genome.fa.s9622.2.7.7.80.10.50.1000.2.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: VEPZ01009622.1 Hibiscus syriacus cultivar Beakdansim tig00117011_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  790348

Tables:   1   2   3   4   

This is table  2  of  4  ( 439 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)
281204--281246	18	2.2	20	92	8	72	83	0	16	0	0.64
281196--281246	10	5.2	10	81	11	61	82	0	17	0	0.67
281564--281603	16	2.5	16	88	8	55	30	7	7	55	1.56
282425--282927	83	6.0	83	96	0	862	28	13	21	35	1.92
283714--284168	113	4.0	115	81	5	516	36	14	18	29	1.91
284133--284316	84	2.2	82	81	3	208	38	16	18	27	1.92
284482--284565	3	28.0	3	92	0	123	38	1	0	60	1.04
285991--286041	16	3.3	16	71	18	54	37	1	0	60	1.08
293000--293056	23	2.4	25	82	11	75	57	17	15	8	1.63
293969--294011	21	2.0	21	95	0	77	27	0	0	72	0.85
293973--294011	13	2.9	14	85	14	55	23	0	0	76	0.78
299529--299571	22	2.0	21	86	4	59	48	4	9	37	1.56
300849--300905	26	2.2	25	82	14	71	56	0	7	36	1.27
302470--302514	17	2.6	17	86	6	65	44	11	15	28	1.81
302506--302583	34	2.3	34	82	6	95	43	10	15	30	1.80
309300--309350	20	2.5	20	87	0	75	35	13	35	15	1.87
309299--309364	20	3.3	20	85	4	71	34	13	33	18	1.90
309388--309466	19	4.2	19	88	3	106	31	18	20	29	1.97
309821--309979	55	2.9	55	92	0	257	32	18	21	27	1.97
310594--310767	82	2.1	83	83	7	228	31	17	19	31	1.95
311023--311061	17	2.3	17	86	8	53	43	10	17	28	1.82
312113--312140	2	14.0	2	100	0	56	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
314191--314249	2	29.5	2	96	0	109	49	0	1	49	1.11
314375--314532	21	7.8	20	72	7	86	38	25	17	18	1.92
314499--314808	20	15.5	20	86	1	343	37	25	17	20	1.94
315491--315537	24	2.0	24	87	8	69	25	14	21	38	1.92
317417--317704	33	8.2	33	74	17	201	46	17	21	13	1.83
317431--317704	19	15.4	19	80	15	345	46	17	21	14	1.83
317431--317704	52	5.1	52	91	5	440	46	17	21	14	1.83
317719--317816	19	5.4	19	83	13	134	14	21	17	46	1.83
317700--317816	53	2.2	52	93	1	198	13	23	17	45	1.84
317923--317959	14	2.6	14	91	0	65	45	21	0	32	1.52
319940--319996	14	3.7	14	77	20	60	45	22	21	10	1.82
319921--320013	33	2.8	33	95	0	168	47	21	20	10	1.80
319884--320018	19	7.6	19	76	16	128	45	23	19	11	1.82
320014--320142	19	7.3	19	73	17	116	8	17	29	44	1.78
320014--320104	33	2.8	33	93	3	148	7	18	28	45	1.77
320190--320565	93	4.1	93	99	0	736	46	19	12	22	1.83
322271--322360	14	5.7	14	69	23	63	44	22	23	10	1.82
322263--322377	33	3.5	33	97	0	221	46	20	22	10	1.80
322285--322382	19	5.7	19	69	22	90	44	21	22	11	1.83
322394--322450	14	3.7	14	75	20	60	8	24	22	43	1.81
322378--322458	33	2.5	33	95	0	144	8	22	22	46	1.78
322435--322490	21	2.7	21	97	0	103	10	23	16	50	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
322570--322640	33	2.2	33	89	0	106	49	18	21	11	1.78
322822--322876	22	2.5	22	81	0	74	20	16	40	23	1.91
323023--323176	20	7.7	20	79	7	159	18	18	25	37	1.94
323022--323176	40	3.8	40	80	4	177	18	18	25	37	1.93
323143--323262	21	5.8	21	81	3	93	21	18	23	36	1.95
323143--323262	42	2.9	42	74	16	106	21	18	23	36	1.95
323499--323548	2	25.0	2	100	0	100	50	0	0	50	1.00
338993--339113	2	67.0	2	73	22	90	47	0	0	52	1.06
338991--339111	13	8.9	14	70	16	67	47	0	0	52	1.06
339500--339544	22	2.0	23	83	8	58	11	0	28	60	1.31
345120--345337	103	2.1	103	93	0	382	37	24	12	25	1.91
349562--349612	21	2.4	21	90	0	75	31	45	15	7	1.75
351316--351368	23	2.3	23	83	0	70	26	24	28	20	1.99
356025--356052	3	9.3	3	100	0	56	32	32	0	35	1.58
357127--357164	20	2.0	20	85	14	55	57	2	0	39	1.12
359013--359068	14	4.3	14	69	17	57	10	12	23	53	1.69
359013--359088	38	2.0	38	84	5	100	13	11	19	55	1.68
359014--359088	24	3.1	24	82	0	96	13	10	20	56	1.66
360078--360128	16	3.3	16	89	5	79	11	9	17	60	1.57
360190--360222	16	2.1	16	100	0	66	6	12	24	57	1.57
364065--364106	6	7.0	6	97	0	75	0	14	50	35	1.43
372786--372854	23	3.0	23	82	0	84	27	24	26	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372854--373074	103	2.1	104	91	3	358	38	22	11	28	1.89
374438--374513	20	3.7	20	92	3	107	19	26	23	30	1.98
376174--376216	17	2.6	16	78	7	50	39	25	0	34	1.56
378950--379018	23	3.0	23	86	0	93	27	26	26	20	1.99
379034--379241	103	2.0	103	91	0	335	36	21	12	29	1.90
380618--380679	20	3.0	21	85	4	74	22	20	24	32	1.98
385481--385565	34	2.5	34	86	0	125	37	3	11	47	1.58
391379--391448	23	3.0	23	82	0	95	17	24	24	34	1.96
391379--391471	46	2.0	46	85	4	125	18	21	23	36	1.95
394366--394402	18	2.1	18	89	0	56	35	21	5	37	1.77
395146--395177	2	16.0	2	100	0	64	50	0	0	50	1.00
396556--396600	20	2.2	20	100	0	90	37	13	11	37	1.80
397609--397699	47	1.9	47	100	0	182	28	16	10	43	1.82
402461--402499	16	2.4	16	86	0	51	20	25	17	35	1.95
402647--402739	18	5.1	17	77	13	87	35	3	2	59	1.26
402646--402722	38	2.0	39	89	2	120	36	2	2	58	1.26
402646--402754	18	5.8	20	72	19	69	34	2	1	60	1.22
402647--402754	57	2.0	53	85	10	146	34	2	1	61	1.21
403329--403383	23	2.4	22	88	11	76	38	27	12	21	1.90
406057--406193	61	2.2	60	82	5	159	35	8	5	50	1.56
406237--406265	8	3.6	8	100	0	58	48	0	0	51	1.00
406227--406489	18	14.9	18	66	17	106	41	5	7	45	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
406279--406517	33	7.3	33	77	13	244	40	6	8	44	1.61
406275--406479	58	3.3	58	79	12	221	41	6	8	43	1.61
406379--406436	17	3.5	17	69	21	59	46	6	5	41	1.53
406533--406599	34	1.9	36	84	6	93	43	4	7	44	1.52
406567--406624	20	2.9	20	82	14	75	48	1	6	43	1.40
406588--406711	55	2.3	52	86	5	169	43	5	10	40	1.63
406631--406673	22	2.0	22	86	9	61	46	6	9	37	1.63
406674--406810	20	7.2	20	66	25	73	40	8	10	41	1.68
406713--406823	18	5.7	18	73	19	89	41	9	9	39	1.70
406854--406935	18	4.7	18	77	8	80	42	6	7	43	1.57
406882--406951	33	2.2	32	89	2	104	50	4	5	40	1.46
406836--406973	51	2.9	49	82	12	148	46	4	6	42	1.49
406902--406975	20	3.5	20	77	16	85	52	1	6	39	1.36
406902--406962	23	2.7	23	79	16	74	54	1	6	37	1.37
406915--406964	13	3.8	13	77	17	59	54	2	6	38	1.37
406931--406999	29	2.4	29	80	11	79	53	0	7	39	1.29
407022--407080	22	2.5	24	81	13	77	49	5	1	44	1.34
407192--407303	20	5.4	20	74	20	97	34	2	13	49	1.56
407214--407290	9	8.4	9	69	18	52	33	2	11	51	1.52
407186--407290	37	3.1	37	71	23	104	34	1	12	51	1.50
407186--407254	27	2.5	27	90	2	102	34	1	11	52	1.47
407296--407334	2	19.5	2	94	0	69	46	2	0	51	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
407214--407321	37	2.9	37	82	8	105	37	2	10	50	1.51
407176--407327	64	2.4	63	79	8	164	38	2	9	48	1.50
407354--408171	210	3.8	213	91	2	1199	29	11	7	50	1.67
415739--415768	13	2.3	13	94	0	51	20	43	23	13	1.86
418216--418307	24	3.8	24	84	5	132	26	16	17	40	1.90
418215--418331	48	2.4	47	83	6	146	26	16	17	40	1.90
418216--418337	24	5.1	23	81	6	120	25	16	17	40	1.89
422646--422737	24	3.8	24	82	5	114	27	15	18	39	1.90
427390--427480	45	2.0	45	100	0	182	43	21	6	27	1.77
428215--428321	29	3.6	29	84	5	126	36	22	6	34	1.80

Tables:   1   2   3   4