genome.fa.s7068.2.7.7.80.10.50.1000.2.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: VEPZ01007068.1 Hibiscus syriacus cultivar Beakdansim tig00018390_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  617230

Tables:   1   2   3   

This is table  2  of  3  ( 277 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)
269426--269469	19	2.4	19	84	3	63	6	13	25	54	1.63
270061--270114	20	2.7	20	97	0	99	25	18	24	31	1.97
270021--270135	61	1.9	61	81	3	142	21	20	23	34	1.96
270789--270836	17	2.8	17	78	12	53	60	0	4	35	1.16
271038--271083	19	2.3	21	85	7	60	36	15	6	41	1.73
272470--272502	14	2.5	13	86	13	50	39	0	6	54	1.25
281879--281960	31	2.8	28	77	12	76	45	6	3	45	1.46
281879--281975	28	3.3	29	77	9	81	42	6	7	44	1.57
291798--291845	20	2.4	20	80	10	53	47	31	8	12	1.71
292003--292037	15	2.3	15	95	0	61	34	0	37	28	1.58
292358--292401	23	1.9	23	85	0	61	34	29	13	22	1.93
304047--304400	6	59.3	6	95	3	635	33	1	16	48	1.54
306402--306462	2	30.5	2	100	0	122	50	0	0	49	1.00
306627--306690	24	2.7	24	77	0	74	51	18	12	17	1.76
306627--306688	12	5.2	12	71	7	54	53	19	12	14	1.73
309199--309254	13	4.3	13	86	0	76	17	19	42	19	1.89
309199--309254	26	2.2	26	93	0	94	17	19	42	19	1.89
310536--310579	13	3.4	13	90	0	70	18	20	43	18	1.89
312226--312267	20	2.1	20	95	0	75	40	0	0	59	0.97
312226--312265	9	4.2	9	81	12	53	42	0	0	57	0.98
317031--317089	29	2.0	29	100	0	118	23	13	13	49	1.78
324503--324551	17	2.9	17	100	0	98	44	6	0	48	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
324779--324845	33	2.0	33	97	0	125	35	26	13	23	1.92
326724--326765	21	2.0	21	86	4	59	54	14	11	19	1.70
328005--328045	16	2.6	16	100	0	82	4	31	34	29	1.79
328100--328172	3	24.3	3	73	15	53	63	2	0	34	1.09
328121--328466	7	47.4	7	70	19	185	54	4	1	39	1.30
328163--328471	2	165.5	2	67	25	135	52	5	1	40	1.33
328164--328395	17	14.2	16	69	19	99	53	5	0	40	1.26
328121--328479	38	9.7	36	73	16	224	54	5	1	39	1.31
328110--328398	61	5.0	59	77	17	215	55	4	0	39	1.24
328108--328397	97	3.0	92	74	17	252	55	4	0	38	1.24
328417--328489	24	2.9	24	75	16	76	52	1	5	41	1.33
329448--329476	15	1.9	15	100	0	58	0	17	13	68	1.20
343591--343628	18	2.1	19	85	5	51	60	0	2	36	1.11
343653--343678	12	2.2	12	100	0	52	26	7	0	65	1.20
347433--347605	54	3.2	54	89	3	251	27	20	26	24	1.99
348641--348666	13	2.0	13	100	0	52	53	0	0	46	1.00
363722--363762	20	2.0	20	85	4	55	60	19	7	12	1.54
365503--365565	21	2.9	21	83	9	65	14	17	12	55	1.69
366733--366766	17	2.0	17	88	0	50	50	5	0	44	1.26
367122--367194	31	2.3	32	92	4	121	35	26	16	21	1.94
371950--371987	18	2.0	20	85	10	53	50	5	5	39	1.48
372930--372984	22	2.5	23	77	16	64	43	0	5	50	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
375732--375808	29	2.7	29	100	0	154	7	46	18	27	1.76
386255--386288	17	2.0	17	94	0	59	52	2	0	44	1.16
387303--387348	23	2.1	23	84	8	60	15	21	10	52	1.73
387589--387628	21	1.9	21	85	10	55	20	2	10	67	1.31
388962--389009	12	4.1	12	81	2	53	77	6	0	16	0.97
392749--392781	14	2.5	13	86	13	50	39	0	6	54	1.25
392842--392877	18	2.0	18	88	0	54	66	0	0	33	0.92
398527--398655	29	4.4	30	87	5	176	34	6	18	40	1.76
398527--398655	59	2.2	59	89	6	192	34	6	18	40	1.76
398549--398676	29	4.4	29	76	10	118	35	5	17	41	1.73
398527--398676	58	2.6	59	83	9	184	35	5	18	41	1.73
405765--405810	5	8.8	5	81	9	56	21	54	19	4	1.61
405770--405819	22	2.3	22	96	0	91	20	50	22	8	1.74
405746--405810	27	2.4	27	92	0	103	20	52	18	9	1.72
405833--405953	29	4.2	28	86	4	161	33	7	21	38	1.81
417853--417889	18	2.0	19	89	5	58	72	0	0	27	0.84
418218--418246	2	14.5	2	100	0	58	51	0	0	48	1.00
428949--429007	29	2.0	29	100	0	118	23	13	13	49	1.78
433561--433619	29	2.0	29	100	0	118	23	13	13	49	1.78
436666--437237	285	2.0	284	93	1	975	45	8	12	33	1.72
441052--441301	54	4.6	53	75	5	189	34	27	10	27	1.90
441203--441279	27	2.9	27	96	0	136	36	24	11	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
441600--441682	29	2.8	29	83	1	103	40	12	15	31	1.84
445048--445077	15	2.0	15	93	0	51	13	0	30	56	1.37
446355--446437	29	2.8	29	85	1	112	43	9	15	31	1.79
447785--447827	23	1.9	22	85	4	59	11	23	13	51	1.74
453120--453207	30	2.9	30	84	3	88	29	12	28	29	1.93
453189--453247	20	2.9	19	87	5	73	33	5	33	27	1.79
453211--453254	10	4.4	10	79	0	52	38	2	34	25	1.68
453211--453254	20	2.2	20	87	0	61	38	2	34	25	1.68
453845--453887	13	3.3	13	86	0	68	18	46	18	16	1.84
454409--454442	2	17.0	2	100	0	68	50	0	0	50	1.00
456403--456488	29	3.0	29	98	0	163	26	13	12	46	1.80
461119--461175	29	2.0	29	100	0	114	26	14	14	45	1.82
467868--467959	28	3.1	30	67	14	82	31	18	15	34	1.92
471017--471090	35	2.1	35	84	0	94	33	29	27	9	1.88
471170--471265	24	4.0	24	90	2	140	40	20	13	25	1.89
471170--471279	24	4.6	23	87	4	103	41	20	13	24	1.88
477846--477871	12	2.2	12	100	0	52	26	7	0	65	1.20
478449--478633	60	3.1	60	96	1	343	28	27	12	32	1.93
478638--479358	380	1.9	377	91	2	1171	32	14	12	40	1.83
484440--484491	5	10.4	5	100	0	104	80	0	19	0	0.71
497125--497682	285	2.0	285	90	3	899	46	7	11	33	1.70
499137--499286	72	2.1	72	85	0	210	32	16	24	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
500980--501055	33	2.3	33	100	0	152	31	27	15	25	1.96
501222--501279	26	2.3	25	74	11	64	43	18	1	36	1.61
501365--501408	17	2.5	17	81	7	52	52	6	0	40	1.28
505971--506093	59	2.1	59	83	6	151	34	18	14	32	1.91
511602--511639	2	19.0	2	100	0	76	50	0	0	50	1.00
515070--515132	31	2.1	30	82	11	76	36	6	14	42	1.71
515166--515203	19	2.1	18	90	9	60	44	5	7	42	1.56
515162--515212	19	2.6	19	76	14	59	43	3	7	45	1.51
515974--516047	37	2.0	36	82	7	87	51	2	1	44	1.24
521248--521305	18	3.1	18	81	13	71	32	10	8	48	1.68
521248--521305	21	3.0	19	83	11	73	32	10	8	48	1.68
521512--521553	20	2.1	20	90	0	66	23	38	26	11	1.90
524312--524419	20	5.4	20	86	8	67	27	26	17	27	1.98
524336--524451	40	2.9	40	89	2	135	25	23	18	31	1.97
524352--524451	20	5.0	20	93	0	173	25	22	20	33	1.97
524459--524503	6	7.2	6	80	9	54	24	0	0	75	0.80
524448--524503	19	2.9	19	97	2	103	28	0	0	71	0.86
524985--525048	20	3.2	20	93	0	110	31	14	25	29	1.94
524985--525068	40	2.1	40	84	0	105	32	15	22	29	1.95
527191--527280	26	3.5	24	80	13	90	35	11	2	51	1.50
527209--527284	27	2.9	26	92	5	118	40	9	0	50	1.34
528236--528275	19	2.1	19	85	0	53	55	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535665--535740	2	38.0	2	100	0	152	50	0	0	50	1.00
539071--539121	20	2.5	20	87	0	84	13	11	41	33	1.81
542588--542741	69	2.2	69	98	0	299	33	23	20	22	1.97
543920--543968	2	24.5	2	100	0	98	51	0	0	48	1.00
549055--549084	2	15.0	2	100	0	60	50	0	0	50	1.00
549928--550010	2	41.5	2	100	0	166	49	0	0	50	1.00
551700--551817	60	2.0	60	89	0	182	18	23	29	27	1.98
552263--552331	28	2.5	28	97	0	129	24	24	14	36	1.93
558536--558768	18	12.9	18	89	0	306	33	34	9	22	1.86
561390--561789	102	3.9	102	88	2	570	27	27	29	16	1.97

Tables:   1   2   3