genome.fa.s121.2.7.7.80.10.50.1000.9.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: VEPZ01000121.1 Hibiscus syriacus cultivar Beakdansim tig00000218_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2099483

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

This is table  9  of  10  ( 1170 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)
1704548--1704602	3	18.7	3	74	10	51	21	1	5	70	1.16
1704467--1704562	42	2.3	43	83	5	124	21	8	0	69	1.14
1704548--1704604	19	3.1	18	77	10	62	21	1	5	71	1.14
1704548--1704602	8	6.2	9	73	10	51	21	1	5	70	1.16
1708435--1709358	110	8.4	110	92	0	1434	34	23	16	25	1.95
1709616--1710009	84	4.7	84	87	0	502	34	24	18	22	1.96
1710303--1710369	22	3.3	20	80	10	57	37	1	1	59	1.16
1710302--1710369	3	23.3	3	76	11	61	36	1	1	60	1.15
1710304--1710369	25	2.6	25	81	6	71	36	1	1	60	1.15
1711474--1711561	46	1.9	46	83	2	115	19	7	0	72	1.08
1712123--1712210	17	5.3	16	71	20	65	38	10	11	39	1.75
1712104--1712228	34	3.7	34	84	5	146	40	10	10	38	1.74
1712540--1712726	97	1.9	98	83	5	245	24	18	5	50	1.69
1712629--1712793	44	3.8	43	82	7	167	24	19	6	49	1.70
1712629--1712793	43	3.8	43	80	4	172	24	19	6	49	1.70
1712646--1712810	86	1.9	87	82	3	208	24	19	6	49	1.72
1712629--1712813	42	4.3	42	79	8	176	25	18	5	49	1.71
1717893--1718137	123	2.0	124	96	3	462	34	5	10	49	1.60
1719481--1719629	73	2.0	75	97	2	284	26	19	29	24	1.98
1721176--1721234	29	2.0	29	100	0	118	23	13	13	49	1.78
1725839--1725897	29	2.0	29	100	0	118	23	13	13	49	1.78
1727807--1727832	9	2.9	9	100	0	52	46	23	7	23	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1727860--1727887	11	2.5	11	100	0	56	46	21	0	32	1.52
1727947--1727985	17	2.4	17	95	4	71	43	0	5	51	1.24
1728503--1728539	3	12.3	3	100	0	74	67	0	0	32	0.91
1728505--1728587	27	3.1	27	81	10	82	68	3	1	26	1.13
1729747--1729783	19	1.9	19	100	0	74	5	24	37	32	1.78
1729747--1729793	19	2.5	19	89	6	69	8	21	38	31	1.83
1729811--1729932	3	40.0	3	84	11	151	67	0	0	31	0.97
1729812--1729932	23	4.9	25	83	11	153	67	0	0	31	0.96
1730157--1730716	111	4.9	111	80	7	620	28	20	14	37	1.91
1730157--1730716	233	2.5	223	86	4	728	28	20	14	37	1.91
1730157--1730706	113	4.8	111	80	7	600	28	20	14	37	1.91
1731863--1731918	19	2.9	19	81	7	78	55	5	8	30	1.53
1732263--1732310	10	4.4	10	80	12	51	8	8	0	83	0.82
1732260--1732301	17	2.3	19	84	12	61	9	9	0	80	0.89
1739629--1739660	15	2.1	15	94	0	55	46	9	18	25	1.79
1742607--1742674	33	2.1	33	83	10	86	63	4	5	26	1.36
1743420--1743480	3	20.7	3	85	9	81	67	3	0	29	1.07
1744735--1744845	3	36.0	3	80	10	102	64	0	0	33	1.06
1744750--1744847	39	2.5	37	82	15	119	65	0	1	33	1.00
1744815--1744850	4	9.0	4	88	11	56	72	0	0	27	0.85
1753249--1753465	20	10.6	20	77	6	139	40	17	21	20	1.91
1753333--1753448	60	1.9	62	85	5	164	37	16	22	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1753568--1753616	6	8.2	6	100	0	98	34	48	16	0	1.46
1754299--1754402	6	17.5	6	98	1	201	0	16	50	32	1.45
1754480--1754523	20	2.2	20	91	0	70	11	18	15	54	1.70
1754510--1754807	20	14.6	20	77	7	161	18	22	19	39	1.92
1754512--1754703	40	4.7	40	80	5	231	19	25	17	37	1.94
1754520--1754703	83	2.2	83	93	0	305	20	25	17	36	1.94
1754757--1754807	19	2.6	20	90	3	77	15	17	23	43	1.88
1757578--1757679	42	2.5	42	85	4	136	23	34	17	24	1.96
1757671--1757722	21	2.5	21	81	12	70	15	34	28	21	1.94
1758235--1758319	34	2.5	34	90	0	134	54	4	3	37	1.39
1775434--1775517	14	6.1	14	68	18	52	50	0	0	50	1.00
1775440--1775502	24	2.4	26	76	15	67	46	0	0	53	1.00
1775405--1775536	68	2.0	65	82	12	162	45	0	2	51	1.19
1775629--1775699	29	2.4	28	81	9	88	46	5	7	40	1.54
1775629--1775742	31	3.8	30	78	9	108	47	3	5	43	1.43
1775689--1775773	31	2.7	31	81	0	107	49	2	3	44	1.32
1776148--1776186	20	2.0	20	84	0	51	23	30	15	30	1.95
1776534--1776583	20	2.5	20	93	0	82	34	32	10	24	1.88
1778072--1778160	37	2.4	37	86	1	124	11	11	37	40	1.77
1777861--1778444	248	2.4	248	90	4	910	24	11	26	36	1.90
1778964--1779008	18	2.6	18	89	6	67	28	28	6	35	1.83
1779934--1779971	2	19.0	2	100	0	76	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1781924--1781981	29	2.0	29	96	0	107	62	15	5	17	1.50
1784768--1784888	64	1.9	63	86	5	172	37	19	18	25	1.94
1785571--1785630	23	2.6	23	89	0	93	20	28	26	25	1.99
1792509--1792569	23	2.7	23	84	0	86	21	27	24	26	1.99
1793920--1793969	24	2.1	24	100	0	100	34	22	12	32	1.90
1793924--1793976	24	2.2	24	93	0	88	35	18	15	30	1.92
1798685--1798718	15	2.3	15	95	5	61	58	0	0	41	0.98
1802445--1802495	26	1.9	27	88	4	77	54	0	5	39	1.24
1802704--1802739	19	1.9	19	88	5	56	38	0	8	52	1.32
1802984--1803038	2	28.0	2	96	3	103	49	0	0	50	1.00
1807009--1807037	3	9.7	3	100	0	58	68	0	0	31	0.89
1807601--1807643	20	2.1	21	95	4	79	16	23	4	55	1.59
1808418--1808464	22	2.1	23	88	4	69	36	2	2	59	1.21
1809791--1809830	19	2.2	19	86	4	55	57	2	2	37	1.26
1813960--1814100	11	12.6	11	78	17	132	65	0	33	0	0.97
1813948--1814100	3	51.0	3	81	11	163	66	0	32	1	1.00
1813974--1814100	38	3.3	38	84	8	161	67	0	32	0	0.91
1813949--1814100	32	4.5	35	72	23	96	66	0	32	1	1.00
1815081--1815182	46	2.2	47	87	1	152	31	18	14	35	1.91
1815351--1815415	34	1.9	34	84	6	87	21	24	13	40	1.90
1818231--1818714	41	11.6	41	83	4	508	28	19	18	33	1.96
1818228--1818713	166	2.9	166	88	2	717	28	19	18	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1818247--1818714	125	3.8	123	84	5	528	29	19	18	32	1.96
1818796--1818849	28	2.0	27	85	10	74	33	40	1	24	1.66
1822966--1823270	43	7.1	42	75	10	226	22	20	20	36	1.96
1822968--1823184	85	2.5	86	87	5	307	22	20	21	35	1.96
1822979--1823272	85	3.4	84	82	4	279	22	21	20	36	1.96
1827409--1827459	23	2.1	26	85	10	72	52	5	15	25	1.65
1828759--1828804	22	2.1	22	95	0	83	47	4	2	45	1.34
1831488--1831680	96	2.0	97	96	1	361	29	16	8	45	1.78
1831515--1831710	96	2.1	95	85	2	259	32	15	9	42	1.79
1831846--1831896	20	2.5	20	87	0	66	37	13	13	35	1.85
1832857--1832881	2	12.5	2	100	0	50	52	0	0	48	1.00
1835408--1835471	32	2.0	32	87	0	92	34	14	17	34	1.89
1835418--1835537	32	3.8	32	77	4	93	35	15	15	33	1.89
1839869--1839919	19	2.6	20	82	11	61	33	1	0	64	1.05
1840047--1840079	16	2.1	16	88	5	50	42	6	3	48	1.43
1842097--1842132	18	2.0	18	94	0	63	22	2	0	75	0.94
1843163--1843213	24	2.0	26	85	11	70	41	0	1	56	1.10
1843441--1843523	43	1.9	43	88	9	125	46	2	1	49	1.22
1843493--1843576	33	2.5	35	76	18	88	48	2	1	47	1.22
1843449--1843541	43	2.2	43	82	7	109	51	2	0	46	1.13
1843500--1843581	31	2.7	32	78	14	84	46	2	1	50	1.22
1843544--1843607	28	2.2	28	80	2	65	48	1	1	48	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1843979--1844041	33	1.9	33	83	6	83	39	3	6	50	1.44
1847358--1847684	164	2.0	167	98	1	633	26	23	12	37	1.91
1848930--1848974	23	2.0	23	86	0	63	26	28	24	20	1.99
1848953--1849402	149	3.0	149	97	0	861	36	20	16	27	1.93
1849490--1849550	30	2.3	26	77	22	72	32	21	6	39	1.79
1849919--1850069	67	2.3	66	89	2	221	17	26	27	27	1.98
1856116--1856160	23	2.0	23	86	0	63	26	28	24	20	1.99
1856139--1856591	149	3.0	149	98	0	888	36	19	16	27	1.93
1856679--1856739	30	2.3	26	77	22	72	32	21	6	39	1.79
1857108--1857255	67	2.3	65	88	3	208	18	25	28	28	1.98

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