genome.fa.s7863.2.7.7.80.10.50.1000.2.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: VEPZ01007863.1 Hibiscus syriacus cultivar Beakdansim tig00110234_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1653362

Tables:   1   2   3   4   5   6   7   8   

This is table  2  of  8  ( 912 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)
250268--250319	25	2.1	25	85	0	68	61	11	3	23	1.46
251269--251303	18	1.9	18	100	0	70	34	22	20	22	1.97
251547--251603	24	2.4	24	84	0	78	36	19	19	24	1.94
251595--251664	23	3.0	23	68	14	63	34	22	24	18	1.96
258356--258398	20	2.2	20	83	8	52	32	16	23	27	1.96
267761--268092	43	7.8	42	81	6	312	34	20	20	24	1.96
267765--268092	128	2.5	126	77	10	324	34	20	20	24	1.97
267769--268092	85	3.8	83	82	6	357	34	20	20	23	1.97
269979--270005	10	2.7	10	100	0	54	62	22	14	0	1.31
272296--272748	125	3.7	123	79	4	361	33	17	19	29	1.95
272240--272748	166	3.1	166	88	0	730	33	17	19	29	1.95
272261--272761	41	12.1	41	81	3	511	33	17	19	29	1.95
273494--273531	18	2.1	19	85	5	51	50	0	0	50	1.00
273797--273838	2	21.0	2	100	0	84	50	0	0	50	1.00
275213--275267	21	2.6	21	94	0	92	50	23	5	20	1.68
293200--293311	41	2.8	38	71	18	93	35	16	16	31	1.91
295796--295825	16	1.9	15	93	6	51	60	0	3	36	1.14
298041--298092	20	2.5	21	81	3	61	38	17	23	21	1.93
298084--298194	20	5.5	20	81	9	100	32	24	18	24	1.97
298751--298792	19	2.2	19	91	0	66	52	26	16	4	1.63
298788--298952	19	9.1	19	74	15	134	12	23	20	43	1.86
298793--298927	33	3.9	33	87	5	144	11	23	21	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
298906--298952	20	2.3	20	79	13	60	14	25	12	46	1.80
301098--301164	21	3.2	21	66	6	55	23	35	20	19	1.95
301046--301164	42	2.8	42	81	5	107	21	36	19	22	1.95
302524--302559	14	2.6	14	95	0	63	30	0	25	44	1.54
302675--302727	14	3.2	17	70	24	58	49	20	20	9	1.77
302684--302740	14	3.7	14	75	20	60	45	22	22	8	1.80
302666--302755	33	2.7	33	91	0	144	44	21	21	13	1.85
302751--302867	19	6.7	19	73	18	119	15	21	19	43	1.87
302776--302866	33	2.7	34	89	5	141	16	20	19	42	1.89
305160--305184	12	2.1	12	100	0	50	0	28	0	72	0.86
305359--305412	24	2.2	24	90	0	81	40	20	16	22	1.91
306157--306207	20	2.5	20	100	0	102	29	19	31	19	1.97
306420--306510	20	4.6	20	92	0	146	36	24	21	17	1.95
306536--306600	19	3.7	19	84	13	86	13	18	18	49	1.80
306606--306644	20	2.0	20	94	0	69	12	10	30	46	1.75
306727--306763	14	2.6	14	86	0	56	48	21	0	29	1.50
308633--308686	20	2.7	20	77	11	65	38	20	22	18	1.93
308689--308746	14	3.9	14	79	16	71	48	25	17	8	1.75
308681--308751	32	2.2	33	97	2	135	47	23	19	8	1.77
308780--308837	14	3.9	14	77	16	62	12	17	22	48	1.80
308763--308853	32	2.8	33	93	3	157	13	18	20	47	1.82
308826--308892	20	3.4	19	77	6	62	16	22	22	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
309375--309419	18	2.5	18	88	0	72	13	15	44	26	1.83
310739--310797	20	3.0	20	87	0	73	42	22	18	16	1.89
311051--311099	22	2.3	21	80	10	55	24	14	40	20	1.89
311058--311101	22	2.0	22	90	0	70	20	15	43	20	1.88
311261--311395	20	6.7	20	78	7	94	23	17	25	33	1.96
311261--311398	61	2.3	61	84	0	186	23	17	24	34	1.96
311261--311416	61	2.6	61	81	2	152	22	19	24	33	1.97
312846--313382	265	2.0	266	98	0	1031	44	9	11	34	1.74
317907--317939	16	2.1	16	94	0	57	30	36	15	18	1.91
320819--320872	22	2.7	19	75	18	56	37	16	16	29	1.91
321214--321574	54	6.7	54	91	1	508	32	17	19	31	1.94
321239--321322	26	3.2	26	63	24	66	30	15	20	33	1.94
322677--322725	23	2.1	22	85	14	64	55	6	4	34	1.44
322676--322727	24	2.2	24	80	19	65	55	5	3	34	1.42
325282--325902	316	2.0	305	94	4	1102	36	19	8	36	1.81
326786--326818	16	2.1	16	100	0	66	24	24	6	45	1.75
330841--330877	18	2.1	18	94	0	65	18	27	18	35	1.95
336584--336654	30	2.4	30	90	0	106	14	12	43	29	1.82
343638--343683	20	2.3	19	85	14	58	50	8	15	26	1.73
344123--344148	11	2.4	11	100	0	52	26	26	11	34	1.91
346118--346202	42	2.0	42	88	0	125	34	24	15	25	1.95
349060--349115	26	2.2	25	96	3	103	33	32	14	19	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
350709--350770	31	2.0	31	93	3	108	37	35	4	22	1.76
352827--353131	41	7.4	41	71	14	184	33	19	18	28	1.96
355168--355208	21	2.0	21	100	0	82	19	7	19	53	1.68
355330--355755	128	3.3	128	86	2	541	26	24	19	30	1.98
355330--355755	43	9.9	43	83	2	509	26	24	19	30	1.98
367522--367572	25	2.0	25	92	0	84	45	5	13	35	1.68
368292--368384	23	4.0	23	81	1	87	13	45	13	26	1.82
368346--368399	24	2.2	24	93	0	90	14	46	14	24	1.83
375391--375469	5	15.8	5	75	15	74	81	1	17	0	0.77
375393--375460	17	3.8	18	77	11	61	80	1	17	0	0.78
375392--375465	11	6.5	11	81	6	85	82	1	16	0	0.74
375391--375469	33	2.4	33	84	12	108	81	1	17	0	0.77
376872--377116	51	4.8	50	85	4	330	36	16	22	24	1.94
376872--377116	103	2.4	101	88	3	359	36	16	22	24	1.94
377631--377658	14	2.0	14	100	0	56	21	14	28	35	1.92
378667--379026	173	2.1	176	87	3	521	31	18	20	29	1.96
380218--380326	50	2.2	52	86	5	152	35	11	12	39	1.81
382633--382663	2	15.5	2	100	0	62	51	0	48	0	1.00
387519--387562	17	2.8	15	83	12	61	54	9	6	29	1.58
387520--387553	17	2.0	17	100	0	68	47	11	5	35	1.65
388678--388775	32	3.0	32	92	2	160	45	14	7	32	1.72
388770--388810	21	2.0	21	95	0	73	43	7	17	31	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
400622--400674	3	17.3	3	96	3	97	64	0	0	35	0.94
401041--401154	45	2.5	45	85	2	147	29	21	23	24	1.99
400934--401472	121	4.5	121	92	1	827	30	20	23	25	1.99
401162--401275	45	2.5	45	92	2	183	30	21	23	23	1.99
401293--401396	45	2.3	45	93	0	172	33	18	22	25	1.96
401330--401519	76	2.5	75	91	3	292	32	21	21	24	1.98
402578--402714	54	2.6	54	78	3	143	27	19	14	37	1.91
407236--407269	1	34.0	1	93	0	59	0	2	0	97	0.19
409859--409941	43	1.9	44	82	2	105	34	22	13	28	1.92
412732--412790	26	2.3	26	80	11	70	62	0	0	37	0.95
412738--412778	21	2.0	22	85	9	59	65	0	0	34	0.93
412786--412827	2	21.0	2	85	0	57	42	0	2	54	1.13
412786--412835	14	3.4	14	86	5	64	40	0	2	58	1.10
412786--412835	8	6.5	8	81	9	50	40	0	2	58	1.10
412786--412835	16	3.1	16	91	0	73	40	0	2	58	1.10
414190--414248	3	19.3	3	89	3	91	61	0	1	37	1.07
415466--415509	15	2.8	16	79	10	54	50	0	0	50	1.00
418024--418104	3	27.0	3	87	0	117	60	0	1	38	1.05
418344--418781	124	3.6	123	81	6	452	26	19	14	39	1.90
418585--418797	113	1.9	112	91	2	347	28	21	13	37	1.91
418721--418765	23	1.9	23	82	13	56	15	26	6	51	1.68
419108--419307	95	2.1	95	97	0	373	32	16	15	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
419634--419943	82	3.6	89	83	12	380	39	23	12	24	1.90
419634--419943	83	3.6	82	88	6	406	39	23	12	24	1.90
420935--420989	16	3.2	17	85	12	69	52	5	7	34	1.52
421307--421356	7	7.4	7	84	10	61	0	10	0	90	0.47
421309--421370	9	7.1	9	83	10	67	0	14	0	85	0.60
421307--421365	16	3.8	16	86	2	75	0	11	0	88	0.53
421307--421356	1	50.0	1	79	0	55	0	10	0	90	0.47
421309--421368	15	4.1	15	83	14	81	0	13	0	86	0.57
428596--428627	15	2.1	15	94	0	55	46	9	18	25	1.79
433927--434003	3	26.0	3	85	2	102	59	0	1	38	1.06

Tables:   1   2   3   4   5   6   7   8