Array 1 249-66 		**** Predicted by CRISPRDetect 2.4 *** 
>NZ_MQLP01000020.1 Mycobacterium tuberculosis strain M0003941-3 M0003941-3_contig20, whole genome shotgun sequence		Array_Orientation: Reverse

  Position	Repeat	   %id	Spacer	Repeat_Sequence                     	Spacer_Sequence                       	Insertion/Deletion
==========	======	======	======	====================================	======================================	==================
       248	    36	 100.0	    37	....................................	ACCAATGCGTCGTCATTTCCGGCTTCAATTTCAGCCT 	
       175	    36	 100.0	    38	....................................	CTGAGNNNNNNNNNTACTCGGGGCTGCCGTCTGCGCTG	
       101	    36	 100.0	     0	....................................	|                                     	
==========	======	======	======	====================================	======================================	==================
         3	    36	 100.0	    38	GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC	                                      	       

# Left flank :   AGCGGGCTTA
# Right flank :  CGCGTGAAACCGCCCCCAGCCTCGCCGGGGCCGCCTAGGTCGTCAGACCCAAAACCCCGAGAGGGG

# Questionable array : NO	 Score: 5.67
# 	Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 [0-0] Score: 0/0.41
# 	AT richness analysis in flanks prediction: F [28.3-6.7]%AT Score: 0.27/0.27
# 	Longer leader analysis prediction:         NA 
# 	----------------------------------------------------------------------------
# 	Final direction:         R [0.27,0.74   Confidence: MEDIUM] 

# Array family : NA
//


Array 1 1128544-1127698 		**** Predicted by CRISPRDetect 2.4 *** 
>NZ_MQLP01000018.1 Mycobacterium tuberculosis strain M0003941-3 M0003941-3_contig18, whole genome shotgun sequence		Array_Orientation: Reverse

  Position	Repeat	   %id	Spacer	Repeat_Sequence                     	Spacer_Sequence                         	Insertion/Deletion
==========	======	======	======	====================================	========================================	==================
   1128543	    36	 100.0	    38	....................................	ACGGAAACGCAGCACCAGCCTGACAATCTTATTCTCGC  	
   1128469	    36	 100.0	    37	....................................	ATTTTGAGCGCGAACTCGTCCACAGTCCCCCTTTCAG   	
   1128396	    36	 100.0	    35	....................................	GCCCCGTGGATGGCGGATGCGTTGTGCGCGCAAGT     	
   1128325	    36	 100.0	    40	....................................	CCGACGATGGCCAGTAAATCGGCGTGGGTAACCGATCCGG	
   1128249	    36	 100.0	    38	....................................	TAGTACGCCATCTGTGCCTCATACAGGTCCAGTGCCCT  	
   1128175	    36	 100.0	    35	....................................	CTGACGGCACGGAGCTTTCCGGCTTCTATCAGGTA     	
   1128104	    36	 100.0	    36	....................................	CCTCATGGTGGGACATGGACGAGCGCGACTATCGGG    	
   1128032	    36	  97.2	    37	......G.............................	TGGACGCAGAATCGCACCGGGTGCGGGAGGTGCAGCA   	
   1127959	    36	 100.0	    40	....................................	GCATATCGCCCGCCACACCACAGCCACGCTACTGCTCCAT	
   1127883	    36	  97.2	    40	...C................................	ACACCGCCGATGACAGCTATGTCCGAGTGACATCCTCCCA	
   1127807	    36	  97.2	    38	..................A.................	TTGAACCGCCCTTCGCGCGGTGTTTCGGCCGTGCCCGA  	
   1127733	    36	 100.0	     0	....................................	|                                       	
==========	======	======	======	====================================	========================================	==================
        12	    36	  99.3	    38	GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC	                                        	       

# Left flank :   |
# Right flank :  TACGACGACTGGGTCGCCACCGCGTCTGTTGACCGGCATTCAGGATGAGCATGATGGCGGCGTTGACGGTGAGGACGTTTGGTCATGAAATGACCCCGCCGGGAGATGTCCGGCGGGGTCGGTGGTGTTCGGGGTGTCGGTGTGGTGTTCAGTCTGCCGTGACTTCGGCGATGGCGGTGCGGGTGGTGGATTCGTCGACGATGGCCTTGTCGGCGGCGAAGGCGGCGACGAGGGCTTGCAGGGCGAGGTTGTTGACCGCGCGGGGGTAGCCCCGGCTGGTCTGGTGGATCAACCCGATGGCGTCGTCGGAGAACAGGGCATCGTCGCGTCCGGCTAGCTTGAGGTGGTGGCGTAGGTAGCTGCCGGTGTTGGTGTCGGTCATGGGCGGCATGGCATATCGGAGTCCGATGCGCTGGTCAAGCGCGGCGAGCACGCCGAGTTTCATCCGCCGCCGCAGGGTGGGTTGGCCGATGAGCAGGCAGGCGAACGGGCTTGACGAG

# Questionable array : NO	 Score: 6.22
# 	Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 :     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:      R [2-0] Score: 0.41/0.41
# 	AT richness analysis in flanks prediction: F [38.3-0.0]%AT Score: 0.27/0.27
# 	Longer leader analysis prediction:         NA 
# 	----------------------------------------------------------------------------
# 	Final direction:         R [0.27,1.15   Confidence: MEDIUM] 

# Array family : NA
//