Array 1 8568-7319 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCQA01000040.1 Salmonella enterica subsp. enterica serovar Infantis strain SE1017 INFANTIS_S9_trrimed_contig_43, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 8567 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 8505 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 8444 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 8383 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 8322 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 8261 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 8200 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 8139 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 8078 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 8017 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 7956 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 7895 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 7834 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 7773 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 7712 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 7651 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 7590 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 7529 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 7468 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 7407 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 7346 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 21 29 99.0 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], // Array 1 51-1215 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCQA01000049.1 Salmonella enterica subsp. enterica serovar Infantis strain SE1017 INFANTIS_S9_trrimed_contig_55, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 51 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 112 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 173 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 234 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 295 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 356 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 417 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 478 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 536 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 597 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 658 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 719 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 780 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 841 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 902 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 963 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 1064 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 1125 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1186 29 93.1 0 A...........T................ | A [1212] ========== ====== ====== ====== ============================= ======================================================================== ================== 19 29 97.7 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCCAGCGGGGATAAACCGCAATGCCGTTTTGCCCGAGTTTTCACCGCCGTG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.65 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.13, 8:1, 9:0.64, # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [1-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [33.3-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //