Array 1 166932-165150 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPLA01000002.1 Salmonella enterica strain CFSAN064285 CFSAN064285_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 166931 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 166870 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 166809 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 166748 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 166687 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 166625 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 166564 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 166503 29 96.6 32 .........................C... CCGCTGACGCACTGGATCAACCTGACGCAACG 166442 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 166381 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 166320 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 166259 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 166198 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 166137 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 166076 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 166015 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 165954 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 165893 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 165831 29 100.0 74 ............................. AATAAGGCGCGGTGCCTCCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 165728 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 165667 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 165606 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 165545 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 165484 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 165423 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 165362 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 165301 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 165240 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 165179 29 96.6 0 A............................ | A [165152] ========== ====== ====== ====== ============================= ========================================================================== ================== 29 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 : 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%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], // Array 2 184557-183064 **** Predicted by CRISPRDetect 2.4 *** >NZ_NPLA01000002.1 Salmonella enterica strain CFSAN064285 CFSAN064285_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 184556 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 184495 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 184434 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 184373 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 184312 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 184251 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 184190 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 184129 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 184068 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 184007 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 183946 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 183885 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 183824 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 183763 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 183702 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 183641 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 183579 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 183518 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 183457 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 183396 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 183335 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 183274 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 183213 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 183152 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 183091 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [9-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //