Array 1 1-942 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMY01000039.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N51260 N51260_contig_39, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 27 93.1 32 --........................... TAATGAATCGCCTTTCTAAAATGAAAGACGAC 60 29 100.0 32 ............................. GCATCGAACCGCTTATCCGTCTGTACCCACTC 121 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 182 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 243 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 304 29 100.0 32 ............................. AATGGGATGTTCTCGATAATGGCGACGACGAA 365 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 426 29 100.0 32 ............................. GACATTTCAGTTTTGAGCATGAACCTGATTCA 487 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGTTGTTTAGTTCCT 548 29 100.0 32 ............................. AAAACCGTACAACAGACAAAATATAAATATTG 609 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 670 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 731 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 792 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 853 29 100.0 32 ............................. CCAGCTTACACTATTTACGACGTTATTGAGCA 914 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 16 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : CCCCGATAGCGACGCTTCTGTAGTCACTGGCAGTGTTCCCCGCGCCAG # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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: R [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-28.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.68 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-269 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMY01000040.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N51260 N51260_contig_40, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 27 93.1 32 --........................... GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 60 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 121 29 100.0 32 ............................. AAGCCATTGACGCAACGGAAAACGCCAATGCT 182 29 96.6 32 .................A........... GTATGATTTGGACATAGCTAATGATGTAAAGT 243 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 5 29 96.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : | # Questionable array : NO Score: 5.81 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:0.92, # 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 [5,3] 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 [-7.20,-5.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-2] 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: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 6242-6758 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMY01000048.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N51260 N51260_contig_48, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 6242 29 100.0 32 ............................. CGACGCTTCCATCGTCTGGCATTCCTGTTCGT 6303 29 100.0 32 ............................. CCCGCGTATTAACAACGACGAGCAGGGCGTGC 6364 29 100.0 32 ............................. GTTGCGCAGCCATTGAGCTGCAAACGGATCAA 6425 29 100.0 32 ............................. CGCCCCCCGCATACAGCGAGAGACGGGCCATG 6486 29 100.0 32 ............................. CGCCGGGCGCGGGAGTCCCGGGCGATCCTCCC 6547 29 100.0 32 ............................. GCCCGAAATCAACTTGCAACATTTCAGTTGGC 6608 29 100.0 32 ............................. CATATGATTGACGACAATGAATTTTTTTTCAA 6669 29 100.0 32 ............................. ATAGTTCATCTCTGTTCTCCAGCGGTTTCTAT 6730 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 9 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCACAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAAGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : ACGGCATTATCACGGCTATTTCTCTGGAAATGGTGTTCCCCGCGCCAG # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: F [70.0-36.7]%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 1-822 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMY01000058.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N51260 N51260_contig_61, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1 27 93.1 32 --........................... CCACAGCCGCCGCGACAATAAATTAACTCACT 60 29 100.0 32 ............................. GCTGAGATAATTGCCGATCATCTTGAAGACAT 121 29 100.0 32 ............................. AATGATGAGGGGCTGGCAACGTTTAGCGCCAC 182 29 100.0 32 ............................. CTGGCCACTCAACAGGGAAATATCGCGTGCGC 243 29 96.6 32 A............................ CCCATCAAGATAAACATCATAGCGAGCACCTG 304 29 100.0 32 ............................. TTTGAAATCGCTATTCTTATTGCTGTAGCAGT 365 29 100.0 32 ............................. CGTTAACTAAAACGAACAAAACAGGGAAATCA 426 29 100.0 33 ............................. GCCGTGCGTCAGATCACCCCAAACGCTTTCTTT 488 29 100.0 33 ............................. GCATTAGATTGCGTTGACGGTCACGTTCTTATC 550 29 100.0 32 ............................. CGCCTCACTGATATTCTGCGGCGAGCTGAAAA 611 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 672 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 733 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 794 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 14 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : AACGCAGGAGAACCAGCCGCCGGTCATCCTGCGTGTTCCCCGCGCCAGC # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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: R [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-25.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.68 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-210 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMY01000060.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N51260 N51260_contig_63, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 27 93.1 32 --........................... TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 60 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 121 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 182 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 4 29 96.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : | # Questionable array : NO Score: 5.68 # Score Detail : 1:0, 2:3, 3:0, 4:0.82, 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 [5,3] 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 [-7.20,-5.60] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] 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: F [5.24,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 211-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHMY01000062.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N51260 N51260_contig_65, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 210 27 93.1 32 --........................... GCGACATCAAAATCTATTTTTCATTCTATCTG 151 29 100.0 32 ............................. CTCCAGCCACATTGCGGCGCGACCGCTTTTAA 90 29 100.0 32 ............................. CAATGTTTCATGCTACGCAAGAGACCAGAACG 29 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 4 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : G # 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: R [3,5] 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 [-5.60,-7.20] 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], //