genome.fa.s9572.2.7.7.80.10.50.1000.8.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: VEPZ01009572.1 Hibiscus syriacus cultivar Beakdansim tig00116937_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2529503

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

This is table  8  of  13  ( 1477 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)
1476072--1476113	13	3.5	12	81	9	50	45	0	0	54	0.99
1478746--1478945	57	3.5	56	79	8	197	42	3	17	37	1.64
1479036--1479086	23	2.2	24	92	3	86	19	19	29	31	1.97
1479051--1479155	24	4.4	24	87	4	115	24	22	20	31	1.98
1481748--1481779	2	16.0	2	100	0	64	50	0	0	50	1.00
1486839--1486884	2	23.0	2	100	0	92	50	0	0	50	1.00
1487110--1487149	3	13.0	3	94	5	71	32	0	0	67	0.91
1488408--1488449	18	2.4	17	81	18	50	16	9	4	69	1.33
1491563--1491606	20	2.2	20	91	0	70	18	9	2	70	1.24
1491576--1491618	12	3.3	13	83	9	61	23	9	0	67	1.19
1491545--1491618	25	3.1	26	74	20	81	20	10	2	66	1.35
1493683--1493826	72	2.0	72	88	0	216	28	21	15	34	1.94
1498137--1498384	45	5.5	45	89	0	372	28	22	20	28	1.99
1498137--1498384	135	1.8	135	93	3	428	28	22	20	28	1.99
1501441--1501489	19	2.5	19	80	3	53	22	22	10	44	1.82
1504811--1504835	2	12.5	2	100	0	50	52	0	48	0	1.00
1507963--1508032	20	3.3	20	70	20	61	44	1	4	50	1.30
1509755--1509801	21	2.2	21	84	0	67	25	25	14	34	1.94
1509792--1509944	20	7.8	20	86	3	161	35	24	16	24	1.95
1509671--1509978	40	7.8	39	72	10	173	33	24	14	27	1.95
1509836--1509978	19	7.4	19	86	5	128	34	22	14	28	1.94
1510724--1510757	12	2.8	12	90	0	50	55	29	0	14	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1514762--1514870	24	4.5	24	74	4	85	21	13	15	49	1.79
1515030--1515072	2	21.5	2	100	0	86	48	0	0	51	1.00
1517550--1517600	22	2.3	22	96	0	93	25	13	39	21	1.90
1517801--1517855	20	2.8	20	82	0	65	23	10	30	34	1.89
1524977--1525021	22	2.0	22	95	0	81	15	51	24	8	1.72
1529494--1529589	30	3.2	30	92	1	158	32	26	19	21	1.97
1529581--1529676	32	3.0	32	78	13	117	35	18	16	29	1.93
1530509--1530553	21	2.1	21	87	0	63	15	24	28	31	1.96
1534085--1534120	2	18.0	2	94	0	63	52	0	0	47	1.00
1534374--1534469	30	3.2	30	92	1	158	32	27	19	20	1.97
1534461--1534556	32	3.0	32	78	13	117	35	18	16	29	1.93
1535388--1535431	21	2.1	21	86	0	61	15	25	27	31	1.96
1539494--1539549	20	2.8	20	82	15	71	17	26	26	28	1.98
1539515--1539555	10	4.3	10	80	20	52	14	31	29	24	1.95
1539559--1539609	17	3.0	17	97	0	93	19	47	21	11	1.81
1543965--1544019	14	4.0	14	73	2	58	49	1	1	47	1.23
1552983--1553050	31	2.2	31	89	0	100	23	19	11	45	1.83
1558084--1558158	36	2.1	36	100	0	150	20	25	33	21	1.97
1565686--1565724	14	2.8	14	85	11	53	23	7	28	41	1.82
1566183--1566209	2	13.5	2	100	0	54	48	0	0	51	1.00
1567743--1567792	22	2.3	23	89	6	77	34	0	2	64	1.05
1567765--1567795	16	2.0	16	93	6	55	29	0	0	70	0.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1569534--1569606	30	2.4	32	76	21	77	20	6	2	69	1.24
1577420--1577452	8	4.1	8	100	0	66	48	51	0	0	1.00
1583191--1583266	32	2.4	32	82	4	91	30	15	19	34	1.93
1583526--1583655	64	2.0	64	90	0	206	33	20	13	32	1.91
1583864--1584331	124	3.8	123	84	1	535	31	24	18	25	1.97
1584511--1584914	36	11.2	36	82	9	448	27	19	12	40	1.88
1584766--1584886	42	3.0	42	82	8	128	23	19	12	44	1.84
1584829--1584898	21	3.6	21	69	21	71	27	21	12	38	1.90
1584732--1584886	78	2.0	79	85	1	213	23	18	14	44	1.85
1584511--1584995	216	2.3	210	88	3	695	27	19	12	40	1.88
1584829--1585126	159	1.9	160	89	4	469	27	20	12	39	1.88
1584986--1585051	19	3.5	19	74	21	68	27	22	9	40	1.84
1584991--1585070	37	2.2	36	85	8	110	30	20	11	38	1.87
1585181--1585449	81	3.3	81	84	2	315	29	27	19	23	1.98
1585801--1585839	19	2.1	18	86	13	53	28	0	0	71	0.86
1585780--1585834	22	2.4	23	88	8	78	34	0	1	63	1.05
1585807--1585837	16	2.0	15	93	6	53	29	0	0	70	0.87
1587659--1587744	24	3.5	23	69	25	59	23	5	3	67	1.28
1595994--1596050	28	2.0	28	100	0	114	21	24	19	35	1.96
1599030--1599058	15	1.9	15	100	0	58	41	0	3	55	1.17
1602103--1602306	36	5.7	36	93	0	347	34	14	10	39	1.81
1606251--1606289	16	2.5	16	91	4	62	61	5	2	30	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1614924--1614974	5	10.2	5	80	16	61	76	0	5	17	0.98
1614924--1614974	23	2.3	23	89	3	77	76	0	5	17	0.98
1615007--1615162	35	4.5	35	83	10	178	47	8	3	40	1.52
1615007--1615168	34	4.6	34	76	19	140	46	8	3	41	1.51
1615149--1615261	39	2.9	37	77	19	124	45	9	5	39	1.60
1615149--1615261	40	2.9	38	78	19	128	45	9	5	39	1.60
1615213--1615239	14	1.9	14	100	0	54	44	11	7	37	1.68
1615230--1615270	19	2.0	20	86	13	57	48	7	0	43	1.30
1615230--1615270	22	1.9	22	90	5	66	48	7	0	43	1.30
1615346--1615392	2	23.5	2	100	0	94	51	0	0	48	1.00
1629090--1629174	32	2.7	31	75	10	91	27	29	28	15	1.96
1632282--1632313	15	2.1	15	100	0	64	31	40	6	21	1.78
1634401--1634439	20	1.9	20	84	5	51	23	20	28	28	1.99
1636758--1636900	73	2.0	71	91	2	232	35	12	18	33	1.88
1638069--1638097	14	2.0	15	93	6	51	24	20	0	55	1.44
1639479--1639534	2	29.0	2	92	7	98	48	0	0	51	1.00
1642187--1642226	2	20.0	2	100	0	80	50	0	0	50	1.00
1642896--1643120	113	2.0	112	99	0	441	18	24	23	33	1.96
1644683--1644718	18	2.0	18	100	0	72	5	16	22	55	1.62
1645826--1645892	35	1.9	35	93	0	116	50	0	0	49	1.00
1645857--1645899	15	2.9	15	75	10	52	48	0	0	51	1.00
1648850--1648883	10	3.4	10	92	8	52	67	2	8	20	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1648866--1648951	29	3.0	29	75	16	90	65	1	2	31	1.13
1648905--1648951	11	4.2	12	82	17	57	63	0	0	36	0.94
1648887--1648950	21	2.9	22	86	11	87	65	0	1	32	1.02
1650931--1651484	281	2.0	278	98	1	1065	33	13	18	34	1.90
1654294--1654343	17	3.0	17	76	5	57	28	4	4	64	1.30
1657387--1657461	2	37.5	2	100	0	150	50	0	0	49	1.00
1657913--1657978	2	33.5	2	96	3	125	51	0	0	48	1.00
1665970--1666012	20	2.1	21	82	4	52	41	6	13	37	1.72
1666015--1666053	18	2.1	18	90	4	60	53	7	5	33	1.51
1667810--1667842	12	2.6	13	90	4	50	45	6	12	36	1.66
1667908--1667953	19	2.3	20	85	10	60	34	2	4	58	1.30
1684944--1685943	539	1.9	537	85	5	1403	36	17	15	30	1.91
1693287--1693331	19	2.4	19	100	0	90	20	26	31	22	1.98
1696141--1696220	22	3.7	21	75	11	81	22	23	26	27	2.00
1696148--1696238	43	2.1	42	84	9	114	23	21	27	27	1.99
1696148--1696238	21	4.3	21	77	10	71	23	21	27	27	1.99
1697819--1697864	19	2.4	19	100	0	92	28	26	21	23	1.99
1702095--1702182	46	1.9	45	90	2	140	26	18	26	29	1.98
1702703--1702745	20	2.2	20	83	8	52	37	2	2	58	1.24
1704692--1704817	65	2.0	65	85	7	177	29	16	22	31	1.96
1705275--1705374	43	2.3	43	80	1	110	27	18	27	28	1.98
1705724--1705763	19	2.1	19	85	0	53	55	7	0	37	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1706275--1706316	13	3.0	14	79	10	50	26	7	2	64	1.32
1706277--1706331	28	2.0	28	82	7	67	27	9	5	58	1.51
1706354--1706379	6	4.3	6	100	0	52	34	0	19	46	1.50
1709740--1709768	5	5.8	5	100	0	58	41	0	20	37	1.53
1713481--1713539	15	4.1	14	71	20	50	72	5	0	22	1.03
1713527--1713583	27	2.2	23	77	22	60	68	1	3	26	1.15
1732448--1732501	22	2.5	22	85	5	76	25	29	22	22	1.99
1735049--1735089	19	2.2	20	86	8	59	31	36	24	7	1.83
1735122--1735163	20	2.1	20	86	0	57	19	38	26	16	1.92
1735805--1735853	20	2.5	20	96	0	89	14	46	14	24	1.81

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