Array 1 58-1427 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTV01000090.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N29339 N29339_contig_90, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 58 29 100.0 32 ............................. GCATCGAACCGCTTATCCGTCTGTACCCACTC 119 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 180 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 241 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 302 29 100.0 32 ............................. AATGGGATGTTCTCGATAATGGCGACGACGAA 363 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 424 29 100.0 32 ............................. GACATTTCAGTTTTGAGCATGAACCTGATTCA 485 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGTTGTTTAGTTCCT 546 29 100.0 32 ............................. AAAACCGTACAACAGACAAAATATAAATATTG 607 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 668 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 729 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 790 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 851 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 912 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 973 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 1034 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 1095 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 1156 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 1217 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 1278 29 100.0 32 ............................. GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1339 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1400 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 23 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCCCCGCGCCAGCGGGGATAAACCGTAATGAATCGCCTTTCTAAAATGAAAGACGACG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTGATACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGCCCGGCCAGGATTAAGCCTGTTGGTCGAGGATGAGTCTACGTCGATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAACAGTCGAATCATCTGCCATCCCGATATTGCGCGTGAACGTTATGCGGCAATGACTTTTCTCGGTATTACCCGGAAAATAAAAAAATTGTCGCGTGAGGTGGACTATTCACGCTACCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [0-9] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [46.7-63.3]%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 18109-18623 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTV01000090.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N29339 N29339_contig_90, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 18109 29 100.0 32 ............................. CGACGCTTCCATCGTCTGGCATTCCTGTTCGT 18170 29 100.0 32 ............................. CCCGCGTATTAACAACGACGAGCAGGGCGTGC 18231 29 100.0 32 ............................. GTTGCGCAGCCATTGAGCTGCAAACGGATCAA 18292 29 100.0 32 ............................. CGCCCCCCGCATACAGCGAGAGACGGGCCATG 18353 29 100.0 32 ............................. GCTGAGATAATTGCCGATCATCTTGAAGACAT 18414 29 100.0 32 ............................. AATGATGAGGGGCTGGCAACGTTTAGCGCCAC 18475 29 100.0 32 ............................. CTGGCCACTCAACAGGGAAATATCGCGTGCGC 18536 29 96.6 32 A............................ CCCATCAAGATAAACATCATAGCGAGCACCTG 18597 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 9 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CTTATTGAAGATGTTCTCGCGGCAGGGGAAATTCAACCGCCGTTACCTCCTGAAGATTCACAACCCATAGCGATCCCTCTTCCTGTTGCGTTGGGAGATTCCGGTCATCGGAGTACCTAACGATGAGTATGCTGGTTGTCGTTACCGAAAATGTTCCTCCTCGTCTGCGGGGGAGGCTGGCCGTCTGGTTACTGGAAATTCGAGCTGGTGTGTATGTTGGTGATGTTTCCACAAAGATCCGCGAGATGATATGGCAACAGGTTTCCGTTCTGGCAGATGAGGGAAATGTTGTTATGGCGTGGGCGACAAATACAGAATCAAGTTTTGAGTTTCAGACTTTTGGTGTAAATCGACGTATTCCGGTAGATCTTGATGGACTGCGATTGGTGTCGTTTCTACCTGTTGAAAATCAATAAGTTATAGATCTTTAAAAATTAGGAAAAGTTGGTGGGTTTTTTGTGCGCTAAAAAAGTATTTAAATTCAATTGGGTAGATTTAGA # Right flank : | # 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: 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 [0-2] Score: 0.41/0.41 # 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 [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 59-636 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTV01000026.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N29339 N29339_contig_26, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 59 29 100.0 32 ............................. CGCCTCACTGATATTCTGCGGCGAGCTGAAAA 120 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 181 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 242 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 303 29 100.0 32 ............................. AACGCAGGAGAACCAGCCGCCGGTCATCCTGC 364 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 425 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 486 29 100.0 32 ............................. AAGCCATTGACGCAACGGAAAACGCCAATGCT 547 29 96.6 32 .................A........... GTATGATTTGGACATAGCTAATGATGTAAAGT 608 29 93.1 0 ...........................AC | ========== ====== ====== ====== ============================= ================================ ================== 10 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : TCCCCGCGCCAGCGGGGATAAACCGGCATTAGATTGCGTTGACGGTCACGTTCTTATCG # Right flank : CGTTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTC # 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: 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 [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [41.7-50.0]%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 1 17865-18015 **** Predicted by CRISPRDetect 2.4 *** >NZ_JYTV01000058.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N29339 N29339_contig_58, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 17865 29 100.0 32 ............................. AACTTAACTCCAGCATTCTGGCAATTGTTGCG 17926 29 100.0 32 ............................. GCGACATCAAAATCTATTTTTCATTCTATCTG 17987 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 3 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTCCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : CTCCAGCCACATTGCGGCGCGACCGCTTTTAAGTGTTCCCCGCGCCAGCG # 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 [70.0-28.3]%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], //