Array 1 32446-31702 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCIU01000097.1 Salmonella enterica subsp. enterica serovar Typhimurium strain PRK482 TYPHIMURIUM_S15_trimmed_contig_104, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 32445 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 32384 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 32323 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 32262 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 32200 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 32097 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 32036 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 31975 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 31914 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 31853 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 31792 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 31731 29 96.6 0 A............................ | A [31704] ========== ====== ====== ====== ============================= ========================================================================== ================== 12 29 99.4 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGTGAGCAACGACAGTAAATAATTTTTCGTGCT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.97 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.25, 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 [3-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [50.0-43.3]%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 50-694 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCIU01000183.1 Salmonella enterica subsp. enterica serovar Typhimurium strain PRK482 TYPHIMURIUM_S15_trimmed_contig_193, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ===================================== ================== 50 29 93.1 32 .C.A......................... GACGTTACCCCATACATGATCCGGGGAGTTCT 111 29 96.6 37 ...............A............. CAGAAAATCCCGCAACCAGTCAAACTGTTTAGCTCCT 177 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 238 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 299 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 360 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 421 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 483 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 544 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 605 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 666 29 93.1 0 A............T............... | ========== ====== ====== ====== ============================= ===================================== ================== 11 29 97.2 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGCTCATCCCACGATAAAAACCGTTCACCTACCGG # Right flank : GGATATGTGAAGTTCAGGTAGCCCATTACGCAGTGTTCCCCGCGCCAGC # Questionable array : NO Score: 5.91 # Score Detail : 1:0, 2:3, 3:0, 4:0.86, 5:0, 6:0.25, 7:0.01, 8:1, 9:0.79, # 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 [3-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [36.7-35.0]%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 8219-7093 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCIU01000157.1 Salmonella enterica subsp. enterica serovar Typhimurium strain PRK482 TYPHIMURIUM_S15_trimmed_contig_167, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 8218 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 8157 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 8096 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 8035 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 7974 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 7913 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 7852 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 7791 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 7730 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 7669 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 7608 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 7547 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 7486 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 7425 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 7364 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 7303 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTATA 7242 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 7181 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 7120 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 19 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGTTTGCCGATCCCCTTCCAGACCACCCTTTAC # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # 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: 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 [6-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-35.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //