Array 1 3043838-3042361 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039567.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014850 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3043837 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3043776 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3043714 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3043653 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3043592 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3043531 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3043470 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3043409 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3043348 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3043287 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3043226 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3043165 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3043104 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3043042 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3042939 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3042878 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3042817 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3042756 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3042695 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3042634 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3042573 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3042512 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3042451 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3042390 29 96.6 0 A............................ | A [3042363] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 3061585-3059970 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP039567.1 Salmonella enterica subsp. enterica serovar 1,4,[5],12:i:- strain PNCS014850 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3061584 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 3061523 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3061462 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 3061401 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3061340 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3061279 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3061218 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3061157 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3061096 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3061035 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3060974 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3060913 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3060852 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3060791 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3060730 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3060669 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3060608 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 3060547 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3060485 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3060424 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3060363 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3060302 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3060241 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3060180 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3060119 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3060058 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3059997 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], //