Blasting Spacers for Our Genome - Revision history

Karicheson: /* Blasting Spacers */

2009-11-14T01:56:25Z

‎Blasting Spacers

2009-11-14T01:55:33Z

‎Blasting Spacers

2009-11-14T01:54:59Z

‎Blasting Spacers

2009-11-14T01:52:49Z

‎Blasting Spacers

2009-11-14T01:48:56Z

‎Blasting Spacers

2009-11-14T01:45:09Z

‎Blasting Spacers

2009-11-14T01:41:25Z

‎Blasting Spacers

2009-11-14T01:36:57Z

‎Blasting Spacers

2009-11-14T01:34:27Z

‎Blasting Spacers

2009-11-14T01:32:52Z

‎Blasting Spacers

← Older revision		Revision as of 01:56, 14 November 2009
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	== Blasting Spacers ==		== Blasting Spacers ==
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		+
		+	[[EXPLORATION OF THE IMPORTANT FINDINGS]]
		+

	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.		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.
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−
−	~~[[EXPLORATION OF THE IMPORTANT RESULTS!!!!!!!]]~~

← Older revision	Revision as of 01:55, 14 November 2009
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−	+	[[EXPLORATION OF THE IMPORTANT RESULTS!!!!!!!]]

@@ Line 405: / Line 405: @@
 No significant hits . . . lowest E-value is 5.9
-'''Spacer Thirty-Eight:''' CGCAACCCGACGATCGAGGACGGGCCGTCCCTGGA
+Spacer Thirty-Eight: CGCAACCCGACGATCGAGGACGGGCCGTCCCTGGA
 [[Image:crispr2spacer38.jpg]]
+Bad e-values
 Spacer Thirty-Nine: GCGTCGGACTGCGTCGATAGTGTTCGTGCTCATGTT
@@ Line 419: / Line 419: @@
 No significant hits . . . lowest E-value is 5.2
-'''Spacer Forty-One:''' TACGCTCGACGACCTCCGTCGTGCGCTCCAGAAGTCA
+Spacer Forty-One: TACGCTCGACGACCTCCGTCGTGCGCTCCAGAAGTCA
 [[Image:crispr2spacer41.jpg]]
+hit from prokaryote in gene segment
 Spacer Forty-Two: GCGCTGCGGACGTGGTGTCAGAGGGGTTACCAGTAACT

@@ Line 382: / Line 382: @@
 '''Spacer Thirty-Four:''' TCGAAGCGCTCGGTCGCGACGGAGACCAGCGACCAGCTG
-−
-[[Image:crispr2spacer34.jpg]]
+  [[Image:crispr2spacer34.jpg]]
-−
+  weird because two hits from our species and these 2 hits are in a conserved protein sequence and not the spacer??????????
 Spacer Thirty-Five: TGACGACCACACACACGAGGCCGTGCGTGTGCTTGTA
@@ Line 406: / Line 408: @@
 [[Image:crispr2spacer38.jpg]]
 Spacer Thirty-Nine: GCGTCGGACTGCGTCGATAGTGTTCGTGCTCATGTT
@@ Line 418: / Line 422: @@
 [[Image:crispr2spacer41.jpg]]
 Spacer Forty-Two: GCGCTGCGGACGTGGTGTCAGAGGGGTTACCAGTAACT

@@ Line 356: / Line 356: @@
 '''Spacer Twenty-Nine:''' CTGGCCTACCCGAGTCGGTTCCCCGCAGCACTCGCA
-[[Image:crispr2spacer29.jpg]]
+Spacer Thirty: ACGATCGTCACCGACACCCTCGGGGCCGGCGGCGC
 [[Image:crispr2spacer30.jpg]]
+Hits from prokaryotes in gene segment
 Spacer Thirty-One: GAAACGACCGAGACGCAAAGCGAGTTCACACAACTC
@@ Line 373: / Line 369: @@
 No significant hits . . . lowest E-value is 5.6
-'''Spacer Thirty-Two:''' TTAGATGATCAGGTAGCCTGCTACCAGTGCAGCTGC
+Spacer Thirty-Two: TTAGATGATCAGGTAGCCTGCTACCAGTGCAGCTGC
 [[Image:crispr2spacer32.jpg]]
+Poor e-values
 Spacer Thirty-Three: GAGACCCAGCTTTGCCTTCCAGGTGATCAGCTCGTA

@@ Line 323: / Line 323: @@
 No significant hits . . . lowest E-value is 1.5
-'''Spacer Twenty-Two''': CGATACGTCCGGGACGCCCGTGACGACCACCACTGC
+Spacer Twenty-Two: CGATACGTCCGGGACGCCCGTGACGACCACCACTGC
 [[Image:crispr2spacer21.jpg]]
+Bad e-value
 Spacer Twenty-Three: GGAGGAGCGGATGGACATGAGCGACACGACGATCCG
@@ Line 358: / Line 358: @@
 [[Image:crispr2spacer29.jpg]]
 '''Spacer Thirty''': ACGATCGTCACCGACACCCTCGGGGCCGGCGGCGC
 [[Image:crispr2spacer30.jpg]]
 Spacer Thirty-One: GAAACGACCGAGACGCAAAGCGAGTTCACACAACTC
@@ Line 370: / Line 376: @@
 [[Image:crispr2spacer32.jpg]]
 Spacer Thirty-Three: GAGACCCAGCTTTGCCTTCCAGGTGATCAGCTCGTA
@@ Line 380: / Line 388: @@
 [[Image:crispr2spacer34.jpg]]
 Spacer Thirty-Five: TGACGACCACACACACGAGGCCGTGCGTGTGCTTGTA

@@ Line 293: / Line 293: @@
 No significant hits . . . lowest E-value is 1.4
-'''Spacer Sixteen''': TCGTCGAGCGGCAGGCCGCCGACCGCTACGGGCTG
+Spacer Sixteen: TCGTCGAGCGGCAGGCCGCCGACCGCTACGGGCTG
 [[Image:crispr2spacer16.jpg]]
 Spacer Seventeen: CGACACGGTCGAAGATGCTGGCAGCTCGCGAATCGC
 [[Image:crispr2spacer17.jpg]]
 Spacer Eighteen: GGATCTCGACGGCCGCGTGGCCGTGCATCTCGGGGTC
 [[Image:crispr2spacer18.jpg]]
+Hit from prokaryote in gene segment
 Spacer Nineteen: AACGCTTCAACGCGCTCTATTGACCGAGCGTATCG

@@ Line 269: / Line 269: @@
    [[Image:crispr2spacer10more.jpg]]
-'''Spacer Eleven''': GGCTTCTACGTCGGCAACCGGACCGAGGACGGCGATG
+Spacer Eleven: GGCTTCTACGTCGGCAACCGGACCGAGGACGGCGATG
 [[Image:crispr2spacer11.jpg]]
 Spacer Twelve: AAGTACGCCTCGATCATCAACGGCGTCCGGGCTGT
 [[Image:crispr2spacer12.jpg]]
+E-values no good and from a prokaryote in a gene
 Spacer Thirteen: GATGCTGTTGAGCTCGTAGCGATCCCACTCGGCGT

@@ Line 265: / Line 265: @@
    First hit from bacteria in gene segment. . .
-   Second hit is from another archaea in a conserved hypothetical protein. . . is this a true protein. . .??
+   Second hit is from another [http://www.ncbi.nlm.nih.gov/sites/entrez?cmd=Retrieve&db=nucleotide&dopt=GenBank&RID=FW1UZWFK01S&log%24=nuclalign&blast_rank=3&list_uids=125860746 archaea] in a conserved hypothetical protein. . . is this a true protein. . .??
    [[Image:crispr2spacer10more.jpg]]