Array 1 23-905 **** Predicted by CRISPRDetect 2.4 *** >NZ_ARON01000066.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN005 contig7_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 23 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 84 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 145 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 206 29 100.0 32 ............................. TCATGCTTTCGACTAAATACTACCGCGACAAC 267 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 328 29 100.0 32 ............................. TAACCATGGCTAAGAAAAAAACTTACAGGACT 389 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 450 29 100.0 32 ............................. TGAAGAACGGCCAGCCCGTCGAGGTATCAATC 511 29 100.0 32 ............................. CAGGCTGGTGCCATAGTTTTGAGTTTCTACCG 572 29 100.0 32 ............................. TACGGGCATGGACGGCTCGTACAGTTTTGACG 633 29 100.0 32 ............................. TGCTCCGCTTCTGGTAGTGCTTCCAGACCCTC 694 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 755 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 816 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 877 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 15 29 100.0 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : AAAAGAACTCGCTAAATGGGAAG # Right flank : CAGTTTGGAGTCAATGTTATT # 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [23.3-23.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 33-608 **** Predicted by CRISPRDetect 2.4 *** >NZ_ARON01000067.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN005 contig7_5, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 33 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 94 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 155 29 100.0 32 ............................. GGCGCCCGCGTTTCTCGGCTCGGCGCAATATC 216 29 100.0 32 ............................. GTAGTGCAACGCCGGTGATTTTACCAGTATCA 277 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 338 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 399 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 460 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 521 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 581 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 10 29 97.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCTCGCTGGTTGCTCCAACTCCTGATATGCCGG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 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 [0-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [23.3-63.3]%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 10425-11777 **** Predicted by CRISPRDetect 2.4 *** >NZ_ARON01000068.1 Salmonella enterica subsp. enterica serovar Newport str. SHSN005 contig7_6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 10425 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 10486 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 10547 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTTCCCATTGCAT 10608 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 10669 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 10730 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 10791 29 100.0 32 ............................. GCTGAAGCGCCAGGATACCCTGAAACGCTACC 10852 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 10913 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 10974 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 11035 29 96.6 32 ............................A CCAATAACCGAAATATCCACGGTGGAAATTTC 11096 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 11157 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 11218 29 100.0 32 ............................. GGGCGAAAACGCGCTTTGAAATTCGCACGGTC 11279 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 11340 29 100.0 32 ............................. CCGGACGACCCGATGGGGATCCTGCCGTTGCT 11401 29 100.0 32 ............................. GGAGTATTTGAAATGTACTATAAGGACTTCAT 11462 27 69.0 15 ................TTCT--.C.G.T. GCAACGACAGAATGC Deletion [11504] 11504 29 100.0 32 ............................. GGGGCTTGTTAATATTTCTCTCACTGACTACG 11565 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 11626 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 11687 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 11748 29 100.0 0 ............................. | A [11775] ========== ====== ====== ====== ============================= ================================ ================== 23 29 98.4 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.92, 5:0, 6:0.25, 7:-0.05, 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 [1-14] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [68.3-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //