Array 1 12-223 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXLU01000871.1 Salmonella enterica subsp. enterica serovar Miami strain IP 2/79 NODE_871_length_250_cov_0.60479, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 12 29 100.0 32 ............................. GTCAACGAGGGATTGAATTGGTGGTGTATTGG 73 29 100.0 32 ............................. AAAATTATTATTTTTGCAACTGCAATTCTGCT 134 29 100.0 32 ............................. GTTCGGTTCACATCAGGTCTGGGGGCTTACTA 195 29 96.6 0 .............C............... | ========== ====== ====== ====== ============================= ================================ ================== 4 29 99.2 32 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : GGTGAATGTGGG # Right flank : GTGAGCTCGGTTTTAATTTCGTCGCTA # Questionable array : NO Score: 5.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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: NA [5,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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 [8.3-25.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 254-42 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXLU01000664.1 Salmonella enterica subsp. enterica serovar Miami strain IP 2/79 NODE_664_length_303_cov_0.759091, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 253 29 100.0 32 ............................. ACGACGTGCCTTTCGTTCCCAGATCGGTATCC 192 29 96.6 32 ...............A............. ATCGGCTTTAACGGTACAAATCATGCGCTCGT 131 29 100.0 32 ............................. GGATTGGGCTTCTTCAGAATCTGGTTGTTCAC 70 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 4 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGATCTGGGGATAAACCGATTTTTCATCCAGTCTCGAAGATAATAAAAG # Right flank : GGACATCAGGCAGATCAATCCCGGCCAGATGGTGTGTTCCCC # Questionable array : NO Score: 5.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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 [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: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [28.3-51.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 748-47 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXLU01000188.1 Salmonella enterica subsp. enterica serovar Miami strain IP 2/79 NODE_188_length_749_cov_1.38138, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 747 29 75.9 32 .AACA.ATT.................... ATCCGAGTAGCTCAACTGGGGGATATCCCCAA 686 29 100.0 32 ............................. GCGGTGCGGCAGGCGTTCCATGCCTCCATAGC 625 29 96.6 32 ............................A TGCCATCGCCGAGGGAGGGCCTCCAGATCATC 564 29 100.0 32 ............................. CTGAATAATTCGCCGTAGGTAGCCAGCGCAAT 503 29 100.0 32 ............................. CCGTCGCTGACGAACTGACTTTTCTTCATCTC 442 29 100.0 32 ............................. TTCACCTTTCCCCACAATGTCAGAGGTTATTT 381 29 96.6 32 ............................A CATTGGGCACCGTACCGTTGCGAATACGTCGC 320 29 100.0 32 ............................. CCAGTAATCACAGACTTTCTCCGTGTCTTCAC 259 29 100.0 32 ............................. ACCACTGTCCGCAATCTGTCGGCGAACTACCG 198 29 100.0 32 ............................. GAGATCCCCCAGCGTGAATATCTGGGAGTGTC 137 29 100.0 33 ............................. GCTGAATTGCTAAATAAAGCGGCCTGCGCTGCC 75 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 12 29 97.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : G # Right flank : GACGATTTATGAAATCCACCCGGTAAAAATGAAGTGTTCCCCGCTGG # Questionable array : NO Score: 6.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.87, 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: F [0-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [41.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 94387-93747 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXLU01000018.1 Salmonella enterica subsp. enterica serovar Miami strain IP 2/79 NODE_18_length_95253_cov_2.55853, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 94386 29 100.0 32 ............................. TGTCCAGGCGATTTCCTGGAACCTGGCATTGC 94325 29 100.0 32 ............................. GTCGCGGTGTGAGCGGAAAGCCTGGCGAACAG 94264 29 100.0 32 ............................. GTAGGTAGCGCCCAATGGATGTTGGGGGAAAT 94203 29 100.0 32 ............................. GTTTATCTCTCCGTTATGTGTCGGACACCAAA 94142 29 100.0 32 ............................. CAAACAGTGCATAATTCGCAAAATTTGCGCTA 94081 29 100.0 32 ............................. GTTCCACAGGACGTTGAGAACGGCTTTATACA 94020 29 100.0 32 ............................. ACGAGCACTGCAACGGCGAACTGGCAATGGCA 93959 29 100.0 32 ............................. GAATTATTTAGTTGATCTGAAGAATTCAGGAA 93898 29 100.0 32 ............................. AACAGTGCAACCAGAAAGTATTAAAAAACCAA 93837 29 100.0 32 ............................. CAAAAGGCCGACGGTGTGTACACCTCTAAAAA 93776 29 93.1 0 A...........T................ | A [93749] ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCGCCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCCTTGGGGGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGTGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTCCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCACTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-70.0]%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], //