Array 1 218545-216647 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAQ01000004.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM N19983 N19983_R1_contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 218544 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 218483 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 218422 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 218361 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 218299 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 218238 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 218177 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 218116 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 218055 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 217994 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 217933 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 217872 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 217811 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 217750 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 217689 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 217628 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 217567 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 217506 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 217445 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 217384 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 217326 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 217265 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 217204 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 217143 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 217082 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 217021 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 216960 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 216899 29 100.0 11 ............................. CGGCCAGCCAT Deletion [216860] 216859 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 216798 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 216737 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 216676 29 93.1 0 A...........T................ | A [216649] ========== ====== ====== ====== ============================= ================================= ================== 32 29 97.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: 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 236443-234827 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAQ01000004.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM N19983 N19983_R1_contig_4, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 236442 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 236380 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 236319 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 236258 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 236197 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 236136 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 236075 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 236014 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 235953 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 235892 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 235831 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 235770 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 235709 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 235648 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 235587 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 235526 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 235465 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 235404 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 235342 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 235281 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 235220 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 235159 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 235098 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 235037 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 234976 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 234915 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 234854 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], //