Array 1 7749-7597 **** Predicted by CRISPRDetect 2.4 *** >NZ_LINT01000003.1 Salmonella enterica subsp. enterica serovar Muenchen strain CVM N48703 N48703_contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 7748 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 7686 29 100.0 32 ............................. GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 7625 29 82.8 0 ............T...........GC.GT | ========== ====== ====== ====== ============================= ================================= ================== 3 29 94.3 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : TGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGCG # Questionable array : NO Score: 5.07 # Score Detail : 1:0, 2:3, 3:0, 4:0.71, 5:0, 6:0.25, 7:0.02, 8:0.4, 9:0.69, # 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 [4,3] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [-6.30,-6.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [61.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.64,4.91 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 30877-29687 **** Predicted by CRISPRDetect 2.4 *** >NZ_LINT01000038.1 Salmonella enterica subsp. enterica serovar Muenchen strain CVM N48703 N48703_contig_38, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 30876 29 100.0 32 ............................. GTTGCACGCATTCCAGTGTGGTTTAAAAAACA 30815 29 100.0 32 ............................. AACAACCCGCTAGTATTACAACGACTAAAAGT 30754 29 100.0 32 ............................. CGGGCGTACACCAGAACGGCTATTCAGGCACG 30693 29 100.0 32 ............................. GCGCAGTATCAGGGAACGGCCGTTATTACGGT 30632 29 100.0 32 ............................. GAGCGTTTAAAAATGCTCGATACGCTCCAGCA 30571 29 100.0 32 ............................. ATTCTTGACTGGCTCGATACGCTCGCATCCAT 30510 29 100.0 32 ............................. ATTCTTGACTGGCTCGATACGCTCGCATCCAT 30449 29 96.6 32 ................A............ TCACAGTTGAGTTTTGCCGAATTTTTCAACAC 30388 29 100.0 32 ............................. GCCGGACTCAACGGCGAGAACGTCGGGGACTT 30327 29 100.0 32 ............................. CAGACTGTGGATCTCAATCGGCCCGGGCAACT 30266 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 30205 29 100.0 33 ............................. CCAGCTTAGGCTATTTACGATGAAATCAATTAC 30143 29 100.0 32 ............................. GGGGAGGGTGAATTTAACGAGCTGTATAAAGC 30082 29 100.0 32 ............................. CAAAAATGATTACTATAATCCCATGTTGAACA 30021 29 100.0 32 ............................. CTTCATCTCGCAGTACGTAAACGCCTGCATCA 29960 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 29899 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 29838 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 29777 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 29716 29 96.6 0 A............................ | A [29689] ========== ====== ====== ====== ============================= ================================= ================== 20 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCTATTATGTTGGTGGAATGTAGTGCTGGTAAAAAGTAGTTTATAAACAATTATATACGTTTAGT # Right flank : TTTCACCAGCATATCAGAACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGTGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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: R [4,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: R [-12.00,-13.50] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [3-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [51.7-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.92 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 6-1437 **** Predicted by CRISPRDetect 2.4 *** >NZ_LINT01000039.1 Salmonella enterica subsp. enterica serovar Muenchen strain CVM N48703 N48703_contig_39, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 6 29 100.0 32 ............................. CGCCCCTCACCACCGTGGCCGCGTGCCGTTCG 67 29 100.0 32 ............................. GCAACTATGTTTAACGCGGCCAATAACGATTT 128 29 100.0 32 ............................. ACCGGGTTGCCGTAGGTGCTGGCCCCCTTGAT 189 29 100.0 32 ............................. ATTTTCCTCTTGATCCGACTGATAAAACAAAC 250 29 100.0 32 ............................. GAACGCACGTCGCACAATACGACGGTTAAAAA 311 29 100.0 32 ............................. CGCGCCACGGGTAAGACCTGGGAAGAGACGAT 372 29 100.0 32 ............................. CTCAAGTAAACGTTAGCACCACGAATATAACC 433 29 100.0 32 ............................. GGCATTGCGTGGTATCGGGTTTGCTAATATTT 494 29 100.0 32 ............................. GCGCCCGTCGGGGGAAGCAAGGCGGACGGGAC 555 29 100.0 32 ............................. TAGTCCATAGCCTCAGCCCGGCTTGTCATCCT 616 29 100.0 32 ............................. ATTACGAGACATTGTGGAAATCCATCTACGGC 677 29 100.0 32 ............................. AGGCGTGCATCAATTGCTATAAAGCCGTAGTC 738 29 100.0 32 ............................. ACTGGTTGAGAAGATCCGCCGCAGAATCAGCG 799 29 100.0 32 ............................. ATCACATCACGCAGATATTATCTCATTACAGC 860 29 100.0 32 ............................. CGCCTACGCCTGGGAGCTAATCCCCGACAGCA 921 29 100.0 32 ............................. CCCGTTCCACGGCGAGAAAACCCCGTCCTGCG 982 29 100.0 32 ............................. CCGTTGACGGCGAGCGCAGACCTCGGAAATAA 1043 29 96.6 32 ............................T TGCCATAGAAGAATCTGACCCTGATAACTGGC 1104 29 100.0 32 ............................. GCGTCCTCGCCAGCGTCAGCCGGGTAATACAA 1165 29 100.0 32 ............................. GCCTGCGTGAAAAACAGGTTCATCAGGATGCC 1226 29 100.0 32 ............................. CTCCTTGAGCAGGGGAAACCCTGCCTTTTCCA 1287 29 100.0 32 ............................. GGCTGAGAAGATCGGCGGGCAAACTGCCTATG 1348 29 100.0 32 ............................. TTTATTCGCCGAAAGAGGGCGACATAGTTATT 1409 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 24 29 99.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TTAGTG # Right flank : AGCCAGGCGTTATCTTCTGGCGTTCTTAGCGGGTGTTCCCCGCGCCAGCGG # 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [6.7-30.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //