Array 1 3118734-3116769 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039719.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014860 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3118733 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 3118672 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3118611 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3118550 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 3118489 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 3118428 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 3118367 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3118305 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3118244 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 3118183 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 3118122 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3118061 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3118000 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3117939 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3117878 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3117817 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3117756 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3117695 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3117634 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3117573 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3117512 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3117450 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3117347 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3117286 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3117225 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3117164 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3117103 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3117042 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3116981 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3116920 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3116859 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3116798 29 96.6 0 A............................ | A [3116771] ========== ====== ====== ====== ============================= ========================================================================== ================== 32 29 99.6 33 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.15 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.08, 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 3136358-3134865 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039719.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014860 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3136357 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3136296 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3136235 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3136174 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 3136113 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 3136052 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3135991 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3135930 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3135869 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3135808 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3135747 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3135686 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3135625 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3135564 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3135503 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 3135442 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3135380 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3135319 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3135258 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3135197 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3135136 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3135075 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3135014 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3134953 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3134892 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.17 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [9-1] 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], //