genome.fa.s8015.2.7.7.80.10.50.1000.2.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: VEPZ01008015.1 Hibiscus syriacus cultivar Beakdansim tig00110481_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  961110

Tables:   1   2   3   4   

This is table  2  of  4  ( 458 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)
221911--221981	33	2.2	33	92	0	115	47	18	22	11	1.80
222163--222217	22	2.5	22	81	0	74	20	16	40	23	1.91
222363--222555	20	9.6	20	82	5	219	19	19	25	35	1.95
222363--222555	60	3.2	60	83	0	251	19	19	25	35	1.95
222611--222662	20	2.6	20	96	0	95	21	13	26	38	1.90
225732--225789	2	29.0	2	92	0	98	50	3	0	46	1.18
226687--226745	29	2.0	29	90	0	91	44	8	6	40	1.61
238716--238748	13	2.5	13	90	9	50	24	0	0	75	0.80
238912--239013	23	4.4	23	67	7	71	24	11	15	48	1.79
239272--239329	12	4.8	12	80	0	71	39	17	20	22	1.92
239272--239329	24	2.4	24	88	0	80	39	17	20	22	1.92
261527--261599	21	3.8	20	70	20	50	41	6	5	46	1.54
262539--262694	60	2.6	60	79	3	163	30	19	5	44	1.74
264051--264093	21	2.0	21	81	0	50	30	30	25	13	1.94
264122--264166	22	2.0	22	86	4	63	35	33	22	8	1.85
264208--264254	21	2.2	21	96	0	85	31	14	21	31	1.94
265743--265786	23	1.9	23	90	0	70	20	25	27	27	1.99
275686--275764	38	2.1	38	83	4	97	34	31	8	25	1.87
276942--277009	24	2.9	23	78	6	73	41	20	14	23	1.89
279416--279478	31	2.0	31	96	0	117	28	30	9	31	1.89
280879--280908	14	2.1	14	93	0	51	23	33	6	36	1.81
282722--282764	22	2.0	22	90	0	68	39	9	4	46	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
285938--285995	20	2.6	22	89	10	84	31	20	22	25	1.98
287064--287133	2	35.0	2	100	0	140	50	0	0	50	1.00
293621--293670	3	17.0	3	89	4	75	28	0	2	70	0.99
293945--293983	19	2.1	18	90	4	60	25	25	23	25	2.00
294993--295040	3	16.0	3	100	0	96	33	0	0	66	0.92
295271--295295	2	12.5	2	100	0	50	48	0	0	52	1.00
295170--295444	147	1.8	151	87	4	416	41	5	4	47	1.48
295423--295454	2	16.0	2	100	0	64	50	0	0	50	1.00
295972--296018	21	2.2	21	82	10	60	51	2	2	44	1.25
299720--299759	9	4.4	9	84	9	55	67	0	0	32	0.91
299959--299988	15	2.0	15	93	0	51	50	3	6	40	1.45
303113--303150	15	2.4	16	86	4	51	76	0	5	18	0.97
307162--307248	35	2.5	34	80	12	97	55	10	8	26	1.61
309751--309813	29	2.1	29	85	8	83	31	15	23	28	1.96
310078--310235	21	7.8	20	72	7	86	38	25	17	18	1.92
310202--310395	20	9.6	20	80	5	212	35	25	19	19	1.95
310202--310395	60	3.2	60	84	0	253	35	25	19	19	1.95
310777--310847	33	2.2	33	89	0	106	11	23	16	47	1.79
310927--311032	21	5.6	20	70	16	91	45	18	25	10	1.81
310925--311003	21	3.8	21	79	12	92	45	16	26	11	1.81
310920--311036	41	3.1	38	79	14	136	46	17	26	10	1.80
310990--311043	14	3.5	14	73	22	54	42	24	25	7	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
310979--311048	33	2.1	33	97	0	131	47	20	25	7	1.75
310985--311059	33	2.3	33	92	0	123	46	24	22	6	1.75
311055--311152	19	5.7	19	70	22	81	10	24	22	42	1.84
311077--311166	14	5.7	14	74	23	81	8	25	23	42	1.83
311060--311174	33	3.5	33	95	0	212	9	24	20	45	1.81
312872--313252	93	4.1	93	98	0	744	22	12	18	45	1.83
313265--313394	19	7.3	19	75	17	127	10	18	23	46	1.80
313282--313338	14	3.7	14	77	20	60	10	21	22	45	1.82
313265--313357	33	2.8	33	95	0	168	10	20	21	47	1.80
315288--315323	14	2.6	14	95	0	63	33	0	22	44	1.53
315430--315529	19	5.5	19	83	12	138	46	17	22	15	1.84
315430--315546	53	2.2	53	93	1	200	44	17	23	14	1.85
315536--315684	19	8.6	19	73	21	139	15	22	18	43	1.87
315536--315652	52	2.2	52	95	0	207	16	21	17	44	1.87
315593--315684	33	2.8	33	98	1	175	13	23	18	44	1.85
315612--315666	14	3.6	14	73	21	56	10	23	20	45	1.82
315743--315840	19	5.4	19	84	13	143	45	17	22	14	1.84
315743--315859	53	2.2	53	98	1	227	44	17	23	13	1.85
318387--318441	24	2.3	24	83	0	65	38	20	14	27	1.91
319115--319351	20	11.9	20	87	1	260	18	19	24	36	1.94
319338--319420	21	4.0	21	73	6	78	25	16	24	33	1.96
319318--319416	42	2.4	43	77	11	100	21	18	23	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
320089--320113	10	2.5	10	100	0	50	36	28	0	36	1.58
320161--320201	18	2.3	18	91	4	66	29	4	0	65	1.13
343321--343346	13	2.0	13	100	0	52	30	23	15	30	1.95
347775--347985	72	2.9	72	85	2	255	17	26	26	29	1.97
371510--371581	35	2.1	33	87	5	99	22	31	15	30	1.94
371862--371903	21	2.0	21	95	0	75	26	28	21	23	1.99
371972--372031	29	2.0	31	93	6	106	43	16	6	33	1.74
375306--375371	30	2.2	29	84	5	87	59	6	0	34	1.22
377277--377405	63	2.0	63	100	0	258	25	15	22	36	1.93
389781--389865	31	2.8	31	83	1	109	27	9	7	56	1.57
390819--391190	184	2.0	187	98	1	723	39	6	20	32	1.79
400135--400171	15	2.4	16	86	8	51	45	8	2	43	1.47
401597--401640	23	1.9	23	90	0	70	52	2	0	45	1.13
402046--402084	20	2.0	19	90	5	60	51	0	0	48	1.00
402141--402188	23	2.1	23	100	0	96	45	20	8	25	1.79
404762--404847	36	2.4	36	96	0	154	36	9	4	50	1.56
406704--406759	28	2.0	28	82	6	69	41	0	3	55	1.17
408806--408848	20	2.3	18	85	14	61	20	16	11	51	1.75
408811--408857	20	2.4	19	82	10	67	19	17	10	53	1.72
408979--409024	20	2.3	20	85	10	67	17	15	10	56	1.67
413208--413283	6	12.7	6	71	20	61	77	3	2	15	1.03
413207--413281	30	2.5	29	79	16	82	77	4	2	16	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
413209--413285	11	6.5	11	81	14	75	76	3	2	16	1.05
416316--416375	31	1.9	31	93	0	102	40	3	10	46	1.54
416502--417039	32	18.7	32	66	27	225	51	12	0	35	1.43
416485--417061	54	10.7	54	84	7	625	51	12	0	35	1.42
416534--416576	22	2.0	22	100	0	86	51	13	0	34	1.42
416536--416584	22	2.2	22	85	3	62	57	14	0	28	1.38
416699--416773	22	3.2	23	75	17	82	54	17	0	28	1.43
416591--416981	134	2.9	133	93	2	667	51	12	0	35	1.42
416833--416907	22	3.2	23	71	17	73	54	16	0	29	1.42
416967--417015	22	2.2	22	85	3	62	55	12	0	32	1.37
417019--417072	22	2.5	22	96	0	99	50	11	0	38	1.38
417060--417149	15	6.0	15	89	0	126	47	0	1	51	1.08
417060--417149	30	3.0	30	95	0	153	47	0	1	51	1.08
417625--417665	21	2.0	21	95	0	73	24	36	24	14	1.93
421913--421964	3	16.7	3	84	15	54	59	0	0	40	0.97
421915--421961	9	5.1	10	85	15	66	59	0	0	40	0.97
422330--422420	36	2.5	35	86	11	123	20	19	10	48	1.79
422472--422570	38	2.5	39	88	8	137	24	20	11	44	1.83
422500--422561	19	3.3	19	68	8	54	20	22	12	43	1.86
422349--422685	154	2.2	150	88	5	507	27	18	12	40	1.87
422515--423025	113	4.5	112	87	2	679	27	18	14	39	1.90
423997--424723	83	8.6	83	91	3	1150	37	22	12	27	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
425863--425889	11	2.5	11	100	0	54	0	7	0	92	0.38
437747--437824	3	25.7	3	89	7	122	62	1	0	35	1.03
440754--440855	34	3.2	30	80	13	91	35	0	3	60	1.15
442571--442618	21	2.3	21	85	0	60	25	39	12	22	1.89
442622--442715	21	4.5	21	92	5	129	18	35	26	20	1.95
443237--443325	33	2.7	35	81	10	96	57	3	1	38	1.23
443723--444986	128	9.9	128	96	0	2252	31	20	25	22	1.98
443723--444986	255	5.0	256	95	0	2252	31	20	25	22	1.98
445055--445095	8	5.2	8	82	5	57	36	29	0	34	1.58
448067--448107	21	2.0	20	86	13	57	51	0	0	48	1.00

Tables:   1   2   3   4