Array 1 97848-99828 **** Predicted by CRISPRDetect 2.4 *** >NZ_MWQQ01000028.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM3338 BCW_7500_1__paired__contig_28, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97848 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 97909 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 97970 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98031 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98092 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98153 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98214 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98275 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98336 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98397 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98458 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98519 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98580 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98641 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98702 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98763 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 98824 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 98885 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 98946 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99007 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99068 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99129 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99190 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99251 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99313 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99374 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99435 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99496 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99557 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99618 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99679 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99740 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99801 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 115961-117432 **** Predicted by CRISPRDetect 2.4 *** >NZ_MWQQ01000028.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM3338 BCW_7500_1__paired__contig_28, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ======================================================================================== ================== 115961 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116022 29 69.0 88 ....................NNNNNNNNN NNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNNCGCCAGCGGGGATAAACCGCAACCAGGCTGGATCGTAACTCCTATCCCCTC 116139 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 116201 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 116262 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 116323 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 116384 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 116445 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 116506 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 116567 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 116628 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116689 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116750 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116811 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116872 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116934 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 116995 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [117037] 117037 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117098 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117159 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117220 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117281 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117342 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117403 29 96.6 0 A............................ | A [117429] ========== ====== ====== ====== ============================= ======================================================================================== ================== 24 29 96.8 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 5.85 # Score Detail : 1:0, 2:3, 3:0, 4:0.84, 5:0, 6:0.25, 7:-0.24, 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 [9-13] 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], //