genome.fa.s2637.2.7.7.80.10.50.1000.9.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: VEPZ01002637.1 Hibiscus syriacus cultivar Beakdansim tig00005377_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3156206

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

This is table  9  of  14  ( 1653 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)
1760946--1760994	24	2.0	24	100	0	98	24	24	12	38	1.90
1761573--1761605	11	3.1	11	86	8	50	27	24	0	48	1.51
1764360--1764407	16	3.0	16	77	20	55	43	0	20	35	1.52
1774756--1774796	21	2.0	21	85	0	55	34	14	14	36	1.87
1786337--1786365	4	7.2	4	100	0	58	24	0	0	75	0.80
1788800--1788865	26	2.5	26	74	18	66	46	0	0	53	1.00
1788766--1788993	107	2.2	103	88	7	327	38	3	5	52	1.42
1790565--1790626	24	2.6	24	84	5	81	20	14	20	43	1.87
1791648--1791689	2	21.0	2	100	0	84	50	0	0	50	1.00
1793520--1793555	2	19.0	2	88	11	58	50	0	0	50	1.00
1795279--1795346	3	23.0	3	81	3	84	64	0	0	35	0.94
1795969--1796023	22	2.5	22	93	0	92	14	25	9	50	1.72
1796341--1796398	22	2.6	22	91	0	89	36	12	18	32	1.88
1804268--1804306	12	2.9	13	85	14	53	56	7	20	15	1.63
1804268--1804321	26	2.0	26	85	3	72	55	7	18	18	1.65
1809090--1809134	19	2.4	19	85	7	56	57	0	4	37	1.19
1809467--1809496	9	3.2	9	90	9	51	33	0	0	66	0.92
1810743--1810777	7	4.9	7	89	3	52	11	42	14	31	1.81
1810987--1811162	5	35.2	5	100	0	352	40	0	0	59	0.97
1816165--1816226	29	2.1	29	85	5	81	53	1	1	43	1.20
1816181--1816266	22	4.0	21	78	15	70	55	2	2	39	1.25
1816272--1816342	27	2.4	28	81	13	81	53	4	1	40	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1817000--1817098	24	4.5	23	75	20	88	55	0	0	44	0.99
1816999--1817091	41	2.2	42	84	11	118	55	0	0	44	0.99
1817001--1817101	23	4.6	22	78	14	93	55	0	0	44	0.99
1824118--1824172	20	2.8	20	85	0	74	50	14	9	25	1.72
1832300--1832346	14	3.4	14	86	13	62	78	0	6	14	0.93
1833582--1833787	106	1.9	106	90	0	322	21	19	25	33	1.97
1835112--1835149	17	2.3	17	86	4	51	0	15	5	78	0.91
1845819--1845851	2	16.5	2	100	0	66	51	0	0	48	1.00
1845885--1845930	21	2.1	22	88	8	67	71	0	4	23	1.03
1845885--1845930	22	2.0	23	83	4	58	71	0	4	23	1.03
1845899--1845941	18	2.5	17	77	7	50	76	2	4	16	1.05
1845972--1846002	2	15.5	2	100	0	62	51	0	0	48	1.00
1851019--1851053	16	2.1	18	89	10	56	65	0	8	25	1.21
1851058--1851111	18	3.1	18	72	17	51	64	1	7	25	1.30
1851170--1851246	31	2.4	32	84	2	93	59	5	3	31	1.37
1851612--1851711	35	2.7	35	87	6	128	31	17	15	37	1.90
1852172--1852734	109	5.3	105	81	7	536	22	20	24	32	1.98
1853296--1853361	33	2.0	33	85	5	89	37	12	19	30	1.88
1853407--1853789	36	10.9	36	75	13	307	39	12	20	27	1.89
1853441--1853624	102	1.8	101	86	1	269	40	13	17	28	1.87
1853407--1853661	138	1.8	138	87	1	377	40	13	19	27	1.89
1853720--1853839	35	3.4	35	70	10	100	37	15	21	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1854271--1854306	18	2.0	18	94	0	63	41	33	8	16	1.78
1855296--1855374	17	4.9	16	73	21	58	2	13	5	78	1.02
1855296--1855361	9	8.1	8	76	17	57	1	12	4	81	0.90
1855300--1855374	25	3.0	24	74	16	80	2	13	5	78	1.02
1858561--1858595	16	2.1	18	89	10	56	65	0	8	25	1.21
1858606--1858643	20	1.9	20	88	0	58	63	2	7	26	1.35
1858712--1858788	31	2.4	32	84	2	93	59	5	3	31	1.37
1859162--1859253	35	2.6	37	84	5	109	32	13	16	38	1.87
1862696--1863015	155	2.1	156	89	4	486	42	15	17	24	1.87
1870653--1870695	18	2.4	18	96	0	77	23	4	0	72	1.04
1870756--1870810	29	1.9	28	82	17	69	10	12	3	72	1.24
1870762--1870845	35	2.5	33	81	14	86	14	9	2	73	1.18
1877584--1877655	35	2.0	36	89	2	110	19	15	5	59	1.55
1881062--1881088	2	13.5	2	100	0	54	51	48	0	0	1.00
1881817--1881853	18	2.0	19	94	5	67	48	10	8	32	1.67
1883353--1883393	18	2.3	18	91	0	64	2	29	26	41	1.69
1902874--1902952	32	2.5	32	76	0	95	16	24	29	30	1.96
1904301--1904351	20	2.5	20	87	0	75	25	31	0	43	1.55
1904301--1904344	10	4.4	10	94	0	70	25	31	0	43	1.55
1904301--1904361	10	6.1	10	86	0	68	24	29	0	45	1.53
1906479--1906503	12	2.1	12	100	0	50	32	24	36	8	1.84
1906737--1906821	35	2.5	33	78	14	91	25	8	11	54	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1910315--1910424	51	2.2	50	82	12	145	25	25	21	27	2.00
1910757--1910841	35	2.4	36	84	5	120	45	4	7	42	1.52
1926902--1927126	111	2.0	111	98	0	432	46	19	12	21	1.83
1928376--1928450	18	4.0	19	82	5	84	50	4	18	26	1.64
1936534--1936576	23	1.9	22	85	4	59	32	18	13	34	1.90
1938356--1938828	235	2.0	234	90	1	732	34	23	11	30	1.90
1946664--1946720	13	4.4	13	88	0	69	33	19	19	28	1.96
1950846--1950944	42	2.4	42	85	6	123	37	18	9	35	1.82
1957825--1957856	16	1.9	17	93	6	57	65	0	28	6	1.16
1965345--1965387	22	2.0	22	85	0	59	37	20	11	30	1.89
1965335--1965394	22	2.7	21	77	10	57	38	21	10	30	1.86
1967716--1967750	16	2.2	16	100	0	70	28	25	11	34	1.91
1975094--1975198	44	2.4	45	84	6	144	29	23	8	38	1.85
1975544--1975596	26	2.0	26	86	13	74	75	16	0	7	1.02
1984069--1984410	46	7.3	46	78	11	345	18	23	11	45	1.83
1984043--1984410	92	3.9	95	80	9	412	19	22	11	46	1.82
1984259--1984430	20	7.7	20	83	8	119	19	25	10	44	1.83
1984010--1984364	164	2.2	159	83	9	430	18	23	11	46	1.82
1984306--1984382	26	3.0	26	96	0	136	20	20	11	46	1.82
1984029--1984442	92	4.4	94	77	12	410	19	22	11	46	1.82
1984010--1984442	118	3.7	121	81	9	456	18	22	11	46	1.81
1987175--1987217	2	21.5	2	100	0	86	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1989373--1989451	23	3.6	22	82	11	92	18	25	30	25	1.98
1998928--1999020	46	2.0	46	87	0	132	21	22	9	46	1.80
1998944--1999089	66	2.2	66	88	0	220	21	21	10	45	1.81
1999002--1999138	46	3.0	45	88	4	195	21	19	10	48	1.79
1999027--1999115	26	3.7	25	75	20	91	20	20	11	48	1.79
2000907--2000945	18	2.2	18	85	0	51	41	10	20	28	1.85
2002976--2003002	2	13.5	2	100	0	54	48	0	0	51	1.00
2004271--2004338	3	22.7	3	100	0	136	33	0	0	66	0.92
2006966--2007021	24	2.3	24	93	0	103	26	17	17	37	1.93
2007248--2007313	30	2.2	30	83	0	78	9	24	27	39	1.85
2011737--2011868	3	43.0	3	77	13	108	36	3	2	57	1.29
2011738--2011868	23	5.9	23	72	18	75	36	3	2	57	1.30
2011737--2011878	13	11.0	13	74	16	100	38	3	2	56	1.28
2011901--2011955	20	2.8	20	94	0	92	29	20	23	27	1.99
2013159--2013203	18	2.5	17	86	10	63	46	2	2	48	1.26
2013730--2013759	11	2.7	11	100	0	60	20	0	6	73	1.05
2019755--2019829	22	3.4	22	98	0	141	36	12	14	37	1.83
2020521--2020569	20	2.5	20	86	0	62	26	24	20	28	1.99
2020440--2020703	119	2.2	119	92	0	447	32	14	18	33	1.92
2020649--2020688	20	2.0	20	90	0	62	27	22	20	30	1.98
2020837--2020970	3	44.0	3	75	14	105	37	2	1	58	1.23
2020837--2020968	18	6.9	20	74	11	118	37	3	1	58	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2020837--2020968	23	5.7	23	72	15	96	37	3	1	58	1.23
2020847--2020970	54	2.4	52	79	15	134	37	3	1	57	1.25
2022205--2022285	18	4.6	17	72	24	62	45	2	2	49	1.28
2022417--2022788	187	2.0	188	96	0	683	29	16	14	39	1.89
2023385--2023427	12	3.6	12	83	0	59	58	0	0	41	0.98
2024066--2024151	20	4.3	20	90	0	136	38	20	17	23	1.93
2025531--2025636	42	2.6	42	79	7	112	27	21	16	33	1.95
2031717--2031757	20	2.0	20	86	9	57	2	21	19	56	1.54
2032285--2032335	10	5.7	10	82	17	60	56	0	0	43	0.99
2032285--2032335	12	4.6	11	81	13	61	56	0	0	43	0.99

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