'Greasemonkey' and a new mtDNA 'ONLINE ANALYSER'


It is now possible to 'analyse'each GenBank sequence in real time!
So no more worries about transcription errors or using outdated sequences.
However this only works with FIREFOX (sorry to all Internet Explorer users)

First load the 'Greasemonkey' tool.

Next add the 'user script'. Do this by entering www.ianlogan.co.uk/scripts/analyser.user.js

Now go to GenBank and enter an 'Accession Number' - e.g. EF428259

Once a main page appears, change the Display to FASTA - and the 'Analysis box will appear (see example below).

(Entering the search string - "Homo sapiens" [ORGANISM] "complete genome" mitochondrion - gets a list of available sequences.)

You might also try mtDB and click on Accession Numbers found there.

Please report any errors. The program uses a look-up table and errors of interpretation are possible.

To update, just re-enter www.ianlogan.co.uk/scripts/analyser.user.js at any time If updating does not appear to work and you do not get the latest database - try Tools, Options, clear private data - and then try updating again. (I do not know why this should need doing - but it seems the solution.)

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An Example:

History:

All releases may have little changes to haplogroups, etc.

23 Jul. 2008. 4,987 GenBank sequences
FTDNA - 2 sequences Haplogroups I, T1
22 Jul. 2008. 4,985 GenBank sequences
Grzybowski - 51 sequences Haplogroups HV, R1, U4
9 Jul. 2008. 4,934 GenBank sequences
FTDNA - 3 sequences Haplogroups J, K
3 Jul. 2008. 4,931 GenBank sequences
FTDNA - 2 sequences Haplogroups K
2 Jul. 2008. 4,929 GenBank sequences
FTDNA - 2 sequences Haplogroups H, K
Feder - 16 sequences Haplogroup N1b
Starkovskaya -2 sequences Haplogroups C, D
27 Jun. 2008. 4,909 GenBank sequences.
FTDNA - 4 sequences Haplogroups H
Brown - 2 sequence Haplogroup J2b, U3
14 Jun. 2008. 4,903 GenBank sequences.
FTDNA - 5 sequences Haplogroups H, K, U
Derbeneva - 1 sequence Haplogroup N2
4 Jun. 2008. 4,897 GenBank sequences.
FTDNA - 6 sequences Haplogroups H, I, T2, W
1 Jun. 2008. 4,891 GenBank sequences.
Kazuno - 57 sequences - Japanese Haplogroups
31 May. 2008. 4,834 GenBank sequences.
Gilbert - 15 sequences Haplogroups A, D
27 May. 2008. 4,819 GenBank sequences.
Behar - 309 sequences Haplogroup L
FTDNA - 13 sequences Haplogroups H, J, K, T
21 May. 2008. 4,497 GenBank sequences.
Shlush - 53 sequences Haplogroups H, K, X
FTDNA & Argus - 12 sequences H, I, K, T U
15 May. 2008. 4,432 GenBank sequences.
Volodko - 84 sequences Haplogroups A, B, C, D
5 May. 2008. 4,348 GenBank sequences.
FTDNA - 9 sequences Haplogroups H, K, X2c
1 May. 2008. 4,339 GenBank sequences.
Derbeneva - 38 sequences Haplogroup D2, D3
FTDNA - 5 sequences Haplogroups H, K
24 Apr. 2008. 4,296 GenBank sequences.
Behar - 49 sequences - MANY HAPLOGROUPS
23 Apr. 2008. 4,247 GenBank sequences.
FTDNA - 3 sequences Haplogroups H, K
17 Apr. 2008. 4,244 GenBank sequences.
FTDNA - 7 sequences Haplogroups C, J, K, U
14 Apr. 2008. 4,237 GenBank sequences.
Hartmann - 95 sequences - A WORLDWIDE SELECTION
12 Apr. 2008. 4,142 GenBank sequences.
Rabadan - 112 sequences Haplogroups A, B, D, F, G, M, N
28 Mar. 2008. 4,030 GenBank sequences.
Abu-Amero - 7 sequences Haplogroup M
27 Mar. 2008. 4,023 GenBank sequences.
FTDNA - 7 sequences Haplogroups H, I, K, L, V
Maasz - 1 sequence Haplogroup U4b
20 Mar. 2008. 4,015 GenBank sequences.
FTDNA - 3 sequences Haplogroups H, HV*, W
19 Mar. 2008. 4,012 GenBank sequences.
Achilli - 11 sequences Haplogroups A, B, C, D, X
17 Mar. 2008. 4,001 GenBank sequences.
FTDNA - 3 sequences Haplogroups H, J, L
9 Mar. 2008. 3,998 GenBank sequences.
Malyarchuk - 5 sequences Haplogroups J, M
8 Mar. 2008. 3,993 GenBank sequences.
Fagundes - 58 sequences Haplogroups A, B, C, D, X
6 Mar. 2008. 3,935 GenBank sequences.
FTDNA - 5 sequences Haplogroups G, K, U, W
27 Feb. 2008. 3,930 GenBank sequences.
FTDNA - 3 sequences Haplogroups T, U
22 Feb. 2008. 3,927 GenBank sequences.
FTDNA - 2 sequences Haplogroup H2a2
11 Feb. 2008. 3,925 GenBank sequences.
Quintana-Murci - 25 sequence Haplogroup L1c
6 Feb. 2008. 3,900 GenBank sequences.
FTDNA - 3 sequences Haplogroup D, H, U
3 Feb. 2008. 3,897 GenBank sequences.
FTDNA - 1 sequence Haplogroup W
23 Jan. 2008. 3,896 GenBank sequences.
Grzybowski - 22 sequences Haplogroups H, R1 & U
23 Jan. 2008. 3,874 GenBank sequences.
FTDNA - 10 sequences Haplogroups H,K,T,U,X
2 Jan. 2008. 3,864 GenBank sequences.
Rao - 2 sequences Haplogroup M31
26 Dec. 2007. 3,862 GenBank sequences.
FTDNA - 2 sequences Haplogroups B, K
18 Dec. 2007. 3,860 GenBank sequences.
FTDNA - 8 sequences Haplogroups C, H, K, U
6 Dec. 2007. 3,852 GenBank sequences.
FTDNA - 9 sequences Haplogroups H, J, K, M, V
17 Nov. 2007. 3,843 GenBank sequences.
FTDNA - 9 sequences Haplogroups H, K, T, U, W
1 Nov. 2007. 3,834 GenBank sequences.
Wang - 29 sequences Haplogroups A, B, C, D, F, R9b
Bravi - 4 sequences Haplogroups A, B, C, D
La Morgia - 2 sequences Haplogroups T, U
31 Oct. 2007. 3,799 GenBank sequences.
FTDNA - 3 sequences Haplogroups M, K, U
30 Oct. 2007. 3,796 GenBank sequences.
FTDNA - 5 sequences Haplogroups H, K
27 Oct. 2007. 3,791 GenBank sequences.
FTDNA - 5 sequences Haplogroups H, U
17 Oct. 2007. 3,786 GenBank sequences.
Derenko - A(27),C(1),D(6),G(9),I(1),J(2),M(11),N(6),X(4),Y(4)
13 Oct. 2007. 3,715 GenBank sequences.
FTDNA - 4 sequences Haplogroups H, K, U
25 Sep. 2007. 3,711 GenBank sequences.
FTDNA - 5 sequences Haplogroups H, J, K
20 Sep. 2007. 3,706 GenBank sequences.
FTDNA - 5 sequences Haplogroups H, U & M33.
19 Sep. 2007. 3,701 GenBank sequences.
Hinttala - 28 mixed European sequences.
18 Sep. 2007. 3,673 GenBank sequences.
FTDNA - 4 Haplogroup U sequences.
13 Sep. 2007. 3,669 GenBank sequences.
FTDNA - 10 mixed European sequences.
12 Sep. 2007. 3,659 GenBank sequences.
Tamm - EU095526-EU095552 - Haplogroups A, B, C , D
1 Sep. 2007. 3,632 GenBank sequences.
FTDNA - EU091245 (I)
24 Aug. 2007. 3,631 GenBank sequences.
Annunen & Rasila - AM260558-AM260634 - 77 mixed European sequences
22 Aug. 2007. 3,554 GenBank sequences.
Arnason - AM711903 (L0a2b), AM711904 (L0d)
21 Aug. 2007. 3,552 GenBank sequences.
FTDNA - EU086510 (W), EF089746 (K1a3a), EU089747 (H1)
15 Aug. 2007. 3,549 GenBank sequences.
FTDNA - EU080974 (H1)
10 Aug. 2007. 3,548 GenBank sequences.
FTDNA - EU057183 (U3a), EU073969 (K1), EU073970 (J1), EU073971(H10), EU074158 (H1)
4 Aug. 2007. 3,543 GenBank sequences.
FTDNA - EU049814 (U5a), EU051827(H4a), EU052289(H13), EU052292(K1a1b1a)
Ingman & Gyllensten - EU007835-EU007895
20 July 2007. 3,478 GenBank sequences.
Herrnstadt - EF657231-EF65790
17 July 2007. 2,918 GenBank & 560 'Herrnstadt' sequences.
10 July 2007. 2,910 GenBank & 560 'Herrnstadt' sequences.
(NB. 28 sequences in the range EF660912-EF661113 (Gasparre) are incomplete)
7 July 2007. 2,808 GenBank & 560 'Herrnstadt' sequences.
19 June 2007. 2,807 GenBank & 560 'Herrnstadt' sequences.
6 June 2007. One sequence revised.
28 May 2007. 2,803 GenBank & 560 'Herrnstadt' sequences.
14 May 2007. 2,799 GenBank & 560 'Herrnstadt' sequences.
10 May 2007. 2,798 GenBank & 560 'Herrnstadt' sequences.
22 April 2007. 2,788 Genbank & 560 'Herrnstadt' sequences.
17 April 2007. 2,726 GenBank & 560 'Herrnstadt' sequences.
6 April 2007. 2,722 GenBank & 560 'Herrnstadt' sequences.
(NB. The 'Herrnstadt' sequences are 'coding area only')
3 April 2007. 2,722 sequences.
29 March 2007. 2,721 sequences.
21 March 2007. 2,718 sequences.
19 March 2007. Initial release. 2,717 sequences.


Click here to contact Ian Logan.


2008