genome.fa.s2352.2.7.7.80.10.50.1000.9.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: VEPZ01002352.1 Hibiscus syriacus cultivar Beakdansim tig00004797_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2012169

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

This is table  9  of  10  ( 1099 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)
1736980--1737068	30	3.1	27	75	15	81	66	2	3	28	1.20
1737034--1737078	23	1.9	24	86	4	65	62	0	6	31	1.21
1737161--1737212	5	10.4	5	84	12	63	76	0	3	19	0.93
1738647--1739370	84	8.7	84	82	5	769	25	20	24	29	1.99
1738644--1739409	164	4.6	163	82	4	816	25	19	24	29	1.99
1744761--1744840	18	4.4	18	79	7	90	77	0	5	17	0.94
1744761--1744841	36	2.2	37	84	8	112	77	0	4	17	0.93
1744764--1744848	23	3.8	22	73	13	66	76	0	5	17	0.98
1744760--1744839	9	9.0	9	73	16	69	76	0	5	18	0.97
1745971--1746049	18	4.4	18	79	4	88	77	0	5	17	0.95
1745979--1746044	8	7.3	9	71	22	50	75	0	4	19	0.97
1745970--1746044	35	2.1	35	88	9	109	76	0	5	18	0.98
1745970--1746048	9	9.0	9	73	19	69	75	0	5	18	0.97
1753281--1753317	17	2.1	17	90	10	56	45	0	0	54	1.00
1755688--1755738	21	2.4	22	83	9	61	47	0	0	52	1.00
1755708--1755782	8	9.1	8	71	11	53	44	0	1	54	1.08
1755689--1755757	23	3.0	24	81	8	65	44	0	0	55	0.99
1755689--1755795	31	3.5	30	77	13	96	43	0	0	55	1.06
1755742--1755799	29	1.9	31	89	6	93	43	0	3	53	1.17
1755744--1755807	29	2.3	27	78	10	74	43	0	3	53	1.16
1755800--1755879	27	3.0	26	79	15	85	47	1	1	50	1.17
1755817--1755901	27	3.1	27	75	20	79	47	1	1	50	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1756041--1756091	14	3.6	14	82	12	50	52	0	3	43	1.19
1756053--1756097	14	3.1	14	82	14	56	55	0	2	42	1.12
1756065--1756126	16	3.8	16	71	4	52	54	0	1	43	1.09
1757224--1757333	21	5.3	21	83	5	116	22	20	30	25	1.98
1757877--1757906	15	2.0	15	93	0	51	43	6	16	33	1.74
1759136--1759186	13	3.6	14	80	17	52	11	19	0	68	1.20
1759548--1759895	172	2.0	174	98	1	682	37	13	20	29	1.90
1759939--1760001	24	3.1	20	74	24	60	23	6	1	68	1.22
1762494--1762519	9	2.9	9	100	0	52	19	0	0	80	0.71
1764035--1764072	18	2.1	18	90	0	58	7	15	0	76	1.01
1764643--1764680	13	2.7	14	84	12	51	18	7	2	71	1.23
1767366--1767411	2	23.0	2	95	0	83	52	0	0	47	1.00
1775200--1775264	3	21.7	3	100	0	130	66	0	0	33	0.92
1778562--1778598	19	1.9	19	88	0	56	13	27	35	24	1.93
1782453--1782492	21	1.9	21	85	10	55	35	10	2	52	1.48
1790039--1790073	17	2.1	18	89	10	56	68	17	5	8	1.35
1792385--1792625	8	30.4	8	94	1	198	0	37	24	37	1.62
1792460--1792590	4	32.8	4	95	0	235	1	48	24	25	1.60
1792580--1792625	4	11.5	4	95	0	83	0	28	23	47	1.52
1792390--1792622	12	19.6	12	92	3	202	0	37	24	36	1.62
1792623--1792647	4	6.2	4	100	0	50	24	24	0	52	1.48
1794395--1794472	4	20.0	4	93	5	133	0	23	25	51	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1794470--1794580	4	27.8	4	100	0	222	0	49	25	25	1.50
1794587--1798020	4	864.0	4	98	1	6705	24	25	0	49	1.50
1801983--1802032	24	2.0	25	88	3	75	36	2	14	48	1.55
1809107--1809199	42	2.2	41	86	1	123	37	12	21	27	1.90
1809572--1809649	20	3.6	20	71	18	75	43	10	25	20	1.83
1809565--1809663	46	2.2	46	94	0	171	46	10	22	21	1.80
1821589--1821672	21	3.9	21	69	14	64	23	35	22	17	1.95
1823897--1823926	11	2.7	11	94	0	51	16	0	23	60	1.36
1825881--1826062	26	7.2	26	88	7	286	46	9	23	20	1.80
1842740--1842791	3	17.7	3	77	18	56	63	1	1	32	1.16
1843143--1843473	109	3.0	112	83	6	449	27	18	15	38	1.91
1852388--1852426	15	2.6	15	91	0	60	46	5	23	25	1.73
1852400--1852434	15	2.3	15	90	0	52	51	8	20	20	1.73
1856157--1856438	140	2.0	142	80	10	321	47	7	6	38	1.57
1858833--1858871	16	2.4	17	86	4	62	76	0	20	2	0.90
1858852--1858881	11	2.8	11	95	5	53	76	0	16	6	0.99
1859638--1860372	139	5.3	138	84	1	842	31	26	16	26	1.96
1860596--1860624	3	9.7	3	100	0	58	34	0	0	65	0.93
1865830--1865856	4	6.8	4	100	0	54	25	0	74	0	0.83
1866342--1866375	15	2.3	15	89	0	50	67	2	2	26	1.19
1867946--1867981	14	2.6	14	95	0	63	58	0	0	41	0.98
1868051--1868123	31	2.3	31	78	2	74	65	2	0	31	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1868074--1868106	13	2.5	13	95	0	57	78	0	0	21	0.75
1868071--1868133	18	3.5	17	81	12	63	66	0	0	33	0.92
1873711--1873744	15	2.3	15	89	0	50	67	2	2	26	1.19
1874809--1874883	20	3.5	22	73	18	61	66	2	2	28	1.18
1875474--1875516	22	2.0	22	85	0	59	55	0	0	44	0.99
1875533--1875567	15	2.3	15	85	0	52	80	2	0	17	0.84
1881589--1881811	104	2.1	105	82	5	261	37	10	12	40	1.77
1886792--1886816	13	1.9	13	100	0	50	44	16	24	16	1.86
1886820--1886854	14	2.4	15	90	4	54	25	20	28	25	1.99
1887777--1887826	25	2.0	27	84	11	70	48	0	0	52	1.00
1888441--1890170	861	2.0	861	98	0	3361	33	19	17	30	1.95
1892100--1892155	17	3.3	17	76	0	58	19	16	53	10	1.71
1893051--1893117	33	2.0	33	83	11	84	56	0	2	40	1.14
1894732--1894779	19	2.5	20	86	3	62	47	6	14	31	1.69
1897935--1898090	42	3.8	42	94	3	264	50	23	8	17	1.74
1906175--1906225	18	2.8	18	96	0	93	31	15	13	39	1.87
1910596--1910620	9	2.8	9	100	0	50	0	44	0	56	0.99
1922072--1922115	22	2.0	22	91	4	72	36	6	13	43	1.71
1922804--1922849	18	2.6	18	92	0	74	23	2	4	69	1.17
1929499--1929536	20	1.9	20	89	10	60	23	0	7	68	1.16
1929648--1929679	16	2.0	16	93	0	55	15	12	0	71	1.14
1930254--1930292	19	2.1	19	95	0	69	10	17	0	71	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1930649--1930725	6	12.2	6	74	10	57	16	3	3	75	1.11
1930666--1930713	25	1.9	25	87	8	71	20	4	2	72	1.11
1930664--1930719	25	2.2	24	82	14	69	17	3	3	75	1.10
1932075--1932104	15	1.9	15	93	6	51	80	0	16	3	0.85
1932067--1932104	8	4.8	8	81	12	51	78	0	18	2	0.86
1937995--1938502	58	8.8	58	92	2	790	35	19	14	30	1.92
1938926--1938977	20	2.6	20	93	6	88	17	32	17	32	1.93
1943473--1943517	21	2.1	21	91	0	72	33	8	28	28	1.87
1944260--1944294	18	1.9	18	94	0	61	31	20	22	25	1.98
1966165--1966207	8	5.2	8	88	5	68	27	0	2	69	1.00
1966151--1966224	26	2.9	25	74	9	78	33	0	1	64	1.02
1966165--1966205	17	2.5	16	92	4	64	26	0	2	70	0.99
1968933--1968979	14	3.4	14	77	13	53	68	2	4	25	1.19
1969128--1971048	113	17.0	113	95	0	3379	27	20	15	36	1.93
1971455--1971509	22	2.5	23	85	8	78	38	14	12	34	1.84
1973840--1973903	31	2.0	32	96	3	121	31	12	18	37	1.88
1976390--1976489	8	12.2	8	72	12	78	1	18	1	80	0.84
1976390--1976484	9	10.4	9	74	13	70	1	16	1	81	0.82
1976397--1976477	10	7.4	10	72	22	56	1	17	1	80	0.85
1976390--1976489	23	4.1	24	71	18	82	1	18	1	80	0.84
1976390--1976447	29	2.0	30	86	3	82	1	15	1	81	0.86
1976401--1976493	27	3.2	29	74	19	88	1	19	1	78	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1976473--1976525	25	2.0	25	89	7	79	3	15	11	69	1.31
1982096--1982154	3	20.3	3	75	13	52	67	1	3	27	1.16
1982104--1982165	29	2.2	28	81	16	76	62	3	4	29	1.31
1982182--1982243	29	2.2	29	80	13	67	59	1	8	30	1.36
1983578--1983666	6	15.0	6	75	15	78	66	0	1	32	0.99
1983586--1983620	9	3.9	9	92	0	61	60	0	0	40	0.97
1983578--1983669	9	10.0	9	72	16	55	67	0	1	31	0.98
1983615--1983669	15	3.7	15	76	9	58	70	0	1	27	0.97
1983583--1983657	21	3.5	21	83	5	89	66	0	1	32	1.00
1985141--1985383	122	2.0	122	95	1	434	29	15	16	38	1.90

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