Array 1 97961-99574 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAETZF010000003.1 Salmonella enterica subsp. enterica serovar Typhimurium strain SARA3 3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================ ================== 97961 29 100.0 32 ............................. TTTGCCGATCCCCTTCCAGACCACCCTTTACA 98022 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 98083 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98144 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98205 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98266 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98327 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98388 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98449 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98510 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98571 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98632 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98693 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 98754 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98815 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98876 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98937 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98998 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99059 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 99120 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99181 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99242 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99303 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99364 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99425 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99486 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99547 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================ ================== 27 29 99.0 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-8] Score: 0.41/0.41 # AT richness analysis in flanks prediction: NA [70.0-63.3]%AT Score: 0/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 115707-116511 **** Predicted by CRISPRDetect 2.4 *** >NZ_JAETZF010000003.1 Salmonella enterica subsp. enterica serovar Typhimurium strain SARA3 3, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 115707 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 115768 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 115829 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 115890 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 115951 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116013 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 116074 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [116116] 116116 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 116177 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 116238 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 116299 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 116360 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 116421 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 116482 29 96.6 0 A............................ | A [116508] ========== ====== ====== ====== ============================= ================================= ================== 14 29 97.0 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.99 # Score Detail : 1:0, 2:3, 3:0, 4:0.85, 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: F [5,4] Score: 0.37/0.37 # Reference repeat match prediction: F [matched GTGTTCCCCGCGCCAGCGGGGATAAACCG with 100% identity] Score: 4.5/4.5 # Secondary Structural analysis prediction: F [-13.50,-12.00] Score: 0.37/0.37 # Array degeneracy analysis prediction: F [0-3] Score: 0.41/0.41 # AT richness analysis in flanks prediction: F [71.7-48.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.92,0 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], //