genome.fa.s7749.2.7.7.80.10.50.1000.7.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: VEPZ01007749.1 Hibiscus syriacus cultivar Beakdansim tig00110015_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1787532

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 889 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)
1440962--1441047	45	1.9	45	88	4	129	12	29	16	41	1.85
1441056--1441277	7	30.7	7	91	6	245	9	16	0	72	1.15
1441077--1441131	9	6.4	9	93	2	62	0	21	0	78	0.76
1441044--1441334	7	39.1	7	84	11	176	7	16	0	74	1.08
1441249--1441340	5	17.8	5	75	20	59	6	17	0	76	1.00
1441263--1441343	29	2.7	30	81	12	78	4	18	0	76	0.96
1463287--1463944	6	109.7	6	80	8	495	57	0	39	3	1.17
1463287--1463944	15	42.9	15	77	10	501	57	0	39	3	1.17
1464799--1464892	47	2.0	48	93	4	163	37	28	23	10	1.88
1471259--1471297	11	3.5	11	82	6	51	10	5	0	84	0.76
1471977--1472067	35	2.8	32	83	9	119	35	15	26	23	1.94
1471995--1472077	35	2.4	35	93	0	139	31	15	28	24	1.96
1473706--1473791	32	2.6	32	88	3	118	44	34	8	12	1.72
1474348--1474393	23	2.0	23	95	0	83	43	2	0	54	1.12
1474357--1474406	23	2.2	22	82	13	57	42	8	0	50	1.32
1477363--1477389	2	13.5	2	100	0	54	51	0	0	48	1.00
1480282--1480359	31	2.5	31	81	8	104	37	8	24	29	1.86
1482641--1482715	31	2.4	31	84	0	87	36	14	22	26	1.93
1482817--1482891	17	4.5	17	75	9	64	46	1	0	52	1.09
1483594--1483641	18	2.5	19	80	10	62	43	0	0	56	0.99
1491619--1492866	623	2.0	621	93	0	2113	27	14	21	35	1.93
1493563--1493639	21	3.6	21	75	6	82	29	27	18	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1493555--1493647	44	2.1	44	91	0	150	32	23	18	25	1.97
1496678--1496717	21	1.9	21	85	10	55	57	2	27	12	1.48
1498861--1498898	20	1.9	20	100	0	76	31	21	23	23	1.98
1502891--1503032	65	2.2	63	84	8	180	33	16	22	26	1.96
1505939--1506153	103	2.1	103	95	0	385	26	13	25	35	1.92
1506524--1506555	2	16.0	2	93	0	55	46	0	3	50	1.17
1510741--1510783	21	2.0	21	81	0	50	27	30	25	16	1.97
1511623--1511824	104	1.9	104	95	0	368	27	11	23	37	1.89
1511858--1511910	23	2.3	23	90	0	79	24	20	22	32	1.98
1511866--1511912	23	2.0	23	95	0	85	21	19	27	31	1.97
1518687--1518726	21	1.9	21	89	0	62	25	40	25	10	1.86
1522578--1522602	11	2.3	11	100	0	50	20	24	36	20	1.95
1550853--1550877	2	12.5	2	100	0	50	48	0	0	52	1.00
1557678--1557717	14	2.9	14	82	14	55	37	15	5	42	1.68
1557794--1557862	23	3.0	23	91	0	111	27	26	26	20	1.99
1564679--1564747	23	3.0	23	86	0	93	27	26	26	20	1.99
1564957--1565026	30	2.3	30	90	0	113	35	21	2	40	1.68
1582338--1582374	18	2.1	18	89	0	56	56	0	0	43	0.99
1584532--1584599	7	10.0	7	80	13	63	79	0	17	2	0.86
1584529--1584599	13	5.5	13	79	11	74	80	0	16	2	0.83
1584529--1584597	6	11.7	6	79	15	65	81	0	15	2	0.81
1585415--1586493	232	4.7	233	89	1	1614	32	16	16	33	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1585415--1586489	466	2.3	464	89	2	1640	32	16	16	33	1.92
1586626--1586693	20	3.3	19	69	15	55	23	23	22	30	1.99
1586310--1586685	192	2.0	191	89	0	572	32	17	15	34	1.91
1587467--1587535	23	3.0	23	84	0	102	30	26	26	17	1.97
1588955--1588998	21	2.1	21	86	0	61	15	25	27	31	1.96
1589853--1589908	20	2.7	20	77	5	58	26	19	26	26	1.99
1589854--1589949	42	2.3	41	83	5	113	28	21	22	27	1.99
1590276--1590624	134	2.6	133	86	4	477	30	23	17	28	1.97
1601975--1602032	30	1.9	30	89	0	89	8	43	8	39	1.66
1604143--1604180	3	12.7	3	88	0	58	68	26	0	5	1.11
1604146--1604180	12	2.9	12	100	0	70	68	25	0	5	1.11
1610836--1610885	20	2.7	20	77	20	54	58	2	2	38	1.21
1611517--1611552	16	2.2	16	95	0	63	25	2	0	72	0.98
1625506--1625549	3	15.0	3	86	13	65	34	0	0	65	0.93
1632333--1632372	2	20.0	2	100	0	80	50	0	0	50	1.00
1634485--1634521	12	3.1	12	100	0	74	59	0	8	32	1.27
1638902--1639318	208	2.0	208	100	0	834	30	20	13	35	1.91
1641059--1641118	32	1.9	31	86	10	86	33	1	1	63	1.14
1641336--1641379	22	2.0	22	95	0	79	54	11	13	20	1.69
1643293--1643359	30	2.3	31	75	17	79	38	1	2	56	1.24
1644053--1644119	21	3.2	21	75	12	66	19	28	22	29	1.98
1644623--1644695	34	2.1	34	92	0	119	49	6	6	36	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1644803--1644833	14	2.2	14	100	0	62	58	16	0	25	1.38
1644918--1645008	23	4.3	22	65	18	66	38	16	1	43	1.55
1644902--1645026	63	2.0	63	88	3	189	37	18	0	43	1.56
1645158--1646489	139	9.6	138	91	1	2123	32	23	21	22	1.98
1650337--1650439	21	4.9	20	70	12	55	33	24	17	24	1.96
1650407--1650619	20	10.6	20	86	5	286	34	27	19	18	1.95
1650999--1651069	33	2.2	33	94	0	124	11	23	16	47	1.79
1651149--1651254	20	5.6	20	73	17	100	46	18	21	13	1.83
1651209--1651265	14	3.7	14	75	20	60	43	22	24	8	1.81
1651202--1651281	33	2.4	33	95	0	142	47	22	21	8	1.78
1651299--1651355	14	3.7	14	70	20	51	7	24	22	45	1.77
1651282--1651362	33	2.5	33	97	0	153	8	22	19	49	1.75
1651343--1651403	21	3.0	21	75	4	70	14	22	14	47	1.81
1651306--1651402	20	5.2	20	68	18	82	12	23	16	47	1.80
1653089--1653403	93	3.4	93	97	0	605	22	13	19	45	1.85
1653519--1653575	14	3.7	14	72	20	51	43	24	22	8	1.81
1653501--1653629	33	3.7	33	86	6	141	45	27	17	8	1.78
1653533--1653629	19	5.4	19	84	12	132	46	28	17	7	1.75
1653625--1653797	19	9.6	19	75	12	150	10	20	23	45	1.82
1653625--1653797	33	4.8	38	79	8	159	10	20	23	45	1.82
1655719--1655754	14	2.6	14	95	0	63	33	0	22	44	1.53
1655861--1655958	19	5.4	19	84	13	143	45	17	22	14	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1655861--1655977	34	3.4	33	90	8	171	44	17	23	13	1.85
1655973--1656162	53	3.6	53	88	6	264	13	23	16	45	1.83
1655991--1656204	34	6.2	33	79	14	136	13	22	18	45	1.83
1655991--1656204	86	2.5	86	95	3	378	13	22	18	45	1.83
1656077--1656223	53	2.8	53	82	8	149	13	21	19	45	1.84
1658474--1658498	12	2.1	12	100	0	50	0	28	0	72	0.86
1658673--1658719	24	2.0	24	87	8	69	38	21	14	25	1.92
1659412--1659617	20	10.4	20	81	8	199	19	17	26	36	1.94
1660530--1660581	22	2.4	22	87	6	70	51	0	11	36	1.38
1662601--1662735	70	1.9	71	86	3	191	25	17	15	42	1.88
1662804--1662898	18	5.0	18	68	18	50	48	1	1	49	1.15
1663530--1663628	31	3.2	31	77	11	114	45	2	5	47	1.36
1663545--1663626	30	2.7	30	88	1	119	46	2	2	48	1.28
1664583--1664763	90	2.0	90	96	0	335	36	20	12	30	1.89
1665818--1665854	20	1.9	19	89	10	58	51	10	18	18	1.75
1681223--1681264	22	2.0	21	85	4	57	47	4	0	47	1.23
1681256--1681357	27	3.6	27	77	10	89	39	0	1	57	1.16
1687769--1687812	16	2.7	17	75	10	56	65	0	0	34	0.93
1691855--1691943	37	2.4	37	88	1	124	14	10	38	37	1.80
1692498--1692542	18	2.6	18	82	13	58	31	22	8	37	1.85
1693600--1693627	12	2.3	12	100	0	56	71	0	0	28	0.86
1693653--1693697	21	2.0	24	87	12	69	53	4	2	40	1.33
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1693652--1693702	21	2.4	20	81	18	59	52	3	1	41	1.31
1695649--1695777	20	6.3	20	72	9	100	41	18	20	18	1.90
1695666--1695741	21	3.7	20	80	3	89	42	18	23	15	1.89
1695649--1695741	41	2.3	41	98	0	177	40	18	23	17	1.90
1695668--1695801	41	3.3	41	81	7	132	39	20	20	18	1.93
1695772--1695823	19	2.7	20	90	3	79	28	28	19	23	1.98
1695730--1695823	20	4.7	20	78	5	91	35	24	18	22	1.96
1696011--1696054	22	2.0	22	95	0	79	20	45	15	18	1.85
1696298--1696341	20	2.2	20	87	0	61	11	18	20	50	1.77
1697661--1697705	18	2.5	18	88	0	72	26	44	15	13	1.83

Tables:   1   2   3   4   5   6   7   8