genome.fa.s8010.2.7.7.80.10.50.1000.8.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: VEPZ01008010.1 Hibiscus syriacus cultivar Beakdansim tig00110472_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3152856

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

This is table  8  of  14  ( 1680 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)
1593671--1593725	26	2.0	27	86	6	76	47	5	1	45	1.36
1595205--1595236	2	16.0	2	100	0	64	50	0	0	50	1.00
1596014--1596180	59	2.8	60	79	3	158	32	23	5	37	1.79
1596229--1596346	60	2.0	60	81	9	143	32	6	29	31	1.83
1599939--1599976	15	2.5	15	91	0	58	15	44	0	39	1.47
1600058--1600103	16	3.1	15	84	6	58	28	2	2	67	1.14
1602813--1602892	35	2.3	35	79	12	85	55	10	8	26	1.62
1603148--1603184	18	2.1	18	89	0	56	2	29	24	43	1.68
1605221--1605305	26	3.1	26	70	12	71	67	3	0	29	1.08
1606597--1606665	21	3.3	21	81	0	93	37	26	18	17	1.93
1606734--1606776	6	7.3	6	92	2	70	30	51	18	0	1.47
1607259--1607324	32	2.1	32	97	0	123	36	13	12	37	1.82
1608294--1608372	29	2.7	29	69	7	70	49	8	12	29	1.71
1608294--1608483	58	3.3	58	82	0	218	47	11	12	28	1.75
1612135--1612397	123	2.1	124	83	4	325	28	17	19	34	1.95
1619381--1619445	20	3.2	20	88	0	94	32	24	9	33	1.87
1619853--1620096	132	1.8	132	94	0	434	18	26	21	33	1.96
1620129--1620189	3	20.3	3	86	0	86	39	1	0	59	1.08
1620127--1620198	9	8.0	9	87	3	92	41	1	0	56	1.07
1620614--1620643	15	1.9	16	93	6	53	73	3	23	0	0.98
1632968--1633043	10	8.1	9	81	15	84	84	0	15	0	0.63
1632968--1633043	18	4.1	18	86	6	107	84	0	15	0	0.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1632968--1633044	28	2.7	29	84	13	99	83	0	16	0	0.66
1632968--1633040	38	1.9	38	91	0	119	83	0	16	0	0.64
1634144--1634804	83	8.0	83	97	1	1231	28	13	21	35	1.92
1634144--1634804	165	4.0	166	97	0	1231	28	13	21	35	1.92
1635607--1636300	112	6.0	113	81	9	814	39	13	19	28	1.89
1635969--1636361	124	3.3	122	80	11	540	40	13	18	27	1.88
1635626--1636361	236	3.1	236	90	5	1081	39	13	19	27	1.89
1636613--1636670	3	19.3	3	92	0	62	44	0	0	55	0.99
1636604--1636670	27	2.4	27	95	5	116	44	0	0	55	0.99
1636655--1636718	34	1.9	33	83	3	83	54	3	0	42	1.16
1637097--1637130	17	2.0	17	88	0	50	73	8	14	2	1.19
1639764--1639871	23	5.0	21	67	23	71	42	2	0	53	1.21
1641340--1641380	21	2.0	21	95	0	73	19	4	24	51	1.66
1643760--1643856	44	2.2	44	81	3	115	39	24	14	21	1.91
1654190--1654288	49	2.0	50	88	2	146	20	36	29	14	1.91
1654269--1654311	19	2.3	19	92	4	70	16	32	34	16	1.91
1655000--1655792	132	6.0	132	96	0	1424	31	21	27	18	1.97
1657429--1657489	16	3.9	16	73	16	56	55	0	3	40	1.16
1657482--1657518	18	2.1	19	85	10	51	54	0	2	43	1.14
1658614--1659139	132	4.0	132	96	0	953	31	21	27	19	1.97
1659454--1659493	20	2.0	20	90	0	62	45	10	5	40	1.60
1660204--1660231	2	14.0	2	100	0	56	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)
1665318--1665390	3	24.3	3	77	5	76	58	0	0	41	0.98
1665538--1665970	76	5.7	76	96	0	803	35	23	18	22	1.96
1665912--1666243	45	7.3	45	88	4	488	33	19	23	24	1.97
1665912--1666243	138	2.4	135	86	5	488	33	19	23	24	1.97
1665912--1666261	183	1.9	183	94	1	621	33	19	23	24	1.97
1666323--1666522	36	5.5	36	68	2	148	38	14	18	29	1.90
1666308--1666538	73	3.2	73	95	0	408	36	13	20	29	1.91
1666537--1666859	167	1.9	165	92	2	540	38	13	13	34	1.84
1667790--1667892	54	1.9	53	90	2	161	23	22	16	37	1.93
1674371--1674413	22	2.0	22	86	9	61	62	4	13	18	1.48
1674443--1674483	14	2.9	15	82	10	52	58	9	17	14	1.62
1674443--1674483	6	5.9	7	81	18	50	58	9	17	14	1.62
1676801--1676855	26	2.0	28	86	10	78	70	0	1	27	0.97
1677357--1677394	17	2.2	18	85	4	51	44	0	2	52	1.14
1679495--1679563	3	23.0	3	79	5	77	59	0	0	40	0.97
1685308--1685387	40	2.0	40	95	0	142	21	13	13	51	1.76
1685322--1685405	40	2.1	39	80	6	89	27	11	11	48	1.75
1686884--1686957	38	1.9	38	81	10	89	41	5	1	51	1.33
1687296--1687361	23	3.2	23	61	34	58	34	3	4	57	1.34
1687278--1687363	39	2.2	39	100	0	172	34	2	4	58	1.32
1687829--1687876	22	2.1	23	85	11	64	52	6	8	33	1.57
1688617--1688683	2	33.5	2	91	5	109	50	1	0	47	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1691279--1691320	19	2.2	19	95	0	75	50	16	7	26	1.71
1692207--1692254	22	2.1	23	85	11	64	37	2	4	56	1.30
1697670--1697740	30	2.4	30	85	0	88	21	29	22	26	1.99
1700631--1700858	119	1.9	119	94	0	402	37	11	11	38	1.79
1707842--1707912	35	2.0	35	97	0	133	25	7	5	61	1.43
1709210--1709476	30	8.9	30	93	0	390	9	26	32	31	1.89
1719442--1719470	15	1.9	15	100	0	58	55	10	0	34	1.34
1720058--1720136	39	2.0	39	90	0	122	48	15	13	22	1.80
1722817--1722892	35	2.2	35	90	0	116	39	22	1	36	1.63
1723289--1723536	130	1.9	130	94	0	433	37	13	12	36	1.83
1724006--1724039	16	2.0	18	88	11	54	64	5	2	26	1.30
1724096--1724155	22	2.7	22	75	10	59	41	1	5	51	1.33
1724971--1725000	15	2.0	15	100	0	60	13	13	46	26	1.80
1728512--1728546	16	2.2	16	89	0	52	60	22	5	11	1.52
1728993--1729023	15	2.1	15	93	0	53	58	25	3	12	1.50
1728205--1729154	477	2.0	472	95	1	1715	32	29	16	21	1.95
1757943--1757984	20	2.2	19	86	4	57	64	2	0	33	1.07
1757850--1758088	120	2.0	120	82	6	290	46	7	7	38	1.63
1758171--1758203	3	11.0	3	93	0	57	63	0	3	33	1.10
1759485--1759591	44	2.4	44	95	0	187	23	15	39	21	1.92
1759995--1760352	139	2.6	139	87	2	524	27	18	14	39	1.90
1760425--1760887	261	1.8	251	81	8	583	26	18	14	39	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1761002--1761247	73	3.4	73	91	0	411	30	20	21	27	1.98
1761250--1761573	165	2.0	166	93	0	560	38	12	13	34	1.83
1762088--1762147	22	2.7	22	84	0	84	43	10	11	35	1.75
1768732--1768770	20	2.0	20	84	0	51	53	7	12	25	1.65
1770997--1771038	20	2.2	19	86	4	57	64	0	0	35	0.94
1770905--1771140	120	2.0	116	82	6	287	45	7	8	38	1.62
1771226--1771258	3	11.0	3	93	0	57	63	0	3	33	1.10
1772546--1772648	44	2.3	44	94	0	179	24	15	38	21	1.92
1775604--1775666	21	2.8	22	83	11	67	55	3	0	41	1.16
1775621--1775666	23	2.0	22	87	8	65	58	2	0	39	1.10
1775625--1775721	15	6.0	15	70	20	63	62	1	0	36	1.02
1785261--1785306	20	2.3	20	96	0	83	28	10	13	47	1.76
1789471--1789512	3	14.3	3	90	5	59	61	0	4	33	1.17
1789472--1789515	20	2.2	20	91	0	70	61	0	4	34	1.16
1792515--1792571	22	2.7	21	75	2	60	42	1	7	49	1.40
1800476--1800547	20	3.5	20	88	1	99	40	18	23	18	1.91
1800533--1800610	41	1.9	41	81	0	93	39	21	16	21	1.92
1800580--1800630	20	2.5	20	93	0	84	29	27	19	23	1.98
1800818--1800861	22	2.0	22	95	0	79	20	45	15	18	1.85
1801125--1801162	20	1.9	20	88	0	58	13	15	21	50	1.78
1802479--1802521	18	2.4	18	88	0	68	25	44	16	13	1.85
1803006--1803072	20	3.4	20	83	2	82	40	23	20	14	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1803061--1803118	14	3.9	14	79	16	71	48	24	17	10	1.78
1803045--1803123	32	2.4	33	95	2	142	46	22	18	11	1.81
1803130--1803267	19	7.8	19	74	15	91	13	20	22	44	1.85
1803152--1803209	14	3.9	14	79	16	71	10	17	24	48	1.78
1803135--1803225	32	2.8	33	93	3	157	12	17	21	48	1.80
1803211--1803264	20	2.8	19	88	5	81	16	24	24	35	1.95
1804975--1805010	14	2.6	14	90	0	54	30	0	22	47	1.52
1805096--1805133	20	1.9	20	94	0	67	39	23	21	15	1.92
1805128--1805195	19	3.8	19	85	14	101	47	17	22	13	1.82
1805221--1805291	20	3.5	20	100	0	142	15	23	26	33	1.95

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