Array 1 276103-274633 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYH01000014.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM0401 BCW_8408_1__paired__contig_14, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ====================================================================================== ================== 276102 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 276041 29 69.0 86 ....................NNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCGCCAGCGGGGATAAACCGCAACCAGGCTGGATCGTAACTCCTATCCCCTC 275926 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 275864 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 275803 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 275742 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 275681 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 275620 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 275559 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 275498 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 275437 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 275376 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 275315 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 275254 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 275193 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 275131 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 275028 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 274967 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 274906 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 274845 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 274784 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 274723 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 274662 29 96.6 0 A............................ | A [274635] ========== ====== ====== ====== ============================= ====================================================================================== ================== 23 29 98.2 36 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : TTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCGT # Questionable array : NO Score: 5.86 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 5:0, 6:0.25, 7:-0.30, 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: F [3-10] 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 [0.41,5.51 Confidence: HIGH] # Array family : I-E [Matched known repeat from this family], // Array 2 294216-292235 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYH01000014.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM0401 BCW_8408_1__paired__contig_14, whole genome shotgun sequence Array_Orientation: Reverse Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 294215 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 294154 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 294093 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 294032 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 293971 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 293910 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 293849 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 293788 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 293727 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 293666 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 293605 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 293544 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 293483 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 293422 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 293361 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 293300 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 293239 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 293178 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 293117 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 293056 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 292995 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 292934 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 292873 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 292812 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 292750 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 292689 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 292628 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 292567 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 292506 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 292445 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 292384 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 292323 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 292262 28 82.8 0 ...............A.AA.....G-... | ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGAGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : TTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGGC # Questionable array : NO Score: 6.19 # Score Detail : 1:0, 2:3, 3:0, 4:0.93, 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 [10-0] 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], //