genome.fa.s190.2.7.7.80.10.50.1000.8.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   52   53   54   55   56   57   58   59   60   61   62   

This is table  8  of  62  ( 7381 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)
1784188--1784218	16	1.9	16	93	0	53	12	0	32	54	1.38
1786899--1786991	21	4.5	21	78	4	100	39	18	24	17	1.91
1786899--1786991	41	2.3	41	100	0	186	39	18	24	17	1.91
1787022--1787052	16	1.9	16	93	0	53	29	29	19	22	1.98
1787258--1787301	22	2.0	22	95	0	79	20	45	15	18	1.85
1787565--1787602	20	1.9	20	88	0	58	13	15	21	50	1.78
1788885--1788926	18	2.3	18	87	0	66	26	47	11	14	1.78
1789399--1789444	20	2.3	20	85	7	58	39	26	19	15	1.91
1789410--1789465	20	2.8	20	81	2	69	41	21	21	16	1.90
1789454--1789511	14	3.9	14	77	16	62	50	24	15	10	1.75
1789438--1789528	32	2.8	33	93	3	157	48	21	17	12	1.80
1789545--1789602	14	3.9	14	79	16	71	8	17	25	48	1.75
1789540--1789618	32	2.4	33	95	2	142	10	18	24	46	1.80
1789559--1789660	19	5.6	19	76	12	90	12	21	23	42	1.87
1789603--1789657	20	2.8	19	89	5	83	16	25	23	34	1.95
1791661--1791728	19	3.8	19	85	14	101	47	17	22	13	1.82
1792835--1792888	24	2.2	24	86	0	72	24	14	20	40	1.90
1795305--1795431	33	3.8	33	86	4	193	43	19	22	14	1.88
1795306--1795438	66	2.0	66	95	0	239	42	19	21	16	1.89
1795614--1795648	14	2.6	14	95	4	63	42	25	0	31	1.55
1797003--1797069	21	3.2	21	68	4	55	19	20	35	23	1.95
1797003--1797125	42	2.9	41	79	7	113	22	17	36	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1799106--1799166	20	3.1	19	79	9	68	44	18	24	13	1.85
1799131--1799228	32	3.0	33	86	4	135	38	26	23	11	1.88
1799200--1799261	19	3.3	19	82	13	92	45	25	19	9	1.81
1799836--1799913	41	1.9	41	86	0	111	21	16	21	39	1.92
1799817--1799910	20	4.7	20	80	2	89	23	18	24	34	1.96
1799836--1799931	41	2.3	41	80	3	104	20	19	21	37	1.94
1800983--1801022	15	2.7	15	80	0	53	45	0	7	47	1.31
1801674--1801703	3	10.0	3	92	0	51	0	36	0	63	0.95
1812297--1812349	4	13.8	4	90	7	83	54	0	0	45	0.99
1812681--1812724	22	2.0	22	83	16	56	9	29	0	61	1.27
1815737--1815927	45	4.2	44	81	4	202	37	8	24	29	1.85
1815775--1815843	23	3.0	23	65	12	61	40	4	24	30	1.74
1815736--1815927	90	2.1	90	84	1	242	36	8	24	30	1.85
1816325--1816455	63	2.1	63	92	2	219	34	26	16	22	1.95
1817393--1817442	2	25.0	2	100	0	100	50	0	0	50	1.00
1819008--1819038	15	2.1	15	93	0	53	41	3	41	12	1.59
1822450--1822560	55	2.0	55	92	0	186	35	14	21	28	1.93
1835575--1835599	12	2.1	12	100	0	50	40	0	8	52	1.31
1845509--1845584	35	2.2	35	90	0	116	39	22	1	36	1.63
1845968--1846210	127	1.9	128	90	0	389	36	15	12	35	1.85
1847792--1847871	2	45.5	2	71	24	56	57	0	0	42	0.98
1847791--1847873	13	6.2	15	71	24	78	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1849733--1849783	22	2.3	22	96	0	93	17	45	15	21	1.86
1850123--1850161	20	2.0	20	94	0	69	51	17	12	17	1.76
1850167--1850221	20	2.8	19	83	8	74	14	14	21	49	1.79
1851543--1851639	42	2.3	42	90	0	149	28	37	16	17	1.92
1851753--1851809	21	2.7	22	83	5	73	15	12	36	35	1.85
1851753--1851820	21	3.2	21	77	8	66	16	11	35	36	1.85
1852168--1852266	21	4.7	21	84	3	128	21	33	20	25	1.97
1852168--1852286	42	2.8	42	87	0	148	21	33	19	25	1.97
1852195--1852286	21	4.4	20	83	2	76	21	34	20	22	1.96
1852844--1852917	37	2.0	37	97	0	139	22	6	35	35	1.81
1853841--1853897	29	2.0	29	89	0	87	28	17	26	28	1.98
1853868--1853913	20	2.3	20	92	0	74	32	15	21	30	1.94
1853876--1853915	20	2.0	20	100	0	80	30	15	20	35	1.93
1853915--1853980	20	3.3	20	82	0	78	16	18	18	46	1.84
1855899--1856839	471	2.0	468	96	3	1748	27	22	11	38	1.88
1857012--1857065	24	2.2	24	93	0	90	42	18	16	22	1.89
1857012--1857079	24	2.8	24	84	0	64	39	17	16	26	1.90
1857806--1857844	16	2.4	16	86	0	51	66	0	5	28	1.12
1857981--1858114	20	6.7	20	70	16	71	32	11	23	32	1.90
1857983--1858150	40	4.2	40	75	6	135	30	12	25	31	1.93
1861617--1861707	46	2.0	46	91	0	146	28	12	19	39	1.88
1871742--1871879	20	6.9	19	81	7	123	36	26	17	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1871742--1871879	40	3.4	40	78	5	136	36	26	17	20	1.94
1872034--1872080	19	2.4	20	85	7	69	23	14	31	29	1.95
1872860--1872955	38	2.5	38	88	3	140	23	28	20	27	1.99
1873104--1873208	46	2.3	46	93	1	176	33	18	6	41	1.76
1878640--1878689	2	25.0	2	95	0	91	48	0	2	50	1.12
1883092--1883141	15	3.4	14	81	10	55	56	2	42	0	1.11
1887504--1887537	2	17.0	2	100	0	68	50	0	0	50	1.00
1888589--1888633	25	2.0	23	83	16	58	48	0	0	51	1.00
1891273--1891312	19	2.1	19	100	0	80	35	15	32	17	1.91
1891313--1891339	2	13.5	2	100	0	54	48	0	0	51	1.00
1891517--1891558	17	2.4	19	84	11	54	30	0	2	66	1.04
1891518--1891560	22	2.0	22	86	9	61	30	0	2	67	1.03
1891518--1891559	18	2.4	18	84	11	52	28	0	2	69	1.01
1891849--1891894	12	3.8	12	88	11	67	36	2	2	58	1.22
1898455--1898491	2	18.5	2	100	0	74	48	0	0	51	1.00
1901289--1901321	14	2.2	16	89	10	52	18	21	33	27	1.96
1907890--1907933	16	2.8	16	92	0	79	59	20	11	9	1.59
1909026--1909090	23	2.8	23	86	9	87	43	23	18	15	1.88
1909026--1909075	24	2.1	23	92	3	82	42	26	18	14	1.87
1910313--1910381	3	21.7	3	85	2	66	39	1	0	59	1.06
1910748--1910785	3	13.0	3	84	15	53	36	0	0	63	0.95
1912174--1912503	135	2.4	133	80	13	318	40	6	6	47	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1912490--1912518	2	15.0	2	92	7	51	48	0	0	51	1.00
1912257--1912506	135	1.9	135	85	8	357	38	7	7	46	1.60
1912491--1912516	13	2.0	13	100	0	52	46	0	0	53	1.00
1912490--1912519	15	2.0	15	100	0	60	46	0	0	53	1.00
1914569--1914612	21	2.2	20	83	4	52	22	15	4	56	1.57
1914959--1915039	40	2.0	41	83	7	103	48	13	18	19	1.81
1921405--1921534	53	2.4	52	81	6	145	42	16	21	20	1.89
1921918--1921960	22	2.0	22	95	0	77	32	16	13	37	1.88
1922604--1922867	45	6.0	45	86	5	353	24	23	18	33	1.97
1922604--1922857	87	2.9	87	88	2	366	25	23	17	33	1.96
1923216--1923264	3	16.7	3	81	12	57	40	0	0	59	0.98
1923215--1923267	26	2.0	26	92	7	90	45	0	0	54	0.99
1924556--1924638	6	11.6	7	72	20	50	28	2	3	65	1.22
1924608--1924651	23	2.0	23	86	13	65	29	0	4	65	1.12
1924844--1924897	20	2.5	22	79	14	58	42	1	0	55	1.10
1925016--1925061	2	24.0	2	91	8	78	52	0	0	47	1.00
1928605--1928631	13	2.1	13	100	0	54	14	22	33	29	1.94
1935977--1936085	19	5.4	19	80	13	101	29	29	5	35	1.80
1939123--1939175	20	2.6	21	75	3	63	15	16	33	33	1.90
1940387--1940659	85	3.2	85	94	1	467	58	3	13	24	1.51
1940659--1940743	36	2.4	34	80	18	93	69	1	9	20	1.23
1941683--1941720	20	1.9	20	100	0	76	13	26	34	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1942611--1942650	21	1.9	21	89	0	62	37	20	20	22	1.94
1944378--1944435	23	2.5	23	83	10	82	32	20	25	20	1.97
1945813--1945850	20	1.9	20	100	0	76	13	26	34	26	1.93
1947083--1947407	2	169.5	2	71	20	232	52	4	1	40	1.32
1947068--1947181	29	3.7	29	73	18	88	58	0	3	37	1.15
1947082--1947412	27	13.0	24	70	20	126	53	4	1	40	1.31
1947079--1947398	65	4.5	71	72	20	210	53	4	1	40	1.31
1947085--1947407	144	2.2	140	79	16	340	52	4	1	40	1.32
1947087--1947408	72	4.5	71	76	16	274	53	4	1	40	1.32
1956936--1956980	23	2.0	24	87	12	69	4	22	2	71	1.15

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   52   53   54   55   56   57   58   59   60   61   62