Array 1 941275-942460 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP016012.1 Salmonella enterica subsp. enterica serovar Newport strain CFSAN003890 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 941275 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 941336 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 941397 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 941458 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 941519 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 941580 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 941641 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 941702 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 941763 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 941824 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 941885 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 941946 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 942007 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 942068 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 942129 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 942190 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 942251 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 942312 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 942373 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 942433 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [1-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-63.3]%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 2 959130-960745 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP016012.1 Salmonella enterica subsp. enterica serovar Newport strain CFSAN003890 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 959130 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 959191 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 959252 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 959313 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 959374 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 959435 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 959496 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 959557 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 959618 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 959679 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 959740 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 959801 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 959862 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 959923 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 959984 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 960045 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 960106 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 960167 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 960228 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 960289 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 960350 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 960411 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 960472 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 960533 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 960594 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 960655 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 960716 29 100.0 0 ............................. | A [960743] ========== ====== ====== ====== ============================= ================================ ================== 27 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: F [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [68.3-48.3]%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], //