genome.fa.s8460.2.7.7.80.10.50.1000.10.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: VEPZ01008460.1 Hibiscus syriacus cultivar Beakdansim tig00111273_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2854393

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  10  of  15  ( 1744 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)
1761836--1761908	30	2.5	28	79	14	78	43	5	8	42	1.57
1761847--1761911	30	2.2	30	81	8	80	47	4	7	40	1.53
1763164--1763223	29	2.1	29	100	0	120	13	31	36	18	1.89
1763245--1763281	18	2.1	18	100	0	74	37	24	21	16	1.93
1763263--1763354	44	2.1	44	100	0	184	27	14	42	16	1.86
1763313--1763439	65	1.9	66	93	3	220	24	9	49	16	1.75
1763328--1763504	82	2.2	83	83	4	225	22	7	52	17	1.70
1763391--1763532	51	2.8	51	95	3	254	20	7	53	18	1.69
1763326--1763505	15	11.1	15	71	17	128	21	7	52	17	1.69
1763605--1763668	32	2.0	32	100	0	128	21	25	21	31	1.98
1763978--1764026	21	2.3	21	82	3	62	32	0	16	51	1.45
1764003--1764065	28	2.2	30	88	5	94	33	0	11	55	1.35
1764571--1764615	21	2.2	21	84	4	56	35	0	8	55	1.31
1764872--1764930	26	2.3	25	75	18	66	47	8	3	40	1.51
1767807--1768301	26	20.2	26	76	15	371	43	2	9	44	1.49
1767752--1768169	98	4.3	98	87	6	383	43	2	10	44	1.51
1767930--1768294	98	3.8	98	89	6	516	43	1	9	44	1.48
1767807--1768301	124	4.0	121	83	11	509	43	2	9	44	1.49
1768168--1768226	23	2.6	22	82	10	66	50	1	6	40	1.39
1768031--1768293	121	2.1	121	93	3	420	43	1	10	44	1.49
1770886--1770983	44	2.1	47	83	9	132	48	12	0	38	1.41
1771205--1771236	17	1.9	16	93	6	55	0	37	0	62	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1771178--1771235	4	14.0	4	75	7	53	1	34	0	63	1.04
1771178--1771235	25	2.3	25	96	0	107	1	34	0	63	1.04
1771297--1771348	25	2.1	25	92	0	86	28	32	9	28	1.89
1771469--1771515	23	2.0	23	100	0	94	21	8	44	25	1.80
1771502--1771533	13	2.5	13	94	0	55	31	3	46	18	1.65
1771536--1771642	29	3.7	29	91	2	162	22	29	31	15	1.95
1771637--1771800	43	3.9	43	74	15	187	18	34	24	22	1.96
1771697--1771828	41	3.2	41	66	19	119	16	31	28	23	1.96
1771654--1771831	84	2.1	84	97	0	338	17	32	27	22	1.97
1771807--1771919	35	3.2	35	100	0	226	19	20	33	26	1.96
1773708--1773736	13	2.1	14	93	6	51	62	0	0	37	0.96
1780548--1780574	13	2.1	13	100	0	54	22	25	14	37	1.93
1793752--1793776	2	12.5	2	100	0	50	48	0	0	52	1.00
1801448--1801488	20	2.0	21	85	4	57	58	2	2	36	1.24
1802387--1802423	19	1.9	19	89	10	58	2	13	8	75	1.13
1802922--1803074	3	51.7	3	82	2	193	61	0	4	33	1.16
1803326--1804284	113	8.5	113	90	1	1372	28	19	13	38	1.90
1803324--1804346	339	3.0	336	89	3	1547	29	19	13	37	1.90
1804817--1804869	22	2.4	22	96	0	97	37	13	15	33	1.86
1807233--1807476	83	2.9	84	92	2	395	38	20	12	27	1.89
1809583--1809620	17	2.2	17	86	9	51	0	21	0	78	0.74
1812889--1812941	14	3.7	14	87	2	70	54	9	13	22	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1815291--1815331	20	2.0	21	85	4	57	58	2	2	36	1.24
1816231--1816267	19	1.9	19	89	10	58	2	13	8	75	1.13
1816227--1816273	25	2.0	23	84	16	60	2	12	8	76	1.09
1816753--1816781	9	3.2	9	100	0	58	44	0	0	55	0.99
1816775--1816927	3	51.7	3	82	2	193	61	0	4	33	1.16
1816775--1816925	27	5.7	27	96	1	252	61	0	4	33	1.16
1817505--1817613	45	2.3	45	86	9	139	23	21	29	25	1.99
1817798--1817844	16	3.1	15	79	8	51	23	2	6	68	1.24
1817829--1817888	23	2.6	24	73	7	61	36	1	10	51	1.45
1823523--1823560	17	2.3	17	90	4	60	57	5	0	36	1.21
1823538--1823583	24	1.9	24	86	8	67	65	4	0	30	1.12
1824087--1824175	45	2.0	45	93	0	151	26	31	2	39	1.69
1824675--1824716	20	2.0	20	86	13	59	61	0	2	35	1.09
1831093--1831158	20	3.2	20	64	19	55	28	16	24	30	1.97
1834153--1834202	20	2.5	20	87	6	66	26	28	16	30	1.96
1846107--1846144	20	1.9	20	88	0	58	15	13	13	57	1.65
1846107--1846145	10	3.9	10	82	0	51	15	12	12	58	1.62
1847866--1847936	24	3.0	23	85	8	63	12	9	23	53	1.68
1847876--1847926	14	3.9	14	75	19	56	11	7	23	56	1.61
1847882--1847950	24	2.9	24	88	0	102	13	8	18	59	1.59
1848573--1848639	16	4.3	16	86	3	84	11	8	17	61	1.56
1855076--1855110	16	2.2	16	94	0	61	48	2	20	28	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1855411--1855472	31	2.2	28	83	13	74	29	29	24	17	1.97
1855886--1856030	65	2.2	65	93	0	245	31	15	19	34	1.92
1856231--1856266	16	2.3	15	90	4	54	41	0	5	52	1.24
1856396--1856452	15	3.7	15	81	9	78	21	35	28	15	1.94
1856396--1856462	32	2.1	32	94	0	116	22	34	26	16	1.95
1856490--1856529	16	2.4	16	91	4	62	30	35	25	10	1.88
1858531--1858582	25	2.1	25	88	0	77	40	15	7	36	1.76
1867057--1867099	23	2.0	22	86	13	63	79	2	4	13	1.00
1867093--1867202	42	2.6	43	77	12	111	68	2	8	20	1.29
1867172--1867210	15	2.9	13	85	14	53	76	0	0	23	0.78
1868515--1868557	20	2.2	20	91	0	68	41	13	2	41	1.57
1868539--1868652	60	1.9	60	84	7	153	50	6	3	39	1.44
1868574--1868613	21	1.9	21	94	0	71	60	5	5	30	1.40
1868700--1868729	2	15.5	2	93	6	53	46	0	0	53	1.00
1868615--1868746	48	2.8	46	90	4	203	45	6	2	46	1.40
1868598--1868842	48	5.1	47	71	13	178	46	7	2	43	1.45
1868752--1869019	75	3.6	74	82	7	319	44	6	3	45	1.46
1868752--1869019	113	2.4	110	88	8	382	44	6	3	45	1.46
1870899--1870953	21	2.5	22	97	2	103	18	20	43	18	1.88
1873507--1873585	23	3.6	21	76	8	68	20	24	31	24	1.98
1873529--1873572	23	1.9	23	100	0	88	22	27	27	22	1.99
1874542--1874581	17	2.4	17	91	0	62	35	25	0	40	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1874550--1874583	17	2.0	17	100	0	68	35	17	0	47	1.48
1874552--1874594	17	2.4	17	88	7	59	41	13	0	44	1.44
1875413--1876012	297	2.0	298	97	0	1130	35	16	12	36	1.86
1890797--1890821	12	2.1	12	100	0	50	0	24	0	76	0.80
1890793--1891116	161	2.0	163	98	1	634	22	31	12	33	1.91
1890958--1890982	12	2.1	12	100	0	50	0	24	0	76	0.80
1894252--1894328	37	2.1	37	85	4	102	48	1	3	46	1.28
1895094--1895133	20	2.1	20	86	9	57	20	20	7	52	1.70
1893937--1895160	629	2.0	620	88	3	1823	36	14	9	39	1.78
1896461--1896509	4	12.0	4	79	12	55	73	0	2	24	0.94
1896533--1896683	23	6.2	24	69	22	75	75	1	5	17	1.07
1896521--1896593	37	2.0	37	86	5	103	73	0	6	19	1.04
1896480--1896683	29	6.8	29	68	24	86	75	1	6	17	1.09
1896617--1896649	17	1.9	17	93	0	57	81	0	3	15	0.80
1896606--1896684	32	2.6	30	82	13	90	81	1	3	13	0.90
1898713--1899684	94	10.0	94	94	1	1368	22	18	25	34	1.96
1899267--1899720	106	4.2	106	93	1	721	24	16	24	34	1.96
1903513--1903574	4	15.2	4	79	15	65	77	1	1	19	0.94
1903517--1903709	26	7.9	25	65	19	70	73	1	4	20	1.07
1903513--1903740	8	28.1	8	73	20	79	74	1	4	19	1.08
1903513--1903737	25	8.2	25	68	19	105	74	1	4	19	1.08
1905925--1905973	2	24.5	2	100	0	98	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1908561--1908708	74	2.0	73	98	1	287	29	16	18	35	1.92
1910436--1910474	20	1.9	21	85	15	55	51	10	0	38	1.36
1913172--1913221	27	1.9	25	88	8	73	64	6	2	28	1.28
1913392--1913429	18	2.1	18	85	9	51	68	15	2	13	1.32
1914689--1914740	21	2.5	21	81	3	61	38	19	25	17	1.93
1914726--1914857	41	3.2	41	78	6	133	34	25	15	24	1.95
1914729--1914863	20	6.7	19	80	9	99	32	25	17	25	1.96
1914771--1914843	20	3.7	20	92	0	119	26	28	17	27	1.98
1915322--1915385	20	3.2	20	86	0	83	15	18	21	43	1.87
1916705--1916749	18	2.5	18	88	0	72	26	44	15	13	1.83

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15