genome.fa.s7850.2.7.7.80.10.50.1000.9.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: VEPZ01007850.1 Hibiscus syriacus cultivar Beakdansim tig00110209_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1775394

Tables:   1   2   3   4   5   6   7   8   9   

This is table  9  of  9  ( 1055 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)
1563731--1563909	87	2.1	87	94	0	313	35	12	18	32	1.89
1563629--1564014	189	2.0	189	85	3	508	38	12	18	30	1.88
1564155--1564488	106	3.2	106	87	2	449	22	18	23	35	1.96
1565066--1565177	32	3.5	32	78	6	93	40	17	11	30	1.86
1566108--1566245	69	2.0	69	85	5	190	26	13	21	39	1.90
1569348--1569382	15	2.3	15	85	0	52	74	0	14	11	1.08
1569362--1569454	46	2.0	46	82	15	113	73	0	9	17	1.09
1569442--1569503	27	2.5	26	82	15	78	67	0	1	30	1.00
1569445--1569504	26	2.3	27	82	2	77	68	0	1	30	0.99
1569441--1569545	12	7.5	13	72	19	61	68	1	0	28	1.06
1569482--1569545	26	2.6	24	80	11	67	67	3	0	29	1.06
1569498--1569566	31	2.2	32	77	12	81	69	2	1	26	1.11
1570055--1570080	2	13.0	2	100	0	52	50	0	0	50	1.00
1576425--1576768	170	2.0	173	97	2	658	23	16	19	40	1.91
1578097--1578179	17	4.9	17	71	14	57	43	1	0	55	1.07
1578122--1578172	21	2.6	19	81	6	57	47	0	0	52	1.00
1583651--1583738	39	2.3	39	84	4	115	18	15	27	38	1.91
1584351--1584658	21	14.7	19	79	12	184	22	19	22	36	1.96
1584351--1584658	42	7.3	41	79	11	272	22	19	22	36	1.96
1584360--1584572	63	3.3	63	79	10	254	21	19	21	38	1.94
1584351--1584651	126	2.4	122	86	6	381	21	19	22	36	1.95
1584552--1584621	19	3.4	21	81	15	85	22	21	27	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1585856--1586204	173	2.0	174	98	1	673	26	26	19	27	1.99
1607481--1607505	8	3.1	8	100	0	50	0	0	52	48	1.00
1607554--1607616	20	2.9	21	79	9	65	15	25	34	23	1.95
1611424--1611463	21	1.9	21	85	10	55	35	10	2	52	1.48
1617089--1617125	20	1.9	19	89	10	58	18	21	10	48	1.78
1617095--1617132	20	1.9	20	88	0	58	21	23	10	44	1.83
1618435--1618497	10	5.9	10	73	14	54	58	20	12	7	1.59
1618435--1618473	20	2.0	20	89	0	60	56	20	15	7	1.63
1618436--1618500	34	1.9	34	87	0	94	58	21	12	7	1.59
1618454--1618527	24	3.2	23	81	7	71	62	22	8	6	1.47
1622007--1622161	78	2.0	78	94	0	274	22	26	13	37	1.91
1628436--1628467	14	2.3	14	94	0	55	71	3	0	25	1.00
1634144--1634168	12	2.1	12	100	0	50	40	24	16	20	1.91
1643625--1643651	9	3.0	9	100	0	54	33	44	0	22	1.53
1646754--1646795	16	2.6	16	100	0	84	23	14	26	35	1.93
1647510--1647557	20	2.4	20	86	13	64	27	16	27	29	1.97
1650284--1650327	3	14.3	3	95	4	79	34	0	0	65	0.93
1652905--1652941	18	2.0	19	94	5	67	0	16	35	48	1.46
1657197--1657235	14	2.8	14	84	0	51	35	28	12	23	1.91
1660485--1660600	55	2.1	54	87	6	162	37	19	12	29	1.89
1660771--1661002	55	4.2	55	86	1	295	36	21	12	29	1.90
1661377--1661434	3	19.0	3	96	3	107	32	0	0	67	0.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1662797--1662863	31	2.2	31	97	0	125	38	13	26	20	1.90
1665432--1665498	31	2.2	31	83	2	91	20	31	13	34	1.92
1673474--1673516	20	2.2	20	86	0	59	62	6	0	30	1.21
1674517--1674859	174	2.0	174	94	0	596	25	22	15	36	1.94
1680596--1680631	19	1.9	19	94	5	65	27	0	0	72	0.85
1684718--1684776	25	2.3	27	82	11	86	25	22	11	40	1.88
1684725--1684784	25	2.4	25	85	0	93	20	21	15	43	1.88
1684833--1684937	51	2.0	52	90	1	167	31	8	28	31	1.87
1703350--1703396	16	2.8	16	81	12	51	68	0	17	14	1.22
1711834--1711885	26	2.0	27	92	3	88	19	0	28	51	1.47
1712300--1712339	13	3.1	13	88	0	62	10	45	27	17	1.80
1712953--1713037	31	2.8	29	79	15	91	18	8	3	69	1.29
1714258--1714295	19	2.0	20	89	5	60	31	7	2	57	1.41
1720291--1720337	21	2.2	21	96	0	85	21	10	25	42	1.85
1720907--1720970	30	2.1	30	97	0	119	26	14	12	46	1.79
1721865--1721921	30	1.9	30	96	0	105	31	26	21	21	1.98
1721923--1722048	32	4.0	31	78	11	139	30	19	19	31	1.96
1725664--1725711	23	2.0	25	84	8	64	50	2	14	33	1.55
1730595--1730644	14	3.4	14	79	20	57	20	6	0	74	1.03
1730610--1730652	22	2.0	22	86	9	61	23	9	0	67	1.19
1730639--1730672	14	2.4	14	85	0	50	26	5	0	67	1.13
1730997--1731043	23	2.1	21	84	7	58	36	14	14	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1731320--1731356	15	2.4	16	86	13	51	59	5	2	32	1.34
1731872--1731940	16	4.5	15	76	16	54	20	2	1	75	1.01
1731872--1731924	14	3.4	15	85	15	72	16	1	1	79	0.92
1731841--1731924	30	2.9	29	79	10	82	16	3	5	73	1.17
1731872--1731926	15	3.7	14	83	11	65	16	1	1	80	0.90
1731879--1731935	22	2.6	22	85	0	69	17	3	1	77	1.00
1731872--1731933	16	4.1	15	82	12	56	19	1	1	77	0.94
1731990--1732027	20	2.0	20	89	5	60	36	0	5	57	1.21
1735771--1735892	43	2.8	43	97	0	226	28	32	18	20	1.96
1736783--1736851	3	21.3	3	77	14	50	28	1	0	69	0.97
1736783--1736839	29	2.0	29	89	6	89	29	1	0	68	1.00
1736783--1736851	26	2.6	27	76	17	74	28	1	0	69	0.97
1736783--1736852	14	4.9	14	77	19	65	28	1	0	70	0.96
1738068--1738102	14	2.6	13	86	8	52	20	0	0	80	0.72
1748130--1749096	482	2.0	484	94	1	1692	34	14	15	35	1.89
1750472--1750539	3	22.7	3	100	0	136	66	0	0	33	0.92
1757416--1757484	36	1.9	36	90	0	111	42	18	11	27	1.85
1757943--1758032	43	2.1	43	91	0	144	31	8	25	34	1.87
1758788--1758824	19	1.9	19	94	0	65	51	5	32	10	1.60
1762892--1762969	41	1.9	41	82	10	97	34	12	23	29	1.92
1764322--1764593	137	2.0	135	82	4	332	34	21	16	27	1.95
1764768--1764869	43	2.5	42	77	16	106	34	31	15	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1764806--1765030	97	2.3	96	83	3	272	34	25	14	25	1.94
1764903--1765444	137	4.0	137	88	1	757	35	25	14	24	1.94
1764735--1765169	234	1.9	233	83	4	554	34	25	14	25	1.94
1766633--1766850	112	1.9	114	80	7	257	36	5	6	51	1.49
1770053--1770128	36	2.1	36	97	0	143	31	10	14	43	1.79
1770548--1770576	15	1.9	15	100	0	58	13	27	44	13	1.82
1774878--1774951	36	2.1	36	94	2	132	32	10	14	41	1.81

Tables:   1   2   3   4   5   6   7   8   9

The End!