genome.fa.s8029.2.7.7.80.10.50.1000.9.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: VEPZ01008029.1 Hibiscus syriacus cultivar Beakdansim tig00110505_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3983240

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  9  of  18  ( 2124 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)
1684324--1684415	29	3.2	29	92	0	148	29	3	23	43	1.70
1685323--1685491	42	4.0	42	92	0	277	18	21	24	35	1.95
1685328--1685530	84	2.4	84	86	4	257	18	23	23	34	1.96
1691440--1691481	18	2.3	18	91	0	66	26	35	19	19	1.95
1691495--1691580	29	3.0	29	89	0	127	31	3	19	45	1.67
1692090--1692205	42	2.8	42	81	1	135	20	20	22	36	1.95
1692093--1692254	83	1.9	84	80	3	184	20	22	20	36	1.95
1693241--1693304	33	1.9	34	84	9	87	57	7	3	31	1.43
1695742--1695800	18	3.4	17	73	23	52	35	8	22	33	1.84
1696199--1696232	17	2.1	16	88	5	50	38	0	0	61	0.96
1700874--1700900	14	1.9	14	100	0	54	33	0	7	59	1.25
1701094--1701145	23	2.3	23	83	6	63	28	17	23	30	1.97
1701591--1701624	18	1.9	18	88	5	52	41	0	5	52	1.25
1708967--1709089	61	2.0	61	98	0	237	27	23	13	35	1.92
1716395--1716426	13	2.5	13	95	5	57	78	0	9	12	0.97
1719776--1719815	21	2.0	20	85	5	53	37	20	15	27	1.92
1723605--1723686	28	2.8	30	78	15	84	25	0	18	56	1.42
1724446--1724496	24	2.2	23	82	3	57	49	1	1	47	1.24
1725129--1725438	151	2.0	153	92	1	516	40	6	7	45	1.59
1726992--1727034	18	2.3	18	84	11	52	20	6	4	67	1.33
1733659--1733700	3	13.7	3	80	14	50	61	0	0	38	0.96
1733859--1734103	91	2.7	91	94	1	433	23	19	15	41	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1734050--1734142	35	2.7	35	85	12	129	18	23	12	45	1.84
1734050--1734143	36	2.6	35	88	9	129	18	23	12	45	1.83
1734185--1734546	137	2.7	134	87	6	493	29	21	14	34	1.93
1734593--1734838	89	2.9	82	84	10	343	34	21	19	23	1.96
1744762--1744796	3	11.7	3	88	11	54	65	0	0	34	0.93
1745829--1745862	18	1.9	17	88	5	50	58	0	0	41	0.98
1746672--1746742	28	2.5	28	79	4	72	56	15	2	25	1.53
1747093--1747169	29	2.7	29	76	11	77	22	1	19	57	1.48
1747847--1747881	17	2.1	16	94	5	61	51	5	0	42	1.25
1748107--1748203	42	2.3	42	96	0	176	36	2	13	48	1.54
1749699--1749818	58	2.1	58	96	0	222	22	6	25	45	1.77
1750413--1750566	31	5.0	31	87	7	208	25	18	23	31	1.97
1751284--1751338	21	2.6	21	91	0	83	23	12	34	29	1.92
1760455--1760561	30	3.6	30	80	9	96	55	10	12	22	1.66
1761777--1761814	3	12.3	3	84	15	51	63	0	2	34	1.09
1762424--1762664	67	3.7	65	86	6	274	41	13	14	29	1.84
1762734--1762804	32	2.2	33	87	2	99	28	26	16	28	1.97
1763850--1763892	14	3.1	14	82	0	50	2	13	4	79	1.00
1763853--1763925	21	3.3	21	78	17	67	1	17	6	73	1.11
1763831--1763896	30	2.2	29	79	12	73	1	18	4	75	1.04
1769007--1769048	22	2.0	21	90	4	66	40	0	40	19	1.51
1777046--1777181	30	4.5	30	77	12	109	56	10	13	19	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1777451--1777531	38	2.1	38	95	0	144	54	11	19	14	1.70
1779413--1779466	18	3.0	18	97	0	99	27	33	20	18	1.96
1780022--1780076	24	2.3	24	100	0	110	21	20	21	36	1.95
1786231--1786265	18	1.9	18	100	0	70	25	34	22	17	1.96
1787156--1787204	22	2.2	23	82	10	57	36	18	4	40	1.70
1788284--1788350	27	2.5	27	97	0	125	19	13	11	55	1.69
1788457--1788525	30	2.3	30	94	0	120	30	14	4	50	1.62
1790082--1790116	17	2.1	17	88	0	52	80	0	2	17	0.84
1790059--1790102	23	1.9	23	81	9	54	75	4	4	15	1.14
1790789--1790826	14	2.7	14	95	0	67	15	36	15	31	1.90
1791644--1791685	21	2.0	21	100	0	84	42	19	19	19	1.89
1791842--1792028	84	2.2	85	81	5	227	25	18	24	31	1.98
1792065--1792171	37	2.9	37	91	0	178	39	15	20	24	1.92
1792563--1793749	106	11.3	106	90	2	1734	22	18	25	34	1.96
1792563--1793749	527	2.3	522	89	2	1808	22	18	25	34	1.96
1795199--1795241	12	3.7	12	79	14	54	0	16	2	81	0.79
1795203--1795241	11	3.5	11	82	6	51	0	15	2	82	0.79
1798878--1798915	14	2.7	14	95	0	67	15	36	15	31	1.90
1799334--1799366	2	17.5	2	87	12	52	54	0	0	45	0.99
1799828--1800092	45	6.0	45	74	14	235	31	45	7	15	1.73
1801411--1801451	20	2.0	20	90	0	64	41	2	4	51	1.36
1804307--1804345	17	2.2	19	86	13	57	12	30	5	51	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1807456--1807487	16	2.0	16	93	0	55	53	0	0	46	1.00
1813732--1813776	20	2.3	20	84	3	65	46	2	4	46	1.35
1818985--1819027	10	4.3	10	81	0	59	30	37	0	32	1.58
1818991--1819030	20	2.0	20	95	0	71	25	37	0	37	1.56
1819036--1819090	12	5.0	12	70	20	57	32	0	1	65	1.03
1819037--1819092	15	3.5	17	68	24	50	30	0	1	67	1.01
1819036--1819098	21	3.0	21	80	15	76	31	0	1	66	1.01
1824594--1824626	14	2.4	14	94	0	57	72	0	0	27	0.85
1825200--1825253	10	5.5	10	87	10	60	53	1	5	38	1.35
1825201--1825253	9	5.4	9	82	14	61	54	1	3	39	1.29
1825650--1826724	191	5.6	191	93	0	1774	42	10	16	30	1.81
1829079--1829165	23	3.9	23	88	7	108	32	27	22	17	1.96
1829089--1829165	23	3.4	23	91	3	113	28	27	25	18	1.98
1829089--1829177	23	4.0	23	89	2	110	30	28	25	15	1.96
1831681--1831724	23	1.9	23	90	0	70	15	22	11	50	1.76
1832156--1832186	2	16.0	2	93	6	55	51	0	0	48	1.00
1834056--1834096	14	3.2	13	90	10	66	9	21	26	41	1.84
1834090--1834240	41	3.7	41	97	0	284	21	21	23	33	1.97
1834229--1834281	22	2.4	22	93	0	97	16	16	28	37	1.91
1834883--1834926	6	7.3	6	87	12	56	0	15	52	31	1.44
1835026--1835078	22	2.4	22	93	0	97	37	28	16	16	1.91
1835091--1835142	19	2.7	20	90	3	79	42	23	23	11	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1844365--1844391	2	13.5	2	100	0	54	51	0	0	48	1.00
1847130--1847185	26	2.2	25	78	9	58	25	0	41	33	1.56
1847143--1847193	26	2.0	25	96	3	93	27	0	29	43	1.55
1847838--1847884	21	2.2	21	100	0	94	25	17	29	27	1.97
1847912--1847959	19	2.5	19	96	0	87	18	18	18	43	1.88
1847931--1848042	43	2.7	41	87	5	179	20	17	21	40	1.92
1848397--1848440	20	2.2	20	91	0	70	38	18	4	38	1.71
1848467--1848528	21	3.0	21	73	2	63	40	25	16	17	1.90
1848784--1848903	42	2.9	42	94	0	213	17	19	19	44	1.87
1849093--1849135	21	2.0	22	90	4	70	46	0	0	53	1.00
1849163--1849268	31	3.5	30	79	12	103	45	0	0	52	1.13
1849123--1849277	60	2.6	60	78	10	140	45	1	0	52	1.13
1849212--1849265	28	2.0	26	82	10	65	48	1	0	50	1.11
1849271--1849315	23	2.0	23	86	0	63	53	2	2	42	1.25
1849463--1849512	20	2.5	20	100	0	100	34	16	10	40	1.81
1849495--1849576	15	5.5	15	82	2	94	35	18	7	39	1.78
1849495--1849561	30	2.3	29	94	2	116	34	17	7	40	1.78
1849495--1849580	45	1.9	44	88	2	127	33	17	6	41	1.76
1857238--1857287	25	2.0	25	100	0	100	44	0	4	52	1.20
1858555--1858596	12	3.4	12	87	9	50	28	0	4	66	1.12
1859820--1859939	24	5.3	24	73	14	103	55	15	10	19	1.68
1874159--1874235	21	3.7	21	100	0	154	27	24	25	22	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1879287--1879335	21	2.3	21	92	0	80	30	26	20	22	1.98
1879289--1879341	21	2.5	21	87	0	61	32	30	15	22	1.94
1880005--1880034	2	15.0	2	100	0	60	50	0	0	50	1.00
1881072--1881119	23	2.1	23	84	0	60	22	27	20	29	1.99
1885863--1885920	22	2.6	22	80	0	71	20	41	17	20	1.90
1885992--1886026	12	2.8	12	91	8	52	5	0	8	85	0.73
1886305--1886344	20	2.0	20	90	4	64	10	15	25	50	1.74
1887677--1887772	42	2.3	41	82	8	113	30	33	18	17	1.95
1888161--1888202	4	10.5	4	84	0	57	28	0	2	69	1.01
1888346--1888463	42	2.9	41	89	1	173	22	35	18	22	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18