Array 1 6-646 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRPF01000113.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001369 contig00113, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 6 29 100.0 32 ............................. GTTGTGTGGGTACAGCCGGCCAGCGTCAGCAG 67 29 100.0 32 ............................. TACGAATAAACAGATTTTTGCGATATCTCTGC 128 29 100.0 32 ............................. CAAATGAAAAATGGTTTAAAGGAGGTCTGTAA 189 29 100.0 32 ............................. TTTACCTGGTTCGTCTGGTTCAACTATATCGA 250 29 100.0 32 ............................. ATCGAATGCTTTTGTGTGTTCTGCTGCCACTT 311 29 100.0 32 ............................. GGGGCGTCACCATTTTTGAATTTATCAGCCGC 372 29 100.0 32 ............................. ACCAGGCTACCCGCGCGGTAGTTCGTCGACAG 433 29 100.0 32 ............................. AGCAATGATTGAAAAGCTGGCGATAAACAAGG 494 29 100.0 33 ............................. ATAAATCTAATTTATTTGATTAGTAGTGCTAAA 556 29 100.0 32 ............................. TCGCACAACGCCTGGATATCCGCCCATCGGCC 617 29 96.6 0 ............T................ | A [644] ========== ====== ====== ====== ============================= ================================= ================== 11 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATTTTG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [0-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [8.3-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 185-34 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRPF01000137.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001369 contig00137, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 184 29 100.0 32 ............................. GAATTCGTTATTTTTAAACGAAATCATTATCA 123 29 100.0 32 ............................. AATGCAACTGCAGTATCCTTACGCCCAAAAGC 62 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGCACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GGCAGCTATCGATGAGATGAATAACGCGATTTAG # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [31.7-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 9741-8432 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRPF01000018.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001369 contig00018, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 9740 29 100.0 32 ............................. CGCTACGAACTCTGGCAGAAGAGAGCGTTTAT 9679 29 100.0 32 ............................. AACGCTACCACCCGGCAGTAAAAGAGCCGACG 9618 29 100.0 32 ............................. CAGAACAGGAGCACGTTAGCCGCGTTGCTGAA 9557 29 100.0 32 ............................. GCATTCTTTCAAACGTTACTTCTGCTCGCGCC 9496 29 100.0 32 ............................. TTGTTGCAGGCGGGAGAACGCAGCGCGTACCC 9435 29 100.0 32 ............................. CCTGCCGTCGCCGTCGCCATATCCGGCGCTGT 9374 29 100.0 32 ............................. GGCCACTTATCAGCAAACCGGGCATCCAGAAC 9313 29 100.0 32 ............................. CGAGTCAACAGCGGTAGCCATTGCAGGCATTT 9252 29 100.0 32 ............................. GTTTGCCGTATCTTCGATCATACCGGAACGGT 9191 29 100.0 32 ............................. CTACCAGGCCCGTTTGTCTCAACCATGACCAG 9130 29 100.0 32 ............................. CCACGACTAACCGGTACTAATCCTGAGTTCAT 9069 29 100.0 32 ............................. TATGAGTTTTCAACATCACCAACTAGTCATGT 9008 29 100.0 32 ............................. GCCAAACAGGTTGAGATAGGGCTTCATTATGA 8947 29 100.0 32 ............................. ATGGAACAGGCCCAGGCTGCGCAGCAGCAACA 8886 29 100.0 32 ............................. TCAATAAAATCAATGATAAGCAGTGTCGTTAA 8825 29 100.0 32 ............................. AGAATCGCCAGCGGAAAGAGAAGGGGTTAGCG 8764 29 100.0 32 ............................. CGGGAGCACGGGTGTTGCAGCATTGCAGGAAG 8703 29 100.0 32 ............................. TGCGGCGCGGTAGTTGGCCTACATGATAGCCA 8642 29 100.0 32 ............................. GATGATCGTTTTTTTCGTTACGTCGCGCAAAT 8581 29 100.0 32 ............................. CACCTCAGATGTTTGGGGTGCAATTTGTAATG 8520 29 100.0 32 ............................. AGCGGCTAAACCTGCCGGTTATCGCTGAGCAG 8459 28 89.7 0 ............T...........G-... | ========== ====== ====== ====== ============================= ================================ ================== 22 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCACCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAACCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTGGTGCTGATAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGGGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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: 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], // Array 1 1-333 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRPF01000219.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001369 contig00219, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 28 96.6 32 -............................ TACACACCTAGCAATTAATTACGATTTTGTTT 61 29 100.0 32 ............................. GAGGGTCGGTGCGCGGTATTAAAACACGCTAT 122 29 100.0 32 ............................. TACACCAAATGGGGGCCAGCAAAGAAAATGCT 183 29 100.0 32 ............................. TCGTTTATAGCTGAGAACAAGCTGGCGCTGAT 244 29 100.0 32 ............................. CGCTGGCGCAACGAGTCGTACCTGTACGCCAG 305 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 6 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : ATTCGACGCTCAGGCCGTTCTCTTTTAACC # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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: NA [5,5] 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 [-14.90,-14.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: NA [1-1] Score: 0/0.41 # AT richness analysis in flanks prediction: R [0.0-25.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [4.87,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 16-655 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRPF01000206.1 Salmonella enterica subsp. enterica serovar Tennessee strain CFSAN001369 contig00206, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 16 29 100.0 32 ............................. CTGGCTAATCTGCGTGTTGATGTTGTCCATGC A [39] 78 29 100.0 32 ............................. GTCCCTACAACCGGGACCGCCCGCCCGACCAG 139 29 100.0 32 ............................. CCGAACGCTCAACGGGGAGTGATCGAGAATCT 200 29 100.0 32 ............................. CGATCAGGAAATCAAGGAGAAGCGGGTGCGTA 261 29 100.0 32 ............................. ATGGAGCGCGGTGGTTACATCGGCGTTCCGGA 322 29 100.0 32 ............................. GTCGGGATCTCGACCTTTTCAATTTCTTCTAT 383 29 100.0 32 ............................. TTTGCGACATTTATATTAATGATTATAAATAT 444 29 100.0 32 ............................. ACTTGCTTCATTGACATGCCTGCCACTGCTCC 505 29 100.0 32 ............................. GCGCGCCATTGCTGAGGGTAAACCGGCGATTA 566 29 100.0 32 ............................. CCAGCTCAATTTCGCCAACCTTCGCGCTAATG 627 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 11 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCAATCCAGGATAG # Right flank : TCCGTCTCCGCCAACGCCTTTA # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: 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: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [13.3-15.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0.41 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //