genome.fa.s8717.2.7.7.80.10.50.1000.10.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: VEPZ01008717.1 Hibiscus syriacus cultivar Beakdansim tig00111772_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3453450

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   

This is table  10  of  16  ( 1896 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)
1735829--1735961	14	9.4	14	85	4	133	5	19	0	75	0.99
1735835--1735945	21	5.3	21	87	2	134	3	21	0	74	0.96
1738121--1738352	116	2.0	116	100	0	464	32	13	19	33	1.91
1738355--1738569	74	3.0	74	91	7	331	28	14	22	33	1.94
1738449--1738583	67	2.0	67	100	0	270	32	11	23	31	1.91
1746265--1746335	16	4.6	15	75	6	61	36	30	7	25	1.83
1746265--1746336	31	2.3	31	90	0	108	36	31	6	25	1.82
1748425--1748462	15	2.6	15	87	4	51	5	0	7	86	0.69
1748427--1748462	16	2.2	16	90	9	56	2	0	8	88	0.59
1750835--1750873	2	20.5	2	89	10	64	51	0	0	48	1.00
1759042--1759261	112	2.0	112	100	0	440	32	17	10	40	1.82
1762720--1762758	20	2.0	20	94	0	69	25	20	30	23	1.98
1762743--1762772	15	2.0	15	93	0	51	30	23	20	26	1.98
1763897--1764006	23	5.0	22	85	3	132	29	17	22	30	1.97
1764214--1764270	18	2.9	19	85	14	89	47	12	12	28	1.77
1767376--1767418	22	2.0	22	90	0	68	30	20	20	27	1.98
1767435--1767521	23	3.8	23	84	1	95	27	18	24	29	1.98
1769107--1769599	81	6.1	81	88	0	653	31	21	11	34	1.90
1772680--1773108	81	5.3	81	88	1	558	32	21	11	34	1.90
1772648--1773104	161	2.8	161	85	1	576	32	21	12	33	1.90
1777631--1777684	27	2.0	28	85	3	74	22	12	20	44	1.85
1777705--1777739	18	1.9	18	88	0	52	28	20	0	51	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1786537--1786761	77	2.9	76	78	11	222	46	6	0	46	1.31
1786612--1786658	2	23.5	2	100	0	94	48	0	0	51	1.00
1786537--1786761	54	4.3	54	74	15	206	46	6	0	46	1.31
1788392--1788445	25	2.3	24	79	17	60	70	1	1	25	1.07
1788454--1788721	37	7.4	37	81	14	319	43	8	4	44	1.53
1788585--1788710	63	1.9	67	90	6	206	44	6	3	45	1.47
1806465--1806504	21	1.9	21	89	0	62	65	0	5	30	1.14
1807811--1808115	38	8.3	37	85	5	379	44	8	1	45	1.45
1807972--1808004	13	2.4	14	85	10	50	45	9	0	45	1.35
1808048--1808111	12	5.3	12	71	14	60	45	7	1	45	1.42
1808048--1808107	11	5.1	11	72	20	50	45	8	1	45	1.43
1808820--1808897	35	2.3	35	79	20	85	35	11	10	42	1.75
1809778--1809805	3	9.3	3	100	0	56	32	0	0	67	0.91
1811577--1811642	30	2.2	30	88	0	96	33	13	28	24	1.93
1819750--1819812	21	2.9	21	83	4	72	20	34	25	19	1.96
1819794--1819833	21	1.9	21	85	10	55	25	37	25	12	1.91
1825006--1825050	21	2.1	22	83	4	56	28	13	28	28	1.94
1834664--1834706	2	21.5	2	100	0	86	48	0	0	51	1.00
1835504--1835562	26	2.3	26	96	0	109	38	10	15	35	1.81
1838310--1838344	13	2.7	13	91	8	54	0	22	0	77	0.78
1839038--1839081	3	14.7	3	90	0	70	61	0	4	34	1.16
1839273--1839823	134	4.1	134	82	0	638	31	16	19	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1840818--1840912	4	23.5	4	76	19	74	4	20	0	75	0.96
1840818--1840912	41	2.4	41	84	8	124	4	20	0	75	0.96
1840818--1840914	27	3.6	27	75	19	87	5	20	0	74	1.01
1851940--1851973	2	17.0	2	100	0	68	50	0	0	50	1.00
1853179--1853210	15	2.0	17	88	11	50	9	6	21	62	1.47
1855979--1856007	15	1.9	15	100	0	58	34	27	20	17	1.95
1856417--1856441	12	2.1	12	100	0	50	56	0	44	0	0.99
1864140--1864178	20	2.0	20	89	0	60	30	33	15	20	1.94
1864297--1864348	19	2.7	19	96	0	95	21	30	21	26	1.98
1865765--1865948	92	2.0	92	97	0	350	32	8	7	51	1.61
1866067--1866169	26	4.0	26	70	16	88	39	17	5	36	1.74
1866055--1866158	51	2.0	51	100	0	208	36	17	3	42	1.67
1866239--1866279	21	2.0	21	90	0	64	39	19	12	29	1.88
1866377--1866417	20	2.0	20	90	0	64	58	0	2	39	1.11
1869802--1869883	29	2.8	29	92	1	137	31	13	13	41	1.83
1874340--1874421	29	2.8	29	92	1	137	31	13	13	41	1.83
1880663--1880698	19	1.9	19	94	5	65	72	5	2	19	1.17
1882070--1882148	3	26.3	3	94	0	140	63	0	2	34	1.08
1882466--1883471	113	8.9	113	98	0	1915	29	18	14	37	1.90
1885404--1885475	8	9.1	8	80	10	78	0	16	0	83	0.65
1885403--1885475	13	5.5	12	80	16	74	0	17	0	82	0.68
1896881--1896916	19	1.9	19	94	5	65	72	5	2	19	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1898290--1898374	3	28.3	3	95	0	152	63	0	2	34	1.07
1906577--1906631	21	2.6	21	94	0	92	49	10	21	18	1.78
1907110--1907247	59	2.4	58	86	1	177	31	6	18	42	1.76
1907222--1907403	29	6.3	29	90	3	260	32	4	15	47	1.66
1913899--1913941	22	2.0	22	90	0	68	16	9	32	41	1.80
1913905--1913948	22	2.0	22	86	0	61	20	9	31	38	1.84
1914091--1914166	29	2.7	29	89	6	111	53	14	0	31	1.41
1914144--1914345	58	3.5	58	90	0	316	44	15	8	31	1.76
1918740--1919018	139	2.0	139	100	0	558	30	21	25	22	1.98
1926112--1926155	21	2.1	21	86	0	61	27	0	22	50	1.50
1927878--1927917	3	13.3	3	100	0	80	67	0	0	32	0.91
1928088--1928795	134	5.3	134	82	2	816	31	15	20	31	1.94
1928088--1928791	267	2.6	264	85	3	874	31	15	20	32	1.94
1932183--1932536	176	2.0	177	98	1	692	24	17	18	39	1.91
1932799--1933775	6	167.5	6	89	9	1541	49	17	0	33	1.47
1940714--1940746	3	11.0	3	100	0	66	66	0	0	33	0.92
1943140--1943448	139	2.2	137	77	7	293	30	13	14	41	1.85
1943624--1943678	2	28.0	2	96	3	103	50	0	0	49	1.00
1943799--1943898	2	52.5	2	77	16	97	47	0	3	50	1.16
1944692--1945193	59	8.5	59	92	1	785	32	19	14	34	1.91
1949810--1949867	25	2.3	25	100	0	116	15	22	15	46	1.83
1954320--1954365	18	2.6	17	82	6	56	63	0	2	34	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1955045--1955126	29	2.8	29	94	1	137	32	14	9	42	1.79
1956415--1956444	15	2.0	15	93	0	51	56	23	0	20	1.42
1960049--1960130	29	2.8	29	94	1	137	32	14	9	42	1.79
1980395--1980462	27	2.6	26	74	25	63	66	2	2	27	1.21
1981977--1982306	113	2.9	113	95	0	597	28	19	15	37	1.92
1982308--1982678	73	5.1	73	94	1	629	37	13	18	30	1.89
1982692--1983012	166	1.9	163	91	3	518	37	13	14	34	1.85
1983521--1983598	22	3.5	22	87	3	111	38	14	12	34	1.84
1985146--1985219	36	2.1	34	82	9	87	31	21	14	32	1.94
1991144--1991178	16	2.3	15	95	5	61	68	5	8	17	1.35
1991236--1991275	14	2.9	14	85	10	55	60	7	17	15	1.57
1993974--1994012	20	2.0	20	84	0	51	53	7	12	25	1.65
1994047--1994086	14	2.9	14	85	10	55	60	7	17	15	1.57
1996952--1997009	25	2.2	28	78	12	68	55	1	0	43	1.10
1997147--1997214	27	2.6	26	74	25	63	66	2	2	27	1.21
1999858--1999979	61	2.0	60	93	1	208	29	22	23	23	1.99
2008458--2008692	54	4.4	54	86	0	319	38	19	15	26	1.91
2014065--2014107	13	3.3	13	83	6	52	32	20	13	32	1.92
2022050--2022088	3	13.0	3	100	0	78	0	33	0	66	0.92
2023111--2023236	54	2.3	54	88	0	180	34	23	15	25	1.95
2027838--2027910	3	24.3	3	100	0	146	32	0	0	67	0.91
2033548--2033591	2	22.0	2	100	0	88	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)
2033904--2033929	2	13.0	2	100	0	52	50	0	0	50	1.00
2035463--2035495	17	1.9	17	93	0	57	45	6	9	39	1.61
2035732--2035776	18	2.5	18	96	0	81	48	11	20	20	1.79
2038171--2038482	156	2.0	156	98	1	608	27	30	16	26	1.96
2038901--2039080	29	6.2	29	82	8	177	34	5	20	39	1.76
2038901--2039080	59	3.1	56	78	10	191	34	5	20	39	1.76
2039826--2039858	15	2.2	15	89	10	50	24	18	12	45	1.83
2043466--2044481	500	2.0	500	92	0	1712	28	16	23	30	1.96
2046582--2046641	29	2.1	29	87	0	84	35	6	16	41	1.75
2047399--2047431	15	2.2	16	89	10	52	21	18	12	48	1.80

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16