genome.fa.s8053.2.7.7.80.10.50.1000.25.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   

This is table  25  of  32  ( 3749 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)
5026237--5026315	29	2.7	28	88	3	104	24	25	36	13	1.92
5030250--5030662	54	7.6	54	81	12	281	51	12	0	35	1.43
5030316--5030390	22	3.2	23	75	17	82	54	17	0	28	1.43
5030362--5030608	32	8.7	32	73	24	257	51	11	0	35	1.44
5030450--5030498	22	2.2	22	85	3	62	55	12	0	32	1.37
5030416--5030608	86	2.2	86	97	0	359	51	11	1	35	1.46
5030588--5030630	22	2.0	22	90	0	68	51	9	0	39	1.34
5030470--5030746	86	3.2	85	83	12	281	51	13	0	33	1.47
5030265--5030746	80	5.9	80	75	15	294	51	13	0	34	1.45
5030698--5030808	32	3.8	32	71	22	107	52	16	0	31	1.44
5030726--5030768	22	2.0	22	95	0	77	51	11	0	37	1.39
5030260--5030842	80	7.2	79	75	15	286	51	13	0	34	1.44
5030728--5030776	22	2.2	22	85	3	62	55	12	0	32	1.37
5030345--5030800	54	8.3	54	74	19	399	51	12	0	34	1.44
5030995--5031134	22	6.5	22	71	17	98	51	6	0	42	1.27
5031083--5031167	15	5.3	15	69	20	57	47	3	0	49	1.18
5030985--5031151	37	4.7	37	77	8	175	52	5	0	41	1.24
5035966--5036039	22	3.1	24	78	9	62	45	1	0	52	1.09
5035963--5036028	26	2.6	26	79	13	68	50	1	0	48	1.10
5036000--5036046	22	2.1	23	88	4	69	44	2	0	53	1.12
5036114--5036218	27	3.9	28	73	15	78	49	1	0	47	1.18
5036233--5036277	23	2.0	23	86	0	63	53	2	2	42	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5039639--5039666	11	2.5	11	100	0	56	17	28	28	25	1.98
5060285--5060399	57	2.0	57	100	0	230	39	5	15	40	1.70
5065827--5065883	19	2.8	21	73	7	55	75	3	3	17	1.09
5067478--5068467	106	9.3	106	92	0	1604	23	18	24	33	1.97
5067478--5068467	531	1.9	530	92	0	1667	23	18	24	33	1.97
5075598--5075699	52	2.0	52	84	3	134	37	2	3	55	1.33
5076182--5076249	29	2.2	32	85	10	90	57	1	4	36	1.28
5077448--5077716	137	2.0	134	91	4	434	31	10	18	39	1.84
5077912--5077964	26	2.1	24	83	13	63	45	0	1	52	1.11
5078129--5078156	6	4.7	6	100	0	56	17	64	0	17	1.30
5080498--5080725	90	2.7	85	79	8	266	21	42	9	26	1.84
5080560--5080732	90	1.9	90	91	0	283	23	39	10	26	1.87
5087895--5087946	23	2.3	23	100	0	104	19	9	15	55	1.67
5095387--5096111	182	4.0	182	87	2	1008	44	12	15	27	1.83
5107801--5107963	87	1.9	87	92	0	272	31	14	11	41	1.82
5107885--5107929	23	2.0	23	95	0	81	37	20	8	33	1.83
5112425--5112476	24	2.2	24	96	0	95	36	5	30	26	1.80
5122224--5122332	31	3.5	31	76	17	84	52	6	1	39	1.38
5122273--5122334	31	2.0	32	87	3	90	54	1	3	40	1.26
5129449--5129625	60	2.9	61	78	10	186	46	5	19	29	1.71
5131563--5131647	31	2.7	31	92	0	143	18	12	28	40	1.88
5132812--5132867	22	2.5	23	85	5	71	39	1	1	57	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5144931--5144974	18	2.4	18	92	0	70	45	18	2	34	1.62
5144939--5144979	21	2.0	21	95	0	73	48	14	0	36	1.44
5155366--5155561	56	3.5	56	83	3	173	30	15	12	41	1.84
5155363--5155537	56	3.1	55	84	4	199	32	16	13	38	1.86
5155386--5155561	56	3.1	56	82	9	189	30	14	12	42	1.83
5155916--5155971	28	2.0	28	92	0	94	28	17	3	50	1.63
5155923--5155979	28	2.1	27	84	9	73	29	17	3	49	1.63
5159580--5159671	2	46.0	2	100	0	184	50	0	0	50	1.00
5162945--5163206	135	1.9	135	87	1	382	25	18	25	30	1.98
5177164--5177211	19	2.6	18	80	16	53	52	2	2	43	1.24
5180426--5180472	23	2.0	24	87	8	69	53	4	0	42	1.20
5180426--5180482	24	2.5	23	75	16	64	52	3	0	43	1.18
5181657--5181723	17	3.8	17	88	7	107	46	4	7	41	1.52
5195384--5195419	17	2.0	19	89	10	58	44	5	11	38	1.63
5195545--5195653	31	3.5	31	80	3	105	23	18	22	34	1.96
5195568--5195674	31	3.5	30	79	6	90	24	18	24	32	1.97
5198995--5199156	64	2.5	63	84	8	186	34	17	20	27	1.95
5199032--5199156	64	1.9	65	88	6	191	35	16	20	28	1.94
5199817--5199925	31	3.5	31	78	3	96	23	17	22	35	1.95
5199871--5199946	30	2.5	30	82	2	89	19	19	26	34	1.96
5200062--5200092	16	1.9	16	93	0	53	54	6	22	16	1.64
5202538--5202844	3	105.0	3	92	6	524	67	0	32	0	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5202538--5203074	6	89.7	6	85	7	178	55	0	44	0	1.01
5202843--5203072	3	78.0	3	89	6	319	37	0	61	0	0.99
5205061--5205088	2	14.0	2	100	0	56	50	0	0	50	1.00
5213463--5213527	26	2.5	26	79	0	76	44	1	4	49	1.32
5217246--5217388	64	2.2	65	79	4	157	32	19	23	24	1.97
5218851--5218917	23	2.9	23	84	0	89	17	25	25	31	1.97
5222735--5223005	64	4.2	64	76	11	229	27	17	19	35	1.94
5227001--5227276	64	4.2	62	75	15	222	26	18	20	35	1.95
5227081--5227231	72	2.1	72	85	4	198	26	16	20	36	1.94
5227145--5227181	16	2.2	18	85	9	51	24	18	24	32	1.97
5230377--5230461	24	3.4	24	70	17	82	48	8	21	22	1.76
5230381--5230481	52	1.9	52	97	0	193	43	6	23	25	1.79
5234697--5235099	201	2.0	201	100	0	806	31	17	27	23	1.97
5236579--5236619	17	2.4	17	88	8	57	34	2	0	63	1.08
5236587--5236620	18	1.9	18	94	5	61	35	0	0	64	0.94
5239804--5239851	2	24.0	2	100	0	96	50	0	0	50	1.00
5241927--5242736	209	3.8	210	88	4	1130	50	8	12	29	1.68
5242776--5242840	20	3.2	20	85	8	96	47	4	4	43	1.44
5242803--5242869	31	2.2	31	83	0	80	46	2	7	43	1.47
5242835--5242895	27	2.2	28	82	2	70	49	6	6	37	1.55
5242935--5242969	11	3.2	11	87	0	52	51	2	2	42	1.31
5243125--5243171	13	3.4	13	78	16	58	36	6	0	57	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5243123--5243175	17	3.4	17	78	19	62	35	5	0	58	1.22
5243125--5243173	15	3.3	15	78	16	66	36	6	0	57	1.24
5243230--5243306	18	3.9	18	76	18	82	41	9	7	41	1.65
5243185--5243306	42	2.8	42	85	8	149	42	8	8	40	1.64
5243333--5243449	2	56.5	2	68	18	62	42	5	3	47	1.44
5243307--5243424	51	2.2	51	86	5	155	40	7	5	46	1.54
5243339--5243452	51	2.2	50	84	6	140	42	7	3	47	1.47
5243523--5243590	7	10.0	7	76	17	54	51	2	4	41	1.37
5243550--5243713	18	8.9	18	69	13	84	44	7	4	43	1.53
5243546--5243608	7	9.4	7	78	15	53	49	3	4	42	1.39
5243522--5243610	2	44.0	2	72	18	69	50	3	4	41	1.39
5243603--5243713	33	3.6	32	70	18	110	42	9	5	43	1.59
5243497--5243710	58	3.7	58	76	11	199	45	7	5	42	1.54
5243690--5243742	26	2.0	26	89	7	81	47	3	1	47	1.31
5245908--5246024	60	2.0	59	83	11	150	35	15	5	44	1.69
5246444--5246474	16	1.9	16	100	0	62	38	12	25	22	1.90
5248987--5249019	2	17.0	2	93	6	59	51	0	0	48	1.00
5249337--5249363	2	13.5	2	100	0	54	48	0	0	51	1.00
5254909--5254934	2	13.0	2	100	0	52	50	0	0	50	1.00
5257487--5257528	16	2.6	16	96	3	75	47	0	0	52	1.00
5259673--5259715	3	14.3	3	90	0	50	23	0	41	34	1.55
5259672--5259715	15	2.9	15	93	0	70	22	0	43	34	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5259672--5259722	18	2.8	18	87	0	75	21	1	43	33	1.64
5260652--5260768	58	2.0	58	100	0	234	24	30	18	25	1.98
5267295--5267391	40	2.4	39	80	13	115	38	15	11	35	1.83
5268570--5268703	4	33.5	4	100	0	268	24	0	25	50	1.50
5269125--5269366	123	2.0	121	92	7	417	35	16	17	31	1.92
5286264--5286364	33	3.1	32	80	12	98	12	50	11	24	1.74
5286306--5286378	33	2.2	33	90	0	110	17	52	12	17	1.75
5290510--5290545	14	2.6	14	86	0	54	41	11	0	47	1.39
5294673--5294742	32	2.2	32	94	0	122	44	12	21	21	1.85
5300058--5300120	27	2.6	23	73	22	56	50	1	3	44	1.27

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32