Array 1 568-1 		**** Predicted by CRISPRDetect 2.4 *** 
>NZ_MTGW01000441.1 Mycobacterium tuberculosis strain CDPH_C65 contig441, whole genome shotgun sequence		Array_Orientation: Reverse

  Position	Repeat	   %id	Spacer	Repeat_Sequence                     	Spacer_Sequence                                       	Insertion/Deletion
==========	======	======	======	====================================	======================================================	==================
       567	    36	 100.0	    38	....................................	TTAAAACCGTGTTGCACTGCAACCCGGAATTCTTGCAC                	
       493	    36	 100.0	    41	....................................	CATAGAGGGTCGCCGGCTCTGGATCACGCTCCCCTAGTCGT             	
       416	    36	 100.0	    54	....................................	NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN	
       326	    36	 100.0	    39	....................................	AACACCTCAGTAGCACGTCATACGCCGACCAATCATCAG               	
       251	    36	 100.0	    35	....................................	TTTTCTGACCACTTGTGCGGGATTAGCGGGCTTAG                   	
       180	    36	 100.0	    37	....................................	ACCAATGCGTCGTCATTTCCGGCTTCAATTTCAGCCT                 	
       107	    36	 100.0	    35	....................................	CTGACGGCACGGAGCTTTCCGGCTTCTATCAGGTA                   	
        36	    36	 100.0	     0	....................................	|                                                     	
==========	======	======	======	====================================	======================================================	==================
         8	    36	 100.0	    40	GTCGTCAGACCCAAAACCCCGAGAGGGGACGGAAAC	                                                      	       

# Left flank :   TTCAGTACGCCCTCGACTTGCAACTGCAAAGCCTCGTGCGTGTTATCGAAGCCGGGCACCCGTCGCGGCTCGTCGATATCGATATCACCTCCGAGCCATCCGGAGCCTAAATGCCCACTCGCAGCCGTGAGGAGTACTTCAATCTCCCGCTCAAAGTGGACGAGTCCAGCGGCACTATAGGCAAGATGTTCGTCCTCGTAATATACGACATCAGCGACAACCGGCGGCGGGCTTCACTTGCGAAGATCCTGGCCGGGTTTGGCTATCGCGTCCAAGAGTCCGCATTCGAAGCGATGCTGACGAAGGGCCAGCTCGCGAAACTAGTTGCACGTATCGACCGCTTCGCCATCGACTGCGACAACATCCGGATCTATAAGATAAGAGGTGTTGCGGCAGTTACGTTCTACGGAAGGGGACGGCTTGTCAGCGCAGAGGAGTTTGTGTTCTTTTGACATCATCAGCAGGCATTGTTACCACACGCTGGACGAATTGTCCATAGA
# Right flank :  C

# Questionable array : NO	 Score: 6.16
# 	Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:-0.09, 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:      NA [0-0] Score: 0/0.41
# 	AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27
# 	Longer leader analysis prediction:         NA 
# 	----------------------------------------------------------------------------
# 	Final direction:         R [0,0.74   Confidence: HIGH] 

# Array family : NA
//


Array 1 159-1 		**** Predicted by CRISPRDetect 2.4 *** 
>NZ_MTGW01000598.1 Mycobacterium tuberculosis strain CDPH_C65 contig598, whole genome shotgun sequence		Array_Orientation: Reverse

  Position	Repeat	   %id	Spacer	Repeat_Sequence                 	Spacer_Sequence                              	Insertion/Deletion
==========	======	======	======	================================	=============================================	==================
       158	    32	 100.0	    45	................................	TTGCGCCAACCCTTTCGGTGTGATGCGGATGGTCGGCTCGGGTCG	
        81	    32	 100.0	    29	................................	CTTGAATAACGCGCAGTGAATTTCGCGGA                	
        20	    20	  62.5	     0	....................------------	|                                            	
==========	======	======	======	================================	=============================================	==================
         3	    32	  87.5	    38	TCAGACCCAAAACCCCGAGAGGGGACGGAAAC	                                             	       

# Left flank :   CCGAGAGGGGACGGAAACTTCGTCGACCATCATTGCCATTCCCTCTCCCCACGTGTC
# Right flank :  A

# Questionable array : NO	 Score: 4.74
# 	Score Detail : 1:0, 2:3, 3:0, 4:0.38, 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 :     TCAGACCCAAAACCCCGAGAGGGGACGGAAAC
# 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 [1,12] 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 [0.0-38.3]%AT Score: 0.27/0.27
# 	Longer leader analysis prediction:         NA 
# 	----------------------------------------------------------------------------
# 	Final direction:         R [0,1.42   Confidence: HIGH] 

# Array family : NA
//