Array 1 163857-163173 		**** Predicted by CRISPRDetect 2.4 *** 
>NZ_NYGJ01000004.1 Listeria monocytogenes strain CFSAN049279 CFSAN049279_contig_0000004, whole genome shotgun sequence		Array_Orientation: Reverse

  Position	Repeat	   %id	Spacer	Repeat_Sequence              	Spacer_Sequence                       	Insertion/Deletion
==========	======	======	======	=============================	======================================	==================
    163856	    29	 100.0	    37	.............................	AGCGTTTTTCTTTTTCGCTTCATTTGATAAATCTTCC 	
    163790	    29	 100.0	    36	.............................	AGTATTTACTTAGACAAACGCGCTCAAATTGAGCAT  	
    163725	    29	  96.6	    38	................T............	ACAGTCAGTTTGTGCTCATTCACTTGAACTGCATCTTT	
    163658	    29	  96.6	    37	................T............	AGCGCAACAGGTGCCATATACAAACTGCCTTTTTTTC 	
    163592	    29	 100.0	    37	.............................	GAACCAGTAAGCATCATATTTTTATGAATTGCTTTTA 	
    163526	    29	 100.0	    36	.............................	GAATTATTAGAAAAAATGAAGCAACAAGGTATTGAA  	
    163461	    29	 100.0	    36	.............................	TTTTACATGGGAGTCAAAAGAGCAACTTAATATACT  	
    163396	    29	 100.0	    34	.............................	ATGTCCCACTGCTCAATTTTTAACGGGACTCCAG    	
    163333	    29	  96.6	    37	................A............	TTGGTTCCTTTGGAAAACAACAATAACGTGTAGTATT 	
    163267	    29	  75.9	    36	......T.C.A.C...CA...T.......	GAAGAAACAGCAAAATAACCAAAAGTAATGACTTTC  	G [163243]
    163201	    29	  79.3	     0	......A..T....AGA......A.....	|                                     	
==========	======	======	======	=============================	======================================	==================
        11	    29	  95.0	    36	GTTTTAGTTACTTATTGTGAAATGTAAAT	                                      	       

# Left flank :   GCGTCCGTGCCACCACTTCAGCTGATATTTTACTTGAAAAAGGTGCTGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCCGGAAACGCAACCGAACGCTTACAAAACTCCAATATCAAAGAAGTCATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATCTCCATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGGCAGAAAGTTGTAAGTGGTTGGGGTGGAAGAAGTTTGGTGGTATTTGCTTGGGGAAATCTTCCGGATAAGAGGAGATTTTAAATGTTTTTTGGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG
# Right flank :  GAAAACCTGTTATACATATGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTAAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATTT

# Questionable array : NO	 Score: 6.01
# 	Score Detail : 1:0, 2:3, 3:0, 4:0.75, 5:0, 6:0.25, 7:0.01, 8:1, 9:1,
# 	Score Legend : 1: cas, 2: likely_repeat, 3: motif_match, 4: overall_repeat_identity, 5: one_repeat_cluster, 6: exp_repeat_length, 7: exp_spacer_length, 8: spacer_identity, 9: log(total repeats) - log(total mutated repeats),
# Primary repeat :     GTTTTAGTTACTTATTGTGAAATGTAAAT
# Alternate repeat :   GTTTTAGTTACTTATTTTGAAATGTAAAT

# Directional analysis summary from each method:
# 	Motif ATTGAAA(N) match prediction:         NA Score: 0/4.5
# 	A,T distribution in repeat prediction:     NA [Repeat is AT rich:79.31%AT]
# 	Reference repeat match prediction:         R [matched GTTTTAGTTACTTATTGTGAAATGTAAAT with 100% identity] Score: 4.5/4.5
# 	Secondary Structural analysis prediction:  R [0.00,-1.20] Score: 0.37/0.37
# 	Array degeneracy analysis prediction:      R [15-0] Score: 0.41/0.41
# 	AT richness analysis in flanks prediction: F [76.7-58.3]%AT Score: 0.27/0.27
# 	Longer leader analysis prediction:         NA 
# 	----------------------------------------------------------------------------
# 	Final direction:         R [0.27,5.28   Confidence: HIGH] 

# Array family : II-A [Matched known repeat from this family],   
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