genome.fa.s9614.2.7.7.80.10.50.1000.9.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: VEPZ01009614.1 Hibiscus syriacus cultivar Beakdansim tig00117000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2129691

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

This is table  9  of  10  ( 1149 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)
1776820--1777327	253	2.0	261	89	3	780	44	10	12	32	1.76
1777260--1777319	23	2.6	23	81	0	66	40	10	15	35	1.80
1777847--1777902	24	2.4	23	80	16	71	57	5	0	37	1.22
1777904--1778344	200	2.2	198	88	3	645	30	15	14	39	1.87
1778441--1778519	30	2.5	31	78	13	83	48	1	1	49	1.17
1779833--1779896	23	2.8	22	83	7	65	23	18	32	25	1.97
1779831--1779885	23	2.4	22	82	14	67	23	18	34	23	1.96
1782358--1782438	29	2.8	29	94	3	137	17	22	17	43	1.88
1787187--1787240	24	2.2	24	96	0	99	20	16	33	29	1.95
1789192--1789225	15	2.3	15	94	0	59	32	32	20	14	1.93
1789310--1789390	29	2.8	29	94	3	137	17	22	17	43	1.88
1789769--1789925	64	2.5	64	75	8	158	26	17	19	36	1.93
1792832--1793052	117	1.9	117	82	5	277	28	14	8	47	1.73
1794709--1794777	24	2.9	25	79	18	76	43	1	2	52	1.25
1799454--1799567	29	4.0	29	87	5	153	38	4	0	57	1.19
1799603--1799629	13	2.1	13	100	0	54	51	0	0	48	1.00
1808288--1808347	23	2.6	22	77	12	68	48	3	0	48	1.18
1808483--1808522	21	1.9	21	94	0	71	37	12	27	22	1.90
1811509--1811566	25	2.6	23	80	17	68	55	0	1	43	1.10
1811509--1811566	23	2.5	24	76	18	61	55	0	1	43	1.10
1816062--1816140	20	4.0	20	85	3	79	32	11	21	34	1.89
1820467--1820500	15	2.3	15	89	0	50	14	0	5	79	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1821673--1821746	38	2.0	37	82	10	89	47	4	2	45	1.35
1827850--1827920	35	2.0	35	91	0	115	42	4	28	25	1.73
1828326--1828350	3	8.3	3	100	0	50	68	0	0	32	0.90
1830305--1830356	23	2.3	23	100	0	104	48	11	17	23	1.79
1832156--1832224	17	3.5	20	75	20	74	27	24	24	23	2.00
1832138--1832232	37	2.5	38	86	1	129	28	27	20	24	1.99
1832139--1832203	17	3.6	17	75	18	60	30	29	21	18	1.97
1832381--1832468	46	1.9	45	90	2	140	32	15	6	44	1.73
1832815--1832852	20	1.9	20	94	0	67	21	34	31	13	1.91
1842865--1842995	62	2.2	59	75	16	135	61	2	4	32	1.29
1843995--1844507	211	2.5	206	88	3	742	22	17	25	33	1.96
1843995--1844520	106	5.0	106	88	3	735	22	17	25	34	1.96
1845422--1845498	36	2.1	38	90	4	122	36	15	22	25	1.93
1846401--1846440	21	1.9	21	90	10	64	27	12	22	37	1.90
1848416--1848459	22	2.0	22	91	8	72	27	11	22	38	1.88
1849040--1849088	22	2.2	22	82	10	64	0	14	6	79	0.91
1849057--1849104	9	5.2	9	76	14	53	0	10	6	83	0.81
1849050--1849104	28	1.9	29	88	3	85	0	12	5	81	0.84
1849041--1849113	28	2.5	28	78	13	76	0	16	6	76	0.99
1850285--1850323	8	5.0	8	84	6	53	58	12	17	10	1.61
1850285--1850323	15	2.5	15	87	4	51	58	12	17	10	1.61
1850839--1850878	18	2.2	18	100	0	80	35	12	32	20	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1864751--1864823	31	2.3	32	86	9	105	52	1	0	46	1.09
1872194--1872224	16	2.0	16	93	6	55	45	0	0	54	0.99
1872716--1872769	21	2.5	22	82	14	67	25	3	3	66	1.25
1872715--1872766	23	2.3	21	83	9	59	26	3	3	65	1.27
1872812--1872862	23	2.2	23	86	6	68	49	1	0	49	1.12
1872809--1872862	22	2.4	24	81	12	69	50	1	0	48	1.11
1872824--1872856	17	1.9	17	88	11	50	48	3	0	48	1.17
1875650--1875693	23	1.9	23	90	0	70	25	25	25	25	2.00
1877638--1877672	15	2.3	15	95	0	61	5	28	8	57	1.52
1879443--1879482	21	1.9	21	89	0	62	30	7	7	55	1.56
1881954--1881983	13	2.3	13	94	0	51	3	73	0	23	0.98
1882829--1882887	2	29.5	2	100	0	118	49	0	0	50	1.00
1883136--1883176	16	2.7	15	88	3	55	31	4	0	63	1.15
1883133--1883176	17	2.7	17	89	6	65	31	6	0	61	1.22
1883869--1884041	60	2.9	60	85	1	213	33	7	13	45	1.71
1884961--1885011	15	3.1	16	77	11	59	56	0	0	43	0.99
1885225--1885290	23	2.9	23	90	0	105	25	21	18	34	1.96
1885333--1885414	41	2.0	41	87	0	119	36	20	17	25	1.94
1901052--1901106	28	2.0	28	88	0	83	34	14	14	36	1.87
1903157--1903199	17	2.5	17	84	0	59	11	62	13	11	1.54
1904179--1904215	2	18.5	2	100	0	74	51	0	0	48	1.00
1906140--1906227	23	3.8	23	74	14	90	19	25	25	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1912648--1912735	23	3.8	23	77	8	106	18	25	26	30	1.98
1917157--1917215	27	2.2	27	81	6	66	42	1	1	54	1.20
1917264--1917304	19	2.3	19	87	8	59	36	0	0	63	0.95
1917260--1917326	22	3.0	22	69	20	57	35	1	0	62	1.04
1917241--1917326	44	1.9	46	83	9	115	38	1	1	59	1.13
1917257--1917304	17	2.8	16	81	15	51	37	0	0	62	0.95
1917588--1917642	17	3.1	17	85	12	74	50	0	0	49	1.00
1917558--1917630	25	2.8	26	78	12	78	43	1	0	54	1.08
1918411--1918487	35	2.2	35	85	0	100	37	22	1	38	1.62
1918606--1918638	17	1.9	17	88	11	50	27	3	6	63	1.32
1919107--1919349	129	1.9	129	92	1	407	35	13	14	36	1.85
1920540--1920610	18	3.6	19	72	23	58	49	4	4	42	1.41
1920630--1920690	24	2.7	22	73	9	59	49	0	1	49	1.10
1920636--1920706	19	3.7	19	70	17	58	50	0	1	47	1.09
1921288--1921329	20	2.1	20	86	0	57	42	11	23	21	1.86
1927106--1927147	19	2.2	19	100	0	84	42	0	21	35	1.53
1927412--1927464	2	26.5	2	92	0	88	47	1	1	49	1.23
1928154--1928462	85	3.6	85	83	6	376	30	20	16	33	1.94
1928522--1928586	4	16.8	4	82	6	62	58	0	0	41	0.98
1928522--1928586	10	6.7	10	78	7	62	58	0	0	41	0.98
1929601--1929815	107	2.0	108	99	0	423	33	20	12	33	1.89
1930562--1930638	40	1.9	41	86	7	113	2	31	10	55	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1934507--1934546	15	2.7	15	96	0	71	5	25	10	60	1.49
1938966--1939080	56	2.1	53	90	4	185	61	20	6	11	1.52
1939217--1939356	32	4.9	26	68	18	91	13	20	41	24	1.88
1939254--1939378	32	4.1	32	75	12	127	15	20	41	23	1.89
1939217--1939358	58	2.4	58	88	0	203	13	20	42	23	1.88
1939614--1939778	85	1.9	84	82	11	203	33	20	16	29	1.95
1957762--1957799	18	2.1	18	90	9	60	28	26	28	15	1.96
1964550--1964591	17	2.5	17	88	0	57	19	14	16	50	1.79
1984906--1984956	26	2.0	26	81	11	61	47	5	0	47	1.26
1994255--1994281	3	9.0	3	100	0	54	33	0	0	66	0.92
1995743--1995846	39	2.7	39	84	1	138	36	18	0	44	1.56
1997983--1998020	20	1.9	20	89	10	60	42	2	2	52	1.29
1998489--1998518	9	3.4	9	95	4	53	56	0	0	43	0.99
1998627--1998676	21	2.4	21	93	0	82	64	8	0	28	1.22
1998724--1998775	3	17.0	3	96	4	95	65	0	0	34	0.93
2004951--2005410	230	2.0	230	100	0	920	34	22	13	29	1.93
2007015--2007230	102	2.1	102	95	1	389	25	13	23	36	1.92
2007237--2007356	47	2.6	47	91	1	188	25	22	21	30	1.99
2007237--2007361	23	5.3	23	76	2	124	25	21	21	31	1.98
2013079--2013224	23	6.2	24	79	4	154	26	21	21	31	1.98
2013079--2013224	71	2.1	70	92	1	238	26	21	21	31	1.98
2013558--2013612	23	2.4	23	100	0	110	49	7	21	21	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2016649--2016870	110	2.0	110	100	0	444	23	18	18	40	1.91
2021176--2021259	24	3.5	24	96	0	159	29	29	15	25	1.96
2024957--2025022	21	3.2	21	87	6	91	51	16	16	15	1.77
2024965--2025036	21	3.5	20	81	7	67	51	18	15	15	1.77
2025427--2025502	20	3.8	20	85	0	116	19	17	23	39	1.92
2025432--2025540	40	2.7	40	90	5	159	22	15	22	40	1.91
2028409--2028448	21	1.9	21	84	0	53	37	5	17	40	1.72
2030106--2030165	22	2.7	22	94	0	111	36	16	13	33	1.88
2034586--2034637	2	26.0	2	100	0	104	50	0	0	50	1.00
2034991--2035055	23	2.8	23	80	0	76	18	26	24	30	1.98

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