genome.fa.s7979.2.7.7.80.10.50.1000.8.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: VEPZ01007979.1 Hibiscus syriacus cultivar Beakdansim tig00110418_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2767453

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

This is table  8  of  13  ( 1516 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)
1563679--1564908	414	3.0	414	92	1	1950	29	25	20	23	1.99
1563635--1564908	249	5.1	245	83	5	1524	29	25	20	23	1.99
1565444--1565482	2	20.0	2	89	5	62	48	0	2	48	1.15
1565465--1565913	36	12.6	36	73	15	276	45	3	5	45	1.41
1565465--1565913	72	6.3	71	75	18	305	45	3	5	45	1.41
1565801--1565867	30	2.3	31	84	7	86	52	5	2	38	1.41
1565932--1565997	29	2.4	28	83	16	77	19	4	3	72	1.15
1567871--1567914	12	3.4	14	76	23	60	13	11	15	59	1.62
1568100--1568211	23	4.8	23	83	6	127	11	11	17	58	1.61
1568159--1568236	10	7.1	10	73	18	57	11	14	17	56	1.67
1568123--1568236	47	2.4	47	85	0	129	11	13	17	57	1.64
1568442--1568532	45	2.0	45	97	0	173	48	4	7	39	1.52
1568854--1568924	30	2.3	31	87	2	99	43	2	2	50	1.31
1576811--1576862	17	3.1	17	88	5	70	48	0	0	51	1.00
1576851--1576888	13	2.8	13	88	11	51	31	0	0	68	0.90
1577021--1577091	28	2.5	28	77	11	81	53	0	1	45	1.09
1577460--1577493	13	2.6	13	85	0	50	64	0	0	35	0.94
1578025--1578054	15	2.0	15	93	0	51	50	6	26	16	1.70
1590445--1590484	14	2.6	15	84	15	55	40	2	0	57	1.12
1591914--1591984	36	2.0	36	91	0	115	46	15	9	28	1.77
1592676--1592779	34	2.9	33	83	11	109	19	12	9	58	1.61
1596943--1597090	72	2.0	73	88	1	217	41	15	18	24	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1597841--1597944	54	1.9	54	92	0	172	38	13	18	29	1.89
1599080--1599184	36	2.9	36	73	8	104	33	17	13	36	1.88
1599032--1599177	73	2.0	73	89	0	220	32	17	10	39	1.84
1599456--1599494	13	2.7	15	80	15	55	43	0	0	56	0.99
1599916--1600275	139	2.6	134	83	5	429	39	15	18	27	1.90
1600217--1600262	23	2.0	22	84	12	58	50	10	23	15	1.75
1599916--1600293	134	2.8	132	79	10	388	39	15	17	28	1.90
1601692--1601735	23	1.9	23	85	0	61	47	0	2	50	1.13
1601719--1601756	2	19.0	2	94	0	67	52	0	0	47	1.00
1601987--1602042	2	28.0	2	96	0	103	48	0	1	50	1.11
1604339--1604375	2	18.5	2	100	0	74	48	0	0	51	1.00
1605540--1605600	25	2.4	26	83	8	81	29	4	19	45	1.71
1608022--1608077	24	2.5	23	80	11	62	44	0	0	55	0.99
1613959--1614007	23	2.1	23	85	7	64	59	12	2	26	1.44
1617834--1617877	22	2.0	22	100	0	88	31	22	9	36	1.86
1619144--1619183	20	2.0	20	100	0	80	20	0	5	75	0.99
1619323--1619371	7	7.1	7	76	19	50	57	0	0	42	0.99
1619328--1619368	19	2.0	20	86	9	57	58	0	0	41	0.98
1619484--1619529	23	2.0	23	100	0	92	47	8	4	39	1.54
1621026--1621161	69	2.0	69	83	0	173	30	26	13	29	1.94
1622589--1622614	13	2.0	13	100	0	52	38	0	0	61	0.96
1634671--1634735	25	2.6	25	97	2	123	9	21	21	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1642076--1642104	2	14.5	2	100	0	58	48	0	0	51	1.00
1645870--1645919	23	2.2	23	88	0	73	24	12	4	60	1.49
1648084--1648138	12	4.5	12	79	9	58	52	0	0	47	1.00
1648084--1648138	18	3.0	18	86	7	76	52	0	0	47	1.00
1648087--1648122	9	4.0	9	88	0	54	50	0	0	50	1.00
1648611--1648858	20	12.4	20	90	0	325	35	22	19	22	1.96
1653203--1653252	23	2.2	23	88	0	73	24	12	4	60	1.49
1655417--1655468	16	3.5	16	70	24	51	55	0	0	44	0.99
1655936--1656183	20	12.4	20	90	0	325	35	22	19	22	1.96
1660520--1660569	23	2.2	23	88	0	73	24	12	4	60	1.49
1663217--1663450	20	11.7	20	89	0	324	34	23	20	22	1.97
1674472--1674501	2	15.0	2	100	0	60	50	0	0	50	1.00
1674623--1674648	10	2.6	10	100	0	52	0	65	7	26	1.20
1676380--1676493	59	1.9	60	90	1	185	52	20	7	19	1.70
1681101--1681156	22	2.6	21	83	5	67	41	25	0	33	1.56
1692704--1692730	3	9.0	3	100	0	54	66	0	33	0	0.92
1702448--1702496	23	2.2	22	82	10	55	34	2	2	61	1.19
1709516--1709568	21	2.5	21	84	0	70	20	26	18	33	1.96
1709552--1709586	18	1.9	18	100	0	70	28	28	20	22	1.98
1709595--1709619	13	1.9	13	100	0	50	32	24	24	20	1.98
1709608--1709681	21	3.6	21	94	1	123	40	17	22	18	1.91
1709576--1709640	34	1.9	33	90	3	103	35	20	23	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1709671--1709785	61	1.9	61	83	3	151	18	19	20	42	1.89
1709608--1709927	20	15.7	21	86	4	208	31	17	20	30	1.96
1710512--1710556	19	2.4	19	92	0	72	46	26	17	8	1.78
1710552--1710611	19	3.1	19	88	4	84	13	23	15	48	1.79
1710560--1710611	20	2.7	19	88	5	77	13	23	13	50	1.77
1712298--1712673	94	4.1	93	92	3	573	22	12	18	47	1.82
1712762--1712819	19	3.0	19	90	5	98	50	17	22	10	1.76
1712881--1712932	19	2.6	21	78	6	63	13	17	21	48	1.81
1713333--1713421	42	2.1	42	80	0	106	21	38	16	23	1.93
1714750--1714785	14	2.6	14	95	0	63	33	0	22	44	1.53
1714892--1714943	19	2.7	19	93	0	86	46	19	21	13	1.84
1714949--1715099	19	8.7	19	66	21	98	11	23	19	45	1.84
1714953--1715079	33	3.8	33	95	0	227	11	23	18	45	1.83
1715007--1715061	14	3.6	14	73	21	56	10	23	20	45	1.82
1715066--1715106	20	2.0	20	90	0	64	19	19	21	39	1.93
1715073--1715145	20	3.6	20	70	17	60	23	15	24	36	1.93
1717619--1717672	24	2.2	24	93	0	90	40	20	18	20	1.91
1717619--1717686	24	2.8	24	84	0	64	38	20	17	23	1.93
1718535--1718672	20	6.9	20	81	6	158	35	18	20	25	1.95
1718541--1718660	41	3.0	40	83	9	140	36	18	20	25	1.94
1718535--1718672	61	2.3	59	84	8	174	35	18	20	25	1.95
1718658--1718688	14	2.2	14	94	0	53	29	16	12	41	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1718679--1718773	20	4.7	20	78	2	100	23	20	17	38	1.93
1718672--1718773	40	2.5	41	88	1	152	23	19	17	39	1.92
1718770--1718815	21	2.2	21	88	0	65	36	17	28	17	1.92
1719744--1719800	18	2.8	20	80	20	66	28	31	17	22	1.97
1719786--1719824	20	2.0	20	90	5	62	25	25	25	23	2.00
1725581--1725687	23	4.8	23	70	17	82	29	24	16	28	1.97
1728423--1728461	20	2.0	20	95	5	71	25	28	25	20	1.99
1728659--1729396	368	2.0	368	100	0	1476	30	14	19	35	1.91
1729882--1729915	16	2.1	16	89	10	52	76	2	5	14	1.09
1729856--1729920	26	2.5	25	80	14	69	76	3	3	16	1.03
1729893--1729983	20	4.7	20	73	10	82	75	5	6	12	1.16
1729935--1729977	10	4.4	10	79	5	52	83	6	2	6	0.88
1729934--1730054	29	4.1	28	70	12	82	77	4	6	10	1.10
1730071--1730095	2	12.5	2	100	0	50	52	0	0	48	1.00
1730178--1730214	2	18.5	2	94	0	65	48	0	2	48	1.15
1736849--1736913	21	3.1	21	79	0	76	29	13	27	29	1.95
1738294--1738359	12	5.2	12	71	20	55	63	3	1	31	1.19
1745839--1745873	2	17.5	2	100	0	70	0	51	0	48	1.00
1763367--1763437	20	3.5	20	77	19	85	25	19	2	52	1.60
1769563--1769624	18	3.4	18	84	0	88	27	29	24	19	1.98
1769798--1769843	23	2.0	23	100	0	92	21	26	8	43	1.81
1770614--1770654	21	2.0	21	90	0	64	31	19	26	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1771524--1771578	20	2.8	20	97	0	101	21	32	25	20	1.97
1777300--1777359	23	2.7	22	84	5	68	21	36	25	16	1.94
1784705--1784740	7	5.3	7	93	6	65	58	0	0	41	0.98
1786635--1786678	23	2.0	23	86	4	63	15	25	45	13	1.83
1788837--1788883	18	2.6	18	82	0	67	27	27	23	21	1.99
1790228--1790290	30	2.1	30	84	0	81	39	4	17	38	1.71
1803623--1803678	24	2.3	25	87	3	78	19	1	7	71	1.18
1803628--1803678	25	2.1	24	88	3	75	19	1	7	70	1.21
1814447--1814487	22	1.9	21	85	14	57	58	14	9	17	1.62
1815522--1815730	75	2.8	75	84	4	242	23	32	23	21	1.98

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