Array 1 2991615-2990138 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP007804.1 Salmonella enterica subsp. enterica serovar Typhimurium strain VNP20009 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 2991614 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 2991553 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 2991491 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 2991430 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 2991369 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 2991308 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 2991247 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 2991186 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 2991125 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 2991064 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 2991003 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 2990942 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 2990881 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 2990819 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 2990716 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 2990655 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 2990594 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 2990533 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 2990472 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 2990411 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 2990350 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 2990289 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 2990228 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 2990167 29 96.6 0 A............................ | A [2990140] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 3009362-3007747 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP007804.1 Salmonella enterica subsp. enterica serovar Typhimurium strain VNP20009 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3009361 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 3009300 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3009239 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 3009178 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3009117 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3009056 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3008995 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3008934 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3008873 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3008812 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3008751 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3008690 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3008629 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3008568 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3008507 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3008446 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3008385 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 3008324 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3008262 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3008201 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3008140 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3008079 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3008018 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3007957 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3007896 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3007835 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3007774 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], //