genome.fa.s9584.2.7.7.80.10.50.1000.7.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: VEPZ01009584.1 Hibiscus syriacus cultivar Beakdansim tig00116961_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2003061

Tables:   1   2   3   4   5   6   7   8   

This is table  7  of  8  ( 921 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)
1594132--1594543	138	3.0	138	82	2	425	27	16	28	27	1.97
1594544--1594717	67	2.6	67	90	3	271	41	13	17	27	1.87
1594877--1595009	39	3.6	36	78	7	151	40	12	17	30	1.85
1594883--1594940	21	3.0	21	65	27	56	36	12	18	32	1.88
1596536--1596604	25	2.8	23	79	14	84	52	2	8	36	1.47
1597473--1597565	12	8.0	11	74	11	64	1	12	6	79	0.97
1597494--1597555	15	4.2	15	89	2	90	0	12	6	80	0.89
1598414--1598452	11	3.5	11	86	6	51	61	2	5	30	1.31
1601221--1601295	2	38.5	2	76	10	66	48	4	4	44	1.40
1603425--1603459	12	2.9	12	86	0	52	54	2	2	40	1.30
1606433--1606490	30	2.0	30	86	3	82	39	15	3	41	1.64
1607254--1607324	27	2.6	27	95	0	124	36	9	2	50	1.50
1608139--1608169	2	15.5	2	100	0	62	48	0	0	51	1.00
1608921--1608989	23	3.0	23	93	2	111	24	15	18	40	1.90
1608920--1609012	23	4.0	23	85	1	78	26	15	18	39	1.90
1610075--1610147	31	2.4	31	95	0	128	13	13	32	39	1.84
1610106--1610705	259	2.3	263	85	6	838	25	14	20	39	1.90
1611029--1611063	18	1.9	18	100	0	70	28	31	5	34	1.81
1614017--1614448	41	10.5	41	82	6	439	27	20	19	33	1.96
1614030--1614448	165	2.6	164	81	8	460	27	20	19	32	1.96
1614017--1614448	124	3.5	123	79	6	437	27	20	19	33	1.96
1617922--1618355	43	10.1	43	85	4	531	24	23	18	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1618508--1618566	17	3.5	17	68	13	50	28	15	8	47	1.74
1618557--1618602	18	2.6	18	92	0	74	32	6	13	47	1.68
1618701--1619102	200	2.0	202	99	0	790	31	18	18	31	1.95
1621593--1621747	43	3.6	43	78	1	166	36	19	14	29	1.91
1624986--1625226	36	6.7	35	81	9	252	45	4	8	42	1.53
1624987--1625230	109	2.2	107	83	7	305	45	4	8	41	1.54
1624976--1625230	37	7.0	36	79	13	254	45	3	8	42	1.52
1625271--1625330	4	14.5	4	78	15	52	31	1	0	66	1.01
1625267--1625330	8	7.1	9	80	19	64	32	1	0	65	1.02
1626269--1626359	45	2.0	46	91	2	148	27	19	25	27	1.99
1626378--1626415	20	1.9	20	94	0	67	18	15	34	31	1.92
1626779--1626812	17	2.0	17	100	0	68	64	11	0	23	1.26
1630746--1630987	54	4.5	53	81	9	278	21	25	18	34	1.96
1630781--1630982	108	1.9	108	90	0	323	20	26	17	35	1.95
1630781--1631036	108	2.4	107	82	9	254	22	26	16	33	1.95
1630947--1631589	55	11.8	55	87	2	902	29	25	14	31	1.94
1630955--1631589	164	3.9	164	90	1	961	29	24	14	31	1.94
1630965--1631598	219	2.9	219	89	1	952	29	24	14	31	1.95
1630947--1631589	329	2.0	327	89	1	984	29	25	14	31	1.94
1632038--1632179	37	3.8	37	87	1	196	23	18	21	37	1.94
1637241--1637283	6	7.2	6	87	7	61	51	16	16	16	1.77
1637245--1637280	13	2.8	13	91	4	56	50	16	16	16	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1641583--1641661	22	3.6	22	75	11	81	26	25	22	25	2.00
1641583--1641680	21	4.6	20	73	15	65	25	22	24	27	2.00
1647514--1647604	45	2.0	46	93	2	157	28	19	24	27	1.99
1647624--1647661	20	1.9	20	94	0	67	18	15	34	31	1.92
1649739--1649781	13	3.2	13	83	6	50	16	4	0	79	0.90
1653051--1653482	74	5.9	74	92	1	699	35	14	12	38	1.83
1656864--1656978	3	38.3	3	94	0	203	63	0	2	33	1.08
1660621--1660661	14	2.9	14	92	0	64	26	9	2	60	1.40
1660905--1661231	74	4.4	74	94	1	559	34	13	13	38	1.84
1663681--1663789	19	5.3	19	71	15	83	20	22	21	36	1.95
1663681--1663822	42	3.4	42	95	1	243	21	21	19	36	1.95
1663681--1663822	21	6.8	21	74	15	109	21	21	19	36	1.95
1664688--1664761	21	3.6	21	76	7	89	33	24	21	20	1.97
1664660--1664755	40	2.3	42	94	3	169	35	21	19	22	1.96
1665390--1665492	52	2.0	52	96	0	188	22	23	12	41	1.88
1669988--1670090	52	2.0	52	96	0	188	22	23	12	41	1.88
1670432--1670529	51	1.9	51	85	0	133	14	30	32	22	1.93
1677664--1677703	10	4.0	10	90	0	53	60	0	5	35	1.19
1677658--1677695	13	2.9	14	84	7	53	60	0	2	36	1.11
1677873--1677976	40	2.5	40	76	4	109	26	17	31	24	1.97
1677900--1678208	135	2.3	134	83	7	364	24	18	29	27	1.98
1691965--1692043	26	2.8	27	75	17	70	3	18	7	69	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1696550--1696652	3	34.7	3	98	1	199	66	0	0	33	0.92
1698113--1698220	22	4.9	22	86	0	153	29	22	20	27	1.98
1698113--1698223	44	2.5	44	91	0	177	29	21	20	27	1.98
1700587--1700660	20	3.7	20	96	0	139	37	6	29	25	1.82
1706145--1706504	59	6.1	59	92	0	558	37	11	23	27	1.90
1718595--1718836	59	4.1	59	89	3	371	37	11	23	26	1.90
1719009--1719329	59	5.4	59	89	0	482	37	11	23	27	1.89
1723431--1723465	17	2.1	17	100	0	70	31	11	28	28	1.92
1727469--1727553	23	3.7	23	76	4	73	18	27	21	32	1.97
1727514--1727566	24	2.2	24	86	6	72	26	24	16	32	1.97
1730684--1730744	21	3.0	20	69	23	54	19	9	3	67	1.34
1732305--1732372	21	3.2	21	82	0	91	36	19	20	23	1.95
1736406--1736452	11	4.3	11	78	8	51	14	8	6	70	1.32
1742410--1742443	3	11.3	3	100	0	68	35	0	0	64	0.94
1744852--1744891	19	2.1	19	86	9	55	57	2	5	35	1.34
1756122--1756197	8	9.6	8	69	18	52	76	1	14	7	1.07
1756138--1756191	26	2.1	25	86	3	72	79	0	12	7	0.92
1756144--1756206	13	4.8	13	80	7	65	76	0	14	9	1.02
1757070--1757424	136	2.6	135	87	2	487	35	16	22	24	1.95
1757344--1757516	91	1.9	92	89	3	269	40	14	20	24	1.90
1760348--1760387	19	2.1	19	86	9	55	57	2	5	35	1.34
1761267--1761353	45	1.9	45	83	4	113	42	5	9	42	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1761312--1761374	32	2.0	32	87	0	90	36	7	7	47	1.62
1761155--1761511	175	2.0	175	86	4	497	39	5	9	45	1.59
1761551--1761641	32	2.8	31	75	8	83	39	2	5	52	1.37
1762334--1762387	20	2.7	20	94	0	99	18	18	37	25	1.94
1762629--1762661	14	2.3	15	89	5	50	60	3	0	36	1.12
1765046--1765118	23	3.4	22	81	10	71	31	13	28	26	1.94
1766532--1766579	17	3.0	15	77	14	51	56	27	0	16	1.41
1767715--1767790	23	3.5	21	81	13	82	22	26	27	23	1.99
1767725--1767791	23	3.0	22	84	6	89	23	23	29	22	1.99
1773853--1773906	20	2.6	21	85	2	74	29	16	27	25	1.97
1777288--1777335	18	2.7	17	87	9	69	29	27	4	39	1.75
1777434--1777465	14	2.1	16	88	11	50	65	0	0	34	0.93
1777571--1777606	3	12.0	3	100	0	72	66	0	0	33	0.92
1778505--1778534	16	1.9	15	93	6	51	30	3	0	66	1.07
1780504--1780589	33	2.6	33	86	0	109	52	18	13	15	1.75
1781534--1781564	2	15.5	2	100	0	62	48	0	0	51	1.00
1790885--1790929	13	3.3	13	79	11	54	68	2	0	28	1.01
1790884--1790934	21	2.4	21	87	6	68	66	3	0	29	1.09
1791463--1791508	20	2.2	21	88	3	67	23	2	4	69	1.17
1791461--1791510	21	2.4	22	83	10	68	26	2	4	68	1.18
1792041--1792135	42	2.3	42	85	3	120	21	13	16	48	1.81
1792369--1792417	22	2.2	22	88	0	71	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1792361--1792419	30	1.9	32	89	6	95	50	0	0	49	1.00
1792484--1792554	19	3.7	18	72	10	52	49	1	1	47	1.18
1792549--1792593	23	2.0	23	81	0	54	51	4	2	42	1.34
1793680--1794557	198	4.6	196	80	11	879	42	1	13	42	1.55
1793680--1794557	378	2.3	372	81	12	963	42	1	13	42	1.55
1794438--1794494	29	2.0	27	83	16	71	33	0	1	64	1.04
1794026--1794557	180	2.9	175	78	13	560	41	1	13	43	1.53
1801364--1801419	19	2.8	20	86	5	78	41	12	10	35	1.78
1804584--1804616	14	2.4	14	90	10	50	3	18	0	78	0.87
1818075--1818124	24	2.1	24	88	0	73	16	16	14	54	1.72

Tables:   1   2   3   4   5   6   7   8