Array 1 51-322 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYYR01000117.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N40416 N40416_contig_117, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 51 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 112 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 173 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 234 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 296 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 5 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCCAGCGGGGATAAACCGTGGATTATCTGTATTTTACGGAAGTGGGCGCGG # Right flank : | # 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: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [38.3-0.0]%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], // Array 1 106886-106307 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYYR01000014.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N40416 N40416_contig_14, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 106885 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106824 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106763 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106702 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106641 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106580 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106519 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106458 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106397 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106336 29 96.6 0 A............................ | A [106309] ========== ====== ====== ====== ============================= ================================ ================== 10 29 99.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGAATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGAT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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: F [50.0-38.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1188-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYYR01000015.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N40416 N40416_contig_15, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1187 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 1126 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 1065 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 1004 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 943 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 882 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 821 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 760 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 699 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 638 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 576 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 515 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 454 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 393 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 332 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 271 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 210 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 149 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 88 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 20 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGAACAGGAACAGGAAAAAAAAGATTTGTCCGG # Right flank : C # 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: 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 [5-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-43.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //