genome.fa.s1711.2.7.7.80.10.50.1000.5.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: VEPZ01001711.1 Hibiscus syriacus cultivar Beakdansim tig00003454_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4148933

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

This is table  5  of  13  ( 1546 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)
1582772--1582885	45	2.5	45	85	5	140	26	21	20	31	1.98
1582696--1583194	121	4.1	121	90	1	773	26	20	18	33	1.96
1582817--1582959	76	1.9	74	84	5	189	25	21	18	34	1.96
1582893--1582996	45	2.3	45	86	3	138	27	22	16	33	1.95
1583014--1583112	46	2.2	46	83	1	119	26	22	20	31	1.98
1587756--1587957	106	1.9	106	88	2	307	34	26	11	28	1.91
1590496--1590602	50	2.1	50	78	14	114	21	20	20	37	1.95
1591090--1591114	11	2.3	11	100	0	50	92	8	0	0	0.40
1595345--1595396	20	2.6	20	93	0	95	38	13	23	25	1.91
1604033--1604065	17	1.9	17	93	0	57	30	30	0	39	1.57
1608432--1608478	24	2.0	23	83	4	58	27	21	12	38	1.90
1612204--1612249	24	2.0	23	86	4	65	30	17	15	36	1.91
1620316--1620352	18	2.0	20	84	10	51	45	5	2	45	1.40
1620849--1620881	15	2.2	15	89	10	50	51	12	15	21	1.75
1621634--1621756	29	4.2	29	82	0	138	40	24	4	30	1.74
1628789--1628968	29	6.2	29	81	8	197	42	21	5	30	1.75
1628789--1628968	58	3.1	58	83	7	231	42	21	5	30	1.75
1628789--1628968	87	2.1	87	85	6	240	42	21	5	30	1.75
1630045--1630083	13	3.2	12	86	13	53	79	0	17	2	0.84
1631226--1631276	24	2.1	24	88	0	75	37	11	15	35	1.84
1633825--1633988	88	1.9	89	97	1	312	53	18	14	14	1.73
1635083--1635133	24	2.1	24	85	0	66	37	11	17	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1635148--1635190	23	1.9	21	81	13	50	32	18	13	34	1.90
1638721--1638767	24	2.0	24	86	0	67	40	12	12	34	1.82
1661352--1661488	59	2.3	59	82	2	186	28	18	24	28	1.98
1661589--1661714	47	2.8	45	88	5	182	38	7	23	31	1.82
1666950--1667038	45	2.0	45	84	4	117	38	8	21	31	1.84
1671762--1672262	81	6.2	81	89	0	750	34	10	21	32	1.88
1677139--1677189	13	3.8	13	76	5	57	3	19	0	76	0.94
1681901--1681959	23	2.6	23	97	0	109	23	15	15	45	1.84
1681901--1681969	23	3.0	23	91	0	75	23	14	15	46	1.83
1687160--1687251	24	3.8	23	75	14	87	21	21	18	38	1.94
1695778--1695811	16	2.1	17	89	10	54	70	5	0	23	1.09
1702965--1703067	24	4.3	24	79	0	107	26	21	12	39	1.89
1709210--1709690	81	5.9	81	86	2	646	30	22	12	34	1.91
1713908--1713952	22	2.0	23	86	4	65	33	42	2	22	1.66
1716133--1716265	47	2.7	49	84	11	155	29	20	9	41	1.83
1716295--1716951	81	8.1	81	87	1	877	30	22	12	35	1.90
1717119--1717254	57	2.4	57	89	0	209	38	16	10	35	1.82
1737886--1737938	17	3.1	16	81	10	61	45	5	11	37	1.64
1745123--1745279	53	3.0	53	93	2	271	29	15	17	36	1.92
1752150--1752274	47	2.8	45	83	11	150	40	7	21	30	1.80
1757674--1757843	45	3.8	45	86	6	220	38	7	22	31	1.83
1758945--1759122	90	2.0	90	90	0	284	36	10	6	46	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1762347--1762504	53	3.0	53	87	0	226	30	17	17	35	1.92
1764129--1764204	36	2.1	36	100	0	152	40	7	22	28	1.82
1764133--1764191	18	3.3	18	64	17	50	38	6	22	32	1.80
1769414--1769530	47	2.6	44	81	13	141	39	9	20	30	1.84
1775787--1775916	47	2.9	45	84	11	162	39	7	21	31	1.82
1798873--1798998	47	2.8	45	85	5	164	29	23	7	39	1.83
1808906--1809454	243	2.3	241	85	5	721	35	9	25	28	1.88
1808883--1809439	81	6.9	81	83	3	629	36	9	25	28	1.87
1809493--1809614	46	2.6	46	80	7	122	46	8	18	26	1.77
1813513--1813568	20	2.8	19	81	7	67	32	16	28	23	1.96
1814209--1814763	81	6.9	81	86	0	700	37	9	24	28	1.87
1814209--1814755	161	3.4	161	86	3	699	37	10	24	28	1.88
1814209--1814764	242	2.3	242	86	2	758	37	9	24	28	1.87
1823427--1823477	26	2.0	25	92	3	84	33	25	15	25	1.95
1825001--1825064	31	2.1	31	91	2	103	37	34	4	23	1.76
1830226--1830260	17	2.0	18	88	5	54	65	0	25	8	1.21
1836946--1836998	26	2.1	25	96	3	97	37	32	11	18	1.87
1837876--1837939	29	2.2	29	82	2	74	35	12	6	45	1.67
1838633--1838696	30	2.1	31	94	2	112	39	34	3	23	1.71
1843649--1843695	24	2.0	24	86	0	67	10	4	8	76	1.13
1858099--1858151	17	3.0	17	75	5	52	41	3	18	35	1.69
1858193--1858240	17	2.8	17	75	9	53	45	18	8	27	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1864801--1864839	18	2.1	19	95	4	71	35	0	25	38	1.56
1865467--1865505	18	2.1	19	90	4	62	35	0	23	41	1.55
1867204--1867259	29	1.9	29	88	0	85	41	7	23	28	1.80
1867520--1867608	24	3.7	24	77	5	92	24	19	16	39	1.92
1867523--1867622	48	2.1	48	88	3	148	25	20	17	38	1.93
1867547--1867646	24	4.2	24	77	0	92	23	19	16	42	1.89
1873272--1874055	416	1.9	416	86	5	1127	39	9	8	43	1.67
1880376--1880419	22	2.0	22	82	4	54	31	13	13	40	1.84
1881976--1882015	16	2.5	15	88	8	53	52	0	0	47	1.00
1882349--1882398	2	25.5	2	95	4	93	50	0	0	50	1.00
1883576--1883647	18	3.8	20	75	16	71	22	2	0	75	0.94
1883576--1883640	28	2.3	29	80	15	82	23	1	0	75	0.89
1883576--1883647	8	7.7	9	75	20	51	22	2	0	75	0.94
1883576--1883647	29	2.6	26	75	16	72	22	2	0	75	0.94
1883739--1883778	11	3.6	11	86	10	55	17	5	5	72	1.21
1883797--1884000	9	23.8	8	68	23	80	13	4	4	77	1.08
1883802--1883894	40	2.2	42	83	9	111	9	6	4	79	1.04
1883824--1883926	26	4.0	24	75	21	86	8	4	5	80	1.01
1883802--1884000	17	11.7	15	71	20	92	13	4	4	77	1.07
1883819--1883926	38	3.1	34	73	18	96	8	4	6	80	1.01
1883904--1883995	38	2.4	38	82	8	107	16	3	4	76	1.08
1883886--1883984	15	6.7	14	70	19	51	16	3	4	76	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1885686--1885721	14	2.6	14	95	0	63	27	16	33	22	1.95
1887293--1887338	18	2.6	18	92	0	74	47	13	6	32	1.68
1888500--1888539	21	1.9	21	90	10	64	20	27	5	47	1.70
1889405--1889434	12	2.6	12	94	5	53	13	6	6	73	1.24
1900968--1901058	3	29.7	3	73	12	69	24	2	0	73	0.94
1900966--1901059	48	1.9	50	83	12	124	23	2	0	74	0.93
1907530--1907578	6	7.7	6	80	19	55	77	0	18	4	0.92
1907528--1907573	14	3.4	14	80	14	60	76	0	19	4	0.96
1907527--1907569	21	2.0	22	90	4	70	72	0	20	6	1.08
1909349--1909421	7	11.1	7	83	12	75	21	0	4	73	0.99
1909615--1909772	5	29.4	5	69	22	56	15	4	4	75	1.13
1909650--1909761	6	18.0	6	67	20	61	16	1	5	76	1.05
1909652--1909723	23	3.2	23	82	9	69	13	1	5	79	0.98
1909646--1909721	29	2.7	28	81	16	95	11	1	6	80	0.96
1909583--1909764	94	1.9	95	81	16	218	13	4	5	75	1.14
1909562--1909721	11	14.1	11	68	18	71	13	5	5	76	1.11
1909681--1909772	21	4.3	20	70	20	71	17	2	4	76	1.06
1909681--1909790	43	2.6	42	78	7	116	15	2	5	76	1.08
1912321--1912377	3	19.3	3	79	16	66	40	0	0	59	0.97
1912321--1912377	20	2.7	22	86	10	84	40	0	0	59	0.97
1912317--1912385	11	6.0	12	72	21	51	43	0	0	56	0.99
1919889--1919930	18	2.4	18	92	4	68	73	0	21	4	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1919889--1919928	19	2.2	19	91	8	66	77	0	17	5	0.94
1919889--1919930	9	4.8	9	79	2	50	73	0	21	4	1.01
1922107--1922302	107	1.8	107	93	0	338	30	17	20	31	1.96
1924827--1924881	22	2.5	22	93	0	101	34	10	14	40	1.81
1925397--1925723	166	2.0	167	90	2	523	35	13	12	38	1.82
1925726--1926439	76	9.4	76	98	0	1383	22	19	23	34	1.97
1926604--1926660	3	19.3	3	76	16	57	42	0	0	57	0.98
1927548--1927586	18	2.1	18	85	4	51	51	0	35	12	1.40
1929034--1929611	59	9.8	59	88	2	770	34	12	19	34	1.89
1929799--1929980	68	2.7	68	88	1	258	29	15	25	29	1.96

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