Array 1 199704-198654 **** Predicted by CRISPRDetect 2.4 *** >NZ_AUQM01000018.1 Salmonella enterica subsp. enterica serovar Typhimurium str. CDC_2009K1158 isolate 2009K-1158 SEET1158_27, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= =========================================================================== ================== 199703 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 199642 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 199581 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 199520 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 199459 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 199398 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 199337 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 199276 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 199215 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 199153 29 100.0 75 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 199049 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 198988 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 198927 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATAATAAAC 198866 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 198805 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 198744 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 198683 29 96.6 0 A............................ | A [198656] ========== ====== ====== ====== ============================= =========================================================================== ================== 17 29 99.4 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.05 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.17, 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 [50.0-0.0]%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 1 519-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_AUQM01000021.1 Salmonella enterica subsp. enterica serovar Typhimurium str. CDC_2009K1158 isolate 2009K-1158 SEET1158_30, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 518 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 457 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 396 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 335 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT G [318] 273 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 212 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 151 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 90 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 29 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 9 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ACCCTGTTTACGTTT # Right flank : G # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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: F [1-12] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-15.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 153-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_AUQM01000019.1 Salmonella enterica subsp. enterica serovar Typhimurium str. CDC_2009K1158 isolate 2009K-1158 SEET1158_29, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 152 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 91 29 100.0 33 ............................. CCAGTGGGCTAGCCAGCTCATCGCTATTTTGCG 29 29 86.2 0 TGT.C........................ | ========== ====== ====== ====== ============================= ================================= ================== 3 29 95.4 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : G # Questionable array : NO Score: 5.13 # Score Detail : 1:0, 2:3, 3:0, 4:0.77, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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 [1,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,4.87 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 17109-16285 **** Predicted by CRISPRDetect 2.4 *** >NZ_AUQM01000019.1 Salmonella enterica subsp. enterica serovar Typhimurium str. CDC_2009K1158 isolate 2009K-1158 SEET1158_29, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================== ================== 17108 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 17047 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 16986 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 16925 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 16864 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 16802 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 16741 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 16680 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 16619 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 16558 29 100.0 34 ............................. TTTTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 16495 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 16434 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 16373 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 16312 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================== ================== 14 29 97.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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 [6-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-0.0]%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], //