Array 1 44818-46798 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZZA01000004.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM4298 BCW_8439_1__paired__contig_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 44818 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 44879 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 44940 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 45001 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 45062 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 45123 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 45184 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 45245 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 45306 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 45367 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 45428 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 45489 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 45550 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 45611 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 45672 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 45733 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 45794 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 45855 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 45916 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 45977 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 46038 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 46099 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 46160 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 46221 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 46283 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 46344 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 46405 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 46466 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 46527 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 46588 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 46649 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 46710 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 46771 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 62931-64407 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZZA01000004.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM4298 BCW_8439_1__paired__contig_4, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 62931 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 62992 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 63053 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 63114 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 63176 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 63237 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 63298 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 63359 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 63420 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 63481 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 63542 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 63603 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 63664 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 63725 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 63786 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 63847 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 63909 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 63970 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [64012] 64012 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 64073 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 64134 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 64195 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 64256 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 64317 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 64378 29 96.6 0 A............................ | A [64404] ========== ====== ====== ====== ============================= ================================= ================== 25 29 98.2 31 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.10 # Score Detail : 1:0, 2:3, 3:0, 4:0.91, 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 [0-13] 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], //