genome.fa.s5946.2.7.7.80.10.50.1000.3.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: VEPZ01005946.1 Hibiscus syriacus cultivar Beakdansim tig00013960_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2465359

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  3  of  11  ( 1316 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)
352201--352234	17	2.0	17	94	0	59	14	20	17	47	1.83
357563--357669	24	4.5	24	75	0	97	47	16	14	21	1.82
357563--357671	48	2.3	48	77	0	119	47	16	14	21	1.82
360119--360147	15	1.9	15	100	0	58	27	27	31	13	1.94
360118--360147	7	4.1	7	91	8	51	26	30	30	13	1.94
376464--376499	2	18.5	2	94	5	65	50	0	0	50	1.00
378164--378350	57	3.3	57	88	0	266	28	14	20	35	1.93
378322--378370	20	2.5	20	89	0	80	28	16	26	28	1.97
378265--378427	77	2.1	77	87	2	247	30	14	21	34	1.93
378211--378562	134	2.6	134	91	0	551	29	14	20	35	1.92
378343--378480	57	2.4	57	90	0	213	29	14	19	36	1.92
378399--378566	77	2.2	77	90	0	264	28	14	21	35	1.92
378457--378500	20	2.2	20	100	0	88	31	15	20	31	1.94
379897--379964	35	1.9	35	91	5	111	30	16	10	42	1.81
385301--385342	19	2.2	19	100	0	84	16	14	33	35	1.89
391283--391322	2	20.0	2	100	0	80	50	0	0	50	1.00
392141--392210	29	2.4	29	87	0	104	44	2	2	50	1.31
396400--396499	33	3.0	34	83	2	139	39	3	4	54	1.35
397009--397078	21	3.3	20	90	5	95	18	27	35	18	1.94
397082--397129	21	2.3	21	85	0	60	22	12	39	25	1.89
399858--399911	28	1.9	28	84	0	72	62	5	25	5	1.39
416509--416735	6	37.8	6	100	0	454	33	0	0	66	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
426993--427023	2	16.0	2	93	6	55	51	0	0	48	1.00
427533--427573	20	2.0	20	86	9	57	17	12	0	70	1.16
435294--435509	102	2.1	103	95	0	389	39	19	10	30	1.85
437764--437788	2	12.5	2	100	0	50	52	0	0	48	1.00
447973--448061	3	29.7	3	97	0	169	67	0	0	32	0.91
448684--448713	12	2.5	12	94	0	51	23	0	3	73	0.98
449084--449120	17	2.3	17	86	9	51	54	0	0	45	1.00
449728--449773	22	2.1	22	84	8	58	60	2	2	34	1.21
450047--450124	20	3.7	20	68	15	57	41	3	3	51	1.38
450198--450239	22	1.9	22	85	9	59	47	4	7	40	1.52
450265--450306	20	2.0	21	86	4	59	52	11	14	21	1.73
456807--456836	3	10.0	3	92	0	51	30	0	3	66	1.07
457502--457535	15	2.4	14	90	9	52	64	0	0	35	0.94
480590--480625	16	2.2	16	95	0	63	61	19	5	13	1.52
480894--480945	24	2.2	24	92	0	86	25	9	9	55	1.62
485478--485563	41	2.1	41	85	6	113	38	15	20	25	1.92
485509--485830	41	7.9	41	87	1	405	27	19	20	33	1.96
489405--489650	42	5.8	42	80	1	251	27	22	19	30	1.98
489406--489587	85	2.1	84	85	4	240	26	20	20	32	1.97
489426--489691	85	3.1	84	80	4	221	27	23	19	30	1.98
489572--489673	43	2.4	43	83	0	114	25	24	19	30	1.98
495646--495783	21	6.7	21	69	6	59	34	25	18	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495751--496119	20	18.5	20	85	4	458	34	26	18	20	1.96
497022--497328	19	17.4	19	80	16	376	47	18	20	14	1.82
497050--497328	52	5.2	52	93	4	388	47	17	21	14	1.82
497089--497328	71	3.4	71	86	11	373	47	17	20	14	1.83
497022--497350	52	6.3	55	88	9	332	46	18	20	14	1.83
497022--497366	142	2.5	142	90	5	526	46	18	20	14	1.84
497357--497457	19	5.6	19	85	12	142	14	23	17	43	1.87
497357--497457	33	2.8	37	78	18	140	14	23	17	43	1.87
497562--497598	14	2.6	14	91	0	65	45	21	0	32	1.52
499573--499629	14	3.7	14	77	20	60	45	22	21	10	1.82
499554--499646	33	2.8	33	93	0	159	47	21	19	11	1.81
499517--499651	19	7.6	19	76	16	119	45	23	18	11	1.82
499647--499775	19	7.3	19	75	17	125	8	17	28	45	1.77
499647--499738	33	2.8	33	93	3	150	7	18	28	45	1.76
499819--500381	93	6.1	93	98	1	1071	46	18	12	22	1.83
499819--500381	276	2.0	278	97	1	1069	46	18	12	22	1.83
502084--502173	14	5.7	14	74	23	81	42	23	25	8	1.83
502076--502190	33	3.5	33	95	0	212	45	20	24	9	1.81
502083--502195	19	6.8	18	72	23	88	43	22	24	9	1.83
502207--502261	14	3.6	14	73	21	56	9	25	23	41	1.83
502191--502261	33	2.2	33	94	0	124	8	22	25	43	1.81
502202--502283	33	2.5	33	89	2	119	9	25	21	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
502214--502302	20	4.8	20	72	19	75	12	24	19	43	1.85
502382--502452	33	2.2	33	92	0	115	47	18	22	11	1.80
502632--502686	22	2.5	22	81	0	74	20	16	40	23	1.91
502832--503005	20	8.6	20	83	5	217	19	19	26	34	1.96
502834--503005	60	2.8	60	84	0	245	19	19	26	34	1.96
503083--503134	20	2.6	20	96	0	95	21	13	26	38	1.90
504285--504344	31	1.9	31	100	0	120	36	23	13	26	1.92
506061--506245	31	6.0	31	94	1	318	37	20	20	22	1.95
507014--507058	21	2.1	21	87	0	63	15	24	28	31	1.96
510010--510194	31	6.0	31	94	1	318	37	20	20	22	1.95
510965--511009	21	2.1	21	87	0	63	15	24	28	31	1.96
513966--514150	31	6.0	31	94	1	318	37	20	20	22	1.95
514921--514965	21	2.1	21	87	0	63	15	24	28	31	1.96
520881--520948	33	2.1	33	97	0	127	32	16	11	39	1.84
521764--521811	22	2.2	22	85	3	62	45	10	4	39	1.58
524256--524300	2	23.0	2	95	4	83	48	0	0	51	1.00
524794--524837	2	22.0	2	100	0	88	50	0	0	50	1.00
528833--528858	2	13.0	2	100	0	52	50	0	0	50	1.00
531951--532292	174	2.0	174	94	0	603	36	21	21	20	1.95
533948--533982	17	2.1	17	94	0	61	14	17	20	48	1.81
534039--534098	23	2.7	23	82	12	79	13	26	8	51	1.69
536568--536609	21	2.0	21	85	0	57	28	26	19	26	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
538839--538881	17	2.6	16	92	3	68	20	9	9	60	1.55
554823--555299	55	8.7	55	85	4	526	28	25	17	28	1.97
555252--555412	54	3.0	54	96	1	288	18	26	19	36	1.94
555817--555912	36	2.6	36	85	1	129	22	19	21	35	1.96
560543--560693	72	2.1	72	94	0	266	23	27	13	36	1.92
561348--561478	55	2.4	55	85	0	163	19	21	15	43	1.88
567741--567812	31	2.3	31	87	0	99	51	9	9	29	1.67
572169--572390	112	2.0	112	98	0	428	38	16	13	31	1.88
575409--575473	28	2.3	28	94	0	121	35	16	18	29	1.93
581468--581551	43	2.0	43	97	0	159	34	10	3	51	1.54
582949--582988	21	1.9	21	84	0	53	50	0	0	50	1.00
592753--592805	17	3.0	17	76	15	54	47	1	1	49	1.23
599063--599127	31	2.1	31	85	2	85	23	10	10	55	1.65
608427--608482	28	2.0	28	100	0	112	35	10	17	35	1.85
611182--611239	28	2.1	28	100	0	116	22	31	13	32	1.93
616516--616613	3	33.0	3	93	2	171	64	0	2	33	1.05
616935--617355	113	3.7	113	94	0	718	28	19	14	38	1.90
618111--618489	82	4.6	83	94	2	631	36	22	13	27	1.91
618111--618489	166	2.3	165	92	2	629	36	22	13	27	1.91
630089--630156	24	2.9	23	80	8	75	67	1	2	27	1.13
630866--630901	19	1.9	19	88	5	56	72	5	2	19	1.17
632180--632283	3	34.7	3	92	0	172	62	0	2	34	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
636360--636406	20	2.3	20	96	0	85	44	27	12	14	1.82
636371--636428	20	2.9	21	87	5	75	43	25	12	18	1.85
636542--636592	22	2.3	22	93	6	86	21	41	13	23	1.89
636644--636678	2	17.5	2	100	0	70	48	0	0	51	1.00
641543--641585	16	2.7	16	82	13	61	74	0	2	23	0.93
646164--646228	17	3.9	16	70	16	51	43	4	0	52	1.22
649078--649224	60	2.4	60	87	7	217	28	17	21	31	1.96
649079--649224	31	4.8	31	87	8	212	28	17	21	31	1.97
651418--651459	21	2.0	20	82	13	50	35	0	0	64	0.94
662043--662180	60	2.3	60	97	0	258	34	13	17	34	1.89

Tables:   1   2   3   4   5   6   7   8   9   10   11