Array 1 58-1123 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYUO01000122.1 Salmonella enterica subsp. enterica serovar 4,12:d:- strain CVM N30650 N30650_contig_123, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 58 29 100.0 32 ............................. CTGACCTCCTGTTTATCCTGCCCGACGTACAC 119 29 100.0 32 ............................. GCGGTCAACGCTTGACGGCCAAATCATGGCGG 180 29 100.0 32 ............................. CCGCCCGCGTTGCGCAGTATCGGGATTGATAT 241 29 100.0 32 ............................. GCGTTTAACGTACTTTTCCACGCCGTCCGCTA 302 29 100.0 32 ............................. GGGCAATTCGCGGCGGGCGATGTCGCGCAGCG 363 29 100.0 32 ............................. TAAGCAAGGAGTGGAGAAATGATTGATTTTAG 424 29 100.0 32 ............................. ACGGGTATTCCAGATTAATTCCGGTCGGTGTT 485 29 100.0 32 ............................. CCAACGGACAACCAGTGTGCTGGAGTGAGGCG 546 29 100.0 32 ............................. GCGTTGAACTTGATATTCTCTACACCGATGCA 607 29 100.0 32 ............................. TACGGGCGCAAAATCACTGAACATCTGCGCAG 668 29 100.0 32 ............................. CTTCAGCCTGCCATTTTCTCGGACCTGTAGCG 729 29 100.0 32 ............................. TCGGTCAGCTCGCCTTTTCGGGTCCAGGTATC 790 29 100.0 32 ............................. CGCTGGCGCGCCACTGCATCAGTACACGCAGT 851 29 100.0 33 ............................. GCGGCGGCATTGTTCCCGCAGATGGATACCGAC 913 29 100.0 32 ............................. CCGGTAAATCCGGCTTTTTTTACGCCATCTGC 974 29 100.0 32 ............................. TGGACGCCACCACGCTGTCAGAATACCAGTCA 1035 29 100.0 33 ............................. GCGGCGGCATTGTTCCCGCAGATGGATACCGAC 1097 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================= ================== 18 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCCCCGCGCCAGCGGGGATAAACCGATACAAAACCGTTCAGTGGGGAAAGATCTAGTG # Right flank : | # 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: 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 [43.3-0.0]%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 1 268-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYUO01000123.1 Salmonella enterica subsp. enterica serovar 4,12:d:- strain CVM N30650 N30650_contig_124, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 267 25 86.2 32 ----......................... ATCGCTATATTTAGCCCGCAGCTCACTAATAA 210 29 100.0 32 ............................. GTTTTACAACTCAACAGACCATGAAACTGTTC 149 29 100.0 32 ............................. TCGCCGTGAGGCATCCAGATTTAAGCAACTGC 88 29 100.0 32 ............................. CGCATTCATTTTCAGTCTTTATCAATCGCGGG 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 5 29 95.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : | # Right flank : C # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:0.80, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 [1-1] 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 1 202-51 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYUO01000100.1 Salmonella enterica subsp. enterica serovar 4,12:d:- strain CVM N30650 N30650_contig_100, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 201 29 100.0 32 ............................. GCTGGTGGGTCACTATCGGCAAAATTGAACAC 140 29 100.0 32 ............................. GACGAATGATAGTGACATTTATTTTGACGGTC 79 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCGCAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAGGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : GGCACGCGTGCAGGATGCTCCAGACGGCCCCGAGTGTTCCCCGCGCCAGCG # 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: 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 [-14.00,-14.90] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [21.7-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 58-330 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYUO01000133.1 Salmonella enterica subsp. enterica serovar 4,12:d:- strain CVM N30650 N30650_contig_137, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 58 29 100.0 32 ............................. CACCCTGTAAAAATAAATTACTGCCCGTTTTG 119 29 100.0 32 ............................. GGAATTTTAAACAGAAAAAGGTAAATGTATGA 180 29 100.0 32 ............................. GCGAATGGACAGTGCAATTCGGCGATGAAATT 241 29 100.0 32 ............................. CCCCGGCGGGTGCCAGGGCTTGGGAGGTTAGC 302 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 5 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCCCCGCGCCAGCGGGGATAAACCGAAAATGAAAAGCTGGCTAGCGCCGGTGAAATAG # Right flank : GCATTAATCAGCTCAATACGGACGTAGTTCAGGTGTTCCCCGCGCCAGC # Questionable array : NO Score: 6.06 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.8, 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 [41.7-36.7]%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 38706-38917 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYUO01000035.1 Salmonella enterica subsp. enterica serovar 4,12:d:- strain CVM N30650 N30650_contig_35, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 38706 29 100.0 32 ............................. CCTTGTGTTGCTCTTTGAATTGCTGCGCCATA 38767 29 100.0 32 ............................. AGGCGCGGGAGGCGGCAGCGGCGGCGCAGTCC 38828 29 100.0 32 ............................. CAGATGATCATCAAAAATATCTGAACGTCTCA 38889 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 4 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTAATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATGATATACGTTTAGT # Right flank : | # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 5:0, 6:0.25, 7:0.01, 8:0.6, 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 11244-10300 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYUO01000037.1 Salmonella enterica subsp. enterica serovar 4,12:d:- strain CVM N30650 N30650_contig_37, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 11243 29 100.0 32 ............................. CCTCATAATTAGTTAAGTGGTGGCGGTATTGC 11182 29 100.0 32 ............................. CACTGGATTTGAATTATTTATTTCACTTTCAA 11121 29 100.0 32 ............................. CCATTAACGCCGGAAGAGTCTATAGAAAAATT 11060 29 100.0 32 ............................. GCAGGCCGAATAAACGGCTTAGCGGGAATACC 10999 29 100.0 32 ............................. CCGAACAGCAGGCGATGATTGAAGCGTACGCC 10938 29 100.0 32 ............................. TATGGGTATAATTCTCCATTTGTATGCTAATG 10877 29 100.0 32 ............................. GCGTTTTTATCGTGGACGGCGCCAGCAGCGGT 10816 29 100.0 32 ............................. TGGGGTCGGTGTCGGCTATTGTGGCCGATCCG 10755 29 100.0 32 ............................. ATTCCCCAGCCAGTACCCGTGTCAGTGGGCGC 10694 29 100.0 32 ............................. TAACTGGTGAGGGTGAATTTGTTTGCATCCGT 10633 29 100.0 32 ............................. TACGCCGGGATGATTTCAACTACGTTGGACTG 10572 29 100.0 32 ............................. CCCGCGTGACGGTCTGGGGTGATCATTGATAA 10511 29 100.0 32 ............................. GGCTTTTCCTGTCAGGAGTACACAGGGTGGGT 10450 29 100.0 32 ............................. TTGATCCGGGCATTTGAATATTGGGCTAAAGA 10389 29 100.0 32 ............................. CACACCCTGGCTGGCCGGGTCGCTAAACTGTC 10328 29 93.1 0 ...........................AC | ========== ====== ====== ====== ============================= ================================ ================== 16 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCCCCGCGCCAGCGGGGATAAACCGTCTTGTTTGTTTCTGATTCTTTTTCTGAATG # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCAGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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 [2-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [48.3-50.0]%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], //