genome.fa.s7938.2.7.7.80.10.50.1000.8.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: VEPZ01007938.1 Hibiscus syriacus cultivar Beakdansim tig00110348_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2808856

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

This is table  8  of  14  ( 1662 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)
1523086--1523136	22	2.3	22	96	0	93	25	17	39	17	1.92
1523291--1523336	20	2.3	20	96	0	83	17	13	26	43	1.85
1523310--1523401	40	2.3	39	81	5	103	22	14	28	34	1.93
1536017--1536065	20	2.5	20	82	0	62	36	22	16	24	1.94
1557422--1557538	45	2.6	46	83	4	139	24	17	8	49	1.74
1557507--1557964	237	1.9	237	90	0	736	29	22	9	38	1.86
1557507--1557964	79	5.8	79	90	0	664	29	22	9	38	1.86
1557983--1558169	68	2.8	68	90	1	295	31	24	12	31	1.92
1558517--1558744	59	3.9	59	84	4	300	30	22	13	34	1.92
1561785--1561895	3	37.3	3	92	5	190	33	0	0	65	0.99
1562673--1562802	46	2.8	46	86	11	194	33	10	19	36	1.85
1564394--1564502	40	2.8	39	80	4	130	23	20	19	36	1.95
1565928--1566021	35	2.7	35	90	1	136	31	7	22	38	1.82
1568064--1568097	13	2.6	13	95	0	59	73	2	14	8	1.19
1574242--1574271	15	2.0	15	93	0	51	70	0	0	30	0.88
1576422--1576461	19	2.1	19	90	0	62	10	32	0	57	1.32
1580902--1581002	23	4.6	21	70	16	71	26	18	23	30	1.98
1580902--1581004	44	2.3	44	90	3	163	27	19	23	30	1.98
1586268--1586422	64	2.4	64	77	7	163	31	17	22	28	1.96
1588423--1588452	15	2.0	15	93	0	51	33	36	0	30	1.58
1588403--1588447	21	2.1	21	87	0	63	33	31	2	33	1.70
1588403--1588451	18	2.7	18	78	6	55	32	34	2	30	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1590229--1590272	20	2.2	20	100	0	88	40	13	27	18	1.88
1591350--1591392	20	2.2	20	83	8	52	58	2	16	23	1.50
1593252--1593292	21	2.0	21	90	0	64	41	19	0	39	1.52
1595400--1595442	22	2.0	22	95	0	77	48	4	2	44	1.36
1597678--1598136	81	5.7	80	82	4	458	20	18	25	35	1.95
1597686--1598468	162	4.9	159	77	9	690	20	18	25	35	1.95
1598073--1598200	64	2.0	64	84	0	166	21	17	28	31	1.97
1598012--1598281	145	1.9	145	84	1	362	20	18	27	34	1.96
1598136--1598539	81	5.0	80	79	5	352	21	19	24	34	1.96
1597910--1598362	226	2.0	226	83	0	566	19	18	26	34	1.95
1597829--1598447	307	2.0	307	83	2	771	20	18	25	34	1.96
1597784--1598507	388	1.9	388	84	2	988	21	18	25	34	1.96
1598151--1598517	162	2.3	162	80	1	396	22	19	25	33	1.97
1605974--1606015	11	3.9	11	93	6	77	26	26	28	19	1.98
1605974--1606015	21	2.0	22	95	4	77	26	26	28	19	1.98
1608503--1608543	18	2.3	18	87	4	57	31	4	2	60	1.30
1608613--1608937	111	2.9	111	97	0	614	37	7	10	44	1.67
1611189--1611215	13	2.1	13	100	0	54	14	44	22	18	1.86
1613676--1613764	24	3.7	23	79	7	88	17	19	17	44	1.86
1613705--1613764	12	5.0	12	82	8	68	15	18	18	48	1.81
1614889--1614944	9	6.2	9	81	8	69	33	26	33	5	1.79
1614889--1614954	15	4.4	15	84	7	71	33	24	33	9	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1614889--1614944	6	9.3	6	82	7	69	33	26	33	5	1.79
1615050--1615138	48	1.9	45	86	6	124	21	5	4	68	1.28
1626974--1627002	13	2.2	13	100	0	58	13	0	0	86	0.58
1627020--1627172	11	13.5	11	68	18	55	24	3	0	70	1.08
1627059--1627083	2	12.5	2	100	0	50	48	0	0	52	1.00
1627100--1627163	6	10.2	6	72	21	51	18	3	0	78	0.89
1627083--1627163	14	6.1	13	71	16	51	18	4	0	76	0.96
1627083--1627165	29	2.9	29	78	18	84	19	4	0	75	0.97
1627091--1627238	33	4.5	34	69	22	95	21	2	2	72	1.09
1627097--1627172	17	4.5	17	77	9	75	22	2	0	75	0.93
1627180--1627241	23	2.7	23	74	16	58	24	4	1	69	1.17
1632051--1632799	84	9.0	84	81	4	759	31	23	19	25	1.98
1632051--1632791	168	4.5	166	83	4	852	31	23	19	25	1.98
1632727--1632860	69	1.9	69	83	3	171	29	25	20	24	1.99
1634254--1634334	31	2.6	30	76	16	76	17	6	2	74	1.14
1634290--1634396	8	12.8	8	69	16	65	18	4	0	75	1.03
1634294--1634371	14	5.8	13	73	21	56	20	3	1	74	1.05
1634290--1634396	17	6.4	16	71	15	74	18	4	0	75	1.03
1634290--1634438	8	18.5	8	69	21	64	19	3	3	73	1.11
1635601--1635714	60	1.9	59	87	3	165	35	6	25	33	1.81
1635601--1635757	57	2.7	56	83	5	163	36	7	24	32	1.82
1636366--1636393	13	2.2	13	100	0	56	25	21	25	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1642741--1642765	2	12.5	2	100	0	50	48	0	0	52	1.00
1647000--1647120	32	3.8	32	83	10	135	24	18	21	35	1.95
1648001--1648052	21	2.4	21	87	3	68	25	21	28	25	1.99
1652705--1652798	48	2.0	48	95	0	170	20	23	9	46	1.79
1670265--1670292	11	2.5	11	100	0	56	0	25	10	64	1.26
1672743--1672815	15	5.1	15	66	15	55	41	1	2	54	1.23
1672729--1672816	42	2.1	41	93	2	149	42	1	3	53	1.25
1673273--1673299	2	13.5	2	100	0	54	51	0	0	48	1.00
1674812--1675215	38	11.1	39	67	19	160	39	9	19	31	1.84
1674740--1675215	73	6.7	73	81	6	480	40	9	19	30	1.84
1674739--1675195	34	12.9	34	67	14	174	40	9	19	30	1.84
1674798--1675237	215	2.0	215	83	5	539	40	10	19	30	1.84
1679912--1680085	91	1.9	90	85	3	242	51	3	6	39	1.44
1680014--1680156	74	1.9	75	94	2	252	55	3	7	33	1.46
1689549--1689618	29	2.4	30	95	2	124	47	15	7	30	1.72
1689453--1689811	137	2.6	136	87	6	473	41	11	10	36	1.76
1689704--1689762	29	2.0	29	90	0	91	47	11	10	30	1.73
1694111--1694203	28	3.4	28	78	10	93	50	10	5	33	1.60
1699421--1699470	23	2.2	23	100	0	100	26	12	18	44	1.84
1703558--1703633	31	2.4	31	80	2	89	26	31	27	14	1.95
1703511--1703633	63	2.0	63	82	6	151	25	29	28	17	1.97
1706446--1706492	17	2.9	16	87	12	69	25	25	36	12	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1706446--1706494	8	6.1	8	84	15	66	24	26	34	14	1.94
1706467--1706548	13	6.3	13	79	12	80	18	20	43	17	1.88
1713227--1713268	21	2.0	21	81	9	50	23	19	2	54	1.55
1724360--1724392	17	1.9	17	88	11	50	51	18	0	30	1.46
1724960--1725002	13	3.1	13	75	18	50	34	20	23	20	1.96
1725030--1725072	19	2.3	19	95	0	77	34	25	23	16	1.95
1729052--1729196	35	4.1	35	84	3	184	35	16	24	23	1.95
1731758--1731827	3	24.7	3	88	11	112	32	0	0	67	0.91
1731761--1731827	14	4.8	14	85	12	93	32	0	0	67	0.91
1731823--1731858	11	3.2	11	92	4	54	61	2	0	36	1.11
1732332--1732398	5	12.6	5	81	12	80	76	2	20	0	0.92
1732332--1732398	21	3.1	21	87	8	91	76	2	20	0	0.92
1740549--1740599	20	2.6	19	87	6	66	31	5	27	35	1.81
1753048--1753081	11	3.1	11	95	0	59	20	44	20	14	1.87
1753591--1753629	2	19.5	2	100	0	78	51	48	0	0	1.00
1754167--1754219	21	2.4	21	78	6	52	32	18	5	43	1.74
1754824--1754881	20	2.6	22	89	10	84	25	22	20	31	1.98
1758221--1758273	21	2.4	21	78	6	52	30	18	5	45	1.73
1758858--1758915	20	2.6	22	89	10	84	25	22	20	31	1.98
1764878--1764911	16	2.1	17	88	5	52	52	0	0	47	1.00
1778685--1778760	31	2.5	30	85	6	98	59	6	0	34	1.24
1779675--1779724	2	25.0	2	100	0	100	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1786245--1786286	2	21.0	2	100	0	84	50	0	0	50	1.00
1792115--1792140	2	13.0	2	100	0	52	50	0	50	0	1.00
1795242--1795304	26	2.3	28	83	8	76	71	1	0	26	0.95
1795993--1796046	23	2.3	24	80	3	65	42	0	1	55	1.10
1796006--1796078	35	2.0	36	86	10	103	43	0	1	54	1.08
1796135--1796184	26	1.9	26	84	8	66	46	4	0	50	1.20
1796157--1796215	16	3.5	17	73	13	52	45	1	0	52	1.10
1804208--1806663	614	4.0	614	98	0	4794	32	16	13	37	1.88
1807381--1807422	20	2.1	20	90	0	66	42	7	14	35	1.73
1808303--1808567	44	6.0	44	91	0	431	40	12	21	25	1.89

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