Array 1 218445-216547 **** Predicted by CRISPRDetect 2.4 *** >NZ_JABK01000044.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM 17958 17958_R1_trimmed_contig_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 218444 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 218383 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 218322 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 218261 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 218199 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 218138 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 218077 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 218016 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 217955 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 217894 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 217833 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 217772 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 217711 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 217650 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 217589 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 217528 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 217467 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 217406 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 217345 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 217284 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 217226 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 217165 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 217104 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 217043 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 216982 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 216921 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 216860 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 216799 29 100.0 11 ............................. CGGCCAGCCAT Deletion [216760] 216759 29 72.4 32 T.AAA.AG...TG................ ACAGGGTATATGAGCTTATACGTCATGAACCA 216698 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 216637 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 216576 29 93.1 0 A...........T................ | A [216549] ========== ====== ====== ====== ============================= ================================= ================== 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 236160-234727 **** Predicted by CRISPRDetect 2.4 *** >NZ_JABK01000044.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM 17958 17958_R1_trimmed_contig_5, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 236159 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 236097 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 236036 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 235975 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 235914 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 235853 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 235792 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 235731 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 235670 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 235609 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 235548 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 235487 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 235426 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 235365 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 235304 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 235243 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 235182 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 235121 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 235059 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 234998 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 234937 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 234876 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 234815 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 234754 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 24 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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], //