Array 1 219698-218814 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAMQ01000006.1 Salmonella enterica subsp. enterica serovar Newport str. CVM22697 contig_6, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 219697 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 219636 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 219575 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 219514 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 219453 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 219392 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 219331 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 219270 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 219209 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 219148 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 219087 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 219026 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 218965 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 218904 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 218843 29 100.0 0 ............................. | A [218816] ========== ====== ====== ====== ============================= ================================ ================== 15 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [50.0-68.3]%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 237492-236367 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAMQ01000006.1 Salmonella enterica subsp. enterica serovar Newport str. CVM22697 contig_6, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 237491 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 237430 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 237369 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 237308 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 237247 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 237186 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 237125 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 237064 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 237003 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 236942 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 236881 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 236820 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 236759 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 236698 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 236637 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 236576 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 236515 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 236454 28 96.6 32 .............-............... GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 236394 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGGC # Questionable array : NO Score: 6.18 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 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 [8-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [63.3-73.3]%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], //