genome.fa.s8726.2.7.7.80.10.50.1000.3.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: VEPZ01008726.1 Hibiscus syriacus cultivar Beakdansim tig00111792_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1298898

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 701 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)
508202--508242	21	2.0	20	90	4	64	26	26	24	21	2.00
508355--508439	34	2.4	36	90	3	138	18	27	34	20	1.96
508429--508531	50	2.0	51	98	1	199	33	25	11	30	1.91
510398--510505	45	2.4	45	87	1	144	30	17	21	30	1.96
512730--512754	13	1.9	13	100	0	50	52	8	8	32	1.60
513167--513248	23	3.6	22	76	14	71	25	24	25	24	2.00
515138--515214	21	4.0	21	76	20	80	19	36	28	15	1.92
515142--515214	19	3.9	19	76	20	82	19	35	28	16	1.93
518554--518594	20	2.0	20	100	0	82	19	36	29	14	1.92
518707--518748	21	2.0	21	90	0	66	26	21	26	26	1.99
523508--523559	19	2.7	19	87	0	77	30	21	26	21	1.98
523550--523670	65	1.9	65	86	5	174	30	19	20	28	1.97
525327--525351	12	2.1	12	100	0	50	16	0	0	84	0.63
525339--525376	20	1.9	20	88	0	58	18	7	0	73	1.06
525499--525563	14	4.8	14	76	17	57	52	21	0	26	1.47
525499--525563	20	3.2	20	71	2	58	52	21	0	26	1.47
526002--526055	21	2.5	22	78	9	65	44	3	0	51	1.19
526263--526300	13	2.8	14	84	8	51	60	0	0	39	0.97
526620--526668	2	24.5	2	100	0	98	51	0	0	48	1.00
527017--527054	4	9.0	4	94	5	58	71	0	0	28	0.87
527154--527203	12	4.2	12	78	12	50	74	2	2	22	1.03
527188--527254	26	2.5	26	85	2	89	65	0	1	32	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
528514--528747	36	6.6	36	76	17	213	39	13	20	26	1.89
528548--528734	102	1.8	102	86	6	272	39	12	19	27	1.89
528812--528884	37	2.0	37	91	5	121	42	13	17	26	1.87
528814--528898	37	2.3	37	86	8	111	45	12	16	24	1.82
528785--529024	102	2.4	102	89	0	363	37	12	18	32	1.88
528914--529000	37	2.4	36	82	1	93	37	14	21	25	1.92
528933--529111	87	2.1	87	91	2	288	34	11	19	34	1.88
528831--529212	189	2.0	189	83	3	473	38	11	18	31	1.87
529743--529854	32	3.5	32	84	7	129	36	20	12	30	1.90
530976--531132	47	3.4	47	92	3	250	34	19	7	38	1.81
530961--531146	47	4.2	41	85	9	153	32	20	7	38	1.81
533476--533538	25	2.6	25	89	2	92	22	23	25	28	1.99
535327--535360	7	4.7	7	89	7	50	52	14	17	14	1.74
537268--537336	9	7.6	9	72	13	52	69	0	1	28	0.97
537227--537336	47	2.4	47	79	10	115	71	0	4	23	1.04
537301--537369	33	2.1	32	89	2	102	63	0	1	34	1.03
539346--539397	17	2.8	18	80	14	61	57	0	11	30	1.34
541187--541289	54	1.9	54	81	0	125	38	19	13	28	1.90
545816--546306	5	98.4	5	91	8	815	40	0	0	59	0.97
547906--548140	15	15.5	15	87	7	325	46	0	1	51	1.08
548083--548185	22	4.5	22	72	7	98	37	0	8	53	1.32
548038--548195	69	2.3	67	88	6	230	41	0	5	52	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548120--549088	54	18.1	54	75	14	868	33	0	13	52	1.42
548197--548239	22	2.0	22	100	0	86	34	0	13	51	1.42
548275--548303	14	2.0	15	93	6	51	41	0	0	58	0.98
548305--548373	22	3.0	22	74	15	75	30	0	18	50	1.47
548120--548637	80	6.5	80	76	12	437	33	0	13	52	1.41
548350--548401	18	3.1	18	68	21	58	26	0	15	57	1.38
548385--548609	26	9.0	22	65	23	81	32	0	15	52	1.44
548596--548668	31	2.3	29	95	2	92	31	0	12	56	1.36
548566--549184	319	1.9	327	92	4	1049	33	0	13	52	1.43
548566--549168	80	7.5	80	90	4	896	33	0	14	52	1.43
548732--548800	22	3.0	22	74	15	75	33	0	15	50	1.45
548820--548876	22	2.6	22	100	0	114	36	0	12	50	1.40
548856--548991	32	4.7	30	80	19	164	33	0	13	52	1.40
548888--548930	22	2.0	22	100	0	86	34	0	13	51	1.42
548933--548987	14	3.2	18	68	21	55	29	0	14	56	1.39
548621--549180	239	2.3	243	92	3	922	33	0	13	52	1.43
549197--549253	30	1.9	30	92	0	96	45	7	7	40	1.58
557620--558231	262	2.3	260	85	3	800	38	11	14	35	1.82
563135--563171	15	2.6	14	86	4	56	78	0	18	2	0.87
563135--563192	20	2.9	19	87	7	80	77	0	17	5	0.94
564119--564214	47	2.0	47	82	11	117	27	18	10	43	1.82
564403--564446	18	2.4	19	81	7	56	36	15	2	45	1.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
564485--564613	62	2.0	64	82	5	156	28	19	9	42	1.82
564555--564759	72	2.8	72	85	1	277	27	19	11	41	1.85
564992--565082	37	2.6	34	84	6	103	35	15	8	40	1.78
565024--565334	102	3.1	102	84	0	417	30	16	13	39	1.87
565232--565302	36	1.9	37	88	2	108	29	16	12	40	1.86
565024--565369	102	3.4	100	81	4	383	31	16	12	39	1.86
565519--565548	3	10.0	3	100	0	60	33	0	0	66	0.92
566817--566848	14	2.3	14	94	0	55	28	3	6	62	1.34
574204--574291	3	29.3	3	95	0	158	30	0	2	67	1.03
574676--574709	5	6.6	5	96	3	59	23	35	0	41	1.55
579983--580339	185	1.9	184	95	0	642	43	11	5	40	1.63
580345--580376	2	16.0	2	100	0	64	50	0	0	50	1.00
585818--585854	4	9.2	4	100	0	74	0	75	0	24	0.80
587943--587975	14	2.4	14	90	10	50	42	0	0	57	0.98
587941--587973	12	2.9	12	91	8	52	42	0	0	57	0.98
595772--595815	2	22.0	2	100	0	88	50	0	0	50	1.00
598901--598938	18	2.1	18	90	0	58	34	7	5	52	1.53
599350--599389	21	1.9	21	94	0	71	32	30	15	22	1.94
599415--599453	19	2.1	19	95	0	69	20	38	15	25	1.92
599350--599514	64	2.5	65	84	6	192	32	25	15	26	1.96
599350--599559	64	3.2	63	80	7	190	31	25	15	27	1.96
605353--605432	24	3.5	22	75	14	83	23	26	22	27	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607943--607982	21	1.9	21	94	0	71	32	30	15	22	1.94
608008--608044	19	1.9	19	94	0	65	21	37	16	24	1.93
607943--608173	64	3.6	63	81	7	218	31	25	16	26	1.96
608124--608172	19	2.6	19	84	9	57	24	30	18	26	1.98
608140--608178	19	2.1	19	85	0	51	23	25	23	28	1.99
612399--612459	22	2.8	22	90	5	88	31	19	22	26	1.98
624817--624841	3	8.3	3	100	0	50	32	68	0	0	0.90
626362--626421	20	3.0	20	100	0	120	50	5	20	25	1.68
626702--626753	20	2.6	20	78	6	61	32	13	26	26	1.94
627551--627633	23	3.7	23	80	6	100	25	21	25	27	1.99
627551--627646	23	4.3	22	80	11	99	26	19	25	29	1.99
631222--631286	30	2.2	29	83	8	78	44	7	16	30	1.76
634449--634488	20	2.0	20	95	0	71	35	22	20	22	1.96
637957--638016	31	2.0	31	84	15	81	33	6	23	36	1.81
637957--638016	30	2.0	30	84	15	79	33	6	23	36	1.81
640155--640194	20	2.0	20	95	0	71	32	22	20	25	1.98
651419--651470	20	2.6	21	76	11	56	36	9	25	28	1.87
652310--652385	23	3.4	23	81	3	102	22	22	26	28	1.99
653319--653353	16	2.1	17	89	5	54	68	5	2	22	1.24
656505--656600	30	3.2	31	79	5	81	34	27	19	18	1.96
658829--658898	29	2.4	30	90	2	106	38	11	17	32	1.85
659050--659075	12	2.2	12	100	0	52	34	19	15	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
661340--661373	17	2.0	17	100	0	68	17	17	23	41	1.90
665078--665128	21	2.5	21	90	3	86	41	9	0	49	1.36
665295--665332	18	2.1	18	95	0	67	57	13	0	28	1.36
665716--665777	21	3.0	21	80	0	79	22	22	30	24	1.99
665770--665855	42	2.0	42	86	0	118	16	22	36	25	1.94
673571--673705	74	1.9	71	89	4	207	36	7	3	52	1.47
676663--676720	16	3.8	15	73	17	57	50	0	1	48	1.11
676663--676722	29	2.0	30	87	3	86	50	0	1	48	1.11
679916--679961	20	2.3	19	85	14	58	50	8	15	26	1.73
692566--692612	17	2.7	17	90	3	76	23	19	17	40	1.91

Tables:   1   2   3   4   5   6