genome.fa.s9587.2.7.7.80.10.50.1000.9.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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   

This is table  9  of  29  ( 3457 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)
1933582--1933607	12	2.2	12	100	0	52	61	15	0	23	1.33
1934240--1934504	131	2.0	131	100	0	530	20	18	27	33	1.96
1938925--1938956	15	2.1	15	94	0	55	46	6	9	37	1.61
1945413--1945463	18	2.8	17	77	11	57	62	3	1	31	1.24
1945474--1945503	16	1.9	15	93	6	51	73	3	0	23	0.98
1947500--1947560	18	3.4	18	71	11	54	65	4	0	29	1.13
1948034--1948066	16	2.1	16	88	11	50	12	0	6	81	0.85
1949585--1949613	14	2.1	14	93	6	51	58	0	0	41	0.98
1951439--1951494	18	3.1	18	78	14	62	1	28	21	48	1.60
1953060--1953119	23	2.7	22	90	7	95	18	28	31	21	1.97
1953069--1953131	23	2.7	23	92	0	99	19	25	33	22	1.97
1956886--1956925	21	1.9	21	85	10	55	35	10	2	52	1.48
1960934--1960963	12	2.5	12	100	0	60	40	10	6	43	1.64
1966328--1966362	18	1.9	18	94	0	61	48	8	5	37	1.58
1968386--1968510	64	1.9	65	87	4	182	28	20	22	28	1.99
1968387--1968524	64	2.2	64	83	7	165	29	20	21	28	1.98
1969270--1969314	18	2.5	18	92	0	72	20	11	2	66	1.33
1969840--1969865	12	2.2	12	100	0	52	61	15	0	23	1.33
1971357--1971407	18	2.9	18	80	5	52	49	0	5	45	1.26
1980896--1980949	5	10.8	5	93	0	72	5	40	37	16	1.72
1980951--1981273	6	53.8	6	95	0	484	11	16	50	21	1.76
1981428--1981482	22	2.5	22	75	0	56	29	9	23	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1987010--1987063	5	10.8	5	89	0	54	7	38	37	16	1.77
1987015--1987063	15	3.3	15	79	0	62	8	38	38	14	1.76
1987061--1987127	6	11.2	6	96	0	107	4	16	49	29	1.65
1987401--1987455	22	2.5	22	75	0	56	29	9	23	38	1.85
1992995--1993048	5	10.8	5	95	0	72	7	40	38	12	1.72
1993046--1993100	6	9.2	6	95	0	83	5	16	49	29	1.68
1993374--1993428	22	2.5	22	75	0	56	29	9	23	38	1.85
1998956--1999004	5	9.8	5	93	0	71	2	40	34	22	1.66
1999002--1999062	6	10.2	6	92	0	86	4	14	49	31	1.65
1999336--1999390	22	2.5	22	75	0	56	29	9	23	38	1.85
2010136--2010208	27	2.7	27	70	16	78	35	5	17	41	1.73
2012567--2012603	11	3.2	12	88	7	51	75	5	0	18	0.99
2028982--2029030	24	2.0	24	100	0	98	46	12	24	16	1.81
2031082--2031182	35	2.9	35	87	0	130	43	19	0	35	1.58
2038447--2038521	35	2.1	35	85	4	98	45	16	1	37	1.55
2038517--2038626	35	3.1	35	78	2	96	38	1	18	41	1.61
2041076--2041145	24	2.9	24	80	2	77	52	12	18	15	1.74
2041566--2041627	20	3.0	21	68	17	58	27	1	6	64	1.27
2041548--2041626	40	2.0	40	92	0	131	29	2	5	63	1.29
2041548--2041625	19	3.9	18	75	17	66	29	2	3	64	1.25
2045029--2045095	14	4.7	14	72	9	55	49	26	0	23	1.51
2045027--2045095	28	2.4	27	83	7	75	47	28	0	23	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2046402--2046496	40	2.3	40	82	8	111	58	1	2	37	1.17
2046999--2047031	10	3.4	10	87	4	50	6	39	0	54	1.25
2047769--2047837	3	22.7	3	76	8	68	57	1	1	39	1.16
2047782--2047838	19	2.9	19	78	16	71	56	0	1	42	1.10
2047781--2047839	22	2.6	23	81	10	77	55	0	1	42	1.09
2047757--2047818	31	2.0	31	84	6	81	54	1	1	41	1.19
2047769--2047837	28	2.5	28	80	2	86	57	1	1	39	1.16
2048178--2048853	113	6.0	113	91	2	966	28	17	14	39	1.89
2050402--2050426	13	1.9	13	100	0	50	0	16	0	84	0.63
2057728--2057759	15	2.1	15	94	0	55	53	6	15	25	1.65
2061857--2061887	2	15.5	2	93	0	53	48	0	0	51	1.00
2063174--2063222	2	24.5	2	100	0	98	48	0	0	51	1.00
2063224--2063286	3	20.7	3	74	9	56	57	0	1	41	1.08
2063187--2063288	23	4.2	23	76	19	84	53	0	0	45	1.06
2072970--2073035	22	3.0	22	88	0	96	24	37	15	22	1.92
2073402--2073537	20	7.2	20	79	9	115	16	16	24	41	1.89
2073368--2073521	73	2.1	73	93	0	263	16	17	23	42	1.89
2073382--2073501	34	3.4	34	72	15	116	17	19	23	40	1.92
2073431--2073564	20	7.1	20	80	10	93	14	15	22	47	1.81
2073402--2073561	40	4.2	40	75	11	145	16	16	23	43	1.87
2073528--2073572	20	2.2	20	84	0	54	15	11	17	55	1.68
2075958--2075993	14	2.6	14	90	0	54	30	0	22	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2076099--2076193	33	2.8	34	85	3	120	45	18	21	14	1.85
2076244--2076316	20	3.7	20	88	0	110	19	17	24	38	1.93
2078737--2078789	24	2.2	24	82	0	79	33	18	20	26	1.96
2079625--2079711	20	4.3	20	95	0	147	22	19	27	29	1.98
2079698--2079824	20	6.3	20	82	7	159	22	18	19	39	1.93
2079685--2079807	40	3.1	40	82	9	160	21	18	20	39	1.93
2080230--2080282	19	2.7	20	85	8	72	54	3	1	39	1.29
2082862--2082895	17	1.9	18	88	5	52	20	17	2	58	1.51
2099262--2099340	26	3.2	26	74	17	87	49	10	15	25	1.75
2102578--2102654	31	2.5	31	76	2	82	28	29	25	15	1.96
2122045--2122161	59	2.0	60	84	3	155	23	27	19	29	1.98
2132841--2132923	30	2.8	30	88	0	121	26	3	26	43	1.71
2138167--2138255	44	2.0	44	100	0	178	40	20	12	26	1.88
2141487--2141519	2	16.5	2	100	0	66	48	0	0	51	1.00
2141748--2141807	3	19.7	3	81	10	68	71	0	1	26	0.95
2141746--2141807	26	2.6	24	85	12	83	72	0	1	25	0.94
2141746--2141812	29	2.4	28	85	9	93	71	0	2	25	1.00
2145746--2145835	3	29.7	3	86	2	54	32	10	3	54	1.50
2147828--2148192	131	2.8	131	83	4	459	31	10	17	39	1.85
2156450--2156946	134	3.7	133	80	5	556	33	20	14	32	1.92
2157109--2157153	3	15.0	3	100	0	90	33	0	0	66	0.92
2159141--2159500	131	2.7	130	83	5	431	35	10	15	38	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2162676--2162714	20	2.0	20	89	0	60	33	10	23	33	1.88
2171845--2171876	3	10.7	3	100	0	64	68	0	31	0	0.90
2178559--2178595	2	18.5	2	100	0	74	51	0	0	48	1.00
2181195--2181280	30	2.9	29	81	5	100	30	12	8	48	1.70
2182061--2182207	39	3.8	39	74	5	138	33	25	23	18	1.97
2182217--2182302	44	2.0	44	88	0	127	31	22	20	25	1.98
2188702--2188774	38	1.9	38	82	0	92	53	17	9	19	1.71
2189106--2189222	39	3.0	39	78	5	137	33	22	25	18	1.97
2189231--2189361	44	3.0	44	90	1	192	29	24	24	21	1.99
2202385--2202461	15	4.4	19	70	23	55	27	2	3	66	1.22
2210013--2210051	17	2.3	17	86	0	51	25	15	43	15	1.86
2211672--2211706	12	2.9	12	100	0	70	34	14	17	34	1.90
2215094--2215143	20	2.5	20	93	0	91	40	12	24	24	1.88
2215128--2215211	34	2.5	34	98	1	161	36	16	23	22	1.94
2215699--2215812	49	2.3	49	92	0	183	37	16	20	25	1.93
2220689--2220715	9	3.0	9	100	0	54	33	33	0	33	1.58
2224615--2224717	44	2.3	45	88	1	145	40	4	19	34	1.73
2230651--2230680	13	2.3	13	94	0	51	63	0	0	36	0.95
2232873--2232945	36	2.0	36	94	0	128	27	21	16	34	1.95
2232787--2233034	120	2.1	121	81	6	281	23	20	21	34	1.97
2232912--2233596	84	8.3	80	77	6	584	25	19	23	31	1.98
2232909--2233476	245	2.3	247	86	1	782	25	19	23	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2232933--2233593	165	4.0	164	81	6	665	25	19	24	30	1.98
2234782--2234979	95	2.1	94	85	5	274	33	17	15	33	1.91
2238678--2238720	23	1.9	23	86	13	63	74	2	4	18	1.10
2240408--2240456	24	2.0	24	92	0	80	34	10	10	44	1.72
2240985--2241087	45	2.3	45	89	3	154	43	4	18	33	1.71
2243713--2243753	14	3.0	14	89	7	66	90	0	9	0	0.46
2243708--2243758	12	4.5	12	85	9	63	82	0	15	1	0.76
2243713--2243753	13	3.2	13	89	3	66	90	0	9	0	0.46
2247702--2247805	45	2.3	45	91	0	163	40	5	20	33	1.76
2251447--2251487	19	2.2	19	86	0	55	51	4	2	41	1.36

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