genome.fa.s1478.2.7.7.80.10.50.1000.3.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: VEPZ01001478.1 Hibiscus syriacus cultivar Beakdansim tig00002868_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  623040

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 580 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)
236327--236369	11	3.9	11	85	8	52	11	2	4	81	0.93
236323--236355	16	2.1	16	100	0	66	18	0	0	81	0.68
236395--236441	19	2.6	18	80	12	51	8	6	4	80	1.00
236395--236483	18	4.5	19	74	18	74	13	8	2	75	1.13
239458--239543	2	43.0	2	100	0	172	50	0	0	50	1.00
239778--239804	2	13.5	2	100	0	54	48	0	0	51	1.00
240867--240980	57	2.0	57	96	0	210	23	4	37	34	1.75
241140--241904	134	5.7	134	90	0	1165	27	17	23	31	1.97
241933--242140	79	2.6	78	92	3	337	23	19	25	31	1.98
242090--242177	37	2.4	37	90	1	122	23	18	23	34	1.96
242105--242177	37	2.0	37	97	0	137	23	17	21	36	1.94
242027--242258	116	2.0	116	95	0	419	23	20	25	31	1.98
242128--242304	79	2.3	79	91	1	284	25	19	24	29	1.98
241906--242304	195	2.0	195	93	0	672	23	20	24	31	1.98
244868--244902	8	4.4	8	86	13	54	0	14	0	85	0.59
250200--250244	17	2.7	18	77	22	53	64	6	2	26	1.30
250820--250861	2	21.5	2	95	4	77	50	0	0	50	1.00
251472--251587	57	2.0	57	94	0	205	24	5	37	33	1.78
253578--253619	21	2.0	21	90	0	66	21	28	23	26	1.99
254443--254550	31	3.4	32	79	6	114	29	23	18	28	1.98
262119--262152	16	2.1	16	100	0	68	23	17	26	32	1.97
264702--264754	21	2.4	24	84	12	69	39	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
264699--264755	26	2.2	26	84	12	73	40	0	0	59	0.97
268363--268405	15	2.9	15	79	10	52	44	2	2	51	1.27
274329--274368	19	2.1	19	100	0	80	25	20	17	37	1.94
274976--275066	45	2.0	45	100	0	182	15	17	30	36	1.91
278557--278598	21	2.0	21	100	0	84	38	14	14	33	1.86
279398--279480	22	3.8	22	100	0	166	21	37	21	19	1.94
279472--279501	11	2.7	11	89	0	51	26	26	16	30	1.97
280050--280174	31	4.0	31	77	6	135	32	20	18	28	1.96
280048--280171	63	2.0	62	88	4	187	31	20	18	29	1.96
283469--283507	20	2.0	20	89	0	60	30	30	12	25	1.93
283518--283697	65	2.8	65	77	6	188	30	24	17	28	1.97
283649--283697	19	2.6	19	84	9	57	24	30	18	26	1.98
289353--289436	44	1.9	43	87	2	123	30	20	20	28	1.97
290955--290995	21	2.0	21	90	0	64	4	36	17	41	1.71
291991--292029	20	2.0	20	94	0	69	30	30	15	23	1.95
294862--294989	31	4.1	31	77	6	132	33	21	17	28	1.95
294865--294982	62	1.9	62	87	5	175	31	21	17	29	1.96
295461--295486	2	13.0	2	100	0	52	50	0	0	50	1.00
295940--295979	21	1.9	21	85	10	55	20	35	27	17	1.95
304079--304119	20	2.0	20	95	0	73	36	9	0	53	1.34
307487--307583	45	2.2	45	84	3	124	25	14	41	18	1.89
311570--311630	28	2.1	30	93	6	108	11	3	18	67	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
316805--316969	89	1.8	91	89	5	264	37	17	16	27	1.92
320367--320398	3	10.3	3	93	6	55	34	0	0	65	0.93
321951--322600	325	2.0	325	99	0	1273	30	18	24	27	1.98
322824--322922	29	3.3	29	67	10	81	42	5	15	37	1.69
322821--322946	62	2.0	62	98	0	243	41	4	14	39	1.67
322984--323014	15	2.1	15	93	0	53	54	0	0	45	0.99
322999--323055	27	2.1	27	93	0	96	49	5	3	42	1.42
323049--323088	20	2.0	21	90	5	64	37	5	2	55	1.35
327143--327185	16	2.7	16	92	0	68	34	41	6	16	1.75
328352--328446	27	3.5	27	98	0	181	34	9	14	41	1.79
333522--333565	17	2.6	17	81	0	52	31	43	18	6	1.76
333544--333576	12	2.8	12	95	0	57	21	45	21	12	1.84
333605--333788	29	6.2	29	84	4	224	26	5	19	47	1.72
336896--336925	15	1.9	16	93	6	53	40	6	16	36	1.75
337062--337162	31	3.3	31	98	0	193	33	16	15	33	1.91
340607--340636	15	1.9	16	93	6	53	40	6	16	36	1.75
340773--340842	31	2.3	31	94	0	122	34	17	14	34	1.90
342880--342910	13	2.4	13	100	0	62	19	22	22	35	1.96
344753--344792	21	1.9	21	89	0	62	52	7	10	30	1.62
347507--347579	31	2.4	31	100	0	146	47	19	15	17	1.82
352743--352780	19	2.0	19	89	0	58	21	36	26	15	1.93
354572--354623	9	6.4	8	75	20	54	13	0	26	59	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
354575--354618	17	2.6	17	85	7	63	13	0	29	56	1.38
355201--355409	75	2.8	76	81	2	242	23	30	23	22	1.99
359295--359424	65	2.0	65	89	4	201	30	23	14	32	1.94
359362--359467	46	2.3	46	96	0	194	30	20	15	33	1.93
359321--359527	111	1.9	109	85	7	285	31	21	14	32	1.93
359408--359532	64	1.9	65	81	10	150	32	23	14	30	1.94
361012--361198	29	6.4	29	83	5	209	26	4	18	50	1.65
361013--361197	86	2.1	87	83	8	243	26	3	18	51	1.63
361062--361214	28	5.3	29	78	12	111	30	4	14	50	1.63
364975--365023	25	2.0	24	84	11	64	42	6	4	46	1.47
365155--365222	21	3.2	21	89	0	100	26	0	25	48	1.51
365153--365292	42	3.3	40	75	10	113	27	0	25	45	1.58
365197--365292	42	2.3	43	80	3	115	28	1	26	44	1.61
367947--367987	20	2.1	19	86	4	55	24	7	7	60	1.48
368695--368757	12	5.3	12	76	3	56	25	12	23	38	1.90
368714--368832	23	4.9	23	73	12	94	26	21	23	29	1.99
368747--368779	17	1.9	17	93	0	57	27	15	24	33	1.95
368711--368791	29	3.0	29	60	20	66	29	17	23	29	1.97
368767--368832	24	2.8	23	86	2	78	25	25	22	25	2.00
368841--368872	16	2.0	16	93	0	55	12	15	25	46	1.81
369119--369143	13	1.9	13	100	0	50	24	24	12	40	1.88
370308--370379	36	2.0	36	100	0	144	36	30	11	22	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
372348--372450	3	34.7	3	88	5	156	34	0	0	64	1.01
372912--372938	6	4.5	6	100	0	54	51	14	33	0	1.43
372946--372979	16	2.2	15	89	5	50	82	5	11	0	0.83
373870--373918	24	2.1	22	81	7	53	38	2	2	57	1.22
375189--375226	17	2.3	16	90	4	58	31	2	2	63	1.22
385221--385328	6	17.5	6	72	21	82	78	0	19	1	0.84
385221--385312	30	3.1	29	84	12	109	79	0	20	0	0.73
385221--385328	26	4.3	24	70	21	69	78	0	19	1	0.84
385218--385328	10	10.1	11	72	15	79	78	0	19	1	0.84
385217--385312	15	6.7	15	71	15	78	78	0	21	0	0.76
386461--386662	50	4.0	50	99	0	395	22	13	24	39	1.90
387384--388022	117	5.4	116	94	2	1080	34	15	20	28	1.94
387413--388022	235	2.6	235	97	0	1141	35	15	20	28	1.93
388177--388276	3	33.7	3	89	2	157	34	1	0	65	1.00
388739--388765	6	4.5	6	100	0	54	51	14	33	0	1.43
389641--389678	19	2.1	19	95	5	69	18	5	5	71	1.25
389699--389747	24	2.1	22	81	7	53	38	2	2	57	1.22
392056--392080	2	12.5	2	100	0	50	52	0	48	0	1.00
392203--392230	12	2.3	12	100	0	56	42	17	7	32	1.77
397022--397046	3	8.3	3	100	0	50	36	0	0	64	0.94
397316--397591	105	2.6	105	88	3	392	23	20	15	40	1.91
397530--398151	136	4.6	136	92	1	975	25	21	18	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
398184--398264	42	1.9	42	87	0	117	40	19	17	22	1.91
403640--403688	19	2.7	17	84	9	53	26	18	30	24	1.98
403640--403849	64	3.3	65	78	6	196	27	16	25	31	1.96
404181--404217	19	1.9	19	100	0	74	24	32	27	16	1.96
412058--412145	21	4.2	21	98	0	167	28	11	26	34	1.91
417412--417499	21	4.2	21	98	0	167	28	11	26	34	1.91
421856--421884	14	2.1	14	100	0	58	20	13	31	34	1.92
424797--424850	18	3.2	18	71	15	60	40	0	0	59	0.98
426655--426706	21	2.5	21	87	0	77	19	34	25	21	1.96
427228--427334	34	3.1	34	86	0	160	54	5	3	36	1.42

Tables:   1   2   3   4   5