Array 1 49-258 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMF01000108.1 Salmonella enterica subsp. enterica serovar 4,5,12:i- strain CVM N51240 N51240_contig_109, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 49 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 110 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 171 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 232 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 4 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CAGCGGGGATAAACCGCCGCTGACGCACTGGATCAACCTGACGCAACGG # Right flank : | # Questionable array : NO Score: 5.77 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:0.01, 8:0.6, 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: F [30.0-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 50-321 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMF01000095.1 Salmonella enterica subsp. enterica serovar 4,5,12:i- strain CVM N51240 N51240_contig_95, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 50 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 111 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 172 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 234 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 295 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 5 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGCAACCAGGCTGGATCGTAACTCCTATCCCCTCG # Right flank : | # 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 [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: F [33.3-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 272-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMF01000104.1 Salmonella enterica subsp. enterica serovar 4,5,12:i- strain CVM N51240 N51240_contig_105, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 271 28 96.6 32 -............................ GTCGTTCATCAGGCACTACCGGCACTTTCTGG 211 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 150 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 89 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 5 29 97.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : C # Questionable array : NO Score: 5.96 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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: 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 [-8.90,-10.50] 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 [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 514-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMF01000077.1 Salmonella enterica subsp. enterica serovar 4,5,12:i- strain CVM N51240 N51240_contig_77, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 513 27 93.1 32 --........................... AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 454 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 393 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 332 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 271 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 210 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 149 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 88 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 9 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : C # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-1.7]%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 8611-7180 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMF01000078.1 Salmonella enterica subsp. enterica serovar 4,5,12:i- strain CVM N51240 N51240_contig_78, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 8610 28 96.6 32 -............................ GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 8550 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 8489 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 8428 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 8367 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 8306 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 8245 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 8184 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 8123 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 8062 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 8001 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 7940 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 7879 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 7818 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 7757 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 7695 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 7634 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 7573 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 7512 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 7451 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 7390 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 7329 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7268 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 7207 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 24 29 98.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [9-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-0.0]%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], //