Array 1 288935-290061 **** Predicted by CRISPRDetect 2.4 *** >NZ_NHRA01000043.1 Salmonella enterica subsp. enterica serovar Typhimurium strain UGA11 UGA11_Contig43, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 288935 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 288996 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 289057 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 289118 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 289179 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 289240 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 289301 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 289362 29 100.0 32 ............................. TTTTGATACGTAGTATTCATTACGCCTCCTAG 289423 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 289484 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 289546 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 289607 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 289668 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 289729 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 289790 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 289851 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 289912 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 289973 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 290034 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 19 29 98.2 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGCGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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 [0-9] 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 306194-307609 **** Predicted by CRISPRDetect 2.4 *** >NZ_NHRA01000043.1 Salmonella enterica subsp. enterica serovar Typhimurium strain UGA11 UGA11_Contig43, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 306194 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 306255 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 306317 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 306378 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 306439 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 306500 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 306561 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 306622 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 306683 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 306744 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 306805 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 306866 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 306927 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 306989 29 100.0 32 ............................. AATAAGGCGCGGTACCACCCTCGGCTTTAATT 307050 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [307092] 307092 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 307153 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 307214 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 307275 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 307336 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 307397 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 307458 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 307519 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 307580 29 96.6 0 A............................ | A [307606] ========== ====== ====== ====== ============================= ================================= ================== 24 29 98.1 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.09 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 5:0, 6:0.25, 7:-0.06, 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 [1-3] 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], //