genome.fa.s8341.2.7.7.80.10.50.1000.2.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: VEPZ01008341.1 Hibiscus syriacus cultivar Beakdansim tig00111067_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1248125

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 617 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)
293101--293539	140	3.1	140	86	4	585	43	9	20	26	1.83
293255--293475	20	9.7	20	69	23	127	41	10	23	24	1.86
305981--306051	19	3.5	19	76	12	70	32	15	23	28	1.95
307860--307941	20	3.8	20	69	25	67	45	9	23	21	1.81
307842--307966	47	2.7	46	87	7	171	46	8	19	25	1.78
307880--308115	27	9.6	25	70	19	153	44	8	20	26	1.81
307885--308040	74	2.1	74	89	4	235	44	7	20	26	1.78
307846--308181	121	2.8	120	87	2	469	44	9	19	25	1.80
308050--308113	26	2.4	27	92	5	105	43	10	20	25	1.84
307959--308087	47	2.8	47	86	1	188	42	8	23	25	1.82
308010--308161	72	2.1	75	86	3	211	44	9	20	25	1.82
308075--308204	48	2.8	46	81	7	147	46	10	19	24	1.80
316075--316113	21	1.9	20	89	5	60	35	23	15	25	1.94
329091--329151	6	10.7	6	74	22	60	63	1	0	34	1.04
329093--329131	21	1.9	20	89	5	60	66	2	0	30	1.05
329093--329151	20	3.0	20	83	11	61	64	1	0	33	1.04
329093--329162	19	3.6	19	78	14	63	64	1	1	32	1.11
330730--330934	98	2.1	98	95	0	365	31	17	18	33	1.94
331044--331128	40	2.1	40	91	4	136	38	16	17	27	1.91
331100--331153	27	2.0	27	88	0	81	38	16	18	25	1.92
331044--331128	20	4.2	20	76	0	89	38	16	17	27	1.91
338120--338180	6	10.7	6	74	22	60	63	1	0	34	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
338122--338160	21	1.9	20	89	5	60	66	2	0	30	1.05
338122--338180	20	3.0	20	83	11	61	64	1	0	33	1.04
338122--338191	19	3.6	19	78	14	63	64	1	1	32	1.11
341142--341198	27	2.2	24	85	11	78	59	5	0	35	1.20
341245--341328	35	2.4	35	74	16	84	57	3	2	36	1.29
342737--343092	185	1.9	186	93	0	615	24	21	18	35	1.96
343250--343427	20	9.1	20	81	7	204	37	21	18	22	1.95
343284--343427	60	2.4	60	91	2	227	36	21	18	22	1.95
350432--350515	35	2.4	35	74	16	84	57	3	2	36	1.29
351683--351728	3	15.0	3	86	13	67	32	0	0	67	0.91
351683--351726	10	4.4	10	91	8	72	31	0	0	68	0.90
353422--353476	16	3.5	15	81	16	58	63	7	3	25	1.37
361524--361561	20	1.9	20	94	0	67	52	13	7	26	1.67
364676--364733	23	2.6	23	81	8	66	46	1	1	50	1.22
369893--369931	13	2.9	13	88	11	53	46	5	12	35	1.65
376488--376525	20	1.9	20	94	0	67	23	18	34	23	1.96
380508--380631	46	2.7	46	87	0	176	30	17	13	37	1.89
380508--380649	46	3.1	45	78	11	146	31	17	13	37	1.89
381780--382018	120	2.0	119	99	0	469	26	23	18	31	1.97
384664--384803	70	2.0	70	100	0	280	25	34	11	28	1.91
386228--386274	21	2.2	21	92	0	76	48	0	10	40	1.38
386814--386886	2	36.5	2	89	5	112	49	1	1	47	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
391948--391983	18	2.0	18	88	0	54	47	2	5	44	1.41
391961--392028	8	8.4	8	70	15	50	39	1	11	47	1.49
392487--392546	22	2.7	22	92	2	93	28	3	21	46	1.67
392487--392557	22	3.2	22	88	6	81	28	2	21	47	1.64
392570--392658	31	2.9	30	86	5	115	38	12	11	38	1.79
393587--393618	2	16.0	2	100	0	64	50	0	0	50	1.00
394170--394479	54	5.8	54	87	0	399	31	18	17	32	1.94
400433--400631	54	3.7	54	84	0	272	31	17	18	32	1.94
402051--402084	18	2.0	18	88	11	54	35	23	11	29	1.90
402723--402761	16	2.5	16	83	4	53	35	7	20	35	1.81
406317--406455	61	2.2	61	83	5	170	30	17	25	26	1.97
407941--408267	2	177.5	2	67	24	152	39	1	4	53	1.33
407947--408238	35	8.6	35	71	24	109	40	1	5	52	1.35
407948--408309	39	9.5	38	71	21	162	38	1	4	55	1.30
407941--408287	52	6.8	50	72	20	172	39	1	4	54	1.31
407941--408217	152	1.8	151	82	15	360	40	1	5	53	1.34
407947--408256	97	3.2	97	75	16	261	39	1	5	53	1.34
407948--408266	95	3.2	98	73	17	268	39	1	5	53	1.34
407980--408306	58	5.5	60	72	20	203	38	1	3	55	1.29
407992--408321	15	21.4	15	70	21	104	37	2	3	56	1.30
408198--408321	16	7.6	16	73	17	71	35	1	1	61	1.16
408255--408329	34	2.2	34	81	9	82	30	2	1	65	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
409978--410007	15	2.0	15	100	0	60	46	20	6	26	1.75
416884--417320	2	236.0	2	66	25	189	39	2	4	54	1.33
416885--417368	81	6.1	78	72	21	291	38	2	4	55	1.31
416885--417365	31	15.3	32	71	22	271	38	2	4	55	1.31
416884--417335	47	9.4	47	73	19	241	38	2	4	54	1.33
416884--417369	22	23.5	20	71	21	201	38	2	4	55	1.31
417184--417380	11	20.4	9	69	24	86	35	2	2	60	1.20
418621--418666	16	2.6	18	76	16	51	19	4	0	76	0.96
426907--426956	26	1.9	25	84	8	64	42	6	12	40	1.67
430714--430745	2	16.0	2	100	0	64	50	0	0	50	1.00
432955--432996	19	2.2	19	86	0	57	45	11	23	19	1.83
434869--434928	22	2.7	22	78	2	66	30	23	26	20	1.98
437237--437276	16	2.4	17	87	8	64	12	30	45	12	1.79
438047--438085	20	2.0	20	95	5	71	30	0	30	38	1.58
439195--439239	22	2.0	22	95	0	81	35	2	13	48	1.54
439409--439502	39	2.4	39	89	0	134	20	17	32	29	1.95
459183--459253	35	2.0	35	83	5	90	35	8	9	46	1.67
462463--462568	46	2.6	37	78	20	115	47	12	18	21	1.81
462487--462856	26	14.4	26	73	19	262	46	12	19	21	1.83
462487--462936	46	9.5	48	81	10	315	46	12	19	21	1.83
462487--462758	118	2.3	118	94	0	472	46	13	19	20	1.83
462487--462923	118	3.7	116	84	8	366	45	12	20	21	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
462531--462903	72	5.2	72	82	10	438	46	12	19	21	1.83
469613--469675	33	1.9	33	90	0	99	44	12	17	25	1.84
469646--469795	20	6.5	25	69	24	114	44	12	22	21	1.84
469646--469795	46	3.3	46	90	3	248	44	12	22	21	1.84
471725--471786	20	3.1	20	80	17	83	24	8	11	56	1.61
472666--472718	19	2.7	19	83	11	72	33	9	11	45	1.72
478964--478999	18	2.1	16	90	10	54	36	0	8	55	1.30
485091--485196	52	2.0	53	94	1	187	45	19	5	29	1.73
494202--494263	25	2.6	24	82	7	65	33	3	3	59	1.29
498385--498734	183	1.9	183	96	0	646	27	21	21	29	1.98
499583--499607	12	2.1	12	100	0	50	48	24	0	28	1.52
500023--500110	37	2.4	37	84	1	115	27	20	12	39	1.88
499929--500176	102	2.4	105	87	4	360	31	20	12	35	1.90
500060--500239	66	2.8	66	90	4	269	32	20	11	35	1.89
499956--500341	166	2.3	169	91	4	613	32	19	12	36	1.89
500292--500377	36	2.4	36	86	3	111	26	17	13	41	1.87
500126--500472	100	3.5	100	85	5	442	32	18	12	37	1.88
500360--500418	30	2.0	30	86	6	84	40	16	10	32	1.82
500432--500546	36	3.1	36	85	4	167	29	20	11	39	1.87
500586--500701	34	3.4	34	89	5	166	37	18	11	31	1.87
500656--500842	67	2.7	67	84	3	239	29	21	12	36	1.90
501165--501273	43	2.5	43	86	0	146	36	23	18	21	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502485--502601	60	1.9	59	80	16	134	28	5	3	62	1.35
505038--505206	42	4.0	42	95	1	295	45	12	15	26	1.82
505091--505160	21	3.3	21	66	15	63	50	12	15	21	1.78
507200--507250	22	2.3	22	80	6	59	23	23	21	31	1.98
519225--519267	19	2.3	19	88	8	61	76	2	2	18	1.00
519225--519267	10	4.5	10	82	8	54	76	2	2	18	1.00
519312--519358	17	2.7	17	81	12	60	72	0	12	14	1.13
519458--519496	16	2.4	17	86	4	53	74	2	5	17	1.12
519430--519554	55	2.3	57	79	10	136	68	2	4	24	1.22
519638--519705	22	3.0	23	72	18	63	67	0	5	26	1.13

Tables:   1   2   3   4   5   6