Array 1 1006363-1007548 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP025230.1 Salmonella enterica subsp. enterica serovar Newport str. USDA-ARS-USMARC-1924 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1006363 29 100.0 32 ............................. TGCTGGCGGCAAAAGAACTCGCTAAATGGGAA 1006424 29 100.0 32 ............................. CAGTGCGGCAGCGCGCAATCGAGACACGCCAT 1006485 29 100.0 32 ............................. CACAAAACGCCAGTGGCATGGTACAACCCGTA 1006546 29 100.0 32 ............................. GCGTGACCATGTTTAACTCTAAATCAGGCCGT 1006607 29 96.6 32 ........A.................... TCATGCTTTCGACTAAATACTACCGCGACAAC 1006668 29 100.0 32 ............................. AAAATAACAACATTATCAGTGTGAAAAGTCTC 1006729 29 100.0 32 ............................. AGATATGAAAAACGTAAAAATTTACACCGCCA 1006790 29 100.0 32 ............................. CAATAGGACAGCCATTCGAGCGCCCAGAGTTT 1006851 29 100.0 32 ............................. GTCAGTATGCACTGCTTGATAAAGTCAGGCCA 1006912 29 100.0 32 ............................. AACTAACGTCTATAGCTAAATGTAGAGAAAAC 1006973 29 100.0 32 ............................. CAGTTTGGAGTCAATGTTATTTCTTCAGGTCA 1007034 29 100.0 32 ............................. TCTCGCTGGTTGCTCCAACTCCTGATATGCCG 1007095 29 100.0 32 ............................. TAAAAATCTTCTTTCATATAACCGTAAGGGTT 1007156 29 100.0 32 ............................. AGGGTTTTGTCACCTCAACGGTCGGGAGTGCA 1007217 29 100.0 32 ............................. GTGCAACAGTTTCTTACCGCAAGCAGTTTGAA 1007278 29 100.0 32 ............................. ATCATCGGGATTCATTTTGTTGTCCGGGTGGC 1007339 29 100.0 32 ............................. CGGTGCTCTATGTCTAAAAATAAAAGCGGTTC 1007400 29 93.1 32 ........T...................C AGCACAATCATTATTAGATGAACTTTCATCAA 1007461 28 96.6 32 ............-................ GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 1007521 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCTCTATCAATTTTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTAATGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGGCCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 1024218-1025833 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP025230.1 Salmonella enterica subsp. enterica serovar Newport str. USDA-ARS-USMARC-1924 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1024218 29 100.0 32 ............................. CTGGAACGGCAGTATTTAAAAGGGGTTATTGA 1024279 29 100.0 32 ............................. TGGGCGCCCGGATTGTTTGCGTGCGGCGACGG 1024340 29 100.0 32 ............................. TTGATTTACCCGCCACTTATTCCCCATTGCAT 1024401 29 96.6 32 ..........................T.. GGACTATCAAACCATCTATGATGCCAATTTTA 1024462 29 100.0 32 ............................. CGCGGGGCTGGTATTCGATACAGACCCGGCTA 1024523 29 100.0 32 ............................. GGAATAAAAATGAATTTGAGTCAACTCTATAA 1024584 29 100.0 32 ............................. CGTTAGGCTGCGGTTGGGCACCGAAGAAAAAA 1024645 29 100.0 32 ............................. ATTATCCCGGAAATCGTGATCAACTACGCAGG 1024706 29 100.0 32 ............................. ATTGTTATTGCGGTAACGGATAATTTATCATT 1024767 29 100.0 32 ............................. CCTGGCGATCGCATTTGGGTGCGGGAAACATT 1024828 29 100.0 32 ............................. CCGAATATGGTGATAATGTTGCACCTTCGCTC 1024889 29 100.0 32 ............................. GACTCGGCCTGTTTTTTGATTTTGACAATCAG 1024950 29 100.0 32 ............................. CCAATAACCGACGAGGGCAAACGCCGTGCGCG 1025011 29 100.0 32 ............................. AGGACTGAGGGAATAGGGACCGTAATTGTAAA 1025072 29 100.0 32 ............................. ACAATGTTGCGTCTAATTCTCATTAATTAAAA 1025133 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 1025194 29 100.0 32 ............................. AACAGTGGTTTTAGGTTGTCGGTGCTGATCCC 1025255 29 100.0 32 ............................. ATTAAACAACAGGATTTTGCAATTACTGTTGG 1025316 29 100.0 32 ............................. CAGACGGCAGCAGCGTGAAACACGTCAGTATT 1025377 29 100.0 32 ............................. TCAGCTGTTCCATACTCACCCCCTGTGCAATC 1025438 29 100.0 32 ............................. GCGATGTATGCCGCGACGATCGAGAGCGAACT 1025499 29 100.0 32 ............................. CAGCAGATGAAAAATATTTACAGATTGGTAAA 1025560 29 100.0 32 ............................. AAAAAATCCCGCTGACAATATTTTGCCACCTC 1025621 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 1025682 29 100.0 32 ............................. TTCCAAAGGTACTCCCATATCTCCAGCCAACG 1025743 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 1025804 29 100.0 0 ............................. | A [1025831] ========== ====== ====== ====== ============================= ================================ ================== 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], //