Array 1 11912-12366 **** Predicted by CRISPRDetect 2.4 *** >NZ_AHUD01000042.1 Salmonella enterica subsp. enterica serovar Newport str. CVM 19593 SEEN593_58, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 11912 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 11973 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 12034 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 12095 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 12156 29 100.0 32 ............................. TCATGCTTTCGACTAAATACTACCGCGACAAC 12217 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 12278 29 100.0 31 ............................. AGATATGAAAAACGTAAAATTTACACCGCCA 12338 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 8 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : CAATAGGACAGCCATTCGAGCGCCCAGAGTTTGTGTTCCCCGCGCCAGCGGGGAT # 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 [73.3-35.0]%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 8-1075 **** Predicted by CRISPRDetect 2.4 *** >NZ_AHUD01000004.1 Salmonella enterica subsp. enterica serovar Newport str. CVM 19593 SEEN593_13, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 8 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 69 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 130 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 191 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 252 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 313 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 374 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 435 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT C [440] 497 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 558 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 619 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 680 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 741 29 100.0 32 ............................. GGGCGAAAACGCGCTTTGAAATTCGCACGGTC 802 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 863 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 924 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 985 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 1046 29 100.0 0 ............................. | A [1073] ========== ====== ====== ====== ============================= ================================ ================== 18 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TTCGCTCG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 [5.0-48.3]%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], // Array 1 35-489 **** Predicted by CRISPRDetect 2.4 *** >NZ_AHUD01000046.1 Salmonella enterica subsp. enterica serovar Newport str. CVM 19593 SEEN593_61, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 35 29 86.2 32 TGT.C........................ GGCGCCCGCGTTTCTCGGCTCGGCGCAATATC 96 29 96.6 33 ........T.................... GTAGTGCAACGCCGGTGATTTTACCAGTATCAG 158 29 89.7 32 TGT.......................... GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 219 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 280 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 341 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 402 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 462 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 8 29 93.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AGGGTTTTTGTCACCTCAACGGTCGGGAGTGCAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 5.38 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.47, # 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 [-3.90,-2.30] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [2-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [28.3-63.3]%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], // Array 2 17159-17493 **** Predicted by CRISPRDetect 2.4 *** >NZ_AHUD01000046.1 Salmonella enterica subsp. enterica serovar Newport str. CVM 19593 SEEN593_61, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 17159 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 17220 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 17281 29 100.0 33 ............................. TTGATTTACCCGCCACTTATTCCCCCATTGCAT 17343 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 17404 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 17465 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 6 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : CGTTAGGCTGCGGTTGGGCACCGAAGAAAAA # 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 [68.3-23.3]%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], //