genome.fa.s5223.2.7.7.80.10.50.1000.1.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: VEPZ01005223.1 Hibiscus syriacus cultivar Beakdansim tig00011824_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  548742

Tables:   1   2   3   

This is table  1  of  3  ( 346 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)
3029--3080	26	2.0	26	88	0	77	57	5	13	23	1.57
3040--3094	26	2.1	26	83	6	67	63	3	9	23	1.40
3938--4052	30	3.8	30	80	2	124	60	7	13	19	1.57
3954--4078	60	2.1	60	83	3	153	56	8	14	20	1.63
5526--5595	3	25.3	3	75	16	62	62	2	1	32	1.18
5537--5595	13	4.4	13	82	8	66	62	1	1	33	1.15
5900--5942	22	1.9	23	90	4	70	25	0	6	67	1.15
12210--12257	15	3.2	15	84	0	60	12	66	10	10	1.44
16468--16535	5	12.8	5	75	17	57	76	2	5	14	1.09
16464--16527	11	5.9	11	77	14	62	76	1	7	14	1.07
16887--17058	93	1.8	94	96	1	319	35	8	13	42	1.75
16905--17049	46	3.1	46	63	16	118	36	8	12	42	1.74
17636--17674	20	2.0	21	90	10	64	23	7	10	58	1.56
21513--21565	22	2.7	20	82	14	65	16	9	3	69	1.30
21770--22016	115	2.2	115	81	2	293	46	14	19	19	1.84
22010--22062	27	2.0	27	88	7	81	50	11	11	26	1.71
28182--28437	49	5.2	49	92	0	413	26	21	14	37	1.92
30825--30878	28	1.9	28	92	0	90	29	31	16	22	1.96
37060--37329	2	138.5	2	69	18	90	42	2	5	49	1.37
37170--37284	43	2.8	44	79	9	116	42	0	5	51	1.30
37270--37330	13	4.8	13	78	9	63	37	0	3	59	1.14
37224--37311	17	4.9	17	72	13	70	40	0	3	55	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37285--37323	9	4.4	9	83	6	53	41	0	2	56	1.13
37170--37315	65	2.3	63	77	12	161	42	0	4	52	1.25
38266--38306	2	20.5	2	100	0	82	48	0	0	51	1.00
38478--38528	21	2.4	21	84	12	61	23	7	0	68	1.15
42476--42825	183	1.9	183	96	0	646	27	21	21	29	1.99
44113--44199	37	2.4	37	88	1	122	25	20	13	40	1.89
44018--44265	102	2.4	105	87	4	360	31	19	13	35	1.90
44149--44328	66	2.8	66	91	4	278	31	21	12	35	1.90
44280--44365	37	2.4	36	82	5	104	29	20	11	38	1.88
44215--44494	100	2.8	102	93	2	467	31	19	12	36	1.89
44045--44430	166	2.3	169	91	4	622	31	19	12	36	1.89
44381--44466	36	2.4	36	86	3	111	25	18	13	41	1.88
44449--44507	30	2.0	30	86	6	84	40	16	10	32	1.82
44521--44635	36	3.1	36	83	4	158	28	20	12	39	1.88
44677--44764	33	2.6	35	87	10	137	42	18	9	30	1.81
44677--44790	31	3.5	33	88	7	153	37	19	10	32	1.86
44746--44931	67	2.7	67	81	4	212	29	21	11	37	1.88
45250--45482	106	2.2	107	88	0	342	34	26	18	21	1.95
47020--47070	21	2.4	21	84	12	61	23	7	0	68	1.15
47469--47502	3	11.0	3	93	6	59	32	0	0	67	0.91
48178--48211	17	1.9	18	94	5	61	55	23	0	20	1.43
48178--48211	9	3.9	9	92	7	61	55	23	0	20	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48944--48991	22	2.2	22	82	14	55	22	4	6	66	1.32
48979--49003	5	5.0	5	100	0	50	20	0	0	80	0.72
49964--50057	46	2.0	46	87	4	136	23	18	10	47	1.79
50828--50911	27	3.1	27	65	19	66	32	16	20	30	1.95
50853--50938	27	3.2	27	67	18	79	33	17	18	30	1.94
50934--51019	27	3.2	27	64	18	70	34	20	17	26	1.95
50359--51213	54	15.8	54	85	1	939	30	18	18	31	1.96
54437--54771	6	55.8	6	97	0	508	33	5	16	44	1.70
55121--55228	55	2.0	55	96	0	198	37	24	9	29	1.86
59143--59602	41	11.2	41	80	1	465	28	18	17	35	1.94
62941--62972	16	2.1	15	94	5	55	6	37	0	56	1.25
63606--63659	20	2.6	21	80	11	67	31	11	25	31	1.91
65111--65140	3	10.0	3	92	0	51	66	0	30	3	1.07
71642--71871	79	2.9	80	82	7	272	42	9	12	35	1.75
87750--87790	3	13.7	3	100	0	82	31	0	0	68	0.90
89005--89165	65	2.5	65	88	7	222	30	22	18	28	1.97
97732--97892	65	2.5	65	87	7	213	30	22	18	28	1.97
97732--97911	64	2.8	63	84	9	204	29	23	18	28	1.98
97879--97916	19	2.1	18	85	9	51	26	23	23	26	2.00
100445--100501	3	19.0	3	88	0	78	66	7	0	26	1.17
100723--100755	16	2.1	16	100	0	66	57	24	12	6	1.57
100821--100895	10	7.7	10	71	21	61	56	21	12	10	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
100825--100889	16	4.1	16	91	0	112	56	21	12	9	1.63
101877--101951	24	3.1	24	84	7	98	56	21	12	10	1.66
101897--101952	14	4.3	14	82	17	75	51	25	14	8	1.70
101890--101937	10	4.4	10	78	19	51	54	22	12	10	1.68
101890--101951	24	2.6	24	94	0	106	53	24	12	9	1.69
104514--104544	2	16.0	2	93	6	55	48	0	0	51	1.00
106883--106928	23	2.0	23	100	0	92	34	26	17	21	1.95
109878--110030	65	2.4	65	80	8	168	33	19	22	23	1.97
115263--115291	11	2.7	11	94	5	51	6	10	0	82	0.83
117573--117632	28	2.1	28	84	0	75	31	0	11	56	1.35
117586--117640	28	2.0	28	89	7	85	27	0	10	61	1.29
117849--117880	16	2.0	16	93	0	55	53	12	15	18	1.73
118197--118227	11	2.8	11	95	0	53	41	0	0	58	0.98
121710--121754	20	2.2	20	92	0	72	46	26	8	17	1.78
128024--128098	2	38.5	2	94	5	136	48	0	0	52	1.00
140548--140576	15	2.0	15	93	6	51	44	0	0	55	0.99
141180--141595	42	9.8	42	73	13	180	54	6	14	24	1.65
141180--141529	44	8.1	42	74	12	216	51	7	16	24	1.71
141475--141578	21	5.0	20	73	13	77	63	6	4	25	1.39
141475--141579	22	5.0	20	71	14	86	63	6	4	24	1.38
142838--142875	20	1.9	20	88	0	58	26	7	2	63	1.35
148408--148944	183	2.9	183	96	1	970	27	20	21	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
150265--150417	39	3.6	39	68	21	110	27	21	13	37	1.91
150320--150639	106	3.1	105	90	3	488	30	20	11	37	1.88
150539--150614	36	2.1	36	90	0	116	22	21	14	42	1.89
150814--151444	105	6.0	105	89	2	903	33	25	17	22	1.96
151988--152092	37	2.8	37	85	0	138	41	14	14	29	1.85
152502--152544	2	21.5	2	90	0	68	44	0	0	55	0.99
158800--158836	2	18.5	2	100	0	74	51	0	0	48	1.00
160100--160189	43	2.1	43	83	4	110	50	0	4	45	1.22
161041--161065	12	2.1	12	100	0	50	24	24	24	28	2.00
168699--168790	45	2.0	45	100	0	184	44	4	10	40	1.59
168969--169050	42	2.0	41	87	2	119	31	14	19	34	1.92
177885--177980	37	2.6	37	84	0	120	42	14	11	31	1.81
182065--182117	25	2.1	25	100	0	106	32	22	11	33	1.90
182897--183435	183	2.9	183	94	1	927	27	20	20	30	1.98
184552--184726	72	2.4	74	83	8	198	27	18	12	41	1.86
184556--184670	36	3.2	36	68	9	92	28	17	8	45	1.78
184572--184751	72	2.5	71	77	13	161	26	16	13	42	1.86
184745--184900	39	3.7	39	69	21	118	28	20	12	37	1.90
184800--185010	103	2.1	101	89	3	316	30	20	12	36	1.89
184912--184987	36	2.1	36	90	0	116	22	21	15	40	1.90
185187--185817	105	6.0	105	92	2	961	33	26	17	21	1.96
186360--186464	37	2.8	38	77	8	110	42	13	13	30	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
187121--187178	21	2.6	23	72	13	57	24	3	0	72	1.00
188544--188665	63	1.9	64	94	1	219	47	9	19	22	1.79
188544--188638	30	3.1	29	65	28	70	46	11	17	24	1.81
188734--188820	29	3.0	29	79	5	77	62	6	13	17	1.52
189063--189092	14	2.1	14	93	0	51	76	0	3	20	0.92
189077--189183	47	2.3	47	77	1	117	57	1	13	28	1.47
189125--189209	41	2.1	41	84	8	111	56	3	14	25	1.54
190205--190237	12	2.6	13	90	9	59	84	15	0	0	0.61
197403--197520	21	5.7	21	79	6	125	38	21	20	20	1.94
197489--197536	21	2.3	21	88	0	69	35	29	18	16	1.93

Tables:   1   2   3