Array 1 241944-241304 **** Predicted by CRISPRDetect 2.4 *** >NZ_CFOA01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH11 isolate CH11, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 241943 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 241882 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 241821 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 241760 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 241699 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 241638 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 241577 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 241516 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 241455 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 241394 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 241333 29 96.6 0 A............................ | A [241306] ========== ====== ====== ====== ============================= ================================ ================== 11 29 99.4 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAGTCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # 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 259690-258076 **** Predicted by CRISPRDetect 2.4 *** >NZ_CFOA01000001.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain CH11 isolate CH11, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 259689 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 259628 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 259567 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 259506 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 259445 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 259384 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 259323 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 259262 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 259201 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 259140 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 259079 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 259018 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 258957 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 258896 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 258835 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 258774 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 258713 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 258652 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 258591 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 258530 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 258469 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 258408 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 258347 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 258286 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 258225 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 258164 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 258103 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================ ================== 27 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # 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 [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], //