genome.fa.s2881.2.7.7.80.10.50.1000.8.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: VEPZ01002881.1 Hibiscus syriacus cultivar Beakdansim tig00005939_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1746118

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 968 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)
1520349--1520396	23	2.0	24	84	11	64	39	10	2	47	1.49
1524199--1524563	182	2.0	183	99	0	723	31	26	18	24	1.97
1524664--1524708	9	5.3	9	84	15	60	0	15	0	84	0.62
1526112--1526163	18	2.9	17	75	8	50	11	9	13	65	1.47
1526390--1526421	12	2.7	12	95	0	55	28	3	9	59	1.44
1529533--1529651	47	2.6	46	90	2	193	45	10	19	24	1.82
1529618--1529678	26	2.4	25	86	5	77	45	8	19	26	1.78
1531313--1531604	117	2.5	117	94	0	503	30	35	16	17	1.92
1532542--1532706	29	5.9	28	71	11	97	46	15	3	35	1.62
1538800--1539089	117	2.5	117	92	1	485	32	34	15	17	1.91
1540004--1540189	29	6.5	29	73	10	141	48	16	2	32	1.58
1540229--1540267	20	2.0	20	100	0	78	35	23	20	20	1.96
1542229--1542278	20	2.4	21	86	6	66	18	10	24	48	1.78
1544019--1544076	20	2.7	20	84	10	71	31	18	22	27	1.97
1544304--1544343	20	2.0	20	100	0	80	45	10	20	25	1.81
1545081--1545145	31	2.1	31	85	5	87	21	20	23	35	1.96
1545131--1545232	30	3.4	30	89	1	143	22	19	25	32	1.97
1546629--1546681	23	2.2	23	83	12	63	28	24	18	28	1.98
1546639--1546682	23	1.9	23	90	9	72	25	27	20	27	1.99
1551244--1551307	28	2.3	28	97	0	119	48	25	0	26	1.51
1552918--1553037	58	2.1	59	89	7	183	25	15	21	36	1.93
1554529--1554609	37	2.2	38	78	17	89	53	3	0	43	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1557198--1557314	60	1.9	59	83	11	141	30	22	11	35	1.89
1557215--1557314	20	5.0	19	78	11	87	30	22	11	37	1.88
1557227--1557314	40	2.2	41	84	10	119	31	21	11	35	1.89
1557299--1557333	18	1.9	18	88	0	52	28	17	5	48	1.69
1557474--1557507	16	2.1	16	88	0	50	29	5	0	64	1.17
1558102--1558135	12	2.8	12	90	0	50	55	29	0	14	1.40
1560579--1560614	18	2.0	18	94	0	63	55	22	2	19	1.56
1562299--1562374	21	3.6	21	92	0	125	22	19	36	21	1.95
1562519--1562564	4	11.5	4	80	0	56	67	4	2	26	1.21
1562725--1562770	21	2.2	21	84	7	58	34	34	10	19	1.87
1562948--1563046	42	2.4	42	87	0	135	18	18	36	27	1.94
1564599--1564632	14	2.4	14	90	0	50	11	17	23	47	1.81
1564613--1564651	20	2.0	20	100	0	78	15	12	20	51	1.76
1565161--1565231	20	3.5	20	71	5	63	22	15	26	35	1.94
1565368--1565417	21	2.3	23	86	6	68	28	16	4	52	1.61
1566909--1566948	20	2.0	20	95	0	71	22	37	25	15	1.93
1567296--1567365	34	2.1	32	86	5	95	31	15	27	25	1.96
1568228--1568275	19	2.5	20	82	3	62	52	6	12	29	1.63
1569670--1569733	21	3.1	21	82	12	80	18	40	25	15	1.90
1570928--1570977	17	2.8	17	84	6	64	48	2	8	42	1.44
1572891--1572932	2	21.0	2	100	0	84	50	0	0	50	1.00
1574856--1574887	16	1.9	16	93	6	55	12	12	21	53	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1575461--1575517	18	3.1	18	80	14	62	38	12	8	40	1.74
1581937--1581961	2	12.5	2	100	0	50	52	0	0	48	1.00
1586027--1586572	121	4.5	121	84	3	668	42	10	16	29	1.82
1593704--1593784	40	2.1	36	82	14	101	44	7	18	29	1.77
1598109--1598192	32	2.6	33	78	10	77	51	15	0	33	1.44
1599170--1599227	20	2.7	20	86	10	71	27	22	18	31	1.97
1602496--1602533	2	19.0	2	84	10	51	47	5	0	47	1.24
1606839--1606879	2	21.0	2	80	14	50	46	4	0	48	1.23
1609016--1609049	16	2.1	17	88	5	52	17	23	0	58	1.38
1612201--1612238	19	2.0	19	89	0	58	23	28	13	34	1.92
1617625--1617658	16	2.1	17	88	5	52	35	0	0	64	0.94
1621041--1621249	69	3.0	69	97	0	400	23	4	22	49	1.67
1621167--1621212	21	2.2	20	85	11	58	30	0	19	50	1.48
1627191--1627244	2	27.0	2	100	0	108	50	0	0	50	1.00
1628086--1628138	24	2.1	25	93	6	90	15	33	7	43	1.74
1633845--1634262	211	2.0	213	99	0	822	34	20	17	27	1.95
1635230--1635282	20	2.7	20	77	8	63	37	13	18	30	1.89
1637655--1637824	60	2.9	59	79	5	155	35	20	5	38	1.77
1637949--1638065	29	4.1	29	72	8	105	39	3	24	32	1.72
1637946--1638052	56	1.9	56	88	3	162	41	2	26	29	1.70
1639285--1639314	8	3.9	8	95	4	53	90	10	0	0	0.47
1641788--1641902	57	2.0	57	84	0	149	39	13	19	27	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1643251--1643445	108	1.8	106	82	10	252	24	20	11	44	1.84
1643569--1643669	51	2.0	51	82	7	125	21	13	7	56	1.63
1643724--1643772	17	2.8	17	84	6	62	18	4	2	75	1.06
1649606--1649640	16	2.1	18	89	10	56	48	11	5	34	1.63
1652720--1652755	2	18.0	2	100	0	72	50	0	0	50	1.00
1653020--1653068	19	2.6	19	96	0	89	26	36	18	18	1.94
1659211--1659247	12	3.1	12	88	0	56	56	16	27	0	1.40
1659210--1659245	18	2.0	18	88	0	54	55	16	27	0	1.42
1662318--1662383	25	2.6	25	100	0	132	34	16	16	31	1.92
1662899--1662960	18	3.8	16	75	16	56	64	3	8	24	1.36
1663663--1663715	19	2.7	20	91	5	90	11	1	18	67	1.30
1664124--1664164	16	2.6	16	80	11	57	73	0	4	21	1.02
1664264--1664456	35	5.4	36	77	9	166	43	12	2	41	1.56
1664264--1664456	70	2.7	69	85	4	233	43	12	2	41	1.56
1672595--1672642	24	2.0	24	91	0	78	14	10	37	37	1.81
1675981--1676047	35	1.9	35	84	0	89	41	7	4	46	1.52
1678924--1679016	14	6.5	14	67	9	53	21	12	5	60	1.53
1686020--1686306	99	3.0	98	78	7	295	32	20	20	25	1.97
1686112--1686338	99	2.3	97	78	7	222	34	19	18	27	1.95
1689441--1689467	14	1.9	14	100	0	54	37	37	0	25	1.57
1691367--1691427	29	2.1	29	81	3	70	45	6	14	32	1.71
1693717--1693755	20	2.0	20	89	0	60	33	28	15	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1696882--1696941	12	5.0	12	74	8	59	53	18	11	16	1.72
1696872--1696941	24	2.9	24	77	8	70	55	17	11	15	1.68
1696922--1696978	24	2.4	25	76	8	64	45	15	17	21	1.85
1698729--1698801	36	2.0	36	97	0	137	28	20	9	41	1.84
1701570--1701623	24	2.2	24	86	0	72	50	18	14	16	1.79
1701570--1701627	12	4.8	12	75	8	64	48	18	15	17	1.82
1701587--1701664	24	3.2	25	75	10	65	44	17	16	20	1.86
1703418--1703490	36	2.0	36	91	0	119	30	19	8	42	1.80
1704148--1704172	13	1.9	13	100	0	50	16	20	48	16	1.82
1706829--1707105	122	2.3	122	83	5	330	49	7	12	30	1.69
1717618--1717684	34	2.0	33	85	8	91	61	13	2	22	1.46
1717922--1717953	12	2.7	12	90	0	55	6	37	21	34	1.79
1718216--1718278	33	1.9	33	83	6	83	25	17	41	15	1.89
1720011--1720091	21	4.0	21	72	23	66	64	2	0	33	1.07
1720011--1720062	9	6.1	9	76	13	56	63	1	0	34	1.06
1720008--1720060	16	3.2	17	84	10	65	66	1	0	32	1.03
1720014--1720063	17	3.0	17	91	2	75	60	4	0	36	1.16
1725565--1725598	15	2.3	15	100	0	68	26	35	5	32	1.81
1727927--1727986	28	2.1	29	87	6	86	45	16	20	18	1.86
1729244--1729354	47	2.4	48	90	3	181	31	11	24	32	1.91
1729419--1729773	36	9.8	36	86	2	419	37	21	20	20	1.94
1729423--1729769	145	2.4	144	86	5	459	37	21	20	19	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1729419--1729773	181	2.0	181	86	3	500	37	21	20	20	1.94
1735241--1735336	29	3.2	30	80	4	104	57	15	11	15	1.66
1735278--1735336	31	1.9	30	89	3	91	59	13	11	15	1.62
1737027--1737122	40	2.3	40	84	8	113	23	19	33	22	1.97
1736924--1737256	134	2.5	134	90	2	492	24	18	32	25	1.97
1737027--1737227	43	4.6	43	68	15	133	25	18	30	24	1.98
1737286--1737416	35	3.8	34	70	19	92	38	14	17	29	1.90
1737301--1737415	36	3.3	35	75	10	101	39	13	16	30	1.88
1737801--1737982	100	1.8	99	86	3	267	36	9	17	36	1.83
1739704--1739759	25	2.4	22	77	14	58	58	1	7	32	1.35

Tables:   1   2   3   4   5   6   7   8   9