Array 1 97878-99858 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZZD01000015.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM2896 BCW_8444_1__paired__contig_15, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ================================= ================== 97878 29 100.0 32 ............................. TGCAGAGTTGTATCTTACCCTGTTTACGTTTC 97939 29 100.0 32 ............................. TTATCCCAATATATTTCGCTATCAGTTACATC 98000 29 100.0 32 ............................. GACTGTTTATACCGGATTCCATGCGTTTTCAG 98061 29 100.0 32 ............................. GAATTACTGGCTAACGACGAACTGACAGTTGA 98122 29 100.0 32 ............................. CCGGACCTAAACCTGAAAAAACCGACGCCCAA 98183 29 100.0 32 ............................. GCTCATTAAATAACTATATAACCCCCGGACTC 98244 29 100.0 32 ............................. TTCCAGAACCGTTTGACTTACTGTGGCCATTA 98305 29 100.0 32 ............................. GGCTTTGGTGAAGATTTCTGATTTGGTCATTT 98366 29 100.0 32 ............................. GATCGGGTGGTGCCGGTGGGCCATGTGGCGCT 98427 29 100.0 32 ............................. GCAGCGGTTGAGTAACTCCTCGTCCACGTCGA 98488 29 100.0 32 ............................. CTCCAGCGCTCGAATTTATTTGAGGCCACCAC 98549 29 100.0 32 ............................. GCGAGGTCAATAAAAAATGGTGTGGCTTTACC 98610 29 100.0 32 ............................. CCGGCATCAGCGCCGATCCGTTCATAGTGCCC 98671 29 100.0 32 ............................. AACAGGAACAGGAAAAAAAAGATTTGTCCGGT 98732 29 100.0 32 ............................. CAGATCCTCAACGGTCAGGCTGTTTAGTTCCT 98793 29 100.0 32 ............................. CGGAGGATGGAATATTTCCGAGGCTGGCGATT 98854 29 96.6 32 .............T............... ATGCCGGAACGCTGATGGCGTTTGACATGAGC 98915 29 100.0 32 ............................. AATTATTTCTGTGGCTGGGGTTTCGATTCGAT 98976 29 100.0 32 ............................. TGACGCTGGTCTATACCGGCAACGAACGCGAC 99037 29 100.0 32 ............................. TTGACGGTGACGTCAGTGCCGAAGGCGAAATA 99098 29 100.0 32 ............................. CCAGCTTACGCTATTTACGACGTTATTGAGCA 99159 29 93.1 32 .................A........T.. AAACGAAAGAGGCTATGCGGTTGTTTATCGGT 99220 29 100.0 32 ............................. CCCCGATAGCGACGCTTCTGTAGTCACTGGCA 99281 29 100.0 33 ............................. GTGAGTTCGGTTTTAATTTCGTCGCTAAGCTGC 99343 29 96.6 32 .........................G... CGTCACTTTCTGACATTTTATTCAGTTCGTTA 99404 29 96.6 32 ..........T.................. TCATTTCTGGACGGGGCTGTGTGACGAATACG 99465 29 100.0 32 ............................. TGTCCAATTAACCCAAACTTTGCGCGCTTAAT 99526 29 93.1 32 A............T............... GGATATGTGAAGTTCAGGTAGCCCATTACGCA 99587 29 100.0 32 ............................. TTGATCGAGAGTGCGAAGAGGCAGAACGGGCA 99648 29 100.0 32 ............................. CAGGTTATGCGCAAAAATTAATTCATATTATA 99709 29 96.6 32 .................A........... GACGAGTTCTGGAAATGGTTAGCTGATAAAGA 99770 29 100.0 32 ............................. CGTTCATCGGCAGCGTCACGCAATATGAAGAT 99831 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 115991-117467 **** Predicted by CRISPRDetect 2.4 *** >NZ_MZZD01000015.1 Salmonella enterica subsp. enterica serovar Typhimurium strain LT2 KO STM2896 BCW_8444_1__paired__contig_15, whole genome shotgun sequence Array_Orientation: Forward Position Repeat %id Spacer Repeat_Sequence Spacer_Sequence Insertion/Deletion ========== ====== ====== ====== ============================= ========================================================================== ================== 115991 29 100.0 32 ............................. TGAGCAACGACAGTAAATAATTTTTCGTGCTG 116052 29 100.0 32 ............................. AACCGCTGGCGGGCTGATTGGTCTGCAACCAC 116113 29 100.0 32 ............................. CAACCAGGCTGGATCGTAACTCCTATCCCCTC 116174 29 100.0 33 ............................. CCAGTGGGCGTAGCCAGCTCATCGCTATTTTGC 116236 29 100.0 32 ............................. CGTTGCGGATTATCGTTAAGACTGAAGGAAGT 116297 29 100.0 32 ............................. CGTCACTACCGAGACCGAGACCGAGACCGAGA 116358 29 100.0 32 ............................. CCGCTGACGCACTGGATCAACCTGACGCAACG 116419 29 100.0 32 ............................. TTGCAGGGCGATATTGTTGTTGGTGAATGGGA 116480 29 100.0 32 ............................. CGTCGCGGAAAATTTCGCATTGACGATAAAGA 116541 29 100.0 32 ............................. TTACGTGTTTATTCATCTGTTGCATTAGATTC 116602 29 96.6 32 ............................T GAGGCGTACAGGCTGTTAGATGAGAAATTACC 116663 29 100.0 32 ............................. TGGATTATCTGTATTTTACGGAAGTGGGCGCG 116724 29 100.0 32 ............................. GTCGTTCATCAGGCACTACCGGCACTTTCTGG 116785 29 100.0 32 ............................. ATATTCGCCGCTTTCCATTTACCGAACGTAAC 116846 29 100.0 32 ............................. CCACGTTCGGCGATGTTGGCCCCATCGGTCCA 116907 29 100.0 33 ............................. AAACGGTAGTGTTTTAAAACCGTTTCGAGGTGC 116969 29 100.0 74 ............................. AATAAGGCGCGGTGCCACCCTCGGCTTTAATTGTGTTCCCCGCGCCGACGCGTTCCAGCGCACGTTACTCGATC 117072 29 100.0 32 ............................. AGCCGTTTCCGCTAAATACCCCCGCAGTGATT 117133 29 100.0 32 ............................. TTCTTGAATATGATTGCGGGTATATGTGGATA 117194 29 100.0 32 ............................. TCTGGTTATAACATCGCAGCAAAATCAAAAGA 117255 29 100.0 32 ............................. TGACGAGGTGCGAGCGATGGTATCAAGGCCTA 117316 29 96.6 32 .....T....................... GGTTAACCAGGGGTTTTTCCCCACTATTTCGC 117377 29 100.0 32 ............................. AGGGGCGTTCCGCAGTCGACAAGGGCTGAAAA 117438 29 96.6 0 A............................ | A [117464] ========== ====== ====== ====== ============================= ========================================================================== ================== 24 29 99.6 34 GTGTTCCCCGCGCCAGCGGGGATAAACCG # Left flank : GTGCTCGCTGCCGGTGAAATTGAACCACCTCAGCCTGCGCCGGATATGTTGCCGCCAGCAATACCGGAACCTGAATCACTGGGTGATAGCGGCCATCGGGGGCATGGTTGATGAGTATGGTGGTTGTGGTCACGGAAAACGTACCGCCGCGCCTGCGGGGACGTCTTGCCGTCTGGTTACTCGAGGTTCGTGCAGGTGTTTATGTTGGCGATACCTCGAAGCGTATTCGGGAAATGATTTGGCAACAGATCACACAGCTTGGCGGAGTCGGAAACGTAGTAATGGCCTGGGCAACAAATACTGAGTCTGGTTTTGAGTTCCAGACCTGGGGTGAAAACAGACGTATTCCGGTAGATTTGGATGGACTGCGTTTGGTTTCTTTTCTTCCTGTTGAAAATCAATAAGTTGAATGTTCTTTAATAATAAGGAATTGTTATCTTACCGTTGGTAGTTTGTTATGTAGTAAAAAAGGGCTTTTAGAACAAATATATAGTTTTAGT # Right flank : GTTTCACCAGCATATCAGGACGTTTTTTCCGCCTTCGCCAGCTCTTTTACCAACGGCAGCATTATCCGCACTACATCGCGGCTACGGCGCTCAATCCGCCCTGGCAGCGCCTTGTCAATATGCTGTTGATTATCAAGCCGTACGTCGTGCCAGCTATTACCGTTCGGGAAGGAGGCATTTTTCACGCGTTGCTGGTATCCGTCTTTTTTACCCAGATTCCAGTTCGTCGCCTCAACAGAAAGCACAGATATTCCCGCTTTATCGAAAACCTCCGCATCATTACAGCAACCCGTTCCTTTGGGGTAGGATGGATTGCGTCCCGGATTGGTGTTGGCGGCGATGCCATAACGGCGCGCAATCGCTAATGCCCGATCGCGGGTCAGTGTACGCACCGCTTCCGGCGTATTTTTCCCGCTATTAAAATAGAGCTTGTCGCCAACAATCAGGTTATCGAGATTAATGACCAGCAGCGTATTTTTCTTCTCAGCGTCACTCATTCG # Questionable array : NO Score: 6.12 # Score Detail : 1:0, 2:3, 3:0, 4:0.98, 5:0, 6:0.25, 7:-0.11, 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 [0-3] 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], //