Array 1 6242-6636 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRYA01000089.1 Salmonella enterica strain 07 Contig_89, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 6242 29 100.0 32 ............................. TCACTATGTTAGGTATTTTCAAAAAGAAAGCT 6303 29 100.0 32 ............................. TGGGCAAAGTCTGGTTGTGTTATTGGAAGACT 6364 29 100.0 32 ............................. CGCAAGAAAGAGAGCAGTTTGCTCACTACCGG 6425 29 100.0 32 ............................. TAGTCGCAATCGACTTTATTCAGTAATCAATA 6486 29 100.0 32 ............................. AAAAGTTACCGTTCCCCCCGTTTCAGAGAACA 6547 29 96.6 32 ............................A GTACCATCCTCATATCGTTTTTGAGTTATATC 6608 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 7 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GGACGGGTAACAGCGTGCTTGGTTCTGGTAACGTGTTCCCCGCGCCAGCGG # 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-30.0]%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], // Array 1 456-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRYA01000100.1 Salmonella enterica strain 07 Contig_100, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 455 29 100.0 32 ............................. GGAGAGCGCCTTTTTGATAGCGTCAGTCAGGG 394 29 100.0 32 ............................. CAAATGAAAAATGGTTTAAAGGAGGTCTGTAA 333 29 100.0 32 ............................. CTCGGCATTCGCGCAACAACCCTGGTTGTCCC 272 29 100.0 32 ............................. GCGTACGGGGCTAACCCGTTCCAGTTGCTGCC 211 29 100.0 32 ............................. ATATCAGACTCGGAGCGCTTAACTTTGAGTGC 150 29 100.0 32 ............................. CGCGATTTAACATTGATTCAAAAGGGGAATGT 89 29 96.6 32 ............................A CCCATGAGCTGATCCGCAAGGCTGGCCGCAAC 28 28 96.6 0 ............................- | ========== ====== ====== ====== ============================= ================================ ================== 8 29 99.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : C # Questionable array : NO Score: 6.22 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 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: NA [0.0-0.0]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 392-58 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRYA01000103.1 Salmonella enterica strain 07 Contig_103, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 391 29 100.0 32 ............................. GTCTTTTTCCCTGCCCATCTTTCAGCTTCTAA 330 29 100.0 32 ............................. AATCGCGCGCGCTGGCAGGGGAAATGATGGTC 269 29 100.0 32 ............................. CGGGGGTTTCCACTCAAATACAGGTAGAACCA 208 29 100.0 32 ............................. GTTCCGTGTCATTTTTATCGCCAGCACGCCGT 147 29 100.0 32 ............................. GTGCTCCAGTGGGCTGCTAAGGGGCTTGGTGG 86 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 6 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGGCGACCTGACTGAATCTCCTTTTTCAGTTGG # Right flank : GAGTGAGCAGGAGCGCAACGTTTATCAGCTTATGTGTTCCCCGCGCCAGCGGGGATAA # 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: NA [41.7-36.7]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 750-50 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRYA01000041.1 Salmonella enterica strain 07 Contig_41, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 749 29 100.0 32 ............................. TGCCTCAAGATTTTGAGCGGACGGGAGCTGGC 688 29 100.0 32 ............................. GATGCATGGGAGCACGGTAAACCACTGGCGCA 627 29 100.0 32 ............................. CGCATATAAAGCTGGCCTTACCGCTGGCTGGA 566 29 100.0 32 ............................. CCATACCATTTCCACTGGCGCAACGATTTTTG 505 29 100.0 32 ............................. CGGGTGATTTTAATGATGTGCTGACTACCGGC 444 29 100.0 32 ............................. ATAACGACCTTGAGACGGTCTCAGTTCGCTGG 383 29 100.0 32 ............................. AGAATGTTCAGAACGATTATATTTTGATTTGT 322 29 100.0 32 ............................. GAAATGGCGATAGGCTTAGAAACGGTGCTGTC 261 29 100.0 32 ............................. GGGCTCATAAGTATTTCACTGACTGACTACGG 200 29 100.0 32 ............................. GCGCTAACCCGCGTCATTTCATCTGACACGCC 139 29 100.0 32 ............................. CTATTTACCACGTATTTATCAGTTCGACAAAA 78 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 12 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACTTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGATAAAAAATAGTTTATAAACAACAATATACGTTTAGT # Right flank : GGAGGGGAATCACCGCCTCGCCGAGCGCTACGCGTGTTCCCCGCGCCAGC # 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 [21.7-73.3]%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 10656-10323 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRYA01000052.1 Salmonella enterica strain 07 Contig_52, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 10655 29 100.0 32 ............................. GATGTAACGTCTCTCACCTGGCCCGGCGTAAC 10594 29 89.7 32 A...C.......T................ GGAATATGAAAATTATTATTTTTGCAACTGCA 10533 29 100.0 32 ............................. CGTTTCTCACCTTTTATTCCACAGCAGACGAT 10472 29 96.6 32 .................A........... GCCCGATCCCATCCTGGTATCGAGCCTCTGAA 10411 29 100.0 32 ............................. GGGATCGCGCTGGCGGTCGCATCCGTTGCCGT 10350 28 86.2 0 .........A..T...........G-... | ========== ====== ====== ====== ============================= ================================ ================== 6 29 95.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGTTTCCGCAGATAGCTGCGAACGCCGGTTATT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCTGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGCGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGAAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.03 # Score Detail : 1:0, 2:3, 3:0, 4:0.77, 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 [1,5] Score: 0.37/0.37 # Reference repeat match prediction: R [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: NA [0.00,-0.50] Score: 0/0.37 # Array degeneracy analysis prediction: R [4-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-41.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.28 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 934-51 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRYA01000072.1 Salmonella enterica strain 07 Contig_72, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 933 29 100.0 32 ............................. CAGCGACACCACCCGCCCGGGGACATTGCGCA 872 29 100.0 32 ............................. AGCTGTCGCCTGGCGAGTGCTCGACGCTCAAT 811 29 100.0 32 ............................. AGTAGAGCTGACCGTTTCGCTGATTGCGCTGA 750 29 100.0 32 ............................. GTTTTGCGCCGCCATACCTGCCTGACCAACGG 689 29 96.6 32 ..............T.............. GTGGGGCGGACAGGCTGCCAGAGGCATTGGAT 628 29 100.0 32 ............................. TTTGGGAGGATCGTCAGGGACTCCCGCGCCCG 567 29 100.0 32 ............................. GCGTGCGCCGGGATATTGCGCCGCGCCGAGAA 506 29 100.0 32 ............................. AATGGTCCGCAGCTCTGCGCGCAACGCCCGGT 445 29 100.0 32 ............................. CGCAGAAATCCGTAATCGCATGGATCAAAAGT 384 29 100.0 32 ............................. GCGTTGGCGTCGCCCAACACCATCGCCGGGGC 323 29 100.0 32 ............................. AACGCTGCTGGCAGTCTGACCCTATTGATTAA 262 29 100.0 32 ............................. AGGCACTGAATCATGAAAATCAGCCCTCCAAT 201 29 100.0 32 ............................. AACTAAACGCACCAATCAGAGGGCTTTTTGAT 140 29 100.0 32 ............................. GCCGGCGGCAGTGGTTAATATCAGAAATAAGG 79 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 15 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : GGAGGTTTGGCTGAATTTTTGGTGTGGGCTGGAGTGTTCCCCGCGCCAGCG # 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: 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 [33.3-0.0]%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 1 761-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LRYA01000073.1 Salmonella enterica strain 07 Contig_73, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 760 29 100.0 32 ............................. CAACATAGCTCGTAGTTTCTTAAAGGTGATTT 699 29 100.0 32 ............................. AGTTAATCGCTATCGATGCAGGGGGCGATTTT 638 29 100.0 32 ............................. TTTGCAAATCTCACCACATACCAGGCGCGACA 577 29 96.6 32 ............................T TGTCTGTAACTCATGCCTTCCCTCATCTGGCC 516 29 100.0 32 ............................. GATACTGATGGTGGCAAGCTGCCTACTTTTAA 455 29 100.0 32 ............................. GAGTGGAATCCTCAATATCCAAACGGGGAATT 394 29 100.0 32 ............................. TACAGTAAAACGCTAAACTTTTTTATTGTCGC 333 29 100.0 32 ............................. CGCCGCTGGTGCAGACGCCGCGCCAGCCGTCA 272 29 100.0 32 ............................. CAACGATTTAGCCCCGACATTTGACACTATGC 211 29 100.0 32 ............................. GTTTCGTTTTTATTGCAGCTAATAACGACAGC 150 29 100.0 32 ............................. AAAAAAGCGCCCGCATGATGGCGCGGTTACTT 89 29 100.0 32 ............................. CAGACGAAAATCAGCCCGCATATTCCGACACA 28 28 96.6 0 ............................- | ========== ====== ====== ====== ============================= ================================ ================== 13 29 99.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCCAGCGGGGATAAACCGAGGCCGGGTTTTTTGATGGTGTGGTGATGGC # Right flank : C # 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 [1-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [0.0-35.0]%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], //