Array 1 3978896-3977890 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP077696.1 Salmonella enterica subsp. enterica strain CFSAN058598 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3978895 29 100.0 32 ............................. TAGCTACCTATCTATCAAGGCGATCGCATGAG 3978834 29 100.0 32 ............................. AAACATCCGATCAAATACTGCGTTCGTTTGAG 3978773 29 100.0 32 ............................. CGTATTTTTGAACTGGCCAGCGCCACCGATGC 3978712 29 100.0 32 ............................. GGTTACGCGGGCGTCTGTTAAAGAGTCCTCGT 3978651 29 100.0 32 ............................. GCCGGGGTTTCCCAGAGGCATTCTGATGAAAG 3978590 29 100.0 32 ............................. CGAATGCAGATGCCTCCCGTACTGCCGCCGGA 3978529 29 100.0 32 ............................. GATTGGCCCTTAGATAACGGGAGATCAAGCGC 3978468 29 100.0 32 ............................. CATAACCTTCGCTACCACACTTGCCGGTACTT 3978407 29 100.0 32 ............................. CCTTGAGGTTAGGGGAGTCAGGAAATTGCATT 3978346 29 100.0 32 ............................. ACAAAATCGGCGGCCCAATCGCCGGCGCTGAC 3978285 29 100.0 32 ............................. GCCTGCCGTCTTTTTATTGAGGTCTGTAAACC 3978224 29 96.6 32 ............................T TAATCATTTTGTTTAAATCCCGGATCACCTCC 3978163 29 100.0 32 ............................. GAGTTATTGTCACTCGTCAGTGATAATTTTCT 3978102 29 100.0 32 ............................. CCCGTTGAAGATCTGGACGCATGGGGCAAAGC 3978041 29 100.0 32 ............................. GTGAGCTCGGTTTTAATTTCGTCGCTAAGGTG 3977980 29 100.0 32 ............................. CAAAAGGCCGACAGTGTGTACACCTCTAAAAA 3977919 29 96.6 0 ............T................ | A [3977892] ========== ====== ====== ====== ============================= ================================ ================== 17 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGAAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGAAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAATTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGTTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCACCAGCTTATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-71.7]%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 3996904-3995656 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP077696.1 Salmonella enterica subsp. enterica strain CFSAN058598 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 3996903 29 100.0 32 ............................. CTCCATCAACCATACAGCGGAGAGGATAATCC 3996842 29 96.6 32 ............................A TTAAGGCCAAAAATGGCAATTAGCAGGTTTAC 3996781 29 100.0 32 ............................. TGCGGCAGCGGTGGCTAATATACGGCGCATAG 3996720 29 100.0 32 ............................. CACATGGACATGATCCGACAGTTTCAGACCAT 3996659 29 100.0 32 ............................. TCATGCAGGGCGTGAGCATCAGGGCGACGAAC 3996598 29 100.0 32 ............................. GGACGCTGGCATATACCAGCACCATGACATAG 3996537 29 100.0 32 ............................. CGCAGATGCCCGGCGGCGGCCGTACTCCTGTA 3996476 29 96.6 32 ..........T.................. AATGAGGTAGTCTTCACGCGTCATTGACTGGG 3996415 29 100.0 32 ............................. GCCGCCCGAGAAAAAGCGGATCTGGATTACGC 3996354 29 100.0 32 ............................. TCTGATATCGCTTCTTATGGACAAACGCGCGG 3996293 29 100.0 32 ............................. CGCTGGTAGAGGCGCTGGAGAGGGCGCAGCAG 3996232 29 96.6 32 .................A........... CATTCGCTCAATAGCGGCCCGCGTGGCGGTGA 3996171 29 100.0 32 ............................. CGGCTAAAAGTCGCGCTGGCAAGATGTCAGCG 3996110 29 100.0 32 ............................. GAAGCGCCGCTGGGGCTGGTGGCGGCAGGGTT 3996049 29 100.0 32 ............................. AGCCGTTCCCGTTGAATACGCCGGCGGTTATC 3995988 29 100.0 32 ............................. GCGGATCAGATAGAAAAACTATTCCGACAGTT 3995927 29 100.0 32 ............................. GTCAAGGTGTGTAATTGAGGCATCAAGTTCAG 3995866 29 100.0 32 ............................. CCATTTGCTCGCCGTTCCGGCCGAGTTCTGAG 3995805 29 100.0 32 ............................. GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 3995744 29 96.6 32 ............T................ TACCAACAATTCAGCGTTACGCCAACGGTAAC 3995683 28 86.2 0 ...............A.AA......-... | ========== ====== ====== ====== ============================= ================================ ================== 21 29 98.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCGCGTAACTGGCGTTTGTCGATGCAAACACATAAATATTTAAATATTGCCTGATGCATTACTAATTTTACGGACGGCCTGCCGATGCCGTCTGTGAGTCATCCATTACCTCGCCTTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCATTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGACAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAAGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [5-2] 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], //