genome.fa.s9620.2.7.7.80.10.50.1000.3.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: VEPZ01009620.1 Hibiscus syriacus cultivar Beakdansim tig00117009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1051670

Tables:   1   2   3   4   

This is table  3  of  4  ( 465 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)
476592--477234	170	3.8	170	90	2	927	17	26	24	31	1.97
479257--479331	13	5.4	13	77	14	69	17	45	18	18	1.86
479251--479337	31	2.7	31	80	5	93	17	43	19	19	1.88
479306--479344	8	5.4	8	77	22	50	15	41	23	20	1.90
480640--480680	18	2.3	18	86	0	55	53	2	17	26	1.56
482140--482719	42	13.6	42	94	1	890	16	26	25	32	1.96
482140--482719	86	6.8	84	93	2	890	16	26	25	32	1.96
482167--482719	212	2.6	212	93	1	910	16	25	25	32	1.96
484765--484809	13	3.5	13	81	0	54	20	42	20	17	1.90
484743--484782	18	2.2	18	95	0	71	17	50	20	12	1.78
484799--484848	15	3.2	15	82	5	64	20	32	20	28	1.97
486132--486172	18	2.3	18	86	0	55	53	2	17	26	1.56
487631--488316	42	16.1	42	91	2	978	17	25	25	31	1.97
487631--488316	86	8.0	84	91	2	978	17	25	25	31	1.97
487631--488316	128	5.4	126	89	2	978	17	25	25	31	1.97
500126--500205	20	3.8	21	76	12	74	25	33	25	16	1.95
500137--500205	21	3.2	21	76	11	68	23	37	23	15	1.93
504131--504170	21	1.9	21	85	10	55	35	10	2	52	1.48
506713--506757	14	3.2	14	84	6	56	17	0	28	53	1.44
506718--506770	21	2.5	21	82	11	56	16	0	28	54	1.43
506840--506892	20	2.5	20	72	6	52	37	9	5	47	1.60
507227--507287	14	4.4	14	78	0	68	22	0	27	49	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507227--507287	28	2.2	27	85	5	86	22	0	27	49	1.50
507216--507282	21	3.2	22	74	16	61	22	0	28	49	1.50
507322--507375	2	27.0	2	82	14	67	51	1	1	44	1.22
507884--507935	14	3.7	14	94	0	86	21	0	32	46	1.52
507884--507935	7	7.4	7	82	0	68	21	0	32	46	1.52
508010--508039	13	2.3	13	100	0	60	40	0	6	53	1.27
508020--508070	20	2.4	21	74	9	59	41	7	5	45	1.57
508393--508453	14	4.4	14	83	8	61	19	0	32	47	1.50
508406--508453	7	6.9	7	87	0	69	18	0	35	45	1.50
508733--508761	13	2.1	14	93	6	51	51	0	0	48	1.00
509069--509120	21	2.5	22	75	6	54	17	0	28	53	1.44
509069--509127	14	4.2	14	78	8	66	16	0	28	54	1.43
509623--509677	7	7.9	7	85	0	65	16	0	32	50	1.45
509682--509783	49	2.1	47	82	8	116	38	7	5	48	1.57
509945--509973	13	2.1	14	93	6	51	51	0	0	48	1.00
510393--510441	2	24.0	2	95	4	89	48	2	0	48	1.12
510810--510870	14	4.3	15	79	8	58	16	0	34	49	1.46
510814--510870	21	2.7	20	76	10	60	15	0	35	49	1.45
510810--510861	7	7.4	7	74	8	52	15	0	34	50	1.45
510951--510986	18	1.9	19	94	5	65	38	0	13	47	1.44
511138--511281	2	73.5	2	68	19	81	45	4	3	46	1.39
511232--511267	15	2.4	15	90	0	54	41	2	8	47	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
511490--511534	19	2.3	19	92	3	72	22	35	0	42	1.54
511490--511568	20	3.7	20	74	23	79	26	30	0	43	1.55
511645--511697	2	26.5	2	79	7	54	52	1	1	43	1.23
512202--512285	2	42.0	2	97	0	159	50	1	0	48	1.08
512207--512461	28	9.5	27	75	20	116	45	3	3	48	1.35
512208--512334	22	5.8	22	87	5	64	45	1	2	50	1.24
512320--512358	13	3.0	13	84	0	51	35	7	7	48	1.61
512397--512432	18	1.9	19	88	5	56	50	0	5	44	1.25
512195--512443	12	20.2	13	75	15	133	44	3	4	48	1.37
522761--522831	31	2.3	31	90	2	108	23	28	15	32	1.95
522768--522828	31	2.0	31	96	0	113	22	26	16	34	1.95
526593--526652	12	5.0	12	74	8	59	53	18	13	15	1.73
526583--526652	24	2.9	24	82	0	86	55	17	12	14	1.69
526593--526675	24	3.5	24	81	3	87	49	18	13	19	1.79
528456--528528	36	2.0	36	94	0	128	28	19	9	42	1.82
529198--529237	18	2.2	18	95	0	71	17	22	42	17	1.89
529190--529220	13	2.4	13	94	0	53	19	22	41	16	1.89
531291--531383	12	7.8	12	71	9	73	48	18	15	18	1.81
531289--531397	24	4.5	24	77	6	114	47	17	16	18	1.83
531287--531397	48	2.3	48	86	6	145	47	17	16	18	1.83
532508--532545	18	2.1	18	95	0	67	39	18	0	42	1.50
533167--533239	36	2.0	36	97	0	137	28	20	9	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
533892--533921	13	2.3	13	94	0	51	23	23	40	13	1.90
533905--533943	18	2.2	18	100	0	78	15	20	46	17	1.84
536015--536048	17	2.0	17	88	0	50	50	17	14	17	1.79
535996--536065	12	5.8	12	73	6	61	51	17	14	17	1.77
535995--536102	24	4.5	25	74	12	100	47	16	15	20	1.83
537213--537250	18	2.1	18	95	0	67	39	18	0	42	1.50
537874--537946	36	2.0	36	97	0	137	28	20	9	41	1.84
538600--538629	13	2.3	13	94	0	51	20	20	43	16	1.88
538613--538651	18	2.2	18	90	9	62	15	20	46	17	1.84
550556--550599	18	2.4	19	85	11	56	38	25	0	36	1.56
552161--552194	15	2.3	15	89	0	50	32	0	5	61	1.20
553604--553644	20	2.0	20	86	9	57	19	4	0	75	0.98
553665--553722	18	3.2	19	77	18	61	22	6	0	70	1.10
555305--555361	26	2.2	25	79	11	62	15	17	8	57	1.63
555815--555844	11	2.7	11	100	0	60	93	0	0	6	0.35
557333--557956	105	5.9	105	96	0	1131	32	24	18	23	1.97
558061--558265	83	2.4	83	86	1	266	32	25	20	20	1.98
558514--558547	15	2.3	15	89	0	50	32	0	5	61	1.20
559985--560027	4	10.8	4	81	18	54	23	2	0	74	0.93
559984--560073	21	4.2	21	72	18	69	21	4	2	72	1.13
560057--560119	19	3.2	20	76	17	69	22	6	0	71	1.08
560726--560774	2	24.5	2	100	0	98	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
566614--566674	32	1.9	32	86	0	86	21	24	31	22	1.98
576975--577012	20	1.9	20	94	0	67	44	13	23	18	1.85
576975--577018	20	2.3	19	88	7	63	45	11	25	18	1.82
581634--581951	81	4.0	80	82	6	304	28	22	9	39	1.84
581713--581954	81	3.0	81	88	0	367	29	22	10	37	1.87
581905--582364	68	6.8	68	90	2	708	31	25	14	28	1.95
582614--582792	59	3.1	59	86	4	256	38	21	8	31	1.83
582581--582792	118	1.8	111	88	8	318	38	19	8	33	1.81
583157--583337	95	1.9	96	88	2	276	25	20	16	38	1.92
583328--583381	20	2.7	20	83	11	65	27	20	18	33	1.96
589969--590008	12	3.3	12	83	13	55	45	0	0	55	0.99
592822--592906	29	2.9	29	98	0	161	29	17	25	27	1.98
596801--596832	16	2.0	16	93	0	55	46	0	0	53	1.00
597037--597067	16	1.9	16	93	0	53	12	22	29	35	1.91
602129--602180	21	2.4	21	80	6	59	34	13	1	50	1.53
602301--602327	2	13.5	2	100	0	54	48	0	0	51	1.00
603313--603376	22	2.8	23	88	4	94	29	21	15	32	1.95
635849--635949	37	2.8	37	93	3	170	44	16	20	17	1.87
651661--652755	551	2.0	548	84	3	1430	30	16	21	31	1.95
653317--653365	21	2.4	20	75	3	53	46	18	2	32	1.60
662519--662567	22	2.2	23	82	17	59	51	0	4	44	1.20
662596--662644	22	2.2	23	85	3	64	40	2	2	55	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
683822--683852	15	2.1	15	100	0	62	45	22	6	25	1.76
687340--687606	57	4.8	57	88	2	310	35	10	19	34	1.86
693590--693640	22	2.5	21	81	12	61	35	11	17	35	1.87
693983--694426	57	8.0	57	90	3	480	35	10	19	34	1.87
694268--694358	27	3.4	27	64	17	71	36	13	20	29	1.91
694228--694426	54	3.7	54	91	3	188	36	12	20	31	1.89
695570--695610	20	2.0	20	90	0	64	41	19	9	29	1.83
696667--696705	18	2.2	18	95	0	69	43	10	7	38	1.67
702404--702526	39	3.2	39	83	1	149	28	38	13	20	1.90
708915--708958	19	2.3	19	84	4	52	38	27	11	22	1.88

Tables:   1   2   3   4