Array 1 113730-114674 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAHWXF010000012.1 Salmonella enterica subsp. enterica serovar Javiana strain SVJ333 JV333_trimmed_contig_12, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 113730 29 100.0 32 ............................. TCGTATCCCTGCAGCTCCAGCGCCCCTTCCTT 113791 29 100.0 32 ............................. GTGTGATCTCATTTGGCGAGGGGTGCGTAAAA 113852 29 100.0 32 ............................. AAGAGCGTCATATGCCTGCAAGGCAAAGACCA 113913 29 100.0 32 ............................. TTCGTTAATTATATTACAATACAAATCATAAC 113974 29 100.0 32 ............................. AGAGCGGCACTTACCTTAGTCCGCCGAACGCC C [113983] 114036 29 100.0 32 ............................. ACAAAAATCGCCGACGGCATTCGTACTGGTCA 114097 29 100.0 32 ............................. CGGTGCCCCATATTGGCTATATGCTGACGCAA 114158 29 100.0 32 ............................. CCAGTATCGGTAGCGCGGGTGAGGCGGCGGCC 114219 29 100.0 32 ............................. TATTTTCTCGTGTGGCGGTCCATTGGCCGCTA 114280 29 100.0 33 ............................. CTCATAGCTCGGATCACCGCGATATACCGGATC 114342 29 100.0 32 ............................. GGAGGACGCTACTATCGGATTCGCTCCGGGGA 114403 29 100.0 32 ............................. GGCGGCAATATCCATCACTCAGCACCAGGGAA 114464 29 100.0 32 ............................. GGGTCAAATATGGGGTTATTGGGAGGGAGCGG 114525 29 100.0 32 ............................. CCCCTACAGTTGCCACCGCGTACAACTCAACA 114586 29 96.6 32 ............T................ CCATACCATTTCTACTGGCGCAACGATTTTTG 114647 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 16 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATAAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTAGTGCTGATAAAAAGTAGTTTATGAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTAATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGCATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [4-6] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [68.3-63.3]%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 124205-124783 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAHWXF010000012.1 Salmonella enterica subsp. enterica serovar Javiana strain SVJ333 JV333_trimmed_contig_12, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 124205 29 100.0 32 ............................. GCCTTTTGAGTGCCGTTTTTGCGTGTTTTGAG 124266 29 100.0 32 ............................. CCTCTAATTTCATAAAATCACCTGCAAATAAT 124327 29 100.0 32 ............................. GCCACGCCATTTACGCCTGTATAATTTACCAA 124388 29 100.0 32 ............................. AGAGCAGGAGATCGGCACCAGTTTTTCCAGCA 124449 29 100.0 32 ............................. GGGTGAGTGTAACCTATTAATATTTAATTAAA 124510 29 100.0 32 ............................. ATGTACTGAATAAAACTATCGCTAAACCCTTC 124571 29 100.0 32 ............................. ATGTACTGAATAAAACTATCGCTAAACCCTTC 124632 29 100.0 32 ............................. TTCAAACTCGATCACGGCGAAACCGTTCACGA 124693 29 100.0 32 ............................. GAAGTGGAGAGTCGCTGGAAAATGCTCATAAA 124754 29 93.1 0 A...........T................ | A [124780] ========== ====== ====== ====== ============================= ================================ ================== 10 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AGATAAGCTGGTGGCGGCATTTTCCCGTGGGGTGAGGCGTAGTGTGCAGGCGCCGTTGCTAGGCCATGACGATTATCCCTGGCTGACTCAGGTCACACAAACAGAGTTGATTTCTCAGCGGGTTGATACACGCAAAGAGGTTGAACGTAGCGTAGATATTGGCTGGCTACATAGTGAAGAGGCGTGTCTTGAACGTATAGGTGAAGCAGTGGAAAAAGGAAACTGTATCGCCTGGATACGTAACTCCGTTGATGATGCGATTCGTATCTATCGCCAGCTTCAACTGAGTAAGGTCGTCGCCACGGAAAACCTTTTACTCTTCCATAGTCGCTTTGCTTTTCACGATCGTCAGCGGATTGAGTCGCAGACGCTGAATCTCTTTGGCAAACAGAGCGGCGCGCAACGTGCCGGTAAGGTCATTATCGCCACGCAGGTAATCGAACAAAGTCTGGATATTGACTGCGATGAGATGATCTCTGATTTAGCGCCGGTGGATTTAT # Right flank : GTTTCACCAGCTTATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCTAGATTAATGACCAGCAGCGTATTGTTCTTCTCAGCGTCACTCATTCG # 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [58.3-48.3]%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], //