genome.fa.s9628.2.7.7.80.10.50.1000.2.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: VEPZ01009628.1 Hibiscus syriacus cultivar Beakdansim tig00117021_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2284295

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  2  of  10  ( 1154 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)
255705--255741	18	2.1	18	90	10	58	78	5	16	0	0.93
283434--283487	10	5.0	10	77	16	54	9	9	24	57	1.59
283419--283474	14	4.3	14	78	17	75	7	12	26	53	1.64
283406--283484	24	3.3	24	89	0	113	8	12	24	54	1.66
283406--283494	24	3.7	24	86	0	106	10	11	22	56	1.64
283848--283905	10	5.6	10	73	15	55	10	10	20	58	1.60
283853--283901	16	3.1	16	93	0	89	8	12	22	57	1.61
283970--284002	16	2.1	16	100	0	66	6	12	24	57	1.57
287980--288022	22	2.0	22	90	0	68	30	37	25	6	1.82
289474--289795	103	3.1	103	97	0	617	27	13	22	36	1.91
289811--289871	23	2.7	23	89	0	95	19	26	27	26	1.99
295718--295753	18	2.0	18	88	0	54	61	13	5	19	1.52
302603--302636	17	2.0	17	88	0	50	32	0	2	64	1.08
312741--312903	60	2.7	59	81	6	168	41	4	21	31	1.74
312942--312968	14	1.9	14	100	0	54	0	11	0	88	0.50
314912--315142	36	6.6	36	92	5	332	27	22	29	21	1.99
316633--316689	29	2.0	29	89	0	87	15	24	19	40	1.90
319282--319311	12	2.6	11	90	10	51	33	10	0	56	1.32
323103--323151	25	2.0	25	84	8	64	65	2	4	28	1.22
327140--327196	29	1.9	30	92	7	98	43	7	21	28	1.78
333478--333531	28	2.0	26	85	7	72	51	1	1	44	1.22
339204--339248	22	2.0	22	82	4	54	33	33	26	6	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
340808--340874	23	2.9	23	81	0	71	23	26	22	26	2.00
342822--342942	31	3.8	32	77	9	124	28	16	20	34	1.94
343060--343123	10	5.9	10	74	15	56	25	10	12	51	1.72
343048--343136	22	4.0	22	92	1	124	23	13	14	48	1.79
343479--343546	34	2.0	34	82	5	84	47	13	4	35	1.63
344203--344263	24	2.6	23	82	10	70	52	4	1	40	1.33
349906--349935	15	2.0	15	93	0	51	13	16	60	10	1.59
351024--351348	162	2.0	163	95	0	589	28	20	21	29	1.98
353155--353249	29	3.4	28	95	4	174	29	15	7	47	1.73
354679--354735	29	2.0	29	89	6	89	15	17	17	49	1.81
354840--354868	2	14.5	2	100	0	58	48	0	0	51	1.00
355275--355300	2	13.0	2	100	0	52	50	0	0	50	1.00
355499--355576	31	2.5	31	87	2	113	53	8	11	25	1.66
355887--355924	18	2.0	19	90	10	60	65	7	0	26	1.19
355898--355935	18	2.2	17	86	13	51	65	2	0	31	1.06
356082--356117	18	2.0	18	100	0	72	38	16	11	33	1.84
360477--360515	20	2.0	20	94	0	69	30	25	7	35	1.84
364253--364322	19	3.6	19	71	9	61	38	1	2	57	1.23
372702--372752	26	2.0	27	88	7	79	39	7	25	27	1.83
377842--378290	229	2.0	227	94	1	783	45	8	7	39	1.62
378520--378566	20	2.4	19	89	10	76	55	10	17	17	1.69
378524--378571	20	2.6	18	84	15	62	56	10	14	18	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
380801--380865	21	3.1	21	80	6	69	40	15	29	15	1.88
380899--380964	33	2.0	33	90	0	105	28	0	48	22	1.51
381980--382028	19	2.6	19	93	0	80	30	2	10	57	1.43
382149--383320	199	5.9	199	98	0	2267	36	16	15	30	1.90
382149--383320	397	2.9	398	98	0	2267	36	16	15	30	1.90
384793--384867	3	25.0	3	79	0	69	34	6	34	24	1.81
384781--384867	30	2.9	30	85	0	120	34	8	34	22	1.84
386064--386574	183	2.8	183	98	0	968	36	13	16	34	1.88
386570--386612	22	1.9	23	90	4	70	30	11	13	44	1.80
389718--389781	23	2.8	23	87	0	92	35	6	20	37	1.78
389718--389790	23	3.2	23	82	7	85	34	5	20	39	1.76
390146--390209	23	2.8	23	87	0	92	35	6	20	37	1.78
390146--390218	23	3.2	23	82	7	85	34	5	20	39	1.76
390487--390537	25	2.0	25	92	0	84	33	7	19	39	1.81
390786--390822	18	2.1	18	89	0	56	32	5	10	51	1.60
390778--390824	24	2.0	24	86	0	67	34	4	14	46	1.64
391081--391206	39	3.2	39	97	0	234	48	20	13	17	1.81
391609--391672	23	2.8	23	87	0	92	35	6	20	37	1.78
391609--391681	23	3.2	23	82	7	85	34	5	20	39	1.76
392698--392736	18	2.2	18	86	4	53	51	7	0	41	1.31
397628--397675	24	2.0	24	87	0	69	56	4	6	33	1.44
402627--402743	42	2.8	42	96	0	207	20	21	22	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
402598--402736	21	6.6	21	75	12	115	21	20	25	32	1.98
403450--403523	21	3.6	21	76	7	80	33	25	20	20	1.97
403580--403634	21	2.6	21	94	0	92	30	27	21	20	1.98
403479--403657	90	2.0	90	83	6	229	32	18	22	25	1.97
403490--403785	111	2.7	111	92	1	504	31	19	23	25	1.98
403691--403745	21	2.6	21	91	0	83	34	25	20	20	1.96
404717--404766	24	2.1	24	85	7	66	34	0	6	60	1.21
423356--423484	63	2.1	60	80	9	136	41	6	6	44	1.56
423873--423974	48	2.1	49	96	1	188	45	16	18	19	1.86
435003--435140	20	6.8	20	68	7	89	18	21	23	36	1.94
435003--435140	41	3.4	41	91	2	215	18	21	23	36	1.94
435031--435140	20	5.4	20	71	8	96	15	21	24	38	1.92
435171--435325	20	7.6	20	72	9	134	38	25	22	14	1.92
435149--435305	21	7.6	21	67	18	96	36	26	21	15	1.93
435137--435350	41	5.2	41	90	3	315	37	24	21	15	1.93
435168--435350	82	2.2	82	98	0	348	37	25	21	16	1.93
435232--435347	21	5.6	21	70	8	94	35	25	20	18	1.95
435383--435488	20	5.2	20	67	12	63	35	26	19	17	1.95
435390--435492	41	2.5	41	93	0	170	37	26	19	16	1.92
435232--435528	142	2.1	143	89	3	474	34	23	22	19	1.97
444469--444504	12	3.0	12	95	0	63	22	2	66	8	1.31
445807--445909	36	2.9	36	98	0	197	41	17	17	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
449921--449946	4	6.5	4	100	0	52	76	0	0	23	0.78
451968--452026	31	1.9	31	92	0	100	30	1	25	42	1.65
452345--452425	25	3.3	25	79	10	94	23	22	22	32	1.98
452343--452419	24	3.2	24	80	10	93	24	22	22	31	1.98
453699--453757	31	1.9	31	92	0	100	30	1	25	42	1.65
454299--454529	15	15.5	15	88	3	324	48	0	2	48	1.13
454522--454578	18	3.4	18	69	18	59	29	0	12	57	1.35
454314--454947	75	7.9	79	77	14	330	38	0	9	51	1.34
454511--454835	32	10.3	32	74	18	229	33	0	12	54	1.38
454563--454605	22	2.0	22	100	0	86	34	0	13	51	1.42
454535--454947	54	7.5	54	76	13	314	33	0	12	53	1.39
454511--454803	86	3.5	83	85	8	341	34	0	11	53	1.38
454535--454947	198	2.1	188	92	5	684	33	0	12	53	1.39
454466--454932	80	5.7	80	73	19	280	34	0	11	53	1.38
454895--454937	22	2.0	22	100	0	86	34	0	13	51	1.42
454962--455020	31	1.9	31	92	0	100	42	10	6	40	1.65
475261--475287	4	6.8	4	100	0	54	25	0	0	74	0.83
489461--489506	23	2.0	23	95	0	83	34	10	28	26	1.90
489464--489513	23	2.2	23	85	0	64	36	10	36	18	1.84
490486--490565	29	2.5	33	76	21	96	43	11	6	38	1.66
490498--490597	29	3.3	30	85	4	130	42	13	7	38	1.71
495211--495250	21	1.9	21	85	10	55	55	17	0	27	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
496219--496511	51	5.5	55	82	6	275	29	24	16	29	1.97
496219--496530	111	2.9	106	78	8	262	29	24	16	29	1.96
496310--496530	51	4.2	51	87	5	284	30	24	14	29	1.95
496528--496601	37	2.0	38	89	2	114	24	20	17	37	1.93
497866--497928	31	2.0	32	82	14	78	9	14	0	76	1.02
497865--497911	15	2.9	16	78	15	53	12	12	0	74	1.07
497877--497929	24	2.2	24	86	6	72	9	11	0	79	0.94
497885--497944	24	2.6	23	86	7	77	5	16	1	76	1.04
497950--498040	9	9.9	9	69	13	51	7	15	0	76	0.99
504032--504077	21	2.2	21	96	0	83	32	26	6	34	1.82

Tables:   1   2   3   4   5   6   7   8   9   10