Array 1 213-1 		**** Predicted by CRISPRDetect 2.4 *** 
>NZ_LHER01000063.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N43824 N43824_contig_63, whole genome shotgun sequence		Array_Orientation: Reverse

  Position	Repeat	   %id	Spacer	Repeat_Sequence              	Spacer_Sequence                 	Insertion/Deletion
==========	======	======	======	=============================	================================	==================
       212	    29	 100.0	    32	.............................	CGGAGGATGGAATATTTCCGAGGCTGGCGATT	
       151	    29	  96.6	    32	.............T...............	ATGCCGGAACGCTGATGGCGTTTGACATGAGC	
        90	    29	 100.0	    32	.............................	AAAAAACAGAAGAACGGCAAGCGGCACCTCAA	
        29	    29	 100.0	     0	.............................	|                               	
==========	======	======	======	=============================	================================	==================
         4	    29	  99.2	    32	GTGTTCCCCGCGCCAGCGGGGATAAACCG	                                	       

# Left flank :   CC
# Right flank :  G

# Questionable array : NO	 Score: 5.82
# 	Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 :     GTGTTCCCCGCGCCAGCGGGGATAAACCG
# 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:     R [4,5] Score: 0.37/0.37
# 	Reference repeat match prediction:         R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5
# 	Secondary Structural analysis prediction:  R [-12.00,-13.50] Score: 0.37/0.37
# 	Array degeneracy analysis prediction:      F [0-1] Score: 0.41/0.41
# 	AT richness analysis in flanks prediction: NA [0.0-1.7]%AT Score: 0/0.27
# 	Longer leader analysis prediction:         NA 
# 	----------------------------------------------------------------------------
# 	Final direction:         R [0.41,5.24   Confidence: HIGH] 

# Array family : I-E [Matched known repeat from this family],   
//


Array 1 52-505 		**** Predicted by CRISPRDetect 2.4 *** 
>NZ_LHER01000074.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N43824 N43824_contig_76, whole genome shotgun sequence		Array_Orientation: Forward

  Position	Repeat	   %id	Spacer	Repeat_Sequence              	Spacer_Sequence                 	Insertion/Deletion
==========	======	======	======	=============================	================================	==================
        52	    29	  96.6	    32	.........................G...	CGTCACTTTCTGACATTTTATTCAGTTCGTTA	
       113	    29	  96.6	    32	..........T..................	TCATTTCTGGACGGGGCTGTGTGACGAATACG	
       174	    29	 100.0	    32	.............................	TGTCCAATTAACCCAAACTTTGCGCGCTTAAT	
       235	    29	  93.1	    32	A............T...............	GGATATGTGAAGTTCAGGTAGCCCATTACGCA	
       296	    29	 100.0	    32	.............................	TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA	
       357	    29	 100.0	    32	.............................	CAGGTTATGCGCAAAAATTAATTCATATTATA	
       418	    29	  96.6	    32	.................A...........	GACGAGTTCTGGAAATGGTTAGCTGATAAAGA	
       479	    27	  93.1	     0	...........................--	|                               	
==========	======	======	======	=============================	================================	==================
         8	    29	  97.0	    32	GTGTTCCCCGCGCCAGCGGGGATAAACCG	                                	       

# Left flank :   GCCAGCGGGGATAAACCGGTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGCG
# Right flank :  |

# Questionable array : NO	 Score: 5.80
# 	Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.69,
# 	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 :     GTGTTCCCCGCGCCAGCGGGGATAAACCG
# 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:     F [5,4] Score: 0.37/0.37
# 	Reference repeat match prediction:         F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5
# 	Secondary Structural analysis prediction:  F [-13.50,-12.00] Score: 0.37/0.37
# 	Array degeneracy analysis prediction:      NA [2-2] Score: 0/0.41
# 	AT richness analysis in flanks prediction: F [40.0-0.0]%AT Score: 0.27/0.27
# 	Longer leader analysis prediction:         NA 
# 	----------------------------------------------------------------------------
# 	Final direction:         F [5.51,0   Confidence: HIGH] 

# Array family : I-E [Matched known repeat from this family],   
//