genome.fa.s9459.2.7.7.80.10.50.1000.2.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: VEPZ01009459.1 Hibiscus syriacus cultivar Beakdansim tig00113721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1147073

Tables:   1   2   3   4   

This is table  2  of  4  ( 466 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)
300052--300090	3	14.3	3	80	20	50	35	0	0	64	0.94
300114--300169	27	2.1	27	100	0	112	16	16	32	35	1.90
301279--301306	2	14.0	2	100	0	56	50	0	0	50	1.00
312594--312664	34	2.1	34	97	0	133	38	26	14	21	1.91
313526--313570	19	2.4	19	100	0	90	8	33	24	33	1.86
314200--314240	15	2.6	16	82	14	50	41	2	0	56	1.13
319554--319586	16	2.1	16	100	0	66	57	24	12	6	1.57
319652--319710	16	3.7	16	95	0	109	57	22	11	8	1.61
320463--320518	14	4.3	14	76	17	66	53	23	12	10	1.69
320443--320517	24	3.1	24	86	3	98	56	20	10	13	1.66
321124--321161	15	2.5	15	87	8	51	60	0	0	39	0.97
323090--323158	30	2.3	30	82	5	86	46	10	11	31	1.74
324383--324407	2	12.5	2	100	0	50	52	0	0	48	1.00
327131--327249	53	2.2	53	80	5	123	61	5	5	27	1.40
328087--328121	16	2.2	16	94	0	61	0	11	11	77	1.00
328539--328654	3	37.7	3	84	8	153	62	1	0	36	1.06
328781--329424	76	8.5	76	97	0	1189	36	20	20	22	1.95
328781--329424	305	2.1	304	96	0	1189	36	20	20	22	1.95
332443--332761	114	2.8	114	94	0	541	34	21	14	30	1.93
332715--332937	84	2.7	84	98	1	430	36	22	14	26	1.93
340448--340566	53	2.2	53	80	5	123	61	5	5	27	1.40
341406--341440	16	2.2	16	94	0	61	0	11	11	77	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
341858--341976	3	38.7	3	83	8	150	61	1	0	36	1.06
345005--345055	15	3.4	15	91	0	84	7	17	66	7	1.41
347336--347420	34	2.5	34	96	0	152	15	24	24	35	1.94
347449--347505	22	2.6	22	97	0	105	24	22	38	14	1.91
347509--347552	23	1.9	23	100	0	88	9	25	40	25	1.84
347506--347559	23	2.4	22	84	9	81	11	24	42	22	1.85
348010--348353	172	2.0	173	90	1	548	40	4	18	36	1.72
350064--350088	6	4.2	6	100	0	50	16	0	64	20	1.30
350619--351591	37	26.0	37	82	12	1118	49	6	3	40	1.45
350630--351468	23	37.3	22	72	17	243	49	6	3	40	1.45
350588--351607	8	135.8	8	71	19	623	50	6	3	40	1.44
351162--351633	14	35.9	13	68	20	103	50	5	3	40	1.44
354978--355024	18	2.6	18	100	0	94	23	36	14	25	1.93
358016--358051	18	2.0	18	100	0	72	38	16	11	33	1.84
359187--359228	21	2.0	22	85	4	59	50	7	0	42	1.30
375672--375719	25	1.9	25	95	0	87	41	6	16	35	1.74
382540--382931	186	2.1	186	93	2	673	43	3	8	45	1.49
382942--382970	9	3.2	9	100	0	58	20	10	20	48	1.79
386967--387004	20	1.9	20	88	0	58	31	31	15	21	1.94
387032--387084	20	2.7	20	85	2	72	32	26	18	22	1.97
387070--387176	45	2.4	45	93	0	178	28	22	14	33	1.94
396496--396562	28	2.4	28	100	0	134	37	0	26	35	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
399563--401422	930	2.0	930	96	0	3405	27	19	21	31	1.97
401789--401995	66	3.1	66	97	0	396	20	28	15	35	1.93
403609--403643	3	11.7	3	100	0	70	31	34	0	34	1.58
405328--405373	24	2.0	23	91	4	74	58	2	6	32	1.36
408265--408293	15	1.9	15	100	0	58	48	0	0	51	1.00
408498--408554	17	3.2	17	78	7	60	15	3	5	75	1.12
408498--408561	17	3.6	17	77	6	56	17	3	4	75	1.11
421824--421863	20	2.0	21	85	5	55	50	7	2	40	1.44
424552--424581	7	4.3	7	100	0	60	46	40	0	13	1.43
431931--432058	31	4.1	31	93	2	213	33	25	20	21	1.97
433001--433058	20	2.6	22	86	10	75	25	22	22	29	1.99
433046--433186	64	2.2	63	81	7	160	25	23	17	33	1.96
436104--436200	31	3.1	31	95	0	167	34	24	19	21	1.97
438683--438842	65	2.5	65	82	5	182	31	22	18	27	1.97
438814--438862	19	2.6	19	84	9	57	24	28	20	26	1.99
440770--440809	21	1.9	21	89	0	62	55	7	7	30	1.56
446256--446299	21	2.1	21	82	0	52	9	43	15	31	1.79
447393--447511	57	2.1	56	83	7	143	30	23	20	26	1.98
447403--447511	56	1.9	56	85	5	148	29	23	20	26	1.99
455024--455072	23	2.1	23	100	0	98	26	22	20	30	1.98
457285--457318	16	2.1	16	88	0	50	35	20	26	17	1.95
457220--457369	78	1.9	79	90	2	239	36	20	22	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
457882--457914	17	2.0	17	94	5	59	39	6	0	54	1.25
464554--464754	60	3.3	60	87	0	249	36	17	15	30	1.91
470526--470565	21	1.9	21	90	10	64	42	2	0	55	1.13
471143--471185	21	2.0	21	100	0	86	25	27	9	37	1.87
475506--475579	20	3.7	20	98	0	139	25	25	9	39	1.86
477521--477546	4	6.5	4	100	0	52	50	0	0	50	1.00
487621--487694	26	2.9	26	68	24	66	62	4	6	27	1.39
488215--488254	18	2.2	18	95	0	71	20	20	32	27	1.97
489998--490038	20	2.1	20	86	4	57	46	0	21	31	1.52
490147--490210	32	2.0	32	90	0	101	21	26	35	15	1.94
490181--490307	51	2.5	51	89	1	184	18	32	33	15	1.92
516201--516228	3	9.3	3	100	0	56	35	0	64	0	0.94
517170--517201	14	2.1	16	88	11	50	71	28	0	0	0.86
522808--522882	38	2.0	37	82	5	89	48	4	1	46	1.29
524849--524917	23	3.0	23	89	0	102	26	26	27	20	1.99
524933--525150	103	2.1	103	93	0	373	36	22	13	26	1.92
531928--532148	64	3.5	64	83	4	234	28	18	19	33	1.95
536022--536228	64	3.2	64	84	4	240	28	16	20	34	1.94
556065--556124	20	2.9	21	90	7	95	30	25	26	18	1.98
556158--556202	22	2.0	22	86	4	63	28	31	26	13	1.94
557497--557708	103	2.1	103	96	0	388	25	13	24	36	1.92
557735--557818	23	3.7	23	85	0	114	19	26	26	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
559962--560006	21	2.2	20	92	7	74	40	6	4	48	1.49
560596--560701	33	3.1	34	78	15	87	34	0	3	61	1.14
560628--560706	34	2.4	34	85	8	101	37	0	1	60	1.05
560846--560899	17	3.2	17	72	0	54	31	0	3	64	1.11
561566--561662	33	2.9	34	85	3	124	56	4	2	37	1.30
561564--561669	34	3.2	32	82	8	122	55	4	1	37	1.32
569697--569727	3	10.3	3	92	0	53	64	3	0	32	1.09
573221--573321	3	33.7	3	100	0	202	33	0	0	66	0.92
586134--586202	9	7.4	9	76	14	61	76	1	18	2	0.98
586133--586197	14	4.8	13	75	16	60	78	1	16	3	0.96
586132--586201	21	3.4	21	77	11	74	78	1	17	2	0.94
587337--588128	50	15.8	50	98	0	1512	26	13	21	38	1.91
588689--589547	113	7.6	112	93	2	1310	37	13	20	29	1.90
589684--589727	3	14.7	3	100	0	88	34	0	0	65	0.93
590225--590259	17	2.1	17	89	10	54	77	5	17	0	0.96
601967--602094	21	6.1	21	82	8	154	24	22	24	28	1.99
601934--602055	62	2.0	62	85	9	169	28	22	21	27	1.99
613198--613232	18	1.9	18	94	0	61	37	8	28	25	1.85
616624--616680	19	2.8	20	84	13	71	29	24	19	26	1.98
631135--631176	20	2.1	20	100	0	84	40	21	9	28	1.84
632144--632184	20	2.0	20	95	0	73	21	36	29	12	1.90
633593--633641	3	17.0	3	85	8	66	67	2	30	0	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
636440--636464	2	12.5	2	100	0	50	48	0	0	52	1.00
637620--637873	137	1.9	136	81	6	309	41	14	12	31	1.82
637620--637886	136	2.0	134	79	7	290	43	13	11	30	1.81
648578--648638	25	2.3	26	81	13	72	37	4	0	57	1.20
650908--650970	29	2.1	30	91	2	101	25	3	3	68	1.19
650908--650984	29	2.7	29	83	4	75	24	3	3	67	1.25
651058--651142	33	2.5	34	82	3	118	41	4	0	54	1.21
651380--651457	29	2.6	30	81	4	104	67	5	2	24	1.23
652589--652770	57	3.2	57	79	9	208	27	13	16	42	1.85
654033--654072	21	1.9	20	85	10	53	37	5	5	52	1.45

Tables:   1   2   3   4