genome.fa.s8495.2.7.7.80.10.50.1000.8.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: VEPZ01008495.1 Hibiscus syriacus cultivar Beakdansim tig00111338_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5120959

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  8  of  21  ( 2505 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)
1514001--1514087	35	2.5	34	80	12	97	57	8	6	27	1.53
1514082--1514106	13	1.9	13	100	0	50	72	0	8	20	1.10
1520220--1520264	24	1.9	23	86	4	63	68	0	0	31	0.89
1520222--1520297	29	2.5	29	83	12	82	65	2	1	30	1.14
1521297--1521338	14	3.0	14	100	0	84	42	0	35	21	1.53
1521547--1521584	16	2.4	17	82	13	53	18	47	7	26	1.76
1521557--1521588	16	2.0	16	100	0	64	18	50	6	25	1.70
1521923--1521952	2	15.0	2	100	0	60	50	0	0	50	1.00
1524289--1524369	21	4.0	21	77	6	87	25	25	19	28	1.99
1524604--1524659	29	1.9	29	88	0	85	41	16	7	35	1.75
1530547--1530602	29	1.9	29	92	0	94	41	17	7	33	1.77
1542678--1542758	35	2.3	36	89	2	119	43	23	1	32	1.62
1542821--1542873	21	2.5	21	96	0	97	47	33	0	18	1.49
1543273--1543571	146	2.0	149	91	2	487	47	8	5	37	1.58
1543739--1543818	35	2.3	35	86	4	108	33	1	21	43	1.60
1545239--1545623	37	10.4	37	76	10	313	43	5	10	40	1.62
1545253--1545622	75	5.0	75	81	7	398	44	5	10	39	1.62
1545590--1545632	22	2.0	22	90	0	68	41	2	9	46	1.48
1545590--1545631	20	2.0	22	86	9	61	42	2	9	45	1.49
1547926--1547960	12	2.9	12	91	0	52	20	2	2	74	1.08
1552155--1552189	18	1.9	18	88	11	54	22	2	20	54	1.58
1552528--1552604	23	3.6	21	83	11	86	29	19	22	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1556310--1556352	18	2.4	18	80	7	52	0	34	6	58	1.25
1558836--1558885	2	26.0	2	88	8	77	52	2	0	46	1.12
1558836--1558897	12	5.5	10	92	5	61	53	1	1	43	1.20
1559688--1559736	20	2.5	19	78	12	55	6	30	0	63	1.19
1560385--1560500	38	3.0	38	93	1	196	13	23	11	51	1.73
1567792--1569039	38	33.7	37	68	12	393	32	17	13	37	1.88
1567755--1569051	74	17.5	74	81	6	1461	32	16	13	37	1.88
1567773--1569052	149	8.6	148	87	4	1766	32	17	13	37	1.88
1568906--1569038	67	2.0	66	95	1	239	33	15	13	38	1.86
1581575--1581709	49	2.8	49	86	0	189	22	11	28	37	1.89
1581438--1581657	107	2.1	107	79	1	244	20	15	28	35	1.94
1589790--1589827	19	2.0	19	94	0	67	55	15	2	26	1.54
1591224--1591261	20	1.9	20	88	0	58	18	13	34	34	1.89
1597766--1597808	21	2.0	21	82	13	52	34	13	2	48	1.56
1606809--1606839	11	2.8	11	95	0	53	0	32	19	48	1.49
1607500--1607537	19	2.0	19	100	0	76	47	21	10	21	1.80
1610691--1611013	139	2.3	138	77	8	334	32	11	12	44	1.77
1611346--1611388	20	2.2	20	100	0	86	30	9	18	41	1.82
1627833--1627906	3	24.7	3	100	0	148	66	0	0	33	0.92
1628109--1628530	134	3.2	131	83	5	496	30	14	22	32	1.94
1630242--1630344	4	25.8	4	74	18	90	4	18	0	76	0.96
1630291--1630431	6	21.8	6	75	18	72	3	14	1	80	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1630241--1630429	14	13.6	14	75	17	112	5	15	1	77	1.00
1630382--1630432	13	4.0	13	79	2	59	9	1	0	88	0.60
1630382--1630431	19	2.6	19	87	6	75	10	2	0	88	0.61
1632682--1632833	77	1.9	81	80	10	181	42	5	8	43	1.57
1653220--1653532	157	2.0	159	97	2	594	36	12	11	39	1.79
1654788--1654829	21	2.1	19	86	8	57	33	11	23	30	1.91
1655364--1655745	46	8.4	46	83	3	443	43	13	20	23	1.87
1658812--1658836	11	2.3	11	100	0	50	84	0	0	16	0.63
1659024--1659187	66	2.5	66	88	0	247	32	17	12	37	1.87
1667544--1667569	7	3.7	7	100	0	52	42	0	0	57	0.98
1670752--1670781	12	2.5	12	94	0	51	30	3	0	66	1.07
1672502--1672891	45	9.6	43	67	23	251	36	12	24	27	1.91
1672524--1672879	79	4.5	79	90	1	570	35	12	24	28	1.91
1672934--1673098	46	3.6	46	90	0	267	47	10	21	20	1.80
1672960--1673085	20	5.7	20	72	20	90	46	11	23	19	1.82
1672852--1673065	118	1.8	119	86	1	313	45	10	22	21	1.82
1672861--1673019	72	2.2	72	87	0	228	45	10	23	20	1.82
1672861--1673019	26	6.6	26	70	16	126	45	10	23	20	1.82
1674867--1675332	232	2.0	232	91	0	761	34	10	21	34	1.87
1676863--1677229	45	8.9	43	73	19	250	35	10	25	27	1.89
1676908--1677184	79	3.5	79	90	0	410	34	10	25	28	1.90
1678320--1678740	134	3.1	134	80	3	456	31	15	22	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1680792--1680834	19	2.2	20	87	4	61	37	44	11	6	1.68
1688807--1688941	65	2.0	67	80	5	150	42	8	4	44	1.56
1698584--1698626	18	2.4	18	88	3	70	46	13	11	27	1.78
1698758--1698798	20	2.0	20	95	0	73	39	21	21	17	1.93
1698843--1698898	29	1.9	29	88	0	85	26	16	30	26	1.96
1703052--1703095	20	2.3	19	84	7	54	45	9	22	22	1.80
1711340--1711375	14	2.6	14	91	4	56	0	16	2	80	0.83
1718767--1720071	6	222.5	6	90	6	1887	46	37	0	16	1.48
1720072--1720431	6	60.0	6	85	4	422	23	46	13	17	1.83
1719410--1720622	6	203.8	6	87	5	350	37	38	7	16	1.77
1723654--1723980	133	2.4	134	87	2	442	29	16	23	30	1.96
1724289--1726051	233	7.6	233	83	4	2040	34	16	16	32	1.92
1725168--1725268	41	2.5	40	77	4	103	32	19	21	25	1.97
1724289--1726051	459	3.8	458	82	7	2007	34	16	16	32	1.92
1727884--1727987	3	35.7	3	94	5	187	65	0	0	34	0.93
1731643--1731680	20	2.0	20	89	5	60	31	21	10	36	1.87
1734675--1734713	2	20.0	2	94	5	71	51	0	0	48	1.00
1735343--1735377	9	3.8	9	88	7	52	82	0	14	2	0.77
1735343--1735380	20	2.0	20	89	5	60	81	0	15	2	0.80
1743407--1743437	2	15.5	2	100	0	62	48	0	0	51	1.00
1744041--1744553	55	9.4	54	81	5	482	38	16	14	30	1.89
1744040--1744553	162	3.2	160	81	6	541	38	16	14	30	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1744040--1744553	110	4.7	109	82	5	549	38	16	14	30	1.89
1749964--1750044	4	20.2	4	69	14	51	25	7	0	66	1.17
1749976--1750016	19	2.2	18	91	4	64	21	12	0	65	1.25
1749944--1750064	19	6.0	19	67	19	50	25	9	0	65	1.22
1770922--1770964	19	2.3	19	91	0	68	55	27	4	11	1.55
1775580--1775606	13	2.1	13	100	0	54	37	29	14	18	1.91
1776132--1776303	90	1.9	89	92	1	290	36	11	7	44	1.68
1793409--1793465	29	2.0	29	89	3	89	22	22	10	43	1.84
1793419--1793475	29	2.0	29	85	0	78	22	26	12	38	1.89
1798041--1798183	64	2.3	62	79	11	148	23	25	18	32	1.97
1801453--1801551	23	4.3	23	74	7	78	34	22	23	20	1.97
1806429--1806488	23	2.6	23	89	0	93	30	26	26	16	1.97
1808129--1808175	19	2.5	19	83	10	53	25	27	19	27	1.99
1808064--1808205	64	2.2	62	81	6	151	26	24	18	30	1.98
1811525--1811585	23	2.7	23	89	0	95	29	26	26	18	1.98
1813142--1813195	20	2.4	23	82	11	69	29	24	14	31	1.95
1816629--1816686	23	2.5	23	91	0	98	29	25	27	17	1.97
1818241--1818298	20	2.6	22	84	10	66	27	20	18	32	1.97
1818286--1818426	64	2.2	63	80	8	144	24	23	19	33	1.97
1818370--1818466	44	2.2	44	86	0	131	24	19	17	38	1.93
1819689--1819721	17	1.9	17	93	0	57	81	0	12	6	0.85
1819739--1819768	5	5.8	5	96	4	51	16	0	3	80	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1821421--1821518	18	5.5	18	75	16	87	21	10	1	67	1.26
1821421--1821464	19	2.4	19	92	3	72	15	13	2	68	1.31
1821421--1821517	19	5.4	18	72	19	62	20	10	1	68	1.25
1821413--1821516	53	2.0	52	84	1	136	23	9	0	66	1.27
1822733--1822765	15	2.2	15	100	0	66	30	6	21	42	1.77
1823168--1823212	17	2.6	17	76	13	56	44	17	6	31	1.75
1825091--1825147	24	2.3	26	77	20	68	56	0	0	43	0.99
1825109--1825148	19	2.1	19	85	0	53	55	0	0	45	0.99
1825147--1825212	12	5.6	12	87	3	89	25	48	15	10	1.77
1825147--1825212	23	2.8	24	83	4	89	25	48	15	10	1.77

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21