Array 1 1-1837 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHKO01000019.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM N48693 N48693_contig_19, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 1 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 62 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 123 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 185 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 246 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 307 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 368 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 429 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 490 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 551 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 612 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 673 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 734 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 795 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 856 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 917 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 978 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 1039 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 1100 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 1158 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 1219 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 1280 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 1341 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 1402 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 1463 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 1524 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 1585 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 1686 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 1747 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1808 29 93.1 0 A...........T................ | A [1834] ========== ====== ====== ====== ============================= ======================================================================== ================== 30 29 98.5 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:-0.08, 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # 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: NA [0.0-0.0]%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 1 289937-291552 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHKO01000012.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM N48693 N48693_contig_12, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 289937 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 289999 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 290060 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 290121 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 290182 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 290243 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 290304 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 290365 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 290426 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 290487 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 290548 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 290609 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 290670 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 290731 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 290792 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 290853 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 290914 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 290975 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 291037 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 291098 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 291159 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 291220 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 291281 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 291342 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 291403 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 291464 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 291525 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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], //