genome.fa.s1129.2.7.7.80.10.50.1000.10.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  10  of  89  ( 10573 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)
1816624--1816650	13	2.1	13	100	0	54	40	7	7	44	1.60
1816581--1816737	75	2.1	74	82	9	189	43	7	3	45	1.48
1816774--1816870	37	2.7	36	84	7	126	44	10	0	45	1.38
1816717--1816849	59	2.3	58	81	13	148	43	11	0	44	1.45
1825150--1825216	24	2.8	24	93	0	107	14	16	31	37	1.89
1825150--1825224	24	3.1	24	90	0	96	17	16	30	36	1.91
1828883--1828937	29	1.9	28	85	3	74	56	7	10	25	1.59
1829951--1829987	6	6.3	6	82	17	51	81	0	0	18	0.70
1829949--1829982	17	2.0	17	94	0	59	79	0	0	20	0.73
1829951--1829999	22	2.2	22	92	3	80	77	0	0	22	0.77
1830016--1830048	17	1.9	17	93	0	57	45	6	3	45	1.43
1830033--1830250	37	5.9	36	78	12	185	42	9	5	42	1.61
1830003--1830250	72	3.3	74	77	14	215	43	8	5	42	1.58
1830910--1831051	58	2.4	60	80	11	159	36	7	2	53	1.43
1830907--1831048	30	4.8	29	73	10	119	37	7	2	52	1.43
1833254--1833337	24	3.3	23	76	20	78	38	8	1	52	1.39
1833250--1833390	30	5.0	29	80	13	134	39	8	1	51	1.41
1833389--1833429	20	2.0	20	86	9	57	60	0	4	34	1.18
1833379--1833431	20	2.5	21	75	12	54	58	0	3	37	1.16
1833408--1833522	30	3.9	29	79	7	126	52	0	5	42	1.24
1833410--1833537	30	4.3	29	76	9	116	51	0	6	42	1.27
1834393--1834435	16	2.7	16	82	7	52	32	11	27	27	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1834481--1834528	23	2.1	23	88	0	69	41	8	16	33	1.78
1834630--1834679	23	2.2	23	96	0	91	36	12	18	34	1.87
1834640--1834689	23	2.2	23	81	0	55	36	12	22	30	1.90
1834453--1834992	158	3.4	158	91	0	848	41	12	13	32	1.82
1834788--1834847	23	2.6	23	86	0	84	43	8	15	33	1.76
1835440--1835469	2	15.0	2	100	0	60	50	0	0	50	1.00
1837289--1837331	22	2.0	22	90	4	70	55	9	4	30	1.52
1837295--1839671	198	11.8	199	82	7	2647	32	14	14	38	1.87
1837295--1839671	398	5.9	399	83	6	2873	32	14	14	38	1.87
1839158--1839196	20	2.0	20	89	0	60	30	15	10	43	1.80
1839218--1839264	20	2.3	20	92	0	76	38	8	17	36	1.80
1839304--1839357	21	2.6	21	90	0	81	51	11	11	25	1.70
1841239--1841274	18	2.0	18	88	0	54	50	11	5	33	1.61
1841239--1841293	24	2.3	24	84	6	76	49	12	5	32	1.64
1844234--1845207	199	4.9	198	90	2	1517	32	14	13	38	1.86
1845048--1845390	128	2.7	126	79	7	363	32	12	11	43	1.79
1848369--1848423	2	27.5	2	100	0	110	49	0	0	50	1.00
1849155--1849201	16	2.9	16	87	9	60	48	0	0	51	1.00
1851028--1851075	25	1.9	25	86	0	69	70	0	2	27	0.98
1851290--1852100	123	6.7	122	76	12	663	27	19	14	38	1.91
1851790--1852239	113	4.0	114	85	4	589	29	20	13	36	1.91
1851790--1852207	225	1.9	222	89	3	660	29	20	12	36	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1854140--1854237	36	2.7	36	80	3	117	30	28	17	23	1.97
1861202--1861237	16	2.3	15	90	4	54	66	2	0	30	1.06
1861207--1861261	26	2.0	28	86	13	80	61	1	1	34	1.17
1861233--1861268	19	1.9	19	88	5	56	63	0	2	33	1.08
1861756--1861788	17	1.9	17	88	11	50	36	0	3	60	1.12
1861741--1861794	19	2.9	19	78	8	58	44	0	1	53	1.11
1861844--1861890	16	2.9	16	87	9	60	48	0	0	51	1.00
1863551--1863619	23	2.9	22	79	12	66	71	0	4	24	1.05
1868435--1869093	182	3.6	182	90	2	977	27	15	13	43	1.85
1871342--1871386	22	2.1	22	87	4	65	6	8	28	55	1.56
1871370--1871414	23	2.0	22	91	4	72	0	15	37	46	1.46
1874933--1875016	43	2.0	43	90	0	132	29	9	4	55	1.52
1877459--1877513	27	2.0	26	86	13	76	56	1	1	40	1.21
1877458--1877511	19	2.8	20	78	8	60	57	1	1	38	1.20
1877936--1877977	22	1.9	22	100	0	84	9	14	14	61	1.55
1881319--1881531	111	1.9	110	95	2	383	44	10	7	38	1.66
1881603--1881641	18	2.2	18	95	4	71	64	2	0	33	1.08
1881683--1881723	10	4.1	10	84	12	57	39	0	29	31	1.57
1882733--1882793	22	2.8	22	97	0	113	42	19	29	8	1.80
1892326--1892368	20	2.1	21	86	4	61	48	11	9	30	1.71
1897053--1897164	58	1.9	57	85	1	143	34	17	11	35	1.86
1897148--1897377	54	4.3	54	87	3	311	34	21	17	26	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1902050--1902077	7	4.0	7	100	0	56	42	0	0	57	0.99
1902459--1902494	17	2.1	17	100	0	72	52	25	5	16	1.65
1908712--1908780	36	1.9	36	81	0	84	36	17	20	26	1.94
1908940--1908977	20	1.9	20	94	0	67	52	10	5	31	1.58
1912369--1912418	20	2.5	20	83	6	66	30	18	16	36	1.92
1914869--1914992	21	5.8	22	71	17	73	24	20	23	31	1.98
1921044--1921102	21	2.8	20	77	10	64	27	15	30	27	1.96
1921575--1921624	21	2.4	21	86	6	66	42	14	20	24	1.88
1924331--1924406	21	3.6	21	78	0	80	34	19	17	28	1.94
1924849--1924885	18	2.1	18	90	5	58	27	16	18	37	1.92
1924960--1924997	20	1.9	20	88	0	58	34	10	28	26	1.90
1936963--1937022	25	2.3	26	85	2	77	21	25	20	33	1.97
1943685--1943758	33	2.2	34	85	9	107	35	13	14	36	1.86
1943701--1943770	33	2.1	33	94	0	122	28	11	18	41	1.85
1944235--1944754	84	6.3	82	77	5	451	25	20	24	30	1.99
1944861--1945515	110	6.0	110	90	1	989	24	18	22	34	1.96
1944864--1945515	219	3.0	218	88	2	979	24	18	22	34	1.96
1949685--1949755	33	2.2	33	92	0	115	26	12	19	40	1.88
1949805--1949881	23	3.6	21	73	21	70	67	0	2	29	1.04
1950326--1950359	15	2.3	15	94	0	59	26	5	8	58	1.51
1952323--1952377	28	2.0	28	82	7	67	45	0	3	50	1.19
1952855--1952902	21	2.2	23	82	14	57	33	2	2	62	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1953542--1953585	22	2.0	22	86	0	61	54	0	13	31	1.39
1955863--1955909	2	23.5	2	100	0	94	48	0	0	51	1.00
1957649--1957689	22	2.0	21	85	9	57	31	26	19	21	1.97
1957820--1957848	15	1.9	15	100	0	58	41	13	13	31	1.84
1958379--1958421	19	2.3	19	84	8	52	39	2	4	53	1.34
1959568--1959599	16	2.0	17	88	11	50	37	3	9	50	1.51
1962301--1962739	162	2.7	162	84	4	523	25	17	18	38	1.93
1962992--1963251	103	2.5	102	84	6	337	38	10	19	31	1.86
1963317--1963645	101	3.2	100	82	6	419	38	11	17	32	1.86
1965680--1965809	7	18.7	7	80	15	67	5	17	0	76	1.02
1965673--1965811	21	6.6	22	80	14	88	5	17	0	76	1.01
1965725--1965825	7	15.7	7	86	11	121	7	12	0	79	0.94
1967433--1967481	24	2.0	25	84	7	66	69	0	10	20	1.17
1969865--1969946	23	3.7	23	75	6	78	35	23	21	19	1.96
1970071--1970228	45	3.5	44	77	7	131	34	20	7	36	1.82
1973842--1974034	41	4.7	41	96	0	359	20	19	24	36	1.95
1973867--1974021	20	7.6	20	71	4	130	18	20	23	38	1.93
1974079--1974135	22	2.6	22	88	0	96	19	15	28	36	1.92
1974673--1974710	6	6.5	6	96	3	69	0	15	52	31	1.43
1974856--1974951	20	4.8	20	76	2	93	42	23	18	14	1.88
1974955--1975023	19	3.5	19	66	11	57	39	20	18	21	1.93
1974955--1975064	41	2.7	42	88	4	163	38	22	20	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1974973--1975044	22	3.4	22	66	11	69	37	23	18	20	1.94
1975008--1975087	20	3.9	20	82	9	99	40	23	23	12	1.89
1975076--1975129	21	2.6	21	96	0	99	29	27	16	25	1.97
1977990--1978042	2	26.5	2	100	0	106	50	0	0	49	1.00
1984459--1984518	10	5.8	10	75	14	50	26	26	28	18	1.98
1993450--1993675	102	2.2	102	78	3	240	31	12	23	31	1.92
1994032--1994117	37	2.4	36	92	2	145	55	19	6	17	1.64
1998717--1998750	16	2.1	17	88	5	52	41	17	2	38	1.65
1999397--1999467	23	3.1	23	82	6	74	35	26	18	19	1.95
2003445--2003518	20	3.7	20	69	3	58	36	20	17	25	1.94

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   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89