genome.fa.s389.2.7.7.80.10.50.1000.10.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: VEPZ01000389.1 Hibiscus syriacus cultivar Beakdansim tig00000715_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2672246

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   

This is table  10  of  15  ( 1688 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)
1485729--1485828	43	2.3	42	78	8	103	27	25	25	23	2.00
1487739--1487767	14	2.0	15	93	6	51	6	3	27	62	1.37
1488481--1488605	64	1.9	65	88	4	191	32	21	19	27	1.97
1491169--1491208	16	2.4	17	83	4	55	22	5	25	47	1.71
1491774--1491860	23	3.7	23	74	17	88	20	26	26	26	1.99
1496497--1496714	103	2.1	103	95	0	391	26	13	22	36	1.92
1496721--1496798	23	3.3	23	81	1	93	24	20	23	32	1.98
1505666--1505713	22	2.2	22	100	0	96	22	8	22	45	1.79
1505672--1505725	22	2.5	22	90	0	81	27	9	20	42	1.82
1513958--1513996	2	19.5	2	100	0	78	51	0	0	48	1.00
1533248--1533286	20	2.0	20	89	0	60	33	23	10	33	1.88
1538746--1538800	28	2.0	28	96	3	103	29	16	14	40	1.88
1549441--1549480	21	1.9	21	85	10	55	35	10	2	52	1.48
1558988--1559034	20	2.3	20	96	0	85	36	27	17	19	1.93
1559042--1559133	19	4.7	19	80	8	87	34	20	13	31	1.91
1559042--1559132	39	2.3	40	83	5	105	35	19	13	31	1.90
1559107--1559153	18	2.5	19	82	6	60	29	23	14	31	1.95
1559290--1559327	16	2.4	16	86	4	51	28	5	0	65	1.14
1562389--1562424	18	2.0	18	94	0	63	55	25	2	16	1.55
1562744--1562783	20	2.0	20	90	0	62	17	20	22	40	1.92
1562792--1562830	20	2.0	19	90	5	60	17	17	20	43	1.88
1562923--1563098	66	2.6	65	89	8	257	52	17	2	27	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1564426--1564544	42	2.8	42	81	5	132	21	21	36	21	1.96
1564446--1564544	21	4.7	21	77	8	103	21	21	35	22	1.96
1566758--1566797	20	2.0	20	85	0	53	15	12	22	50	1.77
1567132--1567188	22	2.6	22	80	0	69	19	15	42	22	1.89
1567294--1567550	20	12.7	20	80	8	202	19	15	23	40	1.90
1567294--1567550	60	4.2	60	77	11	245	19	15	23	40	1.90
1567702--1567759	20	2.9	20	87	5	82	41	6	0	51	1.28
1569281--1569327	17	2.7	18	78	15	53	46	0	2	51	1.13
1582174--1582225	25	2.1	25	100	0	104	44	7	21	26	1.79
1582169--1582231	25	2.3	29	76	21	89	44	6	20	28	1.76
1587455--1587669	103	2.1	103	93	0	367	27	13	22	36	1.92
1587686--1587753	23	3.0	23	88	0	91	22	27	25	25	1.99
1591424--1591499	29	2.6	29	89	2	116	26	2	2	68	1.16
1591403--1591499	29	3.3	29	80	11	101	29	3	2	64	1.20
1591576--1591654	31	2.5	31	82	12	81	44	3	0	51	1.19
1591673--1591846	37	4.7	37	94	2	289	54	0	5	40	1.25
1591795--1591854	29	2.2	26	77	16	66	55	0	5	40	1.22
1591695--1592001	66	4.7	63	78	15	240	53	0	3	41	1.26
1591802--1591916	55	2.1	57	86	6	164	53	0	4	42	1.21
1591807--1591936	30	4.6	28	77	15	133	53	0	3	42	1.19
1591808--1591940	55	2.5	54	78	15	120	53	0	3	42	1.19
1591734--1591956	121	1.8	123	81	11	280	52	0	4	42	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1591996--1592051	25	2.2	25	83	0	76	64	5	3	26	1.32
1592331--1592399	32	2.2	33	84	10	99	34	17	20	27	1.95
1608139--1608173	14	2.4	14	90	9	52	42	0	2	54	1.15
1610273--1610555	148	1.9	143	90	6	444	36	6	9	48	1.61
1611054--1611132	35	2.3	35	90	0	131	30	1	27	40	1.64
1616237--1616280	23	1.9	23	81	9	54	40	2	13	43	1.57
1617646--1617758	30	3.5	31	73	11	111	24	7	30	37	1.84
1618736--1618782	21	2.1	23	84	7	62	40	23	0	36	1.55
1619965--1620005	21	2.0	21	90	0	64	34	7	2	56	1.40
1620757--1620814	30	1.9	30	82	6	73	29	5	13	51	1.63
1631708--1631770	24	2.6	24	84	0	81	36	20	19	23	1.95
1636048--1636107	24	2.5	24	86	0	84	35	20	20	25	1.96
1637090--1637139	2	25.0	2	100	0	100	50	0	0	50	1.00
1637204--1637251	19	2.6	18	80	6	51	68	2	2	27	1.11
1638585--1639371	137	5.8	136	86	1	982	25	16	24	34	1.95
1638585--1639372	411	1.9	411	86	2	1116	25	15	24	34	1.95
1645406--1645455	24	2.1	24	85	7	66	60	14	2	24	1.45
1654436--1654485	24	2.1	24	85	7	66	60	14	2	24	1.45
1659349--1659444	31	3.1	31	80	3	95	38	22	14	23	1.92
1664549--1664644	31	3.1	31	81	3	113	38	22	15	22	1.92
1665408--1665469	25	2.5	24	92	5	106	24	25	24	25	2.00
1682794--1682913	61	2.0	62	85	5	163	31	17	18	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1682810--1682914	31	3.4	31	76	16	110	34	15	17	33	1.91
1683555--1683593	15	2.6	15	95	0	69	48	12	5	33	1.63
1683789--1683825	19	1.9	19	100	0	74	21	29	16	32	1.95
1688481--1688515	3	11.7	3	100	0	70	65	0	0	34	0.93
1689163--1689198	18	2.0	18	94	0	63	19	22	33	25	1.97
1689295--1689324	2	15.0	2	100	0	60	50	0	0	50	1.00
1695896--1695954	23	2.6	23	94	0	100	30	25	25	18	1.98
1697362--1697457	30	3.2	30	94	1	149	31	27	20	20	1.98
1697446--1697543	31	3.2	30	76	13	108	33	18	18	29	1.95
1698091--1698126	2	18.0	2	100	0	72	50	0	0	50	1.00
1698458--1698492	18	1.9	18	88	11	54	22	17	5	54	1.64
1699067--1699111	21	2.1	21	87	0	63	15	24	28	31	1.96
1700710--1700831	64	1.9	65	83	10	160	25	22	16	35	1.95
1704383--1704441	23	2.6	23	89	5	84	20	28	23	27	1.99
1704391--1704449	23	2.6	23	86	5	66	20	25	22	32	1.98
1719009--1719046	18	2.1	18	100	0	76	31	10	23	34	1.89
1729201--1729247	2	23.5	2	100	0	94	51	0	0	48	1.00
1729747--1730195	243	1.9	241	97	0	853	38	3	21	36	1.71
1733237--1733309	18	4.1	18	96	0	128	21	16	32	28	1.95
1738579--1738639	22	2.8	22	87	0	95	26	26	24	22	2.00
1739211--1739330	64	1.9	64	80	0	141	25	16	19	38	1.92
1740321--1740519	75	2.6	75	87	0	263	21	24	31	22	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1743117--1743157	20	2.0	20	90	0	64	12	26	39	21	1.89
1748885--1749081	75	2.6	74	84	4	243	21	24	31	22	1.98
1756151--1756312	64	2.5	63	80	5	173	24	24	19	32	1.97
1761898--1761937	21	1.9	21	89	0	62	35	27	20	17	1.95
1765754--1765803	21	2.4	21	96	0	91	60	0	20	20	1.37
1765886--1765920	18	1.9	18	100	0	70	17	20	34	28	1.95
1769201--1769284	23	3.7	22	81	6	89	28	25	22	23	1.99
1772294--1772333	17	2.4	17	95	0	71	40	0	25	35	1.56
1773680--1773708	15	2.0	15	93	6	51	34	0	24	41	1.55
1774145--1774243	32	3.1	31	82	4	108	29	20	19	31	1.97
1775250--1775283	17	2.0	17	94	0	59	32	5	17	44	1.73
1777501--1777553	24	2.2	24	86	0	70	30	24	24	20	1.99
1777686--1777738	15	3.5	15	86	0	70	41	20	3	33	1.70
1778701--1778747	19	2.5	19	83	10	60	57	29	4	8	1.48
1781878--1781982	51	2.1	51	96	0	192	22	11	18	47	1.80
1788238--1788275	19	2.0	19	100	0	76	42	21	5	31	1.75
1790013--1790096	39	2.1	39	82	10	100	22	8	25	44	1.80
1809863--1809905	21	2.0	21	81	0	50	30	30	25	13	1.94
1809932--1809972	21	2.0	21	90	0	64	21	31	31	14	1.94
1810446--1810749	150	2.0	148	94	1	536	26	16	21	35	1.95
1810728--1810770	21	2.0	21	86	0	59	20	25	25	27	1.99
1816802--1816844	21	2.0	21	81	0	50	30	30	25	13	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1816871--1816908	20	1.9	20	88	0	58	23	34	31	10	1.89
1817381--1817696	150	2.1	149	91	1	526	26	17	22	34	1.95
1817664--1817708	23	2.0	23	86	0	63	20	26	26	26	1.99
1819167--1819550	93	4.3	93	78	16	423	37	8	14	38	1.78
1819261--1819413	76	2.0	77	91	3	247	39	9	13	37	1.78
1819275--1819401	27	4.9	27	73	11	104	37	11	13	37	1.80
1819448--1819502	26	2.1	26	93	6	94	40	7	12	40	1.71
1819168--1819507	171	2.0	169	89	4	515	37	9	14	38	1.78
1819337--1819573	96	2.5	94	90	2	366	37	8	14	39	1.78
1819475--1819681	62	3.1	66	77	13	221	41	7	12	38	1.72

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15