genome.fa.s9585.2.7.7.80.10.50.1000.9.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   

This is table  9  of  35  ( 4106 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)
1775728--1775761	16	2.1	16	89	10	52	76	8	14	0	1.01
1775753--1775812	16	3.6	16	70	22	52	78	8	13	0	0.96
1776462--1776510	22	2.2	22	92	0	80	32	24	14	28	1.94
1776921--1776956	18	2.0	18	88	0	54	19	8	30	41	1.81
1777394--1777609	36	6.2	36	72	13	166	28	19	14	37	1.91
1778271--1779096	105	7.9	105	91	1	1266	33	25	17	23	1.96
1779644--1779745	34	2.9	36	91	5	172	44	13	14	27	1.83
1780322--1780356	16	2.1	18	89	10	56	25	8	0	65	1.21
1781881--1781925	22	2.0	22	86	0	63	44	13	22	20	1.85
1785417--1785464	25	1.9	25	91	0	78	37	27	16	18	1.92
1785494--1785537	22	2.0	22	100	0	88	22	36	22	18	1.95
1786095--1786138	22	2.0	22	100	0	88	31	27	18	22	1.97
1790549--1791904	6	225.7	6	98	0	2554	50	32	0	17	1.47
1792255--1792298	23	1.9	23	90	0	70	27	27	27	18	1.98
1793627--1793666	21	1.9	21	89	0	62	30	27	17	25	1.97
1793692--1793730	19	2.1	19	95	0	69	20	38	15	25	1.92
1793672--1793856	64	2.9	65	80	8	202	29	26	16	27	1.97
1793808--1793856	19	2.6	19	84	9	57	24	30	18	26	1.98
1795977--1796058	33	2.3	38	83	12	102	42	4	10	41	1.61
1801599--1801633	18	1.9	18	88	11	54	34	5	20	40	1.76
1802030--1802099	33	2.1	33	100	0	140	41	11	5	41	1.65
1802641--1802700	21	2.9	21	85	5	68	31	28	16	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1802704--1802797	21	4.6	21	68	9	68	39	21	14	24	1.91
1803527--1803578	19	2.5	20	75	9	52	23	34	15	26	1.94
1808103--1808262	60	2.7	60	82	5	173	30	20	6	43	1.76
1808443--1808558	60	1.9	60	82	6	146	40	4	22	32	1.73
1809045--1809086	18	2.3	18	88	8	59	9	0	14	76	1.02
1813065--1813094	13	2.2	14	94	5	53	40	13	26	20	1.89
1831050--1831079	2	15.0	2	92	0	51	50	3	0	46	1.18
1840621--1840675	2	27.5	2	100	0	110	50	49	0	0	1.00
1840866--1840964	24	4.1	24	85	0	117	39	21	14	25	1.90
1844176--1844220	22	2.0	22	86	4	63	31	33	26	8	1.87
1845777--1845835	23	2.6	23	86	0	73	23	27	22	27	1.99
1847273--1847321	19	2.6	19	83	6	64	38	16	24	20	1.92
1847338--1847390	20	2.7	20	81	0	61	18	20	32	28	1.97
1847855--1847903	19	2.6	19	83	6	64	38	14	24	22	1.91
1846998--1848165	582	2.0	582	95	0	2086	35	19	20	25	1.95
1850256--1850313	27	2.1	27	84	6	73	41	8	13	36	1.76
1852388--1852460	31	2.3	32	83	2	94	15	28	32	23	1.95
1857065--1857107	3	14.7	3	81	13	54	34	0	0	65	0.93
1857065--1857119	9	5.8	10	79	20	57	38	0	0	61	0.96
1857236--1857360	25	5.0	25	93	3	216	35	20	15	28	1.93
1870993--1871044	24	2.2	24	86	10	72	75	0	15	9	1.05
1871001--1871044	8	5.4	8	97	2	79	75	0	13	11	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1871995--1872295	141	2.2	133	80	8	343	27	28	17	25	1.98
1872230--1872400	40	4.0	40	69	16	128	22	30	18	28	1.98
1872185--1872386	91	2.2	91	98	0	386	25	28	17	28	1.97
1872321--1872442	40	3.0	39	76	11	111	20	30	21	27	1.98
1872596--1872638	3	14.7	3	81	13	54	34	0	0	65	0.93
1872596--1872650	9	5.8	10	79	20	57	38	0	0	61	0.96
1872767--1872891	25	5.0	25	97	0	223	34	20	16	28	1.94
1881773--1881805	16	1.9	18	88	11	52	48	27	9	15	1.74
1886136--1886184	22	2.2	23	85	7	66	30	18	8	42	1.79
1891673--1892047	136	2.8	134	83	4	439	22	18	32	26	1.97
1891996--1892506	149	3.4	149	83	4	588	27	19	31	21	1.97
1899701--1899787	30	2.9	30	74	17	83	42	11	24	21	1.86
1900836--1900880	20	2.2	20	88	0	63	60	2	6	31	1.35
1901756--1901882	19	6.7	19	97	0	236	25	17	30	25	1.97
1901897--1901946	20	2.5	20	100	0	100	32	22	22	24	1.98
1902736--1902781	19	2.4	19	96	0	83	45	0	19	34	1.51
1902840--1902961	31	3.9	31	75	9	113	29	18	18	34	1.94
1903699--1903748	22	2.3	22	82	0	64	56	0	4	40	1.18
1905683--1905754	3	24.7	3	74	20	64	65	0	1	33	1.02
1905747--1905781	2	18.0	2	94	5	63	51	0	0	48	1.00
1905905--1905931	14	1.9	14	100	0	54	25	0	37	37	1.57
1910864--1910939	36	2.1	36	85	7	100	47	1	3	47	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1911405--1911461	23	2.5	23	91	0	87	21	12	19	47	1.81
1911951--1911996	21	2.2	21	92	7	76	56	0	2	41	1.11
1920607--1920657	19	2.6	20	78	3	59	33	29	13	23	1.93
1920706--1920783	20	3.9	20	84	0	84	44	25	14	15	1.84
1920893--1920943	22	2.3	22	86	0	75	27	39	7	25	1.83
1921285--1921335	20	2.5	20	93	0	84	56	23	9	9	1.61
1921338--1921389	20	2.6	19	76	8	50	15	15	21	48	1.81
1923343--1923388	4	11.5	4	90	0	74	26	0	2	71	0.97
1923532--1923630	21	4.8	20	72	16	67	26	33	18	22	1.96
1925065--1925101	14	2.6	14	95	0	65	29	0	18	51	1.47
1925011--1925166	81	2.0	78	91	3	249	30	1	17	50	1.55
1925247--1925285	13	2.9	14	82	17	55	7	20	30	41	1.80
1925247--1925289	14	3.1	14	78	18	54	9	18	27	44	1.80
1926047--1926178	20	6.6	20	75	12	128	18	15	26	39	1.90
1926047--1926178	40	3.3	40	85	8	162	18	15	26	39	1.90
1926591--1926655	30	2.1	31	91	2	105	44	1	6	47	1.37
1926647--1926673	7	3.9	7	100	0	54	59	0	0	40	0.98
1934682--1934761	42	1.9	42	92	0	133	45	13	11	30	1.79
1936485--1936529	22	2.0	22	87	8	65	44	2	0	53	1.13
1937147--1937188	21	2.0	22	90	4	68	42	33	19	4	1.72
1937807--1937847	10	4.1	10	84	12	57	31	29	0	39	1.57
1937973--1938297	111	3.0	111	92	3	522	36	8	10	44	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1940188--1940240	21	2.5	21	96	0	97	30	18	37	13	1.89
1940470--1940554	35	2.5	33	76	14	82	25	7	10	56	1.58
1943288--1943337	26	1.9	26	84	8	66	50	12	2	36	1.51
1947208--1947323	51	2.3	52	80	5	121	23	25	32	18	1.97
1947364--1947417	23	2.3	23	93	0	90	24	14	31	29	1.95
1948056--1948101	20	2.3	20	82	10	58	69	6	0	23	1.11
1948069--1948112	21	2.1	21	87	8	63	77	4	0	18	0.94
1949612--1949648	20	2.0	20	89	10	60	43	0	0	56	0.99
1953515--1953600	43	2.0	43	84	4	111	24	22	20	32	1.98
1953978--1954027	21	2.4	21	93	0	82	2	42	20	36	1.63
1956256--1956299	22	2.0	22	100	0	88	27	50	0	22	1.50
1962844--1963109	81	3.3	80	88	4	365	33	22	15	29	1.94
1962902--1963112	41	5.2	40	75	10	221	34	22	13	29	1.93
1962844--1963154	81	3.8	80	86	7	342	32	22	15	28	1.95
1962844--1963140	41	7.3	41	71	14	213	31	22	15	29	1.95
1964871--1964916	13	3.5	13	82	5	65	26	0	2	71	0.97
1965832--1965951	42	2.9	42	89	0	195	16	20	18	45	1.86
1966140--1966200	22	2.8	23	82	7	65	47	0	0	52	1.00
1966166--1966268	54	1.9	52	84	11	138	48	0	0	49	1.14
1966163--1966288	29	4.8	26	68	22	68	46	0	0	52	1.11
1966486--1966535	20	2.5	20	93	0	82	36	12	10	42	1.76
1966518--1966604	15	5.9	15	77	8	88	33	16	6	43	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1966486--1966544	20	3.0	20	87	0	55	35	13	8	42	1.75
1966534--1966599	15	4.4	15	84	0	96	37	16	6	39	1.74
1966518--1966599	30	2.8	30	88	1	112	35	15	7	41	1.75
1966518--1966604	45	2.0	44	90	2	138	33	16	6	43	1.74
1975301--1975361	28	2.2	28	82	8	72	32	9	14	42	1.79
1976451--1976541	2	45.0	2	97	2	173	49	0	1	49	1.08
1976555--1976851	76	4.0	73	83	11	306	45	4	6	44	1.47
1976585--1976900	37	8.3	37	83	9	377	45	3	6	45	1.44
1976835--1976859	2	12.5	2	100	0	50	52	0	0	48	1.00
1976828--1976900	33	2.1	35	85	7	96	43	0	4	52	1.20

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35