genome.fa.s8610.2.7.7.80.10.50.1000.9.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: VEPZ01008610.1 Hibiscus syriacus cultivar Beakdansim tig00111566_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2108335

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

This is table  9  of  11  ( 1240 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)
1685760--1685793	16	2.0	18	88	11	54	64	8	11	14	1.49
1699677--1699725	13	3.8	13	83	0	53	32	16	18	32	1.93
1706950--1707033	25	3.4	25	98	0	150	40	13	17	28	1.87
1712137--1712182	3	15.3	3	100	0	92	32	0	0	67	0.91
1712252--1712281	13	2.4	13	94	5	53	50	26	0	23	1.50
1719133--1719194	18	3.2	20	78	19	62	61	0	1	37	1.06
1719172--1719219	21	2.1	23	85	11	64	56	0	2	41	1.11
1722351--1722452	44	2.3	44	86	0	132	30	20	16	32	1.95
1722438--1722494	20	2.8	20	91	0	96	22	28	19	29	1.98
1733052--1733089	17	2.2	17	86	9	51	71	0	5	23	1.07
1734574--1734614	3	13.7	3	100	0	82	0	34	0	65	0.93
1737230--1737289	25	2.4	24	76	17	68	40	5	23	31	1.76
1743116--1743459	172	2.0	175	89	2	525	41	11	18	27	1.86
1748004--1748287	45	6.3	45	88	2	417	43	11	21	23	1.85
1748784--1748823	19	2.0	21	85	9	57	35	5	17	42	1.71
1755948--1755994	19	2.4	20	82	7	60	72	0	8	19	1.10
1756084--1756114	2	15.5	2	100	0	62	51	0	0	48	1.00
1756273--1756314	17	2.4	18	88	4	59	71	4	4	19	1.22
1756274--1756314	18	2.4	17	84	8	57	73	4	4	17	1.19
1756783--1756817	13	2.7	13	100	0	70	40	8	20	31	1.82
1756838--1756930	37	2.5	37	85	0	114	31	12	12	43	1.81
1757691--1758750	106	10.0	106	92	0	1708	21	18	25	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1759330--1759389	24	2.5	24	89	2	86	41	3	20	35	1.68
1759581--1759656	22	3.5	22	92	0	125	21	11	26	40	1.87
1760276--1760348	33	2.3	30	84	13	94	0	13	6	79	0.92
1760276--1760343	11	6.3	11	73	10	50	0	13	5	80	0.87
1764877--1764981	25	4.1	26	68	20	69	63	0	3	31	1.18
1764866--1765065	29	6.7	29	68	21	94	64	2	4	30	1.23
1764865--1764948	25	3.5	23	75	19	66	61	0	4	33	1.17
1765119--1765168	23	2.2	23	85	7	66	62	0	2	36	1.07
1765013--1765252	102	2.4	96	79	13	218	65	3	5	26	1.29
1765178--1765226	21	2.2	22	85	7	64	73	0	2	24	0.94
1765643--1765740	37	2.6	37	88	0	133	30	13	14	41	1.84
1766091--1766141	26	2.0	26	84	0	66	60	21	9	7	1.53
1766183--1766212	14	2.1	14	93	0	51	70	3	6	20	1.25
1766254--1766297	22	2.0	22	90	0	70	52	13	9	25	1.70
1768102--1768127	2	13.0	2	100	0	52	50	0	0	50	1.00
1771002--1771209	80	2.6	80	89	1	301	28	27	21	22	1.99
1787633--1787899	42	6.2	42	84	8	306	37	19	19	22	1.94
1787633--1787899	89	3.1	84	86	4	338	37	19	19	22	1.94
1792830--1792874	21	2.2	21	88	11	67	6	11	4	77	1.09
1794401--1794434	2	17.5	2	93	6	61	50	0	0	50	1.00
1794636--1794671	2	18.0	2	100	0	72	50	0	0	50	1.00
1797866--1798496	264	2.4	264	87	2	883	39	10	16	33	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1798428--1798587	80	2.0	79	79	10	168	37	8	19	35	1.81
1802193--1802533	59	5.8	58	86	6	460	34	18	12	35	1.87
1802193--1802533	118	2.9	118	91	4	534	34	18	12	35	1.87
1805754--1805913	43	3.7	43	87	2	187	43	15	20	20	1.87
1817352--1817389	12	3.5	11	86	13	53	34	0	0	65	0.93
1817621--1817650	15	2.0	15	93	0	51	50	3	0	46	1.18
1820518--1820567	26	1.9	26	84	8	66	20	16	20	44	1.87
1827689--1827745	30	1.9	29	82	10	71	63	0	0	36	0.95
1827694--1827735	19	2.2	20	91	4	68	61	0	0	38	0.96
1828522--1828572	20	2.5	20	96	0	93	43	15	21	19	1.88
1829162--1829210	20	2.5	20	86	0	71	34	24	20	20	1.96
1829269--1829312	20	2.2	20	83	0	52	13	18	18	50	1.79
1829284--1829323	20	2.0	20	90	0	62	15	15	15	55	1.71
1831202--1831347	20	7.6	20	81	9	169	40	23	19	16	1.91
1831205--1831383	54	3.2	54	83	5	207	41	21	20	16	1.90
1831392--1831523	20	6.9	20	75	14	118	18	16	20	44	1.87
1832017--1832058	21	2.2	19	87	12	59	21	35	19	23	1.96
1832012--1832122	42	2.6	41	73	16	102	21	36	18	23	1.94
1833614--1833743	34	3.9	34	93	2	208	42	20	23	13	1.88
1833647--1833748	20	5.8	19	69	25	89	45	18	22	13	1.85
1833634--1833721	14	5.5	14	68	25	50	43	19	23	13	1.87
1833614--1833743	67	1.9	68	90	1	208	42	20	23	13	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1833793--1833865	20	3.7	19	81	5	83	23	17	21	36	1.94
1836282--1836333	24	2.2	24	85	0	68	40	19	17	23	1.91
1836970--1837010	22	1.9	21	85	5	55	26	12	39	21	1.89
1837181--1837287	20	5.3	20	82	2	133	23	19	19	37	1.94
1837160--1837287	40	3.2	38	74	15	107	24	19	20	35	1.95
1840098--1840132	2	17.5	2	100	0	70	48	0	0	51	1.00
1843244--1843286	9	4.8	9	91	5	61	83	0	2	13	0.74
1843342--1843681	37	9.3	37	81	6	347	44	6	3	45	1.47
1843342--1843646	73	4.2	72	81	7	276	44	6	3	45	1.47
1843342--1843686	110	3.1	108	83	8	414	44	6	3	45	1.47
1844051--1844831	201	3.9	200	82	1	848	26	22	19	32	1.97
1845428--1845768	37	9.4	37	79	8	344	42	7	3	46	1.49
1846152--1846905	201	3.8	201	82	2	852	26	21	19	32	1.97
1847106--1847149	22	2.0	22	90	0	70	18	25	25	31	1.97
1854613--1854665	6	8.2	6	82	15	61	79	0	3	16	0.88
1854625--1854676	4	13.5	4	78	15	56	78	0	1	19	0.84
1854613--1854676	19	3.3	20	87	10	89	78	0	3	18	0.89
1854613--1854665	13	4.1	13	81	15	65	79	0	3	16	0.88
1854619--1854676	27	2.2	27	77	22	54	79	0	1	18	0.82
1854613--1854678	15	4.8	14	82	15	68	77	0	3	19	0.90
1854736--1855121	37	10.4	38	80	9	397	43	7	3	46	1.49
1856238--1856331	41	2.3	41	87	1	127	27	18	18	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1860772--1860810	19	2.1	19	100	0	78	20	5	23	51	1.67
1860845--1860882	17	2.2	17	100	0	76	15	10	15	57	1.64
1868625--1868689	21	3.0	22	75	20	73	26	36	23	13	1.92
1875385--1875419	18	1.9	18	88	0	52	28	17	0	54	1.43
1876822--1876898	21	3.6	21	74	10	75	27	28	15	28	1.96
1876822--1876875	22	2.5	22	88	8	76	25	29	16	27	1.97
1878254--1878308	21	2.6	21	97	0	101	21	5	23	49	1.70
1884060--1884146	35	2.5	34	80	12	97	55	10	8	26	1.61
1884364--1884410	3	15.7	3	86	0	58	6	36	25	31	1.81
1886305--1886637	111	3.0	111	98	0	630	44	11	8	35	1.71
1886926--1887049	50	2.5	50	78	2	142	20	25	35	17	1.95
1889939--1889985	21	2.2	21	96	0	85	21	10	25	42	1.85
1890355--1890394	9	4.7	9	80	20	50	77	0	10	12	0.99
1890355--1890403	17	2.9	17	82	11	64	73	0	12	14	1.10
1890927--1890996	25	2.8	26	89	6	108	35	17	0	47	1.48
1890929--1891012	25	3.4	24	87	8	107	34	16	0	48	1.47
1891611--1891793	38	5.0	35	68	9	132	29	21	10	38	1.86
1891610--1891819	73	2.9	74	83	5	266	27	21	11	39	1.88
1891970--1892060	37	2.5	37	89	1	130	27	13	12	47	1.78
1891982--1892425	101	4.4	100	84	5	585	31	14	12	41	1.83
1892318--1892442	65	1.9	66	87	8	184	29	16	12	40	1.86
1892635--1892679	3	15.7	3	90	9	76	31	0	0	68	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1894723--1894763	18	2.3	18	87	4	57	46	0	2	51	1.14
1895604--1895646	21	2.0	21	86	0	59	60	0	27	11	1.31
1895613--1895643	15	2.1	15	93	0	53	58	0	29	12	1.35
1898717--1898811	46	2.0	46	85	2	127	32	26	9	31	1.88
1898970--1899037	35	1.9	35	90	0	109	23	25	13	38	1.91
1898997--1899084	46	1.9	46	86	4	124	30	22	12	34	1.91
1898689--1899365	275	2.4	275	87	3	957	33	19	11	35	1.88
1899545--1899631	42	2.0	43	93	2	149	24	13	14	47	1.81
1900723--1900781	30	2.0	30	100	0	118	37	3	20	38	1.69
1903202--1903240	3	13.0	3	88	0	60	61	2	0	35	1.10

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