Array 1 97918-99044 **** Predicted by CRISPRDetect 2.4 *** >NZ_LIOB01000031.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N51269 N51269_contig_31, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 97918 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 97979 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 98040 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98101 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98162 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98223 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98284 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98345 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98406 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98467 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98528 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98589 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98650 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 98711 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98772 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98833 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98894 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98955 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 99016 29 96.6 0 .............T............... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : ATGCCGGAACGCTGATGGCGTTTGACATGAGCGTGTTCCCCGCGCCAGCG # 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 [70.0-30.0]%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], // Array 1 1-388 **** Predicted by CRISPRDetect 2.4 *** >NZ_LIOB01000051.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N51269 N51269_contig_51, 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 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 300 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 361 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 7 29 93.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 5.76 # Score Detail : 1:0, 2:3, 3:0, 4:0.65, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.85, # 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 [3-6] 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 16521-17385 **** Predicted by CRISPRDetect 2.4 *** >NZ_LIOB01000051.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N51269 N51269_contig_51, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 16521 29 100.0 32 ............................. GTGCCCGTCTGTTCAGAGACAATCTGCCACTG 16582 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 16643 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 16704 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 16765 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 16826 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 16887 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 16948 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 17009 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 17070 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 17132 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 17193 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [17235] 17235 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 17296 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 17357 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 15 29 97.7 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TCTGGTTATAACATCGCAGCAAAATCAAAAGAGTGTTCCCCGCGCCA # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 5:0, 6:0.25, 7:-0.11, 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 [0-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-41.7]%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 50-322 **** Predicted by CRISPRDetect 2.4 *** >NZ_LIOB01000052.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N51269 N51269_contig_52, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 50 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 111 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 172 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 233 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 294 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 5 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGTGACGCTGGTCTATACCGGCAACGAACGCGACG # Right flank : GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGCGTGTTCCCCGCGCCAGCGGGGATAA # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 5:0, 6:0.25, 7:0.01, 8:0.8, 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: R [31.7-43.3]%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], //