genome.fa.s9001.2.7.7.80.10.50.1000.7.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: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4740655

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   

This is table  7  of  24  ( 2777 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)
1442471--1442509	20	1.9	21	89	5	62	38	33	12	15	1.85
1446642--1446691	21	2.4	21	96	0	91	30	20	2	48	1.61
1451601--1451648	21	2.3	21	79	13	55	29	12	52	6	1.63
1451917--1451976	23	2.6	23	86	0	75	40	5	15	40	1.68
1452004--1452063	23	2.6	23	86	0	84	41	6	15	36	1.73
1451900--1452204	87	3.5	87	90	1	450	44	8	12	35	1.72
1452447--1452488	20	2.1	20	90	0	66	19	40	26	14	1.89
1455175--1455216	20	2.1	20	95	0	75	16	40	28	14	1.88
1457909--1457950	20	2.1	20	95	0	75	16	40	28	14	1.88
1460627--1460672	23	2.0	23	91	0	74	19	41	23	15	1.89
1460630--1460693	21	3.0	20	80	11	65	18	35	26	18	1.94
1461707--1461797	23	4.0	23	92	0	146	36	16	9	37	1.82
1461984--1462027	23	1.9	23	81	9	54	38	6	13	40	1.71
1463019--1463047	3	9.7	3	100	0	58	34	0	0	65	0.93
1469064--1469125	30	2.1	30	100	0	124	19	8	33	38	1.81
1469703--1469728	2	13.0	2	100	0	52	50	0	0	50	1.00
1471819--1471991	21	8.0	21	76	4	121	22	17	24	35	1.95
1471982--1472029	23	2.1	23	88	0	69	14	20	22	41	1.89
1474785--1474883	21	4.8	20	83	10	119	24	35	20	20	1.96
1474904--1474977	20	3.7	20	80	7	87	18	24	22	33	1.97
1478018--1478366	123	2.9	122	84	5	431	33	15	10	40	1.81
1478651--1478700	26	1.9	26	100	0	100	28	4	16	52	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1478612--1478740	68	1.9	70	88	3	199	38	3	12	44	1.60
1479686--1479724	10	3.9	10	83	9	53	79	0	5	15	0.90
1480777--1480812	2	18.0	2	100	0	72	50	0	0	50	1.00
1481680--1481732	2	27.5	2	92	7	92	49	0	0	50	1.00
1489728--1489752	12	2.1	12	100	0	50	40	8	36	16	1.77
1489781--1489836	29	1.9	29	92	0	94	12	35	30	21	1.90
1489855--1489913	23	2.6	23	80	0	64	10	35	27	27	1.89
1489991--1490048	29	2.0	29	89	0	89	22	27	36	13	1.92
1498942--1498987	22	2.0	23	83	4	58	28	2	2	67	1.14
1498954--1498995	17	2.5	17	76	3	50	21	2	0	76	0.90
1499652--1499720	20	3.5	20	84	2	86	36	10	18	34	1.85
1502430--1502498	20	3.5	20	83	0	84	37	7	17	37	1.77
1502544--1502599	20	2.8	20	91	0	94	30	17	19	32	1.95
1508094--1508124	2	15.5	2	100	0	62	51	0	0	48	1.00
1510262--1510342	23	3.6	23	68	15	71	29	20	25	23	1.99
1516113--1516219	45	2.4	45	98	0	205	31	19	22	26	1.98
1516160--1516320	65	2.5	65	84	5	211	28	19	23	28	1.98
1520145--1520175	6	5.2	6	92	0	53	35	45	16	3	1.63
1520568--1520675	35	3.2	33	89	6	171	62	0	0	36	1.01
1521082--1521144	11	5.9	11	69	14	51	57	3	1	38	1.24
1521663--1521746	7	12.0	7	77	0	78	48	30	0	20	1.50
1521649--1521744	14	6.9	14	84	2	113	52	27	0	20	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1521647--1521730	21	4.0	21	76	6	80	51	28	0	20	1.48
1524896--1524953	31	1.9	30	85	3	80	25	13	18	41	1.88
1527339--1527417	40	2.0	40	97	0	149	34	18	12	34	1.89
1527561--1527592	15	2.2	15	94	5	57	18	18	0	62	1.33
1529836--1529889	23	2.3	23	96	0	99	62	0	33	3	1.12
1534574--1534767	95	2.0	95	91	2	309	32	20	18	28	1.96
1535310--1535465	65	2.4	66	86	4	210	29	21	19	29	1.98
1545890--1546390	85	5.9	85	85	1	587	36	18	17	26	1.94
1546955--1546979	3	8.3	3	100	0	50	32	0	0	68	0.90
1546924--1546972	25	1.9	26	84	12	66	36	4	0	59	1.17
1548587--1548652	7	9.1	7	77	14	64	15	3	3	78	0.99
1549629--1549676	23	2.1	23	88	0	69	39	10	16	33	1.83
1549707--1549763	23	2.5	23	79	0	60	45	8	8	36	1.66
1549619--1549850	87	2.7	87	91	0	392	42	11	12	33	1.80
1549794--1549876	23	3.6	23	91	0	121	40	8	18	32	1.80
1549826--1550058	87	2.7	87	91	0	385	42	11	14	32	1.80
1549904--1549963	23	2.6	23	83	0	66	45	10	11	33	1.74
1549707--1549963	110	2.3	110	90	0	388	43	10	12	32	1.78
1549620--1550050	197	2.2	197	92	0	709	42	11	13	32	1.81
1549991--1550050	23	2.6	23	83	0	75	40	10	16	33	1.82
1550201--1550244	19	2.4	19	96	3	81	52	11	11	25	1.70
1550594--1550649	24	2.4	23	83	16	80	57	3	0	39	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1550656--1551283	196	3.2	196	90	4	921	31	14	14	40	1.85
1551399--1551463	28	2.4	27	82	10	71	46	1	1	50	1.20
1552466--1552506	21	2.0	21	90	0	64	53	4	4	36	1.44
1553363--1553602	73	3.3	73	72	21	257	37	4	2	55	1.32
1553952--1554026	27	2.8	27	97	0	141	49	0	0	50	1.00
1553942--1554026	27	3.0	31	89	8	96	50	0	0	49	1.00
1553954--1554044	27	3.4	25	88	11	112	47	1	0	51	1.07
1554199--1554245	20	2.3	20	92	0	76	23	23	14	38	1.92
1558197--1558253	26	2.2	26	100	0	114	17	22	29	29	1.97
1559299--1559354	26	2.2	26	87	6	78	46	1	17	33	1.59
1560526--1560563	16	2.5	15	83	8	51	60	5	7	26	1.46
1560731--1560838	32	3.4	32	86	7	141	35	6	26	31	1.82
1560762--1560858	46	2.1	46	90	0	149	30	6	29	32	1.82
1560711--1560851	16	9.0	16	74	6	110	35	6	27	30	1.82
1563382--1563546	67	2.5	67	83	2	206	38	14	19	27	1.90
1563560--1563645	37	2.4	37	84	2	111	44	17	12	25	1.84
1565479--1565546	23	3.0	23	80	6	77	35	25	13	26	1.92
1565507--1565560	21	2.6	21	90	0	81	31	29	16	22	1.96
1572656--1572686	12	2.6	12	100	0	62	0	12	0	87	0.55
1572637--1572686	12	4.5	11	80	12	57	2	18	0	80	0.82
1576410--1576451	16	2.6	16	84	0	57	35	7	26	30	1.83
1576858--1576882	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1585932--1585981	23	2.1	25	88	7	77	22	26	28	24	1.99
1585932--1586021	24	3.8	24	77	15	96	22	23	26	27	1.99
1586550--1586600	21	2.4	21	93	0	84	25	23	27	23	2.00
1587999--1588075	9	9.0	8	78	13	75	2	15	1	80	0.89
1588000--1588072	28	2.7	27	82	12	87	2	15	1	80	0.89
1590737--1590894	21	7.8	20	72	7	86	38	25	17	18	1.92
1590861--1591034	20	8.6	20	83	6	208	36	27	18	17	1.94
1591417--1591487	33	2.2	33	92	0	115	11	22	18	47	1.80
1591566--1591643	41	1.9	41	97	0	147	44	16	25	12	1.83
1591567--1591642	21	3.7	21	83	3	109	46	17	25	11	1.82
1591627--1591683	14	3.7	14	75	20	60	42	22	24	10	1.85
1591622--1591686	33	2.0	33	100	0	130	43	21	24	10	1.84
1591625--1591699	33	2.3	33	92	0	123	45	24	21	9	1.81
1591695--1591759	19	3.7	19	72	19	68	10	23	23	43	1.85
1591717--1591773	14	3.7	14	75	20	60	8	24	24	42	1.83
1591700--1591781	33	2.5	33	95	0	155	9	23	20	46	1.80
1593477--1594038	93	6.1	93	98	0	1090	21	12	18	46	1.83
1594086--1594214	19	7.3	19	73	17	116	47	27	16	8	1.75
1594122--1594214	33	2.8	32	91	4	150	47	27	17	7	1.74
1594086--1594214	52	2.5	52	71	14	122	47	27	16	8	1.75
1594231--1594287	14	3.7	14	77	20	60	10	21	22	45	1.82
1594215--1594306	33	2.8	33	91	1	150	10	19	21	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1594210--1594343	19	7.6	19	74	16	110	11	18	23	46	1.81
1596264--1596299	14	2.6	14	95	0	63	33	0	22	44	1.53
1596406--1596502	19	5.4	19	83	14	134	46	17	22	13	1.83
1596406--1596520	53	2.2	51	95	3	203	45	18	23	13	1.84
1596549--1596816	19	15.4	19	77	19	291	13	22	18	46	1.83
1596527--1596788	52	5.0	52	88	6	415	13	23	17	45	1.84
1596527--1596816	33	8.5	33	80	13	320	13	22	18	45	1.84
1596567--1596730	85	1.9	85	100	0	328	13	22	17	46	1.83
1599091--1599115	12	2.1	12	100	0	50	0	28	0	72	0.86
1599287--1599332	24	2.0	23	87	12	67	36	21	15	26	1.93

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