Array 1 218423-216464 **** Predicted by CRISPRDetect 2.4 *** >NZ_RQPT01000047.1 Salmonella enterica subsp. enterica serovar Infantis strain 1457 NODE_3_length_281301_cov_68.2309_ID_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 218422 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 218361 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 218300 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 218239 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 218177 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 218116 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 218055 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 217994 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 217933 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 217872 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 217811 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 217750 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 217689 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 217628 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 217567 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 217506 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 217445 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 217384 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 217323 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 217262 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 217204 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 217143 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 217082 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 217021 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 216960 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 216899 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 216838 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 216777 29 100.0 11 ............................. CGGCCAGCCAT Deletion [216738] 216737 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 216676 29 100.0 32 ............................. GGCGATGCGGGCGCATTGTACGCGATGCAGAC 216615 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 216554 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 216493 29 93.1 0 A...........T................ | A [216466] ========== ====== ====== ====== ============================= ================================= ================== 33 29 97.8 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.04, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [11-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 236321-234705 **** Predicted by CRISPRDetect 2.4 *** >NZ_RQPT01000047.1 Salmonella enterica subsp. enterica serovar Infantis strain 1457 NODE_3_length_281301_cov_68.2309_ID_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 236320 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 236258 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 236197 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 236136 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 236075 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 236014 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 235953 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 235892 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 235831 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 235770 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 235709 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 235648 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 235587 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 235526 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 235465 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 235404 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 235343 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 235282 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 235220 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 235159 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 235098 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 235037 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 234976 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 234915 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 234854 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 234793 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 234732 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //