Hi,
We need to be able to (easily) see the input you're getting and the output you want. The input you're getting is not readily apparent from what you've posted. Is it:

271479 | Papaya leaf curl Guandong virus | Geminiviridae |
V1.3_105649:75.8 12202 | Lettuce mosaic virus | Potyviridae |
V1.3_118815:65.4 116056 | Pelargonium zonate spot virus | Bromoviridae
+ |
V1_111931:65.5 45709 | Sabia virus | Arenaviridae | 
V1_112261:16.8 FORMAT that I need <filed1> | <field2> 271479 | Papaya 
+leaf curl Guandong virus 12202 | Lettuce mosaic virus
116056 | Pelargonium zonate spot virus
45709 | Sabia virus 130556 | Culex nigripalpus
[download]

Does that represent the input ? (If not, please amend.) And please indicate the output you wish to produce.

Cheers,
Rob
Update: What can I say ? ... the original (updated-from-when-I-first-replied-to-it) post merely reveals what we all knew all along ... that I'm just a braindead moron dickhead .... thanks manu7495 .... /me will go away now ... never to be seen again ... for at least 3 minutes :-)