genome.fa.s5466.2.7.7.80.10.50.1000.2.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: VEPZ01005466.1 Hibiscus syriacus cultivar Beakdansim tig00012523_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1151987

Tables:   1   2   3   4   

This is table  2  of  4  ( 456 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)
191761--191788	3	9.3	3	100	0	56	0	32	0	67	0.91
192044--192083	15	2.7	15	88	0	53	82	2	10	5	0.91
192470--192499	2	15.0	2	92	0	51	46	0	3	50	1.18
193231--193273	15	2.7	15	85	7	50	41	0	4	53	1.21
193229--193268	17	2.5	16	84	8	55	42	0	5	52	1.23
196682--196721	20	2.0	21	85	9	57	20	5	5	70	1.26
197146--197208	30	2.1	30	82	5	74	57	0	1	41	1.08
197336--197391	28	2.0	29	89	10	89	39	1	19	39	1.62
198505--198543	13	3.0	13	80	0	51	23	20	20	35	1.96
199444--199483	16	2.4	17	83	4	55	35	0	0	65	0.93
200962--201145	60	3.1	59	80	7	201	33	23	4	38	1.76
201306--201417	58	1.9	59	85	5	156	42	1	19	35	1.62
203775--203849	23	3.2	24	79	5	82	24	20	16	40	1.91
206121--206194	31	2.3	32	84	11	98	44	31	14	9	1.77
211465--211538	38	2.0	37	84	12	98	33	35	10	20	1.87
213597--213658	26	2.4	26	97	0	115	72	9	0	17	1.10
216922--216957	3	12.0	3	100	0	72	66	0	0	33	0.92
221733--221774	16	2.6	17	79	20	54	45	2	0	52	1.13
226150--226178	2	14.5	2	100	0	58	51	0	0	48	1.00
237106--237152	14	3.0	15	72	22	51	57	14	8	19	1.63
246263--246413	20	7.5	20	90	0	158	47	16	17	18	1.84
246763--246811	21	2.4	21	86	3	73	20	18	16	44	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
246846--246909	20	3.2	20	84	8	94	17	9	26	46	1.78
246830--246929	40	2.5	41	82	11	127	21	10	24	45	1.82
246906--246949	20	2.2	20	87	0	61	22	11	22	43	1.85
247102--247126	2	12.5	2	100	0	50	48	0	0	52	1.00
247374--248150	382	2.0	383	94	2	1353	37	19	9	33	1.83
248585--249018	185	2.3	184	80	6	464	32	9	9	48	1.69
251135--251201	30	2.2	30	84	10	84	56	0	0	43	0.99
257540--257583	23	1.9	23	85	0	61	27	4	0	68	1.09
266202--266262	32	1.9	31	83	3	77	55	6	9	27	1.57
268331--268356	5	5.2	5	100	0	52	80	19	0	0	0.71
268501--268527	2	13.5	2	100	0	54	51	0	0	48	1.00
273458--273506	25	2.0	25	83	0	62	28	12	16	42	1.84
276566--276853	144	2.0	144	100	0	576	17	22	25	35	1.95
283968--283992	13	1.9	13	100	0	50	40	24	12	24	1.88
296907--297003	32	3.1	31	79	10	115	23	14	27	34	1.94
297744--297806	32	2.0	32	84	6	83	14	14	25	46	1.82
297754--297806	16	3.3	16	73	7	54	15	13	24	47	1.81
317834--317896	28	2.2	28	86	5	83	38	9	1	50	1.44
322617--322655	20	1.9	20	84	5	51	33	10	7	48	1.66
330073--330156	42	2.0	42	90	0	132	44	14	14	27	1.83
332625--332670	3	15.3	3	82	8	58	32	0	2	65	1.05
332625--332670	18	2.5	19	86	10	69	32	0	2	65	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
333982--334031	2	25.0	2	100	0	100	50	0	0	50	1.00
335179--335203	2	12.5	2	100	0	50	52	0	0	48	1.00
339029--339112	39	2.2	39	81	10	95	54	3	0	41	1.17
342563--342599	12	3.2	12	88	7	51	27	0	0	72	0.84
343009--343081	21	3.4	21	74	10	67	50	26	0	23	1.49
344428--344524	30	3.2	30	76	5	79	39	8	13	39	1.74
344748--344800	24	2.1	27	82	10	67	49	5	0	45	1.26
344940--345011	15	4.7	15	80	14	69	56	0	0	43	0.99
345031--345066	9	3.6	10	88	11	56	58	0	0	41	0.98
352195--352309	60	1.9	60	83	3	151	31	23	2	42	1.68
352467--352629	60	2.7	61	76	8	163	42	4	20	32	1.72
357169--357301	60	2.2	60	84	5	162	33	18	15	32	1.93
357192--357315	60	2.1	60	83	6	153	32	17	14	35	1.90
358574--358643	2	35.0	2	100	0	140	50	0	0	50	1.00
370817--370841	5	5.0	5	100	0	50	80	0	0	20	0.72
371002--371055	27	2.0	27	81	0	63	20	14	48	16	1.81
383062--383454	136	2.9	136	91	1	621	30	24	17	27	1.97
394751--394850	24	4.2	24	74	5	94	22	14	17	47	1.82
399628--399726	24	4.2	24	73	6	85	22	14	17	46	1.83
399892--399946	2	27.5	2	100	0	110	49	0	0	50	1.00
402169--402215	23	2.1	23	81	14	55	55	10	19	14	1.68
402577--402629	27	2.1	26	82	10	65	13	9	32	45	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
408842--408907	14	4.9	13	76	18	57	71	1	1	25	1.04
408842--408913	27	2.6	28	82	10	87	70	2	1	25	1.08
409168--409206	15	2.7	14	84	4	51	25	0	23	51	1.49
410561--410616	11	4.8	11	74	20	51	46	1	8	42	1.45
410546--410782	40	6.5	36	79	15	224	42	3	8	45	1.51
410497--410782	76	3.9	73	79	15	249	42	4	8	45	1.53
417618--417652	17	2.1	17	94	0	61	34	22	8	34	1.85
422723--422772	14	3.8	13	86	5	57	30	0	22	48	1.51
422729--422772	14	3.2	14	87	3	63	29	0	22	47	1.51
422755--422799	21	2.1	21	83	0	54	28	2	17	51	1.58
427514--427539	3	8.7	3	100	0	52	34	0	0	65	0.93
428302--428339	14	2.8	13	84	15	51	68	0	0	31	0.90
428282--428356	36	2.1	35	83	11	91	62	4	0	33	1.14
428292--428356	20	3.7	17	80	13	69	64	3	0	32	1.09
429409--429538	55	2.4	55	90	0	197	29	20	22	27	1.99
430081--430155	23	3.3	23	88	1	107	18	22	26	32	1.97
430059--430189	43	3.0	43	75	14	133	19	22	25	32	1.97
430600--430637	2	19.0	2	100	0	76	50	0	0	50	1.00
430897--430965	25	2.8	25	81	0	84	36	8	10	44	1.69
439496--439520	3	8.3	3	100	0	50	68	0	0	32	0.90
441384--441439	25	2.2	26	78	15	64	26	1	7	64	1.29
442637--442667	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
446611--446710	50	2.0	50	84	5	130	35	23	14	28	1.93
450451--450498	19	2.5	19	89	0	69	43	6	12	37	1.68
450526--450563	20	1.9	20	94	0	67	28	31	26	13	1.93
450603--450642	21	1.9	21	94	0	71	25	15	30	30	1.95
450673--450712	20	1.9	21	85	10	55	37	37	10	15	1.80
450919--450982	34	2.0	32	85	11	87	31	15	28	25	1.96
460836--460866	15	2.1	15	100	0	62	12	12	22	51	1.74
463688--463748	26	2.4	23	76	15	59	49	8	0	42	1.32
474066--474107	21	2.0	21	85	0	57	45	19	11	23	1.83
475755--476460	198	3.5	196	81	6	737	39	14	14	30	1.87
476478--476522	23	2.0	23	90	0	72	40	17	8	33	1.81
477393--477429	3	12.7	3	94	5	67	67	0	0	32	0.91
477393--477425	17	1.9	17	100	0	66	66	0	0	33	0.92
480804--480841	16	2.2	18	86	9	53	52	2	0	44	1.14
481012--481114	51	2.0	51	100	0	206	20	23	23	33	1.97
484059--484129	31	2.4	31	95	4	128	35	5	15	43	1.70
484211--484260	19	2.6	19	100	0	100	38	14	16	32	1.88
484365--484406	21	2.0	21	95	0	75	23	21	28	26	1.99
484435--484474	20	1.9	22	90	10	66	37	40	10	12	1.77
484689--484758	34	2.1	32	86	5	95	31	15	30	22	1.95
485291--485753	231	2.0	231	96	0	856	33	17	14	34	1.90
490385--490451	33	2.0	33	94	0	116	26	5	5	61	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
490685--490727	23	1.9	22	90	4	68	72	0	0	27	0.85
490703--490729	14	1.9	14	100	0	54	62	0	0	37	0.95
491642--491666	2	12.5	2	100	0	50	52	0	0	48	1.00
505415--505465	6	8.5	6	93	6	86	1	31	15	50	1.55
505419--505478	29	2.1	29	81	12	70	3	30	20	46	1.66
508193--508239	20	2.2	20	85	7	58	48	2	4	44	1.34
508274--508306	17	1.9	17	88	11	50	63	0	3	33	1.10
508631--508665	3	11.0	3	88	11	52	34	0	0	65	0.93
508631--508665	13	2.8	13	91	4	54	34	0	0	65	0.93
516804--516837	17	2.0	17	88	0	50	23	11	29	35	1.90

Tables:   1   2   3   4