genome.fa.s8755.2.7.7.80.10.50.1000.9.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: VEPZ01008755.1 Hibiscus syriacus cultivar Beakdansim tig00111847_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3030620

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  9  of  14  ( 1657 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)
1763480--1763516	15	2.5	15	91	8	58	83	0	8	8	0.80
1763872--1763909	18	2.1	18	100	0	76	31	10	5	52	1.58
1764113--1764220	54	2.0	54	94	0	189	35	14	23	26	1.94
1764583--1764667	22	3.9	22	92	0	134	38	15	10	35	1.82
1765052--1765384	123	2.7	123	89	1	490	41	13	18	26	1.88
1765448--1765549	39	2.6	39	85	0	141	50	6	22	20	1.72
1765781--1765844	3	22.0	3	84	6	87	37	0	0	62	0.95
1765777--1765843	22	3.1	22	81	14	68	34	0	0	65	0.93
1767201--1767251	13	3.6	14	78	21	54	33	1	0	64	1.05
1767240--1767283	3	14.7	3	100	0	88	34	0	0	65	0.93
1767660--1767690	2	15.5	2	93	0	53	54	0	0	45	0.99
1767407--1767693	151	2.0	148	81	8	345	41	5	6	47	1.51
1772779--1772814	17	2.1	17	89	0	54	36	22	2	38	1.69
1777817--1777861	18	2.5	18	92	0	72	28	13	26	31	1.94
1781983--1782018	18	2.0	18	100	0	72	27	16	5	50	1.68
1781985--1782026	18	2.4	18	88	4	59	38	14	4	42	1.66
1788570--1788604	2	18.0	2	94	5	63	48	0	0	51	1.00
1788599--1788661	26	2.4	27	76	10	67	17	3	4	74	1.12
1793298--1793346	19	2.7	19	84	9	68	40	0	2	57	1.10
1795651--1796038	203	1.9	203	93	1	670	37	14	20	27	1.92
1796080--1796219	36	3.9	36	89	0	208	43	18	18	19	1.88
1796414--1796438	13	1.9	13	100	0	50	44	0	0	56	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1801414--1801472	8	7.5	8	79	11	59	22	1	0	76	0.88
1801489--1801610	52	2.3	50	78	17	124	28	5	3	62	1.34
1801585--1801626	15	2.9	14	86	10	57	23	0	2	73	0.94
1801654--1801706	21	2.5	20	79	8	61	11	7	1	79	1.01
1801686--1801720	17	2.0	18	88	5	54	5	5	8	80	1.03
1801750--1801799	9	5.4	10	81	13	63	20	6	0	74	1.03
1801750--1801799	17	2.7	18	87	9	66	20	6	0	74	1.03
1801765--1801830	29	2.3	29	77	10	73	13	4	4	77	1.08
1814628--1814661	18	1.9	17	88	5	50	82	0	17	0	0.67
1817162--1817214	24	2.3	23	87	6	72	28	16	13	41	1.86
1817978--1818037	11	5.5	11	84	7	68	43	18	18	20	1.88
1817979--1818037	22	2.7	23	87	10	88	44	16	18	20	1.87
1818214--1818334	51	2.4	49	82	8	154	43	13	15	27	1.84
1823508--1823542	16	2.2	16	89	0	52	51	2	0	45	1.16
1824349--1824414	34	1.9	34	93	0	114	45	19	18	16	1.86
1827305--1827397	30	3.1	30	78	6	98	20	11	10	56	1.64
1827382--1827433	27	2.0	26	84	3	68	21	7	9	61	1.51
1831548--1831602	16	3.4	16	76	0	65	43	40	9	7	1.64
1848900--1848942	22	2.1	21	87	12	63	60	9	11	18	1.57
1855896--1855972	32	2.5	31	79	8	84	14	24	31	29	1.94
1856647--1856678	14	2.3	14	94	0	55	3	12	0	84	0.74
1864408--1864459	25	2.1	25	82	3	61	73	5	7	13	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1871471--1871499	15	2.0	15	93	6	51	68	6	3	20	1.27
1872238--1872678	221	2.0	221	99	0	875	31	23	20	25	1.98
1873988--1874069	29	2.8	29	94	1	137	32	14	9	42	1.79
1878731--1878812	29	2.8	29	94	1	137	32	14	9	42	1.79
1880316--1880389	37	2.0	37	100	0	148	40	24	24	10	1.87
1880639--1880724	24	3.7	24	80	9	97	20	20	17	40	1.91
1880681--1880835	24	6.6	24	75	11	142	21	19	18	40	1.91
1880687--1880873	94	2.0	93	98	1	365	22	16	18	42	1.88
1881560--1881762	67	3.0	67	97	0	379	37	6	17	37	1.76
1883159--1883183	7	3.6	7	100	0	50	64	24	0	12	1.27
1887762--1887807	3	15.3	3	86	8	67	34	0	0	65	0.93
1887762--1887807	21	2.2	21	92	7	76	34	0	0	65	0.93
1895481--1895533	24	2.1	26	82	17	83	33	3	24	37	1.74
1895487--1895533	24	2.0	24	100	0	94	38	4	25	31	1.75
1906032--1906227	70	2.8	70	84	1	241	31	11	25	31	1.91
1906777--1906856	25	3.4	22	77	13	70	42	5	0	52	1.23
1906787--1906856	25	3.0	22	82	14	77	42	2	0	54	1.15
1906800--1906873	25	2.8	27	81	8	98	43	2	0	54	1.14
1906806--1906925	27	4.4	26	74	13	91	41	1	1	55	1.20
1907140--1907230	3	29.3	3	93	6	155	31	1	2	64	1.12
1907928--1908084	44	3.6	45	82	5	162	35	18	21	24	1.95
1907981--1908107	43	3.0	42	82	5	130	35	18	22	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1911265--1911504	45	5.3	45	88	4	308	37	7	22	32	1.83
1914262--1914309	23	2.1	22	88	3	69	81	0	10	8	0.88
1914272--1914326	11	4.9	10	83	16	56	81	0	16	1	0.77
1914272--1914328	6	9.7	6	80	16	66	82	0	15	1	0.75
1914272--1914327	17	3.2	16	85	14	76	82	0	16	1	0.76
1916991--1917031	22	1.9	22	90	5	66	39	4	12	43	1.63
1917326--1917565	45	5.3	45	91	2	358	37	7	23	31	1.83
1918005--1918046	20	2.0	21	95	4	77	23	33	21	21	1.97
1925480--1925604	41	3.0	40	74	11	110	36	13	17	32	1.89
1928344--1928480	42	3.3	41	78	11	136	35	17	18	29	1.94
1928261--1928537	83	3.4	82	77	5	229	33	20	17	28	1.95
1934936--1934978	2	22.0	2	85	4	61	48	4	0	46	1.22
1937827--1937932	4	26.5	4	73	16	60	26	3	0	68	1.12
1937871--1937949	35	2.2	37	80	12	87	13	6	3	75	1.13
1937958--1938072	5	23.4	5	71	13	60	16	5	2	75	1.09
1938034--1938105	28	2.6	29	80	10	78	18	5	1	75	1.07
1939235--1939273	15	2.6	15	95	0	69	7	15	0	76	0.99
1944873--1945048	65	2.7	62	78	12	185	29	18	23	28	1.98
1945008--1945048	18	2.3	19	79	12	50	31	17	24	26	1.97
1945647--1945703	27	2.1	27	83	0	69	57	14	3	24	1.52
1947687--1947751	23	2.9	23	79	6	80	26	20	26	27	1.99
1947711--1947790	21	3.7	21	72	18	65	26	17	21	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1951495--1951537	21	2.0	22	86	4	61	34	6	4	53	1.49
1953220--1953244	7	3.6	7	100	0	50	12	16	12	60	1.60
1958375--1958465	5	17.8	5	78	15	55	80	1	13	5	0.94
1958359--1958452	39	2.4	39	85	8	120	78	1	12	7	1.00
1958366--1958486	6	19.5	6	80	16	81	78	0	15	4	0.97
1958367--1958469	39	2.7	36	78	19	111	79	0	13	5	0.96
1961362--1961433	11	6.7	11	72	15	53	23	2	0	73	0.96
1961395--1961559	5	33.4	5	69	17	60	17	6	2	73	1.16
1961394--1961434	6	7.2	6	78	10	50	17	2	0	80	0.82
1961375--1961432	22	2.5	22	83	11	62	20	3	0	75	0.94
1961443--1961512	24	3.0	23	73	12	70	14	2	5	77	1.07
1961443--1961541	48	2.1	47	81	9	112	15	5	4	75	1.12
1961517--1961564	23	2.1	22	92	3	78	20	4	0	75	0.97
1962752--1962803	24	2.2	23	93	3	86	46	19	23	11	1.82
1964644--1964713	31	2.3	31	92	0	122	27	30	12	30	1.93
1970047--1970109	11	5.9	11	73	14	60	57	1	1	39	1.18
1970216--1970315	7	14.3	7	75	0	83	43	32	3	22	1.68
1970226--1970315	21	4.3	21	85	2	110	43	32	1	23	1.61
1971459--1971488	13	2.3	13	94	0	51	40	6	23	30	1.80
1972251--1972316	11	5.8	11	75	7	60	28	12	25	33	1.92
1972251--1972316	22	2.9	22	81	4	78	28	12	25	33	1.92
1974152--1974196	22	2.0	23	91	4	74	26	20	4	48	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1974528--1974601	33	2.2	32	86	9	96	14	9	35	40	1.79
1974557--1974653	45	2.2	45	87	3	135	9	10	38	42	1.71
1974532--1974683	78	2.0	76	92	2	250	12	9	36	41	1.75
1974601--1974683	32	2.5	33	90	5	132	9	9	38	42	1.71
1975251--1975297	16	2.8	16	87	6	58	29	29	4	36	1.77
1976296--1976346	27	1.9	26	84	11	68	27	15	25	31	1.96
1988610--1988684	35	2.1	35	87	4	107	33	1	18	46	1.58
1992729--1992837	21	5.0	22	73	12	77	47	0	0	51	1.07
1992729--1992836	23	5.0	23	72	18	81	47	0	0	51	1.07
2003653--2003709	22	2.6	22	94	0	96	26	12	21	40	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14