genome.fa.s5680.2.7.7.80.10.50.1000.2.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: VEPZ01005680.1 Hibiscus syriacus cultivar Beakdansim tig00013285_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1821426

Tables:   1   2   3   4   5   6   

This is table  2  of  6  ( 720 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)
244075--244188	60	1.9	60	87	0	165	37	18	15	28	1.92
244531--244558	2	14.0	2	100	0	56	50	0	0	50	1.00
245632--245661	3	10.0	3	92	0	51	3	33	0	63	1.11
246084--246135	25	2.1	25	96	0	95	38	9	5	46	1.61
248328--248385	16	3.6	16	85	0	80	44	6	24	24	1.77
260200--260336	60	2.3	60	83	3	161	32	21	16	30	1.95
262285--262315	2	15.5	2	100	0	62	48	0	0	51	1.00
262810--262875	34	1.9	35	90	3	107	33	25	15	25	1.95
264702--264735	16	2.1	17	94	5	61	44	23	0	32	1.54
269892--269928	2	18.5	2	100	0	74	48	0	0	51	1.00
281656--281875	20	10.9	20	85	2	269	47	14	17	20	1.83
281656--281835	41	4.4	41	96	0	317	47	13	16	22	1.81
281656--281885	41	5.7	40	92	2	151	47	14	16	21	1.82
282246--282392	20	7.2	21	87	3	185	21	17	16	45	1.85
282342--282408	20	3.3	20	85	0	98	16	14	26	41	1.87
282321--282408	40	2.2	41	91	2	142	18	15	23	42	1.89
282402--282448	20	2.3	20	85	0	67	23	17	23	36	1.95
282438--282555	20	5.8	21	69	5	53	28	15	26	29	1.96
282764--282802	21	2.0	20	85	10	53	28	20	20	30	1.98
286893--286918	2	13.0	2	100	0	52	50	0	0	50	1.00
286988--287018	2	15.5	2	100	0	62	51	0	0	48	1.00
288792--288822	4	7.8	4	100	0	62	51	22	0	25	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
295973--296628	51	12.6	54	92	2	346	28	26	15	29	1.96
296080--296638	51	10.9	51	95	0	947	27	27	15	29	1.96
295973--296638	102	6.4	102	91	3	949	28	26	15	29	1.96
297963--298036	29	2.6	29	81	12	89	8	14	0	77	0.99
307750--307846	44	2.1	47	88	7	146	40	20	11	27	1.87
311935--312012	34	2.4	31	83	12	77	28	35	11	24	1.90
313834--313867	12	3.0	11	87	8	50	61	0	0	38	0.96
323836--324262	217	2.0	218	95	0	766	33	14	15	37	1.88
339307--339700	20	19.2	20	78	13	351	38	26	19	16	1.92
339369--339692	42	7.9	39	91	5	366	36	27	18	16	1.93
339390--339700	62	5.0	61	88	7	386	37	26	18	16	1.93
339796--339922	6	21.5	6	99	0	240	32	51	16	0	1.45
340414--340793	6	63.5	6	99	0	753	0	16	50	33	1.46
340889--341263	20	18.2	20	80	8	324	17	18	25	38	1.92
340889--341263	42	9.1	41	83	9	344	17	18	25	38	1.92
340898--341261	102	3.5	102	89	4	518	17	19	25	37	1.93
340892--341264	82	4.5	78	82	9	331	16	19	25	38	1.92
350072--350116	21	2.1	22	87	4	65	57	0	4	37	1.19
350708--350733	3	8.7	3	100	0	52	34	0	0	65	0.93
354428--354464	12	3.0	12	92	7	65	72	27	0	0	0.84
354431--354465	13	2.7	13	90	0	61	80	20	0	0	0.72
359500--359579	22	3.7	22	73	9	92	51	17	16	15	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
361783--361849	33	2.0	33	97	0	125	50	17	25	5	1.69
362384--362413	3	10.0	3	100	0	60	33	33	0	33	1.58
365204--365244	19	2.4	18	81	18	52	26	2	2	68	1.15
370066--370107	20	2.1	20	95	0	75	42	23	11	21	1.86
377813--378018	68	3.0	68	91	2	342	26	12	13	48	1.77
377899--378007	31	3.3	31	68	22	87	23	12	12	50	1.75
377876--377986	37	3.2	37	69	23	121	27	12	12	47	1.77
378102--378164	32	2.0	32	96	0	117	25	6	17	50	1.69
390556--390607	22	2.4	22	75	12	54	61	0	0	38	0.96
398418--399391	141	7.0	141	84	4	1189	28	22	17	31	1.97
400493--400584	30	3.3	29	65	22	79	22	20	16	40	1.91
400468--400626	54	2.9	54	90	0	246	25	20	15	38	1.91
401639--401728	36	2.5	36	100	0	180	22	21	20	36	1.95
405970--406003	2	17.0	2	100	0	68	50	0	0	50	1.00
407357--407391	17	2.1	17	94	0	61	42	17	28	11	1.83
416594--416710	59	2.0	59	81	1	135	34	16	16	33	1.91
421116--421152	15	2.5	15	95	0	65	5	16	70	8	1.30
421816--421868	4	13.5	4	84	4	63	67	0	3	28	1.07
425776--425831	22	2.5	22	80	13	78	32	25	3	39	1.73
432399--432424	3	8.7	3	100	0	52	34	34	30	0	1.58
432420--432510	39	2.3	39	81	3	103	32	31	16	18	1.93
444407--444434	14	2.0	14	100	0	56	50	0	21	28	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
445080--445467	20	19.2	20	82	11	390	41	23	19	15	1.90
445157--445467	60	5.1	60	90	5	434	39	24	19	15	1.91
445561--445670	6	18.5	6	96	1	204	32	51	15	0	1.44
446148--446270	6	21.2	6	93	6	218	0	17	48	34	1.47
446369--446783	20	20.8	20	81	15	497	15	20	26	38	1.92
446774--446824	19	2.7	19	90	3	77	11	19	19	49	1.79
446362--446862	20	25.2	20	79	13	461	15	19	24	40	1.90
446369--446862	40	12.4	40	86	9	660	15	19	24	40	1.90
448231--448260	15	2.0	15	93	0	51	33	36	13	16	1.88
461332--461379	2	24.0	2	100	0	96	50	0	0	50	1.00
464255--464286	2	16.0	2	100	0	64	50	0	0	50	1.00
465832--465864	2	16.5	2	100	0	66	48	0	0	51	1.00
473294--473323	15	2.0	15	93	0	51	70	0	13	16	1.18
473878--473926	21	2.3	21	96	0	89	16	28	46	8	1.75
474715--474772	22	2.6	23	86	8	75	67	0	6	25	1.16
474784--474969	38	5.0	36	79	8	169	44	6	4	45	1.49
474780--474957	76	2.4	74	79	6	205	44	6	4	44	1.50
474936--475012	25	3.0	25	72	7	73	46	5	2	45	1.39
474955--474984	15	1.9	16	93	6	53	53	6	0	40	1.27
474780--474984	76	2.7	74	75	10	191	45	6	3	43	1.49
474971--475097	36	3.4	37	75	15	118	44	7	4	44	1.52
475174--475287	36	3.2	34	81	12	115	46	7	2	43	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
474844--475225	127	3.0	127	96	1	685	42	7	4	45	1.52
475172--475323	75	2.1	73	82	9	184	46	7	3	42	1.49
475172--475326	37	4.2	37	78	13	149	46	7	3	42	1.48
475916--477121	105	11.4	105	96	0	2132	22	17	25	34	1.96
481578--481626	21	2.3	21	96	0	89	16	28	46	8	1.75
482418--482475	22	2.6	23	86	8	75	67	0	6	25	1.16
482487--482672	38	5.0	36	79	8	169	44	6	4	45	1.49
482483--482660	76	2.4	74	79	6	205	44	6	4	44	1.50
482639--482715	25	3.0	25	72	7	73	46	5	2	45	1.39
482658--482687	15	1.9	16	93	6	53	53	6	0	40	1.27
482483--482687	76	2.7	74	75	10	191	45	6	3	43	1.49
482674--482800	36	3.4	37	75	15	118	44	7	4	44	1.52
482877--482990	36	3.2	34	81	12	115	46	7	2	43	1.44
482547--482928	127	3.0	127	96	1	685	42	7	4	45	1.52
482875--483026	75	2.1	73	82	9	184	46	7	3	42	1.49
482875--483029	37	4.2	37	78	13	149	46	7	3	42	1.48
493376--493554	70	2.6	70	97	0	331	16	13	17	52	1.75
493772--493814	22	2.0	21	86	8	61	25	0	0	74	0.82
494122--494170	2	25.5	2	91	8	84	53	0	0	46	1.00
499846--499922	37	2.1	37	82	4	93	46	1	5	46	1.33
501543--501583	16	2.6	16	88	3	57	36	12	21	29	1.90
501737--501776	22	1.9	21	85	10	55	30	25	17	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
509280--509335	2	28.0	2	100	0	112	50	0	0	50	1.00
509522--509549	2	14.0	2	100	0	56	50	0	0	50	1.00
518008--518038	2	16.0	2	93	6	55	48	0	0	51	1.00
518640--518714	23	3.2	24	77	5	73	30	14	12	42	1.82
519172--519196	2	12.5	2	100	0	50	48	0	0	52	1.00
527310--527355	23	2.0	23	83	8	58	34	0	0	65	0.93
528527--528619	21	4.6	20	78	4	96	38	18	24	18	1.92
528524--528619	41	2.3	41	98	0	183	39	17	23	18	1.92
528527--528619	20	4.6	20	78	4	96	38	18	24	18	1.92
528608--528702	20	4.7	20	77	2	82	35	24	16	23	1.95

Tables:   1   2   3   4   5   6