Array 1 2648231-2646333 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP040065.1 Salmonella enterica subsp. enterica serovar Infantis strain SPE55 chromosome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2648230 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 2648169 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 2648108 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 2648047 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 2647985 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 2647924 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 2647863 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 2647802 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 2647741 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 2647680 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 2647619 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 2647558 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 2647497 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 2647436 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 2647375 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 2647314 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 2647253 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 2647192 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 2647131 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 2647070 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 2647012 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 2646951 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 2646890 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 2646829 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 2646768 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 2646707 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 2646646 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 2646585 29 100.0 11 ............................. CGGCCAGCCAT Deletion [2646546] 2646545 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 2646484 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 2646423 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2646362 29 93.1 0 A...........T................ | A [2646335] ========== ====== ====== ====== ============================= ================================= ================== 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 2666129-2664513 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP040065.1 Salmonella enterica subsp. enterica serovar Infantis strain SPE55 chromosome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 2666128 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 2666066 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 2666005 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 2665944 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 2665883 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 2665822 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 2665761 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 2665700 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 2665639 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 2665578 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 2665517 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 2665456 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 2665395 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 2665334 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 2665273 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 2665212 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 2665151 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 2665090 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 2665028 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 2664967 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 2664906 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 2664845 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 2664784 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 2664723 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 2664662 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 2664601 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 2664540 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], //