genome.fa.s8238.2.7.7.80.10.50.1000.2.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: VEPZ01008238.1 Hibiscus syriacus cultivar Beakdansim tig00110885_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  622934

Tables:   1   2   3   

This is table  2  of  3  ( 331 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)
339778--339862	12	7.1	12	82	0	80	35	7	32	24	1.83
342920--342992	23	3.2	23	88	0	101	34	4	21	39	1.73
343339--343409	23	3.2	23	84	8	92	33	4	22	39	1.74
343345--343414	21	3.2	21	78	11	70	32	4	22	40	1.74
342716--343753	422	2.5	422	94	4	1817	41	7	12	38	1.71
344331--344366	18	2.1	16	90	10	54	47	0	2	50	1.15
353167--353295	63	2.0	63	89	0	195	16	20	17	45	1.85
355821--355903	28	2.8	30	78	9	107	42	7	2	48	1.44
356510--356538	2	14.5	2	100	0	58	48	0	0	51	1.00
357164--357233	6	11.7	6	98	0	122	17	12	34	35	1.88
361524--361605	35	2.4	35	97	2	157	43	14	19	21	1.87
367706--367798	47	2.0	46	87	6	134	40	13	21	23	1.89
368616--368644	14	2.1	14	100	0	58	44	6	34	13	1.71
378975--379083	50	2.2	49	88	1	155	14	34	30	20	1.92
379393--379725	111	3.0	111	95	0	594	36	7	11	45	1.67
381821--381900	35	2.3	35	81	12	94	26	8	10	55	1.62
382976--383062	23	3.7	23	84	1	111	32	26	25	16	1.96
393395--393521	60	2.1	60	97	2	238	56	11	7	23	1.61
393395--393550	60	2.6	59	88	8	174	55	12	7	24	1.62
404653--404731	18	4.6	16	78	9	59	74	0	10	15	1.06
404661--404702	12	3.2	13	83	6	50	71	0	11	16	1.14
404698--404727	11	2.7	11	89	0	51	83	0	3	13	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
404669--404732	16	3.8	17	78	8	69	78	0	7	14	0.96
404732--404764	2	16.5	2	93	0	57	51	0	3	45	1.16
404829--404883	4	14.0	4	74	11	51	74	1	0	23	0.91
404815--404875	24	2.5	24	75	20	63	73	0	0	26	0.83
404815--404884	25	2.8	25	77	16	74	72	1	0	25	0.92
404976--405057	2	42.5	2	72	16	57	54	1	1	42	1.15
404965--405066	14	7.8	13	72	18	54	58	0	0	39	1.11
406215--406269	17	3.3	16	78	14	58	30	1	1	65	1.13
406197--406278	27	3.0	27	78	16	98	32	3	1	62	1.21
406537--406561	2	12.5	2	100	0	50	48	0	0	52	1.00
417145--417175	2	16.0	2	93	6	55	48	0	0	51	1.00
417608--417764	21	7.8	20	72	7	84	38	24	17	19	1.92
417731--417995	20	13.2	20	86	3	293	36	24	19	19	1.95
418706--418752	24	2.0	24	87	8	69	25	14	21	38	1.92
418927--418951	12	2.1	12	100	0	50	72	0	28	0	0.86
421256--421491	33	6.8	34	81	14	238	46	18	21	14	1.84
421270--421491	19	12.7	19	77	18	250	46	18	20	14	1.84
421270--421491	71	3.2	71	79	12	237	46	18	20	14	1.84
421298--421485	52	3.6	52	97	0	340	47	17	21	14	1.82
421481--421597	53	2.2	53	98	1	227	13	23	17	44	1.85
421500--421597	19	5.4	19	84	13	143	14	22	17	45	1.84
421700--421736	14	2.6	14	91	0	65	45	21	0	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
423662--423796	19	7.6	18	75	18	106	46	25	18	9	1.79
423699--423791	33	2.8	33	93	0	168	48	23	19	8	1.76
423718--423774	14	3.7	14	75	20	60	47	26	19	7	1.74
423662--423796	52	2.5	54	79	18	158	46	25	18	9	1.79
423792--423920	19	7.3	19	73	17	116	9	17	27	45	1.78
423792--423883	33	2.8	33	93	3	150	7	18	28	45	1.76
423968--424527	93	6.1	93	98	0	1072	45	19	12	22	1.84
426232--426321	14	5.7	14	72	23	72	43	23	24	8	1.82
426224--426338	33	3.5	33	97	0	221	46	20	23	9	1.80
426246--426343	19	5.7	19	71	22	90	43	22	23	10	1.83
426355--426411	14	3.7	14	75	20	60	8	24	22	43	1.81
426339--426419	33	2.5	33	95	0	144	8	22	22	46	1.78
426395--426451	21	2.8	20	86	5	78	12	28	17	42	1.85
426749--426803	22	2.5	22	75	0	65	21	14	40	23	1.90
426950--427162	20	10.6	20	86	4	250	19	20	25	34	1.96
427129--427226	21	4.8	20	76	10	81	21	18	20	39	1.92
427129--427226	42	2.4	41	78	10	110	21	18	20	39	1.92
429715--429751	19	1.9	19	88	0	56	18	21	37	21	1.94
436609--436652	14	2.9	15	80	10	54	50	0	6	43	1.29
436753--436792	20	2.0	20	85	0	53	52	2	5	40	1.37
440011--440078	2	34.0	2	93	0	118	51	1	0	47	1.09
444155--444243	29	3.1	29	93	0	151	24	32	31	11	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444235--444299	32	2.0	32	90	0	103	30	20	33	15	1.93
444490--444535	23	2.0	23	100	0	92	21	21	26	30	1.99
444842--444985	74	1.9	74	83	5	184	32	2	15	50	1.56
444912--445009	46	2.2	44	85	5	133	41	1	8	48	1.39
444912--445014	44	2.3	46	83	5	120	40	0	8	49	1.40
445442--445481	21	2.0	20	90	9	64	37	0	7	55	1.29
448609--448813	49	4.2	49	93	1	333	42	0	11	46	1.39
448778--448829	21	2.5	20	81	9	59	46	0	7	46	1.31
448785--448811	14	1.9	14	100	0	54	44	0	11	44	1.39
448613--448837	98	2.3	97	87	4	292	43	0	10	46	1.37
449026--449077	19	2.9	18	73	21	56	36	0	11	51	1.38
449053--449313	12	21.2	11	71	16	135	43	1	9	45	1.47
449022--449169	35	4.5	35	69	22	129	38	1	10	49	1.46
449022--449225	97	2.1	98	94	2	358	41	1	9	47	1.47
449078--449293	72	3.0	70	83	8	247	43	2	9	44	1.48
449056--449313	26	10.4	25	76	11	201	43	1	8	45	1.46
449062--449272	49	4.3	49	76	16	211	44	2	8	45	1.46
451817--451855	11	3.5	11	80	13	53	38	12	0	48	1.42
451810--451858	22	2.2	22	100	0	98	38	14	0	46	1.44
451802--451927	30	4.4	30	77	17	128	45	12	0	41	1.48
451831--451881	15	3.3	16	72	10	61	41	13	0	45	1.44
451984--452097	41	2.9	37	74	18	97	44	13	1	40	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
452107--452146	21	1.9	21	94	0	71	57	12	0	30	1.36
452171--452225	18	3.4	18	65	31	52	52	9	0	38	1.33
452290--452320	8	3.9	8	95	0	53	51	12	0	35	1.40
452360--452424	28	2.3	29	79	10	73	47	15	1	35	1.55
452506--452590	39	2.2	39	95	0	152	43	16	2	37	1.61
452996--453060	29	2.2	29	86	5	87	20	20	36	23	1.95
455509--455564	15	3.7	15	79	11	60	42	0	1	55	1.10
457205--457252	25	1.9	25	91	0	78	39	6	16	37	1.74
472197--472327	19	6.7	19	91	2	163	35	23	9	32	1.86
473860--473908	19	2.7	17	84	9	53	26	20	28	24	1.99
473859--474039	65	2.8	61	81	9	193	26	18	23	30	1.98
473880--474039	65	2.5	65	84	7	202	26	18	23	31	1.97
474546--474592	2	24.0	2	95	4	87	48	0	0	51	1.00
475144--475187	21	2.1	21	82	0	52	31	15	43	9	1.79
475272--475331	32	1.9	32	96	3	113	26	0	30	43	1.55
475896--475933	19	2.0	20	85	15	53	5	34	0	60	1.19
476394--476436	21	2.0	21	86	0	59	30	27	25	16	1.97
477120--477164	23	2.0	23	86	0	63	20	26	26	26	1.99
482670--482707	19	2.0	20	85	15	53	5	34	0	60	1.19
483167--483209	21	2.0	21	86	0	59	30	27	25	16	1.97
483898--483942	23	2.0	23	86	0	63	20	26	26	26	1.99
485159--485200	17	2.3	19	88	8	61	28	0	11	59	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485434--485472	19	2.0	20	85	5	53	35	2	33	28	1.71
487404--487500	21	4.6	21	75	11	65	24	19	31	23	1.98
487404--487500	42	2.3	42	75	10	99	24	19	31	23	1.98
490015--490071	22	2.6	23	73	18	57	31	17	31	19	1.95
490185--490227	19	2.2	20	87	4	61	39	16	20	23	1.92
490221--490345	20	6.3	20	91	1	198	18	11	23	47	1.80
490221--490370	40	3.8	40	85	4	189	18	12	22	46	1.83
490240--490370	60	2.2	60	82	4	158	19	12	22	45	1.84
490359--490406	20	2.4	20	96	0	87	27	10	33	29	1.90
514073--514120	23	2.1	23	84	7	62	37	10	18	33	1.85

Tables:   1   2   3