Array 1 1-1653 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAY01000020.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM N32590PS N32590PS_R1_contig_27, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 1 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 62 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 123 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 184 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 245 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 306 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 367 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 428 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 489 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 550 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 611 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 672 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 733 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 794 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 855 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 916 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 974 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 1035 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 1096 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 1157 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 1218 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 1279 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 1340 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 1401 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 1502 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 1563 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1624 29 93.1 0 A...........T................ | A [1650] ========== ====== ====== ====== ============================= ======================================================================== ================== 27 29 98.4 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.07 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 5:0, 6:0.25, 7:-0.09, 8:1, 9:0.99, # 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 212-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAY01000012.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM N32590PS N32590PS_R1_contig_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 211 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 150 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 89 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 28 28 96.6 0 ............................- | ========== ====== ====== ====== ============================= ================================ ================== 4 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : C # Questionable array : NO Score: 5.82 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:0.01, 8:0.6, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 17683-16494 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAAY01000012.1 Salmonella enterica subsp. enterica serovar Infantis str. CVM N32590PS N32590PS_R1_contig_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 17682 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 17620 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 17559 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 17498 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 17437 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 17376 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 17315 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 17254 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 17193 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 17132 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 17071 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 17010 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 16949 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 16888 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 16827 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 16766 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 16704 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 16643 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 16582 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 16521 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 20 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], //