genome.fa.s8426.2.7.7.80.10.50.1000.15.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: VEPZ01008426.1 Hibiscus syriacus cultivar Beakdansim tig00111210_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4445546

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  ( 2101 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)
3333189--3333558	109	3.4	108	73	14	398	33	15	10	40	1.81
3333267--3333569	132	2.3	132	91	1	491	33	16	9	40	1.80
3333485--3333569	23	3.7	23	93	0	134	34	20	7	38	1.79
3339967--3340044	41	1.9	41	84	5	104	33	16	21	28	1.95
3353467--3353552	19	4.3	19	80	12	75	24	30	29	16	1.96
3353469--3353552	20	4.1	20	80	11	82	23	30	28	16	1.96
3372477--3372901	211	2.0	212	99	0	843	37	19	18	24	1.94
3379472--3379509	20	1.9	20	88	0	58	13	26	36	23	1.91
3387556--3387702	48	3.1	48	88	6	203	23	10	21	44	1.84
3394150--3394276	48	2.7	48	88	1	193	24	8	20	46	1.78
3402662--3402752	46	2.0	46	89	2	139	28	19	24	27	1.99
3403893--3403918	11	2.4	11	100	0	52	0	0	7	92	0.39
3403927--3403984	25	2.1	27	81	12	66	43	0	5	51	1.24
3403948--3404009	25	2.5	25	79	10	65	46	0	3	50	1.17
3404029--3404060	2	16.5	2	93	6	57	53	0	0	46	1.00
3403992--3404096	50	2.2	46	86	10	140	43	2	5	47	1.41
3403956--3404131	87	2.0	86	86	5	248	44	2	6	46	1.41
3404046--3404160	37	3.1	36	83	10	119	44	3	6	45	1.47
3404047--3404160	35	3.2	35	80	11	117	44	3	7	44	1.48
3404248--3404290	7	5.9	7	84	10	50	13	2	4	79	1.00
3405355--3405397	13	3.4	13	90	6	61	11	4	2	81	0.93
3405355--3405407	12	4.4	12	86	6	63	13	3	1	81	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3405367--3405418	24	2.2	23	80	10	61	17	1	0	80	0.80
3405369--3405468	11	8.5	11	71	25	55	18	5	1	76	1.03
3405426--3405467	14	3.0	14	86	13	52	19	0	2	78	0.86
3405427--3405466	19	2.1	19	85	0	53	17	0	2	80	0.83
3405533--3405562	13	2.3	13	94	0	51	30	0	0	70	0.88
3406026--3406106	2	40.5	2	92	4	128	51	0	2	45	1.14
3406136--3406178	22	2.0	22	85	0	59	37	0	2	60	1.10
3408276--3408396	65	1.9	61	83	12	156	52	4	2	40	1.37
3408276--3408375	33	3.1	32	71	14	89	50	6	3	41	1.42
3408201--3408549	193	1.8	193	87	1	529	49	6	3	40	1.46
3418422--3418466	20	2.2	20	84	7	56	26	17	26	28	1.98
3420361--3420392	2	16.0	2	93	0	55	46	0	3	50	1.17
3423155--3423228	24	3.0	23	80	11	76	40	4	8	47	1.52
3430630--3430656	14	1.9	14	100	0	54	33	22	22	22	1.97
3431348--3431693	59	5.9	59	90	2	525	32	21	11	34	1.89
3432014--3432085	22	3.5	20	84	14	94	25	30	13	30	1.94
3432014--3432232	95	2.3	95	80	3	244	25	24	16	33	1.96
3438316--3438650	59	5.7	59	88	0	490	31	22	10	35	1.88
3438984--3439033	20	2.6	20	81	15	61	24	28	16	32	1.96
3448755--3448795	21	1.9	22	85	5	57	39	19	17	24	1.92
3460034--3460197	82	2.0	82	100	0	328	42	9	21	25	1.84
3462234--3462304	36	2.0	36	94	0	124	47	8	14	29	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3470566--3470770	75	2.7	76	85	3	261	20	23	32	22	1.98
3475464--3475516	23	2.3	23	87	6	72	39	16	11	32	1.85
3476313--3476388	2	38.0	2	100	0	152	50	0	0	50	1.00
3480181--3480246	19	3.5	19	87	0	78	40	6	18	34	1.75
3480282--3480344	13	4.8	13	82	5	74	61	3	17	17	1.47
3480282--3480344	6	9.8	6	78	11	63	61	3	17	17	1.47
3483916--3483968	21	2.5	21	81	0	61	30	28	16	24	1.97
3488348--3488385	2	19.0	2	100	0	76	50	0	0	50	1.00
3495428--3495456	2	14.5	2	100	0	58	51	48	0	0	1.00
3495460--3495533	2	37.0	2	100	0	148	50	0	0	50	1.00
3500213--3500321	46	2.4	45	75	15	116	24	21	23	30	1.99
3500249--3500683	134	3.2	134	92	0	690	28	18	21	31	1.97
3500768--3500845	37	2.1	37	90	0	120	26	17	19	35	1.94
3500689--3500924	116	2.0	116	90	3	377	23	19	24	32	1.98
3500799--3500971	79	2.2	79	79	3	188	28	19	20	31	1.97
3500940--3501067	34	3.8	34	89	4	186	30	18	19	31	1.96
3501033--3501387	174	2.0	174	94	1	622	33	16	16	33	1.91
3516813--3516838	13	2.0	13	100	0	52	23	0	0	76	0.78
3518884--3518933	20	2.6	18	87	9	64	68	8	12	12	1.40
3528120--3528174	6	9.0	6	77	18	60	16	0	3	80	0.86
3528122--3528174	11	4.9	11	81	4	72	15	0	3	81	0.83
3528127--3528167	21	2.0	21	90	0	64	14	0	4	80	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3529453--3529486	17	1.9	18	88	5	52	73	2	23	0	0.97
3537949--3538817	45	19.2	45	90	1	1193	33	18	22	24	1.97
3538532--3538605	25	3.2	25	62	25	61	33	18	22	24	1.97
3538837--3538983	45	3.3	45	90	0	231	33	20	21	25	1.97
3538716--3538938	121	1.8	121	92	0	374	35	17	20	26	1.95
3538664--3539038	166	2.3	166	91	2	603	34	18	21	24	1.96
3539718--3539775	22	2.7	22	81	2	64	31	10	18	39	1.85
3540141--3540303	55	3.0	54	80	7	204	26	20	15	36	1.93
3541174--3541345	74	2.3	75	82	3	195	30	22	14	32	1.94
3543825--3543887	32	2.0	32	93	0	108	22	17	17	42	1.89
3544343--3544389	16	2.9	15	79	14	58	0	23	0	76	0.78
3547230--3547273	21	2.2	20	83	4	52	54	9	15	20	1.68
3548794--3548826	17	1.9	17	88	11	50	72	0	0	27	0.85
3548803--3548874	29	2.5	29	84	10	94	62	0	1	36	1.04
3550258--3550283	8	3.2	8	100	0	52	11	23	0	65	1.25
3550824--3550869	23	2.0	23	91	0	74	26	13	47	13	1.78
3551170--3551223	19	2.8	20	73	23	53	14	7	5	72	1.26
3553463--3553512	21	2.4	21	86	0	73	16	34	32	18	1.92
3554158--3554226	15	4.5	15	82	7	75	26	7	24	42	1.80
3554164--3554224	32	1.9	32	86	0	86	26	8	22	42	1.81
3554881--3554962	40	2.0	40	95	0	146	32	12	23	31	1.91
3561929--3561974	18	2.6	18	96	0	83	21	32	0	45	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3571897--3571937	7	6.1	7	83	16	52	24	0	0	75	0.80
3571868--3571936	20	3.2	21	80	12	70	24	1	1	72	1.01
3571870--3571932	19	3.3	19	80	4	72	23	1	1	73	1.01
3571868--3571929	14	4.1	15	76	19	58	24	1	1	72	1.02
3582324--3582438	59	1.9	59	82	3	142	50	12	22	14	1.76
3582426--3582459	8	4.1	8	88	3	50	82	2	14	0	0.79
3582427--3582458	16	1.9	17	93	6	57	81	3	15	0	0.82
3583023--3583049	14	1.9	14	100	0	54	40	22	14	22	1.90
3583486--3583839	106	3.3	106	82	1	406	34	22	17	25	1.96
3584416--3584462	2	23.0	2	79	12	51	42	4	2	51	1.33
3584417--3584475	11	5.2	11	80	8	55	40	3	5	50	1.41
3585626--3585669	16	2.7	16	78	3	52	20	4	0	75	0.98
3585717--3585743	8	3.4	8	100	0	54	37	0	0	62	0.95
3585735--3585780	19	2.4	19	85	7	58	19	2	4	73	1.10
3585751--3585793	15	2.7	17	79	17	56	20	0	2	76	0.89
3585751--3585807	17	3.5	17	76	11	57	17	3	3	75	1.09
3591614--3591650	17	2.0	20	85	15	53	54	29	5	10	1.57
3607747--3607818	32	2.2	32	82	4	83	22	20	27	29	1.99
3614271--3614374	42	2.5	41	80	13	113	7	16	3	72	1.23
3619603--3619643	11	3.5	12	80	12	50	73	2	14	9	1.19
3629870--3629918	25	2.0	25	84	8	64	34	0	24	40	1.55
3630095--3630352	54	4.8	54	83	0	327	32	13	18	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3632283--3632404	32	3.8	32	75	11	108	24	27	29	18	1.98
3636616--3636647	2	16.5	2	93	6	57	46	0	0	53	1.00
3637137--3637173	19	1.9	19	88	0	56	51	10	8	29	1.65
3638757--3638809	21	2.5	22	79	11	67	30	24	15	30	1.95
3654295--3654377	42	2.0	43	92	2	141	39	22	10	26	1.87
3658686--3658726	23	1.9	21	85	14	57	56	0	0	43	0.99
3659034--3659115	30	2.7	30	86	0	110	34	29	8	28	1.87
3659756--3659796	23	1.9	21	85	14	57	56	0	0	43	0.99
3660103--3660184	30	2.7	30	84	0	101	32	29	9	28	1.89
3660822--3660862	23	1.9	21	85	14	57	56	0	0	43	0.99

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