genome.fa.s4693.2.7.7.80.10.50.1000.8.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: VEPZ01004693.1 Hibiscus syriacus cultivar Beakdansim tig00010533_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2620943

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   

This is table  8  of  12  ( 1372 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)
1616133--1616177	22	2.0	22	86	0	63	35	11	2	51	1.50
1618427--1618459	2	16.5	2	100	0	66	51	0	0	48	1.00
1624224--1624248	11	2.3	11	100	0	50	64	0	0	36	0.94
1624210--1624245	18	2.0	18	88	0	54	55	0	0	44	0.99
1625885--1626015	67	2.0	66	87	1	190	48	4	1	45	1.32
1625886--1626029	66	2.2	67	84	1	182	51	4	1	43	1.29
1632963--1632996	17	2.0	17	88	0	50	23	20	29	26	1.99
1634199--1634296	43	2.3	40	84	10	117	50	1	2	46	1.19
1634250--1634300	21	2.7	18	70	18	50	49	0	0	50	1.00
1634642--1634679	6	6.5	6	96	3	69	15	28	0	55	1.41
1635411--1635484	30	2.4	31	86	8	98	39	0	1	59	1.06
1637206--1637253	21	2.3	21	85	0	60	25	39	12	22	1.89
1637257--1637350	21	4.5	21	92	5	129	18	35	26	20	1.95
1637885--1637969	33	2.5	34	86	3	118	54	3	3	38	1.35
1637871--1637976	34	3.2	33	81	8	124	53	5	2	37	1.39
1646322--1646388	34	2.0	34	100	0	134	38	2	0	58	1.14
1646328--1646385	19	3.3	19	62	18	52	36	3	0	60	1.14
1647862--1647903	13	3.3	13	87	12	61	66	0	0	33	0.92
1657748--1658332	257	2.2	257	85	7	788	39	19	11	28	1.87
1659126--1659185	14	4.4	14	77	12	61	63	11	1	23	1.37
1672008--1672068	24	2.5	24	94	0	113	44	18	14	22	1.86
1676074--1676236	60	2.7	57	76	12	141	36	17	5	40	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1678782--1678825	21	2.1	21	82	0	52	38	6	2	52	1.41
1678868--1678932	27	2.5	27	73	14	73	67	10	1	20	1.28
1680631--1680758	57	2.2	57	97	0	238	35	12	14	37	1.84
1681601--1681644	21	2.1	21	82	0	52	38	6	2	52	1.41
1681687--1681751	27	2.5	27	73	14	73	67	10	1	20	1.28
1683447--1683574	57	2.2	57	95	0	229	34	12	15	37	1.85
1684649--1684702	20	2.7	19	75	8	63	33	31	18	16	1.93
1684689--1684806	20	5.8	20	70	14	71	37	21	19	22	1.95
1684752--1685027	20	13.6	20	74	8	218	38	24	18	19	1.93
1684752--1685024	81	3.4	81	81	9	297	38	24	18	19	1.93
1684817--1685024	41	5.1	41	91	1	330	37	24	18	19	1.94
1685584--1685691	19	5.4	20	80	7	105	50	18	16	14	1.79
1685582--1685691	40	2.8	40	82	8	136	49	18	16	16	1.81
1685696--1685784	19	5.2	18	65	25	59	11	22	20	46	1.82
1685709--1685797	14	5.6	14	69	23	61	11	23	21	43	1.84
1685696--1685846	33	4.4	33	85	6	194	11	23	19	44	1.84
1685782--1685837	20	2.8	20	84	10	87	14	25	21	39	1.91
1687548--1687829	94	3.1	91	89	5	408	21	11	19	47	1.81
1687917--1687996	33	2.4	33	81	8	99	50	20	18	11	1.77
1688039--1688127	20	4.4	20	97	0	151	19	17	21	41	1.90
1688613--1688654	21	2.2	19	87	12	59	21	35	19	23	1.96
1688609--1688718	42	2.6	42	77	5	107	21	36	19	22	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1690075--1690110	14	2.6	14	90	0	54	30	0	22	47	1.52
1690245--1690324	19	4.4	19	77	16	98	46	17	20	16	1.84
1690212--1690325	52	2.1	54	87	3	169	42	20	21	14	1.88
1690341--1690436	33	2.9	34	90	3	149	13	22	20	42	1.87
1690408--1690501	20	4.7	20	85	2	127	19	20	24	36	1.95
1692917--1692970	24	2.2	24	86	0	72	40	16	18	24	1.90
1693832--1693918	20	4.4	19	94	2	111	21	19	20	37	1.94
1693832--1693937	40	2.7	40	86	8	153	22	19	22	34	1.96
1693968--1694100	20	6.6	20	83	3	176	17	19	26	36	1.94
1693970--1694100	41	3.2	41	94	1	228	17	19	25	37	1.93
1702323--1702359	2	18.5	2	100	0	74	48	0	0	51	1.00
1704963--1705047	42	2.0	42	95	0	152	35	22	21	21	1.96
1714638--1714671	7	4.9	7	88	0	50	47	8	14	29	1.75
1715333--1715386	3	17.3	3	85	14	74	31	0	0	68	0.90
1715333--1715394	22	2.8	22	86	13	92	30	0	1	67	1.00
1715332--1715386	19	2.9	19	89	10	78	30	0	0	69	0.89
1715332--1715394	19	3.4	18	79	14	65	30	0	1	68	0.99
1715502--1715573	25	2.9	25	93	2	119	38	19	15	26	1.91
1715704--1715761	29	2.0	29	100	0	116	44	31	13	10	1.78
1717541--1717584	22	2.0	22	81	0	52	27	4	15	52	1.63
1718300--1718384	42	2.0	42	95	0	152	34	22	22	21	1.97
1727940--1727973	7	4.9	7	88	0	50	47	8	14	29	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1728634--1728683	3	16.3	3	88	12	75	32	0	0	68	0.90
1728799--1728870	25	2.9	25	93	2	119	38	19	15	26	1.91
1729001--1729058	29	2.0	29	100	0	116	44	31	13	10	1.78
1730831--1730874	22	2.0	22	81	0	52	27	4	15	52	1.63
1731590--1731674	42	2.0	42	95	0	152	34	22	22	21	1.97
1739009--1739034	2	13.0	2	100	0	52	50	0	0	50	1.00
1739612--1739950	181	1.9	181	98	0	660	39	11	14	34	1.82
1740821--1740874	26	2.0	27	82	3	65	51	3	3	40	1.37
1743957--1744030	36	2.1	36	84	0	94	33	1	17	47	1.56
1745476--1745502	2	13.5	2	100	0	54	48	0	0	51	1.00
1746367--1746546	60	3.0	60	78	5	175	42	4	20	32	1.72
1753666--1753999	111	3.0	111	100	0	668	29	17	18	34	1.94
1765038--1765141	24	4.3	24	79	4	93	18	13	17	50	1.77
1765080--1765141	12	5.2	12	71	7	54	14	11	17	56	1.67
1765040--1765146	48	2.2	48	83	6	128	19	12	17	50	1.77
1767236--1767263	13	2.2	13	100	0	56	17	42	25	14	1.87
1769003--1769067	24	2.7	23	81	6	85	21	15	16	46	1.84
1769026--1769083	12	4.8	12	73	0	53	17	13	15	53	1.73
1769784--1770316	263	2.0	263	100	0	1066	25	18	22	33	1.97
1771921--1771954	12	2.8	12	95	0	59	32	50	0	17	1.47
1771923--1771956	15	2.3	15	94	0	59	35	50	0	14	1.44
1772838--1772876	6	6.5	6	96	0	60	28	48	0	23	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1781855--1781920	30	2.2	30	84	10	82	39	0	0	60	0.97
1783388--1783415	2	14.0	2	100	0	56	50	0	0	50	1.00
1787054--1787211	21	7.8	20	71	7	86	37	24	17	19	1.93
1787179--1787371	20	9.6	20	84	5	246	34	27	19	18	1.95
1787751--1787821	33	2.2	33	94	0	124	11	23	16	47	1.79
1787901--1787974	21	3.5	20	80	8	94	47	17	20	14	1.83
1787962--1788018	14	3.7	14	70	20	51	45	22	22	8	1.80
1787955--1788034	33	2.4	33	93	0	133	48	22	20	8	1.76
1788060--1788124	21	3.1	21	82	4	96	10	26	15	47	1.78
1788059--1788122	20	3.2	20	82	4	92	12	25	15	46	1.81
1789809--1790124	93	3.4	93	99	0	623	22	13	18	45	1.85
1790240--1790296	14	3.7	14	72	20	51	43	24	22	8	1.81
1790254--1790345	19	5.4	18	72	24	65	46	28	17	7	1.75
1790222--1790345	33	3.7	33	91	1	185	45	27	17	8	1.78
1790271--1790329	14	3.9	14	76	20	64	47	28	16	6	1.72
1790341--1790513	19	9.6	19	76	12	150	10	20	23	45	1.82
1790363--1790419	14	3.7	14	75	20	51	10	22	22	43	1.84
1790341--1790513	33	4.8	37	81	7	164	10	20	23	45	1.82
1792439--1792474	14	2.6	14	95	0	63	33	0	22	44	1.53
1792581--1792659	19	4.4	19	80	16	105	45	17	22	13	1.84
1792668--1793000	19	18.7	19	80	15	410	14	22	17	45	1.84
1792674--1792876	33	5.8	33	76	16	187	13	23	17	45	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1792692--1793014	52	6.2	52	92	6	521	13	22	17	46	1.83
1792765--1793014	33	7.2	33	76	16	256	13	22	18	46	1.83
1795299--1795323	12	2.1	12	100	0	50	0	28	0	72	0.86
1795498--1795544	24	2.0	24	87	8	69	38	21	14	25	1.92
1796237--1796445	20	10.4	20	84	5	226	19	17	26	36	1.93
1798247--1798353	57	1.9	57	86	9	157	28	18	22	29	1.97
1798895--1798941	2	23.5	2	100	0	94	51	0	0	48	1.00
1803722--1803832	57	2.0	56	82	8	136	30	17	22	29	1.96
1805701--1805753	20	2.7	21	82	8	58	43	1	15	39	1.57
1806237--1806297	21	2.9	21	73	11	61	9	13	6	70	1.33

Tables:   1   2   3   4   5   6   7   8   9   10   11   12