genome.fa.s3571.2.7.7.80.10.50.1000.1.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: VEPZ01003571.1 Hibiscus syriacus cultivar Beakdansim tig00007538_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  77684

Tables:   1   2   

This is table  1  of  2  ( 127 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)
251--342	20	4.6	20	73	2	76	39	21	18	20	1.93
549--637	20	4.4	20	77	7	99	40	23	20	15	1.91
2737--2790	20	2.7	20	85	0	72	38	24	22	14	1.91
2794--2916	14	7.8	14	69	22	75	47	21	17	13	1.81
2781--2921	33	4.3	33	94	0	239	47	21	18	12	1.81
2928--3024	19	5.6	19	69	22	88	13	19	20	46	1.83
2950--3008	14	3.9	14	74	20	55	11	16	22	49	1.78
2933--3024	33	2.8	33	96	0	157	13	18	20	47	1.81
3009--3052	20	2.2	20	84	4	54	20	25	18	36	1.95
3544--3588	18	2.5	18	88	0	72	13	15	44	26	1.83
4900--4958	20	3.0	20	87	0	73	42	22	18	16	1.89
5222--5265	22	2.0	22	90	0	70	20	15	43	20	1.88
5465--5578	41	2.8	41	84	0	156	23	16	25	34	1.95
5424--5640	102	2.1	102	100	0	434	24	16	24	35	1.95
5424--5660	20	11.6	20	76	5	172	24	16	24	35	1.95
5505--5663	61	2.6	61	83	0	219	24	15	23	35	1.94
6692--6743	23	2.3	23	86	6	79	55	15	13	15	1.69
7696--7766	20	3.6	19	81	9	63	38	32	7	22	1.81
7760--7824	21	3.1	21	88	2	96	40	21	18	20	1.92
8086--8123	16	2.5	15	84	12	51	28	5	0	65	1.14
8862--8908	24	2.0	24	95	0	85	27	21	17	34	1.95
11182--11217	18	2.0	18	94	0	63	55	22	2	19	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11512--11575	20	3.2	20	70	0	65	26	23	17	32	1.96
11638--11795	64	2.5	64	95	1	280	51	17	1	29	1.56
11456--12674	613	2.0	612	97	0	2321	40	19	10	28	1.86
12251--12408	64	2.5	64	96	1	289	50	17	1	29	1.57
13779--13914	42	3.2	42	85	2	175	22	20	36	20	1.95
13779--13914	63	2.2	63	90	0	209	22	20	36	20	1.95
13779--13917	21	6.7	20	84	8	154	22	20	36	20	1.95
13794--13918	21	6.0	21	88	2	162	22	20	37	20	1.94
14201--14242	21	2.0	21	85	0	57	33	28	16	21	1.95
16123--16166	20	2.2	20	87	0	61	13	13	20	52	1.74
16492--16560	22	3.1	22	89	0	111	21	11	42	24	1.86
16713--16761	20	2.5	20	89	0	71	22	16	22	38	1.92
18966--19201	93	2.5	93	98	0	454	24	14	30	29	1.95
20839--20870	16	2.0	16	100	0	64	56	25	12	6	1.59
20943--21009	16	4.2	16	88	0	80	62	22	5	8	1.46
20950--21010	22	2.9	22	74	13	65	60	22	8	8	1.52
20940--21004	32	2.0	32	87	0	94	61	23	7	7	1.49
21558--21584	7	3.9	7	100	0	54	74	11	0	14	1.08
22529--22582	24	2.2	24	90	0	81	55	20	9	14	1.66
22529--22590	24	2.6	24	84	0	70	51	22	12	12	1.74
27308--27519	60	3.5	62	76	14	203	40	24	16	19	1.91
27308--27523	20	10.7	20	77	15	178	40	24	16	19	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
27621--27659	18	2.2	18	100	0	78	23	38	0	38	1.55
28493--28546	24	2.2	24	93	0	90	20	18	20	40	1.91
30807--30842	18	2.0	18	94	0	63	55	22	2	19	1.56
31128--31176	20	2.5	20	86	0	71	42	20	20	16	1.89
31728--31780	24	2.2	24	89	0	79	37	1	13	47	1.54
32865--33041	66	2.6	66	90	8	261	53	16	2	28	1.55
33133--33185	24	2.2	24	89	0	79	45	32	1	20	1.62
34410--34508	21	4.7	21	75	8	85	23	20	33	23	1.97
34410--34508	42	2.4	42	77	6	110	23	20	33	23	1.97
34866--34965	42	2.4	41	75	8	103	32	38	13	17	1.87
36674--36726	20	2.7	20	96	0	97	47	20	20	11	1.81
36743--36776	14	2.4	14	85	0	50	8	14	26	50	1.72
36763--36802	20	2.0	20	85	0	53	15	12	22	50	1.77
37126--37176	22	2.3	23	83	16	72	21	11	43	23	1.85
37292--37398	20	5.3	20	87	6	146	17	14	25	42	1.87
37286--37414	40	3.2	40	83	6	165	17	15	23	44	1.86
42354--42493	64	2.2	64	83	2	174	26	17	26	29	1.98
43308--43370	21	3.1	21	77	9	67	34	4	15	44	1.68
43299--43377	23	3.3	23	68	23	65	35	5	15	44	1.68
43396--43473	40	2.0	40	89	5	122	43	5	5	46	1.48
43396--43483	40	2.2	41	86	7	121	44	5	5	44	1.51
43523--43593	7	10.3	7	76	3	63	49	33	0	16	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43523--43613	41	2.2	41	82	3	103	51	29	1	17	1.52
43708--43734	13	2.1	13	100	0	54	44	0	0	55	0.99
43755--43799	21	2.1	22	95	4	83	46	4	6	42	1.50
43784--43892	49	2.2	49	86	3	148	51	10	5	33	1.59
43875--43939	21	3.1	22	76	8	64	53	24	0	21	1.46
44286--44344	17	3.3	19	83	9	63	47	6	6	38	1.57
44313--44346	9	3.9	9	84	7	52	55	5	0	38	1.24
44306--44344	17	2.2	18	95	4	71	51	5	2	41	1.38
44328--44422	48	2.0	49	87	2	138	50	7	7	34	1.58
44333--44435	48	2.1	49	83	7	129	51	8	6	33	1.59
44419--44490	21	3.4	21	73	3	65	51	26	1	20	1.56
45701--45727	13	2.1	13	100	0	54	44	0	0	55	0.99
45731--45785	20	2.8	20	81	5	60	47	9	7	36	1.63
45751--45827	18	4.1	19	72	13	61	50	6	2	40	1.42
45751--45791	19	2.1	20	95	4	75	51	4	2	41	1.36
45780--45883	48	2.1	49	82	7	122	52	9	3	33	1.52
46273--46325	20	2.5	20	72	6	52	47	5	9	37	1.60
46394--46464	7	10.3	7	73	3	54	49	29	0	21	1.50
46394--46464	14	5.1	14	79	3	72	49	29	0	21	1.50
46394--46470	41	1.9	40	89	2	118	49	27	0	23	1.50
46629--46675	14	3.7	14	71	26	50	51	4	0	44	1.21
46627--46676	23	2.1	24	96	3	93	48	4	0	48	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46944--47030	16	5.4	16	88	0	120	42	13	25	18	1.87
52047--52183	41	3.4	39	78	7	148	29	21	25	23	1.99
52613--52664	21	2.5	20	79	17	52	46	7	7	38	1.61
53718--53755	20	1.9	20	88	0	58	34	18	5	42	1.73
58166--58206	15	2.6	16	81	14	50	78	0	7	14	0.96
58214--58266	2	27.5	2	92	7	92	50	0	0	49	1.00
58284--58337	21	2.8	18	81	15	56	62	3	3	29	1.29
58584--58632	23	2.1	24	85	11	66	59	0	6	34	1.22
59090--59183	37	2.5	37	87	0	125	30	11	15	41	1.83
59877--60224	106	3.4	102	79	6	353	22	19	24	33	1.97
60171--60267	43	2.3	43	94	0	167	20	16	25	37	1.93
60057--60373	149	2.1	149	91	0	499	20	17	26	34	1.95
60206--60725	106	4.9	106	91	0	808	22	17	24	35	1.95
59958--60476	255	2.1	248	89	4	781	21	18	25	35	1.95
62258--62334	20	3.9	20	78	11	79	1	11	6	80	0.95
62277--62342	8	8.1	8	77	15	55	0	13	6	80	0.89
62258--62312	26	2.0	28	86	6	78	1	10	5	81	0.92
62284--62342	31	1.9	31	86	6	84	0	13	6	79	0.92
62258--62342	18	4.5	17	75	19	62	1	11	7	80	0.97
63489--63524	8	4.6	8	89	6	56	55	13	16	13	1.69
63489--63524	15	2.3	15	90	4	54	55	13	16	13	1.69
66832--66865	4	8.2	4	93	6	59	73	0	2	23	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66802--66842	15	2.6	16	81	14	50	78	0	7	14	0.96
67149--67186	19	2.0	19	85	10	51	63	0	2	34	1.09
67149--67241	22	4.4	20	72	17	64	58	1	6	34	1.31
67704--67800	37	2.6	37	90	0	140	29	14	14	41	1.85
68507--69555	106	10.0	106	90	2	1553	22	18	24	33	1.97
68528--69548	423	2.4	421	91	2	1615	22	18	24	33	1.97
71132--71197	15	4.3	15	75	14	64	1	10	6	81	0.92
71109--71184	28	2.7	27	80	13	75	1	10	5	82	0.87
71110--71190	11	7.4	11	73	14	51	2	9	4	82	0.90
75634--75681	16	3.0	16	79	11	53	77	0	6	16	0.97

Tables:   1   2