genome.fa.s7967.2.7.7.80.10.50.1000.9.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: VEPZ01007967.1 Hibiscus syriacus cultivar Beakdansim tig00110402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2476418

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

This is table  9  of  11  ( 1301 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)
1823289--1823414	33	3.8	33	68	17	93	22	7	0	69	1.20
1825743--1825771	14	2.0	15	93	6	51	13	0	10	75	1.04
1830944--1830992	25	2.0	25	84	8	64	20	22	6	51	1.69
1844388--1844419	15	2.0	17	88	11	50	43	6	0	50	1.27
1844710--1844739	14	2.1	14	93	0	51	16	23	0	60	1.36
1845775--1845814	21	1.9	21	85	10	55	57	0	10	32	1.32
1846558--1846592	16	2.2	16	89	0	52	42	0	11	45	1.40
1848758--1848804	16	2.9	16	96	0	85	19	12	19	48	1.80
1849274--1849307	17	2.0	17	94	0	59	26	0	0	73	0.83
1858610--1858642	3	11.3	3	93	6	59	33	0	0	66	0.92
1863369--1863438	32	2.2	32	82	7	79	45	1	10	42	1.46
1863525--1863606	3	27.0	3	85	11	114	34	0	1	64	1.01
1864951--1865037	29	2.9	30	79	3	104	18	12	5	63	1.48
1868283--1868324	20	2.1	20	100	0	84	33	19	9	38	1.84
1870137--1870178	12	3.5	11	87	12	57	52	21	0	26	1.47
1870137--1870178	4	10.5	4	80	10	50	52	21	0	26	1.47
1870509--1870650	36	4.0	35	83	3	176	31	16	11	39	1.85
1870509--1870650	71	2.0	72	87	1	205	31	16	11	39	1.85
1870629--1870949	105	3.1	103	76	14	358	32	15	12	38	1.86
1870922--1871024	36	2.9	36	83	0	143	37	18	8	34	1.82
1871129--1871212	30	2.8	29	78	1	69	26	23	9	40	1.85
1871526--1871652	65	2.0	63	82	3	155	32	11	13	43	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1871608--1871713	36	2.8	37	77	11	126	33	13	14	38	1.84
1871683--1871738	28	2.0	28	89	0	85	25	17	16	41	1.89
1871767--1872103	134	2.5	131	82	7	376	27	31	16	24	1.96
1872283--1872364	3	27.0	3	83	11	105	32	1	2	63	1.15
1879602--1879682	24	3.4	23	75	10	56	20	9	19	49	1.77
1881031--1881063	16	2.1	16	94	0	57	57	21	12	9	1.62
1881129--1881175	16	2.9	16	87	0	67	59	19	12	8	1.58
1882266--1882323	10	5.4	10	78	15	53	53	24	12	10	1.68
1882253--1882312	24	2.5	24	94	0	102	56	18	11	13	1.66
1882253--1882302	14	3.9	14	72	20	54	58	16	12	14	1.64
1882266--1882331	34	1.9	34	90	0	105	54	21	12	12	1.69
1882965--1883003	19	2.1	19	90	0	60	33	5	5	56	1.43
1883668--1883708	16	2.6	16	88	11	59	43	7	17	31	1.76
1883809--1883842	15	2.3	15	94	0	59	35	26	14	23	1.94
1883787--1883875	38	2.3	38	96	0	160	29	23	15	31	1.95
1887580--1887687	51	2.1	51	98	0	207	30	9	22	37	1.85
1887939--1887984	17	2.9	16	90	9	60	6	32	0	60	1.22
1887947--1887984	17	2.2	17	100	0	76	5	36	0	57	1.21
1889196--1889284	32	2.8	32	92	0	151	34	17	21	25	1.96
1892786--1893108	46	7.0	46	94	0	547	22	24	12	40	1.89
1892786--1893298	138	3.8	138	82	9	654	24	23	11	41	1.87
1893077--1893142	34	1.9	34	96	0	123	22	19	12	45	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1893101--1893298	46	4.4	45	74	16	162	28	20	9	41	1.83
1893189--1893268	26	3.3	26	68	20	73	27	23	10	38	1.87
1893810--1893861	20	2.6	20	82	14	63	17	32	17	32	1.93
1911353--1911440	17	5.1	18	70	21	55	38	0	2	59	1.10
1911359--1911447	34	2.7	33	77	10	85	39	0	2	58	1.11
1913175--1913222	21	2.3	21	85	0	60	25	37	12	25	1.91
1913226--1913319	21	4.5	20	83	10	109	18	31	27	22	1.97
1913226--1913319	42	2.2	42	85	7	129	18	31	27	22	1.97
1913842--1913938	33	2.9	34	85	3	133	55	4	3	37	1.35
1913840--1913945	34	3.2	33	82	8	133	54	4	2	37	1.36
1914335--1915215	128	6.9	128	96	0	1545	32	19	24	23	1.98
1914335--1915215	383	2.3	384	94	1	1554	32	19	24	23	1.98
1915288--1915328	8	5.2	8	82	5	57	36	29	0	34	1.58
1919182--1919223	6	7.0	6	100	0	84	16	16	33	33	1.92
1924619--1924734	54	2.1	54	87	0	160	24	17	24	34	1.96
1926498--1926532	14	2.6	14	90	4	54	45	5	14	34	1.68
1927009--1927089	21	3.7	21	73	17	67	29	16	30	23	1.96
1932822--1933058	74	3.2	73	90	1	339	21	18	26	33	1.97
1934268--1934327	3	19.3	3	81	10	68	33	0	3	63	1.11
1934276--1934328	27	1.9	28	92	3	90	30	0	3	66	1.10
1947397--1948038	55	11.7	55	85	3	760	34	16	16	32	1.91
1953241--1953779	55	9.9	55	84	5	614	35	16	15	31	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1957918--1957958	6	7.3	6	78	15	52	17	14	14	53	1.73
1957929--1957958	15	2.0	15	93	0	51	16	13	13	56	1.67
1963693--1963887	52	3.7	52	75	16	200	28	11	17	42	1.84
1963690--1963944	109	2.3	110	85	6	354	31	11	17	40	1.85
1964019--1964130	41	2.7	41	76	4	109	27	19	21	31	1.97
1964136--1964263	59	2.2	59	89	0	202	29	29	13	27	1.94
1968296--1968540	125	2.0	126	82	4	307	29	22	18	28	1.98
1968741--1968800	3	19.7	3	81	13	70	28	0	1	70	0.97
1968740--1968800	17	3.9	16	82	18	76	27	0	1	70	0.97
1968738--1968800	11	5.7	11	78	14	67	28	0	1	69	0.97
1972983--1973032	2	27.0	2	84	15	72	50	0	0	50	1.00
1972987--1973032	15	3.2	15	87	6	69	50	0	0	50	1.00
1972983--1973032	19	2.7	19	90	6	77	50	0	0	50	1.00
1973234--1973261	2	14.0	2	100	0	56	50	0	0	50	1.00
1974126--1974182	26	2.2	26	90	6	89	33	35	8	22	1.85
1977482--1977686	109	1.9	109	88	4	315	45	14	18	20	1.84
1977468--1977718	109	2.3	108	79	7	301	45	14	18	20	1.85
1979755--1979808	24	2.2	24	93	0	90	35	22	14	27	1.93
1979811--1979881	24	2.9	24	87	4	97	28	25	25	21	1.99
1979811--1979881	25	2.9	25	89	2	99	28	25	25	21	1.99
1980012--1980074	15	4.1	15	83	4	81	33	19	9	38	1.84
1980016--1980092	30	2.5	30	81	8	75	36	20	7	35	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1986729--1986782	24	2.2	24	90	0	90	33	24	20	22	1.97
1986990--1987047	15	3.8	15	79	2	71	44	17	1	36	1.59
1989273--1989505	117	2.0	118	87	0	342	28	24	12	34	1.92
1989067--1989716	321	2.0	323	87	4	947	27	22	16	33	1.95
1991459--1991564	54	2.0	54	86	3	151	43	17	10	28	1.82
1993670--1993727	27	2.1	27	87	0	80	5	15	3	75	1.11
1993703--1993744	17	2.4	18	84	11	61	9	14	0	76	1.02
1993721--1993765	21	2.3	19	84	7	54	6	11	2	80	0.99
1997476--1997684	110	1.9	110	85	5	289	44	15	18	22	1.86
1998347--1998380	18	1.9	18	88	5	52	2	2	8	85	0.80
1998723--1998783	3	19.7	3	83	6	77	62	0	1	36	1.05
1998714--1998783	13	5.5	13	82	5	81	62	0	1	35	1.04
1998714--1998792	16	4.9	16	76	18	76	62	0	1	36	1.04
2001669--2001717	21	2.4	21	80	13	57	32	0	0	67	0.91
2015066--2015105	5	8.2	5	88	5	64	17	0	2	80	0.83
2020107--2020191	36	2.3	37	83	4	109	34	18	9	37	1.83
2020474--2020813	131	2.6	131	81	3	378	26	31	16	25	1.97
2020474--2020851	131	2.9	131	80	5	316	26	30	16	25	1.96
2021023--2021062	3	13.0	3	85	15	55	35	0	0	65	0.93
2021019--2021055	12	3.2	12	85	14	51	32	0	0	67	0.91
2023277--2023425	39	3.8	38	87	5	183	25	40	9	24	1.85
2023655--2023705	4	12.5	4	85	8	50	70	0	21	7	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2023971--2024000	15	2.0	15	100	0	60	33	13	6	46	1.69
2029416--2029460	19	2.4	19	89	10	67	48	4	0	46	1.22
2029674--2029722	16	3.1	15	79	5	53	0	24	0	75	0.80
2029823--2029861	12	3.3	12	85	3	53	23	17	17	41	1.91
2030084--2030151	21	3.1	21	87	6	82	66	1	1	30	1.10
2032940--2032981	16	2.6	16	88	3	57	69	2	2	26	1.13
2033669--2033702	10	3.3	10	87	4	50	38	0	0	61	0.96
2038957--2038982	7	3.7	7	100	0	52	42	0	0	57	0.98
2039720--2039775	20	2.8	20	83	5	60	19	21	17	41	1.91
2039825--2039868	24	1.9	22	100	0	70	20	9	15	54	1.68

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