genome.fa.s1279.2.7.7.80.10.50.1000.9.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: VEPZ01001279.1 Hibiscus syriacus cultivar Beakdansim tig00002511_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6984689

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  9  of  29  ( 3433 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)
1992294--1992425	69	1.9	69	87	6	196	24	20	18	37	1.94
1992445--1992545	34	2.9	35	81	11	116	19	16	19	43	1.88
1992328--1992583	118	2.2	115	83	4	323	24	17	17	41	1.90
1992662--1992725	20	3.2	20	95	0	119	34	18	21	25	1.96
1992903--1992950	19	2.7	19	76	20	50	29	10	16	43	1.81
1997609--1997653	21	2.1	21	87	0	63	31	28	24	15	1.96
1998044--1998083	16	2.4	17	83	4	55	22	5	25	47	1.71
1998456--1998498	2	21.5	2	100	0	86	51	0	0	48	1.00
1998800--1998893	30	3.1	30	92	3	145	20	21	26	31	1.98
2002429--2002456	10	2.8	10	100	0	56	60	0	0	39	0.97
2003614--2003651	14	2.8	14	81	18	53	55	0	0	44	0.99
2004556--2004580	5	5.0	5	100	0	50	40	0	0	60	0.97
2005450--2005503	21	2.5	22	84	3	65	44	1	1	51	1.22
2005901--2005952	20	2.6	20	96	0	95	38	26	13	21	1.90
2005942--2006040	21	4.8	20	72	6	72	36	23	19	21	1.95
2006007--2006200	20	9.6	20	81	5	221	35	25	19	19	1.95
2006007--2006200	60	3.2	60	83	0	253	35	25	19	19	1.95
2006581--2006651	33	2.2	33	92	0	115	11	22	18	47	1.80
2006772--2006826	14	3.6	14	73	21	56	40	23	27	9	1.85
2006772--2006842	33	2.2	33	92	0	115	42	25	23	8	1.82
2006838--2006935	19	5.7	19	70	22	81	10	24	22	42	1.84
2006860--2006949	14	5.7	14	74	23	81	8	25	23	42	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2006843--2006957	33	3.5	33	95	0	212	9	24	20	45	1.81
2008648--2009118	93	5.1	93	98	1	912	22	12	19	45	1.83
2009162--2009296	19	7.6	19	74	16	110	45	26	18	9	1.80
2009198--2009291	33	2.9	32	88	4	152	46	25	19	8	1.77
2009162--2009296	52	2.6	51	74	15	141	45	26	18	9	1.80
2009292--2009420	19	7.3	19	73	17	116	11	18	23	46	1.82
2009308--2009364	14	3.7	14	72	20	51	12	21	21	45	1.83
2009296--2009383	33	2.7	33	92	0	149	12	20	19	47	1.81
2011324--2011359	14	2.6	14	95	0	63	33	0	22	44	1.53
2011466--2011565	19	5.6	18	79	15	127	44	17	24	15	1.86
2011572--2011899	33	9.5	33	78	15	208	14	19	18	47	1.83
2011594--2011899	19	17.4	19	79	16	347	14	19	18	47	1.82
2011594--2011871	52	5.2	52	90	6	343	14	20	17	47	1.82
2014198--2014222	12	2.1	12	100	0	50	0	28	0	72	0.86
2015113--2015481	20	18.5	20	85	4	449	20	18	26	34	1.96
2016041--2016104	23	2.8	23	87	0	92	42	6	12	39	1.68
2017936--2018073	52	2.5	55	80	11	131	44	3	2	48	1.35
2021410--2021439	2	15.0	2	100	0	60	50	0	50	0	1.00
2021912--2021992	15	5.5	15	82	5	103	39	7	17	35	1.78
2021912--2021992	29	2.8	30	88	5	121	39	7	17	35	1.78
2021907--2021992	44	2.0	43	90	6	138	41	6	17	33	1.76
2021975--2022024	20	2.5	20	96	0	91	44	10	12	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2022216--2022256	19	2.0	21	86	9	59	63	0	0	36	0.95
2022189--2022257	25	2.8	24	82	12	77	57	1	1	39	1.16
2022227--2022265	21	1.9	20	84	5	51	64	0	0	35	0.94
2022274--2022344	29	2.4	29	81	11	83	50	0	1	47	1.09
2022549--2022665	42	2.8	42	96	0	207	46	17	20	15	1.84
2023152--2023770	324	1.9	324	89	1	963	39	11	10	38	1.76
2024058--2024127	34	2.1	32	86	5	95	22	30	15	31	1.95
2024342--2024381	21	1.9	22	90	10	66	15	10	37	37	1.80
2024410--2024451	21	2.0	21	95	0	75	26	28	21	23	1.99
2024630--2024719	31	3.0	31	90	4	141	42	16	5	35	1.72
2024969--2025074	24	4.4	25	74	14	82	53	1	1	42	1.22
2025111--2025151	15	2.9	14	88	3	55	58	0	2	39	1.11
2037480--2037523	2	22.0	2	100	0	88	50	0	0	50	1.00
2042685--2042738	20	2.7	20	100	0	108	27	14	24	33	1.94
2042784--2042822	21	1.9	21	89	5	62	35	15	12	35	1.86
2048080--2048309	40	5.7	40	70	18	145	29	18	24	27	1.98
2049337--2049404	30	2.3	30	79	2	75	36	7	23	32	1.83
2049538--2049594	3	18.7	3	78	10	62	36	0	0	63	0.95
2049525--2049590	15	4.3	16	79	11	68	36	0	0	63	0.95
2049529--2049568	12	3.5	11	83	10	53	40	0	0	60	0.97
2049522--2049593	24	3.1	23	81	13	85	34	0	0	65	0.93
2049989--2050038	18	2.5	19	81	18	57	60	20	20	0	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2051762--2051819	28	2.1	27	84	6	73	32	5	1	60	1.29
2062475--2062549	19	4.1	18	81	6	89	82	1	13	2	0.84
2062479--2062551	18	4.0	18	78	16	78	82	1	13	2	0.85
2062480--2062549	28	2.6	25	84	13	86	82	1	12	2	0.84
2062475--2062550	20	4.0	19	80	14	70	82	1	13	2	0.83
2062475--2062549	37	2.1	37	85	7	100	82	1	13	2	0.84
2063242--2063692	115	3.9	115	95	0	780	35	15	18	31	1.92
2064435--2065148	113	6.4	112	85	6	903	38	13	19	28	1.90
2064435--2065148	334	2.1	335	87	4	1010	38	13	19	28	1.90
2065284--2065363	9	8.8	9	73	17	58	35	0	0	65	0.93
2065282--2065363	27	3.1	27	75	18	82	34	0	0	65	0.93
2065294--2065360	12	5.4	12	80	16	66	37	0	0	62	0.95
2065301--2065367	12	6.1	12	76	16	58	38	0	0	61	0.96
2065303--2065367	15	4.3	15	78	7	78	36	0	0	63	0.95
2065762--2065811	18	2.5	19	81	18	57	60	20	20	0	1.37
2068474--2068728	46	5.6	45	89	1	350	41	7	18	31	1.78
2068474--2068728	91	2.8	90	86	2	359	41	7	18	31	1.78
2068474--2068722	137	1.8	135	88	1	381	41	7	18	32	1.79
2068945--2068992	20	2.4	20	96	0	87	35	14	12	37	1.84
2069467--2069665	40	4.9	40	71	15	147	34	21	21	23	1.97
2069460--2069718	124	2.1	125	85	2	342	34	22	18	23	1.96
2070307--2070358	10	5.3	9	82	13	59	34	3	1	59	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2070265--2070358	3	29.7	3	73	14	64	34	4	6	55	1.45
2074874--2074910	14	2.6	14	91	0	56	27	21	27	24	1.99
2082574--2082617	22	2.0	22	90	0	70	27	0	36	36	1.57
2084937--2085000	25	2.6	25	80	7	78	48	12	3	35	1.57
2089744--2089921	90	2.0	90	88	0	266	44	5	12	37	1.66
2091804--2091835	15	2.1	15	100	0	64	28	12	40	18	1.87
2092694--2092879	90	2.1	90	85	2	257	35	18	15	30	1.92
2094557--2094582	3	8.7	3	100	0	52	30	0	0	69	0.89
2099670--2099728	17	3.5	17	68	13	50	28	15	8	47	1.74
2099719--2099764	18	2.6	18	92	0	74	32	6	13	47	1.68
2112824--2112866	17	2.6	17	85	3	52	32	18	18	30	1.95
2113559--2114620	540	2.0	542	90	1	1675	33	14	19	33	1.92
2119443--2119520	18	4.6	18	67	15	58	62	5	10	21	1.46
2119493--2119528	18	2.1	18	89	5	56	58	2	13	25	1.49
2119681--2119724	22	2.0	23	95	4	81	45	0	9	45	1.35
2120621--2120652	12	2.7	12	90	0	55	25	15	15	43	1.86
2121680--2121732	25	2.2	25	83	10	65	20	20	13	45	1.84
2121675--2121732	24	2.4	24	80	8	64	20	20	13	44	1.85
2122554--2122654	32	3.2	32	63	8	91	37	7	6	47	1.60
2122552--2122676	61	2.0	61	100	0	250	35	8	8	48	1.62
2125340--2125382	19	2.3	19	91	0	68	39	11	9	39	1.74
2125446--2125505	29	2.0	31	87	6	88	43	15	6	35	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2125532--2125599	22	3.0	22	68	14	59	48	5	0	45	1.26
2125815--2126224	43	9.7	43	73	3	258	25	21	21	31	1.98
2128873--2128911	20	2.0	20	85	10	53	61	2	33	2	1.23
2135875--2135900	12	2.2	12	100	0	52	30	7	11	50	1.67
2147761--2147819	23	2.7	21	77	10	64	22	27	15	35	1.94
2150082--2150115	13	2.6	14	86	13	54	44	8	5	41	1.60
2154745--2155276	46	11.6	46	83	0	632	21	21	14	42	1.88
2155759--2155806	18	2.5	19	83	12	55	29	22	10	37	1.88
2157618--2157669	27	2.0	27	85	7	72	59	5	7	26	1.48
2161031--2161107	16	4.6	16	73	16	57	54	5	0	40	1.23

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29