Array 1 58668-57863 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXJC01000027.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_2036 NODE_27_length_65316_cov_5.61794, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 58667 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 58606 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 58545 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 58484 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 58423 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 58361 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 58258 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 58197 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 58136 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 58075 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 58014 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 57953 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 57892 29 96.6 0 A............................ | A [57865] ========== ====== ====== ====== ============================= ========================================================================== ================== 13 29 99.5 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.23, 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: R [50.0-71.7]%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], // Array 1 55-1059 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXJC01000085.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_2036 NODE_85_length_10750_cov_5.50923, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 55 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 116 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 177 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 238 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 299 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 360 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 421 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 482 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 544 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 605 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 666 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 727 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 788 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 849 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 910 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 971 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1032 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 17 29 97.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCGCGCCAGCGGGGATAAACCGAATTATTTCTGTGGCTGGGGTTTCGATTCGACG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 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 [2-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [40.0-63.3]%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 1 1180-53 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXJC01000016.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_2036 NODE_16_length_99079_cov_5.28158, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 1179 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 1118 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 1057 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 996 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 935 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 874 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 813 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 752 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 691 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 630 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 569 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 508 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 447 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 386 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 325 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 264 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 203 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 142 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 81 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 19 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GAATTATTTCTGTGGCTGGGGTTTCGATTCGATGTGTTCCCCGCTGGCGCGGG # 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: R [1-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [38.3-70.0]%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], //