genome.fa.s8301.2.7.7.80.10.50.1000.10.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: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3376434

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  10  of  18  ( 2065 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)
1757098--1757135	16	2.4	16	90	0	67	55	10	7	26	1.61
1760325--1760386	8	6.9	8	76	20	52	79	0	6	14	0.93
1760325--1760386	9	6.8	9	75	15	56	79	0	6	14	0.93
1760325--1760386	28	2.3	27	86	8	81	79	0	6	14	0.93
1760378--1760435	31	1.9	30	82	10	73	72	0	13	13	1.13
1760810--1760846	17	2.0	20	85	15	53	75	0	5	18	0.99
1761180--1761286	36	2.9	37	88	2	162	32	11	13	42	1.79
1761176--1761286	37	3.0	37	88	2	170	32	12	12	42	1.81
1761866--1762725	84	10.4	84	77	7	824	25	19	23	31	1.98
1761866--1762725	249	3.5	248	88	1	1249	25	19	23	31	1.98
1762853--1763134	110	2.6	110	87	5	396	25	16	22	35	1.95
1768235--1768316	6	14.0	6	71	19	57	75	1	6	17	1.06
1768229--1768314	20	4.2	19	69	20	57	76	1	5	16	1.03
1768218--1768316	21	4.1	25	68	29	72	73	2	7	17	1.14
1768229--1768322	30	3.3	28	76	17	97	75	1	6	17	1.06
1768355--1768386	3	10.7	3	93	0	55	65	3	0	31	1.08
1768355--1768424	12	5.6	12	75	8	50	68	2	5	22	1.24
1768414--1768476	28	2.2	30	80	8	76	61	0	9	28	1.27
1769074--1769148	37	2.0	37	92	0	123	30	10	12	46	1.75
1772300--1772339	17	2.4	17	95	0	71	35	0	22	42	1.54
1772506--1772531	13	2.0	13	100	0	52	38	23	0	38	1.55
1773142--1773175	3	11.3	3	100	0	68	67	0	0	32	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1776466--1776495	13	2.3	13	100	0	60	16	46	23	13	1.82
1778978--1779069	48	1.9	48	88	0	139	19	9	16	54	1.69
1778975--1779062	24	3.7	24	74	6	79	20	9	17	53	1.70
1780185--1780236	3	16.7	3	84	7	68	36	0	0	63	0.95
1780185--1780232	25	1.9	25	91	8	80	37	0	0	62	0.95
1780249--1780294	23	2.0	23	83	8	58	32	36	10	19	1.87
1790755--1790873	42	2.9	41	78	6	116	27	23	18	30	1.98
1790264--1791796	243	6.3	244	87	1	2103	33	16	16	33	1.92
1790995--1791102	42	2.6	42	80	4	130	26	17	23	32	1.97
1792063--1792097	13	2.8	13	91	4	54	40	0	0	60	0.97
1796395--1796529	59	2.3	59	84	7	177	34	19	16	29	1.93
1798058--1798101	20	2.2	20	84	4	54	45	18	0	36	1.49
1801607--1801674	33	2.1	33	100	0	136	23	35	2	38	1.70
1802201--1802286	21	4.1	21	78	11	95	23	0	29	47	1.52
1802188--1802280	42	2.2	42	84	3	116	24	0	30	45	1.54
1802574--1802610	17	2.2	17	95	0	65	24	16	29	29	1.96
1802615--1802659	12	3.8	12	100	0	90	40	24	17	17	1.91
1802604--1802682	24	3.5	22	82	16	90	34	25	18	21	1.96
1802595--1802705	11	9.6	11	84	13	86	29	25	21	23	1.99
1803218--1803274	28	2.0	28	82	0	69	38	22	12	26	1.89
1809772--1809825	23	2.4	21	79	14	54	70	5	7	16	1.30
1810471--1810526	29	1.9	29	89	7	87	53	8	23	14	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1810728--1810791	33	1.9	33	96	0	119	46	6	20	26	1.74
1812832--1812988	65	2.4	65	85	6	192	41	12	14	31	1.83
1823297--1823412	41	2.9	40	79	7	128	33	16	12	37	1.85
1829575--1829618	21	2.1	21	83	8	54	9	13	0	77	0.99
1829586--1829627	21	2.0	22	90	4	68	7	14	0	78	0.95
1829570--1829634	28	2.3	27	80	12	78	7	13	0	78	0.95
1829592--1829627	7	5.1	7	86	0	54	5	13	0	80	0.88
1837498--1837562	22	2.7	26	69	18	66	27	9	12	50	1.70
1839913--1839976	33	1.9	34	87	3	94	48	34	9	7	1.64
1840250--1840296	18	2.7	18	93	3	78	31	8	31	27	1.87
1840919--1840976	29	2.0	29	93	0	98	50	22	15	12	1.77
1840641--1841156	254	2.1	245	78	11	521	40	18	12	27	1.88
1845712--1845746	15	2.3	15	90	0	52	14	62	17	5	1.49
1862263--1862335	36	2.0	36	97	0	137	31	32	9	26	1.88
1862560--1862600	18	2.3	18	91	4	66	24	19	12	43	1.85
1866643--1866711	27	2.6	27	92	0	120	20	14	20	44	1.86
1870771--1870817	18	2.7	18	87	9	62	46	12	12	27	1.78
1874335--1874380	20	2.3	19	85	14	58	26	15	8	50	1.73
1883969--1884007	14	2.6	14	88	8	51	46	10	5	38	1.60
1886156--1886205	19	2.6	19	84	6	66	30	18	34	18	1.94
1887979--1888557	288	2.0	288	97	0	1086	26	12	27	32	1.93
1891418--1893478	4	528.0	4	92	6	3551	24	0	25	49	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1893757--1893796	21	1.9	20	85	10	53	65	7	0	27	1.20
1895298--1895370	36	2.0	36	86	0	101	53	8	2	35	1.45
1901676--1901700	10	2.5	10	100	0	50	20	8	12	60	1.57
1901979--1902093	24	4.9	23	82	2	113	10	10	19	60	1.58
1901999--1902082	24	3.5	24	88	1	116	8	10	21	59	1.57
1902109--1902135	10	2.7	10	100	0	54	48	22	18	11	1.79
1902178--1902210	16	2.1	16	100	0	66	6	12	24	57	1.57
1902829--1902874	20	2.3	19	82	10	65	52	10	17	19	1.74
1904674--1904728	24	2.5	22	81	18	62	49	0	3	47	1.19
1905107--1905169	21	3.0	21	90	0	90	42	12	28	15	1.84
1905203--1905268	33	2.0	33	93	0	114	30	0	46	22	1.52
1906986--1907041	29	1.9	29	82	7	69	51	14	17	16	1.76
1907055--1907103	19	2.6	19	93	0	80	32	2	12	53	1.50
1907326--1907883	199	2.8	199	92	1	920	36	15	15	31	1.89
1911425--1911648	64	3.5	62	78	8	204	32	20	18	28	1.96
1912462--1912595	32	4.3	31	76	12	130	35	17	17	29	1.93
1912460--1912630	31	5.5	31	73	12	143	33	17	18	30	1.94
1912460--1912614	63	2.5	63	92	0	247	35	16	18	29	1.93
1912463--1912650	31	6.0	31	71	12	134	34	18	18	29	1.94
1916279--1916503	64	3.5	64	80	6	206	32	20	19	27	1.97
1917335--1917452	32	3.8	32	77	11	136	33	17	16	31	1.93
1917315--1917480	63	2.7	63	92	0	280	33	18	17	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1917315--1917508	31	6.2	31	75	13	175	32	18	18	30	1.95
1918198--1918671	250	1.9	249	88	3	711	37	15	17	30	1.90
1918545--1918900	177	2.0	177	91	2	572	38	14	17	30	1.89
1921365--1922063	200	3.5	199	79	9	606	39	13	15	31	1.86
1922108--1922229	64	1.9	64	96	0	226	33	10	13	42	1.78
1923131--1923219	42	2.1	42	87	0	124	30	2	22	44	1.65
1925253--1925315	33	1.9	33	83	6	83	58	14	6	20	1.57
1929067--1929120	19	2.9	18	84	13	65	68	0	1	29	1.00
1952336--1952406	20	3.5	20	69	17	56	21	22	22	33	1.97
1952355--1952427	21	3.5	21	72	10	78	24	17	21	35	1.95
1952336--1952434	41	2.4	41	89	0	153	23	22	22	32	1.98
1952787--1952847	6	11.3	6	80	16	55	50	0	0	49	1.00
1952784--1952847	15	4.1	15	83	4	74	50	0	0	50	1.00
1952831--1952860	10	2.9	10	95	5	51	66	0	0	33	0.92
1952822--1952858	13	2.8	14	88	8	51	62	0	0	37	0.96
1956403--1957967	223	7.0	223	81	5	1653	32	16	18	33	1.93
1957230--1957885	236	2.8	237	80	8	651	33	15	17	33	1.92
1956456--1957967	678	2.3	662	83	5	1846	31	16	18	33	1.93
1957966--1958441	220	2.1	222	83	3	593	33	16	18	31	1.93
1958291--1958648	192	1.9	193	86	2	524	34	13	15	36	1.87
1958796--1959123	182	1.8	182	86	6	486	27	15	21	35	1.93
1960005--1961102	219	5.0	218	82	6	1189	31	16	17	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1960011--1961093	437	2.5	436	86	4	1494	31	16	17	35	1.92
1961167--1962793	221	7.4	222	80	5	1595	31	16	16	35	1.92
1961176--1962785	662	2.4	662	80	5	1793	31	16	16	35	1.91
1962653--1962913	134	1.9	134	85	3	355	27	19	14	39	1.90
1962433--1963144	357	2.0	354	84	2	935	28	16	17	37	1.92
1962787--1963380	223	2.7	223	83	4	766	28	17	17	36	1.93
1963217--1963524	156	2.0	157	86	1	440	27	16	17	38	1.91
1963368--1964646	223	5.8	221	82	3	1333	31	16	16	35	1.92
1963368--1964646	441	2.9	443	84	3	1459	31	16	16	35	1.92
1964857--1965170	158	2.0	155	86	3	441	28	16	17	38	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18