Array 1 1047469-1048473 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP016014.1 Salmonella enterica subsp. enterica serovar Newport strain CFSAN003887 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1047469 29 100.0 32 ............................. GTTGCACGCATTCCAGTGTGGTTTAAAAAACA 1047530 29 100.0 32 ............................. AACAACCCGCTAGTATTACAACGACTAAAAGT 1047591 29 100.0 32 ............................. CGGGCGTACACCAGAACGGCTATTCAGGCACG 1047652 29 100.0 32 ............................. GCGCAGTATCAGGGAACGGCCGTTATTACGGT 1047713 29 100.0 32 ............................. GAGCGTTTAAAAATGCTCGATACGCTCCAGCA 1047774 29 100.0 32 ............................. ATTCTTGACTGGCTCGATACGCTCGCATCCAT 1047835 29 100.0 32 ............................. ATTCTTGACTGGCTCGATACGCTCGCATCCAT 1047896 29 96.6 32 ................A............ TCACAGTTGAGTTTTGCCGAATTTTTCAACAC 1047957 29 100.0 32 ............................. GCCGGACTCAACGGCGAGAACGTCGGGGACTT 1048018 29 100.0 32 ............................. CAGACTGTGGATCTCAATCGGCCCGGGCAACT 1048079 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 1048140 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 1048201 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 1048262 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 1048323 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 1048385 29 100.0 32 ............................. GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 1048446 28 89.7 0 ............T..........-.G... | ========== ====== ====== ====== ============================= ================================= ================== 17 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCTATTATGTTGGTGGAATGTAGTGCTGGTAAAAAGTAGTTTATAAACAATTATATACGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [0-5] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [71.7-63.3]%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 1064742-1066784 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP016014.1 Salmonella enterica subsp. enterica serovar Newport strain CFSAN003887 chromosome, complete genome Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1064742 29 100.0 32 ............................. CCCTCTTTCGCCGCTACCGCAGCTAACAAGAT 1064803 29 100.0 32 ............................. ATTTTCATCGCCAGACCAGGATCGGTGGGGTT 1064864 29 100.0 32 ............................. AAAAATTCGGCGCCAGCATCGCTGCGGATACT 1064925 29 100.0 32 ............................. GCTGGCGGTGTACTCATCGCTTTGCACGGTTC 1064986 29 100.0 32 ............................. GAACGCACGTCGCACAATACGACGGTTAAAAA 1065047 29 100.0 32 ............................. CGCGCCACGGGTAAGACCTGGGAAGAGACGAT 1065108 29 100.0 32 ............................. CTCAAGTAAACGTTAGCACCACGAATATAACC 1065169 29 100.0 32 ............................. GGCATTGCGTGGTATCGGGTTTGCTAATATTT 1065230 29 100.0 32 ............................. GCGCCCGTCGGGGGAAGCAAGGCGGACGGGAC 1065291 29 100.0 32 ............................. TAGTCCATAGCCTCAGCCCGGCTTGTCATCCT 1065352 29 100.0 32 ............................. ATTACGAGACATTGTGGAAATCCATCTACGGC 1065413 29 100.0 32 ............................. AGGCGTGCATCAATTGCTATAAAGCCGTAGTC 1065474 29 100.0 32 ............................. ACTGGTTGAGAAGATCCGCCGCAGAATCAGCG 1065535 29 100.0 32 ............................. ATCACATCACGCAGATATTATCTCATTACAGC 1065596 29 100.0 32 ............................. CGCCTACGCCTGGGAGCTAATCCCCGACAGCA 1065657 29 100.0 32 ............................. CCCGTTCCACGGCGAGAAAACCCCGTCCTGCG 1065718 29 100.0 32 ............................. CCGTTGACGGCGAGCGCAGACCTCGGAAATAA 1065779 29 96.6 32 ............................T TGCCATAGAAGAATCTGACCCTGATAACTGGC 1065840 29 100.0 32 ............................. GCGTCCTCGCCAGCGTCAGCCGGGTAATACAA 1065901 29 100.0 32 ............................. GCCTGCGTGAAAAACAGGTTCATCAGGATGCC 1065962 29 100.0 32 ............................. CTCCTTGAGCAGGGGAAACCCTGCCTTTTCCA 1066023 29 100.0 32 ............................. GGCTGAGAAGATCGGCGGGCAAACTGCCTATG 1066084 29 100.0 32 ............................. TTTATTCGCCGAAAGAGGGCGACATAGTTATT 1066145 29 100.0 32 ............................. AGCCAGGCGTTATCTTCTGGCGTTCTTAGCGG 1066206 29 100.0 32 ............................. GTGACAACGGTCCCGGCGCTGGAAAAGGTGAA 1066267 29 100.0 32 ............................. CCAGATAGAGGCTTTAACATGAAATCAATTAC 1066328 29 100.0 32 ............................. GGGGAGGGTGAATTTAACGAGCTGTATAAAGC 1066389 29 100.0 32 ............................. CAAAAATGATTACTATAATCCCATGTTGAACA 1066450 29 100.0 32 ............................. CTTCATCTCGCAGTACGTAAACGCCTGCATCA 1066511 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 1066572 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 1066633 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 1066694 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 1066755 29 96.6 0 A............................ | A [1066781] ========== ====== ====== ====== ============================= ================================ ================== 34 29 99.7 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGAACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGTGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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: F [71.7-50.0]%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], //