Array 1 163778-161819 **** Predicted by CRISPRDetect 2.4 *** >NZ_VHMA01000004.1 Salmonella enterica subsp. enterica serovar Infantis strain RS38-4 scaffold4_size471499, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 163777 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 163716 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 163655 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 163594 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 163532 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 163471 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 163410 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 163349 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 163288 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 163227 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 163166 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 163105 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 163044 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 162983 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 162922 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 162861 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 162800 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 162739 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 162678 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 162617 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 162559 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 162498 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 162437 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 162376 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 162315 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 162254 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 162193 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 162132 29 100.0 11 ............................. CGGCCAGCCAT Deletion [162093] 162092 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 162031 29 100.0 32 ............................. GGCGATGCGGGCGCATTGTACGCGATGCAGAC 161970 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 161909 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 161848 29 93.1 0 A...........T................ | A [161821] ========== ====== ====== ====== ============================= ================================= ================== 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 181676-180060 **** Predicted by CRISPRDetect 2.4 *** >NZ_VHMA01000004.1 Salmonella enterica subsp. enterica serovar Infantis strain RS38-4 scaffold4_size471499, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 181675 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 181613 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 181552 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 181491 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 181430 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 181369 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 181308 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 181247 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 181186 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 181125 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 181064 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 181003 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 180942 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 180881 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 180820 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 180759 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 180698 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 180637 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 180575 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 180514 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 180453 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 180392 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 180331 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 180270 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 180209 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 180148 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 180087 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], //