Array 1 106913-106273 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXGU01000005.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_2131 NODE_5_length_123542_cov_2.16998, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 106912 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 106851 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 106790 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 106729 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106668 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106607 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106546 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106485 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106424 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106363 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106302 29 96.6 0 A............................ | A [106275] ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.23 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [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 2 123500-123045 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXGU01000005.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_2131 NODE_5_length_123542_cov_2.16998, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 123499 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 123438 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 123377 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 123316 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 123255 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 123194 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 123133 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 123072 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 8 29 96.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : ACTATAATATGAATTATTTCTGTGGCTGGGGTTTCGATTCGA # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.83, 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 [6-2] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-46.7]%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], // Array 1 88306-89371 **** Predicted by CRISPRDetect 2.4 *** >NZ_MXGU01000014.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain BCW_2131 NODE_14_length_89405_cov_1.94272, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 88306 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 88367 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 88428 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 88489 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 88550 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 88611 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 88672 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 88733 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 88794 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 88855 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 88916 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 88977 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 89038 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 89099 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 89160 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 89221 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 89282 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 89343 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 18 29 99.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : AATTATTTCTGTGGCTGGGGTTTCGATTCGATGT # 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 [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [70.0-33.3]%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], //