genome.fa.s2648.2.7.7.80.10.50.1000.3.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: VEPZ01002648.1 Hibiscus syriacus cultivar Beakdansim tig00005411_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  636717

Tables:   1   2   3   4   

This is table  3  of  4  ( 408 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)
396630--396691	27	2.4	26	91	5	99	77	3	17	1	0.98
396763--396900	69	2.0	69	94	0	240	37	20	14	27	1.91
397813--397927	31	3.7	30	77	11	108	27	13	21	36	1.92
397819--397927	30	3.5	31	79	10	116	28	12	21	37	1.90
398491--398813	106	3.0	106	87	0	441	35	23	18	21	1.95
398856--399033	88	2.0	90	96	2	333	26	29	18	25	1.98
399129--399325	86	2.2	89	89	4	310	32	18	12	35	1.89
399267--399442	37	5.0	37	69	14	111	28	18	14	38	1.90
399231--399469	102	2.4	102	90	2	365	32	17	12	36	1.88
399623--399732	36	3.1	35	84	8	127	26	20	14	39	1.91
400729--400756	13	2.2	13	100	0	56	67	0	0	32	0.91
401045--401142	44	2.2	44	79	15	110	59	7	8	25	1.52
402469--402591	3	41.0	3	85	0	156	58	0	1	39	1.08
402829--403692	113	7.7	113	90	3	1192	29	18	14	37	1.91
402829--403728	342	2.7	339	87	4	1266	29	18	14	36	1.91
404440--405243	83	9.7	83	94	1	1303	36	23	13	26	1.92
405915--405958	16	2.5	18	89	10	65	50	9	9	31	1.65
405915--405967	16	3.1	16	76	17	54	49	9	9	32	1.67
406285--406362	8	9.6	8	79	18	90	0	17	0	82	0.68
406287--406362	7	10.6	7	77	14	75	0	17	0	82	0.66
406288--406362	6	11.7	6	78	16	55	0	17	0	82	0.67
406287--406357	27	2.9	24	85	10	90	0	16	0	83	0.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
406289--406360	15	4.9	15	80	11	87	0	18	0	81	0.68
406297--406365	27	2.5	29	78	19	85	0	18	0	81	0.70
413680--413711	15	2.1	15	94	0	55	46	9	18	25	1.79
416993--417057	24	2.8	23	79	4	69	61	1	1	35	1.15
417779--417890	50	2.2	51	93	4	190	59	7	8	24	1.52
417791--417871	26	3.2	26	63	25	64	59	6	7	27	1.48
418652--418693	15	2.9	14	89	7	57	0	21	2	76	0.90
418652--418693	20	2.1	20	86	8	59	0	21	2	76	0.90
419237--419360	3	41.3	3	85	0	167	59	0	1	38	1.07
419918--420024	2	55.5	2	73	17	57	37	1	0	59	1.14
419959--420075	8	16.4	7	75	16	57	30	1	0	66	1.07
419959--420031	37	1.9	38	88	2	112	35	1	0	63	1.04
419894--420047	43	3.6	42	75	18	151	33	1	1	63	1.14
419993--420115	47	2.6	49	77	14	123	24	3	0	71	1.06
420044--420114	9	7.7	9	72	12	54	16	4	1	77	1.00
420052--420128	37	2.1	37	81	13	88	16	7	1	74	1.12
431314--431353	21	1.9	22	90	10	66	15	17	5	62	1.49
442314--442384	33	2.2	32	87	2	97	45	29	8	16	1.77
443386--443484	41	2.4	41	86	0	126	30	17	20	32	1.95
443404--443519	41	2.8	41	85	2	142	28	15	19	36	1.93
445434--445486	25	2.1	25	96	0	97	43	15	9	32	1.78
446292--446383	40	2.3	40	82	0	112	38	16	17	28	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
450465--450513	6	7.8	6	80	15	55	75	0	6	18	1.00
451676--451710	12	2.7	13	91	8	54	37	0	0	62	0.95
451908--452020	26	4.3	26	87	2	138	30	45	12	12	1.79
456370--456484	32	3.7	30	75	5	104	37	28	11	22	1.89
465840--465878	19	2.0	21	85	10	55	46	2	41	10	1.51
467036--467097	31	2.0	31	84	9	81	30	30	4	33	1.79
473533--473601	23	3.0	23	76	0	75	31	23	24	20	1.98
474817--474938	64	1.9	63	85	5	165	27	21	16	34	1.95
476742--476779	20	2.0	20	94	5	69	13	21	42	23	1.88
477093--477180	44	2.0	44	100	0	176	31	29	0	38	1.58
477851--477879	12	2.4	12	100	0	58	17	17	37	27	1.92
479452--479489	20	1.9	20	88	0	58	13	26	36	23	1.91
483268--483307	21	1.9	21	85	10	55	35	10	2	52	1.48
486684--486729	18	2.6	18	96	3	85	32	10	6	50	1.63
490275--490670	196	2.0	198	98	2	760	30	13	19	36	1.90
493376--493433	20	2.7	21	86	10	73	32	22	22	22	1.98
494232--494306	27	2.7	27	91	4	114	18	14	28	38	1.90
497505--497562	20	2.7	21	86	10	73	32	22	22	22	1.98
498393--498465	28	2.6	28	95	0	128	17	16	27	38	1.91
500043--500116	21	3.5	21	90	3	114	47	17	20	14	1.83
500365--500394	6	5.0	6	91	0	51	13	16	16	53	1.73
500380--500417	20	2.0	20	89	5	60	23	10	10	55	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502185--502220	6	6.0	6	87	12	56	19	16	16	47	1.83
504327--504365	2	20.0	2	94	5	71	51	0	0	48	1.00
506402--506554	37	4.1	37	84	5	193	41	20	18	18	1.91
506412--506571	73	2.2	72	87	3	223	38	24	18	19	1.93
506592--507774	427	2.8	428	90	1	1811	32	15	19	32	1.93
506592--507774	215	5.5	214	91	1	1820	32	15	19	32	1.93
511571--511902	20	16.6	19	77	11	201	41	22	14	20	1.89
514550--514606	21	2.7	21	77	0	60	22	36	14	26	1.92
514570--514630	21	3.0	20	70	15	61	19	39	18	22	1.92
515958--516133	66	2.6	65	87	8	239	27	2	15	53	1.54
516187--516234	20	2.4	20	86	10	71	41	22	18	16	1.90
518794--518845	24	2.2	24	82	0	59	36	17	19	26	1.94
519586--519626	16	2.6	16	84	0	55	68	0	4	26	1.10
519782--519955	20	8.7	20	73	13	117	24	13	24	37	1.91
519783--519875	41	2.3	40	85	3	116	27	11	24	35	1.91
519843--519990	20	7.4	20	77	11	144	20	14	25	39	1.90
519822--520014	40	4.8	41	73	10	150	22	13	25	38	1.91
519802--520014	60	3.5	60	78	10	202	23	14	25	37	1.92
521375--521405	2	15.5	2	100	0	62	51	0	0	48	1.00
522312--522363	2	26.5	2	96	3	97	48	0	0	51	1.00
536716--536819	49	2.1	49	82	5	120	32	21	12	33	1.91
539757--539856	44	2.3	44	87	3	139	28	19	13	40	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545183--545252	21	3.2	22	83	6	88	32	28	22	15	1.95
545195--545255	23	2.8	21	85	5	77	29	27	26	16	1.97
545365--545464	44	2.3	44	87	3	139	28	19	13	40	1.88
556174--556230	12	4.7	12	86	4	69	57	0	1	40	1.09
556182--556228	6	7.7	6	95	2	67	59	0	2	38	1.09
556299--556373	31	2.5	31	95	2	134	44	5	14	36	1.68
560770--560810	21	2.0	20	90	9	66	24	4	4	65	1.32
564291--564364	3	24.0	3	81	8	78	40	0	0	59	0.97
565613--565700	21	4.3	20	80	9	79	26	23	18	31	1.97
565641--565704	21	3.1	21	82	8	87	28	21	18	31	1.97
566583--566636	24	2.2	24	93	0	90	20	18	20	40	1.91
567848--568223	189	2.0	186	98	1	725	31	13	21	33	1.92
569247--569314	20	3.4	20	89	4	102	38	25	19	17	1.93
569329--569366	19	2.0	19	89	0	58	50	13	18	18	1.78
569298--569408	53	2.1	53	83	3	134	44	16	21	18	1.87
569412--569544	20	6.7	20	91	1	223	10	20	19	49	1.77
569412--569544	59	2.2	59	93	1	230	10	20	19	49	1.77
569677--569751	33	2.3	32	88	11	116	14	22	20	42	1.88
569672--569738	19	3.8	18	74	20	70	13	22	19	44	1.85
569849--569885	14	2.6	14	86	0	56	48	21	0	29	1.50
571727--571774	20	2.4	20	92	0	87	39	25	18	16	1.91
571818--572002	20	9.6	20	84	8	249	22	20	18	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
571782--572002	113	2.0	110	80	12	252	21	20	18	39	1.92
574549--574605	20	2.8	20	94	0	96	22	19	17	40	1.91
574554--574644	20	4.4	20	87	5	92	28	17	23	30	1.97
574571--574643	21	3.5	21	87	5	78	30	17	24	27	1.97
578245--578295	22	2.3	22	86	0	66	33	13	17	35	1.89
578953--579377	46	9.3	46	93	0	703	22	23	19	35	1.96
578953--579377	182	2.3	183	94	0	735	22	23	19	35	1.96
579545--579625	6	13.0	6	79	8	74	41	0	0	58	0.98
579545--579625	15	5.2	15	82	10	74	41	0	0	58	0.98
579545--579632	21	4.0	21	80	14	90	43	0	0	56	0.99

Tables:   1   2   3   4