Array 1 226507-227206 **** Predicted by CRISPRDetect 2.4 *** >NZ_JREJ01000005.1 Salmonella enterica subsp. enterica serovar Bareilly str. CFSAN000182 isolate 2993 H CFSAN000182_contig0004, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 226507 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 226568 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 226629 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 226690 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 226752 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 226813 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 226874 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 226935 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 226996 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 227057 29 100.0 32 ............................. GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 227118 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 227179 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 12 29 97.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTCCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # 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: 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 [0-7] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%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 2 243329-244640 **** Predicted by CRISPRDetect 2.4 *** >NZ_JREJ01000005.1 Salmonella enterica subsp. enterica serovar Bareilly str. CFSAN000182 isolate 2993 H CFSAN000182_contig0004, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 243329 29 100.0 32 ............................. GCGGATCTGTTTTGAGGTGTTCTTCAACTGTG 243390 29 100.0 32 ............................. ACTATTCGGTCAAAACAGCCTCCATTCTCAGC 243451 29 100.0 32 ............................. CCAGCGCAAGCGGGAAACAATCATCGGGCAAG 243512 29 100.0 32 ............................. GGCCAGTTCAACAAACACCACGACGCGGGAAT 243573 29 100.0 32 ............................. GGTGACGGCTTTGTCCGACCGCATCCGGGCCA 243634 29 100.0 32 ............................. ACGAGGGACGGCTGGCGCTGGAGAGATTTTCA 243695 29 100.0 32 ............................. ACCCGCTCCGCGCAGCTCGCAGCGTAATTCGA 243756 29 100.0 32 ............................. ACACATATACTCTCCCCGTTTGCATCATCAGG 243817 29 100.0 32 ............................. ATCGCTAAATCTAAAATGCCCTCGTACAGTGA 243878 29 100.0 32 ............................. TTATCTATGCCATAGTGACCCCACGTTACATA 243939 29 100.0 32 ............................. TATAATTGGCGTCCATATATCTGGATATTTAC 244000 29 100.0 32 ............................. ATTGTTTCCCGCTTGCGCTTGCATCGCCGGAT 244061 29 100.0 32 ............................. CTTACTATCAGCTCGCGTGCTGTTTGCAGGCC 244122 29 100.0 32 ............................. GATGCCAAACTGGTCAAGCTGGCGATTATCAA 244183 29 100.0 32 ............................. ACCATTACTGACGTGATGGCGGCGCAAGGGTT 244244 29 100.0 32 ............................. GGAAATAAACTCCTTGAGCAGCGGCAAGCAAC 244305 29 100.0 33 ............................. TGTGAACGTCGGATAAATACCGATTCCGCCTGC 244367 29 100.0 32 ............................. AGTTTCTTGTGACGCTTCTATTCAGGACAAAA 244428 29 100.0 32 ............................. CCAGATCGCGCAAATCGCTGCGAGTATTCAGG 244489 29 96.6 32 ............T................ TCCACGTCGCCCGCCATCAGGTTCGCCAGCTC 244550 29 89.7 32 ............T....C....G...... AACTGGTACACCCGCCTGACGTTTGTTCAGCT 244611 29 96.6 0 ............T................ | A [244638] ========== ====== ====== ====== ============================= ================================= ================== 22 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTAGGTAATAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCTCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTTGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: F [0-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-50.0]%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], //