Array 1 97874-99854 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZZB01000006.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM0041 BCW_8440_1__paired__contig_6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97874 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 97935 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 97996 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98057 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98118 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98179 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98240 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98301 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98362 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98423 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98484 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98545 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98606 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98667 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98728 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98789 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 98850 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 98911 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 98972 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99033 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99094 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99155 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99216 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99277 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99339 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99400 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99461 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99522 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99583 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99644 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99705 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99766 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99827 28 82.8 0 ...............A.AA....-.G... | ========== ====== ====== ====== ============================= ================================= ================== 33 29 98.6 32 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GAAATCAAGCATCCCGTTGGGCGAGTTCGTGATATTGAGGCGCTGGATGAACTGTTAGCCACGTTGAGCGATGATAAACCGCGTGTGATTGCTTTGCAGCCCATTAGCCAGAAAGAAGACGCGACGCGTCTGTGTATTGAAACGTGTATTGCACGTAACTGGAGGCTGTCTATGCAAACGCATAAATATTTAAATATCGCCTGATGCATTACTAATCTTACAGACGGCCTGCCGATGCCGTCTGTGACTCATCCATTACCTTGCATTGTTTATTTTCTCTATGTGAATTTCGATGAGTGTATAAAAGCGCTGATAAATTTTTCCATAGCGATGCACGGATCACGCTATTTTGGTAAATTTAAAGAAAAAATCATTCTATGAACTTTTTTGCATCAAAATCAGCAAATTAGCTGTTCTTTAATAATTTAAATTGTTGCGATTATGTTGGTAGAATGTGGTGCTGACAAAAAGTAGTTTATAAACAATTATATCCGTTTAGT # Right flank : GTTGCATAATCATAATCTGTGTACCAGTAATGGCAGCTACAAACCTGTAAAGTAAAAAGGCCGCGTTTTCCCGGGGAGGCTTTTAGACAGGAGAAGGCCATGGCGTTAAGGATCAGGGTATTGCTCGAAAATCATAAGGGAGCTGGAGCGGATAAATCGTTGAAGGTCCGGCCAGGGTTAAGCCTGTTGGTCGAGGATGAGTCTACGTCTATCTTGTTCGATACCGGCCCTGATGGCAGTTTTATGCAAAACGCGTTGGCGATGGGGATCGACCTGTCCGATGTGTCTGCTGTGGTGCTTTCGCATGGTCATTACGATCATTGCGGCGGCGTGCCGTGGCTTCCTGATAGCAGTCGAATCATCTGCCATCCCGATATTGCACGTGAACGTTATGCAGCAATGACTTTTCTTGGTATTACCCGAAAAATAAAAAAATTGTCGTGTGAGGTGGACTATTCACGCTATCGAATGATGTACACGCGTGACCCCCTGCCGATTGG # 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: 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 [0-12] 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 116190-117482 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZZB01000006.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM0041 BCW_8440_1__paired__contig_6, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 116190 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 116252 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 116313 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 116374 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 116435 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 116496 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 116557 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 116618 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 116679 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116740 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116801 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116862 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116923 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116985 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 117088 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117149 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117210 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117271 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117332 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117393 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117454 29 89.7 0 A..........................AC | ========== ====== ====== ====== ============================= ========================================================================== ================== 21 29 99.2 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGTGTGTTCCCCGCGCCAGCGGGGATAAACCGTGAGCAACGACAGTAAATAATTTTTCGTGCTGGTGTTCCCCGCGCCAGCGGNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCGCCAGCGGGGATAAACCGCAACCAGGCTGGATCGTAACTCCTATCCCCTC # Right flank : CGTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTC # Questionable array : NO Score: 6.08 # Score Detail : 1:0, 2:3, 3:0, 4:0.96, 5:0, 6:0.25, 7:-0.13, 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 [0-4] Score: 0.41/0.41 # AT richness analysis in flanks prediction: R [33.3-48.3]%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], //