Array 1 976104-977228 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP025237.1 Salmonella enterica subsp. enterica serovar Newport str. USDA-ARS-USMARC-1928 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 976104 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 976165 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 976226 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 976287 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 976348 29 96.6 32 ........A.................... AAAATAACAACATTATCAGTGTGAAAAGTCTC 976409 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 976470 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 976531 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 976592 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 976653 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 976714 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 976775 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 976836 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 976897 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 976958 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 977019 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 977080 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 977141 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 977201 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # 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: 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 [1-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [73.3-63.3]%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], // Array 2 993898-995513 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP025237.1 Salmonella enterica subsp. enterica serovar Newport str. USDA-ARS-USMARC-1928 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 993898 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 993959 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 994020 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 994081 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 994142 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 994203 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 994264 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 994325 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 994386 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 994447 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 994508 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 994569 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 994630 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 994691 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 994752 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 994813 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 994874 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 994935 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 994996 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 995057 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 995118 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 995179 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 995240 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 995301 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 995362 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 995423 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 995484 29 100.0 0 ............................. | A [995511] ========== ====== ====== ====== ============================= ================================ ================== 27 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGTCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCTCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: F [1-1] 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], //