genome.fa.s8280.2.7.7.80.10.50.1000.8.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: VEPZ01008280.1 Hibiscus syriacus cultivar Beakdansim tig00110940_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3557051

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  8  of  17  ( 1944 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)
1658806--1658877	37	2.0	36	88	2	108	38	19	19	22	1.93
1658882--1659052	51	3.3	51	80	9	184	28	15	23	32	1.95
1674572--1674627	25	2.2	25	100	0	112	39	0	10	50	1.37
1675560--1675603	23	2.0	21	86	8	61	47	2	0	50	1.13
1676617--1676887	42	6.5	42	93	0	454	19	19	23	36	1.95
1677293--1677322	12	2.5	12	100	0	60	36	13	20	30	1.90
1677372--1677398	6	4.5	6	100	0	54	0	14	51	33	1.43
1677513--1677632	62	1.9	62	88	3	179	31	22	21	24	1.98
1677516--1677636	21	5.8	21	77	7	122	29	23	22	24	1.99
1681954--1681981	14	2.0	14	100	0	56	7	14	21	57	1.61
1681973--1682030	24	2.3	25	91	5	91	13	3	13	68	1.33
1682207--1682310	24	4.4	24	81	1	120	14	11	15	58	1.63
1682705--1682746	21	2.0	21	85	0	57	50	14	0	35	1.43
1687149--1687174	5	5.2	5	100	0	52	0	19	0	80	0.71
1697654--1697689	2	18.0	2	100	0	72	50	0	0	50	1.00
1704323--1704371	23	2.1	23	84	0	62	32	20	14	32	1.92
1705317--1705869	249	2.2	251	87	7	780	26	13	19	39	1.89
1710637--1710848	72	3.0	71	79	7	227	30	11	10	47	1.73
1711643--1711673	2	15.5	2	93	0	53	51	3	0	45	1.17
1711809--1711855	24	1.9	25	83	12	62	19	4	4	72	1.18
1711809--1711855	25	1.9	24	83	12	60	19	4	4	72	1.18
1715877--1715917	22	2.0	20	85	9	55	48	0	4	46	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1728999--1729115	60	2.0	60	81	3	137	29	22	20	28	1.98
1732918--1732983	9	8.0	8	73	17	55	68	3	3	25	1.19
1732945--1732983	16	2.4	17	87	12	64	69	0	5	25	1.09
1732968--1732993	12	2.2	12	100	0	52	61	0	7	30	1.24
1733012--1733046	18	1.9	18	88	11	54	62	0	5	31	1.18
1733053--1733091	17	2.3	17	86	8	53	71	7	2	17	1.21
1734221--1734258	2	19.5	2	94	5	69	52	0	0	47	1.00
1734821--1734873	2	27.0	2	96	3	99	50	0	0	49	1.00
1735362--1735553	65	3.0	64	78	11	178	31	20	17	30	1.96
1735541--1735592	19	2.7	19	96	0	95	21	30	21	26	1.98
1741322--1741380	25	2.4	25	100	0	118	25	8	15	50	1.71
1741533--1741608	23	3.4	23	76	8	95	26	25	22	26	2.00
1741514--1741612	44	2.3	43	89	6	148	29	26	19	25	1.98
1741532--1741632	44	2.3	43	85	5	141	29	23	21	24	1.99
1743843--1743875	16	2.0	17	94	5	59	42	0	45	12	1.41
1744297--1744403	44	2.4	46	92	3	173	29	20	19	29	1.97
1745704--1745773	34	2.0	35	83	8	90	65	0	2	31	1.07
1747167--1747202	12	2.8	13	83	8	56	69	0	0	30	0.89
1747156--1747222	29	2.4	28	80	7	73	68	1	0	29	0.98
1753110--1753148	17	2.3	17	86	0	60	17	2	5	74	1.12
1755276--1755368	2	46.5	2	100	0	186	50	0	0	49	1.00
1757124--1757210	34	2.5	34	81	5	104	60	1	2	35	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1762099--1762131	16	2.1	16	100	0	66	57	24	12	6	1.57
1762197--1762271	10	7.7	10	69	21	61	57	21	12	9	1.62
1762201--1762265	16	4.1	16	95	0	121	56	23	12	7	1.61
1763010--1763057	10	4.4	10	78	19	51	54	22	12	10	1.68
1763017--1763047	14	2.2	14	94	0	53	54	22	12	9	1.67
1762997--1763058	24	2.6	24	89	5	90	54	19	12	12	1.70
1764435--1764468	8	4.4	8	92	7	61	76	0	0	23	0.79
1764429--1764470	7	5.9	7	91	8	59	71	0	0	28	0.86
1771134--1771169	17	2.1	18	89	5	56	61	5	16	16	1.53
1771821--1771868	2	24.0	2	95	0	87	47	2	0	50	1.12
1779365--1779406	20	2.0	21	90	4	68	40	9	14	35	1.78
1799827--1800309	121	4.0	121	95	0	835	26	13	17	43	1.85
1800326--1800365	2	20.5	2	94	5	73	50	0	0	50	1.00
1800694--1800767	26	2.8	26	80	13	89	33	0	2	63	1.09
1801233--1801299	16	4.2	15	81	7	62	50	31	10	7	1.64
1801271--1801332	16	3.8	17	89	4	85	43	30	14	11	1.80
1801271--1801334	33	2.0	32	87	9	94	42	29	14	14	1.84
1804154--1804186	18	1.9	18	88	11	52	69	6	12	12	1.35
1805136--1805160	7	3.6	7	100	0	50	28	12	32	28	1.92
1808911--1808948	2	19.0	2	100	0	76	50	0	0	50	1.00
1809267--1809295	2	15.0	2	92	7	51	51	0	0	48	1.00
1812748--1812792	21	2.1	21	87	0	63	31	28	24	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1816898--1816930	14	2.2	15	89	10	50	12	0	30	57	1.35
1816898--1816924	14	1.9	14	100	0	54	14	0	29	55	1.40
1817112--1817176	31	2.1	31	88	5	96	29	0	12	58	1.34
1817156--1817242	22	4.1	22	91	5	135	17	3	22	56	1.56
1817876--1817926	24	2.1	24	82	7	59	23	33	11	31	1.91
1817887--1817936	24	2.1	24	88	7	75	20	32	16	32	1.94
1818295--1818458	30	5.7	29	77	13	187	28	4	20	45	1.72
1818331--1818428	27	3.5	27	80	13	126	27	6	19	46	1.73
1818301--1818458	57	2.8	57	95	0	289	27	5	20	46	1.71
1819771--1819829	31	1.9	31	96	0	109	42	8	6	42	1.61
1826261--1826292	16	2.0	17	88	11	50	43	21	21	12	1.86
1826497--1826544	24	2.0	24	100	0	96	33	8	20	37	1.83
1827651--1827692	21	2.0	21	85	0	57	50	0	0	50	1.00
1830272--1830399	64	2.0	64	100	0	256	43	17	23	15	1.87
1830922--1830953	15	2.1	15	100	0	64	34	12	15	37	1.85
1830937--1831357	138	3.1	138	94	0	727	23	21	22	32	1.98
1831487--1831608	61	2.0	59	92	6	201	37	0	23	37	1.61
1831808--1831880	34	2.1	34	92	0	119	36	6	6	49	1.56
1833469--1833510	21	2.0	21	90	0	66	21	42	4	30	1.73
1834216--1834260	20	2.2	20	80	0	54	66	0	0	33	0.92
1834214--1834329	55	2.2	53	80	12	121	62	1	0	36	1.06
1834238--1834307	30	2.4	29	82	2	77	58	1	0	40	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1838924--1839032	52	2.1	52	98	0	209	27	4	29	38	1.77
1839377--1839454	23	3.4	23	81	0	75	42	6	15	35	1.73
1839361--1839456	46	2.2	45	81	9	117	42	7	14	35	1.74
1839439--1839522	28	3.0	28	98	0	159	41	10	19	28	1.84
1841546--1841873	180	1.8	178	96	3	606	27	9	19	43	1.82
1843350--1843654	153	2.0	152	96	3	560	25	12	34	28	1.92
1845911--1845955	22	2.1	22	84	12	58	48	4	4	42	1.43
1848355--1848417	23	2.7	23	85	0	81	20	23	26	28	1.99
1848917--1848958	21	2.0	21	95	0	75	35	4	16	42	1.69
1849337--1849472	68	2.0	68	95	0	245	41	5	30	22	1.77
1850810--1850855	20	2.2	21	78	21	53	23	2	8	65	1.32
1858956--1858982	5	5.4	5	100	0	54	18	0	0	81	0.69
1858982--1859034	2	27.0	2	96	3	99	49	0	0	50	1.00
1859048--1859301	75	3.5	71	78	10	253	45	1	7	45	1.43
1859017--1859291	111	2.5	108	81	12	301	45	2	6	45	1.42
1859017--1859341	37	8.7	37	75	11	240	44	2	7	45	1.44
1859352--1859407	21	2.6	22	83	13	73	21	3	0	75	0.96
1860534--1860590	2	28.5	2	100	0	114	49	0	0	50	1.00
1860590--1860614	2	12.5	2	100	0	50	0	0	48	52	1.00
1860750--1860805	18	3.4	16	80	9	51	16	3	1	78	0.97
1860737--1860804	23	2.8	26	70	22	65	17	2	1	77	0.96
1860673--1860895	13	16.8	13	68	19	97	18	4	4	73	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1860666--1860895	22	10.4	21	63	26	68	18	3	3	73	1.14
1864074--1864116	16	2.7	16	88	0	59	20	27	16	34	1.94
1865140--1865200	20	3.0	20	87	0	86	57	16	14	11	1.65
1865535--1865650	31	3.7	31	88	0	178	25	2	21	50	1.62
1865733--1867262	210	7.3	210	93	2	2482	27	12	8	51	1.68
1869521--1869582	22	2.8	22	83	7	72	29	17	24	29	1.97
1871891--1872253	59	6.2	59	80	6	380	37	11	22	28	1.89
1872199--1872373	60	2.9	59	83	4	224	33	12	24	29	1.92
1872526--1872594	22	3.2	22	61	19	54	42	4	15	37	1.68
1872534--1872898	44	8.3	44	88	1	473	38	6	21	33	1.78

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17