genome.fa.s3142.2.7.7.80.10.50.1000.2.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: VEPZ01003142.1 Hibiscus syriacus cultivar Beakdansim tig00006613_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  553945

Tables:   1   2   3   

This is table  2  of  3  ( 249 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)
293023--293062	21	1.9	21	84	0	53	47	20	0	32	1.50
297721--297762	2	21.0	2	100	0	84	50	0	0	50	1.00
297960--298051	21	4.4	21	78	13	118	16	20	27	35	1.94
298002--298071	20	3.5	20	70	18	72	12	22	24	40	1.89
297981--298074	41	2.3	41	100	0	188	14	21	25	38	1.92
297957--298213	62	4.4	59	71	16	194	18	19	26	35	1.95
297981--298092	41	2.7	41	91	5	156	16	20	25	36	1.94
298042--298184	71	2.0	71	100	0	286	19	18	26	35	1.95
298835--298860	5	5.2	5	100	0	52	0	38	19	42	1.51
298862--298887	6	4.3	6	100	0	52	0	15	50	34	1.45
298938--299009	21	3.5	21	71	17	78	36	26	20	16	1.94
298957--299259	41	7.4	40	90	7	450	39	25	17	17	1.92
298957--299259	82	3.7	82	94	2	504	39	25	17	17	1.92
302722--302910	60	3.2	59	76	6	175	47	4	16	30	1.68
302929--302956	14	2.0	14	100	0	56	50	0	14	35	1.43
304469--304550	41	2.0	41	92	0	137	20	21	8	48	1.76
310524--310563	21	1.9	21	94	0	71	30	15	7	47	1.72
310558--310656	33	3.0	32	91	4	153	33	7	14	45	1.71
310642--310696	13	4.2	13	75	13	58	34	3	12	49	1.59
310892--310948	21	2.7	21	91	0	96	19	26	26	28	1.99
311115--311169	15	3.5	15	78	9	56	32	10	10	45	1.74
312148--312255	32	3.4	32	87	2	139	50	7	0	40	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317624--317651	2	14.0	2	100	0	56	50	0	0	50	1.00
322235--322338	30	3.4	30	85	10	147	21	18	39	21	1.93
322235--322329	33	3.0	33	90	4	142	21	18	38	21	1.93
322235--322363	63	2.0	62	82	8	154	25	17	36	20	1.94
322485--322587	50	2.1	50	100	0	206	26	1	15	56	1.50
324336--324393	28	2.0	29	81	15	68	63	3	13	18	1.43
325806--325838	16	2.1	16	94	0	57	33	6	27	33	1.81
332216--332440	43	5.2	43	90	0	324	28	12	24	36	1.91
332214--332508	129	2.3	129	79	2	315	26	13	23	36	1.92
332498--332599	42	2.4	41	82	8	107	30	16	23	29	1.96
333304--333347	23	2.0	22	83	16	56	54	4	13	27	1.58
335366--335436	36	2.0	36	97	0	133	30	9	16	42	1.81
337254--337511	41	6.2	40	76	8	189	33	17	20	28	1.96
338894--339056	41	4.0	41	83	1	193	33	18	12	34	1.89
338906--339084	41	4.4	40	80	8	182	35	18	12	33	1.89
340468--340554	31	2.8	31	87	1	131	52	9	10	27	1.65
355111--355175	31	2.1	31	82	8	78	40	1	9	49	1.44
356818--356845	12	2.3	12	100	0	56	0	17	39	42	1.50
359741--359864	60	2.1	60	81	6	144	37	4	25	33	1.75
367291--367369	37	2.2	36	88	6	117	45	16	3	34	1.65
371810--371856	21	2.3	20	85	10	60	38	17	4	40	1.69
371821--371865	21	2.1	21	83	0	54	33	11	4	51	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372680--372722	16	2.6	16	77	3	50	48	23	11	16	1.78
372973--373073	32	3.2	32	75	10	109	36	22	14	25	1.93
376864--376920	28	2.0	28	89	0	87	24	19	10	45	1.81
377580--377668	42	2.1	42	89	4	144	47	16	12	23	1.81
377580--377678	42	2.4	42	86	3	119	48	17	11	23	1.78
377936--377969	18	1.9	17	88	5	50	8	23	0	67	1.18
380172--380215	22	2.0	22	86	4	61	25	25	29	20	1.99
386361--386418	21	2.8	21	67	0	53	32	34	13	18	1.91
388265--388296	2	16.5	2	93	6	57	50	0	0	50	1.00
392897--392933	19	2.0	18	89	5	56	45	27	0	27	1.54
398509--398553	23	2.0	23	100	0	90	17	33	17	31	1.94
398512--398561	23	2.2	23	88	0	73	20	38	12	30	1.88
402146--402174	2	14.5	2	100	0	58	48	0	0	51	1.00
402202--402274	37	2.0	38	89	5	114	46	9	8	35	1.66
402421--402451	8	3.9	8	100	0	62	64	0	9	25	1.24
405308--405408	39	2.6	39	91	0	157	24	12	11	50	1.74
410848--410883	6	6.0	6	100	0	72	0	50	0	50	1.00
423151--423187	13	2.8	13	91	0	56	13	51	18	16	1.76
432654--432684	7	4.4	7	100	0	62	25	29	29	16	1.96
432674--432716	22	2.0	22	100	0	86	9	23	48	18	1.76
432713--432811	9	10.3	9	75	10	72	30	27	27	15	1.96
432738--432812	29	2.5	31	87	8	111	30	26	26	16	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
432713--432811	19	5.2	19	73	17	71	30	27	27	15	1.96
439980--440035	17	3.3	17	100	0	112	12	23	46	17	1.82
440033--440088	19	2.9	19	84	7	69	30	32	25	12	1.92
440033--440111	9	8.1	11	71	20	52	30	27	25	16	1.97
448693--448750	28	2.1	27	81	9	64	34	8	8	48	1.65
451235--451259	13	1.9	13	100	0	50	68	0	0	32	0.90
451244--451318	20	3.7	20	69	20	66	65	0	2	32	1.07
451237--451323	42	2.1	42	91	2	140	63	0	2	34	1.07
454106--454166	21	3.2	21	65	29	64	31	4	21	42	1.74
454100--454214	35	3.3	35	92	3	187	29	5	20	45	1.72
458726--458786	21	3.2	21	65	29	64	31	4	21	42	1.74
458720--458834	35	3.3	35	92	3	187	29	5	20	45	1.72
460160--460557	199	2.0	199	98	0	769	30	17	19	32	1.95
462244--462370	51	2.5	51	90	1	193	15	35	31	17	1.91
462463--462503	20	2.1	20	90	4	66	31	24	0	43	1.54
464278--464402	51	2.5	51	86	1	171	18	31	34	16	1.93
464593--464642	11	5.1	11	77	22	58	52	0	0	48	1.00
473208--473253	23	2.0	23	91	0	74	34	8	19	36	1.83
473484--473522	20	2.0	20	89	0	60	35	15	7	41	1.76
473759--473805	22	2.1	22	100	0	94	21	14	12	51	1.76
474091--474591	112	4.5	112	92	2	814	25	13	13	47	1.80
476202--476277	2	39.5	2	89	7	122	50	0	1	48	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485352--485385	13	2.5	13	90	4	50	32	17	23	26	1.97
485396--485457	4	15.5	4	78	6	63	25	1	3	69	1.13
489278--489386	54	2.0	54	100	0	218	31	12	16	39	1.86
491360--491398	16	2.4	16	95	0	69	48	0	28	23	1.51
491360--491407	16	3.0	16	90	0	60	50	0	27	22	1.50
501828--501872	22	2.0	22	95	0	81	35	20	2	42	1.64
502554--502581	2	14.0	2	100	0	56	50	0	0	50	1.00
502811--502905	15	6.7	15	69	11	65	43	4	2	50	1.33
502852--502907	28	2.0	29	85	3	78	37	1	3	57	1.27
502853--502926	15	5.6	13	72	22	57	36	1	2	59	1.20
502896--502941	23	2.0	24	86	4	67	34	0	2	63	1.07
503312--503751	228	1.9	223	94	3	765	45	7	7	38	1.61
503981--504027	20	2.4	19	89	10	76	55	10	17	17	1.69
503985--504032	20	2.6	18	84	15	62	56	10	14	18	1.66
506278--506341	32	2.0	32	90	0	101	29	0	46	23	1.52
508124--508172	19	2.6	19	93	0	80	30	2	10	57	1.43
508291--509859	199	7.9	199	97	0	2883	37	15	15	31	1.89
511307--511395	6	14.3	6	69	11	54	38	7	33	20	1.81
511322--511399	3	26.0	3	72	0	57	37	6	33	23	1.80
511307--511399	18	5.0	18	72	12	62	37	7	33	21	1.82
515104--515168	25	2.6	25	77	0	76	36	9	12	41	1.75
515452--515513	21	2.8	23	80	7	74	35	6	20	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
515474--515522	23	2.1	23	88	7	73	34	2	20	42	1.64
515458--515527	21	3.2	21	75	15	61	32	5	21	40	1.77
515788--515838	25	2.0	25	92	0	84	33	7	19	39	1.81
516131--516167	18	2.1	18	89	0	56	32	5	10	51	1.60
516123--516169	24	2.0	24	86	0	67	34	4	14	46	1.64
516425--516510	39	2.2	38	93	2	145	47	20	13	17	1.82
516913--516976	23	2.8	23	87	0	92	35	6	20	37	1.78
516913--516985	23	3.2	23	82	7	85	34	5	20	39	1.76
519795--519872	32	2.4	32	86	4	111	51	6	23	19	1.69
520025--520079	27	2.0	27	93	6	94	34	14	0	50	1.43

Tables:   1   2   3