genome.fa.s8002.2.7.7.80.10.50.1000.2.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: VEPZ01008002.1 Hibiscus syriacus cultivar Beakdansim tig00110461_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1031338

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 489 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)
249837--249901	21	3.1	21	80	6	69	15	29	15	40	1.88
252124--252169	20	2.4	18	79	13	56	19	17	10	52	1.74
252291--252336	20	2.3	20	89	10	76	17	17	10	54	1.70
254650--254695	21	2.2	21	100	0	92	26	21	28	23	1.99
264764--264827	26	2.5	25	90	5	101	29	17	21	31	1.96
281069--281113	19	2.3	20	88	3	65	60	0	2	37	1.09
282605--282664	4	15.2	4	76	13	54	73	0	5	21	1.02
282601--282640	13	3.0	13	88	3	53	80	0	0	20	0.72
282601--282628	14	2.0	14	100	0	56	85	0	0	14	0.59
282687--282724	12	3.1	13	85	7	53	55	5	0	39	1.23
284237--284907	105	6.4	104	93	1	1085	22	18	25	33	1.97
285744--285784	16	2.5	17	92	7	68	0	2	9	87	0.62
285743--285795	12	4.4	13	90	9	69	0	3	9	86	0.68
285743--285797	13	4.5	12	84	10	67	0	5	9	85	0.74
295223--295256	10	3.4	10	87	0	50	73	0	5	20	1.04
296536--296581	9	5.3	9	76	7	51	71	0	0	28	0.86
296533--296581	13	3.9	13	81	5	57	73	0	0	26	0.83
296615--296652	8	5.0	8	87	9	53	52	7	0	39	1.31
308549--308582	11	3.2	11	87	8	52	50	0	0	50	1.00
308572--308615	16	2.6	17	76	23	56	45	6	2	45	1.42
309319--309349	2	16.0	2	93	6	55	48	0	0	51	1.00
317092--317241	15	9.5	15	74	15	115	44	0	4	50	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317092--317241	52	3.2	46	76	15	144	44	0	4	50	1.27
317203--317259	18	3.4	18	69	18	59	33	0	12	54	1.38
317189--317264	32	2.4	32	97	0	143	36	0	9	53	1.33
317212--317775	54	10.6	54	73	14	320	34	0	13	52	1.41
317165--317760	80	7.5	82	86	10	700	34	0	13	52	1.41
317294--317583	32	10.7	29	75	23	189	35	0	12	52	1.39
317324--317519	22	8.0	22	71	21	140	36	0	12	51	1.40
317454--317519	23	2.9	23	97	2	125	36	0	13	50	1.42
317508--317561	14	3.6	14	72	18	54	37	0	5	57	1.22
317426--317663	109	2.2	112	93	2	401	34	0	13	52	1.41
317634--317681	22	2.4	18	73	23	51	33	0	14	52	1.42
317790--317869	31	2.5	32	85	2	108	38	10	6	45	1.63
317848--317891	16	2.8	16	89	0	61	25	6	4	63	1.38
326109--326150	22	1.9	22	100	0	84	14	19	4	61	1.49
331108--331134	13	2.1	13	100	0	54	44	7	14	33	1.73
336008--336079	17	4.0	17	73	18	65	33	12	12	41	1.80
338678--338719	15	2.6	16	85	11	59	50	0	0	50	1.00
338944--338995	26	2.1	26	82	7	63	40	1	15	42	1.58
339681--339723	2	22.0	2	95	4	79	51	0	0	48	1.00
346186--346237	20	2.6	20	100	0	104	23	15	36	25	1.93
346640--346668	15	2.0	15	93	6	51	58	13	13	13	1.63
346667--346718	7	7.1	7	75	16	52	38	3	17	40	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
347961--348122	64	2.5	64	82	6	177	25	19	19	35	1.95
353038--353133	38	2.5	38	89	0	147	26	22	27	23	2.00
356408--356443	18	2.0	18	88	0	54	30	33	16	19	1.94
356427--356509	22	3.8	22	86	0	112	30	30	22	16	1.96
356408--356540	22	6.7	18	82	6	95	29	30	21	18	1.97
359574--359735	29	5.6	29	90	0	234	41	20	3	34	1.68
359741--359765	13	1.9	13	100	0	50	12	24	48	16	1.79
360586--360648	23	2.8	23	92	2	101	39	6	12	41	1.69
367074--367195	60	2.0	60	92	1	201	41	4	6	47	1.48
369008--369102	21	4.7	20	73	17	63	21	20	22	36	1.95
369027--369223	21	9.7	21	67	10	122	20	18	23	37	1.95
369033--369247	40	5.3	40	88	4	306	21	18	22	37	1.94
369052--369243	21	9.4	21	68	17	79	22	18	21	37	1.94
369336--369366	6	5.2	6	100	0	62	35	48	16	0	1.46
369872--369924	6	9.5	6	72	15	51	1	20	45	32	1.62
369859--369924	22	3.0	22	91	2	98	1	24	40	33	1.64
369864--369899	16	2.2	16	100	0	72	0	25	41	33	1.55
370065--370132	25	3.0	23	66	23	63	36	22	20	20	1.95
370017--370191	42	4.2	42	90	4	282	36	22	19	21	1.95
370014--370191	86	2.1	82	91	4	284	35	22	19	22	1.96
371350--371412	28	2.2	29	86	5	85	20	25	17	36	1.94
373946--373990	24	1.9	23	90	4	72	46	4	13	35	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
375236--375287	22	2.4	21	84	9	68	53	0	1	44	1.11
375236--375297	23	2.7	23	82	5	81	50	0	1	48	1.10
377459--377513	2	27.5	2	100	0	110	50	0	0	49	1.00
380131--380160	2	15.0	2	100	0	60	50	0	0	50	1.00
386718--386770	27	1.9	28	81	11	65	30	3	5	60	1.37
386710--386770	28	2.1	29	85	8	81	29	3	6	60	1.38
388031--388078	22	2.2	22	88	0	69	18	37	16	27	1.92
388417--388455	20	2.0	20	94	0	69	51	17	12	17	1.76
389812--389908	42	2.3	42	90	0	149	29	37	16	16	1.91
390023--390072	21	2.4	21	82	0	64	20	14	32	34	1.92
390278--390380	2	55.0	2	71	12	76	51	0	0	48	1.00
390637--390677	21	2.0	21	85	0	55	19	19	26	34	1.96
390963--391013	21	2.4	21	90	0	75	23	33	23	19	1.97
392582--392621	20	2.0	20	90	0	62	15	10	25	50	1.74
395175--395258	24	3.5	24	95	0	141	39	17	16	26	1.91
396189--396314	41	3.1	40	79	10	130	34	10	23	32	1.88
396214--396278	20	3.3	19	72	8	58	40	12	21	26	1.88
396249--396314	21	3.2	20	75	10	53	30	12	25	31	1.92
401253--401305	21	2.5	21	81	0	61	20	24	18	35	1.95
401297--401388	20	4.6	20	83	2	130	40	19	20	19	1.92
401931--401974	21	2.1	21	95	0	79	54	13	20	11	1.69
401973--402015	19	2.3	19	91	0	68	46	25	18	9	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402068--402135	20	3.5	19	84	6	73	11	23	22	42	1.86
402018--402144	19	6.8	19	76	12	138	11	20	19	48	1.80
402068--402144	40	1.9	39	89	2	118	11	23	19	45	1.83
403972--404008	14	2.6	14	88	12	58	32	0	18	48	1.49
404131--404170	14	2.9	14	88	0	62	47	25	20	7	1.75
404187--404298	19	6.4	18	68	20	69	13	24	18	43	1.86
404185--404278	33	2.8	33	95	0	161	12	24	18	44	1.84
404251--404344	20	4.7	20	70	13	59	22	20	22	35	1.96
407717--407757	21	2.0	21	90	0	64	39	17	26	17	1.91
411602--411640	19	2.1	19	85	9	53	48	0	0	51	1.00
411589--411651	26	2.3	26	83	5	72	46	0	0	53	1.00
415919--415969	26	2.2	22	83	16	59	29	15	11	43	1.82
418515--418559	13	3.7	13	74	17	51	26	13	6	53	1.64
418508--418561	23	2.3	23	96	0	99	31	12	5	50	1.64
418700--418740	21	2.0	21	85	9	57	21	9	17	51	1.74
429225--429251	2	13.5	2	100	0	54	51	0	0	48	1.00
433540--433608	22	3.0	23	77	8	61	49	1	0	49	1.09
433602--433633	15	2.2	14	94	5	55	34	0	3	62	1.11
449821--449855	2	18.0	2	94	5	63	51	0	0	48	1.00
457316--457375	29	2.1	29	87	0	84	41	0	5	53	1.23
459138--459263	50	2.5	50	81	0	135	18	34	26	19	1.95
459386--459425	10	4.0	10	84	12	55	32	27	0	40	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
459552--459768	111	2.0	108	88	4	321	35	8	10	45	1.68
464840--464886	2	23.5	2	100	0	94	48	0	0	51	1.00
479125--479166	14	3.0	14	85	0	57	11	14	19	54	1.70
480234--480297	16	4.0	16	91	0	110	9	12	21	56	1.64
480227--480301	10	7.7	10	71	21	61	10	13	20	56	1.66
480367--480399	16	2.1	16	94	0	57	9	12	24	54	1.66
486363--486398	17	2.2	17	90	5	56	44	8	11	36	1.70
486549--486666	43	2.7	43	84	2	148	22	5	21	50	1.69
490155--490449	57	5.4	52	72	12	170	16	19	19	44	1.87
490022--490488	108	4.4	107	72	11	325	18	20	19	41	1.90

Tables:   1   2   3   4   5