Purpose: The purpose of this lab is to become familiar with PhageNotes and continue to learn how to annotate genes.

Tools/Procedures:

Tools:

• PhageNotes
• DNA Master
• NCBI
• PhagesDB
• HHpred

Procedures:

1. Annotations for Elesar genes 52 and 53 were entered into PhageNotes.
2. The annotations for Elesar Genes 44 and 45 were checked, using DNA Master, NCBI, PhagesDB, and HHpred. Corrections were made to correct the annotations.
3. The following annotation was recorded for gene 44. SSC:32186 – 32380, CP:Yes, SCS:Both, ST:, BLAST-Start:Aligns with Nandita gp47 NCBI BLAST q1:s1 0.98 4E-23, Aligns with Elesar gp41 PhagesDB BLAST q1:s1 1 3E-30, Gap:4bp overlap, LO:NA, RBS:Kibbler7 and Karlin Medium 2.942 -2.636 No, F:NKF, SIF-BLAST:NKF, SIF-HHPred:NKF, SIF-Syn:NKF
4. The following annotation was recorded for gene 45. SSC:32373 – 32909, CP:No Longest ORF, SCS:Both, ST:, BLAST-Start:Aligns with Ryan gp48 NCBI BLAST q1:s1 0.99 1E-115, Aligns with Elesar gp42 PhagesDB BLAST q1:s1 1 2E-99, Gap:8bp overlap, LO:NA, RBS:Kibbler7 and Karlin Medium 3.06 -2.325 No, F:NKF, SIF-BLAST:NKF, SIF-HHPred:NKF, SIF-Syn:NKF
5. The annotations were saved.

Results:
The annotations for Elesar genes 52 and 53 were entered into PhageNotes, and genes 44 and 45 were checked for accuracy. Starterator was not done for any of the genes at this point.

Conclusions:
Continuing to practice annotating genes and checking other genes is helpful to learn how to correctly annotate and become proficient at it. This will help in annotating NapoleonB. Learning how to use PhageNotes will be helpful for the future, as it is an easier more organized way of recording the annotations.

Future Work:
Future work will include continuing to learn more about annotations, especially gaining further understanding of starterator. It will also include annotations of NapoleonB.