genome.fa.s417.2.7.7.80.10.50.1000.8.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: VEPZ01000417.1 Hibiscus syriacus cultivar Beakdansim tig00000764_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2005044

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1058 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)
1555779--1555873	27	3.5	27	88	0	91	29	24	30	15	1.96
1555883--1555963	27	3.0	27	94	0	135	27	20	40	11	1.86
1562484--1562518	7	5.0	7	96	0	61	60	0	0	40	0.97
1570012--1570241	115	2.0	115	99	0	451	45	6	14	33	1.71
1573190--1573333	70	2.0	71	95	1	263	37	23	13	25	1.92
1574138--1574221	42	2.0	42	92	0	141	32	19	15	33	1.93
1575282--1575324	19	2.3	19	100	0	86	23	18	13	44	1.86
1575477--1575517	21	2.0	21	85	9	57	48	9	17	24	1.76
1575719--1575843	61	2.0	63	93	6	220	23	23	16	37	1.93
1577984--1578008	8	3.1	8	100	0	50	0	40	0	60	0.97
1580217--1580257	3	13.7	3	100	0	82	34	0	0	65	0.93
1580734--1580806	38	1.9	38	94	0	128	49	0	0	50	1.00
1581130--1581177	23	2.1	23	88	0	69	35	12	18	33	1.89
1581602--1581664	23	2.7	23	92	0	99	38	20	4	36	1.74
1582077--1582160	37	2.2	38	87	4	116	19	14	17	48	1.81
1582417--1582453	18	2.1	18	89	0	56	51	10	5	32	1.60
1582885--1582942	23	2.6	23	88	2	82	39	17	5	37	1.72
1582880--1582942	22	2.8	22	85	2	90	38	20	4	36	1.74
1585799--1586286	183	2.7	183	94	1	847	34	17	14	34	1.90
1587737--1587802	3	22.0	3	76	0	60	24	34	6	34	1.80
1589276--1590424	196	5.8	198	96	1	2053	32	16	14	36	1.89
1589276--1590424	393	2.9	396	96	1	2071	32	16	14	36	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1592349--1592414	33	2.0	33	90	0	105	22	48	0	28	1.51
1592448--1592511	21	3.1	20	75	6	65	17	31	14	37	1.89
1594909--1594955	20	2.3	20	89	10	78	17	17	10	55	1.69
1594698--1595166	178	2.6	179	88	3	658	26	16	14	42	1.87
1595231--1595703	225	2.1	223	94	2	824	39	7	8	44	1.63
1602933--1602972	20	2.0	20	95	4	73	42	10	25	22	1.84
1602931--1602981	20	2.8	19	83	13	63	41	9	25	23	1.85
1603121--1603202	39	2.1	39	84	8	105	52	2	0	45	1.14
1609417--1609492	32	2.4	32	95	0	134	35	18	21	25	1.95
1616216--1616387	93	1.9	93	90	6	280	37	6	8	47	1.59
1620529--1620575	14	3.4	14	80	11	53	42	4	2	51	1.33
1621855--1621880	2	13.0	2	100	0	52	50	0	0	50	1.00
1629811--1630358	270	2.0	269	96	0	1015	30	19	20	29	1.97
1635213--1635317	42	2.5	44	81	13	121	45	0	1	51	1.18
1635368--1635400	14	2.4	14	85	5	50	42	3	0	54	1.15
1636669--1636706	2	19.0	2	100	0	76	50	0	0	50	1.00
1637501--1637564	32	2.0	32	100	0	128	37	15	9	37	1.80
1640349--1640403	24	2.3	24	83	0	65	49	7	10	32	1.65
1647749--1648068	161	2.0	158	98	1	613	27	13	24	34	1.93
1649007--1649040	2	17.0	2	93	0	59	0	52	0	47	1.00
1649933--1649998	29	2.3	28	86	5	87	19	22	31	25	1.98
1655703--1655764	12	5.7	11	76	14	58	40	0	0	59	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1655703--1655751	3	16.7	3	79	12	57	36	0	0	63	0.95
1661216--1661247	15	2.1	15	94	0	55	28	18	6	46	1.73
1669369--1670197	92	9.0	92	95	0	1417	28	14	22	34	1.93
1670884--1671782	113	7.8	113	86	5	970	40	12	18	29	1.87
1670881--1671675	229	3.5	224	82	6	942	38	12	18	30	1.88
1671592--1671818	124	1.8	123	89	0	355	42	13	18	25	1.87
1671594--1671887	124	2.4	123	83	5	344	43	14	19	22	1.87
1672019--1672088	3	23.7	3	82	8	90	35	1	0	62	1.04
1676508--1676605	48	2.0	48	100	0	196	33	14	15	36	1.88
1680184--1680214	2	15.5	2	100	0	62	48	0	51	0	1.00
1681536--1681579	16	3.0	15	83	9	56	38	25	15	20	1.92
1682975--1683006	2	16.0	2	100	0	64	50	0	0	50	1.00
1683512--1683556	22	2.0	22	83	8	56	44	2	0	53	1.13
1705727--1705755	10	2.9	10	100	0	58	51	20	20	6	1.70
1706296--1706743	182	2.5	182	91	1	702	28	15	12	43	1.82
1706622--1707868	112	11.1	112	91	0	1935	25	15	13	46	1.82
1706622--1707868	337	3.7	336	92	1	1991	25	15	13	46	1.82
1708325--1708396	20	3.5	20	88	1	99	40	18	23	18	1.91
1708385--1708438	20	2.7	20	97	0	99	31	24	18	25	1.97
1708983--1709069	19	4.5	19	86	4	120	48	25	16	10	1.77
1709065--1709249	19	10.1	19	74	14	156	12	21	21	43	1.86
1709065--1709249	33	5.1	38	77	13	147	12	21	21	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1709189--1709249	20	3.1	19	76	17	61	14	24	16	44	1.85
1711244--1711366	42	2.9	42	80	2	122	22	36	17	22	1.95
1711300--1711366	21	3.2	21	66	6	55	23	35	20	19	1.95
1712715--1712750	14	2.6	14	95	0	63	30	0	25	44	1.54
1712909--1713059	19	8.7	19	63	21	71	15	22	19	41	1.90
1712913--1713039	33	3.9	32	85	8	184	15	22	18	42	1.89
1712906--1713038	66	2.0	66	95	0	239	17	22	18	41	1.90
1715326--1715350	12	2.1	12	100	0	50	0	28	0	72	0.86
1715522--1715575	24	2.2	24	90	0	81	38	20	16	24	1.92
1716634--1716691	20	2.9	20	94	0	98	37	22	22	17	1.93
1716710--1716795	19	4.9	18	87	9	117	13	20	17	47	1.82
1716710--1716805	38	2.8	32	82	15	129	13	20	18	46	1.83
1718818--1718875	14	3.4	18	71	24	54	46	22	18	12	1.82
1718834--1718891	14	3.9	14	77	16	62	50	25	15	8	1.73
1718818--1718896	32	2.4	33	93	2	133	48	24	17	10	1.78
1718903--1718984	18	4.6	19	80	14	86	12	19	21	46	1.82
1718970--1719012	20	2.2	20	87	4	61	18	23	20	37	1.94
1718978--1719023	20	2.3	20	88	0	65	15	21	26	36	1.93
1719496--1719540	18	2.5	18	85	0	54	15	15	40	28	1.88
1720859--1720896	20	1.9	20	88	0	58	50	21	15	13	1.78
1721160--1721203	22	2.0	22	95	0	79	18	15	45	20	1.85
1721412--1721489	41	1.9	41	86	0	111	21	16	21	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1721392--1721486	20	4.7	20	80	2	91	23	17	24	34	1.96
1721412--1721507	41	2.3	41	80	3	104	20	19	21	37	1.94
1724733--1724925	66	2.9	66	83	2	235	39	7	15	38	1.75
1725473--1725524	15	3.5	15	89	0	77	7	67	15	9	1.41
1726215--1726244	2	15.0	2	100	0	60	50	0	0	50	1.00
1730429--1730506	39	2.0	39	100	0	156	38	12	20	28	1.89
1741767--1741889	45	2.7	46	81	3	142	43	8	11	37	1.71
1751458--1751509	18	2.9	18	97	0	95	17	23	34	25	1.96
1756921--1756979	28	2.1	28	81	12	68	47	1	1	49	1.21
1757835--1757881	19	2.5	19	82	6	60	31	2	2	63	1.18
1758065--1758107	15	3.0	15	80	10	54	39	0	9	51	1.34
1758299--1758334	17	2.1	17	100	0	72	44	22	11	22	1.84
1765319--1765357	20	2.0	20	100	0	78	30	25	15	28	1.96
1765320--1765368	20	2.5	20	89	0	71	34	22	12	30	1.91
1769466--1769513	15	3.1	15	88	5	69	83	0	16	0	0.65
1769466--1769513	16	3.1	16	88	5	73	83	0	16	0	0.65
1769466--1769506	8	5.2	8	91	2	66	85	0	14	0	0.60
1769707--1769773	4	17.2	4	75	14	52	77	0	4	17	0.93
1769705--1769772	31	2.2	31	84	10	86	77	0	4	17	0.92
1769906--1769931	2	13.0	2	100	0	52	50	0	0	50	1.00
1778645--1778692	21	2.3	20	79	10	60	22	27	16	33	1.96
1779671--1779721	24	2.3	23	86	10	70	19	17	21	41	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1782069--1782123	19	2.8	19	83	2	65	38	21	21	18	1.94
1782096--1782222	33	3.8	33	95	0	218	45	18	24	11	1.82
1782076--1782226	19	8.7	18	67	22	83	44	19	24	11	1.84
1784315--1784376	19	3.7	17	77	16	67	41	22	24	11	1.86
1784507--1784792	94	3.1	93	93	1	473	48	18	11	21	1.79
1786469--1786569	20	5.5	19	75	15	95	45	20	23	9	1.81
1786541--1786586	24	1.9	24	95	0	83	47	19	21	10	1.80
1786606--1786664	21	2.9	21	77	7	68	10	18	18	52	1.73
1787204--1787261	21	2.8	21	86	2	73	22	18	18	39	1.92
1787227--1787300	21	3.6	20	78	7	58	29	17	25	27	1.97

Tables:   1   2   3   4   5   6   7   8   9