908500	34	2.4	34	97	0	155	23	29	14	32	1.94
3908849--3908912	20	3.2	20	91	4	101	14	25	40	20	1.89
3908849--3908912	21	3.1	21	93	2	103	14	25	40	20	1.89
3912610--3912647	16	2.3	16	95	4	67	26	7	28	36	1.84
3922627--3922692	8	8.4	8	77	15	50	74	0	9	16	1.06
3922637--3922689	9	5.6	9	80	12	52	79	0	5	15	0.91
3922637--3922682	9	4.7	10	86	13	53	78	0	4	17	0.91
3923671--3924039	110	3.4	109	87	5	504	28	13	28	28	1.95
3923671--3923995	55	6.0	55	90	0	460	28	13	29	28	1.94
3924002--3924529	54	9.9	54	80	5	560	33	18	23	24	1.97
3924002--3924529	105	5.0	104	88	4	668	33	18	23	24	1.97
3928527--3928574	19	2.5	20	82	3	62	29	12	6	52	1.63
3930800--3930829	2	15.0	2	100	0	60	50	0	0	50	1.00
3933301--3933341	21	2.0	21	90	0	64	24	29	24	21	1.99
3936120--3936168	5	10.4	5	79	20	61	61	0	0	38	0.96
3936127--3936168	8	5.2	8	91	8	68	61	0	0	38	0.96
3936115--3936168	16	3.3	18	80	19	73	61	0	0	38	0.96
3937324--3937393	24	2.9	24	86	0	86	52	15	5	25	1.65
3937326--3937410	24	3.5	24	81	0	71	50	16	8	24	1.72
3937350--3937410	24	2.5	24	83	0	77	49	16	8	26	1.73
3938002--3938032	12	2.6	12	89	0	53	41	22	16	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3938079--3938141	12	5.2	12	80	0	81	39	23	19	17	1.92
3938906--3939001	31	3.1	30	80	5	111	34	22	17	25	1.96
3939101--3939216	59	2.0	59	82	3	144	28	20	7	43	1.80
3943194--3943246	13	4.1	13	85	0	79	33	22	20	22	1.97
3944139--3944184	20	2.3	20	88	0	65	30	19	13	36	1.90
3944428--3944465	20	1.9	20	88	0	58	42	18	7	31	1.79
3951835--3951875	5	8.4	5	79	15	50	39	0	0	60	0.96
3951828--3951884	7	8.1	7	76	20	57	40	1	0	57	1.09
3951837--3951882	19	2.6	17	80	12	56	39	2	0	58	1.10
3951842--3951884	19	2.3	19	91	0	68	39	2	0	58	1.11
3953530--3953869	168	2.0	169	99	0	673	32	21	18	27	1.96
3954484--3954542	27	2.2	28	81	9	77	35	45	3	15	1.63
3955957--3956015	29	2.0	30	83	3	75	32	25	6	35	1.82
3957769--3957797	2	14.5	2	100	0	58	48	0	0	51	1.00
3962437--3962490	25	2.2	24	84	12	67	57	0	5	37	1.22
3965776--3965806	2	15.5	2	100	0	62	48	0	0	51	1.00
3971344--3971507	81	2.0	81	100	0	328	23	14	21	41	1.89
3973529--3973601	25	2.9	25	87	4	112	34	17	1	46	1.57
3974031--3974275	101	2.4	102	86	4	336	23	19	15	42	1.89
3975127--3975190	3	22.7	3	80	12	73	32	1	0	65	1.02
3975141--3975171	16	1.9	16	93	0	53	38	0	0	61	0.96
3976069--3976102	15	2.3	15	89	0	50	35	32	17	14	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3976631--3976787	64	2.5	64	79	8	176	27	17	18	36	1.94
3976825--3976877	21	2.5	21	100	0	106	32	20	18	28	1.97
3983112--3983491	94	4.1	94	96	1	674	21	12	18	47	1.82
3983548--3983694	19	7.9	19	80	10	144	46	23	18	12	1.82
3983539--3983704	19	8.8	19	80	10	141	44	23	18	13	1.85
3983701--3983788	19	4.8	19	71	16	78	12	21	20	45	1.84
3985658--3985693	14	2.6	14	95	0	63	33	0	22	44	1.53
3985800--3985884	33	2.5	33	86	1	116	48	20	17	14	1.81
3985924--3986022	19	5.4	19	75	13	109	14	21	19	45	1.85
3985955--3986057	20	5.6	19	70	14	63	15	20	22	41	1.89

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