genome.fa.s1737.2.7.7.80.10.50.1000.6.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: scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  3416254

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

This is table  6  of  10  ( 1130 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)
1755109--1755235	58	2.2	58	85	2	166	23	29	15	30	1.96
1755348--1755491	50	2.9	50	74	2	128	26	25	16	31	1.96
1756651--1756683	17	1.9	17	93	0	57	39	0	6	54	1.25
1761591--1761620	15	2.0	15	93	0	51	63	6	0	30	1.20
1771057--1771331	138	2.0	138	90	2	437	45	5	8	40	1.58
1771076--1771360	137	2.1	137	86	5	398	45	5	8	40	1.56
1778169--1778296	64	2.0	64	93	0	220	41	25	6	26	1.79
1780131--1780163	17	1.9	17	88	11	50	36	0	9	54	1.32
1780229--1780547	139	2.3	138	90	1	503	43	5	10	39	1.63
1796601--1796705	20	5.0	22	73	9	92	45	16	14	23	1.84
1796597--1796735	42	3.3	41	82	3	143	43	17	15	23	1.88
1801727--1801758	2	16.5	2	93	6	57	46	0	0	53	1.00
1801736--1801849	56	2.0	57	98	1	221	40	3	10	45	1.56
1811296--1811790	44	11.2	44	76	7	414	30	26	15	28	1.96
1811304--1811790	220	2.2	220	87	1	688	30	26	15	27	1.96
1813031--1813059	6	4.8	6	100	0	58	0	13	0	86	0.58
1819231--1819275	22	2.0	22	86	4	63	37	17	6	37	1.76
1819254--1820105	38	22.4	38	99	0	1695	39	13	7	39	1.73
1822547--1822579	13	2.4	14	90	5	50	48	15	0	36	1.45
1824040--1824086	12	3.9	12	88	0	76	38	31	6	23	1.80
1826837--1826870	4	8.5	4	93	0	59	47	2	0	50	1.16
1836021--1836061	11	3.7	11	81	18	50	63	12	12	12	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1838511--1838544	18	1.9	18	88	5	52	11	35	32	20	1.89
1841476--1841816	51	6.7	50	83	3	342	30	25	14	29	1.95
1841477--1841820	102	3.4	102	87	2	462	29	25	15	29	1.96
1841477--1841820	153	2.3	151	83	5	435	29	25	15	29	1.96
1849217--1849553	50	6.7	51	80	3	342	29	25	15	29	1.96
1849211--1849553	101	3.4	102	85	4	428	29	25	15	29	1.96
1856040--1856244	50	4.1	50	78	7	211	37	23	16	23	1.94
1856037--1856244	100	2.1	100	84	1	265	36	23	16	23	1.94
1856173--1856240	25	2.7	25	67	24	61	32	22	16	29	1.95
1861667--1861960	50	5.9	50	80	2	297	37	21	15	25	1.93
1861686--1861952	25	10.8	24	64	22	81	37	20	16	25	1.93
1865900--1865995	36	2.8	34	71	18	92	29	18	28	23	1.98
1872342--1872445	42	2.5	42	87	1	147	21	32	24	22	1.98
1873334--1873401	21	3.3	20	68	4	55	27	16	35	20	1.94
1873331--1873438	41	2.6	41	91	0	162	33	15	28	22	1.95
1873368--1873434	20	3.3	20	68	4	62	34	14	28	22	1.94
1875515--1875545	16	1.9	16	93	0	53	48	9	6	35	1.62
1878258--1878312	21	2.7	20	83	5	74	52	1	12	32	1.50
1878315--1878355	14	2.9	14	88	0	64	41	2	26	29	1.69
1879935--1880013	38	2.1	37	81	11	90	24	26	21	27	1.99
1881030--1881077	11	4.2	12	77	17	57	8	14	20	56	1.64
1882706--1882759	15	3.9	15	70	22	55	12	12	12	61	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1882677--1882767	25	3.6	25	86	3	119	15	10	14	59	1.61
1883033--1883085	17	3.1	17	88	0	70	18	3	9	67	1.33
1883177--1883277	48	2.1	47	85	5	132	41	4	5	47	1.49
1883346--1883486	19	7.1	18	79	17	147	53	11	2	32	1.48
1883322--1883535	83	2.6	83	98	0	410	52	12	2	32	1.53
1883386--1883561	45	4.1	44	80	14	231	52	12	2	31	1.53
1883551--1883594	21	2.1	21	86	0	61	59	9	0	31	1.29
1884633--1884670	19	2.0	19	89	0	58	28	18	13	39	1.88
1887036--1887218	59	3.0	60	72	9	165	42	2	4	51	1.34
1887117--1887198	26	2.9	28	80	10	87	42	0	1	56	1.07
1887331--1887360	15	1.9	16	93	6	53	43	0	6	50	1.28
1887352--1887385	18	1.9	18	88	5	52	47	0	0	52	1.00
1887544--1887637	44	2.1	44	88	4	134	37	29	4	28	1.76
1895470--1895508	4	9.8	4	100	0	78	25	0	25	48	1.51
1895840--1895885	19	2.3	20	88	3	67	50	15	8	26	1.73
1897644--1897725	33	2.5	33	100	0	164	24	29	19	26	1.98
1899764--1899801	16	2.4	16	90	0	58	39	0	28	31	1.57
1899787--1899874	44	2.0	45	86	6	126	32	3	25	38	1.72
1899783--1899887	44	2.5	41	77	18	119	33	2	25	38	1.71
1903972--1904022	13	3.9	13	75	10	59	37	21	7	33	1.82
1906060--1906103	22	2.0	22	100	0	88	40	9	18	31	1.81
1906071--1906138	22	3.0	23	81	8	61	39	2	16	41	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1908535--1908578	20	2.2	20	92	4	72	63	6	25	4	1.38
1908531--1908581	20	2.5	21	84	12	70	64	5	25	3	1.33
1911354--1911406	16	3.3	16	83	0	70	41	3	30	24	1.72
1911620--1911661	15	2.7	16	82	14	52	52	2	0	45	1.13
1911629--1911670	15	2.9	15	82	10	52	52	0	0	47	1.00
1911739--1911790	15	3.6	15	80	12	56	53	1	0	44	1.11
1916437--1916462	13	2.0	13	100	0	52	30	23	23	23	1.99
1926745--1927073	164	2.0	166	86	3	468	25	13	17	44	1.84
1927809--1927849	21	2.0	21	85	0	55	48	9	9	31	1.69
1936640--1936677	18	2.1	19	90	5	60	23	2	2	71	1.12
1942276--1942312	5	7.6	5	87	6	58	21	0	2	75	0.92
1942276--1942312	15	2.6	14	91	8	65	21	0	2	75	0.92
1949683--1949881	27	7.4	28	73	14	168	30	16	24	29	1.96
1949680--1949874	54	3.6	53	78	13	202	29	15	23	30	1.96
1956172--1956362	50	3.7	50	82	4	193	25	21	29	23	1.99
1956228--1956413	50	3.8	49	80	3	160	26	22	27	23	1.99
1963102--1963135	16	2.2	15	89	5	50	55	0	0	44	0.99
1978164--1978251	43	2.0	43	93	0	149	13	28	32	25	1.94
1986830--1986867	20	1.9	20	94	0	67	18	34	23	23	1.96
1988923--1988954	13	2.5	13	94	0	55	15	43	18	21	1.87
1991082--1991188	33	3.2	33	91	0	169	17	7	31	42	1.77
1991078--1991227	66	2.3	66	85	3	194	17	7	34	40	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2003549--2003604	15	3.6	15	79	11	60	32	1	1	64	1.14
2006547--2006656	28	4.0	28	74	1	96	26	26	14	32	1.95
2014595--2014658	32	2.0	32	96	3	121	31	9	12	46	1.73
2016627--2016729	50	2.1	50	88	0	152	30	29	9	31	1.89
2019479--2019547	28	2.5	28	85	0	84	28	24	10	36	1.88
2022999--2023175	27	6.7	27	78	6	184	28	24	20	26	1.99
2022999--2023141	54	2.7	54	86	4	204	27	23	22	25	1.99
2032017--2032202	54	3.2	54	69	19	140	43	2	3	50	1.32
2032153--2032204	15	3.6	15	80	12	56	44	0	1	53	1.11
2032453--2032487	18	2.0	17	88	5	52	45	0	0	54	0.99
2032729--2032790	16	3.9	16	95	0	88	32	35	0	32	1.58
2036207--2036255	16	3.1	16	93	0	89	32	12	18	36	1.88
2050069--2050301	42	5.6	42	83	0	297	29	18	21	30	1.97
2050069--2050301	84	2.8	84	88	1	335	29	18	21	30	1.97
2053042--2053074	17	1.9	17	88	11	50	42	0	15	42	1.46
2053065--2053099	9	3.9	9	88	0	52	45	0	2	51	1.16
2053064--2053112	13	3.7	13	83	2	53	48	0	4	46	1.20
2055029--2055063	17	2.1	17	100	0	70	60	11	5	22	1.52
2061089--2061211	57	2.1	58	86	1	167	29	18	7	44	1.77
2065006--2065044	7	5.6	7	87	0	51	20	48	0	30	1.50
2068666--2068738	24	3.0	24	80	7	85	36	4	45	13	1.63
2069960--2070042	39	2.2	39	86	2	114	20	19	20	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2070026--2070064	6	6.5	6	87	0	60	23	17	10	48	1.78
2070026--2070064	18	2.2	18	100	0	78	23	17	10	48	1.78
2069987--2070286	57	5.0	63	84	9	435	19	19	18	42	1.90
2070089--2070120	6	5.3	6	96	0	55	21	15	12	50	1.77
2070146--2070184	6	6.5	6	87	0	60	23	17	10	48	1.78
2070146--2070184	18	2.2	18	100	0	78	23	17	10	48	1.78
2069987--2070286	120	2.5	120	97	1	566	19	19	18	42	1.90
2070209--2070240	6	5.3	6	96	0	55	21	15	12	50	1.77
2070221--2070336	45	2.6	45	87	2	162	19	18	19	41	1.91
2077448--2079213	883	2.0	883	100	0	3532	34	13	18	33	1.90

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