genome.fa.s8228.2.7.7.80.10.50.1000.10.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: VEPZ01008228.1 Hibiscus syriacus cultivar Beakdansim tig00110864_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3739947

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   

This is table  10  of  20  ( 2363 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)
1652935--1653092	64	2.5	64	95	3	282	29	1	17	51	1.56
1653147--1653192	20	2.3	20	96	0	83	39	26	17	17	1.91
1653175--1653247	34	2.1	34	82	5	85	23	16	20	39	1.92
1653257--1653331	34	2.2	34	82	0	87	32	22	17	28	1.96
1656655--1656693	16	2.4	16	91	0	60	64	0	5	30	1.15
1656880--1656938	19	3.0	19	82	5	73	33	11	20	33	1.89
1659376--1659467	6	15.0	6	75	13	73	64	5	1	29	1.23
1659376--1659467	9	10.0	9	77	15	73	64	5	1	29	1.23
1660378--1660420	21	2.0	21	82	8	52	69	2	4	23	1.18
1660378--1660435	18	3.2	18	79	18	59	72	3	3	20	1.14
1660398--1660426	15	1.9	15	100	0	58	75	0	3	20	0.94
1660395--1660442	15	3.3	14	85	8	51	75	2	4	18	1.07
1660421--1660477	26	2.2	26	81	9	62	61	5	1	31	1.28
1660437--1660541	39	2.7	38	76	12	104	50	5	1	41	1.37
1660534--1660952	38	11.1	38	82	9	454	45	6	5	43	1.51
1660541--1660919	113	3.3	113	88	6	495	44	6	5	43	1.52
1661207--1661691	168	2.9	168	90	1	731	24	19	25	30	1.98
1662816--1663075	100	2.6	98	89	4	373	32	20	17	30	1.95
1663150--1663224	29	2.5	30	80	4	98	34	12	34	18	1.88
1667401--1667433	16	2.1	16	94	0	57	66	0	9	24	1.20
1667399--1667507	14	7.7	14	67	21	50	67	1	10	20	1.29
1667579--1667616	9	4.3	9	83	3	51	73	2	2	21	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1667627--1667704	3	25.0	3	75	14	54	61	3	1	33	1.22
1667625--1667705	14	5.3	14	71	16	63	60	3	1	34	1.22
1668317--1668366	3	17.0	3	95	4	93	68	0	0	32	0.90
1668240--1668323	37	2.3	35	75	17	82	64	2	10	22	1.37
1669324--1669377	3	18.7	3	78	21	62	68	0	3	27	1.06
1669324--1669385	17	3.7	17	84	16	69	70	0	3	25	1.02
1669322--1669379	11	5.4	11	80	15	68	70	0	3	25	1.03
1669472--1669782	38	8.1	38	76	15	191	46	4	4	44	1.45
1669600--1669794	36	5.3	35	80	17	227	44	4	4	46	1.44
1669487--1669794	39	8.1	37	83	11	365	45	4	4	45	1.45
1669596--1669845	74	3.4	72	81	13	228	43	6	4	45	1.50
1670245--1670270	13	2.0	13	100	0	52	30	0	23	46	1.53
1675496--1676083	3	194.7	3	81	7	586	57	0	42	0	1.00
1686125--1686197	5	14.6	5	97	0	119	60	16	0	23	1.36
1687864--1687898	17	2.1	17	89	10	54	77	0	5	17	0.96
1688090--1688151	30	2.1	30	84	6	81	33	24	30	11	1.90
1689708--1689750	3	13.3	3	81	13	50	69	0	0	30	0.88
1689709--1689750	10	3.9	10	82	17	57	71	0	0	28	0.86
1689709--1689749	7	6.1	7	81	18	52	73	0	0	26	0.84
1689708--1689750	13	3.5	13	81	18	65	69	0	0	30	0.88
1690185--1690508	36	9.1	36	73	14	249	39	13	19	27	1.89
1690281--1690317	15	2.3	17	86	9	51	40	16	21	21	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1690433--1690519	36	2.4	36	90	0	120	39	11	21	27	1.88
1690594--1690834	124	1.9	124	91	1	394	24	17	26	30	1.97
1695190--1695225	17	2.1	17	89	0	54	83	2	2	11	0.86
1695239--1695292	22	2.4	23	81	12	67	75	0	7	16	1.01
1696109--1696147	3	12.3	3	84	10	51	69	0	0	30	0.89
1696110--1696147	10	3.9	10	93	6	69	71	0	0	28	0.87
1696110--1696146	19	1.9	19	100	0	74	72	0	0	27	0.84
1696963--1697000	19	2.1	18	95	5	67	65	5	0	28	1.14
1704983--1705030	20	2.5	20	89	3	71	31	22	20	25	1.98
1708678--1708715	10	3.8	10	80	13	51	36	10	18	34	1.85
1708683--1708721	20	2.0	20	94	0	69	33	10	20	35	1.86
1714466--1715047	101	5.8	101	72	9	347	37	12	12	38	1.81
1714401--1715260	202	4.3	198	79	6	692	36	11	13	37	1.82
1714896--1715216	101	3.2	100	77	4	270	37	9	13	39	1.78
1714401--1715268	403	2.2	403	79	2	931	36	11	13	37	1.82
1719156--1719194	19	2.1	19	100	0	78	33	10	15	41	1.81
1719563--1720275	186	3.8	187	85	1	856	34	16	7	41	1.77
1720855--1721193	26	14.4	26	69	20	248	20	22	9	46	1.80
1720855--1721018	46	3.6	46	91	3	267	21	21	10	46	1.81
1720921--1720992	20	3.3	20	68	20	63	22	23	11	43	1.85
1720887--1721135	118	2.1	118	91	3	403	20	23	10	44	1.82
1721005--1721181	46	3.8	46	89	0	282	19	24	10	45	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1720867--1721193	92	3.5	92	78	13	248	20	23	9	46	1.80
1720855--1721193	164	2.1	164	90	2	529	20	22	9	46	1.80
1720887--1721193	118	2.6	115	85	7	343	20	23	10	45	1.81
1721619--1721692	22	3.5	22	73	14	73	27	20	12	40	1.87
1727845--1728125	46	6.2	46	87	4	412	22	24	9	43	1.83
1727943--1728114	20	7.7	20	70	21	110	21	27	10	40	1.86
1727917--1728094	26	7.5	26	70	21	149	20	26	10	42	1.84
1729525--1729865	188	1.8	186	84	1	468	31	14	10	43	1.79
1735829--1735869	21	2.0	21	90	0	64	19	19	14	46	1.84
1735834--1735876	21	2.0	21	81	0	50	23	20	16	39	1.92
1736097--1736162	22	3.0	22	88	0	96	24	37	15	22	1.92
1736499--1736605	20	5.4	20	82	3	119	14	16	23	44	1.85
1738203--1738234	13	2.5	13	94	0	55	46	21	18	12	1.82
1739209--1739304	33	2.9	34	90	3	149	43	19	22	13	1.86
1739315--1739381	20	3.7	19	75	20	81	14	20	17	46	1.84
1739321--1739414	33	2.8	34	88	3	136	13	22	20	43	1.87
1739386--1739479	20	4.7	20	89	2	136	18	22	24	35	1.96
1742790--1742873	20	4.2	20	98	0	159	23	20	29	26	1.99
1742860--1742912	20	2.7	20	90	0	88	20	20	22	35	1.96
1742909--1742949	21	2.0	21	95	0	73	41	17	24	17	1.89
1744061--1744319	42	6.2	42	94	0	455	50	18	4	25	1.66
1744271--1744338	34	2.1	34	84	13	90	55	14	1	27	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1747430--1747468	21	1.9	20	89	5	60	53	7	0	38	1.30
1753410--1753434	13	1.9	13	100	0	50	56	0	0	44	0.99
1753818--1753875	19	2.9	19	77	7	62	58	0	1	39	1.08
1755239--1755286	21	2.2	23	85	7	64	12	12	12	62	1.55
1757562--1757600	2	20.0	2	94	5	71	48	0	0	51	1.00
1757565--1757598	17	2.0	17	100	0	68	47	0	0	52	1.00
1757563--1757601	19	2.1	19	100	0	78	46	0	0	53	1.00
1762677--1762871	75	2.5	76	83	8	225	20	10	22	47	1.80
1762833--1762957	65	1.9	66	86	4	182	23	11	18	47	1.80
1765141--1765218	30	2.6	30	97	0	147	39	14	10	35	1.80
1766920--1766994	38	2.0	38	91	0	123	42	8	14	34	1.75
1768010--1768160	77	2.0	76	94	1	266	42	18	11	27	1.85
1769653--1769692	21	2.0	20	85	5	53	67	2	0	30	1.04
1769558--1769794	121	2.0	120	83	5	300	45	7	8	38	1.62
1769818--1769859	20	2.2	18	87	8	57	64	0	2	33	1.07
1771308--1771388	3	26.7	3	83	12	103	65	0	0	34	0.93
1771323--1771388	21	3.1	21	93	2	114	68	0	0	31	0.90
1771798--1772263	113	4.1	113	91	2	765	30	20	14	35	1.92
1771619--1772263	339	1.9	332	86	8	915	28	19	14	37	1.91
1772284--1772463	76	2.4	76	92	0	288	32	21	20	26	1.97
1772728--1773420	113	6.1	113	89	2	1025	28	20	14	36	1.92
1772667--1773420	339	2.3	338	89	4	1147	28	20	14	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1774175--1774227	22	2.4	22	93	0	97	41	13	11	33	1.80
1778958--1779013	7	8.4	7	76	11	55	3	14	0	82	0.81
1778957--1779009	9	5.6	9	74	12	52	3	13	0	83	0.79
1778998--1779050	26	2.0	26	92	0	88	3	15	9	71	1.26
1782639--1782692	14	3.8	14	80	2	54	50	9	14	25	1.73
1784278--1784328	14	3.9	13	78	21	54	70	0	1	27	0.98
1784273--1784328	23	2.3	26	87	9	82	71	0	1	26	0.96
1784278--1784331	19	3.0	18	81	7	56	70	0	1	27	0.98
1784273--1784331	28	2.1	28	81	12	68	71	0	1	27	0.96
1784919--1784960	20	2.2	19	86	4	57	64	2	0	33	1.07

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20