From: amwaterhouse Date: Thu, 16 Jun 2005 15:54:10 +0000 (+0000) Subject: moved to new repository X-Git-Tag: Release_2_0~8 X-Git-Url: http://source.jalview.org/gitweb/?a=commitdiff_plain;h=5b3a98dd94ca74886338e5fff8f80f11f4ac33c0;hp=fb98287a8166b2866a525c0035cb4f294b1b18ca;p=jalview.git moved to new repository --- diff --git a/website/Templates/jtemplate.dwt b/website/Templates/jtemplate.dwt deleted file mode 100755 index 69b84d6..0000000 --- a/website/Templates/jtemplate.dwt +++ /dev/null @@ -1,67 +0,0 @@ - - - - -JalView - Java alignment editor - - - - - - - -
- - - - -
- - - - - -
Jalview -
-
a - multiple alignment editor
-
-
- - - - - -

Downloads

- - Examples - Reference - Source Code
    -
  • Jalview 2
    • -
-

Feedback

-

   

-


- -

Contents -
-
- - diff --git a/website/version2/examples/applets.html b/website/version2/examples/applets.html deleted file mode 100755 index b811a99..0000000 --- a/website/version2/examples/applets.html +++ /dev/null @@ -1,145 +0,0 @@ - - - - -JalView - Java alignment editor - - - - - - - -
- - - - -
- - - - - -
Jalview -
-
a - multiple alignment editor
-
-
- - - - - -

Downloads

- - Examples - Reference - Source Code
    -
  • Jalview 2
    • -
-

Feedback

-

   

-


- -

-

Jalview2 comes in two distinct flavours.
-
- The main application allows connection to multiple web services provided - at the University of Dundee as well as a host of additional useful features - such as printing, making images from your alignment and annotating your - alignment.
- You need to download and install this software.

-

Pressing one of the buttons below will load up a cut down version - of Jalview2 multiple alignment editor, which runs within your web browser.

-

Alignment 1 - Serine proteases (6 sequences x 279 residues)

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Alignment 2 - Lipases (16 sequences x 487 residues)

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Alignment 3 - Glutathione S-transferases (61 sequences x 290 residues) With associated tree

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The applet takes the following Parameters:

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -
namevalue
filefileName
showFullIdtrue false
showAnnotationtrue false
showConservationtrue false
showQualitytrue false
showConsensustrue false
defaultColourClustal, Blosum62, % Identity, Zappo, Hydrophobic, Helix Propensity, - Strand Propensity, Turn Propensity, Buried Index, Nucleotide
-

 

- -
-
- - diff --git a/website/version2/examples/exampleFile.jar b/website/version2/examples/exampleFile.jar deleted file mode 100755 index 334887b..0000000 Binary files a/website/version2/examples/exampleFile.jar and /dev/null differ diff --git a/website/version2/examples/examples.html b/website/version2/examples/examples.html deleted file mode 100755 index 59194f5..0000000 --- a/website/version2/examples/examples.html +++ /dev/null @@ -1,83 +0,0 @@ - - - - -JalView - Java alignment editor - - - - - - - -
- - - - -
- - - - - -
Jalview -
-
a - multiple alignment editor
-
-
- - - - - -

Downloads

- - Examples - Reference - Source Code
    -
  • Jalview 2
    • -
-

Feedback

-

   

-


- -

-

Many alignment tools which require time consuming and/or large proccessing - power are currently being developed as Web Services within the Barton - Group, Dundee, and added to the Jalview interface.

-

 

-
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-
-

 

-

 

-

Next - >

- -
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- - diff --git a/website/version2/examples/examples2.html b/website/version2/examples/examples2.html deleted file mode 100755 index f453b83..0000000 --- a/website/version2/examples/examples2.html +++ /dev/null @@ -1,78 +0,0 @@ - - - - -JalView - Java alignment editor - - - - - - - -
- - - - -
- - - - - -
Jalview -
-
a - multiple alignment editor
-
-
- - - - - -

Downloads

- - Examples - Reference - Source Code
    -
  • Jalview 2
    • -
-

Feedback

-

   

-


- -

-

Several of the most popular sequence alignment algorithms and / or - programs have been implemented as web services which Jalview has access - to.

-

The figure below shows the web service status window indicating that - a Muscle Alignment job as run to completion. The window shows important - feedback regarding the alignement.

-

-

 

-

< - Back    Next >

- -
-
- - diff --git a/website/version2/examples/examples3.html b/website/version2/examples/examples3.html deleted file mode 100755 index b64aac3..0000000 --- a/website/version2/examples/examples3.html +++ /dev/null @@ -1,78 +0,0 @@ - - - - -JalView - Java alignment editor - - - - - - - -
- - - - -
- - - - - -
Jalview -
-
a - multiple alignment editor
-
-
- - - - - -

Downloads

- - Examples - Reference - Source Code
    -
  • Jalview 2
    • -
-

Feedback

-

   

-


- -

-

Jalview will search Uniprot to find the exact protein - sequence match from any input alignment file. This can be used to display - sequence features, moving the mouse over the displayed feature will - reveal more information.

-

-


- Jalview allows the alignment to be "wrapped"

-

-

< - Back    Next >

- -
-
- - diff --git a/website/version2/examples/examples4.html b/website/version2/examples/examples4.html deleted file mode 100755 index 043bb8a..0000000 --- a/website/version2/examples/examples4.html +++ /dev/null @@ -1,84 +0,0 @@ - - - - -JalView - Java alignment editor - - - - - - - -
- - - - -
- - - - - -
Jalview -
-
a - multiple alignment editor
-
-
- - - - - -

Downloads

- - Examples - Reference - Source Code
    -
  • Jalview 2
    • -
-

Feedback

-

   

-


- -

- Many new features have been added to the Jalview interface, - such as the Overview window which aids navigation around the whole alignment. -

-


- Search using regular expressions.

-

- The functionality of the original Jalview has been maintained - and enhanced in the new interface. Below is an example of an average - distance tree, calculated from the input alignment, being used to cluster - sequences in the main alignment window.
- The user has then applied "Conservation Colouring" to the - alignment, the result of which shows conservation within the clustered - sequences. -

< - Back      Next - >

- -
-
- - diff --git a/website/version2/examples/examples5.html b/website/version2/examples/examples5.html deleted file mode 100755 index acc8a35..0000000 --- a/website/version2/examples/examples5.html +++ /dev/null @@ -1,78 +0,0 @@ - - - - -JalView - Java alignment editor - - - - - - - -
- - - - -
- - - - - -
Jalview -
-
a - multiple alignment editor
-
-
- - - - - -

Downloads

- - Examples - Reference - Source Code
    -
  • Jalview 2
    • -
-

Feedback

-

   

-


- -

-

Jalview maintains the ability to perform Principal Component - Analysis on an alignment. The method is used to cluster similar sequences, - the user may then select sequences from this 3D visual display.

-

-


- PDB structures may be displayed if Jalview can find a match of the input - sequence and Uniprot.

-

-

< - Back

- -
-
- - diff --git a/website/version2/examples/globins.jar b/website/version2/examples/globins.jar deleted file mode 100755 index a0d70eb..0000000 Binary files a/website/version2/examples/globins.jar and /dev/null differ diff --git a/website/version2/examples/glut.msf b/website/version2/examples/glut.msf deleted file mode 100755 index 0c9c83c..0000000 --- a/website/version2/examples/glut.msf +++ /dev/null @@ -1,299 +0,0 @@ -PileUp - - - - MSF: 439 Type: P Check: 2277 .. - - Name: AJPMQA oo Len: 439 Check: 4128 Weight: 1.00 - Name: AJFBQA oo Len: 439 Check: 6903 Weight: 1.00 - Name: AJAAQ oo Len: 439 Check: 4168 Weight: 1.00 - Name: AJFBQB oo Len: 439 Check: 5921 Weight: 1.00 - Name: AJPMQ1 oo Len: 439 Check: 4951 Weight: 1.00 - Name: AJFBQ oo Len: 439 Check: 7754 Weight: 1.00 - Name: AJYLNB oo Len: 439 Check: 1096 Weight: 1.00 - Name: AJRZQG oo Len: 439 Check: 7565 Weight: 1.00 - Name: AJLCQB oo Len: 439 Check: 5610 Weight: 1.00 - Name: AJRZQB oo Len: 439 Check: 5547 Weight: 1.00 - Name: AJFBQD oo Len: 439 Check: 2775 Weight: 1.00 - Name: AJPMQ2 oo Len: 439 Check: 3516 Weight: 1.00 - Name: AJRZQD oo Len: 439 Check: 1469 Weight: 1.00 - Name: AJBHQ oo Len: 439 Check: 2409 Weight: 1.00 - Name: AJDHQ oo Len: 439 Check: 5591 Weight: 1.00 - Name: AJMSQ oo Len: 439 Check: 9358 Weight: 1.00 - Name: AJMSQ3 oo Len: 439 Check: 166 Weight: 1.00 - Name: AJHYQ oo Len: 439 Check: 415 Weight: 1.00 - Name: AJRTQ oo Len: 439 Check: 9855 Weight: 1.00 - Name: AJHUQ oo Len: 439 Check: 1969 Weight: 1.00 - Name: AJCHQ oo Len: 439 Check: 7657 Weight: 1.00 - Name: AJFF2C oo Len: 439 Check: 4626 Weight: 1.00 - Name: AJFF1M oo Len: 439 Check: 6582 Weight: 1.00 - Name: AJSM2V oo Len: 439 Check: 8742 Weight: 1.00 - Name: AJSM2H oo Len: 439 Check: 4241 Weight: 1.00 - Name: AJKXQ oo Len: 439 Check: 5092 Weight: 1.00 - Name: AJZJQ2 oo Len: 439 Check: 4171 Weight: 1.00 - -// - - - -AJPMQA .......... .......... .......... .......... .......... -AJFBQA .......... .......... .......... .......... .......... -AJAAQ .......... .......... .......... .......... .......... -AJFBQB .......... .......... .......... .......... .......... -AJPMQ1 .......... .......... .......... .......... .......... -AJFBQ .......... .......... .......... .......... .......... -AJYLNB .......... .......... .......... .......... .......... -AJRZQG .......... .......... .......... .......... .......... -AJLCQB .......... .......... .......... .......... .......... -AJRZQB .......... .......... .......... .......... .......... -AJFBQD ........MA QILAPSTQWQ MRFTKSSRHA SPITSNTWSS LLMKQNKK.T -AJPMQ2 ........MA QILAPSTQWQ MRITKTSPCA TPITSKMWSS LVMKQTKKVA -AJRZQD ......MAQA VVPAMQCQVG AVR....ARP AAAAAAAGGR VWGVRRTGRG -AJBHQ ....MQVRRD DDGAGGCAGD AVPGGGEGQD GVPARQPAGR VWGVSRAARA -AJDHQ .......... .......... .......... .......... .......... -AJMSQ .......... .......... .......... .......... .......... -AJMSQ3 .......... .......... .......... .......... .......... -AJHYQ .......... .......... .......... .......... .......... -AJRTQ .......... .......... .......... .......... .......... -AJHUQ .......... .......... .......... .......... .......... -AJCHQ .......... .......... .......... .......... .......... -AJFF2C .......... .......... .......... .......... .......... -AJFF1M .......... .......... ...MALRVAG LFLKKELVAP ATQQLRLLRT -AJSM2V .......... .......... .......... .......... .......... -AJSM2H .......... .......... .......... .......... .......... -AJKXQ .......... .......... .......... .......... .......... -AJZJQ2 .......... .......... .......... .......... .......... - - -AJPMQA .......... ....MSSLSD LINFNLSDST EKIIAEYIWV GGS..GIDIR -AJFBQA .......... ....MSLLSD LINLNLSEST EKIIAEYIWV GGS..GMDLR -AJAAQ .......... ....MSLLSD LINLDLSETT EKIIAEYIWI GGS..GLDLR -AJFBQB .......... ....MSLLSD LINLNLSDTT EKVIAEYIWI GGS..GLDLR -AJPMQ1 .......... .....MSLSD LINLDLSGTT EKIIAEYIWI GGS..GLDLR -AJFBQ .......... ....MSSISD LVNLNLSDST ERVIAEYIWV GGS..GMDMR -AJYLNB .......... ....MSLLSD LINLNLSDTT EKIIAEYIWV GGS..GVDLR -AJRZQG .......... ....MASLTD LVNLNLSDTT EKIIAEYIWI GGS..GMDLR -AJLCQB .......... ....MALLSD LVNLDLSSIN DKIIAEYIWI GGS..GMDLR -AJRZQB .......... ....MANLTD LVNLNLSDCS DKIIAEYIWV GGS..GIDLR -AJFBQD SSFRVLAVKS DGSTINRLEG LLNLDITPFT DKIIAEYIWI GGT..GIDVR -AJPMQ2 HSFRVMAVNS ENGTINRVED LLNLDITPFT DSIIAEYIWI GGT..GIDVR -AJRZQD TSRVMAVSTE TTGVVTRMEQ LLNMDTTPFT DKIIAEYIWV GGT..GIDLR -AJBHQ TSKVLALGPE TTGVIQRMQQ LLDMDTTPFT DKIIAEYIWV GGS..GIDLR -AJDHQ .......... .......... .......... .......... .......... -AJMSQ ......MATS ASSHLNKGIK QMYMSLPQGE .KVQAMYIWV DGT..GEGLR -AJMSQ3 ......MATS ASSHVNKGIK QMYMSLPQGE .KIQAMYIWV NGT..GEPLR -AJHYQ ......MATS ASSHLNKNIK QMYLCLPQGE .KVQAMYIWV DGT..GEGLR -AJRTQ ......MATS ASSHLNKGIK QMYMNLPQGE .KIQLMYIWV DGT..GEGLR -AJHUQ ......MTTS ASSHLNKGIK QVYMSLPQGE .KVQAMYIWI DGT..GEGLR -AJCHQ ......MATS ASSHLSKAIK HMYMKLPQGE .KVQAMYIWI DGT..GEHLR -AJFF2C ..SARILEDS PNARINKTIL DRYLSLPLQE NIVQATYVWI DGT..GEDLR -AJFF1M GNRSQFLANS PNTALDKSIL QRYRNLETPA NRVQATYLWI DGT..GENIR -AJSM2V .......... .......... .......... MTFKAEYIWI DGTEPTAKLR -AJSM2H .......... .......... .......... MSIKAEYIWI DGTQPTAKLR -AJKXQ .......... .......... .......... MSYQAEYIWI DGTEPEPLMR -AJZJQ2 .......... .......... .........M TKYKLEYIWL DGYTPTPNLR - - -AJPMQA AR.TLPGPVS DPAKLPKWNY DGSSTNQAPG KDSEVILYPQ AIFKDPFR.N -AJFBQA AR.TLPGPVD DPAKLPKWNY DGSSTDQAPG DDSEVILYPQ AIFKDPFR.N -AJAAQ AR.TLPGPVT DPSQLPKWNY DGSSTGQAPG EDSEVIIYPQ AIFKDPFR.N -AJFBQB AR.TLPGPVK NPSELPKWNY DGSSTGQAPG QDSEVIIYPQ AIFKDPFR.N -AJPMQ1 AR.TLPGPVT DPSELPKWNY DGSSTGQAPG QDSEVILYPQ AIFKDPFR.N -AJFBQ AR.TLSGPVK DPSKLPKWNY DGSSTGQAPG QDSEVILYPQ TIFRDPFR.N -AJYLNB AR.TLSGPVN DPSKLPKWNY DGSSTGQAPG KDSEVILWPQ AIFKDPFR.N -AJRZQG AR.TLSGPVT DPSKLPKWNY DGQAPGQAPG EDSEVILYPQ AIFKDPFR.N -AJLCQB AR.TISRPVS .DPSELPKWN YDGSSTGQAP GEDSEVIIYP QAIFKDPFKN -AJRZQB AR.TVKGPIT DVSQLPKWNY DGSSTGQAPG EDSEVILYPQ AIFKDPFR.D -AJFBQD SR.TISKPVE HPSELPKWNY DGSSTGQAPG EDSEVILYPQ AIFKDPFR.N -AJPMQ2 SR.TISKPVS HPSEVPKWNY DGSSTGQAPG EDSEVILYPQ AIFKDPFR.N -AJRZQD SR.TISKPVE DPSELPKWNY DGSSTGQAPG EDSEVILYPQ AIFKDPFR.N -AJBHQ SR.TISKPVE DPSELPKWNY DGSSTGQAPG EDSEVILYPQ AIFKDPFR.N -AJDHQ .......... .......... .......... .......... .......... -AJMSQ TR.TLDCEPK CVEELPEWNF DGSSTFQSEG SNSDMYLHPV AMFRDPFR.P -AJMSQ3 TCRTLDCEPK CVEELPEWNF DGSSTFQSEG SNSNMYLHPV AMFRDPFR.. -AJHYQ TR.TLDCEPK CVEELPEWNF DGSSTFQSEG SNSDMYLSPV AMFRDPFR.P -AJRTQ TR.TLDCDPK CVEELPEWNF DGSSTFQSEG SNSDMYLHPV AMFRDPFR.P -AJHUQ TR.TLDSEPK CVEELPEWNF DGSSTLQSEG SNSDMYLVPA AMFRDPFR.P -AJCHQ TR.TLDHEPK SLEDLPEWNF DGSSTFQAEG SNSDMYLRPA AMFRDPFR.P -AJFF2C DR.TLDFIPQ SPKELPVWNY DGSSCYQAEG SNSDTYLYPV AIYKDPFR.N -AJFF1M DR.VLDKVPS SVEDLPDWQY DGSSTYQAHG ENSDTTLKPR AIYRDPFKKN -AJSM2V TKIITGQPAG .LDALPIWGF DGSSTNQAEG HSSDCVLKPV FTCPDPIRGD -AJSM2H TKILSDGSR. ....LPRWGF DGSSTNQAEG HASDLVLEPV FSCPDPIRGD -AJKXQ TRIIKDGKE. ....PEIWGF DGSSTNQAPG SNSDCVLRPV FETPDPIRGD -AJZJQ2 TQIKEFASFP TLEHVPLWGF DGSSTQQAEG HSSDCVLKPV AVFPDAARTN - - -AJPMQA NILVICDVYT PAGEP.LPTN KRYNAAKIFS HPDVAAEVPW YGIEQELLQK -AJFBQA NILVICDVYT PAGEP.LPTN KRYDAAKIFS HPDVVAEVPW YGIEQELLQK -AJAAQ NILVMCDAYT PAGEP.IPTN KRHAAAKIFS HPDVVAEVPW YGIEQELLQK -AJFBQB NILVICDAYT PAGEP.IPTN KRHNAAKIFS NPDVVAEEPW YGIEQELLQK -AJPMQ1 HILVMCDAYS PAGEP.IPTN KRHAAAKVFS HPDVVAEETW YGIEQELLQK -AJFBQ NILVMCDAYT PAGEP.IPTN KRHNAAKIFS NPEVVAEEPW YGIEQELLQK -AJYLNB NILVICDTYT PSGKP.IPTN KRHAAAKIFS HPDVAAEEPW FGIEQELLQK -AJRZQG NILVMCDCYT PAGEP.IPTN KRHNAAKIFS SPEVASEEPW YGIEQELLQK -AJLCQB HILVMCDAYT PAGEP.IPTN KRAAAAKIFS NPEVEKEVTW YGIEQELLQK -AJRZQB NILVMCDCYT PQGEP.IPTN KRHSAAKIFS HPDVVAEVPW YGIEQELLQK -AJFBQD NILVICDAYT PAGEP.IPTN KRHRAAEVFS NPRVIAEVPW FGIEQELLQT -AJPMQ2 NILVVCDAYT PAGEP.IPTN KRHRAAEIFS NPKVEAEIPW YGIEQELLQT -AJRZQD NILVMCDTYT PAGEP.IPTN KRNRAAQVFS DPKVVSQVPW FGIEQELLQR -AJBHQ NILVICDTYT PQGEP.IPTN KRHMAAQIFS DPKVTSQVQW FGIEQELMQR -AJDHQ .......... .......... .......... ....KAQEPW FGIEQELLNS -AJMSQ NKLVLCEVFK YNRKP.AETN LRH..ICKRI MDMVSNQHPW FGMEQELMGT -AJMSQ3 NKLVLCEVFK YNRKP.AETN LRH..ICKRI MDMVSNQHPW FGMEQELMGT -AJHYQ NKLVFCEVFK YNRKP.AETN LRH..SCKRI MDMVSNQHPW FGMEQELMGT -AJRTQ NKLVFCEVFK YNRKP.AETN LRH..SCKRI MDMVSSQHPW FGMEQELMGT -AJHUQ NKLVLCEVFK YNRRP.AETN LRH..TCKRI MDMVSNQHPW FGMEQELMGT -AJCHQ NKLVLCEVFK YNRQS.ADTN LRH..TCRRI MDMVSNQHPW FGMEQELLGT -AJFF2C NILVMCDTYK FDGTP.TDTN KRK..TCLEV ANKCAAEEPW FGIEQESDFD -AJFF1M DVIVLCDTYS ADGKP.TASN KRA..AFQAA IDLISDQEPW FGIEQELLRR -AJSM2V DILVLCEVLN IDLTPH.ASN TRAALAEVAE RFAA..QEPI FGIEQEFFQD -AJSM2H HLLVLCEVLH TDLTPH.PSN TRALLRPVAE RFAG..QEPI FGIEQEFLKG -AJKXQ NRLVLCEVQL TDFTP..PTN TRAAALGVAE RYAD..MSPM FGIEQEFFKD -AJZJQ2 GVLVMCEVMM PDGKTPHASN KRATILDDAG ........AW FGFEQEFYKD - - -AJPMQA DINWPLGWPI GG..YPGKQG PYYCGIGADK AY..GRDIVD AHYKAFAGIN -AJFBQA DVNWPLGWPL GG..YPGPQG PYYCGVGADK AY..GRDIVD AHYKAYAGIN -AJAAQ DINWPLGWPV GG..FPGPQG PYYCGAGADK AF..GRDIVD SHYKAYAGIN -AJFBQB EVNWPVGWPV GG..FPGPQG PYYCGVGADK AF..GRDIVD AHYKAYAGIN -AJPMQ1 DINWPLGWPA GG..YPGPQG PYYCSVGADK AF..GRDVVE AHYKAFAGIN -AJFBQ DVQWPVGWPL GG..FPGPQG PYYCGIGANK AF..GRDIVD SHYKAYAGIN -AJYLNB DIHWPIGMAL GG..FPGPQG PYYCGTGAEK AF..GRDIVD SHYKAYAGIN -AJRZQG DINWPLGWPV GG..FPGPQG PYYCGIGADK SF..GRDIVD SHYKAYAGIN -AJLCQB DTNWPLGWPL GG..FPGPQG PYYCGIGADK AF..GRDIVH AHYKAYAGVN -AJRZQB DVNWPLGWPV GG..FPGPQG PYYCAAGAEK AF..GRDIVD AHYKAYAGIN -AJFBQD NVNWPLGWPV GG..YPGPQG PYYCSAGADK SF..GRDISD AHYKAFAGIN -AJPMQ2 NVKWPLGWPV GG..YPGPQG PYYCAAGADK SF..GRDISD AHYKAYAGIN -AJRZQD DVNWPLGWPV GG..YPGPQG PYYCAVGSDK SF..GRDISD AHYKAYAGIN -AJBHQ DVNWPLGWPV GG..YPGPQG PYYCAVGSDK SF..GRDISD AHYKAYAGIE -AJDHQ VTKWPLGWPK GG..YPAGQG PYYCSVGAGR SI..GRDIPE VHYRCHAGIQ -AJMSQ DG.HPFGWPS NG..FPGPQG PYYCGVGADK AY..GRDIVE AHYRAYAGVK -AJMSQ3 DG.HPFGWPF NG..FPGPQG PYYCGVGADK AY..GRDIVE AHYRAYAGVK -AJHYQ DG.HPFGWPS NG..FPGPQG PYYCGVGADK AY..GRDIVE AHYRAYAGVK -AJRTQ DG.HPFGWPS NG..FPGPQG PYYCGVGADK AY..GRDIVE AHYRAYAGIK -AJHUQ DG.HPFGWPS NG..FPGPQG PYYCGVGADR AY..GRDIVE AHYRAYAGVK -AJCHQ DG.HPFGWPS NC..FPGPQG PYYCGVGADK AY..GRDIVE AHYRAYAGVK -AJFF2C G....HHWAG QEW.FPDP.G PYYCGVGANK SS..PR.HKD AHYAPYAGTQ -AJFF1M GR.TSFGWPE NG..FPAPQG PYYCGVGADR VY..ARDLVE AHVVAYAGID -AJSM2V GY..PLGFPK GG..FPAPQG GYYCGVGADE IF..GRDVVE AHLDNKAGLA -AJSM2H DR..PLGFPE GGG.YPAPQA DYYCGVGADA IF..GREIVE KHLDLAAGLG -AJKXQ GR..PYGWPE VG..YPAPQG PYYCGVGGSK MP..GRQIVE RHTQADAGLA -AJZJQ2 GR..PLGFPT SG..YPAPQG PYYTGVGFSN VGDVARKIVE EHLDLAAGIN - - -AJPMQA ISGINGEVMP GQWEFQVGPS VGISAGDEIW AARYILERIT EIAVVSFDPK -AJFBQA ISGINGEVMP GQWEFQVGPS VGISAGDEVW AARYILERIT ELAVVSFDPK -AJAAQ ISGINGEVMP GQWEFQVGPS VGISAGDEIW VARYILERIT EVAVLSFDPK -AJFBQB ISGINGEVMP GQWEFQVGPA VGISAGDELW VARYILERIT EVAVLSFDPK -AJPMQ1 ISGINGEVMP GQWEFQVGPS VGISAGDEIW VARYILERIT EVAVLTFDPK -AJFBQ ISGINGEVMP GQWEFQVGPS VGISAADELW VARYILERIT EIAVLSFDPK -AJYLNB ISGINAEVMP GQWEFQVGPS IGISAGDELW VARYILERIT EIAVLSLDPK -AJRZQG ISGINGEVMP GQWEFQVGPS VGISAGDQVW VARYILERIT EIAVVSFDPK -AJLCQB ISGINGEVMP GQWEFQVGPS VGIAAADQIW VARYILERIT EIYVVSFDPK -AJRZQB ISGINGEVMP GQWEFQVGPS VGIAAADQVW VARYILERVT EVAVLSLDPK -AJFBQD ISGTNGEVMP GQWEYQVGPS VGIEAGDHIW ASRYILERIT EQAVLSLDPK -AJPMQ2 ISGTNGEVMP GQWEYQVGPS VGIEAGDHIW ASRYILERIT EQAVLTLDPK -AJRZQD ISGTNGEVMP GQWEYQVGPS VGIEAGDHIW ISRYILERIT EQAVLTLDPK -AJBHQ ISGTNGEVMP GQWEYQVGPS VGIDAGDHIW ASRYILERIT EQAVLTLDPK -AJDHQ ISGVNGEVLP SQWEYQVGPV EGIAMGDQMW MSRYLMYRVA ELFEVTFDPK -AJMSQ ITGTNAEVMP AQWEFQIGPC EGIRMGDHLW IARFILHRVC EDFIATFDPK -AJMSQ3 ITGTNAEVMP AQW....... .......... .......... .......... -AJHYQ ITGTNAEVMP AQWEFQIGPC EGIRMGDHLW VARFILHRVC EDFIATFDPK -AJRTQ ITGTNAEVMP AQWEFQIGPC EGIRMGDHLW VARFILHRVC EDFIATFDPK -AJHUQ IAGTNAEVMP AQWEFQIGPC EGISMGDHLW VARFILHRVC EDFIATFDPK -AJCHQ IGGTNAEVMP AQWEFQVGPC EGIEMGDHLW IARFILHRVC EDFIVSFDPK -AJFF2C GVPTNAEVMP AQWEFQVGPC EGISIGDDLW MARFLLHRIS EEFVSTLDPK -AJFF1M FAGTNAEVMP AQWEFQIGPA G.IKACDDLW VSRYILQRIA EEYVVTFDPK -AJSM2V ISGINAEVMP GQWEFQVGPV SPLEVSDHLW VARWLLYRTA EDFAATLDPK -AJSM2H LSGINAEVMP GQWEFQVGAL PPLEVSDHMW VARWLLHRVA EEFTASLDAK -AJKXQ IEGTNAEVMM GQWEFQIGVL PAPAIGDQIW LGRWLLHRIA EDYEVSFAAK -AJZJQ2 HEGINAEVAK GQWEFQIFGK GSKKAADEMW MARYLMLRLT EKYDIEFHCK - - -AJPMQA PIPG.DWNGA GAHANFSTKS MRENGGYEVI KKAIEKLGLR HHIAAYGE.. -AJFBQA PIPG.DWNGA GAHSNYSTKS MREEGGYEVI KKAIEKLGLR HHIAAYGK.. -AJAAQ PIKG.DWNGA GAHTNYSTKS MREDGGYEVI LKAIEKLGKK HHIAAYGE.. -AJFBQB PIKG.DWNGA GAHTNYSTKT MRNDGGYEEI KSAIQKLGKR HHIAAYGE.. -AJPMQ1 PIKG.DWNGA GAHTNYSTKS MREDGGYEII KKAIEKLGKR LHISAYGE.. -AJFBQ PIQG.DWNGA GAHTNYSTKS MRNDGGYEVI KKAITKLEKR HHIAAYGE.. -AJYLNB PIPG.DWNGA GAHTNYSTKS MRNDGGYEVI KQAIEKLEKR HHIAAYGE.. -AJRZQG PIPG.DWNGA GAHTNYSTKS MRNDGGYEII KSAIEKLKLR HHISAYGE.. -AJLCQB PIPG.DWNGA GAHTNYSTKT MREEGGYEVI KKAIEKLGLR HHIAAYGE.. -AJRZQB PIPG.DWNGA GAHTNFSTKS MREPGGYEVI KKAIDKLALR HHIAAYGE.. -AJFBQD PIEG.DWNGA GCHTNYSTKS MREDGGFEVI KKAILNLSLR HHISAYGE.. -AJPMQ2 PIEG.DWNGA GCHTNYSTKS MREDGGFEVI KKAILNLSLR HHIEAYGE.. -AJRZQD PIQG.DWNGA GCHTNYSTKS MREDGGFEVI KKAILNLSLR HHISAYGE.. -AJBHQ PIQG.DWNGA GCHTNYSTLS MREDGGFDVI KKAILNLSLR HHIAAYGE.. -AJDHQ PIPG.DWNGS GGHVNFSNRQ PESPPAGKQS RSSAKKLGKR HHIAAYGE.. -AJMSQ PIPG.NWNVA GCHTNFSTKA MREENGLKCI EEAIDKLSKR HHIRAYDPKG -AJMSQ3 .......... .......... .......... .......... .......... -AJHYQ PIPG.NWNGA GCHTNFSTKA MREENGLKHI EEAIEKLSKR HHIRAYDPKG -AJRTQ PIPG.NWNGA GCHTNFSTKA MREENGLRCI EEAIDKLSKR HHIRAYDPKG -AJHUQ PIPG.NWNGA GCHTNFSTKA MREENGLKYI EEAIEKLSKR HHIRAYDPKG -AJCHQ PIPG.NWNGA GCHTNFSTKN MREDGGLKHI EEAIEKLSKR HHIRAYDPKG -AJFF2C PMPG.DWNGA GAHTNVSTNA MREDGGIRDI EKAVAKLSKC HHIRAYDPKQ -AJFF1M PMEG.QWNGA GAHTNFSTKE MRADGGIKAI EEAIEKLSKR HHIKAYYPKE -AJSM2V PVKG.DWNGA GAHTNFSTKA MRESYDAIIT AAESLGEGSK PHVKNYGA.. -AJSM2H PAKG.DWNGA GAHTNFSTRA MREGYDPIIT ACEALGQDDK PHVRQYGT.. -AJKXQ PIPG.DWNGA GAHTNFSTKQ TMEGWDAIVT CCEALG..TR VHVTHYGK.. -AJZJQ2 PLGDTDWNGS GMHANFSTEY MRTVGGKEYF EALMAAFDKN LHIAVYGP.. - - -AJPMQA ..GNERRLTG KHETADINVF SWGVANRGSS IRVGRDTEKG KGYFEDRRPA -AJFBQA ..GNERRLTG RHETADINTF SWGVANRGSS VRVGRDTEKG KGYFEDRRPA -AJAAQ ..GNERRLTG RHETADINTF LWGVANRGAS IRVGRDTEKG KGYFEDRRPS -AJFBQB ..GNERRLTG RHETADINTF LWGVANRGAS IRVGRDTEKG KGYFEDRRPA -AJPMQ1 ..GNERRLTG KHETADINTF SWGVANRGAS VRVGRDTEKG KGYFEDRRPA -AJFBQ ..GNERRLTG KHETADMNTF IWGVANRGAS IRVGRDTEKG KGYFEDRRPA -AJYLNB ..GNERRLTG RHETADISTF SWGVANRGAS I......... .......... -AJRZQG ..GNERRLTG RHETADINTF SWGVANRGAS VRVGRETEQG KGYFEDRRPA -AJLCQB ..GNERRLTG RHETADINTF LWGVANRGAS IRVGRDTEKG KGYFEDRRPA -AJRZQB ..GNERRLTG RHETADINTF KWGVANRGAS IRVGRDTEKG KGYFEDRRPA -AJFBQD ..GNERRLTG KHETASINTF SWGVANRGCS IRVGRDTEKG KGYLEDRRPA -AJPMQ2 ..GNERRLTG KHETASINDF SWGVANRGCS IRVGRDTEKG KGYLEDRRPA -AJRZQD ..GNERRLTG LHETASIDNF SWGVANRGCS IRVGRDTEAG KGYLEDRRPA -AJBHQ ..GNERRLTG LHETASISDF SWGVANRGCS IRVGRDTEAG KGYLEDRRPA -AJDHQ ..GNERRLTG KHETSSMNDF SWGVANRGCS IRVGRMVPVK CGYYEDRRPS -AJMSQ GLDNARALTG FHETSNINDF SAGVANRGAS IRIPRTVGQK KGYFEDRRLR -AJMSQ3 .......... .......... .......... .......... .......... -AJHYQ GLDNARGLTG FHETSNINDF SAGVANRSAS IRIPRTVGQK KGYFEDRRPS -AJRTQ GLDNARRLTG FHETSNINDF SAGVANRSAS IRIPRIVGQK KGYFEDRRPS -AJHUQ GLDNARRLTG FHETSNINDF SAGVANRSAR LRIPRTVGQK KGYFEDRRPS -AJCHQ GLDNARRLTG FHETSSIHEF SAGVANRGAS IRIPRNVGHK KGYFEDRGPS -AJFF2C GQDNARRLTG KHETSSINDF SAGVANRGCS IRIPRGVNDG KGYFEDRCPS -AJFF1M GKDNERRLVG RLETSSIDKF SWGVANRAVS VRVPRGVATG KGYLEDRRPS -AJSM2V ..GIDDRLTG LHETAPWNEY SYGVSDRGAS VRIPWQVEKG KGYIEDRRPN -AJSM2H ..GIEDRLTG AHETAPWDAY SYGASDRGAS VRIPWQVEVK KGYIEDRRPN -AJKXQ ..GIEDRLTG KHETAPWNKY SWGASDRGAS VRIPWAVEKK KGWLEDRRPN -AJZJQ2 ..DNDKRLTG KHETAPWNKF SYGVADRGAS IRVPHSFVNY KGYLEDRRPN - - -AJPMQA SNMDPYVVTS MIAETTILWK KP........ ......... -AJFBQA SNMDPYVVTS MIAETTILWK P......... ......... -AJAAQ SNMDPYVVTS MIADTTILWK P......... ......... -AJFBQB SNMDPYVVTS MIADTTILWK P......... ......... -AJPMQ1 SNMDPYVVTS MIAETTILLK P......... ......... -AJFBQ SNMDPYVVTS MIAETTLLWK P......... ......... -AJYLNB .......... .......... .......... ......... -AJRZQG SNMDPYIVTS MIAETTIIWK P......... ......... -AJLCQB SNMDPYVVTS MIAETTILWD NKS....... ......... -AJRZQB SNMDPYVVTG MIAETTLLWK QN........ ......... -AJFBQD SNMDPYVVTS LLAESTLLWE PTLEAEALAA QKLALKV.. -AJPMQ2 SNMDPYVVTA LLAESTLLWE PTLEAEALAA QKIALKV.. -AJRZQD SNMDPYVVTA LLAETTILWE PTLEAEVLAA KKLALKV.. -AJBHQ SNMDPYTVTA LLAETTILWE PTLEAEALAA KKLALKV.. -AJDHQ SNLDPYVVTR LLVETTLL.. .......... ......... -AJMSQ ANCDPYAVTE AIVRTCLLNE TGDEPFQYKN ......... -AJMSQ3 .......... .......... .......... ......... -AJHYQ ANCDPFAVTE AIVRTCLLNE TGDEPFQYKN ......... -AJRTQ ANCDPYAVTE AIVRTCLLNE TGDEPFQYKN ......... -AJHUQ ANCEPFSVTE ALIRTCLLNE TGDEPFQYKN ......... -AJCHQ ANCDPYAVTE ALVRTCLLNE TGDEPFEYKN ......... -AJFF2C SNCDPYSVVE AILRTICLDE .......... ......... -AJFF1M SNCDPYAVCN AIVRTCLLNE .......... ......... -AJSM2V ANVDPYVVTR LLVDTCCSAL EK.......A GQV...... -AJSM2H ANVDPYVVTR LMVDTCCTEL AR.......R EQI...... -AJKXQ ANMDPYLVTA LMIDTCCSAL AGDKPTLFVP SQTTPAPAS -AJZJQ2 SQGDPYQIVR RS........ .......... ......... - - diff --git a/website/version2/examples/glut.newick b/website/version2/examples/glut.newick deleted file mode 100755 index d1f965b..0000000 --- a/website/version2/examples/glut.newick +++ /dev/null @@ -1 +0,0 @@ -((AJRZQB:6.0347505,(AJRZQG:5.005189,(AJFBQ:5.0496607,(AJYLNB:4.8739843,((((((AJZJQ2:17.922678,(AJKXQ:13.302137,(AJSM2H:9.190935,AJSM2V:8.348928):4.237726):4.1729946):2.1668549,((AJFF1M:17.32338,AJFF2C:14.795074):1.1247139,(AJMSQ3:0.0,(AJCHQ:4.7881308,(AJHUQ:3.5035172,(AJRTQ:1.5708065,(AJHYQ:1.594532,AJMSQ:1.8223228):0.25151634):1.0522919):2.2449017):4.756546):6.748291):0.93679047):2.2975445,AJDHQ:3.1142578):7.6872816,(AJBHQ:6.8556995,AJRZQD:5.6727734):4.075513):0.63313675,(AJPMQ2:4.3359585,AJFBQD:3.6367054):5.6366634):2.04666,((AJPMQ1:4.699384,(AJFBQB:3.4119358,AJAAQ:2.5106182):0.31200266):0.88102937,(AJFBQA:2.4191017,AJPMQA:3.2756615):2.5073526):0.42850304):0.0):0.0):0.26338387):0.46177864):6.5498247,AJLCQB:6.5498247); diff --git a/website/version2/examples/jalviewlite.jar b/website/version2/examples/jalviewlite.jar deleted file mode 100755 index 99b506e..0000000 Binary files a/website/version2/examples/jalviewlite.jar and /dev/null differ diff --git a/website/version2/examples/jpred.jpg b/website/version2/examples/jpred.jpg deleted file mode 100755 index 011c982..0000000 Binary files a/website/version2/examples/jpred.jpg and /dev/null differ diff --git a/website/version2/examples/jpredQ.jpg b/website/version2/examples/jpredQ.jpg deleted file mode 100755 index 8e1a4b7..0000000 Binary files a/website/version2/examples/jpredQ.jpg and /dev/null differ diff --git a/website/version2/examples/lipase.msf b/website/version2/examples/lipase.msf deleted file mode 100755 index f737753..0000000 --- a/website/version2/examples/lipase.msf +++ /dev/null @@ -1,207 +0,0 @@ -PileUp - - - - MSF: 487 Type: P Check: 4627 .. - - Name: LIP1_CANFA oo Len: 487 Check: 678 Weight: 1.00 - Name: LIP2_MOUSE oo Len: 487 Check: 2632 Weight: 1.00 - Name: LIPH_HUMAN oo Len: 487 Check: 2807 Weight: 1.00 - Name: LIPH_MOUSE oo Len: 487 Check: 1096 Weight: 1.00 - Name: LIPH_RAT oo Len: 487 Check: 1917 Weight: 1.00 - Name: LIPL_BOVIN oo Len: 487 Check: 3520 Weight: 1.00 - Name: LIPL_CAVPO oo Len: 487 Check: 9282 Weight: 1.00 - Name: LIPL_CHICK oo Len: 487 Check: 7040 Weight: 1.00 - Name: LIPL_HUMAN oo Len: 487 Check: 3879 Weight: 1.00 - Name: LIPL_MOUSE oo Len: 487 Check: 5123 Weight: 1.00 - Name: LIPL_RAT oo Len: 487 Check: 3636 Weight: 1.00 - Name: LIPP_HORSE oo Len: 487 Check: 3071 Weight: 1.00 - Name: LIPP_HUMAN oo Len: 487 Check: 243 Weight: 1.00 - Name: LIPP_PIG oo Len: 487 Check: 3267 Weight: 1.00 - Name: LIPP_RABIT oo Len: 487 Check: 5962 Weight: 1.00 - Name: LIPP_RAT oo Len: 487 Check: 474 Weight: 1.00 - -// - - - -LIP1_CANFA KEVCYEQIGC FSDAEPWAG. TAIRPLKVLP WSPERIGTRF LLYTNKNP.N -LIP2_MOUSE KEVCYGHLGC FSNDKPWAG. MIQRPSKIFP WSPEDIDTRF LLYTNENP.N -LIPH_HUMAN SSALGQSLKP EPFGRRAQA. ......VETN KTLHEMKTRF LLFGETN... -LIPH_MOUSE SSACGQGVGT EPFGRSLGA. ......TEAS KPLKKPETRF LLFQDEND.R -LIPH_RAT SSACGQGVGT EPFGRNLGA. ......TEER KPLQKPEIRF LLFKDESD.R -LIPL_BOVIN LDPAGPNFEY AEDRITGG.. .......... KDFRDIESKF ALRTPEDTAE -LIPL_CAVPO MNIDRKILNK ALAKEKVAN. ........CQ KDYTDIESKF ARRTPENTVE -LIPL_CHICK KTALLAVLCL CLRGAAGSD. ......PEAE MNFEGIESKF SLRTPAEPDE -LIPL_HUMAN LAVWLQSLTA SRGGVAAAD. ........QR RDFIDIESKF ALRTPEDTAE -LIPL_MOUSE LGVWLQSLTA FRGGVAAAD. ........AG RDFSDIESKF ALRTPEDTAE -LIPL_RAT LGVWLQSLTA FRGGVAAAD. ........GG RDFSDIESKF ALRTPEDTAE -LIPP_HORSE NEVCYERLGC FSDDSPWAG. IVERPLKILP WSPEKVNTRF LLYTNENP.D -LIPP_HUMAN KEVCYERLGC FSDDSPWSG. ITERPLHILP WSPKDVNTRF LLYTNENP.N -LIPP_PIG SEVCFPRLGC FSDDAPWAG. IVQRPLKILP PD.KDVDTRF LLYTNQNQ.N -LIPP_RABIT LEVCYERLGC FGNRIPWSGG TLERPFSTLP STPKIVNTRF LLYTNENP.N -LIPP_RAT KEVCFDKLGC FSDDAPWSG. TIDRPLKALP WSPAQINTRF LLYTNENQ.D - - -LIP1_CANFA NFQTLLPSDP STIEASNFQT DKKTRFIIHG FIDKGE.ENW LLDMCKNMFK -LIP2_MOUSE NYQIISATDP ATINASNFQL DRKTRFIIHG FIDKGE.EGW LLDMCKKMFQ -LIPH_HUMAN QGCQIRINHP DTLQECGFNS SLPLVMIIHG WSVDGVLENW IWQMVAALKS -LIPH_MOUSE LGCRLRPQHP ETLQECGFNS SQPLIMIIHG WSVDGLLENW IWKIVSALKS -LIPH_RAT LGCQLRPQHP ETLQECGFNS SHPLVMIIHG WSVDGLLETW IWKIVGALKS -LIPL_BOVIN DTCHLIPGVT ESVANCHFNH SSKTFVVIHG WTVTGMYESW VPKLVAALYK -LIPL_CAVPO DTCHLIPGVT ESVANCHFNH SSKTFMVIHG WTVTGMYESW VPKLVAALYK -LIPL_CHICK DVCYLVPGQM DSLAQCNFNH TSKTFVVIHG WTVTGMYESW VPKLVDALYK -LIPL_HUMAN DTCHLIPGVA ESVATCHFNH SSKTFMVIHG WTVTGMYESW VPKLVAALYK -LIPL_MOUSE DTCHLIPGLA DSVSNCHFNH SSKTFVVIHG WTVTGMYESW VPKLVAALYK -LIPL_RAT DTCHLIPGLA DSVSNCHFNH SSKTFVVIHG WTVTGMYESW VPKLVAALYK -LIPP_HORSE NFQEIV.ADP STIQSSNFNT GRKTRFIIHG FIDKGE.ESW LSTMCQNMFK -LIPP_HUMAN NFQEVA.ADS SSISGSNFKT NRKTRFIIHG FIDKGE.ENW LANVCKNLFK -LIPP_PIG NYQELV.ADP STITNSNFRM DRKTRFIIHG FIDKGE.EDW LSNICKNLFK -LIPP_RABIT NFQEIS.ADA STIRGSNFRT DRKTRFIIHG FTDKGE.ENW LSNLCENLFQ -LIPP_RAT NYQKIT.SDA SSIRNSNFKT NRKTRIIIHG FIDKGE.ENW LSDMCKNMFK - - -LIP1_CANFA V...EEVNCI CVDWKKGSQT SYTQAANNVR VVGAQVAQML SMLSANYSYS -LIP2_MOUSE V...EKVNCI CVDWKRGSRT EYTQASYNTR VLGAEIAFLV QVLSTEMGYS -LIPH_HUMAN QPAQP.VNVG LVDWITLAHD HYTIAVRNTR LVGKEVAALL RWLEESVQLS -LIPH_MOUSE RQSQP.VNVG LVDWISLAYQ HYTIAVQNTR IVGQDVAALL LWLEESAKFS -LIPH_RAT RQSQP.VNVG LVDWISLAYQ HYAIAVRNTR VVGQEVAALL LWLEESMKFS -LIPL_BOVIN R..EPDSNVI VVDWLSRAQQ HYPVSAGYTK LVGQDVAKFM NWMADEFNYP -LIPL_CAVPO R..EPDSNVI VVDWLRRAQH HYPESADYTK LVGEDVARFI NWMEDEFKYS -LIPL_CHICK R..EPDSNVI VVDWLVRAQQ HYPVSAAYTK LVGKDVAMFI DWMEEKFNYP -LIPL_HUMAN R..EPDSNVI VVDWLSRAQE HYPVSAGYTK LVGQDVARFI NWMEEEFNYP -LIPL_MOUSE R..EPDSNVI VVDWLYRAQQ HYPVSAGYTK LVGNDVARFI NWMEEEFNYP -LIPL_RAT R..EPDSNVI VVDWLYRAQQ HYPVSAGYTK LVGNDVARFI NWLEEEFNYP -LIPP_HORSE V...ESVNCI CVDWKSGSRT AYSQASQNVR IVGAEVAYLV GVLQSSFDYS -LIPP_HUMAN V...ESVNCI CVDWKGGSRT GYTQASQNIR IVGAEVAYFV EFLQSAFGYS -LIPP_PIG V...ESVNCI CVDWKGGSRT GYTQASQNIR IVGAEVAYFV EVLKSSLGYS -LIPP_RABIT V...ETVNCI CVDWKGGSRT TYPQATQNIR IVGAEVAYLV GTLQSSLGYS -LIPP_RAT V...ESVNCI CVDWKGGSRA TYTQATQNVR VVGAEVALLV NVLKSDLGHP - - -LIP1_CANFA PSQVQLIGHS LGAHVAGEAG SRTPG...LG RITGLDPVEA SFQGTPEEVR -LIP2_MOUSE PENVHLIPHS LGSHVAGEAG RRLEGH..VG RITGLDPAEP CFQGLPEEVR -LIPH_HUMAN RSHVHLIGYS LGAHVSGFAG SSIGGTHKIG RITGLDAAGP LFEGSAPSNR -LIPH_MOUSE RSKVHLIGYS LGAHVSGFAG SSMDGKNKIG RITGLDPAGP MFEGTSPNER -LIPH_RAT RSKVHLIGYS LGAHVSGFAG SSMGGKRKIG RITGLDPAGP MFEGTSPNER -LIPL_BOVIN LGNVHLLGYS LGAHAAGIAG SLTN..KKVN RITGLDPAGP NFEYAEAPSR -LIPL_CAVPO VDNVHLLGYS LGAHAAGVAG SRTN..TKVS RITGLDPAGP NFEYAEATSR -LIPL_CHICK LNNVHLLGYS LGAHAAGIAG SLTK..KKVN RITGLDPAGP TFEYADAPIR -LIPL_HUMAN LDNVHLLGYS LGAHAAGIAG SLTN..KKVN RITGLDPAGP NFEYAEAPSR -LIPL_MOUSE LDNVHLLGYS LGAHAAGVAG SLTN..KKVN RITGLDPAGP NFEYAEAPSR -LIPL_RAT LDNVHLLGYS LGAHAAGVAG SLTN..KKVN RITGLDPAGP NFEYAEAPSR -LIPP_HORSE PSNVHIIGHS LGSHAAGEAG RRTNGA..VG RITGLDPAEP CFQGTPELVR -LIPP_HUMAN PSNVHVIGHS LGAHAAGEAG RRTNGT..IG RITGLDPAEP CFQGTPELVR -LIPP_PIG PSNVHVIGHS LGSHAAGEAG RRTNGT..IE RITGLDPAEP CFQGTPELVR -LIPP_RABIT PSNIHVIGHS LGAHAAGEVG RRTNGT..IG RITGLDPAEP YFQGTPEIVR -LIPP_RAT PDNVHLIGHS LGSHVAGEAG KRTFGA..IG RITGLDAAEP YFQGTPEEVR - - -LIP1_CANFA LDPTDADFVD VIHTDAAPLI PFLGFGTSQQ MGHLDFFPNG GEEMPGCKKN -LIP2_MOUSE LDPSDAMFVD VIHTDSAPII PYLGFGMSQK VGHLDFFPNG GKEIPGCQKN -LIPH_HUMAN LSPDDANFVD AIHTFTR.EH MGLSVGIKQP IGHYDFYPNG GSFQPGCHFL -LIPH_MOUSE LSPDDANFVD AIHTFTR.EH MGLSVGIKQP IAHYDFYPNG GSFQPGCHFL -LIPH_RAT LSPDDANFVD AIHTFTR.EH MGLSVGIKQP IAHYDFYPNG GSFQPGCHFL -LIPL_BOVIN LSPDDADFVD VLHTFTR.GS PGRSIGIQKP VGHVDIYPNG GTFQPGCNIG -LIPL_CAVPO LSPDDAQFVD VLHTFTR.GS PGRSIGIQKP VGHVDIYPNG GSFQPGCNIQ -LIPL_CHICK LSPDDADFVD VLHTYTR.GS PDRSIGIQKP VGHIDIYPNG GGFQPGCNLG -LIPL_HUMAN LSPDDADFVD VLHTFTR.GS PGRSIGIQKP VGHVDIYPNG GTFQPGCNIG -LIPL_MOUSE LSPDDADFVD VLHTFTR.GS PGRSIGIQKP VGHVDIYPNG GTFQPGCNIG -LIPL_RAT LSPDDADFVD VLHTFTR.GS PGRSIGIQKP VGHVDIYPNG GTFQPGCNIG -LIPP_HORSE LDPSDAQFVD VIHTDIAPFI PNLGFGMSQT AGHLDFFPNG GKEMPGCQKN -LIPP_HUMAN LDPSDAKFVD VIHTDGAPIV PNLGFGMSQV VGHLDFFPNG GVEMPGCKKN -LIPP_PIG LDPSDAKFVD VIHTDAAPII PNLGFGMSQT VGHLDFFPNG GKQMPGCQKN -LIPP_RABIT LDPSDAQFVD VIHTDAAPMV PNLGFGMSQT VGHLDFFPNG GKEMPGCQKN -LIPP_RAT LDPTDAQFVD AIHTDAAPII PNLGFGMSQT VGHLDFFPNG GMEMPGCQKN - - -LIP1_CANFA ALSQIVDLDG IWEGTRDFVA CNHLRSYKYY SESILNPDG. FASYPCASYR -LIP2_MOUSE ILSTIVDING IWEGTRNFAA CNHLRSYKYY ASSILNPDG. FLGYPCSSYE -LIPH_HUMAN ELYRHIAQHG FNAITQ.TIK CSHERSVHLF IDSLLHAGTQ SMAYPCGDMN -LIPH_MOUSE ELYKHIAEHG LNAITQ.TIK CAHERSVHPF IDSLQHSDLQ SIGFQCSDMG -LIPH_RAT ELYKHIAEHG LNAITQ.TIN CAHERSVHLF IDSLQHSNLQ NTGFQCSNMD -LIPL_BOVIN EALRVIAERG LGDVDQ.LVK CSHERSVHLF IDSLLNEENP SKAYRCNSKE -LIPL_CAVPO DALRVISQKG FGDMDQ.LVK CSHERSIHLF IDSLLNEENP SKAYRCNSKE -LIPL_CHICK EALRLIAEKG FSDVDQ.LVK CSHERSIHLF IDSLLYEEKP SMAYRCNTKE -LIPL_HUMAN EAIRVIAERG LGDVDQ.LVK CSHERSIHLF IDSLLNEENP SKAYRCSSKE -LIPL_MOUSE EAIRVIAERG LGDVDQ.LVK CSHERSIHLF IDSLLNEENP SKAYRCNSKE -LIPL_RAT EAIRVIAEKG LGDVDQ.LVK CSHERSIHLF IDSLLNEENP SKAYRCNSKE -LIPP_HORSE VLSQIVDIDG IWQGTRDFAA CNHLRSYKYY TDSILNPDG. FAGFSCASYS -LIPP_HUMAN ILSQIVDIDG IWEGTRDFAA CNHLRSYKYY TDSIVNPDG. FAGFPCASYN -LIPP_PIG ILSQIVDIDG IWEGTRDFVA CNHLRSYKYY ADSILNPDG. FAGFPCDSYN -LIPP_RABIT VLSQIVDING VWEGTRDFVA CNHLRSYKYY ADSIVNPNG. FAGFSCASYT -LIPP_RAT ILSQIVDIDG IWEGTRDFAA CNHLRSYKYY TDSIVNPTG. FSGFSCSSYN - - -LIP1_CANFA AFESNKCFPC PDQGCPQMGH YADKFAVKTS DETQKYFLNT GDSSNFARWR -LIP2_MOUSE KFQHNDCFPS PEQGCPKMGH YADQFEGKTA TVEQTFFLNT ADTGNFTRWR -LIPH_HUMAN SFSQGLCLSC KKGRCNTLGY HVRQEPRSKS ...KRLFLVT RAQSPFKVYH -LIPH_MOUSE SFSQGLCLSC KKGRCNTLGY DIRKDRSGKS ...KRLFLIT RAQSPFKVYH -LIPH_RAT SFSQGLCLNC KKGRCNSLGY DIRRIGHVKS ...KTLFLIT RAQSPFKVYH -LIPL_BOVIN AFEKGLCLSC RKNRCNNMGY EINKVRAKRS ...SKMYLKT RSQMPYKVFH -LIPL_CAVPO AFEKGLCLSC RKNRCNNVGY EINKVRAKRS ...SKMYLKT RSQMPYKVFH -LIPL_CHICK AFEKGLCLSC RKNRCNNLGY KVNRVRTKRN ...TKMYLKT RAQMPYKVFH -LIPL_HUMAN AFEKGLCLSC RKNRCNNLGY EINKVRAKRS ...SKMYLKT RSQMPYKVFH -LIPL_MOUSE AFEKGLCLSC RKNRCNNLGY EINKVRAKRS ...SKMYLKT RSQMPYKVFH -LIPL_RAT AFEKGLCLSC RKNRCNNVGY EINKVRAKRS ...SKMYLKT RSQMPYKVFH -LIPP_HORSE DFTANKCFPC SSEGCPQMGH YADRFPGRTK GVGQLFYLNT GDASNFARWR -LIPP_HUMAN VFTANKCFPC PSGGCPQMGH YADRYPGKTN DVGQKFYLDT GDASNFARWR -LIPP_PIG VFTANKCFPC PSEGCPQMGH YADRFPGKTN GVSQVFYLNT GDASNFARWR -LIPP_RABIT AFSANKCFPC SN.GCPQMGH YADRFSRKTD GVGQTFYLNT GDSSNFARWR -LIPP_RAT VFSANKCFPC GSEGCPQMGH YADKYPGKTK ELYQKFYLNT GDKSNFARWR - - -LIP1_CANFA YGVSITLSG. ..KR.ATGQA KVALFGSKGN THQFNIFKGI .LKPGSTHSN -LIP2_MOUSE YKVSVTLSGP ..KK.LSGYI LVALYGCNAN SKQYEVFKGS .LQPEARYIR -LIPH_HUMAN YQLKIQFINQ TETP.IQTTF TMSLLGTKEK MQKIPITLGK GIASNKTYSF -LIPH_MOUSE YQFKIQFINQ IEKP.VEPTF TMSLLGTKEE IKRIPITLGE GITSNKTYSF -LIPH_RAT YQFKIQFINQ MEKP.MEPTF TMTLLGTKEE IKKIPITLGE GITSNKTYSL -LIPL_BOVIN YQVKIHFSGT ESNTYTNQAF EISLYGTVAE SENIPFTLPE .VSTNKTYSF -LIPL_CAVPO YQVKIYFSGT ETTTYTNQAF EISLYGTVAE SENIPFTLPE .VSANNTYSF -LIPL_CHICK YQVKIHFFGK TNVTKVDQPF LISLYGTLDE SENIPFTLPE .VSSNKTFSF -LIPL_HUMAN YQVKIHFSGT ESETHTNQAF EISLYGTVAE SENIPFTLPE .VSTNKTYSF -LIPL_MOUSE YQVKIHFSGT ENGKQHNQAF EISLYGTVAE SENIPFTLPE .VSTNKTYSF -LIPL_RAT YQVKIHFSGT ENDKQNNQAF EISLYGTVAE SENIPFTLPE .VATNKTYSF -LIPP_HORSE YRVDVTLSG. ..KK.VTGHV LVSLFGNKGN SRQYEIFQGT .LKPDNTYSN -LIPP_HUMAN YKVSVTLSG. ..KK.VTGHI LVSLFGNKGN SKQYEIFKGT .LKPDSTHSN -LIPP_PIG YKVSVTLSG. ..KK.VTGHI LVSLFGNEGN SRQYEIYKGT .LQPDNTHSD -LIPP_RABIT YQVAVTLSG. ..RR.VTGHV LVSLYGSKGN SKQYEIFTGL .LKPGDTHLN -LIPP_RAT YQVTVTLSG. ..QK.VTGHI LVSLFGNGGN SKQYEVFKGS .LHPGDTHVK - - -LIP1_CANFA EFDAKLDVGT IEKVKFLWNN N..VVNPTFP KVG....... ........AA -LIP2_MOUSE DIDVDVNVGE IQKVKFLWNN K..VINLFRP TMG....... ........AS -LIPH_HUMAN LITLDVDIGE LIMIKFKWEN S..AVWANVW DTVQTIIPWS TGPRHSGLVL -LIPH_MOUSE LITLDKDIGE LILLKFKWEN S..AVWANVW NTVQTIMLWG IEPHHSGLIL -LIPH_RAT LITLNKDIGE LIMLKFKWEN S..AVWANVW NTVQTIMLWD TEPHYAGLIV -LIPL_BOVIN LLYTEVDIGE LLMLKLKWIS DSYFSWSNWW SSP....... ......GFDI -LIPL_CAVPO LIYTEVDIGE LLMLKLKWIT ESYFSWSSWW GRP....... ......TFTI -LIPL_CHICK LIYTEVDIGD LLMLKLQWEK DTFFSWSDWW TPF....... ......AFTI -LIPL_HUMAN LIYTEVDIGE LLMLKLKWKS DSYFSWSDWW SSP....... ......GFAI -LIPL_MOUSE LIYTEVDIGE LLMMKLKWMS DSYFSWPDWW SSP....... ......SFVI -LIPL_RAT LIYTEVDIGE LLMMKLKWKN DSYFRWSDWW SSP....... ......SFVI -LIPP_HORSE EFDSDVEVGD LEKVKFIWYN N..VINLTLP KVG....... ........AS -LIPP_HUMAN EFDSDVDVGD LQMVKFIWYN N..VINPTLP RVG....... ........AS -LIPP_PIG EFDSDVEVGD LQKVKFIWYN NN.VINPTLP RVG....... ........AS -LIPP_RABIT EFDSDVDVGD VQKVKFVWYN N..VINPTLP KVG....... ........AS -LIPP_RAT EFDSDMDVGD LQKVKFIWYN N..VINPTLP KVG....... ........AS - - -LIP1_CANFA KITVQK.GEE KTVHSFCSES TVR....EDV LLTLTPC -LIP2_MOUSE QITLQR.AKD GKEFNFCTSN TVH....EDV LQSLYPC -LIPH_HUMAN KTIRVKAGET QQRMTFCSEN TDDLLLRPTQ EKIFVKC -LIPH_MOUSE KTIWVKAGET QQRMTFCPEN LDDLQLHPSQ EKVFVNC -LIPH_RAT KTIWVKAGET QQRMTFCPDN VDDLQLHPTQ EKVFVKC -LIPL_BOVIN GKIRVKAGET QKKVIFCSRE KMSYLQKGKS PVIFVKC -LIPL_CAVPO EKIRVKAGET QKKIVFCSRE KVSKLQKGKE APVFVKC -LIPL_CHICK QRVRVKSGET QKKVVFCSRD GSSRLGKGEE AAIFVKC -LIPL_HUMAN QKIRVKAGET QKKVIFCSRE KVSHLQKGKA PAVFVKC -LIPL_MOUSE ERIRVKAGET QKKVIFCARE KVSHLQKGKD SAVFVKC -LIPL_RAT EKIRVKAGET QKKVIFCARE KVSHLQKGKD AAVFVKC -LIPP_HORSE KITVER.NDG .SVFNFCSEE TVR....EDV LLTLTAC -LIPP_HUMAN KIIVET.NVG .KQFNFCSPE TVR....EEV LLTLTPC -LIPP_PIG KITVER.NDG .KVYDFCSQE TVR....EEV LLTLNPC -LIPP_RABIT QITVEQ.NDG .RVFKFCSTD TVR....EDI LLTLTPC -LIPP_RAT RISVER.NDG .RVFNFCSQD TVR....EDV LLTLSAC - - diff --git a/website/version2/examples/muscle.jpg b/website/version2/examples/muscle.jpg deleted file mode 100755 index 5f89239..0000000 Binary files a/website/version2/examples/muscle.jpg and /dev/null differ diff --git a/website/version2/examples/overview.gif b/website/version2/examples/overview.gif deleted file mode 100755 index e961650..0000000 Binary files a/website/version2/examples/overview.gif and /dev/null differ diff --git a/website/version2/examples/pca.gif b/website/version2/examples/pca.gif deleted file mode 100755 index 6192c3b..0000000 Binary files a/website/version2/examples/pca.gif and /dev/null differ diff --git a/website/version2/examples/pdb.gif b/website/version2/examples/pdb.gif deleted file mode 100755 index 7e1e739..0000000 Binary files a/website/version2/examples/pdb.gif and /dev/null differ diff --git a/website/version2/examples/search.gif b/website/version2/examples/search.gif deleted file mode 100755 index 4d98c44..0000000 Binary files a/website/version2/examples/search.gif and /dev/null differ diff --git a/website/version2/examples/serprot.msf b/website/version2/examples/serprot.msf deleted file mode 100755 index cc5b9b4..0000000 --- a/website/version2/examples/serprot.msf +++ /dev/null @@ -1,65 +0,0 @@ -PileUp - - - - MSF: 279 Type: P Check: 9995 .. - - Name: KYBOA oo Len: 279 Check: 4492 Weight: 1.00 - Name: TRBOTR oo Len: 279 Check: 6670 Weight: 1.00 - Name: ELPG oo Len: 279 Check: 6037 Weight: 1.00 - Name: PRRTG oo Len: 279 Check: 3057 Weight: 1.00 - Name: KQHUP oo Len: 279 Check: 6499 Weight: 1.00 - Name: TRSMG oo Len: 279 Check: 3240 Weight: 1.00 - -// - - - -KYBOA .CGVP..... AIQPVLSGLS .........R IVNGEEAVPG SWPWQVSLQD -TRBOTR .......... .....VDDDD .........K IVGGYTCGAN TVPYQVSLN. -ELPG .......... .......... .......... VVGGTEAQRN SWPSQISLQY -PRRTG .......... .......... .......... IIGGVESIPH SRPYMAHLDI -KQHUP AYGTQGSSGY SLRLCNTGDN SVCTTKTSTR IVGGTNSSWG EWPWQVSLQV -TRSMG .......... .......... .......... VVGGTRAAQG EFPFMVRLS. - - -KYBOA K...TGFHFC GGSLINENWV VTAAHCG... ..VTTSDVVV AGEFDQGSSS -TRBOTR ....SGYHFC GGSLINSQWV VSAAHCY... ..KSGIQVRL G.EDNINVVE -ELPG RSGSSWAHTC GGTLIRQNWV MTAAHCVD.. .RELTFRVVV G.EHNLNQNN -PRRTG VTEKGLRVIC GGFLISRQFV LTAAHCK... ..GREITVIL G.AHDVRKRE -KQHUP K.LTAQRHLC GGSLIGHQWV LTAAHCFDGL PLQDVWRIYS G.ILNLSDIT -TRSMG .......MGC GGALYAQDIV LTAAHCVS.. ..GSGNNTSI TATGGVVDLQ - - -KYBOA EKIQKLKIAK VFKNSKYNSL TINN..DITL LKLSTAASFS QTVSAVCLPS -TRBOTR GNEQFISASK SIVHPSYNSN TLNN..DIML IKLKSAASLN SRVASISLPT -ELPG GTEQYVGVQK IVVHPYWNTD DVAAGYDIAL LRLAQSVTLN SYVQLGVLPR -PRRTG STQQKIKVEK QIIHESYNSV PNLH..DIML LKLEKKVELT PAVNVVPLPS -KQHUP KDTPFSQIKE IIIHQNYKVS EGNH..DIAL IKLQAPLNYT EFQKPICLPS -TRSMG S.AVKVRSTK VLQAPGYNGT G.K...DWAL IKLAQPINQ. P.....TLKI - - -KYBOA ASDDFAAGTT CVTTGWGLTR YTNANTPDRL QQASLPLLSN TNCKK..YWG -TRBOTR S..CASAGTQ CLISGWGNTK SSGTSYPDVL KCLKAPILSD SSCKS..AYP -ELPG AGTILANNSP CYITGWGLTR .TNGQLAQTL QQAYLPTVDY AICSSSSYWG -PRRTG PSDFIHPGAM CWAAGWGKTG .VRDPTSYTL REVELRIMDE KACVD...YR -KQHUP KGDTSTIYTN CWVTGWGFSK .EKGEIQNIL QKVNIPLVTN EECQKR.YQD -TRSMG ATTTAYNQGT FTVAGWGANR .EGGSQQRYL LKANVPFVSD AACRS.AYGN - - -KYBOA TKIKDAMICA G...ASGVSS .CMGDSGGPL VCKK.NGAWT LVGIVSWGS. -TRBOTR GQITSNMFCA GY.LEGGKDS .CQGDSGGPV VCS...G..K LQGIVSWGS. -ELPG STVKNSMVCA G...GNGVRS GCQGDSGGPL HCLV.NGQYA VHGVTSFVSR -PRRTG YYEYKFQVCV G..SPTTLRA AFMGDSGGPL LCA...G..V AHGIVSYGH. -KQHUP YKITQRMVCA GY.KEGGKDA .CKGDSGGPL VCKH.NGMWR LVGITSWGE. -TRSMG ELVANEEICA GYPDTGGVDT .CQGDSGGPM FRKDNADEWI QVGIVSWGY. - - -KYBOA .STCSTSTPG VYARVTALVN WVQQTLAAN -TRBOTR .GCAQKNKPG VYTKVCNYVS WIKQTIASN -ELPG LGCNVTRKPT VFTRVSAYIS WINNVIASN -PRRTG ...PDAKPPA IFTRVSTYVP TINAVIN.. -KQHUP .GCARREQPG V......... ......... -TRSMG .GCARPGYPG VYTEVSTFAS AIASAARTL - - diff --git a/website/version2/examples/tree.gif b/website/version2/examples/tree.gif deleted file mode 100755 index e4619dd..0000000 Binary files a/website/version2/examples/tree.gif and /dev/null differ diff --git a/website/version2/examples/uniprot.gif b/website/version2/examples/uniprot.gif deleted file mode 100755 index a643904..0000000 Binary files a/website/version2/examples/uniprot.gif and /dev/null differ diff --git a/website/version2/examples/wrap.gif b/website/version2/examples/wrap.gif deleted file mode 100755 index b67a78b..0000000 Binary files a/website/version2/examples/wrap.gif and /dev/null differ diff --git a/website/version2/index.html b/website/version2/index.html deleted file mode 100755 index 8acf398..0000000 --- a/website/version2/index.html +++ /dev/null @@ -1,100 +0,0 @@ - - - - -JalView - Java alignment editor - - - - - - - -
- - - - -
- - - - - -
Jalview -
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a - multiple alignment editor
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-
- - - - - -

Downloads

- - Examples - Reference - Source Code
    -
  • Jalview 2
    • -
-

Feedback

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- -

-

Key features of Jalview Version 2: -

-

Current development allows the Jalview Application to be distributed - using Java Web Start which is installed with Java. - Each time the application is started via Java Web Start an automatic - update is performed so that you will always be running the latest code.
-
- N.B. if you have a local installation of Java and clicking on the link - below prompts the question "Open using application...", locate - your installation of Java Web Start - its called "javaws". Your web browser will now associate .jnlp - files with Java Web Start
-
- Try it now. -

-

Start - Jalview

-

 

-
- If you are having difficulties installing Java or would prefer not to - use Java Web Start you could try installing Jalview from the following - link. -

-

-

Install with InstallAnywhere -

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- - diff --git a/website/version2/webstart/JalviewX.jar b/website/version2/webstart/JalviewX.jar deleted file mode 100755 index 96d4a5c..0000000 Binary files a/website/version2/webstart/JalviewX.jar and /dev/null differ diff --git a/website/version2/webstart/JalviewX.jnlp b/website/version2/webstart/JalviewX.jnlp deleted file mode 100755 index 16c4b60..0000000 --- a/website/version2/webstart/JalviewX.jnlp +++ /dev/null @@ -1,43 +0,0 @@ - - - - Jalview - The Barton Group - - Jalview Multiple Alignment Editor - Jalview - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - diff --git a/website/version2/webstart/activation.jar b/website/version2/webstart/activation.jar deleted file mode 100755 index 2cd585b..0000000 Binary files a/website/version2/webstart/activation.jar and /dev/null differ diff --git a/website/version2/webstart/axis.jar b/website/version2/webstart/axis.jar deleted file mode 100755 index a6ee5e9..0000000 Binary files a/website/version2/webstart/axis.jar and /dev/null differ diff --git a/website/version2/webstart/castor.zip b/website/version2/webstart/castor.zip deleted file mode 100755 index 1ad484f..0000000 Binary files a/website/version2/webstart/castor.zip and /dev/null differ diff --git a/website/version2/webstart/commons-discovery.jar b/website/version2/webstart/commons-discovery.jar deleted file mode 100755 index f9fddd8..0000000 Binary files a/website/version2/webstart/commons-discovery.jar and /dev/null differ diff --git a/website/version2/webstart/commons-logging.jar b/website/version2/webstart/commons-logging.jar deleted file mode 100755 index 281ab3f..0000000 Binary files a/website/version2/webstart/commons-logging.jar and /dev/null differ diff --git a/website/version2/webstart/jaxrpc.jar b/website/version2/webstart/jaxrpc.jar deleted file mode 100755 index 197e6c7..0000000 Binary files a/website/version2/webstart/jaxrpc.jar and /dev/null differ diff --git a/website/version2/webstart/jhall.jar b/website/version2/webstart/jhall.jar deleted file mode 100755 index a6231df..0000000 Binary files a/website/version2/webstart/jhall.jar and /dev/null differ diff --git a/website/version2/webstart/log4j-1.2.8.jar b/website/version2/webstart/log4j-1.2.8.jar deleted file mode 100755 index 90b3b11..0000000 Binary files a/website/version2/webstart/log4j-1.2.8.jar and /dev/null differ diff --git a/website/version2/webstart/logo_big.gif b/website/version2/webstart/logo_big.gif deleted file mode 100755 index e898c94..0000000 Binary files a/website/version2/webstart/logo_big.gif and /dev/null differ diff --git a/website/version2/webstart/mail.jar b/website/version2/webstart/mail.jar deleted file mode 100755 index b8981f5..0000000 Binary files a/website/version2/webstart/mail.jar and /dev/null differ diff --git a/website/version2/webstart/regex.jar b/website/version2/webstart/regex.jar deleted file mode 100755 index a73a070..0000000 Binary files a/website/version2/webstart/regex.jar and /dev/null differ diff --git a/website/version2/webstart/saaj.jar b/website/version2/webstart/saaj.jar deleted file mode 100755 index 39c4276..0000000 Binary files a/website/version2/webstart/saaj.jar and /dev/null differ diff --git a/website/version2/webstart/wsdl4j.jar b/website/version2/webstart/wsdl4j.jar deleted file mode 100755 index 746f425..0000000 Binary files a/website/version2/webstart/wsdl4j.jar and /dev/null differ diff --git a/website/version2/webstart/xercesImpl.jar b/website/version2/webstart/xercesImpl.jar deleted file mode 100755 index 5a38fa5..0000000 Binary files a/website/version2/webstart/xercesImpl.jar and /dev/null differ diff --git a/website/version2/webstart/xml-apis.jar b/website/version2/webstart/xml-apis.jar deleted file mode 100755 index 1c09615..0000000 Binary files a/website/version2/webstart/xml-apis.jar and /dev/null differ