Array 1 1-886 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPP01000108.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-21-13 21_13_contig_108, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================== ================== 1 29 100.0 34 ............................. ATGCCCTGTTCGACGAAAACCCCGCCACGCTGGC 64 29 100.0 33 ............................. TTTCCTGTAACATTCCGATATATAATTCTCCGC 126 29 100.0 32 ............................. GCCCAATTGCCGGCGACGGTTTCCATGTCAGC 187 29 100.0 32 ............................. TGGCGAAACAGGCCAGAGAACGCGAATTGCAG 248 29 100.0 32 ............................. CGTGTTCGATGTAGGTTTCTTCCTGAAGGCGA 309 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAA 370 29 100.0 32 ............................. TTGGCATGGCTGGCGACGTAGCGAACAAAATC 431 29 100.0 32 ............................. CATAAATTACTCGATGCGTACCTGTGAAATCT 492 29 100.0 32 ............................. ATACAGTAGCAAAATAAAAAGGCCGCGTGAGC 553 29 100.0 32 ............................. CAATGCCGTTTTGCCCGAGTTTTCACCGCCGT 614 29 100.0 32 ............................. CTCTATTGCCGGGGGTCGAGATGGCCGCCTGC 675 29 100.0 32 ............................. GTGATCCGCGCCTATGACGCAATGGTAACGAC 736 29 96.6 32 ............................T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 797 29 100.0 32 ............................. CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 858 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================== ================== 15 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GGCGTTTTATTCGACCTGAAAAAATGGATCGTGTGTTCCCCGCGCTAGCGG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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: R [0.0-40.0]%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], // Array 1 396-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPP01000104.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-21-13 21_13_contig_104, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 395 29 100.0 33 ............................. TCGTACACCAGCGCTTTACCGGAGTGTCCGTGC 333 29 100.0 32 ............................. ATCAAATATCAGATAACCCCCGTCGGCAAACC 272 29 100.0 32 ............................. ATCACATTCCTGAAAAATGACTCCCTTAGCGA 211 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 150 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 89 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 28 28 96.6 0 ............................- | ========== ====== ====== ====== ============================= ================================= ================== 7 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAACAGTTTATAAACAACAATATACGTTTAGT # Right flank : C # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [1-0] 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: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 28-1070 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPP01000064.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-21-13 21_13_contig_64, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 28 29 93.1 32 .............C..............T GTAGCGCAGGGACTGGCAACGGTGCCGGGCGT 89 29 96.6 32 .............C............... CAGGAGACGGCCAGCCGCACCGGTGGCGGTGC 150 29 96.6 32 .............C............... GGCGTTTTATTCGACCTGAAAAAATGGATCGT 211 29 100.0 32 ............................. ACATCTCGCGGACAATAGCGATTTCCACCGTC 272 29 100.0 32 ............................. CGTTTCGTTCATTTATTTAGTTTCCTGTTTCG 333 29 96.6 29 ............................C CTTGTTAAATACAGGCGGCGGCGGGGTTG 391 29 100.0 32 ............................. AACGGCGACGGGATCGTTTTTTGTGGCGAAAA 452 29 100.0 32 ............................. CAGGATTGGATTAATGAAGACGGGTACGAAAT 513 29 100.0 32 ............................. AGATTGCAGAATTATATTTCACGCTGGCAGCA 574 29 100.0 32 ............................. CTGTTGTTATGCGTTGGATCGTAATAGTTAAC 635 29 100.0 32 ............................. CTTGGCAGGGCTGCGCCGCAATGGCAGCAACA 696 29 100.0 32 ............................. GTCTTATAAATTGGGCTGATAGTGCCGCTGAT 757 29 96.6 32 .............C............... TACCTGCCGGGACTGGAGTGCAGGTAACCCCA 818 29 96.6 9 .............C............... CGGCCAGCC Deletion [856] 856 29 79.3 32 A.T.AAA.A.................... ACAGGGTATATGAGCTTATACGTCATGAACCA GC [870] 919 29 96.6 32 .............C............... TCGTTGGTGGCGTTCGTCACCTGGCTGTCGGT 980 29 96.6 32 .............C............... AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1041 29 89.7 0 A...........TC............... | A [1067] ========== ====== ====== ====== ============================= ================================ ================== 18 29 96.6 31 GTGTTCCCCGCGCTAGCGGGGATAAACCG # Left flank : CCGCGCCTATGACGCAATGGTAACGACG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACATCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGTAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.66 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 5:0, 6:0.25, 7:-0.11, 8:1, 9:0.69, # 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 : GTGTTCCCCGCGCTAGCGGGGATAAACCG # Alternate repeat : GTGTTCCCCGCGCCAGCGGGGATAAACCG # Directional analysis summary from each method: # Motif ATTGAAA(N) match prediction: NA Score: 0/4.5 # A,T distribution in repeat prediction: NA [5,5] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCTAGCGGGGATAAACCG 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 [3-13] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [18.3-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.28,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-150 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPP01000074.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-21-13 21_13_contig_74, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 29 100.0 32 ............................. CCTCATCGGGAGCCAACGCCGCGAGAATACGC 62 29 96.6 32 ............................C AGCACAATCATTATTAGATGAACTTTCATCAA 123 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 3 29 93.1 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGACCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGTCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATATGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCATGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGATATTACCCGCAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 5.32 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 5:0, 6:0.25, 7:0.02, 8:0.4, 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 [0-6] 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 2 16433-16643 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPP01000074.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-21-13 21_13_contig_74, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 16433 29 100.0 32 ............................. GCGGAATACCACTATATAAAGCCCCTCAACCC 16494 29 100.0 32 ............................. ATTTTTACAAAAACTGGCCCCCTGAATTCATC 16555 29 100.0 32 ............................. TTGATTTTAATGGCGGGCGAATTGTATTTAAC 16616 28 96.6 0 ............................- | ========== ====== ====== ====== ============================= ================================ ================== 4 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTACTCGCTGCCGGTGAAATTAAACCACCTCAGCCTGCGCCGGATATGCTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : | # 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: 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: NA [0-0] Score: 0/0.41 # 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 [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 5-581 **** Predicted by CRISPRDetect 2.4 *** >NZ_NAPP01000084.1 Salmonella enterica subsp. enterica serovar Infantis strain UZH-SAL-21-13 21_13_contig_84, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 5 29 100.0 32 ............................. GAAGATATTGAAAGCGCCCAATCTTCCCAGCT 66 29 100.0 32 ............................. TCCAGCATTGACGCGAACCCTGCGCCGCTGGC 127 29 100.0 32 ............................. GCTGAAATATTGCTATTTCCGAAGGGGCTGAT 188 29 100.0 32 ............................. TCCCGCCTGAACAAAATCGACCACGTTATTAA 249 29 100.0 32 ............................. GCTCCCGCGGGCGCTCCTGTTGGCCAGCATCA 310 29 100.0 32 ............................. CGTCCAATACGAGCTGAGTGCGCACGCCCTTA 371 29 100.0 32 ............................. CAGATCGACCGCCTGGAGGTTGAGGTGGTTGG 432 29 100.0 32 ............................. GCGTGGATTGATTCTGATCGCCGTGGGCGGGC 493 29 100.0 32 ............................. GAAACAGAGATCGCGTCCGATAATGCCGACAT 554 28 96.6 0 ............................- | ========== ====== ====== ====== ============================= ================================ ================== 10 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCGAG # Right flank : | # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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: NA [1.7-0.0]%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], //