genome.fa.s761.2.7.7.80.10.50.1000.19.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: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5609167

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  19  of  23  ( 2686 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)
4623034--4623177	64	2.2	65	81	8	161	27	18	24	29	1.98
4623055--4623192	64	2.2	64	82	10	158	27	18	22	31	1.97
4623205--4623242	20	1.9	20	94	0	67	18	15	34	31	1.92
4623491--4623548	27	2.2	26	90	3	89	36	6	0	56	1.26
4624244--4624283	20	2.0	20	85	0	53	67	2	10	20	1.31
4626769--4626809	18	2.3	18	86	0	55	12	24	21	41	1.87
4632311--4632344	18	1.9	17	88	5	50	67	11	8	11	1.42
4634417--4634461	6	7.5	6	94	0	63	35	42	0	22	1.54
4636218--4636301	42	2.0	42	95	0	150	36	19	14	29	1.91
4643061--4643109	12	4.1	12	78	7	55	26	14	4	55	1.57
4643053--4643105	24	2.1	25	83	13	65	28	11	3	56	1.51
4645840--4645888	20	2.5	20	100	0	98	28	10	20	40	1.85
4651812--4651843	10	3.2	10	100	0	64	18	21	9	50	1.75
4654856--4654916	23	2.7	23	94	0	113	27	27	27	16	1.97
4661741--4661811	3	23.7	3	86	11	65	29	7	0	63	1.21
4667854--4667946	6	15.7	6	71	14	52	74	0	22	3	0.96
4667829--4667946	24	4.9	24	72	20	95	72	0	22	5	1.03
4667883--4667942	16	3.6	17	80	15	63	73	0	25	1	0.93
4667856--4667934	31	2.6	31	78	7	90	75	0	20	3	0.95
4667856--4667943	32	2.8	32	75	14	85	75	0	21	3	0.95
4667854--4667937	23	3.5	25	72	18	72	75	0	21	3	0.96
4667893--4667946	9	6.0	9	79	18	51	72	0	25	1	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4669427--4670421	45	22.4	45	78	5	963	22	15	20	41	1.90
4670000--4670070	36	2.0	36	91	0	115	21	18	26	33	1.96
4669961--4670114	81	1.9	81	84	0	209	22	17	22	37	1.94
4671235--4671599	132	2.8	131	79	5	407	30	20	18	30	1.96
4672159--4672190	15	2.1	15	94	0	55	37	15	0	46	1.46
4675103--4675147	21	2.1	21	87	0	63	44	0	4	51	1.21
4693778--4693808	10	3.1	10	90	0	53	58	0	0	41	0.98
4693835--4693951	56	2.1	57	93	1	200	28	17	23	31	1.96
4695981--4696018	20	1.9	20	84	10	51	55	2	13	28	1.51
4697474--4698083	80	7.3	81	80	7	575	23	18	22	35	1.96
4697438--4698083	85	7.7	85	82	2	665	24	18	22	35	1.96
4698156--4698384	121	1.9	122	88	2	354	22	14	26	36	1.93
4698347--4698512	65	2.6	62	90	4	246	24	15	22	36	1.93
4698464--4698933	159	3.0	157	83	6	575	26	16	22	35	1.94
4699214--4699262	25	2.0	25	83	0	62	30	26	12	30	1.92
4702251--4702284	18	1.9	17	88	5	50	73	0	8	17	1.08
4703349--4703386	20	1.9	20	84	10	51	55	2	13	28	1.51
4703625--4703946	21	15.4	20	79	10	95	22	18	20	39	1.92
4703644--4704034	42	9.3	42	80	6	243	23	17	19	40	1.91
4703687--4704030	105	3.3	105	83	4	419	22	17	18	40	1.91
4703672--4704037	147	2.5	147	90	1	565	23	17	18	40	1.91
4703687--4704030	63	5.5	62	77	8	198	22	17	18	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4704123--4704147	6	4.2	6	100	0	50	36	48	16	0	1.46
4704759--4704830	21	3.4	21	70	14	76	37	19	19	23	1.94
4704756--4704889	42	3.2	42	92	2	218	36	22	18	22	1.95
4704780--4704895	21	5.6	21	71	11	87	35	23	19	21	1.96
4704931--4705086	21	7.5	21	67	16	74	31	23	22	23	1.98
4704910--4705098	104	1.8	104	94	0	333	33	20	22	24	1.97
4705326--4705403	30	2.6	30	78	10	79	66	0	2	30	1.05
4705385--4705411	3	9.0	3	100	0	54	66	0	0	33	0.92
4708230--4708291	17	3.6	17	84	4	70	45	3	9	41	1.53
4708336--4708407	20	3.5	20	78	1	72	47	1	5	45	1.34
4708380--4708439	31	2.0	30	84	15	79	48	0	3	48	1.18
4708450--4708503	9	5.9	9	84	4	54	35	0	1	62	1.06
4708446--4708504	12	4.6	13	74	18	52	33	0	3	62	1.12
4708447--4708516	21	3.4	21	74	18	67	34	0	1	64	1.03
4708447--4708517	28	2.5	28	84	6	81	33	0	1	64	1.02
4708475--4708517	9	4.7	9	82	5	50	30	0	0	69	0.88
4710958--4710992	5	6.8	5	87	6	52	77	0	2	20	0.90
4711353--4711489	46	3.0	46	85	7	174	40	10	9	38	1.73
4712291--4712334	18	2.4	18	85	11	54	34	18	20	27	1.96
4712307--4712460	64	2.4	63	90	5	231	30	17	22	29	1.97
4712465--4712522	20	2.9	20	97	0	107	25	20	27	25	1.99
4715097--4715160	24	2.9	21	72	17	58	28	18	21	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4715037--4715160	45	2.8	42	78	11	124	23	22	25	28	1.99
4721340--4721386	19	2.5	19	100	0	94	17	23	29	29	1.97
4721292--4721448	83	1.9	82	85	6	219	27	18	24	29	1.98
4721470--4721507	20	1.9	20	88	0	58	23	18	28	28	1.98
4728611--4728640	14	2.2	13	94	5	51	70	6	6	16	1.31
4734896--4734930	13	2.6	13	86	4	52	57	11	2	28	1.48
4735047--4735126	23	3.5	22	81	5	79	27	40	10	22	1.86
4735331--4735363	16	2.1	16	100	0	66	51	6	6	36	1.51
4736296--4736331	6	5.6	7	90	9	51	63	0	0	36	0.94
4736296--4736331	13	2.8	13	91	4	56	63	0	0	36	0.94
4737917--4737955	3	13.0	3	88	0	60	61	0	2	35	1.10
4738370--4738684	85	3.7	85	81	5	300	25	19	20	34	1.96
4738370--4738678	170	1.8	169	82	7	394	25	18	21	34	1.96
4743666--4743776	58	1.9	59	81	9	138	60	9	11	18	1.57
4743957--4744086	41	3.2	41	61	20	99	50	16	10	22	1.75
4743952--4744116	82	2.0	82	100	0	330	50	16	10	21	1.76
4745275--4745316	3	14.0	3	94	0	66	61	0	4	33	1.17
4754661--4754757	21	4.6	21	74	3	70	35	13	11	40	1.80
4756378--4756516	32	4.4	32	81	8	151	29	16	19	34	1.94
4763426--4763756	165	2.0	165	98	1	637	35	19	15	29	1.92
4764504--4764549	24	1.9	25	86	8	69	50	4	4	41	1.42
4772609--4772640	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4779650--4779674	12	2.1	12	100	0	50	36	16	16	32	1.90
4780478--4780510	17	1.9	17	93	0	57	36	30	15	18	1.91
4780907--4781123	95	2.3	96	86	2	294	31	18	16	33	1.93
4784969--4785018	25	2.0	25	96	0	91	34	28	14	24	1.93
4785907--4785970	29	2.2	29	82	0	74	20	40	26	12	1.88
4785928--4785986	29	2.0	29	90	0	91	22	33	35	8	1.84
4786203--4786289	29	3.0	29	84	0	120	14	29	39	16	1.88
4795001--4795032	6	5.3	6	100	0	64	15	18	15	50	1.79
4799320--4799366	25	1.9	24	82	4	58	46	6	4	42	1.48
4799549--4799573	11	2.3	11	100	0	50	0	8	0	92	0.40
4809635--4809679	21	2.1	22	87	4	65	66	4	0	28	1.11
4810015--4810046	14	2.1	16	88	11	50	37	0	3	59	1.13
4811618--4811654	3	12.3	3	100	0	74	67	0	32	0	0.91
4811775--4811811	15	2.5	15	90	0	56	10	37	2	48	1.52
4812859--4813249	42	9.4	42	79	6	350	29	18	24	27	1.98
4812859--4813205	124	2.8	124	80	6	355	29	18	23	27	1.98
4812878--4813249	166	2.2	166	86	2	505	29	18	25	26	1.98
4812900--4813205	84	3.7	84	82	4	386	29	18	24	27	1.98
4818171--4818215	19	2.4	19	96	0	81	15	13	28	42	1.85
4820552--4820592	18	2.3	18	86	0	55	26	17	0	56	1.41
4820831--4820903	28	2.6	28	88	0	110	34	26	16	23	1.95
4821309--4821356	15	3.5	15	69	30	52	31	8	25	35	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4821927--4821957	4	7.8	4	100	0	62	51	22	0	25	1.48
4823344--4823377	16	2.1	17	88	5	52	41	17	2	38	1.65
4826268--4826301	18	1.9	18	94	5	61	17	17	0	64	1.29
4826269--4826310	17	2.4	18	84	11	52	21	16	0	61	1.34
4832260--4832299	21	1.9	21	89	0	62	47	7	37	7	1.60
4832888--4832978	44	2.1	44	83	8	114	29	20	16	32	1.95
4835210--4835241	3	10.7	3	100	0	64	0	34	0	65	0.93
4835878--4835953	29	2.6	29	78	14	75	26	30	13	30	1.94
4839427--4839493	34	2.0	33	85	8	91	61	13	2	22	1.46
4839532--4839575	13	3.4	13	80	0	52	70	13	2	13	1.26

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23