genome.fa.s2660.2.7.7.80.10.50.1000.8.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: VEPZ01002660.1 Hibiscus syriacus cultivar Beakdansim tig00005459_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2211860

Tables:   1   2   3   4   5   6   7   8   9   

This is table  8  of  9  ( 1072 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)
1793267--1793300	16	2.2	16	89	5	52	67	5	0	26	1.13
1795996--1796105	47	2.4	45	83	7	141	39	5	21	33	1.77
1796458--1796518	30	2.0	30	93	0	104	27	19	22	29	1.98
1796588--1796640	22	2.4	22	93	0	88	22	24	15	37	1.92
1805170--1805237	13	5.2	13	77	19	79	64	1	0	33	1.02
1805197--1805237	14	2.9	14	89	10	66	68	0	0	31	0.90
1805467--1805502	2	18.0	2	100	0	72	50	0	0	50	1.00
1809067--1809182	50	2.3	50	98	0	223	37	25	17	20	1.94
1811862--1811923	31	2.0	31	100	0	124	32	19	22	25	1.97
1814818--1814929	50	2.2	50	82	1	125	17	29	26	25	1.98
1814834--1814943	50	2.2	48	79	9	130	17	29	27	26	1.97
1816957--1816990	17	1.9	18	94	5	61	32	5	2	58	1.37
1817053--1817272	111	2.0	111	96	0	404	36	7	11	44	1.69
1822411--1822454	16	2.8	16	100	0	88	29	25	0	45	1.54
1824176--1824217	22	1.9	22	90	0	66	83	0	14	2	0.75
1824171--1824217	12	4.0	12	81	13	53	80	0	17	2	0.80
1833765--1833795	16	1.9	16	100	0	62	58	22	12	6	1.58
1833860--1833918	10	5.7	10	73	15	57	57	18	11	11	1.64
1833864--1833912	16	3.1	16	87	0	80	57	20	12	10	1.64
1834661--1834716	14	4.3	14	78	17	66	53	23	12	10	1.69
1834641--1834715	24	3.1	24	88	3	98	56	20	10	13	1.66
1835354--1835393	12	3.6	12	80	12	50	45	2	0	52	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1835380--1835699	22	14.6	22	89	3	493	38	0	11	49	1.39
1835723--1835781	31	1.9	31	89	0	91	45	8	3	42	1.51
1843078--1843145	32	2.1	32	100	0	136	20	25	13	41	1.88
1849388--1849462	33	2.3	32	81	6	89	29	12	10	48	1.74
1851900--1851930	12	2.6	12	94	0	53	48	19	9	22	1.78
1856217--1856351	67	2.0	67	98	0	261	25	10	29	34	1.89
1858654--1858686	2	16.5	2	100	0	66	51	0	0	48	1.00
1861882--1861969	46	1.9	46	95	0	158	42	5	27	25	1.77
1862397--1862438	2	22.0	2	85	9	61	52	0	0	47	1.00
1862397--1862446	16	3.1	16	85	0	64	50	0	0	50	1.00
1863844--1863883	21	2.0	21	85	5	55	17	27	15	40	1.89
1874461--1874500	20	2.0	20	90	9	64	25	30	15	30	1.95
1875770--1875831	3	20.7	3	84	12	83	32	0	1	66	1.02
1875770--1875831	21	2.9	22	88	4	92	32	0	1	66	1.02
1875770--1875831	24	2.6	24	94	0	106	32	0	1	66	1.02
1877092--1877182	14	6.4	14	71	14	53	29	2	1	67	1.10
1877147--1877192	3	15.3	3	82	8	58	26	4	0	69	1.07
1877092--1877196	19	5.7	18	70	21	67	28	2	0	67	1.11
1877083--1877193	39	2.9	38	71	19	99	27	2	1	68	1.13
1877387--1877428	20	2.2	19	86	4	57	33	0	2	64	1.07
1877291--1877520	120	1.9	120	82	6	288	38	6	8	46	1.60
1878013--1878056	17	2.4	17	82	14	52	25	2	0	72	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1882322--1882364	14	2.8	15	82	13	52	83	0	16	0	0.64
1884604--1884830	115	2.0	114	92	0	382	34	15	19	29	1.93
1885786--1885960	74	2.4	74	82	4	192	30	16	22	30	1.96
1886899--1886978	40	2.0	40	100	0	160	32	12	22	32	1.91
1886845--1887024	90	2.0	92	83	6	231	35	13	22	28	1.93
1886939--1887082	54	2.7	54	78	6	154	36	15	22	25	1.94
1887845--1888732	113	7.8	112	84	9	834	38	14	18	28	1.90
1888437--1888815	122	3.2	123	84	10	484	39	15	18	25	1.91
1888966--1889027	3	20.7	3	80	12	74	30	0	3	66	1.08
1888966--1889027	24	2.6	24	89	0	97	30	0	3	66	1.08
1889505--1889564	3	20.7	3	83	13	81	33	0	1	65	1.03
1889499--1889549	17	3.1	17	86	8	61	31	1	0	66	1.03
1889505--1889564	20	3.0	20	87	4	86	33	0	1	65	1.03
1889505--1889564	26	2.3	26	94	5	104	33	0	1	65	1.03
1890462--1890576	6	17.8	6	72	16	70	24	2	1	71	1.08
1890472--1890515	19	2.4	19	88	3	63	20	0	0	79	0.73
1890530--1890573	3	14.3	3	81	13	54	27	4	0	68	1.09
1890861--1890921	27	2.4	25	80	17	72	52	1	0	45	1.10
1896118--1897221	551	2.0	551	97	2	2110	30	10	21	38	1.87
1897744--1897794	18	2.9	18	91	5	79	41	11	1	45	1.52
1897989--1898060	3	25.0	3	88	8	114	65	0	1	33	1.02
1897988--1898056	17	4.1	17	88	5	104	66	0	1	31	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1897989--1898058	28	2.4	29	90	9	117	65	0	1	32	1.01
1903044--1903142	24	4.1	24	85	0	117	25	17	19	38	1.93
1914175--1914222	14	2.9	18	70	23	50	45	6	0	47	1.27
1916168--1916240	27	2.6	27	84	8	92	30	15	19	35	1.92
1923573--1923667	29	3.3	28	71	12	93	33	12	6	47	1.67
1923658--1923817	87	1.8	86	90	1	257	32	11	10	45	1.74
1924268--1924393	63	2.0	63	100	0	252	33	4	31	30	1.78
1942621--1942696	39	2.0	37	82	12	93	44	1	3	50	1.29
1942852--1942901	20	2.5	20	100	0	100	20	18	12	50	1.78
1946601--1946625	2	12.5	2	100	0	50	52	0	0	48	1.00
1947575--1947622	10	4.4	10	78	19	51	12	10	22	54	1.68
1947577--1947622	24	1.9	24	95	0	83	10	10	23	54	1.67
1947552--1947622	34	2.1	34	82	10	83	12	12	22	52	1.73
1947587--1947617	14	2.2	14	94	0	53	9	12	22	54	1.67
1949177--1949227	16	3.3	16	89	5	79	11	9	17	60	1.57
1956236--1956265	15	2.0	15	93	0	51	13	23	46	16	1.82
1972038--1972068	2	15.5	2	100	0	62	48	0	0	51	1.00
1973206--1973233	2	14.0	2	100	0	56	50	0	0	50	1.00
1974828--1974917	25	3.6	24	71	12	74	52	1	0	46	1.07
1974867--1974913	20	2.4	20	75	3	51	48	0	0	51	1.00
1975513--1975541	14	2.0	15	93	6	51	55	0	0	44	0.99
1976004--1976098	45	2.1	45	100	0	190	40	16	4	38	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1976291--1976354	20	3.0	20	73	20	58	53	0	0	46	1.00
1976331--1976387	14	4.1	14	76	13	55	43	1	0	54	1.10
1976505--1976554	25	1.9	27	84	8	68	58	2	2	38	1.21
1976594--1976667	27	2.8	27	71	17	73	47	0	0	52	1.00
1976533--1976713	14	12.1	15	67	20	58	51	0	0	47	1.09
1976919--1976982	20	3.0	20	73	20	58	53	0	0	46	1.00
1976960--1977015	14	4.0	14	80	13	62	44	1	0	53	1.11
1977025--1977095	33	2.2	34	81	16	82	47	1	2	47	1.25
1977082--1977131	25	2.0	25	84	7	66	48	0	4	48	1.20
1977129--1977178	25	1.9	27	84	8	68	58	2	2	38	1.21
1977184--1977218	14	2.5	14	85	0	52	45	0	2	51	1.16
1976101--1977333	624	2.0	614	96	3	2256	46	3	3	46	1.38
1977218--1977292	27	2.8	27	67	16	66	49	0	0	50	1.00
1977295--1977368	22	3.5	21	78	16	73	54	2	0	43	1.14
1977294--1977348	20	2.6	21	80	13	69	58	0	0	41	0.98
1977384--1977458	30	2.6	28	81	12	89	54	0	2	42	1.14
1977409--1977454	13	3.4	13	79	8	56	60	0	0	39	0.97
1977412--1977462	22	2.4	21	75	12	50	58	0	0	41	0.98
1977409--1977461	28	2.0	27	85	7	72	60	0	0	39	0.97
1977756--1978015	20	12.6	20	75	7	135	39	19	23	18	1.92
1977842--1978015	83	2.1	83	89	0	258	35	17	25	20	1.95
1977882--1978005	63	2.0	63	93	0	212	35	16	27	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1978002--1978042	20	2.0	21	95	4	75	53	14	17	14	1.73
1978123--1978255	6	23.5	6	99	0	210	29	53	17	0	1.44
1978945--1979077	6	22.5	6	96	2	227	0	15	52	31	1.43
1979155--1979196	20	2.1	20	90	0	66	11	16	16	54	1.70
1979185--1979482	20	14.6	20	76	7	152	19	22	19	38	1.93
1979187--1979378	40	4.7	40	78	5	204	21	25	17	35	1.95
1979198--1979381	83	2.2	83	89	0	269	22	26	16	34	1.95
1979187--1979338	63	2.5	63	83	3	202	21	25	17	36	1.94
1979432--1979482	19	2.6	20	90	3	77	15	17	23	43	1.88
1985832--1985895	30	2.2	28	83	8	76	34	1	1	62	1.14

Tables:   1   2   3   4   5   6   7   8   9