genome.fa.s4117.2.7.7.80.10.50.1000.8.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: VEPZ01004117.1 Hibiscus syriacus cultivar Beakdansim tig00009009_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2456583

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1080 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)
1976990--1977033	3	14.7	3	100	0	88	65	0	0	34	0.93
1978333--1978366	16	2.0	18	88	11	54	26	2	5	64	1.30
1978836--1979083	130	1.9	130	90	0	397	35	12	15	36	1.86
1979482--1979557	35	2.2	35	87	0	107	35	2	21	40	1.67
1979970--1980019	2	25.0	2	100	0	100	50	0	0	50	1.00
1982788--1982826	7	5.4	7	93	6	69	12	33	28	25	1.93
1982788--1982835	15	3.1	15	91	8	71	12	33	29	25	1.92
1986835--1986883	13	4.1	12	77	17	57	20	46	18	14	1.83
1986830--1986899	36	1.9	36	91	0	113	20	45	18	15	1.85
1986848--1986891	23	1.9	23	85	0	61	22	47	18	11	1.80
1989329--1989396	24	2.8	24	88	0	109	27	14	17	39	1.89
1993341--1993378	17	2.2	17	90	9	60	21	7	0	71	1.11
1998269--1998352	41	2.2	40	89	8	129	52	16	4	26	1.63
2001316--2001348	12	2.8	12	86	13	50	39	9	18	33	1.82
2003103--2003133	2	15.5	2	100	0	62	0	51	0	48	1.00
2004479--2004561	29	2.8	29	92	1	139	43	9	14	32	1.78
2009189--2009271	29	2.8	29	92	1	139	43	9	14	32	1.78
2013633--2013662	14	2.1	14	93	0	51	40	36	0	23	1.55
2018264--2018307	16	2.8	16	78	0	52	50	6	0	43	1.29
2023102--2023137	2	18.0	2	100	0	72	50	0	0	50	1.00
2023491--2023550	31	1.9	31	96	0	111	41	3	8	46	1.50
2023573--2023695	22	5.6	22	100	0	246	50	12	0	37	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2023682--2023721	12	3.6	12	77	16	50	52	0	2	45	1.14
2023727--2023757	10	3.1	10	95	0	53	38	6	22	32	1.80
2024040--2024068	15	1.9	15	100	0	58	68	13	17	0	1.20
2027616--2027658	22	2.0	22	86	9	61	53	2	2	41	1.26
2028628--2028693	34	1.9	34	100	0	132	24	15	27	33	1.95
2034436--2034463	3	9.3	3	100	0	56	32	0	35	32	1.58
2044734--2044939	109	1.9	109	91	0	340	35	17	16	30	1.93
2046412--2046569	21	7.8	20	70	7	77	37	24	17	19	1.93
2046537--2046730	20	9.6	20	76	8	76	35	25	19	19	1.95
2046537--2046730	40	4.8	39	82	3	199	35	25	19	19	1.95
2046537--2046729	60	3.2	60	83	0	251	35	25	19	19	1.95
2047111--2047181	33	2.2	33	92	0	115	11	22	18	47	1.80
2047302--2047356	14	3.6	14	73	21	56	41	23	25	9	1.83
2047302--2047372	33	2.2	33	94	0	124	43	25	22	8	1.81
2047368--2047465	19	5.7	19	70	22	81	10	24	22	42	1.84
2047390--2047479	14	5.7	14	74	23	81	8	25	23	42	1.83
2047373--2047487	33	3.5	33	95	0	212	9	24	20	45	1.81
2049186--2049564	92	4.1	93	98	0	735	22	12	18	46	1.83
2049186--2049566	185	2.1	185	97	1	737	22	12	18	46	1.82
2049608--2049736	19	7.3	19	75	17	125	45	28	17	8	1.77
2049644--2049736	33	2.8	32	91	4	150	46	27	18	7	1.76
2049608--2049736	52	2.5	52	74	14	140	45	28	17	8	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2049732--2049866	19	7.6	19	75	16	128	11	19	23	45	1.82
2049754--2049810	14	3.7	14	77	20	60	10	21	22	45	1.82
2049737--2049829	33	2.8	33	95	0	168	10	20	21	47	1.80
2051763--2051798	14	2.6	14	95	0	63	33	0	22	44	1.53
2051905--2051987	19	4.6	19	80	17	113	43	18	24	14	1.87
2052016--2052289	19	15.4	19	81	15	354	13	21	17	46	1.83
2051994--2052261	52	5.0	52	93	4	455	14	22	16	46	1.83
2051994--2052261	109	2.5	105	91	6	459	14	22	16	46	1.83
2054571--2054595	12	2.1	12	100	0	50	0	28	0	72	0.86
2054770--2054816	24	2.0	24	87	8	69	38	21	14	25	1.92
2055493--2055882	20	19.5	20	84	5	457	20	18	25	35	1.95
2064320--2064374	27	2.1	26	83	10	67	58	3	0	38	1.16
2064661--2064822	37	4.4	37	84	0	191	22	18	17	41	1.90
2066047--2066094	15	3.0	15	79	11	51	8	6	0	85	0.74
2066055--2066091	17	2.2	17	90	0	56	5	5	0	89	0.60
2066047--2066094	8	5.9	8	80	11	53	8	6	0	85	0.74
2072938--2073007	12	5.8	12	70	12	54	52	17	12	17	1.74
2072938--2073007	24	2.9	24	78	0	77	52	17	12	17	1.74
2075512--2075575	13	4.9	13	77	7	67	23	18	42	15	1.89
2075512--2075576	26	2.5	27	85	7	89	23	20	41	15	1.89
2087282--2087334	27	2.0	26	85	7	72	62	0	5	32	1.19
2088121--2088204	41	2.0	41	95	0	150	42	14	4	38	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2088868--2088992	62	2.0	62	88	0	187	34	11	16	38	1.84
2091759--2091784	13	2.0	13	100	0	52	53	7	15	23	1.67
2095815--2095871	29	2.0	29	96	0	105	47	14	12	26	1.79
2098700--2098756	29	2.0	29	100	0	114	45	14	14	26	1.82
2100084--2100109	3	8.7	3	100	0	52	65	0	0	34	0.93
2103627--2103652	13	2.0	13	100	0	52	53	7	15	23	1.67
2106377--2106421	24	1.9	23	82	13	56	53	13	0	33	1.40
2115288--2115322	18	1.9	18	88	11	54	62	22	0	14	1.31
2120062--2120114	20	2.5	22	82	14	60	39	1	3	54	1.29
2125823--2125860	17	2.2	18	95	4	69	81	5	5	7	0.98
2125823--2125867	17	2.6	17	89	3	54	80	8	4	6	1.03
2126479--2126613	59	2.3	59	83	3	148	37	14	14	33	1.87
2126493--2126613	58	2.1	59	85	4	165	38	14	12	34	1.84
2128545--2128586	15	2.9	14	93	6	75	35	2	19	42	1.64
2129281--2129336	23	2.5	23	91	2	87	51	14	19	14	1.75
2135945--2136072	63	2.0	63	100	0	256	31	14	12	42	1.82
2136167--2136259	13	7.3	13	77	18	65	16	46	21	16	1.84
2136165--2136226	18	3.4	18	95	0	115	16	51	20	11	1.74
2137398--2137565	84	2.0	84	100	0	336	32	14	20	33	1.92
2138850--2138939	23	3.8	24	85	1	103	27	14	18	38	1.90
2138859--2138949	24	3.9	24	86	1	96	28	13	19	38	1.89
2138979--2139051	33	2.1	35	87	5	105	9	28	28	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2141003--2141095	13	7.3	13	77	18	65	16	46	21	16	1.84
2141001--2141062	18	3.4	18	95	0	115	16	51	20	11	1.74
2143571--2143660	23	3.8	24	85	1	103	27	14	18	38	1.90
2143580--2143670	24	3.9	24	86	1	96	28	13	19	38	1.89
2143700--2143774	35	2.1	35	92	0	123	9	28	29	33	1.88
2149753--2149794	20	2.2	18	87	8	57	61	0	38	0	0.96
2161248--2161308	29	2.1	29	100	0	122	52	13	22	11	1.72
2163946--2163980	17	2.1	17	100	0	70	17	45	22	14	1.84
2163974--2164004	7	4.4	7	91	0	53	16	29	25	29	1.96
2167978--2168440	176	2.6	176	93	0	782	25	26	11	36	1.89
2181765--2181796	16	2.0	16	100	0	64	37	25	12	25	1.91
2190567--2190666	24	4.2	24	74	5	94	47	17	14	22	1.82
2190560--2190668	48	2.3	48	77	0	119	48	16	13	21	1.80
2191790--2191824	17	2.1	17	88	0	52	28	17	0	54	1.43
2193080--2193134	10	6.6	9	87	12	50	23	23	34	18	1.96
2193101--2193131	7	4.3	7	92	8	53	25	25	35	12	1.92
2193081--2193147	8	8.5	8	79	18	63	22	23	37	16	1.94
2193121--2193196	13	5.5	13	79	14	80	14	22	44	18	1.86
2193115--2193170	18	2.9	18	89	7	76	14	23	44	17	1.85
2193121--2193182	31	2.0	31	93	0	106	12	22	45	19	1.84
2195300--2195399	24	4.2	24	74	5	94	47	17	14	22	1.82
2195293--2195401	48	2.3	48	77	0	119	48	16	13	21	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2196500--2196535	18	2.0	18	88	0	54	30	16	0	52	1.44
2197786--2197840	10	6.6	9	87	12	50	23	23	34	18	1.96
2197807--2197837	7	4.3	7	92	8	53	25	25	35	12	1.92
2197787--2197853	8	8.5	8	79	18	63	22	23	37	16	1.94
2197827--2197902	13	5.5	13	79	14	80	14	22	44	18	1.86
2197821--2197876	18	2.9	18	89	7	76	14	23	44	17	1.85
2197827--2197888	31	2.0	31	93	0	106	12	22	45	19	1.84
2201281--2201382	31	3.2	31	68	20	82	19	15	24	40	1.91
2201274--2201403	66	2.0	66	89	0	197	19	19	23	37	1.94
2202153--2202416	131	2.0	134	93	5	462	40	6	17	36	1.74

Tables:   1   2   3   4   5   6   7   8   9