genome.fa.s9014.2.7.7.80.10.50.1000.7.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: VEPZ01009014.1 Hibiscus syriacus cultivar Beakdansim tig00112402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3470424

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

This is table  7  of  13  ( 1552 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)
1502527--1502591	24	2.7	24	97	0	121	29	29	13	27	1.95
1506430--1506473	20	2.1	21	83	4	54	34	2	6	56	1.38
1506916--1506955	20	2.0	20	85	5	53	37	2	5	55	1.35
1507823--1507905	29	2.8	29	92	1	139	43	9	14	32	1.78
1512586--1512668	29	2.8	29	92	1	139	43	9	14	32	1.78
1522926--1522977	2	26.5	2	92	3	88	48	0	1	50	1.12
1533362--1533408	12	4.0	12	81	10	53	23	0	0	76	0.78
1546043--1546146	42	2.5	42	85	0	127	36	23	18	22	1.95
1546122--1546491	173	2.1	173	88	2	548	29	18	15	36	1.92
1546652--1546753	42	2.4	42	75	4	107	29	23	22	24	1.99
1546284--1546868	214	2.7	215	88	1	834	31	18	14	35	1.91
1546873--1547379	37	13.9	35	78	10	382	22	18	23	35	1.96
1547177--1547416	79	3.1	77	70	10	229	24	18	23	32	1.97
1546961--1547416	153	3.1	151	85	4	554	23	18	23	34	1.96
1547545--1547650	42	2.6	41	80	3	124	28	22	22	26	1.99
1547759--1547866	43	2.6	41	78	8	119	29	21	23	25	1.99
1550185--1550227	22	2.0	22	95	0	77	58	13	16	11	1.64
1557592--1557698	10	10.7	9	79	14	79	0	20	0	78	0.81
1557605--1557697	8	11.9	8	76	20	74	0	22	0	77	0.77
1557597--1557710	20	5.8	19	76	17	94	1	21	0	77	0.86
1557591--1557703	28	3.7	30	73	13	97	1	20	0	77	0.85
1557607--1557698	40	2.4	38	84	12	116	0	21	0	78	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1557597--1557698	29	3.5	29	82	16	106	0	21	0	78	0.75
1573274--1573340	26	2.6	26	82	0	80	26	16	5	50	1.68
1585903--1585941	17	2.3	17	100	0	78	43	30	10	15	1.80
1587564--1587605	21	2.0	21	95	0	75	26	28	21	23	1.99
1587712--1587777	19	3.6	18	87	4	87	36	13	10	39	1.80
1587932--1588537	54	11.2	53	81	7	528	35	16	13	33	1.88
1616605--1616633	3	9.7	3	100	0	58	34	0	0	65	0.93
1623586--1623625	21	1.9	21	94	0	71	12	25	37	25	1.91
1623608--1623666	23	2.7	22	79	10	68	20	25	30	23	1.98
1630199--1630249	20	2.5	20	100	0	102	33	33	5	27	1.81
1635653--1635719	20	3.0	21	77	14	57	29	4	8	56	1.50
1635798--1635849	22	2.3	23	83	9	72	50	1	0	48	1.12
1635868--1636031	59	2.8	60	77	11	187	30	25	5	38	1.79
1637440--1637576	54	2.5	54	78	9	136	43	26	10	20	1.83
1637811--1637841	2	15.5	2	100	0	62	48	0	0	51	1.00
1638025--1638057	6	5.5	6	92	0	57	39	15	15	30	1.88
1639470--1639616	69	2.1	70	82	5	172	38	19	13	28	1.90
1639470--1639616	36	4.2	35	80	7	156	38	19	13	28	1.90
1640454--1640892	51	8.6	51	81	2	452	38	20	7	34	1.79
1640627--1640703	25	3.0	25	68	17	77	36	19	9	35	1.84
1640454--1640894	152	2.9	153	85	3	541	38	20	7	34	1.79
1640846--1641003	51	2.9	55	74	10	153	39	25	5	30	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1640896--1641066	51	3.4	51	79	6	204	39	25	5	29	1.79
1640912--1641057	50	2.9	50	84	3	186	41	23	5	30	1.77
1640846--1641066	101	2.1	105	85	8	290	38	24	5	30	1.78
1644970--1645097	60	2.1	60	86	2	177	35	15	19	28	1.93
1646892--1646923	8	4.0	8	100	0	64	50	12	12	25	1.75
1653455--1653480	12	2.2	12	100	0	52	7	0	7	84	0.77
1653474--1653528	3	19.0	3	88	7	87	32	0	1	65	1.03
1654990--1655021	2	16.0	2	93	0	55	53	0	0	46	1.00
1660036--1660185	7	21.4	7	74	15	87	78	0	18	4	0.91
1660051--1660136	22	3.4	26	71	14	72	77	0	19	2	0.87
1660035--1660172	47	2.9	45	74	17	109	77	0	19	2	0.89
1660071--1660187	12	9.1	13	73	20	79	76	0	21	1	0.87
1660075--1660166	9	9.6	9	70	19	53	78	0	21	0	0.76
1660052--1660186	55	2.5	54	81	13	136	77	0	20	2	0.90
1662466--1662502	19	1.9	19	100	0	74	32	16	21	29	1.95
1674572--1674620	21	2.3	21	78	0	53	30	14	22	32	1.93
1678813--1679426	116	5.3	117	76	5	485	39	12	18	29	1.88
1679059--1679122	20	3.2	20	75	20	71	45	10	18	25	1.82
1678813--1679426	233	2.6	231	78	7	607	39	12	18	29	1.88
1683891--1683942	19	2.7	20	76	5	54	15	26	28	28	1.96
1683869--1683939	10	7.3	9	74	12	52	16	25	26	30	1.97
1683984--1684019	7	5.3	7	90	6	56	16	25	30	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1684424--1684449	10	2.6	10	100	0	52	19	50	19	11	1.77
1694930--1695296	131	2.8	130	86	2	488	40	16	9	33	1.81
1697308--1697400	3	31.3	3	75	2	89	61	2	0	36	1.08
1697328--1697393	27	2.4	27	97	0	123	59	3	0	37	1.13
1697308--1697400	27	3.5	27	86	1	116	61	2	0	36	1.08
1698920--1699001	42	2.0	42	82	0	101	36	21	20	20	1.95
1699502--1699596	29	3.2	29	92	1	154	17	26	27	28	1.98
1704562--1704607	18	2.6	18	89	0	65	17	52	19	10	1.74
1704566--1704629	31	2.1	31	87	0	92	17	45	21	15	1.85
1707097--1707179	24	3.5	24	75	9	80	18	19	16	45	1.85
1707134--1707190	12	4.8	12	80	8	71	15	17	17	49	1.81
1707111--1707190	24	3.3	24	84	3	99	18	17	16	47	1.83
1709018--1709105	6	14.7	6	86	0	122	22	14	27	35	1.93
1715103--1715353	127	2.0	126	87	2	360	33	23	15	27	1.95
1715896--1715961	22	3.0	22	80	8	64	72	0	25	1	0.93
1715929--1715964	10	3.6	10	92	7	56	72	0	27	0	0.85
1718011--1718134	42	3.0	41	80	3	115	25	21	22	30	1.99
1718074--1718134	20	3.0	20	72	13	61	27	19	22	29	1.98
1718303--1719296	37	26.1	37	68	12	260	35	21	18	24	1.95
1718375--1718680	116	2.6	116	90	2	472	34	22	19	23	1.97
1718491--1718833	153	2.2	153	90	1	508	34	21	19	24	1.96
1718644--1719181	116	4.6	116	89	0	806	34	21	18	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1718530--1719181	232	2.8	232	81	6	567	34	21	18	25	1.96
1718345--1718949	269	2.2	268	91	2	980	34	22	18	24	1.96
1719477--1719509	9	3.8	9	92	4	50	39	3	0	57	1.14
1723568--1723607	18	2.2	18	100	0	80	37	5	12	45	1.64
1725318--1725583	4	67.0	4	81	3	277	20	3	28	46	1.68
1726975--1727033	30	2.0	30	100	0	118	37	15	20	27	1.92
1733918--1733989	17	4.4	17	76	11	69	73	8	18	0	1.07
1733907--1733960	24	2.2	24	86	0	72	75	7	16	0	1.01
1733916--1734001	32	2.8	32	79	8	88	73	8	17	1	1.14
1734858--1734919	24	2.6	24	85	12	83	35	6	0	58	1.24
1735276--1735424	77	1.9	77	82	6	185	42	7	4	45	1.50
1736586--1736619	16	2.2	16	89	5	52	23	14	5	55	1.61
1738404--1738464	29	2.1	29	82	17	74	45	4	3	45	1.41
1750945--1751125	90	2.0	90	100	0	362	40	12	21	25	1.88
1753939--1754054	28	4.2	27	78	8	94	51	20	14	12	1.75
1764540--1764623	39	2.2	39	86	0	114	20	26	19	34	1.96
1764816--1764841	13	2.0	13	100	0	52	30	23	30	15	1.95
1764952--1765025	38	1.9	38	83	0	94	18	8	18	54	1.68
1774865--1774914	20	2.5	19	84	12	57	36	14	16	34	1.88
1785378--1785410	14	2.4	14	90	10	50	12	21	0	66	1.23
1796556--1797397	105	8.1	105	90	1	1277	32	25	19	22	1.98
1796556--1797342	312	2.5	313	93	1	1317	32	25	19	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1799512--1799544	14	2.4	14	90	10	50	12	21	0	66	1.23
1810262--1810313	23	2.3	23	75	0	59	36	5	32	25	1.80
1813802--1813844	20	2.2	20	86	0	59	34	18	13	32	1.90
1816018--1816089	22	3.3	22	82	0	99	20	18	27	33	1.96
1824342--1824415	22	3.3	22	90	3	121	22	16	28	32	1.96
1824341--1824412	23	3.2	23	90	4	119	22	16	30	30	1.96
1825818--1825918	43	2.3	43	82	1	130	46	7	19	25	1.77
1827532--1827598	30	2.2	30	83	2	80	32	14	13	38	1.86
1828645--1828698	21	2.6	21	100	0	108	24	25	25	24	2.00
1842243--1842292	18	2.7	18	90	3	73	20	14	34	32	1.92

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