genome.fa.s8933.2.7.7.80.10.50.1000.9.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: VEPZ01008933.1 Hibiscus syriacus cultivar Beakdansim tig00112249_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2862162

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  9  of  14  ( 1568 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)
1677394--1677507	58	2.0	58	100	0	228	42	15	17	24	1.88
1680343--1680386	24	1.9	24	86	9	65	15	11	4	68	1.36
1683055--1683800	305	2.5	293	86	9	1032	41	17	13	26	1.88
1684706--1685376	335	2.0	335	100	0	1342	40	18	14	25	1.89
1685118--1685975	235	3.6	235	94	3	1436	40	18	13	28	1.88
1686531--1686875	172	2.0	172	100	0	690	35	15	19	30	1.92
1687328--1687926	297	2.0	297	97	0	1128	33	18	17	30	1.94
1689224--1689304	34	2.4	34	97	0	153	39	9	4	45	1.59
1690540--1690621	34	2.4	34	95	0	146	39	9	3	47	1.54
1691760--1693358	530	3.0	531	99	0	3155	43	16	13	25	1.85
1698460--1698492	16	2.1	16	100	0	66	30	6	24	39	1.79
1699449--1699523	38	2.0	37	84	5	98	48	4	1	46	1.29
1701543--1701620	31	2.5	32	89	6	115	20	16	8	53	1.69
1701543--1701626	32	2.7	31	88	5	116	21	16	9	52	1.72
1703977--1704032	29	1.9	30	88	3	87	42	0	1	55	1.10
1704366--1704426	14	4.4	14	76	13	56	42	0	1	55	1.09
1704385--1704434	25	2.0	25	88	7	75	48	0	0	52	1.00
1704530--1704595	14	4.9	14	70	18	52	39	1	1	57	1.17
1704564--1704596	16	2.0	17	88	5	50	42	0	0	57	0.98
1704543--1704605	25	2.4	27	79	10	69	42	0	1	55	1.09
1704566--1704665	42	2.6	36	78	17	110	45	1	2	52	1.19
1704580--1704654	22	3.5	22	64	15	57	48	1	2	48	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1704707--1704748	14	2.9	15	86	6	52	57	0	2	40	1.12
1707076--1707215	64	2.2	63	79	5	156	40	6	8	44	1.61
1707076--1707215	32	4.4	31	77	8	113	40	6	8	44	1.61
1707117--1707212	22	4.5	22	71	10	63	42	6	6	44	1.54
1708757--1708797	20	2.0	20	95	0	73	31	12	24	31	1.92
1718538--1718734	36	5.5	36	92	1	281	26	23	28	20	1.99
1722833--1722894	31	2.0	31	90	0	97	22	24	9	43	1.83
1723643--1723718	31	2.5	31	88	0	107	25	11	15	47	1.80
1723985--1724028	15	2.9	15	89	0	70	40	13	6	38	1.71
1726214--1726238	12	2.1	12	100	0	50	32	8	20	40	1.81
1727117--1727244	60	2.1	60	83	0	157	32	25	7	34	1.83
1731425--1731473	2	25.0	2	87	4	73	46	4	0	48	1.20
1732148--1732261	59	1.9	59	100	0	228	38	16	8	35	1.80
1732886--1732957	10	7.4	10	68	22	55	8	12	22	56	1.62
1732892--1732956	16	4.1	16	95	0	121	7	12	23	56	1.61
1733024--1733056	16	2.1	16	94	0	57	9	12	21	57	1.62
1734192--1734315	62	2.0	63	93	3	216	42	3	20	33	1.68
1737282--1737563	49	5.7	49	78	14	272	34	12	20	33	1.89
1737384--1737571	48	3.9	48	84	6	220	34	13	19	32	1.91
1741804--1741840	17	2.2	17	95	4	67	70	0	5	24	1.08
1741803--1741842	16	2.3	18	87	12	66	70	0	5	25	1.08
1749382--1749428	24	2.0	24	95	0	85	17	0	27	55	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1750702--1750780	30	2.6	30	76	7	88	37	13	21	26	1.91
1754776--1754803	2	14.0	2	100	0	56	50	0	0	50	1.00
1757091--1757117	2	13.5	2	100	0	54	51	0	0	48	1.00
1758200--1758234	18	2.0	18	94	5	63	68	0	0	31	0.90
1763304--1763611	156	2.0	158	87	2	451	50	5	13	30	1.63
1769155--1769192	20	1.9	20	94	0	67	39	5	18	36	1.73
1772175--1772232	29	2.0	29	96	0	107	44	8	15	31	1.76
1772533--1773426	446	2.0	443	93	1	1542	38	19	8	33	1.82
1776481--1776615	35	3.7	36	82	9	152	42	2	12	42	1.55
1779534--1779566	17	1.9	17	93	0	57	66	0	0	33	0.92
1779729--1779792	25	2.5	24	78	16	58	40	6	0	53	1.26
1782463--1782501	20	2.0	20	89	0	60	28	23	12	35	1.91
1789316--1789349	16	2.1	16	89	10	52	70	2	2	23	1.15
1789317--1789357	20	2.0	20	86	9	57	70	2	2	24	1.11
1789952--1789990	20	2.0	20	89	0	60	12	38	33	15	1.85
1800977--1801041	24	2.8	24	85	2	87	24	26	23	26	2.00
1801716--1801753	19	2.0	19	85	10	51	28	2	13	55	1.51
1802080--1802134	28	2.0	28	96	0	101	20	0	27	52	1.46
1802085--1802144	28	2.1	28	84	0	75	21	1	25	51	1.57
1802793--1802837	9	5.0	9	78	10	56	35	20	22	22	1.96
1802793--1802837	18	2.5	18	89	7	65	35	20	22	22	1.96
1809013--1809231	30	7.3	30	77	6	149	13	27	20	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1809014--1809231	60	3.6	60	78	3	206	13	27	20	38	1.90
1812481--1812740	138	1.9	138	90	1	414	32	18	19	29	1.96
1816396--1816470	26	2.9	26	70	16	66	52	4	0	44	1.20
1818759--1818898	64	2.2	62	83	7	174	50	5	15	28	1.67
1824113--1824179	29	2.2	31	82	12	77	46	4	4	44	1.43
1830471--1830568	28	3.4	28	77	7	90	50	13	4	32	1.60
1830568--1830651	29	2.8	29	90	3	123	53	7	7	32	1.55
1830575--1830680	29	3.6	29	85	8	119	50	8	4	35	1.54
1832276--1832333	16	3.4	16	72	13	53	63	0	1	34	1.04
1839586--1839628	3	14.3	3	100	0	86	32	0	0	67	0.91
1841200--1841283	41	2.0	41	95	0	150	26	11	20	41	1.86
1843149--1843345	100	2.0	97	97	3	367	21	17	17	43	1.88
1846404--1846539	14	10.6	13	70	15	63	16	12	8	62	1.53
1846404--1846510	52	2.1	52	92	0	178	14	10	8	66	1.44
1849994--1850018	9	2.8	9	100	0	50	40	12	0	48	1.40
1853704--1853772	23	3.3	23	63	23	60	33	10	14	42	1.79
1853686--1853862	40	4.4	40	91	0	264	29	16	12	41	1.85
1853833--1853920	37	2.3	38	77	9	90	27	22	12	37	1.90
1854306--1854369	20	3.2	20	63	12	51	40	10	21	26	1.86
1854384--1854727	136	2.6	135	91	3	552	34	18	22	24	1.96
1854530--1854969	242	1.8	242	87	4	663	36	15	21	26	1.94
1858529--1858571	18	2.4	18	80	3	52	2	20	0	76	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1858522--1858567	21	2.2	21	84	0	56	2	21	0	76	0.90
1868082--1868131	22	2.2	23	82	7	57	60	4	4	32	1.34
1870009--1870033	11	2.3	11	100	0	50	40	8	16	36	1.77
1872092--1872136	16	2.9	16	87	12	60	37	4	0	57	1.19
1873108--1873200	48	1.9	49	84	2	125	35	16	13	34	1.88
1877933--1878106	61	2.9	57	76	15	190	32	22	7	37	1.82
1878191--1878303	60	1.9	60	83	3	147	42	2	21	33	1.67
1878190--1878317	60	2.1	60	80	5	143	40	3	21	34	1.71
1882265--1882423	60	2.6	59	71	14	137	38	6	23	31	1.80
1887482--1887520	14	2.8	14	100	0	78	7	12	25	53	1.65
1887490--1887540	24	2.1	24	85	0	66	11	11	21	54	1.68
1887465--1887540	38	2.0	38	89	0	116	10	11	22	55	1.66
1888467--1888531	16	4.1	16	91	0	103	10	12	20	56	1.65
1888601--1888633	16	2.1	16	100	0	66	6	12	24	57	1.57
1890706--1890857	79	1.9	79	97	0	286	26	20	11	41	1.86
1891348--1891400	25	2.1	25	82	6	63	52	0	3	43	1.19
1892504--1892535	3	10.3	3	93	6	55	65	0	0	34	0.93
1895313--1895343	12	2.5	13	89	10	55	12	16	0	70	1.16
1896465--1896541	10	7.9	9	74	16	55	18	25	24	31	1.97
1896465--1896503	21	1.9	21	89	5	62	17	25	23	33	1.96
1896465--1896541	30	2.6	30	89	6	120	18	25	24	31	1.97
1896467--1896556	19	4.6	19	75	15	78	16	27	25	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1896556--1896610	17	3.2	17	97	0	101	18	45	23	12	1.83
1901632--1901732	50	2.0	50	100	0	202	25	17	17	38	1.92
1903460--1903550	10	9.3	9	78	15	83	16	27	26	29	1.97
1903460--1903550	30	3.1	29	85	6	121	16	27	26	29	1.97
1903459--1903550	19	4.7	19	81	11	105	17	27	26	29	1.97
1903517--1903557	19	2.2	19	90	0	64	19	26	29	24	1.98
1903553--1903615	22	3.1	21	73	21	62	19	44	22	14	1.86
1903577--1903615	12	3.4	12	79	13	55	17	46	23	12	1.83
1903555--1903603	17	2.9	17	87	0	71	20	42	22	14	1.88
1909412--1909441	9	3.3	9	90	0	51	56	30	0	13	1.37

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14