Array 1 443-6 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYQF01000104.1 Salmonella enterica strain CVM 43762 43762_contig_104, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 442 28 96.6 32 -............................ CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 382 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 320 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 217 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 156 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 95 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 34 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ========================================================================== ================== 7 29 99.5 39 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GTGACG # Questionable array : NO Score: 5.71 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.51, 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: NA [3.3-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 507-51 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYQF01000105.1 Salmonella enterica strain CVM 43762 43762_contig_105, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 506 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 445 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 384 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 323 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 262 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 201 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 140 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 79 29 96.6 0 .............T............... | ========== ====== ====== ====== ============================= ================================ ================== 8 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCCAGCGGGGATAAACCGGCAGCGGTTGAGTAACTCCTCGTCCACGTCG # Right flank : GATGCCGGAACGCTGATGGCGTTTGACATGAGCGTGTTCCCCGCGCCAGCG # Questionable array : NO Score: 6.24 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 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 [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [30.0-31.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 5523-6161 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYQF01000076.1 Salmonella enterica strain CVM 43762 43762_contig_76, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 5523 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 5584 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 5645 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 5706 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 5767 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 5828 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 5889 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 5950 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 6011 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 6072 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 6133 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 11 29 100.0 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # 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 [70.0-0.0]%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], // Array 1 50-871 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYQF01000074.1 Salmonella enterica strain CVM 43762 43762_contig_74, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 50 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 111 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 172 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 233 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 294 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 356 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 417 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 478 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 539 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 600 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 661 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 722 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 783 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 844 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 14 29 97.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGTGACGCTGGTCTATACCGGCAACGAACGCGACG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.11 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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 [2-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [31.7-63.3]%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], // Array 2 17004-17154 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYQF01000074.1 Salmonella enterica strain CVM 43762 43762_contig_74, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 17004 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 17065 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 17126 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : ATATTCGCCGCTTTCCATTTACCGAACGTAACGTGTTCCCCGCGCCAGCG # 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 [71.7-36.7]%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], //