genome.fa.s8373.2.7.7.80.10.50.1000.2.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: VEPZ01008373.1 Hibiscus syriacus cultivar Beakdansim tig00111129_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1027749

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 505 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)
280487--280512	13	2.0	13	100	0	52	15	30	23	30	1.95
280467--280531	32	2.0	33	90	3	105	15	29	29	26	1.96
280627--280686	29	2.0	31	93	6	106	43	16	6	33	1.74
283767--283806	21	1.9	22	90	10	66	12	10	40	37	1.77
283834--283876	21	2.0	21	95	0	77	27	27	20	23	1.99
283967--284045	21	4.0	21	76	18	89	12	26	36	24	1.91
283968--284039	36	2.0	36	94	0	126	13	27	34	23	1.93
283989--284018	15	2.0	15	100	0	60	13	26	33	26	1.93
284135--284194	29	2.0	31	93	6	106	43	16	6	33	1.74
289154--289184	15	2.1	15	100	0	62	35	25	19	19	1.95
291040--291099	23	2.9	20	82	9	68	23	33	25	18	1.97
295268--295328	18	3.4	18	84	6	79	8	34	14	42	1.76
296510--296549	20	2.0	20	90	4	64	37	0	7	55	1.29
300165--300243	21	4.2	20	72	22	64	24	37	24	13	1.92
300171--300241	35	2.0	36	89	8	110	23	35	25	15	1.94
300276--300335	19	3.1	20	92	4	97	18	40	25	16	1.91
301102--301126	7	3.6	7	100	0	50	72	16	0	12	1.13
301848--301891	17	2.6	17	100	0	88	40	18	6	34	1.77
302696--302807	48	2.3	49	73	1	109	22	11	15	50	1.75
302919--302987	34	2.1	33	94	2	120	18	23	27	30	1.98
311101--311129	14	2.0	15	93	6	51	62	0	0	37	0.96
314900--315073	87	2.0	87	97	0	330	48	13	12	25	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
323114--323244	51	2.6	48	74	10	127	37	9	9	42	1.72
323128--323279	50	3.0	51	78	5	141	38	10	10	40	1.74
323361--323387	7	3.9	7	100	0	54	29	0	0	70	0.88
324308--324396	45	2.0	45	97	0	169	23	16	7	51	1.71
324318--324389	22	3.2	22	62	11	56	20	16	8	54	1.68
324978--325025	25	2.0	25	87	4	71	37	0	2	60	1.09
325096--325157	25	2.4	27	78	7	67	41	1	3	53	1.27
325969--326034	13	5.2	13	70	21	50	36	0	3	60	1.12
326988--327068	41	2.0	41	95	0	144	43	2	7	46	1.45
327170--327252	27	2.9	29	85	7	125	33	13	6	46	1.67
332729--332925	105	1.9	105	84	2	270	25	28	13	32	1.93
335529--335660	65	2.0	65	94	5	232	34	15	10	39	1.82
352484--352527	22	2.0	22	95	0	79	29	20	22	27	1.99
352484--352536	22	2.5	20	87	9	70	30	20	22	26	1.98
356822--356865	22	2.0	22	90	0	70	29	20	20	29	1.98
356822--356877	22	2.6	21	86	8	69	26	19	21	32	1.97
366592--366632	22	1.9	21	90	5	64	24	0	4	70	1.06
382186--382442	102	2.5	102	82	2	300	32	22	15	28	1.95
387719--387749	2	15.5	2	100	0	62	51	0	0	48	1.00
396657--396683	14	1.9	14	100	0	54	33	0	51	14	1.43
401348--401617	147	1.8	146	87	3	400	37	11	9	41	1.73
409381--409707	165	2.0	162	98	1	627	32	11	24	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429005--429037	16	1.9	18	88	11	52	36	3	0	60	1.12
431016--431041	3	8.7	3	100	0	52	34	34	0	30	1.58
432719--432759	17	2.3	18	91	4	66	31	4	4	58	1.40
436450--436515	32	2.1	32	97	0	123	46	12	1	39	1.50
439567--439633	23	3.0	23	82	4	75	29	25	23	20	1.99
439632--439863	103	2.2	103	91	0	365	37	23	12	26	1.91
439877--439961	41	2.1	41	100	0	170	32	32	11	22	1.90
441445--441471	12	2.2	12	100	0	54	37	33	7	22	1.82
446437--446586	75	2.0	75	100	0	300	33	22	16	28	1.95
448307--448552	123	2.0	124	99	0	485	40	13	14	31	1.85
450420--450531	50	2.2	50	87	4	154	15	37	29	17	1.91
455257--455349	21	4.5	21	78	4	100	39	18	24	17	1.91
455257--455349	41	2.3	41	100	0	186	39	18	24	17	1.91
455276--455410	41	3.3	41	82	6	132	38	20	21	19	1.94
455338--455430	20	4.6	20	79	2	87	34	24	18	22	1.96
457760--457817	14	3.9	14	72	16	53	48	24	17	10	1.78
457744--457834	32	2.8	32	86	3	128	48	21	17	12	1.80
457851--457908	14	3.9	14	79	16	71	8	17	25	48	1.75
457846--457924	32	2.4	33	95	2	142	10	18	24	46	1.80
457846--457924	14	4.8	17	71	22	62	10	18	24	46	1.80
459823--459858	14	2.6	14	90	0	54	30	0	22	47	1.52
459963--460015	14	3.5	14	76	18	61	47	20	20	11	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
459974--460020	14	2.9	16	74	22	53	46	19	21	12	1.82
459944--460020	32	2.4	33	91	2	120	41	22	23	12	1.88
460039--460096	20	2.9	20	94	0	98	17	22	22	37	1.93
461034--461087	24	2.2	24	90	0	81	24	16	20	38	1.92
462222--462280	19	3.4	19	73	22	74	45	18	22	13	1.84
462222--462348	33	3.8	33	85	4	184	43	18	22	15	1.88
462225--462348	66	1.9	66	96	0	230	43	18	22	15	1.87
462532--462565	14	2.4	14	90	0	59	44	23	0	32	1.54
463915--463979	21	3.2	21	65	6	53	20	20	36	23	1.95
463952--464035	42	2.0	42	85	0	114	22	16	39	21	1.92
465121--465163	21	2.0	22	82	13	54	48	2	4	44	1.36
465998--466082	20	4.6	19	71	19	72	44	18	23	12	1.85
466656--466705	20	2.5	20	93	0	82	26	20	28	26	1.99
466717--466770	20	2.7	20	97	0	99	25	18	24	31	1.97
466657--466773	61	1.9	61	83	0	153	23	17	24	34	1.96
466657--466791	61	2.2	61	80	2	146	22	19	24	33	1.97
466838--466878	21	2.0	21	85	0	55	34	31	17	17	1.93
467015--467054	2	20.0	2	100	0	80	50	0	0	50	1.00
476045--476711	182	3.7	180	87	4	855	40	14	17	28	1.88
478667--478722	24	2.4	23	80	8	69	44	0	3	51	1.18
479100--479144	21	2.1	21	95	0	81	42	11	33	13	1.79
479392--479429	18	2.2	17	90	4	58	60	0	36	2	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
481359--482715	200	6.8	200	84	3	1555	36	14	16	32	1.89
484100--484163	23	2.8	23	85	0	83	26	23	28	21	1.99
486174--486219	23	2.0	23	91	0	74	21	23	26	28	1.99
485744--486196	149	3.0	149	98	0	870	28	15	20	35	1.93
493370--493415	23	2.0	23	91	0	74	21	23	26	28	1.99
492942--493392	149	3.0	149	96	2	838	28	15	20	35	1.93
494777--494997	64	3.5	64	84	7	245	29	18	19	33	1.95
499551--499613	22	2.8	23	87	2	92	26	26	26	19	1.99
499629--499842	100	2.1	101	93	3	369	36	23	13	25	1.92
500592--500745	64	2.5	61	83	7	177	26	18	20	34	1.96
500572--500777	64	3.3	61	80	8	159	28	18	18	33	1.95
503564--503616	25	2.1	25	100	0	106	35	3	11	49	1.57
503911--504586	200	3.4	195	81	6	741	38	15	15	30	1.88
504262--504929	346	1.9	345	87	4	970	39	13	16	31	1.87
504613--505027	200	2.1	200	89	2	638	39	12	16	32	1.86
507773--507852	40	2.0	40	100	0	160	27	10	20	42	1.83
508488--509414	202	4.6	197	80	9	1013	40	13	14	31	1.85
509493--509537	23	2.0	23	86	0	63	40	17	6	35	1.76
514678--514763	43	2.0	43	90	0	136	55	4	4	34	1.41
516875--516914	21	1.9	21	85	10	55	57	2	7	32	1.40
517145--517192	22	2.4	19	86	13	69	14	6	16	62	1.51
518612--518694	35	2.3	35	83	6	96	55	2	2	39	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518888--518922	17	2.1	17	88	0	52	48	0	2	48	1.16
519582--519714	50	2.6	51	80	4	144	18	32	28	20	1.96
523312--523398	35	2.5	34	80	12	97	55	10	8	26	1.61
523427--523517	49	1.9	49	84	8	127	65	4	4	25	1.29
523606--523667	18	3.4	18	86	0	70	11	37	20	30	1.88
523636--523667	12	2.7	12	95	0	55	6	34	25	34	1.81
523618--523664	15	3.1	15	81	0	58	10	38	21	29	1.87
524004--524038	18	1.9	18	94	0	61	28	20	22	28	1.98
525533--525954	111	3.9	106	91	5	649	45	11	6	36	1.67
526245--526353	50	2.2	49	81	4	128	25	26	29	18	1.98

Tables:   1   2   3   4   5