Array 1 287-34 		**** Predicted by CRISPRDetect 2.4 *** 
>NZ_RJAK01000203.1 Mycobacterium tuberculosis strain 1405 contig00203, whole genome shotgun sequence		Array_Orientation: Reverse

  Position	Repeat	   %id	Spacer	Repeat_Sequence            	Spacer_Sequence                                     	Insertion/Deletion
==========	======	======	======	===========================	====================================================	==================
       286	    27	 100.0	    52	...........................	TCGAAATCCAGCACCACATCCGCAGCTGCGGCATGCTCCCGAAGTCGTCAGA	
       207	    27	 100.0	    45	...........................	GCGAGGAACCGTCCCACCTGGGCCTGCCCCCAGCGGGTCGTCAGA       	
       135	    27	 100.0	    47	...........................	TCAATAACACTTTTTTTGAGCGTGGCGCGGTTGAGAGTGTCGTCAGA     	G [120]
        60	    27	 100.0	     0	...........................	|                                                   	
==========	======	======	======	===========================	====================================================	==================
         4	    27	 100.0	    48	CCCAAAACCCCGAGAGGGGACGGAAAC	                                                    	       

# Left flank :   AGAGAGGGGACGGAAACCTGCATCCGGAAAGTCCGTACGCTCGAAACGCTTCCAACGTGTCGTCAG
# Right flank :  CACGGAAACGCAGCACCAGCCTGACAATCTTATT

# Questionable array : NO	 Score: 5.66
# 	Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:-0.19, 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 :     CCCAAAACCCCGAGAGGGGACGGAAAC
# 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 [0,10] Score: 0.37/0.37
# 	Reference repeat match prediction:         NA 
# 	Secondary Structural analysis prediction:  R [-6.40,-7.70] Score: 0.37/0.37
# 	Array degeneracy analysis prediction:      R [7-0] Score: 0.41/0.41
# 	AT richness analysis in flanks prediction: R [28.3-43.3]%AT Score: 0.27/0.27
# 	Longer leader analysis prediction:         NA 
# 	----------------------------------------------------------------------------
# 	Final direction:         R [0,1.42   Confidence: HIGH] 

# Array family : NA
//


Array 1 35621-35359 		**** Predicted by CRISPRDetect 2.4 *** 
>NZ_RJAK01000048.1 Mycobacterium tuberculosis strain 1405 contig00048, whole genome shotgun sequence		Array_Orientation: Reverse

  Position	Repeat	   %id	Spacer	Repeat_Sequence                     	Spacer_Sequence                         	Insertion/Deletion
==========	======	======	======	====================================	========================================	==================
     35620	    36	 100.0	    40	....................................	GCATATCGCCCGCCACACCACAGCCACGCTACTGCTCCAT	
     35544	    36	  97.2	    40	...C................................	ACACCGCCGATGACAGCTATGTCCGAGTGACATCCTCCCA	
     35468	    36	  97.2	    38	..................A.................	TTGAACCGCCCTTCGCGCGGTGTTTCGGCCGTGCCCGA  	
     35394	    36	 100.0	     0	....................................	|                                       	
==========	======	======	======	====================================	========================================	==================
         4	    36	  98.6	    40	GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC	                                        	       

# Left flank :   GC
# Right flank :  TACGACGACTGGGTCGCCACCGCGTCTGTTGACCGGCATTCAGGATGAGCATGATGGCGGCGTTGACGGTGAGGACGTTTGGTCATGAAATGACCCCGCCGGGAGATGTCCGGCGGGGTCGGTGGTGTTCGGGGTGTCGGTGTGGTGTTCAGTCTGCCGTGACTTCGGCGATGGCGGTGCGGGTGGTGGATTCGTCGACGATGGCCTTGTCGGCGGCGAAGGCGGCGACGAGGGCTTGCAGGGCGAGGTTGTTGACCGCGCGGGGGTAGCCCCGGCTGGTCTGGTGGATCAACCCGATGGCGTCGTCGGAGAACAGGGCATCGTCGCGTCCGGCTAGCTTGAGGTGGTGGCGTAGGTAGCTGCCGGTGTTGGTGTCGGTCATGGGCGGCATGGCATATCGGAGTCCGATGCGCTGGTCAAGCGCGGCGAGCACGCCGAGTTTCATCCGCCGCCGCAGGGTGGGTTGGCCGATGAGCAGGCAGGCGAACGGGCTTGACGAG

# Questionable array : NO	 Score: 5.79
# 	Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 :     GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC
# 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 [2,12] Score: 0.37/0.37
# 	Reference repeat match prediction:         NA 
# 	Secondary Structural analysis prediction:  R [-6.40,-7.70] Score: 0.37/0.37
# 	Array degeneracy analysis prediction:      NA [1-1] Score: 0/0.41
# 	AT richness analysis in flanks prediction: F [38.3-1.7]%AT Score: 0.27/0.27
# 	Longer leader analysis prediction:         NA 
# 	----------------------------------------------------------------------------
# 	Final direction:         R [0.27,0.74   Confidence: MEDIUM] 

# Array family : NA
//