genome.fa.s8439.2.7.7.80.10.50.1000.7.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: VEPZ01008439.1 Hibiscus syriacus cultivar Beakdansim tig00111238_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2703160

Tables:   1   2   3   4   5   6   7   8   9   

This is table  7  of  9  ( 1013 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)
1788290--1788426	37	3.8	36	78	12	129	32	10	12	44	1.77
1788326--1788423	36	2.8	35	79	14	112	30	9	12	47	1.72
1789851--1789922	21	3.4	21	90	0	108	18	27	18	36	1.94
1790028--1790088	15	4.0	15	84	2	77	49	1	0	49	1.10
1790142--1790354	32	6.7	32	66	24	137	35	0	11	52	1.41
1790076--1790371	54	5.5	54	81	13	344	36	0	10	52	1.39
1790174--1790216	22	2.0	22	100	0	86	39	0	9	51	1.34
1790219--1790266	22	2.4	18	73	23	51	37	0	10	52	1.36
1790227--1790397	26	6.7	26	73	17	119	33	0	12	52	1.44
1790076--1790401	106	3.1	102	84	10	408	36	0	10	52	1.39
1790417--1790465	22	2.2	22	81	0	62	40	0	2	57	1.10
1790276--1790450	79	2.2	79	92	1	215	35	1	9	54	1.40
1794617--1794780	73	2.2	73	84	2	213	41	15	12	30	1.84
1794728--1794837	57	1.9	57	86	1	157	40	10	15	33	1.82
1794938--1795280	112	3.1	111	88	2	499	47	10	11	29	1.74
1795182--1795374	90	2.1	90	93	1	325	48	11	14	24	1.77
1795362--1795403	21	2.0	20	86	4	57	50	9	9	30	1.67
1795272--1795719	110	4.1	109	85	5	604	46	11	13	28	1.78
1795684--1795734	21	2.4	21	80	6	59	33	9	15	41	1.80
1797441--1797485	10	4.8	10	73	15	51	62	0	2	35	1.08
1797504--1797543	21	1.9	21	90	10	64	20	5	7	67	1.34
1798810--1798989	98	1.8	98	93	0	315	29	21	21	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1809520--1809556	17	2.2	17	90	0	56	67	0	0	32	0.91
1809526--1809569	20	2.2	20	88	8	63	68	0	0	31	0.90
1815526--1815600	4	17.8	4	75	15	62	30	2	21	45	1.66
1817731--1817854	29	4.2	28	76	12	106	52	0	5	41	1.31
1819184--1819217	17	2.0	17	100	0	68	23	11	17	47	1.81
1837820--1837938	31	3.6	31	70	18	98	26	12	10	50	1.72
1837802--1838075	68	4.0	68	91	0	451	27	13	11	48	1.76
1839628--1839749	43	2.8	43	94	0	217	50	4	5	40	1.45
1848076--1848141	20	3.1	21	73	18	57	31	6	1	60	1.30
1851197--1851228	16	1.9	17	93	6	57	65	0	0	34	0.93
1860868--1861255	185	2.1	184	91	2	620	42	3	8	44	1.53
1871446--1871472	3	9.0	3	100	0	54	0	33	0	66	0.92
1875358--1875417	30	2.0	30	100	0	120	20	10	20	50	1.76
1876081--1876136	24	2.3	23	90	6	85	60	0	7	32	1.24
1881566--1882121	114	5.0	111	86	4	686	22	25	24	27	2.00
1883308--1883529	123	1.8	123	84	2	302	41	18	14	25	1.88
1887099--1887333	117	2.0	119	94	1	411	42	5	4	48	1.46
1887650--1887697	25	1.9	25	91	0	78	56	0	6	37	1.25
1891812--1891836	13	1.9	13	100	0	50	40	8	16	36	1.77
1893142--1893198	14	4.4	14	76	17	59	8	12	24	54	1.65
1893143--1893217	24	3.1	24	86	3	89	13	10	20	56	1.66
1893262--1893307	14	3.3	14	93	0	74	34	21	0	43	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1893972--1894038	16	4.3	16	90	3	93	11	10	17	59	1.60
1893970--1894030	32	1.9	32	93	0	104	9	13	21	55	1.66
1894100--1894132	16	2.1	16	100	0	66	6	12	24	57	1.57
1905632--1905663	13	2.4	13	94	5	55	12	15	0	71	1.14
1910088--1910119	6	4.9	7	92	7	50	28	0	0	71	0.86
1910956--1911015	31	2.0	28	84	9	75	26	13	8	51	1.69
1911272--1911359	32	2.7	33	74	15	92	50	2	11	36	1.51
1916617--1916778	59	2.7	58	75	7	155	33	16	4	45	1.69
1917167--1917204	18	2.1	18	90	0	58	39	5	7	47	1.55
1923155--1923196	18	2.3	19	87	4	59	52	2	0	45	1.13
1927095--1927141	21	2.2	21	92	0	76	21	2	21	55	1.54
1927106--1927153	21	2.3	21	89	7	71	25	4	22	47	1.69
1927647--1927679	17	2.0	17	88	5	50	42	6	12	39	1.67
1930742--1930795	24	2.3	24	87	3	74	31	18	11	38	1.86
1934507--1934711	66	3.1	66	94	0	347	29	17	41	11	1.84
1936076--1936118	20	2.3	19	80	11	52	25	27	6	39	1.81
1947805--1947943	69	2.0	68	98	1	269	29	10	20	40	1.85
1950021--1950074	2	27.0	2	96	0	99	51	0	0	48	1.00
1950129--1950201	31	2.3	33	80	15	84	38	8	15	38	1.77
1955699--1955802	41	2.6	40	77	17	117	34	23	19	23	1.96
1956054--1956235	55	3.3	57	93	3	311	50	13	6	29	1.66
1965364--1965420	30	1.9	29	86	10	80	43	1	0	54	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1976502--1976533	12	2.7	12	100	0	64	43	0	0	56	0.99
1982010--1982062	21	2.5	21	81	6	72	20	26	18	33	1.96
1982052--1982103	21	2.5	21	87	3	70	36	17	25	21	1.94
1982123--1982185	20	3.0	21	79	4	74	22	20	17	39	1.92
1982175--1982228	20	2.6	20	77	16	56	38	14	22	24	1.91
1982759--1982829	19	3.7	19	83	9	90	46	23	18	11	1.81
1982825--1982951	20	7.1	19	70	20	94	11	23	21	44	1.84
1982847--1982902	14	3.6	14	74	21	58	8	25	23	42	1.82
1982830--1982923	33	2.8	33	93	1	152	10	23	23	42	1.85
1985046--1985168	42	2.9	42	78	2	104	23	34	17	23	1.96
1985108--1985168	21	2.9	21	72	0	68	22	36	19	21	1.95
1986527--1986562	14	2.6	14	95	0	63	30	0	25	44	1.54
1986669--1986730	19	3.3	19	86	4	81	46	24	14	14	1.82
1986726--1986876	19	8.7	19	63	21	71	13	23	19	43	1.87
1986730--1986856	33	3.8	33	92	0	209	13	24	18	44	1.85
1989407--1989453	24	2.0	24	91	0	76	34	17	19	29	1.94
1989411--1989462	24	2.2	24	82	0	59	36	19	17	26	1.94
1990230--1990281	21	2.5	20	81	3	59	40	15	23	21	1.91
1990571--1990637	20	3.4	20	72	4	73	38	22	20	17	1.93
1990651--1990721	33	2.2	33	81	0	79	19	18	21	40	1.91
1990673--1990722	14	3.2	14	75	24	55	12	20	20	48	1.80
1992295--1992383	42	2.1	42	87	8	128	20	14	40	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1992328--1992383	21	2.7	21	72	10	60	21	14	39	25	1.91
1992725--1992777	20	2.7	20	87	0	70	33	28	13	24	1.93
1992731--1992817	20	4.4	20	82	1	86	36	25	20	17	1.94
1992790--1992872	19	4.6	19	74	17	79	44	22	19	13	1.85
1992862--1992958	19	5.7	18	67	23	75	13	17	20	48	1.81
1992865--1992958	33	2.8	33	93	0	152	13	17	20	48	1.80
1992944--1992986	20	2.2	20	87	4	61	18	23	20	37	1.94
1992952--1992997	20	2.3	20	88	0	65	15	21	26	36	1.93
1993514--1993561	18	2.7	18	90	0	78	16	12	43	27	1.84
1994890--1994934	20	2.2	20	84	0	54	40	26	17	15	1.90
1995184--1995227	22	2.0	22	86	0	61	20	15	40	22	1.90
1995414--1995527	40	2.8	41	84	6	142	25	15	25	33	1.95
1995394--1995531	41	3.4	41	79	6	163	24	15	23	36	1.94
1995414--1995527	20	5.7	20	76	2	102	25	15	25	33	1.95
1995461--1995549	41	2.2	41	86	8	119	23	19	21	35	1.95
1995558--1995610	21	2.5	22	81	6	74	33	18	26	20	1.96
1996143--1996185	21	2.2	19	83	8	50	53	4	0	41	1.21
1996409--1996447	17	2.3	17	86	0	51	56	5	0	38	1.22
1996415--1996472	26	2.3	25	91	5	98	56	5	0	37	1.21
1996489--1996555	31	2.2	31	83	5	82	37	13	10	38	1.79
1996485--1996548	31	2.1	31	88	5	94	37	12	9	40	1.75
2009893--2009944	2	26.0	2	100	0	104	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)
2015100--2015137	2	19.0	2	94	0	67	47	0	2	50	1.15
2016154--2016221	22	3.0	23	77	12	77	39	14	2	42	1.61
2016362--2016436	32	2.3	32	86	0	96	32	12	22	33	1.91
2016996--2017133	43	3.2	43	88	0	204	30	30	16	22	1.96
2016996--2017153	86	1.8	86	84	2	219	31	29	17	21	1.96
2017363--2017465	43	2.4	43	83	4	136	30	32	15	22	1.95
2017031--2017734	332	2.1	335	85	4	951	32	24	17	25	1.97
2017639--2017856	118	1.8	119	87	3	321	30	23	18	27	1.98
2017858--2018301	84	5.3	84	76	4	412	31	21	18	28	1.97
2017858--2018288	168	2.6	168	86	2	562	31	20	19	28	1.97

Tables:   1   2   3   4   5   6   7   8   9