genome.fa.s4123.2.7.7.80.10.50.1000.1.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: VEPZ01004123.1 Hibiscus syriacus cultivar Beakdansim tig00009023_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1596068

Tables:   1   2   3   4   5   6   7   8   9   

This is table  1  of  9  ( 1036 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)
9663--9726	18	3.9	17	80	9	62	85	0	10	3	0.69
9663--9697	1	35.0	1	94	0	61	97	0	2	0	0.19
10648--11195	87	6.3	87	92	4	838	26	29	19	25	1.98
10648--11195	171	3.1	174	91	5	838	26	29	19	25	1.98
10635--11195	258	2.1	264	88	5	879	26	29	19	24	1.98
11391--11444	3	18.0	3	81	14	67	33	1	0	64	1.04
11574--11772	25	8.0	25	97	0	355	33	20	14	31	1.92
16558--16592	16	2.2	16	89	0	52	51	5	5	37	1.50
16931--16974	5	8.4	5	80	9	52	63	0	0	36	0.95
16931--16961	15	2.1	15	100	0	62	67	0	0	32	0.91
19366--19420	20	2.7	21	75	11	60	36	0	1	61	1.06
20353--20395	17	2.4	19	81	14	56	53	2	0	44	1.13
20380--20506	51	2.7	45	79	14	125	48	1	0	48	1.16
20592--20635	22	2.0	23	90	4	72	54	2	0	43	1.12
21092--21240	58	2.5	60	78	5	160	29	22	6	41	1.78
21390--21533	59	2.4	59	79	3	146	42	6	20	30	1.78
23203--23249	20	2.3	20	100	0	94	12	27	12	46	1.78
25731--25771	13	3.5	12	81	15	50	58	0	2	39	1.11
25726--25769	23	1.9	23	86	9	63	56	0	2	40	1.11
26175--26337	42	3.9	42	74	11	109	24	19	6	50	1.70
26201--26372	42	4.1	42	77	5	150	25	18	5	51	1.67
26199--26332	43	3.1	43	77	6	146	23	19	5	51	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
26174--26372	85	2.4	85	78	5	199	25	17	6	51	1.68
27030--27087	24	2.4	24	91	2	89	10	12	41	36	1.76
29214--29461	124	2.0	125	89	3	385	44	10	14	30	1.78
29425--29728	150	2.0	150	89	6	465	48	13	10	27	1.75
30156--30205	24	2.1	23	85	3	64	60	0	0	40	0.97
39022--39052	2	15.5	2	100	0	62	48	0	0	51	1.00
39315--39404	45	2.0	45	95	0	162	40	3	7	48	1.48
39316--39386	22	3.2	22	64	18	56	39	4	7	49	1.49
39326--39399	23	3.3	23	66	11	62	43	4	6	45	1.49
45831--45884	16	3.6	16	80	14	62	22	0	1	75	0.89
46998--47215	14	15.2	14	69	17	60	16	3	5	74	1.14
47042--47174	8	15.8	8	76	15	72	12	3	5	78	1.02
47042--47146	7	15.1	7	77	9	67	13	2	3	80	0.97
46965--47069	48	2.2	47	81	11	115	23	3	2	69	1.18
47041--47118	31	2.5	30	77	6	75	14	3	3	78	1.04
47122--47204	28	2.9	28	81	15	89	13	3	7	75	1.14
47134--47215	5	16.6	5	73	12	53	14	3	7	74	1.17
47115--47216	35	2.9	35	80	12	104	12	3	7	75	1.16
51607--51649	21	2.0	21	90	0	68	32	27	23	16	1.96
51677--51714	20	1.9	20	88	0	58	23	34	31	10	1.89
58398--58440	21	2.0	21	86	0	59	34	27	20	16	1.94
59121--59183	23	2.7	23	90	0	99	19	26	26	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69659--69708	17	2.9	17	74	14	57	10	10	0	80	0.92
69659--69726	34	2.0	34	83	13	86	8	7	4	79	1.05
69809--69968	24	6.8	24	68	22	72	15	5	3	75	1.11
69896--69981	5	16.2	5	74	13	66	18	4	2	74	1.10
69875--69940	34	2.0	33	82	14	82	16	7	0	75	1.02
69863--69939	17	4.5	17	74	18	70	14	7	1	76	1.06
69890--69970	28	2.8	29	76	16	87	17	6	1	75	1.07
69922--69965	22	2.0	21	83	12	54	18	6	2	72	1.17
69900--69981	14	5.8	13	72	22	60	18	4	2	74	1.11
70537--70583	19	2.6	18	78	15	53	38	0	2	59	1.09
70533--70595	29	2.3	26	75	10	63	47	0	1	50	1.10
70652--70704	13	3.9	13	88	9	79	49	9	1	39	1.46
70662--70713	15	3.6	15	89	10	90	51	11	0	36	1.38
70652--70713	28	2.2	28	97	0	115	51	9	1	37	1.45
71356--71514	60	2.7	60	78	3	151	35	5	19	38	1.75
74027--74134	55	2.0	55	88	3	164	42	10	30	16	1.81
75748--76033	155	1.8	156	96	3	540	34	5	6	53	1.50
76073--76133	30	2.1	30	96	3	115	45	13	9	31	1.75
97358--97400	20	2.3	19	88	11	70	27	30	4	37	1.77
97363--97400	20	1.9	20	100	0	76	28	28	5	36	1.79
98695--98740	20	2.2	20	84	11	56	47	0	4	47	1.21
98960--99060	2	50.5	2	100	0	202	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
98708--98952	138	1.8	135	87	3	348	47	8	6	37	1.59
99157--99206	20	2.4	22	83	6	68	64	8	6	22	1.43
100944--101142	36	5.5	36	67	4	130	38	12	19	29	1.88
100927--101143	73	3.0	73	90	0	335	37	12	19	30	1.89
101839--101934	22	4.4	22	94	0	165	38	11	12	37	1.79
102419--102457	20	1.9	21	89	5	62	28	7	17	46	1.76
111013--111039	12	2.2	12	100	0	54	18	14	7	59	1.58
111071--111116	20	2.2	20	84	11	56	47	0	4	47	1.21
112320--112363	16	2.8	16	96	0	79	25	18	43	13	1.86
112426--112513	45	2.0	45	84	4	115	22	18	36	22	1.95
112612--112659	20	2.3	20	85	7	60	25	27	16	31	1.97
112684--112712	13	2.1	14	93	6	51	48	17	20	13	1.81
119034--119075	21	2.0	21	100	0	84	28	14	9	47	1.75
119064--119139	33	2.4	31	86	6	116	30	9	15	44	1.78
120242--120274	16	2.0	17	88	5	50	33	18	9	39	1.82
122895--122955	29	2.1	29	96	0	113	26	9	9	54	1.64
124702--124777	38	2.0	38	97	0	143	48	2	18	30	1.62
125950--126051	33	3.2	33	63	20	88	58	7	5	27	1.49
125943--126076	64	2.1	64	97	0	250	58	6	5	29	1.48
126872--126943	20	3.5	20	81	3	99	40	18	23	18	1.91
126932--127066	20	6.7	19	77	12	83	32	24	17	25	1.97
127521--127579	20	3.0	20	87	0	73	16	18	22	42	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
128896--128941	18	2.6	18	89	0	74	28	43	15	13	1.83
129421--129493	19	3.8	19	82	7	76	38	23	23	15	1.92
129459--129540	19	4.6	19	76	17	104	45	19	20	14	1.85
129475--129537	32	1.9	33	93	3	110	47	19	19	14	1.82
129547--129624	32	2.4	33	89	6	124	8	20	24	46	1.79
129597--129662	19	3.5	19	87	0	96	15	22	24	37	1.92
131528--131563	14	2.6	14	90	0	54	30	0	22	47	1.52
131670--131723	14	3.5	14	73	22	54	48	18	20	12	1.81
131651--131728	33	2.4	33	88	0	111	42	20	23	14	1.88
131747--131804	20	2.9	20	97	0	107	15	22	24	37	1.93
132854--132912	24	2.5	24	82	0	73	28	16	18	35	1.93
133087--133111	12	2.1	12	100	0	50	72	0	28	0	0.86
135381--135439	19	3.4	19	64	22	56	45	18	22	13	1.84
135624--135660	14	2.6	14	91	0	65	45	24	0	29	1.53
137018--137084	21	3.2	21	68	4	55	19	20	35	23	1.95
137018--137140	42	2.9	41	79	7	113	22	18	36	21	1.95
139141--139281	39	3.4	40	71	22	112	46	21	20	12	1.83
139219--139265	23	2.1	21	85	14	60	42	29	19	8	1.80
139141--139286	19	8.1	19	73	22	111	45	21	21	12	1.84
139282--139326	19	2.4	19	88	0	72	6	15	24	53	1.66
139852--139904	20	2.7	20	90	0	79	28	20	26	24	1.99
139919--139966	20	2.4	20	96	0	87	27	16	25	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
140037--140077	21	2.0	21	85	0	55	34	31	17	17	1.93
140084--140129	19	2.3	20	81	7	58	26	17	28	28	1.98
140336--140382	17	2.8	17	90	0	76	55	0	2	42	1.12
143263--144449	214	5.5	214	90	2	1729	31	19	16	33	1.94
143717--143817	42	2.4	41	80	3	121	29	21	23	24	1.99
144140--144245	42	2.6	41	78	3	113	28	22	23	25	1.99
144355--144447	42	2.2	42	82	1	107	29	19	22	29	1.98
145227--145534	126	2.5	126	88	2	476	23	26	16	33	1.96
150606--150635	12	2.5	12	100	0	60	36	16	30	16	1.91
155572--155620	13	3.5	13	75	24	55	46	8	24	20	1.77

Tables:   1   2   3   4   5   6   7   8   9