Array 1 1538-44 **** Predicted by CRISPRDetect 2.4 *** >NZ_LIOF01000030.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CVM N51295 N51295_contig_30, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 1537 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 1476 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 1415 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 1354 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 1293 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 1232 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 1171 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 1110 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 1049 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 988 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 927 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 866 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 805 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 744 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 683 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 622 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 561 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 500 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 438 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 377 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 316 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 255 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 194 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 133 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 72 29 96.6 0 .................A........... | ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.9 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GGACGAGTTCTGGAAATGGTTAGCTGATAAAGAGTGTTCCCCGC # Questionable array : NO Score: 6.21 # Score Detail : 1:0, 2:3, 3:0, 4:0.95, 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 162342-160865 **** Predicted by CRISPRDetect 2.4 *** >NZ_LIOF01000012.1 Salmonella enterica subsp. enterica serovar Typhimurium strain CVM N51295 N51295_contig_12, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 162341 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 162280 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 162218 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 162157 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 162096 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 162035 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 161974 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 161913 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 161852 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 161791 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 161730 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 161669 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 161608 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 161546 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 161443 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 161382 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 161321 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 161260 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 161199 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 161138 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 161077 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 161016 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 160955 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 160894 29 96.6 0 A............................ | A [160867] ========== ====== ====== ====== ============================= ========================================================================== ================== 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], //