Array 1 5438-6382 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAHWXC010000055.1 Salmonella enterica subsp. enterica serovar Javiana strain SVJ421 JV421_contig_55, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5438 29 100.0 32 ............................. TCGTATCCCTGCAGCTCCAGCGCCCCTTCCTT 5499 29 100.0 32 ............................. GTGTGATCTCATTTGGCGAGGGGTGCGTAAAA 5560 29 100.0 32 ............................. AAGAGCGTCATATGCCTGCAAGGCAAAGACCA 5621 29 100.0 32 ............................. TTCGTTAATTATATTACAATACAAATCATAAC 5682 29 100.0 32 ............................. AGAGCGGCACTTACCTTAGTCCGCCGAACGCC C [5691] 5744 29 100.0 32 ............................. ACAAAAATCGCCGACGGCATTCGTACTGGTCA 5805 29 100.0 32 ............................. CGGTGCCCCATATTGGCTATATGCTGACGCAA 5866 29 100.0 32 ............................. CCAGTATCGGTAGCGCGGGTGAGGCGGCGGCC 5927 29 100.0 32 ............................. TATTTTCTCGTGTGGCGGTCCATTGGCCGCTA 5988 29 100.0 33 ............................. CTCATAGCTCGGATCACCGCGATATACCGGATC 6050 29 100.0 32 ............................. GGAGGACGCTACTATCGGATTCGCTCCGGGGA 6111 29 100.0 32 ............................. GGCGGCAATATCCATCACTCAGCACCAGGGAA 6172 29 100.0 32 ............................. GGGTCAAATATGGGGTTATTGGGAGGGAGCGG 6233 29 100.0 32 ............................. CCCCTACAGTTGCCACCGCGTACAACTCAACA 6294 29 96.6 32 ............T................ CCATACCATTTCTACTGGCGCAACGATTTTTG 6355 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 15913-16491 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAHWXC010000055.1 Salmonella enterica subsp. enterica serovar Javiana strain SVJ421 JV421_contig_55, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 15913 29 100.0 32 ............................. GCCTTTTGAGTGCCGTTTTTGCGTGTTTTGAG 15974 29 100.0 32 ............................. CCTCTAATTTCATAAAATCACCTGCAAATAAT 16035 29 100.0 32 ............................. GCCACGCCATTTACGCCTGTATAATTTACCAA 16096 29 100.0 32 ............................. AGAGCAGGAGATCGGCACCAGTTTTTCCAGCA 16157 29 100.0 32 ............................. GGGTGAGTGTAACCTATTAATATTTAATTAAA 16218 29 100.0 32 ............................. ATGTACTGAATAAAACTATCGCTAAACCCTTC 16279 29 100.0 32 ............................. ATGTACTGAATAAAACTATCGCTAAACCCTTC 16340 29 100.0 32 ............................. TTCAAACTCGATCACGGCGAAACCGTTCACGA 16401 29 100.0 32 ............................. GAAGTGGAGAGTCGCTGGAAAATGCTCATAAA 16462 29 93.1 0 A...........T................ | A [16488] ========== ====== ====== ====== ============================= ================================ ================== 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], //