genome.fa.s8387.2.7.7.80.10.50.1000.10.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: VEPZ01008387.1 Hibiscus syriacus cultivar Beakdansim tig00111151_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2491990

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  10  of  12  ( 1390 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)
1936065--1936129	11	5.6	11	72	22	53	24	23	26	26	2.00
1936064--1936133	23	3.0	23	82	2	95	24	24	25	25	2.00
1936412--1936505	21	4.5	21	78	5	100	45	29	0	24	1.53
1936454--1936526	35	2.1	35	85	10	96	43	27	0	28	1.55
1936447--1936516	21	3.3	20	72	16	61	42	30	0	27	1.56
1939835--1939913	33	2.4	33	93	4	133	11	10	36	41	1.75
1940126--1940217	38	2.4	38	94	1	168	9	11	41	36	1.75
1940793--1940840	16	2.9	16	78	6	51	35	18	0	45	1.50
1945327--1945517	104	1.8	104	85	0	265	38	18	15	27	1.91
1946608--1946754	43	3.4	43	92	0	224	27	23	19	29	1.98
1948295--1948328	18	1.9	18	94	5	61	17	14	0	67	1.23
1948997--1949342	182	1.9	182	93	0	593	32	12	15	39	1.85
1951243--1951627	39	9.9	39	83	0	410	25	19	34	20	1.96
1951243--1951627	78	4.9	78	83	0	466	25	19	34	20	1.96
1951243--1951627	117	3.3	117	84	0	484	25	19	34	20	1.96
1951886--1951950	19	3.2	19	65	23	51	47	3	4	44	1.39
1951867--1951969	42	2.4	42	93	4	172	45	1	7	44	1.43
1951906--1951975	20	3.2	22	64	24	58	42	1	8	47	1.43
1962756--1962825	21	3.2	21	86	7	104	12	12	11	62	1.54
1962762--1962825	23	2.9	23	90	4	105	10	14	12	62	1.55
1963846--1963879	2	17.0	2	100	0	68	50	0	0	50	1.00
1964307--1964412	41	2.6	41	83	1	115	34	20	20	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1964279--1964415	61	2.2	60	82	3	166	31	21	19	27	1.98
1964321--1964412	20	4.6	20	83	2	130	36	20	21	20	1.95
1964983--1965031	20	2.5	20	82	0	62	36	24	18	20	1.94
1965073--1965142	20	3.5	20	88	0	77	15	15	25	42	1.87
1965090--1965144	20	2.8	20	91	0	83	10	16	23	49	1.77
1965109--1965152	20	2.2	20	87	0	61	13	13	20	52	1.74
1967011--1967148	20	7.2	20	83	9	171	39	19	20	21	1.93
1967198--1967244	20	2.3	20	85	0	58	21	17	23	38	1.93
1967285--1967331	20	2.3	20	88	0	67	21	14	23	40	1.90
1967813--1967917	21	5.0	21	74	3	95	20	37	19	22	1.95
1967810--1967917	42	2.6	43	75	11	116	20	37	19	23	1.95
1969270--1969305	14	2.6	14	90	0	54	30	0	22	47	1.52
1969407--1969535	33	3.8	33	93	2	204	41	20	24	13	1.88
1969544--1969617	19	3.8	19	94	3	130	17	20	14	47	1.83
1969528--1969605	39	2.0	39	84	0	102	20	21	15	42	1.89
1969627--1969710	20	4.2	20	80	3	80	22	22	19	35	1.96
1969624--1969700	40	1.9	41	86	2	111	24	22	15	37	1.93
1973469--1973502	17	2.0	17	94	0	59	55	26	0	17	1.42
1975399--1975438	21	1.9	21	89	0	62	10	25	40	25	1.86
1975419--1975481	20	2.9	21	79	9	65	15	25	34	23	1.95
1979289--1979328	21	1.9	21	85	10	55	35	10	2	52	1.48
1981712--1981763	24	2.2	24	82	0	59	36	21	19	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1982619--1982744	20	6.4	20	97	1	229	22	19	20	37	1.95
1982786--1982831	21	2.2	21	88	0	65	36	17	28	17	1.92
1983150--1983357	104	2.0	102	93	3	355	32	8	6	52	1.57
1983154--1983363	101	2.1	99	91	6	341	30	8	6	54	1.55
1984471--1984542	35	2.1	36	79	12	87	43	1	2	52	1.24
1984694--1984735	20	2.2	19	91	8	68	23	21	9	45	1.81
1997627--1997680	26	2.0	27	96	3	101	62	3	18	14	1.46
2003038--2003451	203	2.0	203	89	3	636	40	8	13	37	1.75
2003651--2003698	25	1.9	25	100	0	96	54	2	6	37	1.38
2003650--2003704	25	2.2	25	90	0	92	60	1	5	32	1.30
2003712--2003801	45	2.0	45	86	0	126	25	10	25	38	1.87
2003985--2004098	38	3.0	38	89	0	165	28	11	21	38	1.88
2024930--2024959	12	2.6	12	94	5	53	26	0	0	73	0.84
2024929--2024968	17	2.5	16	88	8	55	25	0	0	75	0.81
2025278--2025348	23	3.1	23	95	0	133	42	12	32	12	1.81
2026343--2026384	16	2.9	14	86	10	50	45	0	0	54	0.99
2026359--2026391	2	16.5	2	93	0	57	48	0	3	48	1.17
2027553--2027586	10	3.4	10	87	0	50	20	5	0	73	1.04
2036991--2037038	1	48.0	1	91	0	78	95	4	0	0	0.25
2036991--2037038	20	2.4	20	100	0	96	95	4	0	0	0.25
2037811--2038581	105	7.4	105	92	2	1223	32	24	18	23	1.97
2039113--2039142	12	2.6	12	94	5	53	26	0	0	73	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2039112--2039151	17	2.5	16	88	8	55	25	0	0	75	0.81
2039452--2039528	23	3.3	23	94	0	136	44	12	31	11	1.79
2040540--2040570	2	15.5	2	93	0	53	48	0	3	48	1.17
2043291--2043344	21	2.6	21	96	0	99	25	16	27	29	1.97
2043333--2043546	20	10.6	20	78	10	197	13	23	22	40	1.89
2043416--2043506	41	2.2	41	96	0	164	19	20	21	37	1.95
2043415--2043487	22	3.5	21	69	12	69	19	20	24	35	1.95
2043290--2043570	41	6.9	41	78	8	161	17	20	23	38	1.93
2056326--2056381	29	1.9	29	82	7	69	51	8	5	33	1.56
2059025--2059165	72	2.0	72	89	0	219	36	16	12	34	1.87
2061608--2061700	21	4.5	21	78	4	100	39	18	24	17	1.91
2061608--2061700	41	2.3	41	100	0	186	39	18	24	17	1.91
2061627--2061761	41	3.3	41	82	6	132	38	20	21	19	1.94
2061689--2061803	20	5.7	20	81	2	104	32	24	18	25	1.97
2061686--2061823	41	3.4	41	77	2	134	34	23	17	24	1.96
2061991--2062034	22	2.0	22	95	0	79	20	45	15	18	1.85
2062316--2062355	20	2.0	20	100	0	80	10	15	20	55	1.68
2063669--2063713	18	2.5	18	81	0	63	26	42	15	15	1.87
2064197--2064236	20	2.0	20	90	0	62	40	25	20	15	1.90
2064250--2064307	14	3.9	14	75	16	62	50	24	15	10	1.75
2064238--2064324	32	2.7	33	90	3	149	49	21	17	11	1.78
2064355--2064421	19	3.5	19	83	4	89	14	23	23	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2064367--2064421	20	2.8	19	89	5	83	16	25	23	34	1.95
2068881--2068979	33	3.0	33	89	1	144	39	26	23	11	1.88
2068856--2069040	19	10.1	19	76	14	165	44	22	21	11	1.85
2068951--2069040	39	2.3	38	96	1	162	47	22	18	11	1.80
2069030--2069071	19	2.2	19	86	0	57	11	19	19	50	1.78
2069036--2069102	19	3.5	19	81	2	80	10	16	22	50	1.75
2069617--2069669	20	2.7	20	93	0	88	26	20	28	24	1.99
2069678--2069731	20	2.7	20	94	0	90	25	16	24	33	1.96
2079616--2079656	2	21.0	2	95	5	75	51	0	0	48	1.00
2084291--2084329	13	3.1	12	85	10	51	25	0	0	74	0.82
2084269--2084333	14	4.5	14	75	19	62	29	0	1	69	0.98
2085868--2085914	16	2.9	16	76	17	53	38	0	2	59	1.09
2086429--2086511	30	2.8	30	92	1	141	55	18	8	18	1.66
2095902--2095952	22	2.3	22	93	0	84	21	41	13	23	1.89
2096219--2096257	20	2.0	20	84	0	51	15	15	20	48	1.81
2097954--2098003	21	2.4	21	86	0	73	20	16	30	34	1.94
2098403--2098520	42	2.8	42	78	7	123	22	37	19	20	1.94
2099924--2099977	14	3.9	14	87	0	81	31	0	18	50	1.48
2099874--2100026	80	2.0	74	86	7	207	31	0	17	50	1.46
2100308--2100394	39	2.2	39	91	0	138	19	14	17	48	1.81
2100705--2100741	18	2.1	18	89	0	56	51	10	5	32	1.60
2101115--2101166	25	2.1	25	92	0	86	44	21	5	28	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2101232--2101312	34	2.4	34	95	0	153	39	22	18	19	1.92
2101300--2101344	20	2.2	20	88	0	63	42	20	15	22	1.89
2101357--2101419	20	3.2	20	76	13	76	17	19	25	38	1.93
2104008--2104061	24	2.2	24	90	0	81	40	20	16	22	1.91
2104978--2105117	20	7.0	20	63	18	58	29	15	22	33	1.94
2106973--2107028	9	6.6	9	76	12	55	8	50	3	37	1.51
2106979--2107031	15	3.5	15	81	0	61	9	49	3	37	1.53
2109540--2109584	23	2.0	23	86	0	63	26	28	24	20	1.99
2109565--2109866	149	2.0	149	96	0	559	34	19	17	28	1.94
2110063--2110104	19	2.2	20	82	4	50	33	23	4	38	1.76

Tables:   1   2   3   4   5   6   7   8   9   10   11   12