Difference between revisions of "Archaeal BJ1 Virus Hit from Spacer 2 in Crispr One: Blast Alignments to Other Halophiles"
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Blastn Alignment: Query= viral (Accession Number: AM419438.1) and Subject=species of choice | Blastn Alignment: Query= viral (Accession Number: AM419438.1) and Subject=species of choice | ||
| − | '''Halorhabdus utahensis | + | |
| + | OUR SPECIES: Accession Number: NC_013202 | ||
| + | |||
| + | Below are the hits which insert with spacers in our species genome: | ||
| + | |||
| + | Only see one hit with the virus in one of the spacers in our species. . . aka this virus to our knowledge only inserts into one spacer. . . Note that it only inserts in the spacer region and not the DR region and that the spacer it inserts in corresponds with the blasted spacer that gave this virus as a hit | ||
| + | |||
| + | [[Image:ourspeciesOne.jpg]] | ||
| + | |||
| + | |||
| + | ---- | ||
| + | CONCLUSION: THESE ''VIRAL INSERTIONS ARE NOT INTO SPACERS IN THIS SPECIES'': aligned spacer number with the significant hits below | ||
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| + | |||
| + | '''Halorhabdus utahensis''': Accession number determined from NCBI: NC_013158.1 | ||
Lots of hits, the ones shown below have e-values less than 0.005, the next e-value not included is 0.018 | Lots of hits, the ones shown below have e-values less than 0.005, the next e-value not included is 0.018 | ||
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| − | + | [[Haloarcula vallismortis Blast Results]] | |
| + | didnt accept anything above 0.009 | ||
| − | + | blast recall number: G5P5M4WY111 | |
| − | + | ---- | |
| − | |||
| − | |||
| − | |||
| − | |||
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| + | [[Haloarcula sinaiiensis: Blast Results]] | ||
| − | + | CONCLUSION: found viral insertions of this virus in some of the spacers | |
| + | didnt accept anything above 0.009 | ||
| − | + | blast recall number: G5RXZPH1113 | |
Latest revision as of 05:23, 18 November 2009
What does this virus primarily attack? (Blasted the virus against nr/nt database)
Infects other halophiles, other bacteria and even other viruses
Blastn Alignment: Query= viral (Accession Number: AM419438.1) and Subject=species of choice
OUR SPECIES: Accession Number: NC_013202
Below are the hits which insert with spacers in our species genome:
Only see one hit with the virus in one of the spacers in our species. . . aka this virus to our knowledge only inserts into one spacer. . . Note that it only inserts in the spacer region and not the DR region and that the spacer it inserts in corresponds with the blasted spacer that gave this virus as a hit
CONCLUSION: THESE VIRAL INSERTIONS ARE NOT INTO SPACERS IN THIS SPECIES: aligned spacer number with the significant hits below
Halorhabdus utahensis: Accession number determined from NCBI: NC_013158.1
Lots of hits, the ones shown below have e-values less than 0.005, the next e-value not included is 0.018
Check to see if any of these hits occur in the spacers of this species by using crispr finder and the nucleotide base numbers
Halobacterium salinarium R1: Accession number determined from NCBI: NC_010364
Lots of hits, the ones shown have e-values less than 0.003, next e-value hit not shown is 0.011
Check to see if any of these hits occur in the spacers of this species by using crispr finder and the nucleotide base numbers
Haloarcula vallismortis Blast Results
didnt accept anything above 0.009
blast recall number: G5P5M4WY111
Haloarcula sinaiiensis: Blast Results
CONCLUSION: found viral insertions of this virus in some of the spacers
didnt accept anything above 0.009
blast recall number: G5RXZPH1113
