Array 1 500-43 **** Predicted by CRISPRDetect 2.4 *** >NZ_AHUV01000024.1 Salmonella enterica subsp. enterica serovar Typhimurium str. CDC_2009K1153 SEET1153_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 499 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 438 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 376 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 315 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 254 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 193 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 132 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 71 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 8 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GACGCCCCGAATGTGTTTGCCTCGCCCGCTGCCGTGTTCCCCG # 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: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [21.7-71.7]%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], // Array 2 17332-16632 **** Predicted by CRISPRDetect 2.4 *** >NZ_AHUV01000024.1 Salmonella enterica subsp. enterica serovar Typhimurium str. CDC_2009K1153 SEET1153_1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 17331 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 17270 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 17209 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 17147 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 17086 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 17025 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 16964 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 16903 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 16842 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 16781 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 16720 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 16659 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 12 29 96.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCCGCGCCAGCGGGGATAAACCGCCAGCTTACGCTATTTACGACGTTATTGAGC # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 5.97 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.88, # 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 [6-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-40.0]%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 107066-106200 **** Predicted by CRISPRDetect 2.4 *** >NZ_AHUV01000029.1 Salmonella enterica subsp. enterica serovar Typhimurium str. CDC_2009K1153 SEET1153_24, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 107065 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 107004 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 106943 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 106881 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 106778 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106717 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106656 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106595 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106534 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106473 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106412 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106351 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106290 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106229 29 96.6 0 A............................ | A [106202] ========== ====== ====== ====== ============================= ========================================================================== ================== 14 29 99.5 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GGGGATAAACCGGTCGTTCATCAGGCACTACCGGCACTTTCTG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.01 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.21, 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 [50.0-31.7]%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 1 815-54 **** Predicted by CRISPRDetect 2.4 *** >NZ_AHUV01000050.1 Salmonella enterica subsp. enterica serovar Typhimurium str. CDC_2009K1153 SEET1153_49, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 814 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 753 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 692 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 631 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 570 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 509 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 448 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 387 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 326 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 265 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 204 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 143 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 82 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 13 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTGACGCTGGTCTATACCGGCAACGAACGCGACGTGTTCCCCGCGCCAGCGGGG # Questionable array : NO Score: 6.25 # Score Detail : 1:0, 2:3, 3:0, 4:0.99, 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [28.3-70.0]%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], //