Array 1 163640-161681 **** Predicted by CRISPRDetect 2.4 *** >NZ_VHMF01000002.1 Salmonella enterica subsp. enterica serovar Infantis strain RS34 scaffold2_size471361, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 163639 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 163578 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 163517 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 163456 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 163394 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 163333 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 163272 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 163211 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 163150 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 163089 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 163028 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 162967 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 162906 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 162845 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 162784 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 162723 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 162662 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 162601 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 162540 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 162479 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 162421 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 162360 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 162299 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 162238 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 162177 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 162116 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 162055 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 161994 29 100.0 11 ............................. CGGCCAGCCAT Deletion [161955] 161954 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 161893 29 100.0 32 ............................. GGCGATGCGGGCGCATTGTACGCGATGCAGAC 161832 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 161771 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 161710 29 93.1 0 A...........T................ | A [161683] ========== ====== ====== ====== ============================= ================================= ================== 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 181538-179922 **** Predicted by CRISPRDetect 2.4 *** >NZ_VHMF01000002.1 Salmonella enterica subsp. enterica serovar Infantis strain RS34 scaffold2_size471361, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 181537 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 181475 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 181414 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 181353 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 181292 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 181231 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 181170 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 181109 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 181048 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 180987 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 180926 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 180865 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 180804 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 180743 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 180682 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 180621 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 180560 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 180499 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 180437 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 180376 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 180315 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 180254 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 180193 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 180132 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 180071 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 180010 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 179949 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], //