genome.fa.s8668.2.7.7.80.10.50.1000.9.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: VEPZ01008668.1 Hibiscus syriacus cultivar Beakdansim tig00111671_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2122653

Tables:   1   2   3   4   5   6   7   8   9   

This is table  9  of  9  ( 1078 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)
1851377--1851440	29	2.2	29	100	0	128	29	7	31	31	1.86
1851377--1851451	29	2.6	29	91	4	98	32	9	29	29	1.88
1860397--1860521	66	1.9	66	89	0	196	37	24	25	12	1.90
1866491--1866564	30	2.4	30	76	8	71	20	10	6	62	1.50
1870511--1870544	16	2.1	16	100	0	68	23	41	11	23	1.87
1870679--1870708	2	15.0	2	100	0	60	50	0	0	50	1.00
1876774--1876829	29	1.9	29	88	0	85	33	17	8	39	1.81
1879846--1879895	12	3.8	13	87	10	75	44	0	2	54	1.11
1882137--1882170	16	2.1	16	100	0	68	23	41	11	23	1.87
1882302--1882336	2	18.0	2	94	5	63	48	0	0	51	1.00
1884040--1884077	17	2.2	18	86	13	53	50	15	5	28	1.66
1887911--1887950	12	3.4	12	82	6	55	40	0	2	57	1.12
1888811--1889128	155	2.0	153	92	7	507	23	16	29	30	1.97
1891537--1891586	12	3.8	13	87	10	75	44	0	2	54	1.11
1893828--1893861	16	2.1	16	100	0	68	23	41	11	23	1.87
1893995--1894028	2	17.0	2	100	0	68	50	0	0	50	1.00
1900107--1900162	29	1.9	29	88	0	85	33	17	8	39	1.81
1944947--1946763	604	3.0	600	93	2	2898	38	15	12	34	1.84
1947552--1947592	3	13.7	3	100	0	82	31	0	0	68	0.90
1950354--1950456	12	8.6	12	71	8	66	16	12	20	50	1.77
1950324--1950456	24	5.5	24	85	0	149	18	12	18	51	1.77
1951590--1951635	18	2.6	18	89	0	65	32	13	30	23	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1952841--1952953	60	1.9	60	83	3	147	32	21	15	30	1.94
1959103--1959560	226	2.0	226	99	0	909	32	21	15	30	1.95
1962038--1962063	7	3.7	7	100	0	52	11	42	0	46	1.40
1962621--1962658	17	2.2	17	86	9	51	52	2	0	44	1.14
1962702--1962760	31	1.9	30	86	10	84	44	18	5	32	1.72
1964278--1964344	33	2.0	34	88	2	100	43	11	7	37	1.70
1969033--1969173	64	2.2	63	81	7	160	33	18	22	25	1.97
1969161--1969218	20	2.6	22	89	10	84	31	20	22	25	1.98
1972282--1972358	33	2.3	33	97	0	145	28	20	22	28	1.98
1981506--1981698	105	1.8	104	82	6	246	31	11	27	29	1.91
1984831--1984873	5	8.4	5	97	2	77	39	0	2	58	1.11
1991563--1991695	59	2.2	60	86	4	180	30	17	15	36	1.91
1995656--1995732	39	2.0	40	87	10	115	46	1	1	50	1.17
1995661--1995802	34	4.2	33	76	15	114	44	4	3	47	1.39
1995700--1995764	29	2.3	28	87	10	96	41	4	4	49	1.44
1995664--1995916	104	2.4	101	84	8	314	43	5	3	47	1.42
1995728--1995909	36	5.2	34	76	19	171	43	6	4	45	1.50
1995800--1995867	29	2.2	31	92	7	113	42	7	4	45	1.52
1995861--1995962	49	2.2	45	83	11	125	44	6	2	46	1.45
1995832--1995994	85	2.0	82	85	6	220	44	7	3	44	1.49
1995908--1996055	36	4.0	37	80	14	126	43	11	4	40	1.62
1997374--1997428	27	2.0	27	100	0	110	45	7	7	40	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1999349--1999394	20	2.3	20	96	0	83	43	28	15	13	1.83
2006058--2006091	16	2.1	16	100	0	68	29	11	35	23	1.90
2006337--2006395	29	2.0	29	100	0	118	38	3	3	54	1.34
2006333--2006408	29	2.5	29	89	6	116	38	3	3	53	1.38
2006767--2006806	20	2.0	21	90	5	64	45	0	17	37	1.49
2007348--2007701	20	17.5	20	76	5	217	39	24	17	18	1.92
2007389--2007701	61	5.1	61	79	8	300	39	24	16	18	1.91
2007389--2007701	81	3.9	82	81	7	309	39	24	16	18	1.91
2007423--2007702	101	2.8	100	85	9	347	40	23	16	18	1.91
2008510--2008563	24	2.2	24	93	0	90	20	18	20	40	1.91
2008756--2008785	12	2.5	12	100	0	60	40	26	20	13	1.89
2011090--2011290	33	5.8	33	78	8	186	43	18	20	16	1.88
2011123--2011257	19	7.5	19	68	18	83	42	17	21	17	1.89
2011472--2011508	14	2.6	14	91	0	65	45	21	0	32	1.52
2013020--2013076	14	3.7	14	75	20	60	45	22	22	8	1.80
2013012--2013095	33	2.5	33	98	0	159	47	20	22	9	1.78
2012972--2013117	19	8.1	19	74	17	132	45	19	23	11	1.82
2013118--2013209	21	4.8	21	70	20	83	11	22	17	47	1.80
2013745--2013940	20	9.6	20	81	9	207	16	18	26	37	1.93
2013745--2013940	41	4.8	41	83	6	211	16	18	26	37	1.93
2013745--2013940	61	3.2	61	87	4	252	16	18	26	37	1.93
2013742--2014001	102	2.5	101	86	6	341	17	18	25	38	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2013744--2014064	20	15.6	20	73	11	103	19	19	24	36	1.94
2017495--2017548	28	1.9	28	81	7	65	57	0	3	38	1.17
2017587--2017613	2	13.5	2	100	0	54	51	0	0	48	1.00
2026654--2026760	24	4.5	24	75	4	99	21	13	16	48	1.80
2028151--2028193	6	7.5	6	89	10	72	16	69	0	13	1.19
2029225--2029266	3	14.0	3	84	0	57	61	30	4	2	1.29
2029482--2029519	14	2.7	14	95	0	67	39	28	7	23	1.83
2030301--2030371	31	2.3	31	85	0	88	38	18	11	32	1.86
2030321--2030387	31	2.2	31	88	0	98	35	19	13	31	1.90
2036722--2036833	35	3.2	34	83	8	136	33	5	18	42	1.73
2041175--2041235	21	3.2	21	63	29	55	32	4	21	40	1.74
2041173--2041286	35	3.2	36	86	6	160	32	4	20	42	1.71
2043401--2043444	22	2.0	21	83	12	54	40	0	4	54	1.21
2043726--2043774	19	2.6	19	93	3	82	16	20	0	63	1.31
2048272--2048305	16	2.1	16	100	0	68	29	11	35	23	1.90
2048533--2048611	29	2.5	31	84	12	108	37	5	5	51	1.46
2049533--2049867	20	16.5	20	74	9	203	40	23	17	18	1.91
2049533--2049808	123	2.2	123	90	0	426	39	23	18	18	1.92
2049533--2049867	123	2.7	123	86	3	401	40	23	17	18	1.91
2049533--2049867	40	8.2	41	79	8	310	40	23	17	18	1.91
2050666--2050719	24	2.3	23	90	6	90	22	18	20	38	1.93
2053113--2053313	33	5.8	33	79	8	195	43	18	21	16	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2053146--2053280	19	7.5	19	68	18	83	42	17	21	17	1.89
2053313--2053354	19	2.2	19	83	8	50	16	19	23	40	1.91
2053323--2053388	19	3.7	19	69	19	61	13	21	18	46	1.83
2053494--2053529	14	2.6	14	86	4	56	47	22	0	30	1.52
2055036--2055092	14	3.7	14	75	20	60	45	22	22	8	1.80
2055028--2055111	33	2.5	33	98	0	159	47	20	22	9	1.78
2054988--2055133	19	8.1	19	74	17	123	45	18	23	12	1.83
2055134--2055225	21	4.8	21	72	20	92	10	22	18	47	1.79
2055155--2055227	34	2.1	35	87	2	103	10	23	19	46	1.81
2055761--2055936	20	8.6	20	82	8	203	17	18	26	38	1.92
2055763--2055936	41	4.3	41	88	3	201	17	18	25	38	1.92
2055761--2055936	61	2.9	61	88	3	248	17	18	26	38	1.92
2055761--2055956	41	4.8	41	86	5	195	16	18	27	37	1.92
2055965--2056017	20	2.7	20	88	5	72	13	16	24	45	1.83
2055758--2055999	102	2.4	101	87	4	337	17	18	26	38	1.92
2059510--2059546	18	2.2	18	90	9	60	62	0	0	37	0.96
2059609--2059641	13	2.4	14	90	10	50	42	15	0	42	1.46
2076321--2076400	9	9.9	8	73	20	51	60	0	0	40	0.97
2076321--2076382	25	2.4	26	78	7	65	62	0	0	37	0.95
2076309--2076392	33	2.5	34	96	1	152	59	0	0	40	0.97
2077868--2077899	2	16.0	2	100	0	64	50	0	0	50	1.00
2083686--2083752	34	2.0	34	93	0	116	44	22	11	20	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2084323--2084375	23	2.2	25	90	6	83	20	16	11	50	1.76
2084318--2084386	23	3.0	23	79	12	79	20	15	13	50	1.77
2085071--2085187	35	3.3	35	97	1	216	43	10	12	33	1.77
2110624--2110682	24	2.4	25	82	5	75	33	1	5	59	1.29
2112696--2112751	31	1.9	27	86	13	76	60	7	7	25	1.48
2114313--2114381	31	2.2	30	82	14	79	36	2	4	56	1.34
2114957--2114984	2	14.0	2	100	0	56	50	0	0	50	1.00
2116199--2116232	10	3.4	10	87	0	50	20	5	0	73	1.04

Tables:   1   2   3   4   5   6   7   8   9

The End!