genome.fa.s2341.2.7.7.80.10.50.1000.2.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: VEPZ01002341.1 Hibiscus syriacus cultivar Beakdansim tig00004779_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1266629

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 574 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)
333971--334078	31	3.5	31	77	8	112	27	17	20	34	1.95
335618--335683	23	2.9	23	80	8	71	19	22	22	34	1.96
336384--336433	26	1.9	26	91	0	82	24	24	18	34	1.96
337828--337902	29	2.6	29	84	0	96	18	40	26	14	1.90
337829--337916	29	3.0	29	84	0	95	20	37	30	11	1.88
338867--338891	13	1.9	13	100	0	50	64	0	4	32	1.12
339336--339368	11	2.9	12	86	13	52	69	0	0	30	0.88
339336--339368	6	5.8	6	89	10	52	69	0	0	30	0.88
339656--339798	75	1.9	74	92	4	243	46	3	8	41	1.51
347322--347388	32	2.2	29	80	20	75	35	0	7	56	1.27
347986--348037	21	2.5	21	90	0	86	44	26	0	28	1.55
347991--348037	7	6.7	7	87	0	67	44	25	0	29	1.54
348448--348498	22	2.4	22	81	12	61	50	5	11	31	1.62
353020--353124	51	2.1	51	92	0	174	32	19	9	39	1.84
353489--353531	2	21.5	2	100	0	86	51	0	0	48	1.00
359365--359389	12	2.1	12	100	0	50	64	0	28	8	1.22
360281--360319	20	2.0	20	89	0	60	38	5	15	41	1.69
360333--360425	20	5.0	20	70	26	71	34	5	10	49	1.60
360280--360424	53	2.8	53	93	1	247	33	5	11	48	1.63
364995--365033	20	2.0	20	94	0	69	35	5	17	41	1.72
365047--365086	20	2.0	21	90	5	64	37	5	12	45	1.64
364994--365138	53	2.8	52	95	2	263	33	5	13	47	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365100--365139	20	2.0	20	95	0	71	37	5	12	45	1.64
368167--368213	21	2.2	21	100	0	94	42	21	14	21	1.88
372648--372713	23	2.9	23	81	0	78	18	24	24	33	1.97
377747--377814	23	3.0	23	82	0	82	19	25	25	30	1.98
381149--381204	7	8.0	7	100	0	112	14	28	0	57	1.38
388393--388456	32	2.0	32	93	0	110	43	3	23	29	1.69
393268--393344	33	2.6	29	81	16	102	11	7	33	46	1.69
393268--393336	33	2.1	33	94	0	120	13	8	36	42	1.75
393958--394001	18	2.6	17	85	7	54	29	27	2	40	1.68
420811--420870	30	2.0	30	100	0	120	43	16	10	30	1.81
421734--421775	22	1.9	22	85	0	57	57	2	0	40	1.12
421951--421986	17	2.1	17	94	0	63	44	0	11	44	1.39
424242--424273	15	2.1	15	100	0	64	25	18	12	43	1.85
433414--433460	21	2.2	21	96	0	85	29	34	21	14	1.93
433456--433593	42	3.3	42	85	8	167	20	22	21	36	1.95
433489--433635	65	2.3	65	90	2	226	20	21	21	36	1.95
433557--433639	42	2.0	42	95	0	148	20	18	24	37	1.94
433461--433635	21	8.3	21	73	16	132	20	20	21	37	1.95
434478--434542	21	3.2	19	70	16	58	32	21	18	27	1.97
434482--434561	42	1.9	42	92	0	133	37	22	17	22	1.94
434528--434577	23	2.3	22	86	6	66	40	18	14	28	1.89
434537--434588	23	2.3	23	93	0	86	34	15	17	32	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
434537--434605	23	3.1	23	85	8	81	36	15	18	28	1.92
434593--434647	21	2.6	21	79	0	65	30	25	20	23	1.98
436108--436163	23	2.4	23	80	11	62	58	1	3	35	1.26
438127--438207	40	2.0	40	95	0	144	33	16	18	32	1.93
439202--439452	125	2.0	125	97	0	475	36	15	25	23	1.93
442698--442855	21	7.8	20	70	7	77	38	24	17	19	1.92
442842--442974	20	6.7	20	87	1	187	32	27	21	19	1.97
442822--442974	40	3.8	40	84	1	119	33	25	20	19	1.96
443356--443426	33	2.2	33	92	0	115	11	22	18	47	1.80
443505--443613	20	5.8	20	76	15	115	44	18	24	11	1.83
443498--443613	33	3.1	36	80	17	139	45	17	25	11	1.81
443564--443620	14	3.7	14	75	20	60	43	22	24	8	1.81
443517--443625	33	3.1	33	88	10	146	45	19	24	10	1.81
443632--443729	19	5.7	19	70	22	90	11	22	22	43	1.84
443654--443743	14	5.7	14	69	23	63	10	23	23	43	1.83
443637--443751	33	3.5	33	95	0	212	10	22	20	46	1.81
445445--445913	93	5.1	93	99	0	913	21	12	19	46	1.83
445961--446089	19	7.3	19	73	17	116	45	27	17	9	1.78
445997--446089	33	2.8	32	90	4	141	46	26	18	8	1.78
445961--446089	52	2.5	52	74	12	138	45	27	17	9	1.78
446085--446219	19	7.6	19	73	16	119	11	18	23	46	1.81
446107--446163	14	3.7	14	77	20	60	10	21	22	45	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446090--446182	33	2.8	33	95	0	168	10	20	21	47	1.80
448130--448165	14	2.6	14	90	0	54	30	0	22	47	1.52
448272--448368	19	5.4	18	83	14	121	45	17	21	15	1.85
448272--448386	53	2.2	53	95	3	207	43	18	23	14	1.87
448400--448544	19	8.6	16	82	14	77	13	22	17	45	1.84
448415--448597	19	10.4	19	78	18	218	14	21	18	46	1.83
448415--448630	71	3.1	72	92	4	338	13	21	18	45	1.84
448433--448611	33	5.2	33	85	10	261	13	21	18	46	1.83
450891--450915	12	2.1	12	100	0	50	0	28	0	72	0.86
451090--451136	24	2.0	24	87	8	69	38	21	14	25	1.92
451817--452046	20	11.5	20	85	1	237	19	18	24	36	1.94
452033--452115	21	4.0	21	73	6	78	25	16	24	33	1.96
452013--452111	42	2.4	43	77	11	100	21	18	23	37	1.94
458359--458396	20	1.9	20	100	0	76	18	5	23	52	1.65
458726--458884	60	2.7	60	83	2	178	38	3	20	37	1.68
469411--469455	22	2.0	22	95	0	81	24	11	26	37	1.89
473432--473472	21	1.9	22	90	5	66	43	24	4	26	1.74
486561--486608	23	2.1	23	92	0	78	39	8	18	33	1.81
486525--486686	87	1.9	87	96	0	297	41	10	14	33	1.80
486703--487402	200	3.5	199	86	3	896	32	14	15	37	1.88
488415--488778	199	1.8	198	86	1	523	32	16	13	37	1.88
489187--489234	19	2.6	19	93	3	80	56	10	0	33	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493266--494248	181	5.4	182	86	2	1345	27	16	13	43	1.85
494213--494268	20	2.8	20	97	0	103	17	14	19	48	1.81
499027--499075	24	2.0	25	84	4	64	36	0	4	59	1.17
501653--501683	2	15.5	2	100	0	62	48	0	0	51	1.00
501829--501932	54	1.9	54	92	3	174	40	10	15	33	1.82
503457--503530	30	2.5	30	97	0	139	33	6	25	33	1.82
503641--503682	20	2.0	21	90	4	68	35	14	9	40	1.78
509854--509974	40	3.0	40	92	0	197	33	14	23	28	1.94
509944--510081	54	2.6	54	81	4	167	34	15	23	26	1.95
510446--510525	22	3.6	22	89	0	106	32	15	12	40	1.84
510910--512410	113	13.3	113	93	1	2404	36	14	19	29	1.92
512687--512769	3	26.7	3	87	7	112	32	0	0	67	0.91
514085--514183	3	34.0	3	71	17	75	30	3	1	65	1.14
514085--514183	13	7.5	13	72	22	57	30	3	1	65	1.14
514046--514123	21	3.5	21	71	23	70	32	2	1	64	1.15
514376--514417	20	2.2	19	86	4	57	33	0	2	64	1.07
514280--514509	120	1.9	120	83	4	295	39	7	7	46	1.60
528362--528421	31	1.9	31	93	0	102	40	6	10	43	1.64
528443--528509	22	3.1	21	91	6	107	52	11	0	35	1.39
528449--528518	22	3.2	21	78	11	70	54	12	0	32	1.39
528489--528892	32	14.2	32	68	27	249	52	12	0	34	1.39
528596--528642	22	2.1	22	88	7	69	57	4	0	38	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
528435--528892	54	8.3	54	73	17	345	52	12	0	34	1.39
528710--528762	14	3.5	14	72	18	52	56	5	0	37	1.23
528627--528892	92	3.1	90	82	13	353	52	12	0	34	1.39
528782--528827	22	2.0	22	87	4	65	54	10	0	34	1.36
528833--528881	22	2.2	22	85	3	62	55	12	0	32	1.37
528850--529007	45	3.3	45	79	11	165	49	3	0	47	1.17
528876--529007	15	8.5	15	81	10	149	50	1	0	48	1.10
529673--529698	2	13.0	2	100	0	52	50	0	0	50	1.00
535542--535600	15	3.9	15	80	4	66	10	32	23	33	1.88
535576--535628	15	3.3	15	78	14	52	11	35	20	32	1.88

Tables:   1   2   3   4   5