genome.fa.s7936.2.7.7.80.10.50.1000.8.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: VEPZ01007936.1 Hibiscus syriacus cultivar Beakdansim tig00110346_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2869312

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

This is table  8  of  11  ( 1292 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)
1697010--1697055	22	2.0	23	87	4	67	45	4	8	41	1.55
1698758--1698822	32	2.0	32	93	0	112	46	1	13	38	1.53
1698764--1698831	32	2.2	30	84	7	84	50	1	13	35	1.51
1700636--1700688	3	17.7	3	100	0	106	66	0	0	33	0.92
1701232--1701277	21	2.2	21	92	0	74	28	19	17	34	1.94
1701414--1701438	9	2.8	9	100	0	50	60	0	0	40	0.97
1701401--1701471	25	2.9	24	76	15	65	71	1	0	26	0.94
1701433--1701481	25	2.0	25	83	0	62	73	4	2	20	1.10
1701777--1701842	22	3.0	21	73	8	53	28	1	4	65	1.21
1706265--1706382	42	2.8	42	96	1	211	24	5	19	50	1.67
1706566--1706601	9	4.1	9	92	7	65	11	0	33	55	1.35
1706566--1706601	17	2.1	18	94	5	65	11	0	33	55	1.35
1709627--1709675	22	2.1	22	81	7	53	22	16	16	44	1.86
1713869--1714387	288	1.8	285	91	2	869	35	10	12	41	1.77
1714942--1715402	54	8.5	54	91	2	712	38	17	11	32	1.85
1715720--1715895	94	1.9	95	85	3	248	27	19	13	39	1.90
1722007--1722523	54	9.6	54	89	0	748	38	17	11	32	1.86
1722908--1722964	20	2.8	20	86	5	69	24	24	12	38	1.90
1726397--1726480	2	42.0	2	100	0	168	50	0	0	50	1.00
1727658--1727844	93	2.0	93	95	0	338	35	8	12	43	1.72
1727915--1727948	2	17.0	2	100	0	68	50	0	0	50	1.00
1732893--1732965	6	12.0	6	89	2	83	34	0	65	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1732906--1732965	18	3.3	18	88	0	93	38	0	61	0	0.96
1734540--1734594	24	2.3	23	84	9	67	47	1	0	50	1.11
1734550--1734594	23	1.9	24	90	4	74	46	0	0	53	1.00
1735692--1735735	15	2.8	15	86	6	61	15	31	27	25	1.96
1735695--1735725	7	4.3	7	92	8	53	16	32	25	25	1.96
1738247--1738362	24	4.8	24	85	6	146	23	15	18	42	1.89
1738248--1738379	24	5.5	24	83	8	110	21	14	18	44	1.86
1738546--1738595	2	25.5	2	95	4	93	50	0	0	50	1.00
1743395--1743432	14	2.4	16	79	20	53	23	5	10	60	1.50
1743401--1743430	14	2.1	14	100	0	60	26	6	13	53	1.64
1746992--1747020	15	1.9	15	100	0	58	6	24	0	68	1.13
1754007--1754049	18	2.4	18	80	3	52	23	18	4	53	1.63
1755186--1755249	33	1.9	33	84	6	85	45	7	18	28	1.77
1758635--1758666	14	2.3	14	100	0	64	34	12	25	28	1.92
1759184--1759223	21	1.9	21	89	0	62	25	40	25	10	1.86
1764647--1764679	14	2.4	14	90	5	50	78	3	6	12	1.04
1766112--1766146	17	2.1	17	88	0	52	54	11	0	34	1.37
1766808--1766869	33	1.9	31	84	12	81	33	1	20	43	1.62
1768482--1768536	19	2.9	19	88	0	74	41	5	20	32	1.75
1781568--1781603	18	2.0	18	94	0	63	13	22	25	38	1.91
1791078--1791244	90	1.9	90	94	0	298	47	5	11	34	1.65
1797868--1798043	90	2.0	90	91	0	289	44	7	11	36	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1812292--1812335	16	2.8	16	85	0	61	22	9	2	65	1.32
1818220--1818269	20	2.5	20	80	6	57	36	16	28	20	1.93
1818293--1818346	19	2.6	22	74	17	69	38	14	14	31	1.87
1818702--1819219	55	9.4	55	86	1	727	34	11	19	34	1.88
1818702--1819219	110	4.7	110	90	1	815	34	11	19	34	1.88
1820681--1820720	17	2.3	18	95	4	73	37	12	35	15	1.85
1825123--1825173	20	2.5	21	78	9	61	41	15	21	21	1.90
1825604--1825780	55	3.2	55	91	2	248	36	10	19	33	1.86
1827933--1827983	17	3.0	17	85	0	66	39	17	9	33	1.83
1830400--1830866	236	2.0	237	91	0	756	33	18	15	32	1.92
1832209--1832247	16	2.4	17	82	4	53	30	15	12	41	1.85
1832323--1832375	17	3.1	17	83	0	70	39	16	7	35	1.78
1835180--1835221	15	2.9	15	89	3	59	71	0	14	14	1.15
1841050--1841138	22	4.0	22	91	0	124	29	20	23	26	1.99
1847233--1847281	20	2.5	20	96	0	89	32	16	20	30	1.94
1851521--1851624	5	20.6	5	67	16	54	70	3	3	22	1.20
1851520--1851568	20	2.5	20	86	6	73	73	2	0	24	0.94
1851577--1851620	13	3.1	13	84	15	52	77	2	4	15	1.04
1861218--1861247	15	2.0	15	100	0	60	46	0	0	53	1.00
1861217--1861249	17	1.9	17	100	0	66	48	0	0	51	1.00
1861217--1861250	2	17.5	2	93	6	61	50	0	0	50	1.00
1874729--1874823	3	31.3	3	72	6	75	41	2	0	56	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1875896--1875948	2	26.5	2	100	0	106	49	0	0	50	1.00
1877948--1877980	16	1.9	18	88	11	52	42	27	6	24	1.78
1882351--1882412	32	1.9	32	87	6	90	43	19	17	19	1.88
1886258--1886410	54	2.8	54	83	3	184	37	15	20	26	1.92
1886778--1886832	22	2.5	22	93	0	92	32	14	12	40	1.84
1887487--1887935	45	10.0	45	93	0	745	23	22	19	34	1.96
1888122--1888188	3	22.3	3	78	6	64	40	1	0	58	1.07
1888106--1888176	29	2.5	29	88	2	99	42	1	0	56	1.08
1889529--1889567	2	19.5	2	100	0	78	48	0	0	51	1.00
1890055--1890109	14	3.8	13	81	13	56	30	1	0	67	1.01
1890055--1890087	13	2.4	14	90	5	50	33	3	0	63	1.10
1889929--1890322	151	2.7	146	82	11	405	41	6	7	44	1.59
1893665--1893719	2	28.0	2	78	10	51	45	9	0	45	1.35
1896295--1896429	55	2.5	54	86	3	180	28	20	17	34	1.95
1902561--1902605	22	2.1	21	84	8	56	40	17	17	24	1.91
1902912--1903128	55	3.9	55	90	4	330	29	17	16	36	1.92
1902911--1903156	55	4.5	55	88	0	312	29	17	17	36	1.92
1905620--1905691	21	3.6	19	72	10	63	25	13	27	33	1.94
1906162--1906217	21	2.7	21	97	0	103	51	28	0	19	1.47
1913542--1913584	20	2.2	20	87	4	61	34	9	6	48	1.62
1914323--1914365	6	7.2	6	84	10	61	81	2	16	0	0.79
1914323--1914365	19	2.4	17	84	7	59	81	2	16	0	0.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1914320--1914365	25	1.9	23	91	8	74	80	4	15	0	0.86
1914617--1914652	17	2.1	17	89	0	54	30	30	0	38	1.58
1917636--1917678	20	2.2	20	87	4	61	34	9	6	48	1.62
1920784--1921089	153	2.0	153	98	0	585	26	28	11	32	1.92
1924703--1924756	16	3.5	15	82	12	65	24	3	1	70	1.13
1931734--1931957	117	1.9	117	95	0	403	31	19	32	16	1.94
1931723--1931975	117	2.2	117	88	0	398	33	19	31	15	1.93
1931723--1932038	117	2.7	116	84	3	350	33	19	31	14	1.92
1932279--1932598	162	2.0	160	96	3	592	28	18	29	23	1.98
1932801--1932834	14	2.3	15	90	5	52	17	11	32	38	1.86
1934865--1934908	19	2.2	21	84	8	56	22	13	18	45	1.84
1937391--1937443	2	27.0	2	96	3	99	50	0	0	49	1.00
1939867--1939931	30	2.2	30	91	2	105	30	20	4	44	1.71
1944029--1944137	40	2.7	40	94	0	191	23	15	26	33	1.95
1945313--1945419	24	4.5	24	75	0	106	47	16	14	20	1.82
1945313--1945421	48	2.3	48	78	0	128	47	16	15	20	1.82
1947910--1947946	13	2.8	13	100	0	74	10	24	48	16	1.77
1947899--1947933	18	1.9	18	100	0	70	11	22	48	17	1.79
1950072--1950178	24	4.5	24	74	4	99	47	15	14	21	1.82
1950072--1950180	48	2.3	48	77	3	121	47	15	15	21	1.82
1952642--1952687	15	3.2	15	87	6	60	21	21	39	17	1.93
1952670--1952715	18	2.6	18	92	0	83	8	19	54	17	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1952649--1952693	13	3.3	13	87	6	54	17	20	44	17	1.87
1960397--1960505	40	2.7	40	95	0	191	24	15	25	33	1.95
1962968--1963019	19	2.6	21	90	6	81	46	5	13	34	1.67
1967527--1967560	18	1.9	18	88	5	52	20	8	23	47	1.78
1970837--1970941	50	2.1	50	92	0	183	33	5	13	47	1.66
1988043--1988070	2	14.0	2	100	0	56	50	0	0	50	1.00
1999396--1999517	38	3.3	37	75	15	110	25	22	9	42	1.84
2000149--2000416	117	2.3	116	80	7	292	34	14	21	29	1.93
2000671--2000755	43	1.9	46	88	7	131	65	0	15	18	1.26
2000670--2000769	43	2.3	45	79	11	127	68	0	14	18	1.22

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