genome.fa.s8554.2.7.7.80.10.50.1000.7.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: VEPZ01008554.1 Hibiscus syriacus cultivar Beakdansim tig00111458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3217407

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

This is table  7  of  10  ( 1197 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)
1583533--1583590	20	2.8	21	71	5	55	37	27	13	20	1.91
1594317--1594380	29	2.2	29	91	0	101	26	14	21	37	1.92
1597625--1597882	50	5.2	50	87	3	378	37	15	20	25	1.92
1597627--1597882	99	2.6	99	88	3	390	37	16	19	26	1.92
1601008--1601074	2	34.0	2	96	3	127	50	0	0	49	1.00
1608693--1608953	50	5.3	50	89	1	382	39	16	19	24	1.91
1608693--1608945	99	2.6	99	90	0	398	40	15	18	24	1.90
1609448--1609486	21	1.9	20	89	5	60	38	5	5	51	1.46
1618329--1618373	20	2.2	20	88	0	63	26	15	26	31	1.96
1624187--1624313	36	3.6	35	76	7	139	44	7	14	33	1.73
1624929--1625036	50	2.2	50	86	6	148	26	26	4	41	1.75
1626970--1627163	46	4.2	46	82	3	221	23	21	13	41	1.88
1627166--1627735	81	7.1	81	89	0	802	31	22	12	32	1.92
1627166--1627735	161	3.5	162	88	1	797	31	22	12	32	1.92
1627166--1627732	242	2.3	241	88	1	812	31	22	13	32	1.92
1627793--1627832	20	2.0	21	90	5	64	60	2	2	35	1.24
1632962--1633137	46	3.8	46	84	3	205	23	19	12	44	1.85
1633136--1633314	80	2.2	81	81	1	198	33	22	8	34	1.86
1633291--1633337	22	2.1	22	92	0	76	40	17	14	27	1.89
1633219--1633420	103	2.0	102	87	2	289	35	22	12	30	1.91
1633313--1633893	81	7.2	81	87	2	803	32	21	12	32	1.91
1640535--1640653	24	5.0	24	84	5	143	24	12	20	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1642996--1643061	23	2.9	23	74	0	69	31	25	22	19	1.98
1643177--1643227	15	3.4	15	78	5	50	41	23	3	31	1.73
1658086--1658138	18	2.9	18	82	0	70	28	30	18	22	1.98
1675639--1675686	20	2.4	20	100	0	96	39	18	18	22	1.92
1678713--1678768	20	2.8	20	91	0	85	35	14	23	26	1.93
1680026--1680089	29	2.1	31	83	11	80	35	15	9	39	1.80
1685662--1685704	20	2.2	20	87	4	61	34	9	6	48	1.62
1686047--1686175	35	3.7	35	87	3	181	24	35	3	36	1.72
1686771--1686831	16	3.8	15	71	23	52	14	19	1	63	1.38
1696187--1696237	20	2.5	20	78	6	59	35	17	23	23	1.95
1697389--1697451	29	2.2	29	85	5	92	41	4	4	49	1.45
1697405--1697474	29	2.4	29	85	4	88	44	4	7	44	1.51
1697463--1697511	24	2.0	24	88	0	71	38	0	2	59	1.09
1698423--1698538	61	1.9	61	96	0	214	28	25	17	28	1.97
1704487--1704638	65	2.4	64	86	3	198	31	21	16	30	1.95
1710405--1710502	44	2.3	43	84	12	121	29	22	19	28	1.98
1712625--1712751	64	2.0	64	84	3	166	29	22	16	31	1.96
1712621--1712772	64	2.4	63	77	10	148	29	21	17	31	1.96
1726361--1726392	16	2.0	16	100	0	64	50	18	6	25	1.70
1738974--1739025	20	2.5	20	75	3	50	32	11	17	38	1.85
1741437--1741476	20	2.0	20	85	0	53	35	0	2	62	1.09
1743417--1743456	20	2.0	20	85	0	53	35	0	2	62	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1743809--1743887	24	3.5	24	68	19	78	34	17	13	34	1.90
1743808--1743906	44	2.2	44	89	3	146	32	17	17	33	1.93
1745434--1745490	21	2.8	21	81	2	71	28	19	15	36	1.92
1745528--1745577	21	2.6	18	80	17	64	24	18	22	36	1.95
1745536--1745585	21	2.4	21	93	0	82	28	20	16	36	1.93
1745577--1745623	19	2.5	19	82	6	60	36	17	8	38	1.80
1747224--1747266	22	2.0	22	90	9	70	41	18	18	20	1.90
1766782--1766941	54	3.0	54	88	0	239	30	15	18	36	1.92
1767412--1767467	26	2.2	24	79	17	60	42	5	7	44	1.54
1768440--1768485	14	3.1	15	76	20	51	43	4	17	34	1.69
1809538--1809578	21	2.0	21	85	0	55	34	7	19	39	1.80
1818511--1818560	20	2.6	19	87	9	66	40	10	6	44	1.63
1822461--1822510	19	2.6	19	87	0	73	36	14	6	44	1.69
1837089--1837118	13	2.4	13	94	5	53	26	30	0	43	1.55
1845534--1845580	21	2.4	19	83	13	60	17	14	10	57	1.65
1856631--1856875	49	5.0	49	83	4	280	38	14	19	27	1.91
1861370--1861423	21	2.6	21	91	2	83	29	14	20	35	1.93
1876510--1876696	49	3.8	49	82	4	225	42	13	17	26	1.86
1878144--1878206	29	2.2	28	83	5	74	53	1	31	12	1.48
1880343--1880391	25	1.9	25	83	4	62	44	6	14	34	1.70
1882764--1882802	16	2.5	15	87	4	51	0	20	0	79	0.73
1882762--1882802	13	3.0	13	85	7	55	0	21	0	78	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1884824--1884850	14	1.9	14	100	0	54	14	3	51	29	1.60
1887107--1887222	35	3.3	35	87	1	169	25	36	3	34	1.73
1891921--1891969	21	2.3	21	96	0	89	14	16	28	40	1.87
1893655--1893706	26	2.1	26	86	10	74	65	0	13	21	1.26
1902011--1902060	20	2.5	20	75	12	57	26	20	12	42	1.86
1907010--1907057	21	2.3	21	88	0	69	22	20	18	37	1.94
1909389--1909418	15	2.0	15	100	0	60	26	20	26	26	1.99
1909389--1909433	15	2.9	16	87	9	58	26	22	24	26	2.00
1913041--1913102	29	2.1	29	100	0	124	33	20	17	27	1.96
1917437--1917462	5	5.2	5	100	0	52	0	19	0	80	0.71
1917456--1917505	23	2.1	23	85	3	64	14	14	16	56	1.69
1918048--1918341	161	1.8	161	88	1	455	30	15	20	33	1.94
1919951--1920539	295	2.0	294	98	1	1144	33	25	17	22	1.96
1920890--1920937	21	2.2	22	89	10	73	20	10	0	68	1.18
1921204--1921237	17	2.1	17	88	5	52	73	5	14	5	1.21
1922647--1922694	21	2.3	21	96	0	87	39	25	18	16	1.91
1925463--1925510	21	2.2	23	89	10	75	20	12	0	66	1.24
1928479--1929322	91	9.3	91	88	1	1239	25	22	14	37	1.92
1928479--1929322	181	4.7	182	89	1	1239	25	22	14	37	1.92
1928479--1929322	272	3.1	271	89	2	1246	25	22	14	37	1.92
1929251--1929374	52	2.4	52	88	0	194	31	20	14	33	1.92
1929160--1929464	143	2.1	143	89	1	468	28	21	13	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1929303--1929522	91	2.4	92	90	1	336	25	21	15	38	1.92
1929916--1930212	66	4.6	65	78	7	280	38	16	18	26	1.92
1929918--1930212	129	2.3	132	82	3	346	38	16	18	26	1.91
1930121--1930163	21	2.1	20	82	4	50	46	18	18	16	1.84
1929984--1930285	66	4.7	63	77	8	184	38	15	16	29	1.89
1930243--1930320	36	2.2	35	82	11	88	38	15	14	32	1.87
1930252--1930320	35	1.9	36	85	8	97	37	15	14	31	1.88
1930766--1930879	42	2.7	41	78	6	122	28	21	22	27	1.99
1930916--1931086	43	4.0	43	86	0	218	29	29	15	25	1.96
1932472--1932505	15	2.2	16	89	5	52	8	20	20	50	1.75
1934834--1934891	19	2.9	19	85	12	73	8	8	0	82	0.84
1934836--1934893	22	2.6	23	80	5	73	6	10	0	82	0.83
1951089--1951150	5	13.4	5	74	19	55	82	0	16	1	0.75
1951087--1951150	18	3.5	17	83	12	83	82	0	15	1	0.74
1951094--1951150	13	4.6	12	85	12	71	82	0	15	1	0.75
1951087--1951150	32	2.0	31	85	8	85	82	0	15	1	0.74
1951089--1951154	21	2.9	24	85	12	79	81	0	16	1	0.76
1951086--1951150	13	5.2	12	78	9	60	81	0	16	1	0.77
1951117--1951164	21	2.3	20	82	10	60	81	2	12	4	0.93
1952556--1952604	21	2.3	21	89	6	73	40	28	16	14	1.87
1956721--1956758	14	2.7	14	88	8	51	0	15	2	81	0.80
1956722--1956761	19	2.0	20	95	4	73	0	15	2	82	0.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1959067--1959105	20	2.0	20	84	0	51	15	7	15	61	1.55
1961739--1961860	54	2.3	54	88	2	185	23	22	13	39	1.91
1968531--1968638	7	15.6	7	71	15	66	55	12	15	15	1.69
1968494--1968568	20	3.7	19	72	13	69	58	12	13	16	1.63
1968720--1968802	43	1.9	44	85	2	114	31	21	14	32	1.93
1970336--1970369	9	3.8	9	88	11	52	85	0	0	14	0.60
1970336--1970369	17	1.9	18	94	5	61	85	0	0	14	0.60
1971849--1971916	28	2.5	28	83	11	79	50	2	8	38	1.49
1973112--1973164	3	18.0	3	92	3	90	64	0	1	33	1.05
1989719--1989786	29	2.4	28	83	11	93	7	16	4	72	1.24

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