genome.fa.s8724.2.7.7.80.10.50.1000.8.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: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5289199

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  8  of  23  ( 2733 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)
1751256--1751305	19	2.5	20	90	6	75	24	2	0	74	0.93
1752617--1752689	30	2.4	30	80	10	78	12	5	5	76	1.12
1756930--1756963	17	2.0	17	100	0	68	29	35	17	17	1.93
1765313--1765355	17	2.5	17	79	20	54	41	13	16	27	1.86
1769912--1769975	17	3.7	16	78	14	56	43	12	10	32	1.77
1771279--1771317	12	3.5	12	80	20	57	28	33	10	28	1.90
1771279--1771326	21	2.3	21	92	7	80	29	35	8	27	1.86
1775637--1775717	16	5.4	15	70	15	51	35	13	14	35	1.86
1775629--1775717	44	2.0	44	100	0	178	35	13	15	34	1.87
1783963--1784019	2	28.5	2	100	0	114	50	0	0	49	1.00
1793652--1793752	2	54.0	2	67	13	63	51	0	0	48	1.00
1793659--1793727	38	1.9	38	83	13	94	52	0	0	47	1.00
1796160--1796221	31	2.0	31	93	0	106	37	14	24	24	1.93
1798011--1798088	31	2.5	31	87	0	111	25	26	10	37	1.88
1802658--1802830	41	4.2	41	82	2	220	30	26	16	27	1.97
1804699--1804752	2	27.5	2	78	10	58	50	1	0	48	1.11
1804819--1805031	108	2.0	108	88	1	320	24	18	22	33	1.97
1805171--1805729	250	2.2	249	86	7	765	26	11	19	42	1.85
1806111--1806156	18	2.6	17	82	3	56	26	23	10	39	1.88
1806618--1806702	36	2.3	37	90	8	138	10	11	40	37	1.77
1807242--1807288	18	2.7	18	90	3	69	27	25	8	38	1.85
1816774--1816848	21	3.6	21	92	0	123	28	26	22	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1817029--1817059	6	5.2	6	100	0	62	32	51	16	0	1.44
1822139--1822175	17	2.3	16	90	9	58	54	27	0	18	1.44
1824883--1824926	22	2.0	22	86	0	61	27	27	25	20	1.99
1824905--1825207	148	2.0	149	99	0	599	34	20	17	27	1.95
1825835--1825907	2	36.5	2	100	0	146	49	0	0	50	1.00
1826138--1826172	18	1.9	18	88	11	54	22	17	5	54	1.64
1826752--1826796	21	2.1	21	87	0	63	15	24	28	31	1.96
1829748--1829787	21	1.9	21	90	10	64	30	5	7	57	1.48
1831082--1831127	22	2.2	22	92	7	78	52	4	13	30	1.59
1833848--1833910	13	4.8	13	70	14	58	53	1	3	41	1.26
1833930--1833983	23	2.3	24	90	3	92	40	1	9	48	1.46
1837292--1837335	19	2.5	17	85	7	52	68	18	0	13	1.22
1838384--1838444	6	10.8	6	73	25	53	52	0	1	45	1.10
1838362--1838538	29	5.8	28	72	20	126	49	1	2	46	1.24
1838379--1838473	22	4.4	22	76	16	90	47	1	2	49	1.20
1838383--1838605	31	7.0	31	71	18	138	47	1	4	46	1.31
1838663--1838755	36	2.6	35	84	3	114	47	9	2	40	1.48
1838808--1838847	21	1.9	21	89	0	62	45	10	7	37	1.66
1838873--1839027	81	1.9	80	82	12	190	43	5	7	42	1.57
1839004--1839043	20	2.0	20	85	0	53	42	10	2	45	1.51
1839196--1839337	56	2.5	56	91	2	223	41	4	7	47	1.50
1839311--1839450	18	7.4	19	71	21	82	45	4	3	46	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1839414--1839614	13	14.1	13	72	16	141	38	4	8	48	1.54
1839443--1839613	28	6.0	27	74	15	123	38	5	8	47	1.57
1839673--1839729	2	28.5	2	100	0	114	50	0	0	49	1.00
1839753--1840013	83	3.1	83	93	2	423	45	7	2	44	1.45
1839810--1839934	40	3.2	36	68	25	108	45	8	3	43	1.49
1839982--1840114	13	10.2	13	73	14	78	42	3	6	48	1.46
1839994--1840062	28	2.6	26	75	8	75	44	5	5	43	1.52
1839892--1840088	87	2.3	82	78	11	189	44	4	4	46	1.44
1840045--1840103	18	3.3	18	79	11	68	44	1	5	49	1.34
1840266--1840301	11	3.3	11	88	0	54	52	13	2	30	1.55
1840431--1840480	16	3.2	16	75	11	50	26	8	4	62	1.41
1841319--1841392	21	3.5	21	85	7	89	41	2	0	55	1.14
1843563--1843613	23	2.3	23	82	3	68	41	1	7	49	1.43
1844476--1844515	21	1.9	21	84	0	53	45	7	27	20	1.78
1863966--1864026	20	2.9	20	85	7	68	24	32	24	18	1.97
1863988--1864048	21	2.8	21	85	5	68	24	37	22	14	1.92
1868509--1868579	22	3.3	22	67	21	69	28	28	12	30	1.93
1875696--1875725	15	1.9	16	93	6	53	46	13	0	40	1.43
1876081--1876339	127	2.0	128	91	1	421	32	19	12	35	1.90
1877603--1877654	25	2.2	23	89	6	77	26	5	9	57	1.53
1877609--1877661	25	2.1	25	96	0	97	32	7	9	50	1.62
1879432--1879489	21	2.8	20	76	10	62	25	10	10	53	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1880459--1880488	15	2.0	15	93	0	51	56	3	6	33	1.42
1891570--1891632	30	2.2	28	81	10	67	46	3	1	49	1.27
1891712--1891745	16	2.0	18	88	11	54	64	5	2	26	1.30
1894840--1895103	132	2.0	132	100	0	528	26	13	20	39	1.90
1899517--1899577	32	1.9	32	90	6	97	37	1	4	55	1.31
1899614--1899649	18	2.1	18	89	5	56	55	0	2	41	1.14
1900451--1901316	157	5.5	155	81	6	957	40	11	13	34	1.81
1904890--1904983	22	4.6	20	85	8	102	30	14	29	24	1.95
1904738--1904953	95	2.3	95	83	5	269	31	17	25	25	1.97
1904910--1904983	22	3.5	22	90	3	116	31	14	27	27	1.95
1905310--1905765	59	7.8	59	89	1	632	36	12	22	28	1.91
1905304--1905765	176	2.6	176	89	1	685	37	12	22	27	1.91
1909454--1909502	21	2.4	21	87	12	75	57	6	6	30	1.48
1909454--1909508	21	2.6	21	81	16	69	56	5	7	30	1.49
1915245--1915269	12	2.1	12	100	0	50	28	24	0	48	1.52
1923184--1923221	18	2.1	19	85	14	53	73	0	18	7	1.06
1932355--1932678	161	2.0	162	99	0	641	33	16	13	36	1.88
1939756--1939849	3	32.0	3	77	8	86	42	1	0	56	1.06
1939756--1939844	20	4.7	19	75	9	76	42	1	0	56	1.06
1939756--1939816	23	2.6	24	82	5	63	45	0	0	54	1.00
1941466--1941492	2	13.5	2	100	0	54	48	0	0	51	1.00
1942139--1942184	18	2.5	18	82	3	56	19	10	0	69	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1942169--1942228	30	2.0	31	83	9	79	28	1	5	65	1.23
1944466--1944543	33	2.4	33	95	0	138	19	16	7	56	1.64
1944486--1944545	20	3.3	20	65	29	62	18	15	6	60	1.56
1944508--1944644	20	6.7	20	69	12	73	20	14	8	56	1.65
1946702--1946845	72	2.0	72	90	0	225	25	22	18	33	1.97
1949355--1949516	54	3.0	54	85	0	198	37	16	22	24	1.93
1949882--1949943	22	2.8	23	87	7	92	35	9	14	40	1.79
1950542--1950723	76	2.4	76	90	0	283	26	17	21	34	1.95
1950665--1950778	45	2.5	45	91	2	174	25	21	21	31	1.98
1950589--1950896	121	2.6	121	95	1	541	25	20	20	33	1.97
1950665--1951054	165	2.4	166	95	0	701	26	21	20	31	1.98
1950786--1950943	45	3.5	45	92	3	246	26	22	20	29	1.99
1950831--1951249	121	3.5	120	92	0	669	28	20	19	31	1.97
1950951--1951054	45	2.3	45	93	0	172	28	20	20	30	1.97
1950589--1951175	286	2.0	287	94	0	1032	26	20	20	32	1.97
1951074--1951175	45	2.3	45	92	0	168	29	20	18	31	1.97
1951117--1951324	74	2.8	76	88	2	312	29	18	18	33	1.95
1951579--1951671	3	31.0	3	86	4	125	37	0	0	62	0.96
1965354--1965393	14	2.9	13	85	7	53	45	22	5	27	1.73
1965690--1965748	3	20.3	3	72	6	50	35	3	0	61	1.13
1967533--1967558	2	13.0	2	100	0	52	50	0	0	50	1.00
1970557--1970597	6	6.5	6	83	10	55	17	19	14	48	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1971210--1971288	18	4.4	18	81	9	99	84	0	15	0	0.61
1971210--1971266	1	57.0	1	78	0	60	89	0	10	0	0.49
1971687--1971734	20	2.4	20	96	0	87	35	0	10	54	1.35
1973367--1973582	43	5.0	43	89	2	337	26	14	31	27	1.95
1973621--1973689	20	3.3	20	67	15	59	26	23	23	27	2.00
1973616--1973766	42	3.6	42	87	5	200	25	22	23	28	1.99
1973650--1973717	22	3.2	22	61	23	54	26	22	22	29	1.99
1973749--1974037	90	3.2	90	90	0	452	26	18	21	33	1.96
1974469--1974530	3	21.3	3	73	6	56	35	3	0	61	1.12
1974477--1974516	21	1.9	21	94	0	71	40	2	0	57	1.12

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23