genome.fa.s9462.2.7.7.80.10.50.1000.10.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   90   91   

This is table  10  of  91  ( 10815 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)
1916121--1916150	15	2.0	15	93	0	51	40	30	0	30	1.57
1918152--1918190	20	2.0	20	95	5	71	20	35	20	23	1.96
1930419--1930457	21	1.9	21	89	5	62	12	10	0	76	1.01
1931230--1931281	24	2.2	24	93	3	88	25	28	26	19	1.98
1939774--1939819	24	2.0	23	82	4	56	67	6	15	10	1.40
1943257--1943300	15	2.8	16	83	16	56	0	13	2	84	0.73
1943252--1943301	17	2.8	18	73	11	50	2	14	2	82	0.86
1946985--1947038	24	2.2	24	100	0	108	42	7	16	33	1.76
1953254--1953278	2	12.5	2	100	0	50	52	0	0	48	1.00
1962574--1962612	20	1.9	20	84	5	51	17	5	15	61	1.51
1964729--1964760	17	1.9	17	93	6	57	65	0	0	34	0.93
1964825--1964875	20	2.7	18	80	17	50	41	3	3	50	1.39
1966741--1966844	33	3.2	33	97	0	190	32	15	13	38	1.86
1967412--1967639	120	1.9	121	87	3	334	46	16	8	28	1.77
1969202--1969230	15	1.9	15	100	0	58	55	0	3	41	1.17
1970673--1970711	18	2.2	18	100	0	78	15	20	25	38	1.92
1970933--1970969	3	13.0	3	83	11	51	62	0	0	37	0.96
1970933--1970959	14	1.9	14	100	0	54	59	0	0	40	0.98
1970933--1970969	17	2.2	17	95	0	65	62	0	0	37	0.96
1972807--1972903	38	2.6	38	81	15	112	43	12	4	40	1.61
1975120--1975144	2	12.5	2	100	0	50	0	48	0	52	1.00
1982997--1983105	42	2.6	42	80	5	116	28	9	15	46	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1983011--1983105	42	2.3	42	85	3	129	26	9	14	49	1.74
1983780--1983845	33	2.0	33	88	5	98	45	12	13	28	1.80
1985239--1985325	43	2.0	43	100	0	174	40	6	4	48	1.51
1986901--1986976	33	2.3	33	88	4	109	36	17	14	31	1.90
1988827--1988875	3	16.0	3	87	4	71	30	2	2	65	1.15
1989453--1989501	24	2.1	23	84	3	62	75	4	18	2	1.06
2002387--2002411	10	2.5	10	100	0	50	92	0	0	8	0.40
2002397--2002450	23	2.4	22	82	11	65	79	0	12	7	0.92
2003396--2003696	141	2.2	133	84	8	397	26	29	18	25	1.98
2003631--2003784	40	3.6	40	67	17	110	24	29	17	28	1.97
2003590--2003788	91	2.2	91	99	0	389	25	29	17	27	1.98
2003985--2004030	3	15.0	3	86	4	65	30	2	2	65	1.16
2004600--2004632	17	2.1	17	88	11	52	69	3	21	6	1.24
2004609--2004656	23	2.1	22	84	3	60	72	4	20	2	1.11
2008616--2008689	32	2.4	31	90	4	114	36	1	9	52	1.42
2008676--2008791	42	2.8	41	80	10	144	43	5	5	45	1.48
2009912--2009953	14	2.9	14	86	13	59	19	0	2	78	0.86
2009911--2009949	20	2.0	20	90	10	62	17	0	2	79	0.84
2009911--2010019	21	5.2	20	68	18	62	19	5	2	72	1.17
2011639--2011754	60	1.9	60	85	0	160	40	14	9	35	1.79
2016365--2016394	13	2.2	14	94	5	53	40	13	26	20	1.89
2022550--2022574	10	2.5	10	100	0	50	52	20	8	20	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2022869--2022895	2	13.5	2	100	0	54	48	0	0	51	1.00
2029598--2029637	21	2.0	20	85	5	53	27	15	20	37	1.92
2030440--2030492	20	2.7	20	96	0	97	28	30	22	18	1.98
2041290--2041352	21	3.0	21	80	0	90	26	20	22	30	1.98
2041356--2041391	5	6.8	5	96	3	54	19	61	19	0	1.35
2041389--2041424	5	7.4	5	96	3	65	36	22	41	0	1.54
2041911--2041943	6	5.7	6	96	3	59	0	18	51	30	1.46
2043419--2043471	21	2.4	23	81	15	67	60	11	5	22	1.52
2044404--2044469	27	2.3	28	84	10	89	28	12	12	46	1.77
2059317--2059368	27	1.9	27	81	14	63	32	1	5	59	1.32
2074797--2074898	23	4.7	22	77	15	113	23	29	26	20	1.99
2074819--2074900	41	2.0	42	87	2	121	21	29	25	23	1.99
2077385--2077422	12	2.9	13	84	7	51	36	10	7	44	1.68
2078780--2078807	12	2.3	12	100	0	56	17	14	10	57	1.65
2078837--2078881	16	2.7	17	80	13	58	13	0	26	60	1.34
2082875--2082925	20	2.4	21	87	12	70	29	23	21	25	1.99
2083219--2083258	20	2.0	20	85	0	53	52	2	7	37	1.43
2083268--2083332	33	2.0	33	96	0	121	46	3	16	33	1.63
2092507--2092555	18	2.6	19	87	12	75	36	22	6	34	1.79
2093453--2093477	2	12.5	2	100	0	50	48	0	0	52	1.00
2100558--2100603	2	23.0	2	100	0	92	50	0	0	50	1.00
2100602--2100630	7	4.1	7	100	0	58	44	0	0	55	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2102550--2102591	22	1.9	22	85	0	57	28	19	23	28	1.98
2103650--2103682	2	16.5	2	100	0	66	51	0	0	48	1.00
2108377--2108626	101	2.5	100	76	4	234	28	9	12	50	1.70
2108398--2108590	50	3.8	50	81	3	199	29	8	11	50	1.67
2108449--2108626	50	3.6	50	78	7	139	28	9	12	50	1.71
2108757--2108799	20	2.2	20	95	0	77	30	25	18	25	1.98
2109145--2109176	2	16.0	2	100	0	64	50	0	0	50	1.00
2126426--2126876	206	2.2	206	81	5	513	36	19	17	27	1.93
2127675--2127731	25	2.3	25	93	0	96	31	1	19	47	1.60
2129089--2129137	24	2.0	24	84	7	64	36	0	6	57	1.24
2130331--2130416	32	2.7	32	88	0	136	34	10	22	32	1.88
2138013--2138054	22	1.9	22	85	0	57	38	7	23	30	1.82
2144551--2144605	13	4.2	13	88	0	74	34	14	21	29	1.93
2150792--2150816	9	2.8	9	100	0	50	12	44	12	32	1.78
2151399--2151499	34	3.0	34	86	0	157	38	3	4	52	1.42
2152024--2152093	21	3.3	20	92	5	104	20	25	35	18	1.95
2153878--2153930	27	2.0	27	81	7	63	60	0	0	39	0.97
2153900--2153964	25	2.6	24	73	9	58	58	0	0	41	0.98
2154173--2154303	60	2.2	60	83	9	160	26	25	28	19	1.99
2160976--2161046	30	2.2	32	82	7	83	43	1	7	47	1.39
2169620--2169772	65	2.4	64	83	5	175	30	16	22	30	1.96
2171861--2171908	13	3.6	13	78	13	53	45	10	8	35	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2172377--2172440	23	3.0	21	70	17	67	31	17	18	32	1.94
2172377--2172471	44	2.2	44	88	3	138	28	17	21	32	1.96
2176768--2176810	18	2.2	18	84	12	50	6	27	4	60	1.43
2178861--2178918	28	2.1	28	93	0	98	60	3	1	34	1.24
2185599--2185645	14	3.4	14	87	0	67	34	14	23	27	1.94
2201423--2201545	64	1.9	65	84	1	167	29	17	23	29	1.97
2201553--2201620	19	3.6	19	90	5	104	25	16	35	23	1.95
2201444--2201586	64	2.2	64	85	6	182	29	16	23	30	1.97
2201481--2201671	84	2.3	84	77	9	201	27	17	25	29	1.98
2207806--2207838	15	2.2	15	94	0	57	27	48	15	9	1.74
2208437--2208481	23	2.0	23	86	8	65	28	2	13	55	1.50
2210773--2210807	18	1.9	18	100	0	70	31	5	28	34	1.81
2213763--2213906	65	2.2	65	91	3	229	29	17	14	38	1.89
2218217--2218249	2	16.5	2	100	0	66	48	0	0	51	1.00
2220629--2220653	2	12.5	2	100	0	50	0	0	48	52	1.00
2232808--2232839	12	2.7	12	100	0	64	28	21	25	25	1.99
2235521--2235545	13	1.9	13	100	0	50	88	0	12	0	0.53
2235521--2235554	18	1.9	17	88	5	50	85	2	11	0	0.71
2236767--2236808	17	2.5	17	77	11	50	28	11	0	59	1.33
2237205--2237249	21	2.1	21	83	0	54	22	8	24	44	1.81
2244876--2244998	31	4.0	31	94	0	201	22	17	21	38	1.93
2246389--2246437	22	2.2	22	92	0	80	40	10	24	24	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2248203--2248255	22	2.4	22	90	0	79	43	15	18	22	1.87
2248838--2248912	18	3.9	18	81	13	87	29	30	20	20	1.97
2252819--2252869	22	2.3	22	89	0	75	45	9	1	43	1.48
2252820--2253052	11	22.0	11	66	16	64	45	6	3	45	1.46
2252819--2252880	22	2.9	21	85	4	72	43	8	3	45	1.49
2252819--2253049	20	12.0	20	71	18	127	45	6	3	44	1.45
2252958--2252998	13	3.2	13	85	0	55	48	0	2	48	1.14
2255984--2256016	3	11.3	3	93	6	59	63	0	0	36	0.95
2257740--2257995	138	1.9	138	85	3	363	29	16	12	42	1.84
2258870--2258945	24	3.2	24	83	10	95	28	23	23	23	1.99

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   90   91