genome.fa.s295.2.7.7.80.10.50.1000.3.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: VEPZ01000295.1 Hibiscus syriacus cultivar Beakdansim tig00000541_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2017499

Tables:   1   2   3   4   5   6   7   8   9   

This is table  3  of  9  ( 1002 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)
354773--354826	18	2.8	20	86	10	69	18	14	12	53	1.72
355304--355454	54	2.8	54	91	1	241	33	20	18	27	1.96
355299--355454	53	2.9	54	90	1	242	33	20	18	26	1.96
358472--358540	34	2.1	31	82	12	77	79	0	15	4	0.88
358487--358535	22	2.2	21	82	13	62	79	0	16	4	0.88
358472--358540	8	8.4	8	70	17	52	79	0	15	4	0.88
358472--358540	24	2.9	22	79	16	75	79	0	15	4	0.88
360658--360874	102	2.1	103	86	1	303	34	15	8	41	1.78
361153--361772	336	1.8	335	86	4	899	34	15	20	28	1.94
363945--363987	17	2.4	19	80	7	54	39	2	4	53	1.34
365888--365916	12	2.5	12	94	5	51	17	6	0	75	1.01
369162--369239	34	2.3	34	95	0	138	25	8	5	60	1.48
369430--369478	20	2.5	19	83	6	62	57	6	4	32	1.42
369567--369598	14	2.2	15	94	5	57	59	3	0	37	1.13
382219--382265	22	2.1	22	84	0	58	59	0	6	34	1.23
385126--385240	61	1.9	61	87	3	169	23	17	27	31	1.97
385416--385490	24	3.2	24	63	21	59	45	4	17	33	1.67
385350--385671	46	7.1	46	92	1	483	40	6	20	33	1.78
387690--388149	137	3.3	136	82	4	541	27	16	27	27	1.97
388155--388483	68	4.8	68	89	4	482	37	13	17	31	1.89
388342--388470	36	3.6	36	68	10	109	41	13	16	28	1.87
388372--388501	36	3.6	36	69	14	99	37	11	16	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388801--388921	37	3.4	36	81	7	122	35	15	18	30	1.92
391183--391221	20	2.0	20	85	10	53	61	0	5	33	1.18
395703--395741	18	2.2	18	100	0	78	25	10	23	41	1.86
397435--397464	13	2.3	13	94	0	51	63	0	3	33	1.11
399300--399462	30	5.4	30	99	0	317	32	23	19	23	1.98
399300--399487	90	2.1	91	92	1	315	33	24	19	22	1.97
399448--399540	31	3.0	31	79	3	98	34	21	17	26	1.95
399891--399940	2	25.0	2	100	0	100	50	0	0	50	1.00
403813--404005	30	6.4	30	98	0	368	32	23	19	24	1.97
403813--404030	90	2.4	90	93	0	355	33	23	19	23	1.97
403991--404083	31	3.0	31	79	3	98	34	21	17	26	1.95
404434--404477	2	22.0	2	100	0	88	50	0	0	50	1.00
405940--405990	21	2.4	21	77	6	59	78	1	3	15	0.99
406023--406101	40	2.0	41	82	7	99	49	6	3	40	1.46
406099--406387	71	4.0	72	90	4	429	46	3	1	48	1.29
406099--406387	144	2.0	147	90	2	458	46	3	1	48	1.29
406194--406323	11	11.0	11	67	19	66	49	3	0	46	1.22
409035--409182	63	2.3	64	84	6	187	18	31	13	35	1.90
410916--411048	60	2.2	60	91	2	214	36	15	15	31	1.90
410916--411093	60	3.0	60	82	9	195	36	16	16	29	1.92
419795--419895	42	2.4	40	79	8	96	28	23	17	29	1.97
420208--420391	39	4.7	39	89	1	246	29	19	15	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
420463--420716	36	7.3	36	72	19	161	43	4	7	44	1.53
420600--420624	12	2.1	12	100	0	50	40	8	8	44	1.63
420613--420659	23	2.0	24	91	8	78	42	4	6	46	1.48
420576--420707	60	2.2	60	86	8	180	40	4	7	46	1.52
420612--420671	27	2.4	23	81	13	66	41	3	6	48	1.46
420709--420786	39	2.0	41	77	10	81	33	2	7	56	1.41
420798--420852	3	18.3	3	89	10	78	30	0	0	69	0.89
420798--420857	17	3.4	18	88	11	74	30	0	0	70	0.88
422016--422055	21	2.0	20	85	5	53	22	10	2	65	1.35
427330--428532	84	14.5	84	80	6	1245	29	24	20	25	1.99
427377--428551	164	7.1	164	83	6	1300	29	24	20	25	1.99
427330--428613	664	1.9	661	86	2	1653	29	23	20	25	1.99
429165--429198	2	17.0	2	93	0	59	50	2	0	47	1.16
429197--429545	37	9.5	36	70	17	191	44	4	7	44	1.52
429211--429531	36	8.8	36	72	17	218	44	4	7	44	1.50
429371--429395	11	2.3	11	100	0	50	40	8	8	44	1.63
429267--429481	71	2.9	74	85	7	264	43	5	7	43	1.55
429341--429509	71	2.3	70	83	5	194	44	5	7	41	1.57
429195--429531	109	3.1	109	76	16	313	44	4	7	43	1.52
429543--429570	10	2.8	10	100	0	56	28	0	0	71	0.86
437215--437328	43	2.7	42	81	10	108	29	14	21	33	1.94
437248--437348	43	2.3	43	80	6	114	30	18	19	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
437391--437651	44	6.0	44	84	1	267	28	16	23	31	1.96
437411--437651	88	2.8	88	85	3	319	28	17	23	30	1.97
437391--437634	132	1.9	130	84	4	328	28	15	24	31	1.95
443367--443406	21	1.9	21	90	10	64	60	0	2	37	1.11
454181--455797	809	2.0	807	88	3	2376	37	10	17	34	1.84
456501--456578	41	1.9	41	100	0	156	43	6	17	32	1.75
460432--460466	12	2.9	12	95	0	61	57	17	14	11	1.66
463849--463882	12	2.8	12	86	0	50	52	17	17	11	1.73
473169--473281	27	4.2	27	73	4	93	21	6	23	48	1.72
473169--473281	54	2.1	54	88	3	165	21	6	23	48	1.72
473169--473297	54	2.4	54	85	2	152	20	6	24	48	1.73
473185--473298	27	4.2	26	74	6	102	18	7	24	50	1.72
486674--486711	13	3.0	13	88	3	51	42	2	10	44	1.52
498987--499020	13	2.7	12	83	16	50	29	0	0	70	0.87
499614--499644	16	1.9	16	93	0	53	19	9	29	41	1.83
500309--500352	21	2.1	21	82	0	52	47	18	13	20	1.82
503872--503924	24	2.2	24	93	0	88	24	18	18	37	1.94
504064--504117	28	1.9	28	96	0	99	25	27	12	33	1.93
504775--504922	72	2.0	73	94	1	262	37	18	11	31	1.87
507794--507895	29	3.6	29	83	1	134	48	19	8	23	1.77
514526--514628	29	3.6	29	90	0	152	46	23	6	23	1.76
514497--514628	58	2.3	58	85	2	167	45	22	6	25	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
514636--514670	18	2.0	18	88	5	54	14	22	45	17	1.84
518806--518862	27	2.1	27	100	0	114	29	7	40	22	1.80
520228--520271	23	2.0	23	90	4	72	11	13	15	59	1.62
520290--520314	11	2.3	11	100	0	50	16	36	8	40	1.77
527373--527424	22	2.4	22	93	0	86	11	19	21	48	1.80
535081--535488	211	1.9	209	85	4	563	45	12	10	31	1.76
543769--543829	27	2.3	26	77	5	68	34	9	8	47	1.66
551986--552023	20	1.9	20	89	10	60	39	21	13	26	1.89
566052--566116	33	2.0	33	84	6	87	32	9	38	20	1.84
574832--574893	30	2.0	31	87	12	92	33	1	1	62	1.14
575008--575035	13	2.2	13	100	0	56	46	0	7	46	1.30
583589--583630	17	2.5	17	92	0	75	28	26	11	33	1.92
587419--587474	21	2.8	20	83	2	67	26	26	30	16	1.96
587427--587474	20	2.3	21	82	3	62	27	29	29	14	1.95
587427--587474	10	4.7	10	78	2	51	27	29	29	14	1.95
587459--587494	17	2.1	17	89	0	54	33	22	25	19	1.97
590826--590941	24	4.8	24	86	6	155	25	16	18	39	1.91
591152--591178	2	13.5	2	100	0	54	48	0	0	51	1.00
593044--593073	13	2.3	13	94	0	51	20	40	20	20	1.92
595477--595592	24	4.8	24	80	6	119	25	16	16	41	1.89
595805--595835	2	15.5	2	93	0	53	45	0	0	54	0.99
601939--602089	82	1.8	82	91	0	248	41	22	8	27	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
608337--608445	27	4.0	27	80	2	112	20	5	25	48	1.71
608315--608427	54	2.1	54	89	0	172	20	5	27	46	1.72
608340--608451	54	2.1	54	84	0	143	20	6	25	48	1.73
610161--610208	19	2.5	19	89	0	78	27	35	18	18	1.95
620979--621039	24	2.6	24	86	2	88	36	19	19	24	1.95
625622--625808	92	2.0	93	96	3	349	42	13	10	33	1.79
626067--626186	57	2.1	58	98	1	233	25	16	10	47	1.79
638722--638748	13	2.1	13	100	0	54	48	7	0	44	1.31
640023--640285	128	2.0	134	94	5	475	40	15	12	32	1.84
644368--644403	14	2.6	14	91	8	56	30	22	30	16	1.96

Tables:   1   2   3   4   5   6   7   8   9