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1 <tool id="ALaGiFer_1" name="RemoteBlast" version="1.0.0">
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2 <description>Blast against UniProt/SwissProt database</description>
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3 <command interpreter="perl">
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4 paso1.pl $infile $outfile
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5 </command>
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6
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7 <inputs>
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8 <param name="infile" type="data" format="fasta" label="Sequence in Fasta File"/>
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9
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10
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11 </inputs>
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12 <outputs>
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13 <data format="txt" name="outfile"/>
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14 </outputs>
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15
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16 <stdio><exit_code range="1:" level="fatal" description="Error" /></stdio>
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17 <help>
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18
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19 **What it does**
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20
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21 This tool runs a remote blast against Uniprot/Swissprot database.
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22
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23
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24 **Dependencies**
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25
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26 Bioperl is necessary for running this tool.
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27
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28 #####
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29 Input
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30 #####
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31
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32 Required is a FASTA file containing protein sequences.
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33
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34
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35 ######
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36 Output
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37 ######
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38
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39 Generates an output text file.
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40
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41
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42 Example Output
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43 --------------
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44 BLASTP 2.2.29+
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45 Reference: Stephen F. Altschul, Thomas L. Madden, Alejandro
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46 A. Schaffer, Jinghui Zhang, Zheng Zhang, Webb Miller, and
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47 David J. Lipman (1997), "Gapped BLAST and PSI-BLAST: a new
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48 generation of protein database search programs", Nucleic
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49 Acids Res. 25:3389-3402.
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50
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51
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52 RID: M2E3HVH4014
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53
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54
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55 Database: Non-redundant UniProtKB/SwissProt sequences
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56 457,803 sequences; 170,956,615 total letters
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57 Query= C08B11.6 CE30856 WBGene00007434 actin status:Confirmed
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58 UniProt:Q09443 protein_id:CAA86667.3
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59
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60 Length=418
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61
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62
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63 Score E
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64 Sequences producing significant alignments: (Bits) Value
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65
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66 sp|Q09443.3|ARP6_CAEEL RecName: Full=Actin-like protein C08B11.6 853 0.0
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67 sp|Q9D864.2|ARP6_MOUSE RecName: Full=Actin-related protein 6;... 280 2e-88
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68 sp|Q9GZN1.1|ARP6_HUMAN RecName: Full=Actin-related protein 6;... 279 5e-88
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69 sp|Q9DEE9.1|ARP6_CHICK RecName: Full=Actin-related protein 6;... 274 5e-86
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70 sp|P45890.1|ARP6_DROME RecName: Full=Actin-related protein 6;... 265 1e-82
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71 sp|Q6C982.1|ARP6_YARLI RecName: Full=Actin-like protein ARP6 232 4e-70
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72 sp|O94241.1|ARP6_SCHPO RecName: Full=Actin-like protein arp6 228 2e-68
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73 sp|Q7S6X6.1|ARP6_NEUCR RecName: Full=Actin-related protein 6 212 6e-62
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74 sp|Q5NBI2.1|ARP6_ORYSJ RecName: Full=Actin-related protein 6 ... 210 3e-61
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75
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76 ALIGNMENTS
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77 >sp|Q09443.3|ARP6_CAEEL RecName: Full=Actin-like protein C08B11.6
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78 Length=418
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79
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80 Score = 853 bits (2204), Expect = 0.0
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81 Identities = 418/418 (100%), Positives = 418/418 (100%), Gaps = 0/418 (0%)
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82
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83 Query 1 MSLTTIIFDNGGHNMKIGTIDSESPRLVPNSIVKAKHEKKRVFVAHEQEECSDKFSLFYV 60
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84 MSLTTIIFDNGGHNMKIGTIDSESPRLVPNSIVKAKHEKKRVFVAHEQEECSDKFSLFYV
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85 Sbjct 1 MSLTTIIFDNGGHNMKIGTIDSESPRLVPNSIVKAKHEKKRVFVAHEQEECSDKFSLFYV 60
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86
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87 Query 61 RPIERGYVVNWDTQQQIWEKTFGSMDVEASTSRIALTDNNYLIPALPDVSSEILFDYFGF 120
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88 RPIERGYVVNWDTQQQIWEKTFGSMDVEASTSRIALTDNNYLIPALPDVSSEILFDYFGF
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89 Sbjct 61 RPIERGYVVNWDTQQQIWEKTFGSMDVEASTSRIALTDNNYLIPALPDVSSEILFDYFGF 120
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90
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91 Query 121 TEVHKTSASTLVAKHSNKINNEKCAVVVDSGFSWTTVASFVNGMLIQDSVIRIDVGGKAL 180
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92 TEVHKTSASTLVAKHSNKINNEKCAVVVDSGFSWTTVASFVNGMLIQDSVIRIDVGGKAL
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93 Sbjct 121 TEVHKTSASTLVAKHSNKINNEKCAVVVDSGFSWTTVASFVNGMLIQDSVIRIDVGGKAL 180
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94
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95 Query 181 TNKLKDWVSYRQLNVSEETYVINECKEDLCFVSQNFDESMKEARNRFQENTTMKRYIMPD 240
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96 TNKLKDWVSYRQLNVSEETYVINECKEDLCFVSQNFDESMKEARNRFQENTTMKRYIMPD
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97 Sbjct 181 TNKLKDWVSYRQLNVSEETYVINECKEDLCFVSQNFDESMKEARNRFQENTTMKRYIMPD 240
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98
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99
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100 **Galaxy Wrapper Authors**::
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101
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102 * Laura Entrambasaguas
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103 * Ginés Almagro
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104 * Fernando Pérez
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105
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106 </help>
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107 </tool>
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