genome.fa.s8016.2.7.7.80.10.50.1000.7.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: VEPZ01008016.1 Hibiscus syriacus cultivar Beakdansim tig00110482_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5469637

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   

This is table  7  of  25  ( 2971 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)
1449557--1451410	479	3.8	479	91	2	2923	41	7	10	40	1.66
1450873--1450917	22	2.1	21	83	4	54	42	11	8	37	1.72
1450936--1451008	23	3.2	23	96	0	128	34	6	21	36	1.81
1456262--1456293	4	8.0	4	92	0	55	71	3	0	25	1.00
1457208--1457295	19	4.2	21	72	16	67	39	5	25	29	1.78
1461422--1461463	22	1.9	22	85	0	57	33	4	0	61	1.17
1474069--1474233	55	3.0	55	93	0	276	43	11	21	23	1.85
1474915--1475065	72	2.1	72	93	0	257	37	13	26	23	1.91
1478460--1478708	125	2.0	125	85	6	335	32	15	26	26	1.96
1479921--1480008	36	2.4	36	87	7	124	36	19	21	22	1.95
1480413--1480570	54	2.9	54	96	0	289	37	18	25	18	1.94
1480542--1480966	55	7.8	55	82	6	433	29	17	24	29	1.97
1480588--1480901	161	2.0	161	88	6	476	28	17	24	30	1.97
1489292--1489339	2	24.0	2	100	0	96	50	0	0	50	1.00
1492715--1492755	18	2.3	18	91	4	66	29	4	0	65	1.13
1494432--1494468	18	2.1	18	89	0	56	27	29	18	24	1.98
1498770--1498899	51	2.5	50	81	9	147	20	27	34	17	1.95
1498911--1498973	29	2.1	29	82	2	72	31	14	26	26	1.95
1500109--1500149	21	2.0	21	90	0	64	31	12	19	36	1.89
1511216--1511324	35	3.0	35	89	5	155	45	19	5	29	1.72
1515822--1515937	35	3.2	35	86	7	153	46	18	4	31	1.68
1515917--1516007	34	2.7	34	93	3	148	41	15	9	32	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1520898--1521090	96	2.0	97	98	1	379	17	12	35	34	1.88
1521059--1521372	152	2.1	149	89	7	474	27	13	24	34	1.93
1521388--1521470	37	2.2	38	93	4	150	10	10	39	38	1.75
1521207--1521768	248	2.2	246	89	5	826	25	11	27	35	1.91
1522289--1522334	18	2.7	18	86	6	69	28	30	6	34	1.82
1530019--1530084	29	2.3	30	85	15	86	48	0	0	51	1.00
1530681--1531236	276	2.0	276	99	0	1094	30	14	20	33	1.93
1533903--1533957	26	2.2	26	83	6	69	27	9	12	50	1.70
1534818--1534849	6	5.3	6	100	0	64	34	0	0	65	0.93
1535257--1535486	2	117.0	2	83	3	117	0	65	0	33	0.96
1537116--1537185	26	2.7	28	79	14	71	45	0	2	51	1.16
1537134--1537188	27	2.0	28	86	10	78	43	0	5	50	1.25
1537628--1537691	10	6.2	10	75	7	56	21	7	3	67	1.31
1537634--1537691	21	2.8	21	76	5	64	22	6	3	67	1.30
1537733--1537777	22	2.0	22	83	8	56	68	0	11	20	1.19
1537729--1537799	32	2.2	31	85	9	90	66	1	8	23	1.28
1537808--1537857	26	1.9	26	84	8	66	48	0	0	52	1.00
1539202--1539249	24	2.0	24	100	0	96	16	25	29	29	1.97
1540659--1540720	26	2.5	25	80	15	58	40	3	1	54	1.26
1543299--1543349	22	2.5	20	79	14	59	52	1	7	37	1.42
1545213--1545277	33	2.0	31	82	11	78	53	24	0	21	1.46
1545650--1545865	108	2.0	108	100	0	432	18	29	19	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1547346--1547424	19	3.8	20	77	12	63	17	24	32	25	1.97
1547389--1547426	20	1.9	20	88	0	58	13	26	34	26	1.93
1551213--1551252	21	1.9	21	85	10	55	35	10	2	52	1.48
1559270--1559298	12	2.4	12	100	0	58	24	34	17	24	1.96
1560780--1560804	3	8.3	3	100	0	50	0	68	0	32	0.90
1561904--1562057	65	2.4	64	86	5	213	31	22	17	28	1.97
1561876--1562083	65	3.3	63	77	11	190	30	22	19	26	1.98
1562795--1562839	21	2.1	21	87	0	63	31	28	24	15	1.96
1564538--1564753	105	2.1	104	90	1	335	29	12	20	37	1.89
1564754--1564821	23	3.0	23	82	0	73	23	27	22	26	1.99
1568604--1568661	20	2.6	23	76	10	59	27	20	25	25	1.99
1572222--1572285	23	2.8	23	76	4	76	31	25	26	17	1.97
1573866--1574026	64	2.5	62	81	5	187	24	24	18	32	1.97
1575078--1575132	23	2.4	23	77	17	62	61	9	0	29	1.26
1581738--1581775	11	3.7	11	80	20	55	26	0	0	73	0.83
1581734--1581776	19	2.3	19	100	0	86	23	0	0	76	0.78
1583463--1583488	4	6.5	4	100	0	52	26	0	0	73	0.84
1583757--1583829	28	2.6	28	88	2	101	13	8	49	28	1.71
1584378--1584615	48	5.0	48	89	2	349	30	19	21	28	1.98
1584747--1584828	42	2.0	42	87	0	119	34	21	21	21	1.97
1584996--1585077	42	2.0	42	87	0	119	36	21	19	21	1.95
1584637--1585660	249	4.1	249	93	0	1692	34	17	17	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1586753--1586900	52	2.9	50	87	6	197	21	18	20	39	1.93
1588364--1588444	6	13.2	6	74	18	69	1	18	1	79	0.88
1588374--1588456	8	10.5	8	71	15	66	0	18	0	81	0.68
1588377--1588454	29	2.8	28	84	11	97	0	19	0	80	0.71
1588377--1588455	36	2.2	35	78	14	90	0	18	0	81	0.70
1592395--1592432	18	2.1	18	85	9	51	15	28	26	28	1.96
1600462--1600504	21	2.0	21	81	0	50	27	30	25	16	1.97
1601029--1601345	103	3.1	103	95	0	571	26	11	24	37	1.90
1601366--1601428	23	2.7	23	85	4	83	20	25	26	26	1.99
1607933--1608253	103	3.1	103	94	0	579	25	12	24	37	1.90
1608270--1608321	23	2.3	23	89	0	77	21	26	25	26	1.99
1608270--1608332	23	2.7	23	82	4	74	22	23	25	28	1.99
1615022--1615091	28	2.5	28	85	0	95	15	11	44	28	1.81
1616721--1616793	30	2.7	26	82	17	103	26	2	9	61	1.40
1616733--1616803	30	2.4	30	100	0	142	21	2	9	66	1.34
1635767--1636566	398	2.0	397	99	0	1591	36	16	18	28	1.92
1637592--1637989	161	2.5	160	88	2	582	34	20	23	22	1.97
1637863--1637949	44	2.0	44	93	0	147	36	20	25	17	1.94
1639777--1639841	31	2.1	31	100	0	130	12	29	15	43	1.83
1641123--1641207	28	3.1	29	74	14	81	45	0	0	54	1.00
1641107--1641182	32	2.5	30	81	12	93	48	0	0	51	1.00
1641423--1641471	19	2.6	19	100	0	98	42	10	14	32	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1642452--1642627	94	1.9	95	88	4	268	44	5	6	43	1.53
1645305--1645393	3	29.7	3	93	0	142	30	1	0	68	0.97
1645892--1645923	16	2.0	16	93	0	55	90	3	6	0	0.53
1647577--1647625	18	2.8	18	78	9	57	24	0	2	73	0.94
1647616--1647652	15	2.7	15	88	12	53	24	5	8	62	1.44
1658216--1658251	18	2.0	18	88	0	54	80	0	11	8	0.90
1658214--1658257	16	2.8	16	82	0	52	79	0	13	6	0.92
1658587--1658632	19	2.6	18	83	10	60	32	6	8	52	1.58
1659367--1659972	83	7.3	83	94	0	1002	30	13	21	35	1.91
1660601--1661155	113	4.9	113	92	0	878	37	12	20	29	1.90
1661446--1661519	3	24.7	3	88	0	112	32	1	0	66	1.00
1662012--1662048	19	1.9	19	89	10	58	75	8	13	2	1.13
1673071--1673358	147	2.0	147	94	0	504	35	12	24	28	1.91
1673410--1673467	29	2.0	29	93	0	98	41	24	5	29	1.76
1681270--1681301	13	2.4	14	94	5	57	40	0	0	59	0.97
1681271--1681314	15	3.1	15	87	6	56	36	2	0	61	1.09
1681412--1681498	41	2.1	41	81	8	97	25	5	5	63	1.39
1681452--1681585	43	3.1	41	75	11	99	25	7	5	61	1.43
1681507--1681655	43	3.5	42	80	6	149	27	10	4	57	1.50
1681507--1681696	43	4.4	42	75	12	136	28	11	3	55	1.52
1681915--1681960	18	2.6	18	89	3	67	36	6	28	28	1.82
1682540--1682656	33	3.6	33	93	2	202	40	36	10	12	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1687061--1687307	82	3.0	83	83	1	354	45	10	3	39	1.57
1690436--1690485	24	2.2	22	82	7	55	44	0	4	52	1.20
1697712--1697755	20	2.3	19	84	11	54	31	4	0	63	1.14
1701242--1701368	43	2.9	43	77	11	132	32	8	16	42	1.79
1701964--1702035	35	2.1	35	81	5	83	27	4	11	56	1.52
1702073--1702117	22	2.0	22	82	0	54	22	8	15	53	1.69
1702819--1702847	2	14.5	2	100	0	58	48	0	0	51	1.00
1702891--1702940	10	5.2	9	79	11	55	70	0	10	20	1.16
1702891--1702938	20	2.5	20	83	16	73	68	0	10	20	1.18
1703123--1703182	3	19.0	3	80	10	57	35	0	1	63	1.05

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25