Array 1 3098314-3096837 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP043402.1 Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S substr. GXS254 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3098313 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3098252 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3098190 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3098129 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3098068 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3098007 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3097946 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3097885 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3097824 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3097763 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3097702 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3097641 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3097580 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3097518 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3097415 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3097354 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3097293 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3097232 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3097171 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3097110 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3097049 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3096988 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3096927 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3096866 29 96.6 0 A............................ | A [3096839] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 3116061-3114446 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP043402.1 Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S substr. GXS254 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3116060 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 3115999 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3115938 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 3115877 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3115816 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3115755 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3115694 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3115633 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3115572 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3115511 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3115450 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3115389 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3115328 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3115267 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3115206 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3115145 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3115084 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 3115023 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3114961 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3114900 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3114839 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3114778 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3114717 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3114656 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3114595 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3114534 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3114473 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], //