Array 1 1067-1522 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYZJ01000136.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM N42237 N42237_contig_136, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1067 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 1128 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 1189 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 1250 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 1312 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 1373 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 1434 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 1495 28 96.6 0 ............................- | ========== ====== ====== ====== ============================= ================================= ================== 8 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : | # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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: 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 16867-15251 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYZJ01000011.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM N42237 N42237_contig_11, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 16866 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 16804 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 16743 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 16682 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 16621 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 16560 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 16499 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 16438 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 16377 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 16316 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 16255 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 16194 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 16133 29 100.0 32 ............................. AGAATATTCAACTCCAGCGGGAAAAAGACGCA 16072 29 100.0 32 ............................. AACTTTCATCAAACTGGATCGAAGGGCCACTT 16011 29 100.0 32 ............................. CCGGTTTTAGCTCGCTGGAAACCTCGCTTTTG 15950 29 100.0 32 ............................. ACGCCGAGGGTGAATATTTAGACCGGGACGCA 15889 29 100.0 32 ............................. GGATCATCAATGTGGGAAGTTATCACAACGGA 15828 29 100.0 33 ............................. CGAAATTCAGCGTCTGGAATGCAAGGATTTTGT 15766 29 100.0 32 ............................. GCTATATCCCCGAATCGTGCGCTACGTGAAAA 15705 29 100.0 32 ............................. ACGAGGTCATTTTCAGCACTCGTCAGGCGCTG 15644 29 100.0 32 ............................. ATGCCCTGTTCGGCAAAATCCCGCCACGCTGG 15583 29 100.0 32 ............................. TAAAACCGGTGCTGGATTTTGATGAAGACGAA 15522 29 100.0 32 ............................. CCATTCAACATCGCACTTAAGAACTTGTGCCA 15461 29 100.0 32 ............................. CGATATTTATCCAGACTGTCGGACAGGGTGGT 15400 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 15339 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 15278 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], // Array 1 1-1348 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYZJ01000006.1 Salmonella enterica subsp. enterica serovar Infantis strain CVM N42237 N42237_contig_6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 1 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 62 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 123 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 184 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 245 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 306 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 367 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 428 29 100.0 32 ............................. GGCGTTTTATTCGACCTGAAAAAATGGATCGT 489 29 96.6 32 .............T............... ACATCTCGCGGACAATAGCGATTTCCACCGTC 550 29 96.6 32 .............T............... CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 611 29 93.1 29 .............T..............C CTTGTTAAATACAGGCGGCGGCGGGGTTG 669 29 96.6 32 .............T............... AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 730 29 96.6 32 .............T............... CAGGATTGGATTAATGAAGACGGGTACGAAAT 791 29 96.6 32 .............T............... AGATTGCAGAATTATATTTCACGCTGGCAGCA 852 29 96.6 32 .............T............... CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 913 29 96.6 32 .............T............... CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 974 29 96.6 32 .............T............... GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 1035 29 100.0 32 ............................. TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 1096 29 100.0 72 ............................. CGGCCAGCCATTTAAACAGCGCTGCAGCGGGGATAAACCGACAGGGTATATGAGCTTATACGTCATGAACCA 1197 29 100.0 32 ............................. TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 1258 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1319 29 93.1 0 A...........T................ | A [1345] ========== ====== ====== ====== ============================= ======================================================================== ================== 22 29 98.0 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.83 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:-0.11, 8:1, 9:0.79, # 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: 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], //