Array 1 1-1003 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHIW01000011.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N46851 N46851_contig_11, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1 27 93.1 32 --........................... AAAATGCAGGTGGGGTAACGAATGCGAGATTG 60 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 122 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 183 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 244 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 305 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 366 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 427 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 488 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 549 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 610 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 671 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 732 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 793 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 854 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 916 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 977 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 17 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : | # 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: 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 [1-1] 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: F [5.24,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-577 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHIW01000040.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N46851 N46851_contig_40, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 27 93.1 32 --........................... AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 60 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 121 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 182 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 243 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 304 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 365 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 426 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 487 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 548 29 96.6 0 A............................ | A [574] ========== ====== ====== ====== ============================= ================================ ================== 10 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [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], // Array 1 1-881 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHIW01000012.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N46851 N46851_contig_12, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 27 93.1 32 --........................... GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 60 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 121 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 182 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 243 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 304 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 365 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 426 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 487 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 548 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 609 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 670 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 731 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 792 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 853 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 15 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGCGTGTTCCCCGCGCCAGCGGGGATA # 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: 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 [1-2] Score: 0/0.41 # AT richness analysis in flanks prediction: R [0.0-41.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-267 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHIW01000164.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N46851 N46851_contig_165, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 23 79.3 32 ------....................... TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 56 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 117 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 178 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 239 29 96.6 0 .................A........... | ========== ====== ====== ====== ============================= ================================ ================== 5 29 93.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GACGAGTTCTGGAAATGGTTAGCTGATAAAGAGTGTTCCCCGCG # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:0.69, 5:0, 6:0.25, 7:0.01, 8:0.8, 9:0.92, # 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 [-10.50,-8.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [2-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-36.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.68 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //