genome.fa.s9036.2.7.7.80.10.50.1000.8.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: VEPZ01009036.1 Hibiscus syriacus cultivar Beakdansim tig00112443_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1934717

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1002 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)
1529128--1529176	3	16.3	3	91	0	53	57	2	8	32	1.40
1529840--1529873	11	3.0	11	83	8	50	32	26	14	26	1.95
1530555--1530621	30	2.2	31	81	2	73	32	26	20	19	1.97
1530580--1530707	31	4.1	30	73	11	105	32	21	17	27	1.96
1531395--1531429	14	2.5	14	95	0	61	42	14	5	37	1.69
1535704--1535751	22	2.3	22	82	10	57	43	6	25	25	1.77
1537750--1537779	12	2.5	12	94	0	51	30	0	30	40	1.57
1546086--1546209	31	4.0	31	78	9	117	29	18	20	30	1.97
1547182--1547253	29	2.4	29	79	6	83	45	5	15	33	1.69
1550119--1550151	14	2.4	14	90	10	50	21	3	12	63	1.41
1550548--1550603	29	1.9	29	88	0	85	37	21	17	23	1.94
1556118--1556165	24	2.0	24	100	0	96	54	12	20	12	1.70
1556967--1557052	30	2.9	30	91	0	136	34	24	31	9	1.87
1557281--1557327	24	1.9	25	82	4	60	40	17	17	25	1.90
1557858--1558311	182	2.5	182	95	1	795	27	16	13	42	1.86
1558184--1558759	112	5.1	112	94	0	936	25	15	14	44	1.84
1558184--1558759	225	2.6	224	92	0	936	25	15	14	44	1.84
1562104--1562128	2	12.5	2	100	0	50	52	0	0	48	1.00
1563211--1563300	34	2.6	36	91	3	148	31	10	16	42	1.81
1563473--1563598	65	1.9	66	88	4	193	38	11	17	31	1.86
1563549--1563635	37	2.4	37	88	0	120	39	16	19	25	1.92
1563475--1563681	103	2.0	104	91	1	337	37	13	17	31	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1563475--1563733	103	2.5	103	85	3	335	38	13	17	30	1.88
1563708--1563757	21	2.4	21	89	0	73	38	10	26	26	1.87
1565012--1565365	183	1.9	183	91	1	584	30	20	20	29	1.97
1569396--1569447	2	26.0	2	100	0	104	50	0	0	50	1.00
1575116--1575162	19	2.3	21	82	7	62	44	0	6	48	1.28
1580493--1580531	14	2.8	14	96	0	69	48	25	12	12	1.77
1588885--1589095	99	2.1	100	93	0	361	38	5	9	45	1.60
1588979--1589252	146	1.9	143	80	5	320	37	5	9	47	1.58
1593123--1593154	15	2.1	15	94	0	55	28	18	3	50	1.62
1593182--1593206	11	2.3	11	100	0	50	72	0	0	28	0.86
1602174--1602489	123	2.6	122	89	2	472	40	15	20	23	1.91
1602414--1602768	139	2.6	137	82	5	407	40	14	18	26	1.89
1602818--1602874	19	2.9	20	73	5	62	47	8	24	19	1.77
1602818--1602882	20	3.3	20	71	4	69	43	10	23	23	1.85
1603008--1603052	3	15.0	3	100	0	90	33	0	0	66	0.92
1604246--1604275	2	15.0	2	100	0	60	50	0	0	50	1.00
1604358--1604388	2	16.0	2	93	6	55	51	0	0	48	1.00
1604256--1604469	100	2.1	102	89	3	326	40	5	7	46	1.55
1604508--1604533	11	2.4	11	100	0	52	34	0	0	65	0.93
1623882--1623916	6	5.8	6	100	0	70	34	0	14	51	1.42
1627985--1628058	34	2.3	31	82	17	80	50	1	0	48	1.09
1633854--1633895	21	2.0	21	100	0	84	42	19	19	19	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1636044--1636069	3	8.7	3	100	0	52	65	34	0	0	0.93
1639540--1639584	21	2.2	21	81	18	60	60	4	4	31	1.37
1651139--1651773	324	2.0	310	94	4	1110	31	12	18	37	1.88
1652541--1652598	20	2.9	20	94	0	98	36	32	6	24	1.82
1662107--1662147	17	2.4	17	100	0	82	53	36	0	9	1.34
1664630--1664688	25	2.5	24	83	8	75	40	3	20	35	1.69
1664645--1664694	25	2.0	25	100	0	100	40	0	24	36	1.55
1664740--1664792	12	4.5	12	97	2	99	69	0	5	24	1.09
1675640--1675803	34	4.7	34	69	9	107	42	12	20	25	1.86
1675636--1675890	72	3.6	72	84	2	293	36	10	19	33	1.86
1675901--1676047	37	3.9	37	76	8	129	38	7	17	36	1.78
1675713--1676027	72	4.3	71	80	9	284	36	8	18	35	1.82
1675836--1676033	37	5.5	35	67	16	118	37	6	17	38	1.76
1680330--1680416	31	2.8	31	77	10	79	40	1	5	52	1.33
1681138--1681224	31	2.8	30	81	10	95	52	3	2	41	1.31
1681133--1681200	19	3.5	20	73	15	54	54	1	2	41	1.24
1684605--1684637	14	2.4	14	85	14	50	66	15	6	12	1.42
1686842--1686867	5	5.2	5	100	0	52	80	0	19	0	0.71
1689644--1689723	36	2.2	35	82	4	88	21	8	33	36	1.84
1689661--1689782	36	3.4	35	79	2	136	13	12	36	37	1.83
1689796--1689883	36	2.4	36	92	0	140	13	13	28	44	1.82
1690378--1690408	15	2.0	16	93	6	55	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1693658--1693707	24	2.1	24	84	0	64	18	8	42	32	1.79
1695465--1695492	13	2.2	13	100	0	56	60	0	17	21	1.36
1697157--1697198	18	2.4	18	88	4	59	54	0	33	11	1.37
1697371--1697689	83	3.9	82	77	2	298	34	20	14	31	1.92
1697468--1697699	81	2.8	82	78	1	241	33	21	14	31	1.93
1697385--1697687	163	1.8	165	84	2	414	34	20	13	31	1.92
1697563--1697721	41	3.9	42	76	12	150	30	20	16	32	1.95
1697836--1697984	36	4.2	36	81	6	169	12	11	35	40	1.80
1697855--1697993	71	2.0	71	85	2	190	13	11	35	39	1.81
1717859--1717888	15	2.0	15	93	0	51	36	10	26	26	1.88
1721888--1721946	29	2.0	29	100	0	118	30	13	27	28	1.94
1733018--1733098	41	2.0	41	95	0	144	23	16	17	43	1.88
1734630--1734689	23	2.7	22	82	12	70	18	8	5	68	1.34
1734656--1734694	21	1.9	21	89	5	62	20	7	2	69	1.26
1735770--1735825	22	2.7	20	76	10	58	32	16	25	26	1.96
1735695--1735905	94	2.2	94	84	3	262	36	16	23	23	1.94
1736231--1736738	55	9.3	55	89	2	713	32	18	20	27	1.96
1736875--1737055	81	2.2	81	79	2	184	39	8	20	31	1.83
1737277--1737395	45	2.6	45	84	5	141	50	5	17	26	1.69
1740818--1740859	17	2.4	17	92	4	66	83	2	7	7	0.89
1751060--1751111	19	2.7	19	96	0	95	26	21	30	21	1.98
1755086--1755110	6	4.2	6	100	0	50	32	0	52	16	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1759863--1759913	25	2.0	25	96	0	93	15	17	33	33	1.92
1761776--1761825	26	1.9	26	87	0	73	28	22	20	30	1.98
1764515--1764568	17	3.0	17	75	20	56	25	7	0	66	1.17
1770950--1771158	80	2.6	80	80	3	251	27	20	14	37	1.92
1771097--1771215	61	2.0	61	86	0	166	29	23	14	32	1.94
1771293--1771349	20	2.8	21	73	10	55	45	22	10	21	1.82
1771317--1771410	20	4.8	19	75	3	71	41	21	6	30	1.78
1782722--1782767	13	3.3	14	77	19	51	26	2	6	65	1.28
1784263--1784384	58	2.1	58	93	0	208	47	0	7	44	1.36
1784888--1785091	36	5.7	36	76	4	189	14	12	36	36	1.83
1785186--1785292	30	3.6	30	81	0	115	10	18	51	19	1.74
1785271--1785350	30	2.7	30	86	0	97	20	16	48	15	1.81
1785281--1785361	30	2.7	30	84	0	99	18	13	49	18	1.79
1786858--1786939	41	2.0	41	87	0	119	42	25	24	7	1.80
1797114--1797556	219	2.0	220	95	1	800	30	22	13	34	1.93
1805894--1805944	16	3.3	15	75	24	52	39	1	0	58	1.09
1805955--1805997	16	2.7	15	77	22	52	55	0	2	41	1.12
1814376--1814424	24	2.0	24	96	0	89	42	14	12	30	1.82
1814963--1815023	31	2.0	31	84	15	83	37	21	9	31	1.86
1824141--1824211	3	23.0	3	88	5	106	36	0	0	63	0.95
1825659--1825830	95	1.8	92	81	3	209	39	10	11	38	1.76
1830422--1830492	3	24.0	3	88	5	101	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1834223--1834276	14	3.8	14	82	4	63	24	14	9	51	1.71
1837537--1837580	22	2.0	22	95	0	79	65	13	15	4	1.41
1837575--1837625	10	5.6	9	78	19	52	78	0	19	1	0.85
1837572--1837626	17	2.9	18	89	10	76	76	0	21	1	0.88
1841165--1841402	75	3.2	74	85	5	298	31	15	22	31	1.95
1842690--1842744	22	2.5	22	90	0	92	34	12	14	38	1.84
1843181--1843284	40	2.6	40	92	0	172	50	7	24	18	1.73
1843443--1843541	40	2.5	40	85	3	137	49	8	22	20	1.74
1843478--1843891	111	3.7	111	83	7	550	39	13	19	27	1.90
1843853--1844045	84	2.3	83	87	2	269	38	16	15	30	1.89

Tables:   1   2   3   4   5   6   7   8   9