Array 1 239705-238943 **** Predicted by CRISPRDetect 2.4 *** >NZ_QZMP01000003.1 Salmonella enterica subsp. enterica serovar Schwarzengrund strain MDH-15 MDH15_trimmed_contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 239704 29 100.0 32 ............................. GCCGGGGTTTCCCAGAGGCATTCTGATGAAAG 239643 29 100.0 32 ............................. CGAATGCAGATGCCTCCCGTACTGCCGCCGGA 239582 29 100.0 32 ............................. GATTGGCCCTTAGATAACGGGAGATCAAGCGC 239521 29 100.0 32 ............................. CATAACCTTCGCTACCACACTTGCCGGTACTT 239460 29 100.0 32 ............................. CCTTGAGGTTAGGGGAGTCAGGAAATTGCATT 239399 29 100.0 32 ............................. ACAAAATCGGCGGCCCAATCGCCGGCGCTGAC 239338 29 100.0 32 ............................. GCCTGCCGTCTTTTTATTGAGGTCTGTAAACC 239277 29 96.6 32 ............................T TAATCATTTTGTTTAAATCCCGGATCACCTCC 239216 29 100.0 32 ............................. GAGTTATTGTCACTCGTCAGTGATAATTTTCT 239155 29 100.0 32 ............................. CCCGTTGAAGATCTGGACGCATGGGGCAAAGC 239094 29 100.0 32 ............................. GTGAGCTCGGTTTTAATTTCGTCGCTAAGGTG 239033 29 100.0 32 ............................. CAAAAGGCCGACAGTGTGTACACCTCTAAAAA 238972 29 96.6 0 ............T................ | A [238945] ========== ====== ====== ====== ============================= ================================ ================== 13 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGAAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGAAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAATTTAGAGATCTTTAAAAATTAGGAAAAGTTGGTGGTTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : TTTCACCAGCTTATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [2-0] 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 257042-256465 **** Predicted by CRISPRDetect 2.4 *** >NZ_QZMP01000003.1 Salmonella enterica subsp. enterica serovar Schwarzengrund strain MDH-15 MDH15_trimmed_contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 257041 29 100.0 32 ............................. TATACAGGATTCTCACACTTTGGTTTGGTCGA 256980 29 100.0 32 ............................. CGTTTTTTTTATTTGTACTATTGTCAGTACCC 256919 29 100.0 32 ............................. CGGAAACAAACAAAGTTTTGCGCGATTCCACC 256858 29 100.0 32 ............................. CACCAGGTAACAATATCGTCCCCGACCTTTAT 256797 29 100.0 32 ............................. GCGAAATTCCCCAGATACCGCGCATCGGCACT 256736 29 96.6 32 ............T................ CAAAATTAATGTCCAGGACCTTATTAAGTTAC 256675 29 96.6 32 ............T................ CTCGGGGATTTTGTGCCACCCAAAACGCTCGC 256614 29 96.6 32 ............T................ GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 256553 29 96.6 32 .............T............... CCGGATGAAAACGCCTACCCGGAAGACTACGA 256492 28 89.7 0 ............T...........G-... | ========== ====== ====== ====== ============================= ================================ ================== 10 29 97.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CAGCGGGGATAAACCGCGGCGGCGGACGCCGCTCAGATAGCCAAAAC # Right flank : TTGCATAATTATAGTCTGTGTACCAGTAATGGCTGGTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCATTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGACAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCATGTGAAGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.92, # 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 : GTGTTCCCCGCGTCAGCGGGGATAAACCG # 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 [4-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-26.7]%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], //