Array 1 518-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCUF02000093.1 Salmonella enterica subsp. enterica serovar London strain HIY0234 NODE_93_length_557_cov_0.860465, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 517 29 100.0 32 ............................. CTCAAGTAAACGTTAGCACCACGAATATAACC 456 29 100.0 32 ............................. GGCATTGCGTGGTATCGGGTTTGCTAATATTT 395 29 100.0 32 ............................. GCGCCCGTCGGGGGAAGCAAGGCGGACGGGAC 334 29 100.0 32 ............................. TAGTCCATAGCCTCAGCCCGGCTTGTCATCCT 273 29 100.0 32 ............................. ATTACGAGACATTGTGGAAATCCATCTACGGC 212 29 100.0 32 ............................. AGGCGTGCATCAATTGCTATAAAGCCGTAGTC 151 29 100.0 32 ............................. ACTGGTTGAGAAGATCCGCCGCAGAATCAGCG 90 29 100.0 32 ............................. ATCACATCACGCAGATATTATCTCATTACAGC 29 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 9 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATAAACCGCGCGCCACGGGTAAGACCTGGGAAGAGACGA # Right flank : G # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [0.0-28.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 29325-28074 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCUF02000009.1 Salmonella enterica subsp. enterica serovar London strain HIY0234 NODE_9_length_137218_cov_23.319080, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 29324 29 96.6 32 ...........................T. CCAGCGGAGAGCGAGCTATACCAGGCTCAATC 29263 29 96.6 32 ...........................T. TCCGGAAAATCTACCGTTCCAGGGCGGGGCCG 29202 29 96.6 32 ...........................T. GGAACCAAGTATACGCGTAGACAGCGTCAACG 29141 29 100.0 32 ............................. GAATTGGCGTATCTGTGTCTTGCCAGACAGGG 29080 29 100.0 32 ............................. CGTAGACCACCTCTTTCGATATGTGAGTGAAG 29019 29 100.0 32 ............................. GTTAGGGAAGGTACTCCTGGCTAATTCTTTTG 28958 29 100.0 32 ............................. ACATAATCCCCATGTACATAATTTATGCTCCG 28897 29 100.0 32 ............................. ATCCAGCAGAGCTACAGGAACGCCGCAAGGCC 28836 29 100.0 32 ............................. TTGATCCGGGCATTTGAATATTGGGCTAAAGA 28775 29 100.0 32 ............................. TTAAATGCATCGCGATCCCTTGCAATTATAAC 28714 29 100.0 32 ............................. CCGGGATCCGTCATCGGTCGTGGTTCACTGCA 28653 29 100.0 33 ............................. GGCACGTTTACCGTTCCGGCTGGGGTTTATCGT 28591 29 100.0 32 ............................. GGCGGATCCACGATAATTTTGTCGTTATGTAT 28530 29 100.0 32 ............................. TCCCCCCGGAGGCTGTACCAAAAATCGTAGAA 28469 29 100.0 32 ............................. GCGCTATTGTATATCGACCATAAACATCGGCT 28408 29 100.0 32 ............................. TCCCTGCTGGCCGTTCTGGAATTGCGTAGCGC 28347 29 100.0 32 ............................. CCGGAGCCTGACCAGGATTTTTCCGCCGTGTA 28286 29 100.0 32 ............................. GAATTGCAGGAGTGGTTTATCGAGTGTTTACA 28225 29 100.0 32 ............................. AATCAACGGATCTTGCTAATGTAGTTTCTGCA 28164 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 28103 29 93.1 0 A...........T................ | A [28076] ========== ====== ====== ====== ============================= ================================= ================== 21 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CGCCTGGTTTGCCGACAGCAATAAAAAAGCGTTGTTGGCGGAGGTTGGTGTAGGCACGTTGGATCAGGCGATGATGGCGGTAATGCCATTTAAACATAACAACCTGCGGTTACTGGGTCTTAGCAACAAGATTTTACTGGCGGATGAGATCCATGCCTGTGATGCATGGATGTCCCGAATACTTGAAGGTTTGATCGAACGGCAGGCCAGTAATGGCAACGCCACTATTCTGTTATCTGCGACGCTATCGCAGCAGCAGCGAGATAAGCTGGTGGCGGCATTTTCCCGTGGGGTGAGGCGTAGTGTGCAGGCGCCGTTGCTAGGCCATGACGATTATCCCTGGCTGACTCAGGTCACACAAACAGAGCTGATTTCTCAGCGGGTTGATACACGCAAAGAGGTTGAGCGTAGCGTAGATATTGGCTGGCTACATAGTGAAGAGTCGTGTCTTGAACGTATAGGTGAAGCAGTGGAAAAAGGAAACTGTATCGCCTGGATAC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [50.0-55.0]%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 2 39614-38732 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCUF02000009.1 Salmonella enterica subsp. enterica serovar London strain HIY0234 NODE_9_length_137218_cov_23.319080, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 39613 29 100.0 32 ............................. GTGGATATGCTGGCCGAGAAGGTTGGAACAGA 39552 29 100.0 32 ............................. GACTACCCGGCATTTGTGGACGCATATCGGCA 39491 29 100.0 32 ............................. CTTCCAGTTTTTTCCCTGCCTTTTGGGCGGCG 39430 29 100.0 32 ............................. TACCTGACGCTGATCCAGTCGATCGCGCTGCT 39369 29 100.0 32 ............................. ATTTTCTTTGCGCCCGTACTCAACGTGGGAGG 39308 29 96.6 32 ............................A TCGCCCCGAGGTCGTTCACGACGTCCTCGTGC 39247 29 100.0 32 ............................. CGTTACTCCAGACAATAGAGCGCCTCACCACT 39186 29 100.0 32 ............................. CATAGGGGCCGCAGAAGTTGCCACAACCACAA 39125 29 100.0 32 ............................. GGGTCAATGTTGATGCCGGGGTGTGTTGTTAC 39064 29 100.0 32 ............................. GGAACTCATGCTTTTACCTGATGCGGCGGCAC 39003 29 96.6 32 ..........T.................. CGAGGCGGCATCAAAGACGACGAAACACCATG 38942 29 100.0 32 ............................. GATTTTCCCGCGTTGGTTGTATGCCGTGCGTG 38881 29 100.0 32 ............................. CGCGTATTAAACGGGCAGATCGAGGAAACAAC 38820 29 100.0 32 ............................. GGCGTGGTGTATATCGGTCTTGATGCGTTGTC 38759 28 93.1 0 ........................G-... | ========== ====== ====== ====== ============================= ================================ ================== 15 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGTGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCTTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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 [3-1] 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], //