genome.fa.s1174.2.7.7.80.10.50.1000.10.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: VEPZ01001174.1 Hibiscus syriacus cultivar Beakdansim tig00002338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2182627

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

This is table  10  of  11  ( 1247 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)
1896608--1896666	30	2.0	29	90	3	91	54	0	1	44	1.10
1897787--1897831	21	2.2	21	92	4	74	53	6	20	20	1.67
1899168--1899226	28	2.1	28	84	6	75	22	15	23	38	1.92
1899327--1899556	56	4.2	54	72	5	165	30	18	23	28	1.97
1899369--1899556	56	3.4	56	74	2	191	29	17	24	29	1.97
1899312--1899556	110	2.2	110	85	1	321	30	17	22	28	1.97
1899537--1899609	28	2.8	28	64	21	68	34	17	20	27	1.95
1906501--1906540	15	2.7	15	84	3	55	42	0	0	57	0.98
1907421--1907957	194	2.8	194	98	0	1044	39	12	19	27	1.88
1909835--1909861	2	13.5	2	100	0	54	51	0	48	0	1.00
1915553--1915618	31	2.1	31	97	0	123	12	18	27	42	1.85
1923155--1924008	55	15.7	55	86	2	1170	28	28	14	27	1.95
1923155--1924008	108	7.9	109	89	2	1139	28	28	14	27	1.95
1923155--1924009	271	3.1	271	91	1	1320	28	28	14	27	1.95
1925008--1925053	19	2.6	19	83	10	62	10	6	0	82	0.83
1928559--1928586	2	14.0	2	100	0	56	50	0	0	50	1.00
1934951--1934981	16	1.9	16	100	0	62	32	32	9	25	1.88
1945110--1945487	20	16.5	21	70	22	173	44	10	24	20	1.83
1945095--1945214	47	2.6	46	93	2	213	43	10	25	20	1.84
1945153--1945242	12	7.5	12	66	26	57	43	11	25	20	1.84
1945096--1945526	26	18.5	25	71	22	316	45	9	23	21	1.82
1945201--1945513	46	6.8	46	92	1	522	44	10	24	21	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1945201--1945513	137	2.3	137	92	3	524	44	10	24	21	1.83
1945201--1945513	91	3.4	92	92	2	515	44	10	24	21	1.83
1948129--1948183	28	2.0	28	82	7	67	65	5	1	27	1.25
1948813--1948876	21	2.9	21	86	6	74	26	0	3	70	1.02
1948812--1948877	29	2.3	29	84	7	82	25	0	3	71	1.01
1948945--1949001	31	1.9	29	82	10	71	42	17	8	31	1.80
1952387--1952412	2	13.0	2	100	0	52	50	0	0	50	1.00
1954500--1954548	19	2.5	19	86	3	62	30	18	14	36	1.90
1955201--1955259	3	20.0	3	77	16	61	28	0	1	69	0.98
1955187--1955255	11	6.1	11	76	14	52	23	0	1	75	0.89
1955221--1955259	14	3.0	14	85	14	57	30	0	0	69	0.89
1955201--1955259	28	2.1	28	84	6	75	28	0	1	69	0.98
1955190--1955259	22	3.0	24	77	10	74	25	0	1	72	0.92
1956259--1956304	21	2.2	21	88	0	65	30	28	26	15	1.96
1957126--1957311	31	6.0	31	93	1	304	20	19	22	37	1.95
1960578--1960623	21	2.2	21	88	0	65	30	28	26	15	1.96
1961450--1961636	31	6.0	31	94	1	313	20	19	22	37	1.94
1963300--1963336	2	18.5	2	94	0	65	48	0	2	48	1.15
1963781--1963851	31	2.2	33	82	9	85	36	0	1	61	1.05
1963946--1964009	24	2.7	24	92	4	103	42	3	0	54	1.16
1965037--1965068	15	2.0	17	88	11	50	43	12	18	25	1.85
1965407--1965475	36	1.9	36	87	0	102	42	21	11	24	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1966029--1966069	7	6.0	7	81	13	50	14	14	12	58	1.63
1973483--1973627	54	2.7	55	81	3	168	39	15	20	24	1.91
1974453--1974549	40	2.5	40	91	1	151	47	10	21	20	1.80
1974451--1974549	39	2.5	39	90	1	153	47	10	22	20	1.79
1974492--1974909	112	3.6	112	86	4	451	38	14	20	26	1.91
1974697--1975029	123	2.7	122	84	5	422	39	15	20	24	1.92
1975386--1975470	3	29.0	3	77	11	70	25	0	2	71	0.98
1975398--1975469	25	2.8	25	85	8	92	26	0	2	70	1.00
1977245--1977297	24	2.3	24	87	6	74	43	1	0	54	1.11
1977254--1977317	24	2.7	24	92	4	103	42	3	0	54	1.16
1978152--1978182	10	3.1	10	95	0	53	58	9	12	19	1.62
1987967--1988053	18	4.8	18	78	0	102	21	20	27	29	1.98
1987966--1988053	36	2.4	36	82	0	113	22	20	27	29	1.99
1992478--1992508	15	2.1	14	94	5	53	45	0	19	35	1.51
1992455--1992510	22	2.5	23	80	13	71	41	1	21	35	1.64
1992815--1992873	18	3.3	18	92	0	100	23	20	30	25	1.98
1996191--1996298	42	2.6	42	89	2	155	25	18	21	35	1.96
1996384--1996864	73	6.6	73	90	3	720	30	17	12	39	1.86
1996383--1996864	218	2.2	219	89	2	747	30	17	12	39	1.86
1996885--1997106	123	1.8	120	87	2	327	39	14	18	27	1.90
1996871--1997122	123	2.1	120	84	2	324	40	15	16	27	1.89
1999429--1999474	22	2.0	22	83	12	56	52	13	2	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2000395--2000435	20	2.0	20	85	4	55	41	17	9	31	1.82
2001392--2001481	19	4.5	19	68	8	56	33	2	4	60	1.29
2001470--2001545	17	4.7	15	77	16	71	38	2	2	56	1.27
2003699--2003739	20	2.0	20	100	0	82	39	9	21	29	1.86
2014313--2014350	2	19.0	2	100	0	76	50	0	0	50	1.00
2016087--2016255	57	3.0	57	96	0	311	31	22	23	22	1.98
2027217--2027398	86	2.1	87	92	1	312	41	24	19	15	1.90
2047914--2048059	8	17.8	8	74	20	99	73	0	13	12	1.09
2047958--2048045	7	12.1	7	73	21	67	73	0	14	11	1.09
2047965--2048063	41	2.3	43	84	11	123	74	0	15	10	1.06
2047916--2048063	73	2.0	72	85	6	201	74	0	13	12	1.08
2047957--2048063	7	14.4	7	69	22	51	74	0	14	10	1.06
2049350--2049421	37	1.9	38	94	2	128	38	19	22	19	1.93
2049432--2049988	55	10.1	54	84	4	530	28	16	23	31	1.96
2051435--2051493	28	2.1	27	90	3	91	47	3	37	11	1.57
2059900--2059930	7	4.4	7	100	0	62	58	0	25	16	1.38
2059927--2059951	7	3.6	7	100	0	50	48	0	24	28	1.52
2059906--2059952	14	3.4	14	85	14	62	53	0	25	21	1.46
2062352--2062439	29	3.1	29	60	21	69	48	5	7	37	1.56
2062360--2062532	55	3.2	55	85	3	226	52	4	8	35	1.50
2062438--2062525	28	3.3	28	68	18	78	53	2	9	35	1.45
2062379--2062532	52	2.9	52	84	2	164	53	3	7	35	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2064274--2064300	13	2.1	13	100	0	54	48	0	0	51	1.00
2075687--2075716	2	15.0	2	92	0	51	46	0	0	53	1.00
2077567--2077636	31	2.3	31	84	0	86	34	7	20	38	1.80
2077449--2077604	45	3.5	45	75	6	147	30	8	21	39	1.84
2077764--2077818	22	2.4	23	78	3	58	16	27	23	32	1.96
2077763--2077931	23	7.7	23	69	9	75	16	22	24	36	1.94
2077857--2077891	17	2.1	17	88	0	52	14	17	34	34	1.90
2077835--2077915	40	2.1	39	97	2	153	16	19	28	35	1.93
2078056--2078134	6	13.0	6	74	2	68	44	1	21	32	1.60
2081228--2081265	18	2.1	19	85	5	51	42	15	15	26	1.87
2081840--2081909	23	3.0	23	80	0	59	22	20	21	35	1.96
2081858--2081936	23	3.4	23	75	6	79	24	16	21	37	1.93
2082113--2082171	24	2.5	24	91	0	91	38	0	23	37	1.55
2082072--2082171	6	17.0	6	78	8	80	45	1	20	34	1.58
2087914--2087959	20	2.3	20	96	0	83	45	8	21	23	1.80
2087932--2088171	47	5.1	47	88	2	347	44	9	21	25	1.81
2087979--2088105	20	5.7	20	67	23	65	43	7	24	24	1.80
2094256--2094309	20	2.7	20	82	8	74	37	16	29	16	1.91
2094332--2094403	19	3.5	20	80	10	83	31	13	26	27	1.94
2094333--2094403	22	3.5	21	79	9	76	30	14	26	28	1.95
2094798--2095012	47	4.6	47	89	2	317	44	7	22	25	1.78
2094858--2094984	20	5.7	20	66	23	74	42	7	25	24	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2096717--2096741	7	3.6	7	100	0	50	0	0	28	72	0.86
2099538--2099576	10	4.0	10	86	3	53	84	0	15	0	0.62
2099538--2099576	19	2.0	20	90	5	62	84	0	15	0	0.62
2099538--2099576	9	4.1	9	90	9	60	84	0	15	0	0.62
2100812--2101312	134	3.8	134	82	3	618	32	22	16	28	1.95
2102368--2102403	18	2.0	18	88	0	54	38	0	55	5	1.23
2102852--2102899	10	4.5	10	78	14	51	31	0	2	66	1.03
2104621--2104670	2	25.5	2	95	4	93	50	0	0	50	1.00
2112311--2112371	18	3.2	17	73	22	50	29	0	6	63	1.19
2112965--2113000	2	18.0	2	100	0	72	50	0	0	50	1.00

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