Array 1 56-1122 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLD01000048.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N48712 N48712_contig_48, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 56 29 100.0 32 ............................. CGCCCCCCGCATACAGCGAGAGACGGGCCATG 117 29 100.0 32 ............................. CGCCGGGCGCGGGAGTCCCGGGCGATCCTCCC 178 29 100.0 32 ............................. GCCCGAAATCAACTTGCAACATTTCAGTTGGC 239 29 100.0 32 ............................. CATATGATTGACGACAATGAATTTTTTTTCAA 300 29 100.0 32 ............................. ATAGTTCATCTCTGTTCTCCAGCGGTTTCTAT 361 29 100.0 32 ............................. ACGGCATTATCACGGCTATTTCTCTGGAAATG 422 29 100.0 32 ............................. GACAGGACTTACGACCGGCTGGACTACGCATC 483 29 100.0 32 ............................. CCACAGCCGCCGCGACAATAAATTAACTCACT 544 29 100.0 32 ............................. CGCCTCACTGATATTCTGCGGCGAGCTGAAAA 605 29 100.0 32 ............................. CCGGAAAACTATCTCTATCGCAGGCTGGATAT 666 29 100.0 32 ............................. TAAGTTACGCCAGTGCGGGCGTGTTGCTCATC 727 29 100.0 32 ............................. GAGACGCCAGATGAATTCTGCGGGACAAGAGA 788 29 100.0 32 ............................. AACGCAGGAGAACCAGCCGCCGGTCATCCTGC 849 29 100.0 32 ............................. GTCTGACCAGTGGCGTGGGGGGATTGCAATTT 910 29 100.0 32 ............................. CGTGGCTGGAGCAATGAACAGATTAAAGGGGT 971 29 100.0 32 ............................. AAGCCATTGACGCAACGGAAAACGCCAATGCT 1032 29 96.6 32 .................A........... GTATGATTTGGACATAGCTAATGATGTAAAGT 1093 29 100.0 0 ............................. | A [1120] ========== ====== ====== ====== ============================= ================================ ================== 18 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCCGCGCCAGCGGGGATAAACCGGTTGCGCAGCCATTGAGCTGCAAACGGATCAAG # Right flank : GTTTCAACAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTGCCGTTCGGGAAGGATGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACCGATATTCCTGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATACCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # 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: 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: R [35.0-50.0]%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 1 943-1 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLD01000065.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N48712 N48712_contig_65, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 942 29 100.0 32 ............................. AACTTAACTCCAGCATTCTGGCAATTGTTGCG 881 29 100.0 32 ............................. GCGACATCAAAATCTATTTTTCATTCTATCTG 820 29 100.0 32 ............................. CAATGTTTCATGCTACGCAAGAGACCAGAACG 759 29 100.0 32 ............................. TGGTGGAGTGCCGAACCGCTACCGTTTCAAAG 698 29 100.0 32 ............................. TCATGGCGTCATTCGGTACTGATATGCCAATG 637 29 100.0 32 ............................. TCGTTTGTAGCCGAAAACCGGCTGGCGCTGAT 576 29 100.0 32 ............................. TAATGAATCGCCTTTCTAAAATGAAAGACGAC 515 29 100.0 32 ............................. GCATCGAACCGCTTATCCGTCTGTACCCACTC 454 29 100.0 32 ............................. CTTTCATTGCGCAGGGTATGCAGTCGGTTTCC 393 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 332 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 271 29 100.0 32 ............................. AATGGGATGTTCTCGATAATGGCGACGACGAA 210 29 100.0 32 ............................. CGGTCATTTTAAAGAATCCCGTTAAACAACAC 149 29 100.0 32 ............................. GACATTTCAGTTTTGAGCATGAACCTGATTCA 88 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGTTGTTTAGTTCCT 27 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 16 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGCGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATTGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTCCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : C # 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 [0.0-0.0]%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], // Array 1 50-686 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHLD01000173.1 Salmonella enterica subsp. enterica serovar Hadar strain CVM N48712 N48712_contig_173, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 50 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 111 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 172 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 233 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 294 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 355 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 416 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 477 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 538 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 599 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 660 27 93.1 0 ...........................-- | ========== ====== ====== ====== ============================= ================================ ================== 11 29 97.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGCGGAGGATGGAATATTTCCGAGGCTGGCGATTG # Right flank : | # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.89, 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 [1-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [35.0-0.0]%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], //