Array 1 275882-274588 **** Predicted by CRISPRDetect 2.4 *** >NZ_NSCA01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM1799 BCW_7506_1__paired__contig_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 275881 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 275819 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 275758 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 275697 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 275636 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 275575 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 275514 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 275453 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 275392 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 275331 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 275270 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 275209 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 275148 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 275086 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 274983 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 274922 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 274861 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 274800 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 274739 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 274678 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 274617 29 96.6 0 A............................ | A [274590] ========== ====== ====== ====== ============================= ========================================================================== ================== 21 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGTGTGTTCCCCGCGCCAGCGGGGATAAACCGTGAGCAACGACAGTAAATAATTTTTCGTGCTGGTGTTCCCCGCGCCAGCGGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCGCCAGCGGGGATAAACCGCAACCAGGCTGGATCGTAACTCCTATCCCCTC # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.13, 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: F [50.0-33.3]%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 2 294185-292204 **** Predicted by CRISPRDetect 2.4 *** >NZ_NSCA01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO_STM1799 BCW_7506_1__paired__contig_2, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 294184 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 294123 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 294062 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 294001 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 293940 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 293879 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 293818 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 293757 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 293696 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 293635 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 293574 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 293513 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 293452 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 293391 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 293330 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 293269 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 293208 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 293147 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 293086 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 293025 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 292964 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 292903 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 292842 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 292781 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 292719 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 292658 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 292597 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 292536 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 292475 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 292414 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 292353 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 292292 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 292231 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGAGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [10-0] 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], //