genome.fa.s7845.2.7.7.80.10.50.1000.8.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: VEPZ01007845.1 Hibiscus syriacus cultivar Beakdansim tig00110201_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2731752

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

This is table  8  of  13  ( 1556 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)
1550776--1550927	78	1.9	78	88	2	225	32	22	13	31	1.92
1552402--1552427	2	13.0	2	100	0	52	50	0	0	50	1.00
1556845--1556904	23	2.6	23	100	0	120	16	26	20	36	1.93
1561377--1561434	26	2.3	25	85	5	82	67	3	6	22	1.30
1561405--1561468	20	3.6	20	67	32	56	67	3	7	21	1.31
1561377--1561437	25	2.4	26	81	5	81	67	3	6	22	1.29
1561401--1561467	33	2.0	33	94	5	118	68	2	5	22	1.25
1562847--1563020	73	2.4	72	91	0	267	39	12	16	31	1.86
1562901--1563036	35	3.8	35	74	8	130	40	13	15	30	1.86
1564794--1564842	2	24.5	2	95	0	89	48	0	0	51	1.00
1566650--1566702	27	2.0	27	100	0	106	37	9	26	26	1.87
1573759--1573786	2	14.0	2	100	0	56	50	0	0	50	1.00
1578706--1578997	147	2.0	143	90	8	426	40	7	21	30	1.80
1583389--1583435	23	2.0	23	95	0	85	23	21	19	36	1.95
1585150--1585188	15	2.6	14	84	11	51	12	12	0	74	1.08
1586271--1586339	28	2.4	29	82	2	86	14	11	5	68	1.38
1596076--1596101	1	26.0	1	100	0	52	100	0	0	0	0.00
1596315--1596984	105	6.4	105	98	0	1277	33	25	17	23	1.96
1607724--1608038	32	9.9	32	89	2	458	34	21	17	26	1.95
1612753--1613053	129	2.3	128	81	5	338	43	9	8	39	1.67
1614083--1614118	13	2.8	13	87	4	56	58	0	0	41	0.98
1615286--1615311	13	2.0	13	100	0	52	30	23	7	38	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1628011--1628050	6	6.7	6	100	0	80	52	15	32	0	1.43
1639027--1639103	39	2.0	39	94	0	136	20	2	14	62	1.43
1650522--1650591	36	2.0	34	83	10	88	51	1	4	42	1.30
1651260--1651350	38	2.4	38	98	0	173	52	16	7	23	1.69
1658641--1658730	29	3.1	29	95	0	162	15	32	34	17	1.92
1659324--1659367	21	2.1	21	91	0	70	29	0	15	54	1.42
1659344--1659406	28	2.2	30	91	5	103	31	0	11	57	1.34
1659910--1659954	21	2.2	21	84	4	56	35	0	8	55	1.31
1660215--1660273	26	2.3	25	75	18	66	47	8	3	40	1.51
1663158--1663500	26	13.7	26	81	12	312	44	2	10	43	1.52
1663103--1663611	124	4.2	124	94	3	853	43	2	9	44	1.49
1663308--1663567	97	2.4	106	83	15	317	43	2	10	43	1.50
1663564--1663599	11	3.4	11	88	3	56	36	0	5	58	1.22
1663557--1663643	38	2.4	37	81	9	99	41	3	3	51	1.35
1663171--1663643	12	37.9	12	69	16	92	43	2	8	44	1.49
1663524--1663627	14	8.1	14	74	16	55	42	2	5	49	1.41
1663580--1663653	38	1.9	38	83	5	96	45	5	4	44	1.45
1663835--1663867	17	1.9	17	93	0	57	36	6	12	45	1.66
1663781--1663860	24	3.3	23	71	21	67	38	3	8	48	1.52
1666016--1666046	15	2.1	14	94	5	53	54	6	0	38	1.26
1666021--1666067	16	3.0	16	84	9	53	59	10	0	29	1.31
1666108--1666189	34	2.5	34	83	13	93	48	13	0	37	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1666229--1666361	45	3.0	45	80	14	136	48	12	0	39	1.40
1666301--1666389	41	2.2	40	78	8	90	46	10	1	42	1.45
1666560--1666605	23	2.0	23	100	0	92	8	39	4	47	1.54
1666618--1666669	25	2.1	25	100	0	104	26	34	11	26	1.91
1666925--1666950	13	2.0	13	100	0	52	15	38	30	15	1.88
1667290--1667386	27	3.6	27	71	17	69	60	1	5	32	1.25
1668660--1668721	2	31.0	2	100	0	124	50	0	0	50	1.00
1676862--1676900	16	2.4	17	83	12	55	56	0	0	43	0.99
1678316--1678364	2	24.5	2	100	0	98	51	0	0	48	1.00
1680162--1680283	61	2.0	61	88	3	183	51	15	4	27	1.64
1687322--1687367	21	2.2	21	100	0	92	45	19	23	10	1.82
1717121--1717172	27	1.9	25	81	14	59	30	0	9	59	1.29
1724071--1724124	20	2.7	20	75	11	65	27	29	14	27	1.95
1724148--1724231	20	4.2	20	83	8	118	40	23	17	17	1.91
1724623--1724654	13	2.5	13	100	0	64	0	6	15	78	0.95
1726894--1726991	21	4.7	21	71	9	65	26	32	17	23	1.96
1728360--1728500	66	2.2	66	81	8	168	31	1	16	50	1.54
1728559--1728596	20	1.9	20	100	0	76	42	26	18	13	1.87
1728816--1728902	39	2.2	39	93	0	147	18	12	20	48	1.80
1729213--1729249	18	2.1	18	89	0	56	51	10	5	32	1.60
1729636--1729685	25	2.0	25	96	0	91	44	22	8	26	1.80
1729751--1729803	20	2.7	20	93	0	97	33	26	18	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1730122--1730157	18	2.0	18	94	0	63	16	2	25	55	1.55
1734904--1734980	23	3.5	21	76	11	75	18	23	31	27	1.97
1734919--1734981	22	2.8	22	83	7	74	19	23	33	23	1.97
1742929--1743099	20	8.6	20	70	15	122	26	14	25	33	1.94
1743231--1743263	2	16.5	2	100	0	66	51	0	48	0	1.00
1744133--1744668	133	4.0	133	83	3	623	25	16	30	27	1.97
1744598--1744719	51	2.4	51	82	5	140	22	13	31	32	1.92
1744732--1744811	28	2.9	28	83	5	101	46	15	15	23	1.83
1744983--1745088	36	3.0	35	75	9	99	34	12	20	32	1.90
1745244--1745318	30	2.6	29	89	4	107	45	14	8	32	1.74
1745519--1745613	36	2.6	36	80	11	102	38	11	20	29	1.87
1745661--1745694	16	2.1	17	88	5	52	50	11	17	20	1.77
1746162--1747089	8	116.6	8	97	1	1335	24	4	25	45	1.73
1747097--1747169	4	18.2	4	100	0	146	26	49	24	0	1.51
1747169--1747234	4	16.5	4	87	0	96	30	1	19	48	1.58
1759539--1759757	23	9.5	23	81	7	214	47	1	29	21	1.61
1761811--1761844	18	1.9	17	94	5	59	79	0	0	20	0.73
1761811--1761844	14	2.5	13	90	4	50	79	0	0	20	0.73
1763501--1763530	14	2.1	14	100	0	60	6	13	0	80	0.91
1767015--1767050	6	6.0	6	96	0	63	33	0	63	2	1.08
1768133--1768180	23	2.1	23	96	0	87	37	8	16	37	1.79
1768806--1769157	182	1.9	182	92	0	596	28	16	12	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1769868--1773189	199	16.5	199	80	9	3358	27	15	15	41	1.87
1771634--1771861	103	2.2	104	81	3	257	29	14	13	43	1.82
1771681--1771886	103	2.0	103	97	0	385	27	13	15	44	1.83
1771486--1772083	302	2.0	301	93	0	1036	27	14	14	42	1.85
1771784--1772372	197	3.0	198	94	1	1018	27	15	15	41	1.87
1771840--1772889	535	2.0	532	93	1	1807	27	15	15	41	1.87
1773535--1773583	19	2.6	19	83	3	64	57	10	0	32	1.32
1775126--1775163	12	3.2	12	96	0	67	13	44	0	42	1.43
1776620--1776658	18	2.2	18	86	9	53	41	7	5	46	1.55
1777658--1777722	23	3.0	22	84	6	87	27	27	27	16	1.97
1778028--1778298	135	2.0	134	97	2	479	29	19	5	46	1.72
1780272--1780320	19	2.6	20	87	12	77	38	18	0	42	1.50
1780706--1781911	183	6.6	182	86	2	1627	27	15	12	44	1.83
1780706--1781856	546	2.1	547	88	1	1684	27	15	12	44	1.83
1782424--1782451	2	14.0	2	100	0	56	50	0	0	50	1.00
1782973--1783017	2	23.0	2	90	4	74	46	0	2	51	1.13
1786751--1787088	85	4.0	85	81	4	389	37	19	6	36	1.79
1786751--1787061	167	1.9	167	87	0	460	36	20	7	35	1.80
1791634--1791801	59	2.9	56	78	12	168	46	6	16	30	1.72
1793735--1793759	4	6.2	4	100	0	50	24	0	0	76	0.80
1794412--1794436	2	12.5	2	100	0	50	48	0	0	52	1.00
1794440--1794499	16	3.9	16	71	22	56	35	0	8	56	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1794467--1794512	17	2.6	18	76	16	51	34	0	8	56	1.30
1797519--1797559	21	2.0	21	85	9	57	53	0	19	26	1.45
1797889--1797979	30	3.1	30	74	17	102	27	6	3	62	1.36
1797896--1797979	26	3.1	25	77	13	87	27	5	3	63	1.34
1798857--1798915	31	1.9	31	89	0	91	44	3	8	44	1.51
1798939--1799034	22	4.4	22	88	2	131	46	9	2	41	1.48
1798939--1799308	44	9.3	42	75	17	289	49	10	0	39	1.40
1799040--1799107	16	4.0	16	80	14	82	57	4	0	38	1.19
1799040--1799164	36	3.3	35	83	12	144	53	6	0	40	1.26
1799054--1799166	20	5.8	22	76	18	101	52	7	0	40	1.29

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