genome.fa.s8893.2.7.7.80.10.50.1000.9.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: VEPZ01008893.1 Hibiscus syriacus cultivar Beakdansim tig00112159_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2797279

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

This is table  9  of  13  ( 1547 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)
1680312--1680425	20	5.7	20	82	2	102	34	25	16	23	1.95
1680309--1680386	41	1.9	41	83	0	102	41	21	15	21	1.90
1681000--1681183	19	10.1	19	76	15	165	12	22	22	42	1.86
1681000--1681089	39	2.3	38	94	1	153	12	20	22	45	1.83
1681072--1681159	33	2.6	33	92	1	140	11	25	25	38	1.89
1681127--1681183	20	2.9	19	78	17	62	14	24	19	42	1.88
1684452--1684484	14	2.4	14	94	0	57	33	0	24	42	1.55
1684664--1684755	32	2.8	33	90	4	152	14	25	18	42	1.87
1686925--1686949	12	2.1	12	100	0	50	0	28	0	72	0.86
1688420--1688456	14	2.6	14	86	0	56	48	21	0	29	1.50
1688821--1688871	20	2.5	20	90	0	75	33	23	21	21	1.97
1688901--1688973	14	4.5	15	72	22	51	15	20	17	46	1.84
1688916--1688963	18	2.6	19	93	6	89	14	20	16	47	1.82
1689080--1689116	14	2.6	14	86	0	56	48	21	0	29	1.50
1690985--1691051	19	3.5	19	83	4	89	37	23	23	14	1.93
1691040--1691097	14	3.9	14	79	16	71	48	25	17	8	1.75
1691024--1691102	32	2.4	33	95	2	142	46	24	18	10	1.80
1691114--1691204	14	5.4	17	70	23	68	12	18	21	47	1.81
1691131--1691188	14	3.9	14	79	16	71	8	17	25	48	1.75
1691114--1691204	32	2.8	33	93	3	157	12	18	21	47	1.81
1691189--1691243	20	2.8	19	83	8	65	16	23	23	36	1.94
1691716--1691760	18	2.5	18	85	0	63	15	15	42	26	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1693378--1693421	22	2.0	22	86	0	61	22	15	40	20	1.90
1693609--1693702	20	4.7	20	80	2	89	23	18	24	34	1.96
1693629--1693706	41	1.9	41	86	0	111	21	16	21	39	1.92
1693589--1693703	20	5.7	20	78	5	88	23	17	23	35	1.95
1693692--1693787	41	2.3	41	96	0	138	18	22	17	40	1.91
1693692--1693767	21	3.7	21	75	3	82	17	23	18	40	1.91
1693718--1693784	20	3.3	20	79	4	89	19	22	17	40	1.92
1710066--1710151	42	2.0	42	90	0	136	41	13	24	19	1.88
1711471--1711513	18	2.4	18	92	0	68	32	25	23	18	1.97
1711468--1711543	18	4.2	18	80	6	64	35	26	21	17	1.95
1713717--1713745	15	1.9	15	100	0	58	44	6	20	27	1.77
1714674--1714734	32	1.9	32	93	0	104	27	11	11	49	1.73
1715928--1715965	14	2.7	15	84	12	53	26	0	0	73	0.83
1715928--1715971	19	2.3	19	88	7	63	27	0	2	70	0.99
1723913--1723960	22	2.2	22	96	0	87	29	22	22	25	1.99
1724106--1724146	20	2.0	22	90	9	68	31	7	2	58	1.38
1724222--1724262	21	2.0	21	95	0	73	53	2	4	39	1.35
1725105--1725479	200	1.9	201	89	1	583	21	25	23	28	1.99
1726171--1726228	29	2.0	30	86	10	84	34	8	10	46	1.69
1725751--1726210	234	2.0	234	87	2	665	29	11	12	46	1.77
1726804--1726845	23	1.9	21	90	9	66	16	4	33	45	1.69
1730514--1730565	19	2.7	19	96	0	95	30	19	30	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1733303--1733341	15	2.6	15	95	0	69	30	5	25	38	1.78
1735838--1735868	15	2.1	15	93	0	53	51	19	0	29	1.47
1740569--1740664	29	3.3	31	77	13	107	43	11	18	26	1.84
1740542--1740664	29	4.3	30	77	12	105	43	12	19	25	1.85
1740625--1740707	29	2.9	29	80	7	80	42	14	20	22	1.88
1742792--1742859	30	2.2	32	86	5	95	16	13	20	50	1.78
1743738--1743867	31	4.2	31	90	2	165	46	20	11	20	1.81
1746829--1746934	30	3.6	29	77	6	122	40	9	11	38	1.74
1746834--1746950	60	1.9	60	81	6	137	43	8	12	35	1.74
1749063--1749139	37	2.1	37	85	9	104	45	6	7	40	1.59
1749737--1749802	23	2.9	23	79	0	69	50	10	16	22	1.76
1750279--1750361	3	28.0	3	97	2	159	32	0	0	67	0.91
1750566--1750675	53	2.1	52	91	5	179	33	2	3	60	1.29
1753212--1753523	157	2.0	158	99	0	617	32	11	18	37	1.86
1754082--1754122	15	2.7	15	92	0	64	21	17	2	58	1.50
1757601--1757689	27	3.2	27	71	20	83	37	13	4	44	1.64
1757622--1757709	30	3.0	29	69	15	83	36	15	4	43	1.68
1757601--1757709	57	1.9	57	92	0	182	36	15	4	43	1.68
1764877--1765028	39	3.9	38	82	5	155	36	19	14	30	1.91
1764879--1765052	39	4.5	38	80	5	154	35	18	14	31	1.91
1768051--1768110	30	2.0	30	96	0	111	51	10	18	20	1.74
1769089--1769129	20	2.0	20	90	0	64	24	19	19	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1769502--1769530	13	2.2	13	100	0	58	79	0	6	13	0.93
1770310--1770351	21	2.0	21	100	0	84	28	0	14	57	1.38
1780092--1780420	164	2.0	164	100	0	658	25	26	19	28	1.99
1784521--1784889	83	4.4	84	89	4	532	28	8	10	52	1.65
1785566--1785598	15	2.2	15	100	0	66	33	33	18	15	1.92
1785710--1785778	24	2.8	26	83	12	85	31	24	5	37	1.79
1785743--1785778	12	3.0	12	91	0	63	36	25	5	33	1.79
1786086--1786207	64	1.9	64	83	3	156	25	19	20	34	1.96
1792110--1792142	15	2.2	15	94	0	57	36	33	15	15	1.88
1792289--1792322	12	2.8	12	90	0	59	38	23	5	32	1.79
1792630--1792751	64	1.9	64	83	3	156	25	19	20	34	1.96
1796065--1796107	18	2.3	19	88	8	61	62	0	0	37	0.95
1798573--1798597	2	12.5	2	100	0	50	52	0	0	48	1.00
1801914--1801958	18	2.5	18	88	0	72	22	17	40	20	1.92
1801957--1802045	39	2.3	39	92	0	142	20	33	17	28	1.95
1810805--1810853	24	2.1	23	92	3	80	24	26	28	20	1.99
1810826--1810864	17	2.3	17	95	0	69	25	28	23	23	1.99
1811225--1811311	26	3.3	26	91	1	138	54	26	19	0	1.45
1812989--1813055	21	3.2	21	72	8	64	46	28	0	25	1.53
1812987--1813074	42	2.1	42	82	4	106	43	31	0	25	1.55
1813336--1813376	14	3.1	14	76	20	52	41	0	4	53	1.22
1814104--1814137	18	1.9	18	88	5	52	50	29	2	17	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1814865--1814950	2	43.0	2	100	0	172	50	0	0	50	1.00
1815603--1815648	19	2.3	21	85	7	60	43	19	19	17	1.88
1815998--1816043	20	2.3	20	92	0	74	19	19	15	45	1.85
1816018--1816248	20	11.9	20	71	8	138	21	15	21	41	1.90
1816039--1816163	40	3.1	40	83	3	171	18	15	24	41	1.89
1816087--1816277	94	2.0	94	96	0	355	21	14	21	41	1.89
1816535--1816603	21	3.4	21	84	4	79	18	17	20	43	1.88
1816577--1816667	40	2.3	40	92	1	148	20	14	23	41	1.89
1816576--1816651	20	3.8	20	85	0	116	19	17	23	39	1.92
1816673--1816729	22	2.7	21	89	5	96	38	21	21	19	1.93
1817164--1817213	21	2.5	20	86	3	64	26	16	18	40	1.90
1818252--1818288	20	1.9	19	89	10	58	51	5	18	24	1.67
1820966--1821008	14	2.9	15	77	19	54	41	16	2	39	1.61
1820965--1821009	15	3.1	15	75	18	58	40	15	2	42	1.59
1831485--1831615	39	3.4	39	74	5	115	29	26	25	18	1.98
1834955--1834993	15	2.7	15	84	4	53	38	5	2	53	1.37
1836965--1837002	4	10.0	4	83	11	53	71	0	0	28	0.87
1837683--1837731	2	24.5	2	100	0	98	48	0	51	0	1.00
1850860--1851358	261	1.9	258	82	8	617	47	18	12	22	1.81
1859834--1859868	15	2.4	15	90	4	54	80	2	0	17	0.84
1860940--1861183	38	6.9	38	79	14	240	45	4	4	45	1.44
1864519--1865336	164	5.0	164	89	1	1203	30	23	21	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1864478--1865254	329	2.4	327	93	1	1322	29	24	21	23	1.99
1865934--1866188	38	7.2	37	79	15	242	45	3	5	45	1.44
1866232--1866260	14	2.1	14	100	0	58	13	6	0	79	0.93
1869854--1869917	22	2.9	22	90	0	101	28	21	21	28	1.99
1870603--1870631	15	1.9	15	100	0	58	58	34	0	6	1.25
1871106--1871225	43	2.8	44	84	13	162	46	1	0	51	1.10
1871259--1871285	2	13.5	2	100	0	54	51	0	0	48	1.00
1871565--1871595	4	7.8	4	92	0	53	51	19	0	29	1.47
1871564--1871595	16	2.0	16	100	0	64	50	18	0	31	1.48
1876209--1876312	31	3.4	31	68	10	97	38	15	16	29	1.89

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