genome.fa.s885.2.7.7.80.10.50.1000.2.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: VEPZ01000885.1 Hibiscus syriacus cultivar Beakdansim tig00001728_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1639497

Tables:   1   2   3   4   5   6   7   

This is table  2  of  7  ( 787 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)
252095--252191	32	3.1	31	82	7	108	42	4	10	43	1.58
252095--252191	33	3.0	32	85	7	110	42	4	10	43	1.58
259874--259905	15	2.1	15	100	0	64	25	34	6	34	1.81
265312--265356	22	2.0	22	100	0	90	26	17	15	40	1.90
279785--279830	24	1.9	24	95	0	83	26	0	41	32	1.56
283163--283223	26	2.3	26	88	2	86	60	3	22	13	1.47
288018--288055	17	2.2	17	100	0	76	34	31	18	15	1.92
288104--288173	34	2.0	35	94	2	124	41	10	8	40	1.69
293764--293807	22	2.0	22	95	0	79	43	13	6	36	1.71
293765--293818	22	2.3	24	75	15	60	38	12	5	42	1.67
294396--294437	20	2.3	18	84	12	50	33	19	19	28	1.96
295774--295833	22	2.7	21	77	10	57	51	3	3	41	1.35
295815--295848	16	2.1	16	88	0	50	50	0	2	47	1.16
295890--295923	16	2.0	18	88	11	54	26	2	5	64	1.30
296390--296637	130	1.9	130	89	0	388	36	12	14	37	1.83
297030--297105	35	2.2	35	92	0	125	35	1	23	39	1.63
301438--301493	21	2.7	21	81	8	69	23	25	17	33	1.96
301477--301527	20	2.5	21	90	3	77	41	17	19	21	1.91
301478--301527	21	2.5	20	90	3	73	42	18	20	20	1.90
304953--305007	19	2.8	19	83	2	65	38	21	21	18	1.94
304998--305066	14	4.6	14	78	16	75	43	20	26	10	1.83
304980--305052	33	2.2	33	100	0	146	45	19	23	12	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
304960--305038	19	4.4	19	75	16	78	43	20	22	13	1.87
304998--305087	47	1.9	47	95	0	162	44	20	25	10	1.82
305094--305130	19	1.9	19	100	0	74	13	16	27	43	1.85
305102--305195	33	2.8	33	85	6	111	12	19	23	44	1.85
305092--305163	19	4.1	18	75	17	71	11	16	25	47	1.79
305302--305338	14	2.6	14	91	0	65	45	21	0	32	1.52
306687--306753	21	3.2	21	68	4	55	19	20	35	23	1.95
306687--306808	42	2.9	41	79	7	111	22	18	36	22	1.95
307206--307365	19	8.8	19	71	15	106	45	18	22	13	1.84
307242--307303	20	3.2	20	81	4	81	51	14	22	11	1.74
307230--307362	33	3.8	33	83	6	149	45	18	23	12	1.84
307371--307458	20	4.8	20	78	21	120	5	17	30	46	1.71
307393--307418	12	2.2	12	100	0	52	7	23	30	38	1.83
307373--307438	32	2.1	32	100	0	132	6	18	30	45	1.73
307371--307493	52	2.3	53	91	4	196	6	18	27	47	1.73
307456--307517	20	3.2	20	83	4	90	11	22	16	50	1.76
307610--307984	187	2.0	184	89	4	576	47	18	12	21	1.81
307610--307984	93	4.1	94	90	3	575	47	18	12	21	1.81
309672--309714	20	2.2	20	100	0	86	51	13	23	11	1.74
309739--309819	33	2.5	33	91	0	126	9	19	23	46	1.80
309803--309874	20	3.5	20	81	5	83	13	16	18	51	1.77
310405--310501	21	4.7	20	75	6	95	34	18	23	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
316363--316406	20	2.2	20	88	8	63	0	15	4	79	0.89
339652--339724	36	2.0	36	92	5	121	26	24	21	27	2.00
347326--347365	21	2.0	20	85	5	53	22	12	7	57	1.60
347370--347481	54	2.1	54	91	6	187	63	5	10	20	1.46
347520--347610	45	2.0	45	100	0	182	30	4	15	49	1.64
351692--351725	10	3.3	10	92	8	59	11	29	0	58	1.33
362963--363000	11	3.4	11	80	20	51	21	15	26	36	1.93
362944--363000	24	2.4	24	91	2	89	22	15	28	33	1.95
364263--364303	20	2.0	21	90	4	66	41	14	0	43	1.45
364418--364483	29	2.3	29	100	0	132	42	10	13	33	1.79
365270--365319	14	3.6	14	83	0	64	24	2	38	36	1.67
366362--366386	6	4.2	6	100	0	50	0	16	48	36	1.46
366569--366618	25	2.0	24	92	3	82	38	14	4	44	1.63
366563--366618	25	2.3	23	85	11	76	41	14	5	39	1.68
373719--373817	33	2.9	33	86	3	126	35	21	14	29	1.92
373894--374082	96	2.0	93	94	5	335	30	21	17	30	1.96
377039--377211	88	2.0	88	91	1	283	45	6	9	38	1.62
383771--383940	87	1.9	88	92	3	290	45	5	10	38	1.63
386654--386752	33	3.0	33	90	1	153	36	22	14	27	1.92
388667--388706	21	1.9	21	84	0	53	17	27	22	32	1.96
401452--401496	22	2.0	22	86	0	63	48	11	2	37	1.51
414573--414690	39	3.2	37	74	10	114	32	18	13	35	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
414743--414938	67	2.9	65	91	4	311	28	18	13	39	1.89
414820--414859	21	1.9	21	84	0	53	25	20	12	42	1.86
414942--415295	131	2.7	131	80	5	392	27	29	17	24	1.98
415487--415535	15	3.1	16	78	16	57	32	2	0	65	1.04
417925--417986	22	2.7	22	80	12	63	45	3	4	46	1.40
418133--418200	31	2.2	31	84	7	93	23	17	17	41	1.90
418129--418412	152	1.9	148	89	4	435	30	15	17	36	1.91
421785--421973	36	5.3	36	87	2	283	30	23	28	17	1.97
421785--421974	71	2.7	71	91	2	301	30	23	28	17	1.97
425100--425165	33	2.0	33	100	0	132	30	15	6	48	1.69
437987--438027	2	20.5	2	100	0	82	48	0	0	51	1.00
448083--448173	45	2.0	46	91	2	148	27	19	25	27	1.99
448193--448230	20	1.9	20	94	0	67	18	15	34	31	1.92
454799--454838	21	1.9	21	85	10	55	35	10	2	52	1.48
456820--456910	45	2.0	46	93	2	157	26	19	26	27	1.99
459464--459494	15	2.1	15	93	0	53	83	0	0	16	0.64
467859--467920	22	2.8	22	92	2	97	30	27	24	17	1.97
467936--468248	100	3.1	100	92	3	497	36	24	13	25	1.92
469295--469332	20	1.9	20	88	0	58	34	13	5	47	1.65
469758--469798	21	2.0	21	85	0	55	17	24	29	29	1.97
471009--471035	13	2.1	13	100	0	54	14	33	7	44	1.73
476674--476715	16	2.5	17	71	21	52	26	30	7	35	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
476935--476980	20	2.3	20	100	0	92	28	26	13	32	1.93
477199--477243	20	2.2	20	92	0	72	24	24	8	42	1.83
483083--483111	2	14.5	2	100	0	58	48	0	0	51	1.00
494899--494941	20	2.2	20	91	0	68	34	20	11	32	1.89
495203--495807	302	2.0	303	96	0	1104	29	22	21	25	1.99
496436--496472	12	3.1	12	84	0	56	35	18	13	32	1.90
496860--497074	45	4.8	44	87	4	270	30	20	6	41	1.79
496868--497074	90	2.3	89	86	4	299	30	20	7	41	1.80
503404--503832	85	5.0	84	87	2	570	34	20	18	25	1.96
504605--504645	21	2.0	21	85	0	55	26	0	0	73	0.84
504635--505019	36	10.5	36	73	14	195	43	3	6	45	1.47
504744--504802	2	29.5	2	100	0	118	50	0	0	49	1.00
504784--505058	31	7.6	39	71	21	185	43	3	6	46	1.45
504669--504880	119	1.8	114	86	5	307	44	3	6	45	1.46
504780--505001	71	3.0	73	81	13	244	44	3	6	46	1.44
504869--505019	34	4.5	33	72	16	116	43	3	7	45	1.48
504811--505049	104	2.3	105	80	10	267	44	3	6	45	1.48
505005--505081	39	2.0	37	85	9	102	42	1	3	51	1.28
506097--506145	22	2.2	21	82	10	62	16	2	2	79	0.92
506086--506157	28	2.6	27	76	10	83	12	6	1	79	0.99
512008--512076	16	4.4	16	75	14	54	1	4	14	79	0.95
512034--512078	16	2.8	16	89	0	63	0	2	15	82	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
518562--518611	25	2.0	25	92	0	82	24	20	12	44	1.85
521070--521118	9	5.3	9	81	18	57	65	8	0	26	1.20
521070--521118	18	2.6	18	90	6	71	65	8	0	26	1.20
521535--521605	21	3.3	21	70	3	70	22	22	30	23	1.99
521600--521686	42	2.1	41	85	6	113	19	21	33	25	1.97
522882--523526	59	11.0	59	90	1	1001	31	20	9	38	1.85
522882--523533	294	2.2	294	91	1	1058	31	20	9	38	1.85
523883--523930	19	2.6	19	83	3	53	22	20	18	37	1.94
523936--524008	22	3.6	19	72	21	60	27	26	15	31	1.95
523951--524017	22	3.2	22	79	8	86	29	29	11	28	1.92

Tables:   1   2   3   4   5   6   7