genome.fa.s1478.2.7.7.80.10.50.1000.4.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: VEPZ01001478.1 Hibiscus syriacus cultivar Beakdansim tig00002868_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  623040

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 580 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)
427737--428393	127	5.2	127	93	0	1125	32	22	23	20	1.98
428533--428578	19	2.4	19	92	0	83	32	21	32	13	1.92
428662--428706	6	7.8	6	80	14	51	33	2	0	64	1.06
428663--428715	17	3.1	16	80	17	54	33	3	0	62	1.13
432654--432696	20	2.2	20	86	0	59	34	20	13	30	1.92
437642--437684	20	2.2	20	86	0	59	34	20	13	30	1.92
440559--440614	3	18.7	3	92	7	96	64	0	0	35	0.94
441379--441482	29	3.6	29	89	6	140	57	10	11	20	1.63
442131--442172	2	21.0	2	100	0	84	50	0	0	50	1.00
442592--443216	46	14.5	43	70	13	283	24	18	32	25	1.97
442632--443262	83	7.4	85	69	16	303	23	17	33	25	1.97
442550--443262	129	5.5	129	88	2	1022	23	18	32	25	1.97
442550--443288	256	2.9	255	88	3	1045	24	18	32	25	1.97
443371--443551	33	5.3	32	68	16	114	38	11	16	33	1.85
443387--443508	36	3.5	36	70	15	101	40	10	16	31	1.83
443384--443588	69	3.0	69	92	0	329	39	11	16	32	1.85
443423--443550	33	3.8	33	77	11	141	36	11	18	32	1.87
443456--443586	36	3.7	36	74	6	115	40	12	16	29	1.86
443322--443733	69	6.1	65	79	8	244	39	13	18	28	1.89
443772--443995	36	6.4	36	80	11	259	39	15	20	24	1.91
443730--443995	137	1.9	137	93	0	460	39	15	20	24	1.91
443790--443977	101	1.9	101	93	2	324	38	15	20	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
444124--444351	121	1.9	121	85	1	314	23	15	25	35	1.94
444204--444536	179	1.9	179	88	0	504	25	16	23	34	1.96
444436--444657	117	1.9	117	97	0	417	24	18	25	31	1.97
445010--445097	32	2.7	31	81	6	95	34	22	12	30	1.91
446112--446161	11	4.5	11	78	14	57	2	8	4	86	0.78
446112--446161	22	2.3	22	86	6	66	2	8	4	86	0.78
448396--448471	32	2.3	32	88	2	107	11	10	34	43	1.76
448478--448612	32	4.3	32	82	9	172	14	10	34	41	1.79
448514--448577	28	2.3	27	89	5	101	15	10	34	39	1.83
448483--448603	60	2.0	59	92	4	199	14	9	32	42	1.79
450858--450917	27	2.3	25	83	8	75	55	23	15	6	1.64
451377--451436	27	2.3	25	83	8	75	55	23	15	6	1.64
450638--451678	519	2.0	519	99	0	2057	38	19	15	26	1.91
455973--455999	4	6.8	4	100	0	54	74	0	0	25	0.83
457069--457125	30	1.9	30	100	0	114	47	15	21	15	1.82
458234--458266	17	2.0	17	88	5	50	9	12	21	57	1.62
460960--460992	17	2.0	17	88	5	50	9	12	21	57	1.62
458094--461741	908	4.0	912	94	3	6472	37	19	16	25	1.93
466844--466897	2	27.0	2	100	0	108	50	0	0	50	1.00
470863--470962	52	1.9	52	97	0	191	21	23	13	43	1.87
474687--474772	41	2.1	42	97	2	165	32	15	19	32	1.93
477994--478029	17	2.1	17	94	0	63	50	0	8	41	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
478321--478369	15	3.3	15	74	23	50	32	2	2	63	1.17
478199--478452	126	2.0	126	97	2	483	40	5	6	48	1.52
478207--478489	126	2.2	127	90	5	414	41	5	6	46	1.53
478990--479050	20	3.0	20	81	9	70	55	14	16	13	1.69
482088--482184	28	3.4	28	75	17	94	51	1	2	45	1.19
482088--482144	15	3.9	15	84	9	82	54	0	0	45	0.99
482207--482255	15	3.2	16	75	18	59	44	2	2	51	1.24
482278--482345	22	3.2	22	75	8	77	39	5	5	48	1.52
482234--482315	11	7.8	10	70	22	53	46	2	3	47	1.33
482278--482315	11	3.5	11	88	0	58	44	2	2	50	1.30
482298--482356	31	1.9	31	89	0	91	40	6	6	45	1.57
482349--482407	25	2.3	25	76	2	64	37	5	8	49	1.55
482399--482529	2	63.5	2	69	19	74	45	4	3	47	1.39
482400--482532	19	7.0	19	81	15	152	43	4	3	48	1.41
482550--483359	215	3.8	212	90	3	1199	29	11	8	50	1.68
483622--483657	15	2.3	16	90	4	56	27	22	16	33	1.95
484790--484875	22	3.8	22	71	19	70	46	8	1	44	1.40
486623--486685	24	2.6	24	84	0	90	22	17	25	34	1.95
489243--489272	12	2.6	11	94	5	51	73	3	0	23	0.98
491614--491652	19	2.0	21	90	10	64	46	5	0	48	1.24
491652--491768	25	4.9	23	72	15	76	45	7	5	41	1.55
491618--491886	72	3.8	70	81	11	286	44	6	3	45	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
491677--491878	22	8.4	25	72	17	126	43	6	2	47	1.45
491719--491840	50	2.5	47	84	7	140	44	6	3	45	1.46
491842--491905	28	2.2	29	78	10	69	42	3	3	51	1.33
495769--495821	21	2.5	21	84	0	70	20	22	20	35	1.96
495813--495880	20	3.5	20	91	2	111	38	19	22	20	1.94
495869--495935	20	3.3	21	81	8	86	26	25	20	26	1.99
499265--499313	20	2.5	20	93	6	82	34	26	22	16	1.95
499246--499348	54	1.9	54	86	4	145	39	24	21	14	1.91
499384--499437	14	3.5	14	73	22	54	11	22	20	46	1.82
499362--499446	33	2.5	33	90	1	125	14	21	18	45	1.84
499371--499424	19	3.1	19	67	25	55	12	18	18	50	1.78
499563--499599	14	2.6	14	86	0	56	48	21	0	29	1.50
500970--501092	42	2.9	42	77	9	126	22	17	37	21	1.94
500970--501063	21	4.5	21	70	6	66	21	18	37	23	1.94
501045--501086	21	2.2	19	87	12	59	26	16	35	21	1.94
502319--502443	31	4.0	31	95	2	216	38	23	19	19	1.93
503136--503211	21	3.6	21	90	0	125	19	31	25	23	1.98
504313--504358	20	2.3	20	92	0	74	17	21	26	34	1.95
504333--504425	33	2.8	34	81	6	127	12	20	22	44	1.85
504400--504447	20	2.4	20	100	0	96	14	20	27	37	1.92
504333--504428	34	2.9	34	82	6	133	13	19	22	43	1.86
504283--504445	87	1.9	87	97	0	308	14	20	22	42	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
506361--506410	20	2.5	20	86	0	73	38	28	16	18	1.91
506830--506871	22	1.9	22	95	0	75	21	11	42	23	1.86
507047--507107	20	3.0	20	90	0	95	26	21	26	26	1.99
507051--507120	20	3.5	21	80	7	74	22	20	27	30	1.98
507111--507219	20	5.4	20	95	0	200	22	20	17	39	1.92
507094--507219	60	2.1	60	89	2	191	23	19	18	39	1.92
507216--507261	21	2.2	21	92	0	74	36	19	26	17	1.94
508027--508054	2	14.0	2	100	0	56	50	0	0	50	1.00
508847--508889	18	2.3	18	76	4	50	60	2	0	37	1.10
510526--510584	16	3.8	16	78	10	59	25	20	13	40	1.89
510802--510855	23	2.3	24	96	3	101	42	0	9	48	1.35
514287--514326	13	3.0	13	92	3	62	37	0	45	17	1.49
514699--514734	17	2.1	17	100	0	72	50	8	11	30	1.67
515527--515556	15	2.0	15	93	0	51	20	13	50	16	1.78
515827--515866	13	3.0	13	92	3	62	37	0	45	17	1.49
516235--516270	17	2.1	17	100	0	72	50	8	11	30	1.67
517407--517456	19	2.6	19	93	0	82	30	2	10	58	1.42
517732--518596	390	2.2	389	90	5	1334	34	16	16	32	1.91
517732--518660	198	4.7	195	89	6	1310	35	16	15	31	1.91
518776--518811	17	2.1	17	90	10	56	25	8	22	44	1.80
518918--518968	15	3.4	15	94	0	84	19	47	1	31	1.61
520093--520130	12	3.2	12	92	0	58	39	2	31	26	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
521435--521487	24	2.2	24	86	0	70	35	3	13	47	1.61
522700--524127	201	7.1	201	86	3	1847	36	16	14	31	1.89
523887--523932	21	2.1	21	84	4	56	30	15	10	43	1.81
527289--527758	197	2.4	199	81	5	533	38	13	16	31	1.88
527761--527923	87	1.9	87	96	0	299	31	15	12	40	1.85
527845--527889	23	2.0	23	95	0	81	37	20	8	33	1.83
528794--528846	21	2.5	21	84	3	61	49	5	5	39	1.50
528892--528961	24	3.2	22	75	11	63	42	5	8	42	1.59
528921--528979	26	2.2	26	87	6	82	40	8	6	44	1.61
528893--528978	20	3.7	22	70	19	59	43	6	8	41	1.61

Tables:   1   2   3   4   5