Array 1 442-47 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXRH01000020.1 Salmonella enterica subsp. enterica serovar Muenchen strain BCW_3981 NODE_20_length_94902_cov_3.97997, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 441 29 100.0 32 ............................. GTTGCACGCATTCCAGTGTGGTTTAAAAAACA 380 29 100.0 32 ............................. AACAACCCGCTAGTATTACAACGACTAAAAGT 319 29 100.0 32 ............................. CGGGCGTACACCAGAACGGCTATTCAGGCACG 258 29 100.0 32 ............................. GCGCAGTATCAGGGAACGGCCGTTATTACGGT 197 29 100.0 32 ............................. GAGCGTTTAAAAATGCTCGATACGCTCCAGCA 136 29 100.0 32 ............................. ATTCTTGACTGGCTCGATACGCTCGCATCCAT 75 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 7 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTTATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCGCGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCTATTATGTTGGTGGAATGTAGTGCTGGTAAAAAGTAGTTTATAAACAATTATATACGTTTAGT # Right flank : GATTCTTGACTGGCTCGATACGCTCGCATCCATGTGTTCCCCGCGCC # 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: 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [31.7-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 438-43 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXRH01000055.1 Salmonella enterica subsp. enterica serovar Muenchen strain BCW_3981 NODE_55_length_10523_cov_3.66529, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 437 29 100.0 32 ............................. CCCTCTTTCGCCGCTACCGCAGCTAACAAGAT 376 29 100.0 32 ............................. ATTTTCATCGCCAGACCAGGATCGGTGGGGTT 315 29 100.0 32 ............................. AAAAATTCGGCGCCAGCATCGCTGCGGATACT 254 29 100.0 32 ............................. GCTGGCGGTGTACTCATCGCTTTGCACGGTTC 193 29 100.0 32 ............................. GAACGCACGTCGCACAATACGACGGTTAAAAA 132 29 100.0 32 ............................. CGCGCCACGGGTAAGACCTGGGAAGAGACGAT 71 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 7 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTTGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCTTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTTAGATTAGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GCTCAAGTAAACGTTAGCACCACGAATATAACCGTGTAGATCG # 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: NA [5,5] 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 [-14.00,-14.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [40.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.55 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 6677-6221 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXRH01000057.1 Salmonella enterica subsp. enterica serovar Muenchen strain BCW_3981 NODE_57_length_6707_cov_3.54885, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 6676 29 96.6 32 ................A............ TCACAGTTGAGTTTTGCCGAATTTTTCAACAC 6615 29 100.0 32 ............................. GCCGGACTCAACGGCGAGAACGTCGGGGACTT 6554 29 100.0 32 ............................. CAGACTGTGGATCTCAATCGGCCCGGGCAACT 6493 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 6432 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 6371 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 6309 29 100.0 32 ............................. GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 6248 28 89.7 0 ............T...........G-... | ========== ====== ====== ====== ============================= ================================= ================== 8 29 98.3 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TTCTTGACTGGCTCGATACGCTCGCATCCA # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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: F [63.3-25.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 41-374 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXRH01000076.1 Salmonella enterica subsp. enterica serovar Muenchen strain BCW_3981 NODE_76_length_427_cov_2.73295, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 41 29 100.0 32 ............................. GGCATTGCGTGGTATCGGGTTTGCTAATATTT 102 29 100.0 32 ............................. GCGCCCGTCGGGGGAAGCAAGGCGGACGGGAC 163 29 100.0 32 ............................. TAGTCCATAGCCTCAGCCCGGCTTGTCATCCT 224 29 100.0 32 ............................. ATTACGAGACATTGTGGAAATCCATCTACGGC 285 29 100.0 32 ............................. AGGCGTGCATCAATTGCTATAAAGCCGTAGTC 346 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 6 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ATAAACCGCTCAAGTAAACGTTAGCACCACGAATATAACCG # Right flank : ACTGGTTGAGAAGATCCGCCGCAGAATCAGCGGTGTTCCCCGAGATCGGAAGA # 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: NA [40.0-38.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.24,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 20-1086 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXRH01000008.1 Salmonella enterica subsp. enterica serovar Muenchen strain BCW_3981 NODE_8_length_164394_cov_4.50393, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 20 29 100.0 32 ............................. CCGTTGACGGCGAGCGCAGACCTCGGAAATAA 81 29 96.6 32 ............................T TGCCATAGAAGAATCTGACCCTGATAACTGGC 142 29 100.0 32 ............................. GCGTCCTCGCCAGCGTCAGCCGGGTAATACAA 203 29 100.0 32 ............................. GCCTGCGTGAAAAACAGGTTCATCAGGATGCC 264 29 100.0 32 ............................. CTCCTTGAGCAGGGGAAACCCTGCCTTTTCCA 325 29 100.0 32 ............................. GGCTGAGAAGATCGGCGGGCAAACTGCCTATG 386 29 100.0 32 ............................. TTTATTCGCCGAAAGAGGGCGACATAGTTATT 447 29 100.0 32 ............................. AGCCAGGCGTTATCTTCTGGCGTTCTTAGCGG 508 29 100.0 32 ............................. GTGACAACGGTCCCGGCGCTGGAAAAGGTGAA 569 29 100.0 32 ............................. CCAGATAGAGGCTTTAACATGAAATCAATTAC 630 29 100.0 32 ............................. GGGGAGGGTGAATTTAACGAGCTGTATAAAGC 691 29 100.0 32 ............................. CAAAAATGATTACTATAATCCCATGTTGAACA 752 29 100.0 32 ............................. CTTCATCTCGCAGTACGTAAACGCCTGCATCA 813 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 874 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 935 29 100.0 32 ............................. GCAGAAACAGAAACCGGATATGAGCCATCCAT 996 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGGCAAGGGCTGAAAA 1057 29 96.6 0 A............................ | A [1083] ========== ====== ====== ====== ============================= ================================ ================== 18 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TAGAAAACCCCGTCCTGCGG # Right flank : GTTTCACCAGCATATCAGAACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGTGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCAGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATCACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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 [1-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [13.3-50.0]%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], //