genome.fa.s1978.2.7.7.80.10.50.1000.7.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: VEPZ01001978.1 Hibiscus syriacus cultivar Beakdansim tig00004013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2594977

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  7  of  10  ( 1125 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)
1633696--1633965	125	2.2	124	87	3	398	31	16	27	24	1.96
1633736--1634013	125	2.2	125	85	2	371	34	15	26	22	1.94
1634735--1635203	213	2.2	213	89	1	751	31	14	19	33	1.92
1640125--1640212	27	3.3	26	80	13	92	19	4	1	75	1.05
1640134--1640213	28	3.0	26	80	14	90	18	5	1	75	1.06
1640125--1640219	25	3.7	25	78	14	88	18	4	1	75	1.02
1640131--1640225	29	3.3	28	76	16	72	18	4	2	74	1.08
1640296--1640329	17	2.1	17	88	5	52	11	5	5	76	1.14
1643487--1643578	27	3.4	26	76	13	87	80	3	10	5	0.99
1643505--1643573	11	6.4	10	74	14	57	82	2	8	5	0.92
1644596--1644689	32	2.9	32	83	1	125	29	15	22	31	1.95
1645794--1645870	37	2.1	36	92	2	127	27	22	12	37	1.91
1645923--1646013	33	2.8	32	91	4	148	36	20	9	32	1.86
1647001--1647088	28	3.3	26	74	21	74	15	7	0	76	1.01
1647198--1647256	28	2.1	28	87	3	82	18	8	3	69	1.28
1653126--1653245	38	3.1	38	84	1	150	30	25	20	23	1.98
1653597--1653635	16	2.4	16	84	12	53	79	0	7	12	0.93
1653605--1653647	13	2.9	15	86	10	54	81	0	6	11	0.87
1653598--1653650	15	3.5	15	79	7	54	81	0	5	13	0.86
1654064--1654295	114	2.0	115	98	1	448	29	29	14	26	1.95
1655988--1656102	48	2.5	47	82	4	135	32	20	7	40	1.81
1656115--1656196	40	2.0	40	97	0	155	31	26	17	24	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1662985--1663106	40	3.0	40	95	0	217	33	26	16	23	1.96
1666881--1666977	48	2.0	48	84	5	126	49	4	17	28	1.65
1677633--1677736	23	4.4	24	73	4	86	30	24	24	21	1.99
1683783--1683885	24	4.4	24	76	6	104	33	23	20	22	1.97
1685669--1685747	30	2.6	28	74	20	70	34	13	3	48	1.61
1692121--1692206	22	3.9	22	72	6	75	27	17	19	34	1.95
1694539--1694634	50	1.9	50	83	8	124	37	26	14	21	1.92
1700506--1700551	20	2.3	20	100	0	92	26	28	17	28	1.98
1701404--1701433	2	15.0	2	100	0	60	50	0	0	50	1.00
1702727--1702764	15	2.5	15	100	0	76	26	36	5	31	1.79
1709051--1709122	35	2.0	36	94	2	128	44	19	18	18	1.87
1712056--1712099	21	2.0	23	83	16	58	2	11	11	75	1.15
1713291--1713544	65	3.9	65	84	1	321	42	12	18	26	1.86
1713291--1713544	130	2.0	130	86	1	357	42	12	18	26	1.86
1720866--1720898	17	2.0	17	88	5	50	42	12	18	27	1.85
1721383--1721417	3	11.7	3	100	0	70	68	31	0	0	0.90
1721416--1721441	3	8.7	3	100	0	52	69	0	0	30	0.89
1722890--1723213	163	2.0	163	96	0	594	35	16	24	23	1.95
1725604--1725647	17	2.6	17	92	7	72	40	6	22	29	1.80
1729063--1729098	19	1.9	18	88	5	54	55	0	2	41	1.14
1737159--1738287	53	21.0	53	86	3	1530	28	28	14	29	1.95
1737159--1738300	108	10.6	108	90	2	1696	28	28	14	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1737159--1738287	161	7.0	161	87	4	1598	28	28	14	29	1.95
1743334--1743383	13	4.1	12	87	12	75	48	16	16	20	1.82
1743334--1743383	6	8.2	6	89	10	75	48	16	16	20	1.82
1743334--1743383	19	2.7	19	96	3	93	48	16	16	20	1.82
1750248--1750292	23	1.9	24	90	4	74	60	4	13	22	1.51
1756207--1756301	42	2.3	41	76	7	102	28	20	20	31	1.97
1758161--1758634	182	2.6	182	89	0	698	42	13	17	26	1.86
1758555--1758601	20	2.4	19	79	10	58	55	10	14	19	1.68
1760843--1760883	21	2.0	21	90	0	64	41	12	26	19	1.87
1760920--1760983	33	1.9	33	93	0	110	29	1	45	23	1.62
1762125--1763511	182	7.7	182	93	1	2326	41	13	17	27	1.86
1762126--1763511	362	3.8	361	94	0	2321	41	13	17	27	1.86
1762125--1763495	544	2.5	543	93	1	2354	41	13	16	28	1.86
1763644--1763806	87	1.9	87	93	0	281	33	13	10	42	1.78
1763728--1763772	23	2.0	23	90	0	72	37	13	8	40	1.76
1764298--1764393	50	1.9	50	89	0	147	21	23	26	28	1.99
1768042--1768089	3	16.0	3	87	8	71	33	35	0	31	1.58
1770138--1770216	39	2.0	39	85	4	106	62	1	1	35	1.12
1773908--1773947	21	1.9	21	89	0	62	10	25	40	25	1.86
1777797--1777836	21	1.9	21	85	10	55	35	10	2	52	1.48
1779756--1779964	76	2.8	77	83	5	266	21	23	32	23	1.98
1781790--1782042	137	1.8	137	82	1	328	39	7	6	47	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1784770--1784902	33	4.1	33	72	7	94	48	9	4	36	1.57
1785472--1785533	2	31.5	2	96	3	117	50	0	0	50	1.00
1785472--1785571	6	18.2	5	82	12	51	42	2	1	55	1.18
1795850--1795964	42	2.8	41	76	6	115	24	21	21	32	1.98
1795669--1796022	196	1.8	196	93	2	622	27	18	20	33	1.96
1796193--1796247	20	2.8	20	94	0	92	23	27	23	25	2.00
1796312--1796349	20	1.9	20	94	0	67	81	10	7	0	0.87
1796850--1797139	2	146.5	2	78	12	251	47	0	4	47	1.27
1797152--1797196	6	7.8	6	81	18	51	28	0	2	68	1.01
1797153--1797215	17	3.8	16	74	18	58	31	1	1	65	1.12
1797153--1797199	23	2.0	23	88	8	69	29	0	2	68	1.02
1797928--1797979	23	2.2	24	80	10	63	38	7	17	36	1.78
1797893--1798055	87	1.9	87	89	2	256	43	11	12	32	1.78
1798056--1798578	199	2.6	196	82	5	622	31	15	14	39	1.87
1798406--1798750	177	1.9	177	86	2	487	31	13	14	40	1.85
1802260--1803021	199	3.8	196	82	8	798	32	15	12	39	1.85
1806121--1807280	200	5.8	199	85	3	1499	31	16	15	36	1.90
1806115--1807280	401	2.9	396	87	4	1570	32	16	15	36	1.90
1807297--1807335	15	2.6	15	87	0	51	28	12	23	35	1.91
1807647--1807695	19	2.6	19	93	0	80	55	10	0	34	1.34
1809235--1809291	18	3.2	18	89	0	87	7	36	0	56	1.27
1809396--1809520	65	1.9	65	85	0	169	23	41	3	32	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1809541--1809584	21	2.1	21	95	0	79	13	34	11	40	1.81
1811984--1812476	182	2.7	181	86	2	675	28	15	14	40	1.87
1816115--1816457	138	2.5	138	78	6	370	31	14	15	38	1.88
1830847--1830894	24	2.0	24	83	0	60	54	12	2	31	1.49
1837055--1837087	16	2.0	17	94	5	59	3	30	0	66	1.06
1840887--1840935	2	24.5	2	100	0	98	51	0	0	48	1.00
1841092--1841142	26	2.0	26	84	0	66	33	21	21	23	1.97
1841101--1841142	13	3.2	13	89	0	57	35	19	19	26	1.95
1852050--1852076	12	2.2	12	100	0	54	33	37	7	22	1.82
1863001--1863083	24	3.5	24	72	6	69	22	10	16	49	1.77
1864016--1864198	94	2.0	93	87	3	269	31	12	19	36	1.89
1864028--1864221	94	2.1	94	79	5	205	32	13	18	35	1.90
1871049--1871102	2	28.5	2	85	10	78	46	0	0	53	1.00
1871050--1871109	16	3.8	16	88	4	61	41	1	1	55	1.20
1871245--1871284	2	20.0	2	100	0	80	50	0	0	50	1.00
1872650--1872715	25	2.6	25	100	0	132	27	15	7	50	1.71
1884358--1884390	2	16.5	2	100	0	66	48	0	0	51	1.00
1894330--1894361	11	2.9	11	100	0	64	9	15	0	75	1.05
1897165--1897258	28	3.4	26	69	22	68	30	17	23	28	1.97
1897167--1897287	55	2.2	55	86	2	163	29	18	23	28	1.97
1904964--1904993	16	1.9	15	93	6	51	16	0	0	83	0.65
1908585--1908633	23	2.1	23	85	7	64	30	2	14	53	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1917758--1917838	21	3.9	21	82	4	101	34	18	11	35	1.86
1917757--1917838	43	1.9	42	85	2	110	35	18	10	35	1.86
1928989--1929027	21	1.9	20	84	5	51	28	15	20	35	1.93
1949868--1951042	409	2.9	412	91	2	1875	40	10	12	35	1.78
1951303--1951327	5	5.0	5	100	0	50	80	0	0	20	0.72
1953559--1953618	24	2.5	24	84	7	70	45	1	3	50	1.28
1954150--1954219	22	3.2	20	65	27	52	50	7	12	30	1.67
1954155--1954224	23	3.0	24	70	8	72	50	8	12	28	1.70
1954137--1954224	46	1.9	46	100	0	176	53	6	12	27	1.63
1954524--1954591	31	2.2	31	79	12	77	38	2	10	48	1.52

Tables:   1   2   3   4   5   6   7   8   9   10