genome.fa.s1582.2.7.7.80.10.50.1000.2.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: VEPZ01001582.1 Hibiscus syriacus cultivar Beakdansim tig00003151_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1162828

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 636 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)
201330--201370	14	2.9	14	86	13	66	53	0	4	41	1.22
201328--201390	28	2.2	28	88	5	90	49	0	7	42	1.32
201386--201454	21	3.4	21	70	24	58	37	4	2	55	1.35
201405--201611	12	16.3	12	68	21	61	39	6	2	52	1.40
201391--201487	39	2.5	39	81	10	117	39	6	3	51	1.43
201480--201518	20	2.0	20	94	0	69	30	7	5	56	1.49
201457--201575	43	2.7	43	80	12	120	36	8	3	51	1.49
201548--201738	2	100.0	2	65	18	86	43	4	3	47	1.41
203718--203752	12	2.9	12	95	0	61	28	14	17	40	1.88
206458--206573	24	4.8	24	82	4	135	28	14	18	38	1.90
208084--208127	7	6.6	7	87	7	65	59	0	0	40	0.98
208084--208129	20	2.3	20	85	10	67	58	0	0	41	0.98
208567--209062	83	6.0	83	91	1	746	23	22	12	41	1.88
218461--218505	21	2.1	21	87	0	63	8	20	33	37	1.83
218576--218609	12	2.8	12	90	4	50	58	2	0	38	1.13
218853--218909	21	2.5	22	83	8	62	50	5	5	38	1.47
219256--219301	24	1.9	24	86	8	67	36	13	0	50	1.41
219390--219606	7	29.6	8	65	26	90	53	0	8	36	1.38
219398--219606	22	9.6	23	76	15	132	53	0	8	36	1.38
219387--219604	36	5.8	35	78	19	210	53	0	8	36	1.38
219392--219605	8	29.6	7	68	25	83	53	0	8	36	1.39
219400--219604	73	2.8	73	81	14	223	54	0	8	36	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
219484--219594	57	1.9	60	87	9	167	55	1	6	36	1.36
219602--219664	21	3.1	21	76	19	80	44	3	0	52	1.17
219603--219665	18	3.3	19	78	17	76	44	3	0	52	1.17
221113--221149	9	4.2	9	83	16	51	32	0	8	59	1.27
221113--221149	17	2.1	17	90	5	56	32	0	8	59	1.27
222672--222741	31	2.3	31	100	0	140	30	11	5	52	1.60
223039--223078	2	20.0	2	100	0	80	50	0	0	50	1.00
227630--227733	31	3.4	31	82	0	118	35	31	21	11	1.89
232829--232888	31	2.0	30	83	3	75	30	23	25	21	1.99
232841--232948	31	3.5	30	72	7	83	33	25	23	17	1.96
233963--234033	31	2.3	31	87	4	99	32	26	23	16	1.96
247932--247978	23	2.0	23	83	4	58	48	2	2	46	1.25
251402--251451	15	3.3	15	80	0	64	40	40	6	14	1.70
251381--251451	30	2.4	30	92	4	117	39	38	8	14	1.76
254148--254203	25	2.2	26	93	3	96	19	16	17	46	1.84
257781--258369	163	3.6	158	80	5	588	26	21	14	37	1.92
264461--264524	25	2.6	25	97	0	119	34	7	26	31	1.85
267333--267378	23	2.0	23	100	0	92	17	4	39	39	1.69
278370--278422	22	2.4	22	96	3	97	22	15	45	16	1.85
301998--302028	15	2.1	15	93	0	53	12	16	0	70	1.16
310133--310167	17	2.0	18	88	5	54	54	0	17	28	1.43
333037--333070	16	2.2	16	89	5	52	20	17	2	58	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
333804--333985	101	1.8	101	92	0	310	22	21	18	36	1.95
334109--334135	4	6.8	4	100	0	54	0	22	0	77	0.76
334887--334954	29	2.3	29	97	0	127	54	2	22	20	1.58
336034--336077	22	1.9	24	86	9	65	34	2	56	6	1.38
336428--336454	13	2.1	13	100	0	54	51	22	7	18	1.70
344138--344163	4	6.5	4	100	0	52	76	0	23	0	0.78
344248--344478	115	2.0	116	88	2	340	37	23	15	22	1.93
345388--345436	24	2.0	25	88	4	73	48	4	4	42	1.40
350753--350797	21	2.2	21	84	4	56	13	13	37	35	1.84
350825--350871	13	3.5	13	77	13	51	59	2	0	38	1.09
350825--350872	3	15.7	3	79	12	53	60	2	0	37	1.09
350837--350877	16	2.5	16	88	4	55	60	2	0	36	1.10
351127--351293	89	1.9	89	93	0	289	26	19	17	36	1.94
363938--363993	21	2.7	21	88	0	76	23	7	28	41	1.80
364052--364086	16	2.2	16	89	0	52	60	2	0	37	1.12
365349--365441	44	2.1	44	97	0	177	21	50	10	17	1.76
367114--367160	19	2.5	19	79	6	51	17	8	0	74	1.05
368243--368526	37	7.8	38	71	18	212	45	4	5	44	1.46
368354--368438	41	2.1	41	86	6	120	52	4	3	38	1.39
368407--368499	30	3.0	31	84	7	118	46	4	5	44	1.46
368407--368499	31	3.0	31	85	7	118	46	4	5	44	1.46
368549--368580	4	8.5	4	93	6	50	25	0	0	75	0.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
368547--368617	18	3.9	18	81	18	85	25	2	0	71	0.99
368549--368611	22	2.9	22	82	15	78	25	3	0	71	1.01
368547--368618	11	6.0	12	72	25	55	25	2	0	72	0.98
369720--369866	8	17.1	8	70	18	55	17	6	2	74	1.11
369722--369820	23	4.7	21	72	20	64	19	6	0	74	1.02
369723--369794	4	18.8	4	78	13	71	18	5	0	76	0.97
369849--369881	3	11.7	3	87	12	52	27	0	0	72	0.85
369849--369878	8	3.6	8	95	4	51	26	0	0	73	0.84
369957--369985	12	2.3	13	94	5	51	31	0	0	68	0.89
370616--370652	17	2.2	17	100	0	74	29	10	43	16	1.82
370616--370660	17	2.6	17	92	0	63	28	15	42	13	1.85
371510--371555	19	2.4	19	100	0	92	15	15	6	63	1.50
373615--373810	95	2.1	94	85	5	270	34	17	16	31	1.93
375168--375247	36	2.2	37	93	2	135	31	17	15	36	1.91
375260--375404	37	4.0	37	79	6	154	23	19	15	42	1.89
375458--375573	33	3.4	33	91	5	171	40	18	8	31	1.81
375575--375973	81	5.0	80	78	3	399	30	23	20	25	1.99
375583--375973	161	2.4	161	83	5	445	30	23	20	26	1.99
376524--376757	36	6.2	36	76	13	197	45	3	5	44	1.46
376521--376861	73	4.6	74	69	19	205	44	3	6	45	1.46
376723--376820	31	3.2	29	84	8	133	40	4	5	50	1.44
376861--376933	4	19.2	4	78	10	50	28	1	1	68	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
376859--376951	3	28.3	3	84	6	78	30	1	1	67	1.04
376861--376952	30	3.1	30	95	0	157	29	1	1	68	1.03
378075--378181	8	12.8	8	73	18	67	16	5	0	77	0.95
378079--378170	4	22.8	4	74	14	73	18	5	0	76	0.98
378078--378171	22	4.2	21	77	18	84	18	5	0	76	0.97
378062--378173	26	4.2	26	76	10	84	18	5	0	75	0.98
378170--378201	15	2.2	15	94	5	57	6	15	0	78	0.95
378216--378258	10	4.0	10	82	11	50	25	0	2	72	0.97
379091--379137	21	2.2	21	92	0	76	38	17	23	21	1.93
386588--386654	15	4.6	15	70	7	57	32	7	23	35	1.83
391130--391176	24	2.0	24	91	0	76	48	12	12	25	1.77
393827--393873	24	2.0	24	82	0	58	25	19	23	31	1.98
406060--406099	19	2.2	18	86	4	53	22	2	2	72	1.09
406073--406117	21	2.1	21	84	8	56	20	4	2	73	1.11
407728--407760	17	1.9	17	100	0	66	45	12	30	12	1.78
419029--419094	23	2.9	23	77	4	71	31	25	24	18	1.97
419198--419261	14	4.4	14	69	21	51	37	23	7	31	1.83
424873--424900	7	4.0	7	100	0	56	42	14	14	28	1.84
425465--425771	41	7.4	41	82	5	334	33	18	20	27	1.96
438845--438920	40	1.9	40	97	0	143	30	15	21	32	1.94
439887--439938	22	2.3	21	84	15	61	73	1	1	23	1.04
439970--440252	36	7.8	38	76	11	188	45	7	3	43	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
439952--440252	35	8.3	35	78	10	236	46	7	3	42	1.48
439965--440207	106	2.3	109	85	5	309	46	6	3	43	1.46
439965--440245	71	3.9	71	81	7	284	46	6	3	42	1.47
440235--440272	13	2.8	14	85	14	53	47	13	0	39	1.42
441109--441699	85	7.0	84	87	1	758	26	17	19	36	1.94
441127--441742	83	7.3	83	88	0	773	25	17	20	35	1.95
443035--443232	99	2.0	100	89	3	301	31	17	17	33	1.93
448281--448356	34	2.3	34	84	11	95	68	6	5	19	1.32
448281--448371	33	2.7	35	81	8	91	69	7	4	18	1.30
448309--448389	26	3.1	26	73	7	83	69	6	2	22	1.23

Tables:   1   2   3   4   5   6