made vamsas a proper root element in schema and added example document.

[vamsas.git] / schemas / coreObject.xml

diff --git a/schemas/coreObject.xml b/schemas/coreObject.xml
new file mode 100755 (executable)
index 0000000..810dde4
--- /dev/null
+++ b/schemas/coreObject.xml
@@ -0,0 +1,87 @@
+<?xml version="1.0" encoding="UTF-8"?>
+<VAMSAS xmlns="http://www.vamsas.org" xmlns:xsi="http://www.w3.org/2001/XMLSchema-instance" xsi:schemaLocation="http://www.vamsas.org
+http://www.vamsas.ac.uk/build/VamsasClient/schemas/vamsas.xsd">
+       <SequenceSet>
+               <Sequence start="1" end="167" id="a1127235554296">
+                       <sequence>KTAIITGGSRGIGKSIAIKLGKLGASIVLNYRNNTDALKNTIRELEDLNINVIAVQGDISNYKECEKIIKAALDKFNGIDILVNNAGITADNLILRMKEEEFDKVIETNLKGTFNCVKHCIPMIKRRYGKIINISSVVGVAGNVGQCNYAAAKAGVIGFTKSLAKEL</sequence>
+                       <name>Q899P0</name>
+               </Sequence>
+               <Sequence start="1" end="168" id="a1127235554297">
+                       <sequence>KIAIVTGASSGIGRAIAFKLASRGANLILGDVKIDELRKVAEEIAKETKVKVIPLYVNVGDFNSTKEFYNKGISELGVDYVDILVNNAGINRDALFVKMTYEQWDEVIKVDLYSMFNMTKQVVDMVKRNYGRIINISSLSWLGNIGQANYSAAKAGVIGFTKTLAREL</sequence>
+                       <name>Q972M3</name>
+               </Sequence>
+               <Sequence start="1" end="167" id="a1127235554298">
+                       <sequence>KVIVITGASSGIGEQVAMQVAEQGATPVLMARTEEKLKALADKIKETYNTPCYYYVLDVSEETEVQSVFSKVLQEVGRIDILVNNAGFGIFKTFEDASMDEVKDMFQVNVFGLVACTKAVLPYMVKRNGHIINIASLAGKIATPKSSAYAATKHAVLGFTNSLRMEL</sequence>
+                       <name>Q81M93</name>
+               </Sequence>
+               <Sequence start="1" end="167" id="a1127235554299">
+                       <sequence>KIALVTGAMGGLGTAICQALAKDGCIVAANCLPNFEPAAAWLGQQEALGFKFYVAEGDVSDFESCKAMVAKIEADLGPVDILVNNAGITRDKFFAKMDKAQWDAVIATNLSSLFNVTQQVSPKMERGWGRIINISSVNGVKGQAGQTNYSAAKAGVIGFTKALAAEL</sequence>
+                       <name>NODG_AZOBR</name>
+               </Sequence>
+               <Sequence start="1" end="166" id="a1127235554300">
+                       <sequence>QTAVVTGGGKGIGRAICLALAREGADIVIAARTEKDIRETARMVEKEGRKALPVSTDIRVEEDVENMISEAVDAFGRIDILVNNAGVAYRKYMVETSTEEYDNIMDTNLKGMFFCTKYALPYLLKREGRIINISSGAGKHGIPKLSIYSASKFAVIGFTESIAYEI</sequence>
+                       <name>Q8PS57</name>
+               </Sequence>
+               <Sequence start="1" end="167" id="a1127235554301">
+                       <sequence>KTAIVTGAARGIGKAIALKFAAEGANIAFTDLVIDENAEKTRVELEAMGVKAKGYASNAANFEDTAKVVEEIHKDFGRIDILVNNAGITRDGLMMRMSEQQWDMVINVNLKSAFNFIHACTPMMRQKAGSIINMASVVGVHGNAGQANYAASKAGMIALAKSIAQEL</sequence>
+                       <name>Q8A195</name>
+               </Sequence>
+               <Sequence start="1" end="164" id="a1127235554302">
+                       <sequence>KVVVVTGAGSGIGEATAKRFAHEGASVVLVGRNQEKLAKVAAQLKGAEHLIRATDVADLTDVEALFKEVAERFGRLDVLVNNAGVVKSGKVTELGVEDWKAVMSVDLDGVFYCTRTAMPALIASKGNIINVSSVSGLGGDWGMSFYNAAKGAITNFTRALALD</sequence>
+                       <name>Q888G8</name>
+               </Sequence>
+               <Sequence start="1" end="164" id="a1127235554303">
+                       <sequence>KVALVTGAANGIGLAIAERLYQEGATLALADWNEEQLAIVIEQFDSARVYAQKVDVSDPEQVQALVRKTVERFGRLDILVNNAGIHIPGTVLECSVQDWRRIASVNIDGVVYCAMHALPELIKTRGCMVNTASVSGLGGDWGAAFYCATKGAVVNFTRALALD</sequence>
+                       <name>Q9KRP5</name>
+               </Sequence>
+               <Sequence start="1" end="163" id="a1127235554304">
+                       <sequence>KIALVTGASRGIGRAIAELLVERGATVIGTATSEGGAAAISEYLGENGKGLALNVTDVESIEATLKAINDEFGAIDILVNNAGITRDNLLMRMKDDEWNDIINTNLTPIYRMSKAVLRMMKKRAGRIINVGSVVGTMGNAGQTNYAAAKAGVIGFTKSMAREV</sequence>
+                       <name>Q87N22</name>
+               </Sequence>
+               <Alignment gapChar="-">
+                       <alignmentSequence start="1" end="167" refid="a1127235554296">
+                               <sequence>KTAIITGGSRGIGKSIAIKLGKLGASIVLNYRNNTDALKNTIRELEDLN--INVIAVQGDISNYKECEKIIKAALDKFNG--IDILVNNAGITADNLILRMKEEEFDKVIETNLKGTFNCVKHCIPMIKRRYGKIINISSVVGVAGNVGQCNYAAAKAGVIGFTKSLAKEL</sequence>
+                               <name>Q899P0</name>
+                       </alignmentSequence>
+                       <alignmentSequence start="1" end="168" refid="a1127235554297">
+                               <sequence>KIAIVTGASSGIGRAIAFKLASRGANLILGDVKIDEL--RKVAEEIAKETKVKVIPLYVNVGDFNSTKEFYNKGISELGVDYVDILVNNAGINRDALFVKMTYEQWDEVIKVDLYSMFNMTKQVVDMVKRNYGRIINISSLSWL-GNIGQANYSAAKAGVIGFTKTLAREL</sequence>
+                               <name>Q972M3</name>
+                       </alignmentSequence>
+                       <alignmentSequence start="1" end="167" refid="a1127235554298">
+                               <sequence>KVIVITGASSGIGEQVAMQVAEQGATPVLMARTEEKL--KALADKIKETYNTPCYYYVLDVSEETEVQSVFSKVLQEVGR--IDILVNNAGFGIFKTFEDASMDEVKDMFQVNVFGLVACTKAVLPYMVKRNGHIINIASLAGKIATPKSSAYAATKHAVLGFTNSLRMEL</sequence>
+                               <name>Q81M93</name>
+                       </alignmentSequence>
+                       <alignmentSequence start="1" end="167" refid="a1127235554299">
+                               <sequence>KIALVTGAMGGLGTAICQALAKDGCIVAANCLPNFEPAAAWLGQQEALG--FKFYVAEGDVSDFESCKAMVAKIEADLGP--VDILVNNAGITRDKFFAKMDKAQWDAVIATNLSSLFNVTQQVSPKMERGWGRIINISSVNGVKGQAGQTNYSAAKAGVIGFTKALAAEL</sequence>
+                               <name>NODG_AZOBR</name>
+                       </alignmentSequence>
+                       <alignmentSequence start="1" end="166" refid="a1127235554300">
+                               <sequence>QTAVVTGGGKGIGRAICLALAREGADIVIAARTEKDI--RETARMVEKEG-RKALPVSTDIRVEEDVENMISEAVDAFGR--IDILVNNAGVAYRKYMVETSTEEYDNIMDTNLKGMFFCTKYALPYLLKREGRIINISSGAGKHGIPKLSIYSASKFAVIGFTESIAYEI</sequence>
+                               <name>Q8PS57</name>
+                       </alignmentSequence>
+                       <alignmentSequence start="1" end="167" refid="a1127235554301">
+                               <sequence>KTAIVTGAARGIGKAIALKFAAEGANIAFTDLVIDENAEKTRVELEAMG--VKAKGYASNAANFEDTAKVVEEIHKDFGR--IDILVNNAGITRDGLMMRMSEQQWDMVINVNLKSAFNFIHACTPMMRQKAGSIINMASVVGVHGNAGQANYAASKAGMIALAKSIAQEL</sequence>
+                               <name>Q8A195</name>
+                       </alignmentSequence>
+                       <alignmentSequence start="1" end="164" refid="a1127235554302">
+                               <sequence>KVVVVTGAGSGIGEATAKRFAHEGASVVLVGRNQEKL--AKVAAQLKG---AEHLIRATDVADLTDVEALFKEVAERFGR--LDVLVNNAGVVKSGKVTELGVEDWKAVMSVDLDGVFYCTRTAMPALIASKGNIINVSSVSGLGGDWGMSFYNAAKGAITNFTRALALD-</sequence>
+                               <name>Q888G8</name>
+                       </alignmentSequence>
+                       <alignmentSequence start="1" end="164" refid="a1127235554303">
+                               <sequence>KVALVTGAANGIGLAIAERLYQEGATLALADWNEEQL--AIVIEQFDS---ARVYAQKVDVSDPEQVQALVRKTVERFGR--LDILVNNAGIHIPGTVLECSVQDWRRIASVNIDGVVYCAMHALPELIKTRGCMVNTASVSGLGGDWGAAFYCATKGAVVNFTRALALD-</sequence>
+                               <name>Q9KRP5</name>
+                       </alignmentSequence>
+                       <alignmentSequence start="1" end="163" refid="a1127235554304">
+                               <sequence>KIALVTGASRGIGRAIAELLVERGATVIGTATSEGGA--AAISEYLG----ENGKGLALNVTDVESIEATLKAINDEFGA--IDILVNNAGITRDNLLMRMKDDEWNDIINTNLTPIYRMSKAVLRMMKKRAGRIINVGSVVGTMGNAGQTNYAAAKAGVIGFTKSMAREV</sequence>
+                               <name>Q87N22</name>
+                       </alignmentSequence>
+                       <Provenance>
+                               <entry>
+                                       <User>jim</User>
+                                       <Action>edited</Action>
+                                       <Date>2005-12-21</Date>
+                               </entry>
+                       </Provenance>
+               </Alignment>
+       </SequenceSet>
+</VAMSAS>