genome.fa.s9625.2.7.7.80.10.50.1000.5.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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   

This is table  5  of  25  ( 2922 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)
1398996--1399047	16	3.1	16	81	13	52	75	1	19	3	1.06
1401200--1401239	20	1.9	20	85	10	53	32	7	32	27	1.85
1402574--1402603	13	2.4	13	94	5	53	26	30	0	43	1.55
1410474--1410513	19	2.0	20	90	4	64	20	15	0	65	1.28
1430076--1430116	21	2.0	21	85	9	57	39	14	4	41	1.67
1433525--1433583	24	2.5	24	75	5	57	30	22	25	22	1.99
1442269--1442343	34	2.2	34	92	0	123	36	9	14	40	1.78
1443253--1443303	24	2.1	24	92	0	84	27	25	13	33	1.94
1447775--1447824	23	2.2	22	86	10	66	26	8	0	66	1.19
1448077--1448126	14	3.9	13	73	21	52	78	2	20	0	0.86
1448071--1448126	19	3.1	18	82	17	71	78	1	19	0	0.84
1452360--1452411	21	2.5	21	87	12	72	26	7	0	65	1.20
1456435--1456460	10	2.6	10	100	0	52	0	26	0	73	0.84
1457841--1457882	20	2.0	22	86	9	61	45	11	21	21	1.84
1459253--1459309	26	2.2	26	84	9	73	7	19	3	70	1.26
1459271--1459327	23	2.7	20	79	20	62	3	17	3	75	1.09
1465872--1465967	30	3.2	30	86	0	138	27	23	13	35	1.93
1472760--1472789	13	2.4	13	94	5	53	43	0	30	26	1.55
1478843--1478886	1	44.0	1	95	0	79	0	0	2	97	0.16
1484805--1484842	18	2.1	18	90	0	58	21	10	36	31	1.87
1531348--1531372	11	2.3	11	100	0	50	8	8	32	52	1.60
1531365--1531460	30	3.2	30	90	0	147	26	27	14	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1532099--1532137	20	2.0	20	90	5	62	48	10	15	25	1.76
1546060--1546110	24	2.1	24	85	0	66	37	11	17	33	1.86
1549041--1549096	29	1.9	29	85	7	78	39	5	23	32	1.77
1552862--1552897	17	2.1	17	90	10	56	0	25	0	75	0.81
1552962--1552986	11	2.3	11	100	0	50	16	36	8	40	1.77
1553068--1553740	353	1.9	345	82	9	839	35	10	25	27	1.89
1554583--1554622	20	1.9	20	85	10	53	35	7	27	30	1.84
1555956--1555985	13	2.4	13	94	5	53	26	30	0	43	1.55
1563973--1564034	31	2.0	31	96	0	115	9	24	12	53	1.69
1568546--1568597	24	2.2	24	85	0	68	32	19	19	28	1.96
1570756--1570930	86	2.0	86	98	0	341	29	24	25	20	1.99
1572513--1572552	10	3.8	11	87	9	57	80	10	10	0	0.92
1572513--1572559	10	4.7	10	84	7	51	80	10	8	0	0.89
1576892--1576999	50	2.1	50	78	8	112	19	20	23	37	1.95
1577461--1577528	19	3.8	19	73	11	63	75	19	5	0	1.01
1587177--1587207	11	2.7	11	95	5	53	0	3	6	90	0.55
1597310--1597350	11	3.6	11	93	3	64	0	17	4	78	0.93
1597310--1597362	23	2.3	23	90	0	79	0	13	5	81	0.86
1597319--1597361	11	3.9	11	85	8	61	0	11	6	81	0.87
1597310--1597361	12	4.6	12	88	9	74	0	13	5	80	0.88
1599386--1599421	14	2.6	14	81	0	54	72	2	25	0	0.98
1605029--1605125	36	2.7	35	91	1	149	27	5	37	29	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1605053--1605112	25	2.6	23	72	27	56	28	5	35	31	1.79
1609081--1609130	24	2.1	22	82	14	55	0	16	6	78	0.95
1609518--1609614	36	2.7	35	93	1	158	27	6	37	28	1.81
1610466--1610504	15	2.5	16	87	4	53	53	0	28	17	1.44
1610652--1610719	35	1.9	36	90	3	111	29	2	35	32	1.73
1616316--1616383	35	1.9	36	90	3	111	29	2	35	32	1.73
1623971--1624055	11	7.2	11	71	22	57	30	38	3	27	1.73
1623968--1624064	36	2.7	35	90	4	149	28	38	5	27	1.78
1624516--1624562	14	3.1	15	75	12	51	72	6	19	2	1.17
1629687--1629771	11	7.2	11	72	22	57	30	37	4	27	1.77
1629684--1629780	36	2.7	35	92	4	158	28	37	6	27	1.81
1633056--1633107	24	2.2	24	82	0	59	30	19	21	28	1.97
1637464--1637515	23	2.2	25	86	6	72	65	0	7	26	1.20
1637597--1637626	13	2.4	13	94	5	53	26	30	0	43	1.55
1642191--1642266	35	2.2	35	92	0	125	39	23	1	35	1.63
1642664--1642911	130	1.9	130	91	0	406	36	14	13	35	1.85
1642678--1642942	130	2.0	129	81	4	300	39	12	13	34	1.82
1643214--1643276	28	2.3	27	78	8	63	46	1	3	49	1.27
1657735--1657759	2	12.5	2	100	0	50	52	0	0	48	1.00
1661408--1661517	34	3.2	35	85	5	152	28	36	3	31	1.75
1662222--1662282	26	2.3	26	91	2	95	26	36	0	37	1.57
1664838--1664883	20	2.2	21	88	3	67	78	15	6	0	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1669826--1669867	19	2.2	19	91	8	68	26	14	0	59	1.35
1670313--1670412	35	2.8	35	86	1	137	35	4	35	26	1.75
1670521--1670571	26	2.0	26	100	0	102	29	35	0	35	1.58
1689135--1689190	19	3.1	19	74	10	62	76	3	16	3	1.06
1693001--1693040	19	2.0	20	85	4	55	20	12	2	65	1.38
1693573--1693730	74	2.1	74	98	0	307	29	20	8	41	1.82
1696558--1696612	24	2.3	25	81	6	60	32	16	21	29	1.95
1704721--1704780	30	2.0	31	86	3	86	28	8	10	53	1.63
1705629--1705679	21	2.5	21	87	6	70	37	9	5	47	1.61
1708283--1708318	14	2.5	15	86	13	58	77	0	22	0	0.76
1711191--1711229	20	2.0	20	85	10	53	33	12	30	23	1.92
1741344--1741402	23	2.7	21	84	12	66	33	38	1	25	1.66
1741717--1741766	15	3.6	14	78	7	57	86	2	10	2	0.75
1744531--1744571	22	1.9	21	85	5	55	36	34	2	26	1.70
1744886--1744950	1	65.0	1	75	0	58	87	0	10	1	0.61
1746473--1746513	22	1.9	21	85	5	55	36	34	2	26	1.70
1746829--1746884	27	2.1	26	86	3	76	78	3	10	7	1.06
1753737--1753779	20	2.2	20	91	4	70	37	9	4	48	1.56
1756121--1756170	5	9.8	5	80	20	59	80	4	16	0	0.87
1756119--1756186	18	3.7	18	80	11	75	75	5	16	2	1.13
1761788--1761817	13	2.4	13	94	5	53	26	30	0	43	1.55
1769940--1769986	14	3.1	15	75	12	51	72	6	19	2	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1773342--1773421	35	2.2	37	91	4	128	31	37	3	27	1.74
1778953--1779030	35	2.2	37	88	4	115	32	35	3	28	1.75
1780633--1780674	5	8.6	5	89	5	68	0	19	0	80	0.70
1780630--1780682	19	2.8	18	88	8	79	1	18	0	79	0.83
1780633--1780683	24	2.1	24	89	7	77	1	17	0	80	0.81
1780639--1780682	18	2.4	19	92	3	72	2	18	0	79	0.83
1783858--1783897	12	3.2	12	83	16	55	82	2	15	0	0.77
1783858--1783897	13	3.2	12	89	7	53	82	2	15	0	0.77
1783859--1783895	8	4.3	9	80	13	51	81	2	16	0	0.81
1787783--1787822	12	3.2	12	83	16	55	82	2	15	0	0.77
1787783--1787822	13	3.2	12	89	7	53	82	2	15	0	0.77
1787784--1787820	8	4.3	9	80	13	51	81	2	16	0	0.81
1794594--1794633	21	1.9	21	84	0	53	17	27	20	35	1.95
1799659--1799705	16	2.8	16	81	12	51	68	0	17	14	1.22
1808755--1808855	36	2.8	36	90	1	159	29	3	33	32	1.76
1808773--1808837	13	5.4	12	72	18	55	29	3	33	33	1.73
1809198--1809248	19	2.6	20	87	3	68	45	5	15	33	1.71
1812324--1812354	11	2.8	11	95	0	53	3	12	0	83	0.75
1814727--1815102	188	2.0	190	98	1	731	21	22	17	38	1.93
1817973--1818074	36	2.9	36	91	1	161	29	3	34	32	1.76
1821318--1821342	11	2.3	11	100	0	50	16	36	8	40	1.77
1827461--1827532	23	3.2	23	90	3	112	12	15	13	58	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1833451--1833561	35	3.2	35	84	2	143	28	36	3	31	1.75
1833587--1833616	11	2.7	11	89	0	51	30	30	0	40	1.57
1838744--1839256	257	2.0	257	91	1	832	43	16	18	21	1.88
1842242--1842274	16	2.1	16	100	0	66	51	6	12	30	1.63
1845338--1845387	19	2.6	19	87	0	73	42	6	18	34	1.74
1846286--1846345	30	2.0	31	83	3	77	51	10	10	28	1.67
1847637--1847701	32	2.0	32	100	0	130	30	18	12	38	1.88
1849649--1849699	19	2.6	20	90	3	77	43	5	15	35	1.71
1856780--1856826	16	2.8	16	81	12	51	68	2	17	12	1.31
1858795--1858858	23	2.8	23	90	0	110	32	20	21	25	1.97

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