Array 1 161898-160727 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHNI01000003.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N51272 N51272_contig_3, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 161897 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 161836 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 161775 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 161714 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 161653 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 161592 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 161531 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 161470 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 161408 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 161305 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 161244 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 161183 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 161122 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 161061 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 161000 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 160939 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 160878 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 160817 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160756 29 96.6 0 A............................ | A [160729] ========== ====== ====== ====== ============================= ========================================================================== ================== 19 29 99.5 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GATAAAG # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.08 # Score Detail : 1:0, 2:3, 3:0, 4:0.97, 5:0, 6:0.25, 7:-0.14, 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: F [50.0-10.0]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0.27,5.65 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 1417-45 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHNI01000023.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N51272 N51272_contig_23, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1416 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 1355 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 1294 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 1233 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 1172 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 1111 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 1050 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 989 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 928 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 867 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 806 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 745 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 684 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 623 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 562 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 501 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 439 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 378 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 317 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 256 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 195 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 134 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 73 29 96.6 0 .................A........... | ========== ====== ====== ====== ============================= ================================= ================== 23 29 98.8 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GGACGAGTTCTGGAAATGGTTAGCTGATAAAGAGTGTTCCCCGCG # Questionable array : NO Score: 6.20 # Score Detail : 1:0, 2:3, 3:0, 4:0.94, 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 [5-1] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [36.7-70.0]%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 1 624-45 **** Predicted by CRISPRDetect 2.4 *** >NZ_LHNI01000040.1 Salmonella enterica subsp. enterica serovar Typhimurium var. 5- strain CVM N51272 N51272_contig_40, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 623 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 562 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 501 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 440 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 379 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 317 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 256 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 195 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 134 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 73 29 100.0 0 ............................. | ========== ====== ====== ====== ============================= ================================= ================== 10 29 100.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GCGTCGCGGAAAATTTCGCATTGACGATAAAGAGTGTTCCCCGCG # Questionable array : NO Score: 6.26 # Score Detail : 1:0, 2:3, 3:0, 4:1.00, 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: NA [0-0] Score: 0/0.41 # AT richness analysis in flanks prediction: R [35.0-71.7]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: R [0,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //