Array 1 172282-170684 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHKK01000022.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N48689 N48689_contig_22, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 172281 28 96.6 32 -............................ AAAATGCAGGTGGGGTAACGAATGCGAGATTG 172221 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 172159 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 172098 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 172037 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 171976 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 171915 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 171854 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 171793 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 171732 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 171671 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 171610 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 171549 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 171488 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 171427 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 171365 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 171262 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 171201 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 171140 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 171079 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 171018 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 170957 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 170896 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 170835 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 170774 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 170713 29 96.6 0 A............................ | A [170686] ========== ====== ====== ====== ============================= ========================================================================== ================== 26 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.10, 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 [3-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [50.0-0.0]%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 1 455-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHKK01000104.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N48689 N48689_contig_104, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 454 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 393 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 332 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 271 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 210 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 149 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 88 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 8 29 97.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGCAGATCCTCAACGGTCAGGCTGTTTAGTTCC # 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 [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-36.7]%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], //