genome.fa.s8185.2.7.7.80.10.50.1000.10.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: VEPZ01008185.1 Hibiscus syriacus cultivar Beakdansim tig00110788_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3563405

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

This is table  10  of  16  ( 1911 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)
1886868--1886968	9	10.3	9	69	16	58	32	25	24	16	1.96
1886870--1886907	19	2.0	19	94	0	67	28	31	23	15	1.96
1886874--1886968	10	9.6	10	71	8	54	33	26	23	16	1.96
1886874--1886969	21	4.8	21	79	6	94	33	26	22	17	1.96
1892238--1892304	14	4.5	15	75	17	59	64	0	0	35	0.94
1892259--1892294	16	2.4	14	90	9	54	55	0	0	44	0.99
1892465--1892688	53	4.2	53	90	1	297	21	26	20	31	1.98
1893106--1893244	42	3.3	42	93	0	233	33	21	19	25	1.97
1893129--1893249	20	5.9	19	65	15	53	31	21	19	27	1.98
1893358--1893464	42	2.6	41	80	2	133	29	22	21	26	1.99
1901949--1901985	2	18.5	2	100	0	74	51	0	0	48	1.00
1902098--1902158	21	2.8	21	76	13	54	52	11	3	32	1.54
1903933--1904001	3	23.0	3	72	16	54	59	0	0	40	0.97
1903939--1903986	16	2.9	16	76	11	51	54	0	0	45	0.99
1910140--1910187	22	2.2	22	96	0	87	39	0	4	56	1.19
1910147--1910197	22	2.5	20	82	14	68	43	0	3	52	1.19
1921402--1921435	15	2.3	15	100	0	68	23	26	35	14	1.94
1921401--1921432	7	4.4	7	92	7	55	25	28	34	12	1.92
1921444--1921489	18	2.6	18	92	0	74	10	17	52	19	1.74
1921409--1921467	13	4.3	13	82	8	64	18	22	42	16	1.89
1923575--1923681	24	4.5	24	75	3	110	46	16	15	20	1.84
1926611--1926652	19	2.2	19	100	0	84	61	4	14	19	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1926657--1926691	2	17.5	2	100	0	70	48	0	0	51	1.00
1926812--1926853	12	3.6	12	81	12	52	28	35	16	19	1.93
1927054--1927616	22	25.6	22	89	2	826	48	10	0	40	1.41
1927581--1927630	12	4.3	12	72	10	50	52	2	2	44	1.24
1936065--1936242	76	2.3	75	85	1	221	32	14	12	40	1.83
1936087--1936267	76	2.4	75	83	6	217	33	14	13	38	1.85
1936250--1936838	39	16.0	37	85	7	557	28	20	14	37	1.92
1936503--1936838	72	4.8	68	86	7	297	27	21	13	37	1.91
1936757--1937021	124	2.1	124	82	4	318	29	20	13	36	1.91
1936939--1937021	30	2.8	30	90	0	121	31	22	13	32	1.92
1937323--1937760	91	4.8	90	89	2	621	38	14	21	25	1.92
1937323--1937754	181	2.4	182	87	4	624	38	15	21	24	1.92
1937799--1938070	132	2.1	129	83	6	334	31	20	19	29	1.97
1937822--1938070	128	1.9	131	84	7	328	31	19	19	28	1.97
1945158--1945414	61	4.3	61	76	10	246	29	21	7	41	1.79
1948918--1948983	2	33.0	2	100	0	132	50	0	0	50	1.00
1949805--1949846	22	2.0	22	86	9	61	47	4	4	42	1.45
1954075--1954282	75	2.7	76	83	3	249	24	31	23	21	1.98
1960051--1960090	20	2.0	20	95	0	71	20	32	25	22	1.98
1960053--1960134	21	3.8	22	79	9	89	21	35	24	18	1.96
1962709--1962914	75	2.7	76	84	3	256	24	31	23	20	1.98
1971658--1971707	21	2.3	21	86	6	64	64	10	6	20	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1971887--1971915	8	3.8	8	95	4	51	27	0	10	62	1.28
1972711--1972743	14	2.2	16	89	10	52	24	0	6	69	1.10
1983800--1983876	23	3.4	23	74	12	61	72	1	10	15	1.17
1983830--1983893	22	3.0	22	76	15	62	76	1	6	15	1.06
1983883--1983957	29	2.6	28	81	8	80	72	0	2	25	0.98
1984985--1985538	105	5.3	104	90	4	796	22	17	25	34	1.96
1985657--1985732	36	2.1	36	87	0	107	40	15	19	23	1.90
1985632--1985903	105	2.6	104	92	2	442	35	12	20	31	1.90
1985858--1985984	58	2.2	58	78	15	136	37	13	23	25	1.91
1986049--1986163	36	3.2	36	72	4	108	44	10	17	27	1.81
1986002--1986163	72	2.2	75	85	8	217	40	12	19	27	1.88
1987294--1987827	180	2.9	180	91	4	876	30	21	20	27	1.98
1991583--1991627	15	3.0	15	100	0	90	60	0	20	20	1.37
1991650--1991753	32	3.3	31	75	14	88	73	1	9	15	1.18
1991716--1991778	21	3.0	21	77	11	65	76	1	6	15	1.07
1991715--1991806	25	3.7	24	73	17	71	76	1	4	18	1.02
1991802--1991826	2	12.5	2	100	0	50	52	0	0	48	1.00
1992255--1992356	37	2.8	37	84	0	114	31	13	11	43	1.80
1995350--1995403	23	2.4	22	78	6	54	50	9	22	18	1.75
2005057--2005093	16	2.3	16	100	0	74	18	27	10	43	1.83
2007609--2007638	2	15.0	2	92	0	51	53	0	46	0	1.00
2011995--2012046	21	2.6	19	80	14	52	51	11	13	23	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2012036--2012079	22	2.0	22	90	0	70	50	18	13	18	1.79
2012113--2012173	21	2.9	21	95	2	104	31	36	16	16	1.91
2013903--2013940	19	2.0	19	85	10	51	26	31	28	13	1.93
2014775--2014831	26	2.2	25	93	3	96	22	33	24	19	1.97
2015090--2015188	29	3.4	29	76	12	96	52	5	5	37	1.45
2015287--2015362	29	2.6	30	85	4	102	50	11	2	35	1.53
2017377--2017419	16	2.7	16	96	0	77	25	6	18	48	1.73
2021393--2021418	3	8.7	3	100	0	52	69	0	0	30	0.89
2023520--2023556	12	3.2	12	77	14	51	32	5	51	10	1.60
2025036--2025196	58	2.7	60	81	6	186	40	6	19	32	1.78
2025015--2025183	58	2.9	59	80	7	184	41	6	20	31	1.77
2026092--2026141	17	3.1	17	68	26	54	52	22	6	20	1.68
2026442--2026474	14	2.5	13	90	9	50	57	0	0	42	0.98
2026440--2026474	16	2.4	14	90	9	52	57	0	0	42	0.99
2034018--2034057	21	1.9	21	85	10	55	27	17	0	55	1.43
2034025--2034071	20	2.3	21	78	14	53	29	14	0	55	1.40
2034448--2034488	21	2.0	21	95	0	73	26	29	19	24	1.98
2035238--2035266	14	2.1	14	100	0	58	20	34	13	31	1.92
2039311--2039350	21	1.9	21	85	10	55	27	17	0	55	1.43
2039745--2039797	18	2.9	18	85	0	70	30	32	18	18	1.96
2041954--2042045	25	3.7	25	98	0	175	30	7	16	45	1.75
2045200--2045269	29	2.3	31	82	7	90	42	18	10	28	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2049627--2049668	22	2.0	21	85	4	57	28	2	2	66	1.16
2065684--2065771	15	5.5	15	76	18	88	45	0	2	52	1.13
2065765--2065843	18	4.4	18	66	23	58	35	0	11	53	1.37
2065774--2065816	22	2.0	22	95	0	77	37	0	11	51	1.39
2065751--2065848	32	3.4	32	73	26	126	37	0	9	53	1.33
2065751--2066328	54	10.4	54	68	19	246	35	0	11	53	1.39
2065796--2065945	80	1.9	80	95	0	273	32	0	14	52	1.42
2065751--2066264	134	3.7	134	87	8	746	35	0	11	52	1.40
2065875--2065982	32	3.7	32	74	23	128	35	0	12	51	1.40
2065899--2065945	22	2.4	19	80	19	60	29	0	17	53	1.44
2065906--2065950	22	2.0	22	100	0	90	33	0	17	48	1.48
2065953--2066006	22	2.8	18	77	20	63	38	0	9	51	1.34
2065960--2066030	22	3.0	22	79	15	88	38	0	11	50	1.38
2066015--2066296	32	8.5	32	76	13	180	34	0	11	53	1.40
2066019--2066105	14	5.6	14	67	19	57	35	0	8	56	1.29
2065881--2066259	116	3.4	111	74	17	365	34	0	11	53	1.40
2066235--2066292	18	3.4	18	70	18	61	29	0	13	56	1.38
2066343--2066400	31	1.9	31	85	3	82	43	8	5	43	1.57
2071308--2071368	31	2.0	31	96	0	113	27	16	1	54	1.52
2071868--2071917	25	2.1	23	81	7	55	52	0	2	46	1.12
2074454--2074513	30	2.0	30	93	0	102	48	23	10	18	1.78
2077126--2077161	2	18.0	2	100	0	72	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2078134--2078165	14	2.3	14	94	0	55	37	9	0	53	1.34
2079052--2079129	10	7.1	10	79	13	75	60	19	10	10	1.57
2079374--2079421	10	4.4	10	80	19	60	58	12	12	16	1.63
2079373--2079437	24	2.6	24	95	4	112	55	13	12	18	1.69
2079384--2079438	14	4.1	14	77	22	64	54	12	14	18	1.71
2082022--2082073	21	2.5	21	93	0	86	38	15	21	25	1.92
2084521--2084570	20	2.6	19	78	6	55	48	6	2	44	1.39
2085315--2085346	2	16.5	2	93	6	57	50	0	0	50	1.00
2087372--2087447	24	3.2	24	88	0	71	10	13	25	51	1.72
2087383--2087454	10	6.4	10	72	22	54	9	11	23	55	1.64

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