Array 1 163848-163208 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTAW01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain SOUTH_AFRICA isolate H180, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 163847 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 163786 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 163725 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 163664 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 163603 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 163542 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 163481 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 163420 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 163359 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 163298 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 163237 29 96.6 0 A............................ | A [163210] ========== ====== ====== ====== ============================= ================================ ================== 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 181533-179980 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTAW01000002.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain SOUTH_AFRICA isolate H180, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 181532 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 181471 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 181410 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 181349 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 181288 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 181227 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 181166 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 181105 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 181044 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 180983 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 180922 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 180861 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 180800 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 180739 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 180678 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 180617 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 180556 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 180495 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 180434 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 180373 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 180312 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 180251 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 180190 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 180129 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 180068 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 180007 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 26 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [8-0] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [63.3-70.0]%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], //