Array 1 169388-168973 		**** Predicted by CRISPRDetect 2.4 *** 
>NZ_CGUS01000004.1 Salmonella enterica subsp. enterica serovar Typhi strain 2011-008969, whole genome shotgun sequence		Array_Orientation: Reverse

  Position	Repeat	   %id	Spacer	Repeat_Sequence              	Spacer_Sequence                 	Insertion/Deletion
==========	======	======	======	=============================	================================	==================
    169387	    29	  89.7	    14	CC.C.........................	CCAGCGGGGATAAA                  	Deletion [169345]
    169368	    29	  89.7	    32	CC.A.........................	ATCCCCGCGGAGGTTGCGCAACCGGTGTTTTA	
    169307	    29	  96.6	    32	...........A.................	TAAAACTATAACCAACATTAATCTTTTTTAAT	
    169246	    29	 100.0	    32	.............................	CGCGCCAAAGAGGGCGACGTAAAGGCGTATCT	
    169185	    29	 100.0	    32	.............................	GCGGTAAAAATCACGGTCGGCATACATCGTGG	
    169124	    29	 100.0	    32	.............................	CAATTCACGCGGCGGCGATTGGCGATTCGCGT	
    169063	    29	 100.0	    32	.............................	ATCTGTCTGATATCCGACACGGGTTGCTGTCC	
    169002	    29	 100.0	     0	.............................	|                               	A [168975]
==========	======	======	======	=============================	================================	==================
         8	    29	  97.0	    30	GTGTTCCCCGCGCCAGCGGGGATAAACCG	                                	       

# Left flank :   AAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACACCCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGAGTGTTCC
# Right flank :  TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCTATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACACGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCCCCAACAATCAGGTTATTGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT

# Questionable array : NO	 Score: 5.88
# 	Score Detail : 1:0, 2:3, 3:0, 4:0.85, 5:0, 6:0.25, 7:-0.22, 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 :     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 [1-7] Score: 0.41/0.41
# 	AT richness analysis in flanks prediction: R [50.0-66.7]%AT Score: 0.27/0.27
# 	Longer leader analysis prediction:         NA 
# 	----------------------------------------------------------------------------
# 	Final direction:         R [0.41,5.51   Confidence: HIGH] 

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