Array 1 296391-297079 		**** Predicted by CRISPRDetect 2.4 *** 
>NZ_JAIQYI010000005.1 Listeria monocytogenes strain UTK_C1-0004-E1 NODE_5_length_307470_cov_77.116177, whole genome shotgun sequence		Array_Orientation: Forward

  Position	Repeat	   %id	Spacer	Repeat_Sequence              	Spacer_Sequence                          	Insertion/Deletion
==========	======	======	======	=============================	=========================================	==================
    296391	    29	  96.6	    37	................T............	TCTGTCACTGCTATATGCAGCAGAGAAATCAACGTCT    	
    296457	    29	  96.6	    37	................T............	ATCATCGCTCCAAGATGTAGCATAGTCTTCGCTATCA    	
    296523	    29	 100.0	    36	.............................	TTGTTCCCACAAAACGAAGGTAATATGGAAAGCGTC     	
    296588	    29	 100.0	    41	.............................	ATTCATTTCTATATATTTTTTGGACTATAGTTTTAGTTTTA	
    296658	    29	 100.0	    37	.............................	CATTTCAATAGCTTCCTTTGATGTAACATTAAGCTCA    	
    296724	    29	 100.0	    36	.............................	TTATCCATGCCATCGTAGCCCCAAGCATTACTTCCA     	
    296789	    29	  96.6	    37	.......................A.....	AGCGGTGTAGACAAAATAACTACAATTAAATTTTCCG    	
    296855	    29	 100.0	    35	.............................	TAAACAAGTGCTTCTGGCAATACCAACGTTCCATC      	
    296919	    29	  96.6	    37	A............................	TTGGTTCCTTTGGAAAAAAACAATAGCGTGTAGTATT    	
    296985	    29	  75.9	    36	......T.C.A.C...CA...T.......	GCAGAAACAGCAAAATAACCAAAAGTAATGACTTTC     	G [297008]
    297051	    29	  79.3	     0	......A..T....AGA......A.....	|                                        	
==========	======	======	======	=============================	=========================================	==================
        11	    29	  94.7	    37	GTTTTAGTTACTTATTGTGAAATGTAAAT	                                         	       

# Left flank :   GCGTCCGTGCCACTACTTCAGCTGATATTTTACTTGAAAAAGGTGCCGTAGAAGTTATCGCTTGCGCAACCCACTCCGTCATGGCCGGAAACGCAACCGAACGCTTACAAAACTCCAATATCAAAGAAGTCATCACATCCGACTCCATCGATCTTCCAGAAGACAAGCAATTCGACAAACTAACAACCATCTCCATCGGACGAATCTTAGGCCGCGCAATCGAAGGCGTACAAGAAAACCGCTCGTTGCATCCGTTGTTTTAAAGAATAAGCAGAAAACAGTAACTTAGTAGAGTTGCTGTTTTTTTGTTATCTGTCGACCTCGAGTAGCGTGAAAAATACCGGGGATCGACAGAAAGTTGTAAGTGGTTGGGGTGGAAGAAGTTTGGCGGTATTTGCTTGGGGAAATCTTCCGGATAAGAGGAGATTTTAGATGTTTTTTGGTAGGTCGACAGAAATAGCTCTTTGAGGTAAGATGGGAGTAAGAAGAAAAGTTAGTGG
# Right flank :  TGAAAACCTGTTATACATATGATTATCTATTTCCGTTATAATTATTCCTTGCAAATAAATTCCAAAAAACAAACCCCTCATTAATTGGGTTTGTTTTTTTGTGAATAATTATAGTCAAACGAGCAATCTGTTAACAATTTAGCAATAAACGCAATAAAAAGCCGTTTTTTCACTATGGATTGTACTATAAAACATAATCTACCTATGCTAAAATTTAAGGGAAGGTAAGCTGAATAATACATATAAGGAGGACTCTACTATTGAAAAAGATTCTAGTGCCCATATTATTGTTAGCAACAATCTTAGCAAGCTGTTCCTCGCCGAATGAAAAAATAACCAAAGACACTAAAATATCCAAGACTATTACAATAAGAGCAGATTACAAAGTTCCAAAAGATATTAAAGAACTTGAGGATGATAGTGCTAATATTGTTAAAGTGAAATTTCTTCAAAATAAAACGATAGGCAAGGATGGTAGTACTATCAGCGAGATAGAAATT

# Questionable array : NO	 Score: 5.79
# 	Score Detail : 1:0, 2:3, 3:0, 4:0.74, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.79,
# 	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:         F [matched GTTTTAGTTACTTATTGTGAAATGTAAAT with 100% identity] Score: 4.5/4.5
# 	Secondary Structural analysis prediction:  F [-1.20,0.00] Score: 0.37/0.37
# 	Array degeneracy analysis prediction:      F [0-16] Score: 0.41/0.41
# 	AT richness analysis in flanks prediction: R [58.3-76.7]%AT Score: 0.27/0.27
# 	Longer leader analysis prediction:         NA 
# 	----------------------------------------------------------------------------
# 	Final direction:         F [5.28,0.27   Confidence: HIGH] 

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