genome.fa.s6932.2.7.7.80.10.50.1000.3.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: VEPZ01006932.1 Hibiscus syriacus cultivar Beakdansim tig00017792_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  664293

Tables:   1   2   3   4   

This is table  3  of  4  ( 425 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)
404707--404744	2	19.0	2	100	0	76	50	0	0	50	1.00
408443--408491	23	2.1	23	88	0	71	4	14	42	38	1.64
415042--415086	23	2.0	23	90	0	72	24	26	26	22	2.00
415054--415368	149	2.1	149	94	2	544	34	21	17	26	1.96
415910--415943	2	17.0	2	100	0	68	50	0	0	50	1.00
416805--416965	64	2.5	63	83	5	198	27	20	18	33	1.96
420306--420350	23	2.0	23	86	0	63	26	26	24	22	2.00
420318--420632	149	2.1	149	93	2	535	33	21	17	26	1.96
422042--422202	64	2.5	63	85	8	200	26	21	18	33	1.96
428752--428843	23	4.0	23	84	1	112	59	18	10	10	1.59
448207--448277	35	2.0	35	91	0	115	29	23	7	39	1.81
449443--449476	17	2.0	17	100	0	68	29	29	11	29	1.92
450516--450591	32	2.4	30	79	12	89	59	10	14	15	1.61
453723--453752	2	15.5	2	93	6	53	46	0	0	53	1.00
453793--454137	37	9.3	35	84	7	350	43	0	6	48	1.35
453798--454135	152	2.3	146	84	6	437	43	0	6	49	1.35
454131--454232	14	7.9	13	70	24	58	24	0	0	73	0.95
454141--454231	7	13.7	7	83	12	72	26	1	0	72	0.91
455450--455495	3	15.3	3	82	8	58	26	0	0	73	0.83
455436--455492	24	2.2	24	78	9	60	26	3	0	70	1.03
455452--455495	13	3.4	13	87	9	63	25	0	0	75	0.81
455468--455526	11	5.3	11	76	11	57	20	3	1	74	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
455450--455514	6	10.8	6	78	6	60	21	3	1	73	1.05
460777--461697	84	11.2	83	75	4	781	30	23	19	26	1.98
460777--461697	248	3.7	248	87	1	1233	30	23	19	26	1.98
462277--462309	2	17.0	2	93	6	59	48	0	0	51	1.00
462357--462689	37	8.9	37	86	4	402	43	1	6	48	1.38
462357--462689	150	2.2	148	85	4	436	43	1	6	48	1.38
462691--462768	4	20.2	4	76	23	55	24	2	1	71	1.06
462296--462698	113	3.6	111	81	9	434	42	1	7	48	1.41
462708--462778	3	22.7	3	77	21	51	25	4	0	70	1.05
462701--462783	28	2.9	28	79	15	107	24	3	0	72	1.01
467935--467982	22	2.1	23	85	11	64	52	25	2	20	1.58
484148--484175	2	14.0	2	100	0	56	50	0	0	50	1.00
490155--490201	20	2.3	20	85	7	60	42	27	12	17	1.85
490317--490367	22	2.3	22	89	0	84	19	43	15	21	1.88
490739--490785	14	3.4	14	93	0	76	55	21	10	12	1.67
492765--492798	4	8.5	4	86	0	50	26	0	2	70	1.01
492944--493024	21	3.9	21	78	12	85	24	38	17	19	1.93
492942--493060	42	2.8	42	79	5	114	23	35	19	21	1.96
494387--494562	66	2.6	65	86	8	239	27	2	15	53	1.56
494993--495028	18	2.0	18	94	0	63	16	2	25	55	1.55
495983--496019	18	2.1	18	89	0	56	51	10	5	32	1.60
496879--496919	18	2.3	18	95	0	73	19	2	21	56	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
498755--498803	24	2.0	24	88	0	71	46	16	14	22	1.82
498772--498887	48	2.4	47	84	8	146	40	16	16	26	1.89
498772--498887	24	4.8	24	82	10	130	40	16	16	26	1.89
498772--498905	48	2.8	46	79	10	135	41	16	15	26	1.88
501399--501447	15	3.1	15	79	5	53	24	24	32	18	1.97
502556--502590	18	1.9	18	88	0	52	31	34	17	17	1.93
504160--504198	15	2.5	15	83	4	51	66	0	5	28	1.12
504369--504458	20	4.4	20	75	6	83	21	14	24	40	1.90
504389--504479	40	2.3	40	83	7	114	20	16	23	39	1.92
505422--505472	18	2.9	17	75	13	50	56	3	9	29	1.49
507582--507616	2	18.0	2	94	5	63	48	0	0	51	1.00
513751--513796	22	2.1	22	95	0	83	47	13	6	32	1.68
514684--514720	19	1.9	19	94	0	65	32	29	16	21	1.95
514746--514809	20	3.2	20	97	0	119	23	31	18	26	1.98
514984--515034	22	2.3	22	96	0	93	19	45	15	19	1.86
515439--515487	20	2.5	20	89	0	71	18	18	26	36	1.94
515455--515510	20	2.8	20	91	0	85	10	16	23	50	1.76
515474--515517	20	2.2	20	91	0	70	11	13	20	54	1.69
518262--518361	23	4.2	24	79	6	107	32	23	22	23	1.98
521925--521985	20	2.9	21	85	7	70	16	26	32	24	1.96
525791--525836	21	2.2	21	84	7	58	36	4	2	56	1.31
530373--530398	6	4.3	6	100	0	52	84	0	0	15	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
539576--539730	72	2.2	72	84	3	204	34	16	10	38	1.83
541598--541665	27	2.5	27	90	0	109	30	14	16	38	1.89
547384--547429	2	23.0	2	100	0	92	50	0	0	50	1.00
548456--548519	28	2.2	29	81	8	69	68	10	6	14	1.37
548713--548876	76	2.2	75	80	6	170	50	15	9	24	1.75
549694--549742	16	2.8	18	76	17	57	67	2	2	28	1.13
549694--549761	35	2.0	34	85	8	93	67	2	4	25	1.23
550112--550439	46	7.6	45	71	15	188	25	17	29	27	1.98
549942--550442	129	3.9	129	84	2	594	24	18	29	26	1.98
550242--550439	83	2.3	87	83	8	242	26	18	28	26	1.98
549942--550442	257	1.9	260	84	3	670	24	18	29	26	1.98
550283--550462	83	2.1	83	83	5	218	26	17	30	25	1.97
550301--550500	86	2.4	84	80	4	206	26	18	30	25	1.98
550524--550589	28	2.3	29	84	5	100	48	16	10	24	1.78
551082--551243	64	2.5	65	82	5	193	44	13	14	27	1.83
551134--551350	92	2.3	92	81	3	238	42	13	12	31	1.81
551295--551382	29	3.0	30	78	6	108	44	13	10	31	1.77
551295--551390	28	3.3	29	78	8	99	46	12	11	29	1.76
551722--551834	36	3.1	35	78	6	127	39	10	17	31	1.84
552139--552179	12	3.4	12	80	12	57	21	0	21	56	1.43
552118--552189	16	4.5	16	75	6	74	22	1	25	51	1.56
552119--552179	32	1.9	32	89	0	95	21	1	24	52	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
552118--552189	32	2.2	32	82	4	92	22	1	25	51	1.56
552310--552351	14	2.9	15	85	7	59	35	30	4	28	1.78
555714--555757	20	2.2	20	88	8	63	43	18	20	18	1.89
556466--556524	30	2.0	30	86	0	82	62	6	15	15	1.51
560096--560127	2	16.0	2	100	0	64	50	0	0	50	1.00
560249--560567	64	5.0	64	92	3	545	42	10	9	36	1.72
560249--560567	129	2.5	126	94	2	557	42	10	9	36	1.72
567229--567283	28	2.0	28	82	7	67	74	9	16	0	1.06
567253--567303	16	3.2	16	83	13	61	74	9	13	1	1.15
567918--567972	22	2.5	22	96	0	101	38	25	12	23	1.90
568719--568832	36	3.1	36	67	9	97	26	16	15	41	1.89
568842--568912	36	2.0	36	86	5	99	26	19	14	39	1.90
568726--568901	70	2.5	73	82	8	193	27	18	15	38	1.91
568968--569062	37	2.6	37	87	0	145	16	23	17	42	1.89
569322--569847	106	5.0	106	87	4	762	35	24	18	21	1.96
569320--569847	206	2.5	212	89	3	773	35	24	18	21	1.96
583683--583741	28	2.1	28	96	0	109	32	11	16	38	1.86
585934--585976	22	2.0	21	86	8	61	20	44	23	11	1.84
586057--586098	21	2.0	21	90	0	66	26	21	28	23	1.99
586127--586166	20	1.9	22	90	10	66	37	40	10	12	1.77
587943--587992	19	2.6	19	100	0	100	40	4	20	36	1.71
589467--589508	21	2.0	21	86	9	59	23	21	26	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589537--589576	20	1.9	22	90	10	66	37	40	10	12	1.77
590889--590916	2	14.0	2	100	0	56	50	0	0	50	1.00
592406--592463	20	2.8	20	81	5	71	25	22	13	37	1.91
593001--593055	28	2.0	28	88	0	83	40	5	3	50	1.43
593040--593068	15	1.9	15	100	0	58	31	6	6	55	1.53
593975--594030	13	4.0	13	82	17	76	16	46	23	14	1.83
593975--594035	30	2.0	31	96	3	115	16	47	22	13	1.81
594067--594228	60	2.8	60	83	5	206	30	8	24	36	1.85
594041--594221	29	6.2	29	78	3	186	29	8	23	38	1.85
600979--601082	7	15.1	7	75	4	68	46	29	0	23	1.59

Tables:   1   2   3   4