Array 1 3098323-3096846 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP043401.1 Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S substr. GXS259 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 3098322 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 3098261 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 3098199 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 3098138 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 3098077 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 3098016 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 3097955 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 3097894 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 3097833 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 3097772 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 3097711 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 3097650 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 3097589 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 3097527 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 3097424 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 3097363 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 3097302 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 3097241 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 3097180 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 3097119 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 3097058 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 3096997 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 3096936 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 3096875 29 96.6 0 A............................ | A [3096848] ========== ====== ====== ====== ============================= ========================================================================== ================== 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 3116070-3114455 **** Predicted by CRISPRDetect 2.4 *** >NZ_CP043401.1 Salmonella enterica subsp. enterica serovar Typhimurium str. 14028S substr. GXS259 chromosome, complete genome Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 3116069 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 3116008 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 3115947 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 3115886 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 3115825 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 3115764 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 3115703 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 3115642 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 3115581 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 3115520 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 3115459 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3115398 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 3115337 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 3115276 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 3115215 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 3115154 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 3115093 29 100.0 32 ............................. CCCCGATAGAGACGCTTCTGTAGTCACTGGCA 3115032 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 3114970 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 3114909 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 3114848 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 3114787 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 3114726 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 3114665 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 3114604 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 3114543 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 3114482 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], //