genome.fa.s1838.2.7.7.80.10.50.1000.8.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: VEPZ01001838.1 Hibiscus syriacus cultivar Beakdansim tig00003721_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3924084

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

This is table  8  of  18  ( 2134 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)
1432631--1432781	59	2.6	58	84	4	178	58	7	13	20	1.58
1434157--1434206	3	16.7	3	91	8	84	68	0	0	32	0.90
1434290--1434369	38	2.0	40	81	9	94	42	7	15	35	1.75
1436084--1436480	54	7.4	54	90	0	578	33	20	19	25	1.97
1439029--1439233	100	2.0	100	98	0	392	34	6	22	36	1.81
1441999--1442124	54	2.3	54	91	0	198	37	20	18	23	1.94
1442082--1442167	43	2.0	43	93	0	145	32	23	17	26	1.96
1442040--1442221	97	1.9	97	91	0	301	34	20	18	26	1.96
1442125--1442236	54	2.1	54	87	0	161	32	20	21	25	1.98
1443752--1443785	13	2.6	13	100	0	68	11	32	41	14	1.82
1446424--1446502	4	20.0	4	94	2	142	0	25	1	73	0.91
1475962--1475988	2	13.5	2	100	0	54	51	0	0	48	1.00
1476167--1476196	12	2.5	12	94	0	51	53	3	43	0	1.17
1480364--1480403	21	1.9	21	89	0	62	25	15	12	47	1.80
1483764--1483803	20	2.0	20	95	0	71	15	15	32	37	1.88
1484515--1484589	32	2.3	32	88	0	105	34	20	10	34	1.87
1489077--1489148	17	4.2	17	80	5	74	37	15	8	38	1.77
1490623--1490669	25	1.9	24	82	4	58	78	8	0	12	0.95
1491629--1491683	28	2.0	28	100	0	110	47	18	14	20	1.83
1493122--1493175	17	3.2	17	84	5	65	37	11	9	42	1.73
1495361--1495413	17	3.1	17	100	0	106	24	18	28	28	1.98
1495422--1495459	20	1.9	20	100	0	76	31	21	23	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1496279--1496412	18	7.4	18	90	0	214	17	20	32	29	1.96
1498654--1498712	28	2.1	28	84	12	77	61	0	27	11	1.31
1501138--1501184	22	2.1	22	100	0	94	44	12	19	23	1.85
1509736--1510333	297	2.0	297	98	0	1151	29	19	17	34	1.94
1521975--1522032	29	2.0	29	100	0	116	44	0	27	27	1.54
1522268--1522330	3	21.0	3	100	0	126	0	66	0	33	0.92
1524831--1524889	30	2.0	30	83	6	75	66	0	6	27	1.17
1526140--1526355	106	2.0	106	83	3	265	21	19	24	34	1.96
1526977--1527037	31	2.0	31	96	0	113	34	14	22	27	1.94
1527148--1527174	14	1.9	14	100	0	54	22	14	22	40	1.90
1527788--1527820	8	4.1	8	92	7	50	0	12	0	87	0.53
1527779--1527829	21	2.4	21	83	3	57	3	11	1	82	0.89
1527778--1527820	15	2.9	14	86	6	50	0	11	2	86	0.67
1527801--1527929	67	1.9	67	82	1	161	13	17	10	57	1.65
1534276--1534336	23	2.8	23	75	7	65	22	34	24	18	1.96
1547024--1547083	3	20.3	3	80	13	63	65	0	5	30	1.14
1547017--1547085	31	2.2	32	82	7	88	66	0	4	28	1.10
1547032--1547087	28	2.1	28	83	12	73	67	0	5	26	1.11
1547026--1547097	34	2.1	34	82	7	85	68	2	4	25	1.21
1547130--1547170	2	20.5	2	100	0	82	51	0	0	48	1.00
1547178--1547225	21	2.2	20	79	13	51	62	0	10	27	1.27
1548709--1548781	29	2.6	29	72	12	71	58	2	4	34	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1550433--1550876	229	2.0	222	92	3	744	45	8	6	39	1.61
1550942--1550988	20	2.4	19	89	10	76	55	10	17	17	1.69
1551108--1551155	21	2.3	20	76	13	53	56	8	16	18	1.65
1553426--1553491	33	2.0	33	87	0	96	28	1	45	24	1.62
1555285--1555319	18	1.9	18	94	0	61	34	2	11	51	1.53
1555406--1558210	199	14.1	199	97	0	5103	37	15	14	32	1.88
1555406--1558210	793	3.5	795	97	0	5171	37	15	14	32	1.88
1559666--1559733	21	3.4	18	69	21	55	36	8	35	19	1.83
1559666--1559760	6	15.3	6	76	6	64	36	7	34	21	1.81
1559681--1559764	3	28.0	3	76	0	78	35	5	34	23	1.80
1559666--1559764	12	8.0	12	78	6	72	36	7	34	22	1.81
1559669--1559763	18	5.3	18	79	0	82	35	7	34	22	1.82
1561139--1562165	184	5.6	184	98	0	1988	34	15	15	34	1.89
1561139--1562165	367	2.8	367	98	0	1993	34	15	15	34	1.89
1564722--1564784	23	2.7	23	90	0	90	36	6	19	38	1.77
1564722--1564794	23	3.2	23	86	3	85	35	5	19	39	1.75
1565146--1565208	23	2.7	23	90	0	90	36	6	19	38	1.77
1565146--1565218	23	3.2	23	86	3	85	35	5	19	39	1.75
1565577--1565641	23	2.8	23	90	0	94	35	7	18	38	1.80
1565845--1565881	18	2.1	18	89	0	56	32	5	10	51	1.60
1565837--1565883	24	2.0	24	86	0	67	34	4	14	46	1.64
1571910--1571943	2	17.0	2	100	0	68	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1572541--1572606	24	2.9	23	80	6	71	28	22	25	22	1.99
1573292--1573325	16	2.1	17	88	5	52	38	2	17	41	1.65
1590302--1590345	17	2.6	17	77	0	52	20	20	4	54	1.62
1590418--1590456	17	2.3	17	90	0	60	23	17	2	56	1.53
1591727--1591764	19	2.0	19	89	0	58	47	10	0	42	1.38
1595231--1595274	21	2.0	21	86	8	61	40	11	20	27	1.86
1595304--1595361	21	2.8	21	100	0	116	27	10	31	31	1.90
1597396--1597439	19	2.3	19	92	0	70	45	22	6	25	1.77
1598874--1598915	21	2.0	21	85	0	57	52	11	7	28	1.64
1604691--1604781	16	5.7	16	94	0	146	59	21	12	6	1.55
1605450--1605517	20	3.2	20	64	28	50	50	22	14	13	1.77
1605436--1605541	44	2.4	44	91	0	176	50	19	15	15	1.79
1606361--1606425	27	2.3	29	84	5	80	55	6	0	38	1.25
1606420--1606455	17	2.1	17	89	0	54	55	19	0	25	1.43
1607595--1607647	4	13.2	4	100	0	106	24	0	24	50	1.49
1608846--1608911	30	2.2	30	97	0	123	28	18	16	36	1.93
1609975--1610082	47	2.3	47	83	0	135	34	18	13	33	1.90
1610930--1610977	19	2.8	17	76	14	53	79	2	0	18	0.84
1610930--1610979	16	2.9	17	77	17	50	78	2	0	20	0.86
1614021--1614084	23	2.8	23	80	0	74	28	25	28	18	1.98
1614103--1614420	103	3.1	103	97	0	582	36	24	13	26	1.92
1615157--1615313	64	2.5	64	80	6	158	26	19	21	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1615348--1615406	21	2.8	21	100	0	118	27	20	23	28	1.99
1620062--1620125	23	2.8	23	92	0	110	28	26	26	18	1.98
1620141--1620461	103	3.1	103	97	0	588	37	23	13	26	1.91
1621198--1621354	64	2.5	64	82	6	167	26	19	21	33	1.96
1623706--1624115	85	4.8	85	87	1	509	34	20	18	27	1.95
1624858--1624900	2	21.5	2	100	0	86	48	0	0	51	1.00
1624897--1624921	11	2.3	11	100	0	50	48	0	8	44	1.32
1624887--1625158	34	7.8	37	69	19	167	44	3	7	44	1.49
1624885--1625033	39	3.9	38	80	6	160	45	3	6	44	1.46
1625013--1625094	11	6.8	11	71	17	65	45	6	6	42	1.53
1625009--1625062	25	2.1	26	96	3	101	44	7	7	40	1.60
1624973--1625095	62	2.0	62	88	3	185	44	4	7	43	1.53
1626332--1626391	28	2.2	27	81	3	75	16	13	1	68	1.29
1627321--1627424	29	3.5	30	90	3	158	39	26	7	25	1.83
1627983--1628150	63	2.5	68	85	5	220	35	7	14	42	1.74
1628156--1628470	139	2.3	132	87	5	427	37	10	11	40	1.76
1628369--1628427	29	2.0	29	86	0	82	38	6	10	44	1.65
1628525--1628567	18	2.4	18	96	0	77	27	18	2	51	1.59
1629543--1629618	36	2.1	36	85	7	100	47	1	3	47	1.29
1629764--1629801	20	1.9	20	88	0	58	21	26	10	42	1.85
1637077--1637116	21	2.0	20	85	5	53	55	12	2	30	1.50
1638938--1638981	22	2.0	23	90	4	72	50	11	18	20	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1639592--1639645	27	2.0	28	85	3	74	55	3	3	37	1.35
1643894--1643936	18	2.4	18	88	0	59	67	0	4	27	1.10
1645240--1645272	16	2.1	16	94	0	57	66	9	0	24	1.20
1645269--1645298	10	2.8	11	90	10	53	26	6	0	66	1.16
1649330--1649373	18	2.4	18	80	0	52	65	0	6	27	1.17
1656841--1657536	54	12.9	54	82	4	793	32	20	16	30	1.95
1658262--1658829	54	10.5	54	83	0	634	31	19	16	32	1.94
1658925--1659090	81	2.0	81	83	2	208	36	12	23	27	1.91
1659093--1659186	45	2.1	45	85	0	125	43	9	24	22	1.83
1666453--1666512	30	2.0	30	96	0	111	43	21	3	31	1.69

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