genome.fa.s4990.2.7.7.80.10.50.1000.1.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: VEPZ01004990.1 Hibiscus syriacus cultivar Beakdansim tig00011202_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  148483

Tables:   1   2   

This is table  1  of  2  ( 123 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)
1238--1308	6	11.8	6	96	0	124	49	2	0	47	1.16
1238--1308	4	17.8	4	94	0	124	49	2	0	47	1.16
1553--1640	18	4.9	18	83	1	115	15	17	34	32	1.91
1553--1640	36	2.5	36	88	1	142	15	17	34	32	1.91
11038--11102	32	2.1	32	83	13	82	29	9	13	47	1.74
11687--11726	20	2.1	19	95	4	71	40	17	10	32	1.83
13285--13360	16	4.8	16	72	16	59	61	7	2	27	1.37
15440--15493	26	2.1	26	93	6	92	38	27	12	20	1.89
18925--18955	14	2.2	14	94	0	53	45	6	12	35	1.68
19055--19100	24	1.9	24	82	8	58	45	4	2	47	1.34
20076--20160	29	2.9	29	72	8	75	34	16	4	44	1.68
21064--21142	21	3.7	22	91	5	119	16	24	16	43	1.87
21058--21152	21	4.5	21	89	2	113	18	25	17	37	1.93
21162--21276	20	5.7	20	75	2	77	33	26	16	23	1.95
21460--21503	22	2.0	22	82	8	54	25	43	11	20	1.85
21737--21810	20	3.8	20	78	1	78	14	18	18	47	1.83
23131--23177	18	2.6	18	89	0	76	29	46	8	14	1.74
23718--23763	20	2.3	20	88	0	65	36	26	21	15	1.93
23729--23787	19	3.1	19	85	2	73	38	20	23	16	1.92
23797--23885	20	4.5	20	85	1	117	14	23	24	37	1.93
23856--23911	20	2.8	20	88	0	76	23	16	28	32	1.96
23812--23905	40	2.4	40	82	5	102	18	20	25	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
24250--24340	41	2.2	42	84	2	121	23	40	14	21	1.90
24253--24370	42	2.8	41	81	2	119	23	38	16	21	1.92
25920--26025	19	5.8	19	90	8	168	47	16	21	15	1.82
26032--26135	40	2.9	34	75	15	100	15	21	22	41	1.90
26052--26119	20	3.4	20	70	8	66	16	19	23	41	1.90
26409--26460	20	2.5	21	87	3	70	21	23	17	38	1.93
26372--26625	128	2.0	128	98	0	490	24	20	18	36	1.95
27372--27425	24	2.2	24	90	0	81	22	16	20	40	1.91
29913--30010	19	5.7	19	69	22	90	43	19	24	12	1.85
29913--30006	33	2.8	33	98	0	179	43	19	24	12	1.85
30169--30205	14	2.6	14	91	0	65	45	24	0	29	1.53
31556--31622	21	3.2	21	68	4	55	19	20	35	23	1.95
31595--31674	42	1.9	42	84	0	106	22	17	37	22	1.94
31896--32080	91	2.0	90	90	6	291	47	19	11	21	1.81
33805--33860	14	3.6	14	74	21	58	41	25	23	10	1.86
33781--33868	33	2.6	33	94	1	158	40	22	25	11	1.87
33756--33901	19	8.1	19	71	17	96	44	19	22	13	1.85
34516--34568	21	2.5	22	81	6	74	33	18	26	20	1.96
40217--40279	18	3.4	18	76	10	56	63	3	1	31	1.19
45504--45546	23	1.9	22	95	4	77	37	9	13	39	1.78
45751--45838	24	3.7	24	92	0	131	21	22	23	31	1.98
45846--45876	16	1.9	16	93	0	53	12	12	25	48	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48543--48675	29	4.7	27	75	11	99	48	8	14	29	1.73
48600--48675	29	2.7	29	85	2	109	50	7	13	28	1.69
48655--48727	27	2.6	28	91	6	112	60	9	5	24	1.49
48714--48786	28	2.6	29	86	8	105	46	8	9	35	1.66
49949--50051	28	3.6	28	72	10	91	23	14	33	28	1.94
51027--51064	18	2.1	18	90	0	58	52	10	5	31	1.58
54329--54384	29	2.0	29	85	3	78	48	7	10	33	1.65
54614--54734	31	3.9	30	74	12	84	33	3	13	49	1.58
55100--55244	42	3.5	42	78	12	147	30	17	18	33	1.95
55288--55434	72	2.0	74	84	7	194	31	16	23	29	1.96
55900--55947	21	2.2	22	92	3	80	41	10	16	31	1.82
56942--57131	82	2.3	81	81	8	199	31	20	18	30	1.96
56960--57092	41	3.3	40	73	17	123	33	20	19	26	1.96
59218--59392	90	2.0	87	90	3	278	38	10	6	44	1.65
67471--67576	44	2.4	44	82	4	126	32	23	14	30	1.94
68540--68565	2	13.0	2	100	0	52	50	0	0	50	1.00
68981--69028	18	2.7	18	78	12	53	33	2	39	25	1.67
79357--79396	17	2.4	17	100	0	80	20	15	27	37	1.92
82527--82621	23	4.2	23	77	9	88	12	11	15	60	1.60
84328--84370	2	21.5	2	100	0	86	51	0	0	48	1.00
92392--92426	15	2.3	15	95	0	61	20	31	25	22	1.98
94990--95024	15	2.2	16	90	5	54	54	28	0	17	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
94990--95025	8	4.6	8	93	6	56	52	27	0	19	1.46
98215--98311	21	4.6	21	75	6	79	24	19	32	22	1.97
98537--98575	21	1.9	21	89	5	62	48	10	7	33	1.66
101647--101699	20	2.7	20	93	0	88	30	24	28	16	1.97
101720--101797	23	3.7	21	75	14	79	21	20	34	23	1.97
102667--102723	25	2.3	25	93	0	96	17	17	26	38	1.92
104171--104236	29	2.2	30	83	2	89	25	16	6	51	1.67
104171--104254	15	5.7	14	70	17	55	26	14	5	53	1.63
104171--104248	29	2.7	29	80	6	77	25	15	6	52	1.66
110234--110268	16	2.2	16	89	0	52	45	11	8	34	1.71
110585--110946	37	10.3	35	78	11	350	40	6	12	40	1.68
110776--110899	12	10.0	12	66	13	54	38	6	14	40	1.72
110809--110863	28	2.0	28	88	0	83	34	9	21	34	1.85
110776--110897	65	1.9	63	88	3	181	38	6	14	40	1.72
110738--110934	100	2.0	102	82	6	249	39	6	14	40	1.70
110925--110991	22	2.8	24	80	13	75	46	2	5	44	1.43
110956--111012	27	2.1	26	84	12	71	49	1	7	42	1.40
110964--111018	29	1.9	28	89	10	85	45	0	7	47	1.30
111024--111071	3	16.3	3	78	4	53	25	0	0	75	0.81
111031--111079	9	5.6	9	97	2	91	20	0	0	79	0.73
111024--111106	9	10.1	8	79	14	64	22	1	1	74	0.95
111038--111098	26	2.3	27	74	23	51	19	1	1	77	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
112207--112260	15	3.8	15	73	11	51	27	5	1	64	1.26
112264--112293	9	3.3	9	95	0	51	26	0	0	73	0.84
117546--117638	3	31.0	3	88	0	141	38	0	0	61	0.96
117546--117646	27	3.7	27	92	2	159	40	0	0	59	0.97
117640--117668	2	14.5	2	100	0	58	51	0	0	48	1.00
118994--119033	12	3.1	13	82	10	55	40	0	0	60	0.97
121344--121397	14	3.8	14	81	11	56	25	14	9	50	1.73
121359--121397	15	2.7	15	88	4	53	20	15	12	51	1.76
124669--124713	9	5.0	9	86	8	65	86	0	13	0	0.57
124673--124719	23	2.0	24	87	4	69	85	0	14	0	0.61
124789--124866	25	3.2	25	63	23	67	48	5	29	16	1.68
124776--124869	47	2.0	47	100	0	188	51	6	27	14	1.67
127019--127359	114	3.0	113	93	2	556	32	15	20	31	1.94
129784--129838	22	2.5	22	87	0	83	34	14	14	36	1.87
130238--130421	96	1.9	94	85	6	253	35	14	21	28	1.92
130311--131243	113	8.2	112	85	5	1207	36	13	19	30	1.90
130311--131242	226	4.1	228	93	1	1493	37	13	19	30	1.90
131208--131391	84	2.2	82	81	5	201	37	17	17	27	1.92
131562--131648	3	29.0	3	88	0	84	44	0	0	55	0.99
131562--131648	15	5.8	15	84	0	93	44	0	0	55	0.99
131650--131680	2	15.5	2	100	0	62	51	0	0	48	1.00
131776--131817	16	2.6	16	92	0	75	7	54	19	19	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
133013--133052	12	3.1	13	82	10	55	40	0	0	60	0.97
137287--137476	73	2.6	70	89	6	283	40	6	12	40	1.68
137263--137480	35	6.1	37	86	7	281	40	5	12	40	1.67
137393--137565	88	1.9	90	83	8	228	39	5	13	41	1.67
137393--137565	90	1.9	88	83	8	224	39	5	13	41	1.67
139779--139836	23	2.5	23	88	0	89	18	27	25	27	1.98
139792--139847	23	2.4	23	87	0	67	21	26	21	30	1.98
146711--146785	23	3.3	23	86	0	96	18	30	22	28	1.97
146708--146799	23	4.0	23	81	0	58	19	26	23	30	1.98
148221--148275	15	3.8	15	72	15	53	21	10	1	65	1.33

Tables:   1   2