Array 1 88302-88452 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYWW01000031.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N38234 N38234_contig_31, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 88302 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 88363 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 88424 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : CCGGCATCAGCGCCGATCCGTTCATAGTGCCCGTGTTCCCCGCGCCAGCG # Questionable array : NO Score: 5.67 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.02, 8:0.4, 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: F [70.0-25.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 513-59 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYWW01000067.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N38234 N38234_contig_67, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 512 27 93.1 32 --........................... TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 453 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 392 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 331 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 270 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 209 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 148 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 87 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 8 29 99.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTGACGAGGTGCGAGCGATGGTATCAAGGCCTAGTGTTTCCCGCGCCAGCGGGGATAAA # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [40.0-1.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.68,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1-1186 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYWW01000052.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N38234 N38234_contig_52, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1 28 96.6 32 -............................ AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 61 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 122 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 183 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 244 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 305 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 366 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 427 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 488 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 549 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 610 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 671 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 732 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 793 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 854 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 915 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 976 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1037 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1098 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1159 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 20 29 97.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 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 [2-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [0.0-0.0]%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 17319-17714 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYWW01000052.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N38234 N38234_contig_52, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 17319 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 17380 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 17441 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 17502 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 17563 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 17625 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 17686 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 7 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : | # 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: F [71.7-0.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.51,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //