Array 1 163390-162280 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTAH01000007.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H67 isolate H67, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 163389 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 163328 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 163267 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 163206 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 163145 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 163084 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 163023 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 162962 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 162901 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 162840 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 162778 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 162717 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 162614 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 162553 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 162492 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 162431 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 162370 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 162309 29 96.6 0 A............................ | A [162282] ========== ====== ====== ====== ============================= ========================================================================== ================== 18 29 99.6 35 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.08 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.15, 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 180628-179522 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTAH01000007.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H67 isolate H67, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================== ================== 180627 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 180566 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 180505 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 180444 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 180383 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 180322 29 100.0 72 ............................. NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN 180221 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 180160 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 180099 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 180038 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 179976 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 179915 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 179854 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 179793 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 179732 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 179671 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTAACGGGCA 179610 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 179549 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ======================================================================== ================== 18 29 97.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CATGCGTTTTCAGGTGTTCCCCGCGCCAGCGGGGATAAACCGGAATTACTGGCTAACGACGAACTGACAGTTGAGTGTTCCCCGCGCCAGCGGGGATAAACCGCCGGACCTAAACCTGAAAAAACCGACGCCCAAGTGTTCCCCGCGCCAGCGGGGATAAACCGGGCTTTGGTGAAGATTTCTGATTTGGTCATTTGTGTTCCCCGCGCCAGCGGGGATAAACCGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNN # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.88, 5:0, 6:0.25, 7:-0.14, 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 [8-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [63.3-0.0]%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 3 181237-180903 **** Predicted by CRISPRDetect 2.4 *** >NZ_CTAH01000007.1 Salmonella enterica subsp. enterica serovar Typhimurium str. DT104 strain H67 isolate H67, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 181236 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 181175 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 181114 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 181053 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 180992 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 180931 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================ ================== 6 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGAGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNGTGTTCCCCGCGCCAGCGGGGATAAACCGGATCGGGTGGTGCCGGTGGGCCATGTGGCGCTGTGTTCCCCGCGCCAGCGGGGATAAACCGGCGAGGTCAATAAAAAATGGTGTGGCTTTACCGTGTTCCCCGCGCCAGCGGGGATAAACCGCGGAGGATGGAATATTTCCGAGGCTGGCGATTGTGTTCCCCGCGCTAGCGGGGATAAACCGATGCCGGAACGCT # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [0.0-70.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //