genome.fa.s482.2.7.7.80.10.50.1000.4.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: VEPZ01000482.1 Hibiscus syriacus cultivar Beakdansim tig00000916_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2886609

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

This is table  4  of  16  ( 1801 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)
565268--565327	30	2.0	30	93	6	104	33	6	16	43	1.74
565509--565582	20	3.7	20	81	3	94	18	27	24	29	1.98
565509--565591	41	2.0	41	88	4	123	19	26	26	27	1.99
568191--568259	30	2.2	30	85	15	95	34	5	17	42	1.73
568200--568259	30	2.0	30	93	6	104	33	6	16	43	1.74
568339--568530	20	9.7	20	75	14	105	22	29	20	26	1.99
568437--568539	41	2.5	41	86	7	131	18	27	25	29	1.98
568633--568672	20	1.9	21	85	10	55	37	37	10	15	1.80
574696--574748	18	2.9	18	94	0	88	22	18	32	26	1.97
574947--574995	2	24.5	2	95	0	89	48	2	0	48	1.12
576126--576152	6	4.5	6	100	0	54	44	0	0	55	0.99
581709--581745	17	2.2	17	100	0	74	40	0	16	43	1.48
584281--584487	35	5.9	35	87	2	297	34	19	26	19	1.95
584276--584487	71	3.0	71	95	0	379	35	18	26	18	1.95
586098--586128	13	2.4	13	94	0	53	61	3	0	35	1.12
588360--588444	42	2.0	42	90	0	134	21	8	16	54	1.68
588364--588454	42	2.2	42	83	0	119	20	9	18	50	1.75
588669--588715	21	2.3	20	85	7	60	46	0	0	53	1.00
588669--588726	19	2.9	20	84	5	64	46	0	0	53	1.00
588845--588921	23	3.2	23	74	10	66	54	1	0	44	1.08
588831--588918	35	2.6	35	77	13	94	54	1	0	44	1.07
588897--588978	22	3.8	22	71	16	64	54	0	1	43	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
588895--588938	19	2.2	20	84	11	56	59	0	0	40	0.98
589136--589217	30	2.8	30	82	12	82	39	8	3	48	1.51
589152--589217	15	4.4	15	73	7	62	39	9	4	46	1.56
591303--591381	39	2.0	40	97	2	151	32	15	5	46	1.67
595910--595947	7	5.3	7	96	3	67	0	26	0	73	0.83
598245--598319	3	25.0	3	83	5	89	41	0	0	58	0.98
598247--598317	15	4.9	15	84	8	103	42	0	0	57	0.98
598766--598804	16	2.4	16	83	8	53	51	35	12	0	1.40
599856--599899	22	2.0	22	81	0	52	50	0	0	50	1.00
599968--600016	25	2.0	24	84	7	64	44	4	2	48	1.33
611169--611234	10	7.2	9	75	17	57	80	1	16	1	0.87
611169--611201	16	2.1	15	94	5	57	84	3	12	0	0.72
611590--611638	19	2.8	17	81	9	55	38	8	4	48	1.52
611933--612382	115	3.9	115	96	0	796	33	15	19	30	1.93
611933--612382	229	2.0	229	94	0	794	33	15	19	30	1.93
613312--613973	113	5.8	113	86	5	773	37	14	19	29	1.91
613777--614061	124	2.3	122	84	8	348	41	15	19	23	1.89
614204--614275	3	24.0	3	88	5	74	43	0	0	56	0.99
614204--614293	30	3.0	30	83	6	128	48	0	0	51	1.00
614719--614755	16	2.3	16	90	9	58	51	32	16	0	1.45
615783--615826	22	2.0	22	81	0	52	50	0	0	50	1.00
615895--615943	25	2.0	24	84	7	64	44	4	2	48	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
616543--616582	15	2.6	16	92	7	66	15	17	0	67	1.23
618133--618257	63	2.0	63	87	0	178	23	27	20	28	1.99
619107--619338	66	3.5	66	82	4	270	26	22	30	20	1.98
622334--622411	2	39.0	2	100	0	156	50	0	0	50	1.00
623411--623442	16	2.0	16	100	0	64	6	6	6	81	0.99
623413--623448	16	2.2	16	90	0	54	11	2	5	80	0.98
624052--624090	18	2.3	16	86	8	51	35	5	2	56	1.35
624667--624700	18	1.9	18	88	5	52	50	2	0	47	1.16
625257--625366	36	3.1	36	97	2	204	41	8	24	25	1.82
626068--626458	139	2.8	137	77	9	386	46	11	11	30	1.75
630867--630942	33	2.3	33	95	0	134	23	21	19	35	1.96
631818--631878	30	2.0	30	96	0	113	44	14	9	31	1.78
632109--632137	14	2.0	15	93	6	51	48	27	0	24	1.51
633571--633622	24	2.2	24	82	0	59	44	15	9	30	1.78
634149--634253	41	2.6	41	89	7	160	18	23	33	24	1.97
634601--634677	40	1.9	41	91	2	129	35	2	10	51	1.50
638061--638141	14	6.1	14	71	18	66	46	2	7	43	1.45
638370--638512	11	11.7	11	72	22	76	43	1	7	47	1.40
638355--638420	27	2.4	27	80	9	80	43	1	7	46	1.41
638401--638574	64	2.8	63	84	8	239	41	1	7	48	1.41
638362--638521	24	6.4	25	70	16	93	43	1	6	48	1.37
638423--638566	24	5.8	24	71	14	105	41	0	7	50	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
638483--638556	21	3.3	21	76	16	62	40	0	8	51	1.32
638483--638611	48	2.8	48	80	9	133	43	2	7	46	1.45
641672--641752	14	6.1	14	71	16	73	46	1	7	44	1.39
641983--642125	11	11.7	11	72	22	76	43	1	7	47	1.40
641968--642033	27	2.4	27	80	9	80	43	1	7	46	1.41
642014--642187	64	2.8	63	84	8	239	41	1	7	48	1.41
641975--642134	24	6.4	25	70	16	93	43	1	6	48	1.37
642036--642179	24	5.8	24	71	14	105	41	0	7	50	1.36
642096--642169	21	3.3	21	76	16	62	40	0	8	51	1.32
642181--642235	27	2.0	27	82	6	67	47	1	9	41	1.46
642205--642244	13	3.3	13	76	16	50	42	5	10	42	1.60
642096--642235	48	3.0	47	77	14	121	42	2	8	46	1.46
642207--642256	22	2.2	24	89	7	77	40	4	12	44	1.60
642810--642842	16	2.1	16	88	5	50	42	27	9	21	1.83
642938--643016	22	3.3	23	87	8	106	44	0	3	51	1.19
642938--643016	13	6.7	12	74	24	62	44	0	3	51	1.19
642947--643001	10	5.2	10	80	18	58	45	0	1	52	1.11
642933--643166	24	9.8	24	70	20	109	43	0	8	47	1.37
643020--643051	16	2.0	16	100	0	64	37	0	18	43	1.51
646285--646334	23	2.2	23	88	0	73	40	8	20	32	1.81
646248--646410	87	1.9	87	90	0	263	42	12	13	31	1.81
646429--646927	198	2.5	195	84	6	612	31	15	15	37	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
650645--650704	23	2.7	23	72	10	63	20	23	35	21	1.96
654362--654405	21	2.2	20	84	12	54	27	13	6	52	1.66
659772--660884	197	5.6	198	87	4	1479	30	13	15	39	1.87
662273--662322	3	16.7	3	82	0	64	26	32	2	40	1.67
663132--663167	2	18.0	2	100	0	72	50	0	0	50	1.00
663472--663524	15	3.5	15	92	0	88	32	3	47	16	1.65
664052--664214	82	2.0	83	95	1	292	27	17	14	40	1.88
664139--664649	197	2.6	197	93	0	896	30	15	15	38	1.89
664982--665031	19	2.6	19	93	0	82	60	10	0	30	1.30
666155--666190	17	2.1	17	100	0	72	30	11	8	50	1.67
666492--666530	18	2.2	18	90	0	60	5	33	0	61	1.18
666884--666913	15	2.0	15	93	0	51	16	50	13	20	1.78
669126--669172	20	2.3	20	78	7	60	14	21	14	48	1.80
669089--669750	182	3.6	181	83	4	805	26	16	13	42	1.86
669089--669751	184	3.6	182	84	3	816	26	16	13	42	1.86
670186--670216	15	2.1	15	93	0	53	45	0	0	54	0.99
670478--670545	24	2.8	25	78	10	79	51	2	7	38	1.45
670430--670548	24	4.9	24	68	20	68	47	3	7	42	1.48
670551--670629	32	2.5	32	80	13	83	39	3	1	55	1.26
670545--670627	40	2.1	39	86	2	112	40	3	1	54	1.26
670548--670615	19	3.5	19	68	7	55	38	4	1	55	1.29
677651--677698	21	2.3	21	88	0	78	45	27	0	27	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
684962--685051	31	2.9	32	90	5	139	33	23	20	23	1.97
686800--686843	19	2.4	19	92	3	72	72	0	4	22	1.02
686798--686843	23	2.0	23	83	8	58	71	0	4	23	1.03
687296--687325	12	2.5	12	88	0	51	66	3	23	6	1.30
687491--687531	19	2.2	19	86	0	55	48	14	0	36	1.44
694960--694990	15	2.0	16	93	6	55	70	3	0	25	1.02
695577--695802	76	3.1	74	80	8	237	54	12	1	30	1.48
700203--700232	15	2.0	15	93	0	51	76	13	0	10	1.01
705943--706105	43	3.7	43	83	3	139	28	21	25	24	1.99
705961--706179	43	5.1	43	86	0	267	27	22	22	27	1.99

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