Array 1 219460-217562 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCYA02000002.1 Salmonella enterica subsp. enterica serovar Infantis strain HIY0042 NODE_2_length_527278_cov_41.409709, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 219459 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 219398 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 219337 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 219276 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 219214 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 219153 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 219092 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 219031 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 218970 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 218909 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 218848 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 218787 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 218726 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 218665 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 218604 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 218543 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 218482 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 218421 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 218360 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 218299 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 218241 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 218180 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 218119 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 218058 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 217997 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 217936 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 217875 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 217814 29 100.0 11 ............................. CGGCCAGCCAT Deletion [217775] 217774 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 217713 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 217652 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 217591 29 93.1 0 A...........T................ | A [217564] ========== ====== ====== ====== ============================= ================================= ================== 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 237236-235742 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCYA02000002.1 Salmonella enterica subsp. enterica serovar Infantis strain HIY0042 NODE_2_length_527278_cov_41.409709, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 237235 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 237173 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 237112 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 237051 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 236990 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 236929 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 236868 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 236807 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 236746 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 236685 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 236624 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 236563 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 236502 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 236441 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 236380 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 236319 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 236257 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 236196 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 236135 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 236074 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 236013 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 235952 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 235891 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 235830 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 235769 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 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], //