genome.fa.s1547.2.7.7.80.10.50.1000.9.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  9  of  51  ( 6083 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)
1743308--1743357	21	2.4	21	89	0	82	36	36	12	16	1.85
1746184--1746857	200	3.4	199	92	1	1125	37	14	15	31	1.89
1750111--1750369	3	88.7	3	66	13	112	55	4	5	34	1.42
1750111--1750192	34	2.4	34	85	4	103	60	2	2	34	1.23
1750249--1750334	8	10.8	8	70	20	56	58	1	4	36	1.27
1750247--1750369	14	8.8	14	69	15	76	56	3	4	36	1.35
1750249--1750382	53	2.5	53	75	11	141	55	3	5	35	1.40
1752433--1752458	9	2.9	9	100	0	52	46	23	7	23	1.78
1752573--1752611	17	2.4	17	95	4	71	43	0	5	51	1.24
1756910--1756943	3	11.3	3	93	0	59	61	0	2	35	1.11
1757426--1757653	101	2.2	103	87	5	327	41	13	19	25	1.88
1757510--1757586	37	2.1	36	87	2	109	42	12	20	23	1.87
1757369--1757550	65	2.8	65	85	5	235	42	15	17	24	1.88
1758899--1758958	12	5.2	12	72	11	54	1	10	8	80	0.99
1760341--1760381	12	3.4	12	89	0	55	19	2	12	65	1.36
1762494--1762603	14	7.5	14	71	22	57	60	0	0	38	1.10
1762491--1762582	33	2.8	32	91	4	148	56	1	1	41	1.13
1762565--1762603	15	2.6	15	88	11	62	69	0	0	30	0.89
1762654--1762866	11	17.7	11	71	22	94	42	5	3	48	1.43
1762672--1762754	13	6.7	13	80	13	77	38	7	3	50	1.47
1762660--1762868	24	8.7	23	73	13	129	42	6	3	47	1.45
1762768--1762814	8	6.5	8	75	22	50	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1762773--1762863	14	7.1	14	74	19	65	42	3	3	50	1.35
1762773--1762884	52	2.2	49	84	4	134	43	5	3	47	1.43
1762821--1762918	38	2.5	40	74	15	98	42	8	3	45	1.49
1765244--1765293	14	3.6	14	72	5	57	44	6	8	42	1.58
1765238--1765306	27	2.6	27	97	0	129	36	13	7	43	1.71
1765306--1765372	6	11.2	6	100	0	134	0	49	16	34	1.46
1765602--1765653	23	2.3	23	100	0	104	26	19	11	42	1.85
1776567--1776611	16	2.8	16	86	3	63	42	4	0	53	1.21
1777235--1777523	146	2.0	146	99	0	569	41	16	15	25	1.88
1780963--1781069	53	2.0	53	100	0	214	20	18	14	46	1.83
1792284--1792736	225	2.0	226	99	0	899	24	22	15	37	1.93
1796177--1796233	25	2.3	25	78	3	62	3	5	22	68	1.25
1805421--1805521	40	2.5	40	77	6	105	23	18	34	22	1.96
1805612--1805676	31	2.1	31	82	2	78	35	10	21	32	1.88
1805640--1806128	66	7.4	63	75	13	330	41	14	15	28	1.86
1805970--1806066	36	2.9	32	75	13	95	41	13	15	29	1.85
1806211--1806277	32	2.1	33	88	2	100	29	22	17	29	1.97
1807324--1807432	17	6.9	16	75	15	86	0	16	9	73	1.13
1807335--1807443	34	3.1	34	77	15	107	0	17	9	73	1.08
1807324--1807434	47	2.4	48	85	10	149	0	17	9	72	1.14
1807402--1807449	25	1.9	25	86	0	69	2	16	12	68	1.29
1809018--1809064	11	4.2	11	76	15	51	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1809209--1809289	26	3.2	26	63	30	66	58	4	8	28	1.49
1809208--1809303	50	1.9	50	100	0	192	58	5	9	27	1.51
1809224--1809305	27	3.2	27	63	30	70	57	4	10	26	1.53
1810019--1810058	9	4.3	9	87	3	53	0	20	2	77	0.88
1810580--1810729	3	50.0	3	93	0	255	64	0	2	32	1.07
1810982--1811853	112	7.8	113	89	4	1156	29	18	14	37	1.91
1810982--1811853	334	2.6	330	86	6	1165	29	18	14	37	1.91
1811709--1812110	203	2.0	199	97	2	752	33	17	14	34	1.90
1812788--1814077	83	15.5	83	95	1	2302	37	21	13	27	1.91
1815231--1815303	9	8.8	9	75	15	52	4	13	0	82	0.81
1815231--1815304	14	5.6	13	80	16	64	4	13	0	82	0.81
1822033--1822363	166	2.0	165	97	2	621	20	19	13	45	1.85
1827380--1827421	15	2.9	14	89	7	57	0	21	2	76	0.90
1827380--1827421	20	2.1	20	86	8	59	0	21	2	76	0.90
1827465--1827515	22	2.3	22	79	0	57	1	27	11	58	1.44
1827950--1828084	3	45.0	3	92	0	225	65	0	2	31	1.04
1828213--1828265	6	8.5	6	82	10	54	54	13	16	15	1.71
1828220--1828259	20	2.0	20	85	5	53	52	15	17	15	1.75
1828231--1828269	12	2.9	14	81	14	55	53	12	17	15	1.72
1830667--1830699	16	2.1	16	94	0	57	66	6	9	18	1.40
1830856--1830942	30	2.9	30	78	9	88	60	10	12	16	1.58
1830947--1831003	30	1.9	30	85	0	78	59	10	14	15	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1832522--1832553	16	1.9	17	93	6	57	78	3	0	18	0.89
1845581--1845625	18	2.4	18	88	3	63	28	2	4	64	1.25
1846497--1846528	15	2.2	14	94	5	55	31	6	18	43	1.75
1846519--1846928	194	2.1	193	86	1	552	38	11	10	39	1.76
1848505--1848557	26	2.0	26	100	0	106	30	32	11	26	1.91
1850076--1850155	39	2.1	39	88	4	117	45	5	3	46	1.43
1851086--1851118	16	2.0	17	88	5	50	51	3	0	45	1.16
1852002--1852059	29	2.0	30	86	3	82	48	18	17	15	1.82
1852602--1852650	19	2.6	19	96	0	89	32	28	18	20	1.96
1852537--1852698	83	1.9	82	85	8	220	30	25	17	26	1.97
1858140--1858240	22	4.6	22	85	3	132	25	23	24	25	2.00
1863275--1863326	22	2.4	22	96	0	95	34	9	5	50	1.59
1864936--1864965	14	2.1	14	93	0	51	70	0	0	30	0.88
1871244--1871270	2	13.5	2	100	0	54	51	0	0	48	1.00
1871434--1871491	13	4.5	13	86	0	71	34	17	18	29	1.94
1874052--1874163	24	4.8	24	73	4	84	36	25	19	18	1.94
1875550--1875753	102	2.0	102	100	0	408	35	22	5	36	1.79
1879399--1880431	136	7.6	136	84	3	1202	26	22	16	34	1.95
1882343--1882402	8	7.5	8	83	5	59	0	18	0	81	0.69
1882365--1882403	4	10.2	4	86	10	55	0	20	0	79	0.73
1882366--1882403	11	3.4	11	88	3	58	0	18	0	81	0.69
1886383--1886467	34	2.5	33	79	11	91	62	8	7	22	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1898528--1898594	20	3.6	19	67	19	52	37	19	22	20	1.95
1899270--1899321	22	2.3	23	80	6	61	30	17	17	34	1.93
1900370--1900405	17	2.1	17	90	10	56	36	13	5	44	1.68
1901087--1901185	24	4.2	23	81	3	119	33	26	21	19	1.97
1905617--1905738	59	2.0	60	84	6	158	36	15	13	33	1.87
1913013--1913059	16	2.9	16	84	9	51	29	0	2	68	1.02
1913029--1913082	15	3.6	16	73	16	62	29	0	1	68	1.00
1913011--1913085	28	2.7	29	84	10	93	32	0	2	65	1.07
1914759--1914805	21	2.3	21	85	3	60	25	40	12	21	1.89
1914809--1914901	21	4.5	21	88	6	111	17	34	26	21	1.95
1915413--1915495	33	2.5	33	86	5	105	56	3	2	37	1.30
1915900--1916902	255	4.0	254	95	2	1806	32	19	25	22	1.98
1915900--1916902	127	7.9	128	95	2	1812	32	19	25	22	1.98
1916973--1917013	8	5.2	8	82	5	57	36	29	0	34	1.58
1921953--1921993	10	4.1	10	84	12	57	31	29	0	39	1.57
1922014--1922042	14	2.1	14	93	6	51	27	6	0	65	1.18
1922117--1922337	110	2.0	111	91	0	363	37	9	9	43	1.70
1923834--1923870	18	2.1	18	94	0	65	29	29	18	21	1.97
1924366--1924441	25	3.1	24	68	19	66	25	5	5	64	1.36
1924369--1924442	26	2.9	26	69	27	77	25	5	4	64	1.32
1928061--1928149	47	1.9	46	83	2	115	28	23	21	26	1.99
1928097--1928141	12	3.8	12	82	5	65	22	26	20	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1928096--1928149	23	2.3	23	96	0	99	25	25	20	27	1.99
1928668--1928699	14	2.3	14	94	0	55	46	28	15	9	1.77
1929569--1929626	22	2.6	22	81	8	64	55	0	3	41	1.17
1929668--1929718	20	2.6	19	82	14	59	58	3	0	37	1.16
1936852--1936882	7	4.4	7	91	0	53	32	29	0	38	1.57
1937347--1937376	14	2.2	14	94	5	53	73	0	0	26	0.84
1937585--1937626	22	1.9	22	85	0	57	42	0	2	54	1.13
1937977--1938036	29	2.0	32	83	9	81	50	5	1	43	1.34
1949097--1949148	3	18.0	3	80	7	63	36	3	0	59	1.16
1949098--1949159	20	3.0	20	83	2	79	41	4	0	53	1.22

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51