Array 1 97838-99818 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYI01000021.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM1209 BCW_8411_1__paired__contig_21, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97838 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 97899 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 97960 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98021 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98082 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98143 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98204 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98265 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98326 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98387 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98448 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98509 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98570 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98631 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98692 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98753 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 98814 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 98875 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 98936 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 98997 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99058 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99119 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99180 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99241 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99303 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99364 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99425 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99486 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99547 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99608 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99669 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99730 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99791 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 115951-117427 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZYI01000021.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM1209 BCW_8411_1__paired__contig_21, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 115951 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116012 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 116073 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 116134 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 116196 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 116257 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 116318 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 116379 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 116440 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 116501 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 116562 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 116623 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116684 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116745 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116806 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116867 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116929 29 100.0 32 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATT 116990 29 65.5 13 ..............GA..C.TTCC.G.GC ACGTTACTCGATC Deletion [117032] 117032 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117093 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117154 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117215 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117276 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117337 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117398 29 96.6 0 A............................ | A [117424] ========== ====== ====== ====== ============================= ================================= ================== 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], //