genome.fa.s2720.2.7.7.80.10.50.1000.1.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: VEPZ01002720.1 Hibiscus syriacus cultivar Beakdansim tig00005612_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  242320

Tables:   1   2   

This is table  1  of  2  ( 166 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)
336--387	2	27.0	2	92	7	90	48	0	0	51	1.00
336--387	25	2.1	25	100	0	104	48	0	0	51	1.00
2019--2055	16	2.3	16	90	9	58	27	5	29	37	1.79
11938--12005	13	5.2	12	86	10	82	76	0	13	10	1.02
11934--11986	7	7.9	7	78	21	60	75	0	13	11	1.05
11927--12005	26	3.2	25	79	15	92	75	0	12	11	1.04
12964--13695	55	13.3	55	90	1	1090	31	14	25	28	1.95
13689--13845	55	2.9	53	83	6	192	31	20	23	24	1.98
16017--16102	2	43.0	2	100	0	172	50	0	0	50	1.00
18204--18262	6	9.7	6	75	14	50	81	0	13	5	0.85
18217--18280	10	6.1	10	80	8	56	81	0	9	9	0.88
18307--18369	5	12.6	5	76	21	53	80	0	4	14	0.86
18209--18364	20	7.6	19	68	22	75	76	0	9	12	1.04
18312--18340	7	4.3	7	95	4	51	86	0	0	13	0.58
18301--18344	13	3.4	12	84	12	52	81	0	2	15	0.78
18288--18369	25	3.3	25	79	6	85	76	1	8	13	1.06
18298--18390	25	3.6	26	77	12	93	76	1	7	15	1.06
18624--18686	29	2.2	29	81	15	71	63	0	1	34	1.04
19764--19813	2	26.0	2	92	8	86	50	0	0	50	1.00
20819--20863	23	2.0	23	91	4	74	46	11	2	40	1.52
23225--23276	16	3.4	16	68	10	54	23	5	36	34	1.79
31658--31713	27	2.1	27	89	0	85	35	23	10	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
32324--32363	2	20.0	2	100	0	80	50	0	0	50	1.00
32347--32451	41	2.6	41	84	10	130	46	3	6	42	1.48
32389--32521	67	2.0	67	80	5	153	41	2	6	50	1.39
32415--32472	26	2.2	26	84	6	82	41	1	5	51	1.34
32427--32483	29	2.0	29	83	10	73	42	0	3	54	1.17
32519--32599	6	13.2	6	75	18	53	20	2	2	74	1.06
32519--32579	19	3.3	19	71	19	58	22	0	1	75	0.89
32522--32582	9	6.8	9	80	15	65	22	0	1	75	0.89
32519--32563	16	2.9	16	87	9	58	24	0	0	75	0.80
35605--35649	19	2.4	19	92	3	74	11	13	8	66	1.44
39041--39816	165	4.7	165	90	0	1083	29	25	21	23	1.99
40329--40385	2	28.5	2	100	0	114	50	0	0	49	1.00
40369--40459	39	2.3	39	86	3	130	48	3	5	42	1.42
40437--40499	23	2.6	24	85	12	85	42	1	6	49	1.37
40542--40574	3	11.7	3	87	12	52	27	0	0	72	0.85
40535--40603	15	4.5	14	72	24	50	21	2	1	73	1.04
40535--40593	9	6.4	9	83	16	61	23	0	1	74	0.91
46152--46217	30	2.2	30	100	0	132	9	39	27	24	1.85
46363--46396	16	2.1	16	89	10	52	58	2	2	35	1.28
46404--46554	34	4.3	33	86	10	194	45	7	3	43	1.49
46404--46556	73	2.2	68	87	9	209	45	7	3	43	1.49
46543--46608	2	33.5	2	96	3	125	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46592--46760	40	4.4	36	82	12	180	44	8	2	44	1.49
46592--46810	77	2.7	81	84	11	268	45	7	2	44	1.45
47386--47433	20	2.3	22	85	7	64	43	2	2	52	1.24
49958--50027	26	2.7	26	93	0	122	35	7	4	52	1.48
50634--50748	58	2.0	59	84	5	153	33	16	14	35	1.90
53906--53931	2	13.0	2	100	0	52	50	0	0	50	1.00
54532--54573	23	1.9	22	85	9	59	38	14	2	45	1.58
67739--67812	2	37.0	2	100	0	148	50	0	0	50	1.00
68189--68239	14	3.6	14	74	10	50	23	0	25	50	1.49
68189--68239	21	2.4	21	83	0	66	23	0	25	50	1.49
68314--68374	19	3.2	19	86	4	86	39	4	6	49	1.50
68317--68370	20	2.8	20	91	2	83	38	5	7	48	1.55
68665--68717	21	2.5	21	84	6	63	20	0	26	52	1.46
68801--68851	2	25.0	2	78	11	50	43	1	5	49	1.38
68805--68851	17	2.7	17	93	3	76	42	2	6	48	1.40
68792--68835	21	2.1	21	95	0	79	43	0	6	50	1.29
68325--70169	495	3.6	497	83	10	2616	37	7	10	43	1.69
69246--69271	7	3.7	7	100	0	52	38	0	15	46	1.46
69239--69278	14	2.9	14	84	0	53	30	0	22	47	1.52
69362--69415	20	2.8	20	88	2	74	37	5	9	48	1.59
67765--70429	497	5.1	519	77	14	2727	37	8	11	43	1.70
69710--69762	21	2.5	21	84	6	63	20	0	26	52	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
69852--69894	15	2.8	15	92	3	68	41	2	6	48	1.43
69837--69878	21	2.0	21	95	0	75	42	0	7	50	1.30
70159--70209	19	2.7	19	90	0	75	21	15	15	47	1.83
70211--70235	13	1.9	13	100	0	50	52	32	0	16	1.44
70286--70346	21	2.9	20	83	9	68	26	0	21	52	1.47
70388--70424	14	2.8	13	91	4	56	43	0	8	48	1.32
70671--70740	25	2.8	24	80	4	77	42	2	2	51	1.31
70694--70729	15	2.4	15	95	0	63	41	2	5	50	1.40
70596--70741	2	75.0	2	65	20	60	44	5	2	47	1.40
70944--70981	20	2.0	20	94	5	69	26	31	0	42	1.56
71531--71590	24	2.5	23	81	7	66	43	3	3	50	1.35
71572--71702	13	9.2	13	70	21	77	42	4	5	47	1.46
71638--71685	18	2.7	18	87	6	62	45	4	6	43	1.48
71817--71866	16	3.2	16	80	11	59	28	8	4	60	1.43
71825--71866	15	2.6	17	82	10	54	28	9	4	57	1.51
72772--72865	35	2.7	35	79	15	113	56	17	6	20	1.62
72947--73036	40	2.3	40	94	1	155	38	3	28	28	1.73
79442--79480	21	1.9	20	89	5	60	33	25	15	25	1.95
80441--80584	64	2.2	63	83	10	168	36	16	20	27	1.94
81045--81262	103	2.1	103	94	1	384	25	13	23	37	1.91
81277--81341	23	2.8	23	77	9	69	21	23	24	30	1.99
85845--86392	269	2.0	269	99	0	1078	36	18	18	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96261--96294	2	17.0	2	100	0	68	50	0	0	50	1.00
98879--98907	2	14.5	2	100	0	58	48	0	0	51	1.00
100921--100952	2	16.0	2	100	0	64	50	0	0	50	1.00
106021--106050	15	2.0	15	100	0	60	33	20	6	40	1.78
108505--108841	169	2.0	169	100	0	674	26	11	38	23	1.89
112878--112914	20	1.9	19	89	10	58	18	21	10	48	1.78
112973--113008	17	2.1	17	94	0	63	22	25	25	27	2.00
113042--113111	19	3.7	19	96	1	124	18	21	31	28	1.97
113040--113131	38	2.4	38	81	3	114	20	20	31	27	1.98
114864--114892	3	9.7	3	100	0	58	65	0	0	34	0.93
117490--117532	3	14.7	3	90	4	70	32	2	0	65	1.06
127319--127356	20	1.9	20	88	0	58	21	26	10	42	1.85
129306--129331	3	8.7	3	100	0	52	65	0	0	34	0.93
131924--131963	3	13.7	3	89	5	64	32	2	0	65	1.06
138350--138475	37	3.5	37	80	10	134	33	16	11	38	1.86
138384--138498	36	3.2	37	82	6	92	29	16	10	43	1.81
138767--138842	29	2.7	29	82	8	84	35	17	6	40	1.75
138991--139347	131	2.7	134	77	6	341	26	30	16	26	1.97
139532--139578	3	15.7	3	79	16	53	29	4	0	65	1.11
141098--141123	5	5.2	5	100	0	52	19	0	0	80	0.71
142189--142235	6	7.8	6	97	0	85	36	0	48	14	1.44
144476--144515	19	2.1	19	95	0	71	45	12	0	42	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
149254--149428	90	2.0	89	91	3	289	46	5	10	37	1.61
151696--151746	16	3.2	16	80	0	66	21	21	15	41	1.90
151696--151763	32	2.1	32	83	5	84	25	19	14	41	1.89
151778--151818	16	2.6	16	75	17	50	31	21	4	41	1.74
156472--156702	2	113.5	2	66	21	81	47	5	3	44	1.42
156472--156581	51	2.1	51	86	1	157	46	5	3	44	1.44
156498--156693	18	10.7	18	69	19	104	47	5	3	43	1.42
156481--156555	9	8.8	9	70	11	50	48	8	2	41	1.47
156555--156606	11	4.6	11	85	4	68	44	1	5	48	1.38
157758--157819	25	2.5	25	83	0	79	48	17	6	27	1.72

Tables:   1   2