genome.fa.s8010.2.7.7.80.10.50.1000.9.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: VEPZ01008010.1 Hibiscus syriacus cultivar Beakdansim tig00110472_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3152856

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

This is table  9  of  14  ( 1680 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)
1805202--1805289	40	2.4	34	75	20	95	13	25	23	37	1.92
1806309--1806362	24	2.2	24	90	0	81	24	16	20	38	1.92
1806537--1806561	12	2.1	12	100	0	50	72	0	28	0	0.86
1808854--1808984	19	7.7	19	66	23	94	42	18	22	16	1.88
1808854--1808980	33	3.8	33	84	4	184	42	18	22	16	1.89
1808857--1808987	66	2.0	66	95	0	235	41	17	22	17	1.89
1808980--1809022	20	2.2	20	87	4	61	16	18	23	41	1.89
1809008--1809041	14	2.4	14	85	0	50	8	23	20	47	1.78
1809163--1809195	14	2.4	14	94	0	57	45	24	0	30	1.53
1810591--1810674	42	2.0	42	85	0	114	22	15	38	23	1.92
1812664--1812724	20	3.1	19	79	9	68	44	18	24	13	1.85
1812689--1812775	33	2.6	33	92	1	138	37	25	25	11	1.89
1812783--1812834	19	2.7	19	93	0	86	48	21	19	11	1.80
1812759--1812799	13	3.2	13	93	6	75	41	26	21	9	1.84
1813408--1813502	41	2.3	41	80	3	102	21	21	22	35	1.96
1813552--1813592	21	2.0	21	85	0	55	34	31	17	17	1.93
1814038--1814062	12	2.1	12	100	0	50	48	8	8	36	1.62
1817684--1817729	19	2.3	20	82	14	60	6	34	0	58	1.24
1817991--1818307	157	2.0	159	92	4	536	37	3	23	36	1.72
1818343--1818385	21	2.0	21	86	0	59	30	27	25	16	1.97
1819051--1819101	22	2.4	22	80	3	59	23	23	21	31	1.98
1825089--1825131	21	2.0	21	86	0	59	30	27	25	16	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1850101--1850189	34	2.7	31	79	6	88	39	0	2	58	1.11
1850112--1850219	51	2.2	49	77	11	112	36	0	3	59	1.22
1850328--1850381	17	3.2	17	72	0	54	31	0	3	64	1.11
1851962--1852055	21	4.5	21	88	5	127	17	32	27	22	1.96
1852574--1852680	34	3.1	34	86	0	142	55	4	2	37	1.36
1853076--1853553	128	3.7	128	96	0	868	33	21	24	20	1.97
1853634--1853673	8	5.1	8	81	6	55	37	27	0	35	1.57
1860517--1860568	21	2.5	21	93	0	86	17	28	19	34	1.94
1862324--1862358	16	2.1	17	89	5	54	42	22	0	34	1.54
1902835--1902860	2	13.0	2	100	0	52	50	0	0	50	1.00
1905401--1906169	385	2.0	382	98	0	1502	24	28	19	26	1.99
1917093--1917266	60	2.9	59	83	5	208	41	5	21	32	1.75
1917985--1918035	24	2.1	24	88	0	75	23	11	15	49	1.78
1918616--1918789	60	2.9	59	83	5	208	41	5	21	32	1.75
1920811--1920847	2	19.0	2	94	5	67	51	0	0	48	1.00
1933310--1933346	18	2.1	18	89	0	56	24	0	2	72	0.97
1939852--1939926	36	2.1	36	95	2	134	32	10	14	42	1.80
1940350--1940379	15	2.0	15	100	0	60	13	26	46	13	1.80
1944854--1944929	36	2.1	36	97	0	143	31	10	14	43	1.79
1946259--1946338	29	2.8	29	96	0	142	21	33	28	16	1.95
1946960--1947003	21	2.1	21	91	0	70	29	0	15	54	1.42
1946978--1947034	25	2.3	26	87	9	91	31	0	12	56	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1947852--1947910	26	2.3	25	75	18	66	47	8	3	40	1.51
1950790--1951123	26	13.3	26	75	11	268	43	2	8	45	1.47
1950732--1951127	124	3.2	124	95	1	688	43	2	9	44	1.47
1950937--1951116	98	1.8	100	86	7	269	44	1	8	45	1.43
1951222--1951254	17	1.9	17	93	0	57	36	6	12	45	1.66
1953406--1953438	15	2.2	15	94	0	57	57	6	0	36	1.23
1953491--1953572	34	2.5	34	84	9	100	48	12	0	39	1.41
1953628--1953744	41	2.8	41	80	13	107	47	11	0	40	1.40
1953634--1953769	41	3.3	40	74	15	100	47	11	0	39	1.45
1953896--1953961	4	16.5	4	75	9	55	1	34	0	63	1.04
1953904--1953962	21	2.9	21	94	2	102	1	35	0	62	1.05
1953965--1954010	23	2.0	23	100	0	92	8	39	4	47	1.54
1954212--1954320	29	3.8	29	95	2	184	22	32	31	14	1.94
1954352--1954546	61	3.2	63	85	10	237	11	32	21	34	1.89
1954351--1954546	93	2.1	91	96	2	356	11	32	21	34	1.90
1954544--1954601	11	5.1	11	77	8	62	20	22	20	36	1.95
1954544--1954614	35	2.0	35	100	0	142	19	25	19	35	1.96
1954595--1954629	13	2.8	13	95	4	63	14	37	17	31	1.89
1961395--1961424	15	2.0	15	100	0	60	13	46	26	13	1.80
1961841--1961916	36	2.1	36	97	0	143	43	14	10	31	1.79
1968726--1968769	21	2.1	21	86	0	61	29	2	15	52	1.55
1969067--1969127	11	5.5	11	75	14	63	37	13	1	47	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1969060--1969130	22	3.2	22	97	0	133	38	14	1	46	1.53
1969104--1969199	30	3.2	29	80	15	97	45	9	2	42	1.48
1969104--1969181	30	2.6	30	86	11	99	44	8	2	43	1.49
1969488--1969551	31	1.9	35	84	12	91	43	7	0	48	1.32
1970010--1970175	80	2.1	80	95	0	296	30	28	30	10	1.90
1971385--1971631	126	2.0	126	83	6	313	49	6	17	25	1.70
1974363--1974395	16	2.1	16	100	0	66	36	12	6	45	1.66
1974524--1974551	2	14.0	2	100	0	56	0	50	0	50	1.00
1974898--1974983	44	2.0	44	97	0	163	32	33	6	26	1.83
1975948--1976054	36	3.0	36	62	28	84	14	13	15	56	1.68
1977030--1977085	26	2.3	25	76	11	62	46	1	1	50	1.22
1987076--1987116	18	2.3	18	87	4	57	60	2	7	29	1.36
1989448--1989495	23	2.1	23	84	0	60	37	10	18	33	1.85
1990220--1990254	18	1.9	18	88	0	52	51	11	5	31	1.61
1990217--1990273	24	2.4	25	79	8	73	49	14	5	31	1.65
1990458--1990522	23	2.8	23	90	0	94	38	18	7	35	1.80
1990669--1990740	30	2.4	30	92	2	117	38	0	5	55	1.23
1990669--1990757	30	3.0	30	83	9	94	38	0	5	56	1.23
1992368--1992433	33	2.0	33	87	0	96	24	45	1	28	1.62
1994530--1994582	24	2.2	24	83	6	63	26	7	13	52	1.66
1994727--1994773	20	2.4	19	79	10	58	19	17	8	55	1.67
1994894--1994939	20	2.3	20	89	10	76	17	17	10	54	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1996202--1996282	22	3.5	22	71	15	65	51	1	2	44	1.22
1996279--1996354	27	2.8	27	80	9	84	47	0	1	51	1.09
1996327--1996394	11	6.0	11	70	16	50	48	1	0	50	1.10
1996340--1996375	12	2.8	14	80	20	51	52	0	0	47	1.00
1996340--1996403	23	2.7	23	85	4	74	51	1	0	46	1.10
1996436--1996505	29	2.3	32	81	13	85	51	4	0	44	1.21
1996707--1996752	15	3.1	14	81	9	56	36	15	0	47	1.45
1997177--1997219	13	3.5	13	75	12	54	46	4	0	48	1.22
1997177--1997224	24	2.0	24	100	0	96	45	8	0	45	1.33
1997211--1997267	25	2.4	24	82	8	73	33	26	3	36	1.74
2001665--2001704	21	1.9	21	89	0	62	32	25	27	15	1.95
2004283--2004370	2	44.0	2	100	0	176	50	0	0	50	1.00
2009727--2009766	17	2.4	17	100	0	80	27	22	5	45	1.73
2016587--2016654	33	2.1	33	88	0	100	33	14	22	29	1.94
2017285--2017319	2	17.5	2	100	0	70	48	0	0	51	1.00
2017367--2017408	2	21.5	2	90	4	68	47	2	0	50	1.14
2017574--2017614	2	20.5	2	100	0	82	48	0	0	51	1.00
2017671--2017707	2	18.5	2	100	0	74	48	0	0	51	1.00
2020395--2020528	67	2.0	67	100	0	268	34	16	17	31	1.93
2021230--2021311	29	2.8	29	94	1	137	32	14	9	42	1.79
2025272--2025353	29	2.8	29	94	1	137	32	14	9	42	1.79
2026677--2026741	32	2.0	32	90	0	103	26	20	3	50	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2039163--2039192	15	2.0	15	100	0	60	53	13	13	20	1.72
2039818--2039844	14	1.9	14	100	0	54	59	14	11	14	1.62
2039818--2039880	24	2.6	24	92	0	99	55	20	12	11	1.67
2039841--2039880	14	3.1	14	73	26	52	52	25	15	7	1.68
2040933--2040970	20	1.9	20	100	0	76	36	10	28	23	1.88
2041127--2041203	38	2.0	38	82	9	95	48	3	1	46	1.28
2041853--2041992	29	4.7	29	74	11	129	56	2	3	37	1.29
2041826--2041989	29	5.3	30	73	13	118	54	1	3	40	1.26
2041832--2041992	61	2.6	60	78	3	169	56	1	3	38	1.26
2043329--2043383	20	3.1	17	76	19	58	56	0	5	38	1.23

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