genome.fa.s7776.2.7.7.80.10.50.1000.9.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: VEPZ01007776.1 Hibiscus syriacus cultivar Beakdansim tig00110057_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2207776

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  9  of  11  ( 1243 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)
1664056--1664129	37	2.1	36	84	5	96	40	9	8	41	1.67
1664307--1664405	29	3.4	29	69	15	87	45	6	2	46	1.39
1664304--1664428	58	2.2	58	94	0	214	44	6	2	47	1.42
1664412--1664514	13	7.3	13	70	17	64	41	5	6	45	1.55
1664584--1664645	2	30.5	2	79	9	63	50	6	0	43	1.28
1664663--1664687	11	2.3	11	100	0	50	56	16	0	28	1.41
1666789--1666881	31	3.0	31	90	0	141	40	12	25	20	1.88
1670888--1670937	24	2.1	24	85	7	66	36	12	4	48	1.59
1671088--1671148	28	2.2	28	82	5	70	31	0	3	65	1.09
1671097--1671147	21	2.4	21	74	9	50	29	0	1	68	1.00
1671097--1671149	15	3.7	14	73	14	54	32	0	1	66	1.03
1671881--1671914	10	3.4	10	83	0	50	8	14	23	52	1.69
1682347--1682398	23	2.4	21	90	6	77	50	0	9	40	1.35
1682346--1682390	23	2.0	23	100	0	90	48	0	11	40	1.39
1693030--1693069	20	2.0	20	85	5	53	42	17	12	27	1.85
1693559--1693637	22	3.6	22	89	0	122	35	13	11	39	1.81
1694364--1694563	36	5.5	35	69	6	139	30	18	13	38	1.88
1694363--1694581	73	3.0	73	92	1	368	31	19	12	36	1.89
1694394--1694582	36	5.2	35	68	13	123	32	19	13	34	1.90
1694605--1695291	122	5.7	122	84	6	877	39	16	18	25	1.91
1696477--1696516	2	20.5	2	89	5	64	50	0	0	50	1.00
1696774--1696827	23	2.5	22	77	14	58	57	1	0	40	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1705772--1705806	17	2.1	17	88	0	52	48	11	14	25	1.77
1706261--1706325	30	2.2	30	100	0	130	26	16	21	35	1.95
1706909--1706939	15	2.1	15	93	0	53	45	0	0	54	0.99
1720840--1720899	12	4.9	12	72	11	59	66	1	1	30	1.11
1720840--1720899	24	2.5	24	86	8	77	66	1	1	30	1.11
1722068--1722120	21	2.4	22	84	6	63	45	0	0	54	0.99
1722068--1722117	23	2.2	23	82	7	57	42	0	0	58	0.98
1726111--1726145	17	2.1	17	94	0	61	62	0	11	25	1.28
1728947--1729033	18	4.8	18	89	0	129	28	29	20	20	1.98
1729293--1729350	2	29.0	2	96	0	107	48	0	1	50	1.11
1736470--1736555	26	3.3	26	88	0	127	24	16	29	30	1.96
1736992--1737018	2	13.5	2	100	0	54	51	0	0	48	1.00
1737765--1737815	18	2.8	18	87	0	75	29	31	19	19	1.97
1738822--1738869	26	1.9	24	83	8	60	31	18	6	43	1.75
1745289--1745717	101	4.0	102	70	19	300	28	17	16	37	1.92
1745392--1745616	122	1.8	122	91	1	371	27	18	17	36	1.93
1745250--1745839	223	2.6	223	88	2	871	28	17	16	38	1.91
1745802--1746116	113	2.8	113	94	0	533	25	20	17	36	1.94
1746129--1746603	73	6.5	73	93	0	756	40	10	16	32	1.83
1746129--1746603	145	3.3	145	94	0	797	40	10	16	32	1.83
1746188--1746590	36	11.1	35	64	10	175	40	10	17	31	1.83
1747290--1747346	22	2.6	22	91	0	87	38	14	15	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1747716--1748043	55	6.0	55	88	1	446	27	23	12	35	1.91
1748913--1749083	75	2.3	75	85	2	227	30	22	16	30	1.96
1749167--1749341	77	2.2	76	83	5	206	32	23	15	29	1.95
1753446--1753559	14	7.5	14	69	18	68	59	8	14	17	1.59
1753451--1753530	20	3.9	20	67	15	56	60	8	13	17	1.58
1754204--1754275	36	2.0	36	94	0	126	29	12	18	40	1.87
1755772--1755831	22	2.7	22	84	0	84	30	21	28	20	1.98
1757047--1757472	106	4.0	106	96	0	762	39	7	20	32	1.81
1757115--1757386	53	5.1	53	64	15	166	40	8	20	31	1.82
1757171--1757439	53	5.1	53	62	20	148	39	7	20	32	1.79
1757613--1757835	105	2.1	104	81	2	250	22	15	23	38	1.92
1757852--1757897	24	2.0	24	86	4	67	23	26	26	23	2.00
1759512--1759559	24	2.0	25	84	12	64	68	4	4	22	1.24
1765886--1765937	19	2.7	20	75	22	56	28	1	7	61	1.34
1767535--1767579	23	2.0	23	100	0	90	20	26	17	35	1.95
1767657--1767715	31	1.9	31	92	0	100	33	10	25	30	1.89
1778416--1778462	24	2.0	24	82	0	58	40	27	10	21	1.86
1786435--1786464	7	4.3	7	91	0	51	26	23	33	16	1.96
1795496--1795992	260	1.9	263	83	9	643	24	21	17	36	1.94
1798930--1798964	17	2.1	17	94	0	61	25	14	17	42	1.86
1800920--1800985	34	1.9	34	87	0	96	27	12	28	31	1.92
1812356--1812386	2	15.5	2	100	0	62	0	51	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1815368--1815463	17	5.8	16	74	20	72	72	0	2	25	0.95
1815370--1815463	3	32.3	3	72	23	51	72	0	2	25	0.96
1815377--1815463	31	2.8	29	83	11	86	73	0	2	24	0.95
1815367--1815457	14	6.8	14	75	12	84	73	0	2	24	0.94
1815503--1815545	18	2.4	18	88	0	59	69	0	6	23	1.12
1815883--1815950	9	7.6	9	75	17	61	41	0	0	58	0.98
1815887--1815970	34	2.5	34	98	0	159	42	0	0	57	0.99
1815902--1815961	18	3.4	18	81	9	88	40	0	0	60	0.97
1816638--1816748	19	5.8	19	70	16	61	57	14	0	27	1.43
1816647--1816757	24	4.5	24	68	20	84	59	12	0	27	1.39
1816569--1816757	76	2.6	75	86	6	228	56	13	1	29	1.44
1817861--1817921	30	2.0	30	90	0	95	34	18	19	27	1.95
1818155--1818338	84	2.2	82	84	3	228	57	14	13	14	1.65
1821542--1821800	42	6.2	42	94	1	432	39	6	6	46	1.58
1821547--1821750	14	14.6	14	70	8	137	37	7	6	47	1.59
1824405--1824489	32	2.7	32	80	8	95	34	30	21	14	1.93
1824542--1824586	20	2.2	20	88	7	65	11	37	13	37	1.80
1824705--1824805	40	2.6	39	85	1	130	30	16	23	28	1.97
1825444--1825517	38	1.9	38	83	5	96	25	8	28	37	1.84
1837356--1837396	22	1.9	21	90	5	64	41	36	2	19	1.65
1855779--1855827	12	3.9	13	75	20	50	69	4	6	20	1.27
1855780--1855832	25	2.2	24	86	6	72	71	3	7	16	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1856991--1857041	21	2.4	21	96	0	93	21	17	19	41	1.91
1859602--1859637	17	2.1	18	89	5	56	44	0	0	55	0.99
1859920--1859951	2	16.0	2	100	0	64	50	0	0	50	1.00
1861154--1861606	123	3.7	123	90	1	696	24	20	15	40	1.90
1861154--1861606	245	1.8	246	90	2	723	24	20	15	40	1.90
1861645--1861843	36	5.5	36	77	4	211	38	10	18	32	1.85
1861628--1861844	73	3.0	72	90	2	353	36	11	18	33	1.86
1862571--1862649	22	3.6	22	92	0	131	37	11	16	34	1.85
1870202--1870273	36	2.0	36	88	0	108	27	9	20	41	1.84
1871694--1871748	23	2.4	23	76	11	60	41	0	1	56	1.10
1871944--1871977	16	2.0	18	88	11	54	64	0	2	32	1.08
1872008--1872055	2	24.0	2	95	0	87	47	0	0	52	1.00
1877933--1878015	41	2.0	41	90	0	130	30	19	15	34	1.93
1884400--1884449	16	3.1	15	77	8	55	68	2	0	30	1.01
1903115--1903183	31	2.3	30	77	5	75	36	14	15	33	1.89
1906445--1906484	19	2.1	19	100	0	80	20	22	12	45	1.84
1912511--1912544	17	2.0	17	94	0	59	20	11	20	47	1.81
1912617--1912643	11	2.5	11	100	0	54	7	11	0	81	0.87
1912833--1912911	2	41.0	2	90	7	128	49	1	0	49	1.09
1913315--1913353	20	2.0	20	85	10	53	33	5	0	61	1.18
1913397--1913456	7	9.0	7	80	14	65	56	0	0	43	0.99
1913412--1913459	6	7.7	6	88	2	60	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1913399--1913459	13	4.7	13	84	13	81	54	0	0	45	1.00
1917310--1917459	74	2.0	74	97	0	282	29	18	18	34	1.95
1917430--1917554	62	2.0	62	96	0	232	24	26	21	27	1.99
1919842--1919875	17	2.0	17	94	0	59	20	11	20	47	1.81
1920639--1920686	21	2.2	22	92	3	80	29	0	4	66	1.10
1920650--1920696	21	2.3	20	76	16	51	36	0	2	61	1.08
1920675--1920710	8	4.8	8	90	10	58	44	0	0	55	0.99
1921795--1921866	36	2.0	36	100	0	144	52	5	5	36	1.48
1928037--1928076	2	20.0	2	100	0	80	50	0	0	50	1.00
1928550--1928597	21	2.2	22	92	3	80	29	0	4	66	1.10

Tables:   1   2   3   4   5   6   7   8   9   10   11