genome.fa.s7850.2.7.7.80.10.50.1000.1.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: VEPZ01007850.1 Hibiscus syriacus cultivar Beakdansim tig00110209_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1775394

Tables:   1   2   3   4   5   6   7   8   9   

This is table  1  of  9  ( 1055 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)
5463--5525	31	2.0	31	87	6	92	38	22	19	20	1.94
11062--11098	18	2.1	18	94	0	65	21	16	32	29	1.95
12042--12073	2	16.5	2	93	6	57	50	0	0	50	1.00
12804--12877	21	3.5	21	75	10	71	28	14	18	37	1.91
17087--17155	23	3.0	22	79	8	66	31	26	23	18	1.97
17385--17443	30	2.0	29	83	3	73	33	22	6	37	1.80
18591--18648	20	2.6	22	89	10	84	25	24	20	29	1.99
20943--20993	21	2.3	22	84	15	70	45	1	1	50	1.24
21716--21787	33	2.2	33	83	9	87	29	11	8	51	1.66
22499--22591	21	4.5	21	78	4	100	39	18	24	17	1.91
22499--22591	41	2.3	41	100	0	186	39	18	24	17	1.91
22518--22652	41	3.3	41	82	6	132	37	21	21	19	1.94
22580--22714	20	6.7	19	79	9	99	33	25	17	24	1.96
22882--22925	22	2.0	22	90	0	70	20	43	15	20	1.88
23190--23227	20	1.9	20	88	0	58	13	15	21	50	1.78
24546--24593	18	2.7	18	83	0	69	25	41	14	18	1.88
25072--25117	20	2.3	20	92	0	74	39	26	19	15	1.91
25111--25208	33	2.7	36	83	13	114	46	22	19	11	1.81
25127--25184	14	3.9	14	79	16	71	48	24	17	10	1.78
25111--25189	32	2.4	33	95	2	142	46	22	18	11	1.81
25225--25282	14	3.9	14	79	16	71	8	17	25	48	1.75
25220--25298	32	2.4	33	95	2	142	10	18	24	46	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
25283--25338	20	2.8	19	86	7	76	16	25	23	35	1.94
27208--27243	14	2.6	14	90	0	54	30	0	22	47	1.52
27360--27396	19	1.9	19	94	0	65	51	13	21	13	1.75
27350--27405	14	3.6	14	76	21	58	46	17	21	14	1.84
27331--27408	33	2.4	33	88	0	111	42	20	23	14	1.88
27427--27484	20	2.9	20	97	0	107	15	22	24	37	1.93
28541--28594	24	2.2	24	90	0	81	24	16	20	38	1.92
31137--31199	19	3.6	19	67	20	55	41	19	25	14	1.89
31196--31240	20	2.3	20	88	3	65	13	15	22	48	1.79
31196--31272	19	4.3	19	73	18	74	12	19	20	46	1.83
31379--31415	14	2.6	14	91	0	65	45	24	0	29	1.53
32729--32795	21	3.2	20	70	4	53	20	20	34	23	1.97
32729--32851	42	2.9	40	79	7	111	23	18	35	21	1.95
35114--35158	21	2.1	21	87	0	63	31	28	24	15	1.96
35185--35246	22	2.8	22	97	0	115	24	33	32	9	1.88
36199--36232	2	17.0	2	100	0	68	50	0	0	50	1.00
36887--36949	13	5.5	13	65	27	52	19	26	26	26	1.99
36883--36963	22	3.6	22	96	1	144	18	27	29	24	1.98
40138--40182	21	2.1	21	87	0	63	31	28	24	15	1.96
40209--40270	22	2.8	22	97	0	115	24	33	32	9	1.88
41221--41270	2	25.0	2	100	0	100	50	0	0	50	1.00
41925--41987	13	5.5	13	65	27	52	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)
41921--42001	22	3.6	22	96	1	144	18	27	29	24	1.98
43136--43234	33	3.0	33	89	1	144	39	26	23	11	1.88
43111--43295	19	10.1	19	75	14	165	43	21	22	11	1.85
43206--43295	39	2.3	38	90	1	144	46	21	21	11	1.81
43291--43335	19	2.4	19	88	0	72	6	15	24	53	1.66
43929--43982	20	2.7	20	94	0	90	25	16	24	33	1.96
44053--44093	21	2.0	21	85	0	55	34	31	17	17	1.93
46805--46836	2	16.0	2	100	0	64	50	0	0	50	1.00
53185--53308	18	6.6	18	68	21	58	47	0	3	48	1.23
53400--53433	17	1.9	18	94	5	61	50	0	2	47	1.16
55328--55389	21	2.8	21	80	7	61	46	19	20	12	1.83
55930--55972	16	2.5	18	81	11	54	20	0	9	69	1.15
57677--57705	2	14.5	2	100	0	58	0	51	0	48	1.00
63189--63241	22	2.4	23	75	12	58	1	22	9	66	1.31
63674--63713	3	13.3	3	94	0	71	62	0	0	37	0.95
64049--64683	112	5.7	111	93	3	1049	29	19	14	37	1.90
64368--64428	17	3.2	17	68	24	50	19	22	8	49	1.75
65405--65724	83	3.7	84	92	4	509	37	22	13	27	1.91
66479--66523	18	2.6	18	89	6	67	53	8	6	31	1.58
66854--66893	10	3.9	10	84	15	55	0	12	0	87	0.54
66849--66896	24	2.0	24	88	8	71	0	14	0	85	0.60
66849--66896	12	4.0	12	86	8	62	0	14	0	85	0.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
66848--66891	20	2.1	21	91	4	72	0	13	0	86	0.57
66852--66892	9	4.7	9	87	6	57	0	12	0	87	0.53
79662--79691	11	2.8	11	95	5	53	43	0	0	56	0.99
79687--79760	3	24.7	3	97	0	139	64	0	1	33	1.02
83758--83800	6	7.2	6	100	0	86	34	48	16	0	1.46
84575--84857	42	6.8	42	93	2	437	31	23	23	22	1.99
88193--88233	21	2.0	21	90	0	64	4	7	4	82	0.93
88187--88244	27	2.1	28	84	9	75	3	10	5	81	0.97
88193--88240	21	2.2	22	85	7	62	4	10	4	81	0.97
88167--88223	25	2.2	27	84	12	75	7	5	8	78	1.07
89261--89298	20	1.9	20	94	0	67	26	18	13	42	1.87
90001--90041	18	2.2	19	83	12	50	4	12	4	78	1.07
92755--92820	2	33.0	2	100	0	132	50	0	0	50	1.00
95646--96594	315	3.0	315	98	0	1817	36	11	16	35	1.85
97118--97215	32	3.1	32	76	5	117	20	15	28	35	1.93
98004--98084	22	4.0	22	69	19	68	16	13	23	46	1.82
97993--98106	38	3.0	38	89	1	167	14	13	26	46	1.80
97999--98065	16	3.9	16	72	22	55	14	11	25	47	1.79
98063--98103	16	2.6	16	88	7	57	17	12	21	48	1.79
98651--98709	30	2.0	30	96	0	109	42	25	5	27	1.76
99613--99651	2	19.5	2	100	0	78	48	0	0	51	1.00
104378--104436	2	30.0	2	82	16	70	52	0	3	44	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
104485--104546	16	4.0	15	79	12	63	64	1	1	32	1.13
107733--107779	8	6.4	7	84	15	60	0	14	2	82	0.75
107834--107900	8	8.8	8	79	14	70	0	25	0	74	0.82
107834--107898	23	2.8	23	90	4	105	0	24	0	75	0.81
107834--107898	15	4.3	15	88	5	78	0	24	0	75	0.81
107855--107900	15	3.1	15	96	0	83	0	26	0	73	0.83
117250--117638	194	2.0	195	99	0	771	37	16	19	27	1.92
118716--118770	2	28.0	2	81	17	62	52	0	3	43	1.18
118707--118769	14	4.1	15	77	18	67	53	0	4	41	1.22
118815--118874	16	3.7	15	75	18	50	68	1	1	28	1.09
120844--120889	22	2.1	22	100	0	92	30	15	4	50	1.63
123025--123065	21	2.0	20	85	4	55	63	14	2	19	1.41
123527--123555	15	1.9	15	100	0	58	17	20	13	48	1.81
123909--123944	10	3.6	10	84	0	54	36	36	0	27	1.57
123990--124034	19	2.3	20	81	14	58	28	0	2	68	1.01
124004--124057	28	2.0	27	92	3	90	27	0	3	68	1.06
124007--124060	15	3.7	16	69	20	55	25	0	3	70	1.04
127864--127904	16	2.6	16	88	7	57	58	0	0	41	0.98
127947--128037	30	3.0	30	80	3	92	20	6	32	39	1.79
130217--130267	25	2.0	25	100	0	102	54	7	3	33	1.47
132566--132621	2	28.0	2	100	0	112	50	0	0	50	1.00
133081--133188	41	2.6	41	82	4	117	32	17	21	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
133069--133203	42	3.2	41	74	9	119	33	20	21	24	1.97
134565--134600	12	3.0	12	91	0	63	36	25	5	33	1.79
134910--135130	64	3.5	63	84	3	246	27	19	19	33	1.96
142682--142747	13	5.2	13	74	18	59	59	1	19	19	1.46
142695--142758	20	3.3	20	72	12	71	57	3	21	17	1.53
142684--142771	37	2.4	37	98	0	167	59	2	20	18	1.49
143060--143298	30	8.0	30	99	0	469	23	22	23	30	1.99
144141--144176	12	3.0	12	87	0	54	36	22	5	36	1.78
144486--144706	64	3.5	64	83	2	212	27	17	19	35	1.94
144741--144796	21	2.7	21	100	0	112	26	21	23	28	1.99

Tables:   1   2   3   4   5   6   7   8   9