genome.fa.s2660.2.7.7.80.10.50.1000.2.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: VEPZ01002660.1 Hibiscus syriacus cultivar Beakdansim tig00005459_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2211860

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 1072 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)
273647--273695	9	5.2	9	80	9	62	46	0	4	48	1.20
273647--273695	19	2.6	19	100	0	98	46	0	4	48	1.20
275808--275841	18	1.9	18	88	5	52	14	23	32	29	1.94
277177--277232	28	2.0	28	92	0	94	33	3	32	30	1.75
280540--280599	23	2.6	23	97	0	111	23	31	26	18	1.97
280578--280881	149	2.0	149	98	0	590	34	20	17	26	1.95
282392--282436	21	2.1	21	87	0	63	15	24	28	31	1.96
285631--285673	2	21.5	2	100	0	86	51	0	0	48	1.00
288254--288286	15	2.2	15	94	0	57	30	33	21	15	1.94
288431--288465	12	2.9	12	91	0	52	37	25	5	31	1.80
288838--288979	64	2.2	65	83	6	182	26	20	20	33	1.97
290029--290099	36	2.0	36	83	5	90	35	12	21	30	1.91
290659--290704	5	9.2	5	80	0	56	54	4	2	39	1.32
295294--295548	128	2.0	127	95	0	456	43	15	12	28	1.83
305129--305169	20	2.0	20	90	0	64	46	19	14	19	1.84
305355--305401	24	2.0	24	83	8	60	42	14	8	34	1.77
305927--305961	18	1.9	18	88	11	54	65	0	5	28	1.15
306602--306636	19	1.9	17	88	11	52	37	2	2	57	1.29
307895--308119	41	5.3	41	77	4	175	52	6	15	25	1.67
307893--308143	43	5.9	43	75	8	144	52	6	15	25	1.66
311930--311974	2	22.5	2	100	0	90	51	0	0	48	1.00
323338--323366	3	10.0	3	92	7	51	68	0	0	31	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
325292--325362	30	2.4	30	92	0	124	36	8	7	47	1.61
326753--326804	26	2.0	26	100	0	104	38	15	0	46	1.46
329133--329164	3	10.7	3	93	0	55	3	34	0	62	1.11
331321--331376	2	28.0	2	100	0	112	50	0	0	50	1.00
333286--333326	2	21.5	2	90	9	68	53	0	46	0	1.00
335613--335644	16	2.0	16	93	0	55	46	0	0	53	1.00
335807--335908	39	2.6	38	85	11	143	46	1	16	35	1.59
335934--335963	14	2.1	15	93	6	53	76	0	0	23	0.78
337091--337168	20	3.9	20	91	0	102	41	7	24	26	1.82
337091--337181	20	4.8	19	88	5	80	40	7	24	27	1.82
337320--337394	38	2.0	37	84	5	98	48	4	1	46	1.29
339324--339411	42	2.1	41	91	4	142	20	19	23	36	1.95
339340--339502	21	7.8	20	74	14	116	20	20	24	34	1.97
339340--339474	63	2.1	63	94	0	234	19	20	26	34	1.96
339340--339499	42	3.8	42	84	8	134	20	20	25	35	1.96
339346--339495	63	2.4	62	88	4	203	20	20	24	34	1.96
340733--340879	64	2.3	65	83	9	176	34	20	16	29	1.94
341534--341641	31	3.5	31	77	3	94	25	18	21	35	1.96
350478--350517	21	1.9	21	89	0	62	25	40	25	10	1.86
354508--354676	64	2.6	65	84	10	193	33	21	17	27	1.95
355331--355438	31	3.5	31	79	3	103	24	18	22	35	1.96
355353--355459	31	3.5	30	79	6	90	24	18	24	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
356533--356587	21	2.6	21	97	0	101	30	30	20	18	1.96
390468--390650	91	2.0	92	95	1	332	33	18	12	36	1.87
398679--398734	25	2.2	25	83	3	67	75	1	8	14	1.13
402122--402149	2	14.0	2	100	0	56	50	0	0	50	1.00
404534--404578	21	2.2	20	84	11	56	40	11	6	42	1.67
404545--404589	21	2.1	21	84	8	56	31	13	6	48	1.68
406001--406059	21	2.8	22	84	5	61	37	11	27	23	1.90
406020--406090	21	3.4	21	88	0	97	33	11	33	21	1.89
432310--432348	19	2.0	20	85	5	53	28	0	10	61	1.28
433114--433164	26	2.0	25	84	3	66	39	13	0	47	1.43
449030--449069	3	13.3	3	84	10	55	32	2	0	65	1.06
458717--458750	16	2.1	16	89	10	52	47	0	0	52	1.00
460834--460886	26	2.0	26	82	7	63	15	7	7	69	1.34
460914--460963	22	2.2	23	85	3	66	14	14	16	56	1.69
465749--465854	38	2.8	38	88	1	142	17	11	9	61	1.55
468880--468924	21	2.1	22	88	12	67	62	2	0	35	1.08
468885--468933	21	2.3	21	75	10	55	67	4	0	28	1.09
470920--470976	3	19.3	3	96	3	107	31	0	0	68	0.90
479894--479938	13	2.9	17	78	21	62	68	0	0	31	0.89
482177--482234	22	2.8	21	78	5	64	60	0	1	37	1.07
482184--482234	20	2.4	21	80	6	59	60	0	1	37	1.08
482225--482258	17	1.9	18	88	5	52	44	11	0	44	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482743--482793	2	25.5	2	100	0	102	49	0	0	50	1.00
490670--490740	31	2.4	29	80	15	76	59	0	1	39	1.06
493877--493913	15	2.5	15	90	0	56	43	2	2	51	1.30
493885--493914	15	2.0	15	100	0	60	46	0	0	53	1.00
496724--496801	29	2.6	29	78	11	77	28	21	12	37	1.90
496813--496941	52	2.5	52	92	3	208	17	32	29	20	1.96
497063--497103	10	4.1	10	84	12	57	31	29	0	39	1.57
507906--508132	118	1.9	120	80	3	271	36	8	18	36	1.82
528447--528487	21	2.0	21	85	0	55	29	29	21	19	1.98
529163--529316	31	5.0	31	96	1	274	19	19	22	38	1.94
532994--533038	21	2.1	21	87	0	63	31	28	24	15	1.96
533714--533867	31	5.0	31	96	1	274	19	19	22	38	1.94
539437--539480	13	3.5	13	75	12	56	34	13	2	50	1.55
539435--539492	24	2.4	24	100	0	116	32	12	5	50	1.62
555329--555360	12	2.6	12	95	5	55	56	0	0	43	0.99
557655--557695	3	13.0	3	90	10	64	31	0	2	65	1.05
559703--560002	19	17.4	19	75	21	304	46	18	21	14	1.84
559731--560002	50	5.2	53	86	11	329	46	17	21	14	1.84
559703--560040	69	4.9	69	74	18	278	45	18	21	14	1.85
559703--560002	37	8.7	35	78	15	244	46	18	21	14	1.84
560031--560128	19	5.6	19	81	16	131	15	23	17	43	1.87
560233--560269	14	2.6	14	91	0	65	45	21	0	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562164--562228	19	3.4	19	85	4	87	46	26	15	12	1.81
562180--562298	19	6.8	18	72	19	83	47	21	20	10	1.81
562219--562275	14	3.7	14	77	20	60	45	22	21	10	1.82
562201--562289	33	2.7	33	92	1	153	47	21	20	11	1.81
562294--562384	33	2.8	33	91	5	141	7	18	28	45	1.77
562294--562421	19	7.3	19	74	18	116	8	17	28	45	1.78
562459--563106	92	7.1	93	94	5	1144	46	18	12	21	1.82
562459--563106	181	3.5	185	94	4	1140	46	18	12	21	1.82
564694--564805	14	6.8	18	73	23	95	42	22	25	9	1.84
564687--564800	33	3.5	33	93	1	203	44	21	24	9	1.82
564817--564871	14	3.6	14	73	21	56	9	25	23	41	1.83
564801--564871	33	2.2	33	94	0	124	8	22	25	43	1.81
564812--564893	33	2.5	33	89	2	119	9	25	21	42	1.84
564824--564912	20	4.8	20	72	19	75	12	24	19	43	1.85
564994--565056	33	2.1	30	85	14	85	49	19	20	11	1.78
565234--565288	22	2.5	22	81	0	74	20	16	40	23	1.91
565430--565620	20	9.6	20	79	7	192	19	19	25	34	1.96
565429--565600	39	4.3	39	82	2	184	20	19	26	33	1.96
565421--565621	59	3.4	58	79	7	217	21	18	24	35	1.96
565676--565727	20	2.6	20	96	0	95	21	13	26	38	1.90
586730--586777	25	1.9	25	83	8	62	33	20	16	29	1.95
589567--589604	19	2.0	19	100	0	76	21	5	21	52	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592037--592080	14	3.2	14	93	3	72	54	2	0	43	1.12
592756--592787	16	2.0	16	93	0	55	46	0	0	53	1.00
592780--592936	77	2.0	77	100	0	314	37	5	14	43	1.67
594251--594299	18	2.7	18	77	0	53	44	0	8	46	1.33
595795--595832	5	7.6	5	100	0	76	81	0	0	18	0.69
597034--597118	30	2.8	30	74	15	77	47	1	3	48	1.26
597059--597117	20	3.0	21	76	18	56	49	1	1	47	1.21
602175--602286	52	2.2	52	83	6	138	42	5	8	43	1.56
613806--613895	31	2.9	31	86	1	126	53	11	16	18	1.72
616510--616552	13	3.2	14	80	9	54	37	2	0	60	1.10

Tables:   1   2   3   4   5   6   7   8   9