genome.fa.s7725.2.7.7.80.10.50.1000.8.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: VEPZ01007725.1 Hibiscus syriacus cultivar Beakdansim tig00109972_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3026330

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

This is table  8  of  14  ( 1646 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)
1532093--1532148	17	3.1	17	68	22	51	19	23	8	48	1.77
1532025--1532479	104	4.2	110	91	6	759	29	18	14	37	1.90
1533135--1533490	127	2.7	130	94	4	630	38	23	13	24	1.91
1533397--1533686	50	5.9	50	94	2	498	38	23	13	24	1.91
1534812--1534882	9	8.4	8	74	20	56	2	16	0	80	0.83
1534812--1534885	5	15.0	5	74	17	66	2	17	0	79	0.84
1534812--1534881	21	3.1	21	82	15	79	2	17	0	80	0.84
1534811--1534883	14	5.4	14	80	9	80	2	17	0	79	0.85
1545323--1545374	17	3.1	17	81	8	61	71	1	0	26	0.97
1546052--1546086	12	2.8	13	87	12	56	57	0	0	42	0.99
1546982--1547021	19	2.1	19	95	0	71	0	32	17	50	1.47
1547507--1547616	3	36.7	3	92	0	184	62	0	2	34	1.09
1552179--1552236	2	29.5	2	92	3	100	48	1	0	50	1.11
1557727--1557785	31	1.9	31	96	0	109	47	10	5	37	1.59
1561690--1561732	21	2.1	20	86	4	59	27	0	25	46	1.53
1564196--1564248	26	2.0	26	85	7	72	37	18	5	37	1.75
1571478--1571512	17	2.1	17	89	5	54	31	14	2	51	1.57
1576214--1576243	15	1.9	16	93	6	53	56	0	0	43	0.99
1577902--1577932	16	1.9	16	100	0	62	25	12	6	54	1.62
1580789--1580844	29	1.9	29	85	7	78	42	5	3	48	1.43
1585015--1585073	29	2.0	29	100	0	118	20	23	22	33	1.97
1599927--1599954	12	2.3	12	100	0	56	35	7	14	42	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1601022--1601061	3	13.3	3	83	0	53	60	0	32	7	1.25
1603078--1603106	14	2.0	15	93	6	51	51	0	0	48	1.00
1603404--1603483	25	3.2	25	92	0	133	28	20	16	35	1.94
1622589--1622668	21	3.8	21	77	9	81	26	1	23	48	1.58
1627629--1627680	16	2.8	19	75	22	56	51	5	5	36	1.50
1627646--1627677	16	1.9	17	93	6	57	59	6	3	31	1.38
1628476--1628537	18	3.2	20	78	19	62	61	0	1	37	1.06
1628533--1628619	23	3.3	27	78	15	110	55	3	0	41	1.17
1628533--1628646	51	2.2	52	92	4	187	53	3	0	42	1.18
1628556--1628647	23	3.8	23	79	12	103	51	3	0	45	1.17
1629883--1629950	30	2.3	30	86	0	100	29	10	19	41	1.84
1631818--1631884	30	2.2	30	89	0	98	19	29	19	31	1.96
1635693--1635744	2	26.0	2	100	0	104	50	0	0	50	1.00
1638244--1638414	85	2.0	87	88	2	256	42	19	6	32	1.76
1638605--1638666	21	3.0	21	85	0	70	25	6	38	29	1.81
1642748--1642843	21	4.9	20	80	15	103	25	18	30	26	1.98
1642748--1642842	18	4.9	18	78	16	93	24	18	30	26	1.98
1643620--1643663	21	2.2	19	84	8	52	18	9	15	56	1.65
1646932--1647469	157	3.4	154	79	6	566	47	5	18	28	1.71
1647642--1647686	22	2.0	22	100	0	90	26	33	17	22	1.96
1654478--1654511	17	2.0	17	88	0	50	29	26	26	17	1.98
1659645--1659732	31	2.9	30	80	8	81	54	7	5	31	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1669561--1669615	21	2.6	21	79	0	74	38	30	9	21	1.85
1672871--1673191	162	2.0	159	97	1	606	34	20	10	34	1.87
1673837--1673927	36	2.4	36	85	12	114	26	39	21	12	1.89
1678578--1678634	21	2.6	21	83	5	60	21	14	12	52	1.73
1688328--1688360	4	8.2	4	100	0	66	51	24	0	24	1.48
1688911--1688940	14	2.1	14	100	0	60	30	26	6	36	1.82
1689419--1689479	23	2.7	23	73	14	63	44	19	16	19	1.87
1690550--1690582	2	16.5	2	100	0	66	51	0	0	48	1.00
1693598--1693624	14	1.9	14	100	0	54	7	7	18	66	1.40
1704260--1704284	2	12.5	2	100	0	50	52	0	0	48	1.00
1704645--1704685	20	2.0	21	85	4	57	53	4	2	39	1.35
1705727--1707238	756	2.0	759	99	0	2978	34	17	16	32	1.92
1708133--1708159	14	1.9	14	100	0	54	51	0	7	40	1.30
1710340--1710383	21	2.1	21	100	0	88	9	34	25	31	1.87
1710346--1710394	21	2.3	21	89	0	71	12	32	22	32	1.91
1712398--1712523	30	4.2	30	84	8	157	27	23	15	34	1.94
1712724--1712760	10	3.7	10	92	0	65	16	10	13	59	1.61
1712717--1712784	24	2.8	24	73	20	70	14	10	16	58	1.62
1713947--1714059	60	1.9	60	84	0	154	36	12	13	38	1.82
1713950--1714084	60	2.3	61	79	5	150	33	12	14	39	1.84
1718949--1719103	72	2.2	72	91	4	251	30	9	5	54	1.55
1719810--1719985	87	2.0	87	95	2	318	15	23	26	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1722173--1722244	21	3.5	20	80	3	90	45	18	23	12	1.83
1722246--1722281	18	1.9	19	94	5	65	11	22	25	41	1.86
1723984--1724447	184	2.5	186	96	2	877	22	12	19	45	1.84
1723984--1724447	93	5.1	93	97	2	877	22	12	19	45	1.84
1724495--1724623	19	7.3	19	75	17	125	45	28	17	8	1.77
1724531--1724623	33	2.8	32	91	4	150	46	27	18	7	1.76
1724495--1724623	52	2.5	52	74	14	140	45	28	17	8	1.77
1724641--1724697	14	3.7	14	77	20	60	10	21	22	45	1.82
1724624--1724716	33	2.8	33	95	0	168	10	20	21	47	1.80
1724619--1724733	19	6.6	19	73	18	106	10	20	23	46	1.81
1726653--1726688	14	2.6	14	90	0	54	30	0	22	47	1.52
1726796--1726911	19	6.4	19	86	11	172	45	17	22	14	1.84
1726814--1726929	52	2.2	53	96	3	218	43	18	24	13	1.86
1726943--1727132	14	11.6	16	74	22	89	13	22	18	45	1.84
1726936--1727132	32	5.9	33	76	17	210	13	22	18	45	1.85
1726958--1727118	19	9.4	19	74	22	162	14	21	18	45	1.84
1726936--1727088	52	3.0	52	96	3	283	13	23	17	45	1.84
1729402--1729426	12	2.1	12	100	0	50	0	28	0	72	0.86
1730328--1730557	20	11.5	20	85	1	237	19	18	24	36	1.94
1730544--1730626	21	4.0	21	70	6	69	25	15	24	34	1.95
1730524--1730622	42	2.4	43	77	11	100	21	17	23	38	1.93
1736548--1736588	16	2.4	16	88	8	55	58	7	0	34	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1739850--1739884	15	2.2	16	90	5	54	17	28	34	20	1.95
1741733--1741762	2	15.0	2	92	0	51	46	0	0	53	1.00
1743001--1743097	10	9.0	10	67	18	52	61	17	9	11	1.54
1742984--1743064	24	3.4	24	83	8	103	61	19	8	9	1.53
1743199--1743256	24	2.4	24	85	0	71	58	13	13	13	1.63
1754616--1754671	28	2.2	24	81	15	60	37	10	0	51	1.37
1754642--1754739	30	2.9	35	73	21	100	43	7	0	48	1.30
1754642--1754741	35	2.9	36	71	20	95	44	7	0	49	1.29
1754715--1754817	25	3.6	29	79	16	108	37	3	0	57	1.24
1754587--1754817	29	7.7	30	70	21	121	38	5	0	54	1.30
1754907--1754963	29	2.0	29	82	0	69	40	3	3	52	1.35
1757422--1757465	2	22.0	2	95	0	79	47	0	2	50	1.13
1757470--1757540	27	2.8	24	83	12	88	39	4	0	56	1.19
1757699--1757765	30	2.2	31	86	7	93	47	11	8	31	1.71
1763470--1763510	15	2.7	15	84	0	55	19	48	14	17	1.81
1763871--1764051	96	1.9	96	94	0	317	24	24	24	27	2.00
1770080--1770139	11	5.3	11	78	7	66	38	0	0	61	0.96
1773769--1773842	37	2.0	36	82	7	87	48	5	0	45	1.25
1782271--1782371	32	3.2	32	78	2	125	43	11	6	37	1.68
1785420--1785457	2	19.0	2	100	0	76	50	0	0	50	1.00
1790167--1790209	20	2.2	20	95	0	77	37	11	20	30	1.89
1792198--1792305	23	4.7	23	80	2	110	29	16	12	41	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1792198--1792308	46	2.4	45	81	1	123	29	16	11	42	1.83
1797733--1797758	2	13.0	2	100	0	52	50	0	0	50	1.00
1799138--1799189	21	2.4	21	75	9	52	38	9	5	46	1.61
1812921--1812964	14	3.1	14	93	0	79	36	6	6	50	1.56
1815169--1815240	29	2.5	29	97	0	135	47	0	13	38	1.44
1828595--1828634	3	13.3	3	100	0	80	0	32	0	67	0.91
1830257--1830286	15	2.0	15	93	0	51	40	16	26	16	1.90
1830957--1831096	69	2.0	69	100	0	280	37	15	7	40	1.75
1837929--1837965	19	1.9	19	94	0	65	24	16	18	40	1.90
1838869--1838930	2	32.0	2	93	6	110	50	0	0	50	1.00

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