Array 1 638-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLX01000020.1 Salmonella enterica subsp. enterica serovar 4,5,12:i- strain CVM N50442 N50442_contig_20, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 637 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 576 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 515 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 454 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 393 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 332 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 271 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 210 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 149 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 88 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : C # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 50-322 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLX01000101.1 Salmonella enterica subsp. enterica serovar 4,5,12:i- strain CVM N50442 N50442_contig_102, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 50 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 111 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 172 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 233 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 294 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 5 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGTGACGCTGGTCTATACCGGCAACGAACGCGACG # Right flank : GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGCGTGTTCCCCGCGCCAGCGGGGATAA # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:0.8, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [31.7-43.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 957-32 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLX01000092.1 Salmonella enterica subsp. enterica serovar 4,5,12:i- strain CVM N50442 N50442_contig_92, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 956 28 96.6 32 -............................ GTCGTTCATCAGGCACTACCGGCACTTTCTGG 896 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 835 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 774 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 712 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 609 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 548 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 487 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 426 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 365 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 304 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 243 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 182 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 121 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 60 29 96.6 0 A............................ | ========== ====== ====== ====== ============================= ========================================================================== ================== 15 29 99.3 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GCCAGCTTACGCTATTTACGACGTTATTGAGC # Questionable array : NO Score: 6.02 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:-0.19, 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 [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [28.3-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 34-795 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLX01000089.1 Salmonella enterica subsp. enterica serovar 4,5,12:i- strain CVM N50442 N50442_contig_89, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 34 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 95 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 156 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 217 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 278 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 339 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 401 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 462 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 523 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 584 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 645 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 706 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 767 29 96.6 0 ............................T | ========== ====== ====== ====== ============================= ================================= ================== 13 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCCCACCGCGCTGATTAACGACGGACTGTTACAG # Right flank : GAGGCGTACAGGCTGTTAGATGAGAAATTACCGTGTTCCCCGCGCCAGCG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [25.0-35.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //