Array 1 218544-217843 		**** Predicted by CRISPRDetect 2.4 *** 
>NZ_MZFA01000001.1 Salmonella enterica subsp. enterica serovar Manhattan strain 81-0058 NODE_1_length_460162_cov_3.10249, whole genome shotgun sequence		Array_Orientation: Reverse

  Position	Repeat	   %id	Spacer	Repeat_Sequence              	Spacer_Sequence                 	Insertion/Deletion
==========	======	======	======	=============================	================================	==================
    218543	    29	  96.6	    32	........T....................	GAAAAAAGCAAAGGGGGAGTTAGATGCGCTTG	
    218482	    29	  96.6	    32	............................A	ATAGCCTCGTCGATTGGCTGACGAATAAGCGC	
    218421	    29	 100.0	    32	.............................	CAAAAAATCAGACATGAATCACGTTTTAAATT	
    218360	    29	 100.0	    32	.............................	GATACGCTCATCAAATCCAATCCGCATAGACG	
    218299	    29	 100.0	    32	.............................	TTCATCAGGTAGCTGGCTCTCATGCAGCTTCC	
    218238	    29	 100.0	    32	.............................	ACGATTTCGAACGCGTCAGCGGTCCTGACTAC	
    218177	    29	 100.0	    32	.............................	CCAACAGACAACCAATGCGCAGGGGTAAGGCG	
    218116	    29	 100.0	    32	.............................	CCACGTTCGGCGATGTTGGCCCCATCGGTCCA	
    218055	    29	 100.0	    32	.............................	GCTAAAACGGCGCTTGAGAACAGTATCAATAT	
    217994	    29	  96.6	    32	..........T..................	CTTCATCTCGCAGTACGTAAACGCCTGCATCA	
    217933	    29	 100.0	    32	.............................	AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA	
    217872	    29	  93.1	     0	A...........T................	|                               	A [217845]
==========	======	======	======	=============================	================================	==================
        12	    29	  98.6	    32	GTGTTCCCCGCGCCAGCGGGGATAAACCG	                                	       

# Left flank :   GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATTTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT
# Right flank :  TTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT

# Questionable array : NO	 Score: 6.19
# 	Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 :     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:      R [4-2] Score: 0.41/0.41
# 	AT richness analysis in flanks prediction: R [51.7-70.0]%AT Score: 0.27/0.27
# 	Longer leader analysis prediction:         NA 
# 	----------------------------------------------------------------------------
# 	Final direction:         R [0,5.92   Confidence: HIGH] 

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