Array 1 51-1482 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCQH01000327.1 Salmonella enterica subsp. enterica serovar Typhimurium strain SEN53 TYPHIMURIUM_S13_trimmed_contig_342, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 51 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 112 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 173 29 100.0 32 ............................. AAAAAACAGAAGAACGGCAAGCGGCACCTCAA 234 29 100.0 32 ............................. CGTCAGCGCGGTATTGAGGCCGGGGACCGCCC 295 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 356 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 417 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 478 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 539 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 600 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 661 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 722 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 783 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 844 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 905 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 967 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 1028 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 1089 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 1150 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 1211 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 1272 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 1333 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 1394 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 1455 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 24 29 98.1 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GCCAGCGGGGATAAACCGTTTTGATACGTAGTATTCATTACGCCTCCTAGG # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # Questionable array : NO Score: 6.16 # Score Detail : 1:0, 2:3, 3:0, 4:0.90, 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 [1-10] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [43.3-63.3]%AT Score: 0.27/0.27 # Longer leader analysis prediction: NA # ---------------------------------------------------------------------------- # Final direction: F [5.65,0.27 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 1 28889-27168 **** Predicted by CRISPRDetect 2.4 *** >NZ_VCQH01000050.1 Salmonella enterica subsp. enterica serovar Typhimurium strain SEN53 TYPHIMURIUM_S13_trimmed_contig_53, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 28888 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 28827 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 28766 29 100.0 32 ............................. AAAATGCAGGTGGGGTAACGAATGCGAGATTG 28705 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 28643 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 28582 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 28521 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 28460 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 28399 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 28338 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 28277 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 28216 29 100.0 32 ............................. ACGCCCCGAATGTGTTTGCCTCGCCCGCTGCC 28155 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 28094 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 28033 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 27972 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 27911 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 27849 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 27746 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 27685 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 27624 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 27563 29 100.0 32 ............................. GCACTATTTCGAATGTCTCGACGCCAGATTTA 27502 29 100.0 32 ............................. AACGAATTGAGACTATTAGAGATTATTCGCCT 27441 29 100.0 32 ............................. GCAACCCATTAATTAACTAAGCAGTAATAAAC 27380 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 27319 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 27258 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 27197 29 96.6 0 A............................ | A [27170] ========== ====== ====== ====== ============================= ========================================================================== ================== 28 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : CCAGCGGGGATAAACCGTGAGCAACGACAGTAAATAATTTTTCGTGCT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 6.14 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.09, 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: NA [50.0-43.3]%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], //