genome.fa.s8319.2.7.7.80.10.50.1000.7.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: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4819703

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  7  of  21  ( 2487 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)
1476126--1476262	64	2.2	64	84	4	179	32	20	24	23	1.98
1481879--1481944	34	1.9	34	96	0	123	21	24	15	39	1.91
1487807--1487913	23	4.7	23	72	6	83	25	17	13	43	1.85
1502261--1502324	31	2.1	31	97	2	121	34	15	28	21	1.94
1502755--1502799	20	2.2	20	84	7	56	51	4	0	44	1.21
1502841--1502878	16	2.4	17	86	8	53	65	0	2	31	1.06
1504742--1504785	19	2.2	20	80	4	54	68	0	0	31	0.90
1513711--1513816	45	2.3	45	82	7	126	29	19	18	32	1.96
1521795--1521954	65	2.5	63	83	8	198	30	23	17	28	1.97
1524525--1524549	2	12.5	2	100	0	50	52	0	0	48	1.00
1524713--1524770	13	4.5	13	88	0	71	32	15	20	31	1.94
1526795--1526855	30	2.0	30	100	0	122	42	3	26	27	1.71
1532696--1532873	88	2.0	88	100	0	356	42	11	4	41	1.62
1542636--1542699	32	2.0	32	87	0	92	50	9	12	28	1.71
1544046--1544127	31	2.6	32	86	5	114	23	28	32	15	1.95
1544729--1544776	22	2.1	23	85	11	64	56	0	2	41	1.11
1544773--1544832	14	4.2	15	75	14	56	70	0	3	26	1.03
1544739--1544834	15	6.5	15	69	12	56	67	0	2	30	1.02
1544760--1544838	29	2.8	29	76	7	81	69	0	2	27	1.01
1546676--1546722	23	2.0	23	95	0	85	27	17	8	46	1.76
1546975--1547033	21	2.9	21	71	14	61	30	1	3	64	1.20
1551416--1552380	182	5.3	180	84	4	1258	44	13	15	26	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1551418--1552376	365	2.6	362	90	2	1460	44	13	14	27	1.83
1552429--1552730	157	1.9	157	97	0	568	45	13	12	28	1.80
1552966--1553033	19	3.6	19	91	0	100	47	0	14	38	1.45
1554285--1554340	24	2.5	21	78	18	67	42	1	5	50	1.35
1554980--1555018	18	2.2	18	95	0	69	53	2	38	5	1.37
1556372--1556421	19	2.6	19	90	6	75	32	0	8	60	1.26
1556787--1558082	199	6.5	199	91	0	1970	41	15	15	27	1.87
1556787--1558082	397	3.3	397	90	1	2004	41	15	15	27	1.87
1558427--1558484	15	3.7	15	83	6	71	20	51	1	25	1.57
1559618--1559661	3	14.7	3	80	0	52	40	2	31	25	1.68
1560903--1561649	200	3.8	197	84	6	967	41	14	15	28	1.87
1560903--1561649	392	1.9	398	84	6	1009	41	14	15	28	1.87
1563189--1563452	130	2.0	130	95	0	474	31	23	16	28	1.96
1565510--1566188	182	3.7	182	90	2	1035	43	14	15	26	1.85
1566590--1566709	64	1.9	64	87	3	179	30	10	13	45	1.78
1582106--1582148	21	2.0	21	81	0	50	27	27	25	18	1.98
1582797--1582888	23	4.0	23	88	0	121	20	26	25	28	1.99
1585981--1586078	50	2.0	47	94	5	169	34	26	7	31	1.83
1597245--1597308	28	2.3	28	100	0	128	3	18	10	67	1.34
1597263--1597312	15	3.5	15	72	10	59	6	18	12	64	1.47
1597723--1597803	3	27.7	3	78	9	87	61	0	0	38	0.96
1603748--1603851	57	1.9	53	86	7	145	25	2	1	69	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1603902--1603938	2	18.5	2	100	0	74	48	0	0	51	1.00
1603956--1604000	21	2.2	20	84	4	54	17	17	2	62	1.43
1606887--1606976	19	4.5	19	73	17	67	76	4	16	2	1.05
1606898--1606971	19	3.8	19	74	16	71	77	5	14	2	1.07
1606886--1606977	39	2.3	42	85	9	120	76	5	16	2	1.08
1608001--1608072	31	2.3	32	85	2	92	29	16	23	30	1.96
1608737--1608873	60	2.3	60	92	0	220	36	21	13	28	1.91
1609137--1609329	37	5.1	36	77	10	172	23	19	15	42	1.88
1609182--1609264	42	2.0	42	95	0	148	21	15	14	48	1.81
1609391--1609496	35	2.9	36	90	2	160	44	17	6	31	1.75
1610867--1610938	28	2.5	30	76	13	80	29	1	1	68	1.07
1616852--1616974	21	5.9	21	84	7	153	30	22	21	24	1.99
1616858--1616994	41	3.3	39	71	21	102	30	22	20	26	1.98
1616984--1617050	21	3.2	21	87	2	91	31	19	22	26	1.98
1617750--1617869	21	5.8	21	80	14	106	30	21	21	26	1.99
1617753--1617930	83	2.1	83	83	6	227	29	21	20	27	1.98
1617795--1617930	21	6.5	21	81	8	143	27	22	21	28	1.99
1617812--1617930	41	2.9	41	76	10	125	26	22	21	29	1.99
1627737--1627778	20	2.1	20	100	0	84	40	9	0	50	1.35
1630097--1630209	60	1.9	60	81	3	138	43	6	19	30	1.75
1633362--1633386	13	1.9	13	100	0	50	84	0	0	16	0.63
1640441--1640517	3	26.0	3	80	15	63	62	0	1	36	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1640441--1640516	8	10.0	8	72	16	63	61	0	1	36	1.04
1640441--1640497	11	5.3	10	78	14	60	64	0	1	33	1.04
1640809--1641292	123	3.9	121	78	14	521	26	17	16	39	1.91
1640795--1641274	259	1.9	259	89	3	761	26	18	15	38	1.91
1642325--1642364	18	2.2	19	86	13	57	57	5	10	27	1.52
1642702--1642747	17	2.6	17	86	3	65	8	8	0	82	0.84
1650605--1650652	19	2.6	19	93	3	80	33	18	25	22	1.97
1656802--1656865	26	2.5	26	74	20	64	60	1	4	32	1.26
1658182--1658290	3	37.0	3	85	10	154	66	0	0	31	1.04
1661029--1661059	16	1.9	16	93	0	53	51	0	0	48	1.00
1661380--1661412	2	16.5	2	100	0	66	51	0	0	48	1.00
1661728--1661757	10	2.9	10	95	5	51	0	13	0	86	0.57
1666627--1666653	5	5.4	5	100	0	54	81	0	18	0	0.69
1668361--1668385	11	2.3	11	100	0	50	40	12	16	32	1.84
1669866--1669928	32	2.0	32	87	6	92	34	28	15	20	1.94
1680189--1680230	10	4.4	9	88	11	66	11	23	33	30	1.91
1680189--1680238	19	2.6	19	90	6	75	14	26	32	28	1.94
1680189--1680238	10	5.2	10	86	11	61	14	26	32	28	1.94
1680204--1680246	19	2.3	19	79	0	50	18	32	27	20	1.96
1680236--1680265	14	2.1	15	93	6	53	20	56	20	3	1.56
1687548--1687572	13	1.9	13	100	0	50	20	56	24	0	1.43
1687568--1687592	7	3.6	7	100	0	50	16	32	28	24	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1691891--1691921	15	2.0	16	93	6	55	6	29	6	58	1.48
1706005--1706090	30	2.9	30	85	0	118	30	39	1	29	1.64
1707612--1707782	79	2.2	79	80	5	186	33	17	17	30	1.93
1708249--1708287	2	19.5	2	100	0	78	51	0	0	48	1.00
1713849--1713898	19	2.6	19	87	0	73	42	12	16	30	1.84
1714901--1715003	49	2.1	49	98	0	197	24	26	8	40	1.84
1716532--1716710	28	6.4	28	77	5	137	43	20	6	29	1.77
1716558--1716710	29	5.4	28	75	8	114	43	21	7	28	1.79
1716542--1716705	84	1.9	85	85	3	224	43	18	6	31	1.75
1716720--1716754	18	1.9	18	94	0	61	14	20	45	20	1.85
1723700--1723847	29	5.2	29	75	8	115	42	20	6	30	1.76
1723710--1723875	84	2.0	85	85	1	226	43	20	6	30	1.76
1726881--1726909	7	4.3	7	91	8	51	13	0	0	86	0.58
1726882--1726909	13	2.2	13	100	0	56	14	0	0	85	0.59
1727076--1727232	69	2.2	69	86	11	210	36	1	2	58	1.23
1727100--1727232	69	1.9	69	90	3	214	36	1	3	59	1.22
1727267--1727334	26	2.4	30	80	11	90	50	4	2	42	1.37
1727270--1727333	29	2.3	29	84	7	80	48	4	3	43	1.39
1728624--1728666	11	3.9	11	100	0	86	34	9	0	55	1.32
1745470--1745582	60	1.9	60	87	10	169	34	17	1	46	1.59
1748511--1748604	21	4.6	20	78	5	89	20	23	19	37	1.94
1748498--1748604	41	2.6	41	81	8	103	20	23	19	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1748594--1748687	20	4.7	20	82	2	125	40	19	20	20	1.92
1748539--1748626	41	2.1	41	81	4	97	25	21	19	34	1.96
1748597--1748687	41	2.2	41	86	1	121	41	18	19	19	1.90
1749257--1749293	14	2.6	14	91	0	56	40	21	24	13	1.89
1749313--1749412	33	2.8	33	80	11	110	11	23	18	48	1.79
1749349--1749412	20	3.1	21	74	17	71	10	23	15	50	1.76
1751096--1751367	94	3.0	92	87	7	380	21	12	17	48	1.80
1751455--1751516	19	3.2	19	88	4	97	51	17	22	8	1.71
1751461--1751526	19	3.4	19	83	6	80	48	21	19	10	1.79
1753479--1753514	14	2.6	14	95	0	63	33	0	22	44	1.53

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21