genome.fa.s8113.2.7.7.80.10.50.1000.2.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: VEPZ01008113.1 Hibiscus syriacus cultivar Beakdansim tig00110652_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  992058

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 576 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)
164701--164861	64	2.5	63	81	5	180	26	21	16	35	1.94
170970--171033	23	2.8	22	80	4	65	26	25	25	23	2.00
171041--171266	103	2.2	103	94	0	389	38	24	12	24	1.91
171715--171842	64	2.0	67	87	7	192	27	17	19	35	1.95
171727--171887	64	2.5	62	82	8	171	27	19	18	34	1.95
178301--178348	2	24.0	2	100	0	96	50	0	0	50	1.00
183343--183373	15	2.1	15	100	0	62	38	16	19	25	1.92
216540--216584	12	3.7	12	80	14	56	71	4	4	20	1.21
216538--216584	25	2.0	24	91	8	78	70	4	4	21	1.22
216539--216589	24	2.2	23	86	10	68	72	3	5	17	1.20
233714--233847	36	3.8	35	85	3	187	20	23	20	35	1.96
237310--237348	16	2.5	16	87	4	53	35	5	23	35	1.77
237418--237460	23	1.9	22	90	4	68	30	16	11	41	1.83
239694--240212	254	2.0	255	91	1	837	26	17	12	42	1.85
248217--248264	17	2.8	17	87	3	60	25	16	27	31	1.97
257334--257374	18	2.3	18	91	4	66	29	4	2	63	1.28
262284--262333	13	4.0	13	92	2	77	18	48	22	12	1.80
262284--262333	25	2.0	25	88	7	75	18	48	22	12	1.80
264439--264500	29	2.1	29	84	0	79	22	6	11	59	1.54
264448--264503	29	1.9	29	96	0	103	17	5	12	64	1.45
266836--266886	25	2.0	25	92	0	84	17	7	45	29	1.77
273852--273891	21	2.0	20	95	5	71	35	10	22	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
288962--288996	16	2.2	16	100	0	70	34	34	14	17	1.90
310840--310878	17	2.4	17	91	4	62	43	0	2	53	1.14
310833--310917	39	2.2	36	80	10	89	45	0	3	50	1.18
311152--311182	10	3.0	10	95	4	53	87	0	3	9	0.66
311400--311431	17	1.9	17	93	6	57	28	0	15	56	1.40
311475--311542	29	2.4	28	83	11	86	22	7	7	63	1.45
319829--319883	18	3.1	18	77	12	51	58	0	1	40	1.09
329438--329504	19	3.6	18	73	13	55	71	2	13	11	1.25
331774--332036	106	2.5	106	87	0	382	23	18	25	31	1.97
332524--332562	14	2.8	14	96	0	69	25	10	23	41	1.86
333172--333214	7	6.0	7	87	12	61	0	13	2	83	0.74
333172--333214	15	3.0	14	87	12	61	0	13	2	83	0.74
333163--333214	8	6.5	8	78	12	54	0	15	1	82	0.75
333163--333215	23	2.4	21	85	11	79	0	16	1	81	0.79
343904--344018	32	4.1	28	69	15	78	58	0	4	36	1.24
343978--344030	2	27.0	2	96	3	99	50	0	0	49	1.00
344108--344144	17	2.2	16	90	4	56	56	2	0	40	1.13
348637--348768	59	2.3	59	86	1	185	48	2	8	40	1.46
349006--349168	87	1.9	87	92	0	272	41	10	14	33	1.79
349193--349880	198	3.5	199	81	6	800	30	15	14	39	1.87
352962--353001	21	1.9	21	89	0	62	10	25	40	25	1.86
360900--362069	200	5.8	200	92	2	1866	31	15	13	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
362449--362499	24	2.1	24	85	0	66	47	19	3	29	1.68
365324--366477	400	2.9	397	85	2	1564	32	15	13	37	1.87
365324--366483	199	5.8	198	84	2	1410	32	15	13	38	1.87
369522--370376	182	4.7	182	88	2	1155	27	16	14	42	1.86
370980--371081	51	2.0	51	98	0	195	45	0	5	48	1.33
382346--382433	29	3.0	29	76	6	88	36	1	6	55	1.34
397985--398012	2	14.0	2	100	0	56	50	0	0	50	1.00
400802--400827	2	13.0	2	100	0	52	50	0	0	50	1.00
416036--416066	5	6.4	5	96	3	55	0	41	22	35	1.54
416067--416093	6	4.5	6	100	0	54	0	14	51	33	1.43
416186--416267	21	3.8	21	75	15	87	39	21	19	19	1.93
416179--416276	42	2.3	42	92	0	169	36	22	19	21	1.95
416179--416282	21	4.9	20	72	15	86	36	22	20	21	1.95
416357--416400	19	2.3	19	100	0	88	25	20	22	31	1.98
416785--417168	181	2.1	183	88	4	573	43	3	7	46	1.48
417229--417300	29	2.4	30	93	2	119	36	25	15	23	1.94
422064--422145	30	2.8	30	84	1	94	32	30	19	17	1.95
422121--422215	31	3.1	31	80	3	111	34	21	17	26	1.95
426307--426401	31	3.1	32	77	6	106	34	20	17	27	1.95
426535--426572	19	2.0	19	85	10	51	39	10	5	44	1.61
427273--427327	22	2.5	23	88	8	80	34	23	9	32	1.86
428188--428468	144	2.0	144	86	1	393	13	29	14	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
431423--431504	41	2.0	41	92	0	137	42	17	15	24	1.88
431604--431687	36	2.3	36	87	6	125	46	13	9	30	1.74
431613--431682	18	3.9	18	96	1	124	45	15	8	30	1.76
432728--432761	16	2.2	16	89	5	52	61	5	5	26	1.42
434872--434910	12	3.4	11	86	10	51	48	0	0	51	1.00
434892--434935	21	2.1	21	91	4	72	36	0	0	63	0.95
434880--434938	20	2.7	22	76	15	68	38	0	0	61	0.96
438764--438808	23	2.0	21	87	8	63	48	4	8	37	1.55
439203--439239	18	2.1	17	95	5	65	21	10	35	32	1.88
440541--440747	54	3.8	54	83	0	243	34	15	13	36	1.87
440541--440746	108	1.9	108	85	0	286	34	15	13	36	1.86
444673--444991	54	5.9	54	88	2	426	31	17	17	33	1.93
448523--448574	27	1.9	27	96	0	95	19	13	7	59	1.58
448528--448585	27	2.1	27	87	0	80	20	12	12	55	1.68
449975--450023	19	2.6	19	81	12	57	32	8	0	59	1.27
450515--450552	20	1.9	20	94	0	67	23	23	36	15	1.94
450572--450625	20	2.8	20	82	2	74	20	24	33	22	1.97
450572--450616	19	2.3	19	84	3	54	20	24	33	22	1.97
450847--450886	21	1.9	21	94	0	71	50	7	10	32	1.64
452375--452414	21	1.9	21	90	10	64	55	5	7	32	1.50
456223--456281	23	2.6	23	86	7	86	25	25	20	28	1.99
458275--458321	19	2.5	19	86	3	60	25	0	23	51	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
458970--459007	20	1.9	20	94	0	67	28	31	26	13	1.93
461026--461062	14	2.5	16	83	16	53	8	27	0	64	1.21
461032--461062	15	2.1	15	94	5	55	6	29	0	64	1.18
462435--462472	20	1.9	20	94	0	67	23	23	36	15	1.94
479757--479812	20	2.8	19	76	10	67	37	28	16	17	1.91
479757--479893	20	6.8	20	69	11	64	36	25	11	26	1.90
479757--479857	41	2.5	42	82	7	111	36	26	10	25	1.89
480066--480103	16	2.5	15	84	12	51	28	5	0	65	1.14
480672--480705	12	2.8	12	90	0	50	55	29	0	14	1.40
480831--480944	24	4.8	24	95	0	210	26	23	14	35	1.94
484956--485014	21	2.8	21	89	0	100	27	23	28	20	1.99
485354--485398	20	2.2	21	88	4	65	33	35	11	20	1.88
486951--487012	20	3.2	20	86	2	90	48	19	19	12	1.81
487018--487056	20	2.0	20	94	0	69	17	10	17	53	1.71
487020--487063	20	2.2	20	87	0	61	18	11	18	52	1.74
487391--487441	22	2.3	22	86	0	66	21	11	37	29	1.89
493775--493822	17	2.6	18	83	12	62	75	0	8	16	1.04
495052--495128	33	2.3	33	88	0	118	11	28	28	31	1.92
495222--495280	21	3.0	20	78	11	68	69	0	0	30	0.89
495222--495284	20	3.1	21	80	8	69	69	0	0	30	0.88
495287--495472	36	5.1	36	83	6	230	45	5	2	46	1.39
495287--495530	38	6.3	38	79	13	257	44	5	2	47	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495287--495472	73	2.5	74	89	0	266	45	5	2	46	1.39
495441--495520	23	3.4	23	96	3	142	46	3	0	50	1.19
496497--496978	230	2.1	230	85	2	646	28	13	21	36	1.91
501607--501659	24	2.2	24	80	10	63	73	0	7	18	1.06
501663--501719	30	1.9	30	88	0	87	54	7	10	28	1.60
502887--502951	26	2.5	26	72	2	69	72	0	0	27	0.85
502951--503173	36	6.4	35	77	14	214	43	8	2	45	1.45
503023--503079	25	2.4	24	91	5	89	45	7	0	47	1.30
502985--503115	61	2.2	59	95	2	235	44	6	2	46	1.42
503043--503153	37	3.0	37	87	7	181	45	7	0	45	1.37

Tables:   1   2   3   4   5