Array 1 179-1 		**** Predicted by CRISPRDetect 2.4 *** 
>NZ_MMNH01000005.1 Mycobacterium tuberculosis strain M0018360-9 M0018360-9_contig5, whole genome shotgun sequence		Array_Orientation: Reverse

  Position	Repeat	   %id	Spacer	Repeat_Sequence                     	Spacer_Sequence                       	Insertion/Deletion
==========	======	======	======	====================================	======================================	==================
       178	    36	 100.0	    37	....................................	ACCAATGCGTCGTCATTTCCGGCTTCAATTTCAGCCT 	
       105	    36	 100.0	    38	....................................	CTGAGGAGAGCGAGTACTCGGGGCTGCCGTCTGCGCTG	
        31	    31	  86.1	     0	...............................-----	|                                     	
==========	======	======	======	====================================	======================================	==================
         3	    36	  95.4	    38	GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC	                                      	       

# Left flank :   TTTCTGACCACTTGTGCGGGATTAGCGGGCTTA
# Right flank :  G

# Questionable array : NO	 Score: 5.13
# 	Score Detail : 1:0, 2:3, 3:0, 4:0.77, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 :     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 [1-0] Score: 0.41/0.41
# 	AT richness analysis in flanks prediction: R [0.0-26.7]%AT Score: 0.27/0.27
# 	Longer leader analysis prediction:         NA 
# 	----------------------------------------------------------------------------
# 	Final direction:         R [0,1.42   Confidence: HIGH] 

# Array family : NA
//


Array 1 2773345-2772426 		**** Predicted by CRISPRDetect 2.4 *** 
>NZ_MMNH01000003.1 Mycobacterium tuberculosis strain M0018360-9 M0018360-9_contig3, whole genome shotgun sequence		Array_Orientation: Reverse

  Position	Repeat	   %id	Spacer	Repeat_Sequence                     	Spacer_Sequence                         	Insertion/Deletion
==========	======	======	======	====================================	========================================	==================
   2773344	    36	 100.0	    37	....................................	AGGTTCGCGTCAGACAGGTTCGCGTCGATCAAGTCCG   	
   2773271	    36	 100.0	    38	....................................	TTTATCACTCCCGACCAAATAGGTATCGGCGTGTTCAA  	
   2773197	    36	 100.0	    37	....................................	ATTTTGAGCGCGAACTCGTCCACAGTCCCCCTTTCAG   	
   2773124	    36	 100.0	    35	....................................	GCCCCGTGGATGGCGGATGCGTTGTGCGCGCAAGT     	
   2773053	    36	 100.0	    40	....................................	CCGACGATGGCCAGTAAATCGGCGTGGGTAACCGATCCGG	
   2772977	    36	 100.0	    38	....................................	TAGTACGCCATCTGTGCCTCATACAGGTCCAGTGCCCT  	
   2772903	    36	 100.0	    35	....................................	CTGACGGCACGGAGCTTTCCGGCTTCTATCAGGTA     	
   2772832	    36	 100.0	    36	....................................	CCTCATGGTGGGACATGGACGAGCGCGACTATCGGG    	
   2772760	    36	  97.2	    37	......G.............................	TGGACGCAGAATCGCACCGGGTGCGGGAGGTGCAGCA   	
   2772687	    36	 100.0	    40	....................................	GCATATCGCCCGCCACACCACAGCCACGCTACTGCTCCAT	
   2772611	    36	  97.2	    40	...C................................	ACACCGCCGATGACAGCTATGTCCGAGTGACATCCTCCCA	
   2772535	    36	  97.2	    38	..................A.................	TTGAACCGCCCTTCGCGCGGTGTTTCGGCCGTGCCCGA  	
   2772461	    36	 100.0	     0	....................................	|                                       	
==========	======	======	======	====================================	========================================	==================
        13	    36	  99.4	    38	GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC	                                        	       

# Left flank :   GGTTGCCCCGCGCCCTTTTCCAGC
# Right flank :  TACGACGACTGGGTCGCCACCGCGTCTGTTGACCGGCATTCAGGATGAGCATGATGGCGGCGTTGACGGTGAGGACGTTTGGTCATGAAATGACCCCGCCGGGAGATGTCCGGCGGGGTCGGTGGTGTTCGGGGTGTCGGTGTGGTGTTCAGTCTGCCGTGACTTCGGCGATGGCGGTGCGGGTGGTGGATTCGTCGACGATGGCCTTGTCGGCGGCGAAGGCGGCGACGAGGGCTTGCAGGGCGAGGTTGTTGACCGCGCGGGGGTAGCCCCGGCTGGTCTGGTGGATCAACCCGATGGCGTCGTCGGAGAACAGGGCATCGTCGCGTCCGGCTAGCTTGAGGTGGTGGCGTAGGTAGCTGCCGGTGTTGGTGTCGGTCATGGGCGGCATGGCATATCGGAGTCCGATGCGCTGGTCAAGCGCGGCGAGCACGCCGAGTTTCATCCGCCGCCGCAGGGTGGGTTGGCCGATGAGCAGGCAGGCGAACGGGCTTGACGAG

# Questionable array : NO	 Score: 6.23
# 	Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [38.3-11.7]%AT Score: 0.27/0.27
# 	Longer leader analysis prediction:         NA 
# 	----------------------------------------------------------------------------
# 	Final direction:         R [0.27,1.15   Confidence: MEDIUM] 

# Array family : NA
//