Array 1 3066297-3064332 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039564.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014848 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3066296 29 96.6 32 ............................T CCCACCGCGCTGATTAACGACGGACTGTTACA 3066235 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3066174 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 3066113 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 3066052 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 3065991 29 100.0 32 ............................. CCATTATTCAACCCTCCAGGCTCGCGCCGGCT 3065930 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3065868 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3065807 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 3065746 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 3065685 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3065624 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3065563 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3065502 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3065441 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3065380 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3065319 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3065258 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3065197 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3065136 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3065075 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3065013 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3064910 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3064849 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3064788 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3064727 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3064666 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3064605 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3064544 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3064483 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3064422 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3064361 29 96.6 0 A............................ | A [3064334] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 3083738-3082428 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039564.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014848 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3083737 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3083676 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3083615 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3083554 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3083493 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3083432 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3083371 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3083310 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3083249 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3083188 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3083127 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3083066 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 3083005 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3082943 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3082882 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3082821 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3082760 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3082699 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3082638 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3082577 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3082516 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3082455 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 22 29 98.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [8-1] 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], //