Difference between revisions of "Blasting Spacers for Our Genome"
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Spacer One: TGCGTCGTCCGGTGGCCGTCAATAAATGTCGCAAGGG | Spacer One: TGCGTCGTCCGGTGGCCGTCAATAAATGTCGCAAGGG | ||
| − | + | No significant hits . . . lowest E-value is 5.9 | |
Spacer Two: TCCTACGACCTCGTCGGCGTCAACGGCTGGCCCGA | Spacer Two: TCCTACGACCTCGTCGGCGTCAACGGCTGGCCCGA | ||
| + | [[Image:spacer2.jpg]] | ||
Spacer Three: CACCCTACAACAGGTGAAATCTACCAGACAAAAGA | Spacer Three: CACCCTACAACAGGTGAAATCTACCAGACAAAAGA | ||
| − | + | [[Image:spacer3.jpg]] | |
Spacer Four: TCACCCAAGCGCAAGCAACAGCTGATCGAGGACCTG | Spacer Four: TCACCCAAGCGCAAGCAACAGCTGATCGAGGACCTG | ||
| − | + | [[Image:spacer4.jpg]] | |
Spacer Five: GCGACGGCGGCCAGTTCCGCGAGGGCGGGAAGGTCC | Spacer Five: GCGACGGCGGCCAGTTCCGCGAGGGCGGGAAGGTCC | ||
| + | [[Image:spacer5.jpg]] | ||
Spacer Six: TGCGAGTGTTGCGGGGAACCGACTCGGGTAGGCCAG | Spacer Six: TGCGAGTGTTGCGGGGAACCGACTCGGGTAGGCCAG | ||
| − | + | [[Image:spacer6.jpg]] | |
Spacer Seven: ACGGTTTCGCTACCACCATCGCCACCAGCAACTGCCG | Spacer Seven: ACGGTTTCGCTACCACCATCGCCACCAGCAACTGCCG | ||
| − | + | [[Image:spacer8.jpg]] | |
Spacer Eight: GACGAGTATGCCAACCGGCTCGTGAGCGGGCGC | Spacer Eight: GACGAGTATGCCAACCGGCTCGTGAGCGGGCGC | ||
| − | + | No significant hits . . . lowest E-value is 1.2 | |
| − | |||
Spacer Nine: TGGTAGGCGTCGTAGGTGTTCGTGGCGAGCGTGTC | Spacer Nine: TGGTAGGCGTCGTAGGTGTTCGTGGCGAGCGTGTC | ||
| + | [[Image:spacer9.jpg]] | ||
Spacer Ten: ACTCACTGGATTATGACCCCTACAACGAGGGCGTCA | Spacer Ten: ACTCACTGGATTATGACCCCTACAACGAGGGCGTCA | ||
| − | + | No significant hits . . . lowest E-value is 1.4 | |
Spacer Eleven: GGATCTCGATCGTTGTAGTATCCATAGCTGCTATACC | Spacer Eleven: GGATCTCGATCGTTGTAGTATCCATAGCTGCTATACC | ||
Revision as of 20:05, 11 November 2009
Blasting Spacers
CRISPR one results from CRISPR finder are shown below. I blasted all of the spacers using the nr/nt database and the results are shown below.
Spacer One: TGCGTCGTCCGGTGGCCGTCAATAAATGTCGCAAGGG
No significant hits . . . lowest E-value is 5.9
Spacer Two: TCCTACGACCTCGTCGGCGTCAACGGCTGGCCCGA
Spacer Three: CACCCTACAACAGGTGAAATCTACCAGACAAAAGA
Spacer Four: TCACCCAAGCGCAAGCAACAGCTGATCGAGGACCTG
Spacer Five: GCGACGGCGGCCAGTTCCGCGAGGGCGGGAAGGTCC
Spacer Six: TGCGAGTGTTGCGGGGAACCGACTCGGGTAGGCCAG
Spacer Seven: ACGGTTTCGCTACCACCATCGCCACCAGCAACTGCCG
Spacer Eight: GACGAGTATGCCAACCGGCTCGTGAGCGGGCGC
No significant hits . . . lowest E-value is 1.2
Spacer Nine: TGGTAGGCGTCGTAGGTGTTCGTGGCGAGCGTGTC
Spacer Ten: ACTCACTGGATTATGACCCCTACAACGAGGGCGTCA
No significant hits . . . lowest E-value is 1.4
Spacer Eleven: GGATCTCGATCGTTGTAGTATCCATAGCTGCTATACC
Spacer Twelve: GAAGTAACGCAACTCCAGTGAGCGCTACTGAGAGCCC
Spacer Thirteen:CCGATCACGCCCTGCCGATACTGGTAGTTCGCGATA
Spacer Fourteen: TCGTCGGCCGGCTCGTCGGCCGACGTGGACTTGC
Spacer Fifteen: AGTAGGTCTAATGTCTCTCTGTCGTCTATCAGCCCCG
Spacer Sixteen: GCTCTCCGGTGTCACAGGTCAGGTCACGGTCTCCGC
Spacer Seventeen: ACGGACAAGTCATCCACCCGCCAGTATCTCCCGGT
Spacer Eighteen: AAATACGATCCTGCGGTGACGCTACGTCCGGGGCAGC
Spacer Nineteen: CAGATGTGGGGTCTGTGGCCACAGTCTAACATCTCT
Spacer Twenty: CCTGATAACGGACTCTTGTAGGTCCGTTAGGTCGT
Spacer Twenty-One: AAAAATGAGTGACGTAGACATTCGGCAAAATGCCGG
Spacer Twenty-Two: CAGCAGCGAAACGAGCCGTCCGTCCTTTTGAGACA
Spacer Twenty-Three: GTCTAGCCCAGTCTGGTCGGGGTGGTCGGCAGGATCGG
Spacer Twenty-Four: CACTCCTCATATGTCTGTTCGAGCAGCGGGACGTG
Spacer Twenty-Five: ACCGTTGCCGCCGATCGGCAGCGAGCCGGTGATGTGT
Spacer Twenty-Six: TCAAAGCGAGCCTCGAACGCGACGACGAAGATATG
Spacer Twenty 27: TCCTCCTTGTACCCACGGTCTTGCCGATCCATCCCG
Spacer Twenty-Eight: GACTGGCGTGTTGCCGTTCAGGCCGGCGTTGATCCCG
Spacer Twenty-Nine: CTCAGCAGCAGTCAACGGCATTTTATACACCTTGT
Spacer Thirty: CACCCCTTCCGGGGAGACGAGGAAACCCCGGACGA
Spacer Thirty-One: GTCACGCTGTCTGACGATATGGCTGACCAGGTGC
Spacer Thirty-Two: CACTCCTGGGCGGCCTCATCGGCGGCCATCGTC
Spacer Thirty-Three:GTTGTGTGAGGTATGCGATGGACACCACCGATCACG
CRISPR Two Spacers: CHANGED parameters to be 1.-1 match/mistatch to make it less intense. . . also excluded eukaryotes NOW
Spacer One: TCCGAGACGTGTTCCCTCTCTAGCTGTGCATCTTCC
LOTS of Hits!!!!
Spacer Two: CAGATCTAAAACAATGTCATACGGAAAAATCGACATC
No significant hits . . . lowest E-value is 1.5
Spacer Three: GATCCGGAATATGAAGTGACGAACGATCCGGATACGG
Spacer Four: TCGACGAGATCGGCGCGAACTCGTTCGCTGATACT
Spacer Five: TCGGGGACCGAGACGACGGGGCCGGGTGCTGTCT
Spacer Six: CCGGAGGGGCCGCTGCGTGGGTGATCTGGAGAGAAGA
Spacer Seven: GTTGCGTGAGCTAGCGAAACACCGAGTCCGTGTGAT
No significant hits . . . lowest E-value is 5.5
Spacer Eight: ACGGAAATCCAGCCGATCACCCTCCGAGAGGAGAGG
Spacer Nine: CGGACATTCAGAAGCGCCTGACTAACCGCATGGCT
No significant hits . . . lowest E-value is 5.2
Spacer Ten: CGGGAAGACCACGACCGCCCGCGCCCTCCAGTTCGA
Spacer Eleven: GGCTTCTACGTCGGCAACCGGACCGAGGACGGCGATG
Spacer Twelve: AAGTACGCCTCGATCATCAACGGCGTCCGGGCTGT
Spacer Thirteen: GATGCTGTTGAGCTCGTAGCGATCCCACTCGGCGT
No significant hits . . . lowest E-value is 1.3
Spacer Fourteen: AGCCCTTGTGCAATGATCGGGAGTGCAATCCGACC
No significant hits . . . lowest E-value is 5.2
Spacer Fifteen: TCAGGCGAGTTGTCGGACGAACAGCTTGAAGCGTGT
No significant hits . . . lowest E-value is 1.4
Spacer Sixteen: TCGTCGAGCGGCAGGCCGCCGACCGCTACGGGCTG
Spacer Seventeen: CGACACGGTCGAAGATGCTGGCAGCTCGCGAATCGC
Spacer Eighteen: GGATCTCGACGGCCGCGTGGCCGTGCATCTCGGGGTC
Spacer Nineteen: AACGCTTCAACGCGCTCTATTGACCGAGCGTATCG
No significant hits . . . lowest E-value is 1.3
Spacer Twenty: AGATCTCGCGGATAAGCTGCCCCCGCCCTCCCATGAG
No significant hits . . . lowest E-value is 5.9
Spacer Twenty-One: CACTTCGAGCGGACTTTGGGCCACCCCGGAAAGTCAG
No significant hits . . . lowest E-value is 1.5
Spacer Twenty-Two: CGATACGTCCGGGACGCCCGTGACGACCACCACTGC
Spacer Twenty-Three: GGAGGAGCGGATGGACATGAGCGACACGACGATCCG
No significant hits . . . lowest E-value is 1.4
Spacer Twenty-Four: GAGCATCTCTCCAATCAGCGGTCATCAACCGCGA
Spacer Twenty-Five: AGTATCTGTCTACGCGATACCGCACCGTCAGAGTG
No significant hits . . . lowest E-value is 1.3
Spacer Twenty-Six: TACGACCTTCCCACTGAGGGTCTTGAGCTAACGATT
No significant hits . . . lowest E-value is 5.6
Spacer Twenty-Seven: GCGACGTGCTTACCTCTGACGCCAATATTGACCTT
No significant hits . . . lowest E-value is 5.2
Spacer Twenty-Eight: TTCATCAAGAGGCACACAAGCATGGTGCGTCCAAA
No significant hits . . . lowest E-value is 5.2
Spacer Twenty-Nine: CTGGCCTACCCGAGTCGGTTCCCCGCAGCACTCGCA
Spacer Thirty: ACGATCGTCACCGACACCCTCGGGGCCGGCGGCGC
Spacer Thirty-One: GAAACGACCGAGACGCAAAGCGAGTTCACACAACTC
No significant hits . . . lowest E-value is 5.6
Spacer Thirty-Two: TTAGATGATCAGGTAGCCTGCTACCAGTGCAGCTGC
Spacer Thirty-Three: GAGACCCAGCTTTGCCTTCCAGGTGATCAGCTCGTA
Spacer Thirty-Four: TCGAAGCGCTCGGTCGCGACGGAGACCAGCGACCAGCTG
Spacer Thirty-Five: TGACGACCACACACACGAGGCCGTGCGTGTGCTTGTA
Spacer Thirty-Six: CCACGTCCCGGTGACACGCAGCTCGGTGAGATCGC
Spacer Thirty-Seven: CATGGAGTCTTCAACATTTCATGGGCTGGGCTTGGCC
No significant hits . . . lowest E-value is 5.9
Spacer Thirty-Eight: CGCAACCCGACGATCGAGGACGGGCCGTCCCTGGA
Spacer Thirty-Nine: GCGTCGGACTGCGTCGATAGTGTTCGTGCTCATGTT
No significant hits . . . lowest E-value is 1.4
Spacer Forty: CAGACTTCTACTGGAAGGCGAAAACTGAGAAGGCA
No significant hits . . . lowest E-value is 5.2
Spacer Forty-One: TACGCTCGACGACCTCCGTCGTGCGCTCCAGAAGTCA
Spacer Forty-Two: GCGCTGCGGACGTGGTGTCAGAGGGGTTACCAGTAACT
No significant hits . . . lowest E-value is 1.6
Spacer Forty-Three: ACTCCGGGTACACTGGTGGCGATGCTCTACTCGCC
No significant hits . . . lowest E-value is 1.3
Spacer Forty-Four: ACACGTTTCTTTTTTTCAGGAGCCATCACTCACTC
No significant hits . . . lowest E-value is 1.3
Other things i want to do:
compare our species spacers with themselves look to see if these blast results show hits to any other halophiles look at spacer length and number between our species and others?? any known viruses that infect halophiles??
