genome.fa.s1.2.7.7.80.10.50.1000.1.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: VEPZ01000001.1 Hibiscus syriacus cultivar Beakdansim tig00000002_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2159989

Tables:   1   2   3   4   5   6   7   8   

This is table  1  of  8  ( 891 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)
721--807	40	2.1	41	89	6	133	48	9	18	24	1.77
1310--1363	22	2.5	21	81	6	54	55	1	7	35	1.39
2371--2420	19	2.6	19	93	0	91	32	18	28	22	1.97
3532--3664	2	66.5	2	96	3	250	49	0	0	49	1.06
4083--4150	23	3.0	23	75	0	73	20	25	23	30	1.98
14192--14267	32	2.4	31	80	4	89	35	28	23	11	1.90
14404--14464	19	3.2	19	83	0	68	52	14	13	19	1.74
16276--16351	32	2.4	31	82	4	98	35	26	23	14	1.93
16497--16551	19	2.9	19	77	0	65	50	10	21	16	1.75
16535--16568	12	2.8	12	86	0	50	52	14	20	11	1.73
19691--19778	32	2.8	31	79	6	97	30	27	25	17	1.97
19914--19962	21	2.3	21	92	0	80	55	12	16	16	1.70
19925--20004	19	4.1	19	78	3	70	55	12	17	15	1.70
24465--24533	30	2.3	30	87	0	111	11	21	33	33	1.90
26391--26435	22	2.0	23	83	12	58	57	6	2	33	1.37
26632--26780	78	1.9	78	97	0	280	28	10	24	36	1.89
27592--27616	2	12.5	2	100	0	50	52	0	0	48	1.00
28600--28731	60	2.2	60	84	2	176	36	25	2	36	1.69
29988--30018	5	6.2	5	100	0	62	22	58	19	0	1.40
30675--30847	20	8.6	20	79	7	163	38	23	19	19	1.94
30633--30830	81	2.4	81	81	9	224	38	23	18	19	1.93
30675--30845	41	4.2	41	87	3	240	38	22	19	19	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
30903--30942	21	1.9	21	89	0	62	17	22	17	42	1.89
31821--31880	24	2.5	24	78	10	77	26	18	16	38	1.92
33677--33721	19	2.4	19	88	0	63	17	22	24	35	1.95
33724--33764	21	2.0	20	90	4	64	14	41	21	21	1.89
33765--33829	29	2.2	29	86	0	85	23	9	29	38	1.85
40881--40924	9	4.6	10	83	11	65	13	22	29	34	1.93
40880--40924	19	2.4	19	96	0	81	15	22	28	33	1.95
40890--40937	19	2.5	19	79	0	51	16	27	27	29	1.97
40937--40983	13	3.8	13	81	16	64	17	48	19	14	1.81
40991--41066	29	2.6	29	87	0	98	21	9	27	42	1.83
45687--45760	2	37.0	2	100	0	148	50	0	0	50	1.00
48974--49003	6	5.0	6	100	0	60	50	0	50	0	1.00
49713--49752	21	2.0	20	85	5	53	22	5	17	55	1.61
59358--59384	14	1.9	14	100	0	54	59	0	0	40	0.98
61275--61325	3	17.3	3	95	4	95	66	0	0	33	0.92
70961--71017	28	2.0	28	86	0	78	33	19	15	31	1.93
71484--71545	2	30.5	2	84	9	81	45	3	1	50	1.27
72019--72114	35	2.7	35	91	0	156	40	28	1	30	1.63
73308--73335	5	5.6	5	100	0	56	0	0	17	82	0.68
91541--91591	2	25.5	2	100	0	102	50	0	0	49	1.00
97128--97188	27	2.3	27	88	0	86	42	13	13	31	1.82
97138--97193	27	2.1	27	96	0	103	41	12	12	33	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
97223--97303	40	2.0	40	92	0	135	35	12	11	40	1.78
97282--97312	16	1.9	16	93	0	53	35	16	6	41	1.74
108529--108582	2	27.0	2	100	0	108	50	0	0	50	1.00
108783--108823	20	2.0	21	86	13	59	46	0	4	48	1.23
108787--108832	23	2.0	24	83	12	60	45	0	4	50	1.21
108783--108833	21	2.3	23	78	18	63	43	0	5	50	1.26
109136--109300	81	2.0	82	95	1	296	25	15	6	53	1.64
109335--109366	9	3.8	9	88	12	50	71	0	0	28	0.86
109412--110399	496	2.0	492	88	2	1473	35	15	18	30	1.92
113943--113968	5	5.2	5	100	0	52	0	19	57	23	1.40
115204--115246	20	2.2	20	91	0	68	30	25	23	20	1.99
121433--121477	23	2.0	23	86	8	65	40	2	2	55	1.24
121806--122114	156	2.0	156	100	0	618	28	24	13	32	1.94
122737--122802	33	2.0	33	90	0	105	21	16	6	56	1.62
125264--125359	46	2.1	46	86	5	133	37	20	20	20	1.95
125903--125947	21	2.1	22	87	4	65	51	6	15	26	1.68
126987--127044	23	2.5	23	91	0	89	18	25	24	31	1.98
126987--127052	23	2.9	23	88	0	69	19	24	22	33	1.97
128772--128827	29	2.1	28	87	12	82	60	0	3	35	1.14
129114--129144	15	2.1	15	93	0	53	45	0	0	54	0.99
129295--129331	20	1.9	19	89	10	58	18	21	10	48	1.78
129886--129938	24	2.3	22	79	20	63	33	13	0	52	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
140873--140957	42	2.0	42	100	0	170	31	23	9	35	1.87
141209--141313	55	1.9	55	96	1	194	25	18	16	40	1.90
142984--143030	20	2.3	21	88	3	69	40	25	14	19	1.90
143186--143245	20	3.0	20	95	0	102	43	20	10	26	1.83
143104--143213	57	2.0	56	85	5	143	39	20	13	27	1.90
143129--143342	97	2.2	97	93	0	356	38	19	13	28	1.90
143283--143363	20	4.1	20	91	0	135	40	17	14	27	1.88
143474--143520	20	2.3	21	88	7	78	21	12	19	46	1.82
143579--143726	74	2.0	74	100	0	296	40	10	5	43	1.63
153384--153422	2	20.0	2	84	5	53	51	5	0	43	1.24
156451--156500	23	2.1	24	81	3	57	54	2	4	40	1.31
158718--158823	35	3.0	35	100	0	212	8	16	25	49	1.74
168705--168745	8	5.2	8	82	5	57	34	0	29	36	1.58
168816--169572	128	5.9	128	93	1	1302	22	24	20	31	1.98
169973--170071	33	3.0	34	83	5	139	39	3	4	53	1.35
170594--170663	21	3.3	20	90	5	95	18	27	35	18	1.94
170667--170714	21	2.3	21	85	0	60	22	12	39	25	1.89
172444--172528	32	2.6	32	81	5	98	60	2	0	37	1.10
172439--172519	35	2.4	34	81	8	103	61	1	0	37	1.04
172472--172550	33	2.3	34	81	14	92	64	5	0	30	1.15
172472--172548	35	2.3	34	80	12	88	64	5	0	29	1.15
173176--173224	25	2.0	24	84	11	64	42	0	2	55	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
173342--173409	20	3.6	19	77	18	70	27	1	1	69	1.06
173351--173402	18	2.9	16	81	18	59	26	1	1	69	1.10
174804--174862	31	1.9	31	89	0	91	42	6	8	42	1.61
174887--174977	22	4.0	22	78	10	101	51	14	0	34	1.42
174891--174968	26	3.2	26	67	14	74	53	14	0	32	1.41
174909--176155	80	15.3	80	76	16	704	52	13	0	33	1.42
174877--176168	54	23.8	54	72	18	614	52	12	0	34	1.41
174877--175995	134	8.2	136	73	15	751	52	13	0	34	1.42
174914--176131	32	44.9	26	66	24	323	52	13	0	33	1.42
175070--175122	14	3.5	14	72	18	52	56	5	0	37	1.23
175113--175161	22	2.2	22	85	3	62	55	12	0	32	1.37
175165--175207	22	2.0	22	100	0	86	51	13	0	34	1.42
175167--175215	22	2.2	22	88	3	71	55	14	0	30	1.40
175223--175296	22	3.2	22	81	12	78	55	16	0	28	1.41
175079--176075	188	5.3	188	80	11	1178	52	12	0	34	1.41
175299--175341	22	2.0	22	90	0	68	46	13	2	37	1.57
175353--175395	22	2.0	22	100	0	86	51	13	0	34	1.42
175355--175403	22	2.2	22	88	3	71	55	14	0	30	1.40
175407--175449	22	2.0	22	95	0	77	51	11	0	37	1.39
175409--175457	22	2.2	22	85	3	62	55	10	2	32	1.45
175461--175531	22	3.0	22	80	10	79	50	18	0	30	1.47
175490--175618	22	6.5	19	70	18	68	53	14	0	31	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
175572--175618	22	2.1	22	100	0	94	55	12	0	31	1.38
175612--175658	22	2.1	22	88	7	69	57	6	0	36	1.24
175621--175665	22	2.0	22	95	0	81	51	11	0	37	1.38
175619--175671	22	2.4	22	87	6	72	54	9	0	35	1.33
175675--175765	22	4.0	22	72	10	92	51	13	0	35	1.41
175809--175851	22	2.0	22	100	0	86	51	13	0	34	1.42
175811--175859	22	2.2	22	88	3	71	55	14	0	30	1.40
175921--175963	22	2.0	22	95	0	77	53	11	0	34	1.37
175923--175971	22	2.2	22	85	3	62	57	12	0	30	1.36
175782--176168	112	3.5	112	82	8	478	53	12	0	34	1.39

Tables:   1   2   3   4   5   6   7   8