genome.fa.s8013.2.7.7.80.10.50.1000.3.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: VEPZ01008013.1 Hibiscus syriacus cultivar Beakdansim tig00110478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1461402

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 699 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)
483204--483246	13	3.2	13	86	3	50	51	6	2	39	1.42
483483--483515	15	2.2	15	89	10	50	48	12	18	21	1.80
484276--484360	28	3.0	29	87	1	100	41	17	4	36	1.71
484264--484389	57	2.2	56	81	8	146	41	20	4	33	1.73
484277--484420	29	5.0	30	86	3	147	38	22	4	34	1.75
484277--484420	57	2.5	58	80	7	143	38	22	4	34	1.75
484441--484488	18	2.8	17	81	6	60	16	22	41	18	1.90
484441--484495	17	3.2	17	77	10	58	16	21	43	18	1.88
499108--499146	17	2.4	17	95	4	71	51	5	0	43	1.24
499282--499333	16	3.6	16	75	24	69	36	21	13	28	1.91
499270--499330	27	2.3	27	97	2	115	34	21	14	29	1.93
513595--513626	12	2.7	12	90	0	55	56	12	18	12	1.67
516680--516754	28	2.7	28	89	4	116	25	13	21	40	1.89
525759--525784	2	13.0	2	100	0	52	50	0	0	50	1.00
526794--526825	16	2.0	16	93	0	55	34	0	12	53	1.39
532080--532114	2	17.5	2	100	0	70	48	0	0	51	1.00
533270--533519	20	12.5	20	81	6	220	38	24	17	20	1.93
534418--534442	12	2.1	12	100	0	50	72	0	28	0	0.86
537006--537041	14	2.6	14	95	0	63	33	0	22	44	1.53
537148--537266	19	6.5	19	87	10	185	46	16	21	15	1.84
537148--537266	33	3.2	36	84	12	163	46	16	21	15	1.84
537273--537355	19	4.6	19	76	14	95	18	21	16	43	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
537166--537283	53	2.2	53	95	1	211	44	16	23	14	1.85
537414--537543	33	3.8	33	87	10	197	45	17	23	13	1.84
537414--537564	19	8.4	19	82	14	205	45	17	23	14	1.85
537414--537564	71	2.1	72	98	1	295	45	17	23	14	1.85
537414--537581	52	3.2	52	88	5	225	44	17	24	14	1.86
537464--537581	33	3.4	32	69	23	96	44	16	23	14	1.85
537571--537653	19	4.6	19	76	14	95	16	20	18	44	1.87
537148--537993	298	2.9	290	92	4	1331	34	19	18	27	1.95
537712--537827	19	6.6	19	74	19	117	43	18	23	15	1.88
537712--537827	52	2.2	52	95	1	205	43	18	23	15	1.88
537834--537933	19	5.5	19	84	12	147	15	23	17	45	1.85
537817--537933	53	2.2	53	95	1	209	14	24	17	43	1.86
538040--538076	14	2.6	14	91	0	65	45	21	0	32	1.52
540042--540098	14	3.7	14	77	20	60	45	22	21	10	1.82
540023--540115	33	2.8	33	95	0	168	47	21	20	10	1.80
539986--540120	19	7.6	19	76	16	128	45	23	19	11	1.82
540116--540244	19	7.3	19	75	17	125	8	17	28	45	1.77
540116--540207	33	2.8	33	93	3	150	7	18	28	45	1.76
540288--540668	93	4.1	93	98	0	735	46	18	12	22	1.83
542364--542439	14	4.7	14	74	22	53	42	23	25	9	1.83
542378--542461	19	4.7	19	78	14	97	42	22	23	10	1.85
542357--542461	52	2.0	51	92	1	174	43	20	24	10	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
542473--542529	14	3.7	14	75	20	60	8	24	22	43	1.81
542457--542537	33	2.5	33	95	0	144	8	22	22	46	1.78
542514--542589	21	3.7	21	83	3	109	11	25	17	46	1.82
542513--542590	41	1.9	41	97	0	147	12	25	16	44	1.83
542669--542739	33	2.2	33	86	0	97	47	15	23	12	1.80
543119--543312	20	9.6	20	82	5	221	19	19	25	35	1.95
543119--543312	60	3.2	60	83	0	253	19	19	25	35	1.95
543299--543381	21	4.0	21	73	6	78	25	16	24	33	1.96
543279--543377	42	2.4	43	77	11	100	21	18	23	37	1.94
548398--548907	99	5.3	96	79	7	295	30	43	7	18	1.77
548536--548694	48	3.5	46	78	10	164	25	45	4	23	1.71
548536--548657	42	2.8	42	80	7	109	25	45	3	26	1.69
548551--548694	42	3.3	42	74	11	117	24	47	4	23	1.71
548629--548990	99	3.7	99	93	0	589	28	47	6	17	1.73
548602--549230	48	12.9	48	70	12	388	28	46	6	17	1.73
548953--549035	27	3.3	26	70	19	86	27	50	2	19	1.60
548823--549131	147	2.1	141	89	3	474	27	47	5	18	1.71
548603--549231	99	6.4	98	80	8	334	28	46	6	17	1.73
548962--549272	93	3.2	94	82	8	362	30	45	6	16	1.73
548823--549182	147	2.5	143	84	6	386	28	46	6	17	1.73
549122--549272	48	3.1	47	69	11	126	33	46	7	13	1.70
548962--549272	96	3.2	96	80	10	393	30	45	6	16	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548962--549326	96	3.8	93	77	11	328	29	47	6	16	1.72
550440--550531	36	2.6	36	83	0	121	27	43	7	21	1.79
550586--550675	36	2.5	36	87	0	117	28	42	6	22	1.79
550470--551095	147	4.2	150	83	6	716	30	42	7	20	1.79
550744--550819	36	2.1	36	90	0	116	31	44	5	18	1.72
550783--550855	30	2.4	30	77	8	78	28	50	2	17	1.60
550769--551016	111	2.2	112	83	6	297	30	43	5	19	1.74
550920--551063	27	5.8	27	69	21	116	34	45	4	16	1.67
550980--551060	24	3.4	24	67	13	76	37	44	4	13	1.66
550938--551064	48	2.6	48	88	2	175	35	44	3	15	1.65
551197--552232	48	21.7	48	72	12	478	28	49	4	18	1.66
551197--552230	96	10.8	96	73	11	586	28	49	4	18	1.66
551233--552119	144	6.2	144	82	6	844	28	48	4	18	1.66
551830--552089	142	1.8	143	81	10	327	27	49	4	18	1.67
552055--552131	24	3.2	24	64	14	68	32	49	1	16	1.54
551907--552226	95	3.4	96	72	10	280	27	50	3	18	1.63
552175--552254	42	1.9	41	82	10	99	21	58	0	20	1.39
552012--552281	143	1.9	142	80	5	305	27	50	3	18	1.63
557182--557234	22	2.6	19	72	18	52	32	13	15	39	1.85
559112--559209	38	2.6	38	96	0	178	37	10	19	32	1.85
564540--564596	28	2.0	28	83	6	71	31	12	21	35	1.90
565402--565468	20	3.3	20	87	4	73	32	20	20	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
565422--565555	20	6.7	20	91	0	187	26	25	22	25	2.00
568088--568150	20	3.2	20	88	0	90	38	20	19	22	1.94
568183--568276	20	4.7	20	94	0	161	18	18	24	39	1.92
568183--568287	40	2.7	39	86	5	158	17	18	25	39	1.92
570280--570341	14	4.3	14	73	6	52	38	1	14	45	1.55
570504--570740	20	12.8	20	72	15	114	25	17	22	34	1.96
570490--570604	54	2.1	54	95	0	203	23	20	21	33	1.97
570504--570678	74	2.4	74	87	5	239	24	18	23	33	1.97
570576--570732	54	2.9	54	89	0	233	23	16	24	35	1.95
570711--570980	140	1.9	140	97	0	513	42	14	13	28	1.84
571040--571074	18	1.9	18	94	0	61	17	2	25	54	1.57
573111--573147	14	2.6	14	91	4	56	5	21	21	51	1.68
574200--574367	20	8.3	20	81	7	126	28	19	22	29	1.98
574235--574348	40	2.8	40	81	7	140	28	20	18	32	1.96
577623--577675	25	2.1	25	82	10	63	66	3	1	28	1.20
584291--584327	15	2.5	15	100	0	74	21	10	21	45	1.82
590249--590361	33	3.4	33	93	2	183	31	32	14	21	1.93
591111--591191	33	2.5	33	91	0	135	33	12	38	16	1.85
591611--591647	3	12.3	3	100	0	74	32	0	0	67	0.91
594343--594373	16	1.9	16	100	0	62	25	6	19	48	1.72
597510--597665	31	5.0	31	92	3	244	39	23	17	19	1.92
598317--598475	64	2.5	64	81	4	187	28	18	19	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
599001--599029	3	9.7	3	100	0	58	65	0	34	0	0.93
607718--607835	20	5.8	20	70	14	71	37	21	19	22	1.95
607781--608056	20	13.6	20	75	11	177	38	25	18	18	1.93
607781--608051	40	6.7	40	85	7	309	38	25	18	18	1.93
607781--608056	81	3.4	80	82	6	317	38	25	18	18	1.93
607781--608051	41	6.7	41	86	6	340	38	25	18	18	1.93
608614--608685	20	3.6	19	79	7	81	51	16	16	15	1.77
608717--608806	14	5.9	14	70	22	65	10	25	22	42	1.84
608710--608824	33	3.6	32	94	2	187	10	25	21	42	1.84
608792--608844	18	2.8	18	86	11	72	13	26	22	37	1.91

Tables:   1   2   3   4   5   6