Array 1 162235-161063 **** Predicted by CRISPRDetect 2.4 *** >NZ_QREY01000002.1 Salmonella enterica subsp. enterica strain SA632 contig2.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 162234 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 162173 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 162111 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 162050 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 161989 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 161928 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 161867 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 161806 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 161744 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 161641 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 161580 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 161519 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 161458 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 161397 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 161336 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 161275 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 161214 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 161153 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 161092 29 96.6 0 A............................ | A [161065] ========== ====== ====== ====== ============================= ========================================================================== ================== 19 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.08 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 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 [3-1] 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 179799-178367 **** Predicted by CRISPRDetect 2.4 *** >NZ_QREY01000002.1 Salmonella enterica subsp. enterica strain SA632 contig2.1, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 179798 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 179737 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 179676 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 179615 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 179554 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 179493 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 179432 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 179371 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 179310 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 179249 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 179188 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 179127 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 179066 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 179005 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 178944 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 178883 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 178822 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 178761 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 178700 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 178639 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 178577 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 178516 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 178455 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 178394 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 24 29 98.7 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], //