Array 1 3043720-3042243 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039713.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014853 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3043719 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3043658 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3043596 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3043535 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3043474 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3043413 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3043352 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3043291 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3043230 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3043169 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3043108 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3043047 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3042986 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3042924 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3042821 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3042760 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3042699 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3042638 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3042577 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3042516 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3042455 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3042394 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3042333 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3042272 29 96.6 0 A............................ | A [3042245] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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 3061467-3059852 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039713.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014853 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3061466 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 3061405 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3061344 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 3061283 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3061222 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3061161 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3061100 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3061039 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3060978 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3060917 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3060856 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3060795 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3060734 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3060673 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3060612 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3060551 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3060490 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 3060429 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3060367 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3060306 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3060245 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3060184 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3060123 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3060062 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3060001 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3059940 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3059879 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 27 29 98.3 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 [10-1] 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], //