Array 1 5475-6479 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHJA01000043.1 Salmonella enterica subsp. enterica serovar Muenchen strain CVM N46855 N46855_contig_43, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 5475 29 100.0 32 ............................. GTTGCACGCATTCCAGTGTGGTTTAAAAAACA 5536 29 100.0 32 ............................. AACAACCCGCTAGTATTACAACGACTAAAAGT 5597 29 100.0 32 ............................. CGGGCGTACACCAGAACGGCTATTCAGGCACG 5658 29 100.0 32 ............................. GCGCAGTATCAGGGAACGGCCGTTATTACGGT 5719 29 100.0 32 ............................. GAGCGTTTAAAAATGCTCGATACGCTCCAGCA 5780 29 100.0 32 ............................. ATTCTTGACTGGCTCGATACGCTCGCATCCAT 5841 29 100.0 32 ............................. ATTCTTGACTGGCTCGATACGCTCGCATCCAT 5902 29 96.6 32 ................A............ TCACAGTTGAGTTTTGCCGAATTTTTCAACAC 5963 29 100.0 32 ............................. GCCGGACTCAACGGCGAGAACGTCGGGGACTT 6024 29 100.0 32 ............................. CAGACTGTGGATCTCAATCGGCCCGGGCAACT 6085 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 6146 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 6207 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 6268 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 6329 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 6391 29 100.0 32 ............................. GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 6452 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 1 1261-3120 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHJA01000014.1 Salmonella enterica subsp. enterica serovar Muenchen strain CVM N46855 N46855_contig_14, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1261 29 100.0 32 ............................. GCTGGCGGTGTACTCATCGCTTTGCACGGTTC 1322 29 100.0 32 ............................. GAACGCACGTCGCACAATACGACGGTTAAAAA 1383 29 100.0 32 ............................. CGCGCCACGGGTAAGACCTGGGAAGAGACGAT 1444 29 100.0 32 ............................. CTCAAGTAAACGTTAGCACCACGAATATAACC 1505 29 100.0 32 ............................. GGCATTGCGTGGTATCGGGTTTGCTAATATTT 1566 29 100.0 32 ............................. GCGCCCGTCGGGGGAAGCAAGGCGGACGGGAC 1627 29 100.0 32 ............................. TAGTCCATAGCCTCAGCCCGGCTTGTCATCCT 1688 29 100.0 32 ............................. ATTACGAGACATTGTGGAAATCCATCTACGGC 1749 29 100.0 32 ............................. AGGCGTGCATCAATTGCTATAAAGCCGTAGTC 1810 29 100.0 32 ............................. ACTGGTTGAGAAGATCCGCCGCAGAATCAGCG 1871 29 100.0 32 ............................. ATCACATCACGCAGATATTATCTCATTACAGC 1932 29 100.0 32 ............................. CGCCTACGCCTGGGAGCTAATCCCCGACAGCA 1993 29 100.0 32 ............................. CCCGTTCCACGGCGAGAAAACCCCGTCCTGCG 2054 29 100.0 32 ............................. CCGTTGACGGCGAGCGCAGACCTCGGAAATAA 2115 29 96.6 32 ............................T TGCCATAGAAGAATCTGACCCTGATAACTGGC 2176 29 100.0 32 ............................. GCGTCCTCGCCAGCGTCAGCCGGGTAATACAA 2237 29 100.0 32 ............................. GCCTGCGTGAAAAACAGGTTCATCAGGATGCC 2298 29 100.0 32 ............................. CTCCTTGAGCAGGGGAAACCCTGCCTTTTCCA 2359 29 100.0 32 ............................. GGCTGAGAAGATCGGCGGGCAAACTGCCTATG 2420 29 100.0 32 ............................. TTTATTCGCCGAAAGAGGGCGACATAGTTATT 2481 29 100.0 32 ............................. AGCCAGGCGTTATCTTCTGGCGTTCTTAGCGG 2542 29 100.0 32 ............................. GTGACAACGGTCCCGGCGCTGGAAAAGGTGAA 2603 29 100.0 32 ............................. CCAGATAGAGGCTTTAACATGAAATCAATTAC 2664 29 100.0 32 ............................. GGGGAGGGTGAATTTAACGAGCTGTATAAAGC 2725 29 100.0 32 ............................. CAAAAATGATTACTATAATCCCATGTTGAACA 2786 29 100.0 32 ............................. CTTCATCTCGCAGTACGTAAACGCCTGCATCA 2847 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 2908 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 2969 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 3030 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 3091 29 96.6 0 A............................ | A [3117] ========== ====== ====== ====== ============================= ================================ ================== 31 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], //