Array 1 965818-967433 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039443.1 Salmonella enterica subsp. enterica serovar Infantis strain VNSEC002 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 965818 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 965880 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 965941 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 966002 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 966063 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 966124 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 966185 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 966246 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 966307 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 966368 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 966429 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 966490 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 966551 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 966612 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 966673 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 966734 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 966795 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 966856 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 966918 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 966979 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 967040 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 967101 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 967162 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 967223 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 967284 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 967345 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 967406 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], // Array 2 983716-985613 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039443.1 Salmonella enterica subsp. enterica serovar Infantis strain VNSEC002 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 983716 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 983777 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 983838 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 983899 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 983961 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 984022 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 984083 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 984144 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 984205 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 984266 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 984327 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 984388 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 984449 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 984510 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 984571 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 984632 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 984693 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 984754 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 984815 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 984876 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 984934 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 984995 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 985056 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 985117 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 985178 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 985239 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 985300 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 985361 29 100.0 11 ............................. CGGCCAGCCAT Deletion [985401] 985401 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 985462 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 985523 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 985584 29 93.1 0 A...........T................ | A [985610] ========== ====== ====== ====== ============================= ================================= ================== 32 29 97.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.05, 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 [0-11] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%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], //