genome.fa.s7837.2.7.7.80.10.50.1000.3.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: VEPZ01007837.1 Hibiscus syriacus cultivar Beakdansim tig00110186_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1003650

Tables:   1   2   3   4   

This is table  3  of  4  ( 457 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)
413544--413576	2	17.0	2	93	6	59	48	0	0	51	1.00
414469--414526	20	2.6	22	84	10	75	25	20	20	32	1.97
419085--419132	21	2.3	21	92	0	78	60	16	0	22	1.36
437492--437545	18	2.9	18	81	10	56	37	1	3	57	1.27
438056--438192	60	2.3	60	78	5	134	34	16	13	35	1.88
440963--441057	33	3.0	31	75	16	79	51	4	6	37	1.47
444128--444159	15	2.1	15	100	0	64	46	6	0	46	1.27
444565--444755	94	2.0	94	100	0	382	33	18	16	30	1.94
446040--446186	60	2.5	60	80	8	149	37	17	4	40	1.71
456521--456796	54	5.1	54	69	9	168	26	20	19	33	1.96
456748--457229	239	2.0	239	93	0	820	30	19	19	30	1.96
460073--460103	15	2.1	14	94	5	53	58	6	0	35	1.24
462030--462064	18	1.9	18	94	0	61	28	14	34	22	1.93
462218--462255	19	2.1	18	85	14	51	39	5	0	55	1.23
463875--463915	16	2.6	16	88	3	57	36	12	21	29	1.90
477142--477668	253	2.1	247	88	7	776	28	11	18	40	1.86
477915--477961	18	2.6	18	100	0	94	27	21	0	51	1.48
482539--482576	13	2.9	14	84	11	53	78	0	0	21	0.74
508000--508042	18	2.4	18	92	0	68	34	16	13	34	1.88
510148--510207	24	2.5	24	97	0	111	50	5	26	18	1.67
520374--520422	22	2.3	22	86	6	66	30	6	4	59	1.41
520721--520757	2	18.5	2	89	10	58	48	2	0	48	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
520854--520919	2	33.0	2	100	0	132	50	0	0	50	1.00
523389--523445	25	2.3	26	90	9	100	59	0	0	40	0.97
523397--523446	16	3.6	16	65	34	51	58	0	0	42	0.98
523876--523910	17	2.1	17	94	0	61	25	8	5	60	1.49
523878--523945	35	1.9	35	85	5	93	27	5	8	57	1.52
524585--524635	18	3.1	18	75	21	65	23	7	3	64	1.37
526867--526922	6	9.0	6	82	7	67	30	1	17	50	1.57
526867--526900	14	2.4	14	90	0	50	26	0	23	50	1.50
526867--526922	20	2.9	20	89	5	80	30	1	17	50	1.57
527439--527478	20	2.0	20	95	0	71	32	30	22	15	1.94
535379--535415	15	2.5	15	86	0	56	16	40	0	43	1.48
538262--538362	51	2.0	51	98	0	193	34	12	21	30	1.91
540123--540163	16	2.8	14	88	7	55	51	12	19	17	1.76
540123--540166	14	2.9	15	90	6	63	50	13	20	15	1.78
547564--547621	31	1.9	31	85	3	82	36	5	5	53	1.46
552272--552296	2	12.5	2	100	0	50	52	0	0	48	1.00
552468--552603	24	5.7	24	91	3	193	38	21	16	23	1.93
552476--552539	12	5.3	12	68	20	53	43	20	14	21	1.87
552488--552551	12	5.3	12	69	14	51	43	21	14	20	1.87
553717--553751	18	1.9	18	88	0	52	28	17	0	54	1.43
559026--559058	5	6.6	5	86	13	50	60	0	0	39	0.97
559143--559185	15	2.7	15	85	7	50	60	0	4	34	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562025--562064	16	2.5	16	87	0	53	42	7	5	45	1.54
562001--562047	22	2.1	22	96	0	85	46	8	6	38	1.60
562098--562135	13	3.1	13	81	11	53	42	5	5	47	1.48
562099--562178	24	3.3	23	76	10	72	40	8	3	47	1.52
562184--562274	21	4.4	21	64	20	66	50	8	1	39	1.41
562149--562280	61	2.2	59	87	5	185	46	9	3	40	1.52
566790--567261	235	2.0	227	86	10	649	28	12	17	41	1.86
567645--567691	18	2.7	18	80	3	60	29	27	6	36	1.82
567994--568031	15	2.7	14	84	11	51	57	0	0	42	0.98
575941--575985	23	2.0	23	86	0	63	26	28	24	20	1.99
575964--576267	149	2.0	149	99	0	599	35	20	16	27	1.94
576745--576898	67	2.3	68	89	3	238	16	26	27	29	1.97
578391--578514	62	2.0	62	98	0	239	25	16	12	46	1.81
586146--586178	2	16.5	2	100	0	66	51	0	0	48	1.00
599473--599536	3	21.3	3	100	0	128	32	0	0	67	0.91
607514--607553	21	1.9	20	85	10	53	57	0	17	25	1.40
613471--613531	30	2.0	30	90	0	95	26	24	14	34	1.94
616035--616572	269	2.0	266	98	1	1049	33	15	15	34	1.90
617410--617479	31	2.4	28	80	13	86	32	11	30	25	1.91
617419--617478	31	1.9	31	89	0	93	38	13	25	23	1.91
619836--620591	376	2.0	376	98	1	1471	34	22	16	26	1.95
621205--621229	2	12.5	2	100	0	50	48	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
633567--633605	19	2.1	19	95	0	69	48	5	2	43	1.38
639486--639531	22	2.1	22	88	8	67	43	2	2	52	1.25
639502--639565	33	2.0	32	84	3	83	53	4	0	42	1.22
652058--652098	8	5.2	8	82	5	57	34	0	29	36	1.58
652302--652509	104	2.0	104	94	1	364	20	25	22	31	1.98
652406--652760	127	2.8	128	96	0	640	20	23	22	33	1.97
653156--653262	34	3.1	34	86	0	151	36	2	4	56	1.35
653774--653888	21	5.5	21	85	4	151	24	26	30	18	1.98
653892--653939	21	2.3	21	85	0	60	25	12	37	25	1.91
655646--655734	34	2.7	31	79	6	88	58	2	0	39	1.11
655646--655725	34	2.4	33	81	8	92	60	1	0	38	1.05
657266--657309	21	2.1	21	100	0	88	31	18	15	34	1.92
663000--663042	21	2.0	21	81	0	50	27	27	25	18	1.98
663977--664934	4	243.2	4	96	3	1802	25	0	24	49	1.50
665109--665182	31	2.4	31	84	4	87	28	16	18	36	1.93
665120--665201	31	2.6	31	78	0	92	28	15	23	32	1.95
665187--665379	30	6.4	30	95	0	332	23	20	23	32	1.98
668779--668821	21	2.0	21	81	0	50	27	27	25	18	1.98
668849--668886	20	1.9	20	88	0	58	23	34	31	10	1.89
669392--669452	2	30.5	2	100	0	122	49	0	0	50	1.00
669782--669942	4	40.2	4	100	0	322	25	0	24	49	1.50
670128--670209	31	2.6	31	78	0	92	28	15	23	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
670195--670357	30	5.4	30	95	0	281	25	20	22	31	1.98
674705--674835	4	33.2	4	98	1	248	25	0	25	48	1.51
675028--675101	31	2.4	31	81	0	85	27	16	22	33	1.95
675087--675245	29	5.4	30	91	4	245	25	19	22	32	1.97
675087--675245	59	2.7	59	92	0	257	25	19	22	32	1.97
676332--676404	38	1.9	38	97	0	137	32	27	17	21	1.96
679815--679880	31	2.1	31	88	5	98	39	6	13	40	1.69
681243--681626	193	2.0	191	96	3	718	33	14	25	27	1.94
687230--687256	13	2.1	13	100	0	54	59	7	18	14	1.58
696297--696362	31	2.1	31	88	5	98	39	6	13	40	1.69
724802--724927	40	3.1	39	74	10	128	34	28	11	25	1.90
724861--724927	20	3.4	19	76	10	64	32	29	11	25	1.92
729200--729238	16	2.5	15	88	8	60	28	2	0	69	1.02
729574--730109	280	1.9	279	96	1	1004	39	8	5	45	1.59
731723--731749	10	2.7	10	100	0	54	7	11	11	70	1.34
734052--734098	24	2.0	24	91	0	76	12	27	46	12	1.78
735536--736255	106	6.8	105	94	1	1203	22	18	25	33	1.97
735536--736255	211	3.4	210	94	0	1246	22	18	25	33	1.97
740988--741034	24	2.0	24	91	0	76	12	27	46	12	1.78
742222--742283	23	2.7	22	82	9	70	3	40	0	56	1.15
742218--742284	19	3.5	19	79	6	73	2	40	0	56	1.14
760705--760788	31	2.7	31	83	5	116	44	13	3	39	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
764955--765062	31	3.5	31	91	2	164	37	18	10	34	1.85
764946--765071	31	4.1	31	86	4	155	37	15	11	34	1.85
772943--773250	167	1.9	167	81	8	380	25	11	17	45	1.82
774376--774415	20	2.0	20	95	0	71	45	12	5	37	1.64
774372--774520	53	2.9	51	95	4	264	48	12	6	33	1.65
774429--774468	20	2.0	21	90	5	64	45	15	5	35	1.68
774482--774519	19	2.0	20	89	5	60	42	13	5	39	1.66
779089--779133	20	2.3	20	84	3	56	48	11	8	31	1.69
779090--779237	52	2.8	52	88	3	217	50	11	4	33	1.60
779198--779236	20	2.0	20	85	10	53	43	12	5	38	1.65

Tables:   1   2   3   4