Array 1 198369-199332 		**** Predicted by CRISPRDetect 2.4 *** 
>NZ_NXTI01000004.1 Listeria monocytogenes strain CFSAN046013 CFSAN046013_contig_0000004, whole genome shotgun sequence		Array_Orientation: Forward

  Position	Repeat	   %id	Spacer	Repeat_Sequence                     	Spacer_Sequence                	Insertion/Deletion
==========	======	======	======	====================================	===============================	==================
    198369	    36	 100.0	    30	....................................	TACCCTTCCTTGACGTATGATAATATAGAT 	
    198435	    36	 100.0	    30	....................................	CTTAATAGCGGATTGATTGGTAGCGATGTA 	
    198501	    36	 100.0	    30	....................................	TGACCTTTTGTTTTCATTTCCGAGTCAATA 	
    198567	    36	 100.0	    30	....................................	ATAATGTCGACACGTCCGATAGATCGAATA 	
    198633	    36	 100.0	    30	....................................	CAATATTGGTAATAACTATGGCATTCCCAT 	
    198699	    36	 100.0	    30	....................................	AAAAGTACTAAAGTCACCAAAATAGAAAAC 	
    198765	    36	 100.0	    30	....................................	GAACACTATCTCGATATTCATAATATATGA 	
    198831	    36	 100.0	    30	....................................	TAATTATTGATGAATTCCCGGTCAATTGTT 	
    198897	    36	 100.0	    30	....................................	TCCGCACCTTCAATTTAATTTTAAAGGTTA 	
    198963	    36	 100.0	    31	....................................	TGCTAGGTTACTCAGAAGCTTACACATTCGA	
    199030	    36	 100.0	    30	....................................	ATTTCTGCTTGGATTGATTGCGGATTTTCT 	
    199096	    36	 100.0	    30	....................................	GTAAGTAAAACCGGACGACTCGATGTGTCG 	
    199162	    36	 100.0	    30	....................................	AAAATCGGCGATACCCTAACCTACTTCGGT 	
    199228	    36	 100.0	    30	....................................	AGACAAAAAAGGCGAGGTACATTGGACGAA 	
    199294	    36	  86.1	     0	.............A.....C.....T.A.......G	|                              	A,A,C [199319,199325,199328]
==========	======	======	======	====================================	===============================	==================
        15	    36	  99.1	    30	GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC	                               	       

# Left flank :   GACAAATTAACCGCGACGATTAGCGAGTTGATAGGTTACGAATTATTGGAGCATGAACTGGATTTAGAAGAAGATGAAATAACGGTTATTGAATTATTCAAAGCTTTAGGAATAAAAATAGAAACAAAAAGCGATACCGTATTTGAGAAGTTAATTGAAATAGTACAAGTCTATAAATATCTATCTAAAAAGAAATTGTTAGTACTTATTAACGTGTGTTCCTATCTTACAGAGGAAGAACTGCTAGAGTTGAGACGGTATATCTCTTTATATCAAGTCAAAGTACTATTTATTGAACCTAGAAAAATAAAAGGATCTCCGCAAGTTACTTTAGATCCTGATTATTTTTTACATGTGGAAAATAGTGTATAAGGTAACCGCTGTTCTTTGAAAACAAAATAAATTTTATGTAAACCATAAAATAGCATTCAAAATTGAAATCTTGCTATGGATGAATGGCGCGATTACGGAATCTTGGAGGAAAGAAAAAATTCTGCGAG
# Right flank :  GATAAAATGCATCGCAATTACCAAACCATGGTTAAATTTAAAAAGGAGTTAGGCTATCTATATGACACAGTATCACTATCTTGCTTCGAAGTCGCTCTTAGAAAATGATGGGGAAAAGTTCCCTCGTCTTTATATTAGACTTCTTAAATTTGAATTTTGATATGAATGTTGACCAAGACACTAATGAATTGTTTTTCTATTCAATTGATTTGAACTCAGCTTGTAAATGTAAGTAAAGAGAACCTGCCGCTGAAAGGTAATGGGCAAAAAAATTGTTACGAGACTAAAAATTTAAAAATCTTGTATGATTATATTCTAAATACAAGTAAAGATAATGAAACGATTGAACTATATACTGCTTGAAACAGCGAGGAAGATTTCCTGTTTTTGAATAAAACAGAACTGCTGATCTAGAATTTAACTATCGAAAATCTAATTTTAAATGACAGAGAACTATTAATAATTAGAAATGAAAACCGATATAACTTTTAGCACCATTC

# Questionable array : NO	 Score: 6.26
# 	Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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 :     GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC
# Alternate repeat :   NA

# 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:69.44%AT]
# 	Reference repeat match prediction:         F [matched GTTTTAGAGCTATGTTATTTTGAATGCTACCAAAAC with 100% identity] Score: 4.5/4.5
# 	Secondary Structural analysis prediction:  F [-1.30,-0.80] Score: 0.37/0.37
# 	Array degeneracy analysis prediction:      NA [0-0] Score: 0/0.41
# 	AT richness analysis in flanks prediction: R [56.7-66.7]%AT Score: 0.27/0.27
# 	Longer leader analysis prediction:         NA 
# 	----------------------------------------------------------------------------
# 	Final direction:         F [4.87,0.27   Confidence: HIGH] 

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