Array 1 533-16 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTHI01000106.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H40 isolate H40, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 532 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 471 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 410 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 349 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 288 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 227 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 166 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 105 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 44 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 9 29 99.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCGCCGGCATCAGCGCCGATCCGTTCATAGTGCC # Right flank : GCCAGCTTACGCTATT # 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: F [0-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [13.3-18.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.41,5.24 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 107253-106552 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTHI01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H40 isolate H40, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 107252 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107191 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 107130 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 107069 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 107008 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 106947 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 106886 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 106825 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 106764 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 106703 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 106642 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 106581 29 96.6 0 A............................ | A [106554] ========== ====== ====== ====== ============================= ================================ ================== 12 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 124450-123385 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTHI01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H40 isolate H40, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 124449 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACT 124388 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 124327 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 124266 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 124205 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 124144 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTA 124083 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 124022 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 123961 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 123900 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 123839 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 123778 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 123717 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 123656 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 123595 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 123534 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 123473 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 123412 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 18 29 98.5 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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], //