genome.fa.s8531.2.7.7.80.10.50.1000.10.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: VEPZ01008531.1 Hibiscus syriacus cultivar Beakdansim tig00111409_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3817888

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   

This is table  10  of  19  ( 2279 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)
1769255--1769312	28	2.0	29	83	3	73	34	6	13	44	1.71
1769326--1769466	67	2.1	68	87	1	203	41	14	4	38	1.68
1770019--1770075	30	1.9	29	89	3	87	38	5	12	43	1.65
1770019--1770092	30	2.5	30	79	14	75	37	5	12	44	1.65
1772445--1772695	139	1.8	137	84	1	324	29	12	15	43	1.83
1779352--1779383	5	6.8	5	86	13	50	18	0	0	81	0.70
1779354--1779381	13	2.2	13	100	0	56	21	0	0	78	0.75
1779347--1779389	18	2.4	17	85	11	59	20	2	0	76	0.89
1779690--1779721	12	2.6	12	95	5	55	34	3	0	62	1.11
1784639--1784791	77	2.0	78	81	10	179	43	4	7	44	1.52
1790700--1790758	4	15.2	4	75	10	52	81	0	16	1	0.78
1790703--1790804	8	12.1	8	74	13	71	78	0	14	6	0.95
1790700--1790761	11	5.4	12	84	5	76	80	0	17	1	0.79
1790703--1790787	42	2.0	43	86	11	120	77	0	17	4	0.93
1790703--1790804	26	4.0	26	79	10	81	78	0	14	6	0.95
1794806--1794883	7	10.3	7	72	22	52	80	0	14	5	0.87
1794806--1794876	18	3.9	18	72	17	65	80	0	14	5	0.89
1794810--1794877	11	6.3	10	79	12	64	80	0	13	5	0.87
1794817--1794893	26	3.1	24	82	14	86	80	0	11	7	0.90
1794806--1794883	6	12.5	6	71	16	52	80	0	14	5	0.87
1798660--1798693	5	6.8	5	86	0	50	17	2	0	79	0.86
1798654--1798686	15	2.2	15	100	0	66	21	6	0	72	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1798654--1798693	15	2.7	15	92	0	53	20	5	0	75	0.99
1803626--1803751	45	2.7	45	74	7	119	25	18	8	47	1.77
1803720--1804176	79	5.8	79	94	1	792	29	24	10	36	1.88
1804201--1804382	68	2.7	68	89	0	274	31	22	14	31	1.94
1804732--1804892	58	2.8	59	85	1	218	32	21	13	31	1.92
1805215--1805440	95	2.4	95	80	7	237	26	19	15	39	1.91
1807032--1807102	32	2.2	32	85	5	90	28	23	30	16	1.97
1808588--1808625	20	1.9	20	94	0	67	26	21	15	36	1.93
1811347--1811371	2	12.5	2	100	0	50	52	0	0	48	1.00
1812297--1812412	32	3.6	32	80	4	108	29	22	28	19	1.98
1812293--1812414	64	1.9	63	83	1	154	28	22	28	20	1.98
1813864--1813905	20	2.1	20	90	0	66	28	26	14	30	1.95
1815922--1815983	30	2.0	30	84	9	81	35	12	16	35	1.87
1825713--1825771	28	2.1	28	96	0	109	20	18	22	38	1.93
1826911--1826966	21	2.6	21	88	2	76	23	19	5	51	1.67
1828407--1828441	16	2.2	16	90	10	54	25	8	0	65	1.21
1830051--1830187	6	21.5	6	80	14	59	78	0	14	6	0.93
1830092--1830116	4	6.2	4	100	0	50	76	0	24	0	0.80
1830072--1830171	48	2.1	47	85	5	130	81	0	10	9	0.89
1830363--1830626	117	2.3	116	79	7	275	31	17	17	33	1.93
1833087--1833151	32	2.0	32	94	5	114	30	9	18	41	1.82
1834693--1834945	138	1.8	138	82	1	328	26	13	16	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1836839--1837052	76	2.9	77	88	6	298	56	13	1	28	1.45
1843868--1844081	76	2.9	76	90	3	319	57	13	1	28	1.45
1843952--1844066	25	4.6	24	66	17	72	58	14	0	26	1.43
1846168--1846212	19	2.4	19	100	0	90	28	35	15	20	1.93
1852565--1852726	42	3.8	41	86	6	200	33	23	24	18	1.97
1853656--1853811	29	5.4	29	81	6	163	44	18	3	33	1.68
1853650--1853811	87	1.9	87	86	0	234	43	18	4	33	1.70
1853656--1853811	58	2.7	58	84	0	204	44	18	3	33	1.68
1853811--1853836	7	3.7	7	100	0	52	23	30	30	15	1.95
1855894--1855932	21	1.9	20	89	5	60	30	12	23	33	1.92
1860620--1860681	20	3.3	19	67	28	51	46	6	0	46	1.28
1861492--1861534	3	14.3	3	100	0	86	32	0	0	67	0.91
1863563--1863619	2	28.5	2	100	0	114	50	0	0	49	1.00
1865216--1865287	35	2.0	36	81	7	85	22	15	45	16	1.84
1865563--1865624	28	2.2	28	88	5	90	20	3	9	66	1.35
1871485--1871530	18	2.7	18	93	6	78	28	32	6	32	1.83
1871985--1872053	28	2.4	30	77	18	74	24	8	7	59	1.52
1872309--1873081	138	5.6	137	80	6	726	30	12	13	43	1.80
1874453--1875220	138	5.5	136	80	7	701	30	11	13	44	1.79
1876596--1877363	138	5.5	136	80	7	701	30	11	13	44	1.79
1876596--1877363	415	1.9	414	80	5	924	30	11	13	44	1.79
1881237--1881298	23	2.7	23	90	2	90	20	24	32	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1891926--1891964	16	2.4	16	100	0	78	35	20	17	25	1.95
1892061--1892133	20	3.7	19	76	8	74	38	9	19	32	1.84
1892496--1892801	9	32.9	9	72	18	175	75	2	5	16	1.10
1892496--1892802	5	62.8	5	70	19	177	75	2	5	16	1.09
1892495--1892806	24	13.0	23	71	16	143	75	2	5	16	1.10
1892575--1892802	14	16.7	13	73	19	157	75	2	3	18	1.04
1892768--1892802	11	3.2	11	84	15	54	82	0	2	14	0.77
1892772--1892806	17	2.1	17	89	10	54	82	0	5	11	0.82
1892878--1892923	19	2.3	20	81	7	58	76	2	0	21	0.90
1892894--1892950	11	4.7	12	75	25	57	73	0	0	26	0.83
1892894--1892947	3	17.7	3	81	11	65	74	0	0	25	0.83
1893970--1894026	18	3.2	17	80	7	69	50	0	3	45	1.18
1894613--1894931	85	3.8	85	80	5	279	26	18	19	35	1.95
1901810--1902057	5	50.6	5	68	17	87	77	2	6	13	1.08
1901819--1902080	11	23.5	11	69	19	77	76	2	7	13	1.10
1901819--1901927	17	6.8	17	82	13	108	77	2	9	11	1.10
1901819--1902061	34	7.5	33	70	20	117	76	2	7	13	1.09
1901810--1902078	101	2.7	97	72	18	223	76	2	7	13	1.09
1901934--1902166	88	2.7	85	77	13	205	74	1	5	18	1.09
1902116--1902155	20	2.0	20	95	4	73	85	0	5	10	0.75
1902037--1902181	79	1.8	79	80	12	174	72	2	6	19	1.16
1903138--1903194	18	3.2	17	82	7	78	50	0	3	45	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1903829--1904100	85	3.2	85	86	1	375	26	19	19	34	1.96
1910546--1910826	5	56.6	5	66	19	83	73	1	6	18	1.12
1910558--1910629	26	2.9	25	76	15	78	77	2	8	11	1.08
1910555--1910681	29	4.4	29	72	19	88	74	2	6	16	1.12
1910638--1910802	19	9.5	17	72	17	74	72	1	6	20	1.12
1910546--1910825	9	31.3	9	69	17	122	73	1	6	18	1.12
1910695--1910825	47	2.8	44	77	18	133	74	0	6	18	1.03
1910790--1910842	22	2.3	23	84	9	65	75	1	3	18	1.05
1910880--1910951	29	2.5	30	77	11	78	72	2	2	22	1.11
1919288--1919339	26	2.0	26	100	0	104	26	3	42	26	1.73
1919541--1919576	18	2.0	18	100	0	72	44	11	16	27	1.82
1920390--1920570	43	4.2	43	93	1	290	53	7	11	27	1.64
1923581--1923619	19	2.1	19	85	0	51	41	0	10	48	1.37
1926116--1926156	2	20.5	2	100	0	82	48	0	0	51	1.00
1926507--1926565	2	31.0	2	77	16	63	49	1	3	45	1.28
1928923--1928949	8	3.4	8	100	0	54	37	0	11	51	1.37
1929112--1929205	12	7.8	12	93	0	98	24	0	24	51	1.49
1929123--1929207	6	14.2	6	96	0	125	21	0	27	51	1.48
1929112--1929205	18	5.2	18	93	0	98	24	0	24	51	1.49
1929204--1929345	6	23.7	6	97	0	248	0	16	47	35	1.51
1929347--1929913	6	94.8	6	98	0	553	20	7	28	43	1.79
1934034--1934086	12	4.2	12	75	15	54	28	13	1	56	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1940655--1940698	18	2.4	19	80	7	54	22	18	4	54	1.61
1949206--1949250	2	22.5	2	100	0	90	51	0	0	48	1.00
1949505--1949551	17	2.8	17	81	12	60	46	0	6	46	1.28
1955001--1955030	6	4.8	6	92	8	51	16	16	16	50	1.79
1958412--1958655	109	2.2	107	86	2	344	32	19	25	22	1.97
1958892--1959051	80	2.0	80	93	0	275	26	15	21	36	1.93
1960007--1960950	215	4.4	214	89	2	1380	33	15	18	32	1.93
1960007--1960950	429	2.2	428	88	2	1407	33	15	18	32	1.93
1961044--1961117	22	3.5	21	69	14	53	24	18	22	33	1.97
1961038--1961119	42	2.0	42	92	0	137	24	18	24	32	1.97

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19