Array 1 44818-45517 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEV01000004.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CVM N43829 N43829_contig_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 44818 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 44879 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 44940 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 45001 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 45062 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 45123 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 45184 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 45245 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 45306 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 45367 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 45428 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 45489 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 12 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGACGGTGACGTCAGTGCCGAAGGCGAAATAGTGTTCCCCGCGCCAGC # 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: F [70.0-31.7]%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 1-882 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEV01000058.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CVM N43829 N43829_contig_58, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1 28 96.6 33 -............................ CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 62 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 123 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 184 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 245 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 306 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 367 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 428 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 489 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 550 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 611 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 672 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 733 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 794 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 856 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 15 29 99.1 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 1 379-45 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEV01000078.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CVM N43829 N43829_contig_79, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 378 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 317 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 256 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 195 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 134 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 73 29 96.6 0 .................A........... | ========== ====== ====== ====== ============================= ================================ ================== 6 29 97.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCCCGCGCCAGCGGGGATAAGCCGCGTCACTTTCTGACATTTTATTCAGTTCGTT # Right flank : GGACGAGTTCTGGAAATGGTTAGCTGATAAAGAGTGTTCCCCGCG # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 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: F [1-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [36.7-43.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-516 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHEV01000084.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CVM N43829 N43829_contig_85, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 28 96.6 32 -............................ AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 61 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 122 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 183 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 244 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 305 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 366 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 427 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 488 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 9 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAAATGTTCCCCGCGCCAGCGGGG # 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: 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: R [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-30.0]%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], //