genome.fa.s7822.2.7.7.80.10.50.1000.9.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: VEPZ01007822.1 Hibiscus syriacus cultivar Beakdansim tig00110159_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1828853

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

This is table  9  of  10  ( 1099 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)
1617742--1617789	7	6.9	7	79	6	53	47	27	0	25	1.52
1617929--1618029	31	3.3	31	95	1	177	38	19	19	21	1.93
1618267--1618340	27	2.6	29	79	8	73	33	21	8	36	1.83
1622773--1622811	15	2.7	14	84	7	51	48	23	0	28	1.51
1622926--1623172	31	8.0	31	88	2	347	39	21	18	21	1.93
1627520--1627608	19	4.7	19	78	2	81	30	15	5	48	1.68
1639608--1639651	23	1.9	23	95	0	79	15	20	27	36	1.93
1639934--1639963	13	2.3	13	100	0	60	46	6	16	30	1.73
1640759--1640802	23	1.9	23	90	0	70	18	22	27	31	1.97
1641552--1641593	21	2.0	21	95	0	75	23	21	28	26	1.99
1641595--1641635	12	3.6	12	83	12	59	17	14	19	48	1.81
1651843--1651886	21	2.1	21	86	0	61	29	0	13	56	1.38
1651856--1651921	28	2.4	28	80	10	89	31	0	10	57	1.33
1652524--1652588	20	3.2	20	77	12	69	43	3	6	47	1.43
1653341--1653402	18	3.2	20	78	19	62	61	0	1	37	1.06
1653418--1653520	14	7.8	14	69	20	78	56	0	0	42	1.06
1653444--1653551	54	2.1	51	89	8	164	58	1	0	39	1.09
1653454--1653548	6	15.0	6	70	14	50	60	2	0	37	1.09
1653490--1653555	12	5.3	12	77	18	57	65	1	0	33	1.02
1656849--1656887	15	2.6	15	95	0	69	30	0	7	61	1.24
1657169--1657329	59	2.7	59	97	0	295	37	1	10	49	1.48
1657228--1657272	21	2.1	22	84	12	58	37	0	11	51	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1657308--1657377	14	5.1	14	79	10	72	45	1	11	41	1.49
1657294--1657395	41	2.5	40	76	6	105	44	1	8	45	1.46
1657516--1657573	11	5.1	11	82	13	64	43	0	13	43	1.44
1657882--1658119	11	19.7	11	66	25	58	39	2	11	46	1.52
1657878--1658023	59	2.5	59	94	0	247	38	1	10	49	1.47
1657920--1658008	21	4.4	21	69	21	82	38	0	8	52	1.33
1658000--1658036	14	2.7	14	88	12	51	37	0	13	48	1.43
1657979--1658058	35	2.3	35	93	0	133	38	1	10	50	1.44
1658014--1658074	21	2.9	21	75	15	63	40	1	11	45	1.50
1658035--1658119	14	6.6	13	69	23	56	42	3	11	42	1.58
1658231--1658274	23	2.0	23	90	4	72	34	9	9	47	1.67
1658303--1658342	17	2.5	15	88	8	53	45	0	2	52	1.14
1660859--1660964	37	2.6	39	81	14	126	49	11	0	38	1.45
1660974--1661013	21	1.9	21	100	0	80	57	15	0	27	1.38
1661304--1661353	22	2.2	23	89	7	75	42	18	22	18	1.90
1666452--1666477	7	3.7	7	100	0	52	38	0	0	61	0.96
1667584--1667633	22	2.3	22	92	0	82	40	8	14	38	1.75
1673390--1673464	21	3.6	21	72	5	62	26	37	14	21	1.92
1674005--1674061	26	2.2	26	84	6	71	28	3	7	61	1.39
1684214--1684370	53	3.0	53	87	0	224	33	8	20	37	1.82
1685069--1685358	21	13.5	21	74	13	166	30	22	23	24	1.99
1685083--1685317	62	3.6	62	80	11	301	31	21	23	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1685093--1685334	133	1.8	133	95	0	439	31	21	23	23	1.98
1685986--1686026	5	7.6	5	97	2	55	0	19	53	26	1.45
1685989--1686030	6	7.5	6	97	2	63	0	16	54	28	1.42
1686123--1686333	21	10.0	21	82	9	250	39	18	19	22	1.93
1694160--1694195	17	2.1	17	90	10	56	16	0	2	80	0.83
1694765--1694792	13	2.2	13	100	0	56	78	0	21	0	0.75
1701993--1702071	36	2.4	31	73	20	77	32	16	11	39	1.84
1702355--1702413	31	1.9	31	96	3	111	30	13	13	42	1.83
1702445--1702516	36	2.0	36	86	5	101	43	12	12	31	1.80
1702689--1702750	29	2.1	30	93	3	108	20	17	14	46	1.83
1702762--1702972	40	4.9	40	71	19	158	23	33	18	25	1.97
1702888--1703083	108	1.8	108	86	0	284	27	30	17	24	1.97
1703290--1703336	3	16.0	3	78	12	53	29	2	2	65	1.15
1706134--1706158	7	3.6	7	100	0	50	52	0	0	48	1.00
1706780--1706820	17	2.4	17	95	0	73	21	7	17	53	1.67
1708951--1709002	20	2.6	20	96	0	95	38	26	13	21	1.90
1709058--1709251	20	9.6	20	76	8	76	35	25	19	19	1.95
1709054--1709251	40	5.0	39	81	4	200	35	26	19	19	1.95
1709058--1709250	60	3.2	60	83	0	251	35	25	19	19	1.95
1709632--1709702	33	2.2	33	92	0	115	11	22	18	47	1.80
1709823--1709892	32	2.2	33	92	2	115	42	25	22	8	1.82
1709888--1709985	19	5.7	19	70	22	81	10	24	22	42	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1709910--1709999	14	5.7	14	74	23	81	8	25	23	42	1.83
1709893--1710007	33	3.5	33	95	0	212	9	24	20	45	1.81
1711704--1712174	93	5.1	93	97	1	903	22	12	18	46	1.83
1711704--1712174	185	2.6	185	98	0	917	22	12	18	46	1.83
1712218--1712313	19	5.3	19	78	13	103	45	28	16	9	1.78
1712309--1712443	19	7.6	19	75	16	128	11	19	23	45	1.82
1712331--1712387	14	3.7	14	77	20	60	10	21	22	45	1.82
1712314--1712406	33	2.8	33	95	0	168	10	20	21	47	1.80
1714343--1714378	14	2.6	14	95	0	63	33	0	22	44	1.53
1714485--1714567	19	4.6	19	80	17	113	43	18	24	14	1.87
1714596--1714888	19	16.4	19	83	14	392	14	20	18	47	1.83
1714574--1714888	52	5.9	52	87	9	330	14	20	18	46	1.83
1714596--1714860	128	2.1	122	84	12	194	14	21	16	47	1.83
1717167--1717191	12	2.1	12	100	0	50	0	28	0	72	0.86
1717366--1717412	24	2.0	24	87	8	69	38	21	14	25	1.92
1718095--1718463	20	18.5	20	86	5	451	20	18	26	34	1.96
1719400--1719455	19	2.9	19	75	0	58	35	19	3	41	1.69
1719429--1719471	19	2.3	19	88	8	61	30	16	4	48	1.66
1719512--1719571	30	2.0	30	93	6	104	33	6	16	43	1.74
1719661--1719741	21	4.1	21	74	20	84	23	38	25	12	1.90
1719688--1719717	15	2.0	15	100	0	60	26	33	26	13	1.93
1719775--1719819	22	2.0	22	100	0	90	13	46	26	13	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1719855--1719897	21	2.0	21	95	0	77	23	20	27	27	1.99
1719925--1719964	20	1.9	22	90	10	66	37	40	10	12	1.77
1720180--1720249	34	2.1	32	86	5	95	31	15	30	22	1.95
1722839--1722898	30	2.0	30	93	6	104	33	6	16	43	1.74
1722988--1723031	21	2.1	21	95	0	79	22	38	27	11	1.88
1723068--1723107	21	1.9	21	94	0	71	12	42	27	17	1.85
1723143--1723185	21	2.0	21	95	0	77	23	20	27	27	1.99
1723213--1723252	20	1.9	22	90	10	66	37	40	10	12	1.77
1728761--1728789	3	9.7	3	100	0	58	0	0	31	68	0.89
1732371--1732435	18	3.4	18	76	15	67	20	21	33	24	1.97
1738265--1738389	64	1.9	65	82	4	155	35	18	20	26	1.95
1740900--1740924	13	1.9	13	100	0	50	68	8	0	24	1.16
1741131--1741173	22	2.0	21	82	13	52	41	0	16	41	1.48
1749078--1749126	25	2.0	25	95	0	89	24	12	46	16	1.81
1751610--1751642	16	2.1	16	100	0	66	39	6	18	36	1.75
1763061--1763098	20	1.9	20	88	0	58	21	21	21	36	1.95
1763147--1763478	91	3.7	91	88	3	431	27	15	24	32	1.96
1763171--1763517	91	3.9	90	85	4	398	27	15	23	32	1.95
1763469--1763547	20	3.9	20	81	3	104	30	15	25	29	1.96
1763469--1763547	41	2.0	40	87	2	113	30	15	25	29	1.96
1763471--1763557	41	2.2	40	82	2	102	29	13	26	29	1.94
1763425--1763668	111	2.2	111	87	1	337	28	13	24	33	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1768154--1768464	43	7.1	44	74	5	162	50	6	17	26	1.69
1768691--1768729	20	2.0	20	85	10	53	74	7	0	17	1.05
1775774--1775811	2	19.0	2	100	0	76	50	0	0	50	1.00
1780379--1780416	16	2.5	15	91	8	67	47	5	31	15	1.68
1785592--1785698	31	3.5	31	85	5	137	27	16	17	38	1.92
1785592--1785713	31	3.9	30	84	6	136	27	17	18	36	1.93
1786304--1786354	21	2.4	22	90	3	77	21	23	31	23	1.98
1786389--1786443	20	2.8	20	88	0	83	25	18	18	38	1.93
1786389--1786455	20	3.4	19	81	8	80	25	16	20	37	1.93
1788198--1788605	137	3.0	137	84	3	500	43	13	11	31	1.80

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