genome.fa.s75.2.7.7.80.10.50.1000.11.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: Scaffold75
Parameters: 2 7 7 80 10 50 1000
Length:  1998514

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

This is table  11  of  12  ( 1375 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)
1733507--1733533	2	13.5	2	100	0	54	51	0	0	48	1.00
1733567--1733605	6	6.8	6	82	11	55	17	0	0	82	0.68
1733560--1733599	16	2.5	17	84	12	57	22	0	0	77	0.77
1733842--1733877	2	18.0	2	88	0	54	55	0	0	44	0.99
1733877--1733910	2	17.0	2	100	0	68	50	0	50	0	1.00
1738937--1739011	20	3.8	19	84	7	96	30	13	14	41	1.84
1739032--1739086	20	2.8	20	80	0	65	32	14	12	40	1.84
1739562--1739590	13	2.1	14	93	6	51	72	20	0	6	1.07
1741299--1741368	27	2.6	27	95	0	122	22	32	20	24	1.97
1741326--1741568	97	2.5	97	93	0	407	28	30	13	27	1.94
1746057--1746245	92	2.1	91	87	3	272	30	13	22	34	1.92
1746221--1746274	20	2.6	21	75	16	67	31	11	22	35	1.89
1746529--1747522	505	2.0	505	88	2	1487	35	20	14	29	1.92
1751143--1751181	20	1.9	21	84	5	53	43	10	12	33	1.77
1751248--1751303	21	2.8	20	81	10	69	30	16	14	39	1.88
1753691--1753740	25	2.0	25	92	0	82	30	24	4	42	1.73
1753716--1754428	80	8.9	79	77	8	550	29	28	9	32	1.89
1753716--1754426	161	4.5	157	76	9	602	29	28	9	32	1.89
1760275--1760309	2	17.5	2	100	0	70	48	0	0	51	1.00
1762751--1762796	23	1.9	25	86	8	69	36	0	2	60	1.09
1763589--1763717	14	9.2	14	77	0	105	45	8	3	42	1.50
1763589--1763717	4	32.2	4	76	0	105	45	8	3	42	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1764433--1764457	3	8.3	3	100	0	50	36	0	0	64	0.94
1769679--1769719	21	2.0	21	85	9	57	48	0	0	51	1.00
1769761--1769810	24	2.1	23	92	3	82	80	0	12	8	0.92
1771678--1771757	40	2.1	38	88	11	119	22	18	10	48	1.77
1773488--1773528	22	1.9	22	90	5	66	31	2	2	63	1.20
1773561--1773867	153	2.0	154	93	1	528	27	13	14	45	1.81
1777291--1777329	2	19.5	2	94	0	69	48	2	0	48	1.15
1777826--1777854	10	2.9	10	100	0	58	72	0	0	27	0.85
1785830--1785892	24	2.7	22	73	20	56	38	14	6	41	1.71
1788739--1788817	36	2.3	35	80	14	92	44	0	0	55	0.99
1788829--1788873	12	3.8	12	80	11	56	33	0	0	66	0.92
1788832--1788885	12	4.7	12	77	13	51	37	0	0	62	0.95
1788830--1788881	27	2.0	26	85	11	70	34	0	0	65	0.93
1788820--1788938	46	2.5	47	76	13	120	37	0	0	61	1.02
1788956--1789005	19	2.7	19	78	6	59	58	0	0	42	0.98
1789275--1789362	38	2.3	38	81	12	101	39	0	1	59	1.05
1790281--1790317	20	1.9	19	89	10	58	51	0	0	48	1.00
1790789--1790853	9	7.0	9	71	13	51	67	1	1	29	1.09
1792170--1792244	16	4.8	16	77	6	73	33	2	8	56	1.43
1792154--1792196	22	2.0	22	81	9	52	37	0	4	58	1.19
1792585--1792616	2	16.0	2	100	0	64	50	0	0	50	1.00
1792664--1792736	28	2.6	28	82	6	94	41	9	2	46	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1792722--1792771	18	2.8	18	93	3	84	56	8	0	36	1.29
1793049--1793090	22	1.9	22	90	9	68	23	0	2	73	0.94
1793049--1793098	22	2.3	22	86	6	66	24	2	2	72	1.06
1793113--1793149	19	1.9	19	94	0	65	48	8	2	40	1.47
1793119--1793159	19	2.2	19	86	4	57	51	7	2	39	1.43
1793903--1793934	7	4.6	7	96	0	55	18	0	0	81	0.70
1794430--1794477	21	2.2	21	77	3	51	33	6	10	50	1.62
1795215--1795288	15	4.8	15	79	12	87	56	5	0	37	1.22
1795203--1795288	31	2.8	30	82	5	100	55	4	1	38	1.28
1797801--1797830	14	2.1	15	93	6	53	30	6	3	60	1.39
1798310--1798428	48	2.4	47	74	14	116	42	0	2	53	1.20
1798310--1798435	49	2.6	48	72	17	116	43	0	2	53	1.19
1799182--1799236	24	2.4	24	85	11	71	40	1	1	56	1.21
1799225--1799261	12	3.0	13	80	11	51	43	2	0	54	1.14
1799397--1799443	18	2.6	18	73	6	51	61	0	4	34	1.15
1799315--1799480	75	2.2	78	81	10	193	57	1	1	39	1.20
1799469--1799508	15	2.6	15	88	4	62	65	2	2	30	1.19
1799609--1799676	25	2.8	24	80	12	77	27	0	8	63	1.24
1799695--1801243	73	21.5	72	77	8	1332	30	3	13	53	1.54
1799741--1801222	502	3.0	491	82	7	1651	30	3	13	53	1.55
1802541--1802572	12	2.5	13	95	5	57	25	0	34	40	1.56
1802715--1802740	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1805029--1805067	15	2.6	14	80	11	51	41	0	0	58	0.98
1805029--1805146	28	4.0	30	75	14	86	42	0	1	55	1.16
1805111--1805175	28	2.3	27	80	17	71	41	0	1	56	1.08
1811084--1811149	22	3.0	21	82	12	71	46	0	3	50	1.16
1811094--1811148	21	2.5	21	85	11	67	45	0	1	52	1.11
1811392--1811426	17	2.0	18	88	5	54	28	0	0	71	0.86
1811384--1811432	26	1.9	26	87	4	73	24	2	0	73	0.94
1811384--1811433	25	2.0	25	84	7	66	26	2	0	72	0.96
1811468--1811497	10	3.0	10	95	0	51	53	0	0	46	1.00
1812074--1812117	14	3.1	14	80	3	52	54	0	0	45	0.99
1812094--1812160	12	5.7	12	72	19	52	53	0	0	46	1.00
1812140--1812173	17	2.0	17	88	0	50	47	0	0	52	1.00
1826396--1826424	3	9.7	3	100	0	58	68	0	0	31	0.89
1828359--1828415	29	2.0	29	89	0	87	35	1	1	61	1.17
1828733--1828782	25	2.0	26	84	11	68	52	12	0	36	1.39
1829215--1829271	20	2.8	20	80	17	64	52	0	0	47	1.00
1829356--1829440	43	2.0	43	90	2	136	44	5	1	48	1.34
1832177--1832212	2	18.5	2	94	5	65	0	47	0	52	1.00
1833620--1833668	18	2.7	18	87	12	66	55	0	0	44	0.99
1834566--1834598	17	2.0	17	88	5	50	66	0	0	33	0.92
1835464--1835488	13	1.9	13	100	0	50	72	0	0	28	0.86
1835967--1836010	2	22.5	2	86	4	63	54	0	0	45	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1837260--1837298	15	2.6	14	84	11	51	48	5	0	46	1.24
1840046--1840100	24	2.2	24	84	9	67	56	0	1	41	1.10
1840055--1840117	24	2.7	24	80	11	78	49	0	3	47	1.17
1843877--1843932	28	2.0	28	92	0	94	23	12	17	46	1.82
1845688--1845729	21	2.0	21	90	0	66	30	14	11	42	1.81
1846124--1846159	18	1.9	19	88	5	56	52	5	0	41	1.24
1848562--1848638	27	2.9	27	75	9	86	44	0	1	54	1.08
1849262--1849313	20	2.5	21	76	17	56	42	1	3	51	1.31
1851588--1851666	33	2.4	33	89	6	126	27	12	12	46	1.78
1856050--1856082	11	2.8	12	82	17	50	63	0	3	33	1.10
1857002--1857028	6	4.5	6	100	0	54	51	33	0	14	1.43
1861959--1862093	51	2.6	52	81	5	159	42	11	14	31	1.81
1863112--1863147	16	2.2	16	95	0	63	58	2	0	38	1.13
1864458--1864570	60	1.9	60	87	3	165	40	15	15	28	1.88
1865223--1865334	57	2.0	56	89	1	170	33	16	2	47	1.60
1868975--1869022	22	2.2	22	85	3	62	45	0	0	54	0.99
1869073--1869122	20	2.5	19	81	9	55	30	2	20	48	1.61
1869114--1869161	24	2.0	24	88	8	71	39	4	4	52	1.40
1871544--1871578	16	2.2	16	100	0	70	71	11	11	5	1.30
1874021--1874382	180	2.0	180	89	3	559	40	19	14	25	1.89
1876152--1876184	16	2.1	16	94	0	57	57	3	39	0	1.14
1882584--1882631	20	2.4	20	85	0	60	29	10	4	56	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
1883653--1884568	28	31.1	30	79	12	721	23	16	28	30	1.97
1883715--1885167	28	51.2	28	78	8	717	25	16	30	27	1.96
1883711--1883845	61	2.2	62	89	5	206	26	16	28	28	1.97
1883990--1884062	31	2.7	25	74	22	74	24	19	26	30	1.98
1884548--1885315	27	27.9	27	77	6	583	29	14	31	24	1.95
1884550--1884722	82	2.1	82	83	2	222	28	15	31	23	1.95
1884684--1884856	79	2.2	80	82	5	197	32	16	29	21	1.95
1884490--1885179	138	5.1	137	80	4	648	28	15	32	24	1.95
1885134--1885227	33	3.0	33	83	11	119	28	11	31	27	1.92
1885107--1885268	88	1.9	87	85	3	227	30	13	30	25	1.94

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