Array 1 395-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHIK01000049.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N46834 N46834_contig_49, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 394 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 333 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 272 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 211 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 150 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 88 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 7 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : C # 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 [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 88302-89472 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHIK01000007.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N46834 N46834_contig_7, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 88302 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 88363 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 88424 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 88485 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 88546 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 88607 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 88668 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 88729 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 88791 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 88894 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 88955 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 89016 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 89077 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 89138 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 89199 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 89260 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 89321 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 89382 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 89443 29 96.6 0 A............................ | A [89469] ========== ====== ====== ====== ============================= ========================================================================== ================== 19 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.14, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-48.3]%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 50-1114 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHIK01000075.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N46834 N46834_contig_75, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 50 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 111 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 172 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 233 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 294 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 355 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 416 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 477 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 538 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 599 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 661 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 722 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 783 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 844 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 905 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 966 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1027 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1088 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 18 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGAACAGGAACAGGAAAAAAAAGATTTGTCCGGTG # Right flank : | # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [1-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [43.3-0.0]%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], //