Array 1 955299-955509 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP025276.1 Salmonella enterica subsp. enterica serovar Johannesburg strain USDA-ARS-USMARC-60984 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 955299 29 100.0 32 ............................. ACGGAAAAGCTGCTGCTGCTGTTAGCCAGGCC 955360 29 100.0 32 ............................. GGTTGCCTTTACCGTCCAACAATATATTTATA 955421 29 100.0 32 ............................. TACCAACAATTCCGCGTTACGCCAACGGTAAC 955482 28 89.7 0 ............T..........-.G... | ========== ====== ====== ====== ============================= ================================ ================== 4 29 97.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGCTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGTTTGTCGATGCAAACACATAAATATTTAAATATCGCCTGATGCATTACTAATCCTACGGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTGGAATGTAGTGCTGATAAAAAGTAGTTTATAAACAATGATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTTCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTCGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 5.73 # Score Detail : 1:0, 2:3, 3:0, 4:0.87, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 964640-965645 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP025276.1 Salmonella enterica subsp. enterica serovar Johannesburg strain USDA-ARS-USMARC-60984 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 964640 29 100.0 32 ............................. GTGGTGATGGTGCCCGGTCCGGCCGGGTCGCA 964701 29 100.0 32 ............................. TAAACGAAATACGACCAGCAAACGATGCTAAA 964762 29 100.0 32 ............................. TTGAATGCCTCCAGCGCCAGGCCAGTTGTGGT 964823 29 100.0 32 ............................. TATTCCTCGCCGTTACGCGGATGCATGTCGTT 964884 29 100.0 32 ............................. CGGCCCAGGCAGACAGATGGCAGGCGTTCGGA 964945 29 100.0 32 ............................. AGAACAATATTAGACAGCGCGCTATATAAAGA 965006 29 100.0 32 ............................. TTCTGGCTAATGCTCCGATGGCTCCAGTAAAG 965067 29 100.0 32 ............................. TTCTGGCTAATGCTCCGATGGCTCCAGTAAAG 965128 29 100.0 32 ............................. GCAACCGTGTATCGGCTATTCAACGCACTGAA 965189 29 100.0 32 ............................. CGAATCCCCACGGCTTGCAGGTACTGATCAAC 965250 29 100.0 32 ............................. GCAGTTACAGCGCTGGTGCTGGGGCAGAACAT 965311 29 96.6 32 ............................A GGGCGCGCGCGTTGTTGGTGATTCTGCATATT 965372 29 100.0 32 ............................. GTGGGATAACATGAATATTCAGTTTCAAATCG 965433 29 100.0 32 ............................. CCGTTTAATCTCTTCATCTGTGGCAATTTTTA 965494 29 100.0 32 ............................. CATGGCATCTGCCGCTTCTCCGTAACGCTTAA 965555 29 100.0 32 ............................. GCTGGAGTGTTACGCCCTGACTCATAATTTGA 965616 29 96.6 0 ............T................ | A [965643] ========== ====== ====== ====== ============================= ================================ ================== 17 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CAGTGGTTGCTCTAACAGACCGGAGGAAGTGAGGTGGCTTAACCATGGATAACCCGCGTTATCGCTACCACCAGCGCTCATAAATCCCGCGCCATCGCTAAACGCATTAAGTAATTTTTCCCGTAAAGCGGCGGGAAGAGTGGCGCTCAGAATAATAGCGCTACCGCCCTGGGCGGCATGGAAGCGCAATAAACCTTCCAGCAATTTAACCATATAACCATCATAGGCGTGTACTTCATCCAGCAGCAGGATTTTGTCGCGCATCCCTAGCAATCGGAGCGATTGATGGCGAAAAGGCATCACCGCCATTAAGAGTTGATCCAGCGTACCTACGCCGACTTCCGCCAGCAGCGCTTTTTTGCGTGAATCTGCAAACCAGGTATGGCACTCAGTAGTCGCGTTGCCATCATCACGGGCATAATCTTCAGCTATATTTTCTGTTGGCTGCCAGATGGATTGTCGGAAAGAGTCCGACATTTCTCGCCCACCGTGTGCCAGGA # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATTCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGAGGAATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGGTTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [43.3-48.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //