Array 1 1-514 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYXT01000020.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N38903 N38903_contig_20, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 27 89.7 32 --.......................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 60 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 121 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 182 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 243 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 304 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 365 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 426 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 487 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 9 29 95.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.04 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.98, # 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: R [46.7-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 88302-89306 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYXT01000034.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N38903 N38903_contig_34, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 88302 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 88363 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 88424 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 88485 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 88546 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 88607 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 88668 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 88729 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 88790 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 88851 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 88912 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 88973 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 89034 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 89095 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 89156 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 89217 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 89278 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 17 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGCGTGTTCCCCGCGCCAGCGGGGATAA # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-43.3]%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 1-1415 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYXT01000038.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N38903 N38903_contig_38, 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 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 184 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 245 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 306 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 367 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 428 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 489 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 550 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 611 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 672 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 734 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 795 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [837] 837 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 898 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 959 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 1020 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 1081 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 1142 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 1203 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1264 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1325 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 1386 29 96.6 0 A............................ | A [1412] ========== ====== ====== ====== ============================= ================================= ================== 24 29 98.0 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:-0.06, 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 [2-3] 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], //