genome.fa.s692.2.7.7.80.10.50.1000.1.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: VEPZ01000692.1 Hibiscus syriacus cultivar Beakdansim tig00001349_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1095174

Tables:   1   2   3   4   5   

This is table  1  of  5  ( 561 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)
4848--4924	21	3.7	21	100	0	154	22	25	24	27	2.00
19050--19129	24	3.3	24	89	0	115	18	11	15	55	1.69
19050--19153	48	2.2	49	78	5	113	19	10	15	54	1.69
19196--19502	154	2.0	155	82	10	378	20	12	28	38	1.88
19509--19533	13	1.9	13	100	0	50	48	0	4	48	1.20
20411--20452	12	3.4	12	87	9	50	66	4	0	28	1.12
21213--21276	27	2.4	27	100	0	128	39	4	12	43	1.63
29171--29608	225	1.9	227	93	3	753	44	8	7	39	1.63
29678--29723	20	2.3	19	89	10	74	54	10	17	17	1.70
29845--29891	20	2.4	19	82	10	67	53	10	17	19	1.72
29854--29896	20	2.3	19	88	11	63	51	11	16	20	1.75
32193--32258	33	2.0	33	87	0	96	28	1	45	24	1.62
34042--34088	17	2.7	17	93	3	76	29	2	10	57	1.44
34207--36151	197	9.9	199	96	2	3553	36	16	16	30	1.90
34207--36151	393	4.9	396	96	2	3534	36	16	16	30	1.90
34207--36151	787	2.5	790	96	2	3603	36	16	16	30	1.90
37602--37693	12	7.4	12	80	7	76	35	7	34	21	1.82
37599--37693	6	15.3	6	75	6	55	36	7	34	21	1.81
37614--37696	15	5.7	15	80	8	91	36	6	34	22	1.79
37610--37693	27	3.1	27	84	0	114	35	7	34	22	1.82
39154--39495	183	1.9	183	91	1	569	35	14	16	33	1.89
42063--42126	23	2.8	23	87	0	92	35	6	20	37	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42063--42135	23	3.2	23	82	7	85	34	5	20	39	1.76
42489--42552	23	2.8	23	87	0	92	35	6	20	37	1.78
42489--42561	23	3.2	23	82	7	85	34	5	20	39	1.76
41965--42792	426	1.9	424	96	1	1545	39	8	12	39	1.73
42824--42874	25	2.0	25	92	0	84	33	7	19	39	1.81
43123--43159	18	2.1	18	89	0	56	32	5	10	51	1.60
43416--43501	38	2.2	39	93	2	147	47	20	13	17	1.82
43901--43964	23	2.8	23	87	0	92	35	6	20	37	1.78
43901--43973	23	3.2	23	82	7	85	34	5	20	39	1.76
48491--48559	33	2.1	33	91	0	111	17	15	27	39	1.90
48809--48845	17	2.2	17	100	0	74	21	5	16	56	1.59
51252--51287	9	3.9	9	85	7	54	13	2	0	83	0.76
51262--51291	16	1.9	15	93	6	51	16	3	0	80	0.85
54310--54366	18	3.3	16	77	17	69	78	7	14	0	0.94
54312--54359	20	2.3	21	86	13	73	79	6	14	0	0.92
55420--55455	18	2.0	18	88	0	54	19	8	30	41	1.81
55929--55998	36	1.9	36	94	0	122	28	22	12	35	1.91
56853--57274	106	4.0	106	91	0	659	36	24	17	21	1.95
58714--58782	11	6.4	11	88	6	54	43	0	1	55	1.08
58726--58779	2	27.5	2	96	3	101	48	0	0	51	1.00
62945--63027	31	2.8	30	84	10	109	61	1	4	32	1.25
67161--67279	57	2.1	57	83	1	148	44	13	7	34	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
67769--67957	45	4.2	45	78	5	168	39	15	10	34	1.81
67769--67957	90	2.1	90	80	9	208	39	15	10	34	1.81
71243--71276	15	2.3	15	94	0	59	44	0	0	55	0.99
81918--81968	2	25.5	2	100	0	102	49	0	0	50	1.00
83746--83810	3	21.3	3	90	9	105	32	0	0	67	0.91
87426--87487	32	2.0	32	96	3	117	14	14	9	61	1.57
90541--90575	17	2.1	16	89	5	52	68	5	25	0	1.11
91741--91791	4	13.2	4	91	8	88	49	25	0	25	1.51
92103--92398	90	3.2	89	71	21	255	31	16	11	40	1.85
92335--92452	36	3.3	36	82	8	150	34	16	12	36	1.86
92335--92469	71	1.9	72	83	4	175	33	19	14	33	1.91
92542--92634	36	2.6	36	81	3	118	31	19	12	36	1.89
92876--93094	27	7.9	28	85	7	261	27	11	15	45	1.81
92875--93094	56	4.0	55	84	6	266	28	11	15	45	1.81
92876--93094	83	2.6	83	84	3	271	27	11	15	45	1.81
93195--93263	28	2.5	28	90	4	104	34	7	14	43	1.73
93158--93330	95	1.8	92	84	6	231	32	10	14	42	1.80
93208--93378	67	2.6	65	89	3	270	31	9	12	46	1.74
93208--93439	67	3.6	64	85	5	261	31	10	12	45	1.76
93600--93723	63	2.0	64	85	4	171	34	12	11	41	1.79
93705--93784	40	2.0	40	90	4	126	31	21	11	36	1.88
93863--93892	15	2.0	15	93	0	51	30	20	3	46	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94397--94477	28	2.9	28	83	8	96	24	14	13	46	1.81
94383--94457	28	2.6	28	81	12	91	25	16	12	46	1.81
94535--94869	46	7.6	46	71	15	197	23	32	19	24	1.97
94628--94819	43	4.5	43	74	12	187	23	33	19	22	1.97
94542--94874	129	2.5	129	95	2	585	23	32	19	24	1.98
94671--94831	83	1.9	86	81	7	195	22	33	18	24	1.97
94798--94955	78	2.0	79	86	3	221	24	31	18	25	1.98
95102--95156	3	17.3	3	82	17	51	34	0	0	65	0.93
95101--95156	10	5.8	10	89	10	66	33	0	0	66	0.92
101945--101970	2	13.0	2	100	0	52	50	0	0	50	1.00
109867--109906	19	2.1	19	86	9	55	47	0	0	52	1.00
110109--110171	23	2.9	21	72	21	58	50	3	1	44	1.27
126973--127022	16	2.9	17	77	14	50	58	0	0	42	0.98
130232--130391	65	2.5	65	90	5	245	27	19	23	30	1.98
130232--130439	65	3.2	62	81	12	224	25	19	24	30	1.98
133171--133212	20	2.1	20	86	8	59	21	0	21	57	1.41
136849--136916	15	4.2	16	71	20	52	73	0	5	20	1.04
136827--136916	35	2.6	35	87	7	121	71	0	4	24	1.05
136820--136910	20	4.4	20	69	15	60	71	0	4	24	1.04
137560--137758	76	2.7	75	82	5	228	55	14	1	29	1.46
137560--137794	76	3.2	76	79	8	218	55	12	1	30	1.47
139423--139524	5	19.8	5	73	9	80	71	1	4	21	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
139474--139524	11	4.9	10	83	7	66	78	1	3	15	0.99
139474--139537	27	2.4	27	81	5	67	75	3	6	15	1.14
143088--143114	14	1.9	14	100	0	54	37	7	7	48	1.59
143346--143388	15	2.9	15	85	0	59	41	0	0	58	0.98
143339--143388	20	2.3	23	83	13	70	44	0	0	56	0.99
148196--148247	16	3.2	16	83	5	70	36	15	11	36	1.84
161170--161209	15	2.5	16	92	8	64	17	27	5	50	1.67
161187--161951	139	5.5	139	95	0	1336	23	22	18	35	1.96
161868--162042	91	1.9	91	96	0	323	25	22	16	35	1.94
161729--162181	230	2.0	230	95	0	807	24	21	18	35	1.95
162835--162908	20	3.6	20	69	7	67	28	20	25	25	1.99
163082--163546	90	5.2	90	89	1	734	34	22	17	24	1.96
180775--180913	69	2.0	70	98	1	271	34	15	24	25	1.94
183897--183936	17	2.4	17	87	8	55	22	5	0	72	1.04
189235--189276	19	2.2	19	100	0	84	21	16	26	35	1.94
189864--189907	21	2.0	23	86	8	65	36	18	9	36	1.82
192377--192429	5	9.8	5	76	15	52	7	22	50	18	1.72
192382--192430	17	2.9	17	100	0	98	10	22	48	18	1.77
192370--192412	22	2.0	22	100	0	86	9	23	48	18	1.76
192426--192499	9	7.9	9	85	5	76	29	27	27	16	1.97
192432--192504	19	3.8	19	79	12	78	30	26	26	17	1.98
192432--192504	29	2.6	29	86	8	105	30	26	26	17	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
199664--199709	5	8.8	5	86	9	65	4	21	54	19	1.61
199706--199777	29	2.4	31	88	9	114	29	25	27	18	1.98
199706--199776	10	7.3	9	78	12	61	29	25	28	16	1.97
199710--199777	9	6.9	10	80	15	63	30	25	26	17	1.97
200918--200946	2	14.5	2	100	0	58	48	0	0	51	1.00
203897--203933	12	3.1	12	100	0	74	27	24	16	32	1.96
207016--207065	21	2.4	21	76	6	57	22	24	18	36	1.95
207055--207106	21	2.5	21	87	3	70	38	17	23	21	1.93
207040--207210	41	4.2	41	69	8	132	29	21	18	30	1.97
207116--207188	21	3.5	21	79	3	76	23	21	17	36	1.94

Tables:   1   2   3   4   5